Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_Position	End_Position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	HGVSc	HGVSp	HGVSp_Short	Transcript_ID	Exon_Number	t_depth	t_ref_count	t_alt_count	n_depth	n_ref_count	n_alt_count	all_effects	Allele	Gene	Feature	Feature_type	Consequence	cDNA_position	CDS_position	Protein_position	Amino_acids	Codons	Existing_variation	ALLELE_NUM	DISTANCE	STRAND	SYMBOL	SYMBOL_SOURCE	HGNC_ID	BIOTYPE	CANONICAL	CCDS	ENSP	SWISSPROT	TREMBL	UNIPARC	RefSeq	SIFT	PolyPhen	EXON	INTRON	DOMAINS	GMAF	AFR_MAF	AMR_MAF	ASN_MAF	EAS_MAF	EUR_MAF	SAS_MAF	AA_MAF	EA_MAF	CLIN_SIG	SOMATIC	PUBMED	MOTIF_NAME	MOTIF_POS	HIGH_INF_POS	MOTIF_SCORE_CHANGE	IMPACT	PICK	VARIANT_CLASS	TSL	HGVS_OFFSET	PHENO	MINIMISED	ExAC_AF	ExAC_AF_AFR	ExAC_AF_AMR	ExAC_AF_EAS	ExAC_AF_FIN	ExAC_AF_NFE	ExAC_AF_OTH	ExAC_AF_SAS	GENE_PHENO	FILTER	COSMIC	CENTERS	CONTEXT	DBVS	NCALLER	Cancer_type
LZTS2	0	.	GRCh37	10	102762232	102762232	+	5'UTR	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-64G>C	.	.	ENST00000370220	1/4	37	22	15	33	33	0	LZTS2,5_prime_UTR_variant,,ENST00000370220,;LZTS2,intron_variant,,ENST00000370223,;LZTS2,intron_variant,,ENST00000429732,;LZTS2,intron_variant,,ENST00000481129,;LZTS2,intron_variant,,ENST00000426584,;LZTS2,intron_variant,,ENST00000454422,;LZTS2,intron_variant,,ENST00000489526,;	C	ENSG00000107816	ENST00000370220	Transcript	5_prime_UTR_variant	3000	.	.	.	.	.	.	.	1	LZTS2	HGNC	29381	protein_coding	YES	CCDS7507.1	ENSP00000359240	LZTS2_HUMAN	S4R3W7_HUMAN,Q9BRY6_HUMAN,B1AL13_HUMAN,B1AL12_HUMAN,B1AL11_HUMAN	UPI00001BD944	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCTGACACC	.	5	BLCA
MCM10	0	.	GRCh37	10	13231065	13231065	+	Missense_Mutation	SNP	C	C	T	rs201257636	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1403C>T	p.Ser468Leu	p.S468L	ENST00000484800	10/20	138	88	50	137	137	0	MCM10,missense_variant,p.Ser468Leu,ENST00000484800,;MCM10,missense_variant,p.Ser467Leu,ENST00000378714,;MCM10,missense_variant,p.Ser467Leu,ENST00000378694,;MCM10,upstream_gene_variant,,ENST00000459751,;	T	ENSG00000065328	ENST00000484800	Transcript	missense_variant	1506	1403	468	S/L	tCg/tTg	rs201257636	.	.	1	MCM10	HGNC	18043	protein_coding	YES	CCDS7096.1	ENSP00000418268	MCM10_HUMAN	C9J600_HUMAN	UPI000013C5E2	.	deleterious(0.02)	benign(0.409)	10/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13454	G:0.0004	G:0	G:0.0029	.	G:0	G:0	G:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCGTATG	byFrequency|byCluster|by1000G	5	BLCA
TCERG1L	0	.	GRCh37	10	132891344	132891344	+	3'UTR	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*81G>A	.	.	ENST00000368642	12/12	25	21	4	35	35	0	TCERG1L,3_prime_UTR_variant,,ENST00000368642,;TCERG1L-AS1,upstream_gene_variant,,ENST00000436942,;TCERG1L,non_coding_transcript_exon_variant,,ENST00000483040,;	T	ENSG00000176769	ENST00000368642	Transcript	3_prime_UTR_variant	1928	.	.	.	.	.	.	.	-1	TCERG1L	HGNC	23533	protein_coding	YES	CCDS7662.2	ENSP00000357631	TCRGL_HUMAN	.	UPI00004589C8	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACGCCCGTGT	.	4	BLCA
CUBN	0	.	GRCh37	10	16967615	16967615	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6430G>C	p.Asp2144His	p.D2144H	ENST00000377833	42/67	44	29	14	44	44	0	CUBN,missense_variant,p.Asp2144His,ENST00000377833,;	G	ENSG00000107611	ENST00000377833	Transcript	missense_variant	6496	6430	2144	D/H	Gat/Cat	.	.	.	-1	CUBN	HGNC	2548	protein_coding	YES	CCDS7113.1	ENSP00000367064	CUBN_HUMAN	B3KQA6_HUMAN	UPI00001AE8F4	.	deleterious(0.01)	probably_damaging(0.995)	42/67	.	PROSITE_profiles:PS01180,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCTCCAT	.	5	BLCA
VIM	0	.	GRCh37	10	17275882	17275882	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.834T>A	p.Ser278Arg	p.S278R	ENST00000544301	5/10	34	26	8	27	27	0	VIM,missense_variant,p.Ser278Arg,ENST00000224237,;VIM,missense_variant,p.Ser104Arg,ENST00000421459,;VIM,missense_variant,p.Ser278Arg,ENST00000544301,;RP11-124N14.3,non_coding_transcript_exon_variant,,ENST00000456355,;VIM-AS1,upstream_gene_variant,,ENST00000605833,;VIM,non_coding_transcript_exon_variant,,ENST00000495528,;VIM,downstream_gene_variant,,ENST00000485947,;VIM,downstream_gene_variant,,ENST00000478746,;VIM,downstream_gene_variant,,ENST00000478317,;VIM,downstream_gene_variant,,ENST00000497849,;VIM,missense_variant,p.Ser96Arg,ENST00000469543,;VIM,missense_variant,p.Ser278Arg,ENST00000487938,;	A	ENSG00000026025	ENST00000544301	Transcript	missense_variant	1247	834	278	S/R	agT/agA	.	.	.	1	VIM	HGNC	12692	protein_coding	YES	CCDS7120.1	ENSP00000446007	VIME_HUMAN	.	UPI00000012EB	.	deleterious(0.01)	benign(0.253)	5/10	.	hmmpanther:PTHR23239:SF27,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAGTGTGGC	.	5	BLCA
ST8SIA6	0	.	GRCh37	10	17362791	17362791	+	3'UTR	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*86G>C	.	.	ENST00000377602	8/8	17	14	3	13	13	0	ST8SIA6,3_prime_UTR_variant,,ENST00000377602,;ST8SIA6,intron_variant,,ENST00000440449,;	G	ENSG00000148488	ENST00000377602	Transcript	3_prime_UTR_variant	1358	.	.	.	.	.	.	.	-1	ST8SIA6	HGNC	23317	protein_coding	YES	CCDS31158.1	ENSP00000366827	SIA8F_HUMAN	.	UPI0000359594	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATACTCTTTAG	.	2	BLCA
STAM	0	.	GRCh37	10	17702518	17702518	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96C>G	p.Ile32Met	p.I32M	ENST00000377524	2/14	82	73	9	88	88	0	STAM,missense_variant,p.Ile32Met,ENST00000377524,;STAM,5_prime_UTR_variant,,ENST00000540523,;STAM,intron_variant,,ENST00000377500,;STAM,missense_variant,p.Ile32Met,ENST00000445846,;	G	ENSG00000136738	ENST00000377524	Transcript	missense_variant	311	96	32	I/M	atC/atG	.	.	.	1	STAM	HGNC	11357	protein_coding	YES	CCDS7122.1	ENSP00000366746	STAM1_HUMAN	C9J1E5_HUMAN,B4DZT2_HUMAN,A6NMU3_HUMAN	UPI000006E278	.	deleterious(0)	probably_damaging(0.984)	2/14	.	PROSITE_profiles:PS50179,hmmpanther:PTHR13856:SF26,hmmpanther:PTHR13856,Pfam_domain:PF00790,Gene3D:1.25.40.90,SMART_domains:SM00288,Superfamily_domains:SSF48464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATATCTGTGA	.	4	BLCA
NSUN6	0	.	GRCh37	10	18940093	18940093	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>A	p.Glu14Lys	p.E14K	ENST00000377304	1/11	151	94	56	115	115	0	NSUN6,missense_variant,p.Glu14Lys,ENST00000377304,;RP11-139J15.7,intron_variant,,ENST00000606425,;ARL5B-AS1,downstream_gene_variant,,ENST00000449529,;ARL5B-AS1,downstream_gene_variant,,ENST00000607346,;ARL5B-AS1,downstream_gene_variant,,ENST00000414939,;ARL5B-AS1,downstream_gene_variant,,ENST00000456217,;ARL5B-AS1,downstream_gene_variant,,ENST00000444660,;	T	ENSG00000241058	ENST00000377304	Transcript	missense_variant	459	40	14	E/K	Gaa/Aaa	.	.	.	-1	NSUN6	HGNC	23529	protein_coding	YES	CCDS7130.1	ENSP00000366519	NSUN6_HUMAN	.	UPI0000073CED	.	tolerated(0.18)	possibly_damaging(0.49)	1/11	.	hmmpanther:PTHR22807:SF31,hmmpanther:PTHR22807	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTTCAACCT	.	5	BLCA
YME1L1	0	.	GRCh37	10	27431370	27431370	+	Nonsense_Mutation	SNP	G	G	A	rs764776574	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547C>T	p.Arg183Ter	p.R183*	ENST00000326799	5/20	187	166	21	179	179	0	YME1L1,stop_gained,p.Arg183Ter,ENST00000326799,;YME1L1,stop_gained,p.Arg118Ter,ENST00000396296,;YME1L1,stop_gained,p.Arg126Ter,ENST00000376016,;YME1L1,intron_variant,,ENST00000375972,;YME1L1,intron_variant,,ENST00000491542,;YME1L1,intron_variant,,ENST00000427324,;YME1L1,downstream_gene_variant,,ENST00000477432,;	A	ENSG00000136758	ENST00000326799	Transcript	stop_gained	696	547	183	R/*	Cga/Tga	rs764776574	.	.	-1	YME1L1	HGNC	12843	protein_coding	YES	CCDS7152.1	ENSP00000318480	YMEL1_HUMAN	.	UPI000013DBDD	.	.	.	5/20	.	HAMAP:MF_01458,hmmpanther:PTHR23076,hmmpanther:PTHR23076:SF37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTCGATACA	.	4	BLCA
SVIL	0	.	GRCh37	10	29812790	29812790	+	Missense_Mutation	SNP	G	G	A	rs745851162	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2753C>T	p.Ser918Leu	p.S918L	ENST00000375398	17/40	118	102	16	101	101	0	SVIL,missense_variant,p.Ser918Leu,ENST00000355867,;SVIL,missense_variant,p.Ser492Leu,ENST00000375400,;SVIL,missense_variant,p.Ser918Leu,ENST00000375398,;SVIL,upstream_gene_variant,,ENST00000535393,;SVIL,upstream_gene_variant,,ENST00000464984,;	A	ENSG00000197321	ENST00000375398	Transcript	missense_variant	3203	2753	918	S/L	tCg/tTg	rs745851162,COSM917569	.	.	-1	SVIL	HGNC	11480	protein_coding	YES	CCDS7164.1	ENSP00000364547	SVIL_HUMAN	Q569J5_HUMAN	UPI0000366678	.	tolerated_low_confidence(0.11)	benign(0.001)	17/40	.	hmmpanther:PTHR11977,hmmpanther:PTHR11977:SF28	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCCGAATTT	byFrequency	4	BLCA
SVIL	0	.	GRCh37	10	29824926	29824926	+	Nonsense_Mutation	SNP	C	C	T	rs773614292	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900G>A	p.Trp300Ter	p.W300*	ENST00000375398	9/40	102	64	37	126	126	0	SVIL,stop_gained,p.Trp300Ter,ENST00000355867,;SVIL,stop_gained,p.Trp300Ter,ENST00000375398,;SVIL,intron_variant,,ENST00000375400,;	T	ENSG00000197321	ENST00000375398	Transcript	stop_gained	1350	900	300	W/*	tgG/tgA	rs773614292	.	.	-1	SVIL	HGNC	11480	protein_coding	YES	CCDS7164.1	ENSP00000364547	SVIL_HUMAN	Q569J5_HUMAN	UPI0000366678	.	.	.	9/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGGCCAGTT	.	5	BLCA
NRP1	0	.	GRCh37	10	33510785	33510785	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1144C>T	p.Gln382Ter	p.Q382*	ENST00000265371	9/18	112	76	36	116	116	0	NRP1,stop_gained,p.Gln382Ter,ENST00000395995,;NRP1,stop_gained,p.Gln382Ter,ENST00000374867,;NRP1,stop_gained,p.Gln382Ter,ENST00000265371,;NRP1,stop_gained,p.Gln201Ter,ENST00000374875,;NRP1,stop_gained,p.Gln382Ter,ENST00000374816,;NRP1,stop_gained,p.Gln382Ter,ENST00000374822,;NRP1,stop_gained,p.Gln382Ter,ENST00000432372,;NRP1,stop_gained,p.Gln382Ter,ENST00000374823,;NRP1,stop_gained,p.Gln382Ter,ENST00000374821,;	A	ENSG00000099250	ENST00000265371	Transcript	stop_gained	1670	1144	382	Q/*	Cag/Tag	.	.	.	-1	NRP1	HGNC	8004	protein_coding	YES	CCDS7177.1	ENSP00000265371	NRP1_HUMAN	Q9H2E0_HUMAN,Q9H2D9_HUMAN,Q9H2D8_HUMAN,Q9H2D7_HUMAN,Q7Z5M2_HUMAN	UPI000013D60A	.	.	.	9/18	.	PROSITE_profiles:PS50022,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF616,Gene3D:2.60.120.260,Pfam_domain:PF00754,PIRSF_domain:PIRSF036960,SMART_domains:SM00231,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTGAAAGA	.	5	BLCA
CUL2	0	.	GRCh37	10	35302690	35302690	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1983G>C	p.Met661Ile	p.M661I	ENST00000537177	19/21	83	79	4	77	77	0	CUL2,missense_variant,p.Met642Ile,ENST00000374748,;CUL2,missense_variant,p.Met661Ile,ENST00000537177,;CUL2,missense_variant,p.Met642Ile,ENST00000374751,;CUL2,missense_variant,p.Met642Ile,ENST00000374742,;CUL2,missense_variant,p.Met585Ile,ENST00000602371,;CUL2,missense_variant,p.Met642Ile,ENST00000374746,;CUL2,missense_variant,p.Met642Ile,ENST00000374749,;CUL2,3_prime_UTR_variant,,ENST00000374754,;	G	ENSG00000108094	ENST00000537177	Transcript	missense_variant	2045	1983	661	M/I	atG/atC	.	.	.	-1	CUL2	HGNC	2552	protein_coding	YES	CCDS55709.1	ENSP00000444856	CUL2_HUMAN	Q5T2B4_HUMAN	UPI0000EE4467	.	tolerated(0.17)	benign(0.037)	19/21	.	hmmpanther:PTHR11932:SF23,hmmpanther:PTHR11932,Pfam_domain:PF00888,Gene3D:1.10.10.10,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGTTCATATT	.	2	BLCA
CUL2	0	.	GRCh37	10	35302719	35302719	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1954G>C	p.Asp652His	p.D652H	ENST00000537177	19/21	72	68	4	62	62	0	CUL2,missense_variant,p.Asp633His,ENST00000374748,;CUL2,missense_variant,p.Asp652His,ENST00000537177,;CUL2,missense_variant,p.Asp633His,ENST00000374751,;CUL2,missense_variant,p.Asp633His,ENST00000374742,;CUL2,missense_variant,p.Asp576His,ENST00000602371,;CUL2,missense_variant,p.Asp633His,ENST00000374746,;CUL2,missense_variant,p.Asp633His,ENST00000374749,;CUL2,3_prime_UTR_variant,,ENST00000374754,;	G	ENSG00000108094	ENST00000537177	Transcript	missense_variant	2016	1954	652	D/H	Gat/Cat	.	.	.	-1	CUL2	HGNC	2552	protein_coding	YES	CCDS55709.1	ENSP00000444856	CUL2_HUMAN	Q5T2B4_HUMAN	UPI0000EE4467	.	tolerated(0.1)	benign(0.323)	19/21	.	hmmpanther:PTHR11932:SF23,hmmpanther:PTHR11932,Pfam_domain:PF00888,Gene3D:1.10.10.10,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCATCAATAT	.	2	BLCA
CUL2	0	.	GRCh37	10	35305141	35305141	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1923G>C	p.Met641Ile	p.M641I	ENST00000537177	18/21	54	50	4	63	63	0	CUL2,missense_variant,p.Met622Ile,ENST00000374748,;CUL2,missense_variant,p.Met641Ile,ENST00000537177,;CUL2,missense_variant,p.Met622Ile,ENST00000374751,;CUL2,missense_variant,p.Met622Ile,ENST00000374742,;CUL2,missense_variant,p.Met565Ile,ENST00000602371,;CUL2,missense_variant,p.Met622Ile,ENST00000374746,;CUL2,missense_variant,p.Met622Ile,ENST00000374749,;CUL2,3_prime_UTR_variant,,ENST00000374754,;	G	ENSG00000108094	ENST00000537177	Transcript	missense_variant	1985	1923	641	M/I	atG/atC	.	.	.	-1	CUL2	HGNC	2552	protein_coding	YES	CCDS55709.1	ENSP00000444856	CUL2_HUMAN	Q5T2B4_HUMAN	UPI0000EE4467	.	tolerated(0.92)	benign(0.022)	18/21	.	hmmpanther:PTHR11932:SF23,hmmpanther:PTHR11932,Pfam_domain:PF00888,Gene3D:1.10.10.10,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAATCATTTT	.	2	BLCA
C10orf53	0	.	GRCh37	10	50901984	50901984	+	Intron	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217+45G>C	.	.	ENST00000374112	.	42	37	5	38	38	0	C10orf53,missense_variant,p.Glu88Gln,ENST00000374113,;C10orf53,intron_variant,,ENST00000374112,;C10orf53,intron_variant,,ENST00000535836,;C10orf53,intron_variant,,ENST00000374111,;CHAT,downstream_gene_variant,,ENST00000455728,;	C	ENSG00000178645	ENST00000374112	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	C10orf53	HGNC	27421	protein_coding	YES	CCDS31202.1	ENSP00000363226	CJ053_HUMAN	.	UPI00001406B3	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTGAGGAG	.	2	BLCA
PCDH15	0	.	GRCh37	10	56077178	56077178	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729G>C	p.Glu243Asp	p.E243D	ENST00000361849	8/34	137	104	33	127	127	0	PCDH15,missense_variant,p.Glu243Asp,ENST00000437009,;PCDH15,missense_variant,p.Glu221Asp,ENST00000395433,;PCDH15,missense_variant,p.Glu243Asp,ENST00000395445,;PCDH15,missense_variant,p.Glu243Asp,ENST00000320301,;PCDH15,missense_variant,p.Glu206Asp,ENST00000395432,;PCDH15,missense_variant,p.Glu243Asp,ENST00000373955,;PCDH15,missense_variant,p.Glu221Asp,ENST00000373957,;PCDH15,missense_variant,p.Glu243Asp,ENST00000395440,;PCDH15,missense_variant,p.Glu243Asp,ENST00000361849,;PCDH15,missense_variant,p.Glu243Asp,ENST00000395438,;PCDH15,missense_variant,p.Glu243Asp,ENST00000395446,;PCDH15,missense_variant,p.Glu243Asp,ENST00000395442,;PCDH15,missense_variant,p.Glu248Asp,ENST00000414778,;PCDH15,missense_variant,p.Glu243Asp,ENST00000373965,;PCDH15,missense_variant,p.Glu243Asp,ENST00000395430,;PCDH15,intron_variant,,ENST00000409834,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,missense_variant,p.Glu243Asp,ENST00000448885,;PCDH15,missense_variant,p.Glu243Asp,ENST00000414367,;PCDH15,intron_variant,,ENST00000373956,;	G	ENSG00000150275	ENST00000361849	Transcript	missense_variant	1124	729	243	E/D	gaG/gaC	.	.	.	-1	PCDH15	HGNC	14674	protein_coding	YES	CCDS44404.1	ENSP00000354950	.	A2A3E7_HUMAN,A2A3D9_HUMAN	UPI0000EE048B	.	tolerated(0.38)	benign(0.09)	8/34	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.R245*|c.733C>T|3,BUFFER|p.R250*|c.748C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCTCTCATT	.	5	BLCA
BICC1	0	.	GRCh37	10	60549181	60549181	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.760G>C	p.Val254Leu	p.V254L	ENST00000373886	7/21	147	136	11	116	116	0	BICC1,missense_variant,p.Val254Leu,ENST00000373886,;BICC1,upstream_gene_variant,,ENST00000263103,;	C	ENSG00000122870	ENST00000373886	Transcript	missense_variant	764	760	254	V/L	Gta/Cta	.	.	.	1	BICC1	HGNC	19351	protein_coding	YES	CCDS31206.1	ENSP00000362993	BICC1_HUMAN	.	UPI000059D156	.	deleterious(0.03)	benign(0.034)	7/21	.	hmmpanther:PTHR10627,hmmpanther:PTHR10627:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	TCATAGTACGA	.	3	BLCA
BICC1	0	.	GRCh37	10	60553243	60553243	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048-1G>A	.	p.X350_splice	ENST00000373886	.	77	69	8	52	52	0	BICC1,splice_acceptor_variant,,ENST00000373886,;BICC1,upstream_gene_variant,,ENST00000263103,;	A	ENSG00000122870	ENST00000373886	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	BICC1	HGNC	19351	protein_coding	YES	CCDS31206.1	ENSP00000362993	BICC1_HUMAN	.	UPI000059D156	.	.	.	.	8/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTAGGGTTG	.	4	BLCA
CCDC6	0	.	GRCh37	10	61666071	61666071	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>A	p.Gly38Arg	p.G38R	ENST00000263102	1/9	32	26	6	36	36	0	CCDC6,missense_variant,p.Gly38Arg,ENST00000263102,;	T	ENSG00000108091	ENST00000263102	Transcript	missense_variant	344	112	38	G/R	Ggg/Agg	.	.	.	-1	CCDC6	HGNC	18782	protein_coding	YES	CCDS7257.1	ENSP00000263102	CCDC6_HUMAN	.	UPI000035B25A	.	tolerated_low_confidence(0.12)	benign(0.242)	1/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15276:SF0,hmmpanther:PTHR15276,Pfam_domain:PF09755	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TCCCCCGCCGC	.	2	BLCA
MYPN	0	.	GRCh37	10	69959296	69959296	+	Missense_Mutation	SNP	G	G	A	rs763805681	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3457G>A	p.Gly1153Arg	p.G1153R	ENST00000358913	17/20	73	60	13	61	61	0	MYPN,missense_variant,p.Gly1153Arg,ENST00000358913,;MYPN,missense_variant,p.Gly1153Arg,ENST00000540630,;MYPN,missense_variant,p.Gly878Arg,ENST00000354393,;	A	ENSG00000138347	ENST00000358913	Transcript	missense_variant	3945	3457	1153	G/R	Ggg/Agg	rs763805681	.	.	1	MYPN	HGNC	23246	protein_coding	YES	CCDS7275.1	ENSP00000351790	MYPN_HUMAN	A5PKT7_HUMAN	UPI00002288CF	.	deleterious(0)	probably_damaging(1)	17/20	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00408,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR19897,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACCGGGCAG	.	5	BLCA
HNRNPH3	0	.	GRCh37	10	70101390	70101390	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824C>G	p.Ser275Cys	p.S275C	ENST00000265866	8/10	125	115	10	97	97	0	HNRNPH3,missense_variant,p.Ser260Cys,ENST00000354695,;HNRNPH3,missense_variant,p.Ser167Cys,ENST00000441000,;HNRNPH3,missense_variant,p.Ser275Cys,ENST00000265866,;RUFY2,intron_variant,,ENST00000463210,;RUFY2,downstream_gene_variant,,ENST00000265865,;RUFY2,downstream_gene_variant,,ENST00000388768,;RUFY2,downstream_gene_variant,,ENST00000602465,;HNRNPH3,non_coding_transcript_exon_variant,,ENST00000478698,;HNRNPH3,non_coding_transcript_exon_variant,,ENST00000490442,;HNRNPH3,non_coding_transcript_exon_variant,,ENST00000491200,;HNRNPH3,non_coding_transcript_exon_variant,,ENST00000469172,;HNRNPH3,non_coding_transcript_exon_variant,,ENST00000481819,;RUFY2,intron_variant,,ENST00000484083,;HNRNPH3,downstream_gene_variant,,ENST00000461310,;HNRNPH3,downstream_gene_variant,,ENST00000480987,;HNRNPH3,downstream_gene_variant,,ENST00000486854,;HNRNPH3,downstream_gene_variant,,ENST00000467249,;RUFY2,downstream_gene_variant,,ENST00000473398,;RUFY2,intron_variant,,ENST00000466493,;RUFY2,downstream_gene_variant,,ENST00000466187,;	G	ENSG00000096746	ENST00000265866	Transcript	missense_variant	989	824	275	S/C	tCt/tGt	.	.	.	1	HNRNPH3	HGNC	5043	protein_coding	YES	CCDS7278.1	ENSP00000265866	HNRH3_HUMAN	.	UPI0000134539	.	deleterious(0.02)	unknown(0)	8/10	.	Superfamily_domains:SSF54928,Gene3D:3.30.70.330,hmmpanther:PTHR13976,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGCTCTGGCA	.	2	BLCA
COL13A1	0	.	GRCh37	10	71631937	71631937	+	Intron	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.373-3C>T	.	.	ENST00000398978	.	32	25	7	48	48	0	COL13A1,stop_gained,p.Gln124Ter,ENST00000398964,;COL13A1,stop_gained,p.Gln124Ter,ENST00000398971,;COL13A1,stop_gained,p.Gln124Ter,ENST00000398966,;COL13A1,stop_gained,p.Gln124Ter,ENST00000398968,;COL13A1,stop_gained,p.Gln124Ter,ENST00000398974,;COL13A1,stop_gained,p.Gln124Ter,ENST00000356340,;COL13A1,splice_region_variant,,ENST00000517713,;COL13A1,splice_region_variant,,ENST00000354547,;COL13A1,splice_region_variant,,ENST00000398978,;COL13A1,splice_region_variant,,ENST00000398973,;COL13A1,splice_region_variant,,ENST00000520133,;COL13A1,splice_region_variant,,ENST00000522165,;COL13A1,splice_region_variant,,ENST00000398972,;COL13A1,splice_region_variant,,ENST00000357811,;COL13A1,intron_variant,,ENST00000398969,;COL13A1,intron_variant,,ENST00000520267,;COL13A1,splice_region_variant,,ENST00000479733,;	T	ENSG00000197467	ENST00000398978	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	COL13A1	HGNC	2190	protein_coding	YES	CCDS44419.1	ENSP00000381949	CODA1_HUMAN	Q9UP45_HUMAN	UPI000046FD72	.	.	.	.	3/39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTCAGGGT	.	5	BLCA
VCL	0	.	GRCh37	10	75849089	75849089	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1158G>T	p.Lys386Asn	p.K386N	ENST00000211998	9/22	91	85	6	46	46	0	VCL,missense_variant,p.Lys58Asn,ENST00000436396,;VCL,missense_variant,p.Lys386Asn,ENST00000211998,;VCL,missense_variant,p.Lys386Asn,ENST00000372755,;VCL,intron_variant,,ENST00000417648,;VCL,intron_variant,,ENST00000478896,;	T	ENSG00000035403	ENST00000211998	Transcript	missense_variant	1252	1158	386	K/N	aaG/aaT	.	.	.	1	VCL	HGNC	12665	protein_coding	YES	CCDS7341.1	ENSP00000211998	VINC_HUMAN	Q5JQ13_HUMAN	UPI0000167B54	.	tolerated(1)	possibly_damaging(0.751)	9/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18914:SF22,hmmpanther:PTHR18914,Pfam_domain:PF01044,Superfamily_domains:SSF47220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCAAAGAAGAT	.	2	BLCA
SAMD8	0	.	GRCh37	10	76910813	76910813	+	Missense_Mutation	SNP	G	G	A	rs765780958	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527G>A	p.Arg176Gln	p.R176Q	ENST00000542569	2/6	146	136	10	75	75	0	SAMD8,missense_variant,p.Arg176Gln,ENST00000542569,;SAMD8,missense_variant,p.Arg176Gln,ENST00000447533,;SAMD8,missense_variant,p.Arg176Gln,ENST00000372687,;SAMD8,missense_variant,p.Arg239Gln,ENST00000372690,;	A	ENSG00000156671	ENST00000542569	Transcript	missense_variant	630	527	176	R/Q	cGa/cAa	rs765780958	.	.	1	SAMD8	HGNC	26320	protein_coding	YES	CCDS53543.1	ENSP00000438042	SAMD8_HUMAN	Q5JSC9_HUMAN	UPI000023FEEB	.	deleterious(0)	probably_damaging(0.989)	2/6	.	hmmpanther:PTHR21290:SF25,hmmpanther:PTHR21290	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAGCGAGTGC	.	2	BLCA
KIN	0	.	GRCh37	10	7798086	7798086	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1139G>A	p.Arg380Lys	p.R380K	ENST00000379562	13/13	85	73	12	72	72	0	KIN,missense_variant,p.Arg380Lys,ENST00000379562,;KIN,intron_variant,,ENST00000535925,;KIN,downstream_gene_variant,,ENST00000543003,;KIN,non_coding_transcript_exon_variant,,ENST00000463666,;KIN,non_coding_transcript_exon_variant,,ENST00000471320,;KIN,intron_variant,,ENST00000498098,;	T	ENSG00000151657	ENST00000379562	Transcript	missense_variant	1187	1139	380	R/K	aGa/aAa	.	.	.	-1	KIN	HGNC	6327	protein_coding	YES	CCDS7080.1	ENSP00000368881	KIN17_HUMAN	.	UPI00000315C2	.	tolerated(0.24)	benign(0)	13/13	.	hmmpanther:PTHR12805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCTGCGT	.	5	BLCA
LARP4B	0	.	GRCh37	10	859104	859104	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1979A>G	p.Glu660Gly	p.E660G	ENST00000316157	17/17	79	58	20	66	66	0	LARP4B,missense_variant,p.Glu660Gly,ENST00000316157,;LARP4B,missense_variant,p.Glu261Gly,ENST00000448368,;LARP4B,downstream_gene_variant,,ENST00000440895,;LARP4B,downstream_gene_variant,,ENST00000469487,;LARP4B,non_coding_transcript_exon_variant,,ENST00000609318,;LARP4B,downstream_gene_variant,,ENST00000608970,;	C	ENSG00000107929	ENST00000316157	Transcript	missense_variant	2020	1979	660	E/G	gAg/gGg	.	.	.	-1	LARP4B	HGNC	28987	protein_coding	YES	CCDS31131.1	ENSP00000326128	LAR4B_HUMAN	B5MCU2_HUMAN	UPI00001F8C87	.	deleterious(0.02)	benign(0.066)	17/17	.	hmmpanther:PTHR22792,hmmpanther:PTHR22792:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGCTCTTTA	.	5	BLCA
MINPP1	0	.	GRCh37	10	89268224	89268224	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769G>C	p.Glu257Gln	p.E257Q	ENST00000371996	2/5	106	93	12	85	85	0	MINPP1,missense_variant,p.Glu257Gln,ENST00000371996,;MINPP1,missense_variant,p.Glu56Gln,ENST00000536010,;MINPP1,missense_variant,p.Glu257Gln,ENST00000371994,;	C	ENSG00000107789	ENST00000371996	Transcript	missense_variant	810	769	257	E/Q	Gaa/Caa	.	.	.	1	MINPP1	HGNC	7102	protein_coding	YES	CCDS7384.1	ENSP00000361064	MINP1_HUMAN	B4E394_HUMAN	UPI0000035984	.	deleterious(0.02)	probably_damaging(0.951)	2/5	.	hmmpanther:PTHR20963,hmmpanther:PTHR20963:SF8,Pfam_domain:PF00328,Gene3D:3.40.50.1240,PIRSF_domain:PIRSF000894,Superfamily_domains:SSF53254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCAGAAATG	.	4	BLCA
MMS19	0	.	GRCh37	10	99240789	99240789	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172G>A	p.Glu58Lys	p.E58K	ENST00000438925	3/31	17	13	3	13	13	0	MMS19,missense_variant,p.Glu58Lys,ENST00000437002,;MMS19,missense_variant,p.Glu58Lys,ENST00000422685,;MMS19,missense_variant,p.Glu58Lys,ENST00000355839,;MMS19,missense_variant,p.Glu58Lys,ENST00000370782,;MMS19,missense_variant,p.Glu58Lys,ENST00000438925,;MMS19,missense_variant,p.Glu58Lys,ENST00000327238,;MMS19,5_prime_UTR_variant,,ENST00000327277,;AL355490.2,upstream_gene_variant,,ENST00000577864,;MMS19,non_coding_transcript_exon_variant,,ENST00000483626,;MMS19,missense_variant,p.Glu56Lys,ENST00000448660,;MMS19,missense_variant,p.Glu58Lys,ENST00000439048,;MMS19,stop_retained_variant,p.%3D,ENST00000415383,;MMS19,stop_retained_variant,p.%3D,ENST00000441194,;MMS19,non_coding_transcript_exon_variant,,ENST00000477575,;	T	ENSG00000155229	ENST00000438925	Transcript	missense_variant	508	172	58	E/K	Gag/Aag	.	.	.	-1	MMS19	HGNC	13824	protein_coding	YES	CCDS7464.1	ENSP00000412698	MMS19_HUMAN	.	UPI000013DDF7	.	tolerated(0.15)	benign(0.045)	3/31	.	hmmpanther:PTHR12891,Pfam_domain:PF14500,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ATTCTCTAGAG	.	4	BLCA
UBTD1	0	.	GRCh37	10	99329961	99329961	+	Missense_Mutation	SNP	C	C	T	rs746293748	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.365C>T	p.Pro122Leu	p.P122L	ENST00000370664	3/3	80	75	5	98	98	0	UBTD1,missense_variant,p.Pro122Leu,ENST00000370664,;ANKRD2,upstream_gene_variant,,ENST00000307518,;ANKRD2,upstream_gene_variant,,ENST00000370655,;ANKRD2,upstream_gene_variant,,ENST00000298808,;ANKRD2,upstream_gene_variant,,ENST00000455090,;	T	ENSG00000165886	ENST00000370664	Transcript	missense_variant	701	365	122	P/L	cCg/cTg	rs746293748	.	.	1	UBTD1	HGNC	25683	protein_coding	YES	CCDS7465.1	ENSP00000359698	UBTD1_HUMAN	.	UPI000003772A	.	tolerated(0.23)	probably_damaging(0.999)	3/3	.	hmmpanther:PTHR13609,hmmpanther:PTHR13609:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCACCGCCGG	.	2	BLCA
MMP10	0	.	GRCh37	11	102642783	102642783	+	Silent	SNP	T	T	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1290A>T	p.%3D	p.P430P	ENST00000279441	9/10	70	39	30	73	73	0	MMP10,synonymous_variant,p.%3D,ENST00000279441,;WTAPP1,intron_variant,,ENST00000371455,;AP000647.3,upstream_gene_variant,,ENST00000535634,;	A	ENSG00000166670	ENST00000279441	Transcript	synonymous_variant	1327	1290	430	P	ccA/ccT	.	.	.	-1	MMP10	HGNC	7156	protein_coding	YES	CCDS8321.1	ENSP00000279441	MMP10_HUMAN	.	UPI00000422C0	.	.	.	9/10	.	PROSITE_profiles:PS51642,hmmpanther:PTHR10201:SF126,hmmpanther:PTHR10201,Pfam_domain:PF00045,Gene3D:2.110.10.10,PIRSF_domain:PIRSF001191,SMART_domains:SM00120,Superfamily_domains:SSF50923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCCTGGAAA	.	5	BLCA
UBE4A	0	.	GRCh37	11	118245802	118245802	+	Silent	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1329G>C	p.%3D	p.L443L	ENST00000431736	9/20	73	60	12	66	66	0	UBE4A,synonymous_variant,p.%3D,ENST00000252108,;UBE4A,synonymous_variant,p.%3D,ENST00000431736,;UBE4A,upstream_gene_variant,,ENST00000545354,;	C	ENSG00000110344	ENST00000431736	Transcript	synonymous_variant	1401	1329	443	L	ctG/ctC	.	.	.	1	UBE4A	HGNC	12499	protein_coding	YES	CCDS8396.1	ENSP00000387362	UBE4A_HUMAN	B7Z7P0_HUMAN	UPI000013CD3F	.	.	.	9/20	.	hmmpanther:PTHR13931,hmmpanther:PTHR13931:SF2,Pfam_domain:PF10408	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTGAATCT	.	5	BLCA
TRAPPC4	0	.	GRCh37	11	118894139	118894139	+	3'UTR	SNP	G	G	A	rs782209665	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*30G>A	.	.	ENST00000533632	5/5	62	51	10	69	69	0	TRAPPC4,3_prime_UTR_variant,,ENST00000533632,;TRAPPC4,3_prime_UTR_variant,,ENST00000359005,;TRAPPC4,3_prime_UTR_variant,,ENST00000434101,;TRAPPC4,3_prime_UTR_variant,,ENST00000525303,;TRAPPC4,intron_variant,,ENST00000533058,;TRAPPC4,downstream_gene_variant,,ENST00000528230,;SLC37A4,downstream_gene_variant,,ENST00000357590,;SLC37A4,downstream_gene_variant,,ENST00000330775,;RPS25,upstream_gene_variant,,ENST00000527673,;SLC37A4,downstream_gene_variant,,ENST00000545985,;SLC37A4,downstream_gene_variant,,ENST00000538950,;MIR3656,downstream_gene_variant,,ENST00000577421,;SLC37A4,downstream_gene_variant,,ENST00000527992,;SLC37A4,downstream_gene_variant,,ENST00000525039,;SLC37A4,downstream_gene_variant,,ENST00000530407,;SLC37A4,downstream_gene_variant,,ENST00000534384,;SLC37A4,downstream_gene_variant,,ENST00000525102,;SLC37A4,downstream_gene_variant,,ENST00000529510,;SLC37A4,downstream_gene_variant,,ENST00000526626,;SLC37A4,downstream_gene_variant,,ENST00000525372,;TRAPPC4,downstream_gene_variant,,ENST00000526141,;TRAPPC4,3_prime_UTR_variant,,ENST00000533012,;TRAPPC4,non_coding_transcript_exon_variant,,ENST00000524797,;TRAPPC4,non_coding_transcript_exon_variant,,ENST00000531290,;TRAPPC4,non_coding_transcript_exon_variant,,ENST00000533149,;SLC37A4,downstream_gene_variant,,ENST00000532085,;TRAPPC4,downstream_gene_variant,,ENST00000525079,;TRAPPC4,downstream_gene_variant,,ENST00000527680,;RPS25,upstream_gene_variant,,ENST00000527791,;TRAPPC4,downstream_gene_variant,,ENST00000447216,;SLC37A4,downstream_gene_variant,,ENST00000532888,;SLC37A4,downstream_gene_variant,,ENST00000524428,;RPS25,upstream_gene_variant,,ENST00000524864,;SLC37A4,downstream_gene_variant,,ENST00000526275,;RPS25,upstream_gene_variant,,ENST00000527853,;SLC37A4,downstream_gene_variant,,ENST00000525787,;	A	ENSG00000196655	ENST00000533632	Transcript	3_prime_UTR_variant	1054	.	.	.	.	rs782209665	.	.	1	TRAPPC4	HGNC	19943	protein_coding	YES	CCDS8407.1	ENSP00000436005	TPPC4_HUMAN	G3V1A0_HUMAN	UPI0000052E23	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTGAGAGT	.	2	BLCA
C1QTNF5	0	.	GRCh37	11	119210243	119210243	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530C>G	p.Ser177Cys	p.S177C	ENST00000445041	15/15	57	39	18	54	54	0	C1QTNF5,missense_variant,p.Ser177Cys,ENST00000528368,;C1QTNF5,missense_variant,p.Ser177Cys,ENST00000445041,;MFRP,3_prime_UTR_variant,,ENST00000555262,;RNF26,downstream_gene_variant,,ENST00000311413,;MFRP,downstream_gene_variant,,ENST00000360167,;MFRP,downstream_gene_variant,,ENST00000449574,;RP11-334E6.10,upstream_gene_variant,,ENST00000501918,;C1QTNF5,non_coding_transcript_exon_variant,,ENST00000525657,;MFRP,3_prime_UTR_variant,,ENST00000530681,;	C	ENSG00000223953	ENST00000445041	Transcript	missense_variant	3326	530	177	S/C	tCt/tGt	.	.	.	-1	C1QTNF5	HGNC	14344	protein_coding	YES	CCDS8420.1	ENSP00000402389	C1QT5_HUMAN	.	UPI000003553A	.	tolerated(0.07)	probably_damaging(0.998)	15/15	.	Superfamily_domains:SSF49842,SMART_domains:SM00110,Pfam_domain:PF00386,Gene3D:2.60.120.40,hmmpanther:PTHR24022:SF30,hmmpanther:PTHR24022,PROSITE_profiles:PS50871	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAGAGGCA	.	5	BLCA
ARHGEF12	0	.	GRCh37	11	120336053	120336053	+	Silent	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2721A>G	p.%3D	p.R907R	ENST00000397843	28/41	51	35	16	72	72	0	ARHGEF12,synonymous_variant,p.%3D,ENST00000532993,;ARHGEF12,synonymous_variant,p.%3D,ENST00000397843,;ARHGEF12,synonymous_variant,p.%3D,ENST00000356641,;ARHGEF12,non_coding_transcript_exon_variant,,ENST00000531616,;ARHGEF12,non_coding_transcript_exon_variant,,ENST00000530747,;ARHGEF12,non_coding_transcript_exon_variant,,ENST00000529970,;	G	ENSG00000196914	ENST00000397843	Transcript	synonymous_variant	2887	2721	907	R	cgA/cgG	.	.	.	1	ARHGEF12	HGNC	14193	protein_coding	YES	CCDS41727.1	ENSP00000380942	ARHGC_HUMAN	E9PMR6_HUMAN	UPI00000708ED	.	.	.	28/41	.	Superfamily_domains:SSF48065,SMART_domains:SM00325,Gene3D:1.20.900.10,Pfam_domain:PF00621,hmmpanther:PTHR22825,hmmpanther:PTHR22825:SF8,PROSITE_profiles:PS50010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCGATTTCA	.	5	BLCA
PATE2	0	.	GRCh37	11	125648651	125648651	+	Silent	SNP	G	G	C	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18C>G	p.%3D	p.L6L	ENST00000358524	1/4	33	30	3	31	31	0	PATE2,synonymous_variant,p.%3D,ENST00000358524,;PATE2,synonymous_variant,p.%3D,ENST00000436890,;	C	ENSG00000196844	ENST00000358524	Transcript	synonymous_variant	64	18	6	L	ctC/ctG	COSM3444987	.	.	-1	PATE2	HGNC	32249	protein_coding	YES	CCDS8465.1	ENSP00000351325	PATE2_HUMAN	.	UPI0000198EDC	.	.	.	1/4	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCAGGAGAAA	.	2	BLCA
ST14	0	.	GRCh37	11	130066490	130066490	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1249G>A	p.Val417Ile	p.V417I	ENST00000278742	11/19	22	18	3	38	38	0	ST14,missense_variant,p.Val417Ile,ENST00000278742,;ST14,non_coding_transcript_exon_variant,,ENST00000530376,;ST14,non_coding_transcript_exon_variant,,ENST00000524718,;ST14,downstream_gene_variant,,ENST00000530532,;	A	ENSG00000149418	ENST00000278742	Transcript	missense_variant	1667	1249	417	V/I	Gtc/Atc	.	.	.	1	ST14	HGNC	11344	protein_coding	YES	CCDS8487.1	ENSP00000278742	ST14_HUMAN	Q8WVC1_HUMAN	UPI00000012E9	.	tolerated(0.07)	possibly_damaging(0.564)	11/19	.	Superfamily_domains:SSF49854,SMART_domains:SM00042,PIRSF_domain:PIRSF036370,Gene3D:2.60.120.290,Pfam_domain:PF00431,hmmpanther:PTHR24256:SF20,hmmpanther:PTHR24256,PROSITE_profiles:PS01180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTTCGTCGTC	.	4	BLCA
PTH	0	.	GRCh37	11	13514074	13514074	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226G>A	p.Asp76Asn	p.D76N	ENST00000282091	3/3	59	50	9	71	71	0	PTH,missense_variant,p.Asp76Asn,ENST00000282091,;PTH,missense_variant,p.Asp76Asn,ENST00000529816,;RP11-15D14.2,downstream_gene_variant,,ENST00000532318,;	T	ENSG00000152266	ENST00000282091	Transcript	missense_variant	341	226	76	D/N	Gat/Aat	.	.	.	-1	PTH	HGNC	9606	protein_coding	YES	CCDS7812.1	ENSP00000282091	PTHY_HUMAN	.	UPI000013290A	.	tolerated(0.14)	benign(0.026)	3/3	.	hmmpanther:PTHR10541:SF2,hmmpanther:PTHR10541,Pfam_domain:PF01279,PIRSF_domain:PIRSF001832	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AGCATCTCTGG	.	3	BLCA
CYP2R1	0	.	GRCh37	11	14899713	14899713	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1461G>C	p.Met487Ile	p.M487I	ENST00000334636	5/5	86	42	43	112	112	0	CYP2R1,missense_variant,p.Met254Ile,ENST00000532378,;CYP2R1,missense_variant,p.Met487Ile,ENST00000334636,;CYP2R1,downstream_gene_variant,,ENST00000529043,;CYP2R1,downstream_gene_variant,,ENST00000526489,;CYP2R1,downstream_gene_variant,,ENST00000532641,;CYP2R1,downstream_gene_variant,,ENST00000526276,;CYP2R1,3_prime_UTR_variant,,ENST00000534686,;CYP2R1,3_prime_UTR_variant,,ENST00000530609,;CYP2R1,3_prime_UTR_variant,,ENST00000532805,;CYP2R1,3_prime_UTR_variant,,ENST00000525015,;	G	ENSG00000186104	ENST00000334636	Transcript	missense_variant	1508	1461	487	M/I	atG/atC	.	.	.	-1	CYP2R1	HGNC	20580	protein_coding	YES	CCDS7818.1	ENSP00000334592	CP2R1_HUMAN	.	UPI000003F04B	.	tolerated(0.55)	probably_damaging(0.997)	5/5	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF48,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGTCATGCC	.	5	BLCA
USH1C	0	.	GRCh37	11	17531045	17531045	+	Missense_Mutation	SNP	G	G	A	rs778700091	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1871C>T	p.Ser624Leu	p.S624L	ENST00000005226	18/27	27	23	4	53	53	0	USH1C,missense_variant,p.Ser624Leu,ENST00000005226,;USH1C,intron_variant,,ENST00000527720,;USH1C,intron_variant,,ENST00000318024,;USH1C,intron_variant,,ENST00000527020,;USH1C,intron_variant,,ENST00000529563,;USH1C,downstream_gene_variant,,ENST00000530700,;USH1C,intron_variant,,ENST00000526313,;	A	ENSG00000006611	ENST00000005226	Transcript	missense_variant	1871	1871	624	S/L	tCg/tTg	rs778700091	.	.	-1	USH1C	HGNC	12597	protein_coding	YES	CCDS7825.1	ENSP00000005226	USH1C_HUMAN	.	UPI00001D965A	.	tolerated_low_confidence(0.12)	benign(0.021)	18/27	.	hmmpanther:PTHR23116:SF32,hmmpanther:PTHR23116	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGCCGAGGGC	.	4	BLCA
TSG101	0	.	GRCh37	11	18548331	18548331	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33G>A	p.Met11Ile	p.M11I	ENST00000251968	1/10	13	5	8	21	21	0	TSG101,missense_variant,p.Met11Ile,ENST00000536719,;TSG101,missense_variant,p.Met11Ile,ENST00000251968,;TSG101,missense_variant,p.Met11Ile,ENST00000357193,;UEVLD,downstream_gene_variant,,ENST00000535484,;UEVLD,downstream_gene_variant,,ENST00000396197,;UEVLD,downstream_gene_variant,,ENST00000320750,;UEVLD,downstream_gene_variant,,ENST00000543987,;TSG101,non_coding_transcript_exon_variant,,ENST00000544804,;TSG101,non_coding_transcript_exon_variant,,ENST00000542488,;TSG101,non_coding_transcript_exon_variant,,ENST00000438874,;TSG101,non_coding_transcript_exon_variant,,ENST00000535077,;UEVLD,downstream_gene_variant,,ENST00000540666,;TSG101,non_coding_transcript_exon_variant,,ENST00000545247,;	T	ENSG00000074319	ENST00000251968	Transcript	missense_variant	449	33	11	M/I	atG/atA	.	.	.	-1	TSG101	HGNC	15971	protein_coding	YES	CCDS7842.1	ENSP00000251968	TS101_HUMAN	L0L6B6_HUMAN,J3QRU6_HUMAN,D3DQY6_HUMAN	UPI000004750C	.	tolerated(0.37)	benign(0.001)	1/10	.	PROSITE_profiles:PS51322,hmmpanther:PTHR23306:SF17,hmmpanther:PTHR23306,Gene3D:3.10.110.10,Superfamily_domains:SSF54495	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	GACACCATTTT	.	4	BLCA
TRPM5	0	.	GRCh37	11	2426092	2426092	+	3'UTR	SNP	C	C	A	rs536895776	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*75G>T	.	.	ENST00000155858	24/24	11	5	6	15	15	0	TRPM5,3_prime_UTR_variant,,ENST00000533881,;TRPM5,3_prime_UTR_variant,,ENST00000452833,;TRPM5,3_prime_UTR_variant,,ENST00000155858,;TRPM5,downstream_gene_variant,,ENST00000533060,;TSSC4,downstream_gene_variant,,ENST00000451491,;TSSC4,downstream_gene_variant,,ENST00000496468,;TSSC4,downstream_gene_variant,,ENST00000437110,;TSSC4,downstream_gene_variant,,ENST00000380992,;TSSC4,downstream_gene_variant,,ENST00000435795,;TSSC4,downstream_gene_variant,,ENST00000485682,;TSSC4,downstream_gene_variant,,ENST00000440813,;TRPM5,downstream_gene_variant,,ENST00000528453,;TSSC4,downstream_gene_variant,,ENST00000380996,;TSSC4,downstream_gene_variant,,ENST00000333256,;AC124057.5,intron_variant,,ENST00000433035,;TSSC4,downstream_gene_variant,,ENST00000467308,;	A	ENSG00000070985	ENST00000155858	Transcript	3_prime_UTR_variant	3582	.	.	.	.	rs536895776	.	.	-1	TRPM5	HGNC	14323	protein_coding	YES	CCDS31340.1	ENSP00000155858	TRPM5_HUMAN	.	UPI000003B069	.	.	.	24/24	.	.	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGGTCGGCAA	byCluster|by1000G	3	BLCA
TCP11L1	0	.	GRCh37	11	33079675	33079675	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628C>T	p.Pro210Ser	p.P210S	ENST00000334274	5/10	32	26	6	36	35	1	TCP11L1,missense_variant,p.Pro210Ser,ENST00000531632,;TCP11L1,missense_variant,p.Pro210Ser,ENST00000432887,;TCP11L1,missense_variant,p.Pro210Ser,ENST00000334274,;TCP11L1,downstream_gene_variant,,ENST00000530419,;TCP11L1,downstream_gene_variant,,ENST00000602733,;TCP11L1,upstream_gene_variant,,ENST00000324357,;TCP11L1,downstream_gene_variant,,ENST00000530171,;TCP11L1,missense_variant,p.Pro210Ser,ENST00000527661,;TCP11L1,3_prime_UTR_variant,,ENST00000528107,;	T	ENSG00000176148	ENST00000334274	Transcript	missense_variant	1028	628	210	P/S	Ccc/Tcc	.	.	.	1	TCP11L1	HGNC	25655	protein_coding	YES	CCDS7882.1	ENSP00000335595	T11L1_HUMAN	R4GNF5_HUMAN,E9PS88_HUMAN,E9PP52_HUMAN	UPI0000071A1F	.	deleterious(0.03)	benign(0.362)	5/10	.	Pfam_domain:PF05794,hmmpanther:PTHR12832:SF15,hmmpanther:PTHR12832	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGTGCCCCTT	.	2	BLCA
CKAP5	0	.	GRCh37	11	46806182	46806182	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2010G>A	p.%3D	p.Q670Q	ENST00000529230	17/44	89	70	19	90	90	0	CKAP5,synonymous_variant,p.%3D,ENST00000415402,;CKAP5,synonymous_variant,p.%3D,ENST00000354558,;CKAP5,synonymous_variant,p.%3D,ENST00000312055,;CKAP5,synonymous_variant,p.%3D,ENST00000529230,;CKAP5,non_coding_transcript_exon_variant,,ENST00000528593,;	T	ENSG00000175216	ENST00000529230	Transcript	synonymous_variant	2057	2010	670	Q	caG/caA	.	.	.	-1	CKAP5	HGNC	28959	protein_coding	YES	CCDS31477.1	ENSP00000432768	CKAP5_HUMAN	E9PQH5_HUMAN	UPI000013F21E	.	.	.	17/44	.	hmmpanther:PTHR12609:SF0,hmmpanther:PTHR12609,Gene3D:1.25.10.10,Superfamily_domains:SSF48371,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCTGGGC	.	5	BLCA
OR5D18	0	.	GRCh37	11	55587789	55587789	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684G>A	p.%3D	p.K228K	ENST00000333976	1/1	85	66	19	86	86	0	OR5D18,synonymous_variant,p.%3D,ENST00000333976,;	A	ENSG00000186119	ENST00000333976	Transcript	synonymous_variant	704	684	228	K	aaG/aaA	.	.	.	1	OR5D18	HGNC	15285	protein_coding	YES	CCDS31510.1	ENSP00000335025	OR5DI_HUMAN	.	UPI0000046197	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF86,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAAGATGCG	.	5	BLCA
OR5A2	0	.	GRCh37	11	59189680	59189680	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.747G>A	p.%3D	p.V249V	ENST00000302040	1/1	48	44	4	41	41	0	OR5A2,synonymous_variant,p.%3D,ENST00000302040,;	T	ENSG00000172324	ENST00000302040	Transcript	synonymous_variant	770	747	249	V	gtG/gtA	.	.	.	-1	OR5A2	HGNC	15249	protein_coding	YES	CCDS31560.1	ENSP00000303834	OR5A2_HUMAN	.	UPI0000041CB9	.	.	.	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81321,Pfam_domain:PF13853,Gene3D:1.20.1070.10,hmmpanther:PTHR26452:SF70,hmmpanther:PTHR26452,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGGGTCACAGC	.	3	BLCA
POLR2G	0	.	GRCh37	11	62533726	62533726	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483C>T	p.%3D	p.G161G	ENST00000301788	7/8	151	119	31	144	144	0	POLR2G,synonymous_variant,p.%3D,ENST00000301788,;POLR2G,downstream_gene_variant,,ENST00000533442,;RP11-727F15.11,downstream_gene_variant,,ENST00000596071,;POLR2G,3_prime_UTR_variant,,ENST00000524819,;POLR2G,3_prime_UTR_variant,,ENST00000525455,;POLR2G,3_prime_UTR_variant,,ENST00000531944,;POLR2G,non_coding_transcript_exon_variant,,ENST00000526368,;POLR2G,non_coding_transcript_exon_variant,,ENST00000527435,;POLR2G,downstream_gene_variant,,ENST00000531996,;	T	ENSG00000168002	ENST00000301788	Transcript	synonymous_variant	588	483	161	G	ggC/ggT	.	.	.	1	POLR2G	HGNC	9194	protein_coding	YES	CCDS31585.1	ENSP00000301788	RPB7_HUMAN	E9PIU7_HUMAN	UPI000002926B	.	.	.	7/8	.	hmmpanther:PTHR12709,hmmpanther:PTHR12709:SF4,Gene3D:2.40.50.140,SMART_domains:SM00316,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTGGCTCCCT	.	5	BLCA
PYGM	0	.	GRCh37	11	64520631	64520631	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1432C>T	p.His478Tyr	p.H478Y	ENST00000164139	12/20	224	141	83	204	204	0	PYGM,missense_variant,p.His478Tyr,ENST00000164139,;PYGM,missense_variant,p.His390Tyr,ENST00000377432,;PYGM,upstream_gene_variant,,ENST00000462303,;PYGM,downstream_gene_variant,,ENST00000460413,;PYGM,upstream_gene_variant,,ENST00000483742,;	A	ENSG00000068976	ENST00000164139	Transcript	missense_variant	1831	1432	478	H/Y	Cat/Tat	.	.	.	-1	PYGM	HGNC	9726	protein_coding	YES	CCDS8079.1	ENSP00000164139	PYGM_HUMAN	.	UPI000013C5AC	.	deleterious(0.01)	possibly_damaging(0.615)	12/20	.	Superfamily_domains:SSF53756,PIRSF_domain:PIRSF000460,TIGRFAM_domain:TIGR02093,Pfam_domain:PF00343,Gene3D:3.40.50.2000,hmmpanther:PTHR11468:SF1,hmmpanther:PTHR11468	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTATGAGGCT	.	5	BLCA
PYGM	0	.	GRCh37	11	64522183	64522183	+	Silent	SNP	G	G	A	rs146289842	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981C>T	p.%3D	p.F327F	ENST00000164139	8/20	22	10	12	28	28	0	PYGM,synonymous_variant,p.%3D,ENST00000164139,;PYGM,synonymous_variant,p.%3D,ENST00000377432,;PYGM,upstream_gene_variant,,ENST00000462303,;PYGM,upstream_gene_variant,,ENST00000460413,;	A	ENSG00000068976	ENST00000164139	Transcript	synonymous_variant	1380	981	327	F	ttC/ttT	rs146289842,COSM3451539	.	.	-1	PYGM	HGNC	9726	protein_coding	YES	CCDS8079.1	ENSP00000164139	PYGM_HUMAN	.	UPI000013C5AC	.	.	.	8/20	.	Superfamily_domains:SSF53756,PIRSF_domain:PIRSF000460,TIGRFAM_domain:TIGR02093,Pfam_domain:PF00343,Gene3D:3.40.50.2000,hmmpanther:PTHR11468:SF1,hmmpanther:PTHR11468	.	.	.	.	.	.	.	A:0.0009	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATCGAAGTT	byCluster	5	BLCA
MALAT1	0	.	GRCh37	11	65271807	65271807	+	RNA	SNP	G	G	C	rs567682228	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.6575G>C	.	.	ENST00000534336	1/1	20	16	4	11	11	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,downstream_gene_variant,,ENST00000508832,;MALAT1,downstream_gene_variant,,ENST00000544868,;	C	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	6575	.	.	.	.	rs567682228	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGAGAATGC	by1000G	2	BLCA
RNASEH2C	0	.	GRCh37	11	65488224	65488224	+	Missense_Mutation	SNP	C	C	G	rs755982930	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6G>C	p.Glu2Asp	p.E2D	ENST00000308418	1/4	19	16	3	20	20	0	RNASEH2C,missense_variant,p.Glu2Asp,ENST00000527610,;RNASEH2C,missense_variant,p.Glu2Asp,ENST00000308418,;RNASEH2C,5_prime_UTR_variant,,ENST00000528220,;KAT5,downstream_gene_variant,,ENST00000530446,;KAT5,downstream_gene_variant,,ENST00000377046,;KAT5,downstream_gene_variant,,ENST00000533596,;KAT5,downstream_gene_variant,,ENST00000352980,;KAT5,downstream_gene_variant,,ENST00000341318,;KAT5,downstream_gene_variant,,ENST00000534650,;RNASEH2C,non_coding_transcript_exon_variant,,ENST00000530192,;RNASEH2C,upstream_gene_variant,,ENST00000531596,;KAT5,downstream_gene_variant,,ENST00000533441,;RNASEH2C,upstream_gene_variant,,ENST00000533698,;KAT5,downstream_gene_variant,,ENST00000525600,;RNASEH2C,upstream_gene_variant,,ENST00000534482,;	G	ENSG00000172922	ENST00000308418	Transcript	missense_variant	195	6	2	E/D	gaG/gaC	rs755982930	.	.	-1	RNASEH2C	HGNC	24116	protein_coding	YES	CCDS8111.1	ENSP00000308193	RNH2C_HUMAN	E9PKP0_HUMAN	UPI000000D799	.	tolerated_low_confidence(0.18)	benign(0.015)	1/4	.	hmmpanther:PTHR21726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCTCTCCAT	.	2	BLCA
PC	0	.	GRCh37	11	66631398	66631398	+	Silent	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215C>A	p.%3D	p.I405I	ENST00000393960	12/23	162	142	20	154	154	0	PC,synonymous_variant,p.%3D,ENST00000524491,;PC,synonymous_variant,p.%3D,ENST00000355677,;PC,synonymous_variant,p.%3D,ENST00000393960,;PC,synonymous_variant,p.%3D,ENST00000393958,;PC,synonymous_variant,p.%3D,ENST00000393955,;LRFN4,downstream_gene_variant,,ENST00000309602,;LRFN4,downstream_gene_variant,,ENST00000393952,;PC,upstream_gene_variant,,ENST00000530187,;	T	ENSG00000173599	ENST00000393960	Transcript	synonymous_variant	1497	1215	405	I	atC/atA	.	.	.	-1	PC	HGNC	8636	protein_coding	YES	CCDS8152.1	ENSP00000377532	PYC_HUMAN	E9PS68_HUMAN	UPI0000132BC4	.	.	.	12/23	.	Superfamily_domains:SSF51246,SMART_domains:SM00878,PIRSF_domain:PIRSF001594,Gene3D:3.30.470.20,TIGRFAM_domain:TIGR01235,Pfam_domain:PF02785,hmmpanther:PTHR18866,PROSITE_profiles:PS50979	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCGGATGCC	.	4	BLCA
SSH3	0	.	GRCh37	11	67079357	67079357	+	Nonstop_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1979G>C	p.Ter660SerextTer85	p.*660Sext*85	ENST00000308127	14/14	56	50	6	40	40	0	SSH3,stop_lost,p.Ter660SerextTer85,ENST00000308127,;SSH3,stop_lost,p.Ter395SerextTer85,ENST00000308298,;SSH3,3_prime_UTR_variant,,ENST00000376757,;SSH3,downstream_gene_variant,,ENST00000527821,;SSH3,intron_variant,,ENST00000525913,;SSH3,downstream_gene_variant,,ENST00000529224,;SSH3,downstream_gene_variant,,ENST00000531495,;SSH3,downstream_gene_variant,,ENST00000532181,;SSH3,3_prime_UTR_variant,,ENST00000532881,;SSH3,downstream_gene_variant,,ENST00000532600,;	C	ENSG00000172830	ENST00000308127	Transcript	stop_lost	2157	1979	660	*/S	tGa/tCa	.	.	.	1	SSH3	HGNC	30581	protein_coding	YES	CCDS8157.1	ENSP00000312081	SSH3_HUMAN	.	UPI0000038D01	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTGAGCCC	.	4	BLCA
PPP1CA	0	.	GRCh37	11	67168209	67168209	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.402G>A	p.%3D	p.G134G	ENST00000312989	3/7	81	69	12	57	57	0	PPP1CA,synonymous_variant,p.%3D,ENST00000358239,;PPP1CA,synonymous_variant,p.%3D,ENST00000376745,;PPP1CA,synonymous_variant,p.%3D,ENST00000527663,;PPP1CA,synonymous_variant,p.%3D,ENST00000312989,;PPP1CA,downstream_gene_variant,,ENST00000542876,;RAD9A,downstream_gene_variant,,ENST00000544620,;TBC1D10C,upstream_gene_variant,,ENST00000542590,;PPP1CA,downstream_gene_variant,,ENST00000546202,;RAD9A,downstream_gene_variant,,ENST00000307980,;TBC1D10C,upstream_gene_variant,,ENST00000526387,;TBC1D10C,upstream_gene_variant,,ENST00000312390,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000532446,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000537694,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000529724,;PPP1CA,upstream_gene_variant,,ENST00000532279,;RAD9A,downstream_gene_variant,,ENST00000529100,;RAD9A,downstream_gene_variant,,ENST00000535644,;RAD9A,downstream_gene_variant,,ENST00000543808,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000526510,;RAD9A,downstream_gene_variant,,ENST00000530934,;TBC1D10C,upstream_gene_variant,,ENST00000526474,;TBC1D10C,upstream_gene_variant,,ENST00000530967,;TBC1D10C,upstream_gene_variant,,ENST00000533745,;TBC1D10C,upstream_gene_variant,,ENST00000529132,;TBC1D10C,upstream_gene_variant,,ENST00000529635,;RAD9A,downstream_gene_variant,,ENST00000538013,;RAD9A,downstream_gene_variant,,ENST00000542139,;	T	ENSG00000172531	ENST00000312989	Transcript	synonymous_variant	413	402	134	G	ggG/ggA	.	.	.	-1	PPP1CA	HGNC	9281	protein_coding	YES	CCDS31618.1	ENSP00000326031	PP1A_HUMAN	C4TNW6_HUMAN,C4TNW5_HUMAN,C0STL0_HUMAN	UPI0000070A42	.	.	.	3/7	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF207,PROSITE_patterns:PS00125,Pfam_domain:PF00149,Gene3D:3.60.21.10,SMART_domains:SM00156,Superfamily_domains:SSF56300,Prints_domain:PR00114	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCCCACG	.	5	BLCA
LRP5	0	.	GRCh37	11	68153885	68153885	+	Missense_Mutation	SNP	C	C	T	rs751683687	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1117C>T	p.Arg373Trp	p.R373W	ENST00000294304	6/23	57	50	7	63	63	0	LRP5,missense_variant,p.Arg373Trp,ENST00000294304,;LRP5,missense_variant,p.Arg373Trp,ENST00000529993,;	T	ENSG00000162337	ENST00000294304	Transcript	missense_variant	1223	1117	373	R/W	Cgg/Tgg	rs751683687	.	.	1	LRP5	HGNC	6697	protein_coding	YES	CCDS8181.1	ENSP00000294304	LRP5_HUMAN	E9PHY1_HUMAN	UPI0000073246	.	deleterious(0)	probably_damaging(0.973)	6/23	.	Superfamily_domains:SSF63825,PIRSF_domain:PIRSF036314,SMART_domains:SM00135,Gene3D:2.120.10.30,hmmpanther:PTHR10529:SF202,hmmpanther:PTHR10529	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATCCGGCAC	.	4	BLCA
IGHMBP2	0	.	GRCh37	11	68696791	68696791	+	Missense_Mutation	SNP	C	C	T	rs749136189	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1201C>T	p.His401Tyr	p.H401Y	ENST00000255078	8/15	78	72	6	89	89	0	IGHMBP2,missense_variant,p.His401Tyr,ENST00000255078,;IGHMBP2,non_coding_transcript_exon_variant,,ENST00000568742,;IGHMBP2,upstream_gene_variant,,ENST00000536803,;IGHMBP2,upstream_gene_variant,,ENST00000541229,;IGHMBP2,upstream_gene_variant,,ENST00000539064,;IGHMBP2,upstream_gene_variant,,ENST00000537458,;IGHMBP2,upstream_gene_variant,,ENST00000543739,;	T	ENSG00000132740	ENST00000255078	Transcript	missense_variant	1312	1201	401	H/Y	Cac/Tac	rs749136189	.	.	1	IGHMBP2	HGNC	5542	protein_coding	YES	CCDS8187.1	ENSP00000255078	SMBP2_HUMAN	F5H5K3_HUMAN	UPI000013CE82	.	tolerated(0.2)	possibly_damaging(0.85)	8/15	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF140,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00376,Pfam_domain:PF13086,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGATCACAAG	byFrequency	2	BLCA
PPFIA1	0	.	GRCh37	11	70170534	70170534	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>G	p.%3D	p.L97L	ENST00000253925	3/28	126	110	16	101	101	0	PPFIA1,synonymous_variant,p.%3D,ENST00000253925,;PPFIA1,synonymous_variant,p.%3D,ENST00000530746,;PPFIA1,synonymous_variant,p.%3D,ENST00000532024,;PPFIA1,synonymous_variant,p.%3D,ENST00000389547,;AP000487.6,intron_variant,,ENST00000528607,;CTA-797E19.2,downstream_gene_variant,,ENST00000526017,;CTA-797E19.1,downstream_gene_variant,,ENST00000531426,;PPFIA1,upstream_gene_variant,,ENST00000530932,;PPFIA1,synonymous_variant,p.%3D,ENST00000532504,;PPFIA1,upstream_gene_variant,,ENST00000526262,;	G	ENSG00000131626	ENST00000253925	Transcript	synonymous_variant	506	291	97	L	ctC/ctG	.	.	.	1	PPFIA1	HGNC	9245	protein_coding	YES	CCDS31627.1	ENSP00000253925	LIPA1_HUMAN	E9PPF6_HUMAN,E9PID5_HUMAN,B3KVS8_HUMAN	UPI0000072426	.	.	.	3/28	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTCAATGT	.	4	BLCA
PPFIA1	0	.	GRCh37	11	70171038	70171038	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.452C>A	p.Pro151Gln	p.P151Q	ENST00000253925	4/28	140	122	18	143	143	0	PPFIA1,missense_variant,p.Pro151Gln,ENST00000253925,;PPFIA1,missense_variant,p.Pro151Gln,ENST00000530746,;PPFIA1,missense_variant,p.Pro151Gln,ENST00000389547,;PPFIA1,downstream_gene_variant,,ENST00000532024,;CTA-797E19.2,non_coding_transcript_exon_variant,,ENST00000526017,;AP000487.6,intron_variant,,ENST00000528607,;CTA-797E19.1,downstream_gene_variant,,ENST00000531426,;PPFIA1,upstream_gene_variant,,ENST00000530932,;PPFIA1,missense_variant,p.Pro151Gln,ENST00000532504,;PPFIA1,upstream_gene_variant,,ENST00000525530,;PPFIA1,upstream_gene_variant,,ENST00000526262,;	A	ENSG00000131626	ENST00000253925	Transcript	missense_variant	667	452	151	P/Q	cCa/cAa	.	.	.	1	PPFIA1	HGNC	9245	protein_coding	YES	CCDS31627.1	ENSP00000253925	LIPA1_HUMAN	E9PPF6_HUMAN,E9PID5_HUMAN,B3KVS8_HUMAN	UPI0000072426	.	tolerated(0.11)	possibly_damaging(0.76)	4/28	.	hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTCCAGCAG	.	4	BLCA
CLPB	0	.	GRCh37	11	72145270	72145270	+	Silent	SNP	G	G	A	rs200845330	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249C>T	p.%3D	p.L83L	ENST00000294053	1/17	47	35	11	53	53	0	CLPB,missense_variant,p.Arg53Cys,ENST00000535990,;CLPB,missense_variant,p.Arg3Cys,ENST00000437826,;CLPB,synonymous_variant,p.%3D,ENST00000340729,;CLPB,synonymous_variant,p.%3D,ENST00000538039,;CLPB,synonymous_variant,p.%3D,ENST00000294053,;CLPB,5_prime_UTR_variant,,ENST00000543042,;CLPB,intron_variant,,ENST00000445069,;CLPB,upstream_gene_variant,,ENST00000539148,;CLPB,upstream_gene_variant,,ENST00000544683,;CLPB,upstream_gene_variant,,ENST00000542555,;CLPB,synonymous_variant,p.%3D,ENST00000535477,;	A	ENSG00000162129	ENST00000294053	Transcript	synonymous_variant	423	249	83	L	ctC/ctT	rs200845330,COSM1510106,COSM1510107	.	.	-1	CLPB	HGNC	30664	protein_coding	YES	CCDS8215.1	ENSP00000294053	CLPB_HUMAN	F5H392_HUMAN	UPI00001359D5	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGCGAGGCA	byCluster	5	BLCA
ARHGEF17	0	.	GRCh37	11	73068100	73068100	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3922C>G	p.Leu1308Val	p.L1308V	ENST00000263674	8/21	48	43	5	45	45	0	ARHGEF17,missense_variant,p.Leu1308Val,ENST00000263674,;AP002761.1,upstream_gene_variant,,ENST00000582555,;ARHGEF17,downstream_gene_variant,,ENST00000536170,;ARHGEF17,non_coding_transcript_exon_variant,,ENST00000537198,;	G	ENSG00000110237	ENST00000263674	Transcript	missense_variant	4272	3922	1308	L/V	Ctc/Gtc	.	.	.	1	ARHGEF17	HGNC	21726	protein_coding	YES	CCDS8221.1	ENSP00000263674	ARHGH_HUMAN	.	UPI000004980B	.	tolerated(0.07)	probably_damaging(0.923)	8/21	.	hmmpanther:PTHR12877:SF15,hmmpanther:PTHR12877,Gene3D:2.30.29.30,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTCTCTTC	.	4	BLCA
RELT	0	.	GRCh37	11	73105599	73105599	+	Missense_Mutation	SNP	C	C	T	rs371610657	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.866C>T	p.Ser289Leu	p.S289L	ENST00000064780	9/11	79	68	11	73	73	0	RELT,missense_variant,p.Ser289Leu,ENST00000064780,;RELT,missense_variant,p.Ser289Leu,ENST00000393580,;RELT,downstream_gene_variant,,ENST00000545687,;RP11-809N8.2,downstream_gene_variant,,ENST00000544674,;RELT,non_coding_transcript_exon_variant,,ENST00000537771,;RELT,non_coding_transcript_exon_variant,,ENST00000545886,;RELT,non_coding_transcript_exon_variant,,ENST00000539134,;RELT,downstream_gene_variant,,ENST00000544075,;	T	ENSG00000054967	ENST00000064780	Transcript	missense_variant	1127	866	289	S/L	tCg/tTg	rs371610657	.	.	1	RELT	HGNC	13764	protein_coding	YES	CCDS8222.1	ENSP00000064780	TR19L_HUMAN	F5H2T5_HUMAN	UPI000003C9E6	.	tolerated(0.12)	probably_damaging(0.934)	9/11	.	hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF37,Prints_domain:PR01970	.	.	.	.	.	.	.	G:0	G:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGCTCT	byFrequency|byCluster	4	BLCA
OLFML1	0	.	GRCh37	11	7509387	7509387	+	Silent	SNP	G	G	A	rs747718879	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159G>A	p.%3D	p.T53T	ENST00000329293	2/3	36	31	5	35	35	0	OLFML1,missense_variant,p.Arg52Gln,ENST00000534244,;OLFML1,synonymous_variant,p.%3D,ENST00000530135,;OLFML1,synonymous_variant,p.%3D,ENST00000329293,;OLFML1,splice_region_variant,,ENST00000528758,;CTD-2516F10.2,intron_variant,,ENST00000530201,;OLFML1,non_coding_transcript_exon_variant,,ENST00000528308,;	A	ENSG00000183801	ENST00000329293	Transcript	synonymous_variant	553	159	53	T	acG/acA	rs747718879	.	.	1	OLFML1	HGNC	24473	protein_coding	YES	CCDS7779.1	ENSP00000332511	OLFL1_HUMAN	.	UPI0000161991	.	.	.	2/3	.	hmmpanther:PTHR23192:SF13,hmmpanther:PTHR23192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GCAACGAGGGC	byFrequency	2	BLCA
USP35	0	.	GRCh37	11	77924859	77924859	+	Silent	SNP	A	A	G	rs763230980	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3057A>G	p.%3D	p.%3D	ENST00000529308	11/11	32	27	5	44	44	0	USP35,stop_retained_variant,p.%3D,ENST00000526425,;USP35,stop_retained_variant,p.%3D,ENST00000530267,;USP35,stop_retained_variant,p.%3D,ENST00000529308,;USP35,stop_retained_variant,p.%3D,ENST00000441408,;USP35,downstream_gene_variant,,ENST00000528910,;GAB2,downstream_gene_variant,,ENST00000361507,;GAB2,downstream_gene_variant,,ENST00000340149,;USP35,non_coding_transcript_exon_variant,,ENST00000530535,;USP35,3_prime_UTR_variant,,ENST00000530546,;USP35,downstream_gene_variant,,ENST00000530521,;	G	ENSG00000118369	ENST00000529308	Transcript	stop_retained_variant	3318	3057	1019	*	taA/taG	rs763230980	.	.	1	USP35	HGNC	20061	protein_coding	YES	CCDS41693.1	ENSP00000431876	UBP35_HUMAN	E9PRM2_HUMAN,E9PK78_HUMAN	UPI0000456553	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTAATGTGA	.	4	BLCA
NARS2	0	.	GRCh37	11	78147545	78147545	+	3'UTR	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*171G>A	.	.	ENST00000281038	14/14	25	20	4	15	15	0	NARS2,3_prime_UTR_variant,,ENST00000529771,;NARS2,3_prime_UTR_variant,,ENST00000528850,;NARS2,3_prime_UTR_variant,,ENST00000281038,;RP11-452H21.1,intron_variant,,ENST00000534168,;NARS2,downstream_gene_variant,,ENST00000525345,;	T	ENSG00000137513	ENST00000281038	Transcript	3_prime_UTR_variant	1981	.	.	.	.	.	.	.	-1	NARS2	HGNC	26274	protein_coding	YES	CCDS8261.1	ENSP00000281038	SYNM_HUMAN	G3V178_HUMAN	UPI000036680B	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCAACTT	.	4	BLCA
DLG2	0	.	GRCh37	11	84028143	84028143	+	Intron	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.520-65809G>A	.	.	ENST00000376104	.	232	176	56	264	264	0	DLG2,missense_variant,p.Asp16Asn,ENST00000398301,;DLG2,missense_variant,p.Asp16Asn,ENST00000280241,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000398309,;DLG2,intron_variant,,ENST00000376104,;DLG2,intron_variant,,ENST00000527466,;DLG2,intron_variant,,ENST00000529111,;	T	ENSG00000150672	ENST00000376104	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DLG2	HGNC	2901	protein_coding	YES	CCDS44690.1	ENSP00000365272	DLG2_HUMAN	F8W750_HUMAN,E9PQT9_HUMAN	UPI0000E59399	.	.	.	.	7/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCGGACC	.	5	BLCA
ME3	0	.	GRCh37	11	86176223	86176223	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.829A>G	p.Ile277Val	p.I277V	ENST00000543262	8/15	185	86	98	139	139	0	ME3,missense_variant,p.Ile277Val,ENST00000359636,;ME3,missense_variant,p.Ile277Val,ENST00000524826,;ME3,missense_variant,p.Ile277Val,ENST00000543262,;ME3,missense_variant,p.Ile277Val,ENST00000393324,;ME3,missense_variant,p.Ile215Val,ENST00000323418,;RP11-317J19.1,intron_variant,,ENST00000524610,;ME3,non_coding_transcript_exon_variant,,ENST00000525957,;ME3,missense_variant,p.Ile277Val,ENST00000526504,;ME3,non_coding_transcript_exon_variant,,ENST00000530520,;	C	ENSG00000151376	ENST00000543262	Transcript	missense_variant	1156	829	277	I/V	Atc/Gtc	.	.	.	-1	ME3	HGNC	6985	protein_coding	YES	CCDS8277.1	ENSP00000440246	MAON_HUMAN	E9PQP5_HUMAN,E9PNN2_HUMAN,E9PMB9_HUMAN	UPI000013DC4F	.	tolerated(0.17)	benign(0.304)	8/15	.	Prints_domain:PR00072,Superfamily_domains:SSF53223,PIRSF_domain:PIRSF000106,Pfam_domain:PF00390,Gene3D:3.40.50.10380,hmmpanther:PTHR23406,hmmpanther:PTHR23406:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGATGAGGC	.	5	BLCA
GRM5	0	.	GRCh37	11	88780572	88780572	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.469C>T	p.Gln157Ter	p.Q157*	ENST00000418177	2/10	70	52	18	56	56	0	GRM5,stop_gained,p.Gln157Ter,ENST00000305447,;GRM5,stop_gained,p.Gln157Ter,ENST00000393297,;GRM5,stop_gained,p.Gln157Ter,ENST00000305432,;GRM5,stop_gained,p.Gln157Ter,ENST00000418177,;GRM5,stop_gained,p.Gln157Ter,ENST00000455756,;GRM5,stop_gained,p.Gln157Ter,ENST00000393294,;GRM5,upstream_gene_variant,,ENST00000449371,;	A	ENSG00000168959	ENST00000418177	Transcript	stop_gained	837	469	157	Q/*	Cag/Tag	.	.	.	-1	GRM5	HGNC	4597	protein_coding	YES	CCDS44694.1	ENSP00000402912	GRM5_HUMAN	.	UPI000012F081	.	.	.	2/10	.	hmmpanther:PTHR24060:SF30,hmmpanther:PTHR24060,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822,Prints_domain:PR00248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTGAATGG	.	5	BLCA
TYR	0	.	GRCh37	11	88911796	88911796	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.675G>A	p.%3D	p.L225L	ENST00000263321	1/5	263	242	20	91	91	0	TYR,synonymous_variant,p.%3D,ENST00000263321,;TYR,non_coding_transcript_exon_variant,,ENST00000526139,;	A	ENSG00000077498	ENST00000263321	Transcript	synonymous_variant	1177	675	225	L	ctG/ctA	.	.	.	1	TYR	HGNC	12442	protein_coding	YES	CCDS8284.1	ENSP00000263321	TYRO_HUMAN	Q9UMA2_HUMAN,Q9UMA1_HUMAN,L8B082_HUMAN	UPI000004441A	.	.	.	1/5	.	hmmpanther:PTHR11474,hmmpanther:PTHR11474:SF16,Pfam_domain:PF00264,Gene3D:1.10.1280.10,Superfamily_domains:SSF48056	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGCTGACAGG	.	2	BLCA
TYR	0	.	GRCh37	11	88911850	88911850	+	Missense_Mutation	SNP	G	G	T	rs753998592	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729G>T	p.Lys243Asn	p.K243N	ENST00000263321	1/5	226	209	17	80	79	1	TYR,missense_variant,p.Lys243Asn,ENST00000263321,;TYR,non_coding_transcript_exon_variant,,ENST00000526139,;	T	ENSG00000077498	ENST00000263321	Transcript	missense_variant	1231	729	243	K/N	aaG/aaT	rs753998592	.	.	1	TYR	HGNC	12442	protein_coding	YES	CCDS8284.1	ENSP00000263321	TYRO_HUMAN	Q9UMA2_HUMAN,Q9UMA1_HUMAN,L8B082_HUMAN	UPI000004441A	.	tolerated(0.98)	benign(0.002)	1/5	.	hmmpanther:PTHR11474,hmmpanther:PTHR11474:SF16,Pfam_domain:PF00264,Gene3D:1.10.1280.10,Superfamily_domains:SSF48056	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAAAGTGTGA	.	2	BLCA
TYR	0	.	GRCh37	11	88911854	88911854	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733G>A	p.Asp245Asn	p.D245N	ENST00000263321	1/5	226	207	18	79	79	0	TYR,missense_variant,p.Asp245Asn,ENST00000263321,;TYR,non_coding_transcript_exon_variant,,ENST00000526139,;	A	ENSG00000077498	ENST00000263321	Transcript	missense_variant	1235	733	245	D/N	Gac/Aac	.	.	.	1	TYR	HGNC	12442	protein_coding	YES	CCDS8284.1	ENSP00000263321	TYRO_HUMAN	Q9UMA2_HUMAN,Q9UMA1_HUMAN,L8B082_HUMAN	UPI000004441A	.	deleterious(0.01)	benign(0.014)	1/5	.	hmmpanther:PTHR11474,hmmpanther:PTHR11474:SF16,Pfam_domain:PF00264,Gene3D:1.10.1280.10,Superfamily_domains:SSF48056	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGTGACATT	.	2	BLCA
TYR	0	.	GRCh37	11	88911866	88911866	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.745G>T	p.Asp249Tyr	p.D249Y	ENST00000263321	1/5	239	217	22	78	77	0	TYR,missense_variant,p.Asp249Tyr,ENST00000263321,;TYR,non_coding_transcript_exon_variant,,ENST00000526139,;	T	ENSG00000077498	ENST00000263321	Transcript	missense_variant	1247	745	249	D/Y	Gat/Tat	.	.	.	1	TYR	HGNC	12442	protein_coding	YES	CCDS8284.1	ENSP00000263321	TYRO_HUMAN	Q9UMA2_HUMAN,Q9UMA1_HUMAN,L8B082_HUMAN	UPI000004441A	.	deleterious(0)	probably_damaging(0.986)	1/5	.	hmmpanther:PTHR11474,hmmpanther:PTHR11474:SF16,Pfam_domain:PF00264,Gene3D:1.10.1280.10,Superfamily_domains:SSF48056	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCACAGATGAG	.	3	BLCA
PWP1	0	.	GRCh37	12	108098457	108098457	+	Missense_Mutation	SNP	G	G	A	rs765660170	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1010G>A	p.Arg337Gln	p.R337Q	ENST00000412830	11/15	79	74	4	61	61	0	PWP1,missense_variant,p.Arg337Gln,ENST00000412830,;PWP1,missense_variant,p.Arg275Gln,ENST00000541166,;	A	ENSG00000136045	ENST00000412830	Transcript	missense_variant	1178	1010	337	R/Q	cGa/cAa	rs765660170	.	.	1	PWP1	HGNC	17015	protein_coding	YES	CCDS9114.1	ENSP00000387365	PWP1_HUMAN	Q86X79_HUMAN,Q05BL3_HUMAN,F8VZ56_HUMAN,B4DJV5_HUMAN	UPI0000132B9C	.	tolerated(0.08)	possibly_damaging(0.89)	11/15	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR14091,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCATCGAATGT	.	2	BLCA
TRPV4	0	.	GRCh37	12	110238531	110238531	+	Missense_Mutation	SNP	G	G	A	rs148041016	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.745C>T	p.Arg249Cys	p.R249C	ENST00000418703	4/15	56	50	6	81	80	0	TRPV4,missense_variant,p.Arg249Cys,ENST00000261740,;TRPV4,missense_variant,p.Arg249Cys,ENST00000537083,;TRPV4,missense_variant,p.Arg249Cys,ENST00000346520,;TRPV4,missense_variant,p.Arg249Cys,ENST00000418703,;TRPV4,missense_variant,p.Arg215Cys,ENST00000536838,;TRPV4,intron_variant,,ENST00000392719,;TRPV4,intron_variant,,ENST00000544971,;TRPV4,intron_variant,,ENST00000541794,;TRPV4,missense_variant,p.Arg249Cys,ENST00000538125,;	A	ENSG00000111199	ENST00000418703	Transcript	missense_variant	840	745	249	R/C	Cgc/Tgc	rs148041016	.	.	-1	TRPV4	HGNC	18083	protein_coding	YES	CCDS9134.1	ENSP00000406191	TRPV4_HUMAN	F5H6Q4_HUMAN	UPI000003BB44	.	deleterious(0)	probably_damaging(0.992)	4/15	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR10582:SF4,hmmpanther:PTHR10582,Gene3D:1.25.40.20,Pfam_domain:PF00023,TIGRFAM_domain:TIGR00870,SMART_domains:SM00248,Superfamily_domains:SSF48403,Prints_domain:PR01768	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGCGACGCT	byCluster	4	BLCA
ATP2A2	0	.	GRCh37	12	110734518	110734518	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>G	p.Pro147Ala	p.P147A	ENST00000539276	5/20	95	58	36	65	65	0	ATP2A2,missense_variant,p.Pro65Ala,ENST00000548169,;ATP2A2,missense_variant,p.Pro147Ala,ENST00000308664,;ATP2A2,missense_variant,p.Pro147Ala,ENST00000395494,;ATP2A2,missense_variant,p.Pro147Ala,ENST00000539276,;ATP2A2,downstream_gene_variant,,ENST00000552636,;ATP2A2,non_coding_transcript_exon_variant,,ENST00000550248,;ATP2A2,3_prime_UTR_variant,,ENST00000377685,;	G	ENSG00000174437	ENST00000539276	Transcript	missense_variant	548	439	147	P/A	Cct/Gct	.	.	.	1	ATP2A2	HGNC	812	protein_coding	YES	CCDS9144.1	ENSP00000440045	AT2A2_HUMAN	.	UPI0000001C3A	.	deleterious(0)	probably_damaging(0.963)	5/20	.	hmmpanther:PTHR24093:SF234,hmmpanther:PTHR24093,Pfam_domain:PF00122,Gene3D:2.70.150.10,TIGRFAM_domain:TIGR01116,TIGRFAM_domain:TIGR01494,Superfamily_domains:0049471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGTTCCTGGT	.	5	BLCA
TAS2R14	0	.	GRCh37	12	11091682	11091682	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.125C>T	p.Ser42Phe	p.S42F	ENST00000537503	1/1	36	27	9	39	39	0	TAS2R14,missense_variant,p.Ser42Phe,ENST00000537503,;PRR4,intron_variant,,ENST00000539853,;PRR4,intron_variant,,ENST00000541977,;PRR4,intron_variant,,ENST00000535024,;TAS2R14,intron_variant,,ENST00000381852,;PRR4,intron_variant,,ENST00000536668,;PRR4,intron_variant,,ENST00000536086,;PRR4,intron_variant,,ENST00000546317,;	A	ENSG00000212127	ENST00000537503	Transcript	missense_variant	181	125	42	S/F	tCt/tTt	.	.	.	-1	TAS2R14	HGNC	14920	protein_coding	YES	CCDS8637.1	ENSP00000441949	T2R14_HUMAN	Q50KP5_HUMAN	UPI0000038B16	.	deleterious(0)	possibly_damaging(0.787)	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF05296,hmmpanther:PTHR11394,hmmpanther:PTHR11394:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGAAGAGATC	.	5	BLCA
RPH3A	0	.	GRCh37	12	113303232	113303232	+	Missense_Mutation	SNP	C	C	T	rs769217929	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244C>T	p.Arg82Cys	p.R82C	ENST00000389385	6/22	124	77	46	112	112	0	RPH3A,missense_variant,p.Arg15Cys,ENST00000550901,;RPH3A,missense_variant,p.Arg82Cys,ENST00000547686,;RPH3A,missense_variant,p.Arg82Cys,ENST00000546703,;RPH3A,missense_variant,p.Arg82Cys,ENST00000552667,;RPH3A,missense_variant,p.Arg82Cys,ENST00000415485,;RPH3A,missense_variant,p.Arg78Cys,ENST00000551052,;RPH3A,missense_variant,p.Arg82Cys,ENST00000548197,;RPH3A,missense_variant,p.Arg82Cys,ENST00000543106,;RPH3A,missense_variant,p.Arg82Cys,ENST00000551593,;RPH3A,missense_variant,p.Arg33Cys,ENST00000447659,;RPH3A,missense_variant,p.Arg82Cys,ENST00000547840,;RPH3A,missense_variant,p.Arg33Cys,ENST00000548866,;RPH3A,missense_variant,p.Arg82Cys,ENST00000549769,;RPH3A,missense_variant,p.Arg82Cys,ENST00000420983,;RPH3A,missense_variant,p.Arg82Cys,ENST00000551748,;RPH3A,missense_variant,p.Arg82Cys,ENST00000551198,;RPH3A,missense_variant,p.Arg82Cys,ENST00000547728,;RPH3A,missense_variant,p.Arg82Cys,ENST00000389385,;RPH3A,missense_variant,p.Arg82Cys,ENST00000553114,;RPH3A,non_coding_transcript_exon_variant,,ENST00000547222,;RPH3A,non_coding_transcript_exon_variant,,ENST00000552679,;RPH3A,upstream_gene_variant,,ENST00000549913,;RPH3A,3_prime_UTR_variant,,ENST00000547099,;	T	ENSG00000089169	ENST00000389385	Transcript	missense_variant	741	244	82	R/C	Cgc/Tgc	rs769217929,COSM3687965	.	.	1	RPH3A	HGNC	17056	protein_coding	YES	CCDS44979.1	ENSP00000374036	RP3A_HUMAN	F8W1K7_HUMAN,F8W1A3_HUMAN,F8W131_HUMAN,F8W116_HUMAN,F8VZS2_HUMAN,F8VVK8_HUMAN,F8VV58_HUMAN,F8VTR7_HUMAN,F8VR41_HUMAN,F8VNW3_HUMAN,F8VNU2_HUMAN,F8VNP7_HUMAN	UPI000013456D	.	deleterious(0)	probably_damaging(0.989)	6/22	.	PROSITE_profiles:PS50916,hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF118,Gene3D:3.30.40.10,Pfam_domain:PF02318,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGACCGCCTA	byFrequency	5	BLCA
OAS2	0	.	GRCh37	12	113435517	113435517	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820G>T	p.Glu274Ter	p.E274*	ENST00000342315	4/11	22	18	3	29	29	0	OAS2,stop_gained,p.Glu274Ter,ENST00000392583,;OAS2,stop_gained,p.Glu199Ter,ENST00000552756,;OAS2,stop_gained,p.Glu274Ter,ENST00000342315,;RP1-71H24.1,intron_variant,,ENST00000552784,;OAS2,3_prime_UTR_variant,,ENST00000551603,;OAS2,upstream_gene_variant,,ENST00000548941,;	T	ENSG00000111335	ENST00000342315	Transcript	stop_gained	1034	820	274	E/*	Gag/Tag	.	.	.	1	OAS2	HGNC	8087	protein_coding	YES	CCDS31906.1	ENSP00000342278	OAS2_HUMAN	.	UPI000013CB0B	.	.	.	4/11	.	Superfamily_domains:SSF81631,Pfam_domain:PF10421,Gene3D:1px5A02,hmmpanther:PTHR11258:SF3,hmmpanther:PTHR11258	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGATGAGACC	.	4	BLCA
PRB3	0	.	GRCh37	12	11420837	11420837	+	Missense_Mutation	SNP	G	G	C	rs776707319	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346C>G	p.Arg116Gly	p.R116G	ENST00000381842	3/6	217	197	20	270	270	0	PRB3,missense_variant,p.Arg116Gly,ENST00000381842,;PRB3,missense_variant,p.Arg116Gly,ENST00000538488,;PRB3,missense_variant,p.Arg116Gly,ENST00000279573,;PRB3,intron_variant,,ENST00000440870,;PRB3,non_coding_transcript_exon_variant,,ENST00000539835,;	C	ENSG00000197870	ENST00000381842	Transcript	missense_variant	384	346	116	R/G	Cgt/Ggt	rs776707319	.	.	-1	PRB3	HGNC	9339	protein_coding	YES	.	ENSP00000371264	PRB3_HUMAN	.	UPI0000E67202	.	tolerated(0.06)	unknown(0)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23203,hmmpanther:PTHR23203:SF4,Pfam_domain:PF15240,Pfam_domain:PF15240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGGACGAGGTG	.	3	BLCA
MED13L	0	.	GRCh37	12	116534536	116534536	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>T	p.%3D	p.F139F	ENST00000281928	4/31	120	100	19	90	89	1	MED13L,synonymous_variant,p.%3D,ENST00000281928,;	A	ENSG00000123066	ENST00000281928	Transcript	synonymous_variant	624	417	139	F	ttC/ttT	.	.	.	-1	MED13L	HGNC	22962	protein_coding	YES	CCDS9177.1	ENSP00000281928	MD13L_HUMAN	Q9H6Z7_HUMAN	UPI0000241C1E	.	.	.	4/31	.	Pfam_domain:PF11597,hmmpanther:PTHR12950,hmmpanther:PTHR12950:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTAACGAAGTT	.	4	BLCA
C12orf49	0	.	GRCh37	12	117158195	117158195	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326C>T	p.Pro109Leu	p.P109L	ENST00000261318	3/5	200	180	19	174	173	1	C12orf49,missense_variant,p.Pro79Leu,ENST00000536380,;C12orf49,missense_variant,p.Pro109Leu,ENST00000261318,;C12orf49,intron_variant,,ENST00000547606,;C12orf49,upstream_gene_variant,,ENST00000548356,;C12orf49,3_prime_UTR_variant,,ENST00000547630,;	A	ENSG00000111412	ENST00000261318	Transcript	missense_variant	487	326	109	P/L	cCt/cTt	.	.	.	-1	C12orf49	HGNC	26128	protein_coding	YES	CCDS9179.1	ENSP00000261318	CL049_HUMAN	F8VVN2_HUMAN	UPI000004A078	.	tolerated(0.26)	benign(0.014)	3/5	.	Pfam_domain:PF10218,hmmpanther:PTHR13481	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCTAGGGACG	.	3	BLCA
CIT	0	.	GRCh37	12	120135563	120135563	+	Missense_Mutation	SNP	G	G	A	rs776383369	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5783C>T	p.Ala1928Val	p.A1928V	ENST00000392521	46/48	99	92	7	112	112	0	CIT,missense_variant,p.Ala1928Val,ENST00000392521,;CIT,missense_variant,p.Ala1886Val,ENST00000261833,;CIT,missense_variant,p.Ala1499Val,ENST00000392520,;RP1-127H14.3,upstream_gene_variant,,ENST00000535109,;CIT,non_coding_transcript_exon_variant,,ENST00000469414,;CIT,non_coding_transcript_exon_variant,,ENST00000537607,;CIT,non_coding_transcript_exon_variant,,ENST00000544872,;CIT,non_coding_transcript_exon_variant,,ENST00000545913,;CIT,downstream_gene_variant,,ENST00000538073,;	A	ENSG00000122966	ENST00000392521	Transcript	missense_variant	5839	5783	1928	A/V	gCg/gTg	rs776383369	.	.	-1	CIT	HGNC	1985	protein_coding	YES	CCDS55891.1	ENSP00000376306	CTRO_HUMAN	.	UPI0000683C41	.	deleterious(0.02)	probably_damaging(0.998)	46/48	.	SMART_domains:SM00036,PIRSF_domain:PIRSF038145,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGACGCCAAG	byFrequency	2	BLCA
CAMKK2	0	.	GRCh37	12	121686468	121686468	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1393G>A	p.Glu465Lys	p.E465K	ENST00000324774	14/17	139	124	14	125	125	0	CAMKK2,missense_variant,p.Glu465Lys,ENST00000412367,;CAMKK2,missense_variant,p.Glu465Lys,ENST00000324774,;CAMKK2,missense_variant,p.Glu465Lys,ENST00000404169,;CAMKK2,missense_variant,p.Glu252Lys,ENST00000545538,;CAMKK2,missense_variant,p.Glu465Lys,ENST00000392473,;CAMKK2,missense_variant,p.Glu465Lys,ENST00000402834,;CAMKK2,missense_variant,p.Glu465Lys,ENST00000337174,;CAMKK2,missense_variant,p.Glu465Lys,ENST00000392474,;CAMKK2,intron_variant,,ENST00000347034,;CAMKK2,intron_variant,,ENST00000538733,;CAMKK2,intron_variant,,ENST00000446440,;CAMKK2,downstream_gene_variant,,ENST00000535524,;	T	ENSG00000110931	ENST00000324774	Transcript	missense_variant	2222	1393	465	E/K	Gaa/Aaa	COSM691749,COSM1146937	.	.	-1	CAMKK2	HGNC	1470	protein_coding	YES	CCDS9216.1	ENSP00000312741	KKCC2_HUMAN	Q8IZW1_HUMAN,F5H4I7_HUMAN,F5H360_HUMAN	UPI000013D208	.	deleterious(0.03)	probably_damaging(0.93)	14/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24347,hmmpanther:PTHR24347:SF178,Gene3D:1.10.510.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCGACCA	.	4	BLCA
RSRC2	0	.	GRCh37	12	123006798	123006798	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.55G>C	p.Asp19His	p.D19H	ENST00000331738	2/10	59	52	7	41	41	0	RSRC2,missense_variant,p.Asp19His,ENST00000331738,;RSRC2,5_prime_UTR_variant,,ENST00000528279,;RSRC2,5_prime_UTR_variant,,ENST00000354654,;RSRC2,intron_variant,,ENST00000526560,;RSRC2,intron_variant,,ENST00000344591,;KNTC1,upstream_gene_variant,,ENST00000333479,;KNTC1,upstream_gene_variant,,ENST00000450485,;RSRC2,non_coding_transcript_exon_variant,,ENST00000532186,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527461,;KNTC1,upstream_gene_variant,,ENST00000535410,;RSRC2,missense_variant,p.Asp19His,ENST00000527399,;RSRC2,missense_variant,p.Asp19His,ENST00000532695,;RSRC2,missense_variant,p.Asp19His,ENST00000433877,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527173,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525335,;RSRC2,non_coding_transcript_exon_variant,,ENST00000531639,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525387,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527796,;RSRC2,intron_variant,,ENST00000525570,;RSRC2,upstream_gene_variant,,ENST00000528263,;RSRC2,upstream_gene_variant,,ENST00000524399,;	G	ENSG00000111011	ENST00000331738	Transcript	missense_variant	201	55	19	D/H	Gat/Cat	.	.	.	-1	RSRC2	HGNC	30559	protein_coding	YES	CCDS31920.1	ENSP00000330188	RSRC2_HUMAN	.	UPI00001FB8BB	.	tolerated_low_confidence(0.06)	probably_damaging(0.997)	2/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTATCTGGTG	.	4	BLCA
TMEM132D	0	.	GRCh37	12	129558797	129558797	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2923G>A	p.Glu975Lys	p.E975K	ENST00000422113	9/9	164	150	13	148	148	0	TMEM132D,missense_variant,p.Glu975Lys,ENST00000422113,;TMEM132D,missense_variant,p.Glu513Lys,ENST00000389441,;	T	ENSG00000151952	ENST00000422113	Transcript	missense_variant	3250	2923	975	E/K	Gag/Aag	.	.	.	-1	TMEM132D	HGNC	29411	protein_coding	YES	CCDS9266.1	ENSP00000408581	T132D_HUMAN	.	UPI000023759C	.	deleterious(0.01)	benign(0.139)	9/9	.	hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATTCTCCAACA	.	3	BLCA
GOLGA3	0	.	GRCh37	12	133350783	133350783	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4267G>C	p.Glu1423Gln	p.E1423Q	ENST00000204726	23/24	41	36	5	56	56	0	GOLGA3,missense_variant,p.Glu1423Gln,ENST00000204726,;GOLGA3,missense_variant,p.Glu1423Gln,ENST00000450791,;GOLGA3,downstream_gene_variant,,ENST00000456883,;GOLGA3,non_coding_transcript_exon_variant,,ENST00000541013,;	G	ENSG00000090615	ENST00000204726	Transcript	missense_variant	4826	4267	1423	E/Q	Gag/Cag	.	.	.	-1	GOLGA3	HGNC	4426	protein_coding	YES	CCDS9281.1	ENSP00000204726	GOGA3_HUMAN	.	UPI0000190979	.	tolerated(0.08)	probably_damaging(0.999)	23/24	.	hmmpanther:PTHR18902:SF20,hmmpanther:PTHR18902	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GGGCTCCTTGC	.	2	BLCA
SLCO1C1	0	.	GRCh37	12	20854309	20854309	+	Silent	SNP	C	C	T	rs752522673	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187C>T	p.%3D	p.L63L	ENST00000381552	3/15	57	33	24	53	53	0	SLCO1C1,synonymous_variant,p.%3D,ENST00000266509,;SLCO1C1,synonymous_variant,p.%3D,ENST00000540354,;SLCO1C1,synonymous_variant,p.%3D,ENST00000381552,;SLCO1C1,synonymous_variant,p.%3D,ENST00000545604,;SLCO1C1,intron_variant,,ENST00000545102,;SLCO1C1,downstream_gene_variant,,ENST00000535609,;SLCO1C1,downstream_gene_variant,,ENST00000539443,;SLCO1C1,downstream_gene_variant,,ENST00000534996,;SLCO1C1,intron_variant,,ENST00000539415,;SLCO1C1,downstream_gene_variant,,ENST00000497911,;	T	ENSG00000139155	ENST00000381552	Transcript	synonymous_variant	555	187	63	L	Ctg/Ttg	rs752522673	.	.	1	SLCO1C1	HGNC	13819	protein_coding	YES	CCDS53757.1	ENSP00000370964	SO1C1_HUMAN	.	UPI00004C3E1B	.	.	.	3/15	.	hmmpanther:PTHR11388,hmmpanther:PTHR11388:SF18,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATCTGAAG	.	5	BLCA
ASUN	0	.	GRCh37	12	27075565	27075565	+	Silent	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.873A>G	p.%3D	p.V291V	ENST00000261191	8/17	82	39	43	78	78	0	ASUN,synonymous_variant,p.%3D,ENST00000261191,;ASUN,synonymous_variant,p.%3D,ENST00000539625,;ASUN,synonymous_variant,p.%3D,ENST00000536232,;ASUN,downstream_gene_variant,,ENST00000538727,;ASUN,upstream_gene_variant,,ENST00000542392,;ASUN,downstream_gene_variant,,ENST00000544548,;ASUN,upstream_gene_variant,,ENST00000538155,;	C	ENSG00000064102	ENST00000261191	Transcript	synonymous_variant	1410	873	291	V	gtA/gtG	.	.	.	-1	ASUN	HGNC	20174	protein_coding	YES	CCDS8708.1	ENSP00000261191	ASUN_HUMAN	F8VRX9_HUMAN,F5H5W1_HUMAN,F5H457_HUMAN,B4DNK1_HUMAN	UPI0000044950	.	.	.	8/17	.	Pfam_domain:PF10221,hmmpanther:PTHR12955,hmmpanther:PTHR12955:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATCTACATG	.	5	BLCA
SYT10	0	.	GRCh37	12	33538176	33538176	+	Silent	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1128G>A	p.%3D	p.T376T	ENST00000228567	4/7	75	64	11	73	73	0	SYT10,synonymous_variant,p.%3D,ENST00000228567,;SYT10,synonymous_variant,p.%3D,ENST00000535526,;SYT10,3_prime_UTR_variant,,ENST00000539102,;	T	ENSG00000110975	ENST00000228567	Transcript	synonymous_variant	1425	1128	376	T	acG/acA	COSM1511973	.	.	-1	SYT10	HGNC	19266	protein_coding	YES	CCDS8732.1	ENSP00000228567	SYT10_HUMAN	F5H2A8_HUMAN	UPI0000052B30	.	.	.	4/7	.	hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF46,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGCCGTCGG	.	4	BLCA
WNT10B	0	.	GRCh37	12	49359916	49359916	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1132G>T	p.Glu378Ter	p.E378*	ENST00000301061	5/5	36	29	6	32	32	0	WNT10B,stop_gained,p.Glu378Ter,ENST00000301061,;WNT10B,3_prime_UTR_variant,,ENST00000403957,;WNT10B,3_prime_UTR_variant,,ENST00000407467,;WNT10B,downstream_gene_variant,,ENST00000420388,;WNT10B,downstream_gene_variant,,ENST00000413630,;WNT10B,downstream_gene_variant,,ENST00000475740,;	A	ENSG00000169884	ENST00000301061	Transcript	stop_gained	1481	1132	378	E/*	Gag/Tag	.	.	.	-1	WNT10B	HGNC	12775	protein_coding	YES	CCDS8775.1	ENSP00000301061	WN10B_HUMAN	C9JCI2_HUMAN	UPI0000138F21	.	.	.	5/5	.	hmmpanther:PTHR12027:SF76,hmmpanther:PTHR12027,Pfam_domain:PF00110,SMART_domains:SM00097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACTCATCAC	.	5	BLCA
KMT2D	0	.	GRCh37	12	49436429	49436429	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5783-1G>C	.	p.X1928_splice	ENST00000301067	.	41	27	14	44	44	0	KMT2D,splice_acceptor_variant,,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,downstream_gene_variant,,ENST00000550356,;	G	ENSG00000167548	ENST00000301067	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	.	26/53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCACCTACAA	.	5	BLCA
KMT2D	0	.	GRCh37	12	49436662	49436662	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5645-1G>A	.	p.X1882_splice	ENST00000301067	.	42	32	9	41	41	0	KMT2D,splice_acceptor_variant,,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,downstream_gene_variant,,ENST00000550356,;	T	ENSG00000167548	ENST00000301067	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	.	25/53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTCTGTGG	.	5	BLCA
MCRS1	0	.	GRCh37	12	49953082	49953082	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1128C>T	p.%3D	p.I376I	ENST00000357123	12/14	23	19	4	23	23	0	MCRS1,synonymous_variant,p.%3D,ENST00000550165,;MCRS1,synonymous_variant,p.%3D,ENST00000357123,;MCRS1,synonymous_variant,p.%3D,ENST00000546244,;MCRS1,synonymous_variant,p.%3D,ENST00000343810,;MCRS1,synonymous_variant,p.%3D,ENST00000551598,;MCRS1,downstream_gene_variant,,ENST00000548334,;MCRS1,downstream_gene_variant,,ENST00000553173,;KCNH3,downstream_gene_variant,,ENST00000257981,;MCRS1,splice_region_variant,,ENST00000547182,;MCRS1,missense_variant,p.His57Tyr,ENST00000548646,;MCRS1,splice_region_variant,,ENST00000551625,;MCRS1,splice_region_variant,,ENST00000548602,;MCRS1,non_coding_transcript_exon_variant,,ENST00000549000,;KCNH3,downstream_gene_variant,,ENST00000548675,;MCRS1,upstream_gene_variant,,ENST00000552596,;	A	ENSG00000187778	ENST00000357123	Transcript	synonymous_variant	1128	1128	376	I	atC/atT	.	.	.	-1	MCRS1	HGNC	6960	protein_coding	YES	CCDS31795.1	ENSP00000349640	MCRS1_HUMAN	Q7Z372_HUMAN,F8W126_HUMAN	UPI0000351552	.	.	.	12/14	.	PROSITE_profiles:PS50006,hmmpanther:PTHR13233,hmmpanther:PTHR13233:SF0,Pfam_domain:PF00498,Gene3D:2.60.200.20,SMART_domains:SM00240,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGTGATCTG	.	2	BLCA
MYO1A	0	.	GRCh37	12	57440388	57440388	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.588G>T	p.Arg196Ser	p.R196S	ENST00000442789	9/29	122	66	56	113	113	0	MYO1A,missense_variant,p.Arg196Ser,ENST00000300119,;MYO1A,missense_variant,p.Arg34Ser,ENST00000544473,;MYO1A,missense_variant,p.Arg196Ser,ENST00000442789,;MYO1A,intron_variant,,ENST00000492945,;MYO1A,downstream_gene_variant,,ENST00000433964,;MYO1A,downstream_gene_variant,,ENST00000471791,;MYO1A,missense_variant,p.Arg34Ser,ENST00000554234,;	A	ENSG00000166866	ENST00000442789	Transcript	missense_variant	876	588	196	R/S	agG/agT	.	.	.	-1	MYO1A	HGNC	7595	protein_coding	YES	CCDS8929.1	ENSP00000393392	MYO1A_HUMAN	Q13871_HUMAN,G3V587_HUMAN,F5GWY8_HUMAN,C9JU63_HUMAN	UPI000012FAC2	.	deleterious(0)	probably_damaging(0.997)	9/29	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF291,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGTTCCTTTC	.	3	BLCA
MYO1A	0	.	GRCh37	12	57440403	57440403	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.573G>A	p.%3D	p.Q191Q	ENST00000442789	9/29	108	62	46	95	95	0	MYO1A,synonymous_variant,p.%3D,ENST00000300119,;MYO1A,synonymous_variant,p.%3D,ENST00000544473,;MYO1A,synonymous_variant,p.%3D,ENST00000442789,;MYO1A,intron_variant,,ENST00000492945,;MYO1A,downstream_gene_variant,,ENST00000433964,;MYO1A,downstream_gene_variant,,ENST00000471791,;MYO1A,synonymous_variant,p.%3D,ENST00000554234,;	T	ENSG00000166866	ENST00000442789	Transcript	synonymous_variant	861	573	191	Q	caG/caA	.	.	.	-1	MYO1A	HGNC	7595	protein_coding	YES	CCDS8929.1	ENSP00000393392	MYO1A_HUMAN	Q13871_HUMAN,G3V587_HUMAN,F5GWY8_HUMAN,C9JU63_HUMAN	UPI000012FAC2	.	.	.	9/29	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF291,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGAGCTGCTT	.	3	BLCA
MYO1A	0	.	GRCh37	12	57440681	57440681	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507C>G	p.Phe169Leu	p.F169L	ENST00000442789	8/29	59	30	29	75	75	0	MYO1A,missense_variant,p.Phe169Leu,ENST00000300119,;MYO1A,missense_variant,p.Phe7Leu,ENST00000544473,;MYO1A,missense_variant,p.Phe169Leu,ENST00000442789,;MYO1A,intron_variant,,ENST00000492945,;MYO1A,downstream_gene_variant,,ENST00000433964,;MYO1A,downstream_gene_variant,,ENST00000471791,;MYO1A,missense_variant,p.Phe7Leu,ENST00000554234,;	C	ENSG00000166866	ENST00000442789	Transcript	missense_variant	795	507	169	F/L	ttC/ttG	.	.	.	-1	MYO1A	HGNC	7595	protein_coding	YES	CCDS8929.1	ENSP00000393392	MYO1A_HUMAN	Q13871_HUMAN,G3V587_HUMAN,F5GWY8_HUMAN,C9JU63_HUMAN	UPI000012FAC2	.	deleterious(0)	possibly_damaging(0.794)	8/29	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF291,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCTTGAAGTC	.	3	BLCA
MYO1A	0	.	GRCh37	12	57440686	57440686	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502G>A	p.Asp168Asn	p.D168N	ENST00000442789	8/29	62	32	30	71	71	0	MYO1A,missense_variant,p.Asp168Asn,ENST00000300119,;MYO1A,missense_variant,p.Asp6Asn,ENST00000544473,;MYO1A,missense_variant,p.Asp168Asn,ENST00000442789,;MYO1A,intron_variant,,ENST00000492945,;MYO1A,downstream_gene_variant,,ENST00000433964,;MYO1A,downstream_gene_variant,,ENST00000471791,;MYO1A,missense_variant,p.Asp6Asn,ENST00000554234,;	T	ENSG00000166866	ENST00000442789	Transcript	missense_variant	790	502	168	D/N	Gac/Aac	.	.	.	-1	MYO1A	HGNC	7595	protein_coding	YES	CCDS8929.1	ENSP00000393392	MYO1A_HUMAN	Q13871_HUMAN,G3V587_HUMAN,F5GWY8_HUMAN,C9JU63_HUMAN	UPI000012FAC2	.	tolerated(0.11)	benign(0.344)	8/29	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF291,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAAGTCAAATT	.	3	BLCA
MYO1A	0	.	GRCh37	12	57441148	57441148	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369G>A	p.%3D	p.G123G	ENST00000442789	6/29	112	66	46	124	124	0	MYO1A,synonymous_variant,p.%3D,ENST00000300119,;MYO1A,synonymous_variant,p.%3D,ENST00000442789,;MYO1A,5_prime_UTR_variant,,ENST00000544473,;MYO1A,intron_variant,,ENST00000492945,;MYO1A,downstream_gene_variant,,ENST00000433964,;MYO1A,downstream_gene_variant,,ENST00000471791,;MYO1A,5_prime_UTR_variant,,ENST00000554234,;	T	ENSG00000166866	ENST00000442789	Transcript	synonymous_variant	657	369	123	G	ggG/ggA	.	.	.	-1	MYO1A	HGNC	7595	protein_coding	YES	CCDS8929.1	ENSP00000393392	MYO1A_HUMAN	Q13871_HUMAN,G3V587_HUMAN,F5GWY8_HUMAN,C9JU63_HUMAN	UPI000012FAC2	.	.	.	6/29	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF291,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCCCACA	.	5	BLCA
MYO1A	0	.	GRCh37	12	57441770	57441770	+	Intron	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.230+3G>A	.	.	ENST00000442789	.	48	27	20	63	63	0	MYO1A,splice_region_variant,,ENST00000300119,;MYO1A,splice_region_variant,,ENST00000433964,;MYO1A,splice_region_variant,,ENST00000442789,;MYO1A,intron_variant,,ENST00000492945,;MYO1A,upstream_gene_variant,,ENST00000544473,;MYO1A,non_coding_transcript_exon_variant,,ENST00000471791,;MYO1A,upstream_gene_variant,,ENST00000554234,;	T	ENSG00000166866	ENST00000442789	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	MYO1A	HGNC	7595	protein_coding	YES	CCDS8929.1	ENSP00000393392	MYO1A_HUMAN	Q13871_HUMAN,G3V587_HUMAN,F5GWY8_HUMAN,C9JU63_HUMAN	UPI000012FAC2	.	.	.	.	4/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE|VARSCANS	CTACTCACATA	.	3	BLCA
KIF5A	0	.	GRCh37	12	57972105	57972105	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2518C>T	p.Leu840Phe	p.L840F	ENST00000455537	23/29	93	82	11	84	84	0	KIF5A,missense_variant,p.Leu840Phe,ENST00000455537,;KIF5A,missense_variant,p.Leu751Phe,ENST00000286452,;KIF5A,upstream_gene_variant,,ENST00000552227,;	T	ENSG00000155980	ENST00000455537	Transcript	missense_variant	2792	2518	840	L/F	Ctt/Ttt	.	.	.	1	KIF5A	HGNC	6323	protein_coding	YES	CCDS8945.1	ENSP00000408979	KIF5A_HUMAN	.	UPI000013DE4C	.	deleterious(0)	probably_damaging(0.938)	23/29	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACAGCTTACA	.	2	BLCA
AGAP2	0	.	GRCh37	12	58124614	58124614	+	Silent	SNP	G	G	A	rs142624882	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2268C>T	p.%3D	p.L756L	ENST00000547588	11/19	45	41	4	46	46	0	AGAP2,synonymous_variant,p.%3D,ENST00000257897,;AGAP2,synonymous_variant,p.%3D,ENST00000549129,;AGAP2,synonymous_variant,p.%3D,ENST00000328568,;AGAP2,synonymous_variant,p.%3D,ENST00000547588,;AGAP2-AS1,downstream_gene_variant,,ENST00000542466,;	A	ENSG00000135439	ENST00000547588	Transcript	synonymous_variant	2268	2268	756	L	ctC/ctT	rs142624882	.	.	-1	AGAP2	HGNC	16921	protein_coding	YES	CCDS44932.1	ENSP00000449241	.	F8VVT9_HUMAN,B3KVD5_HUMAN	UPI00001AF80C	.	.	.	11/19	.	PROSITE_profiles:PS50003,hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF218,Pfam_domain:PF00169,SMART_domains:SM00233	.	.	.	.	.	.	.	A:0.0005	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGACGAGCCC	byFrequency|byCluster	4	BLCA
PTPRR	0	.	GRCh37	12	71056365	71056365	+	Silent	SNP	C	C	A	rs200506816	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1518G>T	p.%3D	p.P506P	ENST00000283228	11/14	70	51	19	82	82	0	PTPRR,synonymous_variant,p.%3D,ENST00000342084,;PTPRR,synonymous_variant,p.%3D,ENST00000440835,;PTPRR,synonymous_variant,p.%3D,ENST00000378778,;PTPRR,synonymous_variant,p.%3D,ENST00000283228,;PTPRR,synonymous_variant,p.%3D,ENST00000549308,;PTPRR,non_coding_transcript_exon_variant,,ENST00000549107,;PTPRR,non_coding_transcript_exon_variant,,ENST00000548220,;PTPRR,non_coding_transcript_exon_variant,,ENST00000537619,;PTPRR,non_coding_transcript_exon_variant,,ENST00000547752,;PTPRR,3_prime_UTR_variant,,ENST00000551219,;	A	ENSG00000153233	ENST00000283228	Transcript	synonymous_variant	1971	1518	506	P	ccG/ccT	rs200506816	.	.	-1	PTPRR	HGNC	9680	protein_coding	YES	CCDS8998.1	ENSP00000283228	PTPRR_HUMAN	Q68CP6_HUMAN,F8VVE9_HUMAN	UPI000013DD2F	.	.	.	11/14	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF41,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00194,PIRSF_domain:PIRSF001997,Superfamily_domains:SSF52799	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTCCGGCCA	byCluster|by1000G	5	BLCA
BBS10	0	.	GRCh37	12	76740245	76740245	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1520C>G	p.Ser507Ter	p.S507*	ENST00000393262	2/2	177	161	15	141	141	0	BBS10,stop_gained,p.Ser507Ter,ENST00000393262,;	C	ENSG00000179941	ENST00000393262	Transcript	stop_gained	1604	1520	507	S/*	tCa/tGa	.	.	.	-1	BBS10	HGNC	26291	protein_coding	YES	CCDS9014.2	ENSP00000376946	BBS10_HUMAN	.	UPI0000D720FE	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGTTGAATAC	.	3	BLCA
SYT1	0	.	GRCh37	12	79685800	79685800	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>A	p.Asp122Asn	p.D122N	ENST00000261205	6/11	86	81	5	67	67	0	SYT1,missense_variant,p.Asp24Asn,ENST00000549559,;SYT1,missense_variant,p.Asp119Asn,ENST00000552624,;SYT1,missense_variant,p.Asp119Asn,ENST00000457153,;SYT1,missense_variant,p.Asp122Asn,ENST00000446242,;SYT1,missense_variant,p.Asp122Asn,ENST00000393240,;SYT1,missense_variant,p.Asp122Asn,ENST00000261205,;SYT1,missense_variant,p.Asp122Asn,ENST00000552744,;	A	ENSG00000067715	ENST00000261205	Transcript	missense_variant	1021	364	122	D/N	Gat/Aat	.	.	.	1	SYT1	HGNC	11509	protein_coding	YES	CCDS9017.1	ENSP00000261205	SYT1_HUMAN	F8W1U9_HUMAN,F8VZY3_HUMAN,F8VYH8_HUMAN,F8VP93_HUMAN,C9JX50_HUMAN	UPI000013669A	.	tolerated(0.1)	benign(0.258)	6/11	.	hmmpanther:PTHR10024:SF183,hmmpanther:PTHR10024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGATGATGAT	.	2	BLCA
CEP290	0	.	GRCh37	12	88496808	88496808	+	Intron	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2818-20G>C	.	.	ENST00000552810	.	8	3	5	12	12	0	CEP290,5_prime_UTR_variant,,ENST00000547691,;CEP290,intron_variant,,ENST00000604024,;CEP290,intron_variant,,ENST00000552810,;CEP290,intron_variant,,ENST00000397838,;CEP290,intron_variant,,ENST00000309041,;	G	ENSG00000198707	ENST00000552810	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	CEP290	HGNC	29021	protein_coding	YES	CCDS55858.1	ENSP00000448012	CE290_HUMAN	.	UPI0000D60D15	.	.	.	.	25/53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATACACTGAGT	.	2	BLCA
PZP	0	.	GRCh37	12	9353577	9353577	+	Missense_Mutation	SNP	G	G	A	rs763184515	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.581C>T	p.Ser194Leu	p.S194L	ENST00000261336	6/36	72	65	7	90	90	0	PZP,missense_variant,p.Ser194Leu,ENST00000261336,;PZP,missense_variant,p.Ser63Leu,ENST00000381997,;PZP,3_prime_UTR_variant,,ENST00000535230,;	A	ENSG00000126838	ENST00000261336	Transcript	missense_variant	610	581	194	S/L	tCa/tTa	rs763184515	.	.	-1	PZP	HGNC	9750	protein_coding	YES	CCDS8600.1	ENSP00000261336	PZP_HUMAN	.	UPI000013D168	.	deleterious(0)	benign(0.286)	6/36	.	Pfam_domain:PF01835,hmmpanther:PTHR11412,hmmpanther:PTHR11412:SF87	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTGATGAGAGG	.	3	BLCA
TRPC4	0	.	GRCh37	13	38211241	38211241	+	Silent	SNP	A	A	G	rs373016207	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2748T>C	p.%3D	p.H916H	ENST00000379681	11/11	47	23	24	83	83	0	TRPC4,synonymous_variant,p.%3D,ENST00000379673,;TRPC4,synonymous_variant,p.%3D,ENST00000338947,;TRPC4,synonymous_variant,p.%3D,ENST00000379681,;TRPC4,synonymous_variant,p.%3D,ENST00000447043,;TRPC4,synonymous_variant,p.%3D,ENST00000379679,;TRPC4,synonymous_variant,p.%3D,ENST00000355779,;TRPC4,synonymous_variant,p.%3D,ENST00000358477,;TRPC4,synonymous_variant,p.%3D,ENST00000379705,;TRPC4,3_prime_UTR_variant,,ENST00000426868,;TRPC4,3_prime_UTR_variant,,ENST00000488717,;	G	ENSG00000133107	ENST00000379681	Transcript	synonymous_variant	2983	2748	916	H	caT/caC	rs373016207	.	.	-1	TRPC4	HGNC	12336	protein_coding	YES	CCDS45037.1	ENSP00000369003	TRPC4_HUMAN	.	UPI000006E5BE	.	.	.	11/11	.	hmmpanther:PTHR10117,hmmpanther:PTHR10117:SF25,Prints_domain:PR01645	.	.	.	.	.	.	.	G:0.0002	G:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTATGGTC	byFrequency|byCluster	5	BLCA
KBTBD7	0	.	GRCh37	13	41767574	41767574	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820G>C	p.Asp274His	p.D274H	ENST00000379483	1/1	46	26	19	81	81	0	KBTBD7,missense_variant,p.Asp274His,ENST00000379483,;	G	ENSG00000120696	ENST00000379483	Transcript	missense_variant	1129	820	274	D/H	Gat/Cat	.	.	.	-1	KBTBD7	HGNC	25266	protein_coding	YES	CCDS9377.1	ENSP00000368797	KBTB7_HUMAN	B4DS80_HUMAN	UPI0000071F8F	.	deleterious(0)	probably_damaging(0.961)	1/1	.	hmmpanther:PTHR24412:SF132,hmmpanther:PTHR24412,SMART_domains:SM00875,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCTTCTT	.	4	BLCA
THSD1	0	.	GRCh37	13	52972119	52972119	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269G>T	p.Cys90Phe	p.C90F	ENST00000258613	3/5	82	71	11	113	113	0	THSD1,missense_variant,p.Cys90Phe,ENST00000349258,;THSD1,missense_variant,p.Cys90Phe,ENST00000258613,;THSD1,intron_variant,,ENST00000544466,;RNY4P24,upstream_gene_variant,,ENST00000362735,;	A	ENSG00000136114	ENST00000258613	Transcript	missense_variant	448	269	90	C/F	tGc/tTc	.	.	.	-1	THSD1	HGNC	17754	protein_coding	YES	CCDS9432.1	ENSP00000258613	THSD1_HUMAN	F5H419_HUMAN	UPI000007376D	.	deleterious(0)	probably_damaging(0.999)	3/5	.	hmmpanther:PTHR16311	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAAGCACTCA	.	4	BLCA
PCDH20	0	.	GRCh37	13	61987764	61987764	+	Silent	SNP	C	C	A	rs369000947	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.468G>T	p.%3D	p.G156G	ENST00000409186	5/5	19	15	3	30	30	0	PCDH20,synonymous_variant,p.%3D,ENST00000409204,;PCDH20,synonymous_variant,p.%3D,ENST00000409186,;	A	ENSG00000197991	ENST00000409186	Transcript	synonymous_variant	2574	468	156	G	ggG/ggT	rs369000947	.	.	-1	PCDH20	HGNC	14257	protein_coding	YES	CCDS9442.2	ENSP00000386653	PCD20_HUMAN	B3KSZ7_HUMAN	UPI000007371F	.	.	.	5/5	.	hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF24,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCACCCCCTTC	byFrequency|byCluster	3	BLCA
MIR17HG	0	.	GRCh37	13	92002932	92002932	+	RNA	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1121A>G	.	.	ENST00000582141	2/2	196	54	142	189	189	0	MIR17HG,non_coding_transcript_exon_variant,,ENST00000581816,;MIR17HG,non_coding_transcript_exon_variant,,ENST00000385012,;MIR17HG,intron_variant,,ENST00000400282,;MIR17HG,upstream_gene_variant,,ENST00000362279,;MIR17HG,upstream_gene_variant,,ENST00000362310,;MIR17HG,upstream_gene_variant,,ENST00000385233,;MIR17HG,upstream_gene_variant,,ENST00000384878,;MIR17HG,upstream_gene_variant,,ENST00000384829,;MIR17HG,non_coding_transcript_exon_variant,,ENST00000582141,;	G	ENSG00000215417	ENST00000582141	Transcript	non_coding_transcript_exon_variant	1121	.	.	.	.	.	.	.	1	MIR17HG	HGNC	23564	retained_intron	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAGCATTATG	.	5	BLCA
DZIP1	0	.	GRCh37	13	96272168	96272168	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1144C>T	p.His382Tyr	p.H382Y	ENST00000347108	8/21	278	217	60	277	277	0	DZIP1,missense_variant,p.His382Tyr,ENST00000376829,;DZIP1,missense_variant,p.His382Tyr,ENST00000361396,;DZIP1,missense_variant,p.His382Tyr,ENST00000361156,;DZIP1,missense_variant,p.His382Tyr,ENST00000347108,;DZIP1,3_prime_UTR_variant,,ENST00000466569,;	A	ENSG00000134874	ENST00000347108	Transcript	missense_variant	1577	1144	382	H/Y	Cat/Tat	.	.	.	-1	DZIP1	HGNC	20908	protein_coding	YES	CCDS9478.1	ENSP00000257312	DZIP1_HUMAN	B3KSP1_HUMAN	UPI000000D9B8	.	deleterious(0.03)	benign(0.248)	8/21	.	hmmpanther:PTHR21502,hmmpanther:PTHR21502:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGATGAATAG	.	5	BLCA
DZIP1	0	.	GRCh37	13	96277122	96277122	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.872A>G	p.Glu291Gly	p.E291G	ENST00000347108	6/21	35	20	15	32	31	0	DZIP1,missense_variant,p.Glu291Gly,ENST00000376829,;DZIP1,missense_variant,p.Glu291Gly,ENST00000361396,;DZIP1,missense_variant,p.Glu291Gly,ENST00000361156,;DZIP1,missense_variant,p.Glu291Gly,ENST00000347108,;DZIP1,3_prime_UTR_variant,,ENST00000466569,;	C	ENSG00000134874	ENST00000347108	Transcript	missense_variant	1305	872	291	E/G	gAa/gGa	.	.	.	-1	DZIP1	HGNC	20908	protein_coding	YES	CCDS9478.1	ENSP00000257312	DZIP1_HUMAN	B3KSP1_HUMAN	UPI000000D9B8	.	deleterious(0)	probably_damaging(0.972)	6/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21502,hmmpanther:PTHR21502:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTTCTTCTTTC	.	4	BLCA
GPR183	0	.	GRCh37	13	99947382	99947382	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1018G>A	p.Glu340Lys	p.E340K	ENST00000376414	2/2	65	52	13	84	84	0	GPR183,missense_variant,p.Glu340Lys,ENST00000376414,;UBAC2,intron_variant,,ENST00000376440,;UBAC2,intron_variant,,ENST00000355700,;UBAC2,intron_variant,,ENST00000403766,;UBAC2,intron_variant,,ENST00000494576,;UBAC2,intron_variant,,ENST00000473091,;UBAC2,intron_variant,,ENST00000468067,;	T	ENSG00000169508	ENST00000376414	Transcript	missense_variant	1102	1018	340	E/K	Gaa/Aaa	.	.	.	-1	GPR183	HGNC	3128	protein_coding	YES	CCDS9492.1	ENSP00000365596	GP183_HUMAN	.	UPI0000001068	.	deleterious(0.04)	benign(0.23)	2/2	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR24237:SF7,hmmpanther:PTHR24237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A338V|c.1013C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCAGGGG	.	5	BLCA
IGHA1	0	.	GRCh37	14	106173615	106173615	+	Missense_Mutation	SNP	C	C	T	rs370788192	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952G>A	p.Glu318Lys	p.E318K	ENST00000390547	3/3	70	61	8	82	82	0	IGHA1,missense_variant,p.Glu318Lys,ENST00000390547,;AL928768.3,upstream_gene_variant,,ENST00000497872,;AL901608.1,downstream_gene_variant,,ENST00000581070,;	T	ENSG00000211895	ENST00000390547	Transcript	missense_variant	952	952	318	E/K	Gag/Aag	rs370788192	.	.	-1	IGHA1	HGNC	5478	IG_C_gene	YES	.	ENSP00000374989	IGHA1_HUMAN	Q9UP60_HUMAN,Q96K68_HUMAN,Q8NCL6_HUMAN,Q6MZW0_HUMAN	UPI000004718D	.	deleterious(0)	probably_damaging(1)	3/3	.	Superfamily_domains:SSF48726,SMART_domains:SM00407,Gene3D:2.60.40.10,Pfam_domain:PF07654,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGTGGC	byFrequency|byCluster	4	BLCA
NGDN	0	.	GRCh37	14	23946758	23946758	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.917G>A	p.Arg306Gln	p.R306Q	ENST00000408901	10/11	41	34	7	29	29	0	NGDN,missense_variant,p.Arg306Gln,ENST00000408901,;NGDN,missense_variant,p.Arg64Gln,ENST00000556699,;NGDN,missense_variant,p.Arg306Gln,ENST00000397154,;NGDN,missense_variant,p.Arg62Gln,ENST00000556580,;NGDN,missense_variant,p.Arg254Gln,ENST00000556483,;NGDN,downstream_gene_variant,,ENST00000555128,;NGDN,non_coding_transcript_exon_variant,,ENST00000553439,;NGDN,non_coding_transcript_exon_variant,,ENST00000556103,;NGDN,downstream_gene_variant,,ENST00000556022,;NGDN,downstream_gene_variant,,ENST00000553336,;	A	ENSG00000129460	ENST00000408901	Transcript	missense_variant	945	917	306	R/Q	cGg/cAg	.	.	.	1	NGDN	HGNC	20271	protein_coding	YES	CCDS41926.1	ENSP00000386134	NGDN_HUMAN	G3V601_HUMAN,G3V4G1_HUMAN	UPI000006F7A0	.	tolerated(0.43)	unknown(0)	10/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTCGGAAGA	.	5	BLCA
SSTR1	0	.	GRCh37	14	38678915	38678915	+	Silent	SNP	C	C	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321C>A	p.%3D	p.L107L	ENST00000267377	3/3	174	154	19	167	167	0	SSTR1,synonymous_variant,p.%3D,ENST00000267377,;	A	ENSG00000139874	ENST00000267377	Transcript	synonymous_variant	938	321	107	L	ctC/ctA	COSM1748839	.	.	1	SSTR1	HGNC	11330	protein_coding	YES	CCDS9666.1	ENSP00000267377	SSR1_HUMAN	.	UPI0000001C3C	.	.	.	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24229:SF3,hmmpanther:PTHR24229,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTCATGCT	.	4	BLCA
MDGA2	0	.	GRCh37	14	47311142	47311142	+	Missense_Mutation	SNP	G	G	C	rs747291907	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3070C>G	p.Arg1024Gly	p.R1024G	ENST00000439988	17/17	40	33	7	57	57	0	MDGA2,missense_variant,p.Arg157Gly,ENST00000399222,;MDGA2,missense_variant,p.Arg726Gly,ENST00000357362,;MDGA2,missense_variant,p.Arg1024Gly,ENST00000439988,;MDGA2,missense_variant,p.Arg726Gly,ENST00000426342,;MDGA2,missense_variant,p.Arg955Gly,ENST00000399232,;	C	ENSG00000272781	ENST00000439988	Transcript	missense_variant	3070	3070	1024	R/G	Cga/Gga	rs747291907	.	.	-1	MDGA2	Uniprot_gn	19835	protein_coding	YES	.	ENSP00000400011	MDGA2_HUMAN	F8WE89_HUMAN	UPI0001DD21C1	.	tolerated_low_confidence(0.07)	benign(0.099)	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTCGAGGAC	byFrequency	5	BLCA
SLC39A9	0	.	GRCh37	14	69925089	69925089	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.703G>A	p.Glu235Lys	p.E235K	ENST00000336643	7/7	148	93	55	187	187	0	SLC39A9,missense_variant,p.Glu235Lys,ENST00000336643,;SLC39A9,missense_variant,p.Glu212Lys,ENST00000557046,;SLC39A9,missense_variant,p.Glu169Lys,ENST00000031146,;SLC39A9,intron_variant,,ENST00000556605,;SLC39A9,non_coding_transcript_exon_variant,,ENST00000555245,;SLC39A9,missense_variant,p.Glu235Lys,ENST00000555840,;SLC39A9,non_coding_transcript_exon_variant,,ENST00000554023,;SLC39A9,non_coding_transcript_exon_variant,,ENST00000538956,;	A	ENSG00000029364	ENST00000336643	Transcript	missense_variant	1381	703	235	E/K	Gaa/Aaa	.	.	.	1	SLC39A9	HGNC	20182	protein_coding	YES	CCDS9795.1	ENSP00000336887	S39A9_HUMAN	C4N9M8_HUMAN,B4DDK0_HUMAN	UPI0000040C12	.	deleterious(0.03)	benign(0.035)	7/7	.	hmmpanther:PTHR16133:SF2,hmmpanther:PTHR16133,Pfam_domain:PF02535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAAAGAAGCC	.	5	BLCA
FAM181A	0	.	GRCh37	14	94395292	94395292	+	Nonsense_Mutation	SNP	C	C	T	rs745432413	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.847C>T	p.Gln283Ter	p.Q283*	ENST00000267594	3/3	34	14	19	48	48	0	FAM181A,stop_gained,p.Gln221Ter,ENST00000557719,;FAM181A,stop_gained,p.Gln221Ter,ENST00000557000,;FAM181A,stop_gained,p.Gln221Ter,ENST00000554404,;FAM181A,stop_gained,p.Gln221Ter,ENST00000556222,;FAM181A,stop_gained,p.Gln283Ter,ENST00000267594,;FAM181A-AS1,upstream_gene_variant,,ENST00000554742,;FAM181A-AS1,upstream_gene_variant,,ENST00000554538,;FAM181A-AS1,upstream_gene_variant,,ENST00000555732,;FAM181A-AS1,upstream_gene_variant,,ENST00000556290,;	T	ENSG00000140067	ENST00000267594	Transcript	stop_gained	1154	847	283	Q/*	Cag/Tag	rs745432413,COSM1371736	.	.	1	FAM181A	HGNC	20491	protein_coding	YES	CCDS9914.1	ENSP00000267594	F181A_HUMAN	G3V5K4_HUMAN	UPI00004567C0	.	.	.	3/3	.	Pfam_domain:PF15238	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGACAGCCC	.	5	BLCA
GABRG3	0	.	GRCh37	15	27777982	27777982	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1359C>T	p.%3D	p.F453F	ENST00000333743	10/10	50	47	3	44	44	0	GABRG3,synonymous_variant,p.%3D,ENST00000333743,;GABRG3,downstream_gene_variant,,ENST00000451330,;RP11-100M12.3,intron_variant,,ENST00000556642,;RP11-100M12.3,downstream_gene_variant,,ENST00000557170,;	T	ENSG00000182256	ENST00000333743	Transcript	synonymous_variant	1613	1359	453	F	ttC/ttT	.	.	.	1	GABRG3	HGNC	4088	protein_coding	YES	CCDS45195.1	ENSP00000331912	GBRG3_HUMAN	.	UPI000012AFCB	.	.	.	10/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR18945:SF195,hmmpanther:PTHR18945,Gene3D:1.20.58.390,TIGRFAM_domain:TIGR00860,Superfamily_domains:SSF90112,Prints_domain:PR00253	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTTCCTGCT	.	2	BLCA
APBA2	0	.	GRCh37	15	29393880	29393880	+	Missense_Mutation	SNP	C	C	T	rs202208854	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1417C>T	p.Arg473Cys	p.R473C	ENST00000558402	11/16	22	16	6	23	23	0	APBA2,missense_variant,p.Arg473Cys,ENST00000558259,;APBA2,missense_variant,p.Arg473Cys,ENST00000561069,;APBA2,missense_variant,p.Arg473Cys,ENST00000558402,;APBA2,missense_variant,p.Arg461Cys,ENST00000411764,;APBA2,missense_variant,p.Arg461Cys,ENST00000558330,;APBA2,non_coding_transcript_exon_variant,,ENST00000559814,;APBA2,non_coding_transcript_exon_variant,,ENST00000382938,;	T	ENSG00000034053	ENST00000558402	Transcript	missense_variant	2016	1417	473	R/C	Cgc/Tgc	rs202208854	.	.	1	APBA2	HGNC	579	protein_coding	YES	CCDS10022.1	ENSP00000453293	APBA2_HUMAN	H0YNG7_HUMAN,H0YNE8_HUMAN,H0YMS0_HUMAN,H0YL28_HUMAN	UPI0000046798	.	deleterious(0)	probably_damaging(1)	11/16	.	PROSITE_profiles:PS01179,hmmpanther:PTHR12345,hmmpanther:PTHR12345:SF12,Gene3D:2.30.29.30,Pfam_domain:PF00640,SMART_domains:SM00462,Superfamily_domains:SSF50729	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGACGCCGC	byCluster|by1000G	5	BLCA
RYR3	0	.	GRCh37	15	33938626	33938626	+	Silent	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3840T>C	p.%3D	p.N1280N	ENST00000389232	29/104	206	134	72	189	189	0	RYR3,synonymous_variant,p.%3D,ENST00000389232,;RYR3,synonymous_variant,p.%3D,ENST00000415757,;	C	ENSG00000198838	ENST00000389232	Transcript	synonymous_variant	3910	3840	1280	N	aaT/aaC	.	.	.	1	RYR3	HGNC	10485	protein_coding	YES	CCDS45210.1	ENSP00000373884	RYR3_HUMAN	.	UPI0000E5B01A	.	.	.	29/104	.	hmmpanther:PTHR13715:SF16,hmmpanther:PTHR13715,PROSITE_profiles:PS50188	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAATAGCAA	.	5	BLCA
DISP2	0	.	GRCh37	15	40661641	40661641	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3328C>T	p.Leu1110Phe	p.L1110F	ENST00000267889	8/8	60	48	11	66	66	0	DISP2,missense_variant,p.Leu1110Phe,ENST00000267889,;DISP2,upstream_gene_variant,,ENST00000558623,;LINC00594,upstream_gene_variant,,ENST00000561261,;RP11-64K12.4,non_coding_transcript_exon_variant,,ENST00000558421,;RP11-64K12.10,upstream_gene_variant,,ENST00000567002,;DISP2,downstream_gene_variant,,ENST00000559721,;	T	ENSG00000140323	ENST00000267889	Transcript	missense_variant	3415	3328	1110	L/F	Ctc/Ttc	.	.	.	1	DISP2	HGNC	19712	protein_coding	YES	CCDS10056.1	ENSP00000267889	DISP2_HUMAN	.	UPI0000160F9B	.	deleterious(0)	probably_damaging(1)	8/8	.	hmmpanther:PTHR10796:SF58,hmmpanther:PTHR10796,Gene3D:2j8sB01,Superfamily_domains:SSF82866	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCTCTCTGC	.	5	BLCA
DNAJC17	0	.	GRCh37	15	41071757	41071757	+	Missense_Mutation	SNP	C	C	T	rs181009746	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>A	p.Asp65Asn	p.D65N	ENST00000220496	3/11	73	46	26	52	52	0	DNAJC17,missense_variant,p.Asp65Asn,ENST00000220496,;DNAJC17,non_coding_transcript_exon_variant,,ENST00000561044,;DNAJC17,missense_variant,p.Asp65Asn,ENST00000560065,;DNAJC17,missense_variant,p.Asp65Asn,ENST00000560645,;DNAJC17,missense_variant,p.Asp65Asn,ENST00000559310,;DNAJC17,missense_variant,p.Asp65Asn,ENST00000561018,;DNAJC17,3_prime_UTR_variant,,ENST00000559238,;DNAJC17,non_coding_transcript_exon_variant,,ENST00000560301,;DNAJC17,upstream_gene_variant,,ENST00000558769,;DNAJC17,upstream_gene_variant,,ENST00000561110,;	T	ENSG00000104129	ENST00000220496	Transcript	missense_variant	224	193	65	D/N	Gat/Aat	rs181009746	.	.	-1	DNAJC17	HGNC	25556	protein_coding	YES	CCDS10065.1	ENSP00000220496	DJC17_HUMAN	.	UPI00000375AE	.	deleterious(0.01)	probably_damaging(0.95)	3/11	.	Prints_domain:PR00625,Superfamily_domains:SSF46565,SMART_domains:SM00271,Gene3D:1.10.287.110,Pfam_domain:PF00226,hmmpanther:PTHR24078:SF153,hmmpanther:PTHR24078,PROSITE_profiles:PS50076	T:0.0010	T:0	T:0	.	T:0.005	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCGGTCA	byFrequency|byCluster|by1000G	5	BLCA
SPINT1	0	.	GRCh37	15	41148208	41148208	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1284G>C	p.Lys428Asn	p.K428N	ENST00000344051	9/11	111	102	8	146	146	0	SPINT1,missense_variant,p.Lys412Asn,ENST00000562057,;SPINT1,missense_variant,p.Lys195Asn,ENST00000564375,;SPINT1,missense_variant,p.Lys412Asn,ENST00000431806,;SPINT1,missense_variant,p.Lys188Asn,ENST00000566928,;SPINT1,missense_variant,p.Lys104Asn,ENST00000569589,;SPINT1,missense_variant,p.Lys428Asn,ENST00000344051,;SPINT1,missense_variant,p.Lys379Asn,ENST00000568580,;SPINT1,downstream_gene_variant,,ENST00000563656,;SPINT1,downstream_gene_variant,,ENST00000568823,;SPINT1,non_coding_transcript_exon_variant,,ENST00000563135,;SPINT1,non_coding_transcript_exon_variant,,ENST00000568200,;SPINT1,non_coding_transcript_exon_variant,,ENST00000566642,;	C	ENSG00000166145	ENST00000344051	Transcript	missense_variant	1518	1284	428	K/N	aaG/aaC	.	.	.	1	SPINT1	HGNC	11246	protein_coding	YES	CCDS10067.1	ENSP00000342098	SPIT1_HUMAN	H3BTQ8_HUMAN	UPI00001AE46F	.	tolerated(0.27)	benign(0.021)	9/11	.	PROSITE_profiles:PS50279,hmmpanther:PTHR10083:SF174,hmmpanther:PTHR10083,PROSITE_patterns:PS00280,Gene3D:4.10.410.10,Pfam_domain:PF00014,SMART_domains:SM00131,Superfamily_domains:SSF57362,Prints_domain:PR00759	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACAAGAACAA	.	2	BLCA
RPAP1	0	.	GRCh37	15	41814013	41814013	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2961G>A	p.%3D	p.L987L	ENST00000304330	21/25	24	17	7	42	42	0	RPAP1,synonymous_variant,p.%3D,ENST00000561603,;RPAP1,synonymous_variant,p.%3D,ENST00000304330,;RPAP1,downstream_gene_variant,,ENST00000565035,;RPAP1,synonymous_variant,p.%3D,ENST00000562303,;RPAP1,upstream_gene_variant,,ENST00000565167,;RPAP1,downstream_gene_variant,,ENST00000564934,;RPAP1,downstream_gene_variant,,ENST00000561631,;	T	ENSG00000103932	ENST00000304330	Transcript	synonymous_variant	3078	2961	987	L	ctG/ctA	.	.	.	-1	RPAP1	HGNC	24567	protein_coding	YES	CCDS10079.1	ENSP00000306123	RPAP1_HUMAN	H3BPY8_HUMAN,H3BPM3_HUMAN	UPI000013D465	.	.	.	21/25	.	hmmpanther:PTHR21483:SF18,hmmpanther:PTHR21483	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCTCAGCAG	.	5	BLCA
CAPN3	0	.	GRCh37	15	42678404	42678404	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.419T>C	p.Leu140Pro	p.L140P	ENST00000397163	3/24	66	52	13	83	82	1	CAPN3,missense_variant,p.Leu140Pro,ENST00000397163,;CAPN3,missense_variant,p.Leu140Pro,ENST00000349748,;CAPN3,missense_variant,p.Leu53Pro,ENST00000356316,;CAPN3,missense_variant,p.Leu140Pro,ENST00000318023,;CAPN3,missense_variant,p.Leu140Pro,ENST00000357568,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000549793,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000466369,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000483208,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000495723,;	C	ENSG00000092529	ENST00000397163	Transcript	missense_variant	638	419	140	L/P	cTg/cCg	.	.	.	1	CAPN3	HGNC	1480	protein_coding	YES	CCDS45245.1	ENSP00000380349	CAN3_HUMAN	H3BS30_HUMAN	UPI000000103F	.	deleterious(0)	probably_damaging(0.998)	3/24	.	Superfamily_domains:SSF54001,SMART_domains:SM00230,Pfam_domain:PF00648,hmmpanther:PTHR10183:SF49,hmmpanther:PTHR10183,PROSITE_profiles:PS50203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCCTGAACC	.	5	BLCA
UBR1	0	.	GRCh37	15	43339379	43339379	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1648C>T	p.Gln550Ter	p.Q550*	ENST00000290650	14/47	317	262	55	210	210	0	UBR1,stop_gained,p.Gln550Ter,ENST00000382177,;UBR1,stop_gained,p.Gln550Ter,ENST00000290650,;UBR1,3_prime_UTR_variant,,ENST00000563239,;UBR1,3_prime_UTR_variant,,ENST00000569971,;UBR1,non_coding_transcript_exon_variant,,ENST00000546274,;	A	ENSG00000159459	ENST00000290650	Transcript	stop_gained	1727	1648	550	Q/*	Caa/Taa	CM054874	.	.	-1	UBR1	HGNC	16808	protein_coding	YES	CCDS10091.1	ENSP00000290650	UBR1_HUMAN	.	UPI0000074467	.	.	.	14/47	.	hmmpanther:PTHR21497:SF27,hmmpanther:PTHR21497	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTGGAACA	.	4	BLCA
UBR1	0	.	GRCh37	15	43339380	43339380	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1647C>A	p.Phe549Leu	p.F549L	ENST00000290650	14/47	319	263	56	216	216	0	UBR1,missense_variant,p.Phe549Leu,ENST00000382177,;UBR1,missense_variant,p.Phe549Leu,ENST00000290650,;UBR1,3_prime_UTR_variant,,ENST00000563239,;UBR1,3_prime_UTR_variant,,ENST00000569971,;UBR1,non_coding_transcript_exon_variant,,ENST00000546274,;	T	ENSG00000159459	ENST00000290650	Transcript	missense_variant	1726	1647	549	F/L	ttC/ttA	COSM3501343	.	.	-1	UBR1	HGNC	16808	protein_coding	YES	CCDS10091.1	ENSP00000290650	UBR1_HUMAN	.	UPI0000074467	.	tolerated(0.23)	possibly_damaging(0.46)	14/47	.	hmmpanther:PTHR21497:SF27,hmmpanther:PTHR21497	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTGGAACAT	.	4	BLCA
MAP1A	0	.	GRCh37	15	43821418	43821418	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7747G>T	p.Glu2583Ter	p.E2583*	ENST00000300231	4/6	37	30	7	44	44	0	MAP1A,stop_gained,p.Glu2583Ter,ENST00000300231,;MAP1A,stop_gained,p.Glu2821Ter,ENST00000382031,;MAP1A,stop_gained,p.Glu2583Ter,ENST00000399453,;PPIP5K1,downstream_gene_variant,,ENST00000396923,;PPIP5K1,downstream_gene_variant,,ENST00000360301,;PPIP5K1,downstream_gene_variant,,ENST00000381885,;PPIP5K1,downstream_gene_variant,,ENST00000381879,;PPIP5K1,downstream_gene_variant,,ENST00000420765,;PPIP5K1,downstream_gene_variant,,ENST00000348806,;PPIP5K1,downstream_gene_variant,,ENST00000360135,;PPIP5K1,downstream_gene_variant,,ENST00000334933,;	T	ENSG00000166963	ENST00000300231	Transcript	stop_gained	8197	7747	2583	E/*	Gag/Tag	COSM700491	.	.	1	MAP1A	HGNC	6835	protein_coding	YES	CCDS42031.1	ENSP00000300231	MAP1A_HUMAN	.	UPI000013E63C	.	.	.	4/6	.	hmmpanther:PTHR13843:SF6,hmmpanther:PTHR13843	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCCGAGGGG	.	5	BLCA
TRIM69	0	.	GRCh37	15	45047418	45047418	+	Silent	SNP	C	C	G	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327C>G	p.%3D	p.L109L	ENST00000559390	3/8	98	90	8	65	65	0	TRIM69,synonymous_variant,p.%3D,ENST00000329464,;TRIM69,synonymous_variant,p.%3D,ENST00000559390,;TRIM69,5_prime_UTR_variant,,ENST00000558173,;TRIM69,intron_variant,,ENST00000561043,;TRIM69,intron_variant,,ENST00000560442,;TRIM69,intron_variant,,ENST00000338264,;TRIM69,intron_variant,,ENST00000558329,;TRIM69,upstream_gene_variant,,ENST00000561170,;	G	ENSG00000185880	ENST00000559390	Transcript	synonymous_variant	1255	327	109	L	ctC/ctG	COSM349037	.	.	1	TRIM69	HGNC	17857	protein_coding	YES	CCDS32220.1	ENSP00000453177	TRI69_HUMAN	.	UPI0000246EB4	.	.	.	3/8	.	hmmpanther:PTHR24103:SF309,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTACTCAAGGG	.	3	BLCA
DUOX2	0	.	GRCh37	15	45401813	45401813	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1143G>A	p.%3D	p.L381L	ENST00000603300	11/34	98	68	30	100	100	0	DUOX2,synonymous_variant,p.%3D,ENST00000389039,;DUOX2,synonymous_variant,p.%3D,ENST00000603300,;DUOXA2,upstream_gene_variant,,ENST00000323030,;DUOX2,non_coding_transcript_exon_variant,,ENST00000558383,;DUOXA2,upstream_gene_variant,,ENST00000350243,;DUOXA2,upstream_gene_variant,,ENST00000491993,;	T	ENSG00000140279	ENST00000603300	Transcript	synonymous_variant	1346	1143	381	L	ctG/ctA	.	.	.	-1	DUOX2	HGNC	13273	protein_coding	YES	CCDS10117.1	ENSP00000475084	DUOX2_HUMAN	S6B490_HUMAN	UPI000013D775	.	.	.	11/34	.	PROSITE_profiles:PS50292,hmmpanther:PTHR11972,hmmpanther:PTHR11972:SF53,Gene3D:1.10.640.10,Pfam_domain:PF03098,Superfamily_domains:SSF48113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTCAGATT	.	5	BLCA
FBN1	0	.	GRCh37	15	48739011	48739011	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5680G>A	p.Glu1894Lys	p.E1894K	ENST00000316623	47/66	89	81	7	66	65	0	FBN1,missense_variant,p.Glu1894Lys,ENST00000316623,;FBN1,missense_variant,p.Glu330Lys,ENST00000559133,;FBN1,3_prime_UTR_variant,,ENST00000537463,;FBN1,upstream_gene_variant,,ENST00000560820,;	T	ENSG00000166147	ENST00000316623	Transcript	missense_variant	6136	5680	1894	E/K	Gaa/Aaa	CM085421	.	.	-1	FBN1	HGNC	3603	protein_coding	YES	CCDS32232.1	ENSP00000325527	FBN1_HUMAN	Q75N89_HUMAN,Q75N88_HUMAN,H0YN80_HUMAN	UPI0000163B0B	.	.	possibly_damaging(0.848)	47/66	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF22,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,PIRSF_domain:PIRSF036312,SMART_domains:SM00181,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	ACATTCATTTA	.	3	BLCA
AP4E1	0	.	GRCh37	15	51291311	51291311	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2947G>A	p.Glu983Lys	p.E983K	ENST00000261842	19/21	84	65	18	65	65	0	AP4E1,missense_variant,p.Glu983Lys,ENST00000261842,;AP4E1,missense_variant,p.Glu908Lys,ENST00000560508,;AP4E1,intron_variant,,ENST00000561397,;AP4E1,3_prime_UTR_variant,,ENST00000558439,;AP4E1,3_prime_UTR_variant,,ENST00000561393,;	A	ENSG00000081014	ENST00000261842	Transcript	missense_variant	3053	2947	983	E/K	Gaa/Aaa	.	.	.	1	AP4E1	HGNC	573	protein_coding	YES	CCDS32240.1	ENSP00000261842	AP4E1_HUMAN	.	UPI00001D89D8	.	tolerated(0.33)	benign(0.155)	19/21	.	hmmpanther:PTHR22780:SF13,hmmpanther:PTHR22780,PIRSF_domain:PIRSF037097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCAGAAAGC	.	5	BLCA
DYX1C1	0	.	GRCh37	15	55727166	55727166	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984G>A	p.%3D	p.L328L	ENST00000321149	8/10	113	91	21	91	91	0	DYX1C1,synonymous_variant,p.%3D,ENST00000380679,;DYX1C1,synonymous_variant,p.%3D,ENST00000448430,;DYX1C1,synonymous_variant,p.%3D,ENST00000321149,;DYX1C1,synonymous_variant,p.%3D,ENST00000457155,;DYX1C1,synonymous_variant,p.%3D,ENST00000348518,;DYX1C1-CCPG1,non_coding_transcript_exon_variant,,ENST00000565113,;DYX1C1-CCPG1,intron_variant,,ENST00000568310,;DYX1C1,3_prime_UTR_variant,,ENST00000524160,;	T	ENSG00000256061	ENST00000321149	Transcript	synonymous_variant	1352	984	328	L	ttG/ttA	.	.	.	-1	DYX1C1	HGNC	21493	protein_coding	YES	CCDS10154.1	ENSP00000323275	DYXC1_HUMAN	.	UPI000013E5B8	.	.	.	8/10	.	PROSITE_profiles:PS50293,PROSITE_profiles:PS50005,hmmpanther:PTHR22904,hmmpanther:PTHR22904:SF277,Gene3D:1.25.40.10,Pfam_domain:PF13414,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGTTCAAATA	.	5	BLCA
RFX7	0	.	GRCh37	15	56387673	56387673	+	Silent	SNP	T	T	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2253A>C	p.%3D	p.S751S	ENST00000423270	9/9	42	38	4	49	49	0	RFX7,synonymous_variant,p.%3D,ENST00000423270,;RFX7,synonymous_variant,p.%3D,ENST00000559447,;RFX7,synonymous_variant,p.%3D,ENST00000317318,;RFX7,synonymous_variant,p.%3D,ENST00000422057,;RFX7,synonymous_variant,p.%3D,ENST00000559847,;	G	ENSG00000181827	ENST00000423270	Transcript	synonymous_variant	2253	2253	751	S	tcA/tcC	.	.	.	-1	RFX7	HGNC	25777	protein_coding	YES	.	ENSP00000397644	RFX7_HUMAN	H0YMH6_HUMAN,H0YLP2_HUMAN	UPI000057809D	.	.	.	9/9	.	hmmpanther:PTHR12619:SF2,hmmpanther:PTHR12619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GATGATGATGG	.	3	BLCA
DENND4A	0	.	GRCh37	15	65993436	65993436	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2654A>G	p.Lys885Arg	p.K885R	ENST00000443035	19/33	67	55	12	79	79	0	DENND4A,missense_variant,p.Lys885Arg,ENST00000564674,;DENND4A,missense_variant,p.Lys885Arg,ENST00000443035,;DENND4A,missense_variant,p.Lys885Arg,ENST00000431932,;snoU13,upstream_gene_variant,,ENST00000459325,;DENND4A,non_coding_transcript_exon_variant,,ENST00000562028,;	C	ENSG00000174485	ENST00000443035	Transcript	missense_variant	2870	2654	885	K/R	aAa/aGa	.	.	.	-1	DENND4A	HGNC	24321	protein_coding	YES	CCDS53949.1	ENSP00000391167	MYCPP_HUMAN	.	UPI000013EDF7	.	tolerated(0.89)	benign(0.275)	19/33	.	hmmpanther:PTHR12296:SF16,hmmpanther:PTHR12296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCTTTTGAAC	.	3	BLCA
CORO2B	0	.	GRCh37	15	68987595	68987595	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333G>A	p.%3D	p.S111S	ENST00000566799	3/12	55	29	26	75	75	0	CORO2B,synonymous_variant,p.%3D,ENST00000566799,;CORO2B,synonymous_variant,p.%3D,ENST00000540068,;CORO2B,synonymous_variant,p.%3D,ENST00000261861,;CORO2B,synonymous_variant,p.%3D,ENST00000543950,;	A	ENSG00000103647	ENST00000566799	Transcript	synonymous_variant	362	333	111	S	tcG/tcA	.	.	.	1	CORO2B	HGNC	2256	protein_coding	YES	CCDS10229.2	ENSP00000454783	COR2B_HUMAN	B3KWB4_HUMAN	UPI0000E59C95	.	.	.	3/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF17,PROSITE_patterns:PS00678,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGTCGGTGAG	.	5	BLCA
LMAN1L	0	.	GRCh37	15	75111600	75111600	+	Silent	SNP	C	C	T	rs759513043	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705C>T	p.%3D	p.T235T	ENST00000309664	6/14	80	67	12	138	138	0	LMAN1L,synonymous_variant,p.%3D,ENST00000379709,;LMAN1L,synonymous_variant,p.%3D,ENST00000309664,;LMAN1L,downstream_gene_variant,,ENST00000562810,;LMAN1L,upstream_gene_variant,,ENST00000567848,;LMAN1L,non_coding_transcript_exon_variant,,ENST00000456603,;RP11-414J4.2,non_coding_transcript_exon_variant,,ENST00000488000,;LMAN1L,non_coding_transcript_exon_variant,,ENST00000470711,;LMAN1L,downstream_gene_variant,,ENST00000570147,;LMAN1L,upstream_gene_variant,,ENST00000566046,;LMAN1L,downstream_gene_variant,,ENST00000568467,;LMAN1L,upstream_gene_variant,,ENST00000565585,;RP11-414J4.2,upstream_gene_variant,,ENST00000564823,;	T	ENSG00000140506	ENST00000309664	Transcript	synonymous_variant	844	705	235	T	acC/acT	rs759513043	.	.	1	LMAN1L	HGNC	6632	protein_coding	YES	CCDS10270.1	ENSP00000310431	LMA1L_HUMAN	.	UPI00001AEF1F	.	.	.	6/14	.	Superfamily_domains:SSF49899,Pfam_domain:PF03388,Gene3D:2.60.120.200,hmmpanther:PTHR12223:SF27,hmmpanther:PTHR12223,PROSITE_profiles:PS51328	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCACCGGCAC	byFrequency	5	BLCA
SCAPER	0	.	GRCh37	15	77067265	77067265	+	Silent	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966T>C	p.%3D	p.S322S	ENST00000563290	9/32	83	53	30	102	102	0	SCAPER,synonymous_variant,p.%3D,ENST00000324767,;SCAPER,synonymous_variant,p.%3D,ENST00000538941,;SCAPER,synonymous_variant,p.%3D,ENST00000564022,;SCAPER,synonymous_variant,p.%3D,ENST00000563290,;SCAPER,synonymous_variant,p.%3D,ENST00000564590,;SCAPER,synonymous_variant,p.%3D,ENST00000565970,;SCAPER,non_coding_transcript_exon_variant,,ENST00000567618,;SCAPER,downstream_gene_variant,,ENST00000562890,;SCAPER,3_prime_UTR_variant,,ENST00000568549,;SCAPER,3_prime_UTR_variant,,ENST00000565507,;SCAPER,non_coding_transcript_exon_variant,,ENST00000303521,;	G	ENSG00000140386	ENST00000563290	Transcript	synonymous_variant	1062	966	322	S	tcT/tcC	.	.	.	-1	SCAPER	HGNC	13081	protein_coding	YES	CCDS53962.1	ENSP00000454973	SCAPE_HUMAN	H3BTY2_HUMAN,H3BR40_HUMAN,H3BPB0_HUMAN	UPI0000E59CC3	.	.	.	9/32	.	hmmpanther:PTHR31434,hmmpanther:PTHR31434:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTATTAGAAGT	.	5	BLCA
PLIN1	0	.	GRCh37	15	90210391	90210391	+	Nonsense_Mutation	SNP	G	G	A	rs147317847	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.985C>T	p.Arg329Ter	p.R329*	ENST00000300055	8/9	67	57	10	74	74	0	PLIN1,stop_gained,p.Arg329Ter,ENST00000430628,;PLIN1,stop_gained,p.Arg329Ter,ENST00000300055,;PLIN1,stop_gained,p.Arg21Ter,ENST00000560330,;	A	ENSG00000166819	ENST00000300055	Transcript	stop_gained	1151	985	329	R/*	Cga/Tga	rs147317847	.	.	-1	PLIN1	HGNC	9076	protein_coding	YES	CCDS10353.1	ENSP00000300055	PLIN1_HUMAN	.	UPI000013E61C	.	.	.	8/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14024,hmmpanther:PTHR14024:SF23,Pfam_domain:PF03036,PIRSF_domain:PIRSF036881	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTCGAGGGC	byCluster	5	BLCA
IDH2	0	.	GRCh37	15	90633751	90633751	+	Silent	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333C>G	p.%3D	p.V111V	ENST00000330062	3/11	44	38	6	32	32	0	IDH2,synonymous_variant,p.%3D,ENST00000330062,;IDH2,synonymous_variant,p.%3D,ENST00000540499,;IDH2,intron_variant,,ENST00000539790,;IDH2,intron_variant,,ENST00000559482,;IDH2,intron_variant,,ENST00000560061,;	C	ENSG00000182054	ENST00000330062	Transcript	synonymous_variant	447	333	111	V	gtC/gtG	.	.	.	-1	IDH2	HGNC	5383	protein_coding	YES	CCDS10359.1	ENSP00000331897	IDHP_HUMAN	H0YLL5_HUMAN,B4DSZ6_HUMAN,B4DFL2_HUMAN	UPI000012D1C3	.	.	.	3/11	.	hmmpanther:PTHR11822,Pfam_domain:PF00180,TIGRFAM_domain:TIGR00127,Gene3D:3.40.718.10,PIRSF_domain:PIRSF000108,Superfamily_domains:SSF53659	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTGACAGC	.	4	BLCA
ST8SIA2	0	.	GRCh37	15	92981732	92981732	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.440C>T	p.Ser147Leu	p.S147L	ENST00000268164	4/6	96	77	19	120	120	0	ST8SIA2,missense_variant,p.Ser126Leu,ENST00000539113,;ST8SIA2,missense_variant,p.Ser104Leu,ENST00000555434,;ST8SIA2,missense_variant,p.Ser147Leu,ENST00000268164,;ST8SIA2,non_coding_transcript_exon_variant,,ENST00000556382,;	T	ENSG00000140557	ENST00000268164	Transcript	missense_variant	677	440	147	S/L	tCg/tTg	COSM3817092	.	.	1	ST8SIA2	HGNC	10870	protein_coding	YES	CCDS10372.1	ENSP00000268164	SIA8B_HUMAN	B2R9U8_HUMAN	UPI0000135970	.	.	probably_damaging(0.978)	4/6	.	PIRSF_domain:PIRSF005557,Pfam_domain:PF00777,hmmpanther:PTHR11987:SF30,hmmpanther:PTHR11987	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTCGCCAC	.	5	BLCA
SOX8	0	.	GRCh37	16	1034822	1034822	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.777C>T	p.%3D	p.I259I	ENST00000293894	3/3	29	21	7	37	37	0	SOX8,synonymous_variant,p.%3D,ENST00000293894,;AC009041.2,downstream_gene_variant,,ENST00000601510,;LMF1,upstream_gene_variant,,ENST00000570014,;RP11-161M6.2,upstream_gene_variant,,ENST00000565467,;RP11-161M6.2,upstream_gene_variant,,ENST00000562570,;RP11-161M6.2,upstream_gene_variant,,ENST00000563863,;RP11-161M6.2,upstream_gene_variant,,ENST00000565069,;RP11-161M6.2,upstream_gene_variant,,ENST00000563837,;RP11-161M6.2,upstream_gene_variant,,ENST00000568394,;SOX8,non_coding_transcript_exon_variant,,ENST00000566034,;LMF1,upstream_gene_variant,,ENST00000545827,;	T	ENSG00000005513	ENST00000293894	Transcript	synonymous_variant	892	777	259	I	atC/atT	.	.	.	1	SOX8	HGNC	11203	protein_coding	YES	CCDS10428.1	ENSP00000293894	SOX8_HUMAN	.	UPI00000015FB	.	.	.	3/3	.	hmmpanther:PTHR10270:SF20,hmmpanther:PTHR10270	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AACATCGACTT	.	4	BLCA
LITAF	0	.	GRCh37	16	11650543	11650543	+	Missense_Mutation	SNP	G	G	A	rs138041990	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44C>T	p.Ser15Leu	p.S15L	ENST00000571688	2/4	72	65	7	83	83	0	LITAF,missense_variant,p.Ser15Leu,ENST00000339430,;LITAF,missense_variant,p.Ser15Leu,ENST00000574703,;LITAF,missense_variant,p.Ser15Leu,ENST00000571459,;LITAF,missense_variant,p.Ser45Leu,ENST00000574848,;LITAF,missense_variant,p.Ser15Leu,ENST00000570798,;LITAF,missense_variant,p.Ser15Leu,ENST00000381810,;LITAF,missense_variant,p.Ser15Leu,ENST00000574701,;LITAF,missense_variant,p.Ser15Leu,ENST00000570904,;LITAF,missense_variant,p.Ser15Leu,ENST00000576036,;LITAF,missense_variant,p.Ser15Leu,ENST00000413364,;LITAF,missense_variant,p.Ser15Leu,ENST00000574763,;LITAF,missense_variant,p.Ser15Leu,ENST00000571277,;LITAF,missense_variant,p.Ser15Leu,ENST00000571688,;LITAF,missense_variant,p.Ser15Leu,ENST00000571976,;LITAF,missense_variant,p.Ser15Leu,ENST00000571627,;LITAF,intron_variant,,ENST00000572255,;LITAF,downstream_gene_variant,,ENST00000576334,;LITAF,missense_variant,p.Ser15Leu,ENST00000573332,;LITAF,upstream_gene_variant,,ENST00000575426,;	A	ENSG00000189067	ENST00000571688	Transcript	missense_variant	275	44	15	S/L	tCa/tTa	rs138041990	.	.	-1	LITAF	HGNC	16841	protein_coding	YES	CCDS32386.1	ENSP00000459533	LITAF_HUMAN	I3L3U8_HUMAN,I3L329_HUMAN,I3L1R0_HUMAN,I3L1I9_HUMAN,I3L1H3_HUMAN	UPI000007094D	.	deleterious_low_confidence(0.03)	benign(0.017)	2/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23292,hmmpanther:PTHR23292:SF2	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGCTGAGGAA	byCluster	3	BLCA
CCP110	0	.	GRCh37	16	19553347	19553347	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2188C>G	p.Gln730Glu	p.Q730E	ENST00000381396	6/15	132	95	37	97	96	0	CCP110,missense_variant,p.Gln730Glu,ENST00000396212,;CCP110,missense_variant,p.Gln730Glu,ENST00000381396,;CCP110,missense_variant,p.Gln730Glu,ENST00000396208,;CCP110,3_prime_UTR_variant,,ENST00000562083,;CCP110,upstream_gene_variant,,ENST00000562616,;CCP110,upstream_gene_variant,,ENST00000566523,;	G	ENSG00000103540	ENST00000381396	Transcript	missense_variant	2435	2188	730	Q/E	Caa/Gaa	.	.	.	1	CCP110	HGNC	24342	protein_coding	YES	CCDS55992.1	ENSP00000370803	CP110_HUMAN	.	UPI0000D619A9	.	tolerated(0.11)	benign(0.086)	6/15	.	hmmpanther:PTHR13594	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCAAGCG	.	5	BLCA
DNAH3	0	.	GRCh37	16	21069497	21069497	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3834C>T	p.%3D	p.V1278V	ENST00000261383	27/62	32	29	3	33	33	0	DNAH3,synonymous_variant,p.%3D,ENST00000261383,;DNAH3,synonymous_variant,p.%3D,ENST00000415178,;DNAH3,non_coding_transcript_exon_variant,,ENST00000572640,;	A	ENSG00000158486	ENST00000261383	Transcript	synonymous_variant	3834	3834	1278	V	gtC/gtT	.	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	.	.	27/62	.	hmmpanther:PTHR10676:SF242,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTAAGACCCA	.	2	BLCA
TSC2	0	.	GRCh37	16	2124333	2124333	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2488C>G	p.Leu830Val	p.L830V	ENST00000219476	22/42	60	50	10	86	86	0	TSC2,missense_variant,p.Leu793Val,ENST00000439673,;TSC2,missense_variant,p.Leu830Val,ENST00000219476,;TSC2,missense_variant,p.Leu841Val,ENST00000568454,;TSC2,missense_variant,p.Leu830Val,ENST00000401874,;TSC2,missense_variant,p.Leu830Val,ENST00000353929,;TSC2,missense_variant,p.Leu830Val,ENST00000350773,;TSC2,missense_variant,p.Leu781Val,ENST00000382538,;TSC2,downstream_gene_variant,,ENST00000562474,;TSC2,upstream_gene_variant,,ENST00000568366,;TSC2,3_prime_UTR_variant,,ENST00000439117,;TSC2,non_coding_transcript_exon_variant,,ENST00000463808,;TSC2,downstream_gene_variant,,ENST00000568566,;TSC2,downstream_gene_variant,,ENST00000563346,;TSC2,upstream_gene_variant,,ENST00000483020,;TSC2,upstream_gene_variant,,ENST00000561695,;TSC2,downstream_gene_variant,,ENST00000488675,;TSC2,upstream_gene_variant,,ENST00000497886,;TSC2,upstream_gene_variant,,ENST00000471143,;	G	ENSG00000103197	ENST00000219476	Transcript	missense_variant	3118	2488	830	L/V	Ctc/Gtc	.	.	.	1	TSC2	HGNC	12363	protein_coding	YES	CCDS10458.1	ENSP00000219476	TSC2_HUMAN	.	UPI000013C781	.	deleterious(0)	probably_damaging(0.977)	22/42	.	hmmpanther:PTHR10063,hmmpanther:PTHR10063:SF1,Pfam_domain:PF03542	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAAGCTCACG	.	5	BLCA
PKD1	0	.	GRCh37	16	2160559	2160559	+	Missense_Mutation	SNP	C	C	T	rs781528372	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4609G>A	p.Glu1537Lys	p.E1537K	ENST00000262304	15/46	50	42	8	57	57	0	PKD1,missense_variant,p.Glu1537Lys,ENST00000262304,;PKD1,missense_variant,p.Glu1537Lys,ENST00000423118,;PKD1,intron_variant,,ENST00000483024,;PKD1,intron_variant,,ENST00000488185,;RP11-304L19.4,upstream_gene_variant,,ENST00000568795,;PKD1,intron_variant,,ENST00000468674,;PKD1,upstream_gene_variant,,ENST00000564865,;PKD1,upstream_gene_variant,,ENST00000483558,;PKD1,upstream_gene_variant,,ENST00000561991,;PKD1,upstream_gene_variant,,ENST00000473780,;PKD1,intron_variant,,ENST00000568591,;PKD1,intron_variant,,ENST00000565639,;PKD1,intron_variant,,ENST00000415938,;PKD1,intron_variant,,ENST00000483731,;PKD1,intron_variant,,ENST00000569983,;PKD1,upstream_gene_variant,,ENST00000486339,;PKD1,upstream_gene_variant,,ENST00000496574,;PKD1,downstream_gene_variant,,ENST00000469241,;PKD1,upstream_gene_variant,,ENST00000487932,;PKD1,upstream_gene_variant,,ENST00000564890,;	T	ENSG00000008710	ENST00000262304	Transcript	missense_variant	4818	4609	1537	E/K	Gag/Aag	CM010378,rs781528372,COSM968475	.	.	-1	PKD1	HGNC	9008	protein_coding	YES	CCDS32369.1	ENSP00000262304	PKD1_HUMAN	O75276_HUMAN	UPI00001B0454	.	.	benign(0.269)	15/46	.	PROSITE_profiles:PS50093,hmmpanther:PTHR10877:SF123,hmmpanther:PTHR10877,Gene3D:2.60.40.670,TIGRFAM_domain:TIGR00864,SMART_domains:SM00089,Superfamily_domains:SSF49299	.	.	.	.	.	.	.	.	.	.	0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCCTCGCTGC	byFrequency	3	BLCA
KIF22	0	.	GRCh37	16	29816639	29816639	+	3'UTR	SNP	C	C	A	rs183566608	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8C>A	.	.	ENST00000160827	14/14	197	146	51	143	143	0	KIF22,3_prime_UTR_variant,,ENST00000569382,;KIF22,3_prime_UTR_variant,,ENST00000561482,;KIF22,3_prime_UTR_variant,,ENST00000400751,;KIF22,3_prime_UTR_variant,,ENST00000160827,;MAZ,upstream_gene_variant,,ENST00000562594,;MAZ,upstream_gene_variant,,ENST00000545521,;MAZ,upstream_gene_variant,,ENST00000566906,;MAZ,upstream_gene_variant,,ENST00000569978,;MAZ,upstream_gene_variant,,ENST00000568544,;MAZ,upstream_gene_variant,,ENST00000563012,;KIF22,downstream_gene_variant,,ENST00000400750,;MAZ,upstream_gene_variant,,ENST00000568282,;MAZ,upstream_gene_variant,,ENST00000562557,;MAZ,upstream_gene_variant,,ENST00000219782,;MAZ,upstream_gene_variant,,ENST00000562337,;MAZ,upstream_gene_variant,,ENST00000563402,;MAZ,upstream_gene_variant,,ENST00000568411,;MAZ,upstream_gene_variant,,ENST00000567444,;MAZ,upstream_gene_variant,,ENST00000322945,;AC009133.20,downstream_gene_variant,,ENST00000569039,;AC009133.15,downstream_gene_variant,,ENST00000566537,;AC009133.14,downstream_gene_variant,,ENST00000569981,;AC009133.14,downstream_gene_variant,,ENST00000563806,;KIF22,3_prime_UTR_variant,,ENST00000568312,;KIF22,non_coding_transcript_exon_variant,,ENST00000565736,;MAZ,upstream_gene_variant,,ENST00000561855,;MAZ,upstream_gene_variant,,ENST00000565777,;	A	ENSG00000079616	ENST00000160827	Transcript	3_prime_UTR_variant	2046	.	.	.	.	rs183566608	.	.	1	KIF22	HGNC	6391	protein_coding	YES	CCDS10653.1	ENSP00000160827	KIF22_HUMAN	Q14985_HUMAN,H3BTH5_HUMAN,H3BQB9_HUMAN	UPI00000012C0	.	.	.	14/14	.	.	T:0.0038	T:0	T:0	.	T:0.0188	T:0	T:0	T:0.0005	T:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCGTCTCCTC	byFrequency|byCluster|by1000G	5	BLCA
INO80E	0	.	GRCh37	16	30008169	30008169	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>A	p.Glu65Lys	p.E65K	ENST00000563197	3/7	89	81	8	55	54	0	INO80E,missense_variant,p.Glu65Lys,ENST00000563197,;INO80E,missense_variant,p.Glu65Lys,ENST00000567254,;INO80E,missense_variant,p.Glu65Lys,ENST00000304516,;INO80E,missense_variant,p.Glu65Lys,ENST00000567705,;HIRIP3,upstream_gene_variant,,ENST00000564026,;HIRIP3,upstream_gene_variant,,ENST00000279392,;INO80E,upstream_gene_variant,,ENST00000562291,;TAOK2,downstream_gene_variant,,ENST00000279394,;INO80E,non_coding_transcript_exon_variant,,ENST00000563040,;HIRIP3,upstream_gene_variant,,ENST00000566471,;INO80E,missense_variant,p.Glu65Lys,ENST00000567987,;INO80E,missense_variant,p.Glu65Lys,ENST00000567065,;INO80E,missense_variant,p.Glu65Lys,ENST00000562441,;INO80E,non_coding_transcript_exon_variant,,ENST00000568043,;INO80E,non_coding_transcript_exon_variant,,ENST00000540562,;INO80E,non_coding_transcript_exon_variant,,ENST00000569957,;HIRIP3,upstream_gene_variant,,ENST00000563680,;HIRIP3,upstream_gene_variant,,ENST00000563053,;HIRIP3,upstream_gene_variant,,ENST00000568880,;INO80E,downstream_gene_variant,,ENST00000380503,;HIRIP3,upstream_gene_variant,,ENST00000565996,;	A	ENSG00000169592	ENST00000563197	Transcript	missense_variant	1210	193	65	E/K	Gaa/Aaa	.	.	.	1	INO80E	HGNC	26905	protein_coding	YES	CCDS10665.1	ENSP00000457016	IN80E_HUMAN	.	UPI000000DC3E	.	tolerated(0.05)	probably_damaging(0.979)	3/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21812	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGATGAAGAC	.	3	BLCA
INO80E	0	.	GRCh37	16	30016683	30016683	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655C>T	p.Arg219Trp	p.R219W	ENST00000563197	7/7	11	7	4	10	10	0	INO80E,missense_variant,p.Arg219Trp,ENST00000563197,;INO80E,missense_variant,p.Arg180Trp,ENST00000304516,;INO80E,missense_variant,p.Arg202Trp,ENST00000567705,;INO80E,splice_region_variant,,ENST00000562291,;DOC2A,downstream_gene_variant,,ENST00000563125,;INO80E,downstream_gene_variant,,ENST00000567254,;DOC2A,downstream_gene_variant,,ENST00000565273,;DOC2A,downstream_gene_variant,,ENST00000563378,;DOC2A,downstream_gene_variant,,ENST00000567332,;DOC2A,downstream_gene_variant,,ENST00000564979,;DOC2A,downstream_gene_variant,,ENST00000574405,;DOC2A,downstream_gene_variant,,ENST00000350119,;DOC2A,downstream_gene_variant,,ENST00000564944,;DOC2A,downstream_gene_variant,,ENST00000564357,;INO80E,3_prime_UTR_variant,,ENST00000567987,;INO80E,3_prime_UTR_variant,,ENST00000562441,;INO80E,non_coding_transcript_exon_variant,,ENST00000569957,;INO80E,non_coding_transcript_exon_variant,,ENST00000540562,;DOC2A,downstream_gene_variant,,ENST00000566456,;DOC2A,downstream_gene_variant,,ENST00000561671,;INO80E,downstream_gene_variant,,ENST00000568043,;DOC2A,downstream_gene_variant,,ENST00000564233,;INO80E,downstream_gene_variant,,ENST00000567065,;DOC2A,downstream_gene_variant,,ENST00000566310,;	T	ENSG00000169592	ENST00000563197	Transcript	missense_variant	1672	655	219	R/W	Cgg/Tgg	.	.	.	1	INO80E	HGNC	26905	protein_coding	YES	CCDS10665.1	ENSP00000457016	IN80E_HUMAN	.	UPI000000DC3E	.	deleterious(0.01)	benign(0.443)	7/7	.	hmmpanther:PTHR21812	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCCTCGGCAG	.	3	BLCA
FAM57B	0	.	GRCh37	16	30037074	30037074	+	Missense_Mutation	SNP	G	G	T	rs760533030	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513C>A	p.Phe171Leu	p.F171L	ENST00000380495	4/5	200	182	18	158	158	0	FAM57B,missense_variant,p.Phe171Leu,ENST00000380495,;FAM57B,missense_variant,p.Phe121Leu,ENST00000564806,;FAM57B,missense_variant,p.Phe121Leu,ENST00000279389,;C16orf92,intron_variant,,ENST00000567847,;C16orf92,intron_variant,,ENST00000569198,;FAM57B,downstream_gene_variant,,ENST00000561666,;DOC2A,upstream_gene_variant,,ENST00000574405,;C16orf92,downstream_gene_variant,,ENST00000300575,;DOC2A,upstream_gene_variant,,ENST00000567824,;DOC2A,upstream_gene_variant,,ENST00000572637,;DOC2A,upstream_gene_variant,,ENST00000564075,;DOC2A,upstream_gene_variant,,ENST00000570194,;C16orf92,downstream_gene_variant,,ENST00000561910,;FAM57B,downstream_gene_variant,,ENST00000569508,;	T	ENSG00000149926	ENST00000380495	Transcript	missense_variant	1245	513	171	F/L	ttC/ttA	rs760533030	.	.	-1	FAM57B	HGNC	25295	protein_coding	YES	CCDS10667.2	ENSP00000369863	FA57B_HUMAN	F1T0F5_HUMAN	UPI000022EE26	.	deleterious(0.01)	possibly_damaging(0.761)	4/5	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50922,hmmpanther:PTHR13439,hmmpanther:PTHR13439:SF8,Pfam_domain:PF03798,SMART_domains:SM00724	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGACGAAGGG	.	3	BLCA
ITGAL	0	.	GRCh37	16	30528974	30528974	+	Missense_Mutation	SNP	C	C	A	rs780418137	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2981C>A	p.Pro994His	p.P994H	ENST00000356798	27/31	54	31	23	40	40	0	ITGAL,missense_variant,p.Pro228His,ENST00000433423,;ITGAL,missense_variant,p.Pro910His,ENST00000358164,;ITGAL,missense_variant,p.Pro994His,ENST00000356798,;ITGAL,downstream_gene_variant,,ENST00000566267,;ITGAL,upstream_gene_variant,,ENST00000564632,;	A	ENSG00000005844	ENST00000356798	Transcript	missense_variant	3161	2981	994	P/H	cCt/cAt	rs780418137,COSM1324500	.	.	1	ITGAL	HGNC	6148	protein_coding	YES	CCDS32433.1	ENSP00000349252	ITAL_HUMAN	I3L468_HUMAN,H3BNL5_HUMAN	UPI000013C4FF	.	deleterious(0)	benign(0.285)	27/31	.	Pfam_domain:PF08441,hmmpanther:PTHR23220:SF70,hmmpanther:PTHR23220	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGCCTCCCG	.	5	BLCA
CCDC64B	0	.	GRCh37	16	3080750	3080750	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562C>T	p.Gln188Ter	p.Q188*	ENST00000572449	4/10	23	15	7	25	25	0	CCDC64B,stop_gained,p.Gln188Ter,ENST00000572449,;CCDC64B,stop_gained,p.Gln188Ter,ENST00000389347,;CCDC64B,5_prime_UTR_variant,,ENST00000573514,;THOC6,downstream_gene_variant,,ENST00000575576,;THOC6,downstream_gene_variant,,ENST00000574549,;THOC6,downstream_gene_variant,,ENST00000326266,;THOC6,downstream_gene_variant,,ENST00000253952,;RP11-473M20.5,upstream_gene_variant,,ENST00000382225,;CCDC64B,non_coding_transcript_exon_variant,,ENST00000576826,;CCDC64B,non_coding_transcript_exon_variant,,ENST00000572240,;THOC6,downstream_gene_variant,,ENST00000571046,;THOC6,downstream_gene_variant,,ENST00000571057,;THOC6,downstream_gene_variant,,ENST00000574498,;THOC6,downstream_gene_variant,,ENST00000576143,;THOC6,downstream_gene_variant,,ENST00000574957,;THOC6,downstream_gene_variant,,ENST00000573704,;	A	ENSG00000162069	ENST00000572449	Transcript	stop_gained	625	562	188	Q/*	Cag/Tag	.	.	.	-1	CCDC64B	HGNC	33584	protein_coding	YES	CCDS45393.1	ENSP00000459043	BICR2_HUMAN	.	UPI00001D78D6	.	.	.	4/10	.	hmmpanther:PTHR32123,hmmpanther:PTHR32123:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTGAGCCT	.	5	BLCA
SETD1A	0	.	GRCh37	16	30970082	30970082	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30G>A	p.%3D	p.Q10Q	ENST00000262519	2/19	83	79	4	71	71	0	SETD1A,synonymous_variant,p.%3D,ENST00000262519,;SETD1A,synonymous_variant,p.%3D,ENST00000452917,;ORAI3,downstream_gene_variant,,ENST00000566237,;ORAI3,downstream_gene_variant,,ENST00000318663,;ORAI3,downstream_gene_variant,,ENST00000562699,;AC135048.13,downstream_gene_variant,,ENST00000562642,;AC135048.13,downstream_gene_variant,,ENST00000566056,;	A	ENSG00000099381	ENST00000262519	Transcript	synonymous_variant	716	30	10	Q	caG/caA	.	.	.	1	SETD1A	HGNC	29010	protein_coding	YES	CCDS32435.1	ENSP00000262519	SET1A_HUMAN	C9J2Z9_HUMAN	UPI00001C1FA9	.	.	.	2/19	.	hmmpanther:PTHR22884:SF295,hmmpanther:PTHR22884	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCAGAAGGC	.	2	BLCA
CHD9	0	.	GRCh37	16	53190094	53190094	+	Silent	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93A>G	p.%3D	p.G31G	ENST00000566029	2/39	39	36	3	48	48	0	CHD9,synonymous_variant,p.%3D,ENST00000563410,;CHD9,synonymous_variant,p.%3D,ENST00000566029,;CHD9,synonymous_variant,p.%3D,ENST00000565832,;CHD9,synonymous_variant,p.%3D,ENST00000447540,;CHD9,synonymous_variant,p.%3D,ENST00000564845,;CHD9,synonymous_variant,p.%3D,ENST00000398510,;CHD9,intron_variant,,ENST00000562785,;CHD9,upstream_gene_variant,,ENST00000564255,;	G	ENSG00000177200	ENST00000566029	Transcript	synonymous_variant	302	93	31	G	ggA/ggG	.	.	.	1	CHD9	HGNC	25701	protein_coding	YES	CCDS45485.1	ENSP00000457466	CHD9_HUMAN	H3BV31_HUMAN,H3BSP3_HUMAN,H3BRU9_HUMAN	UPI00001FF1A0	.	.	.	2/39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGGACCTGT	.	2	BLCA
CHD9	0	.	GRCh37	16	53289552	53289552	+	Missense_Mutation	SNP	G	G	A	rs534624677	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4070G>A	p.Arg1357Gln	p.R1357Q	ENST00000566029	19/39	82	60	21	76	76	0	CHD9,missense_variant,p.Arg1357Gln,ENST00000566029,;CHD9,missense_variant,p.Arg1357Gln,ENST00000564845,;CHD9,missense_variant,p.Arg883Gln,ENST00000565803,;CHD9,missense_variant,p.Arg1357Gln,ENST00000447540,;CHD9,missense_variant,p.Arg1357Gln,ENST00000398510,;Y_RNA,upstream_gene_variant,,ENST00000391280,;CHD9,downstream_gene_variant,,ENST00000565119,;CHD9,non_coding_transcript_exon_variant,,ENST00000219084,;CHD9,downstream_gene_variant,,ENST00000562806,;	A	ENSG00000177200	ENST00000566029	Transcript	missense_variant	4279	4070	1357	R/Q	cGa/cAa	rs534624677,COSM971423,COSM1519434	.	.	1	CHD9	HGNC	25701	protein_coding	YES	CCDS45485.1	ENSP00000457466	CHD9_HUMAN	H3BV31_HUMAN,H3BSP3_HUMAN,H3BRU9_HUMAN	UPI00001FF1A0	.	.	probably_damaging(0.981)	19/39	.	Superfamily_domains:SSF52540,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF48	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTCGAAGAG	.	5	BLCA
RPGRIP1L	0	.	GRCh37	16	53671733	53671733	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3094G>C	p.Glu1032Gln	p.E1032Q	ENST00000379925	21/27	76	64	12	82	82	0	RPGRIP1L,missense_variant,p.Glu998Gln,ENST00000563746,;RPGRIP1L,missense_variant,p.Glu1032Gln,ENST00000564374,;RPGRIP1L,missense_variant,p.Glu998Gln,ENST00000262135,;RPGRIP1L,missense_variant,p.Glu1032Gln,ENST00000379925,;RPGRIP1L,non_coding_transcript_exon_variant,,ENST00000568009,;	G	ENSG00000103494	ENST00000379925	Transcript	missense_variant	3145	3094	1032	E/Q	Gag/Cag	.	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	tolerated(0.08)	benign(0.056)	21/27	.	hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCTCTTTTA	.	4	BLCA
PLLP	0	.	GRCh37	16	57290802	57290802	+	3'UTR	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23C>G	.	.	ENST00000219207	4/4	46	42	3	53	53	0	PLLP,3_prime_UTR_variant,,ENST00000569059,;PLLP,3_prime_UTR_variant,,ENST00000219207,;ARL2BP,downstream_gene_variant,,ENST00000563234,;PLLP,downstream_gene_variant,,ENST00000564018,;ARL2BP,downstream_gene_variant,,ENST00000562023,;ARL2BP,downstream_gene_variant,,ENST00000219204,;RP11-407G23.3,upstream_gene_variant,,ENST00000564376,;	C	ENSG00000102934	ENST00000219207	Transcript	3_prime_UTR_variant	719	.	.	.	.	.	.	.	-1	PLLP	HGNC	18553	protein_coding	YES	CCDS10777.1	ENSP00000219207	PLLP_HUMAN	J3QLJ3_HUMAN	UPI0000131C07	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCAGAGGGG	.	2	BLCA
GPR56	0	.	GRCh37	16	57684189	57684189	+	5'UTR	SNP	G	G	A	rs112775979	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11G>A	.	.	ENST00000388812	2/14	38	33	5	38	38	0	GPR56,5_prime_UTR_variant,,ENST00000568234,;GPR56,5_prime_UTR_variant,,ENST00000567154,;GPR56,5_prime_UTR_variant,,ENST00000566271,;GPR56,5_prime_UTR_variant,,ENST00000566508,;GPR56,5_prime_UTR_variant,,ENST00000565770,;GPR56,5_prime_UTR_variant,,ENST00000561988,;GPR56,5_prime_UTR_variant,,ENST00000568909,;GPR56,5_prime_UTR_variant,,ENST00000568979,;GPR56,5_prime_UTR_variant,,ENST00000564722,;GPR56,5_prime_UTR_variant,,ENST00000564360,;GPR56,5_prime_UTR_variant,,ENST00000564103,;GPR56,5_prime_UTR_variant,,ENST00000566778,;GPR56,5_prime_UTR_variant,,ENST00000563414,;GPR56,5_prime_UTR_variant,,ENST00000565976,;GPR56,5_prime_UTR_variant,,ENST00000568791,;GPR56,5_prime_UTR_variant,,ENST00000540164,;GPR56,5_prime_UTR_variant,,ENST00000568074,;GPR56,5_prime_UTR_variant,,ENST00000566164,;GPR56,5_prime_UTR_variant,,ENST00000561969,;GPR56,5_prime_UTR_variant,,ENST00000569101,;GPR56,5_prime_UTR_variant,,ENST00000562631,;GPR56,5_prime_UTR_variant,,ENST00000569158,;GPR56,5_prime_UTR_variant,,ENST00000563445,;GPR56,5_prime_UTR_variant,,ENST00000456916,;GPR56,5_prime_UTR_variant,,ENST00000569531,;GPR56,5_prime_UTR_variant,,ENST00000569494,;GPR56,5_prime_UTR_variant,,ENST00000564338,;GPR56,5_prime_UTR_variant,,ENST00000567397,;GPR56,5_prime_UTR_variant,,ENST00000565587,;GPR56,5_prime_UTR_variant,,ENST00000567702,;GPR56,5_prime_UTR_variant,,ENST00000379696,;GPR56,5_prime_UTR_variant,,ENST00000568157,;GPR56,5_prime_UTR_variant,,ENST00000561782,;GPR56,5_prime_UTR_variant,,ENST00000564783,;GPR56,5_prime_UTR_variant,,ENST00000538815,;GPR56,5_prime_UTR_variant,,ENST00000568618,;GPR56,5_prime_UTR_variant,,ENST00000563862,;GPR56,5_prime_UTR_variant,,ENST00000565338,;GPR56,5_prime_UTR_variant,,ENST00000563374,;GPR56,5_prime_UTR_variant,,ENST00000562414,;GPR56,5_prime_UTR_variant,,ENST00000388812,;GPR56,5_prime_UTR_variant,,ENST00000564729,;GPR56,5_prime_UTR_variant,,ENST00000388813,;GPR56,5_prime_UTR_variant,,ENST00000566187,;GPR56,5_prime_UTR_variant,,ENST00000562558,;GPR56,5_prime_UTR_variant,,ENST00000565314,;GPR56,5_prime_UTR_variant,,ENST00000563548,;GPR56,5_prime_UTR_variant,,ENST00000562467,;GPR56,5_prime_UTR_variant,,ENST00000568908,;GPR56,5_prime_UTR_variant,,ENST00000544297,;GPR56,5_prime_UTR_variant,,ENST00000566123,;GPR56,5_prime_UTR_variant,,ENST00000568531,;GPR56,5_prime_UTR_variant,,ENST00000569154,;GPR56,5_prime_UTR_variant,,ENST00000565013,;GPR56,5_prime_UTR_variant,,ENST00000567915,;GPR56,5_prime_UTR_variant,,ENST00000570044,;GPR56,5_prime_UTR_variant,,ENST00000379694,;GPR56,5_prime_UTR_variant,,ENST00000562682,;GPR56,5_prime_UTR_variant,,ENST00000561833,;GPR56,5_prime_UTR_variant,,ENST00000569372,;GPR56,5_prime_UTR_variant,,ENST00000567553,;GPR56,5_prime_UTR_variant,,ENST00000561696,;GPR56,5_prime_UTR_variant,,ENST00000566169,;GPR56,5_prime_UTR_variant,,ENST00000567835,;GPR56,5_prime_UTR_variant,,ENST00000562003,;GPR56,upstream_gene_variant,,ENST00000565391,;GPR56,non_coding_transcript_exon_variant,,ENST00000561872,;GPR56,non_coding_transcript_exon_variant,,ENST00000564912,;GPR56,non_coding_transcript_exon_variant,,ENST00000569132,;GPR56,non_coding_transcript_exon_variant,,ENST00000566888,;GPR56,non_coding_transcript_exon_variant,,ENST00000562608,;GPR56,non_coding_transcript_exon_variant,,ENST00000569992,;GPR56,non_coding_transcript_exon_variant,,ENST00000562101,;GPR56,non_coding_transcript_exon_variant,,ENST00000562673,;GPR56,intron_variant,,ENST00000568700,;GPR56,5_prime_UTR_variant,,ENST00000565539,;GPR56,5_prime_UTR_variant,,ENST00000564907,;GPR56,5_prime_UTR_variant,,ENST00000568645,;GPR56,5_prime_UTR_variant,,ENST00000563007,;GPR56,upstream_gene_variant,,ENST00000565505,;	A	ENSG00000205336	ENST00000388812	Transcript	5_prime_UTR_variant	430	.	.	.	.	rs112775979	.	.	1	GPR56	HGNC	4512	protein_coding	YES	CCDS32460.1	ENSP00000373464	GPR56_HUMAN	H3BVE9_HUMAN,H3BVD3_HUMAN,H3BV72_HUMAN,H3BV52_HUMAN,H3BUH2_HUMAN,H3BTK9_HUMAN,H3BTH7_HUMAN,H3BTD2_HUMAN,H3BT88_HUMAN,H3BSR1_HUMAN,H3BSN7_HUMAN,H3BSN3_HUMAN,H3BSB8_HUMAN,H3BS94_HUMAN,H3BS14_HUMAN,H3BRZ4_HUMAN,H3BRI7_HUMAN,H3BRH0_HUMAN,H3BRB4_HUMAN,H3BRA1_HUMAN,H3BQZ1_HUMAN,H3BQW4_HUMAN,H3BQ46_HUMAN,H3BNN3_HUMAN,H3BMF8_HUMAN	UPI0000047817	.	.	.	2/14	.	.	.	.	.	.	.	.	.	.	.	uncertain_significance	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTCCGTCGGA	byFrequency|byCluster	4	BLCA
EDC4	0	.	GRCh37	16	67914742	67914742	+	Missense_Mutation	SNP	G	G	A	rs772571915	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2380G>A	p.Gly794Arg	p.G794R	ENST00000358933	18/29	91	80	10	94	93	0	EDC4,missense_variant,p.Gly794Arg,ENST00000358933,;EDC4,upstream_gene_variant,,ENST00000577105,;NRN1L,upstream_gene_variant,,ENST00000576147,;NRN1L,upstream_gene_variant,,ENST00000339176,;NRN1L,upstream_gene_variant,,ENST00000576758,;EDC4,upstream_gene_variant,,ENST00000575033,;EDC4,upstream_gene_variant,,ENST00000573985,;CTC-479C5.10,upstream_gene_variant,,ENST00000572067,;AC040162.1,downstream_gene_variant,,ENST00000408599,;EDC4,downstream_gene_variant,,ENST00000574770,;EDC4,non_coding_transcript_exon_variant,,ENST00000577028,;EDC4,non_coding_transcript_exon_variant,,ENST00000576972,;EDC4,non_coding_transcript_exon_variant,,ENST00000573992,;EDC4,non_coding_transcript_exon_variant,,ENST00000572221,;EDC4,non_coding_transcript_exon_variant,,ENST00000572724,;EDC4,downstream_gene_variant,,ENST00000536072,;EDC4,downstream_gene_variant,,ENST00000572031,;EDC4,upstream_gene_variant,,ENST00000575507,;EDC4,upstream_gene_variant,,ENST00000575514,;	A	ENSG00000038358	ENST00000358933	Transcript	missense_variant	2619	2380	794	G/R	Ggg/Agg	rs772571915	.	.	1	EDC4	HGNC	17157	protein_coding	YES	CCDS10849.1	ENSP00000351811	EDC4_HUMAN	.	UPI0000141377	.	tolerated(0.41)	benign(0.002)	18/29	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15598	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTCGGGCTT	.	4	BLCA
CHTF8	0	.	GRCh37	16	69154505	69154505	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189C>T	p.%3D	p.I63I	ENST00000448552	4/4	106	51	55	94	94	0	CHTF8,synonymous_variant,p.%3D,ENST00000448552,;CHTF8,synonymous_variant,p.%3D,ENST00000567763,;CHTF8,synonymous_variant,p.%3D,ENST00000522497,;CHTF8,synonymous_variant,p.%3D,ENST00000398235,;CHTF8,3_prime_UTR_variant,,ENST00000519520,;CHTF8,3_prime_UTR_variant,,ENST00000520529,;CHTF8,3_prime_UTR_variant,,ENST00000522091,;CHTF8,5_prime_UTR_variant,,ENST00000306585,;CHTF8,intron_variant,,ENST00000518041,;CHTF8,intron_variant,,ENST00000523421,;HAS3,downstream_gene_variant,,ENST00000219322,;HAS3,downstream_gene_variant,,ENST00000306560,;CHTF8,upstream_gene_variant,,ENST00000574807,;CHTF8,synonymous_variant,p.%3D,ENST00000519534,;	A	ENSG00000168802	ENST00000448552	Transcript	synonymous_variant	311	189	63	I	atC/atT	.	.	.	-1	CHTF8	HGNC	24353	protein_coding	YES	CCDS42185.1	ENSP00000408367	CTF8_HUMAN	J3KSJ7_HUMAN	UPI00006C2067	.	.	.	4/4	.	Pfam_domain:PF09696	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATGATTTT	.	5	BLCA
NFAT5	0	.	GRCh37	16	69726397	69726397	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2669C>G	p.Ser890Cys	p.S890C	ENST00000432919	13/15	79	72	7	68	68	0	NFAT5,missense_variant,p.Ser889Cys,ENST00000567239,;NFAT5,missense_variant,p.Ser890Cys,ENST00000432919,;NFAT5,missense_variant,p.Ser872Cys,ENST00000354436,;NFAT5,missense_variant,p.Ser796Cys,ENST00000349945,;NFAT5,missense_variant,p.Ser796Cys,ENST00000393742,;NFAT5,missense_variant,p.Ser796Cys,ENST00000566899,;NFAT5,intron_variant,,ENST00000565301,;NFAT5,3_prime_UTR_variant,,ENST00000426654,;NFAT5,downstream_gene_variant,,ENST00000568832,;NFAT5,downstream_gene_variant,,ENST00000562429,;	G	ENSG00000102908	ENST00000432919	Transcript	missense_variant	3877	2669	890	S/C	tCt/tGt	.	.	.	1	NFAT5	HGNC	7774	protein_coding	YES	CCDS45518.1	ENSP00000396538	NFAT5_HUMAN	.	UPI000049DE1B	.	.	benign(0.086)	13/15	.	hmmpanther:PTHR12533,hmmpanther:PTHR12533:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAGTCTGAAA	.	4	BLCA
DHX38	0	.	GRCh37	16	72132851	72132851	+	Missense_Mutation	SNP	G	G	T	rs766666875	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790G>T	p.Asp264Tyr	p.D264Y	ENST00000268482	6/27	17	13	4	36	36	0	DHX38,missense_variant,p.Asp264Tyr,ENST00000268482,;DHX38,intron_variant,,ENST00000536867,;DHX38,downstream_gene_variant,,ENST00000566794,;DHX38,downstream_gene_variant,,ENST00000566489,;TXNL4B,upstream_gene_variant,,ENST00000426362,;DHX38,non_coding_transcript_exon_variant,,ENST00000563650,;DHX38,non_coding_transcript_exon_variant,,ENST00000564307,;DHX38,intron_variant,,ENST00000579387,;DHX38,upstream_gene_variant,,ENST00000566329,;DHX38,upstream_gene_variant,,ENST00000569935,;	T	ENSG00000140829	ENST00000268482	Transcript	missense_variant	1299	790	264	D/Y	Gac/Tac	rs766666875	.	.	1	DHX38	HGNC	17211	protein_coding	YES	CCDS10907.1	ENSP00000268482	PRP16_HUMAN	H3BV01_HUMAN,H3BQT9_HUMAN,B4DN69_HUMAN,B4DM30_HUMAN	UPI000002FBFE	.	tolerated(0.06)	benign(0.006)	6/27	.	hmmpanther:PTHR18934:SF91,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGATGACACG	.	2	BLCA
ZFHX3	0	.	GRCh37	16	72991867	72991867	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2178C>T	p.%3D	p.F726F	ENST00000268489	2/10	93	75	18	125	125	0	ZFHX3,synonymous_variant,p.%3D,ENST00000268489,;ZFHX3,intron_variant,,ENST00000397992,;	A	ENSG00000140836	ENST00000268489	Transcript	synonymous_variant	2851	2178	726	F	ttC/ttT	.	.	.	-1	ZFHX3	HGNC	777	protein_coding	YES	CCDS10908.1	ENSP00000268489	ZFHX3_HUMAN	Q6TCJ2_HUMAN	UPI00001AE937	.	.	.	2/10	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24208:SF84,hmmpanther:PTHR24208,Pfam_domain:PF12874,Gene3D:3.30.160.60,SMART_domains:SM00355,SMART_domains:SM00451,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCGGAAAGG	.	5	BLCA
ANKRD11	0	.	GRCh37	16	89349455	89349455	+	Missense_Mutation	SNP	C	C	A	rs112888268	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3495G>T	p.Arg1165Ser	p.R1165S	ENST00000301030	9/13	59	45	14	75	75	0	ANKRD11,missense_variant,p.Arg1165Ser,ENST00000378330,;ANKRD11,missense_variant,p.Arg1165Ser,ENST00000301030,;ANKRD11,intron_variant,,ENST00000562194,;ANKRD11,3_prime_UTR_variant,,ENST00000330736,;ANKRD11,downstream_gene_variant,,ENST00000562275,;ANKRD11,downstream_gene_variant,,ENST00000568100,;ANKRD11,downstream_gene_variant,,ENST00000378332,;	A	ENSG00000167522	ENST00000301030	Transcript	missense_variant	3956	3495	1165	R/S	agG/agT	rs112888268	.	.	-1	ANKRD11	HGNC	21316	protein_coding	YES	CCDS32513.1	ENSP00000301030	ANR11_HUMAN	.	UPI00004569E1	.	.	probably_damaging(0.989)	9/13	.	hmmpanther:PTHR24145	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTCCTGTG	byFrequency|byCluster	5	BLCA
CPD	0	.	GRCh37	17	28758884	28758884	+	Silent	SNP	A	A	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2112A>T	p.%3D	p.A704A	ENST00000225719	8/21	109	95	13	49	49	0	CPD,synonymous_variant,p.%3D,ENST00000543464,;CPD,synonymous_variant,p.%3D,ENST00000225719,;	T	ENSG00000108582	ENST00000225719	Transcript	synonymous_variant	2188	2112	704	A	gcA/gcT	.	.	.	1	CPD	HGNC	2301	protein_coding	YES	CCDS11257.1	ENSP00000225719	CBPD_HUMAN	.	UPI000000DAF7	.	.	.	8/21	.	hmmpanther:PTHR11532:SF40,hmmpanther:PTHR11532,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAGCACTTTC	.	4	BLCA
OMG	0	.	GRCh37	17	29622897	29622897	+	Silent	SNP	G	G	C	rs777026450	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453C>G	p.%3D	p.L151L	ENST00000247271	2/2	241	196	45	162	162	0	OMG,synonymous_variant,p.%3D,ENST00000247271,;NF1,intron_variant,,ENST00000358273,;NF1,intron_variant,,ENST00000456735,;NF1,intron_variant,,ENST00000356175,;OMG,intron_variant,,ENST00000580156,;OMG,non_coding_transcript_exon_variant,,ENST00000582029,;NF1,intron_variant,,ENST00000579081,;NF1,intron_variant,,ENST00000493220,;	C	ENSG00000126861	ENST00000247271	Transcript	synonymous_variant	715	453	151	L	ctC/ctG	rs777026450	.	.	-1	OMG	HGNC	8135	protein_coding	YES	CCDS11265.1	ENSP00000247271	OMGP_HUMAN	.	UPI0000130CE1	.	.	.	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24371,hmmpanther:PTHR24371:SF52,Pfam_domain:PF13516,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058,Prints_domain:PR00019	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTTGAGAAC	.	4	BLCA
NF1	0	.	GRCh37	17	29670104	29670104	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7140C>G	p.%3D	p.L2380L	ENST00000358273	48/58	95	47	48	74	74	0	NF1,synonymous_variant,p.%3D,ENST00000417592,;NF1,synonymous_variant,p.%3D,ENST00000444181,;NF1,synonymous_variant,p.%3D,ENST00000358273,;NF1,synonymous_variant,p.%3D,ENST00000456735,;NF1,synonymous_variant,p.%3D,ENST00000356175,;NF1,synonymous_variant,p.%3D,ENST00000581790,;NF1,synonymous_variant,p.%3D,ENST00000471572,;NF1,3_prime_UTR_variant,,ENST00000579081,;NF1,non_coding_transcript_exon_variant,,ENST00000584328,;NF1,non_coding_transcript_exon_variant,,ENST00000582892,;AK4P1,upstream_gene_variant,,ENST00000581275,;	G	ENSG00000196712	ENST00000358273	Transcript	synonymous_variant	7523	7140	2380	L	ctC/ctG	.	.	.	1	NF1	HGNC	7765	protein_coding	YES	CCDS42292.1	ENSP00000351015	NF1_HUMAN	Q9UMU3_HUMAN,Q4W6X4_HUMAN,K7EP94_HUMAN	UPI000012FFAE	.	.	.	48/58	.	Superfamily_domains:SSF48371,hmmpanther:PTHR10194:SF60,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCAATTT	.	5	BLCA
TMEM98	0	.	GRCh37	17	31263431	31263431	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379G>A	p.Asp127Asn	p.D127N	ENST00000579849	6/8	288	276	12	78	78	0	TMEM98,missense_variant,p.Asp127Asn,ENST00000439138,;TMEM98,missense_variant,p.Asp127Asn,ENST00000395149,;TMEM98,missense_variant,p.Asp127Asn,ENST00000579849,;TMEM98,missense_variant,p.Asp127Asn,ENST00000578289,;TMEM98,missense_variant,p.Asp127Asn,ENST00000394642,;TMEM98,missense_variant,p.Asp127Asn,ENST00000261713,;TMEM98,downstream_gene_variant,,ENST00000583437,;TMEM98,non_coding_transcript_exon_variant,,ENST00000583120,;TMEM98,downstream_gene_variant,,ENST00000582227,;	A	ENSG00000006042	ENST00000579849	Transcript	missense_variant	810	379	127	D/N	Gac/Aac	.	.	.	1	TMEM98	HGNC	24529	protein_coding	YES	CCDS11274.1	ENSP00000463245	TMM98_HUMAN	J3QS57_HUMAN,J3QLG7_HUMAN,C9J6Q8_HUMAN,C9J3Y0_HUMAN	UPI00000361DE	.	deleterious(0.03)	possibly_damaging(0.831)	6/8	.	hmmpanther:PTHR32510,Pfam_domain:PF13324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGCGACATC	.	2	BLCA
SLFN11	0	.	GRCh37	17	33690124	33690124	+	Missense_Mutation	SNP	C	C	T	rs760685634	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.703G>A	p.Val235Ile	p.V235I	ENST00000394566	4/7	155	132	22	119	119	0	SLFN11,missense_variant,p.Val235Ile,ENST00000394566,;SLFN11,missense_variant,p.Val235Ile,ENST00000308377,;SLFN11,downstream_gene_variant,,ENST00000591682,;SLFN11,downstream_gene_variant,,ENST00000430814,;SLFN11,downstream_gene_variant,,ENST00000589811,;SLFN11,downstream_gene_variant,,ENST00000427966,;SLFN11,downstream_gene_variant,,ENST00000592122,;SLFN11,downstream_gene_variant,,ENST00000588579,;SLFN11,downstream_gene_variant,,ENST00000441608,;SLFN11,downstream_gene_variant,,ENST00000498396,;SLFN11,downstream_gene_variant,,ENST00000589562,;SLFN11,upstream_gene_variant,,ENST00000586099,;	T	ENSG00000172716	ENST00000394566	Transcript	missense_variant	976	703	235	V/I	Gtc/Atc	rs760685634,COSM4065574	.	.	-1	SLFN11	HGNC	26633	protein_coding	YES	CCDS11294.1	ENSP00000378067	SLN11_HUMAN	K7ES87_HUMAN,K7ER38_HUMAN,K7EKT7_HUMAN,K7EIM3_HUMAN,C9JUT2_HUMAN,C9JDG6_HUMAN,C9J902_HUMAN	UPI0000140B0E	.	tolerated(0.56)	benign(0.009)	4/7	.	hmmpanther:PTHR12155:SF20,hmmpanther:PTHR12155,Pfam_domain:PF04326	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGGACGTATT	.	4	BLCA
CTNS	0	.	GRCh37	17	3558323	3558323	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.257C>G	p.Ser86Cys	p.S86C	ENST00000381870	6/13	87	69	18	121	121	0	CTNS,missense_variant,p.Ser86Cys,ENST00000046640,;CTNS,missense_variant,p.Ser86Cys,ENST00000381870,;CTNS,missense_variant,p.Ser86Cys,ENST00000576979,;CTNS,5_prime_UTR_variant,,ENST00000414524,;CTNS,5_prime_UTR_variant,,ENST00000574218,;CTNS,intron_variant,,ENST00000574776,;CTNS,intron_variant,,ENST00000441220,;CTNS,downstream_gene_variant,,ENST00000399306,;RP11-235E17.6,downstream_gene_variant,,ENST00000575741,;CTNS,non_coding_transcript_exon_variant,,ENST00000488623,;CTNS,3_prime_UTR_variant,,ENST00000467663,;	G	ENSG00000040531	ENST00000381870	Transcript	missense_variant	716	257	86	S/C	tCt/tGt	.	.	.	1	CTNS	HGNC	2518	protein_coding	YES	CCDS32530.1	ENSP00000371294	CTNS_HUMAN	I3L4A9_HUMAN,I3L1K8_HUMAN,I3L0Z6_HUMAN,C9JMM9_HUMAN	UPI0000366B8B	.	deleterious(0.02)	benign(0.031)	6/13	.	hmmpanther:PTHR13131:SF5,hmmpanther:PTHR13131	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCTTTTC	.	5	BLCA
SOCS7	0	.	GRCh37	17	36522197	36522197	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088G>A	p.Arg363Gln	p.R363Q	ENST00000577233	5/10	58	53	5	66	66	0	SOCS7,missense_variant,p.Arg62Gln,ENST00000580660,;SOCS7,missense_variant,p.Arg329Gln,ENST00000331159,;SOCS7,missense_variant,p.Arg363Gln,ENST00000577233,;SOCS7,non_coding_transcript_exon_variant,,ENST00000584132,;	A	ENSG00000174111	ENST00000577233	Transcript	missense_variant	1088	1088	363	R/Q	cGa/cAa	.	.	.	1	SOCS7	HGNC	29846	protein_coding	YES	CCDS32637.1	ENSP00000464034	SOCS7_HUMAN	.	UPI00001AFDEB	.	tolerated(0.45)	benign(0.041)	5/10	.	hmmpanther:PTHR10385:SF30,hmmpanther:PTHR10385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATCCGAGCAG	.	3	BLCA
PCGF2	0	.	GRCh37	17	36895328	36895328	+	Silent	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309G>T	p.%3D	p.L103L	ENST00000580830	7/12	51	41	10	64	64	0	PCGF2,synonymous_variant,p.%3D,ENST00000578109,;PCGF2,synonymous_variant,p.%3D,ENST00000579882,;PCGF2,synonymous_variant,p.%3D,ENST00000585100,;PCGF2,synonymous_variant,p.%3D,ENST00000581345,;PCGF2,synonymous_variant,p.%3D,ENST00000360797,;PCGF2,synonymous_variant,p.%3D,ENST00000580830,;CISD3,downstream_gene_variant,,ENST00000439660,;PCGF2,upstream_gene_variant,,ENST00000578487,;CISD3,downstream_gene_variant,,ENST00000578573,;	A	ENSG00000056661	ENST00000580830	Transcript	synonymous_variant	1011	309	103	L	ctG/ctT	.	.	.	-1	PCGF2	HGNC	12929	protein_coding	YES	CCDS32638.1	ENSP00000461961	PCGF2_HUMAN	.	UPI0000001279	.	.	.	7/12	.	hmmpanther:PTHR10825:SF22,hmmpanther:PTHR10825,Gene3D:3.30.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCGTCAGGGG	.	5	BLCA
CDK12	0	.	GRCh37	17	37667820	37667820	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2705G>A	p.Arg902Gln	p.R902Q	ENST00000447079	8/14	74	69	5	52	52	0	CDK12,missense_variant,p.Arg902Gln,ENST00000447079,;CDK12,missense_variant,p.Arg901Gln,ENST00000584632,;CDK12,missense_variant,p.Arg902Gln,ENST00000430627,;	A	ENSG00000167258	ENST00000447079	Transcript	missense_variant	2738	2705	902	R/Q	cGa/cAa	COSM1479504	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	probably_damaging(0.997)	8/14	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24056:SF126,hmmpanther:PTHR24056,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Y901C|c.2702A>G|3	MUTECT|MUSE	GTACCGACCTC	.	2	BLCA
CASC3	0	.	GRCh37	17	38318275	38318275	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.477G>A	p.%3D	p.E159E	ENST00000264645	5/14	55	51	4	55	55	0	CASC3,synonymous_variant,p.%3D,ENST00000264645,;CASC3,downstream_gene_variant,,ENST00000584997,;CASC3,synonymous_variant,p.%3D,ENST00000474190,;CASC3,non_coding_transcript_exon_variant,,ENST00000581849,;CASC3,non_coding_transcript_exon_variant,,ENST00000418132,;CASC3,upstream_gene_variant,,ENST00000577605,;	A	ENSG00000108349	ENST00000264645	Transcript	synonymous_variant	703	477	159	E	gaG/gaA	.	.	.	1	CASC3	HGNC	17040	protein_coding	YES	CCDS11362.1	ENSP00000264645	CASC3_HUMAN	.	UPI000000DAAA	.	.	.	5/14	.	hmmpanther:PTHR13434,Pfam_domain:PF09405,SMART_domains:SM01044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGAGAACAA	.	2	BLCA
RAPGEFL1	0	.	GRCh37	17	38345517	38345517	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386C>T	p.Ser129Leu	p.S129L	ENST00000436615	6/15	225	196	29	179	179	0	RAPGEFL1,missense_variant,p.Ser129Leu,ENST00000436615,;RAPGEFL1,missense_variant,p.Ser129Leu,ENST00000543876,;RAPGEFL1,missense_variant,p.Ser184Leu,ENST00000456989,;RAPGEFL1,missense_variant,p.Ser178Leu,ENST00000544503,;RAPGEFL1,missense_variant,p.Ser129Leu,ENST00000264644,;RAPGEFL1,downstream_gene_variant,,ENST00000538981,;RAPGEFL1,downstream_gene_variant,,ENST00000538884,;RAPGEFL1,downstream_gene_variant,,ENST00000541245,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000540388,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000469209,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000545893,;RAPGEFL1,upstream_gene_variant,,ENST00000496032,;	T	ENSG00000108352	ENST00000436615	Transcript	missense_variant	876	386	129	S/L	tCa/tTa	COSM1302763	.	.	1	RAPGEFL1	HGNC	17428	protein_coding	YES	CCDS11363.1	ENSP00000408322	RPGFL_HUMAN	F5GYJ3_HUMAN,F5GY17_HUMAN,F5GXC6_HUMAN	UPI000006DB6B	.	tolerated(0.07)	benign(0.261)	6/15	.	hmmpanther:PTHR23113:SF190,hmmpanther:PTHR23113,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAGCAT	.	4	BLCA
RAPGEFL1	0	.	GRCh37	17	38347732	38347732	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882C>G	p.Ile294Met	p.I294M	ENST00000436615	9/15	15	12	3	16	16	0	RAPGEFL1,missense_variant,p.Ile294Met,ENST00000436615,;RAPGEFL1,missense_variant,p.Ile349Met,ENST00000456989,;RAPGEFL1,missense_variant,p.Ile343Met,ENST00000544503,;RAPGEFL1,missense_variant,p.Ile294Met,ENST00000264644,;RAPGEFL1,downstream_gene_variant,,ENST00000538981,;RAPGEFL1,downstream_gene_variant,,ENST00000543876,;RAPGEFL1,downstream_gene_variant,,ENST00000540388,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000496032,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000545893,;RAPGEFL1,downstream_gene_variant,,ENST00000469209,;	G	ENSG00000108352	ENST00000436615	Transcript	missense_variant	1372	882	294	I/M	atC/atG	.	.	.	1	RAPGEFL1	HGNC	17428	protein_coding	YES	CCDS11363.1	ENSP00000408322	RPGFL_HUMAN	F5GYJ3_HUMAN,F5GY17_HUMAN,F5GXC6_HUMAN	UPI000006DB6B	.	deleterious(0)	benign(0.422)	9/15	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113:SF190,hmmpanther:PTHR23113,Gene3D:2ii0A02,Pfam_domain:PF00617,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCATCAAGAT	.	2	BLCA
LEPREL4	0	.	GRCh37	17	39967386	39967386	+	Missense_Mutation	SNP	C	C	T	rs782321072	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Glu205Lys	p.E205K	ENST00000355468	3/9	196	112	84	200	200	0	LEPREL4,missense_variant,p.Glu87Lys,ENST00000592026,;LEPREL4,missense_variant,p.Glu205Lys,ENST00000355468,;LEPREL4,missense_variant,p.Glu205Lys,ENST00000393928,;FKBP10,upstream_gene_variant,,ENST00000429461,;FKBP10,upstream_gene_variant,,ENST00000585664,;FKBP10,upstream_gene_variant,,ENST00000585922,;FKBP10,upstream_gene_variant,,ENST00000321562,;LEPREL4,downstream_gene_variant,,ENST00000590496,;LEPREL4,splice_region_variant,,ENST00000467164,;LEPREL4,non_coding_transcript_exon_variant,,ENST00000587455,;FKBP10,upstream_gene_variant,,ENST00000489591,;LEPREL4,upstream_gene_variant,,ENST00000465097,;LEPREL4,upstream_gene_variant,,ENST00000484247,;	T	ENSG00000141696	ENST00000355468	Transcript	missense_variant	1080	613	205	E/K	Gag/Aag	rs782321072	.	.	-1	LEPREL4	HGNC	16946	protein_coding	YES	CCDS11408.1	ENSP00000347649	SC65_HUMAN	K7EJ03_HUMAN,B4DVZ5_HUMAN	UPI00001302A2	.	deleterious(0)	possibly_damaging(0.769)	3/9	.	hmmpanther:PTHR13986:SF4,hmmpanther:PTHR13986,Gene3D:1.25.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCGTAGG	.	5	BLCA
DHX8	0	.	GRCh37	17	41573597	41573597	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1261G>A	p.Glu421Lys	p.E421K	ENST00000262415	9/23	113	61	52	92	92	0	DHX8,missense_variant,p.Glu421Lys,ENST00000540306,;DHX8,missense_variant,p.Glu421Lys,ENST00000262415,;DHX8,non_coding_transcript_exon_variant,,ENST00000587044,;DHX8,downstream_gene_variant,,ENST00000592258,;	A	ENSG00000067596	ENST00000262415	Transcript	missense_variant	1333	1261	421	E/K	Gaa/Aaa	.	.	.	1	DHX8	HGNC	2749	protein_coding	YES	CCDS11464.1	ENSP00000262415	DHX8_HUMAN	.	UPI00001290D9	.	deleterious(0.04)	benign(0.04)	9/23	.	hmmpanther:PTHR18934:SF85,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGATGAAGAG	.	5	BLCA
G6PC3	0	.	GRCh37	17	42148546	42148546	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>T	p.%3D	p.F71F	ENST00000269097	1/6	46	42	4	35	35	0	G6PC3,synonymous_variant,p.%3D,ENST00000269097,;G6PC3,synonymous_variant,p.%3D,ENST00000591696,;G6PC3,upstream_gene_variant,,ENST00000590253,;LSM12,upstream_gene_variant,,ENST00000293406,;LSM12,upstream_gene_variant,,ENST00000585388,;LSM12,upstream_gene_variant,,ENST00000591247,;G6PC3,synonymous_variant,p.%3D,ENST00000585361,;G6PC3,synonymous_variant,p.%3D,ENST00000588558,;G6PC3,synonymous_variant,p.%3D,ENST00000593115,;G6PC3,non_coding_transcript_exon_variant,,ENST00000585962,;G6PC3,non_coding_transcript_exon_variant,,ENST00000590639,;	T	ENSG00000141349	ENST00000269097	Transcript	synonymous_variant	444	213	71	F	ttC/ttT	.	.	.	1	G6PC3	HGNC	24861	protein_coding	YES	CCDS11476.1	ENSP00000269097	G6PC3_HUMAN	K7EQ13_HUMAN,K7ENK1_HUMAN	UPI00000734E8	.	.	.	1/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12591:SF2,hmmpanther:PTHR12591,Pfam_domain:PF01569,Gene3D:1.20.144.10,PIRSF_domain:PIRSF000905,SMART_domains:SM00014,Superfamily_domains:SSF48317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATCTTCAAGTG	.	3	BLCA
SLC25A39	0	.	GRCh37	17	42397402	42397402	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1047G>C	p.Gln349His	p.Q349H	ENST00000377095	12/12	77	71	6	77	77	0	SLC25A39,missense_variant,p.Gln341His,ENST00000590194,;SLC25A39,missense_variant,p.Gln341His,ENST00000225308,;SLC25A39,missense_variant,p.Gln349His,ENST00000377095,;SLC25A39,missense_variant,p.Gln256His,ENST00000588767,;SLC25A39,missense_variant,p.Gln217His,ENST00000586016,;SLC25A39,missense_variant,p.Gln326His,ENST00000537904,;SLC25A39,downstream_gene_variant,,ENST00000586633,;SLC25A39,downstream_gene_variant,,ENST00000585636,;RUNDC3A,downstream_gene_variant,,ENST00000426726,;RUNDC3A,downstream_gene_variant,,ENST00000225441,;RUNDC3A,downstream_gene_variant,,ENST00000590941,;SLC25A39,downstream_gene_variant,,ENST00000588049,;SLC25A39,downstream_gene_variant,,ENST00000585523,;SLC25A39,downstream_gene_variant,,ENST00000592857,;AC003102.3,upstream_gene_variant,,ENST00000588097,;SLC25A39,3_prime_UTR_variant,,ENST00000593166,;SLC25A39,non_coding_transcript_exon_variant,,ENST00000591006,;SLC25A39,non_coding_transcript_exon_variant,,ENST00000592372,;RUNDC3A,downstream_gene_variant,,ENST00000590834,;SLC25A39,downstream_gene_variant,,ENST00000585695,;RUNDC3A,downstream_gene_variant,,ENST00000588564,;SLC25A39,downstream_gene_variant,,ENST00000591151,;SLC25A39,downstream_gene_variant,,ENST00000588315,;RUNDC3A,downstream_gene_variant,,ENST00000587483,;RUNDC3A,downstream_gene_variant,,ENST00000593079,;	G	ENSG00000013306	ENST00000377095	Transcript	missense_variant	1167	1047	349	Q/H	caG/caC	.	.	.	-1	SLC25A39	HGNC	24279	protein_coding	YES	CCDS45700.1	ENSP00000366299	S2539_HUMAN	K7EMW3_HUMAN,K7ELM7_HUMAN	UPI00001AE651	.	tolerated(0.15)	benign(0.021)	12/12	.	hmmpanther:PTHR24089:SF193,hmmpanther:PTHR24089,Pfam_domain:PF00153	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCCTCTGGAA	.	3	BLCA
SPNS3	0	.	GRCh37	17	4349409	4349409	+	Missense_Mutation	SNP	G	G	A	rs759982981	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.469G>A	p.Ala157Thr	p.A157T	ENST00000355530	4/12	51	25	26	66	66	0	SPNS3,missense_variant,p.Ala157Thr,ENST00000355530,;SPNS3,missense_variant,p.Ala30Thr,ENST00000333476,;SPNS3,non_coding_transcript_exon_variant,,ENST00000576069,;SPNS3,missense_variant,p.Arg111His,ENST00000575194,;SPNS3,non_coding_transcript_exon_variant,,ENST00000572078,;SPNS3,upstream_gene_variant,,ENST00000575185,;	A	ENSG00000182557	ENST00000355530	Transcript	missense_variant	749	469	157	A/T	Gcg/Acg	rs759982981	.	.	1	SPNS3	HGNC	28433	protein_coding	YES	CCDS11045.1	ENSP00000347721	SPNS3_HUMAN	.	UPI00001971EC	.	deleterious(0)	probably_damaging(0.984)	4/12	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24001:SF2,hmmpanther:PTHR24001,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATCGCGCCC	byFrequency	5	BLCA
NFE2L1	0	.	GRCh37	17	46136162	46136162	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1478C>T	p.Ser493Phe	p.S493F	ENST00000362042	6/6	65	61	4	61	61	0	NFE2L1,missense_variant,p.Ser337Phe,ENST00000536222,;NFE2L1,missense_variant,p.Ser493Phe,ENST00000362042,;NFE2L1,missense_variant,p.Ser463Phe,ENST00000357480,;NFE2L1,missense_variant,p.Ser463Phe,ENST00000585291,;NFE2L1,missense_variant,p.Ser305Phe,ENST00000582155,;NFE2L1,missense_variant,p.Ser294Phe,ENST00000583378,;NFE2L1,missense_variant,p.Ser482Phe,ENST00000361665,;NFE2L1,downstream_gene_variant,,ENST00000577411,;NFE2L1,downstream_gene_variant,,ENST00000584634,;NFE2L1,downstream_gene_variant,,ENST00000583210,;NFE2L1,upstream_gene_variant,,ENST00000581319,;NFE2L1,downstream_gene_variant,,ENST00000580037,;NFE2L1,downstream_gene_variant,,ENST00000577431,;NFE2L1,downstream_gene_variant,,ENST00000580050,;NFE2L1,downstream_gene_variant,,ENST00000579537,;RP5-890E16.4,downstream_gene_variant,,ENST00000583349,;	T	ENSG00000082641	ENST00000362042	Transcript	missense_variant	2094	1478	493	S/F	tCt/tTt	.	.	.	1	NFE2L1	HGNC	7781	protein_coding	YES	CCDS11524.1	ENSP00000354855	NF2L1_HUMAN	Q8NF22_HUMAN,J3QR31_HUMAN,J3QQY8_HUMAN,J3QQH8_HUMAN,J3QLQ1_HUMAN,J3KSR3_HUMAN	UPI000012FFCF	.	tolerated(0.06)	probably_damaging(0.999)	6/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24411:SF26,hmmpanther:PTHR24411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTCTGAAG	.	2	BLCA
HOXB6	0	.	GRCh37	17	46673927	46673927	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.523C>T	p.Arg175Trp	p.R175W	ENST00000484302	3/3	204	169	35	189	188	1	HOXB6,missense_variant,p.Arg175Trp,ENST00000225648,;HOXB6,missense_variant,p.Arg175Trp,ENST00000484302,;HOXB5,upstream_gene_variant,,ENST00000239151,;HOXB-AS3,non_coding_transcript_exon_variant,,ENST00000466037,;HOXB-AS3,intron_variant,,ENST00000481995,;HOXB-AS3,intron_variant,,ENST00000487849,;HOXB-AS3,intron_variant,,ENST00000467155,;HOXB-AS3,intron_variant,,ENST00000465846,;HOXB-AS3,intron_variant,,ENST00000474040,;HOXB-AS3,intron_variant,,ENST00000460041,;HOXB-AS3,intron_variant,,ENST00000477144,;HOXB-AS3,intron_variant,,ENST00000480872,;HOXB-AS3,intron_variant,,ENST00000429755,;HOXB-AS3,intron_variant,,ENST00000476204,;HOXB-AS3,intron_variant,,ENST00000474324,;HOXB-AS3,intron_variant,,ENST00000492897,;HOXB6,non_coding_transcript_exon_variant,,ENST00000470193,;HOXB3,intron_variant,,ENST00000552000,;HOXB6,downstream_gene_variant,,ENST00000490419,;	A	ENSG00000108511	ENST00000484302	Transcript	missense_variant	1146	523	175	R/W	Cgg/Tgg	.	.	.	-1	HOXB6	HGNC	5117	protein_coding	YES	CCDS11531.1	ENSP00000420009	HXB6_HUMAN	.	UPI000013C877	.	deleterious(0.01)	probably_damaging(1)	3/3	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24326:SF89,hmmpanther:PTHR24326,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689,Prints_domain:PR00024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GCGCCGCCGCC	.	2	BLCA
TRIM37	0	.	GRCh37	17	57076655	57076655	+	3'UTR	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*83G>C	.	.	ENST00000262294	24/24	48	40	8	44	44	0	TRIM37,3_prime_UTR_variant,,ENST00000393065,;TRIM37,3_prime_UTR_variant,,ENST00000376149,;TRIM37,3_prime_UTR_variant,,ENST00000262294,;TRIM37,intron_variant,,ENST00000583945,;TRIM37,intron_variant,,ENST00000393066,;TRIM37,intron_variant,,ENST00000585287,;TRIM37,3_prime_UTR_variant,,ENST00000577554,;	G	ENSG00000108395	ENST00000262294	Transcript	3_prime_UTR_variant	3238	.	.	.	.	.	.	.	-1	TRIM37	HGNC	7523	protein_coding	YES	CCDS32694.1	ENSP00000262294	TRI37_HUMAN	B3KMU3_HUMAN,A8K0V9_HUMAN	UPI0000167B57	.	.	.	24/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATTATCTGACT	.	3	BLCA
APPBP2	0	.	GRCh37	17	58539173	58539173	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934C>T	p.Gln312Ter	p.Q312*	ENST00000083182	8/13	193	178	15	146	146	0	APPBP2,stop_gained,p.Gln312Ter,ENST00000083182,;APPBP2,non_coding_transcript_exon_variant,,ENST00000592995,;APPBP2,downstream_gene_variant,,ENST00000590244,;APPBP2,splice_region_variant,,ENST00000589341,;	A	ENSG00000062725	ENST00000083182	Transcript	stop_gained	1222	934	312	Q/*	Cag/Tag	.	.	.	-1	APPBP2	HGNC	622	protein_coding	YES	CCDS32699.1	ENSP00000083182	APBP2_HUMAN	K7EIZ9_HUMAN	UPI000006D959	.	.	.	8/13	.	PROSITE_profiles:PS50005,hmmpanther:PTHR19959,hmmpanther:PTHR19959:SF114,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACCTGATAAA	.	3	BLCA
MED13	0	.	GRCh37	17	60042595	60042595	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4616C>T	p.Ser1539Leu	p.S1539L	ENST00000397786	20/30	129	89	40	108	108	0	MED13,missense_variant,p.Ser1539Leu,ENST00000397786,;	A	ENSG00000108510	ENST00000397786	Transcript	missense_variant	4693	4616	1539	S/L	tCa/tTa	.	.	.	-1	MED13	HGNC	22474	protein_coding	YES	CCDS42366.1	ENSP00000380888	MED13_HUMAN	.	UPI0000D7D6F6	.	tolerated(0.34)	benign(0.13)	20/30	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12950:SF22,hmmpanther:PTHR12950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATGAAGTT	.	5	BLCA
EFCAB3	0	.	GRCh37	17	60469274	60469274	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399G>A	p.Met133Ile	p.M133I	ENST00000450662	6/12	198	172	26	132	132	0	EFCAB3,missense_variant,p.Met133Ile,ENST00000450662,;EFCAB3,missense_variant,p.Met81Ile,ENST00000518576,;EFCAB3,missense_variant,p.Met81Ile,ENST00000520404,;EFCAB3,missense_variant,p.Met81Ile,ENST00000305286,;	A	ENSG00000172421	ENST00000450662	Transcript	missense_variant	470	399	133	M/I	atG/atA	.	.	.	1	EFCAB3	HGNC	26379	protein_coding	YES	CCDS45751.1	ENSP00000403932	EFCB3_HUMAN	E5RJB7_HUMAN,E5RHB1_HUMAN	UPI0001929531	.	tolerated(0.93)	benign(0.01)	6/12	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23050,hmmpanther:PTHR23050:SF158,Gene3D:1.10.238.10,Pfam_domain:PF13833,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAATGAATCT	.	4	BLCA
LRRC37A3	0	.	GRCh37	17	62865265	62865265	+	Silent	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2926C>T	p.%3D	p.L976L	ENST00000584306	8/14	295	204	90	246	246	0	LRRC37A3,synonymous_variant,p.%3D,ENST00000581368,;LRRC37A3,synonymous_variant,p.%3D,ENST00000319651,;LRRC37A3,synonymous_variant,p.%3D,ENST00000584306,;LRRC37A3,synonymous_variant,p.%3D,ENST00000400877,;LRRC37A3,synonymous_variant,p.%3D,ENST00000339474,;LRRC37A3,synonymous_variant,p.%3D,ENST00000580464,;LRRC37A3,intron_variant,,ENST00000584788,;RN7SL404P,downstream_gene_variant,,ENST00000582421,;LRRC37A3,non_coding_transcript_exon_variant,,ENST00000579305,;	A	ENSG00000176809	ENST00000584306	Transcript	synonymous_variant	3457	2926	976	L	Ctg/Ttg	COSM1522008	.	.	-1	LRRC37A3	HGNC	32427	protein_coding	YES	CCDS32708.1	ENSP00000464535	L37A3_HUMAN	F8W7X0_HUMAN,B4DSF2_HUMAN	UPI00005B2F0A	.	.	.	8/14	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23045,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCAGAGGAT	.	5	BLCA
CACNG5	0	.	GRCh37	17	64873536	64873536	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86G>C	p.Ser29Thr	p.S29T	ENST00000533854	2/6	65	47	18	69	69	0	CACNG5,missense_variant,p.Ser29Thr,ENST00000169565,;CACNG5,missense_variant,p.Ser29Thr,ENST00000307139,;CACNG5,missense_variant,p.Ser29Thr,ENST00000533854,;	C	ENSG00000075429	ENST00000533854	Transcript	missense_variant	323	86	29	S/T	aGc/aCc	.	.	.	1	CACNG5	HGNC	1409	protein_coding	YES	CCDS11665.1	ENSP00000436836	CCG5_HUMAN	.	UPI0000001240	.	deleterious(0.04)	possibly_damaging(0.723)	2/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12107:SF4,hmmpanther:PTHR12107,Pfam_domain:PF00822,Prints_domain:PR01792	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCAGCACCG	.	5	BLCA
PRKAR1A	0	.	GRCh37	17	66518972	66518972	+	Missense_Mutation	SNP	C	C	A	rs267605012	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253C>A	p.Pro85Thr	p.P85T	ENST00000589228	3/11	49	28	21	46	46	0	PRKAR1A,missense_variant,p.Pro85Thr,ENST00000358598,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000589480,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000588702,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000588178,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000585981,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000589228,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000589017,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000392711,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000585427,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000536854,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000588188,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000586397,;PRKAR1A,downstream_gene_variant,,ENST00000585815,;PRKAR1A,upstream_gene_variant,,ENST00000592800,;RP11-120M18.2,non_coding_transcript_exon_variant,,ENST00000590353,;PRKAR1A,missense_variant,p.Pro85Thr,ENST00000585608,;PRKAR1A,synonymous_variant,p.%3D,ENST00000392710,;PRKAR1A,non_coding_transcript_exon_variant,,ENST00000585460,;PRKAR1A,upstream_gene_variant,,ENST00000586541,;PRKAR1A,upstream_gene_variant,,ENST00000585907,;	A	ENSG00000108946	ENST00000589228	Transcript	missense_variant	381	253	85	P/T	Cct/Act	rs267605012	.	.	1	PRKAR1A	HGNC	9388	protein_coding	YES	CCDS11678.1	ENSP00000464977	KAP0_HUMAN	Q96P62_HUMAN,K7EQK3_HUMAN,K7EPR5_HUMAN,K7EPB2_HUMAN,K7ENR3_HUMAN,K7EMU2_HUMAN,K7EK41_HUMAN,K7EJ40_HUMAN,K7EIE5_HUMAN,K7EID3_HUMAN,B2R5T5_HUMAN	UPI0000001C57	.	tolerated(0.62)	benign(0.017)	3/11	.	hmmpanther:PTHR11635,hmmpanther:PTHR11635:SF129,PIRSF_domain:PIRSF000548	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCTCCA	.	5	BLCA
COG1	0	.	GRCh37	17	71196046	71196046	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.956G>C	p.Ser319Thr	p.S319T	ENST00000299886	5/14	80	66	14	69	68	0	COG1,missense_variant,p.Ser319Thr,ENST00000438720,;COG1,missense_variant,p.Ser319Thr,ENST00000299886,;RP11-143K11.5,downstream_gene_variant,,ENST00000580671,;COG1,downstream_gene_variant,,ENST00000582587,;	C	ENSG00000166685	ENST00000299886	Transcript	missense_variant	1036	956	319	S/T	aGc/aCc	.	.	.	1	COG1	HGNC	6545	protein_coding	YES	CCDS11692.1	ENSP00000299886	COG1_HUMAN	J3KSY3_HUMAN	UPI0000127E34	.	tolerated(0.26)	benign(0.051)	5/14	.	hmmpanther:PTHR31658,hmmpanther:PTHR31658:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTGCAGCTGGT	.	4	BLCA
TP53	0	.	GRCh37	17	7579312	7579312	+	Silent	SNP	C	C	A	rs55863639	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375G>T	p.%3D	p.T125T	ENST00000269305	4/11	37	17	19	66	65	0	TP53,synonymous_variant,p.%3D,ENST00000508793,;TP53,synonymous_variant,p.%3D,ENST00000413465,;TP53,synonymous_variant,p.%3D,ENST00000604348,;TP53,synonymous_variant,p.%3D,ENST00000420246,;TP53,synonymous_variant,p.%3D,ENST00000269305,;TP53,synonymous_variant,p.%3D,ENST00000359597,;TP53,synonymous_variant,p.%3D,ENST00000445888,;TP53,synonymous_variant,p.%3D,ENST00000503591,;TP53,synonymous_variant,p.%3D,ENST00000455263,;TP53,intron_variant,,ENST00000509690,;TP53,intron_variant,,ENST00000514944,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,upstream_gene_variant,,ENST00000574684,;TP53,splice_region_variant,,ENST00000505014,;TP53,upstream_gene_variant,,ENST00000504937,;TP53,upstream_gene_variant,,ENST00000504290,;TP53,upstream_gene_variant,,ENST00000510385,;	A	ENSG00000141510	ENST00000269305	Transcript	synonymous_variant	565	375	125	T	acG/acT	CS971913,CS011573,CS004351,rs55863639,TP53_g.11606G>T,TP53_g.11606G>C,TP53_g.11606G>A,COSM45940,COSM46152,COSM43904,COSM292894,COSM381995,COSM437621,COSM292893,COSM437622,COSM381996,COSM3388231,COSM3403299,COSM4070058,COSM1638003,COSM4070057,COSM2744976	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	4/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	25730903	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.T125T|c.375G>T|10,SITE|p.T125T|c.375G>T|3,SITE|p.T125T|c.375G>T|12,SITE|p.T125T|c.375G>T|12,SITE|p.T125T|c.375G>T|17,CODON|p.0?|c.1_1182del1182|6,CODON|p.T125T|c.375G>A|19,CODON|p.T125T|c.375G>C|3,CODON|p.T125T|c.375G>A|3,CODON|p.T125T|c.375G>C|5,CODON|p.T125T|c.375G>C|3,CODON|p.T125T|c.375G>A|11,CODON|p.T125T|c.375G>A|11,CODON|p.T125T|c.375G>A|3,CODON|p.G59fs*23|c.175_374del200|3,CODON|p.T125M|c.374C>T|10,CODON|p.T125M|c.374C>T|3,CODON|p.T125K|c.374C>A|4,CODON|p.T125M|c.374C>T|4,CODON|p.T125M|c.374C>T|17,CODON|p.T125M|c.374C>T|10,CODON|p.T125R|c.374C>G|3,BUFFER|p.?|c.375+2T>C|3,BUFFER|p.?|c.375+1G>A|7,BUFFER|p.?|c.375+1G>A|7,BUFFER|p.?|c.375+1G>T|5,BUFFER|p.?|c.375+1G>T|5,BUFFER|p.?|c.375+1G>T|3,BUFFER|p.?|c.375+1G>A|11,BUFFER|p.?|c.375+1G>A|6,BUFFER|p.?|c.375+1G>A|6,BUFFER|p.?|c.375+1G>T|8,BUFFER|p.T125P|c.373A>C|3,BUFFER|p.C124*|c.372C>A|4,BUFFER|p.C124*|c.372C>A|4,BUFFER|p.C124*|c.372C>A|4,BUFFER|p.C124G|c.370T>G|3,BUFFER|p.C124R|c.370T>C|3,BUFFER|p.V122fs*26|c.365_366delTG|4,BUFFER|p.V122fs*26|c.365_366delTG|4,BUFFER|p.V122fs*26|c.365_366delTG|6	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGACCGTGCA	byCluster	5	BLCA
EIF4A3	0	.	GRCh37	17	78113545	78113545	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.510G>A	p.Met170Ile	p.M170I	ENST00000269349	6/12	102	75	27	85	85	0	EIF4A3,missense_variant,p.Met170Ile,ENST00000269349,;EIF4A3,downstream_gene_variant,,ENST00000576547,;EIF4A3,non_coding_transcript_exon_variant,,ENST00000570837,;EIF4A3,upstream_gene_variant,,ENST00000570625,;EIF4A3,downstream_gene_variant,,ENST00000575957,;EIF4A3,upstream_gene_variant,,ENST00000576573,;EIF4A3,upstream_gene_variant,,ENST00000575978,;EIF4A3,upstream_gene_variant,,ENST00000575668,;	T	ENSG00000141543	ENST00000269349	Transcript	missense_variant	732	510	170	M/I	atG/atA	.	.	.	-1	EIF4A3	HGNC	18683	protein_coding	YES	CCDS11767.1	ENSP00000269349	IF4A3_HUMAN	.	UPI000012D374	.	deleterious(0.01)	probably_damaging(0.994)	6/12	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF57,Pfam_domain:PF00270,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAATCATATC	.	5	BLCA
RNF213	0	.	GRCh37	17	78350115	78350115	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13200G>A	p.%3D	p.V4400V	ENST00000582970	52/68	106	71	35	108	108	0	RNF213,synonymous_variant,p.%3D,ENST00000336301,;RNF213,synonymous_variant,p.%3D,ENST00000582970,;RNF213,synonymous_variant,p.%3D,ENST00000508628,;RNF213,downstream_gene_variant,,ENST00000573038,;CTD-2047H16.4,intron_variant,,ENST00000572151,;CTD-2047H16.4,intron_variant,,ENST00000575034,;CTD-2047H16.4,downstream_gene_variant,,ENST00000573394,;RNF213,non_coding_transcript_exon_variant,,ENST00000559864,;RNF213,non_coding_transcript_exon_variant,,ENST00000558116,;RNF213,non_coding_transcript_exon_variant,,ENST00000411702,;RNF213,upstream_gene_variant,,ENST00000574909,;RNF213,upstream_gene_variant,,ENST00000572622,;	A	ENSG00000173821	ENST00000582970	Transcript	synonymous_variant	13343	13200	4400	V	gtG/gtA	.	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	.	52/68	.	hmmpanther:PTHR22605,hmmpanther:PTHR22605:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGTGAGCAA	.	5	BLCA
ARHGDIA	0	.	GRCh37	17	79827810	79827810	+	5'UTR	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4G>C	.	.	ENST00000269321	2/6	42	34	8	41	41	0	ARHGDIA,5_prime_UTR_variant,,ENST00000541078,;ARHGDIA,5_prime_UTR_variant,,ENST00000579121,;ARHGDIA,5_prime_UTR_variant,,ENST00000580685,;ARHGDIA,5_prime_UTR_variant,,ENST00000584461,;ARHGDIA,5_prime_UTR_variant,,ENST00000400721,;ARHGDIA,5_prime_UTR_variant,,ENST00000581876,;ARHGDIA,5_prime_UTR_variant,,ENST00000583868,;ARHGDIA,5_prime_UTR_variant,,ENST00000269321,;RP11-498C9.3,downstream_gene_variant,,ENST00000576021,;RP11-498C9.3,downstream_gene_variant,,ENST00000576554,;ARHGDIA,upstream_gene_variant,,ENST00000582520,;ARHGDIA,5_prime_UTR_variant,,ENST00000580033,;ARHGDIA,5_prime_UTR_variant,,ENST00000578351,;ARHGDIA,non_coding_transcript_exon_variant,,ENST00000582309,;ARHGDIA,non_coding_transcript_exon_variant,,ENST00000582984,;ARHGDIA,non_coding_transcript_exon_variant,,ENST00000583499,;ARHGDIA,non_coding_transcript_exon_variant,,ENST00000583111,;ARHGDIA,non_coding_transcript_exon_variant,,ENST00000584397,;ARHGDIA,upstream_gene_variant,,ENST00000583791,;	G	ENSG00000141522	ENST00000269321	Transcript	5_prime_UTR_variant	133	.	.	.	.	.	.	.	-1	ARHGDIA	HGNC	678	protein_coding	YES	CCDS11788.1	ENSP00000269321	GDIR1_HUMAN	J3KS60_HUMAN	UPI0000110BD8	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCAAGCT	.	5	BLCA
FASN	0	.	GRCh37	17	80046914	80046914	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2235C>A	p.Phe745Leu	p.F745L	ENST00000306749	14/43	15	10	4	19	19	0	FASN,missense_variant,p.Phe745Leu,ENST00000306749,;FASN,upstream_gene_variant,,ENST00000579410,;	T	ENSG00000169710	ENST00000306749	Transcript	missense_variant	2454	2235	745	F/L	ttC/ttA	.	.	.	-1	FASN	HGNC	3594	protein_coding	YES	CCDS11801.1	ENSP00000304592	FAS_HUMAN	.	UPI000013EB82	.	deleterious(0)	probably_damaging(1)	14/43	.	hmmpanther:PTHR11712,hmmpanther:PTHR11712:SF227,Gene3D:3.40.366.10,Pfam_domain:PF00698,SMART_domains:SM00827,Superfamily_domains:SSF52151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGGAACAG	.	5	BLCA
GLP2R	0	.	GRCh37	17	9764498	9764498	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.968C>A	p.Ala323Glu	p.A323E	ENST00000262441	8/13	85	39	45	148	148	0	GLP2R,missense_variant,p.Ala143Glu,ENST00000574745,;GLP2R,missense_variant,p.Ala323Glu,ENST00000262441,;GLP2R,downstream_gene_variant,,ENST00000304773,;GLP2R,3_prime_UTR_variant,,ENST00000458005,;	A	ENSG00000065325	ENST00000262441	Transcript	missense_variant	1481	968	323	A/E	gCa/gAa	.	.	.	1	GLP2R	HGNC	4325	protein_coding	YES	CCDS11150.1	ENSP00000262441	GLP2R_HUMAN	I3L151_HUMAN,I3L0P5_HUMAN,E9PC86_HUMAN	UPI0000050469	.	tolerated(0.25)	possibly_damaging(0.875)	8/13	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF269,Pfam_domain:PF00002,Superfamily_domains:SSF81321,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTGCACACC	.	5	BLCA
DSC3	0	.	GRCh37	18	28611015	28611015	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278C>A	p.Ser93Ter	p.S93*	ENST00000360428	3/16	52	20	32	58	58	0	DSC3,stop_gained,p.Ser93Ter,ENST00000360428,;DSC3,stop_gained,p.Ser93Ter,ENST00000434452,;	T	ENSG00000134762	ENST00000360428	Transcript	stop_gained	359	278	93	S/*	tCa/tAa	.	.	.	-1	DSC3	HGNC	3037	protein_coding	YES	CCDS32810.1	ENSP00000353608	DSC3_HUMAN	.	UPI000004CAAD	.	.	.	3/16	.	Superfamily_domains:SSF49313,SMART_domains:SM01055,Gene3D:2.60.40.60,Pfam_domain:PF08758,hmmpanther:PTHR24025:SF6,hmmpanther:PTHR24025	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAATGATCTT	.	5	BLCA
ASXL3	0	.	GRCh37	18	31324964	31324964	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5152G>A	p.Glu1718Lys	p.E1718K	ENST00000269197	12/12	78	70	8	75	75	0	ASXL3,missense_variant,p.Glu1718Lys,ENST00000269197,;ASXL3,downstream_gene_variant,,ENST00000592288,;	A	ENSG00000141431	ENST00000269197	Transcript	missense_variant	5152	5152	1718	E/K	Gag/Aag	.	.	.	1	ASXL3	HGNC	29357	protein_coding	YES	CCDS45847.1	ENSP00000269197	ASXL3_HUMAN	K7EQY1_HUMAN	UPI000156D0F3	.	.	benign(0.154)	12/12	.	hmmpanther:PTHR13578:SF18,hmmpanther:PTHR13578	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGAAGAGGCT	.	4	BLCA
NOL4	0	.	GRCh37	18	31463352	31463352	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1579G>T	p.Glu527Ter	p.E527*	ENST00000261592	10/11	87	62	24	74	74	0	NOL4,stop_gained,p.Glu527Ter,ENST00000261592,;NOL4,stop_gained,p.Glu425Ter,ENST00000589544,;NOL4,stop_gained,p.Glu311Ter,ENST00000269185,;NOL4,stop_gained,p.Glu453Ter,ENST00000538587,;NOL4,stop_gained,p.Glu242Ter,ENST00000535384,;NOL4,stop_gained,p.Glu308Ter,ENST00000535475,;NOL4,stop_gained,p.Glu212Ter,ENST00000586553,;NOL4,stop_gained,p.Glu447Ter,ENST00000590712,;NOL4,3_prime_UTR_variant,,ENST00000586314,;	A	ENSG00000101746	ENST00000261592	Transcript	stop_gained	1877	1579	527	E/*	Gag/Tag	.	.	.	-1	NOL4	HGNC	7870	protein_coding	YES	CCDS11907.2	ENSP00000261592	NOL4_HUMAN	.	UPI000059D504	.	.	.	10/11	.	hmmpanther:PTHR12449,hmmpanther:PTHR12449:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCTGGTT	.	5	BLCA
ST8SIA3	0	.	GRCh37	18	55024328	55024328	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.487G>T	p.Ala163Ser	p.A163S	ENST00000324000	3/4	141	43	97	123	123	0	ST8SIA3,missense_variant,p.Ala163Ser,ENST00000324000,;ST8SIA3,upstream_gene_variant,,ENST00000586360,;	T	ENSG00000177511	ENST00000324000	Transcript	missense_variant	2521	487	163	A/S	Gct/Tct	.	.	.	1	ST8SIA3	HGNC	14269	protein_coding	YES	CCDS32834.1	ENSP00000320431	SIA8C_HUMAN	Q59GW3_HUMAN	UPI000014126D	.	.	benign(0.141)	3/4	.	hmmpanther:PTHR11987:SF33,hmmpanther:PTHR11987,Pfam_domain:PF00777,PIRSF_domain:PIRSF005557	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTGCTGTG	.	5	BLCA
CD226	0	.	GRCh37	18	67531478	67531478	+	3'UTR	SNP	A	A	G	rs549767892	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*72T>C	.	.	ENST00000280200	7/7	22	19	3	14	14	0	CD226,3_prime_UTR_variant,,ENST00000280200,;CD226,3_prime_UTR_variant,,ENST00000581982,;CD226,3_prime_UTR_variant,,ENST00000577287,;CD226,downstream_gene_variant,,ENST00000582621,;CD226,intron_variant,,ENST00000578928,;	G	ENSG00000150637	ENST00000280200	Transcript	3_prime_UTR_variant	1352	.	.	.	.	rs549767892	.	.	-1	CD226	HGNC	16961	protein_coding	YES	CCDS11997.1	ENSP00000280200	CD226_HUMAN	J3QRQ4_HUMAN,J3QR77_HUMAN,J3QQW1_HUMAN,J3QL19_HUMAN,J3QKM7_HUMAN	UPI000013DC05	.	.	.	7/7	.	.	G:0.0002	G:0	G:0.0014	.	G:0	G:0	G:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGGAAAAAA	by1000G	2	BLCA
GCDH	0	.	GRCh37	19	13004312	13004312	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.350G>T	p.Gly117Val	p.G117V	ENST00000222214	6/12	52	36	16	69	69	0	GCDH,missense_variant,p.Gly105Val,ENST00000588905,;GCDH,missense_variant,p.Gly117Val,ENST00000222214,;GCDH,missense_variant,p.Gly73Val,ENST00000422947,;GCDH,missense_variant,p.Gly117Val,ENST00000457854,;GCDH,missense_variant,p.Gly96Val,ENST00000589039,;GCDH,missense_variant,p.Gly117Val,ENST00000591470,;GCDH,upstream_gene_variant,,ENST00000590472,;GCDH,upstream_gene_variant,,ENST00000591050,;GCDH,downstream_gene_variant,,ENST00000587072,;GCDH,missense_variant,p.Trp135Cys,ENST00000590530,;GCDH,non_coding_transcript_exon_variant,,ENST00000421816,;GCDH,non_coding_transcript_exon_variant,,ENST00000590627,;GCDH,non_coding_transcript_exon_variant,,ENST00000585420,;GCDH,non_coding_transcript_exon_variant,,ENST00000591043,;GCDH,non_coding_transcript_exon_variant,,ENST00000587832,;GCDH,downstream_gene_variant,,ENST00000590445,;GCDH,downstream_gene_variant,,ENST00000585760,;AD000092.3,upstream_gene_variant,,ENST00000464444,;	T	ENSG00000105607	ENST00000222214	Transcript	missense_variant	561	350	117	G/V	gGg/gTg	.	.	.	1	GCDH	HGNC	4189	protein_coding	YES	CCDS12286.1	ENSP00000222214	GCDH_HUMAN	.	UPI000012B292	.	deleterious_low_confidence(0)	probably_damaging(0.982)	6/12	.	hmmpanther:PTHR10909,hmmpanther:PTHR10909:SF152,Gene3D:1.10.540.10,Pfam_domain:PF02771,Superfamily_domains:SSF56645	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTGGGGTTT	.	5	BLCA
AD000091.2	0	.	GRCh37	19	15730300	15730300	+	5'Flank	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000589196	.	61	50	11	39	39	0	AD000091.2,upstream_gene_variant,,ENST00000589196,;CYP4F8,splice_acceptor_variant,,ENST00000589019,;CYP4F8,splice_acceptor_variant,,ENST00000441682,;CYP4F8,splice_acceptor_variant,,ENST00000443973,;CYP4F8,splice_acceptor_variant,,ENST00000592615,;CYP4F8,intron_variant,,ENST00000325723,;CYP4F8,non_coding_transcript_exon_variant,,ENST00000589787,;CYP4F8,upstream_gene_variant,,ENST00000585349,;CYP4F8,upstream_gene_variant,,ENST00000589927,;CYP4F8,downstream_gene_variant,,ENST00000590209,;CYP4F8,upstream_gene_variant,,ENST00000587680,;	A	ENSG00000266951	ENST00000589196	Transcript	upstream_gene_variant	.	.	.	.	.	COSM1238637,COSM3822184	.	4936	-1	AD000091.2	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCAGATGCC	.	5	BLCA
COLGALT1	0	.	GRCh37	19	17691560	17691560	+	Missense_Mutation	SNP	C	C	T	rs756336332	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1447C>T	p.Arg483Cys	p.R483C	ENST00000252599	11/12	49	43	5	51	51	0	COLGALT1,missense_variant,p.Arg483Cys,ENST00000252599,;COLGALT1,missense_variant,p.Arg201Cys,ENST00000597147,;COLGALT1,non_coding_transcript_exon_variant,,ENST00000593832,;COLGALT1,non_coding_transcript_exon_variant,,ENST00000597075,;	T	ENSG00000130309	ENST00000252599	Transcript	missense_variant	1567	1447	483	R/C	Cgc/Tgc	rs756336332	.	.	1	COLGALT1	HGNC	26182	protein_coding	YES	CCDS12363.1	ENSP00000252599	GT251_HUMAN	Q8WUI9_HUMAN,M0QYH0_HUMAN,B3KQ10_HUMAN	UPI000003B0F7	.	deleterious(0.01)	possibly_damaging(0.773)	11/12	.	hmmpanther:PTHR10730:SF10,hmmpanther:PTHR10730,Pfam_domain:PF01755	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTCGCGTG	.	4	BLCA
FCHO1	0	.	GRCh37	19	17875194	17875194	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130G>A	p.Glu44Lys	p.E44K	ENST00000594202	6/29	49	39	9	54	54	0	FCHO1,missense_variant,p.Glu44Lys,ENST00000600209,;FCHO1,missense_variant,p.Glu44Lys,ENST00000596536,;FCHO1,missense_variant,p.Glu44Lys,ENST00000600676,;FCHO1,missense_variant,p.Glu44Lys,ENST00000596507,;FCHO1,missense_variant,p.Glu44Lys,ENST00000389133,;FCHO1,missense_variant,p.Glu44Lys,ENST00000596865,;FCHO1,missense_variant,p.Glu44Lys,ENST00000598086,;FCHO1,missense_variant,p.Glu44Lys,ENST00000596309,;FCHO1,missense_variant,p.Glu44Lys,ENST00000597718,;FCHO1,missense_variant,p.Glu44Lys,ENST00000594202,;FCHO1,missense_variant,p.Glu44Lys,ENST00000598932,;FCHO1,missense_variant,p.Glu44Lys,ENST00000539407,;FCHO1,missense_variant,p.Glu51Lys,ENST00000597512,;FCHO1,missense_variant,p.Glu44Lys,ENST00000594068,;FCHO1,missense_variant,p.Glu44Lys,ENST00000595023,;FCHO1,missense_variant,p.Glu44Lys,ENST00000597474,;FCHO1,missense_variant,p.Glu44Lys,ENST00000252771,;FCHO1,missense_variant,p.Glu44Lys,ENST00000595549,;FCHO1,missense_variant,p.Glu44Lys,ENST00000596951,;FCHO1,5_prime_UTR_variant,,ENST00000593833,;FCHO1,5_prime_UTR_variant,,ENST00000595033,;FCHO1,downstream_gene_variant,,ENST00000596462,;FCHO1,downstream_gene_variant,,ENST00000593385,;FCHO1,downstream_gene_variant,,ENST00000598067,;FCHO1,downstream_gene_variant,,ENST00000598539,;FCHO1,downstream_gene_variant,,ENST00000593870,;FCHO1,downstream_gene_variant,,ENST00000598960,;FCHO1,non_coding_transcript_exon_variant,,ENST00000601247,;FCHO1,non_coding_transcript_exon_variant,,ENST00000599236,;	A	ENSG00000130475	ENST00000594202	Transcript	missense_variant	409	130	44	E/K	Gag/Aag	.	.	.	1	FCHO1	HGNC	29002	protein_coding	YES	CCDS59365.1	ENSP00000473001	FCHO1_HUMAN	M0R3E5_HUMAN,M0R2J7_HUMAN,M0R1K4_HUMAN,M0R107_HUMAN,M0QZS1_HUMAN,M0QZF0_HUMAN,M0QZE1_HUMAN,M0QYT8_HUMAN,M0QYN8_HUMAN,M0QYA9_HUMAN,M0QY09_HUMAN,M0QXY1_HUMAN,M0QXW2_HUMAN,M0QXD1_HUMAN	UPI000059D6B0	.	deleterious(0)	possibly_damaging(0.889)	6/29	.	PROSITE_profiles:PS50133,hmmpanther:PTHR23065:SF6,hmmpanther:PTHR23065,Pfam_domain:PF00611,SMART_domains:SM00055,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATCGAGGAG	.	5	BLCA
REXO1	0	.	GRCh37	19	1825905	1825905	+	Missense_Mutation	SNP	G	G	A	rs200306384	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1949C>T	p.Ser650Leu	p.S650L	ENST00000170168	3/16	37	29	7	70	70	0	REXO1,missense_variant,p.Ser650Leu,ENST00000170168,;CTB-31O20.4,downstream_gene_variant,,ENST00000587741,;CTB-31O20.4,downstream_gene_variant,,ENST00000590531,;CTB-31O20.4,downstream_gene_variant,,ENST00000593201,;REXO1,downstream_gene_variant,,ENST00000587524,;REXO1,upstream_gene_variant,,ENST00000586343,;CTB-31O20.4,downstream_gene_variant,,ENST00000590823,;	A	ENSG00000079313	ENST00000170168	Transcript	missense_variant	2044	1949	650	S/L	tCg/tTg	rs200306384,COSM4075597	.	.	-1	REXO1	HGNC	24616	protein_coding	YES	CCDS32866.1	ENSP00000170168	REXO1_HUMAN	.	UPI0000202F63	.	tolerated(0.32)	benign(0.001)	3/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12801:SF62,hmmpanther:PTHR12801	.	.	.	.	.	.	.	A:0.0002	A:0.0005	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCCGAAAGC	byFrequency|byCluster	5	BLCA
ZNF90	0	.	GRCh37	19	20229329	20229329	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966C>G	p.Phe322Leu	p.F322L	ENST00000418063	4/4	33	29	4	37	37	0	ZNF90,missense_variant,p.Phe322Leu,ENST00000418063,;ZNF90,intron_variant,,ENST00000474284,;ZNF90,intron_variant,,ENST00000469078,;ZNF90,upstream_gene_variant,,ENST00000484032,;ZNF90,downstream_gene_variant,,ENST00000473524,;	G	ENSG00000213988	ENST00000418063	Transcript	missense_variant	1078	966	322	F/L	ttC/ttG	.	.	.	1	ZNF90	HGNC	13165	protein_coding	YES	CCDS46028.1	ENSP00000410466	ZNF90_HUMAN	.	UPI00002376E6	.	deleterious(0.01)	probably_damaging(1)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF92,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTTCAAGCT	.	4	BLCA
ZNF626	0	.	GRCh37	19	20808007	20808007	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.676G>A	p.Glu226Lys	p.E226K	ENST00000601440	4/4	80	53	27	76	76	0	ZNF626,missense_variant,p.Glu226Lys,ENST00000601440,;ZNF626,downstream_gene_variant,,ENST00000595405,;CTC-513N18.7,intron_variant,,ENST00000595094,;	T	ENSG00000188171	ENST00000601440	Transcript	missense_variant	823	676	226	E/K	Gag/Aag	.	.	.	-1	ZNF626	HGNC	30461	protein_coding	YES	CCDS42535.1	ENSP00000469958	ZN626_HUMAN	M0QY39_HUMAN,I0CMK8_HUMAN	UPI000035E843	.	tolerated(0.1)	probably_damaging(0.994)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384:SF105,hmmpanther:PTHR24384,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTCCAG	.	5	BLCA
ZNF91	0	.	GRCh37	19	23544469	23544469	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312G>C	p.Glu438Gln	p.E438Q	ENST00000300619	4/4	105	98	7	80	80	0	ZNF91,missense_variant,p.Glu406Gln,ENST00000397082,;ZNF91,missense_variant,p.Glu438Gln,ENST00000300619,;ZNF91,intron_variant,,ENST00000599743,;ZNF91,downstream_gene_variant,,ENST00000595533,;ZNF91,intron_variant,,ENST00000596989,;ZNF91,upstream_gene_variant,,ENST00000593341,;ZNF91,upstream_gene_variant,,ENST00000599281,;ZNF91,upstream_gene_variant,,ENST00000596528,;	G	ENSG00000167232	ENST00000300619	Transcript	missense_variant	1518	1312	438	E/Q	Gaa/Caa	.	.	.	-1	ZNF91	HGNC	13166	protein_coding	YES	CCDS42541.1	ENSP00000300619	ZNF91_HUMAN	M0R186_HUMAN	UPI00002038F9	.	tolerated(0.15)	benign(0.003)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF100,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACATTCTTCAC	.	2	BLCA
WDR62	0	.	GRCh37	19	36545979	36545979	+	Missense_Mutation	SNP	C	C	T	rs775463564	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.106C>T	p.Pro36Ser	p.P36S	ENST00000401500	1/32	13	6	6	12	12	0	WDR62,missense_variant,p.Pro36Ser,ENST00000270301,;WDR62,missense_variant,p.Pro36Ser,ENST00000388999,;WDR62,missense_variant,p.Pro30Ser,ENST00000427823,;WDR62,missense_variant,p.Pro36Ser,ENST00000401500,;THAP8,upstream_gene_variant,,ENST00000538849,;THAP8,upstream_gene_variant,,ENST00000292894,;WDR62,non_coding_transcript_exon_variant,,ENST00000378860,;THAP8,upstream_gene_variant,,ENST00000524106,;WDR62,missense_variant,p.Pro36Ser,ENST00000587391,;WDR62,non_coding_transcript_exon_variant,,ENST00000608676,;THAP8,upstream_gene_variant,,ENST00000522483,;THAP8,upstream_gene_variant,,ENST00000607730,;	T	ENSG00000075702	ENST00000401500	Transcript	missense_variant	141	106	36	P/S	Ccc/Tcc	rs775463564	.	.	1	WDR62	HGNC	24502	protein_coding	YES	CCDS46059.1	ENSP00000384792	WDR62_HUMAN	.	UPI000022A7E9	.	deleterious_low_confidence(0.04)	benign(0.201)	1/32	.	hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF362	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	CGCCCCCCGCC	.	4	BLCA
ZNF829	0	.	GRCh37	19	37382849	37382849	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1087C>T	p.Gln363Ter	p.Q363*	ENST00000520965	6/6	84	54	29	65	65	0	ZNF829,stop_gained,p.Gln363Ter,ENST00000520965,;ZNF829,stop_gained,p.Gln282Ter,ENST00000391711,;ZNF345,intron_variant,,ENST00000526123,;ZNF345,intron_variant,,ENST00000586933,;ZNF345,intron_variant,,ENST00000525851,;ZNF345,intron_variant,,ENST00000432005,;ZNF345,intron_variant,,ENST00000534729,;ZNF345,intron_variant,,ENST00000529989,;	A	ENSG00000185869	ENST00000520965	Transcript	stop_gained	1154	1087	363	Q/*	Caa/Taa	.	.	.	-1	ZNF829	HGNC	34032	protein_coding	YES	CCDS59380.1	ENSP00000428679	.	.	UPI00002021CD	.	.	.	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTGTGAAC	.	5	BLCA
HKR1	0	.	GRCh37	19	37853584	37853584	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.887C>T	p.Ser296Phe	p.S296F	ENST00000324411	6/6	118	112	6	55	55	0	HKR1,missense_variant,p.Ser235Phe,ENST00000541583,;HKR1,missense_variant,p.Ser23Phe,ENST00000544914,;HKR1,missense_variant,p.Ser296Phe,ENST00000324411,;HKR1,missense_variant,p.Ser277Phe,ENST00000392153,;HKR1,missense_variant,p.Ser278Phe,ENST00000589392,;HKR1,missense_variant,p.Ser23Phe,ENST00000591471,;HKR1,intron_variant,,ENST00000591134,;HKR1,downstream_gene_variant,,ENST00000591259,;HKR1,downstream_gene_variant,,ENST00000586897,;HKR1,downstream_gene_variant,,ENST00000592768,;HKR1,downstream_gene_variant,,ENST00000585623,;HKR1,downstream_gene_variant,,ENST00000590582,;HKR1,downstream_gene_variant,,ENST00000592168,;HKR1,downstream_gene_variant,,ENST00000591417,;HKR1,downstream_gene_variant,,ENST00000591391,;HKR1,non_coding_transcript_exon_variant,,ENST00000588820,;HKR1,downstream_gene_variant,,ENST00000590570,;	T	ENSG00000181666	ENST00000324411	Transcript	missense_variant	1156	887	296	S/F	tCt/tTt	.	.	.	1	HKR1	HGNC	4928	protein_coding	YES	CCDS12502.1	ENSP00000315505	HKR1_HUMAN	Q7Z6E1_HUMAN,K7EM51_HUMAN,K7EL22_HUMAN,K7EJS1_HUMAN,F5H6A5_HUMAN	UPI00001AE470	.	tolerated(0.07)	probably_damaging(0.953)	6/6	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACACTCTGGGG	.	2	BLCA
ZNF781	0	.	GRCh37	19	38161131	38161131	+	5'UTR	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-82C>T	.	.	ENST00000358582	4/4	44	41	3	24	24	0	ZNF781,5_prime_UTR_variant,,ENST00000590008,;ZNF781,5_prime_UTR_variant,,ENST00000358582,;ZFP30,intron_variant,,ENST00000587199,;ZFP30,intron_variant,,ENST00000589676,;ZFP30,intron_variant,,ENST00000586732,;ZNF781,downstream_gene_variant,,ENST00000593040,;	A	ENSG00000196381	ENST00000358582	Transcript	5_prime_UTR_variant	668	.	.	.	.	.	.	.	-1	ZNF781	HGNC	26745	protein_coding	YES	CCDS12507.1	ENSP00000351391	ZN781_HUMAN	.	UPI0000351D6C	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATATGAATTC	.	2	BLCA
ZNF546	0	.	GRCh37	19	40520387	40520387	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1210C>G	p.Gln404Glu	p.Q404E	ENST00000347077	7/7	88	80	7	52	52	0	ZNF546,missense_variant,p.Gln378Glu,ENST00000600094,;ZNF546,missense_variant,p.Gln404Glu,ENST00000347077,;ZNF546,intron_variant,,ENST00000596894,;ZNF546,downstream_gene_variant,,ENST00000601138,;ZNF546,downstream_gene_variant,,ENST00000599504,;	G	ENSG00000187187	ENST00000347077	Transcript	missense_variant	1426	1210	404	Q/E	Cag/Gag	.	.	.	1	ZNF546	HGNC	28671	protein_coding	YES	CCDS12548.1	ENSP00000339823	ZN546_HUMAN	M0R292_HUMAN,M0QXR6_HUMAN	UPI00001984E3	.	tolerated(0.06)	benign(0.084)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF142,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AACATCAGAAA	.	3	BLCA
PSG1	0	.	GRCh37	19	43372144	43372144	+	3'UTR	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71C>G	.	.	ENST00000244296	5/5	81	73	8	86	86	0	PSG1,3_prime_UTR_variant,,ENST00000244296,;PSG1,intron_variant,,ENST00000595356,;PSG1,intron_variant,,ENST00000312439,;PSG1,intron_variant,,ENST00000436291,;PSG1,intron_variant,,ENST00000595124,;PSG1,intron_variant,,ENST00000403380,;PSG1,downstream_gene_variant,,ENST00000597058,;PSG1,downstream_gene_variant,,ENST00000595930,;PSG1,intron_variant,,ENST00000602039,;	C	ENSG00000231924	ENST00000244296	Transcript	3_prime_UTR_variant	1490	.	.	.	.	.	.	.	-1	PSG1	HGNC	9514	protein_coding	YES	CCDS12612.1	ENSP00000244296	PSG1_HUMAN	Q9UMI0_HUMAN,M0QY44_HUMAN	UPI0000001071	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTGTGCCC	.	2	BLCA
PSG1	0	.	GRCh37	19	43372209	43372209	+	3'UTR	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6G>C	.	.	ENST00000244296	5/5	223	206	17	183	183	0	PSG1,3_prime_UTR_variant,,ENST00000244296,;PSG1,intron_variant,,ENST00000595356,;PSG1,intron_variant,,ENST00000312439,;PSG1,intron_variant,,ENST00000436291,;PSG1,intron_variant,,ENST00000595124,;PSG1,intron_variant,,ENST00000403380,;PSG1,downstream_gene_variant,,ENST00000597058,;PSG1,downstream_gene_variant,,ENST00000595930,;PSG1,intron_variant,,ENST00000602039,;	G	ENSG00000231924	ENST00000244296	Transcript	3_prime_UTR_variant	1425	.	.	.	.	.	.	.	-1	PSG1	HGNC	9514	protein_coding	YES	CCDS12612.1	ENSP00000244296	PSG1_HUMAN	Q9UMI0_HUMAN,M0QY44_HUMAN	UPI0000001071	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATAGACTCCAC	.	2	BLCA
PSG1	0	.	GRCh37	19	43375976	43375976	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652G>C	p.Glu218Gln	p.E218Q	ENST00000244296	3/5	396	336	59	381	381	0	PSG1,missense_variant,p.Glu218Gln,ENST00000244296,;PSG1,missense_variant,p.Glu218Gln,ENST00000595356,;PSG1,missense_variant,p.Glu218Gln,ENST00000312439,;PSG1,missense_variant,p.Glu139Gln,ENST00000597058,;PSG1,missense_variant,p.Glu218Gln,ENST00000436291,;PSG1,missense_variant,p.Glu147Gln,ENST00000595930,;PSG1,intron_variant,,ENST00000595124,;PSG1,intron_variant,,ENST00000403380,;PSG1,downstream_gene_variant,,ENST00000601456,;PSG1,downstream_gene_variant,,ENST00000601073,;PSG1,upstream_gene_variant,,ENST00000602039,;	G	ENSG00000231924	ENST00000244296	Transcript	missense_variant	790	652	218	E/Q	Gaa/Caa	COSM125629,COSM125630,COSM125631	.	.	-1	PSG1	HGNC	9514	protein_coding	YES	CCDS12612.1	ENSP00000244296	PSG1_HUMAN	Q9UMI0_HUMAN,M0QY44_HUMAN	UPI0000001071	.	deleterious(0)	probably_damaging(0.986)	3/5	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19955,hmmpanther:PTHR19955:SF114,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTCACATT	.	4	BLCA
CHAF1A	0	.	GRCh37	19	4431949	4431949	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1948G>C	p.Glu650Gln	p.E650Q	ENST00000301280	12/15	65	53	12	88	88	0	CHAF1A,missense_variant,p.Glu650Gln,ENST00000301280,;CHAF1A,downstream_gene_variant,,ENST00000587739,;CTB-50L17.5,upstream_gene_variant,,ENST00000590159,;CHAF1A,splice_region_variant,,ENST00000587368,;CHAF1A,downstream_gene_variant,,ENST00000585371,;	C	ENSG00000167670	ENST00000301280	Transcript	missense_variant	2049	1948	650	E/Q	Gag/Cag	.	.	.	1	CHAF1A	HGNC	1910	protein_coding	YES	CCDS32875.1	ENSP00000301280	CAF1A_HUMAN	.	UPI00002030F8	.	deleterious(0)	probably_damaging(0.993)	12/15	.	hmmpanther:PTHR15272,hmmpanther:PTHR15272:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAAGGAGTGT	.	5	BLCA
ZNF180	0	.	GRCh37	19	44981932	44981932	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.766C>T	p.Gln256Ter	p.Q256*	ENST00000221327	5/5	131	113	18	134	134	0	ZNF180,stop_gained,p.Gln229Ter,ENST00000592529,;ZNF180,stop_gained,p.Gln231Ter,ENST00000391956,;ZNF180,stop_gained,p.Gln256Ter,ENST00000221327,;ZNF180,downstream_gene_variant,,ENST00000587047,;ZNF180,downstream_gene_variant,,ENST00000586637,;ZNF180,downstream_gene_variant,,ENST00000591064,;AC069278.4,upstream_gene_variant,,ENST00000591684,;ZNF180,downstream_gene_variant,,ENST00000585514,;ZNF180,3_prime_UTR_variant,,ENST00000592095,;ZNF180,3_prime_UTR_variant,,ENST00000590088,;ZNF285B,downstream_gene_variant,,ENST00000561698,;ZNF285B,downstream_gene_variant,,ENST00000318605,;	A	ENSG00000167384	ENST00000221327	Transcript	stop_gained	1048	766	256	Q/*	Cag/Tag	COSM1750967	.	.	-1	ZNF180	HGNC	12970	protein_coding	YES	CCDS12639.1	ENSP00000221327	ZN180_HUMAN	K7EQX9_HUMAN,K7EQP0_HUMAN	UPI000013C7BD	.	.	.	5/5	.	hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF27	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTGAGGGG	.	4	BLCA
KPTN	0	.	GRCh37	19	47986462	47986462	+	Silent	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.405G>A	p.%3D	p.L135L	ENST00000338134	4/12	164	142	22	124	124	0	KPTN,synonymous_variant,p.%3D,ENST00000338134,;KPTN,synonymous_variant,p.%3D,ENST00000595554,;KPTN,5_prime_UTR_variant,,ENST00000536339,;KPTN,5_prime_UTR_variant,,ENST00000600271,;NAPA,downstream_gene_variant,,ENST00000595227,;NAPA,downstream_gene_variant,,ENST00000263354,;NAPA-AS1,upstream_gene_variant,,ENST00000594367,;NAPA-AS1,upstream_gene_variant,,ENST00000593284,;KPTN,non_coding_transcript_exon_variant,,ENST00000595484,;KPTN,non_coding_transcript_exon_variant,,ENST00000602193,;KPTN,non_coding_transcript_exon_variant,,ENST00000598699,;KPTN,synonymous_variant,p.%3D,ENST00000594208,;KPTN,non_coding_transcript_exon_variant,,ENST00000594139,;NAPA,downstream_gene_variant,,ENST00000597778,;NAPA,downstream_gene_variant,,ENST00000594001,;NAPA,downstream_gene_variant,,ENST00000597271,;NAPA,downstream_gene_variant,,ENST00000594217,;	T	ENSG00000118162	ENST00000338134	Transcript	synonymous_variant	513	405	135	L	ctG/ctA	COSM1525586	.	.	-1	KPTN	HGNC	6404	protein_coding	YES	CCDS42583.1	ENSP00000337850	KPTN_HUMAN	M0R238_HUMAN,M0QZ83_HUMAN,B4DQ76_HUMAN	UPI000007002E	.	.	.	4/12	.	hmmpanther:PTHR15435:SF2,hmmpanther:PTHR15435	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.L135L|c.405G>A|3	RADIA|MUTECT|MUSE|VARSCANS	AGGTTCAGGCA	.	4	BLCA
ZNF350	0	.	GRCh37	19	52477607	52477607	+	Nonsense_Mutation	SNP	G	G	A	rs267605627	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7C>T	p.Gln3Ter	p.Q3*	ENST00000243644	2/5	125	115	10	99	98	0	ZNF350,stop_gained,p.Gln3Ter,ENST00000593596,;ZNF350,stop_gained,p.Gln3Ter,ENST00000243644,;ZNF350,stop_gained,p.Gln3Ter,ENST00000594929,;ZNF350,stop_gained,p.Gln3Ter,ENST00000597788,;ZNF350,5_prime_UTR_variant,,ENST00000601430,;HCCAT3,intron_variant,,ENST00000600253,;HCCAT3,intron_variant,,ENST00000595010,;ZNF350,non_coding_transcript_exon_variant,,ENST00000600703,;ZNF350,non_coding_transcript_exon_variant,,ENST00000597555,;ZNF350,non_coding_transcript_exon_variant,,ENST00000598254,;	A	ENSG00000256683	ENST00000243644	Transcript	stop_gained	235	7	3	Q/*	Cag/Tag	rs267605627	.	.	-1	ZNF350	HGNC	16656	protein_coding	YES	CCDS12845.1	ENSP00000243644	ZN350_HUMAN	M0R1T8_HUMAN,M0R017_HUMAN,M0QYT6_HUMAN,M0QY52_HUMAN	UPI00000721F1	.	.	.	2/5	.	hmmpanther:PTHR24404,hmmpanther:PTHR24404:SF11,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTGGATCA	.	2	BLCA
ZNF816	0	.	GRCh37	19	53453510	53453510	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1518G>A	p.%3D	p.E506E	ENST00000357666	5/5	141	125	15	118	118	0	ZNF816,synonymous_variant,p.%3D,ENST00000444460,;ZNF816,synonymous_variant,p.%3D,ENST00000357666,;ZNF816,intron_variant,,ENST00000434371,;ZNF321P,intron_variant,,ENST00000391777,;ZNF816,downstream_gene_variant,,ENST00000438970,;ZNF816,downstream_gene_variant,,ENST00000332302,;ZNF816,downstream_gene_variant,,ENST00000391786,;ZNF816,downstream_gene_variant,,ENST00000270457,;ZNF816,downstream_gene_variant,,ENST00000457013,;ZNF816,downstream_gene_variant,,ENST00000535506,;	T	ENSG00000180257	ENST00000357666	Transcript	synonymous_variant	1819	1518	506	E	gaG/gaA	.	.	.	-1	ZNF816	HGNC	26995	protein_coding	YES	CCDS33096.1	ENSP00000350295	ZN816_HUMAN	I3L0H5_HUMAN	UPI0000251D78	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF236,hmmpanther:PTHR24377,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTTTCTCTCC	.	4	BLCA
PRKCG	0	.	GRCh37	19	54403697	54403697	+	Silent	SNP	C	C	T	rs754412174	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1398C>T	p.%3D	p.I466I	ENST00000263431	13/18	39	31	7	34	34	0	PRKCG,synonymous_variant,p.%3D,ENST00000542049,;PRKCG,synonymous_variant,p.%3D,ENST00000540413,;PRKCG,synonymous_variant,p.%3D,ENST00000263431,;PRKCG,downstream_gene_variant,,ENST00000536044,;	T	ENSG00000126583	ENST00000263431	Transcript	synonymous_variant	1680	1398	466	I	atC/atT	rs754412174	.	.	1	PRKCG	HGNC	9402	protein_coding	YES	CCDS12867.1	ENSP00000263431	KPCG_HUMAN	M0R0Z4_HUMAN,M0R0I9_HUMAN,H7BZ60_HUMAN	UPI000000DC69	.	.	.	13/18	.	Superfamily_domains:SSF56112,PIRSF_domain:PIRSF000550,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24357,hmmpanther:PTHR24357:SF64,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATCGGCCT	.	5	BLCA
KIR2DS4	0	.	GRCh37	19	55350900	55350901	+	Frame_Shift_Del	DEL	TC	TC	-	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	TC	TC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394_395delTC	p.Ala133ProfsTer165	p.A133Pfs*165	ENST00000339924	4/8	220	201	19	190	190	0	KIR3DL1,intron_variant,,ENST00000402254,;KIR2DS4,frameshift_variant,p.Ala133ProfsTer?,ENST00000391729,;KIR2DS4,frameshift_variant,p.Ala133ProfsTer165,ENST00000339924,;	-	ENSG00000221957	ENST00000339924	Transcript	frameshift_variant	477-478	388-389	130	S/X	TCt/t	.	.	.	1	KIR2DS4	HGNC	6336	polymorphic_pseudogene	YES	.	ENSP00000340011	.	Q8NHJ0_HUMAN,K7QX36_HUMAN	.	.	.	.	4/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAACCTTCTCTCT	.	3	BLCA
NLRP7	0	.	GRCh37	19	55451128	55451128	+	Silent	SNP	G	G	A	rs753699739	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1059C>T	p.%3D	p.N353N	ENST00000588756	6/13	50	43	7	51	51	0	NLRP7,synonymous_variant,p.%3D,ENST00000590030,;NLRP7,synonymous_variant,p.%3D,ENST00000446217,;NLRP7,synonymous_variant,p.%3D,ENST00000588756,;NLRP7,synonymous_variant,p.%3D,ENST00000448121,;NLRP7,synonymous_variant,p.%3D,ENST00000328092,;NLRP7,synonymous_variant,p.%3D,ENST00000592784,;NLRP7,synonymous_variant,p.%3D,ENST00000340844,;NLRP7,downstream_gene_variant,,ENST00000590659,;NLRP7,downstream_gene_variant,,ENST00000587103,;NLRP7,downstream_gene_variant,,ENST00000587844,;NLRP7,synonymous_variant,p.%3D,ENST00000586379,;	A	ENSG00000167634	ENST00000588756	Transcript	synonymous_variant	1546	1059	353	N	aaC/aaT	rs753699739	.	.	-1	NLRP7	HGNC	22947	protein_coding	YES	CCDS46183.1	ENSP00000467123	NALP7_HUMAN	K7ER92_HUMAN,K7EPY3_HUMAN,K7EP54_HUMAN	UPI000174C6C4	.	.	.	6/13	.	PROSITE_profiles:PS50837,hmmpanther:PTHR24106:SF87,hmmpanther:PTHR24106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCGCGTTGCT	byFrequency	4	BLCA
ZNF581	0	.	GRCh37	19	56156487	56156487	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550G>C	p.Glu184Gln	p.E184Q	ENST00000587252	2/2	109	94	15	110	110	0	ZNF581,missense_variant,p.Glu184Gln,ENST00000588537,;ZNF581,missense_variant,p.Glu184Gln,ENST00000270451,;ZNF581,missense_variant,p.Glu184Gln,ENST00000587252,;CCDC106,intron_variant,,ENST00000592996,;ZNF580,downstream_gene_variant,,ENST00000592881,;ZNF580,downstream_gene_variant,,ENST00000325333,;CCDC106,upstream_gene_variant,,ENST00000591241,;ZNF580,downstream_gene_variant,,ENST00000592461,;ZNF580,downstream_gene_variant,,ENST00000545125,;ZNF580,downstream_gene_variant,,ENST00000543039,;CCDC106,upstream_gene_variant,,ENST00000308964,;CCDC106,upstream_gene_variant,,ENST00000591578,;CCDC106,upstream_gene_variant,,ENST00000588740,;ZNF581,downstream_gene_variant,,ENST00000585995,;ZNF580,downstream_gene_variant,,ENST00000590190,;CCDC106,upstream_gene_variant,,ENST00000586790,;CCDC106,upstream_gene_variant,,ENST00000593069,;CCDC106,upstream_gene_variant,,ENST00000587213,;CCDC106,upstream_gene_variant,,ENST00000586864,;	C	ENSG00000171425	ENST00000587252	Transcript	missense_variant	823	550	184	E/Q	Gag/Cag	.	.	.	1	ZNF581	HGNC	25017	protein_coding	YES	CCDS12932.1	ENSP00000466047	ZN581_HUMAN	K7EM32_HUMAN	UPI0000070E84	.	tolerated(0.27)	benign(0.024)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF110,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTATGGAGCAG	.	4	BLCA
SAFB	0	.	GRCh37	19	5653166	5653166	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1334G>C	p.Gly445Ala	p.G445A	ENST00000588852	10/21	45	27	18	51	51	0	SAFB,missense_variant,p.Gly445Ala,ENST00000588852,;SAFB,missense_variant,p.Gly376Ala,ENST00000454510,;SAFB,missense_variant,p.Gly445Ala,ENST00000292123,;SAFB,missense_variant,p.Gly288Ala,ENST00000538656,;SAFB,missense_variant,p.Gly275Ala,ENST00000433404,;SAFB,missense_variant,p.Gly445Ala,ENST00000592224,;SAFB,upstream_gene_variant,,ENST00000589006,;SAFB,non_coding_transcript_exon_variant,,ENST00000586934,;SAFB,3_prime_UTR_variant,,ENST00000589863,;SAFB,non_coding_transcript_exon_variant,,ENST00000592396,;SAFB,non_coding_transcript_exon_variant,,ENST00000592707,;SAFB,downstream_gene_variant,,ENST00000590485,;SAFB,downstream_gene_variant,,ENST00000591666,;	C	ENSG00000160633	ENST00000588852	Transcript	missense_variant	1387	1334	445	G/A	gGa/gCa	.	.	.	1	SAFB	HGNC	10520	protein_coding	YES	CCDS59339.1	ENSP00000467423	SAFB1_HUMAN	Q68DW3_HUMAN,F5GZU3_HUMAN	UPI0000E5BE82	.	deleterious(0)	probably_damaging(1)	10/21	.	PROSITE_profiles:PS50102,hmmpanther:PTHR15683:SF6,hmmpanther:PTHR15683,Pfam_domain:PF14259,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGGAGCTC	.	5	BLCA
ZIM3	0	.	GRCh37	19	57646602	57646602	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1103G>A	p.Cys368Tyr	p.C368Y	ENST00000269834	5/5	141	127	14	144	144	0	ZIM3,missense_variant,p.Cys368Tyr,ENST00000269834,;USP29,downstream_gene_variant,,ENST00000598197,;USP29,downstream_gene_variant,,ENST00000254181,;U3,upstream_gene_variant,,ENST00000516874,;	T	ENSG00000141946	ENST00000269834	Transcript	missense_variant	1489	1103	368	C/Y	tGt/tAt	COSM3938326	.	.	-1	ZIM3	HGNC	16366	protein_coding	YES	CCDS33125.1	ENSP00000269834	ZIM3_HUMAN	.	UPI000013C3E0	.	deleterious(0)	probably_damaging(0.998)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF30,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCACATAGA	.	4	BLCA
ZNF671	0	.	GRCh37	19	58232324	58232324	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1130T>G	p.Phe377Cys	p.F377C	ENST00000317398	4/4	36	32	4	43	43	0	ZNF671,missense_variant,p.Phe377Cys,ENST00000317398,;ZNF671,missense_variant,p.Phe279Cys,ENST00000335820,;AC003006.7,intron_variant,,ENST00000594684,;ZNF551,downstream_gene_variant,,ENST00000596085,;ZNF671,downstream_gene_variant,,ENST00000596939,;AC003006.7,intron_variant,,ENST00000599221,;ZNF671,downstream_gene_variant,,ENST00000599961,;ZNF671,downstream_gene_variant,,ENST00000594803,;ZNF671,3_prime_UTR_variant,,ENST00000601584,;ZNF671,3_prime_UTR_variant,,ENST00000600125,;	C	ENSG00000083814	ENST00000317398	Transcript	missense_variant	1226	1130	377	F/C	tTt/tGt	.	.	.	-1	ZNF671	HGNC	26279	protein_coding	YES	CCDS12961.1	ENSP00000321848	ZN671_HUMAN	C9J3V7_HUMAN	UPI000013C612	.	tolerated(0.09)	probably_damaging(0.91)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24390:SF44,hmmpanther:PTHR24390,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TAAAAAATTTC	.	2	BLCA
ZNF329	0	.	GRCh37	19	58640135	58640135	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>A	p.Leu246Met	p.L246M	ENST00000598312	4/4	170	153	16	134	134	0	ZNF329,missense_variant,p.Leu246Met,ENST00000598312,;ZNF329,missense_variant,p.Leu246Met,ENST00000358067,;ZNF329,downstream_gene_variant,,ENST00000601887,;ZNF329,missense_variant,p.Leu246Met,ENST00000500161,;ZNF329,missense_variant,p.Leu246Met,ENST00000597186,;	T	ENSG00000181894	ENST00000598312	Transcript	missense_variant	970	736	246	L/M	Ctg/Atg	.	.	.	-1	ZNF329	HGNC	14209	protein_coding	YES	CCDS12972.1	ENSP00000470008	ZN329_HUMAN	M0R136_HUMAN	UPI0000246E79	.	deleterious(0)	probably_damaging(0.99)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF118,hmmpanther:PTHR24381,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATCAGGTTGT	.	3	BLCA
ZSCAN22	0	.	GRCh37	19	58846211	58846211	+	Missense_Mutation	SNP	G	G	A	rs143306274	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43G>A	p.Glu15Lys	p.E15K	ENST00000329665	2/3	29	25	4	28	28	0	ZSCAN22,missense_variant,p.Glu15Lys,ENST00000329665,;	A	ENSG00000182318	ENST00000329665	Transcript	missense_variant	190	43	15	E/K	Gag/Aag	rs143306274,COSM1305232	.	.	1	ZSCAN22	HGNC	4929	protein_coding	YES	CCDS12975.1	ENSP00000332433	ZSC22_HUMAN	.	UPI00001A9CCE	.	tolerated(0.13)	benign(0)	2/3	.	hmmpanther:PTHR23226:SF59,hmmpanther:PTHR23226	A:0.0004	A:0.0015	A:0	.	A:0	A:0	A:0	A:0.0023	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGAAGAGGAC	byFrequency|byCluster|by1000G	2	BLCA
SLC27A5	0	.	GRCh37	19	59012660	59012660	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1175T>C	p.Ile392Thr	p.I392T	ENST00000263093	4/10	188	170	18	169	169	0	SLC27A5,missense_variant,p.Ile308Thr,ENST00000601355,;SLC27A5,missense_variant,p.Ile392Thr,ENST00000263093,;SLC27A5,upstream_gene_variant,,ENST00000594786,;SLC27A5,upstream_gene_variant,,ENST00000599700,;SLC27A5,non_coding_transcript_exon_variant,,ENST00000594683,;SLC27A5,upstream_gene_variant,,ENST00000601997,;SLC27A5,upstream_gene_variant,,ENST00000595851,;	G	ENSG00000083807	ENST00000263093	Transcript	missense_variant	1285	1175	392	I/T	aTt/aCt	.	.	.	-1	SLC27A5	HGNC	10999	protein_coding	YES	CCDS12983.1	ENSP00000263093	S27A5_HUMAN	M0R075_HUMAN	UPI0000072ECE	.	tolerated(1)	benign(0)	4/10	.	hmmpanther:PTHR24096:SF99,hmmpanther:PTHR24096,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGGAATGTTA	.	3	BLCA
TUBB4A	0	.	GRCh37	19	6496045	6496045	+	Silent	SNP	G	G	A	rs1053262	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.465C>T	p.%3D	p.I155I	ENST00000264071	4/4	79	53	26	96	96	0	TUBB4A,synonymous_variant,p.%3D,ENST00000594075,;TUBB4A,synonymous_variant,p.%3D,ENST00000264071,;TUBB4A,synonymous_variant,p.%3D,ENST00000600216,;TUBB4A,synonymous_variant,p.%3D,ENST00000540257,;TUBB4A,splice_region_variant,,ENST00000594276,;TUBB4A,3_prime_UTR_variant,,ENST00000598006,;TUBB4A,3_prime_UTR_variant,,ENST00000601152,;TUBB4A,downstream_gene_variant,,ENST00000598635,;TUBB4A,downstream_gene_variant,,ENST00000596291,;TUBB4A,downstream_gene_variant,,ENST00000596926,;TUBB4A,downstream_gene_variant,,ENST00000597686,;TUBB4A,downstream_gene_variant,,ENST00000601640,;CTD-2396E7.10,downstream_gene_variant,,ENST00000596027,;CTD-2396E7.9,downstream_gene_variant,,ENST00000599292,;TUBB4A,3_prime_UTR_variant,,ENST00000595324,;TUBB4A,downstream_gene_variant,,ENST00000594290,;	A	ENSG00000104833	ENST00000264071	Transcript	synonymous_variant	837	465	155	I	atC/atT	rs1053262	.	.	-1	TUBB4A	HGNC	20774	protein_coding	YES	CCDS12168.1	ENSP00000264071	TBB4A_HUMAN	M0R1I1_HUMAN,M0QY85_HUMAN	UPI000005FC27	.	.	.	4/4	.	hmmpanther:PTHR11588:SF58,hmmpanther:PTHR11588,Pfam_domain:PF00091,Gene3D:3.40.50.1440,SMART_domains:SM00864,Superfamily_domains:SSF52490,Prints_domain:PR01163,Prints_domain:PR01161	.	.	.	.	.	.	.	.	.	.	.	19458495	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCGGATCTT	suspect|byCluster	5	BLCA
MUC16	0	.	GRCh37	19	9048822	9048822	+	Missense_Mutation	SNP	G	G	C	rs746420551	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.32809C>G	p.Leu10937Val	p.L10937V	ENST00000397910	5/84	67	57	9	87	87	0	MUC16,missense_variant,p.Leu10937Val,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	missense_variant	33013	32809	10937	L/V	Ctg/Gtg	rs746420551,COSM363817,COSM3933269,COSM3933268,COSM363816	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	possibly_damaging(0.801)	5/84	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCAGAGAGG	.	5	BLCA
MUC16	0	.	GRCh37	19	9049098	9049098	+	Missense_Mutation	SNP	T	T	C	rs777417763	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.32533A>G	p.Ser10845Gly	p.S10845G	ENST00000397910	5/84	100	71	29	136	136	0	MUC16,missense_variant,p.Ser10845Gly,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	missense_variant	32737	32533	10845	S/G	Agt/Ggt	rs777417763	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	benign(0.043)	5/84	.	hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTACTATGGA	byFrequency	5	BLCA
MUC16	0	.	GRCh37	19	9086840	9086840	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4975G>A	p.Glu1659Lys	p.E1659K	ENST00000397910	1/84	81	70	11	90	90	0	MUC16,missense_variant,p.Glu1659Lys,ENST00000397910,;	T	ENSG00000181143	ENST00000397910	Transcript	missense_variant	5179	4975	1659	E/K	Gag/Aag	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	1/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCTCAGCTG	.	4	BLCA
OLFM2	0	.	GRCh37	19	9964891	9964891	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1336C>T	p.His446Tyr	p.H446Y	ENST00000264833	6/6	38	25	12	41	41	0	OLFM2,missense_variant,p.His446Tyr,ENST00000264833,;OLFM2,missense_variant,p.His368Tyr,ENST00000590841,;PIN1,downstream_gene_variant,,ENST00000588695,;PIN1,downstream_gene_variant,,ENST00000247970,;OLFM2,downstream_gene_variant,,ENST00000593091,;AC008752.3,downstream_gene_variant,,ENST00000582439,;PIN1,downstream_gene_variant,,ENST00000590540,;PIN1,downstream_gene_variant,,ENST00000380889,;PIN1,downstream_gene_variant,,ENST00000585442,;OLFM2,downstream_gene_variant,,ENST00000590410,;PIN1,downstream_gene_variant,,ENST00000591777,;OLFM2,downstream_gene_variant,,ENST00000592448,;PIN1,downstream_gene_variant,,ENST00000586025,;PIN1,downstream_gene_variant,,ENST00000586352,;	A	ENSG00000105088	ENST00000264833	Transcript	missense_variant	1522	1336	446	H/Y	Cac/Tac	COSM163077	.	.	-1	OLFM2	HGNC	17189	protein_coding	YES	CCDS12221.1	ENSP00000264833	NOE2_HUMAN	K7EIS8_HUMAN	UPI000013D57B	.	deleterious(0)	probably_damaging(0.984)	6/6	.	PROSITE_profiles:PS51132,hmmpanther:PTHR23192,hmmpanther:PTHR23192:SF27,SMART_domains:SM00284	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACGTGAAACA	.	5	BLCA
AMY2A	0	.	GRCh37	1	104163186	104163186	+	Missense_Mutation	SNP	G	G	A	rs532919677	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.758G>A	p.Gly253Asp	p.G253D	ENST00000414303	5/10	169	136	33	188	188	0	AMY2A,missense_variant,p.Gly175Asp,ENST00000423678,;AMY2A,missense_variant,p.Gly253Asp,ENST00000414303,;AMY2A,upstream_gene_variant,,ENST00000497748,;	A	ENSG00000243480	ENST00000414303	Transcript	missense_variant	822	758	253	G/D	gGt/gAt	rs532919677	.	.	1	AMY2A	HGNC	477	protein_coding	YES	CCDS783.1	ENSP00000397582	AMYP_HUMAN	.	UPI0000000C80	.	deleterious(0)	probably_damaging(0.966)	5/10	.	hmmpanther:PTHR10357,hmmpanther:PTHR10357:SF105,Pfam_domain:PF00128,Gene3D:3.20.20.80,SMART_domains:SM00642,Superfamily_domains:SSF51445,Prints_domain:PR00110	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TCTGGGTGGTG	by1000G	2	BLCA
GSTM2	0	.	GRCh37	1	110211095	110211095	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85G>T	p.Glu29Ter	p.E29*	ENST00000241337	2/8	89	82	6	107	107	0	GSTM2,stop_gained,p.Glu29Ter,ENST00000369829,;GSTM2,stop_gained,p.Glu29Ter,ENST00000442650,;GSTM2,stop_gained,p.Glu29Ter,ENST00000369831,;GSTM2,stop_gained,p.Glu29Ter,ENST00000467579,;GSTM2,stop_gained,p.Glu29Ter,ENST00000241337,;GSTM2,stop_gained,p.Glu27Ter,ENST00000369827,;GSTM2,stop_gained,p.Glu29Ter,ENST00000460717,;GSTM2,5_prime_UTR_variant,,ENST00000414179,;GSTM4,downstream_gene_variant,,ENST00000326729,;GSTM2,non_coding_transcript_exon_variant,,ENST00000464206,;GSTM2,non_coding_transcript_exon_variant,,ENST00000568786,;GSTM2,non_coding_transcript_exon_variant,,ENST00000481656,;GSTM2,non_coding_transcript_exon_variant,,ENST00000476040,;GSTM2,upstream_gene_variant,,ENST00000496578,;GSTM2,upstream_gene_variant,,ENST00000472225,;	T	ENSG00000213366	ENST00000241337	Transcript	stop_gained	135	85	29	E/*	Gag/Tag	.	.	.	1	GSTM2	HGNC	4634	protein_coding	YES	CCDS808.1	ENSP00000241337	GSTM2_HUMAN	Q9UE37_HUMAN,A8HT81_HUMAN	UPI000013CAC9	.	.	.	2/8	.	Superfamily_domains:SSF52833,Gene3D:3.40.30.10,Pfam_domain:PF02798,hmmpanther:PTHR11571:SF103,hmmpanther:PTHR11571,PROSITE_profiles:PS50404	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTACGAGGAA	.	2	BLCA
GSTM2	0	.	GRCh37	1	110211103	110211103	+	Silent	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93G>A	p.%3D	p.K31K	ENST00000241337	2/8	86	48	37	105	105	0	GSTM2,synonymous_variant,p.%3D,ENST00000369829,;GSTM2,synonymous_variant,p.%3D,ENST00000442650,;GSTM2,synonymous_variant,p.%3D,ENST00000369831,;GSTM2,synonymous_variant,p.%3D,ENST00000467579,;GSTM2,synonymous_variant,p.%3D,ENST00000241337,;GSTM2,synonymous_variant,p.%3D,ENST00000369827,;GSTM2,synonymous_variant,p.%3D,ENST00000460717,;GSTM2,splice_region_variant,,ENST00000414179,;GSTM4,downstream_gene_variant,,ENST00000326729,;GSTM2,non_coding_transcript_exon_variant,,ENST00000464206,;GSTM2,non_coding_transcript_exon_variant,,ENST00000568786,;GSTM2,non_coding_transcript_exon_variant,,ENST00000481656,;GSTM2,non_coding_transcript_exon_variant,,ENST00000476040,;GSTM2,upstream_gene_variant,,ENST00000496578,;GSTM2,upstream_gene_variant,,ENST00000472225,;	A	ENSG00000213366	ENST00000241337	Transcript	synonymous_variant	143	93	31	K	aaG/aaA	COSM893563,COSM1583182,COSM1583181	.	.	1	GSTM2	HGNC	4634	protein_coding	YES	CCDS808.1	ENSP00000241337	GSTM2_HUMAN	Q9UE37_HUMAN,A8HT81_HUMAN	UPI000013CAC9	.	.	.	2/8	.	Prints_domain:PR01267,Superfamily_domains:SSF52833,Gene3D:3.40.30.10,Pfam_domain:PF02798,hmmpanther:PTHR11571:SF103,hmmpanther:PTHR11571,PROSITE_profiles:PS50404	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAAGAAGTA	.	5	BLCA
HIPK1	0	.	GRCh37	1	114506127	114506127	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2222A>G	p.Gln741Arg	p.Q741R	ENST00000369558	10/16	61	51	9	50	50	0	HIPK1,missense_variant,p.Gln23Arg,ENST00000361587,;HIPK1,missense_variant,p.Gln707Arg,ENST00000369561,;HIPK1,missense_variant,p.Gln347Arg,ENST00000406344,;HIPK1,missense_variant,p.Gln741Arg,ENST00000426820,;HIPK1,missense_variant,p.Gln347Arg,ENST00000369553,;HIPK1,missense_variant,p.Gln741Arg,ENST00000369559,;HIPK1,missense_variant,p.Gln741Arg,ENST00000369558,;HIPK1,missense_variant,p.Gln367Arg,ENST00000340480,;HIPK1,intron_variant,,ENST00000369554,;HIPK1,intron_variant,,ENST00000369555,;	G	ENSG00000163349	ENST00000369558	Transcript	missense_variant	2454	2222	741	Q/R	cAg/cGg	.	.	.	1	HIPK1	HGNC	19006	protein_coding	YES	CCDS867.1	ENSP00000358571	HIPK1_HUMAN	D6RF28_HUMAN,D6RC95_HUMAN	UPI000000D74E	.	tolerated(0.1)	benign(0.211)	10/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAACAGACTG	.	4	BLCA
TRIM45	0	.	GRCh37	1	117663532	117663532	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292G>A	p.Asp98Asn	p.D98N	ENST00000256649	1/6	63	46	16	42	42	0	TRIM45,missense_variant,p.Asp98Asn,ENST00000256649,;TRIM45,missense_variant,p.Asp98Asn,ENST00000369464,;TRIM45,missense_variant,p.Asp41Asn,ENST00000369461,;TRIM45,intron_variant,,ENST00000485032,;	T	ENSG00000134253	ENST00000256649	Transcript	missense_variant	819	292	98	D/N	Gat/Aat	.	.	.	-1	TRIM45	HGNC	19018	protein_coding	YES	CCDS893.1	ENSP00000256649	TRI45_HUMAN	S4R407_HUMAN	UPI000013CF1E	.	tolerated(0.07)	benign(0.009)	1/6	.	PROSITE_profiles:PS50089,hmmpanther:PTHR24103:SF244,hmmpanther:PTHR24103,Gene3D:3.30.40.10,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCACATA	.	5	BLCA
HAO2	0	.	GRCh37	1	119929395	119929395	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.712G>A	p.Val238Ile	p.V238I	ENST00000325945	5/8	84	76	8	95	95	0	HAO2,missense_variant,p.Val238Ile,ENST00000325945,;HAO2,missense_variant,p.Val251Ile,ENST00000361035,;HAO2,downstream_gene_variant,,ENST00000457318,;	A	ENSG00000116882	ENST00000325945	Transcript	missense_variant	785	712	238	V/I	Gtc/Atc	COSM390385	.	.	1	HAO2	HGNC	4810	protein_coding	YES	CCDS901.1	ENSP00000316339	HAOX2_HUMAN	.	UPI000000106A	.	tolerated(0.09)	benign(0.11)	5/8	.	Superfamily_domains:SSF51395,PIRSF_domain:PIRSF000138,Pfam_domain:PF01070,Gene3D:3.20.20.70,hmmpanther:PTHR10578:SF56,hmmpanther:PTHR10578,PROSITE_profiles:PS51349	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACAATGTCCAG	.	3	BLCA
HSD3B2	0	.	GRCh37	1	119964493	119964493	+	Silent	SNP	T	T	C	rs758740855	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369T>C	p.%3D	p.S123S	ENST00000543831	4/4	212	156	56	254	254	0	HSD3B2,synonymous_variant,p.%3D,ENST00000543831,;HSD3B2,synonymous_variant,p.%3D,ENST00000433745,;HSD3B2,synonymous_variant,p.%3D,ENST00000369416,;HSD3B2,non_coding_transcript_exon_variant,,ENST00000448448,;HSD3B2,downstream_gene_variant,,ENST00000443865,;HSD3B2,downstream_gene_variant,,ENST00000471656,;	C	ENSG00000203859	ENST00000543831	Transcript	synonymous_variant	618	369	123	S	agT/agC	rs758740855	.	.	1	HSD3B2	HGNC	5218	protein_coding	YES	CCDS902.1	ENSP00000445122	3BHS2_HUMAN	Q5QP01_HUMAN	UPI0000001C6C	.	.	.	4/4	.	hmmpanther:PTHR10366,hmmpanther:PTHR10366:SF296,Pfam_domain:PF01073,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAGTAGCAT	byCluster	5	BLCA
ACAP3	0	.	GRCh37	1	1234003	1234003	+	Silent	SNP	C	C	A	rs777136007	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807G>T	p.%3D	p.V269V	ENST00000354700	11/24	68	62	6	88	88	0	ACAP3,synonymous_variant,p.%3D,ENST00000354700,;ACAP3,synonymous_variant,p.%3D,ENST00000353662,;ACAP3,upstream_gene_variant,,ENST00000379037,;ACAP3,downstream_gene_variant,,ENST00000438966,;ACAP3,non_coding_transcript_exon_variant,,ENST00000467278,;ACAP3,non_coding_transcript_exon_variant,,ENST00000492936,;ACAP3,non_coding_transcript_exon_variant,,ENST00000476572,;ACAP3,downstream_gene_variant,,ENST00000478065,;ACAP3,downstream_gene_variant,,ENST00000472541,;ACAP3,downstream_gene_variant,,ENST00000479108,;ACAP3,upstream_gene_variant,,ENST00000493992,;ACAP3,downstream_gene_variant,,ENST00000354980,;ACAP3,upstream_gene_variant,,ENST00000470659,;	A	ENSG00000131584	ENST00000354700	Transcript	synonymous_variant	1010	807	269	V	gtG/gtT	rs777136007	.	.	-1	ACAP3	HGNC	16754	protein_coding	YES	CCDS19.2	ENSP00000346733	ACAP3_HUMAN	Q8WTZ1_HUMAN,Q8N2W2_HUMAN	UPI0000050F41	.	.	.	11/24	.	PROSITE_profiles:PS50003,hmmpanther:PTHR23180:SF230,hmmpanther:PTHR23180,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATCACCACCCC	.	3	BLCA
VWA1	0	.	GRCh37	1	1374636	1374636	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807C>T	p.%3D	p.I269I	ENST00000476993	3/3	8	4	4	20	20	0	VWA1,synonymous_variant,p.%3D,ENST00000476993,;VWA1,synonymous_variant,p.%3D,ENST00000404702,;VWA1,3_prime_UTR_variant,,ENST00000338660,;VWA1,downstream_gene_variant,,ENST00000495558,;VWA1,downstream_gene_variant,,ENST00000471398,;RP4-758J18.10,upstream_gene_variant,,ENST00000430109,;RP4-758J18.10,upstream_gene_variant,,ENST00000417917,;RP4-758J18.10,upstream_gene_variant,,ENST00000454562,;	T	ENSG00000179403	ENST00000476993	Transcript	synonymous_variant	885	807	269	I	atC/atT	.	.	.	1	VWA1	HGNC	30910	protein_coding	YES	CCDS27.1	ENSP00000417185	VWA1_HUMAN	J3QLP3_HUMAN	UPI00001D9616	.	.	.	3/3	.	PROSITE_profiles:PS50853,hmmpanther:PTHR22992:SF7,hmmpanther:PTHR22992,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	TGGATCTGGGC	.	2	BLCA
BCL9	0	.	GRCh37	1	147096640	147096640	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4161G>T	p.Met1387Ile	p.M1387I	ENST00000234739	10/10	16	12	4	27	27	0	BCL9,missense_variant,p.Met1387Ile,ENST00000234739,;ACP6,downstream_gene_variant,,ENST00000609196,;	T	ENSG00000116128	ENST00000234739	Transcript	missense_variant	4901	4161	1387	M/I	atG/atT	.	.	.	1	BCL9	HGNC	1008	protein_coding	YES	CCDS30833.1	ENSP00000234739	BCL9_HUMAN	.	UPI000013C9B9	.	tolerated(0.17)	possibly_damaging(0.885)	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15185,hmmpanther:PTHR15185:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCATGATGGG	.	2	BLCA
MRPS21	0	.	GRCh37	1	150280533	150280533	+	Silent	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135T>C	p.%3D	p.Y45Y	ENST00000369084	2/2	80	45	34	45	45	0	MRPS21,synonymous_variant,p.%3D,ENST00000369084,;MRPS21,synonymous_variant,p.%3D,ENST00000309092,;	C	ENSG00000187145	ENST00000369084	Transcript	synonymous_variant	582	135	45	Y	taT/taC	.	.	.	1	MRPS21	HGNC	14046	protein_coding	YES	CCDS950.1	ENSP00000358080	RT21_HUMAN	.	UPI0000135297	.	.	.	2/2	.	HAMAP:MF_00358,hmmpanther:PTHR21109,TIGRFAM_domain:TIGR00030,Pfam_domain:PF01165	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTATGAGAA	.	5	BLCA
LYSMD1	0	.	GRCh37	1	151134293	151134293	+	Missense_Mutation	SNP	G	G	A	rs192433758	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.464C>T	p.Ser155Phe	p.S155F	ENST00000368908	2/3	106	91	14	108	108	0	LYSMD1,missense_variant,p.Ser107Phe,ENST00000440902,;LYSMD1,missense_variant,p.Ser155Phe,ENST00000368908,;SCNM1,intron_variant,,ENST00000602841,;SCNM1,upstream_gene_variant,,ENST00000368905,;TNFAIP8L2,downstream_gene_variant,,ENST00000368910,;SCNM1,upstream_gene_variant,,ENST00000368902,;SCNM1,upstream_gene_variant,,ENST00000471039,;SCNM1,upstream_gene_variant,,ENST00000461862,;SCNM1,upstream_gene_variant,,ENST00000497147,;	A	ENSG00000163155	ENST00000368908	Transcript	missense_variant	1125	464	155	S/F	tCt/tTt	rs192433758	.	.	-1	LYSMD1	HGNC	32070	protein_coding	YES	CCDS986.1	ENSP00000357904	LYSM1_HUMAN	.	UPI000007311C	.	deleterious(0.05)	possibly_damaging(0.668)	2/3	.	hmmpanther:PTHR20932,hmmpanther:PTHR20932:SF2	C:0.0008	C:0	C:0.0058	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AATCAGAGGCA	byFrequency|byCluster|by1000G	3	BLCA
VPS72	0	.	GRCh37	1	151156916	151156916	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>T	p.Arg147Trp	p.R147W	ENST00000354473	4/6	90	80	10	107	107	0	VPS72,missense_variant,p.Arg147Trp,ENST00000368892,;VPS72,missense_variant,p.Arg147Trp,ENST00000354473,;VPS72,non_coding_transcript_exon_variant,,ENST00000496809,;VPS72,downstream_gene_variant,,ENST00000463470,;VPS72,non_coding_transcript_exon_variant,,ENST00000491094,;VPS72,downstream_gene_variant,,ENST00000471423,;	A	ENSG00000163159	ENST00000354473	Transcript	missense_variant	476	439	147	R/W	Cgg/Tgg	.	.	.	-1	VPS72	HGNC	11644	protein_coding	YES	CCDS59201.1	ENSP00000346464	VPS72_HUMAN	.	UPI0000204210	.	deleterious(0.03)	possibly_damaging(0.759)	4/6	.	hmmpanther:PTHR13275,Pfam_domain:PF05764	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACCCGAAGGA	.	3	BLCA
CRCT1	0	.	GRCh37	1	152487935	152487935	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>T	p.Ala26Ser	p.A26S	ENST00000368790	2/2	14	10	4	20	20	0	CRCT1,missense_variant,p.Ala26Ser,ENST00000368790,;LCE5A,downstream_gene_variant,,ENST00000334269,;	T	ENSG00000169509	ENST00000368790	Transcript	missense_variant	149	76	26	A/S	Gcc/Tcc	.	.	.	1	CRCT1	HGNC	29875	protein_coding	YES	CCDS1012.1	ENSP00000357779	CRCT1_HUMAN	.	UPI0000130071	.	.	unknown(0)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23263:SF36,hmmpanther:PTHR23263	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE	GTCCCGCCCCG	.	3	BLCA
RUSC1	0	.	GRCh37	1	155291600	155291600	+	Silent	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36C>A	p.%3D	p.L12L	ENST00000368352	2/10	83	73	9	96	96	0	RUSC1,synonymous_variant,p.%3D,ENST00000368352,;RUSC1,synonymous_variant,p.%3D,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000292254,;FDPS,downstream_gene_variant,,ENST00000356657,;RUSC1,upstream_gene_variant,,ENST00000368347,;FDPS,downstream_gene_variant,,ENST00000447866,;RUSC1,upstream_gene_variant,,ENST00000368349,;FDPS,downstream_gene_variant,,ENST00000368356,;RUSC1-AS1,intron_variant,,ENST00000450199,;RUSC1-AS1,intron_variant,,ENST00000443642,;RUSC1-AS1,upstream_gene_variant,,ENST00000543656,;RUSC1-AS1,upstream_gene_variant,,ENST00000446880,;FDPS,downstream_gene_variant,,ENST00000470171,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,downstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000471876,;RUSC1,upstream_gene_variant,,ENST00000479924,;RUSC1,upstream_gene_variant,,ENST00000467820,;RUSC1,upstream_gene_variant,,ENST00000489860,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000492244,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000468764,;RUSC1,upstream_gene_variant,,ENST00000484664,;RUSC1,upstream_gene_variant,,ENST00000462780,;FDPS,downstream_gene_variant,,ENST00000489324,;RUSC1,upstream_gene_variant,,ENST00000485924,;FDPS,downstream_gene_variant,,ENST00000467076,;RUSC1,upstream_gene_variant,,ENST00000490373,;FDPS,downstream_gene_variant,,ENST00000489003,;FDPS,downstream_gene_variant,,ENST00000495308,;RUSC1,upstream_gene_variant,,ENST00000473331,;FDPS,downstream_gene_variant,,ENST00000468479,;FDPS,downstream_gene_variant,,ENST00000465559,;RUSC1,upstream_gene_variant,,ENST00000492536,;FDPS,downstream_gene_variant,,ENST00000477057,;FDPS,downstream_gene_variant,,ENST00000491013,;FDPS,downstream_gene_variant,,ENST00000492887,;	A	ENSG00000160753	ENST00000368352	Transcript	synonymous_variant	187	36	12	L	ctC/ctA	.	.	.	1	RUSC1	HGNC	17153	protein_coding	YES	CCDS41410.1	ENSP00000357336	RUSC1_HUMAN	Q68CX2_HUMAN	UPI000046FDA5	.	.	.	2/10	.	hmmpanther:PTHR15591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTCAACCA	.	4	BLCA
CD1D	0	.	GRCh37	1	158152093	158152093	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.600G>C	p.Lys200Asn	p.K200N	ENST00000368171	4/7	76	64	12	120	120	0	CD1D,missense_variant,p.Lys200Asn,ENST00000368171,;ELL2P1,upstream_gene_variant,,ENST00000413990,;	C	ENSG00000158473	ENST00000368171	Transcript	missense_variant	1099	600	200	K/N	aaG/aaC	.	.	.	1	CD1D	HGNC	1637	protein_coding	YES	CCDS1173.1	ENSP00000357153	CD1D_HUMAN	.	UPI00000012B1	.	deleterious(0)	benign(0)	4/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF146,Gene3D:3.30.500.10,Superfamily_domains:SSF54452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGAAGAAGCA	.	4	BLCA
OR6K6	0	.	GRCh37	1	158725016	158725016	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411C>T	p.%3D	p.I137I	ENST00000368144	1/1	32	18	14	56	56	0	OR6K6,synonymous_variant,p.%3D,ENST00000368144,;	T	ENSG00000180433	ENST00000368144	Transcript	synonymous_variant	507	411	137	I	atC/atT	.	.	.	1	OR6K6	HGNC	15033	protein_coding	YES	CCDS30904.1	ENSP00000357126	OR6K6_HUMAN	.	UPI000015F229	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF132,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTATCACAGA	.	5	BLCA
SLAMF8	0	.	GRCh37	1	159802697	159802697	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>G	p.Phe133Leu	p.F133L	ENST00000289707	3/5	199	69	129	81	81	0	SLAMF8,missense_variant,p.Phe24Leu,ENST00000368104,;SLAMF8,missense_variant,p.Phe133Leu,ENST00000289707,;C1orf204,downstream_gene_variant,,ENST00000368102,;SLAMF8,non_coding_transcript_exon_variant,,ENST00000471286,;C1orf204,downstream_gene_variant,,ENST00000491974,;SLAMF8,upstream_gene_variant,,ENST00000497141,;	G	ENSG00000158714	ENST00000289707	Transcript	missense_variant	548	399	133	F/L	ttC/ttG	.	.	.	1	SLAMF8	HGNC	21391	protein_coding	YES	CCDS1188.1	ENSP00000289707	SLAF8_HUMAN	.	UPI000003E841	.	tolerated(0.29)	possibly_damaging(0.47)	3/5	.	hmmpanther:PTHR12080,hmmpanther:PTHR12080:SF45,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTTCATTGC	.	5	BLCA
SLAMF8	0	.	GRCh37	1	159803049	159803049	+	Intron	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674-3C>T	.	.	ENST00000289707	.	309	101	207	189	189	0	SLAMF8,splice_region_variant,,ENST00000368104,;SLAMF8,splice_region_variant,,ENST00000289707,;C1orf204,downstream_gene_variant,,ENST00000368102,;SLAMF8,splice_region_variant,,ENST00000471286,;SLAMF8,splice_region_variant,,ENST00000497141,;C1orf204,downstream_gene_variant,,ENST00000491974,;	T	ENSG00000158714	ENST00000289707	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	SLAMF8	HGNC	21391	protein_coding	YES	CCDS1188.1	ENSP00000289707	SLAF8_HUMAN	.	UPI000003E841	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTCAGCAC	.	4	BLCA
FCGR3B	0	.	GRCh37	1	161600857	161600857	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136C>G	p.Leu46Val	p.L46V	ENST00000531221	1/5	44	40	4	23	23	0	FCGR3B,missense_variant,p.Leu32Val,ENST00000421702,;FCGR3B,missense_variant,p.Leu46Val,ENST00000531221,;FCGR3B,missense_variant,p.Leu10Val,ENST00000367964,;FCGR3B,missense_variant,p.Leu10Val,ENST00000294800,;FCGR3A,missense_variant,p.Leu10Val,ENST00000540048,;FCGR2B,intron_variant,,ENST00000403078,;FCGR2B,intron_variant,,ENST00000367960,;FCGR2B,intron_variant,,ENST00000428605,;FCGR2B,intron_variant,,ENST00000367962,;FCGR3B,upstream_gene_variant,,ENST00000534776,;FCGR3B,non_coding_transcript_exon_variant,,ENST00000534489,;FCGR3B,upstream_gene_variant,,ENST00000533780,;	C	ENSG00000162747	ENST00000531221	Transcript	missense_variant	140	136	46	L/V	Ctg/Gtg	.	.	.	-1	FCGR3B	HGNC	3620	protein_coding	YES	CCDS58040.1	ENSP00000433642	.	M9MML6_HUMAN,E9PNY5_HUMAN	UPI000066D8C5	.	tolerated(0.15)	probably_damaging(0.999)	1/5	.	hmmpanther:PTHR11481,hmmpanther:PTHR11481:SF14,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGCAGAGCAG	.	2	BLCA
CROCC	0	.	GRCh37	1	17292592	17292592	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4674G>C	p.Lys1558Asn	p.K1558N	ENST00000375541	29/37	20	16	4	30	30	0	CROCC,missense_variant,p.Lys1558Asn,ENST00000375541,;CROCC,non_coding_transcript_exon_variant,,ENST00000465021,;CROCC,upstream_gene_variant,,ENST00000465291,;	C	ENSG00000058453	ENST00000375541	Transcript	missense_variant	4743	4674	1558	K/N	aaG/aaC	.	.	.	1	CROCC	HGNC	21299	protein_coding	YES	CCDS30616.1	ENSP00000364691	CROCC_HUMAN	.	UPI00001AE5A0	.	.	possibly_damaging(0.607)	29/37	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23159:SF11,hmmpanther:PTHR23159,Superfamily_domains:SSF57997	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGAAGGCGGT	.	4	BLCA
LAMC1	0	.	GRCh37	1	183094530	183094530	+	Splice_Site	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2648-2A>G	.	p.X883_splice	ENST00000258341	.	55	52	3	79	79	0	LAMC1,splice_acceptor_variant,,ENST00000258341,;LAMC1,non_coding_transcript_exon_variant,,ENST00000466964,;LAMC1,upstream_gene_variant,,ENST00000478064,;	G	ENSG00000135862	ENST00000258341	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	LAMC1	HGNC	6492	protein_coding	YES	CCDS1351.1	ENSP00000258341	LAMC1_HUMAN	R4GNC7_HUMAN	UPI000013CFC7	.	.	.	.	14/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTTAGCCTG	.	2	BLCA
LAMC2	0	.	GRCh37	1	183195920	183195920	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1154C>A	p.Pro385His	p.P385H	ENST00000264144	9/23	158	137	21	186	186	0	LAMC2,missense_variant,p.Pro385His,ENST00000264144,;LAMC2,missense_variant,p.Pro385His,ENST00000493293,;	A	ENSG00000058085	ENST00000264144	Transcript	missense_variant	1219	1154	385	P/H	cCt/cAt	.	.	.	1	LAMC2	HGNC	6493	protein_coding	YES	CCDS1352.1	ENSP00000264144	LAMC2_HUMAN	.	UPI000013D4CA	.	deleterious(0)	probably_damaging(1)	9/23	.	hmmpanther:PTHR10574:SF79,hmmpanther:PTHR10574,PROSITE_patterns:PS01248,Pfam_domain:PF00053,SMART_domains:SM00180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTCCTGTTG	.	4	BLCA
SMG7	0	.	GRCh37	1	183514427	183514427	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2212C>T	p.His738Tyr	p.H738Y	ENST00000507469	16/23	80	70	10	77	77	0	SMG7,missense_variant,p.His696Tyr,ENST00000419169,;SMG7,missense_variant,p.His767Tyr,ENST00000367537,;SMG7,missense_variant,p.His738Tyr,ENST00000507469,;SMG7,missense_variant,p.His784Tyr,ENST00000347615,;SMG7,missense_variant,p.His742Tyr,ENST00000508461,;SMG7,missense_variant,p.His738Tyr,ENST00000515829,;SMG7,missense_variant,p.His696Tyr,ENST00000456731,;SMG7,upstream_gene_variant,,ENST00000493045,;	T	ENSG00000116698	ENST00000507469	Transcript	missense_variant	2330	2212	738	H/Y	Cac/Tac	.	.	.	1	SMG7	HGNC	16792	protein_coding	YES	CCDS41445.2	ENSP00000425133	SMG7_HUMAN	Q96N31_HUMAN,B1ALB4_HUMAN	UPI0000D6205B	.	deleterious_low_confidence(0)	possibly_damaging(0.529)	16/23	.	hmmpanther:PTHR15696:SF0,hmmpanther:PTHR15696	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCACCAC	.	4	BLCA
C1orf27	0	.	GRCh37	1	186360858	186360858	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646G>A	p.Glu216Lys	p.E216K	ENST00000287859	8/14	11	6	5	21	21	0	C1orf27,missense_variant,p.Glu216Lys,ENST00000432021,;C1orf27,missense_variant,p.Glu184Lys,ENST00000419367,;C1orf27,missense_variant,p.Glu216Lys,ENST00000367470,;C1orf27,missense_variant,p.Glu216Lys,ENST00000287859,;AL596220.1,downstream_gene_variant,,ENST00000598663,;	A	ENSG00000157181	ENST00000287859	Transcript	missense_variant	771	646	216	E/K	Gaa/Aaa	.	.	.	1	C1orf27	HGNC	24299	protein_coding	YES	CCDS53448.1	ENSP00000287859	ODR4_HUMAN	.	UPI00003744FF	.	deleterious(0)	benign(0.122)	8/14	.	hmmpanther:PTHR11695:SF474,hmmpanther:PTHR11695,Pfam_domain:PF14778	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAATAGAAAAT	.	3	BLCA
F13B	0	.	GRCh37	1	197024861	197024861	+	Silent	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1338C>G	p.%3D	p.S446S	ENST00000367412	8/12	79	67	12	101	101	0	F13B,synonymous_variant,p.%3D,ENST00000367412,;F13B,upstream_gene_variant,,ENST00000490002,;	C	ENSG00000143278	ENST00000367412	Transcript	synonymous_variant	1382	1338	446	S	tcC/tcG	.	.	.	-1	F13B	HGNC	3534	protein_coding	YES	CCDS1388.1	ENSP00000356382	F13B_HUMAN	.	UPI000013D8E0	.	.	.	8/12	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF314,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGGGGATGA	.	5	BLCA
KIF14	0	.	GRCh37	1	200584525	200584525	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1325G>T	p.Cys442Phe	p.C442F	ENST00000367350	3/30	90	78	12	82	82	0	KIF14,missense_variant,p.Cys442Phe,ENST00000367350,;	A	ENSG00000118193	ENST00000367350	Transcript	missense_variant	1764	1325	442	C/F	tGt/tTt	.	.	.	-1	KIF14	HGNC	19181	protein_coding	YES	CCDS30963.1	ENSP00000356319	KIF14_HUMAN	.	UPI000012DDA3	.	deleterious(0)	probably_damaging(1)	3/30	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF128,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540,Prints_domain:PR00380	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAGACAGGTA	.	4	BLCA
CAMSAP2	0	.	GRCh37	1	200818177	200818177	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2280G>C	p.Lys760Asn	p.K760N	ENST00000358823	11/17	54	45	9	67	67	0	CAMSAP2,missense_variant,p.Lys744Asn,ENST00000413307,;CAMSAP2,missense_variant,p.Lys760Asn,ENST00000358823,;CAMSAP2,missense_variant,p.Lys771Asn,ENST00000236925,;CAMSAP2,intron_variant,,ENST00000447701,;	C	ENSG00000118200	ENST00000358823	Transcript	missense_variant	2550	2280	760	K/N	aaG/aaC	.	.	.	1	CAMSAP2	HGNC	29188	protein_coding	YES	CCDS1404.1	ENSP00000351684	CAMP2_HUMAN	.	UPI000020470D	.	deleterious(0)	probably_damaging(1)	11/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21595:SF1,hmmpanther:PTHR21595	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAAGAGGCG	.	5	BLCA
ADORA1	0	.	GRCh37	1	203098028	203098028	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>T	p.Ala20Val	p.A20V	ENST00000367236	2/3	81	67	14	132	132	0	ADORA1,missense_variant,p.Ala20Val,ENST00000309502,;ADORA1,missense_variant,p.Ala20Val,ENST00000367236,;ADORA1,missense_variant,p.Ala20Val,ENST00000337894,;ADORA1,missense_variant,p.Ala20Val,ENST00000367235,;RP11-335O13.7,upstream_gene_variant,,ENST00000421055,;ADORA1,upstream_gene_variant,,ENST00000464019,;	T	ENSG00000163485	ENST00000367236	Transcript	missense_variant	980	59	20	A/V	gCc/gTc	.	.	.	1	ADORA1	HGNC	262	protein_coding	YES	CCDS1434.1	ENSP00000356205	AA1R_HUMAN	.	UPI00000503E1	.	deleterious(0)	possibly_damaging(0.536)	2/3	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR24246:SF1,hmmpanther:PTHR24246,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCGCCCTGG	.	5	BLCA
MYBPH	0	.	GRCh37	1	203140596	203140596	+	Silent	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708C>A	p.%3D	p.A236A	ENST00000255416	5/11	40	36	4	38	38	0	MYBPH,synonymous_variant,p.%3D,ENST00000255416,;ADORA1,downstream_gene_variant,,ENST00000309502,;ADORA1,downstream_gene_variant,,ENST00000367236,;ADORA1,downstream_gene_variant,,ENST00000337894,;ADORA1,downstream_gene_variant,,ENST00000367235,;ADORA1,downstream_gene_variant,,ENST00000472535,;	T	ENSG00000133055	ENST00000255416	Transcript	synonymous_variant	766	708	236	A	gcC/gcA	.	.	.	-1	MYBPH	HGNC	7552	protein_coding	YES	CCDS30975.1	ENSP00000255416	MYBPH_HUMAN	.	UPI000000DA7B	.	.	.	5/11	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR19900:SF55,hmmpanther:PTHR19900,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTGGGCCGA	.	4	BLCA
PIGR	0	.	GRCh37	1	207105029	207105029	+	Silent	SNP	G	G	A	rs750432942	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2127C>T	p.%3D	p.L709L	ENST00000356495	9/11	68	57	11	75	75	0	PIGR,synonymous_variant,p.%3D,ENST00000356495,;PIGR,non_coding_transcript_exon_variant,,ENST00000487208,;	A	ENSG00000162896	ENST00000356495	Transcript	synonymous_variant	2311	2127	709	L	ctC/ctT	rs750432942	.	.	-1	PIGR	HGNC	8968	protein_coding	YES	CCDS1474.1	ENSP00000348888	PIGR_HUMAN	.	UPI000007407E	.	.	.	9/11	.	hmmpanther:PTHR11860:SF44,hmmpanther:PTHR11860	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTCCGAGGGA	byFrequency	3	BLCA
MUL1	0	.	GRCh37	1	20827154	20827154	+	3'UTR	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29G>T	.	.	ENST00000264198	4/4	84	73	11	102	102	0	MUL1,3_prime_UTR_variant,,ENST00000264198,;	A	ENSG00000090432	ENST00000264198	Transcript	3_prime_UTR_variant	1225	.	.	.	.	.	.	.	-1	MUL1	HGNC	25762	protein_coding	YES	CCDS208.1	ENSP00000264198	MUL1_HUMAN	B7Z8S4_HUMAN	UPI00000361FC	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTCCAGGT	.	4	BLCA
PTPN14	0	.	GRCh37	1	214556763	214556763	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2435A>T	p.Asp812Val	p.D812V	ENST00000366956	13/19	57	49	7	94	94	0	PTPN14,missense_variant,p.Asp812Val,ENST00000366956,;PTPN14,3_prime_UTR_variant,,ENST00000543945,;	A	ENSG00000152104	ENST00000366956	Transcript	missense_variant	2630	2435	812	D/V	gAc/gTc	.	.	.	-1	PTPN14	HGNC	9647	protein_coding	YES	CCDS1514.1	ENSP00000355923	PTN14_HUMAN	.	UPI000013DCA6	.	tolerated(0.06)	probably_damaging(0.999)	13/19	.	PIRSF_domain:PIRSF000934,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF77	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAGGTCGGGT	.	4	BLCA
RRP15	0	.	GRCh37	1	218478402	218478402	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438C>T	p.%3D	p.C146C	ENST00000366932	3/5	98	89	9	98	98	0	RRP15,synonymous_variant,p.%3D,ENST00000366932,;RRP15,downstream_gene_variant,,ENST00000491428,;RP11-224O19.4,upstream_gene_variant,,ENST00000434965,;	T	ENSG00000067533	ENST00000366932	Transcript	synonymous_variant	468	438	146	C	tgC/tgT	.	.	.	1	RRP15	HGNC	24255	protein_coding	YES	CCDS1520.2	ENSP00000355899	RRP15_HUMAN	.	UPI0000205BC1	.	.	.	3/5	.	Pfam_domain:PF07890,hmmpanther:PTHR13245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGTGCAGAGT	.	2	BLCA
IARS2	0	.	GRCh37	1	220311311	220311311	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2101G>A	p.Ala701Thr	p.A701T	ENST00000302637	17/23	91	41	49	119	118	1	IARS2,missense_variant,p.Ala629Thr,ENST00000366922,;IARS2,missense_variant,p.Ala701Thr,ENST00000302637,;snoU13,downstream_gene_variant,,ENST00000459443,;IARS2,non_coding_transcript_exon_variant,,ENST00000488777,;IARS2,downstream_gene_variant,,ENST00000490891,;IARS2,upstream_gene_variant,,ENST00000467924,;	A	ENSG00000067704	ENST00000302637	Transcript	missense_variant	2205	2101	701	A/T	Gct/Act	.	.	.	1	IARS2	HGNC	29685	protein_coding	YES	CCDS1523.1	ENSP00000303279	SYIM_HUMAN	F6SBX2_HUMAN	UPI000035B256	.	deleterious(0)	probably_damaging(0.973)	17/23	.	HAMAP:MF_02002,hmmpanther:PTHR11946:SF9,hmmpanther:PTHR11946,Gene3D:3.40.50.620,TIGRFAM_domain:TIGR00392,Pfam_domain:PF00133,Superfamily_domains:SSF52374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTAGCTGAT	.	5	BLCA
DISP1	0	.	GRCh37	1	223178774	223178774	+	Silent	SNP	C	C	A	rs181521092	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4035C>A	p.%3D	p.A1345A	ENST00000284476	8/8	59	25	34	49	49	0	DISP1,synonymous_variant,p.%3D,ENST00000284476,;	A	ENSG00000154309	ENST00000284476	Transcript	synonymous_variant	4199	4035	1345	A	gcC/gcA	rs181521092	.	.	1	DISP1	HGNC	19711	protein_coding	YES	CCDS1536.1	ENSP00000284476	DISP1_HUMAN	.	UPI000016069D	.	.	.	8/8	.	.	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGCCGGAAT	byCluster|by1000G	5	BLCA
ADCK3	0	.	GRCh37	1	227171508	227171508	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1209C>T	p.%3D	p.A403A	ENST00000366779	15/20	38	33	5	34	34	0	ADCK3,synonymous_variant,p.%3D,ENST00000433743,;ADCK3,synonymous_variant,p.%3D,ENST00000366779,;ADCK3,synonymous_variant,p.%3D,ENST00000458507,;ADCK3,synonymous_variant,p.%3D,ENST00000366778,;ADCK3,synonymous_variant,p.%3D,ENST00000366777,;ADCK3,non_coding_transcript_exon_variant,,ENST00000464693,;ADCK3,non_coding_transcript_exon_variant,,ENST00000479852,;ADCK3,non_coding_transcript_exon_variant,,ENST00000478406,;ADCK3,non_coding_transcript_exon_variant,,ENST00000485462,;	T	ENSG00000163050	ENST00000366779	Transcript	synonymous_variant	3980	1209	403	A	gcC/gcT	.	.	.	1	ADCK3	HGNC	16812	protein_coding	YES	CCDS1557.1	ENSP00000355741	ADCK3_HUMAN	Q5T7A2_HUMAN,A1L377_HUMAN	UPI0000126D6B	.	.	.	15/20	.	hmmpanther:PTHR10566,hmmpanther:PTHR10566:SF21,Pfam_domain:PF03109,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGCCCTGGA	.	4	BLCA
OBSCN	0	.	GRCh37	1	228400181	228400181	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.697G>A	p.Glu233Lys	p.E233K	ENST00000570156	2/116	8	2	6	13	13	0	OBSCN,missense_variant,p.Glu233Lys,ENST00000284548,;OBSCN,missense_variant,p.Glu233Lys,ENST00000570156,;OBSCN,missense_variant,p.Glu233Lys,ENST00000422127,;OBSCN,5_prime_UTR_variant,,ENST00000366707,;OBSCN,5_prime_UTR_variant,,ENST00000366709,;C1orf145,intron_variant,,ENST00000295012,;OBSCN,upstream_gene_variant,,ENST00000493977,;C1orf145,intron_variant,,ENST00000337335,;C1orf145,intron_variant,,ENST00000472613,;	A	ENSG00000154358	ENST00000570156	Transcript	missense_variant	771	697	233	E/K	Gag/Aag	COSM1259790,COSM1259791,COSM1259792,COSM1259789	.	.	1	OBSCN	HGNC	15719	protein_coding	YES	CCDS59204.1	ENSP00000455507	.	H3BPX2_HUMAN	UPI00027FCDB5	.	.	possibly_damaging(0.721)	2/116	.	hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF17	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGCCGAGGGC	.	2	BLCA
OBSCN	0	.	GRCh37	1	228527734	228527734	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20218G>T	p.Glu6740Ter	p.E6740*	ENST00000570156	81/116	49	43	6	68	68	0	OBSCN,stop_gained,p.Glu3417Ter,ENST00000366707,;OBSCN,stop_gained,p.Glu2902Ter,ENST00000366709,;OBSCN,stop_gained,p.Glu5783Ter,ENST00000284548,;OBSCN,stop_gained,p.Glu400Ter,ENST00000441106,;OBSCN,stop_gained,p.Glu5783Ter,ENST00000422127,;OBSCN,stop_gained,p.Glu6740Ter,ENST00000570156,;	T	ENSG00000154358	ENST00000570156	Transcript	stop_gained	20292	20218	6740	E/*	Gag/Tag	.	.	.	1	OBSCN	HGNC	15719	protein_coding	YES	CCDS59204.1	ENSP00000455507	.	H3BPX2_HUMAN	UPI00027FCDB5	.	.	.	81/116	.	PROSITE_profiles:PS50010,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF17,Pfam_domain:PF00621,Gene3D:1.20.900.10,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCTGGAGTTC	.	3	BLCA
FMN2	0	.	GRCh37	1	240372003	240372003	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3891C>T	p.%3D	p.Y1297Y	ENST00000319653	5/18	42	34	8	67	67	0	FMN2,synonymous_variant,p.%3D,ENST00000319653,;FMN2,downstream_gene_variant,,ENST00000447095,;	T	ENSG00000155816	ENST00000319653	Transcript	synonymous_variant	4121	3891	1297	Y	taC/taT	.	.	.	1	FMN2	HGNC	14074	protein_coding	YES	CCDS31069.2	ENSP00000318884	FMN2_HUMAN	Q96L17_HUMAN,B4DN09_HUMAN	UPI00015FA087	.	.	.	5/18	.	PROSITE_profiles:PS51444,hmmpanther:PTHR23213:SF185,hmmpanther:PTHR23213,Pfam_domain:PF02181,SMART_domains:SM00498	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTACTGGAC	.	5	BLCA
FMN2	0	.	GRCh37	1	240374506	240374506	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4036G>C	p.Asp1346His	p.D1346H	ENST00000319653	6/18	78	63	14	113	113	0	FMN2,missense_variant,p.Asp1346His,ENST00000319653,;FMN2,downstream_gene_variant,,ENST00000447095,;	C	ENSG00000155816	ENST00000319653	Transcript	missense_variant	4266	4036	1346	D/H	Gat/Cat	.	.	.	1	FMN2	HGNC	14074	protein_coding	YES	CCDS31069.2	ENSP00000318884	FMN2_HUMAN	Q96L17_HUMAN,B4DN09_HUMAN	UPI00015FA087	.	.	probably_damaging(0.996)	6/18	.	PROSITE_profiles:PS51444,hmmpanther:PTHR23213:SF185,hmmpanther:PTHR23213,Pfam_domain:PF02181,SMART_domains:SM00498	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGATACT	.	5	BLCA
PRDM16	0	.	GRCh37	1	2985773	2985773	+	5'Flank	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000270722	.	15	11	4	32	32	0	PRDM16,5_prime_UTR_variant,,ENST00000441472,;PRDM16,5_prime_UTR_variant,,ENST00000442529,;PRDM16,5_prime_UTR_variant,,ENST00000511072,;PRDM16,5_prime_UTR_variant,,ENST00000378398,;PRDM16,5_prime_UTR_variant,,ENST00000378391,;PRDM16,upstream_gene_variant,,ENST00000514189,;PRDM16,upstream_gene_variant,,ENST00000270722,;LINC00982,upstream_gene_variant,,ENST00000321336,;LINC00982,upstream_gene_variant,,ENST00000445317,;PRDM16,non_coding_transcript_exon_variant,,ENST00000607632,;	C	ENSG00000142611	ENST00000270722	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2	1	PRDM16	HGNC	14000	protein_coding	YES	CCDS41236.2	ENSP00000270722	PRD16_HUMAN	.	UPI0000458A29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGTGTGGCTG	.	2	BLCA
PRDM16	0	.	GRCh37	1	3350374	3350374	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3830G>A	p.%3D	p.%3D	ENST00000270722	17/17	43	39	4	72	71	1	PRDM16,stop_retained_variant,p.%3D,ENST00000441472,;PRDM16,stop_retained_variant,p.%3D,ENST00000509860,;PRDM16,stop_retained_variant,p.%3D,ENST00000270722,;PRDM16,stop_retained_variant,p.%3D,ENST00000442529,;PRDM16,stop_retained_variant,p.%3D,ENST00000378398,;PRDM16,stop_retained_variant,p.%3D,ENST00000378391,;PRDM16,3_prime_UTR_variant,,ENST00000514189,;PRDM16,3_prime_UTR_variant,,ENST00000511072,;PRDM16,non_coding_transcript_exon_variant,,ENST00000378389,;PRDM16,non_coding_transcript_exon_variant,,ENST00000512462,;	A	ENSG00000142611	ENST00000270722	Transcript	stop_retained_variant	3879	3830	1277	*	tGa/tAa	.	.	.	1	PRDM16	HGNC	14000	protein_coding	YES	CCDS41236.2	ENSP00000270722	PRD16_HUMAN	.	UPI0000458A29	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTGACGGG	.	2	BLCA
GRIK3	0	.	GRCh37	1	37337828	37337828	+	Silent	SNP	G	G	A	rs748826480	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.693C>T	p.%3D	p.F231F	ENST00000373091	4/16	28	25	3	47	47	0	GRIK3,synonymous_variant,p.%3D,ENST00000373093,;GRIK3,synonymous_variant,p.%3D,ENST00000373091,;	A	ENSG00000163873	ENST00000373091	Transcript	synonymous_variant	710	693	231	F	ttC/ttT	rs748826480,COSM3489163,COSM3489164	.	.	-1	GRIK3	HGNC	4581	protein_coding	YES	CCDS416.1	ENSP00000362183	GRIK3_HUMAN	Q96SC0_HUMAN	UPI000013E311	.	.	.	4/16	.	Superfamily_domains:SSF53822,Gene3D:3.40.50.2300,Pfam_domain:PF01094,hmmpanther:PTHR18966:SF174,hmmpanther:PTHR18966	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTCGAAGAT	.	2	BLCA
SF3A3	0	.	GRCh37	1	38455251	38455251	+	Missense_Mutation	SNP	T	T	A	rs774759170	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.113A>T	p.Asn38Ile	p.N38I	ENST00000373019	2/17	40	19	20	47	47	0	SF3A3,missense_variant,p.Asn38Ile,ENST00000373019,;SF3A3,missense_variant,p.Asn38Ile,ENST00000448721,;RNU6-510P,upstream_gene_variant,,ENST00000391239,;SF3A3,non_coding_transcript_exon_variant,,ENST00000462258,;SF3A3,non_coding_transcript_exon_variant,,ENST00000470585,;SF3A3,non_coding_transcript_exon_variant,,ENST00000461869,;SF3A3,non_coding_transcript_exon_variant,,ENST00000489537,;	A	ENSG00000183431	ENST00000373019	Transcript	missense_variant	1069	113	38	N/I	aAt/aTt	rs774759170	.	.	-1	SF3A3	HGNC	10767	protein_coding	YES	CCDS428.1	ENSP00000362110	SF3A3_HUMAN	.	UPI0000135469	.	tolerated(0.11)	possibly_damaging(0.553)	2/17	.	hmmpanther:PTHR12786,hmmpanther:PTHR12786:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAATTGATC	byFrequency|byCluster	5	BLCA
BMP8B	0	.	GRCh37	1	40229432	40229432	+	Silent	SNP	G	G	C	rs766708012	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900C>G	p.%3D	p.V300V	ENST00000372827	5/7	111	96	15	159	159	0	BMP8B,synonymous_variant,p.%3D,ENST00000372827,;BMP8B,synonymous_variant,p.%3D,ENST00000397360,;PPIE,3_prime_UTR_variant,,ENST00000372830,;PPIE,3_prime_UTR_variant,,ENST00000356511,;PPIE,non_coding_transcript_exon_variant,,ENST00000467741,;	C	ENSG00000116985	ENST00000372827	Transcript	synonymous_variant	1276	900	300	V	gtC/gtG	rs766708012	.	.	-1	BMP8B	HGNC	1075	protein_coding	YES	CCDS444.1	ENSP00000361915	BMP8B_HUMAN	.	UPI000013C9D9	.	.	.	5/7	.	Superfamily_domains:SSF57501,Gene3D:2.10.90.10,Pfam_domain:PF00019,hmmpanther:PTHR11848:SF119,hmmpanther:PTHR11848,PROSITE_profiles:PS51362	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGCAGACCTG	byFrequency	4	BLCA
RIMKLA	0	.	GRCh37	1	42870200	42870200	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.413C>G	p.Ser138Ter	p.S138*	ENST00000431473	3/5	78	70	8	79	79	0	RIMKLA,stop_gained,p.Ser138Ter,ENST00000431473,;RIMKLA,stop_gained,p.Ser14Ter,ENST00000410070,;	G	ENSG00000177181	ENST00000431473	Transcript	stop_gained	542	413	138	S/*	tCa/tGa	.	.	.	1	RIMKLA	HGNC	28725	protein_coding	YES	CCDS466.2	ENSP00000414330	RIMKA_HUMAN	.	UPI0000160ABF	.	.	.	3/5	.	Superfamily_domains:SSF56059,TIGRFAM_domain:TIGR00768,Pfam_domain:PF08443,Gene3D:3.30.1490.20,hmmpanther:PTHR21621,hmmpanther:PTHR21621:SF1,PROSITE_profiles:PS50975	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTTTCAAAAA	.	3	BLCA
EPS15	0	.	GRCh37	1	51826914	51826914	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2473G>C	p.Asp825His	p.D825H	ENST00000371733	24/25	97	85	11	83	83	0	EPS15,missense_variant,p.Asp691His,ENST00000371730,;EPS15,missense_variant,p.Asp825His,ENST00000371733,;EPS15,missense_variant,p.Asp502His,ENST00000396122,;	G	ENSG00000085832	ENST00000371733	Transcript	missense_variant	2570	2473	825	D/H	Gat/Cat	.	.	.	-1	EPS15	HGNC	3419	protein_coding	YES	CCDS557.1	ENSP00000360798	EPS15_HUMAN	.	UPI0000161B29	.	deleterious(0)	probably_damaging(0.992)	24/25	.	hmmpanther:PTHR11216:SF54,hmmpanther:PTHR11216	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCACAAA	.	4	BLCA
ZCCHC11	0	.	GRCh37	1	52981481	52981481	+	Intron	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882+82C>A	.	.	ENST00000257177	.	25	20	5	23	23	0	ZCCHC11,3_prime_UTR_variant,,ENST00000355809,;ZCCHC11,intron_variant,,ENST00000257177,;ZCCHC11,intron_variant,,ENST00000484723,;ZCCHC11,intron_variant,,ENST00000528642,;ZCCHC11,intron_variant,,ENST00000371544,;ZCCHC11,intron_variant,,ENST00000371541,;ZCCHC11,intron_variant,,ENST00000473856,;	T	ENSG00000134744	ENST00000257177	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ZCCHC11	HGNC	28981	protein_coding	YES	CCDS30715.1	ENSP00000257177	TUT4_HUMAN	H0YEY0_HUMAN,E9PQS7_HUMAN,E9PJN7_HUMAN	UPI00001D7D0C	.	.	.	.	3/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TAAAAGAAAAA	.	3	BLCA
ZYG11B	0	.	GRCh37	1	53279301	53279301	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1789G>A	p.Glu597Lys	p.E597K	ENST00000294353	11/14	82	69	13	67	67	0	ZYG11B,missense_variant,p.Glu597Lys,ENST00000294353,;ZYG11B,missense_variant,p.Glu527Lys,ENST00000443756,;ZYG11B,3_prime_UTR_variant,,ENST00000545132,;	A	ENSG00000162378	ENST00000294353	Transcript	missense_variant	1934	1789	597	E/K	Gaa/Aaa	.	.	.	1	ZYG11B	HGNC	25820	protein_coding	YES	CCDS30717.1	ENSP00000294353	ZY11B_HUMAN	.	UPI00001C1D70	.	deleterious(0.01)	probably_damaging(0.972)	11/14	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR12904,hmmpanther:PTHR12904:SF21,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTGGAAGTC	.	5	BLCA
USP24	0	.	GRCh37	1	55612664	55612664	+	Missense_Mutation	SNP	G	G	A	rs751444448	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2188C>T	p.Arg730Cys	p.R730C	ENST00000294383	19/68	29	18	11	35	35	0	USP24,missense_variant,p.Arg570Cys,ENST00000407756,;USP24,missense_variant,p.Arg730Cys,ENST00000294383,;	A	ENSG00000162402	ENST00000294383	Transcript	missense_variant	2188	2188	730	R/C	Cgt/Tgt	rs751444448	.	.	-1	USP24	HGNC	12623	protein_coding	YES	CCDS44154.2	ENSP00000294383	UBP24_HUMAN	.	UPI000059CFDE	.	deleterious(0)	probably_damaging(0.999)	19/68	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF349	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCACGATTCC	byFrequency	5	BLCA
INADL	0	.	GRCh37	1	62456030	62456030	+	Silent	SNP	C	C	A	rs767307735	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3861C>A	p.%3D	p.L1287L	ENST00000371158	28/43	41	29	12	43	43	0	INADL,synonymous_variant,p.%3D,ENST00000371158,;INADL,synonymous_variant,p.%3D,ENST00000316485,;INADL,synonymous_variant,p.%3D,ENST00000543708,;INADL,synonymous_variant,p.%3D,ENST00000307297,;INADL,5_prime_UTR_variant,,ENST00000545929,;INADL,non_coding_transcript_exon_variant,,ENST00000490547,;INADL,non_coding_transcript_exon_variant,,ENST00000494842,;INADL,synonymous_variant,p.%3D,ENST00000484937,;INADL,non_coding_transcript_exon_variant,,ENST00000459752,;INADL,non_coding_transcript_exon_variant,,ENST00000484562,;	A	ENSG00000132849	ENST00000371158	Transcript	synonymous_variant	3975	3861	1287	L	ctC/ctA	rs767307735	.	.	1	INADL	HGNC	28881	protein_coding	YES	CCDS617.2	ENSP00000360200	INADL_HUMAN	.	UPI0000204487	.	.	.	28/43	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19964:SF11,hmmpanther:PTHR19964,Gene3D:2.30.42.10,Pfam_domain:PF00595,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACTCTTAGA	.	5	BLCA
LPHN2	0	.	GRCh37	1	82433742	82433742	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2331C>G	p.Phe777Leu	p.F777L	ENST00000319517	12/20	88	77	11	116	116	0	LPHN2,missense_variant,p.Phe790Leu,ENST00000370730,;LPHN2,missense_variant,p.Phe790Leu,ENST00000335786,;LPHN2,missense_variant,p.Phe777Leu,ENST00000370713,;LPHN2,missense_variant,p.Phe790Leu,ENST00000370717,;LPHN2,missense_variant,p.Phe790Leu,ENST00000370727,;LPHN2,missense_variant,p.Phe790Leu,ENST00000370725,;LPHN2,missense_variant,p.Phe777Leu,ENST00000319517,;LPHN2,missense_variant,p.Phe790Leu,ENST00000271029,;LPHN2,missense_variant,p.Phe790Leu,ENST00000370728,;LPHN2,missense_variant,p.Phe777Leu,ENST00000359929,;LPHN2,missense_variant,p.Phe777Leu,ENST00000370715,;LPHN2,missense_variant,p.Phe777Leu,ENST00000370723,;LPHN2,missense_variant,p.Phe715Leu,ENST00000370721,;LPHN2,missense_variant,p.Phe777Leu,ENST00000394879,;LPHN2,missense_variant,p.Phe658Leu,ENST00000449420,;LPHN2,intron_variant,,ENST00000469377,;LPHN2,downstream_gene_variant,,ENST00000468283,;	G	ENSG00000117114	ENST00000319517	Transcript	missense_variant	2547	2331	777	F/L	ttC/ttG	.	.	.	1	LPHN2	HGNC	18582	protein_coding	YES	CCDS689.1	ENSP00000322270	LPHN2_HUMAN	.	UPI000005046B	.	deleterious(0)	probably_damaging(0.995)	12/20	.	PROSITE_profiles:PS50221,hmmpanther:PTHR12011:SF61,hmmpanther:PTHR12011,Pfam_domain:PF01825,SMART_domains:SM00303	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGGAA	.	4	BLCA
CLCA2	0	.	GRCh37	1	86919106	86919106	+	Missense_Mutation	SNP	G	G	A	rs753707985	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2210G>A	p.Arg737Gln	p.R737Q	ENST00000370565	13/14	51	44	6	56	56	0	CLCA2,missense_variant,p.Arg737Gln,ENST00000370565,;CLCA2,non_coding_transcript_exon_variant,,ENST00000498802,;	A	ENSG00000137975	ENST00000370565	Transcript	missense_variant	2372	2210	737	R/Q	cGa/cAa	rs753707985	.	.	1	CLCA2	HGNC	2016	protein_coding	YES	CCDS708.1	ENSP00000359596	CLCA2_HUMAN	.	UPI0000035838	.	tolerated(0.74)	benign(0)	13/14	.	hmmpanther:PTHR10579:SF39,hmmpanther:PTHR10579,TIGRFAM_domain:TIGR00868	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGCGAAAGT	byCluster	4	BLCA
NOC2L	0	.	GRCh37	1	881603	881603	+	Missense_Mutation	SNP	G	G	C	rs768154020	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1867C>G	p.Arg623Gly	p.R623G	ENST00000327044	16/19	37	29	8	45	45	0	NOC2L,missense_variant,p.Arg623Gly,ENST00000327044,;SAMD11,downstream_gene_variant,,ENST00000342066,;SAMD11,downstream_gene_variant,,ENST00000455979,;SAMD11,downstream_gene_variant,,ENST00000341065,;NOC2L,upstream_gene_variant,,ENST00000496938,;SAMD11,downstream_gene_variant,,ENST00000478729,;NOC2L,non_coding_transcript_exon_variant,,ENST00000483767,;NOC2L,non_coding_transcript_exon_variant,,ENST00000477976,;SAMD11,downstream_gene_variant,,ENST00000464948,;SAMD11,downstream_gene_variant,,ENST00000466827,;SAMD11,downstream_gene_variant,,ENST00000474461,;	C	ENSG00000188976	ENST00000327044	Transcript	missense_variant	1917	1867	623	R/G	Cgc/Ggc	rs768154020	.	.	-1	NOC2L	HGNC	24517	protein_coding	YES	CCDS3.1	ENSP00000317992	NOC2L_HUMAN	.	UPI000041820C	.	deleterious(0.02)	possibly_damaging(0.852)	16/19	.	hmmpanther:PTHR12687:SF4,hmmpanther:PTHR12687,Pfam_domain:PF03715,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGCGCCAGT	byFrequency	5	BLCA
GBP4	0	.	GRCh37	1	89652719	89652719	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1477G>A	p.Asp493Asn	p.D493N	ENST00000355754	9/11	113	96	17	109	109	0	GBP4,missense_variant,p.Asp493Asn,ENST00000355754,;GBP4,upstream_gene_variant,,ENST00000471938,;GBP4,upstream_gene_variant,,ENST00000481397,;	T	ENSG00000162654	ENST00000355754	Transcript	missense_variant	1575	1477	493	D/N	Gac/Aac	.	.	.	-1	GBP4	HGNC	20480	protein_coding	YES	CCDS721.1	ENSP00000359490	GBP4_HUMAN	B4E2F1_HUMAN	UPI000013E1A4	.	deleterious(0.01)	probably_damaging(0.999)	9/11	.	hmmpanther:PTHR10751,hmmpanther:PTHR10751:SF17,Pfam_domain:PF02841,Gene3D:1f5nA01,Superfamily_domains:0037397	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTGTCTGACT	.	4	BLCA
SNAP25	0	.	GRCh37	20	10273879	10273879	+	Missense_Mutation	SNP	G	G	C	rs1051275	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234G>C	p.Leu78Phe	p.L78F	ENST00000254976	5/8	118	89	29	93	93	0	SNAP25,missense_variant,p.Leu78Phe,ENST00000430336,;SNAP25,missense_variant,p.Leu78Phe,ENST00000254976,;SNAP25,intron_variant,,ENST00000304886,;SNAP25-AS1,intron_variant,,ENST00000453544,;SNAP25-AS1,intron_variant,,ENST00000421143,;SNAP25,upstream_gene_variant,,ENST00000495883,;	C	ENSG00000132639	ENST00000254976	Transcript	missense_variant	445	234	78	L/F	ttG/ttC	rs1051275	.	.	1	SNAP25	HGNC	11132	protein_coding	YES	CCDS13110.1	ENSP00000254976	SNP25_HUMAN	.	UPI0000001103	.	deleterious(0.01)	benign(0.06)	5/8	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50192,hmmpanther:PTHR19305,hmmpanther:PTHR19305:SF5,Gene3D:1.20.5.110,SMART_domains:SM00397,Superfamily_domains:SSF58038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTTGACGGA	.	5	BLCA
SEC23B	0	.	GRCh37	20	18523687	18523687	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1536C>T	p.%3D	p.L512L	ENST00000336714	14/20	149	134	15	108	108	0	SEC23B,synonymous_variant,p.%3D,ENST00000377475,;SEC23B,synonymous_variant,p.%3D,ENST00000377465,;SEC23B,synonymous_variant,p.%3D,ENST00000336714,;SEC23B,synonymous_variant,p.%3D,ENST00000422877,;SEC23B,synonymous_variant,p.%3D,ENST00000262544,;AL121893.1,downstream_gene_variant,,ENST00000578930,;	T	ENSG00000101310	ENST00000336714	Transcript	synonymous_variant	1968	1536	512	L	ctC/ctT	.	.	.	1	SEC23B	HGNC	10702	protein_coding	YES	CCDS13137.1	ENSP00000338844	SC23B_HUMAN	Q5QPE2_HUMAN,B4DS04_HUMAN	UPI0000135455	.	.	.	14/20	.	hmmpanther:PTHR11141:SF3,hmmpanther:PTHR11141,Superfamily_domains:SSF81995	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCAGGCA	.	4	BLCA
CRNKL1	0	.	GRCh37	20	20016946	20016946	+	Missense_Mutation	SNP	G	G	T	rs749703305	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2440C>A	p.Pro814Thr	p.P814T	ENST00000377340	15/15	82	72	10	87	87	0	CRNKL1,missense_variant,p.Pro802Thr,ENST00000377327,;CRNKL1,missense_variant,p.Pro814Thr,ENST00000377340,;CRNKL1,missense_variant,p.Pro653Thr,ENST00000536226,;NAA20,downstream_gene_variant,,ENST00000310450,;NAA20,downstream_gene_variant,,ENST00000398602,;NAA20,downstream_gene_variant,,ENST00000334982,;CRNKL1,non_coding_transcript_exon_variant,,ENST00000521379,;NAA20,downstream_gene_variant,,ENST00000480550,;NAA20,downstream_gene_variant,,ENST00000463154,;NAA20,downstream_gene_variant,,ENST00000484480,;CRNKL1,3_prime_UTR_variant,,ENST00000490910,;CRNKL1,3_prime_UTR_variant,,ENST00000496549,;CRNKL1,non_coding_transcript_exon_variant,,ENST00000490258,;	T	ENSG00000101343	ENST00000377340	Transcript	missense_variant	2472	2440	814	P/T	Cct/Act	rs749703305	.	.	-1	CRNKL1	HGNC	15762	protein_coding	YES	CCDS33446.1	ENSP00000366557	CRNL1_HUMAN	.	UPI00004A39A7	.	tolerated(0.21)	possibly_damaging(0.644)	15/15	.	hmmpanther:PTHR11246,hmmpanther:PTHR11246:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTAGGTTGGT	.	4	BLCA
FOXA2	0	.	GRCh37	20	22563277	22563277	+	Silent	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.603C>T	p.%3D	p.F201F	ENST00000419308	2/2	118	106	11	112	111	1	FOXA2,synonymous_variant,p.%3D,ENST00000419308,;FOXA2,synonymous_variant,p.%3D,ENST00000377115,;LINC00261,upstream_gene_variant,,ENST00000564492,;RP4-788L20.3,downstream_gene_variant,,ENST00000422494,;	A	ENSG00000125798	ENST00000419308	Transcript	synonymous_variant	788	603	201	F	ttC/ttT	COSM3544664	.	.	-1	FOXA2	HGNC	5022	protein_coding	YES	CCDS46585.1	ENSP00000400341	FOXA2_HUMAN	B0ZTD4_HUMAN	UPI000040F9A0	.	.	.	2/2	.	Prints_domain:PR00053,Superfamily_domains:SSF46785,SMART_domains:SM00339,Gene3D:1.10.10.10,Pfam_domain:PF00250,hmmpanther:PTHR11829:SF57,hmmpanther:PTHR11829,PROSITE_profiles:PS50039	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGTAGAAGGG	.	4	BLCA
PLAGL2	0	.	GRCh37	20	30784569	30784569	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1177G>A	p.Glu393Lys	p.E393K	ENST00000246229	3/3	34	31	3	24	24	0	PLAGL2,missense_variant,p.Glu393Lys,ENST00000246229,;	T	ENSG00000126003	ENST00000246229	Transcript	missense_variant	1442	1177	393	E/K	Gaa/Aaa	.	.	.	-1	PLAGL2	HGNC	9047	protein_coding	YES	CCDS13197.1	ENSP00000246229	PLAL2_HUMAN	.	UPI0000001C1D	.	tolerated(0.59)	possibly_damaging(0.899)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10032:SF190,hmmpanther:PTHR10032	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTCATCTA	.	2	BLCA
SIGLEC1	0	.	GRCh37	20	3686499	3686499	+	Missense_Mutation	SNP	C	C	T	rs764151747	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>A	p.Glu200Lys	p.E200K	ENST00000344754	3/21	101	90	10	93	93	0	SIGLEC1,missense_variant,p.Glu200Lys,ENST00000344754,;SIGLEC1,missense_variant,p.Glu200Lys,ENST00000202578,;	T	ENSG00000088827	ENST00000344754	Transcript	missense_variant	598	598	200	E/K	Gag/Aag	rs764151747,COSM4098229,COSM4098230	.	.	-1	SIGLEC1	HGNC	11127	protein_coding	YES	CCDS13060.1	ENSP00000341141	SN_HUMAN	.	UPI0000049BA6	.	tolerated(0.28)	benign(0.049)	3/21	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF46,Pfam_domain:PF08205,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTCCAGGT	byFrequency	4	BLCA
HNF4A	0	.	GRCh37	20	43047092	43047092	+	Missense_Mutation	SNP	G	G	A	rs753476712	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.676G>A	p.Glu226Lys	p.E226K	ENST00000316099	6/10	157	118	39	188	187	1	HNF4A,missense_variant,p.Glu226Lys,ENST00000443598,;HNF4A,missense_variant,p.Glu226Lys,ENST00000415691,;HNF4A,missense_variant,p.Glu204Lys,ENST00000609795,;HNF4A,missense_variant,p.Glu226Lys,ENST00000316099,;HNF4A,missense_variant,p.Glu204Lys,ENST00000316673,;HNF4A,missense_variant,p.Glu204Lys,ENST00000457232,;HNF4A,3_prime_UTR_variant,,ENST00000372920,;	A	ENSG00000101076	ENST00000316099	Transcript	missense_variant	765	676	226	E/K	Gag/Aag	rs753476712	.	.	1	HNF4A	HGNC	5024	protein_coding	YES	CCDS13330.1	ENSP00000312987	HNF4A_HUMAN	F1D8T1_HUMAN	UPI000016A0BA	.	deleterious(0)	probably_damaging(0.999)	6/10	.	Prints_domain:PR00398,Superfamily_domains:SSF48508,SMART_domains:SM00430,Pfam_domain:PF00104,Gene3D:1.10.565.10,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGCGAGCAC	.	5	BLCA
SPINT4	0	.	GRCh37	20	44352663	44352663	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.260G>A	p.Arg87His	p.R87H	ENST00000279058	2/3	152	78	74	112	112	0	SPINT4,missense_variant,p.Arg87His,ENST00000279058,;	A	ENSG00000149651	ENST00000279058	Transcript	missense_variant	277	260	87	R/H	cGt/cAt	.	.	.	1	SPINT4	HGNC	16130	protein_coding	YES	CCDS33477.1	ENSP00000279058	SPIT4_HUMAN	.	UPI000015EE79	.	deleterious(0)	benign(0.023)	2/3	.	PROSITE_profiles:PS50279,hmmpanther:PTHR10083:SF175,hmmpanther:PTHR10083,Pfam_domain:PF00014,Gene3D:4.10.410.10,SMART_domains:SM00131,Prints_domain:PR00759	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAACGTGAAG	.	5	BLCA
ZNF335	0	.	GRCh37	20	44580921	44580923	+	In_Frame_Del	DEL	CTT	CTT	-	rs761673055	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	CTT	CTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3052_3054delAAG	p.Lys1018del	p.K1018del	ENST00000322927	20/28	33	28	5	30	30	0	ZNF335,inframe_deletion,p.Lys1018del,ENST00000322927,;ZNF335,inframe_deletion,p.Lys863del,ENST00000426788,;PCIF1,downstream_gene_variant,,ENST00000372409,;PCIF1,downstream_gene_variant,,ENST00000479348,;	-	ENSG00000198026	ENST00000322927	Transcript	inframe_deletion	3153-3155	3052-3054	1018	K/-	AAG/-	rs761673055	.	.	-1	ZNF335	HGNC	15807	protein_coding	YES	CCDS13389.1	ENSP00000325326	ZN335_HUMAN	.	UPI0000001BC3	.	.	.	20/28	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,hmmpanther:PTHR24403:SF31,hmmpanther:PTHR24403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	VARSCANI*|PINDEL	GGAAAACTTCTTTG	.	2	BLCA
ZNF335	0	.	GRCh37	20	44587977	44587977	+	Missense_Mutation	SNP	C	C	T	rs756746687	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2116G>A	p.Glu706Lys	p.E706K	ENST00000322927	15/28	49	42	6	40	40	0	ZNF335,missense_variant,p.Glu706Lys,ENST00000322927,;ZNF335,missense_variant,p.Glu551Lys,ENST00000426788,;ZNF335,downstream_gene_variant,,ENST00000475002,;	T	ENSG00000198026	ENST00000322927	Transcript	missense_variant	2217	2116	706	E/K	Gag/Aag	rs756746687	.	.	-1	ZNF335	HGNC	15807	protein_coding	YES	CCDS13389.1	ENSP00000325326	ZN335_HUMAN	.	UPI0000001BC3	.	deleterious(0.01)	probably_damaging(0.93)	15/28	.	hmmpanther:PTHR24403:SF31,hmmpanther:PTHR24403,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCGAAGC	byFrequency	4	BLCA
RNF114	0	.	GRCh37	20	48568643	48568643	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652A>G	p.Asn218Asp	p.N218D	ENST00000244061	6/6	81	73	8	73	73	0	RNF114,missense_variant,p.Asn218Asp,ENST00000244061,;KRT18P4,upstream_gene_variant,,ENST00000422599,;	G	ENSG00000124226	ENST00000244061	Transcript	missense_variant	654	652	218	N/D	Aat/Gat	.	.	.	1	RNF114	HGNC	13094	protein_coding	YES	CCDS33482.1	ENSP00000244061	RN114_HUMAN	H0UI65_HUMAN	UPI0000049FCA	.	tolerated(0.2)	benign(0.212)	6/6	.	hmmpanther:PTHR13982	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGATGAATCAG	.	4	BLCA
DOK5	0	.	GRCh37	20	53208278	53208278	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.533C>G	p.Ser178Cys	p.S178C	ENST00000262593	5/8	99	89	10	99	99	0	DOK5,missense_variant,p.Ser70Cys,ENST00000395939,;DOK5,missense_variant,p.Ser178Cys,ENST00000262593,;	G	ENSG00000101134	ENST00000262593	Transcript	missense_variant	883	533	178	S/C	tCt/tGt	.	.	.	1	DOK5	HGNC	16173	protein_coding	YES	CCDS13446.1	ENSP00000262593	DOK5_HUMAN	.	UPI00001296AB	.	deleterious(0.03)	probably_damaging(0.937)	5/8	.	Superfamily_domains:SSF50729,SMART_domains:SM00310,Gene3D:2.30.29.30,Pfam_domain:PF02174,hmmpanther:PTHR21258,hmmpanther:PTHR21258:SF45,PROSITE_profiles:PS51064	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCTCTTGGC	.	4	BLCA
CYYR1	0	.	GRCh37	21	27945287	27945287	+	5'UTR	SNP	G	G	T	rs560478891	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28C>A	.	.	ENST00000299340	1/4	32	22	10	39	39	0	CYYR1,missense_variant,p.Phe99Leu,ENST00000435845,;CYYR1,5_prime_UTR_variant,,ENST00000400043,;CYYR1,5_prime_UTR_variant,,ENST00000299340,;AP001597.1,downstream_gene_variant,,ENST00000357401,;	T	ENSG00000166265	ENST00000299340	Transcript	5_prime_UTR_variant	317	.	.	.	.	rs560478891,COSM3841675	.	.	-1	CYYR1	HGNC	16274	protein_coding	YES	CCDS13578.1	ENSP00000299340	CYYR1_HUMAN	.	UPI0000128D80	.	.	.	1/4	.	.	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAGCGAAGGG	by1000G	2	BLCA
ITSN1	0	.	GRCh37	21	35247702	35247702	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4218G>A	p.%3D	p.L1406L	ENST00000381318	34/40	82	71	10	95	95	0	ITSN1,synonymous_variant,p.%3D,ENST00000381285,;ITSN1,synonymous_variant,p.%3D,ENST00000415023,;ITSN1,synonymous_variant,p.%3D,ENST00000381318,;ITSN1,synonymous_variant,p.%3D,ENST00000399367,;ITSN1,3_prime_UTR_variant,,ENST00000399326,;ITSN1,intron_variant,,ENST00000381284,;AP000304.12,intron_variant,,ENST00000429238,;ITSN1,intron_variant,,ENST00000437442,;ITSN1,synonymous_variant,p.%3D,ENST00000420666,;	A	ENSG00000205726	ENST00000381318	Transcript	synonymous_variant	4506	4218	1406	L	ttG/ttA	.	.	.	1	ITSN1	HGNC	6183	protein_coding	YES	CCDS33545.1	ENSP00000370719	ITSN1_HUMAN	D6PAW2_HUMAN,C9JXS9_HUMAN,C9J1A4_HUMAN	UPI00001403C6	.	.	.	34/40	.	PROSITE_profiles:PS50010,Gene3D:1.20.900.10,Pfam_domain:PF00621,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTGAAGCA	.	4	BLCA
BRWD1	0	.	GRCh37	21	40581972	40581972	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4146C>G	p.Ile1382Met	p.I1382M	ENST00000333229	36/42	70	49	21	73	73	0	BRWD1,missense_variant,p.Ile320Met,ENST00000424441,;BRWD1,missense_variant,p.Ile1382Met,ENST00000342449,;BRWD1,missense_variant,p.Ile1382Met,ENST00000380800,;BRWD1,missense_variant,p.Ile1382Met,ENST00000333229,;BRWD1,3_prime_UTR_variant,,ENST00000446924,;BRWD1,non_coding_transcript_exon_variant,,ENST00000473813,;	C	ENSG00000185658	ENST00000333229	Transcript	missense_variant	4474	4146	1382	I/M	atC/atG	.	.	.	-1	BRWD1	HGNC	12760	protein_coding	YES	CCDS13662.1	ENSP00000330753	BRWD1_HUMAN	.	UPI0000163C12	.	tolerated(0.16)	probably_damaging(0.998)	36/42	.	Prints_domain:PR00503,Superfamily_domains:SSF47370,SMART_domains:SM00297,Gene3D:1.20.920.10,Pfam_domain:PF00439,PROSITE_patterns:PS00633,hmmpanther:PTHR16266:SF26,hmmpanther:PTHR16266,PROSITE_profiles:PS50014	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCGGATGTC	.	5	BLCA
WRB	0	.	GRCh37	21	40765135	40765135	+	Missense_Mutation	SNP	C	C	A	rs781244521	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.380C>A	p.Pro127His	p.P127H	ENST00000333781	4/5	72	56	15	75	75	0	WRB,missense_variant,p.Pro35His,ENST00000415847,;WRB,missense_variant,p.Pro127His,ENST00000333781,;WRB,missense_variant,p.Pro93His,ENST00000380708,;WRB,missense_variant,p.Pro93His,ENST00000398753,;WRB,missense_variant,p.Pro93His,ENST00000380713,;WRB,missense_variant,p.Pro127His,ENST00000541890,;WRB,downstream_gene_variant,,ENST00000442773,;WRB,non_coding_transcript_exon_variant,,ENST00000466787,;WRB,non_coding_transcript_exon_variant,,ENST00000490860,;WRB,downstream_gene_variant,,ENST00000471468,;WRB,downstream_gene_variant,,ENST00000487869,;	A	ENSG00000182093	ENST00000333781	Transcript	missense_variant	521	380	127	P/H	cCt/cAt	rs781244521	.	.	1	WRB	HGNC	12790	protein_coding	YES	CCDS13664.1	ENSP00000327716	WRB_HUMAN	H7BYE5_HUMAN,C9JLV3_HUMAN	UPI0000138F94	.	deleterious(0)	probably_damaging(1)	4/5	.	hmmpanther:PTHR11760,hmmpanther:PTHR11760:SF15,Pfam_domain:PF04420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCCCTGTGG	byFrequency	5	BLCA
RIPK4	0	.	GRCh37	21	43161561	43161562	+	Frame_Shift_Ins	INS	-	-	TA	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1791_1792insTA	p.Asn598Ter	p.N598*	ENST00000332512	8/8	86	71	15	103	103	0	RIPK4,frameshift_variant,p.Asn646Ter,ENST00000352483,;RIPK4,frameshift_variant,p.Asn535Ter,ENST00000542057,;RIPK4,frameshift_variant,p.Asn535Ter,ENST00000544709,;RIPK4,frameshift_variant,p.Asn598Ter,ENST00000332512,;AP001615.9,downstream_gene_variant,,ENST00000423276,;	TA	ENSG00000183421	ENST00000332512	Transcript	frameshift_variant	1856-1857	1791-1792	597-598	-/X	-/TA	.	.	.	-1	RIPK4	HGNC	496	protein_coding	YES	CCDS13675.1	ENSP00000332454	RIPK4_HUMAN	B7ZAU7_HUMAN	UPI000002A3C9	.	.	.	8/8	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24198,hmmpanther:PTHR24198:SF18,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGCGTTCACAC	.	3	BLCA
COL6A2	0	.	GRCh37	21	47542436	47542436	+	Silent	SNP	C	C	T	rs373635709	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1599C>T	p.%3D	p.R533R	ENST00000300527	20/28	27	24	3	49	49	0	COL6A2,synonymous_variant,p.%3D,ENST00000413758,;COL6A2,synonymous_variant,p.%3D,ENST00000397763,;COL6A2,synonymous_variant,p.%3D,ENST00000310645,;COL6A2,synonymous_variant,p.%3D,ENST00000300527,;COL6A2,synonymous_variant,p.%3D,ENST00000357838,;COL6A2,synonymous_variant,p.%3D,ENST00000409416,;	T	ENSG00000142173	ENST00000300527	Transcript	synonymous_variant	1703	1599	533	R	cgC/cgT	rs373635709	.	.	1	COL6A2	HGNC	2212	protein_coding	YES	CCDS13728.1	ENSP00000300527	CO6A2_HUMAN	C9JH44_HUMAN	UPI00001AECE0	.	.	.	20/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF119,Pfam_domain:PF01391	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACGCGGCCC	byFrequency|byCluster	4	BLCA
POTEH	0	.	GRCh37	22	16279236	16279236	+	Missense_Mutation	SNP	G	G	C	rs560275562	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987C>G	p.Ile329Met	p.I329M	ENST00000343518	4/11	503	487	16	399	399	0	POTEH,missense_variant,p.Ile329Met,ENST00000343518,;RNU6-816P,upstream_gene_variant,,ENST00000390914,;POTEH-AS1,downstream_gene_variant,,ENST00000422014,;POTEH,3_prime_UTR_variant,,ENST00000452800,;	C	ENSG00000198062	ENST00000343518	Transcript	missense_variant	1039	987	329	I/M	atC/atG	rs560275562	.	.	-1	POTEH	HGNC	133	protein_coding	YES	CCDS46658.1	ENSP00000340610	POTEH_HUMAN	.	UPI0000E5A425	.	deleterious(0.01)	probably_damaging(0.996)	4/11	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF43,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTTGATTAA	byFrequency|by1000G	2	BLCA
CECR5	0	.	GRCh37	22	17619207	17619207	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.976C>T	p.His326Tyr	p.H326Y	ENST00000336737	8/8	90	65	25	107	107	0	CECR5,missense_variant,p.His126Tyr,ENST00000399852,;CECR5,missense_variant,p.His296Tyr,ENST00000155674,;CECR5,missense_variant,p.His326Tyr,ENST00000336737,;CECR5,non_coding_transcript_exon_variant,,ENST00000477157,;CECR5,non_coding_transcript_exon_variant,,ENST00000486462,;	A	ENSG00000069998	ENST00000336737	Transcript	missense_variant	1002	976	326	H/Y	Cac/Tac	.	.	.	-1	CECR5	HGNC	1843	protein_coding	YES	CCDS33595.1	ENSP00000337358	CECR5_HUMAN	.	UPI000000D9E5	.	deleterious(0)	possibly_damaging(0.492)	8/8	.	hmmpanther:PTHR14269:SF10,hmmpanther:PTHR14269,Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR01456	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTGGAACA	.	5	BLCA
CECR5	0	.	GRCh37	22	17622074	17622074	+	Silent	SNP	C	C	T	rs778885589	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.621G>A	p.%3D	p.L207L	ENST00000336737	6/8	32	19	12	58	58	0	CECR5,synonymous_variant,p.%3D,ENST00000399852,;CECR5,synonymous_variant,p.%3D,ENST00000155674,;CECR5,synonymous_variant,p.%3D,ENST00000336737,;CECR5,non_coding_transcript_exon_variant,,ENST00000477157,;CECR5,non_coding_transcript_exon_variant,,ENST00000486462,;	T	ENSG00000069998	ENST00000336737	Transcript	synonymous_variant	647	621	207	L	ctG/ctA	rs778885589	.	.	-1	CECR5	HGNC	1843	protein_coding	YES	CCDS33595.1	ENSP00000337358	CECR5_HUMAN	.	UPI000000D9E5	.	.	.	6/8	.	hmmpanther:PTHR14269:SF10,hmmpanther:PTHR14269,TIGRFAM_domain:TIGR01456,TIGRFAM_domain:TIGR01460,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATCAGCTG	.	5	BLCA
MED15	0	.	GRCh37	22	20891416	20891416	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.81G>A	p.Met27Ile	p.M27I	ENST00000263205	2/18	40	36	4	44	44	0	MED15,start_lost,p.Met1?,ENST00000414658,;MED15,start_lost,p.Met1?,ENST00000432052,;MED15,start_lost,p.Met1?,ENST00000451058,;MED15,start_lost,p.Met1?,ENST00000406969,;MED15,start_lost,p.Met1?,ENST00000445987,;MED15,start_lost,p.Met1?,ENST00000445189,;MED15,start_lost,p.Met1?,ENST00000541476,;MED15,missense_variant,p.Met27Ile,ENST00000263205,;MED15,missense_variant,p.Met27Ile,ENST00000292733,;MED15,missense_variant,p.Met27Ile,ENST00000382974,;MED15,missense_variant,p.Met101Ile,ENST00000438962,;MED15,5_prime_UTR_variant,,ENST00000542773,;MED15,5_prime_UTR_variant,,ENST00000425759,;MED15,non_coding_transcript_exon_variant,,ENST00000473028,;MED15,non_coding_transcript_exon_variant,,ENST00000477824,;MED15,missense_variant,p.Met27Ile,ENST00000444094,;MED15,missense_variant,p.Met27Ile,ENST00000433831,;MED15,stop_retained_variant,p.%3D,ENST00000441501,;MED15,non_coding_transcript_exon_variant,,ENST00000486656,;	A	ENSG00000099917	ENST00000263205	Transcript	missense_variant	150	81	27	M/I	atG/atA	.	.	.	1	MED15	HGNC	14248	protein_coding	YES	CCDS33602.1	ENSP00000263205	MED15_HUMAN	Q69YK5_HUMAN,C9JZV5_HUMAN,C9JM58_HUMAN,C9JGN2_HUMAN,C9J1I1_HUMAN,B4DM43_HUMAN,B3KWF1_HUMAN	UPI00001313C4	.	tolerated(0.35)	unknown(0)	2/18	.	hmmpanther:PTHR31804,Pfam_domain:PF09606	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGAGGAA	.	4	BLCA
CCDC116	0	.	GRCh37	22	21988497	21988497	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259G>A	p.Glu87Lys	p.E87K	ENST00000292779	3/5	70	64	6	83	83	0	CCDC116,missense_variant,p.Glu87Lys,ENST00000607942,;CCDC116,missense_variant,p.Glu87Lys,ENST00000292779,;CCDC116,incomplete_terminal_codon_variant,p.%3D,ENST00000425975,;YDJC,upstream_gene_variant,,ENST00000398873,;YDJC,upstream_gene_variant,,ENST00000292778,;YDJC,upstream_gene_variant,,ENST00000415762,;YDJC,upstream_gene_variant,,ENST00000482998,;YDJC,upstream_gene_variant,,ENST00000464015,;YDJC,upstream_gene_variant,,ENST00000468686,;YDJC,upstream_gene_variant,,ENST00000473985,;	A	ENSG00000161180	ENST00000292779	Transcript	missense_variant	420	259	87	E/K	Gag/Aag	.	.	.	1	CCDC116	HGNC	26688	protein_coding	YES	CCDS13791.1	ENSP00000292779	CC116_HUMAN	.	UPI00000741C9	.	deleterious(0)	benign(0.341)	3/5	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTGGAGACA	.	2	BLCA
ZNF280B	0	.	GRCh37	22	22842048	22842048	+	3'UTR	SNP	T	T	C	rs766720072	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*44A>G	.	.	ENST00000360412	4/4	31	18	13	29	29	0	ZNF280B,3_prime_UTR_variant,,ENST00000406426,;ZNF280B,3_prime_UTR_variant,,ENST00000360412,;	C	ENSG00000198477	ENST00000360412	Transcript	3_prime_UTR_variant	2452	.	.	.	.	rs766720072	.	.	-1	ZNF280B	HGNC	23022	protein_coding	YES	CCDS13799.1	ENSP00000353586	Z280B_HUMAN	.	UPI000013FF86	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTTTTTAATTT	byFrequency	4	BLCA
MYO18B	0	.	GRCh37	22	26242214	26242214	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3516G>A	p.%3D	p.R1172R	ENST00000335473	19/44	30	21	8	47	47	0	MYO18B,synonymous_variant,p.%3D,ENST00000335473,;MYO18B,synonymous_variant,p.%3D,ENST00000407587,;MYO18B,synonymous_variant,p.%3D,ENST00000536101,;MYO18B,3_prime_UTR_variant,,ENST00000539302,;MYO18B,non_coding_transcript_exon_variant,,ENST00000418374,;	A	ENSG00000133454	ENST00000335473	Transcript	synonymous_variant	3766	3516	1172	R	agG/agA	.	.	.	1	MYO18B	HGNC	18150	protein_coding	YES	CCDS54507.1	ENSP00000334563	.	Q8N903_HUMAN	UPI0000207402	.	.	.	19/44	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF254,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGAGGAGGAA	.	5	BLCA
SMTN	0	.	GRCh37	22	31487084	31487084	+	Silent	SNP	C	C	T	rs751060252	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075C>T	p.%3D	p.L359L	ENST00000358743	10/21	171	40	131	90	90	0	SMTN,synonymous_variant,p.%3D,ENST00000333137,;SMTN,synonymous_variant,p.%3D,ENST00000358743,;SMTN,synonymous_variant,p.%3D,ENST00000347557,;SMTN,downstream_gene_variant,,ENST00000432777,;SMTN,upstream_gene_variant,,ENST00000455608,;SMTN,downstream_gene_variant,,ENST00000416786,;SMTN,downstream_gene_variant,,ENST00000440425,;SMTN,downstream_gene_variant,,ENST00000426927,;SMTN,downstream_gene_variant,,ENST00000438223,;SMTN,upstream_gene_variant,,ENST00000404574,;SMTN,downstream_gene_variant,,ENST00000422839,;SMTN,downstream_gene_variant,,ENST00000431481,;SMTN,downstream_gene_variant,,ENST00000475548,;SMTN,downstream_gene_variant,,ENST00000482444,;SMTN,non_coding_transcript_exon_variant,,ENST00000489337,;SMTN,non_coding_transcript_exon_variant,,ENST00000460658,;SMTN,downstream_gene_variant,,ENST00000466272,;SMTN,downstream_gene_variant,,ENST00000497697,;SMTN,upstream_gene_variant,,ENST00000493335,;	T	ENSG00000183963	ENST00000358743	Transcript	synonymous_variant	1293	1075	359	L	Ctg/Ttg	rs751060252	.	.	1	SMTN	HGNC	11126	protein_coding	YES	CCDS13887.1	ENSP00000351593	SMTN_HUMAN	C9JP19_HUMAN,C9JGQ0_HUMAN	UPI00001B0272	.	.	.	10/21	.	hmmpanther:PTHR11915:SF208,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCCCTGACC	.	5	BLCA
KCNJ4	0	.	GRCh37	22	38823649	38823649	+	Silent	SNP	G	G	A	rs755660083	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.489C>T	p.%3D	p.I163I	ENST00000303592	2/2	29	26	3	37	37	0	KCNJ4,synonymous_variant,p.%3D,ENST00000303592,;RP3-434P1.6,downstream_gene_variant,,ENST00000433230,;	A	ENSG00000168135	ENST00000303592	Transcript	synonymous_variant	748	489	163	I	atC/atT	rs755660083,COSM1034135	.	.	-1	KCNJ4	HGNC	6265	protein_coding	YES	CCDS13971.1	ENSP00000306497	IRK4_HUMAN	Q58F07_HUMAN	UPI000012D89B	.	.	.	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11767:SF13,hmmpanther:PTHR11767,Gene3D:1.10.287.70,Pfam_domain:PF01007,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81324,Superfamily_domains:SSF81296,Prints_domain:PR01326	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGTCGATGAC	byFrequency	2	BLCA
CACNA1I	0	.	GRCh37	22	40054256	40054256	+	Missense_Mutation	SNP	G	G	C	rs748513401	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2092G>C	p.Asp698His	p.D698H	ENST00000402142	11/37	63	57	6	85	85	0	CACNA1I,missense_variant,p.Asp698His,ENST00000401624,;CACNA1I,missense_variant,p.Asp663His,ENST00000407673,;CACNA1I,missense_variant,p.Asp698His,ENST00000402142,;CACNA1I,missense_variant,p.Asp663His,ENST00000400164,;CACNA1I,missense_variant,p.Asp704His,ENST00000336649,;CACNA1I,missense_variant,p.Asp663His,ENST00000404898,;	C	ENSG00000100346	ENST00000402142	Transcript	missense_variant	2092	2092	698	D/H	Gac/Cac	rs748513401	.	.	1	CACNA1I	HGNC	1396	protein_coding	YES	CCDS46710.1	ENSP00000385019	CAC1I_HUMAN	.	UPI000012727D	.	deleterious(0)	probably_damaging(0.978)	11/37	.	hmmpanther:PTHR10037:SF202,hmmpanther:PTHR10037,Pfam_domain:PF00520,Gene3D:1.20.120.350,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTCGACTAC	.	2	BLCA
ST13	0	.	GRCh37	22	41226847	41226847	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.795G>C	p.Gln265His	p.Q265H	ENST00000216218	9/12	84	58	25	99	99	0	ST13,missense_variant,p.Gln265His,ENST00000216218,;ST13,downstream_gene_variant,,ENST00000411695,;ST13,3_prime_UTR_variant,,ENST00000455824,;ST13,non_coding_transcript_exon_variant,,ENST00000480048,;ST13,downstream_gene_variant,,ENST00000495652,;ST13,downstream_gene_variant,,ENST00000413424,;	G	ENSG00000100380	ENST00000216218	Transcript	missense_variant	1277	795	265	Q/H	caG/caC	.	.	.	-1	ST13	HGNC	11343	protein_coding	YES	CCDS14006.1	ENSP00000216218	F10A1_HUMAN	Q0IJ56_HUMAN,F6VDH7_HUMAN,B7ZA40_HUMAN,B4E0U6_HUMAN	UPI000013605D	.	tolerated(0.13)	benign(0.011)	9/12	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22904:SF34,hmmpanther:PTHR22904	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTCTGGGC	.	5	BLCA
POLDIP3	0	.	GRCh37	22	42981928	42981928	+	Missense_Mutation	SNP	G	G	A	rs143816327	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1135C>T	p.Arg379Cys	p.R379C	ENST00000252115	9/9	42	31	11	53	53	0	POLDIP3,missense_variant,p.Arg350Cys,ENST00000348657,;POLDIP3,missense_variant,p.Arg379Cys,ENST00000252115,;POLDIP3,3_prime_UTR_variant,,ENST00000451060,;POLDIP3,intron_variant,,ENST00000339677,;POLDIP3,non_coding_transcript_exon_variant,,ENST00000491021,;RRP7B,upstream_gene_variant,,ENST00000357802,;RRP7B,upstream_gene_variant,,ENST00000437211,;RRP7B,upstream_gene_variant,,ENST00000421116,;RRP7B,upstream_gene_variant,,ENST00000458605,;POLDIP3,3_prime_UTR_variant,,ENST00000445215,;RRP7B,upstream_gene_variant,,ENST00000566851,;	A	ENSG00000100227	ENST00000252115	Transcript	missense_variant	1240	1135	379	R/C	Cgc/Tgc	rs143816327	.	.	-1	POLDIP3	HGNC	23782	protein_coding	YES	CCDS14038.1	ENSP00000252115	PDIP3_HUMAN	Q96DI9_HUMAN	UPI000006EEA7	.	deleterious(0.01)	probably_damaging(0.95)	9/9	.	hmmpanther:PTHR19965,hmmpanther:PTHR19965:SF8	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTGCGAGGCA	byCluster|by1000G	2	BLCA
MIOX	0	.	GRCh37	22	50928346	50928346	+	3'UTR	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61C>A	.	.	ENST00000216075	10/10	13	9	4	15	15	0	MIOX,3_prime_UTR_variant,,ENST00000395732,;MIOX,3_prime_UTR_variant,,ENST00000451761,;MIOX,3_prime_UTR_variant,,ENST00000395733,;MIOX,3_prime_UTR_variant,,ENST00000216075,;ADM2,downstream_gene_variant,,ENST00000395738,;ADM2,downstream_gene_variant,,ENST00000362068,;	A	ENSG00000100253	ENST00000216075	Transcript	3_prime_UTR_variant	993	.	.	.	.	.	.	.	1	MIOX	HGNC	14522	protein_coding	YES	CCDS14092.1	ENSP00000216075	MIOX_HUMAN	.	UPI000012F148	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGAGGCCTGGC	.	3	BLCA
REV1	0	.	GRCh37	2	100020192	100020192	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3132G>A	p.%3D	p.E1044E	ENST00000258428	19/23	454	441	12	91	91	0	REV1,synonymous_variant,p.%3D,ENST00000258428,;REV1,synonymous_variant,p.%3D,ENST00000393445,;EIF5B,downstream_gene_variant,,ENST00000289371,;RP11-527J8.1,upstream_gene_variant,,ENST00000608144,;REV1,non_coding_transcript_exon_variant,,ENST00000465835,;REV1,intron_variant,,ENST00000482595,;REV1,3_prime_UTR_variant,,ENST00000413697,;REV1,non_coding_transcript_exon_variant,,ENST00000485487,;REV1,downstream_gene_variant,,ENST00000472000,;EIF5B,downstream_gene_variant,,ENST00000470023,;REV1,downstream_gene_variant,,ENST00000477121,;REV1,downstream_gene_variant,,ENST00000438366,;EIF5B,downstream_gene_variant,,ENST00000494190,;REV1,upstream_gene_variant,,ENST00000465086,;	T	ENSG00000135945	ENST00000258428	Transcript	synonymous_variant	3361	3132	1044	E	gaG/gaA	.	.	.	-1	REV1	HGNC	14060	protein_coding	YES	CCDS2045.1	ENSP00000258428	REV1_HUMAN	.	UPI0000073A14	.	.	.	19/23	.	PIRSF_domain:PIRSF036573	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTTCTCGCC	.	2	BLCA
CCDC138	0	.	GRCh37	2	109411062	109411062	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.461C>G	p.Ser154Cys	p.S154C	ENST00000295124	5/15	73	35	38	67	67	0	CCDC138,missense_variant,p.Ser154Cys,ENST00000295124,;CCDC138,missense_variant,p.Ser52Cys,ENST00000456512,;CCDC138,missense_variant,p.Ser154Cys,ENST00000412964,;CCDC138,non_coding_transcript_exon_variant,,ENST00000470608,;CCDC138,3_prime_UTR_variant,,ENST00000447782,;CCDC138,3_prime_UTR_variant,,ENST00000409529,;	G	ENSG00000163006	ENST00000295124	Transcript	missense_variant	521	461	154	S/C	tCt/tGt	.	.	.	1	CCDC138	HGNC	26531	protein_coding	YES	CCDS2080.1	ENSP00000295124	CC138_HUMAN	.	UPI000006E2CB	.	deleterious(0.05)	possibly_damaging(0.843)	5/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGACTCTCCTT	.	3	BLCA
CCDC138	0	.	GRCh37	2	109411092	109411092	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.491C>G	p.Ser164Cys	p.S164C	ENST00000295124	5/15	61	27	34	67	67	0	CCDC138,missense_variant,p.Ser164Cys,ENST00000295124,;CCDC138,missense_variant,p.Ser62Cys,ENST00000456512,;CCDC138,missense_variant,p.Ser164Cys,ENST00000412964,;CCDC138,non_coding_transcript_exon_variant,,ENST00000470608,;CCDC138,3_prime_UTR_variant,,ENST00000447782,;CCDC138,3_prime_UTR_variant,,ENST00000409529,;	G	ENSG00000163006	ENST00000295124	Transcript	missense_variant	551	491	164	S/C	tCt/tGt	.	.	.	1	CCDC138	HGNC	26531	protein_coding	YES	CCDS2080.1	ENSP00000295124	CC138_HUMAN	.	UPI000006E2CB	.	deleterious(0.02)	possibly_damaging(0.843)	5/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAAATCTAAAG	.	3	BLCA
IL1B	0	.	GRCh37	2	113593169	113593169	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73G>T	p.Glu25Ter	p.E25*	ENST00000263341	3/7	80	73	7	81	81	0	IL1B,stop_gained,p.Glu25Ter,ENST00000418817,;IL1B,stop_gained,p.Glu25Ter,ENST00000432018,;IL1B,stop_gained,p.Glu25Ter,ENST00000263341,;IL1B,stop_gained,p.Glu25Ter,ENST00000416750,;IL1B,non_coding_transcript_exon_variant,,ENST00000491056,;IL1B,non_coding_transcript_exon_variant,,ENST00000477398,;IL1B,non_coding_transcript_exon_variant,,ENST00000496280,;IL1B,upstream_gene_variant,,ENST00000487639,;	A	ENSG00000125538	ENST00000263341	Transcript	stop_gained	284	73	25	E/*	Gaa/Taa	.	.	.	-1	IL1B	HGNC	5992	protein_coding	YES	CCDS2102.1	ENSP00000263341	IL1B_HUMAN	C9JWV2_HUMAN,C9JVK0_HUMAN,C9JSC2_HUMAN,B5BUQ8_HUMAN	UPI0000054161	.	.	.	3/7	.	hmmpanther:PTHR10078,hmmpanther:PTHR10078:SF20,Pfam_domain:PF02394,Prints_domain:PR01359	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCTTCAAAGA	.	3	BLCA
LPIN1	0	.	GRCh37	2	11925030	11925030	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1524C>T	p.%3D	p.L508L	ENST00000449576	11/22	54	29	25	63	63	0	LPIN1,synonymous_variant,p.%3D,ENST00000396097,;LPIN1,synonymous_variant,p.%3D,ENST00000449576,;LPIN1,synonymous_variant,p.%3D,ENST00000396099,;LPIN1,synonymous_variant,p.%3D,ENST00000256720,;LPIN1,synonymous_variant,p.%3D,ENST00000425416,;LPIN1,upstream_gene_variant,,ENST00000454151,;LPIN1,upstream_gene_variant,,ENST00000404113,;LPIN1,downstream_gene_variant,,ENST00000396098,;LPIN1,downstream_gene_variant,,ENST00000475286,;LPIN1,downstream_gene_variant,,ENST00000460096,;LPIN1,upstream_gene_variant,,ENST00000464953,;	T	ENSG00000134324	ENST00000449576	Transcript	synonymous_variant	1577	1524	508	L	ctC/ctT	.	.	.	1	LPIN1	HGNC	13345	protein_coding	YES	CCDS58699.1	ENSP00000397908	.	F5GY24_HUMAN,C9J278_HUMAN,C9IYP2_HUMAN,B4DGZ6_HUMAN	UPI0002064F62	.	.	.	11/22	.	hmmpanther:PTHR12181:SF10,hmmpanther:PTHR12181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTCGCAAA	.	5	BLCA
C1QL2	0	.	GRCh37	2	119915321	119915321	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525G>A	p.%3D	p.L175L	ENST00000272520	1/2	15	5	10	27	27	0	C1QL2,synonymous_variant,p.%3D,ENST00000272520,;	T	ENSG00000144119	ENST00000272520	Transcript	synonymous_variant	1145	525	175	L	ctG/ctA	.	.	.	-1	C1QL2	HGNC	24181	protein_coding	YES	CCDS42737.1	ENSP00000272520	C1QL2_HUMAN	.	UPI000013D95E	.	.	.	1/2	.	PROSITE_profiles:PS50871,hmmpanther:PTHR24022,hmmpanther:PTHR24022:SF9,Gene3D:2.60.120.40,Pfam_domain:PF00386,SMART_domains:SM00110,Superfamily_domains:SSF49842,Prints_domain:PR00007	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACTTCAGCAC	.	2	BLCA
CNTNAP5	0	.	GRCh37	2	125281920	125281920	+	Silent	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1365C>A	p.%3D	p.I455I	ENST00000431078	9/24	40	30	9	48	48	0	CNTNAP5,synonymous_variant,p.%3D,ENST00000431078,;	A	ENSG00000155052	ENST00000431078	Transcript	synonymous_variant	1729	1365	455	I	atC/atA	.	.	.	1	CNTNAP5	HGNC	18748	protein_coding	YES	CCDS46401.1	ENSP00000399013	CNTP5_HUMAN	.	UPI0000071988	.	.	.	9/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF605,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCAACGC	.	5	BLCA
NCKAP5	0	.	GRCh37	2	133538798	133538798	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4876G>C	p.Asp1626His	p.D1626H	ENST00000409261	15/20	49	45	4	41	41	0	NCKAP5,missense_variant,p.Asp1626His,ENST00000409261,;NCKAP5,missense_variant,p.Asp1626His,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,non_coding_transcript_exon_variant,,ENST00000473859,;	G	ENSG00000176771	ENST00000409261	Transcript	missense_variant	5250	4876	1626	D/H	Gat/Cat	.	.	.	-1	NCKAP5	HGNC	29847	protein_coding	YES	CCDS46418.1	ENSP00000387128	NCKP5_HUMAN	C9JYL7_HUMAN	UPI0000E07A3F	.	deleterious(0.02)	probably_damaging(0.999)	15/20	.	hmmpanther:PTHR21740:SF0,hmmpanther:PTHR21740,Pfam_domain:PF15246	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTATCAACTC	.	2	BLCA
ZEB2	0	.	GRCh37	2	145147111	145147111	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3552G>A	p.%3D	p.E1184E	ENST00000558170	10/10	183	164	18	199	198	1	ZEB2,synonymous_variant,p.%3D,ENST00000539609,;ZEB2,synonymous_variant,p.%3D,ENST00000409487,;ZEB2,synonymous_variant,p.%3D,ENST00000303660,;ZEB2,synonymous_variant,p.%3D,ENST00000558170,;ZEB2,intron_variant,,ENST00000419938,;	T	ENSG00000169554	ENST00000558170	Transcript	synonymous_variant	4737	3552	1184	E	gaG/gaA	.	.	.	-1	ZEB2	HGNC	14881	protein_coding	YES	CCDS2186.1	ENSP00000454157	ZEB2_HUMAN	U3KPV5_HUMAN,Q53TG0_HUMAN,Q53TD9_HUMAN,E7EUW9_HUMAN,E7ESP8_HUMAN,C9JUQ1_HUMAN,C9JU62_HUMAN,A0JP08_HUMAN	UPI00001359A2	.	.	.	10/10	.	hmmpanther:PTHR13919,hmmpanther:PTHR13919:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGTCTCTTC	.	4	BLCA
LY75-CD302	0	.	GRCh37	2	160710209	160710209	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2596-1G>C	.	p.X866_splice	ENST00000504764	.	71	34	37	63	63	0	LY75-CD302,splice_acceptor_variant,,ENST00000504764,;LY75,splice_acceptor_variant,,ENST00000553424,;LY75,splice_acceptor_variant,,ENST00000554112,;LY75,splice_acceptor_variant,,ENST00000263636,;LY75-CD302,splice_acceptor_variant,,ENST00000505052,;	G	ENSG00000248672	ENST00000504764	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	LY75-CD302	HGNC	38828	protein_coding	YES	CCDS56141.1	ENSP00000423463	.	.	UPI00018817E3	.	.	.	.	18/38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATATCTGAAA	.	5	BLCA
SSFA2	0	.	GRCh37	2	182780354	182780354	+	Missense_Mutation	SNP	C	C	G	rs753564617	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1987C>G	p.Leu663Val	p.L663V	ENST00000431877	11/18	63	47	16	60	60	0	SSFA2,missense_variant,p.Leu663Val,ENST00000409001,;SSFA2,missense_variant,p.Leu172Val,ENST00000409136,;SSFA2,missense_variant,p.Leu663Val,ENST00000431877,;SSFA2,missense_variant,p.Leu663Val,ENST00000320370,;SSFA2,missense_variant,p.Leu510Val,ENST00000428267,;SSFA2,upstream_gene_variant,,ENST00000451836,;SSFA2,upstream_gene_variant,,ENST00000491866,;SSFA2,upstream_gene_variant,,ENST00000467172,;SSFA2,3_prime_UTR_variant,,ENST00000416081,;SSFA2,3_prime_UTR_variant,,ENST00000454579,;SSFA2,3_prime_UTR_variant,,ENST00000440623,;SSFA2,non_coding_transcript_exon_variant,,ENST00000491720,;	G	ENSG00000138434	ENST00000431877	Transcript	missense_variant	2166	1987	663	L/V	Ctg/Gtg	rs753564617	.	.	1	SSFA2	HGNC	11319	protein_coding	YES	CCDS46467.1	ENSP00000388731	SSFA2_HUMAN	B3KXT1_HUMAN	UPI000019B17A	.	deleterious(0.05)	benign(0.236)	11/18	.	hmmpanther:PTHR17469,hmmpanther:PTHR17469:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTCTGAAA	.	5	BLCA
C2orf47	0	.	GRCh37	2	200824491	200824491	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537G>A	p.%3D	p.L179L	ENST00000295079	4/6	60	43	17	66	66	0	C2orf47,synonymous_variant,p.%3D,ENST00000295079,;C2orf47,synonymous_variant,p.%3D,ENST00000392290,;C2orf47,synonymous_variant,p.%3D,ENST00000435773,;TYW5,upstream_gene_variant,,ENST00000354611,;C2orf47,non_coding_transcript_exon_variant,,ENST00000469156,;TYW5,upstream_gene_variant,,ENST00000452512,;C2orf69,downstream_gene_variant,,ENST00000491721,;TYW5,upstream_gene_variant,,ENST00000483328,;TYW5,upstream_gene_variant,,ENST00000493181,;TYW5,upstream_gene_variant,,ENST00000441832,;	A	ENSG00000162972	ENST00000295079	Transcript	synonymous_variant	859	537	179	L	ttG/ttA	.	.	.	1	C2orf47	HGNC	26198	protein_coding	YES	CCDS2329.1	ENSP00000295079	CB047_HUMAN	.	UPI000006F16D	.	.	.	4/6	.	hmmpanther:PTHR13333,hmmpanther:PTHR13333:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTGAAAGA	.	5	BLCA
CARF	0	.	GRCh37	2	203847020	203847020	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1915G>C	p.Asp639His	p.D639H	ENST00000402905	15/16	51	38	13	57	57	0	CARF,missense_variant,p.Asp639His,ENST00000320443,;CARF,missense_variant,p.Asp551His,ENST00000545253,;CARF,missense_variant,p.Asp639His,ENST00000438828,;CARF,missense_variant,p.Asp563His,ENST00000428585,;CARF,missense_variant,p.Asp639His,ENST00000402905,;CARF,missense_variant,p.Asp537His,ENST00000414439,;CARF,missense_variant,p.Asp563His,ENST00000545262,;WDR12,intron_variant,,ENST00000477723,;	C	ENSG00000138380	ENST00000402905	Transcript	missense_variant	2236	1915	639	D/H	Gat/Cat	.	.	.	1	CARF	HGNC	14435	protein_coding	YES	CCDS42801.1	ENSP00000384006	CARTF_HUMAN	C9JT99_HUMAN,C9JZI6_HUMAN,C9JZ91_HUMAN,C9JSN4_HUMAN,C9JL40_HUMAN,C9JI92_HUMAN,C9JCD6_HUMAN,C9JBK9_HUMAN	UPI000007284D	.	deleterious_low_confidence(0.04)	possibly_damaging(0.808)	15/16	.	hmmpanther:PTHR14694,hmmpanther:PTHR14694:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCAGATCAA	.	5	BLCA
NRP2	0	.	GRCh37	2	206590660	206590660	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.844G>T	p.Gly282Cys	p.G282C	ENST00000360409	6/17	72	65	6	92	91	1	NRP2,missense_variant,p.Gly282Cys,ENST00000360409,;NRP2,missense_variant,p.Gly282Cys,ENST00000357118,;NRP2,missense_variant,p.Gly282Cys,ENST00000355117,;NRP2,missense_variant,p.Gly282Cys,ENST00000540178,;NRP2,missense_variant,p.Gly282Cys,ENST00000357785,;NRP2,missense_variant,p.Gly282Cys,ENST00000540841,;NRP2,missense_variant,p.Gly282Cys,ENST00000417189,;NRP2,missense_variant,p.Gly282Cys,ENST00000412873,;NRP2,missense_variant,p.Gly282Cys,ENST00000272849,;NRP2,downstream_gene_variant,,ENST00000477199,;	T	ENSG00000118257	ENST00000360409	Transcript	missense_variant	1635	844	282	G/C	Ggc/Tgc	.	.	.	1	NRP2	HGNC	8005	protein_coding	YES	CCDS2364.1	ENSP00000353582	NRP2_HUMAN	C9JH98_HUMAN	UPI000014020F	.	deleterious(0)	probably_damaging(1)	6/17	.	PROSITE_profiles:PS50022,hmmpanther:PTHR10127:SF30,hmmpanther:PTHR10127,Gene3D:2.60.120.260,PIRSF_domain:PIRSF036960,SMART_domains:SM00231,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	CTCTGGGCATG	.	2	BLCA
INO80D	0	.	GRCh37	2	206921343	206921343	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.543G>C	p.Gln181His	p.Q181H	ENST00000403263	4/11	18	8	9	25	25	0	INO80D,missense_variant,p.Gln181His,ENST00000403263,;INO80D,missense_variant,p.Gln76His,ENST00000424117,;	G	ENSG00000114933	ENST00000403263	Transcript	missense_variant	948	543	181	Q/H	caG/caC	.	.	.	-1	INO80D	HGNC	25997	protein_coding	YES	CCDS46500.1	ENSP00000384198	IN80D_HUMAN	C9JLZ4_HUMAN,C9JLV2_HUMAN	UPI0000EE35FC	.	tolerated(0.59)	benign(0.009)	4/11	.	hmmpanther:PTHR16198	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTCTGGCG	.	5	BLCA
C2orf62	0	.	GRCh37	2	219221592	219221592	+	5'UTR	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-16G>C	.	.	ENST00000289388	1/10	40	33	6	56	56	0	C2orf62,5_prime_UTR_variant,,ENST00000289388,;AC021016.8,intron_variant,,ENST00000411433,;C2orf62,upstream_gene_variant,,ENST00000481940,;C2orf62,non_coding_transcript_exon_variant,,ENST00000480532,;C2orf62,upstream_gene_variant,,ENST00000495773,;AC021016.7,downstream_gene_variant,,ENST00000414167,;	C	ENSG00000158428	ENST00000289388	Transcript	5_prime_UTR_variant	14	.	.	.	.	.	.	.	1	C2orf62	HGNC	25062	protein_coding	YES	CCDS2414.1	ENSP00000289388	CB062_HUMAN	.	UPI000019B2D3	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GGGTAGAGGCA	.	4	BLCA
SPEG	0	.	GRCh37	2	220333993	220333993	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3607A>G	p.Lys1203Glu	p.K1203E	ENST00000312358	13/41	24	8	16	30	30	0	SPEG,missense_variant,p.Lys1203Glu,ENST00000312358,;SPEG,downstream_gene_variant,,ENST00000396695,;SPEG,downstream_gene_variant,,ENST00000396688,;SPEG,downstream_gene_variant,,ENST00000396686,;SPEG,downstream_gene_variant,,ENST00000396689,;SPEG,downstream_gene_variant,,ENST00000396698,;SPEG,non_coding_transcript_exon_variant,,ENST00000485813,;SPEG,downstream_gene_variant,,ENST00000498378,;SPEG,downstream_gene_variant,,ENST00000496786,;SPEG,downstream_gene_variant,,ENST00000462545,;SPEG,downstream_gene_variant,,ENST00000463218,;SPEG,downstream_gene_variant,,ENST00000464989,;SPEG,downstream_gene_variant,,ENST00000475921,;SPEG,upstream_gene_variant,,ENST00000485069,;	G	ENSG00000072195	ENST00000312358	Transcript	missense_variant	3739	3607	1203	K/E	Aag/Gag	.	.	.	1	SPEG	HGNC	16901	protein_coding	YES	CCDS42824.1	ENSP00000311684	SPEG_HUMAN	B9A038_HUMAN	UPI000066D99E	.	.	probably_damaging(0.983)	13/41	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF156,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCCAAGGAG	.	5	BLCA
SLC4A3	0	.	GRCh37	2	220500049	220500049	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1884C>T	p.%3D	p.I628I	ENST00000373762	13/23	80	59	20	93	93	0	SLC4A3,synonymous_variant,p.%3D,ENST00000373760,;SLC4A3,synonymous_variant,p.%3D,ENST00000273063,;SLC4A3,synonymous_variant,p.%3D,ENST00000317151,;SLC4A3,synonymous_variant,p.%3D,ENST00000358055,;SLC4A3,synonymous_variant,p.%3D,ENST00000373762,;SLC4A3,downstream_gene_variant,,ENST00000413743,;SLC4A3,downstream_gene_variant,,ENST00000497589,;SLC4A3,3_prime_UTR_variant,,ENST00000416910,;SLC4A3,3_prime_UTR_variant,,ENST00000425141,;SLC4A3,3_prime_UTR_variant,,ENST00000444906,;	T	ENSG00000114923	ENST00000373762	Transcript	synonymous_variant	2153	1884	628	I	atC/atT	.	.	.	1	SLC4A3	HGNC	11029	protein_coding	YES	CCDS2446.1	ENSP00000362867	B3A3_HUMAN	.	UPI000022BE50	.	.	.	13/23	.	Superfamily_domains:SSF55804,TIGRFAM_domain:TIGR00834,Pfam_domain:PF07565,Gene3D:1hynR00,hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCATCAGCGA	.	5	BLCA
SP140	0	.	GRCh37	2	231174706	231174706	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2126C>G	p.Ser709Ter	p.S709*	ENST00000392045	23/27	60	17	42	74	74	0	SP140,stop_gained,p.Ser595Ter,ENST00000417495,;SP140,stop_gained,p.Ser578Ter,ENST00000350136,;SP140,stop_gained,p.Ser709Ter,ENST00000392045,;SP140,stop_gained,p.Ser649Ter,ENST00000343805,;SP140,stop_gained,p.Ser633Ter,ENST00000486687,;SP140,stop_gained,p.Ser682Ter,ENST00000420434,;SP140,non_coding_transcript_exon_variant,,ENST00000486750,;SP140,upstream_gene_variant,,ENST00000479539,;	G	ENSG00000079263	ENST00000392045	Transcript	stop_gained	2240	2126	709	S/*	tCa/tGa	.	.	.	1	SP140	HGNC	17133	protein_coding	YES	CCDS42831.1	ENSP00000375899	SP140_HUMAN	.	UPI0000209746	.	.	.	23/27	.	PROSITE_profiles:PS50016,hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF1,PROSITE_patterns:PS01359,Gene3D:3.30.40.10,Pfam_domain:PF00628,SMART_domains:SM00249,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGTTCAAGAG	.	3	BLCA
SP140	0	.	GRCh37	2	231174716	231174716	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2136C>T	p.%3D	p.F712F	ENST00000392045	23/27	51	16	35	64	64	0	SP140,synonymous_variant,p.%3D,ENST00000417495,;SP140,synonymous_variant,p.%3D,ENST00000350136,;SP140,synonymous_variant,p.%3D,ENST00000392045,;SP140,synonymous_variant,p.%3D,ENST00000343805,;SP140,synonymous_variant,p.%3D,ENST00000486687,;SP140,synonymous_variant,p.%3D,ENST00000420434,;SP140,non_coding_transcript_exon_variant,,ENST00000486750,;SP140,upstream_gene_variant,,ENST00000479539,;	T	ENSG00000079263	ENST00000392045	Transcript	synonymous_variant	2250	2136	712	F	ttC/ttT	.	.	.	1	SP140	HGNC	17133	protein_coding	YES	CCDS42831.1	ENSP00000375899	SP140_HUMAN	.	UPI0000209746	.	.	.	23/27	.	PROSITE_profiles:PS50016,hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF1,PROSITE_patterns:PS01359,Gene3D:3.30.40.10,Pfam_domain:PF00628,SMART_domains:SM00249,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCTTCCATGA	.	2	BLCA
SP140	0	.	GRCh37	2	231174729	231174729	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2149C>T	p.His717Tyr	p.H717Y	ENST00000392045	23/27	42	16	26	52	52	0	SP140,missense_variant,p.His603Tyr,ENST00000417495,;SP140,missense_variant,p.His586Tyr,ENST00000350136,;SP140,missense_variant,p.His717Tyr,ENST00000392045,;SP140,missense_variant,p.His657Tyr,ENST00000343805,;SP140,missense_variant,p.His641Tyr,ENST00000486687,;SP140,missense_variant,p.His690Tyr,ENST00000420434,;SP140,non_coding_transcript_exon_variant,,ENST00000486750,;SP140,upstream_gene_variant,,ENST00000479539,;	T	ENSG00000079263	ENST00000392045	Transcript	missense_variant	2263	2149	717	H/Y	Cac/Tac	.	.	.	1	SP140	HGNC	17133	protein_coding	YES	CCDS42831.1	ENSP00000375899	SP140_HUMAN	.	UPI0000209746	.	deleterious(0)	probably_damaging(0.998)	23/27	.	PROSITE_profiles:PS50016,hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF1,PROSITE_patterns:PS01359,Gene3D:3.30.40.10,Pfam_domain:PF00628,SMART_domains:SM00249,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTGTCACATC	.	2	BLCA
SUPT7L	0	.	GRCh37	2	27884289	27884289	+	Intron	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15-34G>C	.	.	ENST00000337768	.	53	50	3	50	49	1	SUPT7L,5_prime_UTR_variant,,ENST00000464789,;SUPT7L,5_prime_UTR_variant,,ENST00000405491,;SUPT7L,5_prime_UTR_variant,,ENST00000406540,;SUPT7L,intron_variant,,ENST00000404798,;SUPT7L,intron_variant,,ENST00000337768,;SLC4A1AP,upstream_gene_variant,,ENST00000326019,;SLC4A1AP,upstream_gene_variant,,ENST00000427424,;	G	ENSG00000119760	ENST00000337768	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SUPT7L	HGNC	30632	protein_coding	YES	CCDS42667.1	ENSP00000336750	ST65G_HUMAN	.	UPI000013607D	.	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCTCAGGAT	.	2	BLCA
FOSL2	0	.	GRCh37	2	28634861	28634863	+	In_Frame_Del	DEL	AGA	AGA	-	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	AGA	AGA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529_531delAAG	p.Lys177del	p.K177del	ENST00000264716	4/4	43	36	7	64	64	0	FOSL2,inframe_deletion,p.Lys138del,ENST00000436647,;FOSL2,inframe_deletion,p.Lys177del,ENST00000264716,;FOSL2,inframe_deletion,p.Lys169del,ENST00000379619,;FOSL2,inframe_deletion,p.Lys138del,ENST00000545753,;FOSL2,downstream_gene_variant,,ENST00000460736,;	-	ENSG00000075426	ENST00000264716	Transcript	inframe_deletion	1390-1392	527-529	176-177	EK/E	gAGAag/gag	.	.	.	1	FOSL2	HGNC	3798	protein_coding	YES	CCDS1766.1	ENSP00000264716	FOSL2_HUMAN	C9JCN8_HUMAN	UPI000004F8AB	.	.	.	4/4	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50217,hmmpanther:PTHR23351:SF25,hmmpanther:PTHR23351,Gene3D:1.20.5.170,Pfam_domain:PF00170,SMART_domains:SM00338,Superfamily_domains:SSF57959,Prints_domain:PR00042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGAAGGAGAAGGAG	.	3	BLCA
TTC27	0	.	GRCh37	2	33012108	33012108	+	Silent	SNP	G	G	A	rs752537797	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1890G>A	p.%3D	p.Q630Q	ENST00000317907	16/20	91	79	12	85	85	0	TTC27,synonymous_variant,p.%3D,ENST00000317907,;TTC27,3_prime_UTR_variant,,ENST00000433416,;TTC27,3_prime_UTR_variant,,ENST00000428527,;	A	ENSG00000018699	ENST00000317907	Transcript	synonymous_variant	2121	1890	630	Q	caG/caA	rs752537797	.	.	1	TTC27	HGNC	25986	protein_coding	YES	CCDS33176.1	ENSP00000313953	TTC27_HUMAN	C9JVS4_HUMAN,B4DRC7_HUMAN	UPI0000208226	.	.	.	16/20	.	PROSITE_profiles:PS50005,PROSITE_profiles:PS50293,hmmpanther:PTHR16193,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCAGATTTG	byFrequency	4	BLCA
VIT	0	.	GRCh37	2	37036074	37036074	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1849G>A	p.Asp617Asn	p.D617N	ENST00000379242	15/16	41	25	16	50	50	0	VIT,missense_variant,p.Asp554Asn,ENST00000404084,;VIT,missense_variant,p.Asp602Asn,ENST00000389975,;VIT,missense_variant,p.Asp617Asn,ENST00000379242,;VIT,missense_variant,p.Asp581Asn,ENST00000401530,;VIT,missense_variant,p.Asp580Asn,ENST00000379241,;VIT,missense_variant,p.Asp271Asn,ENST00000497382,;	A	ENSG00000205221	ENST00000379242	Transcript	missense_variant	2151	1849	617	D/N	Gac/Aac	.	.	.	1	VIT	HGNC	12697	protein_coding	YES	CCDS33180.1	ENSP00000368544	VITRN_HUMAN	C9J6F5_HUMAN	UPI000006E0F8	.	deleterious(0)	probably_damaging(1)	15/16	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22992:SF3,hmmpanther:PTHR22992,Gene3D:3.40.50.410,Pfam_domain:PF00092,SMART_domains:SM00327,Superfamily_domains:SSF53300,Prints_domain:PR00453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACCGACGGG	.	5	BLCA
SMEK2	0	.	GRCh37	2	55792155	55792155	+	Missense_Mutation	SNP	G	G	C	rs370066372	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1958C>G	p.Ala653Gly	p.A653G	ENST00000345102	14/17	40	20	19	55	55	0	SMEK2,missense_variant,p.Ala653Gly,ENST00000345102,;SMEK2,missense_variant,p.Ala568Gly,ENST00000272313,;SMEK2,missense_variant,p.Ala621Gly,ENST00000407823,;SNORA12,upstream_gene_variant,,ENST00000390873,;SMEK2,downstream_gene_variant,,ENST00000482826,;	C	ENSG00000138041	ENST00000345102	Transcript	missense_variant	2260	1958	653	A/G	gCc/gGc	rs370066372	.	.	-1	SMEK2	HGNC	29267	protein_coding	YES	CCDS46289.1	ENSP00000339769	P4R3B_HUMAN	.	UPI00001C1DBA	.	tolerated(0.06)	benign(0.028)	14/17	.	hmmpanther:PTHR23318:SF2,hmmpanther:PTHR23318,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATGGGCAGTA	.	5	BLCA
C1D	0	.	GRCh37	2	68270007	68270007	+	3'UTR	SNP	T	T	C	rs4352214	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14A>G	.	.	ENST00000355848	5/5	14	8	5	21	21	0	C1D,3_prime_UTR_variant,,ENST00000409302,;C1D,3_prime_UTR_variant,,ENST00000410067,;C1D,3_prime_UTR_variant,,ENST00000407324,;C1D,3_prime_UTR_variant,,ENST00000355848,;C1D,downstream_gene_variant,,ENST00000470189,;C1D,non_coding_transcript_exon_variant,,ENST00000485709,;C1D,non_coding_transcript_exon_variant,,ENST00000479484,;	C	ENSG00000197223	ENST00000355848	Transcript	3_prime_UTR_variant	488	.	.	.	.	rs4352214	.	.	-1	C1D	HGNC	29911	protein_coding	YES	CCDS1883.1	ENSP00000348107	C1D_HUMAN	.	UPI0000031D5C	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTACATCAAAA	byFrequency|by2Hit2Allele	2	BLCA
REG1A	0	.	GRCh37	2	79348725	79348725	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.102C>T	p.%3D	p.I34I	ENST00000233735	3/6	259	203	56	255	255	0	REG1A,synonymous_variant,p.%3D,ENST00000233735,;REG1A,non_coding_transcript_exon_variant,,ENST00000488524,;REG1A,non_coding_transcript_exon_variant,,ENST00000485184,;REG1A,non_coding_transcript_exon_variant,,ENST00000461579,;	T	ENSG00000115386	ENST00000233735	Transcript	synonymous_variant	205	102	34	I	atC/atT	.	.	.	1	REG1A	HGNC	9951	protein_coding	YES	CCDS1964.1	ENSP00000233735	REG1A_HUMAN	Q2TBE1_HUMAN	UPI000012E72D	.	.	.	3/6	.	hmmpanther:PTHR22801,hmmpanther:PTHR22801:SF25,Gene3D:3.10.100.10,Superfamily_domains:SSF56436,Prints_domain:PR01504	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGATCAGCTG	.	4	BLCA
IGKV1-9	0	.	GRCh37	2	89309628	89309628	+	Missense_Mutation	SNP	G	G	T	rs757710620	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202C>A	p.Leu68Ile	p.L68I	ENST00000493819	2/2	267	248	19	259	259	0	IGKV1-9,missense_variant,p.Leu68Ile,ENST00000493819,;	T	ENSG00000241755	ENST00000493819	Transcript	missense_variant	260	202	68	L/I	Ctc/Atc	rs757710620	.	.	-1	IGKV1-9	HGNC	5744	IG_V_gene	YES	.	ENSP00000419598	.	.	UPI00001148ED	.	deleterious_low_confidence(0.01)	possibly_damaging(0.506)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF122,hmmpanther:PTHR23267,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGAGCTTAG	byFrequency	2	BLCA
ARID5A	0	.	GRCh37	2	97217727	97217727	+	Missense_Mutation	SNP	C	C	G	rs747317652	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1462C>G	p.Leu488Val	p.L488V	ENST00000357485	7/7	28	25	3	24	24	0	ARID5A,missense_variant,p.Leu488Val,ENST00000357485,;ARID5A,missense_variant,p.Leu420Val,ENST00000454558,;ARID5A,3_prime_UTR_variant,,ENST00000412735,;ARID5A,non_coding_transcript_exon_variant,,ENST00000497920,;ARID5A,downstream_gene_variant,,ENST00000467498,;ARID5A,downstream_gene_variant,,ENST00000470579,;	G	ENSG00000196843	ENST00000357485	Transcript	missense_variant	1540	1462	488	L/V	Ctg/Gtg	rs747317652	.	.	1	ARID5A	HGNC	17361	protein_coding	YES	CCDS33251.1	ENSP00000350078	ARI5A_HUMAN	C9J1Q0_HUMAN	UPI00001C1DBB	.	tolerated(0.05)	probably_damaging(0.996)	7/7	.	hmmpanther:PTHR13964:SF19,hmmpanther:PTHR13964	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTTCTGGGC	byFrequency	2	BLCA
TMEM131	0	.	GRCh37	2	98428945	98428945	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1802G>A	p.Arg601Lys	p.R601K	ENST00000186436	17/41	103	37	65	31	31	0	TMEM131,missense_variant,p.Arg601Lys,ENST00000186436,;TMEM131,downstream_gene_variant,,ENST00000425805,;TMEM131,downstream_gene_variant,,ENST00000418629,;	T	ENSG00000075568	ENST00000186436	Transcript	missense_variant	2031	1802	601	R/K	aGa/aAa	COSM1024150,COSM1024149	.	.	-1	TMEM131	HGNC	30366	protein_coding	YES	CCDS46368.1	ENSP00000186436	TM131_HUMAN	C9J6W0_HUMAN	UPI00006C0498	.	tolerated(0.75)	benign(0.002)	17/41	.	hmmpanther:PTHR22050,hmmpanther:PTHR22050:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGTTCTATTG	.	5	BLCA
CNGA3	0	.	GRCh37	2	98996644	98996644	+	Silent	SNP	G	G	A	rs775081515	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222G>A	p.%3D	p.S74S	ENST00000393504	4/8	167	80	87	79	79	0	CNGA3,synonymous_variant,p.%3D,ENST00000409937,;CNGA3,synonymous_variant,p.%3D,ENST00000436404,;CNGA3,synonymous_variant,p.%3D,ENST00000393504,;CNGA3,synonymous_variant,p.%3D,ENST00000272602,;CNGA3,non_coding_transcript_exon_variant,,ENST00000393503,;	A	ENSG00000144191	ENST00000393504	Transcript	synonymous_variant	639	222	74	S	tcG/tcA	rs775081515,COSM287999	.	.	1	CNGA3	HGNC	2150	protein_coding	YES	CCDS2034.1	ENSP00000377140	CNGA3_HUMAN	.	UPI000004717B	.	.	.	4/8	.	hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF390	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTCGCGCCT	byFrequency	5	BLCA
UNC50	0	.	GRCh37	2	99234778	99234778	+	3'UTR	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11G>A	.	.	ENST00000357765	6/6	225	215	10	44	44	0	UNC50,3_prime_UTR_variant,,ENST00000423713,;UNC50,3_prime_UTR_variant,,ENST00000409975,;UNC50,3_prime_UTR_variant,,ENST00000357765,;UNC50,3_prime_UTR_variant,,ENST00000393493,;UNC50,3_prime_UTR_variant,,ENST00000409347,;MGAT4A,downstream_gene_variant,,ENST00000414521,;MGAT4A,downstream_gene_variant,,ENST00000393487,;MGAT4A,downstream_gene_variant,,ENST00000264968,;UNC50,non_coding_transcript_exon_variant,,ENST00000466492,;	A	ENSG00000115446	ENST00000357765	Transcript	3_prime_UTR_variant	943	.	.	.	.	.	.	.	1	UNC50	HGNC	16046	protein_coding	YES	CCDS2035.1	ENSP00000350409	UNC50_HUMAN	.	UPI0000031564	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGAAGAAGAT	.	2	BLCA
EIF5B	0	.	GRCh37	2	99985033	99985033	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1366C>A	p.Gln456Lys	p.Q456K	ENST00000289371	7/24	324	309	15	58	58	0	EIF5B,missense_variant,p.Gln456Lys,ENST00000289371,;	A	ENSG00000158417	ENST00000289371	Transcript	missense_variant	1568	1366	456	Q/K	Cag/Aag	.	.	.	1	EIF5B	HGNC	30793	protein_coding	YES	CCDS42721.1	ENSP00000289371	IF2P_HUMAN	D3DVI5_HUMAN	UPI0000207EC7	.	.	benign(0.083)	7/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCACAGCAG	.	2	BLCA
TBC1D23	0	.	GRCh37	3	100035000	100035000	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1656C>G	p.Phe552Leu	p.F552L	ENST00000394144	16/19	37	30	7	51	50	0	TBC1D23,missense_variant,p.Phe537Leu,ENST00000344949,;TBC1D23,missense_variant,p.Phe552Leu,ENST00000394144,;TBC1D23,missense_variant,p.Phe415Leu,ENST00000475134,;TBC1D23,non_coding_transcript_exon_variant,,ENST00000471273,;TBC1D23,non_coding_transcript_exon_variant,,ENST00000486274,;	G	ENSG00000036054	ENST00000394144	Transcript	missense_variant	1663	1656	552	F/L	ttC/ttG	.	.	.	1	TBC1D23	HGNC	25622	protein_coding	YES	CCDS56265.1	ENSP00000377700	TBC23_HUMAN	B3KS68_HUMAN	UPI000013D5E5	.	deleterious(0.01)	possibly_damaging(0.81)	16/19	.	hmmpanther:PTHR13297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTTCAGCAT	.	5	BLCA
VHL	0	.	GRCh37	3	10183869	10183869	+	Missense_Mutation	SNP	G	G	A	rs767062290	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338G>A	p.Arg113Gln	p.R113Q	ENST00000256474	1/3	24	19	4	26	26	0	VHL,missense_variant,p.Arg113Gln,ENST00000345392,;VHL,missense_variant,p.Arg113Gln,ENST00000256474,;snoU13,downstream_gene_variant,,ENST00000458986,;VHL,upstream_gene_variant,,ENST00000477538,;	A	ENSG00000134086	ENST00000256474	Transcript	missense_variant	1178	338	113	R/Q	cGa/cAa	rs767062290	.	.	1	VHL	HGNC	12687	protein_coding	YES	CCDS2597.1	ENSP00000256474	VHL_HUMAN	J9Z661_HUMAN,A0PJF6_HUMAN	UPI0000035C95	.	tolerated(0.55)	benign(0.019)	1/3	.	hmmpanther:PTHR15160:SF0,hmmpanther:PTHR15160,Pfam_domain:PF01847,Gene3D:1lm8V02,Superfamily_domains:0040561	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R113*|c.337C>T|6,BUFFER|p.S111G|c.331A>G|3,BUFFER|p.S111N|c.332G>A|11,BUFFER|p.S111I|c.332G>T|3,BUFFER|p.S111R|c.333C>G|5,BUFFER|p.G114C|c.340G>T|6,BUFFER|p.G114R|c.340G>C|5,BUFFER|p.?|c.340+1G>T|3,BUFFER|p.?|c.340+1G>A|6	MUTECT|MUSE	CTACCGAGGTA	.	2	BLCA
ATG3	0	.	GRCh37	3	112256710	112256710	+	Missense_Mutation	SNP	C	C	T	rs772680969	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>A	p.Glu180Lys	p.E180K	ENST00000283290	9/12	51	47	4	51	51	0	ATG3,missense_variant,p.Glu180Lys,ENST00000402314,;ATG3,missense_variant,p.Glu180Lys,ENST00000283290,;ATG3,downstream_gene_variant,,ENST00000492886,;ATG3,non_coding_transcript_exon_variant,,ENST00000495756,;ATG3,3_prime_UTR_variant,,ENST00000496423,;ATG3,non_coding_transcript_exon_variant,,ENST00000467275,;ATG3,upstream_gene_variant,,ENST00000494571,;	T	ENSG00000144848	ENST00000283290	Transcript	missense_variant	973	538	180	E/K	Gaa/Aaa	rs772680969	.	.	-1	ATG3	HGNC	20962	protein_coding	YES	CCDS2966.1	ENSP00000283290	ATG3_HUMAN	C9JNW8_HUMAN	UPI0000073DB4	.	tolerated(0.29)	benign(0.034)	9/12	.	hmmpanther:PTHR12866:SF2,hmmpanther:PTHR12866	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCTTCTACTA	.	3	BLCA
ARHGAP31	0	.	GRCh37	3	119134792	119134792	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4016C>G	p.Ser1339Ter	p.S1339*	ENST00000264245	12/12	102	82	20	98	98	0	ARHGAP31,stop_gained,p.Ser1339Ter,ENST00000264245,;	G	ENSG00000031081	ENST00000264245	Transcript	stop_gained	4548	4016	1339	S/*	tCa/tGa	COSM3940214	.	.	1	ARHGAP31	HGNC	29216	protein_coding	YES	CCDS43135.1	ENSP00000264245	RHG31_HUMAN	.	UPI00001C1DFD	.	.	.	12/12	.	hmmpanther:PTHR15729:SF3,hmmpanther:PTHR15729	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGTCAAGGC	.	5	BLCA
EAF2	0	.	GRCh37	3	121554181	121554181	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49C>T	p.Leu17Phe	p.L17F	ENST00000273668	1/6	35	32	3	44	44	0	EAF2,missense_variant,p.Leu17Phe,ENST00000451944,;EAF2,missense_variant,p.Leu17Phe,ENST00000273668,;IQCB1,upstream_gene_variant,,ENST00000460108,;IQCB1,upstream_gene_variant,,ENST00000310864,;IQCB1,upstream_gene_variant,,ENST00000349820,;IQCB1,upstream_gene_variant,,ENST00000498104,;IQCB1,upstream_gene_variant,,ENST00000462442,;EAF2,non_coding_transcript_exon_variant,,ENST00000465664,;EAF2,missense_variant,p.Leu17Phe,ENST00000490434,;EAF2,missense_variant,p.Leu17Phe,ENST00000490477,;IQCB1,upstream_gene_variant,,ENST00000393650,;IQCB1,upstream_gene_variant,,ENST00000471726,;	T	ENSG00000145088	ENST00000273668	Transcript	missense_variant	120	49	17	L/F	Ctc/Ttc	.	.	.	1	EAF2	HGNC	23115	protein_coding	YES	CCDS3006.1	ENSP00000273668	EAF2_HUMAN	F8WF04_HUMAN	UPI000000D7DA	.	deleterious(0.02)	probably_damaging(0.999)	1/6	.	hmmpanther:PTHR15970,hmmpanther:PTHR15970:SF7,Pfam_domain:PF09816	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTTCTCAAG	.	2	BLCA
PLXND1	0	.	GRCh37	3	129280747	129280747	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4826-1G>A	.	p.X1609_splice	ENST00000324093	.	37	29	8	60	60	0	PLXND1,splice_acceptor_variant,,ENST00000324093,;PLXND1,splice_acceptor_variant,,ENST00000393239,;PLXND1,upstream_gene_variant,,ENST00000504689,;PLXND1,upstream_gene_variant,,ENST00000506979,;PLXND1,splice_acceptor_variant,,ENST00000512744,;PLXND1,upstream_gene_variant,,ENST00000501038,;PLXND1,downstream_gene_variant,,ENST00000503166,;PLXND1,upstream_gene_variant,,ENST00000512807,;PLXND1,upstream_gene_variant,,ENST00000504524,;PLXND1,downstream_gene_variant,,ENST00000504979,;PLXND1,upstream_gene_variant,,ENST00000508630,;	T	ENSG00000004399	ENST00000324093	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	PLXND1	HGNC	9107	protein_coding	YES	CCDS33854.1	ENSP00000317128	PLXD1_HUMAN	Q6P657_HUMAN	UPI00003671AD	.	.	.	.	27/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTCTGGGG	.	5	BLCA
PLCH1	0	.	GRCh37	3	155199396	155199396	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4443G>C	p.Leu1481Phe	p.L1481F	ENST00000340059	23/23	94	84	10	99	99	0	PLCH1,missense_variant,p.Leu1443Phe,ENST00000334686,;PLCH1,missense_variant,p.Leu1443Phe,ENST00000414191,;PLCH1,missense_variant,p.Leu1481Phe,ENST00000340059,;PLCH1,missense_variant,p.Leu1443Phe,ENST00000460012,;PLCH1,3_prime_UTR_variant,,ENST00000447496,;PLCH1,intron_variant,,ENST00000494598,;PLCH1-AS2,upstream_gene_variant,,ENST00000472913,;	G	ENSG00000114805	ENST00000340059	Transcript	missense_variant	4443	4443	1481	L/F	ttG/ttC	.	.	.	-1	PLCH1	HGNC	29185	protein_coding	YES	CCDS46939.1	ENSP00000345988	PLCH1_HUMAN	.	UPI00001D800E	.	tolerated_low_confidence(0.7)	benign(0.288)	23/23	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCAGGCAAAGG	.	3	BLCA
GMPS	0	.	GRCh37	3	155655412	155655412	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2013G>C	p.Lys671Asn	p.K671N	ENST00000496455	16/16	64	60	4	57	57	0	GMPS,missense_variant,p.Lys671Asn,ENST00000496455,;GMPS,missense_variant,p.Lys572Asn,ENST00000295920,;	C	ENSG00000163655	ENST00000496455	Transcript	missense_variant	2348	2013	671	K/N	aaG/aaC	.	.	.	1	GMPS	HGNC	4378	protein_coding	YES	CCDS46941.1	ENSP00000419851	GUAA_HUMAN	A8K639_HUMAN	UPI0000000CC6	.	tolerated(0.24)	benign(0.034)	16/16	.	Superfamily_domains:0047036,Gene3D:3.30.300.10,Pfam_domain:PF00958,hmmpanther:PTHR11922:SF2,hmmpanther:PTHR11922	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGAAGATTCC	.	2	BLCA
SAMD7	0	.	GRCh37	3	169644639	169644639	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589G>A	p.Asp197Asn	p.D197N	ENST00000428432	6/9	55	47	8	50	50	0	SAMD7,missense_variant,p.Asp197Asn,ENST00000335556,;SAMD7,missense_variant,p.Asp197Asn,ENST00000428432,;SAMD7,3_prime_UTR_variant,,ENST00000487910,;	A	ENSG00000187033	ENST00000428432	Transcript	missense_variant	978	589	197	D/N	Gat/Aat	.	.	.	1	SAMD7	HGNC	25394	protein_coding	YES	CCDS3209.1	ENSP00000391299	SAMD7_HUMAN	.	UPI00001A9D13	.	tolerated(0.45)	probably_damaging(0.917)	6/9	.	hmmpanther:PTHR12247,hmmpanther:PTHR12247:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAGTGATGCT	.	4	BLCA
SLC2A2	0	.	GRCh37	3	170724988	170724988	+	Silent	SNP	T	T	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561A>T	p.%3D	p.A187A	ENST00000314251	5/11	36	16	19	34	34	0	SLC2A2,synonymous_variant,p.%3D,ENST00000314251,;SLC2A2,synonymous_variant,p.%3D,ENST00000461867,;SLC2A2,synonymous_variant,p.%3D,ENST00000382808,;SLC2A2,3_prime_UTR_variant,,ENST00000469787,;SLC2A2,3_prime_UTR_variant,,ENST00000497642,;SLC2A2,non_coding_transcript_exon_variant,,ENST00000471379,;	A	ENSG00000163581	ENST00000314251	Transcript	synonymous_variant	641	561	187	A	gcA/gcT	.	.	.	-1	SLC2A2	HGNC	11006	protein_coding	YES	CCDS3215.1	ENSP00000323568	GTR2_HUMAN	Q6PAU8_HUMAN,C9J0E8_HUMAN	UPI000004EC97	.	.	.	5/11	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24063,hmmpanther:PTHR24063:SF13,Gene3D:1.20.1250.20,Pfam_domain:PF00083,TIGRFAM_domain:TIGR00879,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAAGTGCTCC	.	5	BLCA
MCF2L2	0	.	GRCh37	3	183029510	183029510	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.804C>G	p.Ile268Met	p.I268M	ENST00000328913	8/30	90	34	56	89	89	0	MCF2L2,missense_variant,p.Ile268Met,ENST00000414362,;MCF2L2,missense_variant,p.Ile268Met,ENST00000473233,;MCF2L2,missense_variant,p.Ile268Met,ENST00000447025,;MCF2L2,missense_variant,p.Ile268Met,ENST00000328913,;MCF2L2,non_coding_transcript_exon_variant,,ENST00000488149,;MCF2L2,non_coding_transcript_exon_variant,,ENST00000459750,;MCF2L2,upstream_gene_variant,,ENST00000492331,;	C	ENSG00000053524	ENST00000328913	Transcript	missense_variant	1102	804	268	I/M	atC/atG	.	.	.	-1	MCF2L2	HGNC	30319	protein_coding	YES	CCDS3243.1	ENSP00000328118	MF2L2_HUMAN	C9J326_HUMAN	UPI00001A962F	.	deleterious(0.05)	benign(0.378)	8/30	.	hmmpanther:PTHR22826:SF89,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTGGATGCA	.	5	BLCA
KLHL24	0	.	GRCh37	3	183368417	183368417	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.273C>G	p.Phe91Leu	p.F91L	ENST00000454652	4/9	201	174	27	124	124	0	KLHL24,missense_variant,p.Phe91Leu,ENST00000468001,;KLHL24,missense_variant,p.Phe91Leu,ENST00000242810,;KLHL24,missense_variant,p.Phe91Leu,ENST00000454652,;KLHL24,missense_variant,p.Phe91Leu,ENST00000493074,;KLHL24,missense_variant,p.Phe91Leu,ENST00000476808,;KLHL24,missense_variant,p.Phe91Leu,ENST00000427201,;KLHL24,missense_variant,p.Phe91Leu,ENST00000454495,;KLHL24,missense_variant,p.Phe91Leu,ENST00000482138,;KLHL24,downstream_gene_variant,,ENST00000437402,;KLHL24,downstream_gene_variant,,ENST00000468101,;KLHL24,downstream_gene_variant,,ENST00000473045,;KLHL24,intron_variant,,ENST00000475827,;	G	ENSG00000114796	ENST00000454652	Transcript	missense_variant	659	273	91	F/L	ttC/ttG	.	.	.	1	KLHL24	HGNC	25947	protein_coding	YES	CCDS3246.1	ENSP00000395012	KLH24_HUMAN	C9JXR5_HUMAN,C9JQ67_HUMAN,C9JN72_HUMAN,C9JMQ9_HUMAN,C9JCK3_HUMAN,C9J3M5_HUMAN,C9J2N4_HUMAN,C9J0A6_HUMAN	UPI000020A86F	.	deleterious(0)	probably_damaging(0.999)	4/9	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF11,Pfam_domain:PF00651,Gene3D:3.30.710.10,PIRSF_domain:PIRSF037037,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACTTCAGAGC	.	4	BLCA
HES1	0	.	GRCh37	3	193854190	193854190	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21G>C	p.Glu7Asp	p.E7D	ENST00000232424	1/4	24	15	8	26	26	0	HES1,missense_variant,p.Glu7Asp,ENST00000232424,;HES1,non_coding_transcript_exon_variant,,ENST00000476918,;	C	ENSG00000114315	ENST00000232424	Transcript	missense_variant	257	21	7	E/D	gaG/gaC	.	.	.	1	HES1	HGNC	5192	protein_coding	YES	CCDS3305.1	ENSP00000232424	HES1_HUMAN	Q8IXV0_HUMAN	UPI0000037B01	.	tolerated_low_confidence(0.17)	possibly_damaging(0.827)	1/4	.	hmmpanther:PTHR10985,hmmpanther:PTHR10985:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGAGAAAAA	.	5	BLCA
CPN2	0	.	GRCh37	3	194063163	194063163	+	Missense_Mutation	SNP	G	G	A	rs771823063	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269C>T	p.Pro90Leu	p.P90L	ENST00000323830	2/2	59	52	7	58	58	0	CPN2,missense_variant,p.Pro90Leu,ENST00000323830,;CPN2,missense_variant,p.Pro90Leu,ENST00000429275,;	A	ENSG00000178772	ENST00000323830	Transcript	missense_variant	359	269	90	P/L	cCg/cTg	rs771823063,COSM3333909	.	.	-1	CPN2	HGNC	2313	protein_coding	YES	CCDS33920.1	ENSP00000319464	CPN2_HUMAN	.	UPI0001AE76B7	.	deleterious(0.01)	probably_damaging(0.923)	2/2	.	hmmpanther:PTHR24367:SF225,hmmpanther:PTHR24367,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCCGGCCTA	byFrequency	4	BLCA
KIF15	0	.	GRCh37	3	44852341	44852341	+	Missense_Mutation	SNP	A	A	G	rs141131531	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1975A>G	p.Ile659Val	p.I659V	ENST00000326047	17/35	75	39	35	55	55	0	KIF15,missense_variant,p.Ile431Val,ENST00000481166,;KIF15,missense_variant,p.Ile294Val,ENST00000425755,;KIF15,missense_variant,p.Ile659Val,ENST00000326047,;KIF15,3_prime_UTR_variant,,ENST00000438321,;KIF15,non_coding_transcript_exon_variant,,ENST00000493134,;KIF15,upstream_gene_variant,,ENST00000453693,;	G	ENSG00000163808	ENST00000326047	Transcript	missense_variant	2124	1975	659	I/V	Ata/Gta	rs141131531	.	.	1	KIF15	HGNC	17273	protein_coding	YES	CCDS33744.1	ENSP00000324020	KIF15_HUMAN	D6RCT7_HUMAN	UPI000006DB0E	.	deleterious(0.01)	benign(0.114)	17/35	.	hmmpanther:PTHR24115:SF87,hmmpanther:PTHR24115	G:0.0008	G:0.003	G:0	.	G:0	G:0	G:0	G:0.0007	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATTATAACT	byFrequency|byCluster|by1000G	5	BLCA
SMARCC1	0	.	GRCh37	3	47702925	47702925	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2179G>A	p.Glu727Lys	p.E727K	ENST00000254480	21/28	88	73	15	97	96	1	SMARCC1,missense_variant,p.Glu727Lys,ENST00000254480,;SMARCC1,non_coding_transcript_exon_variant,,ENST00000425518,;RP11-395P16.1,upstream_gene_variant,,ENST00000427885,;	T	ENSG00000173473	ENST00000254480	Transcript	missense_variant	2299	2179	727	E/K	Gag/Aag	.	.	.	-1	SMARCC1	HGNC	11104	protein_coding	YES	CCDS2758.1	ENSP00000254480	SMRC1_HUMAN	F8WE13_HUMAN	UPI000013CE3B	.	deleterious(0.04)	benign(0.062)	21/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12802,hmmpanther:PTHR12802:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCCGGA	.	5	BLCA
IMPDH2	0	.	GRCh37	3	49062406	49062406	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1218C>G	p.Ile406Met	p.I406M	ENST00000326739	11/14	49	27	22	53	53	0	IMPDH2,missense_variant,p.Ile406Met,ENST00000326739,;IMPDH2,missense_variant,p.Ile362Met,ENST00000429182,;DALRD3,upstream_gene_variant,,ENST00000313778,;IMPDH2,downstream_gene_variant,,ENST00000442157,;QRICH1,downstream_gene_variant,,ENST00000357496,;NDUFAF3,downstream_gene_variant,,ENST00000395458,;QRICH1,downstream_gene_variant,,ENST00000395443,;NDUFAF3,downstream_gene_variant,,ENST00000451378,;NDUFAF3,downstream_gene_variant,,ENST00000326925,;NDUFAF3,downstream_gene_variant,,ENST00000326912,;DALRD3,upstream_gene_variant,,ENST00000440857,;MIR191,upstream_gene_variant,,ENST00000384873,;MIR425,upstream_gene_variant,,ENST00000362162,;RP13-131K19.6,upstream_gene_variant,,ENST00000607245,;DALRD3,upstream_gene_variant,,ENST00000492585,;DALRD3,upstream_gene_variant,,ENST00000496568,;IMPDH2,non_coding_transcript_exon_variant,,ENST00000484872,;IMPDH2,non_coding_transcript_exon_variant,,ENST00000481274,;IMPDH2,non_coding_transcript_exon_variant,,ENST00000466147,;IMPDH2,non_coding_transcript_exon_variant,,ENST00000472328,;IMPDH2,upstream_gene_variant,,ENST00000463903,;IMPDH2,downstream_gene_variant,,ENST00000491610,;IMPDH2,downstream_gene_variant,,ENST00000485500,;IMPDH2,downstream_gene_variant,,ENST00000496837,;NDUFAF3,downstream_gene_variant,,ENST00000480392,;IMPDH2,downstream_gene_variant,,ENST00000462980,;NDUFAF3,downstream_gene_variant,,ENST00000496152,;QRICH1,downstream_gene_variant,,ENST00000498392,;	C	ENSG00000178035	ENST00000326739	Transcript	missense_variant	1258	1218	406	I/M	atC/atG	.	.	.	-1	IMPDH2	HGNC	6053	protein_coding	YES	CCDS2786.1	ENSP00000321584	IMDH2_HUMAN	Q6RUP9_HUMAN,Q6RUP8_HUMAN	UPI000004A47A	.	tolerated(0.14)	benign(0.068)	11/14	.	HAMAP:MF_01964,hmmpanther:PTHR11911,hmmpanther:PTHR11911:SF64,Pfam_domain:PF00478,TIGRFAM_domain:TIGR01302,Gene3D:3.20.20.70,PIRSF_domain:PIRSF000130,Superfamily_domains:SSF51412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCGGATCCC	.	5	BLCA
RHOA	0	.	GRCh37	3	49412884	49412884	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.139G>A	p.Glu47Lys	p.E47K	ENST00000418115	2/5	140	65	74	167	167	0	RHOA,missense_variant,p.Glu47Lys,ENST00000431929,;RHOA,missense_variant,p.Glu47Lys,ENST00000422781,;RHOA,missense_variant,p.Glu47Lys,ENST00000454011,;RHOA,missense_variant,p.Glu47Lys,ENST00000445425,;RHOA,missense_variant,p.Glu47Lys,ENST00000418115,;	T	ENSG00000067560	ENST00000418115	Transcript	missense_variant	524	139	47	E/K	Gag/Aag	.	.	.	-1	RHOA	HGNC	667	protein_coding	YES	CCDS2795.1	ENSP00000400175	RHOA_HUMAN	Q9BVT0_HUMAN,C9JNR4_HUMAN,B4DKN9_HUMAN	UPI0000046824	.	deleterious(0.04)	possibly_damaging(0.846)	2/5	.	PROSITE_profiles:PS51420,hmmpanther:PTHR24072:SF100,hmmpanther:PTHR24072,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00071,SMART_domains:SM00173,SMART_domains:SM00175,SMART_domains:SM00174,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCGATAT	.	5	BLCA
GRM2	0	.	GRCh37	3	51746503	51746503	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.465G>C	p.Leu155Phe	p.L155F	ENST00000395052	3/6	91	59	32	102	101	1	GRM2,missense_variant,p.Leu155Phe,ENST00000442933,;GRM2,missense_variant,p.Leu155Phe,ENST00000395052,;GRM2,downstream_gene_variant,,ENST00000419928,;GRM2,non_coding_transcript_exon_variant,,ENST00000477330,;GRM2,non_coding_transcript_exon_variant,,ENST00000496661,;GRM2,intron_variant,,ENST00000475478,;GRM2,missense_variant,p.Leu155Phe,ENST00000296479,;GRM2,non_coding_transcript_exon_variant,,ENST00000464585,;	C	ENSG00000164082	ENST00000395052	Transcript	missense_variant	699	465	155	L/F	ttG/ttC	.	.	.	1	GRM2	HGNC	4594	protein_coding	YES	CCDS2834.1	ENSP00000378492	GRM2_HUMAN	C9JD41_HUMAN	UPI000013E346	.	deleterious(0)	probably_damaging(0.992)	3/6	.	hmmpanther:PTHR24060,PROSITE_patterns:PS00979,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822,Prints_domain:PR00248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTCTTGAGGCT	.	4	BLCA
CACNA2D3	0	.	GRCh37	3	54933871	54933871	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2425G>A	p.Glu809Lys	p.E809K	ENST00000474759	27/38	19	13	5	12	12	0	CACNA2D3,missense_variant,p.Glu809Lys,ENST00000474759,;CACNA2D3,missense_variant,p.Glu809Lys,ENST00000415676,;CACNA2D3,missense_variant,p.Glu715Lys,ENST00000490478,;CACNA2D3,missense_variant,p.Glu809Lys,ENST00000288197,;CACNA2D3-AS1,intron_variant,,ENST00000471265,;CACNA2D3,3_prime_UTR_variant,,ENST00000471363,;	A	ENSG00000157445	ENST00000474759	Transcript	missense_variant	2473	2425	809	E/K	Gaa/Aaa	COSM1047393	.	.	1	CACNA2D3	HGNC	15460	protein_coding	YES	CCDS54598.1	ENSP00000419101	CA2D3_HUMAN	C9JAV5_HUMAN	UPI000004A7BF	.	tolerated(0.17)	benign(0.05)	27/38	.	hmmpanther:PTHR10166:SF25,hmmpanther:PTHR10166	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATGAACGG	.	5	BLCA
CACNA2D3	0	.	GRCh37	3	55052289	55052289	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2932T>C	p.Ser978Pro	p.S978P	ENST00000474759	35/38	39	35	4	31	31	0	CACNA2D3,missense_variant,p.Ser978Pro,ENST00000474759,;CACNA2D3,missense_variant,p.Ser978Pro,ENST00000415676,;CACNA2D3,missense_variant,p.Ser884Pro,ENST00000490478,;CACNA2D3,missense_variant,p.Ser978Pro,ENST00000288197,;CACNA2D3,non_coding_transcript_exon_variant,,ENST00000478261,;CACNA2D3,3_prime_UTR_variant,,ENST00000471363,;CACNA2D3,non_coding_transcript_exon_variant,,ENST00000471865,;	C	ENSG00000157445	ENST00000474759	Transcript	missense_variant	2980	2932	978	S/P	Tct/Cct	.	.	.	1	CACNA2D3	HGNC	15460	protein_coding	YES	CCDS54598.1	ENSP00000419101	CA2D3_HUMAN	C9JAV5_HUMAN	UPI000004A7BF	.	tolerated(0.08)	probably_damaging(0.993)	35/38	.	hmmpanther:PTHR10166:SF25,hmmpanther:PTHR10166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGTCTCTGAG	.	4	BLCA
ADAMTS9	0	.	GRCh37	3	64619212	64619212	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2111G>A	p.Arg704Lys	p.R704K	ENST00000498707	14/40	83	56	27	120	120	0	ADAMTS9,missense_variant,p.Arg676Lys,ENST00000295903,;ADAMTS9,missense_variant,p.Arg704Lys,ENST00000498707,;ADAMTS9,non_coding_transcript_exon_variant,,ENST00000475557,;ADAMTS9,non_coding_transcript_exon_variant,,ENST00000482490,;	T	ENSG00000163638	ENST00000498707	Transcript	missense_variant	2454	2111	704	R/K	aGa/aAa	.	.	.	-1	ADAMTS9	HGNC	13202	protein_coding	YES	CCDS2903.1	ENSP00000418735	ATS9_HUMAN	B4E0E4_HUMAN	UPI00000463F0	.	tolerated(0.22)	benign(0.005)	14/40	.	hmmpanther:PTHR13723:SF33,hmmpanther:PTHR13723	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCTGTCT	.	5	BLCA
ROBO2	0	.	GRCh37	3	77666842	77666842	+	Missense_Mutation	SNP	C	C	T	rs747971442	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3520C>T	p.Arg1174Trp	p.R1174W	ENST00000487694	23/27	63	39	23	85	85	0	ROBO2,missense_variant,p.Arg1158Trp,ENST00000332191,;ROBO2,missense_variant,p.Arg1158Trp,ENST00000461745,;ROBO2,missense_variant,p.Arg315Trp,ENST00000490991,;ROBO2,missense_variant,p.Arg1174Trp,ENST00000487694,;ROBO2,upstream_gene_variant,,ENST00000475334,;ROBO2,non_coding_transcript_exon_variant,,ENST00000469233,;ROBO2,3_prime_UTR_variant,,ENST00000473767,;	T	ENSG00000185008	ENST00000487694	Transcript	missense_variant	3799	3520	1174	R/W	Cgg/Tgg	rs747971442	.	.	1	ROBO2	HGNC	10250	protein_coding	YES	CCDS54609.1	ENSP00000417335	ROBO2_HUMAN	H9XFA4_HUMAN	UPI0000D891EC	.	deleterious(0)	possibly_damaging(0.689)	23/27	.	hmmpanther:PTHR10489:SF27,hmmpanther:PTHR10489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCACGGGAA	byFrequency	5	BLCA
OR5H1	0	.	GRCh37	3	97851973	97851973	+	Silent	SNP	A	A	G	rs377130730	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432A>G	p.%3D	p.L144L	ENST00000354565	1/1	187	152	34	203	202	0	OR5H1,synonymous_variant,p.%3D,ENST00000354565,;RP11-343D2.11,intron_variant,,ENST00000508964,;	G	ENSG00000231192	ENST00000354565	Transcript	synonymous_variant	432	432	144	L	ctA/ctG	rs377130730	.	.	1	OR5H1	HGNC	8346	protein_coding	YES	CCDS33797.1	ENSP00000346575	OR5H1_HUMAN	.	UPI0000197652	.	.	.	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF13853,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF135,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	G:0	G:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCTATTAAT	byFrequency|byCluster	5	BLCA
CENPE	0	.	GRCh37	4	104067192	104067192	+	Missense_Mutation	SNP	C	C	T	rs377439303	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4207G>A	p.Val1403Met	p.V1403M	ENST00000265148	30/49	93	79	14	111	111	0	CENPE,missense_variant,p.Val1378Met,ENST00000380026,;CENPE,missense_variant,p.Val1403Met,ENST00000265148,;CENPE,upstream_gene_variant,,ENST00000515478,;	T	ENSG00000138778	ENST00000265148	Transcript	missense_variant	4297	4207	1403	V/M	Gtg/Atg	rs377439303	.	.	-1	CENPE	HGNC	1856	protein_coding	YES	CCDS34042.1	ENSP00000265148	CENPE_HUMAN	D6RBW0_HUMAN	UPI000020B28A	.	.	benign(0.001)	30/49	.	hmmpanther:PTHR24115:SF384,hmmpanther:PTHR24115	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCACGATTT	byFrequency|byCluster	5	BLCA
ALPK1	0	.	GRCh37	4	113350317	113350317	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808G>A	p.Glu270Lys	p.E270K	ENST00000458497	10/16	149	119	30	262	262	0	ALPK1,missense_variant,p.Glu192Lys,ENST00000504176,;ALPK1,missense_variant,p.Glu270Lys,ENST00000458497,;ALPK1,missense_variant,p.Glu270Lys,ENST00000177648,;ALPK1,downstream_gene_variant,,ENST00000508589,;ALPK1,missense_variant,p.Glu270Lys,ENST00000505127,;ALPK1,3_prime_UTR_variant,,ENST00000509722,;ALPK1,non_coding_transcript_exon_variant,,ENST00000504745,;ALPK1,downstream_gene_variant,,ENST00000512847,;ALPK1,downstream_gene_variant,,ENST00000509209,;ALPK1,downstream_gene_variant,,ENST00000515330,;	A	ENSG00000073331	ENST00000458497	Transcript	missense_variant	1087	808	270	E/K	Gag/Aag	.	.	.	1	ALPK1	HGNC	20917	protein_coding	YES	CCDS3697.1	ENSP00000398048	ALPK1_HUMAN	.	UPI000045725F	.	deleterious(0.02)	possibly_damaging(0.691)	10/16	.	hmmpanther:PTHR14187,hmmpanther:PTHR14187:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAAGGAGTTT	.	5	BLCA
BBS7	0	.	GRCh37	4	122780247	122780247	+	Missense_Mutation	SNP	G	G	A	rs754262900	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.428C>T	p.Ser143Phe	p.S143F	ENST00000264499	5/19	82	67	14	125	125	0	BBS7,missense_variant,p.Ser143Phe,ENST00000264499,;BBS7,missense_variant,p.Ser143Phe,ENST00000506636,;BBS7,non_coding_transcript_exon_variant,,ENST00000505692,;BBS7,downstream_gene_variant,,ENST00000502444,;BBS7,upstream_gene_variant,,ENST00000508536,;	A	ENSG00000138686	ENST00000264499	Transcript	missense_variant	612	428	143	S/F	tCt/tTt	rs754262900	.	.	-1	BBS7	HGNC	18758	protein_coding	YES	CCDS3724.1	ENSP00000264499	BBS7_HUMAN	H0Y973_HUMAN	UPI00001684D7	.	deleterious(0.03)	possibly_damaging(0.845)	5/19	.	hmmpanther:PTHR16074,hmmpanther:PTHR16074:SF4,Gene3D:2.130.10.10,PIRSF_domain:PIRSF011091,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCAGAAAGG	.	5	BLCA
FAT4	0	.	GRCh37	4	126337700	126337700	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6941G>C	p.Gly2314Ala	p.G2314A	ENST00000394329	6/17	105	84	20	186	186	0	FAT4,missense_variant,p.Gly2314Ala,ENST00000394329,;FAT4,missense_variant,p.Gly612Ala,ENST00000335110,;	C	ENSG00000196159	ENST00000394329	Transcript	missense_variant	6954	6941	2314	G/A	gGa/gCa	.	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	probably_damaging(1)	6/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTGGAGAAC	.	5	BLCA
TTC29	0	.	GRCh37	4	147724741	147724741	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198T>C	p.Tyr400His	p.Y400H	ENST00000325106	11/13	14	9	5	31	31	0	TTC29,missense_variant,p.Tyr400His,ENST00000504425,;TTC29,missense_variant,p.Tyr426His,ENST00000398886,;TTC29,missense_variant,p.Tyr426His,ENST00000513335,;TTC29,missense_variant,p.Tyr400His,ENST00000325106,;TTC29,non_coding_transcript_exon_variant,,ENST00000506019,;TTC29,3_prime_UTR_variant,,ENST00000508306,;	G	ENSG00000137473	ENST00000325106	Transcript	missense_variant	1425	1198	400	Y/H	Tat/Cat	.	.	.	-1	TTC29	HGNC	29936	protein_coding	YES	CCDS47141.1	ENSP00000316740	TTC29_HUMAN	D6RJF6_HUMAN	UPI00001AE7CF	.	tolerated(0.08)	probably_damaging(0.96)	11/13	.	hmmpanther:PTHR10098,Gene3D:1.25.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATAGTGAA	.	5	BLCA
RAPGEF2	0	.	GRCh37	4	160235764	160235764	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>A	p.Asp72Asn	p.D72N	ENST00000264431	3/24	18	14	4	27	27	0	RAPGEF2,missense_variant,p.Asp53Asn,ENST00000514565,;RAPGEF2,missense_variant,p.Asp72Asn,ENST00000264431,;RAPGEF2,missense_variant,p.Asp70Asn,ENST00000510510,;RAPGEF2,missense_variant,p.Asp228Asn,ENST00000505478,;RAPGEF2,5_prime_UTR_variant,,ENST00000511336,;RAPGEF2,non_coding_transcript_exon_variant,,ENST00000504604,;	A	ENSG00000109756	ENST00000264431	Transcript	missense_variant	633	214	72	D/N	Gat/Aat	.	.	.	1	RAPGEF2	HGNC	16854	protein_coding	YES	CCDS43277.1	ENSP00000264431	RPGF2_HUMAN	Q9UFT5_HUMAN,Q4W5Q4_HUMAN,Q17RH5_HUMAN,D6REY8_HUMAN,B4DG82_HUMAN	UPI0000033783	.	deleterious(0.03)	possibly_damaging(0.757)	3/24	.	hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF202	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGTGATATG	.	4	BLCA
ZCCHC4	0	.	GRCh37	4	25315749	25315749	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209G>A	p.Arg70Lys	p.R70K	ENST00000302874	2/13	139	103	36	117	117	0	ZCCHC4,missense_variant,p.Arg70Lys,ENST00000302874,;ZCCHC4,non_coding_transcript_exon_variant,,ENST00000505451,;ZCCHC4,missense_variant,p.Arg70Lys,ENST00000507760,;	A	ENSG00000168228	ENST00000302874	Transcript	missense_variant	233	209	70	R/K	aGa/aAa	.	.	.	1	ZCCHC4	HGNC	22917	protein_coding	YES	CCDS43218.1	ENSP00000303468	ZCHC4_HUMAN	.	UPI0000251F28	.	deleterious(0)	possibly_damaging(0.694)	2/13	.	hmmpanther:PTHR13493,hmmpanther:PTHR13493:SF2,Pfam_domain:PF06839	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATAGAAAAG	.	5	BLCA
ADD1	0	.	GRCh37	4	2930203	2930203	+	Missense_Mutation	SNP	C	C	T	rs532973522	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2260C>T	p.Arg754Cys	p.R754C	ENST00000264758	15/15	110	43	67	126	126	0	ADD1,missense_variant,p.Arg723Cys,ENST00000446856,;ADD1,missense_variant,p.Arg723Cys,ENST00000398129,;ADD1,missense_variant,p.Arg754Cys,ENST00000264758,;ADD1,3_prime_UTR_variant,,ENST00000398125,;ADD1,3_prime_UTR_variant,,ENST00000536424,;ADD1,3_prime_UTR_variant,,ENST00000398123,;ADD1,3_prime_UTR_variant,,ENST00000355842,;ADD1,3_prime_UTR_variant,,ENST00000513328,;ADD1,3_prime_UTR_variant,,ENST00000503455,;MFSD10,downstream_gene_variant,,ENST00000508221,;ADD1,downstream_gene_variant,,ENST00000541843,;MFSD10,downstream_gene_variant,,ENST00000507555,;MFSD10,downstream_gene_variant,,ENST00000355443,;MFSD10,downstream_gene_variant,,ENST00000514800,;ADD1,downstream_gene_variant,,ENST00000514940,;MFSD10,downstream_gene_variant,,ENST00000329687,;ADD1,upstream_gene_variant,,ENST00000538860,;ADD1,non_coding_transcript_exon_variant,,ENST00000513762,;MFSD10,downstream_gene_variant,,ENST00000509676,;ADD1,downstream_gene_variant,,ENST00000539149,;MFSD10,downstream_gene_variant,,ENST00000503596,;MFSD10,downstream_gene_variant,,ENST00000512781,;MFSD10,downstream_gene_variant,,ENST00000514031,;ADD1,downstream_gene_variant,,ENST00000541051,;MFSD10,downstream_gene_variant,,ENST00000508276,;ADD1,downstream_gene_variant,,ENST00000503062,;MFSD10,downstream_gene_variant,,ENST00000507272,;	T	ENSG00000087274	ENST00000264758	Transcript	missense_variant	2448	2260	754	R/C	Cgt/Tgt	rs532973522	.	.	1	ADD1	HGNC	243	protein_coding	YES	CCDS3363.1	ENSP00000264758	ADDA_HUMAN	D6RAH3_HUMAN	UPI000002A35E	.	deleterious_low_confidence(0)	unknown(0)	15/15	.	hmmpanther:PTHR10672,hmmpanther:PTHR10672:SF4	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTCCGTACC	by1000G	5	BLCA
ARAP2	0	.	GRCh37	4	36160435	36160435	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2669C>G	p.Ser890Cys	p.S890C	ENST00000303965	15/33	41	35	6	41	41	0	ARAP2,missense_variant,p.Ser890Cys,ENST00000303965,;ARAP2,upstream_gene_variant,,ENST00000503904,;ARAP2,non_coding_transcript_exon_variant,,ENST00000512804,;ARAP2,downstream_gene_variant,,ENST00000508066,;	C	ENSG00000047365	ENST00000303965	Transcript	missense_variant	3159	2669	890	S/C	tCc/tGc	.	.	.	-1	ARAP2	HGNC	16924	protein_coding	YES	CCDS3441.1	ENSP00000302895	ARAP2_HUMAN	D6RAD6_HUMAN	UPI000013E917	.	tolerated(0.06)	benign(0.049)	15/33	.	PROSITE_profiles:PS50003,hmmpanther:PTHR23180:SF228,hmmpanther:PTHR23180,Gene3D:2.30.29.30,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGGGAAGAC	.	5	BLCA
SLC30A9	0	.	GRCh37	4	42051474	42051474	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.818C>G	p.Ser273Ter	p.S273*	ENST00000264451	9/18	126	105	21	143	143	0	SLC30A9,stop_gained,p.Ser273Ter,ENST00000264451,;SLC30A9,3_prime_UTR_variant,,ENST00000513699,;	G	ENSG00000014824	ENST00000264451	Transcript	stop_gained	998	818	273	S/*	tCa/tGa	.	.	.	1	SLC30A9	HGNC	1329	protein_coding	YES	CCDS3465.1	ENSP00000264451	ZNT9_HUMAN	.	UPI000013D51C	.	.	.	9/18	.	hmmpanther:PTHR13414,TIGRFAM_domain:TIGR01297,Pfam_domain:PF01545,Gene3D:3h90A01,Superfamily_domains:0054606	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACACTCATTAT	.	4	BLCA
ZBTB49	0	.	GRCh37	4	4307909	4307909	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1300C>G	p.Gln434Glu	p.Q434E	ENST00000337872	4/8	64	53	10	55	55	0	ZBTB49,missense_variant,p.Gln434Glu,ENST00000337872,;ZBTB49,intron_variant,,ENST00000538529,;ZBTB49,intron_variant,,ENST00000355834,;ZBTB49,intron_variant,,ENST00000504302,;ZBTB49,downstream_gene_variant,,ENST00000502918,;ZBTB49,intron_variant,,ENST00000515012,;ZBTB49,intron_variant,,ENST00000511458,;ZBTB49,intron_variant,,ENST00000503703,;	G	ENSG00000168826	ENST00000337872	Transcript	missense_variant	1421	1300	434	Q/E	Cag/Gag	.	.	.	1	ZBTB49	HGNC	19883	protein_coding	YES	CCDS3375.1	ENSP00000338807	ZBT49_HUMAN	Q32MK9_HUMAN,D6RJ00_HUMAN	UPI000022C559	.	deleterious(0)	possibly_damaging(0.475)	4/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF104,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTCAGGTG	.	5	BLCA
TEC	0	.	GRCh37	4	48170606	48170606	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492G>A	p.%3D	p.K164K	ENST00000381501	6/18	53	49	4	65	65	0	TEC,synonymous_variant,p.%3D,ENST00000381501,;TEC,3_prime_UTR_variant,,ENST00000505452,;	T	ENSG00000135605	ENST00000381501	Transcript	synonymous_variant	650	492	164	K	aaG/aaA	.	.	.	-1	TEC	HGNC	11719	protein_coding	YES	CCDS3481.1	ENSP00000370912	TEC_HUMAN	Q14219_HUMAN	UPI000013CFAE	.	.	.	6/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24418:SF219,hmmpanther:PTHR24418,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTCTTTGT	.	2	BLCA
TEC	0	.	GRCh37	4	48170614	48170614	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484G>A	p.Glu162Lys	p.E162K	ENST00000381501	6/18	57	52	4	68	68	0	TEC,missense_variant,p.Glu162Lys,ENST00000381501,;TEC,3_prime_UTR_variant,,ENST00000505452,;	T	ENSG00000135605	ENST00000381501	Transcript	missense_variant	642	484	162	E/K	Gaa/Aaa	.	.	.	-1	TEC	HGNC	11719	protein_coding	YES	CCDS3481.1	ENSP00000370912	TEC_HUMAN	Q14219_HUMAN	UPI000013CFAE	.	tolerated(0.25)	benign(0.055)	6/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24418:SF219,hmmpanther:PTHR24418	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTTTCTGGTG	.	2	BLCA
AASDH	0	.	GRCh37	4	57215790	57215790	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2127C>G	p.Asp709Glu	p.D709E	ENST00000205214	11/15	79	53	26	102	102	0	AASDH,missense_variant,p.Asp224Glu,ENST00000434343,;AASDH,missense_variant,p.Asp556Glu,ENST00000602986,;AASDH,missense_variant,p.Asp709Glu,ENST00000451613,;AASDH,missense_variant,p.Asp709Glu,ENST00000205214,;AASDH,missense_variant,p.Asp709Glu,ENST00000502617,;AASDH,missense_variant,p.Asp609Glu,ENST00000513376,;AASDH,3_prime_UTR_variant,,ENST00000503808,;AASDH,3_prime_UTR_variant,,ENST00000514745,;	C	ENSG00000157426	ENST00000205214	Transcript	missense_variant	2308	2127	709	D/E	gaC/gaG	.	.	.	-1	AASDH	HGNC	23993	protein_coding	YES	CCDS3504.1	ENSP00000205214	ACSF4_HUMAN	G3V0G4_HUMAN	UPI000020B8EF	.	tolerated(0.17)	benign(0.004)	11/15	.	hmmpanther:PTHR24095:SF43,hmmpanther:PTHR24095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGAGTCAGA	.	5	BLCA
LPHN3	0	.	GRCh37	4	62897185	62897185	+	Missense_Mutation	SNP	C	C	G	rs747307189	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3244C>G	p.Leu1082Val	p.L1082V	ENST00000514591	22/25	103	89	13	100	100	0	LPHN3,missense_variant,p.Leu1141Val,ENST00000507625,;LPHN3,missense_variant,p.Leu1082Val,ENST00000508946,;LPHN3,missense_variant,p.Leu1073Val,ENST00000506700,;LPHN3,missense_variant,p.Leu531Val,ENST00000502815,;LPHN3,missense_variant,p.Leu1150Val,ENST00000509896,;LPHN3,missense_variant,p.Leu1141Val,ENST00000511324,;LPHN3,missense_variant,p.Leu1082Val,ENST00000545650,;LPHN3,missense_variant,p.Leu1150Val,ENST00000506720,;LPHN3,missense_variant,p.Leu1082Val,ENST00000504896,;LPHN3,missense_variant,p.Leu1082Val,ENST00000514591,;LPHN3,missense_variant,p.Leu1150Val,ENST00000508693,;LPHN3,missense_variant,p.Leu1141Val,ENST00000506746,;LPHN3,missense_variant,p.Leu1073Val,ENST00000514996,;LPHN3,missense_variant,p.Leu1082Val,ENST00000512091,;LPHN3,missense_variant,p.Leu1073Val,ENST00000514157,;LPHN3,missense_variant,p.Leu1141Val,ENST00000507164,;	G	ENSG00000150471	ENST00000514591	Transcript	missense_variant	3573	3244	1082	L/V	Ctt/Gtt	rs747307189	.	.	1	LPHN3	HGNC	20974	protein_coding	YES	CCDS54768.1	ENSP00000422533	.	Q4W5J9_HUMAN,E9PE04_HUMAN	UPI00016278EF	.	deleterious(0)	probably_damaging(0.999)	22/25	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF60,Pfam_domain:PF00002,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGCTCTTCTC	byFrequency	4	BLCA
GNRHR	0	.	GRCh37	4	68606195	68606195	+	3'UTR	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*3G>C	.	.	ENST00000226413	3/3	84	62	22	85	85	0	GNRHR,3_prime_UTR_variant,,ENST00000226413,;GNRHR,downstream_gene_variant,,ENST00000420975,;UBA6-AS1,intron_variant,,ENST00000500538,;UBA6-AS1,intron_variant,,ENST00000502758,;	G	ENSG00000109163	ENST00000226413	Transcript	3_prime_UTR_variant	1015	.	.	.	.	.	.	.	-1	GNRHR	HGNC	4421	protein_coding	YES	CCDS3517.1	ENSP00000226413	GNRHR_HUMAN	.	UPI000004EEC8	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTATCAATCA	.	5	BLCA
ENAM	0	.	GRCh37	4	71508031	71508031	+	Silent	SNP	C	C	T	rs778224567	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888C>T	p.%3D	p.N296N	ENST00000396073	9/9	41	35	6	53	53	0	ENAM,synonymous_variant,p.%3D,ENST00000396073,;ENAM,intron_variant,,ENST00000472903,;ENAM,non_coding_transcript_exon_variant,,ENST00000472597,;	T	ENSG00000132464	ENST00000396073	Transcript	synonymous_variant	1169	888	296	N	aaC/aaT	rs778224567	.	.	1	ENAM	HGNC	3344	protein_coding	YES	CCDS3544.2	ENSP00000379383	ENAM_HUMAN	Q8NFB4_HUMAN	UPI000013CE60	.	.	.	9/9	.	Pfam_domain:PF15362,hmmpanther:PTHR16784:SF2,hmmpanther:PTHR16784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCAACGCTTC	.	4	BLCA
PPBP	0	.	GRCh37	4	74853064	74853064	+	Silent	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312C>A	p.%3D	p.I104I	ENST00000296028	3/3	107	94	13	67	67	0	PPBP,synonymous_variant,p.%3D,ENST00000296028,;	T	ENSG00000163736	ENST00000296028	Transcript	synonymous_variant	406	312	104	I	atC/atA	.	.	.	-1	PPBP	HGNC	9240	protein_coding	YES	CCDS3563.1	ENSP00000296028	CXCL7_HUMAN	D3JV43_HUMAN,D3JV42_HUMAN,D3JV41_HUMAN	UPI00000012C5	.	.	.	3/3	.	hmmpanther:PTHR10179,PROSITE_patterns:PS00471,Gene3D:2.40.50.40,Pfam_domain:PF00048,SMART_domains:SM00199,Superfamily_domains:SSF54117,Prints_domain:PR00436,Prints_domain:PR00437	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCAGATTTT	.	4	BLCA
EPGN	0	.	GRCh37	4	75178020	75178020	+	Silent	SNP	C	C	T	rs766354884	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252C>T	p.%3D	p.C84C	ENST00000413830	3/5	121	109	11	99	99	0	EPGN,synonymous_variant,p.%3D,ENST00000505212,;EPGN,synonymous_variant,p.%3D,ENST00000509145,;EPGN,synonymous_variant,p.%3D,ENST00000502358,;EPGN,synonymous_variant,p.%3D,ENST00000503098,;EPGN,synonymous_variant,p.%3D,ENST00000446430,;EPGN,synonymous_variant,p.%3D,ENST00000514968,;EPGN,synonymous_variant,p.%3D,ENST00000332112,;EPGN,synonymous_variant,p.%3D,ENST00000413830,;EPGN,synonymous_variant,p.%3D,ENST00000502835,;	T	ENSG00000182585	ENST00000413830	Transcript	synonymous_variant	313	252	84	C	tgC/tgT	rs766354884	.	.	1	EPGN	HGNC	17470	protein_coding	YES	CCDS59478.1	ENSP00000411898	EPGN_HUMAN	A0PK19_HUMAN	UPI00003D37D1	.	.	.	3/5	.	PROSITE_profiles:PS50026,hmmpanther:PTHR10740,hmmpanther:PTHR10740:SF10,PROSITE_patterns:PS00022,PROSITE_patterns:PS01186,Gene3D:2.10.25.10,Superfamily_domains:SSF57196,Prints_domain:PR00009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATCTGCAGGTA	.	3	BLCA
CCDC158	0	.	GRCh37	4	77288830	77288830	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1447G>C	p.Glu483Gln	p.E483Q	ENST00000388914	11/24	107	64	42	82	82	0	CCDC158,missense_variant,p.Glu483Gln,ENST00000388914,;CCDC158,upstream_gene_variant,,ENST00000504667,;	G	ENSG00000163749	ENST00000388914	Transcript	missense_variant	1600	1447	483	E/Q	Gag/Cag	.	.	.	-1	CCDC158	HGNC	26374	protein_coding	YES	CCDS43242.1	ENSP00000373566	CD158_HUMAN	.	UPI00004DF23B	.	deleterious(0.02)	probably_damaging(0.986)	11/24	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF361,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCTTCTA	.	5	BLCA
WDFY3	0	.	GRCh37	4	85623614	85623614	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8488G>A	p.Glu2830Lys	p.E2830K	ENST00000295888	56/68	32	26	5	45	45	0	WDFY3,missense_variant,p.Glu433Lys,ENST00000514711,;WDFY3,missense_variant,p.Glu2830Lys,ENST00000295888,;WDFY3,missense_variant,p.Glu2813Lys,ENST00000322366,;	T	ENSG00000163625	ENST00000295888	Transcript	missense_variant	8896	8488	2830	E/K	Gag/Aag	.	.	.	-1	WDFY3	HGNC	20751	protein_coding	YES	CCDS3609.1	ENSP00000295888	WDFY3_HUMAN	D6RJE4_HUMAN,A7E1Z6_HUMAN	UPI000013E2C7	.	deleterious(0)	benign(0.364)	56/68	.	Superfamily_domains:SSF81837,SMART_domains:SM01026,Gene3D:1t77A02,Pfam_domain:PF02138,hmmpanther:PTHR13743:SF55,hmmpanther:PTHR13743,PROSITE_profiles:PS50197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGCGCA	.	5	BLCA
MAPK10	0	.	GRCh37	4	86952568	86952568	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1127A>G	p.Tyr376Cys	p.Y376C	ENST00000359221	12/14	32	23	8	30	30	0	MAPK10,missense_variant,p.Tyr231Cys,ENST00000449047,;MAPK10,missense_variant,p.Tyr231Cys,ENST00000395160,;MAPK10,missense_variant,p.Tyr376Cys,ENST00000361569,;MAPK10,missense_variant,p.Tyr338Cys,ENST00000395169,;MAPK10,missense_variant,p.Tyr231Cys,ENST00000395157,;MAPK10,missense_variant,p.Tyr376Cys,ENST00000359221,;MAPK10,missense_variant,p.Tyr289Cys,ENST00000515400,;MAPK10,missense_variant,p.Tyr338Cys,ENST00000395166,;MAPK10,missense_variant,p.Tyr376Cys,ENST00000395161,;MAPK10,3_prime_UTR_variant,,ENST00000310816,;MAPK10,non_coding_transcript_exon_variant,,ENST00000508262,;	C	ENSG00000109339	ENST00000359221	Transcript	missense_variant	1654	1127	376	Y/C	tAt/tGt	.	.	.	-1	MAPK10	HGNC	6872	protein_coding	YES	CCDS34026.1	ENSP00000352157	MK10_HUMAN	D6RJF9_HUMAN,D6RFZ7_HUMAN,D6RFX8_HUMAN,D6RDG1_HUMAN,D6RCB1_HUMAN,D6RC26_HUMAN,D6RBH2_HUMAN,D6RAU3_HUMAN,D6RAJ0_HUMAN,D6R9C1_HUMAN,B3KR72_HUMAN,A8MWW6_HUMAN	UPI0000049042	.	deleterious(0.01)	possibly_damaging(0.765)	12/14	.	hmmpanther:PTHR24055:SF162,hmmpanther:PTHR24055,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCATATATC	.	5	BLCA
TMEM175	0	.	GRCh37	4	945474	945474	+	Missense_Mutation	SNP	G	G	C	rs771847463	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347G>C	p.Cys116Ser	p.C116S	ENST00000264771	6/11	83	67	16	146	146	0	TMEM175,missense_variant,p.Cys34Ser,ENST00000510493,;TMEM175,missense_variant,p.Cys116Ser,ENST00000514546,;TMEM175,missense_variant,p.Cys103Ser,ENST00000514453,;TMEM175,missense_variant,p.Cys116Ser,ENST00000264771,;TMEM175,missense_variant,p.Cys34Ser,ENST00000515492,;TMEM175,missense_variant,p.Cys34Ser,ENST00000508204,;TMEM175,5_prime_UTR_variant,,ENST00000515740,;TMEM175,intron_variant,,ENST00000509508,;TMEM175,downstream_gene_variant,,ENST00000507319,;TMEM175,non_coding_transcript_exon_variant,,ENST00000504180,;TMEM175,3_prime_UTR_variant,,ENST00000513682,;TMEM175,3_prime_UTR_variant,,ENST00000504744,;TMEM175,3_prime_UTR_variant,,ENST00000513952,;TMEM175,non_coding_transcript_exon_variant,,ENST00000515876,;TMEM175,non_coding_transcript_exon_variant,,ENST00000438836,;TMEM175,non_coding_transcript_exon_variant,,ENST00000452360,;TMEM175,non_coding_transcript_exon_variant,,ENST00000502513,;TMEM175,upstream_gene_variant,,ENST00000506669,;TMEM175,downstream_gene_variant,,ENST00000505734,;TMEM175,downstream_gene_variant,,ENST00000504850,;TMEM175,downstream_gene_variant,,ENST00000504505,;	C	ENSG00000127419	ENST00000264771	Transcript	missense_variant	532	347	116	C/S	tGc/tCc	rs771847463	.	.	1	TMEM175	HGNC	28709	protein_coding	YES	CCDS3341.1	ENSP00000264771	TM175_HUMAN	E7ETE6_HUMAN,D6RIZ2_HUMAN,D6RBE5_HUMAN,D3DVN5_HUMAN	UPI000006D921	.	tolerated(0.27)	benign(0.259)	6/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR31462:SF2,hmmpanther:PTHR31462,Pfam_domain:PF06736	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTGCATGA	.	5	BLCA
RAP1GDS1	0	.	GRCh37	4	99325710	99325710	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.723G>A	p.%3D	p.K241K	ENST00000339360	7/15	67	57	9	73	73	0	RAP1GDS1,synonymous_variant,p.%3D,ENST00000408927,;RAP1GDS1,synonymous_variant,p.%3D,ENST00000339360,;RAP1GDS1,synonymous_variant,p.%3D,ENST00000453712,;RAP1GDS1,synonymous_variant,p.%3D,ENST00000514122,;RAP1GDS1,synonymous_variant,p.%3D,ENST00000380158,;RAP1GDS1,synonymous_variant,p.%3D,ENST00000264572,;RAP1GDS1,synonymous_variant,p.%3D,ENST00000408900,;RAP1GDS1,intron_variant,,ENST00000509501,;RP11-810D13.1,upstream_gene_variant,,ENST00000485315,;	A	ENSG00000138698	ENST00000339360	Transcript	synonymous_variant	771	723	241	K	aaG/aaA	.	.	.	1	RAP1GDS1	HGNC	9859	protein_coding	YES	CCDS47105.1	ENSP00000340454	GDS1_HUMAN	.	UPI000004A01F	.	.	.	7/15	.	hmmpanther:PTHR10957:SF2,hmmpanther:PTHR10957,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATAAGAGAGA	.	5	BLCA
APC	0	.	GRCh37	5	112178759	112178759	+	Missense_Mutation	SNP	G	G	A	rs538230198	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7468G>A	p.Asp2490Asn	p.D2490N	ENST00000457016	16/16	110	96	13	87	87	0	APC,missense_variant,p.Asp2490Asn,ENST00000457016,;APC,missense_variant,p.Asp2490Asn,ENST00000257430,;APC,missense_variant,p.Asp2490Asn,ENST00000508376,;APC,downstream_gene_variant,,ENST00000507379,;APC,downstream_gene_variant,,ENST00000512211,;CTC-554D6.1,intron_variant,,ENST00000520401,;APC,downstream_gene_variant,,ENST00000502371,;APC,downstream_gene_variant,,ENST00000508624,;	A	ENSG00000134982	ENST00000457016	Transcript	missense_variant	7848	7468	2490	D/N	Gat/Aat	rs538230198	.	.	1	APC	HGNC	583	protein_coding	YES	CCDS4107.1	ENSP00000413133	APC_HUMAN	Q9UM98_HUMAN,Q9P119_HUMAN,Q9HAW6_HUMAN,Q4LE70_HUMAN,E9PFT7_HUMAN,D6RFL6_HUMAN,B2ZRE1_HUMAN,A5HB97_HUMAN,A5HB96_HUMAN,A5HB95_HUMAN,A5HB94_HUMAN,A1YIQ7_HUMAN	UPI000013CF60	.	.	probably_damaging(1)	16/16	.	hmmpanther:PTHR12607,hmmpanther:PTHR12607:SF11,Pfam_domain:PF05956	A:0.0004	A:0	A:0	.	A:0	A:0.002	A:0	.	.	uncertain_significance	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTGATATG	byFrequency|byCluster|by1000G	4	BLCA
LRRTM2	0	.	GRCh37	5	138209397	138209397	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>A	p.Asp285Asn	p.D285N	ENST00000274711	2/2	156	130	26	156	156	0	LRRTM2,missense_variant,p.Asp285Asn,ENST00000274711,;LRRTM2,3_prime_UTR_variant,,ENST00000518785,;CTNNA1,intron_variant,,ENST00000302763,;LRRTM2,intron_variant,,ENST00000521094,;CTNNA1,intron_variant,,ENST00000355078,;CTNNA1,intron_variant,,ENST00000518825,;CTNNA1,upstream_gene_variant,,ENST00000521640,;CTNNA1,upstream_gene_variant,,ENST00000517656,;CTNNA1,upstream_gene_variant,,ENST00000522013,;CTNNA1,upstream_gene_variant,,ENST00000520865,;CTNNA1,upstream_gene_variant,,ENST00000520260,;CTNNA1,upstream_gene_variant,,ENST00000518381,;CTNNA1,upstream_gene_variant,,ENST00000523298,;CTNNA1,upstream_gene_variant,,ENST00000523685,;CTNNA1,upstream_gene_variant,,ENST00000519634,;CTNNA1,upstream_gene_variant,,ENST00000540387,;CTNNA1,upstream_gene_variant,,ENST00000519768,;CTNNA1,upstream_gene_variant,,ENST00000519116,;CTNNA1,upstream_gene_variant,,ENST00000521683,;CTNNA1,upstream_gene_variant,,ENST00000517533,;CTNNA1,intron_variant,,ENST00000520400,;LRRTM2,downstream_gene_variant,,ENST00000523537,;CTNNA1,upstream_gene_variant,,ENST00000518263,;CTNNA1,upstream_gene_variant,,ENST00000522052,;CTNNA1,upstream_gene_variant,,ENST00000524292,;CTNNA1,intron_variant,,ENST00000521724,;CTNNA1,intron_variant,,ENST00000517534,;CTNNA1,intron_variant,,ENST00000523275,;	T	ENSG00000146006	ENST00000274711	Transcript	missense_variant	1232	853	285	D/N	Gat/Aat	.	.	.	-1	LRRTM2	HGNC	19409	protein_coding	YES	CCDS47272.1	ENSP00000274711	LRRT2_HUMAN	.	UPI0000070039	.	deleterious(0)	probably_damaging(1)	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24367,hmmpanther:PTHR24367:SF20,Gene3D:3.80.10.10,Pfam_domain:PF13855,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTATCCATGA	.	4	BLCA
MATR3	0	.	GRCh37	5	138643724	138643724	+	Missense_Mutation	SNP	G	G	A	rs749335257	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.620G>A	p.Arg207His	p.R207H	ENST00000394805	2/15	68	55	12	66	66	0	MATR3,missense_variant,p.Arg207His,ENST00000502929,;MATR3,missense_variant,p.Arg207His,ENST00000510056,;MATR3,missense_variant,p.Arg207His,ENST00000394800,;MATR3,missense_variant,p.Arg207His,ENST00000394805,;MATR3,missense_variant,p.Arg207His,ENST00000504045,;MATR3,missense_variant,p.Arg207His,ENST00000509990,;MATR3,missense_variant,p.Arg207His,ENST00000361059,;MATR3,intron_variant,,ENST00000512876,;MATR3,intron_variant,,ENST00000514528,;MATR3,intron_variant,,ENST00000503811,;MATR3,intron_variant,,ENST00000511249,;MATR3,intron_variant,,ENST00000512107,;MATR3,intron_variant,,ENST00000502499,;MATR3,intron_variant,,ENST00000504311,;MATR3,intron_variant,,ENST00000506147,;MATR3,intron_variant,,ENST00000504203,;MATR3,intron_variant,,ENST00000509644,;MATR3,intron_variant,,ENST00000513678,;MATR3,downstream_gene_variant,,ENST00000508689,;MATR3,downstream_gene_variant,,ENST00000514694,;MATR3,downstream_gene_variant,,ENST00000503340,;MATR3,downstream_gene_variant,,ENST00000502394,;MATR3,downstream_gene_variant,,ENST00000514488,;MATR3,upstream_gene_variant,,ENST00000515833,;MATR3,downstream_gene_variant,,ENST00000511378,;MATR3,downstream_gene_variant,,ENST00000504023,;MATR3,downstream_gene_variant,,ENST00000505016,;MATR3,intron_variant,,ENST00000509918,;MATR3,intron_variant,,ENST00000511978,;MATR3,intron_variant,,ENST00000504643,;MATR3,intron_variant,,ENST00000507860,;MATR3,intron_variant,,ENST00000513121,;MATR3,upstream_gene_variant,,ENST00000505625,;MATR3,upstream_gene_variant,,ENST00000514402,;	A	ENSG00000015479	ENST00000394805	Transcript	missense_variant	955	620	207	R/H	cGt/cAt	rs749335257	.	.	1	MATR3	HGNC	6912	protein_coding	YES	CCDS4210.1	ENSP00000378284	MATR3_HUMAN	Q9H4N1_HUMAN,D6REK4_HUMAN,D6RE02_HUMAN,D6RCM3_HUMAN,D6RBS2_HUMAN,D6RBK5_HUMAN,D6RBI2_HUMAN,D6RB45_HUMAN,D6RAY2_HUMAN,D6RAM9_HUMAN,D6R9F3_HUMAN,D6R991_HUMAN,D6R8Z5_HUMAN,B3KM87_HUMAN	UPI0000000DEE	.	tolerated(0.59)	benign(0.003)	2/15	.	hmmpanther:PTHR15592	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTCGTTCTC	byFrequency	5	BLCA
TMCO6	0	.	GRCh37	5	140023452	140023452	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1006G>T	p.Glu336Ter	p.E336*	ENST00000394671	9/12	53	47	5	62	62	0	TMCO6,stop_gained,p.Glu336Ter,ENST00000394671,;TMCO6,stop_gained,p.Glu342Ter,ENST00000252100,;TMCO6,stop_gained,p.Glu96Ter,ENST00000537378,;IK,upstream_gene_variant,,ENST00000513256,;NDUFA2,downstream_gene_variant,,ENST00000252102,;IK,upstream_gene_variant,,ENST00000502899,;IK,upstream_gene_variant,,ENST00000417647,;IK,upstream_gene_variant,,ENST00000508301,;IK,upstream_gene_variant,,ENST00000507593,;NDUFA2,downstream_gene_variant,,ENST00000512088,;TMCO6,downstream_gene_variant,,ENST00000511410,;MIR3655,upstream_gene_variant,,ENST00000581765,;NDUFA2,intron_variant,,ENST00000510680,;IK,upstream_gene_variant,,ENST00000523672,;TMCO6,non_coding_transcript_exon_variant,,ENST00000509269,;TMCO6,non_coding_transcript_exon_variant,,ENST00000515265,;TMCO6,non_coding_transcript_exon_variant,,ENST00000510336,;TMCO6,non_coding_transcript_exon_variant,,ENST00000509605,;IK,upstream_gene_variant,,ENST00000503332,;TMCO6,downstream_gene_variant,,ENST00000505086,;TMCO6,downstream_gene_variant,,ENST00000509217,;TMCO6,downstream_gene_variant,,ENST00000513002,;TMCO6,downstream_gene_variant,,ENST00000514449,;IK,upstream_gene_variant,,ENST00000512827,;NDUFA2,downstream_gene_variant,,ENST00000502960,;TMCO6,downstream_gene_variant,,ENST00000394669,;TMCO6,downstream_gene_variant,,ENST00000515653,;TMCO6,downstream_gene_variant,,ENST00000504069,;	T	ENSG00000113119	ENST00000394671	Transcript	stop_gained	1107	1006	336	E/*	Gag/Tag	.	.	.	1	TMCO6	HGNC	28814	protein_coding	YES	CCDS4233.2	ENSP00000378166	TMCO6_HUMAN	.	UPI00003E5FF0	.	.	.	9/12	.	Superfamily_domains:SSF48371,SMART_domains:SM00185,Gene3D:1.25.10.10,hmmpanther:PTHR16356	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGATGAGCGT	.	3	BLCA
PCDHA13	0	.	GRCh37	5	140263408	140263408	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1555G>T	p.Ala519Ser	p.A519S	ENST00000289272	1/4	145	106	39	186	186	0	PCDHA13,missense_variant,p.Ala519Ser,ENST00000289272,;PCDHA13,missense_variant,p.Ala519Ser,ENST00000409494,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA11,intron_variant,,ENST00000398640,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA12,intron_variant,,ENST00000398631,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA9,intron_variant,,ENST00000532602,;	T	ENSG00000239389	ENST00000289272	Transcript	missense_variant	1555	1555	519	A/S	Gcg/Tcg	.	.	.	1	PCDHA13	HGNC	8667	protein_coding	YES	CCDS4240.1	ENSP00000289272	PCDAD_HUMAN	.	UPI00001273D6	.	deleterious_low_confidence(0)	benign(0.383)	1/4	.	Prints_domain:PR00205,Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF101,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTACGCGCTG	.	5	BLCA
PCDHAC2	0	.	GRCh37	5	140347704	140347704	+	Silent	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1353C>T	p.%3D	p.S451S	ENST00000289269	1/4	118	82	35	121	121	0	PCDHAC2,synonymous_variant,p.%3D,ENST00000289269,;PCDHAC1,intron_variant,,ENST00000253807,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA11,intron_variant,,ENST00000398640,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA12,intron_variant,,ENST00000398631,;PCDHA13,intron_variant,,ENST00000289272,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA9,intron_variant,,ENST00000532602,;PCDHA13,intron_variant,,ENST00000409494,;	T	ENSG00000243232	ENST00000289269	Transcript	synonymous_variant	1885	1353	451	S	tcC/tcT	COSM3610300	.	.	1	PCDHAC2	HGNC	8677	protein_coding	YES	CCDS4242.1	ENSP00000289269	PCDC2_HUMAN	.	UPI0000127786	.	.	.	1/4	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF10,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATCCCTGCG	.	5	BLCA
PCDHB6	0	.	GRCh37	5	140532170	140532170	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2332G>T	p.Glu778Ter	p.E778*	ENST00000231136	1/1	70	63	7	76	76	0	PCDHB6,stop_gained,p.Glu642Ter,ENST00000543635,;PCDHB6,stop_gained,p.Glu778Ter,ENST00000231136,;PCDHB17,upstream_gene_variant,,ENST00000539533,;	T	ENSG00000113211	ENST00000231136	Transcript	stop_gained	2332	2332	778	E/*	Gag/Tag	.	.	.	1	PCDHB6	HGNC	8691	protein_coding	YES	CCDS4248.1	ENSP00000231136	PCDB6_HUMAN	F5H446_HUMAN	UPI00001273E2	.	.	.	1/1	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCACTGAGAGA	.	3	BLCA
PCDHGA6	0	.	GRCh37	5	140755916	140755916	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2266G>A	p.Glu756Lys	p.E756K	ENST00000517434	1/4	88	56	32	112	112	0	PCDHGA6,missense_variant,p.Glu756Lys,ENST00000517434,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB2,intron_variant,,ENST00000522605,;	A	ENSG00000253731	ENST00000517434	Transcript	missense_variant	2266	2266	756	E/K	Gag/Aag	COSM3393280,COSM3393279	.	.	1	PCDHGA6	HGNC	8704	protein_coding	YES	CCDS54926.1	ENSP00000429601	PCDG6_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000715C8	.	deleterious_low_confidence(0)	possibly_damaging(0.484)	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF107	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCACGAGGTC	.	5	BLCA
ARHGEF37	0	.	GRCh37	5	149008431	149008431	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720G>C	p.Glu574Gln	p.E574Q	ENST00000333677	12/13	31	20	11	36	36	0	ARHGEF37,missense_variant,p.Glu574Gln,ENST00000333677,;ARHGEF37,non_coding_transcript_exon_variant,,ENST00000509831,;	C	ENSG00000183111	ENST00000333677	Transcript	missense_variant	1883	1720	574	E/Q	Gag/Cag	.	.	.	1	ARHGEF37	HGNC	34430	protein_coding	YES	CCDS43385.1	ENSP00000328083	ARH37_HUMAN	D6RJH4_HUMAN	UPI00001D7F04	.	tolerated(0.64)	benign(0.004)	12/13	.	hmmpanther:PTHR22834:SF9,hmmpanther:PTHR22834	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCAGAGGAG	.	5	BLCA
TCOF1	0	.	GRCh37	5	149755861	149755861	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2110delG	p.Glu704ArgfsTer7	p.E704Rfs*7	ENST00000504761	13/26	186	155	31	209	209	0	TCOF1,frameshift_variant,p.Glu704ArgfsTer7,ENST00000427724,;TCOF1,frameshift_variant,p.Glu704ArgfsTer7,ENST00000513346,;TCOF1,frameshift_variant,p.Glu704ArgfsTer7,ENST00000394269,;TCOF1,frameshift_variant,p.Glu704ArgfsTer7,ENST00000439160,;TCOF1,frameshift_variant,p.Glu704ArgfsTer7,ENST00000377797,;TCOF1,frameshift_variant,p.Glu704ArgfsTer7,ENST00000451292,;TCOF1,frameshift_variant,p.Glu627ArgfsTer7,ENST00000445265,;TCOF1,frameshift_variant,p.Glu627ArgfsTer7,ENST00000323668,;TCOF1,frameshift_variant,p.Glu704ArgfsTer7,ENST00000504761,;TCOF1,intron_variant,,ENST00000515516,;TCOF1,upstream_gene_variant,,ENST00000513538,;TCOF1,upstream_gene_variant,,ENST00000506063,;TCOF1,non_coding_transcript_exon_variant,,ENST00000515035,;TCOF1,non_coding_transcript_exon_variant,,ENST00000514442,;TCOF1,upstream_gene_variant,,ENST00000506767,;	-	ENSG00000070814	ENST00000504761	Transcript	frameshift_variant	2110	2110	704	E/X	Gag/ag	.	.	.	1	TCOF1	HGNC	11654	protein_coding	YES	CCDS54936.1	ENSP00000421655	TCOF_HUMAN	Q9UFD4_HUMAN	UPI0000EE3736	.	.	.	13/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR20787,Pfam_domain:PF03546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAGGAAGAGAAG	.	3	BLCA
FAT2	0	.	GRCh37	5	150923826	150923826	+	Missense_Mutation	SNP	G	G	C	rs762183203	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6862C>G	p.Gln2288Glu	p.Q2288E	ENST00000261800	9/23	98	85	13	97	97	0	FAT2,missense_variant,p.Gln2288Glu,ENST00000261800,;	C	ENSG00000086570	ENST00000261800	Transcript	missense_variant	6875	6862	2288	Q/E	Cag/Gag	rs762183203,COSM1757120	.	.	-1	FAT2	HGNC	3596	protein_coding	YES	CCDS4317.1	ENSP00000261800	FAT2_HUMAN	.	UPI0000055B22	.	.	benign(0.232)	9/23	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF37,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTGAGCAG	.	4	BLCA
FAT2	0	.	GRCh37	5	150924028	150924028	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6660C>G	p.Phe2220Leu	p.F2220L	ENST00000261800	9/23	127	101	26	147	147	0	FAT2,missense_variant,p.Phe2220Leu,ENST00000261800,;	C	ENSG00000086570	ENST00000261800	Transcript	missense_variant	6673	6660	2220	F/L	ttC/ttG	.	.	.	-1	FAT2	HGNC	3596	protein_coding	YES	CCDS4317.1	ENSP00000261800	FAT2_HUMAN	.	UPI0000055B22	.	.	probably_damaging(0.999)	9/23	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF37,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTGAAGTC	.	5	BLCA
PRDM9	0	.	GRCh37	5	23526824	23526824	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1627C>G	p.Gln543Glu	p.Q543E	ENST00000296682	11/11	121	101	19	82	82	0	PRDM9,missense_variant,p.Gln543Glu,ENST00000296682,;	G	ENSG00000164256	ENST00000296682	Transcript	missense_variant	1809	1627	543	Q/E	Caa/Gaa	.	.	.	1	PRDM9	HGNC	13994	protein_coding	YES	CCDS43307.1	ENSP00000296682	PRDM9_HUMAN	D6RD68_HUMAN,D2KI85_HUMAN,D2E453_HUMAN	UPI00006C9E90	.	tolerated(0.07)	possibly_damaging(0.768)	11/11	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF21,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACACCAAAGG	.	5	BLCA
CDH6	0	.	GRCh37	5	31302331	31302331	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925G>T	p.Asp309Tyr	p.D309Y	ENST00000265071	6/12	71	43	28	54	54	0	CDH6,missense_variant,p.Asp254Tyr,ENST00000514738,;CDH6,missense_variant,p.Asp309Tyr,ENST00000265071,;CDH6,non_coding_transcript_exon_variant,,ENST00000508132,;	T	ENSG00000113361	ENST00000265071	Transcript	missense_variant	1190	925	309	D/Y	Gac/Tac	.	.	.	1	CDH6	HGNC	1765	protein_coding	YES	CCDS3894.1	ENSP00000265071	CADH6_HUMAN	.	UPI0000126D9B	.	deleterious(0)	possibly_damaging(0.607)	6/12	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24027:SF290,hmmpanther:PTHR24027,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACAGACGGT	.	5	BLCA
ADAMTS12	0	.	GRCh37	5	33577087	33577087	+	Missense_Mutation	SNP	T	T	C	rs746573822	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3044A>G	p.Asn1015Ser	p.N1015S	ENST00000504830	19/24	138	83	54	136	136	0	ADAMTS12,missense_variant,p.Asn1015Ser,ENST00000504830,;ADAMTS12,missense_variant,p.Asn930Ser,ENST00000352040,;ADAMTS12,non_coding_transcript_exon_variant,,ENST00000504582,;	C	ENSG00000151388	ENST00000504830	Transcript	missense_variant	3380	3044	1015	N/S	aAc/aGc	rs746573822,COSM185971	.	.	-1	ADAMTS12	HGNC	14605	protein_coding	YES	CCDS34140.1	ENSP00000422554	ATS12_HUMAN	.	UPI000013DC51	.	tolerated(0.91)	benign(0.021)	19/24	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF150	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P1016Q|c.3047C>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGGTTTTTT	.	5	BLCA
RAI14	0	.	GRCh37	5	34811942	34811942	+	Missense_Mutation	SNP	G	G	C	rs201899787	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.637G>C	p.Asp213His	p.D213H	ENST00000515799	11/20	121	116	5	74	73	1	RAI14,missense_variant,p.Asp203His,ENST00000397449,;RAI14,missense_variant,p.Asp210His,ENST00000428746,;RAI14,missense_variant,p.Asp210His,ENST00000265109,;RAI14,missense_variant,p.Asp202His,ENST00000506376,;RAI14,missense_variant,p.Asp213His,ENST00000515799,;RAI14,missense_variant,p.Asp210His,ENST00000503673,;RAI14,missense_variant,p.Asp210His,ENST00000512629,;RAI14,downstream_gene_variant,,ENST00000508315,;RAI14,downstream_gene_variant,,ENST00000514873,;RAI14,downstream_gene_variant,,ENST00000504052,;RAI14,downstream_gene_variant,,ENST00000512625,;RAI14,downstream_gene_variant,,ENST00000514527,;RAI14,downstream_gene_variant,,ENST00000513974,;RAI14,downstream_gene_variant,,ENST00000509247,;RAI14,downstream_gene_variant,,ENST00000502736,;RAI14,downstream_gene_variant,,ENST00000507276,;RAI14,3_prime_UTR_variant,,ENST00000508777,;RAI14,downstream_gene_variant,,ENST00000503222,;RAI14,downstream_gene_variant,,ENST00000510319,;	C	ENSG00000039560	ENST00000515799	Transcript	missense_variant	1129	637	213	D/H	Gac/Cac	rs201899787	.	.	1	RAI14	HGNC	14873	protein_coding	YES	CCDS54839.1	ENSP00000427123	RAI14_HUMAN	B3KMZ9_HUMAN	UPI00001B296B	.	deleterious(0)	probably_damaging(1)	11/20	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24129,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	A:0.0006	A:0	A:0	.	A:0.003	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCAGACCTA	byFrequency|byCluster|by1000G	2	BLCA
NIPBL	0	.	GRCh37	5	37024740	37024740	+	Silent	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5628T>C	p.%3D	p.C1876C	ENST00000282516	30/47	159	149	10	107	107	0	NIPBL,synonymous_variant,p.%3D,ENST00000448238,;NIPBL,synonymous_variant,p.%3D,ENST00000282516,;	C	ENSG00000164190	ENST00000282516	Transcript	synonymous_variant	6127	5628	1876	C	tgT/tgC	.	.	.	1	NIPBL	HGNC	28862	protein_coding	YES	CCDS3920.1	ENSP00000282516	NIPBL_HUMAN	A2RRA7_HUMAN	UPI00003761B5	.	.	.	30/47	.	hmmpanther:PTHR21704,hmmpanther:PTHR21704:SF18,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ATTTGTATTGA	.	2	BLCA
C5orf34	0	.	GRCh37	5	43509453	43509453	+	5'UTR	SNP	G	G	T	rs772822653	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-12C>A	.	.	ENST00000306862	2/13	39	33	6	26	26	0	C5orf34,5_prime_UTR_variant,,ENST00000306862,;C5orf34,intron_variant,,ENST00000509489,;RP11-159F24.3,non_coding_transcript_exon_variant,,ENST00000505645,;RP11-159F24.6,upstream_gene_variant,,ENST00000512498,;C5orf34,intron_variant,,ENST00000514462,;C5orf34,upstream_gene_variant,,ENST00000503655,;	T	ENSG00000172244	ENST00000306862	Transcript	5_prime_UTR_variant	365	.	.	.	.	rs772822653	.	.	-1	C5orf34	HGNC	24738	protein_coding	YES	CCDS3946.1	ENSP00000303490	CE034_HUMAN	E9PBC3_HUMAN,B4E0D7_HUMAN	UPI000013EB9E	.	.	.	2/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCAGGATAAG	byFrequency	2	BLCA
EXOC3	0	.	GRCh37	5	458068	458068	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1218G>A	p.Trp406Ter	p.W406*	ENST00000512944	6/13	40	37	3	31	31	0	EXOC3,stop_gained,p.Trp406Ter,ENST00000315013,;EXOC3,stop_gained,p.Trp406Ter,ENST00000512944,;EXOC3,stop_gained,p.Trp276Ter,ENST00000503889,;EXOC3,non_coding_transcript_exon_variant,,ENST00000510028,;EXOC3,intron_variant,,ENST00000515601,;EXOC3,upstream_gene_variant,,ENST00000511015,;	A	ENSG00000180104	ENST00000512944	Transcript	stop_gained	1407	1218	406	W/*	tgG/tgA	.	.	.	1	EXOC3	HGNC	30378	protein_coding	YES	CCDS54830.1	ENSP00000425587	EXOC3_HUMAN	Q69YP2_HUMAN,D6RBR9_HUMAN,B2RE06_HUMAN	UPI000004A021	.	.	.	6/13	.	hmmpanther:PTHR21292:SF13,hmmpanther:PTHR21292,Pfam_domain:PF06046	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACTGGGTCAA	.	3	BLCA
SLC9A3	0	.	GRCh37	5	475206	475206	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2293C>T	p.Arg765Cys	p.R765C	ENST00000264938	16/17	60	48	12	67	67	0	SLC9A3,missense_variant,p.Arg756Cys,ENST00000514375,;SLC9A3,missense_variant,p.Arg765Cys,ENST00000264938,;CTD-2228K2.5,upstream_gene_variant,,ENST00000510604,;CTD-2228K2.5,upstream_gene_variant,,ENST00000342584,;CTD-2228K2.7,intron_variant,,ENST00000607286,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606288,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606319,;CTD-2228K2.7,upstream_gene_variant,,ENST00000607005,;CTD-2228K2.7,upstream_gene_variant,,ENST00000431004,;CTD-2228K2.5,upstream_gene_variant,,ENST00000510714,;EXOC3,downstream_gene_variant,,ENST00000509294,;CTD-2228K2.5,upstream_gene_variant,,ENST00000502511,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606107,;EXOC3,downstream_gene_variant,,ENST00000515601,;EXOC3,downstream_gene_variant,,ENST00000503889,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606074,;CTD-2228K2.7,upstream_gene_variant,,ENST00000534918,;SLC9A3,downstream_gene_variant,,ENST00000507407,;	A	ENSG00000066230	ENST00000264938	Transcript	missense_variant	2303	2293	765	R/C	Cgc/Tgc	.	.	.	-1	SLC9A3	HGNC	11073	protein_coding	YES	CCDS3855.1	ENSP00000264938	SL9A3_HUMAN	.	UPI000013D597	.	tolerated(0.05)	benign(0.247)	16/17	.	hmmpanther:PTHR10110:SF90,hmmpanther:PTHR10110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGCGGTCCA	.	5	BLCA
ANKRD55	0	.	GRCh37	5	55407266	55407266	+	Missense_Mutation	SNP	G	G	C	rs747188125	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1309C>G	p.Leu437Val	p.L437V	ENST00000341048	10/12	81	68	13	73	73	0	ANKRD55,missense_variant,p.Leu149Val,ENST00000434982,;ANKRD55,missense_variant,p.Leu437Val,ENST00000341048,;ANKRD55,missense_variant,p.Leu394Val,ENST00000504958,;ANKRD55,downstream_gene_variant,,ENST00000505970,;	C	ENSG00000164512	ENST00000341048	Transcript	missense_variant	1461	1309	437	L/V	Ctc/Gtc	rs747188125	.	.	-1	ANKRD55	HGNC	25681	protein_coding	YES	CCDS34161.1	ENSP00000342295	ANR55_HUMAN	.	UPI00004572EF	.	deleterious_low_confidence(0)	possibly_damaging(0.709)	10/12	.	hmmpanther:PTHR24158:SF21,hmmpanther:PTHR24158	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGAGACTCT	.	5	BLCA
MAP3K1	0	.	GRCh37	5	56176987	56176987	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2257G>C	p.Glu753Gln	p.E753Q	ENST00000399503	13/20	61	46	15	69	69	0	MAP3K1,missense_variant,p.Glu753Gln,ENST00000399503,;MAP3K1,upstream_gene_variant,,ENST00000469188,;	C	ENSG00000095015	ENST00000399503	Transcript	missense_variant	2257	2257	753	E/Q	Gaa/Caa	.	.	.	1	MAP3K1	HGNC	6848	protein_coding	YES	CCDS43318.1	ENSP00000382423	M3K1_HUMAN	.	UPI000015153B	.	tolerated(0.32)	benign(0.135)	13/20	.	hmmpanther:PTHR24361:SF255,hmmpanther:PTHR24361,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAAGAACTT	.	5	BLCA
RAD17	0	.	GRCh37	5	68689209	68689209	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1337G>C	p.Gly446Ala	p.G446A	ENST00000509734	14/18	60	49	11	55	55	0	RAD17,missense_variant,p.Gly270Ala,ENST00000358030,;RAD17,missense_variant,p.Gly435Ala,ENST00000354868,;RAD17,missense_variant,p.Gly349Ala,ENST00000282891,;RAD17,missense_variant,p.Gly435Ala,ENST00000354312,;RAD17,missense_variant,p.Gly446Ala,ENST00000509734,;RAD17,missense_variant,p.Gly435Ala,ENST00000361732,;RAD17,missense_variant,p.Gly54Ala,ENST00000513214,;RAD17,missense_variant,p.Gly446Ala,ENST00000380774,;RAD17,missense_variant,p.Gly435Ala,ENST00000345306,;RAD17,missense_variant,p.Gly270Ala,ENST00000521422,;RAD17,missense_variant,p.Gly435Ala,ENST00000305138,;RAD17,intron_variant,,ENST00000504177,;RAD17,downstream_gene_variant,,ENST00000514626,;RAD17,3_prime_UTR_variant,,ENST00000508320,;	C	ENSG00000152942	ENST00000509734	Transcript	missense_variant	2015	1337	446	G/A	gGa/gCa	.	.	.	1	RAD17	HGNC	9807	protein_coding	YES	CCDS4003.1	ENSP00000426191	RAD17_HUMAN	D6RHU1_HUMAN	UPI000013DD06	.	tolerated(0.08)	benign(0.077)	14/18	.	hmmpanther:PTHR12172,TIGRFAM_domain:TIGR00602,Pfam_domain:PF03215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTGGAGACT	.	5	BLCA
ARSB	0	.	GRCh37	5	78076469	78076469	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1353C>A	p.Phe451Leu	p.F451L	ENST00000264914	8/8	15	7	8	23	22	1	ARSB,missense_variant,p.Phe451Leu,ENST00000264914,;ARSB,non_coding_transcript_exon_variant,,ENST00000521011,;	T	ENSG00000113273	ENST00000264914	Transcript	missense_variant	1890	1353	451	F/L	ttC/ttA	.	.	.	-1	ARSB	HGNC	714	protein_coding	YES	CCDS4043.1	ENSP00000264914	ARSB_HUMAN	E5RHC4_HUMAN	UPI00001260A3	.	tolerated(0.21)	benign(0.052)	8/8	.	hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF206,Gene3D:3.30.1120.10,Superfamily_domains:SSF53649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGAGGGAACCA	.	2	BLCA
DMGDH	0	.	GRCh37	5	78324319	78324319	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1969C>G	p.Leu657Val	p.L657V	ENST00000255189	12/16	98	67	31	112	111	0	DMGDH,missense_variant,p.Leu496Val,ENST00000523732,;DMGDH,missense_variant,p.Leu456Val,ENST00000380311,;DMGDH,missense_variant,p.Leu277Val,ENST00000540686,;DMGDH,missense_variant,p.Leu657Val,ENST00000255189,;DMGDH,non_coding_transcript_exon_variant,,ENST00000523201,;DMGDH,3_prime_UTR_variant,,ENST00000518477,;DMGDH,3_prime_UTR_variant,,ENST00000517853,;	C	ENSG00000132837	ENST00000255189	Transcript	missense_variant	1998	1969	657	L/V	Ctt/Gtt	COSM141108	.	.	-1	DMGDH	HGNC	24475	protein_coding	YES	CCDS4044.1	ENSP00000255189	M2GD_HUMAN	.	UPI000013CE96	.	deleterious(0.01)	possibly_damaging(0.733)	12/16	.	Gene3D:3.30.1360.120,Pfam_domain:PF01571,Superfamily_domains:SSF103025	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGAAACT	.	5	BLCA
BHMT2	0	.	GRCh37	5	78378752	78378752	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571G>A	p.Glu191Lys	p.E191K	ENST00000255192	5/8	148	119	29	183	183	0	BHMT2,missense_variant,p.Glu127Lys,ENST00000521567,;BHMT2,missense_variant,p.Glu191Lys,ENST00000255192,;BHMT2,downstream_gene_variant,,ENST00000518666,;DMGDH,intron_variant,,ENST00000520388,;BHMT2,3_prime_UTR_variant,,ENST00000519743,;BHMT2,non_coding_transcript_exon_variant,,ENST00000523046,;BHMT2,downstream_gene_variant,,ENST00000523472,;BHMT2,downstream_gene_variant,,ENST00000518758,;	A	ENSG00000132840	ENST00000255192	Transcript	missense_variant	637	571	191	E/K	Gaa/Aaa	COSM169627	.	.	1	BHMT2	HGNC	1048	protein_coding	YES	CCDS4045.1	ENSP00000255192	BHMT2_HUMAN	E5RH96_HUMAN	UPI00000701B9	.	deleterious(0)	benign(0.023)	5/8	.	PROSITE_profiles:PS50970,hmmpanther:PTHR21091,hmmpanther:PTHR21091:SF94,Gene3D:3.20.20.330,Pfam_domain:PF02574,PIRSF_domain:PIRSF037505,Superfamily_domains:SSF82282	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E191*|c.571G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGAGAATGT	.	5	BLCA
MTRR	0	.	GRCh37	5	7883293	7883293	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.887C>T	p.Ser296Leu	p.S296L	ENST00000264668	6/15	121	111	10	88	88	0	MTRR,missense_variant,p.Ser269Leu,ENST00000440940,;MTRR,missense_variant,p.Ser296Leu,ENST00000264668,;MTRR,3_prime_UTR_variant,,ENST00000341013,;MTRR,downstream_gene_variant,,ENST00000514220,;MTRR,upstream_gene_variant,,ENST00000509961,;MTRR,upstream_gene_variant,,ENST00000508101,;MTRR,missense_variant,p.Ser278Leu,ENST00000510525,;MTRR,3_prime_UTR_variant,,ENST00000514369,;MTRR,3_prime_UTR_variant,,ENST00000513439,;MTRR,3_prime_UTR_variant,,ENST00000511461,;MTRR,upstream_gene_variant,,ENST00000512311,;	T	ENSG00000124275	ENST00000264668	Transcript	missense_variant	917	887	296	S/L	tCa/tTa	.	.	.	1	MTRR	HGNC	7473	protein_coding	YES	CCDS3874.1	ENSP00000264668	MTRR_HUMAN	D6RIS8_HUMAN,D6RGC7_HUMAN,D6RAZ2_HUMAN	UPI000013D550	.	deleterious(0.04)	benign(0.134)	6/15	.	hmmpanther:PTHR19384:SF65,hmmpanther:PTHR19384,Gene3D:2.40.30.10,Pfam_domain:PF00667,Superfamily_domains:SSF63380	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GACTTCAGCAG	.	3	BLCA
CMYA5	0	.	GRCh37	5	79031690	79031690	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7102A>G	p.Ser2368Gly	p.S2368G	ENST00000446378	2/13	41	31	10	38	38	0	CMYA5,missense_variant,p.Ser2368Gly,ENST00000446378,;CMYA5,upstream_gene_variant,,ENST00000506603,;	G	ENSG00000164309	ENST00000446378	Transcript	missense_variant	7133	7102	2368	S/G	Agt/Ggt	.	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	possibly_damaging(0.899)	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGAAGTGAT	.	5	BLCA
CMYA5	0	.	GRCh37	5	79033511	79033511	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8923G>C	p.Asp2975His	p.D2975H	ENST00000446378	2/13	32	22	10	31	31	0	CMYA5,missense_variant,p.Asp2975His,ENST00000446378,;CMYA5,upstream_gene_variant,,ENST00000506603,;	C	ENSG00000164309	ENST00000446378	Transcript	missense_variant	8954	8923	2975	D/H	Gat/Cat	.	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	probably_damaging(0.957)	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCAAGATAAA	.	5	BLCA
GPR98	0	.	GRCh37	5	90074819	90074819	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12987G>A	p.Met4329Ile	p.M4329I	ENST00000405460	64/90	48	42	6	66	66	0	GPR98,missense_variant,p.Met4329Ile,ENST00000405460,;GPR98,upstream_gene_variant,,ENST00000425867,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	13083	12987	4329	M/I	atG/atA	.	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	benign(0.001)	64/90	.	Superfamily_domains:SSF141072,SMART_domains:SM00237,Pfam_domain:PF03160,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GAGATGAGGAA	.	2	BLCA
PAK1IP1	0	.	GRCh37	6	10702655	10702655	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.301G>A	p.Glu101Lys	p.E101K	ENST00000379568	3/10	88	50	38	74	74	0	PAK1IP1,missense_variant,p.Glu101Lys,ENST00000379568,;	A	ENSG00000111845	ENST00000379568	Transcript	missense_variant	592	301	101	E/K	Gaa/Aaa	.	.	.	1	PAK1IP1	HGNC	20882	protein_coding	YES	CCDS34339.1	ENSP00000368887	PK1IP_HUMAN	.	UPI000013CB73	.	deleterious(0.03)	possibly_damaging(0.718)	3/10	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF345,PROSITE_patterns:PS00678,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978,Prints_domain:PR00320	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCGGAAGAT	.	5	BLCA
SNX3	0	.	GRCh37	6	108533400	108533400	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442G>A	p.Glu148Lys	p.E148K	ENST00000230085	4/4	32	25	6	47	47	0	SNX3,missense_variant,p.Glu126Lys,ENST00000349379,;SNX3,missense_variant,p.Glu148Lys,ENST00000230085,;SNX3,missense_variant,p.Glu116Lys,ENST00000426155,;SNX3,3_prime_UTR_variant,,ENST00000368979,;	T	ENSG00000112335	ENST00000230085	Transcript	missense_variant	781	442	148	E/K	Gaa/Aaa	.	.	.	-1	SNX3	HGNC	11174	protein_coding	YES	CCDS5064.1	ENSP00000230085	SNX3_HUMAN	.	UPI00000013A7	.	tolerated(0.13)	benign(0.042)	4/4	.	PROSITE_profiles:PS50195,hmmpanther:PTHR10555,hmmpanther:PTHR10555:SF72,Gene3D:3.30.1520.10,SMART_domains:SM00312	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTTCATCTT	.	5	BLCA
FOXQ1	0	.	GRCh37	6	1313436	1313436	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.497C>T	p.Ser166Phe	p.S166F	ENST00000296839	1/1	51	39	11	59	59	0	FOXQ1,missense_variant,p.Ser166Phe,ENST00000296839,;	T	ENSG00000164379	ENST00000296839	Transcript	missense_variant	762	497	166	S/F	tCc/tTc	.	.	.	1	FOXQ1	HGNC	20951	protein_coding	YES	CCDS4471.1	ENSP00000296839	FOXQ1_HUMAN	.	UPI000013E397	.	deleterious(0)	probably_damaging(0.998)	1/1	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829:SF60,hmmpanther:PTHR11829,PROSITE_patterns:PS00658,Gene3D:1.10.10.10,Pfam_domain:PF00250,SMART_domains:SM00339,Superfamily_domains:SSF46785,Prints_domain:PR00053	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCCGTGC	.	5	BLCA
CCDC28A	0	.	GRCh37	6	139101061	139101061	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531G>A	p.%3D	p.E177E	ENST00000332797	3/6	77	70	7	90	90	0	CCDC28A,synonymous_variant,p.%3D,ENST00000332797,;	A	ENSG00000024862	ENST00000332797	Transcript	synonymous_variant	686	531	177	E	gaG/gaA	.	.	.	1	CCDC28A	HGNC	21098	protein_coding	YES	CCDS5192.1	ENSP00000332716	CC28A_HUMAN	B4DUJ5_HUMAN	UPI0000049DA5	.	.	.	3/6	.	hmmpanther:PTHR13400,hmmpanther:PTHR13400:SF3,Pfam_domain:PF13270	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGGAGATGGA	.	3	BLCA
ECT2L	0	.	GRCh37	6	139135700	139135700	+	Silent	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.139T>C	p.%3D	p.L47L	ENST00000423192	3/21	34	19	15	35	35	0	ECT2L,synonymous_variant,p.%3D,ENST00000367682,;ECT2L,synonymous_variant,p.%3D,ENST00000401414,;ECT2L,synonymous_variant,p.%3D,ENST00000423192,;ECT2L,5_prime_UTR_variant,,ENST00000541398,;	C	ENSG00000203734	ENST00000423192	Transcript	synonymous_variant	300	139	47	L	Tta/Cta	.	.	.	1	ECT2L	HGNC	21118	protein_coding	YES	CCDS43508.1	ENSP00000387388	ECT2L_HUMAN	B7ZBI6_HUMAN	UPI0000E86804	.	.	.	3/21	.	hmmpanther:PTHR12673:SF70,hmmpanther:PTHR12673	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTCTTATTC	.	5	BLCA
RAB32	0	.	GRCh37	6	146875732	146875732	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669G>A	p.%3D	p.Q223Q	ENST00000367495	3/3	90	68	22	97	97	0	RAB32,synonymous_variant,p.%3D,ENST00000367495,;	A	ENSG00000118508	ENST00000367495	Transcript	synonymous_variant	848	669	223	Q	caG/caA	.	.	.	1	RAB32	HGNC	9772	protein_coding	YES	CCDS5210.1	ENSP00000356465	RAB32_HUMAN	.	UPI000000126A	.	.	.	3/3	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073:SF440,hmmpanther:PTHR24073,Gene3D:3.40.50.300,SMART_domains:SM00176	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCAGTGTTG	.	5	BLCA
ARID1B	0	.	GRCh37	6	157528724	157528724	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6449C>T	p.Ala2150Val	p.A2150V	ENST00000346085	20/20	143	66	77	172	172	0	ARID1B,missense_variant,p.Ala2190Val,ENST00000367148,;ARID1B,missense_variant,p.Ala2137Val,ENST00000350026,;ARID1B,missense_variant,p.Ala1659Val,ENST00000414678,;ARID1B,missense_variant,p.Ala2132Val,ENST00000275248,;ARID1B,missense_variant,p.Ala2150Val,ENST00000346085,;	T	ENSG00000049618	ENST00000346085	Transcript	missense_variant	6450	6449	2150	A/V	gCt/gTt	.	.	.	1	ARID1B	HGNC	18040	protein_coding	YES	CCDS55072.1	ENSP00000344546	ARI1B_HUMAN	.	UPI000058E4B2	.	.	probably_damaging(0.994)	20/20	.	hmmpanther:PTHR12656:SF11,hmmpanther:PTHR12656,Gene3D:1.25.10.10,Pfam_domain:PF12031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATAGCTGTGC	.	5	BLCA
HIST1H2AD	0	.	GRCh37	6	26199227	26199227	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.245G>A	p.Arg82Gln	p.R82Q	ENST00000341023	1/1	127	111	15	151	151	0	HIST1H2AD,missense_variant,p.Arg82Gln,ENST00000341023,;HIST1H3D,5_prime_UTR_variant,,ENST00000377831,;HIST1H2BF,upstream_gene_variant,,ENST00000359985,;HIST1H3D,upstream_gene_variant,,ENST00000356476,;HIST1H1PS1,downstream_gene_variant,,ENST00000404269,;RP1-34B20.4,upstream_gene_variant,,ENST00000405418,;	T	ENSG00000196866	ENST00000341023	Transcript	missense_variant	245	245	82	R/Q	cGa/cAa	.	.	.	-1	HIST1H2AD	HGNC	4729	protein_coding	YES	CCDS4591.1	ENSP00000341094	H2A1D_HUMAN	.	UPI0000001C04	.	deleterious_low_confidence(0)	probably_damaging(0.99)	1/1	.	hmmpanther:PTHR23430:SF24,hmmpanther:PTHR23430,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00414,Superfamily_domains:SSF47113,Prints_domain:PR00620	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTGTCGGGGG	.	4	BLCA
HIST1H2BI	0	.	GRCh37	6	26273276	26273276	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73A>C	p.Lys25Gln	p.K25Q	ENST00000377733	1/1	179	162	17	210	210	0	HIST1H2BI,missense_variant,p.Lys25Gln,ENST00000377733,;HIST1H3G,upstream_gene_variant,,ENST00000305910,;HIST1H2APS4,upstream_gene_variant,,ENST00000362070,;	C	ENSG00000168242	ENST00000377733	Transcript	missense_variant	133	73	25	K/Q	Aag/Cag	.	.	.	1	HIST1H2BI	HGNC	4756	protein_coding	YES	CCDS4603.1	ENSP00000366962	H2B1C_HUMAN	B2R4S9_HUMAN	UPI0000000C24	.	deleterious_low_confidence(0.02)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF47113,Gene3D:1.10.20.10,hmmpanther:PTHR23428	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAAGAAGGAT	.	4	BLCA
HIST1H2AK	0	.	GRCh37	6	27805804	27805804	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314A>C	p.Gln105Pro	p.Q105P	ENST00000330180	1/1	144	116	28	139	139	0	HIST1H2AK,missense_variant,p.Gln105Pro,ENST00000330180,;HIST1H2BN,upstream_gene_variant,,ENST00000396980,;HIST1H2BN,upstream_gene_variant,,ENST00000606613,;HIST1H2BN,upstream_gene_variant,,ENST00000449538,;	G	ENSG00000184348	ENST00000330180	Transcript	missense_variant	314	314	105	Q/P	cAg/cCg	COSM1496320	.	.	-1	HIST1H2AK	HGNC	4726	protein_coding	YES	CCDS4632.1	ENSP00000330307	H2A1_HUMAN	A4FTV9_HUMAN,A3KPC7_HUMAN	UPI0000000E01	.	deleterious_low_confidence(0)	probably_damaging(0.995)	1/1	.	hmmpanther:PTHR23430,hmmpanther:PTHR23430:SF24,Gene3D:1.10.20.10,SMART_domains:SM00414,Superfamily_domains:SSF47113,Prints_domain:PR00620	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCCTGGGCG	.	5	BLCA
HIST1H2AL	0	.	GRCh37	6	27833190	27833200	+	Frame_Shift_Del	DEL	TCTCGTGCCGG	TCTCGTGCCGG	-	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	TCTCGTGCCGG	TCTCGTGCCGG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.62_72delGTGCCGGTCTC	p.Arg21ProfsTer18	p.R21Pfs*18	ENST00000357320	1/1	86	75	11	108	108	0	HIST1H2AL,frameshift_variant,p.Arg21ProfsTer18,ENST00000357320,;HIST1H1B,downstream_gene_variant,,ENST00000331442,;HIST1H2BPS2,upstream_gene_variant,,ENST00000402707,;	-	ENSG00000198374	ENST00000357320	Transcript	frameshift_variant	157-167	58-68	20-23	SRAG/X	TCTCGTGCCGGt/t	.	.	.	1	HIST1H2AL	HGNC	4730	protein_coding	YES	CCDS4634.1	ENSP00000349873	H2A1_HUMAN	A4FTV9_HUMAN,A3KPC7_HUMAN	UPI0000000E01	.	.	.	1/1	.	Prints_domain:PR00620,Superfamily_domains:SSF47113,SMART_domains:SM00414,Pfam_domain:PF00125,Gene3D:1.10.20.10,PROSITE_patterns:PS00046,hmmpanther:PTHR23430:SF24,hmmpanther:PTHR23430,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CGCTCTTCTCGTGCCGGTCTCC	.	3	BLCA
HIST1H1B	0	.	GRCh37	6	27834714	27834714	+	Silent	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.594G>A	p.%3D	p.P198P	ENST00000331442	1/1	126	91	34	119	119	0	HIST1H1B,synonymous_variant,p.%3D,ENST00000331442,;HIST1H2AL,downstream_gene_variant,,ENST00000357320,;HIST1H3I,downstream_gene_variant,,ENST00000328488,;HIST1H2BPS2,upstream_gene_variant,,ENST00000402707,;	T	ENSG00000184357	ENST00000331442	Transcript	synonymous_variant	646	594	198	P	ccG/ccA	COSM128161	.	.	-1	HIST1H1B	HGNC	4719	protein_coding	YES	CCDS4635.1	ENSP00000330074	H15_HUMAN	.	UPI0000001BDA	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11467:SF24,hmmpanther:PTHR11467,Prints_domain:PR00624	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTCGGCTT	.	5	BLCA
OR11A1	0	.	GRCh37	6	29395176	29395176	+	Silent	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243A>G	p.%3D	p.P81P	ENST00000377149	5/5	43	29	14	39	39	0	OR11A1,synonymous_variant,p.%3D,ENST00000377149,;OR11A1,synonymous_variant,p.%3D,ENST00000377148,;OR11A1,synonymous_variant,p.%3D,ENST00000377147,;OR5V1,intron_variant,,ENST00000377154,;	C	ENSG00000204694	ENST00000377149	Transcript	synonymous_variant	716	243	81	P	ccA/ccG	.	.	.	-1	OR11A1	HGNC	8176	protein_coding	YES	CCDS34363.1	ENSP00000366354	O11A1_HUMAN	.	UPI000000DCA8	.	.	.	5/5	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24242:SF178,hmmpanther:PTHR24242,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTTGGCAT	.	5	BLCA
PPP1R10	0	.	GRCh37	6	30569745	30569745	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2681G>A	p.Arg894Gln	p.R894Q	ENST00000376511	19/20	19	14	5	20	20	0	PPP1R10,missense_variant,p.Arg894Gln,ENST00000376511,;PPP1R10,downstream_gene_variant,,ENST00000468181,;PPP1R10,downstream_gene_variant,,ENST00000461593,;PPP1R10,downstream_gene_variant,,ENST00000496955,;PPP1R10,downstream_gene_variant,,ENST00000476704,;ABCF1,downstream_gene_variant,,ENST00000475993,;	T	ENSG00000204569	ENST00000376511	Transcript	missense_variant	3234	2681	894	R/Q	cGa/cAa	.	.	.	-1	PPP1R10	HGNC	9284	protein_coding	YES	CCDS4681.1	ENSP00000365694	PP1RA_HUMAN	Q2L6I0_HUMAN	UPI000000D73C	.	tolerated_low_confidence(0.07)	unknown(0)	19/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12506	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCGGTGG	.	5	BLCA
TUBB2A	0	.	GRCh37	6	3155942	3155942	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.194T>C	p.Leu65Pro	p.L65P	ENST00000333628	3/4	64	50	14	61	61	0	TUBB2A,missense_variant,p.Leu65Pro,ENST00000333628,;BPHL,downstream_gene_variant,,ENST00000380368,;BPHL,downstream_gene_variant,,ENST00000380379,;BPHL,downstream_gene_variant,,ENST00000423798,;BPHL,downstream_gene_variant,,ENST00000380375,;BPHL,downstream_gene_variant,,ENST00000434640,;RP1-40E16.11,upstream_gene_variant,,ENST00000447644,;TUBB2A,non_coding_transcript_exon_variant,,ENST00000489942,;BPHL,downstream_gene_variant,,ENST00000464040,;BPHL,downstream_gene_variant,,ENST00000490918,;BPHL,downstream_gene_variant,,ENST00000488487,;BPHL,downstream_gene_variant,,ENST00000424847,;BPHL,downstream_gene_variant,,ENST00000430655,;BPHL,downstream_gene_variant,,ENST00000433912,;	G	ENSG00000137267	ENST00000333628	Transcript	missense_variant	257	194	65	L/P	cTg/cCg	.	.	.	-1	TUBB2A	HGNC	12412	protein_coding	YES	CCDS4484.1	ENSP00000369703	TBB2A_HUMAN	.	UPI000000DC98	.	deleterious_low_confidence(0)	probably_damaging(0.992)	3/4	.	hmmpanther:PTHR11588:SF56,hmmpanther:PTHR11588,Pfam_domain:PF00091,Gene3D:3.40.50.1440,SMART_domains:SM00864,Superfamily_domains:SSF52490,Prints_domain:PR01161	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACCAGGATG	.	5	BLCA
TAF11	0	.	GRCh37	6	34855709	34855709	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.26C>G	p.Ser9Cys	p.S9C	ENST00000361288	1/5	120	105	15	127	127	0	TAF11,missense_variant,p.Ser9Cys,ENST00000420584,;TAF11,missense_variant,p.Ser9Cys,ENST00000361288,;ANKS1A,upstream_gene_variant,,ENST00000535627,;ANKS1A,upstream_gene_variant,,ENST00000360359,;UHRF1BP1,downstream_gene_variant,,ENST00000452449,;	C	ENSG00000064995	ENST00000361288	Transcript	missense_variant	158	26	9	S/C	tCc/tGc	.	.	.	-1	TAF11	HGNC	11544	protein_coding	YES	CCDS4797.1	ENSP00000354633	TAF11_HUMAN	.	UPI000000106D	.	tolerated(0.07)	benign(0.155)	1/5	.	hmmpanther:PTHR13218	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCGGAGGGC	.	4	BLCA
UBR2	0	.	GRCh37	6	42637841	42637841	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3893C>T	p.Ser1298Phe	p.S1298F	ENST00000372899	35/47	71	63	8	57	57	0	UBR2,missense_variant,p.Ser1298Phe,ENST00000372901,;UBR2,missense_variant,p.Ser1298Phe,ENST00000372899,;UBR2,3_prime_UTR_variant,,ENST00000372883,;	T	ENSG00000024048	ENST00000372899	Transcript	missense_variant	4151	3893	1298	S/F	tCt/tTt	.	.	.	1	UBR2	HGNC	21289	protein_coding	YES	CCDS4870.1	ENSP00000361990	UBR2_HUMAN	B3KXG6_HUMAN	UPI0000074466	.	deleterious(0)	probably_damaging(0.957)	35/47	.	hmmpanther:PTHR21497,hmmpanther:PTHR21497:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTATTCTGAGA	.	4	BLCA
UBR2	0	.	GRCh37	6	42638415	42638415	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4048G>A	p.Glu1350Lys	p.E1350K	ENST00000372899	36/47	104	94	10	88	88	0	UBR2,missense_variant,p.Glu1350Lys,ENST00000372901,;UBR2,missense_variant,p.Glu1350Lys,ENST00000372899,;UBR2,3_prime_UTR_variant,,ENST00000372883,;	A	ENSG00000024048	ENST00000372899	Transcript	missense_variant	4306	4048	1350	E/K	Gaa/Aaa	.	.	.	1	UBR2	HGNC	21289	protein_coding	YES	CCDS4870.1	ENSP00000361990	UBR2_HUMAN	B3KXG6_HUMAN	UPI0000074466	.	deleterious(0.01)	benign(0.248)	36/47	.	hmmpanther:PTHR21497,hmmpanther:PTHR21497:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGATGAAGAT	.	3	BLCA
MEA1	0	.	GRCh37	6	42981002	42981002	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154G>A	p.Glu52Lys	p.E52K	ENST00000244711	2/4	179	168	11	157	157	0	MEA1,missense_variant,p.Glu52Lys,ENST00000244711,;PPP2R5D,downstream_gene_variant,,ENST00000461010,;PPP2R5D,downstream_gene_variant,,ENST00000486843,;KLHDC3,upstream_gene_variant,,ENST00000326974,;PPP2R5D,downstream_gene_variant,,ENST00000485511,;PPP2R5D,downstream_gene_variant,,ENST00000394110,;PPP2R5D,downstream_gene_variant,,ENST00000470467,;KLHDC3,upstream_gene_variant,,ENST00000332245,;PPP2R5D,downstream_gene_variant,,ENST00000472118,;KLHDC3,upstream_gene_variant,,ENST00000244670,;PPP2R5D,downstream_gene_variant,,ENST00000230402,;PPP2R5D,downstream_gene_variant,,ENST00000482315,;	T	ENSG00000124733	ENST00000244711	Transcript	missense_variant	309	154	52	E/K	Gag/Aag	.	.	.	-1	MEA1	HGNC	6986	protein_coding	YES	CCDS4879.1	ENSP00000244711	MEA1_HUMAN	.	UPI000007291B	.	deleterious(0.03)	possibly_damaging(0.828)	2/4	.	Pfam_domain:PF06910,hmmpanther:PTHR17005:SF2,hmmpanther:PTHR17005,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCACTGC	.	2	BLCA
GPR116	0	.	GRCh37	6	46825935	46825935	+	Silent	SNP	A	A	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3705T>C	p.%3D	p.G1235G	ENST00000283296	17/21	87	77	10	80	80	0	GPR116,synonymous_variant,p.%3D,ENST00000545669,;GPR116,synonymous_variant,p.%3D,ENST00000265417,;GPR116,synonymous_variant,p.%3D,ENST00000456426,;GPR116,synonymous_variant,p.%3D,ENST00000283296,;GPR116,synonymous_variant,p.%3D,ENST00000362015,;GPR116,downstream_gene_variant,,ENST00000498632,;	G	ENSG00000069122	ENST00000283296	Transcript	synonymous_variant	3994	3705	1235	G	ggT/ggC	.	.	.	-1	GPR116	HGNC	19030	protein_coding	YES	CCDS4919.1	ENSP00000283296	GP116_HUMAN	.	UPI000007075A	.	.	.	17/21	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF272,Pfam_domain:PF00002,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAGACCAAA	.	4	BLCA
GCLC	0	.	GRCh37	6	53363712	53363712	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1756G>C	p.Asp586His	p.D586H	ENST00000229416	16/16	180	155	25	152	152	0	GCLC,missense_variant,p.Asp586His,ENST00000229416,;RP1-27K12.4,upstream_gene_variant,,ENST00000508884,;GCLC,non_coding_transcript_exon_variant,,ENST00000515580,;GCLC,non_coding_transcript_exon_variant,,ENST00000510837,;GCLC,non_coding_transcript_exon_variant,,ENST00000509541,;GCLC,downstream_gene_variant,,ENST00000504353,;	G	ENSG00000001084	ENST00000229416	Transcript	missense_variant	2240	1756	586	D/H	Gac/Cac	.	.	.	-1	GCLC	HGNC	4311	protein_coding	YES	CCDS4952.1	ENSP00000229416	GSH1_HUMAN	Q14TF0_HUMAN,D6R959_HUMAN,B4E2I4_HUMAN	UPI000000D970	.	tolerated(0.08)	benign(0.049)	16/16	.	hmmpanther:PTHR11164,hmmpanther:PTHR11164:SF0,Pfam_domain:PF03074,Superfamily_domains:SSF55931	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTAGTCAGGAT	.	4	BLCA
GCLC	0	.	GRCh37	6	53364903	53364903	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1642G>T	p.Asp548Tyr	p.D548Y	ENST00000229416	15/16	75	60	15	63	63	0	GCLC,missense_variant,p.Asp548Tyr,ENST00000229416,;RP1-27K12.4,upstream_gene_variant,,ENST00000508884,;GCLC,non_coding_transcript_exon_variant,,ENST00000515580,;GCLC,non_coding_transcript_exon_variant,,ENST00000510837,;GCLC,non_coding_transcript_exon_variant,,ENST00000509541,;GCLC,downstream_gene_variant,,ENST00000504353,;	A	ENSG00000001084	ENST00000229416	Transcript	missense_variant	2126	1642	548	D/Y	Gat/Tat	.	.	.	-1	GCLC	HGNC	4311	protein_coding	YES	CCDS4952.1	ENSP00000229416	GSH1_HUMAN	Q14TF0_HUMAN,D6R959_HUMAN,B4E2I4_HUMAN	UPI000000D970	.	deleterious(0)	probably_damaging(0.996)	15/16	.	hmmpanther:PTHR11164,hmmpanther:PTHR11164:SF0,Pfam_domain:PF03074,Superfamily_domains:SSF55931	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCCACTT	.	5	BLCA
IMPG1	0	.	GRCh37	6	76713635	76713635	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168G>T	p.Asp390Tyr	p.D390Y	ENST00000369950	11/17	37	29	7	55	55	0	IMPG1,missense_variant,p.Asp390Tyr,ENST00000369950,;IMPG1,3_prime_UTR_variant,,ENST00000369963,;	A	ENSG00000112706	ENST00000369950	Transcript	missense_variant	1358	1168	390	D/Y	Gac/Tac	.	.	.	-1	IMPG1	HGNC	6055	protein_coding	YES	CCDS4985.1	ENSP00000358966	IMPG1_HUMAN	H0UI08_HUMAN	UPI0000073F12	.	deleterious(0.01)	possibly_damaging(0.906)	11/17	.	hmmpanther:PTHR12199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTCAGGAC	.	5	BLCA
ZNF292	0	.	GRCh37	6	87971286	87971286	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7939G>A	p.Glu2647Lys	p.E2647K	ENST00000369577	8/8	18	14	4	14	14	0	ZNF292,missense_variant,p.Glu2647Lys,ENST00000369577,;ZNF292,missense_variant,p.Glu2642Lys,ENST00000339907,;ZNF292,downstream_gene_variant,,ENST00000496806,;	A	ENSG00000188994	ENST00000369577	Transcript	missense_variant	7982	7939	2647	E/K	Gaa/Aaa	.	.	.	1	ZNF292	HGNC	18410	protein_coding	YES	CCDS47457.1	ENSP00000358590	ZN292_HUMAN	Q6ZS01_HUMAN,Q6P495_HUMAN,Q3MN16_HUMAN	UPI000020D2CC	.	tolerated(0.11)	possibly_damaging(0.579)	8/8	.	hmmpanther:PTHR15507,hmmpanther:PTHR15507:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAAAGAAAGC	.	5	BLCA
SRRT	0	.	GRCh37	7	100483913	100483913	+	Missense_Mutation	SNP	C	C	T	rs372466447	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1504C>T	p.Arg502Trp	p.R502W	ENST00000347433	13/20	65	59	6	43	43	0	SRRT,missense_variant,p.Arg132Trp,ENST00000448764,;SRRT,missense_variant,p.Arg501Trp,ENST00000388793,;SRRT,missense_variant,p.Arg502Trp,ENST00000457580,;SRRT,missense_variant,p.Arg502Trp,ENST00000347433,;SRRT,missense_variant,p.Arg501Trp,ENST00000432932,;ACHE,downstream_gene_variant,,ENST00000241069,;ACHE,downstream_gene_variant,,ENST00000419336,;SRRT,downstream_gene_variant,,ENST00000431645,;ACHE,downstream_gene_variant,,ENST00000428317,;ACHE,downstream_gene_variant,,ENST00000426415,;ACHE,downstream_gene_variant,,ENST00000411582,;ACHE,downstream_gene_variant,,ENST00000430554,;ACHE,downstream_gene_variant,,ENST00000412389,;UFSP1,downstream_gene_variant,,ENST00000388761,;ACHE,downstream_gene_variant,,ENST00000302913,;SRRT,3_prime_UTR_variant,,ENST00000449389,;ACHE,downstream_gene_variant,,ENST00000442452,;SRRT,upstream_gene_variant,,ENST00000469602,;SRRT,downstream_gene_variant,,ENST00000448716,;SRRT,upstream_gene_variant,,ENST00000478693,;SRRT,downstream_gene_variant,,ENST00000474896,;SRRT,upstream_gene_variant,,ENST00000445337,;SRRT,downstream_gene_variant,,ENST00000466432,;ACHE,downstream_gene_variant,,ENST00000454485,;SRRT,upstream_gene_variant,,ENST00000477529,;SRRT,upstream_gene_variant,,ENST00000487311,;SRRT,downstream_gene_variant,,ENST00000460194,;ACHE,downstream_gene_variant,,ENST00000440755,;SRRT,downstream_gene_variant,,ENST00000423692,;	T	ENSG00000087087	ENST00000347433	Transcript	missense_variant	1662	1504	502	R/W	Cgg/Tgg	rs372466447	.	.	1	SRRT	HGNC	24101	protein_coding	YES	CCDS34709.1	ENSP00000314491	SRRT_HUMAN	.	UPI0000126098	.	deleterious(0)	possibly_damaging(0.756)	13/20	.	hmmpanther:PTHR13165,hmmpanther:PTHR13165:SF0	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGACCCGGCGC	byFrequency|byCluster	3	BLCA
NAPEPLD	0	.	GRCh37	7	102768981	102768981	+	Silent	SNP	G	G	C	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243C>G	p.%3D	p.L81L	ENST00000417955	2/5	140	125	15	108	108	0	NAPEPLD,synonymous_variant,p.%3D,ENST00000455523,;NAPEPLD,synonymous_variant,p.%3D,ENST00000418294,;NAPEPLD,synonymous_variant,p.%3D,ENST00000427257,;NAPEPLD,synonymous_variant,p.%3D,ENST00000465647,;NAPEPLD,synonymous_variant,p.%3D,ENST00000417955,;NAPEPLD,synonymous_variant,p.%3D,ENST00000341533,;NAPEPLD,downstream_gene_variant,,ENST00000425379,;NAPEPLD,synonymous_variant,p.%3D,ENST00000422589,;NAPEPLD,non_coding_transcript_exon_variant,,ENST00000479761,;	C	ENSG00000161048	ENST00000417955	Transcript	synonymous_variant	398	243	81	L	ctC/ctG	COSM1578283	.	.	-1	NAPEPLD	HGNC	21683	protein_coding	YES	CCDS5729.1	ENSP00000407112	NAPEP_HUMAN	C9JGB1_HUMAN	UPI00001D74C6	.	.	.	2/5	.	hmmpanther:PTHR15032,hmmpanther:PTHR15032:SF8,PIRSF_domain:PIRSF038896	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCTGAGAAC	.	4	BLCA
LAMB4	0	.	GRCh37	7	107703265	107703265	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3236C>T	p.Ser1079Leu	p.S1079L	ENST00000388781	23/34	35	19	16	41	41	0	LAMB4,missense_variant,p.Ser1079Leu,ENST00000388781,;LAMB4,missense_variant,p.Ser105Leu,ENST00000422975,;LAMB4,missense_variant,p.Ser1079Leu,ENST00000388780,;LAMB4,missense_variant,p.Ser1079Leu,ENST00000205386,;LAMB4,non_coding_transcript_exon_variant,,ENST00000471677,;LAMB4,non_coding_transcript_exon_variant,,ENST00000475469,;	A	ENSG00000091128	ENST00000388781	Transcript	missense_variant	3320	3236	1079	S/L	tCa/tTa	.	.	.	-1	LAMB4	HGNC	6491	protein_coding	YES	CCDS34732.1	ENSP00000373433	LAMB4_HUMAN	C9JM08_HUMAN	UPI0000198CD5	.	tolerated(0.48)	benign(0.001)	23/34	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF256,PROSITE_patterns:PS01248,Gene3D:2.10.25.10,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACATGACTGA	.	5	BLCA
TMEM209	0	.	GRCh37	7	129832606	129832606	+	Nonsense_Mutation	SNP	C	C	A	rs566596465	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631G>T	p.Glu211Ter	p.E211*	ENST00000397622	6/15	37	23	14	35	35	0	TMEM209,stop_gained,p.Glu210Ter,ENST00000336804,;TMEM209,stop_gained,p.Glu211Ter,ENST00000473456,;TMEM209,stop_gained,p.Glu211Ter,ENST00000397622,;TMEM209,stop_gained,p.Glu210Ter,ENST00000462753,;RP11-775D22.3,intron_variant,,ENST00000483283,;	A	ENSG00000146842	ENST00000397622	Transcript	stop_gained	754	631	211	E/*	Gag/Tag	rs566596465	.	.	-1	TMEM209	HGNC	21898	protein_coding	YES	CCDS47712.1	ENSP00000380747	TM209_HUMAN	C9J5K4_HUMAN	UPI000020FAA2	.	.	.	6/15	.	hmmpanther:PTHR21780:SF0,hmmpanther:PTHR21780,Pfam_domain:PF09786	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTCCACTG	by1000G	2	BLCA
TMEM209	0	.	GRCh37	7	129832614	129832614	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.623G>C	p.Gly208Ala	p.G208A	ENST00000397622	6/15	40	24	15	32	32	0	TMEM209,missense_variant,p.Gly207Ala,ENST00000336804,;TMEM209,missense_variant,p.Gly208Ala,ENST00000473456,;TMEM209,missense_variant,p.Gly208Ala,ENST00000397622,;TMEM209,missense_variant,p.Gly207Ala,ENST00000462753,;RP11-775D22.3,intron_variant,,ENST00000483283,;	G	ENSG00000146842	ENST00000397622	Transcript	missense_variant	746	623	208	G/A	gGa/gCa	COSM86760	.	.	-1	TMEM209	HGNC	21898	protein_coding	YES	CCDS47712.1	ENSP00000380747	TM209_HUMAN	C9J5K4_HUMAN	UPI000020FAA2	.	tolerated(0.18)	benign(0.262)	6/15	.	hmmpanther:PTHR21780:SF0,hmmpanther:PTHR21780,Pfam_domain:PF09786	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGGTCCAACA	.	3	BLCA
TMEM209	0	.	GRCh37	7	129841852	129841852	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411G>C	p.Gln137His	p.Q137H	ENST00000397622	5/15	55	47	7	49	49	0	TMEM209,missense_variant,p.Gln136His,ENST00000336804,;TMEM209,missense_variant,p.Gln137His,ENST00000473456,;TMEM209,missense_variant,p.Gln137His,ENST00000397622,;TMEM209,missense_variant,p.Gln180His,ENST00000471985,;TMEM209,missense_variant,p.Gln136His,ENST00000462753,;TMEM209,downstream_gene_variant,,ENST00000471077,;RP11-775D22.3,intron_variant,,ENST00000483283,;	G	ENSG00000146842	ENST00000397622	Transcript	missense_variant	534	411	137	Q/H	caG/caC	.	.	.	-1	TMEM209	HGNC	21898	protein_coding	YES	CCDS47712.1	ENSP00000380747	TM209_HUMAN	C9J5K4_HUMAN	UPI000020FAA2	.	tolerated(0.06)	probably_damaging(0.999)	5/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21780:SF0,hmmpanther:PTHR21780,Pfam_domain:PF09786	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTCTGACC	.	5	BLCA
CEP41	0	.	GRCh37	7	130039907	130039907	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.946G>A	p.Glu316Lys	p.E316K	ENST00000223208	10/11	154	118	36	114	114	0	CEP41,missense_variant,p.Glu316Lys,ENST00000223208,;CEP41,intron_variant,,ENST00000343969,;CEP41,intron_variant,,ENST00000541543,;CEP41,downstream_gene_variant,,ENST00000477003,;CEP41,downstream_gene_variant,,ENST00000492389,;CEP41,downstream_gene_variant,,ENST00000475282,;CEP41,downstream_gene_variant,,ENST00000472739,;CEP41,3_prime_UTR_variant,,ENST00000484549,;CEP41,non_coding_transcript_exon_variant,,ENST00000485736,;CEP41,non_coding_transcript_exon_variant,,ENST00000603513,;CEP41,downstream_gene_variant,,ENST00000471201,;CEP41,downstream_gene_variant,,ENST00000480206,;	T	ENSG00000106477	ENST00000223208	Transcript	missense_variant	1217	946	316	E/K	Gag/Aag	.	.	.	-1	CEP41	HGNC	12370	protein_coding	YES	CCDS5821.1	ENSP00000223208	CEP41_HUMAN	C9JXA0_HUMAN,C9J9X8_HUMAN,C9J6R3_HUMAN,C9IZ34_HUMAN	UPI000006D546	.	tolerated(0.12)	benign(0.035)	10/11	.	hmmpanther:PTHR13253,hmmpanther:PTHR13253:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTTCCA	.	5	BLCA
ZC3HAV1	0	.	GRCh37	7	138738728	138738728	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2301C>T	p.%3D	p.L767L	ENST00000242351	11/13	160	141	19	114	114	0	ZC3HAV1,synonymous_variant,p.%3D,ENST00000464606,;ZC3HAV1,synonymous_variant,p.%3D,ENST00000242351,;RP11-383F6.1,upstream_gene_variant,,ENST00000429934,;	A	ENSG00000105939	ENST00000242351	Transcript	synonymous_variant	2618	2301	767	L	ctC/ctT	.	.	.	-1	ZC3HAV1	HGNC	23721	protein_coding	YES	CCDS5851.1	ENSP00000242351	ZCCHV_HUMAN	.	UPI00001612AE	.	.	.	11/13	.	PROSITE_profiles:PS51059,hmmpanther:PTHR14453,hmmpanther:PTHR14453:SF49,Gene3D:3.90.228.10,Pfam_domain:PF00644,Superfamily_domains:SSF56399	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCAGGAGCTC	.	4	BLCA
BRAF	0	.	GRCh37	7	140481456	140481456	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1352A>G	p.Glu451Gly	p.E451G	ENST00000288602	11/18	80	74	6	63	63	0	BRAF,missense_variant,p.Glu451Gly,ENST00000288602,;BRAF,missense_variant,p.Glu59Gly,ENST00000496384,;BRAF,3_prime_UTR_variant,,ENST00000497784,;	C	ENSG00000157764	ENST00000288602	Transcript	missense_variant	1413	1352	451	E/G	gAg/gGg	.	.	.	-1	BRAF	HGNC	1097	protein_coding	YES	CCDS5863.1	ENSP00000288602	BRAF_HUMAN	Q75MQ8_HUMAN,E5FF37_HUMAN,D7PBN4_HUMAN	UPI000013DF26	.	deleterious(0.01)	possibly_damaging(0.814)	11/18	.	hmmpanther:PTHR23257:SF360,hmmpanther:PTHR23257,Gene3D:3.30.200.20,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P453P|c.1359T>C|3	MUTECT|MUSE	GAATCTCCCAA	.	2	BLCA
CNTNAP2	0	.	GRCh37	7	147815338	147815338	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2512G>C	p.Glu838Gln	p.E838Q	ENST00000361727	16/24	67	46	20	58	58	0	CNTNAP2,missense_variant,p.Glu838Gln,ENST00000361727,;	C	ENSG00000174469	ENST00000361727	Transcript	missense_variant	3028	2512	838	E/Q	Gaa/Caa	.	.	.	1	CNTNAP2	HGNC	13830	protein_coding	YES	CCDS5889.1	ENSP00000354778	CNTP2_HUMAN	Q9UDV4_HUMAN,Q96T77_HUMAN,Q86UL9_HUMAN,Q86UL6_HUMAN,Q86UL4_HUMAN,Q86UJ1_HUMAN,Q86UI8_HUMAN,Q75MQ9_HUMAN,Q75MF8_HUMAN,Q75MF6_HUMAN,Q75MD4_HUMAN,Q75MA1_HUMAN,Q75M92_HUMAN,Q75LG9_HUMAN,O75852_HUMAN,B7Z1Y6_HUMAN	UPI00001285FA	.	deleterious(0)	probably_damaging(0.984)	16/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF4,hmmpanther:PTHR10127,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTGAAAAT	.	5	BLCA
SLC4A2	0	.	GRCh37	7	150767292	150767292	+	Missense_Mutation	SNP	C	C	G	rs777918732	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1308C>G	p.Phe436Leu	p.F436L	ENST00000485713	10/23	67	61	6	76	76	0	SLC4A2,missense_variant,p.Phe436Leu,ENST00000485713,;SLC4A2,missense_variant,p.Phe427Leu,ENST00000392826,;SLC4A2,missense_variant,p.Phe354Leu,ENST00000310317,;SLC4A2,missense_variant,p.Phe436Leu,ENST00000413384,;SLC4A2,missense_variant,p.Phe422Leu,ENST00000461735,;RP11-148K1.12,downstream_gene_variant,,ENST00000485974,;SLC4A2,upstream_gene_variant,,ENST00000482697,;SLC4A2,upstream_gene_variant,,ENST00000472204,;SLC4A2,upstream_gene_variant,,ENST00000469355,;SLC4A2,upstream_gene_variant,,ENST00000460010,;SLC4A2,upstream_gene_variant,,ENST00000494298,;SLC4A2,upstream_gene_variant,,ENST00000480107,;SLC4A2,upstream_gene_variant,,ENST00000493040,;	G	ENSG00000164889	ENST00000485713	Transcript	missense_variant	2348	1308	436	F/L	ttC/ttG	rs777918732	.	.	1	SLC4A2	HGNC	11028	protein_coding	YES	CCDS5917.1	ENSP00000419412	B3A2_HUMAN	Q59GF1_HUMAN,C9JVC2_HUMAN,C9J9M9_HUMAN,C9J722_HUMAN,C9J459_HUMAN,C9J035_HUMAN	UPI000013EFE9	.	tolerated(0.69)	benign(0.365)	10/23	.	hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF14,Pfam_domain:PF07565,TIGRFAM_domain:TIGR00834,Gene3D:1hynR00,Superfamily_domains:SSF55804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GACTTCTCCTT	byFrequency	2	BLCA
NUB1	0	.	GRCh37	7	151073738	151073738	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1582G>C	p.Asp528His	p.D528H	ENST00000568733	14/15	23	13	9	22	22	0	NUB1,missense_variant,p.Asp504His,ENST00000355851,;NUB1,missense_variant,p.Asp490His,ENST00000566856,;NUB1,missense_variant,p.Asp528His,ENST00000568733,;NUB1,missense_variant,p.Asp91His,ENST00000460712,;NUB1,missense_variant,p.Asp514His,ENST00000413040,;WDR86,downstream_gene_variant,,ENST00000477459,;NUB1,downstream_gene_variant,,ENST00000480714,;WDR86,downstream_gene_variant,,ENST00000334493,;WDR86,downstream_gene_variant,,ENST00000469830,;WDR86,non_coding_transcript_exon_variant,,ENST00000463000,;	C	ENSG00000013374	ENST00000568733	Transcript	missense_variant	1648	1582	528	D/H	Gat/Cat	.	.	.	1	NUB1	HGNC	17623	protein_coding	YES	CCDS59089.1	ENSP00000454264	.	H3BM74_HUMAN,C9JRT6_HUMAN,C9J7X7_HUMAN	UPI00021CF908	.	deleterious(0.01)	probably_damaging(0.961)	14/15	.	PROSITE_profiles:PS50030,hmmpanther:PTHR12948,Gene3D:1.10.8.10,SMART_domains:SM00165,Superfamily_domains:SSF46934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTTGATGCA	.	5	BLCA
KMT2C	0	.	GRCh37	7	151868427	151868427	+	Missense_Mutation	SNP	C	C	A	rs751132154	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9375G>T	p.Arg3125Ser	p.R3125S	ENST00000262189	40/59	41	36	5	49	49	0	KMT2C,missense_variant,p.Arg3125Ser,ENST00000355193,;KMT2C,missense_variant,p.Arg631Ser,ENST00000360104,;KMT2C,missense_variant,p.Arg3125Ser,ENST00000262189,;KMT2C,splice_region_variant,,ENST00000473186,;KMT2C,splice_region_variant,,ENST00000558084,;	A	ENSG00000055609	ENST00000262189	Transcript	missense_variant	9594	9375	3125	R/S	agG/agT	rs751132154	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	probably_damaging(0.998)	40/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGAACCTGTC	byFrequency	2	BLCA
KMT2C	0	.	GRCh37	7	151868429	151868429	+	Splice_Site	SNP	T	T	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9375-2A>C	.	p.X3125_splice	ENST00000262189	.	41	36	5	51	51	0	KMT2C,splice_acceptor_variant,,ENST00000355193,;KMT2C,splice_acceptor_variant,,ENST00000360104,;KMT2C,splice_acceptor_variant,,ENST00000262189,;KMT2C,splice_acceptor_variant,,ENST00000473186,;KMT2C,splice_acceptor_variant,,ENST00000558084,;	G	ENSG00000055609	ENST00000262189	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	.	39/58	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAACCTGTCAA	.	3	BLCA
AHR	0	.	GRCh37	7	17375399	17375399	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1149G>C	p.Gln383His	p.Q383H	ENST00000242057	9/11	43	37	5	31	31	0	AHR,missense_variant,p.Gln383His,ENST00000242057,;AHR,non_coding_transcript_exon_variant,,ENST00000492120,;AHR,non_coding_transcript_exon_variant,,ENST00000481944,;AHR,downstream_gene_variant,,ENST00000475440,;AHR,missense_variant,p.Gln383His,ENST00000463496,;	C	ENSG00000106546	ENST00000242057	Transcript	missense_variant	1792	1149	383	Q/H	caG/caC	COSM600382	.	.	1	AHR	HGNC	348	protein_coding	YES	CCDS5366.1	ENSP00000242057	AHR_HUMAN	.	UPI0000125727	.	tolerated(0.1)	benign(0.189)	9/11	.	Superfamily_domains:SSF55785,SMART_domains:SM00086,Gene3D:3.30.450.20,hmmpanther:PTHR10649:SF11,hmmpanther:PTHR10649	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q383H|c.1149G>C|3	RADIA|MUTECT|MUSE|VARSCANS	ACTCAGAGACC	.	4	BLCA
BBS9	0	.	GRCh37	7	33397524	33397524	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1610C>T	p.Pro537Leu	p.P537L	ENST00000242067	16/23	143	116	27	136	136	0	BBS9,missense_variant,p.Pro502Leu,ENST00000396127,;BBS9,missense_variant,p.Pro537Leu,ENST00000242067,;BBS9,missense_variant,p.Pro532Leu,ENST00000355070,;BBS9,missense_variant,p.Pro104Leu,ENST00000434373,;BBS9,missense_variant,p.Pro502Leu,ENST00000354265,;BBS9,missense_variant,p.Pro497Leu,ENST00000350941,;BBS9,3_prime_UTR_variant,,ENST00000433714,;	T	ENSG00000122507	ENST00000242067	Transcript	missense_variant	2131	1610	537	P/L	cCa/cTa	.	.	.	1	BBS9	HGNC	30000	protein_coding	YES	CCDS43566.1	ENSP00000242067	PTHB1_HUMAN	C9JRR5_HUMAN,C9JJ08_HUMAN	UPI000020ED57	.	tolerated(0.1)	probably_damaging(0.962)	16/23	.	Pfam_domain:PF14728,hmmpanther:PTHR20991:SF0,hmmpanther:PTHR20991	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTACCAGGTC	.	5	BLCA
TMED4	0	.	GRCh37	7	44620629	44620629	+	Intron	SNP	G	G	C	rs774077616	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.534+63C>G	.	.	ENST00000457408	.	30	26	3	37	37	0	TMED4,3_prime_UTR_variant,,ENST00000481238,;TMED4,intron_variant,,ENST00000289577,;TMED4,intron_variant,,ENST00000457408,;TMED4,downstream_gene_variant,,ENST00000444131,;TMED4,non_coding_transcript_exon_variant,,ENST00000477639,;	C	ENSG00000158604	ENST00000457408	Transcript	intron_variant	.	.	.	.	.	rs774077616	.	.	-1	TMED4	HGNC	22301	protein_coding	YES	CCDS5493.1	ENSP00000404042	TMED4_HUMAN	.	UPI000003ED37	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACTTGAGTAG	.	3	BLCA
TNS3	0	.	GRCh37	7	47408074	47408074	+	Silent	SNP	G	G	A	rs531561984	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2169C>T	p.%3D	p.L723L	ENST00000398879	17/31	114	105	9	120	120	0	TNS3,synonymous_variant,p.%3D,ENST00000398879,;TNS3,synonymous_variant,p.%3D,ENST00000311160,;TNS3,synonymous_variant,p.%3D,ENST00000457718,;TNS3,synonymous_variant,p.%3D,ENST00000355730,;TNS3,downstream_gene_variant,,ENST00000450444,;TNS3,downstream_gene_variant,,ENST00000469470,;	A	ENSG00000136205	ENST00000398879	Transcript	synonymous_variant	2536	2169	723	L	ctC/ctT	rs531561984,COSM3832894	.	.	-1	TNS3	HGNC	21616	protein_coding	YES	CCDS5506.2	ENSP00000381854	TENS3_HUMAN	C9JWN9_HUMAN,C9JTD0_HUMAN	UPI00001AE9DA	.	.	.	17/31	.	hmmpanther:PTHR12305:SF41,hmmpanther:PTHR12305	A:0.0004	A:0.0008	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTACCGAGGGC	byFrequency|by1000G	3	BLCA
FSCN1	0	.	GRCh37	7	5642953	5642953	+	Missense_Mutation	SNP	C	C	T	rs535034843	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.898C>T	p.Arg300Cys	p.R300C	ENST00000382361	2/5	47	28	19	49	49	0	FSCN1,missense_variant,p.Arg300Cys,ENST00000382361,;FSCN1,missense_variant,p.Arg22Cys,ENST00000447103,;FSCN1,missense_variant,p.Arg22Cys,ENST00000444748,;FSCN1,missense_variant,p.Arg22Cys,ENST00000405801,;FSCN1,missense_variant,p.Arg279Cys,ENST00000340250,;FSCN1,non_coding_transcript_exon_variant,,ENST00000473330,;	T	ENSG00000075618	ENST00000382361	Transcript	missense_variant	1012	898	300	R/C	Cgc/Tgc	rs535034843	.	.	1	FSCN1	HGNC	11148	protein_coding	YES	CCDS5342.1	ENSP00000371798	FSCN1_HUMAN	Q96IH1_HUMAN,H7BYX5_HUMAN,C9JPH9_HUMAN,C9JFC0_HUMAN,B3KTM9_HUMAN	UPI000003F063	.	tolerated(0.05)	possibly_damaging(0.717)	2/5	.	hmmpanther:PTHR10551,hmmpanther:PTHR10551:SF8,Gene3D:2.80.10.50,Pfam_domain:PF06268,PIRSF_domain:PIRSF005682,Superfamily_domains:SSF50405	G:0.0002	G:0	G:0.0014	.	G:0	G:0	G:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGACCGCGAC	by1000G	5	BLCA
CYTH3	0	.	GRCh37	7	6230157	6230157	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>C	p.Glu14Gln	p.E14Q	ENST00000350796	2/13	19	9	9	11	11	0	CYTH3,missense_variant,p.Glu14Gln,ENST00000350796,;CYTH3,non_coding_transcript_exon_variant,,ENST00000482460,;	G	ENSG00000008256	ENST00000350796	Transcript	missense_variant	177	40	14	E/Q	Gaa/Caa	.	.	.	-1	CYTH3	HGNC	9504	protein_coding	YES	CCDS5346.1	ENSP00000297044	CYH3_HUMAN	Q96HS5_HUMAN	UPI000002A7A1	.	tolerated(0.56)	unknown(0)	2/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10663:SF129,hmmpanther:PTHR10663	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCAGGCA	.	5	BLCA
KDELR2	0	.	GRCh37	7	6502692	6502692	+	3'UTR	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*80G>C	.	.	ENST00000258739	5/5	98	88	10	72	72	0	KDELR2,missense_variant,p.Asp156His,ENST00000490996,;KDELR2,3_prime_UTR_variant,,ENST00000258739,;DAGLB,intron_variant,,ENST00000436575,;KDELR2,intron_variant,,ENST00000463747,;KDELR2,non_coding_transcript_exon_variant,,ENST00000454368,;	G	ENSG00000136240	ENST00000258739	Transcript	3_prime_UTR_variant	904	.	.	.	.	.	.	.	-1	KDELR2	HGNC	6305	protein_coding	YES	CCDS5351.1	ENSP00000258739	ERD22_HUMAN	.	UPI000012A0CC	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGTATCAAGCA	.	4	BLCA
BAZ1B	0	.	GRCh37	7	72892235	72892235	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1556G>A	p.Arg519Gln	p.R519Q	ENST00000339594	7/20	169	151	18	144	144	0	BAZ1B,missense_variant,p.Arg519Gln,ENST00000404251,;BAZ1B,missense_variant,p.Arg519Gln,ENST00000339594,;	T	ENSG00000009954	ENST00000339594	Transcript	missense_variant	1895	1556	519	R/Q	cGa/cAa	COSM1176902	.	.	-1	BAZ1B	HGNC	961	protein_coding	YES	CCDS5549.1	ENSP00000342434	BAZ1B_HUMAN	.	UPI0000126731	.	tolerated(0.57)	benign(0.029)	7/20	.	hmmpanther:PTHR22880:SF60,hmmpanther:PTHR22880	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTTCGCAAT	.	4	BLCA
PCLO	0	.	GRCh37	7	82580024	82580024	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9880G>C	p.Glu3294Gln	p.E3294Q	ENST00000333891	6/25	160	126	34	162	162	0	PCLO,missense_variant,p.Glu14Gln,ENST00000437081,;PCLO,missense_variant,p.Glu3294Gln,ENST00000333891,;PCLO,missense_variant,p.Glu3294Gln,ENST00000423517,;	G	ENSG00000186472	ENST00000333891	Transcript	missense_variant	10218	9880	3294	E/Q	Gag/Cag	.	.	.	-1	PCLO	HGNC	13406	protein_coding	YES	CCDS47630.1	ENSP00000334319	PCLO_HUMAN	.	UPI0001573469	.	.	unknown(0)	6/25	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14113:SF6,hmmpanther:PTHR14113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCAAGCT	.	5	BLCA
LMTK2	0	.	GRCh37	7	97823129	97823129	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3352G>C	p.Glu1118Gln	p.E1118Q	ENST00000297293	11/14	60	54	6	55	55	0	LMTK2,missense_variant,p.Glu1118Gln,ENST00000297293,;	C	ENSG00000164715	ENST00000297293	Transcript	missense_variant	3645	3352	1118	E/Q	Gag/Cag	COSM1755445,COSM1755444	.	.	1	LMTK2	HGNC	17880	protein_coding	YES	CCDS5654.1	ENSP00000297293	LMTK2_HUMAN	.	UPI000014F277	.	deleterious(0)	probably_damaging(0.91)	11/14	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTGAGGAG	.	4	BLCA
ZNF394	0	.	GRCh37	7	99091253	99091253	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1585G>C	p.Glu529Gln	p.E529Q	ENST00000337673	3/3	201	163	38	164	164	0	ZNF394,missense_variant,p.Glu529Gln,ENST00000337673,;ZNF394,3_prime_UTR_variant,,ENST00000426306,;ZNF789,intron_variant,,ENST00000493485,;ZNF394,intron_variant,,ENST00000462024,;ZNF789,intron_variant,,ENST00000494186,;ZNF394,downstream_gene_variant,,ENST00000394177,;ZNF394,downstream_gene_variant,,ENST00000485576,;ZNF394,downstream_gene_variant,,ENST00000464401,;ZNF394,downstream_gene_variant,,ENST00000481881,;	G	ENSG00000160908	ENST00000337673	Transcript	missense_variant	1789	1585	529	E/Q	Gaa/Caa	.	.	.	-1	ZNF394	HGNC	18832	protein_coding	YES	CCDS5666.1	ENSP00000337363	ZN394_HUMAN	.	UPI000006F498	.	tolerated(0.15)	benign(0.008)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23226,hmmpanther:PTHR23226:SF3,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCAAGAC	.	5	BLCA
SPDYE3	0	.	GRCh37	7	99917593	99917593	+	Missense_Mutation	SNP	G	G	A	rs781753979	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1630G>A	p.Asp544Asn	p.D544N	ENST00000332397	10/11	50	31	19	60	60	0	SPDYE3,missense_variant,p.Asp167Asn,ENST00000437326,;SPDYE3,missense_variant,p.Asp544Asn,ENST00000332397,;SPDYE3,non_coding_transcript_exon_variant,,ENST00000380765,;PMS2P1,downstream_gene_variant,,ENST00000431037,;	A	ENSG00000214300	ENST00000332397	Transcript	missense_variant	1814	1630	544	D/N	Gat/Aat	rs781753979,COSM3268132,COSM164554	.	.	1	SPDYE3	HGNC	35462	protein_coding	YES	CCDS47658.2	ENSP00000329565	SPDE3_HUMAN	.	UPI00004193B6	.	deleterious(0.04)	possibly_damaging(0.626)	10/11	.	hmmpanther:PTHR31156:SF10,hmmpanther:PTHR31156,Pfam_domain:PF11357	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCGAGATCGC	byFrequency	5	BLCA
SPDYE3	0	.	GRCh37	7	99917655	99917655	+	3'UTR	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*42G>C	.	.	ENST00000332397	10/11	23	14	9	42	42	0	SPDYE3,3_prime_UTR_variant,,ENST00000437326,;SPDYE3,3_prime_UTR_variant,,ENST00000332397,;SPDYE3,non_coding_transcript_exon_variant,,ENST00000380765,;PMS2P1,downstream_gene_variant,,ENST00000431037,;	C	ENSG00000214300	ENST00000332397	Transcript	3_prime_UTR_variant	1876	.	.	.	.	.	.	.	1	SPDYE3	HGNC	35462	protein_coding	YES	CCDS47658.2	ENSP00000329565	SPDE3_HUMAN	.	UPI00004193B6	.	.	.	10/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TGAGAGAAGGT	.	2	BLCA
SNX31	0	.	GRCh37	8	101608973	101608973	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.872C>A	p.Ser291Tyr	p.S291Y	ENST00000311812	10/14	175	130	45	143	143	0	SNX31,missense_variant,p.Ser192Tyr,ENST00000428383,;SNX31,missense_variant,p.Ser291Tyr,ENST00000311812,;SNX31,upstream_gene_variant,,ENST00000519521,;	T	ENSG00000174226	ENST00000311812	Transcript	missense_variant	1023	872	291	S/Y	tCt/tAt	.	.	.	-1	SNX31	HGNC	28605	protein_coding	YES	CCDS6288.1	ENSP00000312368	SNX31_HUMAN	E5RJK2_HUMAN	UPI000004A790	.	tolerated(0.62)	benign(0.022)	10/14	.	hmmpanther:PTHR12431:SF15,hmmpanther:PTHR12431	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACAGAAAGA	.	5	BLCA
FZD6	0	.	GRCh37	8	104337556	104337556	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1222G>C	p.Glu408Gln	p.E408Q	ENST00000358755	4/7	250	159	91	208	208	0	FZD6,missense_variant,p.Glu408Gln,ENST00000358755,;FZD6,missense_variant,p.Glu103Gln,ENST00000540287,;FZD6,missense_variant,p.Glu408Gln,ENST00000522566,;FZD6,missense_variant,p.Glu376Gln,ENST00000523739,;FZD6,missense_variant,p.Glu408Gln,ENST00000522484,;FZD6,3_prime_UTR_variant,,ENST00000519011,;FZD6,3_prime_UTR_variant,,ENST00000521195,;FZD6,3_prime_UTR_variant,,ENST00000523933,;	C	ENSG00000164930	ENST00000358755	Transcript	missense_variant	1539	1222	408	E/Q	Gaa/Caa	.	.	.	1	FZD6	HGNC	4044	protein_coding	YES	CCDS6298.1	ENSP00000351605	FZD6_HUMAN	B7ZB79_HUMAN	UPI0000061EB0	.	tolerated(0.09)	benign(0.361)	4/7	.	PROSITE_profiles:PS50261,hmmpanther:PTHR11309,hmmpanther:PTHR11309:SF75,Pfam_domain:PF01534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.K411N|c.1233G>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAAGAAAAA	.	5	BLCA
ABRA	0	.	GRCh37	8	107773481	107773481	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930G>A	p.Met310Ile	p.M310I	ENST00000311955	2/2	85	50	35	66	66	0	ABRA,missense_variant,p.Met310Ile,ENST00000311955,;	T	ENSG00000174429	ENST00000311955	Transcript	missense_variant	985	930	310	M/I	atG/atA	.	.	.	-1	ABRA	HGNC	30655	protein_coding	YES	CCDS6305.1	ENSP00000311436	ABRA_HUMAN	.	UPI000006F0DE	.	tolerated(1)	benign(0)	2/2	.	hmmpanther:PTHR22739:SF7,hmmpanther:PTHR22739,Pfam_domain:PF14705	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCATTTC	.	5	BLCA
PKHD1L1	0	.	GRCh37	8	110457504	110457504	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5406G>A	p.%3D	p.V1802V	ENST00000378402	38/78	108	64	43	87	87	0	PKHD1L1,synonymous_variant,p.%3D,ENST00000378402,;	A	ENSG00000205038	ENST00000378402	Transcript	synonymous_variant	5510	5406	1802	V	gtG/gtA	.	.	.	1	PKHD1L1	HGNC	20313	protein_coding	YES	CCDS47911.1	ENSP00000367655	PKHL1_HUMAN	.	UPI0000E5B020	.	.	.	38/78	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF213,Pfam_domain:PF01833,Gene3D:2.60.40.10,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGTGACTCC	.	5	BLCA
TRPS1	0	.	GRCh37	8	116426306	116426306	+	Missense_Mutation	SNP	C	C	T	rs751834988	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3830G>A	p.Arg1277Lys	p.R1277K	ENST00000395715	7/7	302	201	101	181	181	0	TRPS1,missense_variant,p.Arg1268Lys,ENST00000520276,;TRPS1,missense_variant,p.Arg1264Lys,ENST00000220888,;TRPS1,missense_variant,p.Arg1018Lys,ENST00000519076,;TRPS1,missense_variant,p.Arg1277Lys,ENST00000395715,;TRPS1,downstream_gene_variant,,ENST00000518018,;	T	ENSG00000104447	ENST00000395715	Transcript	missense_variant	4408	3830	1277	R/K	aGg/aAg	rs751834988	.	.	-1	TRPS1	HGNC	12340	protein_coding	YES	CCDS6318.2	ENSP00000379065	TRPS1_HUMAN	F8W8T0_HUMAN,E7EVN4_HUMAN,C9J6L7_HUMAN	UPI00002104B8	.	deleterious_low_confidence(0)	probably_damaging(0.99)	7/7	.	SMART_domains:SM00355,PROSITE_patterns:PS00028,hmmpanther:PTHR10071,hmmpanther:PTHR10071:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCCCTCTGG	.	5	BLCA
MRPL13	0	.	GRCh37	8	121426299	121426299	+	Missense_Mutation	SNP	C	C	T	rs367814802	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.446G>A	p.Arg149Gln	p.R149Q	ENST00000306185	6/7	99	91	8	62	62	0	MRPL13,missense_variant,p.Arg149Gln,ENST00000306185,;MRPL13,missense_variant,p.Arg125Gln,ENST00000518918,;MRPL13,missense_variant,p.Arg18Gln,ENST00000521648,;MRPL13,3_prime_UTR_variant,,ENST00000518696,;MRPL13,non_coding_transcript_exon_variant,,ENST00000523316,;MRPL13,non_coding_transcript_exon_variant,,ENST00000522717,;	T	ENSG00000172172	ENST00000306185	Transcript	missense_variant	738	446	149	R/Q	cGa/cAa	rs367814802	.	.	-1	MRPL13	HGNC	14278	protein_coding	YES	CCDS6332.1	ENSP00000306548	RM13_HUMAN	H0YAX3_HUMAN,E5RJI7_HUMAN	UPI00001342CD	.	deleterious(0.03)	probably_damaging(0.999)	6/7	.	hmmpanther:PTHR11545:SF6,hmmpanther:PTHR11545,PIRSF_domain:PIRSF002181	T:0.0010	T:0.0038	T:0	.	T:0	T:0	T:0	T:0.0016	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTTTCGTGGT	byFrequency|byCluster|by1000G	3	BLCA
TRMT12	0	.	GRCh37	8	125464045	125464045	+	Missense_Mutation	SNP	G	G	C	rs771952561	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.877G>C	p.Asp293His	p.D293H	ENST00000328599	1/1	172	82	89	109	109	0	TRMT12,missense_variant,p.Asp293His,ENST00000328599,;TRMT12,intron_variant,,ENST00000521443,;TRMT12,intron_variant,,ENST00000522518,;	C	ENSG00000183665	ENST00000328599	Transcript	missense_variant	998	877	293	D/H	Gat/Cat	rs771952561,COSM1095883	.	.	1	TRMT12	HGNC	26091	protein_coding	YES	CCDS6349.1	ENSP00000329858	TYW2_HUMAN	.	UPI0000140A61	.	deleterious(0)	probably_damaging(1)	1/1	.	PROSITE_profiles:PS51684,hmmpanther:PTHR23245:SF33,hmmpanther:PTHR23245,Gene3D:3.40.50.150,Pfam_domain:PF02475,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGAGATAAC	.	5	BLCA
SLURP1	0	.	GRCh37	8	143822579	143822579	+	Silent	SNP	G	G	C	rs781507951	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294C>G	p.%3D	p.L98L	ENST00000246515	3/3	33	29	4	34	34	0	SLURP1,synonymous_variant,p.%3D,ENST00000246515,;THEM6,downstream_gene_variant,,ENST00000336138,;THEM6,downstream_gene_variant,,ENST00000518798,;THEM6,downstream_gene_variant,,ENST00000520217,;	C	ENSG00000126233	ENST00000246515	Transcript	synonymous_variant	320	294	98	L	ctC/ctG	rs781507951	.	.	-1	SLURP1	HGNC	18746	protein_coding	YES	CCDS6387.1	ENSP00000246515	SLUR1_HUMAN	.	UPI000011D637	.	.	.	3/3	.	hmmpanther:PTHR10036:SF4,hmmpanther:PTHR10036,Gene3D:2.10.60.10,Pfam_domain:PF00021,Superfamily_domains:SSF57302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TTGCAGAGGTC	.	3	BLCA
GPAA1	0	.	GRCh37	8	145140496	145140496	+	Missense_Mutation	SNP	C	C	A	rs202106798	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1472C>A	p.Pro491Gln	p.P491Q	ENST00000355091	11/12	70	63	7	66	66	0	GPAA1,missense_variant,p.Pro431Gln,ENST00000361036,;GPAA1,missense_variant,p.Pro491Gln,ENST00000355091,;GPAA1,downstream_gene_variant,,ENST00000524418,;GPAA1,downstream_gene_variant,,ENST00000525087,;GPAA1,downstream_gene_variant,,ENST00000530258,;EXOSC4,downstream_gene_variant,,ENST00000316052,;GPAA1,downstream_gene_variant,,ENST00000527144,;GPAA1,downstream_gene_variant,,ENST00000526233,;GPAA1,downstream_gene_variant,,ENST00000526341,;GPAA1,non_coding_transcript_exon_variant,,ENST00000530796,;GPAA1,non_coding_transcript_exon_variant,,ENST00000534072,;GPAA1,non_coding_transcript_exon_variant,,ENST00000529638,;GPAA1,downstream_gene_variant,,ENST00000528073,;GPAA1,downstream_gene_variant,,ENST00000531593,;GPAA1,downstream_gene_variant,,ENST00000530633,;GPAA1,downstream_gene_variant,,ENST00000527653,;GPAA1,downstream_gene_variant,,ENST00000532758,;GPAA1,downstream_gene_variant,,ENST00000529503,;GPAA1,downstream_gene_variant,,ENST00000525308,;	A	ENSG00000197858	ENST00000355091	Transcript	missense_variant	1593	1472	491	P/Q	cCa/cAa	rs202106798	.	.	1	GPAA1	HGNC	4446	protein_coding	YES	CCDS43776.1	ENSP00000347206	GPAA1_HUMAN	E9PLG8_HUMAN	UPI0000073ECC	.	tolerated(0.06)	benign(0.225)	11/12	.	hmmpanther:PTHR13304:SF0,hmmpanther:PTHR13304,Pfam_domain:PF04114,PIRSF_domain:PIRSF036762	.	.	.	.	.	.	.	T:0	T:0.0007	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GGCCCCAGACA	byFrequency|byCluster	2	BLCA
VPS37A	0	.	GRCh37	8	17132453	17132453	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628G>C	p.Asp210His	p.D210H	ENST00000324849	5/12	43	21	22	67	67	0	VPS37A,missense_variant,p.Asp210His,ENST00000324849,;VPS37A,missense_variant,p.Asp185His,ENST00000521829,;VPS37A,upstream_gene_variant,,ENST00000521976,;VPS37A,downstream_gene_variant,,ENST00000324815,;VPS37A,missense_variant,p.Asp210His,ENST00000520140,;VPS37A,3_prime_UTR_variant,,ENST00000425020,;	C	ENSG00000155975	ENST00000324849	Transcript	missense_variant	1302	628	210	D/H	Gat/Cat	.	.	.	1	VPS37A	HGNC	24928	protein_coding	YES	CCDS6001.1	ENSP00000318629	VP37A_HUMAN	H0YBN0_HUMAN,B3KW95_HUMAN	UPI0000039EC3	.	deleterious(0.01)	possibly_damaging(0.779)	5/12	.	hmmpanther:PTHR13678,hmmpanther:PTHR13678:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTGGATGCT	.	5	BLCA
NUGGC	0	.	GRCh37	8	27925036	27925036	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.706G>A	p.Glu236Lys	p.E236K	ENST00000413272	6/19	11	6	5	12	12	0	NUGGC,missense_variant,p.Glu236Lys,ENST00000413272,;NUGGC,missense_variant,p.Glu236Lys,ENST00000341513,;NUGGC,downstream_gene_variant,,ENST00000418860,;	T	ENSG00000189233	ENST00000413272	Transcript	missense_variant	849	706	236	E/K	Gaa/Aaa	.	.	.	-1	NUGGC	HGNC	33550	protein_coding	YES	CCDS47833.1	ENSP00000408697	SLIP_HUMAN	.	UPI0000237454	.	tolerated(0.29)	possibly_damaging(0.533)	6/19	.	hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF254,Pfam_domain:PF00350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTCCGCCT	.	2	BLCA
FNTA	0	.	GRCh37	8	42939930	42939930	+	Missense_Mutation	SNP	C	C	T	rs777046833	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.923C>T	p.Ser308Phe	p.S308F	ENST00000302279	8/9	70	64	6	85	85	0	FNTA,missense_variant,p.Ser246Phe,ENST00000533336,;FNTA,missense_variant,p.Ser308Phe,ENST00000302279,;FNTA,missense_variant,p.Ser241Phe,ENST00000342116,;FNTA,missense_variant,p.Ser157Phe,ENST00000529687,;FNTA,3_prime_UTR_variant,,ENST00000526755,;FNTA,3_prime_UTR_variant,,ENST00000533383,;FNTA,non_coding_transcript_exon_variant,,ENST00000525099,;FNTA,non_coding_transcript_exon_variant,,ENST00000528400,;FNTA,downstream_gene_variant,,ENST00000533998,;	T	ENSG00000168522	ENST00000302279	Transcript	missense_variant	1117	923	308	S/F	tCc/tTc	rs777046833	.	.	1	FNTA	HGNC	3782	protein_coding	YES	CCDS6140.1	ENSP00000303423	FNTA_HUMAN	E9PPM9_HUMAN,D3DSY9_HUMAN,B3KVN2_HUMAN	UPI000013176D	.	deleterious(0)	probably_damaging(0.991)	8/9	.	hmmpanther:PTHR11129:SF1,hmmpanther:PTHR11129,Gene3D:1.25.40.120,Superfamily_domains:SSF48439	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TAGTTCCCCCT	.	3	BLCA
RNU6-104P	0	.	GRCh37	8	43159892	43159892	+	3'Flank	SNP	C	C	G	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000459597	.	64	54	10	71	71	0	RNU6-104P,downstream_gene_variant,,ENST00000459597,;POTEA,non_coding_transcript_exon_variant,,ENST00000522175,;POTEA,non_coding_transcript_exon_variant,,ENST00000519951,;	G	ENSG00000238509	ENST00000459597	Transcript	downstream_gene_variant	.	.	.	.	.	COSM605609	.	1267	1	RNU6-104P	HGNC	47067	snRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCTTCTG	.	5	BLCA
UBE2V2	0	.	GRCh37	8	48955643	48955643	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67C>T	p.Gln23Ter	p.Q23*	ENST00000523111	2/4	84	50	34	129	129	0	UBE2V2,stop_gained,p.Gln23Ter,ENST00000523111,;UBE2V2,5_prime_UTR_variant,,ENST00000520809,;UBE2V2,5_prime_UTR_variant,,ENST00000517630,;UBE2V2,5_prime_UTR_variant,,ENST00000521346,;UBE2V2,intron_variant,,ENST00000523432,;UBE2V2,stop_gained,p.Gln18Ter,ENST00000520595,;UBE2V2,stop_gained,p.Gln28Ter,ENST00000518360,;	T	ENSG00000169139	ENST00000523111	Transcript	stop_gained	122	67	23	Q/*	Caa/Taa	.	.	.	1	UBE2V2	HGNC	12495	protein_coding	YES	CCDS43738.1	ENSP00000428209	UB2V2_HUMAN	G3V113_HUMAN,A0M8W4_HUMAN	UPI000006FD5B	.	.	.	2/4	.	Superfamily_domains:SSF54495,SMART_domains:SM00212,Gene3D:3.10.110.10,hmmpanther:PTHR24067:SF69,hmmpanther:PTHR24067,PROSITE_profiles:PS50127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGACAAAAA	.	5	BLCA
RB1CC1	0	.	GRCh37	8	53568752	53568752	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3637G>A	p.Glu1213Lys	p.E1213K	ENST00000025008	15/24	152	112	40	134	134	0	RB1CC1,missense_variant,p.Glu1213Lys,ENST00000025008,;RB1CC1,missense_variant,p.Glu1213Lys,ENST00000539297,;RB1CC1,missense_variant,p.Glu1213Lys,ENST00000435644,;RB1CC1,intron_variant,,ENST00000521611,;RB1CC1,downstream_gene_variant,,ENST00000523594,;	T	ENSG00000023287	ENST00000025008	Transcript	missense_variant	4161	3637	1213	E/K	Gag/Aag	.	.	.	-1	RB1CC1	HGNC	15574	protein_coding	YES	CCDS34892.1	ENSP00000025008	RBCC1_HUMAN	E5RH63_HUMAN,B4DGF9_HUMAN	UPI0000DBEF23	.	tolerated(0.13)	benign(0.005)	15/24	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13222:SF1,hmmpanther:PTHR13222	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCAAGGT	.	5	BLCA
GGH	0	.	GRCh37	8	63938787	63938787	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429G>C	p.%3D	p.L143L	ENST00000260118	5/9	93	70	23	86	86	0	GGH,synonymous_variant,p.%3D,ENST00000260118,;RP11-659E9.4,downstream_gene_variant,,ENST00000521556,;GGH,non_coding_transcript_exon_variant,,ENST00000518113,;GGH,non_coding_transcript_exon_variant,,ENST00000518466,;GGH,downstream_gene_variant,,ENST00000523479,;GGH,non_coding_transcript_exon_variant,,ENST00000520609,;GGH,downstream_gene_variant,,ENST00000523788,;GGH,downstream_gene_variant,,ENST00000518966,;	G	ENSG00000137563	ENST00000260118	Transcript	synonymous_variant	832	429	143	L	ctG/ctC	.	.	.	-1	GGH	HGNC	4248	protein_coding	YES	CCDS6177.1	ENSP00000260118	GGH_HUMAN	.	UPI000000127C	.	.	.	5/9	.	PROSITE_profiles:PS51275,hmmpanther:PTHR11315:SF2,hmmpanther:PTHR11315,Pfam_domain:PF07722,Gene3D:3.40.50.880,Superfamily_domains:SSF52317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAATCAGCAG	.	5	BLCA
CYP7B1	0	.	GRCh37	8	65527623	65527623	+	Silent	SNP	G	G	A	rs779479164	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1017C>T	p.%3D	p.I339I	ENST00000310193	4/6	114	83	30	102	102	0	CYP7B1,synonymous_variant,p.%3D,ENST00000310193,;CYP7B1,non_coding_transcript_exon_variant,,ENST00000523954,;	A	ENSG00000172817	ENST00000310193	Transcript	synonymous_variant	1191	1017	339	I	atC/atT	rs779479164	.	.	-1	CYP7B1	HGNC	2652	protein_coding	YES	CCDS6180.1	ENSP00000310721	CP7B1_HUMAN	.	UPI0000128218	.	.	.	4/6	.	hmmpanther:PTHR24304,hmmpanther:PTHR24304:SF0,Pfam_domain:PF00067,Gene3D:1.10.630.10,PIRSF_domain:PIRSF000047,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.P338S|c.1012C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTGGATGGG	.	5	BLCA
ADHFE1	0	.	GRCh37	8	67369109	67369109	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044C>A	p.Tyr348Ter	p.Y348*	ENST00000396623	11/14	49	31	18	39	39	0	ADHFE1,stop_gained,p.Tyr300Ter,ENST00000415254,;ADHFE1,stop_gained,p.Tyr348Ter,ENST00000396623,;ADHFE1,downstream_gene_variant,,ENST00000379385,;ADHFE1,non_coding_transcript_exon_variant,,ENST00000480040,;ADHFE1,non_coding_transcript_exon_variant,,ENST00000496501,;C8orf46,upstream_gene_variant,,ENST00000519702,;C8orf46,upstream_gene_variant,,ENST00000482608,;ADHFE1,upstream_gene_variant,,ENST00000466739,;ADHFE1,3_prime_UTR_variant,,ENST00000276576,;ADHFE1,3_prime_UTR_variant,,ENST00000424777,;ADHFE1,3_prime_UTR_variant,,ENST00000419955,;ADHFE1,3_prime_UTR_variant,,ENST00000426810,;ADHFE1,downstream_gene_variant,,ENST00000422166,;ADHFE1,downstream_gene_variant,,ENST00000396621,;ADHFE1,downstream_gene_variant,,ENST00000443372,;	A	ENSG00000147576	ENST00000396623	Transcript	stop_gained	1075	1044	348	Y/*	taC/taA	.	.	.	1	ADHFE1	HGNC	16354	protein_coding	YES	CCDS6190.2	ENSP00000379865	HOT_HUMAN	E5RFL4_HUMAN	UPI000004966C	.	.	.	11/14	.	hmmpanther:PTHR11496:SF62,hmmpanther:PTHR11496,Pfam_domain:PF00465,Gene3D:1.20.1090.10,Superfamily_domains:SSF56796	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTACAATGT	.	5	BLCA
NCOA2	0	.	GRCh37	8	71041034	71041034	+	Missense_Mutation	SNP	C	C	T	rs757059586	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3506G>A	p.Arg1169His	p.R1169H	ENST00000452400	17/23	68	63	5	66	66	0	NCOA2,missense_variant,p.Arg257His,ENST00000267974,;NCOA2,missense_variant,p.Arg1169His,ENST00000452400,;NCOA2,missense_variant,p.Arg295His,ENST00000518363,;NCOA2,3_prime_UTR_variant,,ENST00000518287,;NCOA2,upstream_gene_variant,,ENST00000521239,;	T	ENSG00000140396	ENST00000452400	Transcript	missense_variant	3688	3506	1169	R/H	cGt/cAt	rs757059586	.	.	-1	NCOA2	HGNC	7669	protein_coding	YES	CCDS47872.1	ENSP00000399968	NCOA2_HUMAN	.	UPI000012FE42	.	tolerated(0.08)	probably_damaging(0.999)	17/23	.	hmmpanther:PTHR10684:SF2,hmmpanther:PTHR10684,PIRSF_domain:PIRSF038181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCATACGGAGT	byFrequency	2	BLCA
CLDN23	0	.	GRCh37	8	8560286	8560286	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378C>T	p.%3D	p.L126L	ENST00000519106	1/1	45	38	7	49	49	0	CLDN23,synonymous_variant,p.%3D,ENST00000519106,;AC087269.1,intron_variant,,ENST00000389800,;	T	ENSG00000253958	ENST00000519106	Transcript	synonymous_variant	839	378	126	L	ctC/ctT	.	.	.	1	CLDN23	HGNC	17591	protein_coding	YES	CCDS55195.1	ENSP00000428780	CLD23_HUMAN	.	UPI00001C1E93	.	.	.	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR12002,hmmpanther:PTHR12002:SF3,Pfam_domain:PF00822,Prints_domain:PR01077	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCCTCGG	.	4	BLCA
OSGIN2	0	.	GRCh37	8	90937729	90937729	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1619T>C	p.Val540Ala	p.V540A	ENST00000451899	6/6	44	35	9	49	49	0	OSGIN2,missense_variant,p.Val540Ala,ENST00000451899,;OSGIN2,missense_variant,p.Val496Ala,ENST00000297438,;OSGIN2,downstream_gene_variant,,ENST00000520659,;	C	ENSG00000164823	ENST00000451899	Transcript	missense_variant	1879	1619	540	V/A	gTt/gCt	.	.	.	1	OSGIN2	HGNC	1355	protein_coding	YES	CCDS47888.1	ENSP00000396445	OSGI2_HUMAN	E5RJZ3_HUMAN	UPI0000E5AF0B	.	tolerated_low_confidence(0.23)	benign(0.003)	6/6	.	hmmpanther:PTHR15192,hmmpanther:PTHR15192:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTGTTGAAA	.	5	BLCA
DPY19L4	0	.	GRCh37	8	95802120	95802120	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2154G>A	p.%3D	p.V718V	ENST00000414645	19/19	244	162	81	185	185	0	DPY19L4,synonymous_variant,p.%3D,ENST00000414645,;KB-1608C10.2,downstream_gene_variant,,ENST00000510185,;KB-1608C10.2,downstream_gene_variant,,ENST00000521706,;DPY19L4,downstream_gene_variant,,ENST00000522669,;	A	ENSG00000156162	ENST00000414645	Transcript	synonymous_variant	2253	2154	718	V	gtG/gtA	.	.	.	1	DPY19L4	HGNC	27829	protein_coding	YES	CCDS34924.1	ENSP00000389630	D19L4_HUMAN	.	UPI00001A9D7A	.	.	.	19/19	.	hmmpanther:PTHR31488:SF2,hmmpanther:PTHR31488	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGTGATATC	.	5	BLCA
CCDC180	0	.	GRCh37	9	100126408	100126408	+	Silent	SNP	C	C	T	rs149708666	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4110C>T	p.%3D	p.A1370A	ENST00000375202	43/51	25	7	18	38	37	0	CCDC180,synonymous_variant,p.%3D,ENST00000357054,;CCDC180,synonymous_variant,p.%3D,ENST00000375202,;CCDC180,synonymous_variant,p.%3D,ENST00000529487,;CCDC180,splice_region_variant,,ENST00000395220,;MIR1302-8,upstream_gene_variant,,ENST00000408342,;RP11-23J9.4,splice_region_variant,,ENST00000375206,;RP11-23J9.4,splice_region_variant,,ENST00000534123,;RP11-23J9.4,splice_region_variant,,ENST00000529787,;RP11-23J9.4,intron_variant,,ENST00000532526,;CCDC180,intron_variant,,ENST00000527182,;CCDC180,upstream_gene_variant,,ENST00000483504,;	T	ENSG00000197816	ENST00000375202	Transcript	synonymous_variant	5462	4110	1370	A	gcC/gcT	rs149708666	.	.	1	CCDC180	HGNC	29303	protein_coding	YES	CCDS35077.2	ENSP00000364348	CC180_HUMAN	B7ZMG3_HUMAN	UPI00016277C6	.	.	.	43/51	.	hmmpanther:PTHR21444:SF14,hmmpanther:PTHR21444	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGCCGAGTG	byCluster	5	BLCA
RAD23B	0	.	GRCh37	9	110086241	110086241	+	Silent	SNP	T	T	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888T>C	p.%3D	p.P296P	ENST00000358015	8/10	123	118	5	129	129	0	RAD23B,synonymous_variant,p.%3D,ENST00000358015,;RAD23B,synonymous_variant,p.%3D,ENST00000416373,;RAD23B,intron_variant,,ENST00000457811,;	C	ENSG00000119318	ENST00000358015	Transcript	synonymous_variant	1239	888	296	P	ccT/ccC	.	.	.	1	RAD23B	HGNC	9813	protein_coding	YES	CCDS6769.1	ENSP00000350708	RD23B_HUMAN	Q5W0S5_HUMAN	UPI0000132F6C	.	.	.	8/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10621,hmmpanther:PTHR10621:SF2,Gene3D:1pveA00,Pfam_domain:PF09280,TIGRFAM_domain:TIGR00601,SMART_domains:SM00727,Superfamily_domains:SSF101238	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCCTTCCTT	.	2	BLCA
C9orf84	0	.	GRCh37	9	114520466	114520466	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414C>T	p.%3D	p.F138F	ENST00000374287	7/28	50	43	7	50	50	0	C9orf84,synonymous_variant,p.%3D,ENST00000318737,;C9orf84,synonymous_variant,p.%3D,ENST00000374287,;C9orf84,synonymous_variant,p.%3D,ENST00000394779,;C9orf84,synonymous_variant,p.%3D,ENST00000374283,;C9orf84,synonymous_variant,p.%3D,ENST00000394777,;	A	ENSG00000165181	ENST00000374287	Transcript	synonymous_variant	675	414	138	F	ttC/ttT	.	.	.	-1	C9orf84	HGNC	26535	protein_coding	YES	CCDS6781.3	ENSP00000363405	CI084_HUMAN	.	UPI0000458916	.	.	.	7/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAGAGAAACA	.	4	BLCA
TNC	0	.	GRCh37	9	117849211	117849211	+	Silent	SNP	A	A	G	rs758545356	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.799T>C	p.%3D	p.L267L	ENST00000350763	3/28	64	53	10	67	67	0	TNC,synonymous_variant,p.%3D,ENST00000345230,;TNC,synonymous_variant,p.%3D,ENST00000542877,;TNC,synonymous_variant,p.%3D,ENST00000346706,;TNC,synonymous_variant,p.%3D,ENST00000537320,;TNC,synonymous_variant,p.%3D,ENST00000341037,;TNC,synonymous_variant,p.%3D,ENST00000350763,;TNC,synonymous_variant,p.%3D,ENST00000535648,;TNC,synonymous_variant,p.%3D,ENST00000340094,;TNC,synonymous_variant,p.%3D,ENST00000423613,;TNC,downstream_gene_variant,,ENST00000534839,;	G	ENSG00000041982	ENST00000350763	Transcript	synonymous_variant	1211	799	267	L	Ttg/Ctg	rs758545356	.	.	-1	TNC	HGNC	5318	protein_coding	YES	CCDS6811.1	ENSP00000265131	TENA_HUMAN	F5H5D6_HUMAN	UPI000013D5BD	.	.	.	3/28	.	hmmpanther:PTHR19143:SF38,hmmpanther:PTHR19143,Gene3D:2.10.25.10,Pfam_domain:PF07974,SMART_domains:SM00181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACAAGCCAT	byFrequency	5	BLCA
TSC1	0	.	GRCh37	9	135781382	135781382	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1583G>A	p.Gly528Asp	p.G528D	ENST00000298552	15/23	43	17	25	35	35	0	TSC1,missense_variant,p.Gly528Asp,ENST00000298552,;TSC1,missense_variant,p.Gly477Asp,ENST00000545250,;TSC1,missense_variant,p.Gly528Asp,ENST00000440111,;TSC1,downstream_gene_variant,,ENST00000493467,;	T	ENSG00000165699	ENST00000298552	Transcript	missense_variant	1805	1583	528	G/D	gGc/gAc	.	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	deleterious(0.04)	possibly_damaging(0.606)	15/23	.	hmmpanther:PTHR15154,Pfam_domain:PF04388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGCGCCCTGA	.	3	BLCA
TSC1	0	.	GRCh37	9	135781386	135781386	+	Nonsense_Mutation	SNP	G	G	A	rs118203549	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1579C>T	p.Gln527Ter	p.Q527*	ENST00000298552	15/23	44	17	26	33	33	0	TSC1,stop_gained,p.Gln527Ter,ENST00000298552,;TSC1,stop_gained,p.Gln476Ter,ENST00000545250,;TSC1,stop_gained,p.Gln527Ter,ENST00000440111,;TSC1,downstream_gene_variant,,ENST00000493467,;	A	ENSG00000165699	ENST00000298552	Transcript	stop_gained	1801	1579	527	Q/*	Cag/Tag	rs118203549	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	.	.	15/23	.	hmmpanther:PTHR15154,Pfam_domain:PF04388	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCCTGAGAAC	.	3	BLCA
TSC1	0	.	GRCh37	9	135781405	135781405	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1560C>T	p.%3D	p.H520H	ENST00000298552	15/23	40	15	25	30	30	0	TSC1,synonymous_variant,p.%3D,ENST00000298552,;TSC1,synonymous_variant,p.%3D,ENST00000545250,;TSC1,synonymous_variant,p.%3D,ENST00000440111,;TSC1,downstream_gene_variant,,ENST00000493467,;	A	ENSG00000165699	ENST00000298552	Transcript	synonymous_variant	1782	1560	520	H	caC/caT	.	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	.	.	15/23	.	hmmpanther:PTHR15154,Pfam_domain:PF04388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCGAGTGGGT	.	2	BLCA
RXRA	0	.	GRCh37	9	137321078	137321078	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1035C>G	p.Ile345Met	p.I345M	ENST00000481739	7/10	40	32	7	60	59	1	RXRA,missense_variant,p.Ile345Met,ENST00000481739,;RXRA,missense_variant,p.Ile248Met,ENST00000540193,;RXRA,non_coding_transcript_exon_variant,,ENST00000356384,;	G	ENSG00000186350	ENST00000481739	Transcript	missense_variant	1087	1035	345	I/M	atC/atG	.	.	.	1	RXRA	HGNC	10477	protein_coding	YES	CCDS35172.1	ENSP00000419692	RXRA_HUMAN	Q6P3U7_HUMAN,F1D8Q5_HUMAN,B3KY83_HUMAN	UPI0000042A9A	.	deleterious(0.01)	probably_damaging(0.991)	7/10	.	Prints_domain:PR00545,Superfamily_domains:SSF48508,SMART_domains:SM00430,Gene3D:1.10.565.10,Pfam_domain:PF00104,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCATCTTTGA	.	2	BLCA
DPH7	0	.	GRCh37	9	140472024	140472024	+	Missense_Mutation	SNP	C	C	A	rs754254763	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.185G>T	p.Arg62Leu	p.R62L	ENST00000277540	2/9	56	25	31	72	72	0	DPH7,missense_variant,p.Arg62Leu,ENST00000277540,;ZMYND19,downstream_gene_variant,,ENST00000298585,;DPH7,splice_region_variant,,ENST00000460572,;DPH7,non_coding_transcript_exon_variant,,ENST00000481839,;DPH7,non_coding_transcript_exon_variant,,ENST00000472113,;DPH7,intron_variant,,ENST00000470855,;DPH7,intron_variant,,ENST00000467768,;DPH7,intron_variant,,ENST00000479650,;DPH7,intron_variant,,ENST00000491359,;DPH7,intron_variant,,ENST00000476303,;DPH7,intron_variant,,ENST00000475100,;DPH7,upstream_gene_variant,,ENST00000485189,;DPH7,upstream_gene_variant,,ENST00000477690,;	A	ENSG00000148399	ENST00000277540	Transcript	missense_variant	343	185	62	R/L	cGt/cTt	rs754254763	.	.	-1	DPH7	HGNC	25199	protein_coding	YES	CCDS7047.1	ENSP00000277540	DPH7_HUMAN	.	UPI000006F34E	.	deleterious(0)	probably_damaging(0.999)	2/9	.	hmmpanther:PTHR22850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTAAACGGACC	.	3	BLCA
DPH7	0	.	GRCh37	9	140472031	140472031	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.178C>T	p.Gln60Ter	p.Q60*	ENST00000277540	2/9	56	25	31	66	66	0	DPH7,stop_gained,p.Gln60Ter,ENST00000277540,;ZMYND19,downstream_gene_variant,,ENST00000298585,;DPH7,splice_region_variant,,ENST00000460572,;DPH7,non_coding_transcript_exon_variant,,ENST00000481839,;DPH7,non_coding_transcript_exon_variant,,ENST00000472113,;DPH7,intron_variant,,ENST00000470855,;DPH7,intron_variant,,ENST00000467768,;DPH7,intron_variant,,ENST00000479650,;DPH7,intron_variant,,ENST00000491359,;DPH7,intron_variant,,ENST00000476303,;DPH7,intron_variant,,ENST00000475100,;DPH7,upstream_gene_variant,,ENST00000485189,;DPH7,upstream_gene_variant,,ENST00000477690,;	A	ENSG00000148399	ENST00000277540	Transcript	stop_gained	336	178	60	Q/*	Cag/Tag	.	.	.	-1	DPH7	HGNC	25199	protein_coding	YES	CCDS7047.1	ENSP00000277540	DPH7_HUMAN	.	UPI000006F34E	.	.	.	2/9	.	hmmpanther:PTHR22850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACCTGAGGCT	.	3	BLCA
TUBBP5	0	.	GRCh37	9	141070110	141070110	+	RNA	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.223C>G	.	.	ENST00000508529	3/4	49	23	25	83	83	0	TUBBP5,non_coding_transcript_exon_variant,,ENST00000290377,;TUBBP5,non_coding_transcript_exon_variant,,ENST00000503395,;TUBBP5,non_coding_transcript_exon_variant,,ENST00000508529,;	G	ENSG00000159247	ENST00000508529	Transcript	non_coding_transcript_exon_variant	223	.	.	.	.	.	.	.	1	TUBBP5	HGNC	23674	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S75S|c.225T>C|6,BUFFER|p.R77H|c.230G>A|6	RADIA|MUTECT|MUSE	GGACTCTGTGC	.	3	BLCA
PSIP1	0	.	GRCh37	9	15474136	15474140	+	Frame_Shift_Del	DEL	CTTAT	CTTAT	-	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	CTTAT	CTTAT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725_729delATAAG	p.Asp242AlafsTer7	p.D242Afs*7	ENST00000380733	9/16	171	89	82	179	179	0	PSIP1,frameshift_variant,p.Asp242AlafsTer7,ENST00000397519,;PSIP1,frameshift_variant,p.Asp242AlafsTer7,ENST00000380716,;PSIP1,frameshift_variant,p.Asp242AlafsTer7,ENST00000380715,;PSIP1,frameshift_variant,p.Asp242AlafsTer7,ENST00000380738,;PSIP1,frameshift_variant,p.Asp242AlafsTer7,ENST00000380733,;PSIP1,upstream_gene_variant,,ENST00000481862,;PSIP1,non_coding_transcript_exon_variant,,ENST00000495873,;	-	ENSG00000164985	ENST00000380733	Transcript	frameshift_variant	1069-1073	725-729	242-243	DK/X	gATAAG/g	.	.	.	-1	PSIP1	HGNC	9527	protein_coding	YES	CCDS6479.1	ENSP00000370109	PSIP1_HUMAN	Q8N4N4_HUMAN	UPI0000073FC4	.	.	.	9/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCTTGGCTTATCTTCT	.	3	BLCA
CCDC171	0	.	GRCh37	9	15848928	15848928	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3451G>A	p.Glu1151Lys	p.E1151K	ENST00000380701	23/26	61	54	6	75	75	0	CCDC171,missense_variant,p.Glu1151Lys,ENST00000297641,;CCDC171,missense_variant,p.Glu1151Lys,ENST00000380701,;CCDC171,missense_variant,p.Glu205Lys,ENST00000432954,;CCDC171,missense_variant,p.Glu391Lys,ENST00000449575,;CCDC171,non_coding_transcript_exon_variant,,ENST00000470191,;CCDC171,upstream_gene_variant,,ENST00000498725,;	A	ENSG00000164989	ENST00000380701	Transcript	missense_variant	3779	3451	1151	E/K	Gaa/Aaa	.	.	.	1	CCDC171	HGNC	29828	protein_coding	YES	CCDS6481.1	ENSP00000370077	CC171_HUMAN	Q8NCV3_HUMAN	UPI000021C44B	.	deleterious(0)	possibly_damaging(0.762)	23/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGTAGAAAAT	.	3	BLCA
ACER2	0	.	GRCh37	9	19435039	19435039	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460C>T	p.%3D	p.L154L	ENST00000340967	4/6	64	39	25	121	121	0	ACER2,synonymous_variant,p.%3D,ENST00000380376,;ACER2,synonymous_variant,p.%3D,ENST00000340967,;	T	ENSG00000177076	ENST00000340967	Transcript	synonymous_variant	486	460	154	L	Ctg/Ttg	.	.	.	1	ACER2	HGNC	23675	protein_coding	YES	CCDS34992.1	ENSP00000342609	ACER2_HUMAN	.	UPI000014042D	.	.	.	4/6	.	hmmpanther:PTHR12956:SF21,hmmpanther:PTHR12956,Pfam_domain:PF05875	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACCCTGGGA	.	5	BLCA
MIR876	0	.	GRCh37	9	28863668	28863668	+	RNA	SNP	A	A	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.37T>A	.	.	ENST00000401147	1/1	116	101	15	165	165	0	MIR876,non_coding_transcript_exon_variant,,ENST00000401147,;	T	ENSG00000215966	ENST00000401147	Transcript	non_coding_transcript_exon_variant	37	.	.	.	.	.	.	.	-1	MIR876	HGNC	33653	miRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTAGATAT	.	4	BLCA
KIF24	0	.	GRCh37	9	34257709	34257709	+	Silent	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1896C>A	p.%3D	p.G632G	ENST00000379166	11/13	32	25	7	48	48	0	KIF24,synonymous_variant,p.%3D,ENST00000345050,;KIF24,synonymous_variant,p.%3D,ENST00000379166,;KIF24,synonymous_variant,p.%3D,ENST00000402558,;KIF24,synonymous_variant,p.%3D,ENST00000379174,;	T	ENSG00000186638	ENST00000379166	Transcript	synonymous_variant	2016	1896	632	G	ggC/ggA	.	.	.	-1	KIF24	HGNC	19916	protein_coding	YES	CCDS6551.2	ENSP00000368464	KIF24_HUMAN	.	UPI00004F9D23	.	.	.	11/13	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGAGCCACC	.	5	BLCA
FBXO10	0	.	GRCh37	9	37537511	37537511	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015G>C	p.Glu339Gln	p.E339Q	ENST00000432825	3/11	18	14	4	18	18	0	FBXO10,missense_variant,p.Glu339Gln,ENST00000432825,;FBXO10,intron_variant,,ENST00000541829,;FBXO10,downstream_gene_variant,,ENST00000541607,;RP11-613M10.8,non_coding_transcript_exon_variant,,ENST00000544475,;RP11-613M10.8,intron_variant,,ENST00000541804,;FBXO10,upstream_gene_variant,,ENST00000543968,;FBXO10,missense_variant,p.Glu339Gln,ENST00000276960,;RP11-613M10.8,downstream_gene_variant,,ENST00000537239,;	G	ENSG00000147912	ENST00000432825	Transcript	missense_variant	1064	1015	339	E/Q	Gag/Cag	.	.	.	-1	FBXO10	HGNC	13589	protein_coding	YES	CCDS47966.1	ENSP00000403802	FBX10_HUMAN	Q08AL4_HUMAN,F5GXN9_HUMAN	UPI00001C1EC6	.	tolerated(0.43)	benign(0.36)	3/11	.	hmmpanther:PTHR22990	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCTGCCT	.	5	BLCA
CNTNAP3B	0	.	GRCh37	9	43816774	43816774	+	Missense_Mutation	SNP	C	C	G	rs765026699	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880C>G	p.His294Asp	p.H294D	ENST00000377564	6/24	127	109	17	129	129	0	CNTNAP3B,missense_variant,p.His294Asp,ENST00000377564,;CNTNAP3B,missense_variant,p.His294Asp,ENST00000276974,;CNTNAP3B,missense_variant,p.His294Asp,ENST00000479351,;CNTNAP3B,non_coding_transcript_exon_variant,,ENST00000341990,;CNTNAP3B,non_coding_transcript_exon_variant,,ENST00000377561,;	G	ENSG00000154529	ENST00000377564	Transcript	missense_variant	1273	880	294	H/D	Cat/Gat	rs765026699	.	.	1	CNTNAP3B	HGNC	32035	protein_coding	YES	CCDS55312.1	ENSP00000366787	CNT3B_HUMAN	.	UPI0000470399	.	deleterious(0)	probably_damaging(0.96)	6/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF612,hmmpanther:PTHR10127,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATCATTTC	byFrequency	4	BLCA
GDA	0	.	GRCh37	9	74828848	74828848	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519G>C	p.Leu173Phe	p.L173F	ENST00000238018	5/15	72	62	10	75	75	0	GDA,missense_variant,p.Leu173Phe,ENST00000358399,;GDA,missense_variant,p.Leu99Phe,ENST00000545168,;GDA,missense_variant,p.Leu131Phe,ENST00000376986,;GDA,missense_variant,p.Leu148Phe,ENST00000376989,;GDA,missense_variant,p.Leu173Phe,ENST00000238018,;GDA,5_prime_UTR_variant,,ENST00000414671,;GDA,non_coding_transcript_exon_variant,,ENST00000477618,;GDA,missense_variant,p.Leu173Phe,ENST00000475764,;	C	ENSG00000119125	ENST00000238018	Transcript	missense_variant	702	519	173	L/F	ttG/ttC	.	.	.	1	GDA	HGNC	4212	protein_coding	YES	CCDS56576.1	ENSP00000238018	GUAD_HUMAN	Q5SZC3_HUMAN,B4DIP8_HUMAN,B3KUM3_HUMAN	UPI000015828B	.	tolerated(0.24)	benign(0.035)	5/15	.	hmmpanther:PTHR11271:SF6,hmmpanther:PTHR11271,Pfam_domain:PF01979,Gene3D:3.20.20.140,TIGRFAM_domain:TIGR02967,Superfamily_domains:SSF51556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTGAATGA	.	4	BLCA
RORB	0	.	GRCh37	9	77286712	77286712	+	Silent	SNP	C	C	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1119C>A	p.%3D	p.A373A	ENST00000376896	9/10	78	33	45	81	81	0	RORB,synonymous_variant,p.%3D,ENST00000396204,;RORB,synonymous_variant,p.%3D,ENST00000376896,;	A	ENSG00000198963	ENST00000376896	Transcript	synonymous_variant	1731	1119	373	A	gcC/gcA	.	.	.	1	RORB	HGNC	10259	protein_coding	YES	CCDS6646.1	ENSP00000366093	RORB_HUMAN	Q58EY0_HUMAN	UPI000015FD94	.	.	.	9/10	.	Superfamily_domains:SSF48508,SMART_domains:SM00430,Pfam_domain:PF00104,Gene3D:1.10.565.10,hmmpanther:PTHR24082:SF206,hmmpanther:PTHR24082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAGCCTGGCT	.	5	BLCA
ARMCX2	0	.	GRCh37	X	100912251	100912251	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324G>C	p.Gln108His	p.Q108H	ENST00000328766	5/5	46	39	7	69	69	0	ARMCX2,missense_variant,p.Gln108His,ENST00000356824,;ARMCX2,missense_variant,p.Gln108His,ENST00000328766,;ARMCX2,missense_variant,p.Gln108His,ENST00000433318,;ARMCX2,missense_variant,p.Gln108His,ENST00000413506,;ARMCX2,missense_variant,p.Gln108His,ENST00000330154,;ARMCX2,downstream_gene_variant,,ENST00000431597,;ARMCX2,downstream_gene_variant,,ENST00000458024,;ARMCX2,downstream_gene_variant,,ENST00000440675,;ARMCX2,downstream_gene_variant,,ENST00000467416,;ARMCX2,downstream_gene_variant,,ENST00000488982,;ARMCX2,downstream_gene_variant,,ENST00000496581,;ARMCX2,downstream_gene_variant,,ENST00000475854,;ARMCX2,downstream_gene_variant,,ENST00000479333,;	G	ENSG00000184867	ENST00000328766	Transcript	missense_variant	778	324	108	Q/H	caG/caC	.	.	.	-1	ARMCX2	HGNC	16869	protein_coding	YES	CCDS14490.1	ENSP00000331662	ARMX2_HUMAN	Q5H9E1_HUMAN,Q5H9E0_HUMAN,Q5H9D8_HUMAN,Q5H9D7_HUMAN	UPI0000071305	.	tolerated_low_confidence(0.09)	benign(0.006)	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15712:SF9,hmmpanther:PTHR15712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTCTGAGC	.	5	BLCA
BHLHB9	0	.	GRCh37	X	102004502	102004502	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579G>A	p.%3D	p.V193V	ENST00000372735	4/4	134	101	32	178	178	0	BHLHB9,synonymous_variant,p.%3D,ENST00000448867,;BHLHB9,synonymous_variant,p.%3D,ENST00000372735,;BHLHB9,synonymous_variant,p.%3D,ENST00000447531,;BHLHB9,synonymous_variant,p.%3D,ENST00000457056,;BHLHB9,synonymous_variant,p.%3D,ENST00000361229,;BHLHB9,downstream_gene_variant,,ENST00000486988,;BHLHB9,downstream_gene_variant,,ENST00000483294,;	A	ENSG00000198908	ENST00000372735	Transcript	synonymous_variant	1164	579	193	V	gtG/gtA	.	.	.	1	BHLHB9	HGNC	29353	protein_coding	YES	CCDS14502.1	ENSP00000361820	BHLH9_HUMAN	.	UPI00001C1D50	.	.	.	4/4	.	hmmpanther:PTHR15712,hmmpanther:PTHR15712:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGTGAGCAG	.	5	BLCA
CXorf57	0	.	GRCh37	X	105855596	105855596	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>T	p.Asp96Tyr	p.D96Y	ENST00000372548	1/14	140	109	31	106	106	0	CXorf57,missense_variant,p.Asp96Tyr,ENST00000372548,;CXorf57,missense_variant,p.Asp96Tyr,ENST00000372544,;CXorf57,upstream_gene_variant,,ENST00000421550,;CXorf57,missense_variant,p.Asp96Tyr,ENST00000461251,;	T	ENSG00000147231	ENST00000372548	Transcript	missense_variant	395	286	96	D/Y	Gat/Tat	.	.	.	1	CXorf57	HGNC	25486	protein_coding	YES	CCDS14519.1	ENSP00000361628	CX057_HUMAN	.	UPI000021220A	.	deleterious(0)	probably_damaging(1)	1/14	.	hmmpanther:PTHR14944:SF2,hmmpanther:PTHR14944,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATGATGTG	.	5	BLCA
CT47B1	0	.	GRCh37	X	120008771	120008771	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.754G>C	p.Glu252Gln	p.E252Q	ENST00000371311	1/3	93	65	28	146	146	0	CT47B1,missense_variant,p.Glu252Gln,ENST00000371311,;CT47A12,downstream_gene_variant,,ENST00000419982,;CT47A12,downstream_gene_variant,,ENST00000416816,;RP1-321E8.4,upstream_gene_variant,,ENST00000604718,;	G	ENSG00000236446	ENST00000371311	Transcript	missense_variant	1009	754	252	E/Q	Gag/Cag	.	.	.	-1	CT47B1	HGNC	33293	protein_coding	YES	CCDS48161.1	ENSP00000360360	CT47B_HUMAN	.	UPI000036776D	.	tolerated(0.7)	unknown(0)	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR32157:SF3,hmmpanther:PTHR32157,Pfam_domain:PF15623	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCTGAGG	.	5	BLCA
UTP14A	0	.	GRCh37	X	129042668	129042668	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>A	p.Glu66Lys	p.E66K	ENST00000394422	4/15	209	157	51	249	249	0	UTP14A,missense_variant,p.Glu66Lys,ENST00000394422,;UTP14A,missense_variant,p.Glu66Lys,ENST00000425117,;UTP14A,intron_variant,,ENST00000371051,;UTP14A,upstream_gene_variant,,ENST00000371042,;UTP14A,upstream_gene_variant,,ENST00000427972,;RP4-537K23.4,intron_variant,,ENST00000432062,;	A	ENSG00000156697	ENST00000394422	Transcript	missense_variant	224	196	66	E/K	Gag/Aag	.	.	.	1	UTP14A	HGNC	10665	protein_coding	YES	CCDS14615.1	ENSP00000377944	UT14A_HUMAN	.	UPI0000072A7B	.	deleterious(0)	probably_damaging(1)	4/15	.	hmmpanther:PTHR14150:SF14,hmmpanther:PTHR14150,Pfam_domain:PF04615	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTGAGGCT	.	5	BLCA
ATXN3L	0	.	GRCh37	X	13336909	13336909	+	3'UTR	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*77C>T	.	.	ENST00000380622	1/1	22	19	3	8	8	0	ATXN3L,3_prime_UTR_variant,,ENST00000380622,;GS1-600G8.3,splice_region_variant,,ENST00000431486,;	A	ENSG00000123594	ENST00000380622	Transcript	3_prime_UTR_variant	1610	.	.	.	.	.	.	.	-1	ATXN3L	HGNC	24173	protein_coding	YES	CCDS48080.1	ENSP00000369996	ATX3L_HUMAN	.	UPI00001C2065	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGATGACCAA	.	2	BLCA
ZNF75D	0	.	GRCh37	X	134427833	134427833	+	Silent	SNP	C	C	T	.	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234G>A	p.%3D	p.L78L	ENST00000370766	3/7	56	36	20	56	56	0	ZNF75D,synonymous_variant,p.%3D,ENST00000370764,;ZNF75D,synonymous_variant,p.%3D,ENST00000370766,;ZNF75D,intron_variant,,ENST00000494295,;ZNF75D,upstream_gene_variant,,ENST00000469456,;	T	ENSG00000186376	ENST00000370766	Transcript	synonymous_variant	2944	234	78	L	ctG/ctA	COSM456788	.	.	-1	ZNF75D	HGNC	13145	protein_coding	YES	CCDS14648.1	ENSP00000359802	ZN75D_HUMAN	.	UPI000022DD3A	.	.	.	3/7	.	PROSITE_profiles:PS50804,hmmpanther:PTHR23226,hmmpanther:PTHR23226:SF43,Pfam_domain:PF02023,SMART_domains:SM00431,Superfamily_domains:SSF47353	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCAGCCA	.	5	BLCA
TKTL1	0	.	GRCh37	X	153549220	153549220	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1146C>T	p.%3D	p.S382S	ENST00000369915	8/13	73	38	35	97	97	0	TKTL1,synonymous_variant,p.%3D,ENST00000217905,;TKTL1,synonymous_variant,p.%3D,ENST00000369912,;TKTL1,synonymous_variant,p.%3D,ENST00000369915,;TKTL1,non_coding_transcript_exon_variant,,ENST00000465168,;	T	ENSG00000007350	ENST00000369915	Transcript	synonymous_variant	1335	1146	382	S	agC/agT	.	.	.	1	TKTL1	HGNC	11835	protein_coding	YES	CCDS35448.1	ENSP00000358931	TKTL1_HUMAN	Q5TYJ8_HUMAN,B7Z7I0_HUMAN	UPI0000211D08	.	.	.	8/13	.	hmmpanther:PTHR11624,hmmpanther:PTHR11624:SF53,Pfam_domain:PF02779,Gene3D:3.40.50.970,SMART_domains:SM00861,Superfamily_domains:SSF52518	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAGCAACAT	.	5	BLCA
FAM47B	0	.	GRCh37	X	34961455	34961455	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507G>A	p.%3D	p.R169R	ENST00000329357	1/1	26	7	19	23	23	0	FAM47B,synonymous_variant,p.%3D,ENST00000329357,;	A	ENSG00000189132	ENST00000329357	Transcript	synonymous_variant	543	507	169	R	cgG/cgA	.	.	.	1	FAM47B	HGNC	26659	protein_coding	YES	CCDS14236.1	ENSP00000328307	FA47B_HUMAN	.	UPI000013F47B	.	.	.	1/1	.	hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF192,Pfam_domain:PF14642	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCGGGAGAA	.	5	BLCA
IQSEC2	0	.	GRCh37	X	53268444	53268444	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3048G>C	p.Leu1016Phe	p.L1016F	ENST00000396435	11/15	27	15	12	27	27	0	IQSEC2,missense_variant,p.Leu811Phe,ENST00000375365,;IQSEC2,missense_variant,p.Leu1006Phe,ENST00000375368,;IQSEC2,missense_variant,p.Leu1016Phe,ENST00000396435,;	G	ENSG00000124313	ENST00000396435	Transcript	missense_variant	3249	3048	1016	L/F	ttG/ttC	.	.	.	-1	IQSEC2	HGNC	29059	protein_coding	YES	CCDS48130.1	ENSP00000379712	IQEC2_HUMAN	C7SDG2_HUMAN	UPI00001C207D	.	tolerated(0.22)	possibly_damaging(0.759)	11/15	.	hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF61,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTCACCAAGAT	.	4	BLCA
KIAA2022	0	.	GRCh37	X	73962300	73962300	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2092G>A	p.Asp698Asn	p.D698N	ENST00000055682	3/4	31	25	6	43	43	0	KIAA2022,missense_variant,p.Asp698Asn,ENST00000055682,;KIAA2022,upstream_gene_variant,,ENST00000424929,;	T	ENSG00000050030	ENST00000055682	Transcript	missense_variant	2704	2092	698	D/N	Gac/Aac	.	.	.	-1	KIAA2022	HGNC	29433	protein_coding	YES	CCDS35337.1	ENSP00000055682	K2022_HUMAN	.	UPI00001C207B	.	tolerated(0.48)	benign(0.179)	3/4	.	hmmpanther:PTHR10322:SF2,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGAGTCAGGGC	.	4	BLCA
ZCCHC5	0	.	GRCh37	X	77913854	77913854	+	Missense_Mutation	SNP	G	G	C	rs775076209	.	TCGA-4Z-AA80-01A-11D-A391-08	TCGA-4Z-AA80-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.64C>G	p.Gln22Glu	p.Q22E	ENST00000321110	2/2	18	13	4	29	29	0	ZCCHC5,missense_variant,p.Gln22Glu,ENST00000321110,;	C	ENSG00000179300	ENST00000321110	Transcript	missense_variant	360	64	22	Q/E	Caa/Gaa	rs775076209	.	.	-1	ZCCHC5	HGNC	22997	protein_coding	YES	CCDS14440.1	ENSP00000316794	ZCHC5_HUMAN	.	UPI00000710DD	.	deleterious_low_confidence(0)	benign(0.375)	2/2	.	hmmpanther:PTHR15503:SF7,hmmpanther:PTHR15503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R19W|c.55C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTTGAGCCT	.	5	BLCA
ATRNL1	0	.	GRCh37	10	116889240	116889240	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772C>T	p.His258Tyr	p.H258Y	ENST00000355044	5/29	53	47	6	63	63	0	ATRNL1,missense_variant,p.His258Tyr,ENST00000527407,;ATRNL1,missense_variant,p.His258Tyr,ENST00000355044,;ATRNL1,missense_variant,p.His191Tyr,ENST00000526946,;ATRNL1,non_coding_transcript_exon_variant,,ENST00000529665,;ATRNL1,non_coding_transcript_exon_variant,,ENST00000485327,;	T	ENSG00000107518	ENST00000355044	Transcript	missense_variant	898	772	258	H/Y	Cac/Tac	.	.	.	1	ATRNL1	HGNC	29063	protein_coding	YES	CCDS7592.1	ENSP00000347152	ATRN1_HUMAN	.	UPI000021CCF8	.	deleterious(0.01)	possibly_damaging(0.901)	5/29	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF224,Pfam_domain:PF07974,Gene3D:2gy5A03	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGATCACGGT	.	4	BLCA
KNDC1	0	.	GRCh37	10	135025326	135025326	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4200C>G	p.%3D	p.L1400L	ENST00000304613	23/30	17	14	3	30	30	0	KNDC1,synonymous_variant,p.%3D,ENST00000304613,;KNDC1,synonymous_variant,p.%3D,ENST00000368572,;KNDC1,downstream_gene_variant,,ENST00000368571,;	G	ENSG00000171798	ENST00000304613	Transcript	synonymous_variant	4221	4200	1400	L	ctC/ctG	.	.	.	1	KNDC1	HGNC	29374	protein_coding	YES	CCDS7674.1	ENSP00000304437	VKIND_HUMAN	B4DFN0_HUMAN	UPI00003529F7	.	.	.	23/30	.	hmmpanther:PTHR21560:SF0,hmmpanther:PTHR21560	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCTGTAA	.	2	BLCA
MLLT10	0	.	GRCh37	10	22021945	22021945	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2336C>T	p.Ser779Leu	p.S779L	ENST00000307729	18/23	63	48	15	67	67	0	MLLT10,missense_variant,p.Ser779Leu,ENST00000446906,;MLLT10,missense_variant,p.Ser779Leu,ENST00000377059,;MLLT10,missense_variant,p.Ser779Leu,ENST00000307729,;MLLT10,missense_variant,p.Ser795Leu,ENST00000377072,;MLLT10,downstream_gene_variant,,ENST00000438473,;	T	ENSG00000078403	ENST00000307729	Transcript	missense_variant	2514	2336	779	S/L	tCa/tTa	COSM458857,COSM1134420	.	.	1	MLLT10	HGNC	16063	protein_coding	YES	CCDS55708.1	ENSP00000307411	AF10_HUMAN	Q71UR7_HUMAN,B4DVS6_HUMAN	UPI00001F8FF7	.	deleterious(0)	probably_damaging(0.996)	18/23	.	hmmpanther:PTHR13793,hmmpanther:PTHR13793:SF86	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCAGTGC	.	5	BLCA
ZEB1	0	.	GRCh37	10	31809791	31809791	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1531G>A	p.Glu511Lys	p.E511K	ENST00000361642	7/9	102	96	6	75	75	0	ZEB1,missense_variant,p.Glu490Lys,ENST00000560721,;ZEB1,missense_variant,p.Glu494Lys,ENST00000446923,;ZEB1,missense_variant,p.Glu511Lys,ENST00000361642,;ZEB1,missense_variant,p.Glu510Lys,ENST00000320985,;ZEB1,missense_variant,p.Glu443Lys,ENST00000542815,;ZEB1,downstream_gene_variant,,ENST00000424869,;ZEB1,downstream_gene_variant,,ENST00000558440,;ZEB1,downstream_gene_variant,,ENST00000559476,;ZEB1,downstream_gene_variant,,ENST00000561212,;ZEB1,non_coding_transcript_exon_variant,,ENST00000559858,;ZEB1,3_prime_UTR_variant,,ENST00000437844,;ZEB1,non_coding_transcript_exon_variant,,ENST00000542879,;ZEB1,non_coding_transcript_exon_variant,,ENST00000488625,;ZEB1,non_coding_transcript_exon_variant,,ENST00000558655,;ZEB1,downstream_gene_variant,,ENST00000558863,;	A	ENSG00000148516	ENST00000361642	Transcript	missense_variant	1594	1531	511	E/K	Gaa/Aaa	.	.	.	1	ZEB1	HGNC	11642	protein_coding	YES	CCDS53505.1	ENSP00000354487	ZEB1_HUMAN	F6TDF5_HUMAN	UPI000068F51D	.	tolerated(0.06)	possibly_damaging(0.624)	7/9	.	hmmpanther:PTHR13919,hmmpanther:PTHR13919:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TACCAGAAGAT	.	2	BLCA
FRMPD2	0	.	GRCh37	10	49393641	49393641	+	Missense_Mutation	SNP	C	C	T	rs748676341	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2314G>A	p.Glu772Lys	p.E772K	ENST00000374201	18/29	64	52	11	79	79	0	FRMPD2,missense_variant,p.Glu772Lys,ENST00000374201,;FRMPD2,missense_variant,p.Glu740Lys,ENST00000407470,;FRMPD2,missense_variant,p.Glu747Lys,ENST00000305531,;FRMPD2,downstream_gene_variant,,ENST00000494505,;FRMPD2,non_coding_transcript_exon_variant,,ENST00000486151,;	T	ENSG00000170324	ENST00000374201	Transcript	missense_variant	2617	2314	772	E/K	Gaa/Aaa	rs748676341,COSM1347941,COSM684202	.	.	-1	FRMPD2	HGNC	28572	protein_coding	YES	CCDS31195.1	ENSP00000363317	FRPD2_HUMAN	.	UPI0000D60F5F	.	deleterious(0)	possibly_damaging(0.637)	18/29	.	hmmpanther:PTHR19964:SF42,hmmpanther:PTHR19964,Gene3D:2.30.42.10,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTCTCGGC	.	5	BLCA
NCAM1	0	.	GRCh37	11	113102514	113102514	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1384C>T	p.Gln462Ter	p.Q462*	ENST00000524665	9/19	68	59	9	84	84	0	NCAM1,stop_gained,p.Gln448Ter,ENST00000534015,;NCAM1,stop_gained,p.Gln462Ter,ENST00000524665,;NCAM1,stop_gained,p.Gln412Ter,ENST00000401611,;NCAM1,stop_gained,p.Gln285Ter,ENST00000533760,;NCAM1,stop_gained,p.Gln403Ter,ENST00000316851,;NCAM1,non_coding_transcript_exon_variant,,ENST00000527506,;NCAM1,non_coding_transcript_exon_variant,,ENST00000528742,;NCAM1,non_coding_transcript_exon_variant,,ENST00000397957,;NCAM1,non_coding_transcript_exon_variant,,ENST00000531044,;NCAM1,non_coding_transcript_exon_variant,,ENST00000531915,;NCAM1,intron_variant,,ENST00000526427,;NCAM1,upstream_gene_variant,,ENST00000530543,;NCAM1,upstream_gene_variant,,ENST00000533073,;NCAM1,upstream_gene_variant,,ENST00000526322,;NCAM1,upstream_gene_variant,,ENST00000528590,;NCAM1,non_coding_transcript_exon_variant,,ENST00000534046,;NCAM1,upstream_gene_variant,,ENST00000531817,;NCAM1,upstream_gene_variant,,ENST00000525355,;	T	ENSG00000149294	ENST00000524665	Transcript	stop_gained	1384	1384	462	Q/*	Caa/Taa	.	.	.	1	NCAM1	HGNC	7656	protein_coding	YES	.	ENSP00000474028	.	S4R389_HUMAN	UPI000333505F	.	.	.	9/19	.	Superfamily_domains:SSF48726,Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF34,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTGCAATGT	.	4	BLCA
TMPRSS4	0	.	GRCh37	11	117969724	117969724	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.68G>A	p.Arg23His	p.R23H	ENST00000437212	3/13	35	29	6	72	72	0	TMPRSS4,missense_variant,p.Arg23His,ENST00000437212,;TMPRSS4,missense_variant,p.Arg21His,ENST00000534111,;TMPRSS4,missense_variant,p.Arg21His,ENST00000522151,;TMPRSS4,missense_variant,p.Arg23His,ENST00000522824,;TMPRSS4,5_prime_UTR_variant,,ENST00000522307,;TMPRSS4,intron_variant,,ENST00000523251,;TMPRSS4,upstream_gene_variant,,ENST00000517544,;TMPRSS4,missense_variant,p.Arg21His,ENST00000519236,;TMPRSS4,synonymous_variant,p.%3D,ENST00000517483,;TMPRSS4,non_coding_transcript_exon_variant,,ENST00000520063,;TMPRSS4,intron_variant,,ENST00000522462,;TMPRSS4,upstream_gene_variant,,ENST00000519813,;TMPRSS4,downstream_gene_variant,,ENST00000519126,;	A	ENSG00000137648	ENST00000437212	Transcript	missense_variant	282	68	23	R/H	cGt/cAt	.	.	.	1	TMPRSS4	HGNC	11878	protein_coding	YES	CCDS31684.1	ENSP00000416037	TMPS4_HUMAN	.	UPI00001FA467	.	deleterious(0.02)	possibly_damaging(0.563)	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCCGTATCC	.	4	BLCA
SLC5A12	0	.	GRCh37	11	26725110	26725110	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.789C>T	p.%3D	p.C263C	ENST00000396005	6/15	113	94	19	122	122	0	SLC5A12,synonymous_variant,p.%3D,ENST00000280467,;SLC5A12,synonymous_variant,p.%3D,ENST00000533617,;SLC5A12,synonymous_variant,p.%3D,ENST00000396005,;SLC5A12,synonymous_variant,p.%3D,ENST00000527405,;	A	ENSG00000148942	ENST00000396005	Transcript	synonymous_variant	1099	789	263	C	tgC/tgT	.	.	.	-1	SLC5A12	HGNC	28750	protein_coding	YES	CCDS7860.2	ENSP00000379326	SC5AC_HUMAN	E9PLZ7_HUMAN	UPI000003ED2C	.	.	.	6/15	.	hmmpanther:PTHR11819,Pfam_domain:PF00474,hmmpanther:PTHR11819:SF113,PROSITE_profiles:PS50283,TIGRFAM_domain:TIGR00813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATGCATCG	.	5	BLCA
CDHR5	0	.	GRCh37	11	618839	618839	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720C>T	p.Pro574Ser	p.P574S	ENST00000358353	14/16	128	103	25	168	168	0	CDHR5,missense_variant,p.Pro574Ser,ENST00000397542,;CDHR5,missense_variant,p.Pro574Ser,ENST00000358353,;CDHR5,intron_variant,,ENST00000349570,;IRF7,upstream_gene_variant,,ENST00000330243,;IRF7,upstream_gene_variant,,ENST00000397566,;IRF7,upstream_gene_variant,,ENST00000348655,;IRF7,upstream_gene_variant,,ENST00000525445,;CDHR5,downstream_gene_variant,,ENST00000534311,;IRF7,upstream_gene_variant,,ENST00000397570,;CDHR5,downstream_gene_variant,,ENST00000526077,;IRF7,upstream_gene_variant,,ENST00000397562,;CDHR5,downstream_gene_variant,,ENST00000531088,;IRF7,upstream_gene_variant,,ENST00000397574,;CDHR5,downstream_gene_variant,,ENST00000532949,;CDHR5,3_prime_UTR_variant,,ENST00000531177,;IRF7,upstream_gene_variant,,ENST00000527160,;IRF7,upstream_gene_variant,,ENST00000532326,;IRF7,upstream_gene_variant,,ENST00000528413,;IRF7,upstream_gene_variant,,ENST00000532096,;IRF7,upstream_gene_variant,,ENST00000532788,;IRF7,upstream_gene_variant,,ENST00000469048,;IRF7,upstream_gene_variant,,ENST00000533182,;CDHR5,downstream_gene_variant,,ENST00000531899,;IRF7,upstream_gene_variant,,ENST00000525750,;IRF7,upstream_gene_variant,,ENST00000533190,;	A	ENSG00000099834	ENST00000358353	Transcript	missense_variant	2043	1720	574	P/S	Cca/Tca	.	.	.	-1	CDHR5	HGNC	7521	protein_coding	YES	CCDS7707.1	ENSP00000351118	CDHR5_HUMAN	.	UPI0000456444	.	tolerated(0.13)	possibly_damaging(0.803)	14/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGGGGTCT	.	5	BLCA
SF1	0	.	GRCh37	11	64537454	64537454	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.836G>C	p.Gly279Ala	p.G279A	ENST00000377387	5/13	53	9	44	50	50	0	SF1,missense_variant,p.Gly154Ala,ENST00000227503,;SF1,missense_variant,p.Gly154Ala,ENST00000377390,;SF1,missense_variant,p.Gly39Ala,ENST00000422298,;SF1,missense_variant,p.Gly154Ala,ENST00000377394,;SF1,missense_variant,p.Gly154Ala,ENST00000334944,;SF1,missense_variant,p.Gly279Ala,ENST00000377387,;SF1,missense_variant,p.Gly128Ala,ENST00000433274,;SF1,upstream_gene_variant,,ENST00000443908,;SF1,downstream_gene_variant,,ENST00000432725,;SF1,upstream_gene_variant,,ENST00000486867,;SF1,upstream_gene_variant,,ENST00000413725,;SF1,non_coding_transcript_exon_variant,,ENST00000496969,;SF1,upstream_gene_variant,,ENST00000489544,;SF1,3_prime_UTR_variant,,ENST00000448404,;SF1,non_coding_transcript_exon_variant,,ENST00000486960,;SF1,upstream_gene_variant,,ENST00000477596,;SF1,downstream_gene_variant,,ENST00000482693,;SF1,downstream_gene_variant,,ENST00000413951,;	G	ENSG00000168066	ENST00000377387	Transcript	missense_variant	913	836	279	G/A	gGg/gCg	.	.	.	-1	SF1	HGNC	12950	protein_coding	YES	CCDS53661.1	ENSP00000366604	SF01_HUMAN	Q14821_HUMAN,C9J792_HUMAN,B4DX42_HUMAN	UPI0000074300	.	deleterious(0)	probably_damaging(0.999)	5/13	.	PROSITE_profiles:PS50084,hmmpanther:PTHR11208,hmmpanther:PTHR11208:SF45,Gene3D:3.30.1370.10,Pfam_domain:PF00013,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGCCCCACA	.	5	BLCA
DNHD1	0	.	GRCh37	11	6588265	6588265	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11526G>C	p.Gln3842His	p.Q3842H	ENST00000254579	36/43	39	36	3	69	69	0	DNHD1,missense_variant,p.Gln3842His,ENST00000254579,;DNHD1,missense_variant,p.Gln90His,ENST00000525080,;DNHD1,missense_variant,p.Gln3842His,ENST00000527990,;DNHD1,upstream_gene_variant,,ENST00000527143,;DNHD1,non_coding_transcript_exon_variant,,ENST00000529821,;DNHD1,non_coding_transcript_exon_variant,,ENST00000525883,;DNHD1,non_coding_transcript_exon_variant,,ENST00000530197,;DNHD1,non_coding_transcript_exon_variant,,ENST00000533635,;DNHD1,intron_variant,,ENST00000534210,;DNHD1,downstream_gene_variant,,ENST00000526027,;DNHD1,downstream_gene_variant,,ENST00000524401,;DNHD1,downstream_gene_variant,,ENST00000531903,;DNHD1,upstream_gene_variant,,ENST00000532467,;	C	ENSG00000179532	ENST00000254579	Transcript	missense_variant	12090	11526	3842	Q/H	caG/caC	.	.	.	1	DNHD1	HGNC	26532	protein_coding	YES	CCDS44532.1	ENSP00000254579	DNHD1_HUMAN	.	UPI0001929529	.	.	possibly_damaging(0.717)	36/43	.	hmmpanther:PTHR10676:SF244,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTACAGGAGAT	.	2	BLCA
SPTBN2	0	.	GRCh37	11	66469126	66469126	+	Silent	SNP	G	G	T	rs144636685	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2745C>A	p.%3D	p.A915A	ENST00000533211	16/38	96	44	51	127	126	0	SPTBN2,synonymous_variant,p.%3D,ENST00000533211,;SPTBN2,synonymous_variant,p.%3D,ENST00000309996,;SPTBN2,synonymous_variant,p.%3D,ENST00000529997,;SPTBN2,upstream_gene_variant,,ENST00000530665,;	T	ENSG00000173898	ENST00000533211	Transcript	synonymous_variant	3077	2745	915	A	gcC/gcA	rs144636685,COSM1127672	.	.	-1	SPTBN2	HGNC	11276	protein_coding	YES	CCDS8150.1	ENSP00000432568	SPTN2_HUMAN	E9PJZ2_HUMAN,C1KC08_HUMAN	UPI000013EF83	.	.	.	16/38	.	Superfamily_domains:SSF46966,PIRSF_domain:PIRSF002297,SMART_domains:SM00150,Gene3D:1.20.58.60,Pfam_domain:PF00435,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF205	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTCGGCAAT	byFrequency|byCluster	5	BLCA
KIAA1731	0	.	GRCh37	11	93464713	93464713	+	3'Flank	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000325212	.	65	46	18	71	71	0	KIAA1731,downstream_gene_variant,,ENST00000531404,;KIAA1731,downstream_gene_variant,,ENST00000344196,;KIAA1731,downstream_gene_variant,,ENST00000325212,;KIAA1731,downstream_gene_variant,,ENST00000411936,;KIAA1731,downstream_gene_variant,,ENST00000531700,;KIAA1731,downstream_gene_variant,,ENST00000529185,;TAF1D,downstream_gene_variant,,ENST00000448108,;SNORD6,non_coding_transcript_exon_variant,,ENST00000365444,;SNORA1,downstream_gene_variant,,ENST00000384107,;MIR1304,downstream_gene_variant,,ENST00000408243,;SNORD5,downstream_gene_variant,,ENST00000459342,;SNORA8,downstream_gene_variant,,ENST00000384574,;SNORA32,upstream_gene_variant,,ENST00000384072,;SNORA40,downstream_gene_variant,,ENST00000388090,;SNORA18,downstream_gene_variant,,ENST00000384416,;SNORA25,upstream_gene_variant,,ENST00000384384,;TAF1D,intron_variant,,ENST00000546088,;TAF1D,intron_variant,,ENST00000530089,;TAF1D,intron_variant,,ENST00000540232,;TAF1D,intron_variant,,ENST00000393259,;TAF1D,intron_variant,,ENST00000526015,;TAF1D,intron_variant,,ENST00000530769,;TAF1D,intron_variant,,ENST00000323981,;TAF1D,intron_variant,,ENST00000529435,;TAF1D,intron_variant,,ENST00000529900,;TAF1D,intron_variant,,ENST00000527169,;TAF1D,intron_variant,,ENST00000534079,;TAF1D,intron_variant,,ENST00000525928,;TAF1D,downstream_gene_variant,,ENST00000533794,;TAF1D,downstream_gene_variant,,ENST00000528734,;TAF1D,downstream_gene_variant,,ENST00000527068,;TAF1D,downstream_gene_variant,,ENST00000529794,;	C	ENSG00000166004	ENST00000325212	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1191	1	KIAA1731	HGNC	29366	protein_coding	YES	CCDS44708.1	ENSP00000316681	K1731_HUMAN	E9PM20_HUMAN	UPI0000251F0E	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTGAACAT	.	5	BLCA
TBX5	0	.	GRCh37	12	114793788	114793788	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1106G>A	p.Arg369Lys	p.R369K	ENST00000310346	9/9	66	48	18	76	76	0	TBX5,missense_variant,p.Arg369Lys,ENST00000405440,;TBX5,missense_variant,p.Arg319Lys,ENST00000349716,;TBX5,missense_variant,p.Arg369Lys,ENST00000310346,;	T	ENSG00000089225	ENST00000310346	Transcript	missense_variant	1773	1106	369	R/K	aGg/aAg	.	.	.	-1	TBX5	HGNC	11604	protein_coding	YES	CCDS9173.1	ENSP00000309913	TBX5_HUMAN	.	UPI0000136AA2	.	tolerated(0.9)	benign(0.404)	9/9	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTCCTGTAG	.	5	BLCA
NOS1	0	.	GRCh37	12	117662915	117662915	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3834C>T	p.%3D	p.N1278N	ENST00000338101	25/29	114	101	13	126	126	0	NOS1,synonymous_variant,p.%3D,ENST00000317775,;NOS1,synonymous_variant,p.%3D,ENST00000338101,;NOS1,3_prime_UTR_variant,,ENST00000344089,;	A	ENSG00000089250	ENST00000338101	Transcript	synonymous_variant	3839	3834	1278	N	aaC/aaT	.	.	.	-1	NOS1	HGNC	7872	protein_coding	YES	CCDS55890.1	ENSP00000337459	NOS1_HUMAN	A0PJJ7_HUMAN	UPI00001FBC10	.	.	.	25/29	.	Superfamily_domains:SSF52343,PIRSF_domain:PIRSF000333,Gene3D:2.40.30.10,hmmpanther:PTHR19384,hmmpanther:PTHR19384:SF63	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGGGTTCCG	.	4	BLCA
ULK1	0	.	GRCh37	12	132403819	132403819	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2574G>A	p.%3D	p.L858L	ENST00000321867	24/28	18	7	11	20	20	0	ULK1,synonymous_variant,p.%3D,ENST00000540647,;ULK1,synonymous_variant,p.%3D,ENST00000541761,;ULK1,synonymous_variant,p.%3D,ENST00000321867,;ULK1,non_coding_transcript_exon_variant,,ENST00000544718,;ULK1,upstream_gene_variant,,ENST00000540568,;	A	ENSG00000177169	ENST00000321867	Transcript	synonymous_variant	2925	2574	858	L	ctG/ctA	.	.	.	1	ULK1	HGNC	12558	protein_coding	YES	CCDS9274.1	ENSP00000324560	ULK1_HUMAN	F5H4E9_HUMAN,F5H1S7_HUMAN,F5GZQ0_HUMAN	UPI00001FB0D9	.	.	.	24/28	.	hmmpanther:PTHR24348:SF19,hmmpanther:PTHR24348,Pfam_domain:PF12063,PIRSF_domain:PIRSF000580	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTGGAGAT	.	5	BLCA
C12orf60	0	.	GRCh37	12	14975857	14975857	+	5'UTR	DEL	A	A	-	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-13delA	.	.	ENST00000330828	2/2	73	65	8	61	61	0	C12orf60,5_prime_UTR_variant,,ENST00000330828,;ART4,downstream_gene_variant,,ENST00000228936,;C12orf60,intron_variant,,ENST00000527783,;C12orf60,intron_variant,,ENST00000533472,;	-	ENSG00000182993	ENST00000330828	Transcript	5_prime_UTR_variant	192	.	.	.	.	.	.	.	1	C12orf60	HGNC	28726	protein_coding	YES	CCDS8667.1	ENSP00000331691	CL060_HUMAN	.	UPI00001608A3	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAACTTATTTGT	.	3	BLCA
SLCO1B7	0	.	GRCh37	12	21196285	21196285	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.604C>A	p.Pro202Thr	p.P202T	ENST00000421593	6/13	138	119	18	132	132	0	SLCO1B7,missense_variant,p.Pro249Thr,ENST00000554957,;LST3,missense_variant,p.Pro249Thr,ENST00000381541,;SLCO1B7,missense_variant,p.Pro202Thr,ENST00000421593,;SLCO1B3,intron_variant,,ENST00000553473,;LST3,intron_variant,,ENST00000540229,;RP11-125O5.2,upstream_gene_variant,,ENST00000543498,;	A	ENSG00000205754	ENST00000421593	Transcript	missense_variant	604	604	202	P/T	Cct/Act	.	.	.	1	SLCO1B7	HGNC	32934	protein_coding	YES	CCDS44843.1	ENSP00000394168	SO1B7_HUMAN	.	UPI0000E5E120	.	deleterious(0.03)	possibly_damaging(0.797)	6/13	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11388:SF78,hmmpanther:PTHR11388,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAACTCCTAAG	.	4	BLCA
BCDIN3D	0	.	GRCh37	12	50232060	50232060	+	3'UTR	SNP	C	C	T	rs774213820	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*94G>A	.	.	ENST00000333924	2/2	47	43	4	40	40	0	BCDIN3D,3_prime_UTR_variant,,ENST00000333924,;BCDIN3D-AS1,intron_variant,,ENST00000549124,;BCDIN3D-AS1,intron_variant,,ENST00000548872,;BCDIN3D,downstream_gene_variant,,ENST00000550861,;	T	ENSG00000186666	ENST00000333924	Transcript	3_prime_UTR_variant	1015	.	.	.	.	rs774213820	.	.	-1	BCDIN3D	HGNC	27050	protein_coding	YES	CCDS8790.1	ENSP00000335201	BN3D2_HUMAN	.	UPI0000160802	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTTGCGGCTG	.	3	BLCA
CD163L1	0	.	GRCh37	12	7551149	7551149	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440G>A	p.%3D	p.G480G	ENST00000313599	7/20	39	32	6	52	52	0	CD163L1,synonymous_variant,p.%3D,ENST00000416109,;CD163L1,synonymous_variant,p.%3D,ENST00000313599,;CD163L1,synonymous_variant,p.%3D,ENST00000396630,;CD163L1,intron_variant,,ENST00000545926,;	T	ENSG00000177675	ENST00000313599	Transcript	synonymous_variant	1498	1440	480	G	ggG/ggA	.	.	.	-1	CD163L1	HGNC	30375	protein_coding	YES	CCDS8577.1	ENSP00000315945	C163B_HUMAN	F5H7R7_HUMAN	UPI000013F5AD	.	.	.	7/20	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331:SF260,hmmpanther:PTHR19331,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAGCCCCGAC	.	2	BLCA
C1QTNF9B	0	.	GRCh37	13	24466043	24466043	+	Silent	SNP	G	G	A	rs147006375	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387C>T	p.%3D	p.D129D	ENST00000382137	3/3	33	19	14	38	37	1	C1QTNF9B,synonymous_variant,p.%3D,ENST00000382137,;C1QTNF9B,synonymous_variant,p.%3D,ENST00000382140,;C1QTNF9B,intron_variant,,ENST00000382145,;C1QTNF9B,intron_variant,,ENST00000382057,;MIPEP,upstream_gene_variant,,ENST00000382172,;C1QTNF9B-AS1,non_coding_transcript_exon_variant,,ENST00000435039,;C1QTNF9B-AS1,non_coding_transcript_exon_variant,,ENST00000382133,;C1QTNF9B-AS1,intron_variant,,ENST00000417034,;C1QTNF9B,intron_variant,,ENST00000556521,;MIPEP,upstream_gene_variant,,ENST00000469167,;	A	ENSG00000205863	ENST00000382137	Transcript	synonymous_variant	456	387	129	D	gaC/gaT	rs147006375	.	.	-1	C1QTNF9B	HGNC	34072	protein_coding	YES	CCDS31947.1	ENSP00000371572	C1T9B_HUMAN	.	UPI000004F070	.	.	.	3/3	.	hmmpanther:PTHR24022:SF73,hmmpanther:PTHR24022	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|VARSCANS	CCCACGTCACC	byFrequency|byCluster	3	BLCA
PDS5B	0	.	GRCh37	13	33222947	33222947	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.38T>A	p.Ile13Asn	p.I13N	ENST00000315596	2/35	61	45	16	85	85	0	PDS5B,missense_variant,p.Ile13Asn,ENST00000315596,;PDS5B,missense_variant,p.Ile13Asn,ENST00000450460,;PDS5B,non_coding_transcript_exon_variant,,ENST00000482955,;PDS5B,non_coding_transcript_exon_variant,,ENST00000493653,;PDS5B,non_coding_transcript_exon_variant,,ENST00000466078,;PDS5B,non_coding_transcript_exon_variant,,ENST00000498550,;	A	ENSG00000083642	ENST00000315596	Transcript	missense_variant	224	38	13	I/N	aTt/aAt	.	.	.	1	PDS5B	HGNC	20418	protein_coding	YES	CCDS41878.1	ENSP00000313851	PDS5B_HUMAN	.	UPI000006D4A9	.	deleterious(0)	possibly_damaging(0.861)	2/35	.	hmmpanther:PTHR12663,hmmpanther:PTHR12663:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAATTACAT	.	5	BLCA
TBC1D4	0	.	GRCh37	13	75898393	75898393	+	Silent	SNP	T	T	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2178A>T	p.%3D	p.P726P	ENST00000377636	11/21	60	48	12	98	98	0	TBC1D4,synonymous_variant,p.%3D,ENST00000431480,;TBC1D4,synonymous_variant,p.%3D,ENST00000377636,;TBC1D4,5_prime_UTR_variant,,ENST00000425511,;TBC1D4,intron_variant,,ENST00000413735,;TBC1D4,intron_variant,,ENST00000377625,;TBC1D4,non_coding_transcript_exon_variant,,ENST00000488955,;	A	ENSG00000136111	ENST00000377636	Transcript	synonymous_variant	2525	2178	726	P	ccA/ccT	.	.	.	-1	TBC1D4	HGNC	19165	protein_coding	YES	CCDS41901.1	ENSP00000366863	TBCD4_HUMAN	.	UPI00001AE7B3	.	.	.	11/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGTGGGGA	.	5	BLCA
SLC15A1	0	.	GRCh37	13	99374130	99374130	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393G>C	p.%3D	p.L131L	ENST00000376503	6/23	77	70	6	66	66	0	SLC15A1,synonymous_variant,p.%3D,ENST00000376503,;SLC15A1,non_coding_transcript_exon_variant,,ENST00000376494,;	G	ENSG00000088386	ENST00000376503	Transcript	synonymous_variant	449	393	131	L	ctG/ctC	.	.	.	-1	SLC15A1	HGNC	10920	protein_coding	YES	CCDS9489.1	ENSP00000365686	S15A1_HUMAN	B2CQT6_HUMAN	UPI000013166F	.	.	.	6/23	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Superfamily_domains:SSF103473,TIGRFAM_domain:TIGR00926,Pfam_domain:PF00854,hmmpanther:PTHR11654:SF89,hmmpanther:PTHR11654	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTATCAGGGC	.	3	BLCA
BRF1	0	.	GRCh37	14	105718907	105718907	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481T>A	p.Tyr161Asn	p.Y161N	ENST00000546474	5/18	16	13	3	28	28	0	BRF1,missense_variant,p.Tyr134Asn,ENST00000379937,;BRF1,missense_variant,p.Tyr46Asn,ENST00000550692,;BRF1,missense_variant,p.Tyr161Asn,ENST00000546474,;BRF1,missense_variant,p.Tyr46Asn,ENST00000327359,;BRF1,missense_variant,p.Tyr46Asn,ENST00000440513,;BRF1,intron_variant,,ENST00000546417,;BRF1,upstream_gene_variant,,ENST00000550208,;BRF1,upstream_gene_variant,,ENST00000550375,;BRF1,upstream_gene_variant,,ENST00000552127,;BRF1,upstream_gene_variant,,ENST00000392557,;BRF1,upstream_gene_variant,,ENST00000446501,;BTBD6,downstream_gene_variant,,ENST00000536364,;BTBD6,downstream_gene_variant,,ENST00000392554,;BTBD6,downstream_gene_variant,,ENST00000537513,;BRF1,downstream_gene_variant,,ENST00000548421,;BTBD6,downstream_gene_variant,,ENST00000327471,;BTBD6,downstream_gene_variant,,ENST00000463376,;BTBD6,downstream_gene_variant,,ENST00000392553,;	T	ENSG00000185024	ENST00000546474	Transcript	missense_variant	15441	481	161	Y/N	Tac/Aac	.	.	.	-1	BRF1	HGNC	11551	protein_coding	YES	CCDS10001.1	ENSP00000448323	TF3B_HUMAN	F8VXJ4_HUMAN,F8VWY1_HUMAN,F8VWT8_HUMAN,F8VQ19_HUMAN,B3KWA2_HUMAN	UPI0000136C55	.	deleterious(0)	probably_damaging(0.988)	5/18	.	hmmpanther:PTHR11618:SF4,hmmpanther:PTHR11618,Pfam_domain:PF00382,Gene3D:1.10.472.10,SMART_domains:SM00385,Superfamily_domains:SSF47954,Prints_domain:PR00685	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACGTACACAT	.	2	BLCA
GMPR2	0	.	GRCh37	14	24702478	24702478	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73G>T	p.Asp25Tyr	p.D25Y	ENST00000420554	1/9	192	176	15	268	268	0	GMPR2,missense_variant,p.Asp7Tyr,ENST00000560139,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000399440,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000559409,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000559836,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000559910,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000355299,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000561035,;GMPR2,missense_variant,p.Asp25Tyr,ENST00000420554,;GMPR2,missense_variant,p.Asp25Tyr,ENST00000559104,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000456667,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000348719,;GMPR2,missense_variant,p.Asp25Tyr,ENST00000557854,;GMPR2,intron_variant,,ENST00000558279,;GMPR2,intron_variant,,ENST00000558865,;GMPR2,upstream_gene_variant,,ENST00000559943,;GMPR2,upstream_gene_variant,,ENST00000558748,;NEDD8,upstream_gene_variant,,ENST00000250495,;GMPR2,upstream_gene_variant,,ENST00000558483,;NEDD8-MDP1,upstream_gene_variant,,ENST00000534348,;NEDD8,upstream_gene_variant,,ENST00000524927,;GMPR2,non_coding_transcript_exon_variant,,ENST00000558701,;NEDD8,upstream_gene_variant,,ENST00000533242,;NEDD8-MDP1,upstream_gene_variant,,ENST00000604306,;NEDD8,upstream_gene_variant,,ENST00000526430,;NEDD8,upstream_gene_variant,,ENST00000531430,;GMPR2,upstream_gene_variant,,ENST00000560517,;NEDD8,upstream_gene_variant,,ENST00000527046,;GMPR2,missense_variant,p.Asp25Tyr,ENST00000559102,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000561038,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000559287,;GMPR2,missense_variant,p.Asp25Tyr,ENST00000558760,;GMPR2,missense_variant,p.Asp7Tyr,ENST00000561130,;GMPR2,non_coding_transcript_exon_variant,,ENST00000559801,;GMPR2,upstream_gene_variant,,ENST00000558007,;GMPR2,upstream_gene_variant,,ENST00000559606,;NEDD8-MDP1,upstream_gene_variant,,ENST00000530579,;NEDD8,upstream_gene_variant,,ENST00000396828,;NEDD8-MDP1,upstream_gene_variant,,ENST00000605847,;	T	ENSG00000100938	ENST00000420554	Transcript	missense_variant	372	73	25	D/Y	Gat/Tat	.	.	.	1	GMPR2	HGNC	4377	protein_coding	YES	CCDS45087.1	ENSP00000392859	GMPR2_HUMAN	Q86SZ5_HUMAN,H0YNS9_HUMAN,H0YL68_HUMAN	UPI0000374739	.	deleterious(0.02)	possibly_damaging(0.899)	1/9	.	hmmpanther:PTHR11911:SF81,hmmpanther:PTHR11911,TIGRFAM_domain:TIGR01305,Gene3D:3.20.20.70,PIRSF_domain:PIRSF000235,Superfamily_domains:SSF51412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAACGATGTG	.	2	BLCA
GMPR2	0	.	GRCh37	14	24702483	24702483	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78G>A	p.%3D	p.V26V	ENST00000420554	1/9	200	184	16	272	272	0	GMPR2,synonymous_variant,p.%3D,ENST00000560139,;GMPR2,synonymous_variant,p.%3D,ENST00000399440,;GMPR2,synonymous_variant,p.%3D,ENST00000559409,;GMPR2,synonymous_variant,p.%3D,ENST00000559836,;GMPR2,synonymous_variant,p.%3D,ENST00000559910,;GMPR2,synonymous_variant,p.%3D,ENST00000355299,;GMPR2,synonymous_variant,p.%3D,ENST00000561035,;GMPR2,synonymous_variant,p.%3D,ENST00000420554,;GMPR2,synonymous_variant,p.%3D,ENST00000559104,;GMPR2,synonymous_variant,p.%3D,ENST00000456667,;GMPR2,synonymous_variant,p.%3D,ENST00000348719,;GMPR2,synonymous_variant,p.%3D,ENST00000557854,;GMPR2,intron_variant,,ENST00000558279,;GMPR2,intron_variant,,ENST00000558865,;GMPR2,upstream_gene_variant,,ENST00000559943,;GMPR2,upstream_gene_variant,,ENST00000558748,;NEDD8,upstream_gene_variant,,ENST00000250495,;GMPR2,upstream_gene_variant,,ENST00000558483,;NEDD8-MDP1,upstream_gene_variant,,ENST00000534348,;NEDD8,upstream_gene_variant,,ENST00000524927,;GMPR2,non_coding_transcript_exon_variant,,ENST00000558701,;NEDD8,upstream_gene_variant,,ENST00000533242,;NEDD8-MDP1,upstream_gene_variant,,ENST00000604306,;NEDD8,upstream_gene_variant,,ENST00000526430,;NEDD8,upstream_gene_variant,,ENST00000531430,;GMPR2,upstream_gene_variant,,ENST00000560517,;NEDD8,upstream_gene_variant,,ENST00000527046,;GMPR2,synonymous_variant,p.%3D,ENST00000559102,;GMPR2,synonymous_variant,p.%3D,ENST00000561038,;GMPR2,synonymous_variant,p.%3D,ENST00000559287,;GMPR2,synonymous_variant,p.%3D,ENST00000558760,;GMPR2,synonymous_variant,p.%3D,ENST00000561130,;GMPR2,non_coding_transcript_exon_variant,,ENST00000559801,;GMPR2,upstream_gene_variant,,ENST00000558007,;GMPR2,upstream_gene_variant,,ENST00000559606,;NEDD8-MDP1,upstream_gene_variant,,ENST00000530579,;NEDD8,upstream_gene_variant,,ENST00000396828,;NEDD8-MDP1,upstream_gene_variant,,ENST00000605847,;	A	ENSG00000100938	ENST00000420554	Transcript	synonymous_variant	377	78	26	V	gtG/gtA	.	.	.	1	GMPR2	HGNC	4377	protein_coding	YES	CCDS45087.1	ENSP00000392859	GMPR2_HUMAN	Q86SZ5_HUMAN,H0YNS9_HUMAN,H0YL68_HUMAN	UPI0000374739	.	.	.	1/9	.	hmmpanther:PTHR11911:SF81,hmmpanther:PTHR11911,TIGRFAM_domain:TIGR01305,Gene3D:3.20.20.70,PIRSF_domain:PIRSF000235,Superfamily_domains:SSF51412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATGTGAAACT	.	2	BLCA
CTSG	0	.	GRCh37	14	25042800	25042800	+	3'UTR	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*43G>T	.	.	ENST00000216336	5/5	82	68	13	104	103	1	CTSG,3_prime_UTR_variant,,ENST00000216336,;CTSG,non_coding_transcript_exon_variant,,ENST00000552252,;	A	ENSG00000100448	ENST00000216336	Transcript	3_prime_UTR_variant	848	.	.	.	.	.	.	.	-1	CTSG	HGNC	2532	protein_coding	YES	CCDS9631.1	ENSP00000216336	CATG_HUMAN	.	UPI00001270AC	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGGCAACAC	.	5	BLCA
ZDHHC22	0	.	GRCh37	14	77605792	77605792	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.290G>T	p.Cys97Phe	p.C97F	ENST00000319374	2/3	21	16	5	16	16	0	ZDHHC22,missense_variant,p.Cys97Phe,ENST00000319374,;ZDHHC22,missense_variant,p.Cys97Phe,ENST00000555389,;TMEM63C,intron_variant,,ENST00000557408,;AC007375.1,upstream_gene_variant,,ENST00000600936,;ZDHHC22,downstream_gene_variant,,ENST00000555327,;RP11-463C8.4,intron_variant,,ENST00000557752,;	A	ENSG00000177108	ENST00000319374	Transcript	missense_variant	493	290	97	C/F	tGc/tTc	.	.	.	-1	ZDHHC22	HGNC	20106	protein_coding	YES	CCDS45140.1	ENSP00000318222	ZDH22_HUMAN	G3V3N3_HUMAN,G3V259_HUMAN	UPI000059D283	.	deleterious(0)	probably_damaging(1)	2/3	.	PROSITE_profiles:PS50216,hmmpanther:PTHR22883:SF12,hmmpanther:PTHR22883,Pfam_domain:PF01529	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCGGCAGAAG	.	5	BLCA
EFCAB11	0	.	GRCh37	14	90263532	90263532	+	3'UTR	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*55C>A	.	.	ENST00000316738	6/6	19	14	5	27	27	0	EFCAB11,3_prime_UTR_variant,,ENST00000555872,;EFCAB11,3_prime_UTR_variant,,ENST00000316738,;EFCAB11,3_prime_UTR_variant,,ENST00000556609,;EFCAB11,non_coding_transcript_exon_variant,,ENST00000553871,;RP11-33N16.3,intron_variant,,ENST00000555070,;EFCAB11,downstream_gene_variant,,ENST00000556078,;EFCAB11,3_prime_UTR_variant,,ENST00000557685,;	T	ENSG00000140025	ENST00000316738	Transcript	3_prime_UTR_variant	576	.	.	.	.	.	.	.	-1	EFCAB11	HGNC	20357	protein_coding	YES	CCDS9887.1	ENSP00000326267	EFC11_HUMAN	G3V5G1_HUMAN	UPI0000035D9C	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGTCTGCTGAC	.	4	BLCA
SERPINA12	0	.	GRCh37	14	94962945	94962945	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.670A>G	p.Lys224Glu	p.K224E	ENST00000341228	4/6	51	34	16	59	59	0	SERPINA12,missense_variant,p.Lys224Glu,ENST00000556881,;SERPINA12,missense_variant,p.Lys224Glu,ENST00000341228,;	C	ENSG00000165953	ENST00000341228	Transcript	missense_variant	1466	670	224	K/E	Aaa/Gaa	.	.	.	-1	SERPINA12	HGNC	18359	protein_coding	YES	CCDS9926.1	ENSP00000342109	SPA12_HUMAN	.	UPI000000D86C	.	tolerated(0.06)	possibly_damaging(0.674)	4/6	.	hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF149,Pfam_domain:PF00079,Gene3D:2.30.39.10,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTTAGTTA	.	5	BLCA
EMC7	0	.	GRCh37	15	34380319	34380319	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.511C>G	p.Leu171Val	p.L171V	ENST00000256545	4/5	13	10	3	18	18	0	EMC7,missense_variant,p.Leu171Val,ENST00000256545,;EMC7,missense_variant,p.Leu98Val,ENST00000528949,;EMC7,missense_variant,p.Leu121Val,ENST00000527822,;RP11-1084A12.1,upstream_gene_variant,,ENST00000487972,;	C	ENSG00000134153	ENST00000256545	Transcript	missense_variant	620	511	171	L/V	Ctt/Gtt	.	.	.	-1	EMC7	HGNC	24301	protein_coding	YES	CCDS10032.1	ENSP00000256545	EMC7_HUMAN	.	UPI0000038A04	.	tolerated(0.11)	benign(0.296)	4/5	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR13605	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAAGAACCA	.	2	BLCA
TP53BP1	0	.	GRCh37	15	43748264	43748264	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2542C>G	p.Pro848Ala	p.P848A	ENST00000382044	12/28	90	66	24	156	156	0	TP53BP1,missense_variant,p.Pro843Ala,ENST00000263801,;TP53BP1,missense_variant,p.Pro848Ala,ENST00000413546,;TP53BP1,missense_variant,p.Pro848Ala,ENST00000382039,;TP53BP1,missense_variant,p.Pro848Ala,ENST00000450115,;TP53BP1,missense_variant,p.Pro848Ala,ENST00000382044,;TP53BP1,non_coding_transcript_exon_variant,,ENST00000605155,;TP53BP1,upstream_gene_variant,,ENST00000414758,;TP53BP1,missense_variant,p.Pro90Ala,ENST00000411772,;TP53BP1,non_coding_transcript_exon_variant,,ENST00000572085,;TP53BP1,non_coding_transcript_exon_variant,,ENST00000480860,;	C	ENSG00000067369	ENST00000382044	Transcript	missense_variant	2670	2542	848	P/A	Cct/Gct	.	.	.	-1	TP53BP1	HGNC	11999	protein_coding	YES	CCDS45250.1	ENSP00000371475	TP53B_HUMAN	B3KVT9_HUMAN	UPI0000D720ED	.	tolerated(0.99)	benign(0.002)	12/28	.	hmmpanther:PTHR15321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAAGGATCAT	.	5	BLCA
C16orf91	0	.	GRCh37	16	1470199	1470199	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.816C>G	p.Phe272Leu	p.F272L	ENST00000310355	5/5	45	42	3	63	63	0	C16orf91,missense_variant,p.Phe272Leu,ENST00000310355,;C16orf91,3_prime_UTR_variant,,ENST00000563974,;C16orf91,3_prime_UTR_variant,,ENST00000442039,;	C	ENSG00000174109	ENST00000310355	Transcript	missense_variant	816	816	272	F/L	ttC/ttG	COSM1749418	.	.	-1	C16orf91	HGNC	27558	protein_coding	YES	.	ENSP00000311390	CSMT1_HUMAN	.	UPI000006E51C	.	deleterious_low_confidence(0)	benign(0.086)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCCGAAGGG	.	2	BLCA
XYLT1	0	.	GRCh37	16	17352858	17352858	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900C>T	p.%3D	p.F300F	ENST00000261381	3/12	29	24	5	42	42	0	XYLT1,synonymous_variant,p.%3D,ENST00000261381,;XYLT1,non_coding_transcript_exon_variant,,ENST00000575674,;	A	ENSG00000103489	ENST00000261381	Transcript	synonymous_variant	985	900	300	F	ttC/ttT	.	.	.	-1	XYLT1	HGNC	15516	protein_coding	YES	CCDS10569.1	ENSP00000261381	XYLT1_HUMAN	.	UPI000000DCCE	.	.	.	3/12	.	hmmpanther:PTHR19297,hmmpanther:PTHR19297:SF91	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCAGAACCG	.	4	BLCA
GP2	0	.	GRCh37	16	20329746	20329746	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023G>C	p.%3D	p.L341L	ENST00000381362	8/12	132	118	14	106	106	0	GP2,synonymous_variant,p.%3D,ENST00000341642,;GP2,synonymous_variant,p.%3D,ENST00000381362,;GP2,synonymous_variant,p.%3D,ENST00000302555,;GP2,synonymous_variant,p.%3D,ENST00000381360,;GP2,downstream_gene_variant,,ENST00000575582,;GP2,downstream_gene_variant,,ENST00000572478,;GP2,downstream_gene_variant,,ENST00000572347,;GP2,non_coding_transcript_exon_variant,,ENST00000573897,;GP2,downstream_gene_variant,,ENST00000574982,;	G	ENSG00000169347	ENST00000381362	Transcript	synonymous_variant	1100	1023	341	L	ctG/ctC	.	.	.	-1	GP2	HGNC	4441	protein_coding	YES	CCDS42128.1	ENSP00000370767	GP2_HUMAN	I3L2Z7_HUMAN	UPI000059D333	.	.	.	8/12	.	PROSITE_profiles:PS51034,hmmpanther:PTHR22962:SF129,hmmpanther:PTHR22962,Pfam_domain:PF00100,SMART_domains:SM00241	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGTTCAGGGA	.	4	BLCA
ITGAL	0	.	GRCh37	16	30510745	30510745	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2080G>T	p.Glu694Ter	p.E694*	ENST00000356798	17/31	86	67	18	86	86	0	ITGAL,stop_gained,p.Glu90Ter,ENST00000433423,;ITGAL,stop_gained,p.Glu611Ter,ENST00000358164,;ITGAL,stop_gained,p.Glu694Ter,ENST00000356798,;MIR4518,upstream_gene_variant,,ENST00000580665,;RP11-297C4.1,non_coding_transcript_exon_variant,,ENST00000563751,;ITGAL,downstream_gene_variant,,ENST00000568012,;ITGAL,stop_lost,p.Ter39LeuextTer15,ENST00000563615,;ITGAL,stop_gained,p.Glu69Ter,ENST00000568926,;ITGAL,non_coding_transcript_exon_variant,,ENST00000568987,;ITGAL,downstream_gene_variant,,ENST00000564935,;	T	ENSG00000005844	ENST00000356798	Transcript	stop_gained	2260	2080	694	E/*	Gaa/Taa	.	.	.	1	ITGAL	HGNC	6148	protein_coding	YES	CCDS32433.1	ENSP00000349252	ITAL_HUMAN	I3L468_HUMAN,H3BNL5_HUMAN	UPI000013C4FF	.	.	.	17/31	.	Superfamily_domains:SSF69179,Pfam_domain:PF08441,Gene3D:1jv2A02,hmmpanther:PTHR23220:SF70,hmmpanther:PTHR23220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATGAACTC	.	5	BLCA
CREBBP	0	.	GRCh37	16	3808023	3808023	+	Silent	SNP	G	G	A	rs749030378	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3396C>T	p.%3D	p.P1132P	ENST00000262367	18/31	65	58	7	57	57	0	CREBBP,synonymous_variant,p.%3D,ENST00000262367,;CREBBP,synonymous_variant,p.%3D,ENST00000382070,;CREBBP,synonymous_variant,p.%3D,ENST00000570939,;	A	ENSG00000005339	ENST00000262367	Transcript	synonymous_variant	4206	3396	1132	P	ccC/ccT	rs749030378	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	.	18/31	.	PROSITE_profiles:PS50014,hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF5,PROSITE_patterns:PS00633,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370,Prints_domain:PR00503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCATGGGATT	.	2	BLCA
MRPL28	0	.	GRCh37	16	417715	417715	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.731C>G	p.Ser244Ter	p.S244*	ENST00000199706	6/6	35	26	9	54	54	0	MRPL28,stop_gained,p.Ser244Ter,ENST00000199706,;MRPL28,stop_gained,p.Ser244Ter,ENST00000389675,;MRPL28,intron_variant,,ENST00000429738,;TMEM8A,downstream_gene_variant,,ENST00000250930,;MRPL28,downstream_gene_variant,,ENST00000447696,;MRPL28,downstream_gene_variant,,ENST00000450882,;MRPL28,downstream_gene_variant,,ENST00000441883,;TMEM8A,downstream_gene_variant,,ENST00000431232,;TMEM8A,downstream_gene_variant,,ENST00000448854,;TMEM8A,downstream_gene_variant,,ENST00000424078,;MRPL28,non_coding_transcript_exon_variant,,ENST00000483764,;MRPL28,non_coding_transcript_exon_variant,,ENST00000481453,;MRPL28,non_coding_transcript_exon_variant,,ENST00000461550,;MRPL28,non_coding_transcript_exon_variant,,ENST00000469744,;	C	ENSG00000086504	ENST00000199706	Transcript	stop_gained	767	731	244	S/*	tCa/tGa	.	.	.	-1	MRPL28	HGNC	14484	protein_coding	YES	CCDS32349.1	ENSP00000199706	RM28_HUMAN	Q4TT37_HUMAN,A2IDC7_HUMAN,A2IDC6_HUMAN	UPI00001678A4	.	.	.	6/6	.	hmmpanther:PTHR13528,hmmpanther:PTHR13528:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGACAGT	.	5	BLCA
PKD1L2	0	.	GRCh37	16	81209296	81209296	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>A	p.Glu89Lys	p.E89K	ENST00000527937	3/4	48	23	25	53	53	0	PKD1L2,missense_variant,p.Glu148Lys,ENST00000531391,;PKD1L2,missense_variant,p.Glu361Lys,ENST00000526632,;PKD1L2,missense_variant,p.Glu89Lys,ENST00000527937,;PKD1L2,missense_variant,p.Glu833Lys,ENST00000337114,;PKD1L2,non_coding_transcript_exon_variant,,ENST00000529791,;PKD1L2,non_coding_transcript_exon_variant,,ENST00000299598,;PKD1L2,missense_variant,p.Glu833Lys,ENST00000525539,;PKD1L2,missense_variant,p.Glu148Lys,ENST00000533478,;	T	ENSG00000166473	ENST00000527937	Transcript	missense_variant	379	265	89	E/K	Gag/Aag	.	.	.	-1	PKD1L2	HGNC	21715	protein_coding	YES	.	ENSP00000432818	PK1L2_HUMAN	.	UPI00001C0DE3	.	tolerated(0.89)	benign(0)	3/4	.	PROSITE_profiles:PS51111,hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF108	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTCCAA	.	5	BLCA
NF1	0	.	GRCh37	17	29552112	29552112	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1846-1G>T	.	p.X616_splice	ENST00000358273	.	44	26	17	80	80	0	NF1,splice_acceptor_variant,,ENST00000456735,;NF1,splice_acceptor_variant,,ENST00000358273,;NF1,splice_acceptor_variant,,ENST00000356175,;NF1,downstream_gene_variant,,ENST00000431387,;NF1,splice_acceptor_variant,,ENST00000495910,;NF1,splice_acceptor_variant,,ENST00000579081,;NF1,non_coding_transcript_exon_variant,,ENST00000493220,;	T	ENSG00000196712	ENST00000358273	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	NF1	HGNC	7765	protein_coding	YES	CCDS42292.1	ENSP00000351015	NF1_HUMAN	Q9UMU3_HUMAN,Q4W6X4_HUMAN,K7EP94_HUMAN	UPI000012FFAE	.	.	.	.	16/57	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTAGCAGGC	.	5	BLCA
OR3A2	0	.	GRCh37	17	3182246	3182246	+	5'UTR	SNP	T	T	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-17A>T	.	.	ENST00000408891	1/1	44	41	3	60	59	1	OR3A2,5_prime_UTR_variant,,ENST00000408891,;RP11-64J4.2,intron_variant,,ENST00000573491,;RP11-64J4.2,downstream_gene_variant,,ENST00000576166,;	A	ENSG00000221882	ENST00000408891	Transcript	5_prime_UTR_variant	23	.	.	.	.	.	.	.	-1	OR3A2	HGNC	8283	protein_coding	YES	CCDS42233.1	ENSP00000386180	OR3A2_HUMAN	.	UPI0000050B3C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAGGTATCAG	.	2	BLCA
CCR7	0	.	GRCh37	17	38721713	38721713	+	5'UTR	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-52G>C	.	.	ENST00000246657	1/3	39	36	3	43	43	0	CCR7,5_prime_UTR_variant,,ENST00000246657,;CCR7,upstream_gene_variant,,ENST00000578085,;CCR7,upstream_gene_variant,,ENST00000579344,;	G	ENSG00000126353	ENST00000246657	Transcript	5_prime_UTR_variant	12	.	.	.	.	.	.	.	-1	CCR7	HGNC	1608	protein_coding	YES	CCDS11369.1	ENSP00000246657	CCR7_HUMAN	J3KTN5_HUMAN,J3KSS9_HUMAN,A0N0Q0_HUMAN	UPI0000001C2F	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGCACTACCC	.	2	BLCA
KRTAP4-4	0	.	GRCh37	17	39316919	39316919	+	Missense_Mutation	SNP	C	C	T	rs767618099	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25G>A	p.Val9Met	p.V9M	ENST00000390661	1/1	55	24	30	82	82	0	KRTAP4-4,missense_variant,p.Val9Met,ENST00000390661,;	T	ENSG00000171396	ENST00000390661	Transcript	missense_variant	65	25	9	V/M	Gtg/Atg	rs767618099	.	.	-1	KRTAP4-4	HGNC	16928	protein_coding	YES	CCDS11383.1	ENSP00000375076	KRA44_HUMAN	.	UPI000006DEC1	.	.	unknown(0)	1/1	.	hmmpanther:PTHR23262:SF43,hmmpanther:PTHR23262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACACAGAGC	byFrequency	5	BLCA
WSCD1	0	.	GRCh37	17	5993727	5993727	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.629G>C	p.Cys210Ser	p.C210S	ENST00000574946	4/9	32	25	7	63	63	0	WSCD1,missense_variant,p.Cys94Ser,ENST00000573634,;WSCD1,missense_variant,p.Cys210Ser,ENST00000574232,;WSCD1,missense_variant,p.Cys210Ser,ENST00000574946,;WSCD1,missense_variant,p.Cys210Ser,ENST00000317744,;WSCD1,missense_variant,p.Cys210Ser,ENST00000539421,;WSCD1,downstream_gene_variant,,ENST00000576083,;WSCD1,downstream_gene_variant,,ENST00000576947,;WSCD1,3_prime_UTR_variant,,ENST00000571494,;	C	ENSG00000179314	ENST00000574946	Transcript	missense_variant	1019	629	210	C/S	tGt/tCt	.	.	.	1	WSCD1	HGNC	29060	protein_coding	YES	CCDS32538.1	ENSP00000460825	WSCD1_HUMAN	I3NI40_HUMAN,I3L3G4_HUMAN,I3L2Y9_HUMAN,I3L127_HUMAN	UPI0000197208	.	deleterious(0)	possibly_damaging(0.861)	4/9	.	PROSITE_profiles:PS51212,hmmpanther:PTHR19297:SF90,hmmpanther:PTHR19297,Pfam_domain:PF01822,SMART_domains:SM00321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTGTAACC	.	5	BLCA
CSHL1	0	.	GRCh37	17	61988448	61988448	+	Intron	SNP	G	G	C	rs551408489	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10+99C>G	.	.	ENST00000309894	.	81	59	22	52	52	0	CSHL1,intron_variant,,ENST00000259003,;CSHL1,intron_variant,,ENST00000392824,;CSHL1,intron_variant,,ENST00000561003,;CSHL1,intron_variant,,ENST00000450719,;CSHL1,intron_variant,,ENST00000309894,;CSHL1,intron_variant,,ENST00000346606,;CSHL1,intron_variant,,ENST00000438387,;CSHL1,non_coding_transcript_exon_variant,,ENST00000558099,;CSHL1,non_coding_transcript_exon_variant,,ENST00000560999,;CSHL1,intron_variant,,ENST00000558609,;	C	ENSG00000204414	ENST00000309894	Transcript	intron_variant	.	.	.	.	.	rs551408489	.	.	-1	CSHL1	HGNC	2442	protein_coding	YES	CCDS11652.1	ENSP00000309524	CSHL_HUMAN	I6L999_HUMAN	UPI00001602B9	.	.	.	.	1/4	.	T:0.0108	T:0.0386	T:0.0043	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCAGAAGCC	byFrequency|by1000G	5	BLCA
DCC	0	.	GRCh37	18	50278527	50278527	+	Silent	SNP	C	C	T	rs766772715	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195C>T	p.%3D	p.S65S	ENST00000442544	2/29	34	31	3	53	53	0	DCC,synonymous_variant,p.%3D,ENST00000442544,;DCC,synonymous_variant,p.%3D,ENST00000578080,;DCC,upstream_gene_variant,,ENST00000582875,;DCC,upstream_gene_variant,,ENST00000412726,;DCC,upstream_gene_variant,,ENST00000580024,;DCC,upstream_gene_variant,,ENST00000582595,;DCC,upstream_gene_variant,,ENST00000579666,;DCC,upstream_gene_variant,,ENST00000304775,;DCC,upstream_gene_variant,,ENST00000579349,;DCC,upstream_gene_variant,,ENST00000581559,;	T	ENSG00000187323	ENST00000442544	Transcript	synonymous_variant	811	195	65	S	tcC/tcT	rs766772715,COSM3770617,COSM988920	.	.	1	DCC	HGNC	2701	protein_coding	YES	CCDS11952.1	ENSP00000389140	DCC_HUMAN	J3QQJ6_HUMAN	UPI00001AEDC6	.	.	.	2/29	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489:SF68,hmmpanther:PTHR10489,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S62S|c.186C>T|3	MUTECT|MUSE	GAGTCCGACCG	.	2	BLCA
ZNF567	0	.	GRCh37	19	37211102	37211102	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1383C>T	p.%3D	p.L461L	ENST00000585696	3/3	92	79	13	60	60	0	ZNF567,synonymous_variant,p.%3D,ENST00000392163,;ZNF567,synonymous_variant,p.%3D,ENST00000360729,;ZNF567,synonymous_variant,p.%3D,ENST00000536254,;ZNF567,synonymous_variant,p.%3D,ENST00000585696,;ZNF567,synonymous_variant,p.%3D,ENST00000588311,;ZNF567,intron_variant,,ENST00000589264,;ZNF850,intron_variant,,ENST00000589390,;ZNF567,intron_variant,,ENST00000591308,;	T	ENSG00000189042	ENST00000585696	Transcript	synonymous_variant	2613	1383	461	L	ctC/ctT	.	.	.	1	ZNF567	HGNC	28696	protein_coding	YES	CCDS12495.1	ENSP00000467379	ZN567_HUMAN	.	UPI00001BBFD4	.	.	.	3/3	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24404:SF25,hmmpanther:PTHR24404,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCATTGA	.	4	BLCA
SPINT2	0	.	GRCh37	19	38774321	38774321	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.161G>C	p.Trp54Ser	p.W54S	ENST00000301244	2/7	142	106	35	89	89	0	SPINT2,missense_variant,p.Trp4Ser,ENST00000587090,;SPINT2,missense_variant,p.Trp4Ser,ENST00000592007,;SPINT2,missense_variant,p.Trp4Ser,ENST00000590510,;SPINT2,missense_variant,p.Trp54Ser,ENST00000301244,;SPINT2,missense_variant,p.Trp54Ser,ENST00000587516,;SPINT2,intron_variant,,ENST00000454580,;SPINT2,non_coding_transcript_exon_variant,,ENST00000590210,;SPINT2,upstream_gene_variant,,ENST00000585357,;	C	ENSG00000167642	ENST00000301244	Transcript	missense_variant	596	161	54	W/S	tGg/tCg	.	.	.	1	SPINT2	HGNC	11247	protein_coding	YES	CCDS12510.1	ENSP00000301244	SPIT2_HUMAN	K7EM91_HUMAN,K7EKC8_HUMAN,K7EJS4_HUMAN	UPI0000135E8E	.	deleterious(0)	probably_damaging(0.998)	2/7	.	PROSITE_profiles:PS50279,hmmpanther:PTHR10083,hmmpanther:PTHR10083:SF177,Gene3D:4.10.410.10,Pfam_domain:PF00014,SMART_domains:SM00131,Superfamily_domains:SSF57362	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGTGGTGGT	.	5	BLCA
GRIN2D	0	.	GRCh37	19	48919341	48919341	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1664C>A	p.Pro555His	p.P555H	ENST00000263269	7/13	92	79	13	62	62	0	GRIN2D,missense_variant,p.Pro555His,ENST00000263269,;	A	ENSG00000105464	ENST00000263269	Transcript	missense_variant	1752	1664	555	P/H	cCc/cAc	.	.	.	1	GRIN2D	HGNC	4588	protein_coding	YES	CCDS12719.1	ENSP00000263269	NMDE4_HUMAN	.	UPI000013D3DA	.	deleterious(0)	probably_damaging(0.991)	7/13	.	hmmpanther:PTHR18966:SF105,hmmpanther:PTHR18966,Pfam_domain:PF00497,Gene3D:3.40.190.10,SMART_domains:SM00079,Superfamily_domains:SSF53850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGTCCCCTTCG	.	4	BLCA
INSR	0	.	GRCh37	19	7125375	7125375	+	Silent	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3177C>A	p.%3D	p.V1059V	ENST00000302850	17/22	57	45	12	56	56	0	INSR,synonymous_variant,p.%3D,ENST00000302850,;INSR,synonymous_variant,p.%3D,ENST00000341500,;INSR,non_coding_transcript_exon_variant,,ENST00000593970,;INSR,upstream_gene_variant,,ENST00000601099,;	T	ENSG00000171105	ENST00000302850	Transcript	synonymous_variant	3320	3177	1059	V	gtC/gtA	.	.	.	-1	INSR	HGNC	6091	protein_coding	YES	CCDS12176.1	ENSP00000303830	INSR_HUMAN	Q4U0V1_HUMAN,Q2PJC5_HUMAN,Q2PJC4_HUMAN,Q2PJC3_HUMAN,Q2PJC1_HUMAN,Q2MKP2_HUMAN,B4DTR7_HUMAN,A4ZPI8_HUMAN,A4ZPI7_HUMAN,A4ZPI5_HUMAN,A4ZPI3_HUMAN	UPI000020324D	.	.	.	17/22	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF140,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:3.30.200.20,PIRSF_domain:PIRSF000620,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCGTTGACCGT	.	4	BLCA
COL11A1	0	.	GRCh37	1	103480069	103480069	+	Missense_Mutation	SNP	G	G	A	rs771139447	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1570C>T	p.Arg524Trp	p.R524W	ENST00000370096	13/67	32	22	9	34	34	0	COL11A1,missense_variant,p.Arg408Trp,ENST00000512756,;COL11A1,missense_variant,p.Arg485Trp,ENST00000353414,;COL11A1,missense_variant,p.Arg536Trp,ENST00000427239,;COL11A1,missense_variant,p.Arg524Trp,ENST00000370096,;COL11A1,missense_variant,p.Arg536Trp,ENST00000358392,;	A	ENSG00000060718	ENST00000370096	Transcript	missense_variant	1883	1570	524	R/W	Cgg/Tgg	rs771139447,COSM3470504,COSM3470505	.	.	-1	COL11A1	HGNC	2186	protein_coding	YES	CCDS778.1	ENSP00000359114	COBA1_HUMAN	Q4FAC4_HUMAN,B4DQZ0_HUMAN	UPI00002053EF	.	.	probably_damaging(0.999)	13/67	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023:SF42,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCCGAGCCT	byFrequency	5	BLCA
AKNAD1	0	.	GRCh37	1	109366034	109366034	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2125G>T	p.Val709Phe	p.V709F	ENST00000370001	13/16	70	59	11	87	87	0	AKNAD1,missense_variant,p.Val416Phe,ENST00000357393,;AKNAD1,missense_variant,p.Val709Phe,ENST00000369995,;AKNAD1,missense_variant,p.Val679Phe,ENST00000369994,;AKNAD1,missense_variant,p.Val709Phe,ENST00000370001,;AKNAD1,upstream_gene_variant,,ENST00000477908,;AKNAD1,missense_variant,p.Val639Phe,ENST00000474186,;AKNAD1,3_prime_UTR_variant,,ENST00000461774,;AKNAD1,non_coding_transcript_exon_variant,,ENST00000603450,;	A	ENSG00000162641	ENST00000370001	Transcript	missense_variant	2394	2125	709	V/F	Gtc/Ttc	.	.	.	-1	AKNAD1	HGNC	28398	protein_coding	YES	CCDS791.2	ENSP00000359018	AKND1_HUMAN	.	UPI00004700A0	.	deleterious(0.01)	probably_damaging(0.949)	13/16	.	hmmpanther:PTHR21510:SF14,hmmpanther:PTHR21510	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGACAAAGG	.	5	BLCA
NRAS	0	.	GRCh37	1	115252336	115252336	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304C>T	p.Arg102Ter	p.R102*	ENST00000369535	4/7	53	47	6	57	57	0	NRAS,stop_gained,p.Arg102Ter,ENST00000369535,;	A	ENSG00000213281	ENST00000369535	Transcript	stop_gained	558	304	102	R/*	Cga/Tga	.	.	.	-1	NRAS	HGNC	7989	protein_coding	YES	CCDS877.1	ENSP00000358548	RASN_HUMAN	Q9UM97_HUMAN,Q71SP6_HUMAN,Q5U091_HUMAN,P78460_HUMAN	UPI0000001254	.	.	.	4/7	.	PROSITE_profiles:PS51421,hmmpanther:PTHR24070:SF189,hmmpanther:PTHR24070,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00071,SMART_domains:SM00173,SMART_domains:SM00175,SMART_domains:SM00174,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACTCGCTTAA	.	4	BLCA
INSRR	0	.	GRCh37	1	156823613	156823613	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568C>T	p.Pro190Ser	p.P190S	ENST00000368195	2/22	36	32	4	45	45	0	INSRR,missense_variant,p.Pro190Ser,ENST00000368195,;NTRK1,intron_variant,,ENST00000392302,;NTRK1,intron_variant,,ENST00000489021,;NTRK1,intron_variant,,ENST00000497019,;NTRK1,intron_variant,,ENST00000530298,;	A	ENSG00000027644	ENST00000368195	Transcript	missense_variant	965	568	190	P/S	Ccc/Tcc	.	.	.	-1	INSRR	HGNC	6093	protein_coding	YES	CCDS1160.1	ENSP00000357178	INSRR_HUMAN	I6U4P1_HUMAN	UPI000012D8BD	.	tolerated(0.65)	benign(0.009)	2/22	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF107,Gene3D:3.80.20.20,Pfam_domain:PF00757,PIRSF_domain:PIRSF000620	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGGGCTCAC	.	2	BLCA
MNDA	0	.	GRCh37	1	158815539	158815539	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733C>T	p.Gln245Ter	p.Q245*	ENST00000368141	5/7	87	78	9	53	53	0	MNDA,stop_gained,p.Gln245Ter,ENST00000368141,;MNDA,upstream_gene_variant,,ENST00000438394,;MNDA,downstream_gene_variant,,ENST00000491210,;	T	ENSG00000163563	ENST00000368141	Transcript	stop_gained	994	733	245	Q/*	Caa/Taa	.	.	.	1	MNDA	HGNC	7183	protein_coding	YES	CCDS1177.1	ENSP00000357123	MNDA_HUMAN	Q5VUU6_HUMAN	UPI0000001609	.	.	.	5/7	.	PROSITE_profiles:PS50834,hmmpanther:PTHR12200:SF18,hmmpanther:PTHR12200,Gene3D:2.40.50.140,Pfam_domain:PF02760,Superfamily_domains:SSF159141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGACTCAATAT	.	3	BLCA
MNDA	0	.	GRCh37	1	158817614	158817614	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1084G>A	p.Glu362Lys	p.E362K	ENST00000368141	6/7	90	83	7	99	99	0	MNDA,missense_variant,p.Glu68Lys,ENST00000438394,;MNDA,missense_variant,p.Glu362Lys,ENST00000368141,;	A	ENSG00000163563	ENST00000368141	Transcript	missense_variant	1345	1084	362	E/K	Gag/Aag	.	.	.	1	MNDA	HGNC	7183	protein_coding	YES	CCDS1177.1	ENSP00000357123	MNDA_HUMAN	Q5VUU6_HUMAN	UPI0000001609	.	tolerated(0.24)	benign(0.181)	6/7	.	PROSITE_profiles:PS50834,hmmpanther:PTHR12200:SF18,hmmpanther:PTHR12200,Pfam_domain:PF02760,Gene3D:2.40.50.140,Superfamily_domains:SSF159141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGTGAGAAA	.	2	BLCA
POGK	0	.	GRCh37	1	166818180	166818180	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>A	p.Glu122Lys	p.E122K	ENST00000367875	5/5	186	167	18	171	171	0	POGK,missense_variant,p.Glu122Lys,ENST00000449930,;POGK,missense_variant,p.Glu122Lys,ENST00000367876,;POGK,missense_variant,p.Glu37Lys,ENST00000536514,;POGK,missense_variant,p.Glu4Lys,ENST00000537173,;POGK,missense_variant,p.Glu122Lys,ENST00000367875,;	A	ENSG00000143157	ENST00000367875	Transcript	missense_variant	724	364	122	E/K	Gaa/Aaa	.	.	.	1	POGK	HGNC	18800	protein_coding	YES	CCDS1254.1	ENSP00000356849	POGK_HUMAN	Q5TIJ2_HUMAN	UPI0000167816	.	deleterious_low_confidence(0.03)	benign(0.025)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAATGAAGAA	.	3	BLCA
GPR52	0	.	GRCh37	1	174418101	174418104	+	Frame_Shift_Del	DEL	CTTT	CTTT	-	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	CTTT	CTTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.855_858delTCTT	p.Leu286Ter	p.L286*	ENST00000367685	1/1	190	171	19	123	123	0	GPR52,frameshift_variant,p.Leu286Ter,ENST00000367685,;RABGAP1L,intron_variant,,ENST00000357444,;RABGAP1L,intron_variant,,ENST00000367689,;RABGAP1L,intron_variant,,ENST00000251507,;RABGAP1L,intron_variant,,ENST00000526253,;RABGAP1L,intron_variant,,ENST00000367690,;	-	ENSG00000203737	ENST00000367685	Transcript	frameshift_variant	890-893	852-855	284-285	YF/X	taCTTT/ta	.	.	.	1	GPR52	HGNC	4508	protein_coding	YES	CCDS30941.1	ENSP00000356658	GPR52_HUMAN	F2YGU0_HUMAN	UPI0000153A3C	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24249,hmmpanther:PTHR24249:SF248,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	AATTTACTTTCTTCT	.	2	BLCA
XPR1	0	.	GRCh37	1	180780546	180780546	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685G>A	p.Ala229Thr	p.A229T	ENST00000367590	7/15	115	57	58	89	89	0	XPR1,missense_variant,p.Ala229Thr,ENST00000367589,;XPR1,missense_variant,p.Ala229Thr,ENST00000367590,;	A	ENSG00000143324	ENST00000367590	Transcript	missense_variant	883	685	229	A/T	Gca/Aca	.	.	.	1	XPR1	HGNC	12827	protein_coding	YES	CCDS1340.1	ENSP00000356562	XPR1_HUMAN	.	UPI0000071111	.	tolerated(0.15)	benign(0.15)	7/15	.	hmmpanther:PTHR10783:SF4,hmmpanther:PTHR10783	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTGCACCA	.	5	BLCA
TROVE2	0	.	GRCh37	1	193053752	193053752	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1508C>T	p.Ser503Leu	p.S503L	ENST00000367446	9/9	84	79	5	72	72	0	TROVE2,missense_variant,p.Ser503Leu,ENST00000367444,;TROVE2,missense_variant,p.Ser228Leu,ENST00000432079,;TROVE2,missense_variant,p.Ser228Leu,ENST00000416058,;TROVE2,missense_variant,p.Ser503Leu,ENST00000400968,;TROVE2,missense_variant,p.Ser503Leu,ENST00000367441,;TROVE2,missense_variant,p.Ser503Leu,ENST00000367446,;TROVE2,missense_variant,p.Ser503Leu,ENST00000367443,;TROVE2,missense_variant,p.Ser503Leu,ENST00000367445,;TROVE2,non_coding_transcript_exon_variant,,ENST00000460715,;	T	ENSG00000116747	ENST00000367446	Transcript	missense_variant	1718	1508	503	S/L	tCa/tTa	.	.	.	1	TROVE2	HGNC	11313	protein_coding	YES	CCDS1379.1	ENSP00000356416	RO60_HUMAN	G5E9R9_HUMAN,D6RDN1_HUMAN	UPI0000072E7F	.	deleterious(0)	probably_damaging(0.989)	9/9	.	hmmpanther:PTHR14202:SF0,hmmpanther:PTHR14202,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACATCAAATG	.	2	BLCA
FMOD	0	.	GRCh37	1	203316624	203316624	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775G>A	p.Val259Ile	p.V259I	ENST00000354955	2/3	123	101	22	101	101	0	FMOD,missense_variant,p.Val259Ile,ENST00000354955,;FMOD,intron_variant,,ENST00000493296,;FMOD,intron_variant,,ENST00000461936,;	T	ENSG00000122176	ENST00000354955	Transcript	missense_variant	1239	775	259	V/I	Gtc/Atc	.	.	.	-1	FMOD	HGNC	3774	protein_coding	YES	CCDS30976.1	ENSP00000347041	FMOD_HUMAN	Q12833_HUMAN,B4E1J3_HUMAN	UPI00000746A2	.	tolerated(1)	benign(0.007)	2/3	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24371:SF11,hmmpanther:PTHR24371,Gene3D:3.80.10.10,Pfam_domain:PF13855,SMART_domains:SM00369,SMART_domains:SM00364,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGACGGTGT	.	5	BLCA
SYT14	0	.	GRCh37	1	210273697	210273697	+	Missense_Mutation	SNP	G	G	A	rs142853530	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1190G>A	p.Arg397His	p.R397H	ENST00000422431	7/10	81	66	15	43	43	0	SYT14,missense_variant,p.Arg352His,ENST00000399639,;SYT14,missense_variant,p.Arg352His,ENST00000472886,;SYT14,missense_variant,p.Arg352His,ENST00000534859,;SYT14,missense_variant,p.Arg397His,ENST00000422431,;SYT14,missense_variant,p.Arg314His,ENST00000367015,;SYT14,missense_variant,p.Arg352His,ENST00000367019,;SYT14,missense_variant,p.Arg314His,ENST00000537238,;SYT14,non_coding_transcript_exon_variant,,ENST00000469604,;SYT14,intron_variant,,ENST00000271745,;	A	ENSG00000143469	ENST00000422431	Transcript	missense_variant	1248	1190	397	R/H	cGc/cAc	rs142853530,COSM209769	.	.	1	SYT14	HGNC	23143	protein_coding	YES	CCDS53469.1	ENSP00000389039	SYT14_HUMAN	A1L3Y1_HUMAN	UPI0001639EBD	.	deleterious(0.02)	probably_damaging(0.988)	7/10	.	hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF209,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	A:0.0006	A:0.0023	A:0	.	A:0	A:0	A:0	A:0.0043	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATCGCATGA	byFrequency|byCluster|by1000G	5	BLCA
DISC1	0	.	GRCh37	1	231902891	231902891	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274G>T	p.Ser425Ile	p.S425I	ENST00000366633	5/10	98	59	38	67	67	0	DISC1,missense_variant,p.Ser425Ile,ENST00000539444,;DISC1,missense_variant,p.Ser425Ile,ENST00000439617,;DISC1,missense_variant,p.Ser75Ile,ENST00000602873,;DISC1,missense_variant,p.Ser425Ile,ENST00000535983,;DISC1,missense_variant,p.Ser425Ile,ENST00000602281,;DISC1,missense_variant,p.Ser425Ile,ENST00000366633,;DISC1,missense_variant,p.Ser425Ile,ENST00000366636,;DISC1,missense_variant,p.Ser425Ile,ENST00000537876,;DISC1,5_prime_UTR_variant,,ENST00000366637,;DISC1,missense_variant,p.Ser425Ile,ENST00000295051,;DISC1,missense_variant,p.Ala375Ser,ENST00000366632,;DISC1,missense_variant,p.Ser425Ile,ENST00000535944,;TSNAX-DISC1,3_prime_UTR_variant,,ENST00000602634,;TSNAX-DISC1,3_prime_UTR_variant,,ENST00000602962,;TSNAX-DISC1,3_prime_UTR_variant,,ENST00000602885,;DISC1,3_prime_UTR_variant,,ENST00000602822,;TSNAX-DISC1,3_prime_UTR_variant,,ENST00000602956,;DISC1,3_prime_UTR_variant,,ENST00000422590,;DISC1,3_prime_UTR_variant,,ENST00000602713,;DISC1,3_prime_UTR_variant,,ENST00000602700,;TSNAX-DISC1,3_prime_UTR_variant,,ENST00000602567,;	T	ENSG00000162946	ENST00000366633	Transcript	missense_variant	1327	1274	425	S/I	aGc/aTc	.	.	.	1	DISC1	HGNC	2888	protein_coding	YES	CCDS53482.1	ENSP00000355593	DISC1_HUMAN	C4P0C8_HUMAN	UPI0001A61692	.	tolerated(0.17)	possibly_damaging(0.668)	5/10	.	hmmpanther:PTHR14332:SF2,hmmpanther:PTHR14332	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCAGCGGAG	.	5	BLCA
MACF1	0	.	GRCh37	1	39765930	39765930	+	Missense_Mutation	SNP	G	G	A	rs778673967	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2545G>A	p.Val849Ile	p.V849I	ENST00000545844	22/94	162	130	31	96	96	0	MACF1,missense_variant,p.Val849Ile,ENST00000361689,;MACF1,missense_variant,p.Val844Ile,ENST00000564288,;MACF1,missense_variant,p.Val998Ile,ENST00000530262,;MACF1,missense_variant,p.Val849Ile,ENST00000539005,;MACF1,missense_variant,p.Val849Ile,ENST00000372915,;MACF1,missense_variant,p.Val849Ile,ENST00000317713,;MACF1,missense_variant,p.Val881Ile,ENST00000567887,;MACF1,missense_variant,p.Val849Ile,ENST00000545844,;MACF1,missense_variant,p.Val807Ile,ENST00000524432,;MACF1,upstream_gene_variant,,ENST00000372925,;MACF1,upstream_gene_variant,,ENST00000476350,;MACF1,missense_variant,p.Val1011Ile,ENST00000496804,;HSPE1P8,downstream_gene_variant,,ENST00000406997,;	A	ENSG00000127603	ENST00000545844	Transcript	missense_variant	2653	2545	849	V/I	Gtt/Att	rs778673967,COSM4007689,COSM909155	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	benign(0.414)	22/94	.	hmmpanther:PTHR11915:SF37,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTCGTTGGG	byFrequency	5	BLCA
FGGY	0	.	GRCh37	1	60139745	60139745	+	Silent	SNP	C	C	G	rs114601020	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1524C>G	p.%3D	p.S508S	ENST00000371218	15/17	26	19	6	29	29	0	FGGY,synonymous_variant,p.%3D,ENST00000371210,;FGGY,synonymous_variant,p.%3D,ENST00000371218,;FGGY,synonymous_variant,p.%3D,ENST00000303721,;FGGY,synonymous_variant,p.%3D,ENST00000371212,;FGGY,non_coding_transcript_exon_variant,,ENST00000466791,;FGGY,non_coding_transcript_exon_variant,,ENST00000471169,;FGGY,non_coding_transcript_exon_variant,,ENST00000472783,;FGGY,intron_variant,,ENST00000476939,;FGGY,intron_variant,,ENST00000493891,;FGGY,synonymous_variant,p.%3D,ENST00000430447,;	G	ENSG00000172456	ENST00000371218	Transcript	synonymous_variant	1708	1524	508	S	tcC/tcG	rs114601020,COSM1296616,COSM1296615	.	.	1	FGGY	HGNC	25610	protein_coding	YES	CCDS44155.1	ENSP00000360262	FGGY_HUMAN	J3QKV9_HUMAN,C9J015_HUMAN	UPI0000458AF6	.	.	.	15/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10196:SF10,hmmpanther:PTHR10196,Gene3D:3.30.420.40,Pfam_domain:PF02782,PIRSF_domain:PIRSF000538,Superfamily_domains:SSF53067	T:0.0004	T:0	T:0	.	T:0	T:0.002	T:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTCCGTTCT	byFrequency|byCluster|by1000G	5	BLCA
KIF16B	0	.	GRCh37	20	16253880	16253880	+	3'UTR	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18G>A	.	.	ENST00000378003	25/25	63	53	9	77	77	0	KIF16B,3_prime_UTR_variant,,ENST00000378003,;KIF16B,3_prime_UTR_variant,,ENST00000354981,;KIF16B,3_prime_UTR_variant,,ENST00000355755,;	T	ENSG00000089177	ENST00000378003	Transcript	3_prime_UTR_variant	4007	.	.	.	.	.	.	.	-1	KIF16B	HGNC	15869	protein_coding	.	.	ENSP00000367242	.	J3QSY7_HUMAN	UPI00015DF867	.	.	.	25/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCCTCCA	.	5	BLCA
KIF16B	0	.	GRCh37	20	16253924	16253924	+	Missense_Mutation	SNP	C	C	G	rs780847515	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1483G>C	p.Asp495His	p.D495H	ENST00000378003	25/25	61	55	6	66	66	0	KIF16B,missense_variant,p.Asp495His,ENST00000378003,;KIF16B,missense_variant,p.Asp1310His,ENST00000354981,;KIF16B,missense_variant,p.Asp1280His,ENST00000355755,;	G	ENSG00000089177	ENST00000378003	Transcript	missense_variant	3963	1483	495	D/H	Gac/Cac	rs780847515	.	.	-1	KIF16B	HGNC	15869	protein_coding	.	.	ENSP00000367242	.	J3QSY7_HUMAN	UPI00015DF867	.	deleterious(0)	probably_damaging(0.999)	25/25	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF400	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTAGTCAAAGA	.	3	BLCA
ZNF343	0	.	GRCh37	20	2464008	2464008	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1599G>T	p.Lys533Asn	p.K533N	ENST00000278772	6/6	88	78	10	77	77	0	ZNF343,missense_variant,p.Lys533Asn,ENST00000278772,;ZNF343,downstream_gene_variant,,ENST00000445484,;ZNF343,non_coding_transcript_exon_variant,,ENST00000465019,;RP4-734P14.4,intron_variant,,ENST00000461548,;	A	ENSG00000088876	ENST00000278772	Transcript	missense_variant	2087	1599	533	K/N	aaG/aaT	.	.	.	-1	ZNF343	HGNC	16017	protein_coding	YES	CCDS13028.1	ENSP00000278772	ZN343_HUMAN	.	UPI000013DB8F	.	deleterious(0.01)	benign(0.232)	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF00096,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24381:SF97,hmmpanther:PTHR24381,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTGACTTGTC	.	4	BLCA
SGK2	0	.	GRCh37	20	42196350	42196350	+	Silent	SNP	G	G	A	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312G>A	p.%3D	p.G104G	ENST00000341458	3/12	58	40	18	61	61	0	SGK2,synonymous_variant,p.%3D,ENST00000373100,;SGK2,synonymous_variant,p.%3D,ENST00000412111,;SGK2,synonymous_variant,p.%3D,ENST00000423407,;SGK2,synonymous_variant,p.%3D,ENST00000373077,;SGK2,synonymous_variant,p.%3D,ENST00000341458,;SGK2,synonymous_variant,p.%3D,ENST00000373092,;SGK2,synonymous_variant,p.%3D,ENST00000426287,;SGK2,upstream_gene_variant,,ENST00000485914,;SGK2,synonymous_variant,p.%3D,ENST00000496343,;	A	ENSG00000101049	ENST00000341458	Transcript	synonymous_variant	531	312	104	G	ggG/ggA	COSM4098623	.	.	1	SGK2	HGNC	13900	protein_coding	YES	CCDS13320.1	ENSP00000340608	SGK2_HUMAN	.	UPI0000033528	.	.	.	3/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF121,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGGGAACTA	.	5	BLCA
HPS4	0	.	GRCh37	22	26860540	26860540	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1056C>T	p.%3D	p.L352L	ENST00000398145	11/14	47	41	6	50	50	0	HPS4,synonymous_variant,p.%3D,ENST00000422379,;HPS4,synonymous_variant,p.%3D,ENST00000336873,;HPS4,synonymous_variant,p.%3D,ENST00000398141,;HPS4,synonymous_variant,p.%3D,ENST00000402105,;HPS4,synonymous_variant,p.%3D,ENST00000398145,;HPS4,upstream_gene_variant,,ENST00000493455,;HPS4,upstream_gene_variant,,ENST00000519774,;HPS4,downstream_gene_variant,,ENST00000459918,;HPS4,3_prime_UTR_variant,,ENST00000439453,;HPS4,3_prime_UTR_variant,,ENST00000429411,;HPS4,3_prime_UTR_variant,,ENST00000464362,;HPS4,non_coding_transcript_exon_variant,,ENST00000496385,;HPS4,non_coding_transcript_exon_variant,,ENST00000466781,;HPS4,intron_variant,,ENST00000485842,;	A	ENSG00000100099	ENST00000398145	Transcript	synonymous_variant	1673	1056	352	L	ctC/ctT	.	.	.	-1	HPS4	HGNC	15844	protein_coding	YES	CCDS13835.1	ENSP00000381213	HPS4_HUMAN	.	UPI000012CB6F	.	.	.	11/14	.	hmmpanther:PTHR14407:SF9,hmmpanther:PTHR14407	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTGAGGCC	.	4	BLCA
HPS4	0	.	GRCh37	22	26866711	26866711	+	Silent	SNP	G	G	A	rs201820144	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.570C>T	p.%3D	p.L190L	ENST00000398145	7/14	33	26	6	32	32	0	HPS4,synonymous_variant,p.%3D,ENST00000422379,;HPS4,synonymous_variant,p.%3D,ENST00000336873,;HPS4,synonymous_variant,p.%3D,ENST00000398141,;HPS4,synonymous_variant,p.%3D,ENST00000402105,;HPS4,synonymous_variant,p.%3D,ENST00000398145,;HPS4,non_coding_transcript_exon_variant,,ENST00000459918,;HPS4,3_prime_UTR_variant,,ENST00000439453,;HPS4,3_prime_UTR_variant,,ENST00000429411,;HPS4,3_prime_UTR_variant,,ENST00000464362,;HPS4,non_coding_transcript_exon_variant,,ENST00000496385,;HPS4,non_coding_transcript_exon_variant,,ENST00000466781,;HPS4,non_coding_transcript_exon_variant,,ENST00000485842,;HPS4,downstream_gene_variant,,ENST00000481910,;	A	ENSG00000100099	ENST00000398145	Transcript	synonymous_variant	1187	570	190	L	ctC/ctT	rs201820144	.	.	-1	HPS4	HGNC	15844	protein_coding	YES	CCDS13835.1	ENSP00000381213	HPS4_HUMAN	.	UPI000012CB6F	.	.	.	7/14	.	hmmpanther:PTHR14407:SF9,hmmpanther:PTHR14407	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGCGAGAAT	byCluster|by1000G	5	BLCA
CYTH4	0	.	GRCh37	22	37708184	37708184	+	Missense_Mutation	SNP	G	G	A	rs373316484	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1081G>A	p.Glu361Lys	p.E361K	ENST00000248901	12/13	41	31	10	40	40	0	CYTH4,missense_variant,p.Glu114Lys,ENST00000446506,;CYTH4,missense_variant,p.Glu361Lys,ENST00000248901,;CYTH4,non_coding_transcript_exon_variant,,ENST00000462927,;	A	ENSG00000100055	ENST00000248901	Transcript	missense_variant	1268	1081	361	E/K	Gag/Aag	rs373316484,COSM3554145	.	.	1	CYTH4	HGNC	9505	protein_coding	YES	CCDS13946.1	ENSP00000248901	CYH4_HUMAN	Q8WWE8_HUMAN,B4E2V8_HUMAN,B1AHH4_HUMAN	UPI000000D99D	.	deleterious(0.01)	benign(0.03)	12/13	.	Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30,Pfam_domain:PF00169,hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF60,PROSITE_profiles:PS50003	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0.0002	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCCGAGGAA	byCluster|by1000G	5	BLCA
PLXNB2	0	.	GRCh37	22	50727453	50727453	+	Missense_Mutation	SNP	G	G	A	rs376982545	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1187C>T	p.Thr396Met	p.T396M	ENST00000449103	4/37	32	23	8	31	31	0	PLXNB2,missense_variant,p.Thr396Met,ENST00000359337,;PLXNB2,missense_variant,p.Thr55Met,ENST00000411680,;PLXNB2,missense_variant,p.Thr396Met,ENST00000449103,;PLXNB2,missense_variant,p.Thr396Met,ENST00000432455,;PLXNB2,upstream_gene_variant,,ENST00000434732,;PLXNB2,downstream_gene_variant,,ENST00000425954,;PLXNB2,upstream_gene_variant,,ENST00000496720,;	A	ENSG00000196576	ENST00000449103	Transcript	missense_variant	1328	1187	396	T/M	aCg/aTg	rs376982545	.	.	-1	PLXNB2	HGNC	9104	protein_coding	YES	CCDS43035.1	ENSP00000409171	PLXB2_HUMAN	Q2TBE4_HUMAN,E2PU09_HUMAN,A6QRH1_HUMAN	UPI000003812D	.	deleterious(0.02)	benign(0.117)	4/37	.	PROSITE_profiles:PS51004,hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF9,Gene3D:2.130.10.10,Pfam_domain:PF01403,SMART_domains:SM00630,Superfamily_domains:SSF101912	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGACCGTCACG	byCluster|by1000G	5	BLCA
ARSA	0	.	GRCh37	22	51065458	51065458	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488G>A	p.Cys163Tyr	p.C163Y	ENST00000216124	3/8	27	20	7	23	23	0	ARSA,missense_variant,p.Cys161Tyr,ENST00000547805,;ARSA,missense_variant,p.Cys163Tyr,ENST00000395619,;ARSA,missense_variant,p.Cys77Tyr,ENST00000453344,;ARSA,missense_variant,p.Cys163Tyr,ENST00000395621,;ARSA,missense_variant,p.Cys163Tyr,ENST00000216124,;ARSA,missense_variant,p.Cys161Tyr,ENST00000547307,;ARSA,missense_variant,p.Cys163Tyr,ENST00000356098,;ARSA,upstream_gene_variant,,ENST00000610191,;ARSA,non_coding_transcript_exon_variant,,ENST00000551731,;ARSA,upstream_gene_variant,,ENST00000608497,;	T	ENSG00000100299	ENST00000216124	Transcript	missense_variant	881	488	163	C/Y	tGc/tAc	.	.	.	-1	ARSA	HGNC	713	protein_coding	YES	CCDS14100.2	ENSP00000216124	ARSA_HUMAN	.	UPI000013C6C4	.	deleterious(0.03)	probably_damaging(0.998)	3/8	.	hmmpanther:PTHR10342:SF22,hmmpanther:PTHR10342,Pfam_domain:PF00884,Gene3D:3.40.720.10,Superfamily_domains:SSF53649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAAGCAGGTC	.	5	BLCA
MBD5	0	.	GRCh37	2	149227965	149227965	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2453C>T	p.Thr818Met	p.T818M	ENST00000407073	9/15	65	61	4	52	52	0	MBD5,missense_variant,p.Thr818Met,ENST00000407073,;MBD5,missense_variant,p.Thr818Met,ENST00000404807,;MBD5,missense_variant,p.Thr558Met,ENST00000416015,;	T	ENSG00000204406	ENST00000407073	Transcript	missense_variant	3450	2453	818	T/M	aCg/aTg	.	.	.	1	MBD5	HGNC	20444	protein_coding	YES	CCDS33302.1	ENSP00000386049	MBD5_HUMAN	.	UPI0000208C40	.	deleterious(0.01)	possibly_damaging(0.897)	9/15	.	hmmpanther:PTHR16112,hmmpanther:PTHR16112:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCAACGTCCT	.	2	BLCA
BAZ2B	0	.	GRCh37	2	160245982	160245982	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3090G>A	p.%3D	p.L1030L	ENST00000392783	21/37	53	49	4	35	35	0	BAZ2B,synonymous_variant,p.%3D,ENST00000294905,;BAZ2B,synonymous_variant,p.%3D,ENST00000343439,;BAZ2B,synonymous_variant,p.%3D,ENST00000392782,;BAZ2B,synonymous_variant,p.%3D,ENST00000355831,;BAZ2B,synonymous_variant,p.%3D,ENST00000392783,;AC008277.1,intron_variant,,ENST00000420020,;BAZ2B,non_coding_transcript_exon_variant,,ENST00000551504,;BAZ2B,non_coding_transcript_exon_variant,,ENST00000485917,;	T	ENSG00000123636	ENST00000392783	Transcript	synonymous_variant	3586	3090	1030	L	ttG/ttA	.	.	.	-1	BAZ2B	HGNC	963	protein_coding	YES	CCDS2209.2	ENSP00000376534	BAZ2B_HUMAN	Q8NC87_HUMAN,Q53TG3_HUMAN,C9JCA6_HUMAN	UPI0000D74C4A	.	.	.	21/37	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF144,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTTTCAACCG	.	2	BLCA
RBM45	0	.	GRCh37	2	178977225	178977225	+	5'UTR	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-49C>T	.	.	ENST00000286070	1/10	14	11	3	18	18	0	RBM45,5_prime_UTR_variant,,ENST00000286070,;PDE11A,upstream_gene_variant,,ENST00000358450,;RBM45,non_coding_transcript_exon_variant,,ENST00000424000,;	T	ENSG00000155636	ENST00000286070	Transcript	5_prime_UTR_variant	44	.	.	.	.	.	.	.	1	RBM45	HGNC	24468	protein_coding	YES	CCDS33335.1	ENSP00000286070	RBM45_HUMAN	.	UPI00001AEAD8	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGACACCGC	.	2	BLCA
PLEKHA3	0	.	GRCh37	2	179365817	179365817	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.689C>T	p.Ser230Phe	p.S230F	ENST00000234453	7/8	90	80	10	99	99	0	PLEKHA3,missense_variant,p.Ser39Phe,ENST00000421187,;PLEKHA3,missense_variant,p.Ser230Phe,ENST00000234453,;	T	ENSG00000116095	ENST00000234453	Transcript	missense_variant	1091	689	230	S/F	tCt/tTt	.	.	.	1	PLEKHA3	HGNC	14338	protein_coding	YES	CCDS33336.1	ENSP00000234453	PKHA3_HUMAN	.	UPI000000DA8A	.	deleterious(0.04)	benign(0.372)	7/8	.	hmmpanther:PTHR10219,hmmpanther:PTHR10219:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTATCTACAC	.	4	BLCA
CERKL	0	.	GRCh37	2	182402895	182402895	+	3'Flank	SNP	T	T	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000339098	.	57	46	10	62	62	0	CERKL,3_prime_UTR_variant,,ENST00000409440,;CERKL,3_prime_UTR_variant,,ENST00000410087,;CERKL,3_prime_UTR_variant,,ENST00000374969,;CERKL,downstream_gene_variant,,ENST00000374970,;CERKL,downstream_gene_variant,,ENST00000339098,;ITGA4,downstream_gene_variant,,ENST00000397033,;CERKL,downstream_gene_variant,,ENST00000374967,;CERKL,downstream_gene_variant,,ENST00000494398,;CERKL,downstream_gene_variant,,ENST00000421817,;CERKL,downstream_gene_variant,,ENST00000452174,;	C	ENSG00000188452	ENST00000339098	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	16	-1	CERKL	HGNC	21699	protein_coding	YES	CCDS42789.1	ENSP00000341159	CERKL_HUMAN	G0XYE8_HUMAN,G0XYE7_HUMAN,G0XYD8_HUMAN	UPI000057259A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTTAGAAA	.	5	BLCA
COL3A1	0	.	GRCh37	2	189875383	189875383	+	Missense_Mutation	SNP	G	G	A	rs140646380	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4021G>A	p.Gly1341Ser	p.G1341S	ENST00000304636	50/51	88	70	17	82	82	0	COL3A1,missense_variant,p.Gly1038Ser,ENST00000317840,;COL3A1,missense_variant,p.Gly1341Ser,ENST00000304636,;COL3A1,non_coding_transcript_exon_variant,,ENST00000487010,;	A	ENSG00000168542	ENST00000304636	Transcript	missense_variant	4191	4021	1341	G/S	Ggc/Agc	rs140646380,COSM572462	.	.	1	COL3A1	HGNC	2201	protein_coding	YES	CCDS2297.1	ENSP00000304408	CO3A1_HUMAN	Q6LBY7_HUMAN,D2JYH5_HUMAN	UPI0000456EBA	.	.	unknown(0)	50/51	.	SMART_domains:SM00038,Pfam_domain:PF01410,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF415,PROSITE_profiles:PS51461	A:0.0004	A:0.0015	A:0	.	A:0	A:0	A:0	A:0	A:0.0005	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTACGGCAAT	byFrequency|byCluster|by1000G	5	BLCA
ZDBF2	0	.	GRCh37	2	207176149	207176149	+	Silent	SNP	C	C	T	rs772525021	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6897C>T	p.%3D	p.C2299C	ENST00000374423	5/5	14	11	3	16	16	0	ZDBF2,synonymous_variant,p.%3D,ENST00000374423,;	T	ENSG00000204186	ENST00000374423	Transcript	synonymous_variant	7283	6897	2299	C	tgC/tgT	rs772525021	.	.	1	ZDBF2	HGNC	29313	protein_coding	YES	CCDS46501.1	ENSP00000363545	ZDBF2_HUMAN	N0DVB2_HUMAN	UPI000022BDE3	.	.	.	5/5	.	hmmpanther:PTHR21639:SF2,hmmpanther:PTHR21639	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTGCCGCGT	byFrequency	2	BLCA
CYP27A1	0	.	GRCh37	2	219679356	219679356	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1352G>C	p.Arg451Thr	p.R451T	ENST00000258415	8/9	47	43	4	46	46	0	CYP27A1,missense_variant,p.Arg451Thr,ENST00000258415,;CYP27A1,downstream_gene_variant,,ENST00000411688,;RP11-459I19.1,upstream_gene_variant,,ENST00000608881,;CYP27A1,non_coding_transcript_exon_variant,,ENST00000494263,;CYP27A1,downstream_gene_variant,,ENST00000466602,;CYP27A1,downstream_gene_variant,,ENST00000445971,;	C	ENSG00000135929	ENST00000258415	Transcript	missense_variant	1779	1352	451	R/T	aGa/aCa	COSM1306437	.	.	1	CYP27A1	HGNC	2605	protein_coding	YES	CCDS2423.1	ENSP00000258415	CP27A_HUMAN	C9J1K5_HUMAN	UPI00001281BD	.	deleterious(0)	probably_damaging(0.948)	8/9	.	hmmpanther:PTHR24291:SF6,hmmpanther:PTHR24291,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGAGAAACA	.	2	BLCA
HDLBP	0	.	GRCh37	2	242186512	242186512	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1777C>T	p.His593Tyr	p.H593Y	ENST00000391975	15/28	37	29	7	41	41	0	HDLBP,missense_variant,p.His593Tyr,ENST00000310931,;HDLBP,missense_variant,p.His560Tyr,ENST00000427183,;HDLBP,missense_variant,p.His402Tyr,ENST00000373292,;HDLBP,missense_variant,p.His593Tyr,ENST00000391976,;HDLBP,missense_variant,p.His102Tyr,ENST00000452931,;HDLBP,missense_variant,p.His593Tyr,ENST00000391975,;HDLBP,upstream_gene_variant,,ENST00000427487,;AC104841.1,upstream_gene_variant,,ENST00000578965,;HDLBP,upstream_gene_variant,,ENST00000471294,;HDLBP,downstream_gene_variant,,ENST00000477477,;HDLBP,downstream_gene_variant,,ENST00000476807,;HDLBP,non_coding_transcript_exon_variant,,ENST00000460826,;HDLBP,non_coding_transcript_exon_variant,,ENST00000487169,;HDLBP,non_coding_transcript_exon_variant,,ENST00000488923,;HDLBP,downstream_gene_variant,,ENST00000498595,;HDLBP,upstream_gene_variant,,ENST00000459788,;HDLBP,upstream_gene_variant,,ENST00000479169,;	A	ENSG00000115677	ENST00000391975	Transcript	missense_variant	2005	1777	593	H/Y	Cac/Tac	.	.	.	-1	HDLBP	HGNC	4857	protein_coding	YES	CCDS2547.1	ENSP00000375836	VIGLN_HUMAN	Q96CF6_HUMAN,C9JZI8_HUMAN,C9JT62_HUMAN,C9JQ82_HUMAN,C9JMQ6_HUMAN,C9JKQ5_HUMAN,C9JIZ1_HUMAN,C9JHZ8_HUMAN,C9JHS7_HUMAN,C9JHN6_HUMAN,C9JES8_HUMAN,C9JEJ8_HUMAN,C9JBS3_HUMAN,C9J5E5_HUMAN	UPI00001AEF85	.	deleterious(0)	possibly_damaging(0.893)	15/28	.	PROSITE_profiles:PS50084,hmmpanther:PTHR10627:SF34,hmmpanther:PTHR10627,Pfam_domain:PF00013,Gene3D:3.30.1370.10,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTGAAACT	.	5	BLCA
PNPT1	0	.	GRCh37	2	55883275	55883275	+	Missense_Mutation	SNP	C	C	G	rs146990953	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1432G>C	p.Glu478Gln	p.E478Q	ENST00000447944	17/28	76	70	5	65	65	0	PNPT1,missense_variant,p.Glu478Gln,ENST00000447944,;PNPT1,missense_variant,p.Glu478Gln,ENST00000415374,;PNPT1,3_prime_UTR_variant,,ENST00000415489,;PNPT1,3_prime_UTR_variant,,ENST00000260604,;	G	ENSG00000138035	ENST00000447944	Transcript	missense_variant	1519	1432	478	E/Q	Gag/Cag	rs146990953,COSM1581493	.	.	-1	PNPT1	HGNC	23166	protein_coding	YES	CCDS1856.1	ENSP00000400646	PNPT1_HUMAN	.	UPI000020848E	.	deleterious(0)	probably_damaging(0.999)	17/28	.	Superfamily_domains:SSF54211,PIRSF_domain:PIRSF005499,Gene3D:1e3hA01,Pfam_domain:PF01138,TIGRFAM_domain:TIGR03591,hmmpanther:PTHR11252:SF0,hmmpanther:PTHR11252,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	G:0.0002	G:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGACTCTAGGA	byCluster	2	BLCA
SLC4A5	0	.	GRCh37	2	74483003	74483003	+	Silent	SNP	G	G	A	rs766872138	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.924C>T	p.%3D	p.L308L	ENST00000377634	13/31	33	27	6	41	41	0	SLC4A5,synonymous_variant,p.%3D,ENST00000377632,;SLC4A5,synonymous_variant,p.%3D,ENST00000425249,;SLC4A5,synonymous_variant,p.%3D,ENST00000359484,;SLC4A5,synonymous_variant,p.%3D,ENST00000358683,;SLC4A5,synonymous_variant,p.%3D,ENST00000423644,;SLC4A5,synonymous_variant,p.%3D,ENST00000394019,;SLC4A5,synonymous_variant,p.%3D,ENST00000346834,;SLC4A5,synonymous_variant,p.%3D,ENST00000377634,;SLC4A5,synonymous_variant,p.%3D,ENST00000357822,;SLC4A5,non_coding_transcript_exon_variant,,ENST00000483195,;RP11-287D1.3,3_prime_UTR_variant,,ENST00000451608,;	A	ENSG00000188687	ENST00000377634	Transcript	synonymous_variant	1324	924	308	L	ctC/ctT	rs766872138	.	.	-1	SLC4A5	HGNC	18168	protein_coding	YES	CCDS1936.1	ENSP00000366861	S4A5_HUMAN	Q9UDR3_HUMAN,Q53S35_HUMAN,Q53QY5_HUMAN,C9JW32_HUMAN,C9JU12_HUMAN,C9JNL6_HUMAN	UPI000013C97B	.	.	.	13/31	.	hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF20,Pfam_domain:PF07565,TIGRFAM_domain:TIGR00834,Gene3D:1hynR00,Superfamily_domains:SSF55804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCCACGAGCAC	.	4	BLCA
NCAPH	0	.	GRCh37	2	97017692	97017692	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.844A>T	p.Thr282Ser	p.T282S	ENST00000240423	7/18	106	92	14	72	72	0	NCAPH,missense_variant,p.Thr271Ser,ENST00000435975,;NCAPH,missense_variant,p.Thr271Ser,ENST00000455200,;NCAPH,missense_variant,p.Thr163Ser,ENST00000456906,;NCAPH,missense_variant,p.Thr146Ser,ENST00000427946,;NCAPH,missense_variant,p.Thr282Ser,ENST00000240423,;NCAPH,non_coding_transcript_exon_variant,,ENST00000477409,;	T	ENSG00000121152	ENST00000240423	Transcript	missense_variant	887	844	282	T/S	Act/Tct	.	.	.	1	NCAPH	HGNC	1112	protein_coding	YES	CCDS2021.1	ENSP00000240423	CND2_HUMAN	E9PHA2_HUMAN,B4E189_HUMAN	UPI0000163F72	.	tolerated(0.14)	benign(0.009)	7/18	.	hmmpanther:PTHR13108,Pfam_domain:PF05786,PIRSF_domain:PIRSF017126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCAGACTCTC	.	4	BLCA
CLRN1	0	.	GRCh37	3	150690271	150690271	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225G>A	p.%3D	p.G75G	ENST00000328863	1/4	52	37	15	58	58	0	CLRN1,synonymous_variant,p.%3D,ENST00000327047,;CLRN1,synonymous_variant,p.%3D,ENST00000328863,;CLRN1,5_prime_UTR_variant,,ENST00000468836,;CLRN1-AS1,intron_variant,,ENST00000476886,;RP11-166N6.2,intron_variant,,ENST00000469268,;CLRN1-AS1,upstream_gene_variant,,ENST00000465576,;CLRN1,non_coding_transcript_exon_variant,,ENST00000472224,;	T	ENSG00000163646	ENST00000328863	Transcript	synonymous_variant	225	225	75	G	ggG/ggA	.	.	.	-1	CLRN1	HGNC	12605	protein_coding	YES	CCDS56285.1	ENSP00000329158	CLRN1_HUMAN	.	UPI0001E43709	.	.	.	1/4	.	hmmpanther:PTHR31548:SF4,hmmpanther:PTHR31548	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAACCCACA	.	5	BLCA
ROBO2	0	.	GRCh37	3	77671410	77671410	+	Missense_Mutation	SNP	C	C	A	rs758454012	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3635C>A	p.Pro1212His	p.P1212H	ENST00000487694	24/27	55	40	14	77	77	0	ROBO2,missense_variant,p.Pro1196His,ENST00000332191,;ROBO2,missense_variant,p.Pro1196His,ENST00000461745,;ROBO2,missense_variant,p.Pro28His,ENST00000475334,;ROBO2,missense_variant,p.Pro1212His,ENST00000487694,;ROBO2,downstream_gene_variant,,ENST00000490991,;ROBO2,downstream_gene_variant,,ENST00000469233,;ROBO2,3_prime_UTR_variant,,ENST00000473767,;	A	ENSG00000185008	ENST00000487694	Transcript	missense_variant	3914	3635	1212	P/H	cCt/cAt	rs758454012,COSM1224094,COSM1224095	.	.	1	ROBO2	HGNC	10250	protein_coding	YES	CCDS54609.1	ENSP00000417335	ROBO2_HUMAN	H9XFA4_HUMAN	UPI0000D891EC	.	deleterious(0.01)	benign(0.001)	24/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10489:SF27,hmmpanther:PTHR10489	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCCTCCAG	byFrequency	5	BLCA
CADM2	0	.	GRCh37	3	86028351	86028351	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987C>T	p.%3D	p.P329P	ENST00000405615	8/10	108	75	33	185	185	0	CADM2,synonymous_variant,p.%3D,ENST00000407528,;CADM2,synonymous_variant,p.%3D,ENST00000405615,;CADM2,intron_variant,,ENST00000383699,;	T	ENSG00000175161	ENST00000405615	Transcript	synonymous_variant	987	987	329	P	ccC/ccT	.	.	.	1	CADM2	HGNC	29849	protein_coding	YES	CCDS33792.1	ENSP00000384193	CADM2_HUMAN	G3XHN8_HUMAN	UPI000013F077	.	.	.	8/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23277,hmmpanther:PTHR23277:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCCCTCCCT	.	5	BLCA
STX19	0	.	GRCh37	3	93733436	93733436	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678A>G	p.Ile226Met	p.I226M	ENST00000315099	2/2	29	21	7	41	41	0	STX19,missense_variant,p.Ile226Met,ENST00000315099,;ARL13B,intron_variant,,ENST00000394222,;ARL13B,intron_variant,,ENST00000303097,;ARL13B,intron_variant,,ENST00000535334,;ARL13B,intron_variant,,ENST00000471138,;ARL13B,intron_variant,,ENST00000539730,;ARL13B,intron_variant,,ENST00000486562,;ARL13B,intron_variant,,ENST00000335438,;ARL13B,intron_variant,,ENST00000460371,;	C	ENSG00000178750	ENST00000315099	Transcript	missense_variant	935	678	226	I/M	atA/atG	.	.	.	-1	STX19	HGNC	19300	protein_coding	YES	CCDS33793.1	ENSP00000320679	STX19_HUMAN	.	UPI00000471EA	.	tolerated(0.34)	benign(0.013)	2/2	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50192,hmmpanther:PTHR19957,hmmpanther:PTHR19957:SF29,PROSITE_patterns:PS00914,Gene3D:1.20.5.110,Pfam_domain:PF05739,SMART_domains:SM00397,Superfamily_domains:SSF47661	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTTATTTG	.	5	BLCA
CRYBG3	0	.	GRCh37	3	97662093	97662093	+	Missense_Mutation	SNP	C	C	G	rs531841992	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3004C>G	p.His1002Asp	p.H1002D	ENST00000182096	19/19	30	25	5	32	32	0	CRYBG3,missense_variant,p.His1002Asp,ENST00000182096,;CRYBG3,missense_variant,p.His209Asp,ENST00000389622,;MINA,3_prime_UTR_variant,,ENST00000333396,;MINA,downstream_gene_variant,,ENST00000503097,;CRYBG3,downstream_gene_variant,,ENST00000495403,;MINA,downstream_gene_variant,,ENST00000394198,;MINA,downstream_gene_variant,,ENST00000360258,;CRYBG3,non_coding_transcript_exon_variant,,ENST00000485253,;MINA,downstream_gene_variant,,ENST00000503517,;MINA,downstream_gene_variant,,ENST00000506682,;MINA,downstream_gene_variant,,ENST00000514314,;	G	ENSG00000080200	ENST00000182096	Transcript	missense_variant	3068	3004	1002	H/D	Cat/Gat	rs531841992	.	.	1	CRYBG3	HGNC	34427	protein_coding	YES	.	ENSP00000182096	CRBG3_HUMAN	.	UPI00006E232D	.	deleterious(0)	probably_damaging(0.966)	19/19	.	PROSITE_profiles:PS50231,hmmpanther:PTHR11818:SF38,hmmpanther:PTHR11818,Gene3D:2.80.10.50,Pfam_domain:PF00652,SMART_domains:SM00458,Superfamily_domains:SSF50370	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACTCATGTA	by1000G	4	BLCA
GABRR3	0	.	GRCh37	3	97731229	97731229	+	RNA	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.460G>T	.	.	ENST00000470589	5/6	25	22	3	29	29	0	GABRR3,non_coding_transcript_exon_variant,,ENST00000470589,;GABRR3,missense_variant,p.Met163Ile,ENST00000472788,;	A	ENSG00000183185	ENST00000470589	Transcript	non_coding_transcript_exon_variant	460	.	.	.	.	.	.	.	-1	GABRR3	HGNC	17969	retained_intron	YES	.	.	.	.	.	.	.	.	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CGCAGCATGAT	.	3	BLCA
KIAA1109	0	.	GRCh37	4	123254823	123254823	+	Silent	SNP	A	A	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11505A>G	p.%3D	p.S3835S	ENST00000264501	68/86	30	22	7	42	42	0	KIAA1109,synonymous_variant,p.%3D,ENST00000306802,;KIAA1109,synonymous_variant,p.%3D,ENST00000438707,;KIAA1109,synonymous_variant,p.%3D,ENST00000264501,;KIAA1109,synonymous_variant,p.%3D,ENST00000388738,;KIAA1109,upstream_gene_variant,,ENST00000483357,;KIAA1109,non_coding_transcript_exon_variant,,ENST00000480651,;	G	ENSG00000138688	ENST00000264501	Transcript	synonymous_variant	11878	11505	3835	S	tcA/tcG	.	.	.	1	KIAA1109	HGNC	26953	protein_coding	YES	CCDS43267.1	ENSP00000264501	K1109_HUMAN	B3KN93_HUMAN	UPI0000DD87B4	.	.	.	68/86	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31640:SF1,hmmpanther:PTHR31640	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTCACCTTC	.	5	BLCA
PHOX2B	0	.	GRCh37	4	41747866	41747866	+	Silent	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903C>A	p.%3D	p.P301P	ENST00000226382	3/3	16	13	3	23	23	0	PHOX2B,synonymous_variant,p.%3D,ENST00000226382,;PHOX2B,downstream_gene_variant,,ENST00000510424,;RP11-227F19.2,upstream_gene_variant,,ENST00000510602,;RP11-227F19.1,upstream_gene_variant,,ENST00000508038,;	T	ENSG00000109132	ENST00000226382	Transcript	synonymous_variant	1263	903	301	P	ccC/ccA	.	.	.	-1	PHOX2B	HGNC	9143	protein_coding	YES	CCDS3463.1	ENSP00000226382	PHX2B_HUMAN	.	UPI000000D936	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCGTTGGGTCT	.	2	BLCA
JAKMIP1	0	.	GRCh37	4	6107477	6107477	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347C>T	p.Thr116Met	p.T116M	ENST00000409021	3/21	18	14	4	14	14	0	JAKMIP1,missense_variant,p.Thr116Met,ENST00000409021,;JAKMIP1,missense_variant,p.Thr116Met,ENST00000409831,;JAKMIP1,missense_variant,p.Thr116Met,ENST00000282924,;JAKMIP1,intron_variant,,ENST00000409371,;JAKMIP1,intron_variant,,ENST00000410077,;JAKMIP1,intron_variant,,ENST00000457227,;JAKMIP1,missense_variant,p.Thr116Met,ENST00000473053,;	A	ENSG00000152969	ENST00000409021	Transcript	missense_variant	797	347	116	T/M	aCg/aTg	COSM4125399,COSM4125398	.	.	-1	JAKMIP1	HGNC	26460	protein_coding	YES	CCDS47005.1	ENSP00000386711	JKIP1_HUMAN	F2Z2K5_HUMAN	UPI00015734C1	.	tolerated(0.08)	possibly_damaging(0.632)	3/21	.	hmmpanther:PTHR18935,hmmpanther:PTHR18935:SF6	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGCGTGGCC	.	5	BLCA
LPHN3	0	.	GRCh37	4	62812837	62812837	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2421C>G	p.Ile807Met	p.I807M	ENST00000514591	15/25	22	16	6	35	35	0	LPHN3,missense_variant,p.Ile875Met,ENST00000507625,;LPHN3,missense_variant,p.Ile807Met,ENST00000508946,;LPHN3,missense_variant,p.Ile807Met,ENST00000506700,;LPHN3,missense_variant,p.Ile265Met,ENST00000502815,;LPHN3,missense_variant,p.Ile875Met,ENST00000509896,;LPHN3,missense_variant,p.Ile875Met,ENST00000511324,;LPHN3,missense_variant,p.Ile807Met,ENST00000545650,;LPHN3,missense_variant,p.Ile875Met,ENST00000506720,;LPHN3,missense_variant,p.Ile807Met,ENST00000504896,;LPHN3,missense_variant,p.Ile807Met,ENST00000514591,;LPHN3,missense_variant,p.Ile875Met,ENST00000508693,;LPHN3,missense_variant,p.Ile875Met,ENST00000506746,;LPHN3,missense_variant,p.Ile807Met,ENST00000514996,;LPHN3,missense_variant,p.Ile807Met,ENST00000512091,;LPHN3,missense_variant,p.Ile807Met,ENST00000514157,;LPHN3,missense_variant,p.Ile875Met,ENST00000507164,;LPHN3,downstream_gene_variant,,ENST00000508078,;	G	ENSG00000150471	ENST00000514591	Transcript	missense_variant	2750	2421	807	I/M	atC/atG	COSM1430466,COSM1430467,COSM1430465	.	.	1	LPHN3	HGNC	20974	protein_coding	YES	CCDS54768.1	ENSP00000422533	.	Q4W5J9_HUMAN,E9PE04_HUMAN	UPI00016278EF	.	deleterious(0)	possibly_damaging(0.477)	15/25	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF60	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATATCAAGGT	.	2	BLCA
UGT2B15	0	.	GRCh37	4	69535709	69535709	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628G>T	p.Glu210Ter	p.E210*	ENST00000338206	1/6	117	80	36	159	159	0	UGT2B15,stop_gained,p.Glu210Ter,ENST00000338206,;	A	ENSG00000196620	ENST00000338206	Transcript	stop_gained	638	628	210	E/*	Gag/Tag	.	.	.	-1	UGT2B15	HGNC	12546	protein_coding	YES	CCDS3524.1	ENSP00000341045	UDB15_HUMAN	.	UPI000045721A	.	.	.	1/6	.	Superfamily_domains:SSF53756,Pfam_domain:PF00201,hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R211R|c.633G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCCATGA	.	5	BLCA
PAM	0	.	GRCh37	5	102309957	102309957	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1300G>A	p.Asp434Asn	p.D434N	ENST00000304400	14/25	64	37	26	59	59	0	PAM,missense_variant,p.Asp207Asn,ENST00000379799,;PAM,missense_variant,p.Asp434Asn,ENST00000304400,;PAM,missense_variant,p.Asp434Asn,ENST00000346918,;PAM,missense_variant,p.Asp337Asn,ENST00000274392,;PAM,missense_variant,p.Asp434Asn,ENST00000438793,;PAM,missense_variant,p.Asp434Asn,ENST00000455264,;PAM,5_prime_UTR_variant,,ENST00000379787,;PAM,intron_variant,,ENST00000348126,;PAM,3_prime_UTR_variant,,ENST00000345721,;PAM,non_coding_transcript_exon_variant,,ENST00000505372,;	A	ENSG00000145730	ENST00000304400	Transcript	missense_variant	1486	1300	434	D/N	Gat/Aat	COSM735183,COSM735182	.	.	1	PAM	HGNC	8596	protein_coding	YES	CCDS43348.1	ENSP00000306100	AMD_HUMAN	D6RG20_HUMAN,D6RF09_HUMAN,D6RDU2_HUMAN,D6RCD5_HUMAN,D6RAQ2_HUMAN,D6R961_HUMAN	UPI000015618B	.	deleterious(0.04)	probably_damaging(0.991)	14/25	.	hmmpanther:PTHR10680,hmmpanther:PTHR10680:SF13	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAGGATCTT	.	5	BLCA
TRIM36	0	.	GRCh37	5	114472811	114472811	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1132G>A	p.Ala378Thr	p.A378T	ENST00000282369	7/10	36	28	8	64	64	0	TRIM36,missense_variant,p.Ala223Thr,ENST00000514154,;TRIM36,missense_variant,p.Ala378Thr,ENST00000282369,;TRIM36,missense_variant,p.Ala366Thr,ENST00000513154,;TRIM36,downstream_gene_variant,,ENST00000513485,;	T	ENSG00000152503	ENST00000282369	Transcript	missense_variant	1254	1132	378	A/T	Gcc/Acc	.	.	.	-1	TRIM36	HGNC	16280	protein_coding	YES	CCDS4115.1	ENSP00000282369	TRI36_HUMAN	E9PBG3_HUMAN	UPI000013DCD9	.	tolerated(0.07)	probably_damaging(0.981)	7/10	.	PROSITE_profiles:PS51262,hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGGCTTTCT	.	5	BLCA
SEC24A	0	.	GRCh37	5	134011728	134011728	+	Silent	SNP	G	G	T	rs548510950	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1167G>T	p.%3D	p.T389T	ENST00000398844	7/23	71	44	26	88	87	1	SEC24A,synonymous_variant,p.%3D,ENST00000322887,;SEC24A,synonymous_variant,p.%3D,ENST00000398844,;SEC24A,upstream_gene_variant,,ENST00000513123,;	T	ENSG00000113615	ENST00000398844	Transcript	synonymous_variant	1455	1167	389	T	acG/acT	rs548510950	.	.	1	SEC24A	HGNC	10703	protein_coding	YES	CCDS43363.1	ENSP00000381823	SC24A_HUMAN	.	UPI0000185FF9	.	.	.	7/23	.	Superfamily_domains:SSF81995,hmmpanther:PTHR13803,hmmpanther:PTHR13803:SF1	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACGCTGAC	by1000G	5	BLCA
DNAH5	0	.	GRCh37	5	13700903	13700903	+	Silent	SNP	G	G	A	rs151080414	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13569C>T	p.%3D	p.D4523D	ENST00000265104	78/79	139	120	19	118	117	0	DNAH5,synonymous_variant,p.%3D,ENST00000265104,;	A	ENSG00000039139	ENST00000265104	Transcript	synonymous_variant	13674	13569	4523	D	gaC/gaT	rs151080414	.	.	-1	DNAH5	HGNC	2950	protein_coding	YES	CCDS3882.1	ENSP00000265104	DYH5_HUMAN	O95496_HUMAN	UPI0000110101	.	.	.	78/79	.	Pfam_domain:PF03028,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF240	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	T:0.0034	T:0.0001	likely_benign	.	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTCGTCCTT	byFrequency|byCluster|by1000G	4	BLCA
PCDHA8	0	.	GRCh37	5	140222622	140222622	+	Silent	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1716C>A	p.%3D	p.G572G	ENST00000531613	1/4	80	67	13	80	80	0	PCDHA8,synonymous_variant,p.%3D,ENST00000531613,;PCDHA8,synonymous_variant,p.%3D,ENST00000378123,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA9,upstream_gene_variant,,ENST00000378122,;PCDHA9,upstream_gene_variant,,ENST00000532602,;	A	ENSG00000204962	ENST00000531613	Transcript	synonymous_variant	1716	1716	572	G	ggC/ggA	.	.	.	1	PCDHA8	HGNC	8674	protein_coding	YES	CCDS54919.1	ENSP00000434655	PCDA8_HUMAN	.	UPI00001273D0	.	.	.	1/4	.	hmmpanther:PTHR24028:SF83,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGGCACTGG	.	5	BLCA
AC005609.1	0	.	GRCh37	5	140242340	140242340	+	3'UTR	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*57G>A	.	.	ENST00000502505	1/1	32	27	5	30	30	0	AC005609.1,3_prime_UTR_variant,,ENST00000502505,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA9,intron_variant,,ENST00000532602,;PCDHA14,upstream_gene_variant,,ENST00000562220,;PCDHA14,non_coding_transcript_exon_variant,,ENST00000506751,;	T	ENSG00000249034	ENST00000502505	Transcript	3_prime_UTR_variant	885	.	.	.	.	.	.	.	-1	AC005609.1	Clone_based_ensembl_gene	.	protein_coding	YES	.	ENSP00000424817	.	Q8NB83_HUMAN	UPI0000073A41	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGAGCGGCAA	.	4	BLCA
PCDHB5	0	.	GRCh37	5	140517461	140517461	+	3'UTR	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*57G>T	.	.	ENST00000231134	1/1	19	8	10	16	16	0	PCDHB5,3_prime_UTR_variant,,ENST00000231134,;	T	ENSG00000113209	ENST00000231134	Transcript	3_prime_UTR_variant	2662	.	.	.	.	.	.	.	1	PCDHB5	HGNC	8690	protein_coding	YES	CCDS4247.1	ENSP00000231134	PCDB5_HUMAN	.	UPI00001273E1	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTAGAATTC	.	5	BLCA
SLIT3	0	.	GRCh37	5	168180914	168180914	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1784C>A	p.Thr595Asn	p.T595N	ENST00000519560	17/36	25	15	9	27	27	0	SLIT3,missense_variant,p.Thr595Asn,ENST00000332966,;SLIT3,missense_variant,p.Thr595Asn,ENST00000519560,;SLIT3,missense_variant,p.Thr595Asn,ENST00000404867,;SLIT3,non_coding_transcript_exon_variant,,ENST00000519486,;	T	ENSG00000184347	ENST00000519560	Transcript	missense_variant	2204	1784	595	T/N	aCc/aAc	.	.	.	-1	SLIT3	HGNC	11087	protein_coding	YES	CCDS4369.1	ENSP00000430333	SLIT3_HUMAN	.	UPI00001B0229	.	tolerated(0.34)	benign(0.004)	17/36	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF15,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V596M|c.1786G>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACGGTCTCC	.	5	BLCA
PDCD6	0	.	GRCh37	5	272837	272837	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.113A>T	p.Asp38Val	p.D38V	ENST00000264933	2/6	32	23	9	46	46	0	PDCD6,missense_variant,p.Asp38Val,ENST00000505221,;PDCD6,missense_variant,p.Asp38Val,ENST00000507528,;PDCD6,missense_variant,p.Asp4Val,ENST00000507473,;PDCD6,missense_variant,p.Asp38Val,ENST00000509581,;PDCD6,missense_variant,p.Asp38Val,ENST00000264933,;CTD-2083E4.6,upstream_gene_variant,,ENST00000512642,;PDCD6,missense_variant,p.Asp38Val,ENST00000506909,;PDCD6,non_coding_transcript_exon_variant,,ENST00000515587,;PDCD6,non_coding_transcript_exon_variant,,ENST00000513582,;PDCD6,intron_variant,,ENST00000505526,;	T	ENSG00000249915	ENST00000264933	Transcript	missense_variant	213	113	38	D/V	gAc/gTc	.	.	.	1	PDCD6	HGNC	8765	protein_coding	YES	CCDS3854.1	ENSP00000264933	PDCD6_HUMAN	Q86W51_HUMAN	UPI00001313D9	.	deleterious(0)	probably_damaging(0.989)	2/6	.	PROSITE_profiles:PS50222,hmmpanther:PTHR10183,PROSITE_patterns:PS00018,Gene3D:1.10.238.10,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TAAAGACAGGA	.	3	BLCA
SREK1IP1	0	.	GRCh37	5	64023984	64023984	+	Missense_Mutation	SNP	C	C	G	rs578186041	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228G>C	p.Lys76Asn	p.K76N	ENST00000513458	4/5	26	20	6	18	18	0	SREK1IP1,missense_variant,p.Lys76Asn,ENST00000513458,;SREK1IP1,non_coding_transcript_exon_variant,,ENST00000495198,;	G	ENSG00000153006	ENST00000513458	Transcript	missense_variant	396	228	76	K/N	aaG/aaC	rs578186041	.	.	-1	SREK1IP1	HGNC	26716	protein_coding	YES	CCDS34171.1	ENSP00000427401	SR1IP_HUMAN	.	UPI000006EDBE	.	tolerated(0.07)	unknown(0)	4/5	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31437:SF1,hmmpanther:PTHR31437	T:0.0036	T:0.0068	T:0.0058	.	T:0.002	T:0.002	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTTCTTTTC	byFrequency|by1000G	2	BLCA
BHMT	0	.	GRCh37	5	78417053	78417053	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.490G>A	p.Val164Ile	p.V164I	ENST00000274353	5/8	106	85	21	118	118	0	BHMT,missense_variant,p.Val164Ile,ENST00000274353,;BHMT,intron_variant,,ENST00000524080,;DMGDH,non_coding_transcript_exon_variant,,ENST00000518707,;DMGDH,non_coding_transcript_exon_variant,,ENST00000520388,;BHMT,non_coding_transcript_exon_variant,,ENST00000523508,;BHMT,downstream_gene_variant,,ENST00000520703,;BHMT,upstream_gene_variant,,ENST00000521279,;BHMT,downstream_gene_variant,,ENST00000520335,;	A	ENSG00000145692	ENST00000274353	Transcript	missense_variant	597	490	164	V/I	Gtt/Att	.	.	.	1	BHMT	HGNC	1047	protein_coding	YES	CCDS4046.1	ENSP00000274353	BHMT1_HUMAN	.	UPI000006D864	.	tolerated(0.18)	benign(0.01)	5/8	.	PROSITE_profiles:PS50970,hmmpanther:PTHR21091,hmmpanther:PTHR21091:SF94,Pfam_domain:PF02574,Gene3D:3.20.20.330,PIRSF_domain:PIRSF037505,Superfamily_domains:SSF82282	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACACGTTGAA	.	5	BLCA
GPR98	0	.	GRCh37	5	89910681	89910681	+	Missense_Mutation	SNP	C	C	A	rs765053836	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52C>A	p.Leu18Ile	p.L18I	ENST00000405460	2/90	34	29	5	38	38	0	GPR98,missense_variant,p.Leu18Ile,ENST00000405460,;GPR98,missense_variant,p.Leu22Ile,ENST00000508842,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	148	52	18	L/I	Ctt/Att	rs765053836	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	possibly_damaging(0.636)	2/90	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAATCTTCTT	.	4	BLCA
SIM1	0	.	GRCh37	6	100841370	100841370	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1563G>C	p.Arg521Ser	p.R521S	ENST00000369208	11/12	70	50	19	88	88	0	SIM1,missense_variant,p.Arg521Ser,ENST00000369208,;SIM1,missense_variant,p.Arg521Ser,ENST00000262901,;SIM1,non_coding_transcript_exon_variant,,ENST00000505753,;	G	ENSG00000112246	ENST00000369208	Transcript	missense_variant	2346	1563	521	R/S	agG/agC	.	.	.	-1	SIM1	HGNC	10882	protein_coding	YES	CCDS5045.1	ENSP00000358210	SIM1_HUMAN	.	UPI000013D355	.	tolerated_low_confidence(0.9)	benign(0.005)	11/12	.	PROSITE_profiles:PS51302,hmmpanther:PTHR23043:SF22,hmmpanther:PTHR23043,Pfam_domain:PF06621	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATCCTGTG	.	5	BLCA
BEND3	0	.	GRCh37	6	107390189	107390189	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2206G>A	p.Val736Met	p.V736M	ENST00000429433	5/5	45	39	6	54	54	0	BEND3,missense_variant,p.Val736Met,ENST00000429433,;BEND3,missense_variant,p.Val736Met,ENST00000369042,;	T	ENSG00000178409	ENST00000429433	Transcript	missense_variant	2856	2206	736	V/M	Gtg/Atg	.	.	.	-1	BEND3	HGNC	23040	protein_coding	YES	CCDS34507.1	ENSP00000411268	BEND3_HUMAN	.	UPI00001D80D7	.	deleterious(0.01)	probably_damaging(0.999)	5/5	.	PROSITE_profiles:PS51457	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCACGGAGA	.	4	BLCA
REV3L	0	.	GRCh37	6	111696058	111696058	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3500C>G	p.Thr1167Ser	p.T1167S	ENST00000358835	14/33	99	53	45	163	163	0	REV3L,missense_variant,p.Thr1089Ser,ENST00000435970,;REV3L,missense_variant,p.Thr1167Ser,ENST00000358835,;REV3L,missense_variant,p.Thr1167Ser,ENST00000368802,;REV3L,missense_variant,p.Thr1167Ser,ENST00000368805,;REV3L,3_prime_UTR_variant,,ENST00000434009,;REV3L,3_prime_UTR_variant,,ENST00000422377,;	C	ENSG00000009413	ENST00000358835	Transcript	missense_variant	3955	3500	1167	T/S	aCt/aGt	.	.	.	-1	REV3L	HGNC	9968	protein_coding	YES	CCDS5091.2	ENSP00000351697	DPOLZ_HUMAN	Q9UID5_HUMAN,C4TNX2_HUMAN,C4TNX1_HUMAN,C4TNX0_HUMAN,C4B7Q4_HUMAN	UPI0000140023	.	tolerated_low_confidence(0.4)	benign(0.001)	14/33	.	hmmpanther:PTHR10322:SF16,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTAGTTTTT	.	5	BLCA
BCLAF1	0	.	GRCh37	6	136597481	136597481	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1182T>G	p.Phe394Leu	p.F394L	ENST00000531224	5/13	289	259	30	343	342	1	BCLAF1,missense_variant,p.Phe394Leu,ENST00000529826,;BCLAF1,missense_variant,p.Phe394Leu,ENST00000527536,;BCLAF1,missense_variant,p.Phe392Leu,ENST00000392348,;BCLAF1,missense_variant,p.Phe394Leu,ENST00000531224,;BCLAF1,missense_variant,p.Phe392Leu,ENST00000353331,;BCLAF1,missense_variant,p.Phe392Leu,ENST00000527759,;BCLAF1,intron_variant,,ENST00000530767,;BCLAF1,missense_variant,p.Phe394Leu,ENST00000527613,;BCLAF1,missense_variant,p.Phe392Leu,ENST00000530429,;BCLAF1,missense_variant,p.Phe394Leu,ENST00000532384,;BCLAF1,intron_variant,,ENST00000533621,;BCLAF1,intron_variant,,ENST00000534269,;BCLAF1,upstream_gene_variant,,ENST00000476194,;BCLAF1,upstream_gene_variant,,ENST00000532076,;BCLAF1,upstream_gene_variant,,ENST00000534792,;BCLAF1,downstream_gene_variant,,ENST00000528229,;	C	ENSG00000029363	ENST00000531224	Transcript	missense_variant	1435	1182	394	F/L	ttT/ttG	.	.	.	-1	BCLAF1	HGNC	16863	protein_coding	YES	CCDS5177.1	ENSP00000435210	BCLF1_HUMAN	B0AZU3_HUMAN	UPI000006FCE7	.	deleterious(0.01)	benign(0.294)	5/13	.	Pfam_domain:PF15440,hmmpanther:PTHR15268,hmmpanther:PTHR15268:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TCATTAAACTT	.	2	BLCA
TIAM2	0	.	GRCh37	6	155450823	155450823	+	Missense_Mutation	SNP	C	C	T	rs768356762	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466C>T	p.Arg156Cys	p.R156C	ENST00000461783	6/29	24	20	4	29	29	0	TIAM2,missense_variant,p.Arg156Cys,ENST00000461783,;TIAM2,missense_variant,p.Arg156Cys,ENST00000318981,;TIAM2,missense_variant,p.Arg156Cys,ENST00000528535,;TIAM2,missense_variant,p.Arg156Cys,ENST00000456144,;TIAM2,missense_variant,p.Arg156Cys,ENST00000535583,;TIAM2,missense_variant,p.Arg156Cys,ENST00000529824,;TIAM2,missense_variant,p.Arg156Cys,ENST00000360366,;TIAM2,5_prime_UTR_variant,,ENST00000367174,;TIAM2,downstream_gene_variant,,ENST00000535231,;TIAM2,downstream_gene_variant,,ENST00000538270,;TIAM2,downstream_gene_variant,,ENST00000545347,;	T	ENSG00000146426	ENST00000461783	Transcript	missense_variant	1739	466	156	R/C	Cgc/Tgc	rs768356762	.	.	1	TIAM2	HGNC	11806	protein_coding	YES	CCDS34558.1	ENSP00000437188	TIAM2_HUMAN	F5H8H5_HUMAN,F5H6W6_HUMAN,F5H6R0_HUMAN,F5H1M3_HUMAN,E9PMZ8_HUMAN	UPI00004DF8BE	.	deleterious_low_confidence(0)	possibly_damaging(0.677)	6/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGACCGCAAG	byFrequency	4	BLCA
FAM120B	0	.	GRCh37	6	170627481	170627481	+	Missense_Mutation	SNP	G	G	A	rs146980569	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1003G>A	p.Ala335Thr	p.A335T	ENST00000476287	2/11	120	66	54	141	141	0	FAM120B,missense_variant,p.Ala335Thr,ENST00000476287,;FAM120B,missense_variant,p.Ala358Thr,ENST00000537664,;FAM120B,missense_variant,p.Ala347Thr,ENST00000540480,;FAM120B,intron_variant,,ENST00000252510,;	A	ENSG00000112584	ENST00000476287	Transcript	missense_variant	1111	1003	335	A/T	Gcc/Acc	rs146980569	.	.	1	FAM120B	HGNC	21109	protein_coding	YES	CCDS5314.1	ENSP00000417970	F120B_HUMAN	B4DL34_HUMAN	UPI000006DC13	.	tolerated(0.12)	benign(0.002)	2/11	.	hmmpanther:PTHR15976,hmmpanther:PTHR15976:SF7	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGACGCCGAA	byCluster	5	BLCA
UBR2	0	.	GRCh37	6	42626499	42626499	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3179A>G	p.Asn1060Ser	p.N1060S	ENST00000372899	29/47	61	32	29	114	114	0	UBR2,missense_variant,p.Asn1060Ser,ENST00000372901,;UBR2,missense_variant,p.Thr568Ala,ENST00000372883,;UBR2,missense_variant,p.Asn1060Ser,ENST00000372899,;	G	ENSG00000024048	ENST00000372899	Transcript	missense_variant	3437	3179	1060	N/S	aAc/aGc	.	.	.	1	UBR2	HGNC	21289	protein_coding	YES	CCDS4870.1	ENSP00000361990	UBR2_HUMAN	B3KXG6_HUMAN	UPI0000074466	.	deleterious(0.01)	probably_damaging(0.979)	29/47	.	hmmpanther:PTHR21497,hmmpanther:PTHR21497:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAAACAAAG	.	5	BLCA
MUC17	0	.	GRCh37	7	100663442	100663442	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.26T>C	p.Leu9Pro	p.L9P	ENST00000306151	1/13	32	18	14	47	47	0	MUC17,missense_variant,p.Leu9Pro,ENST00000306151,;MUC12,downstream_gene_variant,,ENST00000536621,;MUC12,downstream_gene_variant,,ENST00000379442,;RP11-395B7.4,upstream_gene_variant,,ENST00000448513,;RP11-395B7.4,upstream_gene_variant,,ENST00000441882,;MUC12,downstream_gene_variant,,ENST00000473098,;MUC12,downstream_gene_variant,,ENST00000467414,;MUC17,missense_variant,p.Leu9Pro,ENST00000379439,;MUC12,downstream_gene_variant,,ENST00000474482,;MUC12,downstream_gene_variant,,ENST00000305119,;	C	ENSG00000169876	ENST00000306151	Transcript	missense_variant	90	26	9	L/P	cTg/cCg	.	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	benign(0)	1/13	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGCGCTGTGTC	.	4	BLCA
DNAH11	0	.	GRCh37	7	21640753	21640753	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3381G>C	p.Trp1127Cys	p.W1127C	ENST00000328843	17/83	44	41	3	41	41	0	DNAH11,missense_variant,p.Trp1127Cys,ENST00000328843,;DNAH11,missense_variant,p.Trp1127Cys,ENST00000409508,;	C	ENSG00000105877	ENST00000328843	Transcript	missense_variant	3412	3381	1127	W/C	tgG/tgC	COSM274820	.	.	1	DNAH11	HGNC	2942	protein_coding	YES	.	ENSP00000330671	DYH11_HUMAN	Q75MY1_HUMAN,Q75KM7_HUMAN,O95705_HUMAN,O43352_HUMAN,O15433_HUMAN	UPI000041AC4D	.	.	probably_damaging(0.997)	17/83	.	hmmpanther:PTHR10676:SF227,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAATGGAGCTG	.	2	BLCA
AVL9	0	.	GRCh37	7	32582813	32582813	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154G>A	p.Glu52Lys	p.E52K	ENST00000318709	2/16	152	120	32	173	173	0	AVL9,missense_variant,p.Glu52Lys,ENST00000318709,;AVL9,missense_variant,p.Glu52Lys,ENST00000404479,;AVL9,missense_variant,p.Glu52Lys,ENST00000409301,;AVL9,upstream_gene_variant,,ENST00000446718,;AVL9,intron_variant,,ENST00000485228,;AVL9,downstream_gene_variant,,ENST00000459629,;	A	ENSG00000105778	ENST00000318709	Transcript	missense_variant	375	154	52	E/K	Gaa/Aaa	.	.	.	1	AVL9	HGNC	28994	protein_coding	YES	CCDS34613.1	ENSP00000315568	AVL9_HUMAN	.	UPI0000049D97	.	tolerated(0.12)	benign(0.021)	2/16	.	Pfam_domain:PF09794,hmmpanther:PTHR31017:SF1,hmmpanther:PTHR31017	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGAAGAA	.	5	BLCA
ABCA13	0	.	GRCh37	7	48318507	48318507	+	Silent	SNP	A	A	G	rs749342390	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7716A>G	p.%3D	p.E2572E	ENST00000435803	18/62	64	60	4	75	75	0	ABCA13,synonymous_variant,p.%3D,ENST00000435803,;	G	ENSG00000179869	ENST00000435803	Transcript	synonymous_variant	7740	7716	2572	E	gaA/gaG	rs749342390	.	.	1	ABCA13	HGNC	14638	protein_coding	YES	CCDS47584.1	ENSP00000411096	ABCAD_HUMAN	.	UPI00001A95EA	.	.	.	18/62	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.I2579fs*1|c.7728delA|3,BUFFER|p.I2524fs*1|c.7563delA|3	MUTECT|MUSE	AAAGAAATAGC	.	2	BLCA
HIP1	0	.	GRCh37	7	75177109	75177109	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2409G>C	p.Glu803Asp	p.E803D	ENST00000336926	24/31	164	127	37	179	179	0	HIP1,missense_variant,p.Glu803Asp,ENST00000336926,;HIP1,intron_variant,,ENST00000434438,;	G	ENSG00000127946	ENST00000336926	Transcript	missense_variant	2436	2409	803	E/D	gaG/gaC	.	.	.	-1	HIP1	HGNC	4913	protein_coding	YES	CCDS34669.1	ENSP00000336747	HIP1_HUMAN	Q8TDA4_HUMAN,B4DYD7_HUMAN,B4DK46_HUMAN	UPI000013D65F	.	tolerated(0.5)	benign(0.02)	24/31	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50945,hmmpanther:PTHR10407:SF14,hmmpanther:PTHR10407,Gene3D:1r0dB00,Superfamily_domains:SSF109885	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCTCCTG	.	5	BLCA
ASNS	0	.	GRCh37	7	97482681	97482681	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1256delC	p.Pro419HisfsTer3	p.P419Hfs*3	ENST00000175506	12/14	64	58	6	65	65	0	ASNS,frameshift_variant,p.Pro419HisfsTer3,ENST00000394309,;ASNS,frameshift_variant,p.Pro336HisfsTer3,ENST00000437628,;ASNS,frameshift_variant,p.Pro419HisfsTer3,ENST00000175506,;ASNS,frameshift_variant,p.Pro336HisfsTer3,ENST00000455086,;ASNS,frameshift_variant,p.Pro398HisfsTer3,ENST00000444334,;ASNS,frameshift_variant,p.Pro419HisfsTer3,ENST00000394308,;ASNS,frameshift_variant,p.Pro398HisfsTer3,ENST00000422745,;ASNS,3_prime_UTR_variant,,ENST00000454046,;ASNS,non_coding_transcript_exon_variant,,ENST00000487714,;ASNS,downstream_gene_variant,,ENST00000462436,;	-	ENSG00000070669	ENST00000175506	Transcript	frameshift_variant	1785	1256	419	P/X	cCa/ca	.	.	.	-1	ASNS	HGNC	753	protein_coding	YES	CCDS5652.1	ENSP00000175506	ASNS_HUMAN	C9JT45_HUMAN,C9JM09_HUMAN,C9JLA3_HUMAN,C9J605_HUMAN,C9J057_HUMAN	UPI0000169F55	.	.	.	12/14	.	hmmpanther:PTHR11772:SF5,hmmpanther:PTHR11772,Gene3D:3.40.50.620,Pfam_domain:PF00733,PIRSF_domain:PIRSF001589,Superfamily_domains:SSF52402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGAAATGGGACT	.	3	BLCA
KCNK9	0	.	GRCh37	8	140631204	140631204	+	Missense_Mutation	SNP	T	T	A	rs764990488	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.422A>T	p.Lys141Met	p.K141M	ENST00000520439	2/2	30	22	8	20	20	0	KCNK9,missense_variant,p.Lys141Met,ENST00000520439,;KCNK9,missense_variant,p.Lys141Met,ENST00000303015,;KCNK9,upstream_gene_variant,,ENST00000523477,;KCNK9,upstream_gene_variant,,ENST00000519923,;KCNK9,missense_variant,p.Lys141Met,ENST00000522317,;	A	ENSG00000169427	ENST00000520439	Transcript	missense_variant	486	422	141	K/M	aAg/aTg	rs764990488	.	.	-1	KCNK9	HGNC	6283	protein_coding	YES	CCDS6377.1	ENSP00000430676	KCNK9_HUMAN	.	UPI000000D8AC	.	deleterious(0.02)	benign(0.254)	2/2	.	hmmpanther:PTHR11003:SF75,hmmpanther:PTHR11003,PIRSF_domain:PIRSF038061,Superfamily_domains:SSF81324,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGCTTCAGC	.	5	BLCA
AGO2	0	.	GRCh37	8	141582961	141582961	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>A	p.Gly96Ser	p.G96S	ENST00000220592	3/19	90	78	12	81	81	0	AGO2,missense_variant,p.Gly96Ser,ENST00000519980,;AGO2,missense_variant,p.Gly96Ser,ENST00000220592,;AGO2,downstream_gene_variant,,ENST00000524328,;AGO2,non_coding_transcript_exon_variant,,ENST00000517293,;AGO2,synonymous_variant,p.%3D,ENST00000523609,;	T	ENSG00000123908	ENST00000220592	Transcript	missense_variant	399	286	96	G/S	Ggc/Agc	.	.	.	-1	AGO2	HGNC	3263	protein_coding	YES	CCDS6380.1	ENSP00000220592	AGO2_HUMAN	E5RJY2_HUMAN	UPI0000168652	.	deleterious(0)	probably_damaging(0.972)	3/19	.	Superfamily_domains:SSF101690,hmmpanther:PTHR22891,hmmpanther:PTHR22891:SF18,HAMAP:MF_03031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGCCGTCAA	.	4	BLCA
ADAM28	0	.	GRCh37	8	24190240	24190240	+	Missense_Mutation	SNP	G	G	A	rs267601862	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1349G>A	p.Gly450Glu	p.G450E	ENST00000265769	13/23	67	58	9	79	79	0	ADAM28,missense_variant,p.Gly450Glu,ENST00000437154,;ADAM28,missense_variant,p.Gly83Glu,ENST00000521629,;ADAM28,missense_variant,p.Gly197Glu,ENST00000397649,;ADAM28,missense_variant,p.Gly217Glu,ENST00000540823,;ADAM28,missense_variant,p.Gly450Glu,ENST00000265769,;RP11-624C23.1,intron_variant,,ENST00000518988,;RP11-624C23.1,intron_variant,,ENST00000519689,;RP11-624C23.1,intron_variant,,ENST00000523578,;RP11-624C23.1,intron_variant,,ENST00000523700,;ADAM28,downstream_gene_variant,,ENST00000521110,;ADAM28,downstream_gene_variant,,ENST00000518516,;ADAM28,3_prime_UTR_variant,,ENST00000520448,;	A	ENSG00000042980	ENST00000265769	Transcript	missense_variant	1459	1349	450	G/E	gGa/gAa	rs267601862,COSM142136	.	.	1	ADAM28	HGNC	206	protein_coding	YES	CCDS34865.1	ENSP00000265769	ADA28_HUMAN	E5RGY1_HUMAN	UPI000049E0B9	.	deleterious(0.02)	possibly_damaging(0.585)	13/23	.	PROSITE_profiles:PS50214,hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF22,PROSITE_patterns:PS00427,Pfam_domain:PF00200,Gene3D:4.10.70.10,SMART_domains:SM00050,Superfamily_domains:SSF57552,Prints_domain:PR00289	.	.	.	.	.	.	.	.	.	not_provided	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATTAGGAGAAT	.	3	BLCA
ADRA1A	0	.	GRCh37	8	26628084	26628084	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.983G>A	p.Cys328Tyr	p.C328Y	ENST00000380586	2/3	144	47	96	137	137	0	ADRA1A,missense_variant,p.Cys328Tyr,ENST00000380573,;ADRA1A,missense_variant,p.Cys328Tyr,ENST00000276393,;ADRA1A,missense_variant,p.Cys328Tyr,ENST00000380586,;ADRA1A,missense_variant,p.Cys328Tyr,ENST00000354550,;ADRA1A,missense_variant,p.Cys328Tyr,ENST00000380582,;ADRA1A,missense_variant,p.Cys328Tyr,ENST00000519229,;ADRA1A,intron_variant,,ENST00000380587,;ADRA1A,intron_variant,,ENST00000380581,;ADRA1A,non_coding_transcript_exon_variant,,ENST00000518621,;ADRA1A,intron_variant,,ENST00000521711,;ADRA1A,intron_variant,,ENST00000519096,;RP11-384C12.1,upstream_gene_variant,,ENST00000486251,;	T	ENSG00000120907	ENST00000380586	Transcript	missense_variant	1419	983	328	C/Y	tGc/tAc	.	.	.	-1	ADRA1A	HGNC	277	protein_coding	YES	CCDS34869.1	ENSP00000369960	ADA1A_HUMAN	Q7KYZ9_HUMAN,B0ZBD3_HUMAN	UPI000066DA42	.	deleterious(0)	probably_damaging(0.999)	2/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24248,hmmpanther:PTHR24248:SF16,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAGCATGGG	.	5	BLCA
DUSP26	0	.	GRCh37	8	33449481	33449481	+	3'UTR	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*50C>T	.	.	ENST00000256261	4/4	13	6	7	22	22	0	DUSP26,3_prime_UTR_variant,,ENST00000523956,;DUSP26,3_prime_UTR_variant,,ENST00000256261,;DUSP26,downstream_gene_variant,,ENST00000522982,;	A	ENSG00000133878	ENST00000256261	Transcript	3_prime_UTR_variant	1204	.	.	.	.	.	.	.	-1	DUSP26	HGNC	28161	protein_coding	YES	CCDS6092.1	ENSP00000256261	DUS26_HUMAN	E5RHD0_HUMAN	UPI000003E899	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	AGCTGGGAGCC	.	4	BLCA
FAM102A	0	.	GRCh37	9	130742380	130742380	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.37C>G	p.Gln13Glu	p.Q13E	ENST00000373095	1/11	183	174	9	147	147	0	FAM102A,missense_variant,p.Gln13Glu,ENST00000373095,;FAM102A,non_coding_transcript_exon_variant,,ENST00000494606,;FAM102A,upstream_gene_variant,,ENST00000493175,;	C	ENSG00000167106	ENST00000373095	Transcript	missense_variant	413	37	13	Q/E	Caa/Gaa	.	.	.	-1	FAM102A	HGNC	31419	protein_coding	YES	CCDS35150.1	ENSP00000362187	F102A_HUMAN	.	UPI00005D3C96	.	deleterious(0.02)	possibly_damaging(0.476)	1/11	.	Low_complexity_(Seg):seg,Pfam_domain:PF10358,hmmpanther:PTHR21456,hmmpanther:PTHR21456:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTTTGGAATT	.	2	BLCA
SWI5	0	.	GRCh37	9	131046893	131046893	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>G	p.Ile177Met	p.I177M	ENST00000320188	3/5	52	43	9	50	50	0	SWI5,missense_variant,p.Ile72Met,ENST00000418976,;SWI5,missense_variant,p.Ile112Met,ENST00000419867,;SWI5,missense_variant,p.Ile177Met,ENST00000320188,;SWI5,missense_variant,p.Ile87Met,ENST00000372898,;SWI5,missense_variant,p.Ile81Met,ENST00000495313,;SWI5,missense_variant,p.Ile112Met,ENST00000608796,;	G	ENSG00000175854	ENST00000320188	Transcript	missense_variant	531	531	177	I/M	atC/atG	.	.	.	1	SWI5	HGNC	31412	protein_coding	YES	CCDS43883.1	ENSP00000316609	SWI5_HUMAN	.	UPI00001D76F5	.	deleterious(0)	probably_damaging(0.98)	3/5	.	Pfam_domain:PF07061,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATCTCCCA	.	5	BLCA
RAPGEF1	0	.	GRCh37	9	134497234	134497234	+	Silent	SNP	G	G	T	rs758302661	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1857C>A	p.%3D	p.S619S	ENST00000372190	11/24	32	26	6	14	14	0	RAPGEF1,synonymous_variant,p.%3D,ENST00000372190,;RAPGEF1,synonymous_variant,p.%3D,ENST00000419442,;RAPGEF1,synonymous_variant,p.%3D,ENST00000372195,;RAPGEF1,synonymous_variant,p.%3D,ENST00000372189,;RAPGEF1,upstream_gene_variant,,ENST00000414781,;RAPGEF1,downstream_gene_variant,,ENST00000481260,;	T	ENSG00000107263	ENST00000372190	Transcript	synonymous_variant	2016	1857	619	S	tcC/tcA	rs758302661,COSM3655055,COSM3655056	.	.	-1	RAPGEF1	HGNC	4568	protein_coding	YES	CCDS48048.1	ENSP00000361264	RPGF1_HUMAN	Q5JUE5_HUMAN	UPI0000074689	.	.	.	11/24	.	hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF40	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACGGAGTC	.	5	BLCA
RXRA	0	.	GRCh37	9	137293678	137293679	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.230dupT	p.Met77IlefsTer104	p.M77Ifs*104	ENST00000481739	2/10	84	73	11	66	66	0	RXRA,frameshift_variant,p.Met77IlefsTer104,ENST00000481739,;RXRA,upstream_gene_variant,,ENST00000540193,;RXRA,non_coding_transcript_exon_variant,,ENST00000356384,;RXRA,non_coding_transcript_exon_variant,,ENST00000484822,;	T	ENSG00000186350	ENST00000481739	Transcript	frameshift_variant	281-282	229-230	77	M/IX	atg/aTtg	.	.	.	1	RXRA	HGNC	10477	protein_coding	YES	CCDS35172.1	ENSP00000419692	RXRA_HUMAN	Q6P3U7_HUMAN,F1D8Q5_HUMAN,B3KY83_HUMAN	UPI0000042A9A	.	.	.	2/10	.	Pfam_domain:PF11825,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACTCCATGTCG	.	3	BLCA
RABL6	0	.	GRCh37	9	139720247	139720247	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.282delG	p.Lys95ArgfsTer7	p.K95Rfs*7	ENST00000371663	3/15	289	201	88	200	200	0	RABL6,frameshift_variant,p.Lys6ArgfsTer7,ENST00000425121,;RABL6,frameshift_variant,p.Lys95ArgfsTer7,ENST00000371663,;RABL6,frameshift_variant,p.Lys52ArgfsTer7,ENST00000436380,;RABL6,frameshift_variant,p.Lys57ArgfsTer7,ENST00000432842,;RABL6,frameshift_variant,p.Lys95ArgfsTer7,ENST00000371671,;RABL6,frameshift_variant,p.Lys95ArgfsTer7,ENST00000357466,;RABL6,frameshift_variant,p.Lys95ArgfsTer7,ENST00000311502,;RABL6,5_prime_UTR_variant,,ENST00000371675,;RABL6,upstream_gene_variant,,ENST00000461992,;RABL6,upstream_gene_variant,,ENST00000466096,;RABL6,frameshift_variant,p.Lys95ArgfsTer7,ENST00000484471,;RABL6,frameshift_variant,p.Lys57ArgfsTer7,ENST00000464941,;RP11-216L13.18,non_coding_transcript_exon_variant,,ENST00000471502,;	-	ENSG00000196642	ENST00000371663	Transcript	frameshift_variant	557	282	94	V/X	gtG/gt	.	.	.	1	RABL6	HGNC	24703	protein_coding	YES	CCDS55352.1	ENSP00000360727	RABL6_HUMAN	.	UPI0000E0C208	.	.	.	3/15	.	PROSITE_profiles:PS51419,hmmpanther:PTHR14932,Gene3D:3.40.50.300,Pfam_domain:PF08477,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CATCGTGAAGGT	.	3	BLCA
ADAMTSL1	0	.	GRCh37	9	18753450	18753450	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2161C>A	p.Gln721Lys	p.Q721K	ENST00000380548	16/29	20	15	5	18	18	0	ADAMTSL1,missense_variant,p.Gln721Lys,ENST00000380548,;ADAMTSL1,non_coding_transcript_exon_variant,,ENST00000380559,;	A	ENSG00000178031	ENST00000380548	Transcript	missense_variant	2500	2161	721	Q/K	Caa/Aaa	.	.	.	1	ADAMTSL1	HGNC	14632	protein_coding	YES	CCDS47954.1	ENSP00000369921	ATL1_HUMAN	H7BYE3_HUMAN	UPI000004FD83	.	tolerated(0.05)	possibly_damaging(0.755)	16/29	.	PROSITE_profiles:PS50092,hmmpanther:PTHR13723:SF157,hmmpanther:PTHR13723,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTGCAAGCT	.	5	BLCA
PCSK5	0	.	GRCh37	9	78796493	78796493	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2183C>T	p.Ser728Leu	p.S728L	ENST00000545128	16/37	121	76	45	98	98	0	PCSK5,missense_variant,p.Ser401Leu,ENST00000424854,;PCSK5,missense_variant,p.Ser728Leu,ENST00000376752,;PCSK5,missense_variant,p.Ser728Leu,ENST00000545128,;	T	ENSG00000099139	ENST00000545128	Transcript	missense_variant	2721	2183	728	S/L	tCa/tTa	COSM1287032,COSM1287031	.	.	1	PCSK5	HGNC	8747	protein_coding	YES	CCDS55320.1	ENSP00000446280	PCSK5_HUMAN	I0EZ71_HUMAN	UPI0001DAD817	.	tolerated(0.13)	benign(0.003)	16/37	.	hmmpanther:PTHR10795,hmmpanther:PTHR10795:SF327,Pfam_domain:PF14843,Gene3D:2.10.220.10,SMART_domains:SM00261,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGTCATATC	.	5	BLCA
PTPRD	0	.	GRCh37	9	8470997	8470997	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3502G>A	p.Glu1168Lys	p.E1168K	ENST00000381196	28/43	42	28	13	70	70	0	PTPRD,missense_variant,p.Glu747Lys,ENST00000397617,;PTPRD,missense_variant,p.Glu757Lys,ENST00000486161,;PTPRD,missense_variant,p.Glu1146Lys,ENST00000358503,;PTPRD,missense_variant,p.Glu1155Lys,ENST00000360074,;PTPRD,missense_variant,p.Glu1168Lys,ENST00000381196,;PTPRD,missense_variant,p.Glu747Lys,ENST00000397606,;PTPRD,missense_variant,p.Glu1168Lys,ENST00000356435,;PTPRD,missense_variant,p.Glu757Lys,ENST00000355233,;PTPRD,missense_variant,p.Glu754Lys,ENST00000397611,;PTPRD,missense_variant,p.Glu1168Lys,ENST00000540109,;PTPRD,missense_variant,p.Glu754Lys,ENST00000537002,;	T	ENSG00000153707	ENST00000381196	Transcript	missense_variant	4046	3502	1168	E/K	Gag/Aag	.	.	.	-1	PTPRD	HGNC	9668	protein_coding	YES	CCDS43786.1	ENSP00000370593	PTPRD_HUMAN	C9J6E4_HUMAN,B4DK48_HUMAN	UPI0000132990	.	deleterious(0.01)	benign(0.103)	28/43	.	hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCATCTA	.	5	BLCA
CTSV	0	.	GRCh37	9	99795330	99795330	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906C>A	p.Ser302Arg	p.S302R	ENST00000259470	8/8	101	92	9	84	84	0	CTSV,missense_variant,p.Ser302Arg,ENST00000259470,;CTSV,missense_variant,p.Ser302Arg,ENST00000538255,;CTSV,downstream_gene_variant,,ENST00000479932,;	T	ENSG00000136943	ENST00000259470	Transcript	missense_variant	1156	906	302	S/R	agC/agA	COSM199222	.	.	-1	CTSV	HGNC	2538	protein_coding	YES	CCDS6723.1	ENSP00000259470	CATL2_HUMAN	.	UPI0000001C15	.	deleterious(0.01)	possibly_damaging(0.905)	8/8	.	Prints_domain:PR00705,Superfamily_domains:SSF54001,SMART_domains:SM00645,Gene3D:3.90.70.10,Pfam_domain:PF00112,PROSITE_patterns:PS00640,hmmpanther:PTHR12411:SF306,hmmpanther:PTHR12411	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCAGCTGAA	.	4	BLCA
RAP2C	0	.	GRCh37	X	131348329	131348329	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.419G>T	p.Cys140Phe	p.C140F	ENST00000342983	3/4	86	69	16	96	96	0	RAP2C,missense_variant,p.Cys140Phe,ENST00000370874,;RAP2C,missense_variant,p.Cys140Phe,ENST00000342983,;RAP2C-AS1,upstream_gene_variant,,ENST00000421483,;RAP2C-AS1,upstream_gene_variant,,ENST00000441399,;RAP2C,non_coding_transcript_exon_variant,,ENST00000460462,;RAP2C,downstream_gene_variant,,ENST00000490400,;	A	ENSG00000123728	ENST00000342983	Transcript	missense_variant	1166	419	140	C/F	tGt/tTt	.	.	.	-1	RAP2C	HGNC	21165	protein_coding	YES	CCDS14632.1	ENSP00000340274	RAP2C_HUMAN	.	UPI00000236AB	.	deleterious(0)	probably_damaging(0.944)	3/4	.	PROSITE_profiles:PS51421,hmmpanther:PTHR24070:SF200,hmmpanther:PTHR24070,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00071,SMART_domains:SM00174,SMART_domains:SM00175,SMART_domains:SM00173,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGACAGCCC	.	5	BLCA
ZNF449	0	.	GRCh37	X	134494463	134494463	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1019G>A	p.Gly340Glu	p.G340E	ENST00000339249	5/5	44	32	12	46	46	0	ZNF449,missense_variant,p.Gly340Glu,ENST00000339249,;	A	ENSG00000173275	ENST00000339249	Transcript	missense_variant	1159	1019	340	G/E	gGg/gAg	.	.	.	1	ZNF449	HGNC	21039	protein_coding	YES	CCDS14649.1	ENSP00000339585	ZN449_HUMAN	Q7Z3P1_HUMAN	UPI000013F1DE	.	tolerated(0.19)	possibly_damaging(0.756)	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR23226:SF4,hmmpanther:PTHR23226,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGGGCATC	.	5	BLCA
MAMLD1	0	.	GRCh37	X	149638528	149638528	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608C>T	p.Ser203Leu	p.S203L	ENST00000432680	3/5	119	89	29	102	102	0	MAMLD1,missense_variant,p.Ser203Leu,ENST00000426613,;MAMLD1,missense_variant,p.Ser228Leu,ENST00000262858,;MAMLD1,missense_variant,p.Ser203Leu,ENST00000432680,;MAMLD1,missense_variant,p.Ser228Leu,ENST00000370401,;MAMLD1,upstream_gene_variant,,ENST00000455522,;MAMLD1,downstream_gene_variant,,ENST00000358892,;MAMLD1,downstream_gene_variant,,ENST00000468306,;	T	ENSG00000013619	ENST00000432680	Transcript	missense_variant	783	608	203	S/L	tCa/tTa	.	.	.	1	MAMLD1	HGNC	2568	protein_coding	YES	CCDS55526.1	ENSP00000414517	MAMD1_HUMAN	Q6ZUZ1_HUMAN	UPI00017A6EBC	.	deleterious(0)	possibly_damaging(0.604)	3/5	.	hmmpanther:PTHR15275:SF0,hmmpanther:PTHR15275	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGTCACACT	.	5	BLCA
FAM47A	0	.	GRCh37	X	34149632	34149632	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.764G>A	p.Arg255His	p.R255H	ENST00000346193	1/1	34	8	26	28	28	0	FAM47A,missense_variant,p.Arg255His,ENST00000346193,;	T	ENSG00000185448	ENST00000346193	Transcript	missense_variant	816	764	255	R/H	cGt/cAt	.	.	.	-1	FAM47A	HGNC	29962	protein_coding	YES	CCDS43926.1	ENSP00000345029	FA47A_HUMAN	.	UPI000013F1F4	.	tolerated(0.37)	probably_damaging(0.928)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23213:SF200,hmmpanther:PTHR23213,Pfam_domain:PF14642	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGACGAGTG	.	5	BLCA
KDM6A	0	.	GRCh37	X	44966757	44966757	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3981delA	p.Ala1328LeufsTer28	p.A1328Lfs*28	ENST00000377967	27/29	78	41	37	42	42	0	KDM6A,frameshift_variant,p.Ala971LeufsTer28,ENST00000433797,;KDM6A,frameshift_variant,p.Ala926LeufsTer28,ENST00000414389,;KDM6A,frameshift_variant,p.Ala1249LeufsTer28,ENST00000543216,;KDM6A,frameshift_variant,p.Ala88LeufsTer28,ENST00000431196,;KDM6A,frameshift_variant,p.Ala1328LeufsTer28,ENST00000377967,;KDM6A,frameshift_variant,p.Ala1335LeufsTer28,ENST00000382899,;KDM6A,frameshift_variant,p.Ala1283LeufsTer28,ENST00000536777,;KDM6A,non_coding_transcript_exon_variant,,ENST00000479423,;	-	ENSG00000147050	ENST00000377967	Transcript	frameshift_variant	4022	3981	1327	P/X	ccA/cc	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	27/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5	INDELOCATOR*|VARSCANI*|PINDEL	AGAACCAGCTCA	.	3	BLCA
DGKK	0	.	GRCh37	X	50129552	50129552	+	RNA	SNP	C	C	G	novel	.	TCGA-4Z-AA82-01A-11D-A391-08	TCGA-4Z-AA82-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2211G>C	.	.	ENST00000376025	15/28	30	21	8	11	11	0	DGKK,non_coding_transcript_exon_variant,,ENST00000376025,;DGKK,non_coding_transcript_exon_variant,,ENST00000546288,;	G	ENSG00000204466	ENST00000376025	Transcript	non_coding_transcript_exon_variant	2211	.	.	.	.	.	.	.	-1	DGKK	HGNC	32395	processed_transcript	YES	.	.	.	.	.	.	.	.	15/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGATCAGGAC	.	5	BLCA
ABCC2	0	.	GRCh37	10	101563938	101563938	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1372G>C	p.Glu458Gln	p.E458Q	ENST00000370449	10/32	62	50	11	59	59	0	ABCC2,missense_variant,p.Glu458Gln,ENST00000370449,;	C	ENSG00000023839	ENST00000370449	Transcript	missense_variant	1485	1372	458	E/Q	Gag/Cag	.	.	.	1	ABCC2	HGNC	53	protein_coding	YES	CCDS7484.1	ENSP00000359478	MRP2_HUMAN	.	UPI000013D6CA	.	tolerated(0.4)	probably_damaging(0.997)	10/32	.	PROSITE_profiles:PS50929,hmmpanther:PTHR24223,hmmpanther:PTHR24223:SF176,TIGRFAM_domain:TIGR00957,Pfam_domain:PF00664,Gene3D:2hydA01,Superfamily_domains:SSF90123	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGAGAGTTG	.	5	BLCA
ANK3	0	.	GRCh37	10	61831602	61831602	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9037G>C	p.Glu3013Gln	p.E3013Q	ENST00000280772	37/44	105	86	18	93	93	0	ANK3,missense_variant,p.Glu3013Gln,ENST00000280772,;ANK3,intron_variant,,ENST00000373827,;ANK3,intron_variant,,ENST00000373820,;ANK3,intron_variant,,ENST00000355288,;ANK3,intron_variant,,ENST00000511043,;ANK3,intron_variant,,ENST00000503366,;	G	ENSG00000151150	ENST00000280772	Transcript	missense_variant	9229	9037	3013	E/Q	Gaa/Caa	.	.	.	-1	ANK3	HGNC	494	protein_coding	YES	CCDS7258.1	ENSP00000280772	ANK3_HUMAN	D6RFK6_HUMAN,D6RBY7_HUMAN,B1AQT1_HUMAN	UPI0000141BA9	.	.	benign(0.001)	37/44	.	hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTTCTATAG	.	5	BLCA
TMEM26	0	.	GRCh37	10	63212714	63212714	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126C>T	p.%3D	p.L42L	ENST00000399298	1/6	89	68	20	109	109	0	TMEM26,synonymous_variant,p.%3D,ENST00000399298,;TMEM26,synonymous_variant,p.%3D,ENST00000399293,;RP11-809M12.1,non_coding_transcript_exon_variant,,ENST00000389640,;TMEM26,synonymous_variant,p.%3D,ENST00000503886,;TMEM26,synonymous_variant,p.%3D,ENST00000488505,;	A	ENSG00000196932	ENST00000399298	Transcript	synonymous_variant	495	126	42	L	ctC/ctT	.	.	.	-1	TMEM26	HGNC	28550	protein_coding	YES	CCDS41530.1	ENSP00000382237	TMM26_HUMAN	.	UPI00001C0B3F	.	.	.	1/6	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Pfam_domain:PF09772,hmmpanther:PTHR22168:SF2,hmmpanther:PTHR22168	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTGAGCAG	.	5	BLCA
POLR3A	0	.	GRCh37	10	79743752	79743752	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3355G>T	p.Glu1119Ter	p.E1119*	ENST00000372371	26/31	29	23	6	29	29	0	POLR3A,stop_gained,p.Glu1119Ter,ENST00000372371,;	A	ENSG00000148606	ENST00000372371	Transcript	stop_gained	3493	3355	1119	E/*	Gaa/Taa	.	.	.	-1	POLR3A	HGNC	30074	protein_coding	YES	CCDS7354.1	ENSP00000361446	RPC1_HUMAN	Q8TCW4_HUMAN,Q8TCW3_HUMAN,Q8TCW2_HUMAN	UPI000007456A	.	.	.	26/31	.	hmmpanther:PTHR19376:SF31,hmmpanther:PTHR19376,Pfam_domain:PF04998,Superfamily_domains:SSF64484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTTCTTCAA	.	5	BLCA
CYP26A1	0	.	GRCh37	10	94834237	94834237	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362G>A	p.Gly121Glu	p.G121E	ENST00000224356	2/7	184	172	12	233	233	0	CYP26A1,missense_variant,p.Gly52Glu,ENST00000394139,;CYP26A1,missense_variant,p.Gly121Glu,ENST00000224356,;CYP26A1,missense_variant,p.Gly52Glu,ENST00000371531,;	A	ENSG00000095596	ENST00000224356	Transcript	missense_variant	407	362	121	G/E	gGa/gAa	.	.	.	1	CYP26A1	HGNC	2603	protein_coding	YES	CCDS7426.1	ENSP00000224356	CP26A_HUMAN	.	UPI000013E48F	.	deleterious(0)	probably_damaging(1)	2/7	.	hmmpanther:PTHR24288:SF1,hmmpanther:PTHR24288,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGGGATCTG	.	2	BLCA
MMP27	0	.	GRCh37	11	102576410	102576410	+	Silent	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36A>T	p.%3D	p.I12I	ENST00000260229	1/10	78	42	35	95	95	0	MMP27,synonymous_variant,p.%3D,ENST00000260229,;	A	ENSG00000137675	ENST00000260229	Transcript	synonymous_variant	128	36	12	I	atA/atT	.	.	.	-1	MMP27	HGNC	14250	protein_coding	YES	CCDS8319.1	ENSP00000260229	MMP27_HUMAN	.	UPI00001AE7D3	.	.	.	1/10	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR10201,hmmpanther:PTHR10201:SF115,PIRSF_domain:PIRSF001191	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGTTATAAA	.	5	BLCA
USP47	0	.	GRCh37	11	11963917	11963917	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2145G>A	p.%3D	p.Q715Q	ENST00000339865	19/27	147	128	18	178	178	0	USP47,synonymous_variant,p.%3D,ENST00000399455,;USP47,synonymous_variant,p.%3D,ENST00000527733,;USP47,synonymous_variant,p.%3D,ENST00000339865,;USP47,5_prime_UTR_variant,,ENST00000539466,;USP47,upstream_gene_variant,,ENST00000530041,;USP47,non_coding_transcript_exon_variant,,ENST00000525078,;USP47,upstream_gene_variant,,ENST00000531513,;	A	ENSG00000170242	ENST00000339865	Transcript	synonymous_variant	2908	2145	715	Q	caG/caA	.	.	.	1	USP47	HGNC	20076	protein_coding	YES	CCDS41619.1	ENSP00000339957	UBP47_HUMAN	.	UPI00001F9D69	.	.	.	19/27	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF98	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCAGATGGC	.	4	BLCA
INSC	0	.	GRCh37	11	15243191	15243191	+	Missense_Mutation	SNP	G	G	A	rs765115884	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129G>A	p.Val377Ile	p.V377I	ENST00000379554	8/13	33	17	15	34	34	0	INSC,missense_variant,p.Val330Ile,ENST00000379556,;INSC,missense_variant,p.Val288Ile,ENST00000424273,;INSC,missense_variant,p.Val377Ile,ENST00000379554,;INSC,missense_variant,p.Val330Ile,ENST00000528567,;INSC,missense_variant,p.Val288Ile,ENST00000525218,;INSC,missense_variant,p.Val330Ile,ENST00000530161,;INSC,non_coding_transcript_exon_variant,,ENST00000447214,;	A	ENSG00000188487	ENST00000379554	Transcript	missense_variant	1175	1129	377	V/I	Gtc/Atc	rs765115884	.	.	1	INSC	HGNC	33116	protein_coding	YES	CCDS41621.1	ENSP00000368872	INSC_HUMAN	.	UPI0000D63F1D	.	tolerated(1)	benign(0.001)	8/13	.	hmmpanther:PTHR21386,hmmpanther:PTHR21386:SF0,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTCGTCAGT	byFrequency	5	BLCA
OR4P4	0	.	GRCh37	11	55406010	55406010	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177C>T	p.%3D	p.F59F	ENST00000314612	1/1	43	37	6	54	54	0	OR4P4,synonymous_variant,p.%3D,ENST00000314612,;	T	ENSG00000181927	ENST00000314612	Transcript	synonymous_variant	177	177	59	F	ttC/ttT	.	.	.	1	OR4P4	HGNC	15180	protein_coding	YES	CCDS31504.1	ENSP00000324831	OR4P4_HUMAN	.	UPI0000061E8A	.	.	.	1/1	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF290,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTCTTCCT	.	4	BLCA
MYRF	0	.	GRCh37	11	61539053	61539053	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.822G>C	p.Met274Ile	p.M274I	ENST00000278836	6/27	102	79	23	127	127	0	MYRF,missense_variant,p.Met274Ile,ENST00000278836,;MYRF,missense_variant,p.Met265Ile,ENST00000265460,;MYRF,upstream_gene_variant,,ENST00000327797,;TMEM258,intron_variant,,ENST00000535042,;MYRF,downstream_gene_variant,,ENST00000537766,;	C	ENSG00000124920	ENST00000278836	Transcript	missense_variant	918	822	274	M/I	atG/atC	.	.	.	1	MYRF	HGNC	1181	protein_coding	YES	CCDS44622.1	ENSP00000278836	MRF_HUMAN	.	UPI0000D45F7B	.	tolerated(0.4)	benign(0.003)	6/27	.	hmmpanther:PTHR13029,hmmpanther:PTHR13029:SF16,PROSITE_profiles:PS51517	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAATGATCAA	.	5	BLCA
PCNXL3	0	.	GRCh37	11	65384336	65384336	+	Silent	SNP	C	C	T	rs764521062	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195C>T	p.%3D	p.L65L	ENST00000355703	2/35	96	88	8	97	96	0	PCNXL3,synonymous_variant,p.%3D,ENST00000355703,;MAP3K11,upstream_gene_variant,,ENST00000526293,;MAP3K11,upstream_gene_variant,,ENST00000309100,;MAP3K11,upstream_gene_variant,,ENST00000529839,;PCNXL3,upstream_gene_variant,,ENST00000531045,;MAP3K11,upstream_gene_variant,,ENST00000524856,;MAP3K11,upstream_gene_variant,,ENST00000527304,;	T	ENSG00000197136	ENST00000355703	Transcript	synonymous_variant	734	195	65	L	ctC/ctT	rs764521062	.	.	1	PCNXL3	HGNC	18760	protein_coding	YES	CCDS44650.1	ENSP00000347931	PCX3_HUMAN	.	UPI0000405B22	.	.	.	2/35	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCTCGTGGT	.	3	BLCA
ANO1	0	.	GRCh37	11	70009464	70009464	+	Intron	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1950+18C>T	.	.	ENST00000355303	.	38	32	6	35	35	0	ANO1,synonymous_variant,p.%3D,ENST00000316296,;ANO1,intron_variant,,ENST00000398543,;ANO1,intron_variant,,ENST00000355303,;ANO1,intron_variant,,ENST00000531349,;ANO1,intron_variant,,ENST00000538023,;ANO1,intron_variant,,ENST00000530676,;ANO1,downstream_gene_variant,,ENST00000531300,;ANO1,upstream_gene_variant,,ENST00000529636,;	T	ENSG00000131620	ENST00000355303	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ANO1	HGNC	21625	protein_coding	YES	CCDS44663.1	ENSP00000347454	ANO1_HUMAN	.	UPI000013CE03	.	.	.	.	19/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTATTCATCTC	.	2	BLCA
FADD	0	.	GRCh37	11	70049672	70049672	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107T>C	p.Leu36Pro	p.L36P	ENST00000301838	1/2	25	11	14	20	20	0	FADD,missense_variant,p.Leu36Pro,ENST00000301838,;RP11-805J14.5,downstream_gene_variant,,ENST00000527232,;RP11-805J14.5,downstream_gene_variant,,ENST00000526174,;	C	ENSG00000168040	ENST00000301838	Transcript	missense_variant	404	107	36	L/P	cTg/cCg	.	.	.	1	FADD	HGNC	3573	protein_coding	YES	CCDS8196.1	ENSP00000301838	FADD_HUMAN	Q6LCG1_HUMAN,Q6LCB0_HUMAN	UPI000012A4D1	.	deleterious(0)	probably_damaging(0.999)	1/2	.	PROSITE_profiles:PS50168,hmmpanther:PTHR15077,Gene3D:1.10.533.10,Pfam_domain:PF01335,PIRSF_domain:PIRSF018586,SMART_domains:SM00031,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGCTGGAGC	.	5	BLCA
PRKRIR	0	.	GRCh37	11	76072059	76072059	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259G>A	p.Asp87Asn	p.D87N	ENST00000260045	3/5	74	69	4	64	64	0	PRKRIR,missense_variant,p.Asp87Asn,ENST00000260045,;PRKRIR,non_coding_transcript_exon_variant,,ENST00000531878,;PRKRIR,3_prime_UTR_variant,,ENST00000528993,;PRKRIR,non_coding_transcript_exon_variant,,ENST00000525277,;PRKRIR,upstream_gene_variant,,ENST00000529901,;	T	ENSG00000137492	ENST00000260045	Transcript	missense_variant	365	259	87	D/N	Gat/Aat	.	.	.	-1	PRKRIR	HGNC	9440	protein_coding	YES	CCDS8243.1	ENSP00000260045	P52K_HUMAN	B4DS64_HUMAN	UPI0000131030	.	deleterious(0.01)	benign(0.424)	3/5	.	hmmpanther:PTHR11697:SF10,hmmpanther:PTHR11697,Pfam_domain:PF05485,SMART_domains:SM00692,SMART_domains:SM00980,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGATCAAATA	.	2	BLCA
PRKRIR	0	.	GRCh37	11	76072096	76072096	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222G>A	p.%3D	p.R74R	ENST00000260045	3/5	53	49	4	43	43	0	PRKRIR,synonymous_variant,p.%3D,ENST00000260045,;PRKRIR,non_coding_transcript_exon_variant,,ENST00000531878,;PRKRIR,3_prime_UTR_variant,,ENST00000528993,;PRKRIR,non_coding_transcript_exon_variant,,ENST00000525277,;PRKRIR,upstream_gene_variant,,ENST00000529901,;	T	ENSG00000137492	ENST00000260045	Transcript	synonymous_variant	328	222	74	R	agG/agA	.	.	.	-1	PRKRIR	HGNC	9440	protein_coding	YES	CCDS8243.1	ENSP00000260045	P52K_HUMAN	B4DS64_HUMAN	UPI0000131030	.	.	.	3/5	.	PROSITE_profiles:PS50950,hmmpanther:PTHR11697:SF10,hmmpanther:PTHR11697,Pfam_domain:PF05485,SMART_domains:SM00692,SMART_domains:SM00980,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTGTCCTATA	.	2	BLCA
OVCH2	0	.	GRCh37	11	7725246	7725246	+	Nonsense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289A>T	p.Arg97Ter	p.R97*	ENST00000454689	3/15	10	7	3	17	17	0	OVCH2,stop_gained,p.Arg97Ter,ENST00000454689,;RP11-35J10.5,downstream_gene_variant,,ENST00000527565,;RP11-35J10.4,upstream_gene_variant,,ENST00000527443,;OVCH2,stop_gained,p.Arg101Ter,ENST00000534193,;	A	ENSG00000183378	ENST00000454689	Transcript	stop_gained	289	289	97	R/*	Aga/Tga	.	.	.	-1	OVCH2	HGNC	29970	protein_coding	YES	.	ENSP00000407158	OVCH2_HUMAN	.	UPI00015294E3	.	.	.	3/15	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24251:SF16,hmmpanther:PTHR24251,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTACCTGTTTG	.	3	BLCA
CLEC1A	0	.	GRCh37	12	10226003	10226003	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.551C>T	p.Ala184Val	p.A184V	ENST00000315330	5/6	92	88	4	92	92	0	CLEC1A,missense_variant,p.Ala184Val,ENST00000315330,;CLEC1A,missense_variant,p.Ala92Val,ENST00000420265,;CLEC1A,missense_variant,p.Ala151Val,ENST00000457018,;	A	ENSG00000150048	ENST00000315330	Transcript	missense_variant	614	551	184	A/V	gCc/gTc	.	.	.	-1	CLEC1A	HGNC	24355	protein_coding	YES	CCDS8612.1	ENSP00000326407	CLC1A_HUMAN	F8WCT4_HUMAN	UPI00000746EB	.	tolerated(1)	benign(0.019)	5/6	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22800:SF154,hmmpanther:PTHR22800,Gene3D:3.10.100.10,Pfam_domain:PF00059,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACGCGGCAAAT	.	2	BLCA
MLXIP	0	.	GRCh37	12	122618268	122618268	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1466C>G	p.Ser489Cys	p.S489C	ENST00000319080	9/17	19	11	7	32	32	0	MLXIP,missense_variant,p.Ser96Cys,ENST00000538698,;MLXIP,missense_variant,p.Ser489Cys,ENST00000319080,;MLXIP,missense_variant,p.Ser79Cys,ENST00000377037,;MLXIP,upstream_gene_variant,,ENST00000366272,;MLXIP,downstream_gene_variant,,ENST00000535430,;MLXIP,upstream_gene_variant,,ENST00000542417,;MLXIP,upstream_gene_variant,,ENST00000535996,;MLXIP,non_coding_transcript_exon_variant,,ENST00000539861,;MLXIP,non_coding_transcript_exon_variant,,ENST00000541750,;MLXIP,non_coding_transcript_exon_variant,,ENST00000538061,;MLXIP,downstream_gene_variant,,ENST00000535876,;	G	ENSG00000175727	ENST00000319080	Transcript	missense_variant	1598	1466	489	S/C	tCt/tGt	.	.	.	1	MLXIP	HGNC	17055	protein_coding	YES	.	ENSP00000312834	MLXIP_HUMAN	F5H321_HUMAN	UPI0000D6226F	.	deleterious(0.02)	probably_damaging(0.989)	9/17	.	hmmpanther:PTHR15741,hmmpanther:PTHR15741:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTGCCA	.	5	BLCA
ZCCHC8	0	.	GRCh37	12	122966628	122966628	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739A>T	p.Asn247Tyr	p.N247Y	ENST00000336229	9/14	66	43	23	60	60	0	ZCCHC8,missense_variant,p.Asn9Tyr,ENST00000536306,;ZCCHC8,missense_variant,p.Asn247Tyr,ENST00000336229,;ZCCHC8,missense_variant,p.Asn9Tyr,ENST00000536663,;ZCCHC8,missense_variant,p.Asn9Tyr,ENST00000540586,;ZCCHC8,missense_variant,p.Asn9Tyr,ENST00000543897,;ZCCHC8,missense_variant,p.Asn9Tyr,ENST00000544054,;ZCCHC8,upstream_gene_variant,,ENST00000538116,;ZCCHC8,upstream_gene_variant,,ENST00000542892,;ZCCHC8,non_coding_transcript_exon_variant,,ENST00000538493,;ZCCHC8,non_coding_transcript_exon_variant,,ENST00000546149,;	A	ENSG00000033030	ENST00000336229	Transcript	missense_variant	870	739	247	N/Y	Aat/Tat	.	.	.	-1	ZCCHC8	HGNC	25265	protein_coding	YES	.	ENSP00000337313	ZCHC8_HUMAN	F5H803_HUMAN,F5H6J5_HUMAN,F5GYI9_HUMAN,F5GXQ6_HUMAN	UPI00001E0582	.	deleterious(0)	probably_damaging(0.979)	9/14	.	hmmpanther:PTHR13316,hmmpanther:PTHR13316:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATTCCGAG	.	5	BLCA
LRP6	0	.	GRCh37	12	12300302	12300302	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3395C>G	p.Ser1132Ter	p.S1132*	ENST00000261349	15/23	103	92	11	83	83	0	LRP6,stop_gained,p.Ser1132Ter,ENST00000543091,;LRP6,stop_gained,p.Ser1132Ter,ENST00000261349,;LRP6,stop_gained,p.Ser997Ter,ENST00000538239,;BCL2L14,intron_variant,,ENST00000298566,;	C	ENSG00000070018	ENST00000261349	Transcript	stop_gained	3472	3395	1132	S/*	tCa/tGa	.	.	.	-1	LRP6	HGNC	6698	protein_coding	YES	CCDS8647.1	ENSP00000261349	LRP6_HUMAN	F5H0Z3_HUMAN,B3KQA9_HUMAN	UPI00001FB66C	.	.	.	15/23	.	Superfamily_domains:SSF63825,SMART_domains:SM00135,PIRSF_domain:PIRSF036314,Gene3D:2.120.10.30,Pfam_domain:PF00058,hmmpanther:PTHR10529:SF109,hmmpanther:PTHR10529,PROSITE_profiles:PS51120	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTGAGAGA	.	4	BLCA
PIWIL1	0	.	GRCh37	12	130832682	130832682	+	Nonsense_Mutation	SNP	C	C	T	rs369068461	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>T	p.Arg230Ter	p.R230*	ENST00000245255	7/21	85	72	13	91	91	0	PIWIL1,stop_gained,p.Arg230Ter,ENST00000245255,;PIWIL1,stop_gained,p.Arg91Ter,ENST00000540672,;PIWIL1,downstream_gene_variant,,ENST00000546060,;PIWIL1,downstream_gene_variant,,ENST00000542723,;PIWIL1,downstream_gene_variant,,ENST00000539995,;PIWIL1,downstream_gene_variant,,ENST00000539400,;PIWIL1,downstream_gene_variant,,ENST00000535956,;	T	ENSG00000125207	ENST00000245255	Transcript	stop_gained	960	688	230	R/*	Cga/Tga	rs369068461,COSM1166399	.	.	1	PIWIL1	HGNC	9007	protein_coding	YES	CCDS9268.1	ENSP00000245255	PIWL1_HUMAN	F5H889_HUMAN,F5H3U6_HUMAN,F5H2F7_HUMAN,F5GZL9_HUMAN,F5GYG0_HUMAN,F5GWW4_HUMAN	UPI000007059F	.	.	.	7/21	.	Superfamily_domains:SSF101690,hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF31	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R230Q|c.689G>A|3	RADIA|MUTECT|MUSE|VARSCANS	TTGGACGAAAT	byFrequency|byCluster	4	BLCA
GUCY2C	0	.	GRCh37	12	14827586	14827586	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057C>G	p.His353Asp	p.H353D	ENST00000261170	8/27	116	101	15	104	104	0	GUCY2C,missense_variant,p.His353Asp,ENST00000261170,;RP11-174G6.1,intron_variant,,ENST00000501178,;GUCY2C,non_coding_transcript_exon_variant,,ENST00000535803,;	C	ENSG00000070019	ENST00000261170	Transcript	missense_variant	1194	1057	353	H/D	Cat/Gat	.	.	.	-1	GUCY2C	HGNC	4688	protein_coding	YES	CCDS8664.1	ENSP00000261170	GUC2C_HUMAN	.	UPI000013D135	.	tolerated(0.32)	benign(0.002)	8/27	.	hmmpanther:PTHR11920:SF41,hmmpanther:PTHR11920,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATGAGCAA	.	4	BLCA
FGF23	0	.	GRCh37	12	4479899	4479899	+	Silent	SNP	G	G	A	rs145147639	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366C>T	p.%3D	p.N122N	ENST00000237837	3/3	97	56	41	110	110	0	FGF23,synonymous_variant,p.%3D,ENST00000237837,;	A	ENSG00000118972	ENST00000237837	Transcript	synonymous_variant	512	366	122	N	aaC/aaT	rs145147639	.	.	-1	FGF23	HGNC	3680	protein_coding	YES	CCDS8526.1	ENSP00000237837	FGF23_HUMAN	.	UPI000003ED58	.	.	.	3/3	.	hmmpanther:PTHR11486:SF69,hmmpanther:PTHR11486,Gene3D:2.80.10.50,Pfam_domain:PF00167,SMART_domains:SM00442,Superfamily_domains:SSF50353,Prints_domain:PR00262	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCCGTTTTC	byCluster	5	BLCA
RAPGEF3	0	.	GRCh37	12	48145564	48145564	+	Missense_Mutation	SNP	G	G	T	rs768952259	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322C>A	p.Leu108Met	p.L108M	ENST00000449771	4/28	38	34	4	54	54	0	RAPGEF3,missense_variant,p.Leu66Met,ENST00000466322,;RAPGEF3,missense_variant,p.Leu108Met,ENST00000395358,;RAPGEF3,missense_variant,p.Leu66Met,ENST00000548919,;RAPGEF3,missense_variant,p.Leu108Met,ENST00000389212,;RAPGEF3,missense_variant,p.Leu66Met,ENST00000171000,;RAPGEF3,missense_variant,p.Leu66Met,ENST00000549151,;RAPGEF3,missense_variant,p.Leu108Met,ENST00000449771,;RAPGEF3,missense_variant,p.Leu66Met,ENST00000405493,;RAPGEF3,missense_variant,p.Leu66Met,ENST00000495953,;SLC48A1,upstream_gene_variant,,ENST00000548498,;RAPGEF3,downstream_gene_variant,,ENST00000549347,;RAPGEF3,non_coding_transcript_exon_variant,,ENST00000479866,;RAPGEF3,non_coding_transcript_exon_variant,,ENST00000482843,;RAPGEF3,intron_variant,,ENST00000547856,;RAPGEF3,upstream_gene_variant,,ENST00000494764,;SLC48A1,upstream_gene_variant,,ENST00000552003,;RAPGEF3,upstream_gene_variant,,ENST00000495465,;	T	ENSG00000079337	ENST00000449771	Transcript	missense_variant	411	322	108	L/M	Ctg/Atg	rs768952259	.	.	-1	RAPGEF3	HGNC	16629	protein_coding	YES	CCDS41775.1	ENSP00000395708	RPGF3_HUMAN	F8W0N0_HUMAN,F8VXK1_HUMAN,B3KP15_HUMAN	UPI0000406B36	.	tolerated(0.36)	possibly_damaging(0.78)	4/28	.	hmmpanther:PTHR23113:SF24,hmmpanther:PTHR23113,Gene3D:1.10.10.10,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGCAGATGCC	.	3	BLCA
KRT78	0	.	GRCh37	12	53237935	53237935	+	Missense_Mutation	SNP	G	G	C	rs368480065	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.989C>G	p.Ser330Cys	p.S330C	ENST00000304620	6/9	144	127	16	141	141	0	KRT78,missense_variant,p.Ser220Cys,ENST00000359499,;KRT78,missense_variant,p.Ser330Cys,ENST00000304620,;KRT78,upstream_gene_variant,,ENST00000547920,;KRT78,downstream_gene_variant,,ENST00000547110,;KRT78,downstream_gene_variant,,ENST00000551581,;	C	ENSG00000170423	ENST00000304620	Transcript	missense_variant	1053	989	330	S/C	tCt/tGt	rs368480065	.	.	-1	KRT78	HGNC	28926	protein_coding	YES	CCDS8840.1	ENSP00000306261	K2C78_HUMAN	F8VS93_HUMAN,B4DQ49_HUMAN	UPI00001AEDBE	.	deleterious(0)	probably_damaging(0.926)	6/9	.	Pfam_domain:PF00038,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF127,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTGAGAGATC	byCluster	4	BLCA
ITGA5	0	.	GRCh37	12	54790078	54790078	+	Nonstop_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3149G>C	p.Ter1050SerextTer10	p.*1050Sext*10	ENST00000293379	30/30	44	35	8	43	43	0	ITGA5,stop_lost,p.Ter120SerextTer10,ENST00000547197,;ITGA5,stop_lost,p.Ter1050SerextTer10,ENST00000293379,;ZNF385A,upstream_gene_variant,,ENST00000338010,;ZNF385A,upstream_gene_variant,,ENST00000550774,;RP11-753H16.5,intron_variant,,ENST00000552785,;RP11-753H16.3,intron_variant,,ENST00000550474,;ITGA5,non_coding_transcript_exon_variant,,ENST00000552564,;ITGA5,non_coding_transcript_exon_variant,,ENST00000549601,;ITGA5,downstream_gene_variant,,ENST00000552431,;ITGA5,downstream_gene_variant,,ENST00000552387,;	G	ENSG00000161638	ENST00000293379	Transcript	stop_lost	3411	3149	1050	*/S	tGa/tCa	.	.	.	-1	ITGA5	HGNC	6141	protein_coding	YES	CCDS8880.1	ENSP00000293379	ITA5_HUMAN	.	UPI000012D9F3	.	.	.	30/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTCAGGCA	.	5	BLCA
OR6C1	0	.	GRCh37	12	55714585	55714585	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202G>C	p.Glu68Gln	p.E68Q	ENST00000379668	1/1	43	36	7	52	52	0	OR6C1,missense_variant,p.Glu68Gln,ENST00000379668,;	C	ENSG00000205330	ENST00000379668	Transcript	missense_variant	240	202	68	E/Q	Gaa/Caa	.	.	.	1	OR6C1	HGNC	8355	protein_coding	YES	CCDS31818.1	ENSP00000368990	OR6C1_HUMAN	.	UPI000016150F	.	deleterious_low_confidence(0)	probably_damaging(0.999)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26454,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S70L|c.209C>T|10	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTAGAAATT	.	5	BLCA
OR6C65	0	.	GRCh37	12	55794610	55794610	+	Frame_Shift_Del	DEL	T	T	-	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305delT	p.Leu102Ter	p.L102*	ENST00000379665	1/1	138	90	47	135	135	0	OR6C65,frameshift_variant,p.Leu102Ter,ENST00000379665,;OR6C73P,downstream_gene_variant,,ENST00000546432,;	-	ENSG00000205328	ENST00000379665	Transcript	frameshift_variant	397	298	100	F/X	Ttt/tt	COSM191660	.	.	1	OR6C65	HGNC	31295	protein_coding	YES	CCDS31821.1	ENSP00000368986	O6C65_HUMAN	.	UPI000044D410	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26454,hmmpanther:PTHR26454:SF15,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	deletion	.	7	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CAAGTATTTTTT	.	2	BLCA
TNFRSF1A	0	.	GRCh37	12	6442266	6442266	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.520C>G	p.Leu174Val	p.L174V	ENST00000162749	5/10	78	70	8	46	46	0	TNFRSF1A,missense_variant,p.Leu174Val,ENST00000539372,;TNFRSF1A,missense_variant,p.Leu174Val,ENST00000162749,;TNFRSF1A,missense_variant,p.Leu174Val,ENST00000366159,;TNFRSF1A,missense_variant,p.Leu131Val,ENST00000540022,;TNFRSF1A,missense_variant,p.Leu247Val,ENST00000440083,;PLEKHG6,downstream_gene_variant,,ENST00000011684,;PLEKHG6,downstream_gene_variant,,ENST00000304581,;PLEKHG6,downstream_gene_variant,,ENST00000449001,;TNFRSF1A,downstream_gene_variant,,ENST00000536194,;PLEKHG6,downstream_gene_variant,,ENST00000396988,;TNFRSF1A,non_coding_transcript_exon_variant,,ENST00000543359,;TNFRSF1A,non_coding_transcript_exon_variant,,ENST00000537842,;TNFRSF1A,non_coding_transcript_exon_variant,,ENST00000437813,;TNFRSF1A,downstream_gene_variant,,ENST00000535958,;TNFRSF1A,downstream_gene_variant,,ENST00000538363,;TNFRSF1A,upstream_gene_variant,,ENST00000535038,;TNFRSF1A,missense_variant,p.Phe122Leu,ENST00000534885,;TNFRSF1A,3_prime_UTR_variant,,ENST00000543048,;TNFRSF1A,3_prime_UTR_variant,,ENST00000543995,;TNFRSF1A,upstream_gene_variant,,ENST00000536717,;	C	ENSG00000067182	ENST00000162749	Transcript	missense_variant	820	520	174	L/V	Cta/Gta	.	.	.	-1	TNFRSF1A	HGNC	11916	protein_coding	YES	CCDS8542.1	ENSP00000162749	TNR1A_HUMAN	J9PH39_HUMAN,F5H4T5_HUMAN	UPI000002CE11	.	deleterious(0.05)	benign(0.122)	5/10	.	Prints_domain:PR01918,Superfamily_domains:SSF57586,SMART_domains:SM00208,Gene3D:2.10.50.10,hmmpanther:PTHR23097:SF110,hmmpanther:PTHR23097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTAGAAAGA	.	4	BLCA
MSRB3	0	.	GRCh37	12	65857056	65857056	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.533G>A	p.Gly178Asp	p.G178D	ENST00000355192	6/6	82	68	13	57	57	0	MSRB3,missense_variant,p.Gly171Asp,ENST00000308259,;MSRB3,missense_variant,p.Gly171Asp,ENST00000535664,;MSRB3,missense_variant,p.Gly178Asp,ENST00000355192,;MSRB3,intron_variant,,ENST00000446731,;MSRB3,intron_variant,,ENST00000541189,;MSRB3,downstream_gene_variant,,ENST00000535239,;RP11-230G5.2,downstream_gene_variant,,ENST00000537250,;MSRB3,non_coding_transcript_exon_variant,,ENST00000535143,;MSRB3,downstream_gene_variant,,ENST00000541897,;	A	ENSG00000174099	ENST00000355192	Transcript	missense_variant	659	533	178	G/D	gGc/gAc	.	.	.	1	MSRB3	HGNC	27375	protein_coding	YES	CCDS8973.1	ENSP00000347324	MSRB3_HUMAN	Q6MZU8_HUMAN	UPI0000051E32	.	tolerated_low_confidence(0.11)	benign(0.003)	6/6	.	hmmpanther:PTHR10173:SF24,hmmpanther:PTHR10173	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E176K|c.526G>A|3,BUFFER|p.E169K|c.505G>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGAGGCAGTG	.	5	BLCA
MSRB3	0	.	GRCh37	12	65857112	65857112	+	3'UTR	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*10G>C	.	.	ENST00000355192	6/6	46	39	7	32	32	0	MSRB3,3_prime_UTR_variant,,ENST00000308259,;MSRB3,3_prime_UTR_variant,,ENST00000535664,;MSRB3,3_prime_UTR_variant,,ENST00000355192,;MSRB3,intron_variant,,ENST00000446731,;MSRB3,intron_variant,,ENST00000541189,;MSRB3,downstream_gene_variant,,ENST00000535239,;RP11-230G5.2,downstream_gene_variant,,ENST00000537250,;MSRB3,non_coding_transcript_exon_variant,,ENST00000535143,;MSRB3,downstream_gene_variant,,ENST00000541897,;	C	ENSG00000174099	ENST00000355192	Transcript	3_prime_UTR_variant	715	.	.	.	.	.	.	.	1	MSRB3	HGNC	27375	protein_coding	YES	CCDS8973.1	ENSP00000347324	MSRB3_HUMAN	Q6MZU8_HUMAN	UPI0000051E32	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGGAGAGTGA	.	2	BLCA
NCAPD2	0	.	GRCh37	12	6623646	6623646	+	Missense_Mutation	SNP	C	C	G	rs772249934	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.732C>G	p.Ile244Met	p.I244M	ENST00000315579	8/32	91	51	40	86	86	0	NCAPD2,missense_variant,p.Ile199Met,ENST00000545962,;NCAPD2,missense_variant,p.Ile244Met,ENST00000315579,;NCAPD2,missense_variant,p.Ile116Met,ENST00000382457,;NCAPD2,downstream_gene_variant,,ENST00000539714,;SCARNA10,downstream_gene_variant,,ENST00000459255,;SCARNA10,downstream_gene_variant,,ENST00000541782,;NCAPD2,upstream_gene_variant,,ENST00000542472,;NCAPD2,upstream_gene_variant,,ENST00000536090,;NCAPD2,downstream_gene_variant,,ENST00000541399,;NCAPD2,3_prime_UTR_variant,,ENST00000539084,;NCAPD2,non_coding_transcript_exon_variant,,ENST00000545732,;	G	ENSG00000010292	ENST00000315579	Transcript	missense_variant	1531	732	244	I/M	atC/atG	rs772249934	.	.	1	NCAPD2	HGNC	24305	protein_coding	YES	CCDS8548.1	ENSP00000325017	CND1_HUMAN	F5GZK7_HUMAN	UPI000013C8CA	.	deleterious(0)	possibly_damaging(0.472)	8/32	.	hmmpanther:PTHR14222,hmmpanther:PTHR14222:SF2,PIRSF_domain:PIRSF017127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATCATCCA	.	5	BLCA
F10	0	.	GRCh37	13	113803524	113803524	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1160G>A	p.Arg387His	p.R387H	ENST00000375559	8/8	48	45	3	60	59	1	F10,missense_variant,p.Arg387His,ENST00000375559,;F10,3_prime_UTR_variant,,ENST00000409306,;F10,3_prime_UTR_variant,,ENST00000375551,;F10,downstream_gene_variant,,ENST00000410083,;F10,downstream_gene_variant,,ENST00000477269,;F10,downstream_gene_variant,,ENST00000498455,;	A	ENSG00000126218	ENST00000375559	Transcript	missense_variant	1198	1160	387	R/H	cGc/cAc	CM054665,COSM84238	.	.	1	F10	HGNC	3528	protein_coding	YES	CCDS9530.1	ENSP00000364709	FA10_HUMAN	Q5JVE7_HUMAN	UPI000000DB39	.	deleterious(0)	probably_damaging(1)	8/8	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24265:SF40,hmmpanther:PTHR24265,Pfam_domain:PF00089,Gene3D:2.40.10.10,PIRSF_domain:PIRSF001143,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGACCGCAACA	.	2	BLCA
VWA8	0	.	GRCh37	13	42265515	42265515	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3807C>T	p.%3D	p.L1269L	ENST00000379310	32/45	108	88	20	126	125	0	VWA8,synonymous_variant,p.%3D,ENST00000379310,;VWA8,non_coding_transcript_exon_variant,,ENST00000478987,;	A	ENSG00000102763	ENST00000379310	Transcript	synonymous_variant	3876	3807	1269	L	ctC/ctT	.	.	.	-1	VWA8	HGNC	29071	protein_coding	YES	CCDS41881.1	ENSP00000368612	VWA8_HUMAN	.	UPI00001606AC	.	.	.	32/45	.	hmmpanther:PTHR21610,hmmpanther:PTHR21610:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTGAGGTT	.	5	BLCA
MYCBP2	0	.	GRCh37	13	77739431	77739431	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6322G>A	p.Glu2108Lys	p.E2108K	ENST00000544440	42/83	135	119	16	116	116	0	MYCBP2,missense_variant,p.Glu2108Lys,ENST00000357337,;MYCBP2,missense_variant,p.Glu2108Lys,ENST00000544440,;MYCBP2,missense_variant,p.Glu2146Lys,ENST00000407578,;MYCBP2,5_prime_UTR_variant,,ENST00000360084,;	T	ENSG00000005810	ENST00000544440	Transcript	missense_variant	6340	6322	2108	E/K	Gaa/Aaa	.	.	.	-1	MYCBP2	HGNC	23386	protein_coding	YES	.	ENSP00000444596	MYCB2_HUMAN	.	UPI0000212757	.	.	probably_damaging(0.968)	42/83	.	hmmpanther:PTHR12846:SF14,hmmpanther:PTHR12846	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAATTCATATC	.	4	BLCA
AKAP6	0	.	GRCh37	14	33165194	33165194	+	Splice_Site	SNP	A	A	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2880-2A>T	.	p.X960_splice	ENST00000280979	.	79	47	32	84	84	0	AKAP6,splice_acceptor_variant,,ENST00000280979,;AKAP6,splice_acceptor_variant,,ENST00000557272,;AKAP6,splice_acceptor_variant,,ENST00000557354,;AKAP6,splice_acceptor_variant,,ENST00000555207,;AKAP6,splice_acceptor_variant,,ENST00000555950,;AKAP6,splice_acceptor_variant,,ENST00000557708,;AKAP6,splice_acceptor_variant,,ENST00000557396,;	T	ENSG00000151320	ENST00000280979	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	AKAP6	HGNC	376	protein_coding	YES	CCDS9644.1	ENSP00000280979	AKAP6_HUMAN	G3V569_HUMAN,G3V3H6_HUMAN,G3V3H2_HUMAN,G3V3B5_HUMAN,D3DS91_HUMAN	UPI000013DC48	.	.	.	.	8/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTCAGGCTT	.	5	BLCA
MAP3K9	0	.	GRCh37	14	71197331	71197331	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3123G>C	p.Glu1041Asp	p.E1041D	ENST00000555993	13/13	59	53	5	71	71	0	MAP3K9,missense_variant,p.Glu760Asp,ENST00000553414,;MAP3K9,missense_variant,p.Glu755Asp,ENST00000554146,;MAP3K9,missense_variant,p.Glu1004Asp,ENST00000381250,;MAP3K9,missense_variant,p.Glu1041Asp,ENST00000555993,;MAP3K9,missense_variant,p.Glu1027Asp,ENST00000554752,;	G	ENSG00000006432	ENST00000555993	Transcript	missense_variant	3486	3123	1041	E/D	gaG/gaC	.	.	.	-1	MAP3K9	HGNC	6861	protein_coding	YES	CCDS32112.1	ENSP00000451263	M3K9_HUMAN	Q8NEB1_HUMAN,B4DSG3_HUMAN,B4DGF4_HUMAN,B3KRI5_HUMAN	UPI00001D7B5C	.	tolerated(0.58)	benign(0.023)	13/13	.	PIRSF_domain:PIRSF000556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCGTCTCTGT	.	4	BLCA
ADAMTS17	0	.	GRCh37	15	100801782	100801782	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.933G>A	p.%3D	p.Q311Q	ENST00000268070	6/22	22	15	6	23	23	0	ADAMTS17,synonymous_variant,p.%3D,ENST00000268070,;ADAMTS17,non_coding_transcript_exon_variant,,ENST00000560486,;ADAMTS17,upstream_gene_variant,,ENST00000559976,;ADAMTS17,non_coding_transcript_exon_variant,,ENST00000378898,;ADAMTS17,downstream_gene_variant,,ENST00000558960,;	T	ENSG00000140470	ENST00000268070	Transcript	synonymous_variant	1039	933	311	Q	caG/caA	.	.	.	-1	ADAMTS17	HGNC	17109	protein_coding	YES	CCDS10383.1	ENSP00000268070	ATS17_HUMAN	.	UPI00001AE929	.	.	.	6/22	.	Superfamily_domains:SSF55486,Gene3D:3.40.390.10,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF31,PROSITE_profiles:PS50215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGTTCTGCCA	.	5	BLCA
OR4N4	0	.	GRCh37	15	22382613	22382613	+	Silent	SNP	C	C	T	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141C>T	p.%3D	p.F47F	ENST00000328795	1/1	149	133	16	121	121	0	OR4N4,synonymous_variant,p.%3D,ENST00000328795,;RP11-69H14.6,non_coding_transcript_exon_variant,,ENST00000558896,;RP11-69H14.6,non_coding_transcript_exon_variant,,ENST00000558312,;RP11-69H14.6,intron_variant,,ENST00000558798,;RP11-69H14.6,intron_variant,,ENST00000559392,;	T	ENSG00000183706	ENST00000328795	Transcript	synonymous_variant	232	141	47	F	ttC/ttT	COSM3886744	.	.	1	OR4N4	HGNC	15375	protein_coding	YES	CCDS32173.1	ENSP00000332500	OR4N4_HUMAN	.	UPI0000041C1A	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF97,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	ATTTTCACCAT	.	2	BLCA
FMN1	0	.	GRCh37	15	33359047	33359047	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039C>G	p.Leu347Val	p.L347V	ENST00000334528	1/17	89	76	12	71	71	0	FMN1,missense_variant,p.Leu347Val,ENST00000334528,;FMN1,missense_variant,p.Leu347Val,ENST00000558197,;FMN1,intron_variant,,ENST00000559047,;FMN1,intron_variant,,ENST00000561249,;FMN1,intron_variant,,ENST00000559150,;	C	ENSG00000248905	ENST00000334528	Transcript	missense_variant	1039	1039	347	L/V	Ctg/Gtg	.	.	.	-1	FMN1	HGNC	3768	protein_coding	YES	CCDS45209.1	ENSP00000333950	FMN1_HUMAN	.	UPI00004086C3	.	deleterious(0.01)	unknown(0)	1/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13037,hmmpanther:PTHR13037:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGCAGAGAGA	.	3	BLCA
DUOXA1	0	.	GRCh37	15	45412485	45412485	+	Silent	SNP	C	C	T	rs375934424	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.588G>A	p.%3D	p.V196V	ENST00000267803	8/11	98	81	16	105	105	0	DUOXA1,synonymous_variant,p.%3D,ENST00000267803,;DUOXA1,synonymous_variant,p.%3D,ENST00000558422,;DUOXA1,synonymous_variant,p.%3D,ENST00000559014,;DUOXA1,synonymous_variant,p.%3D,ENST00000558996,;DUOXA1,synonymous_variant,p.%3D,ENST00000560572,;DUOXA1,synonymous_variant,p.%3D,ENST00000430224,;DUOXA1,downstream_gene_variant,,ENST00000558326,;DUOXA1,downstream_gene_variant,,ENST00000558851,;DUOXA1,downstream_gene_variant,,ENST00000558377,;DUOXA2,downstream_gene_variant,,ENST00000323030,;DUOXA1,downstream_gene_variant,,ENST00000559644,;DUOXA1,downstream_gene_variant,,ENST00000559226,;DUOXA1,downstream_gene_variant,,ENST00000559988,;DUOXA1,3_prime_UTR_variant,,ENST00000559013,;DUOXA2,downstream_gene_variant,,ENST00000350243,;DUOXA2,downstream_gene_variant,,ENST00000491993,;	T	ENSG00000140254	ENST00000267803	Transcript	synonymous_variant	988	588	196	V	gtG/gtA	rs375934424	.	.	-1	DUOXA1	HGNC	26507	protein_coding	YES	CCDS10119.1	ENSP00000267803	DOXA1_HUMAN	H0YMZ8_HUMAN,H0YLQ4_HUMAN,A8K9Q6_HUMAN	UPI000006D4D4	.	.	.	8/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR31158,hmmpanther:PTHR31158:SF3,Pfam_domain:PF10204	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATCACATT	byFrequency|byCluster	4	BLCA
IGDCC3	0	.	GRCh37	15	65621842	65621842	+	Silent	SNP	C	C	T	rs748924376	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2091G>A	p.%3D	p.A697A	ENST00000327987	13/14	73	54	18	52	52	0	IGDCC3,synonymous_variant,p.%3D,ENST00000327987,;IGDCC3,downstream_gene_variant,,ENST00000558354,;IGDCC3,downstream_gene_variant,,ENST00000559231,;	T	ENSG00000174498	ENST00000327987	Transcript	synonymous_variant	2343	2091	697	A	gcG/gcA	rs748924376	.	.	-1	IGDCC3	HGNC	9700	protein_coding	YES	CCDS10205.1	ENSP00000332773	IGDC3_HUMAN	H0YNQ1_HUMAN	UPI000019908F	.	.	.	13/14	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTCTCGCCCC	.	5	BLCA
NPTN	0	.	GRCh37	15	73862604	73862604	+	Missense_Mutation	SNP	C	C	T	rs774063385	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1001G>A	p.Arg334Gln	p.R334Q	ENST00000345330	6/9	60	56	4	54	54	0	NPTN,missense_variant,p.Arg297Gln,ENST00000565282,;NPTN,missense_variant,p.Arg218Gln,ENST00000562924,;NPTN,missense_variant,p.Arg129Gln,ENST00000565325,;NPTN,missense_variant,p.Arg334Gln,ENST00000563691,;NPTN,missense_variant,p.Arg334Gln,ENST00000545878,;NPTN,missense_variant,p.Arg334Gln,ENST00000345330,;NPTN,missense_variant,p.Gly318Arg,ENST00000287226,;NPTN,missense_variant,p.Arg218Gln,ENST00000351217,;NPTN,missense_variant,p.Arg129Gln,ENST00000542234,;NPTN,downstream_gene_variant,,ENST00000564551,;	T	ENSG00000156642	ENST00000345330	Transcript	missense_variant	1199	1001	334	R/Q	cGg/cAg	rs774063385	.	.	-1	NPTN	HGNC	17867	protein_coding	YES	CCDS10249.1	ENSP00000290401	NPTN_HUMAN	Q9UFM8_HUMAN,H3BQ94_HUMAN	UPI0000072D5C	.	deleterious(0)	possibly_damaging(0.692)	6/9	.	hmmpanther:PTHR10075,hmmpanther:PTHR10075:SF5,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCTCCGCACC	.	2	BLCA
ST8SIA2	0	.	GRCh37	15	92987900	92987900	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583G>C	p.Asp195His	p.D195H	ENST00000268164	5/6	66	56	10	73	73	0	ST8SIA2,missense_variant,p.Asp174His,ENST00000539113,;ST8SIA2,missense_variant,p.Asp152His,ENST00000555434,;ST8SIA2,missense_variant,p.Asp195His,ENST00000268164,;ST8SIA2,non_coding_transcript_exon_variant,,ENST00000556382,;	C	ENSG00000140557	ENST00000268164	Transcript	missense_variant	820	583	195	D/H	Gat/Cat	.	.	.	1	ST8SIA2	HGNC	10870	protein_coding	YES	CCDS10372.1	ENSP00000268164	SIA8B_HUMAN	B2R9U8_HUMAN	UPI0000135970	.	.	probably_damaging(0.989)	5/6	.	PIRSF_domain:PIRSF005557,Pfam_domain:PF00777,hmmpanther:PTHR11987:SF30,hmmpanther:PTHR11987	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGGGATGTG	.	5	BLCA
CASKIN1	0	.	GRCh37	16	2233845	2233845	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1514G>A	p.Arg505His	p.R505H	ENST00000343516	15/20	55	51	4	60	60	0	CASKIN1,missense_variant,p.Arg505His,ENST00000343516,;CASKIN1,intron_variant,,ENST00000564289,;	T	ENSG00000167971	ENST00000343516	Transcript	missense_variant	1607	1514	505	R/H	cGc/cAc	.	.	.	-1	CASKIN1	HGNC	20879	protein_coding	YES	CCDS42103.1	ENSP00000345436	CSKI1_HUMAN	D3DU87_HUMAN	UPI0000073A3B	.	.	probably_damaging(0.997)	15/20	.	PROSITE_profiles:PS50105,hmmpanther:PTHR24177:SF12,hmmpanther:PTHR24177,Pfam_domain:PF00536,Gene3D:1.10.150.50,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCATGCGGCTG	.	3	BLCA
ZKSCAN2	0	.	GRCh37	16	25251866	25251866	+	Silent	SNP	C	C	A	rs368414394	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2175G>T	p.%3D	p.P725P	ENST00000328086	7/7	72	43	28	46	46	0	ZKSCAN2,synonymous_variant,p.%3D,ENST00000328086,;CTD-2547G23.2,downstream_gene_variant,,ENST00000569456,;ZKSCAN2,3_prime_UTR_variant,,ENST00000569150,;	A	ENSG00000155592	ENST00000328086	Transcript	synonymous_variant	2979	2175	725	P	ccG/ccT	rs368414394	.	.	-1	ZKSCAN2	HGNC	25677	protein_coding	YES	CCDS32410.1	ENSP00000331626	ZKSC2_HUMAN	.	UPI0000229E7F	.	.	.	7/7	.	hmmpanther:PTHR10032,hmmpanther:PTHR10032:SF206	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATCGGCTT	byFrequency|byCluster	5	BLCA
SPNS1	0	.	GRCh37	16	28989300	28989300	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379C>G	p.Leu127Val	p.L127V	ENST00000311008	3/12	60	34	25	88	88	0	SPNS1,missense_variant,p.Leu127Val,ENST00000567771,;SPNS1,missense_variant,p.Leu15Val,ENST00000568829,;SPNS1,missense_variant,p.Leu54Val,ENST00000323081,;SPNS1,missense_variant,p.Leu54Val,ENST00000568388,;SPNS1,missense_variant,p.Leu112Val,ENST00000564476,;SPNS1,missense_variant,p.Leu127Val,ENST00000311008,;SPNS1,missense_variant,p.Leu105Val,ENST00000352260,;SPNS1,missense_variant,p.Leu172Val,ENST00000565975,;SPNS1,missense_variant,p.Leu127Val,ENST00000334536,;SPNS1,missense_variant,p.Leu116Val,ENST00000566059,;RP11-264B17.4,intron_variant,,ENST00000567209,;SPNS1,intron_variant,,ENST00000561868,;RP11-264B17.3,non_coding_transcript_exon_variant,,ENST00000569969,;SPNS1,non_coding_transcript_exon_variant,,ENST00000568900,;	G	ENSG00000169682	ENST00000311008	Transcript	missense_variant	756	379	127	L/V	Ctc/Gtc	.	.	.	1	SPNS1	HGNC	30621	protein_coding	YES	CCDS10646.1	ENSP00000309945	SPNS1_HUMAN	H3BT44_HUMAN,H3BP14_HUMAN	UPI000004DB99	.	deleterious(0.04)	benign(0.088)	3/12	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF103473,Pfam_domain:PF07690,Gene3D:1.20.1250.20,hmmpanther:PTHR24001,hmmpanther:PTHR24001:SF3,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTATCTCATG	.	5	BLCA
PPP4C	0	.	GRCh37	16	30096296	30096296	+	Silent	SNP	C	C	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837C>A	p.%3D	p.L279L	ENST00000279387	9/9	85	65	19	61	61	0	PPP4C,synonymous_variant,p.%3D,ENST00000279387,;PPP4C,synonymous_variant,p.%3D,ENST00000562664,;PPP4C,synonymous_variant,p.%3D,ENST00000561610,;PPP4C,downstream_gene_variant,,ENST00000562222,;TBX6,downstream_gene_variant,,ENST00000395224,;TBX6,downstream_gene_variant,,ENST00000279386,;TBX6,downstream_gene_variant,,ENST00000553607,;PPP4C,3_prime_UTR_variant,,ENST00000566749,;PPP4C,non_coding_transcript_exon_variant,,ENST00000563200,;PPP4C,downstream_gene_variant,,ENST00000563732,;PPP4C,downstream_gene_variant,,ENST00000567828,;PPP4C,downstream_gene_variant,,ENST00000564966,;PPP4C,downstream_gene_variant,,ENST00000567040,;PPP4C,downstream_gene_variant,,ENST00000568810,;TBX6,downstream_gene_variant,,ENST00000567664,;PPP4C,downstream_gene_variant,,ENST00000567642,;PPP4C,downstream_gene_variant,,ENST00000563597,;	A	ENSG00000149923	ENST00000279387	Transcript	synonymous_variant	1005	837	279	L	ctC/ctA	.	.	.	1	PPP4C	HGNC	9319	protein_coding	YES	CCDS10669.1	ENSP00000279387	PP4C_HUMAN	.	UPI0000023591	.	.	.	9/9	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF22,Gene3D:3.60.21.10,SMART_domains:SM00156,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCCAGAA	.	5	BLCA
GLIS2	0	.	GRCh37	16	4382239	4382239	+	5'UTR	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-43G>A	.	.	ENST00000262366	3/8	14	10	3	12	12	0	GLIS2,5_prime_UTR_variant,,ENST00000262366,;GLIS2,5_prime_UTR_variant,,ENST00000433375,;PAM16,intron_variant,,ENST00000577031,;AC005356.1,upstream_gene_variant,,ENST00000576080,;RP11-295D4.1,downstream_gene_variant,,ENST00000574705,;	A	ENSG00000126603	ENST00000262366	Transcript	5_prime_UTR_variant	779	.	.	.	.	.	.	.	1	GLIS2	HGNC	29450	protein_coding	YES	CCDS10511.1	ENSP00000262366	GLIS2_HUMAN	B3KTH4_HUMAN	UPI000013D29C	.	.	.	3/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	GCTGGGAGCCC	.	4	BLCA
ALG1	0	.	GRCh37	16	5127977	5127977	+	Silent	SNP	C	C	G	rs754386350	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.699C>G	p.%3D	p.L233L	ENST00000262374	6/13	102	75	26	93	93	0	ALG1,synonymous_variant,p.%3D,ENST00000588623,;ALG1,synonymous_variant,p.%3D,ENST00000544428,;ALG1,synonymous_variant,p.%3D,ENST00000591783,;ALG1,synonymous_variant,p.%3D,ENST00000262374,;ALG1,downstream_gene_variant,,ENST00000586840,;ALG1,3_prime_UTR_variant,,ENST00000591822,;ALG1,downstream_gene_variant,,ENST00000592793,;RP11-10K17.3,downstream_gene_variant,,ENST00000564330,;	G	ENSG00000033011	ENST00000262374	Transcript	synonymous_variant	730	699	233	L	ctC/ctG	rs754386350	.	.	1	ALG1	HGNC	18294	protein_coding	YES	CCDS10528.1	ENSP00000262374	ALG1_HUMAN	K7EID2_HUMAN,B4DP08_HUMAN	UPI000003B09B	.	.	.	6/13	.	hmmpanther:PTHR13036,hmmpanther:PTHR13036:SF0,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCTCTTCAT	.	5	BLCA
ZNF23	0	.	GRCh37	16	71488050	71488050	+	5'UTR	SNP	C	C	A	rs749038300	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-72G>T	.	.	ENST00000393539	4/6	45	28	17	37	37	0	ZNF23,5_prime_UTR_variant,,ENST00000358700,;ZNF23,5_prime_UTR_variant,,ENST00000428724,;ZNF23,5_prime_UTR_variant,,ENST00000565718,;ZNF23,5_prime_UTR_variant,,ENST00000567340,;ZNF23,5_prime_UTR_variant,,ENST00000393539,;ZNF23,5_prime_UTR_variant,,ENST00000357254,;ZNF23,5_prime_UTR_variant,,ENST00000417828,;ZNF23,5_prime_UTR_variant,,ENST00000497160,;ZNF23,upstream_gene_variant,,ENST00000564528,;ZNF23,intron_variant,,ENST00000539742,;ZNF23,downstream_gene_variant,,ENST00000564588,;AC010547.9,3_prime_UTR_variant,,ENST00000561908,;ZNF23,upstream_gene_variant,,ENST00000576258,;	A	ENSG00000167377	ENST00000393539	Transcript	5_prime_UTR_variant	743	.	.	.	.	rs749038300	.	.	-1	ZNF23	HGNC	13023	protein_coding	YES	CCDS10900.1	ENSP00000377171	ZNF23_HUMAN	Q8NDP5_HUMAN,H3BPE6_HUMAN	UPI000013C406	.	.	.	4/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCACGTCCT	byFrequency	5	BLCA
ATMIN	0	.	GRCh37	16	81078153	81078153	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2050C>T	p.Gln684Ter	p.Q684*	ENST00000299575	4/4	138	75	62	105	105	0	ATMIN,stop_gained,p.Gln528Ter,ENST00000566488,;ATMIN,stop_gained,p.Gln528Ter,ENST00000564241,;ATMIN,stop_gained,p.Gln684Ter,ENST00000299575,;ATMIN,downstream_gene_variant,,ENST00000565237,;ATMIN,non_coding_transcript_exon_variant,,ENST00000539819,;ATMIN,downstream_gene_variant,,ENST00000562969,;	T	ENSG00000166454	ENST00000299575	Transcript	stop_gained	2074	2050	684	Q/*	Cag/Tag	.	.	.	1	ATMIN	HGNC	29034	protein_coding	YES	CCDS32494.1	ENSP00000299575	ATMIN_HUMAN	J3QRX7_HUMAN,D3DUL0_HUMAN	UPI00001B2485	.	.	.	4/4	.	hmmpanther:PTHR10593,hmmpanther:PTHR10593:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCAGTCC	.	5	BLCA
ATMIN	0	.	GRCh37	16	81078378	81078378	+	Missense_Mutation	SNP	C	C	G	rs778556195	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2275C>G	p.Gln759Glu	p.Q759E	ENST00000299575	4/4	73	47	25	73	73	0	ATMIN,missense_variant,p.Gln603Glu,ENST00000566488,;ATMIN,missense_variant,p.Gln603Glu,ENST00000564241,;ATMIN,missense_variant,p.Gln759Glu,ENST00000299575,;ATMIN,downstream_gene_variant,,ENST00000565237,;ATMIN,non_coding_transcript_exon_variant,,ENST00000539819,;ATMIN,downstream_gene_variant,,ENST00000562969,;	G	ENSG00000166454	ENST00000299575	Transcript	missense_variant	2299	2275	759	Q/E	Cag/Gag	rs778556195	.	.	1	ATMIN	HGNC	29034	protein_coding	YES	CCDS32494.1	ENSP00000299575	ATMIN_HUMAN	J3QRX7_HUMAN,D3DUL0_HUMAN	UPI00001B2485	.	tolerated(0.07)	benign(0.008)	4/4	.	hmmpanther:PTHR10593,hmmpanther:PTHR10593:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCAGTTG	byFrequency	5	BLCA
RAI1	0	.	GRCh37	17	17697755	17697755	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1493C>G	p.Ser498Ter	p.S498*	ENST00000353383	3/6	34	30	4	39	39	0	RAI1,stop_gained,p.Ser498Ter,ENST00000353383,;RAI1,stop_gained,p.Ser498Ter,ENST00000261641,;RAI1,stop_gained,p.Ser498Ter,ENST00000395774,;RAI1,upstream_gene_variant,,ENST00000583166,;RAI1,downstream_gene_variant,,ENST00000471135,;	G	ENSG00000108557	ENST00000353383	Transcript	stop_gained	1962	1493	498	S/*	tCa/tGa	.	.	.	1	RAI1	HGNC	9834	protein_coding	YES	CCDS11188.1	ENSP00000323074	RAI1_HUMAN	J3QLL5_HUMAN,A8MXE8_HUMAN	UPI0000200AAF	.	.	.	3/6	.	hmmpanther:PTHR14955:SF6,hmmpanther:PTHR14955	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGTCAGAGC	.	2	BLCA
NSRP1	0	.	GRCh37	17	28511683	28511683	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.668C>G	p.Ser223Ter	p.S223*	ENST00000247026	7/7	73	48	25	45	45	0	NSRP1,stop_gained,p.Ser223Ter,ENST00000247026,;NSRP1,downstream_gene_variant,,ENST00000580103,;NSRP1,non_coding_transcript_exon_variant,,ENST00000540900,;NSRP1,downstream_gene_variant,,ENST00000577289,;NSRP1,3_prime_UTR_variant,,ENST00000475652,;NSRP1,3_prime_UTR_variant,,ENST00000394826,;	G	ENSG00000126653	ENST00000247026	Transcript	stop_gained	731	668	223	S/*	tCa/tGa	.	.	.	1	NSRP1	HGNC	25305	protein_coding	YES	CCDS11255.1	ENSP00000247026	NSRP1_HUMAN	K7ERM9_HUMAN,K7EMD8_HUMAN,K7EK40_HUMAN	UPI000006E653	.	.	.	7/7	.	hmmpanther:PTHR31938	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTCAAAAA	.	5	BLCA
CPD	0	.	GRCh37	17	28754486	28754486	+	Nonsense_Mutation	SNP	C	C	T	rs375764127	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1927C>T	p.Gln643Ter	p.Q643*	ENST00000225719	7/21	95	85	10	106	106	0	CPD,stop_gained,p.Gln396Ter,ENST00000543464,;CPD,stop_gained,p.Gln643Ter,ENST00000225719,;	T	ENSG00000108582	ENST00000225719	Transcript	stop_gained	2003	1927	643	Q/*	Cag/Tag	rs375764127,COSM1249016	.	.	1	CPD	HGNC	2301	protein_coding	YES	CCDS11257.1	ENSP00000225719	CBPD_HUMAN	.	UPI000000DAF7	.	.	.	7/21	.	hmmpanther:PTHR11532:SF40,hmmpanther:PTHR11532,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	G:0.0002	G:0	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTTCAGATC	byCluster	4	BLCA
GPR179	0	.	GRCh37	17	36485968	36485968	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3484A>T	p.Ser1162Cys	p.S1162C	ENST00000342292	11/11	143	79	63	124	123	0	GPR179,missense_variant,p.Ser1162Cys,ENST00000342292,;GPR179,upstream_gene_variant,,ENST00000584976,;	A	ENSG00000188888	ENST00000342292	Transcript	missense_variant	3505	3484	1162	S/C	Agc/Tgc	.	.	.	-1	GPR179	HGNC	31371	protein_coding	YES	CCDS42308.1	ENSP00000345060	GP179_HUMAN	.	UPI000041A9C2	.	deleterious(0)	probably_damaging(0.999)	11/11	.	hmmpanther:PTHR32546:SF7,hmmpanther:PTHR32546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGCTGGTGT	.	5	BLCA
MIEN1	0	.	GRCh37	17	37885811	37885811	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312G>C	p.Lys104Asn	p.K104N	ENST00000394231	4/4	124	105	18	93	93	0	MIEN1,missense_variant,p.Lys104Asn,ENST00000394231,;MIEN1,3_prime_UTR_variant,,ENST00000577810,;ERBB2,downstream_gene_variant,,ENST00000580074,;ERBB2,downstream_gene_variant,,ENST00000584450,;ERBB2,downstream_gene_variant,,ENST00000541774,;ERBB2,downstream_gene_variant,,ENST00000445658,;ERBB2,downstream_gene_variant,,ENST00000269571,;ERBB2,downstream_gene_variant,,ENST00000406381,;ERBB2,downstream_gene_variant,,ENST00000540147,;ERBB2,downstream_gene_variant,,ENST00000584601,;MIR4728,downstream_gene_variant,,ENST00000580969,;MIEN1,non_coding_transcript_exon_variant,,ENST00000474210,;ERBB2,intron_variant,,ENST00000584888,;MIEN1,non_coding_transcript_exon_variant,,ENST00000582963,;MIEN1,non_coding_transcript_exon_variant,,ENST00000469568,;MIEN1,non_coding_transcript_exon_variant,,ENST00000498164,;ERBB2,downstream_gene_variant,,ENST00000583038,;ERBB2,downstream_gene_variant,,ENST00000578373,;	G	ENSG00000141741	ENST00000394231	Transcript	missense_variant	604	312	104	K/N	aaG/aaC	.	.	.	-1	MIEN1	HGNC	28230	protein_coding	YES	CCDS11344.1	ENSP00000377778	MIEN1_HUMAN	.	UPI0000043728	.	deleterious(0.01)	possibly_damaging(0.518)	4/4	.	hmmpanther:PTHR15124,hmmpanther:PTHR15124:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGATCTTTTC	.	3	BLCA
MIEN1	0	.	GRCh37	17	37885839	37885839	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.284G>C	p.Arg95Thr	p.R95T	ENST00000394231	4/4	116	97	19	97	97	0	MIEN1,missense_variant,p.Arg95Thr,ENST00000394231,;MIEN1,3_prime_UTR_variant,,ENST00000577810,;ERBB2,downstream_gene_variant,,ENST00000580074,;ERBB2,downstream_gene_variant,,ENST00000584450,;ERBB2,downstream_gene_variant,,ENST00000541774,;ERBB2,downstream_gene_variant,,ENST00000445658,;ERBB2,downstream_gene_variant,,ENST00000269571,;ERBB2,downstream_gene_variant,,ENST00000406381,;ERBB2,downstream_gene_variant,,ENST00000540147,;ERBB2,downstream_gene_variant,,ENST00000584601,;MIR4728,downstream_gene_variant,,ENST00000580969,;MIEN1,non_coding_transcript_exon_variant,,ENST00000474210,;ERBB2,intron_variant,,ENST00000584888,;MIEN1,non_coding_transcript_exon_variant,,ENST00000582963,;MIEN1,non_coding_transcript_exon_variant,,ENST00000469568,;MIEN1,non_coding_transcript_exon_variant,,ENST00000498164,;ERBB2,downstream_gene_variant,,ENST00000583038,;ERBB2,downstream_gene_variant,,ENST00000578373,;	G	ENSG00000141741	ENST00000394231	Transcript	missense_variant	576	284	95	R/T	aGa/aCa	.	.	.	-1	MIEN1	HGNC	28230	protein_coding	YES	CCDS11344.1	ENSP00000377778	MIEN1_HUMAN	.	UPI0000043728	.	tolerated(0.15)	benign(0.055)	4/4	.	hmmpanther:PTHR15124,hmmpanther:PTHR15124:SF15,Gene3D:3.40.30.10,Pfam_domain:PF10262,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTTCGG	.	5	BLCA
GRB7	0	.	GRCh37	17	37901234	37901234	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1077C>T	p.%3D	p.F359F	ENST00000445327	9/15	15	11	4	10	10	0	GRB7,synonymous_variant,p.%3D,ENST00000394209,;GRB7,synonymous_variant,p.%3D,ENST00000445327,;GRB7,synonymous_variant,p.%3D,ENST00000394211,;GRB7,synonymous_variant,p.%3D,ENST00000309185,;GRB7,synonymous_variant,p.%3D,ENST00000394204,;GRB7,synonymous_variant,p.%3D,ENST00000309156,;GRB7,downstream_gene_variant,,ENST00000577695,;GRB7,downstream_gene_variant,,ENST00000578702,;GRB7,downstream_gene_variant,,ENST00000473071,;GRB7,downstream_gene_variant,,ENST00000461756,;GRB7,downstream_gene_variant,,ENST00000584053,;GRB7,downstream_gene_variant,,ENST00000485182,;GRB7,downstream_gene_variant,,ENST00000584819,;GRB7,downstream_gene_variant,,ENST00000583813,;	T	ENSG00000141738	ENST00000445327	Transcript	synonymous_variant	1212	1077	359	F	ttC/ttT	.	.	.	1	GRB7	HGNC	4567	protein_coding	YES	CCDS56028.1	ENSP00000403459	GRB7_HUMAN	.	UPI0001AE662D	.	.	.	9/15	.	PROSITE_profiles:PS50003,hmmpanther:PTHR11243:SF24,hmmpanther:PTHR11243,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCAAGGT	.	4	BLCA
KRT33A	0	.	GRCh37	17	39502859	39502859	+	Missense_Mutation	SNP	T	T	A	rs144592837	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.938A>T	p.Gln313Leu	p.Q313L	ENST00000007735	6/7	51	34	17	79	79	0	KRT33A,missense_variant,p.Gln313Leu,ENST00000007735,;	A	ENSG00000006059	ENST00000007735	Transcript	missense_variant	983	938	313	Q/L	cAg/cTg	rs144592837	.	.	-1	KRT33A	HGNC	6450	protein_coding	YES	CCDS11388.1	ENSP00000007735	KT33A_HUMAN	.	UPI000013C503	.	deleterious(0.01)	probably_damaging(0.978)	6/7	.	Coiled-coils_(Ncoils):Coil,Prints_domain:PR01248,Superfamily_domains:SSF64593,Gene3D:1.20.5.170,Pfam_domain:PF00038,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF98	.	.	.	.	.	.	.	C:0.0007	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACCTGGGAC	byCluster	5	BLCA
BRCA1	0	.	GRCh37	17	41246791	41246791	+	Missense_Mutation	SNP	C	C	T	rs80357293	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.757G>A	p.Ala253Thr	p.A253T	ENST00000471181	10/24	61	37	23	51	51	0	BRCA1,missense_variant,p.Ala253Thr,ENST00000470026,;BRCA1,missense_variant,p.Ala253Thr,ENST00000494123,;BRCA1,missense_variant,p.Ala227Thr,ENST00000477152,;BRCA1,missense_variant,p.Ala206Thr,ENST00000493919,;BRCA1,missense_variant,p.Ala253Thr,ENST00000346315,;BRCA1,missense_variant,p.Ala253Thr,ENST00000357654,;BRCA1,missense_variant,p.Ala119Thr,ENST00000473961,;BRCA1,missense_variant,p.Ala253Thr,ENST00000354071,;BRCA1,missense_variant,p.Ala253Thr,ENST00000468300,;BRCA1,missense_variant,p.Ala206Thr,ENST00000493795,;BRCA1,missense_variant,p.Ala252Thr,ENST00000478531,;BRCA1,missense_variant,p.Ala253Thr,ENST00000491747,;BRCA1,missense_variant,p.Ala253Thr,ENST00000471181,;BRCA1,missense_variant,p.Ala127Thr,ENST00000484087,;BRCA1,missense_variant,p.Ala128Thr,ENST00000487825,;BRCA1,5_prime_UTR_variant,,ENST00000497488,;BRCA1,5_prime_UTR_variant,,ENST00000309486,;BRCA1,intron_variant,,ENST00000352993,;BRCA1,intron_variant,,ENST00000351666,;BRCA1,intron_variant,,ENST00000591534,;BRCA1,intron_variant,,ENST00000586385,;BRCA1,intron_variant,,ENST00000591849,;BRCA1,downstream_gene_variant,,ENST00000476777,;BRCA1,upstream_gene_variant,,ENST00000461574,;BRCA1,missense_variant,p.Ala37Thr,ENST00000412061,;BRCA1,3_prime_UTR_variant,,ENST00000461221,;BRCA1,3_prime_UTR_variant,,ENST00000492859,;BRCA1,non_coding_transcript_exon_variant,,ENST00000467274,;	T	ENSG00000012048	ENST00000471181	Transcript	missense_variant	989	757	253	A/T	Gca/Aca	rs80357293	.	.	-1	BRCA1	HGNC	1100	protein_coding	YES	CCDS11456.2	ENSP00000418960	.	Q9UE29_HUMAN,Q9NQR3_HUMAN,Q92897_HUMAN,Q7KYU6_HUMAN,Q4EW25_HUMAN,Q3YB53_HUMAN,Q3YB50_HUMAN,Q3YB49_HUMAN,Q3B891_HUMAN,K7EPC7_HUMAN,K4K7V3_HUMAN,K4JXS7_HUMAN,K4JUB1_HUMAN,G4V503_HUMAN,G4V502_HUMAN,G4V500_HUMAN,G4V4Z8_HUMAN,G4V4Z7_HUMAN,G1UI37_HUMAN,E9PFC7_HUMAN,E7EWN5_HUMAN,C9IZW4_HUMAN,C4PFY7_HUMAN	UPI0000E0360B	.	deleterious(0.02)	possibly_damaging(0.672)	10/24	.	hmmpanther:PTHR13763:SF0,hmmpanther:PTHR13763,PIRSF_domain:PIRSF001734	.	.	.	.	.	.	.	.	.	uncertain_significance,not_provided	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGCTGCACGCT	.	4	BLCA
TRIM37	0	.	GRCh37	17	57148305	57148305	+	Missense_Mutation	SNP	G	G	A	rs764031118	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>T	p.Arg230Trp	p.R230W	ENST00000262294	9/24	72	68	4	48	48	0	TRIM37,missense_variant,p.Arg104Trp,ENST00000581468,;TRIM37,missense_variant,p.Arg196Trp,ENST00000393065,;TRIM37,missense_variant,p.Arg230Trp,ENST00000393066,;TRIM37,missense_variant,p.Arg230Trp,ENST00000262294,;TRIM37,missense_variant,p.Arg108Trp,ENST00000376149,;TRIM37,3_prime_UTR_variant,,ENST00000577554,;TRIM37,non_coding_transcript_exon_variant,,ENST00000582852,;TRIM37,downstream_gene_variant,,ENST00000580973,;	A	ENSG00000108395	ENST00000262294	Transcript	missense_variant	948	688	230	R/W	Cgg/Tgg	rs764031118	.	.	-1	TRIM37	HGNC	7523	protein_coding	YES	CCDS32694.1	ENSP00000262294	TRI37_HUMAN	B3KMU3_HUMAN,A8K0V9_HUMAN	UPI0000167B57	.	deleterious(0.02)	possibly_damaging(0.821)	9/24	.	hmmpanther:PTHR24103:SF229,hmmpanther:PTHR24103,SMART_domains:SM00502	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGACCGCAACT	byFrequency	2	BLCA
PLEKHM1P	0	.	GRCh37	17	62796796	62796796	+	RNA	SNP	C	C	G	rs767092549	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1358G>C	.	.	ENST00000578036	7/18	25	20	5	22	22	0	PLEKHM1P,non_coding_transcript_exon_variant,,ENST00000578036,;PLEKHM1P,non_coding_transcript_exon_variant,,ENST00000582986,;PLEKHM1P,downstream_gene_variant,,ENST00000580919,;PLEKHM1P,non_coding_transcript_exon_variant,,ENST00000582201,;PLEKHM1P,downstream_gene_variant,,ENST00000440036,;	G	ENSG00000214176	ENST00000578036	Transcript	non_coding_transcript_exon_variant	1358	.	.	.	.	rs767092549	.	.	-1	PLEKHM1P	HGNC	35411	processed_transcript	.	.	.	.	.	.	.	.	.	7/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GGAGGCGCGCA	byFrequency	2	BLCA
ACADVL	0	.	GRCh37	17	7126021	7126021	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.983C>G	p.Ser328Ter	p.S328*	ENST00000543245	11/21	28	24	3	22	22	0	ACADVL,stop_gained,p.Ser305Ter,ENST00000356839,;ACADVL,stop_gained,p.Ser328Ter,ENST00000543245,;ACADVL,stop_gained,p.Ser283Ter,ENST00000350303,;DLG4,upstream_gene_variant,,ENST00000399510,;ACADVL,upstream_gene_variant,,ENST00000542255,;ACADVL,downstream_gene_variant,,ENST00000584103,;DVL2,downstream_gene_variant,,ENST00000575458,;ACADVL,upstream_gene_variant,,ENST00000579546,;DVL2,downstream_gene_variant,,ENST00000575086,;DVL2,downstream_gene_variant,,ENST00000005340,;ACADVL,downstream_gene_variant,,ENST00000583312,;ACADVL,downstream_gene_variant,,ENST00000579886,;MIR324,downstream_gene_variant,,ENST00000362183,;ACADVL,upstream_gene_variant,,ENST00000583074,;ACADVL,downstream_gene_variant,,ENST00000577857,;ACADVL,downstream_gene_variant,,ENST00000581562,;ACADVL,3_prime_UTR_variant,,ENST00000322910,;ACADVL,3_prime_UTR_variant,,ENST00000581378,;ACADVL,non_coding_transcript_exon_variant,,ENST00000582379,;ACADVL,non_coding_transcript_exon_variant,,ENST00000578824,;ACADVL,upstream_gene_variant,,ENST00000583848,;ACADVL,downstream_gene_variant,,ENST00000578421,;ACADVL,upstream_gene_variant,,ENST00000579391,;ACADVL,downstream_gene_variant,,ENST00000579286,;DVL2,downstream_gene_variant,,ENST00000576840,;ACADVL,downstream_gene_variant,,ENST00000580263,;ACADVL,downstream_gene_variant,,ENST00000577191,;ACADVL,upstream_gene_variant,,ENST00000578033,;ACADVL,downstream_gene_variant,,ENST00000578269,;ACADVL,upstream_gene_variant,,ENST00000585203,;ACADVL,upstream_gene_variant,,ENST00000578711,;DVL2,downstream_gene_variant,,ENST00000571745,;ACADVL,downstream_gene_variant,,ENST00000582356,;ACADVL,upstream_gene_variant,,ENST00000582450,;ACADVL,upstream_gene_variant,,ENST00000578319,;ACADVL,upstream_gene_variant,,ENST00000578809,;DVL2,downstream_gene_variant,,ENST00000576285,;ACADVL,downstream_gene_variant,,ENST00000583760,;ACADVL,downstream_gene_variant,,ENST00000577433,;ACADVL,downstream_gene_variant,,ENST00000582166,;ACADVL,upstream_gene_variant,,ENST00000579425,;ACADVL,upstream_gene_variant,,ENST00000583858,;ACADVL,downstream_gene_variant,,ENST00000580365,;ACADVL,upstream_gene_variant,,ENST00000583850,;ACADVL,upstream_gene_variant,,ENST00000579894,;ACADVL,upstream_gene_variant,,ENST00000578579,;ACADVL,downstream_gene_variant,,ENST00000582056,;	G	ENSG00000072778	ENST00000543245	Transcript	stop_gained	1004	983	328	S/*	tCa/tGa	.	.	.	1	ACADVL	HGNC	92	protein_coding	YES	CCDS58509.1	ENSP00000438689	ACADV_HUMAN	B3KPA6_HUMAN	UPI0002064F84	.	.	.	11/21	.	Superfamily_domains:SSF56645,Gene3D:2.40.110.10,hmmpanther:PTHR10909:SF121,hmmpanther:PTHR10909	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTTCAAACA	.	4	BLCA
MYH10	0	.	GRCh37	17	8404169	8404169	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3719C>T	p.Ser1240Leu	p.S1240L	ENST00000360416	29/43	125	77	47	103	103	0	MYH10,missense_variant,p.Ser1230Leu,ENST00000396239,;MYH10,missense_variant,p.Ser1209Leu,ENST00000269243,;MYH10,missense_variant,p.Ser1225Leu,ENST00000379980,;MYH10,missense_variant,p.Ser1240Leu,ENST00000360416,;	A	ENSG00000133026	ENST00000360416	Transcript	missense_variant	3858	3719	1240	S/L	tCa/tTa	.	.	.	-1	MYH10	HGNC	7568	protein_coding	YES	CCDS58515.1	ENSP00000353590	MYH10_HUMAN	Q9UMG3_HUMAN,Q9UE82_HUMAN,Q9BWG0_HUMAN,G1UI33_HUMAN,E7ERA5_HUMAN,D3DTS1_HUMAN	UPI0000E24926	.	.	probably_damaging(0.995)	29/43	.	Pfam_domain:PF01576,hmmpanther:PTHR13140:SF328,hmmpanther:PTHR13140,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTGAGAGC	.	5	BLCA
LAMA3	0	.	GRCh37	18	21407359	21407359	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2751G>A	p.%3D	p.G917G	ENST00000313654	23/75	100	87	13	119	119	0	LAMA3,synonymous_variant,p.%3D,ENST00000313654,;LAMA3,synonymous_variant,p.%3D,ENST00000399516,;LAMA3,upstream_gene_variant,,ENST00000591749,;	A	ENSG00000053747	ENST00000313654	Transcript	synonymous_variant	2992	2751	917	G	ggG/ggA	.	.	.	1	LAMA3	HGNC	6483	protein_coding	YES	CCDS42419.1	ENSP00000324532	LAMA3_HUMAN	B0YJ32_HUMAN	UPI00001C1222	.	.	.	23/75	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF259	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGGGGAGCC	.	4	BLCA
PSMA8	0	.	GRCh37	18	23724622	23724622	+	Missense_Mutation	SNP	G	G	C	rs771239138	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202G>C	p.Asp68His	p.D68H	ENST00000308268	2/7	93	83	10	74	74	0	PSMA8,missense_variant,p.Asp68His,ENST00000308268,;PSMA8,missense_variant,p.Asp68His,ENST00000415576,;PSMA8,intron_variant,,ENST00000343848,;PSMA8,3_prime_UTR_variant,,ENST00000538664,;	C	ENSG00000154611	ENST00000308268	Transcript	missense_variant	291	202	68	D/H	Gat/Cat	rs771239138	.	.	1	PSMA8	HGNC	22985	protein_coding	YES	CCDS32808.1	ENSP00000311121	PSA7L_HUMAN	.	UPI000013ECFF	.	deleterious(0)	probably_damaging(1)	2/7	.	PROSITE_profiles:PS51475,hmmpanther:PTHR11599,hmmpanther:PTHR11599:SF47,Gene3D:3.60.20.10,Pfam_domain:PF00227,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTTGATGAC	.	4	BLCA
CHST9	0	.	GRCh37	18	24497142	24497142	+	Missense_Mutation	SNP	C	C	G	rs781652444	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.413G>C	p.Gly138Ala	p.G138A	ENST00000284224	6/6	212	176	36	233	233	0	CHST9,missense_variant,p.Gly138Ala,ENST00000581714,;CHST9,missense_variant,p.Gly138Ala,ENST00000284224,;CHST9,3_prime_UTR_variant,,ENST00000580774,;AQP4-AS1,intron_variant,,ENST00000578701,;AQP4-AS1,intron_variant,,ENST00000582605,;AQP4-AS1,intron_variant,,ENST00000568797,;AQP4-AS1,intron_variant,,ENST00000579964,;	G	ENSG00000154080	ENST00000284224	Transcript	missense_variant	691	413	138	G/A	gGa/gCa	rs781652444	.	.	-1	CHST9	HGNC	19898	protein_coding	YES	CCDS42422.1	ENSP00000284224	CHST9_HUMAN	.	UPI000006EC67	.	tolerated(0.78)	benign(0.05)	6/6	.	hmmpanther:PTHR12137:SF6,hmmpanther:PTHR12137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGCTCCTTGA	.	4	BLCA
EMILIN2	0	.	GRCh37	18	2891229	2891229	+	Silent	SNP	C	C	T	rs776824246	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1104C>T	p.%3D	p.L368L	ENST00000254528	4/8	56	31	24	45	45	0	EMILIN2,synonymous_variant,p.%3D,ENST00000254528,;	T	ENSG00000132205	ENST00000254528	Transcript	synonymous_variant	1263	1104	368	L	ctC/ctT	rs776824246	.	.	1	EMILIN2	HGNC	19881	protein_coding	YES	CCDS11828.1	ENSP00000254528	EMIL2_HUMAN	.	UPI000013CE3E	.	.	.	4/8	.	hmmpanther:PTHR15427,hmmpanther:PTHR15427:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTCATAGG	byFrequency	5	BLCA
KATNAL2	0	.	GRCh37	18	44627329	44627329	+	Missense_Mutation	SNP	C	C	G	rs769988895	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1354C>G	p.Leu452Val	p.L452V	ENST00000245121	15/15	46	34	12	31	31	0	KATNAL2,missense_variant,p.Leu452Val,ENST00000245121,;KATNAL2,missense_variant,p.Leu524Val,ENST00000356157,;KATNAL2,downstream_gene_variant,,ENST00000588433,;KATNAL2,downstream_gene_variant,,ENST00000592005,;KATNAL2,downstream_gene_variant,,ENST00000591522,;RP11-49K24.8,upstream_gene_variant,,ENST00000591183,;	G	ENSG00000167216	ENST00000245121	Transcript	missense_variant	1548	1354	452	L/V	Ctg/Gtg	rs769988895	.	.	1	KATNAL2	HGNC	25387	protein_coding	YES	CCDS32828.1	ENSP00000245121	KATL2_HUMAN	K7EM02_HUMAN	UPI0000456B8E	.	tolerated(0.07)	possibly_damaging(0.87)	15/15	.	hmmpanther:PTHR23074,hmmpanther:PTHR23074:SF78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCTGGCT	.	5	BLCA
MBD1	0	.	GRCh37	18	47796377	47796377	+	Intron	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1779-189C>T	.	.	ENST00000590208	.	61	56	5	66	66	0	MBD1,3_prime_UTR_variant,,ENST00000339998,;MBD1,3_prime_UTR_variant,,ENST00000591416,;MBD1,intron_variant,,ENST00000588937,;MBD1,intron_variant,,ENST00000587605,;MBD1,intron_variant,,ENST00000269471,;MBD1,intron_variant,,ENST00000589541,;MBD1,intron_variant,,ENST00000585595,;MBD1,intron_variant,,ENST00000347968,;MBD1,intron_variant,,ENST00000269468,;MBD1,intron_variant,,ENST00000592060,;MBD1,intron_variant,,ENST00000590208,;MBD1,intron_variant,,ENST00000585672,;MBD1,intron_variant,,ENST00000436910,;MBD1,intron_variant,,ENST00000353909,;MBD1,intron_variant,,ENST00000349085,;MBD1,intron_variant,,ENST00000382948,;MBD1,intron_variant,,ENST00000424334,;MBD1,downstream_gene_variant,,ENST00000589733,;CCDC11,upstream_gene_variant,,ENST00000398545,;MBD1,downstream_gene_variant,,ENST00000591535,;MBD1,downstream_gene_variant,,ENST00000398495,;MBD1,downstream_gene_variant,,ENST00000398493,;MBD1,downstream_gene_variant,,ENST00000457839,;MBD1,downstream_gene_variant,,ENST00000398488,;MBD1,downstream_gene_variant,,ENST00000586884,;	A	ENSG00000141644	ENST00000590208	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MBD1	HGNC	6916	protein_coding	YES	CCDS59320.1	ENSP00000468785	.	K7ESN0_HUMAN	UPI0001F995B6	.	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCATGAGTCT	.	2	BLCA
ELAC1	0	.	GRCh37	18	48510681	48510681	+	Missense_Mutation	SNP	C	C	T	rs551992289	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.373C>T	p.Pro125Ser	p.P125S	ENST00000269466	3/4	58	25	32	63	63	0	ELAC1,missense_variant,p.Pro125Ser,ENST00000591429,;ELAC1,missense_variant,p.Pro125Ser,ENST00000269466,;SMAD4,intron_variant,,ENST00000452201,;ELAC1,intron_variant,,ENST00000588577,;RP11-729L2.2,intron_variant,,ENST00000588256,;RP11-729L2.2,intron_variant,,ENST00000590722,;	T	ENSG00000141642	ENST00000269466	Transcript	missense_variant	480	373	125	P/S	Cct/Tct	rs551992289,COSM3526296	.	.	1	ELAC1	HGNC	14197	protein_coding	YES	CCDS11949.1	ENSP00000269466	RNZ1_HUMAN	.	UPI000006F39C	.	tolerated(0.12)	benign(0.3)	3/4	.	HAMAP:MF_01818,hmmpanther:PTHR12553,Pfam_domain:PF12706,TIGRFAM_domain:TIGR02651,Superfamily_domains:SSF56281	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCCTACA	by1000G	5	BLCA
LAMA1	0	.	GRCh37	18	6942032	6942032	+	3'UTR	SNP	C	C	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46G>T	.	.	ENST00000389658	63/63	95	74	20	97	97	0	LAMA1,3_prime_UTR_variant,,ENST00000389658,;LAMA1,non_coding_transcript_exon_variant,,ENST00000488064,;LAMA1,non_coding_transcript_exon_variant,,ENST00000492048,;LAMA1,non_coding_transcript_exon_variant,,ENST00000579014,;	A	ENSG00000101680	ENST00000389658	Transcript	3_prime_UTR_variant	9368	.	.	.	.	.	.	.	-1	LAMA1	HGNC	6481	protein_coding	YES	CCDS32787.1	ENSP00000374309	LAMA1_HUMAN	Q7Z5W6_HUMAN,Q6P6D3_HUMAN	UPI00001C1FF9	.	.	.	63/63	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCCTCAA	.	5	BLCA
DNAJB1	0	.	GRCh37	19	14629110	14629110	+	Missense_Mutation	SNP	C	C	T	rs768130288	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52G>A	p.Glu18Lys	p.E18K	ENST00000254322	1/3	48	29	19	24	24	0	DNAJB1,missense_variant,p.Glu18Lys,ENST00000254322,;DNAJB1,intron_variant,,ENST00000594099,;DNAJB1,intron_variant,,ENST00000598692,;DNAJB1,intron_variant,,ENST00000596853,;DNAJB1,intron_variant,,ENST00000596075,;DNAJB1,intron_variant,,ENST00000396969,;DNAJB1,intron_variant,,ENST00000601533,;DNAJB1,intron_variant,,ENST00000595992,;DNAJB1,upstream_gene_variant,,ENST00000598235,;DNAJB1,upstream_gene_variant,,ENST00000595139,;TECR,intron_variant,,ENST00000600076,;	T	ENSG00000132002	ENST00000254322	Transcript	missense_variant	123	52	18	E/K	Gag/Aag	rs768130288,COSM460049	.	.	-1	DNAJB1	HGNC	5270	protein_coding	YES	CCDS12312.1	ENSP00000254322	DNJB1_HUMAN	Q6FHS4_HUMAN,M0R1D6_HUMAN,M0R128_HUMAN,M0R080_HUMAN,M0QZD0_HUMAN,M0QYT3_HUMAN,B4DX52_HUMAN	UPI0000000C3A	.	deleterious(0.04)	possibly_damaging(0.686)	1/3	.	PROSITE_profiles:PS50076,hmmpanther:PTHR24077:SF207,hmmpanther:PTHR24077,Gene3D:1.10.287.110,Pfam_domain:PF00226,SMART_domains:SM00271,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCGTCCG	.	5	BLCA
OR7C1	0	.	GRCh37	19	14910903	14910903	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46G>T	p.Gly16Ter	p.G16*	ENST00000248073	1/1	157	103	54	123	123	0	OR7C1,stop_gained,p.Gly16Ter,ENST00000248073,;OR7A5,intron_variant,,ENST00000601611,;OR7A5,downstream_gene_variant,,ENST00000599549,;OR7A5,downstream_gene_variant,,ENST00000595922,;	A	ENSG00000127530	ENST00000248073	Transcript	stop_gained	121	46	16	G/*	Gga/Tga	.	.	.	-1	OR7C1	HGNC	8373	protein_coding	YES	CCDS12317.1	ENSP00000248073	OR7C1_HUMAN	.	UPI0000130B4C	.	.	.	1/1	.	hmmpanther:PTHR26451:SF24,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATCCCAGGA	.	5	BLCA
SUGP2	0	.	GRCh37	19	19115047	19115047	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2859C>T	p.%3D	p.I953I	ENST00000601879	7/10	67	60	7	58	58	0	SUGP2,synonymous_variant,p.%3D,ENST00000452918,;SUGP2,synonymous_variant,p.%3D,ENST00000337018,;SUGP2,synonymous_variant,p.%3D,ENST00000601879,;SUGP2,synonymous_variant,p.%3D,ENST00000456085,;SUGP2,synonymous_variant,p.%3D,ENST00000600377,;SUGP2,synonymous_variant,p.%3D,ENST00000330854,;SUGP2,synonymous_variant,p.%3D,ENST00000594773,;SUGP2,synonymous_variant,p.%3D,ENST00000597280,;SUGP2,3_prime_UTR_variant,,ENST00000598240,;SUGP2,3_prime_UTR_variant,,ENST00000600239,;SUGP2,upstream_gene_variant,,ENST00000593795,;	A	ENSG00000064607	ENST00000601879	Transcript	synonymous_variant	3157	2859	953	I	atC/atT	.	.	.	-1	SUGP2	HGNC	18641	protein_coding	YES	CCDS12392.1	ENSP00000472286	SUGP2_HUMAN	M0R065_HUMAN	UPI000019825D	.	.	.	7/10	.	hmmpanther:PTHR23340:SF2,hmmpanther:PTHR23340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTGATCCT	.	4	BLCA
ZNF585B	0	.	GRCh37	19	37678028	37678028	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411G>A	p.%3D	p.K137K	ENST00000532828	5/5	112	100	11	86	86	0	ZNF585B,synonymous_variant,p.%3D,ENST00000591492,;ZNF585B,synonymous_variant,p.%3D,ENST00000531805,;ZNF585B,synonymous_variant,p.%3D,ENST00000527838,;ZNF585B,synonymous_variant,p.%3D,ENST00000532828,;ZNF585B,5_prime_UTR_variant,,ENST00000312908,;CTC-454I21.3,intron_variant,,ENST00000588873,;ZNF585B,downstream_gene_variant,,ENST00000586320,;CTC-454I21.3,intron_variant,,ENST00000585860,;CTC-454I21.3,intron_variant,,ENST00000590245,;ZNF585B,downstream_gene_variant,,ENST00000591273,;ZNF585B,downstream_gene_variant,,ENST00000392156,;ZNF585B,downstream_gene_variant,,ENST00000526705,;	T	ENSG00000245680	ENST00000532828	Transcript	synonymous_variant	663	411	137	K	aaG/aaA	.	.	.	-1	ZNF585B	HGNC	30948	protein_coding	YES	CCDS12500.1	ENSP00000433773	Z585B_HUMAN	E9PQH3_HUMAN,B3KRH5_HUMAN	UPI00001AF01B	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF105,hmmpanther:PTHR24377,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTTTCC	.	4	BLCA
MAP2K2	0	.	GRCh37	19	4110556	4110556	+	Missense_Mutation	SNP	T	T	C	rs727504370	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401A>G	p.Tyr134Cys	p.Y134C	ENST00000262948	3/11	52	43	9	45	45	0	MAP2K2,missense_variant,p.Tyr37Cys,ENST00000394867,;MAP2K2,missense_variant,p.Tyr134Cys,ENST00000262948,;MAP2K2,non_coding_transcript_exon_variant,,ENST00000599345,;	C	ENSG00000126934	ENST00000262948	Transcript	missense_variant	655	401	134	Y/C	tAc/tGc	CM086854,rs727504370,COSM1644764,COSM1644765	.	.	-1	MAP2K2	HGNC	6842	protein_coding	YES	CCDS12120.1	ENSP00000262948	MP2K2_HUMAN	G5E9C7_HUMAN,B3KS97_HUMAN	UPI000012F489	.	deleterious(0)	probably_damaging(0.999)	3/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24360,hmmpanther:PTHR24360:SF15,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	likely_pathogenic	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCGTAGAAG	.	4	BLCA
TRPM4	0	.	GRCh37	19	49674873	49674873	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.897C>T	p.%3D	p.L299L	ENST00000252826	8/25	39	28	11	28	28	0	TRPM4,synonymous_variant,p.%3D,ENST00000355712,;TRPM4,synonymous_variant,p.%3D,ENST00000427978,;TRPM4,synonymous_variant,p.%3D,ENST00000252826,;TRPM4,downstream_gene_variant,,ENST00000598691,;TRPM4,non_coding_transcript_exon_variant,,ENST00000601347,;TRPM4,3_prime_UTR_variant,,ENST00000595519,;TRPM4,3_prime_UTR_variant,,ENST00000598502,;TRPM4,3_prime_UTR_variant,,ENST00000598697,;TRPM4,non_coding_transcript_exon_variant,,ENST00000596338,;TRPM4,downstream_gene_variant,,ENST00000594568,;	T	ENSG00000130529	ENST00000252826	Transcript	synonymous_variant	1023	897	299	L	ctC/ctT	.	.	.	1	TRPM4	HGNC	17993	protein_coding	YES	CCDS33073.1	ENSP00000252826	TRPM4_HUMAN	.	UPI0000070598	.	.	.	8/25	.	hmmpanther:PTHR13800:SF6,hmmpanther:PTHR13800	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCCTCGT	.	5	BLCA
KLK1	0	.	GRCh37	19	51323215	51323215	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.573G>A	p.%3D	p.Q191Q	ENST00000301420	4/5	41	35	6	48	48	0	KLK1,synonymous_variant,p.%3D,ENST00000301420,;KLK1,synonymous_variant,p.%3D,ENST00000448701,;CTD-2568A17.5,downstream_gene_variant,,ENST00000326989,;CTD-2568A17.5,downstream_gene_variant,,ENST00000593632,;KLK1,3_prime_UTR_variant,,ENST00000593325,;KLK1,non_coding_transcript_exon_variant,,ENST00000593859,;KLK1,non_coding_transcript_exon_variant,,ENST00000596300,;	T	ENSG00000167748	ENST00000301420	Transcript	synonymous_variant	609	573	191	Q	caG/caA	.	.	.	-1	KLK1	HGNC	6357	protein_coding	YES	CCDS12804.1	ENSP00000301420	KLK1_HUMAN	Q9UE84_HUMAN,F8WAM8_HUMAN	UPI000004CA0D	.	.	.	4/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24275:SF14,hmmpanther:PTHR24275,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCTTCTGGAC	.	3	BLCA
FBN3	0	.	GRCh37	19	8160256	8160256	+	Intron	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5785+3G>A	.	.	ENST00000600128	.	34	30	4	34	34	0	FBN3,splice_region_variant,,ENST00000600128,;FBN3,splice_region_variant,,ENST00000601739,;FBN3,splice_region_variant,,ENST00000270509,;FBN3,downstream_gene_variant,,ENST00000602121,;	T	ENSG00000142449	ENST00000600128	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	FBN3	HGNC	18794	protein_coding	YES	CCDS12196.1	ENSP00000470498	FBN3_HUMAN	.	UPI000013D88F	.	.	.	.	46/63	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	AGACTCACCCA	.	2	BLCA
MUC16	0	.	GRCh37	19	9061902	9061902	+	Missense_Mutation	SNP	G	G	A	rs768891925	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25544C>T	p.Ser8515Leu	p.S8515L	ENST00000397910	3/84	112	83	29	100	100	0	MUC16,missense_variant,p.Ser8515Leu,ENST00000397910,;	A	ENSG00000181143	ENST00000397910	Transcript	missense_variant	25748	25544	8515	S/L	tCa/tTa	rs768891925	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	3/84	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTTGAGGTG	.	5	BLCA
C1orf158	0	.	GRCh37	1	12819368	12819368	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351G>A	p.Trp117Ter	p.W117*	ENST00000288048	3/4	87	47	40	80	80	0	C1orf158,stop_gained,p.Trp79Ter,ENST00000376210,;C1orf158,stop_gained,p.Trp117Ter,ENST00000288048,;	A	ENSG00000157330	ENST00000288048	Transcript	stop_gained	567	351	117	W/*	tgG/tgA	.	.	.	1	C1orf158	HGNC	28567	protein_coding	YES	CCDS147.1	ENSP00000288048	CA158_HUMAN	.	UPI000013DEE6	.	.	.	3/4	.	hmmpanther:PTHR31180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R115H|c.344G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTGGAATGG	.	5	BLCA
ZBTB7B	0	.	GRCh37	1	154988201	154988201	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168delC	p.His390MetfsTer10	p.H390Mfs*10	ENST00000417934	4/5	95	68	27	65	65	0	ZBTB7B,frameshift_variant,p.His356MetfsTer10,ENST00000535420,;ZBTB7B,frameshift_variant,p.His356MetfsTer10,ENST00000368426,;ZBTB7B,frameshift_variant,p.His356MetfsTer10,ENST00000292176,;ZBTB7B,frameshift_variant,p.His390MetfsTer10,ENST00000417934,;DCST2,downstream_gene_variant,,ENST00000368424,;ZBTB7B,downstream_gene_variant,,ENST00000461530,;ZBTB7B,downstream_gene_variant,,ENST00000483226,;ZBTB7B,downstream_gene_variant,,ENST00000487542,;DCST2,downstream_gene_variant,,ENST00000485982,;DCST2,downstream_gene_variant,,ENST00000368423,;DCST2,downstream_gene_variant,,ENST00000467991,;	-	ENSG00000160685	ENST00000417934	Transcript	frameshift_variant	1436	1167	389	I/X	atC/at	.	.	.	1	ZBTB7B	HGNC	18668	protein_coding	YES	CCDS58030.1	ENSP00000406286	ZBT7B_HUMAN	.	UPI0001A5EB6F	.	.	.	4/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF129,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GATCATCCATGG	.	3	BLCA
ZBTB17	0	.	GRCh37	1	16268613	16268613	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2263C>G	p.Gln755Glu	p.Q755E	ENST00000375743	16/16	59	55	4	57	57	0	ZBTB17,missense_variant,p.Gln755Glu,ENST00000375743,;ZBTB17,missense_variant,p.Gln762Glu,ENST00000375733,;ZBTB17,missense_variant,p.Gln673Glu,ENST00000537142,;ZBTB17,missense_variant,p.Gln162Glu,ENST00000440560,;SPEN,downstream_gene_variant,,ENST00000375759,;ZBTB17,downstream_gene_variant,,ENST00000448462,;ZBTB17,downstream_gene_variant,,ENST00000444358,;ZBTB17,non_coding_transcript_exon_variant,,ENST00000462525,;ZBTB17,downstream_gene_variant,,ENST00000474511,;ZBTB17,downstream_gene_variant,,ENST00000488008,;ZBTB17,downstream_gene_variant,,ENST00000472658,;ZBTB17,downstream_gene_variant,,ENST00000471805,;ZBTB17,downstream_gene_variant,,ENST00000479282,;ZBTB17,downstream_gene_variant,,ENST00000464719,;SPEN,downstream_gene_variant,,ENST00000487496,;ZBTB17,downstream_gene_variant,,ENST00000490899,;ZBTB17,downstream_gene_variant,,ENST00000487785,;ZBTB17,downstream_gene_variant,,ENST00000494020,;ZBTB17,downstream_gene_variant,,ENST00000492834,;	C	ENSG00000116809	ENST00000375743	Transcript	missense_variant	2496	2263	755	Q/E	Cag/Gag	.	.	.	-1	ZBTB17	HGNC	12936	protein_coding	YES	CCDS165.1	ENSP00000364895	ZBT17_HUMAN	.	UPI000013C9D2	.	deleterious(0)	possibly_damaging(0.68)	16/16	.	hmmpanther:PTHR24402:SF165,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTGATAGA	.	2	BLCA
RPS6KC1	0	.	GRCh37	1	213341296	213341296	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931C>G	p.Gln311Glu	p.Q311E	ENST00000366960	7/15	72	53	19	68	68	0	RPS6KC1,missense_variant,p.Gln299Glu,ENST00000366959,;RPS6KC1,missense_variant,p.Gln311Glu,ENST00000366960,;RPS6KC1,missense_variant,p.Gln14Glu,ENST00000543354,;RPS6KC1,missense_variant,p.Gln130Glu,ENST00000543470,;RPS6KC1,non_coding_transcript_exon_variant,,ENST00000490299,;RPS6KC1,non_coding_transcript_exon_variant,,ENST00000468069,;	G	ENSG00000136643	ENST00000366960	Transcript	missense_variant	1081	931	311	Q/E	Cag/Gag	.	.	.	1	RPS6KC1	HGNC	10439	protein_coding	YES	CCDS1513.1	ENSP00000355927	KS6C1_HUMAN	.	UPI0000071B8C	.	tolerated(0.22)	benign(0.103)	7/15	.	Superfamily_domains:SSF116846,SMART_domains:SM00745,Gene3D:1.20.58.280,hmmpanther:PTHR15508:SF2,hmmpanther:PTHR15508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCTCAGCTT	.	5	BLCA
C1orf131	0	.	GRCh37	1	231376885	231376885	+	Translation_Start_Site	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000366649	1/7	66	50	16	64	64	0	C1orf131,start_lost,p.Met1?,ENST00000366649,;C1orf131,start_lost,p.Met1?,ENST00000366651,;C1orf131,start_lost,p.Met1?,ENST00000318906,;GNPAT,upstream_gene_variant,,ENST00000366646,;GNPAT,upstream_gene_variant,,ENST00000416000,;GNPAT,upstream_gene_variant,,ENST00000436239,;C1orf131,upstream_gene_variant,,ENST00000451322,;GNPAT,upstream_gene_variant,,ENST00000366647,;C1orf131,non_coding_transcript_exon_variant,,ENST00000471936,;C1orf131,upstream_gene_variant,,ENST00000486384,;	T	ENSG00000143633	ENST00000366649	Transcript	start_lost	29	3	1	M/I	atG/atA	.	.	.	-1	C1orf131	HGNC	25332	protein_coding	YES	CCDS1591.2	ENSP00000355609	CA131_HUMAN	Q5TBH9_HUMAN	UPI000013E1F8	.	tolerated_low_confidence(0.13)	benign(0.004)	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTCATTCT	.	5	BLCA
RYR2	0	.	GRCh37	1	237838083	237838083	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8767T>A	p.Tyr2923Asn	p.Y2923N	ENST00000366574	60/105	29	19	9	24	24	0	RYR2,missense_variant,p.Tyr2907Asn,ENST00000542537,;RYR2,missense_variant,p.Tyr2923Asn,ENST00000366574,;RYR2,missense_variant,p.Tyr2921Asn,ENST00000360064,;RYR2,non_coding_transcript_exon_variant,,ENST00000609119,;	A	ENSG00000198626	ENST00000366574	Transcript	missense_variant	9084	8767	2923	Y/N	Tat/Aat	.	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	probably_damaging(0.949)	60/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCCTATAGT	.	5	BLCA
ZNF695	0	.	GRCh37	1	247151032	247151032	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.785A>T	p.His262Leu	p.H262L	ENST00000339986	4/4	24	15	9	27	27	0	ZNF695,missense_variant,p.His262Leu,ENST00000339986,;ZNF695,intron_variant,,ENST00000487338,;ZNF695,intron_variant,,ENST00000498046,;ZNF695,intron_variant,,ENST00000366504,;ZNF695,intron_variant,,ENST00000479214,;ZNF670,intron_variant,,ENST00000474541,;ZNF695,intron_variant,,ENST00000491337,;ZNF670,intron_variant,,ENST00000465049,;	A	ENSG00000197472	ENST00000339986	Transcript	missense_variant	933	785	262	H/L	cAt/cTt	.	.	.	-1	ZNF695	HGNC	30954	protein_coding	YES	CCDS44344.1	ENSP00000341236	ZN695_HUMAN	.	UPI0000F734A8	.	deleterious(0)	benign(0.04)	4/4	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF119,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTATGATTT	.	5	BLCA
PTPRU	0	.	GRCh37	1	29586013	29586013	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.612G>C	p.Gln204His	p.Q204H	ENST00000345512	5/31	28	24	4	33	33	0	PTPRU,missense_variant,p.Gln204His,ENST00000323874,;PTPRU,missense_variant,p.Gln204His,ENST00000373779,;PTPRU,missense_variant,p.Gln204His,ENST00000356870,;PTPRU,missense_variant,p.Gln204His,ENST00000428026,;PTPRU,missense_variant,p.Gln204His,ENST00000345512,;PTPRU,missense_variant,p.Gln204His,ENST00000460170,;PTPRU,upstream_gene_variant,,ENST00000527027,;	C	ENSG00000060656	ENST00000345512	Transcript	missense_variant	741	612	204	Q/H	caG/caC	.	.	.	1	PTPRU	HGNC	9683	protein_coding	YES	CCDS334.1	ENSP00000334941	PTPRU_HUMAN	B3KT29_HUMAN	UPI000013C57E	.	deleterious(0)	possibly_damaging(0.818)	5/31	.	hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF207,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GGCCAGAACGC	.	2	BLCA
ZMYM6	0	.	GRCh37	1	35478084	35478084	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894C>G	p.Phe298Leu	p.F298L	ENST00000357182	7/16	49	45	4	41	41	0	ZMYM6,missense_variant,p.Phe298Leu,ENST00000357182,;ZMYM6,missense_variant,p.Phe298Leu,ENST00000373340,;ZMYM6,downstream_gene_variant,,ENST00000415531,;ZMYM6,downstream_gene_variant,,ENST00000317538,;ZMYM6,non_coding_transcript_exon_variant,,ENST00000493328,;ZMYM6,downstream_gene_variant,,ENST00000460607,;ZMYM6,upstream_gene_variant,,ENST00000466345,;ZMYM6,upstream_gene_variant,,ENST00000472971,;RP11-244H3.4,missense_variant,p.Phe298Leu,ENST00000487874,;	C	ENSG00000163867	ENST00000357182	Transcript	missense_variant	1122	894	298	F/L	ttC/ttG	.	.	.	-1	ZMYM6	HGNC	13050	protein_coding	YES	CCDS387.2	ENSP00000349708	ZMYM6_HUMAN	Q7L9K1_HUMAN,A4Z946_HUMAN	UPI000040EBC6	.	deleterious(0.01)	probably_damaging(0.993)	7/16	.	hmmpanther:PTHR11697:SF92,hmmpanther:PTHR11697,SMART_domains:SM00746	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGCAGAAAAG	.	3	BLCA
TP73-AS1	0	.	GRCh37	1	3662658	3662658	+	RNA	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1229C>T	.	.	ENST00000452079	1/4	86	80	6	95	95	0	TP73-AS1,non_coding_transcript_exon_variant,,ENST00000418088,;TP73-AS1,non_coding_transcript_exon_variant,,ENST00000544565,;TP73-AS1,non_coding_transcript_exon_variant,,ENST00000423764,;TP73-AS1,non_coding_transcript_exon_variant,,ENST00000452079,;TP73-AS1,upstream_gene_variant,,ENST00000587071,;TP73-AS1,upstream_gene_variant,,ENST00000608600,;	A	ENSG00000227372	ENST00000452079	Transcript	non_coding_transcript_exon_variant	1229	.	.	.	.	.	.	.	-1	TP73-AS1	HGNC	29052	antisense	YES	.	.	.	.	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTGAGAGA	.	2	BLCA
LRRC47	0	.	GRCh37	1	3699310	3699310	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1328A>C	p.Asp443Ala	p.D443A	ENST00000378251	5/7	98	92	6	94	94	0	LRRC47,missense_variant,p.Asp443Ala,ENST00000378251,;RP1-286D6.5,upstream_gene_variant,,ENST00000607459,;RN7SL574P,upstream_gene_variant,,ENST00000581512,;LRRC47,3_prime_UTR_variant,,ENST00000479239,;LRRC47,non_coding_transcript_exon_variant,,ENST00000462356,;	G	ENSG00000130764	ENST00000378251	Transcript	missense_variant	1356	1328	443	D/A	gAt/gCt	.	.	.	-1	LRRC47	HGNC	29207	protein_coding	YES	CCDS51.1	ENSP00000367498	LRC47_HUMAN	.	UPI000006DEDC	.	deleterious(0.01)	possibly_damaging(0.549)	5/7	.	hmmpanther:PTHR10947:SF2,hmmpanther:PTHR10947,Pfam_domain:PF03483,SMART_domains:SM00873	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCATCCAGC	.	2	BLCA
ZZZ3	0	.	GRCh37	1	78097617	78097617	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1423C>G	p.Gln475Glu	p.Q475E	ENST00000370801	5/15	120	85	34	92	92	0	ZZZ3,missense_variant,p.Gln475Glu,ENST00000370801,;ZZZ3,intron_variant,,ENST00000370798,;ZZZ3,downstream_gene_variant,,ENST00000433749,;ZZZ3,downstream_gene_variant,,ENST00000414381,;ZZZ3,non_coding_transcript_exon_variant,,ENST00000476275,;ZZZ3,downstream_gene_variant,,ENST00000463166,;ZZZ3,upstream_gene_variant,,ENST00000481346,;	C	ENSG00000036549	ENST00000370801	Transcript	missense_variant	1899	1423	475	Q/E	Cag/Gag	.	.	.	-1	ZZZ3	HGNC	24523	protein_coding	YES	CCDS677.1	ENSP00000359837	ZZZ3_HUMAN	C9JUA4_HUMAN,C9J283_HUMAN	UPI0000074256	.	tolerated(1)	benign(0.011)	5/15	.	hmmpanther:PTHR22705	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTGACTGG	.	5	BLCA
DPYD	0	.	GRCh37	1	98205966	98205966	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.303C>T	p.%3D	p.I101I	ENST00000370192	4/23	99	64	35	121	121	0	DPYD,synonymous_variant,p.%3D,ENST00000423006,;DPYD,synonymous_variant,p.%3D,ENST00000306031,;DPYD,synonymous_variant,p.%3D,ENST00000370192,;	A	ENSG00000188641	ENST00000370192	Transcript	synonymous_variant	404	303	101	I	atC/atT	.	.	.	-1	DPYD	HGNC	3012	protein_coding	YES	CCDS30777.1	ENSP00000359211	DPYD_HUMAN	.	UPI0000458949	.	.	.	4/23	.	hmmpanther:PTHR11938,hmmpanther:PTHR11938:SF5,Gene3D:1.10.1060.10,Pfam_domain:PF14691,Superfamily_domains:SSF46548	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGTGATGAA	.	5	BLCA
JAG1	0	.	GRCh37	20	10629302	10629302	+	Silent	SNP	G	G	T	rs374629171	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1464C>A	p.%3D	p.I488I	ENST00000254958	12/26	46	29	17	66	66	0	JAG1,synonymous_variant,p.%3D,ENST00000423891,;JAG1,synonymous_variant,p.%3D,ENST00000254958,;JAG1,upstream_gene_variant,,ENST00000488480,;	T	ENSG00000101384	ENST00000254958	Transcript	synonymous_variant	1980	1464	488	I	atC/atA	rs374629171,COSM1410343,COSM1410342	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	.	.	12/26	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,SMART_domains:SM00179,Superfamily_domains:SSF57184,Prints_domain:PR00010	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATCGATGTC	byFrequency|byCluster	5	BLCA
CSTL1	0	.	GRCh37	20	23424606	23424606	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255G>C	p.Lys85Asn	p.K85N	ENST00000347397	3/4	46	39	7	36	36	0	CSTL1,missense_variant,p.Lys85Asn,ENST00000246020,;CSTL1,missense_variant,p.Lys85Asn,ENST00000347397,;CSTL1,downstream_gene_variant,,ENST00000485969,;CSTL1,downstream_gene_variant,,ENST00000472140,;	C	ENSG00000125823	ENST00000347397	Transcript	missense_variant	501	255	85	K/N	aaG/aaC	.	.	.	1	CSTL1	HGNC	15958	protein_coding	YES	CCDS13153.1	ENSP00000344907	CST1L_HUMAN	.	UPI000003E836	.	deleterious(0.01)	probably_damaging(0.962)	3/4	.	hmmpanther:PTHR11413,hmmpanther:PTHR11413:SF9,Pfam_domain:PF00031,Gene3D:3.10.450.10,SMART_domains:SM00043,Superfamily_domains:SSF54403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGAAGATTGG	.	5	BLCA
NOP56	0	.	GRCh37	20	2638639	2638639	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1484G>C	p.Gly495Ala	p.G495A	ENST00000329276	12/12	126	103	22	116	116	0	NOP56,missense_variant,p.Gly495Ala,ENST00000329276,;NOP56,downstream_gene_variant,,ENST00000445139,;IDH3B,downstream_gene_variant,,ENST00000380851,;IDH3B,downstream_gene_variant,,ENST00000380843,;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,;SNORD110,downstream_gene_variant,,ENST00000408189,;SNORA51,downstream_gene_variant,,ENST00000606420,;SNORD57,downstream_gene_variant,,ENST00000448188,;SNORD56,downstream_gene_variant,,ENST00000413522,;NOP56,non_coding_transcript_exon_variant,,ENST00000467857,;NOP56,non_coding_transcript_exon_variant,,ENST00000466447,;NOP56,non_coding_transcript_exon_variant,,ENST00000492135,;NOP56,non_coding_transcript_exon_variant,,ENST00000462630,;IDH3B,downstream_gene_variant,,ENST00000474315,;IDH3B,downstream_gene_variant,,ENST00000462967,;NOP56,downstream_gene_variant,,ENST00000480992,;IDH3B,downstream_gene_variant,,ENST00000491065,;IDH3B,downstream_gene_variant,,ENST00000492240,;NOP56,downstream_gene_variant,,ENST00000480447,;IDH3B,downstream_gene_variant,,ENST00000488299,;NOP56,downstream_gene_variant,,ENST00000471023,;IDH3B,downstream_gene_variant,,ENST00000466999,;NOP56,downstream_gene_variant,,ENST00000484998,;NOP56,downstream_gene_variant,,ENST00000470143,;IDH3B,downstream_gene_variant,,ENST00000477689,;NOP56,downstream_gene_variant,,ENST00000496775,;NOP56,downstream_gene_variant,,ENST00000490753,;NOP56,downstream_gene_variant,,ENST00000494697,;NOP56,downstream_gene_variant,,ENST00000460258,;IDH3B,downstream_gene_variant,,ENST00000466494,;NOP56,downstream_gene_variant,,ENST00000469588,;IDH3B,downstream_gene_variant,,ENST00000479376,;NOP56,3_prime_UTR_variant,,ENST00000467196,;	C	ENSG00000101361	ENST00000329276	Transcript	missense_variant	2000	1484	495	G/A	gGa/gCa	.	.	.	1	NOP56	HGNC	15911	protein_coding	YES	CCDS13030.1	ENSP00000370589	NOP56_HUMAN	Q9BSN3_HUMAN	UPI000016A81D	.	tolerated(0.37)	possibly_damaging(0.794)	12/12	.	hmmpanther:PTHR10894:SF0,hmmpanther:PTHR10894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATGGAATGG	.	5	BLCA
NOP56	0	.	GRCh37	20	2638826	2638826	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1671G>C	p.Lys557Asn	p.K557N	ENST00000329276	12/12	18	13	5	13	13	0	NOP56,missense_variant,p.Lys557Asn,ENST00000329276,;NOP56,downstream_gene_variant,,ENST00000445139,;IDH3B,downstream_gene_variant,,ENST00000380851,;IDH3B,downstream_gene_variant,,ENST00000380843,;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,;SNORD110,downstream_gene_variant,,ENST00000408189,;SNORA51,downstream_gene_variant,,ENST00000606420,;SNORD57,downstream_gene_variant,,ENST00000448188,;SNORD56,downstream_gene_variant,,ENST00000413522,;NOP56,non_coding_transcript_exon_variant,,ENST00000467857,;NOP56,non_coding_transcript_exon_variant,,ENST00000466447,;NOP56,non_coding_transcript_exon_variant,,ENST00000492135,;NOP56,non_coding_transcript_exon_variant,,ENST00000462630,;IDH3B,downstream_gene_variant,,ENST00000474315,;IDH3B,downstream_gene_variant,,ENST00000462967,;NOP56,downstream_gene_variant,,ENST00000480992,;IDH3B,downstream_gene_variant,,ENST00000491065,;IDH3B,downstream_gene_variant,,ENST00000492240,;NOP56,downstream_gene_variant,,ENST00000480447,;IDH3B,downstream_gene_variant,,ENST00000488299,;NOP56,downstream_gene_variant,,ENST00000471023,;IDH3B,downstream_gene_variant,,ENST00000466999,;NOP56,downstream_gene_variant,,ENST00000484998,;NOP56,downstream_gene_variant,,ENST00000470143,;IDH3B,downstream_gene_variant,,ENST00000477689,;NOP56,downstream_gene_variant,,ENST00000496775,;NOP56,downstream_gene_variant,,ENST00000490753,;NOP56,downstream_gene_variant,,ENST00000494697,;NOP56,downstream_gene_variant,,ENST00000460258,;IDH3B,downstream_gene_variant,,ENST00000466494,;NOP56,downstream_gene_variant,,ENST00000469588,;IDH3B,downstream_gene_variant,,ENST00000479376,;NOP56,3_prime_UTR_variant,,ENST00000467196,;	C	ENSG00000101361	ENST00000329276	Transcript	missense_variant	2187	1671	557	K/N	aaG/aaC	.	.	.	1	NOP56	HGNC	15911	protein_coding	YES	CCDS13030.1	ENSP00000370589	NOP56_HUMAN	Q9BSN3_HUMAN	UPI000016A81D	.	deleterious_low_confidence(0)	benign(0.403)	12/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10894:SF0,hmmpanther:PTHR10894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAAGAAAAA	.	5	BLCA
MAVS	0	.	GRCh37	20	3846494	3846494	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1323C>T	p.%3D	p.I441I	ENST00000428216	7/7	68	60	7	55	55	0	MAVS,synonymous_variant,p.%3D,ENST00000416600,;MAVS,synonymous_variant,p.%3D,ENST00000428216,;MAVS,3_prime_UTR_variant,,ENST00000358134,;	T	ENSG00000088888	ENST00000428216	Transcript	synonymous_variant	1451	1323	441	I	atC/atT	.	.	.	1	MAVS	HGNC	29233	protein_coding	YES	CCDS33437.1	ENSP00000401980	MAVS_HUMAN	M1P2Z0_HUMAN	UPI000015F983	.	.	.	7/7	.	hmmpanther:PTHR21446:SF3,hmmpanther:PTHR21446	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATCAGTGC	.	4	BLCA
PTPRT	0	.	GRCh37	20	40980878	40980878	+	Silent	SNP	C	C	T	rs377232017	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1608G>A	p.%3D	p.S536S	ENST00000373187	10/31	77	41	36	69	69	0	PTPRT,synonymous_variant,p.%3D,ENST00000373201,;PTPRT,synonymous_variant,p.%3D,ENST00000356100,;PTPRT,synonymous_variant,p.%3D,ENST00000373198,;PTPRT,synonymous_variant,p.%3D,ENST00000373193,;PTPRT,synonymous_variant,p.%3D,ENST00000373184,;PTPRT,synonymous_variant,p.%3D,ENST00000373190,;PTPRT,synonymous_variant,p.%3D,ENST00000373187,;	T	ENSG00000196090	ENST00000373187	Transcript	synonymous_variant	1608	1608	536	S	tcG/tcA	rs377232017,COSM3770803,COSM3770804	.	.	-1	PTPRT	HGNC	9682	protein_coding	YES	CCDS42874.1	ENSP00000362283	PTPRT_HUMAN	.	UPI0000246C03	.	.	.	10/31	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF208,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTCGAGAG	byCluster|by1000G	5	BLCA
STAU1	0	.	GRCh37	20	47770604	47770604	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210C>G	p.Ser70Arg	p.S70R	ENST00000371856	4/14	91	85	6	60	60	0	STAU1,missense_variant,p.Ser70Arg,ENST00000371856,;STAU1,missense_variant,p.Ser29Arg,ENST00000456866,;STAU1,5_prime_UTR_variant,,ENST00000371828,;STAU1,5_prime_UTR_variant,,ENST00000371802,;STAU1,5_prime_UTR_variant,,ENST00000347458,;STAU1,5_prime_UTR_variant,,ENST00000360426,;STAU1,5_prime_UTR_variant,,ENST00000340954,;STAU1,5_prime_UTR_variant,,ENST00000371792,;STAU1,5_prime_UTR_variant,,ENST00000437404,;	C	ENSG00000124214	ENST00000371856	Transcript	missense_variant	621	210	70	S/R	agC/agG	.	.	.	-1	STAU1	HGNC	11370	protein_coding	YES	CCDS13414.1	ENSP00000360922	STAU1_HUMAN	Q59F99_HUMAN,B3KRE0_HUMAN	UPI000013CB53	.	deleterious(0.01)	benign(0.005)	4/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10910:SF59,hmmpanther:PTHR10910,Gene3D:3.30.160.20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTATGCTTTC	.	2	BLCA
EDN3	0	.	GRCh37	20	57876522	57876522	+	Missense_Mutation	SNP	C	C	G	rs779215514	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.110C>G	p.Pro37Arg	p.P37R	ENST00000337938	2/5	45	28	16	32	32	0	EDN3,missense_variant,p.Pro37Arg,ENST00000371028,;EDN3,missense_variant,p.Pro37Arg,ENST00000337938,;EDN3,missense_variant,p.Pro37Arg,ENST00000311585,;EDN3,missense_variant,p.Pro37Arg,ENST00000395654,;EDN3,missense_variant,p.Pro37Arg,ENST00000371025,;	G	ENSG00000124205	ENST00000337938	Transcript	missense_variant	496	110	37	P/R	cCc/cGc	rs779215514	.	.	1	EDN3	HGNC	3178	protein_coding	YES	CCDS13477.1	ENSP00000337128	EDN3_HUMAN	Q6LDQ8_HUMAN	UPI000012A221	.	tolerated(0.1)	benign(0.132)	2/5	.	hmmpanther:PTHR13874:SF6,hmmpanther:PTHR13874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCCCCACTG	byFrequency	5	BLCA
ABCG1	0	.	GRCh37	21	43714663	43714663	+	Silent	SNP	C	C	T	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1701C>T	p.%3D	p.F567F	ENST00000361802	14/15	45	40	5	50	50	0	ABCG1,synonymous_variant,p.%3D,ENST00000398437,;ABCG1,synonymous_variant,p.%3D,ENST00000343687,;ABCG1,synonymous_variant,p.%3D,ENST00000340588,;ABCG1,synonymous_variant,p.%3D,ENST00000361802,;ABCG1,synonymous_variant,p.%3D,ENST00000347800,;ABCG1,synonymous_variant,p.%3D,ENST00000398457,;ABCG1,synonymous_variant,p.%3D,ENST00000398449,;ABCG1,non_coding_transcript_exon_variant,,ENST00000462050,;ABCG1,non_coding_transcript_exon_variant,,ENST00000472587,;ABCG1,non_coding_transcript_exon_variant,,ENST00000496783,;	T	ENSG00000160179	ENST00000361802	Transcript	synonymous_variant	1846	1701	567	F	ttC/ttT	COSM1031033,COSM3841974,COSM1031034	.	.	1	ABCG1	HGNC	73	protein_coding	YES	CCDS13682.1	ENSP00000354995	ABCG1_HUMAN	O43576_HUMAN	UPI0000125130	.	.	.	14/15	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR19241:SF177,hmmpanther:PTHR19241,TIGRFAM_domain:TIGR00955,Pfam_domain:PF01061	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTTTCGTGGG	.	4	BLCA
IGLV1-36	0	.	GRCh37	22	22786533	22786533	+	Missense_Mutation	SNP	C	C	T	rs546512166	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83C>T	p.Ser28Leu	p.S28L	ENST00000390301	2/2	85	79	6	87	87	0	IGLV1-36,missense_variant,p.Ser28Leu,ENST00000390301,;IGLV5-37,downstream_gene_variant,,ENST00000390300,;	T	ENSG00000211655	ENST00000390301	Transcript	missense_variant	123	83	28	S/L	tCg/tTg	rs546512166	.	.	1	IGLV1-36	HGNC	5876	IG_V_gene	YES	.	ENSP00000374836	.	Q5NV70_HUMAN	UPI000011717F	.	deleterious_low_confidence(0)	probably_damaging(0.983)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF116,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCCTCGGTGT	byFrequency|byCluster	2	BLCA
BCR	0	.	GRCh37	22	23603181	23603181	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1506C>G	p.%3D	p.V502V	ENST00000305877	3/23	65	61	3	47	47	0	BCR,synonymous_variant,p.%3D,ENST00000427791,;BCR,synonymous_variant,p.%3D,ENST00000359540,;BCR,synonymous_variant,p.%3D,ENST00000305877,;RN7SL263P,downstream_gene_variant,,ENST00000467969,;BCR,non_coding_transcript_exon_variant,,ENST00000480973,;BCR,non_coding_transcript_exon_variant,,ENST00000479188,;FBXW4P1,upstream_gene_variant,,ENST00000426721,;	G	ENSG00000186716	ENST00000305877	Transcript	synonymous_variant	2257	1506	502	V	gtC/gtG	.	.	.	1	BCR	HGNC	1014	protein_coding	YES	CCDS13806.1	ENSP00000303507	BCR_HUMAN	.	UPI000016A088	.	.	.	3/23	.	PROSITE_profiles:PS50010,hmmpanther:PTHR23182:SF3,hmmpanther:PTHR23182,Gene3D:1.20.900.10,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGGTCCTGTC	.	2	BLCA
EIF3D	0	.	GRCh37	22	36920720	36920720	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229G>A	p.Glu77Lys	p.E77K	ENST00000216190	4/15	186	166	20	154	153	0	EIF3D,missense_variant,p.Glu77Lys,ENST00000457241,;EIF3D,missense_variant,p.Glu77Lys,ENST00000455547,;EIF3D,missense_variant,p.Glu77Lys,ENST00000216190,;EIF3D,missense_variant,p.Glu77Lys,ENST00000405442,;EIF3D,missense_variant,p.Glu77Lys,ENST00000432675,;EIF3D,missense_variant,p.Glu77Lys,ENST00000402116,;EIF3D,intron_variant,,ENST00000541106,;EIF3D,downstream_gene_variant,,ENST00000496875,;	T	ENSG00000100353	ENST00000216190	Transcript	missense_variant	600	229	77	E/K	Gaa/Aaa	.	.	.	-1	EIF3D	HGNC	3278	protein_coding	YES	CCDS13930.1	ENSP00000216190	EIF3D_HUMAN	B4E1K8_HUMAN,B0QYA8_HUMAN,B0QYA6_HUMAN,B0QYA5_HUMAN,B0QYA4_HUMAN,B0QYA3_HUMAN,A8MWD3_HUMAN	UPI000012D306	.	deleterious(0.01)	possibly_damaging(0.58)	4/15	.	HAMAP:MF_03003,hmmpanther:PTHR12399,Pfam_domain:PF05091,PIRSF_domain:PIRSF016281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTTTCATCCT	.	4	BLCA
RPL3	0	.	GRCh37	22	39715088	39715088	+	Intron	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4-491A>T	.	.	ENST00000216146	.	64	33	31	61	61	0	RPL3,missense_variant,p.Gln10Leu,ENST00000453303,;RPL3,intron_variant,,ENST00000216146,;RPL3,intron_variant,,ENST00000402527,;RPL3,intron_variant,,ENST00000427905,;RPL3,upstream_gene_variant,,ENST00000401609,;SNORD43,non_coding_transcript_exon_variant,,ENST00000583861,;SNORD83A,upstream_gene_variant,,ENST00000386747,;RPL3,intron_variant,,ENST00000465618,;RPL3,intron_variant,,ENST00000459859,;RPL3,upstream_gene_variant,,ENST00000471290,;RPL3,intron_variant,,ENST00000498462,;RPL3,intron_variant,,ENST00000420536,;RPL3,intron_variant,,ENST00000460589,;RPL3,intron_variant,,ENST00000484615,;RPL3,intron_variant,,ENST00000461967,;RPL3,upstream_gene_variant,,ENST00000484358,;RPL3,upstream_gene_variant,,ENST00000481985,;RPL3,upstream_gene_variant,,ENST00000467105,;	A	ENSG00000100316	ENST00000216146	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RPL3	HGNC	10332	protein_coding	YES	CCDS13988.1	ENSP00000346001	RL3_HUMAN	Q9NY85_HUMAN,Q9BT63_HUMAN,Q8TBW1_HUMAN,Q49AJ9_HUMAN,G5E9G0_HUMAN,B5MCW2_HUMAN,B4DN06_HUMAN	UPI0000167B7E	.	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTCTGTCCG	.	5	BLCA
IL18R1	0	.	GRCh37	2	103006635	103006635	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1069C>T	p.%3D	p.L357L	ENST00000409599	10/12	54	49	5	52	52	0	IL18R1,synonymous_variant,p.%3D,ENST00000409599,;IL18R1,synonymous_variant,p.%3D,ENST00000410040,;IL18R1,synonymous_variant,p.%3D,ENST00000233957,;	T	ENSG00000115604	ENST00000409599	Transcript	synonymous_variant	1425	1069	357	L	Cta/Tta	.	.	.	1	IL18R1	HGNC	5988	protein_coding	YES	CCDS2060.1	ENSP00000387211	IL18R_HUMAN	B7ZKV7_HUMAN	UPI000012D871	.	.	.	10/12	.	Prints_domain:PR01537,hmmpanther:PTHR11890:SF6,hmmpanther:PTHR11890	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTTCTATTT	.	4	BLCA
GCA	0	.	GRCh37	2	163204191	163204191	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131C>A	p.Ser44Ter	p.S44*	ENST00000437150	2/8	47	32	15	75	75	0	GCA,stop_gained,p.Ser44Ter,ENST00000437150,;GCA,stop_gained,p.Ser25Ter,ENST00000429691,;GCA,stop_gained,p.Ser25Ter,ENST00000233612,;GCA,stop_gained,p.Ser70Ter,ENST00000446271,;GCA,stop_gained,p.Ser25Ter,ENST00000453113,;GCA,non_coding_transcript_exon_variant,,ENST00000473240,;GCA,non_coding_transcript_exon_variant,,ENST00000481161,;GCA,non_coding_transcript_exon_variant,,ENST00000479199,;GCA,non_coding_transcript_exon_variant,,ENST00000487445,;	A	ENSG00000115271	ENST00000437150	Transcript	stop_gained	292	131	44	S/*	tCa/tAa	.	.	.	1	GCA	HGNC	15990	protein_coding	YES	CCDS2218.1	ENSP00000394842	GRAN_HUMAN	H7BXD5_HUMAN,C9JIZ3_HUMAN	UPI000012BA7D	.	.	.	2/8	.	hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF139	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTCAGACA	.	5	BLCA
LRP2	0	.	GRCh37	2	169994004	169994004	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13519-1G>C	.	p.X4507_splice	ENST00000263816	.	50	47	3	55	55	0	LRP2,splice_acceptor_variant,,ENST00000263816,;LRP2,splice_acceptor_variant,,ENST00000491228,;	G	ENSG00000081479	ENST00000263816	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	.	.	75/78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCACTCTGATG	.	2	BLCA
RAPGEF4	0	.	GRCh37	2	173881124	173881124	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1857C>G	p.%3D	p.L619L	ENST00000397081	19/31	63	56	7	54	54	0	RAPGEF4,synonymous_variant,p.%3D,ENST00000397087,;RAPGEF4,synonymous_variant,p.%3D,ENST00000409036,;RAPGEF4,synonymous_variant,p.%3D,ENST00000264111,;RAPGEF4,synonymous_variant,p.%3D,ENST00000535187,;RAPGEF4,synonymous_variant,p.%3D,ENST00000539331,;RAPGEF4,synonymous_variant,p.%3D,ENST00000538974,;RAPGEF4,synonymous_variant,p.%3D,ENST00000397081,;RAPGEF4,synonymous_variant,p.%3D,ENST00000540783,;	G	ENSG00000091428	ENST00000397081	Transcript	synonymous_variant	2000	1857	619	L	ctC/ctG	.	.	.	1	RAPGEF4	HGNC	16626	protein_coding	YES	CCDS42775.1	ENSP00000380271	RPGF4_HUMAN	Q53TH3_HUMAN,Q53QY2_HUMAN,B7Z283_HUMAN,B7Z278_HUMAN	UPI000006D4C7	.	.	.	19/31	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50212,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF175,Gene3D:2ii0A01,SMART_domains:SM00229,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCAAGGA	.	4	BLCA
GPR155	0	.	GRCh37	2	175338037	175338037	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>A	p.%3D	p.V172V	ENST00000392552	3/16	94	81	13	79	79	0	GPR155,synonymous_variant,p.%3D,ENST00000295500,;GPR155,synonymous_variant,p.%3D,ENST00000392552,;GPR155,synonymous_variant,p.%3D,ENST00000392551,;	T	ENSG00000163328	ENST00000392552	Transcript	synonymous_variant	755	516	172	V	gtG/gtA	.	.	.	-1	GPR155	HGNC	22951	protein_coding	YES	CCDS2259.1	ENSP00000376335	GP155_HUMAN	.	UPI000013E262	.	.	.	3/16	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22829,Pfam_domain:PF03547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S176Y|c.527C>A|4	RADIA|MUTECT|MUSE|VARSCANS	GGTGCCACCAA	.	4	BLCA
SNED1	0	.	GRCh37	2	242007233	242007233	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3065C>A	p.Ser1022Ter	p.S1022*	ENST00000310397	22/32	35	28	7	34	34	0	SNED1,stop_gained,p.Ser1022Ter,ENST00000342631,;SNED1,stop_gained,p.Ser1022Ter,ENST00000401884,;SNED1,stop_gained,p.Ser1022Ter,ENST00000405547,;SNED1,stop_gained,p.Ser1022Ter,ENST00000310397,;AC005237.4,upstream_gene_variant,,ENST00000458377,;MTERFD2,downstream_gene_variant,,ENST00000464344,;SNED1,non_coding_transcript_exon_variant,,ENST00000466618,;SNED1,upstream_gene_variant,,ENST00000491761,;	A	ENSG00000162804	ENST00000310397	Transcript	stop_gained	3065	3065	1022	S/*	tCa/tAa	.	.	.	1	SNED1	HGNC	24696	protein_coding	YES	CCDS46562.1	ENSP00000308893	SNED1_HUMAN	.	UPI0000DD7AB0	.	.	.	22/32	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24033,hmmpanther:PTHR24033:SF28,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCAGTGC	.	5	BLCA
GCKR	0	.	GRCh37	2	27730583	27730583	+	Silent	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1179G>C	p.%3D	p.L393L	ENST00000264717	14/19	121	88	33	69	69	0	GCKR,synonymous_variant,p.%3D,ENST00000264717,;GCKR,synonymous_variant,p.%3D,ENST00000424318,;GCKR,synonymous_variant,p.%3D,ENST00000411584,;GCKR,non_coding_transcript_exon_variant,,ENST00000478147,;GCKR,downstream_gene_variant,,ENST00000472290,;	C	ENSG00000084734	ENST00000264717	Transcript	synonymous_variant	1242	1179	393	L	ctG/ctC	.	.	.	1	GCKR	HGNC	4196	protein_coding	YES	CCDS1757.1	ENSP00000264717	GCKR_HUMAN	F5H1P6_HUMAN	UPI000013D55B	.	.	.	14/19	.	PROSITE_profiles:PS51464,hmmpanther:PTHR10088,Gene3D:3.40.50.10490,Superfamily_domains:SSF53697	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTGACTTC	.	5	BLCA
PLB1	0	.	GRCh37	2	28814607	28814607	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2168C>T	p.Ser723Phe	p.S723F	ENST00000327757	31/58	85	69	16	81	81	0	PLB1,missense_variant,p.Ser723Phe,ENST00000327757,;PLB1,missense_variant,p.Ser712Phe,ENST00000422425,;PLB1,missense_variant,p.Ser433Phe,ENST00000436544,;PLB1,missense_variant,p.Ser411Phe,ENST00000329020,;PLB1,missense_variant,p.Ser711Phe,ENST00000404858,;PLB1,downstream_gene_variant,,ENST00000481449,;	T	ENSG00000163803	ENST00000327757	Transcript	missense_variant	2212	2168	723	S/F	tCt/tTt	.	.	.	1	PLB1	HGNC	30041	protein_coding	YES	CCDS33168.1	ENSP00000330442	PLB1_HUMAN	.	UPI0000D6117C	.	deleterious(0)	probably_damaging(0.999)	31/58	.	hmmpanther:PTHR21325,hmmpanther:PTHR21325:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCTGCCT	.	5	BLCA
TTC31	0	.	GRCh37	2	74717816	74717816	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.496G>T	p.Glu166Ter	p.E166*	ENST00000233623	5/13	19	15	3	23	23	0	TTC31,stop_gained,p.Glu22Ter,ENST00000442235,;TTC31,stop_gained,p.Glu166Ter,ENST00000410003,;TTC31,stop_gained,p.Glu166Ter,ENST00000233623,;TTC31,upstream_gene_variant,,ENST00000414247,;TTC31,non_coding_transcript_exon_variant,,ENST00000463189,;TTC31,3_prime_UTR_variant,,ENST00000424122,;TTC31,3_prime_UTR_variant,,ENST00000449459,;TTC31,non_coding_transcript_exon_variant,,ENST00000491252,;TTC31,non_coding_transcript_exon_variant,,ENST00000459957,;TTC31,non_coding_transcript_exon_variant,,ENST00000489152,;TTC31,non_coding_transcript_exon_variant,,ENST00000464241,;TTC31,upstream_gene_variant,,ENST00000487623,;	T	ENSG00000115282	ENST00000233623	Transcript	stop_gained	503	496	166	E/*	Gag/Tag	.	.	.	1	TTC31	HGNC	25759	protein_coding	YES	CCDS42701.1	ENSP00000233623	TTC31_HUMAN	G5E9H3_HUMAN	UPI0000D611C0	.	.	.	5/13	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22904,hmmpanther:PTHR22904:SF314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTGAGGAG	.	4	BLCA
CCDC37	0	.	GRCh37	3	126137947	126137947	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.679G>C	p.Glu227Gln	p.E227Q	ENST00000352312	8/17	20	13	6	18	18	0	CCDC37,missense_variant,p.Glu228Gln,ENST00000505024,;CCDC37,missense_variant,p.Glu228Gln,ENST00000393425,;CCDC37,missense_variant,p.Glu227Gln,ENST00000352312,;CCDC37,downstream_gene_variant,,ENST00000510833,;CCDC37,upstream_gene_variant,,ENST00000507830,;CCDC37,downstream_gene_variant,,ENST00000533201,;CCDC37,downstream_gene_variant,,ENST00000503905,;	C	ENSG00000163885	ENST00000352312	Transcript	missense_variant	778	679	227	E/Q	Gag/Cag	.	.	.	1	CCDC37	HGNC	26842	protein_coding	YES	CCDS3037.1	ENSP00000344749	CCD37_HUMAN	.	UPI000013E315	.	deleterious(0.01)	probably_damaging(0.997)	8/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21683:SF5,hmmpanther:PTHR21683,Pfam_domain:PF13863	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATAGAGAAG	.	5	BLCA
ACPP	0	.	GRCh37	3	132071612	132071612	+	Missense_Mutation	SNP	G	G	A	rs140885758	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.913G>A	p.Gly305Arg	p.G305R	ENST00000351273	9/11	72	36	36	86	86	0	ACPP,missense_variant,p.Gly305Arg,ENST00000351273,;ACPP,missense_variant,p.Gly272Arg,ENST00000475741,;ACPP,missense_variant,p.Gly305Arg,ENST00000336375,;ACPP,upstream_gene_variant,,ENST00000507647,;ACPP,non_coding_transcript_exon_variant,,ENST00000512463,;	A	ENSG00000014257	ENST00000351273	Transcript	missense_variant	963	913	305	G/R	Gga/Aga	rs140885758,COSM3587566,COSM3587565	.	.	1	ACPP	HGNC	125	protein_coding	YES	CCDS46916.1	ENSP00000323036	PPAP_HUMAN	Q6LBH1_HUMAN	UPI000020A26F	.	deleterious(0.04)	probably_damaging(0.998)	9/11	.	hmmpanther:PTHR11567:SF32,hmmpanther:PTHR11567,Gene3D:3.40.50.1240,Pfam_domain:PF00328,Superfamily_domains:SSF53254	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAACGGACTC	byCluster	5	BLCA
ARMC8	0	.	GRCh37	3	137964062	137964062	+	Intron	SNP	G	G	A	rs780487813	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1092+37G>A	.	.	ENST00000481646	.	51	48	3	39	39	0	ARMC8,missense_variant,p.Ala377Thr,ENST00000358441,;ARMC8,missense_variant,p.Ala349Thr,ENST00000489213,;ARMC8,missense_variant,p.Ala105Thr,ENST00000469860,;ARMC8,missense_variant,p.Ala391Thr,ENST00000470821,;ARMC8,missense_variant,p.Ala377Thr,ENST00000471453,;ARMC8,intron_variant,,ENST00000469044,;ARMC8,intron_variant,,ENST00000538260,;ARMC8,intron_variant,,ENST00000485396,;ARMC8,intron_variant,,ENST00000463485,;ARMC8,intron_variant,,ENST00000393058,;ARMC8,intron_variant,,ENST00000481646,;ARMC8,intron_variant,,ENST00000461822,;ARMC8,intron_variant,,ENST00000491704,;ARMC8,3_prime_UTR_variant,,ENST00000470549,;ARMC8,non_coding_transcript_exon_variant,,ENST00000486832,;ARMC8,intron_variant,,ENST00000460495,;	A	ENSG00000114098	ENST00000481646	Transcript	intron_variant	.	.	.	.	.	rs780487813	.	.	1	ARMC8	HGNC	24999	protein_coding	YES	CCDS54646.1	ENSP00000420333	ARMC8_HUMAN	C9J8P8_HUMAN,C9J625_HUMAN,B7Z979_HUMAN	UPI000007471D	.	.	.	.	13/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGACAGCCAGC	byFrequency	2	BLCA
PLSCR2	0	.	GRCh37	3	146167020	146167020	+	Silent	SNP	G	G	A	rs777863729	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837C>T	p.%3D	p.A279A	ENST00000497985	8/10	118	72	46	105	105	0	PLSCR2,synonymous_variant,p.%3D,ENST00000497985,;PLSCR2,synonymous_variant,p.%3D,ENST00000336685,;PLSCR2,downstream_gene_variant,,ENST00000489015,;PLSCR2,intron_variant,,ENST00000463633,;	A	ENSG00000163746	ENST00000497985	Transcript	synonymous_variant	1277	837	279	A	gcC/gcT	rs777863729	.	.	-1	PLSCR2	HGNC	16494	protein_coding	YES	CCDS56284.1	ENSP00000420132	PLS2_HUMAN	C9J636_HUMAN	UPI0001B79690	.	.	.	8/10	.	hmmpanther:PTHR23248:SF29,hmmpanther:PTHR23248,Pfam_domain:PF03803	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCACGGCTTT	byFrequency	5	BLCA
CPB1	0	.	GRCh37	3	148558522	148558522	+	Missense_Mutation	SNP	C	C	T	rs760745745	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322C>T	p.Arg108Trp	p.R108W	ENST00000491148	5/12	67	46	21	68	68	0	CPB1,missense_variant,p.Arg108Trp,ENST00000468341,;CPB1,missense_variant,p.Arg108Trp,ENST00000282957,;CPB1,missense_variant,p.Arg108Trp,ENST00000491148,;CPB1,downstream_gene_variant,,ENST00000462345,;CPB1,non_coding_transcript_exon_variant,,ENST00000484877,;CPB1,non_coding_transcript_exon_variant,,ENST00000465718,;	T	ENSG00000153002	ENST00000491148	Transcript	missense_variant	656	322	108	R/W	Cgg/Tgg	rs760745745	.	.	1	CPB1	HGNC	2299	protein_coding	YES	CCDS33874.1	ENSP00000417222	CBPB1_HUMAN	Q68DJ8_HUMAN,C9JXS3_HUMAN,C9J5C4_HUMAN	UPI00001271CD	.	deleterious(0.01)	benign(0.004)	5/12	.	hmmpanther:PTHR11705,hmmpanther:PTHR11705:SF20,Gene3D:3.30.70.340,Superfamily_domains:SSF54897	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGCCGGGTT	byFrequency	5	BLCA
SMC4	0	.	GRCh37	3	160118655	160118655	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.41G>C	p.Arg14Thr	p.R14T	ENST00000357388	2/24	13	9	4	11	11	0	SMC4,missense_variant,p.Arg14Thr,ENST00000465903,;SMC4,missense_variant,p.Arg14Thr,ENST00000497311,;SMC4,missense_variant,p.Arg14Thr,ENST00000360111,;SMC4,missense_variant,p.Arg14Thr,ENST00000357388,;SMC4,missense_variant,p.Arg14Thr,ENST00000344722,;SMC4,missense_variant,p.Arg14Thr,ENST00000489573,;SMC4,missense_variant,p.Arg14Thr,ENST00000490207,;SMC4,missense_variant,p.Arg14Thr,ENST00000462787,;SMC4,missense_variant,p.Arg14Thr,ENST00000485645,;SMC4,missense_variant,p.Arg14Thr,ENST00000469762,;SMC4,intron_variant,,ENST00000485867,;SMC4,intron_variant,,ENST00000472991,;SMC4,intron_variant,,ENST00000467468,;IFT80,upstream_gene_variant,,ENST00000465537,;IFT80,upstream_gene_variant,,ENST00000489004,;IFT80,upstream_gene_variant,,ENST00000478370,;IFT80,upstream_gene_variant,,ENST00000498409,;IFT80,upstream_gene_variant,,ENST00000486856,;IFT80,upstream_gene_variant,,ENST00000496589,;IFT80,upstream_gene_variant,,ENST00000468218,;IFT80,upstream_gene_variant,,ENST00000475677,;IFT80,upstream_gene_variant,,ENST00000326448,;IFT80,upstream_gene_variant,,ENST00000478536,;MIR15B,upstream_gene_variant,,ENST00000385045,;MIR16-2,upstream_gene_variant,,ENST00000362117,;SMC4,intron_variant,,ENST00000472282,;IFT80,upstream_gene_variant,,ENST00000468327,;SMC4,upstream_gene_variant,,ENST00000470240,;IFT80,upstream_gene_variant,,ENST00000465972,;IFT80,upstream_gene_variant,,ENST00000477495,;IFT80,upstream_gene_variant,,ENST00000478460,;IFT80,upstream_gene_variant,,ENST00000498145,;SMC4,upstream_gene_variant,,ENST00000497984,;SMC4,upstream_gene_variant,,ENST00000487747,;IFT80,upstream_gene_variant,,ENST00000472773,;IFT80,upstream_gene_variant,,ENST00000466326,;SMC4,missense_variant,p.Arg14Thr,ENST00000469858,;SMC4,non_coding_transcript_exon_variant,,ENST00000468653,;RP11-432B6.3,intron_variant,,ENST00000483754,;IFT80,upstream_gene_variant,,ENST00000467254,;IFT80,upstream_gene_variant,,ENST00000487943,;IFT80,upstream_gene_variant,,ENST00000482317,;	C	ENSG00000113810	ENST00000357388	Transcript	missense_variant	492	41	14	R/T	aGa/aCa	.	.	.	1	SMC4	HGNC	14013	protein_coding	YES	CCDS3189.1	ENSP00000349961	SMC4_HUMAN	C9JWF0_HUMAN,C9JVD8_HUMAN,C9JR83_HUMAN,C9JJ64_HUMAN,C9J9E4_HUMAN,C9J578_HUMAN,C9IYK2_HUMAN	UPI000006DA0A	.	tolerated_low_confidence(0.09)	benign(0.002)	2/24	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER	GCGCAGAGAGG	.	2	BLCA
PIK3CA	0	.	GRCh37	3	178916891	178916891	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278G>A	p.Arg93Gln	p.R93Q	ENST00000263967	2/21	94	88	5	81	81	0	PIK3CA,missense_variant,p.Arg93Gln,ENST00000468036,;PIK3CA,missense_variant,p.Arg93Gln,ENST00000263967,;PIK3CA,downstream_gene_variant,,ENST00000477735,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	435	278	93	R/Q	cGg/cAg	COSM86041,COSM1420744,COSM1041456,COSM1420743	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.01)	probably_damaging(0.978)	2/21	.	PROSITE_profiles:PS51544,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF02192,Gene3D:3.10.20.90,SMART_domains:SM00143	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R93Q|c.278G>A|10,SITE|p.R93Q|c.278G>A|13,CODON|p.R93W|c.277C>T|24,CODON|p.R93W|c.277C>T|6	MUTECT|MUSE	CCTTCGGCTTT	.	2	BLCA
PIK3CA	0	.	GRCh37	3	178921553	178921553	+	Missense_Mutation	SNP	T	T	A	rs121913284	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1035T>A	p.Asn345Lys	p.N345K	ENST00000263967	5/21	102	59	43	91	91	0	PIK3CA,missense_variant,p.Asn345Lys,ENST00000263967,;PIK3CA,downstream_gene_variant,,ENST00000468036,;PIK3CA,downstream_gene_variant,,ENST00000477735,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1192	1035	345	N/K	aaT/aaA	rs121913284,COSM754,COSM132748	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.01)	probably_damaging(1)	5/21	.	PROSITE_profiles:PS51547,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Gene3D:2.60.40.150,SMART_domains:SM00142,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.N345K|c.1035T>A|40,SITE|p.N345K|c.1035T>A|67,BUFFER|p.V344M|c.1030G>A|8,BUFFER|p.V344M|c.1030G>A|9,BUFFER|p.V344A|c.1031T>C|3,BUFFER|p.V344G|c.1031T>G|6,BUFFER|p.V344G|c.1031T>G|8	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAATGTAAA	.	5	BLCA
TWF2	0	.	GRCh37	3	52265547	52265547	+	Silent	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291G>C	p.%3D	p.L97L	ENST00000305533	4/9	151	139	12	164	164	0	TWF2,synonymous_variant,p.%3D,ENST00000499914,;TWF2,synonymous_variant,p.%3D,ENST00000305533,;TLR9,5_prime_UTR_variant,,ENST00000597542,;TLR9,upstream_gene_variant,,ENST00000494383,;TWF2,non_coding_transcript_exon_variant,,ENST00000472755,;TLR9,upstream_gene_variant,,ENST00000478201,;	G	ENSG00000247596	ENST00000305533	Transcript	synonymous_variant	535	291	97	L	ctG/ctC	.	.	.	-1	TWF2	HGNC	9621	protein_coding	YES	CCDS2849.1	ENSP00000303908	TWF2_HUMAN	.	UPI0000035B57	.	.	.	4/9	.	PROSITE_profiles:PS51263,hmmpanther:PTHR13759:SF2,hmmpanther:PTHR13759,Pfam_domain:PF00241,Gene3D:3.40.20.10,SMART_domains:SM00102,Superfamily_domains:SSF55753	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCTTCAGCCG	.	2	BLCA
BAP1	0	.	GRCh37	3	52437911	52437911	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1251-1G>C	.	p.X417_splice	ENST00000460680	.	62	51	10	67	67	0	BAP1,splice_acceptor_variant,,ENST00000469613,;BAP1,splice_acceptor_variant,,ENST00000296288,;BAP1,splice_acceptor_variant,,ENST00000460680,;BAP1,upstream_gene_variant,,ENST00000478368,;DNAH1,downstream_gene_variant,,ENST00000420323,;BAP1,downstream_gene_variant,,ENST00000470173,;BAP1,splice_acceptor_variant,,ENST00000490804,;DNAH1,downstream_gene_variant,,ENST00000486752,;BAP1,downstream_gene_variant,,ENST00000490917,;DNAH1,downstream_gene_variant,,ENST00000490713,;BAP1,upstream_gene_variant,,ENST00000466093,;BAP1,downstream_gene_variant,,ENST00000483984,;DNAH1,downstream_gene_variant,,ENST00000488988,;BAP1,downstream_gene_variant,,ENST00000471532,;	G	ENSG00000163930	ENST00000460680	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	BAP1	HGNC	950	protein_coding	YES	CCDS2853.1	ENSP00000417132	BAP1_HUMAN	F8WEY5_HUMAN,C9J7L9_HUMAN	UPI0000071B3D	.	.	.	.	12/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATACCTGTGG	.	5	BLCA
TTC29	0	.	GRCh37	4	147796023	147796023	+	Missense_Mutation	SNP	C	C	T	rs201549008	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.644G>A	p.Arg215Gln	p.R215Q	ENST00000325106	7/13	46	29	17	35	35	0	TTC29,missense_variant,p.Arg215Gln,ENST00000504425,;TTC29,missense_variant,p.Arg241Gln,ENST00000398886,;TTC29,missense_variant,p.Arg241Gln,ENST00000513335,;TTC29,missense_variant,p.Arg215Gln,ENST00000325106,;TTC29,missense_variant,p.Arg215Gln,ENST00000508306,;	T	ENSG00000137473	ENST00000325106	Transcript	missense_variant	871	644	215	R/Q	cGg/cAg	rs201549008	.	.	-1	TTC29	HGNC	29936	protein_coding	YES	CCDS47141.1	ENSP00000316740	TTC29_HUMAN	D6RJF6_HUMAN	UPI00001AE7CF	.	deleterious(0.03)	possibly_damaging(0.556)	7/13	.	PROSITE_profiles:PS50293,hmmpanther:PTHR10098,Gene3D:1.25.40.10,SMART_domains:SM00028	.	.	.	.	.	.	.	T:0.0003	T:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATCCGCCCC	byFrequency|byCluster	5	BLCA
RXFP1	0	.	GRCh37	4	159554615	159554615	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.958G>C	p.Glu320Gln	p.E320Q	ENST00000307765	12/18	91	87	4	88	88	0	RXFP1,missense_variant,p.Glu215Gln,ENST00000448688,;RXFP1,missense_variant,p.Glu287Gln,ENST00000470033,;RXFP1,missense_variant,p.Glu320Gln,ENST00000307765,;RXFP1,missense_variant,p.Glu239Gln,ENST00000460056,;RXFP1,intron_variant,,ENST00000343542,;RXFP1,3_prime_UTR_variant,,ENST00000471616,;RXFP1,3_prime_UTR_variant,,ENST00000342048,;	C	ENSG00000171509	ENST00000307765	Transcript	missense_variant	1209	958	320	E/Q	Gag/Cag	.	.	.	1	RXFP1	HGNC	19718	protein_coding	YES	CCDS43276.1	ENSP00000303248	RXFP1_HUMAN	Q4W5D9_HUMAN,E9PCA3_HUMAN	UPI000013EC4B	.	tolerated(0.44)	benign(0.012)	12/18	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF18,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAGGAGCTG	.	2	BLCA
TRIM60	0	.	GRCh37	4	165961669	165961669	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>C	p.Glu149Gln	p.E149Q	ENST00000512596	3/3	56	53	3	42	42	0	TRIM60,missense_variant,p.Glu149Gln,ENST00000341062,;TRIM60,missense_variant,p.Glu149Gln,ENST00000512596,;TRIM60,missense_variant,p.Glu149Gln,ENST00000508504,;TRIM60,downstream_gene_variant,,ENST00000507119,;	C	ENSG00000176979	ENST00000512596	Transcript	missense_variant	661	445	149	E/Q	Gag/Cag	.	.	.	1	TRIM60	HGNC	21162	protein_coding	YES	CCDS3808.1	ENSP00000421142	TRI60_HUMAN	D6RAS2_HUMAN	UPI000006DAAD	.	tolerated(0.06)	benign(0.051)	3/3	.	hmmpanther:PTHR24103:SF304,hmmpanther:PTHR24103,Superfamily_domains:SSF57845	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTTGAGCCC	.	2	BLCA
FGFR3	0	.	GRCh37	4	1803568	1803568	+	Missense_Mutation	SNP	C	C	G	rs121913483	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.746C>G	p.Ser249Cys	p.S249C	ENST00000340107	7/18	22	10	11	20	20	0	FGFR3,missense_variant,p.Ser249Cys,ENST00000352904,;FGFR3,missense_variant,p.Ser249Cys,ENST00000412135,;FGFR3,missense_variant,p.Ser249Cys,ENST00000440486,;FGFR3,missense_variant,p.Ser249Cys,ENST00000481110,;FGFR3,missense_variant,p.Ser249Cys,ENST00000260795,;FGFR3,missense_variant,p.Ser69Cys,ENST00000507588,;FGFR3,missense_variant,p.Ser249Cys,ENST00000340107,;FGFR3,non_coding_transcript_exon_variant,,ENST00000474521,;FGFR3,upstream_gene_variant,,ENST00000469068,;	G	ENSG00000068078	ENST00000340107	Transcript	missense_variant	1002	746	249	S/C	tCc/tGc	CM950470,rs121913483,COSM715,COSM1149892	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	deleterious(0.01)	possibly_damaging(0.594)	7/18	.	hmmpanther:PTHR24416:SF128,hmmpanther:PTHR24416,PIRSF_domain:PIRSF000628	.	.	.	.	.	.	.	.	.	pathogenic	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.S249C|c.746C>G|14,SITE|p.S249C|c.746C>G|1250,BUFFER|p.R248C|c.742C>T|11,BUFFER|p.R248C|c.742C>T|248	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCTCCCCGC	byFrequency|byCluster	5	BLCA
FAM193A	0	.	GRCh37	4	2733516	2733516	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3719C>T	p.Ser1240Phe	p.S1240F	ENST00000324666	20/20	195	141	54	191	191	0	FAM193A,missense_variant,p.Ser1221Phe,ENST00000502458,;FAM193A,missense_variant,p.Ser1240Phe,ENST00000324666,;FAM193A,missense_variant,p.Ser1199Phe,ENST00000382839,;FAM193A,3_prime_UTR_variant,,ENST00000505311,;FAM193A,3_prime_UTR_variant,,ENST00000512465,;FAM193A,3_prime_UTR_variant,,ENST00000513898,;	T	ENSG00000125386	ENST00000324666	Transcript	missense_variant	4070	3719	1240	S/F	tCt/tTt	.	.	.	1	FAM193A	HGNC	16822	protein_coding	YES	CCDS58875.1	ENSP00000324587	F193A_HUMAN	E7EUR8_HUMAN,D6R990_HUMAN	UPI0000551BCA	.	deleterious(0.01)	possibly_damaging(0.748)	20/20	.	hmmpanther:PTHR15109:SF2,hmmpanther:PTHR15109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATTCTGCTA	.	5	BLCA
LRRC66	0	.	GRCh37	4	52883557	52883557	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223C>T	p.Leu75Phe	p.L75F	ENST00000343457	1/4	71	64	7	83	83	0	LRRC66,missense_variant,p.Leu75Phe,ENST00000343457,;SGCB,downstream_gene_variant,,ENST00000381431,;SGCB,downstream_gene_variant,,ENST00000535450,;	A	ENSG00000188993	ENST00000343457	Transcript	missense_variant	230	223	75	L/F	Ctc/Ttc	.	.	.	-1	LRRC66	HGNC	34299	protein_coding	YES	CCDS43229.1	ENSP00000341944	LRC66_HUMAN	.	UPI0000425C5B	.	tolerated(0.15)	benign(0.012)	1/4	.	hmmpanther:PTHR24369:SF55,hmmpanther:PTHR24369,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TAAGAGAACTC	.	3	BLCA
KDR	0	.	GRCh37	4	55972868	55972868	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1522G>A	p.Glu508Lys	p.E508K	ENST00000263923	11/30	42	39	3	44	44	0	KDR,missense_variant,p.Glu508Lys,ENST00000263923,;KDR,non_coding_transcript_exon_variant,,ENST00000512566,;	T	ENSG00000128052	ENST00000263923	Transcript	missense_variant	1818	1522	508	E/K	Gaa/Aaa	.	.	.	-1	KDR	HGNC	6307	protein_coding	YES	CCDS3497.1	ENSP00000263923	VGFR2_HUMAN	B4DEK3_HUMAN	UPI000003AE04	.	deleterious(0.02)	benign(0.155)	11/30	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF45,Gene3D:2.60.40.10,Pfam_domain:PF13895,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TCCTTCAATTA	.	2	BLCA
POLR2B	0	.	GRCh37	4	57891140	57891140	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3053A>G	p.Tyr1018Cys	p.Y1018C	ENST00000381227	23/26	82	61	20	60	60	0	POLR2B,missense_variant,p.Tyr1011Cys,ENST00000441246,;POLR2B,missense_variant,p.Tyr943Cys,ENST00000431623,;POLR2B,missense_variant,p.Tyr1018Cys,ENST00000381227,;POLR2B,missense_variant,p.Tyr1018Cys,ENST00000314595,;POLR2B,non_coding_transcript_exon_variant,,ENST00000478188,;POLR2B,downstream_gene_variant,,ENST00000464918,;POLR2B,downstream_gene_variant,,ENST00000484821,;	G	ENSG00000047315	ENST00000381227	Transcript	missense_variant	3466	3053	1018	Y/C	tAt/tGt	.	.	.	1	POLR2B	HGNC	9188	protein_coding	YES	CCDS3511.1	ENSP00000370625	RPB2_HUMAN	C9JMN3_HUMAN,C9J2Y9_HUMAN,B2WTN6_HUMAN	UPI00001345D1	.	tolerated(0.29)	probably_damaging(0.992)	23/26	.	Superfamily_domains:SSF64484,Pfam_domain:PF00562,Gene3D:2a6hC01,hmmpanther:PTHR20856:SF7,hmmpanther:PTHR20856	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATTATGGCT	.	5	BLCA
FBXL17	0	.	GRCh37	5	107521822	107521822	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1741G>C	p.Asp581His	p.D581H	ENST00000542267	6/9	72	55	17	56	56	0	FBXL17,missense_variant,p.Asp581His,ENST00000542267,;FBXL17,missense_variant,p.Asp183His,ENST00000496714,;FBXL17,missense_variant,p.Asp183His,ENST00000359660,;FBXL17,non_coding_transcript_exon_variant,,ENST00000481160,;	G	ENSG00000145743	ENST00000542267	Transcript	missense_variant	2148	1741	581	D/H	Gac/Cac	COSM1310416,COSM1310415	.	.	-1	FBXL17	HGNC	13615	protein_coding	YES	CCDS54886.1	ENSP00000437464	FXL17_HUMAN	.	UPI00019B21FB	.	deleterious(0)	probably_damaging(0.998)	6/9	.	hmmpanther:PTHR23125:SF250,hmmpanther:PTHR23125,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGTCATTTA	.	5	BLCA
PDLIM4	0	.	GRCh37	5	131607503	131607503	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.690C>T	p.%3D	p.G230G	ENST00000253754	6/7	31	27	4	41	41	0	PDLIM4,synonymous_variant,p.%3D,ENST00000253754,;P4HA2,intron_variant,,ENST00000431054,;PDLIM4,intron_variant,,ENST00000379018,;P4HA2,intron_variant,,ENST00000439698,;P4HA2,intron_variant,,ENST00000416053,;PDLIM4,downstream_gene_variant,,ENST00000418373,;PDLIM4,non_coding_transcript_exon_variant,,ENST00000484620,;P4HA2,intron_variant,,ENST00000471826,;PDLIM4,non_coding_transcript_exon_variant,,ENST00000462597,;PDLIM4,non_coding_transcript_exon_variant,,ENST00000474421,;	T	ENSG00000131435	ENST00000253754	Transcript	synonymous_variant	754	690	230	G	ggC/ggT	.	.	.	1	PDLIM4	HGNC	16501	protein_coding	YES	CCDS4152.1	ENSP00000253754	PDLI4_HUMAN	C9J542_HUMAN	UPI00001338F6	.	.	.	6/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24214,hmmpanther:PTHR24214:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CCTGGCGGCCC	.	2	BLCA
UBE2B	0	.	GRCh37	5	133724024	133724024	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Asp84Asn	p.D84N	ENST00000265339	5/6	54	46	7	43	43	0	UBE2B,missense_variant,p.Asp84Asn,ENST00000265339,;UBE2B,missense_variant,p.Asp83Asn,ENST00000506787,;UBE2B,intron_variant,,ENST00000507277,;UBE2B,non_coding_transcript_exon_variant,,ENST00000499038,;UBE2B,intron_variant,,ENST00000511807,;UBE2B,stop_retained_variant,p.%3D,ENST00000510021,;UBE2B,non_coding_transcript_exon_variant,,ENST00000503080,;	A	ENSG00000119048	ENST00000265339	Transcript	missense_variant	667	250	84	D/N	Gat/Aat	COSM3776182	.	.	1	UBE2B	HGNC	12473	protein_coding	YES	CCDS4174.1	ENSP00000265339	UBE2B_HUMAN	.	UPI00000002A5	.	tolerated(0.35)	benign(0.049)	5/6	.	PROSITE_profiles:PS50127,hmmpanther:PTHR24067:SF85,hmmpanther:PTHR24067,PROSITE_patterns:PS00183,Pfam_domain:PF00179,Gene3D:3.10.110.10,SMART_domains:SM00212,Superfamily_domains:SSF54495	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCTGATGGT	.	4	BLCA
PSD2	0	.	GRCh37	5	139193134	139193134	+	Silent	SNP	G	G	A	rs115268774	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.612G>A	p.%3D	p.A204A	ENST00000274710	3/15	43	37	5	62	62	0	PSD2,synonymous_variant,p.%3D,ENST00000274710,;	A	ENSG00000146005	ENST00000274710	Transcript	synonymous_variant	817	612	204	A	gcG/gcA	rs115268774	.	.	1	PSD2	HGNC	19092	protein_coding	YES	CCDS4216.1	ENSP00000274710	PSD2_HUMAN	.	UPI0000073C6B	.	.	.	3/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF109	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	ATGGCGTTTGA	byCluster|by1000G	3	BLCA
MYO10	0	.	GRCh37	5	16681566	16681566	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4236G>A	p.%3D	p.L1412L	ENST00000513610	32/41	131	81	50	123	123	0	MYO10,synonymous_variant,p.%3D,ENST00000513610,;MYO10,synonymous_variant,p.%3D,ENST00000274203,;MYO10,synonymous_variant,p.%3D,ENST00000427430,;MYO10,synonymous_variant,p.%3D,ENST00000515803,;MYO10,synonymous_variant,p.%3D,ENST00000505695,;	T	ENSG00000145555	ENST00000513610	Transcript	synonymous_variant	4691	4236	1412	L	ctG/ctA	.	.	.	-1	MYO10	HGNC	7593	protein_coding	YES	CCDS54834.1	ENSP00000421280	MYO10_HUMAN	E9PEW5_HUMAN,E7EPL7_HUMAN,B4E0P0_HUMAN	UPI0001597062	.	.	.	32/41	.	Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30,Pfam_domain:PF00169,PROSITE_profiles:PS50003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCAGTGA	.	5	BLCA
MROH2B	0	.	GRCh37	5	41012715	41012715	+	Silent	SNP	C	C	T	rs370518208	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3105G>A	p.%3D	p.L1035L	ENST00000399564	30/42	64	52	12	40	40	0	MROH2B,synonymous_variant,p.%3D,ENST00000506092,;MROH2B,synonymous_variant,p.%3D,ENST00000399564,;MROH2B,non_coding_transcript_exon_variant,,ENST00000515297,;MROH2B,non_coding_transcript_exon_variant,,ENST00000503890,;	T	ENSG00000171495	ENST00000399564	Transcript	synonymous_variant	3556	3105	1035	L	ctG/ctA	rs370518208	.	.	-1	MROH2B	HGNC	26857	protein_coding	YES	CCDS47202.1	ENSP00000382476	MRO2B_HUMAN	F5GZ06_HUMAN	UPI000020CA04	.	.	.	30/42	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF15,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	A:0.0003	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTCAGGAC	byFrequency|byCluster	5	BLCA
ZFYVE16	0	.	GRCh37	5	79733375	79733375	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.871G>C	p.Glu291Gln	p.E291Q	ENST00000338008	3/18	76	60	16	52	52	0	ZFYVE16,missense_variant,p.Glu291Gln,ENST00000338008,;ZFYVE16,missense_variant,p.Glu291Gln,ENST00000505560,;ZFYVE16,missense_variant,p.Glu291Gln,ENST00000510158,;ZFYVE16,upstream_gene_variant,,ENST00000511050,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000510995,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000512558,;ZFYVE16,downstream_gene_variant,,ENST00000509562,;	C	ENSG00000039319	ENST00000338008	Transcript	missense_variant	1051	871	291	E/Q	Gaa/Caa	.	.	.	1	ZFYVE16	HGNC	20756	protein_coding	YES	CCDS4050.1	ENSP00000337159	ZFY16_HUMAN	B3KXA7_HUMAN	UPI000013F4A0	.	tolerated(0.35)	benign(0.025)	3/18	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF43,PIRSF_domain:PIRSF037289	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCAGAATGT	.	5	BLCA
ZFYVE16	0	.	GRCh37	5	79733567	79733567	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1063G>A	p.Asp355Asn	p.D355N	ENST00000338008	3/18	105	78	26	68	68	0	ZFYVE16,missense_variant,p.Asp355Asn,ENST00000338008,;ZFYVE16,missense_variant,p.Asp355Asn,ENST00000505560,;ZFYVE16,missense_variant,p.Asp355Asn,ENST00000510158,;ZFYVE16,upstream_gene_variant,,ENST00000511050,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000510995,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000512558,;ZFYVE16,downstream_gene_variant,,ENST00000509562,;	A	ENSG00000039319	ENST00000338008	Transcript	missense_variant	1243	1063	355	D/N	Gat/Aat	.	.	.	1	ZFYVE16	HGNC	20756	protein_coding	YES	CCDS4050.1	ENSP00000337159	ZFY16_HUMAN	B3KXA7_HUMAN	UPI000013F4A0	.	tolerated(0.23)	benign(0.015)	3/18	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF43,PIRSF_domain:PIRSF037289	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATGATGTA	.	5	BLCA
RHOBTB3	0	.	GRCh37	5	95124488	95124488	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1646C>G	p.Ser549Ter	p.S549*	ENST00000379982	11/12	72	63	8	60	60	0	RHOBTB3,stop_gained,p.Ser180Ter,ENST00000504179,;RHOBTB3,stop_gained,p.Ser52Ter,ENST00000503737,;RHOBTB3,stop_gained,p.Ser549Ter,ENST00000379982,;RHOBTB3,stop_gained,p.Ser131Ter,ENST00000510313,;GLRX,intron_variant,,ENST00000508780,;RHOBTB3,upstream_gene_variant,,ENST00000514198,;RHOBTB3,upstream_gene_variant,,ENST00000513091,;GLRX,intron_variant,,ENST00000507605,;RHOBTB3,non_coding_transcript_exon_variant,,ENST00000511558,;RHOBTB3,downstream_gene_variant,,ENST00000507186,;	G	ENSG00000164292	ENST00000379982	Transcript	stop_gained	2154	1646	549	S/*	tCa/tGa	.	.	.	1	RHOBTB3	HGNC	18757	protein_coding	YES	CCDS4077.1	ENSP00000369318	RHBT3_HUMAN	.	UPI0000367303	.	.	.	11/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAACCT	.	4	BLCA
GCNT2	0	.	GRCh37	6	10556716	10556716	+	Intron	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925+26647C>T	.	.	ENST00000379597	.	99	90	9	98	98	0	GCNT2,synonymous_variant,p.%3D,ENST00000316170,;GCNT2,intron_variant,,ENST00000495262,;GCNT2,intron_variant,,ENST00000379597,;GCNT2,intron_variant,,ENST00000410107,;GCNT2,intron_variant,,ENST00000397423,;GCNT2,intron_variant,,ENST00000489225,;GCNT2,intron_variant,,ENST00000475577,;GCNT2,intron_variant,,ENST00000474518,;GCNT2,intron_variant,,ENST00000489819,;GCNT2,intron_variant,,ENST00000485764,;GCNT2,upstream_gene_variant,,ENST00000459872,;GCNT2,intron_variant,,ENST00000461400,;	T	ENSG00000111846	ENST00000379597	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GCNT2	HGNC	4204	protein_coding	YES	CCDS34338.1	ENSP00000368917	GNT2A_HUMAN	Q8N7N7_HUMAN,Q08M29_HUMAN	UPI000006E705	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTATCGTCTT	.	3	BLCA
LAMA4	0	.	GRCh37	6	112476111	112476111	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1998A>T	p.Lys666Asn	p.K666N	ENST00000230538	16/39	107	58	48	101	101	0	LAMA4,missense_variant,p.Lys666Asn,ENST00000230538,;LAMA4,missense_variant,p.Lys659Asn,ENST00000424408,;LAMA4,missense_variant,p.Lys659Asn,ENST00000522006,;LAMA4,missense_variant,p.Lys659Asn,ENST00000389463,;RP1-142L7.5,non_coding_transcript_exon_variant,,ENST00000585373,;RP1-142L7.5,non_coding_transcript_exon_variant,,ENST00000588689,;RP1-142L7.5,non_coding_transcript_exon_variant,,ENST00000425503,;LAMA4,missense_variant,p.Lys112Asn,ENST00000523765,;	A	ENSG00000112769	ENST00000230538	Transcript	missense_variant	2396	1998	666	K/N	aaA/aaT	.	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	deleterious(0.04)	possibly_damaging(0.821)	16/39	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF174	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATCTTTATG	.	5	BLCA
RPS12	0	.	GRCh37	6	133137650	133137650	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.182A>G	p.Tyr61Cys	p.Y61C	ENST00000230050	4/6	92	72	20	85	85	0	RPS12,missense_variant,p.Tyr61Cys,ENST00000230050,;SNORA33,upstream_gene_variant,,ENST00000363664,;SNORD101,downstream_gene_variant,,ENST00000384027,;SNORD100,upstream_gene_variant,,ENST00000408573,;RPS12,non_coding_transcript_exon_variant,,ENST00000484616,;	G	ENSG00000112306	ENST00000230050	Transcript	missense_variant	392	182	61	Y/C	tAt/tGt	.	.	.	1	RPS12	HGNC	10385	protein_coding	YES	CCDS5164.1	ENSP00000230050	RS12_HUMAN	.	UPI000000096F	.	tolerated(0.06)	benign(0.229)	4/6	.	hmmpanther:PTHR11843,Pfam_domain:PF01248,Gene3D:3.30.1330.30,Superfamily_domains:SSF55315	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATGTATGTCA	.	5	BLCA
PHACTR2	0	.	GRCh37	6	144109920	144109920	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1718G>C	p.Arg573Thr	p.R573T	ENST00000440869	11/13	47	33	14	40	40	0	PHACTR2,missense_variant,p.Arg562Thr,ENST00000427704,;PHACTR2,missense_variant,p.Arg573Thr,ENST00000440869,;PHACTR2,missense_variant,p.Arg482Thr,ENST00000305766,;PHACTR2,missense_variant,p.Arg493Thr,ENST00000367582,;PHACTR2,missense_variant,p.Arg550Thr,ENST00000367584,;PHACTR2,non_coding_transcript_exon_variant,,ENST00000536245,;	C	ENSG00000112419	ENST00000440869	Transcript	missense_variant	1917	1718	573	R/T	aGa/aCa	COSM317868,COSM384495,COSM317869,COSM384494	.	.	1	PHACTR2	HGNC	20956	protein_coding	YES	CCDS47493.1	ENSP00000417038	PHAR2_HUMAN	.	UPI000020E355	.	deleterious(0)	probably_damaging(0.995)	11/13	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51073,hmmpanther:PTHR12751:SF5,hmmpanther:PTHR12751,SMART_domains:SM00707	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGAGACCCA	.	5	BLCA
KIF13A	0	.	GRCh37	6	17764700	17764700	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5059G>A	p.Glu1687Lys	p.E1687K	ENST00000259711	39/39	69	62	7	46	46	0	KIF13A,missense_variant,p.Glu1639Lys,ENST00000378814,;KIF13A,missense_variant,p.Glu1652Lys,ENST00000378826,;KIF13A,missense_variant,p.Glu691Lys,ENST00000502297,;KIF13A,missense_variant,p.Glu1687Lys,ENST00000259711,;KIF13A,missense_variant,p.Glu1652Lys,ENST00000378816,;KIF13A,missense_variant,p.Glu1639Lys,ENST00000378843,;	T	ENSG00000137177	ENST00000259711	Transcript	missense_variant	5165	5059	1687	E/K	Gag/Aag	.	.	.	-1	KIF13A	HGNC	14566	protein_coding	YES	CCDS47381.1	ENSP00000259711	KI13A_HUMAN	.	UPI0000E20DA3	.	tolerated_low_confidence(0.38)	benign(0.001)	39/39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTCTCAGGGA	.	3	BLCA
BAG6	0	.	GRCh37	6	31608053	31608053	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3079C>T	p.Gln1027Ter	p.Q1027*	ENST00000375964	23/25	75	68	7	63	63	0	BAG6,stop_gained,p.Gln1021Ter,ENST00000375976,;BAG6,stop_gained,p.Gln1021Ter,ENST00000362049,;BAG6,stop_gained,p.Gln1027Ter,ENST00000375964,;BAG6,stop_gained,p.Gln1021Ter,ENST00000211379,;BAG6,stop_gained,p.Gln170Ter,ENST00000441793,;BAG6,stop_gained,p.Gln1057Ter,ENST00000404765,;BAG6,stop_gained,p.Gln80Ter,ENST00000422948,;BAG6,stop_gained,p.Gln847Ter,ENST00000439687,;BAG6,downstream_gene_variant,,ENST00000435080,;BAG6,downstream_gene_variant,,ENST00000437771,;PRRC2A,downstream_gene_variant,,ENST00000376033,;BAG6,downstream_gene_variant,,ENST00000453833,;PRRC2A,downstream_gene_variant,,ENST00000376007,;BAG6,downstream_gene_variant,,ENST00000438149,;BAG6,non_coding_transcript_exon_variant,,ENST00000464126,;BAG6,upstream_gene_variant,,ENST00000464869,;BAG6,downstream_gene_variant,,ENST00000469182,;BAG6,downstream_gene_variant,,ENST00000470875,;BAG6,downstream_gene_variant,,ENST00000465348,;BAG6,downstream_gene_variant,,ENST00000462682,;PRRC2A,downstream_gene_variant,,ENST00000462617,;PRRC2A,downstream_gene_variant,,ENST00000482441,;PRRC2A,downstream_gene_variant,,ENST00000487089,;PRRC2A,downstream_gene_variant,,ENST00000469501,;PRRC2A,downstream_gene_variant,,ENST00000484787,;PRRC2A,downstream_gene_variant,,ENST00000492691,;BAG6,downstream_gene_variant,,ENST00000462875,;PRRC2A,downstream_gene_variant,,ENST00000487839,;	A	ENSG00000204463	ENST00000375964	Transcript	stop_gained	3393	3079	1027	Q/*	Cag/Tag	COSM3394086,COSM3394087	.	.	-1	BAG6	HGNC	13919	protein_coding	YES	CCDS47403.1	ENSP00000365131	BAG6_HUMAN	F6TC96_HUMAN,F6RG75_HUMAN	UPI000047029D	.	.	.	23/25	.	hmmpanther:PTHR15204	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTCTGAATGT	.	3	BLCA
LRFN2	0	.	GRCh37	6	40359794	40359794	+	Missense_Mutation	SNP	G	G	A	rs760154787	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2258C>T	p.Thr753Met	p.T753M	ENST00000338305	3/3	41	19	22	51	51	0	LRFN2,missense_variant,p.Thr753Met,ENST00000338305,;	A	ENSG00000156564	ENST00000338305	Transcript	missense_variant	2801	2258	753	T/M	aCg/aTg	rs760154787	.	.	-1	LRFN2	HGNC	21226	protein_coding	YES	CCDS34443.1	ENSP00000345985	LRFN2_HUMAN	.	UPI00001C1E47	.	deleterious(0)	probably_damaging(0.997)	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.T753T|c.2259G>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTCGTCCAG	.	5	BLCA
GSTA3	0	.	GRCh37	6	52764869	52764869	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.277G>C	p.Asp93His	p.D93H	ENST00000211122	5/7	80	69	11	85	85	0	GSTA3,missense_variant,p.Asp43His,ENST00000431899,;GSTA3,missense_variant,p.Asp43His,ENST00000370968,;GSTA3,missense_variant,p.Asp93His,ENST00000211122,;	G	ENSG00000174156	ENST00000211122	Transcript	missense_variant	343	277	93	D/H	Gat/Cat	.	.	.	-1	GSTA3	HGNC	4628	protein_coding	YES	CCDS4947.1	ENSP00000211122	GSTA3_HUMAN	Q5JW85_HUMAN	UPI000012BCA7	.	deleterious(0.02)	probably_damaging(0.998)	5/7	.	PROSITE_profiles:PS50405,hmmpanther:PTHR11571,hmmpanther:PTHR11571:SF102,Gene3D:1.20.1050.10,Superfamily_domains:SSF47616,Prints_domain:PR01266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATATCAATTC	.	4	BLCA
DST	0	.	GRCh37	6	56468844	56468844	+	Intron	SNP	T	T	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3673-3825A>G	.	.	ENST00000244364	.	24	11	12	26	26	0	DST,missense_variant,p.Ile2991Val,ENST00000439203,;DST,missense_variant,p.Ile2991Val,ENST00000446842,;DST,missense_variant,p.Ile3495Val,ENST00000370754,;DST,missense_variant,p.Ile3317Val,ENST00000361203,;DST,missense_variant,p.Ile3317Val,ENST00000370769,;DST,missense_variant,p.Ile3317Val,ENST00000312431,;DST,intron_variant,,ENST00000370788,;DST,intron_variant,,ENST00000244364,;DST,intron_variant,,ENST00000421834,;	C	ENSG00000151914	ENST00000244364	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DST	HGNC	1090	protein_coding	YES	CCDS47443.1	ENSP00000244364	DYST_HUMAN	Q86T18_HUMAN	UPI00001C1577	.	.	.	.	25/83	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAATATGTG	.	5	BLCA
SNRNP48	0	.	GRCh37	6	7601709	7601709	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547G>A	p.Glu183Lys	p.E183K	ENST00000342415	5/9	99	89	10	100	100	0	SNRNP48,missense_variant,p.Glu183Lys,ENST00000342415,;SNRNP48,non_coding_transcript_exon_variant,,ENST00000496946,;	A	ENSG00000168566	ENST00000342415	Transcript	missense_variant	606	547	183	E/K	Gaa/Aaa	.	.	.	1	SNRNP48	HGNC	21368	protein_coding	YES	CCDS4502.1	ENSP00000339834	SNR48_HUMAN	.	UPI000020E4AD	.	tolerated(0.06)	benign(0.137)	5/9	.	hmmpanther:PTHR21402,hmmpanther:PTHR21402:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTATTGAAAAT	.	4	BLCA
MUC17	0	.	GRCh37	7	100687057	100687057	+	Silent	SNP	G	G	A	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12360G>A	p.%3D	p.K4120K	ENST00000306151	3/13	78	67	10	43	43	0	MUC17,synonymous_variant,p.%3D,ENST00000306151,;MUC17,synonymous_variant,p.%3D,ENST00000379439,;MUC17,non_coding_transcript_exon_variant,,ENST00000470303,;	A	ENSG00000169876	ENST00000306151	Transcript	synonymous_variant	12424	12360	4120	K	aaG/aaA	COSM1547560	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTAAGAGCAA	.	4	BLCA
RELN	0	.	GRCh37	7	103629704	103629704	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100T>C	p.Ser34Pro	p.S34P	ENST00000428762	1/65	49	30	18	28	28	0	RELN,missense_variant,p.Ser34Pro,ENST00000424685,;RELN,missense_variant,p.Ser34Pro,ENST00000428762,;RELN,missense_variant,p.Ser34Pro,ENST00000343529,;	G	ENSG00000189056	ENST00000428762	Transcript	missense_variant	260	100	34	S/P	Tcg/Ccg	.	.	.	-1	RELN	HGNC	9957	protein_coding	YES	CCDS47680.1	ENSP00000392423	RELN_HUMAN	Q75MM8_HUMAN	UPI00001678BC	.	deleterious(0.04)	benign(0.363)	1/65	.	PROSITE_profiles:PS51019	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCGAAAAGC	.	5	BLCA
ETV1	0	.	GRCh37	7	13978872	13978872	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.236-1G>C	.	p.X79_splice	ENST00000430479	.	55	24	30	44	44	0	ETV1,splice_acceptor_variant,,ENST00000420159,;ETV1,splice_acceptor_variant,,ENST00000403685,;ETV1,splice_acceptor_variant,,ENST00000343495,;ETV1,splice_acceptor_variant,,ENST00000430479,;ETV1,splice_acceptor_variant,,ENST00000405218,;ETV1,splice_acceptor_variant,,ENST00000403527,;ETV1,splice_acceptor_variant,,ENST00000431887,;ETV1,splice_acceptor_variant,,ENST00000438956,;ETV1,splice_acceptor_variant,,ENST00000399357,;ETV1,splice_acceptor_variant,,ENST00000405192,;ETV1,splice_acceptor_variant,,ENST00000242066,;ETV1,splice_acceptor_variant,,ENST00000405358,;ETV1,splice_acceptor_variant,,ENST00000443608,;ETV1,splice_acceptor_variant,,ENST00000421381,;ETV1,splice_acceptor_variant,,ENST00000476720,;ETV1,splice_acceptor_variant,,ENST00000497115,;ETV1,splice_acceptor_variant,,ENST00000472931,;ETV1,splice_acceptor_variant,,ENST00000443137,;ETV1,splice_acceptor_variant,,ENST00000476355,;	G	ENSG00000006468	ENST00000430479	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	ETV1	HGNC	3490	protein_coding	YES	CCDS55088.1	ENSP00000405327	ETV1_HUMAN	C9J9L1_HUMAN,C9J4P4_HUMAN,C9J0B7_HUMAN	UPI000012A26E	.	.	.	.	6/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGCCACTAGAA	.	4	BLCA
TMEM176B	0	.	GRCh37	7	150493676	150493676	+	Intron	SNP	G	G	C	rs577085488	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-5-14C>G	.	.	ENST00000447204	.	37	31	6	34	34	0	TMEM176B,5_prime_UTR_variant,,ENST00000429904,;TMEM176B,intron_variant,,ENST00000447204,;TMEM176B,intron_variant,,ENST00000434545,;TMEM176B,intron_variant,,ENST00000492607,;TMEM176B,intron_variant,,ENST00000450753,;TMEM176B,intron_variant,,ENST00000326442,;TMEM176A,upstream_gene_variant,,ENST00000004103,;TMEM176A,upstream_gene_variant,,ENST00000484928,;TMEM176A,upstream_gene_variant,,ENST00000461345,;TMEM176A,upstream_gene_variant,,ENST00000475710,;TMEM176A,upstream_gene_variant,,ENST00000494349,;	C	ENSG00000106565	ENST00000447204	Transcript	intron_variant	.	.	.	.	.	rs577085488	.	.	-1	TMEM176B	HGNC	29596	protein_coding	YES	CCDS5908.1	ENSP00000410269	T176B_HUMAN	.	UPI000013C82B	.	.	.	.	1/6	.	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAAGACATA	by1000G	5	BLCA
CCDC129	0	.	GRCh37	7	31683123	31683123	+	Silent	SNP	C	C	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2217C>T	p.%3D	p.S739S	ENST00000451887	11/15	27	18	9	52	52	0	CCDC129,synonymous_variant,p.%3D,ENST00000451887,;CCDC129,synonymous_variant,p.%3D,ENST00000409210,;CCDC129,synonymous_variant,p.%3D,ENST00000319386,;CCDC129,synonymous_variant,p.%3D,ENST00000407970,;	T	ENSG00000180347	ENST00000451887	Transcript	synonymous_variant	2229	2217	739	S	tcC/tcT	.	.	.	1	CCDC129	HGNC	27363	protein_coding	YES	CCDS59050.1	ENSP00000395835	CC129_HUMAN	E7ERG9_HUMAN,E7EQ43_HUMAN,B8ZZ49_HUMAN	UPI00020655D9	.	.	.	11/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR17469,hmmpanther:PTHR17469:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTCCTCCAG	.	5	BLCA
HECW1	0	.	GRCh37	7	43547627	43547627	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3763C>T	p.Arg1255Cys	p.R1255C	ENST00000395891	23/30	74	70	4	45	45	0	HECW1,missense_variant,p.Arg1221Cys,ENST00000453890,;HECW1,missense_variant,p.Arg1255Cys,ENST00000395891,;HECW1,intron_variant,,ENST00000429529,;AC011738.4,downstream_gene_variant,,ENST00000436105,;	T	ENSG00000002746	ENST00000395891	Transcript	missense_variant	4368	3763	1255	R/C	Cgc/Tgc	COSM3638815,COSM1313094,COSM1313095,COSM3638814	.	.	1	HECW1	HGNC	22195	protein_coding	YES	CCDS5469.2	ENSP00000379228	HECW1_HUMAN	A4D1V5_HUMAN	UPI0000D74C41	.	deleterious(0)	probably_damaging(0.999)	23/30	.	hmmpanther:PTHR11254:SF79,hmmpanther:PTHR11254,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTATTCGCCGG	.	2	BLCA
KDELR2	0	.	GRCh37	7	6509247	6509247	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331C>T	p.His111Tyr	p.H111Y	ENST00000258739	3/5	88	49	39	58	58	0	KDELR2,missense_variant,p.His111Tyr,ENST00000490996,;KDELR2,missense_variant,p.His111Tyr,ENST00000258739,;DAGLB,intron_variant,,ENST00000436575,;KDELR2,intron_variant,,ENST00000463747,;KDELR2,non_coding_transcript_exon_variant,,ENST00000454368,;KDELR2,downstream_gene_variant,,ENST00000462052,;KDELR2,downstream_gene_variant,,ENST00000382267,;	A	ENSG00000136240	ENST00000258739	Transcript	missense_variant	516	331	111	H/Y	Cac/Tac	.	.	.	-1	KDELR2	HGNC	6305	protein_coding	YES	CCDS5351.1	ENSP00000258739	ERD22_HUMAN	.	UPI000012A0CC	.	tolerated(0.65)	benign(0.006)	3/5	.	hmmpanther:PTHR10585:SF6,hmmpanther:PTHR10585,Pfam_domain:PF00810	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCGTGATTAA	.	5	BLCA
STEAP1	0	.	GRCh37	7	89790153	89790153	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.119G>C	p.Arg40Thr	p.R40T	ENST00000297205	3/5	161	129	31	184	184	0	STEAP1,missense_variant,p.Arg40Thr,ENST00000297205,;STEAP2-AS1,intron_variant,,ENST00000478318,;STEAP1,non_coding_transcript_exon_variant,,ENST00000475789,;STEAP1,upstream_gene_variant,,ENST00000412573,;	C	ENSG00000164647	ENST00000297205	Transcript	missense_variant	319	119	40	R/T	aGa/aCa	.	.	.	1	STEAP1	HGNC	11378	protein_coding	YES	CCDS5614.1	ENSP00000297205	STEA1_HUMAN	.	UPI000003C398	.	tolerated_low_confidence(0.2)	benign(0.002)	3/5	.	hmmpanther:PTHR14239,hmmpanther:PTHR14239:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAAAGACCTG	.	5	BLCA
TRRAP	0	.	GRCh37	7	98528335	98528335	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3473T>G	p.Leu1158Arg	p.L1158R	ENST00000359863	25/72	175	106	68	124	124	0	TRRAP,missense_variant,p.Leu1158Arg,ENST00000355540,;TRRAP,missense_variant,p.Leu1157Arg,ENST00000446306,;TRRAP,missense_variant,p.Leu873Arg,ENST00000456197,;TRRAP,missense_variant,p.Leu1158Arg,ENST00000359863,;	G	ENSG00000196367	ENST00000359863	Transcript	missense_variant	3682	3473	1158	L/R	cTg/cGg	.	.	.	1	TRRAP	HGNC	12347	protein_coding	YES	CCDS59066.1	ENSP00000352925	TRRAP_HUMAN	C9K0N1_HUMAN	UPI00004575B4	.	.	possibly_damaging(0.851)	25/72	.	hmmpanther:PTHR11139:SF1,hmmpanther:PTHR11139,Gene3D:1.25.10.10,Superfamily_domains:SSF48371,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGCTGGGGG	.	5	BLCA
RGS22	0	.	GRCh37	8	101092487	101092487	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214C>G	p.Leu72Val	p.L72V	ENST00000360863	4/28	83	43	40	57	56	1	RGS22,missense_variant,p.Leu72Val,ENST00000523437,;RGS22,missense_variant,p.Leu72Val,ENST00000360863,;RGS22,5_prime_UTR_variant,,ENST00000519092,;RGS22,5_prime_UTR_variant,,ENST00000519408,;RGS22,5_prime_UTR_variant,,ENST00000523287,;RGS22,intron_variant,,ENST00000520117,;RGS22,intron_variant,,ENST00000517828,;RGS22,downstream_gene_variant,,ENST00000523600,;RGS22,downstream_gene_variant,,ENST00000522064,;RGS22,missense_variant,p.Leu72Val,ENST00000519725,;RGS22,non_coding_transcript_exon_variant,,ENST00000520923,;	C	ENSG00000132554	ENST00000360863	Transcript	missense_variant	409	214	72	L/V	Cta/Gta	COSM453740,COSM453741	.	.	-1	RGS22	HGNC	24499	protein_coding	YES	CCDS43758.1	ENSP00000354109	RGS22_HUMAN	E5RHE4_HUMAN,E5RFV6_HUMAN	UPI0000E5AF25	.	deleterious(0.01)	benign(0.055)	4/28	.	hmmpanther:PTHR10845:SF132,hmmpanther:PTHR10845	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTGTAGAATTT	.	4	BLCA
GSDMC	0	.	GRCh37	8	130761712	130761712	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1273C>T	p.Gln425Ter	p.Q425*	ENST00000276708	13/14	52	46	6	39	39	0	GSDMC,stop_gained,p.Gln425Ter,ENST00000276708,;GSDMC,non_coding_transcript_exon_variant,,ENST00000522273,;GSDMC,downstream_gene_variant,,ENST00000521365,;	A	ENSG00000147697	ENST00000276708	Transcript	stop_gained	2155	1273	425	Q/*	Cag/Tag	.	.	.	-1	GSDMC	HGNC	7151	protein_coding	YES	CCDS6360.1	ENSP00000276708	GSDMC_HUMAN	.	UPI0000071445	.	.	.	13/14	.	hmmpanther:PTHR16399,hmmpanther:PTHR16399:SF17,Pfam_domain:PF04598	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCTGAAGCA	.	4	BLCA
SCRIB	0	.	GRCh37	8	144891871	144891871	+	Silent	SNP	G	G	A	rs538041646	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1548C>T	p.%3D	p.A516A	ENST00000356994	14/37	62	48	14	69	69	0	SCRIB,synonymous_variant,p.%3D,ENST00000377533,;SCRIB,synonymous_variant,p.%3D,ENST00000356994,;SCRIB,synonymous_variant,p.%3D,ENST00000320476,;SCRIB,upstream_gene_variant,,ENST00000531942,;MIR937,downstream_gene_variant,,ENST00000401271,;	A	ENSG00000180900	ENST00000356994	Transcript	synonymous_variant	1555	1548	516	A	gcC/gcT	rs538041646	.	.	-1	SCRIB	HGNC	30377	protein_coding	YES	CCDS6412.1	ENSP00000349486	SCRIB_HUMAN	.	UPI00004576FD	.	.	.	14/37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTCGGCACT	byFrequency|byCluster	5	BLCA
EPPK1	0	.	GRCh37	8	144942388	144942388	+	Silent	SNP	G	G	A	rs782182977	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5034C>T	p.%3D	p.I1678I	ENST00000525985	2/2	73	64	8	94	94	0	EPPK1,synonymous_variant,p.%3D,ENST00000525985,;	A	ENSG00000227184	ENST00000525985	Transcript	synonymous_variant	5106	5034	1678	I	atC/atT	rs782182977	.	.	-1	EPPK1	HGNC	15577	protein_coding	YES	.	ENSP00000436337	.	E9PPU0_HUMAN	UPI00006C0DF1	.	.	.	2/2	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,Pfam_domain:PF00681,hmmpanther:PTHR11915:SF252,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCGGATGCC	.	4	BLCA
EPPK1	0	.	GRCh37	8	144943216	144943216	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4206C>A	p.Phe1402Leu	p.F1402L	ENST00000525985	2/2	25	21	3	33	33	0	EPPK1,missense_variant,p.Phe1402Leu,ENST00000525985,;	T	ENSG00000227184	ENST00000525985	Transcript	missense_variant	4278	4206	1402	F/L	ttC/ttA	.	.	.	-1	EPPK1	HGNC	15577	protein_coding	YES	.	ENSP00000436337	.	E9PPU0_HUMAN	UPI00006C0DF1	.	.	benign(0.001)	2/2	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF252,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAGAAGAACTT	.	3	BLCA
PREX2	0	.	GRCh37	8	69020480	69020480	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2852C>G	p.Ser951Ter	p.S951*	ENST00000288368	24/40	70	62	8	69	69	0	PREX2,stop_gained,p.Ser951Ter,ENST00000288368,;PREX2,non_coding_transcript_exon_variant,,ENST00000517617,;PREX2,downstream_gene_variant,,ENST00000529398,;	G	ENSG00000046889	ENST00000288368	Transcript	stop_gained	3129	2852	951	S/*	tCa/tGa	.	.	.	1	PREX2	HGNC	22950	protein_coding	YES	CCDS6201.1	ENSP00000288368	PREX2_HUMAN	Q56UR8_HUMAN	UPI0000375435	.	.	.	24/40	.	hmmpanther:PTHR22829,hmmpanther:PTHR22829:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATCAACCT	.	4	BLCA
RALYL	0	.	GRCh37	8	85774568	85774568	+	Missense_Mutation	SNP	C	C	T	rs527942610	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.490C>T	p.Arg164Cys	p.R164C	ENST00000517638	6/9	19	11	7	20	18	1	RALYL,missense_variant,p.Arg62Cys,ENST00000521376,;RALYL,missense_variant,p.Arg78Cys,ENST00000523850,;RALYL,missense_variant,p.Arg151Cys,ENST00000521695,;RALYL,missense_variant,p.Arg151Cys,ENST00000521268,;RALYL,missense_variant,p.Arg140Cys,ENST00000518566,;RALYL,missense_variant,p.Arg151Cys,ENST00000522455,;RALYL,missense_variant,p.Arg164Cys,ENST00000517638,;RP11-98H4.4,downstream_gene_variant,,ENST00000521595,;	T	ENSG00000184672	ENST00000517638	Transcript	missense_variant	614	490	164	R/C	Cgt/Tgt	rs527942610,COSM606284,COSM606285	.	.	1	RALYL	HGNC	27036	protein_coding	YES	CCDS55252.1	ENSP00000430128	.	G3V129_HUMAN,E5RIX9_HUMAN,E5RG71_HUMAN	UPI00002108E6	.	deleterious(0)	possibly_damaging(0.474)	6/9	.	hmmpanther:PTHR13968,PIRSF_domain:PIRSF037992	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R151H|c.452G>A|3,BUFFER|p.R151H|c.452G>A|3	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTCCCCGTGCA	by1000G	4	BLCA
CNBD1	0	.	GRCh37	8	88296917	88296917	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783G>C	p.Trp261Cys	p.W261C	ENST00000518476	7/11	19	13	6	17	17	0	CNBD1,missense_variant,p.Trp261Cys,ENST00000518476,;CNBD1,upstream_gene_variant,,ENST00000523299,;CNBD1,non_coding_transcript_exon_variant,,ENST00000522427,;	C	ENSG00000176571	ENST00000518476	Transcript	missense_variant	834	783	261	W/C	tgG/tgC	.	.	.	1	CNBD1	HGNC	26663	protein_coding	YES	CCDS55259.1	ENSP00000430073	CNBD1_HUMAN	.	UPI000006EA68	.	tolerated(0.09)	probably_damaging(0.982)	7/11	.	hmmpanther:PTHR11635,hmmpanther:PTHR11635:SF124,Gene3D:2.60.120.10,Superfamily_domains:SSF51206	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATGGAGTAC	.	5	BLCA
PTPN3	0	.	GRCh37	9	112216856	112216856	+	Splice_Site	SNP	T	T	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.290-2A>T	.	p.X97_splice	ENST00000374541	.	74	13	61	97	97	0	PTPN3,splice_acceptor_variant,,ENST00000374541,;PTPN3,intron_variant,,ENST00000262539,;PTPN3,upstream_gene_variant,,ENST00000446349,;PTPN3,upstream_gene_variant,,ENST00000412145,;	A	ENSG00000070159	ENST00000374541	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	PTPN3	HGNC	9655	protein_coding	YES	CCDS6776.1	ENSP00000363667	PTN3_HUMAN	B7Z8K9_HUMAN	UPI000013D2D2	.	.	.	.	4/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCTACAAC	.	5	BLCA
TTF1	0	.	GRCh37	9	135277549	135277549	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660G>C	p.Lys220Asn	p.K220N	ENST00000334270	2/11	34	23	11	68	68	0	TTF1,missense_variant,p.Lys220Asn,ENST00000334270,;	G	ENSG00000125482	ENST00000334270	Transcript	missense_variant	700	660	220	K/N	aaG/aaC	.	.	.	-1	TTF1	HGNC	12397	protein_coding	YES	CCDS6948.1	ENSP00000333920	TTF1_HUMAN	.	UPI00001B55A7	.	deleterious_low_confidence(0)	possibly_damaging(0.788)	2/11	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTTCTTAGA	.	5	BLCA
DNAJB5	0	.	GRCh37	9	34993317	34993317	+	Silent	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429G>A	p.%3D	p.L143L	ENST00000453597	3/5	111	92	18	135	135	0	DNAJB5,synonymous_variant,p.%3D,ENST00000443266,;DNAJB5,synonymous_variant,p.%3D,ENST00000541010,;DNAJB5,synonymous_variant,p.%3D,ENST00000454002,;DNAJB5,synonymous_variant,p.%3D,ENST00000545841,;DNAJB5,synonymous_variant,p.%3D,ENST00000312316,;DNAJB5,synonymous_variant,p.%3D,ENST00000335998,;DNAJB5,synonymous_variant,p.%3D,ENST00000453597,;DNAJB5,synonymous_variant,p.%3D,ENST00000539059,;DNAJB5,3_prime_UTR_variant,,ENST00000537321,;DNAJB5,3_prime_UTR_variant,,ENST00000458263,;DNAJB5,3_prime_UTR_variant,,ENST00000538278,;DNAJB5,3_prime_UTR_variant,,ENST00000469798,;	A	ENSG00000137094	ENST00000453597	Transcript	synonymous_variant	457	429	143	L	ttG/ttA	.	.	.	1	DNAJB5	HGNC	14887	protein_coding	YES	CCDS47960.2	ENSP00000404079	DNJB5_HUMAN	Q5T657_HUMAN,J3KNR7_HUMAN	UPI000204A71D	.	.	.	3/5	.	PROSITE_profiles:PS50076,hmmpanther:PTHR24077:SF227,hmmpanther:PTHR24077,Gene3D:1.10.287.110,Pfam_domain:PF00226,SMART_domains:SM00271,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTTGAAGTA	.	4	BLCA
CD274	0	.	GRCh37	9	5463001	5463002	+	Frame_Shift_Ins	INS	-	-	TTCA	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562_563insTTCA	p.Glu188ValfsTer18	p.E188Vfs*18	ENST00000381577	4/7	67	46	21	56	56	0	CD274,frameshift_variant,p.Glu74ValfsTer18,ENST00000381573,;CD274,frameshift_variant,p.Glu188ValfsTer18,ENST00000381577,;CD274,non_coding_transcript_exon_variant,,ENST00000474218,;CD274,non_coding_transcript_exon_variant,,ENST00000492923,;CD274,intron_variant,,ENST00000498261,;	TTCA	ENSG00000120217	ENST00000381577	Transcript	frameshift_variant	648-649	562-563	188	E/VQX	gag/gTTCAag	.	.	.	1	CD274	HGNC	17635	protein_coding	YES	CCDS6464.1	ENSP00000370989	PD1L1_HUMAN	.	UPI000003816A	.	.	.	4/7	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF08205,hmmpanther:PTHR25462,hmmpanther:PTHR25462:SF215,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAGAGGAGAAG	.	3	BLCA
TLE4	0	.	GRCh37	9	82321747	82321747	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.869C>T	p.Pro290Leu	p.P290L	ENST00000376552	11/20	93	22	71	124	123	0	TLE4,missense_variant,p.Pro290Leu,ENST00000376552,;TLE4,missense_variant,p.Pro23Leu,ENST00000417836,;TLE4,missense_variant,p.Pro290Leu,ENST00000376537,;TLE4,missense_variant,p.Pro290Leu,ENST00000376520,;TLE4,missense_variant,p.Pro265Leu,ENST00000265284,;TLE4,missense_variant,p.Pro81Leu,ENST00000496114,;TLE4,5_prime_UTR_variant,,ENST00000376534,;TLE4,intron_variant,,ENST00000376544,;TLE4,intron_variant,,ENST00000467142,;TLE4,intron_variant,,ENST00000490347,;TLE4,intron_variant,,ENST00000428713,;TLE4,non_coding_transcript_exon_variant,,ENST00000463431,;TLE4,upstream_gene_variant,,ENST00000478290,;TLE4,3_prime_UTR_variant,,ENST00000462803,;TLE4,3_prime_UTR_variant,,ENST00000470872,;TLE4,non_coding_transcript_exon_variant,,ENST00000495170,;	T	ENSG00000106829	ENST00000376552	Transcript	missense_variant	1887	869	290	P/L	cCg/cTg	COSM1110377,COSM1110378	.	.	1	TLE4	HGNC	11840	protein_coding	YES	CCDS43837.1	ENSP00000365735	TLE4_HUMAN	B3KQ29_HUMAN	UPI00001CE3BA	.	tolerated(0.07)	benign(0.102)	11/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10814,hmmpanther:PTHR10814:SF21	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCCCGATTA	.	5	BLCA
STAG2	0	.	GRCh37	X	123220456	123220456	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3113G>A	p.Trp1038Ter	p.W1038*	ENST00000218089	30/35	47	7	39	46	46	0	STAG2,stop_gained,p.Trp969Ter,ENST00000354548,;STAG2,stop_gained,p.Trp1038Ter,ENST00000371157,;STAG2,stop_gained,p.Trp1038Ter,ENST00000371144,;STAG2,stop_gained,p.Trp1038Ter,ENST00000371160,;STAG2,stop_gained,p.Trp1038Ter,ENST00000371145,;STAG2,stop_gained,p.Trp1038Ter,ENST00000218089,;STAG2,intron_variant,,ENST00000469481,;	A	ENSG00000101972	ENST00000218089	Transcript	stop_gained	3623	3113	1038	W/*	tGg/tAg	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	.	.	30/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGTGGCTTC	.	5	BLCA
ARHGEF6	0	.	GRCh37	X	135772879	135772879	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075C>G	p.Gln359Glu	p.Q359E	ENST00000250617	10/22	47	35	11	39	39	0	ARHGEF6,missense_variant,p.Gln205Glu,ENST00000370620,;ARHGEF6,missense_variant,p.Gln359Glu,ENST00000250617,;ARHGEF6,missense_variant,p.Gln205Glu,ENST00000370622,;ARHGEF6,missense_variant,p.Gln232Glu,ENST00000535227,;	C	ENSG00000129675	ENST00000250617	Transcript	missense_variant	2281	1075	359	Q/E	Caa/Gaa	COSM1115805	.	.	-1	ARHGEF6	HGNC	685	protein_coding	YES	CCDS14660.1	ENSP00000250617	ARHG6_HUMAN	.	UPI0000001C8E	.	tolerated(0.11)	benign(0.439)	10/22	.	PROSITE_profiles:PS50010,hmmpanther:PTHR22826,hmmpanther:PTHR22826:SF92,Pfam_domain:PF00621,Gene3D:1.20.900.10,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTGATTTT	.	5	BLCA
MIR513A1	0	.	GRCh37	X	146294979	146294979	+	3'Flank	SNP	C	C	G	novel	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000385138	.	34	22	11	38	38	0	MIR513A1,downstream_gene_variant,,ENST00000385138,;	G	ENSG00000207873	ENST00000385138	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	2	-1	MIR513A1	HGNC	32141	miRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTCAGGGA	.	5	BLCA
KDM6A	0	.	GRCh37	X	44922802	44922802	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-4Z-AA89-01A-11D-A391-08	TCGA-4Z-AA89-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1663C>T	p.Gln555Ter	p.Q555*	ENST00000377967	16/29	29	1	27	21	21	0	KDM6A,stop_gained,p.Gln198Ter,ENST00000433797,;KDM6A,stop_gained,p.Gln153Ter,ENST00000414389,;KDM6A,stop_gained,p.Gln185Ter,ENST00000451692,;KDM6A,stop_gained,p.Gln476Ter,ENST00000543216,;KDM6A,stop_gained,p.Gln562Ter,ENST00000382899,;KDM6A,stop_gained,p.Gln555Ter,ENST00000377967,;KDM6A,stop_gained,p.Gln510Ter,ENST00000536777,;	T	ENSG00000147050	ENST00000377967	Transcript	stop_gained	1704	1663	555	Q/*	Cag/Tag	COSM255017,COSM4005103,COSM4005104	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	16/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q555*|c.1663C>T|6,CODON|p.0?|c.1_4206del4206|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTCAGCCT	.	5	BLCA
FGF8	0	.	GRCh37	10	103531253	103531253	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411C>G	p.Ile137Met	p.I137M	ENST00000320185	5/6	98	80	17	83	83	0	FGF8,missense_variant,p.Ile126Met,ENST00000344255,;FGF8,missense_variant,p.Ile97Met,ENST00000346714,;FGF8,missense_variant,p.Ile108Met,ENST00000347978,;FGF8,missense_variant,p.Ile137Met,ENST00000320185,;FGF8,non_coding_transcript_exon_variant,,ENST00000485728,;FGF8,3_prime_UTR_variant,,ENST00000469792,;	C	ENSG00000107831	ENST00000320185	Transcript	missense_variant	470	411	137	I/M	atC/atG	COSM415195	.	.	-1	FGF8	HGNC	3686	protein_coding	YES	CCDS7516.1	ENSP00000321797	FGF8_HUMAN	.	UPI000002A991	.	deleterious(0.01)	possibly_damaging(0.881)	5/6	.	Prints_domain:PR00262,Superfamily_domains:SSF50353,SMART_domains:SM00442,Pfam_domain:PF00167,Gene3D:2.80.10.50,hmmpanther:PTHR11486:SF3,hmmpanther:PTHR11486	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGATGTA	.	5	BLCA
NT5C2	0	.	GRCh37	10	104857052	104857052	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.767C>T	p.Thr256Ile	p.T256I	ENST00000343289	10/18	130	111	19	111	111	0	NT5C2,missense_variant,p.Thr256Ile,ENST00000343289,;NT5C2,missense_variant,p.Thr256Ile,ENST00000404739,;NT5C2,missense_variant,p.Thr227Ile,ENST00000423468,;NT5C2,upstream_gene_variant,,ENST00000421281,;NT5C2,downstream_gene_variant,,ENST00000458345,;NT5C2,non_coding_transcript_exon_variant,,ENST00000369857,;NT5C2,downstream_gene_variant,,ENST00000481549,;NT5C2,downstream_gene_variant,,ENST00000487810,;NT5C2,missense_variant,p.Thr264Ile,ENST00000452156,;NT5C2,downstream_gene_variant,,ENST00000470228,;NT5C2,upstream_gene_variant,,ENST00000469228,;NT5C2,downstream_gene_variant,,ENST00000461461,;NT5C2,downstream_gene_variant,,ENST00000552185,;	A	ENSG00000076685	ENST00000343289	Transcript	missense_variant	855	767	256	T/I	aCa/aTa	COSM415186	.	.	-1	NT5C2	HGNC	8022	protein_coding	YES	CCDS7544.1	ENSP00000339479	5NTC_HUMAN	.	UPI0000124F44	.	deleterious(0.01)	possibly_damaging(0.734)	10/18	.	Superfamily_domains:SSF56784,PIRSF_domain:PIRSF017434,Pfam_domain:PF05761,Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR02244,hmmpanther:PTHR12103,hmmpanther:PTHR12103:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUSE|VARSCANS	CATCTGTATAT	.	3	BLCA
WDR96	0	.	GRCh37	10	105903397	105903397	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3945G>A	p.%3D	p.R1315R	ENST00000357060	32/38	31	28	3	61	61	0	WDR96,synonymous_variant,p.%3D,ENST00000457071,;WDR96,synonymous_variant,p.%3D,ENST00000428666,;WDR96,synonymous_variant,p.%3D,ENST00000357060,;WDR96,synonymous_variant,p.%3D,ENST00000434629,;WDR96,upstream_gene_variant,,ENST00000479392,;	T	ENSG00000197748	ENST00000357060	Transcript	synonymous_variant	4061	3945	1315	R	agG/agA	COSM415181	.	.	-1	WDR96	HGNC	26684	protein_coding	YES	CCDS31281.1	ENSP00000349568	WDR96_HUMAN	.	UPI0000D60FC7	.	.	.	32/38	.	hmmpanther:PTHR14885	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAATCCTGGT	.	2	BLCA
TDRD1	0	.	GRCh37	10	115985891	115985891	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3091G>A	p.Glu1031Lys	p.E1031K	ENST00000251864	22/26	101	71	30	111	111	0	TDRD1,missense_variant,p.Glu1031Lys,ENST00000369282,;TDRD1,missense_variant,p.Glu917Lys,ENST00000369281,;TDRD1,missense_variant,p.Glu1031Lys,ENST00000251864,;TDRD1,missense_variant,p.Glu1031Lys,ENST00000369280,;TDRD1,missense_variant,p.Glu635Lys,ENST00000422662,;	A	ENSG00000095627	ENST00000251864	Transcript	missense_variant	3244	3091	1031	E/K	Gaa/Aaa	COSM415163	.	.	1	TDRD1	HGNC	11712	protein_coding	YES	CCDS7588.1	ENSP00000251864	TDRD1_HUMAN	.	UPI00001F9753	.	deleterious(0)	probably_damaging(0.953)	22/26	.	Superfamily_domains:SSF63748,SMART_domains:SM00333,Gene3D:2.30.30.140,Pfam_domain:PF00567,hmmpanther:PTHR22948,hmmpanther:PTHR22948:SF4,PROSITE_profiles:PS50304	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTGAAACC	.	5	BLCA
TRUB1	0	.	GRCh37	10	116702491	116702491	+	Missense_Mutation	SNP	G	G	A	rs143607039	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374G>A	p.Arg125Gln	p.R125Q	ENST00000298746	2/8	72	57	14	54	54	0	TRUB1,missense_variant,p.Arg125Gln,ENST00000298746,;TRUB1,non_coding_transcript_exon_variant,,ENST00000485065,;	A	ENSG00000165832	ENST00000298746	Transcript	missense_variant	435	374	125	R/Q	cGa/cAa	rs143607039,COSM212179	.	.	1	TRUB1	HGNC	16060	protein_coding	YES	CCDS7591.1	ENSP00000298746	TRUB1_HUMAN	B4DZ90_HUMAN,B3KWQ1_HUMAN	UPI000006DEBE	.	tolerated(0.59)	benign(0.002)	2/8	.	HAMAP:MF_01080,hmmpanther:PTHR13767:SF2,hmmpanther:PTHR13767,Pfam_domain:PF01509,TIGRFAM_domain:TIGR00431,Superfamily_domains:SSF55120	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R125Q|c.374G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCGAGGAG	byCluster	5	BLCA
UPF2	0	.	GRCh37	10	11994206	11994206	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2893G>C	p.Asp965His	p.D965H	ENST00000356352	14/21	105	82	22	112	112	0	UPF2,missense_variant,p.Asp965His,ENST00000357604,;UPF2,missense_variant,p.Asp965His,ENST00000356352,;UPF2,missense_variant,p.Asp965His,ENST00000397053,;	G	ENSG00000151461	ENST00000356352	Transcript	missense_variant	3367	2893	965	D/H	Gac/Cac	COSM415157	.	.	-1	UPF2	HGNC	17854	protein_coding	YES	CCDS7086.1	ENSP00000348708	RENT2_HUMAN	B4DHP3_HUMAN	UPI0000070D5E	.	deleterious(0.01)	possibly_damaging(0.861)	14/21	.	hmmpanther:PTHR12839,Gene3D:1.25.40.180,Pfam_domain:PF02854,SMART_domains:SM00543,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTCTTTTG	.	5	BLCA
EIF3A	0	.	GRCh37	10	120809348	120809348	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2623G>C	p.Glu875Gln	p.E875Q	ENST00000369144	17/22	343	254	89	354	354	0	EIF3A,missense_variant,p.Glu841Gln,ENST00000541549,;EIF3A,missense_variant,p.Glu875Gln,ENST00000369144,;	G	ENSG00000107581	ENST00000369144	Transcript	missense_variant	2751	2623	875	E/Q	Gag/Cag	COSM415154	.	.	-1	EIF3A	HGNC	3271	protein_coding	YES	CCDS7608.1	ENSP00000358140	EIF3A_HUMAN	F5H335_HUMAN	UPI000012D311	.	deleterious(0.03)	unknown(0)	17/22	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,HAMAP:MF_03000,hmmpanther:PTHR14005:SF0,hmmpanther:PTHR14005	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCTTCCT	.	5	BLCA
PLEKHA1	0	.	GRCh37	10	124152833	124152833	+	Silent	SNP	C	C	T	rs142005373	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.117C>T	p.%3D	p.F39F	ENST00000368990	2/12	102	79	22	74	74	0	PLEKHA1,synonymous_variant,p.%3D,ENST00000392799,;PLEKHA1,synonymous_variant,p.%3D,ENST00000368988,;PLEKHA1,synonymous_variant,p.%3D,ENST00000538022,;PLEKHA1,synonymous_variant,p.%3D,ENST00000368990,;PLEKHA1,synonymous_variant,p.%3D,ENST00000368989,;PLEKHA1,synonymous_variant,p.%3D,ENST00000433307,;PLEKHA1,synonymous_variant,p.%3D,ENST00000463663,;PLEKHA1,non_coding_transcript_exon_variant,,ENST00000494222,;	T	ENSG00000107679	ENST00000368990	Transcript	synonymous_variant	248	117	39	F	ttC/ttT	rs142005373,COSM262993,COSM3435004	.	.	1	PLEKHA1	HGNC	14335	protein_coding	YES	CCDS7629.1	ENSP00000357986	PKHA1_HUMAN	R4GMZ9_HUMAN,B3KQL5_HUMAN	UPI000000D9DC	.	.	.	2/12	.	PROSITE_profiles:PS50003,hmmpanther:PTHR14336,hmmpanther:PTHR14336:SF4,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F39F|c.117C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCGTGTG	byCluster	5	BLCA
DMBT1	0	.	GRCh37	10	124358515	124358515	+	Missense_Mutation	SNP	G	G	T	rs773151482	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3182G>T	p.Arg1061Leu	p.R1061L	ENST00000368909	26/53	209	158	50	224	224	0	DMBT1,missense_variant,p.Arg562Leu,ENST00000368956,;DMBT1,missense_variant,p.Arg562Leu,ENST00000330163,;DMBT1,missense_variant,p.Arg1051Leu,ENST00000344338,;DMBT1,missense_variant,p.Arg1051Leu,ENST00000368955,;DMBT1,missense_variant,p.Arg1061Leu,ENST00000368909,;DMBT1,missense_variant,p.Arg1061Leu,ENST00000338354,;DMBT1,intron_variant,,ENST00000359586,;	T	ENSG00000187908	ENST00000368909	Transcript	missense_variant	3288	3182	1061	R/L	cGc/cTc	rs773151482,COSM415139,COSM415137,COSM415138	.	.	1	DMBT1	HGNC	2926	protein_coding	YES	CCDS44490.1	ENSP00000357905	DMBT1_HUMAN	B6V682_HUMAN	UPI000047021C	.	tolerated(0.18)	unknown(0)	26/53	.	Superfamily_domains:SSF56487,SMART_domains:SM00202,Gene3D:3.10.250.10,Pfam_domain:PF00530,hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF250,PROSITE_profiles:PS50287	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TGTGCGCTGCT	byFrequency	3	BLCA
DMBT1	0	.	GRCh37	10	124358521	124358521	+	Nonsense_Mutation	SNP	C	C	G	rs747011103	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3188C>G	p.Ser1063Ter	p.S1063*	ENST00000368909	26/53	197	154	42	206	206	0	DMBT1,stop_gained,p.Ser564Ter,ENST00000368956,;DMBT1,stop_gained,p.Ser564Ter,ENST00000330163,;DMBT1,stop_gained,p.Ser1053Ter,ENST00000344338,;DMBT1,stop_gained,p.Ser1053Ter,ENST00000368955,;DMBT1,stop_gained,p.Ser1063Ter,ENST00000368909,;DMBT1,stop_gained,p.Ser1063Ter,ENST00000338354,;DMBT1,intron_variant,,ENST00000359586,;	G	ENSG00000187908	ENST00000368909	Transcript	stop_gained	3294	3188	1063	S/*	tCa/tGa	rs747011103,COSM415136,COSM415134,COSM415135	.	.	1	DMBT1	HGNC	2926	protein_coding	YES	CCDS44490.1	ENSP00000357905	DMBT1_HUMAN	B6V682_HUMAN	UPI000047021C	.	.	.	26/53	.	Superfamily_domains:SSF56487,SMART_domains:SM00202,Gene3D:3.10.250.10,Pfam_domain:PF00530,hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF250,PROSITE_profiles:PS50287	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	CTGCTCAGGAC	byFrequency	3	BLCA
EDRF1	0	.	GRCh37	10	127429114	127429114	+	Silent	SNP	G	G	A	rs747365230	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2064G>A	p.%3D	p.L688L	ENST00000356792	16/25	115	94	20	108	108	0	EDRF1,synonymous_variant,p.%3D,ENST00000356792,;EDRF1,synonymous_variant,p.%3D,ENST00000337623,;EDRF1,synonymous_variant,p.%3D,ENST00000368813,;EDRF1-AS1,downstream_gene_variant,,ENST00000602030,;EDRF1-AS1,downstream_gene_variant,,ENST00000449436,;EDRF1-AS1,downstream_gene_variant,,ENST00000593871,;EDRF1-AS1,downstream_gene_variant,,ENST00000600784,;EDRF1-AS1,downstream_gene_variant,,ENST00000594025,;EDRF1,synonymous_variant,p.%3D,ENST00000419769,;EDRF1,3_prime_UTR_variant,,ENST00000368815,;EDRF1,3_prime_UTR_variant,,ENST00000481600,;EDRF1,non_coding_transcript_exon_variant,,ENST00000525091,;EDRF1,downstream_gene_variant,,ENST00000530795,;	A	ENSG00000107938	ENST00000356792	Transcript	synonymous_variant	2296	2064	688	L	ctG/ctA	rs747365230,COSM415126	.	.	1	EDRF1	HGNC	24640	protein_coding	YES	CCDS55733.1	ENSP00000349244	EDRF1_HUMAN	.	UPI00005CA2E3	.	.	.	16/25	.	hmmpanther:PTHR15000:SF1,hmmpanther:PTHR15000	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTGATTCT	.	4	BLCA
MSRB2	0	.	GRCh37	10	23408326	23408326	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.390G>A	p.%3D	p.L130L	ENST00000376510	4/5	124	99	25	115	115	0	MSRB2,synonymous_variant,p.%3D,ENST00000376510,;MSRB2,non_coding_transcript_exon_variant,,ENST00000468633,;MSRB2,stop_retained_variant,p.%3D,ENST00000472663,;	A	ENSG00000148450	ENST00000376510	Transcript	synonymous_variant	493	390	130	L	ctG/ctA	COSM415068	.	.	1	MSRB2	HGNC	17061	protein_coding	YES	CCDS41495.1	ENSP00000365693	MSRB2_HUMAN	.	UPI0000169923	.	.	.	4/5	.	Superfamily_domains:SSF51316,TIGRFAM_domain:TIGR00357,Gene3D:2.170.150.20,Pfam_domain:PF01641,hmmpanther:PTHR10173:SF18,hmmpanther:PTHR10173	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGAGACG	.	5	BLCA
ANKRD26	0	.	GRCh37	10	27323766	27323766	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3613G>C	p.Glu1205Gln	p.E1205Q	ENST00000376087	24/34	94	67	26	101	101	0	ANKRD26,missense_variant,p.Glu1205Gln,ENST00000376087,;ANKRD26,missense_variant,p.Glu762Gln,ENST00000376070,;ANKRD26,missense_variant,p.Glu1221Gln,ENST00000436985,;ANKRD26,downstream_gene_variant,,ENST00000490015,;	G	ENSG00000107890	ENST00000376087	Transcript	missense_variant	3779	3613	1205	E/Q	Gaa/Caa	COSM415060,COSM1675134	.	.	-1	ANKRD26	HGNC	29186	protein_coding	YES	CCDS41499.1	ENSP00000365255	ANR26_HUMAN	.	UPI000006FC41	.	deleterious(0.01)	probably_damaging(0.998)	24/34	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF14915,hmmpanther:PTHR24147,hmmpanther:PTHR24147:SF17	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.E1205Q|c.3613G>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTTTTA	.	5	BLCA
ANKRD26	0	.	GRCh37	10	27323874	27323874	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3505G>A	p.Asp1169Asn	p.D1169N	ENST00000376087	24/34	282	220	62	236	236	0	ANKRD26,missense_variant,p.Asp1169Asn,ENST00000376087,;ANKRD26,missense_variant,p.Asp726Asn,ENST00000376070,;ANKRD26,missense_variant,p.Asp1185Asn,ENST00000436985,;ANKRD26,downstream_gene_variant,,ENST00000490015,;	T	ENSG00000107890	ENST00000376087	Transcript	missense_variant	3671	3505	1169	D/N	Gac/Aac	COSM415059	.	.	-1	ANKRD26	HGNC	29186	protein_coding	YES	CCDS41499.1	ENSP00000365255	ANR26_HUMAN	.	UPI000006FC41	.	deleterious(0.03)	benign(0.059)	24/34	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF14915,hmmpanther:PTHR24147,hmmpanther:PTHR24147:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTCTTGGA	.	5	BLCA
RP11-85G18.6	0	.	GRCh37	10	27536544	27536544	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.256-2443C>G	.	.	ENST00000574842	.	74	59	15	58	58	0	RP11-85G18.6,intron_variant,,ENST00000574842,;LRRC37A6P,non_coding_transcript_exon_variant,,ENST00000284414,;LRRC37A6P,downstream_gene_variant,,ENST00000575554,;LRRC37A6P,downstream_gene_variant,,ENST00000574795,;LRRC37A6P,non_coding_transcript_exon_variant,,ENST00000448648,;	G	ENSG00000262412	ENST00000574842	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RP11-85G18.6	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCTGCAA	.	5	BLCA
ARMC4	0	.	GRCh37	10	28151455	28151455	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2707G>A	p.Ala903Thr	p.A903T	ENST00000305242	18/20	128	99	29	105	105	0	ARMC4,missense_variant,p.Ala428Thr,ENST00000545014,;ARMC4,missense_variant,p.Ala903Thr,ENST00000305242,;ARMC4,missense_variant,p.Ala595Thr,ENST00000537576,;	T	ENSG00000169126	ENST00000305242	Transcript	missense_variant	2800	2707	903	A/T	Gct/Act	COSM415057	.	.	-1	ARMC4	HGNC	25583	protein_coding	YES	CCDS7157.1	ENSP00000306410	ARMC4_HUMAN	R4GN11_HUMAN,A8K906_HUMAN	UPI00001A95E1	.	deleterious(0)	possibly_damaging(0.901)	18/20	.	PROSITE_profiles:PS50176,hmmpanther:PTHR23315:SF67,hmmpanther:PTHR23315,Gene3D:1.25.10.10,Pfam_domain:PF13646,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAGCACATA	.	5	BLCA
ITGB1	0	.	GRCh37	10	33200926	33200926	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1596C>T	p.%3D	p.V532V	ENST00000396033	12/16	193	144	49	202	202	0	ITGB1,synonymous_variant,p.%3D,ENST00000423113,;ITGB1,synonymous_variant,p.%3D,ENST00000374956,;ITGB1,synonymous_variant,p.%3D,ENST00000396033,;ITGB1,synonymous_variant,p.%3D,ENST00000302278,;ITGB1,upstream_gene_variant,,ENST00000488427,;ITGB1,synonymous_variant,p.%3D,ENST00000494395,;	A	ENSG00000150093	ENST00000396033	Transcript	synonymous_variant	1732	1596	532	V	gtC/gtT	COSM415044,COSM415045	.	.	-1	ITGB1	HGNC	6153	protein_coding	YES	CCDS7174.1	ENSP00000379350	ITB1_HUMAN	Q5T3E6_HUMAN,Q5T3E5_HUMAN,Q5T3E4_HUMAN,E9PQJ2_HUMAN,E9PLR6_HUMAN,E7ERX5_HUMAN,E7EQW5_HUMAN,C9JPK5_HUMAN,C9JJP8_HUMAN	UPI0000070EEB	.	.	.	12/16	.	Prints_domain:PR01186,PIRSF_domain:PIRSF002512,Gene3D:2.10.25.10,PROSITE_patterns:PS00243,hmmpanther:PTHR10082,hmmpanther:PTHR10082:SF28	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCAGACGCA	.	5	BLCA
ITGB1	0	.	GRCh37	10	33224454	33224454	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33G>A	p.%3D	p.L11L	ENST00000396033	2/16	78	67	11	85	85	0	ITGB1,synonymous_variant,p.%3D,ENST00000437302,;ITGB1,synonymous_variant,p.%3D,ENST00000475184,;ITGB1,synonymous_variant,p.%3D,ENST00000534049,;ITGB1,synonymous_variant,p.%3D,ENST00000414670,;ITGB1,synonymous_variant,p.%3D,ENST00000528877,;ITGB1,synonymous_variant,p.%3D,ENST00000488494,;ITGB1,synonymous_variant,p.%3D,ENST00000396033,;ITGB1,synonymous_variant,p.%3D,ENST00000374956,;ITGB1,synonymous_variant,p.%3D,ENST00000302278,;ITGB1,synonymous_variant,p.%3D,ENST00000417122,;ITGB1,synonymous_variant,p.%3D,ENST00000423113,;ITGB1,synonymous_variant,p.%3D,ENST00000480226,;ITGB1,5_prime_UTR_variant,,ENST00000493758,;ITGB1,5_prime_UTR_variant,,ENST00000472147,;ITGB1,5_prime_UTR_variant,,ENST00000474568,;ITGB1,non_coding_transcript_exon_variant,,ENST00000484088,;ITGB1,upstream_gene_variant,,ENST00000464001,;	T	ENSG00000150093	ENST00000396033	Transcript	synonymous_variant	169	33	11	L	ctG/ctA	COSM415042,COSM415043	.	.	-1	ITGB1	HGNC	6153	protein_coding	YES	CCDS7174.1	ENSP00000379350	ITB1_HUMAN	Q5T3E6_HUMAN,Q5T3E5_HUMAN,Q5T3E4_HUMAN,E9PQJ2_HUMAN,E9PLR6_HUMAN,E7ERX5_HUMAN,E7EQW5_HUMAN,C9JPK5_HUMAN,C9JJP8_HUMAN	UPI0000070EEB	.	.	.	2/16	.	Cleavage_site_(Signalp):SignalP-noTM,PIRSF_domain:PIRSF002512,hmmpanther:PTHR10082,hmmpanther:PTHR10082:SF28	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGATCAGTCC	.	4	BLCA
DIP2C	0	.	GRCh37	10	395346	395346	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3034G>C	p.Glu1012Gln	p.E1012Q	ENST00000280886	25/37	108	86	22	106	106	0	DIP2C,missense_variant,p.Glu1012Gln,ENST00000280886,;	G	ENSG00000151240	ENST00000280886	Transcript	missense_variant	3122	3034	1012	E/Q	Gag/Cag	COSM415033	.	.	-1	DIP2C	HGNC	29150	protein_coding	YES	CCDS7054.1	ENSP00000280886	DIP2C_HUMAN	.	UPI00001833B9	.	deleterious(0.03)	probably_damaging(0.996)	25/37	.	hmmpanther:PTHR22754,hmmpanther:PTHR22754:SF25,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAGCTC	.	5	BLCA
PHYHIPL	0	.	GRCh37	10	61005268	61005268	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Gly350Ser	p.G350S	ENST00000373880	5/5	142	99	43	125	125	0	PHYHIPL,missense_variant,p.Gly324Ser,ENST00000373878,;PHYHIPL,missense_variant,p.Gly350Ser,ENST00000373880,;FAM13C,downstream_gene_variant,,ENST00000419214,;FAM13C,downstream_gene_variant,,ENST00000468840,;FAM13C,downstream_gene_variant,,ENST00000373868,;FAM13C,downstream_gene_variant,,ENST00000277705,;FAM13C,downstream_gene_variant,,ENST00000442566,;FAM13C,downstream_gene_variant,,ENST00000373867,;FAM13C,downstream_gene_variant,,ENST00000489341,;PHYHIPL,3_prime_UTR_variant,,ENST00000486074,;FAM13C,downstream_gene_variant,,ENST00000513059,;	A	ENSG00000165443	ENST00000373880	Transcript	missense_variant	1312	1048	350	G/S	Ggt/Agt	COSM414999	.	.	1	PHYHIPL	HGNC	29378	protein_coding	YES	CCDS7254.1	ENSP00000362987	PHIPL_HUMAN	.	UPI0000199879	.	deleterious(0.05)	probably_damaging(1)	5/5	.	hmmpanther:PTHR15698:SF6,hmmpanther:PTHR15698	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTGGTCAT	.	5	BLCA
RBM17	0	.	GRCh37	10	6143281	6143281	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.171G>A	p.%3D	p.L57L	ENST00000446108	3/12	59	50	8	44	44	0	RBM17,synonymous_variant,p.%3D,ENST00000379888,;RBM17,synonymous_variant,p.%3D,ENST00000437845,;RBM17,synonymous_variant,p.%3D,ENST00000418631,;RBM17,synonymous_variant,p.%3D,ENST00000446108,;RBM17,synonymous_variant,p.%3D,ENST00000432931,;RBM17,upstream_gene_variant,,ENST00000447032,;RBM17,upstream_gene_variant,,ENST00000467214,;	A	ENSG00000134453	ENST00000446108	Transcript	synonymous_variant	815	171	57	L	ctG/ctA	COSM414997	.	.	1	RBM17	HGNC	16944	protein_coding	YES	CCDS7077.1	ENSP00000388638	SPF45_HUMAN	Q5W011_HUMAN,Q5W009_HUMAN	UPI000000D96A	.	.	.	3/12	.	PIRSF_domain:PIRSF031066,hmmpanther:PTHR13288,hmmpanther:PTHR13288:SF8	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTGAAGCG	.	4	BLCA
RTKN2	0	.	GRCh37	10	63977986	63977986	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856G>A	p.Glu286Lys	p.E286K	ENST00000373789	8/12	96	83	13	92	92	0	RTKN2,missense_variant,p.Glu286Lys,ENST00000373789,;RTKN2,missense_variant,p.Glu286Lys,ENST00000395265,;RTKN2,missense_variant,p.Glu67Lys,ENST00000315289,;	T	ENSG00000182010	ENST00000373789	Transcript	missense_variant	953	856	286	E/K	Gag/Aag	COSM414989	.	.	-1	RTKN2	HGNC	19364	protein_coding	YES	CCDS7263.1	ENSP00000362894	RTKN2_HUMAN	.	UPI000007413A	.	tolerated(0.18)	benign(0.005)	8/12	.	Gene3D:2.30.29.30,hmmpanther:PTHR21538,hmmpanther:PTHR21538:SF21,PROSITE_profiles:PS50003	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCCTCAGCCA	.	4	BLCA
ZNF365	0	.	GRCh37	10	64239677	64239677	+	Intron	SNP	C	C	T	rs759712340	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981+20121C>T	.	.	ENST00000410046	.	72	55	16	75	75	0	ZNF365,3_prime_UTR_variant,,ENST00000395255,;ZNF365,intron_variant,,ENST00000410046,;	T	ENSG00000138311	ENST00000410046	Transcript	intron_variant	.	.	.	.	.	rs759712340	.	.	1	ZNF365	HGNC	18194	protein_coding	YES	CCDS7264.1	ENSP00000387091	ZN365_HUMAN	C9J1G1_HUMAN	UPI00002323B9	.	.	.	.	4/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTCTGGAT	.	5	BLCA
ZNF365	0	.	GRCh37	10	64415153	64415153	+	Intron	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1130-1003G>A	.	.	ENST00000410046	.	58	45	13	63	63	0	ZNF365,missense_variant,p.Met51Ile,ENST00000395251,;ZNF365,intron_variant,,ENST00000395249,;ZNF365,intron_variant,,ENST00000410046,;AC067751.1,upstream_gene_variant,,ENST00000579246,;ZNF365,non_coding_transcript_exon_variant,,ENST00000461412,;ZNF365,intron_variant,,ENST00000344640,;ZNF365,intron_variant,,ENST00000373784,;	A	ENSG00000138311	ENST00000410046	Transcript	intron_variant	.	.	.	.	.	COSM414988	.	.	1	ZNF365	HGNC	18194	protein_coding	YES	CCDS7264.1	ENSP00000387091	ZN365_HUMAN	C9J1G1_HUMAN	UPI00002323B9	.	.	.	.	5/7	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTGATGAAACA	.	4	BLCA
PRF1	0	.	GRCh37	10	72360406	72360406	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253C>G	p.Leu85Val	p.L85V	ENST00000441259	2/3	40	36	4	43	43	0	PRF1,missense_variant,p.Leu85Val,ENST00000373209,;PRF1,missense_variant,p.Leu85Val,ENST00000441259,;	C	ENSG00000180644	ENST00000441259	Transcript	missense_variant	414	253	85	L/V	Ctc/Gtc	COSM414974	.	.	-1	PRF1	HGNC	9360	protein_coding	YES	CCDS7305.1	ENSP00000398568	PERF_HUMAN	S5S2F2_HUMAN,S5RDP5_HUMAN	UPI000013162B	.	tolerated(0.24)	benign(0.013)	2/3	.	PROSITE_profiles:PS51412	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGAGGGTGC	.	4	BLCA
SLC29A3	0	.	GRCh37	10	73122191	73122191	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1254C>T	p.%3D	p.L418L	ENST00000373189	6/6	163	123	39	199	199	0	SLC29A3,synonymous_variant,p.%3D,ENST00000373189,;SLC29A3,non_coding_transcript_exon_variant,,ENST00000469204,;	T	ENSG00000198246	ENST00000373189	Transcript	synonymous_variant	1306	1254	418	L	ctC/ctT	COSM414971	.	.	1	SLC29A3	HGNC	23096	protein_coding	YES	CCDS7310.1	ENSP00000362285	S29A3_HUMAN	.	UPI00001D9671	.	.	.	6/6	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10332:SF17,hmmpanther:PTHR10332,Pfam_domain:PF01733,PIRSF_domain:PIRSF016379,Prints_domain:PR01130	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGCTC	.	5	BLCA
CAMK2G	0	.	GRCh37	10	75574801	75574801	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1643C>T	p.Ser548Leu	p.S548L	ENST00000322680	20/21	32	21	11	33	33	0	CAMK2G,missense_variant,p.Ser445Leu,ENST00000433289,;CAMK2G,missense_variant,p.Ser525Leu,ENST00000394762,;CAMK2G,missense_variant,p.Ser519Leu,ENST00000322635,;CAMK2G,missense_variant,p.Ser548Leu,ENST00000322680,;CAMK2G,missense_variant,p.Ser521Leu,ENST00000305762,;CAMK2G,missense_variant,p.Ser508Leu,ENST00000372765,;CAMK2G,missense_variant,p.Ser327Leu,ENST00000441192,;CAMK2G,missense_variant,p.Ser580Leu,ENST00000423381,;CAMK2G,missense_variant,p.Ser487Leu,ENST00000351293,;NDST2,upstream_gene_variant,,ENST00000299641,;CAMK2G,downstream_gene_variant,,ENST00000444854,;NDST2,upstream_gene_variant,,ENST00000309979,;RP11-574K11.5,downstream_gene_variant,,ENST00000434147,;CAMK2G,non_coding_transcript_exon_variant,,ENST00000472912,;CAMK2G,downstream_gene_variant,,ENST00000474131,;NDST2,upstream_gene_variant,,ENST00000398701,;CAMK2G,downstream_gene_variant,,ENST00000477205,;RP11-574K11.31,upstream_gene_variant,,ENST00000603027,;	A	ENSG00000148660	ENST00000322680	Transcript	missense_variant	1767	1643	548	S/L	tCa/tTa	COSM414960,COSM414959	.	.	-1	CAMK2G	HGNC	1463	protein_coding	YES	CCDS7338.1	ENSP00000319060	KCC2G_HUMAN	Q13280_HUMAN	UPI000016781F	.	deleterious_low_confidence(0.04)	probably_damaging(0.993)	20/21	.	hmmpanther:PTHR24347:SF110,hmmpanther:PTHR24347,Pfam_domain:PF08332,Gene3D:3.10.450.50,Superfamily_domains:SSF54427	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCCTGAGCAG	.	3	BLCA
CAMK2G	0	.	GRCh37	10	75574821	75574821	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1623C>G	p.%3D	p.L541L	ENST00000322680	20/21	43	29	14	44	44	0	CAMK2G,synonymous_variant,p.%3D,ENST00000433289,;CAMK2G,synonymous_variant,p.%3D,ENST00000394762,;CAMK2G,synonymous_variant,p.%3D,ENST00000322635,;CAMK2G,synonymous_variant,p.%3D,ENST00000322680,;CAMK2G,synonymous_variant,p.%3D,ENST00000305762,;CAMK2G,synonymous_variant,p.%3D,ENST00000372765,;CAMK2G,synonymous_variant,p.%3D,ENST00000441192,;CAMK2G,synonymous_variant,p.%3D,ENST00000423381,;CAMK2G,synonymous_variant,p.%3D,ENST00000351293,;NDST2,upstream_gene_variant,,ENST00000299641,;CAMK2G,downstream_gene_variant,,ENST00000444854,;NDST2,upstream_gene_variant,,ENST00000309979,;RP11-574K11.5,downstream_gene_variant,,ENST00000434147,;CAMK2G,non_coding_transcript_exon_variant,,ENST00000472912,;CAMK2G,downstream_gene_variant,,ENST00000474131,;NDST2,upstream_gene_variant,,ENST00000398701,;CAMK2G,downstream_gene_variant,,ENST00000477205,;RP11-574K11.31,upstream_gene_variant,,ENST00000603027,;	C	ENSG00000148660	ENST00000322680	Transcript	synonymous_variant	1747	1623	541	L	ctC/ctG	COSM414958,COSM414957	.	.	-1	CAMK2G	HGNC	1463	protein_coding	YES	CCDS7338.1	ENSP00000319060	KCC2G_HUMAN	Q13280_HUMAN	UPI000016781F	.	.	.	20/21	.	hmmpanther:PTHR24347:SF110,hmmpanther:PTHR24347,Pfam_domain:PF08332,Gene3D:3.10.450.50,Superfamily_domains:SSF54427	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACATTGAGCCA	.	3	BLCA
LRIT2	0	.	GRCh37	10	85984808	85984808	+	Missense_Mutation	SNP	T	T	G	rs767382018	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173A>C	p.Lys58Thr	p.K58T	ENST00000372113	2/3	162	130	32	148	148	0	LRIT2,missense_variant,p.Lys58Thr,ENST00000372113,;LRIT2,missense_variant,p.Lys58Thr,ENST00000538192,;	G	ENSG00000204033	ENST00000372113	Transcript	missense_variant	179	173	58	K/T	aAg/aCg	rs767382018,COSM415426	.	.	-1	LRIT2	HGNC	23443	protein_coding	YES	CCDS31234.1	ENSP00000361185	LRIT2_HUMAN	.	UPI00002374E4	.	tolerated(0.4)	benign(0.326)	2/3	.	Superfamily_domains:SSF52058,hmmpanther:PTHR24365:SF93,hmmpanther:PTHR24365	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGCTTGAAC	.	5	BLCA
SNCG	0	.	GRCh37	10	88718387	88718387	+	5'Flank	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000372017	.	19	15	4	12	12	0	SNCG,5_prime_UTR_variant,,ENST00000348795,;MMRN2,intron_variant,,ENST00000474994,;MMRN2,intron_variant,,ENST00000609457,;MMRN2,upstream_gene_variant,,ENST00000372027,;SNCG,upstream_gene_variant,,ENST00000372017,;MMRN2,upstream_gene_variant,,ENST00000610081,;SNCG,non_coding_transcript_exon_variant,,ENST00000465679,;SNCG,upstream_gene_variant,,ENST00000483064,;MMRN2,upstream_gene_variant,,ENST00000608090,;MMRN2,upstream_gene_variant,,ENST00000608753,;	G	ENSG00000173267	ENST00000372017	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	26	1	SNCG	HGNC	11141	protein_coding	YES	CCDS7380.1	ENSP00000361087	SYUG_HUMAN	Q6FHG5_HUMAN	UPI0000169F48	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCAAGCC	.	5	BLCA
TNKS2	0	.	GRCh37	10	93572839	93572839	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.299C>G	p.Ser100Cys	p.S100C	ENST00000371627	2/27	146	120	25	118	118	0	TNKS2,missense_variant,p.Ser100Cys,ENST00000371627,;	G	ENSG00000107854	ENST00000371627	Transcript	missense_variant	678	299	100	S/C	tCt/tGt	COSM415417	.	.	1	TNKS2	HGNC	15677	protein_coding	YES	CCDS7417.1	ENSP00000360689	TNKS2_HUMAN	.	UPI00000362BE	.	deleterious(0)	probably_damaging(0.994)	2/27	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24180,hmmpanther:PTHR24180:SF11,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTCTTTTG	.	5	BLCA
KIF11	0	.	GRCh37	10	94405256	94405256	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2404G>A	p.Asp802Asn	p.D802N	ENST00000260731	18/22	107	89	17	96	96	0	KIF11,missense_variant,p.Asp802Asn,ENST00000260731,;	A	ENSG00000138160	ENST00000260731	Transcript	missense_variant	2494	2404	802	D/N	Gat/Aat	COSM415412	.	.	1	KIF11	HGNC	6388	protein_coding	YES	CCDS7422.1	ENSP00000260731	KIF11_HUMAN	.	UPI000013D0FC	.	tolerated(0.16)	benign(0.004)	18/22	.	hmmpanther:PTHR24115:SF105,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTGATAAA	.	5	BLCA
MYOF	0	.	GRCh37	10	95132825	95132827	+	In_Frame_Del	DEL	AGG	AGG	-	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	AGG	AGG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2317_2319delCCT	p.Pro773del	p.P773del	ENST00000359263	24/54	97	80	17	86	86	0	MYOF,inframe_deletion,p.Pro773del,ENST00000371502,;MYOF,inframe_deletion,p.Pro760del,ENST00000358334,;MYOF,inframe_deletion,p.Pro773del,ENST00000371501,;MYOF,inframe_deletion,p.Pro773del,ENST00000359263,;MYOF,inframe_deletion,p.Pro148del,ENST00000463743,;	-	ENSG00000138119	ENST00000359263	Transcript	inframe_deletion	2317-2319	2317-2319	773	P/-	CCT/-	.	.	.	-1	MYOF	HGNC	3656	protein_coding	YES	CCDS41551.1	ENSP00000352208	MYOF_HUMAN	.	UPI000012FBA1	.	.	.	24/54	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF38,Pfam_domain:PF08150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GATGTCAGGCATGC	.	3	BLCA
CYP2C19	0	.	GRCh37	10	96540313	96540313	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.539C>T	p.Ser180Phe	p.S180F	ENST00000371321	4/9	272	210	62	269	269	0	CYP2C19,missense_variant,p.Ser180Phe,ENST00000371321,;CYP2C19,non_coding_transcript_exon_variant,,ENST00000464755,;CYP2C19,downstream_gene_variant,,ENST00000480405,;	T	ENSG00000165841	ENST00000371321	Transcript	missense_variant	621	539	180	S/F	tCc/tTc	COSM122461	.	.	1	CYP2C19	HGNC	2621	protein_coding	YES	CCDS7436.1	ENSP00000360372	CP2CJ_HUMAN	.	UPI000013DE1E	.	deleterious(0.01)	probably_damaging(0.973)	4/9	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF131,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCCATTA	.	5	BLCA
LCOR	0	.	GRCh37	10	98715053	98715053	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.676G>A	p.Glu226Lys	p.E226K	ENST00000371097	8/8	94	71	23	104	104	0	LCOR,missense_variant,p.Glu226Lys,ENST00000371103,;LCOR,missense_variant,p.Glu226Lys,ENST00000371097,;LCOR,missense_variant,p.Glu226Lys,ENST00000356016,;LCOR,missense_variant,p.Glu226Lys,ENST00000540664,;LCOR,intron_variant,,ENST00000463415,;LCOR,intron_variant,,ENST00000498444,;	A	ENSG00000196233	ENST00000371097	Transcript	missense_variant	1222	676	226	E/K	Gaa/Aaa	COSM415391	.	.	1	LCOR	HGNC	29503	protein_coding	YES	CCDS7451.1	ENSP00000360138	LCOR_HUMAN	.	UPI0000160218	.	deleterious(0.03)	possibly_damaging(0.636)	8/8	.	hmmpanther:PTHR21545	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAAAAC	.	5	BLCA
ZFYVE27	0	.	GRCh37	10	99519006	99519006	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1200G>C	p.Gln400His	p.Q400H	ENST00000356257	12/12	98	90	8	70	70	0	ZFYVE27,missense_variant,p.Gln270His,ENST00000370613,;ZFYVE27,missense_variant,p.Gln378His,ENST00000423811,;ZFYVE27,missense_variant,p.Gln356His,ENST00000337540,;ZFYVE27,missense_variant,p.Gln395His,ENST00000393677,;ZFYVE27,missense_variant,p.Gln388His,ENST00000359980,;ZFYVE27,missense_variant,p.Gln302His,ENST00000357540,;ZFYVE27,missense_variant,p.Gln295His,ENST00000370610,;ZFYVE27,missense_variant,p.Gln400His,ENST00000356257,;ZFYVE27,3_prime_UTR_variant,,ENST00000453958,;ZFYVE27,non_coding_transcript_exon_variant,,ENST00000477521,;ZFYVE27,downstream_gene_variant,,ENST00000473237,;	C	ENSG00000155256	ENST00000356257	Transcript	missense_variant	1201	1200	400	Q/H	caG/caC	COSM415388	.	.	1	ZFYVE27	HGNC	26559	protein_coding	YES	CCDS31262.1	ENSP00000348593	ZFY27_HUMAN	.	UPI00003FE526	.	deleterious(0.01)	possibly_damaging(0.763)	12/12	.	Superfamily_domains:SSF57903,SMART_domains:SM00064,Pfam_domain:PF01363,Gene3D:3.30.40.10,hmmpanther:PTHR14543,PROSITE_profiles:PS50178	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GCCCAGAGGGA	.	3	BLCA
YAP1	0	.	GRCh37	11	102100669	102100669	+	Nonstop_Mutation	SNP	T	T	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1513T>C	p.Ter505GlnextTer6	p.*505Qext*6	ENST00000282441	9/9	184	128	56	157	157	0	YAP1,stop_lost,p.Ter451GlnextTer6,ENST00000526343,;YAP1,stop_lost,p.Ter259GlnextTer6,ENST00000529029,;YAP1,stop_lost,p.Ter493GlnextTer6,ENST00000537274,;YAP1,stop_lost,p.Ter489GlnextTer6,ENST00000531439,;YAP1,stop_lost,p.Ter505GlnextTer6,ENST00000282441,;YAP1,stop_lost,p.Ter327GlnextTer6,ENST00000524575,;YAP1,stop_lost,p.Ter455GlnextTer6,ENST00000345877,;RP11-864G5.3,non_coding_transcript_exon_variant,,ENST00000526310,;YAP1,non_coding_transcript_exon_variant,,ENST00000528834,;	C	ENSG00000137693	ENST00000282441	Transcript	stop_lost	1901	1513	505	*/Q	Tag/Cag	COSM415384	.	.	1	YAP1	HGNC	16262	protein_coding	YES	CCDS44716.1	ENSP00000282441	YAP1_HUMAN	.	UPI00000746D8	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTATAGAGC	.	5	BLCA
GRIA4	0	.	GRCh37	11	105789548	105789548	+	Missense_Mutation	SNP	C	C	G	rs145685023	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1380C>G	p.Ile460Met	p.I460M	ENST00000282499	11/17	75	55	20	64	64	0	GRIA4,missense_variant,p.Ile460Met,ENST00000282499,;GRIA4,missense_variant,p.Ile460Met,ENST00000530497,;GRIA4,missense_variant,p.Ile460Met,ENST00000393127,;GRIA4,missense_variant,p.Ile460Met,ENST00000525187,;	G	ENSG00000152578	ENST00000282499	Transcript	missense_variant	1826	1380	460	I/M	atC/atG	rs145685023,COSM415366,COSM415367	.	.	1	GRIA4	HGNC	4574	protein_coding	YES	CCDS8333.1	ENSP00000282499	GRIA4_HUMAN	E9PJZ5_HUMAN	UPI000013DCE6	.	deleterious(0.04)	possibly_damaging(0.771)	11/17	.	hmmpanther:PTHR18966:SF100,hmmpanther:PTHR18966,Pfam_domain:PF10613,Gene3D:3.40.190.10,SMART_domains:SM00918,SMART_domains:SM00079,Superfamily_domains:SSF53850,Prints_domain:PR00177	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATCAAGTA	byCluster	5	BLCA
ATM	0	.	GRCh37	11	108160459	108160459	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4367G>A	p.Gly1456Asp	p.G1456D	ENST00000278616	29/63	83	67	15	91	91	0	ATM,missense_variant,p.Gly1456Asp,ENST00000278616,;ATM,missense_variant,p.Gly1456Asp,ENST00000452508,;ATM,missense_variant,p.Gly125Asp,ENST00000531525,;ATM,downstream_gene_variant,,ENST00000527805,;ATM,non_coding_transcript_exon_variant,,ENST00000524792,;ATM,non_coding_transcript_exon_variant,,ENST00000533733,;ATM,upstream_gene_variant,,ENST00000531957,;	A	ENSG00000149311	ENST00000278616	Transcript	missense_variant	4752	4367	1456	G/D	gGc/gAc	COSM415356,COSM1133333	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	deleterious(0)	benign(0.309)	29/63	.	Superfamily_domains:SSF48371,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF66	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTGGCTTAG	.	5	BLCA
PPP2R1B	0	.	GRCh37	11	111636995	111636995	+	Missense_Mutation	SNP	C	C	T	rs199554698	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91G>A	p.Glu31Lys	p.E31K	ENST00000311129	1/16	88	73	14	60	60	0	PPP2R1B,missense_variant,p.Glu31Lys,ENST00000527614,;PPP2R1B,missense_variant,p.Glu31Lys,ENST00000393055,;PPP2R1B,missense_variant,p.Glu31Lys,ENST00000311129,;PPP2R1B,missense_variant,p.Glu31Lys,ENST00000341980,;PPP2R1B,missense_variant,p.Glu31Lys,ENST00000426998,;PPP2R1B,5_prime_UTR_variant,,ENST00000427203,;PPP2R1B,upstream_gene_variant,,ENST00000531373,;RP11-108O10.2,downstream_gene_variant,,ENST00000534218,;RP11-108O10.2,downstream_gene_variant,,ENST00000529841,;PPP2R1B,missense_variant,p.Glu31Lys,ENST00000534521,;PPP2R1B,missense_variant,p.Glu31Lys,ENST00000534500,;	T	ENSG00000137713	ENST00000311129	Transcript	missense_variant	112	91	31	E/K	Gag/Aag	rs199554698,COSM415344	.	.	-1	PPP2R1B	HGNC	9303	protein_coding	YES	CCDS8348.1	ENSP00000311344	2AAB_HUMAN	.	UPI000006CEE0	.	deleterious(0)	probably_damaging(0.981)	1/16	.	PROSITE_profiles:PS50077,hmmpanther:PTHR10648:SF9,hmmpanther:PTHR10648,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTCGTCGA	byFrequency|byCluster	4	BLCA
USP28	0	.	GRCh37	11	113697974	113697974	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168C>T	p.Gln390Ter	p.Q390*	ENST00000003302	11/25	87	73	14	63	63	0	USP28,stop_gained,p.Gln265Ter,ENST00000545540,;USP28,stop_gained,p.Gln98Ter,ENST00000544967,;USP28,stop_gained,p.Gln390Ter,ENST00000003302,;USP28,stop_gained,p.Gln390Ter,ENST00000260188,;USP28,stop_gained,p.Gln390Ter,ENST00000537706,;USP28,stop_gained,p.Gln154Ter,ENST00000538475,;USP28,downstream_gene_variant,,ENST00000537642,;RP11-667M19.10,downstream_gene_variant,,ENST00000399123,;USP28,downstream_gene_variant,,ENST00000542033,;USP28,3_prime_UTR_variant,,ENST00000537490,;USP28,3_prime_UTR_variant,,ENST00000535607,;USP28,3_prime_UTR_variant,,ENST00000545608,;USP28,3_prime_UTR_variant,,ENST00000540438,;	A	ENSG00000048028	ENST00000003302	Transcript	stop_gained	1237	1168	390	Q/*	Cag/Tag	COSM415338	.	.	-1	USP28	HGNC	12625	protein_coding	YES	CCDS31680.1	ENSP00000003302	UBP28_HUMAN	Q96SV4_HUMAN	UPI0000137A00	.	.	.	11/25	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF110,hmmpanther:PTHR24006,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTGAGGAA	.	5	BLCA
REXO2	0	.	GRCh37	11	114320818	114320818	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*121C>G	.	.	ENST00000265881	7/7	41	33	8	37	37	0	REXO2,3_prime_UTR_variant,,ENST00000544827,;REXO2,3_prime_UTR_variant,,ENST00000265881,;REXO2,3_prime_UTR_variant,,ENST00000539275,;REXO2,3_prime_UTR_variant,,ENST00000538403,;REXO2,3_prime_UTR_variant,,ENST00000539788,;REXO2,3_prime_UTR_variant,,ENST00000538791,;REXO2,downstream_gene_variant,,ENST00000539754,;REXO2,downstream_gene_variant,,ENST00000539119,;REXO2,non_coding_transcript_exon_variant,,ENST00000544507,;REXO2,3_prime_UTR_variant,,ENST00000546316,;REXO2,downstream_gene_variant,,ENST00000540492,;REXO2,downstream_gene_variant,,ENST00000541703,;REXO2,downstream_gene_variant,,ENST00000538198,;REXO2,downstream_gene_variant,,ENST00000539333,;REXO2,downstream_gene_variant,,ENST00000543131,;RP11-212D19.5,upstream_gene_variant,,ENST00000541631,;	G	ENSG00000076043	ENST00000265881	Transcript	3_prime_UTR_variant	978	.	.	.	.	.	.	.	1	REXO2	HGNC	17851	protein_coding	YES	CCDS8371.1	ENSP00000265881	ORN_HUMAN	B2R532_HUMAN	UPI000013D69D	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTACTCAAGCA	.	4	BLCA
KMT2A	0	.	GRCh37	11	118361911	118361911	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4697G>A	p.Gly1566Glu	p.G1566E	ENST00000534358	14/36	84	71	13	109	109	0	KMT2A,missense_variant,p.Gly1566Glu,ENST00000389506,;KMT2A,missense_variant,p.Gly1528Glu,ENST00000354520,;KMT2A,missense_variant,p.Gly1566Glu,ENST00000534358,;KMT2A,missense_variant,p.Gly278Glu,ENST00000392873,;	A	ENSG00000118058	ENST00000534358	Transcript	missense_variant	4720	4697	1566	G/E	gGa/gAa	COSM415326,COSM1133336	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	probably_damaging(1)	14/36	.	PROSITE_profiles:PS50016,hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,Gene3D:3.30.40.10,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCAGGAAACT	.	2	BLCA
USP47	0	.	GRCh37	11	11942014	11942014	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987G>A	p.Met329Ile	p.M329I	ENST00000339865	9/27	126	92	34	94	94	0	USP47,missense_variant,p.Met417Ile,ENST00000399455,;USP47,missense_variant,p.Met397Ile,ENST00000527733,;USP47,missense_variant,p.Met329Ile,ENST00000339865,;USP47,5_prime_UTR_variant,,ENST00000539466,;	A	ENSG00000170242	ENST00000339865	Transcript	missense_variant	1750	987	329	M/I	atG/atA	COSM415308	.	.	1	USP47	HGNC	20076	protein_coding	YES	CCDS41619.1	ENSP00000339957	UBP47_HUMAN	.	UPI00001F9D69	.	deleterious(0.01)	benign(0.372)	9/27	.	Superfamily_domains:SSF54001,Pfam_domain:PF00443,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF98,PROSITE_profiles:PS50235	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATGAGTAC	.	5	BLCA
OR8B8	0	.	GRCh37	11	124310898	124310898	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84C>T	p.%3D	p.F28F	ENST00000328064	1/1	93	80	13	91	91	0	OR8B8,synonymous_variant,p.%3D,ENST00000328064,;	A	ENSG00000197125	ENST00000328064	Transcript	synonymous_variant	157	84	28	F	ttC/ttT	COSM299389	.	.	-1	OR8B8	HGNC	8477	protein_coding	YES	CCDS8446.1	ENSP00000330280	OR8B8_HUMAN	.	UPI00000015B1	.	.	.	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR26452:SF5,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAAGAG	.	5	BLCA
PANX3	0	.	GRCh37	11	124482954	124482954	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.260C>A	p.Ser87Ter	p.S87*	ENST00000284288	2/4	91	72	19	91	91	0	PANX3,stop_gained,p.Ser87Ter,ENST00000284288,;	A	ENSG00000154143	ENST00000284288	Transcript	stop_gained	327	260	87	S/*	tCa/tAa	COSM415284	.	.	1	PANX3	HGNC	20573	protein_coding	YES	CCDS8447.1	ENSP00000284288	PANX3_HUMAN	.	UPI0000131264	.	.	.	2/4	.	Pfam_domain:PF00876,hmmpanther:PTHR15759,hmmpanther:PTHR15759:SF3,PROSITE_profiles:PS51013	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTCACTGC	.	5	BLCA
FOXRED1	0	.	GRCh37	11	126139077	126139077	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-25C>T	.	.	ENST00000263578	1/11	51	44	7	38	38	0	FOXRED1,5_prime_UTR_variant,,ENST00000442061,;FOXRED1,5_prime_UTR_variant,,ENST00000263578,;SRPR,upstream_gene_variant,,ENST00000532259,;FOXRED1,upstream_gene_variant,,ENST00000532125,;SRPR,upstream_gene_variant,,ENST00000332118,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000533839,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000534011,;SRPR,upstream_gene_variant,,ENST00000530680,;FOXRED1,upstream_gene_variant,,ENST00000526366,;FOXRED1,5_prime_UTR_variant,,ENST00000525770,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000526525,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000525083,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000529802,;FOXRED1,upstream_gene_variant,,ENST00000533395,;SRPR,upstream_gene_variant,,ENST00000531104,;FOXRED1,upstream_gene_variant,,ENST00000527004,;SRPR,upstream_gene_variant,,ENST00000527817,;SRPR,upstream_gene_variant,,ENST00000532268,;FOXRED1,upstream_gene_variant,,ENST00000527875,;FOXRED1,upstream_gene_variant,,ENST00000532101,;FOXRED1,upstream_gene_variant,,ENST00000534315,;FOXRED1,upstream_gene_variant,,ENST00000531257,;SRPR,upstream_gene_variant,,ENST00000528744,;FOXRED1,upstream_gene_variant,,ENST00000524751,;FOXRED1,upstream_gene_variant,,ENST00000530642,;	T	ENSG00000110074	ENST00000263578	Transcript	5_prime_UTR_variant	50	.	.	.	.	.	.	.	1	FOXRED1	HGNC	26927	protein_coding	YES	CCDS8471.1	ENSP00000263578	FXRD1_HUMAN	B4DXM1_HUMAN,B4DQI0_HUMAN	UPI0000037C04	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTTTCAGAGG	.	3	BLCA
FOXRED1	0	.	GRCh37	11	126139117	126139117	+	Silent	SNP	C	C	T	rs202093490	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16C>T	p.%3D	p.L6L	ENST00000263578	1/11	91	72	19	90	90	0	FOXRED1,synonymous_variant,p.%3D,ENST00000263578,;FOXRED1,5_prime_UTR_variant,,ENST00000532125,;FOXRED1,5_prime_UTR_variant,,ENST00000442061,;SRPR,upstream_gene_variant,,ENST00000532259,;SRPR,upstream_gene_variant,,ENST00000332118,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000533839,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000534011,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000526366,;SRPR,upstream_gene_variant,,ENST00000530680,;FOXRED1,synonymous_variant,p.%3D,ENST00000527004,;FOXRED1,synonymous_variant,p.%3D,ENST00000525770,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000526525,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000532101,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000525083,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000529802,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000524751,;FOXRED1,upstream_gene_variant,,ENST00000533395,;SRPR,upstream_gene_variant,,ENST00000531104,;SRPR,upstream_gene_variant,,ENST00000527817,;SRPR,upstream_gene_variant,,ENST00000532268,;FOXRED1,upstream_gene_variant,,ENST00000527875,;FOXRED1,upstream_gene_variant,,ENST00000534315,;FOXRED1,upstream_gene_variant,,ENST00000531257,;SRPR,upstream_gene_variant,,ENST00000528744,;FOXRED1,upstream_gene_variant,,ENST00000530642,;	T	ENSG00000110074	ENST00000263578	Transcript	synonymous_variant	90	16	6	L	Ctg/Ttg	rs202093490,COSM415276	.	.	1	FOXRED1	HGNC	26927	protein_coding	YES	CCDS8471.1	ENSP00000263578	FXRD1_HUMAN	B4DXM1_HUMAN,B4DQI0_HUMAN	UPI0000037C04	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCTGCCG	byCluster	5	BLCA
KCNJ5	0	.	GRCh37	11	128781855	128781855	+	Silent	SNP	C	C	T	rs149327599	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.687C>T	p.%3D	p.I229I	ENST00000529694	2/3	169	129	39	171	170	1	KCNJ5,synonymous_variant,p.%3D,ENST00000533599,;KCNJ5,synonymous_variant,p.%3D,ENST00000338350,;KCNJ5,synonymous_variant,p.%3D,ENST00000529694,;	T	ENSG00000120457	ENST00000529694	Transcript	synonymous_variant	1063	687	229	I	atC/atT	rs149327599,COSM415272	.	.	1	KCNJ5	HGNC	6266	protein_coding	YES	CCDS8479.1	ENSP00000433295	IRK5_HUMAN	H9A8L0_HUMAN,H9A8K9_HUMAN	UPI000013D428	.	.	.	2/3	.	hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF18,Gene3D:2.60.40.1400,Pfam_domain:PF01007,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCGTGGA	byCluster	5	BLCA
NFRKB	0	.	GRCh37	11	129762750	129762750	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>A	p.Glu12Lys	p.E12K	ENST00000524794	1/25	225	175	50	162	162	0	NFRKB,missense_variant,p.Glu12Lys,ENST00000524794,;NFRKB,5_prime_UTR_variant,,ENST00000532225,;NFRKB,5_prime_UTR_variant,,ENST00000531318,;NFRKB,5_prime_UTR_variant,,ENST00000526940,;NFRKB,5_prime_UTR_variant,,ENST00000446488,;NFRKB,5_prime_UTR_variant,,ENST00000524746,;NFRKB,5_prime_UTR_variant,,ENST00000304521,;NFRKB,5_prime_UTR_variant,,ENST00000529319,;NFRKB,5_prime_UTR_variant,,ENST00000531755,;NFRKB,5_prime_UTR_variant,,ENST00000526884,;NFRKB,5_prime_UTR_variant,,ENST00000530278,;	T	ENSG00000170322	ENST00000524794	Transcript	missense_variant	155	34	12	E/K	Gaa/Aaa	.	.	.	-1	NFRKB	HGNC	7802	protein_coding	YES	CCDS8483.1	ENSP00000436926	NFRKB_HUMAN	E9PM88_HUMAN,E9PJU3_HUMAN,E9PJG2_HUMAN	UPI000006E542	.	tolerated_low_confidence(0.15)	unknown(0)	1/25	.	hmmpanther:PTHR13052	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTCTTCTC	.	5	BLCA
NCAPD3	0	.	GRCh37	11	134064592	134064592	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1657G>A	p.Glu553Lys	p.E553K	ENST00000534548	14/35	103	89	14	103	103	0	NCAPD3,missense_variant,p.Glu553Lys,ENST00000534548,;NCAPD3,missense_variant,p.Glu553Lys,ENST00000525964,;NCAPD3,missense_variant,p.Glu553Lys,ENST00000534532,;	T	ENSG00000151503	ENST00000534548	Transcript	missense_variant	1722	1657	553	E/K	Gag/Aag	COSM415251	.	.	-1	NCAPD3	HGNC	28952	protein_coding	YES	CCDS31723.1	ENSP00000433681	CNDD3_HUMAN	Q96FA6_HUMAN,E9PLE0_HUMAN,E9PL84_HUMAN	UPI00001C1EFE	.	deleterious(0.01)	possibly_damaging(0.694)	14/35	.	Superfamily_domains:SSF48371,PIRSF_domain:PIRSF036508,Pfam_domain:PF12765,Gene3D:1.25.10.10,hmmpanther:PTHR14222:SF1,hmmpanther:PTHR14222	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCATCCC	.	4	BLCA
IGF2	0	.	GRCh37	11	2154279	2154279	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649C>G	p.Leu217Val	p.L217V	ENST00000434045	5/5	133	106	27	152	152	0	IGF2,missense_variant,p.Leu161Val,ENST00000381395,;IGF2,missense_variant,p.Leu161Val,ENST00000381389,;IGF2,missense_variant,p.Leu217Val,ENST00000434045,;IGF2,missense_variant,p.Leu164Val,ENST00000381406,;IGF2,missense_variant,p.Leu161Val,ENST00000416167,;IGF2,missense_variant,p.Leu164Val,ENST00000381392,;IGF2,missense_variant,p.Leu161Val,ENST00000418738,;IGF2,missense_variant,p.Leu161Val,ENST00000300632,;MIR483,downstream_gene_variant,,ENST00000385070,;AC132217.4,upstream_gene_variant,,ENST00000430034,;INS-IGF2,3_prime_UTR_variant,,ENST00000356578,;	C	ENSG00000167244	ENST00000434045	Transcript	missense_variant	1034	649	217	L/V	Cta/Gta	COSM415227,COSM1133354	.	.	-1	IGF2	HGNC	5466	protein_coding	YES	CCDS44517.1	ENSP00000391826	IGF2_HUMAN	E3UN46_HUMAN	UPI0001751501	.	tolerated(0.12)	benign(0.024)	5/5	.	hmmpanther:PTHR11454:SF10,hmmpanther:PTHR11454,Pfam_domain:PF08365	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTAGAGCAA	.	5	BLCA
ZNF408	0	.	GRCh37	11	46727044	46727044	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1794C>G	p.%3D	p.L598L	ENST00000311764	5/5	71	53	18	59	59	0	ZNF408,synonymous_variant,p.%3D,ENST00000311764,;ARHGAP1,upstream_gene_variant,,ENST00000311956,;ZNF408,downstream_gene_variant,,ENST00000534481,;ZNF408,downstream_gene_variant,,ENST00000531866,;ZNF408,downstream_gene_variant,,ENST00000527008,;ZNF408,downstream_gene_variant,,ENST00000526410,;ARHGAP1,upstream_gene_variant,,ENST00000529960,;ARHGAP1,upstream_gene_variant,,ENST00000524594,;	G	ENSG00000175213	ENST00000311764	Transcript	synonymous_variant	2024	1794	598	L	ctC/ctG	COSM415596	.	.	1	ZNF408	HGNC	20041	protein_coding	YES	CCDS7923.1	ENSP00000309606	ZN408_HUMAN	.	UPI0000132189	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF175,hmmpanther:PTHR24402,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCAAATC	.	5	BLCA
NDUFS3	0	.	GRCh37	11	47602301	47602301	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.232-86C>T	.	.	ENST00000263774	.	86	68	17	95	95	0	NDUFS3,stop_gained,p.Gln120Ter,ENST00000534208,;NDUFS3,intron_variant,,ENST00000530295,;NDUFS3,intron_variant,,ENST00000528192,;NDUFS3,intron_variant,,ENST00000534716,;NDUFS3,intron_variant,,ENST00000263774,;NDUFS3,downstream_gene_variant,,ENST00000529276,;KBTBD4,upstream_gene_variant,,ENST00000395288,;KBTBD4,upstream_gene_variant,,ENST00000529499,;KBTBD4,upstream_gene_variant,,ENST00000534239,;KBTBD4,upstream_gene_variant,,ENST00000529946,;KBTBD4,upstream_gene_variant,,ENST00000531067,;KBTBD4,upstream_gene_variant,,ENST00000533290,;KBTBD4,upstream_gene_variant,,ENST00000430070,;KBTBD4,upstream_gene_variant,,ENST00000526005,;KBTBD4,upstream_gene_variant,,ENST00000525720,;KBTBD4,downstream_gene_variant,,ENST00000450908,;RNU5E-10P,upstream_gene_variant,,ENST00000363506,;NDUFS3,non_coding_transcript_exon_variant,,ENST00000533507,;NDUFS3,intron_variant,,ENST00000531351,;NDUFS3,upstream_gene_variant,,ENST00000527178,;NDUFS3,upstream_gene_variant,,ENST00000525212,;NDUFS3,non_coding_transcript_exon_variant,,ENST00000533105,;NDUFS3,intron_variant,,ENST00000524568,;NDUFS3,upstream_gene_variant,,ENST00000525378,;KBTBD4,upstream_gene_variant,,ENST00000530668,;	T	ENSG00000213619	ENST00000263774	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	NDUFS3	HGNC	7710	protein_coding	YES	CCDS7941.1	ENSP00000263774	NDUS3_HUMAN	Q9UF24_HUMAN	UPI0000130930	.	.	.	.	3/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCAGCAT	.	4	BLCA
FNBP4	0	.	GRCh37	11	47752962	47752962	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1972G>C	p.Asp658His	p.D658H	ENST00000263773	12/17	203	147	55	190	190	0	FNBP4,missense_variant,p.Asp658His,ENST00000263773,;snoU13,downstream_gene_variant,,ENST00000516638,;Y_RNA,upstream_gene_variant,,ENST00000363220,;FNBP4,non_coding_transcript_exon_variant,,ENST00000529156,;FNBP4,non_coding_transcript_exon_variant,,ENST00000531394,;FNBP4,non_coding_transcript_exon_variant,,ENST00000525316,;FNBP4,non_coding_transcript_exon_variant,,ENST00000525792,;FNBP4,downstream_gene_variant,,ENST00000534003,;FNBP4,downstream_gene_variant,,ENST00000524696,;FNBP4,downstream_gene_variant,,ENST00000527894,;FNBP4,downstream_gene_variant,,ENST00000528388,;FNBP4,upstream_gene_variant,,ENST00000530207,;	G	ENSG00000109920	ENST00000263773	Transcript	missense_variant	1985	1972	658	D/H	Gat/Cat	COSM415592	.	.	-1	FNBP4	HGNC	19752	protein_coding	YES	CCDS41644.1	ENSP00000263773	FNBP4_HUMAN	.	UPI0000DBEF37	.	tolerated(0.12)	possibly_damaging(0.45)	12/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF186	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAATCAGTGC	.	5	BLCA
FNBP4	0	.	GRCh37	11	47753046	47753046	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1888G>A	p.Glu630Lys	p.E630K	ENST00000263773	12/17	217	170	46	183	183	0	FNBP4,missense_variant,p.Glu630Lys,ENST00000263773,;snoU13,downstream_gene_variant,,ENST00000516638,;Y_RNA,upstream_gene_variant,,ENST00000363220,;FNBP4,non_coding_transcript_exon_variant,,ENST00000529156,;FNBP4,non_coding_transcript_exon_variant,,ENST00000531394,;FNBP4,non_coding_transcript_exon_variant,,ENST00000525316,;FNBP4,non_coding_transcript_exon_variant,,ENST00000525792,;FNBP4,downstream_gene_variant,,ENST00000534003,;FNBP4,downstream_gene_variant,,ENST00000524696,;FNBP4,downstream_gene_variant,,ENST00000527894,;FNBP4,downstream_gene_variant,,ENST00000528388,;FNBP4,upstream_gene_variant,,ENST00000530207,;	T	ENSG00000109920	ENST00000263773	Transcript	missense_variant	1901	1888	630	E/K	Gaa/Aaa	COSM415591	.	.	-1	FNBP4	HGNC	19752	protein_coding	YES	CCDS41644.1	ENSP00000263773	FNBP4_HUMAN	.	UPI0000DBEF37	.	deleterious(0.04)	probably_damaging(0.98)	12/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF186	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCACCAT	.	5	BLCA
NUP160	0	.	GRCh37	11	47858484	47858484	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.897C>T	p.%3D	p.I299I	ENST00000378460	6/36	123	104	19	100	100	0	NUP160,synonymous_variant,p.%3D,ENST00000528071,;NUP160,synonymous_variant,p.%3D,ENST00000530326,;NUP160,synonymous_variant,p.%3D,ENST00000378460,;NUP160,3_prime_UTR_variant,,ENST00000532747,;NUP160,downstream_gene_variant,,ENST00000526870,;NUP160,downstream_gene_variant,,ENST00000529863,;RP11-692M12.4,upstream_gene_variant,,ENST00000605553,;	A	ENSG00000030066	ENST00000378460	Transcript	synonymous_variant	944	897	299	I	atC/atT	COSM415589	.	.	-1	NUP160	HGNC	18017	protein_coding	YES	CCDS31484.1	ENSP00000367721	NU160_HUMAN	.	UPI0000185FEB	.	.	.	6/36	.	hmmpanther:PTHR21286,Pfam_domain:PF11715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAAAGATGAA	.	4	BLCA
OR5L2	0	.	GRCh37	11	55594852	55594852	+	Missense_Mutation	SNP	C	C	T	rs780316088	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158C>T	p.Ser53Phe	p.S53F	ENST00000378397	1/1	419	313	105	443	443	0	OR5L2,missense_variant,p.Ser53Phe,ENST00000378397,;	T	ENSG00000205030	ENST00000378397	Transcript	missense_variant	158	158	53	S/F	tCt/tTt	rs780316088,COSM415566	.	.	1	OR5L2	HGNC	8351	protein_coding	YES	CCDS31511.1	ENSP00000367650	OR5L2_HUMAN	.	UPI0000041C49	.	deleterious(0.04)	benign(0.02)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF154,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCTCGGC	.	5	BLCA
OR5AK2	0	.	GRCh37	11	56757051	56757051	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.663C>T	p.%3D	p.I221I	ENST00000326855	1/1	259	204	54	232	232	0	OR5AK2,synonymous_variant,p.%3D,ENST00000326855,;	T	ENSG00000181273	ENST00000326855	Transcript	synonymous_variant	705	663	221	I	atC/atT	COSM415551	.	.	1	OR5AK2	HGNC	15251	protein_coding	YES	CCDS31538.1	ENSP00000322784	O5AK2_HUMAN	.	UPI0000041D03	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF47,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACATCATGGC	.	4	BLCA
PRG2	0	.	GRCh37	11	57156683	57156683	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>A	p.Glu56Lys	p.E56K	ENST00000311862	3/6	111	85	26	103	103	0	PRG2,missense_variant,p.Glu56Lys,ENST00000533605,;RP11-872D17.8,missense_variant,p.Glu161Lys,ENST00000529411,;PRG2,missense_variant,p.Glu56Lys,ENST00000311862,;PRG2,missense_variant,p.Glu56Lys,ENST00000525955,;RP11-872D17.8,3_prime_UTR_variant,,ENST00000528835,;RP11-872D17.8,non_coding_transcript_exon_variant,,ENST00000534081,;PRG2,non_coding_transcript_exon_variant,,ENST00000530105,;	T	ENSG00000186652	ENST00000311862	Transcript	missense_variant	240	166	56	E/K	Gaa/Aaa	COSM415549	.	.	-1	PRG2	HGNC	9362	protein_coding	YES	CCDS7955.1	ENSP00000312134	PRG2_HUMAN	.	UPI000013CF50	.	tolerated(0.82)	benign(0.276)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10068:SF7,hmmpanther:PTHR10068	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCCTCCA	.	5	BLCA
GLYATL1	0	.	GRCh37	11	58723268	58723268	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.770C>T	p.Ser257Phe	p.S257F	ENST00000300079	7/7	65	44	20	76	76	0	GLYATL1,missense_variant,p.Ser226Phe,ENST00000317391,;GLYATL1,missense_variant,p.Ser257Phe,ENST00000300079,;GLYATL1,downstream_gene_variant,,ENST00000532726,;GLYATL1,downstream_gene_variant,,ENST00000526351,;GLYATL1,downstream_gene_variant,,ENST00000525608,;RP11-142C4.6,intron_variant,,ENST00000533954,;RP11-142C4.6,downstream_gene_variant,,ENST00000525714,;GLYATL1,intron_variant,,ENST00000534063,;GLYATL1,downstream_gene_variant,,ENST00000533864,;GLYATL1,downstream_gene_variant,,ENST00000524403,;GLYATL1,3_prime_UTR_variant,,ENST00000527708,;GLYATL1,3_prime_UTR_variant,,ENST00000530240,;GLYATL1,non_coding_transcript_exon_variant,,ENST00000534119,;GLYATL1,downstream_gene_variant,,ENST00000524881,;GLYATL1,downstream_gene_variant,,ENST00000530774,;	T	ENSG00000166840	ENST00000300079	Transcript	missense_variant	820	770	257	S/F	tCt/tTt	COSM415531,COSM415532	.	.	1	GLYATL1	HGNC	30519	protein_coding	YES	CCDS31556.1	ENSP00000300079	GLYL1_HUMAN	E9PP99_HUMAN,E9PNJ8_HUMAN,E9PK55_HUMAN	UPI000006ED98	.	deleterious(0)	probably_damaging(0.993)	7/7	.	hmmpanther:PTHR15298,hmmpanther:PTHR15298:SF7,Gene3D:3.40.630.30,Pfam_domain:PF08444,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCTTGTG	.	5	BLCA
CCDC86	0	.	GRCh37	11	60610305	60610305	+	Silent	SNP	G	G	A	rs752289054	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708G>A	p.%3D	p.P236P	ENST00000227520	1/4	48	37	10	50	50	0	CCDC86,synonymous_variant,p.%3D,ENST00000227520,;CCDC86,upstream_gene_variant,,ENST00000545580,;RP11-804A23.2,non_coding_transcript_exon_variant,,ENST00000539897,;RP11-804A23.4,intron_variant,,ENST00000538705,;CCDC86,3_prime_UTR_variant,,ENST00000535217,;	A	ENSG00000110104	ENST00000227520	Transcript	synonymous_variant	762	708	236	P	ccG/ccA	rs752289054,COSM415518	.	.	1	CCDC86	HGNC	28359	protein_coding	YES	CCDS7993.1	ENSP00000227520	CCD86_HUMAN	B4DY99_HUMAN	UPI000003DBBA	.	.	.	1/4	.	hmmpanther:PTHR13557,hmmpanther:PTHR13557:SF1	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCCGAAGGG	byFrequency	5	BLCA
FADS3	0	.	GRCh37	11	61644427	61644427	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894C>G	p.%3D	p.L298L	ENST00000278829	8/12	13	10	3	13	13	0	FADS3,synonymous_variant,p.%3D,ENST00000540820,;FADS3,synonymous_variant,p.%3D,ENST00000278829,;FADS3,synonymous_variant,p.%3D,ENST00000525588,;FADS3,synonymous_variant,p.%3D,ENST00000527379,;FADS3,synonymous_variant,p.%3D,ENST00000531956,;FADS3,synonymous_variant,p.%3D,ENST00000534223,;FADS3,synonymous_variant,p.%3D,ENST00000527697,;FADS3,upstream_gene_variant,,ENST00000525094,;FADS3,non_coding_transcript_exon_variant,,ENST00000529404,;FADS3,non_coding_transcript_exon_variant,,ENST00000533676,;FADS3,downstream_gene_variant,,ENST00000526294,;FADS3,downstream_gene_variant,,ENST00000534426,;FADS3,downstream_gene_variant,,ENST00000414624,;	C	ENSG00000221968	ENST00000278829	Transcript	synonymous_variant	1047	894	298	L	ctC/ctG	COSM415503	.	.	-1	FADS3	HGNC	3576	protein_coding	YES	CCDS8013.1	ENSP00000278829	FADS3_HUMAN	E9PQC2_HUMAN,E9PPZ4_HUMAN	UPI000003405F	.	.	.	8/12	.	PIRSF_domain:PIRSF015921,Pfam_domain:PF00487,hmmpanther:PTHR19353:SF11,hmmpanther:PTHR19353	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCAGAGCAA	.	2	BLCA
AHNAK	0	.	GRCh37	11	62288785	62288785	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13104C>G	p.%3D	p.L4368L	ENST00000378024	5/5	269	214	55	272	272	0	AHNAK,synonymous_variant,p.%3D,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,upstream_gene_variant,,ENST00000525875,;	C	ENSG00000124942	ENST00000378024	Transcript	synonymous_variant	13379	13104	4368	L	ctC/ctG	COSM415498	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	.	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTGAGTTT	.	5	BLCA
B3GAT3	0	.	GRCh37	11	62384199	62384199	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>G	p.Gln230Glu	p.Q230E	ENST00000265471	4/5	31	23	7	39	39	0	B3GAT3,missense_variant,p.Gln230Glu,ENST00000534026,;B3GAT3,missense_variant,p.Gln230Glu,ENST00000265471,;B3GAT3,missense_variant,p.Gln230Glu,ENST00000531383,;ROM1,downstream_gene_variant,,ENST00000278833,;EML3,upstream_gene_variant,,ENST00000278845,;ROM1,downstream_gene_variant,,ENST00000525801,;EML3,upstream_gene_variant,,ENST00000394773,;EML3,upstream_gene_variant,,ENST00000419857,;EML3,upstream_gene_variant,,ENST00000529309,;ROM1,downstream_gene_variant,,ENST00000534093,;EML3,upstream_gene_variant,,ENST00000466671,;ROM1,downstream_gene_variant,,ENST00000525947,;EML3,upstream_gene_variant,,ENST00000466886,;B3GAT3,downstream_gene_variant,,ENST00000534715,;ROM1,downstream_gene_variant,,ENST00000529273,;B3GAT3,3_prime_UTR_variant,,ENST00000532585,;B3GAT3,non_coding_transcript_exon_variant,,ENST00000533303,;EML3,upstream_gene_variant,,ENST00000494448,;	C	ENSG00000149541	ENST00000265471	Transcript	missense_variant	916	688	230	Q/E	Cag/Gag	COSM415492	.	.	-1	B3GAT3	HGNC	923	protein_coding	YES	CCDS8025.1	ENSP00000265471	B3GA3_HUMAN	.	UPI000006F88E	.	tolerated(0.2)	benign(0)	4/5	.	hmmpanther:PTHR10896:SF9,hmmpanther:PTHR10896,Pfam_domain:PF03360,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGAGGGC	.	5	BLCA
MAP4K2	0	.	GRCh37	11	64564578	64564578	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1363G>A	p.Glu455Lys	p.E455K	ENST00000294066	19/32	74	64	10	81	81	0	MAP4K2,missense_variant,p.Glu447Lys,ENST00000377350,;MAP4K2,missense_variant,p.Glu455Lys,ENST00000294066,;MAP4K2,downstream_gene_variant,,ENST00000439069,;MAP4K2,downstream_gene_variant,,ENST00000493428,;MAP4K2,downstream_gene_variant,,ENST00000468062,;MAP4K2,downstream_gene_variant,,ENST00000482314,;MAP4K2,splice_region_variant,,ENST00000489952,;MAP4K2,splice_region_variant,,ENST00000467689,;MAP4K2,splice_region_variant,,ENST00000435926,;MAP4K2,splice_region_variant,,ENST00000470088,;MAP4K2,splice_region_variant,,ENST00000433890,;MAP4K2,upstream_gene_variant,,ENST00000424945,;MAP4K2,downstream_gene_variant,,ENST00000444560,;	T	ENSG00000168067	ENST00000294066	Transcript	missense_variant	1455	1363	455	E/K	Gag/Aag	COSM415460,COSM415461	.	.	-1	MAP4K2	HGNC	6864	protein_coding	YES	CCDS8082.1	ENSP00000294066	M4K2_HUMAN	.	UPI000013E13D	.	tolerated(0.33)	benign(0.017)	19/32	.	hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF89,PIRSF_domain:PIRSF038172	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCAGGAT	.	4	BLCA
MALAT1	0	.	GRCh37	11	65268871	65268871	+	RNA	SNP	G	G	A	rs761474124	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3639G>A	.	.	ENST00000534336	1/1	35	27	7	29	29	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	3639	.	.	.	.	rs761474124	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACGTTGAGGTC	byFrequency	3	BLCA
MALAT1	0	.	GRCh37	11	65268881	65268881	+	RNA	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3649G>A	.	.	ENST00000534336	1/1	35	26	8	27	27	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	3649	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGTGGAAGAG	.	3	BLCA
MALAT1	0	.	GRCh37	11	65268884	65268884	+	RNA	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3652G>A	.	.	ENST00000534336	1/1	33	25	8	27	27	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	3652	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGAAGAGATG	.	3	BLCA
MALAT1	0	.	GRCh37	11	65269080	65269080	+	RNA	SNP	G	G	A	rs755034100	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3848G>A	.	.	ENST00000534336	1/1	114	80	33	122	122	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	3848	.	.	.	.	rs755034100	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATTGACAAA	.	5	BLCA
MALAT1	0	.	GRCh37	11	65269178	65269178	+	RNA	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3946G>A	.	.	ENST00000534336	1/1	64	56	7	86	86	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	3946	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGTTGAAGCT	.	4	BLCA
MALAT1	0	.	GRCh37	11	65269702	65269702	+	RNA	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.4470G>C	.	.	ENST00000534336	1/1	53	46	7	64	64	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	C	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	4470	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGGGAAATG	.	5	BLCA
MALAT1	0	.	GRCh37	11	65269914	65269914	+	RNA	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.4682G>C	.	.	ENST00000534336	1/1	34	27	6	34	34	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;MALAT1,intron_variant,,ENST00000508832,;AP000769.7,upstream_gene_variant,,ENST00000602344,;	C	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	4682	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTAGGAGAAA	.	5	BLCA
MALAT1	0	.	GRCh37	11	65271095	65271095	+	RNA	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.5863G>C	.	.	ENST00000534336	1/1	61	45	16	88	88	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;MALAT1,downstream_gene_variant,,ENST00000508832,;	C	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	5863	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAGAGAATGT	.	5	BLCA
MALAT1	0	.	GRCh37	11	65271394	65271394	+	RNA	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.6162G>C	.	.	ENST00000534336	1/1	34	25	8	40	40	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,downstream_gene_variant,,ENST00000508832,;MALAT1,downstream_gene_variant,,ENST00000544868,;	C	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	6162	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCAGAGTAA	.	5	BLCA
MALAT1	0	.	GRCh37	11	65272844	65272844	+	RNA	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.7612G>C	.	.	ENST00000534336	1/1	87	69	17	90	90	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,downstream_gene_variant,,ENST00000508832,;MALAT1,downstream_gene_variant,,ENST00000544868,;	C	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	7612	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTGAAGTA	.	5	BLCA
FAM89B	0	.	GRCh37	11	65340999	65340999	+	Missense_Mutation	SNP	G	G	A	rs547806714	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457G>A	p.Asp153Asn	p.D153N	ENST00000530349	2/2	72	52	20	81	81	0	FAM89B,missense_variant,p.Asp140Asn,ENST00000316409,;FAM89B,missense_variant,p.Asp153Asn,ENST00000530349,;SSSCA1,3_prime_UTR_variant,,ENST00000526433,;FAM89B,3_prime_UTR_variant,,ENST00000449319,;EHBP1L1,upstream_gene_variant,,ENST00000309295,;SSSCA1,downstream_gene_variant,,ENST00000531405,;SSSCA1,downstream_gene_variant,,ENST00000309328,;SSSCA1,downstream_gene_variant,,ENST00000526877,;EHBP1L1,upstream_gene_variant,,ENST00000533237,;SSSCA1,downstream_gene_variant,,ENST00000527920,;SSSCA1,downstream_gene_variant,,ENST00000533115,;SSSCA1-AS1,upstream_gene_variant,,ENST00000567594,;EHBP1L1,upstream_gene_variant,,ENST00000531106,;SSSCA1,downstream_gene_variant,,ENST00000527413,;	A	ENSG00000176973	ENST00000530349	Transcript	missense_variant	599	457	153	D/N	Gac/Aac	rs547806714,COSM415448	.	.	1	FAM89B	HGNC	16708	protein_coding	YES	CCDS53662.1	ENSP00000431459	FA89B_HUMAN	.	UPI00001FABAE	.	deleterious(0.01)	probably_damaging(0.988)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21529,hmmpanther:PTHR21529:SF2	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACGACGAG	by1000G	5	BLCA
FAM89B	0	.	GRCh37	11	65341111	65341111	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569G>A	p.%3D	p.%3D	ENST00000530349	2/2	58	48	9	51	51	0	FAM89B,stop_retained_variant,p.%3D,ENST00000316409,;FAM89B,stop_retained_variant,p.%3D,ENST00000530349,;SSSCA1,3_prime_UTR_variant,,ENST00000526433,;FAM89B,3_prime_UTR_variant,,ENST00000449319,;EHBP1L1,upstream_gene_variant,,ENST00000309295,;SSSCA1,downstream_gene_variant,,ENST00000531405,;SSSCA1,downstream_gene_variant,,ENST00000309328,;SSSCA1,downstream_gene_variant,,ENST00000526877,;EHBP1L1,upstream_gene_variant,,ENST00000533237,;SSSCA1,downstream_gene_variant,,ENST00000527920,;SSSCA1,downstream_gene_variant,,ENST00000533115,;SSSCA1-AS1,upstream_gene_variant,,ENST00000567594,;EHBP1L1,upstream_gene_variant,,ENST00000531106,;SSSCA1,downstream_gene_variant,,ENST00000527413,;	A	ENSG00000176973	ENST00000530349	Transcript	stop_retained_variant	711	569	190	*	tGa/tAa	COSM415447	.	.	1	FAM89B	HGNC	16708	protein_coding	YES	CCDS53662.1	ENSP00000431459	FA89B_HUMAN	.	UPI00001FABAE	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CCTCTGAAGGG	.	3	BLCA
FAM89B	0	.	GRCh37	11	65341248	65341248	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*136G>C	.	.	ENST00000530349	2/2	14	9	5	18	18	0	FAM89B,3_prime_UTR_variant,,ENST00000316409,;SSSCA1,3_prime_UTR_variant,,ENST00000526433,;FAM89B,3_prime_UTR_variant,,ENST00000530349,;FAM89B,3_prime_UTR_variant,,ENST00000449319,;EHBP1L1,upstream_gene_variant,,ENST00000309295,;SSSCA1,downstream_gene_variant,,ENST00000531405,;SSSCA1,downstream_gene_variant,,ENST00000309328,;SSSCA1,downstream_gene_variant,,ENST00000526877,;EHBP1L1,upstream_gene_variant,,ENST00000533237,;SSSCA1,downstream_gene_variant,,ENST00000527920,;SSSCA1,downstream_gene_variant,,ENST00000533115,;SSSCA1-AS1,upstream_gene_variant,,ENST00000567594,;EHBP1L1,upstream_gene_variant,,ENST00000531106,;SSSCA1,downstream_gene_variant,,ENST00000527413,;	C	ENSG00000176973	ENST00000530349	Transcript	3_prime_UTR_variant	848	.	.	.	.	.	.	.	1	FAM89B	HGNC	16708	protein_coding	YES	CCDS53662.1	ENSP00000431459	FA89B_HUMAN	.	UPI00001FABAE	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCAGAGGCG	.	5	BLCA
SART1	0	.	GRCh37	11	65731532	65731532	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314-13C>T	.	.	ENST00000312397	.	70	56	13	80	80	0	SART1,intron_variant,,ENST00000312397,;SART1,non_coding_transcript_exon_variant,,ENST00000528573,;TSGA10IP,downstream_gene_variant,,ENST00000534740,;TSGA10IP,downstream_gene_variant,,ENST00000533763,;TSGA10IP,downstream_gene_variant,,ENST00000532620,;SART1,non_coding_transcript_exon_variant,,ENST00000532333,;SART1,intron_variant,,ENST00000530251,;SART1,intron_variant,,ENST00000529532,;TSGA10IP,downstream_gene_variant,,ENST00000608857,;	T	ENSG00000175467	ENST00000312397	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	SART1	HGNC	10538	protein_coding	YES	CCDS31611.1	ENSP00000310448	SNUT1_HUMAN	.	UPI00000732D5	.	.	.	.	1/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTCTTCTT	.	5	BLCA
PACS1	0	.	GRCh37	11	65983668	65983668	+	Missense_Mutation	SNP	G	G	C	rs779508796	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739G>C	p.Glu247Gln	p.E247Q	ENST00000320580	5/24	97	71	25	94	94	0	PACS1,missense_variant,p.Glu149Gln,ENST00000527380,;PACS1,missense_variant,p.Glu247Gln,ENST00000320580,;PACS1,downstream_gene_variant,,ENST00000533756,;PACS1,non_coding_transcript_exon_variant,,ENST00000527224,;PACS1,upstream_gene_variant,,ENST00000531298,;PACS1,upstream_gene_variant,,ENST00000533811,;PACS1,upstream_gene_variant,,ENST00000524784,;PACS1,upstream_gene_variant,,ENST00000534273,;	C	ENSG00000175115	ENST00000320580	Transcript	missense_variant	772	739	247	E/Q	Gaa/Caa	rs779508796,COSM415809	.	.	1	PACS1	HGNC	30032	protein_coding	YES	CCDS8129.1	ENSP00000316454	PACS1_HUMAN	Q9NTH2_HUMAN,E9PSG7_HUMAN,E9PSE1_HUMAN,E9PNZ9_HUMAN,B4DF77_HUMAN	UPI0000190973	.	tolerated(0.06)	probably_damaging(0.973)	5/24	.	hmmpanther:PTHR13280:SF16,hmmpanther:PTHR13280	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGAAATA	byFrequency|byCluster	5	BLCA
SPTBN2	0	.	GRCh37	11	66460711	66460711	+	Silent	SNP	C	C	T	rs146007976	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4800G>A	p.%3D	p.A1600A	ENST00000533211	24/38	141	107	34	122	122	0	SPTBN2,synonymous_variant,p.%3D,ENST00000533211,;SPTBN2,synonymous_variant,p.%3D,ENST00000309996,;SPTBN2,synonymous_variant,p.%3D,ENST00000529997,;SPTBN2,upstream_gene_variant,,ENST00000532650,;SPTBN2,upstream_gene_variant,,ENST00000532902,;SPTBN2,downstream_gene_variant,,ENST00000530665,;	T	ENSG00000173898	ENST00000533211	Transcript	synonymous_variant	5132	4800	1600	A	gcG/gcA	rs146007976,COSM415797	.	.	-1	SPTBN2	HGNC	11276	protein_coding	YES	CCDS8150.1	ENSP00000432568	SPTN2_HUMAN	E9PJZ2_HUMAN,C1KC08_HUMAN	UPI000013EF83	.	.	.	24/38	.	Superfamily_domains:SSF46966,PIRSF_domain:PIRSF002297,SMART_domains:SM00150,Gene3D:1.20.58.60,Pfam_domain:PF00435,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF205	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0009	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTCCGCCTC	byCluster|by1000G	5	BLCA
CLCF1	0	.	GRCh37	11	67133035	67133035	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250C>G	p.Leu84Val	p.L84V	ENST00000312438	3/3	162	127	34	147	147	0	CLCF1,missense_variant,p.Leu84Val,ENST00000312438,;CLCF1,missense_variant,p.Leu74Val,ENST00000528474,;CLCF1,missense_variant,p.Leu74Val,ENST00000533438,;RN7SKP239,downstream_gene_variant,,ENST00000364814,;AP003419.11,intron_variant,,ENST00000543494,;	C	ENSG00000175505	ENST00000312438	Transcript	missense_variant	448	250	84	L/V	Ctg/Gtg	COSM415786	.	.	-1	CLCF1	HGNC	17412	protein_coding	YES	CCDS31617.1	ENSP00000309338	CLCF1_HUMAN	.	UPI000003F7F1	.	tolerated(0.26)	benign(0.008)	3/3	.	hmmpanther:PTHR21353:SF7,hmmpanther:PTHR21353,Gene3D:1.20.1250.10,Pfam_domain:PF06875,Superfamily_domains:SSF47266	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCAGAGTCT	.	5	BLCA
PPP1CA	0	.	GRCh37	11	67166318	67166318	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790G>A	p.Asp264Asn	p.D264N	ENST00000312989	6/7	132	94	38	112	112	0	PPP1CA,missense_variant,p.Asp209Asn,ENST00000358239,;PPP1CA,missense_variant,p.Asp253Asn,ENST00000376745,;PPP1CA,missense_variant,p.Asp218Asn,ENST00000527663,;PPP1CA,missense_variant,p.Asp264Asn,ENST00000312989,;PPP1CA,downstream_gene_variant,,ENST00000542876,;RAD9A,downstream_gene_variant,,ENST00000544620,;PPP1CA,downstream_gene_variant,,ENST00000546202,;RAD9A,downstream_gene_variant,,ENST00000307980,;RNU6-1238P,upstream_gene_variant,,ENST00000517215,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000532279,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000532446,;PPP1CA,downstream_gene_variant,,ENST00000537694,;RAD9A,downstream_gene_variant,,ENST00000529100,;RAD9A,downstream_gene_variant,,ENST00000535644,;RAD9A,downstream_gene_variant,,ENST00000543808,;PPP1CA,downstream_gene_variant,,ENST00000529724,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000526510,;RAD9A,downstream_gene_variant,,ENST00000530934,;RAD9A,downstream_gene_variant,,ENST00000538013,;RAD9A,downstream_gene_variant,,ENST00000542139,;	T	ENSG00000172531	ENST00000312989	Transcript	missense_variant	801	790	264	D/N	Gac/Aac	COSM415784,COSM1133363,COSM415785	.	.	-1	PPP1CA	HGNC	9281	protein_coding	YES	CCDS31618.1	ENSP00000326031	PP1A_HUMAN	C4TNW6_HUMAN,C4TNW5_HUMAN,C0STL0_HUMAN	UPI0000070A42	.	deleterious_low_confidence(0.01)	benign(0.075)	6/7	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF207,Gene3D:3.60.21.10,SMART_domains:SM00156,Superfamily_domains:SSF56300,Prints_domain:PR00114	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCGTCTTCTA	.	3	BLCA
PPP1CA	0	.	GRCh37	11	67166321	67166321	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787G>A	p.Glu263Lys	p.E263K	ENST00000312989	6/7	133	95	38	111	110	1	PPP1CA,missense_variant,p.Glu208Lys,ENST00000358239,;PPP1CA,missense_variant,p.Glu252Lys,ENST00000376745,;PPP1CA,missense_variant,p.Glu217Lys,ENST00000527663,;PPP1CA,missense_variant,p.Glu263Lys,ENST00000312989,;PPP1CA,downstream_gene_variant,,ENST00000542876,;RAD9A,downstream_gene_variant,,ENST00000544620,;PPP1CA,downstream_gene_variant,,ENST00000546202,;RAD9A,downstream_gene_variant,,ENST00000307980,;RNU6-1238P,upstream_gene_variant,,ENST00000517215,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000532279,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000532446,;PPP1CA,downstream_gene_variant,,ENST00000537694,;RAD9A,downstream_gene_variant,,ENST00000529100,;RAD9A,downstream_gene_variant,,ENST00000535644,;RAD9A,downstream_gene_variant,,ENST00000543808,;PPP1CA,downstream_gene_variant,,ENST00000529724,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000526510,;RAD9A,downstream_gene_variant,,ENST00000530934,;RAD9A,downstream_gene_variant,,ENST00000538013,;RAD9A,downstream_gene_variant,,ENST00000542139,;	T	ENSG00000172531	ENST00000312989	Transcript	missense_variant	798	787	263	E/K	Gaa/Aaa	COSM415782,COSM1133364,COSM415783	.	.	-1	PPP1CA	HGNC	9281	protein_coding	YES	CCDS31618.1	ENSP00000326031	PP1A_HUMAN	C4TNW6_HUMAN,C4TNW5_HUMAN,C0STL0_HUMAN	UPI0000070A42	.	deleterious_low_confidence(0)	probably_damaging(1)	6/7	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF207,Gene3D:3.60.21.10,SMART_domains:SM00156,Superfamily_domains:SSF56300,Prints_domain:PR00114	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTCTTCTACCA	.	3	BLCA
PPP1CA	0	.	GRCh37	11	67166578	67166578	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Asp205Asn	p.D205N	ENST00000312989	5/7	111	83	27	107	107	0	PPP1CA,missense_variant,p.Asp150Asn,ENST00000358239,;PPP1CA,missense_variant,p.Asp194Asn,ENST00000376745,;PPP1CA,missense_variant,p.Asp159Asn,ENST00000527663,;PPP1CA,missense_variant,p.Asp205Asn,ENST00000312989,;PPP1CA,downstream_gene_variant,,ENST00000542876,;RAD9A,downstream_gene_variant,,ENST00000544620,;PPP1CA,downstream_gene_variant,,ENST00000546202,;RAD9A,downstream_gene_variant,,ENST00000307980,;TBC1D10C,upstream_gene_variant,,ENST00000526387,;TBC1D10C,upstream_gene_variant,,ENST00000312390,;RNU6-1238P,upstream_gene_variant,,ENST00000517215,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000532279,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000532446,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000537694,;RAD9A,downstream_gene_variant,,ENST00000529100,;RAD9A,downstream_gene_variant,,ENST00000535644,;RAD9A,downstream_gene_variant,,ENST00000543808,;PPP1CA,downstream_gene_variant,,ENST00000529724,;PPP1CA,non_coding_transcript_exon_variant,,ENST00000526510,;RAD9A,downstream_gene_variant,,ENST00000530934,;RAD9A,downstream_gene_variant,,ENST00000538013,;RAD9A,downstream_gene_variant,,ENST00000542139,;	T	ENSG00000172531	ENST00000312989	Transcript	missense_variant	624	613	205	D/N	Gat/Aat	COSM415780,COSM1133365,COSM415781	.	.	-1	PPP1CA	HGNC	9281	protein_coding	YES	CCDS31618.1	ENSP00000326031	PP1A_HUMAN	C4TNW6_HUMAN,C4TNW5_HUMAN,C0STL0_HUMAN	UPI0000070A42	.	deleterious_low_confidence(0)	probably_damaging(0.964)	5/7	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF207,Pfam_domain:PF00149,Gene3D:3.60.21.10,SMART_domains:SM00156,Superfamily_domains:SSF56300,Prints_domain:PR00114	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCTGTGG	.	5	BLCA
TBC1D10C	0	.	GRCh37	11	67172956	67172956	+	Silent	SNP	G	G	A	rs768127771	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339G>A	p.%3D	p.K113K	ENST00000312390	4/10	72	55	17	69	69	0	TBC1D10C,synonymous_variant,p.%3D,ENST00000542590,;TBC1D10C,synonymous_variant,p.%3D,ENST00000526387,;TBC1D10C,synonymous_variant,p.%3D,ENST00000312390,;PPP1CA,intron_variant,,ENST00000542876,;PPP1CA,intron_variant,,ENST00000546202,;PPP1CA,upstream_gene_variant,,ENST00000358239,;PPP1CA,upstream_gene_variant,,ENST00000376745,;PPP1CA,upstream_gene_variant,,ENST00000527663,;PPP1CA,upstream_gene_variant,,ENST00000312989,;PPP1CA,intron_variant,,ENST00000537694,;PPP1CA,upstream_gene_variant,,ENST00000532446,;PPP1CA,upstream_gene_variant,,ENST00000529724,;TBC1D10C,synonymous_variant,p.%3D,ENST00000529635,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000526474,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000530967,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000533745,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000529132,;TBC1D10C,upstream_gene_variant,,ENST00000524662,;PPP1CA,upstream_gene_variant,,ENST00000526510,;	A	ENSG00000175463	ENST00000312390	Transcript	synonymous_variant	368	339	113	K	aaG/aaA	rs768127771,COSM415779	.	.	1	TBC1D10C	HGNC	24702	protein_coding	YES	CCDS8162.1	ENSP00000310193	TB10C_HUMAN	.	UPI00000746CA	.	.	.	4/10	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957:SF264,hmmpanther:PTHR22957,Pfam_domain:PF00566,Gene3D:2qq8A02,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGAACAG	.	5	BLCA
ALDH3B1	0	.	GRCh37	11	67787235	67787235	+	Missense_Mutation	SNP	G	G	C	rs757647123	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529G>C	p.Glu177Gln	p.E177Q	ENST00000539229	7/13	143	112	31	178	178	0	ALDH3B1,missense_variant,p.Glu141Gln,ENST00000342456,;ALDH3B1,missense_variant,p.Glu177Gln,ENST00000539229,;ALDH3B1,missense_variant,p.Glu177Gln,ENST00000007633,;ALDH3B1,missense_variant,p.Glu177Gln,ENST00000316367,;ALDH3B1,non_coding_transcript_exon_variant,,ENST00000530046,;ALDH3B1,non_coding_transcript_exon_variant,,ENST00000526609,;ALDH3B1,non_coding_transcript_exon_variant,,ENST00000433100,;ALDH3B1,non_coding_transcript_exon_variant,,ENST00000434449,;ALDH3B1,non_coding_transcript_exon_variant,,ENST00000525518,;ALDH3B1,intron_variant,,ENST00000531459,;ALDH3B1,intron_variant,,ENST00000527179,;ALDH3B1,upstream_gene_variant,,ENST00000527514,;ALDH3B1,non_coding_transcript_exon_variant,,ENST00000529232,;	C	ENSG00000006534	ENST00000539229	Transcript	missense_variant	645	529	177	E/Q	Gag/Cag	rs757647123	.	.	1	ALDH3B1	HGNC	410	protein_coding	YES	.	ENSP00000474034	AL3B1_HUMAN	S4R3R5_HUMAN	UPI000045652C	.	tolerated(0.09)	benign(0.17)	7/13	.	hmmpanther:PTHR11699:SF147,hmmpanther:PTHR11699,Pfam_domain:PF00171,Gene3D:3.40.605.10,PIRSF_domain:PIRSF036492,Superfamily_domains:SSF53720	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTAGAGCAC	.	5	BLCA
OR10A5	0	.	GRCh37	11	6867346	6867346	+	Missense_Mutation	SNP	C	C	G	rs780070690	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433C>G	p.Leu145Val	p.L145V	ENST00000299454	1/1	252	208	44	212	212	0	OR10A5,missense_variant,p.Leu149Val,ENST00000379831,;OR10A5,missense_variant,p.Leu145Val,ENST00000299454,;RP11-560B16.5,upstream_gene_variant,,ENST00000530632,;	G	ENSG00000166363	ENST00000299454	Transcript	missense_variant	464	433	145	L/V	Ctg/Gtg	rs780070690,COSM415767	.	.	1	OR10A5	HGNC	15131	protein_coding	YES	CCDS7773.1	ENSP00000299454	O10A5_HUMAN	.	UPI000004C155	.	deleterious(0.01)	probably_damaging(0.912)	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81321,Pfam_domain:PF13853,Gene3D:1.20.1070.10,hmmpanther:PTHR26453:SF90,hmmpanther:PTHR26453,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAAACTGGCT	.	5	BLCA
FADD	0	.	GRCh37	11	70049613	70049613	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48G>A	p.%3D	p.S16S	ENST00000301838	1/2	18	14	4	29	29	0	FADD,synonymous_variant,p.%3D,ENST00000301838,;RP11-805J14.5,downstream_gene_variant,,ENST00000527232,;RP11-805J14.5,downstream_gene_variant,,ENST00000526174,;	A	ENSG00000168040	ENST00000301838	Transcript	synonymous_variant	345	48	16	S	tcG/tcA	COSM415760	.	.	1	FADD	HGNC	3573	protein_coding	YES	CCDS8196.1	ENSP00000301838	FADD_HUMAN	Q6LCG1_HUMAN,Q6LCB0_HUMAN	UPI000012A4D1	.	.	.	1/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50168,hmmpanther:PTHR15077,Gene3D:1.10.533.10,Pfam_domain:PF01335,PIRSF_domain:PIRSF018586,SMART_domains:SM00031,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTCGAGCAG	.	2	BLCA
FADD	0	.	GRCh37	11	70049620	70049620	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.55G>A	p.Glu19Lys	p.E19K	ENST00000301838	1/2	20	15	5	31	31	0	FADD,missense_variant,p.Glu19Lys,ENST00000301838,;RP11-805J14.5,downstream_gene_variant,,ENST00000527232,;RP11-805J14.5,downstream_gene_variant,,ENST00000526174,;	A	ENSG00000168040	ENST00000301838	Transcript	missense_variant	352	55	19	E/K	Gag/Aag	COSM415759	.	.	1	FADD	HGNC	3573	protein_coding	YES	CCDS8196.1	ENSP00000301838	FADD_HUMAN	Q6LCG1_HUMAN,Q6LCB0_HUMAN	UPI000012A4D1	.	deleterious(0)	possibly_damaging(0.756)	1/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50168,hmmpanther:PTHR15077,Gene3D:1.10.533.10,Pfam_domain:PF01335,PIRSF_domain:PIRSF018586,SMART_domains:SM00031,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGCGAGCTG	.	2	BLCA
NLRP10	0	.	GRCh37	11	7981789	7981789	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1370C>T	p.Ala457Val	p.A457V	ENST00000328600	2/2	222	177	45	177	176	0	NLRP10,missense_variant,p.Ala457Val,ENST00000328600,;NLRP10,downstream_gene_variant,,ENST00000526590,;	A	ENSG00000182261	ENST00000328600	Transcript	missense_variant	1532	1370	457	A/V	gCc/gTc	COSM415721	.	.	-1	NLRP10	HGNC	21464	protein_coding	YES	CCDS7784.1	ENSP00000327763	NAL10_HUMAN	E9PPY0_HUMAN	UPI0000167F6C	.	tolerated(0.07)	benign(0.008)	2/2	.	hmmpanther:PTHR24106:SF103,hmmpanther:PTHR24106	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGATGGCAAGT	.	4	BLCA
PIDD	0	.	GRCh37	11	804358	804358	+	Missense_Mutation	SNP	C	C	G	rs746600265	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.31G>C	p.Glu11Gln	p.E11Q	ENST00000347755	2/16	44	33	11	48	48	0	PIDD,missense_variant,p.Glu11Gln,ENST00000347755,;PIDD,missense_variant,p.Glu11Gln,ENST00000411829,;PIDD,non_coding_transcript_exon_variant,,ENST00000534649,;PIDD,upstream_gene_variant,,ENST00000528122,;PIDD,upstream_gene_variant,,ENST00000527812,;PIDD,downstream_gene_variant,,ENST00000530911,;PIDD,missense_variant,p.Glu11Gln,ENST00000524486,;PIDD,missense_variant,p.Glu11Gln,ENST00000525028,;PIDD,non_coding_transcript_exon_variant,,ENST00000527357,;PIDD,non_coding_transcript_exon_variant,,ENST00000534525,;PIDD,upstream_gene_variant,,ENST00000531286,;	G	ENSG00000177595	ENST00000347755	Transcript	missense_variant	173	31	11	E/Q	Gag/Cag	rs746600265,COSM415719	.	.	-1	PIDD	HGNC	16491	protein_coding	YES	CCDS7716.1	ENSP00000337797	PIDD_HUMAN	.	UPI000045644A	.	tolerated_low_confidence(0.29)	benign(0.003)	2/16	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	TGCCTCCAGCT	.	4	BLCA
C11orf82	0	.	GRCh37	11	82643575	82643575	+	Missense_Mutation	SNP	G	G	C	rs149497860	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1195G>C	p.Glu399Gln	p.E399Q	ENST00000533655	6/6	305	231	73	285	285	0	C11orf82,missense_variant,p.Glu399Gln,ENST00000430323,;C11orf82,missense_variant,p.Glu98Gln,ENST00000329143,;C11orf82,missense_variant,p.Glu399Gln,ENST00000533655,;C11orf82,3_prime_UTR_variant,,ENST00000528759,;C11orf82,intron_variant,,ENST00000525361,;PRCP,intron_variant,,ENST00000534396,;C11orf82,downstream_gene_variant,,ENST00000528262,;C11orf82,downstream_gene_variant,,ENST00000524921,;C11orf82,downstream_gene_variant,,ENST00000532277,;C11orf82,downstream_gene_variant,,ENST00000532764,;C11orf82,downstream_gene_variant,,ENST00000525388,;C11orf82,downstream_gene_variant,,ENST00000532589,;C11orf82,downstream_gene_variant,,ENST00000533750,;C11orf82,downstream_gene_variant,,ENST00000528189,;	C	ENSG00000165490	ENST00000533655	Transcript	missense_variant	1407	1195	399	E/Q	Gaa/Caa	rs149497860,COSM415717	.	.	1	C11orf82	HGNC	26351	protein_coding	YES	CCDS8263.1	ENSP00000435421	NOXIN_HUMAN	E9PQP9_HUMAN,E9PN94_HUMAN,E9PLJ5_HUMAN,B4DMA1_HUMAN	UPI00001AF966	.	tolerated(0.05)	possibly_damaging(0.804)	6/6	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTGAAGAG	byCluster	5	BLCA
ME3	0	.	GRCh37	11	86160971	86160971	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1091G>A	p.Arg364Lys	p.R364K	ENST00000543262	10/15	217	162	54	185	185	0	ME3,missense_variant,p.Arg364Lys,ENST00000359636,;ME3,missense_variant,p.Arg364Lys,ENST00000524826,;ME3,missense_variant,p.Arg364Lys,ENST00000543262,;ME3,missense_variant,p.Arg364Lys,ENST00000393324,;RP11-317J19.1,intron_variant,,ENST00000524610,;ME3,non_coding_transcript_exon_variant,,ENST00000530520,;ME3,downstream_gene_variant,,ENST00000526504,;	T	ENSG00000151376	ENST00000543262	Transcript	missense_variant	1418	1091	364	R/K	aGa/aAa	COSM415708	.	.	-1	ME3	HGNC	6985	protein_coding	YES	CCDS8277.1	ENSP00000440246	MAON_HUMAN	E9PQP5_HUMAN,E9PNN2_HUMAN,E9PMB9_HUMAN	UPI000013DC4F	.	tolerated(1)	benign(0.001)	10/15	.	Superfamily_domains:SSF51735,PIRSF_domain:PIRSF000106,SMART_domains:SM00919,Gene3D:3.40.50.720,Pfam_domain:PF03949,hmmpanther:PTHR23406,hmmpanther:PTHR23406:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTTGTG	.	5	BLCA
PIWIL4	0	.	GRCh37	11	94335120	94335120	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1540G>A	p.Gly514Arg	p.G514R	ENST00000299001	12/20	156	127	29	161	161	0	PIWIL4,missense_variant,p.Gly514Arg,ENST00000299001,;RP11-867G2.8,intron_variant,,ENST00000536540,;RP11-867G2.8,intron_variant,,ENST00000537874,;PIWIL4,missense_variant,p.Gly445Arg,ENST00000543336,;PIWIL4,missense_variant,p.Gly487Arg,ENST00000446230,;	A	ENSG00000134627	ENST00000299001	Transcript	missense_variant	1751	1540	514	G/R	Gga/Aga	COSM415690	.	.	1	PIWIL4	HGNC	18444	protein_coding	YES	CCDS31656.1	ENSP00000299001	PIWL4_HUMAN	F5GX26_HUMAN	UPI000006D0EC	.	deleterious(0)	probably_damaging(0.989)	12/20	.	hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF27,Gene3D:3.40.50.2300,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATGGGATTT	.	5	BLCA
DEPDC4	0	.	GRCh37	12	100649888	100649888	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.817G>C	p.Asp273His	p.D273H	ENST00000416321	4/5	124	98	26	116	116	0	DEPDC4,missense_variant,p.Asp84His,ENST00000548313,;DEPDC4,missense_variant,p.Asp273His,ENST00000550587,;DEPDC4,missense_variant,p.Asp273His,ENST00000416321,;DEPDC4,missense_variant,p.Asp266His,ENST00000551642,;DEPDC4,missense_variant,p.Asp219His,ENST00000549249,;Y_RNA,downstream_gene_variant,,ENST00000384063,;DEPDC4,upstream_gene_variant,,ENST00000547823,;DEPDC4,upstream_gene_variant,,ENST00000549100,;DEPDC4,missense_variant,p.Asp273His,ENST00000378244,;DEPDC4,3_prime_UTR_variant,,ENST00000299185,;DEPDC4,3_prime_UTR_variant,,ENST00000549341,;	G	ENSG00000166153	ENST00000416321	Transcript	missense_variant	820	817	273	D/H	Gat/Cat	COSM415680	.	.	-1	DEPDC4	HGNC	22952	protein_coding	YES	CCDS9075.1	ENSP00000396234	DEPD4_HUMAN	H0YIL0_HUMAN	UPI0000071E6F	.	deleterious(0)	possibly_damaging(0.871)	4/5	.	hmmpanther:PTHR16206:SF10,hmmpanther:PTHR16206	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATCTTCCT	.	5	BLCA
UTP20	0	.	GRCh37	12	101711260	101711260	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2557G>C	p.Glu853Gln	p.E853Q	ENST00000261637	22/62	71	54	17	73	73	0	UTP20,missense_variant,p.Glu853Gln,ENST00000261637,;	C	ENSG00000120800	ENST00000261637	Transcript	missense_variant	2731	2557	853	E/Q	Gag/Cag	COSM415675	.	.	1	UTP20	HGNC	17897	protein_coding	YES	CCDS9081.1	ENSP00000261637	UTP20_HUMAN	.	UPI00001FB38B	.	deleterious(0.02)	possibly_damaging(0.725)	22/62	.	hmmpanther:PTHR17695:SF11,hmmpanther:PTHR17695,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAATGAGTAT	.	5	BLCA
MYBPC1	0	.	GRCh37	12	102036345	102036345	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739G>C	p.Glu247Gln	p.E247Q	ENST00000452455	9/30	15	10	4	19	19	0	MYBPC1,missense_variant,p.Glu228Gln,ENST00000536007,;MYBPC1,missense_variant,p.Glu221Gln,ENST00000547405,;MYBPC1,missense_variant,p.Glu247Gln,ENST00000550270,;MYBPC1,missense_variant,p.Glu272Gln,ENST00000361685,;MYBPC1,missense_variant,p.Glu148Gln,ENST00000551300,;MYBPC1,missense_variant,p.Glu272Gln,ENST00000361466,;MYBPC1,missense_variant,p.Glu247Gln,ENST00000452455,;MYBPC1,missense_variant,p.Glu260Gln,ENST00000549145,;MYBPC1,missense_variant,p.Glu234Gln,ENST00000392934,;MYBPC1,missense_variant,p.Glu247Gln,ENST00000553190,;MYBPC1,missense_variant,p.Glu247Gln,ENST00000545503,;MYBPC1,missense_variant,p.Glu247Gln,ENST00000441232,;MYBPC1,missense_variant,p.Glu247Gln,ENST00000360610,;MYBPC1,missense_variant,p.Glu233Gln,ENST00000547509,;MYBPC1,missense_variant,p.Glu235Gln,ENST00000541119,;MYBPC1,downstream_gene_variant,,ENST00000550514,;RP11-755O11.2,downstream_gene_variant,,ENST00000552081,;RP11-755O11.2,downstream_gene_variant,,ENST00000547027,;MYBPC1,intron_variant,,ENST00000550501,;MYBPC1,downstream_gene_variant,,ENST00000552198,;	C	ENSG00000196091	ENST00000452455	Transcript	missense_variant	841	739	247	E/Q	Gag/Cag	COSM415672,COSM415673	.	.	1	MYBPC1	HGNC	7549	protein_coding	YES	CCDS58268.1	ENSP00000400908	MYPC1_HUMAN	F8W1Z9_HUMAN	UPI0001AE6B26	.	tolerated(0.05)	benign(0.119)	9/30	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19900:SF43,hmmpanther:PTHR19900	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGAGAGGAG	.	5	BLCA
RAD52	0	.	GRCh37	12	1025667	1025667	+	Intron	SNP	G	G	A	rs746941880	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726-18C>T	.	.	ENST00000358495	.	31	25	5	24	24	0	RAD52,missense_variant,p.Arg254Cys,ENST00000536177,;RAD52,intron_variant,,ENST00000358495,;RAD52,intron_variant,,ENST00000430095,;RAD52,intron_variant,,ENST00000539046,;RAD52,non_coding_transcript_exon_variant,,ENST00000535376,;RAD52,downstream_gene_variant,,ENST00000542584,;RAD52,upstream_gene_variant,,ENST00000542297,;RAD52,3_prime_UTR_variant,,ENST00000461568,;RAD52,non_coding_transcript_exon_variant,,ENST00000463750,;RAD52,non_coding_transcript_exon_variant,,ENST00000481052,;RAD52,intron_variant,,ENST00000543912,;RAD52,intron_variant,,ENST00000488642,;RAD52,intron_variant,,ENST00000468231,;RAD52,intron_variant,,ENST00000228345,;	A	ENSG00000002016	ENST00000358495	Transcript	intron_variant	.	.	.	.	.	rs746941880	.	.	-1	RAD52	HGNC	9824	protein_coding	YES	CCDS8507.2	ENSP00000351284	RAD52_HUMAN	Q9UHE1_HUMAN,Q5DR82_HUMAN,Q3MI84_HUMAN,F5H3Q1_HUMAN,F5GX95_HUMAN,D3DUP4_HUMAN	UPI0000133035	.	.	.	.	8/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGCGGCGAG	byFrequency	5	BLCA
WSCD2	0	.	GRCh37	12	108589501	108589501	+	5'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-109G>A	.	.	ENST00000332082	3/10	23	19	4	26	26	0	WSCD2,5_prime_UTR_variant,,ENST00000332082,;WSCD2,5_prime_UTR_variant,,ENST00000547525,;WSCD2,5_prime_UTR_variant,,ENST00000261400,;WSCD2,intron_variant,,ENST00000551638,;WSCD2,upstream_gene_variant,,ENST00000549903,;WSCD2,downstream_gene_variant,,ENST00000551106,;WSCD2,downstream_gene_variant,,ENST00000550529,;WSCD2,downstream_gene_variant,,ENST00000546811,;WSCD2,downstream_gene_variant,,ENST00000551057,;WSCD2,downstream_gene_variant,,ENST00000552195,;WSCD2,downstream_gene_variant,,ENST00000551734,;WSCD2,downstream_gene_variant,,ENST00000546401,;WSCD2,upstream_gene_variant,,ENST00000547185,;	A	ENSG00000075035	ENST00000332082	Transcript	5_prime_UTR_variant	710	.	.	.	.	.	.	.	1	WSCD2	HGNC	29117	protein_coding	YES	CCDS41828.1	ENSP00000331933	WSCD2_HUMAN	F8W030_HUMAN	UPI00001C1F3A	.	.	.	3/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGAGGACCCC	.	4	BLCA
ANKRD13A	0	.	GRCh37	12	110463573	110463573	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.828G>A	p.%3D	p.V276V	ENST00000261739	8/15	191	129	62	191	191	0	ANKRD13A,synonymous_variant,p.%3D,ENST00000547639,;ANKRD13A,synonymous_variant,p.%3D,ENST00000261739,;ANKRD13A,upstream_gene_variant,,ENST00000551491,;C12orf76,downstream_gene_variant,,ENST00000546651,;ANKRD13A,upstream_gene_variant,,ENST00000547419,;ANKRD13A,downstream_gene_variant,,ENST00000550404,;ANKRD13A,3_prime_UTR_variant,,ENST00000553025,;ANKRD13A,non_coding_transcript_exon_variant,,ENST00000546476,;ANKRD13A,upstream_gene_variant,,ENST00000553251,;ANKRD13A,upstream_gene_variant,,ENST00000549826,;	A	ENSG00000076513	ENST00000261739	Transcript	synonymous_variant	994	828	276	V	gtG/gtA	COSM415630	.	.	1	ANKRD13A	HGNC	21268	protein_coding	YES	CCDS9140.1	ENSP00000261739	AN13A_HUMAN	Q3ZTS7_HUMAN,B4DDL0_HUMAN,B3KMT9_HUMAN	UPI000004472C	.	.	.	8/15	.	hmmpanther:PTHR12447,hmmpanther:PTHR12447:SF4,Pfam_domain:PF11904	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGTGATCAC	.	5	BLCA
BRAP	0	.	GRCh37	12	112096587	112096587	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1174G>A	p.Glu392Lys	p.E392K	ENST00000419234	9/12	105	86	19	101	101	0	BRAP,missense_variant,p.Glu213Lys,ENST00000539060,;BRAP,missense_variant,p.Glu362Lys,ENST00000327551,;BRAP,missense_variant,p.Glu392Lys,ENST00000419234,;BRAP,non_coding_transcript_exon_variant,,ENST00000547043,;	T	ENSG00000089234	ENST00000419234	Transcript	missense_variant	1368	1174	392	E/K	Gag/Aag	COSM415623	.	.	-1	BRAP	HGNC	1099	protein_coding	YES	CCDS9154.1	ENSP00000403524	BRAP_HUMAN	Q59H81_HUMAN,J3KNN7_HUMAN	UPI00001AF597	.	tolerated(0.26)	benign(0.297)	9/12	.	hmmpanther:PTHR24007	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCACATT	.	5	BLCA
NOS1	0	.	GRCh37	12	117685219	117685219	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2859G>C	p.Met953Ile	p.M953I	ENST00000338101	18/29	130	104	25	114	114	0	NOS1,missense_variant,p.Met919Ile,ENST00000317775,;NOS1,missense_variant,p.Met953Ile,ENST00000338101,;NOS1,3_prime_UTR_variant,,ENST00000344089,;TCEB1P32,upstream_gene_variant,,ENST00000548625,;	G	ENSG00000089250	ENST00000338101	Transcript	missense_variant	2864	2859	953	M/I	atG/atC	COSM416020	.	.	-1	NOS1	HGNC	7872	protein_coding	YES	CCDS55890.1	ENSP00000337459	NOS1_HUMAN	A0PJJ7_HUMAN	UPI00001FBC10	.	tolerated(0.2)	benign(0.213)	18/29	.	Prints_domain:PR00369,Superfamily_domains:SSF52218,PIRSF_domain:PIRSF000333,Pfam_domain:PF00258,Gene3D:3.40.50.360,hmmpanther:PTHR19384,hmmpanther:PTHR19384:SF63,PROSITE_profiles:PS50902	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCATCTT	.	5	BLCA
CIT	0	.	GRCh37	12	120166373	120166373	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3525G>A	p.Met1175Ile	p.M1175I	ENST00000392521	28/48	388	299	89	364	364	0	CIT,missense_variant,p.Met761Ile,ENST00000392520,;CIT,missense_variant,p.Met1133Ile,ENST00000261833,;CIT,missense_variant,p.Met1175Ile,ENST00000392521,;CIT,intron_variant,,ENST00000536325,;CIT,downstream_gene_variant,,ENST00000546026,;CIT,non_coding_transcript_exon_variant,,ENST00000537607,;CIT,non_coding_transcript_exon_variant,,ENST00000545913,;	T	ENSG00000122966	ENST00000392521	Transcript	missense_variant	3581	3525	1175	M/I	atG/atA	COSM416014,COSM416013,COSM1133378	.	.	-1	CIT	HGNC	1985	protein_coding	YES	CCDS55891.1	ENSP00000376306	CTRO_HUMAN	.	UPI0000683C41	.	deleterious(0.02)	benign(0.391)	28/48	.	Coiled-coils_(Ncoils):Coil,PIRSF_domain:PIRSF038145,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF26	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTCATTTC	.	5	BLCA
KDM2B	0	.	GRCh37	12	121882022	121882022	+	Silent	SNP	G	G	C	rs782200470	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2244C>G	p.%3D	p.L748L	ENST00000377071	16/23	131	93	38	136	136	0	KDM2B,synonymous_variant,p.%3D,ENST00000542973,;KDM2B,synonymous_variant,p.%3D,ENST00000377071,;KDM2B,synonymous_variant,p.%3D,ENST00000377069,;KDM2B,intron_variant,,ENST00000536437,;KDM2B,non_coding_transcript_exon_variant,,ENST00000538243,;KDM2B,non_coding_transcript_exon_variant,,ENST00000538503,;KDM2B,intron_variant,,ENST00000543025,;KDM2B,upstream_gene_variant,,ENST00000536036,;	C	ENSG00000089094	ENST00000377071	Transcript	synonymous_variant	2317	2244	748	L	ctC/ctG	rs782200470,COSM415994,COSM415993	.	.	-1	KDM2B	HGNC	13610	protein_coding	YES	CCDS41850.1	ENSP00000366271	KDM2B_HUMAN	F5H7T7_HUMAN,F5H6N6_HUMAN,F5H4A7_HUMAN,F5GXC2_HUMAN	UPI000006F36E	.	.	.	16/23	.	hmmpanther:PTHR23123:SF10,hmmpanther:PTHR23123	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTGAGCAG	.	5	BLCA
SETD8	0	.	GRCh37	12	123875261	123875261	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217G>A	p.Glu73Lys	p.E73K	ENST00000402868	3/8	118	93	25	134	134	0	SETD8,missense_variant,p.Glu64Lys,ENST00000437502,;SETD8,missense_variant,p.Glu73Lys,ENST00000330479,;SETD8,missense_variant,p.Glu73Lys,ENST00000402868,;SETD8,non_coding_transcript_exon_variant,,ENST00000478781,;SETD8,downstream_gene_variant,,ENST00000537270,;SETD8,upstream_gene_variant,,ENST00000485469,;SETD8,missense_variant,p.Arg32Lys,ENST00000437519,;SETD8,non_coding_transcript_exon_variant,,ENST00000461103,;SETD8,non_coding_transcript_exon_variant,,ENST00000462311,;	A	ENSG00000183955	ENST00000402868	Transcript	missense_variant	643	217	73	E/K	Gag/Aag	COSM415976	.	.	1	SETD8	HGNC	29489	protein_coding	YES	CCDS9247.1	ENSP00000384629	SETD8_HUMAN	.	UPI000002B371	.	deleterious(0)	possibly_damaging(0.851)	3/8	.	PROSITE_profiles:PS51571,PIRSF_domain:PIRSF027717	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAGAAC	.	5	BLCA
PIWIL1	0	.	GRCh37	12	130830392	130830392	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.285G>A	p.%3D	p.Q95Q	ENST00000245255	4/21	107	87	19	95	95	0	PIWIL1,synonymous_variant,p.%3D,ENST00000546060,;PIWIL1,synonymous_variant,p.%3D,ENST00000542723,;PIWIL1,synonymous_variant,p.%3D,ENST00000539995,;PIWIL1,synonymous_variant,p.%3D,ENST00000539400,;PIWIL1,synonymous_variant,p.%3D,ENST00000245255,;PIWIL1,synonymous_variant,p.%3D,ENST00000535956,;PIWIL1,5_prime_UTR_variant,,ENST00000540672,;	A	ENSG00000125207	ENST00000245255	Transcript	synonymous_variant	557	285	95	Q	caG/caA	COSM415956	.	.	1	PIWIL1	HGNC	9007	protein_coding	YES	CCDS9268.1	ENSP00000245255	PIWL1_HUMAN	F5H889_HUMAN,F5H3U6_HUMAN,F5H2F7_HUMAN,F5GZL9_HUMAN,F5GYG0_HUMAN,F5GWW4_HUMAN	UPI000007059F	.	.	.	4/21	.	Pfam_domain:PF05831,hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF31	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCAGAACCT	.	5	BLCA
GPR133	0	.	GRCh37	12	131498798	131498798	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1386G>A	p.%3D	p.L462L	ENST00000261654	13/25	113	105	8	133	133	0	GPR133,synonymous_variant,p.%3D,ENST00000376682,;GPR133,synonymous_variant,p.%3D,ENST00000535015,;GPR133,synonymous_variant,p.%3D,ENST00000545900,;GPR133,synonymous_variant,p.%3D,ENST00000261654,;	A	ENSG00000111452	ENST00000261654	Transcript	synonymous_variant	1945	1386	462	L	ctG/ctA	COSM415949	.	.	1	GPR133	HGNC	19893	protein_coding	YES	CCDS9272.1	ENSP00000261654	GP133_HUMAN	F5H4Y0_HUMAN,B2CKK9_HUMAN	UPI0000241C7A	.	.	.	13/25	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF216	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTGATTTC	.	2	BLCA
EP400	0	.	GRCh37	12	132515894	132515894	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5755-604G>C	.	.	ENST00000389561	.	171	135	35	202	202	0	EP400,intron_variant,,ENST00000389562,;EP400,intron_variant,,ENST00000332482,;EP400,intron_variant,,ENST00000389561,;EP400,intron_variant,,ENST00000333577,;EP400,intron_variant,,ENST00000330386,;SNORA49,non_coding_transcript_exon_variant,,ENST00000386157,;	C	ENSG00000183495	ENST00000389561	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	EP400	HGNC	11958	protein_coding	YES	CCDS31929.2	ENSP00000374212	EP400_HUMAN	.	UPI00004566BC	.	.	.	.	29/52	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTGAGCTG	.	5	BLCA
SLCO1B7	0	.	GRCh37	12	21200106	21200106	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949G>C	p.Glu317Gln	p.E317Q	ENST00000421593	7/13	35	26	9	28	28	0	SLCO1B7,missense_variant,p.Glu364Gln,ENST00000554957,;LST3,missense_variant,p.Glu364Gln,ENST00000381541,;SLCO1B7,missense_variant,p.Glu317Gln,ENST00000421593,;SLCO1B3,intron_variant,,ENST00000553473,;LST3,intron_variant,,ENST00000540229,;RP11-125O5.2,upstream_gene_variant,,ENST00000543498,;	C	ENSG00000205754	ENST00000421593	Transcript	missense_variant	949	949	317	E/Q	Gag/Cag	COSM415921	.	.	1	SLCO1B7	HGNC	32934	protein_coding	YES	CCDS44843.1	ENSP00000394168	SO1B7_HUMAN	.	UPI0000E5E120	.	deleterious(0.01)	probably_damaging(0.971)	7/13	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11388:SF78,hmmpanther:PTHR11388,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGGTGGAGCAA	.	4	BLCA
C12orf39	0	.	GRCh37	12	21680080	21680080	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99G>A	p.%3D	p.E33E	ENST00000256969	3/6	186	151	35	173	173	0	C12orf39,synonymous_variant,p.%3D,ENST00000256969,;C12orf39,upstream_gene_variant,,ENST00000544637,;C12orf39,upstream_gene_variant,,ENST00000543800,;C12orf39,upstream_gene_variant,,ENST00000537527,;C12orf39,5_prime_UTR_variant,,ENST00000546199,;C12orf39,non_coding_transcript_exon_variant,,ENST00000535033,;C12orf39,upstream_gene_variant,,ENST00000535139,;	A	ENSG00000134548	ENST00000256969	Transcript	synonymous_variant	265	99	33	E	gaG/gaA	COSM415918	.	.	1	C12orf39	HGNC	28139	protein_coding	YES	CCDS31757.1	ENSP00000256969	SPXN_HUMAN	.	UPI0000039EF8	.	.	.	3/6	.	Pfam_domain:PF15171	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGAGAGAAG	.	5	BLCA
ASUN	0	.	GRCh37	12	27066551	27066551	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1644G>A	p.%3D	p.E548E	ENST00000261191	14/17	541	413	128	529	529	0	ASUN,synonymous_variant,p.%3D,ENST00000538155,;ASUN,synonymous_variant,p.%3D,ENST00000261191,;ASUN,synonymous_variant,p.%3D,ENST00000539625,;ASUN,downstream_gene_variant,,ENST00000542392,;ASUN,downstream_gene_variant,,ENST00000536232,;	T	ENSG00000064102	ENST00000261191	Transcript	synonymous_variant	2181	1644	548	E	gaG/gaA	COSM415905	.	.	-1	ASUN	HGNC	20174	protein_coding	YES	CCDS8708.1	ENSP00000261191	ASUN_HUMAN	F8VRX9_HUMAN,F5H5W1_HUMAN,F5H457_HUMAN,B4DNK1_HUMAN	UPI0000044950	.	.	.	14/17	.	Pfam_domain:PF10221,hmmpanther:PTHR12955,hmmpanther:PTHR12955:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCTCTGA	.	5	BLCA
TEAD4	0	.	GRCh37	12	3103927	3103927	+	5'UTR	SNP	G	G	A	rs780699478	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6G>A	.	.	ENST00000359864	3/13	52	40	11	65	65	0	TEAD4,5_prime_UTR_variant,,ENST00000540314,;TEAD4,5_prime_UTR_variant,,ENST00000536826,;TEAD4,5_prime_UTR_variant,,ENST00000543035,;TEAD4,5_prime_UTR_variant,,ENST00000359864,;TEAD4,5_prime_UTR_variant,,ENST00000358409,;TEAD4,intron_variant,,ENST00000397122,;TEAD4,5_prime_UTR_variant,,ENST00000443986,;	A	ENSG00000197905	ENST00000359864	Transcript	5_prime_UTR_variant	185	.	.	.	.	rs780699478	.	.	1	TEAD4	HGNC	11717	protein_coding	YES	CCDS31729.1	ENSP00000352926	.	Q53GI4_HUMAN,H0YGS2_HUMAN,H0YFK0_HUMAN,H0YFF9_HUMAN,D3DUQ6_HUMAN	UPI000013FEB3	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGCGGAGCC	byFrequency	5	BLCA
FGD4	0	.	GRCh37	12	32735372	32735372	+	Missense_Mutation	SNP	G	G	A	rs749693316	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571G>A	p.Glu191Lys	p.E191K	ENST00000427716	4/17	97	82	15	78	78	0	FGD4,missense_variant,p.Glu98Lys,ENST00000546442,;FGD4,missense_variant,p.Glu276Lys,ENST00000531134,;FGD4,missense_variant,p.Glu191Lys,ENST00000427716,;FGD4,missense_variant,p.Glu303Lys,ENST00000525053,;FGD4,missense_variant,p.Glu328Lys,ENST00000534526,;FGD4,missense_variant,p.Glu191Lys,ENST00000472289,;FGD4,5_prime_UTR_variant,,ENST00000266482,;FGD4,downstream_gene_variant,,ENST00000473513,;FGD4,downstream_gene_variant,,ENST00000550091,;FGD4,missense_variant,p.Glu21Lys,ENST00000494977,;FGD4,missense_variant,p.Glu191Lys,ENST00000395740,;FGD4,missense_variant,p.Glu191Lys,ENST00000493087,;FGD4,non_coding_transcript_exon_variant,,ENST00000494275,;FGD4,intron_variant,,ENST00000551984,;	A	ENSG00000139132	ENST00000427716	Transcript	missense_variant	995	571	191	E/K	Gag/Aag	rs749693316,COSM415883	.	.	1	FGD4	HGNC	19125	protein_coding	YES	CCDS8727.1	ENSP00000394487	FGD4_HUMAN	J3KSS3_HUMAN,F8W1R0_HUMAN	UPI000004CCA6	.	tolerated(0.24)	benign(0.017)	4/17	.	hmmpanther:PTHR12673:SF98,hmmpanther:PTHR12673	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTGGAGCAG	.	5	BLCA
LRRK2	0	.	GRCh37	12	40753217	40753217	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6999G>C	p.Gln2333His	p.Q2333H	ENST00000298910	47/51	85	67	17	97	97	0	LRRK2,missense_variant,p.Gln2333His,ENST00000298910,;LRRK2,3_prime_UTR_variant,,ENST00000430804,;LRRK2,non_coding_transcript_exon_variant,,ENST00000479187,;	C	ENSG00000188906	ENST00000298910	Transcript	missense_variant	7057	6999	2333	Q/H	caG/caC	COSM415875,COSM415874	.	.	1	LRRK2	HGNC	18618	protein_coding	YES	CCDS31774.1	ENSP00000298910	LRRK2_HUMAN	.	UPI00006C128E	.	tolerated(0.4)	possibly_damaging(0.868)	47/51	.	hmmpanther:PTHR23257,hmmpanther:PTHR23257:SF417,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCAGAAACT	.	5	BLCA
COL2A1	0	.	GRCh37	12	48369179	48369179	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3807C>T	p.%3D	p.I1269I	ENST00000380518	51/54	126	100	26	118	118	0	COL2A1,synonymous_variant,p.%3D,ENST00000380518,;COL2A1,synonymous_variant,p.%3D,ENST00000337299,;COL2A1,non_coding_transcript_exon_variant,,ENST00000493991,;COL2A1,non_coding_transcript_exon_variant,,ENST00000546974,;	A	ENSG00000139219	ENST00000380518	Transcript	synonymous_variant	3972	3807	1269	I	atC/atT	COSM415841,COSM415840	.	.	-1	COL2A1	HGNC	2200	protein_coding	YES	CCDS41778.1	ENSP00000369889	CO2A1_HUMAN	.	UPI0000D79713	.	.	.	51/54	.	PROSITE_profiles:PS51461,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF58,Pfam_domain:PF01410,SMART_domains:SM00038	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCGGATGCT	.	5	BLCA
ADCY6	0	.	GRCh37	12	49176905	49176905	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313G>A	p.Glu105Lys	p.E105K	ENST00000307885	1/21	124	99	24	117	117	0	ADCY6,missense_variant,p.Glu105Lys,ENST00000357869,;ADCY6,missense_variant,p.Glu105Lys,ENST00000307885,;ADCY6,missense_variant,p.Glu105Lys,ENST00000550422,;ADCY6,upstream_gene_variant,,ENST00000548820,;ADCY6,upstream_gene_variant,,ENST00000551435,;	T	ENSG00000174233	ENST00000307885	Transcript	missense_variant	1008	313	105	E/K	Gag/Aag	COSM415833	.	.	-1	ADCY6	HGNC	237	protein_coding	YES	CCDS8767.1	ENSP00000311405	ADCY6_HUMAN	Q9NR74_HUMAN,Q6LCE1_HUMAN	UPI000003EC29	.	tolerated(0.18)	benign(0.022)	1/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF263	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCAGCCG	.	5	BLCA
DDX23	0	.	GRCh37	12	49228219	49228219	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1444C>G	p.Gln482Glu	p.Q482E	ENST00000308025	12/17	157	120	37	162	162	0	DDX23,missense_variant,p.Gln482Glu,ENST00000308025,;DDX23,intron_variant,,ENST00000550834,;DDX23,downstream_gene_variant,,ENST00000552512,;DDX23,downstream_gene_variant,,ENST00000553182,;DDX23,synonymous_variant,p.%3D,ENST00000552802,;DDX23,non_coding_transcript_exon_variant,,ENST00000547290,;DDX23,downstream_gene_variant,,ENST00000551189,;DDX23,upstream_gene_variant,,ENST00000547842,;DDX23,downstream_gene_variant,,ENST00000552069,;DDX23,downstream_gene_variant,,ENST00000547135,;DDX23,downstream_gene_variant,,ENST00000547165,;DDX23,upstream_gene_variant,,ENST00000551331,;DDX23,upstream_gene_variant,,ENST00000553065,;DDX23,downstream_gene_variant,,ENST00000551098,;DDX23,upstream_gene_variant,,ENST00000549795,;	C	ENSG00000174243	ENST00000308025	Transcript	missense_variant	1524	1444	482	Q/E	Caa/Gaa	COSM415832	.	.	-1	DDX23	HGNC	17347	protein_coding	YES	CCDS8770.1	ENSP00000310723	DDX23_HUMAN	F8W1J5_HUMAN,F8VVA2_HUMAN,B3KY11_HUMAN	UPI0000073875	.	deleterious(0)	probably_damaging(0.973)	12/17	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF23,Pfam_domain:PF00270,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTGAGCCA	.	5	BLCA
DDX23	0	.	GRCh37	12	49231850	49231850	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.494C>G	p.Ser165Cys	p.S165C	ENST00000308025	6/17	222	181	41	221	221	0	DDX23,missense_variant,p.Ser165Cys,ENST00000552512,;DDX23,missense_variant,p.Ser165Cys,ENST00000308025,;DDX23,missense_variant,p.Ser9Cys,ENST00000550834,;DDX23,downstream_gene_variant,,ENST00000551468,;DDX23,non_coding_transcript_exon_variant,,ENST00000553182,;DDX23,downstream_gene_variant,,ENST00000552369,;DDX23,downstream_gene_variant,,ENST00000552555,;DDX23,3_prime_UTR_variant,,ENST00000547135,;DDX23,non_coding_transcript_exon_variant,,ENST00000551098,;DDX23,upstream_gene_variant,,ENST00000552802,;DDX23,upstream_gene_variant,,ENST00000551189,;DDX23,upstream_gene_variant,,ENST00000552069,;DDX23,upstream_gene_variant,,ENST00000547290,;DDX23,upstream_gene_variant,,ENST00000547165,;DDX23,upstream_gene_variant,,ENST00000553065,;DDX23,upstream_gene_variant,,ENST00000549795,;	C	ENSG00000174243	ENST00000308025	Transcript	missense_variant	574	494	165	S/C	tCt/tGt	COSM415830	.	.	-1	DDX23	HGNC	17347	protein_coding	YES	CCDS8770.1	ENSP00000310723	DDX23_HUMAN	F8W1J5_HUMAN,F8VVA2_HUMAN,B3KY11_HUMAN	UPI0000073875	.	deleterious(0)	benign(0.436)	6/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF23	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTAGAGAGG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49434415	49434415	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7138C>T	p.Gln2380Ter	p.Q2380*	ENST00000301067	31/54	65	44	20	66	66	0	KMT2D,stop_gained,p.Gln2380Ter,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	7138	7138	2380	Q/*	Cag/Tag	COSM415824,COSM415823	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	31/54	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTGAGCAT	.	5	BLCA
KCNA1	0	.	GRCh37	12	5020928	5020928	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384G>A	p.%3D	p.E128E	ENST00000382545	2/2	98	80	18	108	108	0	KCNA1,synonymous_variant,p.%3D,ENST00000382545,;KCNA1,intron_variant,,ENST00000541095,;KCNA1,intron_variant,,ENST00000543874,;	A	ENSG00000111262	ENST00000382545	Transcript	synonymous_variant	1491	384	128	E	gaG/gaA	COSM416217	.	.	1	KCNA1	HGNC	6218	protein_coding	YES	CCDS8535.1	ENSP00000371985	KCNA1_HUMAN	.	UPI000013C8E0	.	.	.	2/2	.	Prints_domain:PR01496,Superfamily_domains:SSF54695,SMART_domains:SM00225,Pfam_domain:PF02214,Gene3D:3.30.710.10,hmmpanther:PTHR11537:SF24,hmmpanther:PTHR11537	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGAGAAGTT	.	5	BLCA
SPRYD3	0	.	GRCh37	12	53460151	53460151	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1141G>C	p.Glu381Gln	p.E381Q	ENST00000301463	10/11	99	74	25	88	88	0	SPRYD3,missense_variant,p.Glu381Gln,ENST00000301463,;SPRYD3,missense_variant,p.Glu418Gln,ENST00000547837,;TENC1,downstream_gene_variant,,ENST00000379902,;TENC1,downstream_gene_variant,,ENST00000546602,;TENC1,downstream_gene_variant,,ENST00000549700,;TENC1,downstream_gene_variant,,ENST00000314276,;TENC1,downstream_gene_variant,,ENST00000451358,;TENC1,downstream_gene_variant,,ENST00000314250,;TENC1,downstream_gene_variant,,ENST00000552570,;SPRYD3,downstream_gene_variant,,ENST00000550564,;TENC1,downstream_gene_variant,,ENST00000550660,;SPRYD3,downstream_gene_variant,,ENST00000537540,;TENC1,downstream_gene_variant,,ENST00000552168,;TENC1,downstream_gene_variant,,ENST00000550048,;TENC1,downstream_gene_variant,,ENST00000546772,;SPRYD3,upstream_gene_variant,,ENST00000547257,;TENC1,downstream_gene_variant,,ENST00000549311,;	G	ENSG00000167778	ENST00000301463	Transcript	missense_variant	1228	1141	381	E/Q	Gag/Cag	COSM416180	.	.	-1	SPRYD3	HGNC	25920	protein_coding	YES	CCDS8845.1	ENSP00000301463	SPRY3_HUMAN	.	UPI0000038D00	.	tolerated(0.41)	possibly_damaging(0.69)	10/11	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,SMART_domains:SM00449	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCCTCTTCCT	.	3	BLCA
SPRYD3	0	.	GRCh37	12	53460160	53460160	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1132G>A	p.Glu378Lys	p.E378K	ENST00000301463	10/11	93	71	21	81	81	0	SPRYD3,missense_variant,p.Glu378Lys,ENST00000301463,;SPRYD3,missense_variant,p.Glu415Lys,ENST00000547837,;TENC1,downstream_gene_variant,,ENST00000379902,;TENC1,downstream_gene_variant,,ENST00000546602,;TENC1,downstream_gene_variant,,ENST00000549700,;TENC1,downstream_gene_variant,,ENST00000314276,;TENC1,downstream_gene_variant,,ENST00000451358,;TENC1,downstream_gene_variant,,ENST00000314250,;TENC1,downstream_gene_variant,,ENST00000552570,;SPRYD3,downstream_gene_variant,,ENST00000550564,;TENC1,downstream_gene_variant,,ENST00000550660,;SPRYD3,downstream_gene_variant,,ENST00000537540,;TENC1,downstream_gene_variant,,ENST00000552168,;TENC1,downstream_gene_variant,,ENST00000550048,;TENC1,downstream_gene_variant,,ENST00000546772,;SPRYD3,upstream_gene_variant,,ENST00000547257,;TENC1,downstream_gene_variant,,ENST00000549311,;	T	ENSG00000167778	ENST00000301463	Transcript	missense_variant	1219	1132	378	E/K	Gaa/Aaa	COSM416179	.	.	-1	SPRYD3	HGNC	25920	protein_coding	YES	CCDS8845.1	ENSP00000301463	SPRY3_HUMAN	.	UPI0000038D00	.	tolerated(0.42)	benign(0)	10/11	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,SMART_domains:SM00449	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCTTCCTCCT	.	3	BLCA
ATF7	0	.	GRCh37	12	53911120	53911120	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1253C>G	p.Ser418Ter	p.S418*	ENST00000420353	12/12	28	20	8	33	33	0	ATF7,stop_gained,p.Ser418Ter,ENST00000456903,;ATF7,stop_gained,p.Ser429Ter,ENST00000328463,;ATF7,stop_gained,p.Ser429Ter,ENST00000548446,;ATF7,stop_gained,p.Ser418Ter,ENST00000420353,;ATF7,stop_gained,p.Ser397Ter,ENST00000415113,;RP11-793H13.10,intron_variant,,ENST00000591834,;RP11-793H13.3,non_coding_transcript_exon_variant,,ENST00000548347,;ATF7,non_coding_transcript_exon_variant,,ENST00000546661,;ATF7,non_coding_transcript_exon_variant,,ENST00000551087,;	C	ENSG00000170653	ENST00000420353	Transcript	stop_gained	1403	1253	418	S/*	tCa/tGa	COSM416168,COSM416169	.	.	-1	ATF7	HGNC	792	protein_coding	YES	CCDS44906.1	ENSP00000399465	ATF7_HUMAN	K7EKZ7_HUMAN,F8VWG7_HUMAN	UPI0000161877	.	.	.	12/12	.	hmmpanther:PTHR19304,PIRSF_domain:PIRSF003153	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTGAGCTT	.	2	BLCA
GPR84	0	.	GRCh37	12	54756622	54756622	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1014C>T	p.%3D	p.L338L	ENST00000551809	1/1	239	176	63	241	241	0	GPR84,synonymous_variant,p.%3D,ENST00000551809,;GPR84,synonymous_variant,p.%3D,ENST00000267015,;RP11-753H16.3,intron_variant,,ENST00000550474,;RP11-753H16.5,intron_variant,,ENST00000552785,;	A	ENSG00000139572	ENST00000551809	Transcript	synonymous_variant	1650	1014	338	L	ctC/ctT	COSM416165	.	.	-1	GPR84	HGNC	4535	protein_coding	YES	CCDS8878.1	ENSP00000450310	GPR84_HUMAN	.	UPI00000421DF	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24230:SF59,hmmpanther:PTHR24230,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTGAGCAG	.	5	BLCA
PA2G4	0	.	GRCh37	12	56505295	56505295	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1101G>C	p.Gln367His	p.Q367H	ENST00000303305	12/13	190	155	35	167	167	0	PA2G4,missense_variant,p.Gln367His,ENST00000303305,;PA2G4,intron_variant,,ENST00000552766,;PA2G4,downstream_gene_variant,,ENST00000553057,;RP11-603J24.9,downstream_gene_variant,,ENST00000548861,;PA2G4,downstream_gene_variant,,ENST00000551061,;RP11-603J24.17,intron_variant,,ENST00000548595,;PA2G4,downstream_gene_variant,,ENST00000552266,;PA2G4,downstream_gene_variant,,ENST00000550166,;PA2G4,downstream_gene_variant,,ENST00000552528,;	C	ENSG00000170515	ENST00000303305	Transcript	missense_variant	1520	1101	367	Q/H	caG/caC	COSM416151	.	.	1	PA2G4	HGNC	8550	protein_coding	YES	CCDS8902.1	ENSP00000302886	PA2G4_HUMAN	Q6PIN5_HUMAN,F8VZ69_HUMAN,A8K6Y1_HUMAN	UPI0000049B6B	.	deleterious(0.03)	benign(0.276)	12/13	.	Low_complexity_(Seg):seg,TIGRFAM_domain:TIGR00495,hmmpanther:PTHR10804:SF83,hmmpanther:PTHR10804	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCAGAAAAA	.	5	BLCA
RPL41	0	.	GRCh37	12	56510496	56510496	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-76C>T	.	.	ENST00000546591	1/3	173	132	41	173	173	0	RPL41,5_prime_UTR_variant,,ENST00000546591,;RPL41,intron_variant,,ENST00000501597,;ZC3H10,upstream_gene_variant,,ENST00000257940,;ZC3H10,upstream_gene_variant,,ENST00000546903,;PA2G4,downstream_gene_variant,,ENST00000552766,;ZC3H10,upstream_gene_variant,,ENST00000551880,;PA2G4,downstream_gene_variant,,ENST00000303305,;ESYT1,upstream_gene_variant,,ENST00000551790,;ZC3H10,upstream_gene_variant,,ENST00000552345,;RP11-603J24.5,downstream_gene_variant,,ENST00000549438,;RP11-603J24.5,downstream_gene_variant,,ENST00000550947,;RP11-603J24.6,downstream_gene_variant,,ENST00000550840,;RP11-603J24.17,upstream_gene_variant,,ENST00000548595,;RPL41,intron_variant,,ENST00000358888,;RPL41,intron_variant,,ENST00000546485,;RPL41,upstream_gene_variant,,ENST00000546654,;ZC3H10,upstream_gene_variant,,ENST00000549973,;RPL41,upstream_gene_variant,,ENST00000552314,;	T	ENSG00000229117	ENST00000546591	Transcript	5_prime_UTR_variant	127	.	.	.	.	.	.	.	1	RPL41	HGNC	10354	protein_coding	YES	CCDS44919.1	ENSP00000449026	RL41_HUMAN	.	UPI0000000DDF	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACATCTGACC	.	3	BLCA
RPL41	0	.	GRCh37	12	56510503	56510503	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-69C>T	.	.	ENST00000546591	1/3	189	147	42	207	207	0	RPL41,5_prime_UTR_variant,,ENST00000546591,;RPL41,intron_variant,,ENST00000501597,;ZC3H10,upstream_gene_variant,,ENST00000257940,;ZC3H10,upstream_gene_variant,,ENST00000546903,;PA2G4,downstream_gene_variant,,ENST00000552766,;ZC3H10,upstream_gene_variant,,ENST00000551880,;PA2G4,downstream_gene_variant,,ENST00000303305,;ESYT1,upstream_gene_variant,,ENST00000551790,;ZC3H10,upstream_gene_variant,,ENST00000552345,;RP11-603J24.5,downstream_gene_variant,,ENST00000549438,;RP11-603J24.5,downstream_gene_variant,,ENST00000550947,;RP11-603J24.6,downstream_gene_variant,,ENST00000550840,;RP11-603J24.17,upstream_gene_variant,,ENST00000548595,;RPL41,intron_variant,,ENST00000358888,;RPL41,intron_variant,,ENST00000546485,;RPL41,upstream_gene_variant,,ENST00000546654,;ZC3H10,upstream_gene_variant,,ENST00000549973,;RPL41,upstream_gene_variant,,ENST00000552314,;	T	ENSG00000229117	ENST00000546591	Transcript	5_prime_UTR_variant	134	.	.	.	.	.	.	.	1	RPL41	HGNC	10354	protein_coding	YES	CCDS44919.1	ENSP00000449026	RL41_HUMAN	.	UPI0000000DDF	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACCTCGGCAC	.	3	BLCA
MIP	0	.	GRCh37	12	56848060	56848060	+	Missense_Mutation	SNP	C	C	G	rs774928445	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338G>C	p.Arg113Pro	p.R113P	ENST00000257979	1/4	76	61	15	90	90	0	MIP,missense_variant,p.Arg113Pro,ENST00000257979,;TIMELESS,upstream_gene_variant,,ENST00000553532,;TIMELESS,upstream_gene_variant,,ENST00000554616,;TIMELESS,upstream_gene_variant,,ENST00000229201,;MIP,intron_variant,,ENST00000555551,;	G	ENSG00000135517	ENST00000257979	Transcript	missense_variant	367	338	113	R/P	cGa/cCa	rs774928445,COSM232790,COSM416145	.	.	-1	MIP	HGNC	7103	protein_coding	YES	CCDS8919.1	ENSP00000257979	MIP_HUMAN	.	UPI000012F154	.	deleterious(0)	probably_damaging(0.992)	1/4	.	Prints_domain:PR02014,Superfamily_domains:SSF81338,Pfam_domain:PF00230,TIGRFAM_domain:TIGR00861,Gene3D:1.20.1080.10,hmmpanther:PTHR19139:SF39,hmmpanther:PTHR19139	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCGGACA	.	5	BLCA
GLS2	0	.	GRCh37	12	56868840	56868840	+	Silent	SNP	G	G	C	rs770208605	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984C>G	p.%3D	p.L328L	ENST00000311966	10/18	287	227	60	277	277	0	GLS2,stop_gained,p.Ser184Ter,ENST00000461077,;GLS2,synonymous_variant,p.%3D,ENST00000311966,;SPRYD4,downstream_gene_variant,,ENST00000338146,;GLS2,downstream_gene_variant,,ENST00000539272,;GLS2,non_coding_transcript_exon_variant,,ENST00000476991,;GLS2,3_prime_UTR_variant,,ENST00000424141,;GLS2,3_prime_UTR_variant,,ENST00000494474,;GLS2,3_prime_UTR_variant,,ENST00000486896,;GLS2,3_prime_UTR_variant,,ENST00000486433,;GLS2,non_coding_transcript_exon_variant,,ENST00000496006,;GLS2,intron_variant,,ENST00000479952,;GLS2,downstream_gene_variant,,ENST00000494345,;GLS2,downstream_gene_variant,,ENST00000483347,;GLS2,upstream_gene_variant,,ENST00000390288,;GLS2,downstream_gene_variant,,ENST00000491880,;GLS2,downstream_gene_variant,,ENST00000471282,;	C	ENSG00000135423	ENST00000311966	Transcript	synonymous_variant	1263	984	328	L	ctC/ctG	rs770208605,COSM416144	.	.	-1	GLS2	HGNC	29570	protein_coding	YES	CCDS8921.1	ENSP00000310447	GLSL_HUMAN	Q0VD99_HUMAN	UPI0000061E10	.	.	.	10/18	.	Superfamily_domains:SSF56601,Pfam_domain:PF04960,TIGRFAM_domain:TIGR03814,Gene3D:3.40.710.10,hmmpanther:PTHR12544,hmmpanther:PTHR12544:SF29,HAMAP:MF_00313	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTGAGATA	.	5	BLCA
MYO1A	0	.	GRCh37	12	57441538	57441538	+	Intron	SNP	G	G	A	rs777920450	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231-33C>T	.	.	ENST00000442789	.	42	35	7	48	48	0	MYO1A,5_prime_UTR_variant,,ENST00000544473,;MYO1A,intron_variant,,ENST00000492945,;MYO1A,intron_variant,,ENST00000300119,;MYO1A,intron_variant,,ENST00000433964,;MYO1A,intron_variant,,ENST00000442789,;MYO1A,downstream_gene_variant,,ENST00000471791,;MYO1A,5_prime_UTR_variant,,ENST00000554234,;	A	ENSG00000166866	ENST00000442789	Transcript	intron_variant	.	.	.	.	.	rs777920450	.	.	-1	MYO1A	HGNC	7595	protein_coding	YES	CCDS8929.1	ENSP00000393392	MYO1A_HUMAN	Q13871_HUMAN,G3V587_HUMAN,F5GWY8_HUMAN,C9JU63_HUMAN	UPI000012FAC2	.	.	.	.	4/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTGTGAAACC	byFrequency	2	BLCA
NXPH4	0	.	GRCh37	12	57619642	57619642	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*112C>T	.	.	ENST00000349394	2/2	19	14	5	24	24	0	NXPH4,3_prime_UTR_variant,,ENST00000349394,;SHMT2,upstream_gene_variant,,ENST00000414700,;SHMT2,upstream_gene_variant,,ENST00000554975,;SHMT2,upstream_gene_variant,,ENST00000557427,;SHMT2,upstream_gene_variant,,ENST00000557487,;SHMT2,upstream_gene_variant,,ENST00000393827,;SHMT2,upstream_gene_variant,,ENST00000553529,;SHMT2,upstream_gene_variant,,ENST00000328923,;SHMT2,upstream_gene_variant,,ENST00000449049,;SHMT2,upstream_gene_variant,,ENST00000554310,;SHMT2,upstream_gene_variant,,ENST00000555773,;SHMT2,upstream_gene_variant,,ENST00000556737,;SHMT2,upstream_gene_variant,,ENST00000556689,;SHMT2,upstream_gene_variant,,ENST00000557703,;SHMT2,upstream_gene_variant,,ENST00000553474,;SHMT2,upstream_gene_variant,,ENST00000555634,;Y_RNA,upstream_gene_variant,,ENST00000365197,;SHMT2,upstream_gene_variant,,ENST00000553949,;SHMT2,upstream_gene_variant,,ENST00000554600,;SHMT2,upstream_gene_variant,,ENST00000554656,;NXPH4,downstream_gene_variant,,ENST00000555154,;SHMT2,upstream_gene_variant,,ENST00000557740,;NXPH4,3_prime_UTR_variant,,ENST00000556415,;SHMT2,upstream_gene_variant,,ENST00000557302,;SHMT2,upstream_gene_variant,,ENST00000556825,;SHMT2,upstream_gene_variant,,ENST00000553950,;SHMT2,upstream_gene_variant,,ENST00000557269,;SHMT2,upstream_gene_variant,,ENST00000553837,;SHMT2,upstream_gene_variant,,ENST00000557433,;SHMT2,upstream_gene_variant,,ENST00000557348,;SHMT2,upstream_gene_variant,,ENST00000555563,;SHMT2,upstream_gene_variant,,ENST00000555774,;SHMT2,upstream_gene_variant,,ENST00000555116,;SHMT2,upstream_gene_variant,,ENST00000554604,;SHMT2,upstream_gene_variant,,ENST00000554467,;SHMT2,upstream_gene_variant,,ENST00000553324,;	T	ENSG00000182379	ENST00000349394	Transcript	3_prime_UTR_variant	1214	.	.	.	.	.	.	.	1	NXPH4	HGNC	8078	protein_coding	YES	CCDS8933.1	ENSP00000333593	NXPH4_HUMAN	.	UPI000004C619	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCACTCTGGGG	.	3	BLCA
DTX3	0	.	GRCh37	12	58001129	58001129	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483G>C	p.Glu161Asp	p.E161D	ENST00000548198	3/5	23	17	6	24	24	0	DTX3,missense_variant,p.Glu161Asp,ENST00000337737,;DTX3,missense_variant,p.Glu161Asp,ENST00000548804,;DTX3,missense_variant,p.Glu161Asp,ENST00000548198,;DTX3,missense_variant,p.Glu164Asp,ENST00000549583,;DTX3,missense_variant,p.Glu154Asp,ENST00000548478,;DTX3,missense_variant,p.Glu164Asp,ENST00000551632,;ARHGEF25,upstream_gene_variant,,ENST00000286494,;DTX3,downstream_gene_variant,,ENST00000550596,;PIP4K2C,downstream_gene_variant,,ENST00000354947,;DTX3,downstream_gene_variant,,ENST00000551835,;ARHGEF25,upstream_gene_variant,,ENST00000333972,;DTX3,upstream_gene_variant,,ENST00000550300,;PIP4K2C,downstream_gene_variant,,ENST00000540759,;AC025165.8,downstream_gene_variant,,ENST00000356672,;AC025165.8,downstream_gene_variant,,ENST00000444467,;	C	ENSG00000178498	ENST00000548198	Transcript	missense_variant	1987	483	161	E/D	gaG/gaC	COSM416128	.	.	1	DTX3	HGNC	24457	protein_coding	YES	CCDS41800.1	ENSP00000447873	DTX3_HUMAN	F8VV96_HUMAN	UPI00000437C5	.	tolerated(0.62)	benign(0.02)	3/5	.	hmmpanther:PTHR12622,Gene3D:3.30.40.10,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGAGAGCAC	.	2	BLCA
DPY19L2	0	.	GRCh37	12	63963010	63963010	+	Missense_Mutation	SNP	C	C	G	rs760400365	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2120G>C	p.Arg707Thr	p.R707T	ENST00000324472	21/22	184	143	41	189	189	0	DPY19L2,missense_variant,p.Arg154Thr,ENST00000413230,;DPY19L2,missense_variant,p.Arg707Thr,ENST00000324472,;DPY19L2,3_prime_UTR_variant,,ENST00000439061,;DPY19L2,non_coding_transcript_exon_variant,,ENST00000541911,;	G	ENSG00000177990	ENST00000324472	Transcript	missense_variant	2304	2120	707	R/T	aGa/aCa	rs760400365,COSM416122	.	.	-1	DPY19L2	HGNC	19414	protein_coding	YES	CCDS31851.1	ENSP00000315988	D19L2_HUMAN	F5H4G6_HUMAN,F5H1L7_HUMAN,B4E191_HUMAN	UPI000006EC0C	.	deleterious(0)	possibly_damaging(0.694)	21/22	.	Pfam_domain:PF10034,hmmpanther:PTHR31488:SF6,hmmpanther:PTHR31488	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTCTCACA	.	5	BLCA
CHD4	0	.	GRCh37	12	6690250	6690250	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4869G>C	p.%3D	p.V1623V	ENST00000357008	33/40	516	404	111	522	522	0	CHD4,synonymous_variant,p.%3D,ENST00000544040,;CHD4,synonymous_variant,p.%3D,ENST00000544484,;CHD4,synonymous_variant,p.%3D,ENST00000309577,;CHD4,synonymous_variant,p.%3D,ENST00000357008,;SCARNA11,downstream_gene_variant,,ENST00000516089,;RP5-940J5.6,intron_variant,,ENST00000501075,;CHD4,non_coding_transcript_exon_variant,,ENST00000536301,;CHD4,non_coding_transcript_exon_variant,,ENST00000542717,;CHD4,downstream_gene_variant,,ENST00000540960,;	G	ENSG00000111642	ENST00000357008	Transcript	synonymous_variant	5033	4869	1623	V	gtG/gtC	COSM416107,COSM416106	.	.	-1	CHD4	HGNC	1919	protein_coding	YES	CCDS8552.1	ENSP00000349508	CHD4_HUMAN	F5H6N4_HUMAN	UPI000013C8EF	.	.	.	33/40	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF554	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCACCTC	.	5	BLCA
PHB2	0	.	GRCh37	12	7079717	7079717	+	5'UTR	SNP	G	G	C	rs370707865	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11C>G	.	.	ENST00000535923	1/10	28	22	5	43	43	0	PHB2,5_prime_UTR_variant,,ENST00000545167,;PHB2,5_prime_UTR_variant,,ENST00000535923,;PHB2,5_prime_UTR_variant,,ENST00000546111,;PHB2,5_prime_UTR_variant,,ENST00000399433,;PHB2,5_prime_UTR_variant,,ENST00000536316,;PHB2,5_prime_UTR_variant,,ENST00000542912,;PHB2,5_prime_UTR_variant,,ENST00000440277,;EMG1,upstream_gene_variant,,ENST00000261406,;PHB2,upstream_gene_variant,,ENST00000545555,;SCARNA12,upstream_gene_variant,,ENST00000459155,;PHB2,non_coding_transcript_exon_variant,,ENST00000544134,;EMG1,intron_variant,,ENST00000607161,;EMG1,upstream_gene_variant,,ENST00000541016,;EMG1,upstream_gene_variant,,ENST00000564245,;EMG1,upstream_gene_variant,,ENST00000539196,;EMG1,upstream_gene_variant,,ENST00000546220,;EMG1,upstream_gene_variant,,ENST00000539535,;PHB2,5_prime_UTR_variant,,ENST00000544888,;PHB2,non_coding_transcript_exon_variant,,ENST00000546217,;PHB2,non_coding_transcript_exon_variant,,ENST00000542294,;PHB2,non_coding_transcript_exon_variant,,ENST00000543465,;EMG1,upstream_gene_variant,,ENST00000451846,;EMG1,upstream_gene_variant,,ENST00000539440,;PHB2,upstream_gene_variant,,ENST00000537646,;	C	ENSG00000215021	ENST00000535923	Transcript	5_prime_UTR_variant	272	.	.	.	.	rs370707865	.	.	-1	PHB2	HGNC	30306	protein_coding	YES	CCDS53741.1	ENSP00000441875	PHB2_HUMAN	Q9BXV3_HUMAN	UPI00000292BE	.	.	.	1/10	.	.	.	.	.	.	.	.	.	A:0.0003	A:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGAGGCC	byCluster	5	BLCA
KRR1	0	.	GRCh37	12	75900673	75900673	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.282G>A	p.%3D	p.L94L	ENST00000229214	3/10	83	60	23	75	75	0	KRR1,synonymous_variant,p.%3D,ENST00000229214,;KRR1,synonymous_variant,p.%3D,ENST00000438169,;GLIPR1,downstream_gene_variant,,ENST00000266659,;KRR1,non_coding_transcript_exon_variant,,ENST00000550898,;KRR1,non_coding_transcript_exon_variant,,ENST00000550023,;KRR1,upstream_gene_variant,,ENST00000551070,;	T	ENSG00000111615	ENST00000229214	Transcript	synonymous_variant	306	282	94	L	ctG/ctA	COSM416066	.	.	-1	KRR1	HGNC	5176	protein_coding	YES	CCDS9012.1	ENSP00000229214	KRR1_HUMAN	.	UPI00001403EE	.	.	.	3/10	.	hmmpanther:PTHR12581,PIRSF_domain:PIRSF006515	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGATCAGGTC	.	5	BLCA
NAV3	0	.	GRCh37	12	78225383	78225383	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.142G>T	p.Glu48Ter	p.E48*	ENST00000536525	1/39	155	122	33	140	139	1	NAV3,stop_gained,p.Glu48Ter,ENST00000536525,;NAV3,stop_gained,p.Glu48Ter,ENST00000397909,;NAV3,stop_gained,p.Glu48Ter,ENST00000266692,;NAV3,stop_gained,p.Glu48Ter,ENST00000228327,;NAV3,stop_gained,p.Glu48Ter,ENST00000549464,;	T	ENSG00000067798	ENST00000536525	Transcript	stop_gained	315	142	48	E/*	Gag/Tag	COSM416061	.	.	1	NAV3	HGNC	15998	protein_coding	YES	CCDS41815.1	ENSP00000446132	NAV3_HUMAN	F8VZV4_HUMAN	UPI00001FB1E8	.	.	.	1/39	.	Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACAGAGAGC	.	5	BLCA
C12orf50	0	.	GRCh37	12	88391905	88391905	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196C>G	p.Leu66Val	p.L66V	ENST00000298699	4/13	79	56	23	84	84	0	C12orf50,missense_variant,p.Leu66Val,ENST00000551163,;C12orf50,missense_variant,p.Leu66Val,ENST00000550553,;C12orf50,missense_variant,p.Leu66Val,ENST00000298699,;C12orf50,non_coding_transcript_exon_variant,,ENST00000551944,;	C	ENSG00000165805	ENST00000298699	Transcript	missense_variant	377	196	66	L/V	Ctg/Gtg	COSM1513409,COSM416480	.	.	-1	C12orf50	HGNC	26665	protein_coding	YES	CCDS9031.1	ENSP00000298699	CL050_HUMAN	F8VXH4_HUMAN	UPI0000071382	.	tolerated(0.05)	possibly_damaging(0.838)	4/13	.	hmmpanther:PTHR15725,hmmpanther:PTHR15725:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCAGAGGTT	.	5	BLCA
WNK1	0	.	GRCh37	12	936320	936320	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1045G>A	p.Asp349Asn	p.D349N	ENST00000315939	3/28	314	242	72	238	238	0	WNK1,missense_variant,p.Asp349Asn,ENST00000315939,;WNK1,missense_variant,p.Asp349Asn,ENST00000535572,;WNK1,missense_variant,p.Asp349Asn,ENST00000447667,;WNK1,missense_variant,p.Asp349Asn,ENST00000530271,;WNK1,missense_variant,p.Asp349Asn,ENST00000537687,;WNK1,upstream_gene_variant,,ENST00000540360,;	A	ENSG00000060237	ENST00000315939	Transcript	missense_variant	1688	1045	349	D/N	Gat/Aat	COSM416463,COSM416462	.	.	1	WNK1	HGNC	14540	protein_coding	YES	CCDS8506.1	ENSP00000313059	WNK1_HUMAN	Q96CZ6_HUMAN	UPI000013CD65	.	deleterious(0)	possibly_damaging(0.524)	3/28	.	PROSITE_profiles:PS50011,hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF46,PROSITE_patterns:PS00108,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCGCGATCTT	.	5	BLCA
TPP2	0	.	GRCh37	13	103298650	103298650	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2400G>A	p.%3D	p.V800V	ENST00000376065	20/29	56	45	11	61	61	0	TPP2,synonymous_variant,p.%3D,ENST00000376052,;TPP2,synonymous_variant,p.%3D,ENST00000376065,;TPP2,upstream_gene_variant,,ENST00000490420,;	A	ENSG00000134900	ENST00000376065	Transcript	synonymous_variant	2436	2400	800	V	gtG/gtA	COSM416446	.	.	1	TPP2	HGNC	12016	protein_coding	YES	CCDS9502.1	ENSP00000365233	TPP2_HUMAN	.	UPI0000001C91	.	.	.	20/29	.	Pfam_domain:PF12580	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTGAGTGC	.	5	BLCA
SLC10A2	0	.	GRCh37	13	103701788	103701788	+	Missense_Mutation	SNP	G	G	A	rs145541774	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.770C>T	p.Thr257Met	p.T257M	ENST00000245312	5/6	74	56	18	65	65	0	SLC10A2,missense_variant,p.Thr257Met,ENST00000245312,;	A	ENSG00000125255	ENST00000245312	Transcript	missense_variant	1367	770	257	T/M	aCg/aTg	rs145541774,COSM294815	.	.	-1	SLC10A2	HGNC	10906	protein_coding	YES	CCDS9506.1	ENSP00000245312	NTCP2_HUMAN	.	UPI000013CB9B	.	deleterious(0)	probably_damaging(0.998)	5/6	.	TIGRFAM_domain:TIGR00841,hmmpanther:PTHR10361,hmmpanther:PTHR10361:SF19	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.0005	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACCGTTCGG	byCluster|by1000G	5	BLCA
FAM155A	0	.	GRCh37	13	108518440	108518440	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.505G>A	p.Glu169Lys	p.E169K	ENST00000375915	1/3	86	69	16	80	80	0	FAM155A,missense_variant,p.Glu169Lys,ENST00000375915,;	T	ENSG00000204442	ENST00000375915	Transcript	missense_variant	644	505	169	E/K	Gag/Aag	COSM416442	.	.	-1	FAM155A	HGNC	33877	protein_coding	YES	CCDS32006.1	ENSP00000365080	F155A_HUMAN	.	UPI000045882C	.	deleterious_low_confidence(0)	probably_damaging(0.991)	1/3	.	hmmpanther:PTHR15819,hmmpanther:PTHR15819:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCTCCAGGC	.	4	BLCA
RAB20	0	.	GRCh37	13	111213942	111213942	+	5'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-76C>G	.	.	ENST00000267328	1/2	38	30	8	56	56	0	RAB20,5_prime_UTR_variant,,ENST00000267328,;	C	ENSG00000139832	ENST00000267328	Transcript	5_prime_UTR_variant	139	.	.	.	.	.	.	.	-1	RAB20	HGNC	18260	protein_coding	YES	CCDS9512.1	ENSP00000267328	RAB20_HUMAN	.	UPI0000001299	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGGAGGAG	.	5	BLCA
ZMYM2	0	.	GRCh37	13	20567555	20567555	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.343G>A	p.Glu115Lys	p.E115K	ENST00000382869	3/25	46	32	13	54	54	0	ZMYM2,missense_variant,p.Glu115Lys,ENST00000382881,;ZMYM2,missense_variant,p.Glu115Lys,ENST00000382869,;ZMYM2,missense_variant,p.Glu115Lys,ENST00000382871,;ZMYM2,missense_variant,p.Glu115Lys,ENST00000382874,;	A	ENSG00000121741	ENST00000382869	Transcript	missense_variant	594	343	115	E/K	Gag/Aag	COSM416421,COSM416422	.	.	1	ZMYM2	HGNC	12989	protein_coding	YES	CCDS45016.1	ENSP00000372322	ZMYM2_HUMAN	.	UPI000013C318	.	deleterious_low_confidence(0)	probably_damaging(0.993)	3/25	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGTGAGACA	.	5	BLCA
ZMYM2	0	.	GRCh37	13	20567608	20567608	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396G>C	p.Glu132Asp	p.E132D	ENST00000382869	3/25	84	67	17	83	83	0	ZMYM2,missense_variant,p.Glu132Asp,ENST00000382881,;ZMYM2,missense_variant,p.Glu132Asp,ENST00000382869,;ZMYM2,missense_variant,p.Glu132Asp,ENST00000382871,;ZMYM2,missense_variant,p.Glu132Asp,ENST00000382874,;	C	ENSG00000121741	ENST00000382869	Transcript	missense_variant	647	396	132	E/D	gaG/gaC	COSM416419,COSM416420	.	.	1	ZMYM2	HGNC	12989	protein_coding	YES	CCDS45016.1	ENSP00000372322	ZMYM2_HUMAN	.	UPI000013C318	.	tolerated_low_confidence(0.31)	benign(0.003)	3/25	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGAGAAAAA	.	5	BLCA
MRP63	0	.	GRCh37	13	21751269	21751269	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>C	p.Glu72Gln	p.E72Q	ENST00000309594	2/2	55	43	12	43	43	0	MRP63,missense_variant,p.Glu72Gln,ENST00000309594,;SKA3,upstream_gene_variant,,ENST00000314759,;SKA3,upstream_gene_variant,,ENST00000400018,;SKA3,upstream_gene_variant,,ENST00000475251,;SKA3,upstream_gene_variant,,ENST00000298260,;SKA3,upstream_gene_variant,,ENST00000536239,;SKA3,upstream_gene_variant,,ENST00000465471,;SKA3,upstream_gene_variant,,ENST00000462482,;	C	ENSG00000173141	ENST00000309594	Transcript	missense_variant	292	214	72	E/Q	Gag/Cag	COSM416416	.	.	1	MRP63	HGNC	14514	protein_coding	YES	CCDS9296.1	ENSP00000310726	RT63_HUMAN	.	UPI000004C5AC	.	tolerated(0.39)	benign(0.03)	2/2	.	hmmpanther:PTHR14520,Pfam_domain:PF14978,PIRSF_domain:PIRSF011124	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTCGAGGCC	.	5	BLCA
NBEA	0	.	GRCh37	13	36229746	36229746	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8159G>A	p.Trp2720Ter	p.W2720*	ENST00000400445	54/58	312	243	69	310	310	0	NBEA,stop_gained,p.Trp2720Ter,ENST00000400445,;NBEA,stop_gained,p.Trp2720Ter,ENST00000540320,;NBEA,stop_gained,p.Trp298Ter,ENST00000379922,;NBEA,stop_gained,p.Trp2720Ter,ENST00000310336,;NBEA,stop_gained,p.Trp513Ter,ENST00000537702,;NBEA,stop_gained,p.Trp2717Ter,ENST00000379939,;	A	ENSG00000172915	ENST00000400445	Transcript	stop_gained	8693	8159	2720	W/*	tGg/tAg	COSM416383	.	.	1	NBEA	HGNC	7648	protein_coding	YES	CCDS45026.1	ENSP00000383295	NBEA_HUMAN	.	UPI00004FF92F	.	.	.	54/58	.	hmmpanther:PTHR13743:SF62,hmmpanther:PTHR13743,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGGGATG	.	5	BLCA
ELF1	0	.	GRCh37	13	41515451	41515451	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.862C>T	p.Gln288Ter	p.Q288*	ENST00000239882	8/9	256	194	62	279	279	0	ELF1,stop_gained,p.Gln288Ter,ENST00000239882,;ELF1,stop_gained,p.Gln264Ter,ENST00000442101,;ELF1,non_coding_transcript_exon_variant,,ENST00000498824,;	A	ENSG00000120690	ENST00000239882	Transcript	stop_gained	1177	862	288	Q/*	Cag/Tag	COSM416368	.	.	-1	ELF1	HGNC	3316	protein_coding	YES	CCDS9374.1	ENSP00000239882	ELF1_HUMAN	Q6MZZ4_HUMAN,Q5T9E7_HUMAN,B3KTE9_HUMAN	UPI000007071F	.	.	.	8/9	.	PROSITE_profiles:PS50061,hmmpanther:PTHR11849:SF156,hmmpanther:PTHR11849,Gene3D:1.10.10.10,Pfam_domain:PF00178,SMART_domains:SM00413,Superfamily_domains:SSF46785,Prints_domain:PR00454	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTGATACA	.	5	BLCA
KBTBD6	0	.	GRCh37	13	41705016	41705016	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1632G>C	p.Trp544Cys	p.W544C	ENST00000379485	1/1	231	177	54	233	233	0	KBTBD6,missense_variant,p.Trp544Cys,ENST00000379485,;KBTBD6,missense_variant,p.Trp478Cys,ENST00000499385,;	G	ENSG00000165572	ENST00000379485	Transcript	missense_variant	1867	1632	544	W/C	tgG/tgC	COSM416367	.	.	-1	KBTBD6	HGNC	25340	protein_coding	YES	CCDS9376.1	ENSP00000368799	KBTB6_HUMAN	.	UPI00001969BB	.	deleterious(0)	probably_damaging(0.999)	1/1	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF132,Gene3D:1zgkA00,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCCATTC	.	5	BLCA
KBTBD6	0	.	GRCh37	13	41705099	41705099	+	Missense_Mutation	SNP	C	C	T	rs756607623	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1549G>A	p.Glu517Lys	p.E517K	ENST00000379485	1/1	129	109	20	113	113	0	KBTBD6,missense_variant,p.Glu517Lys,ENST00000379485,;KBTBD6,missense_variant,p.Glu451Lys,ENST00000499385,;	T	ENSG00000165572	ENST00000379485	Transcript	missense_variant	1784	1549	517	E/K	Gaa/Aaa	rs756607623,COSM416366	.	.	-1	KBTBD6	HGNC	25340	protein_coding	YES	CCDS9376.1	ENSP00000368799	KBTB6_HUMAN	.	UPI00001969BB	.	tolerated(0.74)	benign(0.025)	1/1	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF132,Gene3D:1zgkA00,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTTCCTGAA	byFrequency	4	BLCA
KBTBD6	0	.	GRCh37	13	41706332	41706332	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316G>C	p.Glu106Gln	p.E106Q	ENST00000379485	1/1	76	60	16	69	69	0	KBTBD6,missense_variant,p.Glu106Gln,ENST00000379485,;KBTBD6,intron_variant,,ENST00000499385,;	G	ENSG00000165572	ENST00000379485	Transcript	missense_variant	551	316	106	E/Q	Gag/Cag	COSM416364	.	.	-1	KBTBD6	HGNC	25340	protein_coding	YES	CCDS9376.1	ENSP00000368799	KBTB6_HUMAN	.	UPI00001969BB	.	deleterious(0)	probably_damaging(1)	1/1	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF132,Gene3D:3.30.710.10,Pfam_domain:PF00651,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCGTACA	.	5	BLCA
NAA16	0	.	GRCh37	13	41943355	41943355	+	Missense_Mutation	SNP	G	G	C	rs777680792	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1883G>C	p.Arg628Thr	p.R628T	ENST00000379406	15/20	85	72	12	59	59	0	NAA16,missense_variant,p.Arg628Thr,ENST00000379406,;NAA16,non_coding_transcript_exon_variant,,ENST00000497143,;NAA16,non_coding_transcript_exon_variant,,ENST00000463114,;NAA16,upstream_gene_variant,,ENST00000477452,;NAA16,upstream_gene_variant,,ENST00000495148,;NAA16,downstream_gene_variant,,ENST00000497727,;NAA16,downstream_gene_variant,,ENST00000464857,;	C	ENSG00000172766	ENST00000379406	Transcript	missense_variant	2207	1883	628	R/T	aGa/aCa	rs777680792,COSM416362	.	.	1	NAA16	HGNC	26164	protein_coding	YES	CCDS9379.1	ENSP00000368716	NAA16_HUMAN	A4FU51_HUMAN	UPI00001B559E	.	tolerated(0.24)	benign(0.063)	15/20	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,PIRSF_domain:PIRSF000422,Pfam_domain:PF12569,hmmpanther:PTHR22767:SF5,hmmpanther:PTHR22767	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAAGAGATG	.	5	BLCA
TNFSF11	0	.	GRCh37	13	43180957	43180957	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.857G>C	p.Gly286Ala	p.G286A	ENST00000239849	5/5	177	140	37	197	197	0	TNFSF11,missense_variant,p.Gly213Ala,ENST00000358545,;TNFSF11,missense_variant,p.Gly213Ala,ENST00000544862,;TNFSF11,missense_variant,p.Gly213Ala,ENST00000398795,;TNFSF11,missense_variant,p.Gly286Ala,ENST00000239849,;TNFSF11,missense_variant,p.Gly213Ala,ENST00000405262,;	C	ENSG00000120659	ENST00000239849	Transcript	missense_variant	1008	857	286	G/A	gGa/gCa	COSM416358	.	.	1	TNFSF11	HGNC	11926	protein_coding	YES	CCDS9384.1	ENSP00000239849	TNF11_HUMAN	Q5T9Y4_HUMAN,Q54A98_HUMAN	UPI000003BC8E	.	deleterious(0)	probably_damaging(0.999)	5/5	.	PROSITE_profiles:PS50049,hmmpanther:PTHR11471,hmmpanther:PTHR11471:SF3,Gene3D:2.60.120.40,Pfam_domain:PF00229,PIRSF_domain:PIRSF038013,SMART_domains:SM00207,Superfamily_domains:SSF49842	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTGGAGAGG	.	5	BLCA
KPNA3	0	.	GRCh37	13	50276524	50276524	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1465G>A	p.Asp489Asn	p.D489N	ENST00000261667	16/17	57	47	9	61	61	0	KPNA3,missense_variant,p.Asp76Asn,ENST00000436760,;KPNA3,missense_variant,p.Asp489Asn,ENST00000261667,;	T	ENSG00000102753	ENST00000261667	Transcript	missense_variant	1880	1465	489	D/N	Gat/Aat	COSM416344	.	.	-1	KPNA3	HGNC	6396	protein_coding	YES	CCDS9421.1	ENSP00000261667	IMA4_HUMAN	.	UPI000012D5F9	.	tolerated(0.1)	benign(0.305)	16/17	.	hmmpanther:PTHR23316:SF6,hmmpanther:PTHR23316,PIRSF_domain:PIRSF005673	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCATCAC	.	5	BLCA
KPNA3	0	.	GRCh37	13	50299570	50299570	+	Nonsense_Mutation	SNP	G	G	A	rs760399906	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451C>T	p.Gln151Ter	p.Q151*	ENST00000261667	7/17	66	50	16	49	49	0	KPNA3,stop_gained,p.Gln151Ter,ENST00000261667,;	A	ENSG00000102753	ENST00000261667	Transcript	stop_gained	866	451	151	Q/*	Caa/Taa	rs760399906,COSM416343	.	.	-1	KPNA3	HGNC	6396	protein_coding	YES	CCDS9421.1	ENSP00000261667	IMA4_HUMAN	.	UPI000012D5F9	.	.	.	7/17	.	PROSITE_profiles:PS50176,hmmpanther:PTHR23316:SF6,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF00514,PIRSF_domain:PIRSF005673,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCTTGAGTCT	.	3	BLCA
KPNA3	0	.	GRCh37	13	50299581	50299581	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.440C>T	p.Ser147Phe	p.S147F	ENST00000261667	7/17	73	56	16	52	52	0	KPNA3,missense_variant,p.Ser147Phe,ENST00000261667,;	A	ENSG00000102753	ENST00000261667	Transcript	missense_variant	855	440	147	S/F	tCt/tTt	COSM416342	.	.	-1	KPNA3	HGNC	6396	protein_coding	YES	CCDS9421.1	ENSP00000261667	IMA4_HUMAN	.	UPI000012D5F9	.	deleterious(0)	probably_damaging(0.974)	7/17	.	PROSITE_profiles:PS50176,hmmpanther:PTHR23316:SF6,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF00514,PIRSF_domain:PIRSF005673,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGCAGAAGTT	.	3	BLCA
KLF5	0	.	GRCh37	13	73636362	73636362	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627delA	p.Lys209AsnfsTer24	p.K209Nfs*24	ENST00000377687	2/4	109	90	19	91	91	0	KLF5,frameshift_variant,p.Lys209AsnfsTer24,ENST00000377687,;KLF5,frameshift_variant,p.Lys118AsnfsTer24,ENST00000539231,;KLF5,non_coding_transcript_exon_variant,,ENST00000476859,;KLF5,non_coding_transcript_exon_variant,,ENST00000477333,;	-	ENSG00000102554	ENST00000377687	Transcript	frameshift_variant	1161	625	209	K/X	Aaa/aa	.	.	.	1	KLF5	HGNC	6349	protein_coding	YES	CCDS9448.1	ENSP00000366915	KLF5_HUMAN	Q5T6X2_HUMAN,B4DL96_HUMAN,A2TJX0_HUMAN	UPI0000000C89	.	.	.	2/4	.	hmmpanther:PTHR23223:SF144,hmmpanther:PTHR23223	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCATCAAACAA	.	3	BLCA
GPC5	0	.	GRCh37	13	92560198	92560198	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1288C>T	p.Gln430Ter	p.Q430*	ENST00000377067	6/8	103	81	22	80	80	0	GPC5,stop_gained,p.Gln430Ter,ENST00000377067,;	T	ENSG00000179399	ENST00000377067	Transcript	stop_gained	1660	1288	430	Q/*	Cag/Tag	COSM416304	.	.	1	GPC5	HGNC	4453	protein_coding	YES	CCDS9468.1	ENSP00000366267	GPC5_HUMAN	.	UPI0000001C85	.	.	.	6/8	.	hmmpanther:PTHR10822,hmmpanther:PTHR10822:SF12,Pfam_domain:PF01153	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTCAGCGT	.	5	BLCA
BAG5	0	.	GRCh37	14	104026370	104026370	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1255G>T	p.Glu419Ter	p.E419*	ENST00000337322	2/2	172	129	43	185	185	0	BAG5,stop_gained,p.Glu378Ter,ENST00000299204,;BAG5,stop_gained,p.Glu419Ter,ENST00000337322,;BAG5,stop_gained,p.Glu378Ter,ENST00000445922,;KLC1,upstream_gene_variant,,ENST00000557172,;APOPT1,upstream_gene_variant,,ENST00000440963,;RP11-73M18.2,upstream_gene_variant,,ENST00000472726,;BAG5,downstream_gene_variant,,ENST00000557666,;APOPT1,upstream_gene_variant,,ENST00000247618,;APOPT1,upstream_gene_variant,,ENST00000409074,;APOPT1,upstream_gene_variant,,ENST00000495778,;APOPT1,upstream_gene_variant,,ENST00000556253,;RP11-894P9.2,intron_variant,,ENST00000556332,;APOPT1,upstream_gene_variant,,ENST00000477116,;APOPT1,upstream_gene_variant,,ENST00000473127,;APOPT1,upstream_gene_variant,,ENST00000476323,;APOPT1,upstream_gene_variant,,ENST00000492189,;APOPT1,upstream_gene_variant,,ENST00000497901,;APOPT1,upstream_gene_variant,,ENST00000489117,;APOPT1,upstream_gene_variant,,ENST00000554625,;APOPT1,upstream_gene_variant,,ENST00000458117,;	A	ENSG00000166170	ENST00000337322	Transcript	stop_gained	1546	1255	419	E/*	Gag/Tag	COSM416284	.	.	-1	BAG5	HGNC	941	protein_coding	YES	CCDS41995.1	ENSP00000338814	BAG5_HUMAN	G3V274_HUMAN	UPI00001FDC93	.	.	.	2/2	.	Superfamily_domains:SSF63491,SMART_domains:SM00264,Pfam_domain:PF02179,Gene3D:1.20.58.120,hmmpanther:PTHR12329,hmmpanther:PTHR12329:SF2,PROSITE_profiles:PS51035	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S377S|c.1131T>C|3,BUFFER|p.S377Y|c.1130C>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCAGACA	.	5	BLCA
BAG5	0	.	GRCh37	14	104026577	104026577	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Glu350Lys	p.E350K	ENST00000337322	2/2	135	104	31	189	189	0	BAG5,missense_variant,p.Glu309Lys,ENST00000299204,;BAG5,missense_variant,p.Glu350Lys,ENST00000337322,;BAG5,missense_variant,p.Glu309Lys,ENST00000445922,;KLC1,upstream_gene_variant,,ENST00000557172,;APOPT1,upstream_gene_variant,,ENST00000440963,;RP11-73M18.2,upstream_gene_variant,,ENST00000472726,;BAG5,downstream_gene_variant,,ENST00000557666,;APOPT1,upstream_gene_variant,,ENST00000247618,;APOPT1,upstream_gene_variant,,ENST00000409074,;APOPT1,upstream_gene_variant,,ENST00000495778,;APOPT1,upstream_gene_variant,,ENST00000556253,;RP11-894P9.2,intron_variant,,ENST00000556332,;APOPT1,upstream_gene_variant,,ENST00000477116,;APOPT1,upstream_gene_variant,,ENST00000473127,;APOPT1,upstream_gene_variant,,ENST00000476323,;APOPT1,upstream_gene_variant,,ENST00000492189,;APOPT1,upstream_gene_variant,,ENST00000497901,;APOPT1,upstream_gene_variant,,ENST00000489117,;APOPT1,upstream_gene_variant,,ENST00000554625,;APOPT1,upstream_gene_variant,,ENST00000458117,;	T	ENSG00000166170	ENST00000337322	Transcript	missense_variant	1339	1048	350	E/K	Gaa/Aaa	COSM416283	.	.	-1	BAG5	HGNC	941	protein_coding	YES	CCDS41995.1	ENSP00000338814	BAG5_HUMAN	G3V274_HUMAN	UPI00001FDC93	.	deleterious(0)	probably_damaging(0.999)	2/2	.	Superfamily_domains:SSF63491,SMART_domains:SM00264,Pfam_domain:PF02179,Gene3D:1.20.58.120,hmmpanther:PTHR12329,hmmpanther:PTHR12329:SF2,PROSITE_profiles:PS51035	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATTCTGTTT	.	5	BLCA
RP11-73M18.2	0	.	GRCh37	14	104037964	104037964	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.167C>G	p.Ser56Ter	p.S56*	ENST00000472726	2/18	141	115	26	156	156	0	RP11-73M18.2,stop_gained,p.Ser56Ter,ENST00000472726,;APOPT1,stop_gained,p.Ser56Ter,ENST00000409074,;APOPT1,stop_gained,p.Ser43Ter,ENST00000247618,;APOPT1,stop_gained,p.Ser18Ter,ENST00000495778,;APOPT1,stop_gained,p.Ser43Ter,ENST00000556253,;KLC1,intron_variant,,ENST00000557172,;APOPT1,intron_variant,,ENST00000440963,;RNU4-68P,downstream_gene_variant,,ENST00000364314,;AL139300.1,downstream_gene_variant,,ENST00000583855,;APOPT1,non_coding_transcript_exon_variant,,ENST00000477116,;APOPT1,non_coding_transcript_exon_variant,,ENST00000473127,;APOPT1,non_coding_transcript_exon_variant,,ENST00000476323,;APOPT1,non_coding_transcript_exon_variant,,ENST00000497901,;APOPT1,intron_variant,,ENST00000492189,;APOPT1,upstream_gene_variant,,ENST00000474271,;APOPT1,upstream_gene_variant,,ENST00000554876,;APOPT1,stop_gained,p.Ser51Ter,ENST00000458117,;APOPT1,3_prime_UTR_variant,,ENST00000489117,;APOPT1,non_coding_transcript_exon_variant,,ENST00000554625,;APOPT1,upstream_gene_variant,,ENST00000555660,;	G	ENSG00000256500	ENST00000472726	Transcript	stop_gained	168	167	56	S/*	tCa/tGa	COSM416282	.	.	1	RP11-73M18.2	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000439065	.	Q7Z5D5_HUMAN,G3V2P7_HUMAN,E7EVH7_HUMAN	UPI0001AE69A1	.	.	.	2/18	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCAAGAT	.	5	BLCA
INF2	0	.	GRCh37	14	105169764	105169764	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.640C>T	p.Arg214Cys	p.R214C	ENST00000392634	4/23	164	135	29	160	160	0	INF2,missense_variant,p.Arg214Cys,ENST00000330634,;INF2,missense_variant,p.Arg214Cys,ENST00000392634,;INF2,missense_variant,p.Arg214Cys,ENST00000398337,;INF2,upstream_gene_variant,,ENST00000252527,;INF2,upstream_gene_variant,,ENST00000474229,;	T	ENSG00000203485	ENST00000392634	Transcript	missense_variant	752	640	214	R/C	Cgc/Tgc	CM113753,COSM416277,COSM1133433,COSM416278	.	.	1	INF2	HGNC	23791	protein_coding	YES	CCDS9989.2	ENSP00000376410	INF2_HUMAN	.	UPI000156D0FB	.	deleterious(0)	probably_damaging(0.999)	4/23	.	PROSITE_profiles:PS51232,hmmpanther:PTHR23213:SF5,hmmpanther:PTHR23213,Pfam_domain:PF06367,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGCGCGCACC	.	4	BLCA
INF2	0	.	GRCh37	14	105177451	105177451	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2346C>T	p.%3D	p.I782I	ENST00000392634	15/23	10	6	3	15	15	0	INF2,synonymous_variant,p.%3D,ENST00000252527,;INF2,synonymous_variant,p.%3D,ENST00000330634,;INF2,synonymous_variant,p.%3D,ENST00000392634,;INF2,upstream_gene_variant,,ENST00000481338,;INF2,non_coding_transcript_exon_variant,,ENST00000474229,;INF2,intron_variant,,ENST00000480763,;INF2,upstream_gene_variant,,ENST00000477497,;	T	ENSG00000203485	ENST00000392634	Transcript	synonymous_variant	2458	2346	782	I	atC/atT	COSM416275,COSM1133434,COSM416276	.	.	1	INF2	HGNC	23791	protein_coding	YES	CCDS9989.2	ENSP00000376410	INF2_HUMAN	.	UPI000156D0FB	.	.	.	15/23	.	PROSITE_profiles:PS51444,hmmpanther:PTHR23213:SF5,hmmpanther:PTHR23213,Pfam_domain:PF02181,SMART_domains:SM00498,Superfamily_domains:SSF101447	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AAGATCAGCAC	.	3	BLCA
TEP1	0	.	GRCh37	14	20841487	20841487	+	Silent	SNP	G	G	A	rs751449109	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6756C>T	p.%3D	p.L2252L	ENST00000262715	47/55	156	118	38	141	141	0	TEP1,synonymous_variant,p.%3D,ENST00000545983,;TEP1,synonymous_variant,p.%3D,ENST00000556935,;TEP1,synonymous_variant,p.%3D,ENST00000262715,;TEP1,upstream_gene_variant,,ENST00000553984,;TEP1,synonymous_variant,p.%3D,ENST00000555008,;TEP1,3_prime_UTR_variant,,ENST00000555727,;TEP1,3_prime_UTR_variant,,ENST00000557314,;TEP1,downstream_gene_variant,,ENST00000471684,;TEP1,upstream_gene_variant,,ENST00000553365,;TEP1,downstream_gene_variant,,ENST00000556488,;	A	ENSG00000129566	ENST00000262715	Transcript	synonymous_variant	6797	6756	2252	L	ctC/ctT	rs751449109,COSM416257	.	.	-1	TEP1	HGNC	11726	protein_coding	YES	CCDS9548.1	ENSP00000262715	TEP1_HUMAN	G3V591_HUMAN	UPI000013D30B	.	.	.	47/55	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF402,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGAGGCC	byFrequency	5	BLCA
RNASE10	0	.	GRCh37	14	20978929	20978929	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.299C>G	p.Ser100Ter	p.S100*	ENST00000328444	1/1	49	38	11	47	47	0	RNASE10,stop_gained,p.Ser128Ter,ENST00000430083,;RNASE10,stop_gained,p.Ser100Ter,ENST00000328444,;	G	ENSG00000182545	ENST00000328444	Transcript	stop_gained	318	299	100	S/*	tCa/tGa	COSM416256	.	.	1	RNASE10	HGNC	19275	protein_coding	YES	CCDS32035.1	ENSP00000333358	RNS10_HUMAN	.	UPI00001986DE	.	.	.	1/1	.	Superfamily_domains:SSF54076,hmmpanther:PTHR11437:SF2,hmmpanther:PTHR11437	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCAGCTC	.	5	BLCA
CHD8	0	.	GRCh37	14	21863460	21863460	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5179G>A	p.Glu1727Lys	p.E1727K	ENST00000399982	28/37	33	26	6	18	18	0	CHD8,missense_variant,p.Glu1727Lys,ENST00000557364,;CHD8,missense_variant,p.Glu1448Lys,ENST00000430710,;CHD8,missense_variant,p.Glu1727Lys,ENST00000399982,;CHD8,downstream_gene_variant,,ENST00000555935,;CHD8,upstream_gene_variant,,ENST00000553870,;SNORD8,downstream_gene_variant,,ENST00000363915,;SNORD9,upstream_gene_variant,,ENST00000362566,;CHD8,non_coding_transcript_exon_variant,,ENST00000555962,;CHD8,upstream_gene_variant,,ENST00000557329,;CHD8,upstream_gene_variant,,ENST00000555301,;RP11-689J19.1,upstream_gene_variant,,ENST00000480068,;	T	ENSG00000100888	ENST00000399982	Transcript	missense_variant	5244	5179	1727	E/K	Gaa/Aaa	COSM416247	.	.	-1	CHD8	HGNC	20153	protein_coding	YES	CCDS53885.1	ENSP00000382863	CHD8_HUMAN	.	UPI00002375B9	.	tolerated(0.68)	benign(0.018)	28/37	.	hmmpanther:PTHR10799:SF551,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCATCTC	.	5	BLCA
TRDV3	0	.	GRCh37	14	22938145	22938145	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229G>C	p.Asp77His	p.D77H	ENST00000535880	2/2	111	81	29	118	118	0	TRDV3,missense_variant,p.Asp77His,ENST00000535880,;TRDC,downstream_gene_variant,,ENST00000390477,;AE000661.37,intron_variant,,ENST00000514473,;AE000661.37,intron_variant,,ENST00000556777,;	G	ENSG00000256590	ENST00000535880	Transcript	missense_variant	313	229	77	D/H	Gat/Cat	.	.	.	-1	TRDV3	HGNC	12264	TR_V_gene	YES	.	ENSP00000451750	.	A0JD37_HUMAN	UPI0000113D2D	.	deleterious(0.04)	probably_damaging(0.984)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267,hmmpanther:PTHR23267:SF143,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCTGCAC	.	5	BLCA
CDH24	0	.	GRCh37	14	23524387	23524387	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.377C>T	p.Ser126Phe	p.S126F	ENST00000397359	3/14	163	142	20	136	136	0	CDH24,missense_variant,p.Ser126Phe,ENST00000554034,;CDH24,missense_variant,p.Ser126Phe,ENST00000487137,;CDH24,missense_variant,p.Ser126Phe,ENST00000397359,;CDH24,missense_variant,p.Ser126Phe,ENST00000267383,;ACIN1,downstream_gene_variant,,ENST00000338631,;ACIN1,downstream_gene_variant,,ENST00000262710,;ACIN1,downstream_gene_variant,,ENST00000557515,;ACIN1,downstream_gene_variant,,ENST00000397341,;ACIN1,downstream_gene_variant,,ENST00000357481,;ACIN1,downstream_gene_variant,,ENST00000605057,;ACIN1,downstream_gene_variant,,ENST00000555053,;ACIN1,downstream_gene_variant,,ENST00000457657,;ACIN1,downstream_gene_variant,,ENST00000473758,;	A	ENSG00000139880	ENST00000397359	Transcript	missense_variant	637	377	126	S/F	tCc/tTc	COSM416237,COSM1133437	.	.	-1	CDH24	HGNC	14265	protein_coding	YES	CCDS9585.1	ENSP00000380517	CAD24_HUMAN	Q86TS8_HUMAN,Q4VBZ5_HUMAN	UPI0000190F86	.	deleterious(0)	probably_damaging(0.975)	3/14	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF272,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTTGGAGGCT	.	4	BLCA
HECTD1	0	.	GRCh37	14	31574848	31574848	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7253C>G	p.Ser2418Ter	p.S2418*	ENST00000399332	39/43	124	88	36	122	122	0	HECTD1,stop_gained,p.Ser784Ter,ENST00000554882,;HECTD1,stop_gained,p.Ser2418Ter,ENST00000399332,;HECTD1,stop_gained,p.Ser2418Ter,ENST00000553700,;HECTD1,non_coding_transcript_exon_variant,,ENST00000555843,;HECTD1,upstream_gene_variant,,ENST00000557695,;HECTD1,downstream_gene_variant,,ENST00000555311,;HECTD1,upstream_gene_variant,,ENST00000556281,;	C	ENSG00000092148	ENST00000399332	Transcript	stop_gained	7742	7253	2418	S/*	tCa/tGa	COSM416719	.	.	-1	HECTD1	HGNC	20157	protein_coding	YES	CCDS41939.1	ENSP00000382269	HECD1_HUMAN	G3V4V5_HUMAN	UPI0000E8AC98	.	.	.	39/43	.	Superfamily_domains:SSF56204,SMART_domains:SM00119,Pfam_domain:PF00632,Gene3D:1c4zA02,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF75,PROSITE_profiles:PS50237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTGAGGAA	.	5	BLCA
PSMA6	0	.	GRCh37	14	35786501	35786501	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.730G>C	p.Glu244Gln	p.E244Q	ENST00000261479	7/7	216	184	31	205	205	0	PSMA6,missense_variant,p.Glu225Gln,ENST00000540871,;PSMA6,missense_variant,p.Glu165Gln,ENST00000555764,;PSMA6,missense_variant,p.Glu250Gln,ENST00000553809,;PSMA6,missense_variant,p.Glu83Gln,ENST00000556221,;PSMA6,missense_variant,p.Glu244Gln,ENST00000261479,;PSMA6,3_prime_UTR_variant,,ENST00000556506,;PSMA6,3_prime_UTR_variant,,ENST00000554541,;KIAA0391,3_prime_UTR_variant,,ENST00000557565,;PSMA6,3_prime_UTR_variant,,ENST00000554961,;PSMA6,non_coding_transcript_exon_variant,,ENST00000554457,;PSMA6,downstream_gene_variant,,ENST00000554620,;PSMA6,downstream_gene_variant,,ENST00000553688,;	C	ENSG00000100902	ENST00000261479	Transcript	missense_variant	850	730	244	E/Q	Gag/Cag	COSM416704	.	.	1	PSMA6	HGNC	9535	protein_coding	YES	CCDS9655.1	ENSP00000261479	PSA6_HUMAN	Q9BZ93_HUMAN,B4DQR4_HUMAN	UPI0000001C1E	.	deleterious(0.01)	benign(0.045)	7/7	.	hmmpanther:PTHR11599,hmmpanther:PTHR11599:SF11,Gene3D:3.60.20.10,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGCAGAGAGA	.	4	BLCA
CTAGE5	0	.	GRCh37	14	39762517	39762517	+	Missense_Mutation	SNP	G	G	A	rs765952244	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442G>A	p.Asp148Asn	p.D148N	ENST00000396158	6/24	78	72	6	78	78	0	CTAGE5,missense_variant,p.Asp114Asn,ENST00000396165,;CTAGE5,missense_variant,p.Asp148Asn,ENST00000396158,;CTAGE5,missense_variant,p.Asp105Asn,ENST00000555716,;RP11-407N17.3,missense_variant,p.Asp678Asn,ENST00000553728,;CTAGE5,missense_variant,p.Asp143Asn,ENST00000341502,;CTAGE5,missense_variant,p.Asp114Asn,ENST00000553352,;CTAGE5,missense_variant,p.Asp143Asn,ENST00000280083,;CTAGE5,missense_variant,p.Asp68Asn,ENST00000556148,;CTAGE5,missense_variant,p.Asp131Asn,ENST00000341749,;CTAGE5,missense_variant,p.Asp143Asn,ENST00000348007,;RP11-407N17.3,missense_variant,p.Asp114Asn,ENST00000603904,;CTAGE5,missense_variant,p.Asp63Asn,ENST00000557038,;CTAGE5,downstream_gene_variant,,ENST00000554392,;CTAGE5,non_coding_transcript_exon_variant,,ENST00000556990,;	A	ENSG00000150527	ENST00000396158	Transcript	missense_variant	778	442	148	D/N	Gat/Aat	rs765952244,COSM416693	.	.	1	CTAGE5	HGNC	7057	protein_coding	YES	CCDS58316.1	ENSP00000379462	CTGE5_HUMAN	.	UPI0001AE69C9	.	tolerated(0.11)	benign(0.02)	6/24	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23158:SF39,hmmpanther:PTHR23158	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGAGGATGAA	.	3	BLCA
FANCM	0	.	GRCh37	14	45658401	45658401	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5176C>G	p.Pro1726Ala	p.P1726A	ENST00000267430	20/23	321	241	80	281	281	0	FANCM,missense_variant,p.Pro659Ala,ENST00000554809,;FANCM,missense_variant,p.Pro1700Ala,ENST00000542564,;FANCM,missense_variant,p.Pro1242Ala,ENST00000556250,;FANCM,missense_variant,p.Pro1726Ala,ENST00000267430,;FANCM,downstream_gene_variant,,ENST00000555013,;	G	ENSG00000187790	ENST00000267430	Transcript	missense_variant	5261	5176	1726	P/A	Cca/Gca	COSM416685	.	.	1	FANCM	HGNC	23168	protein_coding	YES	CCDS32070.1	ENSP00000267430	FANCM_HUMAN	.	UPI000059F032	.	tolerated(0.35)	benign(0.003)	20/23	.	hmmpanther:PTHR14025,hmmpanther:PTHR14025:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATCCATTA	.	5	BLCA
NIN	0	.	GRCh37	14	51196370	51196370	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5949G>A	p.%3D	p.Q1983Q	ENST00000382041	29/30	28	20	7	28	28	0	NIN,synonymous_variant,p.%3D,ENST00000245441,;NIN,synonymous_variant,p.%3D,ENST00000382041,;NIN,synonymous_variant,p.%3D,ENST00000389869,;NIN,synonymous_variant,p.%3D,ENST00000530853,;NIN,synonymous_variant,p.%3D,ENST00000382043,;NIN,synonymous_variant,p.%3D,ENST00000453196,;NIN,synonymous_variant,p.%3D,ENST00000530997,;NIN,3_prime_UTR_variant,,ENST00000389868,;NIN,3_prime_UTR_variant,,ENST00000324330,;NIN,3_prime_UTR_variant,,ENST00000476352,;NIN,3_prime_UTR_variant,,ENST00000485005,;NIN,upstream_gene_variant,,ENST00000555984,;	T	ENSG00000100503	ENST00000382041	Transcript	synonymous_variant	6140	5949	1983	Q	caG/caA	COSM416678,COSM1133440,COSM1133439	.	.	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	.	.	29/30	.	hmmpanther:PTHR18905,hmmpanther:PTHR18905:SF11	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTGCTGCTG	.	5	BLCA
NIN	0	.	GRCh37	14	51204915	51204915	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5718G>A	p.%3D	p.L1906L	ENST00000382041	27/30	199	152	46	198	198	0	NIN,synonymous_variant,p.%3D,ENST00000389868,;NIN,synonymous_variant,p.%3D,ENST00000245441,;NIN,synonymous_variant,p.%3D,ENST00000324330,;NIN,synonymous_variant,p.%3D,ENST00000382041,;NIN,synonymous_variant,p.%3D,ENST00000389869,;NIN,synonymous_variant,p.%3D,ENST00000382043,;NIN,synonymous_variant,p.%3D,ENST00000530853,;NIN,synonymous_variant,p.%3D,ENST00000453196,;NIN,synonymous_variant,p.%3D,ENST00000530997,;NIN,synonymous_variant,p.%3D,ENST00000476352,;NIN,synonymous_variant,p.%3D,ENST00000485005,;NIN,downstream_gene_variant,,ENST00000480476,;	T	ENSG00000100503	ENST00000382041	Transcript	synonymous_variant	5909	5718	1906	L	ttG/ttA	COSM416677,COSM1133442,COSM1133441	.	.	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	.	.	27/30	.	hmmpanther:PTHR18905,hmmpanther:PTHR18905:SF11	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCAATTT	.	5	BLCA
AP5M1	0	.	GRCh37	14	57741516	57741516	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.629C>G	p.Ser210Cys	p.S210C	ENST00000261558	2/8	128	105	22	112	112	0	AP5M1,missense_variant,p.Ser210Cys,ENST00000261558,;AP5M1,missense_variant,p.Ser224Cys,ENST00000431972,;AP5M1,downstream_gene_variant,,ENST00000556995,;AP5M1,upstream_gene_variant,,ENST00000556723,;AP5M1,downstream_gene_variant,,ENST00000554213,;AP5M1,non_coding_transcript_exon_variant,,ENST00000554931,;AP5M1,intron_variant,,ENST00000555448,;	G	ENSG00000053770	ENST00000261558	Transcript	missense_variant	1035	629	210	S/C	tCt/tGt	COSM416660	.	.	1	AP5M1	HGNC	20192	protein_coding	YES	CCDS9729.1	ENSP00000261558	AP5M1_HUMAN	H0YIY0_HUMAN,G3V573_HUMAN	UPI00000719DE	.	tolerated(0.15)	possibly_damaging(0.729)	2/8	.	PROSITE_profiles:PS51072,hmmpanther:PTHR16082:SF2,hmmpanther:PTHR16082,Pfam_domain:PF00928,Gene3D:2.60.40.1170,Superfamily_domains:0038852	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCTATTT	.	5	BLCA
ARID4A	0	.	GRCh37	14	58831340	58831340	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2533G>A	p.Glu845Lys	p.E845K	ENST00000355431	20/24	57	49	8	58	58	0	ARID4A,missense_variant,p.Glu845Lys,ENST00000355431,;ARID4A,missense_variant,p.Glu845Lys,ENST00000395168,;ARID4A,missense_variant,p.Glu523Lys,ENST00000417477,;ARID4A,missense_variant,p.Glu845Lys,ENST00000431317,;ARID4A,missense_variant,p.Glu845Lys,ENST00000348476,;ARID4A,downstream_gene_variant,,ENST00000469635,;ARID4A,upstream_gene_variant,,ENST00000466065,;	A	ENSG00000032219	ENST00000355431	Transcript	missense_variant	2906	2533	845	E/K	Gaa/Aaa	COSM416656,COSM1133449	.	.	1	ARID4A	HGNC	9885	protein_coding	YES	CCDS9732.1	ENSP00000347602	ARI4A_HUMAN	H7C485_HUMAN,C9JIF4_HUMAN	UPI000013FD01	.	deleterious_low_confidence(0)	benign(0.115)	20/24	.	hmmpanther:PTHR13964:SF1,hmmpanther:PTHR13964	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGATGAAATT	.	4	BLCA
C14orf39	0	.	GRCh37	14	60923747	60923747	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1246G>A	p.Glu416Lys	p.E416K	ENST00000321731	15/18	216	168	48	183	183	0	C14orf39,missense_variant,p.Glu416Lys,ENST00000321731,;C14orf39,3_prime_UTR_variant,,ENST00000557138,;C14orf39,upstream_gene_variant,,ENST00000498565,;	T	ENSG00000179008	ENST00000321731	Transcript	missense_variant	1406	1246	416	E/K	Gag/Aag	COSM416648	.	.	-1	C14orf39	HGNC	19849	protein_coding	YES	CCDS9746.1	ENSP00000324920	S6OS1_HUMAN	G3V493_HUMAN,G3V3U9_HUMAN	UPI0000140C15	.	deleterious(0.01)	benign(0)	15/18	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCTCAGCTC	.	4	BLCA
PSEN1	0	.	GRCh37	14	73614734	73614734	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7G>A	p.Glu3Lys	p.E3K	ENST00000324501	3/12	56	42	14	53	53	0	PSEN1,missense_variant,p.Glu3Lys,ENST00000394164,;PSEN1,missense_variant,p.Glu3Lys,ENST00000556066,;PSEN1,missense_variant,p.Glu3Lys,ENST00000553599,;PSEN1,missense_variant,p.Glu3Lys,ENST00000556533,;PSEN1,missense_variant,p.Glu3Lys,ENST00000344094,;PSEN1,missense_variant,p.Glu3Lys,ENST00000557511,;PSEN1,missense_variant,p.Glu3Lys,ENST00000324501,;PSEN1,missense_variant,p.Glu3Lys,ENST00000556011,;PSEN1,missense_variant,p.Glu3Lys,ENST00000556951,;PSEN1,missense_variant,p.Glu3Lys,ENST00000555254,;PSEN1,missense_variant,p.Glu3Lys,ENST00000557356,;PSEN1,missense_variant,p.Glu3Lys,ENST00000553719,;PSEN1,missense_variant,p.Glu3Lys,ENST00000560005,;PSEN1,missense_variant,p.Glu3Lys,ENST00000261970,;PSEN1,missense_variant,p.Glu3Lys,ENST00000554131,;PSEN1,missense_variant,p.Glu3Lys,ENST00000394157,;PSEN1,missense_variant,p.Glu3Lys,ENST00000557293,;PSEN1,missense_variant,p.Glu3Lys,ENST00000557037,;PSEN1,missense_variant,p.Glu3Lys,ENST00000556864,;PSEN1,missense_variant,p.Glu3Lys,ENST00000357710,;PSEN1,non_coding_transcript_exon_variant,,ENST00000553447,;PSEN1,missense_variant,p.Glu3Lys,ENST00000559361,;PSEN1,missense_variant,p.Glu3Lys,ENST00000553855,;PSEN1,missense_variant,p.Glu3Lys,ENST00000555386,;	A	ENSG00000080815	ENST00000324501	Transcript	missense_variant	279	7	3	E/K	Gag/Aag	COSM416620	.	.	1	PSEN1	HGNC	9508	protein_coding	YES	CCDS9812.1	ENSP00000326366	PSN1_HUMAN	G3V4P4_HUMAN,G3V4M0_HUMAN,G3V2G7_HUMAN,E7ES96_HUMAN	UPI000003F05F	.	deleterious_low_confidence(0)	benign(0.002)	3/12	.	Prints_domain:PR01073,hmmpanther:PTHR10202,hmmpanther:PTHR10202:SF7	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACAGAGTTA	.	5	BLCA
ACOT6	0	.	GRCh37	14	74086448	74086448	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529C>T	p.His177Tyr	p.H177Y	ENST00000381139	2/2	86	73	13	92	92	0	ACOT6,missense_variant,p.His177Tyr,ENST00000381139,;ACOT6,downstream_gene_variant,,ENST00000554229,;RP3-414A15.10,non_coding_transcript_exon_variant,,ENST00000555500,;RP3-414A15.10,intron_variant,,ENST00000555011,;	T	ENSG00000205669	ENST00000381139	Transcript	missense_variant	860	529	177	H/Y	Cac/Tac	COSM416617	.	.	1	ACOT6	HGNC	33159	protein_coding	YES	CCDS32118.1	ENSP00000370531	ACOT6_HUMAN	G3V3W6_HUMAN	UPI00005BB7DB	.	tolerated(0.1)	probably_damaging(0.929)	2/2	.	Superfamily_domains:SSF53474,Gene3D:3.40.50.1820,Pfam_domain:PF08840,hmmpanther:PTHR10824:SF7,hmmpanther:PTHR10824	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCACTCA	.	4	BLCA
PNMA1	0	.	GRCh37	14	74179622	74179622	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.721G>C	p.Glu241Gln	p.E241Q	ENST00000316836	1/1	180	140	39	154	154	0	PNMA1,missense_variant,p.Glu241Gln,ENST00000316836,;ELMSAN1,downstream_gene_variant,,ENST00000286523,;ELMSAN1,downstream_gene_variant,,ENST00000394071,;ELMSAN1,downstream_gene_variant,,ENST00000476562,;	G	ENSG00000176903	ENST00000316836	Transcript	missense_variant	1507	721	241	E/Q	Gag/Cag	COSM416616	.	.	-1	PNMA1	HGNC	9158	protein_coding	YES	CCDS9818.1	ENSP00000318914	PNMA1_HUMAN	.	UPI000003779C	.	deleterious(0.03)	benign(0.029)	1/1	.	hmmpanther:PTHR23095:SF17,hmmpanther:PTHR23095,Pfam_domain:PF14893	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCAACGC	.	5	BLCA
PNMA1	0	.	GRCh37	14	74180243	74180243	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>A	p.Glu34Lys	p.E34K	ENST00000316836	1/1	238	178	59	229	229	0	PNMA1,missense_variant,p.Glu34Lys,ENST00000316836,;ELMSAN1,downstream_gene_variant,,ENST00000286523,;ELMSAN1,downstream_gene_variant,,ENST00000394071,;ELMSAN1,downstream_gene_variant,,ENST00000476562,;	T	ENSG00000176903	ENST00000316836	Transcript	missense_variant	886	100	34	E/K	Gaa/Aaa	COSM416615	.	.	-1	PNMA1	HGNC	9158	protein_coding	YES	CCDS9818.1	ENSP00000318914	PNMA1_HUMAN	.	UPI000003779C	.	deleterious(0)	possibly_damaging(0.89)	1/1	.	hmmpanther:PTHR23095:SF17,hmmpanther:PTHR23095,Pfam_domain:PF14893	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTTCAGCCT	.	5	BLCA
VRTN	0	.	GRCh37	14	74824670	74824670	+	Nonsense_Mutation	SNP	C	C	G	rs746322979	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1184C>G	p.Ser395Ter	p.S395*	ENST00000256362	2/2	68	60	8	66	66	0	VRTN,stop_gained,p.Ser395Ter,ENST00000256362,;VRTN,downstream_gene_variant,,ENST00000557177,;	G	ENSG00000133980	ENST00000256362	Transcript	stop_gained	1425	1184	395	S/*	tCa/tGa	rs746322979,COSM416607	.	.	1	VRTN	HGNC	20223	protein_coding	YES	CCDS9830.1	ENSP00000256362	VRTN_HUMAN	G3V537_HUMAN	UPI00000737D5	.	.	.	2/2	.	hmmpanther:PTHR16081:SF0,hmmpanther:PTHR16081	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTGTCAAGCC	byFrequency|byCluster	4	BLCA
TTLL5	0	.	GRCh37	14	76249706	76249706	+	Missense_Mutation	SNP	C	C	T	rs771654537	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2819C>T	p.Ser940Phe	p.S940F	ENST00000298832	26/32	123	97	25	123	123	0	TTLL5,missense_variant,p.Ser954Phe,ENST00000557636,;TTLL5,missense_variant,p.Ser449Phe,ENST00000554510,;TTLL5,missense_variant,p.Ser491Phe,ENST00000556893,;TTLL5,missense_variant,p.Ser940Phe,ENST00000298832,;TTLL5,downstream_gene_variant,,ENST00000555422,;	T	ENSG00000119685	ENST00000298832	Transcript	missense_variant	3024	2819	940	S/F	tCt/tTt	rs771654537,COSM416600	.	.	1	TTLL5	HGNC	19963	protein_coding	YES	CCDS32124.1	ENSP00000298832	TTLL5_HUMAN	Q2TAY9_HUMAN,O95419_HUMAN	UPI00003FF22B	.	deleterious(0.01)	benign(0.367)	26/32	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCTGCCA	.	5	BLCA
TTLL5	0	.	GRCh37	14	76249833	76249833	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2946C>T	p.%3D	p.I982I	ENST00000298832	26/32	141	120	21	146	146	0	TTLL5,synonymous_variant,p.%3D,ENST00000557636,;TTLL5,synonymous_variant,p.%3D,ENST00000554510,;TTLL5,synonymous_variant,p.%3D,ENST00000556893,;TTLL5,synonymous_variant,p.%3D,ENST00000298832,;TTLL5,downstream_gene_variant,,ENST00000555422,;	T	ENSG00000119685	ENST00000298832	Transcript	synonymous_variant	3151	2946	982	I	atC/atT	COSM416599	.	.	1	TTLL5	HGNC	19963	protein_coding	YES	CCDS32124.1	ENSP00000298832	TTLL5_HUMAN	Q2TAY9_HUMAN,O95419_HUMAN	UPI00003FF22B	.	.	.	26/32	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACATCTATAG	.	4	BLCA
IRF2BPL	0	.	GRCh37	14	77492255	77492255	+	Silent	SNP	G	G	C	rs142866521	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1881C>G	p.%3D	p.L627L	ENST00000238647	1/1	27	21	6	32	32	0	IRF2BPL,synonymous_variant,p.%3D,ENST00000238647,;	C	ENSG00000119669	ENST00000238647	Transcript	synonymous_variant	2780	1881	627	L	ctC/ctG	rs142866521,COSM416593	.	.	-1	IRF2BPL	HGNC	14282	protein_coding	YES	CCDS9854.1	ENSP00000238647	I2BPL_HUMAN	.	UPI00000738BA	.	.	.	1/1	.	hmmpanther:PTHR10816:SF14,hmmpanther:PTHR10816	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACATGAGAGC	byCluster	3	BLCA
SEL1L	0	.	GRCh37	14	81950592	81950592	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2023G>C	p.Glu675Gln	p.E675Q	ENST00000336735	19/21	775	615	160	654	654	0	SEL1L,missense_variant,p.Glu675Gln,ENST00000336735,;SEL1L,non_coding_transcript_exon_variant,,ENST00000554293,;SEL1L,downstream_gene_variant,,ENST00000555923,;	G	ENSG00000071537	ENST00000336735	Transcript	missense_variant	2140	2023	675	E/Q	Gag/Cag	COSM416586	.	.	-1	SEL1L	HGNC	10717	protein_coding	YES	CCDS9876.1	ENSP00000337053	SE1L1_HUMAN	.	UPI0000135746	.	deleterious(0)	probably_damaging(1)	19/21	.	hmmpanther:PTHR11102:SF55,hmmpanther:PTHR11102,Pfam_domain:PF08238,Gene3D:1.25.40.10,SMART_domains:SM00671,Superfamily_domains:SSF81901	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCATGCA	.	5	BLCA
ATG2B	0	.	GRCh37	14	96807895	96807895	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888C>T	p.%3D	p.L296L	ENST00000359933	6/42	130	101	29	108	108	0	ATG2B,synonymous_variant,p.%3D,ENST00000359933,;	A	ENSG00000066739	ENST00000359933	Transcript	synonymous_variant	1782	888	296	L	ctC/ctT	COSM416546	.	.	-1	ATG2B	HGNC	20187	protein_coding	YES	CCDS9944.2	ENSP00000353010	ATG2B_HUMAN	.	UPI000155D51F	.	.	.	6/42	.	hmmpanther:PTHR13190:SF19,hmmpanther:PTHR13190	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACGTGAGACT	.	5	BLCA
AK7	0	.	GRCh37	14	96912857	96912857	+	Silent	SNP	G	G	C	rs747078345	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783G>C	p.%3D	p.V261V	ENST00000267584	8/18	91	63	28	79	79	0	AK7,synonymous_variant,p.%3D,ENST00000267584,;	C	ENSG00000140057	ENST00000267584	Transcript	synonymous_variant	827	783	261	V	gtG/gtC	rs747078345,COSM416545	.	.	1	AK7	HGNC	20091	protein_coding	YES	CCDS9945.1	ENSP00000267584	KAD7_HUMAN	.	UPI00001FDB1D	.	.	.	8/18	.	hmmpanther:PTHR23359,hmmpanther:PTHR23359:SF71,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGTGATACA	.	5	BLCA
POTEB2	0	.	GRCh37	15	21071224	21071224	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387G>A	p.Met129Ile	p.M129I	ENST00000454856	1/11	111	88	23	112	112	0	POTEB2,missense_variant,p.Met129Ile,ENST00000454856,;POTEB2,missense_variant,p.Met129Ile,ENST00000438063,;	T	ENSG00000230031	ENST00000454856	Transcript	missense_variant	420	387	129	M/I	atG/atA	.	.	.	-1	POTEB2	HGNC	48327	protein_coding	YES	CCDS59248.1	ENSP00000456953	POTB2_HUMAN	.	UPI0001A5E771	.	tolerated(0.16)	benign(0.029)	1/11	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF38,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TTGTTCATGTC	.	2	BLCA
ACTC1	0	.	GRCh37	15	35082582	35082582	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*31C>G	.	.	ENST00000290378	7/7	102	69	32	99	99	0	ACTC1,3_prime_UTR_variant,,ENST00000290378,;RP11-814P5.1,intron_variant,,ENST00000503496,;RP11-814P5.1,downstream_gene_variant,,ENST00000558707,;ACTC1,downstream_gene_variant,,ENST00000557860,;ACTC1,downstream_gene_variant,,ENST00000560563,;	C	ENSG00000159251	ENST00000290378	Transcript	3_prime_UTR_variant	1821	.	.	.	.	.	.	.	-1	ACTC1	HGNC	143	protein_coding	YES	CCDS10041.1	ENSP00000290378	ACTC_HUMAN	B3KPP5_HUMAN	UPI0000003F15	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGACTGG	.	5	BLCA
CASC5	0	.	GRCh37	15	40920870	40920870	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5655G>C	p.Leu1885Phe	p.L1885F	ENST00000346991	13/27	108	96	12	134	134	0	CASC5,missense_variant,p.Leu66Phe,ENST00000532406,;CASC5,missense_variant,p.Leu1885Phe,ENST00000346991,;CASC5,missense_variant,p.Leu1859Phe,ENST00000399668,;CASC5,missense_variant,p.Leu904Phe,ENST00000526913,;CASC5,intron_variant,,ENST00000534204,;CASC5,downstream_gene_variant,,ENST00000533001,;	C	ENSG00000137812	ENST00000346991	Transcript	missense_variant	6045	5655	1885	L/F	ttG/ttC	COSM416501,COSM416500	.	.	1	CASC5	HGNC	24054	protein_coding	YES	CCDS42023.1	ENSP00000335463	CASC5_HUMAN	.	UPI0000E59BD3	.	deleterious(0.02)	possibly_damaging(0.823)	13/27	.	hmmpanther:PTHR16520,hmmpanther:PTHR16520:SF2	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTGAGGGA	.	4	BLCA
DLL4	0	.	GRCh37	15	41229093	41229093	+	Missense_Mutation	SNP	G	G	C	rs767815025	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1908G>C	p.Lys636Asn	p.K636N	ENST00000249749	9/11	34	25	9	41	41	0	DLL4,missense_variant,p.Lys636Asn,ENST00000249749,;DLL4,downstream_gene_variant,,ENST00000559440,;	C	ENSG00000128917	ENST00000249749	Transcript	missense_variant	2184	1908	636	K/N	aaG/aaC	rs767815025,COSM416499	.	.	1	DLL4	HGNC	2910	protein_coding	YES	CCDS45232.1	ENSP00000249749	DLL4_HUMAN	.	UPI0000047825	.	deleterious(0.02)	probably_damaging(0.999)	9/11	.	hmmpanther:PTHR24044:SF249,hmmpanther:PTHR24044	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAAGAGCTT	.	5	BLCA
VPS39	0	.	GRCh37	15	42462051	42462051	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1104G>A	p.%3D	p.V368V	ENST00000318006	12/25	158	120	37	142	142	0	VPS39,synonymous_variant,p.%3D,ENST00000348544,;VPS39,synonymous_variant,p.%3D,ENST00000318006,;VPS39,upstream_gene_variant,,ENST00000563692,;VPS39,non_coding_transcript_exon_variant,,ENST00000568029,;VPS39,upstream_gene_variant,,ENST00000561797,;VPS39,upstream_gene_variant,,ENST00000562258,;VPS39,downstream_gene_variant,,ENST00000570023,;	T	ENSG00000166887	ENST00000318006	Transcript	synonymous_variant	1267	1104	368	V	gtG/gtA	COSM416936	.	.	-1	VPS39	HGNC	20593	protein_coding	YES	CCDS10083.1	ENSP00000326534	VPS39_HUMAN	.	UPI0000169BB1	.	.	.	12/25	.	hmmpanther:PTHR12894:SF10,hmmpanther:PTHR12894	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCACATG	.	5	BLCA
GANC	0	.	GRCh37	15	42568597	42568597	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.81C>T	p.%3D	p.I27I	ENST00000318010	2/24	36	33	3	56	56	0	GANC,synonymous_variant,p.%3D,ENST00000562859,;GANC,synonymous_variant,p.%3D,ENST00000440615,;GANC,synonymous_variant,p.%3D,ENST00000566442,;GANC,synonymous_variant,p.%3D,ENST00000562170,;GANC,synonymous_variant,p.%3D,ENST00000318010,;TMEM87A,upstream_gene_variant,,ENST00000307216,;TMEM87A,upstream_gene_variant,,ENST00000561578,;TMEM87A,upstream_gene_variant,,ENST00000389834,;TMEM87A,upstream_gene_variant,,ENST00000566474,;TMEM87A,upstream_gene_variant,,ENST00000568432,;TMEM87A,upstream_gene_variant,,ENST00000568400,;GANC,downstream_gene_variant,,ENST00000561871,;TMEM87A,upstream_gene_variant,,ENST00000563371,;TMEM87A,upstream_gene_variant,,ENST00000448392,;GANC,synonymous_variant,p.%3D,ENST00000567784,;GANC,synonymous_variant,p.%3D,ENST00000570013,;GANC,non_coding_transcript_exon_variant,,ENST00000567421,;GANC,non_coding_transcript_exon_variant,,ENST00000568687,;TMEM87A,upstream_gene_variant,,ENST00000562946,;TMEM87A,upstream_gene_variant,,ENST00000569075,;	T	ENSG00000214013	ENST00000318010	Transcript	synonymous_variant	321	81	27	I	atC/atT	COSM416935	.	.	1	GANC	HGNC	4139	protein_coding	YES	CCDS10084.1	ENSP00000326227	GANC_HUMAN	H3BUE8_HUMAN,H3BPX5_HUMAN,H3BMW3_HUMAN,H3BMM3_HUMAN	UPI00001FE303	.	.	.	2/24	.	hmmpanther:PTHR22762,hmmpanther:PTHR22762:SF60	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGATCGCATT	.	2	BLCA
PPIP5K1	0	.	GRCh37	15	43826784	43826784	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*88C>G	.	.	ENST00000420765	31/31	124	99	25	131	131	0	PPIP5K1,3_prime_UTR_variant,,ENST00000396923,;PPIP5K1,3_prime_UTR_variant,,ENST00000360301,;PPIP5K1,3_prime_UTR_variant,,ENST00000381885,;PPIP5K1,3_prime_UTR_variant,,ENST00000381879,;PPIP5K1,3_prime_UTR_variant,,ENST00000420765,;PPIP5K1,3_prime_UTR_variant,,ENST00000348806,;PPIP5K1,3_prime_UTR_variant,,ENST00000360135,;PPIP5K1,3_prime_UTR_variant,,ENST00000334933,;MAP1A,downstream_gene_variant,,ENST00000300231,;MAP1A,downstream_gene_variant,,ENST00000382031,;MAP1A,downstream_gene_variant,,ENST00000399453,;	C	ENSG00000168781	ENST00000420765	Transcript	3_prime_UTR_variant	4573	.	.	.	.	.	.	.	-1	PPIP5K1	HGNC	29023	protein_coding	YES	CCDS45252.1	ENSP00000400887	VIP1_HUMAN	C9JZX6_HUMAN,C9J5E6_HUMAN,C9J490_HUMAN	UPI00001CE036	.	.	.	31/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTGAGGGT	.	2	BLCA
PPIP5K1	0	.	GRCh37	15	43873500	43873500	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.864G>A	p.%3D	p.G288G	ENST00000420765	9/31	338	283	54	318	318	0	PPIP5K1,synonymous_variant,p.%3D,ENST00000396923,;PPIP5K1,synonymous_variant,p.%3D,ENST00000381885,;PPIP5K1,synonymous_variant,p.%3D,ENST00000360135,;PPIP5K1,synonymous_variant,p.%3D,ENST00000334933,;PPIP5K1,synonymous_variant,p.%3D,ENST00000360301,;PPIP5K1,synonymous_variant,p.%3D,ENST00000381879,;PPIP5K1,synonymous_variant,p.%3D,ENST00000420765,;PPIP5K1,synonymous_variant,p.%3D,ENST00000348806,;PPIP5K1,downstream_gene_variant,,ENST00000453080,;PPIP5K1,downstream_gene_variant,,ENST00000431962,;PPIP5K1,downstream_gene_variant,,ENST00000417085,;PPIP5K1,downstream_gene_variant,,ENST00000429176,;PPIP5K1,non_coding_transcript_exon_variant,,ENST00000432870,;PPIP5K1,missense_variant,p.Gly110Glu,ENST00000427877,;PPIP5K1,non_coding_transcript_exon_variant,,ENST00000488768,;PPIP5K1,downstream_gene_variant,,ENST00000476294,;PPIP5K1,upstream_gene_variant,,ENST00000465123,;PPIP5K1,downstream_gene_variant,,ENST00000472547,;	T	ENSG00000168781	ENST00000420765	Transcript	synonymous_variant	1047	864	288	G	ggG/ggA	COSM416922	.	.	-1	PPIP5K1	HGNC	29023	protein_coding	YES	CCDS45252.1	ENSP00000400887	VIP1_HUMAN	C9JZX6_HUMAN,C9J5E6_HUMAN,C9J490_HUMAN	UPI00001CE036	.	.	.	9/31	.	Superfamily_domains:SSF56059,hmmpanther:PTHR12750,hmmpanther:PTHR12750:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R292*|c.874C>T|3,BUFFER|p.R292*|c.874C>T|4	RADIA|MUTECT|MUSE|VARSCANS	TCTTTCCCCTC	.	4	BLCA
TMOD2	0	.	GRCh37	15	52069173	52069173	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>A	p.Glu151Lys	p.E151K	ENST00000249700	5/10	89	63	25	90	90	0	TMOD2,missense_variant,p.Glu151Lys,ENST00000249700,;TMOD2,missense_variant,p.Glu151Lys,ENST00000435126,;TMOD2,missense_variant,p.Glu107Lys,ENST00000539962,;TMOD2,intron_variant,,ENST00000560576,;TMOD2,upstream_gene_variant,,ENST00000561300,;	A	ENSG00000128872	ENST00000249700	Transcript	missense_variant	672	451	151	E/K	Gaa/Aaa	COSM416901	.	.	1	TMOD2	HGNC	11872	protein_coding	YES	CCDS10144.1	ENSP00000249700	TMOD2_HUMAN	G5EA42_HUMAN	UPI0000137080	.	tolerated(0.46)	benign(0.045)	5/10	.	hmmpanther:PTHR10901:SF17,hmmpanther:PTHR10901	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGATGAAGAA	.	5	BLCA
WDR72	0	.	GRCh37	15	53908309	53908309	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2094C>G	p.%3D	p.L698L	ENST00000396328	15/20	93	84	9	83	83	0	WDR72,synonymous_variant,p.%3D,ENST00000560036,;WDR72,synonymous_variant,p.%3D,ENST00000559418,;WDR72,synonymous_variant,p.%3D,ENST00000557913,;WDR72,synonymous_variant,p.%3D,ENST00000396328,;WDR72,synonymous_variant,p.%3D,ENST00000360509,;	C	ENSG00000166415	ENST00000396328	Transcript	synonymous_variant	2334	2094	698	L	ctC/ctG	COSM416898	.	.	-1	WDR72	HGNC	26790	protein_coding	YES	CCDS10151.1	ENSP00000379619	WDR72_HUMAN	H0YN02_HUMAN	UPI00001D777D	.	.	.	15/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12816:SF18,hmmpanther:PTHR12816	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	TCACTGAGTGG	.	3	BLCA
NEDD4	0	.	GRCh37	15	56130727	56130727	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3148G>A	p.Asp1050Asn	p.D1050N	ENST00000338963	15/22	98	72	25	71	71	0	NEDD4,missense_variant,p.Asp713Asn,ENST00000508871,;NEDD4,missense_variant,p.Asp703Asn,ENST00000435532,;NEDD4,missense_variant,p.Asp1050Asn,ENST00000338963,;NEDD4,missense_variant,p.Asp1122Asn,ENST00000508342,;NEDD4,missense_variant,p.Asp1106Asn,ENST00000506154,;NEDD4,3_prime_UTR_variant,,ENST00000503468,;	T	ENSG00000069869	ENST00000338963	Transcript	missense_variant	3448	3148	1050	D/N	Gat/Aat	COSM416885,COSM416886	.	.	-1	NEDD4	HGNC	7727	protein_coding	YES	CCDS10156.1	ENSP00000345530	NEDD4_HUMAN	.	UPI00001418FE	.	deleterious(0)	probably_damaging(0.937)	15/22	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF282,Pfam_domain:PF00632,Gene3D:1c4zA02,SMART_domains:SM00119,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCTATGA	.	5	BLCA
RNF111	0	.	GRCh37	15	59387110	59387110	+	3'UTR	SNP	C	C	A	rs189017652	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11C>A	.	.	ENST00000559209	14/14	169	129	40	141	141	0	RNF111,3_prime_UTR_variant,,ENST00000434298,;RNF111,3_prime_UTR_variant,,ENST00000561186,;RNF111,3_prime_UTR_variant,,ENST00000557998,;RNF111,3_prime_UTR_variant,,ENST00000348370,;RNF111,3_prime_UTR_variant,,ENST00000559209,;RNF111,non_coding_transcript_exon_variant,,ENST00000560080,;RNF111,non_coding_transcript_exon_variant,,ENST00000560952,;RNF111,downstream_gene_variant,,ENST00000560216,;	A	ENSG00000157450	ENST00000559209	Transcript	3_prime_UTR_variant	3135	.	.	.	.	rs189017652	.	.	1	RNF111	HGNC	17384	protein_coding	YES	CCDS58365.1	ENSP00000453872	RN111_HUMAN	H0YKS2_HUMAN	UPI0000EE4EBD	.	.	.	14/14	.	.	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	G:0.0002	G:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCAGAAC	byCluster|by1000G	5	BLCA
SPG21	0	.	GRCh37	15	65255979	65255979	+	Silent	SNP	G	G	A	rs367966974	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.909C>T	p.%3D	p.I303I	ENST00000204566	9/9	187	134	53	185	185	0	SPG21,synonymous_variant,p.%3D,ENST00000433215,;SPG21,synonymous_variant,p.%3D,ENST00000204566,;SPG21,synonymous_variant,p.%3D,ENST00000559199,;SPG21,synonymous_variant,p.%3D,ENST00000416889,;ANKDD1A,downstream_gene_variant,,ENST00000380230,;ANKDD1A,downstream_gene_variant,,ENST00000357698,;SPG21,3_prime_UTR_variant,,ENST00000561078,;ANKDD1A,downstream_gene_variant,,ENST00000487867,;	A	ENSG00000090487	ENST00000204566	Transcript	synonymous_variant	1205	909	303	I	atC/atT	rs367966974,COSM416865	.	.	-1	SPG21	HGNC	20373	protein_coding	YES	CCDS10198.1	ENSP00000204566	SPG21_HUMAN	H3BRR0_HUMAN,H0YML6_HUMAN,H0YMB7_HUMAN,H0YLW1_HUMAN,H0YLT5_HUMAN,H0YLD7_HUMAN,H0YKB0_HUMAN	UPI0000074012	.	.	.	9/9	.	hmmpanther:PTHR15913:SF0,hmmpanther:PTHR15913	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGATGCC	byCluster	5	BLCA
VWA9	0	.	GRCh37	15	65871820	65871820	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312G>C	p.Glu438Gln	p.E438Q	ENST00000420799	11/11	176	138	38	174	174	0	VWA9,missense_variant,p.Glu459Gln,ENST00000442903,;VWA9,missense_variant,p.Glu531Gln,ENST00000567744,;VWA9,missense_variant,p.Glu495Gln,ENST00000395644,;VWA9,missense_variant,p.Glu438Gln,ENST00000420799,;VWA9,missense_variant,p.Glu495Gln,ENST00000313182,;VWA9,missense_variant,p.Glu416Gln,ENST00000431261,;VWA9,missense_variant,p.Glu445Gln,ENST00000569491,;PTPLAD1,downstream_gene_variant,,ENST00000569894,;PTPLAD1,downstream_gene_variant,,ENST00000261875,;PTPLAD1,downstream_gene_variant,,ENST00000568793,;PTPLAD1,downstream_gene_variant,,ENST00000562901,;PTPLAD1,downstream_gene_variant,,ENST00000442729,;PTPLAD1,downstream_gene_variant,,ENST00000565299,;PTPLAD1,downstream_gene_variant,,ENST00000566074,;PTPLAD1,downstream_gene_variant,,ENST00000566511,;PTPLAD1,downstream_gene_variant,,ENST00000561763,;VWA9,3_prime_UTR_variant,,ENST00000573314,;	G	ENSG00000138614	ENST00000420799	Transcript	missense_variant	1406	1312	438	E/Q	Gag/Cag	COSM416861	.	.	-1	VWA9	HGNC	25372	protein_coding	YES	CCDS55969.1	ENSP00000408429	VWA9_HUMAN	H3BN95_HUMAN	UPI00017A6CFD	.	tolerated(0.28)	benign(0.007)	11/11	.	hmmpanther:PTHR13532	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTCAGAGG	.	5	BLCA
RAB11A	0	.	GRCh37	15	66161846	66161846	+	5'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-78C>G	.	.	ENST00000261890	1/5	61	49	12	54	54	0	RAB11A,5_prime_UTR_variant,,ENST00000261890,;RAB11A,5_prime_UTR_variant,,ENST00000564910,;RAB11A,5_prime_UTR_variant,,ENST00000435304,;RAB11A,5_prime_UTR_variant,,ENST00000565075,;RAB11A,5_prime_UTR_variant,,ENST00000566233,;RAB11A,upstream_gene_variant,,ENST00000567671,;RAB11A,upstream_gene_variant,,ENST00000569896,;RAB11A,intron_variant,,ENST00000569304,;RAB11A,intron_variant,,ENST00000568850,;	G	ENSG00000103769	ENST00000261890	Transcript	5_prime_UTR_variant	51	.	.	.	.	.	.	.	1	RAB11A	HGNC	9760	protein_coding	YES	CCDS10212.1	ENSP00000261890	RB11A_HUMAN	H3BN38_HUMAN	UPI0000029ED1	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGCTCGGGTT	.	2	BLCA
HCN4	0	.	GRCh37	15	73660074	73660074	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>A	p.Glu180Lys	p.E180K	ENST00000261917	1/8	19	14	5	15	15	0	HCN4,missense_variant,p.Glu180Lys,ENST00000261917,;	T	ENSG00000138622	ENST00000261917	Transcript	missense_variant	1532	538	180	E/K	Gag/Aag	COSM416833	.	.	-1	HCN4	HGNC	16882	protein_coding	YES	CCDS10248.1	ENSP00000261917	HCN4_HUMAN	.	UPI000003FFB5	.	tolerated_low_confidence(0.43)	unknown(0)	1/8	.	hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF375	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CTGCTCGCAGG	.	3	BLCA
TM6SF1	0	.	GRCh37	15	83776476	83776476	+	Missense_Mutation	SNP	C	C	G	rs780558833	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44C>G	p.Ser15Trp	p.S15W	ENST00000322019	1/10	33	28	5	12	12	0	TM6SF1,missense_variant,p.Ser15Trp,ENST00000379386,;TM6SF1,missense_variant,p.Ser15Trp,ENST00000322019,;TM6SF1,missense_variant,p.Ser15Trp,ENST00000379390,;TM6SF1,missense_variant,p.Ser15Trp,ENST00000565774,;TM6SF1,5_prime_UTR_variant,,ENST00000565982,;RP11-382A20.5,downstream_gene_variant,,ENST00000566841,;TM6SF1,non_coding_transcript_exon_variant,,ENST00000564988,;TM6SF1,missense_variant,p.Ser15Trp,ENST00000258909,;TM6SF1,missense_variant,p.Ser15Trp,ENST00000379384,;	G	ENSG00000136404	ENST00000322019	Transcript	missense_variant	318	44	15	S/W	tCg/tGg	rs780558833,COSM3794466,COSM416787	.	.	1	TM6SF1	HGNC	11860	protein_coding	YES	CCDS10323.1	ENSP00000317000	TM6S1_HUMAN	H3BM84_HUMAN,E9PD04_HUMAN	UPI0000039EA7	.	tolerated(0.09)	possibly_damaging(0.735)	1/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14568,hmmpanther:PTHR14568:SF10	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCGGCCA	byFrequency	4	BLCA
ZSCAN2	0	.	GRCh37	15	85159706	85159706	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.407-4127C>G	.	.	ENST00000448803	.	18	13	5	14	14	0	ZSCAN2,3_prime_UTR_variant,,ENST00000379358,;ZSCAN2,intron_variant,,ENST00000546148,;ZSCAN2,intron_variant,,ENST00000448803,;ZSCAN2,intron_variant,,ENST00000538076,;ZSCAN2,intron_variant,,ENST00000358472,;ZSCAN2,intron_variant,,ENST00000540936,;ZSCAN2,intron_variant,,ENST00000485222,;ZSCAN2,intron_variant,,ENST00000327179,;ZSCAN2,intron_variant,,ENST00000541040,;RP11-182J1.5,upstream_gene_variant,,ENST00000542197,;ZSCAN2,intron_variant,,ENST00000540894,;	G	ENSG00000176371	ENST00000448803	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ZSCAN2	HGNC	20994	protein_coding	YES	CCDS10329.2	ENSP00000410198	ZSCA2_HUMAN	F8W6Y9_HUMAN,F5H789_HUMAN,F5H2D8_HUMAN,F5H1K4_HUMAN	UPI000021D4BC	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GGGCTCTCCAT	.	3	BLCA
ACAN	0	.	GRCh37	15	89398115	89398115	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2299G>A	p.Ala767Thr	p.A767T	ENST00000439576	12/18	24	21	3	19	19	0	ACAN,missense_variant,p.Ala767Thr,ENST00000559004,;ACAN,missense_variant,p.Ala767Thr,ENST00000439576,;ACAN,missense_variant,p.Ala767Thr,ENST00000561243,;ACAN,missense_variant,p.Ala767Thr,ENST00000352105,;ACAN,upstream_gene_variant,,ENST00000560601,;ACAN,downstream_gene_variant,,ENST00000558207,;	A	ENSG00000157766	ENST00000439576	Transcript	missense_variant	2673	2299	767	A/T	Gca/Aca	COSM416777,COSM416778	.	.	1	ACAN	HGNC	319	protein_coding	YES	CCDS53970.1	ENSP00000387356	.	Q6LE94_HUMAN,E7EX88_HUMAN	UPI0001B23381	.	tolerated(0.36)	benign(0.01)	12/18	.	hmmpanther:PTHR22804:SF42,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCGCAGCAACA	.	2	BLCA
CRTC3	0	.	GRCh37	15	91083274	91083274	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136C>G	p.Gln46Glu	p.Q46E	ENST00000268184	2/15	80	53	26	66	66	0	CRTC3,missense_variant,p.Gln46Glu,ENST00000268184,;CRTC3,missense_variant,p.Gln46Glu,ENST00000560098,;CRTC3,missense_variant,p.Gln46Glu,ENST00000420329,;CRTC3,non_coding_transcript_exon_variant,,ENST00000558619,;CRTC3,non_coding_transcript_exon_variant,,ENST00000561218,;CRTC3,non_coding_transcript_exon_variant,,ENST00000560927,;	G	ENSG00000140577	ENST00000268184	Transcript	missense_variant	140	136	46	Q/E	Caa/Gaa	COSM416762	.	.	1	CRTC3	HGNC	26148	protein_coding	YES	CCDS32331.1	ENSP00000268184	CRTC3_HUMAN	.	UPI00001FEB98	.	deleterious(0.02)	benign(0.153)	2/15	.	Pfam_domain:PF12884,hmmpanther:PTHR13589,hmmpanther:PTHR13589:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCAATTT	.	5	BLCA
FURIN	0	.	GRCh37	15	91424753	91424753	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2030G>A	p.Arg677Gln	p.R677Q	ENST00000268171	16/16	32	27	4	48	48	0	FURIN,missense_variant,p.Arg677Gln,ENST00000268171,;FES,upstream_gene_variant,,ENST00000443697,;FES,upstream_gene_variant,,ENST00000559355,;FES,upstream_gene_variant,,ENST00000450438,;FES,upstream_gene_variant,,ENST00000394300,;FES,upstream_gene_variant,,ENST00000414248,;FES,upstream_gene_variant,,ENST00000416779,;FES,upstream_gene_variant,,ENST00000452243,;FES,upstream_gene_variant,,ENST00000394302,;FURIN,downstream_gene_variant,,ENST00000560824,;FES,upstream_gene_variant,,ENST00000328850,;FES,upstream_gene_variant,,ENST00000444422,;FURIN,downstream_gene_variant,,ENST00000560018,;FURIN,downstream_gene_variant,,ENST00000558794,;FES,upstream_gene_variant,,ENST00000464684,;FES,upstream_gene_variant,,ENST00000497945,;FES,upstream_gene_variant,,ENST00000470152,;FES,upstream_gene_variant,,ENST00000481665,;	A	ENSG00000140564	ENST00000268171	Transcript	missense_variant	2309	2030	677	R/Q	cGg/cAg	COSM416761	.	.	1	FURIN	HGNC	8568	protein_coding	YES	CCDS10364.1	ENSP00000268171	FURIN_HUMAN	H0YNB5_HUMAN,H0YKB2_HUMAN	UPI0000000CC7	.	tolerated(0.24)	benign(0)	16/16	.	Low_complexity_(Seg):seg,SMART_domains:SM00261,hmmpanther:PTHR10795:SF325,hmmpanther:PTHR10795	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCCGGCAAA	.	4	BLCA
RSL1D1	0	.	GRCh37	16	11940562	11940562	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.523C>G	p.Gln175Glu	p.Q175E	ENST00000571133	4/9	364	278	85	350	350	0	RSL1D1,missense_variant,p.Gln175Glu,ENST00000573251,;RSL1D1,missense_variant,p.Gln141Glu,ENST00000571988,;RSL1D1,missense_variant,p.Gln175Glu,ENST00000355674,;RSL1D1,missense_variant,p.Gln175Glu,ENST00000571133,;RSL1D1,5_prime_UTR_variant,,ENST00000542106,;RSL1D1,downstream_gene_variant,,ENST00000573791,;RP11-166B2.8,upstream_gene_variant,,ENST00000574364,;RSL1D1,3_prime_UTR_variant,,ENST00000572090,;RSL1D1,3_prime_UTR_variant,,ENST00000570767,;RSL1D1,3_prime_UTR_variant,,ENST00000396503,;RSL1D1,intron_variant,,ENST00000573618,;RSL1D1,intron_variant,,ENST00000573029,;RSL1D1,downstream_gene_variant,,ENST00000574287,;RSL1D1,upstream_gene_variant,,ENST00000574823,;	C	ENSG00000171490	ENST00000571133	Transcript	missense_variant	596	523	175	Q/E	Caa/Gaa	COSM416741	.	.	-1	RSL1D1	HGNC	24534	protein_coding	YES	CCDS10551.1	ENSP00000460871	RL1D1_HUMAN	I3L234_HUMAN,B4DJ58_HUMAN	UPI000007374D	.	tolerated(0.73)	benign(0.038)	4/9	.	hmmpanther:PTHR23105,hmmpanther:PTHR23105:SF5,Gene3D:3.30.190.20,Pfam_domain:PF00687,Superfamily_domains:SSF56808	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTGATAGA	.	5	BLCA
MAPK8IP3	0	.	GRCh37	16	1756554	1756554	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>A	p.Glu72Lys	p.E72K	ENST00000250894	1/32	34	22	12	24	24	0	MAPK8IP3,missense_variant,p.Glu72Lys,ENST00000250894,;MAPK8IP3,missense_variant,p.Glu72Lys,ENST00000356010,;HN1L,downstream_gene_variant,,ENST00000248098,;HN1L,downstream_gene_variant,,ENST00000562569,;MAPK8IP3,non_coding_transcript_exon_variant,,ENST00000561765,;MAPK8IP3,non_coding_transcript_exon_variant,,ENST00000564098,;	A	ENSG00000138834	ENST00000250894	Transcript	missense_variant	371	214	72	E/K	Gag/Aag	COSM416726	.	.	1	MAPK8IP3	HGNC	6884	protein_coding	YES	CCDS10442.2	ENSP00000250894	JIP3_HUMAN	.	UPI000034ECA7	.	deleterious(0.02)	possibly_damaging(0.705)	1/32	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13886,hmmpanther:PTHR13886:SF3,Pfam_domain:PF09744	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGCGAGAAC	.	5	BLCA
PKD1	0	.	GRCh37	16	2159441	2159441	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5727C>T	p.%3D	p.I1909I	ENST00000262304	15/46	39	31	8	33	33	0	PKD1,synonymous_variant,p.%3D,ENST00000262304,;PKD1,synonymous_variant,p.%3D,ENST00000423118,;PKD1,intron_variant,,ENST00000483024,;PKD1,intron_variant,,ENST00000488185,;PKD1,upstream_gene_variant,,ENST00000567946,;RP11-304L19.4,upstream_gene_variant,,ENST00000568795,;PKD1,intron_variant,,ENST00000468674,;PKD1,upstream_gene_variant,,ENST00000564865,;PKD1,upstream_gene_variant,,ENST00000483558,;PKD1,upstream_gene_variant,,ENST00000473780,;PKD1,upstream_gene_variant,,ENST00000561991,;PKD1,synonymous_variant,p.%3D,ENST00000487932,;PKD1,intron_variant,,ENST00000568591,;PKD1,intron_variant,,ENST00000565639,;PKD1,intron_variant,,ENST00000415938,;PKD1,intron_variant,,ENST00000483731,;PKD1,intron_variant,,ENST00000569983,;PKD1,upstream_gene_variant,,ENST00000486339,;PKD1,upstream_gene_variant,,ENST00000496574,;PKD1,downstream_gene_variant,,ENST00000469241,;PKD1,upstream_gene_variant,,ENST00000564890,;	A	ENSG00000008710	ENST00000262304	Transcript	synonymous_variant	5936	5727	1909	I	atC/atT	COSM417110	.	.	-1	PKD1	HGNC	9008	protein_coding	YES	CCDS32369.1	ENSP00000262304	PKD1_HUMAN	O75276_HUMAN	UPI00001B0454	.	.	.	15/46	.	hmmpanther:PTHR10877:SF123,hmmpanther:PTHR10877,Gene3D:2.60.40.670,TIGRFAM_domain:TIGR00864,Pfam_domain:PF00801,SMART_domains:SM00089,Superfamily_domains:SSF49299	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGGATCTG	.	5	BLCA
EARS2	0	.	GRCh37	16	23543988	23543988	+	Missense_Mutation	SNP	C	C	T	rs769302477	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057G>A	p.Glu353Lys	p.E353K	ENST00000449606	5/9	66	50	15	59	58	0	EARS2,missense_variant,p.Glu353Lys,ENST00000563232,;EARS2,missense_variant,p.Glu353Lys,ENST00000563459,;EARS2,missense_variant,p.Glu353Lys,ENST00000449606,;EARS2,missense_variant,p.Glu353Lys,ENST00000564501,;EARS2,non_coding_transcript_exon_variant,,ENST00000564987,;EARS2,downstream_gene_variant,,ENST00000566017,;EARS2,non_coding_transcript_exon_variant,,ENST00000565344,;EARS2,downstream_gene_variant,,ENST00000562402,;EARS2,downstream_gene_variant,,ENST00000564668,;SUB1P4,upstream_gene_variant,,ENST00000566062,;	T	ENSG00000103356	ENST00000449606	Transcript	missense_variant	1089	1057	353	E/K	Gaa/Aaa	rs769302477,COSM417102	.	.	-1	EARS2	HGNC	29419	protein_coding	YES	CCDS42132.1	ENSP00000395196	SYEM_HUMAN	.	UPI000015FBF2	.	deleterious(0)	probably_damaging(0.981)	5/9	.	HAMAP:MF_00022_B,hmmpanther:PTHR10119,hmmpanther:PTHR10119:SF1,TIGRFAM_domain:TIGR00464,Gene3D:1.10.1160.10,Superfamily_domains:SSF48163	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTCTGGGA	.	5	BLCA
DCTN5	0	.	GRCh37	16	23669929	23669929	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.219C>G	p.Phe73Leu	p.F73L	ENST00000300087	3/6	158	119	38	138	138	0	DCTN5,missense_variant,p.Phe31Leu,ENST00000566298,;DCTN5,missense_variant,p.Phe73Leu,ENST00000568589,;DCTN5,missense_variant,p.Phe73Leu,ENST00000300087,;DCTN5,missense_variant,p.Phe73Leu,ENST00000563998,;DCTN5,3_prime_UTR_variant,,ENST00000563188,;DCTN5,intron_variant,,ENST00000566053,;	G	ENSG00000166847	ENST00000300087	Transcript	missense_variant	370	219	73	F/L	ttC/ttG	COSM417098	.	.	1	DCTN5	HGNC	24594	protein_coding	YES	CCDS10615.1	ENSP00000300087	DCTN5_HUMAN	I3L0U8_HUMAN	UPI0000049C1E	.	tolerated(0.4)	benign(0.013)	3/6	.	hmmpanther:PTHR13061,hmmpanther:PTHR13061:SF5,Gene3D:2.160.10.10,Superfamily_domains:SSF51161	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCAAGAA	.	5	BLCA
ERN2	0	.	GRCh37	16	23706204	23706204	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2089G>C	p.Asp697His	p.D697H	ENST00000256797	17/22	66	52	14	76	76	0	ERN2,missense_variant,p.Asp597His,ENST00000457008,;ERN2,missense_variant,p.Asp697His,ENST00000256797,;PLK1,downstream_gene_variant,,ENST00000300093,;ERN2,upstream_gene_variant,,ENST00000562458,;ERN2,3_prime_UTR_variant,,ENST00000562562,;PLK1,downstream_gene_variant,,ENST00000564794,;PLK1,downstream_gene_variant,,ENST00000562272,;	G	ENSG00000134398	ENST00000256797	Transcript	missense_variant	2258	2089	697	D/H	Gac/Cac	COSM417096	.	.	-1	ERN2	HGNC	16942	protein_coding	YES	CCDS32407.1	ENSP00000256797	ERN2_HUMAN	.	UPI000041A8F8	.	deleterious(0.01)	probably_damaging(0.957)	17/22	.	PROSITE_profiles:PS50011,hmmpanther:PTHR13954:SF9,hmmpanther:PTHR13954,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGTCAGGCC	.	5	BLCA
AMDHD2	0	.	GRCh37	16	2570863	2570863	+	Silent	SNP	G	G	A	rs779288072	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177G>A	p.%3D	p.G59G	ENST00000413459	2/11	51	45	6	41	41	0	AMDHD2,synonymous_variant,p.%3D,ENST00000293971,;AMDHD2,synonymous_variant,p.%3D,ENST00000569879,;AMDHD2,synonymous_variant,p.%3D,ENST00000566706,;AMDHD2,synonymous_variant,p.%3D,ENST00000563556,;AMDHD2,synonymous_variant,p.%3D,ENST00000302956,;AMDHD2,synonymous_variant,p.%3D,ENST00000413459,;ATP6C,intron_variant,,ENST00000569317,;AMDHD2,intron_variant,,ENST00000568263,;RP11-20I23.1,downstream_gene_variant,,ENST00000564543,;ATP6V0C,downstream_gene_variant,,ENST00000568562,;ATP6V0C,downstream_gene_variant,,ENST00000565223,;ATP6V0C,downstream_gene_variant,,ENST00000330398,;ATP6V0C,downstream_gene_variant,,ENST00000564973,;AMDHD2,synonymous_variant,p.%3D,ENST00000563633,;AMDHD2,non_coding_transcript_exon_variant,,ENST00000565963,;AMDHD2,non_coding_transcript_exon_variant,,ENST00000567475,;AMDHD2,non_coding_transcript_exon_variant,,ENST00000569219,;	A	ENSG00000162066	ENST00000413459	Transcript	synonymous_variant	246	177	59	G	ggG/ggA	rs779288072,COSM417083	.	.	1	AMDHD2	HGNC	24262	protein_coding	YES	CCDS53984.1	ENSP00000391596	NAGA_HUMAN	H3BTE3_HUMAN	UPI00017A73A4	.	.	.	2/11	.	Superfamily_domains:SSF51338,Gene3D:2.30.40.10,Pfam_domain:PF13594,hmmpanther:PTHR11113:SF1,hmmpanther:PTHR11113	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCGGGGGCCG	byFrequency|byCluster	2	BLCA
SEZ6L2	0	.	GRCh37	16	29883590	29883590	+	Missense_Mutation	SNP	G	G	A	rs781464322	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2621C>T	p.Ser874Phe	p.S874F	ENST00000308713	16/17	71	59	12	66	66	0	SEZ6L2,missense_variant,p.Ser874Phe,ENST00000308713,;SEZ6L2,missense_variant,p.Ser817Phe,ENST00000350527,;SEZ6L2,missense_variant,p.Ser773Phe,ENST00000346932,;SEZ6L2,missense_variant,p.Ser843Phe,ENST00000537485,;SEZ6L2,downstream_gene_variant,,ENST00000563118,;CDIPT-AS1,downstream_gene_variant,,ENST00000398859,;CDIPT-AS1,downstream_gene_variant,,ENST00000565014,;SEZ6L2,downstream_gene_variant,,ENST00000568407,;	A	ENSG00000174938	ENST00000308713	Transcript	missense_variant	3149	2621	874	S/F	tCc/tTc	rs781464322,COSM417056,COSM1133474	.	.	-1	SEZ6L2	HGNC	30844	protein_coding	YES	CCDS10659.1	ENSP00000312550	SE6L2_HUMAN	B3KNF3_HUMAN	UPI0000366B1B	.	tolerated(0.06)	benign(0.002)	16/17	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGGGACTTT	.	5	BLCA
INO80E	0	.	GRCh37	16	30007709	30007709	+	Silent	SNP	C	C	T	rs749965250	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78C>T	p.%3D	p.I26I	ENST00000563197	1/7	16	11	5	10	10	0	INO80E,synonymous_variant,p.%3D,ENST00000563197,;INO80E,synonymous_variant,p.%3D,ENST00000567254,;INO80E,synonymous_variant,p.%3D,ENST00000304516,;INO80E,synonymous_variant,p.%3D,ENST00000567705,;HIRIP3,5_prime_UTR_variant,,ENST00000279392,;HIRIP3,upstream_gene_variant,,ENST00000564026,;INO80E,upstream_gene_variant,,ENST00000562291,;TAOK2,downstream_gene_variant,,ENST00000279394,;INO80E,non_coding_transcript_exon_variant,,ENST00000563040,;HIRIP3,upstream_gene_variant,,ENST00000566471,;INO80E,synonymous_variant,p.%3D,ENST00000567987,;INO80E,synonymous_variant,p.%3D,ENST00000567065,;INO80E,synonymous_variant,p.%3D,ENST00000562441,;INO80E,non_coding_transcript_exon_variant,,ENST00000568043,;INO80E,non_coding_transcript_exon_variant,,ENST00000540562,;INO80E,non_coding_transcript_exon_variant,,ENST00000569957,;INO80E,non_coding_transcript_exon_variant,,ENST00000380503,;HIRIP3,upstream_gene_variant,,ENST00000563680,;HIRIP3,upstream_gene_variant,,ENST00000563053,;HIRIP3,upstream_gene_variant,,ENST00000568880,;TAOK2,downstream_gene_variant,,ENST00000570844,;HIRIP3,upstream_gene_variant,,ENST00000565996,;	T	ENSG00000169592	ENST00000563197	Transcript	synonymous_variant	1095	78	26	I	atC/atT	rs749965250	.	.	1	INO80E	HGNC	26905	protein_coding	YES	CCDS10665.1	ENSP00000457016	IN80E_HUMAN	.	UPI000000DC3E	.	.	.	1/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21812	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCTACGT	byFrequency	4	BLCA
FUS	0	.	GRCh37	16	31195651	31195651	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457C>T	p.Gln153Ter	p.Q153*	ENST00000254108	5/15	144	111	33	137	137	0	FUS,stop_gained,p.Gln152Ter,ENST00000380244,;FUS,stop_gained,p.Gln153Ter,ENST00000254108,;FUS,stop_gained,p.Gln153Ter,ENST00000568685,;RP11-388M20.6,upstream_gene_variant,,ENST00000564743,;FUS,upstream_gene_variant,,ENST00000474990,;FUS,stop_gained,p.Gln153Ter,ENST00000566605,;FUS,non_coding_transcript_exon_variant,,ENST00000487974,;FUS,non_coding_transcript_exon_variant,,ENST00000487509,;FUS,upstream_gene_variant,,ENST00000568901,;FUS,upstream_gene_variant,,ENST00000564766,;FUS,upstream_gene_variant,,ENST00000570090,;FUS,downstream_gene_variant,,ENST00000487045,;	T	ENSG00000089280	ENST00000254108	Transcript	stop_gained	562	457	153	Q/*	Cag/Tag	COSM417032	.	.	1	FUS	HGNC	4010	protein_coding	YES	CCDS10707.1	ENSP00000254108	FUS_HUMAN	Q6IBQ5_HUMAN	UPI000012AD9A	.	.	.	5/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23238:SF5,hmmpanther:PTHR23238	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCTCAGGGC	.	4	BLCA
PYDC1	0	.	GRCh37	16	31228069	31228069	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11G>A	.	.	ENST00000302964	1/2	110	90	20	115	115	0	PYDC1,3_prime_UTR_variant,,ENST00000302964,;TRIM72,intron_variant,,ENST00000322122,;PYDC1,upstream_gene_variant,,ENST00000568383,;	T	ENSG00000169900	ENST00000302964	Transcript	3_prime_UTR_variant	612	.	.	.	.	.	.	.	-1	PYDC1	HGNC	30261	protein_coding	YES	CCDS10710.1	ENSP00000304336	PYDC1_HUMAN	.	UPI0000034E14	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCAGAGT	.	4	BLCA
ZNF200	0	.	GRCh37	16	3273910	3273910	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1170G>C	p.Lys390Asn	p.K390N	ENST00000431561	5/5	398	327	71	400	400	0	ZNF200,missense_variant,p.Lys390Asn,ENST00000414144,;ZNF200,missense_variant,p.Lys389Asn,ENST00000575948,;ZNF200,missense_variant,p.Lys390Asn,ENST00000431561,;ZNF200,missense_variant,p.Lys389Asn,ENST00000396870,;ZNF200,missense_variant,p.Lys389Asn,ENST00000396868,;ZNF200,missense_variant,p.Lys389Asn,ENST00000396871,;AJ003147.9,intron_variant,,ENST00000576468,;ZNF200,non_coding_transcript_exon_variant,,ENST00000575285,;	G	ENSG00000010539	ENST00000431561	Transcript	missense_variant	1783	1170	390	K/N	aaG/aaC	COSM417026	.	.	-1	ZNF200	HGNC	12993	protein_coding	YES	CCDS10497.1	ENSP00000395723	ZN200_HUMAN	I3L1E4_HUMAN	UPI00001D89D6	.	deleterious(0.01)	possibly_damaging(0.617)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR26374,hmmpanther:PTHR26374:SF156	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGGGTCTTACA	.	3	BLCA
ZNF200	0	.	GRCh37	16	3273931	3273931	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1149G>C	p.Glu383Asp	p.E383D	ENST00000431561	5/5	452	379	72	473	473	0	ZNF200,missense_variant,p.Glu383Asp,ENST00000414144,;ZNF200,missense_variant,p.Glu382Asp,ENST00000575948,;ZNF200,missense_variant,p.Glu383Asp,ENST00000431561,;ZNF200,missense_variant,p.Glu382Asp,ENST00000396870,;ZNF200,missense_variant,p.Glu382Asp,ENST00000396868,;ZNF200,missense_variant,p.Glu382Asp,ENST00000396871,;AJ003147.9,intron_variant,,ENST00000576468,;ZNF200,non_coding_transcript_exon_variant,,ENST00000575285,;	G	ENSG00000010539	ENST00000431561	Transcript	missense_variant	1762	1149	383	E/D	gaG/gaC	COSM417025	.	.	-1	ZNF200	HGNC	12993	protein_coding	YES	CCDS10497.1	ENSP00000395723	ZN200_HUMAN	I3L1E4_HUMAN	UPI00001D89D6	.	deleterious(0.01)	possibly_damaging(0.886)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR26374,hmmpanther:PTHR26374:SF156,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13894,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTTTTCTCATG	.	3	BLCA
ZNF200	0	.	GRCh37	16	3273959	3273959	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1121G>C	p.Gly374Ala	p.G374A	ENST00000431561	5/5	532	458	74	558	558	0	ZNF200,missense_variant,p.Gly374Ala,ENST00000414144,;ZNF200,missense_variant,p.Gly373Ala,ENST00000575948,;ZNF200,missense_variant,p.Gly374Ala,ENST00000431561,;ZNF200,missense_variant,p.Gly373Ala,ENST00000396870,;ZNF200,missense_variant,p.Gly373Ala,ENST00000396868,;ZNF200,missense_variant,p.Gly373Ala,ENST00000396871,;AJ003147.9,intron_variant,,ENST00000576468,;ZNF200,non_coding_transcript_exon_variant,,ENST00000575285,;	G	ENSG00000010539	ENST00000431561	Transcript	missense_variant	1734	1121	374	G/A	gGt/gCt	COSM417024	.	.	-1	ZNF200	HGNC	12993	protein_coding	YES	CCDS10497.1	ENSP00000395723	ZN200_HUMAN	I3L1E4_HUMAN	UPI00001D89D6	.	deleterious(0.05)	possibly_damaging(0.802)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR26374,hmmpanther:PTHR26374:SF156,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13894,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCGACCAAAT	.	3	BLCA
ZNF200	0	.	GRCh37	16	3273997	3273997	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1083G>A	p.%3D	p.E361E	ENST00000431561	5/5	539	442	97	555	555	0	ZNF200,synonymous_variant,p.%3D,ENST00000414144,;ZNF200,synonymous_variant,p.%3D,ENST00000575948,;ZNF200,synonymous_variant,p.%3D,ENST00000431561,;ZNF200,synonymous_variant,p.%3D,ENST00000396870,;ZNF200,synonymous_variant,p.%3D,ENST00000396868,;ZNF200,synonymous_variant,p.%3D,ENST00000396871,;AJ003147.9,intron_variant,,ENST00000576468,;ZNF200,non_coding_transcript_exon_variant,,ENST00000575285,;	T	ENSG00000010539	ENST00000431561	Transcript	synonymous_variant	1696	1083	361	E	gaG/gaA	COSM417023	.	.	-1	ZNF200	HGNC	12993	protein_coding	YES	CCDS10497.1	ENSP00000395723	ZN200_HUMAN	I3L1E4_HUMAN	UPI00001D89D6	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR26374,hmmpanther:PTHR26374:SF156,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGTCTCTCAGC	.	3	BLCA
ZNF263	0	.	GRCh37	16	3339455	3339455	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949C>T	p.Gln317Ter	p.Q317*	ENST00000219069	6/6	223	175	48	219	219	0	ZNF263,stop_gained,p.Gln317Ter,ENST00000219069,;ZNF263,synonymous_variant,p.%3D,ENST00000574253,;ZNF263,5_prime_UTR_variant,,ENST00000538765,;ZNF263,3_prime_UTR_variant,,ENST00000575823,;ZNF263,downstream_gene_variant,,ENST00000573578,;ZNF263,downstream_gene_variant,,ENST00000572748,;ZNF263,upstream_gene_variant,,ENST00000574674,;ZNF263,upstream_gene_variant,,ENST00000575332,;	T	ENSG00000006194	ENST00000219069	Transcript	stop_gained	1825	949	317	Q/*	Cag/Tag	COSM417021	.	.	1	ZNF263	HGNC	13056	protein_coding	YES	CCDS10499.1	ENSP00000219069	ZN263_HUMAN	B4DI05_HUMAN	UPI000013C33A	.	.	.	6/6	.	hmmpanther:PTHR23226:SF50,hmmpanther:PTHR23226	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCAGGTG	.	5	BLCA
SLX4	0	.	GRCh37	16	3656547	3656547	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688G>A	p.Glu230Lys	p.E230K	ENST00000294008	3/15	363	280	83	358	358	0	SLX4,missense_variant,p.Glu230Lys,ENST00000294008,;SLX4,non_coding_transcript_exon_variant,,ENST00000486524,;SLX4,non_coding_transcript_exon_variant,,ENST00000466154,;	T	ENSG00000188827	ENST00000294008	Transcript	missense_variant	1329	688	230	E/K	Gag/Aag	COSM417012	.	.	-1	SLX4	HGNC	23845	protein_coding	YES	CCDS10506.2	ENSP00000294008	SLX4_HUMAN	.	UPI000050D2C5	.	tolerated(0.61)	benign(0.114)	3/15	.	hmmpanther:PTHR21541	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCTTCTG	.	5	BLCA
GLIS2	0	.	GRCh37	16	4382347	4382347	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66G>C	p.Glu22Asp	p.E22D	ENST00000262366	3/8	59	46	12	75	75	0	GLIS2,missense_variant,p.Glu22Asp,ENST00000262366,;GLIS2,missense_variant,p.Glu22Asp,ENST00000433375,;PAM16,intron_variant,,ENST00000577031,;AC005356.1,upstream_gene_variant,,ENST00000576080,;RP11-295D4.1,downstream_gene_variant,,ENST00000574705,;	C	ENSG00000126603	ENST00000262366	Transcript	missense_variant	887	66	22	E/D	gaG/gaC	COSM417006	.	.	1	GLIS2	HGNC	29450	protein_coding	YES	CCDS10511.1	ENSP00000262366	GLIS2_HUMAN	B3KTH4_HUMAN	UPI000013D29C	.	tolerated(0.31)	benign(0.424)	3/8	.	hmmpanther:PTHR19818:SF11,hmmpanther:PTHR19818	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAGAAGCG	.	5	BLCA
CORO7	0	.	GRCh37	16	4412079	4412079	+	Silent	SNP	G	G	A	rs775535940	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1485C>T	p.%3D	p.L495L	ENST00000251166	16/28	70	53	17	70	70	0	CORO7,synonymous_variant,p.%3D,ENST00000539968,;CORO7,synonymous_variant,p.%3D,ENST00000574025,;CORO7-PAM16,synonymous_variant,p.%3D,ENST00000572467,;CORO7,synonymous_variant,p.%3D,ENST00000423908,;CORO7,synonymous_variant,p.%3D,ENST00000537233,;CORO7,synonymous_variant,p.%3D,ENST00000251166,;CORO7,upstream_gene_variant,,ENST00000570779,;CORO7,downstream_gene_variant,,ENST00000572044,;CORO7,downstream_gene_variant,,ENST00000572549,;CORO7-PAM16,upstream_gene_variant,,ENST00000572274,;CORO7,missense_variant,p.Ser57Leu,ENST00000576437,;CORO7-PAM16,synonymous_variant,p.%3D,ENST00000575334,;CORO7,synonymous_variant,p.%3D,ENST00000574311,;CORO7,3_prime_UTR_variant,,ENST00000571756,;CORO7,3_prime_UTR_variant,,ENST00000571227,;CORO7,non_coding_transcript_exon_variant,,ENST00000575714,;CORO7,non_coding_transcript_exon_variant,,ENST00000573773,;CORO7,non_coding_transcript_exon_variant,,ENST00000575531,;CORO7,upstream_gene_variant,,ENST00000572666,;CORO7,upstream_gene_variant,,ENST00000574849,;CORO7,upstream_gene_variant,,ENST00000576637,;CORO7,upstream_gene_variant,,ENST00000572125,;	A	ENSG00000262246	ENST00000251166	Transcript	synonymous_variant	1631	1485	495	L	ctC/ctT	rs775535940,COSM417005	.	.	-1	CORO7	HGNC	26161	protein_coding	YES	CCDS10513.1	ENSP00000251166	CORO7_HUMAN	I3L258_HUMAN,B3KSY4_HUMAN	UPI00001FF898	.	.	.	16/28	.	hmmpanther:PTHR10856:SF20,hmmpanther:PTHR10856	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTGAGGTT	byFrequency	5	BLCA
PPL	0	.	GRCh37	16	4933745	4933745	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4911G>A	p.%3D	p.Q1637Q	ENST00000345988	22/22	79	61	18	99	99	0	PPL,synonymous_variant,p.%3D,ENST00000592772,;PPL,synonymous_variant,p.%3D,ENST00000590782,;PPL,synonymous_variant,p.%3D,ENST00000345988,;UBN1,downstream_gene_variant,,ENST00000262376,;UBN1,downstream_gene_variant,,ENST00000590769,;UBN1,downstream_gene_variant,,ENST00000545171,;UBN1,downstream_gene_variant,,ENST00000396658,;UBN1,downstream_gene_variant,,ENST00000589191,;PPL,downstream_gene_variant,,ENST00000589090,;	T	ENSG00000118898	ENST00000345988	Transcript	synonymous_variant	5001	4911	1637	Q	caG/caA	COSM416992	.	.	-1	PPL	HGNC	9273	protein_coding	YES	CCDS10526.1	ENSP00000340510	PEPL_HUMAN	.	UPI00001AE832	.	.	.	22/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23169	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTTCTGCAG	.	5	BLCA
BRD7	0	.	GRCh37	16	50384019	50384019	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.506C>G	p.Ser169Cys	p.S169C	ENST00000394689	5/17	103	80	23	103	103	0	BRD7,missense_variant,p.Ser169Cys,ENST00000394688,;BRD7,missense_variant,p.Ser169Cys,ENST00000394689,;snoU13,downstream_gene_variant,,ENST00000459559,;BRD7,non_coding_transcript_exon_variant,,ENST00000475877,;BRD7,non_coding_transcript_exon_variant,,ENST00000401491,;BRD7,non_coding_transcript_exon_variant,,ENST00000567826,;	C	ENSG00000166164	ENST00000394689	Transcript	missense_variant	511	506	169	S/C	tCc/tGc	COSM416981	.	.	-1	BRD7	HGNC	14310	protein_coding	YES	CCDS54007.1	ENSP00000378181	BRD7_HUMAN	I3L4V5_HUMAN,I3L0Y7_HUMAN	UPI000013E567	.	deleterious(0)	possibly_damaging(0.743)	5/17	.	Prints_domain:PR00503,Superfamily_domains:SSF47370,SMART_domains:SM00297,Pfam_domain:PF00439,Gene3D:1.20.920.10,hmmpanther:PTHR22881,hmmpanther:PTHR22881:SF12,PROSITE_profiles:PS50014	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATGGAGTAG	.	5	BLCA
MT3	0	.	GRCh37	16	56623743	56623743	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.32-39C>T	.	.	ENST00000200691	.	43	31	11	59	59	0	MT3,intron_variant,,ENST00000570176,;MT3,intron_variant,,ENST00000561640,;MT3,intron_variant,,ENST00000200691,;MT3,intron_variant,,ENST00000565838,;MT3,non_coding_transcript_exon_variant,,ENST00000566576,;MT3,non_coding_transcript_exon_variant,,ENST00000566451,;	T	ENSG00000087250	ENST00000200691	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MT3	HGNC	7408	protein_coding	YES	CCDS10762.1	ENSP00000200691	MT3_HUMAN	.	UPI000002FACE	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGTTCGTCCA	.	3	BLCA
MT3	0	.	GRCh37	16	56623770	56623770	+	Intron	SNP	C	C	T	rs750638334	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.32-12C>T	.	.	ENST00000200691	.	67	48	18	73	73	0	MT3,intron_variant,,ENST00000570176,;MT3,intron_variant,,ENST00000561640,;MT3,intron_variant,,ENST00000200691,;MT3,intron_variant,,ENST00000565838,;MT3,non_coding_transcript_exon_variant,,ENST00000566576,;MT3,non_coding_transcript_exon_variant,,ENST00000566451,;	T	ENSG00000087250	ENST00000200691	Transcript	intron_variant	.	.	.	.	.	rs750638334	.	.	1	MT3	HGNC	7408	protein_coding	YES	CCDS10762.1	ENSP00000200691	MT3_HUMAN	.	UPI000002FACE	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGTCGCCCT	byFrequency	5	BLCA
MT1E	0	.	GRCh37	16	56659629	56659629	+	5'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-135G>A	.	.	ENST00000306061	1/3	18	13	5	24	24	0	MT1E,5_prime_UTR_variant,,ENST00000306061,;MT1E,upstream_gene_variant,,ENST00000330439,;AC026461.1,downstream_gene_variant,,ENST00000600389,;MT1E,upstream_gene_variant,,ENST00000568293,;	A	ENSG00000169715	ENST00000306061	Transcript	5_prime_UTR_variant	243	.	.	.	.	.	.	.	1	MT1E	HGNC	7397	protein_coding	YES	CCDS10764.2	ENSP00000307706	MT1E_HUMAN	.	UPI000012F6D6	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCGGAGCTG	.	5	BLCA
RSPRY1	0	.	GRCh37	16	57269103	57269103	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1597G>A	p.Glu533Lys	p.E533K	ENST00000537866	14/15	68	52	16	63	63	0	RSPRY1,missense_variant,p.Glu533Lys,ENST00000537866,;RSPRY1,missense_variant,p.Glu533Lys,ENST00000394420,;RSPRY1,non_coding_transcript_exon_variant,,ENST00000563073,;RSPRY1,non_coding_transcript_exon_variant,,ENST00000564530,;	A	ENSG00000159579	ENST00000537866	Transcript	missense_variant	2470	1597	533	E/K	Gag/Aag	COSM416967	.	.	1	RSPRY1	HGNC	29420	protein_coding	YES	CCDS10775.1	ENSP00000443176	RSPRY_HUMAN	H3BSC7_HUMAN,H3BQQ7_HUMAN,H3BQG6_HUMAN	UPI000006E516	.	tolerated(0.9)	benign(0.023)	14/15	.	Superfamily_domains:SSF57850,SMART_domains:SM00184,Gene3D:3.30.40.10,Pfam_domain:PF13920,hmmpanther:PTHR13363,PROSITE_profiles:PS50089	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGATGAGGTA	.	3	BLCA
RSPRY1	0	.	GRCh37	16	57269112	57269112	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1606G>A	p.Asp536Asn	p.D536N	ENST00000537866	14/15	63	49	14	62	62	0	RSPRY1,missense_variant,p.Asp536Asn,ENST00000537866,;RSPRY1,missense_variant,p.Asp536Asn,ENST00000394420,;RSPRY1,non_coding_transcript_exon_variant,,ENST00000563073,;RSPRY1,non_coding_transcript_exon_variant,,ENST00000564530,;	A	ENSG00000159579	ENST00000537866	Transcript	missense_variant	2479	1606	536	D/N	Gac/Aac	COSM416966	.	.	1	RSPRY1	HGNC	29420	protein_coding	YES	CCDS10775.1	ENSP00000443176	RSPRY_HUMAN	H3BSC7_HUMAN,H3BQQ7_HUMAN,H3BQG6_HUMAN	UPI000006E516	.	tolerated(0.26)	benign(0.394)	14/15	.	Superfamily_domains:SSF57850,SMART_domains:SM00184,Gene3D:3.30.40.10,Pfam_domain:PF13920,hmmpanther:PTHR13363,PROSITE_profiles:PS50089	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TAGCAGACACA	.	3	BLCA
ARL2BP	0	.	GRCh37	16	57283691	57283691	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.220G>A	p.Glu74Lys	p.E74K	ENST00000219204	4/6	145	123	22	137	137	0	ARL2BP,splice_acceptor_variant,,ENST00000562023,;ARL2BP,missense_variant,p.Glu72Lys,ENST00000563234,;ARL2BP,missense_variant,p.Glu74Lys,ENST00000219204,;RP11-407G23.3,intron_variant,,ENST00000564376,;RP11-407G23.4,downstream_gene_variant,,ENST00000562409,;ARL2BP,downstream_gene_variant,,ENST00000565794,;	A	ENSG00000102931	ENST00000219204	Transcript	missense_variant	490	220	74	E/K	Gaa/Aaa	COSM416965	.	.	1	ARL2BP	HGNC	17146	protein_coding	YES	CCDS10776.1	ENSP00000219204	AR2BP_HUMAN	.	UPI00000372F1	.	deleterious(0.01)	possibly_damaging(0.665)	4/6	.	hmmpanther:PTHR15487,hmmpanther:PTHR15487:SF4,Gene3D:2k0sA00,Pfam_domain:PF11527	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTAGAAAAA	.	4	BLCA
CNGB1	0	.	GRCh37	16	57918280	57918280	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3544G>A	p.Asp1182Asn	p.D1182N	ENST00000251102	33/33	46	36	9	44	44	0	CNGB1,missense_variant,p.Asp1176Asn,ENST00000564448,;CNGB1,missense_variant,p.Asp1182Asn,ENST00000251102,;CNGB1,synonymous_variant,p.%3D,ENST00000565942,;	T	ENSG00000070729	ENST00000251102	Transcript	missense_variant	3605	3544	1182	D/N	Gac/Aac	COSM416959	.	.	-1	CNGB1	HGNC	2151	protein_coding	YES	CCDS42169.1	ENSP00000251102	CNGB1_HUMAN	H3BQC3_HUMAN	UPI000013CCDF	.	tolerated(0.1)	benign(0.016)	33/33	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF386	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGTCGGTGG	.	4	BLCA
CDH5	0	.	GRCh37	16	66436582	66436582	+	Missense_Mutation	SNP	G	G	A	rs139612718	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1865G>A	p.Arg622Gln	p.R622Q	ENST00000341529	12/12	25	18	7	22	22	0	CDH5,missense_variant,p.Arg61Gln,ENST00000539168,;CDH5,missense_variant,p.Arg622Gln,ENST00000341529,;CDH5,3_prime_UTR_variant,,ENST00000565334,;	A	ENSG00000179776	ENST00000341529	Transcript	missense_variant	2013	1865	622	R/Q	cGg/cAg	rs139612718	.	.	1	CDH5	HGNC	1764	protein_coding	YES	CCDS10804.1	ENSP00000344115	CADH5_HUMAN	Q59EA3_HUMAN,I3L1J2_HUMAN,H3BR64_HUMAN,H3BPG1_HUMAN,B4DTR2_HUMAN	UPI000016B272	.	deleterious(0.01)	probably_damaging(0.971)	12/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF89	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GCGGCGGCGGC	byCluster	2	BLCA
HSF4	0	.	GRCh37	16	67198706	67198706	+	5'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9G>C	.	.	ENST00000264009	3/15	24	20	4	18	18	0	HSF4,5_prime_UTR_variant,,ENST00000264009,;HSF4,5_prime_UTR_variant,,ENST00000421453,;FBXL8,downstream_gene_variant,,ENST00000517382,;FBXL8,downstream_gene_variant,,ENST00000519378,;HSF4,upstream_gene_variant,,ENST00000519601,;HSF4,upstream_gene_variant,,ENST00000517729,;FBXL8,downstream_gene_variant,,ENST00000518148,;HSF4,upstream_gene_variant,,ENST00000517685,;HSF4,upstream_gene_variant,,ENST00000517750,;HSF4,upstream_gene_variant,,ENST00000584272,;FBXL8,downstream_gene_variant,,ENST00000523893,;HSF4,upstream_gene_variant,,ENST00000521916,;FBXL8,downstream_gene_variant,,ENST00000519917,;HSF4,upstream_gene_variant,,ENST00000520304,;FBXL8,downstream_gene_variant,,ENST00000521920,;FBXL8,downstream_gene_variant,,ENST00000258200,;HSF4,upstream_gene_variant,,ENST00000521374,;TRADD,upstream_gene_variant,,ENST00000345057,;RP11-5A19.5,non_coding_transcript_exon_variant,,ENST00000523360,;TRADD,upstream_gene_variant,,ENST00000566104,;HSF4,upstream_gene_variant,,ENST00000517867,;HSF4,5_prime_UTR_variant,,ENST00000522295,;HSF4,5_prime_UTR_variant,,ENST00000521314,;RP11-5A19.5,3_prime_UTR_variant,,ENST00000518227,;HSF4,5_prime_UTR_variant,,ENST00000521624,;HSF4,5_prime_UTR_variant,,ENST00000434833,;HSF4,5_prime_UTR_variant,,ENST00000523562,;RP11-5A19.5,3_prime_UTR_variant,,ENST00000580114,;HSF4,non_coding_transcript_exon_variant,,ENST00000522870,;HSF4,non_coding_transcript_exon_variant,,ENST00000522023,;RP11-5A19.5,intron_variant,,ENST00000518753,;HSF4,downstream_gene_variant,,ENST00000518603,;HSF4,upstream_gene_variant,,ENST00000517680,;HSF4,upstream_gene_variant,,ENST00000520528,;HSF4,upstream_gene_variant,,ENST00000522027,;HSF4,upstream_gene_variant,,ENST00000519105,;FBXL8,downstream_gene_variant,,ENST00000519945,;HSF4,upstream_gene_variant,,ENST00000522459,;HSF4,upstream_gene_variant,,ENST00000520247,;HSF4,upstream_gene_variant,,ENST00000519224,;HSF4,upstream_gene_variant,,ENST00000520833,;HSF4,upstream_gene_variant,,ENST00000523077,;	C	ENSG00000102878	ENST00000264009	Transcript	5_prime_UTR_variant	957	.	.	.	.	.	.	.	1	HSF4	HGNC	5227	protein_coding	YES	CCDS42175.1	ENSP00000264009	HSF4_HUMAN	.	UPI0000366B51	.	.	.	3/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GCCGAGACTGC	.	2	BLCA
ZDHHC1	0	.	GRCh37	16	67428988	67428988	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1147C>G	p.Gln383Glu	p.Q383E	ENST00000348579	10/11	34	29	4	26	26	0	ZDHHC1,missense_variant,p.Gln383Glu,ENST00000348579,;ZDHHC1,intron_variant,,ENST00000565726,;TPPP3,upstream_gene_variant,,ENST00000562206,;TPPP3,upstream_gene_variant,,ENST00000290942,;TPPP3,upstream_gene_variant,,ENST00000393957,;TPPP3,upstream_gene_variant,,ENST00000564104,;RNU1-123P,upstream_gene_variant,,ENST00000458950,;ZDHHC1,intron_variant,,ENST00000566075,;ZDHHC1,downstream_gene_variant,,ENST00000567311,;ZDHHC1,downstream_gene_variant,,ENST00000562122,;TPPP3,upstream_gene_variant,,ENST00000561537,;	C	ENSG00000159714	ENST00000348579	Transcript	missense_variant	1489	1147	383	Q/E	Cag/Gag	COSM417329	.	.	-1	ZDHHC1	HGNC	17916	protein_coding	YES	CCDS10836.1	ENSP00000340299	ZDHC1_HUMAN	.	UPI000013C37E	.	tolerated_low_confidence(0.43)	benign(0.001)	10/11	.	hmmpanther:PTHR22883,hmmpanther:PTHR22883:SF8	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTGAGGGC	.	2	BLCA
CTCF	0	.	GRCh37	16	67662356	67662356	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1602G>A	p.%3D	p.Q534Q	ENST00000264010	9/12	126	96	30	148	148	0	CTCF,synonymous_variant,p.%3D,ENST00000401394,;CTCF,synonymous_variant,p.%3D,ENST00000264010,;	A	ENSG00000102974	ENST00000264010	Transcript	synonymous_variant	2046	1602	534	Q	caG/caA	COSM417325	.	.	1	CTCF	HGNC	13723	protein_coding	YES	CCDS10841.1	ENSP00000264010	CTCF_HUMAN	.	UPI0000000DDE	.	.	.	9/12	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF123,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCAGAAGCA	.	5	BLCA
AARS	0	.	GRCh37	16	70296246	70296246	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1671+3G>A	.	.	ENST00000261772	.	131	104	27	130	130	0	AARS,splice_region_variant,,ENST00000261772,;AARS,splice_region_variant,,ENST00000565361,;RN7SL407P,downstream_gene_variant,,ENST00000583724,;AARS,splice_region_variant,,ENST00000564359,;AARS,intron_variant,,ENST00000569790,;AARS,upstream_gene_variant,,ENST00000569825,;AARS,upstream_gene_variant,,ENST00000567490,;AARS,downstream_gene_variant,,ENST00000566969,;	T	ENSG00000090861	ENST00000261772	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	AARS	HGNC	20	protein_coding	YES	CCDS32474.1	ENSP00000261772	SYAC_HUMAN	.	UPI0000169F0B	.	.	.	.	12/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCACATC	.	4	BLCA
VAC14	0	.	GRCh37	16	70817025	70817025	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.722G>C	p.Gly241Ala	p.G241A	ENST00000261776	7/19	155	115	39	167	167	0	VAC14,missense_variant,p.Gly241Ala,ENST00000261776,;VAC14,3_prime_UTR_variant,,ENST00000568548,;VAC14,non_coding_transcript_exon_variant,,ENST00000566655,;VAC14,intron_variant,,ENST00000568886,;	G	ENSG00000103043	ENST00000261776	Transcript	missense_variant	983	722	241	G/A	gGa/gCa	COSM417290	.	.	-1	VAC14	HGNC	25507	protein_coding	YES	CCDS10896.1	ENSP00000261776	VAC14_HUMAN	Q9NTB8_HUMAN,B3KSM8_HUMAN	UPI00001A832B	.	tolerated(0.19)	possibly_damaging(0.505)	7/19	.	hmmpanther:PTHR16023:SF0,hmmpanther:PTHR16023,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCCAAGA	.	5	BLCA
CHST6	0	.	GRCh37	16	75512842	75512842	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.885C>T	p.%3D	p.L295L	ENST00000332272	3/3	76	61	15	86	85	0	CHST6,synonymous_variant,p.%3D,ENST00000390664,;CHST6,synonymous_variant,p.%3D,ENST00000332272,;RP11-77K12.4,intron_variant,,ENST00000530512,;	A	ENSG00000183196	ENST00000332272	Transcript	synonymous_variant	1065	885	295	L	ctC/ctT	COSM417259	.	.	-1	CHST6	HGNC	6938	protein_coding	YES	CCDS10918.1	ENSP00000328983	CHST6_HUMAN	.	UPI00000467C8	.	.	.	3/3	.	hmmpanther:PTHR10704:SF13,hmmpanther:PTHR10704,Pfam_domain:PF00685,Gene3D:3.40.50.300,PIRSF_domain:PIRSF005883,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGTGAGACT	.	5	BLCA
PLCG2	0	.	GRCh37	16	81934316	81934316	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1293G>A	p.%3D	p.T431T	ENST00000359376	14/33	79	59	19	85	85	0	PLCG2,synonymous_variant,p.%3D,ENST00000359376,;PLCG2,downstream_gene_variant,,ENST00000563193,;PLCG2,non_coding_transcript_exon_variant,,ENST00000562605,;PLCG2,non_coding_transcript_exon_variant,,ENST00000570198,;PLCG2,non_coding_transcript_exon_variant,,ENST00000567980,;PLCG2,intron_variant,,ENST00000563375,;	A	ENSG00000197943	ENST00000359376	Transcript	synonymous_variant	1507	1293	431	T	acG/acA	COSM246630,COSM246631	.	.	1	PLCG2	HGNC	9066	protein_coding	YES	CCDS42204.1	ENSP00000352336	PLCG2_HUMAN	H3BQV5_HUMAN	UPI00001411F7	.	.	.	14/33	.	Superfamily_domains:SSF51695,PIRSF_domain:PIRSF000952,SMART_domains:SM00148,Gene3D:3.20.20.190,Pfam_domain:PF00388,hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF25,PROSITE_profiles:PS50007	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.T431T|c.1293G>A|4,SITE|p.T431T|c.1293G>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGACGAAGCC	.	5	BLCA
FOXC2	0	.	GRCh37	16	86600911	86600911	+	5'UTR	SNP	G	G	A	rs770504789	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000320354	1/1	36	31	5	43	43	0	FOXC2,5_prime_UTR_variant,,ENST00000320354,;RP11-463O9.5,intron_variant,,ENST00000563280,;	A	ENSG00000176692	ENST00000320354	Transcript	5_prime_UTR_variant	55	.	.	.	.	rs770504789	.	.	1	FOXC2	HGNC	3801	protein_coding	YES	CCDS10958.1	ENSP00000326371	FOXC2_HUMAN	I6YRR3_HUMAN	UPI000012ADC6	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCGCGAGGGC	.	2	BLCA
SPG7	0	.	GRCh37	16	89598329	89598329	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1005C>G	p.%3D	p.L335L	ENST00000268704	8/17	69	63	6	69	69	0	SPG7,synonymous_variant,p.%3D,ENST00000341316,;SPG7,synonymous_variant,p.%3D,ENST00000268704,;RNU7-117P,downstream_gene_variant,,ENST00000516770,;SPG7,non_coding_transcript_exon_variant,,ENST00000564409,;SPG7,non_coding_transcript_exon_variant,,ENST00000561945,;SPG7,downstream_gene_variant,,ENST00000564047,;SPG7,upstream_gene_variant,,ENST00000567138,;SPG7,upstream_gene_variant,,ENST00000563218,;	G	ENSG00000197912	ENST00000268704	Transcript	synonymous_variant	1020	1005	335	L	ctC/ctG	COSM417226,COSM1133481	.	.	1	SPG7	HGNC	11237	protein_coding	YES	CCDS10977.1	ENSP00000268704	SPG7_HUMAN	.	UPI0000031FAA	.	.	.	8/17	.	HAMAP:MF_01458,hmmpanther:PTHR23076,hmmpanther:PTHR23076:SF47,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR01241,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTCCAGCT	.	3	BLCA
TUBB3	0	.	GRCh37	16	89998985	89998985	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.64G>A	p.Glu22Lys	p.E22K	ENST00000315491	2/4	73	58	14	79	79	0	TUBB3,missense_variant,p.Glu22Lys,ENST00000554336,;TUBB3,missense_variant,p.Glu22Lys,ENST00000553967,;TUBB3,missense_variant,p.Glu22Lys,ENST00000315491,;TUBB3,missense_variant,p.Glu22Lys,ENST00000555576,;TUBB3,missense_variant,p.Glu369Lys,ENST00000556922,;TUBB3,5_prime_UTR_variant,,ENST00000554444,;TUBB3,5_prime_UTR_variant,,ENST00000556565,;TUBB3,5_prime_UTR_variant,,ENST00000555810,;TUBB3,5_prime_UTR_variant,,ENST00000304984,;TUBB3,downstream_gene_variant,,ENST00000554116,;TUBB3,missense_variant,p.Glu22Lys,ENST00000557490,;TUBB3,missense_variant,p.Glu22Lys,ENST00000555609,;TUBB3,missense_variant,p.Glu22Lys,ENST00000556536,;TUBB3,3_prime_UTR_variant,,ENST00000553656,;TUBB3,3_prime_UTR_variant,,ENST00000557262,;TUBB3,non_coding_transcript_exon_variant,,ENST00000554927,;	A	ENSG00000258947	ENST00000315491	Transcript	missense_variant	187	64	22	E/K	Gaa/Aaa	COSM417218	.	.	1	TUBB3	Uniprot_gn	20772	protein_coding	YES	CCDS10988.1	ENSP00000320295	TBB3_HUMAN	Q9BV28_HUMAN,Q3ZCR3_HUMAN,G3V542_HUMAN,G3V3J6_HUMAN,G3V2A3_HUMAN,A8K854_HUMAN	UPI00001369F9	.	deleterious_low_confidence(0)	probably_damaging(0.947)	2/4	.	hmmpanther:PTHR11588:SF43,hmmpanther:PTHR11588,Gene3D:3.40.50.1440,Pfam_domain:PF00091,Superfamily_domains:SSF52490,Prints_domain:PR01161	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGGGAAGTC	.	5	BLCA
DNAH9	0	.	GRCh37	17	11865486	11865486	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13146G>C	p.Lys4382Asn	p.K4382N	ENST00000262442	68/69	105	84	21	87	87	0	DNAH9,missense_variant,p.Lys4306Asn,ENST00000454412,;DNAH9,missense_variant,p.Lys694Asn,ENST00000608377,;DNAH9,missense_variant,p.Lys4382Asn,ENST00000262442,;RP11-1096G20.5,intron_variant,,ENST00000580270,;DNAH9,non_coding_transcript_exon_variant,,ENST00000396001,;	C	ENSG00000007174	ENST00000262442	Transcript	missense_variant	13214	13146	4382	K/N	aaG/aaC	COSM417190	.	.	1	DNAH9	HGNC	2953	protein_coding	YES	CCDS11160.1	ENSP00000262442	DYH9_HUMAN	Q92865_HUMAN	UPI0000141BA2	.	.	probably_damaging(0.946)	68/69	.	hmmpanther:PTHR10676:SF36,hmmpanther:PTHR10676,Pfam_domain:PF03028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGAAGAAGAA	.	5	BLCA
FLCN	0	.	GRCh37	17	17116970	17116970	+	Nonstop_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1739G>C	p.Ter580SerextTer135	p.*580Sext*135	ENST00000285071	14/14	147	112	34	150	150	0	FLCN,stop_lost,p.Ter580SerextTer135,ENST00000285071,;MPRIP,intron_variant,,ENST00000578209,;RP11-45M22.4,intron_variant,,ENST00000427497,;FLCN,downstream_gene_variant,,ENST00000577591,;	G	ENSG00000154803	ENST00000285071	Transcript	stop_lost	2194	1739	580	*/S	tGa/tCa	COSM417173	.	.	-1	FLCN	HGNC	27310	protein_coding	YES	CCDS32579.1	ENSP00000285071	FLCN_HUMAN	J3QQZ7_HUMAN,C9J4C4_HUMAN	UPI0000071D7A	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGTCAGTTC	.	5	BLCA
ULK2	0	.	GRCh37	17	19689261	19689261	+	Missense_Mutation	SNP	C	C	G	rs370554678	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2240G>C	p.Arg747Thr	p.R747T	ENST00000395544	21/27	79	59	19	70	70	0	ULK2,missense_variant,p.Arg747Thr,ENST00000395544,;ULK2,missense_variant,p.Arg747Thr,ENST00000361658,;ULK2,missense_variant,p.Arg66Thr,ENST00000575432,;ULK2,intron_variant,,ENST00000571137,;ULK2,upstream_gene_variant,,ENST00000571454,;	G	ENSG00000083290	ENST00000395544	Transcript	missense_variant	2740	2240	747	R/T	aGa/aCa	rs370554678,COSM417151	.	.	-1	ULK2	HGNC	13480	protein_coding	YES	CCDS11213.1	ENSP00000378914	ULK2_HUMAN	.	UPI000013D19B	.	deleterious(0.04)	benign(0.003)	21/27	.	hmmpanther:PTHR24348,hmmpanther:PTHR24348:SF18,PIRSF_domain:PIRSF000580	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCTTGTT	byFrequency|byCluster	5	BLCA
RP11-381P6.1	0	.	GRCh37	17	20859999	20859999	+	RNA	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.675G>A	.	.	ENST00000582583	4/6	45	35	9	32	32	0	RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000579168,;RP11-381P6.1,non_coding_transcript_exon_variant,,ENST00000582583,;RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000433763,;RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000437829,;RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000583481,;RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000584433,;RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000580056,;RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000423473,;RP11-344E13.3,non_coding_transcript_exon_variant,,ENST00000581958,;RP11-344E13.3,intron_variant,,ENST00000439794,;AC090774.2,non_coding_transcript_exon_variant,,ENST00000435925,;	A	ENSG00000264660	ENST00000582583	Transcript	non_coding_transcript_exon_variant	675	.	.	.	.	.	.	.	1	RP11-381P6.1	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	4/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGGATGAA	.	5	BLCA
CLUH	0	.	GRCh37	17	2593932	2593932	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3886C>A	p.Gln1296Lys	p.Q1296K	ENST00000570628	26/26	35	29	6	31	31	0	CLUH,missense_variant,p.Gln1296Lys,ENST00000435359,;CLUH,missense_variant,p.Gln1238Lys,ENST00000575014,;CLUH,missense_variant,p.Gln1296Lys,ENST00000538975,;CLUH,missense_variant,p.Gln1296Lys,ENST00000570628,;CLUH,downstream_gene_variant,,ENST00000574426,;RP11-74E22.6,downstream_gene_variant,,ENST00000608984,;CLUH,downstream_gene_variant,,ENST00000574166,;CLUH,downstream_gene_variant,,ENST00000573641,;CLUH,downstream_gene_variant,,ENST00000574210,;CLUH,downstream_gene_variant,,ENST00000572014,;	T	ENSG00000132361	ENST00000570628	Transcript	missense_variant	3992	3886	1296	Q/K	Cag/Aag	COSM417648,COSM417647	.	.	-1	CLUH	HGNC	29094	protein_coding	YES	CCDS45572.1	ENSP00000458986	CLU_HUMAN	I3L3A3_HUMAN,I3L350_HUMAN,I3L318_HUMAN	UPI00004C8042	.	tolerated_low_confidence(0.23)	benign(0.039)	26/26	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GGGCTGGGAGC	.	3	BLCA
KIAA0100	0	.	GRCh37	17	26943617	26943617	+	Intron	SNP	C	C	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6157+19G>T	.	.	ENST00000528896	.	323	257	65	329	329	0	KIAA0100,intron_variant,,ENST00000544884,;KIAA0100,intron_variant,,ENST00000528896,;KIAA0100,intron_variant,,ENST00000389003,;RP11-192H23.4,upstream_gene_variant,,ENST00000577790,;SGK494,upstream_gene_variant,,ENST00000530121,;RP11-192H23.4,upstream_gene_variant,,ENST00000531839,;SGK494,upstream_gene_variant,,ENST00000301037,;SGK494,upstream_gene_variant,,ENST00000525510,;RP11-192H23.4,upstream_gene_variant,,ENST00000534850,;SPAG5-AS1,non_coding_transcript_exon_variant,,ENST00000424210,;SPAG5-AS1,non_coding_transcript_exon_variant,,ENST00000414744,;SPAG5-AS1,downstream_gene_variant,,ENST00000554154,;SGK494,upstream_gene_variant,,ENST00000526073,;SGK494,upstream_gene_variant,,ENST00000469832,;KIAA0100,downstream_gene_variant,,ENST00000579924,;SPAG5-AS1,non_coding_transcript_exon_variant,,ENST00000584675,;KIAA0100,intron_variant,,ENST00000583860,;SGK494,upstream_gene_variant,,ENST00000527918,;SGK494,upstream_gene_variant,,ENST00000581199,;SGK494,upstream_gene_variant,,ENST00000527863,;SGK494,upstream_gene_variant,,ENST00000494272,;RP11-192H23.4,upstream_gene_variant,,ENST00000481916,;SGK494,upstream_gene_variant,,ENST00000461399,;KIAA0100,downstream_gene_variant,,ENST00000580395,;RP11-192H23.4,upstream_gene_variant,,ENST00000584196,;	A	ENSG00000007202	ENST00000528896	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	KIAA0100	HGNC	28960	protein_coding	YES	CCDS32595.1	ENSP00000436773	K0100_HUMAN	Q08E86_HUMAN,G1UI35_HUMAN	UPI00004B4130	.	.	.	.	35/38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCACCA	.	5	BLCA
KIAA0100	0	.	GRCh37	17	26945942	26945942	+	Missense_Mutation	SNP	C	C	T	rs200543420	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5690G>A	p.Arg1897Gln	p.R1897Q	ENST00000528896	32/39	95	74	21	96	96	0	KIAA0100,missense_variant,p.Arg1754Gln,ENST00000544884,;KIAA0100,missense_variant,p.Arg1897Gln,ENST00000528896,;KIAA0100,missense_variant,p.Arg1754Gln,ENST00000389003,;RP11-192H23.4,upstream_gene_variant,,ENST00000577790,;SGK494,upstream_gene_variant,,ENST00000530121,;RP11-192H23.4,upstream_gene_variant,,ENST00000531839,;SGK494,upstream_gene_variant,,ENST00000301037,;SGK494,upstream_gene_variant,,ENST00000525510,;RP11-192H23.4,upstream_gene_variant,,ENST00000534850,;SPAG5-AS1,downstream_gene_variant,,ENST00000424210,;SPAG5-AS1,downstream_gene_variant,,ENST00000554154,;SPAG5-AS1,downstream_gene_variant,,ENST00000414744,;KIAA0100,non_coding_transcript_exon_variant,,ENST00000579924,;SGK494,upstream_gene_variant,,ENST00000526073,;SGK494,upstream_gene_variant,,ENST00000469832,;KIAA0100,non_coding_transcript_exon_variant,,ENST00000580395,;SGK494,upstream_gene_variant,,ENST00000581199,;SGK494,upstream_gene_variant,,ENST00000527863,;KIAA0100,upstream_gene_variant,,ENST00000583860,;RP11-192H23.4,upstream_gene_variant,,ENST00000481916,;SPAG5-AS1,downstream_gene_variant,,ENST00000584675,;RP11-192H23.4,upstream_gene_variant,,ENST00000584196,;	T	ENSG00000007202	ENST00000528896	Transcript	missense_variant	5765	5690	1897	R/Q	cGa/cAa	rs200543420,COSM417635	.	.	-1	KIAA0100	HGNC	28960	protein_coding	YES	CCDS32595.1	ENSP00000436773	K0100_HUMAN	Q08E86_HUMAN,G1UI35_HUMAN	UPI00004B4130	.	deleterious(0.04)	benign(0.099)	32/39	.	hmmpanther:PTHR15678,Pfam_domain:PF10351	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCGCAGC	byCluster	5	BLCA
TLCD1	0	.	GRCh37	17	27051519	27051519	+	3'UTR	SNP	C	C	G	rs769162239	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*9G>C	.	.	ENST00000292090	4/4	425	314	110	487	487	0	TLCD1,3_prime_UTR_variant,,ENST00000394933,;TLCD1,3_prime_UTR_variant,,ENST00000581236,;TLCD1,3_prime_UTR_variant,,ENST00000292090,;RPL23A,downstream_gene_variant,,ENST00000472628,;RPL23A,downstream_gene_variant,,ENST00000394938,;NEK8,upstream_gene_variant,,ENST00000268766,;NEK8,upstream_gene_variant,,ENST00000579060,;RPL23A,downstream_gene_variant,,ENST00000394935,;RPL23A,downstream_gene_variant,,ENST00000422514,;RPL23A,downstream_gene_variant,,ENST00000578181,;TLCD1,downstream_gene_variant,,ENST00000580518,;RPL23A,downstream_gene_variant,,ENST00000355731,;NEK8,upstream_gene_variant,,ENST00000579671,;RPL23A,downstream_gene_variant,,ENST00000496182,;SNORD42A,downstream_gene_variant,,ENST00000459584,;SNORD4B,downstream_gene_variant,,ENST00000459083,;SNORD4A,downstream_gene_variant,,ENST00000459174,;SNORD42B,downstream_gene_variant,,ENST00000458893,;AC010761.14,upstream_gene_variant,,ENST00000587898,;AC010761.8,upstream_gene_variant,,ENST00000582718,;NEK8,upstream_gene_variant,,ENST00000593261,;RPL23A,downstream_gene_variant,,ENST00000582736,;NEK8,upstream_gene_variant,,ENST00000581000,;RPL23A,downstream_gene_variant,,ENST00000580755,;NEK8,upstream_gene_variant,,ENST00000543014,;NEK8,upstream_gene_variant,,ENST00000584342,;	G	ENSG00000160606	ENST00000292090	Transcript	3_prime_UTR_variant	864	.	.	.	.	rs769162239	.	.	-1	TLCD1	HGNC	25177	protein_coding	YES	CCDS11242.1	ENSP00000292090	TLCD1_HUMAN	K7ELX5_HUMAN	UPI000006DF3D	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCTGTGC	.	5	BLCA
CORO6	0	.	GRCh37	17	27945892	27945892	+	Nonsense_Mutation	SNP	C	C	T	rs764538701	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549G>A	p.Trp183Ter	p.W183*	ENST00000345068	5/11	110	86	23	113	113	0	CORO6,stop_gained,p.Trp183Ter,ENST00000584969,;CORO6,stop_gained,p.Trp183Ter,ENST00000345068,;CORO6,stop_gained,p.Trp183Ter,ENST00000388767,;CORO6,stop_gained,p.Trp183Ter,ENST00000445145,;CORO6,stop_gained,p.Trp183Ter,ENST00000492276,;CORO6,stop_gained,p.Trp183Ter,ENST00000580212,;CORO6,upstream_gene_variant,,ENST00000456796,;CORO6,downstream_gene_variant,,ENST00000584602,;ANKRD13B,downstream_gene_variant,,ENST00000394859,;RP11-68I3.2,intron_variant,,ENST00000581474,;RP11-68I3.10,downstream_gene_variant,,ENST00000582367,;CORO6,intron_variant,,ENST00000577909,;CORO6,non_coding_transcript_exon_variant,,ENST00000459686,;CORO6,non_coding_transcript_exon_variant,,ENST00000467534,;CORO6,upstream_gene_variant,,ENST00000480954,;ANKRD13B,downstream_gene_variant,,ENST00000493506,;CORO6,upstream_gene_variant,,ENST00000469090,;ANKRD13B,downstream_gene_variant,,ENST00000487527,;ANKRD13B,downstream_gene_variant,,ENST00000488766,;CORO6,upstream_gene_variant,,ENST00000579388,;	T	ENSG00000167549	ENST00000345068	Transcript	stop_gained	763	549	183	W/*	tgG/tgA	rs764538701,COSM417618	.	.	-1	CORO6	HGNC	21356	protein_coding	YES	CCDS11252.2	ENSP00000344562	CORO6_HUMAN	K7ERF4_HUMAN,J3QRV4_HUMAN	UPI0000DA4C55	.	.	.	5/11	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,Pfam_domain:PF00400,hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF4,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCCAGCA	byFrequency	5	BLCA
RAB11FIP4	0	.	GRCh37	17	29850554	29850554	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954C>A	p.Phe318Leu	p.F318L	ENST00000325874	8/15	159	124	35	173	173	0	RAB11FIP4,missense_variant,p.Phe58Leu,ENST00000583755,;RAB11FIP4,missense_variant,p.Phe318Leu,ENST00000325874,;RAB11FIP4,missense_variant,p.Phe216Leu,ENST00000394744,;RAB11FIP4,downstream_gene_variant,,ENST00000582009,;RN7SL45P,downstream_gene_variant,,ENST00000578050,;RAB11FIP4,non_coding_transcript_exon_variant,,ENST00000581460,;RAB11FIP4,non_coding_transcript_exon_variant,,ENST00000585058,;RAB11FIP4,downstream_gene_variant,,ENST00000578694,;	A	ENSG00000131242	ENST00000325874	Transcript	missense_variant	1183	954	318	F/L	ttC/ttA	COSM417603	.	.	1	RAB11FIP4	HGNC	30267	protein_coding	YES	CCDS11267.1	ENSP00000312837	RFIP4_HUMAN	K7EL58_HUMAN	UPI000000D857	.	tolerated(1)	benign(0.001)	8/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15726,hmmpanther:PTHR15726:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCAGCAG	.	5	BLCA
SPACA3	0	.	GRCh37	17	31318969	31318969	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13C>T	p.%3D	p.L5L	ENST00000269053	1/5	46	39	6	55	55	0	SPACA3,synonymous_variant,p.%3D,ENST00000269053,;SPACA3,synonymous_variant,p.%3D,ENST00000394638,;SPACA3,intron_variant,,ENST00000580599,;SPACA3,non_coding_transcript_exon_variant,,ENST00000485015,;SPACA3,upstream_gene_variant,,ENST00000394637,;	T	ENSG00000141316	ENST00000269053	Transcript	synonymous_variant	83	13	5	L	Ctg/Ttg	COSM417599	.	.	1	SPACA3	HGNC	16260	protein_coding	YES	CCDS11275.1	ENSP00000269053	SACA3_HUMAN	.	UPI00000361ED	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGCTCTGCGG	.	3	BLCA
CCT6B	0	.	GRCh37	17	33255056	33255056	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11C>G	.	.	ENST00000314144	14/14	84	77	7	83	83	0	CCT6B,3_prime_UTR_variant,,ENST00000314144,;CCT6B,3_prime_UTR_variant,,ENST00000436961,;CCT6B,3_prime_UTR_variant,,ENST00000421975,;CCT6B,non_coding_transcript_exon_variant,,ENST00000577307,;	C	ENSG00000132141	ENST00000314144	Transcript	3_prime_UTR_variant	1720	.	.	.	.	.	.	.	-1	CCT6B	HGNC	1621	protein_coding	YES	CCDS32617.1	ENSP00000327191	TCPW_HUMAN	J3KRI6_HUMAN	UPI000013F740	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTTTGAATTC	.	2	BLCA
UNC45B	0	.	GRCh37	17	33507615	33507615	+	Missense_Mutation	SNP	G	G	A	rs771256591	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2299G>A	p.Glu767Lys	p.E767K	ENST00000268876	18/20	93	77	16	70	70	0	UNC45B,missense_variant,p.Glu686Lys,ENST00000378449,;UNC45B,missense_variant,p.Glu765Lys,ENST00000433649,;UNC45B,missense_variant,p.Glu767Lys,ENST00000268876,;UNC45B,missense_variant,p.Glu686Lys,ENST00000591048,;UNC45B,missense_variant,p.Glu765Lys,ENST00000394570,;	A	ENSG00000141161	ENST00000268876	Transcript	missense_variant	2396	2299	767	E/K	Gag/Aag	rs771256591,COSM417589	.	.	1	UNC45B	HGNC	14304	protein_coding	YES	CCDS11292.1	ENSP00000268876	UN45B_HUMAN	.	UPI0000074455	.	deleterious(0)	probably_damaging(0.999)	18/20	.	hmmpanther:PTHR22904:SF299,hmmpanther:PTHR22904,Gene3D:1.25.10.10,SMART_domains:SM00185,Superfamily_domains:SSF48371,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATCGAGAAC	byFrequency	5	BLCA
CCL3	0	.	GRCh37	17	34416051	34416051	+	Missense_Mutation	SNP	C	C	G	rs757259437	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.246G>C	p.Gln82His	p.Q82H	ENST00000225245	3/3	228	183	45	206	206	0	CCL3,missense_variant,p.Gln82His,ENST00000225245,;AC069363.1,intron_variant,,ENST00000592728,;AC069363.1,intron_variant,,ENST00000441575,;AC069363.1,intron_variant,,ENST00000590992,;CCL3,non_coding_transcript_exon_variant,,ENST00000470334,;CCL3,intron_variant,,ENST00000585830,;	G	ENSG00000006075	ENST00000225245	Transcript	missense_variant	329	246	82	Q/H	caG/caC	rs757259437,COSM417584	.	.	-1	CCL3	HGNC	10627	protein_coding	YES	CCDS11307.1	ENSP00000225245	CCL3_HUMAN	A0N0R1_HUMAN	UPI00001362C9	.	deleterious(0.01)	possibly_damaging(0.879)	3/3	.	hmmpanther:PTHR12015,hmmpanther:PTHR12015:SF90,Pfam_domain:PF00048,Gene3D:2.40.50.40,SMART_domains:SM00199,Superfamily_domains:SSF54117	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCTGGAC	byFrequency	5	BLCA
TRPV3	0	.	GRCh37	17	3458046	3458046	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99G>A	p.%3D	p.E33E	ENST00000301365	2/18	94	74	20	69	69	0	TRPV3,synonymous_variant,p.%3D,ENST00000301365,;TRPV3,synonymous_variant,p.%3D,ENST00000576742,;TRPV3,synonymous_variant,p.%3D,ENST00000572519,;TRPV3,synonymous_variant,p.%3D,ENST00000573539,;TRPV3,synonymous_variant,p.%3D,ENST00000571139,;TRPV3,non_coding_transcript_exon_variant,,ENST00000574773,;	T	ENSG00000167723	ENST00000301365	Transcript	synonymous_variant	231	99	33	E	gaG/gaA	COSM417583	.	.	-1	TRPV3	HGNC	18084	protein_coding	YES	CCDS58500.1	ENSP00000301365	TRPV3_HUMAN	.	UPI0000200627	.	.	.	2/18	.	hmmpanther:PTHR10582:SF6,hmmpanther:PTHR10582	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATCTCCGC	.	5	BLCA
DUSP14	0	.	GRCh37	17	35872727	35872727	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.353C>G	p.Ser118Ter	p.S118*	ENST00000487847	2/2	82	67	14	64	64	0	DUSP14,stop_gained,p.Ser118Ter,ENST00000394386,;DUSP14,stop_gained,p.Ser118Ter,ENST00000394389,;DUSP14,stop_gained,p.Ser118Ter,ENST00000487847,;SYNRG,downstream_gene_variant,,ENST00000339208,;SYNRG,downstream_gene_variant,,ENST00000346661,;SYNRG,downstream_gene_variant,,ENST00000590102,;	G	ENSG00000161326	ENST00000487847	Transcript	stop_gained	1331	353	118	S/*	tCa/tGa	COSM417573	.	.	1	DUSP14	HGNC	17007	protein_coding	YES	CCDS11320.1	ENSP00000466299	DUS14_HUMAN	Q6FI36_HUMAN	UPI0000129965	.	.	.	2/2	.	Superfamily_domains:SSF52799,SMART_domains:SM00195,Gene3D:3.90.190.10,Pfam_domain:PF00782,PROSITE_patterns:PS00383,hmmpanther:PTHR10159:SF117,hmmpanther:PTHR10159,PROSITE_profiles:PS50056,PROSITE_profiles:PS50054	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCTCAGCCA	.	5	BLCA
CDK12	0	.	GRCh37	17	37618767	37618767	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>T	p.Ser148Leu	p.S148L	ENST00000447079	1/14	104	83	20	98	98	0	CDK12,missense_variant,p.Ser148Leu,ENST00000447079,;CDK12,missense_variant,p.Ser148Leu,ENST00000584632,;CDK12,missense_variant,p.Ser148Leu,ENST00000430627,;	T	ENSG00000167258	ENST00000447079	Transcript	missense_variant	476	443	148	S/L	tCg/tTg	COSM417564	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	unknown(0)	1/14	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATCGGGAA	.	5	BLCA
ERBB2	0	.	GRCh37	17	37884259	37884259	+	Missense_Mutation	SNP	G	G	C	rs144533600	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3730G>C	p.Glu1244Gln	p.E1244Q	ENST00000269571	27/27	95	70	24	110	110	0	ERBB2,missense_variant,p.Glu1229Gln,ENST00000541774,;ERBB2,missense_variant,p.Glu968Gln,ENST00000445658,;ERBB2,missense_variant,p.Glu1244Gln,ENST00000269571,;ERBB2,missense_variant,p.Glu1214Gln,ENST00000406381,;ERBB2,missense_variant,p.Glu1214Gln,ENST00000540147,;ERBB2,missense_variant,p.Glu1214Gln,ENST00000584601,;ERBB2,3_prime_UTR_variant,,ENST00000584450,;ERBB2,downstream_gene_variant,,ENST00000580074,;MIEN1,downstream_gene_variant,,ENST00000577810,;ERBB2,downstream_gene_variant,,ENST00000582818,;MIEN1,downstream_gene_variant,,ENST00000394231,;MIR4728,downstream_gene_variant,,ENST00000580969,;ERBB2,upstream_gene_variant,,ENST00000584888,;MIEN1,downstream_gene_variant,,ENST00000474210,;ERBB2,3_prime_UTR_variant,,ENST00000578373,;MIEN1,downstream_gene_variant,,ENST00000582963,;ERBB2,downstream_gene_variant,,ENST00000583038,;ERBB2,downstream_gene_variant,,ENST00000578630,;MIEN1,downstream_gene_variant,,ENST00000469568,;MIEN1,downstream_gene_variant,,ENST00000498164,;	C	ENSG00000141736	ENST00000269571	Transcript	missense_variant	3889	3730	1244	E/Q	Gag/Cag	rs144533600,COSM417559	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	deleterious(0.05)	probably_damaging(0.999)	27/27	.	PIRSF_domain:PIRSF000619	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCAGAGAAC	byCluster|by1000G	5	BLCA
CASC3	0	.	GRCh37	17	38318003	38318003	+	Intron	SNP	C	C	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298-3C>A	.	.	ENST00000264645	.	100	88	12	111	111	0	CASC3,splice_region_variant,,ENST00000584997,;CASC3,splice_region_variant,,ENST00000264645,;CASC3,splice_region_variant,,ENST00000581849,;CASC3,splice_region_variant,,ENST00000418132,;CASC3,upstream_gene_variant,,ENST00000474190,;CASC3,upstream_gene_variant,,ENST00000577605,;	A	ENSG00000108349	ENST00000264645	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CASC3	HGNC	17040	protein_coding	YES	CCDS11362.1	ENSP00000264645	CASC3_HUMAN	.	UPI000000DAAA	.	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TTTTTCAGGGT	.	3	BLCA
CASC3	0	.	GRCh37	17	38319905	38319905	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.957C>T	p.%3D	p.F319F	ENST00000264645	7/14	454	353	101	402	401	1	CASC3,synonymous_variant,p.%3D,ENST00000264645,;CASC3,downstream_gene_variant,,ENST00000584997,;CASC3,non_coding_transcript_exon_variant,,ENST00000418132,;CASC3,intron_variant,,ENST00000474190,;CASC3,upstream_gene_variant,,ENST00000394114,;CASC3,upstream_gene_variant,,ENST00000577605,;CASC3,downstream_gene_variant,,ENST00000581849,;CASC3,upstream_gene_variant,,ENST00000583902,;CASC3,upstream_gene_variant,,ENST00000579238,;	T	ENSG00000108349	ENST00000264645	Transcript	synonymous_variant	1183	957	319	F	ttC/ttT	COSM417554	.	.	1	CASC3	HGNC	17040	protein_coding	YES	CCDS11362.1	ENSP00000264645	CASC3_HUMAN	.	UPI000000DAAA	.	.	.	7/14	.	hmmpanther:PTHR13434	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GGCTTCAAGGA	.	3	BLCA
RARA	0	.	GRCh37	17	38512341	38512341	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1252G>A	p.Glu418Lys	p.E418K	ENST00000254066	9/9	24	21	3	16	16	0	RARA,missense_variant,p.Glu413Lys,ENST00000394081,;RARA,missense_variant,p.Glu321Lys,ENST00000425707,;RARA,missense_variant,p.Glu418Lys,ENST00000254066,;RARA,missense_variant,p.Glu434Lys,ENST00000394086,;RARA,missense_variant,p.Glu418Lys,ENST00000394089,;RARA,downstream_gene_variant,,ENST00000475125,;CTD-2267D19.3,upstream_gene_variant,,ENST00000578774,;GJD3,downstream_gene_variant,,ENST00000337376,;RARA,non_coding_transcript_exon_variant,,ENST00000420042,;	A	ENSG00000131759	ENST00000254066	Transcript	missense_variant	1707	1252	418	E/K	Gag/Aag	COSM417550	.	.	1	RARA	HGNC	9864	protein_coding	YES	CCDS11366.1	ENSP00000254066	RARA_HUMAN	Q6I9R7_HUMAN,J3QRM2_HUMAN,J3KSJ4_HUMAN	UPI0000134A0E	.	deleterious(0)	benign(0.423)	9/9	.	hmmpanther:PTHR24082:SF115,hmmpanther:PTHR24082,Prints_domain:PR01292	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCAGAGGGC	.	2	BLCA
CCR7	0	.	GRCh37	17	38711549	38711549	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.582C>G	p.%3D	p.L194L	ENST00000246657	3/3	59	37	22	66	66	0	CCR7,synonymous_variant,p.%3D,ENST00000246657,;CCR7,synonymous_variant,p.%3D,ENST00000578085,;CCR7,synonymous_variant,p.%3D,ENST00000579344,;	C	ENSG00000126353	ENST00000246657	Transcript	synonymous_variant	645	582	194	L	ctC/ctG	COSM417548	.	.	-1	CCR7	HGNC	1608	protein_coding	YES	CCDS11369.1	ENSP00000246657	CCR7_HUMAN	J3KTN5_HUMAN,J3KSS9_HUMAN,A0N0Q0_HUMAN	UPI0000001C2F	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24227,hmmpanther:PTHR24227:SF29,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00641	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACAGGAGCTC	.	5	BLCA
KRT31	0	.	GRCh37	17	39550344	39550344	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1175C>G	p.Ser392Cys	p.S392C	ENST00000251645	7/7	148	115	33	82	82	0	KRT31,missense_variant,p.Ser392Cys,ENST00000251645,;	C	ENSG00000094796	ENST00000251645	Transcript	missense_variant	1228	1175	392	S/C	tCt/tGt	COSM417535,COSM417536	.	.	-1	KRT31	HGNC	6448	protein_coding	YES	CCDS11391.1	ENSP00000251645	K1H1_HUMAN	Q16275_HUMAN	UPI000006F564	.	tolerated(0.05)	benign(0.004)	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23239:SF99,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAAGAGGTA	.	5	BLCA
DHX58	0	.	GRCh37	17	40260106	40260106	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.699G>A	p.%3D	p.L233L	ENST00000251642	7/14	93	75	18	107	107	0	DHX58,synonymous_variant,p.%3D,ENST00000413196,;DHX58,synonymous_variant,p.%3D,ENST00000251642,;DHX58,downstream_gene_variant,,ENST00000430773,;DHX58,downstream_gene_variant,,ENST00000591220,;DHX58,non_coding_transcript_exon_variant,,ENST00000586522,;DHX58,upstream_gene_variant,,ENST00000590637,;DHX58,upstream_gene_variant,,ENST00000589979,;	T	ENSG00000108771	ENST00000251642	Transcript	synonymous_variant	922	699	233	L	ctG/ctA	COSM417523	.	.	-1	DHX58	HGNC	29517	protein_coding	YES	CCDS11416.1	ENSP00000251642	DHX58_HUMAN	K7EMZ5_HUMAN,C9JG98_HUMAN,C9JE76_HUMAN	UPI000006ED88	.	.	.	7/14	.	hmmpanther:PTHR14074:SF7,hmmpanther:PTHR14074	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAGCAA	.	5	BLCA
GHDC	0	.	GRCh37	17	40345373	40345373	+	Missense_Mutation	SNP	C	C	T	rs201383305	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227G>A	p.Gly76Glu	p.G76E	ENST00000301671	2/9	17	12	5	16	16	0	GHDC,missense_variant,p.Gly76Glu,ENST00000414034,;GHDC,missense_variant,p.Gly76Glu,ENST00000590249,;GHDC,missense_variant,p.Gly76Glu,ENST00000436923,;GHDC,missense_variant,p.Gly76Glu,ENST00000428494,;GHDC,missense_variant,p.Gly76Glu,ENST00000587427,;GHDC,missense_variant,p.Gly76Glu,ENST00000301671,;GHDC,missense_variant,p.Gly76Glu,ENST00000588352,;GHDC,missense_variant,p.Gly76Glu,ENST00000593209,;GHDC,non_coding_transcript_exon_variant,,ENST00000590520,;GHDC,non_coding_transcript_exon_variant,,ENST00000586692,;GHDC,missense_variant,p.Gly76Glu,ENST00000588762,;GHDC,non_coding_transcript_exon_variant,,ENST00000585375,;GHDC,upstream_gene_variant,,ENST00000585735,;	T	ENSG00000167925	ENST00000301671	Transcript	missense_variant	669	227	76	G/E	gGa/gAa	rs201383305,COSM417519,COSM1133491	.	.	-1	GHDC	HGNC	24438	protein_coding	YES	CCDS11422.1	ENSP00000301671	GHDC_HUMAN	K7EQ41_HUMAN,K7EL54_HUMAN	UPI000006E533	.	tolerated(0.16)	benign(0.077)	2/9	.	hmmpanther:PTHR31901,hmmpanther:PTHR31901:SF5	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCCTGT	.	5	BLCA
ATP6V0A1	0	.	GRCh37	17	40622219	40622219	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406C>A	p.Gln136Lys	p.Q136K	ENST00000264649	5/21	46	39	7	32	32	0	ATP6V0A1,missense_variant,p.Gln62Lys,ENST00000592324,;ATP6V0A1,missense_variant,p.Gln77Lys,ENST00000589727,;ATP6V0A1,missense_variant,p.Gln136Lys,ENST00000393829,;ATP6V0A1,missense_variant,p.Gln136Lys,ENST00000343619,;ATP6V0A1,missense_variant,p.Gln136Lys,ENST00000546249,;ATP6V0A1,missense_variant,p.Gln136Lys,ENST00000264649,;ATP6V0A1,intron_variant,,ENST00000585525,;ATP6V0A1,intron_variant,,ENST00000537728,;ATP6V0A1,intron_variant,,ENST00000544137,;ATP6V0A1,downstream_gene_variant,,ENST00000589213,;ATP6V0A1,downstream_gene_variant,,ENST00000587824,;ATP6V0A1,3_prime_UTR_variant,,ENST00000588901,;ATP6V0A1,non_coding_transcript_exon_variant,,ENST00000588629,;ATP6V0A1,non_coding_transcript_exon_variant,,ENST00000587375,;	A	ENSG00000033627	ENST00000264649	Transcript	missense_variant	537	406	136	Q/K	Cag/Aag	COSM417515	.	.	1	ATP6V0A1	HGNC	865	protein_coding	YES	CCDS45683.1	ENSP00000264649	VPP1_HUMAN	K7EM24_HUMAN,K7ELZ6_HUMAN	UPI0000E59F9E	.	tolerated(0.06)	probably_damaging(0.996)	5/21	.	hmmpanther:PTHR11629:SF25,hmmpanther:PTHR11629,Pfam_domain:PF01496,PIRSF_domain:PIRSF001293	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCAGCAA	.	5	BLCA
MLX	0	.	GRCh37	17	40722180	40722180	+	Missense_Mutation	SNP	C	C	G	rs775956555	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.819C>G	p.Ile273Met	p.I273M	ENST00000246912	7/8	81	70	11	76	76	0	MLX,missense_variant,p.Ile189Met,ENST00000346833,;MLX,missense_variant,p.Ile219Met,ENST00000435881,;MLX,missense_variant,p.Ile273Met,ENST00000246912,;MLX,missense_variant,p.Ile243Met,ENST00000591024,;PSMC3IP,downstream_gene_variant,,ENST00000253789,;PSMC3IP,downstream_gene_variant,,ENST00000590760,;COASY,downstream_gene_variant,,ENST00000421097,;PSMC3IP,downstream_gene_variant,,ENST00000587209,;COASY,downstream_gene_variant,,ENST00000449624,;COASY,downstream_gene_variant,,ENST00000393818,;COASY,downstream_gene_variant,,ENST00000420359,;COASY,downstream_gene_variant,,ENST00000590958,;PSMC3IP,downstream_gene_variant,,ENST00000393795,;MLX,non_coding_transcript_exon_variant,,ENST00000588320,;MLX,non_coding_transcript_exon_variant,,ENST00000590050,;MLX,non_coding_transcript_exon_variant,,ENST00000585403,;MLX,downstream_gene_variant,,ENST00000586393,;MLX,downstream_gene_variant,,ENST00000592717,;MLX,downstream_gene_variant,,ENST00000591195,;MLX,downstream_gene_variant,,ENST00000590084,;PSMC3IP,downstream_gene_variant,,ENST00000588544,;COASY,downstream_gene_variant,,ENST00000591583,;PSMC3IP,downstream_gene_variant,,ENST00000589505,;COASY,downstream_gene_variant,,ENST00000591753,;PSMC3IP,downstream_gene_variant,,ENST00000590931,;PSMC3IP,downstream_gene_variant,,ENST00000586337,;	G	ENSG00000108788	ENST00000246912	Transcript	missense_variant	872	819	273	I/M	atC/atG	rs775956555,COSM417512	.	.	1	MLX	HGNC	11645	protein_coding	YES	CCDS11430.1	ENSP00000246912	MLX_HUMAN	.	UPI000012F237	.	tolerated(0.05)	probably_damaging(0.973)	7/8	.	hmmpanther:PTHR15741,hmmpanther:PTHR15741:SF25	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCGAGGA	.	4	BLCA
AOC4P	0	.	GRCh37	17	41020734	41020734	+	RNA	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1439C>G	.	.	ENST00000566825	1/4	51	39	11	47	47	0	AOC4P,non_coding_transcript_exon_variant,,ENST00000563852,;AOC4P,non_coding_transcript_exon_variant,,ENST00000585538,;AOC4P,non_coding_transcript_exon_variant,,ENST00000562301,;AOC4P,upstream_gene_variant,,ENST00000570207,;AOC4P,downstream_gene_variant,,ENST00000569586,;AOC4P,non_coding_transcript_exon_variant,,ENST00000566825,;	G	ENSG00000260105	ENST00000566825	Transcript	non_coding_transcript_exon_variant	1439	.	.	.	.	.	.	.	1	AOC4P	HGNC	48869	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCACCCTAATG	.	3	BLCA
AOC4P	0	.	GRCh37	17	41020753	41020753	+	RNA	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1458C>G	.	.	ENST00000566825	1/4	40	31	8	44	44	0	AOC4P,non_coding_transcript_exon_variant,,ENST00000563852,;AOC4P,non_coding_transcript_exon_variant,,ENST00000585538,;AOC4P,non_coding_transcript_exon_variant,,ENST00000562301,;AOC4P,upstream_gene_variant,,ENST00000570207,;AOC4P,downstream_gene_variant,,ENST00000569586,;AOC4P,non_coding_transcript_exon_variant,,ENST00000566825,;	G	ENSG00000260105	ENST00000566825	Transcript	non_coding_transcript_exon_variant	1458	.	.	.	.	.	.	.	1	AOC4P	HGNC	48869	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAAATCAGACT	.	3	BLCA
AOC4P	0	.	GRCh37	17	41020777	41020777	+	RNA	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1482C>T	.	.	ENST00000566825	1/4	33	26	7	31	31	0	AOC4P,non_coding_transcript_exon_variant,,ENST00000570207,;AOC4P,non_coding_transcript_exon_variant,,ENST00000563852,;AOC4P,non_coding_transcript_exon_variant,,ENST00000585538,;AOC4P,non_coding_transcript_exon_variant,,ENST00000562301,;AOC4P,downstream_gene_variant,,ENST00000569586,;AOC4P,non_coding_transcript_exon_variant,,ENST00000566825,;	T	ENSG00000260105	ENST00000566825	Transcript	non_coding_transcript_exon_variant	1482	.	.	.	.	.	.	.	1	AOC4P	HGNC	48869	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACATCAGCTC	.	3	BLCA
ARL4D	0	.	GRCh37	17	41477529	41477529	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429G>A	p.%3D	p.L143L	ENST00000320033	2/2	17	11	6	23	23	0	ARL4D,synonymous_variant,p.%3D,ENST00000320033,;RNU6-1137P,upstream_gene_variant,,ENST00000517073,;	A	ENSG00000175906	ENST00000320033	Transcript	synonymous_variant	636	429	143	L	ctG/ctA	COSM417501	.	.	1	ARL4D	HGNC	656	protein_coding	YES	CCDS11463.1	ENSP00000322628	ARL4D_HUMAN	.	UPI0000140783	.	.	.	2/2	.	PROSITE_profiles:PS51417,hmmpanther:PTHR11711:SF137,hmmpanther:PTHR11711,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00025,Gene3D:3.40.50.300,SMART_domains:SM00173,SMART_domains:SM00177,SMART_domains:SM00178,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00328	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTGAGCGC	.	5	BLCA
PLCD3	0	.	GRCh37	17	43195457	43195457	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1164delG	p.Pro389GlnfsTer67	p.P389Qfs*67	ENST00000322765	7/16	38	34	4	35	35	0	PLCD3,frameshift_variant,p.Pro389GlnfsTer67,ENST00000322765,;PLCD3,upstream_gene_variant,,ENST00000539433,;PLCD3,downstream_gene_variant,,ENST00000538093,;PLCD3,downstream_gene_variant,,ENST00000590644,;PLCD3,downstream_gene_variant,,ENST00000538988,;PLCD3,non_coding_transcript_exon_variant,,ENST00000540511,;PLCD3,downstream_gene_variant,,ENST00000544446,;PLCD3,upstream_gene_variant,,ENST00000543623,;PLCD3,upstream_gene_variant,,ENST00000545702,;PLCD3,non_coding_transcript_exon_variant,,ENST00000546350,;PLCD3,upstream_gene_variant,,ENST00000544333,;PLCD3,upstream_gene_variant,,ENST00000412978,;PLCD3,downstream_gene_variant,,ENST00000542173,;	-	ENSG00000161714	ENST00000322765	Transcript	frameshift_variant	1278	1164	388	G/X	ggG/gg	.	.	.	-1	PLCD3	HGNC	9061	protein_coding	YES	.	ENSP00000313731	PLCD3_HUMAN	.	UPI00015DFB4E	.	.	.	7/16	.	Prints_domain:PR00390,Superfamily_domains:SSF51695,SMART_domains:SM00148,Pfam_domain:PF00388,Gene3D:3.20.20.190,hmmpanther:PTHR10336:SF33,hmmpanther:PTHR10336,PROSITE_profiles:PS50007	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANS*|PINDEL	TCCTGGCCCCTC	.	2	BLCA
ITGB3	0	.	GRCh37	17	45384893	45384893	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2191C>G	p.Leu731Val	p.L731V	ENST00000559488	14/15	75	57	18	62	62	0	ITGB3,missense_variant,p.Leu684Val,ENST00000435993,;ITGB3,missense_variant,p.Leu731Val,ENST00000559488,;RP11-290H9.4,intron_variant,,ENST00000575039,;RP11-290H9.4,upstream_gene_variant,,ENST00000576345,;ITGB3,missense_variant,p.Leu720Val,ENST00000560629,;	G	ENSG00000259207	ENST00000559488	Transcript	missense_variant	2207	2191	731	L/V	Ctg/Gtg	COSM417481,COSM1133493	.	.	1	ITGB3	HGNC	6156	protein_coding	YES	CCDS11511.1	ENSP00000452786	ITB3_HUMAN	F2X0V0_HUMAN,F1C634_HUMAN,F1C632_HUMAN,F1C630_HUMAN	UPI000013D240	.	tolerated(0.24)	probably_damaging(0.936)	14/15	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10082:SF25,hmmpanther:PTHR10082,Gene3D:1.20.5.100,PIRSF_domain:PIRSF002512,Prints_domain:PR01186	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCTGCTC	.	5	BLCA
ALOX15	0	.	GRCh37	17	4544957	4544957	+	5'UTR	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11C>G	.	.	ENST00000570836	2/15	70	55	15	64	64	0	ALOX15,missense_variant,p.Ser19Cys,ENST00000545513,;ALOX15,5_prime_UTR_variant,,ENST00000293761,;ALOX15,5_prime_UTR_variant,,ENST00000570836,;ALOX15,5_prime_UTR_variant,,ENST00000574640,;ALOX15,5_prime_UTR_variant,,ENST00000576394,;ALOX15,upstream_gene_variant,,ENST00000572265,;ALOX15,non_coding_transcript_exon_variant,,ENST00000573740,;ALOX15,upstream_gene_variant,,ENST00000576572,;	C	ENSG00000161905	ENST00000570836	Transcript	5_prime_UTR_variant	87	.	.	.	.	COSM1645609	.	.	-1	ALOX15	HGNC	433	protein_coding	YES	CCDS11049.1	ENSP00000458832	LOX15_HUMAN	I3L175_HUMAN,D3DTK1_HUMAN	UPI000013E118	.	.	.	2/15	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAAAGATGTT	.	2	BLCA
SKAP1	0	.	GRCh37	17	46239837	46239837	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.972G>C	p.%3D	p.L324L	ENST00000336915	11/13	54	44	10	44	44	0	SKAP1,synonymous_variant,p.%3D,ENST00000584924,;SKAP1,synonymous_variant,p.%3D,ENST00000336915,;SKAP1,3_prime_UTR_variant,,ENST00000581400,;SKAP1,3_prime_UTR_variant,,ENST00000584709,;SKAP1,non_coding_transcript_exon_variant,,ENST00000579476,;	G	ENSG00000141293	ENST00000336915	Transcript	synonymous_variant	1042	972	324	L	ctG/ctC	COSM417476	.	.	-1	SKAP1	HGNC	15605	protein_coding	YES	CCDS32674.1	ENSP00000338171	SKAP1_HUMAN	J3QS38_HUMAN,J3QRG3_HUMAN	UPI0000200EFD	.	.	.	11/13	.	PROSITE_profiles:PS50002,hmmpanther:PTHR15129,hmmpanther:PTHR15129:SF1,Pfam_domain:PF14604,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044,Prints_domain:PR00452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCTCAGAAT	.	2	BLCA
CAMTA2	0	.	GRCh37	17	4877697	4877697	+	Missense_Mutation	SNP	C	C	T	rs372893979	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2068G>A	p.Asp690Asn	p.D690N	ENST00000414043	12/23	129	106	22	112	112	0	CAMTA2,missense_variant,p.Asp667Asn,ENST00000348066,;CAMTA2,missense_variant,p.Asp690Asn,ENST00000414043,;CAMTA2,missense_variant,p.Asp669Asn,ENST00000381311,;CAMTA2,missense_variant,p.Asp667Asn,ENST00000358183,;CAMTA2,missense_variant,p.Asp672Asn,ENST00000572543,;CAMTA2,missense_variant,p.Asp666Asn,ENST00000361571,;RP5-1050D4.2,non_coding_transcript_exon_variant,,ENST00000430920,;CAMTA2,non_coding_transcript_exon_variant,,ENST00000572326,;CAMTA2,downstream_gene_variant,,ENST00000575365,;CAMTA2,3_prime_UTR_variant,,ENST00000574951,;CAMTA2,non_coding_transcript_exon_variant,,ENST00000575192,;CAMTA2,upstream_gene_variant,,ENST00000574442,;CAMTA2,upstream_gene_variant,,ENST00000576872,;	T	ENSG00000108509	ENST00000414043	Transcript	missense_variant	2222	2068	690	D/N	Gat/Aat	rs372893979,COSM417454	.	.	-1	CAMTA2	HGNC	18807	protein_coding	YES	CCDS54072.1	ENSP00000412886	CMTA2_HUMAN	.	UPI0001892BAE	.	tolerated(0.37)	benign(0.003)	12/23	.	hmmpanther:PTHR23335,hmmpanther:PTHR23335:SF4	.	.	.	.	.	.	.	G:0.0002	G:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATCAGGAC	byFrequency|byCluster	4	BLCA
KIF1C	0	.	GRCh37	17	4904541	4904541	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.208C>T	p.Gln70Ter	p.Q70*	ENST00000320785	5/23	168	131	37	151	151	0	KIF1C,stop_gained,p.Gln70Ter,ENST00000574165,;KIF1C,stop_gained,p.Gln70Ter,ENST00000320785,;INCA1,upstream_gene_variant,,ENST00000396829,;INCA1,upstream_gene_variant,,ENST00000355025,;INCA1,upstream_gene_variant,,ENST00000574617,;INCA1,upstream_gene_variant,,ENST00000576820,;INCA1,upstream_gene_variant,,ENST00000575780,;	T	ENSG00000129250	ENST00000320785	Transcript	stop_gained	565	208	70	Q/*	Cag/Tag	COSM417451	.	.	1	KIF1C	HGNC	6317	protein_coding	YES	CCDS11065.1	ENSP00000320821	KIF1C_HUMAN	I3L1B1_HUMAN	UPI0000001C26	.	.	.	5/23	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF322,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCAGCAG	.	5	BLCA
KIF1C	0	.	GRCh37	17	4905849	4905849	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.520C>T	p.%3D	p.L174L	ENST00000320785	7/23	227	180	47	255	255	0	KIF1C,synonymous_variant,p.%3D,ENST00000320785,;INCA1,upstream_gene_variant,,ENST00000396829,;KIF1C,downstream_gene_variant,,ENST00000574165,;INCA1,upstream_gene_variant,,ENST00000355025,;INCA1,upstream_gene_variant,,ENST00000575780,;KIF1C,upstream_gene_variant,,ENST00000572959,;	T	ENSG00000129250	ENST00000320785	Transcript	synonymous_variant	877	520	174	L	Ctg/Ttg	COSM417450	.	.	1	KIF1C	HGNC	6317	protein_coding	YES	CCDS11065.1	ENSP00000320821	KIF1C_HUMAN	I3L1B1_HUMAN	UPI0000001C26	.	.	.	7/23	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF322,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATCCTGGGC	.	5	BLCA
KIF1C	0	.	GRCh37	17	4925875	4925875	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2499C>G	p.%3D	p.L833L	ENST00000320785	22/23	16	11	5	17	17	0	KIF1C,synonymous_variant,p.%3D,ENST00000320785,;AC109333.10,upstream_gene_variant,,ENST00000438266,;KIF1C,downstream_gene_variant,,ENST00000573815,;	G	ENSG00000129250	ENST00000320785	Transcript	synonymous_variant	2856	2499	833	L	ctC/ctG	COSM417449	.	.	1	KIF1C	HGNC	6317	protein_coding	YES	CCDS11065.1	ENSP00000320821	KIF1C_HUMAN	I3L1B1_HUMAN	UPI0000001C26	.	.	.	22/23	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF322	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTCCGGGC	.	5	BLCA
SRSF1	0	.	GRCh37	17	56083263	56083263	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>C	p.Asp151His	p.D151H	ENST00000258962	3/4	111	93	18	122	122	0	SRSF1,missense_variant,p.Asp151His,ENST00000582730,;SRSF1,missense_variant,p.Asp151His,ENST00000258962,;SRSF1,missense_variant,p.Asp151His,ENST00000584773,;SRSF1,intron_variant,,ENST00000585096,;RP11-159D12.5,upstream_gene_variant,,ENST00000578794,;SRSF1,upstream_gene_variant,,ENST00000581497,;SRSF1,missense_variant,p.Asp151His,ENST00000581979,;SRSF1,missense_variant,p.Asp46His,ENST00000584668,;SRSF1,3_prime_UTR_variant,,ENST00000583741,;SRSF1,downstream_gene_variant,,ENST00000578430,;	G	ENSG00000136450	ENST00000258962	Transcript	missense_variant	660	451	151	D/H	Gat/Cat	COSM417434	.	.	-1	SRSF1	HGNC	10780	protein_coding	YES	CCDS11600.1	ENSP00000258962	SRSF1_HUMAN	J3QQV5_HUMAN	UPI0000001220	.	deleterious(0.02)	probably_damaging(0.936)	3/4	.	PROSITE_profiles:PS50102,hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF87,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCAGCAT	.	5	BLCA
CLTC	0	.	GRCh37	17	57697484	57697484	+	5'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9G>C	.	.	ENST00000269122	1/32	57	45	11	47	47	0	CLTC,5_prime_UTR_variant,,ENST00000269122,;CLTC,5_prime_UTR_variant,,ENST00000580081,;CLTC,5_prime_UTR_variant,,ENST00000393043,;CLTC,5_prime_UTR_variant,,ENST00000579456,;CLTC,5_prime_UTR_variant,,ENST00000584313,;	C	ENSG00000141367	ENST00000269122	Transcript	5_prime_UTR_variant	266	.	.	.	.	.	.	.	1	CLTC	HGNC	2092	protein_coding	YES	CCDS32696.1	ENSP00000269122	CLH1_HUMAN	Q49AL0_HUMAN	UPI0000127ABD	.	.	.	1/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCCGACAGC	.	5	BLCA
HEATR6	0	.	GRCh37	17	58156203	58156203	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73G>C	p.Glu25Gln	p.E25Q	ENST00000184956	1/20	28	23	4	15	15	0	HEATR6,missense_variant,p.Glu25Gln,ENST00000585976,;HEATR6,missense_variant,p.Glu25Gln,ENST00000184956,;HEATR6,missense_variant,p.Glu25Gln,ENST00000593228,;HEATR6,missense_variant,p.Glu25Gln,ENST00000593097,;CTD-2319I12.1,downstream_gene_variant,,ENST00000587298,;CTD-2319I12.1,downstream_gene_variant,,ENST00000590012,;CTD-2319I12.1,downstream_gene_variant,,ENST00000590346,;CTD-2319I12.2,upstream_gene_variant,,ENST00000589740,;CTD-2319I12.1,downstream_gene_variant,,ENST00000566140,;CTD-2319I12.1,downstream_gene_variant,,ENST00000592556,;CTD-2319I12.1,downstream_gene_variant,,ENST00000588180,;CTD-2319I12.1,downstream_gene_variant,,ENST00000589987,;HEATR6,non_coding_transcript_exon_variant,,ENST00000585712,;HEATR6,missense_variant,p.Glu25Gln,ENST00000592664,;HEATR6,missense_variant,p.Glu25Gln,ENST00000587003,;HEATR6,non_coding_transcript_exon_variant,,ENST00000591074,;CTD-2319I12.1,downstream_gene_variant,,ENST00000589777,;HEATR6,upstream_gene_variant,,ENST00000590587,;	G	ENSG00000068097	ENST00000184956	Transcript	missense_variant	90	73	25	E/Q	Gag/Cag	COSM417419	.	.	-1	HEATR6	HGNC	24076	protein_coding	YES	CCDS11623.1	ENSP00000184956	HEAT6_HUMAN	K7ELR8_HUMAN	UPI0000366C37	.	tolerated_low_confidence(0.11)	benign(0.074)	1/20	.	hmmpanther:PTHR13366	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCGCTCAGGGA	.	4	BLCA
MED13	0	.	GRCh37	17	60072581	60072581	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113G>A	p.Glu705Lys	p.E705K	ENST00000397786	10/30	177	123	53	179	179	0	MED13,missense_variant,p.Glu705Lys,ENST00000397786,;	T	ENSG00000108510	ENST00000397786	Transcript	missense_variant	2190	2113	705	E/K	Gag/Aag	COSM417410	.	.	-1	MED13	HGNC	22474	protein_coding	YES	CCDS42366.1	ENSP00000380888	MED13_HUMAN	.	UPI0000D7D6F6	.	tolerated(0.09)	benign(0.135)	10/30	.	hmmpanther:PTHR12950:SF22,hmmpanther:PTHR12950	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCATCTC	.	5	BLCA
CCDC47	0	.	GRCh37	17	61842116	61842116	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356C>T	p.Pro119Leu	p.P119L	ENST00000225726	3/13	135	102	33	131	131	0	CCDC47,missense_variant,p.Pro119Leu,ENST00000582252,;CCDC47,missense_variant,p.Pro119Leu,ENST00000225726,;CCDC47,missense_variant,p.Pro119Leu,ENST00000403162,;CCDC47,downstream_gene_variant,,ENST00000580986,;CCDC47,upstream_gene_variant,,ENST00000582331,;CCDC47,downstream_gene_variant,,ENST00000584112,;	A	ENSG00000108588	ENST00000225726	Transcript	missense_variant	739	356	119	P/L	cCa/cTa	COSM417403	.	.	-1	CCDC47	HGNC	24856	protein_coding	YES	CCDS11643.1	ENSP00000225726	CCD47_HUMAN	.	UPI000003B0A2	.	deleterious(0.01)	benign(0.004)	3/13	.	hmmpanther:PTHR12883	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATTGGGTCT	.	5	BLCA
TEX2	0	.	GRCh37	17	62290676	62290676	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.902C>G	p.Pro301Arg	p.P301R	ENST00000258991	2/12	82	59	22	82	82	0	TEX2,missense_variant,p.Pro301Arg,ENST00000584379,;TEX2,missense_variant,p.Pro301Arg,ENST00000258991,;TEX2,missense_variant,p.Pro301Arg,ENST00000583097,;TEX2,downstream_gene_variant,,ENST00000583922,;TEX2,upstream_gene_variant,,ENST00000583501,;TEX2,downstream_gene_variant,,ENST00000583738,;	C	ENSG00000136478	ENST00000258991	Transcript	missense_variant	987	902	301	P/R	cCt/cGt	COSM417400	.	.	-1	TEX2	HGNC	30884	protein_coding	YES	CCDS11658.1	ENSP00000258991	TEX2_HUMAN	Q9NX99_HUMAN,J3QKY0_HUMAN,J3KRY2_HUMAN	UPI00001AE7BC	.	deleterious(0)	probably_damaging(1)	2/12	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAAGGCTCA	.	5	BLCA
POLG2	0	.	GRCh37	17	62493011	62493011	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>C	p.Asp26His	p.D26H	ENST00000539111	1/8	160	118	42	172	171	0	POLG2,missense_variant,p.Asp26His,ENST00000539111,;DDX5,downstream_gene_variant,,ENST00000578804,;DDX5,downstream_gene_variant,,ENST00000450599,;DDX5,downstream_gene_variant,,ENST00000225792,;POLG2,upstream_gene_variant,,ENST00000581355,;MIR3064,downstream_gene_variant,,ENST00000581130,;MIR5047,downstream_gene_variant,,ENST00000579212,;POLG2,upstream_gene_variant,,ENST00000578687,;DDX5,downstream_gene_variant,,ENST00000580026,;POLG2,upstream_gene_variant,,ENST00000580893,;DDX5,downstream_gene_variant,,ENST00000581237,;DDX5,downstream_gene_variant,,ENST00000578491,;POLG2,non_coding_transcript_exon_variant,,ENST00000585141,;DDX5,downstream_gene_variant,,ENST00000540698,;DDX5,downstream_gene_variant,,ENST00000579461,;DDX5,downstream_gene_variant,,ENST00000578758,;DDX5,downstream_gene_variant,,ENST00000581230,;POLG2,upstream_gene_variant,,ENST00000578997,;DDX5,downstream_gene_variant,,ENST00000585317,;DDX5,downstream_gene_variant,,ENST00000581693,;	G	ENSG00000256525	ENST00000539111	Transcript	missense_variant	144	76	26	D/H	Gat/Cat	COSM417399	.	.	-1	POLG2	HGNC	9180	protein_coding	YES	CCDS32706.1	ENSP00000442563	DPOG2_HUMAN	E5KS15_HUMAN,J3KRM2_HUMAN	UPI000012974A	.	deleterious_low_confidence(0.03)	benign(0.259)	1/8	.	hmmpanther:PTHR10745	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCATCTACTC	.	5	BLCA
SLC16A6	0	.	GRCh37	17	66270075	66270075	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369C>T	p.%3D	p.I123I	ENST00000327268	4/7	72	53	19	83	83	0	SLC16A6,synonymous_variant,p.%3D,ENST00000580666,;SLC16A6,synonymous_variant,p.%3D,ENST00000327268,;SLC16A6,intron_variant,,ENST00000583477,;ARSG,intron_variant,,ENST00000448504,;SLC16A6,downstream_gene_variant,,ENST00000582867,;ARSG,non_coding_transcript_exon_variant,,ENST00000578726,;	A	ENSG00000108932	ENST00000327268	Transcript	synonymous_variant	534	369	123	I	atC/atT	COSM417384	.	.	-1	SLC16A6	HGNC	10927	protein_coding	YES	CCDS11675.1	ENSP00000319991	MOT7_HUMAN	J3KS02_HUMAN,A1L174_HUMAN	UPI00001AA3B9	.	.	.	4/7	.	Superfamily_domains:SSF103473,Gene3D:1.20.1250.20,Pfam_domain:PF07690,hmmpanther:PTHR11360:SF20,hmmpanther:PTHR11360,PROSITE_profiles:PS50850,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGATGATGCC	.	3	BLCA
ABCA8	0	.	GRCh37	17	66914280	66914280	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1835G>C	p.Arg612Thr	p.R612T	ENST00000269080	14/38	91	75	16	71	71	0	ABCA8,missense_variant,p.Arg612Thr,ENST00000269080,;ABCA8,missense_variant,p.Arg652Thr,ENST00000430352,;ABCA8,missense_variant,p.Arg652Thr,ENST00000586539,;ABCA8,missense_variant,p.Arg300Thr,ENST00000589533,;ABCA8,non_coding_transcript_exon_variant,,ENST00000587206,;ABCA8,non_coding_transcript_exon_variant,,ENST00000541225,;	G	ENSG00000141338	ENST00000269080	Transcript	missense_variant	1973	1835	612	R/T	aGa/aCa	COSM417381	.	.	-1	ABCA8	HGNC	38	protein_coding	YES	CCDS11680.1	ENSP00000269080	ABCA8_HUMAN	K7ELK9_HUMAN	UPI000004C4B7	.	deleterious(0)	probably_damaging(0.987)	14/38	.	PROSITE_profiles:PS50893,hmmpanther:PTHR19229:SF115,hmmpanther:PTHR19229,Gene3D:3.40.50.300,Pfam_domain:PF00005,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGTCTTGAA	.	5	BLCA
ABCA10	0	.	GRCh37	17	67187420	67187420	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1908C>G	p.Ile636Met	p.I636M	ENST00000269081	18/40	97	74	23	61	61	0	ABCA10,missense_variant,p.Ile636Met,ENST00000269081,;ABCA10,3_prime_UTR_variant,,ENST00000416101,;ABCA10,missense_variant,p.Ile636Met,ENST00000523419,;ABCA10,3_prime_UTR_variant,,ENST00000522406,;ABCA10,3_prime_UTR_variant,,ENST00000518929,;	C	ENSG00000154263	ENST00000269081	Transcript	missense_variant	2818	1908	636	I/M	atC/atG	COSM417374,COSM3521443	.	.	-1	ABCA10	HGNC	30	protein_coding	YES	CCDS11684.1	ENSP00000269081	ABCAA_HUMAN	K7ERP5_HUMAN	UPI000013D7F6	.	tolerated(0.1)	benign(0.403)	18/40	.	hmmpanther:PTHR19229:SF120,hmmpanther:PTHR19229	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGTGATTTT	.	5	BLCA
DLG4	0	.	GRCh37	17	7122147	7122147	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19+3G>A	.	.	ENST00000399510	.	58	43	15	63	63	0	DLG4,splice_region_variant,,ENST00000399510,;ACADVL,intron_variant,,ENST00000543245,;ACADVL,upstream_gene_variant,,ENST00000542255,;ACADVL,upstream_gene_variant,,ENST00000584103,;ACADVL,upstream_gene_variant,,ENST00000579546,;DLG4,upstream_gene_variant,,ENST00000485100,;ACADVL,upstream_gene_variant,,ENST00000356839,;DLG4,upstream_gene_variant,,ENST00000399506,;DLG4,upstream_gene_variant,,ENST00000447163,;DLG4,upstream_gene_variant,,ENST00000302955,;ACADVL,upstream_gene_variant,,ENST00000350303,;ACADVL,upstream_gene_variant,,ENST00000583312,;ACADVL,upstream_gene_variant,,ENST00000579886,;DLG4,upstream_gene_variant,,ENST00000451807,;MIR324,downstream_gene_variant,,ENST00000362183,;ACADVL,upstream_gene_variant,,ENST00000583074,;ACADVL,upstream_gene_variant,,ENST00000577857,;ACADVL,upstream_gene_variant,,ENST00000581562,;ACADVL,upstream_gene_variant,,ENST00000578421,;ACADVL,upstream_gene_variant,,ENST00000322910,;ACADVL,upstream_gene_variant,,ENST00000582379,;ACADVL,upstream_gene_variant,,ENST00000579286,;ACADVL,upstream_gene_variant,,ENST00000580263,;ACADVL,upstream_gene_variant,,ENST00000577191,;ACADVL,upstream_gene_variant,,ENST00000578269,;ACADVL,upstream_gene_variant,,ENST00000585203,;ACADVL,upstream_gene_variant,,ENST00000578711,;ACADVL,upstream_gene_variant,,ENST00000582356,;ACADVL,upstream_gene_variant,,ENST00000583760,;ACADVL,upstream_gene_variant,,ENST00000577433,;ACADVL,upstream_gene_variant,,ENST00000582166,;ACADVL,upstream_gene_variant,,ENST00000578824,;ACADVL,upstream_gene_variant,,ENST00000579425,;ACADVL,upstream_gene_variant,,ENST00000583858,;ACADVL,upstream_gene_variant,,ENST00000583850,;ACADVL,upstream_gene_variant,,ENST00000580365,;ACADVL,upstream_gene_variant,,ENST00000578579,;ACADVL,upstream_gene_variant,,ENST00000582056,;ACADVL,upstream_gene_variant,,ENST00000581378,;	T	ENSG00000132535	ENST00000399510	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	DLG4	HGNC	2903	protein_coding	YES	CCDS45599.1	ENSP00000382428	DLG4_HUMAN	Q3ZCU5_HUMAN,K7EKU8_HUMAN,K7EKP9_HUMAN,B9EGL1_HUMAN,B7Z647_HUMAN	UPI0000048D63	.	.	.	.	1/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCACCTC	.	4	BLCA
OTOP2	0	.	GRCh37	17	72929594	72929594	+	Missense_Mutation	SNP	G	G	A	rs201869769	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1643G>A	p.Arg548His	p.R548H	ENST00000331427	7/7	126	97	29	123	123	0	OTOP2,missense_variant,p.Arg548His,ENST00000580223,;OTOP2,missense_variant,p.Arg548His,ENST00000331427,;OTOP3,upstream_gene_variant,,ENST00000328801,;OTOP3,upstream_gene_variant,,ENST00000580749,;	A	ENSG00000183034	ENST00000331427	Transcript	missense_variant	1735	1643	548	R/H	cGc/cAc	rs201869769,COSM417343	.	.	1	OTOP2	HGNC	19657	protein_coding	YES	CCDS11708.1	ENSP00000332528	OTOP2_HUMAN	.	UPI000018F613	.	deleterious(0)	probably_damaging(1)	7/7	.	hmmpanther:PTHR21522:SF35,hmmpanther:PTHR21522,Pfam_domain:PF03189	.	.	.	.	.	.	.	A:0.0005	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R548H|c.1643G>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACCGCATGC	byCluster	5	BLCA
HID1	0	.	GRCh37	17	72948414	72948414	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2094G>A	p.Met698Ile	p.M698I	ENST00000425042	17/19	48	32	15	55	55	0	HID1,missense_variant,p.Met698Ile,ENST00000425042,;OTOP3,downstream_gene_variant,,ENST00000328801,;HID1,downstream_gene_variant,,ENST00000578002,;HID1,3_prime_UTR_variant,,ENST00000534480,;HID1,non_coding_transcript_exon_variant,,ENST00000532395,;HID1,downstream_gene_variant,,ENST00000532894,;OTOP3,downstream_gene_variant,,ENST00000580749,;	T	ENSG00000167861	ENST00000425042	Transcript	missense_variant	2172	2094	698	M/I	atG/atA	COSM417341	.	.	-1	HID1	HGNC	15736	protein_coding	YES	CCDS32726.1	ENSP00000413520	HID1_HUMAN	Q8NC03_HUMAN,B4E226_HUMAN	UPI00000746AC	.	tolerated(0.06)	possibly_damaging(0.733)	17/19	.	Pfam_domain:PF12722,hmmpanther:PTHR21575,hmmpanther:PTHR21575:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCCTCATGAT	.	3	BLCA
TK1	0	.	GRCh37	17	76171137	76171137	+	Silent	SNP	C	C	T	rs746775840	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507G>A	p.%3D	p.E169E	ENST00000301634	6/7	36	23	13	30	30	0	TK1,synonymous_variant,p.%3D,ENST00000590862,;TK1,synonymous_variant,p.%3D,ENST00000586613,;TK1,synonymous_variant,p.%3D,ENST00000405273,;TK1,synonymous_variant,p.%3D,ENST00000301634,;TK1,synonymous_variant,p.%3D,ENST00000588734,;TK1,3_prime_UTR_variant,,ENST00000590430,;SYNGR2,downstream_gene_variant,,ENST00000225777,;SYNGR2,downstream_gene_variant,,ENST00000589168,;SYNGR2,downstream_gene_variant,,ENST00000589711,;SYNGR2,downstream_gene_variant,,ENST00000585591,;SYNGR2,downstream_gene_variant,,ENST00000588282,;SYNGR2,downstream_gene_variant,,ENST00000590201,;SYNGR2,downstream_gene_variant,,ENST00000592456,;SYNGR2,downstream_gene_variant,,ENST00000591770,;TK1,downstream_gene_variant,,ENST00000592126,;SYNGR2,downstream_gene_variant,,ENST00000589183,;	T	ENSG00000167900	ENST00000301634	Transcript	synonymous_variant	746	507	169	E	gaG/gaA	rs746775840,COSM417954,COSM417955	.	.	-1	TK1	HGNC	11830	protein_coding	YES	CCDS11754.1	ENSP00000301634	KITH_HUMAN	.	UPI000012DE94	.	.	.	6/7	.	hmmpanther:PTHR11441:SF0,hmmpanther:PTHR11441,Pfam_domain:PF00265,Gene3D:3.30.60.20,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCTTCTCTGT	byFrequency	3	BLCA
TK1	0	.	GRCh37	17	76171139	76171139	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.505G>A	p.Glu169Lys	p.E169K	ENST00000301634	6/7	36	23	13	32	32	0	TK1,missense_variant,p.Glu169Lys,ENST00000590862,;TK1,missense_variant,p.Glu177Lys,ENST00000586613,;TK1,missense_variant,p.Glu169Lys,ENST00000405273,;TK1,missense_variant,p.Glu169Lys,ENST00000301634,;TK1,missense_variant,p.Glu169Lys,ENST00000588734,;TK1,3_prime_UTR_variant,,ENST00000590430,;SYNGR2,downstream_gene_variant,,ENST00000225777,;SYNGR2,downstream_gene_variant,,ENST00000589168,;SYNGR2,downstream_gene_variant,,ENST00000589711,;SYNGR2,downstream_gene_variant,,ENST00000585591,;SYNGR2,downstream_gene_variant,,ENST00000588282,;SYNGR2,downstream_gene_variant,,ENST00000590201,;SYNGR2,downstream_gene_variant,,ENST00000592456,;SYNGR2,downstream_gene_variant,,ENST00000591770,;TK1,downstream_gene_variant,,ENST00000592126,;SYNGR2,downstream_gene_variant,,ENST00000589183,;	T	ENSG00000167900	ENST00000301634	Transcript	missense_variant	744	505	169	E/K	Gag/Aag	COSM417952,COSM417953	.	.	-1	TK1	HGNC	11830	protein_coding	YES	CCDS11754.1	ENSP00000301634	KITH_HUMAN	.	UPI000012DE94	.	deleterious(0.01)	benign(0.44)	6/7	.	hmmpanther:PTHR11441:SF0,hmmpanther:PTHR11441,Pfam_domain:PF00265,Gene3D:3.30.60.20,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTCTCTGTGC	.	3	BLCA
ENGASE	0	.	GRCh37	17	77078258	77078258	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1038+113C>G	.	.	ENST00000579016	.	21	13	8	21	21	0	ENGASE,missense_variant,p.Ser343Cys,ENST00000311595,;ENGASE,missense_variant,p.Ser198Cys,ENST00000539857,;ENGASE,intron_variant,,ENST00000579016,;ENGASE,intron_variant,,ENST00000584568,;ENGASE,upstream_gene_variant,,ENST00000585160,;ENGASE,missense_variant,p.Ser161Cys,ENST00000300682,;ENGASE,3_prime_UTR_variant,,ENST00000578419,;ENGASE,non_coding_transcript_exon_variant,,ENST00000583646,;ENGASE,upstream_gene_variant,,ENST00000579809,;ENGASE,upstream_gene_variant,,ENST00000583041,;ENGASE,upstream_gene_variant,,ENST00000577783,;	G	ENSG00000167280	ENST00000579016	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ENGASE	HGNC	24622	protein_coding	YES	CCDS42394.1	ENSP00000462333	ENASE_HUMAN	.	UPI000006CF27	.	.	.	.	7/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCTTCCC	.	5	BLCA
RNF213	0	.	GRCh37	17	78353431	78353431	+	Silent	SNP	G	G	A	rs766162624	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13557G>A	p.%3D	p.P4519P	ENST00000582970	55/68	146	111	35	140	140	0	RNF213,synonymous_variant,p.%3D,ENST00000336301,;RNF213,synonymous_variant,p.%3D,ENST00000582970,;RNF213,synonymous_variant,p.%3D,ENST00000508628,;RNF213,downstream_gene_variant,,ENST00000573038,;CTD-2047H16.4,intron_variant,,ENST00000572151,;CTD-2047H16.4,intron_variant,,ENST00000575034,;CTD-2047H16.4,downstream_gene_variant,,ENST00000573394,;RNF213,upstream_gene_variant,,ENST00000427003,;RNF213,non_coding_transcript_exon_variant,,ENST00000574909,;RNF213,non_coding_transcript_exon_variant,,ENST00000572622,;RNF213,non_coding_transcript_exon_variant,,ENST00000558116,;RNF213,non_coding_transcript_exon_variant,,ENST00000411702,;RNF213,downstream_gene_variant,,ENST00000559864,;	A	ENSG00000173821	ENST00000582970	Transcript	synonymous_variant	13700	13557	4519	P	ccG/ccA	rs766162624,COSM417933	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	.	55/68	.	hmmpanther:PTHR22605,hmmpanther:PTHR22605:SF5	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGATGGA	byFrequency	5	BLCA
SLC38A10	0	.	GRCh37	17	79226054	79226054	+	Missense_Mutation	SNP	C	C	A	rs750774319	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1886G>T	p.Gly629Val	p.G629V	ENST00000374759	13/16	91	70	21	105	105	0	SLC38A10,missense_variant,p.Gly629Val,ENST00000374759,;SLC38A10,missense_variant,p.Gly7Val,ENST00000576151,;SLC38A10,missense_variant,p.Gly7Val,ENST00000540966,;SLC38A10,missense_variant,p.Gly629Val,ENST00000288439,;SLC38A10,non_coding_transcript_exon_variant,,ENST00000573058,;SLC38A10,non_coding_transcript_exon_variant,,ENST00000542075,;SLC38A10,upstream_gene_variant,,ENST00000539643,;	A	ENSG00000157637	ENST00000374759	Transcript	missense_variant	2270	1886	629	G/V	gGa/gTa	rs750774319,COSM417924,COSM417923	.	.	-1	SLC38A10	HGNC	28237	protein_coding	YES	CCDS42397.1	ENSP00000363891	S38AA_HUMAN	F5H3T4_HUMAN	UPI000066DA6A	.	tolerated(0.78)	benign(0)	13/16	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGTCCCCCC	byFrequency	5	BLCA
RAB40B	0	.	GRCh37	17	80616472	80616472	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460G>C	p.Glu154Gln	p.E154Q	ENST00000571995	5/6	121	86	35	105	105	0	RAB40B,missense_variant,p.Glu154Gln,ENST00000571995,;RAB40B,5_prime_UTR_variant,,ENST00000269347,;RAB40B,intron_variant,,ENST00000538809,;RAB40B,intron_variant,,ENST00000576148,;RAB40B,upstream_gene_variant,,ENST00000571880,;RAB40B,downstream_gene_variant,,ENST00000571554,;RAB40B,downstream_gene_variant,,ENST00000572603,;RAB40B,non_coding_transcript_exon_variant,,ENST00000574132,;RAB40B,non_coding_transcript_exon_variant,,ENST00000576359,;RAB40B,non_coding_transcript_exon_variant,,ENST00000570676,;RAB40B,non_coding_transcript_exon_variant,,ENST00000573395,;	G	ENSG00000141542	ENST00000571995	Transcript	missense_variant	592	460	154	E/Q	Gag/Cag	COSM417904	.	.	-1	RAB40B	HGNC	18284	protein_coding	YES	CCDS11816.1	ENSP00000461785	RB40B_HUMAN	J3KN64_HUMAN	UPI0000133001	.	deleterious(0)	probably_damaging(0.999)	5/6	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073:SF344,hmmpanther:PTHR24073,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00174,SMART_domains:SM00175,SMART_domains:SM00173,SMART_domains:SM00176,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCAAAGA	.	5	BLCA
AURKB	0	.	GRCh37	17	8111097	8111097	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.110C>A	p.Ser37Tyr	p.S37Y	ENST00000585124	3/9	66	54	12	53	53	0	AURKB,missense_variant,p.Ser37Tyr,ENST00000585124,;AURKB,missense_variant,p.Ser37Tyr,ENST00000535053,;AURKB,missense_variant,p.Ser37Tyr,ENST00000581511,;AURKB,missense_variant,p.Ser37Tyr,ENST00000578549,;AURKB,missense_variant,p.Ser37Tyr,ENST00000316199,;AURKB,5_prime_UTR_variant,,ENST00000582368,;AURKB,5_prime_UTR_variant,,ENST00000534871,;AURKB,5_prime_UTR_variant,,ENST00000577833,;AURKB,5_prime_UTR_variant,,ENST00000583915,;AURKB,upstream_gene_variant,,ENST00000584972,;AURKB,missense_variant,p.Ser37Tyr,ENST00000580998,;AURKB,non_coding_transcript_exon_variant,,ENST00000580390,;AURKB,non_coding_transcript_exon_variant,,ENST00000584561,;AURKB,downstream_gene_variant,,ENST00000583124,;AURKB,upstream_gene_variant,,ENST00000578753,;	T	ENSG00000178999	ENST00000585124	Transcript	missense_variant	204	110	37	S/Y	tCt/tAt	COSM417900	.	.	-1	AURKB	HGNC	11390	protein_coding	YES	CCDS11134.1	ENSP00000463999	AURKB_HUMAN	J3QR41_HUMAN,J3KTD6_HUMAN,J3KRJ2_HUMAN	UPI000013FD00	.	deleterious(0.01)	possibly_damaging(0.736)	3/9	.	hmmpanther:PTHR24350:SF4,hmmpanther:PTHR24350,Gene3D:3.30.200.20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCAGATGGG	.	4	BLCA
CTC1	0	.	GRCh37	17	8131452	8131452	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46G>C	.	.	ENST00000315684	23/23	96	78	18	62	62	0	CTC1,3_prime_UTR_variant,,ENST00000315684,;CTC1,3_prime_UTR_variant,,ENST00000581729,;CTC1,downstream_gene_variant,,ENST00000580299,;RP11-849F2.8,upstream_gene_variant,,ENST00000602405,;LINC00324,upstream_gene_variant,,ENST00000315707,;CTC1,3_prime_UTR_variant,,ENST00000449476,;CTC1,downstream_gene_variant,,ENST00000578441,;CTC1,downstream_gene_variant,,ENST00000578537,;CTC1,downstream_gene_variant,,ENST00000584439,;CTC1,downstream_gene_variant,,ENST00000581967,;CTC1,downstream_gene_variant,,ENST00000583254,;CTC1,downstream_gene_variant,,ENST00000578240,;	G	ENSG00000178971	ENST00000315684	Transcript	3_prime_UTR_variant	3708	.	.	.	.	.	.	.	-1	CTC1	HGNC	26169	protein_coding	YES	CCDS42259.1	ENSP00000313759	CTC1_HUMAN	.	UPI000041A9A9	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTCAGGTT	.	5	BLCA
STX8	0	.	GRCh37	17	9448576	9448576	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.236G>A	p.Arg79Lys	p.R79K	ENST00000306357	4/8	143	113	30	107	107	0	STX8,missense_variant,p.Arg79Lys,ENST00000306357,;STX8,missense_variant,p.Arg79Lys,ENST00000573016,;STX8,5_prime_UTR_variant,,ENST00000574431,;RP11-565F19.3,upstream_gene_variant,,ENST00000574460,;STX8,non_coding_transcript_exon_variant,,ENST00000573881,;STX8,intron_variant,,ENST00000575858,;STX8,intron_variant,,ENST00000575294,;	T	ENSG00000170310	ENST00000306357	Transcript	missense_variant	664	236	79	R/K	aGa/aAa	COSM417895,COSM1717309	.	.	-1	STX8	HGNC	11443	protein_coding	YES	CCDS32565.1	ENSP00000305255	STX8_HUMAN	K7EQB1_HUMAN,I3L305_HUMAN	UPI0000136169	.	deleterious(0.01)	possibly_damaging(0.745)	4/8	.	hmmpanther:PTHR12380	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R79T|c.236G>C|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTCTTCGG	.	5	BLCA
ROCK1	0	.	GRCh37	18	18549123	18549123	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2867G>C	p.Arg956Thr	p.R956T	ENST00000399799	24/33	71	51	20	80	80	0	ROCK1,missense_variant,p.Arg956Thr,ENST00000399799,;ROCK1,non_coding_transcript_exon_variant,,ENST00000584875,;ROCK1,downstream_gene_variant,,ENST00000583556,;	G	ENSG00000067900	ENST00000399799	Transcript	missense_variant	3808	2867	956	R/T	aGa/aCa	COSM417884	.	.	-1	ROCK1	HGNC	10251	protein_coding	YES	CCDS11870.2	ENSP00000382697	ROCK1_HUMAN	.	UPI000006F0A4	.	tolerated(0.39)	benign(0.002)	24/33	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF28,Pfam_domain:PF08912,Gene3D:1.20.5.730,PIRSF_domain:PIRSF037568,Superfamily_domains:SSF103652	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCTTAAT	.	5	BLCA
METTL4	0	.	GRCh37	18	2547371	2547371	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057G>C	p.Glu353Gln	p.E353Q	ENST00000574538	6/9	138	104	34	130	130	0	METTL4,missense_variant,p.Glu85Gln,ENST00000576251,;METTL4,missense_variant,p.Glu353Gln,ENST00000319888,;METTL4,missense_variant,p.Glu353Gln,ENST00000574538,;METTL4,non_coding_transcript_exon_variant,,ENST00000573134,;	G	ENSG00000101574	ENST00000574538	Transcript	missense_variant	1833	1057	353	E/Q	Gag/Cag	COSM417874	.	.	-1	METTL4	HGNC	24726	protein_coding	YES	CCDS11826.1	ENSP00000458290	METL4_HUMAN	I3L4A0_HUMAN,I3L0Y1_HUMAN	UPI000020191B	.	deleterious(0.03)	probably_damaging(0.93)	6/9	.	PROSITE_profiles:PS51143,hmmpanther:PTHR14475:SF2,hmmpanther:PTHR14475,Pfam_domain:PF05063,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCAGCAA	.	5	BLCA
EMILIN2	0	.	GRCh37	18	2892354	2892354	+	Silent	SNP	G	G	A	rs200645018	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2229G>A	p.%3D	p.Q743Q	ENST00000254528	4/8	85	65	20	116	116	0	EMILIN2,synonymous_variant,p.%3D,ENST00000254528,;	A	ENSG00000132205	ENST00000254528	Transcript	synonymous_variant	2388	2229	743	Q	caG/caA	rs200645018,COSM417868	.	.	1	EMILIN2	HGNC	19881	protein_coding	YES	CCDS11828.1	ENSP00000254528	EMIL2_HUMAN	.	UPI000013CE3E	.	.	.	4/8	.	hmmpanther:PTHR15427,hmmpanther:PTHR15427:SF5	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCAGATGAA	.	5	BLCA
MEP1B	0	.	GRCh37	18	29795197	29795197	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1732G>A	p.Asp578Asn	p.D578N	ENST00000269202	12/15	43	40	3	51	51	0	MEP1B,missense_variant,p.Asp578Asn,ENST00000269202,;MEP1B,missense_variant,p.Asp578Asn,ENST00000581447,;GAREM,intron_variant,,ENST00000583696,;	A	ENSG00000141434	ENST00000269202	Transcript	missense_variant	1779	1732	578	D/N	Gat/Aat	COSM417861	.	.	1	MEP1B	HGNC	7020	protein_coding	YES	CCDS45846.1	ENSP00000269202	MEP1B_HUMAN	J3KRK1_HUMAN	UPI0000201B8B	.	tolerated(0.11)	benign(0.097)	12/15	.	PROSITE_profiles:PS50144,hmmpanther:PTHR10127:SF312,hmmpanther:PTHR10127,Pfam_domain:PF00917,Gene3D:2.60.210.10,PIRSF_domain:PIRSF001196,Superfamily_domains:SSF49599	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGATGATGTT	.	2	BLCA
NOL4	0	.	GRCh37	18	31709969	31709969	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280G>C	p.Asp94His	p.D94H	ENST00000261592	2/11	76	57	19	63	63	0	NOL4,missense_variant,p.Asp94His,ENST00000261592,;NOL4,missense_variant,p.Asp94His,ENST00000589544,;NOL4,missense_variant,p.Asp20His,ENST00000538587,;NOL4,missense_variant,p.Asp78His,ENST00000590712,;NOL4,5_prime_UTR_variant,,ENST00000269185,;NOL4,5_prime_UTR_variant,,ENST00000535475,;NOL4,non_coding_transcript_exon_variant,,ENST00000587953,;NOL4,non_coding_transcript_exon_variant,,ENST00000587971,;NOL4,non_coding_transcript_exon_variant,,ENST00000588280,;NOL4,missense_variant,p.Asp20His,ENST00000586314,;NOL4,missense_variant,p.Asp20His,ENST00000591917,;NOL4,3_prime_UTR_variant,,ENST00000586309,;	G	ENSG00000101746	ENST00000261592	Transcript	missense_variant	578	280	94	D/H	Gat/Cat	COSM417856	.	.	-1	NOL4	HGNC	7870	protein_coding	YES	CCDS11907.2	ENSP00000261592	NOL4_HUMAN	.	UPI000059D504	.	tolerated(0.06)	possibly_damaging(0.902)	2/11	.	hmmpanther:PTHR12449,hmmpanther:PTHR12449:SF8	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCTACCC	.	5	BLCA
ZSCAN30	0	.	GRCh37	18	32833853	32833853	+	Missense_Mutation	SNP	C	C	T	rs553339887	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1046G>A	p.Arg349Lys	p.R349K	ENST00000420878	5/5	182	147	34	156	156	0	ZSCAN30,missense_variant,p.Arg349Lys,ENST00000420878,;ZSCAN30,missense_variant,p.Arg349Lys,ENST00000333206,;ZNF397,intron_variant,,ENST00000261333,;ZNF397,intron_variant,,ENST00000355632,;ZNF397,intron_variant,,ENST00000592264,;ZNF397,intron_variant,,ENST00000589420,;ZSCAN30,non_coding_transcript_exon_variant,,ENST00000590777,;ZNF397,upstream_gene_variant,,ENST00000591505,;	T	ENSG00000186814	ENST00000420878	Transcript	missense_variant	1502	1046	349	R/K	aGa/aAa	rs553339887,COSM988120,COSM417853	.	.	-1	ZSCAN30	HGNC	33517	protein_coding	YES	CCDS42427.1	ENSP00000392371	ZSC30_HUMAN	K7ERA9_HUMAN,K7EPB0_HUMAN	UPI00001867D6	.	deleterious(0.04)	benign(0.276)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23226,hmmpanther:PTHR23226:SF47,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATTCTCTGA	by1000G	5	BLCA
DLGAP1	0	.	GRCh37	18	3508616	3508616	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2523C>G	p.%3D	p.L841L	ENST00000315677	11/13	86	69	17	72	72	0	DLGAP1,synonymous_variant,p.%3D,ENST00000581527,;DLGAP1,synonymous_variant,p.%3D,ENST00000315677,;DLGAP1,synonymous_variant,p.%3D,ENST00000400149,;DLGAP1,synonymous_variant,p.%3D,ENST00000584874,;DLGAP1,synonymous_variant,p.%3D,ENST00000400145,;DLGAP1,synonymous_variant,p.%3D,ENST00000400150,;DLGAP1,synonymous_variant,p.%3D,ENST00000400155,;DLGAP1,synonymous_variant,p.%3D,ENST00000400147,;DLGAP1,synonymous_variant,p.%3D,ENST00000539435,;DLGAP1,synonymous_variant,p.%3D,ENST00000515196,;DLGAP1,synonymous_variant,p.%3D,ENST00000534970,;DLGAP1,synonymous_variant,p.%3D,ENST00000581699,;	C	ENSG00000170579	ENST00000315677	Transcript	synonymous_variant	3119	2523	841	L	ctC/ctG	COSM1133527	.	.	-1	DLGAP1	HGNC	2905	protein_coding	YES	CCDS11836.1	ENSP00000316377	DLGP1_HUMAN	.	UPI0000129490	.	.	.	11/13	.	hmmpanther:PTHR12353:SF7,hmmpanther:PTHR12353,Pfam_domain:PF03359	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCATGAGAAG	.	5	BLCA
ATP5A1	0	.	GRCh37	18	43669842	43669842	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430G>A	p.Glu144Lys	p.E144K	ENST00000282050	5/13	108	88	20	117	117	0	ATP5A1,missense_variant,p.Glu94Lys,ENST00000589869,;ATP5A1,missense_variant,p.Glu94Lys,ENST00000590324,;ATP5A1,missense_variant,p.Glu94Lys,ENST00000592989,;ATP5A1,missense_variant,p.Glu144Lys,ENST00000590406,;ATP5A1,missense_variant,p.Glu144Lys,ENST00000282050,;ATP5A1,missense_variant,p.Glu144Lys,ENST00000398752,;ATP5A1,missense_variant,p.Glu94Lys,ENST00000593152,;ATP5A1,missense_variant,p.Glu55Lys,ENST00000589252,;ATP5A1,intron_variant,,ENST00000590665,;ATP5A1,downstream_gene_variant,,ENST00000591267,;ATP5A1,3_prime_UTR_variant,,ENST00000591981,;ATP5A1,3_prime_UTR_variant,,ENST00000590156,;ATP5A1,3_prime_UTR_variant,,ENST00000586592,;ATP5A1,non_coding_transcript_exon_variant,,ENST00000589611,;ATP5A1,non_coding_transcript_exon_variant,,ENST00000590448,;ATP5A1,intron_variant,,ENST00000592364,;ATP5A1,upstream_gene_variant,,ENST00000586523,;ATP5A1,downstream_gene_variant,,ENST00000585650,;ATP5A1,upstream_gene_variant,,ENST00000587902,;ATP5A1,downstream_gene_variant,,ENST00000588390,;	T	ENSG00000152234	ENST00000282050	Transcript	missense_variant	575	430	144	E/K	Gag/Aag	COSM417836	.	.	-1	ATP5A1	HGNC	823	protein_coding	YES	CCDS11927.1	ENSP00000282050	ATPA_HUMAN	K7EQH4_HUMAN,K7ERX7_HUMAN,K7EK77_HUMAN,K7EJP1_HUMAN,B4DGW3_HUMAN	UPI000006221A	.	tolerated_low_confidence(1)	benign(0.001)	5/13	.	HAMAP:MF_01346,hmmpanther:PTHR15184,hmmpanther:PTHR15184:SF39,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00962,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCACCAA	.	5	BLCA
SMAD2	0	.	GRCh37	18	45368266	45368266	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1336C>G	p.Leu446Val	p.L446V	ENST00000402690	11/11	97	77	20	73	73	0	SMAD2,missense_variant,p.Leu446Val,ENST00000402690,;SMAD2,missense_variant,p.Leu416Val,ENST00000356825,;SMAD2,missense_variant,p.Leu446Val,ENST00000262160,;SMAD2,missense_variant,p.Leu416Val,ENST00000586040,;SMAD2,downstream_gene_variant,,ENST00000591214,;	C	ENSG00000175387	ENST00000402690	Transcript	missense_variant	1731	1336	446	L/V	Cta/Gta	COSM417832	.	.	-1	SMAD2	HGNC	6768	protein_coding	YES	CCDS11934.1	ENSP00000384449	SMAD2_HUMAN	Q53XR6_HUMAN,K7ESI8_HUMAN,K7ERC7_HUMAN,K7EL92_HUMAN,K7EJX0_HUMAN	UPI0000032EE7	.	deleterious(0)	probably_damaging(0.997)	11/11	.	Superfamily_domains:SSF49879,Gene3D:2.60.200.10,hmmpanther:PTHR13703:SF25,hmmpanther:PTHR13703,PROSITE_profiles:PS51076	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTAGAGGTC	.	5	BLCA
SMAD4	0	.	GRCh37	18	48591846	48591846	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>A	p.Glu337Lys	p.E337K	ENST00000342988	9/12	185	135	49	221	221	0	SMAD4,missense_variant,p.Glu337Lys,ENST00000342988,;SMAD4,missense_variant,p.Glu337Lys,ENST00000398417,;SMAD4,missense_variant,p.Glu241Lys,ENST00000588745,;SMAD4,upstream_gene_variant,,ENST00000593223,;SMAD4,non_coding_transcript_exon_variant,,ENST00000591126,;SMAD4,intron_variant,,ENST00000592186,;SMAD4,upstream_gene_variant,,ENST00000590499,;	A	ENSG00000141646	ENST00000342988	Transcript	missense_variant	1547	1009	337	E/K	Gag/Aag	COSM417827,COSM3388465	.	.	1	SMAD4	HGNC	6770	protein_coding	YES	CCDS11950.1	ENSP00000341551	SMAD4_HUMAN	Q9BYG6_HUMAN,K7ENG8_HUMAN,K7ENG1_HUMAN,K7EL18_HUMAN,K7EL15_HUMAN,K7EIJ2_HUMAN	UPI0000053431	.	deleterious(0.01)	probably_damaging(1)	9/12	.	PROSITE_profiles:PS51076,hmmpanther:PTHR13703,hmmpanther:PTHR13703:SF33,Pfam_domain:PF03166,Gene3D:2.60.200.10,SMART_domains:SM00524,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_1659del1659|28,BUFFER|p.Q334R|c.1001A>G|4,BUFFER|p.E337G|c.1010A>G|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGAGAGACA	.	5	BLCA
LAMA1	0	.	GRCh37	18	7023260	7023260	+	Silent	SNP	C	C	T	rs200170562	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2604G>A	p.%3D	p.G868G	ENST00000389658	19/63	62	50	12	65	65	0	LAMA1,synonymous_variant,p.%3D,ENST00000389658,;LAMA1,non_coding_transcript_exon_variant,,ENST00000579014,;	T	ENSG00000101680	ENST00000389658	Transcript	synonymous_variant	2698	2604	868	G	ggG/ggA	rs200170562,COSM3970621,COSM417800	.	.	-1	LAMA1	HGNC	6481	protein_coding	YES	CCDS32787.1	ENSP00000374309	LAMA1_HUMAN	Q7Z5W6_HUMAN,Q6P6D3_HUMAN	UPI00001C1FF9	.	.	.	19/63	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF38,hmmpanther:PTHR10574,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00180,SMART_domains:SM00181,Superfamily_domains:SSF57196	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTCCCCGGT	byFrequency|byCluster|by1000G	5	BLCA
YES1	0	.	GRCh37	18	756831	756831	+	5'UTR	SNP	C	C	G	rs753235749	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4G>C	.	.	ENST00000584307	2/12	64	50	14	55	55	0	YES1,missense_variant,p.Leu4Phe,ENST00000577961,;YES1,5_prime_UTR_variant,,ENST00000314574,;YES1,5_prime_UTR_variant,,ENST00000584307,;YES1,non_coding_transcript_exon_variant,,ENST00000577611,;YES1,non_coding_transcript_exon_variant,,ENST00000581960,;	G	ENSG00000176105	ENST00000584307	Transcript	5_prime_UTR_variant	168	.	.	.	.	rs753235749	.	.	-1	YES1	HGNC	12841	protein_coding	YES	CCDS11824.1	ENSP00000462468	YES_HUMAN	.	UPI0000062316	.	.	.	2/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTATCAAATC	byFrequency	2	BLCA
ANKRD12	0	.	GRCh37	18	9255144	9255144	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1879G>A	p.Glu627Lys	p.E627K	ENST00000262126	9/13	119	89	30	112	112	0	ANKRD12,missense_variant,p.Glu604Lys,ENST00000383440,;ANKRD12,missense_variant,p.Glu627Lys,ENST00000262126,;ANKRD12,missense_variant,p.Glu604Lys,ENST00000400020,;ANKRD12,downstream_gene_variant,,ENST00000546007,;RP11-888D10.4,upstream_gene_variant,,ENST00000609701,;Y_RNA,downstream_gene_variant,,ENST00000384364,;RP11-21J18.1,downstream_gene_variant,,ENST00000578850,;ANKRD12,3_prime_UTR_variant,,ENST00000359158,;	A	ENSG00000101745	ENST00000262126	Transcript	missense_variant	2119	1879	627	E/K	Gaa/Aaa	COSM417787	.	.	1	ANKRD12	HGNC	29135	protein_coding	YES	CCDS11843.1	ENSP00000262126	ANR12_HUMAN	J3QRX3_HUMAN	UPI0000073327	.	deleterious_low_confidence(0.04)	possibly_damaging(0.488)	9/13	.	hmmpanther:PTHR24149:SF7,hmmpanther:PTHR24149	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATGAAGAT	.	5	BLCA
PPAN	0	.	GRCh37	19	10221062	10221062	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.885G>A	p.%3D	p.V295V	ENST00000556468	9/13	50	35	15	57	57	0	PPAN,synonymous_variant,p.%3D,ENST00000393793,;PPAN,synonymous_variant,p.%3D,ENST00000253107,;PPAN-P2RY11,synonymous_variant,p.%3D,ENST00000393796,;PPAN-P2RY11,synonymous_variant,p.%3D,ENST00000428358,;PPAN,synonymous_variant,p.%3D,ENST00000556468,;PPAN,synonymous_variant,p.%3D,ENST00000444703,;PPAN,downstream_gene_variant,,ENST00000430370,;P2RY11,upstream_gene_variant,,ENST00000321826,;PPAN,downstream_gene_variant,,ENST00000446223,;EIF3G,downstream_gene_variant,,ENST00000593054,;EIF3G,downstream_gene_variant,,ENST00000253108,;SNORD105,downstream_gene_variant,,ENST00000386910,;SNORD105B,downstream_gene_variant,,ENST00000458770,;P2RY11,upstream_gene_variant,,ENST00000471843,;PPAN,non_coding_transcript_exon_variant,,ENST00000468881,;EIF3G,downstream_gene_variant,,ENST00000590158,;PPAN,upstream_gene_variant,,ENST00000486482,;PPAN,downstream_gene_variant,,ENST00000466025,;	A	ENSG00000130810	ENST00000556468	Transcript	synonymous_variant	912	885	295	V	gtG/gtA	COSM417782,COSM417781	.	.	1	PPAN	HGNC	9227	protein_coding	YES	CCDS42498.1	ENSP00000450710	SSF1_HUMAN	.	UPI000016A418	.	.	.	9/13	.	hmmpanther:PTHR12661,hmmpanther:PTHR12661:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTGATGTT	.	5	BLCA
ATG4D	0	.	GRCh37	19	10657553	10657553	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.532G>A	p.Glu178Lys	p.E178K	ENST00000309469	4/10	47	37	10	64	64	0	ATG4D,missense_variant,p.Glu178Lys,ENST00000309469,;ATG4D,missense_variant,p.Glu144Lys,ENST00000586477,;ATG4D,missense_variant,p.Glu18Lys,ENST00000587256,;ATG4D,intron_variant,,ENST00000586863,;ATG4D,intron_variant,,ENST00000540862,;ATG4D,upstream_gene_variant,,ENST00000588972,;RNU7-140P,downstream_gene_variant,,ENST00000459546,;ATG4D,missense_variant,p.Glu178Lys,ENST00000588857,;ATG4D,3_prime_UTR_variant,,ENST00000586417,;ATG4D,non_coding_transcript_exon_variant,,ENST00000590096,;ATG4D,intron_variant,,ENST00000588667,;ATG4D,intron_variant,,ENST00000585752,;ATG4D,intron_variant,,ENST00000589753,;	A	ENSG00000130734	ENST00000309469	Transcript	missense_variant	705	532	178	E/K	Gag/Aag	.	.	.	1	ATG4D	HGNC	20789	protein_coding	YES	CCDS12241.1	ENSP00000311318	ATG4D_HUMAN	Q969K0_HUMAN,K7EKP6_HUMAN	UPI000000DCA0	.	tolerated(0.08)	possibly_damaging(0.869)	4/10	.	hmmpanther:PTHR22624,hmmpanther:PTHR22624:SF36,Pfam_domain:PF03416	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCCCTGAGCTG	.	3	BLCA
ATG4D	0	.	GRCh37	19	10657634	10657634	+	Missense_Mutation	SNP	G	G	A	rs763771284	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Glu205Lys	p.E205K	ENST00000309469	4/10	25	16	8	32	32	0	ATG4D,missense_variant,p.Glu205Lys,ENST00000309469,;ATG4D,missense_variant,p.Glu171Lys,ENST00000586477,;ATG4D,missense_variant,p.Glu45Lys,ENST00000587256,;ATG4D,intron_variant,,ENST00000586863,;ATG4D,intron_variant,,ENST00000540862,;ATG4D,upstream_gene_variant,,ENST00000585437,;ATG4D,upstream_gene_variant,,ENST00000588972,;RNU7-140P,downstream_gene_variant,,ENST00000459546,;ATG4D,missense_variant,p.Glu205Lys,ENST00000588857,;ATG4D,3_prime_UTR_variant,,ENST00000586417,;ATG4D,non_coding_transcript_exon_variant,,ENST00000590096,;ATG4D,intron_variant,,ENST00000588667,;ATG4D,intron_variant,,ENST00000585752,;ATG4D,intron_variant,,ENST00000589753,;	A	ENSG00000130734	ENST00000309469	Transcript	missense_variant	786	613	205	E/K	Gag/Aag	rs763771284,COSM417772	.	.	1	ATG4D	HGNC	20789	protein_coding	YES	CCDS12241.1	ENSP00000311318	ATG4D_HUMAN	Q969K0_HUMAN,K7EKP6_HUMAN	UPI000000DCA0	.	deleterious(0.05)	benign(0.197)	4/10	.	hmmpanther:PTHR22624,hmmpanther:PTHR22624:SF36,Pfam_domain:PF03416,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTGAGCTG	.	5	BLCA
ATG4D	0	.	GRCh37	19	10663639	10663639	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1321G>T	p.Asp441Tyr	p.D441Y	ENST00000309469	10/10	142	101	40	143	143	0	ATG4D,missense_variant,p.Asp108Tyr,ENST00000540862,;ATG4D,missense_variant,p.Asp66Tyr,ENST00000585437,;ATG4D,missense_variant,p.Asp441Tyr,ENST00000309469,;ATG4D,missense_variant,p.Asp144Tyr,ENST00000588972,;ATG4D,downstream_gene_variant,,ENST00000586863,;KRI1,downstream_gene_variant,,ENST00000312962,;KRI1,downstream_gene_variant,,ENST00000361821,;KRI1,downstream_gene_variant,,ENST00000539027,;ATG4D,downstream_gene_variant,,ENST00000587256,;RNU7-140P,upstream_gene_variant,,ENST00000459546,;MIR1238,downstream_gene_variant,,ENST00000408483,;ATG4D,3_prime_UTR_variant,,ENST00000588667,;ATG4D,3_prime_UTR_variant,,ENST00000586417,;ATG4D,3_prime_UTR_variant,,ENST00000589753,;ATG4D,3_prime_UTR_variant,,ENST00000588857,;KRI1,downstream_gene_variant,,ENST00000543842,;KRI1,downstream_gene_variant,,ENST00000536714,;KRI1,downstream_gene_variant,,ENST00000537433,;ATG4D,downstream_gene_variant,,ENST00000590096,;KRI1,downstream_gene_variant,,ENST00000536689,;KRI1,downstream_gene_variant,,ENST00000537363,;ATG4D,downstream_gene_variant,,ENST00000585752,;KRI1,downstream_gene_variant,,ENST00000478863,;	T	ENSG00000130734	ENST00000309469	Transcript	missense_variant	1494	1321	441	D/Y	Gac/Tac	COSM417771	.	.	1	ATG4D	HGNC	20789	protein_coding	YES	CCDS12241.1	ENSP00000311318	ATG4D_HUMAN	Q969K0_HUMAN,K7EKP6_HUMAN	UPI000000DCA0	.	deleterious(0)	possibly_damaging(0.906)	10/10	.	hmmpanther:PTHR22624,hmmpanther:PTHR22624:SF36	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGACGAC	.	5	BLCA
AP1M2	0	.	GRCh37	19	10692042	10692042	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.573G>A	p.%3D	p.L191L	ENST00000250244	6/12	46	32	13	49	49	0	AP1M2,synonymous_variant,p.%3D,ENST00000250244,;AP1M2,synonymous_variant,p.%3D,ENST00000591676,;AP1M2,synonymous_variant,p.%3D,ENST00000590923,;AP1M2,synonymous_variant,p.%3D,ENST00000591240,;AP1M2,synonymous_variant,p.%3D,ENST00000589684,;AP1M2,upstream_gene_variant,,ENST00000592285,;AP1M2,upstream_gene_variant,,ENST00000589348,;AP1M2,upstream_gene_variant,,ENST00000587069,;AP1M2,downstream_gene_variant,,ENST00000589809,;AP1M2,downstream_gene_variant,,ENST00000589571,;	T	ENSG00000129354	ENST00000250244	Transcript	synonymous_variant	656	573	191	L	ctG/ctA	COSM417769	.	.	-1	AP1M2	HGNC	558	protein_coding	YES	CCDS45964.1	ENSP00000250244	AP1M2_HUMAN	K7EPR4_HUMAN	UPI0000124FEB	.	.	.	6/12	.	PROSITE_profiles:PS51072,hmmpanther:PTHR11998:SF26,hmmpanther:PTHR11998,Pfam_domain:PF00928,Gene3D:2.60.40.1170,PIRSF_domain:PIRSF005992,Superfamily_domains:0038852	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGCTCAGAAG	.	5	BLCA
SBNO2	0	.	GRCh37	19	1111584	1111584	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2730C>T	p.%3D	p.L910L	ENST00000361757	24/32	14	11	3	13	13	0	SBNO2,synonymous_variant,p.%3D,ENST00000438103,;SBNO2,synonymous_variant,p.%3D,ENST00000587024,;SBNO2,synonymous_variant,p.%3D,ENST00000361757,;GPX4,downstream_gene_variant,,ENST00000354171,;GPX4,downstream_gene_variant,,ENST00000589115,;GPX4,downstream_gene_variant,,ENST00000588919,;SBNO2,non_coding_transcript_exon_variant,,ENST00000587673,;SBNO2,downstream_gene_variant,,ENST00000592222,;SBNO2,upstream_gene_variant,,ENST00000586109,;GPX4,downstream_gene_variant,,ENST00000585480,;GPX4,downstream_gene_variant,,ENST00000592940,;	A	ENSG00000064932	ENST00000361757	Transcript	synonymous_variant	2968	2730	910	L	ctC/ctT	COSM417765,COSM417766	.	.	-1	SBNO2	HGNC	29158	protein_coding	YES	CCDS45894.1	ENSP00000354733	SBNO2_HUMAN	K7ERL2_HUMAN,K7ENA9_HUMAN	UPI0000140680	.	.	.	24/32	.	hmmpanther:PTHR12706:SF5,hmmpanther:PTHR12706,Pfam_domain:PF13871	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGTGAGGAC	.	2	BLCA
FBXW9	0	.	GRCh37	19	12805444	12805444	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.642C>G	p.Ile214Met	p.I214M	ENST00000393261	3/10	59	53	6	67	67	0	FBXW9,missense_variant,p.Ile214Met,ENST00000393261,;FBXW9,missense_variant,p.Ile204Met,ENST00000587955,;FBXW9,missense_variant,p.Ile214Met,ENST00000380339,;FBXW9,5_prime_UTR_variant,,ENST00000544494,;TNPO2,downstream_gene_variant,,ENST00000356861,;TNPO2,downstream_gene_variant,,ENST00000425528,;TNPO2,downstream_gene_variant,,ENST00000441499,;FBXW9,missense_variant,p.Gln168Glu,ENST00000587296,;	C	ENSG00000132004	ENST00000393261	Transcript	missense_variant	704	642	214	I/M	atC/atG	COSM1133533	.	.	-1	FBXW9	HGNC	28136	protein_coding	YES	CCDS12278.2	ENSP00000376945	FBXW9_HUMAN	.	UPI0000203473	.	deleterious(0.05)	benign(0.354)	3/10	.	PROSITE_profiles:PS50294,hmmpanther:PTHR22844:SF3,hmmpanther:PTHR22844,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTGATCAG	.	4	BLCA
CACNA1A	0	.	GRCh37	19	13409682	13409682	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2765G>A	p.Arg922Gln	p.R922Q	ENST00000360228	19/47	30	23	6	19	19	0	CACNA1A,missense_variant,p.Arg923Gln,ENST00000573710,;CACNA1A,missense_variant,p.Arg922Gln,ENST00000360228,;	T	ENSG00000141837	ENST00000360228	Transcript	missense_variant	2765	2765	922	R/Q	cGa/cAa	COSM50843,COSM417744,COSM417745	.	.	-1	CACNA1A	HGNC	1388	protein_coding	YES	CCDS45998.1	ENSP00000353362	CAC1A_HUMAN	Q9UN69_HUMAN,Q9UHM9_HUMAN	UPI0000141565	.	.	possibly_damaging(0.776)	19/47	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF59,Prints_domain:PR01632	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCGCTCG	.	5	BLCA
LPHN1	0	.	GRCh37	19	14269281	14269281	+	Missense_Mutation	SNP	C	C	T	rs146726289	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2248G>A	p.Glu750Lys	p.E750K	ENST00000340736	13/24	62	46	16	74	74	0	LPHN1,missense_variant,p.Glu745Lys,ENST00000361434,;LPHN1,missense_variant,p.Glu750Lys,ENST00000340736,;LPHN1,downstream_gene_variant,,ENST00000589616,;CTB-55O6.12,intron_variant,,ENST00000588387,;CTB-55O6.12,intron_variant,,ENST00000592086,;CTB-55O6.12,downstream_gene_variant,,ENST00000588658,;LPHN1,downstream_gene_variant,,ENST00000591528,;LPHN1,downstream_gene_variant,,ENST00000588677,;	T	ENSG00000072071	ENST00000340736	Transcript	missense_variant	2546	2248	750	E/K	Gaa/Aaa	rs146726289,COSM417739	.	.	-1	LPHN1	HGNC	20973	protein_coding	YES	CCDS32928.1	ENSP00000340688	LPHN1_HUMAN	.	UPI000005046A	.	deleterious(0.04)	possibly_damaging(0.703)	13/24	.	Pfam_domain:PF12003,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF62,Low_complexity_(Seg):seg	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCGCCGG	byCluster|by1000G	5	BLCA
OR7A5	0	.	GRCh37	19	14938601	14938601	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453G>C	p.Met151Ile	p.M151I	ENST00000322301	2/2	81	58	23	69	69	0	OR7A5,missense_variant,p.Met151Ile,ENST00000594432,;OR7A5,missense_variant,p.Met151Ile,ENST00000322301,;OR7A5,intron_variant,,ENST00000599549,;OR7A5,intron_variant,,ENST00000595922,;OR7A5,intron_variant,,ENST00000601611,;	G	ENSG00000188269	ENST00000322301	Transcript	missense_variant	541	453	151	M/I	atG/atC	COSM417735	.	.	-1	OR7A5	HGNC	8368	protein_coding	YES	CCDS12318.1	ENSP00000316955	OR7A5_HUMAN	.	UPI0000041DE3	.	tolerated_low_confidence(0.71)	benign(0.006)	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF219,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCATGGT	.	5	BLCA
LLNLR-249E10.1	0	.	GRCh37	19	15871693	15871693	+	RNA	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.509G>A	.	.	ENST00000595525	1/2	61	46	14	69	69	0	LLNLR-249E10.1,non_coding_transcript_exon_variant,,ENST00000595525,;CYP4F24P,non_coding_transcript_exon_variant,,ENST00000586049,;	A	ENSG00000268673	ENST00000595525	Transcript	non_coding_transcript_exon_variant	509	.	.	.	.	.	.	.	1	LLNLR-249E10.1	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCGGAAGGG	.	5	BLCA
C19orf44	0	.	GRCh37	19	16611956	16611956	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.353C>G	p.Ser118Cys	p.S118C	ENST00000221671	2/9	145	100	45	144	144	0	C19orf44,missense_variant,p.Ser118Cys,ENST00000594035,;C19orf44,missense_variant,p.Ser118Cys,ENST00000221671,;CALR3,upstream_gene_variant,,ENST00000269881,;C19orf44,downstream_gene_variant,,ENST00000594813,;C19orf44,downstream_gene_variant,,ENST00000599550,;C19orf44,missense_variant,p.Ser118Cys,ENST00000596592,;C19orf44,missense_variant,p.Ser118Cys,ENST00000593380,;CTD-3222D19.2,intron_variant,,ENST00000409035,;	G	ENSG00000105072	ENST00000221671	Transcript	missense_variant	509	353	118	S/C	tCt/tGt	COSM417721	.	.	1	C19orf44	HGNC	26141	protein_coding	YES	CCDS12345.1	ENSP00000221671	CS044_HUMAN	M0R1E2_HUMAN,M0QXR9_HUMAN,B4DN63_HUMAN	UPI0000070DFC	.	deleterious(0)	probably_damaging(0.988)	2/9	.	hmmpanther:PTHR22409:SF2,hmmpanther:PTHR22409	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAATCTGACT	.	5	BLCA
F2RL3	0	.	GRCh37	19	17000940	17000940	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666C>T	p.%3D	p.R222R	ENST00000248076	2/2	26	17	8	17	17	0	F2RL3,synonymous_variant,p.%3D,ENST00000248076,;CPAMD8,downstream_gene_variant,,ENST00000598792,;CPAMD8,downstream_gene_variant,,ENST00000443236,;CPAMD8,downstream_gene_variant,,ENST00000594249,;F2RL3,downstream_gene_variant,,ENST00000599210,;CPAMD8,downstream_gene_variant,,ENST00000598547,;CPAMD8,downstream_gene_variant,,ENST00000602132,;CPAMD8,downstream_gene_variant,,ENST00000597335,;CPAMD8,downstream_gene_variant,,ENST00000600235,;CPAMD8,downstream_gene_variant,,ENST00000596224,;CPAMD8,downstream_gene_variant,,ENST00000597709,;CPAMD8,downstream_gene_variant,,ENST00000601782,;	T	ENSG00000127533	ENST00000248076	Transcript	synonymous_variant	996	666	222	R	cgC/cgT	COSM417714	.	.	1	F2RL3	HGNC	3540	protein_coding	YES	CCDS12350.1	ENSP00000248076	PAR4_HUMAN	.	UPI000013CC36	.	.	.	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24232,hmmpanther:PTHR24232:SF22,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01430	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCGCTCCGA	.	5	BLCA
MPV17L2	0	.	GRCh37	19	18305832	18305832	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.500G>C	p.Arg167Pro	p.R167P	ENST00000599612	4/5	137	106	31	157	157	0	MPV17L2,missense_variant,p.Arg167Pro,ENST00000599612,;RAB3A,downstream_gene_variant,,ENST00000464076,;RAB3A,downstream_gene_variant,,ENST00000222256,;MPV17L2,non_coding_transcript_exon_variant,,ENST00000532896,;MPV17L2,non_coding_transcript_exon_variant,,ENST00000533807,;MPV17L2,downstream_gene_variant,,ENST00000534421,;	C	ENSG00000254858	ENST00000599612	Transcript	missense_variant	600	500	167	R/P	cGa/cCa	COSM417694	.	.	1	MPV17L2	HGNC	28177	protein_coding	YES	CCDS42522.1	ENSP00000469836	M17L2_HUMAN	.	UPI000013CC29	.	deleterious(0)	probably_damaging(0.999)	4/5	.	Pfam_domain:PF04117,hmmpanther:PTHR11266,hmmpanther:PTHR11266:SF19	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTCGAGTCA	.	5	BLCA
CILP2	0	.	GRCh37	19	19651906	19651906	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>G	p.Ser148Trp	p.S148W	ENST00000291495	4/8	10	5	5	10	10	0	CILP2,missense_variant,p.Ser148Trp,ENST00000291495,;CILP2,missense_variant,p.Ser154Trp,ENST00000586018,;YJEFN3,downstream_gene_variant,,ENST00000436027,;YJEFN3,downstream_gene_variant,,ENST00000514277,;CILP2,non_coding_transcript_exon_variant,,ENST00000588333,;YJEFN3,downstream_gene_variant,,ENST00000458210,;	G	ENSG00000160161	ENST00000291495	Transcript	missense_variant	528	443	148	S/W	tCg/tGg	COSM417683	.	.	1	CILP2	HGNC	24213	protein_coding	YES	CCDS12405.1	ENSP00000291495	CILP2_HUMAN	.	UPI000013E04D	.	tolerated(0.18)	benign(0.364)	4/8	.	PROSITE_profiles:PS50092,hmmpanther:PTHR15031:SF0,hmmpanther:PTHR15031,Gene3D:2.20.100.10,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCCTCGTGGG	.	3	BLCA
AP3D1	0	.	GRCh37	19	2116613	2116613	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1992G>A	p.%3D	p.E664E	ENST00000355272	17/32	15	10	5	18	18	0	AP3D1,synonymous_variant,p.%3D,ENST00000345016,;AP3D1,synonymous_variant,p.%3D,ENST00000356926,;AP3D1,synonymous_variant,p.%3D,ENST00000350812,;AP3D1,synonymous_variant,p.%3D,ENST00000355272,;AP3D1,downstream_gene_variant,,ENST00000590683,;AP3D1,non_coding_transcript_exon_variant,,ENST00000591631,;AP3D1,downstream_gene_variant,,ENST00000586177,;AP3D1,upstream_gene_variant,,ENST00000589223,;AP3D1,upstream_gene_variant,,ENST00000585652,;AP3D1,upstream_gene_variant,,ENST00000592488,;	T	ENSG00000065000	ENST00000355272	Transcript	synonymous_variant	2199	1992	664	E	gaG/gaA	COSM417675	.	.	-1	AP3D1	HGNC	568	protein_coding	YES	CCDS58638.1	ENSP00000347416	AP3D1_HUMAN	Q9UEB0_HUMAN,Q9UEA9_HUMAN,B3KSV6_HUMAN	UPI0000202F99	.	.	.	17/32	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22781,Pfam_domain:PF06375,PIRSF_domain:PIRSF037092	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAGCTCTTC	.	5	BLCA
ZNF507	0	.	GRCh37	19	32844356	32844356	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.620G>T	p.Arg207Ile	p.R207I	ENST00000311921	2/6	90	66	23	92	92	0	ZNF507,missense_variant,p.Arg207Ile,ENST00000355898,;ZNF507,missense_variant,p.Arg207Ile,ENST00000311921,;ZNF507,missense_variant,p.Arg207Ile,ENST00000544431,;ZNF507,non_coding_transcript_exon_variant,,ENST00000587084,;	T	ENSG00000168813	ENST00000311921	Transcript	missense_variant	812	620	207	R/I	aGa/aTa	COSM418341	.	.	1	ZNF507	HGNC	23783	protein_coding	YES	CCDS32985.1	ENSP00000312277	ZN507_HUMAN	.	UPI0000202010	.	tolerated(0.19)	benign(0.207)	2/6	.	hmmpanther:PTHR24402:SF193,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAGAAATG	.	5	BLCA
KIRREL2	0	.	GRCh37	19	36349402	36349402	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304G>A	p.Glu102Lys	p.E102K	ENST00000360202	3/15	126	106	20	137	137	0	KIRREL2,missense_variant,p.Glu102Lys,ENST00000592409,;KIRREL2,missense_variant,p.Glu102Lys,ENST00000262625,;KIRREL2,missense_variant,p.Glu102Lys,ENST00000360202,;KIRREL2,missense_variant,p.Glu102Lys,ENST00000586102,;KIRREL2,missense_variant,p.Glu52Lys,ENST00000347900,;NPHS1,intron_variant,,ENST00000591817,;	A	ENSG00000126259	ENST00000360202	Transcript	missense_variant	502	304	102	E/K	Gaa/Aaa	COSM418313,COSM418314	.	.	1	KIRREL2	HGNC	18816	protein_coding	YES	CCDS12481.1	ENSP00000353331	KIRR2_HUMAN	.	UPI0000366DD8	.	deleterious(0)	probably_damaging(0.971)	3/15	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11640,hmmpanther:PTHR11640:SF51,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATATGAATGT	.	4	BLCA
KIRREL2	0	.	GRCh37	19	36349660	36349660	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.416G>C	p.Gly139Ala	p.G139A	ENST00000360202	4/15	158	121	36	195	194	1	KIRREL2,missense_variant,p.Gly139Ala,ENST00000592409,;KIRREL2,missense_variant,p.Gly139Ala,ENST00000262625,;KIRREL2,missense_variant,p.Gly139Ala,ENST00000360202,;KIRREL2,missense_variant,p.Gly139Ala,ENST00000586102,;KIRREL2,missense_variant,p.Gly89Ala,ENST00000347900,;NPHS1,intron_variant,,ENST00000591817,;	C	ENSG00000126259	ENST00000360202	Transcript	missense_variant	614	416	139	G/A	gGa/gCa	COSM418311,COSM418312	.	.	1	KIRREL2	HGNC	18816	protein_coding	YES	CCDS12481.1	ENSP00000353331	KIRR2_HUMAN	.	UPI0000366DD8	.	deleterious(0)	probably_damaging(0.979)	4/15	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11640,hmmpanther:PTHR11640:SF51,Gene3D:2.60.40.10,Pfam_domain:PF08205,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGAGTTC	.	5	BLCA
ZNF461	0	.	GRCh37	19	37130933	37130933	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314G>C	p.Arg105Thr	p.R105T	ENST00000588268	6/6	109	85	23	101	101	0	ZNF461,missense_variant,p.Arg17Thr,ENST00000591370,;ZNF461,missense_variant,p.Arg82Thr,ENST00000360357,;ZNF461,missense_variant,p.Arg105Thr,ENST00000588268,;ZNF461,non_coding_transcript_exon_variant,,ENST00000540605,;ZNF461,upstream_gene_variant,,ENST00000589442,;ZNF461,3_prime_UTR_variant,,ENST00000396893,;ZNF461,3_prime_UTR_variant,,ENST00000590361,;ZNF461,non_coding_transcript_exon_variant,,ENST00000590487,;ZNF461,downstream_gene_variant,,ENST00000588844,;	G	ENSG00000197808	ENST00000588268	Transcript	missense_variant	542	314	105	R/T	aGa/aCa	COSM418304	.	.	-1	ZNF461	HGNC	21629	protein_coding	YES	CCDS54257.1	ENSP00000467931	ZN461_HUMAN	K7EJM1_HUMAN,K7EIW1_HUMAN	UPI00002021CA	.	tolerated(0.1)	benign(0.004)	6/6	.	hmmpanther:PTHR24377:SF277,hmmpanther:PTHR24377	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCTGGAT	.	5	BLCA
GGN	0	.	GRCh37	19	38877342	38877342	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560G>A	p.Arg187Lys	p.R187K	ENST00000334928	3/4	17	12	4	15	15	0	GGN,missense_variant,p.Arg187Lys,ENST00000334928,;GGN,downstream_gene_variant,,ENST00000587676,;SPRED3,upstream_gene_variant,,ENST00000338502,;PSMD8,downstream_gene_variant,,ENST00000602911,;PSMD8,downstream_gene_variant,,ENST00000592035,;SPRED3,upstream_gene_variant,,ENST00000587947,;PSMD8,downstream_gene_variant,,ENST00000592561,;PSMD8,downstream_gene_variant,,ENST00000215071,;GGN,downstream_gene_variant,,ENST00000586599,;PSMD8,downstream_gene_variant,,ENST00000585598,;SPRED3,upstream_gene_variant,,ENST00000586301,;SPRED3,upstream_gene_variant,,ENST00000587013,;AC005789.9,non_coding_transcript_exon_variant,,ENST00000585411,;GGN,intron_variant,,ENST00000591809,;SPRED3,upstream_gene_variant,,ENST00000587564,;GGN,missense_variant,p.Arg104Lys,ENST00000585737,;SPRED3,upstream_gene_variant,,ENST00000586958,;PSMD8,downstream_gene_variant,,ENST00000590331,;	T	ENSG00000179168	ENST00000334928	Transcript	missense_variant	693	560	187	R/K	aGa/aAa	COSM418290	.	.	-1	GGN	HGNC	18869	protein_coding	YES	CCDS12516.1	ENSP00000334940	GGN_HUMAN	K7ENT5_HUMAN,K7EJI6_HUMAN	UPI0000073CAB	.	tolerated_low_confidence(0.15)	unknown(0)	3/4	.	hmmpanther:PTHR22979:SF18,hmmpanther:PTHR22979	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGATTCTGCGG	.	4	BLCA
RYR1	0	.	GRCh37	19	39008108	39008108	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9795G>A	p.%3D	p.E3265E	ENST00000359596	66/106	64	48	16	64	64	0	RYR1,synonymous_variant,p.%3D,ENST00000599547,;RYR1,synonymous_variant,p.%3D,ENST00000355481,;RYR1,synonymous_variant,p.%3D,ENST00000360985,;RYR1,synonymous_variant,p.%3D,ENST00000359596,;RYR1,3_prime_UTR_variant,,ENST00000594335,;	A	ENSG00000196218	ENST00000359596	Transcript	synonymous_variant	9795	9795	3265	E	gaG/gaA	COSM418285	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	.	66/106	.	hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGAGATGCC	.	5	BLCA
RYR1	0	.	GRCh37	19	39061261	39061261	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13674G>A	p.%3D	p.R4558R	ENST00000359596	94/106	200	158	42	210	210	0	RYR1,synonymous_variant,p.%3D,ENST00000355481,;RYR1,synonymous_variant,p.%3D,ENST00000360985,;RYR1,synonymous_variant,p.%3D,ENST00000359596,;RYR1,intron_variant,,ENST00000593677,;	A	ENSG00000196218	ENST00000359596	Transcript	synonymous_variant	13674	13674	4558	R	cgG/cgA	COSM418283	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	.	94/106	.	hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715,Pfam_domain:PF06459	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCGGAACTT	.	5	BLCA
HNRNPUL1	0	.	GRCh37	19	41770632	41770632	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.224C>T	p.Thr75Ile	p.T75I	ENST00000392006	1/15	8	4	4	11	11	0	HNRNPUL1,missense_variant,p.Thr75Ile,ENST00000602130,;HNRNPUL1,missense_variant,p.Thr75Ile,ENST00000392006,;HNRNPUL1,splice_region_variant,,ENST00000378215,;HNRNPUL1,intron_variant,,ENST00000601309,;HNRNPUL1,intron_variant,,ENST00000595018,;HNRNPUL1,intron_variant,,ENST00000597725,;HNRNPUL1,intron_variant,,ENST00000352456,;HNRNPUL1,intron_variant,,ENST00000599719,;AXL,downstream_gene_variant,,ENST00000593513,;AXL,downstream_gene_variant,,ENST00000359092,;HNRNPUL1,upstream_gene_variant,,ENST00000595336,;HNRNPUL1,upstream_gene_variant,,ENST00000263367,;AXL,downstream_gene_variant,,ENST00000301178,;HNRNPUL1,upstream_gene_variant,,ENST00000601336,;HNRNPUL1,upstream_gene_variant,,ENST00000593587,;HNRNPUL1,upstream_gene_variant,,ENST00000594207,;HNRNPUL1,intron_variant,,ENST00000595196,;HNRNPUL1,upstream_gene_variant,,ENST00000599521,;	T	ENSG00000105323	ENST00000392006	Transcript	missense_variant	397	224	75	T/I	aCc/aTc	COSM418230	.	.	1	HNRNPUL1	HGNC	17011	protein_coding	YES	CCDS12576.1	ENSP00000375863	HNRL1_HUMAN	M0R203_HUMAN,M0R0K8_HUMAN,M0QZV6_HUMAN,M0QYZ0_HUMAN,M0QYI8_HUMAN,B3KM60_HUMAN	UPI000013D3F4	.	tolerated(0.23)	unknown(0)	1/15	.	hmmpanther:PTHR12381,hmmpanther:PTHR12381:SF41	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	GGGGACCGCGC	.	2	BLCA
EXOSC5	0	.	GRCh37	19	41892596	41892596	+	Missense_Mutation	SNP	G	G	C	rs754247072	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.650C>G	p.Ser217Trp	p.S217W	ENST00000221233	6/6	15	10	5	15	15	0	EXOSC5,missense_variant,p.Ser179Trp,ENST00000596905,;EXOSC5,missense_variant,p.Ser217Trp,ENST00000221233,;EXOSC5,intron_variant,,ENST00000602129,;BCKDHA,intron_variant,,ENST00000595085,;CTC-435M10.3,intron_variant,,ENST00000540732,;TMEM91,downstream_gene_variant,,ENST00000546362,;TMEM91,downstream_gene_variant,,ENST00000413014,;TMEM91,downstream_gene_variant,,ENST00000535712,;TMEM91,downstream_gene_variant,,ENST00000447302,;TMEM91,downstream_gene_variant,,ENST00000356385,;TMEM91,downstream_gene_variant,,ENST00000342187,;TMEM91,downstream_gene_variant,,ENST00000544232,;TMEM91,downstream_gene_variant,,ENST00000537354,;TMEM91,downstream_gene_variant,,ENST00000604123,;TMEM91,downstream_gene_variant,,ENST00000542945,;TMEM91,downstream_gene_variant,,ENST00000546050,;TMEM91,downstream_gene_variant,,ENST00000436170,;TMEM91,downstream_gene_variant,,ENST00000392002,;TMEM91,downstream_gene_variant,,ENST00000539627,;CTC-435M10.3,intron_variant,,ENST00000604424,;EXOSC5,downstream_gene_variant,,ENST00000593523,;	C	ENSG00000077348	ENST00000221233	Transcript	missense_variant	801	650	217	S/W	tCg/tGg	rs754247072,COSM1205844,COSM418228	.	.	-1	EXOSC5	HGNC	24662	protein_coding	YES	CCDS12580.1	ENSP00000221233	EXOS5_HUMAN	.	UPI0000134940	.	deleterious(0)	probably_damaging(0.918)	6/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11953:SF1,hmmpanther:PTHR11953,Gene3D:1e3hA01,Superfamily_domains:SSF55666	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGCGAAGCG	byFrequency	5	BLCA
PSG3	0	.	GRCh37	19	43233301	43233301	+	Missense_Mutation	SNP	G	G	C	rs141177217	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1217C>G	p.Ser406Cys	p.S406C	ENST00000327495	5/7	347	275	72	311	311	0	PSG3,missense_variant,p.Ser406Cys,ENST00000595140,;PSG3,missense_variant,p.Ser406Cys,ENST00000327495,;PSG3,downstream_gene_variant,,ENST00000490592,;PSG3,3_prime_UTR_variant,,ENST00000594378,;PSG3,downstream_gene_variant,,ENST00000597009,;	C	ENSG00000221826	ENST00000327495	Transcript	missense_variant	1402	1217	406	S/C	tCc/tGc	rs141177217,COSM418210	.	.	-1	PSG3	HGNC	9520	protein_coding	YES	CCDS12611.1	ENSP00000332215	PSG3_HUMAN	.	UPI0000073DC1	.	deleterious(0.01)	probably_damaging(0.954)	5/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19955,hmmpanther:PTHR19955:SF116,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	C:0	C:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTGGAGCTT	byFrequency|byCluster	5	BLCA
LYPD5	0	.	GRCh37	19	44301925	44301925	+	Missense_Mutation	SNP	C	C	T	rs114185213	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.574G>A	p.Glu192Lys	p.E192K	ENST00000377950	5/5	70	59	11	60	60	0	LYPD5,missense_variant,p.Glu192Lys,ENST00000377950,;LYPD5,missense_variant,p.Glu149Lys,ENST00000414615,;LYPD5,missense_variant,p.Glu149Lys,ENST00000594013,;LYPD5,downstream_gene_variant,,ENST00000594049,;LYPD5,downstream_gene_variant,,ENST00000602179,;AC115522.3,upstream_gene_variant,,ENST00000595680,;LYPD5,non_coding_transcript_exon_variant,,ENST00000601224,;LYPD5,non_coding_transcript_exon_variant,,ENST00000595666,;	T	ENSG00000159871	ENST00000377950	Transcript	missense_variant	655	574	192	E/K	Gag/Aag	rs114185213,COSM418193,COSM1133558	.	.	-1	LYPD5	HGNC	26397	protein_coding	YES	CCDS46096.1	ENSP00000367185	LYPD5_HUMAN	M0R1J4_HUMAN,M0QYY3_HUMAN	UPI00006A77F6	.	tolerated(0.92)	benign(0.012)	5/5	.	hmmpanther:PTHR10624:SF4,hmmpanther:PTHR10624,Pfam_domain:PF00021,Gene3D:2.10.60.10,Superfamily_domains:SSF57302	T:0.0022	T:0.0008	T:0	.	T:0.0089	T:0	T:0.001	T:0.0002	T:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCGGTGG	byFrequency|byCluster|by1000G	4	BLCA
ZNF222	0	.	GRCh37	19	44537161	44537161	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1454C>G	p.Ser485Ter	p.S485*	ENST00000391960	4/4	37	31	6	44	44	0	ZNF222,stop_gained,p.Ser485Ter,ENST00000391960,;ZNF222,stop_gained,p.Ser445Ter,ENST00000187879,;ZNF222,downstream_gene_variant,,ENST00000587846,;ZNF222,downstream_gene_variant,,ENST00000590160,;ZNF223,intron_variant,,ENST00000591793,;	G	ENSG00000159885	ENST00000391960	Transcript	stop_gained	1491	1454	485	S/*	tCa/tGa	COSM418186,COSM1133559	.	.	1	ZNF222	HGNC	13015	protein_coding	YES	CCDS46098.1	ENSP00000375822	ZN222_HUMAN	Q02387_HUMAN	UPI000014182E	.	.	.	4/4	.	hmmpanther:PTHR24402:SF163,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTATCATTAT	.	2	BLCA
ZNF227	0	.	GRCh37	19	44739461	44739461	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.878G>A	p.Gly293Glu	p.G293E	ENST00000313040	6/6	62	44	17	68	68	0	ZNF227,missense_variant,p.Gly242Glu,ENST00000589005,;ZNF227,missense_variant,p.Gly293Glu,ENST00000313040,;ZNF227,missense_variant,p.Gly242Glu,ENST00000391961,;ZNF227,downstream_gene_variant,,ENST00000588394,;ZNF235,downstream_gene_variant,,ENST00000589799,;ZNF227,downstream_gene_variant,,ENST00000586228,;ZNF227,downstream_gene_variant,,ENST00000588219,;ZNF227,downstream_gene_variant,,ENST00000589707,;ZNF235,intron_variant,,ENST00000592844,;	A	ENSG00000131115	ENST00000313040	Transcript	missense_variant	1083	878	293	G/E	gGa/gAa	COSM418184	.	.	1	ZNF227	HGNC	13020	protein_coding	YES	CCDS12636.1	ENSP00000321049	ZN227_HUMAN	Q86WM4_HUMAN,Q658S5_HUMAN,K7EIL7_HUMAN,B7Z5P9_HUMAN	UPI000000DC17	.	tolerated(0.44)	benign(0.154)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF121,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGGAGAGA	.	5	BLCA
PVRL2	0	.	GRCh37	19	45391663	45391663	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27C>G	.	.	ENST00000252483	9/9	35	28	7	34	34	0	PVRL2,3_prime_UTR_variant,,ENST00000592018,;PVRL2,3_prime_UTR_variant,,ENST00000252483,;TOMM40,upstream_gene_variant,,ENST00000252487,;TOMM40,upstream_gene_variant,,ENST00000589649,;TOMM40,upstream_gene_variant,,ENST00000589253,;TOMM40,upstream_gene_variant,,ENST00000426677,;TOMM40,upstream_gene_variant,,ENST00000405636,;TOMM40,upstream_gene_variant,,ENST00000592434,;CTB-129P6.4,intron_variant,,ENST00000585408,;	G	ENSG00000130202	ENST00000252483	Transcript	3_prime_UTR_variant	1644	.	.	.	.	.	.	.	1	PVRL2	HGNC	9707	protein_coding	YES	CCDS42576.1	ENSP00000252483	PVRL2_HUMAN	Q7Z458_HUMAN,Q7Z457_HUMAN,Q7Z456_HUMAN	UPI000004A2BF	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACATCTCACC	.	2	BLCA
RELB	0	.	GRCh37	19	45541150	45541150	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*102C>T	.	.	ENST00000221452	12/12	12	8	4	16	16	0	RELB,3_prime_UTR_variant,,ENST00000221452,;RELB,3_prime_UTR_variant,,ENST00000505236,;RELB,3_prime_UTR_variant,,ENST00000589972,;RELB,3_prime_UTR_variant,,ENST00000540120,;CLASRP,upstream_gene_variant,,ENST00000391953,;CLASRP,upstream_gene_variant,,ENST00000588936,;CLASRP,upstream_gene_variant,,ENST00000221455,;CLASRP,upstream_gene_variant,,ENST00000544944,;CLASRP,upstream_gene_variant,,ENST00000591410,;CLASRP,upstream_gene_variant,,ENST00000592056,;CLASRP,upstream_gene_variant,,ENST00000587112,;CLASRP,upstream_gene_variant,,ENST00000391952,;CLASRP,upstream_gene_variant,,ENST00000588247,;RELB,downstream_gene_variant,,ENST00000509229,;	T	ENSG00000104856	ENST00000221452	Transcript	3_prime_UTR_variant	1992	.	.	.	.	.	.	.	1	RELB	HGNC	9956	protein_coding	YES	CCDS46110.1	ENSP00000221452	RELB_HUMAN	.	UPI00000012B7	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTCATGCT	.	2	BLCA
NKPD1	0	.	GRCh37	19	45655522	45655522	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2173C>T	p.%3D	p.L725L	ENST00000317951	4/4	18	12	5	22	22	0	NKPD1,synonymous_variant,p.%3D,ENST00000589776,;NKPD1,synonymous_variant,p.%3D,ENST00000438936,;NKPD1,synonymous_variant,p.%3D,ENST00000317951,;MARK4,intron_variant,,ENST00000587566,;NKPD1,intron_variant,,ENST00000429338,;PPP1R37,downstream_gene_variant,,ENST00000221462,;AC005757.7,upstream_gene_variant,,ENST00000589594,;PPP1R37,downstream_gene_variant,,ENST00000422370,;PPP1R37,downstream_gene_variant,,ENST00000540059,;	A	ENSG00000179846	ENST00000317951	Transcript	synonymous_variant	2173	2173	725	L	Ctg/Ttg	COSM418173	.	.	-1	NKPD1	HGNC	24739	protein_coding	YES	.	ENSP00000321976	.	J3KNK3_HUMAN	UPI000059D74A	.	.	.	4/4	.	hmmpanther:PTHR22674,hmmpanther:PTHR22674:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE	GCCCAGGAAGC	.	3	BLCA
CD3EAP	0	.	GRCh37	19	45910365	45910367	+	Frame_Shift_Del	DEL	CTC	CTC	TT	rs778183041	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	CTC	CTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36_38delCTCinsTT	p.Ser13PhefsTer23	p.S13Ffs*23	ENST00000309424	2/3	201	164	37	153	153	0	CD3EAP,frameshift_variant,p.Ser13PhefsTer23,ENST00000309424,;CD3EAP,frameshift_variant,p.Ser15PhefsTer23,ENST00000589804,;CD3EAP,5_prime_UTR_variant,,ENST00000592852,;CD3EAP,intron_variant,,ENST00000590794,;ERCC1,downstream_gene_variant,,ENST00000591636,;PPP1R13L,upstream_gene_variant,,ENST00000593226,;ERCC1,downstream_gene_variant,,ENST00000590701,;ERCC1,downstream_gene_variant,,ENST00000589165,;ERCC1,downstream_gene_variant,,ENST00000300853,;ERCC1,downstream_gene_variant,,ENST00000423698,;PPP1R13L,upstream_gene_variant,,ENST00000418234,;PPP1R13L,upstream_gene_variant,,ENST00000360957,;PPP1R13L,upstream_gene_variant,,ENST00000592134,;ERCC1,downstream_gene_variant,,ENST00000340192,;ERCC1,downstream_gene_variant,,ENST00000588738,;PPP1R13L,upstream_gene_variant,,ENST00000585905,;	TT	ENSG00000117877	ENST00000309424	Transcript	frameshift_variant	524-526	36-38	12-13	FS/FX	ttCTCt/ttTTt	rs778183041	.	.	1	CD3EAP	HGNC	24219	protein_coding	YES	CCDS12661.1	ENSP00000310966	RPA34_HUMAN	K7EQC8_HUMAN	UPI0000070847	.	.	.	2/3	.	hmmpanther:PTHR15484:SF7,hmmpanther:PTHR15484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	TCGGTTCTCTTGTC	.	5	BLCA
KCNJ14	0	.	GRCh37	19	48967834	48967834	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1111G>C	p.Glu371Gln	p.E371Q	ENST00000391884	2/2	86	68	18	67	67	0	KCNJ14,missense_variant,p.Glu371Gln,ENST00000342291,;KCNJ14,missense_variant,p.Glu371Gln,ENST00000391884,;CYTH2,upstream_gene_variant,,ENST00000427476,;CTC-273B12.7,upstream_gene_variant,,ENST00000595676,;CYTH2,upstream_gene_variant,,ENST00000452733,;CTC-273B12.6,upstream_gene_variant,,ENST00000597574,;CTC-273B12.5,downstream_gene_variant,,ENST00000593476,;CTC-273B12.5,downstream_gene_variant,,ENST00000600650,;CTC-273B12.5,downstream_gene_variant,,ENST00000596497,;CTC-273B12.5,downstream_gene_variant,,ENST00000600529,;CYTH2,upstream_gene_variant,,ENST00000462117,;CYTH2,upstream_gene_variant,,ENST00000474049,;CYTH2,upstream_gene_variant,,ENST00000493260,;CYTH2,upstream_gene_variant,,ENST00000391881,;CYTH2,upstream_gene_variant,,ENST00000460595,;	C	ENSG00000182324	ENST00000391884	Transcript	missense_variant	1587	1111	371	E/Q	Gag/Cag	COSM418145	.	.	1	KCNJ14	HGNC	6260	protein_coding	YES	CCDS12721.1	ENSP00000375756	IRK14_HUMAN	.	UPI000003E7B4	.	tolerated(0.46)	possibly_damaging(0.565)	2/2	.	hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF40,Pfam_domain:PF01007,Gene3D:2.60.40.1400,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCAGAGCAG	.	5	BLCA
SPHK2	0	.	GRCh37	19	49132338	49132338	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1273C>G	p.Leu425Val	p.L425V	ENST00000245222	7/7	59	49	9	69	69	0	SPHK2,missense_variant,p.Leu387Val,ENST00000340932,;SPHK2,missense_variant,p.Leu389Val,ENST00000599748,;SPHK2,missense_variant,p.Leu425Val,ENST00000245222,;SPHK2,missense_variant,p.Leu425Val,ENST00000598088,;SPHK2,missense_variant,p.Leu366Val,ENST00000600537,;SPHK2,missense_variant,p.Leu487Val,ENST00000443164,;SPHK2,missense_variant,p.Leu389Val,ENST00000599029,;SPHK2,downstream_gene_variant,,ENST00000601704,;DBP,downstream_gene_variant,,ENST00000601104,;DBP,downstream_gene_variant,,ENST00000222122,;SPHK2,downstream_gene_variant,,ENST00000593308,;SPHK2,downstream_gene_variant,,ENST00000601712,;DBP,downstream_gene_variant,,ENST00000593500,;DBP,downstream_gene_variant,,ENST00000599385,;AC022154.7,upstream_gene_variant,,ENST00000594850,;SPHK2,downstream_gene_variant,,ENST00000599033,;SPHK2,3_prime_UTR_variant,,ENST00000426514,;SPHK2,intron_variant,,ENST00000597434,;DBP,downstream_gene_variant,,ENST00000594723,;SPHK2,downstream_gene_variant,,ENST00000598574,;	G	ENSG00000063176	ENST00000245222	Transcript	missense_variant	1639	1273	425	L/V	Ctt/Gtt	COSM439914,COSM418139	.	.	1	SPHK2	HGNC	18859	protein_coding	YES	CCDS12727.1	ENSP00000245222	SPHK2_HUMAN	Q8N2M3_HUMAN,M0R0E9_HUMAN,M0QZP3_HUMAN,M0QXX5_HUMAN	UPI0000135E14	.	tolerated(0.16)	possibly_damaging(0.54)	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12358:SF12,hmmpanther:PTHR12358	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCTTCCC	.	5	BLCA
SPHK2	0	.	GRCh37	19	49132817	49132817	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1752C>G	p.Phe584Leu	p.F584L	ENST00000245222	7/7	8	6	2	19	19	0	SPHK2,missense_variant,p.Phe546Leu,ENST00000340932,;SPHK2,missense_variant,p.Phe548Leu,ENST00000599748,;SPHK2,missense_variant,p.Phe584Leu,ENST00000245222,;SPHK2,missense_variant,p.Phe584Leu,ENST00000598088,;SPHK2,missense_variant,p.Phe525Leu,ENST00000600537,;SPHK2,missense_variant,p.Phe646Leu,ENST00000443164,;SPHK2,missense_variant,p.Phe548Leu,ENST00000599029,;SPHK2,downstream_gene_variant,,ENST00000601704,;DBP,downstream_gene_variant,,ENST00000601104,;DBP,downstream_gene_variant,,ENST00000222122,;SPHK2,downstream_gene_variant,,ENST00000593308,;SPHK2,downstream_gene_variant,,ENST00000601712,;DBP,downstream_gene_variant,,ENST00000593500,;DBP,downstream_gene_variant,,ENST00000599385,;SPHK2,downstream_gene_variant,,ENST00000599033,;SPHK2,3_prime_UTR_variant,,ENST00000426514,;SPHK2,intron_variant,,ENST00000597434,;DBP,downstream_gene_variant,,ENST00000594723,;SPHK2,downstream_gene_variant,,ENST00000598574,;	G	ENSG00000063176	ENST00000245222	Transcript	missense_variant	2118	1752	584	F/L	ttC/ttG	COSM418138	.	.	1	SPHK2	HGNC	18859	protein_coding	YES	CCDS12727.1	ENSP00000245222	SPHK2_HUMAN	Q8N2M3_HUMAN,M0R0E9_HUMAN,M0QZP3_HUMAN,M0QXX5_HUMAN	UPI0000135E14	.	tolerated(0.06)	benign(0.029)	7/7	.	Superfamily_domains:SSF111331,hmmpanther:PTHR12358:SF12,hmmpanther:PTHR12358	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTTCTTGGC	.	2	BLCA
PLEKHA4	0	.	GRCh37	19	49362759	49362759	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.659C>G	p.Ser220Cys	p.S220C	ENST00000263265	7/20	85	68	17	96	96	0	PLEKHA4,missense_variant,p.Ser176Cys,ENST00000594100,;PLEKHA4,missense_variant,p.Ser220Cys,ENST00000355496,;PLEKHA4,missense_variant,p.Ser220Cys,ENST00000263265,;PLEKHA4,upstream_gene_variant,,ENST00000594195,;PLEKHA4,upstream_gene_variant,,ENST00000595867,;PLEKHA4,non_coding_transcript_exon_variant,,ENST00000596713,;PLEKHA4,3_prime_UTR_variant,,ENST00000596982,;	C	ENSG00000105559	ENST00000263265	Transcript	missense_variant	1215	659	220	S/C	tCt/tGt	COSM418135,COSM3536681	.	.	-1	PLEKHA4	HGNC	14339	protein_coding	YES	CCDS12737.1	ENSP00000263265	PKHA4_HUMAN	M0R2K5_HUMAN,M0QXJ3_HUMAN	UPI00000721A6	.	deleterious(0)	possibly_damaging(0.789)	7/20	.	hmmpanther:PTHR12752	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCAGAGTGG	.	5	BLCA
BAX	0	.	GRCh37	19	49464356	49464356	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2C>G	.	.	ENST00000293288	5/5	77	71	5	76	76	0	BAX,3_prime_UTR_variant,,ENST00000293288,;BAX,intron_variant,,ENST00000391871,;BAX,intron_variant,,ENST00000539787,;BAX,intron_variant,,ENST00000345358,;BAX,intron_variant,,ENST00000415969,;BAX,intron_variant,,ENST00000354470,;BAX,intron_variant,,ENST00000506183,;FTL,upstream_gene_variant,,ENST00000331825,;CTD-2639E6.9,upstream_gene_variant,,ENST00000599784,;CTD-2639E6.9,upstream_gene_variant,,ENST00000594305,;BAX,non_coding_transcript_exon_variant,,ENST00000513217,;BAX,intron_variant,,ENST00000513545,;BAX,intron_variant,,ENST00000502487,;BAX,intron_variant,,ENST00000356483,;BAX,downstream_gene_variant,,ENST00000515540,;BAX,downstream_gene_variant,,ENST00000503726,;	G	ENSG00000087088	ENST00000293288	Transcript	3_prime_UTR_variant	659	.	.	.	.	.	.	.	1	BAX	HGNC	959	protein_coding	YES	CCDS12744.1	ENSP00000293288	BAX_HUMAN	Q9UEI8_HUMAN,Q8WXU1_HUMAN,Q5ZPJ1_HUMAN,I6LPK7_HUMAN	UPI000000D900	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGATCAATCC	.	2	BLCA
SLC6A16	0	.	GRCh37	19	49814319	49814319	+	Missense_Mutation	SNP	C	C	G	rs148710394	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>C	p.Glu96Gln	p.E96Q	ENST00000335875	2/12	128	98	29	127	127	0	SLC6A16,missense_variant,p.Glu96Gln,ENST00000454748,;SLC6A16,missense_variant,p.Glu96Gln,ENST00000335875,;SLC6A16,intron_variant,,ENST00000598828,;SLC6A16,upstream_gene_variant,,ENST00000594917,;SLC6A16,upstream_gene_variant,,ENST00000594180,;SLC6A16,upstream_gene_variant,,ENST00000597969,;MIR4324,upstream_gene_variant,,ENST00000584846,;SLC6A16,intron_variant,,ENST00000598221,;	G	ENSG00000063127	ENST00000335875	Transcript	missense_variant	528	286	96	E/Q	Gag/Cag	rs148710394,COSM418119	.	.	-1	SLC6A16	HGNC	13622	protein_coding	YES	CCDS42590.1	ENSP00000338627	S6A16_HUMAN	M0QYK3_HUMAN	UPI00001305CE	.	tolerated(0.29)	benign(0.244)	2/12	.	hmmpanther:PTHR11616:SF48,hmmpanther:PTHR11616	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCTTTCT	byCluster|by1000G	5	BLCA
PRR12	0	.	GRCh37	19	50099726	50099726	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2134G>A	p.Glu712Lys	p.E712K	ENST00000418929	4/14	19	12	7	12	12	0	PRR12,missense_variant,p.Glu712Lys,ENST00000418929,;	A	ENSG00000126464	ENST00000418929	Transcript	missense_variant	2146	2134	712	E/K	Gag/Aag	COSM418113	.	.	1	PRR12	HGNC	29217	protein_coding	YES	CCDS46143.1	ENSP00000394510	PRR12_HUMAN	.	UPI0001596889	.	.	possibly_damaging(0.486)	4/14	.	hmmpanther:PTHR14709:SF1,hmmpanther:PTHR14709	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGAGGGT	.	5	BLCA
CPT1C	0	.	GRCh37	19	50209292	50209292	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1091G>A	p.Arg364Lys	p.R364K	ENST00000392518	11/20	96	74	22	102	102	0	CPT1C,missense_variant,p.Arg364Lys,ENST00000598293,;CPT1C,missense_variant,p.Arg364Lys,ENST00000323446,;CPT1C,missense_variant,p.Arg364Lys,ENST00000392518,;CPT1C,missense_variant,p.Arg364Lys,ENST00000354199,;CPT1C,missense_variant,p.Arg353Lys,ENST00000405931,;CPT1C,upstream_gene_variant,,ENST00000595031,;CPT1C,downstream_gene_variant,,ENST00000598396,;CPT1C,downstream_gene_variant,,ENST00000595969,;CPT1C,downstream_gene_variant,,ENST00000594587,;CPT1C,3_prime_UTR_variant,,ENST00000598259,;CPT1C,non_coding_transcript_exon_variant,,ENST00000596701,;CPT1C,non_coding_transcript_exon_variant,,ENST00000599023,;CPT1C,non_coding_transcript_exon_variant,,ENST00000295404,;CPT1C,non_coding_transcript_exon_variant,,ENST00000594431,;CPT1C,downstream_gene_variant,,ENST00000595568,;	A	ENSG00000169169	ENST00000392518	Transcript	missense_variant	1463	1091	364	R/K	aGa/aAa	COSM418112	.	.	1	CPT1C	HGNC	18540	protein_coding	YES	CCDS12779.1	ENSP00000376303	CPT1C_HUMAN	M0R2V3_HUMAN,M0R115_HUMAN,M0QZ13_HUMAN,B3KU49_HUMAN	UPI0000071C78	.	tolerated(0.19)	benign(0.257)	11/20	.	Superfamily_domains:SSF52777,Pfam_domain:PF00755,hmmpanther:PTHR22589,hmmpanther:PTHR22589:SF55	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGAGAATCC	.	5	BLCA
ZNF845	0	.	GRCh37	19	53855026	53855026	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1098C>G	p.Phe366Leu	p.F366L	ENST00000458035	4/4	97	72	24	90	90	0	ZNF845,missense_variant,p.Phe366Leu,ENST00000595091,;ZNF845,missense_variant,p.Phe366Leu,ENST00000458035,;ZNF845,downstream_gene_variant,,ENST00000601857,;	G	ENSG00000213799	ENST00000458035	Transcript	missense_variant	1215	1098	366	F/L	ttC/ttG	COSM418069	.	.	1	ZNF845	HGNC	25112	protein_coding	YES	CCDS46170.1	ENSP00000388311	ZN845_HUMAN	M0R2N3_HUMAN,M0R0Z8_HUMAN	UPI0001662BAC	.	tolerated(0.66)	benign(0.153)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF22,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCAAATC	.	5	BLCA
MIR520A	0	.	GRCh37	19	54194177	54194177	+	RNA	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.43G>C	.	.	ENST00000384862	1/1	244	194	50	176	176	0	MIR520A,non_coding_transcript_exon_variant,,ENST00000384862,;MIR526B,upstream_gene_variant,,ENST00000384848,;MIR519C,downstream_gene_variant,,ENST00000385053,;MIR1283-1,downstream_gene_variant,,ENST00000408494,;MIR519B,upstream_gene_variant,,ENST00000385090,;	C	ENSG00000207594	ENST00000384862	Transcript	non_coding_transcript_exon_variant	43	.	.	.	.	.	.	.	1	MIR520A	HGNC	32099	miRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGAGAGA	.	5	BLCA
CNOT3	0	.	GRCh37	19	54646543	54646543	+	5'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-172G>A	.	.	ENST00000406403	1/17	14	9	5	9	9	0	CNOT3,5_prime_UTR_variant,,ENST00000406403,;CNOT3,intron_variant,,ENST00000358389,;CNOT3,intron_variant,,ENST00000221232,;CNOT3,upstream_gene_variant,,ENST00000440571,;CNOT3,intron_variant,,ENST00000482247,;CNOT3,upstream_gene_variant,,ENST00000447684,;	A	ENSG00000088038	ENST00000406403	Transcript	5_prime_UTR_variant	1432	.	.	.	.	.	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	TGTCAGATAGC	.	3	BLCA
CNOT3	0	.	GRCh37	19	54646674	54646674	+	5'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-41C>G	.	.	ENST00000406403	1/17	127	97	29	126	126	0	CNOT3,5_prime_UTR_variant,,ENST00000358389,;CNOT3,5_prime_UTR_variant,,ENST00000406403,;CNOT3,5_prime_UTR_variant,,ENST00000221232,;CNOT3,upstream_gene_variant,,ENST00000440571,;CNOT3,non_coding_transcript_exon_variant,,ENST00000482247,;CNOT3,upstream_gene_variant,,ENST00000447684,;	G	ENSG00000088038	ENST00000406403	Transcript	5_prime_UTR_variant	1563	.	.	.	.	.	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCCAAGA	.	5	BLCA
CNOT3	0	.	GRCh37	19	54646863	54646863	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>C	p.Asp12His	p.D12H	ENST00000406403	2/17	326	284	42	366	366	0	CNOT3,missense_variant,p.Asp12His,ENST00000406403,;CNOT3,missense_variant,p.Asp12His,ENST00000221232,;CNOT3,5_prime_UTR_variant,,ENST00000358389,;CNOT3,upstream_gene_variant,,ENST00000440571,;CNOT3,non_coding_transcript_exon_variant,,ENST00000482247,;CNOT3,upstream_gene_variant,,ENST00000447684,;	C	ENSG00000088038	ENST00000406403	Transcript	missense_variant	1637	34	12	D/H	Gat/Cat	COSM418056	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	deleterious(0)	probably_damaging(0.999)	2/17	.	PIRSF_domain:PIRSF005290,Pfam_domain:PF04065,hmmpanther:PTHR23326,hmmpanther:PTHR23326:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AGATTGATCGC	.	3	BLCA
CNOT3	0	.	GRCh37	19	54646887	54646887	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58G>A	p.Glu20Lys	p.E20K	ENST00000406403	2/17	302	265	37	360	360	0	CNOT3,missense_variant,p.Glu20Lys,ENST00000406403,;CNOT3,missense_variant,p.Glu20Lys,ENST00000221232,;CNOT3,5_prime_UTR_variant,,ENST00000358389,;CNOT3,upstream_gene_variant,,ENST00000440571,;CNOT3,non_coding_transcript_exon_variant,,ENST00000482247,;CNOT3,upstream_gene_variant,,ENST00000447684,;	A	ENSG00000088038	ENST00000406403	Transcript	missense_variant	1661	58	20	E/K	Gag/Aag	COSM96799	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	deleterious(0)	probably_damaging(0.994)	2/17	.	PIRSF_domain:PIRSF005290,Pfam_domain:PF04065,hmmpanther:PTHR23326,hmmpanther:PTHR23326:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.E20K|c.58G>A|7	RADIA|MUTECT|MUSE	TGTCCGAGGGC	.	3	BLCA
LILRB3	0	.	GRCh37	19	54724400	54724400	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1256C>T	p.Ser419Leu	p.S419L	ENST00000245620	6/13	46	35	11	65	65	0	LILRB3,missense_variant,p.Ser419Leu,ENST00000424807,;LILRB3,missense_variant,p.Ser419Leu,ENST00000407860,;LILRA6,missense_variant,p.Ser419Leu,ENST00000270464,;LILRB3,missense_variant,p.Ser419Leu,ENST00000391750,;LILRA6,missense_variant,p.Ser419Leu,ENST00000440558,;LILRB3,missense_variant,p.Ser419Leu,ENST00000245620,;LILRB3,missense_variant,p.Ser419Leu,ENST00000346401,;LILRA6,intron_variant,,ENST00000391735,;LILRA6,intron_variant,,ENST00000419410,;LILRB3,downstream_gene_variant,,ENST00000445347,;CTB-83J4.1,upstream_gene_variant,,ENST00000601161,;LILRB3,splice_region_variant,,ENST00000469273,;LILRB3,splice_region_variant,,ENST00000414379,;RPS9,intron_variant,,ENST00000448962,;LILRB3,upstream_gene_variant,,ENST00000436504,;LILRB3,downstream_gene_variant,,ENST00000468668,;LILRB3,upstream_gene_variant,,ENST00000460208,;	A	ENSG00000204577	ENST00000245620	Transcript	missense_variant	1258	1256	419	S/L	tCa/tTa	COSM418051	.	.	-1	LILRB3	HGNC	6607	protein_coding	YES	CCDS46175.1	ENSP00000245620	LIRB3_HUMAN	C9JWL8_HUMAN	UPI0000E04BFA	.	deleterious(0)	probably_damaging(0.999)	6/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11738,hmmpanther:PTHR11738:SF32,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CACCTGAGACC	.	4	BLCA
LILRA6	0	.	GRCh37	19	54746131	54746131	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126G>A	p.%3D	p.G42G	ENST00000396365	3/8	209	182	27	222	222	0	LILRA6,synonymous_variant,p.%3D,ENST00000245621,;LILRB3,synonymous_variant,p.%3D,ENST00000407860,;LILRA6,synonymous_variant,p.%3D,ENST00000270464,;LILRA6,synonymous_variant,p.%3D,ENST00000391735,;LILRA6,synonymous_variant,p.%3D,ENST00000440558,;LILRA6,synonymous_variant,p.%3D,ENST00000396365,;LILRA6,synonymous_variant,p.%3D,ENST00000419410,;LILRA6,synonymous_variant,p.%3D,ENST00000430421,;LILRA6,non_coding_transcript_exon_variant,,ENST00000474697,;RPS9,intron_variant,,ENST00000448962,;AC010492.4,downstream_gene_variant,,ENST00000506567,;	T	ENSG00000244482	ENST00000396365	Transcript	synonymous_variant	166	126	42	G	ggG/ggA	COSM418048,COSM418047	.	.	-1	LILRA6	HGNC	15495	protein_coding	YES	CCDS42610.1	ENSP00000379651	LIRA6_HUMAN	.	UPI000022A9CA	.	.	.	3/8	.	Superfamily_domains:SSF48726,PIRSF_domain:PIRSF001979,SMART_domains:SM00409,SMART_domains:SM00408,Gene3D:2.60.40.10,Pfam_domain:PF13895,hmmpanther:PTHR11738:SF99,hmmpanther:PTHR11738	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCCCCA	.	4	BLCA
PPP1R12C	0	.	GRCh37	19	55610164	55610164	+	Silent	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.939G>T	p.%3D	p.R313R	ENST00000263433	6/22	128	103	24	129	129	0	PPP1R12C,synonymous_variant,p.%3D,ENST00000376393,;PPP1R12C,synonymous_variant,p.%3D,ENST00000592993,;PPP1R12C,synonymous_variant,p.%3D,ENST00000435544,;PPP1R12C,synonymous_variant,p.%3D,ENST00000263433,;PPP1R12C,upstream_gene_variant,,ENST00000591938,;PPP1R12C,upstream_gene_variant,,ENST00000586197,;PPP1R12C,upstream_gene_variant,,ENST00000588277,;PPP1R12C,upstream_gene_variant,,ENST00000592754,;	A	ENSG00000125503	ENST00000263433	Transcript	synonymous_variant	955	939	313	R	cgG/cgT	COSM418026	.	.	-1	PPP1R12C	HGNC	14947	protein_coding	YES	CCDS12916.1	ENSP00000263433	PP12C_HUMAN	.	UPI000006FEE1	.	.	.	6/22	.	Coiled-coils_(Ncoils):Coil,PIRSF_domain:PIRSF038141,Gene3D:1.25.40.20,hmmpanther:PTHR24179,hmmpanther:PTHR24179:SF19	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCCGGGC	.	5	BLCA
SYT5	0	.	GRCh37	19	55689630	55689630	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>A	p.%3D	p.K62K	ENST00000354308	3/9	17	13	4	15	15	0	SYT5,synonymous_variant,p.%3D,ENST00000589172,;SYT5,synonymous_variant,p.%3D,ENST00000592470,;SYT5,synonymous_variant,p.%3D,ENST00000537500,;SYT5,synonymous_variant,p.%3D,ENST00000354308,;SYT5,intron_variant,,ENST00000590851,;SYT5,upstream_gene_variant,,ENST00000590859,;PTPRH,downstream_gene_variant,,ENST00000376350,;PTPRH,downstream_gene_variant,,ENST00000263434,;SYT5,upstream_gene_variant,,ENST00000587067,;CTD-2587H24.5,downstream_gene_variant,,ENST00000591665,;SYT5,intron_variant,,ENST00000585461,;SYT5,upstream_gene_variant,,ENST00000588305,;SYT5,upstream_gene_variant,,ENST00000592956,;	T	ENSG00000129990	ENST00000354308	Transcript	synonymous_variant	556	186	62	K	aaG/aaA	COSM418023	.	.	-1	SYT5	HGNC	11513	protein_coding	YES	CCDS12919.1	ENSP00000346265	SYT5_HUMAN	Q4FD32_HUMAN,Q05BS5_HUMAN,K7EQ59_HUMAN,K7EJS7_HUMAN,K7EJC4_HUMAN	UPI000013C56F	.	.	.	3/9	.	hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF37	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTTCTT	.	5	BLCA
ZNF580	0	.	GRCh37	19	56153796	56153796	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-79C>T	.	.	ENST00000543039	1/1	39	29	10	34	34	0	ZNF580,5_prime_UTR_variant,,ENST00000543039,;ZNF581,intron_variant,,ENST00000587252,;ZNF580,intron_variant,,ENST00000592881,;ZNF580,intron_variant,,ENST00000325333,;ZNF581,intron_variant,,ENST00000585995,;CCDC106,intron_variant,,ENST00000592996,;ZNF580,intron_variant,,ENST00000592461,;ZNF580,intron_variant,,ENST00000590190,;ZNF580,intron_variant,,ENST00000545125,;ZNF581,upstream_gene_variant,,ENST00000588537,;ZNF581,upstream_gene_variant,,ENST00000270451,;	T	ENSG00000213015	ENST00000543039	Transcript	5_prime_UTR_variant	379	.	.	.	.	.	.	.	1	ZNF580	HGNC	29473	protein_coding	YES	CCDS12931.1	ENSP00000443957	ZN580_HUMAN	K7ERU0_HUMAN,K7ENY2_HUMAN,K7EJ53_HUMAN	UPI0000073282	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTCCATTT	.	5	BLCA
ZNF17	0	.	GRCh37	19	57932476	57932476	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1616C>G	p.Ser539Ter	p.S539*	ENST00000601808	3/3	126	100	25	102	102	0	ZNF17,stop_gained,p.Ser541Ter,ENST00000307658,;ZNF17,stop_gained,p.Ser539Ter,ENST00000601808,;AC004076.7,intron_variant,,ENST00000597410,;AC003002.6,downstream_gene_variant,,ENST00000596400,;AC003002.6,downstream_gene_variant,,ENST00000596617,;ZNF17,downstream_gene_variant,,ENST00000597350,;ZNF17,downstream_gene_variant,,ENST00000595206,;ZNF17,downstream_gene_variant,,ENST00000599867,;ZNF17,non_coding_transcript_exon_variant,,ENST00000602050,;ZNF17,downstream_gene_variant,,ENST00000595162,;	G	ENSG00000186272	ENST00000601808	Transcript	stop_gained	1829	1616	539	S/*	tCa/tGa	COSM417998	.	.	1	ZNF17	HGNC	12958	protein_coding	YES	CCDS42636.1	ENSP00000471905	ZNF17_HUMAN	.	UPI00001D8198	.	.	.	3/3	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50157,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF166,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCAAATC	.	5	BLCA
ZNF587	0	.	GRCh37	19	58361369	58361369	+	5'UTR	SNP	G	G	A	rs375933945	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-38G>A	.	.	ENST00000339656	1/3	51	36	14	50	50	0	ZNF587,5_prime_UTR_variant,,ENST00000423137,;ZNF587,5_prime_UTR_variant,,ENST00000339656,;CTD-2583A14.10,intron_variant,,ENST00000598031,;CTD-2583A14.10,intron_variant,,ENST00000597134,;ZNF587B,intron_variant,,ENST00000316462,;CTD-2583A14.10,intron_variant,,ENST00000593873,;CTD-2583A14.10,intron_variant,,ENST00000596498,;CTD-2583A14.10,intron_variant,,ENST00000603271,;ZNF814,downstream_gene_variant,,ENST00000597342,;ZNF814,downstream_gene_variant,,ENST00000596604,;ZNF587B,downstream_gene_variant,,ENST00000442832,;ZNF814,downstream_gene_variant,,ENST00000597832,;ZNF814,non_coding_transcript_exon_variant,,ENST00000597652,;ZNF587,non_coding_transcript_exon_variant,,ENST00000484707,;CTD-2583A14.10,intron_variant,,ENST00000604231,;ZNF814,downstream_gene_variant,,ENST00000595894,;	A	ENSG00000198466	ENST00000339656	Transcript	5_prime_UTR_variant	145	.	.	.	.	rs375933945	.	.	1	ZNF587	HGNC	30955	protein_coding	YES	CCDS12964.1	ENSP00000345479	ZN587_HUMAN	M0R2A6_HUMAN,M0R178_HUMAN,M0R0V5_HUMAN,M0R0M6_HUMAN,M0QXF5_HUMAN,E7EP41_HUMAN	UPI0000073916	.	.	.	1/3	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGGCGACCAC	.	4	BLCA
MCOLN1	0	.	GRCh37	19	7591755	7591755	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.514C>T	p.Arg172Ter	p.R172*	ENST00000264079	4/14	130	103	26	143	143	0	MCOLN1,stop_gained,p.Arg172Ter,ENST00000264079,;MCOLN1,stop_gained,p.Arg172Ter,ENST00000601003,;MCOLN1,upstream_gene_variant,,ENST00000599334,;MCOLN1,non_coding_transcript_exon_variant,,ENST00000596008,;MCOLN1,non_coding_transcript_exon_variant,,ENST00000394321,;MCOLN1,non_coding_transcript_exon_variant,,ENST00000598406,;MCOLN1,upstream_gene_variant,,ENST00000594692,;MCOLN1,upstream_gene_variant,,ENST00000595860,;MCOLN1,downstream_gene_variant,,ENST00000596390,;	T	ENSG00000090674	ENST00000264079	Transcript	stop_gained	639	514	172	R/*	Cga/Tga	CM003597,COSM418719	.	.	1	MCOLN1	HGNC	13356	protein_coding	YES	CCDS12180.1	ENSP00000264079	MCLN1_HUMAN	B4DFZ1_HUMAN	UPI00000377A2	.	.	.	4/14	.	hmmpanther:PTHR12127,hmmpanther:PTHR12127:SF6	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCACCGAGGC	.	5	BLCA
TIMM44	0	.	GRCh37	19	8000015	8000015	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>C	p.Glu110Gln	p.E110Q	ENST00000270538	4/13	28	20	8	25	25	0	TIMM44,missense_variant,p.Glu110Gln,ENST00000270538,;TIMM44,missense_variant,p.Glu78Gln,ENST00000597926,;TIMM44,upstream_gene_variant,,ENST00000595565,;TIMM44,upstream_gene_variant,,ENST00000598968,;TIMM44,missense_variant,p.Glu105Gln,ENST00000595831,;TIMM44,3_prime_UTR_variant,,ENST00000595876,;TIMM44,non_coding_transcript_exon_variant,,ENST00000600748,;TIMM44,upstream_gene_variant,,ENST00000598481,;TIMM44,downstream_gene_variant,,ENST00000600000,;TIMM44,upstream_gene_variant,,ENST00000598675,;TIMM44,upstream_gene_variant,,ENST00000599650,;	G	ENSG00000104980	ENST00000270538	Transcript	missense_variant	597	328	110	E/Q	Gaa/Caa	COSM418711	.	.	-1	TIMM44	HGNC	17316	protein_coding	YES	CCDS12192.1	ENSP00000270538	TIM44_HUMAN	Q6AI07_HUMAN	UPI000012D5E2	.	deleterious(0.02)	probably_damaging(0.987)	4/13	.	hmmpanther:PTHR10721,TIGRFAM_domain:TIGR00984,PIRSF_domain:PIRSF037871	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCTGACT	.	5	BLCA
PRTN3	0	.	GRCh37	19	847830	847830	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632G>A	p.Gly211Asp	p.G211D	ENST00000234347	5/5	36	33	3	35	35	0	PRTN3,missense_variant,p.Gly170Asp,ENST00000544537,;PRTN3,missense_variant,p.Gly211Asp,ENST00000234347,;ELANE,upstream_gene_variant,,ENST00000263621,;ELANE,upstream_gene_variant,,ENST00000590230,;	A	ENSG00000196415	ENST00000234347	Transcript	missense_variant	678	632	211	G/D	gGc/gAc	COSM418706	.	.	1	PRTN3	HGNC	9495	protein_coding	YES	CCDS32860.1	ENSP00000234347	PRTN3_HUMAN	U3KPS2_HUMAN	UPI0000132263	.	deleterious(0.04)	probably_damaging(0.993)	5/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24257:SF15,hmmpanther:PTHR24257,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGATGGCATCA	.	4	BLCA
MARCH2	0	.	GRCh37	19	8503337	8503337	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648G>A	p.%3D	p.L216L	ENST00000602117	5/5	112	81	30	124	124	0	MARCH2,synonymous_variant,p.%3D,ENST00000602117,;MARCH2,synonymous_variant,p.%3D,ENST00000381035,;MARCH2,synonymous_variant,p.%3D,ENST00000393944,;MARCH2,synonymous_variant,p.%3D,ENST00000215555,;MARCH2,intron_variant,,ENST00000601283,;	A	ENSG00000099785	ENST00000602117	Transcript	synonymous_variant	1103	648	216	L	ctG/ctA	COSM418705	.	.	1	MARCH2	HGNC	28038	protein_coding	YES	CCDS12202.1	ENSP00000471536	MARH2_HUMAN	M0R1P2_HUMAN,M0R138_HUMAN,M0R0S4_HUMAN	UPI0000070149	.	.	.	5/5	.	hmmpanther:PTHR23012:SF56,hmmpanther:PTHR23012	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTGAAGAT	.	5	BLCA
MUC16	0	.	GRCh37	19	8999056	8999056	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40788C>T	p.%3D	p.F13596F	ENST00000397910	57/84	26	20	5	21	21	0	MUC16,synonymous_variant,p.%3D,ENST00000380951,;MUC16,synonymous_variant,p.%3D,ENST00000397910,;MUC16,synonymous_variant,p.%3D,ENST00000599436,;MUC16,synonymous_variant,p.%3D,ENST00000601404,;MUC16,synonymous_variant,p.%3D,ENST00000596768,;	A	ENSG00000181143	ENST00000397910	Transcript	synonymous_variant	40992	40788	13596	F	ttC/ttT	COSM418700,COSM418699	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	57/84	.	Superfamily_domains:0047452,SMART_domains:SM00200,Gene3D:1ivzA00,hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0,PROSITE_profiles:PS50024	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGTGAAACC	.	5	BLCA
ZNF562	0	.	GRCh37	19	9767306	9767306	+	Missense_Mutation	SNP	C	C	T	rs140829241	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>A	p.Glu89Lys	p.E89K	ENST00000448622	5/6	174	129	45	161	160	1	ZNF562,missense_variant,p.Glu20Lys,ENST00000453792,;ZNF562,missense_variant,p.Glu17Lys,ENST00000293648,;ZNF562,missense_variant,p.Glu89Lys,ENST00000448622,;ZNF562,missense_variant,p.Glu89Lys,ENST00000590155,;ZNF562,missense_variant,p.Glu52Lys,ENST00000588653,;ZNF562,missense_variant,p.Glu89Lys,ENST00000589542,;ZNF562,missense_variant,p.Glu52Lys,ENST00000541032,;ZNF562,missense_variant,p.Glu89Lys,ENST00000453372,;ZNF562,5_prime_UTR_variant,,ENST00000537617,;ZNF562,intron_variant,,ENST00000587392,;ZNF562,downstream_gene_variant,,ENST00000585350,;ZNF562,3_prime_UTR_variant,,ENST00000585688,;	T	ENSG00000171466	ENST00000448622	Transcript	missense_variant	428	265	89	E/K	Gaa/Aaa	rs140829241,COSM418667,COSM418666	.	.	-1	ZNF562	HGNC	25950	protein_coding	YES	CCDS45956.1	ENSP00000411784	ZN562_HUMAN	K7ELE4_HUMAN,B4E2P7_HUMAN	UPI000067CA26	.	deleterious(0.02)	benign(0.011)	5/6	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24384:SF7,hmmpanther:PTHR24384,SMART_domains:SM00349	.	.	.	.	.	.	.	G:0	G:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATTCTGAAG	.	5	BLCA
KIF1B	0	.	GRCh37	1	10381906	10381906	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2211G>A	p.%3D	p.L737L	ENST00000263934	22/47	80	64	16	60	60	0	KIF1B,synonymous_variant,p.%3D,ENST00000377081,;KIF1B,synonymous_variant,p.%3D,ENST00000377086,;KIF1B,synonymous_variant,p.%3D,ENST00000263934,;	A	ENSG00000054523	ENST00000263934	Transcript	synonymous_variant	2364	2211	737	L	ctG/ctA	.	.	.	1	KIF1B	HGNC	16636	protein_coding	YES	CCDS111.1	ENSP00000263934	KIF1B_HUMAN	B4DMF3_HUMAN	UPI000013EE7E	.	.	.	22/47	.	hmmpanther:PTHR24115:SF328,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGAAAAA	.	5	BLCA
CASZ1	0	.	GRCh37	1	10725233	10725233	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>C	p.Glu138Gln	p.E138Q	ENST00000377022	5/21	75	63	12	80	80	0	CASZ1,missense_variant,p.Glu138Gln,ENST00000344008,;CASZ1,missense_variant,p.Glu138Gln,ENST00000377022,;CASZ1,non_coding_transcript_exon_variant,,ENST00000478728,;CASZ1,non_coding_transcript_exon_variant,,ENST00000496432,;CASZ1,upstream_gene_variant,,ENST00000492173,;	G	ENSG00000130940	ENST00000377022	Transcript	missense_variant	730	412	138	E/Q	Gag/Cag	COSM414209	.	.	-1	CASZ1	HGNC	26002	protein_coding	YES	CCDS41246.1	ENSP00000366221	CASZ1_HUMAN	.	UPI0000EBB7D6	.	deleterious_low_confidence(0.05)	probably_damaging(0.936)	5/21	.	hmmpanther:PTHR12451	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCTCCG	.	5	BLCA
FAM102B	0	.	GRCh37	1	109103109	109103109	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>T	p.Ser20Leu	p.S20L	ENST00000370035	1/11	87	68	18	73	73	0	FAM102B,missense_variant,p.Ser20Leu,ENST00000370035,;FAM102B,missense_variant,p.Ser20Leu,ENST00000405454,;	T	ENSG00000162636	ENST00000370035	Transcript	missense_variant	399	59	20	S/L	tCa/tTa	COSM414204	.	.	1	FAM102B	HGNC	27637	protein_coding	YES	CCDS30786.2	ENSP00000359052	F102B_HUMAN	.	UPI00001D7585	.	tolerated(0.08)	possibly_damaging(0.707)	1/11	.	hmmpanther:PTHR21456:SF3,hmmpanther:PTHR21456,Pfam_domain:PF10358	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGTGC	.	5	BLCA
RBM15	0	.	GRCh37	1	110882500	110882500	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.473C>T	p.Ser158Phe	p.S158F	ENST00000369784	1/3	67	56	10	67	67	0	RBM15,missense_variant,p.Ser158Phe,ENST00000602849,;RBM15,missense_variant,p.Ser158Phe,ENST00000369784,;RBM15,missense_variant,p.Ser158Phe,ENST00000487146,;RP5-1074L1.1,upstream_gene_variant,,ENST00000449169,;	T	ENSG00000162775	ENST00000369784	Transcript	missense_variant	1373	473	158	S/F	tCc/tTc	COSM414193	.	.	1	RBM15	HGNC	14959	protein_coding	YES	CCDS822.1	ENSP00000358799	RBM15_HUMAN	.	UPI000013E1C5	.	deleterious(0.05)	benign(0.029)	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23189:SF43,hmmpanther:PTHR23189,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCCTCAG	.	4	BLCA
MTOR	0	.	GRCh37	1	11184592	11184592	+	Missense_Mutation	SNP	G	G	C	rs774204282	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6625C>G	p.Leu2209Val	p.L2209V	ENST00000361445	47/58	91	77	14	92	92	0	MTOR,missense_variant,p.Leu2209Val,ENST00000361445,;MTOR,missense_variant,p.Leu414Val,ENST00000376838,;	C	ENSG00000198793	ENST00000361445	Transcript	missense_variant	6702	6625	2209	L/V	Ctg/Gtg	rs774204282,COSM414183	.	.	-1	MTOR	HGNC	3942	protein_coding	YES	CCDS127.1	ENSP00000354558	MTOR_HUMAN	Q96QW8_HUMAN,B1AKQ2_HUMAN,B1AKP8_HUMAN	UPI000012ABD3	.	deleterious(0)	probably_damaging(0.992)	47/58	.	PROSITE_profiles:PS50290,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF63,Gene3D:3.30.1010.10,Pfam_domain:PF00454,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCAGAAGGG	byFrequency	5	BLCA
CHIA	0	.	GRCh37	1	111854982	111854982	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226C>G	p.Leu76Val	p.L76V	ENST00000369740	4/12	171	126	45	146	146	0	CHIA,missense_variant,p.Leu76Val,ENST00000369740,;CHIA,missense_variant,p.Leu76Val,ENST00000343320,;CHIA,intron_variant,,ENST00000489524,;CHIA,intron_variant,,ENST00000430615,;CHIA,intron_variant,,ENST00000483391,;CHIA,intron_variant,,ENST00000353665,;CHIA,intron_variant,,ENST00000451398,;CHIA,intron_variant,,ENST00000422815,;CHIA,intron_variant,,ENST00000352594,;CHIA,intron_variant,,ENST00000477918,;	G	ENSG00000134216	ENST00000369740	Transcript	missense_variant	329	226	76	L/V	Ctc/Gtc	COSM3471176,COSM414182	.	.	1	CHIA	HGNC	17432	protein_coding	YES	CCDS41368.1	ENSP00000358755	CHIA_HUMAN	E9PLJ2_HUMAN	UPI00000727DC	.	deleterious(0.02)	benign(0.157)	4/12	.	hmmpanther:PTHR11177:SF37,hmmpanther:PTHR11177,Gene3D:3.20.20.80,Pfam_domain:PF00704,SMART_domains:SM00636,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCTCTAC	.	5	BLCA
UBIAD1	0	.	GRCh37	1	11333510	11333510	+	5'UTR	SNP	C	C	T	rs572943619	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-79C>T	.	.	ENST00000376810	1/2	38	29	9	30	30	0	UBIAD1,5_prime_UTR_variant,,ENST00000376810,;UBIAD1,upstream_gene_variant,,ENST00000376804,;UBIAD1,upstream_gene_variant,,ENST00000483738,;UBIAD1,upstream_gene_variant,,ENST00000486588,;	T	ENSG00000120942	ENST00000376810	Transcript	5_prime_UTR_variant	248	.	.	.	.	rs572943619	.	.	1	UBIAD1	HGNC	30791	protein_coding	YES	CCDS129.1	ENSP00000366006	UBIA1_HUMAN	.	UPI0000073E35	.	.	.	1/2	.	.	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGCCCCGCCCC	by1000G	4	BLCA
SLC16A1	0	.	GRCh37	1	113460506	113460506	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522G>A	p.Trp174Ter	p.W174*	ENST00000538576	4/5	96	75	21	84	84	0	SLC16A1,stop_gained,p.Trp174Ter,ENST00000369626,;SLC16A1,stop_gained,p.Trp174Ter,ENST00000429288,;SLC16A1,stop_gained,p.Trp174Ter,ENST00000433570,;SLC16A1,stop_gained,p.Trp174Ter,ENST00000458229,;SLC16A1,stop_gained,p.Trp174Ter,ENST00000443580,;SLC16A1,stop_gained,p.Trp174Ter,ENST00000538576,;SLC16A1,downstream_gene_variant,,ENST00000481750,;	T	ENSG00000155380	ENST00000538576	Transcript	stop_gained	1354	522	174	W/*	tgG/tgA	COSM381729,COSM414170	.	.	-1	SLC16A1	HGNC	10922	protein_coding	YES	CCDS858.1	ENSP00000441065	MOT1_HUMAN	Q5T8R5_HUMAN,Q5T8R4_HUMAN,Q5T8R3_HUMAN	UPI00000012F5	.	.	.	4/5	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11360:SF24,hmmpanther:PTHR11360,Pfam_domain:PF07690,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR00892,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCCATCC	.	5	BLCA
NOTCH2	0	.	GRCh37	1	120529700	120529700	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.757G>C	p.Glu253Gln	p.E253Q	ENST00000256646	5/34	83	66	16	79	79	0	NOTCH2,missense_variant,p.Glu253Gln,ENST00000256646,;NOTCH2,non_coding_transcript_exon_variant,,ENST00000479412,;	G	ENSG00000134250	ENST00000256646	Transcript	missense_variant	977	757	253	E/Q	Gaa/Caa	COSM414141	.	.	-1	NOTCH2	HGNC	7882	protein_coding	YES	CCDS908.1	ENSP00000256646	NOTC2_HUMAN	Q9UFD5_HUMAN,Q13560_HUMAN	UPI000013CF1D	.	tolerated(0.14)	benign(0.115)	5/34	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24033:SF4,hmmpanther:PTHR24033,PROSITE_patterns:PS01186,PROSITE_patterns:PS00022,Gene3D:2gy5A03,SMART_domains:SM00179,PIRSF_domain:PIRSF002279,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCAAAAC	.	5	BLCA
VPS13D	0	.	GRCh37	1	12333105	12333105	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2149C>T	p.Gln717Ter	p.Q717*	ENST00000358136	18/70	138	108	29	110	110	0	VPS13D,stop_gained,p.Gln717Ter,ENST00000358136,;VPS13D,stop_gained,p.Gln717Ter,ENST00000356315,;VPS13D,upstream_gene_variant,,ENST00000011700,;	T	ENSG00000048707	ENST00000358136	Transcript	stop_gained	2279	2149	717	Q/*	Cag/Tag	COSM414138	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	.	18/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGGTG	.	5	BLCA
VPS13D	0	.	GRCh37	1	12333134	12333134	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2178C>G	p.Phe726Leu	p.F726L	ENST00000358136	18/70	112	92	20	123	123	0	VPS13D,missense_variant,p.Phe726Leu,ENST00000358136,;VPS13D,missense_variant,p.Phe726Leu,ENST00000356315,;VPS13D,upstream_gene_variant,,ENST00000011700,;	G	ENSG00000048707	ENST00000358136	Transcript	missense_variant	2308	2178	726	F/L	ttC/ttG	COSM414137	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	benign(0)	18/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAATTCAAGAA	.	3	BLCA
NBPF12	0	.	GRCh37	1	146399560	146399560	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499G>C	p.Asp167His	p.D167H	ENST00000442909	8/82	206	177	29	243	243	0	NBPF12,missense_variant,p.Asp92His,ENST00000309471,;NBPF12,missense_variant,p.Asp167His,ENST00000442909,;NBPF12,missense_variant,p.Asp167His,ENST00000446760,;	C	ENSG00000186275	ENST00000442909	Transcript	missense_variant	1335	499	167	D/H	Gat/Cat	COSM1133262,COSM414107	.	.	1	NBPF12	HGNC	24297	protein_coding	YES	.	ENSP00000391116	NBPFC_HUMAN	S4R3H5_HUMAN,H7BZX4_HUMAN,H7BYX2_HUMAN,F8WEX1_HUMAN,F5GXN6_HUMAN	UPI0001B798CE	.	.	probably_damaging(0.937)	8/82	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51316	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATGATGAA	.	4	BLCA
CGN	0	.	GRCh37	1	151498241	151498241	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1738G>T	p.Glu580Ter	p.E580*	ENST00000271636	9/21	59	49	10	42	42	0	CGN,stop_gained,p.Glu580Ter,ENST00000271636,;CGN,downstream_gene_variant,,ENST00000416743,;SNORA44,downstream_gene_variant,,ENST00000517031,;CGN,non_coding_transcript_exon_variant,,ENST00000464886,;	T	ENSG00000143375	ENST00000271636	Transcript	stop_gained	1871	1738	580	E/*	Gag/Tag	COSM414071	.	.	1	CGN	HGNC	17429	protein_coding	YES	CCDS999.1	ENSP00000271636	CING_HUMAN	A6PVU7_HUMAN,A2A3M4_HUMAN	UPI0000161C1E	.	.	.	9/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF280,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAAGGAGGAT	.	5	BLCA
FLG2	0	.	GRCh37	1	152328793	152328793	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1469C>T	p.Ser490Phe	p.S490F	ENST00000388718	3/3	409	303	106	380	380	0	FLG2,missense_variant,p.Ser490Phe,ENST00000388718,;FLG-AS1,intron_variant,,ENST00000392688,;FLG-AS1,intron_variant,,ENST00000445097,;	A	ENSG00000143520	ENST00000388718	Transcript	missense_variant	1542	1469	490	S/F	tCt/tTt	COSM414041	.	.	-1	FLG2	HGNC	33276	protein_coding	YES	CCDS30861.1	ENSP00000373370	FILA2_HUMAN	.	UPI00004E1DE5	.	.	unknown(0)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22571,hmmpanther:PTHR22571:SF24	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCAGAGGAC	.	5	BLCA
LCE1B	0	.	GRCh37	1	152785377	152785377	+	3'UTR	SNP	G	G	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*98G>T	.	.	ENST00000360090	1/1	18	14	3	28	28	0	LCE1B,3_prime_UTR_variant,,ENST00000360090,;	T	ENSG00000196734	ENST00000360090	Transcript	3_prime_UTR_variant	931	.	.	.	.	.	.	.	1	LCE1B	HGNC	16611	protein_coding	YES	CCDS1027.1	ENSP00000353203	LCE1B_HUMAN	.	UPI000014099C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGTGAGGGC	.	4	BLCA
SPRR4	0	.	GRCh37	1	152944714	152944714	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*108C>T	.	.	ENST00000328051	2/2	10	6	4	13	13	0	SPRR4,3_prime_UTR_variant,,ENST00000328051,;	T	ENSG00000184148	ENST00000328051	Transcript	3_prime_UTR_variant	397	.	.	.	.	.	.	.	1	SPRR4	HGNC	23173	protein_coding	YES	CCDS1031.1	ENSP00000332163	SPRR4_HUMAN	.	UPI000006D059	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CACATCTCCTC	.	3	BLCA
SPRR2F	0	.	GRCh37	1	153085095	153085095	+	Missense_Mutation	SNP	A	A	G	rs533901980	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115T>C	p.Ser39Pro	p.S39P	ENST00000468739	2/2	366	295	71	349	349	0	SPRR2F,missense_variant,p.Ser39Pro,ENST00000468739,;SPRR2B,intron_variant,,ENST00000368752,;	G	ENSG00000244094	ENST00000468739	Transcript	missense_variant	176	115	39	S/P	Tca/Cca	rs533901980,COSM414035	.	.	-1	SPRR2F	HGNC	11266	protein_coding	YES	CCDS30867.1	ENSP00000418193	SPR2F_HUMAN	.	UPI000006D423	.	.	unknown(0)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23263:SF16,hmmpanther:PTHR23263,Pfam_domain:PF14820,Prints_domain:PR00021	G:0.0002	G:0.0008	G:0	.	G:0	G:0	G:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTGATGGTG	by1000G	5	BLCA
UBAP2L	0	.	GRCh37	1	154233401	154233401	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2612C>A	p.Ser871Tyr	p.S871Y	ENST00000428931	23/27	101	85	16	109	109	0	UBAP2L,missense_variant,p.Ser202Tyr,ENST00000433615,;UBAP2L,missense_variant,p.Ser871Tyr,ENST00000361546,;UBAP2L,missense_variant,p.Ser882Tyr,ENST00000271877,;UBAP2L,missense_variant,p.Ser150Tyr,ENST00000428595,;UBAP2L,missense_variant,p.Ser871Tyr,ENST00000343815,;UBAP2L,missense_variant,p.Ser871Tyr,ENST00000428931,;SNORA58,downstream_gene_variant,,ENST00000364259,;UBAP2L,non_coding_transcript_exon_variant,,ENST00000484696,;UBAP2L,non_coding_transcript_exon_variant,,ENST00000475373,;UBAP2L,non_coding_transcript_exon_variant,,ENST00000465855,;UBAP2L,downstream_gene_variant,,ENST00000495676,;UBAP2L,upstream_gene_variant,,ENST00000493867,;UBAP2L,downstream_gene_variant,,ENST00000489076,;	A	ENSG00000143569	ENST00000428931	Transcript	missense_variant	2779	2612	871	S/Y	tCc/tAc	COSM414021,COSM1133267,COSM414022	.	.	1	UBAP2L	HGNC	29877	protein_coding	YES	CCDS1063.1	ENSP00000389445	UBP2L_HUMAN	Q5VU81_HUMAN,Q5VU80_HUMAN,Q5VU78_HUMAN	UPI000013E257	.	deleterious(0)	probably_damaging(0.982)	23/27	.	hmmpanther:PTHR16308:SF18,hmmpanther:PTHR16308	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCTCCTCCC	.	3	BLCA
PMVK	0	.	GRCh37	1	154897577	154897577	+	3'UTR	SNP	G	G	A	rs756866167	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28C>T	.	.	ENST00000368467	5/5	216	168	47	213	213	0	PMVK,3_prime_UTR_variant,,ENST00000368467,;	A	ENSG00000163344	ENST00000368467	Transcript	3_prime_UTR_variant	913	.	.	.	.	rs756866167	.	.	-1	PMVK	HGNC	9141	protein_coding	YES	CCDS1073.1	ENSP00000357452	PMVK_HUMAN	Q6FGV9_HUMAN	UPI000013E263	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCAGGCCCCA	.	4	BLCA
THBS3	0	.	GRCh37	1	155172609	155172609	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.951C>T	p.%3D	p.I317I	ENST00000368378	8/23	144	108	36	125	125	0	THBS3,synonymous_variant,p.%3D,ENST00000368378,;THBS3,synonymous_variant,p.%3D,ENST00000457183,;THBS3,5_prime_UTR_variant,,ENST00000541990,;THBS3,upstream_gene_variant,,ENST00000541576,;RP11-263K19.4,intron_variant,,ENST00000422665,;RP11-263K19.4,intron_variant,,ENST00000430312,;RP11-263K19.4,intron_variant,,ENST00000453136,;RP11-263K19.4,downstream_gene_variant,,ENST00000436772,;RP11-263K19.4,downstream_gene_variant,,ENST00000454348,;RP11-263K19.4,downstream_gene_variant,,ENST00000447623,;THBS3,non_coding_transcript_exon_variant,,ENST00000460050,;THBS3,non_coding_transcript_exon_variant,,ENST00000486260,;THBS3,upstream_gene_variant,,ENST00000465596,;THBS3,synonymous_variant,p.%3D,ENST00000428962,;THBS3,upstream_gene_variant,,ENST00000496332,;	A	ENSG00000169231	ENST00000368378	Transcript	synonymous_variant	972	951	317	I	atC/atT	COSM414009	.	.	-1	THBS3	HGNC	11787	protein_coding	YES	CCDS1099.1	ENSP00000357362	TSP3_HUMAN	Q2HIZ1_HUMAN,F5H4Z8_HUMAN,B3KQE1_HUMAN	UPI000013776E	.	.	.	8/23	.	PROSITE_profiles:PS50026,hmmpanther:PTHR10199,hmmpanther:PTHR10199:SF5,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTGATGTC	.	5	BLCA
PKLR	0	.	GRCh37	1	155264172	155264172	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.970G>A	p.Asp324Asn	p.D324N	ENST00000342741	7/11	75	58	17	72	72	0	PKLR,missense_variant,p.Asp324Asn,ENST00000342741,;PKLR,missense_variant,p.Asp293Asn,ENST00000392414,;HCN3,downstream_gene_variant,,ENST00000368358,;HCN3,downstream_gene_variant,,ENST00000496230,;HCN3,downstream_gene_variant,,ENST00000492035,;PKLR,downstream_gene_variant,,ENST00000434082,;	T	ENSG00000143627	ENST00000342741	Transcript	missense_variant	1009	970	324	D/N	Gat/Aat	COSM1498612,COSM414003	.	.	-1	PKLR	HGNC	9020	protein_coding	YES	CCDS1109.1	ENSP00000339933	KPYR_HUMAN	Q16715_HUMAN,B4DPM0_HUMAN	UPI0000001292	.	deleterious(0.04)	benign(0.011)	7/11	.	hmmpanther:PTHR11817,hmmpanther:PTHR11817:SF9,TIGRFAM_domain:TIGR01064,Gene3D:3.20.20.60,Pfam_domain:PF00224,Superfamily_domains:SSF51621,Prints_domain:PR01050	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATCAAACC	.	5	BLCA
ASH1L	0	.	GRCh37	1	155450350	155450350	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2311G>C	p.Asp771His	p.D771H	ENST00000392403	3/28	246	190	55	242	242	0	ASH1L,missense_variant,p.Asp771His,ENST00000368346,;ASH1L,missense_variant,p.Asp771His,ENST00000392403,;ASH1L,downstream_gene_variant,,ENST00000548830,;	G	ENSG00000116539	ENST00000392403	Transcript	missense_variant	2790	2311	771	D/H	Gat/Cat	COSM414450	.	.	-1	ASH1L	HGNC	19088	protein_coding	YES	CCDS1113.2	ENSP00000376204	ASH1L_HUMAN	.	UPI0000DACAC8	.	deleterious_low_confidence(0.03)	possibly_damaging(0.776)	3/28	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF311	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGATCTACAA	.	5	BLCA
FCRL5	0	.	GRCh37	1	157485321	157485321	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*144G>A	.	.	ENST00000361835	17/17	34	20	14	54	54	0	FCRL5,3_prime_UTR_variant,,ENST00000361835,;FCRL5,3_prime_UTR_variant,,ENST00000356953,;FCRL5,non_coding_transcript_exon_variant,,ENST00000462218,;FCRL5,non_coding_transcript_exon_variant,,ENST00000461387,;FCRL5,non_coding_transcript_exon_variant,,ENST00000497286,;FCRL5,downstream_gene_variant,,ENST00000483875,;	T	ENSG00000143297	ENST00000361835	Transcript	3_prime_UTR_variant	3236	.	.	.	.	.	.	.	-1	FCRL5	HGNC	18508	protein_coding	YES	CCDS1165.1	ENSP00000354691	FCRL5_HUMAN	.	UPI0000458907	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCAGACT	.	5	BLCA
FCRL5	0	.	GRCh37	1	157504671	157504671	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1414C>T	p.His472Tyr	p.H472Y	ENST00000361835	8/17	89	66	23	61	61	0	FCRL5,missense_variant,p.His472Tyr,ENST00000361835,;FCRL5,missense_variant,p.His472Tyr,ENST00000368190,;FCRL5,missense_variant,p.His472Tyr,ENST00000368189,;FCRL5,missense_variant,p.His472Tyr,ENST00000356953,;FCRL5,missense_variant,p.His387Tyr,ENST00000368191,;	A	ENSG00000143297	ENST00000361835	Transcript	missense_variant	1572	1414	472	H/Y	Cat/Tat	COSM414417	.	.	-1	FCRL5	HGNC	18508	protein_coding	YES	CCDS1165.1	ENSP00000354691	FCRL5_HUMAN	.	UPI0000458907	.	deleterious(0.02)	benign(0.154)	8/17	.	Superfamily_domains:SSF48726,hmmpanther:PTHR11481,hmmpanther:PTHR11481:SF49	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATGAGACA	.	5	BLCA
CD1E	0	.	GRCh37	1	158323802	158323802	+	Missense_Mutation	SNP	C	C	G	rs376989417	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24C>G	p.Phe8Leu	p.F8L	ENST00000368167	1/6	103	83	19	104	104	0	CD1E,missense_variant,p.Phe8Leu,ENST00000368165,;CD1E,missense_variant,p.Phe8Leu,ENST00000368163,;CD1E,missense_variant,p.Phe8Leu,ENST00000368166,;CD1E,missense_variant,p.Phe8Leu,ENST00000444681,;CD1E,missense_variant,p.Phe8Leu,ENST00000368161,;CD1E,missense_variant,p.Phe8Leu,ENST00000368154,;CD1E,missense_variant,p.Phe8Leu,ENST00000368160,;CD1E,missense_variant,p.Phe8Leu,ENST00000368167,;CD1E,missense_variant,p.Phe8Leu,ENST00000368156,;CD1E,missense_variant,p.Phe8Leu,ENST00000368164,;CD1E,missense_variant,p.Phe8Leu,ENST00000368155,;CD1E,missense_variant,p.Phe8Leu,ENST00000452291,;CD1E,missense_variant,p.Phe8Leu,ENST00000368157,;CD1E,intron_variant,,ENST00000434258,;CD1E,upstream_gene_variant,,ENST00000368162,;CD1E,upstream_gene_variant,,ENST00000464822,;	G	ENSG00000158488	ENST00000368167	Transcript	missense_variant	263	24	8	F/L	ttC/ttG	rs376989417,COSM414414,COSM3475985	.	.	1	CD1E	HGNC	1638	protein_coding	YES	CCDS41417.1	ENSP00000357149	CD1E_HUMAN	Q13974_HUMAN	UPI000046F8C2	.	tolerated(0.23)	benign(0.043)	1/6	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR16675:SF8,hmmpanther:PTHR16675	.	.	.	.	.	.	.	T:0.0003	T:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.F8F|c.24C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCGAGGG	byFrequency|byCluster	5	BLCA
OR10K2	0	.	GRCh37	1	158390393	158390393	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.264G>C	p.Gln88His	p.Q88H	ENST00000314902	1/1	250	187	63	172	172	0	OR10K2,missense_variant,p.Gln88His,ENST00000314902,;	G	ENSG00000180708	ENST00000314902	Transcript	missense_variant	264	264	88	Q/H	caG/caC	COSM414412	.	.	-1	OR10K2	HGNC	14826	protein_coding	YES	CCDS30896.1	ENSP00000324251	O10K2_HUMAN	.	UPI0000041BC2	.	tolerated(0.25)	benign(0.021)	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF325,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTGGGA	.	5	BLCA
PYHIN1	0	.	GRCh37	1	158908911	158908911	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453G>C	p.Arg151Ser	p.R151S	ENST00000368140	4/9	67	50	16	83	82	1	PYHIN1,missense_variant,p.Arg151Ser,ENST00000368135,;PYHIN1,missense_variant,p.Arg151Ser,ENST00000392254,;PYHIN1,missense_variant,p.Arg151Ser,ENST00000368140,;PYHIN1,missense_variant,p.Arg142Ser,ENST00000392252,;PYHIN1,missense_variant,p.Arg142Ser,ENST00000368138,;PYHIN1,downstream_gene_variant,,ENST00000458222,;PYHIN1,upstream_gene_variant,,ENST00000485134,;	C	ENSG00000163564	ENST00000368140	Transcript	missense_variant	698	453	151	R/S	agG/agC	COSM414396	.	.	1	PYHIN1	HGNC	28894	protein_coding	YES	CCDS1178.1	ENSP00000357122	IFIX_HUMAN	.	UPI0000225618	.	deleterious(0.03)	possibly_damaging(0.499)	4/9	.	hmmpanther:PTHR12200:SF14,hmmpanther:PTHR12200	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAGGAGTAA	.	5	BLCA
SLAMF8	0	.	GRCh37	1	159805105	159805105	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*55G>C	.	.	ENST00000289707	5/5	29	19	10	32	32	0	SLAMF8,3_prime_UTR_variant,,ENST00000368104,;SLAMF8,3_prime_UTR_variant,,ENST00000289707,;C1orf204,3_prime_UTR_variant,,ENST00000368102,;SLAMF8,intron_variant,,ENST00000471286,;SLAMF8,intron_variant,,ENST00000497141,;C1orf204,downstream_gene_variant,,ENST00000491974,;	C	ENSG00000158714	ENST00000289707	Transcript	3_prime_UTR_variant	1062	.	.	.	.	.	.	.	1	SLAMF8	HGNC	21391	protein_coding	YES	CCDS1188.1	ENSP00000289707	SLAF8_HUMAN	.	UPI000003E841	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACACGATGCT	.	5	BLCA
ATP1A4	0	.	GRCh37	1	160156493	160156493	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4C>T	.	.	ENST00000368081	22/22	22	19	3	30	30	0	ATP1A4,3_prime_UTR_variant,,ENST00000470705,;ATP1A4,3_prime_UTR_variant,,ENST00000368081,;CASQ1,upstream_gene_variant,,ENST00000368079,;CASQ1,upstream_gene_variant,,ENST00000368078,;ATP1A4,downstream_gene_variant,,ENST00000418334,;ATP1A4,downstream_gene_variant,,ENST00000466526,;ATP1A4,3_prime_UTR_variant,,ENST00000477338,;ATP1A4,non_coding_transcript_exon_variant,,ENST00000469023,;	T	ENSG00000132681	ENST00000368081	Transcript	3_prime_UTR_variant	3565	.	.	.	.	.	.	.	1	ATP1A4	HGNC	14073	protein_coding	YES	CCDS1197.1	ENSP00000357060	AT1A4_HUMAN	Q13818_HUMAN	UPI0000124FC5	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACTCAGCAG	.	2	BLCA
ITLN2	0	.	GRCh37	1	160914989	160914989	+	Missense_Mutation	SNP	C	C	T	rs755418453	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.919G>A	p.Val307Ile	p.V307I	ENST00000368029	8/8	94	74	19	92	91	1	ITLN2,missense_variant,p.Val307Ile,ENST00000368029,;RP11-544M22.1,splice_region_variant,,ENST00000356006,;ITLN2,non_coding_transcript_exon_variant,,ENST00000494442,;	T	ENSG00000158764	ENST00000368029	Transcript	missense_variant	977	919	307	V/I	Gtt/Att	rs755418453,COSM414384	.	.	-1	ITLN2	HGNC	20599	protein_coding	YES	CCDS1212.1	ENSP00000357008	ITLN2_HUMAN	.	UPI0000048F3E	.	tolerated(0.67)	benign(0)	8/8	.	hmmpanther:PTHR16146,hmmpanther:PTHR16146:SF21	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTAACGTGAG	byFrequency	5	BLCA
PPOX	0	.	GRCh37	1	161139447	161139447	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808-3C>T	.	.	ENST00000367999	.	157	130	26	160	160	0	PPOX,splice_region_variant,,ENST00000367999,;PPOX,splice_region_variant,,ENST00000352210,;PPOX,intron_variant,,ENST00000537523,;PPOX,intron_variant,,ENST00000544598,;PPOX,intron_variant,,ENST00000432542,;PPOX,intron_variant,,ENST00000535223,;B4GALT3,downstream_gene_variant,,ENST00000319769,;USP21,downstream_gene_variant,,ENST00000289865,;B4GALT3,downstream_gene_variant,,ENST00000367998,;USP21,downstream_gene_variant,,ENST00000368001,;USP21,downstream_gene_variant,,ENST00000368002,;PPOX,upstream_gene_variant,,ENST00000537829,;PPOX,splice_region_variant,,ENST00000470607,;PPOX,splice_region_variant,,ENST00000495483,;PPOX,splice_region_variant,,ENST00000460611,;PPOX,non_coding_transcript_exon_variant,,ENST00000462977,;PPOX,non_coding_transcript_exon_variant,,ENST00000494216,;PPOX,intron_variant,,ENST00000497522,;PPOX,intron_variant,,ENST00000462866,;B4GALT3,downstream_gene_variant,,ENST00000470882,;B4GALT3,downstream_gene_variant,,ENST00000465740,;B4GALT3,downstream_gene_variant,,ENST00000466504,;PPOX,downstream_gene_variant,,ENST00000490768,;B4GALT3,downstream_gene_variant,,ENST00000486938,;PPOX,upstream_gene_variant,,ENST00000466452,;USP21,downstream_gene_variant,,ENST00000493054,;PPOX,splice_region_variant,,ENST00000539753,;PPOX,non_coding_transcript_exon_variant,,ENST00000541818,;PPOX,downstream_gene_variant,,ENST00000468968,;USP21,downstream_gene_variant,,ENST00000485277,;PPOX,downstream_gene_variant,,ENST00000479246,;USP21,downstream_gene_variant,,ENST00000482385,;USP21,downstream_gene_variant,,ENST00000487163,;	T	ENSG00000143224	ENST00000367999	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	PPOX	HGNC	9280	protein_coding	YES	CCDS1221.1	ENSP00000356978	PPOX_HUMAN	Q96TC9_HUMAN,Q96SE3_HUMAN	UPI0000000C3C	.	.	.	.	7/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GCTCTCAGGTA	.	3	BLCA
ADAMTS4	0	.	GRCh37	1	161166037	161166037	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1014C>T	p.%3D	p.V338V	ENST00000367996	3/9	72	58	14	100	100	0	ADAMTS4,synonymous_variant,p.%3D,ENST00000367996,;ADAMTS4,3_prime_UTR_variant,,ENST00000367995,;NDUFS2,upstream_gene_variant,,ENST00000367993,;NDUFS2,upstream_gene_variant,,ENST00000496133,;ADAMTS4,upstream_gene_variant,,ENST00000478394,;NDUFS2,upstream_gene_variant,,ENST00000479948,;	A	ENSG00000158859	ENST00000367996	Transcript	synonymous_variant	1443	1014	338	V	gtC/gtT	COSM414373,COSM1133277	.	.	-1	ADAMTS4	HGNC	220	protein_coding	YES	CCDS1223.1	ENSP00000356975	ATS4_HUMAN	.	UPI000014194C	.	.	.	3/9	.	PROSITE_profiles:PS50215,hmmpanther:PTHR13723:SF38,hmmpanther:PTHR13723,Gene3D:3.40.390.10,Pfam_domain:PF01421,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGACGGT	.	5	BLCA
PRRC2C	0	.	GRCh37	1	171509701	171509701	+	Missense_Mutation	SNP	G	G	C	rs766536643	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3090G>C	p.Gln1030His	p.Q1030H	ENST00000338920	16/34	54	43	10	48	48	0	PRRC2C,missense_variant,p.Gln1030His,ENST00000338920,;PRRC2C,missense_variant,p.Gln1032His,ENST00000367742,;PRRC2C,missense_variant,p.Gln1030His,ENST00000426496,;PRRC2C,missense_variant,p.Gln1032His,ENST00000392078,;PRRC2C,upstream_gene_variant,,ENST00000495585,;	C	ENSG00000117523	ENST00000338920	Transcript	missense_variant	3327	3090	1030	Q/H	caG/caC	rs766536643,COSM414329,COSM414328	.	.	1	PRRC2C	HGNC	24903	protein_coding	YES	CCDS1296.2	ENSP00000343629	PRC2C_HUMAN	.	UPI0000E265EC	.	.	unknown(0)	16/34	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14038:SF6,hmmpanther:PTHR14038	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACAGAGGAA	.	5	BLCA
MYOC	0	.	GRCh37	1	171621260	171621260	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492G>A	p.%3D	p.E164E	ENST00000037502	1/3	571	460	111	516	516	0	MYOC,synonymous_variant,p.%3D,ENST00000037502,;	T	ENSG00000034971	ENST00000037502	Transcript	synonymous_variant	564	492	164	E	gaG/gaA	COSM414327	.	.	-1	MYOC	HGNC	7610	protein_coding	YES	CCDS1297.1	ENSP00000037502	MYOC_HUMAN	B4DV60_HUMAN	UPI00000012D6	.	.	.	1/3	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23192,hmmpanther:PTHR23192:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATTCTCATT	.	5	BLCA
ZBTB37	0	.	GRCh37	1	173839997	173839997	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.634C>G	p.Leu212Val	p.L212V	ENST00000367701	2/4	84	70	14	61	61	0	ZBTB37,missense_variant,p.Leu212Val,ENST00000367702,;ZBTB37,missense_variant,p.Leu212Val,ENST00000427304,;ZBTB37,missense_variant,p.Leu212Val,ENST00000367704,;ZBTB37,missense_variant,p.Leu212Val,ENST00000432989,;ZBTB37,missense_variant,p.Leu212Val,ENST00000367701,;GAS5,upstream_gene_variant,,ENST00000432536,;GAS5,upstream_gene_variant,,ENST00000430245,;GAS5,upstream_gene_variant,,ENST00000454068,;GAS5,upstream_gene_variant,,ENST00000385578,;GAS5,upstream_gene_variant,,ENST00000449289,;GAS5,upstream_gene_variant,,ENST00000363146,;GAS5,upstream_gene_variant,,ENST00000414075,;GAS5,upstream_gene_variant,,ENST00000364084,;GAS5,upstream_gene_variant,,ENST00000451607,;GAS5,upstream_gene_variant,,ENST00000452197,;GAS5,upstream_gene_variant,,ENST00000450589,;GAS5,upstream_gene_variant,,ENST00000425771,;GAS5,upstream_gene_variant,,ENST00000448718,;GAS5,upstream_gene_variant,,ENST00000431268,;GAS5,upstream_gene_variant,,ENST00000412059,;GAS5,upstream_gene_variant,,ENST00000455838,;GAS5,upstream_gene_variant,,ENST00000436656,;GAS5,upstream_gene_variant,,ENST00000456812,;GAS5,upstream_gene_variant,,ENST00000456293,;GAS5,upstream_gene_variant,,ENST00000421068,;GAS5,upstream_gene_variant,,ENST00000442067,;GAS5,upstream_gene_variant,,ENST00000436285,;GAS5,upstream_gene_variant,,ENST00000422183,;GAS5,upstream_gene_variant,,ENST00000449589,;GAS5,upstream_gene_variant,,ENST00000416952,;GAS5,upstream_gene_variant,,ENST00000458220,;GAS5,upstream_gene_variant,,ENST00000422008,;GAS5,upstream_gene_variant,,ENST00000443799,;	G	ENSG00000185278	ENST00000367701	Transcript	missense_variant	825	634	212	L/V	Ctt/Gtt	COSM899807,COSM414312,COSM1133285,COSM1583745	.	.	1	ZBTB37	HGNC	28365	protein_coding	YES	CCDS44278.1	ENSP00000356674	ZBT37_HUMAN	.	UPI0000203C09	.	tolerated(0.3)	benign(0.343)	2/4	.	hmmpanther:PTHR24375:SF2,hmmpanther:PTHR24375	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATTCTTCGG	.	5	BLCA
PADI2	0	.	GRCh37	1	17395563	17395563	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1974C>T	p.%3D	p.F658F	ENST00000375486	16/16	163	127	35	161	161	0	PADI2,synonymous_variant,p.%3D,ENST00000375486,;PADI2,synonymous_variant,p.%3D,ENST00000444885,;PADI2,non_coding_transcript_exon_variant,,ENST00000479534,;PADI2,non_coding_transcript_exon_variant,,ENST00000466151,;	A	ENSG00000117115	ENST00000375486	Transcript	synonymous_variant	2038	1974	658	F	ttC/ttT	COSM414310	.	.	-1	PADI2	HGNC	18341	protein_coding	YES	CCDS177.1	ENSP00000364635	PADI2_HUMAN	Q96DA7_HUMAN	UPI00001314AF	.	.	.	16/16	.	hmmpanther:PTHR10837:SF1,hmmpanther:PTHR10837,Pfam_domain:PF03068,PIRSF_domain:PIRSF001247,Superfamily_domains:SSF55909	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTGAAGGT	.	5	BLCA
PADI2	0	.	GRCh37	1	17395644	17395644	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1893C>T	p.%3D	p.F631F	ENST00000375486	16/16	197	157	40	176	176	0	PADI2,synonymous_variant,p.%3D,ENST00000375486,;PADI2,synonymous_variant,p.%3D,ENST00000444885,;PADI2,non_coding_transcript_exon_variant,,ENST00000479534,;PADI2,non_coding_transcript_exon_variant,,ENST00000466151,;	A	ENSG00000117115	ENST00000375486	Transcript	synonymous_variant	1957	1893	631	F	ttC/ttT	COSM414309	.	.	-1	PADI2	HGNC	18341	protein_coding	YES	CCDS177.1	ENSP00000364635	PADI2_HUMAN	Q96DA7_HUMAN	UPI00001314AF	.	.	.	16/16	.	hmmpanther:PTHR10837:SF1,hmmpanther:PTHR10837,Pfam_domain:PF03068,PIRSF_domain:PIRSF001247,Superfamily_domains:SSF55909	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGATGAAGGT	.	5	BLCA
PADI3	0	.	GRCh37	1	17575710	17575710	+	Silent	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78C>A	p.%3D	p.L26L	ENST00000375460	1/16	128	111	17	116	116	0	PADI3,synonymous_variant,p.%3D,ENST00000375460,;PADI1,downstream_gene_variant,,ENST00000537499,;PADI1,downstream_gene_variant,,ENST00000536552,;PADI1,downstream_gene_variant,,ENST00000413717,;PADI1,downstream_gene_variant,,ENST00000375471,;PADI1,downstream_gene_variant,,ENST00000460293,;	A	ENSG00000142619	ENST00000375460	Transcript	synonymous_variant	118	78	26	L	ctC/ctA	COSM414302	.	.	1	PADI3	HGNC	18337	protein_coding	YES	CCDS179.1	ENSP00000364609	PADI3_HUMAN	.	UPI000013D8A0	.	.	.	1/16	.	hmmpanther:PTHR10837:SF2,hmmpanther:PTHR10837,Pfam_domain:PF08526,PIRSF_domain:PIRSF001247,Superfamily_domains:SSF49503	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCGTGGA	.	4	BLCA
TOR1AIP1	0	.	GRCh37	1	179851926	179851926	+	Missense_Mutation	SNP	G	G	A	rs761950048	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289G>A	p.Glu97Lys	p.E97K	ENST00000606911	1/10	117	83	34	86	86	0	TOR1AIP1,missense_variant,p.Glu97Lys,ENST00000606911,;TOR1AIP1,missense_variant,p.Glu97Lys,ENST00000528443,;TOR1AIP1,missense_variant,p.Glu97Lys,ENST00000271583,;TOR1AIP1,5_prime_UTR_variant,,ENST00000435319,;TOR1AIP2,upstream_gene_variant,,ENST00000367612,;TOR1AIP2,upstream_gene_variant,,ENST00000609928,;TOR1AIP1,upstream_gene_variant,,ENST00000527391,;TOR1AIP1,upstream_gene_variant,,ENST00000531630,;RP11-533E19.7,upstream_gene_variant,,ENST00000610272,;TOR1AIP1,upstream_gene_variant,,ENST00000527867,;TOR1AIP1,upstream_gene_variant,,ENST00000531726,;TOR1AIP1,upstream_gene_variant,,ENST00000474875,;TOR1AIP1,upstream_gene_variant,,ENST00000524653,;TOR1AIP2,upstream_gene_variant,,ENST00000482587,;TOR1AIP1,upstream_gene_variant,,ENST00000529091,;	A	ENSG00000143337	ENST00000606911	Transcript	missense_variant	480	289	97	E/K	Gag/Aag	rs761950048,COSM414289	.	.	1	TOR1AIP1	HGNC	29456	protein_coding	YES	CCDS1335.1	ENSP00000476687	.	.	UPI0000203C95	.	deleterious_low_confidence(0)	benign(0.411)	1/10	.	hmmpanther:PTHR18843,hmmpanther:PTHR18843:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAAAGAGGAA	.	5	BLCA
XPR1	0	.	GRCh37	1	180775197	180775197	+	Splice_Site	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.448-1G>C	.	p.X150_splice	ENST00000367590	.	44	32	11	48	48	0	XPR1,splice_acceptor_variant,,ENST00000367589,;XPR1,splice_acceptor_variant,,ENST00000367590,;	C	ENSG00000143324	ENST00000367590	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM414282	.	.	1	XPR1	HGNC	12827	protein_coding	YES	CCDS1340.1	ENSP00000356562	XPR1_HUMAN	.	UPI0000071111	.	.	.	.	4/14	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTAGAATCT	.	2	BLCA
XPR1	0	.	GRCh37	1	180775240	180775240	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.490G>C	p.Asp164His	p.D164H	ENST00000367590	5/15	91	70	21	74	74	0	XPR1,missense_variant,p.Asp164His,ENST00000367589,;XPR1,missense_variant,p.Asp164His,ENST00000367590,;	C	ENSG00000143324	ENST00000367590	Transcript	missense_variant	688	490	164	D/H	Gac/Cac	COSM414281	.	.	1	XPR1	HGNC	12827	protein_coding	YES	CCDS1340.1	ENSP00000356562	XPR1_HUMAN	.	UPI0000071111	.	deleterious(0)	probably_damaging(0.999)	5/15	.	Pfam_domain:PF03105,hmmpanther:PTHR10783:SF4,hmmpanther:PTHR10783,PROSITE_profiles:PS51382	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCATGACAAG	.	3	BLCA
LAMC2	0	.	GRCh37	1	183194782	183194782	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993G>A	p.%3D	p.L331L	ENST00000264144	8/23	221	168	52	191	191	0	LAMC2,synonymous_variant,p.%3D,ENST00000264144,;LAMC2,synonymous_variant,p.%3D,ENST00000493293,;	A	ENSG00000058085	ENST00000264144	Transcript	synonymous_variant	1058	993	331	L	ctG/ctA	COSM414268	.	.	1	LAMC2	HGNC	6493	protein_coding	YES	CCDS1352.1	ENSP00000264144	LAMC2_HUMAN	.	UPI000013D4CA	.	.	.	8/23	.	PROSITE_profiles:PS51115,hmmpanther:PTHR10574:SF79,hmmpanther:PTHR10574,Pfam_domain:PF00052,SMART_domains:SM00281	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGAGTTA	.	5	BLCA
LAMC2	0	.	GRCh37	1	183212553	183212553	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18C>G	.	.	ENST00000264144	23/23	124	91	32	135	135	0	LAMC2,3_prime_UTR_variant,,ENST00000264144,;NMNAT2,downstream_gene_variant,,ENST00000294868,;LAMC2,downstream_gene_variant,,ENST00000493293,;NMNAT2,downstream_gene_variant,,ENST00000287713,;LAMC2,upstream_gene_variant,,ENST00000476255,;LAMC2,downstream_gene_variant,,ENST00000461729,;	G	ENSG00000058085	ENST00000264144	Transcript	3_prime_UTR_variant	3665	.	.	.	.	.	.	.	1	LAMC2	HGNC	6493	protein_coding	YES	CCDS1352.1	ENSP00000264144	LAMC2_HUMAN	.	UPI000013D4CA	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTTCTCAAC	.	5	BLCA
NMNAT2	0	.	GRCh37	1	183387492	183387492	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-90G>A	.	.	ENST00000287713	1/11	26	18	7	29	29	0	NMNAT2,5_prime_UTR_variant,,ENST00000287713,;	T	ENSG00000157064	ENST00000287713	Transcript	5_prime_UTR_variant	246	.	.	.	.	.	.	.	-1	NMNAT2	HGNC	16789	protein_coding	YES	CCDS1353.1	ENSP00000287713	NMNA2_HUMAN	.	UPI00000706AB	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCCGGCG	.	5	BLCA
HMCN1	0	.	GRCh37	1	185902803	185902803	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1675G>C	p.Asp559His	p.D559H	ENST00000271588	11/107	78	55	23	86	86	0	HMCN1,missense_variant,p.Asp559His,ENST00000367492,;HMCN1,missense_variant,p.Asp559His,ENST00000271588,;	C	ENSG00000143341	ENST00000271588	Transcript	missense_variant	1904	1675	559	D/H	Gat/Cat	COSM414261	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	probably_damaging(0.924)	11/107	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGAGATGTC	.	5	BLCA
TPR	0	.	GRCh37	1	186324879	186324879	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1910C>T	p.Ser637Phe	p.S637F	ENST00000367478	16/51	141	111	30	125	125	0	TPR,missense_variant,p.Ser637Phe,ENST00000367478,;TPR,non_coding_transcript_exon_variant,,ENST00000474852,;TPR,non_coding_transcript_exon_variant,,ENST00000491783,;TPR,upstream_gene_variant,,ENST00000469463,;	A	ENSG00000047410	ENST00000367478	Transcript	missense_variant	2207	1910	637	S/F	tCt/tTt	COSM414245	.	.	-1	TPR	HGNC	12017	protein_coding	YES	CCDS41446.1	ENSP00000356448	TPR_HUMAN	Q9UE33_HUMAN	UPI000046FCF4	.	.	possibly_damaging(0.485)	16/51	.	hmmpanther:PTHR18898	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGAGAAACA	.	5	BLCA
RGS2	0	.	GRCh37	1	192780193	192780193	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357C>G	p.Phe119Leu	p.F119L	ENST00000235382	4/5	173	121	51	152	152	0	RGS2,missense_variant,p.Phe119Leu,ENST00000235382,;RGS2,non_coding_transcript_exon_variant,,ENST00000464302,;RGS2,downstream_gene_variant,,ENST00000483295,;RGS2,downstream_gene_variant,,ENST00000487236,;	G	ENSG00000116741	ENST00000235382	Transcript	missense_variant	388	357	119	F/L	ttC/ttG	COSM414235	.	.	1	RGS2	HGNC	9998	protein_coding	YES	CCDS1377.1	ENSP00000235382	RGS2_HUMAN	Q49A86_HUMAN	UPI0000044575	.	deleterious(0)	possibly_damaging(0.656)	4/5	.	Prints_domain:PR01301,Superfamily_domains:SSF48097,SMART_domains:SM00315,Pfam_domain:PF00615,Gene3D:1.10.167.10,hmmpanther:PTHR10845,hmmpanther:PTHR10845:SF43,PROSITE_profiles:PS50132	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTCAAAAA	.	5	BLCA
PPP1R12B	0	.	GRCh37	1	202411574	202411574	+	Splice_Site	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1542-1G>A	.	p.X514_splice	ENST00000608999	.	66	53	13	65	65	0	PPP1R12B,splice_acceptor_variant,,ENST00000608999,;PPP1R12B,splice_acceptor_variant,,ENST00000336894,;PPP1R12B,downstream_gene_variant,,ENST00000356764,;PPP1R12B,downstream_gene_variant,,ENST00000480184,;RP11-175B9.2,downstream_gene_variant,,ENST00000602961,;PPP1R12B,upstream_gene_variant,,ENST00000434615,;PPP1R12B,downstream_gene_variant,,ENST00000464965,;PPP1R12B,downstream_gene_variant,,ENST00000476364,;RP11-175B9.2,downstream_gene_variant,,ENST00000417053,;	A	ENSG00000077157	ENST00000608999	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM414705	.	.	1	PPP1R12B	HGNC	7619	protein_coding	YES	CCDS1426.1	ENSP00000476755	.	.	UPI0000458A57	.	.	.	.	11/23	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACAGAGAAT	.	5	BLCA
MYOG	0	.	GRCh37	1	203054957	203054957	+	Missense_Mutation	SNP	C	C	T	rs150337281	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133G>A	p.Glu45Lys	p.E45K	ENST00000241651	1/3	116	89	27	102	102	0	MYOG,missense_variant,p.Glu45Lys,ENST00000241651,;ADORA1,upstream_gene_variant,,ENST00000309502,;	T	ENSG00000122180	ENST00000241651	Transcript	missense_variant	208	133	45	E/K	Gag/Aag	rs150337281,COSM414697	.	.	-1	MYOG	HGNC	7612	protein_coding	YES	CCDS1433.1	ENSP00000241651	MYOG_HUMAN	.	UPI000012FBA4	.	tolerated(0.72)	benign(0.14)	1/3	.	SMART_domains:SM00520,Pfam_domain:PF01586,hmmpanther:PTHR11534,hmmpanther:PTHR11534:SF5	.	.	.	.	.	.	.	T:0	T:0.0003	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCGGGGC	byCluster	5	BLCA
PRELP	0	.	GRCh37	1	203453266	203453266	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954C>G	p.%3D	p.L318L	ENST00000343110	2/3	74	59	15	79	79	0	PRELP,synonymous_variant,p.%3D,ENST00000343110,;	G	ENSG00000188783	ENST00000343110	Transcript	synonymous_variant	1081	954	318	L	ctC/ctG	COSM414694,COSM118152	.	.	1	PRELP	HGNC	9357	protein_coding	YES	CCDS1438.1	ENSP00000343924	PRELP_HUMAN	Q7Z4B2_HUMAN	UPI000013222E	.	.	.	2/3	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24371,hmmpanther:PTHR24371:SF15,Gene3D:3.80.10.10,Pfam_domain:PF00560,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAACAA	.	5	BLCA
ATP2B4	0	.	GRCh37	1	203667370	203667370	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279C>G	p.Phe93Leu	p.F93L	ENST00000357681	3/21	113	86	27	143	143	0	ATP2B4,missense_variant,p.Phe93Leu,ENST00000341360,;ATP2B4,missense_variant,p.Phe93Leu,ENST00000367218,;ATP2B4,missense_variant,p.Phe93Leu,ENST00000391954,;ATP2B4,missense_variant,p.Phe93Leu,ENST00000367219,;ATP2B4,missense_variant,p.Phe93Leu,ENST00000357681,;	G	ENSG00000058668	ENST00000357681	Transcript	missense_variant	1402	279	93	F/L	ttC/ttG	COSM414692,COSM414693	.	.	1	ATP2B4	HGNC	817	protein_coding	YES	CCDS1440.1	ENSP00000350310	AT2B4_HUMAN	A1X4Q2_HUMAN	UPI000002A464	.	tolerated(0.11)	probably_damaging(0.995)	3/21	.	hmmpanther:PTHR24093:SF276,hmmpanther:PTHR24093,Pfam_domain:PF00690,SMART_domains:SM00831,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTCTTAGA	.	5	BLCA
ATP2B4	0	.	GRCh37	1	203693027	203693027	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3043G>C	p.Gly1015Arg	p.G1015R	ENST00000357681	19/21	95	69	26	102	102	0	ATP2B4,missense_variant,p.Gly1015Arg,ENST00000341360,;ATP2B4,missense_variant,p.Gly1003Arg,ENST00000367219,;ATP2B4,missense_variant,p.Gly1015Arg,ENST00000367218,;ATP2B4,missense_variant,p.Gly1015Arg,ENST00000357681,;ATP2B4,missense_variant,p.Gly2Arg,ENST00000458092,;ATP2B4,intron_variant,,ENST00000391954,;ATP2B4,upstream_gene_variant,,ENST00000356729,;ATP2B4,upstream_gene_variant,,ENST00000466407,;ATP2B4,upstream_gene_variant,,ENST00000484746,;	C	ENSG00000058668	ENST00000357681	Transcript	missense_variant	4166	3043	1015	G/R	Ggg/Cgg	COSM414688,COSM414689	.	.	1	ATP2B4	HGNC	817	protein_coding	YES	CCDS1440.1	ENSP00000350310	AT2B4_HUMAN	A1X4Q2_HUMAN	UPI000002A464	.	deleterious(0.01)	probably_damaging(1)	19/21	.	hmmpanther:PTHR24093:SF276,hmmpanther:PTHR24093,Pfam_domain:PF00689,TIGRFAM_domain:TIGR01517,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTTGGGGGT	.	5	BLCA
LAX1	0	.	GRCh37	1	203743841	203743841	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*32G>A	.	.	ENST00000442561	5/5	31	21	10	49	49	0	LAX1,3_prime_UTR_variant,,ENST00000367217,;LAX1,3_prime_UTR_variant,,ENST00000442561,;LAX1,non_coding_transcript_exon_variant,,ENST00000367215,;	A	ENSG00000122188	ENST00000442561	Transcript	3_prime_UTR_variant	1619	.	.	.	.	.	.	.	1	LAX1	HGNC	26005	protein_coding	YES	CCDS1441.2	ENSP00000406970	LAX1_HUMAN	.	UPI000007446D	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTGAGTAG	.	5	BLCA
PPP1R15B	0	.	GRCh37	1	204379015	204379015	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1525G>C	p.Asp509His	p.D509H	ENST00000367188	1/2	104	79	24	138	138	0	PPP1R15B,missense_variant,p.Asp509His,ENST00000367188,;RP11-739N20.2,intron_variant,,ENST00000443515,;	G	ENSG00000158615	ENST00000367188	Transcript	missense_variant	1905	1525	509	D/H	Gat/Cat	COSM414682	.	.	-1	PPP1R15B	HGNC	14951	protein_coding	YES	CCDS1445.1	ENSP00000356156	PR15B_HUMAN	.	UPI000013DF8B	.	deleterious(0.01)	probably_damaging(0.973)	1/2	.	hmmpanther:PTHR16489:SF9,hmmpanther:PTHR16489,Pfam_domain:PF10488	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATCAGAAG	.	5	BLCA
PPP1R15B	0	.	GRCh37	1	204379192	204379192	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1348G>A	p.Glu450Lys	p.E450K	ENST00000367188	1/2	292	242	50	283	283	0	PPP1R15B,missense_variant,p.Glu450Lys,ENST00000367188,;RP11-739N20.2,intron_variant,,ENST00000443515,;	T	ENSG00000158615	ENST00000367188	Transcript	missense_variant	1728	1348	450	E/K	Gag/Aag	COSM414681	.	.	-1	PPP1R15B	HGNC	14951	protein_coding	YES	CCDS1445.1	ENSP00000356156	PR15B_HUMAN	.	UPI000013DF8B	.	deleterious(0.01)	possibly_damaging(0.803)	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16489:SF9,hmmpanther:PTHR16489,Pfam_domain:PF10488	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCATCCC	.	4	BLCA
PPP1R15B	0	.	GRCh37	1	204379760	204379760	+	Silent	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.780G>T	p.%3D	p.L260L	ENST00000367188	1/2	188	149	38	192	191	1	PPP1R15B,synonymous_variant,p.%3D,ENST00000367188,;RP11-739N20.2,intron_variant,,ENST00000443515,;	A	ENSG00000158615	ENST00000367188	Transcript	synonymous_variant	1160	780	260	L	ctG/ctT	COSM414680,COSM3943349	.	.	-1	PPP1R15B	HGNC	14951	protein_coding	YES	CCDS1445.1	ENSP00000356156	PR15B_HUMAN	.	UPI000013DF8B	.	.	.	1/2	.	hmmpanther:PTHR16489:SF9,hmmpanther:PTHR16489,Pfam_domain:PF10472	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCAGGCA	.	5	BLCA
MIR205HG	0	.	GRCh37	1	209605571	209605571	+	RNA	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3029G>C	.	.	ENST00000433108	2/2	38	32	6	56	56	0	MIR205HG,non_coding_transcript_exon_variant,,ENST00000431096,;MIR205HG,non_coding_transcript_exon_variant,,ENST00000429156,;MIR205HG,non_coding_transcript_exon_variant,,ENST00000440276,;MIR205HG,non_coding_transcript_exon_variant,,ENST00000603283,;MIR205HG,non_coding_transcript_exon_variant,,ENST00000366437,;MIR205HG,non_coding_transcript_exon_variant,,ENST00000384891,;MIR205HG,intron_variant,,ENST00000458250,;MIR205HG,non_coding_transcript_exon_variant,,ENST00000433108,;MIR205HG,non_coding_transcript_exon_variant,,ENST00000451937,;MIR205HG,downstream_gene_variant,,ENST00000444286,;MIR205HG,downstream_gene_variant,,ENST00000419143,;	C	ENSG00000230937	ENST00000433108	Transcript	non_coding_transcript_exon_variant	3029	.	.	.	.	.	.	.	1	MIR205HG	HGNC	43562	retained_intron	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAGGAGGCA	.	5	BLCA
SERTAD4	0	.	GRCh37	1	210411352	210411352	+	Missense_Mutation	SNP	C	C	T	rs764227429	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.47C>T	p.Ser16Leu	p.S16L	ENST00000367012	2/4	177	140	37	172	172	0	SERTAD4,missense_variant,p.Ser16Leu,ENST00000367012,;SERTAD4-AS1,upstream_gene_variant,,ENST00000480052,;SERTAD4-AS1,upstream_gene_variant,,ENST00000437764,;SERTAD4,non_coding_transcript_exon_variant,,ENST00000482421,;SERTAD4,non_coding_transcript_exon_variant,,ENST00000490620,;SERTAD4,non_coding_transcript_exon_variant,,ENST00000483884,;	T	ENSG00000082497	ENST00000367012	Transcript	missense_variant	277	47	16	S/L	tCg/tTg	rs764227429,COSM326449	.	.	1	SERTAD4	HGNC	25236	protein_coding	YES	CCDS1494.1	ENSP00000355979	SRTD4_HUMAN	.	UPI0000070BBE	.	deleterious(0)	probably_damaging(0.992)	2/4	.	hmmpanther:PTHR14272,hmmpanther:PTHR14272:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCGGAAG	byFrequency	5	BLCA
FLVCR1	0	.	GRCh37	1	213032118	213032118	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324C>A	p.Phe108Leu	p.F108L	ENST00000366971	1/10	44	29	14	40	40	0	FLVCR1,missense_variant,p.Phe108Leu,ENST00000366971,;FLVCR1,upstream_gene_variant,,ENST00000419102,;FLVCR1-AS1,upstream_gene_variant,,ENST00000424044,;FLVCR1-AS1,upstream_gene_variant,,ENST00000426161,;FLVCR1-AS1,upstream_gene_variant,,ENST00000356684,;FLVCR1,upstream_gene_variant,,ENST00000579295,;RP11-348H3.5,upstream_gene_variant,,ENST00000422630,;	A	ENSG00000162769	ENST00000366971	Transcript	missense_variant	522	324	108	F/L	ttC/ttA	COSM414640	.	.	1	FLVCR1	HGNC	24682	protein_coding	YES	CCDS1510.1	ENSP00000355938	FLVC1_HUMAN	.	UPI000006D3BB	.	tolerated(0.05)	benign(0.169)	1/10	.	Superfamily_domains:SSF103473,Gene3D:1.20.1250.20,hmmpanther:PTHR10924:SF2,hmmpanther:PTHR10924	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTTCGTGGT	.	5	BLCA
KCNK2	0	.	GRCh37	1	215256745	215256745	+	Missense_Mutation	SNP	C	C	G	rs766967584	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>G	p.Ser6Trp	p.S6W	ENST00000444842	1/7	129	101	28	117	117	0	KCNK2,missense_variant,p.Ser6Trp,ENST00000444842,;KCNK2,intron_variant,,ENST00000478774,;KCNK2,intron_variant,,ENST00000391895,;KCNK2,intron_variant,,ENST00000391894,;KCNK2,upstream_gene_variant,,ENST00000457122,;KCNK2,missense_variant,p.Ser6Trp,ENST00000470177,;KCNK2,intron_variant,,ENST00000486921,;KCNK2,intron_variant,,ENST00000474771,;KCNK2,intron_variant,,ENST00000467031,;	G	ENSG00000082482	ENST00000444842	Transcript	missense_variant	167	17	6	S/W	tCg/tGg	rs766967584,COSM1741887,COSM414631	.	.	1	KCNK2	HGNC	6277	protein_coding	YES	CCDS41467.1	ENSP00000394033	KCNK2_HUMAN	C9JXY2_HUMAN,C9JDK1_HUMAN	UPI000013D4B8	.	deleterious_low_confidence(0)	benign(0.027)	1/7	.	hmmpanther:PTHR11003,hmmpanther:PTHR11003:SF21	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCGCGGG	.	5	BLCA
ALPL	0	.	GRCh37	1	21889741	21889741	+	Missense_Mutation	SNP	G	G	A	rs138587317	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>A	p.Glu146Lys	p.E146K	ENST00000374840	5/12	82	65	16	83	83	0	ALPL,missense_variant,p.Glu146Lys,ENST00000374840,;ALPL,missense_variant,p.Glu69Lys,ENST00000539907,;ALPL,missense_variant,p.Glu146Lys,ENST00000374832,;ALPL,missense_variant,p.Glu146Lys,ENST00000425315,;ALPL,missense_variant,p.Glu91Lys,ENST00000540617,;ALPL,non_coding_transcript_exon_variant,,ENST00000468526,;	A	ENSG00000162551	ENST00000374840	Transcript	missense_variant	686	436	146	E/K	Gag/Aag	rs138587317,COSM414626	.	.	1	ALPL	HGNC	438	protein_coding	YES	CCDS217.1	ENSP00000363973	PPBT_HUMAN	B1ANL0_HUMAN	UPI000013E17C	.	tolerated(0.08)	possibly_damaging(0.9)	5/12	.	Superfamily_domains:SSF53649,SMART_domains:SM00098,Gene3D:3.40.720.10,Pfam_domain:PF00245,hmmpanther:PTHR11596,hmmpanther:PTHR11596:SF33	.	.	.	.	.	.	.	A:0	A:0.0005	uncertain_significance	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E146K|c.436G>A|3	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGAACGAGGTC	byCluster	4	BLCA
EPRS	0	.	GRCh37	1	220213549	220213549	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109G>C	p.Glu37Gln	p.E37Q	ENST00000366923	2/32	167	145	21	153	153	0	EPRS,missense_variant,p.Glu37Gln,ENST00000366923,;EPRS,missense_variant,p.Glu37Gln,ENST00000609181,;EPRS,missense_variant,p.Glu37Gln,ENST00000477030,;	G	ENSG00000136628	ENST00000366923	Transcript	missense_variant	379	109	37	E/Q	Gag/Cag	COSM414623	.	.	-1	EPRS	HGNC	3418	protein_coding	YES	CCDS31027.1	ENSP00000355890	SYEP_HUMAN	.	UPI0000205E8C	.	tolerated(0.19)	benign(0.017)	2/32	.	hmmpanther:PTHR10119:SF15,hmmpanther:PTHR10119	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCTCTTTCC	.	4	BLCA
HLX	0	.	GRCh37	1	221053221	221053221	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22C>T	p.Pro8Ser	p.P8S	ENST00000366903	1/4	15	10	5	9	9	0	HLX,missense_variant,p.Pro8Ser,ENST00000366903,;HLX,upstream_gene_variant,,ENST00000549319,;HLX,upstream_gene_variant,,ENST00000427693,;HLA-AS1,non_coding_transcript_exon_variant,,ENST00000552026,;	T	ENSG00000136630	ENST00000366903	Transcript	missense_variant	1523	22	8	P/S	Ccc/Tcc	COSM414620	.	.	1	HLX	HGNC	4978	protein_coding	YES	CCDS1527.1	ENSP00000355870	HLX_HUMAN	F8VWZ5_HUMAN	UPI000006D76F	.	deleterious_low_confidence(0)	possibly_damaging(0.737)	1/4	.	hmmpanther:PTHR24331:SF2,hmmpanther:PTHR24331	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGCTCCCTTC	.	3	BLCA
BROX	0	.	GRCh37	1	222904853	222904853	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1144G>A	p.Asp382Asn	p.D382N	ENST00000340934	12/13	128	112	16	97	97	0	BROX,missense_variant,p.Asp382Asn,ENST00000340934,;BROX,missense_variant,p.Asp350Asn,ENST00000539697,;BROX,intron_variant,,ENST00000537020,;BROX,downstream_gene_variant,,ENST00000426638,;BROX,downstream_gene_variant,,ENST00000489191,;	A	ENSG00000162819	ENST00000340934	Transcript	missense_variant	1550	1144	382	D/N	Gac/Aac	.	.	.	1	BROX	HGNC	26512	protein_coding	YES	CCDS1534.1	ENSP00000343742	BROX_HUMAN	Q5VW33_HUMAN	UPI000013E1D1	.	tolerated(0.26)	benign(0.015)	12/13	.	PROSITE_profiles:PS51180,hmmpanther:PTHR23032	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGATGACAGT	.	4	BLCA
SDE2	0	.	GRCh37	1	226180638	226180638	+	Missense_Mutation	SNP	G	G	A	rs747897095	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304C>T	p.Arg102Trp	p.R102W	ENST00000272091	3/7	113	76	37	91	91	0	SDE2,missense_variant,p.Arg102Trp,ENST00000272091,;	A	ENSG00000143751	ENST00000272091	Transcript	missense_variant	323	304	102	R/W	Cgg/Tgg	rs747897095,COSM414606,COSM1133293	.	.	-1	SDE2	HGNC	26643	protein_coding	YES	CCDS41473.1	ENSP00000272091	SDE2_HUMAN	.	UPI0000204007	.	deleterious(0)	probably_damaging(1)	3/7	.	hmmpanther:PTHR12786:SF1,hmmpanther:PTHR12786,Pfam_domain:PF13019	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCCGACAAG	byFrequency	5	BLCA
CDC42BPA	0	.	GRCh37	1	227261667	227261667	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2633C>G	p.Ala878Gly	p.A878G	ENST00000366769	19/36	227	170	57	185	185	0	CDC42BPA,missense_variant,p.Ala52Gly,ENST00000441725,;CDC42BPA,missense_variant,p.Ala797Gly,ENST00000366767,;CDC42BPA,missense_variant,p.Ala172Gly,ENST00000442054,;CDC42BPA,missense_variant,p.Ala878Gly,ENST00000366769,;CDC42BPA,missense_variant,p.Ala878Gly,ENST00000366765,;CDC42BPA,missense_variant,p.Ala81Gly,ENST00000448940,;CDC42BPA,missense_variant,p.Ala878Gly,ENST00000334218,;CDC42BPA,missense_variant,p.Ala878Gly,ENST00000366764,;CDC42BPA,missense_variant,p.Ala878Gly,ENST00000366766,;CDC42BPA,missense_variant,p.Ala878Gly,ENST00000535525,;CDC42BPA,non_coding_transcript_exon_variant,,ENST00000488131,;	C	ENSG00000143776	ENST00000366769	Transcript	missense_variant	3925	2633	878	A/G	gCt/gGt	COSM414594,COSM414593,COSM414592	.	.	-1	CDC42BPA	HGNC	1737	protein_coding	YES	CCDS1558.1	ENSP00000355731	MRCKA_HUMAN	Q9NYF6_HUMAN	UPI000019097D	.	tolerated(0.1)	benign(0.072)	19/36	.	hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF31,Gene3D:1.20.5.340	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTCTAGCTGAC	.	3	BLCA
ARID4B	0	.	GRCh37	1	235357527	235357527	+	Splice_Site	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1927-1G>C	.	p.X643_splice	ENST00000264183	.	52	42	10	52	52	0	ARID4B,splice_acceptor_variant,,ENST00000444620,;ARID4B,splice_acceptor_variant,,ENST00000366603,;ARID4B,splice_acceptor_variant,,ENST00000349213,;ARID4B,splice_acceptor_variant,,ENST00000264183,;MIR4753,upstream_gene_variant,,ENST00000585119,;ARID4B,splice_acceptor_variant,,ENST00000471257,;ARID4B,splice_acceptor_variant,,ENST00000421364,;ARID4B,splice_acceptor_variant,,ENST00000491632,;ARID4B,upstream_gene_variant,,ENST00000474953,;	G	ENSG00000054267	ENST00000264183	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM385011	.	.	-1	ARID4B	HGNC	15550	protein_coding	YES	CCDS31061.1	ENSP00000264183	ARI4B_HUMAN	.	UPI00000437FE	.	.	.	.	18/23	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTATTCTAGGT	.	2	BLCA
RYR2	0	.	GRCh37	1	237774219	237774219	+	Missense_Mutation	SNP	G	G	A	rs746943081	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4841G>A	p.Arg1614His	p.R1614H	ENST00000366574	36/105	33	25	7	31	31	0	RYR2,missense_variant,p.Arg1598His,ENST00000542537,;RYR2,missense_variant,p.Arg1614His,ENST00000366574,;RYR2,missense_variant,p.Arg1612His,ENST00000360064,;	A	ENSG00000198626	ENST00000366574	Transcript	missense_variant	5158	4841	1614	R/H	cGc/cAc	rs746943081,COSM414555,COSM3741125,COSM3741124	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	benign(0.18)	36/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAACGCCAAG	byFrequency	5	BLCA
WDR64	0	.	GRCh37	1	241964444	241964444	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3173G>C	p.Arg1058Thr	p.R1058T	ENST00000366552	27/27	97	75	22	78	78	0	WDR64,missense_variant,p.Arg891Thr,ENST00000437684,;WDR64,missense_variant,p.Arg1058Thr,ENST00000366552,;WDR64,missense_variant,p.Arg662Thr,ENST00000414635,;WDR64,missense_variant,p.Arg537Thr,ENST00000425826,;WDR64,3_prime_UTR_variant,,ENST00000468967,;WDR64,downstream_gene_variant,,ENST00000472717,;	C	ENSG00000162843	ENST00000366552	Transcript	missense_variant	3380	3173	1058	R/T	aGa/aCa	COSM414546,COSM414547	.	.	1	WDR64	HGNC	26570	protein_coding	YES	.	ENSP00000355510	WDR64_HUMAN	D6RCR1_HUMAN	UPI0000519142	.	deleterious(0)	benign(0.358)	27/27	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGAAGAAGAA	.	5	BLCA
CEP170	0	.	GRCh37	1	243328908	243328908	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2354C>G	p.Ser785Ter	p.S785*	ENST00000366542	13/20	159	141	18	179	179	0	CEP170,stop_gained,p.Ser749Ter,ENST00000336415,;CEP170,stop_gained,p.Ser687Ter,ENST00000366544,;CEP170,stop_gained,p.Ser687Ter,ENST00000366543,;CEP170,stop_gained,p.Ser785Ter,ENST00000366542,;CEP170,downstream_gene_variant,,ENST00000522895,;CEP170,upstream_gene_variant,,ENST00000490813,;CEP170,upstream_gene_variant,,ENST00000464936,;CEP170,upstream_gene_variant,,ENST00000413359,;CEP170,upstream_gene_variant,,ENST00000492145,;RP11-261C10.4,intron_variant,,ENST00000422938,;RP11-261C10.4,intron_variant,,ENST00000437499,;CEP170,non_coding_transcript_exon_variant,,ENST00000451408,;CEP170,downstream_gene_variant,,ENST00000518289,;CEP170,downstream_gene_variant,,ENST00000461671,;	C	ENSG00000143702	ENST00000366542	Transcript	stop_gained	2406	2354	785	S/*	tCa/tGa	COSM414542	.	.	-1	CEP170	HGNC	28920	protein_coding	YES	CCDS44339.1	ENSP00000355500	CE170_HUMAN	Q9NSN9_HUMAN,E5RJT5_HUMAN,E5RIH6_HUMAN,E5RFU8_HUMAN	UPI0000470238	.	.	.	13/20	.	hmmpanther:PTHR15715,hmmpanther:PTHR15715:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTGTGATTCT	.	4	BLCA
ZNF124	0	.	GRCh37	1	247319833	247319833	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*35G>C	.	.	ENST00000340684	4/4	35	25	10	42	42	0	ZNF124,3_prime_UTR_variant,,ENST00000340684,;ZNF124,3_prime_UTR_variant,,ENST00000543802,;ZNF124,intron_variant,,ENST00000472531,;ZNF124,intron_variant,,ENST00000491356,;ZNF124,downstream_gene_variant,,ENST00000491848,;	G	ENSG00000196418	ENST00000340684	Transcript	3_prime_UTR_variant	1044	.	.	.	.	.	.	.	-1	ZNF124	HGNC	12907	protein_coding	YES	CCDS31089.1	ENSP00000340749	ZN124_HUMAN	.	UPI00001A818D	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCATGTT	.	5	BLCA
PAFAH2	0	.	GRCh37	1	26288494	26288494	+	Missense_Mutation	SNP	G	G	C	rs754412577	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165C>G	p.Leu389Val	p.L389V	ENST00000374282	11/11	372	280	92	341	341	0	PAFAH2,missense_variant,p.Leu389Val,ENST00000374282,;PAFAH2,missense_variant,p.Leu389Val,ENST00000374284,;RNU6-110P,upstream_gene_variant,,ENST00000384508,;	C	ENSG00000158006	ENST00000374282	Transcript	missense_variant	1345	1165	389	L/V	Ctg/Gtg	rs754412577,COSM414510	.	.	-1	PAFAH2	HGNC	8579	protein_coding	YES	CCDS270.1	ENSP00000363400	PAFA2_HUMAN	Q5SY01_HUMAN	UPI00001311EB	.	tolerated(0.11)	benign(0.446)	11/11	.	hmmpanther:PTHR10272:SF6,hmmpanther:PTHR10272,PIRSF_domain:PIRSF018169	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACAGATGGT	.	5	BLCA
ARID1A	0	.	GRCh37	1	27106166	27106166	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5777G>C	p.Gly1926Ala	p.G1926A	ENST00000324856	20/20	192	143	49	183	183	0	ARID1A,missense_variant,p.Gly1709Ala,ENST00000457599,;ARID1A,missense_variant,p.Gly1543Ala,ENST00000374152,;ARID1A,missense_variant,p.Gly823Ala,ENST00000430799,;ARID1A,missense_variant,p.Gly254Ala,ENST00000540690,;ARID1A,missense_variant,p.Gly1926Ala,ENST00000324856,;ARID1A,3_prime_UTR_variant,,ENST00000466382,;ARID1A,3_prime_UTR_variant,,ENST00000532781,;	C	ENSG00000117713	ENST00000324856	Transcript	missense_variant	6148	5777	1926	G/A	gGa/gCa	COSM414503	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	benign(0.004)	20/20	.	hmmpanther:PTHR12656,hmmpanther:PTHR12656:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATGGAGCTA	.	5	BLCA
PPP1R8	0	.	GRCh37	1	28178068	28178068	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1111C>G	.	.	ENST00000311772	7/7	10	6	4	21	21	0	PPP1R8,3_prime_UTR_variant,,ENST00000311772,;PPP1R8,3_prime_UTR_variant,,ENST00000373931,;PPP1R8,downstream_gene_variant,,ENST00000236412,;AL109927.1,upstream_gene_variant,,ENST00000601459,;PPP1R8,downstream_gene_variant,,ENST00000431586,;PPP1R8,non_coding_transcript_exon_variant,,ENST00000486634,;	G	ENSG00000117751	ENST00000311772	Transcript	3_prime_UTR_variant	2225	.	.	.	.	.	.	.	1	PPP1R8	HGNC	9296	protein_coding	YES	CCDS311.1	ENSP00000311677	PP1R8_HUMAN	Q6ICT4_HUMAN	UPI00001320FD	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCTCAGTCA	.	2	BLCA
YTHDF2	0	.	GRCh37	1	29070328	29070328	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1546G>C	p.Glu516Gln	p.E516Q	ENST00000373812	4/5	92	62	29	82	82	0	YTHDF2,missense_variant,p.Glu516Gln,ENST00000373812,;YTHDF2,missense_variant,p.Glu466Gln,ENST00000541996,;YTHDF2,missense_variant,p.Glu516Gln,ENST00000542507,;YTHDF2,downstream_gene_variant,,ENST00000496288,;YTHDF2,downstream_gene_variant,,ENST00000474884,;YTHDF2,non_coding_transcript_exon_variant,,ENST00000478283,;YTHDF2,downstream_gene_variant,,ENST00000468863,;YTHDF2,downstream_gene_variant,,ENST00000476976,;YTHDF2,downstream_gene_variant,,ENST00000475796,;	C	ENSG00000198492	ENST00000373812	Transcript	missense_variant	1908	1546	516	E/Q	Gag/Cag	COSM414494,COSM3789860	.	.	1	YTHDF2	HGNC	31675	protein_coding	YES	CCDS41296.1	ENSP00000362918	YTHD2_HUMAN	S4R3J8_HUMAN	UPI0000034E25	.	deleterious(0)	probably_damaging(0.934)	4/5	.	Pfam_domain:PF04146,hmmpanther:PTHR12357,hmmpanther:PTHR12357:SF8,PROSITE_profiles:PS50882	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTAGAGAAC	.	5	BLCA
PTPRU	0	.	GRCh37	1	29609213	29609213	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1894G>A	p.Glu632Lys	p.E632K	ENST00000345512	12/31	75	56	19	76	76	0	PTPRU,missense_variant,p.Glu632Lys,ENST00000373779,;PTPRU,missense_variant,p.Glu632Lys,ENST00000428026,;PTPRU,missense_variant,p.Glu632Lys,ENST00000460170,;PTPRU,missense_variant,p.Glu632Lys,ENST00000323874,;PTPRU,missense_variant,p.Glu632Lys,ENST00000356870,;PTPRU,missense_variant,p.Glu632Lys,ENST00000345512,;PTPRU,non_coding_transcript_exon_variant,,ENST00000415600,;PTPRU,upstream_gene_variant,,ENST00000531385,;	A	ENSG00000060656	ENST00000345512	Transcript	missense_variant	2023	1894	632	E/K	Gag/Aag	COSM1502500,COSM414489,COSM414490,COSM1502502,COSM1502501,COSM1133304	.	.	1	PTPRU	HGNC	9683	protein_coding	YES	CCDS334.1	ENSP00000334941	PTPRU_HUMAN	B3KT29_HUMAN	UPI000013C57E	.	deleterious(0.03)	benign(0.184)	12/31	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF207	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGGAGCGG	.	5	BLCA
YARS	0	.	GRCh37	1	33245110	33245110	+	Missense_Mutation	SNP	C	C	T	rs147005844	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1349G>A	p.Arg450His	p.R450H	ENST00000373477	12/13	122	87	35	105	105	0	YARS,missense_variant,p.Arg450His,ENST00000373477,;KIAA1522,downstream_gene_variant,,ENST00000373481,;KIAA1522,downstream_gene_variant,,ENST00000373480,;KIAA1522,downstream_gene_variant,,ENST00000401073,;YARS,non_coding_transcript_exon_variant,,ENST00000469100,;YARS,non_coding_transcript_exon_variant,,ENST00000490826,;YARS,non_coding_transcript_exon_variant,,ENST00000487404,;YARS,non_coding_transcript_exon_variant,,ENST00000478828,;	T	ENSG00000134684	ENST00000373477	Transcript	missense_variant	2258	1349	450	R/H	cGc/cAc	rs147005844,COSM414473	.	.	-1	YARS	HGNC	12840	protein_coding	YES	CCDS368.1	ENSP00000362576	SYYC_HUMAN	.	UPI0000136762	.	deleterious_low_confidence(0.02)	benign(0.013)	12/13	.	Superfamily_domains:SSF50249,Pfam_domain:PF01588,Gene3D:2.40.50.140,PROSITE_profiles:PS50886	.	.	.	.	.	.	.	T:0.0005	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGCGGTTT	byFrequency|byCluster	5	BLCA
SFPQ	0	.	GRCh37	1	35654606	35654606	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1695G>C	p.Leu565Phe	p.L565F	ENST00000357214	6/10	50	47	3	49	49	0	SFPQ,missense_variant,p.Leu565Phe,ENST00000357214,;SFPQ,missense_variant,p.Leu119Phe,ENST00000470472,;SFPQ,upstream_gene_variant,,ENST00000460428,;	G	ENSG00000116560	ENST00000357214	Transcript	missense_variant	1794	1695	565	L/F	ttG/ttC	COSM414466	.	.	-1	SFPQ	HGNC	10774	protein_coding	YES	CCDS388.1	ENSP00000349748	SFPQ_HUMAN	Q9BSV4_HUMAN	UPI00001358B9	.	tolerated(0.06)	possibly_damaging(0.86)	6/10	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23189,hmmpanther:PTHR23189:SF42	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCTCAATTG	.	2	BLCA
MACF1	0	.	GRCh37	1	39797236	39797236	+	Intron	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4629+4211G>C	.	.	ENST00000545844	.	157	125	32	181	181	0	MACF1,missense_variant,p.Gly99Ala,ENST00000289893,;MACF1,missense_variant,p.Gly1659Ala,ENST00000564288,;MACF1,missense_variant,p.Gly1664Ala,ENST00000372915,;MACF1,missense_variant,p.Gly1696Ala,ENST00000567887,;MACF1,intron_variant,,ENST00000372925,;MACF1,intron_variant,,ENST00000361689,;MACF1,intron_variant,,ENST00000530262,;MACF1,intron_variant,,ENST00000539005,;MACF1,intron_variant,,ENST00000317713,;MACF1,intron_variant,,ENST00000545844,;MACF1,intron_variant,,ENST00000476350,;MACF1,downstream_gene_variant,,ENST00000528611,;MACF1,downstream_gene_variant,,ENST00000496804,;	C	ENSG00000127603	ENST00000545844	Transcript	intron_variant	.	.	.	.	.	COSM414941	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	.	.	36/93	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTGGAGGTT	.	5	BLCA
SZT2	0	.	GRCh37	1	43893963	43893963	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3801G>A	p.%3D	p.L1267L	ENST00000562955	27/71	101	77	24	105	105	0	SZT2,synonymous_variant,p.%3D,ENST00000372442,;SZT2,synonymous_variant,p.%3D,ENST00000562955,;SZT2,non_coding_transcript_exon_variant,,ENST00000470139,;SZT2,upstream_gene_variant,,ENST00000478140,;	A	ENSG00000198198	ENST00000562955	Transcript	synonymous_variant	3801	3801	1267	L	ctG/ctA	COSM414908,COSM414907	.	.	1	SZT2	HGNC	29040	protein_coding	YES	CCDS30694.2	ENSP00000457168	SZT2_HUMAN	.	UPI0001E24F46	.	.	.	27/71	.	hmmpanther:PTHR14918	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGACAGC	.	5	BLCA
SZT2	0	.	GRCh37	1	43905293	43905293	+	Missense_Mutation	SNP	C	C	G	rs762982299	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6724C>G	p.Leu2242Val	p.L2242V	ENST00000562955	49/71	235	192	43	245	245	0	SZT2,missense_variant,p.Leu1400Val,ENST00000372442,;SZT2,missense_variant,p.Leu2242Val,ENST00000562955,;SZT2,non_coding_transcript_exon_variant,,ENST00000471177,;SZT2,downstream_gene_variant,,ENST00000470897,;	G	ENSG00000198198	ENST00000562955	Transcript	missense_variant	6724	6724	2242	L/V	Cta/Gta	rs762982299,COSM414904,COSM414903	.	.	1	SZT2	HGNC	29040	protein_coding	YES	CCDS30694.2	ENSP00000457168	SZT2_HUMAN	.	UPI0001E24F46	.	deleterious(0.02)	probably_damaging(0.972)	49/71	.	hmmpanther:PTHR14918	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCTAGCC	.	5	BLCA
CYP4A22	0	.	GRCh37	1	47614449	47614449	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1540G>A	p.Glu514Lys	p.E514K	ENST00000371891	12/12	99	94	5	90	90	0	CYP4A22,missense_variant,p.Glu416Lys,ENST00000371890,;CYP4A22,missense_variant,p.Glu514Lys,ENST00000371891,;CYP4A22,downstream_gene_variant,,ENST00000294337,;CYP4A22-AS1,intron_variant,,ENST00000444042,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000485117,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000490948,;	A	ENSG00000162365	ENST00000371891	Transcript	missense_variant	1571	1540	514	E/K	Gaa/Aaa	COSM414878	.	.	1	CYP4A22	HGNC	20575	protein_coding	YES	CCDS30707.1	ENSP00000360958	CP4AM_HUMAN	.	UPI00002371F0	.	tolerated_low_confidence(0.23)	benign(0.001)	12/12	.	hmmpanther:PTHR24290:SF67,hmmpanther:PTHR24290	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTGTGAAGAC	.	2	BLCA
CYB5RL	0	.	GRCh37	1	54644891	54644891	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.675C>G	p.Ile225Met	p.I225M	ENST00000419823	6/7	19	12	7	17	17	0	CYB5RL,missense_variant,p.Ile225Met,ENST00000534324,;CYB5RL,missense_variant,p.Ile139Met,ENST00000493530,;CYB5RL,missense_variant,p.Ile225Met,ENST00000542737,;CYB5RL,missense_variant,p.Ile225Met,ENST00000419823,;CYB5RL,missense_variant,p.Ile77Met,ENST00000401046,;CYB5RL,intron_variant,,ENST00000537208,;CYB5RL,intron_variant,,ENST00000287899,;MRPL37,upstream_gene_variant,,ENST00000487096,;CYB5RL,3_prime_UTR_variant,,ENST00000421415,;CYB5RL,3_prime_UTR_variant,,ENST00000528287,;CYB5RL,3_prime_UTR_variant,,ENST00000420054,;CYB5RL,non_coding_transcript_exon_variant,,ENST00000490863,;RP11-446E24.4,intron_variant,,ENST00000311841,;	C	ENSG00000215883	ENST00000419823	Transcript	missense_variant	900	675	225	I/M	atC/atG	COSM414843	.	.	-1	CYB5RL	HGNC	32220	protein_coding	YES	CCDS44151.1	ENSP00000409075	NB5R5_HUMAN	.	UPI000019863E	.	deleterious(0)	probably_damaging(0.982)	6/7	.	Superfamily_domains:SSF52343,Gene3D:3.40.50.80,Pfam_domain:PF00175,hmmpanther:PTHR19370,hmmpanther:PTHR19370:SF81	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTAGATGCT	.	5	BLCA
MROH7	0	.	GRCh37	1	55136238	55136238	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458G>C	p.%3D	p.L486L	ENST00000421030	6/24	45	34	10	26	26	0	MROH7,synonymous_variant,p.%3D,ENST00000454855,;MROH7,synonymous_variant,p.%3D,ENST00000409996,;MROH7,synonymous_variant,p.%3D,ENST00000395690,;MROH7,synonymous_variant,p.%3D,ENST00000421030,;MROH7,synonymous_variant,p.%3D,ENST00000545244,;MROH7,synonymous_variant,p.%3D,ENST00000339553,;MROH7,non_coding_transcript_exon_variant,,ENST00000478097,;MROH7-TTC4,synonymous_variant,p.%3D,ENST00000414150,;MROH7,synonymous_variant,p.%3D,ENST00000438846,;MROH7,synonymous_variant,p.%3D,ENST00000413188,;MROH7-TTC4,synonymous_variant,p.%3D,ENST00000425300,;MROH7,synonymous_variant,p.%3D,ENST00000422659,;MROH7,synonymous_variant,p.%3D,ENST00000440047,;MROH7-TTC4,synonymous_variant,p.%3D,ENST00000606515,;MROH7,intron_variant,,ENST00000440217,;	C	ENSG00000184313	ENST00000421030	Transcript	synonymous_variant	1743	1458	486	L	ctG/ctC	COSM414841,COSM414840	.	.	1	MROH7	HGNC	24802	protein_coding	YES	CCDS41342.2	ENSP00000396622	MROH7_HUMAN	C9K0L2_HUMAN,B7ZBM2_HUMAN	UPI000198C4E2	.	.	.	6/24	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF9,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L489L|c.1467G>A|3,BUFFER|p.L489L|c.1467G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGACCCA	.	5	BLCA
HOOK1	0	.	GRCh37	1	60336747	60336747	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1981G>T	p.Glu661Ter	p.E661*	ENST00000371208	21/22	71	49	22	80	80	0	HOOK1,stop_gained,p.Glu661Ter,ENST00000371208,;HOOK1,stop_gained,p.Glu619Ter,ENST00000395561,;HOOK1,non_coding_transcript_exon_variant,,ENST00000491135,;HOOK1,non_coding_transcript_exon_variant,,ENST00000465876,;HOOK1,non_coding_transcript_exon_variant,,ENST00000466803,;	T	ENSG00000134709	ENST00000371208	Transcript	stop_gained	2238	1981	661	E/*	Gaa/Taa	COSM414827	.	.	1	HOOK1	HGNC	19884	protein_coding	YES	CCDS612.1	ENSP00000360252	HOOK1_HUMAN	B1AK95_HUMAN,A8MU44_HUMAN	UPI0000071E61	.	.	.	21/22	.	hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF33,Pfam_domain:PF05622	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATGAAGAA	.	5	BLCA
CYP2J2	0	.	GRCh37	1	60359206	60359206	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*117G>C	.	.	ENST00000371204	9/9	158	119	39	190	190	0	CYP2J2,3_prime_UTR_variant,,ENST00000371204,;CYP2J2,non_coding_transcript_exon_variant,,ENST00000469406,;CYP2J2,non_coding_transcript_exon_variant,,ENST00000466095,;CYP2J2,non_coding_transcript_exon_variant,,ENST00000492633,;	G	ENSG00000134716	ENST00000371204	Transcript	3_prime_UTR_variant	1670	.	.	.	.	.	.	.	-1	CYP2J2	HGNC	2634	protein_coding	YES	CCDS613.1	ENSP00000360247	CP2J2_HUMAN	Q96RX4_HUMAN	UPI00001282BF	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTGATC	.	4	BLCA
JAK1	0	.	GRCh37	1	65304176	65304176	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2939A>T	p.Gln980Leu	p.Q980L	ENST00000342505	21/25	124	99	25	108	108	0	JAK1,missense_variant,p.Gln980Leu,ENST00000342505,;JAK1,downstream_gene_variant,,ENST00000481702,;JAK1,downstream_gene_variant,,ENST00000465376,;	A	ENSG00000162434	ENST00000342505	Transcript	missense_variant	3188	2939	980	Q/L	cAg/cTg	COSM414816	.	.	-1	JAK1	HGNC	6190	protein_coding	YES	CCDS41346.1	ENSP00000343204	JAK1_HUMAN	.	UPI0000054C7D	.	tolerated(1)	benign(0.087)	21/25	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50011,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF67,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000636,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAGCTGCTGT	.	5	BLCA
NOL9	0	.	GRCh37	1	6592664	6592664	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1394G>A	p.Arg465Lys	p.R465K	ENST00000377705	8/12	214	164	50	212	212	0	NOL9,missense_variant,p.Arg465Lys,ENST00000377705,;NOL9,non_coding_transcript_exon_variant,,ENST00000462798,;NOL9,non_coding_transcript_exon_variant,,ENST00000464383,;	T	ENSG00000162408	ENST00000377705	Transcript	missense_variant	1427	1394	465	R/K	aGa/aAa	COSM414815	.	.	-1	NOL9	HGNC	26265	protein_coding	YES	CCDS80.1	ENSP00000366934	NOL9_HUMAN	.	UPI00003664C8	.	tolerated(0.44)	possibly_damaging(0.557)	8/12	.	Pfam_domain:PF06807,hmmpanther:PTHR12755:SF3,hmmpanther:PTHR12755	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCTCATC	.	5	BLCA
SLC44A5	0	.	GRCh37	1	75699699	75699699	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825G>A	p.Met275Ile	p.M275I	ENST00000370855	12/24	190	148	41	180	180	0	SLC44A5,missense_variant,p.Met145Ile,ENST00000535611,;SLC44A5,missense_variant,p.Met275Ile,ENST00000370855,;SLC44A5,missense_variant,p.Met275Ile,ENST00000370859,;	T	ENSG00000137968	ENST00000370855	Transcript	missense_variant	939	825	275	M/I	atG/atA	COSM414793	.	.	-1	SLC44A5	HGNC	28524	protein_coding	YES	CCDS667.1	ENSP00000359892	CTL5_HUMAN	B7Z473_HUMAN	UPI000013E195	.	tolerated(1)	benign(0)	12/24	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12385:SF42,hmmpanther:PTHR12385	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATCATGAA	.	5	BLCA
USP33	0	.	GRCh37	1	78163603	78163603	+	Silent	SNP	A	A	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2616T>C	p.%3D	p.P872P	ENST00000370793	24/25	213	159	53	209	209	0	USP33,missense_variant,p.Leu443Pro,ENST00000481579,;USP33,synonymous_variant,p.%3D,ENST00000370793,;USP33,synonymous_variant,p.%3D,ENST00000357428,;USP33,synonymous_variant,p.%3D,ENST00000370794,;USP33,non_coding_transcript_exon_variant,,ENST00000533928,;	G	ENSG00000077254	ENST00000370793	Transcript	synonymous_variant	2963	2616	872	P	ccT/ccC	COSM414787	.	.	-1	USP33	HGNC	20059	protein_coding	YES	CCDS678.1	ENSP00000359829	UBP33_HUMAN	Q9Y417_HUMAN,E9PQP0_HUMAN,E9PP47_HUMAN,E9PLK7_HUMAN	UPI000022ABDA	.	.	.	24/25	.	PROSITE_profiles:PS51283,hmmpanther:PTHR24006:SF369,hmmpanther:PTHR24006,Pfam_domain:PF06337,Gene3D:3jyuB01,SMART_domains:SM00695,Superfamily_domains:0050384	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAATAGGACC	.	5	BLCA
LPHN2	0	.	GRCh37	1	82456494	82456494	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3877G>C	p.Asp1293His	p.D1293H	ENST00000319517	20/20	127	100	27	130	130	0	LPHN2,missense_variant,p.Asp1306His,ENST00000370730,;LPHN2,missense_variant,p.Asp1306His,ENST00000335786,;LPHN2,missense_variant,p.Asp1364His,ENST00000370717,;LPHN2,missense_variant,p.Asp1321His,ENST00000370727,;LPHN2,missense_variant,p.Asp1364His,ENST00000370725,;LPHN2,missense_variant,p.Asp1293His,ENST00000319517,;LPHN2,missense_variant,p.Asp1321His,ENST00000271029,;LPHN2,missense_variant,p.Asp1349His,ENST00000370728,;LPHN2,missense_variant,p.Asp1293His,ENST00000359929,;LPHN2,missense_variant,p.Asp1351His,ENST00000370723,;LPHN2,missense_variant,p.Asp361His,ENST00000402328,;LPHN2,missense_variant,p.Asp1274His,ENST00000370721,;LPHN2,missense_variant,p.Asp1351His,ENST00000394879,;LPHN2,missense_variant,p.Asp1241His,ENST00000449420,;LPHN2,3_prime_UTR_variant,,ENST00000370713,;LPHN2,3_prime_UTR_variant,,ENST00000370715,;LPHN2,non_coding_transcript_exon_variant,,ENST00000472424,;LPHN2,non_coding_transcript_exon_variant,,ENST00000469377,;LPHN2,downstream_gene_variant,,ENST00000464775,;LPHN2,downstream_gene_variant,,ENST00000464551,;	C	ENSG00000117114	ENST00000319517	Transcript	missense_variant	4093	3877	1293	D/H	Gac/Cac	COSM414774,COSM414775	.	.	1	LPHN2	HGNC	18582	protein_coding	YES	CCDS689.1	ENSP00000322270	LPHN2_HUMAN	.	UPI000005046B	.	deleterious_low_confidence(0.03)	possibly_damaging(0.712)	20/20	.	Pfam_domain:PF02354	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGACAGC	.	5	BLCA
RERE	0	.	GRCh37	1	8418325	8418325	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4270C>G	p.Pro1424Ala	p.P1424A	ENST00000337907	21/24	44	35	9	49	49	0	RERE,missense_variant,p.Pro1424Ala,ENST00000400908,;RERE,missense_variant,p.Pro1156Ala,ENST00000377464,;RERE,missense_variant,p.Pro1424Ala,ENST00000337907,;RERE,missense_variant,p.Pro870Ala,ENST00000476556,;RERE,intron_variant,,ENST00000505225,;RERE,intron_variant,,ENST00000400907,;RERE,upstream_gene_variant,,ENST00000467350,;	C	ENSG00000142599	ENST00000337907	Transcript	missense_variant	4905	4270	1424	P/A	Ccg/Gcg	COSM414768	.	.	-1	RERE	HGNC	9965	protein_coding	YES	CCDS95.1	ENSP00000338629	RERE_HUMAN	K7EJQ1_HUMAN,K7EIQ4_HUMAN,K7EIE3_HUMAN	UPI00001419CC	.	.	unknown(0)	21/24	.	hmmpanther:PTHR13859,hmmpanther:PTHR13859:SF12,Pfam_domain:PF03154	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCGGAGTCA	.	5	BLCA
COL24A1	0	.	GRCh37	1	86554904	86554904	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1660C>G	p.Gln554Glu	p.Q554E	ENST00000370571	7/60	109	82	27	127	127	0	COL24A1,missense_variant,p.Gln554Glu,ENST00000436319,;COL24A1,missense_variant,p.Gln554Glu,ENST00000370571,;COL24A1,missense_variant,p.Gln554Glu,ENST00000426639,;	C	ENSG00000171502	ENST00000370571	Transcript	missense_variant	2027	1660	554	Q/E	Caa/Gaa	COSM414757	.	.	-1	COL24A1	HGNC	20821	protein_coding	YES	CCDS41353.1	ENSP00000359603	COOA1_HUMAN	E9PNK8_HUMAN	UPI000013E81F	.	tolerated(0.48)	benign(0.079)	7/60	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF360,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTGATCAC	.	5	BLCA
CCBL2	0	.	GRCh37	1	89426873	89426873	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.764C>G	p.Ser255Cys	p.S255C	ENST00000260508	8/14	144	115	29	133	133	0	CCBL2,missense_variant,p.Ser221Cys,ENST00000370491,;CCBL2,missense_variant,p.Ser255Cys,ENST00000370486,;CCBL2,missense_variant,p.Ser255Cys,ENST00000260508,;CCBL2,3_prime_UTR_variant,,ENST00000370485,;CCBL2,non_coding_transcript_exon_variant,,ENST00000446900,;	C	ENSG00000137944	ENST00000260508	Transcript	missense_variant	1102	764	255	S/C	tCt/tGt	COSM414752	.	.	-1	CCBL2	HGNC	33238	protein_coding	YES	CCDS30766.1	ENSP00000260508	KAT3_HUMAN	B4DW13_HUMAN	UPI0000155712	.	deleterious(0)	possibly_damaging(0.563)	8/14	.	hmmpanther:PTHR11751:SF336,hmmpanther:PTHR11751,Gene3D:3.40.640.10,Pfam_domain:PF00155,Superfamily_domains:SSF53383	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCAGAATAT	.	5	BLCA
LRRC8B	0	.	GRCh37	1	90049431	90049431	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1222G>C	p.Glu408Gln	p.E408Q	ENST00000330947	5/6	115	93	22	113	113	0	LRRC8B,missense_variant,p.Glu408Gln,ENST00000439853,;LRRC8B,missense_variant,p.Glu408Gln,ENST00000330947,;LRRC8B,missense_variant,p.Glu408Gln,ENST00000358200,;LRRC8B,downstream_gene_variant,,ENST00000449440,;RP5-1007M22.2,intron_variant,,ENST00000443562,;	C	ENSG00000197147	ENST00000330947	Transcript	missense_variant	1582	1222	408	E/Q	Gag/Cag	COSM414746	.	.	1	LRRC8B	HGNC	30692	protein_coding	YES	CCDS724.1	ENSP00000332674	LRC8B_HUMAN	Q49AH5_HUMAN,C9JGJ7_HUMAN	UPI00000739FF	.	deleterious(0.05)	possibly_damaging(0.478)	5/6	.	hmmpanther:PTHR23155:SF465,hmmpanther:PTHR23155	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTGAGAAA	.	5	BLCA
PLEKHN1	0	.	GRCh37	1	909923	909923	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1804G>C	p.Glu602Gln	p.E602Q	ENST00000379410	16/16	30	22	8	46	46	0	PLEKHN1,missense_variant,p.Glu167Gln,ENST00000491024,;PLEKHN1,missense_variant,p.Glu654Gln,ENST00000379409,;PLEKHN1,missense_variant,p.Glu567Gln,ENST00000379407,;PLEKHN1,missense_variant,p.Glu602Gln,ENST00000379410,;C1orf170,downstream_gene_variant,,ENST00000341290,;C1orf170,downstream_gene_variant,,ENST00000433179,;PLEKHN1,downstream_gene_variant,,ENST00000480267,;C1orf170,downstream_gene_variant,,ENST00000479361,;	C	ENSG00000187583	ENST00000379410	Transcript	missense_variant	1839	1804	602	E/Q	Gag/Cag	COSM414744	.	.	1	PLEKHN1	HGNC	25284	protein_coding	YES	CCDS4.1	ENSP00000368720	PKHN1_HUMAN	J3KSM5_HUMAN	UPI00001416D8	.	tolerated_low_confidence(0.07)	probably_damaging(0.947)	16/16	.	hmmpanther:PTHR22826:SF96,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAGGCC	.	5	BLCA
TGFBR3	0	.	GRCh37	1	92193314	92193314	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787C>G	p.Leu263Val	p.L263V	ENST00000212355	7/17	98	79	19	87	87	0	TGFBR3,missense_variant,p.Leu263Val,ENST00000525962,;TGFBR3,missense_variant,p.Leu263Val,ENST00000370399,;TGFBR3,missense_variant,p.Leu263Val,ENST00000212355,;TGFBR3,missense_variant,p.Leu263Val,ENST00000465892,;TGFBR3,downstream_gene_variant,,ENST00000468996,;TGFBR3,3_prime_UTR_variant,,ENST00000532540,;TGFBR3,3_prime_UTR_variant,,ENST00000533089,;TGFBR3,non_coding_transcript_exon_variant,,ENST00000529608,;	C	ENSG00000069702	ENST00000212355	Transcript	missense_variant	1253	787	263	L/V	Ctt/Gtt	COSM414737	.	.	-1	TGFBR3	HGNC	11774	protein_coding	YES	CCDS30770.1	ENSP00000212355	TGBR3_HUMAN	E9PAW7_HUMAN	UPI000049D997	.	tolerated(1)	benign(0.001)	7/17	.	hmmpanther:PTHR14002,hmmpanther:PTHR14002:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCAAGATCCT	.	5	BLCA
CCDC18	0	.	GRCh37	1	93649605	93649605	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366C>T	p.Gln123Ter	p.Q123*	ENST00000370276	3/29	192	146	45	158	158	0	CCDC18,stop_gained,p.Gln187Ter,ENST00000557479,;CCDC18,stop_gained,p.Gln69Ter,ENST00000401026,;CCDC18,stop_gained,p.Gln69Ter,ENST00000343253,;CCDC18,stop_gained,p.Gln123Ter,ENST00000370276,;CCDC18,stop_gained,p.Gln116Ter,ENST00000448243,;CCDC18,5_prime_UTR_variant,,ENST00000334652,;CCDC18,5_prime_UTR_variant,,ENST00000338949,;TMED5,upstream_gene_variant,,ENST00000370280,;TMED5,upstream_gene_variant,,ENST00000479918,;TMED5,upstream_gene_variant,,ENST00000370282,;CCDC18,intron_variant,,ENST00000528942,;CCDC18,stop_gained,p.Gln108Ter,ENST00000481180,;CCDC18,intron_variant,,ENST00000479653,;TMED5,upstream_gene_variant,,ENST00000370290,;	T	ENSG00000122483	ENST00000370276	Transcript	stop_gained	366	367	123	Q/*	Cag/Tag	COSM414732	.	.	1	CCDC18	HGNC	30370	protein_coding	YES	.	ENSP00000359299	.	.	UPI0001F78148	.	.	.	3/29	.	hmmpanther:PTHR18875:SF4,hmmpanther:PTHR18875	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTCAGCCT	.	5	BLCA
CLSTN1	0	.	GRCh37	1	9801223	9801223	+	Missense_Mutation	SNP	G	G	A	rs542380649	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1448C>T	p.Ser483Phe	p.S483F	ENST00000377298	10/19	103	83	20	88	88	0	CLSTN1,missense_variant,p.Ser303Phe,ENST00000435891,;CLSTN1,missense_variant,p.Ser483Phe,ENST00000377298,;CLSTN1,missense_variant,p.Ser483Phe,ENST00000377288,;CLSTN1,missense_variant,p.Ser473Phe,ENST00000361311,;	A	ENSG00000171603	ENST00000377298	Transcript	missense_variant	2241	1448	483	S/F	tCt/tTt	rs542380649,COSM415207	.	.	-1	CLSTN1	HGNC	17447	protein_coding	YES	CCDS30580.1	ENSP00000366513	CSTN1_HUMAN	.	UPI0000127B95	.	deleterious(0.01)	benign(0.392)	10/19	.	Superfamily_domains:SSF49899,Pfam_domain:PF13385,Gene3D:2.60.120.200,hmmpanther:PTHR14139,hmmpanther:PTHR14139:SF4	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACAGAGAAG	byCluster|by1000G	5	BLCA
JAG1	0	.	GRCh37	20	10632342	10632342	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1007C>A	p.Ala336Asp	p.A336D	ENST00000254958	8/26	28	21	6	28	28	0	JAG1,missense_variant,p.Ala177Asp,ENST00000423891,;JAG1,missense_variant,p.Ala336Asp,ENST00000254958,;	T	ENSG00000101384	ENST00000254958	Transcript	missense_variant	1523	1007	336	A/D	gCt/gAt	CD030144,COSM419050,COSM419051	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	tolerated(0.08)	probably_damaging(0.999)	8/26	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,Gene3D:2gy5A03,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCTCAGCTGCA	.	2	BLCA
ISM1	0	.	GRCh37	20	13251215	13251215	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.203C>A	p.Pro68Gln	p.P68Q	ENST00000262487	2/6	59	46	13	48	48	0	ISM1,missense_variant,p.Pro68Gln,ENST00000262487,;TASP1,intron_variant,,ENST00000539805,;	A	ENSG00000101230	ENST00000262487	Transcript	missense_variant	209	203	68	P/Q	cCa/cAa	COSM419048	.	.	1	ISM1	HGNC	16213	protein_coding	YES	CCDS46579.1	ENSP00000262487	ISM1_HUMAN	.	UPI00004A0D4C	.	tolerated(0.54)	benign(0.001)	2/6	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCACCAAGGG	.	5	BLCA
SEL1L2	0	.	GRCh37	20	13850838	13850838	+	Missense_Mutation	SNP	G	G	C	rs752261823	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1116C>G	p.Ile372Met	p.I372M	ENST00000378072	13/18	124	97	27	102	102	0	SEL1L2,missense_variant,p.Ile372Met,ENST00000284951,;SEL1L2,missense_variant,p.Ile372Met,ENST00000378072,;SEL1L2,non_coding_transcript_exon_variant,,ENST00000486903,;SEL1L2,non_coding_transcript_exon_variant,,ENST00000492548,;SEL1L2,3_prime_UTR_variant,,ENST00000423870,;SEL1L2,upstream_gene_variant,,ENST00000475649,;	C	ENSG00000101251	ENST00000378072	Transcript	missense_variant	1198	1116	372	I/M	atC/atG	rs752261823,COSM419045	.	.	-1	SEL1L2	HGNC	15897	protein_coding	YES	CCDS59443.1	ENSP00000367312	SE1L2_HUMAN	C9JNX3_HUMAN	UPI000003BCBF	.	deleterious(0.01)	probably_damaging(0.918)	13/18	.	hmmpanther:PTHR11102:SF53,hmmpanther:PTHR11102,Gene3D:1.25.40.10,SMART_domains:SM00671,Superfamily_domains:SSF81901	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGATTGC	byFrequency	5	BLCA
FOXA2	0	.	GRCh37	20	22563340	22563340	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.540G>C	p.Gln180His	p.Q180H	ENST00000419308	2/2	172	127	45	165	165	0	FOXA2,missense_variant,p.Gln180His,ENST00000419308,;FOXA2,missense_variant,p.Gln174His,ENST00000377115,;LINC00261,upstream_gene_variant,,ENST00000564492,;RP4-788L20.3,downstream_gene_variant,,ENST00000422494,;	G	ENSG00000125798	ENST00000419308	Transcript	missense_variant	725	540	180	Q/H	caG/caC	COSM419030	.	.	-1	FOXA2	HGNC	5022	protein_coding	YES	CCDS46585.1	ENSP00000400341	FOXA2_HUMAN	B0ZTD4_HUMAN	UPI000040F9A0	.	deleterious(0)	possibly_damaging(0.906)	2/2	.	Superfamily_domains:SSF46785,SMART_domains:SM00339,Gene3D:1.10.10.10,Pfam_domain:PF00250,hmmpanther:PTHR11829:SF57,hmmpanther:PTHR11829,PROSITE_profiles:PS50039	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCTGCTG	.	5	BLCA
ABHD12	0	.	GRCh37	20	25295601	25295601	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579G>C	p.%3D	p.L193L	ENST00000376542	6/13	121	98	23	133	133	0	ABHD12,synonymous_variant,p.%3D,ENST00000339157,;ABHD12,synonymous_variant,p.%3D,ENST00000471287,;ABHD12,synonymous_variant,p.%3D,ENST00000491682,;ABHD12,synonymous_variant,p.%3D,ENST00000450393,;ABHD12,synonymous_variant,p.%3D,ENST00000376542,;ABHD12,upstream_gene_variant,,ENST00000481556,;	G	ENSG00000100997	ENST00000376542	Transcript	synonymous_variant	859	579	193	L	ctG/ctC	COSM419023,COSM1133645	.	.	-1	ABHD12	HGNC	15868	protein_coding	YES	CCDS13172.1	ENSP00000365725	ABD12_HUMAN	I3L440_HUMAN,I3L294_HUMAN	UPI000006F03A	.	.	.	6/13	.	hmmpanther:PTHR12277:SF47,hmmpanther:PTHR12277,Gene3D:3.40.50.1820,Pfam_domain:PF12695,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	GAACTCAGCAC	.	3	BLCA
ID1	0	.	GRCh37	20	30193153	30193153	+	5'UTR	SNP	C	C	T	rs745389339	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-38C>T	.	.	ENST00000376112	1/2	52	39	13	52	52	0	ID1,5_prime_UTR_variant,,ENST00000376112,;ID1,5_prime_UTR_variant,,ENST00000376105,;MIR3193,upstream_gene_variant,,ENST00000578262,;	T	ENSG00000125968	ENST00000376112	Transcript	5_prime_UTR_variant	68	.	.	.	.	rs745389339	.	.	1	ID1	HGNC	5360	protein_coding	YES	CCDS13185.1	ENSP00000365280	ID1_HUMAN	.	UPI000012D18F	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCGCTTT	byFrequency	4	BLCA
BPIFA2	0	.	GRCh37	20	31760844	31760844	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.264C>T	p.%3D	p.V88V	ENST00000253362	3/9	93	66	27	102	102	0	BPIFA2,synonymous_variant,p.%3D,ENST00000354932,;BPIFA2,synonymous_variant,p.%3D,ENST00000253362,;	T	ENSG00000131050	ENST00000253362	Transcript	synonymous_variant	410	264	88	V	gtC/gtT	COSM419446	.	.	1	BPIFA2	HGNC	16203	protein_coding	YES	CCDS13214.1	ENSP00000253362	BPIA2_HUMAN	.	UPI00000361E3	.	.	.	3/9	.	hmmpanther:PTHR10504,hmmpanther:PTHR10504:SF6,Pfam_domain:PF01273,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGTCATTTC	.	5	BLCA
BPIFA3	0	.	GRCh37	20	31813019	31813019	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502G>C	p.Glu168Gln	p.E168Q	ENST00000375454	4/7	186	143	43	172	172	0	BPIFA3,missense_variant,p.Glu168Gln,ENST00000375454,;BPIFA3,missense_variant,p.Glu132Gln,ENST00000375452,;BPIFA3,non_coding_transcript_exon_variant,,ENST00000471233,;BPIFA3,non_coding_transcript_exon_variant,,ENST00000490499,;	C	ENSG00000131059	ENST00000375454	Transcript	missense_variant	712	502	168	E/Q	Gag/Cag	COSM419444	.	.	1	BPIFA3	HGNC	16204	protein_coding	YES	CCDS13216.2	ENSP00000364603	BPIA3_HUMAN	.	UPI00003E72D6	.	tolerated(0.06)	possibly_damaging(0.863)	4/7	.	hmmpanther:PTHR10504,hmmpanther:PTHR10504:SF3,Pfam_domain:PF01273,Gene3D:1ewfA01,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGAGCCC	.	5	BLCA
GDF5	0	.	GRCh37	20	34021568	34021568	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*139G>A	.	.	ENST00000374372	4/4	26	20	6	15	15	0	GDF5,3_prime_UTR_variant,,ENST00000374372,;GDF5,3_prime_UTR_variant,,ENST00000374369,;GDF5OS,intron_variant,,ENST00000374375,;	T	ENSG00000125965	ENST00000374372	Transcript	3_prime_UTR_variant	2149	.	.	.	.	.	.	.	-1	GDF5	HGNC	4220	protein_coding	YES	CCDS13254.1	ENSP00000363492	GDF5_HUMAN	D3YR76_HUMAN,D3YQT0_HUMAN	UPI000002E33B	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGAGCGAGCA	.	4	BLCA
CPNE1	0	.	GRCh37	20	34220101	34220101	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.455G>C	p.Arg152Thr	p.R152T	ENST00000317677	5/16	100	75	25	86	86	0	CPNE1,missense_variant,p.Arg147Thr,ENST00000352393,;CPNE1,missense_variant,p.Arg147Thr,ENST00000397443,;CPNE1,missense_variant,p.Arg147Thr,ENST00000434795,;CPNE1,missense_variant,p.Arg152Thr,ENST00000317677,;CPNE1,missense_variant,p.Arg147Thr,ENST00000397442,;CPNE1,missense_variant,p.Arg147Thr,ENST00000440240,;CPNE1,missense_variant,p.Arg147Thr,ENST00000317619,;CPNE1,missense_variant,p.Arg147Thr,ENST00000420363,;CPNE1,missense_variant,p.Arg147Thr,ENST00000439806,;CPNE1,missense_variant,p.Arg147Thr,ENST00000437340,;CPNE1,missense_variant,p.Arg147Thr,ENST00000397445,;CPNE1,missense_variant,p.Arg147Thr,ENST00000414664,;CPNE1,missense_variant,p.Arg147Thr,ENST00000397446,;CPNE1,missense_variant,p.Arg147Thr,ENST00000437100,;CPNE1,intron_variant,,ENST00000458038,;CPNE1,intron_variant,,ENST00000412056,;CPNE1,intron_variant,,ENST00000430570,;CPNE1,intron_variant,,ENST00000416778,;CPNE1,upstream_gene_variant,,ENST00000415920,;CPNE1,downstream_gene_variant,,ENST00000414711,;CPNE1,downstream_gene_variant,,ENST00000435747,;CPNE1,upstream_gene_variant,,ENST00000498056,;CPNE1,upstream_gene_variant,,ENST00000498814,;CPNE1,missense_variant,p.Arg147Thr,ENST00000401607,;CPNE1,3_prime_UTR_variant,,ENST00000439669,;CPNE1,non_coding_transcript_exon_variant,,ENST00000483495,;CPNE1,non_coding_transcript_exon_variant,,ENST00000483359,;RP1-309K20.6,downstream_gene_variant,,ENST00000541176,;RP1-309K20.6,downstream_gene_variant,,ENST00000454607,;CPNE1,upstream_gene_variant,,ENST00000473373,;CPNE1,upstream_gene_variant,,ENST00000486021,;RP1-309K20.6,downstream_gene_variant,,ENST00000441563,;	G	ENSG00000214078	ENST00000317677	Transcript	missense_variant	590	455	152	R/T	aGa/aCa	COSM419424	.	.	-1	CPNE1	HGNC	2314	protein_coding	YES	CCDS46595.1	ENSP00000317257	.	Q5JX60_HUMAN,Q5JX59_HUMAN,Q5JX58_HUMAN,Q5JX56_HUMAN,Q5JX55_HUMAN,Q5JX54_HUMAN,Q5JX53_HUMAN,Q5JX44_HUMAN,B0QZ18_HUMAN	UPI0000D4B36B	.	tolerated(0.05)	possibly_damaging(0.507)	5/16	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Pfam_domain:PF00168,Gene3D:2.60.40.150,hmmpanther:PTHR10857:SF2,hmmpanther:PTHR10857,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCTGGCC	.	5	BLCA
CTNNBL1	0	.	GRCh37	20	36488327	36488327	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1419C>T	p.%3D	p.I473I	ENST00000361383	14/16	61	53	8	63	63	0	CTNNBL1,synonymous_variant,p.%3D,ENST00000405275,;CTNNBL1,synonymous_variant,p.%3D,ENST00000373469,;CTNNBL1,synonymous_variant,p.%3D,ENST00000361383,;CTNNBL1,synonymous_variant,p.%3D,ENST00000373473,;CTNNBL1,non_coding_transcript_exon_variant,,ENST00000472237,;CTNNBL1,non_coding_transcript_exon_variant,,ENST00000473857,;CTNNBL1,non_coding_transcript_exon_variant,,ENST00000481674,;	T	ENSG00000132792	ENST00000361383	Transcript	synonymous_variant	1536	1419	473	I	atC/atT	COSM419411	.	.	1	CTNNBL1	HGNC	15879	protein_coding	YES	CCDS13298.1	ENSP00000355050	CTBL1_HUMAN	B4DE16_HUMAN,A2A2P1_HUMAN	UPI0000061E09	.	.	.	14/16	.	hmmpanther:PTHR14978:SF0,hmmpanther:PTHR14978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCATCGACAA	.	4	BLCA
BPI	0	.	GRCh37	20	36948673	36948673	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>A	p.Met255Ile	p.M255I	ENST00000262865	7/15	50	44	6	62	62	0	BPI,missense_variant,p.Met81Ile,ENST00000417318,;BPI,missense_variant,p.Met255Ile,ENST00000262865,;CTD-2308N23.2,intron_variant,,ENST00000437016,;BPI,non_coding_transcript_exon_variant,,ENST00000489102,;BPI,non_coding_transcript_exon_variant,,ENST00000489039,;	A	ENSG00000101425	ENST00000262865	Transcript	missense_variant	854	765	255	M/I	atG/atA	COSM3799518,COSM419409	.	.	1	BPI	HGNC	1095	protein_coding	YES	CCDS13303.1	ENSP00000262865	BPI_HUMAN	B4DKH6_HUMAN	UPI000013D349	.	deleterious(0.02)	benign(0.035)	7/15	.	hmmpanther:PTHR10504,hmmpanther:PTHR10504:SF66,Gene3D:1ewfA02,Pfam_domain:PF02886,SMART_domains:SM00328,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGATGAAGGT	.	2	BLCA
TOP1	0	.	GRCh37	20	39708734	39708734	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345A>T	p.Gln115His	p.Q115H	ENST00000361337	6/21	71	57	13	54	54	0	TOP1,missense_variant,p.Gln115His,ENST00000361337,;	T	ENSG00000198900	ENST00000361337	Transcript	missense_variant	595	345	115	Q/H	caA/caT	COSM419403	.	.	1	TOP1	HGNC	11986	protein_coding	YES	CCDS13312.1	ENSP00000354522	TOP1_HUMAN	Q9BVT2_HUMAN	UPI000004F0B1	.	tolerated(0.3)	benign(0)	6/21	.	hmmpanther:PTHR10290,hmmpanther:PTHR10290:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACAAATTAA	.	5	BLCA
SEMG2	0	.	GRCh37	20	43850714	43850714	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441G>A	p.%3D	p.G147G	ENST00000372769	2/3	92	71	21	86	86	0	SEMG2,synonymous_variant,p.%3D,ENST00000372769,;	A	ENSG00000124157	ENST00000372769	Transcript	synonymous_variant	531	441	147	G	ggG/ggA	COSM419378	.	.	1	SEMG2	HGNC	10743	protein_coding	YES	CCDS13346.1	ENSP00000361855	SEMG2_HUMAN	.	UPI0000135845	.	.	.	2/3	.	hmmpanther:PTHR10547,hmmpanther:PTHR10547:SF6,Pfam_domain:PF05474	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGGGGAATAG	.	3	BLCA
SEMG2	0	.	GRCh37	20	43850728	43850728	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.455G>A	p.Gly152Glu	p.G152E	ENST00000372769	2/3	98	76	22	82	82	0	SEMG2,missense_variant,p.Gly152Glu,ENST00000372769,;	A	ENSG00000124157	ENST00000372769	Transcript	missense_variant	545	455	152	G/E	gGa/gAa	COSM419377	.	.	1	SEMG2	HGNC	10743	protein_coding	YES	CCDS13346.1	ENSP00000361855	SEMG2_HUMAN	.	UPI0000135845	.	tolerated(0.11)	probably_damaging(0.999)	2/3	.	hmmpanther:PTHR10547,hmmpanther:PTHR10547:SF6,Pfam_domain:PF05474	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCTGGAAAGG	.	3	BLCA
ZNF335	0	.	GRCh37	20	44577600	44577600	+	Missense_Mutation	SNP	C	C	T	rs200346507	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4021G>A	p.Asp1341Asn	p.D1341N	ENST00000322927	28/28	95	70	25	108	108	0	ZNF335,missense_variant,p.Asp1341Asn,ENST00000322927,;ZNF335,missense_variant,p.Asp1186Asn,ENST00000426788,;PCIF1,downstream_gene_variant,,ENST00000372409,;PCIF1,downstream_gene_variant,,ENST00000479348,;	T	ENSG00000198026	ENST00000322927	Transcript	missense_variant	4122	4021	1341	D/N	Gat/Aat	rs200346507,COSM419372	.	.	-1	ZNF335	HGNC	15807	protein_coding	YES	CCDS13389.1	ENSP00000325326	ZN335_HUMAN	.	UPI0000001BC3	.	tolerated(0.18)	possibly_damaging(0.764)	28/28	.	hmmpanther:PTHR24403:SF31,hmmpanther:PTHR24403	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCGGCCA	byCluster|by1000G	5	BLCA
PTGIS	0	.	GRCh37	20	48130897	48130897	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891C>G	p.%3D	p.L297L	ENST00000244043	7/10	77	61	15	56	56	0	PTGIS,synonymous_variant,p.%3D,ENST00000244043,;PTGIS,non_coding_transcript_exon_variant,,ENST00000478971,;	C	ENSG00000124212	ENST00000244043	Transcript	synonymous_variant	921	891	297	L	ctC/ctG	COSM419349	.	.	-1	PTGIS	HGNC	9603	protein_coding	YES	CCDS13419.1	ENSP00000244043	PTGIS_HUMAN	Q6LEN0_HUMAN	UPI00001328DF	.	.	.	7/10	.	hmmpanther:PTHR24306,hmmpanther:PTHR24306:SF4,Gene3D:1.10.630.10,Pfam_domain:PF00067,PIRSF_domain:PIRSF000047,PIRSF_domain:PIRSF500628,Superfamily_domains:SSF48264,Prints_domain:PR00465	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAGCAG	.	5	BLCA
SLC9A8	0	.	GRCh37	20	48497480	48497480	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1226G>C	p.Arg409Thr	p.R409T	ENST00000417961	13/16	169	136	33	186	186	0	SLC9A8,missense_variant,p.Arg93Thr,ENST00000541138,;SLC9A8,missense_variant,p.Arg174Thr,ENST00000539601,;SLC9A8,missense_variant,p.Arg409Thr,ENST00000417961,;SLC9A8,missense_variant,p.Arg393Thr,ENST00000361573,;	C	ENSG00000197818	ENST00000417961	Transcript	missense_variant	1436	1226	409	R/T	aGa/aCa	COSM419346,COSM1645625	.	.	1	SLC9A8	HGNC	20728	protein_coding	YES	CCDS58774.1	ENSP00000416418	SL9A8_HUMAN	B7Z3B1_HUMAN,B4DIV9_HUMAN	UPI00017A7E08	.	deleterious(0)	probably_damaging(0.996)	13/16	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10110,TIGRFAM_domain:TIGR00840,Pfam_domain:PF00999	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGAGCGG	.	5	BLCA
SALL4	0	.	GRCh37	20	50408216	50408216	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.806C>G	p.Ser269Cys	p.S269C	ENST00000217086	2/4	53	38	14	80	80	0	SALL4,missense_variant,p.Ser269Cys,ENST00000217086,;SALL4,missense_variant,p.Ser269Cys,ENST00000395997,;SALL4,intron_variant,,ENST00000371539,;SALL4,downstream_gene_variant,,ENST00000481363,;SALL4,downstream_gene_variant,,ENST00000483130,;	C	ENSG00000101115	ENST00000217086	Transcript	missense_variant	918	806	269	S/C	tCt/tGt	COSM419339	.	.	-1	SALL4	HGNC	15924	protein_coding	YES	CCDS13438.1	ENSP00000217086	SALL4_HUMAN	.	UPI0000135527	.	deleterious(0)	probably_damaging(0.998)	2/4	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF19	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGAAACC	.	5	BLCA
ZFP64	0	.	GRCh37	20	50768648	50768648	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*37G>C	.	.	ENST00000216923	6/6	51	42	9	54	54	0	ZFP64,3_prime_UTR_variant,,ENST00000371515,;ZFP64,3_prime_UTR_variant,,ENST00000346617,;ZFP64,3_prime_UTR_variant,,ENST00000216923,;ZFP64,intron_variant,,ENST00000371518,;ZFP64,intron_variant,,ENST00000361387,;ZFP64,intron_variant,,ENST00000477786,;	G	ENSG00000020256	ENST00000216923	Transcript	3_prime_UTR_variant	2433	.	.	.	.	.	.	.	-1	ZFP64	HGNC	15940	protein_coding	YES	CCDS13440.1	ENSP00000216923	ZF64A_HUMAN	B3KQX0_HUMAN	UPI000006D699	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTTCTCAATTC	.	4	BLCA
FAM217B	0	.	GRCh37	20	58520007	58520007	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>C	p.Asp337His	p.D337H	ENST00000358293	5/5	76	58	17	60	60	0	FAM217B,missense_variant,p.Asp337His,ENST00000358293,;FAM217B,missense_variant,p.Asp337His,ENST00000360816,;FAM217B,downstream_gene_variant,,ENST00000421092,;PPP1R3D,upstream_gene_variant,,ENST00000370996,;FAM217B,non_coding_transcript_exon_variant,,ENST00000469084,;	C	ENSG00000196227	ENST00000358293	Transcript	missense_variant	1424	1009	337	D/H	Gat/Cat	COSM419320	.	.	1	FAM217B	HGNC	16170	protein_coding	YES	CCDS13484.1	ENSP00000351040	F217B_HUMAN	B4E2D0_HUMAN,A2A2M7_HUMAN	UPI0000128624	.	tolerated(0.08)	benign(0.069)	5/5	.	hmmpanther:PTHR22145:SF3,hmmpanther:PTHR22145	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCAGATTCC	.	5	BLCA
LAMA5	0	.	GRCh37	20	60921260	60921260	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294G>A	p.Glu432Lys	p.E432K	ENST00000252999	10/80	31	20	11	28	28	0	LAMA5,missense_variant,p.Glu432Lys,ENST00000252999,;LAMA5,missense_variant,p.Glu432Lys,ENST00000370677,;LAMA5,missense_variant,p.Glu432Lys,ENST00000370692,;LAMA5,downstream_gene_variant,,ENST00000497053,;	T	ENSG00000130702	ENST00000252999	Transcript	missense_variant	1361	1294	432	E/K	Gag/Aag	COSM419312	.	.	-1	LAMA5	HGNC	6485	protein_coding	YES	CCDS33502.1	ENSP00000252999	LAMA5_HUMAN	O75079_HUMAN	UPI0000161FDC	.	.	possibly_damaging(0.681)	10/80	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF261,hmmpanther:PTHR10574,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00181,SMART_domains:SM00180,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCGCAGT	.	5	BLCA
COL20A1	0	.	GRCh37	20	61959482	61959482	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3613+3G>C	.	.	ENST00000358894	.	30	23	7	33	33	0	COL20A1,missense_variant,p.Glu1213Gln,ENST00000422202,;COL20A1,missense_variant,p.Glu1213Gln,ENST00000435874,;COL20A1,missense_variant,p.Glu341Gln,ENST00000415763,;COL20A1,missense_variant,p.Glu196Gln,ENST00000455906,;COL20A1,splice_region_variant,,ENST00000358894,;COL20A1,splice_region_variant,,ENST00000326996,;COL20A1,upstream_gene_variant,,ENST00000496810,;COL20A1,non_coding_transcript_exon_variant,,ENST00000471582,;COL20A1,non_coding_transcript_exon_variant,,ENST00000494913,;COL20A1,non_coding_transcript_exon_variant,,ENST00000479501,;	C	ENSG00000101203	ENST00000358894	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	COL20A1	HGNC	14670	protein_coding	YES	CCDS46628.1	ENSP00000351767	COKA1_HUMAN	.	UPI000051910D	.	.	.	.	33/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGTGAGTCT	.	5	BLCA
UCKL1	0	.	GRCh37	20	62577259	62577259	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481G>A	p.Asp161Asn	p.D161N	ENST00000354216	4/15	400	309	91	404	404	0	UCKL1,missense_variant,p.Asp161Asn,ENST00000358711,;UCKL1,missense_variant,p.Asp146Asn,ENST00000369908,;UCKL1,missense_variant,p.Asp161Asn,ENST00000354216,;UCKL1,missense_variant,p.Asp161Asn,ENST00000369892,;UCKL1,upstream_gene_variant,,ENST00000430743,;MIR1914,upstream_gene_variant,,ENST00000607800,;MIR647,upstream_gene_variant,,ENST00000384823,;UCKL1,non_coding_transcript_exon_variant,,ENST00000492660,;UCKL1,downstream_gene_variant,,ENST00000483710,;	T	ENSG00000198276	ENST00000354216	Transcript	missense_variant	524	481	161	D/N	Gac/Aac	COSM419299	.	.	-1	UCKL1	HGNC	15938	protein_coding	YES	CCDS13547.1	ENSP00000346155	UCKL1_HUMAN	Q5JWV1_HUMAN	UPI000004A08C	.	deleterious(0)	probably_damaging(1)	4/15	.	hmmpanther:PTHR10285:SF64,hmmpanther:PTHR10285,Pfam_domain:PF00485,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00235,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGTCAAAGG	.	5	BLCA
TPTE	0	.	GRCh37	21	10973742	10973742	+	5'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9G>C	.	.	ENST00000361285	4/24	170	153	17	146	146	0	TPTE,5_prime_UTR_variant,,ENST00000361285,;TPTE,5_prime_UTR_variant,,ENST00000328758,;TPTE,5_prime_UTR_variant,,ENST00000342420,;TPTE,5_prime_UTR_variant,,ENST00000298232,;TPTE,non_coding_transcript_exon_variant,,ENST00000415664,;TPTE,intron_variant,,ENST00000447568,;	G	ENSG00000166157	ENST00000361285	Transcript	5_prime_UTR_variant	322	.	.	.	.	.	.	.	-1	TPTE	HGNC	12023	protein_coding	YES	CCDS13560.2	ENSP00000355208	TPTE_HUMAN	.	UPI000016A18A	.	.	.	4/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCTCTGGGT	.	3	BLCA
LIPI	0	.	GRCh37	21	15561577	15561577	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.273C>T	p.%3D	p.F91F	ENST00000344577	2/10	125	92	32	130	130	0	LIPI,synonymous_variant,p.%3D,ENST00000536861,;LIPI,synonymous_variant,p.%3D,ENST00000344577,;LIPI,upstream_gene_variant,,ENST00000400211,;	A	ENSG00000188992	ENST00000344577	Transcript	synonymous_variant	299	273	91	F	ttC/ttT	COSM419290	.	.	-1	LIPI	HGNC	18821	protein_coding	YES	CCDS13564.1	ENSP00000343331	LIPI_HUMAN	.	UPI000015F82D	.	.	.	2/10	.	hmmpanther:PTHR11610:SF84,hmmpanther:PTHR11610,Pfam_domain:PF00151,Gene3D:3.40.50.1820,PIRSF_domain:PIRSF000865,Superfamily_domains:SSF53474,Prints_domain:PR00821	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTGAAATT	.	5	BLCA
NCAM2	0	.	GRCh37	21	22910264	22910264	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2500G>C	p.Asp834His	p.D834H	ENST00000400546	18/18	77	67	9	41	41	0	NCAM2,missense_variant,p.Asp834His,ENST00000400546,;NCAM2,missense_variant,p.Asp692His,ENST00000284894,;	C	ENSG00000154654	ENST00000400546	Transcript	missense_variant	2749	2500	834	D/H	Gac/Cac	COSM1029594,COSM419280	.	.	1	NCAM2	HGNC	7657	protein_coding	YES	CCDS42910.1	ENSP00000383392	NCAM2_HUMAN	D3DSC5_HUMAN	UPI00001A3703	.	deleterious(0)	probably_damaging(1)	18/18	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGACGACAGC	.	4	BLCA
KRTAP13-2	0	.	GRCh37	21	31744044	31744044	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488G>C	p.Arg163Thr	p.R163T	ENST00000399889	1/1	76	59	17	88	88	0	KRTAP13-2,missense_variant,p.Arg163Thr,ENST00000399889,;MIR4327,downstream_gene_variant,,ENST00000581194,;	G	ENSG00000182816	ENST00000399889	Transcript	missense_variant	514	488	163	R/T	aGa/aCa	COSM419270	.	.	-1	KRTAP13-2	HGNC	18923	protein_coding	YES	CCDS13589.1	ENSP00000382777	KR132_HUMAN	.	UPI000003B46A	.	deleterious(0.04)	possibly_damaging(0.706)	1/1	.	Pfam_domain:PF05287,hmmpanther:PTHR19051,hmmpanther:PTHR19051:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCTGTAA	.	5	BLCA
SH3BGR	0	.	GRCh37	21	40883722	40883722	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*20C>T	.	.	ENST00000333634	6/7	83	63	20	83	83	0	SH3BGR,3_prime_UTR_variant,,ENST00000380631,;SH3BGR,3_prime_UTR_variant,,ENST00000333634,;SH3BGR,3_prime_UTR_variant,,ENST00000458295,;SH3BGR,3_prime_UTR_variant,,ENST00000380637,;SH3BGR,3_prime_UTR_variant,,ENST00000452550,;SH3BGR,3_prime_UTR_variant,,ENST00000380634,;SH3BGR,intron_variant,,ENST00000447939,;SH3BGR,downstream_gene_variant,,ENST00000423596,;SH3BGR,downstream_gene_variant,,ENST00000440288,;	T	ENSG00000185437	ENST00000333634	Transcript	3_prime_UTR_variant	818	.	.	.	.	.	.	.	1	SH3BGR	HGNC	10822	protein_coding	YES	CCDS13666.1	ENSP00000332513	SH3BG_HUMAN	C9JX40_HUMAN	UPI00001B03C6	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTTCCA	.	5	BLCA
TRAPPC10	0	.	GRCh37	21	45514011	45514011	+	Missense_Mutation	SNP	C	C	G	rs770479518	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3065C>G	p.Ser1022Cys	p.S1022C	ENST00000291574	20/23	231	189	42	206	206	0	TRAPPC10,missense_variant,p.Ser1022Cys,ENST00000291574,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000486746,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000483973,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000465905,;TRAPPC10,3_prime_UTR_variant,,ENST00000422875,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000485621,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000469521,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000459741,;TRAPPC10,upstream_gene_variant,,ENST00000468864,;	G	ENSG00000160218	ENST00000291574	Transcript	missense_variant	3240	3065	1022	S/C	tCt/tGt	rs770479518,COSM419209	.	.	1	TRAPPC10	HGNC	11868	protein_coding	YES	CCDS13704.1	ENSP00000291574	TPC10_HUMAN	Q76NH5_HUMAN	UPI0000129E26	.	tolerated(0.21)	benign(0.014)	20/23	.	hmmpanther:PTHR13251,Pfam_domain:PF12584	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCTTCTCTGC	.	3	BLCA
TRAPPC10	0	.	GRCh37	21	45514050	45514050	+	Missense_Mutation	SNP	C	C	G	rs374120077	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3104C>G	p.Ser1035Cys	p.S1035C	ENST00000291574	20/23	245	201	44	222	222	0	TRAPPC10,missense_variant,p.Ser1035Cys,ENST00000291574,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000486746,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000483973,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000465905,;TRAPPC10,3_prime_UTR_variant,,ENST00000422875,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000485621,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000469521,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000459741,;TRAPPC10,upstream_gene_variant,,ENST00000468864,;	G	ENSG00000160218	ENST00000291574	Transcript	missense_variant	3279	3104	1035	S/C	tCt/tGt	rs374120077,COSM419675	.	.	1	TRAPPC10	HGNC	11868	protein_coding	YES	CCDS13704.1	ENSP00000291574	TPC10_HUMAN	Q76NH5_HUMAN	UPI0000129E26	.	deleterious(0.02)	possibly_damaging(0.852)	20/23	.	hmmpanther:PTHR13251,Pfam_domain:PF12584	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCTTCTGAGG	.	3	BLCA
TRAPPC10	0	.	GRCh37	21	45518306	45518306	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3237C>G	p.%3D	p.L1079L	ENST00000291574	21/23	254	197	56	216	216	0	TRAPPC10,synonymous_variant,p.%3D,ENST00000291574,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000486746,;TRAPPC10,downstream_gene_variant,,ENST00000483973,;TRAPPC10,downstream_gene_variant,,ENST00000465905,;TRAPPC10,3_prime_UTR_variant,,ENST00000422875,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000485621,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000469521,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000459741,;TRAPPC10,non_coding_transcript_exon_variant,,ENST00000468864,;	G	ENSG00000160218	ENST00000291574	Transcript	synonymous_variant	3412	3237	1079	L	ctC/ctG	COSM419674	.	.	1	TRAPPC10	HGNC	11868	protein_coding	YES	CCDS13704.1	ENSP00000291574	TPC10_HUMAN	Q76NH5_HUMAN	UPI0000129E26	.	.	.	21/23	.	hmmpanther:PTHR13251,Pfam_domain:PF12584	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCTGCTC	.	5	BLCA
AIRE	0	.	GRCh37	21	45706995	45706995	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442C>G	p.Pro148Ala	p.P148A	ENST00000291582	3/14	49	40	9	56	56	0	AIRE,missense_variant,p.Pro148Ala,ENST00000291582,;AIRE,upstream_gene_variant,,ENST00000329347,;AIRE,upstream_gene_variant,,ENST00000355347,;AIRE,non_coding_transcript_exon_variant,,ENST00000527919,;AIRE,non_coding_transcript_exon_variant,,ENST00000530812,;AIRE,upstream_gene_variant,,ENST00000337909,;AIRE,upstream_gene_variant,,ENST00000397994,;	G	ENSG00000160224	ENST00000291582	Transcript	missense_variant	569	442	148	P/A	Cca/Gca	COSM419672	.	.	1	AIRE	HGNC	360	protein_coding	YES	CCDS13706.1	ENSP00000291582	AIRE_HUMAN	.	UPI0000030FA6	.	deleterious(0.04)	possibly_damaging(0.624)	3/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24102,hmmpanther:PTHR24102:SF15	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGACTCCAAGG	.	4	BLCA
PEX26	0	.	GRCh37	22	18566266	18566266	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435C>T	p.%3D	p.L145L	ENST00000329627	4/6	221	177	44	194	194	0	PEX26,synonymous_variant,p.%3D,ENST00000399744,;PEX26,synonymous_variant,p.%3D,ENST00000329627,;PEX26,synonymous_variant,p.%3D,ENST00000428061,;XXbac-B476C20.9,upstream_gene_variant,,ENST00000607927,;PEX26,intron_variant,,ENST00000474897,;XXbac-B476C20.11,upstream_gene_variant,,ENST00000427227,;	T	ENSG00000215193	ENST00000329627	Transcript	synonymous_variant	641	435	145	L	ctC/ctT	COSM419646	.	.	1	PEX26	HGNC	22965	protein_coding	YES	CCDS13750.1	ENSP00000331106	PEX26_HUMAN	.	UPI000000DBD1	.	.	.	4/6	.	Pfam_domain:PF07163,hmmpanther:PTHR16262,hmmpanther:PTHR16262:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTCCAAGA	.	4	BLCA
ZNF70	0	.	GRCh37	22	24086954	24086954	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374C>G	p.Ser125Ter	p.S125*	ENST00000341976	2/2	223	174	48	221	221	0	ZNF70,stop_gained,p.Ser125Ter,ENST00000341976,;	C	ENSG00000187792	ENST00000341976	Transcript	stop_gained	835	374	125	S/*	tCa/tGa	COSM419626	.	.	-1	ZNF70	HGNC	13140	protein_coding	YES	CCDS13812.1	ENSP00000339314	ZNF70_HUMAN	.	UPI0000001C98	.	.	.	2/2	.	hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF82	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGAGTCC	.	5	BLCA
GGT5	0	.	GRCh37	22	24615767	24615767	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*171C>T	.	.	ENST00000398292	12/12	10	7	3	12	12	0	GGT5,3_prime_UTR_variant,,ENST00000425408,;GGT5,3_prime_UTR_variant,,ENST00000398292,;GGT5,3_prime_UTR_variant,,ENST00000263112,;GGT5,3_prime_UTR_variant,,ENST00000418439,;GGT5,3_prime_UTR_variant,,ENST00000327365,;	A	ENSG00000099998	ENST00000398292	Transcript	3_prime_UTR_variant	2269	.	.	.	.	.	.	.	-1	GGT5	HGNC	4260	protein_coding	YES	CCDS42990.1	ENSP00000381340	GGT5_HUMAN	.	UPI00003B5CB9	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGATGAGGCT	.	2	BLCA
CRYBB1	0	.	GRCh37	22	27003913	27003913	+	Missense_Mutation	SNP	C	C	A	rs141811471	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372G>T	p.Trp124Cys	p.W124C	ENST00000215939	4/6	76	55	21	61	61	0	CRYBB1,missense_variant,p.Trp124Cys,ENST00000215939,;	A	ENSG00000100122	ENST00000215939	Transcript	missense_variant	503	372	124	W/C	tgG/tgT	rs141811471,COSM419613	.	.	-1	CRYBB1	HGNC	2397	protein_coding	YES	CCDS13840.1	ENSP00000215939	CRBB1_HUMAN	.	UPI000000165D	.	deleterious(0)	probably_damaging(1)	4/6	.	PROSITE_profiles:PS50915,hmmpanther:PTHR11818:SF12,hmmpanther:PTHR11818,Gene3D:2.60.20.10,Pfam_domain:PF00030,SMART_domains:SM00247,Superfamily_domains:SSF49695,Prints_domain:PR01367	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTCCAGCG	byCluster	5	BLCA
CRYBB1	0	.	GRCh37	22	27003914	27003914	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.371G>A	p.Trp124Ter	p.W124*	ENST00000215939	4/6	77	56	21	62	62	0	CRYBB1,stop_gained,p.Trp124Ter,ENST00000215939,;	T	ENSG00000100122	ENST00000215939	Transcript	stop_gained	502	371	124	W/*	tGg/tAg	COSM419611	.	.	-1	CRYBB1	HGNC	2397	protein_coding	YES	CCDS13840.1	ENSP00000215939	CRBB1_HUMAN	.	UPI000000165D	.	.	.	4/6	.	PROSITE_profiles:PS50915,hmmpanther:PTHR11818:SF12,hmmpanther:PTHR11818,Gene3D:2.60.20.10,Pfam_domain:PF00030,SMART_domains:SM00247,Superfamily_domains:SSF49695,Prints_domain:PR01367	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTCCAGCGA	.	5	BLCA
AP1B1	0	.	GRCh37	22	29752417	29752417	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.714G>A	p.%3D	p.Q238Q	ENST00000357586	6/23	35	24	11	36	36	0	AP1B1,synonymous_variant,p.%3D,ENST00000356015,;AP1B1,synonymous_variant,p.%3D,ENST00000402502,;AP1B1,synonymous_variant,p.%3D,ENST00000421126,;AP1B1,synonymous_variant,p.%3D,ENST00000357586,;AP1B1,synonymous_variant,p.%3D,ENST00000405198,;AP1B1,synonymous_variant,p.%3D,ENST00000432560,;AP1B1,synonymous_variant,p.%3D,ENST00000415447,;AP1B1,synonymous_variant,p.%3D,ENST00000317368,;AP1B1,upstream_gene_variant,,ENST00000415756,;AP1B1,downstream_gene_variant,,ENST00000473606,;	T	ENSG00000100280	ENST00000357586	Transcript	synonymous_variant	901	714	238	Q	caG/caA	COSM419606	.	.	-1	AP1B1	HGNC	554	protein_coding	YES	CCDS13855.1	ENSP00000350199	AP1B1_HUMAN	C9J1E7_HUMAN	UPI000013CED0	.	.	.	6/23	.	hmmpanther:PTHR11134,hmmpanther:PTHR11134:SF12,Pfam_domain:PF01602,Gene3D:1.25.10.10,PIRSF_domain:PIRSF002291,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTGGGC	.	5	BLCA
ASCC2	0	.	GRCh37	22	30188508	30188508	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1936C>T	p.Gln646Ter	p.Q646*	ENST00000397771	19/21	554	512	42	532	532	0	ASCC2,stop_gained,p.Gln646Ter,ENST00000307790,;ASCC2,stop_gained,p.Gln646Ter,ENST00000397771,;ASCC2,stop_gained,p.Gln570Ter,ENST00000542393,;ASCC2,downstream_gene_variant,,ENST00000411532,;ASCC2,intron_variant,,ENST00000472433,;ASCC2,downstream_gene_variant,,ENST00000483380,;ASCC2,3_prime_UTR_variant,,ENST00000458594,;ASCC2,non_coding_transcript_exon_variant,,ENST00000487486,;	A	ENSG00000100325	ENST00000397771	Transcript	stop_gained	2114	1936	646	Q/*	Cag/Tag	COSM419601	.	.	-1	ASCC2	HGNC	24103	protein_coding	YES	CCDS13869.1	ENSP00000380877	ASCC2_HUMAN	B1AH59_HUMAN	UPI000006E83B	.	.	.	19/21	.	hmmpanther:PTHR21494,hmmpanther:PTHR21494:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTGAGGGA	.	2	BLCA
ELFN2	0	.	GRCh37	22	37770273	37770273	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1302C>T	p.%3D	p.V434V	ENST00000402918	3/3	285	216	68	261	261	0	ELFN2,synonymous_variant,p.%3D,ENST00000402918,;RP1-63G5.5,intron_variant,,ENST00000430883,;RP1-63G5.5,intron_variant,,ENST00000452946,;RP1-63G5.8,downstream_gene_variant,,ENST00000609322,;ELFN2,downstream_gene_variant,,ENST00000424973,;ELFN2,downstream_gene_variant,,ENST00000415408,;ELFN2,downstream_gene_variant,,ENST00000414347,;ELFN2,downstream_gene_variant,,ENST00000435824,;ELFN2,downstream_gene_variant,,ENST00000451509,;	A	ENSG00000166897	ENST00000402918	Transcript	synonymous_variant	2088	1302	434	V	gtC/gtT	COSM419563	.	.	-1	ELFN2	HGNC	29396	protein_coding	YES	CCDS33642.1	ENSP00000385277	PPR29_HUMAN	.	UPI000004E87D	.	.	.	3/3	.	hmmpanther:PTHR24367:SF248,hmmpanther:PTHR24367	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTGACGTT	.	5	BLCA
EIF3L	0	.	GRCh37	22	38273809	38273809	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1206G>C	p.Gln402His	p.Q402H	ENST00000412331	11/13	111	84	26	109	108	1	EIF3L,missense_variant,p.Gln304His,ENST00000406934,;EIF3L,missense_variant,p.Gln354His,ENST00000381683,;EIF3L,missense_variant,p.Gln402His,ENST00000412331,;EIF3L,upstream_gene_variant,,ENST00000450376,;EIF3L,non_coding_transcript_exon_variant,,ENST00000482600,;EIF3L,non_coding_transcript_exon_variant,,ENST00000477256,;	C	ENSG00000100129	ENST00000412331	Transcript	missense_variant	1788	1206	402	Q/H	caG/caC	COSM419558	.	.	1	EIF3L	HGNC	18138	protein_coding	YES	CCDS13960.1	ENSP00000416892	EIF3L_HUMAN	Q7Z5X3_HUMAN,C9JHP4_HUMAN,B3KNG0_HUMAN,B0QY89_HUMAN	UPI00000012D7	.	deleterious(0)	probably_damaging(1)	11/13	.	HAMAP:MF_03011,hmmpanther:PTHR13242,Pfam_domain:PF10255	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGAAAGG	.	5	BLCA
MKL1	0	.	GRCh37	22	40815081	40815081	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1361C>G	p.Ser454Cys	p.S454C	ENST00000355630	12/15	22	18	4	18	18	0	MKL1,missense_variant,p.Ser404Cys,ENST00000402042,;MKL1,missense_variant,p.Ser454Cys,ENST00000355630,;MKL1,missense_variant,p.Ser454Cys,ENST00000396617,;MKL1,missense_variant,p.Ser454Cys,ENST00000407029,;RP5-1042K10.13,downstream_gene_variant,,ENST00000609279,;MKL1,upstream_gene_variant,,ENST00000477468,;	C	ENSG00000196588	ENST00000355630	Transcript	missense_variant	1952	1361	454	S/C	tCt/tGt	COSM419543	.	.	-1	MKL1	HGNC	14334	protein_coding	YES	CCDS14003.1	ENSP00000347847	MKL1_HUMAN	Q29R68_HUMAN	UPI000007311D	.	deleterious(0)	probably_damaging(0.987)	12/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22793:SF6,hmmpanther:PTHR22793	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGGAGACACG	.	2	BLCA
L3MBTL2	0	.	GRCh37	22	41626166	41626166	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2029G>C	p.Glu677Gln	p.E677Q	ENST00000216237	17/17	99	79	20	118	118	0	L3MBTL2,missense_variant,p.Glu677Gln,ENST00000216237,;CHADL,intron_variant,,ENST00000216241,;CHADL,intron_variant,,ENST00000417999,;CHADL,downstream_gene_variant,,ENST00000455425,;L3MBTL2,3_prime_UTR_variant,,ENST00000452106,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000479978,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000466589,;L3MBTL2,downstream_gene_variant,,ENST00000481902,;	C	ENSG00000100395	ENST00000216237	Transcript	missense_variant	2187	2029	677	E/Q	Gag/Cag	COSM419537	.	.	1	L3MBTL2	HGNC	18594	protein_coding	YES	CCDS14011.1	ENSP00000216237	LMBL2_HUMAN	.	UPI000012E77E	.	deleterious_low_confidence(0.01)	benign(0.007)	17/17	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAGCAT	.	5	BLCA
RIBC2	0	.	GRCh37	22	45818177	45818177	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549C>T	p.%3D	p.L183L	ENST00000538017	4/7	307	236	71	305	305	0	RIBC2,synonymous_variant,p.%3D,ENST00000342894,;RIBC2,synonymous_variant,p.%3D,ENST00000538017,;RIBC2,non_coding_transcript_exon_variant,,ENST00000466226,;RIBC2,non_coding_transcript_exon_variant,,ENST00000498265,;	T	ENSG00000128408	ENST00000538017	Transcript	synonymous_variant	758	549	183	L	ctC/ctT	COSM419508	.	.	1	RIBC2	HGNC	13241	protein_coding	YES	.	ENSP00000444196	.	F5GZV2_HUMAN	UPI0002065232	.	.	.	4/7	.	Pfam_domain:PF05914,hmmpanther:PTHR14517:SF2,hmmpanther:PTHR14517	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCTACAC	.	5	BLCA
GTSE1	0	.	GRCh37	22	46693369	46693369	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>A	p.%3D	p.K24K	ENST00000454366	2/12	130	102	28	119	119	0	GTSE1,synonymous_variant,p.%3D,ENST00000454366,;TTC38,downstream_gene_variant,,ENST00000445282,;TTC38,downstream_gene_variant,,ENST00000381031,;TTC38,downstream_gene_variant,,ENST00000451998,;	A	ENSG00000075218	ENST00000454366	Transcript	synonymous_variant	284	72	24	K	aaG/aaA	COSM419507	.	.	1	GTSE1	HGNC	13698	protein_coding	YES	CCDS14074.2	ENSP00000415430	GTSE1_HUMAN	.	UPI000021D19B	.	.	.	2/12	.	hmmpanther:PTHR21584:SF8,hmmpanther:PTHR21584	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTAAGAAGGA	.	5	BLCA
MOV10L1	0	.	GRCh37	22	50563987	50563987	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1736C>T	p.Ser579Phe	p.S579F	ENST00000262794	11/27	115	89	26	106	106	0	MOV10L1,missense_variant,p.Ser559Phe,ENST00000540615,;MOV10L1,missense_variant,p.Ser579Phe,ENST00000545383,;MOV10L1,missense_variant,p.Ser579Phe,ENST00000262794,;MOV10L1,missense_variant,p.Ser579Phe,ENST00000395858,;MOV10L1,5_prime_UTR_variant,,ENST00000395843,;MOV10L1,3_prime_UTR_variant,,ENST00000434497,;	T	ENSG00000073146	ENST00000262794	Transcript	missense_variant	1819	1736	579	S/F	tCt/tTt	.	.	.	1	MOV10L1	HGNC	7201	protein_coding	YES	CCDS14084.1	ENSP00000262794	M10L1_HUMAN	.	UPI00000421FB	.	tolerated(0.29)	benign(0.087)	11/27	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCTCTCT	.	5	BLCA
PLXNB2	0	.	GRCh37	22	50721499	50721499	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2796C>T	p.%3D	p.L932L	ENST00000449103	17/37	31	20	11	28	28	0	PLXNB2,synonymous_variant,p.%3D,ENST00000359337,;PLXNB2,synonymous_variant,p.%3D,ENST00000449103,;PLXNB2,intron_variant,,ENST00000411680,;PLXNB2,upstream_gene_variant,,ENST00000427829,;PLXNB2,downstream_gene_variant,,ENST00000432455,;PLXNB2,downstream_gene_variant,,ENST00000434732,;PLXNB2,downstream_gene_variant,,ENST00000496720,;PLXNB2,upstream_gene_variant,,ENST00000479818,;PLXNB2,upstream_gene_variant,,ENST00000479701,;PLXNB2,upstream_gene_variant,,ENST00000463165,;PLXNB2,upstream_gene_variant,,ENST00000492578,;	A	ENSG00000196576	ENST00000449103	Transcript	synonymous_variant	2937	2796	932	L	ctC/ctT	COSM419494	.	.	-1	PLXNB2	HGNC	9104	protein_coding	YES	CCDS43035.1	ENSP00000409171	PLXB2_HUMAN	Q2TBE4_HUMAN,E2PU09_HUMAN,A6QRH1_HUMAN	UPI000003812D	.	.	.	17/37	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF9,Gene3D:2.60.40.10,Pfam_domain:PF01833,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGTTGAGGGT	.	5	BLCA
CHKB	0	.	GRCh37	22	51020725	51020725	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>A	p.Glu96Lys	p.E96K	ENST00000406938	2/11	12	9	3	8	8	0	CHKB,missense_variant,p.Glu96Lys,ENST00000406938,;CPT1B,upstream_gene_variant,,ENST00000312108,;CPT1B,upstream_gene_variant,,ENST00000417176,;CPT1B,upstream_gene_variant,,ENST00000360719,;CPT1B,upstream_gene_variant,,ENST00000395650,;CPT1B,upstream_gene_variant,,ENST00000434492,;CPT1B,upstream_gene_variant,,ENST00000457250,;CPT1B,upstream_gene_variant,,ENST00000405237,;CPT1B,upstream_gene_variant,,ENST00000440709,;CHKB-AS1,upstream_gene_variant,,ENST00000380711,;CHKB,non_coding_transcript_exon_variant,,ENST00000463053,;CHKB,upstream_gene_variant,,ENST00000464225,;CHKB-CPT1B,upstream_gene_variant,,ENST00000452668,;CHKB,upstream_gene_variant,,ENST00000471515,;CHKB,non_coding_transcript_exon_variant,,ENST00000476289,;CHKB,non_coding_transcript_exon_variant,,ENST00000492582,;CHKB,non_coding_transcript_exon_variant,,ENST00000481673,;CHKB,non_coding_transcript_exon_variant,,ENST00000484266,;CHKB-CPT1B,non_coding_transcript_exon_variant,,ENST00000492556,;CHKB,non_coding_transcript_exon_variant,,ENST00000468532,;CHKB,non_coding_transcript_exon_variant,,ENST00000479003,;CHKB,non_coding_transcript_exon_variant,,ENST00000465842,;CPT1B,upstream_gene_variant,,ENST00000460853,;CHKB-CPT1B,upstream_gene_variant,,ENST00000453634,;CPT1B,upstream_gene_variant,,ENST00000461117,;CHKB,upstream_gene_variant,,ENST00000489453,;	T	ENSG00000100288	ENST00000406938	Transcript	missense_variant	504	286	96	E/K	Gag/Aag	COSM419487	.	.	-1	CHKB	HGNC	1938	protein_coding	YES	CCDS14099.1	ENSP00000384400	CHKB_HUMAN	H3BT56_HUMAN	UPI000012DE4D	.	deleterious(0.04)	benign(0.001)	2/11	.	hmmpanther:PTHR22603:SF28,hmmpanther:PTHR22603,Gene3D:3.10.450.110,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCGCCAA	.	2	BLCA
EIF5B	0	.	GRCh37	2	100011209	100011209	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3117G>C	p.%3D	p.V1039V	ENST00000289371	21/24	161	132	28	185	185	0	EIF5B,synonymous_variant,p.%3D,ENST00000289371,;EIF5B,downstream_gene_variant,,ENST00000470868,;EIF5B,upstream_gene_variant,,ENST00000494190,;EIF5B,upstream_gene_variant,,ENST00000470023,;	C	ENSG00000158417	ENST00000289371	Transcript	synonymous_variant	3319	3117	1039	V	gtG/gtC	COSM418664	.	.	1	EIF5B	HGNC	30793	protein_coding	YES	CCDS42721.1	ENSP00000289371	IF2P_HUMAN	D3DVI5_HUMAN	UPI0000207EC7	.	.	.	21/24	.	Superfamily_domains:0037976,Gene3D:1g7sA03,Pfam_domain:PF11987,hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF99	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D1038N|c.3112G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGTGAGAAT	.	5	BLCA
IL1RL1	0	.	GRCh37	2	102956721	102956721	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>C	p.Glu146Gln	p.E146Q	ENST00000233954	4/11	79	65	13	75	75	0	IL1RL1,missense_variant,p.Glu146Gln,ENST00000409584,;IL1RL1,missense_variant,p.Glu29Gln,ENST00000404917,;IL1RL1,missense_variant,p.Glu146Gln,ENST00000311734,;IL1RL1,missense_variant,p.Glu146Gln,ENST00000393393,;IL1RL1,missense_variant,p.Glu146Gln,ENST00000233954,;IL18R1,intron_variant,,ENST00000410040,;IL1RL1,downstream_gene_variant,,ENST00000447231,;IL1RL1,non_coding_transcript_exon_variant,,ENST00000482701,;IL1RL1,downstream_gene_variant,,ENST00000473175,;IL1RL1,missense_variant,p.Glu146Gln,ENST00000427077,;IL1RL1,downstream_gene_variant,,ENST00000463990,;	C	ENSG00000115602	ENST00000233954	Transcript	missense_variant	707	436	146	E/Q	Gag/Cag	COSM418652,COSM418651	.	.	1	IL1RL1	HGNC	5998	protein_coding	YES	CCDS2057.1	ENSP00000233954	ILRL1_HUMAN	C9JSY6_HUMAN,A8VPX0_HUMAN	UPI000013C992	.	tolerated(1)	benign(0.129)	4/11	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11890:SF7,hmmpanther:PTHR11890,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTGAGTGG	.	5	BLCA
SLC9A4	0	.	GRCh37	2	103119999	103119999	+	Silent	SNP	C	C	T	rs762160178	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813C>T	p.%3D	p.I271I	ENST00000295269	3/12	101	75	25	83	83	0	SLC9A4,synonymous_variant,p.%3D,ENST00000295269,;SLC9A4,non_coding_transcript_exon_variant,,ENST00000492154,;	T	ENSG00000180251	ENST00000295269	Transcript	synonymous_variant	1270	813	271	I	atC/atT	rs762160178,COSM418648	.	.	1	SLC9A4	HGNC	11077	protein_coding	YES	CCDS33264.1	ENSP00000295269	SL9A4_HUMAN	.	UPI000047F996	.	.	.	3/12	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10110:SF103,hmmpanther:PTHR10110,Pfam_domain:PF00999,TIGRFAM_domain:TIGR00840	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATCGTTGT	.	5	BLCA
IL36B	0	.	GRCh37	2	113785616	113785616	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261+900C>G	.	.	ENST00000259213	.	140	129	10	123	123	0	IL36B,missense_variant,p.Ser113Cys,ENST00000327407,;IL36B,intron_variant,,ENST00000259213,;	C	ENSG00000136696	ENST00000259213	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	IL36B	HGNC	15564	protein_coding	YES	CCDS2109.1	ENSP00000259213	IL36B_HUMAN	.	UPI000003C9C0	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGTGGAGCCT	.	2	BLCA
GYPC	0	.	GRCh37	2	127453717	127453717	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386G>A	p.%3D	p.%3D	ENST00000259254	4/4	44	34	10	51	51	0	GYPC,stop_retained_variant,p.%3D,ENST00000259254,;GYPC,stop_retained_variant,p.%3D,ENST00000409836,;GYPC,stop_retained_variant,p.%3D,ENST00000356887,;GYPC,non_coding_transcript_exon_variant,,ENST00000464053,;	A	ENSG00000136732	ENST00000259254	Transcript	stop_retained_variant	717	386	129	*	tGa/tAa	COSM418591	.	.	1	GYPC	HGNC	4704	protein_coding	YES	CCDS2136.1	ENSP00000259254	GLPC_HUMAN	A8D444_HUMAN	UPI000012B763	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATTTGAGGGA	.	2	BLCA
GPR17	0	.	GRCh37	2	128408370	128408370	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145G>C	p.Glu49Gln	p.E49Q	ENST00000544369	4/4	163	132	30	169	168	1	GPR17,missense_variant,p.Glu49Gln,ENST00000272644,;GPR17,missense_variant,p.Glu49Gln,ENST00000423019,;GPR17,missense_variant,p.Glu49Gln,ENST00000393018,;GPR17,missense_variant,p.Glu49Gln,ENST00000544369,;LIMS2,intron_variant,,ENST00000409455,;LIMS2,intron_variant,,ENST00000355119,;LIMS2,intron_variant,,ENST00000410011,;LIMS2,intron_variant,,ENST00000324938,;LIMS2,intron_variant,,ENST00000545738,;LIMS2,intron_variant,,ENST00000409808,;LIMS2,upstream_gene_variant,,ENST00000409254,;LIMS2,upstream_gene_variant,,ENST00000410038,;GPR17,non_coding_transcript_exon_variant,,ENST00000496086,;GPR17,non_coding_transcript_exon_variant,,ENST00000486700,;LIMS2,upstream_gene_variant,,ENST00000582671,;LIMS2,intron_variant,,ENST00000476932,;LIMS2,intron_variant,,ENST00000466410,;LIMS2,intron_variant,,ENST00000469300,;LIMS2,upstream_gene_variant,,ENST00000413578,;	C	ENSG00000144230	ENST00000544369	Transcript	missense_variant	756	145	49	E/Q	Gag/Cag	COSM418585	.	.	1	GPR17	HGNC	4471	protein_coding	YES	CCDS2148.1	ENSP00000442982	GPR17_HUMAN	G4XH68_HUMAN,C9JWY5_HUMAN	UPI0000050432	.	tolerated(0.17)	benign(0.011)	4/4	.	hmmpanther:PTHR24232:SF44,hmmpanther:PTHR24232,Gene3D:1.20.1070.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCAGAGCAA	.	5	BLCA
NR4A2	0	.	GRCh37	2	157186256	157186256	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>G	p.Ser148Cys	p.S148C	ENST00000339562	3/8	219	166	53	194	194	0	NR4A2,missense_variant,p.Ser85Cys,ENST00000421709,;NR4A2,missense_variant,p.Ser148Cys,ENST00000409108,;NR4A2,missense_variant,p.Ser85Cys,ENST00000429376,;NR4A2,missense_variant,p.Ser159Cys,ENST00000539077,;NR4A2,missense_variant,p.Ser85Cys,ENST00000426264,;NR4A2,missense_variant,p.Ser148Cys,ENST00000424077,;NR4A2,missense_variant,p.Ser148Cys,ENST00000409572,;NR4A2,missense_variant,p.Ser148Cys,ENST00000339562,;NR4A2,intron_variant,,ENST00000406048,;NR4A2,missense_variant,p.Ser85Cys,ENST00000417764,;NR4A2,missense_variant,p.Ser85Cys,ENST00000417972,;	C	ENSG00000153234	ENST00000339562	Transcript	missense_variant	806	443	148	S/C	tCt/tGt	COSM418534	.	.	-1	NR4A2	HGNC	7981	protein_coding	YES	CCDS2201.1	ENSP00000344479	NR4A2_HUMAN	Q6NXU0_HUMAN,F1D8N6_HUMAN,C9JWQ1_HUMAN,C9IYM5_HUMAN	UPI0000036A18	.	tolerated(0.09)	possibly_damaging(0.847)	3/8	.	hmmpanther:PTHR24085,hmmpanther:PTHR24085:SF0,Prints_domain:PR01287	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGATCCC	.	5	BLCA
GALNT5	0	.	GRCh37	2	158115547	158115547	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.953C>T	p.Ser318Phe	p.S318F	ENST00000259056	1/10	133	101	31	113	113	0	GALNT5,missense_variant,p.Ser318Phe,ENST00000259056,;	T	ENSG00000136542	ENST00000259056	Transcript	missense_variant	1438	953	318	S/F	tCt/tTt	COSM418533	.	.	1	GALNT5	HGNC	4127	protein_coding	YES	CCDS2203.1	ENSP00000259056	GALT5_HUMAN	Q68VJ5_HUMAN	UPI000019AD19	.	deleterious(0)	possibly_damaging(0.906)	1/10	.	hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF16	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCTGAAA	.	5	BLCA
SLC4A10	0	.	GRCh37	2	162833271	162833271	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3229G>C	p.Asp1077His	p.D1077H	ENST00000446997	25/27	11	9	2	13	13	0	SLC4A10,missense_variant,p.Asp1077His,ENST00000446997,;SLC4A10,missense_variant,p.Asp1047His,ENST00000272716,;SLC4A10,missense_variant,p.Asp1058His,ENST00000375514,;SLC4A10,missense_variant,p.Asp1047His,ENST00000415876,;SLC4A10,intron_variant,,ENST00000421911,;SLC4A10,splice_region_variant,,ENST00000446228,;	C	ENSG00000144290	ENST00000446997	Transcript	missense_variant	3322	3229	1077	D/H	Gat/Cat	COSM418524,COSM1133576	.	.	1	SLC4A10	HGNC	13811	protein_coding	YES	CCDS54411.1	ENSP00000393066	S4A10_HUMAN	.	UPI00001D4707	.	tolerated(0.11)	benign(0.332)	25/27	.	hmmpanther:PTHR11453:SF32,hmmpanther:PTHR11453	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTAGAGATGAT	.	2	BLCA
SCN3A	0	.	GRCh37	2	165956815	165956815	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3963G>A	p.Met1321Ile	p.M1321I	ENST00000283254	22/28	165	128	37	115	115	0	SCN3A,missense_variant,p.Met1272Ile,ENST00000440431,;SCN3A,missense_variant,p.Met1321Ile,ENST00000360093,;SCN3A,missense_variant,p.Met1321Ile,ENST00000283254,;SCN3A,missense_variant,p.Met1272Ile,ENST00000409101,;SCN3A,upstream_gene_variant,,ENST00000471697,;	T	ENSG00000153253	ENST00000283254	Transcript	missense_variant	4431	3963	1321	M/I	atG/atA	COSM418516,COSM1133579	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	deleterious(0.02)	possibly_damaging(0.729)	22/28	.	hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCATGCC	.	5	BLCA
SCN9A	0	.	GRCh37	2	167160597	167160597	+	Intron	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688+151C>T	.	.	ENST00000409672	.	65	49	16	53	53	0	SCN9A,missense_variant,p.Ser212Leu,ENST00000375387,;SCN9A,missense_variant,p.Ser76Leu,ENST00000452182,;SCN9A,missense_variant,p.Ser76Leu,ENST00000454569,;SCN9A,intron_variant,,ENST00000409435,;SCN9A,intron_variant,,ENST00000409672,;SCN9A,intron_variant,,ENST00000303354,;AC010127.3,downstream_gene_variant,,ENST00000447809,;SCN9A,intron_variant,,ENST00000472119,;	A	ENSG00000169432	ENST00000409672	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SCN9A	HGNC	10597	protein_coding	YES	CCDS46441.1	ENSP00000386306	SCN9A_HUMAN	Q53QP0_HUMAN	UPI0000140AC7	.	.	.	.	6/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTGAGACA	.	5	BLCA
XIRP2	0	.	GRCh37	2	167992460	167992460	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450G>C	p.Lys150Asn	p.K150N	ENST00000409195	3/11	93	71	22	105	105	0	XIRP2,missense_variant,p.Lys150Asn,ENST00000409195,;XIRP2,missense_variant,p.Lys150Asn,ENST00000420519,;XIRP2,missense_variant,p.Lys150Asn,ENST00000409756,;XIRP2,missense_variant,p.Lys150Asn,ENST00000409043,;XIRP2,missense_variant,p.Lys150Asn,ENST00000409728,;XIRP2,missense_variant,p.Lys150Asn,ENST00000295237,;XIRP2-AS1,intron_variant,,ENST00000525330,;	C	ENSG00000163092	ENST00000409195	Transcript	missense_variant	539	450	150	K/N	aaG/aaC	COSM418503,COSM418504	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	possibly_damaging(0.787)	3/11	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTAAGAGTCA	.	5	BLCA
LRP2	0	.	GRCh37	2	170083085	170083085	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5241C>T	p.%3D	p.F1747F	ENST00000263816	32/79	84	67	16	62	62	0	LRP2,synonymous_variant,p.%3D,ENST00000263816,;	A	ENSG00000081479	ENST00000263816	Transcript	synonymous_variant	5527	5241	1747	F	ttC/ttT	COSM418491	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	.	32/79	.	hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF220,Gene3D:2.120.10.30,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTAAGAAAGG	.	5	BLCA
KLHL41	0	.	GRCh37	2	170367164	170367164	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.876G>A	p.%3D	p.L292L	ENST00000284669	1/6	88	66	22	77	77	0	KLHL41,synonymous_variant,p.%3D,ENST00000284669,;RP11-724O16.1,intron_variant,,ENST00000513963,;BBS5,intron_variant,,ENST00000554017,;BBS5,downstream_gene_variant,,ENST00000392663,;BBS5,downstream_gene_variant,,ENST00000295240,;KLHL41,upstream_gene_variant,,ENST00000463400,;KLHL41,upstream_gene_variant,,ENST00000480330,;BBS5,downstream_gene_variant,,ENST00000472667,;	A	ENSG00000239474	ENST00000284669	Transcript	synonymous_variant	953	876	292	L	ctG/ctA	COSM418488	.	.	1	KLHL41	HGNC	16905	protein_coding	YES	CCDS2234.1	ENSP00000284669	KLH41_HUMAN	.	UPI0000000DC5	.	.	.	1/6	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF146,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTGAATGA	.	5	BLCA
DLX2	0	.	GRCh37	2	172965328	172965328	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930C>G	p.His310Gln	p.H310Q	ENST00000234198	3/3	51	44	6	56	56	0	DLX2,missense_variant,p.His310Gln,ENST00000234198,;DLX2,3_prime_UTR_variant,,ENST00000466293,;AC104801.1,upstream_gene_variant,,ENST00000448117,;	C	ENSG00000115844	ENST00000234198	Transcript	missense_variant	1292	930	310	H/Q	caC/caG	COSM418481	.	.	-1	DLX2	HGNC	2915	protein_coding	YES	CCDS2248.1	ENSP00000234198	DLX2_HUMAN	Q53QU7_HUMAN	UPI00001294AC	.	deleterious_low_confidence(0.05)	benign(0.227)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24327:SF23,hmmpanther:PTHR24327	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGGTGATG	.	4	BLCA
NFE2L2	0	.	GRCh37	2	178098975	178098975	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.70T>C	p.Trp24Arg	p.W24R	ENST00000397062	2/5	75	67	8	68	68	0	NFE2L2,missense_variant,p.Trp8Arg,ENST00000449627,;NFE2L2,missense_variant,p.Trp8Arg,ENST00000423513,;NFE2L2,missense_variant,p.Trp24Arg,ENST00000397062,;NFE2L2,missense_variant,p.Trp8Arg,ENST00000446151,;NFE2L2,missense_variant,p.Trp8Arg,ENST00000588123,;NFE2L2,missense_variant,p.Trp23Arg,ENST00000586532,;NFE2L2,missense_variant,p.Trp8Arg,ENST00000421929,;NFE2L2,missense_variant,p.Trp8Arg,ENST00000464747,;NFE2L2,missense_variant,p.Trp8Arg,ENST00000448782,;NFE2L2,missense_variant,p.Trp8Arg,ENST00000397063,;NFE2L2,splice_region_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	G	ENSG00000116044	ENST00000397062	Transcript	missense_variant	625	70	24	W/R	Tgg/Cgg	COSM132985	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	deleterious(0)	probably_damaging(1)	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.W24C|c.72G>C|5,BUFFER|p.D27G|c.80A>G|3	RADIA|MUTECT|MUSE|VARSCANS	CCTCCAAAGTA	.	4	BLCA
TTN	0	.	GRCh37	2	179472934	179472934	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52676C>T	p.Ser17559Leu	p.S17559L	ENST00000589042	275/363	31	22	9	27	27	0	TTN,missense_variant,p.Ser8619Leu,ENST00000359218,;TTN,missense_variant,p.Ser15918Leu,ENST00000591111,;TTN,missense_variant,p.Ser17559Leu,ENST00000589042,;TTN,missense_variant,p.Ser14991Leu,ENST00000342992,;TTN,missense_variant,p.Ser8686Leu,ENST00000342175,;TTN,missense_variant,p.Ser8494Leu,ENST00000460472,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589234,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000419746,;TTN-AS1,downstream_gene_variant,,ENST00000586452,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	52901	52676	17559	S/L	tCa/tTa	COSM418410,COSM418409,COSM1133596,COSM418408,COSM418407	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	275/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTGAAGGT	.	5	BLCA
TTN	0	.	GRCh37	2	179583286	179583286	+	Missense_Mutation	SNP	C	C	G	rs201365398	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24547G>C	p.Glu8183Gln	p.E8183Q	ENST00000589042	85/363	60	51	9	74	74	0	TTN,missense_variant,p.Glu6939Gln,ENST00000342992,;TTN,missense_variant,p.Glu8183Gln,ENST00000589042,;TTN,missense_variant,p.Glu7866Gln,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,downstream_gene_variant,,ENST00000592630,;TTN-AS1,downstream_gene_variant,,ENST00000431752,;RP11-171I2.1,upstream_gene_variant,,ENST00000590024,;TTN-AS1,downstream_gene_variant,,ENST00000589830,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	24772	24547	8183	E/Q	Gag/Cag	rs201365398,COSM1133605,COSM1645619	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	85/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	G:0.0002	G:0	G:0	.	G:0	G:0.001	G:0	G:0	G:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCAACAC	byCluster|by1000G	5	BLCA
TTN	0	.	GRCh37	2	179598113	179598113	+	Missense_Mutation	SNP	C	C	T	rs72648934	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15907G>A	p.Ala5303Thr	p.A5303T	ENST00000589042	54/363	170	129	41	183	183	0	TTN,missense_variant,p.Ala4059Thr,ENST00000342992,;TTN,missense_variant,p.Ala5303Thr,ENST00000589042,;TTN,missense_variant,p.Ala4986Thr,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000582847,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,upstream_gene_variant,,ENST00000590773,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	16132	15907	5303	A/T	Gcc/Acc	rs72648934,COSM1133610,COSM1645614	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	54/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGGCGACCA	byCluster|by1000G	5	BLCA
NEUROD1	0	.	GRCh37	2	182543515	182543515	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73G>C	p.Glu25Gln	p.E25Q	ENST00000295108	2/2	92	68	24	79	79	0	NEUROD1,missense_variant,p.Glu25Gln,ENST00000295108,;AC013733.3,upstream_gene_variant,,ENST00000440371,;CERKL,intron_variant,,ENST00000497337,;NEUROD1,intron_variant,,ENST00000496876,;CERKL,intron_variant,,ENST00000479558,;	G	ENSG00000162992	ENST00000295108	Transcript	missense_variant	531	73	25	E/Q	Gag/Cag	COSM3379954,COSM418973	.	.	-1	NEUROD1	HGNC	7762	protein_coding	YES	CCDS2283.1	ENSP00000295108	NDF1_HUMAN	.	UPI000013E207	.	deleterious(0.04)	benign(0.071)	2/2	.	hmmpanther:PTHR19290:SF88,hmmpanther:PTHR19290,PIRSF_domain:PIRSF015618	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCGTCTG	.	5	BLCA
PDE1A	0	.	GRCh37	2	183095762	183095762	+	Missense_Mutation	SNP	C	C	T	rs775065809	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>A	p.Asp188Asn	p.D188N	ENST00000435564	5/15	180	137	43	182	182	0	PDE1A,missense_variant,p.Asp188Asn,ENST00000456212,;PDE1A,missense_variant,p.Asp172Asn,ENST00000351439,;PDE1A,missense_variant,p.Asp188Asn,ENST00000331935,;PDE1A,missense_variant,p.Asp188Asn,ENST00000410103,;PDE1A,missense_variant,p.Asp188Asn,ENST00000358139,;PDE1A,missense_variant,p.Asp188Asn,ENST00000435564,;PDE1A,missense_variant,p.Asp84Asn,ENST00000536095,;PDE1A,missense_variant,p.Asp154Asn,ENST00000346717,;PDE1A,missense_variant,p.Asp172Asn,ENST00000409365,;PDE1A,non_coding_transcript_exon_variant,,ENST00000482538,;PDE1A,downstream_gene_variant,,ENST00000462938,;PDE1A,downstream_gene_variant,,ENST00000482782,;PDE1A,downstream_gene_variant,,ENST00000495511,;	T	ENSG00000115252	ENST00000435564	Transcript	missense_variant	763	562	188	D/N	Gat/Aat	rs775065809,COSM418969,COSM3574926,COSM3574925,COSM418970,COSM3574924	.	.	-1	PDE1A	HGNC	8774	protein_coding	YES	CCDS2285.1	ENSP00000410309	PDE1A_HUMAN	Q9Y633_HUMAN,Q9Y246_HUMAN,Q9UNL9_HUMAN,Q53TB0_HUMAN,Q53T15_HUMAN,B7Z3A7_HUMAN	UPI0000001072	.	tolerated(0.25)	probably_damaging(0.944)	5/15	.	hmmpanther:PTHR11347:SF34,hmmpanther:PTHR11347,Gene3D:1.10.1300.10,Superfamily_domains:SSF109604	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.D154N|c.460G>A|3,SITE|p.D188N|c.562G>A|4,SITE|p.D188N|c.562G>A|4,SITE|p.D188N|c.562G>A|3,SITE|p.D172N|c.514G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATCATATC	byFrequency	5	BLCA
FAM171B	0	.	GRCh37	2	187626715	187626715	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1646C>T	p.Ser549Phe	p.S549F	ENST00000304698	8/8	75	60	15	54	54	0	FAM171B,missense_variant,p.Ser549Phe,ENST00000304698,;	T	ENSG00000144369	ENST00000304698	Transcript	missense_variant	1849	1646	549	S/F	tCc/tTc	COSM418960	.	.	1	FAM171B	HGNC	29412	protein_coding	YES	CCDS33347.1	ENSP00000304108	F171B_HUMAN	A8K122_HUMAN	UPI0000161631	.	tolerated(0.2)	possibly_damaging(0.562)	8/8	.	Pfam_domain:PF10577,hmmpanther:PTHR31626,hmmpanther:PTHR31626:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCCACAC	.	5	BLCA
FAM171B	0	.	GRCh37	2	187626819	187626819	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1750C>G	p.Gln584Glu	p.Q584E	ENST00000304698	8/8	89	72	17	84	83	1	FAM171B,missense_variant,p.Gln584Glu,ENST00000304698,;	G	ENSG00000144369	ENST00000304698	Transcript	missense_variant	1953	1750	584	Q/E	Cag/Gag	COSM418959	.	.	1	FAM171B	HGNC	29412	protein_coding	YES	CCDS33347.1	ENSP00000304108	F171B_HUMAN	A8K122_HUMAN	UPI0000161631	.	deleterious(0)	probably_damaging(0.996)	8/8	.	Pfam_domain:PF10577,hmmpanther:PTHR31626,hmmpanther:PTHR31626:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACGCAGACC	.	5	BLCA
MYT1L	0	.	GRCh37	2	1914091	1914091	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1732G>C	p.Glu578Gln	p.E578Q	ENST00000428368	13/25	75	69	5	44	44	0	MYT1L,missense_variant,p.Glu580Gln,ENST00000399161,;MYT1L,missense_variant,p.Glu578Gln,ENST00000428368,;MYT1L,missense_variant,p.Glu234Gln,ENST00000602387,;MYT1L,non_coding_transcript_exon_variant,,ENST00000485547,;	G	ENSG00000186487	ENST00000428368	Transcript	missense_variant	2402	1732	578	E/Q	Gag/Cag	COSM418946	.	.	-1	MYT1L	HGNC	7623	protein_coding	YES	CCDS46222.1	ENSP00000396103	MYT1L_HUMAN	.	UPI00004E55EA	.	deleterious(0)	probably_damaging(0.994)	13/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10816:SF11,hmmpanther:PTHR10816,Superfamily_domains:0042508	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCTCTGCTG	.	2	BLCA
ABI2	0	.	GRCh37	2	204291976	204291976	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1329C>G	p.Ile443Met	p.I443M	ENST00000261017	10/10	94	74	20	83	83	0	ABI2,missense_variant,p.Ile481Met,ENST00000417864,;ABI2,missense_variant,p.Ile369Met,ENST00000261016,;ABI2,missense_variant,p.Ile267Met,ENST00000261018,;ABI2,missense_variant,p.Ile481Met,ENST00000295851,;ABI2,missense_variant,p.Ile443Met,ENST00000261017,;ABI2,missense_variant,p.Ile426Met,ENST00000430418,;ABI2,missense_variant,p.Ile475Met,ENST00000424558,;ABI2,missense_variant,p.Ile448Met,ENST00000422511,;ABI2,missense_variant,p.Ile261Met,ENST00000454023,;RAPH1,intron_variant,,ENST00000457812,;ABI2,non_coding_transcript_exon_variant,,ENST00000464761,;ABI2,downstream_gene_variant,,ENST00000416396,;ABI2,3_prime_UTR_variant,,ENST00000441061,;ABI2,3_prime_UTR_variant,,ENST00000416001,;	G	ENSG00000138443	ENST00000261017	Transcript	missense_variant	1564	1329	443	I/M	atC/atG	COSM418904	.	.	1	ABI2	HGNC	24011	protein_coding	YES	CCDS2358.1	ENSP00000261017	ABI2_HUMAN	Q53SH3_HUMAN,Q53RS4_HUMAN,B7ZAM8_HUMAN	UPI0000070712	.	deleterious(0)	probably_damaging(0.99)	10/10	.	PROSITE_profiles:PS50002,hmmpanther:PTHR10460:SF3,hmmpanther:PTHR10460,Pfam_domain:PF14604,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044,Prints_domain:PR00452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCAAGAA	.	5	BLCA
IDH1	0	.	GRCh37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395G>A	p.Arg132His	p.R132H	ENST00000415913	4/10	113	78	35	102	102	0	IDH1,missense_variant,p.Arg132His,ENST00000345146,;IDH1,missense_variant,p.Arg132His,ENST00000415913,;IDH1,missense_variant,p.Arg132His,ENST00000446179,;IDH1,missense_variant,p.Arg132His,ENST00000415282,;IDH1,downstream_gene_variant,,ENST00000451391,;IDH1,downstream_gene_variant,,ENST00000417583,;IDH1,non_coding_transcript_exon_variant,,ENST00000462386,;IDH1,downstream_gene_variant,,ENST00000481557,;	T	ENSG00000138413	ENST00000415913	Transcript	missense_variant	777	395	132	R/H	cGt/cAt	rs121913500,COSM28746,COSM28750	.	.	-1	IDH1	HGNC	5382	protein_coding	YES	CCDS2381.1	ENSP00000390265	IDHC_HUMAN	Q6FHQ6_HUMAN,Q0QER2_HUMAN,C9JLU6_HUMAN,C9JJE5_HUMAN,C9J4N6_HUMAN,B4DXS4_HUMAN	UPI000012D1B4	.	deleterious_low_confidence(0.01)	possibly_damaging(0.813)	4/10	.	Superfamily_domains:SSF53659,PIRSF_domain:PIRSF000108,Pfam_domain:PF00180,Gene3D:3.40.718.10,TIGRFAM_domain:TIGR00127,hmmpanther:PTHR11822	.	.	.	.	.	.	.	.	.	pathogenic	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R132H|c.395G>A|3975,CODON|p.R132H|c.395_396GT>AC|4,CODON|p.R132S|c.394_395CG>TC|6,CODON|p.R132L|c.395G>T|82,BUFFER|p.R132C|c.394C>T|587,BUFFER|p.R132S|c.394C>A|145,BUFFER|p.R132G|c.394C>G|164	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGACGACCT	.	5	BLCA
MAP2	0	.	GRCh37	2	210557605	210557605	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711G>A	p.Met237Ile	p.M237I	ENST00000360351	7/15	142	115	26	134	134	0	MAP2,missense_variant,p.Met233Ile,ENST00000447185,;MAP2,missense_variant,p.Met237Ile,ENST00000360351,;MAP2,missense_variant,p.Met319Ile,ENST00000445941,;MAP2,intron_variant,,ENST00000361559,;MAP2,intron_variant,,ENST00000199940,;MAP2,intron_variant,,ENST00000392194,;MAP2,intron_variant,,ENST00000452717,;MAP2,non_coding_transcript_exon_variant,,ENST00000461253,;MAP2,intron_variant,,ENST00000482864,;MAP2,intron_variant,,ENST00000471619,;MAP2,downstream_gene_variant,,ENST00000481649,;MAP2,upstream_gene_variant,,ENST00000475600,;	A	ENSG00000078018	ENST00000360351	Transcript	missense_variant	1217	711	237	M/I	atG/atA	COSM418885	.	.	1	MAP2	HGNC	6839	protein_coding	YES	CCDS2384.1	ENSP00000353508	MTAP2_HUMAN	A8MZ31_HUMAN	UPI000013D119	.	tolerated_low_confidence(0.78)	benign(0.001)	7/15	.	hmmpanther:PTHR11501:SF15,hmmpanther:PTHR11501	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATGAAACA	.	5	BLCA
FN1	0	.	GRCh37	2	216279496	216279496	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1941+64C>G	.	.	ENST00000354785	.	34	26	8	28	28	0	FN1,3_prime_UTR_variant,,ENST00000426059,;FN1,intron_variant,,ENST00000432072,;FN1,intron_variant,,ENST00000443816,;FN1,intron_variant,,ENST00000345488,;FN1,intron_variant,,ENST00000354785,;FN1,intron_variant,,ENST00000359671,;FN1,intron_variant,,ENST00000357009,;FN1,intron_variant,,ENST00000446046,;FN1,intron_variant,,ENST00000357867,;FN1,intron_variant,,ENST00000421182,;FN1,intron_variant,,ENST00000346544,;FN1,intron_variant,,ENST00000336916,;FN1,intron_variant,,ENST00000323926,;FN1,intron_variant,,ENST00000356005,;FN1,downstream_gene_variant,,ENST00000496542,;FN1,upstream_gene_variant,,ENST00000471193,;	C	ENSG00000115414	ENST00000354785	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FN1	HGNC	3778	protein_coding	YES	CCDS42814.1	ENSP00000346839	FINC_HUMAN	Q9H382_HUMAN,Q7L553_HUMAN,Q53S27_HUMAN,A6YID6_HUMAN	UPI0000E5A2B5	.	.	.	.	13/45	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAAGAAACC	.	5	BLCA
TNS1	0	.	GRCh37	2	218712319	218712319	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2546C>T	p.Ser849Leu	p.S849L	ENST00000171887	17/33	141	101	39	165	165	0	TNS1,missense_variant,p.Ser849Leu,ENST00000171887,;TNS1,missense_variant,p.Ser849Leu,ENST00000430930,;TNS1,missense_variant,p.Ser849Leu,ENST00000419504,;TNS1,downstream_gene_variant,,ENST00000413554,;TNS1,downstream_gene_variant,,ENST00000446903,;TNS1,downstream_gene_variant,,ENST00000480665,;TNS1,downstream_gene_variant,,ENST00000479185,;	A	ENSG00000079308	ENST00000171887	Transcript	missense_variant	2999	2546	849	S/L	tCa/tTa	COSM418873	.	.	-1	TNS1	HGNC	11973	protein_coding	YES	CCDS2407.1	ENSP00000171887	TENS1_HUMAN	Q9UFN8_HUMAN,Q9H757_HUMAN,C9JZT0_HUMAN,C9JI43_HUMAN,C9JFT7_HUMAN	UPI0000456EEB	.	tolerated(0.37)	benign(0)	17/33	.	hmmpanther:PTHR12305,hmmpanther:PTHR12305:SF40	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGTGAGAGC	.	5	BLCA
SGPP2	0	.	GRCh37	2	223389719	223389719	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.615C>T	p.%3D	p.L205L	ENST00000321276	4/5	88	72	16	101	101	0	SGPP2,synonymous_variant,p.%3D,ENST00000321276,;	T	ENSG00000163082	ENST00000321276	Transcript	synonymous_variant	701	615	205	L	ctC/ctT	COSM418851	.	.	1	SGPP2	HGNC	19953	protein_coding	YES	CCDS2453.1	ENSP00000315137	SGPP2_HUMAN	Q53QF5_HUMAN,Q4ZFX2_HUMAN,Q3B870_HUMAN	UPI000004A1E3	.	.	.	4/5	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14969:SF14,hmmpanther:PTHR14969,Gene3D:1.20.144.10,Pfam_domain:PF01569,SMART_domains:SM00014,Superfamily_domains:SSF48317	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCAGCAG	.	5	BLCA
IRS1	0	.	GRCh37	2	227662879	227662879	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.576C>T	p.%3D	p.I192I	ENST00000305123	1/2	97	77	20	104	104	0	IRS1,synonymous_variant,p.%3D,ENST00000305123,;RP11-395N3.2,upstream_gene_variant,,ENST00000607970,;IRS1,upstream_gene_variant,,ENST00000498335,;	A	ENSG00000169047	ENST00000305123	Transcript	synonymous_variant	1597	576	192	I	atC/atT	COSM418846	.	.	-1	IRS1	HGNC	6125	protein_coding	YES	CCDS2463.1	ENSP00000304895	IRS1_HUMAN	.	UPI000003BB52	.	.	.	1/2	.	PROSITE_profiles:PS51064,hmmpanther:PTHR10614:SF11,hmmpanther:PTHR10614,Pfam_domain:PF02174,Gene3D:2.30.29.30,SMART_domains:SM00310,Superfamily_domains:SSF50729,Prints_domain:PR00628	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGATGGT	.	5	BLCA
IRS1	0	.	GRCh37	2	227663125	227663125	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330C>G	p.%3D	p.L110L	ENST00000305123	1/2	165	138	27	157	157	0	IRS1,synonymous_variant,p.%3D,ENST00000305123,;RP11-395N3.2,upstream_gene_variant,,ENST00000607970,;IRS1,upstream_gene_variant,,ENST00000498335,;	C	ENSG00000169047	ENST00000305123	Transcript	synonymous_variant	1351	330	110	L	ctC/ctG	COSM418845	.	.	-1	IRS1	HGNC	6125	protein_coding	YES	CCDS2463.1	ENSP00000304895	IRS1_HUMAN	.	UPI000003BB52	.	.	.	1/2	.	PROSITE_profiles:PS50003,hmmpanther:PTHR10614:SF11,hmmpanther:PTHR10614,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTAGGAGAGC	.	5	BLCA
COL4A4	0	.	GRCh37	2	227886844	227886844	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4136C>A	p.Pro1379Gln	p.P1379Q	ENST00000396625	44/48	408	324	83	394	394	0	COL4A4,missense_variant,p.Pro1376Gln,ENST00000329662,;COL4A4,missense_variant,p.Pro1379Gln,ENST00000396625,;	T	ENSG00000081052	ENST00000396625	Transcript	missense_variant	4344	4136	1379	P/Q	cCa/cAa	COSM418844	.	.	-1	COL4A4	HGNC	2206	protein_coding	YES	CCDS42828.1	ENSP00000379866	CO4A4_HUMAN	.	UPI000013D987	.	.	unknown(0)	44/48	.	hmmpanther:PTHR24021:SF5,hmmpanther:PTHR24021	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGGGATT	.	5	BLCA
COL4A3	0	.	GRCh37	2	228163449	228163449	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3803G>C	p.Gly1268Ala	p.G1268A	ENST00000396578	43/52	100	77	22	103	103	0	COL4A3,missense_variant,p.Gly1268Ala,ENST00000396578,;COL4A3,downstream_gene_variant,,ENST00000304990,;AC097662.2,intron_variant,,ENST00000433324,;AC097662.2,intron_variant,,ENST00000396588,;AC097662.2,intron_variant,,ENST00000439598,;COL4A3,non_coding_transcript_exon_variant,,ENST00000468753,;COL4A3,non_coding_transcript_exon_variant,,ENST00000471862,;	C	ENSG00000169031	ENST00000396578	Transcript	missense_variant	3965	3803	1268	G/A	gGa/gCa	COSM418840,COSM418841	.	.	1	COL4A3	HGNC	2204	protein_coding	YES	CCDS42829.1	ENSP00000379823	CO4A3_HUMAN	Q548X1_HUMAN,A9QVI3_HUMAN	UPI000013E9F3	.	.	unknown(0)	43/52	.	hmmpanther:PTHR24023:SF417,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAGGAGACA	.	5	BLCA
TRIP12	0	.	GRCh37	2	230656622	230656622	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4150C>T	p.%3D	p.L1384L	ENST00000283943	28/41	283	220	63	312	312	0	TRIP12,synonymous_variant,p.%3D,ENST00000283943,;TRIP12,synonymous_variant,p.%3D,ENST00000389045,;TRIP12,synonymous_variant,p.%3D,ENST00000389044,;TRIP12,downstream_gene_variant,,ENST00000543084,;TRIP12,non_coding_transcript_exon_variant,,ENST00000470302,;TRIP12,downstream_gene_variant,,ENST00000461189,;TRIP12,downstream_gene_variant,,ENST00000495322,;	A	ENSG00000153827	ENST00000283943	Transcript	synonymous_variant	4329	4150	1384	L	Cta/Tta	COSM418834,COSM4128193	.	.	-1	TRIP12	HGNC	12306	protein_coding	YES	CCDS33391.1	ENSP00000283943	TRIPC_HUMAN	Q57Z94_HUMAN,F8W9P3_HUMAN,C9JSX9_HUMAN,C9JLJ5_HUMAN	UPI000013739D	.	.	.	28/41	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF73	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTAGAGGAT	.	5	BLCA
ARMC9	0	.	GRCh37	2	232141419	232141419	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1405G>A	p.Asp469Asn	p.D469N	ENST00000349938	15/21	220	171	48	204	204	0	ARMC9,missense_variant,p.Asp111Asn,ENST00000446447,;ARMC9,missense_variant,p.Asp469Asn,ENST00000349938,;ARMC9,missense_variant,p.Asp172Asn,ENST00000424740,;ARMC9,missense_variant,p.Asp186Asn,ENST00000436339,;ARMC9,non_coding_transcript_exon_variant,,ENST00000483477,;ARMC9,missense_variant,p.Asp97Asn,ENST00000428662,;ARMC9,non_coding_transcript_exon_variant,,ENST00000481520,;ARMC9,non_coding_transcript_exon_variant,,ENST00000467698,;	A	ENSG00000135931	ENST00000349938	Transcript	missense_variant	1599	1405	469	D/N	Gac/Aac	COSM418828,COSM418829	.	.	1	ARMC9	HGNC	20730	protein_coding	YES	CCDS2484.1	ENSP00000258417	ARMC9_HUMAN	C9JW07_HUMAN	UPI00001AE7AC	.	deleterious(0.03)	possibly_damaging(0.785)	15/21	.	hmmpanther:PTHR14881,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGACTGC	.	5	BLCA
ARMC9	0	.	GRCh37	2	232141443	232141443	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1429G>A	p.Glu477Lys	p.E477K	ENST00000349938	15/21	192	152	40	179	179	0	ARMC9,missense_variant,p.Glu119Lys,ENST00000446447,;ARMC9,missense_variant,p.Glu477Lys,ENST00000349938,;ARMC9,missense_variant,p.Glu180Lys,ENST00000424740,;ARMC9,missense_variant,p.Glu194Lys,ENST00000436339,;ARMC9,non_coding_transcript_exon_variant,,ENST00000483477,;ARMC9,missense_variant,p.Glu105Lys,ENST00000428662,;ARMC9,non_coding_transcript_exon_variant,,ENST00000481520,;ARMC9,non_coding_transcript_exon_variant,,ENST00000467698,;	A	ENSG00000135931	ENST00000349938	Transcript	missense_variant	1623	1429	477	E/K	Gag/Aag	COSM418826,COSM418827	.	.	1	ARMC9	HGNC	20730	protein_coding	YES	CCDS2484.1	ENSP00000258417	ARMC9_HUMAN	C9JW07_HUMAN	UPI00001AE7AC	.	deleterious(0)	probably_damaging(0.943)	15/21	.	hmmpanther:PTHR14881,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTGGAGTAC	.	5	BLCA
HDAC4	0	.	GRCh37	2	240061422	240061422	+	Silent	SNP	C	C	T	rs138989369	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.936G>A	p.%3D	p.A312A	ENST00000345617	9/27	175	131	43	178	178	0	HDAC4,synonymous_variant,p.%3D,ENST00000541256,;HDAC4,synonymous_variant,p.%3D,ENST00000445704,;HDAC4,synonymous_variant,p.%3D,ENST00000345617,;HDAC4,5_prime_UTR_variant,,ENST00000543185,;HDAC4,non_coding_transcript_exon_variant,,ENST00000553145,;HDAC4,non_coding_transcript_exon_variant,,ENST00000535493,;HDAC4,non_coding_transcript_exon_variant,,ENST00000463007,;HDAC4,non_coding_transcript_exon_variant,,ENST00000493582,;HDAC4,non_coding_transcript_exon_variant,,ENST00000461113,;	T	ENSG00000068024	ENST00000345617	Transcript	synonymous_variant	1728	936	312	A	gcG/gcA	rs138989369,COSM418801,COSM3798807	.	.	-1	HDAC4	HGNC	14063	protein_coding	YES	CCDS2529.1	ENSP00000264606	HDAC4_HUMAN	Q53SM2_HUMAN,Q53SB4_HUMAN,F5H0B1_HUMAN,F5GX36_HUMAN,C9J0X4_HUMAN	UPI000013D541	.	.	.	9/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10625:SF100,hmmpanther:PTHR10625,PIRSF_domain:PIRSF037911	T:0.0008	T:0.0015	T:0	.	T:0.002	T:0	T:0	T:0.0011	T:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCCGCGCT	byFrequency|byCluster|by1000G	5	BLCA
MTERFD2	0	.	GRCh37	2	242039257	242039257	+	Missense_Mutation	SNP	T	T	C	rs753490758	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.74A>G	p.Gln25Arg	p.Q25R	ENST00000391980	2/4	44	30	13	47	47	0	MTERFD2,missense_variant,p.Gln25Arg,ENST00000407095,;MTERFD2,missense_variant,p.Gln4Arg,ENST00000434791,;MTERFD2,missense_variant,p.Gln18Arg,ENST00000424798,;MTERFD2,missense_variant,p.Gln25Arg,ENST00000495694,;MTERFD2,missense_variant,p.Gln25Arg,ENST00000401626,;MTERFD2,missense_variant,p.Gln25Arg,ENST00000391980,;MTERFD2,intron_variant,,ENST00000439144,;MTERFD2,intron_variant,,ENST00000406593,;SNED1,downstream_gene_variant,,ENST00000405547,;MTERFD2,upstream_gene_variant,,ENST00000414146,;SNED1,downstream_gene_variant,,ENST00000310397,;MTERFD2,intron_variant,,ENST00000480298,;MTERFD2,intron_variant,,ENST00000455202,;MTERFD2,intron_variant,,ENST00000464344,;MTERFD2,intron_variant,,ENST00000493169,;MTERFD2,upstream_gene_variant,,ENST00000488567,;MTERFD2,missense_variant,p.Gln25Arg,ENST00000241527,;MTERFD2,non_coding_transcript_exon_variant,,ENST00000475860,;MTERFD2,intron_variant,,ENST00000460915,;MTERFD2,intron_variant,,ENST00000476564,;MTERFD2,upstream_gene_variant,,ENST00000496878,;	C	ENSG00000122085	ENST00000391980	Transcript	missense_variant	133	74	25	Q/R	cAg/cGg	rs753490758,COSM418789	.	.	-1	MTERFD2	HGNC	28785	protein_coding	YES	CCDS2544.1	ENSP00000375840	MTER2_HUMAN	C9JX74_HUMAN,B4DFP7_HUMAN	UPI0000209875	.	tolerated(0.49)	benign(0.007)	2/4	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTCTGCCTA	.	5	BLCA
D2HGDH	0	.	GRCh37	2	242707248	242707248	+	Missense_Mutation	SNP	G	G	C	rs565397135	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1430G>C	p.Gly477Ala	p.G477A	ENST00000321264	10/10	21	16	5	28	28	0	D2HGDH,missense_variant,p.Gly276Ala,ENST00000445308,;D2HGDH,missense_variant,p.Gly477Ala,ENST00000321264,;D2HGDH,missense_variant,p.Gly343Ala,ENST00000403782,;D2HGDH,non_coding_transcript_exon_variant,,ENST00000486953,;D2HGDH,3_prime_UTR_variant,,ENST00000400769,;D2HGDH,3_prime_UTR_variant,,ENST00000436747,;D2HGDH,non_coding_transcript_exon_variant,,ENST00000473126,;D2HGDH,non_coding_transcript_exon_variant,,ENST00000470343,;D2HGDH,non_coding_transcript_exon_variant,,ENST00000468064,;	C	ENSG00000180902	ENST00000321264	Transcript	missense_variant	1639	1430	477	G/A	gGa/gCa	rs565397135,COSM418780	.	.	1	D2HGDH	HGNC	28358	protein_coding	YES	CCDS33426.1	ENSP00000315351	D2HDH_HUMAN	B5MCV2_HUMAN,B3KP72_HUMAN	UPI0000456F51	.	deleterious(0)	probably_damaging(0.999)	10/10	.	hmmpanther:PTHR11748,hmmpanther:PTHR11748:SF35,Gene3D:1.10.45.10,Pfam_domain:PF02913,Superfamily_domains:SSF55103	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACGGAGTGG	by1000G	5	BLCA
TP53I3	0	.	GRCh37	2	24300523	24300523	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925G>A	p.Glu309Lys	p.E309K	ENST00000238721	5/5	161	100	61	126	126	0	TP53I3,missense_variant,p.Arg243Gln,ENST00000313482,;TP53I3,missense_variant,p.Glu309Lys,ENST00000238721,;TP53I3,missense_variant,p.Glu309Lys,ENST00000335934,;TP53I3,missense_variant,p.Arg243Gln,ENST00000407482,;SF3B14,upstream_gene_variant,,ENST00000233468,;TP53I3,downstream_gene_variant,,ENST00000413037,;FAM228B,intron_variant,,ENST00000461972,;FAM228B,intron_variant,,ENST00000468799,;FAM228B,intron_variant,,ENST00000469867,;FAM228B,intron_variant,,ENST00000486967,;TP53I3,downstream_gene_variant,,ENST00000417886,;FAM228B,upstream_gene_variant,,ENST00000460686,;SF3B14,upstream_gene_variant,,ENST00000478050,;	T	ENSG00000115129	ENST00000238721	Transcript	missense_variant	1780	925	309	E/K	Gaa/Aaa	COSM418779	.	.	-1	TP53I3	HGNC	19373	protein_coding	YES	CCDS1708.1	ENSP00000238721	QORX_HUMAN	.	UPI000006D860	.	tolerated(0.17)	benign(0.003)	5/5	.	hmmpanther:PTHR11695,hmmpanther:PTHR11695:SF28,TIGRFAM_domain:TIGR02824,SMART_domains:SM00829	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCGGTCA	.	5	BLCA
CENPO	0	.	GRCh37	2	25042689	25042689	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*502C>G	.	.	ENST00000380834	8/8	10	7	3	12	12	0	CENPO,3_prime_UTR_variant,,ENST00000260662,;ADCY3,3_prime_UTR_variant,,ENST00000260600,;CENPO,3_prime_UTR_variant,,ENST00000380834,;ADCY3,3_prime_UTR_variant,,ENST00000498288,;CENPO,3_prime_UTR_variant,,ENST00000473706,;ADCY3,3_prime_UTR_variant,,ENST00000606682,;ADCY3,3_prime_UTR_variant,,ENST00000405392,;CENPO,non_coding_transcript_exon_variant,,ENST00000395845,;CENPO,downstream_gene_variant,,ENST00000498362,;CENPO,downstream_gene_variant,,ENST00000464156,;ADCY3,downstream_gene_variant,,ENST00000485887,;CENPO,downstream_gene_variant,,ENST00000491031,;	G	ENSG00000138092	ENST00000380834	Transcript	3_prime_UTR_variant	1830	.	.	.	.	.	.	.	1	CENPO	HGNC	28152	protein_coding	YES	CCDS1714.1	ENSP00000370214	CENPO_HUMAN	.	UPI000006F5F6	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTTTCTAAAC	.	2	BLCA
DNMT3A	0	.	GRCh37	2	25457063	25457063	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*85G>A	.	.	ENST00000264709	23/23	55	39	16	39	39	0	DNMT3A,3_prime_UTR_variant,,ENST00000321117,;DNMT3A,3_prime_UTR_variant,,ENST00000380746,;DNMT3A,3_prime_UTR_variant,,ENST00000264709,;DNMT3A,downstream_gene_variant,,ENST00000402667,;DNMT3A,downstream_gene_variant,,ENST00000491288,;DNMT3A,downstream_gene_variant,,ENST00000482935,;DNMT3A,downstream_gene_variant,,ENST00000461228,;DNMT3A,downstream_gene_variant,,ENST00000474887,;DNMT3A,3_prime_UTR_variant,,ENST00000380756,;DNMT3A,downstream_gene_variant,,ENST00000466601,;	T	ENSG00000119772	ENST00000264709	Transcript	3_prime_UTR_variant	3162	.	.	.	.	.	.	.	-1	DNMT3A	HGNC	2978	protein_coding	YES	CCDS33157.1	ENSP00000264709	DNM3A_HUMAN	Q8WVA9_HUMAN,Q6PJ37_HUMAN	UPI000000DA70	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCATGTT	.	5	BLCA
ASXL2	0	.	GRCh37	2	25976464	25976464	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1081G>C	p.Glu361Gln	p.E361Q	ENST00000435504	11/13	328	266	62	256	256	0	ASXL2,missense_variant,p.Glu101Gln,ENST00000272341,;ASXL2,missense_variant,p.Glu333Gln,ENST00000336112,;ASXL2,missense_variant,p.Glu101Gln,ENST00000404843,;ASXL2,missense_variant,p.Glu361Gln,ENST00000435504,;	G	ENSG00000143970	ENST00000435504	Transcript	missense_variant	1375	1081	361	E/Q	Gag/Cag	COSM418773,COSM3839188,COSM3839187,COSM418772	.	.	-1	ASXL2	HGNC	23805	protein_coding	YES	.	ENSP00000391447	ASXL2_HUMAN	.	UPI00001DFBE8	.	deleterious(0)	probably_damaging(1)	11/13	.	hmmpanther:PTHR13578:SF11,hmmpanther:PTHR13578,Pfam_domain:PF13919	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAATCT	.	5	BLCA
C2orf16	0	.	GRCh37	2	27801442	27801442	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2003C>T	p.Ser668Phe	p.S668F	ENST00000408964	1/1	188	111	76	130	130	0	C2orf16,missense_variant,p.Ser668Phe,ENST00000408964,;ZNF512,upstream_gene_variant,,ENST00000355467,;ZNF512,upstream_gene_variant,,ENST00000379717,;ZNF512,upstream_gene_variant,,ENST00000416005,;ZNF512,upstream_gene_variant,,ENST00000413371,;ZNF512,upstream_gene_variant,,ENST00000556601,;AC074091.1,downstream_gene_variant,,ENST00000408604,;RP11-158I13.2,upstream_gene_variant,,ENST00000505973,;ZNF512,upstream_gene_variant,,ENST00000494548,;ZNF512,upstream_gene_variant,,ENST00000461705,;	T	ENSG00000221843	ENST00000408964	Transcript	missense_variant	2054	2003	668	S/F	tCt/tTt	COSM419208,COSM419207	.	.	1	C2orf16	HGNC	25275	protein_coding	YES	CCDS42666.1	ENSP00000386190	CB016_HUMAN	.	UPI0000D61179	.	tolerated(0.29)	benign(0.3)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCTCCAT	.	5	BLCA
FOSL2	0	.	GRCh37	2	28616622	28616622	+	Missense_Mutation	SNP	C	C	G	rs768147671	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.35C>G	p.Ser12Trp	p.S12W	ENST00000264716	1/4	19	11	7	20	20	0	FOSL2,missense_variant,p.Ser12Trp,ENST00000264716,;FOSL2,intron_variant,,ENST00000379619,;FOSL2,upstream_gene_variant,,ENST00000436647,;FOSL2,upstream_gene_variant,,ENST00000545753,;AC104695.3,intron_variant,,ENST00000445878,;AC104695.3,intron_variant,,ENST00000427929,;RP11-373D23.2,upstream_gene_variant,,ENST00000604052,;FOSL2,intron_variant,,ENST00000460736,;	G	ENSG00000075426	ENST00000264716	Transcript	missense_variant	898	35	12	S/W	tCg/tGg	rs768147671,COSM419204	.	.	1	FOSL2	HGNC	3798	protein_coding	YES	CCDS1766.1	ENSP00000264716	FOSL2_HUMAN	C9JCN8_HUMAN	UPI000004F8AB	.	deleterious(0)	probably_damaging(0.999)	1/4	.	hmmpanther:PTHR23351:SF25,hmmpanther:PTHR23351	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCGTCCC	.	5	BLCA
SRD5A2	0	.	GRCh37	2	31805994	31805994	+	RNA	SNP	C	C	T	rs749498100	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.143G>A	.	.	ENST00000405650	1/5	26	22	4	33	33	0	SRD5A2,non_coding_transcript_exon_variant,,ENST00000405650,;SRD5A2,upstream_gene_variant,,ENST00000233139,;	T	ENSG00000049319	ENST00000405650	Transcript	non_coding_transcript_exon_variant	143	.	.	.	.	rs749498100	.	.	-1	SRD5A2	HGNC	11285	processed_transcript	YES	.	.	.	.	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGCCGCTGC	byFrequency	2	BLCA
GPATCH11	0	.	GRCh37	2	37319356	37319356	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486C>G	p.%3D	p.L162L	ENST00000608836	6/9	14	11	3	11	11	0	GPATCH11,synonymous_variant,p.%3D,ENST00000409774,;GPATCH11,synonymous_variant,p.%3D,ENST00000608836,;GPATCH11,synonymous_variant,p.%3D,ENST00000281932,;GPATCH11,non_coding_transcript_exon_variant,,ENST00000473067,;	G	ENSG00000152133	ENST00000608836	Transcript	synonymous_variant	631	486	162	L	ctC/ctG	COSM419173,COSM419174	.	.	1	GPATCH11	HGNC	26768	protein_coding	YES	.	ENSP00000476383	.	.	UPI00004217C9	.	.	.	6/9	.	hmmpanther:PTHR21032	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATCTCAGAAG	.	2	BLCA
SOS1	0	.	GRCh37	2	39213087	39213087	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3880C>G	p.Pro1294Ala	p.P1294A	ENST00000426016	24/24	320	219	100	198	198	0	SOS1,missense_variant,p.Pro1279Ala,ENST00000395038,;SOS1,missense_variant,p.Pro1294Ala,ENST00000426016,;SOS1,missense_variant,p.Pro1294Ala,ENST00000402219,;SOS1,downstream_gene_variant,,ENST00000469581,;	C	ENSG00000115904	ENST00000426016	Transcript	missense_variant	3967	3880	1294	P/A	Cca/Gca	COSM419170	.	.	-1	SOS1	HGNC	11187	protein_coding	YES	CCDS1802.1	ENSP00000387784	SOS1_HUMAN	Q9UKX9_HUMAN,Q53SF8_HUMAN,C9K0N6_HUMAN	UPI0000135CF0	.	deleterious_low_confidence(0.03)	probably_damaging(0.956)	24/24	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGTGGAGGAA	.	5	BLCA
FOXN2	0	.	GRCh37	2	48573348	48573348	+	5'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6G>C	.	.	ENST00000340553	3/7	218	193	25	155	155	0	FOXN2,5_prime_UTR_variant,,ENST00000413569,;FOXN2,5_prime_UTR_variant,,ENST00000340553,;	C	ENSG00000170802	ENST00000340553	Transcript	5_prime_UTR_variant	256	.	.	.	.	.	.	.	1	FOXN2	HGNC	5281	protein_coding	YES	CCDS1838.1	ENSP00000343633	FOXN2_HUMAN	Q6IS90_HUMAN,C9JTA7_HUMAN	UPI0000226321	.	.	.	3/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTAAGAGTAA	.	4	BLCA
PSME4	0	.	GRCh37	2	54146384	54146384	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2421-1G>C	.	p.X807_splice	ENST00000404125	.	50	42	8	44	44	0	PSME4,splice_acceptor_variant,,ENST00000404125,;PSME4,intron_variant,,ENST00000421748,;PSME4,splice_acceptor_variant,,ENST00000389993,;	G	ENSG00000068878	ENST00000404125	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	PSME4	HGNC	20635	protein_coding	YES	CCDS33197.2	ENSP00000384211	PSME4_HUMAN	.	UPI0000F3BE4A	.	.	.	.	19/46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CATCTCTAGAA	.	2	BLCA
ALMS1	0	.	GRCh37	2	73677000	73677000	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3343C>G	p.Leu1115Val	p.L1115V	ENST00000264448	8/23	327	243	83	264	264	0	ALMS1,missense_variant,p.Leu1115Val,ENST00000377715,;ALMS1,missense_variant,p.Leu1073Val,ENST00000409009,;ALMS1,missense_variant,p.Leu1115Val,ENST00000264448,;ALMS1,upstream_gene_variant,,ENST00000484298,;ALMS1,upstream_gene_variant,,ENST00000423048,;	G	ENSG00000116127	ENST00000264448	Transcript	missense_variant	3454	3343	1115	L/V	Ctg/Gtg	COSM419114	.	.	1	ALMS1	HGNC	428	protein_coding	YES	CCDS42697.1	ENSP00000264448	ALMS1_HUMAN	A6NMY3_HUMAN	UPI0000212786	.	.	possibly_damaging(0.55)	8/23	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCTGCCT	.	5	BLCA
MOGS	0	.	GRCh37	2	74689052	74689052	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1864G>A	p.Glu622Lys	p.E622K	ENST00000233616	4/4	96	78	17	126	125	1	MOGS,missense_variant,p.Glu622Lys,ENST00000233616,;MOGS,missense_variant,p.Glu516Lys,ENST00000452063,;MOGS,3_prime_UTR_variant,,ENST00000409065,;WBP1,downstream_gene_variant,,ENST00000393972,;MOGS,downstream_gene_variant,,ENST00000414701,;MOGS,downstream_gene_variant,,ENST00000535045,;MOGS,downstream_gene_variant,,ENST00000448666,;INO80B,downstream_gene_variant,,ENST00000409493,;INO80B,downstream_gene_variant,,ENST00000233331,;WBP1,downstream_gene_variant,,ENST00000233615,;WBP1,downstream_gene_variant,,ENST00000428943,;WBP1,downstream_gene_variant,,ENST00000409737,;INO80B,downstream_gene_variant,,ENST00000431187,;INO80B,downstream_gene_variant,,ENST00000409917,;MOGS,downstream_gene_variant,,ENST00000462443,;WBP1,downstream_gene_variant,,ENST00000474185,;WBP1,downstream_gene_variant,,ENST00000466835,;WBP1,downstream_gene_variant,,ENST00000494741,;MOGS,downstream_gene_variant,,ENST00000489655,;WBP1,downstream_gene_variant,,ENST00000464774,;INO80B,downstream_gene_variant,,ENST00000494986,;INO80B,downstream_gene_variant,,ENST00000469849,;WBP1,downstream_gene_variant,,ENST00000470536,;MOGS,non_coding_transcript_exon_variant,,ENST00000462189,;WBP1,downstream_gene_variant,,ENST00000490120,;INO80B,downstream_gene_variant,,ENST00000473618,;INO80B,downstream_gene_variant,,ENST00000455562,;MOGS,downstream_gene_variant,,ENST00000486036,;WBP1,downstream_gene_variant,,ENST00000484744,;WBP1,downstream_gene_variant,,ENST00000466303,;INO80B,downstream_gene_variant,,ENST00000471577,;INO80B,downstream_gene_variant,,ENST00000452361,;INO80B,downstream_gene_variant,,ENST00000441673,;WBP1,downstream_gene_variant,,ENST00000492047,;WBP1,downstream_gene_variant,,ENST00000473467,;	T	ENSG00000115275	ENST00000233616	Transcript	missense_variant	2027	1864	622	E/K	Gag/Aag	COSM419106	.	.	-1	MOGS	HGNC	24862	protein_coding	YES	CCDS42700.1	ENSP00000233616	MOGS_HUMAN	C9JDQ1_HUMAN,C9J8D4_HUMAN	UPI000006FEFF	.	tolerated(0.19)	benign(0.002)	4/4	.	hmmpanther:PTHR10412:SF1,hmmpanther:PTHR10412,Pfam_domain:PF03200,Superfamily_domains:SSF48208	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAGCCT	.	5	BLCA
MRPL53	0	.	GRCh37	2	74699205	74699205	+	3'UTR	SNP	T	T	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*41A>C	.	.	ENST00000258105	3/3	102	81	20	106	106	0	MRPL53,3_prime_UTR_variant,,ENST00000258105,;MRPL53,3_prime_UTR_variant,,ENST00000409710,;CCDC142,downstream_gene_variant,,ENST00000393965,;CCDC142,downstream_gene_variant,,ENST00000290418,;CCDC142,3_prime_UTR_variant,,ENST00000454193,;MRPL53,non_coding_transcript_exon_variant,,ENST00000468875,;MRPL53,non_coding_transcript_exon_variant,,ENST00000467349,;CCDC142,downstream_gene_variant,,ENST00000497232,;CCDC142,downstream_gene_variant,,ENST00000473278,;CCDC142,downstream_gene_variant,,ENST00000486335,;	G	ENSG00000204822	ENST00000258105	Transcript	3_prime_UTR_variant	1042	.	.	.	.	.	.	.	-1	MRPL53	HGNC	16684	protein_coding	YES	CCDS1944.1	ENSP00000258105	RM53_HUMAN	.	UPI000006ED10	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCCTAGTCC	.	4	BLCA
MRPL53	0	.	GRCh37	2	74699247	74699247	+	Nonstop_Mutation	SNP	C	C	A	rs779678862	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338G>T	p.Ter113LeuextTer14	p.*113Lext*14	ENST00000258105	3/3	119	92	27	132	132	0	MRPL53,stop_lost,p.Ter113LeuextTer14,ENST00000258105,;MRPL53,3_prime_UTR_variant,,ENST00000409710,;CCDC142,downstream_gene_variant,,ENST00000393965,;CCDC142,downstream_gene_variant,,ENST00000290418,;CCDC142,3_prime_UTR_variant,,ENST00000454193,;MRPL53,non_coding_transcript_exon_variant,,ENST00000468875,;MRPL53,non_coding_transcript_exon_variant,,ENST00000467349,;CCDC142,downstream_gene_variant,,ENST00000497232,;CCDC142,downstream_gene_variant,,ENST00000473278,;CCDC142,downstream_gene_variant,,ENST00000486335,;	A	ENSG00000204822	ENST00000258105	Transcript	stop_lost	1000	338	113	*/L	tGa/tTa	rs779678862,COSM419104	.	.	-1	MRPL53	HGNC	16684	protein_coding	YES	CCDS1944.1	ENSP00000258105	RM53_HUMAN	.	UPI000006ED10	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTCAGCGA	.	5	BLCA
HK2	0	.	GRCh37	2	75061718	75061718	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11C>G	p.Ser4Trp	p.S4W	ENST00000290573	1/18	73	56	17	60	60	0	HK2,missense_variant,p.Ser4Trp,ENST00000290573,;HK2,upstream_gene_variant,,ENST00000409174,;RP11-259N19.1,upstream_gene_variant,,ENST00000610008,;	G	ENSG00000159399	ENST00000290573	Transcript	missense_variant	611	11	4	S/W	tCg/tGg	COSM419099,COSM575988	.	.	1	HK2	HGNC	4923	protein_coding	YES	CCDS1956.1	ENSP00000290573	HXK2_HUMAN	Q7Z7Q6_HUMAN,Q53SG7_HUMAN,Q53QX9_HUMAN,Q09LL6_HUMAN,E9PB90_HUMAN	UPI00000706E4	.	tolerated_low_confidence(0.1)	benign(0.435)	1/18	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCGCATC	.	5	BLCA
IGKV2D-24	0	.	GRCh37	2	90044319	90044319	+	Missense_Mutation	SNP	C	C	G	rs768500058	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240C>G	p.Phe80Leu	p.F80L	ENST00000462693	2/2	272	215	57	278	278	0	IGKV2D-24,missense_variant,p.Phe80Leu,ENST00000462693,;IGKV2D-23,upstream_gene_variant,,ENST00000518179,;	G	ENSG00000241566	ENST00000462693	Transcript	missense_variant	270	240	80	F/L	ttC/ttG	rs768500058	.	.	1	IGKV2D-24	HGNC	5797	IG_V_gene	YES	.	ENSP00000417136	.	.	UPI0000176EBA	.	tolerated(0.65)	benign(0.002)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF128,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTTCTCTGG	byFrequency	5	BLCA
PROM2	0	.	GRCh37	2	95941808	95941808	+	Missense_Mutation	SNP	C	C	A	rs147971761	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.425C>A	p.Thr142Lys	p.T142K	ENST00000317620	3/24	52	42	9	55	55	0	PROM2,missense_variant,p.Thr142Lys,ENST00000317620,;PROM2,missense_variant,p.Thr142Lys,ENST00000542147,;PROM2,missense_variant,p.Thr142Lys,ENST00000403131,;PROM2,missense_variant,p.Thr142Lys,ENST00000317668,;PROM2,non_coding_transcript_exon_variant,,ENST00000477767,;PROM2,intron_variant,,ENST00000463580,;PROM2,upstream_gene_variant,,ENST00000497110,;PROM2,missense_variant,p.Asp162Glu,ENST00000431567,;PROM2,non_coding_transcript_exon_variant,,ENST00000487138,;PROM2,upstream_gene_variant,,ENST00000478295,;	A	ENSG00000155066	ENST00000317620	Transcript	missense_variant	558	425	142	T/K	aCa/aAa	rs147971761,COSM419067	.	.	1	PROM2	HGNC	20685	protein_coding	YES	CCDS2012.1	ENSP00000318270	PROM2_HUMAN	.	UPI0000071157	.	tolerated(0.45)	possibly_damaging(0.841)	3/24	.	Pfam_domain:PF05478,hmmpanther:PTHR22730:SF6,hmmpanther:PTHR22730	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGACAGAGC	byCluster|by1000G	5	BLCA
ANKRD36C	0	.	GRCh37	2	96587533	96587533	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2169G>A	p.%3D	p.L723L	ENST00000456556	33/67	27	22	5	23	23	0	ANKRD36C,synonymous_variant,p.%3D,ENST00000456556,;ANKRD36C,5_prime_UTR_variant,,ENST00000419039,;ANKRD36C,5_prime_UTR_variant,,ENST00000295246,;ANKRD36C,5_prime_UTR_variant,,ENST00000420871,;ANKRD36C,3_prime_UTR_variant,,ENST00000534304,;	T	ENSG00000174501	ENST00000456556	Transcript	synonymous_variant	2254	2169	723	L	ttG/ttA	COSM419066	.	.	-1	ANKRD36C	HGNC	32946	protein_coding	.	.	ENSP00000403302	AN36C_HUMAN	I1Z9D5_HUMAN,I1Z9D4_HUMAN,I1Z9D3_HUMAN,I1Z9D2_HUMAN	UPI00016620F5	.	.	.	33/67	.	hmmpanther:PTHR24176:SF1,hmmpanther:PTHR24176	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCAAGGC	.	4	BLCA
SNRNP200	0	.	GRCh37	2	96952861	96952861	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3522C>T	p.%3D	p.I1174I	ENST00000323853	27/45	228	169	59	215	215	0	SNRNP200,synonymous_variant,p.%3D,ENST00000323853,;SNRNP200,intron_variant,,ENST00000349783,;SNRNP200,non_coding_transcript_exon_variant,,ENST00000480615,;SNRNP200,upstream_gene_variant,,ENST00000480242,;SNRNP200,upstream_gene_variant,,ENST00000429650,;SNRNP200,upstream_gene_variant,,ENST00000497539,;	A	ENSG00000144028	ENST00000323853	Transcript	synonymous_variant	3600	3522	1174	I	atC/atT	COSM419065	.	.	-1	SNRNP200	HGNC	30859	protein_coding	YES	CCDS2020.1	ENSP00000317123	U520_HUMAN	Q9P172_HUMAN,Q7L5W4_HUMAN,Q5ZF01_HUMAN,A4FU77_HUMAN,A2RRQ7_HUMAN	UPI0000207C53	.	.	.	27/45	.	hmmpanther:PTHR11752:SF55,hmmpanther:PTHR11752,Pfam_domain:PF02889,SMART_domains:SM00973,SMART_domains:SM00611,Superfamily_domains:SSF158702	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTGGATGGT	.	5	BLCA
CNNM3	0	.	GRCh37	2	97494773	97494773	+	Missense_Mutation	SNP	G	G	A	rs149301704	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1961G>A	p.Arg654Gln	p.R654Q	ENST00000305510	7/8	71	46	25	73	73	0	CNNM3,missense_variant,p.Arg654Gln,ENST00000305510,;CNNM3,missense_variant,p.Arg606Gln,ENST00000377060,;CNNM3,non_coding_transcript_exon_variant,,ENST00000480035,;ANKRD23,intron_variant,,ENST00000476975,;CNNM3,non_coding_transcript_exon_variant,,ENST00000465224,;CNNM3,downstream_gene_variant,,ENST00000494595,;	A	ENSG00000168763	ENST00000305510	Transcript	missense_variant	1989	1961	654	R/Q	cGa/cAa	rs149301704,COSM419057	.	.	1	CNNM3	HGNC	104	protein_coding	YES	CCDS2025.1	ENSP00000305449	CNNM3_HUMAN	.	UPI000006CEA7	.	tolerated(0.08)	benign(0.088)	7/8	.	hmmpanther:PTHR12064,hmmpanther:PTHR12064:SF27	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCCGAGCCC	byCluster	5	BLCA
FANCD2	0	.	GRCh37	3	10089620	10089620	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1298C>T	p.Ser433Leu	p.S433L	ENST00000287647	16/43	364	311	53	317	316	0	FANCD2,missense_variant,p.Ser433Leu,ENST00000419585,;FANCD2,missense_variant,p.Ser433Leu,ENST00000383806,;FANCD2,missense_variant,p.Ser433Leu,ENST00000383807,;FANCD2,missense_variant,p.Ser433Leu,ENST00000287647,;FANCD2,non_coding_transcript_exon_variant,,ENST00000483276,;FANCD2,non_coding_transcript_exon_variant,,ENST00000464934,;FANCD2,upstream_gene_variant,,ENST00000421731,;	T	ENSG00000144554	ENST00000287647	Transcript	missense_variant	1391	1298	433	S/L	tCa/tTa	COSM419482,COSM1133669	.	.	1	FANCD2	HGNC	3585	protein_coding	YES	CCDS2595.1	ENSP00000287647	FACD2_HUMAN	.	UPI000006F678	.	tolerated(0.05)	benign(0.008)	16/43	.	hmmpanther:PTHR32086,Pfam_domain:PF14631	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGTTCATCCA	.	4	BLCA
FANCD2	0	.	GRCh37	3	10091133	10091133	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489C>G	p.Leu497Val	p.L497V	ENST00000287647	17/43	341	268	72	313	313	0	FANCD2,missense_variant,p.Leu497Val,ENST00000419585,;FANCD2,missense_variant,p.Leu497Val,ENST00000383806,;FANCD2,missense_variant,p.Leu497Val,ENST00000383807,;FANCD2,missense_variant,p.Leu497Val,ENST00000287647,;FANCD2,downstream_gene_variant,,ENST00000483276,;FANCD2,non_coding_transcript_exon_variant,,ENST00000464934,;FANCD2,upstream_gene_variant,,ENST00000421731,;	G	ENSG00000144554	ENST00000287647	Transcript	missense_variant	1582	1489	497	L/V	Cta/Gta	COSM419481,COSM1133670	.	.	1	FANCD2	HGNC	3585	protein_coding	YES	CCDS2595.1	ENSP00000287647	FACD2_HUMAN	.	UPI000006F678	.	tolerated(0.28)	benign(0.149)	17/43	.	hmmpanther:PTHR32086,Pfam_domain:PF14631	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCTAGAG	.	5	BLCA
ZBTB11	0	.	GRCh37	3	101390113	101390113	+	Silent	SNP	G	G	A	rs773261825	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639C>T	p.%3D	p.F213F	ENST00000312938	3/11	254	219	35	153	153	0	ZBTB11,synonymous_variant,p.%3D,ENST00000312938,;ZBTB11,3_prime_UTR_variant,,ENST00000461821,;	A	ENSG00000066422	ENST00000312938	Transcript	synonymous_variant	1220	639	213	F	ttC/ttT	rs773261825,COSM419476	.	.	-1	ZBTB11	HGNC	16740	protein_coding	YES	CCDS2943.1	ENSP00000326200	ZBT11_HUMAN	Q59H97_HUMAN,B3KN38_HUMAN	UPI000013D5E3	.	.	.	3/11	.	hmmpanther:PTHR24387:SF4,hmmpanther:PTHR24387,Gene3D:3.30.710.10,Pfam_domain:PF00651,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACAGAACTG	.	4	BLCA
CBLB	0	.	GRCh37	3	105438984	105438984	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1314C>T	p.%3D	p.I438I	ENST00000264122	10/19	109	92	16	63	63	0	CBLB,synonymous_variant,p.%3D,ENST00000405772,;CBLB,synonymous_variant,p.%3D,ENST00000403724,;CBLB,synonymous_variant,p.%3D,ENST00000394027,;CBLB,synonymous_variant,p.%3D,ENST00000264122,;CBLB,3_prime_UTR_variant,,ENST00000545639,;	A	ENSG00000114423	ENST00000264122	Transcript	synonymous_variant	1636	1314	438	I	atC/atT	COSM419468	.	.	-1	CBLB	HGNC	1542	protein_coding	YES	CCDS2948.1	ENSP00000264122	CBLB_HUMAN	C9JU85_HUMAN,B5MC15_HUMAN	UPI00001AE89F	.	.	.	10/19	.	hmmpanther:PTHR23007,hmmpanther:PTHR23007:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAATGATGCT	.	4	BLCA
CD200R1L	0	.	GRCh37	3	112534713	112534713	+	3'UTR	SNP	T	T	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*97A>C	.	.	ENST00000398214	6/6	42	37	4	29	29	0	CD200R1L,3_prime_UTR_variant,,ENST00000488794,;CD200R1L,3_prime_UTR_variant,,ENST00000448932,;CD200R1L,3_prime_UTR_variant,,ENST00000398214,;RP11-180K7.1,downstream_gene_variant,,ENST00000496067,;CD200R1L,3_prime_UTR_variant,,ENST00000486723,;	G	ENSG00000206531	ENST00000398214	Transcript	3_prime_UTR_variant	1139	.	.	.	.	.	.	.	-1	CD200R1L	HGNC	24665	protein_coding	YES	CCDS43131.1	ENSP00000381272	MO2R2_HUMAN	.	UPI000042263C	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCATCCATG	.	2	BLCA
ARHGAP31	0	.	GRCh37	3	119101938	119101938	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547G>C	p.Glu183Gln	p.E183Q	ENST00000264245	6/12	184	161	23	111	111	0	ARHGAP31,missense_variant,p.Glu154Gln,ENST00000482743,;ARHGAP31,missense_variant,p.Glu183Gln,ENST00000264245,;	C	ENSG00000031081	ENST00000264245	Transcript	missense_variant	1079	547	183	E/Q	Gaa/Caa	COSM419913	.	.	1	ARHGAP31	HGNC	29216	protein_coding	YES	CCDS43135.1	ENSP00000264245	RHG31_HUMAN	.	UPI00001C1DFD	.	deleterious(0.01)	possibly_damaging(0.608)	6/12	.	PROSITE_profiles:PS50238,hmmpanther:PTHR15729:SF3,hmmpanther:PTHR15729,Gene3D:1.10.555.10,Pfam_domain:PF00620,SMART_domains:SM00324,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTAAAGAAATT	.	4	BLCA
POLQ	0	.	GRCh37	3	121248489	121248489	+	Intron	SNP	C	C	G	rs775342500	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1108+3G>C	.	.	ENST00000264233	.	262	238	24	173	172	0	POLQ,splice_region_variant,,ENST00000264233,;POLQ,splice_region_variant,,ENST00000488282,;	G	ENSG00000051341	ENST00000264233	Transcript	splice_region_variant	.	.	.	.	.	rs775342500	.	.	-1	POLQ	HGNC	9186	protein_coding	YES	CCDS33833.1	ENSP00000264233	DPOLQ_HUMAN	.	UPI0000D61B5F	.	.	.	.	7/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	TAACTCACCCT	byFrequency	2	BLCA
GOLGB1	0	.	GRCh37	3	121400701	121400701	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8706G>C	p.Leu2902Phe	p.L2902F	ENST00000393667	15/22	172	153	19	113	113	0	GOLGB1,missense_variant,p.Leu2902Phe,ENST00000393667,;GOLGB1,missense_variant,p.Leu2897Phe,ENST00000340645,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;GOLGB1,upstream_gene_variant,,ENST00000491690,;	G	ENSG00000173230	ENST00000393667	Transcript	missense_variant	8817	8706	2902	L/F	ttG/ttC	COSM419903	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	probably_damaging(0.996)	15/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCTTCAATTC	.	3	BLCA
GOLGB1	0	.	GRCh37	3	121417101	121417101	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2269C>A	p.Gln757Lys	p.Q757K	ENST00000393667	13/22	267	225	41	151	151	0	GOLGB1,missense_variant,p.Gln757Lys,ENST00000393667,;GOLGB1,missense_variant,p.Gln752Lys,ENST00000340645,;GOLGB1,missense_variant,p.Gln716Lys,ENST00000494517,;GOLGB1,missense_variant,p.Gln623Lys,ENST00000489400,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;	T	ENSG00000173230	ENST00000393667	Transcript	missense_variant	2380	2269	757	Q/K	Cag/Aag	COSM419893	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	possibly_damaging(0.702)	13/22	.	hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTGAGAGA	.	4	BLCA
KPNA1	0	.	GRCh37	3	122215299	122215299	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114G>C	p.Gln38His	p.Q38H	ENST00000344337	2/14	222	195	27	136	136	0	KPNA1,missense_variant,p.Gln38His,ENST00000493510,;KPNA1,missense_variant,p.Gln38His,ENST00000344337,;KPNA1,missense_variant,p.Gln38His,ENST00000476916,;KPNA1,missense_variant,p.Gln38His,ENST00000482287,;KPNA1,missense_variant,p.Gln38His,ENST00000465882,;KPNA1,missense_variant,p.Gln38His,ENST00000485027,;KPNA1,missense_variant,p.Gln38His,ENST00000494339,;	G	ENSG00000114030	ENST00000344337	Transcript	missense_variant	291	114	38	Q/H	caG/caC	COSM419884	.	.	-1	KPNA1	HGNC	6394	protein_coding	YES	CCDS3013.1	ENSP00000343701	IMA5_HUMAN	C9JYI4_HUMAN,C9JWD9_HUMAN,C9J4U1_HUMAN,B3KXZ2_HUMAN	UPI000013D524	.	deleterious(0.02)	probably_damaging(1)	2/14	.	PROSITE_profiles:PS51214,hmmpanther:PTHR23316:SF3,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF01749,PIRSF_domain:PIRSF005673,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTTCTGCTT	.	4	BLCA
PARP9	0	.	GRCh37	3	122255822	122255822	+	Missense_Mutation	SNP	G	G	C	rs777795115	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1969C>G	p.Gln657Glu	p.Q657E	ENST00000360356	9/11	360	307	53	219	219	0	PARP9,missense_variant,p.Gln622Glu,ENST00000477522,;PARP9,missense_variant,p.Gln622Glu,ENST00000462315,;PARP9,missense_variant,p.Gln622Glu,ENST00000471785,;PARP9,missense_variant,p.Gln202Glu,ENST00000492382,;PARP9,missense_variant,p.Gln657Glu,ENST00000360356,;PARP9,non_coding_transcript_exon_variant,,ENST00000489652,;	C	ENSG00000138496	ENST00000360356	Transcript	missense_variant	2197	1969	657	Q/E	Caa/Gaa	rs777795115,COSM419882	.	.	-1	PARP9	HGNC	24118	protein_coding	YES	CCDS3014.1	ENSP00000353512	PARP9_HUMAN	Q658Y0_HUMAN	UPI000013D133	.	deleterious(0.05)	benign(0.206)	9/11	.	PROSITE_profiles:PS51059,hmmpanther:PTHR14453:SF11,hmmpanther:PTHR14453	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTGATCTA	.	5	BLCA
PARP14	0	.	GRCh37	3	122447406	122447406	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5368C>G	p.Gln1790Glu	p.Q1790E	ENST00000474629	17/17	322	277	44	197	197	0	PARP14,missense_variant,p.Gln1790Glu,ENST00000474629,;PARP14,3_prime_UTR_variant,,ENST00000460683,;	G	ENSG00000173193	ENST00000474629	Transcript	missense_variant	5634	5368	1790	Q/E	Caa/Gaa	COSM419880,COSM419879	.	.	1	PARP14	HGNC	29232	protein_coding	YES	CCDS46894.1	ENSP00000418194	PAR14_HUMAN	.	UPI00015A20AB	.	deleterious(0.02)	probably_damaging(0.975)	17/17	.	PROSITE_profiles:PS51059,hmmpanther:PTHR14453:SF53,hmmpanther:PTHR14453,Gene3D:3.90.228.10,Pfam_domain:PF00644,Superfamily_domains:SSF56399	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTACCAAGCA	.	4	BLCA
PDIA5	0	.	GRCh37	3	122865043	122865043	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1079A>T	p.Asn360Ile	p.N360I	ENST00000316218	13/17	356	315	40	259	259	0	PDIA5,missense_variant,p.Asn360Ile,ENST00000316218,;PDIA5,non_coding_transcript_exon_variant,,ENST00000485208,;PDIA5,non_coding_transcript_exon_variant,,ENST00000467157,;PDIA5,non_coding_transcript_exon_variant,,ENST00000472319,;PDIA5,3_prime_UTR_variant,,ENST00000489923,;PDIA5,upstream_gene_variant,,ENST00000469649,;	T	ENSG00000065485	ENST00000316218	Transcript	missense_variant	1174	1079	360	N/I	aAt/aTt	COSM419876	.	.	1	PDIA5	HGNC	24811	protein_coding	YES	CCDS3020.1	ENSP00000323313	PDIA5_HUMAN	C9JY10_HUMAN	UPI000013148A	.	deleterious(0.02)	benign(0.281)	13/17	.	Superfamily_domains:SSF52833,Gene3D:3.40.30.10,Pfam_domain:PF00085,hmmpanther:PTHR18929,hmmpanther:PTHR18929:SF85,PROSITE_profiles:PS51352	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAGAATGGAG	.	4	BLCA
ADCY5	0	.	GRCh37	3	123051504	123051504	+	Missense_Mutation	SNP	G	G	C	rs757156390	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1425C>G	p.Ile475Met	p.I475M	ENST00000462833	4/21	69	64	5	33	33	0	ADCY5,missense_variant,p.Ile475Met,ENST00000462833,;ADCY5,missense_variant,p.Ile108Met,ENST00000491190,;ADCY5,missense_variant,p.Ile34Met,ENST00000466617,;ADCY5,missense_variant,p.Ile34Met,ENST00000483566,;ADCY5,missense_variant,p.Ile125Met,ENST00000309879,;ADCY5,3_prime_UTR_variant,,ENST00000476455,;	C	ENSG00000173175	ENST00000462833	Transcript	missense_variant	2638	1425	475	I/M	atC/atG	rs757156390,COSM419874	.	.	-1	ADCY5	HGNC	236	protein_coding	YES	CCDS3022.1	ENSP00000419361	ADCY5_HUMAN	C9JRT8_HUMAN,C9JQ38_HUMAN,B7Z801_HUMAN,B7Z2C7_HUMAN	UPI000015E262	.	deleterious(0.01)	probably_damaging(0.984)	4/21	.	Superfamily_domains:SSF55073,SMART_domains:SM00044,Pfam_domain:PF00211,Gene3D:3.30.70.1230,hmmpanther:PTHR11920:SF259,hmmpanther:PTHR11920,PROSITE_profiles:PS50125	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTCGATGTC	.	2	BLCA
KALRN	0	.	GRCh37	3	123987680	123987680	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541G>C	p.Glu181Gln	p.E181Q	ENST00000240874	5/34	156	90	65	110	110	0	KALRN,missense_variant,p.Glu181Gln,ENST00000240874,;KALRN,missense_variant,p.Glu181Gln,ENST00000460856,;KALRN,missense_variant,p.Glu209Gln,ENST00000448253,;KALRN,missense_variant,p.Glu159Gln,ENST00000354186,;KALRN,missense_variant,p.Glu181Gln,ENST00000360013,;KALRN,non_coding_transcript_exon_variant,,ENST00000498499,;	C	ENSG00000160145	ENST00000240874	Transcript	missense_variant	698	541	181	E/Q	Gag/Cag	COSM419871	.	.	1	KALRN	HGNC	4814	protein_coding	YES	CCDS3027.1	ENSP00000240874	KALRN_HUMAN	.	UPI000012C095	.	tolerated(0.26)	possibly_damaging(0.865)	5/34	.	hmmpanther:PTHR22826,hmmpanther:PTHR22826:SF49,Gene3D:3.40.525.10,Pfam_domain:PF13716,Superfamily_domains:SSF52087	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATGAGGAG	.	5	BLCA
KALRN	0	.	GRCh37	3	123987800	123987800	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.661G>A	p.Glu221Lys	p.E221K	ENST00000240874	5/34	67	36	30	48	48	0	KALRN,missense_variant,p.Glu221Lys,ENST00000240874,;KALRN,missense_variant,p.Glu221Lys,ENST00000460856,;KALRN,missense_variant,p.Glu249Lys,ENST00000448253,;KALRN,missense_variant,p.Glu199Lys,ENST00000354186,;KALRN,missense_variant,p.Glu221Lys,ENST00000360013,;KALRN,non_coding_transcript_exon_variant,,ENST00000498499,;	A	ENSG00000160145	ENST00000240874	Transcript	missense_variant	818	661	221	E/K	Gag/Aag	COSM419869	.	.	1	KALRN	HGNC	4814	protein_coding	YES	CCDS3027.1	ENSP00000240874	KALRN_HUMAN	.	UPI000012C095	.	tolerated(0.19)	possibly_damaging(0.856)	5/34	.	hmmpanther:PTHR22826,hmmpanther:PTHR22826:SF49,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTGGAGGGC	.	5	BLCA
HMCES	0	.	GRCh37	3	129020945	129020945	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.788C>G	p.Thr263Ser	p.T263S	ENST00000383463	6/7	240	205	34	174	174	0	HMCES,missense_variant,p.Thr263Ser,ENST00000502878,;HMCES,missense_variant,p.Thr221Ser,ENST00000417226,;HMCES,missense_variant,p.Thr173Ser,ENST00000510314,;HMCES,missense_variant,p.Thr215Ser,ENST00000509042,;HMCES,missense_variant,p.Thr263Ser,ENST00000389735,;HMCES,missense_variant,p.Thr263Ser,ENST00000383463,;HMCES,downstream_gene_variant,,ENST00000509551,;HMCES,downstream_gene_variant,,ENST00000511665,;	G	ENSG00000183624	ENST00000383463	Transcript	missense_variant	877	788	263	T/S	aCt/aGt	COSM419846	.	.	1	HMCES	HGNC	24446	protein_coding	YES	CCDS33852.1	ENSP00000372955	HMCES_HUMAN	D6RAZ3_HUMAN	UPI000006FF4D	.	tolerated(0.96)	benign(0.003)	6/7	.	hmmpanther:PTHR13604,hmmpanther:PTHR13604:SF0,Pfam_domain:PF02586,Gene3D:2icuA00,Superfamily_domains:SSF143081	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAACACTCCTG	.	4	BLCA
HMCES	0	.	GRCh37	3	129023458	129023458	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.855G>C	p.Gln285His	p.Q285H	ENST00000383463	7/7	373	305	68	278	278	0	HMCES,missense_variant,p.Gln285His,ENST00000502878,;HMCES,missense_variant,p.Gln243His,ENST00000417226,;HMCES,missense_variant,p.Gln237His,ENST00000509042,;HMCES,missense_variant,p.Gln285His,ENST00000389735,;HMCES,missense_variant,p.Gln285His,ENST00000383463,;HMCES,downstream_gene_variant,,ENST00000509551,;HMCES,downstream_gene_variant,,ENST00000510314,;HMCES,downstream_gene_variant,,ENST00000511665,;	C	ENSG00000183624	ENST00000383463	Transcript	missense_variant	944	855	285	Q/H	caG/caC	.	.	.	1	HMCES	HGNC	24446	protein_coding	YES	CCDS33852.1	ENSP00000372955	HMCES_HUMAN	D6RAZ3_HUMAN	UPI000006FF4D	.	deleterious(0.04)	benign(0.013)	7/7	.	hmmpanther:PTHR13604,hmmpanther:PTHR13604:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AGCCAGAGGAT	.	2	BLCA
HMCES	0	.	GRCh37	3	129023525	129023525	+	Missense_Mutation	SNP	G	G	C	rs757343424	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.922G>C	p.Glu308Gln	p.E308Q	ENST00000383463	7/7	171	138	32	162	162	0	HMCES,missense_variant,p.Glu308Gln,ENST00000502878,;HMCES,missense_variant,p.Glu266Gln,ENST00000417226,;HMCES,missense_variant,p.Glu260Gln,ENST00000509042,;HMCES,missense_variant,p.Glu308Gln,ENST00000389735,;HMCES,missense_variant,p.Glu308Gln,ENST00000383463,;HMCES,downstream_gene_variant,,ENST00000509551,;HMCES,downstream_gene_variant,,ENST00000510314,;HMCES,downstream_gene_variant,,ENST00000511665,;	C	ENSG00000183624	ENST00000383463	Transcript	missense_variant	1011	922	308	E/Q	Gag/Cag	rs757343424,COSM419845	.	.	1	HMCES	HGNC	24446	protein_coding	YES	CCDS33852.1	ENSP00000372955	HMCES_HUMAN	D6RAZ3_HUMAN	UPI000006FF4D	.	deleterious(0.04)	benign(0.081)	7/7	.	hmmpanther:PTHR13604,hmmpanther:PTHR13604:SF0	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAGTCA	byFrequency	5	BLCA
HMCES	0	.	GRCh37	3	129023626	129023626	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023G>A	p.%3D	p.E341E	ENST00000383463	7/7	93	86	7	59	58	1	HMCES,synonymous_variant,p.%3D,ENST00000502878,;HMCES,synonymous_variant,p.%3D,ENST00000417226,;HMCES,synonymous_variant,p.%3D,ENST00000389735,;HMCES,synonymous_variant,p.%3D,ENST00000383463,;HMCES,downstream_gene_variant,,ENST00000509551,;HMCES,downstream_gene_variant,,ENST00000510314,;HMCES,downstream_gene_variant,,ENST00000509042,;HMCES,downstream_gene_variant,,ENST00000511665,;	A	ENSG00000183624	ENST00000383463	Transcript	synonymous_variant	1112	1023	341	E	gaG/gaA	.	.	.	1	HMCES	HGNC	24446	protein_coding	YES	CCDS33852.1	ENSP00000372955	HMCES_HUMAN	D6RAZ3_HUMAN	UPI000006FF4D	.	.	.	7/7	.	hmmpanther:PTHR13604,hmmpanther:PTHR13604:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGGAGAAGGA	.	2	BLCA
PLXND1	0	.	GRCh37	3	129282030	129282030	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4575C>T	p.%3D	p.I1525I	ENST00000324093	26/36	57	44	12	38	38	0	PLXND1,synonymous_variant,p.%3D,ENST00000324093,;PLXND1,synonymous_variant,p.%3D,ENST00000393239,;PLXND1,upstream_gene_variant,,ENST00000506979,;PLXND1,synonymous_variant,p.%3D,ENST00000512744,;PLXND1,non_coding_transcript_exon_variant,,ENST00000503166,;PLXND1,non_coding_transcript_exon_variant,,ENST00000504979,;PLXND1,upstream_gene_variant,,ENST00000512807,;PLXND1,upstream_gene_variant,,ENST00000504524,;PLXND1,upstream_gene_variant,,ENST00000508630,;	A	ENSG00000004399	ENST00000324093	Transcript	synonymous_variant	4754	4575	1525	I	atC/atT	COSM419839	.	.	-1	PLXND1	HGNC	9107	protein_coding	YES	CCDS33854.1	ENSP00000317128	PLXD1_HUMAN	Q6P657_HUMAN	UPI00003671AD	.	.	.	26/36	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF7,Pfam_domain:PF08337,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTGATTTG	.	5	BLCA
COL6A6	0	.	GRCh37	3	130290018	130290018	+	Missense_Mutation	SNP	G	G	A	rs567427258	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2758G>A	p.Asp920Asn	p.D920N	ENST00000358511	6/36	84	69	15	71	71	0	COL6A6,missense_variant,p.Asp920Asn,ENST00000453409,;COL6A6,missense_variant,p.Asp920Asn,ENST00000358511,;	A	ENSG00000206384	ENST00000358511	Transcript	missense_variant	2789	2758	920	D/N	Gat/Aat	rs567427258,COSM419834,COSM1484604	.	.	1	COL6A6	HGNC	27023	protein_coding	YES	CCDS46911.1	ENSP00000351310	CO6A6_HUMAN	.	UPI00015B6548	.	deleterious(0)	probably_damaging(1)	6/36	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22992:SF86,hmmpanther:PTHR22992,Pfam_domain:PF00092,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300,Prints_domain:PR00453	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.D920N|c.2758G>A|3	MUTECT|MUSE|VARSCANS	TCACCGATGGG	byCluster|by1000G	3	BLCA
PIK3R4	0	.	GRCh37	3	130464024	130464024	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.39C>G	p.Ile13Met	p.I13M	ENST00000356763	2/20	121	104	17	87	87	0	PIK3R4,missense_variant,p.Ile13Met,ENST00000356763,;	C	ENSG00000196455	ENST00000356763	Transcript	missense_variant	597	39	13	I/M	atC/atG	COSM419832	.	.	-1	PIK3R4	HGNC	8982	protein_coding	YES	CCDS3067.1	ENSP00000349205	PI3R4_HUMAN	D6RJ98_HUMAN,D6RBB7_HUMAN,D6RAC3_HUMAN	UPI0000071EF3	.	deleterious(0)	probably_damaging(0.999)	2/20	.	hmmpanther:PTHR17583	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAGGATCTG	.	5	BLCA
BFSP2	0	.	GRCh37	3	133185754	133185754	+	Missense_Mutation	SNP	C	C	T	rs751496741	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.974C>T	p.Ser325Leu	p.S325L	ENST00000302334	5/7	172	148	23	93	93	0	BFSP2,missense_variant,p.Ser325Leu,ENST00000302334,;BFSP2,non_coding_transcript_exon_variant,,ENST00000510039,;BFSP2,non_coding_transcript_exon_variant,,ENST00000511434,;	T	ENSG00000170819	ENST00000302334	Transcript	missense_variant	1063	974	325	S/L	tCg/tTg	rs751496741,COSM419820	.	.	1	BFSP2	HGNC	1041	protein_coding	YES	CCDS33859.1	ENSP00000304987	BFSP2_HUMAN	.	UPI00001268CA	.	deleterious(0.04)	possibly_damaging(0.523)	5/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF32,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCGTGCC	byFrequency	4	BLCA
NUP210	0	.	GRCh37	3	13393439	13393439	+	Silent	SNP	G	G	C	rs773463749	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2775C>G	p.%3D	p.L925L	ENST00000254508	20/40	96	75	20	84	84	0	NUP210,synonymous_variant,p.%3D,ENST00000254508,;NUP210,non_coding_transcript_exon_variant,,ENST00000479519,;NUP210,non_coding_transcript_exon_variant,,ENST00000420141,;	C	ENSG00000132182	ENST00000254508	Transcript	synonymous_variant	2858	2775	925	L	ctC/ctG	rs773463749,COSM419816	.	.	-1	NUP210	HGNC	30052	protein_coding	YES	CCDS33704.1	ENSP00000254508	PO210_HUMAN	.	UPI00001600AF	.	.	.	20/40	.	hmmpanther:PTHR23019,hmmpanther:PTHR23019:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTGAGGAA	.	5	BLCA
NME9	0	.	GRCh37	3	138033219	138033219	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.232G>A	p.Glu78Lys	p.E78K	ENST00000383180	7/12	356	312	43	216	216	0	NME9,missense_variant,p.Glu78Lys,ENST00000536478,;NME9,missense_variant,p.Glu78Lys,ENST00000317876,;NME9,missense_variant,p.Glu78Lys,ENST00000383180,;NME9,missense_variant,p.Glu76Lys,ENST00000341790,;NME9,missense_variant,p.Glu139Lys,ENST00000475751,;NME9,missense_variant,p.Glu70Lys,ENST00000474690,;NME9,missense_variant,p.Glu76Lys,ENST00000484930,;NME9,missense_variant,p.Glu139Lys,ENST00000333911,;NME9,missense_variant,p.Glu78Lys,ENST00000492993,;NME9,non_coding_transcript_exon_variant,,ENST00000478220,;	T	ENSG00000181322	ENST00000383180	Transcript	missense_variant	470	232	78	E/K	Gaa/Aaa	COSM419803	.	.	-1	NME9	HGNC	21343	protein_coding	YES	CCDS3099.1	ENSP00000372667	TXND6_HUMAN	.	UPI0000073EC5	.	tolerated(0.65)	benign(0.012)	7/12	.	hmmpanther:PTHR11349:SF48,hmmpanther:PTHR11349	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATTCATCTT	.	4	BLCA
PIK3CB	0	.	GRCh37	3	138374293	138374293	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3151G>A	p.Glu1051Lys	p.E1051K	ENST00000477593	23/23	194	128	66	99	99	0	PIK3CB,missense_variant,p.Glu683Lys,ENST00000493568,;PIK3CB,missense_variant,p.Glu1051Lys,ENST00000477593,;PIK3CB,missense_variant,p.Glu502Lys,ENST00000544716,;PIK3CB,missense_variant,p.Glu1051Lys,ENST00000289153,;PIK3CB,3_prime_UTR_variant,,ENST00000462898,;PIK3CB,3_prime_UTR_variant,,ENST00000469284,;PIK3CB,non_coding_transcript_exon_variant,,ENST00000481749,;PIK3CB,downstream_gene_variant,,ENST00000487552,;	T	ENSG00000051382	ENST00000477593	Transcript	missense_variant	3225	3151	1051	E/K	Gaa/Aaa	COSM317875	.	.	-1	PIK3CB	HGNC	8976	protein_coding	YES	CCDS3104.1	ENSP00000418143	PK3CB_HUMAN	Q9BTS4_HUMAN,Q6PJ60_HUMAN,C9JYX0_HUMAN,C9JNF6_HUMAN,C9J345_HUMAN	UPI0000046842	.	deleterious(0.03)	possibly_damaging(0.883)	23/23	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10048:SF33,hmmpanther:PTHR10048,Gene3D:1.10.1070.11,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E1051K|c.3151G>A|4	RADIA|MUTECT|MUSE	GCTTTCCCTGA	.	3	BLCA
PIK3CB	0	.	GRCh37	3	138374305	138374305	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3139G>A	p.Glu1047Lys	p.E1047K	ENST00000477593	23/23	193	128	65	102	102	0	PIK3CB,missense_variant,p.Glu679Lys,ENST00000493568,;PIK3CB,missense_variant,p.Glu1047Lys,ENST00000477593,;PIK3CB,missense_variant,p.Glu498Lys,ENST00000544716,;PIK3CB,missense_variant,p.Glu1047Lys,ENST00000289153,;PIK3CB,3_prime_UTR_variant,,ENST00000462898,;PIK3CB,3_prime_UTR_variant,,ENST00000469284,;PIK3CB,non_coding_transcript_exon_variant,,ENST00000481749,;PIK3CB,downstream_gene_variant,,ENST00000487552,;	T	ENSG00000051382	ENST00000477593	Transcript	missense_variant	3213	3139	1047	E/K	Gag/Aag	COSM419801	.	.	-1	PIK3CB	HGNC	8976	protein_coding	YES	CCDS3104.1	ENSP00000418143	PK3CB_HUMAN	Q9BTS4_HUMAN,Q6PJ60_HUMAN,C9JYX0_HUMAN,C9JNF6_HUMAN,C9J345_HUMAN	UPI0000046842	.	deleterious(0)	benign(0.263)	23/23	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50290,hmmpanther:PTHR10048:SF33,hmmpanther:PTHR10048,Gene3D:1.10.1070.11,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCCTCATCAA	.	3	BLCA
PIK3CB	0	.	GRCh37	3	138374308	138374308	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3136G>A	p.Asp1046Asn	p.D1046N	ENST00000477593	23/23	193	129	64	103	103	0	PIK3CB,missense_variant,p.Asp678Asn,ENST00000493568,;PIK3CB,missense_variant,p.Asp1046Asn,ENST00000477593,;PIK3CB,missense_variant,p.Asp497Asn,ENST00000544716,;PIK3CB,missense_variant,p.Asp1046Asn,ENST00000289153,;PIK3CB,3_prime_UTR_variant,,ENST00000462898,;PIK3CB,3_prime_UTR_variant,,ENST00000469284,;PIK3CB,non_coding_transcript_exon_variant,,ENST00000481749,;PIK3CB,downstream_gene_variant,,ENST00000487552,;	T	ENSG00000051382	ENST00000477593	Transcript	missense_variant	3210	3136	1046	D/N	Gat/Aat	COSM419800	.	.	-1	PIK3CB	HGNC	8976	protein_coding	YES	CCDS3104.1	ENSP00000418143	PK3CB_HUMAN	Q9BTS4_HUMAN,Q6PJ60_HUMAN,C9JYX0_HUMAN,C9JNF6_HUMAN,C9J345_HUMAN	UPI0000046842	.	tolerated(0.82)	benign(0.01)	23/23	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50290,hmmpanther:PTHR10048:SF33,hmmpanther:PTHR10048,Gene3D:1.10.1070.11,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCATCAAATT	.	3	BLCA
PIK3CB	0	.	GRCh37	3	138433362	138433362	+	Missense_Mutation	SNP	G	G	A	rs143122477	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1250C>T	p.Thr417Met	p.T417M	ENST00000477593	8/23	112	57	55	93	93	0	PIK3CB,missense_variant,p.Thr66Met,ENST00000493568,;PIK3CB,missense_variant,p.Thr417Met,ENST00000477593,;PIK3CB,missense_variant,p.Thr417Met,ENST00000289153,;PIK3CB,upstream_gene_variant,,ENST00000544716,;PIK3CB,downstream_gene_variant,,ENST00000462294,;PIK3CB,3_prime_UTR_variant,,ENST00000462898,;PIK3CB,upstream_gene_variant,,ENST00000469284,;PIK3CB,upstream_gene_variant,,ENST00000473435,;	A	ENSG00000051382	ENST00000477593	Transcript	missense_variant	1324	1250	417	T/M	aCg/aTg	rs143122477,COSM419799	.	.	-1	PIK3CB	HGNC	8976	protein_coding	YES	CCDS3104.1	ENSP00000418143	PK3CB_HUMAN	Q9BTS4_HUMAN,Q6PJ60_HUMAN,C9JYX0_HUMAN,C9JNF6_HUMAN,C9J345_HUMAN	UPI0000046842	.	deleterious(0.03)	probably_damaging(0.967)	8/23	.	PROSITE_profiles:PS51547,hmmpanther:PTHR10048:SF33,hmmpanther:PTHR10048,Pfam_domain:PF00792,Gene3D:2.60.40.150,SMART_domains:SM00142,Superfamily_domains:SSF49562	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTCGTTGAT	byCluster|by1000G	5	BLCA
CLSTN2	0	.	GRCh37	3	140185546	140185546	+	Silent	SNP	C	C	T	rs139804872	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1317C>T	p.%3D	p.P439P	ENST00000458420	8/17	124	109	15	64	64	0	CLSTN2,synonymous_variant,p.%3D,ENST00000458420,;RP11-68L1.1,upstream_gene_variant,,ENST00000483759,;CLSTN2,non_coding_transcript_exon_variant,,ENST00000511524,;	T	ENSG00000158258	ENST00000458420	Transcript	synonymous_variant	1507	1317	439	P	ccC/ccT	rs139804872,COSM127661	.	.	1	CLSTN2	HGNC	17448	protein_coding	YES	CCDS3112.1	ENSP00000402460	CSTN2_HUMAN	B3KUA5_HUMAN,B3KU27_HUMAN	UPI00001B0051	.	.	.	8/17	.	hmmpanther:PTHR14139,hmmpanther:PTHR14139:SF3,Pfam_domain:PF13385,Gene3D:2.60.120.200,Superfamily_domains:SSF49899	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0011	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R438C|c.1312C>T|4	RADIA|MUTECT|MUSE|VARSCANS	CGCCCCGCGGA	byFrequency|byCluster|by1000G	4	BLCA
TRIM42	0	.	GRCh37	3	140401335	140401335	+	Missense_Mutation	SNP	G	G	C	rs375237362	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.373G>C	p.Asp125His	p.D125H	ENST00000286349	2/5	184	164	20	106	106	0	TRIM42,missense_variant,p.Asp125His,ENST00000286349,;	C	ENSG00000155890	ENST00000286349	Transcript	missense_variant	564	373	125	D/H	Gat/Cat	rs375237362,COSM419793	.	.	1	TRIM42	HGNC	19014	protein_coding	YES	CCDS3113.1	ENSP00000286349	TRI42_HUMAN	.	UPI00001AEAE0	.	tolerated(0.1)	possibly_damaging(0.697)	2/5	.	.	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGCGATACC	byCluster|by1000G	4	BLCA
COMMD2	0	.	GRCh37	3	149459490	149459490	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418C>T	p.Leu140Phe	p.L140F	ENST00000473414	5/5	249	225	23	180	180	0	COMMD2,missense_variant,p.Leu140Phe,ENST00000473414,;WWTR1,upstream_gene_variant,,ENST00000474080,;COMMD2,3_prime_UTR_variant,,ENST00000491617,;COMMD2,3_prime_UTR_variant,,ENST00000483708,;COMMD2,non_coding_transcript_exon_variant,,ENST00000463077,;	A	ENSG00000114744	ENST00000473414	Transcript	missense_variant	473	418	140	L/F	Ctc/Ttc	COSM371895	.	.	-1	COMMD2	HGNC	24993	protein_coding	YES	CCDS3145.1	ENSP00000419475	COMD2_HUMAN	.	UPI000006F2D7	.	deleterious(0.02)	probably_damaging(0.993)	5/5	.	PROSITE_profiles:PS51269,hmmpanther:PTHR15857,Pfam_domain:PF07258	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTGAGACTTC	.	3	BLCA
PLCH1	0	.	GRCh37	3	155199659	155199659	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4180C>G	p.Gln1394Glu	p.Q1394E	ENST00000340059	23/23	226	192	33	135	135	0	PLCH1,missense_variant,p.Gln1356Glu,ENST00000334686,;PLCH1,missense_variant,p.Gln1356Glu,ENST00000414191,;PLCH1,missense_variant,p.Gln1394Glu,ENST00000340059,;PLCH1,missense_variant,p.Gln1356Glu,ENST00000460012,;PLCH1,3_prime_UTR_variant,,ENST00000447496,;PLCH1,intron_variant,,ENST00000494598,;PLCH1-AS2,upstream_gene_variant,,ENST00000472913,;	C	ENSG00000114805	ENST00000340059	Transcript	missense_variant	4180	4180	1394	Q/E	Cag/Gag	COSM419753,COSM1133680	.	.	-1	PLCH1	HGNC	29185	protein_coding	YES	CCDS46939.1	ENSP00000345988	PLCH1_HUMAN	.	UPI00001D800E	.	tolerated_low_confidence(0.08)	benign(0.003)	23/23	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTGATTGT	.	4	BLCA
TRIM59	0	.	GRCh37	3	160156857	160156857	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115C>T	p.Gln39Ter	p.Q39*	ENST00000309784	3/3	160	140	19	109	109	0	TRIM59,stop_gained,p.Gln39Ter,ENST00000479460,;TRIM59,stop_gained,p.Gln39Ter,ENST00000309784,;TRIM59,stop_gained,p.Gln39Ter,ENST00000471155,;TRIM59,stop_gained,p.Gln67Ter,ENST00000496222,;TRIM59,stop_gained,p.Gln39Ter,ENST00000543469,;TRIM59,stop_gained,p.Gln46Ter,ENST00000468542,;TRIM59,stop_gained,p.Gln39Ter,ENST00000471396,;TRIM59,stop_gained,p.Gln39Ter,ENST00000494486,;SMC4,downstream_gene_variant,,ENST00000344722,;SMC4,downstream_gene_variant,,ENST00000357388,;SMC4,downstream_gene_variant,,ENST00000360111,;RP11-432B6.3,stop_gained,p.Gln39Ter,ENST00000483754,;SMC4,downstream_gene_variant,,ENST00000462668,;	A	ENSG00000213186	ENST00000309784	Transcript	stop_gained	301	115	39	Q/*	Cag/Tag	COSM419732	.	.	-1	TRIM59	HGNC	30834	protein_coding	YES	CCDS3190.1	ENSP00000311219	TRI59_HUMAN	C9JE08_HUMAN,C9J9F0_HUMAN,C9J614_HUMAN,C9IZE0_HUMAN	UPI0000074490	.	.	.	3/3	.	Superfamily_domains:SSF57850,SMART_domains:SM00184,Pfam_domain:PF13639,Gene3D:3.30.40.10,hmmpanther:PTHR24098,hmmpanther:PTHR24098:SF6,PROSITE_profiles:PS50089	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTGAAGAA	.	4	BLCA
PDCD10	0	.	GRCh37	3	167414911	167414911	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154G>C	p.Glu52Gln	p.E52Q	ENST00000392750	5/9	114	96	18	49	49	0	PDCD10,missense_variant,p.Glu52Gln,ENST00000470131,;PDCD10,missense_variant,p.Glu52Gln,ENST00000475915,;PDCD10,missense_variant,p.Glu33Gln,ENST00000479121,;PDCD10,missense_variant,p.Glu52Gln,ENST00000464360,;PDCD10,missense_variant,p.Glu52Gln,ENST00000461494,;PDCD10,missense_variant,p.Glu52Gln,ENST00000492139,;PDCD10,missense_variant,p.Glu52Gln,ENST00000497056,;PDCD10,missense_variant,p.Glu52Gln,ENST00000471885,;PDCD10,missense_variant,p.Glu52Gln,ENST00000487947,;PDCD10,missense_variant,p.Glu52Gln,ENST00000462725,;PDCD10,missense_variant,p.Glu52Gln,ENST00000392750,;PDCD10,missense_variant,p.Glu52Gln,ENST00000473645,;PDCD10,5_prime_UTR_variant,,ENST00000492396,;PDCD10,non_coding_transcript_exon_variant,,ENST00000462830,;PDCD10,3_prime_UTR_variant,,ENST00000494502,;PDCD10,non_coding_transcript_exon_variant,,ENST00000483451,;HMGN1P8,upstream_gene_variant,,ENST00000463578,;	G	ENSG00000114209	ENST00000392750	Transcript	missense_variant	572	154	52	E/Q	Gaa/Caa	COSM419725,COSM345452	.	.	-1	PDCD10	HGNC	8761	protein_coding	YES	CCDS3202.1	ENSP00000376506	PDC10_HUMAN	C9JSA3_HUMAN,C9JND6_HUMAN,C9J932_HUMAN,C9J6F3_HUMAN,C9J5C3_HUMAN,C9J363_HUMAN	UPI0000071E33	.	deleterious(0)	probably_damaging(1)	5/9	.	hmmpanther:PTHR13250,hmmpanther:PTHR13250:SF2,Pfam_domain:PF06840	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCAGCCT	.	5	BLCA
GOLIM4	0	.	GRCh37	3	167759263	167759263	+	Splice_Site	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.518-1G>C	.	p.X173_splice	ENST00000470487	.	95	83	12	58	58	0	GOLIM4,splice_acceptor_variant,,ENST00000470487,;GOLIM4,splice_acceptor_variant,,ENST00000309027,;GOLIM4,splice_acceptor_variant,,ENST00000479415,;	G	ENSG00000173905	ENST00000470487	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM419724	.	.	-1	GOLIM4	HGNC	15448	protein_coding	YES	CCDS3204.1	ENSP00000417354	GOLI4_HUMAN	.	UPI0000073BF8	.	.	.	.	5/15	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTCTCTATTT	.	2	BLCA
MECOM	0	.	GRCh37	3	168807914	168807914	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2906A>T	p.Glu969Val	p.E969V	ENST00000264674	15/17	420	245	174	266	266	0	MECOM,missense_variant,p.Glu905Val,ENST00000472280,;MECOM,missense_variant,p.Glu895Val,ENST00000460814,;MECOM,missense_variant,p.Glu895Val,ENST00000464456,;MECOM,missense_variant,p.Glu1083Val,ENST00000494292,;MECOM,missense_variant,p.Glu904Val,ENST00000468789,;MECOM,missense_variant,p.Glu905Val,ENST00000433243,;MECOM,missense_variant,p.Glu904Val,ENST00000392736,;MECOM,missense_variant,p.Glu969Val,ENST00000264674,;	A	ENSG00000085276	ENST00000264674	Transcript	missense_variant	3045	2906	969	E/V	gAa/gTa	COSM419723	.	.	-1	MECOM	HGNC	3498	protein_coding	YES	CCDS54670.1	ENSP00000264674	EVI1_HUMAN	Q9UBK3_HUMAN,Q8IU84_HUMAN,E9PGE9_HUMAN,E7EU48_HUMAN,E7ERX0_HUMAN,E7EPY2_HUMAN,D3DNP4_HUMAN	UPI00015D43FA	.	deleterious(0.02)	possibly_damaging(0.812)	15/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24393	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTTCATCC	.	5	BLCA
MECOM	0	.	GRCh37	3	168807915	168807915	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2905G>A	p.Glu969Lys	p.E969K	ENST00000264674	15/17	423	246	176	265	265	0	MECOM,missense_variant,p.Glu905Lys,ENST00000472280,;MECOM,missense_variant,p.Glu895Lys,ENST00000460814,;MECOM,missense_variant,p.Glu895Lys,ENST00000464456,;MECOM,missense_variant,p.Glu1083Lys,ENST00000494292,;MECOM,missense_variant,p.Glu904Lys,ENST00000468789,;MECOM,missense_variant,p.Glu905Lys,ENST00000433243,;MECOM,missense_variant,p.Glu904Lys,ENST00000392736,;MECOM,missense_variant,p.Glu969Lys,ENST00000264674,;	T	ENSG00000085276	ENST00000264674	Transcript	missense_variant	3044	2905	969	E/K	Gaa/Aaa	COSM419721	.	.	-1	MECOM	HGNC	3498	protein_coding	YES	CCDS54670.1	ENSP00000264674	EVI1_HUMAN	Q9UBK3_HUMAN,Q8IU84_HUMAN,E9PGE9_HUMAN,E7EU48_HUMAN,E7ERX0_HUMAN,E7EPY2_HUMAN,D3DNP4_HUMAN	UPI00015D43FA	.	tolerated(0.09)	possibly_damaging(0.492)	15/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24393	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCATCCT	.	5	BLCA
TBC1D5	0	.	GRCh37	3	17300041	17300041	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1288G>C	p.Asp430His	p.D430H	ENST00000446818	17/24	298	230	68	236	236	0	TBC1D5,missense_variant,p.Asp382His,ENST00000429924,;TBC1D5,missense_variant,p.Asp430His,ENST00000446818,;TBC1D5,missense_variant,p.Asp430His,ENST00000429383,;TBC1D5,missense_variant,p.Asp430His,ENST00000253692,;TBC1D5,non_coding_transcript_exon_variant,,ENST00000414318,;	G	ENSG00000131374	ENST00000446818	Transcript	missense_variant	1552	1288	430	D/H	Gat/Cat	COSM419706	.	.	-1	TBC1D5	HGNC	19166	protein_coding	YES	CCDS46770.1	ENSP00000402935	TBCD5_HUMAN	F2Z3C3_HUMAN,C9K0P2_HUMAN,C9JWX0_HUMAN,C9JW04_HUMAN,C9JNM0_HUMAN,C9JMP7_HUMAN,C9JIU4_HUMAN,C9JED7_HUMAN,C9JDR8_HUMAN,C9J397_HUMAN	UPI00017E10F6	.	deleterious(0)	possibly_damaging(0.671)	17/24	.	hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF220	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATCTAAAT	.	5	BLCA
ALG3	0	.	GRCh37	3	183967044	183967044	+	5'Flank	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000397676	.	32	26	6	24	24	0	ALG3,missense_variant,p.Glu8Gln,ENST00000445626,;ALG3,5_prime_UTR_variant,,ENST00000455059,;EIF2B5,intron_variant,,ENST00000444495,;ALG3,upstream_gene_variant,,ENST00000446569,;ALG3,upstream_gene_variant,,ENST00000418734,;ECE2,upstream_gene_variant,,ENST00000324557,;ECE2,upstream_gene_variant,,ENST00000402825,;ALG3,upstream_gene_variant,,ENST00000397676,;ALG3,upstream_gene_variant,,ENST00000477959,;ALG3,upstream_gene_variant,,ENST00000423996,;ALG3,upstream_gene_variant,,ENST00000411922,;ALG3,upstream_gene_variant,,ENST00000482048,;ALG3,upstream_gene_variant,,ENST00000488976,;ALG3,upstream_gene_variant,,ENST00000461415,;ALG3,upstream_gene_variant,,ENST00000462735,;ALG3,upstream_gene_variant,,ENST00000414845,;	G	ENSG00000214160	ENST00000397676	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	285	-1	ALG3	HGNC	23056	protein_coding	YES	CCDS46968.1	ENSP00000380793	ALG3_HUMAN	.	UPI0000125838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCCTTCG	.	5	BLCA
ECE2	0	.	GRCh37	3	184009972	184009972	+	Silent	SNP	C	C	T	rs777227392	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2598C>T	p.%3D	p.F866F	ENST00000402825	19/19	206	175	31	147	147	0	ECE2,synonymous_variant,p.%3D,ENST00000359140,;ECE2,synonymous_variant,p.%3D,ENST00000357474,;ECE2,synonymous_variant,p.%3D,ENST00000404464,;ECE2,synonymous_variant,p.%3D,ENST00000402825,;EIF2B5,intron_variant,,ENST00000444495,;ECE2,downstream_gene_variant,,ENST00000430587,;ECE2,downstream_gene_variant,,ENST00000488401,;ECE2,downstream_gene_variant,,ENST00000490579,;	T	ENSG00000145194	ENST00000402825	Transcript	synonymous_variant	2598	2598	866	F	ttC/ttT	rs777227392,COSM419678,COSM1133688,COSM419677	.	.	1	ECE2	HGNC	13275	protein_coding	YES	CCDS3256.2	ENSP00000384223	ECE2_HUMAN	.	UPI0001596888	.	.	.	19/19	.	hmmpanther:PTHR11733,hmmpanther:PTHR11733:SF122,Gene3D:3.40.390.10,Pfam_domain:PF01431,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCGGCTG	byFrequency	4	BLCA
C3orf70	0	.	GRCh37	3	184870595	184870595	+	Missense_Mutation	SNP	G	G	A	rs757159118	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>T	p.Ser6Leu	p.S6L	ENST00000335012	1/2	55	30	25	36	36	0	C3orf70,missense_variant,p.Ser6Leu,ENST00000335012,;	A	ENSG00000187068	ENST00000335012	Transcript	missense_variant	208	17	6	S/L	tCg/tTg	rs757159118,COSM420098,COSM3774780	.	.	-1	C3orf70	HGNC	33731	protein_coding	YES	CCDS33900.1	ENSP00000334974	CC070_HUMAN	.	UPI000016128B	.	deleterious_low_confidence(0.02)	benign(0.001)	1/2	.	hmmpanther:PTHR31785:SF2,hmmpanther:PTHR31785	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S6L|c.17C>T|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGCGAGGCC	.	5	BLCA
LIPH	0	.	GRCh37	3	185270277	185270277	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-18G>A	.	.	ENST00000296252	1/10	83	70	13	48	48	0	LIPH,5_prime_UTR_variant,,ENST00000424591,;LIPH,5_prime_UTR_variant,,ENST00000296252,;LIPH,5_prime_UTR_variant,,ENST00000429510,;	T	ENSG00000163898	ENST00000296252	Transcript	5_prime_UTR_variant	125	.	.	.	.	.	.	.	-1	LIPH	HGNC	18483	protein_coding	YES	CCDS3272.1	ENSP00000296252	LIPH_HUMAN	A2IBA8_HUMAN	UPI000003AEB8	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGATCGTGTG	.	4	BLCA
DNAJB11	0	.	GRCh37	3	186299204	186299204	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.501G>A	p.%3D	p.R167R	ENST00000439351	6/11	197	173	24	129	129	0	DNAJB11,synonymous_variant,p.%3D,ENST00000265028,;DNAJB11,synonymous_variant,p.%3D,ENST00000439351,;DNAJB11,upstream_gene_variant,,ENST00000418776,;DNAJB11,non_coding_transcript_exon_variant,,ENST00000495390,;DNAJB11,downstream_gene_variant,,ENST00000464877,;	A	ENSG00000090520	ENST00000439351	Transcript	synonymous_variant	1430	501	167	R	cgG/cgA	COSM420094	.	.	1	DNAJB11	HGNC	14889	protein_coding	YES	CCDS3277.1	ENSP00000414398	DJB11_HUMAN	B3KW63_HUMAN	UPI0000001BF7	.	.	.	6/11	.	hmmpanther:PTHR24077:SF210,hmmpanther:PTHR24077	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACGGAAGTG	.	4	BLCA
RFC4	0	.	GRCh37	3	186510677	186510677	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.470C>T	p.Ser157Leu	p.S157L	ENST00000392481	6/11	102	89	12	68	68	0	RFC4,missense_variant,p.Ser157Leu,ENST00000418288,;RFC4,missense_variant,p.Ser157Leu,ENST00000296273,;RFC4,missense_variant,p.Ser157Leu,ENST00000433496,;RFC4,missense_variant,p.Ser157Leu,ENST00000447345,;RFC4,missense_variant,p.Ser157Leu,ENST00000392481,;RFC4,downstream_gene_variant,,ENST00000448497,;RFC4,downstream_gene_variant,,ENST00000427785,;EIF4A2,downstream_gene_variant,,ENST00000356531,;EIF4A2,downstream_gene_variant,,ENST00000440191,;EIF4A2,downstream_gene_variant,,ENST00000323963,;RFC4,upstream_gene_variant,,ENST00000417876,;RFC4,3_prime_UTR_variant,,ENST00000449502,;RFC4,non_coding_transcript_exon_variant,,ENST00000460408,;RFC4,non_coding_transcript_exon_variant,,ENST00000479307,;RFC4,non_coding_transcript_exon_variant,,ENST00000494047,;EIF4A2,downstream_gene_variant,,ENST00000443963,;EIF4A2,downstream_gene_variant,,ENST00000468362,;EIF4A2,downstream_gene_variant,,ENST00000497177,;RFC4,downstream_gene_variant,,ENST00000489028,;EIF4A2,downstream_gene_variant,,ENST00000496382,;EIF4A2,downstream_gene_variant,,ENST00000485101,;EIF4A2,downstream_gene_variant,,ENST00000429589,;EIF4A2,downstream_gene_variant,,ENST00000492144,;EIF4A2,downstream_gene_variant,,ENST00000461021,;EIF4A2,downstream_gene_variant,,ENST00000425053,;EIF4A2,downstream_gene_variant,,ENST00000426808,;EIF4A2,downstream_gene_variant,,ENST00000494445,;	A	ENSG00000163918	ENST00000392481	Transcript	missense_variant	752	470	157	S/L	tCa/tTa	COSM420089	.	.	-1	RFC4	HGNC	9972	protein_coding	YES	CCDS3283.1	ENSP00000376272	RFC4_HUMAN	F8WE44_HUMAN,C9JXZ7_HUMAN,C9JW34_HUMAN,C9JTT7_HUMAN,C9JGY5_HUMAN,C9J8M3_HUMAN	UPI0000125167	.	tolerated(0.23)	benign(0.222)	6/11	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,Pfam_domain:PF00004,hmmpanther:PTHR11669:SF7,hmmpanther:PTHR11669	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTGAGGTC	.	4	BLCA
RFC4	0	.	GRCh37	3	186512523	186512523	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334G>A	p.Asp112Asn	p.D112N	ENST00000392481	5/11	121	104	16	56	56	0	RFC4,missense_variant,p.Asp112Asn,ENST00000418288,;RFC4,missense_variant,p.Asp112Asn,ENST00000427785,;RFC4,missense_variant,p.Asp112Asn,ENST00000296273,;RFC4,missense_variant,p.Asp112Asn,ENST00000433496,;RFC4,missense_variant,p.Asp112Asn,ENST00000447345,;RFC4,missense_variant,p.Asp112Asn,ENST00000392481,;RFC4,downstream_gene_variant,,ENST00000448497,;EIF4A2,downstream_gene_variant,,ENST00000356531,;EIF4A2,downstream_gene_variant,,ENST00000440191,;EIF4A2,downstream_gene_variant,,ENST00000323963,;RFC4,upstream_gene_variant,,ENST00000417876,;RFC4,3_prime_UTR_variant,,ENST00000449502,;RFC4,non_coding_transcript_exon_variant,,ENST00000460408,;RFC4,non_coding_transcript_exon_variant,,ENST00000479307,;RFC4,non_coding_transcript_exon_variant,,ENST00000489028,;RFC4,non_coding_transcript_exon_variant,,ENST00000494047,;EIF4A2,downstream_gene_variant,,ENST00000443963,;EIF4A2,downstream_gene_variant,,ENST00000485101,;EIF4A2,downstream_gene_variant,,ENST00000425053,;EIF4A2,downstream_gene_variant,,ENST00000426808,;	T	ENSG00000163918	ENST00000392481	Transcript	missense_variant	616	334	112	D/N	Gat/Aat	COSM420088	.	.	-1	RFC4	HGNC	9972	protein_coding	YES	CCDS3283.1	ENSP00000376272	RFC4_HUMAN	F8WE44_HUMAN,C9JXZ7_HUMAN,C9JW34_HUMAN,C9JTT7_HUMAN,C9JGY5_HUMAN,C9J8M3_HUMAN	UPI0000125167	.	deleterious(0)	probably_damaging(0.989)	5/11	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,Pfam_domain:PF00004,hmmpanther:PTHR11669:SF7,hmmpanther:PTHR11669	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCATCAGATG	.	4	BLCA
TPRG1	0	.	GRCh37	3	188925327	188925327	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154C>G	p.Leu52Val	p.L52V	ENST00000345063	2/6	257	203	54	187	187	0	TPRG1,missense_variant,p.Leu52Val,ENST00000433971,;TPRG1,missense_variant,p.Leu52Val,ENST00000456832,;TPRG1,missense_variant,p.Leu52Val,ENST00000345063,;TPRG1,missense_variant,p.Leu52Val,ENST00000412373,;TPRG1,non_coding_transcript_exon_variant,,ENST00000460613,;TPRG1,non_coding_transcript_exon_variant,,ENST00000493725,;	G	ENSG00000188001	ENST00000345063	Transcript	missense_variant	321	154	52	L/V	Ctt/Gtt	COSM420084	.	.	1	TPRG1	HGNC	24759	protein_coding	YES	CCDS3292.1	ENSP00000341031	TPRG1_HUMAN	C9JDW1_HUMAN	UPI00001C08BF	.	deleterious(0.01)	benign(0.313)	2/6	.	hmmpanther:PTHR31108,hmmpanther:PTHR31108:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCTTTAC	.	5	BLCA
OPA1	0	.	GRCh37	3	193353228	193353228	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811G>A	p.Glu271Lys	p.E271K	ENST00000361908	8/30	149	131	18	94	94	0	OPA1,missense_variant,p.Glu253Lys,ENST00000361715,;OPA1,missense_variant,p.Glu252Lys,ENST00000361828,;OPA1,missense_variant,p.Glu234Lys,ENST00000392438,;OPA1,missense_variant,p.Glu152Lys,ENST00000434811,;OPA1,missense_variant,p.Glu289Lys,ENST00000361510,;OPA1,missense_variant,p.Glu235Lys,ENST00000361150,;OPA1,missense_variant,p.Glu271Lys,ENST00000361908,;OPA1,non_coding_transcript_exon_variant,,ENST00000497189,;OPA1,non_coding_transcript_exon_variant,,ENST00000495476,;OPA1,upstream_gene_variant,,ENST00000475899,;	A	ENSG00000198836	ENST00000361908	Transcript	missense_variant	1045	811	271	E/K	Gaa/Aaa	COSM420082	.	.	1	OPA1	HGNC	8140	protein_coding	YES	CCDS33917.1	ENSP00000354681	OPA1_HUMAN	Q6PEK6_HUMAN,E5KLJ7_HUMAN,C9JY58_HUMAN	UPI0000422960	.	deleterious(0)	possibly_damaging(0.829)	8/30	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTGGAACGA	.	4	BLCA
OPA1	0	.	GRCh37	3	193364936	193364936	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1783G>C	p.Glu595Gln	p.E595Q	ENST00000361908	18/30	74	69	4	45	45	0	OPA1,missense_variant,p.Glu577Gln,ENST00000361715,;OPA1,missense_variant,p.Glu576Gln,ENST00000361828,;OPA1,missense_variant,p.Glu558Gln,ENST00000392438,;OPA1,missense_variant,p.Glu613Gln,ENST00000361510,;OPA1,missense_variant,p.Glu559Gln,ENST00000361150,;OPA1,missense_variant,p.Glu595Gln,ENST00000361908,;OPA1,non_coding_transcript_exon_variant,,ENST00000483516,;OPA1,downstream_gene_variant,,ENST00000497189,;OPA1,upstream_gene_variant,,ENST00000482865,;OPA1,downstream_gene_variant,,ENST00000475899,;	C	ENSG00000198836	ENST00000361908	Transcript	missense_variant	2017	1783	595	E/Q	Gag/Cag	COSM420081	.	.	1	OPA1	HGNC	8140	protein_coding	YES	CCDS33917.1	ENSP00000354681	OPA1_HUMAN	Q6PEK6_HUMAN,E5KLJ7_HUMAN,C9JY58_HUMAN	UPI0000422960	.	deleterious(0.02)	possibly_damaging(0.77)	18/30	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,hmmpanther:PTHR11566,hmmpanther:PTHR11566:SF12,PROSITE_profiles:PS51718	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACGAGAGTCT	.	2	BLCA
SDHAP1	0	.	GRCh37	3	195713409	195713409	+	RNA	SNP	G	G	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.157C>A	.	.	ENST00000427841	2/17	29	25	4	34	34	0	SDHAP1,non_coding_transcript_exon_variant,,ENST00000413474,;SDHAP1,non_coding_transcript_exon_variant,,ENST00000427841,;SDHAP1,non_coding_transcript_exon_variant,,ENST00000435731,;SDHAP1,non_coding_transcript_exon_variant,,ENST00000427415,;SDHAP1,non_coding_transcript_exon_variant,,ENST00000440850,;SDHAP1,non_coding_transcript_exon_variant,,ENST00000354937,;SDHAP1,intron_variant,,ENST00000538515,;SDHAP1,intron_variant,,ENST00000545003,;	T	ENSG00000185485	ENST00000427841	Transcript	non_coding_transcript_exon_variant	157	.	.	.	.	.	.	.	-1	SDHAP1	HGNC	32455	processed_transcript	YES	.	.	.	.	.	.	.	.	2/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TAGCAGATGCC	.	2	BLCA
DLG1	0	.	GRCh37	3	196778504	196778504	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2618G>A	p.Arg873Lys	p.R873K	ENST00000346964	25/26	161	146	14	110	110	0	DLG1,missense_variant,p.Arg735Lys,ENST00000452595,;DLG1,missense_variant,p.Arg851Lys,ENST00000448528,;DLG1,missense_variant,p.Arg800Lys,ENST00000422288,;DLG1,missense_variant,p.Arg840Lys,ENST00000450955,;DLG1,missense_variant,p.Arg873Lys,ENST00000346964,;DLG1,missense_variant,p.Arg747Lys,ENST00000443183,;DLG1,missense_variant,p.Arg800Lys,ENST00000314062,;DLG1,missense_variant,p.Arg818Lys,ENST00000392382,;DLG1,missense_variant,p.Arg851Lys,ENST00000419354,;DLG1,missense_variant,p.Arg840Lys,ENST00000357674,;DLG1,non_coding_transcript_exon_variant,,ENST00000469371,;DLG1,non_coding_transcript_exon_variant,,ENST00000475394,;	T	ENSG00000075711	ENST00000346964	Transcript	missense_variant	2808	2618	873	R/K	aGa/aAa	COSM420063	.	.	-1	DLG1	HGNC	2900	protein_coding	YES	CCDS3327.1	ENSP00000345731	DLG1_HUMAN	F2Z2L0_HUMAN,C9JUA9_HUMAN,C9JN61_HUMAN,C9J110_HUMAN,A8MUT6_HUMAN	UPI000013CD24	.	tolerated(0.57)	benign(0.063)	25/26	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50052,hmmpanther:PTHR23119,Pfam_domain:PF00625,Gene3D:3.40.50.300,PIRSF_domain:PIRSF001741,SMART_domains:SM00072,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTTTCTGGCT	.	3	BLCA
KAT2B	0	.	GRCh37	3	20082225	20082225	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256C>G	p.Pro86Ala	p.P86A	ENST00000263754	1/18	32	27	4	31	31	0	KAT2B,missense_variant,p.Pro86Ala,ENST00000263754,;KAT2B,non_coding_transcript_exon_variant,,ENST00000426228,;	G	ENSG00000114166	ENST00000263754	Transcript	missense_variant	711	256	86	P/A	Ccg/Gcg	COSM420054	.	.	1	KAT2B	HGNC	8638	protein_coding	YES	CCDS2634.1	ENSP00000263754	KAT2B_HUMAN	.	UPI00002132DE	.	deleterious(0.02)	benign(0.327)	1/18	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF116,Pfam_domain:PF06466,PIRSF_domain:PIRSF003048	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCTCCGCGG	.	4	BLCA
AZI2	0	.	GRCh37	3	28381983	28381983	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126C>T	p.%3D	p.V42V	ENST00000479665	2/8	126	97	29	94	94	0	AZI2,synonymous_variant,p.%3D,ENST00000415852,;AZI2,synonymous_variant,p.%3D,ENST00000334100,;AZI2,synonymous_variant,p.%3D,ENST00000414162,;AZI2,synonymous_variant,p.%3D,ENST00000457172,;AZI2,synonymous_variant,p.%3D,ENST00000479665,;AZI2,synonymous_variant,p.%3D,ENST00000420543,;AZI2,non_coding_transcript_exon_variant,,ENST00000295748,;AZI2,non_coding_transcript_exon_variant,,ENST00000463512,;AZI2,upstream_gene_variant,,ENST00000462936,;AZI2,upstream_gene_variant,,ENST00000492044,;AZI2,upstream_gene_variant,,ENST00000488978,;	A	ENSG00000163512	ENST00000479665	Transcript	synonymous_variant	658	126	42	V	gtC/gtT	COSM420050	.	.	-1	AZI2	HGNC	24002	protein_coding	YES	CCDS2647.1	ENSP00000419371	AZI2_HUMAN	C9JVK8_HUMAN,C9JGA2_HUMAN	UPI000006CE34	.	.	.	2/8	.	hmmpanther:PTHR14432	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGTGACAAG	.	4	BLCA
UBP1	0	.	GRCh37	3	33450953	33450953	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696C>G	p.Ile232Met	p.I232M	ENST00000283629	6/16	199	152	46	209	209	0	UBP1,missense_variant,p.Ile232Met,ENST00000283628,;UBP1,missense_variant,p.Ile232Met,ENST00000283629,;UBP1,missense_variant,p.Ile232Met,ENST00000447368,;UBP1,downstream_gene_variant,,ENST00000456378,;RNU7-110P,upstream_gene_variant,,ENST00000516891,;UBP1,non_coding_transcript_exon_variant,,ENST00000467613,;UBP1,non_coding_transcript_exon_variant,,ENST00000481761,;UBP1,upstream_gene_variant,,ENST00000486388,;UBP1,5_prime_UTR_variant,,ENST00000411650,;	C	ENSG00000153560	ENST00000283629	Transcript	missense_variant	1226	696	232	I/M	atC/atG	COSM420042	.	.	-1	UBP1	HGNC	12507	protein_coding	YES	CCDS2659.1	ENSP00000283629	UBIP1_HUMAN	C9JWL3_HUMAN	UPI00000701D7	.	deleterious(0)	probably_damaging(0.983)	6/16	.	hmmpanther:PTHR11037,hmmpanther:PTHR11037:SF13,Pfam_domain:PF04516	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTGATTTG	.	5	BLCA
UBP1	0	.	GRCh37	3	33458292	33458292	+	Silent	SNP	C	C	G	rs762960251	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300G>C	p.%3D	p.R100R	ENST00000283629	3/16	115	86	29	100	100	0	UBP1,synonymous_variant,p.%3D,ENST00000456378,;UBP1,synonymous_variant,p.%3D,ENST00000283628,;UBP1,synonymous_variant,p.%3D,ENST00000283629,;UBP1,synonymous_variant,p.%3D,ENST00000447368,;RNU7-110P,downstream_gene_variant,,ENST00000516891,;UBP1,non_coding_transcript_exon_variant,,ENST00000496310,;UBP1,non_coding_transcript_exon_variant,,ENST00000481761,;UBP1,upstream_gene_variant,,ENST00000467613,;	G	ENSG00000153560	ENST00000283629	Transcript	synonymous_variant	830	300	100	R	cgG/cgC	rs762960251,COSM420041	.	.	-1	UBP1	HGNC	12507	protein_coding	YES	CCDS2659.1	ENSP00000283629	UBIP1_HUMAN	C9JWL3_HUMAN	UPI00000701D7	.	.	.	3/16	.	hmmpanther:PTHR11037,hmmpanther:PTHR11037:SF13,Pfam_domain:PF04516	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCCGATT	.	5	BLCA
SCN11A	0	.	GRCh37	3	38921615	38921615	+	Splice_Site	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3220-1G>C	.	p.X1074_splice	ENST00000302328	.	40	32	8	58	58	0	SCN11A,splice_acceptor_variant,,ENST00000450244,;SCN11A,splice_acceptor_variant,,ENST00000302328,;SCN11A,splice_acceptor_variant,,ENST00000444237,;SCN11A,splice_acceptor_variant,,ENST00000456224,;	G	ENSG00000168356	ENST00000302328	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM420020	.	.	-1	SCN11A	HGNC	10583	protein_coding	YES	CCDS33737.1	ENSP00000307599	SCNBA_HUMAN	.	UPI000006CCD7	.	.	.	.	18/25	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATCTGAAA	.	5	BLCA
CX3CR1	0	.	GRCh37	3	39307706	39307706	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391A>T	p.Asn131Tyr	p.N131Y	ENST00000358309	2/2	158	116	42	155	155	0	CX3CR1,missense_variant,p.Asn99Tyr,ENST00000542107,;CX3CR1,missense_variant,p.Asn99Tyr,ENST00000435290,;CX3CR1,missense_variant,p.Asn99Tyr,ENST00000399220,;CX3CR1,missense_variant,p.Asn131Tyr,ENST00000358309,;CX3CR1,missense_variant,p.Asn99Tyr,ENST00000541347,;CX3CR1,missense_variant,p.Asn99Tyr,ENST00000412814,;	A	ENSG00000168329	ENST00000358309	Transcript	missense_variant	431	391	131	N/Y	Aat/Tat	COSM420017,COSM1133692	.	.	-1	CX3CR1	HGNC	2558	protein_coding	YES	CCDS54571.1	ENSP00000351059	CX3C1_HUMAN	C9JN40_HUMAN,C9JLM2_HUMAN	UPI00004570E5	.	deleterious(0)	possibly_damaging(0.861)	2/2	.	Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,hmmpanther:PTHR24227:SF9,hmmpanther:PTHR24227,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCATTGTGGA	.	5	BLCA
ZNF620	0	.	GRCh37	3	40557421	40557421	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.336C>G	p.Phe112Leu	p.F112L	ENST00000314529	5/5	71	55	16	67	67	0	ZNF620,missense_variant,p.Phe112Leu,ENST00000420891,;ZNF620,missense_variant,p.Phe112Leu,ENST00000314529,;ZNF620,5_prime_UTR_variant,,ENST00000418905,;ZNF620,downstream_gene_variant,,ENST00000433723,;	G	ENSG00000177842	ENST00000314529	Transcript	missense_variant	485	336	112	F/L	ttC/ttG	COSM420014	.	.	1	ZNF620	HGNC	28742	protein_coding	YES	CCDS33740.1	ENSP00000322265	ZN620_HUMAN	C9J967_HUMAN	UPI00001D7F23	.	tolerated(0.16)	benign(0.001)	5/5	.	hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF114	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCAGACT	.	5	BLCA
NKTR	0	.	GRCh37	3	42672757	42672757	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499G>C	p.Asp167His	p.D167H	ENST00000232978	8/17	71	54	17	66	66	0	NKTR,missense_variant,p.Asp167His,ENST00000232978,;RP4-613B23.1,intron_variant,,ENST00000445452,;RP4-613B23.1,intron_variant,,ENST00000438017,;RP4-613B23.1,downstream_gene_variant,,ENST00000434363,;NKTR,3_prime_UTR_variant,,ENST00000429888,;NKTR,non_coding_transcript_exon_variant,,ENST00000465584,;NKTR,non_coding_transcript_exon_variant,,ENST00000466553,;NKTR,non_coding_transcript_exon_variant,,ENST00000468735,;NKTR,non_coding_transcript_exon_variant,,ENST00000472127,;NKTR,non_coding_transcript_exon_variant,,ENST00000498730,;NKTR,upstream_gene_variant,,ENST00000508351,;NKTR,upstream_gene_variant,,ENST00000464315,;NKTR,upstream_gene_variant,,ENST00000472258,;NKTR,upstream_gene_variant,,ENST00000460807,;NKTR,downstream_gene_variant,,ENST00000478488,;NKTR,downstream_gene_variant,,ENST00000487466,;	C	ENSG00000114857	ENST00000232978	Transcript	missense_variant	687	499	167	D/H	Gat/Cat	COSM420010	.	.	1	NKTR	HGNC	7833	protein_coding	YES	CCDS2702.1	ENSP00000232978	NKTR_HUMAN	.	UPI00001301FD	.	deleterious_low_confidence(0)	unknown(0)	8/17	.	PROSITE_profiles:PS50072,hmmpanther:PTHR11071:SF30,hmmpanther:PTHR11071,Gene3D:2.40.100.10,Pfam_domain:PF00160,Superfamily_domains:SSF50891	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCAGATGTG	.	5	BLCA
KLHL40	0	.	GRCh37	3	42730464	42730464	+	Missense_Mutation	SNP	G	G	A	rs757566258	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1525G>A	p.Asp509Asn	p.D509N	ENST00000287777	4/6	90	67	23	87	87	0	KLHL40,missense_variant,p.Asp509Asn,ENST00000287777,;HHATL,downstream_gene_variant,,ENST00000310417,;HHATL,downstream_gene_variant,,ENST00000441594,;HHATL,downstream_gene_variant,,ENST00000426666,;CCDC13,downstream_gene_variant,,ENST00000479631,;HHATL,downstream_gene_variant,,ENST00000466007,;HHATL,downstream_gene_variant,,ENST00000480939,;HHATL,downstream_gene_variant,,ENST00000490003,;	A	ENSG00000157119	ENST00000287777	Transcript	missense_variant	1625	1525	509	D/N	Gat/Aat	rs757566258,COSM420006	.	.	1	KLHL40	HGNC	30372	protein_coding	YES	CCDS2703.1	ENSP00000287777	KLH40_HUMAN	.	UPI000000D866	.	tolerated(0.69)	benign(0.009)	4/6	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF22,Pfam_domain:PF01344,Gene3D:1zgkA00,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATGATGGC	byFrequency	5	BLCA
KIF15	0	.	GRCh37	3	44893313	44893313	+	Missense_Mutation	SNP	G	G	C	rs77808243	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3841G>C	p.Glu1281Gln	p.E1281Q	ENST00000326047	33/35	218	173	45	196	196	0	KIF15,missense_variant,p.Glu916Gln,ENST00000425755,;KIF15,missense_variant,p.Glu1281Gln,ENST00000326047,;KIF15,missense_variant,p.Glu87Gln,ENST00000422209,;KIF15,3_prime_UTR_variant,,ENST00000438321,;KIF15,3_prime_UTR_variant,,ENST00000453693,;	C	ENSG00000163808	ENST00000326047	Transcript	missense_variant	3990	3841	1281	E/Q	Gag/Cag	rs77808243,COSM420001	.	.	1	KIF15	HGNC	17273	protein_coding	YES	CCDS33744.1	ENSP00000324020	KIF15_HUMAN	D6RCT7_HUMAN	UPI000006DB0E	.	tolerated(0.16)	possibly_damaging(0.611)	33/35	.	hmmpanther:PTHR24115:SF87,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAAAGAGATG	suspect|byCluster	5	BLCA
FBXW12	0	.	GRCh37	3	48423544	48423544	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1264G>T	p.Glu422Ter	p.E422*	ENST00000296438	10/11	63	51	12	73	73	0	FBXW12,stop_gained,p.Glu403Ter,ENST00000445170,;FBXW12,stop_gained,p.Glu265Ter,ENST00000436231,;FBXW12,stop_gained,p.Glu422Ter,ENST00000296438,;FBXW12,stop_gained,p.Glu352Ter,ENST00000415155,;RN7SL321P,downstream_gene_variant,,ENST00000581742,;FBXW12,non_coding_transcript_exon_variant,,ENST00000468158,;FBXW12,non_coding_transcript_exon_variant,,ENST00000477542,;	T	ENSG00000164049	ENST00000296438	Transcript	stop_gained	1450	1264	422	E/*	Gaa/Taa	COSM419974,COSM139454	.	.	1	FBXW12	HGNC	20729	protein_coding	YES	CCDS2764.1	ENSP00000296438	FBW12_HUMAN	C9JK86_HUMAN	UPI00004123F1	.	.	.	10/11	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTGGAAAAC	.	5	BLCA
COL7A1	0	.	GRCh37	3	48621376	48621376	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4235G>A	p.Gly1412Glu	p.G1412E	ENST00000328333	38/118	67	58	9	44	44	0	COL7A1,missense_variant,p.Gly1412Glu,ENST00000328333,;COL7A1,missense_variant,p.Gly1412Glu,ENST00000454817,;MIR711,upstream_gene_variant,,ENST00000390201,;COL7A1,non_coding_transcript_exon_variant,,ENST00000487017,;	T	ENSG00000114270	ENST00000328333	Transcript	missense_variant	4343	4235	1412	G/E	gGa/gAa	COSM419967	.	.	-1	COL7A1	HGNC	2214	protein_coding	YES	CCDS2773.1	ENSP00000332371	CO7A1_HUMAN	.	UPI0000126D20	.	.	unknown(0)	38/118	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGTCCAGGG	.	4	BLCA
UQCRC1	0	.	GRCh37	3	48641043	48641043	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660C>T	p.%3D	p.L220L	ENST00000203407	6/13	56	48	8	46	46	0	UQCRC1,synonymous_variant,p.%3D,ENST00000203407,;UQCRC1,3_prime_UTR_variant,,ENST00000415995,;UQCRC1,3_prime_UTR_variant,,ENST00000412343,;UQCRC1,non_coding_transcript_exon_variant,,ENST00000460105,;UQCRC1,non_coding_transcript_exon_variant,,ENST00000472438,;UQCRC1,downstream_gene_variant,,ENST00000467690,;UQCRC1,upstream_gene_variant,,ENST00000480561,;UQCRC1,upstream_gene_variant,,ENST00000471189,;UQCRC1,downstream_gene_variant,,ENST00000463708,;	A	ENSG00000010256	ENST00000203407	Transcript	synonymous_variant	1077	660	220	L	ctC/ctT	COSM419966	.	.	-1	UQCRC1	HGNC	12585	protein_coding	YES	CCDS2774.1	ENSP00000203407	QCR1_HUMAN	B4DZB9_HUMAN	UPI000006DFD4	.	.	.	6/13	.	hmmpanther:PTHR11851:SF116,hmmpanther:PTHR11851,Gene3D:3.30.830.10,Pfam_domain:PF05193,Superfamily_domains:SSF63411	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGCTGAGGTA	.	4	BLCA
CELSR3	0	.	GRCh37	3	48684260	48684260	+	Missense_Mutation	SNP	G	G	A	rs747348369	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7231C>T	p.Leu2411Phe	p.L2411F	ENST00000164024	21/35	59	43	16	49	49	0	CELSR3,missense_variant,p.Leu2416Phe,ENST00000544264,;CELSR3,missense_variant,p.Leu2411Phe,ENST00000164024,;MIR4793,upstream_gene_variant,,ENST00000577502,;CELSR3,upstream_gene_variant,,ENST00000461362,;CELSR3,upstream_gene_variant,,ENST00000470999,;CELSR3,upstream_gene_variant,,ENST00000498057,;	A	ENSG00000008300	ENST00000164024	Transcript	missense_variant	7512	7231	2411	L/F	Ctc/Ttc	rs747348369,COSM419965	.	.	-1	CELSR3	HGNC	3230	protein_coding	YES	CCDS2775.1	ENSP00000164024	CELR3_HUMAN	B4DSQ9_HUMAN	UPI00001AE5A6	.	deleterious(0.05)	probably_damaging(0.965)	21/35	.	Pfam_domain:PF12003,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF38	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACGAGGAGAA	.	5	BLCA
BSN	0	.	GRCh37	3	49690134	49690134	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3145G>C	p.Glu1049Gln	p.E1049Q	ENST00000296452	5/12	38	30	8	50	50	0	BSN,missense_variant,p.Glu1049Gln,ENST00000296452,;BSN,downstream_gene_variant,,ENST00000467456,;	C	ENSG00000164061	ENST00000296452	Transcript	missense_variant	3259	3145	1049	E/Q	Gaa/Caa	COSM419947	.	.	1	BSN	HGNC	1117	protein_coding	YES	CCDS2800.1	ENSP00000296452	BSN_HUMAN	.	UPI000013E33C	.	.	unknown(0)	5/12	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14113:SF1,hmmpanther:PTHR14113	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGAGGAAGAG	.	5	BLCA
CAMKV	0	.	GRCh37	3	49899235	49899235	+	Missense_Mutation	SNP	G	G	C	rs772142038	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>G	p.Ile97Met	p.I97M	ENST00000477224	4/11	83	68	15	97	97	0	CAMKV,missense_variant,p.Ile97Met,ENST00000466940,;CAMKV,missense_variant,p.Ile97Met,ENST00000463537,;CAMKV,missense_variant,p.Ile22Met,ENST00000467248,;CAMKV,missense_variant,p.Ile97Met,ENST00000488336,;CAMKV,missense_variant,p.Ile97Met,ENST00000477224,;CAMKV,missense_variant,p.Ile97Met,ENST00000296471,;CAMKV,intron_variant,,ENST00000480398,;RN7SL217P,downstream_gene_variant,,ENST00000584520,;CAMKV,non_coding_transcript_exon_variant,,ENST00000498324,;CAMKV,missense_variant,p.Ile97Met,ENST00000466535,;CAMKV,missense_variant,p.Leu84Val,ENST00000487726,;CAMKV,non_coding_transcript_exon_variant,,ENST00000472895,;CAMKV,non_coding_transcript_exon_variant,,ENST00000475665,;CAMKV,non_coding_transcript_exon_variant,,ENST00000476105,;CAMKV,non_coding_transcript_exon_variant,,ENST00000483811,;CAMKV,intron_variant,,ENST00000479704,;CAMKV,upstream_gene_variant,,ENST00000478149,;	C	ENSG00000164076	ENST00000477224	Transcript	missense_variant	770	291	97	I/M	atC/atG	rs772142038,COSM419940	.	.	-1	CAMKV	HGNC	28788	protein_coding	YES	CCDS33762.1	ENSP00000419195	CAMKV_HUMAN	B4DM24_HUMAN	UPI000004184F	.	deleterious(0.04)	probably_damaging(0.962)	4/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24347,hmmpanther:PTHR24347:SF18,Pfam_domain:PF00069,Gene3D:3.30.200.20,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGATAAA	.	5	BLCA
CYB561D2	0	.	GRCh37	3	50390669	50390669	+	Intron	SNP	C	C	T	rs201754397	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166-3C>T	.	.	ENST00000418577	.	220	166	54	200	200	0	CYB561D2,splice_region_variant,,ENST00000424512,;CYB561D2,splice_region_variant,,ENST00000418577,;CYB561D2,splice_region_variant,,ENST00000232508,;CYB561D2,splice_region_variant,,ENST00000425346,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;TMEM115,downstream_gene_variant,,ENST00000266025,;NPRL2,upstream_gene_variant,,ENST00000232501,;CYB561D2,splice_region_variant,,ENST00000419046,;CYB561D2,intron_variant,,ENST00000490926,;NPRL2,upstream_gene_variant,,ENST00000493465,;NPRL2,upstream_gene_variant,,ENST00000479512,;NPRL2,upstream_gene_variant,,ENST00000487632,;NPRL2,upstream_gene_variant,,ENST00000493907,;NPRL2,upstream_gene_variant,,ENST00000492805,;NPRL2,upstream_gene_variant,,ENST00000429366,;NPRL2,upstream_gene_variant,,ENST00000433999,;NPRL2,upstream_gene_variant,,ENST00000448302,;NPRL2,upstream_gene_variant,,ENST00000476064,;NPRL2,upstream_gene_variant,,ENST00000418825,;NPRL2,upstream_gene_variant,,ENST00000461020,;NPRL2,upstream_gene_variant,,ENST00000433381,;NPRL2,upstream_gene_variant,,ENST00000469839,;NPRL2,upstream_gene_variant,,ENST00000451194,;NPRL2,upstream_gene_variant,,ENST00000467294,;NPRL2,upstream_gene_variant,,ENST00000480296,;	T	ENSG00000114395	ENST00000418577	Transcript	splice_region_variant	.	.	.	.	.	rs201754397	.	.	1	CYB561D2	HGNC	30253	protein_coding	YES	CCDS2827.1	ENSP00000391209	C56D2_HUMAN	.	UPI000000DC32	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCAGTTC	.	4	BLCA
CYB561D2	0	.	GRCh37	3	50391174	50391174	+	Nonstop_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.668G>C	p.Ter223SerextTer15	p.*223Sext*15	ENST00000418577	3/3	129	105	23	159	159	0	CYB561D2,stop_lost,p.Ter223SerextTer15,ENST00000424512,;CYB561D2,stop_lost,p.Ter223SerextTer15,ENST00000418577,;CYB561D2,stop_lost,p.Ter223SerextTer15,ENST00000232508,;CYB561D2,stop_lost,p.Ter223SerextTer15,ENST00000425346,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;TMEM115,downstream_gene_variant,,ENST00000266025,;NPRL2,upstream_gene_variant,,ENST00000232501,;CYB561D2,intron_variant,,ENST00000490926,;NPRL2,upstream_gene_variant,,ENST00000493465,;CYB561D2,downstream_gene_variant,,ENST00000419046,;NPRL2,upstream_gene_variant,,ENST00000479512,;NPRL2,upstream_gene_variant,,ENST00000487632,;NPRL2,upstream_gene_variant,,ENST00000493907,;NPRL2,upstream_gene_variant,,ENST00000492805,;NPRL2,upstream_gene_variant,,ENST00000429366,;NPRL2,upstream_gene_variant,,ENST00000433999,;NPRL2,upstream_gene_variant,,ENST00000448302,;NPRL2,upstream_gene_variant,,ENST00000476064,;NPRL2,upstream_gene_variant,,ENST00000418825,;NPRL2,upstream_gene_variant,,ENST00000461020,;NPRL2,upstream_gene_variant,,ENST00000433381,;NPRL2,upstream_gene_variant,,ENST00000469839,;NPRL2,upstream_gene_variant,,ENST00000451194,;NPRL2,upstream_gene_variant,,ENST00000467294,;NPRL2,upstream_gene_variant,,ENST00000480296,;	C	ENSG00000114395	ENST00000418577	Transcript	stop_lost	1244	668	223	*/S	tGa/tCa	COSM420376	.	.	1	CYB561D2	HGNC	30253	protein_coding	YES	CCDS2827.1	ENSP00000391209	C56D2_HUMAN	.	UPI000000DC32	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATGAGCTC	.	5	BLCA
CYB561D2	0	.	GRCh37	3	50391323	50391323	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*148C>G	.	.	ENST00000418577	3/3	13	10	3	19	19	0	CYB561D2,3_prime_UTR_variant,,ENST00000424512,;CYB561D2,3_prime_UTR_variant,,ENST00000418577,;CYB561D2,3_prime_UTR_variant,,ENST00000232508,;CYB561D2,3_prime_UTR_variant,,ENST00000425346,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;TMEM115,downstream_gene_variant,,ENST00000266025,;NPRL2,upstream_gene_variant,,ENST00000232501,;CYB561D2,intron_variant,,ENST00000490926,;CYB561D2,downstream_gene_variant,,ENST00000419046,;NPRL2,upstream_gene_variant,,ENST00000479512,;NPRL2,upstream_gene_variant,,ENST00000487632,;NPRL2,upstream_gene_variant,,ENST00000493907,;NPRL2,upstream_gene_variant,,ENST00000492805,;NPRL2,upstream_gene_variant,,ENST00000429366,;NPRL2,upstream_gene_variant,,ENST00000433999,;NPRL2,upstream_gene_variant,,ENST00000448302,;NPRL2,upstream_gene_variant,,ENST00000476064,;NPRL2,upstream_gene_variant,,ENST00000418825,;NPRL2,upstream_gene_variant,,ENST00000461020,;NPRL2,upstream_gene_variant,,ENST00000433381,;NPRL2,upstream_gene_variant,,ENST00000469839,;NPRL2,upstream_gene_variant,,ENST00000451194,;NPRL2,upstream_gene_variant,,ENST00000467294,;NPRL2,upstream_gene_variant,,ENST00000480296,;	G	ENSG00000114395	ENST00000418577	Transcript	3_prime_UTR_variant	1393	.	.	.	.	.	.	.	1	CYB561D2	HGNC	30253	protein_coding	YES	CCDS2827.1	ENSP00000391209	C56D2_HUMAN	.	UPI000000DC32	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCCTCAT	.	2	BLCA
RFT1	0	.	GRCh37	3	53157763	53157763	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243G>A	p.%3D	p.Q81Q	ENST00000296292	3/13	65	52	13	76	76	0	RFT1,synonymous_variant,p.%3D,ENST00000296292,;RFT1,synonymous_variant,p.%3D,ENST00000467048,;RFT1,intron_variant,,ENST00000394738,;RFT1,upstream_gene_variant,,ENST00000471158,;	T	ENSG00000163933	ENST00000296292	Transcript	synonymous_variant	305	243	81	Q	caG/caA	COSM420351	.	.	-1	RFT1	HGNC	30220	protein_coding	YES	CCDS2869.1	ENSP00000296292	RFT1_HUMAN	.	UPI000000DA67	.	.	.	3/13	.	hmmpanther:PTHR13117,Pfam_domain:PF04506	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGTCTGGCT	.	5	BLCA
DCP1A	0	.	GRCh37	3	53326414	53326414	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068G>A	p.%3D	p.L356L	ENST00000607628	7/10	94	68	26	90	89	0	DCP1A,synonymous_variant,p.%3D,ENST00000606822,;DCP1A,synonymous_variant,p.%3D,ENST00000607628,;DCP1A,synonymous_variant,p.%3D,ENST00000294241,;RN7SL821P,downstream_gene_variant,,ENST00000579907,;Y_RNA,downstream_gene_variant,,ENST00000384175,;DCP1A,non_coding_transcript_exon_variant,,ENST00000480258,;DCP1A,non_coding_transcript_exon_variant,,ENST00000494659,;DCP1A,downstream_gene_variant,,ENST00000560624,;DCP1A,upstream_gene_variant,,ENST00000558034,;	T	ENSG00000162290	ENST00000607628	Transcript	synonymous_variant	1178	1068	356	L	ctG/ctA	COSM420345	.	.	-1	DCP1A	HGNC	18714	protein_coding	YES	.	ENSP00000475920	.	U3KQI9_HUMAN	UPI00001AEBBA	.	.	.	7/10	.	hmmpanther:PTHR16290,hmmpanther:PTHR16290:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGTTCAGGAG	.	2	BLCA
CCDC66	0	.	GRCh37	3	56647736	56647736	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1524G>A	p.%3D	p.Q508Q	ENST00000394672	11/18	121	93	27	120	120	0	CCDC66,synonymous_variant,p.%3D,ENST00000422222,;CCDC66,synonymous_variant,p.%3D,ENST00000394672,;CCDC66,synonymous_variant,p.%3D,ENST00000326595,;CCDC66,synonymous_variant,p.%3D,ENST00000436465,;CCDC66,non_coding_transcript_exon_variant,,ENST00000484623,;CCDC66,3_prime_UTR_variant,,ENST00000471681,;CCDC66,3_prime_UTR_variant,,ENST00000341455,;CCDC66,non_coding_transcript_exon_variant,,ENST00000468108,;CCDC66,upstream_gene_variant,,ENST00000480884,;CCDC66,upstream_gene_variant,,ENST00000476142,;	A	ENSG00000180376	ENST00000394672	Transcript	synonymous_variant	1594	1524	508	Q	caG/caA	COSM420337,COSM420336	.	.	1	CCDC66	HGNC	27709	protein_coding	YES	CCDS46852.1	ENSP00000378167	CCD66_HUMAN	F8WCY0_HUMAN	UPI000020ADBC	.	.	.	11/18	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF15236,hmmpanther:PTHR22736:SF1,hmmpanther:PTHR22736	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGAAACA	.	5	BLCA
PDHB	0	.	GRCh37	3	58414123	58414123	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934+77G>C	.	.	ENST00000302746	.	46	41	4	58	58	0	PDHB,missense_variant,p.Lys319Asn,ENST00000474765,;PDHB,intron_variant,,ENST00000302746,;PDHB,intron_variant,,ENST00000383714,;PDHB,intron_variant,,ENST00000485460,;PXK,downstream_gene_variant,,ENST00000536660,;PXK,downstream_gene_variant,,ENST00000463280,;PXK,downstream_gene_variant,,ENST00000479241,;PXK,downstream_gene_variant,,ENST00000356151,;PXK,downstream_gene_variant,,ENST00000383716,;PXK,downstream_gene_variant,,ENST00000479134,;PXK,downstream_gene_variant,,ENST00000302779,;PXK,downstream_gene_variant,,ENST00000493474,;RP11-802O23.3,non_coding_transcript_exon_variant,,ENST00000607214,;PDHB,non_coding_transcript_exon_variant,,ENST00000479945,;PDHB,intron_variant,,ENST00000469364,;PDHB,intron_variant,,ENST00000461692,;PDHB,downstream_gene_variant,,ENST00000482894,;PDHB,downstream_gene_variant,,ENST00000469827,;PDHB,downstream_gene_variant,,ENST00000480626,;PXK,downstream_gene_variant,,ENST00000468776,;PXK,downstream_gene_variant,,ENST00000477308,;	G	ENSG00000168291	ENST00000302746	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PDHB	HGNC	8808	protein_coding	YES	CCDS2890.1	ENSP00000307241	ODPB_HUMAN	.	UPI000013E81D	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATCTCTTTAT	.	3	BLCA
GBE1	0	.	GRCh37	3	81586104	81586104	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1761G>A	p.Met587Ile	p.M587I	ENST00000429644	13/16	103	84	19	100	100	0	GBE1,missense_variant,p.Met546Ile,ENST00000489715,;GBE1,missense_variant,p.Met587Ile,ENST00000429644,;GBE1,non_coding_transcript_exon_variant,,ENST00000484687,;	T	ENSG00000114480	ENST00000429644	Transcript	missense_variant	2405	1761	587	M/I	atG/atA	COSM420293,COSM420292	.	.	-1	GBE1	HGNC	4180	protein_coding	YES	CCDS54612.1	ENSP00000410833	GLGB_HUMAN	.	UPI0000209A24	.	deleterious(0.03)	probably_damaging(0.989)	13/16	.	hmmpanther:PTHR10357,hmmpanther:PTHR10357:SF110,Gene3D:3.20.20.80,PIRSF_domain:PIRSF000463,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATTCATATC	.	5	BLCA
RAD18	0	.	GRCh37	3	8922890	8922890	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*151G>C	.	.	ENST00000264926	13/13	11	8	3	15	15	0	RAD18,3_prime_UTR_variant,,ENST00000264926,;RAD18,intron_variant,,ENST00000427329,;RAD18,downstream_gene_variant,,ENST00000415439,;RAD18,downstream_gene_variant,,ENST00000473069,;	G	ENSG00000070950	ENST00000264926	Transcript	3_prime_UTR_variant	1756	.	.	.	.	.	.	.	-1	RAD18	HGNC	18278	protein_coding	YES	CCDS2571.1	ENSP00000264926	RAD18_HUMAN	H7C0A5_HUMAN,C9J0Q4_HUMAN	UPI000013D592	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTCTGGAA	.	2	BLCA
CLDND1	0	.	GRCh37	3	98241652	98241652	+	Intron	SNP	G	G	A	rs773471437	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7+41C>T	.	.	ENST00000437922	.	85	73	12	36	36	0	CLDND1,5_prime_UTR_variant,,ENST00000514537,;CLDND1,5_prime_UTR_variant,,ENST00000507944,;CLDND1,5_prime_UTR_variant,,ENST00000508071,;CLDND1,intron_variant,,ENST00000511667,;CLDND1,intron_variant,,ENST00000507874,;CLDND1,intron_variant,,ENST00000341181,;CLDND1,intron_variant,,ENST00000394181,;CLDND1,intron_variant,,ENST00000503621,;CLDND1,intron_variant,,ENST00000394185,;CLDND1,intron_variant,,ENST00000394180,;CLDND1,intron_variant,,ENST00000508659,;CLDND1,intron_variant,,ENST00000512147,;CLDND1,intron_variant,,ENST00000508902,;CLDND1,intron_variant,,ENST00000510541,;CLDND1,intron_variant,,ENST00000510545,;CLDND1,intron_variant,,ENST00000502299,;CLDND1,intron_variant,,ENST00000502288,;CLDND1,intron_variant,,ENST00000511081,;CLDND1,intron_variant,,ENST00000437922,;CLDND1,upstream_gene_variant,,ENST00000503004,;CLDND1,upstream_gene_variant,,ENST00000506575,;CLDND1,upstream_gene_variant,,ENST00000506885,;CLDND1,upstream_gene_variant,,ENST00000513452,;CLDND1,upstream_gene_variant,,ENST00000515620,;CLDND1,upstream_gene_variant,,ENST00000513287,;RP11-227H4.5,non_coding_transcript_exon_variant,,ENST00000502999,;CLDND1,intron_variant,,ENST00000508503,;CLDND1,intron_variant,,ENST00000513988,;CPOX,intron_variant,,ENST00000512905,;CLDND1,intron_variant,,ENST00000503799,;CLDND1,intron_variant,,ENST00000502980,;CLDND1,intron_variant,,ENST00000507411,;RPL38P4,downstream_gene_variant,,ENST00000502376,;	A	ENSG00000080822	ENST00000437922	Transcript	intron_variant	.	.	.	.	.	rs773471437	.	.	-1	CLDND1	HGNC	1322	protein_coding	YES	CCDS46877.1	ENSP00000388457	.	J3KQ67_HUMAN,D6RIU2_HUMAN,D6RHU6_HUMAN,D6RFX6_HUMAN,D6RDY1_HUMAN,D6RDP6_HUMAN,D6RDI6_HUMAN,D6RD48_HUMAN,D6RCR8_HUMAN,D6RCP3_HUMAN,D6RCE6_HUMAN,D6RB31_HUMAN,D6RA76_HUMAN,D6R9S8_HUMAN	UPI0000469E7B	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCGCGACGCG	.	2	BLCA
CMSS1	0	.	GRCh37	3	99865849	99865849	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.97G>A	p.Glu33Lys	p.E33K	ENST00000421999	2/10	61	50	11	44	44	0	CMSS1,missense_variant,p.Glu15Lys,ENST00000489081,;CMSS1,missense_variant,p.Glu33Lys,ENST00000421999,;CMSS1,5_prime_UTR_variant,,ENST00000463526,;CMSS1,3_prime_UTR_variant,,ENST00000491299,;	A	ENSG00000184220	ENST00000421999	Transcript	missense_variant	243	97	33	E/K	Gaa/Aaa	COSM279404,COSM420270	.	.	1	CMSS1	HGNC	28666	protein_coding	YES	CCDS2935.1	ENSP00000410396	CMS1_HUMAN	D3DN44_HUMAN,C9IY68_HUMAN	UPI00001B0297	.	tolerated(0.51)	benign(0.002)	2/10	.	hmmpanther:PTHR24030	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACAGAAGTG	.	5	BLCA
SEC24B	0	.	GRCh37	4	110442741	110442741	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2467C>T	p.%3D	p.L823L	ENST00000265175	14/24	45	32	12	73	73	0	SEC24B,synonymous_variant,p.%3D,ENST00000265175,;SEC24B,synonymous_variant,p.%3D,ENST00000504968,;SEC24B,synonymous_variant,p.%3D,ENST00000399100,;	T	ENSG00000138802	ENST00000265175	Transcript	synonymous_variant	2522	2467	823	L	Ctg/Ttg	COSM420245,COSM420244	.	.	1	SEC24B	HGNC	10704	protein_coding	YES	CCDS47124.1	ENSP00000265175	SC24B_HUMAN	B4E2E1_HUMAN	UPI00004F6ED7	.	.	.	14/24	.	hmmpanther:PTHR13803,hmmpanther:PTHR13803:SF7,Pfam_domain:PF04811,Gene3D:3.40.50.410,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCTGCAA	.	5	BLCA
NDST3	0	.	GRCh37	4	119163257	119163257	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2352G>C	p.Gln784His	p.Q784H	ENST00000296499	12/14	218	168	49	190	190	0	NDST3,missense_variant,p.Gln784His,ENST00000296499,;NDST3,downstream_gene_variant,,ENST00000433996,;	C	ENSG00000164100	ENST00000296499	Transcript	missense_variant	2755	2352	784	Q/H	caG/caC	COSM420232	.	.	1	NDST3	HGNC	7682	protein_coding	YES	CCDS3708.1	ENSP00000296499	NDST3_HUMAN	.	UPI0000071C44	.	deleterious(0)	probably_damaging(0.997)	12/14	.	hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF15,Pfam_domain:PF00685,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACAGAAGTT	.	5	BLCA
FAT4	0	.	GRCh37	4	126241888	126241888	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4322C>T	p.Ser1441Leu	p.S1441L	ENST00000394329	1/17	208	165	42	211	211	0	FAT4,missense_variant,p.Ser1441Leu,ENST00000394329,;	T	ENSG00000196159	ENST00000394329	Transcript	missense_variant	4335	4322	1441	S/L	tCa/tTa	COSM420218,COSM420217	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	benign(0.378)	1/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCAGTGA	.	5	BLCA
FAT4	0	.	GRCh37	4	126371358	126371358	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9187G>C	p.Asp3063His	p.D3063H	ENST00000394329	9/17	93	67	26	103	103	0	FAT4,missense_variant,p.Asp3063His,ENST00000394329,;FAT4,missense_variant,p.Asp1361His,ENST00000335110,;FAT4,downstream_gene_variant,,ENST00000509444,;	C	ENSG00000196159	ENST00000394329	Transcript	missense_variant	9200	9187	3063	D/H	Gat/Cat	COSM420210,COSM420209	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	probably_damaging(1)	9/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAGGATAAG	.	5	BLCA
FAT4	0	.	GRCh37	4	126371891	126371891	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9720C>G	p.%3D	p.L3240L	ENST00000394329	9/17	149	126	23	126	126	0	FAT4,synonymous_variant,p.%3D,ENST00000394329,;FAT4,synonymous_variant,p.%3D,ENST00000335110,;FAT4,downstream_gene_variant,,ENST00000509444,;	G	ENSG00000196159	ENST00000394329	Transcript	synonymous_variant	9733	9720	3240	L	ctC/ctG	COSM3428133,COSM420208,COSM420207,COSM3428132	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	.	9/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTCTTTGT	.	5	BLCA
USP38	0	.	GRCh37	4	144107121	144107121	+	Missense_Mutation	SNP	G	G	A	rs199547940	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.518G>A	p.Arg173Gln	p.R173Q	ENST00000307017	1/10	187	148	39	168	168	0	USP38,missense_variant,p.Arg173Gln,ENST00000510377,;USP38,missense_variant,p.Arg173Gln,ENST00000307017,;RP11-284M14.1,upstream_gene_variant,,ENST00000507486,;RP11-284M14.1,upstream_gene_variant,,ENST00000507826,;USP38,missense_variant,p.Arg92Gln,ENST00000511739,;	A	ENSG00000170185	ENST00000307017	Transcript	missense_variant	1024	518	173	R/Q	cGa/cAa	rs199547940,COSM3940756,COSM420184	.	.	1	USP38	HGNC	20067	protein_coding	YES	CCDS3758.1	ENSP00000303434	UBP38_HUMAN	B3KSB9_HUMAN	UPI0000047AF9	.	tolerated(0.12)	possibly_damaging(0.791)	1/10	.	hmmpanther:PTHR24006:SF386,hmmpanther:PTHR24006	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTCGAACGA	byCluster|by1000G	5	BLCA
PRSS48	0	.	GRCh37	4	152204409	152204409	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622G>T	p.Asp208Tyr	p.D208Y	ENST00000455694	4/5	106	84	22	123	123	0	PRSS48,missense_variant,p.Asp208Tyr,ENST00000455694,;PRSS48,missense_variant,p.Asp65Tyr,ENST00000441586,;SH3D19,intron_variant,,ENST00000604030,;RP11-731D1.3,upstream_gene_variant,,ENST00000507181,;	T	ENSG00000189099	ENST00000455694	Transcript	missense_variant	624	622	208	D/Y	Gat/Tat	COSM420174,COSM420173	.	.	1	PRSS48	HGNC	24635	protein_coding	YES	CCDS47145.1	ENSP00000401328	PRS48_HUMAN	.	UPI0000047B08	.	tolerated(0.12)	probably_damaging(0.973)	4/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24273,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGATACT	.	5	BLCA
FBXW7	0	.	GRCh37	4	153249367	153249367	+	Frame_Shift_Del	DEL	C	C	-	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411delG	p.Glu471LysfsTer27	p.E471Kfs*27	ENST00000281708	9/12	277	222	55	192	192	0	FBXW7,frameshift_variant,p.Glu471LysfsTer27,ENST00000603548,;FBXW7,frameshift_variant,p.Glu391LysfsTer27,ENST00000263981,;FBXW7,frameshift_variant,p.Glu353LysfsTer27,ENST00000296555,;FBXW7,frameshift_variant,p.Glu295LysfsTer27,ENST00000393956,;FBXW7,frameshift_variant,p.Glu471LysfsTer27,ENST00000281708,;FBXW7,frameshift_variant,p.Glu471LysfsTer27,ENST00000603841,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604069,;FBXW7,non_coding_transcript_exon_variant,,ENST00000603821,;FBXW7,upstream_gene_variant,,ENST00000604316,;	-	ENSG00000109670	ENST00000281708	Transcript	frameshift_variant	2641	1411	471	E/X	Gaa/aa	COSM305951,COSM305953,COSM305952,COSM305950	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	.	.	9/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116,PROSITE_profiles:PS50082,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	HIGH	.	deletion	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R473fs*4|c.1417_1418insA|4	INDELOCATOR*|VARSCANI*|PINDEL	TTTTTTCATGAA	.	3	BLCA
FBXW7	0	.	GRCh37	4	153249501	153249501	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1277C>T	p.Ser426Leu	p.S426L	ENST00000281708	9/12	327	254	73	296	296	0	FBXW7,missense_variant,p.Ser426Leu,ENST00000603548,;FBXW7,missense_variant,p.Ser346Leu,ENST00000263981,;FBXW7,missense_variant,p.Ser308Leu,ENST00000296555,;FBXW7,missense_variant,p.Ser250Leu,ENST00000393956,;FBXW7,missense_variant,p.Ser426Leu,ENST00000281708,;FBXW7,missense_variant,p.Ser426Leu,ENST00000603841,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604069,;FBXW7,non_coding_transcript_exon_variant,,ENST00000603821,;FBXW7,upstream_gene_variant,,ENST00000604316,;	A	ENSG00000109670	ENST00000281708	Transcript	missense_variant	2507	1277	426	S/L	tCa/tTa	COSM420165,COSM420166,COSM1133713,COSM420168,COSM420167	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	deleterious(0)	probably_damaging(0.951)	9/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G184V|c.551G>T|5,BUFFER|p.G343V|c.1028G>T|5,BUFFER|p.G423V|c.1268G>T|9,BUFFER|p.G423V|c.1268G>T|5,BUFFER|p.G305V|c.914G>T|3,BUFFER|p.G423R|c.1267G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATGACCAT	.	5	BLCA
CC2D2A	0	.	GRCh37	4	15529226	15529226	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1306G>A	p.Asp436Asn	p.D436N	ENST00000424120	12/37	39	32	6	34	34	0	CC2D2A,missense_variant,p.Asp436Asn,ENST00000503292,;CC2D2A,missense_variant,p.Asp436Asn,ENST00000413206,;CC2D2A,missense_variant,p.Asp387Asn,ENST00000389652,;CC2D2A,missense_variant,p.Asp436Asn,ENST00000512702,;CC2D2A,missense_variant,p.Asp436Asn,ENST00000424120,;CC2D2A,non_coding_transcript_exon_variant,,ENST00000513811,;CC2D2A,upstream_gene_variant,,ENST00000510220,;	A	ENSG00000048342	ENST00000424120	Transcript	missense_variant	1560	1306	436	D/N	Gac/Aac	COSM420155,COSM1133716	.	.	1	CC2D2A	HGNC	29253	protein_coding	YES	CCDS47026.1	ENSP00000403465	C2D2A_HUMAN	D6R9V3_HUMAN	UPI000023731A	.	deleterious(0.04)	benign(0.046)	12/37	.	hmmpanther:PTHR20837:SF4,hmmpanther:PTHR20837	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATATGACCAG	.	4	BLCA
RAPGEF2	0	.	GRCh37	4	160260433	160260433	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1978G>T	p.Glu660Ter	p.E660*	ENST00000264431	13/24	260	209	51	243	243	0	RAPGEF2,stop_gained,p.Glu660Ter,ENST00000264431,;RAPGEF2,upstream_gene_variant,,ENST00000502485,;	T	ENSG00000109756	ENST00000264431	Transcript	stop_gained	2397	1978	660	E/*	Gag/Tag	COSM420133	.	.	1	RAPGEF2	HGNC	16854	protein_coding	YES	CCDS43277.1	ENSP00000264431	RPGF2_HUMAN	Q9UFT5_HUMAN,Q4W5Q4_HUMAN,Q17RH5_HUMAN,D6REY8_HUMAN,B4DG82_HUMAN	UPI0000033783	.	.	.	13/24	.	PROSITE_profiles:PS50200,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF202,Pfam_domain:PF00788,SMART_domains:SM00314,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTGAGGGA	.	4	BLCA
KLHL2	0	.	GRCh37	4	166220763	166220763	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888G>T	p.Met296Ile	p.M296I	ENST00000514860	8/15	101	73	27	128	128	0	KLHL2,missense_variant,p.Met296Ile,ENST00000514860,;KLHL2,missense_variant,p.Met126Ile,ENST00000506761,;KLHL2,missense_variant,p.Met292Ile,ENST00000226725,;KLHL2,missense_variant,p.Met204Ile,ENST00000538127,;KLHL2,missense_variant,p.Met195Ile,ENST00000421009,;KLHL2,non_coding_transcript_exon_variant,,ENST00000509028,;KLHL2,non_coding_transcript_exon_variant,,ENST00000506541,;KLHL2,3_prime_UTR_variant,,ENST00000506824,;	T	ENSG00000109466	ENST00000514860	Transcript	missense_variant	1138	888	296	M/I	atG/atT	COSM420128	.	.	1	KLHL2	HGNC	6353	protein_coding	YES	CCDS54815.1	ENSP00000424198	KLHL2_HUMAN	D6RGC3_HUMAN,B4DFZ5_HUMAN	UPI0000E20649	.	tolerated(1)	benign(0.001)	8/15	.	PIRSF_domain:PIRSF037037,Gene3D:1k3iA02,hmmpanther:PTHR24412:SF155,hmmpanther:PTHR24412	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATGAAGAG	.	5	BLCA
DDX60	0	.	GRCh37	4	169215078	169215078	+	Missense_Mutation	SNP	G	G	C	rs138195535	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742C>G	p.Leu248Val	p.L248V	ENST00000393743	7/38	120	96	23	114	114	0	DDX60,missense_variant,p.Leu248Val,ENST00000393743,;	C	ENSG00000137628	ENST00000393743	Transcript	missense_variant	1034	742	248	L/V	Ctg/Gtg	rs138195535,COSM420118,COSM420119	.	.	-1	DDX60	HGNC	25942	protein_coding	YES	CCDS34097.1	ENSP00000377344	DDX60_HUMAN	Q9NXV7_HUMAN,Q9H616_HUMAN,Q6B0F7_HUMAN,D6R944_HUMAN	UPI000020B6AB	.	deleterious(0.03)	possibly_damaging(0.756)	7/38	.	hmmpanther:PTHR11752:SF61,hmmpanther:PTHR11752	A:0.0006	A:0.0023	A:0	.	A:0	A:0	A:0	A:0.0007	A:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCAGAGATA	byFrequency|byCluster|by1000G	5	BLCA
WDR17	0	.	GRCh37	4	177052884	177052884	+	Missense_Mutation	SNP	G	G	C	rs779966222	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165G>C	p.Asp389His	p.D389H	ENST00000280190	8/31	282	265	17	288	288	0	WDR17,missense_variant,p.Asp372His,ENST00000507824,;WDR17,missense_variant,p.Asp138His,ENST00000505894,;WDR17,missense_variant,p.Asp389His,ENST00000280190,;WDR17,missense_variant,p.Asp365His,ENST00000508596,;WDR17,missense_variant,p.Asp365His,ENST00000393643,;	C	ENSG00000150627	ENST00000280190	Transcript	missense_variant	1321	1165	389	D/H	Gac/Cac	rs779966222,COSM420109	.	.	1	WDR17	HGNC	16661	protein_coding	YES	CCDS3825.1	ENSP00000280190	WDR17_HUMAN	Q0QD35_HUMAN,E7EP77_HUMAN	UPI000019C575	.	tolerated(0.11)	possibly_damaging(0.89)	8/31	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF344,Gene3D:2.130.10.10,SMART_domains:SM00320	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAGAGACTTG	.	2	BLCA
DCTD	0	.	GRCh37	4	183836719	183836719	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36G>C	p.Met12Ile	p.M12I	ENST00000357067	2/6	149	118	30	178	178	0	DCTD,start_lost,p.Met1?,ENST00000503182,;DCTD,start_lost,p.Met1?,ENST00000438320,;DCTD,start_lost,p.Met1?,ENST00000510307,;DCTD,start_lost,p.Met1?,ENST00000503988,;DCTD,start_lost,p.Met1?,ENST00000514754,;DCTD,start_lost,p.Met1?,ENST00000510370,;DCTD,start_lost,p.Met1?,ENST00000503820,;DCTD,start_lost,p.Met1?,ENST00000508994,;DCTD,start_lost,p.Met1?,ENST00000512766,;DCTD,missense_variant,p.Met12Ile,ENST00000357067,;DCTD,upstream_gene_variant,,ENST00000513383,;DCTD,start_lost,p.Met1?,ENST00000500813,;DCTD,start_lost,p.Met1?,ENST00000507631,;DCTD,3_prime_UTR_variant,,ENST00000509218,;DCTD,3_prime_UTR_variant,,ENST00000507543,;DCTD,3_prime_UTR_variant,,ENST00000513348,;DCTD,3_prime_UTR_variant,,ENST00000509757,;	G	ENSG00000129187	ENST00000357067	Transcript	missense_variant	102	36	12	M/I	atG/atC	COSM420103	.	.	-1	DCTD	HGNC	2710	protein_coding	YES	CCDS34108.1	ENSP00000349576	DCTD_HUMAN	D6RJA9_HUMAN,D6RC36_HUMAN,D6RBN2_HUMAN,D6RBJ9_HUMAN,D6RAR9_HUMAN,D6RAD7_HUMAN,D6R9S0_HUMAN	UPI00004EC28E	.	tolerated(0.44)	benign(0.004)	2/6	.	PIRSF_domain:PIRSF006019	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCATGTT	.	5	BLCA
WWC2	0	.	GRCh37	4	184233512	184233512	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3403G>C	p.Glu1135Gln	p.E1135Q	ENST00000403733	22/23	185	149	36	185	185	0	WWC2,missense_variant,p.Glu817Gln,ENST00000504005,;WWC2,missense_variant,p.Glu263Gln,ENST00000508747,;WWC2,missense_variant,p.Glu1086Gln,ENST00000513834,;WWC2,missense_variant,p.Glu1159Gln,ENST00000448232,;WWC2,missense_variant,p.Glu1135Gln,ENST00000403733,;WWC2,3_prime_UTR_variant,,ENST00000427431,;WWC2,3_prime_UTR_variant,,ENST00000438543,;	C	ENSG00000151718	ENST00000403733	Transcript	missense_variant	3602	3403	1135	E/Q	Gag/Cag	COSM420646	.	.	1	WWC2	HGNC	24148	protein_coding	YES	CCDS34109.2	ENSP00000384222	WWC2_HUMAN	.	UPI000022C4C2	.	deleterious(0.02)	possibly_damaging(0.588)	22/23	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14791,hmmpanther:PTHR14791:SF26	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAGCAG	.	5	BLCA
SNX25	0	.	GRCh37	4	186188198	186188198	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488G>A	p.Arg163Lys	p.R163K	ENST00000504273	5/19	206	151	55	153	153	0	SNX25,missense_variant,p.Arg163Lys,ENST00000504273,;SNX25,missense_variant,p.Arg163Lys,ENST00000264694,;SNX25,downstream_gene_variant,,ENST00000506896,;	A	ENSG00000109762	ENST00000504273	Transcript	missense_variant	782	488	163	R/K	aGa/aAa	COSM420641	.	.	1	SNX25	HGNC	21883	protein_coding	YES	CCDS34116.1	ENSP00000426255	SNX25_HUMAN	B3KTI8_HUMAN	UPI000020B7BB	.	tolerated(0.22)	probably_damaging(0.919)	5/19	.	PROSITE_profiles:PS51207,hmmpanther:PTHR22775:SF6,hmmpanther:PTHR22775,SMART_domains:SM00313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACAGAGAGC	.	5	BLCA
HAUS3	0	.	GRCh37	4	2233842	2233842	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624C>G	p.Leu542Val	p.L542V	ENST00000243706	5/5	77	65	11	85	85	0	HAUS3,missense_variant,p.Leu542Val,ENST00000243706,;HAUS3,missense_variant,p.Leu542Val,ENST00000443786,;HAUS3,intron_variant,,ENST00000506763,;POLN,intron_variant,,ENST00000511885,;POLN,upstream_gene_variant,,ENST00000382865,;POLN,non_coding_transcript_exon_variant,,ENST00000506518,;POLN,intron_variant,,ENST00000515357,;COX6B1P5,upstream_gene_variant,,ENST00000509843,;	C	ENSG00000214367	ENST00000243706	Transcript	missense_variant	1854	1624	542	L/V	Cta/Gta	COSM420620	.	.	-1	HAUS3	HGNC	28719	protein_coding	YES	CCDS33941.1	ENSP00000243706	HAUS3_HUMAN	D6R993_HUMAN	UPI000020BA32	.	deleterious(0.04)	probably_damaging(0.999)	5/5	.	hmmpanther:PTHR19378:SF0,hmmpanther:PTHR19378	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTAGCTTAT	.	5	BLCA
PCDH7	0	.	GRCh37	4	30723906	30723906	+	Missense_Mutation	SNP	C	C	T	rs780614496	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.862C>T	p.Arg288Cys	p.R288C	ENST00000543491	1/3	8	5	3	11	11	0	PCDH7,missense_variant,p.Arg288Cys,ENST00000543491,;PCDH7,missense_variant,p.Arg288Cys,ENST00000361762,;PCDH7,upstream_gene_variant,,ENST00000511884,;PCDH7,upstream_gene_variant,,ENST00000507864,;	T	ENSG00000169851	ENST00000543491	Transcript	missense_variant	862	862	288	R/C	Cgc/Tgc	rs780614496,COSM420606	.	.	1	PCDH7	HGNC	8659	protein_coding	YES	CCDS54753.1	ENSP00000441802	.	F5GWJ1_HUMAN	UPI0001CB27C3	.	deleterious(0)	probably_damaging(0.921)	1/3	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF14,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCTCGCTCC	byFrequency	2	BLCA
HTT	0	.	GRCh37	4	3208288	3208288	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5784C>T	p.%3D	p.I1928I	ENST00000355072	43/67	142	117	25	129	129	0	HTT,synonymous_variant,p.%3D,ENST00000355072,;HTT,non_coding_transcript_exon_variant,,ENST00000502820,;HTT,non_coding_transcript_exon_variant,,ENST00000510626,;	T	ENSG00000197386	ENST00000355072	Transcript	synonymous_variant	5929	5784	1928	I	atC/atT	COSM420605	.	.	1	HTT	HGNC	4851	protein_coding	YES	CCDS43206.1	ENSP00000347184	HD_HUMAN	D3DVR8_HUMAN,D2CTD8_HUMAN,D2CTD7_HUMAN,D2CTD4_HUMAN,D2CTD2_HUMAN	UPI000013D567	.	.	.	43/67	.	hmmpanther:PTHR10170:SF10,hmmpanther:PTHR10170	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGATCAGCCT	.	4	BLCA
GABRG1	0	.	GRCh37	4	46060556	46060556	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.709C>G	p.Gln237Glu	p.Q237E	ENST00000295452	6/9	93	77	16	69	69	0	GABRG1,missense_variant,p.Gln237Glu,ENST00000295452,;	C	ENSG00000163285	ENST00000295452	Transcript	missense_variant	877	709	237	Q/E	Cag/Gag	COSM1540375,COSM420582	.	.	-1	GABRG1	HGNC	4086	protein_coding	YES	CCDS3470.1	ENSP00000295452	GBRG1_HUMAN	.	UPI0000047AE2	.	deleterious(0.03)	benign(0.32)	6/9	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF93,Gene3D:2.70.170.10,Pfam_domain:PF02931,TIGRFAM_domain:TIGR00860,Superfamily_domains:0038932	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTGATATA	.	5	BLCA
GABRA4	0	.	GRCh37	4	46967025	46967025	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1096C>G	p.Pro366Ala	p.P366A	ENST00000264318	8/9	112	89	22	100	100	0	GABRA4,missense_variant,p.Pro366Ala,ENST00000264318,;GABRA4,3_prime_UTR_variant,,ENST00000511523,;GABRA4,3_prime_UTR_variant,,ENST00000508560,;	C	ENSG00000109158	ENST00000264318	Transcript	missense_variant	2079	1096	366	P/A	Cca/Gca	COSM420581	.	.	-1	GABRA4	HGNC	4078	protein_coding	YES	CCDS3473.1	ENSP00000264318	GBRA4_HUMAN	.	UPI0000074200	.	tolerated(0.2)	benign(0.363)	8/9	.	Prints_domain:PR01617,Superfamily_domains:SSF90112,TIGRFAM_domain:TIGR00860,Pfam_domain:PF02932,hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF393	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTGGAGCAG	.	5	BLCA
OCIAD2	0	.	GRCh37	4	48901920	48901920	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89C>G	p.Ser30Ter	p.S30*	ENST00000508632	3/7	130	119	10	108	108	0	OCIAD2,stop_gained,p.Ser30Ter,ENST00000508632,;OCIAD2,stop_gained,p.Ser30Ter,ENST00000273860,;OCIAD2,stop_gained,p.Ser30Ter,ENST00000381464,;OCIAD2,intron_variant,,ENST00000506226,;OCIAD2,intron_variant,,ENST00000508069,;OCIAD2,upstream_gene_variant,,ENST00000512087,;OCIAD2,upstream_gene_variant,,ENST00000514155,;OCIAD2,stop_gained,p.Ser30Ter,ENST00000510159,;OCIAD2,non_coding_transcript_exon_variant,,ENST00000514576,;	C	ENSG00000145247	ENST00000508632	Transcript	stop_gained	322	89	30	S/*	tCa/tGa	COSM420574	.	.	-1	OCIAD2	HGNC	28685	protein_coding	YES	CCDS33981.1	ENSP00000423014	OCAD2_HUMAN	J3KPI9_HUMAN	UPI000015C18E	.	.	.	3/7	.	hmmpanther:PTHR13336,hmmpanther:PTHR13336:SF2,Pfam_domain:PF07051	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTTTTGATTTT	.	3	BLCA
MAN2B2	0	.	GRCh37	4	6606942	6606942	+	Missense_Mutation	SNP	G	G	A	rs760614382	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1700G>A	p.Arg567His	p.R567H	ENST00000285599	11/19	77	56	21	101	101	0	MAN2B2,missense_variant,p.Arg516His,ENST00000504248,;MAN2B2,missense_variant,p.Arg566His,ENST00000505907,;MAN2B2,missense_variant,p.Arg567His,ENST00000285599,;MAN2B2,upstream_gene_variant,,ENST00000504960,;	A	ENSG00000013288	ENST00000285599	Transcript	missense_variant	1736	1700	567	R/H	cGc/cAc	rs760614382,COSM420555	.	.	1	MAN2B2	HGNC	29623	protein_coding	YES	CCDS33951.1	ENSP00000285599	MA2B2_HUMAN	Q05BN7_HUMAN,B3KQN1_HUMAN	UPI000004BF05	.	tolerated(0.08)	probably_damaging(0.977)	11/19	.	hmmpanther:PTHR11607:SF5,hmmpanther:PTHR11607,Pfam_domain:PF07748,Superfamily_domains:SSF74650	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGCAGGC	byFrequency	5	BLCA
TMPRSS11F	0	.	GRCh37	4	68935699	68935699	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541C>G	p.Leu181Val	p.L181V	ENST00000356291	6/10	271	228	43	243	243	0	TMPRSS11F,missense_variant,p.Leu181Val,ENST00000356291,;UBA6-AS1,intron_variant,,ENST00000511571,;UBA6-AS1,intron_variant,,ENST00000500538,;UBA6-AS1,intron_variant,,ENST00000499180,;	C	ENSG00000198092	ENST00000356291	Transcript	missense_variant	601	541	181	L/V	Ctt/Gtt	COSM420543	.	.	-1	TMPRSS11F	HGNC	29994	protein_coding	YES	CCDS3520.1	ENSP00000348639	TM11F_HUMAN	.	UPI0000251DE7	.	deleterious(0.04)	benign(0.345)	6/10	.	hmmpanther:PTHR24256:SF64,hmmpanther:PTHR24256,PIRSF_domain:PIRSF037941	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGATTCC	.	5	BLCA
CSN2	0	.	GRCh37	4	70822044	70822044	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24C>T	.	.	ENST00000353151	6/7	32	26	6	38	38	0	CSN2,3_prime_UTR_variant,,ENST00000353151,;	A	ENSG00000135222	ENST00000353151	Transcript	3_prime_UTR_variant	717	.	.	.	.	.	.	.	-1	CSN2	HGNC	2447	protein_coding	YES	CCDS3532.1	ENSP00000341030	CASB_HUMAN	.	UPI0000126FDB	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGAGGGAAA	.	5	BLCA
IL8	0	.	GRCh37	4	74607297	74607297	+	Missense_Mutation	SNP	C	C	G	rs149273289	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103C>G	p.Gln35Glu	p.Q35E	ENST00000307407	2/4	78	61	17	73	73	0	IL8,missense_variant,p.Gln35Glu,ENST00000307407,;IL8,missense_variant,p.Gln35Glu,ENST00000401931,;IL8,non_coding_transcript_exon_variant,,ENST00000483500,;	G	ENSG00000169429	ENST00000307407	Transcript	missense_variant	256	103	35	Q/E	Cag/Gag	rs149273289,COSM420527	.	.	1	IL8	HGNC	6025	protein_coding	YES	CCDS34005.1	ENSP00000306512	IL8_HUMAN	C9J4T6_HUMAN	UPI0000000DD0	.	deleterious(0.01)	possibly_damaging(0.673)	2/4	.	Prints_domain:PR00437,Superfamily_domains:SSF54117,SMART_domains:SM00199,Gene3D:2.40.50.40,Pfam_domain:PF00048,PROSITE_patterns:PS00471,hmmpanther:PTHR10179,hmmpanther:PTHR10179:SF35	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGTCAGTGC	byCluster	5	BLCA
CXCL5	0	.	GRCh37	4	74863775	74863775	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280C>G	p.Pro94Ala	p.P94A	ENST00000296027	3/4	179	145	33	160	160	0	CXCL5,missense_variant,p.Pro94Ala,ENST00000296027,;	C	ENSG00000163735	ENST00000296027	Transcript	missense_variant	478	280	94	P/A	Cca/Gca	COSM420524	.	.	-1	CXCL5	HGNC	10642	protein_coding	YES	CCDS34006.1	ENSP00000296027	CXCL5_HUMAN	Q6I9S7_HUMAN	UPI000013676F	.	deleterious(0.02)	probably_damaging(0.936)	3/4	.	hmmpanther:PTHR10179,hmmpanther:PTHR10179:SF37,Pfam_domain:PF00048,Gene3D:2.40.50.40,SMART_domains:SM00199,Superfamily_domains:SSF54117,Prints_domain:PR00436,Prints_domain:PR00437	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGGATCAA	.	5	BLCA
HPSE	0	.	GRCh37	4	84230599	84230599	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.940G>A	p.Asp314Asn	p.D314N	ENST00000405413	8/13	102	85	17	84	84	0	HPSE,missense_variant,p.Asp256Asn,ENST00000513463,;HPSE,missense_variant,p.Asp314Asn,ENST00000405413,;HPSE,missense_variant,p.Asp314Asn,ENST00000512196,;HPSE,missense_variant,p.Asp314Asn,ENST00000311412,;HPSE,missense_variant,p.Asp314Asn,ENST00000509906,;HPSE,3_prime_UTR_variant,,ENST00000507150,;HPSE,3_prime_UTR_variant,,ENST00000508891,;	T	ENSG00000173083	ENST00000405413	Transcript	missense_variant	1077	940	314	D/N	Gat/Aat	COSM231030	.	.	-1	HPSE	HGNC	5164	protein_coding	YES	CCDS3602.1	ENSP00000384262	HPSE_HUMAN	.	UPI000013F168	.	tolerated(0.19)	benign(0.049)	8/13	.	hmmpanther:PTHR14363:SF10,hmmpanther:PTHR14363,Gene3D:3.20.20.80,Pfam_domain:PF03662,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCAGGGT	.	5	BLCA
HPSE	0	.	GRCh37	4	84231203	84231203	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.871G>C	p.Asp291His	p.D291H	ENST00000405413	7/13	246	208	37	224	224	0	HPSE,missense_variant,p.Asp233His,ENST00000513463,;HPSE,missense_variant,p.Asp291His,ENST00000405413,;HPSE,missense_variant,p.Asp291His,ENST00000512196,;HPSE,missense_variant,p.Asp291His,ENST00000311412,;HPSE,missense_variant,p.Asp291His,ENST00000509906,;HPSE,3_prime_UTR_variant,,ENST00000507150,;HPSE,3_prime_UTR_variant,,ENST00000508891,;	G	ENSG00000173083	ENST00000405413	Transcript	missense_variant	1008	871	291	D/H	Gat/Cat	COSM3606595,COSM420493	.	.	-1	HPSE	HGNC	5164	protein_coding	YES	CCDS3602.1	ENSP00000384262	HPSE_HUMAN	.	UPI000013F168	.	deleterious(0)	probably_damaging(0.997)	7/13	.	hmmpanther:PTHR14363:SF10,hmmpanther:PTHR14363,Gene3D:3.20.20.80,Pfam_domain:PF03662,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAATCAATCA	.	4	BLCA
HPGDS	0	.	GRCh37	4	95223298	95223298	+	Missense_Mutation	SNP	G	G	A	rs760667106	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.434C>T	p.Ser145Phe	p.S145F	ENST00000295256	5/6	285	202	83	233	233	0	HPGDS,missense_variant,p.Ser145Phe,ENST00000295256,;HPGDS,downstream_gene_variant,,ENST00000514774,;	A	ENSG00000163106	ENST00000295256	Transcript	missense_variant	525	434	145	S/F	tCt/tTt	rs760667106,COSM420473	.	.	-1	HPGDS	HGNC	17890	protein_coding	YES	CCDS3640.1	ENSP00000295256	HPGDS_HUMAN	Q4W5C6_HUMAN	UPI0000157E08	.	deleterious(0.03)	benign(0.078)	5/6	.	PROSITE_profiles:PS50405,hmmpanther:PTHR11571:SF118,hmmpanther:PTHR11571,Gene3D:1.20.1050.10,Pfam_domain:PF00043,Superfamily_domains:SSF47616	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGAGTTA	byFrequency	5	BLCA
SLCO4C1	0	.	GRCh37	5	101593786	101593786	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1134G>C	p.Leu378Phe	p.L378F	ENST00000310954	7/13	84	60	23	71	71	0	SLCO4C1,missense_variant,p.Leu378Phe,ENST00000310954,;	G	ENSG00000173930	ENST00000310954	Transcript	missense_variant	1421	1134	378	L/F	ttG/ttC	COSM420469	.	.	-1	SLCO4C1	HGNC	23612	protein_coding	YES	CCDS34205.1	ENSP00000309741	SO4C1_HUMAN	Q63HP3_HUMAN	UPI00001C10B6	.	deleterious(0)	probably_damaging(0.999)	7/13	.	Superfamily_domains:SSF103473,Pfam_domain:PF03137,TIGRFAM_domain:TIGR00805,hmmpanther:PTHR11388:SF81,hmmpanther:PTHR11388,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCAAATT	.	5	BLCA
NUDT12	0	.	GRCh37	5	102891757	102891757	+	Missense_Mutation	SNP	C	C	T	rs531325504	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.839G>A	p.Arg280Gln	p.R280Q	ENST00000230792	4/7	118	97	21	107	107	0	NUDT12,missense_variant,p.Arg262Gln,ENST00000507423,;NUDT12,missense_variant,p.Arg280Gln,ENST00000230792,;NUDT12,non_coding_transcript_exon_variant,,ENST00000515407,;NUDT12,downstream_gene_variant,,ENST00000508889,;	T	ENSG00000112874	ENST00000230792	Transcript	missense_variant	936	839	280	R/Q	cGa/cAa	rs531325504,COSM420464	.	.	-1	NUDT12	HGNC	18826	protein_coding	YES	CCDS4096.1	ENSP00000230792	NUD12_HUMAN	.	UPI0000073C53	.	deleterious(0.01)	probably_damaging(0.979)	4/7	.	hmmpanther:PTHR22769,hmmpanther:PTHR22769:SF7,Gene3D:3.90.79.10,Pfam_domain:PF09297,Superfamily_domains:SSF55811	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTATCGACTG	byFrequency|by1000G	5	BLCA
MARCH6	0	.	GRCh37	5	10403539	10403539	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1218G>C	p.%3D	p.L406L	ENST00000274140	15/26	112	83	29	119	118	1	MARCH6,synonymous_variant,p.%3D,ENST00000449913,;MARCH6,synonymous_variant,p.%3D,ENST00000510792,;MARCH6,synonymous_variant,p.%3D,ENST00000274140,;MARCH6,synonymous_variant,p.%3D,ENST00000503788,;MARCH6,non_coding_transcript_exon_variant,,ENST00000511802,;MARCH6,downstream_gene_variant,,ENST00000514961,;	C	ENSG00000145495	ENST00000274140	Transcript	synonymous_variant	1350	1218	406	L	ctG/ctC	COSM420461	.	.	1	MARCH6	HGNC	30550	protein_coding	YES	CCDS34135.1	ENSP00000274140	MARH6_HUMAN	.	UPI00001B94D6	.	.	.	15/26	.	hmmpanther:PTHR13145:SF0,hmmpanther:PTHR13145	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCTGAAAGA	.	5	BLCA
SLC12A7	0	.	GRCh37	5	1064231	1064231	+	Silent	SNP	G	G	C	rs745978080	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2574C>G	p.%3D	p.L858L	ENST00000264930	19/24	25	20	5	30	30	0	SLC12A7,synonymous_variant,p.%3D,ENST00000513223,;SLC12A7,synonymous_variant,p.%3D,ENST00000264930,;MIR4635,upstream_gene_variant,,ENST00000583759,;SLC12A7,upstream_gene_variant,,ENST00000514994,;	C	ENSG00000113504	ENST00000264930	Transcript	synonymous_variant	2618	2574	858	L	ctC/ctG	rs745978080,COSM420460	.	.	-1	SLC12A7	HGNC	10915	protein_coding	YES	CCDS34129.1	ENSP00000264930	S12A7_HUMAN	.	UPI0000141815	.	.	.	19/24	.	hmmpanther:PTHR11827:SF47,hmmpanther:PTHR11827,TIGRFAM_domain:TIGR00930	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCATGAGCAT	.	2	BLCA
FER	0	.	GRCh37	5	108281850	108281850	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1256C>G	p.Ser419Cys	p.S419C	ENST00000281092	11/20	155	118	36	137	137	0	FER,missense_variant,p.Ser244Cys,ENST00000438717,;FER,missense_variant,p.Ser419Cys,ENST00000281092,;FER,missense_variant,p.Pro315Ala,ENST00000536402,;FER,non_coding_transcript_exon_variant,,ENST00000505323,;FER,3_prime_UTR_variant,,ENST00000504143,;	G	ENSG00000151422	ENST00000281092	Transcript	missense_variant	1640	1256	419	S/C	tCc/tGc	COSM420458	.	.	1	FER	HGNC	3655	protein_coding	YES	CCDS4098.1	ENSP00000281092	FER_HUMAN	.	UPI000013DC55	.	tolerated(0.1)	probably_damaging(0.979)	11/20	.	hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF227,PIRSF_domain:PIRSF000632	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATCCAAAT	.	5	BLCA
CAMK4	0	.	GRCh37	5	110818485	110818485	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.831C>T	p.%3D	p.V277V	ENST00000282356	10/11	116	100	15	122	122	0	CAMK4,synonymous_variant,p.%3D,ENST00000282356,;CAMK4,synonymous_variant,p.%3D,ENST00000512453,;CAMK4,splice_region_variant,,ENST00000512890,;CAMK4,splice_region_variant,,ENST00000510858,;CAMK4,splice_region_variant,,ENST00000514007,;CAMK4,splice_region_variant,,ENST00000515231,;CAMK4,non_coding_transcript_exon_variant,,ENST00000509645,;	T	ENSG00000152495	ENST00000282356	Transcript	synonymous_variant	1229	831	277	V	gtC/gtT	COSM420454	.	.	1	CAMK4	HGNC	1464	protein_coding	YES	CCDS4103.1	ENSP00000282356	KCC4_HUMAN	D6RE65_HUMAN	UPI000000128E	.	.	.	10/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24349,hmmpanther:PTHR24349:SF77,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGTCAGAAA	.	4	BLCA
TSSK1B	0	.	GRCh37	5	112769841	112769841	+	Silent	SNP	G	G	A	rs373955795	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696C>T	p.%3D	p.R232R	ENST00000390666	1/1	89	71	17	64	64	0	TSSK1B,synonymous_variant,p.%3D,ENST00000390666,;MCC,intron_variant,,ENST00000408903,;CTD-2201G3.1,non_coding_transcript_exon_variant,,ENST00000416046,;CTD-2201G3.1,non_coding_transcript_exon_variant,,ENST00000383058,;CTD-2201G3.1,upstream_gene_variant,,ENST00000510381,;	A	ENSG00000212122	ENST00000390666	Transcript	synonymous_variant	888	696	232	R	cgC/cgT	rs373955795,COSM420451	.	.	-1	TSSK1B	HGNC	14968	protein_coding	YES	CCDS4112.1	ENSP00000375081	TSSK1_HUMAN	A0ZT98_HUMAN	UPI000003C96E	.	.	.	1/1	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343:SF76,hmmpanther:PTHR24343,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	A:0.0006	A:0	A:0	.	A:0	A:0	A:0.0031	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGACGCGGTG	byFrequency|byCluster|by1000G	5	BLCA
KCNN2	0	.	GRCh37	5	113831654	113831654	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1515G>C	p.Lys505Asn	p.K505N	ENST00000512097	9/9	212	173	38	219	219	0	KCNN2,missense_variant,p.Lys505Asn,ENST00000512097,;KCNN2,missense_variant,p.Lys157Asn,ENST00000503706,;KCNN2,missense_variant,p.Lys505Asn,ENST00000264773,;RP11-492A10.1,intron_variant,,ENST00000514115,;KCNN2,downstream_gene_variant,,ENST00000507750,;KCNN2,non_coding_transcript_exon_variant,,ENST00000506812,;KCNN2,downstream_gene_variant,,ENST00000505491,;	C	ENSG00000080709	ENST00000512097	Transcript	missense_variant	2533	1515	505	K/N	aaG/aaC	COSM420447,COSM420448	.	.	1	KCNN2	HGNC	6291	protein_coding	YES	CCDS4114.1	ENSP00000427120	KCNN2_HUMAN	.	UPI000013D56A	.	tolerated(0.11)	probably_damaging(0.966)	9/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10153,hmmpanther:PTHR10153:SF21	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAAGAGGAT	.	5	BLCA
SLC6A19	0	.	GRCh37	5	1221314	1221314	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1587C>T	p.%3D	p.F529F	ENST00000304460	11/12	43	33	10	49	49	0	SLC6A19,synonymous_variant,p.%3D,ENST00000304460,;SLC6A18,upstream_gene_variant,,ENST00000324642,;SLC6A18,upstream_gene_variant,,ENST00000296821,;SLC6A19,3_prime_UTR_variant,,ENST00000515652,;SLC6A18,upstream_gene_variant,,ENST00000513607,;	T	ENSG00000174358	ENST00000304460	Transcript	synonymous_variant	1643	1587	529	F	ttC/ttT	COSM420437	.	.	1	SLC6A19	HGNC	27960	protein_coding	YES	CCDS34130.1	ENSP00000305302	S6A19_HUMAN	B3KVZ8_HUMAN	UPI0000401AF8	.	.	.	11/12	.	PROSITE_profiles:PS50267,hmmpanther:PTHR11616,hmmpanther:PTHR11616:SF125,Pfam_domain:PF00209,Superfamily_domains:0053687	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCTGGCA	.	5	BLCA
CSNK1G3	0	.	GRCh37	5	122881333	122881333	+	5'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-25C>G	.	.	ENST00000395412	2/14	28	17	11	33	33	0	CSNK1G3,5_prime_UTR_variant,,ENST00000395412,;CSNK1G3,5_prime_UTR_variant,,ENST00000521364,;CSNK1G3,5_prime_UTR_variant,,ENST00000345990,;CSNK1G3,5_prime_UTR_variant,,ENST00000395411,;CSNK1G3,5_prime_UTR_variant,,ENST00000361991,;CSNK1G3,5_prime_UTR_variant,,ENST00000510842,;CSNK1G3,5_prime_UTR_variant,,ENST00000360683,;CSNK1G3,intron_variant,,ENST00000512718,;CSNK1G3,intron_variant,,ENST00000511130,;CSNK1G3,non_coding_transcript_exon_variant,,ENST00000508708,;	G	ENSG00000151292	ENST00000395412	Transcript	5_prime_UTR_variant	695	.	.	.	.	.	.	.	1	CSNK1G3	HGNC	2456	protein_coding	YES	CCDS43355.1	ENSP00000378807	KC1G3_HUMAN	.	UPI000014149D	.	.	.	2/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAATTCAAAGT	.	2	BLCA
CSF2	0	.	GRCh37	5	131411636	131411636	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*91G>A	.	.	ENST00000296871	4/4	27	20	7	23	23	0	CSF2,3_prime_UTR_variant,,ENST00000296871,;snoZ6,upstream_gene_variant,,ENST00000517258,;	A	ENSG00000164400	ENST00000296871	Transcript	3_prime_UTR_variant	560	.	.	.	.	.	.	.	1	CSF2	HGNC	2434	protein_coding	YES	CCDS4150.1	ENSP00000296871	CSF2_HUMAN	.	UPI00000358DB	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCAAGGGGTG	.	5	BLCA
CCNI2	0	.	GRCh37	5	132086692	132086692	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774+3G>C	.	.	ENST00000378731	.	128	113	15	118	118	0	CCNI2,splice_region_variant,,ENST00000378731,;SEPT8,3_prime_UTR_variant,,ENST00000378719,;SEPT8,downstream_gene_variant,,ENST00000378721,;CCNI2,splice_region_variant,,ENST00000468733,;SEPT8,downstream_gene_variant,,ENST00000481030,;CCNI2,non_coding_transcript_exon_variant,,ENST00000492179,;	C	ENSG00000205089	ENST00000378731	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CCNI2	HGNC	33869	protein_coding	YES	CCDS34236.1	ENSP00000368005	CCNI2_HUMAN	B7ZMB8_HUMAN,B7ZMB7_HUMAN	UPI0000160A91	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAGTGAGTAA	.	4	BLCA
SHROOM1	0	.	GRCh37	5	132160910	132160910	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.923C>T	p.Ser308Leu	p.S308L	ENST00000378679	4/10	53	40	13	45	45	0	SHROOM1,missense_variant,p.Ser308Leu,ENST00000440118,;SHROOM1,missense_variant,p.Ser308Leu,ENST00000319854,;SHROOM1,missense_variant,p.Ser308Leu,ENST00000378676,;SHROOM1,missense_variant,p.Ser308Leu,ENST00000378679,;SHROOM1,upstream_gene_variant,,ENST00000488072,;SHROOM1,upstream_gene_variant,,ENST00000495680,;SHROOM1,non_coding_transcript_exon_variant,,ENST00000606676,;	A	ENSG00000164403	ENST00000378679	Transcript	missense_variant	1728	923	308	S/L	tCa/tTa	COSM420419	.	.	-1	SHROOM1	HGNC	24084	protein_coding	YES	CCDS54902.1	ENSP00000367950	SHRM1_HUMAN	C9JXU1_HUMAN	UPI000036FD4D	.	deleterious(0)	possibly_damaging(0.783)	4/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15012	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTGAAGCG	.	5	BLCA
ANKHD1	0	.	GRCh37	5	139905956	139905956	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4868C>G	p.Ser1623Cys	p.S1623C	ENST00000297183	26/36	142	109	33	126	126	0	ANKHD1,missense_variant,p.Ser74Cys,ENST00000432301,;ANKHD1,missense_variant,p.Ser114Cys,ENST00000435794,;ANKHD1,missense_variant,p.Ser1623Cys,ENST00000360839,;ANKHD1,missense_variant,p.Ser6Cys,ENST00000544120,;ANKHD1,missense_variant,p.Ser1623Cys,ENST00000297183,;ANKHD1,missense_variant,p.Ser145Cys,ENST00000433049,;ANKHD1,missense_variant,p.Ser279Cys,ENST00000431508,;ANKHD1-EIF4EBP3,missense_variant,p.Ser1623Cys,ENST00000532219,;ANKHD1,downstream_gene_variant,,ENST00000412116,;ANKHD1,downstream_gene_variant,,ENST00000421134,;ANKHD1,downstream_gene_variant,,ENST00000246149,;ANKHD1-EIF4EBP3,upstream_gene_variant,,ENST00000437495,;SNORD45,downstream_gene_variant,,ENST00000363181,;ANKHD1-EIF4EBP3,upstream_gene_variant,,ENST00000474060,;ANKHD1,upstream_gene_variant,,ENST00000475148,;	G	ENSG00000131503	ENST00000297183	Transcript	missense_variant	4992	4868	1623	S/C	tCt/tGt	COSM420394,COSM420393	.	.	1	ANKHD1	HGNC	24714	protein_coding	YES	CCDS4224.1	ENSP00000297183	ANKH1_HUMAN	.	UPI0000074448	.	.	probably_damaging(0.921)	26/36	.	hmmpanther:PTHR23206	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCCTCTAAAT	.	3	BLCA
ANKHD1	0	.	GRCh37	5	139905979	139905979	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4891C>G	p.His1631Asp	p.H1631D	ENST00000297183	26/36	141	105	36	130	130	0	ANKHD1,missense_variant,p.His82Asp,ENST00000432301,;ANKHD1,missense_variant,p.His122Asp,ENST00000435794,;ANKHD1,missense_variant,p.His1631Asp,ENST00000360839,;ANKHD1,missense_variant,p.His14Asp,ENST00000544120,;ANKHD1,missense_variant,p.His1631Asp,ENST00000297183,;ANKHD1,missense_variant,p.His153Asp,ENST00000433049,;ANKHD1,missense_variant,p.His287Asp,ENST00000431508,;ANKHD1-EIF4EBP3,missense_variant,p.His1631Asp,ENST00000532219,;ANKHD1,downstream_gene_variant,,ENST00000412116,;ANKHD1,downstream_gene_variant,,ENST00000421134,;ANKHD1,downstream_gene_variant,,ENST00000246149,;ANKHD1-EIF4EBP3,upstream_gene_variant,,ENST00000437495,;SNORD45,downstream_gene_variant,,ENST00000363181,;ANKHD1-EIF4EBP3,upstream_gene_variant,,ENST00000474060,;ANKHD1,upstream_gene_variant,,ENST00000475148,;	G	ENSG00000131503	ENST00000297183	Transcript	missense_variant	5015	4891	1631	H/D	Cat/Gat	COSM420392,COSM420391	.	.	1	ANKHD1	HGNC	24714	protein_coding	YES	CCDS4224.1	ENSP00000297183	ANKH1_HUMAN	.	UPI0000074448	.	.	benign(0.081)	26/36	.	hmmpanther:PTHR23206	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCTTCATTCC	.	3	BLCA
PCDHA7	0	.	GRCh37	5	140214299	140214299	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331G>A	p.Glu111Lys	p.E111K	ENST00000525929	1/4	400	362	37	415	415	0	PCDHA7,missense_variant,p.Glu111Lys,ENST00000378125,;PCDHA7,missense_variant,p.Glu111Lys,ENST00000525929,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;	A	ENSG00000204963	ENST00000525929	Transcript	missense_variant	331	331	111	E/K	Gaa/Aaa	COSM420907,COSM420906	.	.	1	PCDHA7	HGNC	8673	protein_coding	YES	CCDS54918.1	ENSP00000436426	PCDA7_HUMAN	.	UPI00001273CF	.	deleterious_low_confidence(0)	benign(0.167)	1/4	.	SMART_domains:SM00112,Pfam_domain:PF08266,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF67,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCGTGGAAAGG	.	3	BLCA
PCDHB7	0	.	GRCh37	5	140553716	140553716	+	Missense_Mutation	SNP	G	G	A	rs782231992	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1300G>A	p.Glu434Lys	p.E434K	ENST00000231137	1/1	153	113	40	149	149	0	PCDHB7,missense_variant,p.Glu434Lys,ENST00000231137,;PCDHB8,upstream_gene_variant,,ENST00000239444,;	A	ENSG00000113212	ENST00000231137	Transcript	missense_variant	1474	1300	434	E/K	Gag/Aag	rs782231992,COSM420885	.	.	1	PCDHB7	HGNC	8692	protein_coding	YES	CCDS4249.1	ENSP00000231137	PCDB7_HUMAN	.	UPI00001273E3	.	deleterious_low_confidence(0.02)	benign(0.012)	1/1	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028:SF69,hmmpanther:PTHR24028,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACCGAGCAC	byFrequency	5	BLCA
PCDHB14	0	.	GRCh37	5	140605331	140605331	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2254G>A	p.Glu752Lys	p.E752K	ENST00000239449	1/1	248	199	49	248	248	0	PCDHB14,missense_variant,p.Glu752Lys,ENST00000239449,;PCDHB14,missense_variant,p.Glu599Lys,ENST00000515856,;	A	ENSG00000120327	ENST00000239449	Transcript	missense_variant	2254	2254	752	E/K	Gag/Aag	COSM420878	.	.	1	PCDHB14	HGNC	8685	protein_coding	YES	CCDS4256.1	ENSP00000239449	PCDBE_HUMAN	B4DPE2_HUMAN	UPI00001273E7	.	deleterious_low_confidence(0.02)	benign(0.217)	1/1	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF81	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E752K|c.2254G>A|3	RADIA|MUTECT|MUSE|VARSCANS	AATACGAGGTG	.	4	BLCA
PCDHGA7	0	.	GRCh37	5	140763130	140763130	+	Nonsense_Mutation	SNP	C	C	T	rs779788206	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664C>T	p.Arg222Ter	p.R222*	ENST00000518325	1/4	27	20	6	25	25	0	PCDHGA7,stop_gained,p.Arg222Ter,ENST00000518325,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB4,upstream_gene_variant,,ENST00000519479,;	T	ENSG00000253537	ENST00000518325	Transcript	stop_gained	664	664	222	R/*	Cga/Tga	rs779788206,COSM420865	.	.	1	PCDHGA7	HGNC	8705	protein_coding	YES	CCDS54927.1	ENSP00000430024	PCDG7_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000007146F	.	.	.	1/4	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF56,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCCCGATCC	.	5	BLCA
PCDHGA9	0	.	GRCh37	5	140783493	140783493	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.974G>A	p.Gly325Glu	p.G325E	ENST00000573521	1/4	186	141	45	188	188	0	PCDHGA9,missense_variant,p.Gly325Glu,ENST00000573521,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB6,upstream_gene_variant,,ENST00000520790,;	A	ENSG00000261934	ENST00000573521	Transcript	missense_variant	974	974	325	G/E	gGg/gAg	COSM1645631,COSM1645630	.	.	1	PCDHGA9	HGNC	8707	protein_coding	YES	CCDS58981.1	ENSP00000460274	PCDG9_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000721C3	.	deleterious_low_confidence(0.01)	probably_damaging(0.975)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF86,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTGGGGGAT	.	5	BLCA
PCDHGC5	0	.	GRCh37	5	140870089	140870089	+	Missense_Mutation	SNP	G	G	A	rs191201177	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1282G>A	p.Asp428Asn	p.D428N	ENST00000252087	1/4	345	264	81	349	349	0	PCDHGC5,missense_variant,p.Asp428Asn,ENST00000252087,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGA10,intron_variant,,ENST00000398610,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA12,intron_variant,,ENST00000252085,;PCDHGA11,intron_variant,,ENST00000398587,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGC3,intron_variant,,ENST00000308177,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA11,intron_variant,,ENST00000518882,;PCDHGC4,intron_variant,,ENST00000306593,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGB7,intron_variant,,ENST00000398594,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;	A	ENSG00000240764	ENST00000252087	Transcript	missense_variant	1282	1282	428	D/N	Gat/Aat	rs191201177,COSM420858,COSM420859	.	.	1	PCDHGC5	HGNC	8718	protein_coding	YES	CCDS4263.1	ENSP00000252087	PCDGM_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000006D689	.	deleterious(0)	probably_damaging(0.999)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF80,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGCGATGCT	by1000G	5	BLCA
FGF1	0	.	GRCh37	5	141974804	141974804	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51C>T	.	.	ENST00000359370	4/4	38	29	9	33	33	0	FGF1,3_prime_UTR_variant,,ENST00000359370,;FGF1,3_prime_UTR_variant,,ENST00000378046,;FGF1,3_prime_UTR_variant,,ENST00000407758,;FGF1,3_prime_UTR_variant,,ENST00000337706,;FGF1,3_prime_UTR_variant,,ENST00000360966,;FGF1,downstream_gene_variant,,ENST00000419524,;FGF1,downstream_gene_variant,,ENST00000441680,;AC005592.2,intron_variant,,ENST00000414314,;AC005592.2,intron_variant,,ENST00000443800,;FGF1,downstream_gene_variant,,ENST00000494579,;FGF1,non_coding_transcript_exon_variant,,ENST00000489937,;FGF1,non_coding_transcript_exon_variant,,ENST00000494344,;	A	ENSG00000113578	ENST00000359370	Transcript	3_prime_UTR_variant	599	.	.	.	.	.	.	.	-1	FGF1	HGNC	3665	protein_coding	YES	CCDS4275.1	ENSP00000352329	FGF1_HUMAN	Q9UBK1_HUMAN,Q6LBM3_HUMAN,C9JUP6_HUMAN,C9JDC5_HUMAN,A8K147_HUMAN	UPI00000411BE	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGTGAGGAC	.	2	BLCA
GLRA1	0	.	GRCh37	5	151231107	151231107	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>C	p.%3D	p.L252L	ENST00000455880	7/9	120	100	20	112	112	0	GLRA1,synonymous_variant,p.%3D,ENST00000455880,;GLRA1,synonymous_variant,p.%3D,ENST00000274576,;GLRA1,synonymous_variant,p.%3D,ENST00000545569,;GLRA1,non_coding_transcript_exon_variant,,ENST00000471351,;GLRA1,3_prime_UTR_variant,,ENST00000462581,;RP11-54C4.2,downstream_gene_variant,,ENST00000603996,;	G	ENSG00000145888	ENST00000455880	Transcript	synonymous_variant	1043	756	252	L	ctG/ctC	COSM420821	.	.	-1	GLRA1	HGNC	4326	protein_coding	YES	CCDS54942.1	ENSP00000411593	GLRA1_HUMAN	.	UPI0000DA6BF2	.	.	.	7/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF213,TIGRFAM_domain:TIGR00860,Gene3D:1.20.58.390,Superfamily_domains:SSF90112,Prints_domain:PR00253,Prints_domain:PR00252	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAATCAGGTA	.	5	BLCA
MRPL22	0	.	GRCh37	5	154330479	154330479	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.176G>C	p.Gly59Ala	p.G59A	ENST00000523037	3/7	105	76	28	110	110	0	MRPL22,missense_variant,p.Gly59Ala,ENST00000523037,;MRPL22,missense_variant,p.Gly65Ala,ENST00000522038,;MRPL22,missense_variant,p.Gly85Ala,ENST00000439747,;MRPL22,intron_variant,,ENST00000265229,;MRPL22,intron_variant,,ENST00000519059,;MRPL22,upstream_gene_variant,,ENST00000520040,;	C	ENSG00000082515	ENST00000523037	Transcript	missense_variant	217	176	59	G/A	gGa/gCa	COSM420817	.	.	1	MRPL22	HGNC	14480	protein_coding	YES	CCDS4331.1	ENSP00000431040	RM22_HUMAN	.	UPI0000046801	.	deleterious(0.03)	possibly_damaging(0.766)	3/7	.	hmmpanther:PTHR13501,Superfamily_domains:SSF54843	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGAGAAC	.	5	BLCA
FNDC9	0	.	GRCh37	5	156770349	156770349	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196C>G	p.Leu66Val	p.L66V	ENST00000312349	2/2	121	97	24	101	101	0	FNDC9,missense_variant,p.Leu66Val,ENST00000520782,;FNDC9,missense_variant,p.Leu66Val,ENST00000312349,;CYFIP2,intron_variant,,ENST00000377576,;CYFIP2,intron_variant,,ENST00000541131,;CYFIP2,intron_variant,,ENST00000318218,;CYFIP2,intron_variant,,ENST00000435847,;CYFIP2,intron_variant,,ENST00000442283,;CYFIP2,intron_variant,,ENST00000347377,;CYFIP2,intron_variant,,ENST00000522463,;CYFIP2,intron_variant,,ENST00000521420,;CYFIP2,intron_variant,,ENST00000517753,;CYFIP2,intron_variant,,ENST00000523119,;CYFIP2,intron_variant,,ENST00000523969,;CYFIP2,intron_variant,,ENST00000520759,;CYFIP2,intron_variant,,ENST00000519153,;CYFIP2,downstream_gene_variant,,ENST00000520424,;	C	ENSG00000172568	ENST00000312349	Transcript	missense_variant	384	196	66	L/V	Ctt/Gtt	COSM420814	.	.	-1	FNDC9	HGNC	33547	protein_coding	YES	CCDS4337.1	ENSP00000310594	FNDC9_HUMAN	E5RIJ1_HUMAN	UPI000013F2AC	.	deleterious(0)	probably_damaging(0.996)	2/2	.	PROSITE_profiles:PS50853,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAAGATGTT	.	5	BLCA
C5orf54	0	.	GRCh37	5	159822236	159822236	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262G>A	p.Glu88Lys	p.E88K	ENST00000408953	2/2	193	141	51	191	191	0	C5orf54,missense_variant,p.Glu88Lys,ENST00000408953,;C5orf54,missense_variant,p.Glu88Lys,ENST00000523213,;	T	ENSG00000221886	ENST00000408953	Transcript	missense_variant	770	262	88	E/K	Gag/Aag	COSM420806	.	.	-1	C5orf54	HGNC	30804	protein_coding	YES	CCDS34283.1	ENSP00000386184	ZBED8_HUMAN	.	UPI00000741A3	.	tolerated(0.24)	benign(0.443)	2/2	.	hmmpanther:PTHR11697:SF102,hmmpanther:PTHR11697	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCATGAG	.	5	BLCA
MARCH11	0	.	GRCh37	5	16177875	16177875	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.653G>A	p.Arg218Lys	p.R218K	ENST00000332432	2/4	68	54	13	67	67	0	MARCH11,missense_variant,p.Arg218Lys,ENST00000332432,;MARCH11,missense_variant,p.Arg22Lys,ENST00000507111,;RP11-19O2.2,upstream_gene_variant,,ENST00000509037,;MARCH11,non_coding_transcript_exon_variant,,ENST00000505509,;	T	ENSG00000183654	ENST00000332432	Transcript	missense_variant	853	653	218	R/K	aGa/aAa	COSM420798	.	.	-1	MARCH11	HGNC	33609	protein_coding	YES	CCDS47192.1	ENSP00000333181	MARHB_HUMAN	.	UPI00015B3D4A	.	tolerated(0.67)	benign(0.023)	2/4	.	PROSITE_profiles:PS51292,hmmpanther:PTHR23012:SF67,hmmpanther:PTHR23012,Gene3D:3.30.40.10,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATCTATAA	.	5	BLCA
TENM2	0	.	GRCh37	5	167553912	167553912	+	Missense_Mutation	SNP	G	G	A	rs200354006	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2363G>A	p.Arg788Gln	p.R788Q	ENST00000518659	12/29	15	11	4	17	17	0	TENM2,missense_variant,p.Arg788Gln,ENST00000545108,;TENM2,missense_variant,p.Arg556Gln,ENST00000520394,;TENM2,missense_variant,p.Arg667Gln,ENST00000519204,;TENM2,missense_variant,p.Arg788Gln,ENST00000518659,;TENM2,missense_variant,p.Arg621Gln,ENST00000403607,;CTB-178M22.1,intron_variant,,ENST00000517408,;	A	ENSG00000145934	ENST00000518659	Transcript	missense_variant	2402	2363	788	R/Q	cGa/cAa	rs200354006,COSM420795,COSM420794,COSM1133731	.	.	1	TENM2	HGNC	29943	protein_coding	YES	.	ENSP00000429430	TEN2_HUMAN	G8BLJ6_HUMAN,G3CAS7_HUMAN	UPI0001C48FC2	.	tolerated(0.42)	benign(0.03)	12/29	.	PROSITE_profiles:PS50026,hmmpanther:PTHR11219:SF8,hmmpanther:PTHR11219,PROSITE_patterns:PS00022,PROSITE_patterns:PS01186,Gene3D:2gy5A03,SMART_domains:SM00181	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCCGAGAGG	byFrequency|byCluster	5	BLCA
RPL26L1	0	.	GRCh37	5	172386933	172386933	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57C>T	p.%3D	p.F19F	ENST00000521476	2/4	287	233	54	266	266	0	RPL26L1,synonymous_variant,p.%3D,ENST00000265100,;RPL26L1,synonymous_variant,p.%3D,ENST00000519522,;RPL26L1,synonymous_variant,p.%3D,ENST00000521476,;RPL26L1,synonymous_variant,p.%3D,ENST00000519156,;RPL26L1,synonymous_variant,p.%3D,ENST00000519974,;RPL26L1,synonymous_variant,p.%3D,ENST00000519239,;CTC-308K20.2,downstream_gene_variant,,ENST00000519755,;CTC-308K20.1,upstream_gene_variant,,ENST00000518818,;CTC-308K20.1,upstream_gene_variant,,ENST00000518894,;CTC-308K20.1,upstream_gene_variant,,ENST00000520067,;	T	ENSG00000037241	ENST00000521476	Transcript	synonymous_variant	181	57	19	F	ttC/ttT	COSM420781	.	.	1	RPL26L1	HGNC	17050	protein_coding	YES	CCDS4382.1	ENSP00000428223	RL26L_HUMAN	E5RIT6_HUMAN,E5RHH1_HUMAN	UPI000011E3D3	.	.	.	2/4	.	HAMAP:MF_01326_A,hmmpanther:PTHR11143,Gene3D:2.30.30.30,TIGRFAM_domain:TIGR01080,Superfamily_domains:SSF50104	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCAATGC	.	4	BLCA
ZNF354C	0	.	GRCh37	5	178506267	178506267	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.834G>T	p.Glu278Asp	p.E278D	ENST00000315475	5/5	136	98	37	152	152	0	ZNF354C,missense_variant,p.Glu278Asp,ENST00000315475,;RP11-281O15.7,downstream_gene_variant,,ENST00000523735,;	T	ENSG00000177932	ENST00000315475	Transcript	missense_variant	1140	834	278	E/D	gaG/gaT	COSM420754	.	.	1	ZNF354C	HGNC	16736	protein_coding	YES	CCDS4443.1	ENSP00000324064	Z354C_HUMAN	Q9NT78_HUMAN	UPI0000161A6A	.	tolerated(0.06)	benign(0.428)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF140,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGAGAAGGC	.	5	BLCA
PTGER4	0	.	GRCh37	5	40692015	40692015	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1002G>C	p.Lys334Asn	p.K334N	ENST00000302472	3/3	222	162	60	217	217	0	PTGER4,missense_variant,p.Lys334Asn,ENST00000302472,;PTGER4,non_coding_transcript_exon_variant,,ENST00000513635,;PTGER4,non_coding_transcript_exon_variant,,ENST00000512578,;	C	ENSG00000171522	ENST00000302472	Transcript	missense_variant	2026	1002	334	K/N	aaG/aaC	COSM420700	.	.	1	PTGER4	HGNC	9596	protein_coding	YES	CCDS3930.1	ENSP00000302846	PE2R4_HUMAN	A0PJF5_HUMAN	UPI000005042F	.	deleterious(0)	probably_damaging(0.979)	3/3	.	hmmpanther:PTHR11866:SF6,hmmpanther:PTHR11866,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAGACAGT	.	5	BLCA
GPBP1	0	.	GRCh37	5	56545357	56545357	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.947G>C	p.Arg316Thr	p.R316T	ENST00000264779	8/11	68	50	17	89	89	0	GPBP1,missense_variant,p.Arg329Thr,ENST00000454432,;GPBP1,missense_variant,p.Arg316Thr,ENST00000538707,;GPBP1,missense_variant,p.Arg301Thr,ENST00000511209,;GPBP1,missense_variant,p.Arg309Thr,ENST00000506184,;GPBP1,missense_variant,p.Arg316Thr,ENST00000264779,;GPBP1,missense_variant,p.Arg329Thr,ENST00000424459,;GPBP1,missense_variant,p.Arg138Thr,ENST00000514387,;GPBP1,non_coding_transcript_exon_variant,,ENST00000309096,;GPBP1,non_coding_transcript_exon_variant,,ENST00000515484,;GPBP1,downstream_gene_variant,,ENST00000513524,;	C	ENSG00000062194	ENST00000264779	Transcript	missense_variant	957	947	316	R/T	aGa/aCa	COSM420670	.	.	1	GPBP1	HGNC	29520	protein_coding	YES	CCDS47211.1	ENSP00000264779	GPBP1_HUMAN	.	UPI000006F55F	.	deleterious(0)	benign(0.371)	8/11	.	hmmpanther:PTHR14339:SF11,hmmpanther:PTHR14339	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACAGAGTAG	.	5	BLCA
NDUFAF2	0	.	GRCh37	5	60448785	60448785	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*3G>A	.	.	ENST00000296597	4/4	37	32	4	35	35	0	NDUFAF2,3_prime_UTR_variant,,ENST00000296597,;NDUFAF2,3_prime_UTR_variant,,ENST00000502658,;NDUFAF2,3_prime_UTR_variant,,ENST00000511107,;SMIM15,downstream_gene_variant,,ENST00000339020,;NDUFAF2,non_coding_transcript_exon_variant,,ENST00000512623,;	A	ENSG00000164182	ENST00000296597	Transcript	3_prime_UTR_variant	640	.	.	.	.	.	.	.	1	NDUFAF2	HGNC	28086	protein_coding	YES	CCDS3979.1	ENSP00000296597	MIMIT_HUMAN	.	UPI000006D648	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TGAATGCATTA	.	3	BLCA
CEP72	0	.	GRCh37	5	637659	637659	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.932C>G	p.Ser311Cys	p.S311C	ENST00000264935	7/12	87	70	17	88	88	0	CEP72,missense_variant,p.Ser311Cys,ENST00000264935,;CEP72,3_prime_UTR_variant,,ENST00000444221,;	G	ENSG00000112877	ENST00000264935	Transcript	missense_variant	1022	932	311	S/C	tCt/tGt	COSM420668	.	.	1	CEP72	HGNC	25547	protein_coding	YES	CCDS34126.1	ENSP00000264935	CEP72_HUMAN	.	UPI0000072FB8	.	deleterious(0.03)	possibly_damaging(0.885)	7/12	.	hmmpanther:PTHR23311:SF0,hmmpanther:PTHR23311	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTTCTC	.	5	BLCA
SLC30A5	0	.	GRCh37	5	68412387	68412387	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239G>A	p.%3D	p.E413E	ENST00000396591	10/16	83	72	10	88	88	0	SLC30A5,synonymous_variant,p.%3D,ENST00000396591,;CTC-498J12.3,intron_variant,,ENST00000504129,;SLC30A5,non_coding_transcript_exon_variant,,ENST00000507354,;SLC30A5,upstream_gene_variant,,ENST00000512367,;SLC30A5,upstream_gene_variant,,ENST00000513937,;	A	ENSG00000145740	ENST00000396591	Transcript	synonymous_variant	1849	1239	413	E	gaG/gaA	COSM420660	.	.	1	SLC30A5	HGNC	19089	protein_coding	YES	CCDS3996.1	ENSP00000379836	ZNT5_HUMAN	Q9H9X0_HUMAN,Q9BY48_HUMAN,Q9BTR6_HUMAN	UPI0000073958	.	.	.	10/16	.	hmmpanther:PTHR11562,hmmpanther:PTHR11562:SF24	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGAGAGTGA	.	4	BLCA
CCDC125	0	.	GRCh37	5	68616292	68616292	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>T	p.Gly26Cys	p.G26C	ENST00000396496	2/12	171	149	22	146	146	0	CCDC125,missense_variant,p.Gly26Cys,ENST00000396499,;CCDC125,missense_variant,p.Gly26Cys,ENST00000383374,;CCDC125,missense_variant,p.Gly26Cys,ENST00000396496,;CCDC125,splice_region_variant,,ENST00000511257,;CCDC125,splice_region_variant,,ENST00000460090,;CCDC125,non_coding_transcript_exon_variant,,ENST00000513172,;CCDC125,non_coding_transcript_exon_variant,,ENST00000512045,;	A	ENSG00000183323	ENST00000396496	Transcript	missense_variant	184	76	26	G/C	Ggt/Tgt	COSM420658	.	.	-1	CCDC125	HGNC	28924	protein_coding	YES	CCDS4000.1	ENSP00000379754	CC125_HUMAN	.	UPI00004572F8	.	deleterious(0)	probably_damaging(1)	2/12	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCACCTTCTG	.	4	BLCA
MAP1B	0	.	GRCh37	5	71491837	71491837	+	Silent	SNP	C	C	T	rs375972752	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2655C>T	p.%3D	p.T885T	ENST00000296755	5/7	253	199	54	179	179	0	MAP1B,synonymous_variant,p.%3D,ENST00000296755,;MAP1B,downstream_gene_variant,,ENST00000511641,;MAP1B,downstream_gene_variant,,ENST00000504492,;MAP1B,downstream_gene_variant,,ENST00000513526,;	T	ENSG00000131711	ENST00000296755	Transcript	synonymous_variant	2953	2655	885	T	acC/acT	rs375972752,COSM420651	.	.	1	MAP1B	HGNC	6836	protein_coding	YES	CCDS4012.1	ENSP00000296755	MAP1B_HUMAN	D6RGJ3_HUMAN,D6RA40_HUMAN	UPI000013E382	.	.	.	5/7	.	hmmpanther:PTHR13843,hmmpanther:PTHR13843:SF5	.	.	.	.	.	.	.	G:0	G:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCACCAAAGG	byFrequency|byCluster	5	BLCA
ADCY2	0	.	GRCh37	5	7816985	7816985	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2890G>A	p.Glu964Lys	p.E964K	ENST00000338316	23/25	117	94	22	92	92	0	ADCY2,missense_variant,p.Glu964Lys,ENST00000338316,;ADCY2,missense_variant,p.Glu784Lys,ENST00000537121,;ADCY2,non_coding_transcript_exon_variant,,ENST00000382531,;ADCY2,3_prime_UTR_variant,,ENST00000493243,;ADCY2,non_coding_transcript_exon_variant,,ENST00000489501,;	A	ENSG00000078295	ENST00000338316	Transcript	missense_variant	2979	2890	964	E/K	Gag/Aag	COSM421179	.	.	1	ADCY2	HGNC	233	protein_coding	YES	CCDS3872.2	ENSP00000342952	ADCY2_HUMAN	Q7RTV6_HUMAN,Q71UM8_HUMAN,D6REB8_HUMAN	UPI000066D9F2	.	deleterious(0.03)	benign(0.025)	23/25	.	Superfamily_domains:SSF55073,SMART_domains:SM00044,Pfam_domain:PF00211,Gene3D:3.30.70.1230,hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF253,PROSITE_profiles:PS50125	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCGAGCGG	.	5	BLCA
BHMT2	0	.	GRCh37	5	78373343	78373343	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.74G>C	p.Gly25Ala	p.G25A	ENST00000255192	2/8	207	168	39	208	208	0	BHMT2,missense_variant,p.Gly25Ala,ENST00000521567,;BHMT2,missense_variant,p.Gly25Ala,ENST00000255192,;BHMT2,5_prime_UTR_variant,,ENST00000518666,;DMGDH,intron_variant,,ENST00000520388,;BHMT2,missense_variant,p.Gly25Ala,ENST00000519743,;BHMT2,non_coding_transcript_exon_variant,,ENST00000523472,;BHMT2,non_coding_transcript_exon_variant,,ENST00000518758,;BHMT2,upstream_gene_variant,,ENST00000523046,;	C	ENSG00000132840	ENST00000255192	Transcript	missense_variant	140	74	25	G/A	gGa/gCa	COSM421176	.	.	1	BHMT2	HGNC	1048	protein_coding	YES	CCDS4045.1	ENSP00000255192	BHMT2_HUMAN	E5RH96_HUMAN	UPI00000701B9	.	tolerated(0.22)	probably_damaging(0.975)	2/8	.	PROSITE_profiles:PS50970,hmmpanther:PTHR21091,hmmpanther:PTHR21091:SF94,Gene3D:3.20.20.330,Pfam_domain:PF02574,PIRSF_domain:PIRSF037505,Superfamily_domains:SSF82282	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTGGAGATG	.	5	BLCA
CMYA5	0	.	GRCh37	5	79027767	79027767	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3179C>T	p.Ser1060Leu	p.S1060L	ENST00000446378	2/13	46	36	10	55	55	0	CMYA5,missense_variant,p.Ser1060Leu,ENST00000446378,;	T	ENSG00000164309	ENST00000446378	Transcript	missense_variant	3210	3179	1060	S/L	tCa/tTa	COSM421172,COSM421171	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	probably_damaging(0.95)	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTCATCAC	.	5	BLCA
GPR98	0	.	GRCh37	5	90449160	90449160	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18747G>A	p.%3D	p.L6249L	ENST00000405460	89/90	34	29	5	20	20	0	GPR98,synonymous_variant,p.%3D,ENST00000405460,;GPR98,synonymous_variant,p.%3D,ENST00000425867,;	A	ENSG00000164199	ENST00000405460	Transcript	synonymous_variant	18843	18747	6249	L	ctG/ctA	COSM421147	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	.	89/90	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACTGATAGC	.	4	BLCA
FAM172A	0	.	GRCh37	5	93120086	93120086	+	Intron	SNP	C	C	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023+3G>T	.	.	ENST00000395965	.	157	128	29	135	134	0	FAM172A,splice_region_variant,,ENST00000509739,;FAM172A,splice_region_variant,,ENST00000505869,;FAM172A,splice_region_variant,,ENST00000509163,;FAM172A,splice_region_variant,,ENST00000395965,;FAM172A,splice_region_variant,,ENST00000511139,;FAM172A,splice_region_variant,,ENST00000502503,;FAM172A,non_coding_transcript_exon_variant,,ENST00000510445,;	A	ENSG00000113391	ENST00000395965	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	FAM172A	HGNC	25365	protein_coding	YES	CCDS4069.1	ENSP00000379294	F172A_HUMAN	.	UPI000006DF3B	.	.	.	.	9/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AGTCTCACCTC	.	3	BLCA
CHD1	0	.	GRCh37	5	98207807	98207807	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3809A>G	p.Tyr1270Cys	p.Y1270C	ENST00000284049	27/35	188	153	34	129	129	0	CHD1,missense_variant,p.Tyr1270Cys,ENST00000284049,;CHD1,upstream_gene_variant,,ENST00000511067,;CHD1,non_coding_transcript_exon_variant,,ENST00000508756,;CHD1,non_coding_transcript_exon_variant,,ENST00000514344,;CHD1,upstream_gene_variant,,ENST00000512844,;CHD1,upstream_gene_variant,,ENST00000505657,;CHD1,upstream_gene_variant,,ENST00000414220,;	C	ENSG00000153922	ENST00000284049	Transcript	missense_variant	3959	3809	1270	Y/C	tAt/tGt	COSM421133	.	.	-1	CHD1	HGNC	1915	protein_coding	YES	CCDS34204.1	ENSP00000284049	CHD1_HUMAN	.	UPI000013DD75	.	deleterious(0.02)	probably_damaging(0.912)	27/35	.	hmmpanther:PTHR10799:SF535,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCATATCCA	.	5	BLCA
FRK	0	.	GRCh37	6	116264315	116264315	+	Missense_Mutation	SNP	C	C	T	rs185354663	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1174G>A	p.Glu392Lys	p.E392K	ENST00000606080	7/8	76	55	20	63	63	0	FRK,missense_variant,p.Glu392Lys,ENST00000606080,;FRK,missense_variant,p.Glu250Lys,ENST00000538210,;	T	ENSG00000111816	ENST00000606080	Transcript	missense_variant	1621	1174	392	E/K	Gaa/Aaa	rs185354663,COSM421105	.	.	-1	FRK	HGNC	3955	protein_coding	YES	CCDS5103.1	ENSP00000476145	FRK_HUMAN	.	UPI000012AC35	.	deleterious(0)	benign(0.311)	7/8	.	Superfamily_domains:SSF56112,SMART_domains:SM00219,Pfam_domain:PF07714,Gene3D:1.10.510.10,hmmpanther:PTHR24418:SF22,hmmpanther:PTHR24418,PROSITE_profiles:PS50011	T:0.0012	T:0.0038	T:0	.	T:0	T:0	T:0.001	T:0.0023	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCGTGTC	byFrequency|byCluster|by1000G	5	BLCA
ROS1	0	.	GRCh37	6	117718277	117718277	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.580C>T	p.Pro194Ser	p.P194S	ENST00000368508	7/43	115	93	21	130	130	0	ROS1,missense_variant,p.Pro203Ser,ENST00000368507,;ROS1,missense_variant,p.Pro194Ser,ENST00000368508,;GOPC,intron_variant,,ENST00000467125,;	A	ENSG00000047936	ENST00000368508	Transcript	missense_variant	779	580	194	P/S	Cct/Tct	COSM421100,COSM421099	.	.	-1	ROS1	HGNC	10261	protein_coding	YES	CCDS5116.1	ENSP00000357494	ROS1_HUMAN	.	UPI000013D467	.	deleterious(0)	probably_damaging(0.969)	7/43	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF304,hmmpanther:PTHR24416,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCAGGAACTG	.	4	BLCA
SMPDL3A	0	.	GRCh37	6	123127407	123127407	+	Missense_Mutation	SNP	C	C	G	rs143627205	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949C>G	p.Pro317Ala	p.P317A	ENST00000368440	7/8	88	73	15	101	101	0	SMPDL3A,missense_variant,p.Pro186Ala,ENST00000539041,;SMPDL3A,missense_variant,p.Pro317Ala,ENST00000368440,;	G	ENSG00000172594	ENST00000368440	Transcript	missense_variant	1126	949	317	P/A	Cct/Gct	rs143627205,COSM421088	.	.	1	SMPDL3A	HGNC	17389	protein_coding	YES	CCDS5128.1	ENSP00000357425	ASM3A_HUMAN	B7Z729_HUMAN	UPI00000701D1	.	deleterious(0)	probably_damaging(0.999)	7/8	.	hmmpanther:PTHR10340:SF24,hmmpanther:PTHR10340,Gene3D:3.60.21.10,PIRSF_domain:PIRSF036767,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	TGGCTCCTGCT	byCluster	4	BLCA
TRMT11	0	.	GRCh37	6	126320719	126320719	+	Silent	SNP	G	G	A	rs769012859	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639G>A	p.%3D	p.V213V	ENST00000334379	7/13	110	84	25	105	105	0	TRMT11,synonymous_variant,p.%3D,ENST00000334379,;TRMT11,synonymous_variant,p.%3D,ENST00000450358,;TRMT11,synonymous_variant,p.%3D,ENST00000368332,;TRMT11,synonymous_variant,p.%3D,ENST00000453993,;TRMT11,downstream_gene_variant,,ENST00000446681,;TRMT11,downstream_gene_variant,,ENST00000473273,;TRMT11,downstream_gene_variant,,ENST00000444121,;TRMT11,downstream_gene_variant,,ENST00000489934,;TRMT11,synonymous_variant,p.%3D,ENST00000468097,;TRMT11,synonymous_variant,p.%3D,ENST00000479748,;TRMT11,3_prime_UTR_variant,,ENST00000461129,;	A	ENSG00000066651	ENST00000334379	Transcript	synonymous_variant	760	639	213	V	gtG/gtA	rs769012859,COSM421086	.	.	1	TRMT11	HGNC	21080	protein_coding	YES	CCDS35496.1	ENSP00000333934	TRM11_HUMAN	Q5JY02_HUMAN,Q5JY01_HUMAN	UPI000014DBD1	.	.	.	7/13	.	PROSITE_profiles:PS51627,hmmpanther:PTHR13370,hmmpanther:PTHR13370:SF3,Pfam_domain:PF01170,Gene3D:3.40.50.150,PIRSF_domain:PIRSF017259,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGTGAAAGA	byFrequency	5	BLCA
TCF21	0	.	GRCh37	6	134210742	134210742	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207G>A	p.%3D	p.L69L	ENST00000367882	1/2	69	64	5	43	43	0	TCF21,synonymous_variant,p.%3D,ENST00000237316,;TCF21,synonymous_variant,p.%3D,ENST00000367882,;RP3-323P13.2,intron_variant,,ENST00000607573,;RP3-323P13.2,upstream_gene_variant,,ENST00000607641,;RP3-323P13.2,upstream_gene_variant,,ENST00000607033,;RP3-323P13.2,upstream_gene_variant,,ENST00000606544,;	A	ENSG00000118526	ENST00000367882	Transcript	synonymous_variant	467	207	69	L	ctG/ctA	COSM421071	.	.	1	TCF21	HGNC	11632	protein_coding	YES	CCDS5167.1	ENSP00000356857	TCF21_HUMAN	.	UPI0000001290	.	.	.	1/2	.	hmmpanther:PTHR23349,hmmpanther:PTHR23349:SF51	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTGAGCGG	.	2	BLCA
FOXF2	0	.	GRCh37	6	1394928	1394928	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1172-3C>G	.	.	ENST00000259806	.	203	171	32	174	173	1	FOXF2,splice_region_variant,,ENST00000259806,;	G	ENSG00000137273	ENST00000259806	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	FOXF2	HGNC	3810	protein_coding	YES	CCDS4472.1	ENSP00000259806	FOXF2_HUMAN	.	UPI000012ADD6	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCTTTCAGTGG	.	3	BLCA
SYNE1	0	.	GRCh37	6	152461256	152461256	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25287G>C	p.Leu8429Phe	p.L8429F	ENST00000367255	140/146	174	138	36	191	191	0	SYNE1,missense_variant,p.Leu2953Phe,ENST00000356820,;SYNE1,missense_variant,p.Leu584Phe,ENST00000539504,;SYNE1,missense_variant,p.Leu8381Phe,ENST00000423061,;SYNE1,missense_variant,p.Leu1374Phe,ENST00000367251,;SYNE1,missense_variant,p.Leu1075Phe,ENST00000367257,;SYNE1,missense_variant,p.Leu8381Phe,ENST00000448038,;SYNE1,missense_variant,p.Leu8429Phe,ENST00000367255,;SYNE1,missense_variant,p.Leu8041Phe,ENST00000341594,;SYNE1,missense_variant,p.Leu607Phe,ENST00000354674,;SYNE1,missense_variant,p.Leu8429Phe,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000536990,;SYNE1,non_coding_transcript_exon_variant,,ENST00000460912,;SYNE1,non_coding_transcript_exon_variant,,ENST00000347037,;SYNE1,non_coding_transcript_exon_variant,,ENST00000367256,;SYNE1,non_coding_transcript_exon_variant,,ENST00000409694,;SYNE1,non_coding_transcript_exon_variant,,ENST00000478916,;	G	ENSG00000131018	ENST00000367255	Transcript	missense_variant	25889	25287	8429	L/F	ttG/ttC	COSM421023,COSM4149181,COSM421024,COSM4149180,COSM4149184,COSM1133753,COSM4149182,COSM4149183	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	possibly_damaging(0.482)	140/146	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTCAATGC	.	5	BLCA
TULP4	0	.	GRCh37	6	158834155	158834155	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.311G>A	p.Gly104Glu	p.G104E	ENST00000367097	2/14	49	35	14	56	56	0	TULP4,missense_variant,p.Gly104Glu,ENST00000367097,;TULP4,missense_variant,p.Gly104Glu,ENST00000367094,;	A	ENSG00000130338	ENST00000367097	Transcript	missense_variant	1668	311	104	G/E	gGa/gAa	COSM420996	.	.	1	TULP4	HGNC	15530	protein_coding	YES	CCDS34561.1	ENSP00000356064	TULP4_HUMAN	.	UPI000013CD76	.	deleterious(0)	probably_damaging(1)	2/14	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR16517,hmmpanther:PTHR16517:SF2,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACGGAGGCA	.	5	BLCA
T	0	.	GRCh37	6	166571975	166571975	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1136C>G	p.Ser379Cys	p.S379C	ENST00000296946	9/9	73	57	16	52	52	0	T,missense_variant,p.Ser380Cys,ENST00000366876,;T,missense_variant,p.Ser321Cys,ENST00000366871,;T,missense_variant,p.Ser379Cys,ENST00000296946,;	C	ENSG00000164458	ENST00000296946	Transcript	missense_variant	1605	1136	379	S/C	tCc/tGc	COSM420984	.	.	-1	T	HGNC	11515	protein_coding	YES	CCDS5290.1	ENSP00000296946	BRAC_HUMAN	H0YM91_HUMAN	UPI0000126AB5	.	tolerated(0.05)	benign(0.005)	9/9	.	hmmpanther:PTHR11267:SF83,hmmpanther:PTHR11267	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGGGAGCCC	.	5	BLCA
MLLT4	0	.	GRCh37	6	168344641	168344641	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3239G>C	p.Arg1080Thr	p.R1080T	ENST00000392108	25/30	99	71	27	81	81	0	MLLT4,missense_variant,p.Arg1087Thr,ENST00000351017,;MLLT4,missense_variant,p.Arg1080Thr,ENST00000447894,;MLLT4,missense_variant,p.Arg1080Thr,ENST00000392108,;MLLT4,missense_variant,p.Arg1063Thr,ENST00000392112,;MLLT4,missense_variant,p.Arg1080Thr,ENST00000344191,;MLLT4,missense_variant,p.Arg1079Thr,ENST00000400822,;MLLT4,missense_variant,p.Arg1080Thr,ENST00000366806,;MLLT4,non_coding_transcript_exon_variant,,ENST00000507679,;MLLT4,non_coding_transcript_exon_variant,,ENST00000366809,;MLLT4,non_coding_transcript_exon_variant,,ENST00000511637,;MLLT4,upstream_gene_variant,,ENST00000509296,;	C	ENSG00000130396	ENST00000392108	Transcript	missense_variant	3381	3239	1080	R/T	aGa/aCa	COSM420981,COSM420982	.	.	1	MLLT4	HGNC	7137	protein_coding	YES	CCDS47517.1	ENSP00000375956	AFAD_HUMAN	.	UPI0000711FD9	.	deleterious(0)	probably_damaging(0.998)	25/30	.	Superfamily_domains:SSF50156,SMART_domains:SM00228,Gene3D:2.30.42.10,Pfam_domain:PF00595,hmmpanther:PTHR10398,PROSITE_profiles:PS50106	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAAGAACAA	.	5	BLCA
ZFP57	0	.	GRCh37	6	29641179	29641179	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.709G>A	p.Asp237Asn	p.D237N	ENST00000488757	4/4	128	100	28	109	109	0	ZFP57,missense_variant,p.Asp217Asn,ENST00000376883,;ZFP57,missense_variant,p.Asp237Asn,ENST00000488757,;ZFP57,missense_variant,p.Asp217Asn,ENST00000376881,;MOG,downstream_gene_variant,,ENST00000533330,;MOG,downstream_gene_variant,,ENST00000490427,;MOG,downstream_gene_variant,,ENST00000396704,;MOG,downstream_gene_variant,,ENST00000483013,;MOG,downstream_gene_variant,,ENST00000376891,;MOG,downstream_gene_variant,,ENST00000376898,;MOG,downstream_gene_variant,,ENST00000494692,;MOG,downstream_gene_variant,,ENST00000376917,;MOG,downstream_gene_variant,,ENST00000376888,;MOG,downstream_gene_variant,,ENST00000376902,;MOG,downstream_gene_variant,,ENST00000416766,;MOG,downstream_gene_variant,,ENST00000431798,;MOG,downstream_gene_variant,,ENST00000376894,;MOG,downstream_gene_variant,,ENST00000396701,;MOG,downstream_gene_variant,,ENST00000376889,;MOG,downstream_gene_variant,,ENST00000485211,;MOG,downstream_gene_variant,,ENST00000485885,;	T	ENSG00000204644	ENST00000488757	Transcript	missense_variant	860	709	237	D/N	Gac/Aac	COSM420926	.	.	-1	ZFP57	HGNC	18791	protein_coding	YES	CCDS43436.2	ENSP00000418259	ZFP57_HUMAN	.	UPI0001951170	.	tolerated(0.09)	possibly_damaging(0.861)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF179,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTCACAGA	.	5	BLCA
RNF39	0	.	GRCh37	6	30043478	30043478	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89C>T	p.Ala30Val	p.A30V	ENST00000244360	1/4	116	86	30	124	124	0	RNF39,missense_variant,p.Ala30Val,ENST00000376751,;RNF39,missense_variant,p.Ala30Val,ENST00000244360,;	A	ENSG00000204618	ENST00000244360	Transcript	missense_variant	187	89	30	A/V	gCg/gTg	COSM420922	.	.	-1	RNF39	HGNC	18064	protein_coding	YES	CCDS4673.1	ENSP00000244360	RNF39_HUMAN	Q96QB5_HUMAN	UPI000000D735	.	deleterious_low_confidence(0.02)	benign(0.073)	1/4	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCCGCATTA	.	5	BLCA
IER3	0	.	GRCh37	6	30711642	30711642	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71G>C	.	.	ENST00000259874	2/2	38	28	10	28	28	0	IER3,3_prime_UTR_variant,,ENST00000376377,;IER3,3_prime_UTR_variant,,ENST00000259874,;FLOT1,upstream_gene_variant,,ENST00000416018,;FLOT1,upstream_gene_variant,,ENST00000438162,;FLOT1,upstream_gene_variant,,ENST00000376389,;FLOT1,upstream_gene_variant,,ENST00000418160,;FLOT1,upstream_gene_variant,,ENST00000413165,;FLOT1,upstream_gene_variant,,ENST00000456573,;FLOT1,upstream_gene_variant,,ENST00000454845,;FLOT1,upstream_gene_variant,,ENST00000445853,;XXbac-BPG252P9.10,downstream_gene_variant,,ENST00000607333,;FLOT1,upstream_gene_variant,,ENST00000470643,;FLOT1,upstream_gene_variant,,ENST00000484693,;FLOT1,upstream_gene_variant,,ENST00000484168,;FLOT1,upstream_gene_variant,,ENST00000487376,;FLOT1,upstream_gene_variant,,ENST00000476729,;	G	ENSG00000137331	ENST00000259874	Transcript	3_prime_UTR_variant	578	.	.	.	.	.	.	.	-1	IER3	HGNC	5392	protein_coding	YES	CCDS4689.1	ENSP00000259874	IEX1_HUMAN	.	UPI00001AFA8D	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTCGCGCA	.	2	BLCA
MUC21	0	.	GRCh37	6	30954371	30954371	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.419C>G	p.Ser140Cys	p.S140C	ENST00000376296	2/3	305	249	55	284	284	0	MUC21,missense_variant,p.Ser140Cys,ENST00000376296,;MUC21,5_prime_UTR_variant,,ENST00000486149,;	G	ENSG00000204544	ENST00000376296	Transcript	missense_variant	660	419	140	S/C	tCc/tGc	COSM420910	.	.	1	MUC21	HGNC	21661	protein_coding	YES	CCDS34388.1	ENSP00000365473	MUC21_HUMAN	.	UPI000047030C	.	deleterious(0.01)	unknown(0)	2/3	.	Low_complexity_(Seg):seg,Pfam_domain:PF05647,Pfam_domain:PF05647,Pfam_domain:PF05647	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCCAGCA	.	5	BLCA
BAG6	0	.	GRCh37	6	31609349	31609349	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2436C>T	p.%3D	p.I812I	ENST00000375964	17/25	183	119	63	208	208	0	BAG6,synonymous_variant,p.%3D,ENST00000375976,;BAG6,synonymous_variant,p.%3D,ENST00000362049,;BAG6,synonymous_variant,p.%3D,ENST00000375964,;BAG6,synonymous_variant,p.%3D,ENST00000211379,;BAG6,synonymous_variant,p.%3D,ENST00000404765,;BAG6,synonymous_variant,p.%3D,ENST00000439687,;BAG6,downstream_gene_variant,,ENST00000435080,;BAG6,downstream_gene_variant,,ENST00000437771,;PRRC2A,downstream_gene_variant,,ENST00000376033,;BAG6,upstream_gene_variant,,ENST00000441793,;BAG6,downstream_gene_variant,,ENST00000453833,;BAG6,upstream_gene_variant,,ENST00000422948,;PRRC2A,downstream_gene_variant,,ENST00000376007,;BAG6,downstream_gene_variant,,ENST00000438149,;BAG6,upstream_gene_variant,,ENST00000464869,;BAG6,downstream_gene_variant,,ENST00000469182,;BAG6,downstream_gene_variant,,ENST00000470875,;BAG6,upstream_gene_variant,,ENST00000464126,;BAG6,downstream_gene_variant,,ENST00000465348,;BAG6,downstream_gene_variant,,ENST00000462682,;BAG6,non_coding_transcript_exon_variant,,ENST00000462875,;PRRC2A,downstream_gene_variant,,ENST00000462617,;PRRC2A,downstream_gene_variant,,ENST00000482441,;PRRC2A,downstream_gene_variant,,ENST00000492691,;PRRC2A,downstream_gene_variant,,ENST00000487839,;	A	ENSG00000204463	ENST00000375964	Transcript	synonymous_variant	2750	2436	812	I	atC/atT	COSM421405	.	.	-1	BAG6	HGNC	13919	protein_coding	YES	CCDS47403.1	ENSP00000365131	BAG6_HUMAN	F6TC96_HUMAN,F6RG75_HUMAN	UPI000047029D	.	.	.	17/25	.	hmmpanther:PTHR15204	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGTGATCAA	.	5	BLCA
MSH5	0	.	GRCh37	6	31710892	31710892	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.360G>A	p.%3D	p.Q120Q	ENST00000375703	5/25	197	112	85	239	239	0	MSH5,synonymous_variant,p.%3D,ENST00000534153,;MSH5,synonymous_variant,p.%3D,ENST00000375750,;MSH5,synonymous_variant,p.%3D,ENST00000425703,;MSH5,synonymous_variant,p.%3D,ENST00000375742,;MSH5,synonymous_variant,p.%3D,ENST00000375703,;MSH5,synonymous_variant,p.%3D,ENST00000375740,;MSH5,synonymous_variant,p.%3D,ENST00000375755,;CLIC1,upstream_gene_variant,,ENST00000395892,;MSH5,upstream_gene_variant,,ENST00000450148,;MSH5,upstream_gene_variant,,ENST00000431848,;MSH5,non_coding_transcript_exon_variant,,ENST00000482280,;MSH5,synonymous_variant,p.%3D,ENST00000423982,;MSH5-SAPCD1,synonymous_variant,p.%3D,ENST00000493662,;MSH5,synonymous_variant,p.%3D,ENST00000463144,;MSH5,non_coding_transcript_exon_variant,,ENST00000463094,;MSH5,upstream_gene_variant,,ENST00000497269,;	A	ENSG00000204410	ENST00000375703	Transcript	synonymous_variant	415	360	120	Q	caG/caA	COSM421402,COSM421401	.	.	1	MSH5	HGNC	7328	protein_coding	YES	CCDS34410.1	ENSP00000364855	MSH5_HUMAN	Q5SSR2_HUMAN	UPI0000070722	.	.	.	5/25	.	hmmpanther:PTHR11361:SF20,hmmpanther:PTHR11361	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGGAGCA	.	5	BLCA
C2	0	.	GRCh37	6	31913003	31913003	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2128G>A	p.Asp710Asn	p.D710N	ENST00000299367	18/18	144	111	33	139	139	0	C2,missense_variant,p.Asp464Asn,ENST00000469372,;C2,missense_variant,p.Asp578Asn,ENST00000442278,;C2,missense_variant,p.Asp710Asn,ENST00000299367,;C2,missense_variant,p.Asp484Asn,ENST00000383177,;C2,missense_variant,p.Asp496Asn,ENST00000452323,;CFB,intron_variant,,ENST00000456570,;CFB,intron_variant,,ENST00000477310,;CFB,intron_variant,,ENST00000556679,;CFB,upstream_gene_variant,,ENST00000483004,;CFB,upstream_gene_variant,,ENST00000425368,;C2,downstream_gene_variant,,ENST00000497706,;CFB,upstream_gene_variant,,ENST00000475617,;C2,intron_variant,,ENST00000468407,;CFB,upstream_gene_variant,,ENST00000497841,;C2,3_prime_UTR_variant,,ENST00000482060,;C2,non_coding_transcript_exon_variant,,ENST00000486124,;CFB,upstream_gene_variant,,ENST00000465750,;CFB,upstream_gene_variant,,ENST00000452035,;CFB,upstream_gene_variant,,ENST00000460718,;CFB,upstream_gene_variant,,ENST00000472581,;CFB,upstream_gene_variant,,ENST00000482886,;CFB,upstream_gene_variant,,ENST00000467360,;CFB,upstream_gene_variant,,ENST00000467150,;CFB,upstream_gene_variant,,ENST00000461483,;C2,downstream_gene_variant,,ENST00000485690,;	A	ENSG00000166278	ENST00000299367	Transcript	missense_variant	2404	2128	710	D/N	Gac/Aac	COSM421394	.	.	1	C2	HGNC	1248	protein_coding	YES	CCDS4728.1	ENSP00000299367	CO2_HUMAN	Q95IG1_HUMAN,Q6LDG4_HUMAN,Q5ST52_HUMAN,Q5JP69_HUMAN	UPI000000DA4D	.	tolerated(0.66)	benign(0.001)	18/18	.	Superfamily_domains:SSF50494,PIRSF_domain:PIRSF001154,SMART_domains:SM00020,Gene3D:2.40.10.10,hmmpanther:PTHR19325:SF227,hmmpanther:PTHR19325,PROSITE_profiles:PS50240	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGACAAA	.	5	BLCA
ITPR3	0	.	GRCh37	6	33660624	33660624	+	Silent	SNP	G	G	A	rs149058562	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7578G>A	p.%3D	p.E2526E	ENST00000374316	56/59	109	67	41	117	117	0	ITPR3,synonymous_variant,p.%3D,ENST00000374316,;ITPR3,synonymous_variant,p.%3D,ENST00000605930,;UQCC2,downstream_gene_variant,,ENST00000607484,;SBP1,downstream_gene_variant,,ENST00000594414,;UQCC2,downstream_gene_variant,,ENST00000374231,;UQCC2,downstream_gene_variant,,ENST00000374214,;UQCC2,downstream_gene_variant,,ENST00000606961,;	A	ENSG00000096433	ENST00000374316	Transcript	synonymous_variant	8638	7578	2526	E	gaG/gaA	rs149058562,COSM421360	.	.	1	ITPR3	HGNC	6182	protein_coding	YES	CCDS4783.1	ENSP00000363435	ITPR3_HUMAN	A6H8K3_HUMAN	UPI000013CB74	.	.	.	56/59	.	hmmpanther:PTHR13715:SF51,hmmpanther:PTHR13715	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R2524C|c.7570C>T|4,BUFFER|p.R2524C|c.7570C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGAGAAGCA	byCluster|by1000G	5	BLCA
ITPR3	0	.	GRCh37	6	33661456	33661456	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7759G>C	p.Glu2587Gln	p.E2587Q	ENST00000374316	57/59	45	25	19	45	45	0	ITPR3,missense_variant,p.Glu2587Gln,ENST00000374316,;ITPR3,missense_variant,p.Glu2587Gln,ENST00000605930,;UQCC2,downstream_gene_variant,,ENST00000374214,;UQCC2,downstream_gene_variant,,ENST00000607484,;SBP1,downstream_gene_variant,,ENST00000594414,;UQCC2,downstream_gene_variant,,ENST00000374231,;MIR3934,upstream_gene_variant,,ENST00000579806,;UQCC2,downstream_gene_variant,,ENST00000606961,;	C	ENSG00000096433	ENST00000374316	Transcript	missense_variant	8819	7759	2587	E/Q	Gag/Cag	COSM421359	.	.	1	ITPR3	HGNC	6182	protein_coding	YES	CCDS4783.1	ENSP00000363435	ITPR3_HUMAN	A6H8K3_HUMAN	UPI000013CB74	.	deleterious(0)	probably_damaging(0.993)	57/59	.	hmmpanther:PTHR13715:SF51,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTGAGAGC	.	5	BLCA
SBP1	0	.	GRCh37	6	33663418	33663418	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57G>C	p.Lys19Asn	p.K19N	ENST00000594414	1/1	117	48	69	112	112	0	SBP1,missense_variant,p.Lys19Asn,ENST00000594414,;ITPR3,intron_variant,,ENST00000374316,;ITPR3,intron_variant,,ENST00000605930,;UQCC2,intron_variant,,ENST00000374231,;UQCC2,downstream_gene_variant,,ENST00000374214,;UQCC2,downstream_gene_variant,,ENST00000607484,;MIR3934,upstream_gene_variant,,ENST00000579806,;UQCC2,non_coding_transcript_exon_variant,,ENST00000606961,;	G	ENSG00000269490	ENST00000594414	Transcript	missense_variant	57	57	19	K/N	aaG/aaC	.	.	.	-1	SBP1	Uniprot_gn	.	protein_coding	YES	.	ENSP00000469270	.	Q1M2P6_HUMAN	UPI0000D68C5E	.	.	unknown(0)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTTCCA	.	5	BLCA
C6orf222	0	.	GRCh37	6	36298201	36298201	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267G>C	p.Gln89His	p.Q89H	ENST00000437635	2/12	167	130	36	188	188	0	C6orf222,missense_variant,p.Gln89His,ENST00000437635,;	G	ENSG00000189325	ENST00000437635	Transcript	missense_variant	445	267	89	Q/H	caG/caC	COSM421342	.	.	-1	C6orf222	HGNC	33769	protein_coding	YES	CCDS34439.1	ENSP00000418983	CF222_HUMAN	.	UPI000022CB9B	.	tolerated(0.07)	possibly_damaging(0.891)	2/12	.	hmmpanther:PTHR22435,hmmpanther:PTHR22435:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTGCTC	.	5	BLCA
PI16	0	.	GRCh37	6	36930731	36930731	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Asp205Asn	p.D205N	ENST00000373674	5/7	85	59	26	86	86	0	PI16,missense_variant,p.Asp205Asn,ENST00000373674,;PI16,upstream_gene_variant,,ENST00000491324,;	A	ENSG00000164530	ENST00000373674	Transcript	missense_variant	941	613	205	D/N	Gat/Aat	COSM421338	.	.	1	PI16	HGNC	21245	protein_coding	YES	CCDS34440.1	ENSP00000362778	PI16_HUMAN	B4DXZ3_HUMAN	UPI000004C657	.	deleterious(0.01)	benign(0.093)	5/7	.	hmmpanther:PTHR10334	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGAAGATGCT	.	5	BLCA
MDGA1	0	.	GRCh37	6	37620068	37620068	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1031G>A	p.Ser344Asn	p.S344N	ENST00000434837	7/17	54	37	16	52	52	0	MDGA1,missense_variant,p.Ser344Asn,ENST00000297153,;MDGA1,missense_variant,p.Ser344Asn,ENST00000505425,;MDGA1,missense_variant,p.Ser344Asn,ENST00000434837,;MDGA1,downstream_gene_variant,,ENST00000508399,;MDGA1,downstream_gene_variant,,ENST00000515437,;MDGA1,upstream_gene_variant,,ENST00000510077,;MDGA1,non_coding_transcript_exon_variant,,ENST00000478143,;	T	ENSG00000112139	ENST00000434837	Transcript	missense_variant	2210	1031	344	S/N	aGt/aAt	COSM421335	.	.	-1	MDGA1	HGNC	19267	protein_coding	YES	CCDS47417.1	ENSP00000402584	MDGA1_HUMAN	D6RHU8_HUMAN,D6RFG6_HUMAN	UPI0000071D28	.	deleterious(0.02)	probably_damaging(0.953)	7/17	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,hmmpanther:PTHR23282,hmmpanther:PTHR23282:SF66,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCACTCTCT	.	5	BLCA
DNAH8	0	.	GRCh37	6	38834581	38834581	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5971C>G	p.Leu1991Val	p.L1991V	ENST00000359357	45/91	73	65	7	75	75	0	DNAH8,missense_variant,p.Leu1991Val,ENST00000359357,;DNAH8,missense_variant,p.Leu2196Val,ENST00000327475,;DNAH8,missense_variant,p.Leu2208Val,ENST00000449981,;DNAH8,intron_variant,,ENST00000441566,;DNAH8,intron_variant,,ENST00000394393,;	G	ENSG00000124721	ENST00000359357	Transcript	missense_variant	6225	5971	1991	L/V	Ctt/Gtt	COSM421327,COSM421328	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	benign(0.023)	45/91	.	Superfamily_domains:SSF52540,Pfam_domain:PF12774,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTTCTTGAA	.	4	BLCA
DNAH8	0	.	GRCh37	6	38881670	38881670	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9254C>T	p.Ser3085Phe	p.S3085F	ENST00000359357	65/91	84	58	25	74	74	0	DNAH8,missense_variant,p.Ser3085Phe,ENST00000359357,;DNAH8,missense_variant,p.Ser3290Phe,ENST00000327475,;DNAH8,missense_variant,p.Ser3049Phe,ENST00000441566,;DNAH8,missense_variant,p.Ser3302Phe,ENST00000449981,;	T	ENSG00000124721	ENST00000359357	Transcript	missense_variant	9508	9254	3085	S/F	tCt/tTt	COSM421325,COSM421326	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	probably_damaging(0.997)	65/91	.	Pfam_domain:PF12777,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCTCAGG	.	5	BLCA
DNAH8	0	.	GRCh37	6	38957823	38957823	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12438C>T	p.%3D	p.F4146F	ENST00000359357	86/91	200	163	37	219	219	0	DNAH8,synonymous_variant,p.%3D,ENST00000359357,;DNAH8,synonymous_variant,p.%3D,ENST00000327475,;DNAH8,synonymous_variant,p.%3D,ENST00000441566,;	T	ENSG00000124721	ENST00000359357	Transcript	synonymous_variant	12692	12438	4146	F	ttC/ttT	COSM421323,COSM421324	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	.	86/91	.	Pfam_domain:PF03028,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P4144P|c.12432G>A|3,BUFFER|p.P4144P|c.12432G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTCTGCTT	.	5	BLCA
PTK7	0	.	GRCh37	6	43114421	43114421	+	Silent	SNP	C	C	T	rs779866455	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2730C>T	p.%3D	p.L910L	ENST00000481273	17/20	90	75	15	77	77	0	PTK7,synonymous_variant,p.%3D,ENST00000349241,;PTK7,synonymous_variant,p.%3D,ENST00000352931,;PTK7,synonymous_variant,p.%3D,ENST00000481273,;PTK7,synonymous_variant,p.%3D,ENST00000230419,;PTK7,synonymous_variant,p.%3D,ENST00000473339,;PTK7,synonymous_variant,p.%3D,ENST00000345201,;PTK7,synonymous_variant,p.%3D,ENST00000489707,;PTK7,3_prime_UTR_variant,,ENST00000461389,;PTK7,3_prime_UTR_variant,,ENST00000470019,;PTK7,3_prime_UTR_variant,,ENST00000230418,;PTK7,non_coding_transcript_exon_variant,,ENST00000487673,;PTK7,downstream_gene_variant,,ENST00000497957,;PTK7,downstream_gene_variant,,ENST00000470471,;PTK7,downstream_gene_variant,,ENST00000494146,;PTK7,downstream_gene_variant,,ENST00000461100,;PTK7,downstream_gene_variant,,ENST00000493339,;	T	ENSG00000112655	ENST00000481273	Transcript	synonymous_variant	2800	2730	910	L	ctC/ctT	rs779866455,COSM421304	.	.	1	PTK7	HGNC	9618	protein_coding	YES	CCDS59021.1	ENSP00000418754	PTK7_HUMAN	.	UPI0001B79423	.	.	.	17/20	.	PROSITE_profiles:PS50011,hmmpanther:PTHR26391,hmmpanther:PTHR26391:SF14,Gene3D:1.10.510.10,Pfam_domain:PF07714,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCTCAGCAC	byFrequency	4	BLCA
SPATS1	0	.	GRCh37	6	44310891	44310891	+	Nonsense_Mutation	SNP	C	C	G	rs565777182	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>G	p.Ser20Ter	p.S20*	ENST00000288390	1/8	94	78	15	85	85	0	SPATS1,stop_gained,p.Ser20Ter,ENST00000288390,;SPATS1,stop_gained,p.Ser20Ter,ENST00000323108,;SPATS1,stop_gained,p.Ser20Ter,ENST00000515220,;SPATS1,stop_gained,p.Ser20Ter,ENST00000506468,;RP11-444E17.6,intron_variant,,ENST00000505802,;	G	ENSG00000249481	ENST00000288390	Transcript	stop_gained	406	59	20	S/*	tCa/tGa	rs565777182,COSM421286,COSM1133780	.	.	1	SPATS1	HGNC	22957	protein_coding	YES	CCDS4911.1	ENSP00000424400	SPAS1_HUMAN	H0Y9A9_HUMAN	UPI0000072310	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCAAGCA	.	5	BLCA
CDYL	0	.	GRCh37	6	4943860	4943860	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1202C>G	p.Ser401Cys	p.S401C	ENST00000397588	5/7	198	158	40	180	180	0	CDYL,missense_variant,p.Ser269Cys,ENST00000449732,;CDYL,missense_variant,p.Ser401Cys,ENST00000397588,;CDYL,missense_variant,p.Ser269Cys,ENST00000343762,;CDYL,missense_variant,p.Ser455Cys,ENST00000328908,;CDYL,downstream_gene_variant,,ENST00000440139,;CDYL,non_coding_transcript_exon_variant,,ENST00000472453,;CDYL,non_coding_transcript_exon_variant,,ENST00000469671,;	G	ENSG00000153046	ENST00000397588	Transcript	missense_variant	1551	1202	401	S/C	tCt/tGt	COSM421274	.	.	1	CDYL	HGNC	1811	protein_coding	YES	CCDS4491.2	ENSP00000380718	CDYL1_HUMAN	.	UPI0000160F23	.	deleterious(0)	probably_damaging(0.979)	5/7	.	hmmpanther:PTHR11941:SF11,hmmpanther:PTHR11941,Pfam_domain:PF00378,Gene3D:3.90.226.10,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCTATAT	.	5	BLCA
PKHD1	0	.	GRCh37	6	51929769	51929769	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.960C>T	p.%3D	p.L320L	ENST00000371117	13/67	147	119	28	115	115	0	PKHD1,synonymous_variant,p.%3D,ENST00000340994,;PKHD1,synonymous_variant,p.%3D,ENST00000371117,;AL590391.1,upstream_gene_variant,,ENST00000408630,;	A	ENSG00000170927	ENST00000371117	Transcript	synonymous_variant	1236	960	320	L	ctC/ctT	COSM421268,COSM1133783	.	.	-1	PKHD1	HGNC	9016	protein_coding	YES	CCDS4935.1	ENSP00000360158	PKHD1_HUMAN	.	UPI000013C4C0	.	.	.	13/67	.	SMART_domains:SM00429	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGGTGAGCCT	.	4	BLCA
RREB1	0	.	GRCh37	6	7231404	7231404	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3072C>T	p.%3D	p.V1024V	ENST00000379938	10/13	91	67	24	91	91	0	RREB1,synonymous_variant,p.%3D,ENST00000349384,;RREB1,synonymous_variant,p.%3D,ENST00000334984,;RREB1,synonymous_variant,p.%3D,ENST00000379938,;RREB1,synonymous_variant,p.%3D,ENST00000379933,;RREB1,downstream_gene_variant,,ENST00000483150,;	T	ENSG00000124782	ENST00000379938	Transcript	synonymous_variant	3609	3072	1024	V	gtC/gtT	COSM421248,COSM1133785	.	.	1	RREB1	HGNC	10449	protein_coding	YES	CCDS34335.1	ENSP00000369270	RREB1_HUMAN	C9JU34_HUMAN,C9JPJ6_HUMAN,C9JE09_HUMAN	UPI000020E496	.	.	.	10/13	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF42	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTCAGCAG	.	5	BLCA
KCNQ5	0	.	GRCh37	6	73900420	73900420	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1759C>G	p.Gln587Glu	p.Q587E	ENST00000342056	13/15	125	97	27	89	89	0	KCNQ5,missense_variant,p.Gln587Glu,ENST00000342056,;KCNQ5,missense_variant,p.Gln578Glu,ENST00000402622,;KCNQ5,missense_variant,p.Gln568Glu,ENST00000355194,;KCNQ5,missense_variant,p.Gln568Glu,ENST00000370398,;KCNQ5,missense_variant,p.Gln458Glu,ENST00000414165,;KCNQ5,missense_variant,p.Gln569Glu,ENST00000355635,;KCNQ5,missense_variant,p.Gln559Glu,ENST00000403813,;	G	ENSG00000185760	ENST00000342056	Transcript	missense_variant	2157	1759	587	Q/E	Caa/Gaa	COSM421243	.	.	1	KCNQ5	HGNC	6299	protein_coding	YES	CCDS55034.1	ENSP00000345055	.	A6PVT6_HUMAN	UPI000155D644	.	deleterious(0)	probably_damaging(0.994)	13/15	.	Pfam_domain:PF03520	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCAAACA	.	5	BLCA
CD109	0	.	GRCh37	6	74533302	74533302	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4283C>T	p.Ser1428Leu	p.S1428L	ENST00000287097	33/33	160	129	31	189	189	0	CD109,missense_variant,p.Ser1428Leu,ENST00000287097,;CD109,missense_variant,p.Ser1411Leu,ENST00000437994,;CD109,missense_variant,p.Ser1351Leu,ENST00000422508,;	T	ENSG00000156535	ENST00000287097	Transcript	missense_variant	4395	4283	1428	S/L	tCa/tTa	COSM421241	.	.	1	CD109	HGNC	21685	protein_coding	YES	CCDS4982.1	ENSP00000287097	CD109_HUMAN	Q5XUN1_HUMAN,Q5XUM8_HUMAN,Q5XUM6_HUMAN,F1C639_HUMAN	UPI000013DE92	.	tolerated(0.22)	benign(0.005)	33/33	.	hmmpanther:PTHR11412,hmmpanther:PTHR11412:SF29	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAGTCA	.	5	BLCA
CNR1	0	.	GRCh37	6	88854856	88854856	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138G>C	p.Gln46His	p.Q46H	ENST00000537554	2/2	132	96	36	143	143	0	CNR1,missense_variant,p.Gln46His,ENST00000369499,;CNR1,missense_variant,p.Gln46His,ENST00000551417,;CNR1,missense_variant,p.Gln46His,ENST00000428600,;CNR1,missense_variant,p.Gln46His,ENST00000535130,;CNR1,missense_variant,p.Gln46His,ENST00000369501,;CNR1,missense_variant,p.Gln46His,ENST00000537554,;CNR1,missense_variant,p.Gln46His,ENST00000549890,;CNR1,intron_variant,,ENST00000549716,;CNR1,intron_variant,,ENST00000468898,;CNR1,intron_variant,,ENST00000362094,;	G	ENSG00000118432	ENST00000537554	Transcript	missense_variant	3701	138	46	Q/H	caG/caC	COSM421208	.	.	-1	CNR1	HGNC	2159	protein_coding	YES	CCDS5015.1	ENSP00000441046	CNR1_HUMAN	S5TLS4_HUMAN,Q9BYY6_HUMAN,F8W187_HUMAN	UPI00000008AA	.	tolerated_low_confidence(0.25)	benign(0.36)	2/2	.	PIRSF_domain:PIRSF037995,Prints_domain:PR00522	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTCTGTGG	.	5	BLCA
MUC17	0	.	GRCh37	7	100695124	100695124	+	Silent	SNP	C	C	T	rs572357520	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12984C>T	p.%3D	p.F4328F	ENST00000306151	9/13	162	120	41	137	137	0	MUC17,synonymous_variant,p.%3D,ENST00000306151,;MUC17,3_prime_UTR_variant,,ENST00000379439,;MUC17,downstream_gene_variant,,ENST00000470303,;MUC17,upstream_gene_variant,,ENST00000497859,;	T	ENSG00000169876	ENST00000306151	Transcript	synonymous_variant	13048	12984	4328	F	ttC/ttT	rs572357520,COSM421660	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	.	9/13	.	.	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCGTAGT	by1000G	5	BLCA
CUX1	0	.	GRCh37	7	101845024	101845024	+	Missense_Mutation	SNP	G	G	A	rs374783479	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2480G>A	p.Arg827His	p.R827H	ENST00000360264	18/24	31	20	11	47	47	0	CUX1,missense_variant,p.Arg714His,ENST00000546411,;CUX1,missense_variant,p.Arg658His,ENST00000556210,;CUX1,missense_variant,p.Arg794His,ENST00000549414,;CUX1,missense_variant,p.Arg827His,ENST00000360264,;CUX1,missense_variant,p.Arg816His,ENST00000292535,;CUX1,missense_variant,p.Arg760His,ENST00000550008,;CUX1,intron_variant,,ENST00000437600,;CUX1,intron_variant,,ENST00000547394,;CUX1,intron_variant,,ENST00000292538,;CUX1,intron_variant,,ENST00000425244,;CUX1,intron_variant,,ENST00000393824,;CUX1,intron_variant,,ENST00000560541,;CUX1,intron_variant,,ENST00000558836,;	A	ENSG00000257923	ENST00000360264	Transcript	missense_variant	2500	2480	827	R/H	cGc/cAc	rs374783479,COSM421657	.	.	1	CUX1	HGNC	2557	protein_coding	YES	CCDS56498.1	ENSP00000353401	CUX1_HUMAN	.	UPI00001AEB98	.	tolerated(0.06)	unknown(0)	18/24	.	hmmpanther:PTHR14043:SF4,hmmpanther:PTHR14043	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCGCAGCG	byFrequency|byCluster	5	BLCA
PMPCB	0	.	GRCh37	7	102940661	102940661	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>C	p.Glu122Gln	p.E122Q	ENST00000249269	4/13	199	166	32	181	181	0	PMPCB,missense_variant,p.Glu122Gln,ENST00000428154,;PMPCB,missense_variant,p.Glu122Gln,ENST00000249269,;PMPCB,missense_variant,p.Glu17Gln,ENST00000420236,;PMPCB,stop_lost,p.Ter120SerextTer2,ENST00000453466,;PMPCB,stop_lost,p.Ter123SerextTer2,ENST00000443722,;PMPCB,missense_variant,p.Glu122Gln,ENST00000456433,;PMPCB,3_prime_UTR_variant,,ENST00000444457,;PMPCB,non_coding_transcript_exon_variant,,ENST00000498530,;	C	ENSG00000105819	ENST00000249269	Transcript	missense_variant	402	364	122	E/Q	Gag/Cag	COSM421650	.	.	1	PMPCB	HGNC	9119	protein_coding	YES	CCDS5730.1	ENSP00000249269	MPPB_HUMAN	.	UPI00000712F7	.	deleterious(0.05)	possibly_damaging(0.715)	4/13	.	hmmpanther:PTHR11851,hmmpanther:PTHR11851:SF103,Gene3D:3.30.830.10,Pfam_domain:PF00675,Superfamily_domains:SSF63411	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTGAGATT	.	5	BLCA
BCAP29	0	.	GRCh37	7	107253828	107253828	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.641G>C	p.Arg214Thr	p.R214T	ENST00000379119	6/8	58	45	12	63	63	0	BCAP29,missense_variant,p.Arg120Thr,ENST00000379121,;BCAP29,missense_variant,p.Arg214Thr,ENST00000445771,;BCAP29,missense_variant,p.Arg171Thr,ENST00000491150,;BCAP29,missense_variant,p.Arg128Thr,ENST00000436699,;BCAP29,missense_variant,p.Arg214Thr,ENST00000379119,;BCAP29,missense_variant,p.Arg120Thr,ENST00000465919,;BCAP29,missense_variant,p.Arg214Thr,ENST00000005259,;BCAP29,missense_variant,p.Arg214Thr,ENST00000457837,;BCAP29,missense_variant,p.Arg214Thr,ENST00000379117,;BCAP29,non_coding_transcript_exon_variant,,ENST00000494086,;BCAP29,3_prime_UTR_variant,,ENST00000442065,;BCAP29,3_prime_UTR_variant,,ENST00000482371,;	C	ENSG00000075790	ENST00000379119	Transcript	missense_variant	655	641	214	R/T	aGa/aCa	COSM421646	.	.	1	BCAP29	HGNC	24131	protein_coding	YES	CCDS34730.1	ENSP00000368414	BAP29_HUMAN	C9JTE9_HUMAN,C9JP06_HUMAN,C9JGJ9_HUMAN,C9IYK6_HUMAN	UPI000049A621	.	tolerated(0.43)	possibly_damaging(0.595)	6/8	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12701,hmmpanther:PTHR12701:SF5,Pfam_domain:PF05529	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAGACTTT	.	5	BLCA
IFRD1	0	.	GRCh37	7	112096062	112096062	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205G>A	p.Glu69Lys	p.E69K	ENST00000403825	3/12	68	57	11	49	49	0	IFRD1,missense_variant,p.Glu19Lys,ENST00000535603,;IFRD1,missense_variant,p.Glu19Lys,ENST00000443101,;IFRD1,missense_variant,p.Glu69Lys,ENST00000429071,;IFRD1,missense_variant,p.Glu19Lys,ENST00000440625,;IFRD1,missense_variant,p.Glu69Lys,ENST00000403825,;IFRD1,missense_variant,p.Glu69Lys,ENST00000005558,;IFRD1,missense_variant,p.Glu19Lys,ENST00000476927,;IFRD1,downstream_gene_variant,,ENST00000445335,;IFRD1,upstream_gene_variant,,ENST00000466459,;IFRD1,upstream_gene_variant,,ENST00000486688,;	A	ENSG00000006652	ENST00000403825	Transcript	missense_variant	466	205	69	E/K	Gaa/Aaa	COSM421637	.	.	1	IFRD1	HGNC	5456	protein_coding	YES	CCDS34736.1	ENSP00000384477	IFRD1_HUMAN	A4D0U1_HUMAN,Q75MS4_HUMAN,Q75M99_HUMAN,Q75M98_HUMAN,E9PMY4_HUMAN,C9JNM6_HUMAN,C9JLG5_HUMAN,C9JFH1_HUMAN,C9J7U6_HUMAN,C9J311_HUMAN,B7Z4L0_HUMAN	UPI00000304DC	.	deleterious(0.01)	probably_damaging(0.993)	3/12	.	hmmpanther:PTHR12354:SF6,hmmpanther:PTHR12354,Pfam_domain:PF05004	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCAGAAGTC	.	5	BLCA
WASL	0	.	GRCh37	7	123332847	123332847	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901C>G	p.Pro301Ala	p.P301A	ENST00000223023	9/11	125	92	33	105	105	0	WASL,missense_variant,p.Pro301Ala,ENST00000223023,;	C	ENSG00000106299	ENST00000223023	Transcript	missense_variant	1234	901	301	P/A	Cct/Gct	COSM421615	.	.	-1	WASL	HGNC	12735	protein_coding	YES	CCDS34743.1	ENSP00000223023	WASL_HUMAN	.	UPI000013C821	.	tolerated(0.26)	unknown(0)	9/11	.	Low_complexity_(Seg):seg,Superfamily_domains:0037032,Gene3D:3.90.810.10,hmmpanther:PTHR12779:SF3,hmmpanther:PTHR12779	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGGAGGAG	.	5	BLCA
SND1	0	.	GRCh37	7	127714730	127714730	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1956G>A	p.%3D	p.Q652Q	ENST00000354725	17/24	29	25	4	24	24	0	SND1,synonymous_variant,p.%3D,ENST00000354725,;SND1,intron_variant,,ENST00000486037,;SND1,non_coding_transcript_exon_variant,,ENST00000470463,;SND1,non_coding_transcript_exon_variant,,ENST00000470723,;SND1,downstream_gene_variant,,ENST00000484767,;	A	ENSG00000197157	ENST00000354725	Transcript	synonymous_variant	2150	1956	652	Q	caG/caA	COSM421602	.	.	1	SND1	HGNC	30646	protein_coding	YES	CCDS34747.1	ENSP00000346762	SND1_HUMAN	B2R5U1_HUMAN	UPI00000727E5	.	.	.	17/24	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50830,hmmpanther:PTHR12302:SF2,hmmpanther:PTHR12302,Pfam_domain:PF00565,Gene3D:2.40.50.90,PIRSF_domain:PIRSF017179,SMART_domains:SM00318,Superfamily_domains:0047647	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCAGAAGAA	.	4	BLCA
CHCHD3	0	.	GRCh37	7	132754904	132754904	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.167C>G	p.Ser56Ter	p.S56*	ENST00000262570	2/8	65	53	11	69	69	0	CHCHD3,stop_gained,p.Ser56Ter,ENST00000542753,;CHCHD3,stop_gained,p.Ser56Ter,ENST00000448878,;CHCHD3,stop_gained,p.Ser56Ter,ENST00000262570,;CHCHD3,splice_region_variant,,ENST00000481152,;CHCHD3,intron_variant,,ENST00000476546,;CHCHD3,stop_gained,p.Ser56Ter,ENST00000423635,;CHCHD3,stop_gained,p.Ser56Ter,ENST00000457942,;CHCHD3,splice_region_variant,,ENST00000466644,;	C	ENSG00000106554	ENST00000262570	Transcript	stop_gained	312	167	56	S/*	tCa/tGa	COSM421594	.	.	-1	CHCHD3	HGNC	21906	protein_coding	YES	CCDS5828.1	ENSP00000262570	CHCH3_HUMAN	A4D1N4_HUMAN	UPI0000044721	.	.	.	2/8	.	hmmpanther:PTHR21588:SF2,hmmpanther:PTHR21588,Pfam_domain:PF05300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTGAGGCA	.	5	BLCA
PTN	0	.	GRCh37	7	136936106	136936106	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322G>A	p.Glu108Lys	p.E108K	ENST00000348225	4/5	290	228	62	276	276	0	PTN,missense_variant,p.Glu108Lys,ENST00000393083,;PTN,missense_variant,p.Glu108Lys,ENST00000348225,;	T	ENSG00000105894	ENST00000348225	Transcript	missense_variant	750	322	108	E/K	Gaa/Aaa	COSM421584	.	.	-1	PTN	HGNC	9630	protein_coding	YES	CCDS5844.1	ENSP00000341170	PTN_HUMAN	.	UPI000013297B	.	deleterious(0.03)	possibly_damaging(0.894)	4/5	.	Prints_domain:PR00269,Superfamily_domains:SSF57288,SMART_domains:SM00193,Gene3D:1mkcA00,Pfam_domain:PF01091,PROSITE_patterns:PS00620,hmmpanther:PTHR13850,hmmpanther:PTHR13850:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCTCCCC	.	5	BLCA
ARHGEF35	0	.	GRCh37	7	143883993	143883993	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29C>G	.	.	ENST00000378115	2/2	23	20	3	17	17	0	ARHGEF35,3_prime_UTR_variant,,ENST00000543357,;ARHGEF35,3_prime_UTR_variant,,ENST00000378115,;CTAGE4,downstream_gene_variant,,ENST00000486333,;AC004889.1,downstream_gene_variant,,ENST00000436946,;	C	ENSG00000213214	ENST00000378115	Transcript	3_prime_UTR_variant	1614	.	.	.	.	.	.	.	-1	ARHGEF35	HGNC	33846	protein_coding	YES	CCDS34770.1	ENSP00000367355	ARG35_HUMAN	.	UPI00002373BE	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACATTGAACTG	.	2	BLCA
ZNF467	0	.	GRCh37	7	149463159	149463159	+	Silent	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432G>T	p.%3D	p.L144L	ENST00000302017	5/5	18	10	8	18	18	0	ZNF467,synonymous_variant,p.%3D,ENST00000302017,;ZNF467,intron_variant,,ENST00000484747,;	A	ENSG00000181444	ENST00000302017	Transcript	synonymous_variant	846	432	144	L	ctG/ctT	COSM421546	.	.	-1	ZNF467	HGNC	23154	protein_coding	YES	CCDS5899.1	ENSP00000304769	ZN467_HUMAN	.	UPI0000160B41	.	.	.	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24402:SF14,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCAGTGC	.	4	BLCA
PAXIP1	0	.	GRCh37	7	154738261	154738261	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3094G>A	p.Asp1032Asn	p.D1032N	ENST00000404141	19/21	46	40	6	57	57	0	PAXIP1,missense_variant,p.Asp1032Asn,ENST00000404141,;PAXIP1,missense_variant,p.Asp1032Asn,ENST00000397192,;PAXIP1-AS2,downstream_gene_variant,,ENST00000397551,;RP11-5C23.1,upstream_gene_variant,,ENST00000608064,;PAXIP1,non_coding_transcript_exon_variant,,ENST00000473219,;PAXIP1,3_prime_UTR_variant,,ENST00000457196,;PAXIP1,non_coding_transcript_exon_variant,,ENST00000464717,;PAXIP1-AS2,intron_variant,,ENST00000411526,;PAXIP1-AS2,intron_variant,,ENST00000449486,;	T	ENSG00000157212	ENST00000404141	Transcript	missense_variant	3249	3094	1032	D/N	Gac/Aac	COSM421519,COSM421518	.	.	-1	PAXIP1	HGNC	8624	protein_coding	YES	CCDS47753.1	ENSP00000384048	PAXI1_HUMAN	.	UPI00004166F9	.	deleterious(0)	unknown(0)	19/21	.	hmmpanther:PTHR23196:SF1,hmmpanther:PTHR23196,SMART_domains:SM00292	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGTCATTTT	.	4	BLCA
LFNG	0	.	GRCh37	7	2565989	2565989	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.933C>G	p.Phe311Leu	p.F311L	ENST00000222725	6/8	136	102	34	147	147	0	LFNG,missense_variant,p.Phe240Leu,ENST00000402506,;LFNG,missense_variant,p.Phe182Leu,ENST00000402045,;LFNG,missense_variant,p.Phe311Leu,ENST00000222725,;LFNG,missense_variant,p.Phe182Leu,ENST00000338732,;LFNG,missense_variant,p.Phe311Leu,ENST00000359574,;MIR4648,upstream_gene_variant,,ENST00000580107,;LFNG,non_coding_transcript_exon_variant,,ENST00000493850,;	G	ENSG00000106003	ENST00000222725	Transcript	missense_variant	953	933	311	F/L	ttC/ttG	COSM421487,COSM1133804,COSM1133805	.	.	1	LFNG	HGNC	6560	protein_coding	YES	CCDS34587.1	ENSP00000222725	LFNG_HUMAN	.	UPI000012E5D5	.	deleterious(0.01)	possibly_damaging(0.766)	6/8	.	PIRSF_domain:PIRSF038073,Pfam_domain:PF02434,hmmpanther:PTHR10811,hmmpanther:PTHR10811:SF7	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCCACTC	.	5	BLCA
HOXA5	0	.	GRCh37	7	27183051	27183051	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.176C>G	p.Ser59Trp	p.S59W	ENST00000222726	1/2	30	24	6	29	29	0	HOXA5,missense_variant,p.Ser59Trp,ENST00000222726,;HOXA3,upstream_gene_variant,,ENST00000522788,;HOXA6,downstream_gene_variant,,ENST00000222728,;HOXA3,upstream_gene_variant,,ENST00000521779,;HOXA-AS3,intron_variant,,ENST00000521197,;HOXA-AS3,intron_variant,,ENST00000518848,;HOXA-AS3,upstream_gene_variant,,ENST00000518947,;HOXA-AS3,upstream_gene_variant,,ENST00000521231,;HOXA3,intron_variant,,ENST00000518451,;RP1-170O19.22,intron_variant,,ENST00000467897,;HOXA3,upstream_gene_variant,,ENST00000521401,;HOXA6,downstream_gene_variant,,ENST00000521478,;RP1-170O19.23,downstream_gene_variant,,ENST00000498652,;HOXA5,upstream_gene_variant,,ENST00000520854,;	C	ENSG00000106004	ENST00000222726	Transcript	missense_variant	237	176	59	S/W	tCg/tGg	.	.	.	-1	HOXA5	HGNC	5106	protein_coding	YES	CCDS5406.1	ENSP00000222726	HXA5_HUMAN	.	UPI000006CEBE	.	deleterious(0)	possibly_damaging(0.899)	1/2	.	hmmpanther:PTHR24326:SF166,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	AGCCCGAGCGG	.	3	BLCA
FAM188B	0	.	GRCh37	7	30876370	30876370	+	Missense_Mutation	SNP	C	C	T	rs201335083	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1229C>T	p.Ser410Leu	p.S410L	ENST00000265299	7/18	161	131	29	153	153	0	FAM188B,missense_variant,p.Ser410Leu,ENST00000265299,;INMT-FAM188B,3_prime_UTR_variant,,ENST00000458257,;	T	ENSG00000106125	ENST00000265299	Transcript	missense_variant	1306	1229	410	S/L	tCa/tTa	rs201335083,COSM421476	.	.	1	FAM188B	HGNC	21916	protein_coding	YES	CCDS43565.1	ENSP00000265299	F188B_HUMAN	.	UPI0000D60E7B	.	tolerated(0.08)	benign(0.266)	7/18	.	hmmpanther:PTHR12473,hmmpanther:PTHR12473:SF4	.	.	.	.	.	.	.	G:0	G:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAGTAG	byFrequency|byCluster	4	BLCA
PPP1R17	0	.	GRCh37	7	31746835	31746835	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406G>A	p.Asp136Asn	p.D136N	ENST00000342032	5/5	89	75	14	99	99	0	PPP1R17,missense_variant,p.Asp136Asn,ENST00000342032,;PPP1R17,missense_variant,p.Asp85Asn,ENST00000409146,;PPP1R17,non_coding_transcript_exon_variant,,ENST00000498609,;	A	ENSG00000106341	ENST00000342032	Transcript	missense_variant	1034	406	136	D/N	Gac/Aac	.	.	.	1	PPP1R17	HGNC	16973	protein_coding	YES	CCDS5436.1	ENSP00000340125	PPR17_HUMAN	.	UPI000006D182	.	deleterious_low_confidence(0.03)	possibly_damaging(0.629)	5/5	.	hmmpanther:PTHR15387:SF0,hmmpanther:PTHR15387	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D136D|c.408C>T|3	RADIA|MUTECT|MUSE|VARSCANS	TCAGGGACGAG	.	4	BLCA
GLI3	0	.	GRCh37	7	42004188	42004188	+	Missense_Mutation	SNP	C	C	T	rs745631926	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4483G>A	p.Asp1495Asn	p.D1495N	ENST00000395925	15/15	82	67	15	69	69	0	GLI3,missense_variant,p.Asp1495Asn,ENST00000395925,;GLI3,non_coding_transcript_exon_variant,,ENST00000479210,;	T	ENSG00000106571	ENST00000395925	Transcript	missense_variant	4568	4483	1495	D/N	Gac/Aac	rs745631926	.	.	-1	GLI3	HGNC	4319	protein_coding	YES	CCDS5465.1	ENSP00000379258	GLI3_HUMAN	C9J9N4_HUMAN	UPI000020EE4C	.	deleterious(0.03)	possibly_damaging(0.642)	15/15	.	hmmpanther:PTHR19818:SF5,hmmpanther:PTHR19818	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GCTGTCGAGGC	byFrequency	3	BLCA
POLD2	0	.	GRCh37	7	44157622	44157622	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262G>A	p.Glu88Lys	p.E88K	ENST00000406581	4/12	124	98	26	113	113	0	POLD2,missense_variant,p.Glu88Lys,ENST00000406581,;POLD2,missense_variant,p.Glu88Lys,ENST00000223361,;POLD2,missense_variant,p.Glu88Lys,ENST00000433715,;POLD2,missense_variant,p.Glu88Lys,ENST00000456038,;POLD2,missense_variant,p.Glu88Lys,ENST00000452185,;POLD2,missense_variant,p.Glu88Lys,ENST00000418438,;POLD2,intron_variant,,ENST00000436844,;POLD2,upstream_gene_variant,,ENST00000436400,;AEBP1,downstream_gene_variant,,ENST00000223357,;AEBP1,downstream_gene_variant,,ENST00000450684,;POLD2,downstream_gene_variant,,ENST00000481763,;POLD2,non_coding_transcript_exon_variant,,ENST00000463464,;POLD2,non_coding_transcript_exon_variant,,ENST00000496539,;POLD2,non_coding_transcript_exon_variant,,ENST00000467469,;POLD2,non_coding_transcript_exon_variant,,ENST00000470867,;POLD2,non_coding_transcript_exon_variant,,ENST00000461116,;POLD2,non_coding_transcript_exon_variant,,ENST00000464871,;POLD2,upstream_gene_variant,,ENST00000481104,;AEBP1,downstream_gene_variant,,ENST00000413907,;POLD2,upstream_gene_variant,,ENST00000489883,;	T	ENSG00000106628	ENST00000406581	Transcript	missense_variant	912	262	88	E/K	Gag/Aag	COSM421443,COSM421442	.	.	-1	POLD2	HGNC	9176	protein_coding	YES	CCDS5477.1	ENSP00000386105	DPOD2_HUMAN	C9JLE1_HUMAN,C9J8Z7_HUMAN,C9IZD2_HUMAN,A4D2J4_HUMAN	UPI000004D0E7	.	tolerated(0.17)	benign(0.004)	4/12	.	hmmpanther:PTHR10416:SF0,hmmpanther:PTHR10416	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCAGGCT	.	5	BLCA
OGDH	0	.	GRCh37	7	44747299	44747299	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2915G>C	p.Arg972Thr	p.R972T	ENST00000222673	22/23	114	92	22	112	112	0	OGDH,missense_variant,p.Arg972Thr,ENST00000222673,;OGDH,missense_variant,p.Arg923Thr,ENST00000543843,;OGDH,missense_variant,p.Arg987Thr,ENST00000444676,;OGDH,missense_variant,p.Arg968Thr,ENST00000449767,;OGDH,missense_variant,p.Arg983Thr,ENST00000447398,;OGDH,missense_variant,p.Arg822Thr,ENST00000439616,;	C	ENSG00000105953	ENST00000222673	Transcript	missense_variant	2957	2915	972	R/T	aGa/aCa	COSM421435	.	.	1	OGDH	HGNC	8124	protein_coding	YES	CCDS34627.1	ENSP00000222673	ODO1_HUMAN	C9J4G7_HUMAN	UPI000006D5FE	.	deleterious(0)	probably_damaging(0.989)	22/23	.	PIRSF_domain:PIRSF000157,TIGRFAM_domain:TIGR00239,hmmpanther:PTHR23152:SF7,hmmpanther:PTHR23152	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGACTTC	.	5	BLCA
AP5Z1	0	.	GRCh37	7	4830468	4830468	+	Silent	SNP	G	G	C	rs369716428	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2103G>C	p.%3D	p.L701L	ENST00000348624	16/17	16	14	2	16	16	0	AP5Z1,synonymous_variant,p.%3D,ENST00000348624,;AP5Z1,downstream_gene_variant,,ENST00000401897,;MIR4656,upstream_gene_variant,,ENST00000579503,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000490487,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000477680,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000496303,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000469614,;AP5Z1,downstream_gene_variant,,ENST00000477454,;	C	ENSG00000242802	ENST00000348624	Transcript	synonymous_variant	2197	2103	701	L	ctG/ctC	rs369716428,COSM421422,COSM421421	.	.	1	AP5Z1	HGNC	22197	protein_coding	YES	CCDS47528.1	ENSP00000297562	AP5Z1_HUMAN	A4D1Z4_HUMAN	UPI00003E5903	.	.	.	16/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12181:SF29,hmmpanther:PTHR12181,Pfam_domain:PF14764,Gene3D:1.25.10.10	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCTGATGAC	byCluster	2	BLCA
USP42	0	.	GRCh37	7	6180583	6180583	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763G>C	p.Asp255His	p.D255H	ENST00000306177	7/18	60	51	8	85	85	0	USP42,missense_variant,p.Asp255His,ENST00000306177,;USP42,missense_variant,p.Asp101His,ENST00000426246,;USP42,missense_variant,p.Asp188His,ENST00000465073,;USP42,3_prime_UTR_variant,,ENST00000521713,;USP42,3_prime_UTR_variant,,ENST00000404008,;USP42,non_coding_transcript_exon_variant,,ENST00000479544,;	C	ENSG00000106346	ENST00000306177	Transcript	missense_variant	921	763	255	D/H	Gat/Cat	COSM421901,COSM1133811	.	.	1	USP42	HGNC	20068	protein_coding	YES	CCDS47535.1	ENSP00000301962	UBP42_HUMAN	E5RJP3_HUMAN,C9JPC9_HUMAN	UPI0000416754	.	deleterious(0)	probably_damaging(0.992)	7/18	.	Superfamily_domains:SSF54001,Pfam_domain:PF00443,Gene3D:1nbfA02,hmmpanther:PTHR24006:SF405,hmmpanther:PTHR24006,PROSITE_profiles:PS50235	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTGATCCA	.	5	BLCA
ZNF727	0	.	GRCh37	7	63538522	63538522	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1095G>C	p.Leu365Phe	p.L365F	ENST00000550760	4/4	24	18	6	17	17	0	ZNF727,missense_variant,p.Leu365Phe,ENST00000550760,;RP11-3N2.13,downstream_gene_variant,,ENST00000445978,;RP11-3N2.13,non_coding_transcript_exon_variant,,ENST00000456806,;RP11-3N2.13,upstream_gene_variant,,ENST00000430271,;	C	ENSG00000257482	ENST00000550760	Transcript	missense_variant	1274	1095	365	L/F	ttG/ttC	COSM3923874,COSM421899	.	.	1	ZNF727	HGNC	22785	protein_coding	YES	CCDS55113.1	ENSP00000447987	ZN727_HUMAN	.	UPI0001A23134	.	deleterious(0)	benign(0.36)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF79,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTGAGACC	.	5	BLCA
COL28A1	0	.	GRCh37	7	7413118	7413118	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2419G>C	p.Glu807Gln	p.E807Q	ENST00000399429	32/35	186	144	42	169	169	0	COL28A1,missense_variant,p.Glu807Gln,ENST00000399429,;COL28A1,upstream_gene_variant,,ENST00000430711,;	G	ENSG00000215018	ENST00000399429	Transcript	missense_variant	2560	2419	807	E/Q	Gaa/Caa	COSM421883	.	.	-1	COL28A1	HGNC	22442	protein_coding	YES	CCDS43553.1	ENSP00000382356	COSA1_HUMAN	H7C3P2_HUMAN,H7BZU0_HUMAN	UPI000155D64E	.	deleterious(0)	probably_damaging(0.999)	32/35	.	PROSITE_profiles:PS50234,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF375,Gene3D:3.40.50.410,Pfam_domain:PF00092,SMART_domains:SM00327,Superfamily_domains:SSF53300,Prints_domain:PR00453	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTGAGC	.	5	BLCA
GTF2I	0	.	GRCh37	7	74167447	74167447	+	Missense_Mutation	SNP	C	C	T	rs782184501	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2579C>T	p.Ser860Leu	p.S860L	ENST00000324896	29/35	87	74	12	84	84	0	GTF2I,missense_variant,p.Ser860Leu,ENST00000324896,;GTF2I,missense_variant,p.Ser840Leu,ENST00000353920,;GTF2I,missense_variant,p.Ser839Leu,ENST00000346152,;GTF2I,missense_variant,p.Ser819Leu,ENST00000416070,;GTF2I,downstream_gene_variant,,ENST00000438130,;GTF2I,non_coding_transcript_exon_variant,,ENST00000482232,;GTF2I,upstream_gene_variant,,ENST00000464471,;GTF2I,downstream_gene_variant,,ENST00000476035,;GTF2I,upstream_gene_variant,,ENST00000473759,;GTF2I,upstream_gene_variant,,ENST00000460938,;STAG3L2,intron_variant,,ENST00000380775,;	T	ENSG00000077809	ENST00000324896	Transcript	missense_variant	2968	2579	860	S/L	tCg/tTg	rs782184501	.	.	1	GTF2I	HGNC	4659	protein_coding	YES	CCDS5573.1	ENSP00000322542	GTF2I_HUMAN	C9J6M0_HUMAN,B4DRA9_HUMAN,B4DM07_HUMAN,B4DH52_HUMAN	UPI0000001233	.	deleterious(0.01)	benign(0.435)	29/35	.	PROSITE_profiles:PS51139,PIRSF_domain:PIRSF016441	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	ACTCTCGAAAG	.	3	BLCA
MAGI2	0	.	GRCh37	7	77885556	77885556	+	Missense_Mutation	SNP	G	G	A	rs777063252	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1751C>T	p.Pro584Leu	p.P584L	ENST00000354212	10/22	64	56	8	50	50	0	MAGI2,missense_variant,p.Pro416Leu,ENST00000536571,;MAGI2,missense_variant,p.Pro421Leu,ENST00000535697,;MAGI2,missense_variant,p.Pro584Leu,ENST00000354212,;MAGI2,missense_variant,p.Pro584Leu,ENST00000419488,;MAGI2,missense_variant,p.Pro584Leu,ENST00000522391,;MAGI2,non_coding_transcript_exon_variant,,ENST00000519748,;MAGI2,non_coding_transcript_exon_variant,,ENST00000520379,;	A	ENSG00000187391	ENST00000354212	Transcript	missense_variant	2005	1751	584	P/L	cCg/cTg	rs777063252,COSM421873,COSM3929186	.	.	-1	MAGI2	HGNC	18957	protein_coding	YES	CCDS5594.1	ENSP00000346151	MAGI2_HUMAN	.	UPI00001615D2	.	tolerated(0.57)	possibly_damaging(0.826)	10/22	.	hmmpanther:PTHR10316:SF27,hmmpanther:PTHR10316	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGGCGGTGGA	byFrequency	4	BLCA
PCLO	0	.	GRCh37	7	82585375	82585375	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4894G>A	p.Glu1632Lys	p.E1632K	ENST00000333891	5/25	454	426	27	409	409	0	PCLO,missense_variant,p.Glu1632Lys,ENST00000333891,;PCLO,missense_variant,p.Glu1632Lys,ENST00000423517,;	T	ENSG00000186472	ENST00000333891	Transcript	missense_variant	5232	4894	1632	E/K	Gaa/Aaa	COSM421867,COSM421868,COSM421869	.	.	-1	PCLO	HGNC	13406	protein_coding	YES	CCDS47630.1	ENSP00000334319	PCLO_HUMAN	.	UPI0001573469	.	.	unknown(0)	5/25	.	hmmpanther:PTHR14113:SF6,hmmpanther:PTHR14113	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCTTCATCAT	.	2	BLCA
PEX1	0	.	GRCh37	7	92116642	92116642	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*129G>A	.	.	ENST00000248633	24/24	15	9	6	11	11	0	PEX1,3_prime_UTR_variant,,ENST00000248633,;PEX1,3_prime_UTR_variant,,ENST00000438045,;PEX1,downstream_gene_variant,,ENST00000428214,;AC007566.10,intron_variant,,ENST00000427458,;AC007566.10,upstream_gene_variant,,ENST00000441539,;PEX1,non_coding_transcript_exon_variant,,ENST00000484913,;PEX1,non_coding_transcript_exon_variant,,ENST00000477342,;PEX1,non_coding_transcript_exon_variant,,ENST00000496420,;PEX1,downstream_gene_variant,,ENST00000469417,;	T	ENSG00000127980	ENST00000248633	Transcript	3_prime_UTR_variant	4077	.	.	.	.	.	.	.	-1	PEX1	HGNC	8850	protein_coding	YES	CCDS5627.1	ENSP00000248633	PEX1_HUMAN	Q96S70_HUMAN,Q96S69_HUMAN,B4DER6_HUMAN	UPI0000001C39	.	.	.	24/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATCTGTGA	.	5	BLCA
PPP1R9A	0	.	GRCh37	7	94919406	94919406	+	Missense_Mutation	SNP	C	C	G	rs764771275	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3916C>G	p.Leu1306Val	p.L1306V	ENST00000433360	20/20	55	45	10	51	51	0	PPP1R9A,missense_variant,p.Leu1306Val,ENST00000433360,;PPP1R9A,missense_variant,p.Leu1185Val,ENST00000424654,;PPP1R9A,missense_variant,p.Leu1030Val,ENST00000433881,;PPP1R9A,missense_variant,p.Leu1185Val,ENST00000456331,;PPP1R9A,missense_variant,p.Leu1228Val,ENST00000289495,;PPP1R9A,missense_variant,p.Leu1030Val,ENST00000340694,;	G	ENSG00000158528	ENST00000433360	Transcript	missense_variant	4198	3916	1306	L/V	Ctt/Gtt	rs764771275,COSM421845,COSM1133815	.	.	1	PPP1R9A	HGNC	14946	protein_coding	YES	CCDS55127.1	ENSP00000405514	NEB1_HUMAN	C9J730_HUMAN,C9J3G5_HUMAN	UPI000198CF27	.	deleterious(0)	probably_damaging(0.999)	20/20	.	Superfamily_domains:SSF47769,SMART_domains:SM00454,Gene3D:1.10.150.50,Pfam_domain:PF07647,hmmpanther:PTHR16154:SF22,hmmpanther:PTHR16154,PROSITE_profiles:PS50105	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTCTTGGA	byFrequency	5	BLCA
TAC1	0	.	GRCh37	7	97362036	97362036	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>T	p.Asp38Tyr	p.D38Y	ENST00000319273	2/7	101	76	25	120	120	0	TAC1,missense_variant,p.Asp38Tyr,ENST00000346867,;TAC1,missense_variant,p.Asp38Tyr,ENST00000319273,;TAC1,missense_variant,p.Asp38Tyr,ENST00000350485,;TAC1,non_coding_transcript_exon_variant,,ENST00000495916,;TAC1,upstream_gene_variant,,ENST00000491437,;	T	ENSG00000006128	ENST00000319273	Transcript	missense_variant	409	112	38	D/Y	Gac/Tac	COSM421840	.	.	1	TAC1	HGNC	11517	protein_coding	YES	CCDS5649.1	ENSP00000321106	TKN1_HUMAN	.	UPI000002C712	.	deleterious(0)	probably_damaging(0.996)	2/7	.	hmmpanther:PTHR11250:SF0,hmmpanther:PTHR11250,Prints_domain:PR01829	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGACCAG	.	5	BLCA
ZNF655	0	.	GRCh37	7	99170257	99170257	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631G>A	p.Glu211Lys	p.E211K	ENST00000424881	4/4	67	58	8	62	62	0	ZNF655,missense_variant,p.Glu211Lys,ENST00000493277,;ZNF655,missense_variant,p.Glu211Lys,ENST00000424881,;ZNF655,missense_variant,p.Glu176Lys,ENST00000252713,;ZNF655,missense_variant,p.Glu176Lys,ENST00000394163,;ZNF655,3_prime_UTR_variant,,ENST00000425063,;ZNF655,downstream_gene_variant,,ENST00000422647,;ZNF655,downstream_gene_variant,,ENST00000449244,;ZNF655,downstream_gene_variant,,ENST00000422164,;ZNF655,downstream_gene_variant,,ENST00000427931,;ZNF655,downstream_gene_variant,,ENST00000454654,;ZNF655,non_coding_transcript_exon_variant,,ENST00000419215,;GS1-259H13.10,intron_variant,,ENST00000486324,;ZNF655,non_coding_transcript_exon_variant,,ENST00000494357,;GS1-259H13.10,intron_variant,,ENST00000455905,;ZNF655,downstream_gene_variant,,ENST00000412636,;ZNF655,downstream_gene_variant,,ENST00000493947,;	A	ENSG00000197343	ENST00000424881	Transcript	missense_variant	851	631	211	E/K	Gaa/Aaa	COSM421830,COSM1133816	.	.	1	ZNF655	HGNC	30899	protein_coding	YES	CCDS47655.1	ENSP00000393876	ZN655_HUMAN	Q68DU4_HUMAN,F8WEB1_HUMAN,C9JUB9_HUMAN,C9JS03_HUMAN,C9IYG2_HUMAN	UPI000020F66D	.	tolerated(0.12)	possibly_damaging(0.486)	4/4	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF284	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATGAACAC	.	4	BLCA
ZNF655	0	.	GRCh37	7	99170385	99170385	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.759G>A	p.%3D	p.G253G	ENST00000424881	4/4	63	47	15	62	61	1	ZNF655,synonymous_variant,p.%3D,ENST00000493277,;ZNF655,synonymous_variant,p.%3D,ENST00000424881,;ZNF655,synonymous_variant,p.%3D,ENST00000252713,;ZNF655,synonymous_variant,p.%3D,ENST00000394163,;ZNF655,3_prime_UTR_variant,,ENST00000425063,;ZNF655,downstream_gene_variant,,ENST00000422647,;ZNF655,downstream_gene_variant,,ENST00000449244,;ZNF655,downstream_gene_variant,,ENST00000422164,;ZNF655,downstream_gene_variant,,ENST00000427931,;ZNF655,downstream_gene_variant,,ENST00000454654,;ZNF655,non_coding_transcript_exon_variant,,ENST00000419215,;GS1-259H13.10,intron_variant,,ENST00000486324,;ZNF655,non_coding_transcript_exon_variant,,ENST00000494357,;GS1-259H13.10,intron_variant,,ENST00000455905,;ZNF655,downstream_gene_variant,,ENST00000412636,;ZNF655,downstream_gene_variant,,ENST00000493947,;	A	ENSG00000197343	ENST00000424881	Transcript	synonymous_variant	979	759	253	G	ggG/ggA	COSM421829,COSM1133817	.	.	1	ZNF655	HGNC	30899	protein_coding	YES	CCDS47655.1	ENSP00000393876	ZN655_HUMAN	Q68DU4_HUMAN,F8WEB1_HUMAN,C9JUB9_HUMAN,C9JS03_HUMAN,C9IYG2_HUMAN	UPI000020F66D	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF284,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGGGAAAAT	.	5	BLCA
ZNF655	0	.	GRCh37	7	99170442	99170442	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.816G>A	p.%3D	p.E272E	ENST00000424881	4/4	61	52	9	50	50	0	ZNF655,synonymous_variant,p.%3D,ENST00000493277,;ZNF655,synonymous_variant,p.%3D,ENST00000424881,;ZNF655,synonymous_variant,p.%3D,ENST00000252713,;ZNF655,synonymous_variant,p.%3D,ENST00000394163,;ZNF655,3_prime_UTR_variant,,ENST00000425063,;ZNF655,downstream_gene_variant,,ENST00000422647,;ZNF655,downstream_gene_variant,,ENST00000449244,;ZNF655,downstream_gene_variant,,ENST00000422164,;ZNF655,downstream_gene_variant,,ENST00000427931,;ZNF655,downstream_gene_variant,,ENST00000454654,;ZNF655,non_coding_transcript_exon_variant,,ENST00000419215,;GS1-259H13.10,intron_variant,,ENST00000486324,;ZNF655,non_coding_transcript_exon_variant,,ENST00000494357,;GS1-259H13.10,intron_variant,,ENST00000455905,;ZNF655,downstream_gene_variant,,ENST00000412636,;ZNF655,downstream_gene_variant,,ENST00000493947,;	A	ENSG00000197343	ENST00000424881	Transcript	synonymous_variant	1036	816	272	E	gaG/gaA	COSM421828,COSM1133818	.	.	1	ZNF655	HGNC	30899	protein_coding	YES	CCDS47655.1	ENSP00000393876	ZN655_HUMAN	Q68DU4_HUMAN,F8WEB1_HUMAN,C9JUB9_HUMAN,C9JS03_HUMAN,C9IYG2_HUMAN	UPI000020F66D	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF284,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	AGAGAGAAGCC	.	2	BLCA
ZNF655	0	.	GRCh37	7	99170930	99170930	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1304G>C	p.Arg435Thr	p.R435T	ENST00000424881	4/4	96	73	23	98	98	0	ZNF655,missense_variant,p.Arg435Thr,ENST00000493277,;ZNF655,missense_variant,p.Arg435Thr,ENST00000424881,;ZNF655,missense_variant,p.Arg400Thr,ENST00000252713,;ZNF655,missense_variant,p.Arg400Thr,ENST00000394163,;ZNF655,3_prime_UTR_variant,,ENST00000425063,;ZNF655,downstream_gene_variant,,ENST00000422647,;ZNF655,downstream_gene_variant,,ENST00000449244,;ZNF655,downstream_gene_variant,,ENST00000422164,;ZNF655,downstream_gene_variant,,ENST00000427931,;ZNF655,downstream_gene_variant,,ENST00000454654,;ZNF655,non_coding_transcript_exon_variant,,ENST00000419215,;GS1-259H13.10,intron_variant,,ENST00000486324,;ZNF655,non_coding_transcript_exon_variant,,ENST00000494357,;GS1-259H13.10,intron_variant,,ENST00000455905,;ZNF655,downstream_gene_variant,,ENST00000412636,;ZNF655,downstream_gene_variant,,ENST00000493947,;	C	ENSG00000197343	ENST00000424881	Transcript	missense_variant	1524	1304	435	R/T	aGa/aCa	COSM3412557,COSM421827,COSM3412556,COSM1133819	.	.	1	ZNF655	HGNC	30899	protein_coding	YES	CCDS47655.1	ENSP00000393876	ZN655_HUMAN	Q68DU4_HUMAN,F8WEB1_HUMAN,C9JUB9_HUMAN,C9JS03_HUMAN,C9IYG2_HUMAN	UPI000020F66D	.	deleterious(0)	benign(0.402)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF284,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAAGAATTC	.	5	BLCA
RP1L1	0	.	GRCh37	8	10466192	10466192	+	Missense_Mutation	SNP	G	G	C	rs746288825	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5416C>G	p.Gln1806Glu	p.Q1806E	ENST00000382483	4/4	417	328	89	435	435	0	RP1L1,missense_variant,p.Gln1806Glu,ENST00000382483,;	C	ENSG00000183638	ENST00000382483	Transcript	missense_variant	5640	5416	1806	Q/E	Caa/Gaa	rs746288825,COSM421801	.	.	-1	RP1L1	HGNC	15946	protein_coding	YES	CCDS43708.1	ENSP00000371923	.	A6NKC6_HUMAN	UPI00001AF9CC	.	.	unknown(0)	4/4	.	hmmpanther:PTHR23005:SF3,hmmpanther:PTHR23005	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTGACCCC	byFrequency	5	BLCA
RIMS2	0	.	GRCh37	8	104987673	104987673	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2866C>G	p.His956Asp	p.H956D	ENST00000406091	16/24	89	73	15	46	46	0	RIMS2,missense_variant,p.His956Asp,ENST00000406091,;RIMS2,missense_variant,p.His748Asp,ENST00000408894,;RIMS2,missense_variant,p.His956Asp,ENST00000504942,;RIMS2,missense_variant,p.His748Asp,ENST00000507740,;RIMS2,missense_variant,p.His795Asp,ENST00000262231,;RIMS2,missense_variant,p.His734Asp,ENST00000436393,;RIMS2,non_coding_transcript_exon_variant,,ENST00000507677,;	G	ENSG00000176406	ENST00000406091	Transcript	missense_variant	2866	2866	956	H/D	Cat/Gat	COSM3367116,COSM421798,COSM421797,COSM3367115,COSM1133820,COSM3367112,COSM3367114,COSM421796,COSM3367113	.	.	1	RIMS2	HGNC	17283	protein_coding	YES	CCDS55269.1	ENSP00000384892	RIMS2_HUMAN	E9PFB6_HUMAN	UPI0001597063	.	deleterious_low_confidence(0)	probably_damaging(0.996)	16/24	.	hmmpanther:PTHR12157:SF15,hmmpanther:PTHR12157	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCATCGA	.	5	BLCA
UTP23	0	.	GRCh37	8	117782565	117782565	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.323T>C	p.Val108Ala	p.V108A	ENST00000309822	2/3	199	171	28	136	136	0	UTP23,missense_variant,p.Val108Ala,ENST00000517814,;UTP23,missense_variant,p.Val108Ala,ENST00000309822,;UTP23,missense_variant,p.Val108Ala,ENST00000357148,;UTP23,missense_variant,p.Val2Ala,ENST00000520733,;UTP23,intron_variant,,ENST00000517820,;EIF3H,upstream_gene_variant,,ENST00000276682,;EIF3H,upstream_gene_variant,,ENST00000520813,;UTP23,missense_variant,p.Val2Ala,ENST00000524128,;UTP23,non_coding_transcript_exon_variant,,ENST00000519443,;UTP23,non_coding_transcript_exon_variant,,ENST00000521974,;UTP23,intron_variant,,ENST00000521703,;UTP23,intron_variant,,ENST00000521071,;	C	ENSG00000147679	ENST00000309822	Transcript	missense_variant	424	323	108	V/A	gTt/gCt	COSM421758,COSM421759	.	.	1	UTP23	HGNC	28224	protein_coding	YES	CCDS6320.1	ENSP00000308332	UTP23_HUMAN	.	UPI000013EF3A	.	deleterious(0)	benign(0.023)	2/3	.	Superfamily_domains:SSF88723,Gene3D:3.40.50.1010,Pfam_domain:PF04900,hmmpanther:PTHR12416,hmmpanther:PTHR12416:SF3	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATGGTTGAAG	.	4	BLCA
FER1L6	0	.	GRCh37	8	125052230	125052230	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2572C>T	p.His858Tyr	p.H858Y	ENST00000522917	20/41	160	135	25	127	127	0	FER1L6,missense_variant,p.His858Tyr,ENST00000522917,;FER1L6,missense_variant,p.His858Tyr,ENST00000399018,;FER1L6-AS1,intron_variant,,ENST00000518567,;RP11-959I15.4,intron_variant,,ENST00000522005,;	T	ENSG00000214814	ENST00000522917	Transcript	missense_variant	2778	2572	858	H/Y	Cac/Tac	COSM421747	.	.	1	FER1L6	HGNC	28065	protein_coding	YES	CCDS43767.1	ENSP00000428280	FR1L6_HUMAN	.	UPI0000E9B4AA	.	tolerated(0.16)	benign(0.046)	20/41	.	PROSITE_profiles:PS50004,hmmpanther:PTHR12546:SF37,hmmpanther:PTHR12546,Pfam_domain:PF00168,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCTCACTGC	.	4	BLCA
FAM83H	0	.	GRCh37	8	144808291	144808291	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3340G>A	p.Glu1114Lys	p.E1114K	ENST00000388913	5/5	26	21	5	33	33	0	FAM83H,missense_variant,p.Glu1114Lys,ENST00000388913,;MAPK15,downstream_gene_variant,,ENST00000338033,;FAM83H,missense_variant,p.Glu841Lys,ENST00000395103,;MAPK15,downstream_gene_variant,,ENST00000533830,;MAPK15,downstream_gene_variant,,ENST00000528175,;MAPK15,downstream_gene_variant,,ENST00000461928,;MAPK15,downstream_gene_variant,,ENST00000484654,;	T	ENSG00000180921	ENST00000388913	Transcript	missense_variant	3466	3340	1114	E/K	Gag/Aag	COSM421712	.	.	-1	FAM83H	HGNC	24797	protein_coding	YES	CCDS6410.2	ENSP00000373565	FA83H_HUMAN	F4ZCG5_HUMAN	UPI00001D823F	.	deleterious(0.01)	possibly_damaging(0.627)	5/5	.	hmmpanther:PTHR16181,hmmpanther:PTHR16181:SF8	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCGCGC	.	5	BLCA
SCRIB	0	.	GRCh37	8	144895147	144895147	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643-16C>G	.	.	ENST00000356994	.	23	15	7	31	31	0	SCRIB,intron_variant,,ENST00000377533,;SCRIB,intron_variant,,ENST00000356994,;SCRIB,intron_variant,,ENST00000320476,;PUF60,downstream_gene_variant,,ENST00000529999,;PUF60,downstream_gene_variant,,ENST00000349157,;PUF60,downstream_gene_variant,,ENST00000313352,;PUF60,downstream_gene_variant,,ENST00000527197,;PUF60,downstream_gene_variant,,ENST00000526683,;PUF60,downstream_gene_variant,,ENST00000453551,;PUF60,downstream_gene_variant,,ENST00000456095,;SCRIB,upstream_gene_variant,,ENST00000531942,;PUF60,downstream_gene_variant,,ENST00000532884,;PUF60,downstream_gene_variant,,ENST00000527744,;PUF60,downstream_gene_variant,,ENST00000526459,;MIR937,mature_miRNA_variant,,ENST00000401271,;PUF60,downstream_gene_variant,,ENST00000531951,;PUF60,downstream_gene_variant,,ENST00000524570,;PUF60,downstream_gene_variant,,ENST00000528320,;	C	ENSG00000180900	ENST00000356994	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SCRIB	HGNC	30377	protein_coding	YES	CCDS6412.1	ENSP00000349486	SCRIB_HUMAN	.	UPI00004576FD	.	.	.	.	7/36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGAGTCA	.	5	BLCA
BIN3	0	.	GRCh37	8	22487503	22487503	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312G>A	p.%3D	p.Q104Q	ENST00000276416	6/9	24	19	4	16	16	0	BIN3,synonymous_variant,p.%3D,ENST00000520292,;BIN3,synonymous_variant,p.%3D,ENST00000276416,;BIN3,synonymous_variant,p.%3D,ENST00000399977,;BIN3,synonymous_variant,p.%3D,ENST00000519513,;BIN3,non_coding_transcript_exon_variant,,ENST00000519335,;BIN3,non_coding_transcript_exon_variant,,ENST00000519863,;BIN3,3_prime_UTR_variant,,ENST00000522687,;BIN3,non_coding_transcript_exon_variant,,ENST00000521140,;BIN3,upstream_gene_variant,,ENST00000520489,;	T	ENSG00000147439	ENST00000276416	Transcript	synonymous_variant	381	312	104	Q	caG/caA	COSM421674	.	.	-1	BIN3	HGNC	1054	protein_coding	YES	CCDS47825.1	ENSP00000276416	BIN3_HUMAN	.	UPI00000735F3	.	.	.	6/9	.	PROSITE_profiles:PS51021,hmmpanther:PTHR10321,Pfam_domain:PF03114,Gene3D:1.20.1270.60,SMART_domains:SM00721,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCTGGAT	.	5	BLCA
ZNF395	0	.	GRCh37	8	28206244	28206244	+	Missense_Mutation	SNP	G	G	C	rs12545851	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1534C>G	p.Leu512Val	p.L512V	ENST00000344423	10/10	109	90	19	79	79	0	ZNF395,missense_variant,p.Leu512Val,ENST00000344423,;ZNF395,missense_variant,p.Leu512Val,ENST00000523095,;ZNF395,missense_variant,p.Leu512Val,ENST00000523202,;ZNF395,3_prime_UTR_variant,,ENST00000520535,;FBXO16,3_prime_UTR_variant,,ENST00000521548,;ZNF395,downstream_gene_variant,,ENST00000517372,;	C	ENSG00000186918	ENST00000344423	Transcript	missense_variant	1666	1534	512	L/V	Ctg/Gtg	rs12545851,COSM422161	.	.	-1	ZNF395	HGNC	18737	protein_coding	YES	CCDS6067.1	ENSP00000340494	ZN395_HUMAN	E5RH90_HUMAN,E5RGF1_HUMAN,E5RG59_HUMAN,E5RFV4_HUMAN	UPI0000073F08	.	deleterious(0.01)	probably_damaging(0.998)	10/10	.	hmmpanther:PTHR13006:SF6,hmmpanther:PTHR13006	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCAGAAAGC	byHapMap	5	BLCA
EXTL3	0	.	GRCh37	8	28574875	28574875	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1299C>G	p.Ile433Met	p.I433M	ENST00000220562	3/7	122	89	33	111	111	0	EXTL3,missense_variant,p.Ile49Met,ENST00000523149,;EXTL3,missense_variant,p.Ile433Met,ENST00000220562,;EXTL3,intron_variant,,ENST00000521532,;EXTL3,upstream_gene_variant,,ENST00000521473,;EXTL3,intron_variant,,ENST00000519886,;EXTL3,downstream_gene_variant,,ENST00000520940,;EXTL3,downstream_gene_variant,,ENST00000522725,;EXTL3,downstream_gene_variant,,ENST00000519288,;EXTL3,downstream_gene_variant,,ENST00000454906,;EXTL3,downstream_gene_variant,,ENST00000518223,;EXTL3,intron_variant,,ENST00000522698,;	G	ENSG00000012232	ENST00000220562	Transcript	missense_variant	2201	1299	433	I/M	atC/atG	COSM422160,COSM3648046	.	.	1	EXTL3	HGNC	3518	protein_coding	YES	CCDS6070.1	ENSP00000220562	EXTL3_HUMAN	E5RIV6_HUMAN,B4DG91_HUMAN	UPI000012A35D	.	tolerated(0.06)	possibly_damaging(0.794)	3/7	.	Pfam_domain:PF03016,hmmpanther:PTHR11062,hmmpanther:PTHR11062:SF57	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCATTAC	.	5	BLCA
IDO2	0	.	GRCh37	8	39806667	39806667	+	Splice_Site	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23-1G>C	.	p.X8_splice	ENST00000502986	.	21	17	4	19	19	0	IDO2,splice_acceptor_variant,,ENST00000502986,;IDO2,upstream_gene_variant,,ENST00000389060,;RP11-44K6.3,intron_variant,,ENST00000517623,;IDO2,splice_acceptor_variant,,ENST00000343295,;	C	ENSG00000188676	ENST00000502986	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM422125	.	.	1	IDO2	HGNC	27269	protein_coding	YES	.	ENSP00000443432	.	F5H5G0_HUMAN	UPI000152B4F4	.	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGATACT	.	5	BLCA
CHRNB3	0	.	GRCh37	8	42585842	42585842	+	Missense_Mutation	SNP	G	G	A	rs75170626	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.355G>A	p.Glu119Lys	p.E119K	ENST00000289957	4/6	76	61	15	84	84	0	CHRNB3,missense_variant,p.Glu119Lys,ENST00000289957,;RP11-412B14.2,upstream_gene_variant,,ENST00000530523,;	A	ENSG00000147432	ENST00000289957	Transcript	missense_variant	483	355	119	E/K	Gaa/Aaa	rs75170626,COSM422118	.	.	1	CHRNB3	HGNC	1963	protein_coding	YES	CCDS6134.1	ENSP00000289957	ACHB3_HUMAN	.	UPI0000125272	.	deleterious(0.02)	benign(0.042)	4/6	.	Prints_domain:PR00252,Prints_domain:PR00254,Superfamily_domains:0038932,Pfam_domain:PF02931,TIGRFAM_domain:TIGR00860,Gene3D:2.70.170.10,hmmpanther:PTHR18945:SF75,hmmpanther:PTHR18945	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L117I|c.349C>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGAAAAG	suspect|byCluster	5	BLCA
POTEA	0	.	GRCh37	8	43211963	43211963	+	RNA	SNP	C	C	G	rs200028382	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1424C>G	.	.	ENST00000519951	12/14	77	65	12	86	86	0	POTEA,non_coding_transcript_exon_variant,,ENST00000522175,;POTEA,non_coding_transcript_exon_variant,,ENST00000519951,;	G	ENSG00000188877	ENST00000519951	Transcript	non_coding_transcript_exon_variant	1424	.	.	.	.	rs200028382,COSM422116	.	.	1	POTEA	HGNC	33893	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	12/14	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACTCAAAAA	byCluster	5	BLCA
SPIDR	0	.	GRCh37	8	48641538	48641538	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2479C>T	p.Pro827Ser	p.P827S	ENST00000297423	18/20	125	100	25	139	139	0	SPIDR,missense_variant,p.Pro757Ser,ENST00000541342,;SPIDR,missense_variant,p.Pro29Ser,ENST00000518060,;SPIDR,missense_variant,p.Pro827Ser,ENST00000297423,;SPIDR,missense_variant,p.Pro302Ser,ENST00000517693,;SPIDR,missense_variant,p.Pro29Ser,ENST00000517619,;SPIDR,missense_variant,p.Pro767Ser,ENST00000518074,;SPIDR,intron_variant,,ENST00000519401,;SPIDR,non_coding_transcript_exon_variant,,ENST00000521214,;SPIDR,non_coding_transcript_exon_variant,,ENST00000519141,;SPIDR,upstream_gene_variant,,ENST00000588781,;SPIDR,3_prime_UTR_variant,,ENST00000524126,;SPIDR,3_prime_UTR_variant,,ENST00000522117,;SPIDR,non_coding_transcript_exon_variant,,ENST00000519362,;SPIDR,non_coding_transcript_exon_variant,,ENST00000518711,;	T	ENSG00000164808	ENST00000297423	Transcript	missense_variant	2863	2479	827	P/S	Cct/Tct	COSM422113	.	.	1	SPIDR	HGNC	28971	protein_coding	YES	CCDS43737.1	ENSP00000297423	SPIDR_HUMAN	E5RGX8_HUMAN,E5RFY2_HUMAN,B3KP42_HUMAN	UPI0000253B92	.	deleterious(0)	probably_damaging(1)	18/20	.	Pfam_domain:PF14951	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CATCTCCTGTT	.	3	BLCA
SPIDR	0	.	GRCh37	8	48641544	48641544	+	Missense_Mutation	SNP	C	C	T	rs769244843	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2485C>T	p.Leu829Phe	p.L829F	ENST00000297423	18/20	121	96	24	135	135	0	SPIDR,missense_variant,p.Leu759Phe,ENST00000541342,;SPIDR,missense_variant,p.Leu31Phe,ENST00000518060,;SPIDR,missense_variant,p.Leu829Phe,ENST00000297423,;SPIDR,missense_variant,p.Leu304Phe,ENST00000517693,;SPIDR,missense_variant,p.Leu31Phe,ENST00000517619,;SPIDR,missense_variant,p.Leu769Phe,ENST00000518074,;SPIDR,intron_variant,,ENST00000519401,;SPIDR,non_coding_transcript_exon_variant,,ENST00000521214,;SPIDR,non_coding_transcript_exon_variant,,ENST00000519141,;SPIDR,upstream_gene_variant,,ENST00000588781,;SPIDR,3_prime_UTR_variant,,ENST00000524126,;SPIDR,3_prime_UTR_variant,,ENST00000522117,;SPIDR,non_coding_transcript_exon_variant,,ENST00000519362,;SPIDR,non_coding_transcript_exon_variant,,ENST00000518711,;	T	ENSG00000164808	ENST00000297423	Transcript	missense_variant	2869	2485	829	L/F	Ctc/Ttc	rs769244843,COSM422112	.	.	1	SPIDR	HGNC	28971	protein_coding	YES	CCDS43737.1	ENSP00000297423	SPIDR_HUMAN	E5RGX8_HUMAN,E5RFY2_HUMAN,B3KP42_HUMAN	UPI0000253B92	.	tolerated(0.06)	probably_damaging(0.962)	18/20	.	Pfam_domain:PF14951	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGTTCTCAAG	.	3	BLCA
ARFGEF1	0	.	GRCh37	8	68163633	68163633	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2751G>C	p.Gln917His	p.Q917H	ENST00000262215	19/39	66	58	8	73	73	0	ARFGEF1,missense_variant,p.Gln917His,ENST00000262215,;ARFGEF1,missense_variant,p.Gln371His,ENST00000520381,;	G	ENSG00000066777	ENST00000262215	Transcript	missense_variant	3141	2751	917	Q/H	caG/caC	COSM422075	.	.	-1	ARFGEF1	HGNC	15772	protein_coding	YES	CCDS6199.1	ENSP00000262215	BIG1_HUMAN	E5RJN9_HUMAN,E5RJB2_HUMAN,E5RHZ1_HUMAN,B3KMS9_HUMAN	UPI000013D275	.	tolerated(0.16)	benign(0.008)	19/39	.	hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF137	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCTGCTC	.	5	BLCA
SLCO5A1	0	.	GRCh37	8	70650368	70650368	+	Missense_Mutation	SNP	C	C	G	rs747861346	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1330G>C	p.Glu444Gln	p.E444Q	ENST00000260126	5/10	96	85	11	87	87	0	SLCO5A1,missense_variant,p.Glu444Gln,ENST00000524945,;SLCO5A1,missense_variant,p.Glu444Gln,ENST00000260126,;SLCO5A1,intron_variant,,ENST00000530307,;SLCO5A1,intron_variant,,ENST00000532388,;SLCO5A1,intron_variant,,ENST00000526750,;	G	ENSG00000137571	ENST00000260126	Transcript	missense_variant	2037	1330	444	E/Q	Gag/Cag	rs747861346,COSM422070,COSM3779333	.	.	-1	SLCO5A1	HGNC	19046	protein_coding	YES	CCDS6205.1	ENSP00000260126	SO5A1_HUMAN	.	UPI0000140F53	.	deleterious(0)	possibly_damaging(0.816)	5/10	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR11388:SF86,hmmpanther:PTHR11388,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTCTCAGCTG	.	4	BLCA
GDAP1	0	.	GRCh37	8	75262801	75262801	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105C>T	p.%3D	p.F35F	ENST00000220822	1/6	83	66	16	90	90	0	GDAP1,synonymous_variant,p.%3D,ENST00000220822,;GDAP1,intron_variant,,ENST00000434412,;CTD-2320G14.2,upstream_gene_variant,,ENST00000521872,;GDAP1,non_coding_transcript_exon_variant,,ENST00000524366,;GDAP1,non_coding_transcript_exon_variant,,ENST00000523640,;GDAP1,intron_variant,,ENST00000521096,;GDAP1,intron_variant,,ENST00000520797,;GDAP1,synonymous_variant,p.%3D,ENST00000522568,;	T	ENSG00000104381	ENST00000220822	Transcript	synonymous_variant	185	105	35	F	ttC/ttT	COSM422066	.	.	1	GDAP1	HGNC	15968	protein_coding	YES	CCDS34911.1	ENSP00000220822	GDAP1_HUMAN	B4DIH2_HUMAN	UPI00001AE62B	.	.	.	1/6	.	PROSITE_profiles:PS50404,hmmpanther:PTHR11260:SF127,hmmpanther:PTHR11260,Pfam_domain:PF13417,Gene3D:3.40.30.10,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGTTCAGCTC	.	5	BLCA
LRRCC1	0	.	GRCh37	8	86057846	86057846	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*100C>G	.	.	ENST00000360375	19/19	33	25	8	23	23	0	LRRCC1,3_prime_UTR_variant,,ENST00000360375,;LRRCC1,3_prime_UTR_variant,,ENST00000414626,;	G	ENSG00000133739	ENST00000360375	Transcript	3_prime_UTR_variant	3348	.	.	.	.	.	.	.	1	LRRCC1	HGNC	29373	protein_coding	YES	CCDS43750.1	ENSP00000353538	LRCC1_HUMAN	.	UPI000021002F	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTTTCT	.	4	BLCA
KIAA1429	0	.	GRCh37	8	95541352	95541352	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.826G>A	p.Glu276Lys	p.E276K	ENST00000297591	7/24	32	21	11	43	43	0	KIAA1429,missense_variant,p.Glu276Lys,ENST00000297591,;KIAA1429,missense_variant,p.Glu276Lys,ENST00000421249,;KIAA1429,missense_variant,p.Glu276Lys,ENST00000437199,;RP11-267M23.3,upstream_gene_variant,,ENST00000521010,;KIAA1429,downstream_gene_variant,,ENST00000519001,;KIAA1429,upstream_gene_variant,,ENST00000522263,;	T	ENSG00000164944	ENST00000297591	Transcript	missense_variant	902	826	276	E/K	Gag/Aag	COSM422039	.	.	-1	KIAA1429	HGNC	24500	protein_coding	YES	CCDS34923.1	ENSP00000297591	VIR_HUMAN	.	UPI00001BBB23	.	tolerated(0.15)	benign(0.034)	7/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23185:SF0,hmmpanther:PTHR23185	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGGAA	.	5	BLCA
KCNS2	0	.	GRCh37	8	99440459	99440459	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252C>T	p.%3D	p.F84F	ENST00000287042	2/2	182	147	35	191	191	0	KCNS2,synonymous_variant,p.%3D,ENST00000287042,;KCNS2,synonymous_variant,p.%3D,ENST00000521839,;STK3,intron_variant,,ENST00000517832,;	T	ENSG00000156486	ENST00000287042	Transcript	synonymous_variant	602	252	84	F	ttC/ttT	COSM422030	.	.	1	KCNS2	HGNC	6301	protein_coding	YES	CCDS6279.1	ENSP00000287042	KCNS2_HUMAN	.	UPI0000001653	.	.	.	2/2	.	Prints_domain:PR01494,Prints_domain:PR00169,Superfamily_domains:SSF54695,SMART_domains:SM00225,Gene3D:3.30.710.10,Pfam_domain:PF02214,hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF60	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTATCA	.	5	BLCA
KCNS2	0	.	GRCh37	8	99440510	99440510	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.303C>A	p.Phe101Leu	p.F101L	ENST00000287042	2/2	175	133	42	149	149	0	KCNS2,missense_variant,p.Phe101Leu,ENST00000287042,;KCNS2,missense_variant,p.Phe101Leu,ENST00000521839,;STK3,intron_variant,,ENST00000517832,;	A	ENSG00000156486	ENST00000287042	Transcript	missense_variant	653	303	101	F/L	ttC/ttA	COSM422029	.	.	1	KCNS2	HGNC	6301	protein_coding	YES	CCDS6279.1	ENSP00000287042	KCNS2_HUMAN	.	UPI0000001653	.	deleterious(0)	probably_damaging(0.982)	2/2	.	Superfamily_domains:SSF54695,SMART_domains:SM00225,Gene3D:3.30.710.10,Pfam_domain:PF02214,hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF60	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCAGCCA	.	5	BLCA
COL15A1	0	.	GRCh37	9	101825366	101825366	+	Nonsense_Mutation	SNP	C	C	G	rs772268496	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3626C>G	p.Ser1209Ter	p.S1209*	ENST00000375001	39/42	82	62	19	68	68	0	COL15A1,stop_gained,p.Ser1209Ter,ENST00000375001,;	G	ENSG00000204291	ENST00000375001	Transcript	stop_gained	4049	3626	1209	S/*	tCa/tGa	rs772268496,COSM422019	.	.	1	COL15A1	HGNC	2192	protein_coding	YES	CCDS35081.1	ENSP00000364140	COFA1_HUMAN	.	UPI0000211506	.	.	.	39/42	.	hmmpanther:PTHR24023:SF398,hmmpanther:PTHR24023,Pfam_domain:PF06482	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCAAGTG	.	5	BLCA
ZNF462	0	.	GRCh37	9	109687655	109687655	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1462C>T	p.His488Tyr	p.H488Y	ENST00000277225	3/13	97	77	19	86	86	0	ZNF462,missense_variant,p.His488Tyr,ENST00000277225,;ZNF462,missense_variant,p.His488Tyr,ENST00000457913,;ZNF462,intron_variant,,ENST00000472574,;ZNF462,upstream_gene_variant,,ENST00000441147,;RP11-508N12.4,downstream_gene_variant,,ENST00000451160,;ZNF462,upstream_gene_variant,,ENST00000374686,;ZNF462,upstream_gene_variant,,ENST00000497489,;ZNF462,upstream_gene_variant,,ENST00000480607,;	T	ENSG00000148143	ENST00000277225	Transcript	missense_variant	1751	1462	488	H/Y	Cac/Tac	COSM422013	.	.	1	ZNF462	HGNC	21684	protein_coding	YES	CCDS35096.1	ENSP00000277225	ZN462_HUMAN	U3KQ68_HUMAN,F5H0Z0_HUMAN	UPI0000470106	.	.	benign(0.152)	3/13	.	PROSITE_profiles:PS50157,PROSITE_patterns:PS00028,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCACAAA	.	5	BLCA
ACTL7A	0	.	GRCh37	9	111625697	111625697	+	Silent	SNP	G	G	C	rs114738906	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1095G>C	p.%3D	p.T365T	ENST00000333999	1/1	159	121	37	147	147	0	ACTL7A,synonymous_variant,p.%3D,ENST00000333999,;IKBKAP,downstream_gene_variant,,ENST00000374647,;IKBKAP,downstream_gene_variant,,ENST00000495759,;	C	ENSG00000187003	ENST00000333999	Transcript	synonymous_variant	1095	1095	365	T	acG/acC	rs114738906	.	.	1	ACTL7A	HGNC	161	protein_coding	YES	CCDS6772.1	ENSP00000334300	ACL7A_HUMAN	.	UPI0000125052	.	.	.	1/1	.	hmmpanther:PTHR11937:SF167,hmmpanther:PTHR11937,Pfam_domain:PF00022,Gene3D:3.30.420.40,SMART_domains:SM00268,Superfamily_domains:SSF53067	A:0.0026	A:0.0098	A:0	.	A:0	A:0	A:0	A:0.0036	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCACGATGCT	byFrequency|byCluster|by1000G	4	BLCA
CTNNAL1	0	.	GRCh37	9	111741738	111741738	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.924G>A	p.%3D	p.E308E	ENST00000325551	7/19	43	34	8	57	57	0	CTNNAL1,synonymous_variant,p.%3D,ENST00000325580,;CTNNAL1,synonymous_variant,p.%3D,ENST00000325551,;CTNNAL1,synonymous_variant,p.%3D,ENST00000374595,;CTNNAL1,upstream_gene_variant,,ENST00000488130,;	T	ENSG00000119326	ENST00000325551	Transcript	synonymous_variant	1011	924	308	E	gaG/gaA	COSM422008,COSM1103699	.	.	-1	CTNNAL1	HGNC	2512	protein_coding	YES	CCDS6775.1	ENSP00000320434	CTNL1_HUMAN	Q5JTQ9_HUMAN	UPI0000070AF1	.	.	.	7/19	.	hmmpanther:PTHR18914:SF8,hmmpanther:PTHR18914	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R307W|c.919C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATTCTCCCG	.	5	BLCA
SVEP1	0	.	GRCh37	9	113231341	113231341	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3039C>G	p.Phe1013Leu	p.F1013L	ENST00000401783	17/48	104	86	18	107	107	0	SVEP1,missense_variant,p.Phe1013Leu,ENST00000401783,;SVEP1,missense_variant,p.Phe990Leu,ENST00000374469,;SVEP1,missense_variant,p.Phe1013Leu,ENST00000302728,;SVEP1,non_coding_transcript_exon_variant,,ENST00000467821,;	C	ENSG00000165124	ENST00000401783	Transcript	missense_variant	3376	3039	1013	F/L	ttC/ttG	COSM422002	.	.	-1	SVEP1	HGNC	15985	protein_coding	YES	CCDS48004.1	ENSP00000384917	SVEP1_HUMAN	.	UPI000153DA74	.	.	benign(0.002)	17/48	.	Superfamily_domains:SSF57184,Gene3D:2.10.50.10,Pfam_domain:PF07699,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF43	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTGAAATG	.	5	BLCA
SVEP1	0	.	GRCh37	9	113312147	113312147	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769C>T	p.Arg257Cys	p.R257C	ENST00000401783	2/48	29	23	6	32	32	0	SVEP1,missense_variant,p.Arg257Cys,ENST00000401783,;SVEP1,missense_variant,p.Arg234Cys,ENST00000374469,;SVEP1,missense_variant,p.Arg257Cys,ENST00000302728,;SVEP1,missense_variant,p.Arg234Cys,ENST00000374461,;SVEP1,non_coding_transcript_exon_variant,,ENST00000467821,;	A	ENSG00000165124	ENST00000401783	Transcript	missense_variant	1106	769	257	R/C	Cgc/Tgc	COSM422001	.	.	-1	SVEP1	HGNC	15985	protein_coding	YES	CCDS48004.1	ENSP00000384917	SVEP1_HUMAN	.	UPI000153DA74	.	.	probably_damaging(1)	2/48	.	Superfamily_domains:SSF53300,SMART_domains:SM00327,Gene3D:3.40.50.410,PROSITE_profiles:PS50234	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGGCGAGCTA	.	2	BLCA
BSPRY	0	.	GRCh37	9	116131969	116131969	+	Silent	SNP	G	G	A	rs370425380	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>A	p.%3D	p.L252L	ENST00000374183	6/6	127	95	31	146	146	0	BSPRY,synonymous_variant,p.%3D,ENST00000374183,;HDHD3,downstream_gene_variant,,ENST00000374180,;HDHD3,downstream_gene_variant,,ENST00000238379,;BSPRY,non_coding_transcript_exon_variant,,ENST00000462085,;HDHD3,downstream_gene_variant,,ENST00000485934,;	A	ENSG00000119411	ENST00000374183	Transcript	synonymous_variant	795	756	252	L	ctG/ctA	rs370425380,COSM421992	.	.	1	BSPRY	HGNC	18232	protein_coding	YES	CCDS43868.1	ENSP00000363298	BSPRY_HUMAN	.	UPI000013CA39	.	.	.	6/6	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF242,Pfam_domain:PF13765,SMART_domains:SM00589,Superfamily_domains:SSF49899,Prints_domain:PR01407	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGACCTT	.	5	BLCA
C5	0	.	GRCh37	9	123714866	123714866	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*151G>A	.	.	ENST00000223642	41/41	9	6	3	11	11	0	C5,3_prime_UTR_variant,,ENST00000223642,;C5,downstream_gene_variant,,ENST00000480188,;	T	ENSG00000106804	ENST00000223642	Transcript	3_prime_UTR_variant	5212	.	.	.	.	.	.	.	-1	C5	HGNC	1331	protein_coding	YES	CCDS6826.1	ENSP00000223642	CO5_HUMAN	.	UPI000013C838	.	.	.	41/41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTCTAATA	.	2	BLCA
SCAI	0	.	GRCh37	9	127764247	127764247	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1210G>A	p.Glu404Lys	p.E404K	ENST00000373549	13/19	230	179	51	221	221	0	SCAI,missense_variant,p.Glu404Lys,ENST00000373549,;SCAI,missense_variant,p.Glu381Lys,ENST00000336505,;SCAI,non_coding_transcript_exon_variant,,ENST00000487795,;SCAI,missense_variant,p.Glu381Lys,ENST00000477186,;SCAI,upstream_gene_variant,,ENST00000467917,;	T	ENSG00000173611	ENST00000373549	Transcript	missense_variant	1269	1210	404	E/K	Gaa/Aaa	COSM421967	.	.	-1	SCAI	HGNC	26709	protein_coding	YES	CCDS43877.1	ENSP00000362650	SCAI_HUMAN	.	UPI000013F2EF	.	deleterious(0.05)	benign(0.233)	13/19	.	hmmpanther:PTHR21243,Pfam_domain:PF12070,PIRSF_domain:PIRSF013022	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCACTAT	.	5	BLCA
GAPVD1	0	.	GRCh37	9	128111713	128111713	+	Missense_Mutation	SNP	G	G	A	rs752026573	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3295G>A	p.Glu1099Lys	p.E1099K	ENST00000394105	20/27	161	122	38	142	142	0	GAPVD1,missense_variant,p.Glu1072Lys,ENST00000297933,;GAPVD1,missense_variant,p.Glu1045Lys,ENST00000470056,;GAPVD1,missense_variant,p.Glu1099Lys,ENST00000394105,;GAPVD1,missense_variant,p.Glu1090Lys,ENST00000394104,;GAPVD1,missense_variant,p.Glu1064Lys,ENST00000265956,;GAPVD1,missense_variant,p.Glu1024Lys,ENST00000394083,;GAPVD1,missense_variant,p.Glu1090Lys,ENST00000495955,;GAPVD1,missense_variant,p.Glu1051Lys,ENST00000312123,;GAPVD1,non_coding_transcript_exon_variant,,ENST00000474637,;	A	ENSG00000165219	ENST00000394105	Transcript	missense_variant	3455	3295	1099	E/K	Gaa/Aaa	rs752026573,COSM421965	.	.	1	GAPVD1	HGNC	23375	protein_coding	YES	CCDS35138.1	ENSP00000377665	GAPD1_HUMAN	C9IZX9_HUMAN	UPI00001D76F1	.	tolerated(0.06)	benign(0.167)	20/27	.	hmmpanther:PTHR23101:SF55,hmmpanther:PTHR23101	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGACGAAGCA	byFrequency	5	BLCA
ST6GALNAC6	0	.	GRCh37	9	130652994	130652994	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.626A>G	p.Asn209Ser	p.N209S	ENST00000373146	5/7	101	83	17	127	127	0	ST6GALNAC6,missense_variant,p.Asn175Ser,ENST00000373141,;ST6GALNAC6,missense_variant,p.Asn209Ser,ENST00000291839,;ST6GALNAC6,missense_variant,p.Asn175Ser,ENST00000447681,;ST6GALNAC6,missense_variant,p.Asn209Ser,ENST00000373146,;ST6GALNAC6,missense_variant,p.Asn175Ser,ENST00000373144,;ST6GALNAC6,missense_variant,p.Asn209Ser,ENST00000373142,;ST6GALNAC6,intron_variant,,ENST00000542456,;ST6GALNAC6,non_coding_transcript_exon_variant,,ENST00000494541,;ST6GALNAC6,non_coding_transcript_exon_variant,,ENST00000485320,;ST6GALNAC6,non_coding_transcript_exon_variant,,ENST00000480417,;ST6GALNAC6,intron_variant,,ENST00000463086,;ST6GALNAC6,downstream_gene_variant,,ENST00000478319,;ST6GALNAC6,downstream_gene_variant,,ENST00000481355,;RP11-203J24.9,upstream_gene_variant,,ENST00000476274,;	C	ENSG00000160408	ENST00000373146	Transcript	missense_variant	806	626	209	N/S	aAc/aGc	COSM421958	.	.	-1	ST6GALNAC6	HGNC	23364	protein_coding	YES	CCDS6882.1	ENSP00000362239	SIA7F_HUMAN	.	UPI0000073734	.	.	benign(0.058)	5/7	.	Pfam_domain:PF00777,hmmpanther:PTHR13713:SF45,hmmpanther:PTHR13713	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATGTTGGGG	.	5	BLCA
NAIF1	0	.	GRCh37	9	130829327	130829327	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.%3D	p.E18E	ENST00000373078	1/2	338	265	73	308	308	0	NAIF1,synonymous_variant,p.%3D,ENST00000373078,;SLC25A25,upstream_gene_variant,,ENST00000373068,;SLC25A25,upstream_gene_variant,,ENST00000373069,;NAIF1,intron_variant,,ENST00000466139,;NAIF1,upstream_gene_variant,,ENST00000470245,;NAIF1,upstream_gene_variant,,ENST00000488519,;	T	ENSG00000171169	ENST00000373078	Transcript	synonymous_variant	274	54	18	E	gaG/gaA	COSM421957	.	.	-1	NAIF1	HGNC	25446	protein_coding	YES	CCDS6889.1	ENSP00000362170	NAIF1_HUMAN	.	UPI0000160C94	.	.	.	1/2	.	Pfam_domain:PF13873,hmmpanther:PTHR23098,hmmpanther:PTHR23098:SF5,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATCTCCAC	.	5	BLCA
NAIF1	0	.	GRCh37	9	130829460	130829460	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-80G>A	.	.	ENST00000373078	1/2	67	57	10	45	45	0	NAIF1,5_prime_UTR_variant,,ENST00000373078,;SLC25A25,upstream_gene_variant,,ENST00000373068,;SLC25A25,upstream_gene_variant,,ENST00000373069,;NAIF1,intron_variant,,ENST00000466139,;NAIF1,upstream_gene_variant,,ENST00000470245,;NAIF1,upstream_gene_variant,,ENST00000488519,;	T	ENSG00000171169	ENST00000373078	Transcript	5_prime_UTR_variant	141	.	.	.	.	.	.	.	-1	NAIF1	HGNC	25446	protein_coding	YES	CCDS6889.1	ENSP00000362170	NAIF1_HUMAN	.	UPI0000160C94	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCGCCCC	.	2	BLCA
LCN2	0	.	GRCh37	9	130914288	130914288	+	Missense_Mutation	SNP	C	C	G	rs761607932	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459C>G	p.Phe153Leu	p.F153L	ENST00000373017	5/7	210	170	40	197	197	0	LCN2,missense_variant,p.Phe155Leu,ENST00000373013,;LCN2,missense_variant,p.Phe153Leu,ENST00000373017,;LCN2,missense_variant,p.Phe153Leu,ENST00000277480,;LCN2,missense_variant,p.Phe153Leu,ENST00000540948,;LCN2,missense_variant,p.Phe155Leu,ENST00000372998,;LCN2,non_coding_transcript_exon_variant,,ENST00000494317,;LCN2,non_coding_transcript_exon_variant,,ENST00000470902,;LCN2,non_coding_transcript_exon_variant,,ENST00000488391,;LCN2,downstream_gene_variant,,ENST00000487719,;	G	ENSG00000148346	ENST00000373017	Transcript	missense_variant	696	459	153	F/L	ttC/ttG	rs761607932,COSM421956	.	.	1	LCN2	HGNC	6526	protein_coding	YES	CCDS6892.1	ENSP00000362108	NGAL_HUMAN	.	UPI000012FFEF	.	deleterious(0)	possibly_damaging(0.473)	5/7	.	hmmpanther:PTHR11430:SF13,hmmpanther:PTHR11430,Pfam_domain:PF00061,Gene3D:2.40.128.20,Superfamily_domains:SSF50814,Prints_domain:PR01275	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCAAGAT	.	5	BLCA
SPTAN1	0	.	GRCh37	9	131395126	131395126	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7200G>A	p.Met2400Ile	p.M2400I	ENST00000372739	56/57	220	187	32	194	194	0	SPTAN1,missense_variant,p.Met2400Ile,ENST00000358161,;SPTAN1,missense_variant,p.Met2400Ile,ENST00000372739,;SPTAN1,missense_variant,p.Met2395Ile,ENST00000372731,;WDR34,downstream_gene_variant,,ENST00000372715,;WDR34,downstream_gene_variant,,ENST00000451652,;WDR34,downstream_gene_variant,,ENST00000419989,;WDR34,downstream_gene_variant,,ENST00000473486,;WDR34,downstream_gene_variant,,ENST00000480613,;WDR34,downstream_gene_variant,,ENST00000483181,;	A	ENSG00000197694	ENST00000372739	Transcript	missense_variant	7310	7200	2400	M/I	atG/atA	COSM421947	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	deleterious(0.01)	benign(0.002)	56/57	.	PROSITE_profiles:PS50222,hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Pfam_domain:PF13499,Gene3D:1.10.238.10,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCATGATCAG	.	4	BLCA
ZER1	0	.	GRCh37	9	131517773	131517773	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72C>T	p.%3D	p.T24T	ENST00000291900	2/16	146	118	28	170	170	0	ZER1,synonymous_variant,p.%3D,ENST00000427848,;ZER1,synonymous_variant,p.%3D,ENST00000414921,;ZER1,synonymous_variant,p.%3D,ENST00000291900,;ZER1,intron_variant,,ENST00000494461,;	A	ENSG00000160445	ENST00000291900	Transcript	synonymous_variant	479	72	24	T	acC/acT	COSM421946	.	.	-1	ZER1	HGNC	30960	protein_coding	YES	CCDS6910.1	ENSP00000291900	ZER1_HUMAN	Q05BR7_HUMAN	UPI000013E085	.	.	.	2/16	.	hmmpanther:PTHR12904:SF22,hmmpanther:PTHR12904	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGGGTGCC	.	5	BLCA
DOLK	0	.	GRCh37	9	131709436	131709436	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147C>G	p.%3D	p.L49L	ENST00000372586	1/1	98	77	21	126	126	0	DOLK,synonymous_variant,p.%3D,ENST00000372586,;RP11-101E3.5,intron_variant,,ENST00000482796,;NUP188,upstream_gene_variant,,ENST00000372577,;NUP188,upstream_gene_variant,,ENST00000550219,;NUP188,upstream_gene_variant,,ENST00000491990,;NUP188,upstream_gene_variant,,ENST00000464729,;	C	ENSG00000175283	ENST00000372586	Transcript	synonymous_variant	463	147	49	L	ctC/ctG	COSM421944	.	.	-1	DOLK	HGNC	23406	protein_coding	YES	CCDS6915.1	ENSP00000361667	DOLK_HUMAN	.	UPI0000001C36	.	.	.	1/1	.	hmmpanther:PTHR13205,hmmpanther:PTHR13205:SF14	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGCGAGGGC	.	5	BLCA
NUP188	0	.	GRCh37	9	131745618	131745618	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1843G>A	p.Val615Ile	p.V615I	ENST00000372577	18/44	170	142	28	157	157	0	NUP188,missense_variant,p.Val615Ile,ENST00000372577,;NUP188,upstream_gene_variant,,ENST00000465344,;NUP188,upstream_gene_variant,,ENST00000491502,;NUP188,upstream_gene_variant,,ENST00000477069,;	A	ENSG00000095319	ENST00000372577	Transcript	missense_variant	1864	1843	615	V/I	Gtc/Atc	COSM421942	.	.	1	NUP188	HGNC	17859	protein_coding	YES	CCDS35156.1	ENSP00000361658	NU188_HUMAN	.	UPI000041A60F	.	tolerated(0.22)	probably_damaging(0.933)	18/44	.	hmmpanther:PTHR31431,hmmpanther:PTHR31431:SF1,Pfam_domain:PF10487,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGTGTCAAC	.	4	BLCA
ASS1	0	.	GRCh37	9	133327632	133327632	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>T	p.Ser6Phe	p.S6F	ENST00000372394	3/16	56	44	11	57	57	0	ASS1,missense_variant,p.Ser6Phe,ENST00000372394,;ASS1,missense_variant,p.Ser6Phe,ENST00000352480,;ASS1,missense_variant,p.Ser6Phe,ENST00000443588,;ASS1,missense_variant,p.Ser6Phe,ENST00000372393,;ASS1,missense_variant,p.Ser6Phe,ENST00000422569,;snoU13,downstream_gene_variant,,ENST00000458976,;	T	ENSG00000130707	ENST00000372394	Transcript	missense_variant	498	17	6	S/F	tCc/tTc	COSM421933	.	.	1	ASS1	HGNC	758	protein_coding	YES	CCDS6933.1	ENSP00000361471	ASSY_HUMAN	Q8NFZ7_HUMAN,Q5T6L6_HUMAN,Q5T6L4_HUMAN	UPI00000015D6	.	deleterious(0.01)	benign(0.049)	3/16	.	HAMAP:MF_00005,hmmpanther:PTHR11587,hmmpanther:PTHR11587:SF1,Gene3D:3.40.50.620,Superfamily_domains:SSF52402	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCCGTGG	.	5	BLCA
ASS1	0	.	GRCh37	9	133376534	133376534	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*126G>A	.	.	ENST00000372394	16/16	40	29	10	22	22	0	ASS1,3_prime_UTR_variant,,ENST00000372394,;ASS1,3_prime_UTR_variant,,ENST00000352480,;ASS1,3_prime_UTR_variant,,ENST00000372386,;ASS1,3_prime_UTR_variant,,ENST00000372393,;	A	ENSG00000130707	ENST00000372394	Transcript	3_prime_UTR_variant	1846	.	.	.	.	.	.	.	1	ASS1	HGNC	758	protein_coding	YES	CCDS6933.1	ENSP00000361471	ASSY_HUMAN	Q8NFZ7_HUMAN,Q5T6L6_HUMAN,Q5T6L4_HUMAN	UPI00000015D6	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	TGCCAGGCCCC	.	4	BLCA
LAMC3	0	.	GRCh37	9	133907468	133907468	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.715G>A	p.Asp239Asn	p.D239N	ENST00000361069	3/28	261	224	36	255	255	0	LAMC3,missense_variant,p.Asp239Asn,ENST00000361069,;LAMC3,non_coding_transcript_exon_variant,,ENST00000480883,;	A	ENSG00000050555	ENST00000361069	Transcript	missense_variant	848	715	239	D/N	Gac/Aac	COSM421928	.	.	1	LAMC3	HGNC	6494	protein_coding	YES	CCDS6938.1	ENSP00000354360	LAMC3_HUMAN	Q5JTC4_HUMAN	UPI000013D6D3	.	tolerated(0.87)	benign(0.075)	3/28	.	SMART_domains:SM00136,Pfam_domain:PF00055,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF240,PROSITE_profiles:PS51117	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTAGACCGG	.	4	BLCA
C9orf96	0	.	GRCh37	9	136266896	136266896	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1228C>T	p.Pro410Ser	p.P410S	ENST00000371957	13/18	51	37	14	49	49	0	C9orf96,missense_variant,p.Pro410Ser,ENST00000371957,;C9orf96,intron_variant,,ENST00000371955,;REXO4,downstream_gene_variant,,ENST00000371935,;REXO4,downstream_gene_variant,,ENST00000371942,;	T	ENSG00000198870	ENST00000371957	Transcript	missense_variant	1335	1228	410	P/S	Ccc/Tcc	COSM422465	.	.	1	C9orf96	HGNC	28669	protein_coding	YES	CCDS35169.1	ENSP00000361025	SGK71_HUMAN	.	UPI00001D763E	.	tolerated(0.22)	benign(0.01)	13/18	.	hmmpanther:PTHR24363:SF3,hmmpanther:PTHR24363,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCCCTGC	.	5	BLCA
ADAMTSL2	0	.	GRCh37	9	136401759	136401759	+	5'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-76C>G	.	.	ENST00000354484	2/19	51	38	13	47	47	0	ADAMTSL2,synonymous_variant,p.%3D,ENST00000393061,;ADAMTSL2,5_prime_UTR_variant,,ENST00000354484,;ADAMTSL2,5_prime_UTR_variant,,ENST00000393060,;	G	ENSG00000197859	ENST00000354484	Transcript	5_prime_UTR_variant	482	.	.	.	.	.	.	.	1	ADAMTSL2	HGNC	14631	protein_coding	YES	CCDS6976.1	ENSP00000346478	ATL2_HUMAN	A8MZ67_HUMAN	UPI000018CEA2	.	.	.	2/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCTCTTCCC	.	2	BLCA
MRPS2	0	.	GRCh37	9	138395832	138395832	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744C>G	p.%3D	p.L248L	ENST00000371785	5/5	159	126	33	163	163	0	MRPS2,synonymous_variant,p.%3D,ENST00000453385,;MRPS2,synonymous_variant,p.%3D,ENST00000241600,;MRPS2,synonymous_variant,p.%3D,ENST00000371785,;C9orf116,upstream_gene_variant,,ENST00000371791,;C9orf116,upstream_gene_variant,,ENST00000419770,;C9orf116,upstream_gene_variant,,ENST00000371789,;C9orf116,upstream_gene_variant,,ENST00000429260,;RP11-426A6.5,intron_variant,,ENST00000415062,;MRPS2,non_coding_transcript_exon_variant,,ENST00000472946,;MRPS2,downstream_gene_variant,,ENST00000488610,;MRPS2,downstream_gene_variant,,ENST00000472852,;MRPS2,downstream_gene_variant,,ENST00000462948,;MRPS2,downstream_gene_variant,,ENST00000485333,;C9orf116,upstream_gene_variant,,ENST00000371786,;	G	ENSG00000122140	ENST00000371785	Transcript	synonymous_variant	953	744	248	L	ctC/ctG	COSM422453	.	.	1	MRPS2	HGNC	14495	protein_coding	YES	CCDS6990.1	ENSP00000360850	RT02_HUMAN	Q96Q47_HUMAN	UPI000013522F	.	.	.	5/5	.	Superfamily_domains:SSF52313,Pfam_domain:PF00318,Gene3D:3.40.50.10490,hmmpanther:PTHR12534,hmmpanther:PTHR12534:SF0,HAMAP:MF_00291_B	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTACTG	.	5	BLCA
KCNT1	0	.	GRCh37	9	138669288	138669288	+	Silent	SNP	C	C	T	rs149452823	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2454C>T	p.%3D	p.I818I	ENST00000371757	21/31	107	89	18	104	104	0	KCNT1,synonymous_variant,p.%3D,ENST00000486577,;KCNT1,synonymous_variant,p.%3D,ENST00000490355,;KCNT1,synonymous_variant,p.%3D,ENST00000263604,;KCNT1,synonymous_variant,p.%3D,ENST00000491806,;KCNT1,synonymous_variant,p.%3D,ENST00000298480,;KCNT1,synonymous_variant,p.%3D,ENST00000487664,;KCNT1,synonymous_variant,p.%3D,ENST00000371757,;KCNT1,synonymous_variant,p.%3D,ENST00000488444,;KCNT1,3_prime_UTR_variant,,ENST00000460750,;KCNT1,non_coding_transcript_exon_variant,,ENST00000490363,;	T	ENSG00000107147	ENST00000371757	Transcript	synonymous_variant	2521	2454	818	I	atC/atT	rs149452823,COSM422449	.	.	1	KCNT1	HGNC	18865	protein_coding	YES	CCDS35175.2	ENSP00000360822	KCNT1_HUMAN	C9JBV2_HUMAN	UPI000192C42B	.	.	.	21/31	.	hmmpanther:PTHR10027,hmmpanther:PTHR10027:SF14	.	.	.	.	.	.	.	T:0.0002	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCATCGTGCC	byCluster	3	BLCA
TRAF2	0	.	GRCh37	9	139802612	139802612	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457G>C	p.Glu153Gln	p.E153Q	ENST00000247668	5/11	49	36	13	49	49	0	TRAF2,missense_variant,p.Glu153Gln,ENST00000429509,;TRAF2,missense_variant,p.Glu153Gln,ENST00000536468,;TRAF2,missense_variant,p.Glu205Gln,ENST00000359662,;TRAF2,missense_variant,p.Glu153Gln,ENST00000419057,;TRAF2,missense_variant,p.Glu153Gln,ENST00000247668,;TRAF2,non_coding_transcript_exon_variant,,ENST00000482854,;TRAF2,non_coding_transcript_exon_variant,,ENST00000474950,;TRAF2,non_coding_transcript_exon_variant,,ENST00000469701,;	C	ENSG00000127191	ENST00000247668	Transcript	missense_variant	509	457	153	E/Q	Gag/Cag	COSM422435	.	.	1	TRAF2	HGNC	12032	protein_coding	YES	CCDS7013.1	ENSP00000247668	TRAF2_HUMAN	B1AMY1_HUMAN,B1AMX8_HUMAN,B1AMX7_HUMAN	UPI0000001612	.	tolerated(0.09)	benign(0.045)	5/11	.	PROSITE_profiles:PS50145,hmmpanther:PTHR10131:SF21,hmmpanther:PTHR10131,PIRSF_domain:PIRSF015614	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTGGAGCAC	.	2	BLCA
NPDC1	0	.	GRCh37	9	139937474	139937474	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164G>C	p.Arg55Thr	p.R55T	ENST00000371601	2/9	50	35	14	27	27	0	NPDC1,missense_variant,p.Arg55Thr,ENST00000371601,;NPDC1,missense_variant,p.Arg133Thr,ENST00000371600,;NPDC1,non_coding_transcript_exon_variant,,ENST00000485589,;NPDC1,non_coding_transcript_exon_variant,,ENST00000488145,;NPDC1,upstream_gene_variant,,ENST00000496498,;NPDC1,upstream_gene_variant,,ENST00000472668,;	G	ENSG00000107281	ENST00000371601	Transcript	missense_variant	378	164	55	R/T	aGg/aCg	COSM422432	.	.	-1	NPDC1	HGNC	7899	protein_coding	YES	CCDS7024.1	ENSP00000360660	NPDC1_HUMAN	.	UPI00000361E2	.	tolerated(0.17)	probably_damaging(0.932)	2/9	.	hmmpanther:PTHR23352,Pfam_domain:PF06809	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACACCTTGCC	.	5	BLCA
BNC2	0	.	GRCh37	9	16435866	16435866	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2326G>T	p.Glu776Ter	p.E776*	ENST00000380672	6/7	82	60	22	91	91	0	BNC2,stop_gained,p.Glu681Ter,ENST00000545497,;BNC2,stop_gained,p.Glu709Ter,ENST00000380667,;BNC2,stop_gained,p.Glu776Ter,ENST00000380672,;BNC2,stop_gained,p.Glu776Ter,ENST00000380666,;BNC2,stop_gained,p.Glu169Ter,ENST00000411752,;BNC2,stop_gained,p.Glu733Ter,ENST00000418777,;BNC2,downstream_gene_variant,,ENST00000603713,;BNC2,stop_gained,p.Glu776Ter,ENST00000484726,;	A	ENSG00000173068	ENST00000380672	Transcript	stop_gained	2384	2326	776	E/*	Gaa/Taa	COSM422409	.	.	-1	BNC2	HGNC	30988	protein_coding	YES	CCDS6482.2	ENSP00000370047	BNC2_HUMAN	S4R351_HUMAN,Q06HC7_HUMAN,Q06HC2_HUMAN,Q06HB9_HUMAN,D3DRJ1_HUMAN	UPI000035E7B0	.	.	.	6/7	.	hmmpanther:PTHR15021,hmmpanther:PTHR15021:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCCTTCA	.	5	BLCA
IFT74	0	.	GRCh37	9	27036447	27036447	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1054+7345G>C	.	.	ENST00000443698	.	51	40	11	39	39	0	IFT74,splice_acceptor_variant,,ENST00000429045,;IFT74,intron_variant,,ENST00000380062,;IFT74,intron_variant,,ENST00000443698,;IFT74,intron_variant,,ENST00000433700,;IFT74,intron_variant,,ENST00000482986,;	C	ENSG00000096872	ENST00000443698	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	IFT74	HGNC	21424	protein_coding	YES	CCDS43793.1	ENSP00000404122	IFT74_HUMAN	E5RH29_HUMAN,E5RGX6_HUMAN,A0PJM7_HUMAN	UPI000004B286	.	.	.	.	13/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGATCCT	.	5	BLCA
UNC13B	0	.	GRCh37	9	35404054	35404054	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24C>T	.	.	ENST00000378495	39/39	52	38	13	62	62	0	UNC13B,3_prime_UTR_variant,,ENST00000378495,;UNC13B,3_prime_UTR_variant,,ENST00000396787,;UNC13B,downstream_gene_variant,,ENST00000378496,;UNC13B,downstream_gene_variant,,ENST00000481299,;ATP8B5P,upstream_gene_variant,,ENST00000430846,;ATP8B5P,upstream_gene_variant,,ENST00000439972,;ATP8B5P,upstream_gene_variant,,ENST00000329395,;ATP8B5P,upstream_gene_variant,,ENST00000417941,;	T	ENSG00000198722	ENST00000378495	Transcript	3_prime_UTR_variant	5022	.	.	.	.	.	.	.	1	UNC13B	HGNC	12566	protein_coding	YES	CCDS6579.1	ENSP00000367756	UN13B_HUMAN	.	UPI0000211336	.	.	.	39/39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAATCAGGCA	.	5	BLCA
TPM2	0	.	GRCh37	9	35689748	35689748	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67G>A	p.Glu23Lys	p.E23K	ENST00000378292	1/9	288	225	62	296	296	0	TPM2,missense_variant,p.Glu23Lys,ENST00000360958,;TPM2,missense_variant,p.Glu23Lys,ENST00000378300,;TPM2,missense_variant,p.Glu23Lys,ENST00000378292,;TPM2,missense_variant,p.Glu23Lys,ENST00000329305,;TPM2,upstream_gene_variant,,ENST00000607559,;TPM2,non_coding_transcript_exon_variant,,ENST00000604975,;TPM2,non_coding_transcript_exon_variant,,ENST00000471212,;TPM2,upstream_gene_variant,,ENST00000486018,;	T	ENSG00000198467	ENST00000378292	Transcript	missense_variant	1270	67	23	E/K	Gag/Aag	COSM422379,COSM422380	.	.	-1	TPM2	HGNC	12011	protein_coding	YES	CCDS6586.1	ENSP00000367542	TPM2_HUMAN	.	UPI000002B5B5	.	deleterious(0.02)	probably_damaging(0.997)	1/9	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR19269:SF42,hmmpanther:PTHR19269,Gene3D:1.20.5.340,Superfamily_domains:SSF57997	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCGGCGC	.	5	BLCA
CREB3	0	.	GRCh37	9	35736618	35736618	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011C>G	p.%3D	p.L337L	ENST00000353704	9/9	345	290	55	288	288	0	CREB3,synonymous_variant,p.%3D,ENST00000353704,;GBA2,downstream_gene_variant,,ENST00000378088,;GBA2,downstream_gene_variant,,ENST00000378094,;TLN1,upstream_gene_variant,,ENST00000540444,;TLN1,upstream_gene_variant,,ENST00000314888,;GBA2,downstream_gene_variant,,ENST00000378103,;GBA2,downstream_gene_variant,,ENST00000545786,;CREB3,non_coding_transcript_exon_variant,,ENST00000486056,;GBA2,downstream_gene_variant,,ENST00000486797,;GBA2,downstream_gene_variant,,ENST00000467252,;GBA2,downstream_gene_variant,,ENST00000488292,;GBA2,downstream_gene_variant,,ENST00000485259,;TLN1,upstream_gene_variant,,ENST00000378192,;	G	ENSG00000107175	ENST00000353704	Transcript	synonymous_variant	1449	1011	337	L	ctC/ctG	COSM422378	.	.	1	CREB3	HGNC	2347	protein_coding	YES	CCDS6588.1	ENSP00000342136	CREB3_HUMAN	B4DSK1_HUMAN	UPI0000073728	.	.	.	9/9	.	hmmpanther:PTHR22952,hmmpanther:PTHR22952:SF100	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTCTCTGCCG	.	3	BLCA
DCAF10	0	.	GRCh37	9	37861519	37861519	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14C>G	.	.	ENST00000377724	7/7	138	107	31	105	105	0	DCAF10,3_prime_UTR_variant,,ENST00000377724,;DCAF10,3_prime_UTR_variant,,ENST00000242323,;DCAF10,non_coding_transcript_exon_variant,,ENST00000483167,;DCAF10,downstream_gene_variant,,ENST00000461549,;DCAF10,downstream_gene_variant,,ENST00000478453,;RP11-613M10.9,intron_variant,,ENST00000540557,;	G	ENSG00000122741	ENST00000377724	Transcript	3_prime_UTR_variant	2059	.	.	.	.	.	.	.	1	DCAF10	HGNC	23686	protein_coding	YES	CCDS6613.2	ENSP00000366953	DCA10_HUMAN	.	UPI000046FD58	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCAAATA	.	5	BLCA
AGTPBP1	0	.	GRCh37	9	88190360	88190360	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3253G>A	p.Glu1085Lys	p.E1085K	ENST00000376083	25/26	125	92	33	120	120	0	AGTPBP1,missense_variant,p.Glu1125Lys,ENST00000357081,;AGTPBP1,missense_variant,p.Glu1085Lys,ENST00000376083,;AGTPBP1,missense_variant,p.Glu1137Lys,ENST00000376109,;AGTPBP1,3_prime_UTR_variant,,ENST00000337006,;AGTPBP1,intron_variant,,ENST00000432218,;AGTPBP1,non_coding_transcript_exon_variant,,ENST00000489265,;	T	ENSG00000135049	ENST00000376083	Transcript	missense_variant	3330	3253	1085	E/K	Gag/Aag	COSM422328	.	.	-1	AGTPBP1	HGNC	17258	protein_coding	YES	CCDS6672.1	ENSP00000365251	CBPC1_HUMAN	.	UPI000013CF66	.	deleterious(0)	possibly_damaging(0.877)	25/26	.	Superfamily_domains:SSF53187,hmmpanther:PTHR12756:SF2,hmmpanther:PTHR12756	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCTTCCA	.	5	BLCA
PTPDC1	0	.	GRCh37	9	96847533	96847533	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.239G>C	p.Arg80Thr	p.R80T	ENST00000288976	2/9	84	66	17	96	96	0	PTPDC1,missense_variant,p.Arg80Thr,ENST00000288976,;PTPDC1,missense_variant,p.Gly28Ala,ENST00000375360,;	C	ENSG00000158079	ENST00000288976	Transcript	missense_variant	306	239	80	R/T	aGa/aCa	COSM422309,COSM422310	.	.	1	PTPDC1	HGNC	30184	protein_coding	YES	CCDS6708.1	ENSP00000288976	PTPC1_HUMAN	.	UPI000004DC48	.	tolerated(0.14)	benign(0.096)	2/9	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTAGGAAATT	.	5	BLCA
PTCH1	0	.	GRCh37	9	98232132	98232132	+	Missense_Mutation	SNP	C	C	G	rs778627715	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1810G>C	p.Glu604Gln	p.E604Q	ENST00000331920	13/24	207	161	46	187	187	0	PTCH1,missense_variant,p.Glu603Gln,ENST00000375274,;PTCH1,missense_variant,p.Glu604Gln,ENST00000331920,;PTCH1,missense_variant,p.Glu538Gln,ENST00000430669,;PTCH1,missense_variant,p.Glu453Gln,ENST00000418258,;PTCH1,missense_variant,p.Glu453Gln,ENST00000429896,;PTCH1,missense_variant,p.Glu453Gln,ENST00000421141,;PTCH1,missense_variant,p.Glu269Gln,ENST00000375271,;PTCH1,missense_variant,p.Glu538Gln,ENST00000437951,;PTCH1,3_prime_UTR_variant,,ENST00000375290,;PTCH1,upstream_gene_variant,,ENST00000549678,;	G	ENSG00000185920	ENST00000331920	Transcript	missense_variant	2110	1810	604	E/Q	Gag/Cag	rs778627715,COSM422302,COSM422303,COSM422305,COSM422304	.	.	-1	PTCH1	HGNC	9585	protein_coding	YES	CCDS6714.1	ENSP00000332353	PTC1_HUMAN	Q6TKQ0_HUMAN,F8VXL8_HUMAN,F8VQS6_HUMAN	UPI00001AFF9C	.	tolerated(0.08)	benign(0.173)	13/24	.	Pfam_domain:PF12349,TIGRFAM_domain:TIGR00918,Gene3D:2j8sB01,hmmpanther:PTHR10796:SF61,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R602*|c.1804C>T|3,BUFFER|p.R601*|c.1801C>T|3,BUFFER|p.R601*|c.1801C>T|3,BUFFER|p.R602*|c.1804C>T|7	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCGCGTC	byFrequency	5	BLCA
ERCC6L2	0	.	GRCh37	9	98691087	98691087	+	Silent	SNP	C	C	G	rs760353466	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1725C>G	p.%3D	p.L575L	ENST00000288985	11/14	135	112	22	125	125	0	ERCC6L2,synonymous_variant,p.%3D,ENST00000426805,;ERCC6L2,synonymous_variant,p.%3D,ENST00000437817,;ERCC6L2,synonymous_variant,p.%3D,ENST00000288985,;ERCC6L2,non_coding_transcript_exon_variant,,ENST00000466840,;ERCC6L2,synonymous_variant,p.%3D,ENST00000456993,;ERCC6L2,3_prime_UTR_variant,,ENST00000479391,;	G	ENSG00000182150	ENST00000288985	Transcript	synonymous_variant	2030	1725	575	L	ctC/ctG	rs760353466,COSM422296	.	.	1	ERCC6L2	HGNC	26922	protein_coding	YES	CCDS35072.1	ENSP00000288985	RAD26_HUMAN	.	UPI000046FE3C	.	.	.	11/14	.	PROSITE_profiles:PS51194,hmmpanther:PTHR10799:SF65,hmmpanther:PTHR10799,Pfam_domain:PF00271,Gene3D:3.40.50.300,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTCAAGAT	.	5	BLCA
DRP2	0	.	GRCh37	X	100497935	100497935	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1018C>T	p.Arg340Trp	p.R340W	ENST00000395209	9/24	241	197	43	255	255	0	DRP2,missense_variant,p.Arg340Trp,ENST00000538510,;DRP2,missense_variant,p.Arg340Trp,ENST00000402866,;DRP2,missense_variant,p.Arg262Trp,ENST00000541709,;DRP2,missense_variant,p.Arg340Trp,ENST00000395209,;DRP2,missense_variant,p.Arg340Trp,ENST00000372916,;	T	ENSG00000102385	ENST00000395209	Transcript	missense_variant	1545	1018	340	R/W	Cgg/Tgg	COSM422294	.	.	1	DRP2	HGNC	3032	protein_coding	YES	CCDS14480.2	ENSP00000378635	DRP2_HUMAN	.	UPI000013D388	.	deleterious(0.02)	benign(0.04)	9/24	.	hmmpanther:PTHR11915,PIRSF_domain:PIRSF038205,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCACCGGGAC	.	4	BLCA
TAF7L	0	.	GRCh37	X	100537423	100537423	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Asp186Asn	p.D186N	ENST00000372907	5/13	111	93	18	123	123	0	TAF7L,missense_variant,p.Asp100Asn,ENST00000372905,;TAF7L,missense_variant,p.Asp100Asn,ENST00000356784,;TAF7L,missense_variant,p.Asp100Asn,ENST00000324762,;TAF7L,missense_variant,p.Asp186Asn,ENST00000372907,;	T	ENSG00000102387	ENST00000372907	Transcript	missense_variant	568	556	186	D/N	Gat/Aat	COSM422291	.	.	-1	TAF7L	HGNC	11548	protein_coding	YES	CCDS35347.1	ENSP00000361998	TAF7L_HUMAN	.	UPI0000212176	.	deleterious(0.04)	possibly_damaging(0.762)	5/13	.	hmmpanther:PTHR12228,hmmpanther:PTHR12228:SF1,Pfam_domain:PF04658	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCATCAGCAG	.	4	BLCA
NXF5	0	.	GRCh37	X	101097818	101097818	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54G>A	.	.	ENST00000537026	3/16	185	135	50	172	172	0	NXF5,5_prime_UTR_variant,,ENST00000473265,;NXF5,5_prime_UTR_variant,,ENST00000361708,;NXF5,5_prime_UTR_variant,,ENST00000537026,;NXF5,5_prime_UTR_variant,,ENST00000332614,;NXF5,5_prime_UTR_variant,,ENST00000361330,;NXF5,5_prime_UTR_variant,,ENST00000493509,;NXF5,5_prime_UTR_variant,,ENST00000372803,;NXF5,5_prime_UTR_variant,,ENST00000263032,;	T	ENSG00000126952	ENST00000537026	Transcript	5_prime_UTR_variant	307	.	.	.	.	.	.	.	-1	NXF5	HGNC	8075	protein_coding	YES	CCDS14491.2	ENSP00000442401	NXF5_HUMAN	.	UPI0000F059DC	.	.	.	3/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCTTCACTAT	.	2	BLCA
GLRA4	0	.	GRCh37	X	102974114	102974114	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.804C>G	p.%3D	p.L268L	ENST00000372617	7/9	335	267	68	325	325	0	GLRA4,synonymous_variant,p.%3D,ENST00000372617,;GLRA4,downstream_gene_variant,,ENST00000469567,;GLRA4,non_coding_transcript_exon_variant,,ENST00000480725,;GLRA4,intron_variant,,ENST00000436213,;	C	ENSG00000188828	ENST00000372617	Transcript	synonymous_variant	1225	804	268	L	ctC/ctG	COSM422280,COSM422279	.	.	-1	GLRA4	HGNC	31715	protein_coding	YES	CCDS43980.2	ENSP00000361700	GLRA4_HUMAN	.	UPI000188140C	.	.	.	7/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR18945:SF211,hmmpanther:PTHR18945,Gene3D:1.20.58.390,Pfam_domain:PF02932,TIGRFAM_domain:TIGR00860,Superfamily_domains:SSF90112,Prints_domain:PR00253	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGATGAGTAG	.	5	BLCA
RGAG1	0	.	GRCh37	X	109695177	109695177	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332C>G	p.%3D	p.V444V	ENST00000465301	3/4	356	286	69	282	282	0	RGAG1,synonymous_variant,p.%3D,ENST00000540313,;RGAG1,synonymous_variant,p.%3D,ENST00000465301,;RGAG1,downstream_gene_variant,,ENST00000520821,;	G	ENSG00000243978	ENST00000465301	Transcript	synonymous_variant	1578	1332	444	V	gtC/gtG	COSM422269	.	.	1	RGAG1	HGNC	29245	protein_coding	YES	CCDS14552.1	ENSP00000419786	RGAG1_HUMAN	E5RKA1_HUMAN	UPI000006F841	.	.	.	3/4	.	hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF42	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTCCCAAG	.	5	BLCA
UBE2A	0	.	GRCh37	X	118708669	118708669	+	5'UTR	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6C>G	.	.	ENST00000371558	1/6	20	13	7	18	18	0	UBE2A,5_prime_UTR_variant,,ENST00000346330,;UBE2A,5_prime_UTR_variant,,ENST00000371558,;UBE2A,upstream_gene_variant,,ENST00000469205,;	G	ENSG00000077721	ENST00000371558	Transcript	5_prime_UTR_variant	169	.	.	.	.	.	.	.	1	UBE2A	HGNC	12472	protein_coding	YES	CCDS14580.1	ENSP00000360613	UBE2A_HUMAN	Q8WXB3_HUMAN,B4DWT6_HUMAN	UPI00000043A0	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCTCGCGAC	.	5	BLCA
LAMP2	0	.	GRCh37	X	119581866	119581866	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571A>G	p.Lys191Glu	p.K191E	ENST00000434600	5/9	185	138	46	208	208	0	LAMP2,missense_variant,p.Lys80Glu,ENST00000538785,;LAMP2,missense_variant,p.Lys191Glu,ENST00000434600,;LAMP2,missense_variant,p.Lys191Glu,ENST00000200639,;LAMP2,missense_variant,p.Lys191Glu,ENST00000371335,;LAMP2,missense_variant,p.Lys144Glu,ENST00000540603,;LAMP2,missense_variant,p.Lys39Glu,ENST00000486593,;	C	ENSG00000005893	ENST00000434600	Transcript	missense_variant	767	571	191	K/E	Aaa/Gaa	COSM422252,COSM1133858,COSM422251	.	.	-1	LAMP2	HGNC	6501	protein_coding	YES	CCDS48159.1	ENSP00000408411	LAMP2_HUMAN	.	UPI0000211E47	.	tolerated(1)	benign(0.003)	5/9	.	PROSITE_profiles:PS51407,hmmpanther:PTHR11506:SF6,hmmpanther:PTHR11506,Pfam_domain:PF01299	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTTATCAC	.	5	BLCA
BCORL1	0	.	GRCh37	X	129185834	129185834	+	Splice_Site	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4697-1G>A	.	p.X1566_splice	ENST00000540052	.	411	326	85	407	407	0	BCORL1,splice_acceptor_variant,,ENST00000456822,;BCORL1,splice_acceptor_variant,,ENST00000540052,;BCORL1,splice_acceptor_variant,,ENST00000303743,;BCORL1,splice_acceptor_variant,,ENST00000218147,;BCORL1,splice_acceptor_variant,,ENST00000359304,;	A	ENSG00000085185	ENST00000540052	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM422237	.	.	1	BCORL1	HGNC	25657	protein_coding	YES	CCDS14616.1	ENSP00000437775	BCORL_HUMAN	Q9HAM3_HUMAN	UPI00001B4EFB	.	.	.	.	10/11	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACAGAGGAA	.	5	BLCA
ZIC3	0	.	GRCh37	X	136649816	136649816	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966C>G	p.His322Gln	p.H322Q	ENST00000287538	1/3	257	198	59	284	284	0	ZIC3,missense_variant,p.His322Gln,ENST00000287538,;ZIC3,missense_variant,p.His322Gln,ENST00000370606,;RP1-137H15.2,upstream_gene_variant,,ENST00000442841,;RP1-137H15.2,upstream_gene_variant,,ENST00000456631,;ZIC3,upstream_gene_variant,,ENST00000478471,;	G	ENSG00000156925	ENST00000287538	Transcript	missense_variant	1516	966	322	H/Q	caC/caG	COSM422214	.	.	1	ZIC3	HGNC	12874	protein_coding	YES	CCDS14663.1	ENSP00000287538	ZIC3_HUMAN	.	UPI000013C3DD	.	deleterious(0.02)	benign(0.01)	1/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR19818,hmmpanther:PTHR19818:SF25,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCACACGGG	.	5	BLCA
MAGEA10	0	.	GRCh37	X	151303655	151303655	+	Silent	SNP	G	G	C	rs749434711	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438C>G	p.%3D	p.L146L	ENST00000370323	4/4	261	192	68	256	256	0	MAGEA10,synonymous_variant,p.%3D,ENST00000444834,;MAGEA10,synonymous_variant,p.%3D,ENST00000244096,;MAGEA10,synonymous_variant,p.%3D,ENST00000370323,;MAGEA10,synonymous_variant,p.%3D,ENST00000427322,;MAGEA10,downstream_gene_variant,,ENST00000579960,;MAGEA10,downstream_gene_variant,,ENST00000583480,;RP11-329E24.6,upstream_gene_variant,,ENST00000453915,;RP11-1007I13.4,intron_variant,,ENST00000509345,;RP11-1007I13.4,intron_variant,,ENST00000577437,;RP11-1007I13.4,intron_variant,,ENST00000583636,;	C	ENSG00000124260	ENST00000370323	Transcript	synonymous_variant	755	438	146	L	ctC/ctG	rs749434711,COSM422199	.	.	-1	MAGEA10	HGNC	6797	protein_coding	YES	CCDS14705.1	ENSP00000359347	MAGAA_HUMAN	J3QRD7_HUMAN,J3KT71_HUMAN,C9J9A2_HUMAN,C9J958_HUMAN	UPI00001AE6DA	.	.	.	4/4	.	Pfam_domain:PF01454,hmmpanther:PTHR11736,hmmpanther:PTHR11736:SF19,PROSITE_profiles:PS50838	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAGAGCAG	.	5	BLCA
PLXNB3	0	.	GRCh37	X	153034400	153034400	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1336-3C>G	.	.	ENST00000538966	.	317	239	78	293	293	0	PLXNB3,splice_region_variant,,ENST00000538776,;PLXNB3,splice_region_variant,,ENST00000538966,;PLXNB3,splice_region_variant,,ENST00000361971,;PLXNB3,intron_variant,,ENST00000538543,;PLXNB3,intron_variant,,ENST00000538282,;U52111.14,upstream_gene_variant,,ENST00000416854,;U52111.14,upstream_gene_variant,,ENST00000434284,;	G	ENSG00000198753	ENST00000538966	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	PLXNB3	HGNC	9105	protein_coding	YES	CCDS55536.1	ENSP00000442736	PLXB3_HUMAN	.	UPI0001AFF680	.	.	.	.	5/36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCAGGTC	.	4	BLCA
PLXNB3	0	.	GRCh37	X	153040417	153040417	+	Silent	SNP	G	G	A	rs781800524	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4083G>A	p.%3D	p.E1361E	ENST00000538966	25/37	121	95	26	144	144	0	PLXNB3,missense_variant,p.Ala973Thr,ENST00000538282,;PLXNB3,synonymous_variant,p.%3D,ENST00000411613,;PLXNB3,synonymous_variant,p.%3D,ENST00000538966,;PLXNB3,synonymous_variant,p.%3D,ENST00000538776,;PLXNB3,synonymous_variant,p.%3D,ENST00000361971,;PLXNB3,downstream_gene_variant,,ENST00000538543,;PLXNB3,upstream_gene_variant,,ENST00000455214,;PLXNB3,upstream_gene_variant,,ENST00000448847,;SRPK3,upstream_gene_variant,,ENST00000489426,;PLXNB3,non_coding_transcript_exon_variant,,ENST00000482654,;PLXNB3,upstream_gene_variant,,ENST00000472415,;PLXNB3,upstream_gene_variant,,ENST00000469190,;PLXNB3,upstream_gene_variant,,ENST00000485980,;	A	ENSG00000198753	ENST00000538966	Transcript	synonymous_variant	4354	4083	1361	E	gaG/gaA	rs781800524,COSM422192	.	.	1	PLXNB3	HGNC	9105	protein_coding	YES	CCDS55536.1	ENSP00000442736	PLXB3_HUMAN	.	UPI0001AFF680	.	.	.	25/37	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF33,Pfam_domain:PF08337	A:0.0003	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGAGCGCGC	byCluster|by1000G	5	BLCA
PIGA	0	.	GRCh37	X	15339616	15339616	+	3'UTR	SNP	C	C	G	rs756816136	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12G>C	.	.	ENST00000333590	6/6	208	166	42	195	195	0	PIGA,3_prime_UTR_variant,,ENST00000542278,;PIGA,3_prime_UTR_variant,,ENST00000428964,;PIGA,3_prime_UTR_variant,,ENST00000333590,;PIGA,non_coding_transcript_exon_variant,,ENST00000482148,;PIGA,downstream_gene_variant,,ENST00000475746,;PIGA,downstream_gene_variant,,ENST00000474662,;PIGA,downstream_gene_variant,,ENST00000463173,;	G	ENSG00000165195	ENST00000333590	Transcript	3_prime_UTR_variant	1552	.	.	.	.	rs756816136	.	.	-1	PIGA	HGNC	8957	protein_coding	YES	CCDS14165.1	ENSP00000369820	PIGA_HUMAN	B3KUV7_HUMAN	UPI0000131AAE	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCTAGGC	.	5	BLCA
FLNA	0	.	GRCh37	X	153577785	153577785	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7701G>A	p.%3D	p.L2567L	ENST00000369850	47/48	177	124	52	157	157	0	FLNA,synonymous_variant,p.%3D,ENST00000422373,;FLNA,synonymous_variant,p.%3D,ENST00000360319,;FLNA,synonymous_variant,p.%3D,ENST00000369856,;FLNA,synonymous_variant,p.%3D,ENST00000344736,;FLNA,synonymous_variant,p.%3D,ENST00000369850,;FLNA,downstream_gene_variant,,ENST00000438732,;FLNA,downstream_gene_variant,,ENST00000444578,;FLNA,non_coding_transcript_exon_variant,,ENST00000498491,;FLNA,intron_variant,,ENST00000498411,;FLNA,3_prime_UTR_variant,,ENST00000420627,;FLNA,non_coding_transcript_exon_variant,,ENST00000462590,;FLNA,non_coding_transcript_exon_variant,,ENST00000490936,;FLNA,downstream_gene_variant,,ENST00000474072,;FLNA,downstream_gene_variant,,ENST00000466325,;FLNA,downstream_gene_variant,,ENST00000415241,;FLNA,downstream_gene_variant,,ENST00000474358,;	T	ENSG00000196924	ENST00000369850	Transcript	synonymous_variant	7938	7701	2567	L	ctG/ctA	COSM422181	.	.	-1	FLNA	HGNC	3754	protein_coding	YES	CCDS48194.1	ENSP00000358866	FLNA_HUMAN	Q96C61_HUMAN,Q86TQ3_HUMAN,Q6NXF2_HUMAN,Q60FE5_HUMAN	UPI000013C596	.	.	.	47/48	.	PROSITE_profiles:PS50194,hmmpanther:PTHR11915:SF173,hmmpanther:PTHR11915,Gene3D:2.60.40.10,Pfam_domain:PF00630,SMART_domains:SM00557,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTCAGCCC	.	5	BLCA
RPL10	0	.	GRCh37	X	153629109	153629109	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.559G>A	p.Glu187Lys	p.E187K	ENST00000424325	7/7	51	42	9	59	59	0	RPL10,missense_variant,p.Glu187Lys,ENST00000344746,;RPL10,missense_variant,p.Glu136Lys,ENST00000406022,;RPL10,missense_variant,p.Glu187Lys,ENST00000436473,;RPL10,missense_variant,p.Glu187Lys,ENST00000369817,;RPL10,missense_variant,p.Glu187Lys,ENST00000424325,;RPL10,synonymous_variant,p.%3D,ENST00000458500,;RPL10,intron_variant,,ENST00000428169,;RPL10,intron_variant,,ENST00000449494,;RPL10,intron_variant,,ENST00000427682,;RPL10,intron_variant,,ENST00000451365,;DNASE1L1,downstream_gene_variant,,ENST00000432135,;DNASE1L1,downstream_gene_variant,,ENST00000369808,;DNASE1L1,downstream_gene_variant,,ENST00000447892,;DNASE1L1,downstream_gene_variant,,ENST00000309585,;DNASE1L1,downstream_gene_variant,,ENST00000369809,;DNASE1L1,downstream_gene_variant,,ENST00000412184,;DNASE1L1,downstream_gene_variant,,ENST00000451865,;DNASE1L1,downstream_gene_variant,,ENST00000424626,;DNASE1L1,downstream_gene_variant,,ENST00000014935,;DNASE1L1,downstream_gene_variant,,ENST00000369807,;DNASE1L1,downstream_gene_variant,,ENST00000393638,;SNORA70,downstream_gene_variant,,ENST00000384436,;RPL10,downstream_gene_variant,,ENST00000479366,;RPL10,non_coding_transcript_exon_variant,,ENST00000482732,;RPL10,non_coding_transcript_exon_variant,,ENST00000467168,;RPL10,non_coding_transcript_exon_variant,,ENST00000491035,;RPL10,non_coding_transcript_exon_variant,,ENST00000485196,;RPL10,non_coding_transcript_exon_variant,,ENST00000489200,;RPL10,non_coding_transcript_exon_variant,,ENST00000492572,;DNASE1L1,downstream_gene_variant,,ENST00000497242,;RPL10,downstream_gene_variant,,ENST00000474786,;	A	ENSG00000147403	ENST00000424325	Transcript	missense_variant	747	559	187	E/K	Gaa/Aaa	COSM422179	.	.	1	RPL10	HGNC	10298	protein_coding	YES	CCDS14746.1	ENSP00000413436	RL10_HUMAN	F8W7C6_HUMAN	UPI00000019F3	.	tolerated(0.08)	benign(0.03)	7/7	.	hmmpanther:PTHR11726,hmmpanther:PTHR11726:SF9,PIRSF_domain:PIRSF005590	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTGAAAAG	.	5	BLCA
F8	0	.	GRCh37	X	154157864	154157864	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4201C>G	p.Gln1401Glu	p.Q1401E	ENST00000360256	14/26	295	244	51	290	290	0	F8,missense_variant,p.Gln1401Glu,ENST00000360256,;	C	ENSG00000185010	ENST00000360256	Transcript	missense_variant	4402	4201	1401	Q/E	Caa/Gaa	CM061753,COSM422172,COSM422173	.	.	-1	F8	HGNC	3546	protein_coding	YES	CCDS35457.1	ENSP00000353393	FA8_HUMAN	Q9UQQ5_HUMAN,Q71UI6_HUMAN,Q2VF45_HUMAN,Q003V9_HUMAN,Q003V5_HUMAN,A0FJ19_HUMAN,A0A2G6_HUMAN	UPI000012A416	.	tolerated(0.2)	benign(0.019)	14/26	.	hmmpanther:PTHR10127:SF50,hmmpanther:PTHR10127,PIRSF_domain:PIRSF000354	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTGAGGGA	.	5	BLCA
PHKA2	0	.	GRCh37	X	18926150	18926150	+	Silent	SNP	G	G	C	rs777278113	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2385C>G	p.%3D	p.L795L	ENST00000379942	22/33	433	358	75	429	429	0	PHKA2,synonymous_variant,p.%3D,ENST00000379942,;PHKA2,upstream_gene_variant,,ENST00000469645,;PHKA2,upstream_gene_variant,,ENST00000486231,;	C	ENSG00000044446	ENST00000379942	Transcript	synonymous_variant	3051	2385	795	L	ctC/ctG	rs777278113,COSM422612	.	.	-1	PHKA2	HGNC	8926	protein_coding	YES	CCDS14190.1	ENSP00000369274	KPB2_HUMAN	.	UPI000012DF4B	.	.	.	22/33	.	hmmpanther:PTHR10749,hmmpanther:PTHR10749:SF5,Pfam_domain:PF00723	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGAGAGATT	byFrequency	5	BLCA
SAT1	0	.	GRCh37	X	23803975	23803975	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2G>C	.	.	ENST00000379270	6/6	42	32	10	51	51	0	SAT1,3_prime_UTR_variant,,ENST00000379254,;SAT1,3_prime_UTR_variant,,ENST00000379270,;SAT1,downstream_gene_variant,,ENST00000379253,;SAT1,downstream_gene_variant,,ENST00000379251,;Y_RNA,downstream_gene_variant,,ENST00000365402,;RP13-314C10.5,upstream_gene_variant,,ENST00000366134,;SAT1,non_coding_transcript_exon_variant,,ENST00000462639,;SAT1,non_coding_transcript_exon_variant,,ENST00000489394,;SAT1,non_coding_transcript_exon_variant,,ENST00000463236,;SAT1,non_coding_transcript_exon_variant,,ENST00000474223,;SAT1,downstream_gene_variant,,ENST00000487713,;	C	ENSG00000130066	ENST00000379270	Transcript	3_prime_UTR_variant	697	.	.	.	.	.	.	.	1	SAT1	HGNC	10540	protein_coding	YES	CCDS14207.1	ENSP00000368572	SAT1_HUMAN	Q6ICU9_HUMAN,A2VED4_HUMAN	UPI000012621E	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGAGGAGTGC	.	2	BLCA
ARSE	0	.	GRCh37	X	2876407	2876407	+	Silent	SNP	G	G	A	rs779081651	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93C>T	p.%3D	p.S31S	ENST00000381134	3/11	81	58	22	76	76	0	ARSE,synonymous_variant,p.%3D,ENST00000545496,;ARSE,synonymous_variant,p.%3D,ENST00000381134,;ARSE,synonymous_variant,p.%3D,ENST00000438544,;ARSE,intron_variant,,ENST00000540563,;ARSE,downstream_gene_variant,,ENST00000496095,;	A	ENSG00000157399	ENST00000381134	Transcript	synonymous_variant	160	93	31	S	agC/agT	rs779081651,COSM422598	.	.	-1	ARSE	HGNC	719	protein_coding	YES	CCDS14122.1	ENSP00000370526	ARSE_HUMAN	C9J5G7_HUMAN	UPI000049E10C	.	.	.	3/11	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF63	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTCGCTGGA	byFrequency	5	BLCA
DMD	0	.	GRCh37	X	32429880	32429880	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4222C>T	p.Gln1408Ter	p.Q1408*	ENST00000357033	30/79	141	109	31	136	136	0	DMD,stop_gained,p.Gln1408Ter,ENST00000357033,;DMD,stop_gained,p.Gln1404Ter,ENST00000378677,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000488902,;	A	ENSG00000198947	ENST00000357033	Transcript	stop_gained	4429	4222	1408	Q/*	Cag/Tag	COSM1133864,COSM422578,COSM422580,COSM422579	.	.	-1	DMD	HGNC	2928	protein_coding	YES	CCDS14233.1	ENSP00000354923	.	Q9UPB5_HUMAN,Q9UPB4_HUMAN,Q9UMK8_HUMAN,Q9UMK7_HUMAN,Q9UMG1_HUMAN,Q9UME2_HUMAN,Q9UEH4_HUMAN,Q8WYF6_HUMAN,Q8WYF5_HUMAN,Q8WYF4_HUMAN,Q8WYF3_HUMAN,Q8WYF2_HUMAN,Q8WYF1_HUMAN,Q8WYF0_HUMAN,Q8WYE9_HUMAN,Q8WYE8_HUMAN,Q8WYE7_HUMAN,Q8WYE6_HUMAN,Q8WYE5_HUMAN,Q8WYE4_HUMAN,Q8WYE3_HUMAN,Q8WYE2_HUMAN,Q8WYE1_HUMAN,Q8WYD9_HUMAN,Q8WYD8_HUMAN,Q8WYD7_HUMAN,Q8WYD6_HUMAN,Q8WYD5_HUMAN,Q8WYD4_HUMAN,Q8WYD3_HUMAN,Q8WYD2_HUMAN,Q8WYD1_HUMAN,Q8WYD0_HUMAN,Q8WYC9_HUMAN,Q8WYC8_HUMAN,Q8WYC7_HUMAN,Q8WYC6_HUMAN,Q8WYC5_HUMAN,Q8WYC4_HUMAN,Q8WYC3_HUMAN,Q8WYC2_HUMAN,Q8WYC1_HUMAN,Q8WYC0_HUMAN,Q8WYB9_HUMAN,Q8WYB8_HUMAN,Q8WTQ2_HUMAN,Q7KZ40_HUMAN,Q7KYP7_HUMAN,Q548X2_HUMAN,Q14205_HUMAN,F2WSI7_HUMAN,E7EQS5_HUMAN	UPI000049E111	.	.	.	30/79	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF261,PIRSF_domain:PIRSF002341	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTGAGGCA	.	5	BLCA
BCOR	0	.	GRCh37	X	39933287	39933287	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312G>A	p.Asp438Asn	p.D438N	ENST00000378444	4/15	90	71	19	100	100	0	BCOR,missense_variant,p.Asp438Asn,ENST00000397354,;BCOR,missense_variant,p.Asp438Asn,ENST00000378444,;BCOR,missense_variant,p.Asp438Asn,ENST00000406200,;BCOR,missense_variant,p.Asp438Asn,ENST00000378455,;BCOR,missense_variant,p.Asp438Asn,ENST00000342274,;BCOR,downstream_gene_variant,,ENST00000412952,;BCOR,non_coding_transcript_exon_variant,,ENST00000490976,;	T	ENSG00000183337	ENST00000378444	Transcript	missense_variant	1541	1312	438	D/N	Gat/Aat	COSM422569,COSM1121191,COSM1599437	.	.	-1	BCOR	HGNC	20893	protein_coding	YES	CCDS48093.1	ENSP00000367705	BCOR_HUMAN	H9A532_HUMAN,H7BZ37_HUMAN,C9JHP3_HUMAN,B3KTC2_HUMAN	UPI00002318CF	.	tolerated(0.06)	possibly_damaging(0.781)	4/15	.	hmmpanther:PTHR24117,hmmpanther:PTHR24117:SF8	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATCTGTGA	.	5	BLCA
MED14	0	.	GRCh37	X	40568682	40568682	+	Silent	SNP	C	C	G	rs771003733	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1203G>C	p.%3D	p.L401L	ENST00000324817	10/31	90	75	14	87	87	0	MED14,synonymous_variant,p.%3D,ENST00000324817,;MED14,downstream_gene_variant,,ENST00000492219,;MED14,downstream_gene_variant,,ENST00000482034,;	G	ENSG00000180182	ENST00000324817	Transcript	synonymous_variant	1322	1203	401	L	ctG/ctC	rs771003733,COSM422567	.	.	-1	MED14	HGNC	2370	protein_coding	YES	CCDS14254.1	ENSP00000323720	MED14_HUMAN	.	UPI00001414B1	.	.	.	10/31	.	hmmpanther:PTHR12809,hmmpanther:PTHR12809:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAATCAGGAG	.	5	BLCA
USP9X	0	.	GRCh37	X	41077663	41077663	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6248A>T	p.Asn2083Ile	p.N2083I	ENST00000324545	37/45	282	218	64	239	239	0	USP9X,missense_variant,p.Asn2083Ile,ENST00000378308,;USP9X,missense_variant,p.Asn2083Ile,ENST00000324545,;	T	ENSG00000124486	ENST00000324545	Transcript	missense_variant	6881	6248	2083	N/I	aAt/aTt	COSM422566,COSM1133866	.	.	1	USP9X	HGNC	12632	protein_coding	YES	CCDS43930.1	ENSP00000316357	USP9X_HUMAN	.	UPI00001AF419	.	tolerated(0.25)	probably_damaging(0.991)	37/45	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF359	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGAATGTAC	.	5	BLCA
TBC1D25	0	.	GRCh37	X	48418785	48418785	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489G>A	p.Gly497Ser	p.G497S	ENST00000376771	6/6	96	77	19	109	109	0	TBC1D25,missense_variant,p.Gly497Ser,ENST00000376771,;TBC1D25,missense_variant,p.Gly243Ser,ENST00000537536,;TBC1D25,downstream_gene_variant,,ENST00000418627,;snoU13,downstream_gene_variant,,ENST00000459609,;TBC1D25,downstream_gene_variant,,ENST00000476141,;TBC1D25,downstream_gene_variant,,ENST00000494495,;TBC1D25,downstream_gene_variant,,ENST00000481090,;	A	ENSG00000068354	ENST00000376771	Transcript	missense_variant	1830	1489	497	G/S	Ggt/Agt	COSM422554	.	.	1	TBC1D25	HGNC	8092	protein_coding	YES	CCDS35242.1	ENSP00000365962	TBC25_HUMAN	B4DF03_HUMAN,B4DE92_HUMAN	UPI0000160685	.	tolerated(0.59)	benign(0.017)	6/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF189	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGGTGGG	.	5	BLCA
WAS	0	.	GRCh37	X	48542214	48542214	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-29C>T	.	.	ENST00000376701	1/12	26	19	7	48	48	0	WAS,5_prime_UTR_variant,,ENST00000450772,;WAS,5_prime_UTR_variant,,ENST00000376701,;WAS,non_coding_transcript_exon_variant,,ENST00000465982,;WAS,upstream_gene_variant,,ENST00000490627,;WAS,upstream_gene_variant,,ENST00000483750,;WAS,upstream_gene_variant,,ENST00000474174,;	T	ENSG00000015285	ENST00000376701	Transcript	5_prime_UTR_variant	47	.	.	.	.	.	.	.	1	WAS	HGNC	12731	protein_coding	YES	CCDS14303.1	ENSP00000365891	WASP_HUMAN	C9J3B7_HUMAN	UPI000003CA0A	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCGCCAG	.	2	BLCA
PPP1R3F	0	.	GRCh37	X	49143574	49143574	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*22G>A	.	.	ENST00000055335	4/4	63	48	14	44	44	0	PPP1R3F,3_prime_UTR_variant,,ENST00000438316,;PPP1R3F,3_prime_UTR_variant,,ENST00000055335,;PPP1R3F,3_prime_UTR_variant,,ENST00000466508,;PPP1R3F,3_prime_UTR_variant,,ENST00000376188,;PPP1R3F,3_prime_UTR_variant,,ENST00000495799,;PPP1R3F,intron_variant,,ENST00000471261,;	A	ENSG00000049769	ENST00000055335	Transcript	3_prime_UTR_variant	2438	.	.	.	.	.	.	.	1	PPP1R3F	HGNC	14944	protein_coding	YES	CCDS35254.1	ENSP00000055335	PPR3F_HUMAN	Q0D2I0_HUMAN	UPI00001D7BA8	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCAGAGGCT	.	5	BLCA
HUWE1	0	.	GRCh37	X	53587226	53587226	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7659G>A	p.%3D	p.L2553L	ENST00000342160	55/83	42	30	11	29	29	0	HUWE1,synonymous_variant,p.%3D,ENST00000342160,;HUWE1,synonymous_variant,p.%3D,ENST00000262854,;HUWE1,synonymous_variant,p.%3D,ENST00000427052,;MIR98,upstream_gene_variant,,ENST00000606724,;MIRLET7F2,upstream_gene_variant,,ENST00000385277,;	T	ENSG00000086758	ENST00000342160	Transcript	synonymous_variant	8117	7659	2553	L	ctG/ctA	COSM422538,COSM422537	.	.	-1	HUWE1	HGNC	30892	protein_coding	YES	CCDS35301.1	ENSP00000340648	HUWE1_HUMAN	Q5H963_HUMAN	UPI00004A0DAC	.	.	.	55/83	.	hmmpanther:PTHR11254:SF67,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGTCAGCTG	.	5	BLCA
ITIH6	0	.	GRCh37	X	54781511	54781511	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3141G>A	p.%3D	p.E1047E	ENST00000218436	9/13	170	131	39	166	166	0	ITIH6,synonymous_variant,p.%3D,ENST00000218436,;	T	ENSG00000102313	ENST00000218436	Transcript	synonymous_variant	3171	3141	1047	E	gaG/gaA	COSM422529	.	.	-1	ITIH6	HGNC	28907	protein_coding	YES	CCDS14361.1	ENSP00000218436	ITIH6_HUMAN	.	UPI00000540C8	.	.	.	9/13	.	hmmpanther:PTHR10338:SF10,hmmpanther:PTHR10338	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATCTCCTC	.	5	BLCA
TRO	0	.	GRCh37	X	54956580	54956580	+	Silent	SNP	T	T	C	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3423T>C	p.%3D	p.G1141G	ENST00000173898	12/13	96	77	19	102	102	0	TRO,synonymous_variant,p.%3D,ENST00000375041,;TRO,synonymous_variant,p.%3D,ENST00000420798,;TRO,synonymous_variant,p.%3D,ENST00000173898,;TRO,intron_variant,,ENST00000375022,;TRO,intron_variant,,ENST00000319167,;TRO,intron_variant,,ENST00000399736,;TRO,downstream_gene_variant,,ENST00000431115,;PFKFB1,downstream_gene_variant,,ENST00000374992,;PFKFB1,downstream_gene_variant,,ENST00000375006,;PFKFB1,downstream_gene_variant,,ENST00000545676,;SNORA11,downstream_gene_variant,,ENST00000408823,;TRO,intron_variant,,ENST00000475183,;TRO,downstream_gene_variant,,ENST00000484031,;TRO,downstream_gene_variant,,ENST00000492142,;TRO,non_coding_transcript_exon_variant,,ENST00000492706,;TRO,intron_variant,,ENST00000445561,;TRO,downstream_gene_variant,,ENST00000469211,;	C	ENSG00000067445	ENST00000173898	Transcript	synonymous_variant	3535	3423	1141	G	ggT/ggC	COSM422525	.	.	1	TRO	HGNC	12326	protein_coding	YES	CCDS43959.1	ENSP00000173898	TROP_HUMAN	F5GY27_HUMAN,E7ERU6_HUMAN,B1AKF6_HUMAN,B1AKF5_HUMAN,B1AKF4_HUMAN,B1AKF3_HUMAN,B1AKF2_HUMAN,B1AKE7_HUMAN,B1AKE6_HUMAN,B1AKE5_HUMAN	UPI000021208F	.	.	.	12/13	.	Superfamily_domains:SSF141571	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGGTGCTCA	.	5	BLCA
OTUD6A	0	.	GRCh37	X	69283279	69283279	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*38G>A	.	.	ENST00000338352	1/1	17	14	3	17	17	0	OTUD6A,3_prime_UTR_variant,,ENST00000338352,;	A	ENSG00000189401	ENST00000338352	Transcript	3_prime_UTR_variant	939	.	.	.	.	.	.	.	1	OTUD6A	HGNC	32312	protein_coding	YES	CCDS14395.1	ENSP00000339389	OTU6A_HUMAN	.	UPI00000712B7	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGCCGTCGCC	.	4	BLCA
DLG3	0	.	GRCh37	X	69719849	69719849	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2095G>A	p.Asp699Asn	p.D699N	ENST00000374360	16/19	50	41	9	47	47	0	DLG3,missense_variant,p.Asp248Asn,ENST00000542398,;DLG3,missense_variant,p.Asp394Asn,ENST00000374355,;DLG3,missense_variant,p.Asp731Asn,ENST00000194900,;DLG3,missense_variant,p.Asp699Asn,ENST00000374360,;DLG3,non_coding_transcript_exon_variant,,ENST00000461646,;DLG3,downstream_gene_variant,,ENST00000489733,;DLG3,downstream_gene_variant,,ENST00000466140,;DLG3,non_coding_transcript_exon_variant,,ENST00000496931,;DLG3,non_coding_transcript_exon_variant,,ENST00000463252,;	A	ENSG00000082458	ENST00000374360	Transcript	missense_variant	2328	2095	699	D/N	Gat/Aat	COSM422508,COSM1133868	.	.	1	DLG3	HGNC	2902	protein_coding	YES	CCDS14403.1	ENSP00000363480	DLG3_HUMAN	Q59FY1_HUMAN	UPI000013C60C	.	tolerated(0.55)	benign(0.407)	16/19	.	PROSITE_profiles:PS50052,hmmpanther:PTHR23119:SF7,hmmpanther:PTHR23119,Pfam_domain:PF00625,Gene3D:3.30.63.10,SMART_domains:SM00072,PIRSF_domain:PIRSF001741,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAATGATAAC	.	4	BLCA
XIST	0	.	GRCh37	X	73070386	73070386	+	RNA	SNP	C	C	A	novel	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2203G>T	.	.	ENST00000429829	1/6	45	38	6	40	40	0	XIST,non_coding_transcript_exon_variant,,ENST00000429829,;	A	ENSG00000229807	ENST00000429829	Transcript	non_coding_transcript_exon_variant	2203	.	.	.	.	.	.	.	-1	XIST	HGNC	12810	lincRNA	YES	.	.	.	.	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GAATTCCTCTT	.	3	BLCA
HDX	0	.	GRCh37	X	83723964	83723964	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A0YX-01A-11D-A10S-08	TCGA-BT-A0YX-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.767G>A	p.Arg256Lys	p.R256K	ENST00000297977	3/10	221	172	48	262	262	0	HDX,missense_variant,p.Arg198Lys,ENST00000506585,;HDX,missense_variant,p.Arg256Lys,ENST00000373177,;HDX,missense_variant,p.Arg198Lys,ENST00000449553,;HDX,missense_variant,p.Arg256Lys,ENST00000297977,;HDX,non_coding_transcript_exon_variant,,ENST00000472135,;	T	ENSG00000165259	ENST00000297977	Transcript	missense_variant	879	767	256	R/K	aGa/aAa	COSM422479	.	.	-1	HDX	HGNC	26411	protein_coding	YES	CCDS35342.1	ENSP00000297977	HDX_HUMAN	E2QRN0_HUMAN	UPI00001A9DA4	.	tolerated(0.6)	benign(0.08)	3/10	.	hmmpanther:PTHR11636:SF80,hmmpanther:PTHR11636	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTCTACAG	.	5	BLCA
ACBD7	0	.	GRCh37	10	15130774	15130774	+	5'UTR	SNP	C	C	G	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-47G>C	.	.	ENST00000356189	1/4	17	13	4	21	21	0	ACBD7,5_prime_UTR_variant,,ENST00000356189,;ACBD7,upstream_gene_variant,,ENST00000496890,;DCLRE1CP1,non_coding_transcript_exon_variant,,ENST00000378211,;GAPDHP45,downstream_gene_variant,,ENST00000452090,;	G	ENSG00000176244	ENST00000356189	Transcript	5_prime_UTR_variant	2	.	.	.	.	.	.	.	-1	ACBD7	HGNC	17715	protein_coding	YES	CCDS31153.1	ENSP00000367453	ACBD7_HUMAN	.	UPI000006F409	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCTGCCC	.	5	BLCA
ARHGAP12	0	.	GRCh37	10	32098165	32098165	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2121C>T	p.%3D	p.V707V	ENST00000344936	17/20	41	37	4	73	73	0	ARHGAP12,synonymous_variant,p.%3D,ENST00000344936,;ARHGAP12,synonymous_variant,p.%3D,ENST00000311380,;ARHGAP12,synonymous_variant,p.%3D,ENST00000375245,;ARHGAP12,synonymous_variant,p.%3D,ENST00000375250,;ARHGAP12,synonymous_variant,p.%3D,ENST00000396144,;ARHGAP12,non_coding_transcript_exon_variant,,ENST00000492028,;ARHGAP12,non_coding_transcript_exon_variant,,ENST00000493008,;ARHGAP12,upstream_gene_variant,,ENST00000497085,;ARHGAP12,downstream_gene_variant,,ENST00000497103,;	A	ENSG00000165322	ENST00000344936	Transcript	synonymous_variant	2356	2121	707	V	gtC/gtT	COSM415048	.	.	-1	ARHGAP12	HGNC	16348	protein_coding	YES	CCDS7170.1	ENSP00000345808	RHG12_HUMAN	D3DRX4_HUMAN	UPI000007445E	.	.	.	17/20	.	Superfamily_domains:SSF48350,SMART_domains:SM00324,Gene3D:1.10.555.10,Pfam_domain:PF00620,hmmpanther:PTHR23181,hmmpanther:PTHR23181:SF3,PROSITE_profiles:PS50238	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGATTGACTGC	.	2	BLCA
MAPK8	0	.	GRCh37	10	49633981	49633981	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739G>C	p.Glu247Gln	p.E247Q	ENST00000374189	8/12	55	47	8	80	80	0	MAPK8,missense_variant,p.Glu247Gln,ENST00000374182,;MAPK8,missense_variant,p.Glu247Gln,ENST00000360332,;MAPK8,missense_variant,p.Glu247Gln,ENST00000374176,;MAPK8,missense_variant,p.Glu247Gln,ENST00000374179,;MAPK8,missense_variant,p.Glu247Gln,ENST00000374189,;MAPK8,intron_variant,,ENST00000395611,;MAPK8,downstream_gene_variant,,ENST00000374174,;MAPK8,non_coding_transcript_exon_variant,,ENST00000482840,;MAPK8,non_coding_transcript_exon_variant,,ENST00000469879,;MAPK8,upstream_gene_variant,,ENST00000459755,;MAPK8,non_coding_transcript_exon_variant,,ENST00000469110,;MAPK8,non_coding_transcript_exon_variant,,ENST00000471272,;	C	ENSG00000107643	ENST00000374189	Transcript	missense_variant	920	739	247	E/Q	Gaa/Caa	COSM99080,COSM1289368,COSM415015,COSM1289367,COSM415014	.	.	1	MAPK8	HGNC	6881	protein_coding	YES	CCDS7224.1	ENSP00000363304	MK08_HUMAN	C9J762_HUMAN	UPI000012F17A	.	deleterious(0.03)	benign(0.04)	8/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF162,hmmpanther:PTHR24055,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGAATTC	.	5	BLCA
MAPK8	0	.	GRCh37	10	49634089	49634089	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.847G>C	p.Asp283His	p.D283H	ENST00000374189	8/12	74	69	5	109	109	0	MAPK8,missense_variant,p.Asp283His,ENST00000374182,;MAPK8,missense_variant,p.Asp283His,ENST00000360332,;MAPK8,missense_variant,p.Asp283His,ENST00000374176,;MAPK8,missense_variant,p.Asp207His,ENST00000395611,;MAPK8,missense_variant,p.Asp283His,ENST00000374179,;MAPK8,missense_variant,p.Asp283His,ENST00000374189,;MAPK8,downstream_gene_variant,,ENST00000374174,;MAPK8,non_coding_transcript_exon_variant,,ENST00000482840,;MAPK8,non_coding_transcript_exon_variant,,ENST00000469879,;MAPK8,upstream_gene_variant,,ENST00000459755,;MAPK8,non_coding_transcript_exon_variant,,ENST00000469110,;MAPK8,non_coding_transcript_exon_variant,,ENST00000471272,;	C	ENSG00000107643	ENST00000374189	Transcript	missense_variant	1028	847	283	D/H	Gac/Cac	COSM415013,COSM415012	.	.	1	MAPK8	HGNC	6881	protein_coding	YES	CCDS7224.1	ENSP00000363304	MK08_HUMAN	C9J762_HUMAN	UPI000012F17A	.	deleterious(0.04)	benign(0.009)	8/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF162,hmmpanther:PTHR24055,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112,Prints_domain:PR01772	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTGACTCA	.	2	BLCA
CDK1	0	.	GRCh37	10	62553724	62553724	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.885G>A	p.%3D	p.K295K	ENST00000395284	8/8	45	37	8	63	63	0	CDK1,synonymous_variant,p.%3D,ENST00000316629,;CDK1,synonymous_variant,p.%3D,ENST00000373809,;CDK1,synonymous_variant,p.%3D,ENST00000448257,;CDK1,synonymous_variant,p.%3D,ENST00000395284,;CDK1,downstream_gene_variant,,ENST00000519078,;CDK1,downstream_gene_variant,,ENST00000487784,;	A	ENSG00000170312	ENST00000395284	Transcript	synonymous_variant	1027	885	295	K	aaG/aaA	COSM414993	.	.	1	CDK1	HGNC	1722	protein_coding	YES	CCDS44408.1	ENSP00000378699	CDK1_HUMAN	Q5H9N4_HUMAN,E5RIU6_HUMAN	UPI0000035BE1	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTAAGAAGAT	.	5	BLCA
TMEM26	0	.	GRCh37	10	63170341	63170341	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846C>T	p.%3D	p.I282I	ENST00000399298	6/6	26	17	8	33	33	0	TMEM26,synonymous_variant,p.%3D,ENST00000399298,;TMEM26,downstream_gene_variant,,ENST00000277749,;TMEM26,non_coding_transcript_exon_variant,,ENST00000507507,;TMEM26,synonymous_variant,p.%3D,ENST00000503886,;TMEM26,downstream_gene_variant,,ENST00000488505,;	A	ENSG00000196932	ENST00000399298	Transcript	synonymous_variant	1215	846	282	I	atC/atT	COSM414992	.	.	-1	TMEM26	HGNC	28550	protein_coding	YES	CCDS41530.1	ENSP00000382237	TMM26_HUMAN	.	UPI00001C0B3F	.	.	.	6/6	.	Pfam_domain:PF09772,hmmpanther:PTHR22168:SF2,hmmpanther:PTHR22168	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTGATCAC	.	5	BLCA
ACTA2	0	.	GRCh37	10	90697972	90697972	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.836C>A	p.Thr279Asn	p.T279N	ENST00000458208	8/9	108	95	12	101	101	0	ACTA2,missense_variant,p.Thr279Asn,ENST00000224784,;ACTA2,missense_variant,p.Thr279Asn,ENST00000458208,;STAMBPL1,intron_variant,,ENST00000371927,;ACTA2,downstream_gene_variant,,ENST00000415557,;ACTA2,downstream_gene_variant,,ENST00000458159,;ACTA2-AS1,non_coding_transcript_exon_variant,,ENST00000437930,;ACTA2-AS1,upstream_gene_variant,,ENST00000596007,;ACTA2,downstream_gene_variant,,ENST00000480297,;	T	ENSG00000107796	ENST00000458208	Transcript	missense_variant	1311	836	279	T/N	aCc/aAc	COSM415423	.	.	-1	ACTA2	HGNC	130	protein_coding	YES	CCDS7392.1	ENSP00000402373	ACTA_HUMAN	D2JYH4_HUMAN,Q562S2_HUMAN,F6UVQ4_HUMAN,F6QUT6_HUMAN,B4DUI8_HUMAN,B3KPP5_HUMAN	UPI0000000E0F	.	deleterious_low_confidence(0.03)	benign(0.029)	8/9	.	hmmpanther:PTHR11937:SF197,hmmpanther:PTHR11937,Pfam_domain:PF00022,Gene3D:3.30.420.40,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTGGTTTCA	.	4	BLCA
ATM	0	.	GRCh37	11	108115627	108115627	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775C>T	p.Leu259Phe	p.L259F	ENST00000278616	7/63	75	71	4	110	110	0	ATM,missense_variant,p.Leu259Phe,ENST00000278616,;ATM,missense_variant,p.Leu259Phe,ENST00000527805,;ATM,missense_variant,p.Leu259Phe,ENST00000452508,;ATM,downstream_gene_variant,,ENST00000527891,;	T	ENSG00000149311	ENST00000278616	Transcript	missense_variant	1160	775	259	L/F	Ctt/Ttt	COSM922700,COSM415357,COSM1133332,COSM1585370	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	deleterious(0.04)	benign(0.26)	7/63	.	Superfamily_domains:SSF48371,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF66	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAATTCTTCCC	.	2	BLCA
MPZL2	0	.	GRCh37	11	118127913	118127913	+	Intron	SNP	G	G	A	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12+40C>T	.	.	ENST00000278937	.	38	31	7	46	46	0	MPZL2,3_prime_UTR_variant,,ENST00000438295,;MPZL2,intron_variant,,ENST00000278937,;MPZL3,upstream_gene_variant,,ENST00000527472,;MPZL3,upstream_gene_variant,,ENST00000278949,;MPZL3,upstream_gene_variant,,ENST00000525386,;MPZL2,intron_variant,,ENST00000534175,;MPZL2,intron_variant,,ENST00000528554,;MPZL3,upstream_gene_variant,,ENST00000446386,;MPZL2,downstream_gene_variant,,ENST00000529376,;	A	ENSG00000149573	ENST00000278937	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MPZL2	HGNC	3496	protein_coding	YES	CCDS8393.1	ENSP00000278937	MPZL2_HUMAN	.	UPI000004781C	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCAGAAAGC	.	4	BLCA
PKNOX2	0	.	GRCh37	11	125281675	125281675	+	Missense_Mutation	SNP	G	G	A	rs200769767	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.850G>A	p.Glu284Lys	p.E284K	ENST00000298282	10/13	62	47	15	71	71	0	PKNOX2,missense_variant,p.Glu284Lys,ENST00000298282,;PKNOX2,missense_variant,p.Glu220Lys,ENST00000542175,;PKNOX2,non_coding_transcript_exon_variant,,ENST00000531116,;PKNOX2,non_coding_transcript_exon_variant,,ENST00000530517,;PKNOX2,3_prime_UTR_variant,,ENST00000532623,;PKNOX2,non_coding_transcript_exon_variant,,ENST00000526955,;	A	ENSG00000165495	ENST00000298282	Transcript	missense_variant	1121	850	284	E/K	Gag/Aag	rs200769767,COSM415279	.	.	1	PKNOX2	HGNC	16714	protein_coding	YES	CCDS41730.1	ENSP00000298282	PKNX2_HUMAN	H0YLX0_HUMAN,E9PRB6_HUMAN,E9PKL2_HUMAN,B7ZAF3_HUMAN	UPI000023271E	.	tolerated(0.14)	benign(0.138)	10/13	.	hmmpanther:PTHR11850:SF53,hmmpanther:PTHR11850	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATGAGGAT	byCluster|by1000G	5	BLCA
ATL3	0	.	GRCh37	11	63403040	63403040	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1001G>C	p.Gly334Ala	p.G334A	ENST00000398868	10/13	56	53	3	51	51	0	ATL3,missense_variant,p.Gly316Ala,ENST00000538786,;ATL3,missense_variant,p.Gly334Ala,ENST00000398868,;ATL3,missense_variant,p.Gly361Ala,ENST00000332645,;RP11-697H9.2,upstream_gene_variant,,ENST00000540307,;RP11-697H9.4,downstream_gene_variant,,ENST00000605170,;	G	ENSG00000184743	ENST00000398868	Transcript	missense_variant	1278	1001	334	G/A	gGa/gCa	COSM415479	.	.	-1	ATL3	HGNC	24526	protein_coding	YES	CCDS41663.1	ENSP00000381844	ATLA3_HUMAN	F5H6I7_HUMAN	UPI0000071A21	.	deleterious(0)	probably_damaging(0.998)	10/13	.	Superfamily_domains:0037397,Gene3D:1f5nA01,Pfam_domain:PF02841,hmmpanther:PTHR10751,hmmpanther:PTHR10751:SF32	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCTCCTTGA	.	2	BLCA
FRMD8	0	.	GRCh37	11	65161533	65161533	+	Missense_Mutation	SNP	G	G	A	rs368973734	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.377G>A	p.Arg126Gln	p.R126Q	ENST00000317568	5/11	48	35	13	28	28	0	FRMD8,missense_variant,p.Arg70Gln,ENST00000533782,;FRMD8,missense_variant,p.Arg84Gln,ENST00000526201,;FRMD8,missense_variant,p.Arg70Gln,ENST00000355991,;FRMD8,missense_variant,p.Arg126Gln,ENST00000317568,;FRMD8,missense_variant,p.Arg92Gln,ENST00000416776,;FRMD8,downstream_gene_variant,,ENST00000525156,;FRMD8,downstream_gene_variant,,ENST00000528854,;FRMD8,upstream_gene_variant,,ENST00000531151,;	A	ENSG00000126391	ENST00000317568	Transcript	missense_variant	540	377	126	R/Q	cGa/cAa	rs368973734,COSM415449	.	.	1	FRMD8	HGNC	25462	protein_coding	YES	CCDS8102.1	ENSP00000319726	FRMD8_HUMAN	Q96MK6_HUMAN,E9PRA3_HUMAN	UPI000000DAAC	.	tolerated(0.24)	benign(0.28)	5/11	.	SMART_domains:SM00295,PROSITE_profiles:PS50057,hmmpanther:PTHR13283	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R126Q|c.377G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCCGAAGGA	byFrequency|byCluster	5	BLCA
RNF169	0	.	GRCh37	11	74547657	74547657	+	Missense_Mutation	SNP	G	G	A	rs192609539	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2009G>A	p.Arg670Gln	p.R670Q	ENST00000299563	6/6	74	60	13	80	80	0	RNF169,missense_variant,p.Arg41Gln,ENST00000527301,;RNF169,missense_variant,p.Arg670Gln,ENST00000299563,;XRRA1,downstream_gene_variant,,ENST00000321448,;XRRA1,downstream_gene_variant,,ENST00000340360,;XRRA1,intron_variant,,ENST00000530562,;XRRA1,downstream_gene_variant,,ENST00000531849,;	A	ENSG00000166439	ENST00000299563	Transcript	missense_variant	2022	2009	670	R/Q	cGa/cAa	rs192609539,COSM415738	.	.	1	RNF169	HGNC	26961	protein_coding	YES	CCDS41691.1	ENSP00000299563	RN169_HUMAN	.	UPI00001C1F15	.	tolerated(0.07)	benign(0.037)	6/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23328:SF2,hmmpanther:PTHR23328	A:0.0010	A:0	A:0	.	A:0.005	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACCGACAGT	byFrequency|byCluster|by1000G	5	BLCA
C11orf30	0	.	GRCh37	11	76175124	76175124	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.831G>A	p.%3D	p.K277K	ENST00000529032	6/20	44	34	9	70	70	0	C11orf30,synonymous_variant,p.%3D,ENST00000533248,;C11orf30,synonymous_variant,p.%3D,ENST00000524767,;C11orf30,synonymous_variant,p.%3D,ENST00000524490,;C11orf30,synonymous_variant,p.%3D,ENST00000334736,;C11orf30,synonymous_variant,p.%3D,ENST00000525919,;C11orf30,synonymous_variant,p.%3D,ENST00000525038,;C11orf30,synonymous_variant,p.%3D,ENST00000343878,;C11orf30,synonymous_variant,p.%3D,ENST00000529032,;C11orf30,intron_variant,,ENST00000533972,;C11orf30,splice_region_variant,,ENST00000427574,;C11orf30,downstream_gene_variant,,ENST00000528826,;	A	ENSG00000158636	ENST00000529032	Transcript	synonymous_variant	831	831	277	K	aaG/aaA	COSM415735	.	.	1	C11orf30	HGNC	18071	protein_coding	YES	CCDS8244.1	ENSP00000432327	EMSY_HUMAN	.	UPI0000071307	.	.	.	6/20	.	hmmpanther:PTHR16500:SF2,hmmpanther:PTHR16500,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGGTATG	.	5	BLCA
MYBPC1	0	.	GRCh37	12	102043044	102043044	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1128G>C	p.Lys376Asn	p.K376N	ENST00000452455	13/30	46	36	9	52	52	0	MYBPC1,missense_variant,p.Lys357Asn,ENST00000536007,;MYBPC1,missense_variant,p.Lys350Asn,ENST00000547405,;MYBPC1,missense_variant,p.Lys376Asn,ENST00000550270,;MYBPC1,missense_variant,p.Lys401Asn,ENST00000361685,;MYBPC1,missense_variant,p.Lys277Asn,ENST00000551300,;MYBPC1,missense_variant,p.Lys401Asn,ENST00000361466,;MYBPC1,missense_variant,p.Lys376Asn,ENST00000452455,;MYBPC1,missense_variant,p.Lys389Asn,ENST00000549145,;MYBPC1,missense_variant,p.Lys363Asn,ENST00000392934,;MYBPC1,missense_variant,p.Lys376Asn,ENST00000553190,;MYBPC1,missense_variant,p.Lys376Asn,ENST00000545503,;MYBPC1,missense_variant,p.Lys376Asn,ENST00000441232,;MYBPC1,missense_variant,p.Lys376Asn,ENST00000360610,;MYBPC1,missense_variant,p.Lys362Asn,ENST00000547509,;MYBPC1,missense_variant,p.Lys364Asn,ENST00000541119,;RP11-755O11.2,intron_variant,,ENST00000552081,;RP11-755O11.2,intron_variant,,ENST00000547027,;MYBPC1,intron_variant,,ENST00000550501,;	C	ENSG00000196091	ENST00000452455	Transcript	missense_variant	1230	1128	376	K/N	aaG/aaC	COSM415670,COSM3455136,COSM415671,COSM3455137	.	.	1	MYBPC1	HGNC	7549	protein_coding	YES	CCDS58268.1	ENSP00000400908	MYPC1_HUMAN	F8W1Z9_HUMAN	UPI0001AE6B26	.	deleterious(0)	probably_damaging(0.967)	13/30	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19900:SF43,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTAAGAATGG	.	5	BLCA
HIP1R	0	.	GRCh37	12	123340550	123340550	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152G>A	p.%3D	p.L384L	ENST00000253083	14/32	15	11	4	8	8	0	HIP1R,synonymous_variant,p.%3D,ENST00000253083,;HIP1R,upstream_gene_variant,,ENST00000535012,;HIP1R,non_coding_transcript_exon_variant,,ENST00000452196,;HIP1R,non_coding_transcript_exon_variant,,ENST00000535831,;HIP1R,non_coding_transcript_exon_variant,,ENST00000536847,;HIP1R,upstream_gene_variant,,ENST00000541712,;HIP1R,upstream_gene_variant,,ENST00000538236,;HIP1R,upstream_gene_variant,,ENST00000536617,;HIP1R,downstream_gene_variant,,ENST00000536772,;	A	ENSG00000130787	ENST00000253083	Transcript	synonymous_variant	1277	1152	384	L	ctG/ctA	COSM415980	.	.	1	HIP1R	HGNC	18415	protein_coding	YES	CCDS31922.1	ENSP00000253083	HIP1R_HUMAN	B3KN98_HUMAN	UPI000012C72C	.	.	.	14/32	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10407,hmmpanther:PTHR10407:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTGAAGAG	.	2	BLCA
MRPS35	0	.	GRCh37	12	27877118	27877118	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.521G>C	p.Arg174Thr	p.R174T	ENST00000081029	5/8	41	33	7	50	50	0	MRPS35,missense_variant,p.Arg174Thr,ENST00000538315,;MRPS35,missense_variant,p.Arg174Thr,ENST00000081029,;MRPS35,intron_variant,,ENST00000542791,;MRPS35,missense_variant,p.Arg160Thr,ENST00000542199,;MRPS35,splice_region_variant,,ENST00000536569,;	C	ENSG00000061794	ENST00000081029	Transcript	missense_variant	592	521	174	R/T	aGa/aCa	COSM415900	.	.	1	MRPS35	HGNC	16635	protein_coding	YES	CCDS8714.1	ENSP00000081029	RT35_HUMAN	.	UPI000003B0E7	.	tolerated(0.07)	possibly_damaging(0.543)	5/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13490,Pfam_domain:PF10213	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTAAGAGTAA	.	5	BLCA
IPO8	0	.	GRCh37	12	30814158	30814158	+	Missense_Mutation	SNP	C	C	T	rs781176618	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1798G>A	p.Glu600Lys	p.E600K	ENST00000256079	16/25	34	25	9	46	46	0	IPO8,missense_variant,p.Glu600Lys,ENST00000256079,;IPO8,missense_variant,p.Glu395Lys,ENST00000544829,;	T	ENSG00000133704	ENST00000256079	Transcript	missense_variant	2137	1798	600	E/K	Gaa/Aaa	rs781176618,COSM415893	.	.	-1	IPO8	HGNC	9853	protein_coding	YES	CCDS8719.1	ENSP00000256079	IPO8_HUMAN	F5H009_HUMAN,F5GXT5_HUMAN	UPI000013CEE9	.	tolerated(0.22)	benign(0.025)	16/25	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR10997:SF26,hmmpanther:PTHR10997	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AACTTCTTCAT	byFrequency	4	BLCA
IRAK4	0	.	GRCh37	12	44166804	44166804	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.580G>C	p.Glu194Gln	p.E194Q	ENST00000448290	5/12	44	35	9	46	46	0	IRAK4,missense_variant,p.Glu194Gln,ENST00000448290,;IRAK4,missense_variant,p.Glu70Gln,ENST00000440781,;IRAK4,missense_variant,p.Glu70Gln,ENST00000431837,;IRAK4,missense_variant,p.Glu194Gln,ENST00000551736,;IRAK4,downstream_gene_variant,,ENST00000550616,;IRAK4,3_prime_UTR_variant,,ENST00000547101,;IRAK4,3_prime_UTR_variant,,ENST00000547521,;IRAK4,3_prime_UTR_variant,,ENST00000550615,;IRAK4,3_prime_UTR_variant,,ENST00000550386,;IRAK4,intron_variant,,ENST00000552309,;IRAK4,downstream_gene_variant,,ENST00000546780,;IRAK4,downstream_gene_variant,,ENST00000550361,;IRAK4,upstream_gene_variant,,ENST00000547928,;	C	ENSG00000198001	ENST00000448290	Transcript	missense_variant	651	580	194	E/Q	Gag/Cag	COSM415862	.	.	1	IRAK4	HGNC	17967	protein_coding	YES	CCDS8744.1	ENSP00000390651	IRAK4_HUMAN	Q69FE3_HUMAN,F8VW24_HUMAN,F8VR40_HUMAN	UPI000004ABE6	.	deleterious(0.01)	probably_damaging(0.985)	5/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24419,hmmpanther:PTHR24419:SF0,Gene3D:3.30.200.20,Pfam_domain:PF00069,PIRSF_domain:PIRSF038189,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGAGAGGGA	.	5	BLCA
KRT121P	0	.	GRCh37	12	52651959	52651959	+	RNA	SNP	C	C	T	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.693G>A	.	.	ENST00000257935	1/11	124	101	23	105	105	0	KRT86,intron_variant,,ENST00000544024,;KRT86,intron_variant,,ENST00000553310,;KRT121P,non_coding_transcript_exon_variant,,ENST00000529785,;KRT121P,non_coding_transcript_exon_variant,,ENST00000257935,;KRT121P,non_coding_transcript_exon_variant,,ENST00000534226,;	T	ENSG00000135477	ENST00000257935	Transcript	non_coding_transcript_exon_variant	693	.	.	.	.	.	.	.	-1	KRT121P	HGNC	30198	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGTCCATGA	.	4	BLCA
TUBA3C	0	.	GRCh37	13	19748219	19748219	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1137C>G	p.Ser379Arg	p.S379R	ENST00000400113	5/5	89	67	21	77	76	1	TUBA3C,missense_variant,p.Ser379Arg,ENST00000400113,;SMPD4P2,upstream_gene_variant,,ENST00000440167,;	C	ENSG00000198033	ENST00000400113	Transcript	missense_variant	1242	1137	379	S/R	agC/agG	COSM416429	.	.	-1	TUBA3C	HGNC	12408	protein_coding	YES	CCDS9284.1	ENSP00000382982	TBA3C_HUMAN	Q1ZYQ1_HUMAN,F8VXZ7_HUMAN	UPI0000027DB1	.	deleterious_low_confidence(0.02)	probably_damaging(1)	5/5	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF65,Pfam_domain:PF03953,Gene3D:3.30.1330.20,SMART_domains:SM00865,Superfamily_domains:SSF55307,Prints_domain:PR01162	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTGCTCAG	.	5	BLCA
MYH7	0	.	GRCh37	14	23887584	23887584	+	Missense_Mutation	SNP	G	G	A	rs397516199	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4004C>T	p.Ser1335Leu	p.S1335L	ENST00000355349	30/40	45	30	14	42	42	0	MYH7,missense_variant,p.Ser1335Leu,ENST00000355349,;MIR208B,upstream_gene_variant,,ENST00000401172,;CTD-2201G16.1,downstream_gene_variant,,ENST00000557368,;	A	ENSG00000092054	ENST00000355349	Transcript	missense_variant	4167	4004	1335	S/L	tCg/tTg	rs397516199,COSM416233	.	.	-1	MYH7	HGNC	7577	protein_coding	YES	CCDS9601.1	ENSP00000347507	MYH7_HUMAN	Q59EV3_HUMAN,L0L5E6_HUMAN,A8CLN2_HUMAN,A8CLL2_HUMAN,A6N931_HUMAN,A6N930_HUMAN	UPI000014019B	.	deleterious(0)	probably_damaging(0.983)	30/40	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF279,hmmpanther:PTHR13140,Pfam_domain:PF01576,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	uncertain_significance	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.S1335S|c.4005G>A|6,BUFFER|p.A1332T|c.3994G>A|3	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGGCCGACTGC	byFrequency|byCluster	4	BLCA
DAAM1	0	.	GRCh37	14	59819340	59819340	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2287G>C	p.Glu763Gln	p.E763Q	ENST00000395125	18/25	28	19	8	31	31	0	DAAM1,missense_variant,p.Glu763Gln,ENST00000351081,;DAAM1,missense_variant,p.Glu763Gln,ENST00000395125,;DAAM1,missense_variant,p.Glu753Gln,ENST00000360909,;DAAM1,non_coding_transcript_exon_variant,,ENST00000554459,;DAAM1,non_coding_transcript_exon_variant,,ENST00000553966,;DAAM1,upstream_gene_variant,,ENST00000557029,;DAAM1,upstream_gene_variant,,ENST00000553307,;	C	ENSG00000100592	ENST00000395125	Transcript	missense_variant	2310	2287	763	E/Q	Gag/Cag	COSM416653	.	.	1	DAAM1	HGNC	18142	protein_coding	YES	CCDS9737.1	ENSP00000378557	DAAM1_HUMAN	.	UPI0000161FAA	.	tolerated(0.07)	probably_damaging(0.966)	18/25	.	PROSITE_profiles:PS51444,hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF181,Pfam_domain:PF02181,SMART_domains:SM00498,Superfamily_domains:SSF101447	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTTGAGATG	.	2	BLCA
NUMB	0	.	GRCh37	14	73743889	73743889	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1353C>G	p.%3D	p.V451V	ENST00000355058	13/13	40	31	8	27	27	0	NUMB,synonymous_variant,p.%3D,ENST00000356296,;NUMB,synonymous_variant,p.%3D,ENST00000555394,;NUMB,synonymous_variant,p.%3D,ENST00000556772,;NUMB,synonymous_variant,p.%3D,ENST00000544991,;NUMB,synonymous_variant,p.%3D,ENST00000454166,;NUMB,synonymous_variant,p.%3D,ENST00000557597,;NUMB,synonymous_variant,p.%3D,ENST00000554521,;NUMB,synonymous_variant,p.%3D,ENST00000535282,;NUMB,synonymous_variant,p.%3D,ENST00000355058,;NUMB,synonymous_variant,p.%3D,ENST00000560335,;NUMB,synonymous_variant,p.%3D,ENST00000554546,;NUMB,synonymous_variant,p.%3D,ENST00000359560,;NUMB,synonymous_variant,p.%3D,ENST00000555738,;NUMB,synonymous_variant,p.%3D,ENST00000555238,;NUMB,synonymous_variant,p.%3D,ENST00000559312,;PAPLN,downstream_gene_variant,,ENST00000559759,;PAPLN,downstream_gene_variant,,ENST00000381166,;PAPLN,downstream_gene_variant,,ENST00000555445,;PAPLN,downstream_gene_variant,,ENST00000427855,;PAPLN,downstream_gene_variant,,ENST00000554301,;PAPLN,downstream_gene_variant,,ENST00000340738,;RP4-647C14.3,upstream_gene_variant,,ENST00000556578,;NUMB,downstream_gene_variant,,ENST00000553997,;PAPLN,downstream_gene_variant,,ENST00000216658,;PAPLN,downstream_gene_variant,,ENST00000555700,;PAPLN,downstream_gene_variant,,ENST00000554527,;PAPLN,downstream_gene_variant,,ENST00000557061,;NUMB,downstream_gene_variant,,ENST00000554014,;PAPLN,downstream_gene_variant,,ENST00000555123,;	C	ENSG00000133961	ENST00000355058	Transcript	synonymous_variant	1632	1353	451	V	gtC/gtG	COSM416619	.	.	-1	NUMB	HGNC	8060	protein_coding	YES	CCDS32116.1	ENSP00000347169	NUMB_HUMAN	Q5D0E5_HUMAN,G3V4S6_HUMAN,G3V3Z8_HUMAN,G3V3R1_HUMAN	UPI00001309BF	.	.	.	13/13	.	hmmpanther:PTHR11232:SF33,hmmpanther:PTHR11232,PIRSF_domain:PIRSF017607	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCCGGACGCT	.	4	BLCA
SNORD115-17	0	.	GRCh37	15	25446475	25446475	+	RNA	SNP	G	G	A	rs775825423	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.6G>A	.	.	ENST00000364612	1/1	247	239	8	247	247	0	SNORD115-17,non_coding_transcript_exon_variant,,ENST00000364612,;SNORD115-20,upstream_gene_variant,,ENST00000365099,;SNORD115-19,upstream_gene_variant,,ENST00000363098,;SNORD115-15,downstream_gene_variant,,ENST00000364809,;SNORD115-18,upstream_gene_variant,,ENST00000363293,;SNORD115-16,downstream_gene_variant,,ENST00000363887,;SNHG14,intron_variant,,ENST00000424333,;SNHG14,intron_variant,,ENST00000424208,;SNHG14,upstream_gene_variant,,ENST00000450809,;SNHG14,downstream_gene_variant,,ENST00000456576,;	A	ENSG00000201482	ENST00000364612	Transcript	non_coding_transcript_exon_variant	6	.	.	.	.	rs775825423	.	.	1	SNORD115-17	HGNC	33036	snoRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTCGATGAT	byFrequency	2	BLCA
RPAP1	0	.	GRCh37	15	41822071	41822071	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1050G>C	p.Gln350His	p.Q350H	ENST00000304330	8/25	31	24	7	22	22	0	RPAP1,missense_variant,p.Gln350His,ENST00000561603,;RPAP1,missense_variant,p.Gln350His,ENST00000304330,;RPAP1,upstream_gene_variant,,ENST00000565035,;RPAP1,non_coding_transcript_exon_variant,,ENST00000568413,;RPAP1,missense_variant,p.Gln350His,ENST00000562303,;RPAP1,downstream_gene_variant,,ENST00000563293,;RPAP1,upstream_gene_variant,,ENST00000561631,;	G	ENSG00000103932	ENST00000304330	Transcript	missense_variant	1167	1050	350	Q/H	caG/caC	COSM416945	.	.	-1	RPAP1	HGNC	24567	protein_coding	YES	CCDS10079.1	ENSP00000306123	RPAP1_HUMAN	H3BPY8_HUMAN,H3BPM3_HUMAN	UPI000013D465	.	tolerated(0.2)	possibly_damaging(0.45)	8/25	.	hmmpanther:PTHR21483:SF18,hmmpanther:PTHR21483	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGTGTCTGCTG	.	4	BLCA
RPAP1	0	.	GRCh37	15	41823249	41823249	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915G>C	p.Lys305Asn	p.K305N	ENST00000304330	7/25	196	142	54	224	224	0	RPAP1,missense_variant,p.Lys305Asn,ENST00000561603,;RPAP1,missense_variant,p.Lys305Asn,ENST00000304330,;RPAP1,downstream_gene_variant,,ENST00000567866,;RPAP1,upstream_gene_variant,,ENST00000565035,;RPAP1,non_coding_transcript_exon_variant,,ENST00000568413,;RPAP1,missense_variant,p.Lys305Asn,ENST00000562303,;RPAP1,downstream_gene_variant,,ENST00000563293,;	G	ENSG00000103932	ENST00000304330	Transcript	missense_variant	1032	915	305	K/N	aaG/aaC	COSM416944	.	.	-1	RPAP1	HGNC	24567	protein_coding	YES	CCDS10079.1	ENSP00000306123	RPAP1_HUMAN	H3BPY8_HUMAN,H3BPM3_HUMAN	UPI000013D465	.	tolerated(0.29)	benign(0.002)	7/25	.	hmmpanther:PTHR21483:SF18,hmmpanther:PTHR21483	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCTTCCT	.	5	BLCA
RPAP1	0	.	GRCh37	15	41823378	41823378	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.786G>C	p.Leu262Phe	p.L262F	ENST00000304330	7/25	222	178	44	230	230	0	RPAP1,missense_variant,p.Leu262Phe,ENST00000561603,;RPAP1,missense_variant,p.Leu262Phe,ENST00000304330,;RPAP1,downstream_gene_variant,,ENST00000566863,;RPAP1,downstream_gene_variant,,ENST00000567866,;RPAP1,upstream_gene_variant,,ENST00000565035,;RPAP1,non_coding_transcript_exon_variant,,ENST00000568413,;RPAP1,missense_variant,p.Leu262Phe,ENST00000562303,;RPAP1,downstream_gene_variant,,ENST00000563293,;	G	ENSG00000103932	ENST00000304330	Transcript	missense_variant	903	786	262	L/F	ttG/ttC	COSM416943	.	.	-1	RPAP1	HGNC	24567	protein_coding	YES	CCDS10079.1	ENSP00000306123	RPAP1_HUMAN	H3BPY8_HUMAN,H3BPM3_HUMAN	UPI000013D465	.	deleterious(0)	probably_damaging(0.981)	7/25	.	hmmpanther:PTHR21483:SF18,hmmpanther:PTHR21483,Pfam_domain:PF08621	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCAAGAA	.	5	BLCA
PYGO1	0	.	GRCh37	15	55839115	55839115	+	Nonsense_Mutation	SNP	G	G	T	rs149582531	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366C>A	p.Tyr122Ter	p.Y122*	ENST00000302000	3/3	73	57	16	58	58	0	PYGO1,stop_gained,p.Tyr122Ter,ENST00000302000,;PYGO1,stop_gained,p.Tyr122Ter,ENST00000563719,;	T	ENSG00000171016	ENST00000302000	Transcript	stop_gained	461	366	122	Y/*	taC/taA	rs149582531,COSM416889	.	.	-1	PYGO1	HGNC	30256	protein_coding	YES	CCDS10155.1	ENSP00000302327	PYGO1_HUMAN	.	UPI00000510D0	.	.	.	3/3	.	hmmpanther:PTHR23194:SF3,hmmpanther:PTHR23194	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGAGTAAGG	byCluster	5	BLCA
HEXA	0	.	GRCh37	15	72645501	72645501	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478G>A	p.Glu160Lys	p.E160K	ENST00000268097	5/14	24	19	5	32	32	0	HEXA,missense_variant,p.Glu171Lys,ENST00000566304,;HEXA,missense_variant,p.Glu160Lys,ENST00000268097,;HEXA,missense_variant,p.Glu160Lys,ENST00000567159,;HEXA,5_prime_UTR_variant,,ENST00000457859,;HEXA,intron_variant,,ENST00000429918,;RP11-106M3.3,downstream_gene_variant,,ENST00000570175,;HEXA,intron_variant,,ENST00000569509,;RP11-106M3.2,intron_variant,,ENST00000379915,;HEXA,missense_variant,p.Glu118Lys,ENST00000567027,;HEXA,missense_variant,p.Glu160Lys,ENST00000569410,;HEXA,stop_retained_variant,p.%3D,ENST00000567411,;HEXA,3_prime_UTR_variant,,ENST00000568260,;HEXA,non_coding_transcript_exon_variant,,ENST00000568777,;HEXA,intron_variant,,ENST00000563762,;HEXA,intron_variant,,ENST00000566672,;HEXA,downstream_gene_variant,,ENST00000563908,;	T	ENSG00000213614	ENST00000268097	Transcript	missense_variant	982	478	160	E/K	Gag/Aag	CD910531,COSM416836	.	.	-1	HEXA	HGNC	4878	protein_coding	YES	CCDS10243.1	ENSP00000268097	HEXA_HUMAN	H3BS10_HUMAN,G3XL83_HUMAN	UPI000013D798	.	tolerated(0.63)	benign(0.086)	5/14	.	Superfamily_domains:SSF55545,PIRSF_domain:PIRSF001093,Gene3D:3.30.379.10,hmmpanther:PTHR22600,hmmpanther:PTHR22600:SF7	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATCTCAGTCT	.	4	BLCA
ZNF710	0	.	GRCh37	15	90611183	90611183	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.814G>C	p.Asp272His	p.D272H	ENST00000268154	2/5	101	80	21	77	77	0	ZNF710,missense_variant,p.Asp272His,ENST00000268154,;ZNF710,upstream_gene_variant,,ENST00000559360,;ZNF710,downstream_gene_variant,,ENST00000559419,;ZNF710,upstream_gene_variant,,ENST00000558883,;	C	ENSG00000140548	ENST00000268154	Transcript	missense_variant	1065	814	272	D/H	Gat/Cat	COSM416766	.	.	1	ZNF710	HGNC	25352	protein_coding	YES	CCDS10358.1	ENSP00000268154	ZN710_HUMAN	H0YKZ0_HUMAN	UPI000013D7A4	.	deleterious(0)	probably_damaging(0.993)	2/5	.	hmmpanther:PTHR24390,hmmpanther:PTHR24390:SF43	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGGATCGG	.	5	BLCA
GDPGP1	0	.	GRCh37	15	90785018	90785018	+	Missense_Mutation	SNP	G	G	A	rs200215496	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.878G>A	p.Arg293Gln	p.R293Q	ENST00000558017	4/4	81	71	10	88	88	0	GDPGP1,missense_variant,p.Arg293Gln,ENST00000329600,;GDPGP1,missense_variant,p.Arg293Gln,ENST00000558017,;GDPGP1,downstream_gene_variant,,ENST00000558291,;GDPGP1,downstream_gene_variant,,ENST00000561433,;GDPGP1,downstream_gene_variant,,ENST00000559204,;RP11-697E2.4,upstream_gene_variant,,ENST00000565730,;	A	ENSG00000183208	ENST00000558017	Transcript	missense_variant	1298	878	293	R/Q	cGg/cAg	rs200215496,COSM416763	.	.	1	GDPGP1	HGNC	34360	protein_coding	YES	CCDS32327.1	ENSP00000452793	GDPP1_HUMAN	H0YN11_HUMAN,H0YL31_HUMAN	UPI00002378F3	.	deleterious(0)	probably_damaging(1)	4/4	.	hmmpanther:PTHR20884	A:0.0004	A:0	A:0	.	A:0.001	A:0	A:0.001	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCCGGGGAG	byFrequency|byCluster|by1000G	4	BLCA
IGFALS	0	.	GRCh37	16	1841120	1841120	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1413G>A	p.%3D	p.L471L	ENST00000415638	2/2	23	17	6	26	25	1	IGFALS,synonymous_variant,p.%3D,ENST00000415638,;IGFALS,synonymous_variant,p.%3D,ENST00000215539,;SPSB3,intron_variant,,ENST00000569769,;NUBP2,downstream_gene_variant,,ENST00000565134,;NUBP2,downstream_gene_variant,,ENST00000565987,;HAGH,downstream_gene_variant,,ENST00000564445,;NUBP2,downstream_gene_variant,,ENST00000262302,;NUBP2,downstream_gene_variant,,ENST00000562263,;NUBP2,downstream_gene_variant,,ENST00000543305,;IGFALS,downstream_gene_variant,,ENST00000568221,;NUBP2,downstream_gene_variant,,ENST00000563136,;NUBP2,downstream_gene_variant,,ENST00000568287,;NUBP2,downstream_gene_variant,,ENST00000568706,;NUBP2,downstream_gene_variant,,ENST00000568610,;NUBP2,downstream_gene_variant,,ENST00000569898,;NUBP2,downstream_gene_variant,,ENST00000565603,;NUBP2,downstream_gene_variant,,ENST00000563821,;NUBP2,downstream_gene_variant,,ENST00000566447,;NUBP2,downstream_gene_variant,,ENST00000567700,;NUBP2,downstream_gene_variant,,ENST00000568834,;NUBP2,downstream_gene_variant,,ENST00000564227,;NUBP2,downstream_gene_variant,,ENST00000566090,;	T	ENSG00000099769	ENST00000415638	Transcript	synonymous_variant	1493	1413	471	L	ctG/ctA	COSM417145	.	.	-1	IGFALS	HGNC	5468	protein_coding	YES	CCDS53982.1	ENSP00000416683	ALS_HUMAN	.	UPI00019863AB	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF67,Gene3D:3.80.10.10,SMART_domains:SM00369,SMART_domains:SM00364,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TCCGCCAGCCC	.	2	BLCA
SRRM2	0	.	GRCh37	16	2813372	2813372	+	Missense_Mutation	SNP	G	G	A	rs760841998	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2843G>A	p.Arg948Gln	p.R948Q	ENST00000301740	11/15	93	89	4	90	90	0	SRRM2,missense_variant,p.Arg948Gln,ENST00000576924,;SRRM2,missense_variant,p.Arg852Gln,ENST00000571378,;SRRM2,missense_variant,p.Arg948Gln,ENST00000301740,;SRRM2,downstream_gene_variant,,ENST00000575009,;SRRM2,downstream_gene_variant,,ENST00000576415,;SRRM2,downstream_gene_variant,,ENST00000572278,;SRRM2,upstream_gene_variant,,ENST00000572721,;SRRM2,downstream_gene_variant,,ENST00000575870,;SRRM2,upstream_gene_variant,,ENST00000574593,;SRRM2,upstream_gene_variant,,ENST00000576674,;SRRM2,downstream_gene_variant,,ENST00000570655,;SRRM2,upstream_gene_variant,,ENST00000572883,;SRRM2,downstream_gene_variant,,ENST00000576894,;SRRM2,downstream_gene_variant,,ENST00000573451,;SRRM2,upstream_gene_variant,,ENST00000573311,;SRRM2,downstream_gene_variant,,ENST00000576076,;SRRM2,downstream_gene_variant,,ENST00000573498,;SRRM2,downstream_gene_variant,,ENST00000570971,;SRRM2,downstream_gene_variant,,ENST00000571372,;SRRM2,downstream_gene_variant,,ENST00000572952,;	A	ENSG00000167978	ENST00000301740	Transcript	missense_variant	3392	2843	948	R/Q	cGg/cAg	rs760841998,COSM417076	.	.	1	SRRM2	HGNC	16639	protein_coding	YES	CCDS32373.1	ENSP00000301740	SRRM2_HUMAN	I3L4D8_HUMAN,I3L1I8_HUMAN,I3L1C0_HUMAN,I3L182_HUMAN,I3L0N7_HUMAN	UPI000049DDFC	.	.	unknown(0)	11/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR32093:SF13,hmmpanther:PTHR32093	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCACGGCGAA	byFrequency	2	BLCA
BCKDK	0	.	GRCh37	16	31123424	31123424	+	Intron	SNP	C	C	T	rs752324023	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1095-18C>T	.	.	ENST00000394951	.	47	36	11	67	67	0	BCKDK,3_prime_UTR_variant,,ENST00000287507,;BCKDK,3_prime_UTR_variant,,ENST00000394950,;BCKDK,intron_variant,,ENST00000394951,;BCKDK,intron_variant,,ENST00000219794,;BCKDK,intron_variant,,ENST00000567682,;BCKDK,downstream_gene_variant,,ENST00000484226,;KAT8,upstream_gene_variant,,ENST00000543774,;BCKDK,downstream_gene_variant,,ENST00000561755,;BCKDK,downstream_gene_variant,,ENST00000567676,;AC135050.1,downstream_gene_variant,,ENST00000517000,;BCKDK,intron_variant,,ENST00000566568,;BCKDK,intron_variant,,ENST00000567530,;	T	ENSG00000103507	ENST00000394951	Transcript	intron_variant	.	.	.	.	.	rs752324023	.	.	1	BCKDK	HGNC	16902	protein_coding	YES	CCDS10705.1	ENSP00000378405	BCKD_HUMAN	H3BQP2_HUMAN,H3BNP3_HUMAN,A8MY43_HUMAN	UPI0000126825	.	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGTCCCCCT	.	5	BLCA
SHCBP1	0	.	GRCh37	16	46650007	46650007	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447C>T	p.%3D	p.L149L	ENST00000303383	4/13	74	60	14	74	74	0	SHCBP1,synonymous_variant,p.%3D,ENST00000303383,;SHCBP1,upstream_gene_variant,,ENST00000569702,;SHCBP1,downstream_gene_variant,,ENST00000564272,;SHCBP1,non_coding_transcript_exon_variant,,ENST00000566016,;SHCBP1,upstream_gene_variant,,ENST00000565887,;	A	ENSG00000171241	ENST00000303383	Transcript	synonymous_variant	714	447	149	L	ctC/ctT	COSM417002	.	.	-1	SHCBP1	HGNC	29547	protein_coding	YES	CCDS10720.1	ENSP00000306473	SHCBP_HUMAN	.	UPI000013E898	.	.	.	4/13	.	hmmpanther:PTHR14695,hmmpanther:PTHR14695:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGAGGTA	.	5	BLCA
ZNF276	0	.	GRCh37	16	89788955	89788955	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222C>T	p.%3D	p.L74L	ENST00000443381	2/11	62	56	6	57	57	0	ZNF276,synonymous_variant,p.%3D,ENST00000443381,;ZNF276,5_prime_UTR_variant,,ENST00000446326,;ZNF276,5_prime_UTR_variant,,ENST00000568064,;ZNF276,5_prime_UTR_variant,,ENST00000289816,;VPS9D1,upstream_gene_variant,,ENST00000389386,;VPS9D1,upstream_gene_variant,,ENST00000561976,;VPS9D1-AS1,downstream_gene_variant,,ENST00000562866,;VPS9D1-AS1,downstream_gene_variant,,ENST00000562298,;ZNF276,synonymous_variant,p.%3D,ENST00000568295,;ZNF276,5_prime_UTR_variant,,ENST00000562530,;ZNF276,non_coding_transcript_exon_variant,,ENST00000563983,;ZNF276,upstream_gene_variant,,ENST00000569426,;ZNF276,upstream_gene_variant,,ENST00000561536,;ZNF276,upstream_gene_variant,,ENST00000563541,;VPS9D1,upstream_gene_variant,,ENST00000563798,;	T	ENSG00000158805	ENST00000443381	Transcript	synonymous_variant	319	222	74	L	ctC/ctT	COSM417224	.	.	1	ZNF276	HGNC	23330	protein_coding	YES	CCDS45554.1	ENSP00000415836	ZN276_HUMAN	.	UPI0000EE7D9C	.	.	.	2/11	.	hmmpanther:PTHR11389:SF340,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTCTCGCCAT	.	3	BLCA
SREBF1	0	.	GRCh37	17	17723649	17723649	+	Missense_Mutation	SNP	G	G	A	rs149599437	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368C>T	p.Ala123Val	p.A123V	ENST00000355815	3/20	92	63	28	82	82	0	SREBF1,missense_variant,p.Ala69Val,ENST00000423161,;SREBF1,missense_variant,p.Ala93Val,ENST00000338854,;SREBF1,missense_variant,p.Ala123Val,ENST00000355815,;SREBF1,missense_variant,p.Ala93Val,ENST00000261646,;SREBF1,missense_variant,p.Ala93Val,ENST00000435530,;SREBF1,5_prime_UTR_variant,,ENST00000577897,;SREBF1,upstream_gene_variant,,ENST00000395757,;SREBF1,intron_variant,,ENST00000583732,;SREBF1,5_prime_UTR_variant,,ENST00000395751,;SREBF1,non_coding_transcript_exon_variant,,ENST00000476994,;SREBF1,upstream_gene_variant,,ENST00000490796,;SREBF1,upstream_gene_variant,,ENST00000581707,;SREBF1,upstream_gene_variant,,ENST00000447641,;SREBF1,upstream_gene_variant,,ENST00000583080,;SREBF1,upstream_gene_variant,,ENST00000487401,;SREBF1,upstream_gene_variant,,ENST00000584760,;SREBF1,upstream_gene_variant,,ENST00000395756,;SREBF1,upstream_gene_variant,,ENST00000469356,;SREBF1,upstream_gene_variant,,ENST00000471445,;SREBF1,upstream_gene_variant,,ENST00000580540,;SREBF1,upstream_gene_variant,,ENST00000470247,;	A	ENSG00000072310	ENST00000355815	Transcript	missense_variant	538	368	123	A/V	gCg/gTg	rs149599437,COSM417164	.	.	-1	SREBF1	HGNC	11289	protein_coding	YES	CCDS32583.1	ENSP00000348069	SRBP1_HUMAN	J3QLB6_HUMAN,B5MD58_HUMAN	UPI00004432F6	.	tolerated(0.16)	benign(0.071)	3/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12565,hmmpanther:PTHR12565:SF5	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGCGCTGCC	byCluster	5	BLCA
ACACA	0	.	GRCh37	17	35445914	35445914	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6987C>G	p.Ile2329Met	p.I2329M	ENST00000353139	55/56	238	228	10	218	218	0	ACACA,missense_variant,p.Ile2234Met,ENST00000360679,;ACACA,missense_variant,p.Ile2Met,ENST00000586821,;ACACA,missense_variant,p.Ile2214Met,ENST00000335166,;ACACA,missense_variant,p.Ile944Met,ENST00000591119,;ACACA,missense_variant,p.Ile2329Met,ENST00000353139,;ACACA,missense_variant,p.Ile2292Met,ENST00000394406,;ACACA,missense_variant,p.Ile418Met,ENST00000361253,;ACACA,3_prime_UTR_variant,,ENST00000587233,;ACACA,non_coding_transcript_exon_variant,,ENST00000593055,;	C	ENSG00000132142	ENST00000353139	Transcript	missense_variant	7469	6987	2329	I/M	atC/atG	COSM417577,COSM417576	.	.	-1	ACACA	HGNC	84	protein_coding	YES	CCDS42302.1	ENSP00000344789	ACACA_HUMAN	Q7Z5W8_HUMAN,K7EII5_HUMAN,K4DID9_HUMAN,B4DWK9_HUMAN,B4DK31_HUMAN,B4DIW1_HUMAN,B2ZZ90_HUMAN,A8MYL5_HUMAN	UPI00002263AC	.	deleterious(0.03)	probably_damaging(0.987)	55/56	.	hmmpanther:PTHR18866:SF89,hmmpanther:PTHR18866,Gene3D:3.90.226.10,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATTTGATGTT	.	2	BLCA
ZZEF1	0	.	GRCh37	17	4017635	4017635	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824C>G	p.Ser275Cys	p.S275C	ENST00000381638	4/55	133	96	37	149	149	0	ZZEF1,missense_variant,p.Ser275Cys,ENST00000381638,;snoU13,upstream_gene_variant,,ENST00000459263,;ZZEF1,non_coding_transcript_exon_variant,,ENST00000574474,;	C	ENSG00000074755	ENST00000381638	Transcript	missense_variant	949	824	275	S/C	tCc/tGc	COSM417525	.	.	-1	ZZEF1	HGNC	29027	protein_coding	YES	CCDS11043.1	ENSP00000371051	ZZEF1_HUMAN	.	UPI00004569F7	.	deleterious(0)	probably_damaging(1)	4/55	.	Superfamily_domains:SSF49785,Gene3D:2.60.120.260,Pfam_domain:PF03256,hmmpanther:PTHR22772,hmmpanther:PTHR22772:SF3,PROSITE_profiles:PS51284	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTAGGATGAG	.	5	BLCA
C17orf53	0	.	GRCh37	17	42225570	42225570	+	Silent	SNP	C	C	T	rs370317090	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>T	p.%3D	p.A133A	ENST00000319977	3/10	189	181	8	147	147	0	C17orf53,synonymous_variant,p.%3D,ENST00000319977,;C17orf53,synonymous_variant,p.%3D,ENST00000245382,;C17orf53,synonymous_variant,p.%3D,ENST00000585683,;C17orf53,non_coding_transcript_exon_variant,,ENST00000588434,;	T	ENSG00000125319	ENST00000319977	Transcript	synonymous_variant	636	399	133	A	gcC/gcT	rs370317090,COSM417499	.	.	1	C17orf53	HGNC	28460	protein_coding	YES	CCDS11477.1	ENSP00000313500	CQ053_HUMAN	.	UPI0000073E49	.	.	.	3/10	.	hmmpanther:PTHR14523:SF1,hmmpanther:PTHR14523	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGCCTTACA	.	2	BLCA
GFAP	0	.	GRCh37	17	42985496	42985496	+	3'Flank	SNP	G	G	C	rs267607508	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000586793	.	116	83	32	114	114	0	GFAP,missense_variant,p.Ser398Cys,ENST00000253408,;GFAP,missense_variant,p.Ser20Cys,ENST00000591880,;GFAP,missense_variant,p.Ser55Cys,ENST00000586125,;GFAP,intron_variant,,ENST00000588735,;GFAP,downstream_gene_variant,,ENST00000587997,;FAM187A,downstream_gene_variant,,ENST00000331733,;CCDC103,downstream_gene_variant,,ENST00000417826,;GFAP,downstream_gene_variant,,ENST00000588316,;GFAP,downstream_gene_variant,,ENST00000588957,;GFAP,downstream_gene_variant,,ENST00000592320,;GFAP,downstream_gene_variant,,ENST00000435360,;GFAP,downstream_gene_variant,,ENST00000586793,;FAM187A,downstream_gene_variant,,ENST00000412523,;AC015936.3,upstream_gene_variant,,ENST00000441312,;GFAP,non_coding_transcript_exon_variant,,ENST00000592706,;GFAP,downstream_gene_variant,,ENST00000591719,;GFAP,upstream_gene_variant,,ENST00000592065,;GFAP,downstream_gene_variant,,ENST00000588640,;GFAP,non_coding_transcript_exon_variant,,ENST00000589701,;GFAP,non_coding_transcript_exon_variant,,ENST00000585543,;GFAP,downstream_gene_variant,,ENST00000376990,;GFAP,downstream_gene_variant,,ENST00000590922,;	C	ENSG00000131095	ENST00000586793	Transcript	downstream_gene_variant	.	.	.	.	.	rs267607508,CM0911218,CM083521,HIFD_GFAP:c.1193C>A,COSM417492	.	2221	-1	GFAP	HGNC	4235	protein_coding	YES	CCDS59296.1	ENSP00000468500	GFAP_HUMAN	K7EKD1_HUMAN,K7EJK1_HUMAN,A7REI1_HUMAN	UPI0000680AD5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	not_provided	0,0,0,0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1,1,1,0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACAGACTTG	.	5	BLCA
B4GALNT2	0	.	GRCh37	17	47218697	47218697	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283G>A	p.Ala95Thr	p.A95T	ENST00000300404	2/11	159	123	35	144	144	0	B4GALNT2,missense_variant,p.Ala9Thr,ENST00000504681,;B4GALNT2,missense_variant,p.Ala95Thr,ENST00000300404,;B4GALNT2,missense_variant,p.Ala35Thr,ENST00000393354,;	A	ENSG00000167080	ENST00000300404	Transcript	missense_variant	342	283	95	A/T	Gca/Aca	COSM417471	.	.	1	B4GALNT2	HGNC	24136	protein_coding	YES	CCDS11544.1	ENSP00000300404	B4GN2_HUMAN	Q8IVI2_HUMAN	UPI000013E655	.	tolerated(0.42)	benign(0.01)	2/11	.	hmmpanther:PTHR15046:SF2,hmmpanther:PTHR15046,PIRSF_domain:PIRSF000474	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAAGCAGTG	.	5	BLCA
TP53	0	.	GRCh37	17	7577121	7577121	+	Missense_Mutation	SNP	G	G	A	rs121913343	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.817C>T	p.Arg273Cys	p.R273C	ENST00000269305	8/11	30	21	8	21	21	0	TP53,missense_variant,p.Arg273Cys,ENST00000420246,;TP53,missense_variant,p.Arg273Cys,ENST00000269305,;TP53,missense_variant,p.Arg141Cys,ENST00000509690,;TP53,missense_variant,p.Arg273Cys,ENST00000359597,;TP53,missense_variant,p.Arg273Cys,ENST00000445888,;TP53,missense_variant,p.Arg273Cys,ENST00000455263,;TP53,intron_variant,,ENST00000413465,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000514944,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	A	ENSG00000141510	ENST00000269305	Transcript	missense_variant	1007	817	273	R/C	Cgt/Tgt	CM951233,CM010473,rs121913343,CM010471,TP53_g.13797C>G,TP53_g.13797del,TP53_g.13797C>T,TP53_g.13797C>A,COSM43909,COSM44701,COSM10659,COSM43843,COSM417971,COSM99933,COSM3719990,COSM3355991,COSM3958802,COSM3719992,COSM1645518,COSM3719991,COSM3958801	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(0.998)	8/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	uncertain_significance,pathogenic	0,0,0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R273C|c.817C>T|131,SITE|p.R273C|c.817C>T|571,SITE|p.R273C|c.817C>T|75,SITE|p.R273C|c.817C>T|59,CODON|p.0?|c.1_1182del1182|6,CODON|p.R273L|c.818G>T|98,CODON|p.R273P|c.818G>C|4,CODON|p.R273H|c.818G>A|116,CODON|p.R273H|c.818G>A|64,CODON|p.R273H|c.818G>A|588,CODON|p.R273L|c.818G>T|5,CODON|p.R273H|c.818G>A|83,CODON|p.R273P|c.818G>C|29,CODON|p.R273L|c.818G>T|18,CODON|p.R273L|c.818G>T|12,BUFFER|p.A276D|c.827C>A|9,BUFFER|p.A276G|c.827C>G|4,BUFFER|p.A276D|c.827C>A|3,BUFFER|p.A276V|c.827C>T|7,BUFFER|p.A276P|c.826G>C|3,BUFFER|p.A276T|c.826G>A|7,BUFFER|p.A276S|c.826G>T|9,BUFFER|p.A276P|c.826G>C|16,BUFFER|p.C275C|c.825T>C|4,BUFFER|p.C275W|c.825T>G|8,BUFFER|p.C275*|c.825T>A|3,BUFFER|p.C275F|c.824G>T|10,BUFFER|p.C275S|c.824G>C|4,BUFFER|p.C275Y|c.824G>A|5,BUFFER|p.C275F|c.824G>T|43,BUFFER|p.C275F|c.824G>T|5,BUFFER|p.C275Y|c.824G>A|54,BUFFER|p.C275Y|c.824G>A|5,BUFFER|p.C275Y|c.824G>A|11,BUFFER|p.C275G|c.823T>G|7,BUFFER|p.C275R|c.823T>C|8,BUFFER|p.V274A|c.821T>C|8,BUFFER|p.V274A|c.821T>C|22,BUFFER|p.V274G|c.821T>G|8,BUFFER|p.V274D|c.821T>A|3,BUFFER|p.V274D|c.821T>A|10,BUFFER|p.V274F|c.820G>T|8,BUFFER|p.V274I|c.820G>A|4,BUFFER|p.V274L|c.820G>C|11,BUFFER|p.V274F|c.820G>T|3,BUFFER|p.V274F|c.820G>T|23,BUFFER|p.R273S|c.817C>A|4,BUFFER|p.R273G|c.817C>G|10,BUFFER|p.R273S|c.817C>A|15,BUFFER|p.V272E|c.815T>A|9,BUFFER|p.V272G|c.815T>G|7,BUFFER|p.V272A|c.815T>C|7,BUFFER|p.V272fs*73|c.814delG|3,BUFFER|p.V272L|c.814G>T|24,BUFFER|p.V272L|c.814G>T|4,BUFFER|p.V272M|c.814G>A|11,BUFFER|p.V272M|c.814G>A|84,BUFFER|p.V272M|c.814G>A|6,BUFFER|p.V272M|c.814G>A|22,BUFFER|p.V272L|c.814G>C|4,BUFFER|p.E271V|c.812A>T|8,BUFFER|p.E271G|c.812A>G|3,BUFFER|p.E271Q|c.811G>C|4,BUFFER|p.E271K|c.811G>A|35,BUFFER|p.E271*|c.811G>T|16,BUFFER|p.E271*|c.811G>T|3,BUFFER|p.E271K|c.811G>A|13,BUFFER|p.E271K|c.811G>A|4,BUFFER|p.E271K|c.811G>A|8,BUFFER|p.F270L|c.810T>G|4,BUFFER|p.F270L|c.810T>A|5,BUFFER|p.F270S|c.809T>C|3,BUFFER|p.F270Y|c.809T>A|5,BUFFER|p.F270C|c.809T>G|16,BUFFER|p.F270S|c.809T>C|3,BUFFER|p.F270S|c.809T>C|14,BUFFER|p.F270S|c.809T>C|6,BUFFER|p.F270L|c.808T>C|16,BUFFER|p.F270I|c.808T>A|3,BUFFER|p.F270V|c.808T>G|8,BUFFER|p.F270L|c.808T>C|3,BUFFER|p.F270I|c.808T>A|6,BUFFER|p.S269S|c.807C>T|3,BUFFER|p.S269N|c.806G>A|4	MUTECT|MUSE	AACACGCACCT	byFrequency|byCluster	2	BLCA
RPTOR	0	.	GRCh37	17	78936369	78936369	+	Silent	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3801G>C	p.%3D	p.L1267L	ENST00000306801	32/34	56	45	11	57	57	0	RPTOR,synonymous_variant,p.%3D,ENST00000544334,;RPTOR,synonymous_variant,p.%3D,ENST00000306801,;CTD-2561B21.3,upstream_gene_variant,,ENST00000571591,;CTD-2561B21.5,downstream_gene_variant,,ENST00000576234,;RPTOR,non_coding_transcript_exon_variant,,ENST00000575542,;RPTOR,downstream_gene_variant,,ENST00000573163,;	C	ENSG00000141564	ENST00000306801	Transcript	synonymous_variant	4163	3801	1267	L	ctG/ctC	COSM417930	.	.	1	RPTOR	HGNC	30287	protein_coding	YES	CCDS11773.1	ENSP00000307272	RPTOR_HUMAN	Q6DKI0_HUMAN	UPI000007000F	.	.	.	32/34	.	hmmpanther:PTHR12848,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACCTGATCGC	.	2	BLCA
MYOM1	0	.	GRCh37	18	3090701	3090701	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3964G>C	p.Asp1322His	p.D1322H	ENST00000356443	27/38	95	67	28	99	99	0	MYOM1,missense_variant,p.Asp1322His,ENST00000356443,;MYOM1,missense_variant,p.Asp1322His,ENST00000400569,;MYOM1,missense_variant,p.Asp1226His,ENST00000261606,;RNU7-25P,upstream_gene_variant,,ENST00000516544,;MYOM1,missense_variant,p.Asp22His,ENST00000581075,;	G	ENSG00000101605	ENST00000356443	Transcript	missense_variant	4298	3964	1322	D/H	Gat/Cat	COSM417859	.	.	-1	MYOM1	HGNC	7613	protein_coding	YES	CCDS45824.1	ENSP00000348821	MYOM1_HUMAN	.	UPI000022A657	.	deleterious(0)	probably_damaging(0.992)	27/38	.	hmmpanther:PTHR19900:SF36,hmmpanther:PTHR19900,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATCTTGAA	.	5	BLCA
WIZ	0	.	GRCh37	19	15536463	15536463	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>A	p.Glu400Lys	p.E400K	ENST00000263381	5/8	40	34	6	40	40	0	WIZ,missense_variant,p.Glu571Lys,ENST00000545156,;WIZ,missense_variant,p.Glu400Lys,ENST00000263381,;WIZ,missense_variant,p.Glu441Lys,ENST00000599686,;WIZ,missense_variant,p.Glu1257Lys,ENST00000389282,;WIZ,missense_variant,p.Glu574Lys,ENST00000599910,;WIZ,upstream_gene_variant,,ENST00000600632,;	T	ENSG00000011451	ENST00000263381	Transcript	missense_variant	1412	1198	400	E/K	Gag/Aag	COSM417726,COSM417727,COSM417728	.	.	-1	WIZ	HGNC	30917	protein_coding	YES	CCDS42516.1	ENSP00000263381	WIZ_HUMAN	M0QXF8_HUMAN	UPI000041F888	.	deleterious(0)	probably_damaging(0.998)	5/8	.	hmmpanther:PTHR24402:SF162,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACTCGGTCA	.	2	BLCA
KCNN1	0	.	GRCh37	19	18085055	18085055	+	Missense_Mutation	SNP	G	G	A	rs749207776	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358G>A	p.Val120Ile	p.V120I	ENST00000222249	3/11	41	38	3	36	36	0	KCNN1,missense_variant,p.Val120Ile,ENST00000222249,;KCNN1,downstream_gene_variant,,ENST00000609922,;RNA5SP468,downstream_gene_variant,,ENST00000516782,;	A	ENSG00000105642	ENST00000222249	Transcript	missense_variant	677	358	120	V/I	Gtc/Atc	rs749207776,COSM417698,COSM417697	.	.	1	KCNN1	HGNC	6290	protein_coding	YES	CCDS67611.1	ENSP00000476519	KCNN1_HUMAN	.	UPI00001649F9	.	tolerated(0.08)	benign(0.053)	3/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10153:SF8,hmmpanther:PTHR10153,Pfam_domain:PF03530,Gene3D:1.10.287.70	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V137I|c.409G>A|3,BUFFER|p.V137I|c.409G>A|3	MUTECT|MUSE	TCGTCGTCATG	byFrequency	2	BLCA
SLC39A3	0	.	GRCh37	19	2737188	2737188	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.68C>T	p.Ser23Phe	p.S23F	ENST00000269740	2/3	25	22	3	31	31	0	SLC39A3,missense_variant,p.Ser23Phe,ENST00000269740,;AC006538.4,missense_variant,p.Ser23Phe,ENST00000586572,;SLC39A3,missense_variant,p.Ser23Phe,ENST00000589166,;SLC39A3,missense_variant,p.Ser23Phe,ENST00000589363,;SLC39A3,missense_variant,p.Ser23Phe,ENST00000545664,;SLC39A3,missense_variant,p.Ser23Phe,ENST00000455372,;SLC39A3,downstream_gene_variant,,ENST00000590875,;	A	ENSG00000141873	ENST00000269740	Transcript	missense_variant	398	68	23	S/F	tCc/tTc	COSM418354,COSM418353	.	.	-1	SLC39A3	HGNC	17128	protein_coding	YES	CCDS12093.1	ENSP00000269740	S39A3_HUMAN	K7ENJ1_HUMAN,K7EJZ1_HUMAN	UPI00001B216E	.	deleterious(0.04)	possibly_damaging(0.567)	2/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11040:SF45,hmmpanther:PTHR11040,Pfam_domain:PF02535	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GCAGGGAGCCG	.	2	BLCA
LIPE	0	.	GRCh37	19	42906947	42906947	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2779G>C	p.Glu927Gln	p.E927Q	ENST00000244289	9/10	49	39	10	35	35	0	LIPE,missense_variant,p.Glu200Gln,ENST00000599918,;LIPE,missense_variant,p.Glu157Gln,ENST00000597620,;LIPE,missense_variant,p.Glu927Gln,ENST00000244289,;LIPE-AS1,intron_variant,,ENST00000593491,;LIPE-AS1,intron_variant,,ENST00000597203,;LIPE-AS1,intron_variant,,ENST00000599276,;LIPE-AS1,intron_variant,,ENST00000594624,;LIPE,downstream_gene_variant,,ENST00000602000,;LIPE,non_coding_transcript_exon_variant,,ENST00000600224,;	G	ENSG00000079435	ENST00000244289	Transcript	missense_variant	3056	2779	927	E/Q	Gag/Cag	COSM418212	.	.	-1	LIPE	HGNC	6621	protein_coding	YES	CCDS12607.1	ENSP00000244289	LIPS_HUMAN	M0QXM5_HUMAN,M0QXB1_HUMAN	UPI000013CB66	.	tolerated(0.17)	benign(0.006)	9/10	.	hmmpanther:PTHR23025,hmmpanther:PTHR23025:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCATTTT	.	5	BLCA
ZNF415	0	.	GRCh37	19	53612598	53612598	+	Missense_Mutation	SNP	G	G	A	rs150561707	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700C>T	p.Arg234Cys	p.R234C	ENST00000500065	4/4	102	71	30	106	106	0	ZNF415,missense_variant,p.Arg221Cys,ENST00000440291,;ZNF415,missense_variant,p.Arg282Cys,ENST00000455735,;ZNF415,missense_variant,p.Arg282Cys,ENST00000448501,;ZNF415,missense_variant,p.Arg4Cys,ENST00000601493,;ZNF415,missense_variant,p.Arg234Cys,ENST00000500065,;ZNF415,missense_variant,p.Arg234Cys,ENST00000243643,;ZNF415,missense_variant,p.Arg246Cys,ENST00000421033,;ZNF415,3_prime_UTR_variant,,ENST00000594011,;ZNF415,3_prime_UTR_variant,,ENST00000597503,;ZNF415,3_prime_UTR_variant,,ENST00000595193,;ZNF415,3_prime_UTR_variant,,ENST00000597748,;ZNF415,downstream_gene_variant,,ENST00000595813,;ZNF415,downstream_gene_variant,,ENST00000601215,;ZNF415,downstream_gene_variant,,ENST00000601110,;ZNF415,downstream_gene_variant,,ENST00000599261,;ZNF415,downstream_gene_variant,,ENST00000595174,;ZNF415,downstream_gene_variant,,ENST00000595359,;ZNF415,downstream_gene_variant,,ENST00000602024,;ZNF415,3_prime_UTR_variant,,ENST00000600120,;ZNF415,3_prime_UTR_variant,,ENST00000598578,;	A	ENSG00000170954	ENST00000500065	Transcript	missense_variant	1034	700	234	R/C	Cgt/Tgt	rs150561707,COSM418074	.	.	-1	ZNF415	HGNC	20636	protein_coding	YES	CCDS54313.1	ENSP00000439435	ZN415_HUMAN	.	UPI0000E04BC1	.	deleterious(0)	benign(0.006)	4/4	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,hmmpanther:PTHR24377:SF145,hmmpanther:PTHR24377	A:0.0010	A:0.0038	A:0	.	A:0	A:0	A:0	A:0.0009	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACGTACAG	byFrequency|byCluster|by1000G	5	BLCA
MUC16	0	.	GRCh37	19	9048660	9048660	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.32971C>G	p.Leu10991Val	p.L10991V	ENST00000397910	5/84	73	66	7	99	99	0	MUC16,missense_variant,p.Leu10991Val,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	missense_variant	33175	32971	10991	L/V	Ctg/Gtg	COSM418693,COSM418692	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	benign(0.008)	5/84	.	hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AACCAGAGAGG	.	3	BLCA
UBE2J2	0	.	GRCh37	1	1203256	1203256	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.117G>A	p.%3D	p.S39S	ENST00000400930	2/8	229	214	15	211	211	0	UBE2J2,synonymous_variant,p.%3D,ENST00000502382,;UBE2J2,synonymous_variant,p.%3D,ENST00000488418,;UBE2J2,synonymous_variant,p.%3D,ENST00000422076,;UBE2J2,synonymous_variant,p.%3D,ENST00000349431,;UBE2J2,synonymous_variant,p.%3D,ENST00000400930,;UBE2J2,synonymous_variant,p.%3D,ENST00000360466,;UBE2J2,synonymous_variant,p.%3D,ENST00000435198,;UBE2J2,5_prime_UTR_variant,,ENST00000348298,;UBE2J2,5_prime_UTR_variant,,ENST00000347370,;UBE2J2,intron_variant,,ENST00000509720,;UBE2J2,intron_variant,,ENST00000400929,;UBE2J2,upstream_gene_variant,,ENST00000339385,;UBE2J2,intron_variant,,ENST00000491779,;UBE2J2,synonymous_variant,p.%3D,ENST00000477894,;UBE2J2,synonymous_variant,p.%3D,ENST00000473215,;UBE2J2,synonymous_variant,p.%3D,ENST00000503294,;UBE2J2,synonymous_variant,p.%3D,ENST00000464036,;UBE2J2,synonymous_variant,p.%3D,ENST00000450390,;UBE2J2,synonymous_variant,p.%3D,ENST00000466752,;UBE2J2,non_coding_transcript_exon_variant,,ENST00000461142,;UBE2J2,upstream_gene_variant,,ENST00000471154,;	T	ENSG00000160087	ENST00000400930	Transcript	synonymous_variant	285	117	39	S	tcG/tcA	COSM414142	.	.	-1	UBE2J2	HGNC	19268	protein_coding	YES	CCDS15.1	ENSP00000383719	UB2J2_HUMAN	D6REN4_HUMAN,D6RD90_HUMAN,D6R9H0_HUMAN,B1AMF1_HUMAN,A6NGS0_HUMAN	UPI00001D69F8	.	.	.	2/8	.	PROSITE_profiles:PS50127,hmmpanther:PTHR24067:SF42,hmmpanther:PTHR24067,Gene3D:3.10.110.10,Pfam_domain:PF00179,SMART_domains:SM00212,Superfamily_domains:SSF54495	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATATTCGAAGG	.	2	BLCA
PDE4DIP	0	.	GRCh37	1	144930642	144930642	+	Intron	SNP	G	G	C	rs781827686	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.637-6821C>G	.	.	ENST00000369356	.	125	120	5	118	118	0	PDE4DIP,stop_gained,p.Ser356Ter,ENST00000313431,;PDE4DIP,stop_gained,p.Ser356Ter,ENST00000529945,;PDE4DIP,intron_variant,,ENST00000479408,;PDE4DIP,intron_variant,,ENST00000369354,;PDE4DIP,intron_variant,,ENST00000532801,;PDE4DIP,intron_variant,,ENST00000369349,;PDE4DIP,intron_variant,,ENST00000369359,;PDE4DIP,intron_variant,,ENST00000530740,;PDE4DIP,intron_variant,,ENST00000313382,;PDE4DIP,intron_variant,,ENST00000369356,;PDE4DIP,intron_variant,,ENST00000369351,;	C	ENSG00000178104	ENST00000369356	Transcript	intron_variant	.	.	.	.	.	rs781827686	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	.	.	.	5/43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCTGAAAGC	.	2	BLCA
HCN3	0	.	GRCh37	1	155252454	155252454	+	Silent	SNP	C	C	T	rs767345999	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>T	p.%3D	p.L177L	ENST00000368358	2/8	87	74	13	51	51	0	HCN3,synonymous_variant,p.%3D,ENST00000368358,;CLK2,upstream_gene_variant,,ENST00000536801,;HCN3,non_coding_transcript_exon_variant,,ENST00000496230,;HCN3,non_coding_transcript_exon_variant,,ENST00000467204,;CLK2,upstream_gene_variant,,ENST00000471047,;	T	ENSG00000143630	ENST00000368358	Transcript	synonymous_variant	539	531	177	L	ctC/ctT	rs767345999,COSM414004,COSM344840	.	.	1	HCN3	HGNC	19183	protein_coding	YES	CCDS1108.1	ENSP00000357342	HCN3_HUMAN	.	UPI00000559A6	.	.	.	2/8	.	hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF374,Gene3D:1.10.287.70,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCATCTC	.	5	BLCA
RUSC1	0	.	GRCh37	1	155292388	155292388	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824C>G	p.Ser275Cys	p.S275C	ENST00000368352	2/10	156	148	8	175	175	0	RUSC1,missense_variant,p.Ser275Cys,ENST00000368352,;RUSC1,missense_variant,p.Ser275Cys,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000292254,;FDPS,downstream_gene_variant,,ENST00000356657,;RUSC1,upstream_gene_variant,,ENST00000368347,;FDPS,downstream_gene_variant,,ENST00000447866,;RUSC1,upstream_gene_variant,,ENST00000368349,;FDPS,downstream_gene_variant,,ENST00000368356,;RUSC1-AS1,intron_variant,,ENST00000450199,;RUSC1-AS1,intron_variant,,ENST00000443642,;RUSC1-AS1,upstream_gene_variant,,ENST00000543656,;RUSC1-AS1,upstream_gene_variant,,ENST00000446880,;FDPS,downstream_gene_variant,,ENST00000470171,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,downstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000471876,;RUSC1,upstream_gene_variant,,ENST00000479924,;RUSC1,upstream_gene_variant,,ENST00000467820,;RUSC1,upstream_gene_variant,,ENST00000489860,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000492244,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000468764,;RUSC1,upstream_gene_variant,,ENST00000484664,;RUSC1,upstream_gene_variant,,ENST00000462780,;FDPS,downstream_gene_variant,,ENST00000489324,;RUSC1,upstream_gene_variant,,ENST00000485924,;FDPS,downstream_gene_variant,,ENST00000467076,;RUSC1,upstream_gene_variant,,ENST00000490373,;FDPS,downstream_gene_variant,,ENST00000489003,;FDPS,downstream_gene_variant,,ENST00000495308,;RUSC1,upstream_gene_variant,,ENST00000473331,;FDPS,downstream_gene_variant,,ENST00000468479,;FDPS,downstream_gene_variant,,ENST00000465559,;RUSC1,upstream_gene_variant,,ENST00000492536,;FDPS,downstream_gene_variant,,ENST00000477057,;FDPS,downstream_gene_variant,,ENST00000491013,;FDPS,downstream_gene_variant,,ENST00000492887,;	G	ENSG00000160753	ENST00000368352	Transcript	missense_variant	975	824	275	S/C	tCt/tGt	COSM414002	.	.	1	RUSC1	HGNC	17153	protein_coding	YES	CCDS41410.1	ENSP00000357336	RUSC1_HUMAN	Q68CX2_HUMAN	UPI000046FDA5	.	deleterious_low_confidence(0)	possibly_damaging(0.503)	2/10	.	hmmpanther:PTHR15591	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGACTCTGGTT	.	2	BLCA
ATP1A4	0	.	GRCh37	1	160156121	160156121	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3025G>A	p.Glu1009Lys	p.E1009K	ENST00000368081	21/22	279	223	56	261	261	0	ATP1A4,missense_variant,p.Glu145Lys,ENST00000470705,;ATP1A4,missense_variant,p.Glu1009Lys,ENST00000368081,;CASQ1,upstream_gene_variant,,ENST00000368079,;CASQ1,upstream_gene_variant,,ENST00000368078,;ATP1A4,downstream_gene_variant,,ENST00000418334,;ATP1A4,downstream_gene_variant,,ENST00000466526,;ATP1A4,3_prime_UTR_variant,,ENST00000477338,;ATP1A4,non_coding_transcript_exon_variant,,ENST00000469023,;	A	ENSG00000132681	ENST00000368081	Transcript	missense_variant	3496	3025	1009	E/K	Gaa/Aaa	COSM414389	.	.	1	ATP1A4	HGNC	14073	protein_coding	YES	CCDS1197.1	ENSP00000357060	AT1A4_HUMAN	Q13818_HUMAN	UPI0000124FC5	.	deleterious(0)	possibly_damaging(0.785)	21/22	.	hmmpanther:PTHR24093:SF233,hmmpanther:PTHR24093,TIGRFAM_domain:TIGR01106,Gene3D:1.20.1110.10,Pfam_domain:PF00689,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGATGAAATC	.	4	BLCA
MYOC	0	.	GRCh37	1	171621749	171621749	+	Translation_Start_Site	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000037502	1/3	27	19	7	25	25	0	MYOC,start_lost,p.Met1?,ENST00000037502,;	T	ENSG00000034971	ENST00000037502	Transcript	start_lost	75	3	1	M/I	atG/atA	COSM414326	.	.	-1	MYOC	HGNC	7610	protein_coding	YES	CCDS1297.1	ENSP00000037502	MYOC_HUMAN	B4DV60_HUMAN	UPI00000012D6	.	deleterious_low_confidence(0)	benign(0)	1/3	.	Cleavage_site_(Signalp):SignalP-noTM,PROSITE_profiles:PS51257,hmmpanther:PTHR23192,hmmpanther:PTHR23192:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCATTGC	.	5	BLCA
ATP13A2	0	.	GRCh37	1	17316492	17316492	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2419G>C	p.Asp807His	p.D807H	ENST00000326735	22/29	24	17	7	12	12	0	ATP13A2,missense_variant,p.Asp3His,ENST00000502418,;ATP13A2,missense_variant,p.Asp802His,ENST00000452699,;ATP13A2,missense_variant,p.Asp807His,ENST00000326735,;ATP13A2,intron_variant,,ENST00000341676,;ATP13A2,downstream_gene_variant,,ENST00000503552,;RP1-37C10.3,intron_variant,,ENST00000446261,;ATP13A2,non_coding_transcript_exon_variant,,ENST00000466561,;	G	ENSG00000159363	ENST00000326735	Transcript	missense_variant	2453	2419	807	D/H	Gac/Cac	COSM414320	.	.	-1	ATP13A2	HGNC	30213	protein_coding	YES	CCDS175.1	ENSP00000327214	AT132_HUMAN	Q8N4D4_HUMAN	UPI0000049724	.	tolerated(0.58)	possibly_damaging(0.617)	22/29	.	hmmpanther:PTHR24093:SF86,hmmpanther:PTHR24093,Pfam_domain:PF12710,TIGRFAM_domain:TIGR01657	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCAGGAT	.	5	BLCA
PLEKHA6	0	.	GRCh37	1	204228731	204228731	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662G>C	p.Arg221Thr	p.R221T	ENST00000272203	8/23	78	62	15	80	80	0	PLEKHA6,missense_variant,p.Arg241Thr,ENST00000414478,;PLEKHA6,missense_variant,p.Arg221Thr,ENST00000272203,;PLEKHA6,downstream_gene_variant,,ENST00000485632,;	G	ENSG00000143850	ENST00000272203	Transcript	missense_variant	979	662	221	R/T	aGa/aCa	COSM414683	.	.	-1	PLEKHA6	HGNC	17053	protein_coding	YES	CCDS1444.1	ENSP00000272203	PKHA6_HUMAN	.	UPI000013D935	.	deleterious(0.03)	benign(0.06)	8/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12752:SF5,hmmpanther:PTHR12752	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E224Q|c.670G>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCTCTCT	.	5	BLCA
RYR2	0	.	GRCh37	1	237881784	237881784	+	Missense_Mutation	SNP	G	G	A	rs748805290	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10517G>A	p.Arg3506Gln	p.R3506Q	ENST00000366574	73/105	28	19	9	29	29	0	RYR2,missense_variant,p.Arg3490Gln,ENST00000542537,;RYR2,missense_variant,p.Arg3506Gln,ENST00000366574,;RYR2,missense_variant,p.Arg3504Gln,ENST00000360064,;RYR2,non_coding_transcript_exon_variant,,ENST00000609119,;RYR2,upstream_gene_variant,,ENST00000609253,;	A	ENSG00000198626	ENST00000366574	Transcript	missense_variant	10834	10517	3506	R/Q	cGa/cAa	rs748805290,COSM414553	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	possibly_damaging(0.722)	73/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTACGAGATA	byFrequency	5	BLCA
HNRNPU	0	.	GRCh37	1	245017797	245017797	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2433G>C	p.Trp811Cys	p.W811C	ENST00000283179	14/14	54	41	12	84	84	0	HNRNPU,missense_variant,p.Trp811Cys,ENST00000283179,;HNRNPU,missense_variant,p.Trp792Cys,ENST00000444376,;HNRNPU,downstream_gene_variant,,ENST00000440865,;HNRNPU-AS1,non_coding_transcript_exon_variant,,ENST00000489705,;HNRNPU-AS1,intron_variant,,ENST00000475997,;HNRNPU,non_coding_transcript_exon_variant,,ENST00000366525,;HNRNPU,downstream_gene_variant,,ENST00000465881,;HNRNPU,downstream_gene_variant,,ENST00000483966,;HNRNPU,downstream_gene_variant,,ENST00000468690,;	G	ENSG00000153187	ENST00000283179	Transcript	missense_variant	2597	2433	811	W/C	tgG/tgC	COSM414535,COSM414534	.	.	-1	HNRNPU	HGNC	5048	protein_coding	YES	CCDS41479.1	ENSP00000283179	HNRPU_HUMAN	Q9UEL2_HUMAN,Q96BA7_HUMAN,Q7Z4Q5_HUMAN	UPI000040E1C8	.	tolerated(0.05)	unknown(0)	14/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12381:SF11,hmmpanther:PTHR12381	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACCCCAGAA	.	5	BLCA
KIF26B	0	.	GRCh37	1	245809541	245809541	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2217C>T	p.%3D	p.V739V	ENST00000407071	10/15	37	31	6	26	26	0	KIF26B,synonymous_variant,p.%3D,ENST00000407071,;KIF26B,synonymous_variant,p.%3D,ENST00000366518,;KIF26B,non_coding_transcript_exon_variant,,ENST00000483253,;	T	ENSG00000162849	ENST00000407071	Transcript	synonymous_variant	2657	2217	739	V	gtC/gtT	COSM414532,COSM414533	.	.	1	KIF26B	HGNC	25484	protein_coding	YES	CCDS44342.1	ENSP00000385545	KI26B_HUMAN	B4DF75_HUMAN	UPI0000695D71	.	.	.	10/15	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF363,hmmpanther:PTHR24115,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATGTCATCCT	.	4	BLCA
LRRC47	0	.	GRCh37	1	3703763	3703763	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.727G>T	p.Glu243Ter	p.E243*	ENST00000378251	2/7	65	47	18	58	58	0	LRRC47,stop_gained,p.Glu243Ter,ENST00000378251,;RP1-286D6.5,downstream_gene_variant,,ENST00000607459,;RN7SL574P,downstream_gene_variant,,ENST00000581512,;LRRC47,upstream_gene_variant,,ENST00000479239,;LRRC47,upstream_gene_variant,,ENST00000462356,;	A	ENSG00000130764	ENST00000378251	Transcript	stop_gained	755	727	243	E/*	Gag/Tag	COSM414454	.	.	-1	LRRC47	HGNC	29207	protein_coding	YES	CCDS51.1	ENSP00000367498	LRC47_HUMAN	.	UPI000006DEDC	.	.	.	2/7	.	PROSITE_profiles:PS51450,hmmpanther:PTHR10947:SF2,hmmpanther:PTHR10947,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCAGGC	.	5	BLCA
CTPS1	0	.	GRCh37	1	41448943	41448943	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-13-7C>T	.	.	ENST00000372621	.	41	35	6	56	56	0	CTPS1,splice_region_variant,,ENST00000543104,;CTPS1,splice_region_variant,,ENST00000372621,;CTPS1,5_prime_UTR_variant,,ENST00000372616,;CTPS1,intron_variant,,ENST00000541520,;CTPS1,splice_region_variant,,ENST00000475060,;CTPS1,splice_region_variant,,ENST00000470271,;CTPS1,splice_region_variant,,ENST00000479480,;	T	ENSG00000171793	ENST00000372621	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CTPS1	HGNC	2519	protein_coding	YES	CCDS459.1	ENSP00000361704	PYRG1_HUMAN	B4E1E0_HUMAN,B4DR64_HUMAN	UPI0000132D63	.	.	.	.	1/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTTCTTCCA	.	2	BLCA
LRRC41	0	.	GRCh37	1	46763283	46763283	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309G>A	p.Trp103Ter	p.W103*	ENST00000343304	3/10	56	44	11	73	73	0	LRRC41,stop_gained,p.Trp103Ter,ENST00000343304,;LRRC41,non_coding_transcript_exon_variant,,ENST00000469150,;LRRC41,non_coding_transcript_exon_variant,,ENST00000498402,;LRRC41,non_coding_transcript_exon_variant,,ENST00000472710,;	T	ENSG00000132128	ENST00000343304	Transcript	stop_gained	595	309	103	W/*	tgG/tgA	COSM414882	.	.	-1	LRRC41	HGNC	16917	protein_coding	YES	CCDS533.1	ENSP00000343298	LRC41_HUMAN	.	UPI0000225CC7	.	.	.	3/10	.	hmmpanther:PTHR15354:SF1,hmmpanther:PTHR15354	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCGCCAGAT	.	5	BLCA
SLC5A9	0	.	GRCh37	1	48697274	48697274	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743G>A	p.Gly248Glu	p.G248E	ENST00000236495	7/15	35	26	8	31	31	0	SLC5A9,missense_variant,p.Gly244Glu,ENST00000533824,;SLC5A9,missense_variant,p.Gly223Glu,ENST00000438567,;SLC5A9,missense_variant,p.Gly248Glu,ENST00000236495,;SLC5A9,3_prime_UTR_variant,,ENST00000420136,;RP5-1024N4.4,upstream_gene_variant,,ENST00000606809,;SLC5A9,missense_variant,p.Gly223Glu,ENST00000425816,;SLC5A9,3_prime_UTR_variant,,ENST00000441260,;SLC5A9,non_coding_transcript_exon_variant,,ENST00000493837,;SLC5A9,downstream_gene_variant,,ENST00000527929,;	A	ENSG00000117834	ENST00000236495	Transcript	missense_variant	793	743	248	G/E	gGa/gAa	COSM414876	.	.	1	SLC5A9	HGNC	22146	protein_coding	YES	CCDS44136.1	ENSP00000236495	SC5A9_HUMAN	.	UPI0000251D94	.	deleterious(0)	probably_damaging(1)	7/15	.	Transmembrane_helices:TMhelix,Pfam_domain:PF00474,TIGRFAM_domain:TIGR00813,hmmpanther:PTHR11819,hmmpanther:PTHR11819:SF96,PROSITE_profiles:PS50283	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGGGAGCCC	.	5	BLCA
ALG6	0	.	GRCh37	1	63902557	63902557	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1390C>G	p.Gln464Glu	p.Q464E	ENST00000371108	15/15	179	145	34	192	190	2	ALG6,missense_variant,p.Gln466Glu,ENST00000263440,;ALG6,missense_variant,p.Gln464Glu,ENST00000371108,;ITGB3BP,downstream_gene_variant,,ENST00000371092,;ITGB3BP,downstream_gene_variant,,ENST00000271002,;ALG6,non_coding_transcript_exon_variant,,ENST00000494765,;ITGB3BP,downstream_gene_variant,,ENST00000492655,;ITGB3BP,downstream_gene_variant,,ENST00000461681,;ALG6,3_prime_UTR_variant,,ENST00000603108,;ITGB3BP,downstream_gene_variant,,ENST00000489099,;	G	ENSG00000088035	ENST00000371108	Transcript	missense_variant	1695	1390	464	Q/E	Cag/Gag	COSM414822	.	.	1	ALG6	HGNC	23157	protein_coding	YES	CCDS30735.1	ENSP00000360149	ALG6_HUMAN	.	UPI00001E057D	.	tolerated(1)	benign(0.001)	15/15	.	hmmpanther:PTHR12413:SF1,hmmpanther:PTHR12413,Pfam_domain:PF03155	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CTCCTCAGAAA	.	3	BLCA
PGM1	0	.	GRCh37	1	64089033	64089033	+	5'UTR	SNP	C	C	A	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-99C>A	.	.	ENST00000371083	1/11	34	31	3	40	40	0	PGM1,5_prime_UTR_variant,,ENST00000371083,;PGM1,intron_variant,,ENST00000371084,;PGM1,intron_variant,,ENST00000540265,;	A	ENSG00000079739	ENST00000371083	Transcript	5_prime_UTR_variant	270	.	.	.	.	.	.	.	1	PGM1	HGNC	8905	protein_coding	YES	CCDS53323.1	ENSP00000360124	PGM1_HUMAN	.	UPI000016A812	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTACTCATACG	.	2	BLCA
LPHN2	0	.	GRCh37	1	82451025	82451025	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3443C>G	p.Ser1148Ter	p.S1148*	ENST00000319517	19/20	17	13	4	63	63	0	LPHN2,stop_gained,p.Ser1161Ter,ENST00000370730,;LPHN2,stop_gained,p.Ser1161Ter,ENST00000335786,;LPHN2,stop_gained,p.Ser1176Ter,ENST00000370717,;LPHN2,stop_gained,p.Ser1176Ter,ENST00000370727,;LPHN2,stop_gained,p.Ser1176Ter,ENST00000370725,;LPHN2,stop_gained,p.Ser1148Ter,ENST00000319517,;LPHN2,stop_gained,p.Ser1176Ter,ENST00000271029,;LPHN2,stop_gained,p.Ser1161Ter,ENST00000370728,;LPHN2,stop_gained,p.Ser1148Ter,ENST00000359929,;LPHN2,stop_gained,p.Ser1148Ter,ENST00000370715,;LPHN2,stop_gained,p.Ser1163Ter,ENST00000370723,;LPHN2,stop_gained,p.Ser167Ter,ENST00000402328,;LPHN2,stop_gained,p.Ser1086Ter,ENST00000370721,;LPHN2,stop_gained,p.Ser1163Ter,ENST00000394879,;LPHN2,stop_gained,p.Ser1053Ter,ENST00000449420,;LPHN2,intron_variant,,ENST00000370713,;LPHN2,non_coding_transcript_exon_variant,,ENST00000472424,;LPHN2,non_coding_transcript_exon_variant,,ENST00000498776,;LPHN2,non_coding_transcript_exon_variant,,ENST00000464775,;LPHN2,intron_variant,,ENST00000469377,;LPHN2,upstream_gene_variant,,ENST00000464551,;	G	ENSG00000117114	ENST00000319517	Transcript	stop_gained	3659	3443	1148	S/*	tCa/tGa	COSM414776,COSM414777	.	.	1	LPHN2	HGNC	18582	protein_coding	YES	CCDS689.1	ENSP00000322270	LPHN2_HUMAN	.	UPI000005046B	.	.	.	19/20	.	hmmpanther:PTHR12011:SF61,hmmpanther:PTHR12011,Pfam_domain:PF02354	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACTTCAACAC	.	2	BLCA
COL24A1	0	.	GRCh37	1	86252137	86252137	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3959G>C	p.Arg1320Thr	p.R1320T	ENST00000370571	48/60	47	36	11	59	59	0	COL24A1,missense_variant,p.Arg1320Thr,ENST00000436319,;COL24A1,missense_variant,p.Arg1320Thr,ENST00000370571,;COL24A1,3_prime_UTR_variant,,ENST00000426639,;	G	ENSG00000171502	ENST00000370571	Transcript	missense_variant	4326	3959	1320	R/T	aGa/aCa	COSM414759	.	.	-1	COL24A1	HGNC	20821	protein_coding	YES	CCDS41353.1	ENSP00000359603	COOA1_HUMAN	E9PNK8_HUMAN	UPI000013E81F	.	tolerated(0.17)	benign(0.007)	48/60	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF360	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCTCTGATG	.	2	BLCA
GCLM	0	.	GRCh37	1	94354444	94354444	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*102G>C	.	.	ENST00000370238	7/7	22	18	4	32	32	0	GCLM,3_prime_UTR_variant,,ENST00000370238,;	G	ENSG00000023909	ENST00000370238	Transcript	3_prime_UTR_variant	1174	.	.	.	.	.	.	.	-1	GCLM	HGNC	4312	protein_coding	YES	CCDS746.1	ENSP00000359258	GSH0_HUMAN	M5A959_HUMAN,D3DT44_HUMAN	UPI000000D9B9	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATATCTGCCT	.	4	BLCA
SPTLC3	0	.	GRCh37	20	13098330	13098330	+	Silent	SNP	C	C	T	rs373903172	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1110C>T	p.%3D	p.T370T	ENST00000399002	8/12	100	87	13	89	89	0	SPTLC3,synonymous_variant,p.%3D,ENST00000399002,;SPTLC3,intron_variant,,ENST00000378194,;	T	ENSG00000172296	ENST00000399002	Transcript	synonymous_variant	1384	1110	370	T	acC/acT	rs373903172,COSM419049	.	.	1	SPTLC3	HGNC	16253	protein_coding	YES	CCDS13115.2	ENSP00000381968	SPTC3_HUMAN	Q8N2H1_HUMAN,B1AKS2_HUMAN	UPI0000D6BFB5	.	.	.	8/12	.	hmmpanther:PTHR13693:SF56,hmmpanther:PTHR13693,PROSITE_patterns:PS00599,Pfam_domain:PF00155,Gene3D:3.40.640.10,Superfamily_domains:SSF53383	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCACCAAAAG	byCluster	4	BLCA
CRNKL1	0	.	GRCh37	20	20024216	20024216	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1375G>C	p.Glu459Gln	p.E459Q	ENST00000377340	8/15	114	109	5	123	123	0	CRNKL1,missense_variant,p.Glu459Gln,ENST00000377340,;CRNKL1,missense_variant,p.Glu447Gln,ENST00000377327,;CRNKL1,missense_variant,p.Glu298Gln,ENST00000536226,;CRNKL1,3_prime_UTR_variant,,ENST00000496549,;CRNKL1,3_prime_UTR_variant,,ENST00000490910,;CRNKL1,upstream_gene_variant,,ENST00000490258,;	G	ENSG00000101343	ENST00000377340	Transcript	missense_variant	1407	1375	459	E/Q	Gag/Cag	COSM419033	.	.	-1	CRNKL1	HGNC	15762	protein_coding	YES	CCDS33446.1	ENSP00000366557	CRNL1_HUMAN	.	UPI00004A39A7	.	tolerated(0.08)	possibly_damaging(0.463)	8/15	.	Superfamily_domains:SSF48452,SMART_domains:SM00386,hmmpanther:PTHR11246,hmmpanther:PTHR11246:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCTCAAAGA	.	2	BLCA
SCAF4	0	.	GRCh37	21	33076226	33076226	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173A>T	p.Tyr58Phe	p.Y58F	ENST00000286835	4/20	50	47	3	70	70	0	SCAF4,missense_variant,p.Tyr58Phe,ENST00000399804,;SCAF4,missense_variant,p.Tyr58Phe,ENST00000286835,;SCAF4,missense_variant,p.Tyr43Phe,ENST00000434667,;SCAF4,non_coding_transcript_exon_variant,,ENST00000485790,;SCAF4,upstream_gene_variant,,ENST00000467731,;HMGN1P2,upstream_gene_variant,,ENST00000445197,;	A	ENSG00000156304	ENST00000286835	Transcript	missense_variant	556	173	58	Y/F	tAc/tTc	COSM419260	.	.	-1	SCAF4	HGNC	19304	protein_coding	YES	CCDS33537.1	ENSP00000286835	SFR15_HUMAN	Q0P607_HUMAN	UPI0000206D66	.	.	possibly_damaging(0.67)	4/20	.	Superfamily_domains:SSF48464,SMART_domains:SM00582,Gene3D:1.25.40.90,hmmpanther:PTHR14124,hmmpanther:PTHR14124:SF2,PROSITE_profiles:PS51391	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTGTATTCT	.	2	BLCA
RASL10A	0	.	GRCh37	22	29709773	29709773	+	Intron	SNP	G	G	A	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.344+79C>T	.	.	ENST00000216101	.	30	23	7	25	25	0	RASL10A,3_prime_UTR_variant,,ENST00000401450,;RASL10A,intron_variant,,ENST00000216101,;GAS2L1,downstream_gene_variant,,ENST00000341313,;GAS2L1,downstream_gene_variant,,ENST00000403764,;GAS2L1,downstream_gene_variant,,ENST00000407854,;GAS2L1,downstream_gene_variant,,ENST00000471961,;GAS2L1,downstream_gene_variant,,ENST00000360113,;GAS2L1,downstream_gene_variant,,ENST00000407647,;GAS2L1,downstream_gene_variant,,ENST00000406549,;AC002059.10,downstream_gene_variant,,ENST00000608014,;RASL10A,non_coding_transcript_exon_variant,,ENST00000474590,;RASL10A,intron_variant,,ENST00000608559,;GAS2L1,downstream_gene_variant,,ENST00000491016,;	A	ENSG00000100276	ENST00000216101	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RASL10A	HGNC	16954	protein_coding	YES	CCDS13854.1	ENSP00000216101	RSLAA_HUMAN	.	UPI00001348FD	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGGAGACCCT	.	3	BLCA
THSD7B	0	.	GRCh37	2	137928329	137928329	+	Missense_Mutation	SNP	G	G	A	rs758633146	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1544G>A	p.Arg515His	p.R515H	ENST00000272643	6/28	42	32	9	46	44	2	THSD7B,missense_variant,p.Arg515His,ENST00000409968,;THSD7B,missense_variant,p.Arg484His,ENST00000413152,;THSD7B,missense_variant,p.Arg515His,ENST00000272643,;THSD7B,intron_variant,,ENST00000543459,;THSD7B,non_coding_transcript_exon_variant,,ENST00000485379,;	A	ENSG00000144229	ENST00000272643	Transcript	missense_variant	1544	1544	515	R/H	cGc/cAc	rs758633146	.	.	1	THSD7B	HGNC	29348	protein_coding	YES	.	ENSP00000272643	THS7B_HUMAN	.	UPI00015E0A18	.	deleterious(0)	possibly_damaging(0.715)	6/28	.	PROSITE_profiles:PS50092,hmmpanther:PTHR11311:SF7,hmmpanther:PTHR11311,Gene3D:2.20.100.10,SMART_domains:SM00209	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GCAGCGCCATG	.	2	BLCA
NFE2L2	0	.	GRCh37	2	178098954	178098954	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91G>A	p.Gly31Arg	p.G31R	ENST00000397062	2/5	48	37	11	46	46	0	NFE2L2,missense_variant,p.Gly15Arg,ENST00000449627,;NFE2L2,missense_variant,p.Gly15Arg,ENST00000423513,;NFE2L2,missense_variant,p.Gly31Arg,ENST00000397062,;NFE2L2,missense_variant,p.Gly15Arg,ENST00000446151,;NFE2L2,missense_variant,p.Gly15Arg,ENST00000588123,;NFE2L2,missense_variant,p.Gly30Arg,ENST00000586532,;NFE2L2,missense_variant,p.Gly15Arg,ENST00000421929,;NFE2L2,missense_variant,p.Gly15Arg,ENST00000464747,;NFE2L2,missense_variant,p.Gly15Arg,ENST00000448782,;NFE2L2,missense_variant,p.Gly15Arg,ENST00000397063,;NFE2L2,intron_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	T	ENSG00000116044	ENST00000397062	Transcript	missense_variant	646	91	31	G/R	Gga/Aga	COSM88002,COSM1162604	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	deleterious(0)	probably_damaging(0.972)	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.G31E|c.92G>A|5,CODON|p.G31A|c.92G>C|7,BUFFER|p.R34P|c.101G>C|3,BUFFER|p.R34Q|c.101G>A|11,BUFFER|p.R34G|c.100C>G|11,BUFFER|p.L30R|c.89T>G|7,BUFFER|p.L30F|c.88C>T|6,BUFFER|p.D29G|c.86A>G|11,BUFFER|p.D29H|c.85G>C|12,BUFFER|p.D29N|c.85G>A|3,BUFFER|p.D29Y|c.85G>T|4,BUFFER|p.D27G|c.80A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTCCAAGAT	.	5	BLCA
AOX1	0	.	GRCh37	2	201515748	201515748	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2899G>A	p.Glu967Lys	p.E967K	ENST00000374700	26/35	99	85	14	104	103	1	AOX1,missense_variant,p.Glu967Lys,ENST00000374700,;AOX1,non_coding_transcript_exon_variant,,ENST00000485106,;AOX1,non_coding_transcript_exon_variant,,ENST00000465297,;	A	ENSG00000138356	ENST00000374700	Transcript	missense_variant	3140	2899	967	E/K	Gag/Aag	COSM418919	.	.	1	AOX1	HGNC	553	protein_coding	YES	CCDS33360.1	ENSP00000363832	ADO_HUMAN	C9J244_HUMAN,B4DNI5_HUMAN	UPI0000071863	.	tolerated(0.86)	benign(0.277)	26/35	.	hmmpanther:PTHR11908,Pfam_domain:PF02738,Gene3D:3.30.365.10,TIGRFAM_domain:TIGR02969,PIRSF_domain:PIRSF000127,Superfamily_domains:SSF56003	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAAGAGATC	.	5	BLCA
EIF2AK3	0	.	GRCh37	2	88888374	88888374	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1211C>T	p.Ser404Leu	p.S404L	ENST00000303236	7/17	112	84	28	116	116	0	EIF2AK3,missense_variant,p.Ser253Leu,ENST00000419748,;EIF2AK3,missense_variant,p.Ser404Leu,ENST00000303236,;EIF2AK3,missense_variant,p.Ser283Leu,ENST00000415570,;EIF2AK3,downstream_gene_variant,,ENST00000477083,;	A	ENSG00000172071	ENST00000303236	Transcript	missense_variant	1513	1211	404	S/L	tCa/tTa	COSM419072	.	.	-1	EIF2AK3	HGNC	3255	protein_coding	YES	CCDS33241.1	ENSP00000307235	E2AK3_HUMAN	E7ER02_HUMAN	UPI000013E87D	.	tolerated(0.12)	benign(0.05)	7/17	.	hmmpanther:PTHR11042,hmmpanther:PTHR11042:SF38	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAAATT	.	5	BLCA
ALCAM	0	.	GRCh37	3	105243325	105243325	+	Missense_Mutation	SNP	G	G	A	rs748382272	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>A	p.Glu123Lys	p.E123K	ENST00000306107	3/16	91	69	22	99	99	0	ALCAM,missense_variant,p.Glu72Lys,ENST00000486979,;ALCAM,missense_variant,p.Glu123Lys,ENST00000306107,;ALCAM,missense_variant,p.Glu123Lys,ENST00000472644,;ALCAM,non_coding_transcript_exon_variant,,ENST00000481337,;ALCAM,non_coding_transcript_exon_variant,,ENST00000470756,;	A	ENSG00000170017	ENST00000306107	Transcript	missense_variant	867	367	123	E/K	Gag/Aag	rs748382272,COSM419470	.	.	1	ALCAM	HGNC	400	protein_coding	YES	CCDS33810.1	ENSP00000305988	CD166_HUMAN	F5GXJ9_HUMAN	UPI0000209ECA	.	deleterious(0)	probably_damaging(0.995)	3/16	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07686,hmmpanther:PTHR11973,hmmpanther:PTHR11973:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGAGGCA	.	5	BLCA
MAATS1	0	.	GRCh37	3	119451310	119451310	+	Silent	SNP	C	C	G	rs770759408	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1188C>G	p.%3D	p.L396L	ENST00000273390	9/18	31	22	9	27	27	0	MAATS1,synonymous_variant,p.%3D,ENST00000273390,;MAATS1,3_prime_UTR_variant,,ENST00000482927,;MAATS1,3_prime_UTR_variant,,ENST00000482573,;MAATS1,3_prime_UTR_variant,,ENST00000475093,;MAATS1,non_coding_transcript_exon_variant,,ENST00000468630,;MAATS1,non_coding_transcript_exon_variant,,ENST00000483134,;MAATS1,upstream_gene_variant,,ENST00000461322,;	G	ENSG00000183833	ENST00000273390	Transcript	synonymous_variant	1265	1188	396	L	ctC/ctG	rs770759408,COSM419911	.	.	1	MAATS1	HGNC	24010	protein_coding	YES	CCDS2994.1	ENSP00000273390	MAAT1_HUMAN	.	UPI00001C1DFE	.	.	.	9/18	.	hmmpanther:PTHR22455:SF10,hmmpanther:PTHR22455	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATCTCAACAC	.	2	BLCA
GK5	0	.	GRCh37	3	141889249	141889249	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1359C>T	p.%3D	p.D453D	ENST00000392993	15/16	69	65	4	78	78	0	GK5,synonymous_variant,p.%3D,ENST00000392993,;GK5,synonymous_variant,p.%3D,ENST00000486459,;GK5,3_prime_UTR_variant,,ENST00000480757,;GK5,3_prime_UTR_variant,,ENST00000492097,;GK5,3_prime_UTR_variant,,ENST00000463349,;GK5,non_coding_transcript_exon_variant,,ENST00000460515,;	A	ENSG00000175066	ENST00000392993	Transcript	synonymous_variant	1511	1359	453	D	gaC/gaT	COSM419789	.	.	-1	GK5	HGNC	28635	protein_coding	YES	CCDS33871.1	ENSP00000418001	GLPK5_HUMAN	.	UPI000069B0CB	.	.	.	15/16	.	hmmpanther:PTHR10196:SF54,hmmpanther:PTHR10196,Gene3D:3.30.420.40,Pfam_domain:PF02782,PIRSF_domain:PIRSF000538,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCAGGTCTGA	.	2	BLCA
MBNL1	0	.	GRCh37	3	152018007	152018007	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25C>T	p.Arg9Trp	p.R9W	ENST00000282486	2/10	70	54	16	85	85	0	MBNL1,missense_variant,p.Arg9Trp,ENST00000545754,;MBNL1,missense_variant,p.Arg9Trp,ENST00000282486,;MBNL1,missense_variant,p.Arg9Trp,ENST00000485509,;MBNL1,missense_variant,p.Arg9Trp,ENST00000324196,;MBNL1,missense_variant,p.Arg9Trp,ENST00000498502,;MBNL1,missense_variant,p.Arg9Trp,ENST00000357472,;MBNL1,missense_variant,p.Arg9Trp,ENST00000463374,;MBNL1,missense_variant,p.Arg9Trp,ENST00000465907,;MBNL1,missense_variant,p.Arg9Trp,ENST00000282488,;MBNL1,missense_variant,p.Arg9Trp,ENST00000492948,;MBNL1,missense_variant,p.Arg9Trp,ENST00000324210,;MBNL1,missense_variant,p.Arg9Trp,ENST00000355460,;MBNL1,missense_variant,p.Arg9Trp,ENST00000485910,;MBNL1,missense_variant,p.Arg8Trp,ENST00000464596,;MBNL1,intron_variant,,ENST00000459747,;MBNL1,intron_variant,,ENST00000493459,;MBNL1,intron_variant,,ENST00000460591,;MBNL1,intron_variant,,ENST00000495875,;MBNL1,non_coding_transcript_exon_variant,,ENST00000466565,;MBNL1,non_coding_transcript_exon_variant,,ENST00000461436,;MBNL1,downstream_gene_variant,,ENST00000477171,;	T	ENSG00000152601	ENST00000282486	Transcript	missense_variant	1867	25	9	R/W	Cgg/Tgg	COSM419761,COSM419763,COSM419762	.	.	1	MBNL1	HGNC	6923	protein_coding	YES	CCDS3165.1	ENSP00000282486	MBNL1_HUMAN	C9JCX1_HUMAN,C9J7P7_HUMAN	UPI000003B440	.	deleterious(0)	benign(0.026)	2/10	.	hmmpanther:PTHR12675,hmmpanther:PTHR12675:SF7	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCGGGAC	.	5	BLCA
TBL1XR1	0	.	GRCh37	3	176752109	176752109	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1127G>T	p.Trp376Leu	p.W376L	ENST00000430069	13/16	19	13	6	25	25	0	TBL1XR1,missense_variant,p.Trp376Leu,ENST00000457928,;TBL1XR1,missense_variant,p.Trp376Leu,ENST00000430069,;	A	ENSG00000177565	ENST00000430069	Transcript	missense_variant	1387	1127	376	W/L	tGg/tTg	COSM419703	.	.	-1	TBL1XR1	HGNC	29529	protein_coding	YES	CCDS46961.1	ENSP00000405574	TBL1R_HUMAN	C9JY82_HUMAN,C9JTW8_HUMAN,C9JLJ1_HUMAN,C9JEC9_HUMAN,C9JCW4_HUMAN,C9JCK0_HUMAN,C9JBN1_HUMAN,C9J903_HUMAN,C9J7E1_HUMAN,C9J3H2_HUMAN,C9IYU9_HUMAN	UPI0000136A71	.	deleterious(0)	probably_damaging(0.955)	13/16	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR22846:SF37,hmmpanther:PTHR22846,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTCCATATC	.	5	BLCA
TP63	0	.	GRCh37	3	189526295	189526303	+	In_Frame_Del	DEL	GCCAAGTCG	GCCAAGTCG	-	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	GCCAAGTCG	GCCAAGTCG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.563_571delAGTCGGCCA	p.Lys188_Ala190del	p.K188_A190del	ENST00000264731	4/14	48	35	13	55	55	0	TP63,inframe_deletion,p.Lys94_Ala96del,ENST00000392461,;TP63,inframe_deletion,p.Lys94_Ala96del,ENST00000434928,;TP63,inframe_deletion,p.Lys94_Ala96del,ENST00000354600,;TP63,inframe_deletion,p.Lys94_Ala96del,ENST00000456148,;TP63,inframe_deletion,p.Lys188_Ala190del,ENST00000392460,;TP63,inframe_deletion,p.Lys188_Ala190del,ENST00000320472,;TP63,inframe_deletion,p.Lys188_Ala190del,ENST00000440651,;TP63,inframe_deletion,p.Lys188_Ala190del,ENST00000264731,;TP63,inframe_deletion,p.Lys188_Ala190del,ENST00000418709,;TP63,inframe_deletion,p.Lys94_Ala96del,ENST00000437221,;TP63,inframe_deletion,p.Lys94_Ala96del,ENST00000392463,;TP63,intron_variant,,ENST00000449992,;TP63,intron_variant,,ENST00000382063,;TP63,non_coding_transcript_exon_variant,,ENST00000460036,;	-	ENSG00000073282	ENST00000264731	Transcript	inframe_deletion	648-656	559-567	187-189	AKS/-	GCCAAGTCG/-	.	.	.	1	TP63	HGNC	15979	protein_coding	YES	CCDS3293.1	ENSP00000264731	P63_HUMAN	.	UPI0000073CF2	.	.	.	4/14	.	hmmpanther:PTHR11447,hmmpanther:PTHR11447:SF8,Gene3D:2.60.40.720,Pfam_domain:PF00870,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGCACCGCCAAGTCGGCCAC	.	3	BLCA
SCN11A	0	.	GRCh37	3	38888407	38888407	+	Missense_Mutation	SNP	C	C	G	rs267599809	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5154G>C	p.Lys1718Asn	p.K1718N	ENST00000302328	26/26	195	158	37	227	227	0	SCN11A,missense_variant,p.Lys1718Asn,ENST00000450244,;SCN11A,missense_variant,p.Lys1718Asn,ENST00000302328,;SCN11A,missense_variant,p.Lys1680Asn,ENST00000456224,;SCN11A,downstream_gene_variant,,ENST00000444237,;	G	ENSG00000168356	ENST00000302328	Transcript	missense_variant	5353	5154	1718	K/N	aaG/aaC	rs267599809,COSM3593671,COSM420021	.	.	-1	SCN11A	HGNC	10583	protein_coding	YES	CCDS33737.1	ENSP00000307599	SCNBA_HUMAN	.	UPI000006CCD7	.	deleterious(0.01)	possibly_damaging(0.717)	26/26	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF22	G:0.0002	G:0	G:0	.	G:0.001	G:0	G:0	.	.	not_provided	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCTTGAG	byCluster|by1000G	5	BLCA
SETD5	0	.	GRCh37	3	9483388	9483388	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.922C>T	p.Arg308Ter	p.R308*	ENST00000402198	9/23	99	84	15	131	131	0	SETD5,stop_gained,p.Arg210Ter,ENST00000402466,;SETD5,stop_gained,p.Arg327Ter,ENST00000407969,;SETD5,stop_gained,p.Arg308Ter,ENST00000402198,;SETD5,stop_gained,p.Arg308Ter,ENST00000406341,;SETD5,stop_gained,p.Arg210Ter,ENST00000302463,;SETD5,downstream_gene_variant,,ENST00000442373,;SETD5,upstream_gene_variant,,ENST00000399686,;SETD5,upstream_gene_variant,,ENST00000497213,;SETD5,downstream_gene_variant,,ENST00000490791,;SETD5,3_prime_UTR_variant,,ENST00000443339,;SETD5,non_coding_transcript_exon_variant,,ENST00000493918,;SETD5,upstream_gene_variant,,ENST00000464410,;SETD5,upstream_gene_variant,,ENST00000413704,;SETD5,downstream_gene_variant,,ENST00000431285,;SETD5,upstream_gene_variant,,ENST00000466242,;	T	ENSG00000168137	ENST00000402198	Transcript	stop_gained	1357	922	308	R/*	Cga/Tga	COSM420284	.	.	1	SETD5	HGNC	25566	protein_coding	YES	CCDS46741.1	ENSP00000385852	SETD5_HUMAN	C9JLM1_HUMAN,C9JLA7_HUMAN,A8K0G4_HUMAN	UPI0000411FEE	.	.	.	9/23	.	PROSITE_profiles:PS50280,hmmpanther:PTHR16286:SF11,hmmpanther:PTHR16286,Gene3D:2.170.270.10,Pfam_domain:PF00856,SMART_domains:SM00317,Superfamily_domains:SSF82199	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTACGACAG	.	5	BLCA
FAT1	0	.	GRCh37	4	187549509	187549509	+	Nonsense_Mutation	SNP	G	G	A	rs754310449	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4609C>T	p.Gln1537Ter	p.Q1537*	ENST00000441802	9/27	17	9	8	20	20	0	FAT1,stop_gained,p.Gln1537Ter,ENST00000441802,;	A	ENSG00000083857	ENST00000441802	Transcript	stop_gained	4819	4609	1537	Q/*	Caa/Taa	rs754310449,COSM420631,COSM420630	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	.	9/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGATCTC	.	5	BLCA
FAT1	0	.	GRCh37	4	187549807	187549807	+	Silent	SNP	G	G	T	rs376344008	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4434C>A	p.%3D	p.I1478I	ENST00000441802	8/27	47	26	20	83	83	0	FAT1,synonymous_variant,p.%3D,ENST00000441802,;	T	ENSG00000083857	ENST00000441802	Transcript	synonymous_variant	4644	4434	1478	I	atC/atA	rs376344008,COSM420629,COSM420628	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	.	8/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTGATTTG	byFrequency|byCluster	5	BLCA
RFC1	0	.	GRCh37	4	39290425	39290425	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3403G>C	p.Asp1135His	p.D1135H	ENST00000381897	25/25	74	56	18	96	96	0	RFC1,missense_variant,p.Asp1134His,ENST00000349703,;RFC1,missense_variant,p.Asp1135His,ENST00000381897,;WDR19,downstream_gene_variant,,ENST00000288634,;RFC1,downstream_gene_variant,,ENST00000514572,;WDR19,downstream_gene_variant,,ENST00000399820,;RFC1,non_coding_transcript_exon_variant,,ENST00000510783,;RFC1,non_coding_transcript_exon_variant,,ENST00000502991,;RFC1,downstream_gene_variant,,ENST00000504974,;WDR19,downstream_gene_variant,,ENST00000512534,;WDR19,downstream_gene_variant,,ENST00000512588,;WDR19,downstream_gene_variant,,ENST00000510315,;WDR19,downstream_gene_variant,,ENST00000506869,;WDR19,downstream_gene_variant,,ENST00000503733,;	G	ENSG00000035928	ENST00000381897	Transcript	missense_variant	3537	3403	1135	D/H	Gat/Cat	COSM420594	.	.	-1	RFC1	HGNC	9969	protein_coding	YES	CCDS56329.1	ENSP00000371321	RFC1_HUMAN	.	UPI0000167BB4	.	tolerated_low_confidence(0.11)	probably_damaging(0.953)	25/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11107,hmmpanther:PTHR11107:SF9,PIRSF_domain:PIRSF036578	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATCTTTTT	.	5	BLCA
EVC2	0	.	GRCh37	4	5633669	5633669	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1561G>A	p.Asp521Asn	p.D521N	ENST00000344408	11/22	96	91	5	100	100	0	EVC2,missense_variant,p.Asp521Asn,ENST00000344938,;EVC2,missense_variant,p.Asp441Asn,ENST00000310917,;EVC2,missense_variant,p.Asp521Asn,ENST00000344408,;EVC2,missense_variant,p.Asp441Asn,ENST00000475313,;EVC2,missense_variant,p.Arg438Lys,ENST00000509670,;	T	ENSG00000173040	ENST00000344408	Transcript	missense_variant	1615	1561	521	D/N	Gac/Aac	COSM1430279,COSM420567	.	.	-1	EVC2	HGNC	19747	protein_coding	YES	CCDS3382.2	ENSP00000342144	LBN_HUMAN	Q4W5B1_HUMAN,Q4W5A4_HUMAN	UPI00001910B5	.	tolerated(0.63)	probably_damaging(0.917)	11/22	.	hmmpanther:PTHR16795:SF11,hmmpanther:PTHR16795,Pfam_domain:PF12297	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AAAGTCTTCTT	.	2	BLCA
UGT2B11	0	.	GRCh37	4	70080466	70080466	+	5'Flank	SNP	C	C	G	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000446444	.	60	49	11	147	147	0	UGT2B11,upstream_gene_variant,,ENST00000446444,;RP11-704M14.1,non_coding_transcript_exon_variant,,ENST00000505646,;RP11-704M14.1,downstream_gene_variant,,ENST00000504301,;RP11-704M14.2,downstream_gene_variant,,ENST00000514003,;	G	ENSG00000213759	ENST00000446444	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	17	-1	UGT2B11	HGNC	12545	protein_coding	YES	CCDS3527.1	ENSP00000387683	UDB11_HUMAN	Q4W5B9_HUMAN	UPI0000137A97	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCCAGTC	.	5	BLCA
CTNND2	0	.	GRCh37	5	11346575	11346575	+	Missense_Mutation	SNP	C	C	T	rs781372774	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1537G>A	p.Glu513Lys	p.E513K	ENST00000304623	9/22	136	106	30	129	129	0	CTNND2,missense_variant,p.Glu422Lys,ENST00000511377,;CTNND2,missense_variant,p.Glu513Lys,ENST00000304623,;CTNND2,missense_variant,p.Glu513Lys,ENST00000359640,;CTNND2,missense_variant,p.Glu176Lys,ENST00000503622,;CTNND2,missense_variant,p.Glu80Lys,ENST00000458100,;CTNND2,downstream_gene_variant,,ENST00000502551,;CTNND2,non_coding_transcript_exon_variant,,ENST00000504354,;CTNND2,non_coding_transcript_exon_variant,,ENST00000495388,;CTNND2,downstream_gene_variant,,ENST00000506735,;CTNND2,missense_variant,p.Glu267Lys,ENST00000513588,;CTNND2,3_prime_UTR_variant,,ENST00000504499,;	T	ENSG00000169862	ENST00000304623	Transcript	missense_variant	1727	1537	513	E/K	Gag/Aag	rs781372774,COSM1059766,COSM420449	.	.	-1	CTNND2	HGNC	2516	protein_coding	YES	CCDS3881.1	ENSP00000307134	CTND2_HUMAN	E7EPC8_HUMAN,D6RF55_HUMAN,D6RBA8_HUMAN,D6R9A8_HUMAN	UPI000013E9AB	.	deleterious(0)	benign(0.15)	9/22	.	hmmpanther:PTHR10372,hmmpanther:PTHR10372:SF9	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTCAACAG	.	5	BLCA
F12	0	.	GRCh37	5	176833003	176833003	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175C>T	p.His59Tyr	p.H59Y	ENST00000253496	3/14	158	122	36	145	145	0	F12,missense_variant,p.His59Tyr,ENST00000253496,;GRK6,intron_variant,,ENST00000502598,;GRK6,intron_variant,,ENST00000506296,;F12,upstream_gene_variant,,ENST00000514943,;F12,upstream_gene_variant,,ENST00000504406,;F12,upstream_gene_variant,,ENST00000502854,;F12,upstream_gene_variant,,ENST00000503736,;F12,upstream_gene_variant,,ENST00000510358,;	A	ENSG00000131187	ENST00000253496	Transcript	missense_variant	224	175	59	H/Y	Cac/Tac	COSM420761	.	.	-1	F12	HGNC	3530	protein_coding	YES	CCDS34302.1	ENSP00000253496	FA12_HUMAN	Q96EF3_HUMAN	UPI000048055F	.	tolerated(0.13)	benign(0.06)	3/14	.	Prints_domain:PR00013,Superfamily_domains:SSF57440,SMART_domains:SM00059,PIRSF_domain:PIRSF001146,Gene3D:2.10.10.10,Pfam_domain:PF00040,PROSITE_patterns:PS00023,hmmpanther:PTHR24265:SF75,hmmpanther:PTHR24265,PROSITE_profiles:PS51092	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTGGTACA	.	5	BLCA
VCAN	0	.	GRCh37	5	82868358	82868358	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9859T>G	p.Tyr3287Asp	p.Y3287D	ENST00000265077	13/15	65	52	12	103	103	0	VCAN,missense_variant,p.Tyr1533Asp,ENST00000342785,;VCAN,missense_variant,p.Tyr3287Asp,ENST00000265077,;VCAN,missense_variant,p.Tyr546Asp,ENST00000502527,;VCAN,missense_variant,p.Tyr1485Asp,ENST00000512590,;VCAN,missense_variant,p.Tyr2300Asp,ENST00000343200,;VCAN-AS1,intron_variant,,ENST00000513899,;VCAN,non_coding_transcript_exon_variant,,ENST00000513016,;VCAN,non_coding_transcript_exon_variant,,ENST00000505615,;	G	ENSG00000038427	ENST00000265077	Transcript	missense_variant	10424	9859	3287	Y/D	Tat/Gat	COSM421159	.	.	1	VCAN	HGNC	2464	protein_coding	YES	CCDS4060.1	ENSP00000265077	CSPG2_HUMAN	.	UPI000013178B	.	deleterious(0)	probably_damaging(0.996)	13/15	.	Superfamily_domains:SSF56436,SMART_domains:SM00034,Pfam_domain:PF00059,Gene3D:3.10.100.10,PROSITE_patterns:PS00615,hmmpanther:PTHR22804:SF6,hmmpanther:PTHR22804,PROSITE_profiles:PS50041	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACCTATACG	.	5	BLCA
BCLAF1	0	.	GRCh37	6	136599223	136599223	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.796C>T	p.Gln266Ter	p.Q266*	ENST00000531224	4/13	42	37	5	77	76	0	BCLAF1,stop_gained,p.Gln266Ter,ENST00000529826,;BCLAF1,stop_gained,p.Gln266Ter,ENST00000527536,;BCLAF1,stop_gained,p.Gln264Ter,ENST00000392348,;BCLAF1,stop_gained,p.Gln266Ter,ENST00000530767,;BCLAF1,stop_gained,p.Gln266Ter,ENST00000531224,;BCLAF1,stop_gained,p.Gln264Ter,ENST00000353331,;BCLAF1,stop_gained,p.Gln264Ter,ENST00000527759,;BCLAF1,stop_gained,p.Gln7Ter,ENST00000533621,;BCLAF1,stop_gained,p.Gln266Ter,ENST00000527613,;BCLAF1,stop_gained,p.Gln264Ter,ENST00000534269,;BCLAF1,stop_gained,p.Gln264Ter,ENST00000530429,;BCLAF1,stop_gained,p.Gln266Ter,ENST00000532384,;BCLAF1,upstream_gene_variant,,ENST00000476194,;BCLAF1,upstream_gene_variant,,ENST00000532076,;BCLAF1,upstream_gene_variant,,ENST00000534792,;BCLAF1,downstream_gene_variant,,ENST00000528229,;	A	ENSG00000029363	ENST00000531224	Transcript	stop_gained	1049	796	266	Q/*	Cag/Tag	COSM421064	.	.	-1	BCLAF1	HGNC	16863	protein_coding	YES	CCDS5177.1	ENSP00000435210	BCLF1_HUMAN	B0AZU3_HUMAN	UPI000006FCE7	.	.	.	4/13	.	Pfam_domain:PF15440,hmmpanther:PTHR15268,hmmpanther:PTHR15268:SF4,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCTGAATGG	.	4	BLCA
UTRN	0	.	GRCh37	6	144803379	144803379	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3542G>A	p.Arg1181Lys	p.R1181K	ENST00000367545	26/74	45	35	10	43	42	0	UTRN,missense_variant,p.Arg1181Lys,ENST00000367545,;	A	ENSG00000152818	ENST00000367545	Transcript	missense_variant	3542	3542	1181	R/K	aGa/aAa	COSM421049	.	.	1	UTRN	HGNC	12635	protein_coding	YES	CCDS34547.1	ENSP00000356515	UTRO_HUMAN	Q6LBS5_HUMAN,Q5SYY2_HUMAN,Q5JT45_HUMAN	UPI00003673F1	.	tolerated(0.96)	benign(0.047)	26/74	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11915:SF225,hmmpanther:PTHR11915,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,PIRSF_domain:PIRSF002341,Superfamily_domains:SSF46966,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGAGAGTGA	.	5	BLCA
BTN3A3	0	.	GRCh37	6	26452381	26452381	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1497C>T	p.%3D	p.F499F	ENST00000244519	11/11	137	131	5	121	121	0	BTN3A3,synonymous_variant,p.%3D,ENST00000361232,;BTN3A3,synonymous_variant,p.%3D,ENST00000244519,;BTN3A3,synonymous_variant,p.%3D,ENST00000339789,;BTN3A3,downstream_gene_variant,,ENST00000490254,;BTN3A3,downstream_gene_variant,,ENST00000487272,;BTN3A3,non_coding_transcript_exon_variant,,ENST00000480110,;BTN3A3,non_coding_transcript_exon_variant,,ENST00000483179,;BTN3A3,downstream_gene_variant,,ENST00000477388,;BTN3A3,downstream_gene_variant,,ENST00000497681,;	T	ENSG00000111801	ENST00000244519	Transcript	synonymous_variant	1740	1497	499	F	ttC/ttT	COSM420955	.	.	1	BTN3A3	HGNC	1140	protein_coding	YES	CCDS4611.1	ENSP00000244519	BT3A3_HUMAN	D0FY33_HUMAN,C9JUV8_HUMAN,C9JQT8_HUMAN,C9JNZ3_HUMAN,C9J877_HUMAN,C9J3Q8_HUMAN	UPI00000480EF	.	.	.	11/11	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24100:SF45,hmmpanther:PTHR24100,Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899,Prints_domain:PR01407	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTTCAGAAT	.	2	BLCA
ORC3	0	.	GRCh37	6	88317511	88317511	+	Missense_Mutation	SNP	C	C	T	rs149324991	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.548C>T	p.Ser183Leu	p.S183L	ENST00000257789	6/20	95	71	24	79	79	0	ORC3,missense_variant,p.Ser40Leu,ENST00000546266,;ORC3,missense_variant,p.Ser183Leu,ENST00000392844,;ORC3,missense_variant,p.Ser130Leu,ENST00000417380,;ORC3,missense_variant,p.Ser183Leu,ENST00000257789,;ORC3,non_coding_transcript_exon_variant,,ENST00000478028,;	T	ENSG00000135336	ENST00000257789	Transcript	missense_variant	582	548	183	S/L	tCa/tTa	rs149324991,COSM421211	.	.	1	ORC3	HGNC	8489	protein_coding	YES	CCDS5012.1	ENSP00000257789	ORC3_HUMAN	U3KQL3_HUMAN	UPI00001B216A	.	tolerated(0.27)	benign(0.008)	6/20	.	Pfam_domain:PF07034,hmmpanther:PTHR12748,hmmpanther:PTHR12748:SF0	T:0.0016	T:0.0061	T:0	.	T:0	T:0	T:0	T:0.0052	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCACTTT	byFrequency|byCluster|by1000G	5	BLCA
MET	0	.	GRCh37	7	116409705	116409705	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2644G>A	p.Asp882Asn	p.D882N	ENST00000318493	12/21	56	43	13	55	55	0	MET,missense_variant,p.Asp882Asn,ENST00000318493,;MET,missense_variant,p.Asp864Asn,ENST00000397752,;MET,missense_variant,p.Asp144Asn,ENST00000422097,;MET,upstream_gene_variant,,ENST00000454623,;	A	ENSG00000105976	ENST00000318493	Transcript	missense_variant	2831	2644	882	D/N	Gat/Aat	COSM421630	.	.	1	MET	HGNC	7029	protein_coding	YES	CCDS47689.1	ENSP00000317272	MET_HUMAN	Q9UEJ3_HUMAN,B4DPY6_HUMAN	UPI000014033E	.	tolerated(0.96)	benign(0.008)	12/21	.	hmmpanther:PTHR24416:SF261,hmmpanther:PTHR24416,SMART_domains:SM00429,PIRSF_domain:PIRSF000617	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATGATATT	.	5	BLCA
AC005013.5	0	.	GRCh37	7	28997432	28997432	+	RNA	SNP	G	G	A	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.150G>A	.	.	ENST00000436594	1/2	52	34	17	66	66	0	AC005013.5,non_coding_transcript_exon_variant,,ENST00000436594,;TRIL,non_coding_transcript_exon_variant,,ENST00000322982,;AC005013.1,non_coding_transcript_exon_variant,,ENST00000539664,;	A	ENSG00000228421	ENST00000436594	Transcript	non_coding_transcript_exon_variant	150	.	.	.	.	.	.	.	1	AC005013.5	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AAGTCGAAGGC	.	4	BLCA
LANCL2	0	.	GRCh37	7	55459492	55459492	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.211C>G	p.His71Asp	p.H71D	ENST00000254770	2/9	43	31	12	47	47	0	LANCL2,missense_variant,p.His71Asp,ENST00000254770,;LANCL2,upstream_gene_variant,,ENST00000486376,;LANCL2,3_prime_UTR_variant,,ENST00000452107,;	G	ENSG00000132434	ENST00000254770	Transcript	missense_variant	789	211	71	H/D	Cat/Gat	COSM421410	.	.	1	LANCL2	HGNC	6509	protein_coding	YES	CCDS5517.1	ENSP00000254770	LANC2_HUMAN	B4DWZ7_HUMAN	UPI000006F7D0	.	tolerated(0.55)	benign(0)	2/9	.	hmmpanther:PTHR12736,hmmpanther:PTHR12736:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCATAAT	.	5	BLCA
GSAP	0	.	GRCh37	7	77010667	77010667	+	Silent	SNP	A	A	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531T>C	p.%3D	p.I177I	ENST00000257626	8/31	31	25	6	29	29	0	GSAP,synonymous_variant,p.%3D,ENST00000257626,;GSAP,non_coding_transcript_exon_variant,,ENST00000334003,;	G	ENSG00000186088	ENST00000257626	Transcript	synonymous_variant	610	531	177	I	atT/atC	COSM421877	.	.	-1	GSAP	HGNC	28042	protein_coding	YES	CCDS34672.2	ENSP00000257626	GSAP_HUMAN	B7ZL33_HUMAN	UPI000015FEE3	.	.	.	8/31	.	hmmpanther:PTHR13630:SF1,hmmpanther:PTHR13630	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTCAATATC	.	5	BLCA
DCSTAMP	0	.	GRCh37	8	105361016	105361016	+	Missense_Mutation	SNP	G	G	A	rs773599990	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.236G>A	p.Arg79Gln	p.R79Q	ENST00000297581	2/4	86	69	17	79	79	0	DCSTAMP,missense_variant,p.Arg79Gln,ENST00000297581,;DCSTAMP,missense_variant,p.Arg79Gln,ENST00000517991,;DCSTAMP,non_coding_transcript_exon_variant,,ENST00000518023,;DPYS,intron_variant,,ENST00000521601,;DCSTAMP,upstream_gene_variant,,ENST00000518051,;DCSTAMP,downstream_gene_variant,,ENST00000517364,;DCSTAMP,downstream_gene_variant,,ENST00000519562,;	A	ENSG00000164935	ENST00000297581	Transcript	missense_variant	285	236	79	R/Q	cGa/cAa	rs773599990,COSM421795	.	.	1	DCSTAMP	HGNC	18549	protein_coding	YES	CCDS6301.1	ENSP00000297581	DCSTP_HUMAN	.	UPI000003BCB5	.	deleterious(0)	probably_damaging(1)	2/4	.	hmmpanther:PTHR21041,hmmpanther:PTHR21041:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACGATGTT	byFrequency	5	BLCA
GATA4	0	.	GRCh37	8	11616017	11616017	+	3'UTR	SNP	G	G	T	rs755856540	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*33G>T	.	.	ENST00000335135	7/7	39	35	3	42	42	0	GATA4,3_prime_UTR_variant,,ENST00000532059,;GATA4,3_prime_UTR_variant,,ENST00000335135,;GATA4,3_prime_UTR_variant,,ENST00000528712,;C8orf49,upstream_gene_variant,,ENST00000525043,;GATA4,downstream_gene_variant,,ENST00000526716,;GATA4,non_coding_transcript_exon_variant,,ENST00000526021,;	T	ENSG00000136574	ENST00000335135	Transcript	3_prime_UTR_variant	1920	.	.	.	.	rs755856540	.	.	1	GATA4	HGNC	4173	protein_coding	YES	CCDS5983.1	ENSP00000334458	GATA4_HUMAN	R4GND5_HUMAN,E9PRI5_HUMAN,E9PKS4_HUMAN,B3KUF4_HUMAN,B2ZBW1_HUMAN	UPI00001B3DC4	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACGGACCTG	byFrequency	4	BLCA
SCARA5	0	.	GRCh37	8	27762132	27762132	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1153+163G>C	.	.	ENST00000354914	.	27	22	5	22	22	0	SCARA5,3_prime_UTR_variant,,ENST00000524352,;SCARA5,intron_variant,,ENST00000354914,;SCARA5,intron_variant,,ENST00000380385,;SCARA5,downstream_gene_variant,,ENST00000301906,;SCARA5,downstream_gene_variant,,ENST00000518030,;RP11-597M17.1,non_coding_transcript_exon_variant,,ENST00000517735,;RP11-597M17.3,upstream_gene_variant,,ENST00000517763,;RP11-597M17.2,downstream_gene_variant,,ENST00000521019,;	G	ENSG00000168079	ENST00000354914	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SCARA5	HGNC	28701	protein_coding	YES	CCDS6064.1	ENSP00000346990	SCAR5_HUMAN	.	UPI000015FA6D	.	.	.	.	7/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CATCTCTTGCT	.	4	BLCA
MCM4	0	.	GRCh37	8	48874100	48874100	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.95C>G	p.Ser32Cys	p.S32C	ENST00000262105	2/16	58	40	18	59	59	0	MCM4,missense_variant,p.Ser32Cys,ENST00000518221,;MCM4,missense_variant,p.Ser32Cys,ENST00000262105,;MCM4,missense_variant,p.Ser32Cys,ENST00000523944,;MCM4,5_prime_UTR_variant,,ENST00000519170,;PRKDC,upstream_gene_variant,,ENST00000314191,;MCM4,upstream_gene_variant,,ENST00000520637,;PRKDC,upstream_gene_variant,,ENST00000338368,;PRKDC,upstream_gene_variant,,ENST00000540819,;PRKDC,upstream_gene_variant,,ENST00000523565,;PRKDC,upstream_gene_variant,,ENST00000518216,;MCM4,missense_variant,p.Ser32Cys,ENST00000524086,;MCM4,non_coding_transcript_exon_variant,,ENST00000520934,;MCM4,non_coding_transcript_exon_variant,,ENST00000520994,;MCM4,upstream_gene_variant,,ENST00000519138,;	G	ENSG00000104738	ENST00000262105	Transcript	missense_variant	304	95	32	S/C	tCt/tGt	COSM422111	.	.	1	MCM4	HGNC	6947	protein_coding	YES	CCDS6143.1	ENSP00000262105	MCM4_HUMAN	E5RFR3_HUMAN,E5RFJ8_HUMAN,A4FS09_HUMAN	UPI000013D25C	.	tolerated(0.06)	benign(0.293)	2/16	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCTCCCT	.	5	BLCA
SGK223	0	.	GRCh37	8	8185504	8185504	+	Missense_Mutation	SNP	C	C	T	rs370977684	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2788G>A	p.Gly930Arg	p.G930R	ENST00000520004	5/6	64	49	15	62	62	0	SGK223,missense_variant,p.Gly930Arg,ENST00000520004,;SGK223,missense_variant,p.Gly930Arg,ENST00000330777,;	T	ENSG00000182319	ENST00000520004	Transcript	missense_variant	3053	2788	930	G/R	Ggg/Agg	rs370977684,COSM422050,COSM422051	.	.	-1	SGK223	Uniprot_gn	.	protein_coding	YES	CCDS43706.1	ENSP00000428054	SG223_HUMAN	.	UPI00001D82A6	.	.	benign(0.177)	5/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22972:SF3,hmmpanther:PTHR22972	.	.	.	.	.	.	.	T:0.0003	T:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCCCGGTGG	byFrequency|byCluster	5	BLCA
CNTLN	0	.	GRCh37	9	17464544	17464544	+	Missense_Mutation	SNP	G	G	C	rs748800287	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3454G>C	p.Asp1152His	p.D1152H	ENST00000380647	21/26	26	21	5	89	89	0	CNTLN,missense_variant,p.Asp1152His,ENST00000425824,;CNTLN,missense_variant,p.Asp1152His,ENST00000262360,;CNTLN,missense_variant,p.Asp1152His,ENST00000380647,;CNTLN,downstream_gene_variant,,ENST00000461247,;	C	ENSG00000044459	ENST00000380647	Transcript	missense_variant	3538	3454	1152	D/H	Gac/Cac	rs748800287,COSM422407,COSM379476	.	.	1	CNTLN	HGNC	23432	protein_coding	YES	CCDS43789.1	ENSP00000370021	CNTLN_HUMAN	.	UPI0000458809	.	tolerated(0.05)	possibly_damaging(0.73)	21/26	.	hmmpanther:PTHR18957,hmmpanther:PTHR18957:SF0	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGAGGACTTG	.	5	BLCA
ZNF75D	0	.	GRCh37	X	134427903	134427903	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164T>A	p.Phe55Tyr	p.F55Y	ENST00000370766	3/7	118	84	33	124	124	0	ZNF75D,missense_variant,p.Phe55Tyr,ENST00000370764,;ZNF75D,missense_variant,p.Phe55Tyr,ENST00000370766,;ZNF75D,intron_variant,,ENST00000494295,;ZNF75D,upstream_gene_variant,,ENST00000469456,;	T	ENSG00000186376	ENST00000370766	Transcript	missense_variant	2874	164	55	F/Y	tTc/tAc	COSM422220	.	.	-1	ZNF75D	HGNC	13145	protein_coding	YES	CCDS14648.1	ENSP00000359802	ZN75D_HUMAN	.	UPI000022DD3A	.	deleterious(0.01)	probably_damaging(0.973)	3/7	.	PROSITE_profiles:PS50804,hmmpanther:PTHR23226,hmmpanther:PTHR23226:SF43,Pfam_domain:PF02023,SMART_domains:SM00431,Superfamily_domains:SSF47353	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACGGAAGCTC	.	5	BLCA
IRAK1	0	.	GRCh37	X	153277189	153277189	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*121G>A	.	.	ENST00000369980	14/14	17	12	5	19	19	0	IRAK1,synonymous_variant,p.%3D,ENST00000455690,;IRAK1,3_prime_UTR_variant,,ENST00000369980,;IRAK1,3_prime_UTR_variant,,ENST00000369974,;IRAK1,3_prime_UTR_variant,,ENST00000393682,;IRAK1,3_prime_UTR_variant,,ENST00000444254,;IRAK1,intron_variant,,ENST00000444230,;IRAK1,downstream_gene_variant,,ENST00000443220,;IRAK1,downstream_gene_variant,,ENST00000429936,;IRAK1,downstream_gene_variant,,ENST00000393687,;IRAK1,downstream_gene_variant,,ENST00000437278,;IRAK1,intron_variant,,ENST00000477274,;IRAK1,downstream_gene_variant,,ENST00000467236,;IRAK1,3_prime_UTR_variant,,ENST00000369973,;	T	ENSG00000184216	ENST00000369980	Transcript	3_prime_UTR_variant	2428	.	.	.	.	.	.	.	-1	IRAK1	HGNC	6112	protein_coding	YES	CCDS14740.1	ENSP00000358997	IRAK1_HUMAN	.	UPI000012D873	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCCCCCGCG	.	5	BLCA
CXorf21	0	.	GRCh37	X	30577604	30577604	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.869G>A	p.Ser290Asn	p.S290N	ENST00000378962	3/3	96	83	12	91	91	0	CXorf21,missense_variant,p.Ser290Asn,ENST00000378962,;	T	ENSG00000120280	ENST00000378962	Transcript	missense_variant	1192	869	290	S/N	aGt/aAt	COSM422591	.	.	-1	CXorf21	HGNC	25667	protein_coding	YES	CCDS14224.1	ENSP00000368245	CX021_HUMAN	.	UPI000006D5C7	.	tolerated(0.37)	benign(0.122)	3/3	.	Pfam_domain:PF15133,hmmpanther:PTHR14889:SF1,hmmpanther:PTHR14889	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGACTAGGA	.	4	BLCA
IQSEC2	0	.	GRCh37	X	53277900	53277900	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2459+3G>C	.	.	ENST00000396435	.	66	53	13	61	61	0	IQSEC2,splice_region_variant,,ENST00000375365,;IQSEC2,splice_region_variant,,ENST00000375368,;IQSEC2,splice_region_variant,,ENST00000396435,;	G	ENSG00000124313	ENST00000396435	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	IQSEC2	HGNC	29059	protein_coding	YES	CCDS48130.1	ENSP00000379712	IQEC2_HUMAN	C7SDG2_HUMAN	UPI00001C207D	.	.	.	.	6/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCACTCC	.	4	BLCA
FGD1	0	.	GRCh37	X	54497828	54497828	+	Missense_Mutation	SNP	G	G	T	rs758037401	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.400C>A	p.Arg134Ser	p.R134S	ENST00000375135	2/18	60	42	17	49	49	0	FGD1,missense_variant,p.Arg134Ser,ENST00000375135,;	T	ENSG00000102302	ENST00000375135	Transcript	missense_variant	1134	400	134	R/S	Cgc/Agc	rs758037401,COSM422531	.	.	-1	FGD1	HGNC	3663	protein_coding	YES	CCDS14359.1	ENSP00000364277	FGD1_HUMAN	.	UPI000012A705	.	deleterious_low_confidence(0.02)	possibly_damaging(0.726)	2/18	.	hmmpanther:PTHR12673,hmmpanther:PTHR12673:SF79	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGCGAAGCC	.	5	BLCA
KIAA2022	0	.	GRCh37	X	73962899	73962899	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20U-01A-11D-A14W-08	TCGA-BT-A20U-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1493C>G	p.Ser498Ter	p.S498*	ENST00000055682	3/4	32	22	10	40	40	0	KIAA2022,stop_gained,p.Ser498Ter,ENST00000055682,;KIAA2022,upstream_gene_variant,,ENST00000424929,;	C	ENSG00000050030	ENST00000055682	Transcript	stop_gained	2105	1493	498	S/*	tCa/tGa	COSM422491	.	.	-1	KIAA2022	HGNC	29433	protein_coding	YES	CCDS35337.1	ENSP00000055682	K2022_HUMAN	.	UPI00001C207B	.	.	.	3/4	.	hmmpanther:PTHR10322:SF2,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGTGAGTCA	.	5	BLCA
PPAPDC1A	0	.	GRCh37	10	122334734	122334734	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537C>G	p.%3D	p.L179L	ENST00000398250	6/7	114	93	20	58	58	0	PPAPDC1A,synonymous_variant,p.%3D,ENST00000369073,;PPAPDC1A,synonymous_variant,p.%3D,ENST00000541332,;PPAPDC1A,synonymous_variant,p.%3D,ENST00000398250,;PPAPDC1A,synonymous_variant,p.%3D,ENST00000427079,;PPAPDC1A,synonymous_variant,p.%3D,ENST00000439221,;PPAPDC1A,intron_variant,,ENST00000398248,;PPAPDC1A,non_coding_transcript_exon_variant,,ENST00000496437,;	G	ENSG00000203805	ENST00000398250	Transcript	synonymous_variant	889	537	179	L	ctC/ctG	COSM415144	.	.	1	PPAPDC1A	HGNC	23531	protein_coding	YES	CCDS41573.1	ENSP00000381302	PPC1A_HUMAN	.	UPI00001619F5	.	.	.	6/7	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10165:SF90,hmmpanther:PTHR10165,Gene3D:1.20.144.10,Pfam_domain:PF01569,SMART_domains:SM00014,Superfamily_domains:SSF48317	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTCTGTGC	.	5	BLCA
CUBN	0	.	GRCh37	10	17083212	17083212	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3837G>A	p.%3D	p.E1279E	ENST00000377833	27/67	85	46	39	106	106	0	CUBN,synonymous_variant,p.%3D,ENST00000377833,;	T	ENSG00000107611	ENST00000377833	Transcript	synonymous_variant	3903	3837	1279	E	gaG/gaA	COSM415082	.	.	-1	CUBN	HGNC	2548	protein_coding	YES	CCDS7113.1	ENSP00000367064	CUBN_HUMAN	B3KQA6_HUMAN	UPI00001AE8F4	.	.	.	27/67	.	PROSITE_profiles:PS01180,hmmpanther:PTHR10127:SF561,hmmpanther:PTHR10127,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCTCACA	.	5	BLCA
MYO3A	0	.	GRCh37	10	26492008	26492008	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4702C>T	p.Gln1568Ter	p.Q1568*	ENST00000265944	34/35	75	59	16	55	55	0	MYO3A,stop_gained,p.Gln1568Ter,ENST00000265944,;MYO3A,intron_variant,,ENST00000543632,;MYO3A,non_coding_transcript_exon_variant,,ENST00000478093,;	T	ENSG00000095777	ENST00000265944	Transcript	stop_gained	4868	4702	1568	Q/*	Cag/Tag	COSM415063	.	.	1	MYO3A	HGNC	7601	protein_coding	YES	CCDS7148.1	ENSP00000265944	MYO3A_HUMAN	.	UPI000014140A	.	.	.	34/35	.	hmmpanther:PTHR13140:SF348,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTCCAGAAT	.	5	BLCA
ANKRD30A	0	.	GRCh37	10	37438756	37438756	+	Missense_Mutation	SNP	A	A	T	rs748032163	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1456A>T	p.Asn486Tyr	p.N486Y	ENST00000361713	11/36	59	51	8	70	70	0	ANKRD30A,missense_variant,p.Asn486Tyr,ENST00000374660,;ANKRD30A,missense_variant,p.Asn486Tyr,ENST00000361713,;ANKRD30A,missense_variant,p.Asn486Tyr,ENST00000602533,;	T	ENSG00000148513	ENST00000361713	Transcript	missense_variant	1555	1456	486	N/Y	Aat/Tat	rs748032163,COSM415037	.	.	1	ANKRD30A	HGNC	17234	protein_coding	YES	CCDS7193.1	ENSP00000354432	AN30A_HUMAN	R4GNA2_HUMAN	UPI0000458879	.	deleterious(0.01)	benign(0.193)	11/36	.	hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF11	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAGAATGAA	byFrequency	2	BLCA
OR6M1	0	.	GRCh37	11	123676993	123676993	+	Missense_Mutation	SNP	C	C	T	rs758825682	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.65G>A	p.Arg22Gln	p.R22Q	ENST00000309154	1/1	39	26	13	61	61	0	OR6M1,missense_variant,p.Arg22Gln,ENST00000309154,;	T	ENSG00000196099	ENST00000309154	Transcript	missense_variant	103	65	22	R/Q	cGa/cAa	rs758825682,COSM415297	.	.	-1	OR6M1	HGNC	14711	protein_coding	YES	CCDS31696.1	ENSP00000311038	OR6M1_HUMAN	.	UPI000003FE18	.	tolerated(1)	benign(0.002)	1/1	.	hmmpanther:PTHR26454,hmmpanther:PTHR26454:SF51,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R22*|c.64C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTCGAATC	byFrequency	5	BLCA
ADAMTS15	0	.	GRCh37	11	130318901	130318901	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33C>T	p.%3D	p.F11F	ENST00000299164	1/8	41	34	7	13	13	0	ADAMTS15,synonymous_variant,p.%3D,ENST00000299164,;	T	ENSG00000166106	ENST00000299164	Transcript	synonymous_variant	33	33	11	F	ttC/ttT	COSM415260	.	.	1	ADAMTS15	HGNC	16305	protein_coding	YES	CCDS8488.1	ENSP00000299164	ATS15_HUMAN	.	UPI000004F277	.	.	.	1/8	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR13723:SF39,hmmpanther:PTHR13723	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTTTCGCCGG	.	3	BLCA
E2F8	0	.	GRCh37	11	19252338	19252338	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1110G>C	p.%3D	p.V370V	ENST00000527884	8/13	43	29	14	53	53	0	E2F8,synonymous_variant,p.%3D,ENST00000527884,;E2F8,synonymous_variant,p.%3D,ENST00000250024,;RP11-428C19.4,intron_variant,,ENST00000527978,;E2F8,upstream_gene_variant,,ENST00000529188,;	G	ENSG00000129173	ENST00000527884	Transcript	synonymous_variant	1343	1110	370	V	gtG/gtC	COSM415231,COSM3808966	.	.	-1	E2F8	HGNC	24727	protein_coding	YES	CCDS7849.1	ENSP00000434199	E2F8_HUMAN	E9PMT9_HUMAN	UPI00001F9E94	.	.	.	8/13	.	hmmpanther:PTHR12081,hmmpanther:PTHR12081:SF40	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCACCTC	.	5	BLCA
HTATIP2	0	.	GRCh37	11	20385976	20385976	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.295G>T	p.Val99Leu	p.V99L	ENST00000419348	2/6	24	17	6	39	39	0	HTATIP2,missense_variant,p.Val65Leu,ENST00000531058,;HTATIP2,missense_variant,p.Val65Leu,ENST00000532505,;HTATIP2,missense_variant,p.Val65Leu,ENST00000443524,;HTATIP2,missense_variant,p.Val65Leu,ENST00000421577,;HTATIP2,missense_variant,p.Val65Leu,ENST00000530266,;HTATIP2,missense_variant,p.Val65Leu,ENST00000451739,;HTATIP2,missense_variant,p.Val65Leu,ENST00000532081,;HTATIP2,missense_variant,p.Val99Leu,ENST00000419348,;	T	ENSG00000109854	ENST00000419348	Transcript	missense_variant	364	295	99	V/L	Gtg/Ttg	COSM415228	.	.	1	HTATIP2	HGNC	16637	protein_coding	YES	CCDS44553.1	ENSP00000392985	HTAI2_HUMAN	.	UPI0001536775	.	tolerated(0.41)	benign(0.017)	2/6	.	Superfamily_domains:SSF51735,Gene3D:3.40.50.720,Pfam_domain:PF13460,hmmpanther:PTHR14097:SF7,hmmpanther:PTHR14097	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGTGGTG	.	5	BLCA
OR8K1	0	.	GRCh37	11	56113882	56113882	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368C>T	p.Ala123Val	p.A123V	ENST00000279783	1/1	134	117	16	238	238	0	OR8K1,missense_variant,p.Ala123Val,ENST00000279783,;	T	ENSG00000150261	ENST00000279783	Transcript	missense_variant	462	368	123	A/V	gCa/gTa	COSM415561	.	.	1	OR8K1	HGNC	14831	protein_coding	YES	CCDS31528.1	ENSP00000279783	OR8K1_HUMAN	.	UPI0000041BC6	.	tolerated_low_confidence(0.07)	benign(0.222)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF127,PROSITE_patterns:PS00237,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCAGCAATGG	.	4	BLCA
PHRF1	0	.	GRCh37	11	609398	609398	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3939G>A	p.%3D	p.L1313L	ENST00000416188	14/18	25	21	3	27	27	0	PHRF1,synonymous_variant,p.%3D,ENST00000264555,;PHRF1,synonymous_variant,p.%3D,ENST00000413872,;PHRF1,synonymous_variant,p.%3D,ENST00000533464,;PHRF1,synonymous_variant,p.%3D,ENST00000416188,;IRF7,downstream_gene_variant,,ENST00000330243,;IRF7,downstream_gene_variant,,ENST00000397566,;IRF7,downstream_gene_variant,,ENST00000348655,;IRF7,downstream_gene_variant,,ENST00000525445,;IRF7,downstream_gene_variant,,ENST00000397570,;IRF7,downstream_gene_variant,,ENST00000397562,;IRF7,downstream_gene_variant,,ENST00000397574,;PHRF1,synonymous_variant,p.%3D,ENST00000534320,;IRF7,downstream_gene_variant,,ENST00000527160,;IRF7,downstream_gene_variant,,ENST00000532326,;IRF7,downstream_gene_variant,,ENST00000531912,;IRF7,downstream_gene_variant,,ENST00000528413,;IRF7,downstream_gene_variant,,ENST00000532096,;IRF7,downstream_gene_variant,,ENST00000532788,;IRF7,downstream_gene_variant,,ENST00000469048,;IRF7,downstream_gene_variant,,ENST00000533182,;PHRF1,downstream_gene_variant,,ENST00000532550,;IRF7,downstream_gene_variant,,ENST00000525750,;	A	ENSG00000070047	ENST00000416188	Transcript	synonymous_variant	4032	3939	1313	L	ctG/ctA	COSM415511,COSM415512	.	.	1	PHRF1	HGNC	24351	protein_coding	YES	CCDS44507.1	ENSP00000410626	PHRF1_HUMAN	.	UPI000189A834	.	.	.	14/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15242:SF1,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTGGCCGT	.	4	BLCA
FLRT1	0	.	GRCh37	11	63884475	63884475	+	Missense_Mutation	SNP	C	C	T	rs756527574	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>T	p.Arg246Cys	p.R246C	ENST00000246841	2/2	12	9	3	16	16	0	FLRT1,missense_variant,p.Arg246Cys,ENST00000246841,;MACROD1,intron_variant,,ENST00000255681,;RP11-21A7A.3,downstream_gene_variant,,ENST00000543817,;MACROD1,intron_variant,,ENST00000543422,;MACROD1,intron_variant,,ENST00000542359,;MACROD1,intron_variant,,ENST00000545464,;	T	ENSG00000126500	ENST00000246841	Transcript	missense_variant	1779	736	246	R/C	Cgc/Tgc	rs756527574,COSM415477	.	.	1	FLRT1	HGNC	3760	protein_coding	YES	CCDS8057.1	ENSP00000246841	FLRT1_HUMAN	O43408_HUMAN	UPI0000039F94	.	deleterious(0.03)	possibly_damaging(0.894)	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369,hmmpanther:PTHR24369:SF30,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGCCGCCTA	byFrequency	2	BLCA
PPFIBP2	0	.	GRCh37	11	7652173	7652173	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.982C>T	p.Leu328Phe	p.L328F	ENST00000299492	11/24	95	77	18	157	157	0	PPFIBP2,missense_variant,p.Leu8Phe,ENST00000534409,;PPFIBP2,missense_variant,p.Leu216Phe,ENST00000528883,;PPFIBP2,missense_variant,p.Leu185Phe,ENST00000530181,;PPFIBP2,missense_variant,p.Leu328Phe,ENST00000299492,;PPFIBP2,missense_variant,p.Leu170Phe,ENST00000533792,;PPFIBP2,upstream_gene_variant,,ENST00000530081,;PPFIBP2,downstream_gene_variant,,ENST00000529575,;PPFIBP2,intron_variant,,ENST00000532926,;PPFIBP2,intron_variant,,ENST00000529021,;PPFIBP2,upstream_gene_variant,,ENST00000530582,;PPFIBP2,non_coding_transcript_exon_variant,,ENST00000532416,;PPFIBP2,upstream_gene_variant,,ENST00000532381,;	T	ENSG00000166387	ENST00000299492	Transcript	missense_variant	1370	982	328	L/F	Ctc/Ttc	COSM415731	.	.	1	PPFIBP2	HGNC	9250	protein_coding	YES	CCDS31419.1	ENSP00000299492	LIPB2_HUMAN	E9PP16_HUMAN,E9PMN3_HUMAN,E9PMH3_HUMAN,E9PK17_HUMAN,E9PJA0_HUMAN,E9PIK8_HUMAN,B3KM46_HUMAN	UPI00001C1EF8	.	tolerated(0.17)	benign(0.128)	11/24	.	hmmpanther:PTHR12587:SF18,hmmpanther:PTHR12587	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTCTCTCA	.	5	BLCA
WEE1	0	.	GRCh37	11	9597610	9597612	+	In_Frame_Del	DEL	GTC	GTC	-	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	GTC	GTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.757_759delCGT	p.Arg253del	p.R253del	ENST00000450114	2/11	82	57	25	76	76	0	WEE1,inframe_deletion,p.Arg39del,ENST00000299613,;WEE1,inframe_deletion,p.Arg253del,ENST00000450114,;WEE1,upstream_gene_variant,,ENST00000524612,;snoU13,upstream_gene_variant,,ENST00000458785,;RN7SL56P,upstream_gene_variant,,ENST00000470034,;WEE1,non_coding_transcript_exon_variant,,ENST00000524549,;	-	ENSG00000166483	ENST00000450114	Transcript	inframe_deletion	1005-1007	752-754	251-252	CR/C	tGTCgt/tgt	.	.	.	1	WEE1	HGNC	12761	protein_coding	YES	CCDS7800.1	ENSP00000402084	WEE1_HUMAN	E9PRU3_HUMAN	UPI0000138EF4	.	.	.	2/11	.	hmmpanther:PTHR11042:SF72,hmmpanther:PTHR11042,PIRSF_domain:PIRSF037281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K255R|c.764A>G|4	INDELOCATOR*|VARSCANI*|PINDEL	GACAGTGTCGTCGT	.	3	BLCA
CHPT1	0	.	GRCh37	12	102108412	102108412	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552G>C	p.Leu184Phe	p.L184F	ENST00000229266	3/9	97	78	19	87	87	0	CHPT1,missense_variant,p.Leu184Phe,ENST00000229266,;CHPT1,missense_variant,p.Leu184Phe,ENST00000549872,;CHPT1,non_coding_transcript_exon_variant,,ENST00000550385,;CHPT1,missense_variant,p.Leu36Phe,ENST00000552329,;CHPT1,missense_variant,p.Leu150Phe,ENST00000552215,;CHPT1,missense_variant,p.Leu184Phe,ENST00000552351,;CHPT1,missense_variant,p.Leu184Phe,ENST00000549128,;CHPT1,downstream_gene_variant,,ENST00000546490,;	C	ENSG00000111666	ENST00000229266	Transcript	missense_variant	787	552	184	L/F	ttG/ttC	COSM415669	.	.	1	CHPT1	HGNC	17852	protein_coding	YES	CCDS9086.1	ENSP00000229266	CHPT1_HUMAN	.	UPI000003ED2B	.	deleterious(0)	probably_damaging(0.994)	3/9	.	hmmpanther:PTHR10414,hmmpanther:PTHR10414:SF32,PIRSF_domain:PIRSF015665	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTGAGATT	.	5	BLCA
KIAA1033	0	.	GRCh37	12	105535024	105535024	+	Missense_Mutation	SNP	G	G	C	rs765095035	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1787G>C	p.Arg596Pro	p.R596P	ENST00000332180	18/33	105	95	10	111	111	0	KIAA1033,missense_variant,p.Arg596Pro,ENST00000332180,;KIAA1033,splice_region_variant,,ENST00000311317,;KIAA1033,splice_region_variant,,ENST00000550053,;KIAA1033,upstream_gene_variant,,ENST00000548534,;KIAA1033,upstream_gene_variant,,ENST00000550613,;	C	ENSG00000136051	ENST00000332180	Transcript	missense_variant	1874	1787	596	R/P	cGa/cCa	rs765095035,COSM2064836,COSM415653	.	.	1	KIAA1033	HGNC	29174	protein_coding	YES	CCDS41826.1	ENSP00000328062	WASH7_HUMAN	F8W1W1_HUMAN,F8VQX3_HUMAN,F8VNZ5_HUMAN	UPI00001C1F3B	.	tolerated(0.08)	possibly_damaging(0.901)	18/33	.	hmmpanther:PTHR31409,hmmpanther:PTHR31409:SF0,Pfam_domain:PF14745	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGAACGGTAAG	byFrequency	3	BLCA
OAS1	0	.	GRCh37	12	113355534	113355534	+	Intron	SNP	T	T	C	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1038+29T>C	.	.	ENST00000445409	.	83	65	17	116	116	0	OAS1,missense_variant,p.Phe356Ser,ENST00000452357,;OAS1,intron_variant,,ENST00000445409,;OAS1,intron_variant,,ENST00000202917,;OAS1,intron_variant,,ENST00000551241,;OAS1,intron_variant,,ENST00000553152,;OAS1,downstream_gene_variant,,ENST00000550689,;OAS1,downstream_gene_variant,,ENST00000550883,;OAS1,upstream_gene_variant,,ENST00000552526,;RP1-71H24.1,intron_variant,,ENST00000552784,;OAS1,downstream_gene_variant,,ENST00000549820,;OAS1,upstream_gene_variant,,ENST00000540589,;	C	ENSG00000089127	ENST00000445409	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	OAS1	HGNC	8086	protein_coding	YES	CCDS31905.1	ENSP00000388001	OAS1_HUMAN	Q1P9K4_HUMAN	UPI00005B2E03	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATTCATCC	.	5	BLCA
ULK1	0	.	GRCh37	12	132405682	132405682	+	Missense_Mutation	SNP	G	G	A	rs749327954	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2999G>A	p.Arg1000His	p.R1000H	ENST00000321867	27/28	47	39	8	31	31	0	ULK1,missense_variant,p.Arg245His,ENST00000540647,;ULK1,missense_variant,p.Arg1000His,ENST00000321867,;ULK1,downstream_gene_variant,,ENST00000541761,;RP11-417L19.4,downstream_gene_variant,,ENST00000539078,;ULK1,non_coding_transcript_exon_variant,,ENST00000544718,;ULK1,non_coding_transcript_exon_variant,,ENST00000540568,;	A	ENSG00000177169	ENST00000321867	Transcript	missense_variant	3350	2999	1000	R/H	cGt/cAt	rs749327954,COSM415947	.	.	1	ULK1	HGNC	12558	protein_coding	YES	CCDS9274.1	ENSP00000324560	ULK1_HUMAN	F5H4E9_HUMAN,F5H1S7_HUMAN,F5GZQ0_HUMAN	UPI00001FB0D9	.	tolerated(0.15)	benign(0.01)	27/28	.	hmmpanther:PTHR24348:SF19,hmmpanther:PTHR24348,Pfam_domain:PF12063,PIRSF_domain:PIRSF000580	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACCGTGAGG	.	4	BLCA
RERGL	0	.	GRCh37	12	18234161	18234161	+	Missense_Mutation	SNP	G	G	C	rs751389138	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.582C>G	p.Ile194Met	p.I194M	ENST00000229002	6/6	90	82	8	51	51	0	RERGL,missense_variant,p.Ile194Met,ENST00000229002,;RERGL,missense_variant,p.Ile193Met,ENST00000538724,;RERGL,downstream_gene_variant,,ENST00000536890,;RERGL,non_coding_transcript_exon_variant,,ENST00000540148,;RERGL,downstream_gene_variant,,ENST00000541632,;	C	ENSG00000111404	ENST00000229002	Transcript	missense_variant	789	582	194	I/M	atC/atG	rs751389138,COSM415929,COSM415930	.	.	-1	RERGL	HGNC	26213	protein_coding	YES	CCDS8679.1	ENSP00000229002	RERGL_HUMAN	.	UPI000000D9FA	.	tolerated(0.67)	possibly_damaging(0.642)	6/6	.	PROSITE_profiles:PS51421,hmmpanther:PTHR24070,hmmpanther:PTHR24070:SF30	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTATTGATCAA	.	3	BLCA
C2CD5	0	.	GRCh37	12	22688194	22688194	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>C	p.Glu59Gln	p.E59Q	ENST00000333957	3/25	39	31	8	36	36	0	C2CD5,missense_variant,p.Glu59Gln,ENST00000545552,;C2CD5,missense_variant,p.Glu59Gln,ENST00000333957,;C2CD5,missense_variant,p.Glu59Gln,ENST00000542676,;C2CD5,missense_variant,p.Glu59Gln,ENST00000446597,;C2CD5,missense_variant,p.Glu59Gln,ENST00000536386,;C2CD5,missense_variant,p.Glu59Gln,ENST00000396028,;C2CD5,splice_region_variant,,ENST00000544930,;C2CD5,splice_region_variant,,ENST00000541310,;C2CD5,non_coding_transcript_exon_variant,,ENST00000535304,;	G	ENSG00000111731	ENST00000333957	Transcript	missense_variant	431	175	59	E/Q	Gag/Cag	COSM415911	.	.	-1	C2CD5	HGNC	29062	protein_coding	YES	CCDS31758.1	ENSP00000334229	C2CD5_HUMAN	.	UPI000000D850	.	deleterious(0)	probably_damaging(0.998)	3/25	.	PROSITE_profiles:PS50004,hmmpanther:PTHR10024,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAAATT	.	5	BLCA
SYT10	0	.	GRCh37	12	33579285	33579286	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.296_297insA	p.Ser99ArgfsTer8	p.S99Rfs*8	ENST00000228567	2/7	85	78	7	52	52	0	SYT10,frameshift_variant,p.Ser99ArgfsTer8,ENST00000228567,;SYT10,5_prime_UTR_variant,,ENST00000535526,;SYT10,upstream_gene_variant,,ENST00000567656,;SYT10,frameshift_variant,p.Ser99ArgfsTer8,ENST00000539102,;	T	ENSG00000110975	ENST00000228567	Transcript	frameshift_variant	593-594	296-297	99	S/RX	agc/agAc	.	.	.	-1	SYT10	HGNC	19266	protein_coding	YES	CCDS8732.1	ENSP00000228567	SYT10_HUMAN	F5H2A8_HUMAN	UPI0000052B30	.	.	.	2/7	.	hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAAATGCTCTG	.	3	BLCA
SCAF11	0	.	GRCh37	12	46320096	46320096	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3388G>C	p.Glu1130Gln	p.E1130Q	ENST00000369367	11/15	130	105	25	101	101	0	SCAF11,missense_variant,p.Glu815Gln,ENST00000465950,;SCAF11,missense_variant,p.Glu1130Gln,ENST00000369367,;SCAF11,missense_variant,p.Glu1130Gln,ENST00000419565,;SCAF11,missense_variant,p.Glu938Gln,ENST00000549162,;SCAF11,downstream_gene_variant,,ENST00000484275,;SCAF11,upstream_gene_variant,,ENST00000547654,;SCAF11,upstream_gene_variant,,ENST00000550629,;SCAF11,non_coding_transcript_exon_variant,,ENST00000547950,;SCAF11,downstream_gene_variant,,ENST00000547018,;SCAF11,downstream_gene_variant,,ENST00000546534,;SCAF11,upstream_gene_variant,,ENST00000550893,;	G	ENSG00000139218	ENST00000369367	Transcript	missense_variant	3622	3388	1130	E/Q	Gag/Cag	COSM415850	.	.	-1	SCAF11	HGNC	10784	protein_coding	YES	CCDS8748.2	ENSP00000358374	SCAFB_HUMAN	F8VXG7_HUMAN	UPI0000D481F2	.	deleterious(0.03)	possibly_damaging(0.709)	11/15	.	hmmpanther:PTHR15242:SF3,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTCCTGTT	.	5	BLCA
SCAF11	0	.	GRCh37	12	46345474	46345474	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256C>G	p.Gln86Glu	p.Q86E	ENST00000369367	4/15	92	74	18	99	99	0	SCAF11,missense_variant,p.Gln86Glu,ENST00000419565,;SCAF11,missense_variant,p.Gln102Glu,ENST00000266589,;SCAF11,missense_variant,p.Gln86Glu,ENST00000369367,;SCAF11,downstream_gene_variant,,ENST00000395454,;SCAF11,missense_variant,p.Gln26Glu,ENST00000547018,;SCAF11,upstream_gene_variant,,ENST00000551391,;	C	ENSG00000139218	ENST00000369367	Transcript	missense_variant	490	256	86	Q/E	Cag/Gag	COSM415849	.	.	-1	SCAF11	HGNC	10784	protein_coding	YES	CCDS8748.2	ENSP00000358374	SCAFB_HUMAN	F8VXG7_HUMAN	UPI0000D481F2	.	deleterious(0.02)	possibly_damaging(0.512)	4/15	.	hmmpanther:PTHR15242:SF3,hmmpanther:PTHR15242,Gene3D:3.30.40.10,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGAAAAG	.	5	BLCA
KRT86	0	.	GRCh37	12	52695881	52695881	+	Missense_Mutation	SNP	C	C	T	rs753581743	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.181C>T	p.Arg61Cys	p.R61C	ENST00000293525	1/9	40	31	9	27	27	0	KRT86,missense_variant,p.Arg61Cys,ENST00000293525,;KRT86,missense_variant,p.Arg61Cys,ENST00000423955,;KRT86,missense_variant,p.Arg61Cys,ENST00000544024,;KRT86,missense_variant,p.Arg61Cys,ENST00000553310,;RP11-845M18.6,downstream_gene_variant,,ENST00000552441,;	T	ENSG00000170442	ENST00000293525	Transcript	missense_variant	233	181	61	R/C	Cgc/Tgc	rs753581743	.	.	1	KRT86	HGNC	6463	protein_coding	YES	CCDS41785.1	ENSP00000293525	KRT86_HUMAN	U3KPR1_HUMAN,Q9NSB0_HUMAN,Q8NFV1_HUMAN,Q8N120_HUMAN	UPI000006E57E	.	tolerated(0.06)	probably_damaging(0.993)	1/9	.	hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF143	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGACGCAGC	.	4	BLCA
SP7	0	.	GRCh37	12	53722482	53722482	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744C>T	p.%3D	p.P248P	ENST00000536324	3/3	65	42	23	31	31	0	SP7,synonymous_variant,p.%3D,ENST00000537210,;SP7,synonymous_variant,p.%3D,ENST00000547755,;SP7,synonymous_variant,p.%3D,ENST00000536324,;SP7,synonymous_variant,p.%3D,ENST00000303846,;AAAS,upstream_gene_variant,,ENST00000550286,;AAAS,upstream_gene_variant,,ENST00000548258,;AAAS,upstream_gene_variant,,ENST00000551724,;	A	ENSG00000170374	ENST00000536324	Transcript	synonymous_variant	1028	744	248	P	ccC/ccT	COSM416174	.	.	-1	SP7	HGNC	17321	protein_coding	YES	CCDS44897.1	ENSP00000443827	SP7_HUMAN	F8VV67_HUMAN	UPI000000D7AE	.	.	.	3/3	.	hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGGGGGTTT	.	5	BLCA
SARNP	0	.	GRCh37	12	56189844	56189844	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268G>A	p.Val90Met	p.V90M	ENST00000336133	5/11	62	55	6	41	41	0	SARNP,missense_variant,p.Val90Met,ENST00000552080,;SARNP,missense_variant,p.Val30Met,ENST00000444631,;SARNP,missense_variant,p.Val90Met,ENST00000336133,;RP11-762I7.5,missense_variant,p.Val403Met,ENST00000546837,;SARNP,missense_variant,p.Val90Met,ENST00000546604,;SARNP,3_prime_UTR_variant,,ENST00000552884,;SARNP,non_coding_transcript_exon_variant,,ENST00000552207,;	T	ENSG00000205323	ENST00000336133	Transcript	missense_variant	323	268	90	V/M	Gtg/Atg	COSM416154	.	.	-1	SARNP	HGNC	24432	protein_coding	YES	CCDS8892.1	ENSP00000337632	SARNP_HUMAN	.	UPI0000034E15	.	deleterious(0.03)	possibly_damaging(0.546)	5/11	.	hmmpanther:PTHR21594	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCACTTTCT	.	4	BLCA
ENO2	0	.	GRCh37	12	7024917	7024917	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-80C>T	.	.	ENST00000535366	1/11	388	105	283	82	82	0	ENO2,5_prime_UTR_variant,,ENST00000535366,;ENO2,intron_variant,,ENST00000541477,;ENO2,intron_variant,,ENST00000544774,;ENO2,intron_variant,,ENST00000229277,;ENO2,intron_variant,,ENST00000545045,;ENO2,intron_variant,,ENST00000537688,;ENO2,intron_variant,,ENST00000538763,;LRRC23,downstream_gene_variant,,ENST00000436789,;LRRC23,downstream_gene_variant,,ENST00000007969,;LRRC23,downstream_gene_variant,,ENST00000443597,;LRRC23,downstream_gene_variant,,ENST00000429740,;LRRC23,downstream_gene_variant,,ENST00000323702,;LRRC23,downstream_gene_variant,,ENST00000472633,;ENO2,non_coding_transcript_exon_variant,,ENST00000536199,;ENO2,intron_variant,,ENST00000542509,;ENO2,intron_variant,,ENST00000537838,;ENO2,intron_variant,,ENST00000539713,;ENO2,upstream_gene_variant,,ENST00000535275,;LRRC23,downstream_gene_variant,,ENST00000431207,;ENO2,upstream_gene_variant,,ENST00000441285,;LRRC23,downstream_gene_variant,,ENST00000451681,;LRRC23,downstream_gene_variant,,ENST00000428946,;	T	ENSG00000111674	ENST00000535366	Transcript	5_prime_UTR_variant	547	.	.	.	.	.	.	.	1	ENO2	HGNC	3353	protein_coding	YES	CCDS8570.1	ENSP00000437402	ENOG_HUMAN	Q6FHV6_HUMAN,F5H1C3_HUMAN	UPI000013C8F1	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGCCCATTG	.	5	BLCA
ATN1	0	.	GRCh37	12	7051130	7051130	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*187C>G	.	.	ENST00000356654	10/10	25	22	3	8	8	0	ATN1,3_prime_UTR_variant,,ENST00000356654,;ATN1,3_prime_UTR_variant,,ENST00000396684,;C12orf57,upstream_gene_variant,,ENST00000544681,;PTPN6,upstream_gene_variant,,ENST00000447931,;C12orf57,upstream_gene_variant,,ENST00000229281,;C12orf57,upstream_gene_variant,,ENST00000537087,;C12orf57,upstream_gene_variant,,ENST00000545581,;PTPN6,upstream_gene_variant,,ENST00000543115,;PTPN6,upstream_gene_variant,,ENST00000399448,;C12orf57,upstream_gene_variant,,ENST00000540506,;RNU7-1,upstream_gene_variant,,ENST00000458811,;U47924.31,downstream_gene_variant,,ENST00000607421,;PTPN6,upstream_gene_variant,,ENST00000534900,;PTPN6,upstream_gene_variant,,ENST00000543120,;C12orf57,upstream_gene_variant,,ENST00000542222,;ATN1,non_coding_transcript_exon_variant,,ENST00000537488,;C12orf57,upstream_gene_variant,,ENST00000538392,;PTPN6,upstream_gene_variant,,ENST00000542848,;PTPN6,upstream_gene_variant,,ENST00000538318,;ATN1,downstream_gene_variant,,ENST00000541029,;	G	ENSG00000111676	ENST00000356654	Transcript	3_prime_UTR_variant	3997	.	.	.	.	.	.	.	1	ATN1	HGNC	3033	protein_coding	YES	CCDS31734.1	ENSP00000349076	ATN1_HUMAN	Q86V38_HUMAN	UPI000006F554	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGTGCAGAGG	.	2	BLCA
LGR5	0	.	GRCh37	12	71960661	71960661	+	Missense_Mutation	SNP	G	G	C	rs148862507	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039G>C	p.Val347Leu	p.V347L	ENST00000266674	11/18	63	49	14	78	78	0	LGR5,missense_variant,p.Val275Leu,ENST00000536515,;LGR5,missense_variant,p.Val347Leu,ENST00000266674,;LGR5,missense_variant,p.Val323Leu,ENST00000540815,;LGR5,non_coding_transcript_exon_variant,,ENST00000550851,;LGR5,upstream_gene_variant,,ENST00000547310,;LGR5,upstream_gene_variant,,ENST00000549015,;	C	ENSG00000139292	ENST00000266674	Transcript	missense_variant	1350	1039	347	V/L	Gtc/Ctc	rs148862507,COSM416078	.	.	1	LGR5	HGNC	4504	protein_coding	YES	CCDS9000.1	ENSP00000266674	LGR5_HUMAN	.	UPI000004B65C	.	tolerated(1)	benign(0.023)	11/18	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24367:SF259,hmmpanther:PTHR24367,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52047	A:0.0008	A:0.003	A:0	.	A:0	A:0	A:0	A:0.0045	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACCGTCTGC	byFrequency|byCluster|by1000G	5	BLCA
CLEC4C	0	.	GRCh37	12	7883442	7883442	+	Missense_Mutation	SNP	G	G	A	rs755666288	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.448C>T	p.Arg150Trp	p.R150W	ENST00000542353	6/7	412	393	19	117	117	0	CLEC4C,missense_variant,p.Arg150Trp,ENST00000542353,;CLEC4C,missense_variant,p.Arg72Trp,ENST00000537530,;CLEC4C,missense_variant,p.Arg110Trp,ENST00000543765,;CLEC4C,missense_variant,p.Arg119Trp,ENST00000354629,;CLEC4C,missense_variant,p.Arg150Trp,ENST00000360345,;CLEC4C,missense_variant,p.Arg119Trp,ENST00000540085,;	A	ENSG00000198178	ENST00000542353	Transcript	missense_variant	939	448	150	R/W	Cgg/Tgg	rs755666288,COSM416060	.	.	-1	CLEC4C	HGNC	13258	protein_coding	YES	CCDS8583.1	ENSP00000440428	CLC4C_HUMAN	H0YFH6_HUMAN	UPI000003C38D	.	tolerated(0.1)	benign(0.005)	6/7	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF204,hmmpanther:PTHR22802,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGCCGACCCC	.	2	BLCA
CLEC4D	0	.	GRCh37	12	8672931	8672931	+	Missense_Mutation	SNP	G	G	A	rs201112913	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.494G>A	p.Arg165His	p.R165H	ENST00000299665	5/6	100	89	10	42	42	0	CLEC4D,missense_variant,p.Arg165His,ENST00000299665,;CLEC4D,downstream_gene_variant,,ENST00000382064,;	A	ENSG00000166527	ENST00000299665	Transcript	missense_variant	687	494	165	R/H	cGc/cAc	rs201112913,COSM416481	.	.	1	CLEC4D	HGNC	14554	protein_coding	YES	CCDS8593.1	ENSP00000299665	CLC4D_HUMAN	A6NHA5_HUMAN	UPI0000072EBB	.	tolerated(1)	benign(0.004)	5/6	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF11,hmmpanther:PTHR22802,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	A:0	A:0.0003	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCACGCAGAG	byFrequency|byCluster	2	BLCA
ARHGAP5	0	.	GRCh37	14	32561433	32561433	+	Missense_Mutation	SNP	A	A	G	rs777429255	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1558A>G	p.Thr520Ala	p.T520A	ENST00000345122	2/7	35	32	3	45	45	0	ARHGAP5,missense_variant,p.Thr520Ala,ENST00000432921,;ARHGAP5,missense_variant,p.Thr520Ala,ENST00000539826,;ARHGAP5,missense_variant,p.Thr520Ala,ENST00000345122,;ARHGAP5,missense_variant,p.Thr520Ala,ENST00000556611,;ARHGAP5,intron_variant,,ENST00000554090,;ARHGAP5,intron_variant,,ENST00000396582,;ARHGAP5,intron_variant,,ENST00000433497,;ARHGAP5,downstream_gene_variant,,ENST00000556191,;ARHGAP5,downstream_gene_variant,,ENST00000555814,;ARHGAP5,upstream_gene_variant,,ENST00000557643,;	G	ENSG00000100852	ENST00000345122	Transcript	missense_variant	1873	1558	520	T/A	Aca/Gca	rs777429255,COSM416713	.	.	1	ARHGAP5	HGNC	675	protein_coding	YES	CCDS32062.1	ENSP00000371897	RHG05_HUMAN	G3V5I7_HUMAN,G3V444_HUMAN,G3V360_HUMAN	UPI000057B85C	.	tolerated(0.26)	benign(0)	2/7	.	PROSITE_profiles:PS51676,hmmpanther:PTHR15377,hmmpanther:PTHR15377:SF4,Pfam_domain:PF01846,SMART_domains:SM00441	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TTCATACAGTT	byFrequency	2	BLCA
RP11-96O20.2	0	.	GRCh37	15	45848135	45848135	+	5'Flank	SNP	T	T	C	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000557965	.	67	49	17	74	74	0	RP11-96O20.2,upstream_gene_variant,,ENST00000557965,;HMGN2P46,non_coding_transcript_exon_variant,,ENST00000409454,;HMGN2P46,non_coding_transcript_exon_variant,,ENST00000396644,;HMGN2P46,non_coding_transcript_exon_variant,,ENST00000396645,;HMGN2P46,non_coding_transcript_exon_variant,,ENST00000313559,;HMGN2P46,intron_variant,,ENST00000568669,;HMGN2P46,downstream_gene_variant,,ENST00000564594,;HMGN2P46,non_coding_transcript_exon_variant,,ENST00000598619,;	C	ENSG00000259681	ENST00000557965	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2661	1	RP11-96O20.2	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAGTGTGTG	.	5	BLCA
WDR72	0	.	GRCh37	15	53907975	53907975	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2428G>T	p.Asp810Tyr	p.D810Y	ENST00000396328	15/20	102	83	19	186	186	0	WDR72,missense_variant,p.Asp820Tyr,ENST00000559418,;WDR72,missense_variant,p.Asp807Tyr,ENST00000557913,;WDR72,missense_variant,p.Asp810Tyr,ENST00000396328,;WDR72,missense_variant,p.Asp810Tyr,ENST00000360509,;WDR72,downstream_gene_variant,,ENST00000560036,;	A	ENSG00000166415	ENST00000396328	Transcript	missense_variant	2668	2428	810	D/Y	Gat/Tat	COSM416899	.	.	-1	WDR72	HGNC	26790	protein_coding	YES	CCDS10151.1	ENSP00000379619	WDR72_HUMAN	H0YN02_HUMAN	UPI00001D777D	.	deleterious(0.01)	benign(0.392)	15/20	.	hmmpanther:PTHR12816:SF18,hmmpanther:PTHR12816	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATCTTTAT	.	5	BLCA
SPESP1	0	.	GRCh37	15	69238675	69238675	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.802G>A	p.Ala268Thr	p.A268T	ENST00000310673	2/2	50	38	12	78	78	0	SPESP1,missense_variant,p.Ala268Thr,ENST00000310673,;NOX5,intron_variant,,ENST00000455873,;NOX5,intron_variant,,ENST00000448182,;NOX5,intron_variant,,ENST00000260364,;SPESP1,downstream_gene_variant,,ENST00000560188,;SPESP1,downstream_gene_variant,,ENST00000561467,;RP11-809H16.2,intron_variant,,ENST00000557966,;	A	ENSG00000258484	ENST00000310673	Transcript	missense_variant	956	802	268	A/T	Gca/Aca	COSM416843	.	.	1	SPESP1	HGNC	15570	protein_coding	YES	CCDS10230.1	ENSP00000312284	SPESP_HUMAN	.	UPI0000072E8F	.	deleterious(0)	probably_damaging(0.998)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31667:SF2,hmmpanther:PTHR31667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTAGCAGCA	.	5	BLCA
ARIH1	0	.	GRCh37	15	72879610	72879610	+	3'UTR	SNP	A	A	T	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*3977A>T	.	.	ENST00000379887	14/14	30	18	12	37	37	0	ARIH1,3_prime_UTR_variant,,ENST00000379887,;MIR630,non_coding_transcript_exon_variant,,ENST00000384957,;RP11-1006G14.4,upstream_gene_variant,,ENST00000566291,;ARIH1,downstream_gene_variant,,ENST00000562891,;ARIH1,downstream_gene_variant,,ENST00000563310,;ARIH1,downstream_gene_variant,,ENST00000566063,;	T	ENSG00000166233	ENST00000379887	Transcript	3_prime_UTR_variant	5965	.	.	.	.	.	.	.	1	ARIH1	HGNC	689	protein_coding	YES	CCDS10244.1	ENSP00000369217	ARI1_HUMAN	.	UPI0000033466	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAGAATGAC	.	5	BLCA
PRC1	0	.	GRCh37	15	91513733	91513734	+	In_Frame_Ins	INS	-	-	GTA	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1470_1472dupTAC	p.Thr492dup	p.T492dup	ENST00000394249	12/15	120	44	76	83	83	0	PRC1,inframe_insertion,p.Thr492dup,ENST00000361188,;PRC1,inframe_insertion,p.Thr492dup,ENST00000361919,;PRC1,inframe_insertion,p.Thr451dup,ENST00000442656,;PRC1,inframe_insertion,p.Thr492dup,ENST00000394249,;PRC1,inframe_insertion,p.Thr109dup,ENST00000555455,;PRC1,intron_variant,,ENST00000559828,;PRC1,upstream_gene_variant,,ENST00000556972,;PRC1,upstream_gene_variant,,ENST00000560423,;PRC1-AS1,intron_variant,,ENST00000556200,;PRC1-AS1,intron_variant,,ENST00000554388,;PRC1,downstream_gene_variant,,ENST00000559326,;PRC1,downstream_gene_variant,,ENST00000560914,;	GTA	ENSG00000198901	ENST00000394249	Transcript	inframe_insertion	1550-1551	1472-1473	491	T/TT	acc/acTACc	.	.	.	-1	PRC1	HGNC	9341	protein_coding	YES	CCDS32334.1	ENSP00000377793	PRC1_HUMAN	.	UPI00001A5ED8	.	.	.	12/15	.	Pfam_domain:PF03999,hmmpanther:PTHR19321:SF1,hmmpanther:PTHR19321,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATGGTGGTAGT	.	3	BLCA
NPIPA1	0	.	GRCh37	16	15026477	15026477	+	5'Flank	SNP	C	C	T	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000328085	.	28	20	8	15	15	0	NPIPA1,upstream_gene_variant,,ENST00000328085,;NPIPA1,non_coding_transcript_exon_variant,,ENST00000541836,;NPIPA1,non_coding_transcript_exon_variant,,ENST00000472413,;NPIPA1,upstream_gene_variant,,ENST00000545831,;RP11-958N24.1,non_coding_transcript_exon_variant,,ENST00000534164,;	T	ENSG00000183426	ENST00000328085	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	4823	1	NPIPA1	HGNC	7909	protein_coding	YES	CCDS10557.1	ENSP00000331843	NPIA1_HUMAN	Q3LIA7_HUMAN	UPI00001AF6E4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CGGAGCGGCCA	.	2	BLCA
RBBP6	0	.	GRCh37	16	24580584	24580584	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2573A>G	p.Glu858Gly	p.E858G	ENST00000319715	17/18	102	64	37	71	71	0	RBBP6,missense_variant,p.Glu858Gly,ENST00000319715,;RBBP6,missense_variant,p.Glu824Gly,ENST00000348022,;RBBP6,missense_variant,p.Glu725Gly,ENST00000564314,;RBBP6,intron_variant,,ENST00000381039,;RBBP6,non_coding_transcript_exon_variant,,ENST00000562430,;RBBP6,downstream_gene_variant,,ENST00000570185,;	G	ENSG00000122257	ENST00000319715	Transcript	missense_variant	3005	2573	858	E/G	gAg/gGg	COSM417093	.	.	1	RBBP6	HGNC	9889	protein_coding	YES	CCDS10621.1	ENSP00000317872	RBBP6_HUMAN	I3L3Y2_HUMAN,H3BUN0_HUMAN,H3BSK8_HUMAN	UPI00001A96B8	.	deleterious_low_confidence(0.01)	unknown(0)	17/18	.	hmmpanther:PTHR15439:SF1,hmmpanther:PTHR15439	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGAGAGAACT	.	5	BLCA
SRRM2	0	.	GRCh37	16	2806515	2806515	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.150G>A	p.%3D	p.V50V	ENST00000301740	2/15	71	54	17	59	59	0	SRRM2,synonymous_variant,p.%3D,ENST00000576924,;SRRM2,synonymous_variant,p.%3D,ENST00000574340,;SRRM2,synonymous_variant,p.%3D,ENST00000301740,;SRRM2,intron_variant,,ENST00000571378,;SRRM2,intron_variant,,ENST00000575009,;SRRM2,intron_variant,,ENST00000576415,;SRRM2-AS1,upstream_gene_variant,,ENST00000570677,;SRRM2-AS1,upstream_gene_variant,,ENST00000573802,;SRRM2,upstream_gene_variant,,ENST00000572278,;SRRM2,upstream_gene_variant,,ENST00000575870,;SRRM2,non_coding_transcript_exon_variant,,ENST00000575701,;SRRM2,non_coding_transcript_exon_variant,,ENST00000576894,;SRRM2,upstream_gene_variant,,ENST00000570655,;SRRM2,upstream_gene_variant,,ENST00000573451,;SRRM2,upstream_gene_variant,,ENST00000576076,;SRRM2,upstream_gene_variant,,ENST00000573498,;SRRM2,upstream_gene_variant,,ENST00000570971,;SRRM2,upstream_gene_variant,,ENST00000571372,;SRRM2,upstream_gene_variant,,ENST00000572952,;	A	ENSG00000167978	ENST00000301740	Transcript	synonymous_variant	699	150	50	V	gtG/gtA	COSM417077	.	.	1	SRRM2	HGNC	16639	protein_coding	YES	CCDS32373.1	ENSP00000301740	SRRM2_HUMAN	I3L4D8_HUMAN,I3L1I8_HUMAN,I3L1C0_HUMAN,I3L182_HUMAN,I3L0N7_HUMAN	UPI000049DDFC	.	.	.	2/15	.	hmmpanther:PTHR32093:SF13,hmmpanther:PTHR32093	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGAAGCG	.	5	BLCA
TBC1D10B	0	.	GRCh37	16	30376495	30376495	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1095C>T	p.%3D	p.L365L	ENST00000409939	3/9	71	60	10	48	48	0	TBC1D10B,synonymous_variant,p.%3D,ENST00000409939,;TBC1D10B,synonymous_variant,p.%3D,ENST00000490703,;TBC1D10B,non_coding_transcript_exon_variant,,ENST00000478158,;TBC1D10B,non_coding_transcript_exon_variant,,ENST00000464644,;TBC1D10B,upstream_gene_variant,,ENST00000475872,;	A	ENSG00000169221	ENST00000409939	Transcript	synonymous_variant	1176	1095	365	L	ctC/ctT	COSM417050,COSM1133475	.	.	-1	TBC1D10B	HGNC	24510	protein_coding	YES	CCDS10676.2	ENSP00000386538	TB10B_HUMAN	.	UPI000164FA1A	.	.	.	3/9	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957:SF207,hmmpanther:PTHR22957,Pfam_domain:PF00566,Gene3D:2qq8A02,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTGAGAGA	.	4	BLCA
ZNF205	0	.	GRCh37	16	3169745	3169745	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1084A>G	p.Lys362Glu	p.K362E	ENST00000382192	7/7	154	123	30	127	127	0	ZNF205,missense_variant,p.Lys251Glu,ENST00000570935,;ZNF205,missense_variant,p.Lys362Glu,ENST00000382192,;ZNF205,missense_variant,p.Lys362Glu,ENST00000219091,;ZNF205,downstream_gene_variant,,ENST00000414351,;ZNF205,downstream_gene_variant,,ENST00000444510,;RP11-473M20.14,intron_variant,,ENST00000575139,;RP11-473M20.14,intron_variant,,ENST00000576490,;ZNF205-AS1,upstream_gene_variant,,ENST00000572691,;	G	ENSG00000122386	ENST00000382192	Transcript	missense_variant	1289	1084	362	K/E	Aag/Gag	COSM417028	.	.	1	ZNF205	HGNC	12996	protein_coding	YES	CCDS10494.2	ENSP00000371627	ZN205_HUMAN	C9JS60_HUMAN,C9JEY6_HUMAN,B2R7J8_HUMAN	UPI00000437F2	.	deleterious(0)	probably_damaging(0.98)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23226,hmmpanther:PTHR23226:SF46,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGAGAAGCCC	.	5	BLCA
VPS35	0	.	GRCh37	16	46694417	46694417	+	Silent	SNP	G	G	A	rs762118625	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2358C>T	p.%3D	p.S786S	ENST00000299138	17/17	71	55	15	85	85	0	VPS35,synonymous_variant,p.%3D,ENST00000299138,;RP11-93O14.2,downstream_gene_variant,,ENST00000569353,;VPS35,3_prime_UTR_variant,,ENST00000568784,;VPS35,downstream_gene_variant,,ENST00000562420,;	A	ENSG00000069329	ENST00000299138	Transcript	synonymous_variant	2417	2358	786	S	tcC/tcT	rs762118625,COSM417001	.	.	-1	VPS35	HGNC	13487	protein_coding	YES	CCDS10721.1	ENSP00000299138	VPS35_HUMAN	.	UPI0000138BEF	.	.	.	17/17	.	hmmpanther:PTHR11099,PIRSF_domain:PIRSF009375	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTCGGATTC	byFrequency	5	BLCA
CDH11	0	.	GRCh37	16	64984769	64984769	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1795G>A	p.Gly599Arg	p.G599R	ENST00000268603	12/13	37	27	9	39	39	0	CDH11,missense_variant,p.Gly599Arg,ENST00000394156,;CDH11,missense_variant,p.Gly599Arg,ENST00000268603,;CDH11,missense_variant,p.Gly473Arg,ENST00000566827,;	T	ENSG00000140937	ENST00000268603	Transcript	missense_variant	2411	1795	599	G/R	Ggg/Agg	COSM416946,COSM4061632	.	.	-1	CDH11	HGNC	1750	protein_coding	YES	CCDS10803.1	ENSP00000268603	CAD11_HUMAN	H3BUU9_HUMAN,H3BSM4_HUMAN,H3BR78_HUMAN,H3BQH2_HUMAN,H3BQB5_HUMAN,H3BPQ2_HUMAN,H3BP26_HUMAN	UPI000013D7C5	.	deleterious(0.02)	benign(0.326)	12/13	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF85,hmmpanther:PTHR24027,SMART_domains:SM00112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N598N|c.1794C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCCCGTTCA	.	5	BLCA
IL34	0	.	GRCh37	16	70694047	70694047	+	Missense_Mutation	SNP	C	C	T	rs773778670	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.686C>T	p.Ser229Leu	p.S229L	ENST00000429149	7/7	124	107	16	67	66	1	IL34,missense_variant,p.Ser229Leu,ENST00000288098,;IL34,missense_variant,p.Ser229Leu,ENST00000429149,;IL34,missense_variant,p.Ser204Leu,ENST00000566361,;FLJ00418,upstream_gene_variant,,ENST00000597002,;MTSS1L,downstream_gene_variant,,ENST00000338779,;IL34,downstream_gene_variant,,ENST00000569641,;IL34,downstream_gene_variant,,ENST00000574181,;	T	ENSG00000157368	ENST00000429149	Transcript	missense_variant	1241	686	229	S/L	tCg/tTg	rs773778670,COSM417291	.	.	1	IL34	HGNC	28529	protein_coding	YES	CCDS10895.1	ENSP00000397863	IL34_HUMAN	J3QQT3_HUMAN,H3BPB7_HUMAN	UPI000004C5C6	.	tolerated_low_confidence(0.15)	benign(0.001)	7/7	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S229L|c.686C>T|3	RADIA|MUTECT|MUSE|VARSCANS	GGGCTCGGTGA	byFrequency	4	BLCA
MYOCD	0	.	GRCh37	17	12666707	12666707	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2707G>A	p.Glu903Lys	p.E903K	ENST00000425538	14/14	45	23	22	52	52	0	MYOCD,missense_variant,p.Glu855Lys,ENST00000343344,;MYOCD,missense_variant,p.Glu565Lys,ENST00000443061,;MYOCD,missense_variant,p.Glu903Lys,ENST00000425538,;RP11-1090M7.1,non_coding_transcript_exon_variant,,ENST00000584772,;	A	ENSG00000141052	ENST00000425538	Transcript	missense_variant	2907	2707	903	E/K	Gag/Aag	COSM417189,COSM1133482	.	.	1	MYOCD	HGNC	16067	protein_coding	YES	CCDS54091.1	ENSP00000401678	MYCD_HUMAN	.	UPI000022A2E2	.	deleterious(0.03)	probably_damaging(0.998)	14/14	.	hmmpanther:PTHR22793,hmmpanther:PTHR22793:SF11	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATGAGATC	.	5	BLCA
KRT35	0	.	GRCh37	17	39633148	39633148	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*53C>G	.	.	ENST00000393989	8/8	13	4	8	21	21	0	KRT35,3_prime_UTR_variant,,ENST00000246639,;KRT35,3_prime_UTR_variant,,ENST00000393989,;	C	ENSG00000197079	ENST00000393989	Transcript	3_prime_UTR_variant	1464	.	.	.	.	.	.	.	-1	KRT35	HGNC	6453	protein_coding	YES	CCDS11394.2	ENSP00000377558	KRT35_HUMAN	C4AM86_HUMAN	UPI0000D74C4B	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGAGAAA	.	4	BLCA
EFTUD2	0	.	GRCh37	17	42928692	42928692	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2869A>G	p.Met957Val	p.M957V	ENST00000426333	28/28	158	57	101	178	178	0	EFTUD2,missense_variant,p.Met922Val,ENST00000402521,;EFTUD2,missense_variant,p.Met957Val,ENST00000591382,;EFTUD2,missense_variant,p.Met957Val,ENST00000426333,;EFTUD2,missense_variant,p.Met947Val,ENST00000592576,;EFTUD2,missense_variant,p.Met208Val,ENST00000590124,;HIGD1B,downstream_gene_variant,,ENST00000587021,;HIGD1B,downstream_gene_variant,,ENST00000591513,;HIGD1B,downstream_gene_variant,,ENST00000253410,;HIGD1B,downstream_gene_variant,,ENST00000590423,;EFTUD2,3_prime_UTR_variant,,ENST00000589769,;EFTUD2,non_coding_transcript_exon_variant,,ENST00000590367,;EFTUD2,non_coding_transcript_exon_variant,,ENST00000586276,;EFTUD2,non_coding_transcript_exon_variant,,ENST00000590977,;EFTUD2,downstream_gene_variant,,ENST00000588340,;HIGD1B,downstream_gene_variant,,ENST00000586911,;	C	ENSG00000108883	ENST00000426333	Transcript	missense_variant	3167	2869	957	M/V	Atg/Gtg	COSM417494	.	.	-1	EFTUD2	HGNC	30858	protein_coding	YES	CCDS11489.1	ENSP00000392094	U5S1_HUMAN	K7EIV5_HUMAN,K7EIT3_HUMAN,B3KX19_HUMAN	UPI0000137931	.	deleterious(0.02)	possibly_damaging(0.542)	28/28	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACATAGGAT	.	5	BLCA
DGKE	0	.	GRCh37	17	54912463	54912463	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307G>C	p.Asp103His	p.D103H	ENST00000284061	2/12	52	41	10	61	61	0	DGKE,missense_variant,p.Asp47His,ENST00000572944,;DGKE,missense_variant,p.Asp103His,ENST00000284061,;DGKE,missense_variant,p.Asp103His,ENST00000572810,;C17orf67,upstream_gene_variant,,ENST00000397861,;C17orf67,upstream_gene_variant,,ENST00000575658,;DGKE,non_coding_transcript_exon_variant,,ENST00000576869,;C17orf67,intron_variant,,ENST00000487705,;	C	ENSG00000153933	ENST00000284061	Transcript	missense_variant	487	307	103	D/H	Gac/Cac	COSM417437	.	.	1	DGKE	HGNC	2852	protein_coding	YES	CCDS11590.1	ENSP00000284061	DGKE_HUMAN	A1L4Q0_HUMAN	UPI000012DD1F	.	deleterious(0.01)	possibly_damaging(0.83)	2/12	.	SMART_domains:SM00109,Gene3D:3.30.60.20,Pfam_domain:PF00130,PROSITE_patterns:PS00479,hmmpanther:PTHR11255:SF39,hmmpanther:PTHR11255,PROSITE_profiles:PS50081	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L99R|c.296T>G|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGACAAG	.	5	BLCA
GAREM	0	.	GRCh37	18	29867362	29867362	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>A	p.Glu400Lys	p.E400K	ENST00000269209	4/6	77	68	8	52	52	0	GAREM,missense_variant,p.Glu400Lys,ENST00000399218,;GAREM,missense_variant,p.Glu400Lys,ENST00000269209,;GAREM,upstream_gene_variant,,ENST00000583696,;RP11-344B2.2,upstream_gene_variant,,ENST00000579580,;GAREM,downstream_gene_variant,,ENST00000578619,;	T	ENSG00000141441	ENST00000269209	Transcript	missense_variant	1202	1198	400	E/K	Gag/Aag	COSM417860	.	.	-1	GAREM	HGNC	26136	protein_coding	YES	CCDS56057.1	ENSP00000269209	GAREM_HUMAN	.	UPI00005A72DA	.	deleterious(0.04)	possibly_damaging(0.77)	4/6	.	hmmpanther:PTHR14454:SF6,hmmpanther:PTHR14454	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTCACTGT	.	4	BLCA
L3MBTL4	0	.	GRCh37	18	6237978	6237978	+	Missense_Mutation	SNP	G	G	C	rs747757098	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769C>G	p.Leu257Val	p.L257V	ENST00000284898	10/20	133	111	22	85	85	0	L3MBTL4,missense_variant,p.Leu257Val,ENST00000317931,;L3MBTL4,missense_variant,p.Leu257Val,ENST00000284898,;L3MBTL4,missense_variant,p.Leu257Val,ENST00000400105,;L3MBTL4,missense_variant,p.Leu257Val,ENST00000400104,;L3MBTL4,missense_variant,p.Leu70Val,ENST00000535782,;L3MBTL4,downstream_gene_variant,,ENST00000583054,;	C	ENSG00000154655	ENST00000284898	Transcript	missense_variant	970	769	257	L/V	Ctg/Gtg	rs747757098,COSM417808	.	.	-1	L3MBTL4	HGNC	26677	protein_coding	YES	CCDS11839.2	ENSP00000284898	LMBL4_HUMAN	J3QLK8_HUMAN,J3KS41_HUMAN,J3KRN7_HUMAN	UPI000013DDC0	.	deleterious(0.01)	benign(0.038)	10/20	.	PROSITE_profiles:PS51079,hmmpanther:PTHR12247,hmmpanther:PTHR12247:SF78,Pfam_domain:PF02820,Gene3D:2.30.30.160,SMART_domains:SM00561,Superfamily_domains:SSF63748	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCAGAGTTC	.	5	BLCA
MAN2B1	0	.	GRCh37	19	12760960	12760960	+	Missense_Mutation	SNP	C	C	T	rs371812948	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2123G>A	p.Arg708Gln	p.R708Q	ENST00000456935	17/24	93	63	30	107	107	0	MAN2B1,missense_variant,p.Arg707Gln,ENST00000221363,;MAN2B1,missense_variant,p.Arg708Gln,ENST00000456935,;MAN2B1,downstream_gene_variant,,ENST00000595880,;MAN2B1,downstream_gene_variant,,ENST00000433513,;MAN2B1,upstream_gene_variant,,ENST00000480851,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000466794,;MAN2B1,upstream_gene_variant,,ENST00000469423,;CTD-2192J16.22,upstream_gene_variant,,ENST00000597692,;MAN2B1,upstream_gene_variant,,ENST00000493218,;MAN2B1,downstream_gene_variant,,ENST00000596591,;MAN2B1,downstream_gene_variant,,ENST00000593686,;	T	ENSG00000104774	ENST00000456935	Transcript	missense_variant	2164	2123	708	R/Q	cGg/cAg	rs371812948,COSM417751	.	.	-1	MAN2B1	HGNC	6826	protein_coding	YES	CCDS32919.1	ENSP00000395473	MA2B1_HUMAN	B4E0K9_HUMAN	UPI00000559EC	.	tolerated(0.17)	benign(0.086)	17/24	.	hmmpanther:PTHR11607:SF3,hmmpanther:PTHR11607,Pfam_domain:PF07748,Gene3D:2.70.98.30,Superfamily_domains:SSF74650	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGCCGCTGT	byCluster	5	BLCA
ZNF99	0	.	GRCh37	19	22941065	22941065	+	Missense_Mutation	SNP	G	G	T	rs758972266	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1646C>A	p.Ser549Tyr	p.S549Y	ENST00000596209	4/4	31	21	10	60	60	0	ZNF99,missense_variant,p.Ser458Tyr,ENST00000397104,;ZNF99,missense_variant,p.Ser549Tyr,ENST00000596209,;CTC-451A6.4,upstream_gene_variant,,ENST00000442497,;	T	ENSG00000213973	ENST00000596209	Transcript	missense_variant	1737	1646	549	S/Y	tCc/tAc	rs758972266,COSM3531744,COSM418367	.	.	-1	ZNF99	HGNC	13175	protein_coding	YES	CCDS59369.1	ENSP00000472969	.	M0R335_HUMAN	UPI0000426011	.	tolerated(0.56)	benign(0.246)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24375:SF102,hmmpanther:PTHR24375,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAGGAATTG	.	5	BLCA
CEP89	0	.	GRCh37	19	33444638	33444638	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375C>T	p.%3D	p.D125D	ENST00000305768	4/19	152	128	23	115	115	0	CEP89,synonymous_variant,p.%3D,ENST00000590597,;CEP89,synonymous_variant,p.%3D,ENST00000593276,;CEP89,synonymous_variant,p.%3D,ENST00000305768,;CEP89,synonymous_variant,p.%3D,ENST00000591698,;CEP89,synonymous_variant,p.%3D,ENST00000586984,;	A	ENSG00000121289	ENST00000305768	Transcript	synonymous_variant	464	375	125	D	gaC/gaT	COSM418337	.	.	-1	CEP89	HGNC	25907	protein_coding	YES	CCDS32987.1	ENSP00000306105	CEP89_HUMAN	.	UPI000020202C	.	.	.	4/19	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTCGTCCCC	.	4	BLCA
KCTD15	0	.	GRCh37	19	34297838	34297838	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313C>T	p.Arg105Trp	p.R105W	ENST00000430256	4/6	107	85	21	84	84	0	KCTD15,missense_variant,p.Arg105Trp,ENST00000588881,;KCTD15,missense_variant,p.Arg105Trp,ENST00000587559,;KCTD15,missense_variant,p.Arg105Trp,ENST00000284006,;KCTD15,missense_variant,p.Arg105Trp,ENST00000589786,;KCTD15,missense_variant,p.Arg105Trp,ENST00000587658,;KCTD15,missense_variant,p.Arg105Trp,ENST00000430256,;KCTD15,missense_variant,p.Arg4Trp,ENST00000590385,;KCTD15,downstream_gene_variant,,ENST00000588637,;	T	ENSG00000153885	ENST00000430256	Transcript	missense_variant	721	313	105	R/W	Cgg/Tgg	COSM418335	.	.	1	KCTD15	HGNC	23297	protein_coding	YES	CCDS46039.1	ENSP00000394390	KCD15_HUMAN	K7EQS3_HUMAN,K7EPF0_HUMAN,K7EN63_HUMAN,K7EM48_HUMAN,K7EIF1_HUMAN	UPI000004D340	.	deleterious(0)	probably_damaging(0.999)	4/6	.	hmmpanther:PTHR14499:SF27,hmmpanther:PTHR14499,Pfam_domain:PF02214,Gene3D:3.30.710.10,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGACCGGGAT	.	5	BLCA
CREB3L3	0	.	GRCh37	19	4159760	4159760	+	Missense_Mutation	SNP	C	C	T	rs377239800	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.557C>T	p.Ser186Leu	p.S186L	ENST00000078445	4/10	55	35	20	45	45	0	CREB3L3,missense_variant,p.Ser186Leu,ENST00000078445,;CREB3L3,missense_variant,p.Ser186Leu,ENST00000602147,;CREB3L3,missense_variant,p.Ser186Leu,ENST00000602257,;CREB3L3,missense_variant,p.Ser185Leu,ENST00000595923,;CREB3L3,intron_variant,,ENST00000252587,;CREB3L3,upstream_gene_variant,,ENST00000598894,;	T	ENSG00000060566	ENST00000078445	Transcript	missense_variant	704	557	186	S/L	tCg/tTg	rs377239800,COSM418233	.	.	1	CREB3L3	HGNC	18855	protein_coding	YES	CCDS12121.1	ENSP00000078445	CR3L3_HUMAN	.	UPI000006FCF0	.	deleterious(0.01)	benign(0.349)	4/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22952,hmmpanther:PTHR22952:SF98	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCGGGCA	byFrequency|byCluster	5	BLCA
ZNF404	0	.	GRCh37	19	44378000	44378000	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366G>C	p.Lys122Asn	p.K122N	ENST00000587539	3/3	141	118	23	131	131	0	ZNF404,missense_variant,p.Lys120Asn,ENST00000324394,;ZNF404,missense_variant,p.Lys122Asn,ENST00000587539,;	G	ENSG00000176222	ENST00000587539	Transcript	missense_variant	366	366	122	K/N	aaG/aaC	COSM418190	.	.	-1	ZNF404	HGNC	19417	protein_coding	YES	CCDS59394.1	ENSP00000466051	.	Q86WM5_HUMAN,K7ELF2_HUMAN	UPI00001D8172	.	deleterious(0.02)	benign(0.004)	3/3	.	Superfamily_domains:SSF57667,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF53	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTTATG	.	5	BLCA
GPR108	0	.	GRCh37	19	6730391	6730391	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1564A>C	p.Thr522Pro	p.T522P	ENST00000264080	18/18	60	41	19	69	69	0	GPR108,missense_variant,p.Thr280Pro,ENST00000430424,;GPR108,missense_variant,p.Thr522Pro,ENST00000264080,;GPR108,missense_variant,p.Thr156Pro,ENST00000594034,;C3,intron_variant,,ENST00000600744,;GPR108,intron_variant,,ENST00000594500,;GPR108,downstream_gene_variant,,ENST00000597298,;GPR108,downstream_gene_variant,,ENST00000598955,;GPR108,downstream_gene_variant,,ENST00000601716,;GPR108,non_coding_transcript_exon_variant,,ENST00000598626,;GPR108,non_coding_transcript_exon_variant,,ENST00000537722,;GPR108,3_prime_UTR_variant,,ENST00000597706,;GPR108,3_prime_UTR_variant,,ENST00000595908,;GPR108,downstream_gene_variant,,ENST00000600773,;GPR108,downstream_gene_variant,,ENST00000595620,;GPR108,downstream_gene_variant,,ENST00000595108,;GPR108,downstream_gene_variant,,ENST00000598052,;	G	ENSG00000125734	ENST00000264080	Transcript	missense_variant	1591	1564	522	T/P	Acg/Ccg	COSM418730	.	.	-1	GPR108	HGNC	17829	protein_coding	YES	CCDS42479.1	ENSP00000264080	GP108_HUMAN	Q96I30_HUMAN,M0QZ03_HUMAN,G5E9L6_HUMAN	UPI00001D8222	.	deleterious(0.03)	possibly_damaging(0.826)	18/18	.	hmmpanther:PTHR21229:SF11,hmmpanther:PTHR21229	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCGTCATTC	.	5	BLCA
KIAA1324	0	.	GRCh37	1	109737054	109737055	+	In_Frame_Ins	INS	-	-	TGC	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1961_1963dupGCT	p.Cys654dup	p.C654dup	ENST00000369939	15/22	71	52	19	61	61	0	KIAA1324,inframe_insertion,p.Cys567dup,ENST00000529753,;KIAA1324,inframe_insertion,p.Cys654dup,ENST00000369939,;KIAA1324,inframe_insertion,p.Cys604dup,ENST00000457623,;KIAA1324,non_coding_transcript_exon_variant,,ENST00000369938,;KIAA1324,3_prime_UTR_variant,,ENST00000527996,;KIAA1324,non_coding_transcript_exon_variant,,ENST00000369936,;KIAA1324,downstream_gene_variant,,ENST00000490758,;KIAA1324,downstream_gene_variant,,ENST00000464345,;	TGC	ENSG00000116299	ENST00000369939	Transcript	inframe_insertion	2142-2143	1959-1960	653-654	-/C	-/TGC	.	.	.	1	KIAA1324	HGNC	29618	protein_coding	YES	CCDS794.1	ENSP00000358955	K1324_HUMAN	E9PS21_HUMAN,E9PMS2_HUMAN,E9PLY8_HUMAN,E9PLQ2_HUMAN	UPI00002051E0	.	.	.	15/22	.	hmmpanther:PTHR22727,hmmpanther:PTHR22727:SF13,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	insertion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCTCTGTGCTA	.	3	BLCA
PYGO2	0	.	GRCh37	1	154932319	154932319	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157C>T	p.Pro53Ser	p.P53S	ENST00000368457	3/3	38	31	7	16	16	0	PYGO2,missense_variant,p.Pro16Ser,ENST00000368456,;PYGO2,missense_variant,p.Pro53Ser,ENST00000368457,;PBXIP1,upstream_gene_variant,,ENST00000542459,;SHC1,downstream_gene_variant,,ENST00000448116,;SHC1,downstream_gene_variant,,ENST00000368445,;PBXIP1,upstream_gene_variant,,ENST00000368460,;PBXIP1,upstream_gene_variant,,ENST00000539880,;SHC1,downstream_gene_variant,,ENST00000444664,;SHC1,downstream_gene_variant,,ENST00000368453,;PBXIP1,upstream_gene_variant,,ENST00000368465,;SHC1,downstream_gene_variant,,ENST00000368449,;SHC1,downstream_gene_variant,,ENST00000606391,;PBXIP1,upstream_gene_variant,,ENST00000368463,;SHC1,downstream_gene_variant,,ENST00000368450,;RP11-307C12.12,upstream_gene_variant,,ENST00000605085,;PYGO2,non_coding_transcript_exon_variant,,ENST00000483463,;SHC1,downstream_gene_variant,,ENST00000490667,;PBXIP1,upstream_gene_variant,,ENST00000490230,;	A	ENSG00000163348	ENST00000368457	Transcript	missense_variant	329	157	53	P/S	Cct/Tct	COSM414014	.	.	-1	PYGO2	HGNC	30257	protein_coding	YES	CCDS1075.1	ENSP00000357442	PYGO2_HUMAN	Q5T171_HUMAN,Q5T170_HUMAN	UPI00000015CD	.	tolerated(0.43)	benign(0.24)	3/3	.	hmmpanther:PTHR23194:SF7,hmmpanther:PTHR23194	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGGCCCT	.	5	BLCA
CD1D	0	.	GRCh37	1	158152875	158152875	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.815G>T	p.Gly272Val	p.G272V	ENST00000368171	5/7	93	40	53	84	84	0	CD1D,missense_variant,p.Gly272Val,ENST00000368171,;	T	ENSG00000158473	ENST00000368171	Transcript	missense_variant	1314	815	272	G/V	gGg/gTg	COSM414415	.	.	1	CD1D	HGNC	1637	protein_coding	YES	CCDS1173.1	ENSP00000357153	CD1D_HUMAN	.	UPI00000012B1	.	deleterious(0.02)	benign(0.236)	5/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF146,Pfam_domain:PF07654,Gene3D:2.60.40.10,SMART_domains:SM00407,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTGGGGAGG	.	5	BLCA
RXRG	0	.	GRCh37	1	165378870	165378870	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.971G>T	p.Gly324Val	p.G324V	ENST00000359842	7/10	22	16	6	19	19	0	RXRG,missense_variant,p.Gly324Val,ENST00000359842,;RXRG,downstream_gene_variant,,ENST00000470566,;	A	ENSG00000143171	ENST00000359842	Transcript	missense_variant	1274	971	324	G/V	gGc/gTc	COSM414362	.	.	-1	RXRG	HGNC	10479	protein_coding	YES	CCDS1248.1	ENSP00000352900	RXRG_HUMAN	F1D8Q7_HUMAN	UPI000004989F	.	deleterious(0)	probably_damaging(1)	7/10	.	hmmpanther:PTHR24083:SF83,hmmpanther:PTHR24083,Gene3D:1.10.565.10,Pfam_domain:PF00104,SMART_domains:SM00430,Superfamily_domains:SSF48508,Prints_domain:PR00545	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATGCCATCC	.	5	BLCA
NBPF1	0	.	GRCh37	1	16907361	16907361	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1470C>T	p.%3D	p.D490D	ENST00000430580	16/29	1093	1028	65	1274	1273	1	NBPF1,synonymous_variant,p.%3D,ENST00000430580,;NBPF1,upstream_gene_variant,,ENST00000287968,;NBPF1,upstream_gene_variant,,ENST00000432949,;NBPF1,3_prime_UTR_variant,,ENST00000392963,;	A	ENSG00000219481	ENST00000430580	Transcript	synonymous_variant	2358	1470	490	D	gaC/gaT	.	.	.	-1	NBPF1	HGNC	26088	protein_coding	YES	.	ENSP00000474456	.	S4R3W5_HUMAN,S4R3K2_HUMAN,S4R3H5_HUMAN,Q3BBU8_HUMAN	UPI0000E04FDF	.	.	.	16/29	.	PROSITE_profiles:PS51316,Pfam_domain:PF06758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGGAGTCACA	.	2	BLCA
RC3H1	0	.	GRCh37	1	173941653	173941653	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215G>T	p.Gln405His	p.Q405H	ENST00000367696	8/20	91	76	14	80	80	0	RC3H1,missense_variant,p.Gln405His,ENST00000367694,;RC3H1,missense_variant,p.Gln405His,ENST00000258349,;RC3H1,missense_variant,p.Gln405His,ENST00000367696,;RNA5SP68,upstream_gene_variant,,ENST00000363885,;	A	ENSG00000135870	ENST00000367696	Transcript	missense_variant	1567	1215	405	Q/H	caG/caT	COSM414311	.	.	-1	RC3H1	HGNC	29434	protein_coding	YES	CCDS30940.1	ENSP00000356669	RC3H1_HUMAN	B9EGU6_HUMAN	UPI00001D7DA8	.	tolerated(0.12)	benign(0.332)	8/20	.	hmmpanther:PTHR13139,hmmpanther:PTHR13139:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGCTGATC	.	5	BLCA
TNN	0	.	GRCh37	1	175087873	175087873	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2563C>A	p.Leu855Met	p.L855M	ENST00000239462	11/19	64	54	10	70	70	0	TNN,missense_variant,p.Leu855Met,ENST00000239462,;	A	ENSG00000120332	ENST00000239462	Transcript	missense_variant	2676	2563	855	L/M	Ctg/Atg	COSM414306	.	.	1	TNN	HGNC	22942	protein_coding	YES	CCDS30943.1	ENSP00000239462	TENN_HUMAN	.	UPI00001D7DA9	.	deleterious(0.01)	possibly_damaging(0.612)	11/19	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF167,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGCCTGAGG	.	5	BLCA
TNN	0	.	GRCh37	1	175105997	175105997	+	Silent	SNP	G	G	A	rs369876797	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3468G>A	p.%3D	p.A1156A	ENST00000239462	17/19	52	43	8	53	53	0	TNN,synonymous_variant,p.%3D,ENST00000239462,;	A	ENSG00000120332	ENST00000239462	Transcript	synonymous_variant	3581	3468	1156	A	gcG/gcA	rs369876797,COSM414305	.	.	1	TNN	HGNC	22942	protein_coding	YES	CCDS30943.1	ENSP00000239462	TENN_HUMAN	.	UPI00001D7DA9	.	.	.	17/19	.	PROSITE_profiles:PS51406,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF167,Gene3D:3.90.215.10,Pfam_domain:PF00147,SMART_domains:SM00186,Superfamily_domains:SSF56496	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGCGCGGTA	byCluster|by1000G	5	BLCA
HMCN1	0	.	GRCh37	1	186064392	186064392	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10312A>T	p.Asn3438Tyr	p.N3438Y	ENST00000271588	68/107	34	28	6	72	72	0	HMCN1,missense_variant,p.Asn3438Tyr,ENST00000367492,;HMCN1,missense_variant,p.Asn3438Tyr,ENST00000271588,;	T	ENSG00000143341	ENST00000271588	Transcript	missense_variant	10541	10312	3438	N/Y	Aat/Tat	COSM414258	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	probably_damaging(0.999)	68/107	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGACAATTCA	.	5	BLCA
BRINP3	0	.	GRCh37	1	190067861	190067861	+	Missense_Mutation	SNP	G	G	A	rs763983183	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1588C>T	p.Arg530Cys	p.R530C	ENST00000367462	8/8	97	82	15	98	98	0	BRINP3,missense_variant,p.Arg428Cys,ENST00000534846,;BRINP3,missense_variant,p.Arg530Cys,ENST00000367462,;	A	ENSG00000162670	ENST00000367462	Transcript	missense_variant	1820	1588	530	R/C	Cgt/Tgt	rs763983183,COSM414238	.	.	-1	BRINP3	HGNC	22393	protein_coding	YES	CCDS1373.1	ENSP00000356432	BRNP3_HUMAN	.	UPI00001C1D9A	.	deleterious(0)	probably_damaging(0.996)	8/8	.	hmmpanther:PTHR15564:SF2,hmmpanther:PTHR15564	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTACGCCAGG	byFrequency	4	BLCA
SLC26A9	0	.	GRCh37	1	205904909	205904909	+	Missense_Mutation	SNP	C	C	T	rs764928984	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>A	p.Ala14Thr	p.A14T	ENST00000367134	2/22	109	101	8	59	59	0	SLC26A9,missense_variant,p.Ala14Thr,ENST00000367135,;SLC26A9,missense_variant,p.Ala14Thr,ENST00000340781,;SLC26A9,missense_variant,p.Ala14Thr,ENST00000367134,;RP4-681L3.2,downstream_gene_variant,,ENST00000421166,;	T	ENSG00000174502	ENST00000367134	Transcript	missense_variant	154	40	14	A/T	Gca/Aca	rs764928984,COSM414665,COSM414664	.	.	-1	SLC26A9	HGNC	14469	protein_coding	YES	CCDS30989.1	ENSP00000356102	.	B1AVM8_HUMAN	UPI000013DF98	.	tolerated(0.21)	benign(0.012)	2/22	.	hmmpanther:PTHR11814:SF17,hmmpanther:PTHR11814	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTATGCGGCTC	byFrequency	2	BLCA
RPS6KC1	0	.	GRCh37	1	213415278	213415278	+	Missense_Mutation	SNP	G	G	A	rs748570547	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2459G>A	p.Arg820His	p.R820H	ENST00000366960	11/15	92	76	16	120	120	0	RPS6KC1,missense_variant,p.Arg808His,ENST00000366959,;RPS6KC1,missense_variant,p.Arg820His,ENST00000366960,;RPS6KC1,missense_variant,p.Arg523His,ENST00000543354,;RPS6KC1,missense_variant,p.Arg608His,ENST00000543470,;RPS6KC1,non_coding_transcript_exon_variant,,ENST00000490299,;RPS6KC1,upstream_gene_variant,,ENST00000491616,;	A	ENSG00000136643	ENST00000366960	Transcript	missense_variant	2609	2459	820	R/H	cGt/cAt	rs748570547,COSM414635	.	.	1	RPS6KC1	HGNC	10439	protein_coding	YES	CCDS1513.1	ENSP00000355927	KS6C1_HUMAN	.	UPI0000071B8C	.	tolerated(0.86)	benign(0)	11/15	.	hmmpanther:PTHR15508:SF2,hmmpanther:PTHR15508,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCCGTATTT	byFrequency	5	BLCA
CD164L2	0	.	GRCh37	1	27708287	27708287	+	Missense_Mutation	SNP	G	G	A	rs766830631	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356C>T	p.Pro119Leu	p.P119L	ENST00000374027	4/5	44	38	5	40	40	0	CD164L2,missense_variant,p.Pro119Leu,ENST00000374027,;CD164L2,missense_variant,p.Pro119Leu,ENST00000374030,;CD164L2,3_prime_UTR_variant,,ENST00000374025,;	A	ENSG00000174950	ENST00000374027	Transcript	missense_variant	420	356	119	P/L	cCg/cTg	rs766830631,COSM414498	.	.	-1	CD164L2	HGNC	32043	protein_coding	YES	CCDS302.1	ENSP00000363139	C16L2_HUMAN	.	UPI000004BA78	.	deleterious(0.01)	probably_damaging(1)	4/5	.	hmmpanther:PTHR11337:SF11,hmmpanther:PTHR11337,Pfam_domain:PF05283	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTCGGTTCA	byFrequency	4	BLCA
RSPO1	0	.	GRCh37	1	38095342	38095342	+	5'UTR	SNP	G	G	A	rs530280205	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9C>T	.	.	ENST00000356545	4/9	33	29	4	20	20	0	RSPO1,5_prime_UTR_variant,,ENST00000401070,;RSPO1,5_prime_UTR_variant,,ENST00000401068,;RSPO1,5_prime_UTR_variant,,ENST00000401069,;RSPO1,5_prime_UTR_variant,,ENST00000401071,;RSPO1,5_prime_UTR_variant,,ENST00000356545,;RSPO1,intron_variant,,ENST00000373059,;	A	ENSG00000169218	ENST00000356545	Transcript	5_prime_UTR_variant	780	.	.	.	.	rs530280205	.	.	-1	RSPO1	HGNC	21679	protein_coding	YES	CCDS41304.1	ENSP00000348944	RSPO1_HUMAN	.	UPI0000674A16	.	.	.	4/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACGCGCCAGC	byCluster	2	BLCA
PTGFR	0	.	GRCh37	1	78958974	78958974	+	Silent	SNP	G	G	A	rs765817668	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546G>A	p.%3D	p.S182S	ENST00000370757	2/3	120	68	51	119	119	0	PTGFR,synonymous_variant,p.%3D,ENST00000370757,;PTGFR,synonymous_variant,p.%3D,ENST00000370756,;PTGFR,synonymous_variant,p.%3D,ENST00000370758,;PTGFR,synonymous_variant,p.%3D,ENST00000497923,;	A	ENSG00000122420	ENST00000370757	Transcript	synonymous_variant	783	546	182	S	tcG/tcA	rs765817668,COSM414784,COSM414783	.	.	1	PTGFR	HGNC	9600	protein_coding	YES	CCDS686.1	ENSP00000359793	PF2R_HUMAN	.	UPI0000001C40	.	.	.	2/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR11866,hmmpanther:PTHR11866:SF4,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00855,Prints_domain:PR01788	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTCGAGGAC	.	5	BLCA
SLC45A1	0	.	GRCh37	1	8395589	8395589	+	Silent	SNP	C	C	G	rs770426185	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1536C>G	p.%3D	p.L512L	ENST00000471889	6/9	122	104	17	59	59	0	SLC45A1,synonymous_variant,p.%3D,ENST00000289877,;SLC45A1,synonymous_variant,p.%3D,ENST00000377479,;SLC45A1,synonymous_variant,p.%3D,ENST00000471889,;SLC45A1,non_coding_transcript_exon_variant,,ENST00000481265,;SLC45A1,non_coding_transcript_exon_variant,,ENST00000497660,;	G	ENSG00000162426	ENST00000471889	Transcript	synonymous_variant	1921	1536	512	L	ctC/ctG	rs770426185,COSM3492885,COSM414769,COSM3492886	.	.	1	SLC45A1	HGNC	17939	protein_coding	YES	CCDS30577.1	ENSP00000418096	S45A1_HUMAN	.	UPI000040EA42	.	.	.	6/9	.	hmmpanther:PTHR19432,hmmpanther:PTHR19432:SF6,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCTGCTC	.	4	BLCA
TASP1	0	.	GRCh37	20	13610642	13610642	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84A>T	p.Lys28Asn	p.K28N	ENST00000337743	2/14	473	437	35	95	95	0	TASP1,missense_variant,p.Lys28Asn,ENST00000544472,;TASP1,missense_variant,p.Lys28Asn,ENST00000337743,;TASP1,missense_variant,p.Lys6Asn,ENST00000434275,;TASP1,missense_variant,p.Lys28Asn,ENST00000539805,;TASP1,missense_variant,p.Lys28Asn,ENST00000455532,;TASP1,non_coding_transcript_exon_variant,,ENST00000483898,;TASP1,non_coding_transcript_exon_variant,,ENST00000465381,;TASP1,non_coding_transcript_exon_variant,,ENST00000476108,;TASP1,non_coding_transcript_exon_variant,,ENST00000480436,;	A	ENSG00000089123	ENST00000337743	Transcript	missense_variant	205	84	28	K/N	aaA/aaT	COSM419046	.	.	-1	TASP1	HGNC	15859	protein_coding	YES	CCDS13116.1	ENSP00000338624	TASP1_HUMAN	.	UPI00000382E5	.	tolerated_low_confidence(0.09)	benign(0.013)	2/14	.	hmmpanther:PTHR10188,hmmpanther:PTHR10188:SF8	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACTCTTTGGC	.	2	BLCA
SNRPB	0	.	GRCh37	20	2446424	2446424	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.197T>G	p.Val66Gly	p.V66G	ENST00000438552	3/7	97	73	23	67	67	0	SNRPB,missense_variant,p.Val66Gly,ENST00000438552,;SNRPB,missense_variant,p.Val66Gly,ENST00000381342,;SNRPB,5_prime_UTR_variant,,ENST00000339610,;SNORD119,upstream_gene_variant,,ENST00000515997,;SNRPB,3_prime_UTR_variant,,ENST00000474384,;RP4-734P14.4,downstream_gene_variant,,ENST00000461548,;	C	ENSG00000125835	ENST00000438552	Transcript	missense_variant	360	197	66	V/G	gTc/gGc	COSM419024	.	.	-1	SNRPB	HGNC	11153	protein_coding	YES	CCDS13026.1	ENSP00000412566	RSMB_HUMAN	.	UPI00001351FF	.	deleterious(0.01)	possibly_damaging(0.826)	3/7	.	hmmpanther:PTHR10701,hmmpanther:PTHR10701:SF2,Pfam_domain:PF01423,Gene3D:2.30.30.100,PIRSF_domain:PIRSF037187,SMART_domains:SM00651,Superfamily_domains:SSF50182	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAGGACTCGC	.	5	BLCA
ZNF341	0	.	GRCh37	20	32378876	32378876	+	Silent	SNP	G	G	A	rs141469797	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2097G>A	p.%3D	p.T699T	ENST00000342427	15/15	126	113	12	46	46	0	ZNF341,synonymous_variant,p.%3D,ENST00000375200,;ZNF341,synonymous_variant,p.%3D,ENST00000342427,;RP4-553F4.6,intron_variant,,ENST00000439444,;RP4-553F4.6,intron_variant,,ENST00000443171,;RP4-553F4.6,intron_variant,,ENST00000423074,;ZNF341,3_prime_UTR_variant,,ENST00000497876,;ZNF341,3_prime_UTR_variant,,ENST00000483118,;ZNF341,non_coding_transcript_exon_variant,,ENST00000493497,;	A	ENSG00000131061	ENST00000342427	Transcript	synonymous_variant	2462	2097	699	T	acG/acA	rs141469797,COSM419438	.	.	1	ZNF341	HGNC	15992	protein_coding	YES	CCDS13227.1	ENSP00000344308	ZN341_HUMAN	.	UPI000022B43D	.	.	.	15/15	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,hmmpanther:PTHR24388,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	A:0.0011	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACACGGGCAA	byFrequency|byCluster	4	BLCA
SMOX	0	.	GRCh37	20	4162941	4162941	+	Missense_Mutation	SNP	G	G	A	rs145030123	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.815G>A	p.Arg272His	p.R272H	ENST00000305958	5/7	20	11	9	18	18	0	SMOX,missense_variant,p.Arg272His,ENST00000305958,;SMOX,missense_variant,p.Arg272His,ENST00000339123,;SMOX,missense_variant,p.Arg129His,ENST00000457205,;SMOX,missense_variant,p.Arg272His,ENST00000278795,;SMOX,missense_variant,p.Arg272His,ENST00000379460,;SMOX,intron_variant,,ENST00000346595,;SMOX,intron_variant,,ENST00000494098,;SMOX,upstream_gene_variant,,ENST00000466004,;SMOX,downstream_gene_variant,,ENST00000484515,;SMOX,upstream_gene_variant,,ENST00000486998,;	A	ENSG00000088826	ENST00000305958	Transcript	missense_variant	1040	815	272	R/H	cGc/cAc	rs145030123,COSM419391,COSM419392	.	.	1	SMOX	HGNC	15862	protein_coding	YES	CCDS13075.1	ENSP00000307252	SMOX_HUMAN	.	UPI000006CE86	.	tolerated(0.1)	benign(0.001)	5/7	.	hmmpanther:PTHR10742,hmmpanther:PTHR10742:SF44	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.0005	A:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCGCCCCA	byCluster|by1000G	4	BLCA
MATN4	0	.	GRCh37	20	43927067	43927067	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1169C>T	p.Ser390Leu	p.S390L	ENST00000537548	8/11	59	55	4	51	51	0	MATN4,missense_variant,p.Ser390Leu,ENST00000372756,;MATN4,missense_variant,p.Ser431Leu,ENST00000372754,;MATN4,missense_variant,p.Ser390Leu,ENST00000537548,;MATN4,missense_variant,p.Ser308Leu,ENST00000353917,;MATN4,missense_variant,p.Ser390Leu,ENST00000342716,;MATN4,missense_variant,p.Ser349Leu,ENST00000360607,;MATN4,missense_variant,p.Ser241Leu,ENST00000372751,;	A	ENSG00000124159	ENST00000537548	Transcript	missense_variant	1414	1169	390	S/L	tCg/tTg	COSM419376,COSM3841108	.	.	-1	MATN4	HGNC	6910	protein_coding	YES	CCDS13348.1	ENSP00000440328	MATN4_HUMAN	.	UPI000016054E	.	.	probably_damaging(0.999)	8/11	.	Prints_domain:PR00453,Superfamily_domains:SSF53300,SMART_domains:SM00327,Pfam_domain:PF00092,Gene3D:3.40.50.410,hmmpanther:PTHR22992,hmmpanther:PTHR22992:SF16,PROSITE_profiles:PS50234	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCTCGAGAAC	.	2	BLCA
DSCAM	0	.	GRCh37	21	41447093	41447093	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4759C>T	p.%3D	p.L1587L	ENST00000400454	27/33	36	25	11	42	42	0	DSCAM,synonymous_variant,p.%3D,ENST00000404019,;DSCAM,synonymous_variant,p.%3D,ENST00000400454,;	A	ENSG00000171587	ENST00000400454	Transcript	synonymous_variant	5237	4759	1587	L	Ctg/Ttg	COSM419222	.	.	-1	DSCAM	HGNC	3039	protein_coding	YES	CCDS42929.1	ENSP00000383303	DSCAM_HUMAN	.	UPI00000422DF	.	.	.	27/33	.	hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF16	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E1584K|c.4750G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCAGCCCTT	.	5	BLCA
SIK1	0	.	GRCh37	21	44839282	44839282	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1196C>T	p.Ser399Phe	p.S399F	ENST00000270162	10/14	33	29	4	42	42	0	SIK1,missense_variant,p.Ser399Phe,ENST00000270162,;SIK1,downstream_gene_variant,,ENST00000478426,;	A	ENSG00000142178	ENST00000270162	Transcript	missense_variant	1329	1196	399	S/F	tCc/tTc	COSM419213	.	.	-1	SIK1	HGNC	11142	protein_coding	YES	CCDS33575.1	ENSP00000270162	SIK1_HUMAN	.	UPI0000206F2B	.	tolerated(0.08)	probably_damaging(0.993)	10/14	.	PIRSF_domain:PIRSF037014,hmmpanther:PTHR24343,hmmpanther:PTHR24343:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGACGGACTGC	.	3	BLCA
SPECC1L	0	.	GRCh37	22	24717698	24717698	+	Missense_Mutation	SNP	T	T	A	rs201309256	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.750T>A	p.Asn250Lys	p.N250K	ENST00000314328	5/17	185	144	41	145	144	1	SPECC1L,missense_variant,p.Asn250Lys,ENST00000541492,;SPECC1L,missense_variant,p.Asn250Lys,ENST00000314328,;SPECC1L,missense_variant,p.Asn250Lys,ENST00000421374,;SPECC1L,missense_variant,p.Asn250Lys,ENST00000437398,;SPECC1L,downstream_gene_variant,,ENST00000440893,;SPECC1L,intron_variant,,ENST00000416735,;SPECC1L-ADORA2A,missense_variant,p.Asn250Lys,ENST00000358654,;	A	ENSG00000100014	ENST00000314328	Transcript	missense_variant	1035	750	250	N/K	aaT/aaA	rs201309256,COSM419622	.	.	1	SPECC1L	HGNC	29022	protein_coding	YES	CCDS33619.1	ENSP00000325785	CYTSA_HUMAN	C9JLY8_HUMAN,C9J8U1_HUMAN	UPI00001B64E9	.	deleterious(0)	possibly_damaging(0.711)	5/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23167:SF18,hmmpanther:PTHR23167	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAATACTGC	.	5	BLCA
MCHR1	0	.	GRCh37	22	41077528	41077528	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865C>A	p.Pro289Thr	p.P289T	ENST00000249016	2/2	64	43	20	75	75	0	MCHR1,missense_variant,p.Pro163Thr,ENST00000381433,;MCHR1,missense_variant,p.Pro289Thr,ENST00000249016,;MCHR1,non_coding_transcript_exon_variant,,ENST00000498400,;MCHR1,downstream_gene_variant,,ENST00000465662,;	A	ENSG00000128285	ENST00000249016	Transcript	missense_variant	1561	865	289	P/T	Cct/Act	COSM419542	.	.	1	MCHR1	HGNC	4479	protein_coding	YES	CCDS14004.1	ENSP00000249016	MCHR1_HUMAN	Q5IFI4_HUMAN	UPI0000073C67	.	deleterious(0)	probably_damaging(0.999)	2/2	.	Transmembrane_helices:TMhelix,Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR24242,hmmpanther:PTHR24242:SF17,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTGCCTTTT	.	5	BLCA
EFCAB6	0	.	GRCh37	22	44107434	44107434	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952T>G	p.Ser318Ala	p.S318A	ENST00000262726	10/32	23	20	3	36	36	0	EFCAB6,missense_variant,p.Ser318Ala,ENST00000262726,;EFCAB6,missense_variant,p.Ser212Ala,ENST00000358439,;EFCAB6,missense_variant,p.Ser166Ala,ENST00000396231,;EFCAB6,non_coding_transcript_exon_variant,,ENST00000404038,;	C	ENSG00000186976	ENST00000262726	Transcript	missense_variant	1206	952	318	S/A	Tct/Gct	COSM419511	.	.	-1	EFCAB6	HGNC	24204	protein_coding	YES	CCDS14049.1	ENSP00000262726	EFCB6_HUMAN	.	UPI0000225CD7	.	deleterious(0.03)	probably_damaging(0.997)	10/32	.	Superfamily_domains:SSF47473,SMART_domains:SM00054,Gene3D:1.10.238.10,PROSITE_profiles:PS50222	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAAGACACGT	.	2	BLCA
KCNF1	0	.	GRCh37	2	11053802	11053802	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1250G>A	p.Arg417His	p.R417H	ENST00000295082	1/1	66	57	9	42	41	0	KCNF1,missense_variant,p.Arg417His,ENST00000295082,;	A	ENSG00000162975	ENST00000295082	Transcript	missense_variant	1740	1250	417	R/H	cGc/cAc	COSM418627	.	.	1	KCNF1	HGNC	6246	protein_coding	YES	CCDS1676.1	ENSP00000295082	KCNF1_HUMAN	.	UPI000012DC98	.	tolerated(0.07)	possibly_damaging(0.649)	1/1	.	hmmpanther:PTHR11537:SF42,hmmpanther:PTHR11537	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCAGCGCGTCC	.	3	BLCA
SLC20A1	0	.	GRCh37	2	113414767	113414767	+	Missense_Mutation	SNP	G	G	T	rs774549910	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.727G>T	p.Ala243Ser	p.A243S	ENST00000272542	6/11	83	66	16	99	99	0	SLC20A1,missense_variant,p.Ala243Ser,ENST00000272542,;SLC20A1,missense_variant,p.Ala69Ser,ENST00000433924,;SLC20A1,downstream_gene_variant,,ENST00000423633,;SLC20A1,non_coding_transcript_exon_variant,,ENST00000480984,;SLC20A1,missense_variant,p.Ala63Ser,ENST00000413135,;SLC20A1,synonymous_variant,p.%3D,ENST00000456264,;SLC20A1,non_coding_transcript_exon_variant,,ENST00000498224,;SLC20A1,downstream_gene_variant,,ENST00000492076,;SLC20A1,upstream_gene_variant,,ENST00000490674,;	T	ENSG00000144136	ENST00000272542	Transcript	missense_variant	1266	727	243	A/S	Gcc/Tcc	rs774549910,COSM4084262,COSM418614	.	.	1	SLC20A1	HGNC	10946	protein_coding	YES	CCDS2099.1	ENSP00000272542	S20A1_HUMAN	A7LNJ1_HUMAN	UPI0000071362	.	deleterious(0.02)	possibly_damaging(0.718)	6/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11101:SF46,hmmpanther:PTHR11101,Pfam_domain:PF01384	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTGCCCTT	.	5	BLCA
LCT	0	.	GRCh37	2	136548255	136548255	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5308C>T	p.Arg1770Trp	p.R1770W	ENST00000264162	15/17	37	27	10	30	30	0	LCT,missense_variant,p.Arg1770Trp,ENST00000264162,;LCT,downstream_gene_variant,,ENST00000452974,;	A	ENSG00000115850	ENST00000264162	Transcript	missense_variant	5319	5308	1770	R/W	Cgg/Tgg	COSM418569	.	.	-1	LCT	HGNC	6530	protein_coding	YES	CCDS2178.1	ENSP00000264162	LPH_HUMAN	.	UPI000013D4D2	.	deleterious(0)	possibly_damaging(0.849)	15/17	.	hmmpanther:PTHR10353,hmmpanther:PTHR10353:SF38,Gene3D:3.20.20.80,Pfam_domain:PF00232,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCCGAAGGT	.	5	BLCA
LCT	0	.	GRCh37	2	136587248	136587248	+	Splice_Site	SNP	T	T	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.721-2A>G	.	p.X241_splice	ENST00000264162	.	62	42	20	76	76	0	LCT,splice_acceptor_variant,,ENST00000264162,;	C	ENSG00000115850	ENST00000264162	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM418566	.	.	-1	LCT	HGNC	6530	protein_coding	YES	CCDS2178.1	ENSP00000264162	LPH_HUMAN	.	UPI000013D4D2	.	.	.	.	2/16	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCCTGAAAA	.	2	BLCA
CRIM1	0	.	GRCh37	2	36774266	36774266	+	Missense_Mutation	SNP	G	G	C	rs13419463	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2886G>C	p.Gln962His	p.Q962H	ENST00000280527	16/17	126	112	14	112	112	0	CRIM1,missense_variant,p.Gln962His,ENST00000280527,;AC007401.2,intron_variant,,ENST00000406220,;FEZ2,downstream_gene_variant,,ENST00000414288,;	C	ENSG00000150938	ENST00000280527	Transcript	missense_variant	3253	2886	962	Q/H	caG/caC	rs13419463,COSM419180	.	.	1	CRIM1	HGNC	2359	protein_coding	YES	CCDS1783.1	ENSP00000280527	CRIM1_HUMAN	Q53TR0_HUMAN,Q53TH9_HUMAN,Q4ZG85_HUMAN,B4DUW0_HUMAN	UPI000004C628	.	deleterious(0.01)	benign(0.365)	16/17	.	hmmpanther:PTHR11339	.	.	.	.	.	.	.	C:0.0002	C:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATCAGAAGAA	byCluster|byHapMap	4	BLCA
THADA	0	.	GRCh37	2	43801788	43801788	+	Silent	SNP	A	A	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1416T>C	p.%3D	p.A472A	ENST00000405006	11/38	135	85	49	95	95	0	THADA,synonymous_variant,p.%3D,ENST00000404790,;THADA,synonymous_variant,p.%3D,ENST00000330266,;THADA,synonymous_variant,p.%3D,ENST00000402360,;THADA,synonymous_variant,p.%3D,ENST00000415080,;THADA,synonymous_variant,p.%3D,ENST00000403856,;THADA,synonymous_variant,p.%3D,ENST00000405006,;THADA,synonymous_variant,p.%3D,ENST00000405975,;THADA,upstream_gene_variant,,ENST00000407351,;THADA,synonymous_variant,p.%3D,ENST00000402796,;THADA,3_prime_UTR_variant,,ENST00000408045,;THADA,3_prime_UTR_variant,,ENST00000398653,;THADA,intron_variant,,ENST00000474159,;	G	ENSG00000115970	ENST00000405006	Transcript	synonymous_variant	1768	1416	472	A	gcT/gcC	COSM419161	.	.	-1	THADA	HGNC	19217	protein_coding	YES	CCDS46268.1	ENSP00000385995	THADA_HUMAN	Q6YHU4_HUMAN	UPI00001C0473	.	.	.	11/38	.	hmmpanther:PTHR14387:SF0,hmmpanther:PTHR14387,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATAGCCAA	.	5	BLCA
KIAA1841	0	.	GRCh37	2	61315572	61315572	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057C>T	p.Arg353Ter	p.R353*	ENST00000402291	10/22	51	37	14	35	35	0	KIAA1841,stop_gained,p.Arg353Ter,ENST00000453873,;KIAA1841,stop_gained,p.Arg353Ter,ENST00000402291,;KIAA1841,stop_gained,p.Arg353Ter,ENST00000356719,;KIAA1841,stop_gained,p.Arg353Ter,ENST00000295031,;KIAA1841,non_coding_transcript_exon_variant,,ENST00000482513,;KIAA1841,upstream_gene_variant,,ENST00000483509,;KIAA1841,3_prime_UTR_variant,,ENST00000453186,;	T	ENSG00000162929	ENST00000402291	Transcript	stop_gained	1298	1057	353	R/*	Cga/Tga	COSM419135,COSM1133635	.	.	1	KIAA1841	HGNC	29387	protein_coding	YES	CCDS46296.1	ENSP00000385579	K1841_HUMAN	.	UPI0000197410	.	.	.	10/22	.	hmmpanther:PTHR20946:SF0,hmmpanther:PTHR20946,Pfam_domain:PF11822	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATCGACGT	.	5	BLCA
ZNF638	0	.	GRCh37	2	71576712	71576712	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628G>A	p.Asp210Asn	p.D210N	ENST00000409544	2/28	118	113	5	87	87	0	ZNF638,missense_variant,p.Asp210Asn,ENST00000409544,;ZNF638,missense_variant,p.Asp210Asn,ENST00000264447,;ZNF638,missense_variant,p.Asp210Asn,ENST00000377802,;ZNF638,missense_variant,p.Asp210Asn,ENST00000355812,;ZNF638,downstream_gene_variant,,ENST00000417778,;ZNF638,downstream_gene_variant,,ENST00000437658,;ZNF638,downstream_gene_variant,,ENST00000454122,;ZNF638,downstream_gene_variant,,ENST00000455226,;ZNF638,downstream_gene_variant,,ENST00000454278,;ZNF638,non_coding_transcript_exon_variant,,ENST00000410075,;ZNF638,intron_variant,,ENST00000466975,;ZNF638,intron_variant,,ENST00000464375,;ZNF638,intron_variant,,ENST00000466330,;ZNF638,intron_variant,,ENST00000494621,;ZNF638,intron_variant,,ENST00000475743,;ZNF638,downstream_gene_variant,,ENST00000487707,;	A	ENSG00000075292	ENST00000409544	Transcript	missense_variant	1258	628	210	D/N	Gat/Aat	COSM419119	.	.	1	ZNF638	HGNC	17894	protein_coding	YES	CCDS1917.1	ENSP00000386433	ZN638_HUMAN	Q57Z90_HUMAN,C9JWN0_HUMAN,C9JSD0_HUMAN,C9JMR2_HUMAN,C9JHV0_HUMAN,A8K583_HUMAN	UPI000013D51B	.	deleterious(0)	probably_damaging(0.998)	2/28	.	hmmpanther:PTHR15592:SF1,hmmpanther:PTHR15592	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGATCGATTAT	.	2	BLCA
TAGLN3	0	.	GRCh37	3	111730620	111730620	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366G>A	p.Met122Ile	p.M122I	ENST00000393917	4/5	57	51	6	30	30	0	TAGLN3,missense_variant,p.Met122Ile,ENST00000478951,;TAGLN3,missense_variant,p.Met38Ile,ENST00000486460,;TAGLN3,missense_variant,p.Met122Ile,ENST00000455401,;TAGLN3,missense_variant,p.Met122Ile,ENST00000273368,;TAGLN3,missense_variant,p.Met122Ile,ENST00000393917,;TAGLN3,intron_variant,,ENST00000469385,;TAGLN3,intron_variant,,ENST00000494932,;	A	ENSG00000144834	ENST00000393917	Transcript	missense_variant	918	366	122	M/I	atG/atA	COSM371414,COSM419460,COSM419461,COSM371415	.	.	1	TAGLN3	HGNC	29868	protein_coding	YES	CCDS33816.1	ENSP00000377494	TAGL3_HUMAN	C9J5W6_HUMAN	UPI00000738C2	.	tolerated(0.3)	benign(0.04)	4/5	.	Prints_domain:PR00890,Superfamily_domains:SSF47576,SMART_domains:SM00033,Gene3D:1.10.418.10,Pfam_domain:PF00307,hmmpanther:PTHR18959:SF41,hmmpanther:PTHR18959,PROSITE_profiles:PS50021	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACATGGCAGC	.	4	BLCA
BOC	0	.	GRCh37	3	112992056	112992056	+	Missense_Mutation	SNP	C	C	T	rs142142926	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1102C>T	p.Arg368Cys	p.R368C	ENST00000495514	8/20	61	49	12	39	39	0	BOC,missense_variant,p.Arg368Cys,ENST00000355385,;BOC,missense_variant,p.Arg368Cys,ENST00000495514,;BOC,missense_variant,p.Arg368Cys,ENST00000273395,;BOC,downstream_gene_variant,,ENST00000498710,;BOC,upstream_gene_variant,,ENST00000497495,;BOC,downstream_gene_variant,,ENST00000477178,;BOC,non_coding_transcript_exon_variant,,ENST00000466059,;BOC,non_coding_transcript_exon_variant,,ENST00000479182,;BOC,downstream_gene_variant,,ENST00000471963,;	T	ENSG00000144857	ENST00000495514	Transcript	missense_variant	1806	1102	368	R/C	Cgc/Tgc	rs142142926,COSM419451	.	.	1	BOC	HGNC	17173	protein_coding	YES	CCDS2971.1	ENSP00000418663	BOC_HUMAN	C9J9M5_HUMAN,C9J7V2_HUMAN,C9J2L7_HUMAN	UPI0000072E0E	.	deleterious(0)	possibly_damaging(0.893)	8/20	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00408,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR10489:SF11,hmmpanther:PTHR10489,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAGCGCCTC	byCluster	5	BLCA
GOLGB1	0	.	GRCh37	3	121417163	121417163	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2207A>T	p.Asn736Ile	p.N736I	ENST00000393667	13/22	105	87	18	95	95	0	GOLGB1,missense_variant,p.Asn736Ile,ENST00000393667,;GOLGB1,missense_variant,p.Asn731Ile,ENST00000340645,;GOLGB1,missense_variant,p.Asn695Ile,ENST00000494517,;GOLGB1,missense_variant,p.Asn602Ile,ENST00000489400,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;	A	ENSG00000173230	ENST00000393667	Transcript	missense_variant	2318	2207	736	N/I	aAt/aTt	COSM1418205,COSM419891	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	possibly_damaging(0.805)	13/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCATTTTTC	.	5	BLCA
GATA2	0	.	GRCh37	3	128200720	128200720	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1085G>A	p.Arg362Gln	p.R362Q	ENST00000341105	5/6	89	85	4	43	43	0	GATA2,missense_variant,p.Arg362Gln,ENST00000341105,;GATA2,missense_variant,p.Arg348Gln,ENST00000430265,;GATA2,missense_variant,p.Arg362Gln,ENST00000487848,;GATA2,downstream_gene_variant,,ENST00000492608,;GATA2,non_coding_transcript_exon_variant,,ENST00000489987,;	T	ENSG00000179348	ENST00000341105	Transcript	missense_variant	1417	1085	362	R/Q	cGa/cAa	COSM255086,COSM255087,COSM87004	.	.	-1	GATA2	HGNC	4171	protein_coding	YES	CCDS3049.1	ENSP00000345681	GATA2_HUMAN	C9J965_HUMAN	UPI00000730CD	.	deleterious(0)	probably_damaging(0.986)	5/6	.	PROSITE_profiles:PS50114,hmmpanther:PTHR10071:SF149,hmmpanther:PTHR10071,PROSITE_patterns:PS00344,Gene3D:3.30.50.10,Pfam_domain:PF00320,SMART_domains:SM00401,PIRSF_domain:PIRSF003027,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R362Q|c.1085G>A|8,CODON|p.R362P|c.1085G>C|3,BUFFER|p.L359V|c.1075T>G|9	MUTECT|MUSE	CGTTTCGGCGC	.	2	BLCA
ACAD11	0	.	GRCh37	3	132360902	132360902	+	Nonsense_Mutation	SNP	C	C	A	rs766059570	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>T	p.Glu151Ter	p.E151*	ENST00000264990	4/20	127	105	22	113	113	0	ACAD11,stop_gained,p.Glu151Ter,ENST00000481970,;ACAD11,stop_gained,p.Glu151Ter,ENST00000264990,;ACAD11,stop_gained,p.Glu151Ter,ENST00000355458,;ACAD11,5_prime_UTR_variant,,ENST00000545291,;ACAD11,intron_variant,,ENST00000489991,;ACAD11,stop_gained,p.Glu151Ter,ENST00000485198,;NPHP3,3_prime_UTR_variant,,ENST00000471702,;ACAD11,non_coding_transcript_exon_variant,,ENST00000496418,;ACAD11,non_coding_transcript_exon_variant,,ENST00000469042,;HSPA8P19,upstream_gene_variant,,ENST00000505359,;	A	ENSG00000240303	ENST00000264990	Transcript	stop_gained	1423	451	151	E/*	Gaa/Taa	rs766059570,COSM419822	.	.	-1	ACAD11	HGNC	30211	protein_coding	YES	CCDS3074.1	ENSP00000264990	ACD11_HUMAN	Q08AE9_HUMAN,B4DQ41_HUMAN	UPI00003671B7	.	.	.	4/20	.	Gene3D:3.90.1200.10,Pfam_domain:PF01636,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCTACCG	.	5	BLCA
USP19	0	.	GRCh37	3	49152979	49152979	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1780C>T	p.%3D	p.L594L	ENST00000434032	12/27	22	15	7	24	24	0	USP19,synonymous_variant,p.%3D,ENST00000417901,;USP19,synonymous_variant,p.%3D,ENST00000398892,;USP19,synonymous_variant,p.%3D,ENST00000398898,;USP19,synonymous_variant,p.%3D,ENST00000453664,;USP19,synonymous_variant,p.%3D,ENST00000434032,;USP19,synonymous_variant,p.%3D,ENST00000398896,;USP19,synonymous_variant,p.%3D,ENST00000398888,;USP19,downstream_gene_variant,,ENST00000479073,;USP19,downstream_gene_variant,,ENST00000306026,;USP19,downstream_gene_variant,,ENST00000488993,;USP19,downstream_gene_variant,,ENST00000464931,;USP19,downstream_gene_variant,,ENST00000480163,;USP19,upstream_gene_variant,,ENST00000483667,;USP19,downstream_gene_variant,,ENST00000465902,;USP19,downstream_gene_variant,,ENST00000491859,;	A	ENSG00000172046	ENST00000434032	Transcript	synonymous_variant	1992	1780	594	L	Ctg/Ttg	COSM419954,COSM1133698	.	.	-1	USP19	HGNC	12617	protein_coding	YES	CCDS56254.1	ENSP00000401197	UBP19_HUMAN	.	UPI000198CAB3	.	.	.	12/27	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF404,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGACACA	.	4	BLCA
DNAH1	0	.	GRCh37	3	52384032	52384032	+	Missense_Mutation	SNP	C	C	T	rs546135785	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2554C>T	p.Arg852Cys	p.R852C	ENST00000420323	15/78	19	8	11	24	24	0	DNAH1,missense_variant,p.Arg852Cys,ENST00000420323,;DNAH1,non_coding_transcript_exon_variant,,ENST00000486752,;DNAH1,non_coding_transcript_exon_variant,,ENST00000497875,;	T	ENSG00000114841	ENST00000420323	Transcript	missense_variant	2815	2554	852	R/C	Cgc/Tgc	rs546135785,COSM420367,COSM420366	.	.	1	DNAH1	HGNC	2940	protein_coding	YES	CCDS46842.1	ENSP00000401514	DYH1_HUMAN	.	UPI0001AE79D6	.	.	benign(0.014)	15/78	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF137	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGCCGCAAG	byFrequency|by1000G	5	BLCA
NISCH	0	.	GRCh37	3	52491871	52491871	+	Nonsense_Mutation	SNP	C	C	T	rs373680961	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.106C>T	p.Gln36Ter	p.Q36*	ENST00000345716	2/21	201	134	66	253	252	1	NISCH,stop_gained,p.Gln36Ter,ENST00000488380,;NISCH,stop_gained,p.Gln36Ter,ENST00000479054,;NISCH,stop_gained,p.Gln36Ter,ENST00000420808,;NISCH,stop_gained,p.Gln36Ter,ENST00000345716,;TNNC1,upstream_gene_variant,,ENST00000232975,;NISCH,upstream_gene_variant,,ENST00000489895,;	T	ENSG00000010322	ENST00000345716	Transcript	stop_gained	240	106	36	Q/*	Cag/Tag	rs373680961,COSM420361	.	.	1	NISCH	HGNC	18006	protein_coding	YES	CCDS33767.1	ENSP00000339958	NISCH_HUMAN	.	UPI000036715D	.	.	.	2/21	.	PROSITE_profiles:PS50195,hmmpanther:PTHR15454:SF7,hmmpanther:PTHR15454,Gene3D:3.30.1520.10,Pfam_domain:PF00787,SMART_domains:SM00312,Superfamily_domains:SSF64268	.	.	.	.	.	.	.	G:0	G:0.0001	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATCCAGGTC	.	5	BLCA
CMSS1	0	.	GRCh37	3	99891191	99891191	+	Missense_Mutation	SNP	G	G	C	rs776581370	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.611G>C	p.Arg204Pro	p.R204P	ENST00000421999	8/10	61	57	4	28	28	0	CMSS1,missense_variant,p.Arg186Pro,ENST00000489081,;CMSS1,missense_variant,p.Arg204Pro,ENST00000421999,;CMSS1,missense_variant,p.Arg160Pro,ENST00000478909,;CMSS1,intron_variant,,ENST00000497345,;CMSS1,upstream_gene_variant,,ENST00000494412,;CMSS1,3_prime_UTR_variant,,ENST00000491299,;CMSS1,downstream_gene_variant,,ENST00000479555,;	C	ENSG00000184220	ENST00000421999	Transcript	missense_variant	757	611	204	R/P	cGt/cCt	rs776581370,COSM420269,COSM3696344	.	.	1	CMSS1	HGNC	28666	protein_coding	YES	CCDS2935.1	ENSP00000410396	CMS1_HUMAN	D3DN44_HUMAN,C9IY68_HUMAN	UPI00001B0297	.	tolerated(0.17)	possibly_damaging(0.587)	8/10	.	hmmpanther:PTHR24030,Pfam_domain:PF14617,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAGCGTGTGG	.	2	BLCA
PCDHA7	0	.	GRCh37	5	140214266	140214266	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298G>A	p.Ala100Thr	p.A100T	ENST00000525929	1/4	265	204	60	327	327	0	PCDHA7,missense_variant,p.Ala100Thr,ENST00000378125,;PCDHA7,missense_variant,p.Ala100Thr,ENST00000525929,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;	A	ENSG00000204963	ENST00000525929	Transcript	missense_variant	298	298	100	A/T	Gcg/Acg	COSM420379,COSM420378	.	.	1	PCDHA7	HGNC	8673	protein_coding	YES	CCDS54918.1	ENSP00000436426	PCDA7_HUMAN	.	UPI00001273CF	.	tolerated_low_confidence(0.1)	benign(0.275)	1/4	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF08266,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF67,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGCGCGGAG	.	4	BLCA
PCDHB14	0	.	GRCh37	5	140604736	140604736	+	Silent	SNP	C	C	T	rs782755321	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1659C>T	p.%3D	p.D553D	ENST00000239449	1/1	46	27	19	50	50	0	PCDHB14,synonymous_variant,p.%3D,ENST00000239449,;PCDHB14,synonymous_variant,p.%3D,ENST00000515856,;	T	ENSG00000120327	ENST00000239449	Transcript	synonymous_variant	1659	1659	553	D	gaC/gaT	rs782755321	.	.	1	PCDHB14	HGNC	8685	protein_coding	YES	CCDS4256.1	ENSP00000239449	PCDBE_HUMAN	B4DPE2_HUMAN	UPI00001273E7	.	.	.	1/1	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF81,PROSITE_patterns:PS00232,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGACGCCAA	byFrequency	4	BLCA
RBM27	0	.	GRCh37	5	145647320	145647320	+	Frame_Shift_Del	DEL	A	A	-	rs774530480	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2448delA	p.Lys816AsnfsTer5	p.K816Nfs*5	ENST00000265271	15/21	43	24	19	64	64	0	RBM27,frameshift_variant,p.Lys816AsnfsTer5,ENST00000265271,;RBM27,frameshift_variant,p.Lys761AsnfsTer5,ENST00000506502,;RBM27,downstream_gene_variant,,ENST00000508019,;	-	ENSG00000091009	ENST00000265271	Transcript	frameshift_variant	2606	2440	814	K/X	Aaa/aa	rs774530480,COSM253087	.	.	1	RBM27	HGNC	29243	protein_coding	YES	CCDS43378.1	ENSP00000265271	RBM27_HUMAN	.	UPI00001D7F03	.	.	.	15/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14398:SF1,hmmpanther:PTHR14398	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	deletion	.	8	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K816fs*5|c.2440delA|13	INDELOCATOR|VARSCANI	GTGCTTAAAAAA	.	2	BLCA
MYO10	0	.	GRCh37	5	16672863	16672863	+	Silent	SNP	G	G	A	rs756793570	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5244C>T	p.%3D	p.N1748N	ENST00000513610	37/41	87	83	4	28	28	0	MYO10,synonymous_variant,p.%3D,ENST00000513610,;MYO10,synonymous_variant,p.%3D,ENST00000274203,;MYO10,synonymous_variant,p.%3D,ENST00000427430,;MYO10,synonymous_variant,p.%3D,ENST00000515803,;MYO10,synonymous_variant,p.%3D,ENST00000505695,;	A	ENSG00000145555	ENST00000513610	Transcript	synonymous_variant	5699	5244	1748	N	aaC/aaT	rs756793570,COSM420796	.	.	-1	MYO10	HGNC	7593	protein_coding	YES	CCDS54834.1	ENSP00000421280	MYO10_HUMAN	E9PEW5_HUMAN,E7EPL7_HUMAN,B4E0P0_HUMAN	UPI0001597062	.	.	.	37/41	.	SMART_domains:SM00295,PROSITE_profiles:PS50057	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCCGTTGTA	byFrequency	2	BLCA
TRIM41	0	.	GRCh37	5	180661677	180661677	+	Missense_Mutation	SNP	G	G	A	rs778188838	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1795G>A	p.Ala599Thr	p.A599T	ENST00000315073	6/6	120	83	37	133	133	0	TRIM41,missense_variant,p.Ala599Thr,ENST00000315073,;TRIM41,intron_variant,,ENST00000351937,;GNB2L1,downstream_gene_variant,,ENST00000511900,;GNB2L1,downstream_gene_variant,,ENST00000509148,;GNB2L1,downstream_gene_variant,,ENST00000504128,;GNB2L1,downstream_gene_variant,,ENST00000503081,;GNB2L1,downstream_gene_variant,,ENST00000513027,;GNB2L1,downstream_gene_variant,,ENST00000504726,;GNB2L1,downstream_gene_variant,,ENST00000514455,;GNB2L1,downstream_gene_variant,,ENST00000512968,;GNB2L1,downstream_gene_variant,,ENST00000502844,;GNB2L1,downstream_gene_variant,,ENST00000502905,;TRIM41,downstream_gene_variant,,ENST00000515499,;GNB2L1,downstream_gene_variant,,ENST00000507756,;GNB2L1,downstream_gene_variant,,ENST00000376817,;GNB2L1,downstream_gene_variant,,ENST00000509535,;GNB2L1,downstream_gene_variant,,ENST00000511566,;GNB2L1,downstream_gene_variant,,ENST00000507000,;GNB2L1,downstream_gene_variant,,ENST00000510199,;GNB2L1,downstream_gene_variant,,ENST00000512805,;CTC-338M12.7,upstream_gene_variant,,ENST00000499096,;TRIM41,non_coding_transcript_exon_variant,,ENST00000510072,;TRIM41,non_coding_transcript_exon_variant,,ENST00000515223,;TRIM41,non_coding_transcript_exon_variant,,ENST00000508930,;TRIM41,intron_variant,,ENST00000503114,;TRIM41,intron_variant,,ENST00000514219,;GNB2L1,downstream_gene_variant,,ENST00000514183,;GNB2L1,downstream_gene_variant,,ENST00000507273,;GNB2L1,downstream_gene_variant,,ENST00000508682,;GNB2L1,downstream_gene_variant,,ENST00000503494,;GNB2L1,downstream_gene_variant,,ENST00000504325,;GNB2L1,downstream_gene_variant,,ENST00000502548,;TRIM41,downstream_gene_variant,,ENST00000515834,;GNB2L1,downstream_gene_variant,,ENST00000508044,;GNB2L1,downstream_gene_variant,,ENST00000506312,;GNB2L1,downstream_gene_variant,,ENST00000513060,;GNB2L1,downstream_gene_variant,,ENST00000515417,;GNB2L1,downstream_gene_variant,,ENST00000502890,;GNB2L1,downstream_gene_variant,,ENST00000511473,;	A	ENSG00000146063	ENST00000315073	Transcript	missense_variant	2505	1795	599	A/T	Gcc/Acc	rs778188838,COSM420743	.	.	1	TRIM41	HGNC	19013	protein_coding	YES	CCDS4466.1	ENSP00000320869	TRI41_HUMAN	D6REK2_HUMAN	UPI00001B248B	.	tolerated(0.66)	benign(0.017)	6/6	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF286,hmmpanther:PTHR24103,Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTAGCCCAC	.	5	BLCA
CDH9	0	.	GRCh37	5	26889976	26889976	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1481C>T	p.Thr494Ile	p.T494I	ENST00000231021	9/12	89	64	24	53	53	0	CDH9,missense_variant,p.Thr494Ile,ENST00000231021,;CDH9,non_coding_transcript_exon_variant,,ENST00000505020,;	A	ENSG00000113100	ENST00000231021	Transcript	missense_variant	1654	1481	494	T/I	aCa/aTa	COSM420741	.	.	-1	CDH9	HGNC	1768	protein_coding	YES	CCDS3893.1	ENSP00000231021	CADH9_HUMAN	E7EPN0_HUMAN,D6RBT9_HUMAN	UPI000013C945	.	tolerated(0.14)	probably_damaging(0.998)	9/12	.	Superfamily_domains:SSF49313,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF99,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATGTTTCA	.	5	BLCA
C5orf42	0	.	GRCh37	5	37157947	37157947	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7813-31G>A	.	.	ENST00000425232	.	52	28	24	33	33	0	C5orf42,synonymous_variant,p.%3D,ENST00000511824,;C5orf42,synonymous_variant,p.%3D,ENST00000514429,;C5orf42,synonymous_variant,p.%3D,ENST00000274258,;C5orf42,intron_variant,,ENST00000508244,;C5orf42,intron_variant,,ENST00000425232,;C5orf42,intron_variant,,ENST00000511210,;C5orf42,upstream_gene_variant,,ENST00000508405,;C5orf42,synonymous_variant,p.%3D,ENST00000509849,;C5orf42,non_coding_transcript_exon_variant,,ENST00000515380,;C5orf42,non_coding_transcript_exon_variant,,ENST00000509957,;C5orf42,intron_variant,,ENST00000510830,;	T	ENSG00000197603	ENST00000425232	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	C5orf42	HGNC	25801	protein_coding	YES	CCDS34146.2	ENSP00000389014	CE042_HUMAN	.	UPI0001AAB3EA	.	.	.	.	39/51	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAATCACATT	.	5	BLCA
HCN1	0	.	GRCh37	5	45262052	45262052	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2644G>A	p.Glu882Lys	p.E882K	ENST00000303230	8/8	319	291	28	144	144	0	HCN1,missense_variant,p.Glu882Lys,ENST00000303230,;	T	ENSG00000164588	ENST00000303230	Transcript	missense_variant	2702	2644	882	E/K	Gaa/Aaa	COSM420690	.	.	-1	HCN1	HGNC	4845	protein_coding	YES	CCDS3952.1	ENSP00000307342	HCN1_HUMAN	.	UPI00001AED69	.	tolerated_low_confidence(0.6)	benign(0.025)	8/8	.	hmmpanther:PTHR10217:SF373,hmmpanther:PTHR10217	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTTTCTGCGT	.	3	BLCA
CHD1	0	.	GRCh37	5	98228329	98228329	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2080C>T	p.%3D	p.L694L	ENST00000284049	14/35	70	49	21	83	83	0	CHD1,synonymous_variant,p.%3D,ENST00000284049,;RNU6-402P,downstream_gene_variant,,ENST00000410678,;CHD1,upstream_gene_variant,,ENST00000511628,;	A	ENSG00000153922	ENST00000284049	Transcript	synonymous_variant	2230	2080	694	L	Ctg/Ttg	COSM421132	.	.	-1	CHD1	HGNC	1915	protein_coding	YES	CCDS34204.1	ENSP00000284049	CHD1_HUMAN	.	UPI000013DD75	.	.	.	14/35	.	Superfamily_domains:SSF52540,Pfam_domain:PF00176,hmmpanther:PTHR10799:SF535,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACAGAAATG	.	5	BLCA
ASCC3	0	.	GRCh37	6	101246710	101246710	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274T>C	p.Ile425Thr	p.I425T	ENST00000369162	8/42	11	7	4	55	55	0	ASCC3,missense_variant,p.Ile425Thr,ENST00000369162,;ASCC3,missense_variant,p.Ile425Thr,ENST00000522650,;ASCC3,3_prime_UTR_variant,,ENST00000324696,;	G	ENSG00000112249	ENST00000369162	Transcript	missense_variant	1619	1274	425	I/T	aTt/aCt	COSM421124	.	.	-1	ASCC3	HGNC	18697	protein_coding	YES	CCDS5046.1	ENSP00000358159	ASCC3_HUMAN	E5RFZ0_HUMAN	UPI000014145A	.	tolerated(0.41)	benign(0.004)	8/42	.	hmmpanther:PTHR11752:SF8,hmmpanther:PTHR11752,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAAAATCATC	.	2	BLCA
TUBE1	0	.	GRCh37	6	112392596	112392596	+	3'UTR	SNP	A	A	C	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*19T>G	.	.	ENST00000368662	12/12	64	37	27	123	123	0	TUBE1,3_prime_UTR_variant,,ENST00000368662,;WISP3,downstream_gene_variant,,ENST00000361714,;WISP3,downstream_gene_variant,,ENST00000409166,;WISP3,downstream_gene_variant,,ENST00000368663,;WISP3,downstream_gene_variant,,ENST00000230529,;WISP3,downstream_gene_variant,,ENST00000368666,;WISP3,downstream_gene_variant,,ENST00000604763,;TUBE1,non_coding_transcript_exon_variant,,ENST00000604814,;TUBE1,downstream_gene_variant,,ENST00000441191,;TUBE1,3_prime_UTR_variant,,ENST00000605457,;TUBE1,downstream_gene_variant,,ENST00000604689,;TUBE1,downstream_gene_variant,,ENST00000603651,;WISP3,downstream_gene_variant,,ENST00000454589,;WISP3,downstream_gene_variant,,ENST00000368664,;TUBE1,downstream_gene_variant,,ENST00000604743,;	C	ENSG00000074935	ENST00000368662	Transcript	3_prime_UTR_variant	1526	.	.	.	.	.	.	.	-1	TUBE1	HGNC	20775	protein_coding	YES	CCDS5100.1	ENSP00000357651	TBE_HUMAN	.	UPI0000136A4E	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTATTTTT	.	5	BLCA
BCLAF1	0	.	GRCh37	6	136590744	136590744	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2050A>G	p.Lys684Glu	p.K684E	ENST00000531224	9/13	24	16	8	46	46	0	BCLAF1,missense_variant,p.Lys683Glu,ENST00000529826,;BCLAF1,missense_variant,p.Lys684Glu,ENST00000527536,;BCLAF1,missense_variant,p.Lys682Glu,ENST00000392348,;BCLAF1,missense_variant,p.Lys682Glu,ENST00000353331,;BCLAF1,missense_variant,p.Lys511Glu,ENST00000530767,;BCLAF1,missense_variant,p.Lys684Glu,ENST00000531224,;BCLAF1,missense_variant,p.Lys682Glu,ENST00000527759,;BCLAF1,upstream_gene_variant,,ENST00000031135,;BCLAF1,upstream_gene_variant,,ENST00000534762,;BCLAF1,non_coding_transcript_exon_variant,,ENST00000529917,;BCLAF1,missense_variant,p.Lys684Glu,ENST00000527613,;BCLAF1,missense_variant,p.Lys682Glu,ENST00000530429,;BCLAF1,missense_variant,p.Lys684Glu,ENST00000532384,;BCLAF1,3_prime_UTR_variant,,ENST00000534269,;BCLAF1,non_coding_transcript_exon_variant,,ENST00000534321,;BCLAF1,non_coding_transcript_exon_variant,,ENST00000532076,;BCLAF1,non_coding_transcript_exon_variant,,ENST00000534792,;BCLAF1,upstream_gene_variant,,ENST00000529522,;BCLAF1,downstream_gene_variant,,ENST00000476194,;BCLAF1,upstream_gene_variant,,ENST00000526228,;BCLAF1,upstream_gene_variant,,ENST00000533422,;	C	ENSG00000029363	ENST00000531224	Transcript	missense_variant	2303	2050	684	K/E	Aaa/Gaa	COSM421066	.	.	-1	BCLAF1	HGNC	16863	protein_coding	YES	CCDS5177.1	ENSP00000435210	BCLF1_HUMAN	B0AZU3_HUMAN	UPI000006FCE7	.	tolerated(0.16)	possibly_damaging(0.486)	9/13	.	Pfam_domain:PF15440,hmmpanther:PTHR15268,hmmpanther:PTHR15268:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTTATCTC	.	5	BLCA
SYNE1	0	.	GRCh37	6	152527300	152527301	+	Intron	INS	-	-	A	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23019+2dupT	.	.	ENST00000367255	.	43	25	18	38	38	0	SYNE1,splice_region_variant,,ENST00000356820,;SYNE1,splice_region_variant,,ENST00000448038,;SYNE1,splice_region_variant,,ENST00000367255,;SYNE1,splice_region_variant,,ENST00000423061,;SYNE1,splice_region_variant,,ENST00000341594,;SYNE1,splice_region_variant,,ENST00000265368,;SYNE1,splice_region_variant,,ENST00000367251,;SYNE1,splice_region_variant,,ENST00000367257,;SYNE1,splice_region_variant,,ENST00000367256,;SYNE1,splice_region_variant,,ENST00000409694,;	A	ENSG00000131018	ENST00000367255	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	.	.	126/145	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAACTTACTTT	.	3	BLCA
SYNE1	0	.	GRCh37	6	152639225	152639225	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16563G>A	p.%3D	p.K5521K	ENST00000367255	86/146	72	67	5	97	97	0	SYNE1,synonymous_variant,p.%3D,ENST00000356820,;SYNE1,synonymous_variant,p.%3D,ENST00000448038,;SYNE1,synonymous_variant,p.%3D,ENST00000367255,;SYNE1,synonymous_variant,p.%3D,ENST00000423061,;SYNE1,synonymous_variant,p.%3D,ENST00000265368,;SYNE1,intron_variant,,ENST00000341594,;SYNE1,non_coding_transcript_exon_variant,,ENST00000490135,;SYNE1,non_coding_transcript_exon_variant,,ENST00000367256,;	T	ENSG00000131018	ENST00000367255	Transcript	synonymous_variant	17165	16563	5521	K	aaG/aaA	COSM421017,COSM421018,COSM1133756	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	.	86/146	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF46966,SMART_domains:SM00150,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGAGCTTGGA	.	2	BLCA
PNLDC1	0	.	GRCh37	6	160221823	160221823	+	Silent	SNP	G	G	C	rs185464452	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.63G>C	p.%3D	p.T21T	ENST00000610273	2/19	136	64	72	180	180	0	PNLDC1,synonymous_variant,p.%3D,ENST00000392167,;PNLDC1,synonymous_variant,p.%3D,ENST00000610273,;MRPL18,downstream_gene_variant,,ENST00000367034,;PNLDC1,non_coding_transcript_exon_variant,,ENST00000609334,;MRPL18,downstream_gene_variant,,ENST00000479638,;MRPL18,downstream_gene_variant,,ENST00000476826,;MRPL18,downstream_gene_variant,,ENST00000480842,;PNLDC1,3_prime_UTR_variant,,ENST00000610048,;PNLDC1,3_prime_UTR_variant,,ENST00000275275,;PNLDC1,3_prime_UTR_variant,,ENST00000610041,;	C	ENSG00000146453	ENST00000610273	Transcript	synonymous_variant	234	63	21	T	acG/acC	rs185464452,COSM420992	.	.	1	PNLDC1	HGNC	21185	protein_coding	YES	CCDS64561.1	ENSP00000476448	.	.	UPI00000717EB	.	.	.	2/19	.	hmmpanther:PTHR15092:SF8,hmmpanther:PTHR15092,Pfam_domain:PF04857,Gene3D:3.30.420.10,Superfamily_domains:SSF53098	A:0.0012	A:0	A:0	.	A:0.006	A:0	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCACGGGCCT	byFrequency|byCluster|by1000G	5	BLCA
AGPAT4	0	.	GRCh37	6	161551943	161551943	+	3'UTR	SNP	A	A	G	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5629T>C	.	.	ENST00000320285	9/9	56	45	10	63	63	0	AGPAT4,3_prime_UTR_variant,,ENST00000366911,;AGPAT4,3_prime_UTR_variant,,ENST00000320285,;	G	ENSG00000026652	ENST00000320285	Transcript	3_prime_UTR_variant	6979	.	.	.	.	.	.	.	-1	AGPAT4	HGNC	20885	protein_coding	YES	CCDS5280.1	ENSP00000314036	PLCD_HUMAN	Q6PJN9_HUMAN	UPI0000035BB6	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGGATGACT	.	5	BLCA
STK38	0	.	GRCh37	6	36489515	36489515	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386A>G	p.Glu129Gly	p.E129G	ENST00000229812	5/14	108	85	23	124	124	0	STK38,missense_variant,p.Glu129Gly,ENST00000229812,;RN7SL748P,upstream_gene_variant,,ENST00000483066,;	C	ENSG00000112079	ENST00000229812	Transcript	missense_variant	672	386	129	E/G	gAg/gGg	COSM421341	.	.	-1	STK38	HGNC	17847	protein_coding	YES	CCDS4822.1	ENSP00000229812	STK38_HUMAN	.	UPI0000047AC1	.	tolerated(0.4)	probably_damaging(0.948)	5/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24358:SF7,hmmpanther:PTHR24358,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGCTCTTTT	.	5	BLCA
KIF6	0	.	GRCh37	6	39545902	39545902	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1111C>A	p.Leu371Met	p.L371M	ENST00000287152	10/23	98	84	14	113	113	0	KIF6,missense_variant,p.Leu371Met,ENST00000287152,;KIF6,missense_variant,p.Leu210Met,ENST00000373213,;KIF6,missense_variant,p.Leu371Met,ENST00000373215,;KIF6,missense_variant,p.Leu371Met,ENST00000373216,;KIF6,missense_variant,p.Leu371Met,ENST00000538893,;KIF6,missense_variant,p.Leu263Met,ENST00000458470,;	T	ENSG00000164627	ENST00000287152	Transcript	missense_variant	1206	1111	371	L/M	Ctg/Atg	COSM421321,COSM421322	.	.	-1	KIF6	HGNC	21202	protein_coding	YES	CCDS4844.1	ENSP00000287152	KIF6_HUMAN	.	UPI0000457436	.	deleterious(0)	probably_damaging(0.999)	10/23	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF52540,hmmpanther:PTHR24115:SF194,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCAGTTCCT	.	5	BLCA
UBN2	0	.	GRCh37	7	138943309	138943309	+	Missense_Mutation	SNP	C	C	T	rs746848105	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739C>T	p.Arg247Cys	p.R247C	ENST00000473989	4/18	61	47	13	49	49	0	UBN2,missense_variant,p.Arg16Cys,ENST00000483726,;UBN2,missense_variant,p.Arg164Cys,ENST00000288561,;UBN2,missense_variant,p.Arg247Cys,ENST00000473989,;UBN2,missense_variant,p.Arg70Cys,ENST00000486663,;	T	ENSG00000157741	ENST00000473989	Transcript	missense_variant	739	739	247	R/C	Cgc/Tgc	rs746848105,COSM259104	.	.	1	UBN2	HGNC	21931	protein_coding	YES	CCDS43655.2	ENSP00000418648	UBN2_HUMAN	C9J6Y5_HUMAN	UPI00001D74DF	.	deleterious(0)	probably_damaging(0.997)	4/18	.	hmmpanther:PTHR16426,hmmpanther:PTHR16426:SF15	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCGCCAA	byFrequency	5	BLCA
TMEM184A	0	.	GRCh37	7	1594929	1594929	+	Nonsense_Mutation	SNP	C	C	T	rs762397202	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192G>A	p.Trp64Ter	p.W64*	ENST00000297477	2/9	39	23	16	21	21	0	TMEM184A,stop_gained,p.Trp64Ter,ENST00000441933,;TMEM184A,stop_gained,p.Trp64Ter,ENST00000431208,;TMEM184A,stop_gained,p.Trp64Ter,ENST00000297477,;TMEM184A,stop_gained,p.Trp64Ter,ENST00000319010,;TMEM184A,stop_gained,p.Trp64Ter,ENST00000414730,;TMEM184A,stop_gained,p.Trp64Ter,ENST00000319018,;TMEM184A,stop_gained,p.Trp64Ter,ENST00000421923,;TMEM184A,non_coding_transcript_exon_variant,,ENST00000474813,;TMEM184A,upstream_gene_variant,,ENST00000468535,;	T	ENSG00000164855	ENST00000297477	Transcript	stop_gained	509	192	64	W/*	tgG/tgA	rs762397202,COSM421515	.	.	-1	TMEM184A	HGNC	28797	protein_coding	YES	CCDS43537.1	ENSP00000297477	T184A_HUMAN	C9JKG9_HUMAN,C9JDD9_HUMAN,C9J4I0_HUMAN	UPI000013E413	.	.	.	2/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR23423,hmmpanther:PTHR23423:SF20,Pfam_domain:PF03619	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTCCACAC	.	5	BLCA
MAGI2	0	.	GRCh37	7	77762250	77762250	+	Silent	SNP	C	C	T	rs201511382	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3159G>A	p.%3D	p.Q1053Q	ENST00000354212	18/22	376	291	85	379	379	0	MAGI2,synonymous_variant,p.%3D,ENST00000354212,;MAGI2,synonymous_variant,p.%3D,ENST00000419488,;MAGI2,synonymous_variant,p.%3D,ENST00000522391,;MAGI2,non_coding_transcript_exon_variant,,ENST00000519748,;	T	ENSG00000187391	ENST00000354212	Transcript	synonymous_variant	3413	3159	1053	Q	caG/caA	rs201511382,COSM421875	.	.	-1	MAGI2	HGNC	18957	protein_coding	YES	CCDS5594.1	ENSP00000346151	MAGI2_HUMAN	.	UPI00001615D2	.	.	.	18/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10316:SF27,hmmpanther:PTHR10316	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGCTGGGC	byCluster|by1000G	5	BLCA
NEFM	0	.	GRCh37	8	24771630	24771630	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324G>A	p.%3D	p.L108L	ENST00000221166	1/3	21	6	14	22	22	0	NEFM,synonymous_variant,p.%3D,ENST00000518131,;NEFM,synonymous_variant,p.%3D,ENST00000221166,;NEFM,synonymous_variant,p.%3D,ENST00000437366,;NEFM,upstream_gene_variant,,ENST00000433454,;GS1-72M22.1,non_coding_transcript_exon_variant,,ENST00000607058,;RP11-624C23.1,upstream_gene_variant,,ENST00000519689,;NEFM,non_coding_transcript_exon_variant,,ENST00000521540,;NEFM,intron_variant,,ENST00000523467,;	A	ENSG00000104722	ENST00000221166	Transcript	synonymous_variant	1106	324	108	L	ctG/ctA	COSM422169	.	.	1	NEFM	HGNC	7734	protein_coding	YES	CCDS6046.1	ENSP00000221166	NFM_HUMAN	.	UPI000013C7A9	.	.	.	1/3	.	hmmpanther:PTHR23239:SF19,hmmpanther:PTHR23239,Pfam_domain:PF00038,Superfamily_domains:SSF64593	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAACGA	.	5	BLCA
ANK1	0	.	GRCh37	8	41573334	41573334	+	Missense_Mutation	SNP	T	T	C	rs544269725	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1537A>G	p.Ile513Val	p.I513V	ENST00000265709	14/43	75	61	14	64	64	0	ANK1,missense_variant,p.Ile513Val,ENST00000265709,;ANK1,missense_variant,p.Ile480Val,ENST00000352337,;ANK1,missense_variant,p.Ile480Val,ENST00000396942,;ANK1,missense_variant,p.Ile480Val,ENST00000379758,;ANK1,missense_variant,p.Ile480Val,ENST00000289734,;ANK1,missense_variant,p.Ile480Val,ENST00000347528,;ANK1,missense_variant,p.Ile480Val,ENST00000396945,;	C	ENSG00000029534	ENST00000265709	Transcript	missense_variant	1819	1537	513	I/V	Atc/Gtc	rs544269725,COSM422124,COSM1133831	.	.	-1	ANK1	HGNC	492	protein_coding	YES	CCDS47849.1	ENSP00000265709	ANK1_HUMAN	Q9UMG4_HUMAN	UPI0000E4453A	.	tolerated(0.06)	benign(0.001)	14/43	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF11,Gene3D:1.25.40.20,Pfam_domain:PF00023,SMART_domains:SM00248,Superfamily_domains:SSF48403	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GCCGATGCGAG	by1000G	3	BLCA
IKBKAP	0	.	GRCh37	9	111685159	111685159	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515G>A	p.Gly172Glu	p.G172E	ENST00000374647	6/37	91	54	36	97	97	0	IKBKAP,missense_variant,p.Gly172Glu,ENST00000374647,;IKBKAP,intron_variant,,ENST00000537196,;	T	ENSG00000070061	ENST00000374647	Transcript	missense_variant	823	515	172	G/E	gGa/gAa	COSM422010	.	.	-1	IKBKAP	HGNC	5959	protein_coding	YES	CCDS6773.1	ENSP00000363779	ELP1_HUMAN	Q4LE38_HUMAN,F5H2T0_HUMAN,B3KNB2_HUMAN,B3KMT0_HUMAN	UPI000013D2D0	.	deleterious(0)	probably_damaging(0.997)	6/37	.	hmmpanther:PTHR12747,Pfam_domain:PF04762,PIRSF_domain:PIRSF017233	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCCATGG	.	5	BLCA
NOTCH1	0	.	GRCh37	9	139413982	139413982	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.778G>T	p.Asp260Tyr	p.D260Y	ENST00000277541	5/34	218	126	92	178	178	0	NOTCH1,missense_variant,p.Asp260Tyr,ENST00000277541,;MIR4673,downstream_gene_variant,,ENST00000584777,;NOTCH1,downstream_gene_variant,,ENST00000491649,;	A	ENSG00000148400	ENST00000277541	Transcript	missense_variant	854	778	260	D/Y	Gat/Tat	COSM422439,COSM422438	.	.	-1	NOTCH1	HGNC	7881	protein_coding	YES	CCDS43905.1	ENSP00000277541	NOTC1_HUMAN	H9CXX2_HUMAN	UPI0000210F68	.	deleterious(0)	probably_damaging(1)	5/34	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24033:SF37,hmmpanther:PTHR24033,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,PIRSF_domain:PIRSF002279,SMART_domains:SM00181,SMART_domains:SM00179,Superfamily_domains:SSF57196,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCGTCGA	.	5	BLCA
SLC24A2	0	.	GRCh37	9	19786892	19786892	+	5'UTR	SNP	C	C	A	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28G>T	.	.	ENST00000341998	1/10	405	391	14	61	61	0	SLC24A2,5_prime_UTR_variant,,ENST00000341998,;SLC24A2,5_prime_UTR_variant,,ENST00000286344,;	A	ENSG00000155886	ENST00000341998	Transcript	5_prime_UTR_variant	35	.	.	.	.	.	.	.	-1	SLC24A2	HGNC	10976	protein_coding	YES	CCDS6493.1	ENSP00000344801	NCKX2_HUMAN	.	UPI000004FA46	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGATCTTCCA	.	2	BLCA
IFNA10	0	.	GRCh37	9	21206465	21206465	+	3'UTR	SNP	A	A	T	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*62T>A	.	.	ENST00000357374	1/1	97	60	36	91	91	0	IFNA10,3_prime_UTR_variant,,ENST00000357374,;IFNA7,upstream_gene_variant,,ENST00000239347,;IFNWP18,downstream_gene_variant,,ENST00000437472,;	T	ENSG00000186803	ENST00000357374	Transcript	3_prime_UTR_variant	678	.	.	.	.	.	.	.	-1	IFNA10	HGNC	5418	protein_coding	YES	CCDS6499.1	ENSP00000369566	IFN10_HUMAN	Q9UMJ2_HUMAN	UPI0000047765	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGAACTCAT	.	5	BLCA
STOML2	0	.	GRCh37	9	35099981	35099981	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51G>A	.	.	ENST00000356493	10/10	87	58	29	109	109	0	STOML2,3_prime_UTR_variant,,ENST00000452248,;STOML2,3_prime_UTR_variant,,ENST00000356493,;PIGO,upstream_gene_variant,,ENST00000341666,;FAM214B,downstream_gene_variant,,ENST00000605244,;FAM214B,downstream_gene_variant,,ENST00000322813,;PIGO,upstream_gene_variant,,ENST00000361778,;FAM214B,downstream_gene_variant,,ENST00000378554,;FAM214B,downstream_gene_variant,,ENST00000378566,;PIGO,upstream_gene_variant,,ENST00000298004,;PIGO,upstream_gene_variant,,ENST00000378617,;FAM214B,downstream_gene_variant,,ENST00000603301,;FAM214B,downstream_gene_variant,,ENST00000488109,;FAM214B,downstream_gene_variant,,ENST00000378557,;FAM214B,downstream_gene_variant,,ENST00000378561,;RP11-182N22.8,downstream_gene_variant,,ENST00000431804,;PIGO,upstream_gene_variant,,ENST00000472208,;PIGO,upstream_gene_variant,,ENST00000492770,;STOML2,downstream_gene_variant,,ENST00000487490,;STOML2,3_prime_UTR_variant,,ENST00000488050,;PIGO,upstream_gene_variant,,ENST00000474436,;PIGO,upstream_gene_variant,,ENST00000465745,;	T	ENSG00000165283	ENST00000356493	Transcript	3_prime_UTR_variant	1185	.	.	.	.	.	.	.	-1	STOML2	HGNC	14559	protein_coding	YES	CCDS6577.1	ENSP00000348886	STML2_HUMAN	.	UPI000006E47E	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATCAGGAA	.	5	BLCA
ARMCX1	0	.	GRCh37	X	100807941	100807941	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28G>A	p.Val10Met	p.V10M	ENST00000372829	4/4	68	57	11	63	63	0	ARMCX1,missense_variant,p.Val10Met,ENST00000372829,;	A	ENSG00000126947	ENST00000372829	Transcript	missense_variant	399	28	10	V/M	Gtg/Atg	COSM422289	.	.	1	ARMCX1	HGNC	18073	protein_coding	YES	CCDS14487.1	ENSP00000361917	ARMX1_HUMAN	Q68D26_HUMAN	UPI00000411D9	.	deleterious_low_confidence(0)	possibly_damaging(0.475)	4/4	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR15712,hmmpanther:PTHR15712:SF14,PROSITE_profiles:PS51257	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGTGGCC	.	5	BLCA
ZNF275	0	.	GRCh37	X	152612888	152612888	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.745C>T	p.Arg249Cys	p.R249C	ENST00000370251	4/5	89	78	11	65	65	0	ZNF275,missense_variant,p.Arg249Cys,ENST00000370251,;ZNF275,missense_variant,p.Arg279Cys,ENST00000440091,;ZNF275,missense_variant,p.Arg196Cys,ENST00000370249,;ZNF275,missense_variant,p.Arg249Cys,ENST00000421401,;snoU13,upstream_gene_variant,,ENST00000459572,;ZNF275,upstream_gene_variant,,ENST00000438239,;	T	ENSG00000063587	ENST00000370251	Transcript	missense_variant	922	745	249	R/C	Cgc/Tgc	COSM422196	.	.	1	ZNF275	HGNC	13069	protein_coding	YES	.	ENSP00000359271	.	A6NFS0_HUMAN	UPI000059DBB5	.	deleterious(0.01)	probably_damaging(0.969)	4/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24409,hmmpanther:PTHR24409:SF13,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCGCCAG	.	4	BLCA
PLXNB3	0	.	GRCh37	X	153035386	153035386	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1690C>T	p.Gln564Ter	p.Q564*	ENST00000538966	8/37	35	20	15	28	28	0	PLXNB3,stop_gained,p.Gln91Ter,ENST00000538543,;PLXNB3,stop_gained,p.Gln151Ter,ENST00000538282,;PLXNB3,stop_gained,p.Gln564Ter,ENST00000538966,;PLXNB3,stop_gained,p.Gln194Ter,ENST00000538776,;PLXNB3,stop_gained,p.Gln541Ter,ENST00000361971,;PLXNB3,upstream_gene_variant,,ENST00000411613,;U52111.14,upstream_gene_variant,,ENST00000434284,;U52111.14,upstream_gene_variant,,ENST00000416854,;PLXNB3,upstream_gene_variant,,ENST00000482654,;	T	ENSG00000198753	ENST00000538966	Transcript	stop_gained	1961	1690	564	Q/*	Cag/Tag	COSM422193	.	.	1	PLXNB3	HGNC	9105	protein_coding	YES	CCDS55536.1	ENSP00000442736	PLXB3_HUMAN	.	UPI0001AFF680	.	.	.	8/37	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF33	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGCAGGGC	.	5	BLCA
TKTL1	0	.	GRCh37	X	153543532	153543532	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874C>T	p.Arg292Trp	p.R292W	ENST00000369915	7/13	122	99	22	101	101	0	TKTL1,missense_variant,p.Arg32Trp,ENST00000217905,;TKTL1,missense_variant,p.Arg236Trp,ENST00000369912,;TKTL1,missense_variant,p.Arg292Trp,ENST00000369915,;TKTL1,downstream_gene_variant,,ENST00000426989,;TKTL1,downstream_gene_variant,,ENST00000426203,;TKTL1,downstream_gene_variant,,ENST00000439635,;	T	ENSG00000007350	ENST00000369915	Transcript	missense_variant	1063	874	292	R/W	Cgg/Tgg	COSM422182	.	.	1	TKTL1	HGNC	11835	protein_coding	YES	CCDS35448.1	ENSP00000358931	TKTL1_HUMAN	Q5TYJ8_HUMAN,B7Z7I0_HUMAN	UPI0000211D08	.	deleterious(0)	probably_damaging(0.995)	7/13	.	hmmpanther:PTHR11624,hmmpanther:PTHR11624:SF53,Pfam_domain:PF02779,Gene3D:3.40.50.970,SMART_domains:SM00861,Superfamily_domains:SSF52518	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACTCGGAAA	.	5	BLCA
ARSF	0	.	GRCh37	X	3030588	3030588	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1764G>A	p.%3D	p.E588E	ENST00000381127	11/11	20	13	7	21	21	0	ARSF,synonymous_variant,p.%3D,ENST00000381127,;ARSF,synonymous_variant,p.%3D,ENST00000359361,;ARSF,synonymous_variant,p.%3D,ENST00000537104,;RP13-824C8.2,downstream_gene_variant,,ENST00000443851,;	A	ENSG00000062096	ENST00000381127	Transcript	synonymous_variant	1985	1764	588	E	gaG/gaA	COSM422592	.	.	1	ARSF	HGNC	721	protein_coding	YES	CCDS14123.1	ENSP00000370519	ARSF_HUMAN	.	UPI00001A9629	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACGAGAAGAG	.	5	BLCA
RBM10	0	.	GRCh37	X	47041570	47041570	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1795A>C	p.Asn599His	p.N599H	ENST00000377604	17/24	75	66	8	30	30	0	RBM10,missense_variant,p.Asn521His,ENST00000329236,;RBM10,missense_variant,p.Asn599His,ENST00000377604,;RBM10,missense_variant,p.Asn522His,ENST00000345781,;RBM10,downstream_gene_variant,,ENST00000478410,;RBM10,downstream_gene_variant,,ENST00000496012,;	C	ENSG00000182872	ENST00000377604	Transcript	missense_variant	2537	1795	599	N/H	Aat/Cat	COSM422558	.	.	1	RBM10	HGNC	9896	protein_coding	YES	CCDS14274.1	ENSP00000366829	RBM10_HUMAN	.	UPI0000070DF1	.	deleterious(0)	probably_damaging(0.993)	17/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13948:SF4,hmmpanther:PTHR13948	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTACAATGCT	.	4	BLCA
PORCN	0	.	GRCh37	X	48378882	48378882	+	3'UTR	SNP	T	T	C	novel	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18T>C	.	.	ENST00000326194	14/14	70	58	12	39	39	0	PORCN,3_prime_UTR_variant,,ENST00000361988,;PORCN,3_prime_UTR_variant,,ENST00000355961,;PORCN,3_prime_UTR_variant,,ENST00000355092,;PORCN,3_prime_UTR_variant,,ENST00000359882,;PORCN,3_prime_UTR_variant,,ENST00000367574,;PORCN,3_prime_UTR_variant,,ENST00000326194,;EBP,upstream_gene_variant,,ENST00000446158,;EBP,upstream_gene_variant,,ENST00000414061,;EBP,upstream_gene_variant,,ENST00000495186,;PORCN,downstream_gene_variant,,ENST00000537758,;EBP,upstream_gene_variant,,ENST00000276096,;EBP,upstream_gene_variant,,ENST00000498425,;PORCN,3_prime_UTR_variant,,ENST00000485288,;PORCN,3_prime_UTR_variant,,ENST00000472520,;PORCN,non_coding_transcript_exon_variant,,ENST00000491243,;PORCN,downstream_gene_variant,,ENST00000459953,;	C	ENSG00000102312	ENST00000326194	Transcript	3_prime_UTR_variant	1447	.	.	.	.	.	.	.	1	PORCN	HGNC	17652	protein_coding	YES	CCDS14299.1	ENSP00000322304	PORCN_HUMAN	C9JWI5_HUMAN	UPI000014187F	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCCTCATAA	.	5	BLCA
ASB12	0	.	GRCh37	X	63445139	63445139	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.392C>T	p.Ser131Phe	p.S131F	ENST00000362002	2/3	21	17	4	36	36	0	ASB12,missense_variant,p.Ser122Phe,ENST00000396130,;MTMR8,missense_variant,p.Ser506Phe,ENST00000453546,;ASB12,missense_variant,p.Ser131Phe,ENST00000362002,;	A	ENSG00000198881	ENST00000362002	Transcript	missense_variant	585	392	131	S/F	tCt/tTt	COSM422521,COSM422520,COSM422522	.	.	-1	ASB12	HGNC	19763	protein_coding	YES	CCDS14378.2	ENSP00000355195	ASB12_HUMAN	.	UPI000013DA93	.	deleterious(0.01)	possibly_damaging(0.69)	2/3	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24120,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGAGAGGCA	.	2	BLCA
MED12	0	.	GRCh37	X	70340915	70340915	+	Silent	SNP	T	T	G	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648T>G	p.%3D	p.G216G	ENST00000374080	5/45	67	43	23	74	74	0	MED12,synonymous_variant,p.%3D,ENST00000374102,;MED12,synonymous_variant,p.%3D,ENST00000333646,;MED12,synonymous_variant,p.%3D,ENST00000374080,;MED12,downstream_gene_variant,,ENST00000429213,;	G	ENSG00000184634	ENST00000374080	Transcript	synonymous_variant	680	648	216	G	ggT/ggG	COSM422501,COSM422502	.	.	1	MED12	HGNC	11957	protein_coding	YES	CCDS43970.1	ENSP00000363193	MED12_HUMAN	Q7Z2F4_HUMAN,Q7Z2F1_HUMAN,Q7Z2E0_HUMAN	UPI00004257E2	.	.	.	5/45	.	hmmpanther:PTHR12796,hmmpanther:PTHR12796:SF4	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGGTTCCAC	.	5	BLCA
ATRX	0	.	GRCh37	X	76776904	76776904	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20V-01A-11D-A14W-08	TCGA-BT-A20V-11A-11D-A14W-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7048C>G	p.Leu2350Val	p.L2350V	ENST00000373344	33/35	71	62	9	75	75	0	ATRX,missense_variant,p.Leu2312Val,ENST00000395603,;ATRX,missense_variant,p.Leu2350Val,ENST00000373344,;ATRX,non_coding_transcript_exon_variant,,ENST00000480283,;	C	ENSG00000085224	ENST00000373344	Transcript	missense_variant	7263	7048	2350	L/V	Ctt/Gtt	COSM422483,COSM422484	.	.	-1	ATRX	HGNC	886	protein_coding	YES	CCDS14434.1	ENSP00000362441	ATRX_HUMAN	B4DLE1_HUMAN	UPI0000161F78	.	.	benign(0.049)	33/35	.	hmmpanther:PTHR10799:SF566,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCAAGAGGTT	.	5	BLCA
SEC31B	0	.	GRCh37	10	102265906	102265906	+	Missense_Mutation	SNP	C	C	A	rs775211699	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.935G>T	p.Cys312Phe	p.C312F	ENST00000370345	9/26	101	96	5	124	124	0	SEC31B,missense_variant,p.Cys315Phe,ENST00000370329,;SEC31B,missense_variant,p.Cys312Phe,ENST00000370345,;SEC31B,missense_variant,p.Cys312Phe,ENST00000451524,;SEC31B,missense_variant,p.Cys155Phe,ENST00000535773,;NDUFB8,downstream_gene_variant,,ENST00000531258,;SEC31B,missense_variant,p.Cys312Phe,ENST00000469546,;SEC31B,missense_variant,p.Cys311Phe,ENST00000462434,;NDUFB8,3_prime_UTR_variant,,ENST00000527595,;SEC31B,3_prime_UTR_variant,,ENST00000479697,;NDUFB8,3_prime_UTR_variant,,ENST00000529568,;SEC31B,3_prime_UTR_variant,,ENST00000482456,;SEC31B,non_coding_transcript_exon_variant,,ENST00000490567,;SEC31B,non_coding_transcript_exon_variant,,ENST00000484848,;NDUFB8,downstream_gene_variant,,ENST00000557395,;SEC31B,downstream_gene_variant,,ENST00000480905,;	A	ENSG00000075826	ENST00000370345	Transcript	missense_variant	1033	935	312	C/F	tGc/tTc	rs775211699,COSM1296852	.	.	-1	SEC31B	HGNC	23197	protein_coding	YES	CCDS7495.1	ENSP00000359370	SC31B_HUMAN	.	UPI0000070A8E	.	deleterious(0)	probably_damaging(0.989)	9/26	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR13923:SF22,hmmpanther:PTHR13923	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGGCACCAC	.	2	BLCA
RASGEF1A	0	.	GRCh37	10	43695680	43695680	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.706G>C	p.Glu236Gln	p.E236Q	ENST00000395809	6/13	13	10	3	14	14	0	RASGEF1A,missense_variant,p.Glu244Gln,ENST00000374459,;RASGEF1A,missense_variant,p.Glu236Gln,ENST00000395810,;RASGEF1A,missense_variant,p.Glu138Gln,ENST00000374455,;RASGEF1A,missense_variant,p.Glu236Gln,ENST00000395809,;RASGEF1A,non_coding_transcript_exon_variant,,ENST00000472864,;	G	ENSG00000198915	ENST00000395809	Transcript	missense_variant	3213	706	236	E/Q	Gag/Cag	COSM1297248,COSM1297247	.	.	-1	RASGEF1A	HGNC	24246	protein_coding	YES	CCDS7202.2	ENSP00000379154	RGF1A_HUMAN	.	UPI00002289AF	.	deleterious(0.02)	benign(0.229)	6/13	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113:SF172,hmmpanther:PTHR23113,Pfam_domain:PF00617,Gene3D:2ii0A02,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	GTCCTCAGGGT	.	4	BLCA
CXCL12	0	.	GRCh37	10	44873249	44873249	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.371T>C	p.Ile124Thr	p.I124T	ENST00000395794	4/4	24	16	8	29	29	0	CXCL12,missense_variant,p.Ile124Thr,ENST00000395794,;CXCL12,3_prime_UTR_variant,,ENST00000343575,;CXCL12,intron_variant,,ENST00000395795,;CXCL12,intron_variant,,ENST00000374426,;CXCL12,intron_variant,,ENST00000395793,;CXCL12,intron_variant,,ENST00000374429,;AL137026.1,upstream_gene_variant,,ENST00000593376,;CXCL12,downstream_gene_variant,,ENST00000496375,;CXCL12,downstream_gene_variant,,ENST00000488591,;	G	ENSG00000107562	ENST00000395794	Transcript	missense_variant	415	371	124	I/T	aTc/aCc	.	.	.	-1	CXCL12	HGNC	10672	protein_coding	YES	CCDS53527.1	ENSP00000379140	SDF1_HUMAN	.	UPI0000684849	.	tolerated_low_confidence(0.33)	possibly_damaging(0.711)	4/4	.	hmmpanther:PTHR18837:SF3,hmmpanther:PTHR18837	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGGATCTCA	.	5	BLCA
MAT1A	0	.	GRCh37	10	82033565	82033565	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1160G>C	p.Trp387Ser	p.W387S	ENST00000372213	9/9	211	152	59	209	209	0	MAT1A,missense_variant,p.Trp387Ser,ENST00000372213,;MAT1A,downstream_gene_variant,,ENST00000455001,;MAT1A,non_coding_transcript_exon_variant,,ENST00000480845,;MAT1A,non_coding_transcript_exon_variant,,ENST00000485270,;	G	ENSG00000151224	ENST00000372213	Transcript	missense_variant	1421	1160	387	W/S	tGg/tCg	COSM1297462	.	.	-1	MAT1A	HGNC	6903	protein_coding	YES	CCDS7365.1	ENSP00000361287	METK1_HUMAN	.	UPI000012EFF3	.	deleterious(0)	probably_damaging(0.999)	9/9	.	HAMAP:MF_00086,hmmpanther:PTHR11964:SF11,hmmpanther:PTHR11964,Gene3D:3.30.300.10,Pfam_domain:PF02773,TIGRFAM_domain:TIGR01034,PIRSF_domain:PIRSF000497,Superfamily_domains:SSF55973	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	CCTCCCATGGG	.	3	BLCA
CYP2C18	0	.	GRCh37	10	96484121	96484121	+	Missense_Mutation	SNP	T	T	C	rs758639306	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.980T>C	p.Ile327Thr	p.I327T	ENST00000285979	7/9	162	139	23	148	148	0	CYP2C18,missense_variant,p.Ile268Thr,ENST00000339022,;CYP2C18,missense_variant,p.Ile327Thr,ENST00000285979,;CYP2C19,non_coding_transcript_exon_variant,,ENST00000464755,;	C	ENSG00000108242	ENST00000285979	Transcript	missense_variant	1179	980	327	I/T	aTt/aCt	rs758639306,COSM1297524	.	.	1	CYP2C18	HGNC	2620	protein_coding	YES	CCDS7435.1	ENSP00000285979	CP2CI_HUMAN	Q16750_HUMAN	UPI000013DE1D	.	deleterious(0)	probably_damaging(1)	7/9	.	hmmpanther:PTHR24300:SF123,hmmpanther:PTHR24300,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAGATTGAAT	byFrequency	4	BLCA
DDI1	0	.	GRCh37	11	103908743	103908743	+	3'UTR	SNP	G	G	T	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2G>T	.	.	ENST00000302259	1/1	36	27	9	26	26	0	DDI1,3_prime_UTR_variant,,ENST00000302259,;PDGFD,intron_variant,,ENST00000302251,;PDGFD,intron_variant,,ENST00000393158,;PDGFD,upstream_gene_variant,,ENST00000529268,;	T	ENSG00000170967	ENST00000302259	Transcript	3_prime_UTR_variant	1436	.	.	.	.	.	.	.	1	DDI1	HGNC	18961	protein_coding	YES	CCDS31660.1	ENSP00000302805	DDI1_HUMAN	.	UPI0000047AEA	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAAAGCACGT	.	2	BLCA
DIXDC1	0	.	GRCh37	11	111844896	111844896	+	Missense_Mutation	SNP	G	G	T	rs367999890	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466G>T	p.Ala156Ser	p.A156S	ENST00000440460	4/21	51	35	15	54	53	0	DIXDC1,missense_variant,p.Ala156Ser,ENST00000531396,;DIXDC1,missense_variant,p.Ala156Ser,ENST00000440460,;DIXDC1,missense_variant,p.Ala155Ser,ENST00000529225,;DIXDC1,upstream_gene_variant,,ENST00000315253,;DIXDC1,non_coding_transcript_exon_variant,,ENST00000389821,;DIXDC1,upstream_gene_variant,,ENST00000524385,;DIXDC1,upstream_gene_variant,,ENST00000530411,;DIXDC1,non_coding_transcript_exon_variant,,ENST00000528399,;	T	ENSG00000150764	ENST00000440460	Transcript	missense_variant	763	466	156	A/S	Gcc/Tcc	rs367999890,COSM1297653	.	.	1	DIXDC1	HGNC	23695	protein_coding	YES	.	ENSP00000394352	.	J3KQC9_HUMAN	UPI00015E0094	.	deleterious(0.01)	possibly_damaging(0.833)	4/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10878,hmmpanther:PTHR10878:SF18	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTGCCCAG	byFrequency|byCluster	5	BLCA
APLP2	0	.	GRCh37	11	130005576	130005576	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1803C>T	p.%3D	p.P601P	ENST00000263574	13/18	92	65	27	67	67	0	APLP2,synonymous_variant,p.%3D,ENST00000338167,;APLP2,synonymous_variant,p.%3D,ENST00000263574,;APLP2,synonymous_variant,p.%3D,ENST00000539648,;APLP2,synonymous_variant,p.%3D,ENST00000528499,;APLP2,synonymous_variant,p.%3D,ENST00000543137,;APLP2,synonymous_variant,p.%3D,ENST00000345598,;APLP2,synonymous_variant,p.%3D,ENST00000278756,;APLP2,3_prime_UTR_variant,,ENST00000533616,;APLP2,upstream_gene_variant,,ENST00000530493,;APLP2,upstream_gene_variant,,ENST00000533860,;	T	ENSG00000084234	ENST00000263574	Transcript	synonymous_variant	1875	1803	601	P	ccC/ccT	COSM1297836	.	.	1	APLP2	HGNC	598	protein_coding	YES	CCDS8486.1	ENSP00000263574	APLP2_HUMAN	Q9UED0_HUMAN	UPI0000125CAE	.	.	.	13/18	.	hmmpanther:PTHR23103:SF14,hmmpanther:PTHR23103,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCCCTTCCA	.	5	BLCA
OR8I2	0	.	GRCh37	11	55861545	55861545	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762G>A	p.%3D	p.L254L	ENST00000302124	1/1	148	125	22	148	148	0	OR8I2,synonymous_variant,p.%3D,ENST00000302124,;OR8I4P,downstream_gene_variant,,ENST00000526965,;	A	ENSG00000172154	ENST00000302124	Transcript	synonymous_variant	793	762	254	L	ctG/ctA	COSM1298159	.	.	1	OR8I2	HGNC	15310	protein_coding	YES	CCDS31517.1	ENSP00000303864	OR8I2_HUMAN	H0YLY8_HUMAN	UPI0000041D16	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF207,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTGATTTT	.	4	BLCA
MALAT1	0	.	GRCh37	11	65266270	65266270	+	RNA	SNP	G	G	T	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1038G>T	.	.	ENST00000534336	1/1	179	154	25	236	236	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;MALAT1,upstream_gene_variant,,ENST00000544868,;	T	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	1038	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATGTTTCT	.	4	BLCA
MALAT1	0	.	GRCh37	11	65266271	65266271	+	RNA	SNP	T	T	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1039T>A	.	.	ENST00000534336	1/1	178	154	24	235	235	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;MALAT1,upstream_gene_variant,,ENST00000544868,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	1039	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATGTTTCTT	.	4	BLCA
ANKRD42	0	.	GRCh37	11	82921405	82921405	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310C>T	p.Leu104Phe	p.L104F	ENST00000393392	4/10	112	86	25	114	113	1	ANKRD42,missense_variant,p.Leu132Phe,ENST00000531895,;ANKRD42,missense_variant,p.Leu132Phe,ENST00000533342,;ANKRD42,missense_variant,p.Leu104Phe,ENST00000393392,;ANKRD42,missense_variant,p.Leu132Phe,ENST00000393389,;ANKRD42,missense_variant,p.Leu19Phe,ENST00000528722,;ANKRD42,missense_variant,p.Leu132Phe,ENST00000260047,;ANKRD42,missense_variant,p.Leu132Phe,ENST00000526731,;RP11-727A23.7,intron_variant,,ENST00000531869,;RP11-727A23.8,downstream_gene_variant,,ENST00000533906,;RP11-727A23.1,upstream_gene_variant,,ENST00000463987,;	T	ENSG00000137494	ENST00000393392	Transcript	missense_variant	472	310	104	L/F	Ctt/Ttt	COSM1298700	.	.	1	ANKRD42	HGNC	26752	protein_coding	YES	CCDS8265.1	ENSP00000377051	ANR42_HUMAN	.	UPI000013D0A8	.	deleterious(0.03)	probably_damaging(1)	4/10	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24201,hmmpanther:PTHR24201:SF2,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403,Prints_domain:PR01415	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACATCTTGCT	.	5	BLCA
RNF10	0	.	GRCh37	12	121001343	121001343	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1448G>T	p.Cys483Phe	p.C483F	ENST00000325954	9/17	59	41	17	55	55	0	RNF10,missense_variant,p.Cys29Phe,ENST00000540046,;RNF10,missense_variant,p.Cys488Phe,ENST00000413266,;RNF10,missense_variant,p.Cys483Phe,ENST00000325954,;RNF10,5_prime_UTR_variant,,ENST00000546262,;RNF10,downstream_gene_variant,,ENST00000542207,;RNF10,upstream_gene_variant,,ENST00000538254,;RNF10,downstream_gene_variant,,ENST00000542438,;RNF10,downstream_gene_variant,,ENST00000537740,;RNF10,upstream_gene_variant,,ENST00000543757,;RNF10,downstream_gene_variant,,ENST00000543675,;RNF10,upstream_gene_variant,,ENST00000535470,;RNF10,missense_variant,p.Cys19Phe,ENST00000545419,;RNF10,non_coding_transcript_exon_variant,,ENST00000544124,;RNF10,downstream_gene_variant,,ENST00000537376,;RNF10,upstream_gene_variant,,ENST00000535395,;RNF10,upstream_gene_variant,,ENST00000366112,;	T	ENSG00000022840	ENST00000325954	Transcript	missense_variant	1909	1448	483	C/F	tGc/tTc	COSM1299006	.	.	1	RNF10	HGNC	10055	protein_coding	YES	CCDS9201.1	ENSP00000322242	RNF10_HUMAN	F5H3A4_HUMAN	UPI000006D77E	.	tolerated(0.28)	benign(0.01)	9/17	.	hmmpanther:PTHR12983	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTGCACTG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49433217	49433217	+	Splice_Site	SNP	C	C	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8229+1G>T	.	p.X2743_splice	ENST00000301067	.	35	27	8	38	38	0	KMT2D,splice_donor_variant,,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	A	ENSG00000167548	ENST00000301067	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	.	32/53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTACCTGTG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49433218	49433218	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8229G>T	p.Gln2743His	p.Q2743H	ENST00000301067	32/54	35	27	8	39	39	0	KMT2D,missense_variant,p.Gln2743His,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	A	ENSG00000167548	ENST00000301067	Transcript	missense_variant	8229	8229	2743	Q/H	caG/caT	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	probably_damaging(0.993)	32/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTACCTGTGT	.	5	BLCA
LRRIQ1	0	.	GRCh37	12	85517961	85517961	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3671A>G	p.Lys1224Arg	p.K1224R	ENST00000393217	17/27	83	61	22	86	86	0	LRRIQ1,missense_variant,p.Lys1224Arg,ENST00000393217,;LRRIQ1,non_coding_transcript_exon_variant,,ENST00000525971,;	G	ENSG00000133640	ENST00000393217	Transcript	missense_variant	3732	3671	1224	K/R	aAg/aGg	COSM269523,COSM1299925,COSM1299924,COSM269524	.	.	1	LRRIQ1	HGNC	25708	protein_coding	YES	CCDS41816.1	ENSP00000376910	LRIQ1_HUMAN	A8MY60_HUMAN	UPI0000ED4E82	.	tolerated(0.11)	benign(0.022)	17/27	.	hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF66	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCAAGAAAG	.	5	BLCA
FRY	0	.	GRCh37	13	32757159	32757159	+	Silent	SNP	A	A	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3042A>G	p.%3D	p.E1014E	ENST00000380250	24/61	75	66	9	47	47	0	FRY,synonymous_variant,p.%3D,ENST00000380250,;	G	ENSG00000073910	ENST00000380250	Transcript	synonymous_variant	3538	3042	1014	E	gaA/gaG	COSM1300138	.	.	1	FRY	HGNC	20367	protein_coding	YES	CCDS41875.1	ENSP00000369600	FRY_HUMAN	Q96KW3_HUMAN,F5H4D2_HUMAN	UPI000046FD40	.	.	.	24/61	.	hmmpanther:PTHR12295,hmmpanther:PTHR12295:SF29,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGAAAGAAG	.	5	BLCA
PACS2	0	.	GRCh37	14	105861082	105861082	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*73G>A	.	.	ENST00000458164	25/25	33	25	7	26	26	0	PACS2,3_prime_UTR_variant,,ENST00000551743,;PACS2,3_prime_UTR_variant,,ENST00000458164,;PACS2,3_prime_UTR_variant,,ENST00000447393,;PACS2,3_prime_UTR_variant,,ENST00000547217,;PACS2,3_prime_UTR_variant,,ENST00000325438,;PACS2,downstream_gene_variant,,ENST00000551801,;TEX22,upstream_gene_variant,,ENST00000451127,;PACS2,downstream_gene_variant,,ENST00000430725,;PACS2,non_coding_transcript_exon_variant,,ENST00000551692,;PACS2,downstream_gene_variant,,ENST00000549030,;PACS2,downstream_gene_variant,,ENST00000547903,;TEX22,upstream_gene_variant,,ENST00000548638,;PACS2,downstream_gene_variant,,ENST00000550790,;PACS2,downstream_gene_variant,,ENST00000548796,;AL928654.1,upstream_gene_variant,,ENST00000542059,;	A	ENSG00000179364	ENST00000458164	Transcript	3_prime_UTR_variant	2963	.	.	.	.	.	.	.	1	PACS2	HGNC	23794	protein_coding	YES	CCDS45178.2	ENSP00000399732	PACS2_HUMAN	F8W0V0_HUMAN,F8W0B1_HUMAN	UPI0000E56F01	.	.	.	25/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTTCAGTTTAC	.	4	BLCA
HEATR4	0	.	GRCh37	14	73989224	73989224	+	Missense_Mutation	SNP	G	G	C	rs193290409	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633C>G	p.Asn211Lys	p.N211K	ENST00000553558	3/18	45	35	10	37	37	0	HEATR4,missense_variant,p.Asn211Lys,ENST00000334988,;HEATR4,missense_variant,p.Asn211Lys,ENST00000553558,;HEATR4,missense_variant,p.Asn164Lys,ENST00000560393,;HEATR4,downstream_gene_variant,,ENST00000557603,;HEATR4,downstream_gene_variant,,ENST00000556455,;HEATR4,downstream_gene_variant,,ENST00000563329,;RP3-414A15.11,upstream_gene_variant,,ENST00000553394,;RP3-414A15.2,upstream_gene_variant,,ENST00000555972,;	C	ENSG00000187105	ENST00000553558	Transcript	missense_variant	955	633	211	N/K	aaC/aaG	rs193290409,COSM1300812,COSM1300811	.	.	-1	HEATR4	HGNC	16761	protein_coding	YES	CCDS9815.2	ENSP00000450444	HEAT4_HUMAN	H3BSP2_HUMAN,G3V5L2_HUMAN,G3V3Q5_HUMAN	UPI00001FD7FD	.	deleterious(0.01)	possibly_damaging(0.69)	3/18	.	hmmpanther:PTHR12697,hmmpanther:PTHR12697:SF14	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTCGTTCAG	byCluster|by1000G	5	BLCA
HERC2	0	.	GRCh37	15	28501094	28501094	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2795A>T	p.Asp932Val	p.D932V	ENST00000261609	19/93	74	63	11	107	107	0	HERC2,missense_variant,p.Asp932Val,ENST00000261609,;HERC2,3_prime_UTR_variant,,ENST00000564734,;	A	ENSG00000128731	ENST00000261609	Transcript	missense_variant	2904	2795	932	D/V	gAt/gTt	.	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	probably_damaging(0.927)	19/93	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGATCAATC	.	5	BLCA
SNX33	0	.	GRCh37	15	75949429	75949429	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1598A>G	p.His533Arg	p.H533R	ENST00000308527	2/2	63	34	29	85	85	0	SNX33,missense_variant,p.His242Arg,ENST00000569152,;SNX33,missense_variant,p.His533Arg,ENST00000308527,;	G	ENSG00000173548	ENST00000308527	Transcript	missense_variant	2795	1598	533	H/R	cAc/cGc	COSM1301450	.	.	1	SNX33	HGNC	28468	protein_coding	YES	CCDS10283.1	ENSP00000311427	SNX33_HUMAN	.	UPI0000073AC2	.	deleterious(0)	benign(0.326)	2/2	.	PIRSF_domain:PIRSF027744,Pfam_domain:PF10456,hmmpanther:PTHR10555:SF121,hmmpanther:PTHR10555	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACCACTTCC	.	5	BLCA
AMDHD2	0	.	GRCh37	16	2570887	2570887	+	Silent	SNP	C	C	T	rs367882539	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201C>T	p.%3D	p.F67F	ENST00000413459	2/11	89	65	24	83	83	0	AMDHD2,synonymous_variant,p.%3D,ENST00000293971,;AMDHD2,synonymous_variant,p.%3D,ENST00000569879,;AMDHD2,synonymous_variant,p.%3D,ENST00000566706,;AMDHD2,synonymous_variant,p.%3D,ENST00000563556,;AMDHD2,synonymous_variant,p.%3D,ENST00000302956,;AMDHD2,synonymous_variant,p.%3D,ENST00000413459,;ATP6C,intron_variant,,ENST00000569317,;AMDHD2,intron_variant,,ENST00000568263,;RP11-20I23.1,downstream_gene_variant,,ENST00000564543,;ATP6V0C,downstream_gene_variant,,ENST00000568562,;ATP6V0C,downstream_gene_variant,,ENST00000565223,;ATP6V0C,downstream_gene_variant,,ENST00000330398,;ATP6V0C,downstream_gene_variant,,ENST00000564973,;AMDHD2,synonymous_variant,p.%3D,ENST00000563633,;AMDHD2,non_coding_transcript_exon_variant,,ENST00000565963,;AMDHD2,non_coding_transcript_exon_variant,,ENST00000567475,;AMDHD2,non_coding_transcript_exon_variant,,ENST00000569219,;	T	ENSG00000162066	ENST00000413459	Transcript	synonymous_variant	270	201	67	F	ttC/ttT	rs367882539,COSM1301773	.	.	1	AMDHD2	HGNC	24262	protein_coding	YES	CCDS53984.1	ENSP00000391596	NAGA_HUMAN	H3BTE3_HUMAN	UPI00017A73A4	.	.	.	2/11	.	Superfamily_domains:SSF51556,Gene3D:2.30.40.10,Pfam_domain:PF13594,hmmpanther:PTHR11113:SF1,hmmpanther:PTHR11113	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATTCATCGA	byCluster	5	BLCA
CDH11	0	.	GRCh37	16	65016108	65016108	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1096delG	p.Asp366ThrfsTer3	p.D366Tfs*3	ENST00000268603	8/13	158	119	39	118	118	0	CDH11,frameshift_variant,p.Asp366ThrfsTer3,ENST00000394156,;CDH11,frameshift_variant,p.Asp366ThrfsTer3,ENST00000268603,;CDH11,frameshift_variant,p.Asp240ThrfsTer3,ENST00000566827,;	-	ENSG00000140937	ENST00000268603	Transcript	frameshift_variant	1712	1096	366	D/X	Gac/ac	.	.	.	-1	CDH11	HGNC	1750	protein_coding	YES	CCDS10803.1	ENSP00000268603	CAD11_HUMAN	H3BUU9_HUMAN,H3BSM4_HUMAN,H3BR78_HUMAN,H3BQH2_HUMAN,H3BQB5_HUMAN,H3BPQ2_HUMAN,H3BP26_HUMAN	UPI000013D7C5	.	.	.	8/13	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF85,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGTGTCCTTGA	.	3	BLCA
RANBP10	0	.	GRCh37	16	67763673	67763673	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057T>A	p.Ser353Thr	p.S353T	ENST00000317506	9/14	129	116	13	132	132	0	RANBP10,missense_variant,p.Ser353Thr,ENST00000317506,;RANBP10,missense_variant,p.Ser124Thr,ENST00000536251,;RANBP10,missense_variant,p.Ser353Thr,ENST00000602677,;RANBP10,missense_variant,p.Ser236Thr,ENST00000411657,;RANBP10,missense_variant,p.Ser297Thr,ENST00000448631,;RANBP10,downstream_gene_variant,,ENST00000425512,;RANBP10,3_prime_UTR_variant,,ENST00000602506,;RANBP10,downstream_gene_variant,,ENST00000602638,;RANBP10,downstream_gene_variant,,ENST00000602525,;	T	ENSG00000141084	ENST00000317506	Transcript	missense_variant	1173	1057	353	S/T	Tcc/Acc	COSM1302142	.	.	-1	RANBP10	HGNC	29285	protein_coding	YES	CCDS32469.1	ENSP00000316589	RBP10_HUMAN	B3KP49_HUMAN	UPI00001C1FA6	.	tolerated(0.39)	benign(0.053)	9/14	.	Pfam_domain:PF10607,hmmpanther:PTHR12864,hmmpanther:PTHR12864:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCGGGAGCTCA	.	3	BLCA
KIAA0100	0	.	GRCh37	17	26969332	26969332	+	Silent	SNP	T	T	C	rs376138048	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537A>G	p.%3D	p.L179L	ENST00000528896	6/39	33	20	12	69	69	0	KIAA0100,synonymous_variant,p.%3D,ENST00000544884,;KIAA0100,synonymous_variant,p.%3D,ENST00000389003,;KIAA0100,synonymous_variant,p.%3D,ENST00000528896,;KIAA0100,3_prime_UTR_variant,,ENST00000583403,;KIAA0100,non_coding_transcript_exon_variant,,ENST00000580882,;KIAA0100,non_coding_transcript_exon_variant,,ENST00000582901,;KIAA0100,non_coding_transcript_exon_variant,,ENST00000577417,;KIAA0100,non_coding_transcript_exon_variant,,ENST00000577580,;KIAA0100,upstream_gene_variant,,ENST00000579253,;KIAA0100,upstream_gene_variant,,ENST00000581267,;	C	ENSG00000007202	ENST00000528896	Transcript	synonymous_variant	612	537	179	L	ttA/ttG	rs376138048,COSM1302561	.	.	-1	KIAA0100	HGNC	28960	protein_coding	YES	CCDS32595.1	ENSP00000436773	K0100_HUMAN	Q08E86_HUMAN,G1UI35_HUMAN	UPI00004B4130	.	.	.	6/39	.	hmmpanther:PTHR15678,Pfam_domain:PF10344	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACATAAGCT	byCluster	5	BLCA
CDK12	0	.	GRCh37	17	37681014	37681014	+	Silent	SNP	T	T	C	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3183T>C	p.%3D	p.P1061P	ENST00000447079	12/14	122	101	20	159	157	2	CDK12,synonymous_variant,p.%3D,ENST00000447079,;CDK12,synonymous_variant,p.%3D,ENST00000584632,;CDK12,synonymous_variant,p.%3D,ENST00000430627,;CDK12,upstream_gene_variant,,ENST00000559663,;	C	ENSG00000167258	ENST00000447079	Transcript	synonymous_variant	3216	3183	1061	P	ccT/ccC	COSM1302741	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	.	12/14	.	Gene3D:1.10.510.10,hmmpanther:PTHR24056:SF126,hmmpanther:PTHR24056	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCACCTCCATC	.	3	BLCA
USH1G	0	.	GRCh37	17	72916416	72916416	+	Missense_Mutation	SNP	C	C	G	rs764428038	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515G>C	p.Arg172Pro	p.R172P	ENST00000319642	2/3	64	44	19	59	59	0	USH1G,missense_variant,p.Arg172Pro,ENST00000319642,;OTOP2,upstream_gene_variant,,ENST00000580223,;OTOP2,upstream_gene_variant,,ENST00000331427,;USH1G,3_prime_UTR_variant,,ENST00000579243,;OTOP2,upstream_gene_variant,,ENST00000584711,;	G	ENSG00000182040	ENST00000319642	Transcript	missense_variant	698	515	172	R/P	cGt/cCt	rs764428038,COSM1303319	.	.	-1	USH1G	HGNC	16356	protein_coding	YES	CCDS32725.1	ENSP00000320076	USH1G_HUMAN	.	UPI00001BC010	.	tolerated(0.27)	benign(0.221)	2/3	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGAACGCTCG	byFrequency|byCluster	5	BLCA
TP53	0	.	GRCh37	17	7578239	7578239	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610G>T	p.Glu204Ter	p.E204*	ENST00000269305	6/11	45	30	15	49	48	1	TP53,stop_gained,p.Glu204Ter,ENST00000413465,;TP53,stop_gained,p.Glu204Ter,ENST00000420246,;TP53,stop_gained,p.Glu204Ter,ENST00000269305,;TP53,stop_gained,p.Glu72Ter,ENST00000509690,;TP53,stop_gained,p.Glu204Ter,ENST00000359597,;TP53,stop_gained,p.Glu111Ter,ENST00000514944,;TP53,stop_gained,p.Glu204Ter,ENST00000445888,;TP53,stop_gained,p.Glu204Ter,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,intron_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;	A	ENSG00000141510	ENST00000269305	Transcript	stop_gained	800	610	204	E/*	Gag/Tag	TP53_g.12679del,TP53_g.12679G>A,TP53_g.12679G>C,TP53_g.12679G>T,COSM10804,COSM44011,COSM45782,COSM43990,COSM165087,COSM437512,COSM437513,COSM165086,COSM165088,COSM437515,COSM3362449,COSM1679501,COSM165089,COSM437514	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	6/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E204*|c.610G>T|3,SITE|p.E72*|c.214G>T|10,SITE|p.E204*|c.610G>T|32,SITE|p.E111*|c.331G>T|9,SITE|p.E204*|c.610G>T|9,SITE|p.E204*|c.610G>T|9,SITE|p.E204*|c.610G>T|4,CODON|p.0?|c.1_1182del1182|6,CODON|p.E204fs*43|c.610delG|3,BUFFER|p.D207G|c.620A>G|4,BUFFER|p.L206fs*41|c.617delT|4,BUFFER|p.L206*|c.617T>A|9,BUFFER|p.Y73C|c.218A>G|19,BUFFER|p.Y112C|c.335A>G|18,BUFFER|p.Y112S|c.335A>C|3,BUFFER|p.Y205C|c.614A>G|17,BUFFER|p.Y205C|c.614A>G|5,BUFFER|p.Y205S|c.614A>C|3,BUFFER|p.Y205C|c.614A>G|72,BUFFER|p.Y205F|c.614A>T|7,BUFFER|p.Y205S|c.614A>C|14,BUFFER|p.Y205S|c.614A>C|3,BUFFER|p.Y205C|c.614A>G|18,BUFFER|p.Y205C|c.614A>G|8,BUFFER|p.Y73S|c.218A>C|3,BUFFER|p.Y205fs*4|c.613_614insC|4,BUFFER|p.Y112fs*4|c.334_335insC|4,BUFFER|p.Y73fs*4|c.217_218insC|4,BUFFER|p.Y205fs*4|c.613_614insC|4,BUFFER|p.Y205fs*4|c.613_614insC|4,BUFFER|p.Y205fs*4|c.613_614insC|4,BUFFER|p.Y205N|c.613T>A|5,BUFFER|p.Y205N|c.613T>A|3,BUFFER|p.Y112N|c.334T>A|3,BUFFER|p.Y205H|c.613T>C|6,BUFFER|p.Y205D|c.613T>G|14,BUFFER|p.Y73N|c.217T>A|3,BUFFER|p.V203V|c.609G>T|3,BUFFER|p.V203E|c.608T>A|6,BUFFER|p.V203L|c.607G>T|4,BUFFER|p.R202L|c.605G>T|3,BUFFER|p.R202H|c.605G>A|4,BUFFER|p.R202C|c.604C>T|4,BUFFER|p.R202S|c.604C>A|6,BUFFER|p.L201F|c.603G>T|3,BUFFER|p.L201F|c.603G>C|4,BUFFER|p.N200fs*47|c.598delA|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATACTCCACAC	.	5	BLCA
LAMA3	0	.	GRCh37	18	21364074	21364074	+	Missense_Mutation	SNP	G	G	T	rs777496182	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1556G>T	p.Arg519Leu	p.R519L	ENST00000313654	12/75	202	194	7	215	215	0	LAMA3,missense_variant,p.Arg519Leu,ENST00000313654,;LAMA3,missense_variant,p.Arg519Leu,ENST00000399516,;LAMA3,missense_variant,p.Arg519Leu,ENST00000585600,;	T	ENSG00000053747	ENST00000313654	Transcript	missense_variant	1797	1556	519	R/L	cGa/cTa	rs777496182,COSM1303620	.	.	1	LAMA3	HGNC	6483	protein_coding	YES	CCDS42419.1	ENSP00000324532	LAMA3_HUMAN	B0YJ32_HUMAN	UPI00001C1222	.	.	benign(0.223)	12/75	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF259,PROSITE_patterns:PS00022,PROSITE_patterns:PS01248,Pfam_domain:PF00053,Gene3D:2.10.25.10,SMART_domains:SM00180,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTCGATGTG	byFrequency	2	BLCA
CDH2	0	.	GRCh37	18	25573552	25573552	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1070A>G	p.Asn357Ser	p.N357S	ENST00000269141	8/16	195	165	30	265	265	0	CDH2,missense_variant,p.Asn326Ser,ENST00000399380,;CDH2,missense_variant,p.Asn357Ser,ENST00000269141,;	C	ENSG00000170558	ENST00000269141	Transcript	missense_variant	1494	1070	357	N/S	aAt/aGt	COSM1303647	.	.	-1	CDH2	HGNC	1759	protein_coding	YES	CCDS11891.1	ENSP00000269141	CADH2_HUMAN	C9JMH2_HUMAN,C9J126_HUMAN	UPI000013D7FD	.	tolerated(0.06)	benign(0.043)	8/16	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF79,hmmpanther:PTHR24027,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGATTGCCT	.	4	BLCA
ZNF44	0	.	GRCh37	19	12358887	12358887	+	Silent	SNP	T	T	G	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.828A>C	p.%3D	p.V276V	ENST00000426973	4/4	9	7	2	9	9	0	ZNF44,synonymous_variant,p.%3D,ENST00000426973,;ZNF44,3_prime_UTR_variant,,ENST00000393337,;ZNF44,intron_variant,,ENST00000600003,;ZNF44,downstream_gene_variant,,ENST00000397742,;	G	ENSG00000197857	ENST00000426973	Transcript	synonymous_variant	828	828	276	V	gtA/gtC	.	.	.	-1	ZNF44	HGNC	13110	protein_coding	.	.	ENSP00000395745	.	I6L4V1_HUMAN	UPI0001662ABF	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24379,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACCTACAGA	.	2	BLCA
EGLN2	0	.	GRCh37	19	41307012	41307012	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535C>G	p.Leu179Val	p.L179V	ENST00000593726	1/5	126	106	20	131	131	0	EGLN2,missense_variant,p.Leu179Val,ENST00000593726,;EGLN2,missense_variant,p.Leu179Val,ENST00000406058,;EGLN2,missense_variant,p.Leu179Val,ENST00000303961,;EGLN2,downstream_gene_variant,,ENST00000593972,;EGLN2,downstream_gene_variant,,ENST00000594380,;EGLN2,downstream_gene_variant,,ENST00000593525,;EGLN2,downstream_gene_variant,,ENST00000598654,;RAB4B,downstream_gene_variant,,ENST00000357052,;EGLN2,upstream_gene_variant,,ENST00000597746,;EGLN2,downstream_gene_variant,,ENST00000596517,;EGLN2,upstream_gene_variant,,ENST00000594140,;RAB4B,downstream_gene_variant,,ENST00000595728,;EGLN2,downstream_gene_variant,,ENST00000601733,;EGLN2,downstream_gene_variant,,ENST00000593397,;RAB4B-EGLN2,downstream_gene_variant,,ENST00000601949,;RAB4B-EGLN2,3_prime_UTR_variant,,ENST00000594136,;CTC-490E21.12,upstream_gene_variant,,ENST00000601627,;RAB4B-EGLN2,downstream_gene_variant,,ENST00000596216,;EGLN2,upstream_gene_variant,,ENST00000599579,;RAB4B,downstream_gene_variant,,ENST00000598430,;RAB4B,downstream_gene_variant,,ENST00000378307,;RAB4B,downstream_gene_variant,,ENST00000597476,;EGLN2,upstream_gene_variant,,ENST00000593445,;	G	ENSG00000269858	ENST00000593726	Transcript	missense_variant	1563	535	179	L/V	Ctg/Gtg	COSM1304616	.	.	1	EGLN2	HGNC	14660	protein_coding	YES	CCDS12567.1	ENSP00000469686	EGLN2_HUMAN	M0R2X9_HUMAN,M0R1W4_HUMAN,M0R1A3_HUMAN,M0R110_HUMAN,M0R0Z6_HUMAN,M0R035_HUMAN,M0QXR0_HUMAN,M0QXM8_HUMAN	UPI0000050C8F	.	tolerated(0.17)	benign(0)	1/5	.	hmmpanther:PTHR12907,hmmpanther:PTHR12907:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCCCTGGAC	.	4	BLCA
CYP2B6	0	.	GRCh37	19	41518596	41518596	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1170C>G	p.%3D	p.L390L	ENST00000324071	8/9	159	107	51	176	176	0	CYP2B6,synonymous_variant,p.%3D,ENST00000593831,;CYP2B6,synonymous_variant,p.%3D,ENST00000330446,;CYP2B6,synonymous_variant,p.%3D,ENST00000324071,;CYP2B6,intron_variant,,ENST00000597612,;	G	ENSG00000197408	ENST00000324071	Transcript	synonymous_variant	1177	1170	390	L	ctC/ctG	COSM1304624	.	.	1	CYP2B6	HGNC	2615	protein_coding	YES	CCDS12570.1	ENSP00000324648	CP2B6_HUMAN	Q9UNX8_HUMAN,F2X1B0_HUMAN	UPI000012823F	.	.	.	8/9	.	hmmpanther:PTHR24300:SF146,hmmpanther:PTHR24300,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCATCCT	.	5	BLCA
FBN3	0	.	GRCh37	19	8131048	8131048	+	Missense_Mutation	SNP	C	C	A	rs780445413	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8185G>T	p.Ala2729Ser	p.A2729S	ENST00000600128	64/64	51	44	7	52	52	0	FBN3,missense_variant,p.Ala2729Ser,ENST00000600128,;FBN3,missense_variant,p.Ala2729Ser,ENST00000601739,;FBN3,missense_variant,p.Ala2729Ser,ENST00000270509,;CCL25,downstream_gene_variant,,ENST00000253451,;CCL25,downstream_gene_variant,,ENST00000390669,;CCL25,downstream_gene_variant,,ENST00000458625,;	A	ENSG00000142449	ENST00000600128	Transcript	missense_variant	8600	8185	2729	A/S	Gcc/Tcc	rs780445413,COSM1305318	.	.	-1	FBN3	HGNC	18794	protein_coding	YES	CCDS12196.1	ENSP00000470498	FBN3_HUMAN	.	UPI000013D88F	.	tolerated(0.06)	probably_damaging(0.925)	64/64	.	hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF0,PIRSF_domain:PIRSF036312	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGGCCGGCC	.	4	BLCA
MUC16	0	.	GRCh37	19	9065495	9065495	+	Silent	SNP	G	G	A	rs745945024	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21951C>T	p.%3D	p.I7317I	ENST00000397910	3/84	81	65	15	67	67	0	MUC16,synonymous_variant,p.%3D,ENST00000397910,;	A	ENSG00000181143	ENST00000397910	Transcript	synonymous_variant	22155	21951	7317	I	atC/atT	rs745945024,COSM1305374,COSM1305375,COSM1305373	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	3/84	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAGGATGGG	.	5	BLCA
CD101	0	.	GRCh37	1	117552557	117552557	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.129C>A	p.Cys43Ter	p.C43*	ENST00000256652	2/10	84	62	21	96	96	0	CD101,stop_gained,p.Cys43Ter,ENST00000369470,;CD101,stop_gained,p.Cys43Ter,ENST00000256652,;	A	ENSG00000134256	ENST00000256652	Transcript	stop_gained	187	129	43	C/*	tgC/tgA	COSM1294785	.	.	1	CD101	HGNC	5949	protein_coding	YES	CCDS891.1	ENSP00000256652	IGSF2_HUMAN	.	UPI000013CF1F	.	.	.	2/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12207:SF20,hmmpanther:PTHR12207,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTGCAATGT	.	5	BLCA
SELENBP1	0	.	GRCh37	1	151337031	151337031	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1407C>A	p.Asp469Glu	p.D469E	ENST00000368868	12/12	143	126	17	123	123	0	SELENBP1,missense_variant,p.Asp469Glu,ENST00000368868,;SELENBP1,missense_variant,p.Asp405Glu,ENST00000435071,;SELENBP1,missense_variant,p.Asp407Glu,ENST00000447402,;SELENBP1,missense_variant,p.Asp511Glu,ENST00000426705,;SELENBP1,downstream_gene_variant,,ENST00000427867,;SELENBP1,downstream_gene_variant,,ENST00000424475,;SELENBP1,downstream_gene_variant,,ENST00000458566,;SELENBP1,downstream_gene_variant,,ENST00000473693,;SELENBP1,downstream_gene_variant,,ENST00000498494,;SELENBP1,3_prime_UTR_variant,,ENST00000455397,;SELENBP1,3_prime_UTR_variant,,ENST00000423070,;SELENBP1,3_prime_UTR_variant,,ENST00000443708,;SELENBP1,3_prime_UTR_variant,,ENST00000427977,;SELENBP1,non_coding_transcript_exon_variant,,ENST00000470345,;SELENBP1,non_coding_transcript_exon_variant,,ENST00000474352,;SELENBP1,non_coding_transcript_exon_variant,,ENST00000493560,;SELENBP1,non_coding_transcript_exon_variant,,ENST00000463664,;SELENBP1,downstream_gene_variant,,ENST00000492643,;SELENBP1,downstream_gene_variant,,ENST00000465273,;SELENBP1,downstream_gene_variant,,ENST00000455839,;	T	ENSG00000143416	ENST00000368868	Transcript	missense_variant	1499	1407	469	D/E	gaC/gaA	COSM1295046	.	.	-1	SELENBP1	HGNC	10719	protein_coding	YES	CCDS995.1	ENSP00000357861	SBP1_HUMAN	C9JVL0_HUMAN	UPI000007300D	.	deleterious(0.04)	probably_damaging(0.975)	12/12	.	hmmpanther:PTHR23300,Pfam_domain:PF05694	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGATGTCAGA	.	4	BLCA
OR10K2	0	.	GRCh37	1	158390585	158390585	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>A	p.%3D	p.Q24Q	ENST00000314902	1/1	94	65	28	91	90	1	OR10K2,synonymous_variant,p.%3D,ENST00000314902,;	T	ENSG00000180708	ENST00000314902	Transcript	synonymous_variant	72	72	24	Q	caG/caA	COSM1295283	.	.	-1	OR10K2	HGNC	14826	protein_coding	YES	CCDS30896.1	ENSP00000324251	O10K2_HUMAN	.	UPI0000041BC2	.	.	.	1/1	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF325	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGCTGCAG	.	5	BLCA
TNN	0	.	GRCh37	1	175097790	175097790	+	Missense_Mutation	SNP	G	G	A	rs567971988	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3238G>A	p.Ala1080Thr	p.A1080T	ENST00000239462	15/19	97	90	7	95	95	0	TNN,missense_variant,p.Ala1080Thr,ENST00000239462,;	A	ENSG00000120332	ENST00000239462	Transcript	missense_variant	3351	3238	1080	A/T	Gcc/Acc	rs567971988,COSM1295518	.	.	1	TNN	HGNC	22942	protein_coding	YES	CCDS30943.1	ENSP00000239462	TENN_HUMAN	.	UPI00001D7DA9	.	tolerated(0.14)	benign(0.36)	15/19	.	PROSITE_profiles:PS51406,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF167,Gene3D:3.90.215.10,Pfam_domain:PF00147,SMART_domains:SM00186,Superfamily_domains:SSF56496	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.A1080T|c.3238G>A|3	MUTECT|MUSE	ATGCCGCCAGT	by1000G	2	BLCA
EIF4G3	0	.	GRCh37	1	21177871	21177871	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3502G>T	p.Asp1168Tyr	p.D1168Y	ENST00000602326	26/35	116	99	16	136	136	0	EIF4G3,missense_variant,p.Asp882Tyr,ENST00000374935,;EIF4G3,missense_variant,p.Asp1162Tyr,ENST00000400422,;EIF4G3,missense_variant,p.Asp652Tyr,ENST00000537738,;EIF4G3,missense_variant,p.Asp1168Tyr,ENST00000374937,;EIF4G3,missense_variant,p.Asp766Tyr,ENST00000536266,;EIF4G3,missense_variant,p.Asp1168Tyr,ENST00000602326,;EIF4G3,missense_variant,p.Asp1162Tyr,ENST00000264211,;EIF4G3,upstream_gene_variant,,ENST00000435383,;	A	ENSG00000075151	ENST00000602326	Transcript	missense_variant	4086	3502	1168	D/Y	Gac/Tac	COSM1295834,COSM1295833	.	.	-1	EIF4G3	HGNC	3298	protein_coding	YES	CCDS55580.1	ENSP00000473510	IF4G3_HUMAN	Q59GJ0_HUMAN,F5H564_HUMAN	UPI0001639589	.	deleterious(0)	probably_damaging(0.971)	26/35	.	hmmpanther:PTHR23253,hmmpanther:PTHR23253:SF23	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTGTCTAGCA	.	4	BLCA
LRRC7	0	.	GRCh37	1	70478699	70478699	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1063A>G	p.Asn355Asp	p.N355D	ENST00000035383	11/25	149	107	41	179	179	0	LRRC7,missense_variant,p.Asn355Asp,ENST00000035383,;LRRC7,missense_variant,p.Asn360Asp,ENST00000310961,;LRRC7,5_prime_UTR_variant,,ENST00000415775,;RP11-181B18.1,downstream_gene_variant,,ENST00000414132,;	G	ENSG00000033122	ENST00000035383	Transcript	missense_variant	1093	1063	355	N/D	Aac/Gac	COSM1296669	.	.	1	LRRC7	HGNC	18531	protein_coding	YES	CCDS645.1	ENSP00000035383	LRRC7_HUMAN	.	UPI000006F29B	.	deleterious(0)	probably_damaging(0.991)	11/25	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23155:SF459,hmmpanther:PTHR23155,Pfam_domain:PF12799,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCCAACAAA	.	5	BLCA
CHD6	0	.	GRCh37	20	40042085	40042085	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7010C>T	p.Ser2337Leu	p.S2337L	ENST00000373233	35/37	40	33	7	27	27	0	CHD6,missense_variant,p.Ser2337Leu,ENST00000373233,;CHD6,non_coding_transcript_exon_variant,,ENST00000480022,;	A	ENSG00000124177	ENST00000373233	Transcript	missense_variant	7188	7010	2337	S/L	tCg/tTg	COSM1307399	.	.	-1	CHD6	HGNC	19057	protein_coding	YES	CCDS13317.1	ENSP00000362330	CHD6_HUMAN	.	UPI0000168656	.	tolerated(0.07)	benign(0.004)	35/37	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCCGAGGTG	.	2	BLCA
ZNF831	0	.	GRCh37	20	57828995	57828995	+	Missense_Mutation	SNP	C	C	T	rs367953655	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4231C>T	p.His1411Tyr	p.H1411Y	ENST00000371030	5/5	114	92	22	140	139	0	ZNF831,missense_variant,p.His1411Tyr,ENST00000371030,;	T	ENSG00000124203	ENST00000371030	Transcript	missense_variant	4231	4231	1411	H/Y	Cac/Tac	rs367953655,COSM1307556	.	.	1	ZNF831	HGNC	16167	protein_coding	YES	CCDS42894.1	ENSP00000360069	ZN831_HUMAN	.	UPI00001D82E4	.	tolerated(0.15)	benign(0.062)	5/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF52	.	.	.	.	.	.	.	G:0	G:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACTCACAGC	byCluster	5	BLCA
ZBTB46	0	.	GRCh37	20	62421673	62421673	+	Silent	SNP	G	G	A	rs142438754	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438C>T	p.%3D	p.I146I	ENST00000245663	2/5	30	20	9	44	43	1	ZBTB46,synonymous_variant,p.%3D,ENST00000302995,;ZBTB46,synonymous_variant,p.%3D,ENST00000395104,;ZBTB46,synonymous_variant,p.%3D,ENST00000245663,;ZBTB46,upstream_gene_variant,,ENST00000480766,;	A	ENSG00000130584	ENST00000245663	Transcript	synonymous_variant	589	438	146	I	atC/atT	rs142438754,COSM1307642	.	.	-1	ZBTB46	HGNC	16094	protein_coding	YES	CCDS13538.1	ENSP00000245663	ZBT46_HUMAN	.	UPI0000206406	.	.	.	2/5	.	hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF118	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.0007	A:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCGCCGATCTC	byCluster|by1000G	4	BLCA
KRTAP24-1	0	.	GRCh37	21	31655068	31655068	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.183C>G	p.Cys61Trp	p.C61W	ENST00000340345	1/1	73	49	23	133	133	0	KRTAP24-1,missense_variant,p.Cys61Trp,ENST00000340345,;	C	ENSG00000188694	ENST00000340345	Transcript	missense_variant	209	183	61	C/W	tgC/tgG	COSM3550136,COSM1307709	.	.	-1	KRTAP24-1	HGNC	33902	protein_coding	YES	CCDS42915.1	ENSP00000339238	KR241_HUMAN	.	UPI00005C50F3	.	deleterious(0)	probably_damaging(0.963)	1/1	.	hmmpanther:PTHR23260:SF2,hmmpanther:PTHR23260,Pfam_domain:PF05287	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTGGCAGTA	.	5	BLCA
PRODH	0	.	GRCh37	22	18910367	18910367	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.812C>A	p.Ala271Asp	p.A271D	ENST00000357068	6/14	96	88	8	89	89	0	PRODH,missense_variant,p.Ala112Asp,ENST00000450579,;PRODH,missense_variant,p.Ala132Asp,ENST00000438924,;PRODH,missense_variant,p.Ala163Asp,ENST00000420436,;PRODH,missense_variant,p.Ala271Asp,ENST00000357068,;PRODH,missense_variant,p.Ala163Asp,ENST00000334029,;PRODH,downstream_gene_variant,,ENST00000457083,;PRODH,non_coding_transcript_exon_variant,,ENST00000399694,;PRODH,non_coding_transcript_exon_variant,,ENST00000491604,;PRODH,non_coding_transcript_exon_variant,,ENST00000482858,;PRODH,non_coding_transcript_exon_variant,,ENST00000429300,;PRODH,upstream_gene_variant,,ENST00000313755,;PRODH,upstream_gene_variant,,ENST00000446371,;PRODH,downstream_gene_variant,,ENST00000496625,;PRODH,upstream_gene_variant,,ENST00000609229,;	T	ENSG00000100033	ENST00000357068	Transcript	missense_variant	1078	812	271	A/D	gCt/gAt	COSM1307941	.	.	-1	PRODH	HGNC	9453	protein_coding	YES	CCDS13754.1	ENSP00000349577	PROD_HUMAN	E7EQL6_HUMAN,C9JIW4_HUMAN	UPI00001AE5E1	.	tolerated(0.3)	benign(0.003)	6/14	.	hmmpanther:PTHR13914,hmmpanther:PTHR13914:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGCAGCCAGG	.	3	BLCA
GSTT1	0	.	GRCh37	22	24384187	24384187	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45C>T	p.%3D	p.R15R	ENST00000248935	1/5	102	26	76	63	63	0	GSTT1,synonymous_variant,p.%3D,ENST00000248935,;GSTT1,synonymous_variant,p.%3D,ENST00000447865,;GSTT1,synonymous_variant,p.%3D,ENST00000417870,;GSTT1,5_prime_UTR_variant,,ENST00000439996,;GSTT1,upstream_gene_variant,,ENST00000436103,;GSTT1,synonymous_variant,p.%3D,ENST00000458231,;GSTT1,synonymous_variant,p.%3D,ENST00000426209,;GSTT1,synonymous_variant,p.%3D,ENST00000417831,;GSTT1,synonymous_variant,p.%3D,ENST00000417489,;GSTT1,synonymous_variant,p.%3D,ENST00000418883,;GSTT1,non_coding_transcript_exon_variant,,ENST00000486544,;GSTT1,non_coding_transcript_exon_variant,,ENST00000428175,;GSTT1,non_coding_transcript_exon_variant,,ENST00000480898,;GSTTP2,downstream_gene_variant,,ENST00000485225,;	A	ENSG00000184674	ENST00000248935	Transcript	synonymous_variant	98	45	15	R	cgC/cgT	COSM1308005	.	.	-1	GSTT1	HGNC	4641	protein_coding	YES	CCDS13822.1	ENSP00000248935	GSTT1_HUMAN	Q6IC69_HUMAN,Q4GZS9_HUMAN,C9JA47_HUMAN	UPI000004A942	.	.	.	1/5	.	Superfamily_domains:SSF52833,Gene3D:3.40.30.10,hmmpanther:PTHR11260,hmmpanther:PTHR11260:SF168,PROSITE_profiles:PS50404	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGCGCGGCA	.	5	BLCA
PIWIL3	0	.	GRCh37	22	25124271	25124271	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1805G>T	p.Cys602Phe	p.C602F	ENST00000332271	15/21	153	140	13	186	185	1	PIWIL3,missense_variant,p.Cys602Phe,ENST00000332271,;PIWIL3,missense_variant,p.Cys484Phe,ENST00000527701,;PIWIL3,missense_variant,p.Cys484Phe,ENST00000533313,;PIWIL3,non_coding_transcript_exon_variant,,ENST00000532537,;	A	ENSG00000184571	ENST00000332271	Transcript	missense_variant	2222	1805	602	C/F	tGc/tTc	COSM1308017	.	.	-1	PIWIL3	HGNC	18443	protein_coding	YES	CCDS33623.1	ENSP00000330031	PIWL3_HUMAN	.	UPI00002073D6	.	tolerated(0.19)	benign(0.026)	15/21	.	PROSITE_profiles:PS50822,hmmpanther:PTHR22892:SF28,hmmpanther:PTHR22892,Gene3D:3.40.50.2300,Pfam_domain:PF02171,SMART_domains:SM00950,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGGGCATTTG	.	3	BLCA
EP300	0	.	GRCh37	22	41574469	41574469	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6754G>T	p.Glu2252Ter	p.E2252*	ENST00000263253	31/31	74	38	36	79	79	0	EP300,stop_gained,p.Glu2252Ter,ENST00000263253,;RP1-85F18.5,intron_variant,,ENST00000420537,;RP1-85F18.6,intron_variant,,ENST00000415054,;	T	ENSG00000100393	ENST00000263253	Transcript	stop_gained	7973	6754	2252	E/*	Gag/Tag	COSM1308214	.	.	1	EP300	HGNC	3373	protein_coding	YES	CCDS14010.1	ENSP00000263253	EP300_HUMAN	B5A250_HUMAN	UPI00001AE876	.	.	.	31/31	.	hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCAGAGGCA	.	5	BLCA
AFF3	0	.	GRCh37	2	100210166	100210166	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2032C>T	p.Arg678Trp	p.R678W	ENST00000356421	14/24	107	89	17	117	117	0	AFF3,missense_variant,p.Arg678Trp,ENST00000409579,;AFF3,missense_variant,p.Arg678Trp,ENST00000356421,;AFF3,missense_variant,p.Arg653Trp,ENST00000317233,;AFF3,missense_variant,p.Arg653Trp,ENST00000409236,;	A	ENSG00000144218	ENST00000356421	Transcript	missense_variant	2176	2032	678	R/W	Cgg/Tgg	COSM1305455	.	.	-1	AFF3	HGNC	6473	protein_coding	YES	CCDS33258.1	ENSP00000348793	AFF3_HUMAN	.	UPI000041098C	.	deleterious(0)	probably_damaging(0.999)	14/24	.	hmmpanther:PTHR10528,hmmpanther:PTHR10528:SF16,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCCGCGTGC	.	4	BLCA
NEUROD1	0	.	GRCh37	2	182543033	182543033	+	Silent	SNP	C	C	T	rs538415264	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.555G>A	p.%3D	p.A185A	ENST00000295108	2/2	95	72	23	104	104	0	NEUROD1,synonymous_variant,p.%3D,ENST00000295108,;AC013733.3,upstream_gene_variant,,ENST00000440371,;CERKL,intron_variant,,ENST00000497337,;NEUROD1,intron_variant,,ENST00000496876,;CERKL,intron_variant,,ENST00000479558,;	T	ENSG00000162992	ENST00000295108	Transcript	synonymous_variant	1013	555	185	A	gcG/gcA	rs538415264,COSM1306204	.	.	-1	NEUROD1	HGNC	7762	protein_coding	YES	CCDS2283.1	ENSP00000295108	NDF1_HUMAN	.	UPI000013E207	.	.	.	2/2	.	hmmpanther:PTHR19290:SF88,hmmpanther:PTHR19290,Pfam_domain:PF12533,PIRSF_domain:PIRSF015618	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CAGCCCGCAAC	by1000G	4	BLCA
IKZF2	0	.	GRCh37	2	213872047	213872047	+	3'UTR	SNP	C	C	G	rs778194671	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*37G>C	.	.	ENST00000457361	8/8	44	36	8	83	82	1	IKZF2,3_prime_UTR_variant,,ENST00000457361,;IKZF2,3_prime_UTR_variant,,ENST00000434687,;IKZF2,3_prime_UTR_variant,,ENST00000342002,;IKZF2,3_prime_UTR_variant,,ENST00000374319,;IKZF2,downstream_gene_variant,,ENST00000374327,;IKZF2,downstream_gene_variant,,ENST00000421754,;IKZF2,downstream_gene_variant,,ENST00000451136,;IKZF2,downstream_gene_variant,,ENST00000413091,;AC079610.1,intron_variant,,ENST00000415387,;IKZF2,non_coding_transcript_exon_variant,,ENST00000484040,;IKZF2,downstream_gene_variant,,ENST00000453575,;IKZF2,downstream_gene_variant,,ENST00000439848,;IKZF2,downstream_gene_variant,,ENST00000412444,;IKZF2,downstream_gene_variant,,ENST00000431520,;IKZF2,downstream_gene_variant,,ENST00000374326,;	G	ENSG00000030419	ENST00000457361	Transcript	3_prime_UTR_variant	1787	.	.	.	.	rs778194671	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	CAGTTCTTTAC	.	4	BLCA
IKZF2	0	.	GRCh37	2	213872176	213872176	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489G>A	p.Asp497Asn	p.D497N	ENST00000457361	8/8	110	95	15	150	149	1	IKZF2,missense_variant,p.Asp497Asn,ENST00000457361,;IKZF2,missense_variant,p.Asp497Asn,ENST00000434687,;IKZF2,missense_variant,p.Asp352Asn,ENST00000374327,;IKZF2,missense_variant,p.Asp423Asn,ENST00000421754,;IKZF2,missense_variant,p.Asp425Asn,ENST00000451136,;IKZF2,missense_variant,p.Asp503Asn,ENST00000342002,;IKZF2,missense_variant,p.Asp471Asn,ENST00000374319,;IKZF2,3_prime_UTR_variant,,ENST00000413091,;AC079610.1,intron_variant,,ENST00000415387,;IKZF2,3_prime_UTR_variant,,ENST00000453575,;IKZF2,3_prime_UTR_variant,,ENST00000439848,;IKZF2,3_prime_UTR_variant,,ENST00000412444,;IKZF2,3_prime_UTR_variant,,ENST00000431520,;IKZF2,3_prime_UTR_variant,,ENST00000374326,;IKZF2,non_coding_transcript_exon_variant,,ENST00000484040,;	T	ENSG00000030419	ENST00000457361	Transcript	missense_variant	1658	1489	497	D/N	Gac/Aac	COSM1306392	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	deleterious(0.04)	benign(0.022)	8/8	.	hmmpanther:PTHR24404:SF31,hmmpanther:PTHR24404,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGTCCCGGT	.	4	BLCA
IKZF2	0	.	GRCh37	2	213872245	213872245	+	Missense_Mutation	SNP	C	C	G	rs372900002	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1420G>C	p.Glu474Gln	p.E474Q	ENST00000457361	8/8	141	122	18	176	176	0	IKZF2,missense_variant,p.Glu474Gln,ENST00000457361,;IKZF2,missense_variant,p.Glu474Gln,ENST00000434687,;IKZF2,missense_variant,p.Glu329Gln,ENST00000374327,;IKZF2,missense_variant,p.Glu400Gln,ENST00000421754,;IKZF2,missense_variant,p.Glu402Gln,ENST00000451136,;IKZF2,missense_variant,p.Glu480Gln,ENST00000342002,;IKZF2,missense_variant,p.Glu448Gln,ENST00000374319,;IKZF2,3_prime_UTR_variant,,ENST00000413091,;AC079610.1,intron_variant,,ENST00000415387,;IKZF2,3_prime_UTR_variant,,ENST00000453575,;IKZF2,3_prime_UTR_variant,,ENST00000439848,;IKZF2,3_prime_UTR_variant,,ENST00000412444,;IKZF2,3_prime_UTR_variant,,ENST00000431520,;IKZF2,3_prime_UTR_variant,,ENST00000374326,;IKZF2,non_coding_transcript_exon_variant,,ENST00000484040,;	G	ENSG00000030419	ENST00000457361	Transcript	missense_variant	1589	1420	474	E/Q	Gag/Cag	rs372900002,COSM1306393	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	deleterious(0.03)	probably_damaging(0.993)	8/8	.	hmmpanther:PTHR24404:SF31,hmmpanther:PTHR24404,PROSITE_patterns:PS00028,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGCTCACACT	.	4	BLCA
IKZF2	0	.	GRCh37	2	213872378	213872378	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1287G>C	p.Lys429Asn	p.K429N	ENST00000457361	8/8	223	188	35	290	290	0	IKZF2,missense_variant,p.Lys429Asn,ENST00000457361,;IKZF2,missense_variant,p.Lys429Asn,ENST00000434687,;IKZF2,missense_variant,p.Lys284Asn,ENST00000374327,;IKZF2,missense_variant,p.Lys355Asn,ENST00000421754,;IKZF2,missense_variant,p.Lys357Asn,ENST00000451136,;IKZF2,missense_variant,p.Lys435Asn,ENST00000342002,;IKZF2,missense_variant,p.Lys403Asn,ENST00000374319,;IKZF2,3_prime_UTR_variant,,ENST00000413091,;AC079610.1,intron_variant,,ENST00000415387,;IKZF2,3_prime_UTR_variant,,ENST00000453575,;IKZF2,3_prime_UTR_variant,,ENST00000439848,;IKZF2,3_prime_UTR_variant,,ENST00000412444,;IKZF2,3_prime_UTR_variant,,ENST00000431520,;IKZF2,3_prime_UTR_variant,,ENST00000374326,;IKZF2,non_coding_transcript_exon_variant,,ENST00000484040,;	G	ENSG00000030419	ENST00000457361	Transcript	missense_variant	1456	1287	429	K/N	aaG/aaC	COSM3577378,COSM1306394	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	tolerated(0.21)	possibly_damaging(0.717)	8/8	.	hmmpanther:PTHR24404:SF31,hmmpanther:PTHR24404	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTTGGG	.	4	BLCA
IKZF2	0	.	GRCh37	2	213872657	213872657	+	Silent	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1008G>C	p.%3D	p.L336L	ENST00000457361	8/8	76	67	9	79	79	0	IKZF2,synonymous_variant,p.%3D,ENST00000457361,;IKZF2,synonymous_variant,p.%3D,ENST00000434687,;IKZF2,synonymous_variant,p.%3D,ENST00000374327,;IKZF2,synonymous_variant,p.%3D,ENST00000421754,;IKZF2,synonymous_variant,p.%3D,ENST00000451136,;IKZF2,synonymous_variant,p.%3D,ENST00000342002,;IKZF2,synonymous_variant,p.%3D,ENST00000374319,;IKZF2,3_prime_UTR_variant,,ENST00000413091,;AC079610.1,intron_variant,,ENST00000415387,;IKZF2,3_prime_UTR_variant,,ENST00000453575,;IKZF2,3_prime_UTR_variant,,ENST00000439848,;IKZF2,3_prime_UTR_variant,,ENST00000412444,;IKZF2,3_prime_UTR_variant,,ENST00000431520,;IKZF2,3_prime_UTR_variant,,ENST00000374326,;IKZF2,non_coding_transcript_exon_variant,,ENST00000484040,;	G	ENSG00000030419	ENST00000457361	Transcript	synonymous_variant	1177	1008	336	L	ctG/ctC	COSM1306396	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	.	.	8/8	.	hmmpanther:PTHR24404:SF31,hmmpanther:PTHR24404	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGCATCAGAGG	.	4	BLCA
KPNA1	0	.	GRCh37	3	122186193	122186193	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213G>C	p.Gln71His	p.Q71H	ENST00000344337	3/14	54	38	15	43	43	0	KPNA1,missense_variant,p.Gln71His,ENST00000493510,;KPNA1,missense_variant,p.Gln71His,ENST00000344337,;KPNA1,missense_variant,p.Gln71His,ENST00000476916,;KPNA1,missense_variant,p.Gln71His,ENST00000482287,;KPNA1,missense_variant,p.Gln71His,ENST00000465882,;KPNA1,upstream_gene_variant,,ENST00000464940,;KPNA1,missense_variant,p.Gln71His,ENST00000485027,;KPNA1,missense_variant,p.Gln71His,ENST00000494339,;	G	ENSG00000114030	ENST00000344337	Transcript	missense_variant	390	213	71	Q/H	caG/caC	COSM1308469	.	.	-1	KPNA1	HGNC	6394	protein_coding	YES	CCDS3013.1	ENSP00000343701	IMA5_HUMAN	C9JYI4_HUMAN,C9JWD9_HUMAN,C9J4U1_HUMAN,B3KXZ2_HUMAN	UPI000013D524	.	tolerated(0.15)	benign(0.005)	3/14	.	hmmpanther:PTHR23316:SF3,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF01749,PIRSF_domain:PIRSF005673,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAATCTGAGC	.	5	BLCA
STAG1	0	.	GRCh37	3	136152474	136152474	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1574T>G	p.Leu525Arg	p.L525R	ENST00000383202	16/34	80	55	25	74	73	1	STAG1,missense_variant,p.Leu299Arg,ENST00000434713,;STAG1,missense_variant,p.Leu525Arg,ENST00000383202,;STAG1,missense_variant,p.Leu109Arg,ENST00000536929,;STAG1,missense_variant,p.Leu136Arg,ENST00000492318,;STAG1,missense_variant,p.Leu525Arg,ENST00000236698,;RNU6-1284P,upstream_gene_variant,,ENST00000363701,;STAG1,3_prime_UTR_variant,,ENST00000487065,;STAG1,3_prime_UTR_variant,,ENST00000483235,;	C	ENSG00000118007	ENST00000383202	Transcript	missense_variant	1831	1574	525	L/R	cTt/cGt	COSM1308636	.	.	-1	STAG1	HGNC	11354	protein_coding	YES	CCDS3090.1	ENSP00000372689	STAG1_HUMAN	Q4LE48_HUMAN	UPI000020A2DE	.	deleterious(0)	probably_damaging(0.993)	16/34	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTATAAGAGCA	.	5	BLCA
BOD1L1	0	.	GRCh37	4	13602068	13602068	+	Silent	SNP	G	G	A	rs139854434	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6456C>T	p.%3D	p.F2152F	ENST00000040738	10/26	68	58	10	96	96	0	BOD1L1,synonymous_variant,p.%3D,ENST00000040738,;	A	ENSG00000038219	ENST00000040738	Transcript	synonymous_variant	6592	6456	2152	F	ttC/ttT	rs139854434,COSM1051282	.	.	-1	BOD1L1	HGNC	31792	protein_coding	YES	CCDS3411.2	ENSP00000040738	BD1L1_HUMAN	.	UPI000066D9E3	.	.	.	10/26	.	hmmpanther:PTHR31532,hmmpanther:PTHR31532:SF3	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F2152F|c.6456C>T|6	RADIA|MUTECT|MUSE|VARSCANS	AATTCGAATTC	byCluster|by1000G	4	BLCA
TDO2	0	.	GRCh37	4	156837048	156837048	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880A>C	p.Met294Leu	p.M294L	ENST00000536354	9/12	32	28	4	30	30	0	TDO2,missense_variant,p.Met294Leu,ENST00000536354,;TDO2,non_coding_transcript_exon_variant,,ENST00000510293,;TDO2,non_coding_transcript_exon_variant,,ENST00000512584,;	C	ENSG00000151790	ENST00000536354	Transcript	missense_variant	944	880	294	M/L	Atg/Ctg	COSM1309847	.	.	1	TDO2	HGNC	11708	protein_coding	YES	CCDS34086.1	ENSP00000444788	T23O_HUMAN	D6RB68_HUMAN,D6RA50_HUMAN	UPI00001367B7	.	tolerated(0.18)	possibly_damaging(0.734)	9/12	.	HAMAP:MF_01972,hmmpanther:PTHR10138:SF1,hmmpanther:PTHR10138,Pfam_domain:PF03301,Superfamily_domains:SSF140959	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATTGATGATA	.	4	BLCA
PCDHGA2	0	.	GRCh37	5	140720582	140720582	+	Missense_Mutation	SNP	G	G	A	rs769248665	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2044G>A	p.Ala682Thr	p.A682T	ENST00000394576	1/4	145	97	48	167	167	0	PCDHGA2,missense_variant,p.Ala682Thr,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA3,upstream_gene_variant,,ENST00000253812,;PCDHGA2,non_coding_transcript_exon_variant,,ENST00000528330,;	A	ENSG00000081853	ENST00000394576	Transcript	missense_variant	2044	2044	682	A/T	Gcc/Acc	rs769248665,COSM1310719,COSM1310718	.	.	1	PCDHGA2	HGNC	8700	protein_coding	YES	CCDS47289.1	ENSP00000378077	PCDG2_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000072E67	.	tolerated_low_confidence(0.32)	benign(0.006)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF109	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCGCCATA	byFrequency	5	BLCA
MGAT1	0	.	GRCh37	5	180219548	180219548	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424G>T	p.Asp142Tyr	p.D142Y	ENST00000446023	3/3	52	32	19	63	63	0	MGAT1,missense_variant,p.Asp142Tyr,ENST00000446023,;MGAT1,missense_variant,p.Asp142Tyr,ENST00000393340,;MGAT1,missense_variant,p.Asp142Tyr,ENST00000307826,;MGAT1,missense_variant,p.Asp142Tyr,ENST00000427865,;MGAT1,missense_variant,p.Asp142Tyr,ENST00000333055,;MGAT1,missense_variant,p.Asp142Tyr,ENST00000506889,;MGAT1,missense_variant,p.Asp142Tyr,ENST00000504671,;MGAT1,downstream_gene_variant,,ENST00000514283,;MGAT1,downstream_gene_variant,,ENST00000507384,;MGAT1,downstream_gene_variant,,ENST00000514438,;MGAT1,downstream_gene_variant,,ENST00000506269,;MGAT1,downstream_gene_variant,,ENST00000512695,;MGAT1,downstream_gene_variant,,ENST00000513431,;MGAT1,downstream_gene_variant,,ENST00000502678,;CTC-205M6.5,upstream_gene_variant,,ENST00000562870,;MGAT1,downstream_gene_variant,,ENST00000505682,;MGAT1,downstream_gene_variant,,ENST00000504385,;MGAT1,downstream_gene_variant,,ENST00000514760,;	A	ENSG00000131446	ENST00000446023	Transcript	missense_variant	1175	424	142	D/Y	Gac/Tac	.	.	.	-1	MGAT1	HGNC	7044	protein_coding	YES	CCDS4458.1	ENSP00000404718	MGAT1_HUMAN	Q59G70_HUMAN,D6RIS2_HUMAN,D6RHZ8_HUMAN,D6RF69_HUMAN,D6RD15_HUMAN,D6RBS3_HUMAN,D6RB69_HUMAN,D6RAK2_HUMAN,D6RA48_HUMAN,D6R9U2_HUMAN	UPI000013CDF1	.	.	probably_damaging(0.998)	3/3	.	Superfamily_domains:SSF53448,Pfam_domain:PF03071,Gene3D:3.90.550.10,hmmpanther:PTHR10468,hmmpanther:PTHR10468:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGTCCTGGC	.	5	BLCA
MGAT1	0	.	GRCh37	5	180219549	180219549	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423G>T	p.Gln141His	p.Q141H	ENST00000446023	3/3	51	31	19	60	60	0	MGAT1,missense_variant,p.Gln141His,ENST00000446023,;MGAT1,missense_variant,p.Gln141His,ENST00000393340,;MGAT1,missense_variant,p.Gln141His,ENST00000307826,;MGAT1,missense_variant,p.Gln141His,ENST00000427865,;MGAT1,missense_variant,p.Gln141His,ENST00000333055,;MGAT1,missense_variant,p.Gln141His,ENST00000506889,;MGAT1,missense_variant,p.Gln141His,ENST00000504671,;MGAT1,downstream_gene_variant,,ENST00000514283,;MGAT1,downstream_gene_variant,,ENST00000507384,;MGAT1,downstream_gene_variant,,ENST00000514438,;MGAT1,downstream_gene_variant,,ENST00000506269,;MGAT1,downstream_gene_variant,,ENST00000512695,;MGAT1,downstream_gene_variant,,ENST00000513431,;MGAT1,downstream_gene_variant,,ENST00000502678,;CTC-205M6.5,upstream_gene_variant,,ENST00000562870,;MGAT1,downstream_gene_variant,,ENST00000505682,;MGAT1,downstream_gene_variant,,ENST00000504385,;MGAT1,downstream_gene_variant,,ENST00000514760,;	A	ENSG00000131446	ENST00000446023	Transcript	missense_variant	1174	423	141	Q/H	caG/caT	.	.	.	-1	MGAT1	HGNC	7044	protein_coding	YES	CCDS4458.1	ENSP00000404718	MGAT1_HUMAN	Q59G70_HUMAN,D6RIS2_HUMAN,D6RHZ8_HUMAN,D6RF69_HUMAN,D6RD15_HUMAN,D6RBS3_HUMAN,D6RB69_HUMAN,D6RAK2_HUMAN,D6RA48_HUMAN,D6R9U2_HUMAN	UPI000013CDF1	.	.	possibly_damaging(0.668)	3/3	.	Superfamily_domains:SSF53448,Pfam_domain:PF03071,Gene3D:3.90.550.10,hmmpanther:PTHR10468,hmmpanther:PTHR10468:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTCCTGGCT	.	5	BLCA
PDZD2	0	.	GRCh37	5	32048767	32048767	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1642C>T	p.%3D	p.L548L	ENST00000438447	8/25	101	88	13	114	114	0	PDZD2,synonymous_variant,p.%3D,ENST00000438447,;PDZD2,synonymous_variant,p.%3D,ENST00000282493,;PDZD2,non_coding_transcript_exon_variant,,ENST00000502489,;PDZD2,upstream_gene_variant,,ENST00000509256,;	T	ENSG00000133401	ENST00000438447	Transcript	synonymous_variant	2030	1642	548	L	Ctg/Ttg	COSM1311093	.	.	1	PDZD2	HGNC	18486	protein_coding	YES	CCDS34137.1	ENSP00000402033	PDZD2_HUMAN	B4DGS3_HUMAN	UPI000069648B	.	.	.	8/25	.	hmmpanther:PTHR11324:SF16,hmmpanther:PTHR11324	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTGCTGGAC	.	4	BLCA
C7	0	.	GRCh37	5	40936538	40936538	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379T>G	p.Ser127Ala	p.S127A	ENST00000313164	5/18	26	22	4	36	36	0	C7,missense_variant,p.Ser127Ala,ENST00000313164,;C7,non_coding_transcript_exon_variant,,ENST00000489457,;C7,non_coding_transcript_exon_variant,,ENST00000508185,;	G	ENSG00000112936	ENST00000313164	Transcript	missense_variant	738	379	127	S/A	Tcc/Gcc	COSM1311152	.	.	1	C7	HGNC	1346	protein_coding	YES	CCDS47201.1	ENSP00000322061	CO7_HUMAN	.	UPI000020CA08	.	tolerated(0.42)	benign(0.003)	5/18	.	PROSITE_profiles:PS51412,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF312	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTTCCTGT	.	4	BLCA
TMEM174	0	.	GRCh37	5	72469403	72469403	+	Silent	SNP	G	G	A	rs148188850	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333G>A	p.%3D	p.S111S	ENST00000296776	1/2	118	77	41	152	152	0	TMEM174,synonymous_variant,p.%3D,ENST00000296776,;TMEM174,non_coding_transcript_exon_variant,,ENST00000511737,;	A	ENSG00000164325	ENST00000296776	Transcript	synonymous_variant	382	333	111	S	tcG/tcA	rs148188850,COSM1268055	.	.	1	TMEM174	HGNC	28187	protein_coding	YES	CCDS4018.1	ENSP00000296776	TM174_HUMAN	.	UPI0000037779	.	.	.	1/2	.	hmmpanther:PTHR31020,Pfam_domain:PF15029	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S111S|c.333G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTCGGAACA	byCluster|by1000G	5	BLCA
LNPEP	0	.	GRCh37	5	96339207	96339207	+	Missense_Mutation	SNP	A	A	G	rs200018527	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1742A>G	p.Tyr581Cys	p.Y581C	ENST00000231368	9/18	78	67	11	63	63	0	LNPEP,missense_variant,p.Tyr567Cys,ENST00000395770,;LNPEP,missense_variant,p.Tyr581Cys,ENST00000231368,;LNPEP,non_coding_transcript_exon_variant,,ENST00000473914,;	G	ENSG00000113441	ENST00000231368	Transcript	missense_variant	2434	1742	581	Y/C	tAt/tGt	rs200018527,COSM1311407	.	.	1	LNPEP	HGNC	6656	protein_coding	YES	CCDS4087.1	ENSP00000231368	LCAP_HUMAN	.	UPI000013C94B	.	deleterious(0)	possibly_damaging(0.873)	9/18	.	Superfamily_domains:SSF55486,Gene3D:1.10.390.10,hmmpanther:PTHR11533,hmmpanther:PTHR11533:SF42	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTATGCAT	byFrequency	5	BLCA
TMEM200A	0	.	GRCh37	6	130762473	130762473	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906G>T	p.Glu302Asp	p.E302D	ENST00000392429	2/2	80	68	12	90	90	0	TMEM200A,missense_variant,p.Glu302Asp,ENST00000392429,;TMEM200A,missense_variant,p.Glu302Asp,ENST00000545622,;TMEM200A,missense_variant,p.Glu302Asp,ENST00000296978,;	T	ENSG00000164484	ENST00000392429	Transcript	missense_variant	3284	906	302	E/D	gaG/gaT	COSM1311551,COSM1311550	.	.	1	TMEM200A	HGNC	21075	protein_coding	YES	CCDS5140.1	ENSP00000376224	T200A_HUMAN	B4DG12_HUMAN,A8K2A1_HUMAN	UPI000000DA85	.	deleterious(0.02)	probably_damaging(0.991)	2/2	.	hmmpanther:PTHR31815,hmmpanther:PTHR31815:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGAGCCCAG	.	4	BLCA
FNDC1	0	.	GRCh37	6	159682221	159682221	+	Splice_Site	SNP	G	G	C	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5175-1G>C	.	p.X1725_splice	ENST00000297267	.	75	57	18	77	77	0	FNDC1,splice_acceptor_variant,,ENST00000340366,;FNDC1,splice_acceptor_variant,,ENST00000297267,;FNDC1,splice_acceptor_variant,,ENST00000329629,;	C	ENSG00000164694	ENST00000297267	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1311777,COSM1441921	.	.	1	FNDC1	HGNC	21184	protein_coding	YES	CCDS47512.1	ENSP00000297267	FNDC1_HUMAN	.	UPI0000579B80	.	.	.	.	18/22	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTCAGGTATT	.	3	BLCA
WDR27	0	.	GRCh37	6	170068173	170068173	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565G>A	p.Glu189Lys	p.E189K	ENST00000448612	5/26	66	61	4	63	62	0	WDR27,missense_variant,p.Glu189Lys,ENST00000333572,;WDR27,missense_variant,p.Glu189Lys,ENST00000448612,;WDR27,intron_variant,,ENST00000420344,;WDR27,intron_variant,,ENST00000423258,;WDR27,downstream_gene_variant,,ENST00000474018,;WDR27,downstream_gene_variant,,ENST00000464249,;WDR27,upstream_gene_variant,,ENST00000467418,;WDR27,upstream_gene_variant,,ENST00000546525,;WDR27,upstream_gene_variant,,ENST00000486490,;WDR27,non_coding_transcript_exon_variant,,ENST00000496752,;WDR27,downstream_gene_variant,,ENST00000546953,;WDR27,upstream_gene_variant,,ENST00000476322,;	T	ENSG00000184465	ENST00000448612	Transcript	missense_variant	675	565	189	E/K	Gag/Aag	COSM1311821,COSM1311820,COSM1311819	.	.	-1	WDR27	HGNC	21248	protein_coding	YES	CCDS47520.2	ENSP00000416289	WDR27_HUMAN	F8VUY7_HUMAN	UPI00015E06AF	.	tolerated(0.21)	benign(0.094)	5/26	.	hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF313,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTCGGCCC	.	2	BLCA
SCAND3	0	.	GRCh37	6	28540209	28540209	+	Missense_Mutation	SNP	C	C	A	rs750162206	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3457G>T	p.Asp1153Tyr	p.D1153Y	ENST00000452236	4/4	62	54	8	80	80	0	SCAND3,missense_variant,p.Asp1153Tyr,ENST00000452236,;SCAND3,downstream_gene_variant,,ENST00000530247,;	A	ENSG00000232040	ENST00000452236	Transcript	missense_variant	4075	3457	1153	D/Y	Gac/Tac	rs750162206,COSM1311922	.	.	-1	SCAND3	HGNC	13851	protein_coding	YES	CCDS34355.1	ENSP00000395259	SCND3_HUMAN	.	UPI00001618B7	.	tolerated_low_confidence(0.19)	probably_damaging(0.99)	4/4	.	hmmpanther:PTHR11697,hmmpanther:PTHR11697:SF90,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATGTCATAAC	.	4	BLCA
DDR1	0	.	GRCh37	6	30865139	30865139	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1999T>A	p.Phe667Ile	p.F667I	ENST00000376575	17/20	33	29	4	43	42	1	DDR1,missense_variant,p.Phe667Ile,ENST00000376575,;DDR1,missense_variant,p.Phe159Ile,ENST00000514434,;DDR1,missense_variant,p.Phe667Ile,ENST00000513240,;DDR1,intron_variant,,ENST00000376567,;DDR1,intron_variant,,ENST00000508312,;DDR1,intron_variant,,ENST00000376569,;DDR1,intron_variant,,ENST00000418800,;DDR1,intron_variant,,ENST00000417521,;DDR1,intron_variant,,ENST00000324771,;DDR1,intron_variant,,ENST00000446312,;DDR1,intron_variant,,ENST00000376568,;DDR1,intron_variant,,ENST00000376570,;DDR1,intron_variant,,ENST00000361741,;DDR1,intron_variant,,ENST00000484556,;DDR1,intron_variant,,ENST00000452441,;DDR1,intron_variant,,ENST00000454612,;DDR1,downstream_gene_variant,,ENST00000513514,;DDR1,downstream_gene_variant,,ENST00000465966,;DDR1,intron_variant,,ENST00000482873,;DDR1,downstream_gene_variant,,ENST00000514534,;	A	ENSG00000204580	ENST00000376575	Transcript	missense_variant	2332	1999	667	F/I	Ttc/Atc	.	.	.	1	DDR1	HGNC	2730	protein_coding	YES	CCDS47396.1	ENSP00000365759	DDR1_HUMAN	E7EXB0_HUMAN,E7EX99_HUMAN,E7EVW6_HUMAN,E7EVT1_HUMAN,E7EUD5_HUMAN,E7ETX3_HUMAN,E7ETI3_HUMAN,E7ESR9_HUMAN,E7ES06_HUMAN,E7ERN0_HUMAN,E7ERI6_HUMAN,E7EQ30_HUMAN,E7EQ23_HUMAN,E7EPN2_HUMAN,E7EPH4_HUMAN,E7ENJ2_HUMAN,E7EN94_HUMAN,D6RGW5_HUMAN,D6RBU7_HUMAN,D6RB82_HUMAN,D6RB35_HUMAN,D6R9C4_HUMAN,A2ABL2_HUMAN,A2ABL0_HUMAN	UPI0000146C6D	.	tolerated_low_confidence(0.43)	benign(0.002)	17/20	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF65,Gene3D:3.30.200.20,Pfam_domain:PF07714,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGCTTCTCC	.	2	BLCA
PKHD1	0	.	GRCh37	6	51923138	51923138	+	Silent	SNP	T	T	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1495A>C	p.%3D	p.R499R	ENST00000371117	16/67	103	88	14	113	113	0	PKHD1,synonymous_variant,p.%3D,ENST00000340994,;PKHD1,synonymous_variant,p.%3D,ENST00000371117,;AL590391.1,downstream_gene_variant,,ENST00000408630,;	G	ENSG00000170927	ENST00000371117	Transcript	synonymous_variant	1771	1495	499	R	Agg/Cgg	COSM1312299,COSM1312300	.	.	-1	PKHD1	HGNC	9016	protein_coding	YES	CCDS4935.1	ENSP00000360158	PKHD1_HUMAN	.	UPI000013C4C0	.	.	.	16/67	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCCTCTGGG	.	4	BLCA
GIMAP1	0	.	GRCh37	7	150417951	150417951	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859C>G	p.Leu287Val	p.L287V	ENST00000307194	3/3	10	5	4	36	36	0	GIMAP1,missense_variant,p.Leu287Val,ENST00000307194,;GIMAP5,upstream_gene_variant,,ENST00000498181,;GIMAP1,downstream_gene_variant,,ENST00000464461,;	G	ENSG00000213203	ENST00000307194	Transcript	missense_variant	999	859	287	L/V	Ctg/Gtg	COSM1312833	.	.	1	GIMAP1	HGNC	23237	protein_coding	YES	CCDS5906.1	ENSP00000302833	GIMA1_HUMAN	.	UPI0000073C9B	.	tolerated(0.15)	probably_damaging(0.981)	3/3	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10903,hmmpanther:PTHR10903:SF46	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCTCCTGTTC	.	3	BLCA
KMT2C	0	.	GRCh37	7	151932973	151932973	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2698G>T	p.Gly900Ter	p.G900*	ENST00000262189	16/59	92	79	13	105	104	1	KMT2C,stop_gained,p.Gly900Ter,ENST00000355193,;KMT2C,stop_gained,p.Gly56Ter,ENST00000418673,;KMT2C,stop_gained,p.Gly900Ter,ENST00000262189,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	2917	2698	900	G/*	Gga/Tga	COSM1312883,COSM1312882	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	16/59	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGTCCTGCAC	.	4	BLCA
HOXA7	0	.	GRCh37	7	27195993	27195993	+	Missense_Mutation	SNP	T	T	A	rs772288938	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172A>T	p.Asn58Tyr	p.N58Y	ENST00000242159	1/2	97	69	27	85	85	0	HOXA7,missense_variant,p.Asn58Tyr,ENST00000242159,;HOXA7,downstream_gene_variant,,ENST00000519842,;RP1-170O19.21,upstream_gene_variant,,ENST00000602610,;HOXA-AS3,downstream_gene_variant,,ENST00000521197,;HOXA-AS3,downstream_gene_variant,,ENST00000524304,;HOXA-AS3,downstream_gene_variant,,ENST00000518947,;HOXA-AS3,downstream_gene_variant,,ENST00000521231,;HOXA-AS3,downstream_gene_variant,,ENST00000518848,;HOXA7,upstream_gene_variant,,ENST00000523796,;HOXA3,upstream_gene_variant,,ENST00000518451,;RP1-170O19.22,upstream_gene_variant,,ENST00000467897,;RP1-170O19.23,upstream_gene_variant,,ENST00000498652,;	A	ENSG00000122592	ENST00000242159	Transcript	missense_variant	306	172	58	N/Y	Aac/Tac	rs772288938,COSM1312998	.	.	-1	HOXA7	HGNC	5108	protein_coding	YES	CCDS5408.1	ENSP00000242159	HXA7_HUMAN	E5RHM9_HUMAN	UPI000013CAF3	.	tolerated(0.07)	possibly_damaging(0.556)	1/2	.	hmmpanther:PTHR24326:SF163,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGTTGACAT	.	5	BLCA
CARD11	0	.	GRCh37	7	2978386	2978386	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.944A>G	p.Asp315Gly	p.D315G	ENST00000396946	7/25	47	30	16	40	40	0	CARD11,missense_variant,p.Asp315Gly,ENST00000396946,;	C	ENSG00000198286	ENST00000396946	Transcript	missense_variant	1348	944	315	D/G	gAc/gGc	COSM1313018	.	.	-1	CARD11	HGNC	16393	protein_coding	YES	CCDS5336.2	ENSP00000380150	CAR11_HUMAN	Q8TES3_HUMAN,E2QRC0_HUMAN	UPI00003FED38	.	deleterious(0.01)	probably_damaging(0.998)	7/25	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14559,hmmpanther:PTHR14559:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTGTCCTCC	.	5	BLCA
FKBP9	0	.	GRCh37	7	33028146	33028146	+	Silent	SNP	G	G	A	rs138779515	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.921G>A	p.%3D	p.T307T	ENST00000242209	6/10	130	89	40	143	143	0	FKBP9,synonymous_variant,p.%3D,ENST00000538336,;FKBP9,synonymous_variant,p.%3D,ENST00000490776,;FKBP9,synonymous_variant,p.%3D,ENST00000418354,;FKBP9,synonymous_variant,p.%3D,ENST00000538443,;FKBP9,synonymous_variant,p.%3D,ENST00000242209,;AVL9,intron_variant,,ENST00000404479,;FKBP9,non_coding_transcript_exon_variant,,ENST00000472007,;FKBP9,non_coding_transcript_exon_variant,,ENST00000463443,;FKBP9,non_coding_transcript_exon_variant,,ENST00000489038,;FKBP9,non_coding_transcript_exon_variant,,ENST00000494374,;FKBP9,upstream_gene_variant,,ENST00000468510,;	A	ENSG00000122642	ENST00000242209	Transcript	synonymous_variant	1090	921	307	T	acG/acA	rs138779515,COSM1313046,COSM1313047	.	.	1	FKBP9	HGNC	3725	protein_coding	YES	CCDS5439.1	ENSP00000242209	FKBP9_HUMAN	B7ZAH5_HUMAN,B7Z230_HUMAN,A7YQ73_HUMAN	UPI00001B6B0A	.	.	.	6/10	.	PROSITE_profiles:PS50059,hmmpanther:PTHR10516:SF111,hmmpanther:PTHR10516,Gene3D:3.10.50.40,Pfam_domain:PF00254,Superfamily_domains:SSF54534	.	.	.	.	.	.	.	A:0.0007	A:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACACGTACAT	byFrequency|byCluster	5	BLCA
ABCA13	0	.	GRCh37	7	48375056	48375056	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10037C>G	p.Thr3346Ser	p.T3346S	ENST00000435803	28/62	72	61	11	79	79	0	ABCA13,missense_variant,p.Thr3346Ser,ENST00000435803,;ABCA13,non_coding_transcript_exon_variant,,ENST00000484268,;	G	ENSG00000179869	ENST00000435803	Transcript	missense_variant	10061	10037	3346	T/S	aCt/aGt	COSM1313153,COSM1243891,COSM1313152,COSM1243890	.	.	1	ABCA13	HGNC	14638	protein_coding	YES	CCDS47584.1	ENSP00000411096	ABCAD_HUMAN	.	UPI00001A95EA	.	.	benign(0.01)	28/62	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF113,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAAACTTTAT	.	4	BLCA
TYW1	0	.	GRCh37	7	66463885	66463885	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217G>A	p.Asp73Asn	p.D73N	ENST00000359626	3/16	81	68	13	88	88	0	TYW1,missense_variant,p.Asp73Asn,ENST00000442959,;TYW1,missense_variant,p.Asp73Asn,ENST00000359626,;SBDS,upstream_gene_variant,,ENST00000246868,;TYW1,downstream_gene_variant,,ENST00000491969,;TYW1,missense_variant,p.Asp73Asn,ENST00000361660,;TYW1,non_coding_transcript_exon_variant,,ENST00000475392,;SBDS,upstream_gene_variant,,ENST00000490953,;SBDS,upstream_gene_variant,,ENST00000414306,;SBDS,upstream_gene_variant,,ENST00000463579,;	A	ENSG00000198874	ENST00000359626	Transcript	missense_variant	381	217	73	D/N	Gac/Aac	COSM194415	.	.	1	TYW1	HGNC	25598	protein_coding	YES	CCDS5538.1	ENSP00000352645	TYW1_HUMAN	B4DW16_HUMAN	UPI00003674A9	.	tolerated_low_confidence(0.2)	benign(0.002)	3/16	.	hmmpanther:PTHR13930:SF0,hmmpanther:PTHR13930	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAAAGACATC	.	4	BLCA
PON3	0	.	GRCh37	7	94992134	94992134	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.715G>T	p.Val239Leu	p.V239L	ENST00000265627	7/9	63	52	11	36	36	0	PON3,missense_variant,p.Val239Leu,ENST00000265627,;PON3,missense_variant,p.Val239Leu,ENST00000451904,;PON1,intron_variant,,ENST00000542556,;PON3,intron_variant,,ENST00000427422,;PON3,3_prime_UTR_variant,,ENST00000456855,;PON3,3_prime_UTR_variant,,ENST00000418617,;PON3,3_prime_UTR_variant,,ENST00000442770,;PON3,non_coding_transcript_exon_variant,,ENST00000492800,;PON3,downstream_gene_variant,,ENST00000482624,;PON3,upstream_gene_variant,,ENST00000460248,;	A	ENSG00000105852	ENST00000265627	Transcript	missense_variant	726	715	239	V/L	Gta/Tta	COSM1313444	.	.	-1	PON3	HGNC	9206	protein_coding	YES	CCDS5639.1	ENSP00000265627	PON3_HUMAN	.	UPI00000743F1	.	tolerated(0.63)	possibly_damaging(0.447)	7/9	.	hmmpanther:PTHR11799,hmmpanther:PTHR11799:SF6,Pfam_domain:PF01731,Gene3D:2.120.10.30,Superfamily_domains:SSF63829,Prints_domain:PR01785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTACATCAG	.	5	BLCA
CSMD3	0	.	GRCh37	8	113237073	113237073	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11051C>A	p.Thr3684Asn	p.T3684N	ENST00000297405	71/71	189	159	30	189	189	0	CSMD3,missense_variant,p.Thr3614Asn,ENST00000352409,;CSMD3,missense_variant,p.Thr3515Asn,ENST00000455883,;CSMD3,missense_variant,p.Thr3684Asn,ENST00000297405,;CSMD3,missense_variant,p.Thr2954Asn,ENST00000339701,;CSMD3,missense_variant,p.Thr3644Asn,ENST00000343508,;CSMD3,non_coding_transcript_exon_variant,,ENST00000534172,;	T	ENSG00000164796	ENST00000297405	Transcript	missense_variant	11296	11051	3684	T/N	aCc/aAc	COSM1313617,COSM1313618	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	tolerated(0.11)	possibly_damaging(0.722)	71/71	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF44	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGTTGGTGTCA	.	4	BLCA
MTBP	0	.	GRCh37	8	121500533	121500533	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1300C>A	p.His434Asn	p.H434N	ENST00000305949	12/22	46	38	7	38	38	0	MTBP,missense_variant,p.His434Asn,ENST00000305949,;MTBP,non_coding_transcript_exon_variant,,ENST00000519188,;	A	ENSG00000172167	ENST00000305949	Transcript	missense_variant	1345	1300	434	H/N	Cat/Aat	COSM1313682	.	.	1	MTBP	HGNC	7417	protein_coding	YES	CCDS6333.1	ENSP00000303398	MTBP_HUMAN	.	UPI00000703F0	.	tolerated(0.58)	benign(0.015)	12/22	.	hmmpanther:PTHR14382,hmmpanther:PTHR14382:SF1,Pfam_domain:PF14919	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TAATTCATGGA	.	3	BLCA
ACTL7B	0	.	GRCh37	9	111617354	111617354	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.857G>T	p.Gly286Val	p.G286V	ENST00000374667	1/1	86	74	12	94	93	1	ACTL7B,missense_variant,p.Gly286Val,ENST00000374667,;	A	ENSG00000148156	ENST00000374667	Transcript	missense_variant	1886	857	286	G/V	gGc/gTc	COSM1314349	.	.	-1	ACTL7B	HGNC	162	protein_coding	YES	CCDS6771.1	ENSP00000363799	ACL7B_HUMAN	.	UPI0000125053	.	deleterious(0)	probably_damaging(1)	1/1	.	hmmpanther:PTHR11937:SF59,hmmpanther:PTHR11937,Gene3D:3.90.640.10,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067,Prints_domain:PR00190	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTGCCGTCC	.	4	BLCA
FBXW2	0	.	GRCh37	9	123526772	123526772	+	3'UTR	SNP	A	A	G	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*65T>C	.	.	ENST00000608872	8/8	60	43	17	68	68	0	FBXW2,3_prime_UTR_variant,,ENST00000340778,;FBXW2,3_prime_UTR_variant,,ENST00000608872,;FBXW2,intron_variant,,ENST00000493559,;	G	ENSG00000119402	ENST00000608872	Transcript	3_prime_UTR_variant	1618	.	.	.	.	.	.	.	-1	FBXW2	HGNC	13608	protein_coding	YES	CCDS43872.1	ENSP00000476369	.	Q4VXH1_HUMAN,B4DT60_HUMAN	UPI000006FE3A	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGCAGAGGT	.	5	BLCA
RABGAP1	0	.	GRCh37	9	125746950	125746950	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>T	p.Gly113Trp	p.G113W	ENST00000373647	3/26	56	49	7	52	51	1	RABGAP1,missense_variant,p.Gly113Trp,ENST00000373647,;RABGAP1,incomplete_terminal_codon_variant,p.%3D,ENST00000402311,;RABGAP1,non_coding_transcript_exon_variant,,ENST00000459903,;RABGAP1,missense_variant,p.Gly45Trp,ENST00000456584,;RABGAP1,non_coding_transcript_exon_variant,,ENST00000317419,;RABGAP1,intron_variant,,ENST00000426918,;	T	ENSG00000011454	ENST00000373647	Transcript	missense_variant	471	337	113	G/W	Ggg/Tgg	COSM1104961,COSM1314431,COSM1314430,COSM1104960	.	.	1	RABGAP1	HGNC	17155	protein_coding	YES	CCDS6848.2	ENSP00000362751	RBGP1_HUMAN	B7Z2B4_HUMAN,B5MCD9_HUMAN	UPI00000373F8	.	deleterious(0.02)	benign(0.319)	3/26	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TAGTAGGGCTC	.	3	BLCA
AK8	0	.	GRCh37	9	135601202	135601202	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1313G>A	p.Arg438Lys	p.R438K	ENST00000298545	13/13	24	15	9	29	29	0	AK8,missense_variant,p.Arg438Lys,ENST00000298545,;AK8,non_coding_transcript_exon_variant,,ENST00000467161,;AK8,non_coding_transcript_exon_variant,,ENST00000477396,;AK8,non_coding_transcript_exon_variant,,ENST00000476719,;	T	ENSG00000165695	ENST00000298545	Transcript	missense_variant	1835	1313	438	R/K	aGg/aAg	COSM1314589,COSM1314588	.	.	-1	AK8	HGNC	26526	protein_coding	YES	CCDS6954.1	ENSP00000298545	KAD8_HUMAN	.	UPI0000071236	.	tolerated(0.25)	possibly_damaging(0.676)	13/13	.	HAMAP:MF_00235,hmmpanther:PTHR23359:SF64,hmmpanther:PTHR23359,Gene3D:3.40.50.300,Pfam_domain:PF00406,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	AGTTCCTGTAG	.	4	BLCA
CNTLN	0	.	GRCh37	9	17395000	17395000	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2548A>G	p.Ile850Val	p.I850V	ENST00000380647	15/26	65	50	15	77	77	0	CNTLN,missense_variant,p.Ile850Val,ENST00000425824,;CNTLN,missense_variant,p.Ile850Val,ENST00000262360,;CNTLN,missense_variant,p.Ile850Val,ENST00000380647,;	G	ENSG00000044459	ENST00000380647	Transcript	missense_variant	2632	2548	850	I/V	Atc/Gtc	COSM1314697	.	.	1	CNTLN	HGNC	23432	protein_coding	YES	CCDS43789.1	ENSP00000370021	CNTLN_HUMAN	.	UPI0000458809	.	tolerated(0.11)	benign(0.034)	15/26	.	hmmpanther:PTHR18957,hmmpanther:PTHR18957:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCCATCAAG	.	5	BLCA
SIT1	0	.	GRCh37	9	35650771	35650771	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80G>T	p.Cys27Phe	p.C27F	ENST00000259608	1/5	17	11	5	24	24	0	SIT1,missense_variant,p.Cys27Phe,ENST00000259608,;RP11-331F9.4,downstream_gene_variant,,ENST00000428948,;SIT1,non_coding_transcript_exon_variant,,ENST00000474403,;SIT1,upstream_gene_variant,,ENST00000486859,;CD72,upstream_gene_variant,,ENST00000465754,;	A	ENSG00000137078	ENST00000259608	Transcript	missense_variant	167	80	27	C/F	tGc/tTc	.	.	.	-1	SIT1	HGNC	17710	protein_coding	YES	CCDS6582.1	ENSP00000259608	SIT1_HUMAN	.	UPI0000073C61	.	deleterious_low_confidence(0.01)	benign(0.115)	1/5	.	hmmpanther:PTHR15604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGTGCAGTTG	.	4	BLCA
ZCCHC6	0	.	GRCh37	9	88952370	88952370	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1419G>A	p.%3D	p.R473R	ENST00000375963	10/27	53	36	17	69	69	0	ZCCHC6,synonymous_variant,p.%3D,ENST00000375961,;ZCCHC6,synonymous_variant,p.%3D,ENST00000375963,;ZCCHC6,synonymous_variant,p.%3D,ENST00000375948,;ZCCHC6,5_prime_UTR_variant,,ENST00000277141,;ZCCHC6,intron_variant,,ENST00000375960,;	T	ENSG00000083223	ENST00000375963	Transcript	synonymous_variant	1592	1419	473	R	agG/agA	COSM1314998	.	.	-1	ZCCHC6	HGNC	25817	protein_coding	YES	CCDS35057.1	ENSP00000365130	TUT7_HUMAN	.	UPI00004588F6	.	.	.	10/27	.	hmmpanther:PTHR12271:SF34,hmmpanther:PTHR12271,Superfamily_domains:SSF81631	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCCTCTG	.	5	BLCA
ZCCHC6	0	.	GRCh37	9	88958024	88958024	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1052C>A	p.Ser351Ter	p.S351*	ENST00000375963	6/27	113	79	34	111	111	0	ZCCHC6,stop_gained,p.Ser351Ter,ENST00000375961,;ZCCHC6,stop_gained,p.Ser351Ter,ENST00000375960,;ZCCHC6,stop_gained,p.Ser351Ter,ENST00000375963,;ZCCHC6,5_prime_UTR_variant,,ENST00000277141,;ZCCHC6,5_prime_UTR_variant,,ENST00000375948,;ZCCHC6,downstream_gene_variant,,ENST00000375947,;	T	ENSG00000083223	ENST00000375963	Transcript	stop_gained	1225	1052	351	S/*	tCg/tAg	COSM673738,COSM1314999	.	.	-1	ZCCHC6	HGNC	25817	protein_coding	YES	CCDS35057.1	ENSP00000365130	TUT7_HUMAN	.	UPI00004588F6	.	.	.	6/27	.	hmmpanther:PTHR12271:SF34,hmmpanther:PTHR12271,Gene3D:3.30.460.10,Superfamily_domains:SSF81301	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCCGAATTT	.	5	BLCA
WWC3	0	.	GRCh37	X	10106828	10106828	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2936G>T	p.Arg979Leu	p.R979L	ENST00000380861	21/23	22	14	8	20	19	1	WWC3,missense_variant,p.Arg979Leu,ENST00000380861,;WWC3,missense_variant,p.Arg979Leu,ENST00000454666,;	T	ENSG00000047644	ENST00000380861	Transcript	missense_variant	3327	2936	979	R/L	cGg/cTg	.	.	.	1	WWC3	HGNC	29237	protein_coding	YES	CCDS14136.1	ENSP00000370242	WWC3_HUMAN	T2C6S4_HUMAN	UPI0000225CDE	.	deleterious(0.05)	probably_damaging(0.951)	21/23	.	hmmpanther:PTHR14791,hmmpanther:PTHR14791:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	AACACGGCAGA	.	2	BLCA
SYTL4	0	.	GRCh37	X	99934317	99934317	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A20X-01A-11D-A16O-08	TCGA-BT-A20X-11A-12D-A16O-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1651G>C	p.Val551Leu	p.V551L	ENST00000455616	16/18	39	25	14	37	37	0	SYTL4,missense_variant,p.Val551Leu,ENST00000372989,;SYTL4,missense_variant,p.Val553Leu,ENST00000454200,;SYTL4,missense_variant,p.Val551Leu,ENST00000263033,;SYTL4,missense_variant,p.Val551Leu,ENST00000455616,;SYTL4,missense_variant,p.Val551Leu,ENST00000276141,;SYTL4,upstream_gene_variant,,ENST00000491602,;	G	ENSG00000102362	ENST00000455616	Transcript	missense_variant	1998	1651	551	V/L	Gtc/Ctc	COSM1315734	.	.	-1	SYTL4	HGNC	15588	protein_coding	YES	CCDS14472.1	ENSP00000390252	SYTL4_HUMAN	B3KUZ4_HUMAN	UPI00001AE9F2	.	deleterious(0)	probably_damaging(0.963)	16/18	.	PROSITE_profiles:PS50004,hmmpanther:PTHR10024:SF9,hmmpanther:PTHR10024,Pfam_domain:PF00168,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGACAAAGC	.	5	BLCA
DOCK1	0	.	GRCh37	10	128798484	128798484	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.898C>G	p.Gln300Glu	p.Q300E	ENST00000280333	10/52	49	44	4	88	88	0	DOCK1,missense_variant,p.Gln300Glu,ENST00000280333,;RP11-223P11.3,downstream_gene_variant,,ENST00000601826,;RP11-223P11.3,downstream_gene_variant,,ENST00000595456,;RP11-223P11.3,downstream_gene_variant,,ENST00000594559,;RP11-223P11.3,downstream_gene_variant,,ENST00000594614,;RP11-223P11.3,downstream_gene_variant,,ENST00000601242,;	G	ENSG00000150760	ENST00000280333	Transcript	missense_variant	1007	898	300	Q/E	Cag/Gag	COSM1297056	.	.	1	DOCK1	HGNC	2987	protein_coding	YES	.	ENSP00000280333	DOCK1_HUMAN	.	UPI0000246CA1	.	deleterious(0.02)	benign(0.042)	10/52	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF79	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTGTCAGATT	.	3	BLCA
ANKRD30A	0	.	GRCh37	10	37520469	37520469	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*72G>A	.	.	ENST00000361713	35/36	18	14	4	40	40	0	ANKRD30A,3_prime_UTR_variant,,ENST00000374660,;ANKRD30A,3_prime_UTR_variant,,ENST00000361713,;ANKRD30A,3_prime_UTR_variant,,ENST00000602533,;	A	ENSG00000148513	ENST00000361713	Transcript	3_prime_UTR_variant	4197	.	.	.	.	.	.	.	1	ANKRD30A	HGNC	17234	protein_coding	YES	CCDS7193.1	ENSP00000354432	AN30A_HUMAN	R4GNA2_HUMAN	UPI0000458879	.	.	.	35/36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAGGCCAGT	.	2	BLCA
CNTN5	0	.	GRCh37	11	100211904	100211904	+	Silent	SNP	A	A	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2997A>G	p.%3D	p.P999P	ENST00000524871	23/25	129	102	26	145	145	0	CNTN5,synonymous_variant,p.%3D,ENST00000279463,;CNTN5,synonymous_variant,p.%3D,ENST00000524871,;CNTN5,synonymous_variant,p.%3D,ENST00000528682,;CNTN5,synonymous_variant,p.%3D,ENST00000418526,;CNTN5,non_coding_transcript_exon_variant,,ENST00000524560,;RPA2P3,downstream_gene_variant,,ENST00000533268,;	G	ENSG00000149972	ENST00000524871	Transcript	synonymous_variant	3287	2997	999	P	ccA/ccG	COSM1297558,COSM1297557	.	.	1	CNTN5	HGNC	2175	protein_coding	YES	CCDS53696.1	ENSP00000435637	CNTN5_HUMAN	B4DGP0_HUMAN	UPI000006DAB0	.	.	.	23/25	.	PROSITE_profiles:PS50853,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF51,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E1003K|c.3007G>A|5,BUFFER|p.E1003K|c.3007G>A|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACCATTAGC	.	5	BLCA
PVRL1	0	.	GRCh37	11	119547811	119547811	+	Splice_Site	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.851+1G>A	.	p.X284_splice	ENST00000264025	.	83	69	14	90	90	0	PVRL1,splice_donor_variant,,ENST00000340882,;PVRL1,splice_donor_variant,,ENST00000264025,;PVRL1,splice_donor_variant,,ENST00000341398,;PVRL1,non_coding_transcript_exon_variant,,ENST00000524510,;PVRL1,non_coding_transcript_exon_variant,,ENST00000532197,;PVRL1,upstream_gene_variant,,ENST00000524429,;	T	ENSG00000110400	ENST00000264025	Transcript	splice_donor_variant	.	.	.	.	.	CS097581,COSM1297726,COSM1297728,COSM1297727	.	.	-1	PVRL1	HGNC	9706	protein_coding	YES	CCDS8426.1	ENSP00000264025	PVRL1_HUMAN	Q6SYC2_HUMAN	UPI000004A2BE	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTACGTGGT	.	5	BLCA
SAA2	0	.	GRCh37	11	18267001	18267001	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292C>G	p.Gln98Glu	p.Q98E	ENST00000526900	4/4	128	118	9	120	120	0	SAA2,missense_variant,p.Gln98Glu,ENST00000529528,;SAA2,missense_variant,p.Gln98Glu,ENST00000526900,;SAA2,missense_variant,p.Gln98Glu,ENST00000256733,;SAA2,intron_variant,,ENST00000530400,;SAA2,intron_variant,,ENST00000414546,;SAA2,intron_variant,,ENST00000528349,;RNA5SP333,downstream_gene_variant,,ENST00000363466,;SAA2-SAA4,intron_variant,,ENST00000524555,;	C	ENSG00000134339	ENST00000526900	Transcript	missense_variant	476	292	98	Q/E	Cag/Gag	COSM1297900	.	.	-1	SAA2	HGNC	10514	protein_coding	YES	CCDS7833.1	ENSP00000436126	SAA2_HUMAN	.	UPI000016A553	.	deleterious(0.04)	possibly_damaging(0.793)	4/4	.	hmmpanther:PTHR23424,hmmpanther:PTHR23424:SF7,Pfam_domain:PF00277,PIRSF_domain:PIRSF002472,SMART_domains:SM00197	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCCTGATCGG	.	3	BLCA
FAT3	0	.	GRCh37	11	92495148	92495148	+	Missense_Mutation	SNP	C	C	T	rs529470178	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3796C>T	p.Arg1266Cys	p.R1266C	ENST00000298047	4/27	133	120	12	178	178	0	FAT3,missense_variant,p.Arg1266Cys,ENST00000298047,;FAT3,missense_variant,p.Arg1266Cys,ENST00000409404,;FAT3,missense_variant,p.Arg1116Cys,ENST00000525166,;RP11-203F8.1,intron_variant,,ENST00000529884,;	T	ENSG00000165323	ENST00000298047	Transcript	missense_variant	3813	3796	1266	R/C	Cgt/Tgt	rs529470178,COSM1298746,COSM1298745	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	probably_damaging(1)	4/27	.	Superfamily_domains:SSF49313,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGAACGTGAC	byFrequency|byCluster	3	BLCA
FAT3	0	.	GRCh37	11	92532073	92532073	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5894C>T	p.Thr1965Ile	p.T1965I	ENST00000298047	9/27	94	59	35	122	122	0	FAT3,missense_variant,p.Thr1965Ile,ENST00000298047,;FAT3,missense_variant,p.Thr1965Ile,ENST00000409404,;FAT3,missense_variant,p.Thr1815Ile,ENST00000525166,;	T	ENSG00000165323	ENST00000298047	Transcript	missense_variant	5911	5894	1965	T/I	aCc/aTc	COSM1298748,COSM1298747	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	benign(0.099)	9/27	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTACCTCCA	.	5	BLCA
UBE3B	0	.	GRCh37	12	109948159	109948159	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1752G>T	p.Lys584Asn	p.K584N	ENST00000342494	17/28	31	28	3	30	30	0	UBE3B,missense_variant,p.Lys584Asn,ENST00000280774,;UBE3B,missense_variant,p.Lys584Asn,ENST00000342494,;UBE3B,missense_variant,p.Lys584Asn,ENST00000434735,;UBE3B,missense_variant,p.Lys584Asn,ENST00000539599,;UBE3B,non_coding_transcript_exon_variant,,ENST00000535900,;UBE3B,missense_variant,p.Lys584Asn,ENST00000449510,;UBE3B,non_coding_transcript_exon_variant,,ENST00000539584,;	T	ENSG00000151148	ENST00000342494	Transcript	missense_variant	2347	1752	584	K/N	aaG/aaT	.	.	.	1	UBE3B	HGNC	13478	protein_coding	YES	CCDS9129.1	ENSP00000340596	UBE3B_HUMAN	F5H5T5_HUMAN	UPI000013DC3B	.	tolerated(0.27)	benign(0.005)	17/28	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF303	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAAGGGTGA	.	2	BLCA
NCOR2	0	.	GRCh37	12	124824693	124824693	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5546C>T	p.Ala1849Val	p.A1849V	ENST00000405201	37/47	71	47	24	41	41	0	NCOR2,missense_variant,p.Ala1856Val,ENST00000356219,;NCOR2,missense_variant,p.Ala179Val,ENST00000453428,;NCOR2,missense_variant,p.Ala84Val,ENST00000440187,;NCOR2,missense_variant,p.Ala1410Val,ENST00000404121,;NCOR2,missense_variant,p.Ala1839Val,ENST00000429285,;NCOR2,missense_variant,p.Ala1849Val,ENST00000405201,;NCOR2,missense_variant,p.Ala1839Val,ENST00000404621,;NCOR2,missense_variant,p.Ala1840Val,ENST00000397355,;NCOR2,upstream_gene_variant,,ENST00000474079,;NCOR2,upstream_gene_variant,,ENST00000461081,;	A	ENSG00000196498	ENST00000405201	Transcript	missense_variant	5547	5546	1849	A/V	gCc/gTc	COSM1299092	.	.	-1	NCOR2	HGNC	7673	protein_coding	YES	CCDS41858.2	ENSP00000384018	.	C9JFD3_HUMAN,C9J330_HUMAN	UPI000013D737	.	.	possibly_damaging(0.614)	37/47	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13992:SF21,hmmpanther:PTHR13992	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGAGGCGGGG	.	5	BLCA
TMEM132D	0	.	GRCh37	12	130185155	130185155	+	Silent	SNP	C	C	T	rs752280349	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168G>A	p.%3D	p.A56A	ENST00000422113	2/9	48	38	10	60	60	0	TMEM132D,synonymous_variant,p.%3D,ENST00000422113,;RP11-174M13.2,upstream_gene_variant,,ENST00000544036,;	T	ENSG00000151952	ENST00000422113	Transcript	synonymous_variant	495	168	56	A	gcG/gcA	rs752280349,COSM1299119	.	.	-1	TMEM132D	HGNC	29411	protein_coding	YES	CCDS9266.1	ENSP00000408581	T132D_HUMAN	.	UPI000023759C	.	.	.	2/9	.	hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N55N|c.165C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGTCCGCGTT	byFrequency	5	BLCA
ADCY6	0	.	GRCh37	12	49176704	49176704	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.514G>A	p.Ala172Thr	p.A172T	ENST00000307885	1/21	112	105	7	43	43	0	ADCY6,missense_variant,p.Ala172Thr,ENST00000357869,;ADCY6,missense_variant,p.Ala172Thr,ENST00000307885,;ADCY6,missense_variant,p.Ala172Thr,ENST00000550422,;ADCY6,upstream_gene_variant,,ENST00000548820,;ADCY6,upstream_gene_variant,,ENST00000551435,;	T	ENSG00000174233	ENST00000307885	Transcript	missense_variant	1209	514	172	A/T	Gca/Aca	COSM1299410	.	.	-1	ADCY6	HGNC	237	protein_coding	YES	CCDS8767.1	ENSP00000311405	ADCY6_HUMAN	Q9NR74_HUMAN,Q6LCE1_HUMAN	UPI000003EC29	.	tolerated(0.38)	benign(0.001)	1/21	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF263	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTGCGGCGT	.	2	BLCA
DIP2B	0	.	GRCh37	12	51034594	51034594	+	Missense_Mutation	SNP	G	G	A	rs773340318	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.260G>A	p.Arg87Gln	p.R87Q	ENST00000301180	3/38	46	30	16	70	70	0	DIP2B,missense_variant,p.Arg87Gln,ENST00000301180,;DIP2B,non_coding_transcript_exon_variant,,ENST00000549620,;DIP2B,non_coding_transcript_exon_variant,,ENST00000546719,;	A	ENSG00000066084	ENST00000301180	Transcript	missense_variant	294	260	87	R/Q	cGa/cAa	rs773340318,COSM1299491	.	.	1	DIP2B	HGNC	29284	protein_coding	YES	CCDS31799.1	ENSP00000301180	DIP2B_HUMAN	Q96IB4_HUMAN	UPI0000406CA1	.	deleterious(0.03)	benign(0.059)	3/38	.	hmmpanther:PTHR22754:SF22,hmmpanther:PTHR22754,Pfam_domain:PF06464	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCGAACTC	byFrequency	5	BLCA
SLC2A14	0	.	GRCh37	12	7970478	7970478	+	Silent	SNP	G	G	A	rs780264514	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1293C>T	p.%3D	p.C431C	ENST00000543909	15/16	178	163	15	125	125	0	SLC2A14,synonymous_variant,p.%3D,ENST00000535295,;SLC2A14,synonymous_variant,p.%3D,ENST00000396589,;SLC2A14,synonymous_variant,p.%3D,ENST00000431042,;SLC2A14,synonymous_variant,p.%3D,ENST00000542546,;SLC2A14,synonymous_variant,p.%3D,ENST00000542505,;SLC2A14,synonymous_variant,p.%3D,ENST00000340749,;SLC2A14,synonymous_variant,p.%3D,ENST00000539924,;SLC2A14,synonymous_variant,p.%3D,ENST00000543909,;	A	ENSG00000173262	ENST00000543909	Transcript	synonymous_variant	2053	1293	431	C	tgC/tgT	rs780264514,COSM1299891	.	.	-1	SLC2A14	HGNC	18301	protein_coding	YES	CCDS8585.1	ENSP00000440480	GTR14_HUMAN	F5H6F6_HUMAN,F5GXP7_HUMAN	UPI000006D325	.	.	.	15/16	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24063:SF322,hmmpanther:PTHR24063,Pfam_domain:PF00083,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR00879,Superfamily_domains:SSF103473	.	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGGAGCAGCC	byFrequency|byCluster|by1000G	3	BLCA
PLXNC1	0	.	GRCh37	12	94648979	94648979	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2994G>A	p.%3D	p.E998E	ENST00000258526	17/31	42	33	9	90	90	0	PLXNC1,synonymous_variant,p.%3D,ENST00000547057,;PLXNC1,synonymous_variant,p.%3D,ENST00000550080,;PLXNC1,synonymous_variant,p.%3D,ENST00000258526,;PLXNC1,upstream_gene_variant,,ENST00000551495,;PLXNC1,synonymous_variant,p.%3D,ENST00000549217,;PLXNC1,non_coding_transcript_exon_variant,,ENST00000549810,;	A	ENSG00000136040	ENST00000258526	Transcript	synonymous_variant	3243	2994	998	E	gaG/gaA	COSM1299973	.	.	1	PLXNC1	HGNC	9106	protein_coding	YES	CCDS9049.1	ENSP00000258526	PLXC1_HUMAN	F8VUW4_HUMAN,F5H3A2_HUMAN	UPI0000038AF4	.	.	.	17/31	.	hmmpanther:PTHR22625:SF4,hmmpanther:PTHR22625	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGAGCTGCA	.	5	BLCA
TUBGCP3	0	.	GRCh37	13	113181716	113181716	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1418C>T	p.Ser473Leu	p.S473L	ENST00000261965	12/22	90	84	6	138	138	0	TUBGCP3,missense_variant,p.Ser473Leu,ENST00000261965,;TUBGCP3,missense_variant,p.Ser473Leu,ENST00000375669,;TUBGCP3,non_coding_transcript_exon_variant,,ENST00000462580,;	A	ENSG00000126216	ENST00000261965	Transcript	missense_variant	1605	1418	473	S/L	tCg/tTg	COSM1300030	.	.	-1	TUBGCP3	HGNC	18598	protein_coding	YES	CCDS9525.1	ENSP00000261965	GCP3_HUMAN	.	UPI000000DB88	.	deleterious(0)	benign(0.097)	12/22	.	Pfam_domain:PF04130,hmmpanther:PTHR19302:SF14,hmmpanther:PTHR19302	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAACGAAGGA	.	2	BLCA
FNDC3A	0	.	GRCh37	13	49777357	49777357	+	Missense_Mutation	SNP	G	G	T	rs765606532	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3219G>T	p.Met1073Ile	p.M1073I	ENST00000492622	25/26	45	28	16	76	76	0	FNDC3A,missense_variant,p.Met1073Ile,ENST00000541916,;FNDC3A,missense_variant,p.Met1073Ile,ENST00000492622,;FNDC3A,missense_variant,p.Met1017Ile,ENST00000398316,;FNDC3A,3_prime_UTR_variant,,ENST00000484074,;FNDC3A,downstream_gene_variant,,ENST00000497644,;	T	ENSG00000102531	ENST00000492622	Transcript	missense_variant	3524	3219	1073	M/I	atG/atT	rs765606532,COSM1300241	.	.	1	FNDC3A	HGNC	20296	protein_coding	YES	CCDS41886.1	ENSP00000417257	FND3A_HUMAN	.	UPI0000229601	.	tolerated(0.24)	benign(0.05)	25/26	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Gene3D:2.60.40.10,hmmpanther:PTHR19900:SF38,hmmpanther:PTHR19900,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATGAAAGG	.	5	BLCA
GPC5	0	.	GRCh37	13	92345539	92345539	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424C>A	p.Gln142Lys	p.Q142K	ENST00000377067	3/8	92	81	11	109	109	0	GPC5,missense_variant,p.Gln142Lys,ENST00000377067,;	A	ENSG00000179399	ENST00000377067	Transcript	missense_variant	796	424	142	Q/K	Cag/Aag	COSM1300339	.	.	1	GPC5	HGNC	4453	protein_coding	YES	CCDS9468.1	ENSP00000366267	GPC5_HUMAN	.	UPI0000001C85	.	tolerated(1)	benign(0.411)	3/8	.	hmmpanther:PTHR10822,hmmpanther:PTHR10822:SF12,Pfam_domain:PF01153	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGTTCAGGAG	.	4	BLCA
AKAP6	0	.	GRCh37	14	33015022	33015022	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1163C>T	p.Thr388Ile	p.T388I	ENST00000280979	4/14	57	48	9	87	87	0	AKAP6,missense_variant,p.Thr388Ile,ENST00000280979,;AKAP6,missense_variant,p.Thr146Ile,ENST00000553547,;AKAP6,missense_variant,p.Thr388Ile,ENST00000557272,;AKAP6,missense_variant,p.Thr388Ile,ENST00000557354,;AKAP6,downstream_gene_variant,,ENST00000556638,;AKAP6,downstream_gene_variant,,ENST00000554410,;	T	ENSG00000151320	ENST00000280979	Transcript	missense_variant	1333	1163	388	T/I	aCa/aTa	COSM1300570	.	.	1	AKAP6	HGNC	376	protein_coding	YES	CCDS9644.1	ENSP00000280979	AKAP6_HUMAN	G3V569_HUMAN,G3V3H6_HUMAN,G3V3H2_HUMAN,G3V3B5_HUMAN,D3DS91_HUMAN	UPI000013DC48	.	deleterious(0)	probably_damaging(0.997)	4/14	.	hmmpanther:PTHR14514,hmmpanther:PTHR14514:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTACATTGC	.	5	BLCA
FOXA1	0	.	GRCh37	14	38061857	38061858	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131dupT	p.Met44IlefsTer183	p.M44Ifs*183	ENST00000250448	2/2	118	99	19	100	100	0	FOXA1,frameshift_variant,p.Met11IlefsTer183,ENST00000540786,;FOXA1,frameshift_variant,p.Met44IlefsTer183,ENST00000250448,;TTC6,upstream_gene_variant,,ENST00000556845,;FOXA1,non_coding_transcript_exon_variant,,ENST00000545425,;FOXA1,downstream_gene_variant,,ENST00000557418,;FOXA1,downstream_gene_variant,,ENST00000554607,;FOXA1,3_prime_UTR_variant,,ENST00000553751,;	A	ENSG00000129514	ENST00000250448	Transcript	frameshift_variant	193-194	131-132	44	M/IX	atg/atTg	.	.	.	-1	FOXA1	HGNC	5021	protein_coding	YES	CCDS9665.1	ENSP00000250448	FOXA1_HUMAN	B7ZAP5_HUMAN	UPI000013CCBA	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11829:SF132,hmmpanther:PTHR11829,Pfam_domain:PF08430	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTGTTCATGGA	.	3	BLCA
GPR65	0	.	GRCh37	14	88477734	88477734	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.543C>G	p.Ile181Met	p.I181M	ENST00000267549	2/2	100	94	5	122	122	0	GPR65,missense_variant,p.Ile181Met,ENST00000267549,;RP11-300J18.2,intron_variant,,ENST00000554433,;	G	ENSG00000140030	ENST00000267549	Transcript	missense_variant	1101	543	181	I/M	atC/atG	COSM1300870	.	.	1	GPR65	HGNC	4517	protein_coding	YES	CCDS9879.1	ENSP00000267549	PSYR_HUMAN	B5B0C2_HUMAN	UPI000007422C	.	tolerated(0.07)	possibly_damaging(0.839)	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24232,hmmpanther:PTHR24232:SF36,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01649	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAAATCAACCT	.	2	BLCA
CHAC1	0	.	GRCh37	15	41247690	41247690	+	Silent	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513T>C	p.%3D	p.Y171Y	ENST00000446533	3/3	264	236	28	320	320	0	CHAC1,synonymous_variant,p.%3D,ENST00000446533,;CHAC1,5_prime_UTR_variant,,ENST00000487220,;CHAC1,intron_variant,,ENST00000444189,;	C	ENSG00000128965	ENST00000446533	Transcript	synonymous_variant	822	513	171	Y	taT/taC	COSM1301089,COSM1301088	.	.	1	CHAC1	HGNC	28680	protein_coding	YES	CCDS10070.2	ENSP00000398105	CHAC1_HUMAN	H0YK90_HUMAN	UPI00004FB51D	.	.	.	3/3	.	Superfamily_domains:SSF110857,Pfam_domain:PF04752,Gene3D:3.10.490.10,hmmpanther:PTHR12192,hmmpanther:PTHR12192:SF3	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTATCCCCA	.	4	BLCA
BLOC1S6	0	.	GRCh37	15	45898644	45898644	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>A	p.Glu151Lys	p.E151K	ENST00000220531	5/5	70	61	8	94	94	0	BLOC1S6,missense_variant,p.Glu156Lys,ENST00000565323,;BLOC1S6,missense_variant,p.Glu54Lys,ENST00000562384,;BLOC1S6,missense_variant,p.Glu25Lys,ENST00000564765,;BLOC1S6,missense_variant,p.Glu110Lys,ENST00000565216,;BLOC1S6,missense_variant,p.Glu54Lys,ENST00000568816,;BLOC1S6,missense_variant,p.Glu54Lys,ENST00000567461,;BLOC1S6,missense_variant,p.Glu101Lys,ENST00000569076,;BLOC1S6,missense_variant,p.Glu151Lys,ENST00000220531,;BLOC1S6,missense_variant,p.Glu54Lys,ENST00000565409,;RP11-96O20.4,intron_variant,,ENST00000564080,;BLOC1S6,downstream_gene_variant,,ENST00000566801,;BLOC1S6,non_coding_transcript_exon_variant,,ENST00000565727,;BLOC1S6,non_coding_transcript_exon_variant,,ENST00000567740,;BLOC1S6,non_coding_transcript_exon_variant,,ENST00000563000,;BLOC1S6,non_coding_transcript_exon_variant,,ENST00000563160,;BLOC1S6,3_prime_UTR_variant,,ENST00000567523,;BLOC1S6,3_prime_UTR_variant,,ENST00000568963,;BLOC1S6,3_prime_UTR_variant,,ENST00000568597,;BLOC1S6,intron_variant,,ENST00000564310,;BLOC1S6,downstream_gene_variant,,ENST00000566184,;	A	ENSG00000104164	ENST00000220531	Transcript	missense_variant	772	451	151	E/K	Gag/Aag	COSM1301170	.	.	1	BLOC1S6	HGNC	8549	protein_coding	YES	CCDS10126.1	ENSP00000220531	BL1S6_HUMAN	H3BRA4_HUMAN,H3BN73_HUMAN	UPI000004A0B2	.	deleterious(0.01)	probably_damaging(0.994)	5/5	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,PIRSF_domain:PIRSF037609,hmmpanther:PTHR31328	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAGGGAGCAG	.	4	BLCA
CSNK1G1	0	.	GRCh37	15	64508801	64508801	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.404C>T	p.Thr135Ile	p.T135I	ENST00000303052	5/12	52	28	23	69	69	0	CSNK1G1,missense_variant,p.Thr135Ile,ENST00000607537,;CSNK1G1,missense_variant,p.Thr135Ile,ENST00000303052,;CTD-2116N17.1,missense_variant,p.Thr108Ile,ENST00000606793,;CTD-2116N17.1,missense_variant,p.Thr91Ile,ENST00000561349,;CSNK1G1,missense_variant,p.Thr135Ile,ENST00000303032,;CSNK1G1,missense_variant,p.Thr135Ile,ENST00000606225,;	A	ENSG00000169118	ENST00000303052	Transcript	missense_variant	828	404	135	T/I	aCa/aTa	COSM1301320,COSM1301319	.	.	-1	CSNK1G1	HGNC	2454	protein_coding	YES	CCDS10192.2	ENSP00000305777	KC1G1_HUMAN	U3KQP7_HUMAN	UPI000003F575	.	tolerated(0.05)	possibly_damaging(0.769)	5/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11909,hmmpanther:PTHR11909:SF132,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATGTTCGG	.	5	BLCA
IGDCC3	0	.	GRCh37	15	65625614	65625614	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.963G>A	p.%3D	p.Q321Q	ENST00000327987	6/14	100	92	8	121	121	0	IGDCC3,synonymous_variant,p.%3D,ENST00000558354,;IGDCC3,synonymous_variant,p.%3D,ENST00000327987,;IGDCC3,downstream_gene_variant,,ENST00000559058,;IGDCC3,non_coding_transcript_exon_variant,,ENST00000559231,;	T	ENSG00000174498	ENST00000327987	Transcript	synonymous_variant	1215	963	321	Q	caG/caA	COSM1301343	.	.	-1	IGDCC3	HGNC	9700	protein_coding	YES	CCDS10205.1	ENSP00000332773	IGDC3_HUMAN	H0YNQ1_HUMAN	UPI000019908F	.	.	.	6/14	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489:SF106,hmmpanther:PTHR10489,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGGCCCTGTGC	.	3	BLCA
LRRC49	0	.	GRCh37	15	71302263	71302263	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1540A>G	p.Thr514Ala	p.T514A	ENST00000560369	13/16	44	38	6	101	101	0	LRRC49,missense_variant,p.Thr509Ala,ENST00000260382,;LRRC49,missense_variant,p.Thr499Ala,ENST00000544974,;LRRC49,missense_variant,p.Thr197Ala,ENST00000560158,;LRRC49,missense_variant,p.Thr465Ala,ENST00000443425,;LRRC49,missense_variant,p.Thr514Ala,ENST00000560369,;LRRC49,missense_variant,p.Thr215Ala,ENST00000560691,;LRRC49,downstream_gene_variant,,ENST00000559069,;LRRC49,downstream_gene_variant,,ENST00000559806,;LRRC49,non_coding_transcript_exon_variant,,ENST00000559422,;LRRC49,non_coding_transcript_exon_variant,,ENST00000436542,;LRRC49,3_prime_UTR_variant,,ENST00000560107,;LRRC49,3_prime_UTR_variant,,ENST00000561081,;LRRC49,downstream_gene_variant,,ENST00000559685,;	G	ENSG00000137821	ENST00000560369	Transcript	missense_variant	1809	1540	514	T/A	Aca/Gca	COSM1301393	.	.	1	LRRC49	HGNC	25965	protein_coding	YES	CCDS58376.1	ENSP00000453273	LRC49_HUMAN	H0YNV5_HUMAN,H0YNI5_HUMAN,H0YLQ8_HUMAN,H0YKI5_HUMAN,H0YKE9_HUMAN	UPI0001E92A32	.	tolerated(0.1)	benign(0.236)	13/16	.	hmmpanther:PTHR10588:SF5,hmmpanther:PTHR10588	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTACACTC	.	5	BLCA
RHBDF1	0	.	GRCh37	16	113739	113739	+	Missense_Mutation	SNP	C	C	T	rs745876843	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.308G>A	p.Arg103His	p.R103H	ENST00000262316	4/18	61	54	7	63	63	0	RHBDF1,missense_variant,p.Arg103His,ENST00000262316,;RHBDF1,missense_variant,p.Arg103His,ENST00000454039,;RHBDF1,missense_variant,p.Arg103His,ENST00000450643,;RHBDF1,upstream_gene_variant,,ENST00000448893,;RHBDF1,downstream_gene_variant,,ENST00000419764,;RHBDF1,missense_variant,p.Arg103His,ENST00000428730,;RHBDF1,3_prime_UTR_variant,,ENST00000417043,;RHBDF1,non_coding_transcript_exon_variant,,ENST00000487201,;RHBDF1,upstream_gene_variant,,ENST00000482904,;RHBDF1,upstream_gene_variant,,ENST00000493647,;RHBDF1,upstream_gene_variant,,ENST00000486045,;RHBDF1,downstream_gene_variant,,ENST00000472390,;	T	ENSG00000007384	ENST00000262316	Transcript	missense_variant	451	308	103	R/H	cGc/cAc	rs745876843,COSM1301620	.	.	-1	RHBDF1	HGNC	20561	protein_coding	YES	CCDS32344.1	ENSP00000262316	RHDF1_HUMAN	A2IDA2_HUMAN	UPI00001A5206	.	deleterious(0.05)	probably_damaging(0.993)	4/18	.	hmmpanther:PTHR22936:SF6,hmmpanther:PTHR22936,Pfam_domain:PF12595	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTGCGCTGC	byFrequency	4	BLCA
SNX29	0	.	GRCh37	16	12223537	12223537	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1517G>A	p.Arg506Gln	p.R506Q	ENST00000566228	13/21	29	21	7	31	31	0	SNX29,missense_variant,p.Arg506Gln,ENST00000566228,;SNX29,missense_variant,p.Arg121Gln,ENST00000323433,;SNX29,missense_variant,p.Arg140Gln,ENST00000563308,;SNX29,missense_variant,p.Arg121Gln,ENST00000306030,;SNX29,upstream_gene_variant,,ENST00000564791,;	A	ENSG00000048471	ENST00000566228	Transcript	missense_variant	1586	1517	506	R/Q	cGg/cAg	COSM1301629,COSM1301630,COSM4058268	.	.	1	SNX29	HGNC	30542	protein_coding	YES	CCDS10553.2	ENSP00000456480	SNX29_HUMAN	J3KNF2_HUMAN	UPI00000382F9	.	deleterious(0.03)	probably_damaging(0.998)	13/21	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCCGGCAAG	.	5	BLCA
GDPD3	0	.	GRCh37	16	30116185	30116185	+	3'UTR	SNP	T	T	C	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8A>G	.	.	ENST00000406256	10/10	68	63	5	69	69	0	GDPD3,3_prime_UTR_variant,,ENST00000566613,;GDPD3,3_prime_UTR_variant,,ENST00000406256,;RP11-455F5.4,upstream_gene_variant,,ENST00000566190,;RP11-455F5.3,downstream_gene_variant,,ENST00000515455,;GDPD3,3_prime_UTR_variant,,ENST00000566434,;GDPD3,non_coding_transcript_exon_variant,,ENST00000360688,;GDPD3,non_coding_transcript_exon_variant,,ENST00000565704,;	C	ENSG00000102886	ENST00000406256	Transcript	3_prime_UTR_variant	1343	.	.	.	.	.	.	.	-1	GDPD3	HGNC	28638	protein_coding	YES	CCDS10671.2	ENSP00000384363	GDPD3_HUMAN	.	UPI00001FFEC4	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGGCTTCTGG	.	3	BLCA
SRCAP	0	.	GRCh37	16	30718977	30718977	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.577C>T	p.Arg193Ter	p.R193*	ENST00000262518	6/34	75	60	15	83	83	0	SRCAP,stop_gained,p.Arg193Ter,ENST00000262518,;SRCAP,stop_gained,p.Arg193Ter,ENST00000344771,;SRCAP,stop_gained,p.Arg193Ter,ENST00000395059,;SRCAP,downstream_gene_variant,,ENST00000411466,;SNORA30,upstream_gene_variant,,ENST00000384028,;SRCAP,stop_gained,p.Arg174Ter,ENST00000380361,;SRCAP,upstream_gene_variant,,ENST00000483083,;	T	ENSG00000080603	ENST00000262518	Transcript	stop_gained	962	577	193	R/*	Cga/Tga	COSM1301876	.	.	1	SRCAP	HGNC	16974	protein_coding	YES	CCDS10689.2	ENSP00000262518	SRCAP_HUMAN	G1UI29_HUMAN,C9J4U4_HUMAN	UPI000059D368	.	.	.	6/34	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51204,hmmpanther:PTHR10799:SF581,hmmpanther:PTHR10799,Pfam_domain:PF07529,SMART_domains:SM00573	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGTCGAATT	.	5	BLCA
SRCAP	0	.	GRCh37	16	30720939	30720939	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739C>T	p.%3D	p.L247L	ENST00000262518	7/34	136	102	33	142	142	0	SRCAP,synonymous_variant,p.%3D,ENST00000262518,;SRCAP,synonymous_variant,p.%3D,ENST00000344771,;SRCAP,synonymous_variant,p.%3D,ENST00000395059,;SNORA30,upstream_gene_variant,,ENST00000384028,;SRCAP,synonymous_variant,p.%3D,ENST00000380361,;SRCAP,upstream_gene_variant,,ENST00000483083,;	T	ENSG00000080603	ENST00000262518	Transcript	synonymous_variant	1124	739	247	L	Ctg/Ttg	COSM1301877	.	.	1	SRCAP	HGNC	16974	protein_coding	YES	CCDS10689.2	ENSP00000262518	SRCAP_HUMAN	G1UI29_HUMAN,C9J4U4_HUMAN	UPI000059D368	.	.	.	7/34	.	hmmpanther:PTHR10799:SF581,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCTGTCT	.	5	BLCA
RNF40	0	.	GRCh37	16	30774850	30774850	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412C>G	p.Leu138Val	p.L138V	ENST00000324685	4/20	69	50	19	56	56	0	RNF40,missense_variant,p.Leu138Val,ENST00000563683,;RNF40,missense_variant,p.Leu138Val,ENST00000324685,;RNF40,missense_variant,p.Leu138Val,ENST00000565931,;RNF40,missense_variant,p.Leu138Val,ENST00000357890,;RNF40,intron_variant,,ENST00000402121,;RNF40,intron_variant,,ENST00000565995,;RNF40,downstream_gene_variant,,ENST00000566811,;C16orf93,upstream_gene_variant,,ENST00000545825,;C16orf93,upstream_gene_variant,,ENST00000541260,;RNF40,downstream_gene_variant,,ENST00000563909,;PHKG2,downstream_gene_variant,,ENST00000424889,;C16orf93,upstream_gene_variant,,ENST00000535476,;PHKG2,downstream_gene_variant,,ENST00000563588,;C16orf93,upstream_gene_variant,,ENST00000544613,;C16orf93,upstream_gene_variant,,ENST00000543610,;RNF40,non_coding_transcript_exon_variant,,ENST00000493683,;C16orf93,upstream_gene_variant,,ENST00000544487,;C16orf93,upstream_gene_variant,,ENST00000544643,;C16orf93,upstream_gene_variant,,ENST00000543128,;C16orf93,upstream_gene_variant,,ENST00000545809,;RNF40,upstream_gene_variant,,ENST00000564260,;RNF40,upstream_gene_variant,,ENST00000566703,;C16orf93,upstream_gene_variant,,ENST00000546006,;C16orf93,upstream_gene_variant,,ENST00000433909,;C16orf93,upstream_gene_variant,,ENST00000537986,;	G	ENSG00000103549	ENST00000324685	Transcript	missense_variant	847	412	138	L/V	Ctc/Gtc	COSM1301890	.	.	1	RNF40	HGNC	16867	protein_coding	YES	CCDS10691.1	ENSP00000325677	BRE1B_HUMAN	I3L332_HUMAN,H3BUL6_HUMAN,H3BS50_HUMAN,H3BQ99_HUMAN,B4E313_HUMAN	UPI000013D2CF	.	tolerated(0.28)	benign(0.018)	4/20	.	hmmpanther:PTHR23163,hmmpanther:PTHR23163:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTCCCA	.	5	BLCA
ARMC5	0	.	GRCh37	16	31476598	31476598	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1864+390C>G	.	.	ENST00000268314	.	22	18	4	17	17	0	ARMC5,3_prime_UTR_variant,,ENST00000457010,;ARMC5,intron_variant,,ENST00000538189,;ARMC5,intron_variant,,ENST00000268314,;ARMC5,intron_variant,,ENST00000564900,;ARMC5,intron_variant,,ENST00000563544,;ARMC5,intron_variant,,ENST00000408912,;ARMC5,intron_variant,,ENST00000412665,;ARMC5,downstream_gene_variant,,ENST00000564514,;ARMC5,upstream_gene_variant,,ENST00000570119,;	G	ENSG00000140691	ENST00000268314	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ARMC5	HGNC	25781	protein_coding	YES	CCDS45472.1	ENSP00000268314	ARMC5_HUMAN	.	UPI0000F6E6C0	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGTCTGCTG	.	4	BLCA
CKLF	0	.	GRCh37	16	66592158	66592158	+	Silent	SNP	C	C	T	rs202172549	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.144C>T	p.%3D	p.I48I	ENST00000264001	2/4	65	55	10	205	205	0	CKLF,synonymous_variant,p.%3D,ENST00000345436,;CKLF,synonymous_variant,p.%3D,ENST00000417030,;CKLF,synonymous_variant,p.%3D,ENST00000264001,;CKLF-CMTM1,intron_variant,,ENST00000532838,;CKLF-CMTM1,intron_variant,,ENST00000527729,;CKLF,intron_variant,,ENST00000351137,;CKLF,intron_variant,,ENST00000362093,;CKLF-CMTM1,upstream_gene_variant,,ENST00000529718,;CKLF,intron_variant,,ENST00000563092,;CKLF,non_coding_transcript_exon_variant,,ENST00000526149,;CKLF-CMTM1,intron_variant,,ENST00000527845,;CKLF,intron_variant,,ENST00000534692,;	T	ENSG00000217555	ENST00000264001	Transcript	synonymous_variant	293	144	48	I	atC/atT	rs202172549,COSM1302097	.	.	1	CKLF	HGNC	13253	protein_coding	YES	CCDS10807.1	ENSP00000264001	CKLF_HUMAN	.	UPI0000036209	.	.	.	2/4	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS51225,hmmpanther:PTHR22776:SF36,hmmpanther:PTHR22776	G:0.0002	G:0	G:0.0014	.	G:0	G:0	G:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTATCACTGG	byCluster|by1000G	5	BLCA
TMED6	0	.	GRCh37	16	69385672	69385672	+	5'UTR	SNP	C	C	A	rs748606665	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-16G>T	.	.	ENST00000288025	1/4	41	32	8	47	47	0	TMED6,5_prime_UTR_variant,,ENST00000288025,;RP11-343C2.9,intron_variant,,ENST00000563634,;TERF2,downstream_gene_variant,,ENST00000603068,;TERF2,downstream_gene_variant,,ENST00000254942,;TERF2,downstream_gene_variant,,ENST00000566051,;RP11-343C2.7,upstream_gene_variant,,ENST00000564737,;TMED6,upstream_gene_variant,,ENST00000568748,;RP11-343C2.7,upstream_gene_variant,,ENST00000570293,;	A	ENSG00000157315	ENST00000288025	Transcript	5_prime_UTR_variant	41	.	.	.	.	rs748606665	.	.	-1	TMED6	HGNC	28331	protein_coding	YES	CCDS10878.1	ENSP00000288025	TMED6_HUMAN	.	UPI0000039E20	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAGCCTCCTC	byFrequency	2	BLCA
VPS9D1	0	.	GRCh37	16	89774351	89774351	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1814G>A	p.Gly605Glu	p.G605E	ENST00000389386	15/15	98	84	14	100	100	0	VPS9D1,missense_variant,p.Gly206Glu,ENST00000565023,;VPS9D1,missense_variant,p.Gly605Glu,ENST00000389386,;VPS9D1,missense_variant,p.Gly535Glu,ENST00000561976,;VPS9D1-AS1,upstream_gene_variant,,ENST00000562866,;VPS9D1,downstream_gene_variant,,ENST00000565452,;VPS9D1,downstream_gene_variant,,ENST00000567379,;VPS9D1,downstream_gene_variant,,ENST00000568691,;VPS9D1,downstream_gene_variant,,ENST00000563798,;	T	ENSG00000075399	ENST00000389386	Transcript	missense_variant	1939	1814	605	G/E	gGa/gAa	COSM1302365	.	.	-1	VPS9D1	HGNC	13526	protein_coding	YES	CCDS42220.1	ENSP00000374037	VP9D1_HUMAN	H3BM58_HUMAN	UPI00001FF749	.	deleterious(0)	probably_damaging(0.999)	15/15	.	PROSITE_profiles:PS51205,hmmpanther:PTHR23101:SF25,hmmpanther:PTHR23101,Pfam_domain:PF02204,SMART_domains:SM00167,Superfamily_domains:0044157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCCGATC	.	4	BLCA
GRIN2A	0	.	GRCh37	16	9916174	9916174	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2115G>C	p.Met705Ile	p.M705I	ENST00000396573	11/14	90	80	9	121	121	0	GRIN2A,missense_variant,p.Met705Ile,ENST00000396573,;GRIN2A,missense_variant,p.Met705Ile,ENST00000404927,;GRIN2A,missense_variant,p.Met548Ile,ENST00000535259,;GRIN2A,missense_variant,p.Met705Ile,ENST00000330684,;GRIN2A,missense_variant,p.Met705Ile,ENST00000396575,;GRIN2A,missense_variant,p.Met705Ile,ENST00000562109,;	G	ENSG00000183454	ENST00000396573	Transcript	missense_variant	2425	2115	705	M/I	atG/atC	COSM1302383	.	.	-1	GRIN2A	HGNC	4585	protein_coding	YES	CCDS10539.1	ENSP00000379818	NMDE1_HUMAN	Q547U9_HUMAN	UPI000000D7AB	.	deleterious(0)	probably_damaging(0.998)	11/14	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF107,Pfam_domain:PF00060,Gene3D:1.10.287.70,Pfam_domain:PF00497,SMART_domains:SM00079,Superfamily_domains:SSF53850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGTCATGTA	.	4	BLCA
RAPGEFL1	0	.	GRCh37	17	38347663	38347663	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813C>T	p.%3D	p.H271H	ENST00000436615	9/15	38	24	14	28	28	0	RAPGEFL1,synonymous_variant,p.%3D,ENST00000436615,;RAPGEFL1,synonymous_variant,p.%3D,ENST00000456989,;RAPGEFL1,synonymous_variant,p.%3D,ENST00000544503,;RAPGEFL1,synonymous_variant,p.%3D,ENST00000264644,;RAPGEFL1,downstream_gene_variant,,ENST00000538981,;RAPGEFL1,downstream_gene_variant,,ENST00000543876,;RAPGEFL1,downstream_gene_variant,,ENST00000540388,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000545893,;RAPGEFL1,upstream_gene_variant,,ENST00000496032,;RAPGEFL1,downstream_gene_variant,,ENST00000469209,;	T	ENSG00000108352	ENST00000436615	Transcript	synonymous_variant	1303	813	271	H	caC/caT	COSM1302764	.	.	1	RAPGEFL1	HGNC	17428	protein_coding	YES	CCDS11363.1	ENSP00000408322	RPGFL_HUMAN	F5GYJ3_HUMAN,F5GY17_HUMAN,F5GXC6_HUMAN	UPI000006DB6B	.	.	.	9/15	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113:SF190,hmmpanther:PTHR23113,Gene3D:2ii0A02,Pfam_domain:PF00617,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCACTGGGT	.	5	BLCA
KRTAP4-11	0	.	GRCh37	17	39274427	39274427	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141C>T	p.%3D	p.S47S	ENST00000391413	1/1	228	212	16	119	119	0	KRTAP4-11,synonymous_variant,p.%3D,ENST00000391413,;KRTAP4-12,downstream_gene_variant,,ENST00000394014,;	A	ENSG00000212721	ENST00000391413	Transcript	synonymous_variant	180	141	47	S	tcC/tcT	COSM1302797	.	.	-1	KRTAP4-11	HGNC	18911	protein_coding	YES	CCDS45675.1	ENSP00000375232	KR411_HUMAN	.	UPI00001AFBF7	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23262,hmmpanther:PTHR23262:SF1,Pfam_domain:PF13885	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R51K|c.152G>A|6,BUFFER|p.S48R|c.144C>G|8	MUTECT|MUSE	CAGCTGGACAC	.	2	BLCA
PYY	0	.	GRCh37	17	42030378	42030378	+	Intron	SNP	C	C	T	rs747430845	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270-30G>A	.	.	ENST00000360085	.	99	91	8	63	63	0	PYY,3_prime_UTR_variant,,ENST00000592796,;PYY,intron_variant,,ENST00000360085,;	T	ENSG00000131096	ENST00000360085	Transcript	intron_variant	.	.	.	.	.	rs747430845	.	.	-1	PYY	HGNC	9748	protein_coding	YES	CCDS32662.1	ENSP00000353198	PYY_HUMAN	.	UPI000013CDD0	.	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGATCTGGGG	.	3	BLCA
TBKBP1	0	.	GRCh37	17	45787879	45787879	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1735G>A	p.Val579Met	p.V579M	ENST00000361722	9/9	77	67	9	67	67	0	TBKBP1,missense_variant,p.Val579Met,ENST00000361722,;	A	ENSG00000198933	ENST00000361722	Transcript	missense_variant	2584	1735	579	V/M	Gtg/Atg	.	.	.	1	TBKBP1	HGNC	30140	protein_coding	YES	CCDS45722.1	ENSP00000354777	TBKB1_HUMAN	J3KS71_HUMAN,F5H1U4_HUMAN	UPI000006E6FC	.	deleterious(0.05)	unknown(0)	9/9	.	hmmpanther:PTHR14432:SF2,hmmpanther:PTHR14432	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACGGTGGGC	.	4	BLCA
PFN1	0	.	GRCh37	17	4850177	4850177	+	Intron	SNP	C	C	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133-62G>T	.	.	ENST00000225655	.	17	8	9	24	24	0	PFN1,5_prime_UTR_variant,,ENST00000574872,;PFN1,intron_variant,,ENST00000225655,;PFN1,intron_variant,,ENST00000572383,;ENO3,upstream_gene_variant,,ENST00000518175,;RNF167,downstream_gene_variant,,ENST00000575111,;RNF167,downstream_gene_variant,,ENST00000576452,;RNF167,downstream_gene_variant,,ENST00000571816,;RNF167,downstream_gene_variant,,ENST00000570328,;RNF167,downstream_gene_variant,,ENST00000576229,;RNF167,downstream_gene_variant,,ENST00000573404,;RNF167,downstream_gene_variant,,ENST00000262482,;ENO3,upstream_gene_variant,,ENST00000519584,;ENO3,upstream_gene_variant,,ENST00000522249,;ENO3,upstream_gene_variant,,ENST00000519602,;RNF167,downstream_gene_variant,,ENST00000576965,;ENO3,upstream_gene_variant,,ENST00000519266,;ENO3,upstream_gene_variant,,ENST00000520221,;ENO3,upstream_gene_variant,,ENST00000323997,;ENO3,upstream_gene_variant,,ENST00000522798,;RNF167,downstream_gene_variant,,ENST00000572382,;ENO3,upstream_gene_variant,,ENST00000522301,;RNF167,downstream_gene_variant,,ENST00000572430,;ENO3,upstream_gene_variant,,ENST00000521811,;RNF167,downstream_gene_variant,,ENST00000570492,;RNF167,downstream_gene_variant,,ENST00000574548,;RNF167,downstream_gene_variant,,ENST00000572554,;ENO3,upstream_gene_variant,,ENST00000571235,;RNF167,downstream_gene_variant,,ENST00000575524,;ENO3,upstream_gene_variant,,ENST00000518972,;ENO3,upstream_gene_variant,,ENST00000519834,;RNF167,downstream_gene_variant,,ENST00000575400,;ENO3,upstream_gene_variant,,ENST00000519300,;ENO3,upstream_gene_variant,,ENST00000521659,;	A	ENSG00000108518	ENST00000225655	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PFN1	HGNC	8881	protein_coding	YES	CCDS11061.1	ENSP00000225655	PROF1_HUMAN	.	UPI000013C879	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCCAAAG	.	5	BLCA
PFN1	0	.	GRCh37	17	4850178	4850178	+	Intron	SNP	C	C	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133-63G>T	.	.	ENST00000225655	.	16	8	8	24	24	0	PFN1,5_prime_UTR_variant,,ENST00000574872,;PFN1,intron_variant,,ENST00000225655,;PFN1,intron_variant,,ENST00000572383,;ENO3,upstream_gene_variant,,ENST00000518175,;RNF167,downstream_gene_variant,,ENST00000575111,;RNF167,downstream_gene_variant,,ENST00000576452,;RNF167,downstream_gene_variant,,ENST00000571816,;RNF167,downstream_gene_variant,,ENST00000570328,;RNF167,downstream_gene_variant,,ENST00000576229,;RNF167,downstream_gene_variant,,ENST00000573404,;RNF167,downstream_gene_variant,,ENST00000262482,;ENO3,upstream_gene_variant,,ENST00000519584,;ENO3,upstream_gene_variant,,ENST00000522249,;ENO3,upstream_gene_variant,,ENST00000519602,;RNF167,downstream_gene_variant,,ENST00000576965,;ENO3,upstream_gene_variant,,ENST00000519266,;ENO3,upstream_gene_variant,,ENST00000520221,;ENO3,upstream_gene_variant,,ENST00000323997,;ENO3,upstream_gene_variant,,ENST00000522798,;RNF167,downstream_gene_variant,,ENST00000572382,;ENO3,upstream_gene_variant,,ENST00000522301,;RNF167,downstream_gene_variant,,ENST00000572430,;ENO3,upstream_gene_variant,,ENST00000521811,;RNF167,downstream_gene_variant,,ENST00000570492,;RNF167,downstream_gene_variant,,ENST00000574548,;RNF167,downstream_gene_variant,,ENST00000572554,;ENO3,upstream_gene_variant,,ENST00000571235,;RNF167,downstream_gene_variant,,ENST00000575524,;ENO3,upstream_gene_variant,,ENST00000518972,;ENO3,upstream_gene_variant,,ENST00000519834,;RNF167,downstream_gene_variant,,ENST00000575400,;ENO3,upstream_gene_variant,,ENST00000519300,;ENO3,upstream_gene_variant,,ENST00000521659,;	A	ENSG00000108518	ENST00000225655	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PFN1	HGNC	8881	protein_coding	YES	CCDS11061.1	ENSP00000225655	PROF1_HUMAN	.	UPI000013C879	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCCAAAGA	.	5	BLCA
FAM104A	0	.	GRCh37	17	71223344	71223346	+	In_Frame_Del	DEL	CTT	CTT	-	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	CTT	CTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279_281delAAG	p.Arg93del	p.R93del	ENST00000405159	2/4	63	53	10	85	85	0	FAM104A,inframe_deletion,p.Arg93del,ENST00000403627,;FAM104A,inframe_deletion,p.Arg26del,ENST00000579872,;FAM104A,inframe_deletion,p.Arg93del,ENST00000405159,;FAM104A,5_prime_UTR_variant,,ENST00000580032,;FAM104A,intron_variant,,ENST00000583024,;FAM104A,intron_variant,,ENST00000581110,;FAM104A,non_coding_transcript_exon_variant,,ENST00000583178,;	-	ENSG00000133193	ENST00000405159	Transcript	inframe_deletion	344-346	279-281	93-94	RS/S	agAAGt/agt	.	.	.	-1	FAM104A	HGNC	25918	protein_coding	YES	CCDS45766.1	ENSP00000384832	F104A_HUMAN	J3KT35_HUMAN	UPI00005A9549	.	.	.	2/4	.	Pfam_domain:PF15434	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTGCTACTTCTTTT	.	3	BLCA
TP53	0	.	GRCh37	17	7577538	7577538	+	Missense_Mutation	SNP	C	C	T	rs11540652	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743G>A	p.Arg248Gln	p.R248Q	ENST00000269305	7/11	99	39	60	96	96	0	TP53,missense_variant,p.Arg248Gln,ENST00000413465,;TP53,missense_variant,p.Arg248Gln,ENST00000420246,;TP53,missense_variant,p.Arg248Gln,ENST00000269305,;TP53,missense_variant,p.Arg116Gln,ENST00000509690,;TP53,missense_variant,p.Arg248Gln,ENST00000359597,;TP53,missense_variant,p.Arg155Gln,ENST00000514944,;TP53,missense_variant,p.Arg248Gln,ENST00000445888,;TP53,missense_variant,p.Arg248Gln,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	933	743	248	R/Q	cGg/cAg	rs11540652,CM920675,TP53_g.13380G>A,TP53_g.13380G>C,TP53_g.13380G>T,TP53_g.13380del,COSM10662,COSM11491,COSM6549,COSM46135,COSM340105,COSM99602,COSM241995,COSM99020,COSM241994,COSM340106,COSM3356964,COSM3378346,COSM1640830,COSM1646857,COSM1646858,COSM99021,COSM241996,COSM340107	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,PROSITE_patterns:PS00348,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	25032700,20377871,18798306,15450681,25105660,21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R248Q|c.743G>A|113,SITE|p.R248Q|c.743G>A|633,SITE|p.R248Q|c.743G>A|64,SITE|p.R248Q|c.743G>A|42,SITE|p.R155Q|c.464G>A|114,SITE|p.R248Q|c.743G>A|110,CODON|p.0?|c.1_1182del1182|6,CODON|p.R248Q|c.743_744GG>AA|5,CODON|p.R248R|c.744G>A|5,CODON|p.R248W|c.741_742CC>TT|15,CODON|p.R248L|c.743G>T|7,CODON|p.R248L|c.743G>T|12,CODON|p.R155L|c.464G>T|12,CODON|p.R155P|c.464G>C|5,CODON|p.R248P|c.743G>C|17,CODON|p.R248L|c.743G>T|12,CODON|p.R248P|c.743G>C|5,CODON|p.R248L|c.743G>T|74,CODON|p.R248P|c.743G>C|5,BUFFER|p.L252_I254delLTI|c.754_762delCTCACCATC|4,BUFFER|p.L252_I254delLTI|c.751_759delATCCTCACC|4,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252delL|c.754_756delCTC|9,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252fs*93|c.754delC|5,BUFFER|p.L252F|c.754C>T|10,BUFFER|p.I251I|c.753C>A|3,BUFFER|p.I251N|c.752T>A|9,BUFFER|p.I251T|c.752T>C|6,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251S|c.752T>G|12,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251fs*94|c.751delA|6,BUFFER|p.I251L|c.751A>C|3,BUFFER|p.I251F|c.751A>T|8,BUFFER|p.P250P|c.750C>T|4,BUFFER|p.P250F|c.748_749CC>TT|3,BUFFER|p.I251fs*94|c.748delC|4,BUFFER|p.P250L|c.749C>T|49,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250L|c.749C>T|8,BUFFER|p.P250L|c.749C>T|6,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250S|c.748C>T|12,BUFFER|p.R249fs*96|c.746delG|4,BUFFER|p.R249S|c.747G>T|31,BUFFER|p.R249S|c.747G>C|22,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|15,BUFFER|p.R249R|c.747G>A|6,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|314,BUFFER|p.R249S|c.747G>T|30,BUFFER|p.R249T|c.746G>C|3,BUFFER|p.R249M|c.746G>T|8,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249K|c.746G>A|17,BUFFER|p.R249M|c.746G>T|4,BUFFER|p.R249T|c.746G>C|20,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249M|c.746G>T|35,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249W|c.745A>T|36,BUFFER|p.R249W|c.745A>T|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249W|c.745A>T|4,BUFFER|p.R249G|c.745A>G|4,BUFFER|p.R249W|c.745A>T|8,BUFFER|p.R249G|c.745A>G|30,BUFFER|p.R248W|c.742C>T|46,BUFFER|p.R248W|c.742C>T|92,BUFFER|p.R248W|c.742C>T|537,BUFFER|p.R155W|c.463C>T|92,BUFFER|p.R248G|c.742C>G|14,BUFFER|p.R248W|c.742C>T|31,BUFFER|p.R248W|c.742C>T|87,BUFFER|p.N247N|c.741C>T|10,BUFFER|p.N247I|c.740A>T|7,BUFFER|p.N154I|c.461A>T|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247T|c.740A>C|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247S|c.740A>G|7,BUFFER|p.N247D|c.739A>G|5,BUFFER|p.N247Y|c.739A>T|3,BUFFER|p.M153I|c.459G>C|3,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>A|21,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>C|4,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246R|c.737T>G|12,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246T|c.737T>C|8,BUFFER|p.M153R|c.458T>G|3,BUFFER|p.M246K|c.737T>A|7,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246L|c.736A>T|3,BUFFER|p.M153V|c.457A>G|7,BUFFER|p.M246V|c.736A>G|3,BUFFER|p.M246V|c.736A>G|35,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246V|c.736A>G|4,BUFFER|p.G245G|c.735C>T|5,BUFFER|p.G245D|c.734G>A|10,BUFFER|p.G245V|c.734G>T|3,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245A|c.734G>C|8,BUFFER|p.G152D|c.455G>A|23,BUFFER|p.G152V|c.455G>T|15,BUFFER|p.G245V|c.734G>T|10,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245D|c.734G>A|119,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245D|c.734G>A|7,BUFFER|p.G245V|c.734G>T|69,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245R|c.733G>C|14,BUFFER|p.G245S|c.733G>A|22,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152S|c.454G>A|56,BUFFER|p.G245C|c.733G>T|4,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245S|c.733G>A|340,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245C|c.733G>T|50,BUFFER|p.G245S|c.733G>A|39,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152C|c.454G>T|6,BUFFER|p.G152R|c.454G>C|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G151G|c.453C>T|3,BUFFER|p.G244G|c.732C>T|8,BUFFER|p.G244G|c.732C>A|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTCCGGTTC	byFrequency|byCluster	5	BLCA
GUCY2D	0	.	GRCh37	17	7917216	7917216	+	Missense_Mutation	SNP	G	G	A	rs764439180	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2282G>A	p.Arg761Gln	p.R761Q	ENST00000254854	12/20	175	159	15	117	117	0	GUCY2D,missense_variant,p.Arg761Gln,ENST00000254854,;GUCY2D,upstream_gene_variant,,ENST00000574510,;	A	ENSG00000132518	ENST00000254854	Transcript	missense_variant	2432	2282	761	R/Q	cGg/cAg	rs764439180,COSM1303499	.	.	1	GUCY2D	HGNC	4689	protein_coding	YES	CCDS11127.1	ENSP00000254854	GUC2D_HUMAN	.	UPI0000128C1C	.	tolerated(0.3)	benign(0.011)	12/20	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11920:SF228,hmmpanther:PTHR11920,Gene3D:1.10.510.10,Pfam_domain:PF07714,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGTGCGGAGCC	byFrequency	3	BLCA
DTNA	0	.	GRCh37	18	32418763	32418763	+	Intron	SNP	C	C	T	rs368913791	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1086-9497C>T	.	.	ENST00000598334	.	96	90	6	160	160	0	DTNA,synonymous_variant,p.%3D,ENST00000399113,;DTNA,synonymous_variant,p.%3D,ENST00000348997,;DTNA,synonymous_variant,p.%3D,ENST00000444659,;DTNA,synonymous_variant,p.%3D,ENST00000269190,;DTNA,synonymous_variant,p.%3D,ENST00000269191,;DTNA,synonymous_variant,p.%3D,ENST00000269192,;DTNA,intron_variant,,ENST00000598334,;DTNA,intron_variant,,ENST00000598774,;DTNA,intron_variant,,ENST00000597599,;DTNA,intron_variant,,ENST00000587723,;DTNA,intron_variant,,ENST00000597674,;DTNA,intron_variant,,ENST00000399121,;DTNA,intron_variant,,ENST00000556414,;DTNA,intron_variant,,ENST00000591182,;DTNA,intron_variant,,ENST00000596745,;DTNA,intron_variant,,ENST00000598142,;DTNA,intron_variant,,ENST00000599844,;DTNA,intron_variant,,ENST00000595022,;DTNA,intron_variant,,ENST00000601125,;DTNA,intron_variant,,ENST00000283365,;DTNA,intron_variant,,ENST00000399097,;DTNA,non_coding_transcript_exon_variant,,ENST00000601632,;DTNA,intron_variant,,ENST00000601895,;	T	ENSG00000134769	ENST00000598334	Transcript	intron_variant	.	.	.	.	.	rs368913791,COSM1646896,COSM1303712,COSM707958	.	.	1	DTNA	HGNC	3057	protein_coding	YES	CCDS59312.1	ENSP00000470152	.	M0QYX6_HUMAN,K7ERZ2_HUMAN,K7ERH7_HUMAN,K7ER73_HUMAN,K7ENJ7_HUMAN,K7EMN1_HUMAN,K7EJ84_HUMAN	UPI0001E92A2F	.	.	.	.	11/19	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCATCGGGTT	byFrequency|byCluster	2	BLCA
SMAD7	0	.	GRCh37	18	46448082	46448082	+	Missense_Mutation	SNP	C	C	T	rs766483132	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.941G>A	p.Arg314Gln	p.R314Q	ENST00000262158	4/4	86	64	22	69	69	0	SMAD7,missense_variant,p.Arg99Gln,ENST00000591805,;SMAD7,missense_variant,p.Arg99Gln,ENST00000586093,;SMAD7,missense_variant,p.Arg314Gln,ENST00000262158,;SMAD7,missense_variant,p.Arg313Gln,ENST00000589634,;SMAD7,non_coding_transcript_exon_variant,,ENST00000585986,;SMAD7,non_coding_transcript_exon_variant,,ENST00000588190,;SMAD7,non_coding_transcript_exon_variant,,ENST00000587336,;SMAD7,non_coding_transcript_exon_variant,,ENST00000545051,;	T	ENSG00000101665	ENST00000262158	Transcript	missense_variant	1228	941	314	R/Q	cGg/cAg	rs766483132,COSM1303760	.	.	-1	SMAD7	HGNC	6773	protein_coding	YES	CCDS11936.1	ENSP00000262158	SMAD7_HUMAN	K7EKF0_HUMAN	UPI0000135A83	.	deleterious(0)	probably_damaging(0.999)	4/4	.	PROSITE_profiles:PS51076,hmmpanther:PTHR13703,hmmpanther:PTHR13703:SF27,Pfam_domain:PF03166,Gene3D:2.60.200.10,SMART_domains:SM00524,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTCCGCACC	.	5	BLCA
CXXC1	0	.	GRCh37	18	47812525	47812525	+	Missense_Mutation	SNP	C	C	T	rs771983953	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326G>A	p.Arg109His	p.R109H	ENST00000412036	4/15	187	128	59	162	161	1	CXXC1,missense_variant,p.Arg109His,ENST00000586837,;CXXC1,missense_variant,p.Arg109His,ENST00000589548,;CXXC1,missense_variant,p.Arg109His,ENST00000285106,;CXXC1,missense_variant,p.Arg109His,ENST00000589940,;CXXC1,missense_variant,p.Arg109His,ENST00000412036,;CXXC1,intron_variant,,ENST00000591474,;MBD1,upstream_gene_variant,,ENST00000585595,;MBD1,upstream_gene_variant,,ENST00000590208,;MBD1,upstream_gene_variant,,ENST00000398493,;MBD1,upstream_gene_variant,,ENST00000436910,;MBD1,upstream_gene_variant,,ENST00000353909,;MBD1,upstream_gene_variant,,ENST00000349085,;MBD1,upstream_gene_variant,,ENST00000587605,;MBD1,upstream_gene_variant,,ENST00000269471,;MBD1,upstream_gene_variant,,ENST00000347968,;MBD1,upstream_gene_variant,,ENST00000269468,;MBD1,upstream_gene_variant,,ENST00000339998,;MBD1,upstream_gene_variant,,ENST00000585672,;MBD1,upstream_gene_variant,,ENST00000457839,;MBD1,upstream_gene_variant,,ENST00000382948,;MBD1,upstream_gene_variant,,ENST00000591416,;MBD1,upstream_gene_variant,,ENST00000424334,;CXXC1,downstream_gene_variant,,ENST00000587396,;CXXC1,non_coding_transcript_exon_variant,,ENST00000586365,;CXXC1,non_coding_transcript_exon_variant,,ENST00000591190,;CXXC1,non_coding_transcript_exon_variant,,ENST00000590901,;CXXC1,upstream_gene_variant,,ENST00000586568,;MBD1,upstream_gene_variant,,ENST00000589758,;CXXC1,upstream_gene_variant,,ENST00000587170,;CXXC1,upstream_gene_variant,,ENST00000586502,;CXXC1,upstream_gene_variant,,ENST00000586144,;CXXC1,upstream_gene_variant,,ENST00000587342,;MBD1,upstream_gene_variant,,ENST00000586118,;CXXC1,upstream_gene_variant,,ENST00000590234,;MBD1,upstream_gene_variant,,ENST00000589867,;CXXC1,upstream_gene_variant,,ENST00000592078,;MBD1,upstream_gene_variant,,ENST00000590215,;	T	ENSG00000154832	ENST00000412036	Transcript	missense_variant	373	326	109	R/H	cGc/cAc	rs771983953,COSM1303767	.	.	-1	CXXC1	HGNC	24343	protein_coding	YES	CCDS45866.1	ENSP00000390475	CXXC1_HUMAN	K7EJR0_HUMAN	UPI0000169F65	.	tolerated(0.11)	possibly_damaging(0.578)	4/15	.	hmmpanther:PTHR12321:SF33,hmmpanther:PTHR12321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTGCGCCCT	.	5	BLCA
DOK6	0	.	GRCh37	18	67365704	67365704	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>A	p.%3D	p.Q158Q	ENST00000382713	5/8	66	48	18	134	134	0	DOK6,synonymous_variant,p.%3D,ENST00000582992,;DOK6,synonymous_variant,p.%3D,ENST00000382713,;DOK6,non_coding_transcript_exon_variant,,ENST00000584435,;DOK6,non_coding_transcript_exon_variant,,ENST00000582172,;	A	ENSG00000206052	ENST00000382713	Transcript	synonymous_variant	664	474	158	Q	caG/caA	COSM1303832	.	.	1	DOK6	HGNC	28301	protein_coding	YES	CCDS32841.1	ENSP00000372160	DOK6_HUMAN	.	UPI000035EC7C	.	.	.	5/8	.	PROSITE_profiles:PS51064,hmmpanther:PTHR21258:SF43,hmmpanther:PTHR21258,Pfam_domain:PF02174,Gene3D:2.30.29.30,SMART_domains:SM00310,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCAGATCAC	.	5	BLCA
SMARCA4	0	.	GRCh37	19	11141426	11141426	+	Missense_Mutation	SNP	C	C	T	rs11537676	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3403C>T	p.Arg1135Trp	p.R1135W	ENST00000429416	26/36	34	29	4	32	32	0	SMARCA4,missense_variant,p.Arg1135Trp,ENST00000450717,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000358026,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000413806,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000444061,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000541122,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000590574,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000344626,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000589677,;SMARCA4,missense_variant,p.Arg1135Trp,ENST00000429416,;SMARCA4,upstream_gene_variant,,ENST00000592158,;SMARCA4,upstream_gene_variant,,ENST00000538456,;SMARCA4,non_coding_transcript_exon_variant,,ENST00000585799,;SMARCA4,non_coding_transcript_exon_variant,,ENST00000591545,;SMARCA4,non_coding_transcript_exon_variant,,ENST00000592604,;SMARCA4,non_coding_transcript_exon_variant,,ENST00000591595,;SMARCA4,upstream_gene_variant,,ENST00000586892,;	T	ENSG00000127616	ENST00000429416	Transcript	missense_variant	3684	3403	1135	R/W	Cgg/Tgg	rs11537676,COSM215751,COSM1303978	.	.	1	SMARCA4	HGNC	11100	protein_coding	YES	CCDS12253.1	ENSP00000395654	SMCA4_HUMAN	B4DSI8_HUMAN,A7E2E1_HUMAN	UPI000006F973	.	.	probably_damaging(1)	26/36	.	Superfamily_domains:SSF52540,SMART_domains:SM00490,Gene3D:3.40.50.300,Pfam_domain:PF00271,hmmpanther:PTHR10799:SF76,hmmpanther:PTHR10799,PROSITE_profiles:PS51194	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGACCGGGGC	.	4	BLCA
ANO8	0	.	GRCh37	19	17435648	17435648	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3209G>A	p.Gly1070Asp	p.G1070D	ENST00000159087	17/18	117	102	15	80	80	0	ANO8,missense_variant,p.Gly1070Asp,ENST00000159087,;DDA1,downstream_gene_variant,,ENST00000359866,;ANO8,3_prime_UTR_variant,,ENST00000597643,;DDA1,downstream_gene_variant,,ENST00000596582,;DDA1,downstream_gene_variant,,ENST00000593466,;	T	ENSG00000074855	ENST00000159087	Transcript	missense_variant	3368	3209	1070	G/D	gGc/gAc	COSM1304157	.	.	-1	ANO8	HGNC	29329	protein_coding	YES	CCDS32949.1	ENSP00000159087	ANO8_HUMAN	.	UPI00001C200F	.	tolerated_low_confidence(0.07)	unknown(0)	17/18	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCGCCCGCC	.	4	BLCA
CD22	0	.	GRCh37	19	35837577	35837577	+	Missense_Mutation	SNP	G	G	A	rs748531428	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2521G>A	p.Asp841Asn	p.D841N	ENST00000085219	14/14	23	14	8	17	17	0	CD22,missense_variant,p.Asp664Asn,ENST00000594250,;CD22,missense_variant,p.Asp753Asn,ENST00000536635,;CD22,missense_variant,p.Asp656Asn,ENST00000270311,;CD22,missense_variant,p.Asp669Asn,ENST00000419549,;CD22,missense_variant,p.Asp664Asn,ENST00000341773,;CD22,missense_variant,p.Asp841Asn,ENST00000085219,;CD22,3_prime_UTR_variant,,ENST00000544992,;FFAR1,upstream_gene_variant,,ENST00000246553,;MIR5196,downstream_gene_variant,,ENST00000578146,;CD22,downstream_gene_variant,,ENST00000598815,;CD22,3_prime_UTR_variant,,ENST00000601769,;CD22,downstream_gene_variant,,ENST00000600655,;CD22,downstream_gene_variant,,ENST00000594125,;CD22,downstream_gene_variant,,ENST00000602123,;CD22,downstream_gene_variant,,ENST00000593704,;	A	ENSG00000012124	ENST00000085219	Transcript	missense_variant	2587	2521	841	D/N	Gac/Aac	rs748531428,COSM1304441	.	.	1	CD22	HGNC	1643	protein_coding	YES	CCDS12457.1	ENSP00000085219	CD22_HUMAN	Q0EAF5_HUMAN,Q9UQB2_HUMAN,Q9UQB1_HUMAN,M0R3H1_HUMAN,M0R2M0_HUMAN,M0R1M2_HUMAN,M0QYP4_HUMAN	UPI000012733D	.	deleterious(0)	possibly_damaging(0.889)	14/14	.	hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF39	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTGGACTAT	.	5	BLCA
ZFP82	0	.	GRCh37	19	36896541	36896541	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170C>T	p.Ser57Leu	p.S57L	ENST00000392161	4/5	173	107	66	81	81	0	ZFP82,missense_variant,p.Ser57Leu,ENST00000392161,;ZFP82,intron_variant,,ENST00000392171,;ZFP82,upstream_gene_variant,,ENST00000445543,;	A	ENSG00000181007	ENST00000392161	Transcript	missense_variant	413	170	57	S/L	tCa/tTa	COSM1304471	.	.	-1	ZFP82	HGNC	28682	protein_coding	YES	CCDS12493.1	ENSP00000431265	ZFP82_HUMAN	D3Y299_HUMAN	UPI0000071159	.	tolerated(1)	benign(0)	4/5	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF252,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAATGAGGAA	.	5	BLCA
ZNF529	0	.	GRCh37	19	37037947	37037947	+	Missense_Mutation	SNP	G	G	A	rs757025877	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1513C>T	p.Pro505Ser	p.P505S	ENST00000591340	5/5	25	21	4	59	59	0	ZNF529,missense_variant,p.Pro505Ser,ENST00000591340,;ZNF529,missense_variant,p.Pro400Ser,ENST00000334116,;ZNF529,intron_variant,,ENST00000590656,;ZNF529,intron_variant,,ENST00000452073,;ZNF529,downstream_gene_variant,,ENST00000586115,;ZNF529,downstream_gene_variant,,ENST00000585960,;ZNF529,downstream_gene_variant,,ENST00000585983,;	A	ENSG00000186020	ENST00000591340	Transcript	missense_variant	1672	1513	505	P/S	Ccc/Tcc	rs757025877,COSM1304472,COSM1304473	.	.	-1	ZNF529	HGNC	29328	protein_coding	YES	CCDS54256.1	ENSP00000465578	ZN529_HUMAN	K7ESA1_HUMAN,K7ELR0_HUMAN,K7EKM0_HUMAN	UPI00002021C4	.	deleterious(0.04)	probably_damaging(0.997)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF123,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAGGGTTTTT	byFrequency	4	BLCA
IRF2BP1	0	.	GRCh37	19	46388156	46388157	+	Frame_Shift_Ins	INS	-	-	CA	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.875_876dupTG	p.Ala293TrpfsTer104	p.A293Wfs*104	ENST00000302165	1/1	99	91	8	59	59	0	IRF2BP1,frameshift_variant,p.Ala293TrpfsTer104,ENST00000302165,;	CA	ENSG00000170604	ENST00000302165	Transcript	frameshift_variant	1220-1221	876-877	292-293	-/X	-/TG	.	.	.	-1	IRF2BP1	HGNC	21728	protein_coding	YES	CCDS12678.1	ENSP00000307265	I2BP1_HUMAN	.	UPI00000747C7	.	.	.	1/1	.	hmmpanther:PTHR10816:SF17,hmmpanther:PTHR10816	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	GCGAGCCACTG	.	2	BLCA
PRKD2	0	.	GRCh37	19	47194989	47194989	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1702+3G>A	.	.	ENST00000433867	.	159	143	16	175	175	0	PRKD2,splice_region_variant,,ENST00000595515,;PRKD2,splice_region_variant,,ENST00000600194,;PRKD2,splice_region_variant,,ENST00000601806,;PRKD2,splice_region_variant,,ENST00000433867,;PRKD2,splice_region_variant,,ENST00000291281,;RN7SL364P,upstream_gene_variant,,ENST00000473668,;PRKD2,splice_region_variant,,ENST00000597390,;PRKD2,splice_region_variant,,ENST00000599464,;PRKD2,splice_region_variant,,ENST00000597589,;PRKD2,splice_region_variant,,ENST00000599019,;PRKD2,upstream_gene_variant,,ENST00000602155,;	T	ENSG00000105287	ENST00000433867	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	PRKD2	HGNC	17293	protein_coding	YES	CCDS12689.1	ENSP00000393978	KPCD2_HUMAN	M0R346_HUMAN,M0R2R2_HUMAN,M0R012_HUMAN	UPI000013E03A	.	.	.	.	13/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GTCCTCACCTC	.	3	BLCA
RUVBL2	0	.	GRCh37	19	49497147	49497147	+	5'UTR	SNP	A	A	C	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-22A>C	.	.	ENST00000595090	1/15	57	46	11	66	66	0	RUVBL2,5_prime_UTR_variant,,ENST00000596837,;RUVBL2,5_prime_UTR_variant,,ENST00000595090,;RUVBL2,5_prime_UTR_variant,,ENST00000601968,;GYS1,upstream_gene_variant,,ENST00000540532,;GYS1,upstream_gene_variant,,ENST00000263276,;GYS1,upstream_gene_variant,,ENST00000541188,;RUVBL2,upstream_gene_variant,,ENST00000413176,;GYS1,upstream_gene_variant,,ENST00000544287,;GYS1,upstream_gene_variant,,ENST00000323798,;GYS1,upstream_gene_variant,,ENST00000457974,;RUVBL2,upstream_gene_variant,,ENST00000598768,;RUVBL2,5_prime_UTR_variant,,ENST00000595811,;RUVBL2,non_coding_transcript_exon_variant,,ENST00000594017,;RUVBL2,upstream_gene_variant,,ENST00000596247,;RUVBL2,upstream_gene_variant,,ENST00000221413,;RUVBL2,upstream_gene_variant,,ENST00000593570,;	C	ENSG00000183207	ENST00000595090	Transcript	5_prime_UTR_variant	443	.	.	.	.	.	.	.	1	RUVBL2	HGNC	10475	protein_coding	YES	CCDS42588.1	ENSP00000473172	RUVB2_HUMAN	M0QXI6_HUMAN,B3KQ59_HUMAN	UPI0000044738	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTAGGACTCTG	.	3	BLCA
SIGLEC12	0	.	GRCh37	19	52002805	52002805	+	Missense_Mutation	SNP	G	G	A	rs149053840	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.974C>T	p.Ser325Leu	p.S325L	ENST00000291707	3/8	107	95	11	72	72	0	SIGLEC12,missense_variant,p.Ser325Leu,ENST00000291707,;SIGLEC12,missense_variant,p.Ser207Leu,ENST00000598614,;SIGLEC12,3_prime_UTR_variant,,ENST00000596742,;	A	ENSG00000254521	ENST00000291707	Transcript	missense_variant	1030	974	325	S/L	tCg/tTg	rs149053840,COSM1000060	.	.	-1	SIGLEC12	HGNC	15482	protein_coding	YES	CCDS12833.1	ENSP00000291707	SIG12_HUMAN	.	UPI0000135992	.	deleterious(0.02)	probably_damaging(0.972)	3/8	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Pfam_domain:PF08205,Gene3D:2.60.40.10,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF43,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCATCGAGGAG	.	4	BLCA
LILRA2	0	.	GRCh37	19	55098822	55098822	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*9G>C	.	.	ENST00000251377	9/9	123	90	33	37	37	0	LILRA2,3_prime_UTR_variant,,ENST00000251376,;LILRA2,3_prime_UTR_variant,,ENST00000391738,;LILRA2,3_prime_UTR_variant,,ENST00000391737,;LILRA2,3_prime_UTR_variant,,ENST00000251377,;LILRB1,intron_variant,,ENST00000418536,;LILRB1,intron_variant,,ENST00000448689,;LILRB1,intron_variant,,ENST00000396321,;CTB-83J4.2,upstream_gene_variant,,ENST00000596330,;LILRA2,non_coding_transcript_exon_variant,,ENST00000472992,;	C	ENSG00000239998	ENST00000251377	Transcript	3_prime_UTR_variant	1594	.	.	.	.	.	.	.	1	LILRA2	HGNC	6603	protein_coding	YES	CCDS46179.1	ENSP00000251377	LIRA2_HUMAN	E9PDF4_HUMAN	UPI0000034C01	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCAGAGAGGAC	.	3	BLCA
ZNF471	0	.	GRCh37	19	57035702	57035702	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.266C>T	p.Ser89Phe	p.S89F	ENST00000308031	5/5	95	80	14	82	82	0	ZNF471,missense_variant,p.Ser89Phe,ENST00000308031,;ZNF471,intron_variant,,ENST00000591537,;ZNF471,intron_variant,,ENST00000593197,;	T	ENSG00000196263	ENST00000308031	Transcript	missense_variant	399	266	89	S/F	tCt/tTt	COSM1305164	.	.	1	ZNF471	HGNC	23226	protein_coding	YES	CCDS12945.1	ENSP00000309161	ZN471_HUMAN	K7EPX1_HUMAN	UPI0000073465	.	tolerated(0.2)	probably_damaging(0.962)	5/5	.	hmmpanther:PTHR24377:SF212,hmmpanther:PTHR24377	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATCTATAT	.	5	BLCA
ZNF586	0	.	GRCh37	19	58290574	58290574	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619G>C	p.Glu207Gln	p.E207Q	ENST00000396154	3/3	166	159	7	130	130	0	ZNF586,missense_variant,p.Met164Ile,ENST00000396150,;ZNF586,missense_variant,p.Glu164Gln,ENST00000391702,;ZNF586,missense_variant,p.Glu207Gln,ENST00000396154,;ZNF586,intron_variant,,ENST00000598183,;ZNF586,intron_variant,,ENST00000599802,;ZNF586,intron_variant,,ENST00000598885,;	C	ENSG00000083828	ENST00000396154	Transcript	missense_variant	792	619	207	E/Q	Gaa/Caa	COSM1305214	.	.	1	ZNF586	HGNC	25949	protein_coding	YES	CCDS42640.1	ENSP00000379458	ZN586_HUMAN	.	UPI0000202D48	.	deleterious(0.01)	possibly_damaging(0.566)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24387:SF34,hmmpanther:PTHR24387,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTATGAATGC	.	2	BLCA
ZNF586	0	.	GRCh37	19	58290633	58290633	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678G>C	p.Arg226Ser	p.R226S	ENST00000396154	3/3	184	173	11	154	154	0	ZNF586,missense_variant,p.Gly184Ala,ENST00000396150,;ZNF586,missense_variant,p.Arg183Ser,ENST00000391702,;ZNF586,missense_variant,p.Arg226Ser,ENST00000396154,;ZNF586,intron_variant,,ENST00000598183,;ZNF586,intron_variant,,ENST00000599802,;ZNF586,intron_variant,,ENST00000598885,;	C	ENSG00000083828	ENST00000396154	Transcript	missense_variant	851	678	226	R/S	agG/agC	COSM1305215	.	.	1	ZNF586	HGNC	25949	protein_coding	YES	CCDS42640.1	ENSP00000379458	ZN586_HUMAN	.	UPI0000202D48	.	tolerated(0.07)	probably_damaging(0.92)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24387:SF34,hmmpanther:PTHR24387,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAGGATTCA	.	2	BLCA
OTUD7B	0	.	GRCh37	1	149943009	149943009	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256C>T	p.Gln86Ter	p.Q86*	ENST00000369135	3/12	141	131	9	146	146	0	OTUD7B,stop_gained,p.Gln86Ter,ENST00000417191,;OTUD7B,stop_gained,p.Gln86Ter,ENST00000369135,;OTUD7B,non_coding_transcript_exon_variant,,ENST00000479905,;	A	ENSG00000163113	ENST00000369135	Transcript	stop_gained	551	256	86	Q/*	Cag/Tag	.	.	.	-1	OTUD7B	HGNC	16683	protein_coding	YES	CCDS41389.1	ENSP00000358131	OTU7B_HUMAN	Q5SZ59_HUMAN	UPI000020415D	.	.	.	3/12	.	hmmpanther:PTHR13367,hmmpanther:PTHR13367:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCCTGCCGCT	.	2	BLCA
TRIM46	0	.	GRCh37	1	155154564	155154564	+	Missense_Mutation	SNP	G	G	A	rs753412148	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1825G>A	p.Val609Ile	p.V609I	ENST00000334634	9/10	55	41	14	45	45	0	TRIM46,missense_variant,p.Val586Ile,ENST00000368382,;TRIM46,missense_variant,p.Val609Ile,ENST00000334634,;TRIM46,missense_variant,p.Val609Ile,ENST00000368383,;TRIM46,missense_variant,p.Val483Ile,ENST00000545012,;TRIM46,3_prime_UTR_variant,,ENST00000392451,;RP11-201K10.3,intron_variant,,ENST00000473363,;MUC1,downstream_gene_variant,,ENST00000368393,;TRIM46,downstream_gene_variant,,ENST00000543729,;MUC1,downstream_gene_variant,,ENST00000337604,;MUC1,downstream_gene_variant,,ENST00000457295,;MUC1,downstream_gene_variant,,ENST00000368392,;MUC1,downstream_gene_variant,,ENST00000338684,;MUC1,downstream_gene_variant,,ENST00000368395,;MUC1,downstream_gene_variant,,ENST00000438413,;MUC1,downstream_gene_variant,,ENST00000368389,;MUC1,downstream_gene_variant,,ENST00000368398,;MUC1,downstream_gene_variant,,ENST00000342482,;TRIM46,downstream_gene_variant,,ENST00000368385,;MUC1,downstream_gene_variant,,ENST00000343256,;MUC1,downstream_gene_variant,,ENST00000368390,;MUC1,downstream_gene_variant,,ENST00000368396,;TRIM46,non_coding_transcript_exon_variant,,ENST00000474430,;TRIM46,non_coding_transcript_exon_variant,,ENST00000468878,;MUC1,downstream_gene_variant,,ENST00000498431,;MUC1,downstream_gene_variant,,ENST00000468978,;MUC1,downstream_gene_variant,,ENST00000462215,;MUC1,downstream_gene_variant,,ENST00000471283,;MUC1,downstream_gene_variant,,ENST00000462317,;MUC1,downstream_gene_variant,,ENST00000467134,;TRIM46,downstream_gene_variant,,ENST00000464760,;MUC1,downstream_gene_variant,,ENST00000485118,;	A	ENSG00000163462	ENST00000334634	Transcript	missense_variant	1825	1825	609	V/I	Gtc/Atc	rs753412148,COSM1230343	.	.	1	TRIM46	HGNC	19019	protein_coding	YES	CCDS1097.1	ENSP00000334657	TRI46_HUMAN	F5GYK0_HUMAN	UPI000022B316	.	tolerated(0.08)	probably_damaging(0.99)	9/10	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF27,hmmpanther:PTHR24103,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.V609I|c.1825G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGCGTCGGG	byFrequency	5	BLCA
NR1I3	0	.	GRCh37	1	161200969	161200969	+	Missense_Mutation	SNP	C	C	T	rs753430504	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.761G>A	p.Arg254Gln	p.R254Q	ENST00000367980	7/9	48	30	18	39	39	0	NR1I3,missense_variant,p.Arg221Gln,ENST00000511676,;NR1I3,missense_variant,p.Arg221Gln,ENST00000367981,;NR1I3,missense_variant,p.Arg175Gln,ENST00000515621,;NR1I3,missense_variant,p.Arg221Gln,ENST00000506209,;NR1I3,missense_variant,p.Arg254Gln,ENST00000367979,;NR1I3,missense_variant,p.Arg221Gln,ENST00000508740,;NR1I3,missense_variant,p.Arg250Gln,ENST00000367983,;NR1I3,missense_variant,p.Arg254Gln,ENST00000442691,;NR1I3,missense_variant,p.Arg225Gln,ENST00000412844,;NR1I3,missense_variant,p.Arg250Gln,ENST00000428574,;NR1I3,missense_variant,p.Arg254Gln,ENST00000367982,;NR1I3,missense_variant,p.Arg254Gln,ENST00000367980,;NR1I3,missense_variant,p.Arg221Gln,ENST00000437437,;NR1I3,3_prime_UTR_variant,,ENST00000515452,;NR1I3,intron_variant,,ENST00000512372,;NR1I3,intron_variant,,ENST00000367985,;NR1I3,intron_variant,,ENST00000367984,;NR1I3,intron_variant,,ENST00000502985,;NR1I3,intron_variant,,ENST00000511944,;NR1I3,intron_variant,,ENST00000504010,;NR1I3,intron_variant,,ENST00000511748,;NR1I3,intron_variant,,ENST00000505005,;NR1I3,intron_variant,,ENST00000508387,;TOMM40L,downstream_gene_variant,,ENST00000545897,;TOMM40L,downstream_gene_variant,,ENST00000367987,;TOMM40L,downstream_gene_variant,,ENST00000367988,;MIR5187,downstream_gene_variant,,ENST00000583479,;NR1I3,non_coding_transcript_exon_variant,,ENST00000464422,;NR1I3,non_coding_transcript_exon_variant,,ENST00000479324,;NR1I3,intron_variant,,ENST00000488651,;TOMM40L,downstream_gene_variant,,ENST00000474486,;TOMM40L,downstream_gene_variant,,ENST00000470426,;NR1I3,downstream_gene_variant,,ENST00000503547,;TOMM40L,downstream_gene_variant,,ENST00000468803,;TOMM40L,downstream_gene_variant,,ENST00000492482,;TOMM40L,downstream_gene_variant,,ENST00000465512,;TOMM40L,downstream_gene_variant,,ENST00000475793,;NR1I3,missense_variant,p.Arg225Gln,ENST00000506018,;NR1I3,3_prime_UTR_variant,,ENST00000512340,;NR1I3,non_coding_transcript_exon_variant,,ENST00000505944,;NR1I3,intron_variant,,ENST00000510951,;NR1I3,intron_variant,,ENST00000502848,;NR1I3,intron_variant,,ENST00000507215,;NR1I3,downstream_gene_variant,,ENST00000491193,;	T	ENSG00000143257	ENST00000367980	Transcript	missense_variant	964	761	254	R/Q	cGa/cAa	rs753430504,COSM1295358,COSM3477241,COSM1295359	.	.	-1	NR1I3	HGNC	7969	protein_coding	YES	CCDS41429.1	ENSP00000356959	NR1I3_HUMAN	F1DAL4_HUMAN	UPI00003E7F93	.	deleterious(0)	benign(0.366)	7/9	.	Superfamily_domains:SSF48508,SMART_domains:SM00430,Pfam_domain:PF00104,Gene3D:1.10.565.10,hmmpanther:PTHR24082,hmmpanther:PTHR24082:SF231	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCGTAGT	byFrequency	5	BLCA
PRRC2C	0	.	GRCh37	1	171484973	171484973	+	Silent	SNP	A	A	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495A>G	p.%3D	p.G165G	ENST00000338920	5/34	54	45	9	54	54	0	PRRC2C,synonymous_variant,p.%3D,ENST00000338920,;PRRC2C,synonymous_variant,p.%3D,ENST00000367742,;PRRC2C,synonymous_variant,p.%3D,ENST00000426496,;PRRC2C,synonymous_variant,p.%3D,ENST00000392078,;RNU6-773P,downstream_gene_variant,,ENST00000364256,;PRRC2C,non_coding_transcript_exon_variant,,ENST00000476522,;PRRC2C,non_coding_transcript_exon_variant,,ENST00000467601,;PRRC2C,downstream_gene_variant,,ENST00000463586,;	G	ENSG00000117523	ENST00000338920	Transcript	synonymous_variant	732	495	165	G	ggA/ggG	COSM1295481,COSM1295482	.	.	1	PRRC2C	HGNC	24903	protein_coding	YES	CCDS1296.2	ENSP00000343629	PRC2C_HUMAN	.	UPI0000E265EC	.	.	.	5/34	.	hmmpanther:PTHR14038:SF6,hmmpanther:PTHR14038	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGGACCTGG	.	5	BLCA
HMCN1	0	.	GRCh37	1	185953314	185953314	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2804C>T	p.Pro935Leu	p.P935L	ENST00000271588	19/107	57	47	9	65	65	0	HMCN1,missense_variant,p.Pro935Leu,ENST00000367492,;HMCN1,missense_variant,p.Pro935Leu,ENST00000271588,;HMCN1,non_coding_transcript_exon_variant,,ENST00000485744,;	T	ENSG00000143341	ENST00000271588	Transcript	missense_variant	3033	2804	935	P/L	cCt/cTt	COSM1295594	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	benign(0.285)	19/107	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATCCTTACA	.	5	BLCA
KCNH1	0	.	GRCh37	1	210856624	210856624	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2969G>A	p.%3D	p.%3D	ENST00000271751	11/11	200	189	11	238	238	0	KCNH1,stop_retained_variant,p.%3D,ENST00000367007,;KCNH1,stop_retained_variant,p.%3D,ENST00000271751,;	T	ENSG00000143473	ENST00000271751	Transcript	stop_retained_variant	2997	2969	990	*	tGa/tAa	COSM1295823	.	.	-1	KCNH1	HGNC	6250	protein_coding	YES	CCDS1496.1	ENSP00000271751	KCNH1_HUMAN	.	UPI000003230D	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTCAGCTG	.	2	BLCA
FAM71A	0	.	GRCh37	1	212798487	212798487	+	Nonsense_Mutation	SNP	C	C	T	rs141642686	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>T	p.Arg90Ter	p.R90*	ENST00000294829	1/1	80	72	8	74	73	1	FAM71A,stop_gained,p.Arg90Ter,ENST00000294829,;ATF3,downstream_gene_variant,,ENST00000341491,;ATF3,downstream_gene_variant,,ENST00000366987,;RP11-338C15.5,intron_variant,,ENST00000427949,;ATF3,downstream_gene_variant,,ENST00000492118,;	T	ENSG00000162771	ENST00000294829	Transcript	stop_gained	699	268	90	R/*	Cga/Tga	rs141642686,COSM1295847	.	.	1	FAM71A	HGNC	26541	protein_coding	YES	CCDS1507.1	ENSP00000294829	FA71A_HUMAN	.	UPI000013E1C2	.	.	.	1/1	.	hmmpanther:PTHR22574:SF9,hmmpanther:PTHR22574	T:0.0016	T:0.0061	T:0	.	T:0	T:0	T:0	T:0.0036	T:0	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCACGACCG	byFrequency|byCluster|by1000G	4	BLCA
HHIPL2	0	.	GRCh37	1	222713516	222713516	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1286G>A	p.Gly429Glu	p.G429E	ENST00000343410	4/9	109	102	7	84	84	0	HHIPL2,missense_variant,p.Gly429Glu,ENST00000343410,;HHIPL2,upstream_gene_variant,,ENST00000494899,;HHIPL2,upstream_gene_variant,,ENST00000468172,;	T	ENSG00000143512	ENST00000343410	Transcript	missense_variant	1345	1286	429	G/E	gGg/gAg	COSM1295905	.	.	-1	HHIPL2	HGNC	25842	protein_coding	YES	CCDS1530.2	ENSP00000342118	HIPL2_HUMAN	.	UPI000004C60D	.	deleterious(0)	probably_damaging(1)	4/9	.	Superfamily_domains:0046203,Pfam_domain:PF07995,Gene3D:2.120.10.30,hmmpanther:PTHR19328:SF31,hmmpanther:PTHR19328	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCCCCTCGG	.	2	BLCA
HEATR1	0	.	GRCh37	1	236719149	236719149	+	Missense_Mutation	SNP	C	C	T	rs375609616	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5605G>A	p.Ala1869Thr	p.A1869T	ENST00000366582	39/45	112	102	10	99	99	0	HEATR1,missense_variant,p.Ala1788Thr,ENST00000366581,;HEATR1,missense_variant,p.Ala1869Thr,ENST00000366582,;LGALS8,downstream_gene_variant,,ENST00000526589,;LGALS8,downstream_gene_variant,,ENST00000366584,;	T	ENSG00000119285	ENST00000366582	Transcript	missense_variant	5720	5605	1869	A/T	Gcc/Acc	rs375609616	.	.	-1	HEATR1	HGNC	25517	protein_coding	YES	CCDS31066.1	ENSP00000355541	HEAT1_HUMAN	Q6P664_HUMAN	UPI000013D4D4	.	tolerated(0.97)	benign(0.002)	39/45	.	Superfamily_domains:SSF48371,SMART_domains:SM01036,Pfam_domain:PF08146,hmmpanther:PTHR13457:SF1,hmmpanther:PTHR13457	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	AAAGGCGGTTA	byFrequency|byCluster	2	BLCA
RYR2	0	.	GRCh37	1	237787085	237787085	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5937T>G	p.Phe1979Leu	p.F1979L	ENST00000366574	39/105	31	28	3	60	60	0	RYR2,missense_variant,p.Phe1963Leu,ENST00000542537,;RYR2,missense_variant,p.Phe1979Leu,ENST00000366574,;RYR2,missense_variant,p.Phe1977Leu,ENST00000360064,;	G	ENSG00000198626	ENST00000366574	Transcript	missense_variant	6254	5937	1979	F/L	ttT/ttG	COSM1296055	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	benign(0.021)	39/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATTTTAAGGA	.	2	BLCA
ARID1A	0	.	GRCh37	1	27057789	27057790	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1498dupT	p.Tyr500LeufsTer123	p.Y500Lfs*123	ENST00000324856	3/20	727	486	241	544	544	0	ARID1A,frameshift_variant,p.Tyr117LeufsTer?,ENST00000524572,;ARID1A,frameshift_variant,p.Tyr500LeufsTer123,ENST00000457599,;ARID1A,frameshift_variant,p.Tyr117LeufsTer123,ENST00000374152,;ARID1A,frameshift_variant,p.Tyr500LeufsTer123,ENST00000324856,;	T	ENSG00000117713	ENST00000324856	Transcript	frameshift_variant	1868-1869	1497-1498	499-500	-/X	-/T	.	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	.	3/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12656,hmmpanther:PTHR12656:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTTCGTATCA	.	3	BLCA
DMRTB1	0	.	GRCh37	1	53927213	53927213	+	Missense_Mutation	SNP	C	C	A	rs779531981	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645C>A	p.His215Gln	p.H215Q	ENST00000371445	2/4	166	150	16	129	129	0	DMRTB1,missense_variant,p.His215Gln,ENST00000371445,;DMRTB1,non_coding_transcript_exon_variant,,ENST00000463126,;	A	ENSG00000143006	ENST00000371445	Transcript	missense_variant	700	645	215	H/Q	caC/caA	rs779531981,COSM1296576	.	.	1	DMRTB1	HGNC	13913	protein_coding	YES	CCDS581.1	ENSP00000360500	DMRTB_HUMAN	I6L9A0_HUMAN	UPI000006FF4C	.	tolerated(0.05)	possibly_damaging(0.467)	2/4	.	hmmpanther:PTHR12322,hmmpanther:PTHR12322:SF18	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGCACCCCTA	.	3	BLCA
ACOT11	0	.	GRCh37	1	55060253	55060253	+	Missense_Mutation	SNP	C	C	T	rs368123410	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.496C>T	p.Arg166Trp	p.R166W	ENST00000371316	6/17	55	50	4	39	39	0	ACOT11,missense_variant,p.Arg166Trp,ENST00000371316,;ACOT11,missense_variant,p.Arg166Trp,ENST00000343744,;ACOT11,non_coding_transcript_exon_variant,,ENST00000498228,;ACOT11,non_coding_transcript_exon_variant,,ENST00000481208,;ACOT11,upstream_gene_variant,,ENST00000479837,;	T	ENSG00000162390	ENST00000371316	Transcript	missense_variant	578	496	166	R/W	Cgg/Tgg	rs368123410,COSM1296588,COSM1296587	.	.	1	ACOT11	HGNC	18156	protein_coding	YES	CCDS592.1	ENSP00000360366	ACO11_HUMAN	.	UPI0000136D55	.	tolerated(0.09)	possibly_damaging(0.489)	6/17	.	hmmpanther:PTHR11049,hmmpanther:PTHR11049:SF1,Gene3D:3.10.129.10,Superfamily_domains:SSF54637	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCGCGGACA	byFrequency|byCluster	2	BLCA
NOL9	0	.	GRCh37	1	6585956	6585956	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2067G>A	p.%3D	p.E689E	ENST00000377705	12/12	95	86	8	154	154	0	NOL9,synonymous_variant,p.%3D,ENST00000377705,;	T	ENSG00000162408	ENST00000377705	Transcript	synonymous_variant	2100	2067	689	E	gaG/gaA	COSM1296647	.	.	-1	NOL9	HGNC	26265	protein_coding	YES	CCDS80.1	ENSP00000366934	NOL9_HUMAN	.	UPI00003664C8	.	.	.	12/12	.	hmmpanther:PTHR12755:SF3,hmmpanther:PTHR12755	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGTTTCTCTTT	.	3	BLCA
KIF16B	0	.	GRCh37	20	16359928	16359928	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2719C>T	p.Arg907Cys	p.R907C	ENST00000408042	19/23	72	67	5	87	87	0	KIF16B,missense_variant,p.Arg133Cys,ENST00000378003,;KIF16B,missense_variant,p.Arg907Cys,ENST00000408042,;KIF16B,missense_variant,p.Arg907Cys,ENST00000354981,;KIF16B,missense_variant,p.Arg907Cys,ENST00000355755,;KIF16B,downstream_gene_variant,,ENST00000450176,;	A	ENSG00000089177	ENST00000408042	Transcript	missense_variant	2877	2719	907	R/C	Cgc/Tgc	COSM1307167,COSM1307166	.	.	-1	KIF16B	HGNC	15869	protein_coding	YES	CCDS56178.1	ENSP00000384164	KI16B_HUMAN	.	UPI00003BF77C	.	deleterious_low_confidence(0.03)	benign(0.105)	19/23	.	hmmpanther:PTHR24115:SF400,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGCGTTCTT	.	2	BLCA
ASXL1	0	.	GRCh37	20	31021631	31021631	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1630G>A	p.Asp544Asn	p.D544N	ENST00000375687	12/13	229	216	13	137	137	0	ASXL1,missense_variant,p.Asp544Asn,ENST00000375687,;ASXL1,missense_variant,p.Asp539Asn,ENST00000306058,;ASXL1,downstream_gene_variant,,ENST00000553345,;ASXL1,downstream_gene_variant,,ENST00000470145,;ASXL1,downstream_gene_variant,,ENST00000555564,;	A	ENSG00000171456	ENST00000375687	Transcript	missense_variant	2054	1630	544	D/N	Gat/Aat	COSM1307275	.	.	1	ASXL1	HGNC	18318	protein_coding	YES	CCDS13201.1	ENSP00000364839	ASXL1_HUMAN	.	UPI000036702C	.	deleterious(0.02)	probably_damaging(0.998)	12/13	.	hmmpanther:PTHR13578,hmmpanther:PTHR13578:SF19	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TTGAAGATCGT	.	2	BLCA
ZNFX1	0	.	GRCh37	20	47863986	47863986	+	Missense_Mutation	SNP	C	C	T	rs764553505	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5575G>A	p.Asp1859Asn	p.D1859N	ENST00000396105	14/14	177	122	54	123	123	0	ZNFX1,missense_variant,p.Asp1859Asn,ENST00000371752,;ZNFX1,missense_variant,p.Asp1859Asn,ENST00000396105,;ZNFX1,intron_variant,,ENST00000371754,;DDX27,downstream_gene_variant,,ENST00000371764,;DDX27,downstream_gene_variant,,ENST00000471144,;DDX27,downstream_gene_variant,,ENST00000484427,;ZNFX1,upstream_gene_variant,,ENST00000469991,;	T	ENSG00000124201	ENST00000396105	Transcript	missense_variant	5822	5575	1859	D/N	Gat/Aat	rs764553505,COSM1307506,COSM1307505	.	.	-1	ZNFX1	HGNC	29271	protein_coding	YES	CCDS13417.1	ENSP00000379412	ZNFX1_HUMAN	Q5JXR5_HUMAN	UPI000012DD83	.	tolerated(0.18)	benign(0.006)	14/14	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCGCCAA	.	5	BLCA
NCAM2	0	.	GRCh37	21	22696785	22696785	+	Silent	SNP	C	C	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702C>A	p.%3D	p.A234A	ENST00000400546	6/18	118	110	7	111	111	0	NCAM2,synonymous_variant,p.%3D,ENST00000400546,;NCAM2,synonymous_variant,p.%3D,ENST00000284894,;NCAM2,synonymous_variant,p.%3D,ENST00000535285,;NCAM2,non_coding_transcript_exon_variant,,ENST00000461281,;	A	ENSG00000154654	ENST00000400546	Transcript	synonymous_variant	951	702	234	A	gcC/gcA	COSM1307688	.	.	1	NCAM2	HGNC	7657	protein_coding	YES	CCDS42910.1	ENSP00000383392	NCAM2_HUMAN	D3DSC5_HUMAN	UPI00001A3703	.	.	.	6/18	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489:SF35,hmmpanther:PTHR10489,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGCCTCAGG	.	2	BLCA
PRR5	0	.	GRCh37	22	45130923	45130923	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.641G>A	p.Arg214Lys	p.R214K	ENST00000403581	9/10	69	62	7	42	42	0	PRR5,missense_variant,p.Arg214Lys,ENST00000403581,;PRR5-ARHGAP8,missense_variant,p.Arg191Lys,ENST00000352766,;PRR5,missense_variant,p.Arg182Lys,ENST00000457960,;PRR5,missense_variant,p.Arg182Lys,ENST00000432186,;PRR5,missense_variant,p.Arg191Lys,ENST00000336985,;PRR5,missense_variant,p.Arg151Lys,ENST00000455389,;PRR5,missense_variant,p.Arg182Lys,ENST00000006251,;ARHGAP8,missense_variant,p.Arg191Lys,ENST00000517296,;PRR5-ARHGAP8,intron_variant,,ENST00000515632,;ARHGAP8,intron_variant,,ENST00000389773,;PRR5-ARHGAP8,intron_variant,,ENST00000361473,;PRR5,downstream_gene_variant,,ENST00000403696,;PRR5,non_coding_transcript_exon_variant,,ENST00000492475,;PRR5,non_coding_transcript_exon_variant,,ENST00000477331,;PRR5,downstream_gene_variant,,ENST00000492289,;PRR5,3_prime_UTR_variant,,ENST00000431834,;PRR5,non_coding_transcript_exon_variant,,ENST00000475850,;PRR5,non_coding_transcript_exon_variant,,ENST00000495017,;PRR5-ARHGAP8,intron_variant,,ENST00000495250,;PRR5,intron_variant,,ENST00000432916,;	A	ENSG00000186654	ENST00000403581	Transcript	missense_variant	1250	641	214	R/K	aGg/aAg	COSM1308251,COSM1308250,COSM1308252	.	.	1	PRR5	HGNC	31682	protein_coding	YES	CCDS56232.1	ENSP00000384848	PRR5_HUMAN	B1AHG4_HUMAN,B1AHG3_HUMAN	UPI00002327F8	.	tolerated(0.98)	benign(0.004)	9/10	.	hmmpanther:PTHR32428,hmmpanther:PTHR32428:SF4	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCCAGGGGCG	.	4	BLCA
SLC4A10	0	.	GRCh37	2	162820755	162820755	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2973G>A	p.Met991Ile	p.M991I	ENST00000446997	22/27	28	24	3	39	39	0	SLC4A10,missense_variant,p.Met991Ile,ENST00000446997,;SLC4A10,missense_variant,p.Met991Ile,ENST00000421911,;SLC4A10,missense_variant,p.Met961Ile,ENST00000272716,;SLC4A10,missense_variant,p.Met972Ile,ENST00000375514,;SLC4A10,missense_variant,p.Met961Ile,ENST00000415876,;SLC4A10,3_prime_UTR_variant,,ENST00000446228,;	A	ENSG00000144290	ENST00000446997	Transcript	missense_variant	3066	2973	991	M/I	atG/atA	COSM1305759,COSM1305758	.	.	1	SLC4A10	HGNC	13811	protein_coding	YES	CCDS54411.1	ENSP00000393066	S4A10_HUMAN	.	UPI00001D4707	.	tolerated(0.39)	benign(0)	22/27	.	hmmpanther:PTHR11453:SF32,hmmpanther:PTHR11453,TIGRFAM_domain:TIGR00834	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGATGAGTTG	.	4	BLCA
TTN	0	.	GRCh37	2	179408943	179408943	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96013C>A	p.Pro32005Thr	p.P32005T	ENST00000589042	345/363	63	56	7	72	72	0	TTN,missense_variant,p.Pro23065Thr,ENST00000359218,;TTN,missense_variant,p.Pro30364Thr,ENST00000591111,;TTN,missense_variant,p.Pro32005Thr,ENST00000589042,;TTN,missense_variant,p.Pro23132Thr,ENST00000342175,;TTN,missense_variant,p.Pro29437Thr,ENST00000342992,;TTN,missense_variant,p.Pro22940Thr,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;TTN-AS1,downstream_gene_variant,,ENST00000589434,;RP11-65L3.2,upstream_gene_variant,,ENST00000603415,;RP11-65L3.4,downstream_gene_variant,,ENST00000604692,;TTN-AS1,downstream_gene_variant,,ENST00000590040,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	96238	96013	32005	P/T	Ccc/Acc	COSM1305923,COSM1305922,COSM1305919,COSM1305921,COSM1305920	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	345/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACGGGCTCAA	.	4	BLCA
TTN	0	.	GRCh37	2	179591911	179591911	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20181G>A	p.Met6727Ile	p.M6727I	ENST00000589042	69/363	87	82	5	92	92	0	TTN,missense_variant,p.Met5483Ile,ENST00000342992,;TTN,missense_variant,p.Met6410Ile,ENST00000591111,;TTN,missense_variant,p.Met6727Ile,ENST00000589042,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000585451,;RP11-171I2.1,downstream_gene_variant,,ENST00000590024,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	20406	20181	6727	M/I	atG/atA	COSM1306147	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	69/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00406,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGTTCATCTG	.	2	BLCA
ZNF804A	0	.	GRCh37	2	185801399	185801399	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1276G>T	p.Val426Leu	p.V426L	ENST00000302277	4/4	112	96	16	189	189	0	ZNF804A,missense_variant,p.Val426Leu,ENST00000302277,;	T	ENSG00000170396	ENST00000302277	Transcript	missense_variant	1870	1276	426	V/L	Gta/Tta	COSM316917,COSM1306212	.	.	1	ZNF804A	HGNC	21711	protein_coding	YES	CCDS2291.1	ENSP00000303252	Z804A_HUMAN	.	UPI00001B4B18	.	deleterious(0.01)	benign(0.06)	4/4	.	hmmpanther:PTHR17614:SF13,hmmpanther:PTHR17614	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATTTGTACCT	.	4	BLCA
ZNF142	0	.	GRCh37	2	219514052	219514052	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579C>T	p.%3D	p.C193C	ENST00000411696	5/9	53	40	13	52	52	0	ZNF142,synonymous_variant,p.%3D,ENST00000411696,;ZNF142,synonymous_variant,p.%3D,ENST00000449707,;ZNF142,downstream_gene_variant,,ENST00000440934,;ZNF142,3_prime_UTR_variant,,ENST00000450765,;ZNF142,3_prime_UTR_variant,,ENST00000433921,;	A	ENSG00000115568	ENST00000411696	Transcript	synonymous_variant	1359	579	193	C	tgC/tgT	COSM1306430,COSM1306429	.	.	-1	ZNF142	HGNC	12927	protein_coding	YES	CCDS42817.1	ENSP00000398798	ZN142_HUMAN	C9J055_HUMAN	UPI000013D5FC	.	.	.	5/9	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF43,Gene3D:3.30.160.60,Pfam_domain:PF00096,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAGGGCACTG	.	5	BLCA
KIF1A	0	.	GRCh37	2	241710435	241710435	+	Missense_Mutation	SNP	G	G	A	rs763524814	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294C>T	p.Arg432Cys	p.R432C	ENST00000498729	15/50	124	84	40	81	81	0	KIF1A,missense_variant,p.Arg432Cys,ENST00000498729,;KIF1A,missense_variant,p.Arg423Cys,ENST00000320389,;KIF1A,missense_variant,p.Arg432Cys,ENST00000404283,;KIF1A,downstream_gene_variant,,ENST00000428768,;KIF1A,non_coding_transcript_exon_variant,,ENST00000463388,;	A	ENSG00000130294	ENST00000498729	Transcript	missense_variant	1541	1294	432	R/C	Cgc/Tgc	rs763524814,COSM1306597,COSM3391623	.	.	-1	KIF1A	HGNC	888	protein_coding	YES	CCDS58757.1	ENSP00000438388	KIF1A_HUMAN	G1UI30_HUMAN,C9JBH1_HUMAN	UPI0002065B81	.	deleterious(0.04)	possibly_damaging(0.45)	15/50	.	hmmpanther:PTHR24115:SF361,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R423C|c.1267C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGCGCTCGT	.	5	BLCA
PROKR1	0	.	GRCh37	2	68882436	68882436	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.910A>C	p.Thr304Pro	p.T304P	ENST00000303786	3/3	112	101	11	63	63	0	PROKR1,missense_variant,p.Thr304Pro,ENST00000394342,;PROKR1,missense_variant,p.Thr304Pro,ENST00000303786,;	C	ENSG00000169618	ENST00000303786	Transcript	missense_variant	1330	910	304	T/P	Acc/Ccc	COSM1306942	.	.	1	PROKR1	HGNC	4524	protein_coding	YES	CCDS1889.1	ENSP00000303775	PKR1_HUMAN	.	UPI000003EAA7	.	deleterious(0.01)	possibly_damaging(0.629)	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24242,hmmpanther:PTHR24242:SF189,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V306M|c.916G>A|3	MUTECT|MUSE|VARSCANS	GCTTCACCATC	.	3	BLCA
FBXO41	0	.	GRCh37	2	73492583	73492583	+	Missense_Mutation	SNP	C	C	T	rs375457673	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1391G>A	p.Arg464His	p.R464H	ENST00000521871	5/13	33	30	3	21	21	0	FBXO41,missense_variant,p.Arg464His,ENST00000521871,;FBXO41,missense_variant,p.Arg464His,ENST00000520530,;FBXO41,missense_variant,p.Arg525His,ENST00000295133,;FBXO41,downstream_gene_variant,,ENST00000519873,;	T	ENSG00000163013	ENST00000521871	Transcript	missense_variant	1807	1391	464	R/H	cGc/cAc	rs375457673,COSM1306984,COSM4095599,COSM1306983	.	.	-1	FBXO41	HGNC	29409	protein_coding	YES	CCDS46337.2	ENSP00000428646	FBX41_HUMAN	B3KXK3_HUMAN	UPI0000D611B7	.	tolerated(0.13)	possibly_damaging(0.46)	5/13	.	hmmpanther:PTHR15739:SF4,hmmpanther:PTHR15739	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTGGCGCCGC	byFrequency|byCluster	2	BLCA
WBP1	0	.	GRCh37	2	74687437	74687437	+	Missense_Mutation	SNP	C	C	T	rs201448542	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>T	p.Arg147Cys	p.R147C	ENST00000233615	4/4	321	264	57	217	217	0	WBP1,missense_variant,p.Arg181Cys,ENST00000393972,;WBP1,missense_variant,p.Arg147Cys,ENST00000233615,;WBP1,missense_variant,p.Arg206Cys,ENST00000428943,;WBP1,missense_variant,p.Arg144Cys,ENST00000409737,;MOGS,downstream_gene_variant,,ENST00000414701,;MOGS,downstream_gene_variant,,ENST00000535045,;MOGS,downstream_gene_variant,,ENST00000409065,;MOGS,downstream_gene_variant,,ENST00000448666,;INO80B,downstream_gene_variant,,ENST00000409493,;INO80B,downstream_gene_variant,,ENST00000233331,;MOGS,downstream_gene_variant,,ENST00000233616,;MOGS,downstream_gene_variant,,ENST00000452063,;INO80B,downstream_gene_variant,,ENST00000431187,;INO80B,downstream_gene_variant,,ENST00000409917,;WBP1,non_coding_transcript_exon_variant,,ENST00000466835,;WBP1,non_coding_transcript_exon_variant,,ENST00000494741,;WBP1,non_coding_transcript_exon_variant,,ENST00000470536,;MOGS,downstream_gene_variant,,ENST00000462443,;WBP1,downstream_gene_variant,,ENST00000474185,;MOGS,downstream_gene_variant,,ENST00000489655,;WBP1,downstream_gene_variant,,ENST00000464774,;INO80B,downstream_gene_variant,,ENST00000494986,;INO80B,downstream_gene_variant,,ENST00000469849,;INO80B,3_prime_UTR_variant,,ENST00000452361,;INO80B,3_prime_UTR_variant,,ENST00000441673,;WBP1,non_coding_transcript_exon_variant,,ENST00000490120,;WBP1,non_coding_transcript_exon_variant,,ENST00000484744,;WBP1,non_coding_transcript_exon_variant,,ENST00000473467,;INO80B,downstream_gene_variant,,ENST00000473618,;INO80B,downstream_gene_variant,,ENST00000455562,;MOGS,downstream_gene_variant,,ENST00000486036,;WBP1,downstream_gene_variant,,ENST00000466303,;INO80B,downstream_gene_variant,,ENST00000471577,;WBP1,downstream_gene_variant,,ENST00000492047,;MOGS,downstream_gene_variant,,ENST00000462189,;	T	ENSG00000239779	ENST00000233615	Transcript	missense_variant	713	439	147	R/C	Cgc/Tgc	rs201448542,COSM1306999	.	.	1	WBP1	HGNC	12737	protein_coding	YES	CCDS1943.1	ENSP00000233615	WBP1_HUMAN	.	UPI0000138EBA	.	tolerated(0.22)	benign(0)	4/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16209,hmmpanther:PTHR16209:SF5	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGCCGCCCC	byFrequency|byCluster|by1000G	4	BLCA
SENP7	0	.	GRCh37	3	101212807	101212807	+	Silent	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96A>G	p.%3D	p.R32R	ENST00000394095	3/24	46	30	16	92	92	0	SENP7,synonymous_variant,p.%3D,ENST00000314261,;SENP7,synonymous_variant,p.%3D,ENST00000394095,;SENP7,synonymous_variant,p.%3D,ENST00000394094,;SENP7,5_prime_UTR_variant,,ENST00000394091,;SENP7,5_prime_UTR_variant,,ENST00000348610,;SENP7,5_prime_UTR_variant,,ENST00000358203,;	C	ENSG00000138468	ENST00000394095	Transcript	synonymous_variant	150	96	32	R	agA/agG	COSM1308324,COSM1308323	.	.	-1	SENP7	HGNC	30402	protein_coding	YES	CCDS2941.2	ENSP00000377655	SENP7_HUMAN	.	UPI0000E56ED1	.	.	.	3/24	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTTCTTAT	.	5	BLCA
NR1I2	0	.	GRCh37	3	119501664	119501664	+	Silent	SNP	C	C	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60C>A	p.%3D	p.P20P	ENST00000337940	1/9	92	83	9	112	112	0	NR1I2,synonymous_variant,p.%3D,ENST00000337940,;NR1I2,intron_variant,,ENST00000466380,;NR1I2,intron_variant,,ENST00000393716,;NR1I2,intron_variant,,ENST00000474090,;	A	ENSG00000144852	ENST00000337940	Transcript	synonymous_variant	108	60	20	P	ccC/ccA	.	.	.	1	NR1I2	HGNC	7968	protein_coding	YES	CCDS2995.1	ENSP00000336528	NR1I2_HUMAN	J3KPQ3_HUMAN,F1DAL3_HUMAN,F1D8P9_HUMAN,B3KVM5_HUMAN	UPI000006EC88	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	ATACCCCTGCA	.	2	BLCA
STXBP5L	0	.	GRCh37	3	121137298	121137298	+	Missense_Mutation	SNP	G	G	A	rs778813739	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3413G>A	p.Arg1138His	p.R1138H	ENST00000273666	27/28	67	34	33	70	70	0	STXBP5L,missense_variant,p.Arg1081His,ENST00000471262,;STXBP5L,missense_variant,p.Arg1138His,ENST00000273666,;STXBP5L,missense_variant,p.Arg1114His,ENST00000471454,;	A	ENSG00000145087	ENST00000273666	Transcript	missense_variant	3684	3413	1138	R/H	cGt/cAt	rs778813739,COSM1240338	.	.	1	STXBP5L	HGNC	30757	protein_coding	YES	CCDS43137.1	ENSP00000273666	STB5L_HUMAN	C9JUZ7_HUMAN	UPI00001C1DEA	.	deleterious(0)	possibly_damaging(0.833)	27/28	.	PROSITE_profiles:PS50892,hmmpanther:PTHR10241,hmmpanther:PTHR10241:SF19,Gene3D:1.20.5.110,Superfamily_domains:SSF58038	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R1138H|c.3413G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCCGTGCAC	.	5	BLCA
KALRN	0	.	GRCh37	3	124132333	124132333	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2357A>G	p.Asp786Gly	p.D786G	ENST00000240874	14/34	48	43	5	42	42	0	KALRN,missense_variant,p.Asp786Gly,ENST00000240874,;KALRN,missense_variant,p.Asp786Gly,ENST00000460856,;KALRN,missense_variant,p.Asp764Gly,ENST00000354186,;KALRN,missense_variant,p.Asp786Gly,ENST00000360013,;KALRN,non_coding_transcript_exon_variant,,ENST00000484224,;KALRN,non_coding_transcript_exon_variant,,ENST00000393501,;	G	ENSG00000160145	ENST00000240874	Transcript	missense_variant	2514	2357	786	D/G	gAc/gGc	COSM1308502,COSM1308503	.	.	1	KALRN	HGNC	4814	protein_coding	YES	CCDS3027.1	ENSP00000240874	KALRN_HUMAN	.	UPI000012C095	.	deleterious(0)	benign(0.051)	14/34	.	hmmpanther:PTHR22826,hmmpanther:PTHR22826:SF49	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTAGACGCCT	.	4	BLCA
COPG1	0	.	GRCh37	3	128979469	128979469	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.947T>C	p.Met316Thr	p.M316T	ENST00000314797	12/24	94	80	14	80	80	0	COPG1,missense_variant,p.Met316Thr,ENST00000314797,;COPG1,non_coding_transcript_exon_variant,,ENST00000504547,;COPG1,non_coding_transcript_exon_variant,,ENST00000515725,;COPG1,upstream_gene_variant,,ENST00000513410,;	C	ENSG00000181789	ENST00000314797	Transcript	missense_variant	1051	947	316	M/T	aTg/aCg	.	.	.	1	COPG1	HGNC	2236	protein_coding	YES	CCDS33851.1	ENSP00000325002	COPG1_HUMAN	Q8WUI6_HUMAN	UPI000000095F	.	tolerated(0.14)	benign(0.3)	12/24	.	Superfamily_domains:SSF48371,PIRSF_domain:PIRSF037093,Pfam_domain:PF01602,Gene3D:1.25.10.10,hmmpanther:PTHR10261,hmmpanther:PTHR10261:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCATGAAGC	.	5	BLCA
C3orf20	0	.	GRCh37	3	14803006	14803006	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2379T>G	p.Phe793Leu	p.F793L	ENST00000253697	15/17	87	79	8	76	76	0	C3orf20,missense_variant,p.Phe671Leu,ENST00000435614,;C3orf20,missense_variant,p.Phe671Leu,ENST00000412910,;C3orf20,missense_variant,p.Phe793Leu,ENST00000253697,;AC090957.2,downstream_gene_variant,,ENST00000422657,;	G	ENSG00000131379	ENST00000253697	Transcript	missense_variant	2831	2379	793	F/L	ttT/ttG	.	.	.	1	C3orf20	HGNC	25320	protein_coding	YES	CCDS33706.1	ENSP00000253697	CC020_HUMAN	.	UPI000013CDE9	.	deleterious(0.03)	benign(0.035)	15/17	.	hmmpanther:PTHR23093,hmmpanther:PTHR23093:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	ATTTTTGGGGG	.	2	BLCA
CNOT10	0	.	GRCh37	3	32811403	32811403	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2209G>A	p.Glu737Lys	p.E737K	ENST00000454516	18/19	110	99	11	134	134	0	CNOT10,missense_variant,p.Glu212Lys,ENST00000430408,;CNOT10,missense_variant,p.Glu677Lys,ENST00000328834,;CNOT10,missense_variant,p.Glu650Lys,ENST00000331889,;CNOT10,missense_variant,p.Glu737Lys,ENST00000454516,;CNOT10,non_coding_transcript_exon_variant,,ENST00000473064,;CNOT10,non_coding_transcript_exon_variant,,ENST00000471003,;CNOT10,3_prime_UTR_variant,,ENST00000416457,;CNOT10,non_coding_transcript_exon_variant,,ENST00000476967,;CNOT10,non_coding_transcript_exon_variant,,ENST00000481526,;CNOT10,non_coding_transcript_exon_variant,,ENST00000479397,;CNOT10,intron_variant,,ENST00000435630,;CNOT10,downstream_gene_variant,,ENST00000468599,;	A	ENSG00000182973	ENST00000454516	Transcript	missense_variant	2286	2209	737	E/K	Gag/Aag	COSM1309033	.	.	1	CNOT10	HGNC	23817	protein_coding	YES	CCDS58822.1	ENSP00000399862	CNO10_HUMAN	B7Z5B3_HUMAN	UPI000206533D	.	tolerated(0.06)	possibly_damaging(0.701)	18/19	.	hmmpanther:PTHR12979:SF5,hmmpanther:PTHR12979,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTAAAGAGGTG	.	4	BLCA
KLHL40	0	.	GRCh37	3	42732383	42732383	+	Missense_Mutation	SNP	G	G	A	rs144187563	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1640G>A	p.Arg547His	p.R547H	ENST00000287777	5/6	89	80	9	83	83	0	KLHL40,missense_variant,p.Arg547His,ENST00000287777,;HHATL,downstream_gene_variant,,ENST00000310417,;HHATL,downstream_gene_variant,,ENST00000441594,;HHATL,downstream_gene_variant,,ENST00000426666,;CCDC13,downstream_gene_variant,,ENST00000479631,;HHATL,downstream_gene_variant,,ENST00000466007,;HHATL,downstream_gene_variant,,ENST00000480939,;HHATL,downstream_gene_variant,,ENST00000490003,;	A	ENSG00000157119	ENST00000287777	Transcript	missense_variant	1740	1640	547	R/H	cGt/cAt	rs144187563,COSM1309127	.	.	1	KLHL40	HGNC	30372	protein_coding	YES	CCDS2703.1	ENSP00000287777	KLH40_HUMAN	.	UPI000000D866	.	deleterious(0)	probably_damaging(1)	5/6	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF22,Pfam_domain:PF01344,Gene3D:1zgkA00,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	A:0.0008	A:0	A:0.0043	.	A:0	A:0	A:0.001	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGAGCGTAGCT	byFrequency|byCluster|by1000G	3	BLCA
CCR5	0	.	GRCh37	3	46415257	46415257	+	Silent	SNP	G	G	A	rs372879037	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.864G>A	p.%3D	p.T288T	ENST00000343801	3/3	427	402	25	321	321	0	CCR5,synonymous_variant,p.%3D,ENST00000292303,;CCR5,synonymous_variant,p.%3D,ENST00000343801,;CCR5,synonymous_variant,p.%3D,ENST00000445772,;RP11-24F11.2,intron_variant,,ENST00000451485,;	A	ENSG00000160791	ENST00000343801	Transcript	synonymous_variant	1221	864	288	T	acG/acA	rs372879037,COSM1309169	.	.	1	CCR5	HGNC	1606	protein_coding	YES	CCDS2739.1	ENSP00000343985	CCR5_HUMAN	Q9UBT9_HUMAN,Q9P1T4_HUMAN,Q5KSY4_HUMAN,Q5EKN0_HUMAN,Q38L21_HUMAN,J7HJP8_HUMAN,E7BJ57_HUMAN,B8LFP0_HUMAN,B8LFN8_HUMAN,A1A490_HUMAN	UPI000000D955	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24227:SF45,hmmpanther:PTHR24227,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00657	.	.	.	.	.	.	.	A:0.0005	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGACGCACTG	byFrequency|byCluster	2	BLCA
RHOA	0	.	GRCh37	3	49412958	49412958	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.65T>C	p.Leu22Pro	p.L22P	ENST00000418115	2/5	131	88	42	167	167	0	RHOA,missense_variant,p.Leu22Pro,ENST00000431929,;RHOA,missense_variant,p.Leu22Pro,ENST00000422781,;RHOA,missense_variant,p.Leu22Pro,ENST00000454011,;RHOA,missense_variant,p.Leu22Pro,ENST00000445425,;RHOA,missense_variant,p.Leu22Pro,ENST00000418115,;	G	ENSG00000067560	ENST00000418115	Transcript	missense_variant	450	65	22	L/P	cTc/cCc	COSM1309266	.	.	-1	RHOA	HGNC	667	protein_coding	YES	CCDS2795.1	ENSP00000400175	RHOA_HUMAN	Q9BVT0_HUMAN,C9JNR4_HUMAN,B4DKN9_HUMAN	UPI0000046824	.	deleterious(0)	probably_damaging(0.999)	2/5	.	PROSITE_profiles:PS51420,hmmpanther:PTHR24072:SF100,hmmpanther:PTHR24072,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00071,SMART_domains:SM00173,SMART_domains:SM00175,SMART_domains:SM00174,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATGAGCAAG	.	5	BLCA
VPRBP	0	.	GRCh37	3	51457623	51457623	+	Missense_Mutation	SNP	C	C	T	rs114108730	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1514G>A	p.Arg505Gln	p.R505Q	ENST00000423656	5/16	64	48	15	55	55	0	VPRBP,missense_variant,p.Arg505Gln,ENST00000423656,;VPRBP,missense_variant,p.Arg485Gln,ENST00000335891,;	T	ENSG00000145041	ENST00000423656	Transcript	missense_variant	1514	1514	505	R/Q	cGg/cAg	rs114108730,COSM1309309	.	.	-1	VPRBP	HGNC	30911	protein_coding	YES	.	ENSP00000393183	.	H0Y4P3_HUMAN	UPI000020AC56	.	tolerated(0.43)	benign(0.003)	5/16	.	hmmpanther:PTHR13129,hmmpanther:PTHR13129:SF4	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGCCGTGGC	by1000G	5	BLCA
ANKRD50	0	.	GRCh37	4	125591960	125591960	+	Silent	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2472A>G	p.%3D	p.Q824Q	ENST00000504087	4/5	96	88	8	178	178	0	ANKRD50,synonymous_variant,p.%3D,ENST00000504087,;ANKRD50,synonymous_variant,p.%3D,ENST00000515641,;	C	ENSG00000151458	ENST00000504087	Transcript	synonymous_variant	3510	2472	824	Q	caA/caG	COSM1309680	.	.	-1	ANKRD50	HGNC	29223	protein_coding	YES	CCDS34060.1	ENSP00000425658	ANR50_HUMAN	Q8TB46_HUMAN	UPI00002377E8	.	.	.	4/5	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24151:SF1,hmmpanther:PTHR24151,Pfam_domain:PF13637,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTCCTTGTGC	.	3	BLCA
PPP2R2C	0	.	GRCh37	4	6473933	6473933	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24G>A	p.%3D	p.R8R	ENST00000382599	1/9	294	261	33	285	285	0	PPP2R2C,synonymous_variant,p.%3D,ENST00000382599,;PPP2R2C,intron_variant,,ENST00000507294,;PPP2R2C,intron_variant,,ENST00000506140,;PPP2R2C,intron_variant,,ENST00000314348,;PPP2R2C,upstream_gene_variant,,ENST00000507028,;	T	ENSG00000074211	ENST00000382599	Transcript	synonymous_variant	241	24	8	R	cgG/cgA	COSM1310196	.	.	-1	PPP2R2C	HGNC	9306	protein_coding	.	.	ENSP00000372042	2ABG_HUMAN	.	UPI000017C2F0	.	.	.	1/9	.	PIRSF_domain:PIRSF037309,hmmpanther:PTHR11871,hmmpanther:PTHR11871:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTTTCCGCGT	.	4	BLCA
SORCS2	0	.	GRCh37	4	7725484	7725484	+	Missense_Mutation	SNP	G	G	A	rs371728739	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2485G>A	p.Val829Met	p.V829M	ENST00000507866	19/27	216	196	20	226	226	0	SORCS2,missense_variant,p.Val657Met,ENST00000329016,;SORCS2,missense_variant,p.Val829Met,ENST00000507866,;	A	ENSG00000184985	ENST00000507866	Transcript	missense_variant	2594	2485	829	V/M	Gtg/Atg	rs371728739,COSM1310263	.	.	1	SORCS2	HGNC	16698	protein_coding	YES	CCDS47008.1	ENSP00000422185	SORC2_HUMAN	.	UPI0000EE6E4F	.	tolerated(0.11)	benign(0.058)	19/27	.	PROSITE_profiles:PS50093,hmmpanther:PTHR12106,hmmpanther:PTHR12106:SF9,Pfam_domain:PF00801,Gene3D:2.60.40.670,SMART_domains:SM00089,Superfamily_domains:SSF49299	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGTACGTGAAC	byFrequency|byCluster	3	BLCA
PPIP5K2	0	.	GRCh37	5	102502895	102502895	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1933G>A	p.Gly645Arg	p.G645R	ENST00000321521	18/30	49	42	6	140	140	0	PPIP5K2,missense_variant,p.Gly645Arg,ENST00000414217,;PPIP5K2,missense_variant,p.Gly645Arg,ENST00000358359,;PPIP5K2,missense_variant,p.Gly645Arg,ENST00000321521,;PPIP5K2,upstream_gene_variant,,ENST00000509597,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000513500,;	A	ENSG00000145725	ENST00000321521	Transcript	missense_variant	2506	1933	645	G/R	Gga/Aga	COSM1310407	.	.	1	PPIP5K2	HGNC	29035	protein_coding	YES	CCDS34207.1	ENSP00000313070	VIP2_HUMAN	K7EPT7_HUMAN,D6RFG4_HUMAN	UPI000006E414	.	tolerated(0.09)	benign(0.007)	18/30	.	Superfamily_domains:SSF53254,Pfam_domain:PF00328,hmmpanther:PTHR12750:SF10,hmmpanther:PTHR12750	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCTGGAAGC	.	4	BLCA
JADE2	0	.	GRCh37	5	133914401	133914401	+	Silent	SNP	C	C	T	rs779020941	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1767C>T	p.%3D	p.D589D	ENST00000395003	11/11	39	33	5	35	35	0	JADE2,synonymous_variant,p.%3D,ENST00000395003,;JADE2,synonymous_variant,p.%3D,ENST00000282605,;JADE2,synonymous_variant,p.%3D,ENST00000361895,;JADE2,3_prime_UTR_variant,,ENST00000402835,;JADE2,3_prime_UTR_variant,,ENST00000430087,;JADE2,downstream_gene_variant,,ENST00000470876,;	T	ENSG00000043143	ENST00000395003	Transcript	synonymous_variant	1946	1767	589	D	gaC/gaT	rs779020941,COSM1310548	.	.	1	JADE2	HGNC	22984	protein_coding	YES	CCDS4176.1	ENSP00000378451	JADE2_HUMAN	D6R9B8_HUMAN,C9J929_HUMAN	UPI00002331C9	.	.	.	11/11	.	hmmpanther:PTHR13793,hmmpanther:PTHR13793:SF84	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTGACCCTGC	.	4	BLCA
AC005609.1	0	.	GRCh37	5	140242233	140242233	+	3'UTR	SNP	G	G	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*164C>T	.	.	ENST00000502505	1/1	37	34	3	37	37	0	AC005609.1,3_prime_UTR_variant,,ENST00000502505,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA9,intron_variant,,ENST00000532602,;PCDHA14,upstream_gene_variant,,ENST00000562220,;PCDHA14,non_coding_transcript_exon_variant,,ENST00000506751,;	A	ENSG00000249034	ENST00000502505	Transcript	3_prime_UTR_variant	992	.	.	.	.	.	.	.	-1	AC005609.1	Clone_based_ensembl_gene	.	protein_coding	YES	.	ENSP00000424817	.	Q8NB83_HUMAN	UPI0000073A41	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TGTCCGCGCGG	.	2	BLCA
FGFR4	0	.	GRCh37	5	176520735	176520735	+	Missense_Mutation	SNP	G	G	A	rs750637669	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1478G>A	p.Arg493Gln	p.R493Q	ENST00000292408	11/18	49	44	5	47	47	0	FGFR4,missense_variant,p.Arg453Gln,ENST00000393637,;FGFR4,missense_variant,p.Arg453Gln,ENST00000292410,;FGFR4,missense_variant,p.Arg493Gln,ENST00000502906,;FGFR4,missense_variant,p.Arg125Gln,ENST00000511076,;FGFR4,missense_variant,p.Arg493Gln,ENST00000292408,;FGFR4,missense_variant,p.Arg425Gln,ENST00000393648,;FGFR4,downstream_gene_variant,,ENST00000513166,;FGFR4,downstream_gene_variant,,ENST00000510911,;FGFR4,downstream_gene_variant,,ENST00000514472,;FGFR4,downstream_gene_variant,,ENST00000503708,;FGFR4,downstream_gene_variant,,ENST00000507708,;FGFR4,upstream_gene_variant,,ENST00000483872,;FGFR4,downstream_gene_variant,,ENST00000508139,;FGFR4,upstream_gene_variant,,ENST00000513423,;FGFR4,downstream_gene_variant,,ENST00000509511,;FGFR4,downstream_gene_variant,,ENST00000430285,;FGFR4,downstream_gene_variant,,ENST00000426612,;	A	ENSG00000160867	ENST00000292408	Transcript	missense_variant	1723	1478	493	R/Q	cGg/cAg	rs750637669,COSM1311001,COSM1311000	.	.	1	FGFR4	HGNC	3691	protein_coding	YES	CCDS4410.1	ENSP00000292408	FGFR4_HUMAN	G3JVM2_HUMAN,E7EWF4_HUMAN,D6RJD4_HUMAN,D6RG06_HUMAN,D6R9V0_HUMAN	UPI000012A72D	.	tolerated(0.11)	benign(0.012)	11/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF312,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF07714,SMART_domains:SM00219,PIRSF_domain:PIRSF000628,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCCGGCCTG	.	3	BLCA
UGT3A1	0	.	GRCh37	5	35957445	35957445	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.920A>G	p.His307Arg	p.H307R	ENST00000274278	5/7	67	60	6	82	82	0	UGT3A1,missense_variant,p.His307Arg,ENST00000274278,;UGT3A1,missense_variant,p.His273Arg,ENST00000507113,;UGT3A1,missense_variant,p.His307Arg,ENST00000503189,;UGT3A1,downstream_gene_variant,,ENST00000333811,;UGT3A1,non_coding_transcript_exon_variant,,ENST00000513233,;UGT3A1,3_prime_UTR_variant,,ENST00000515801,;	C	ENSG00000145626	ENST00000274278	Transcript	missense_variant	1278	920	307	H/R	cAt/cGt	COSM1311122	.	.	-1	UGT3A1	HGNC	26625	protein_coding	YES	CCDS3913.1	ENSP00000274278	UD3A1_HUMAN	A8K444_HUMAN	UPI000003C38B	.	tolerated(0.12)	benign(0.007)	5/7	.	hmmpanther:PTHR11926:SF154,hmmpanther:PTHR11926,Pfam_domain:PF00201,Gene3D:3.40.50.2000,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTGATGGGTG	.	3	BLCA
NSA2	0	.	GRCh37	5	74069827	74069827	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657C>T	p.%3D	p.V219V	ENST00000296802	5/6	85	78	7	135	134	1	NSA2,synonymous_variant,p.%3D,ENST00000296802,;NSA2,intron_variant,,ENST00000515524,;FAM169A,downstream_gene_variant,,ENST00000510496,;FAM169A,downstream_gene_variant,,ENST00000389156,;NSA2,downstream_gene_variant,,ENST00000513356,;FAM169A,downstream_gene_variant,,ENST00000510609,;FAM169A,downstream_gene_variant,,ENST00000514215,;NSA2,downstream_gene_variant,,ENST00000514918,;	T	ENSG00000164346	ENST00000296802	Transcript	synonymous_variant	1026	657	219	V	gtC/gtT	COSM1311310	.	.	1	NSA2	HGNC	30728	protein_coding	YES	CCDS4025.1	ENSP00000296802	NSA2_HUMAN	Q5J7U2_HUMAN	UPI0000073FFF	.	.	.	5/6	.	hmmpanther:PTHR12642,hmmpanther:PTHR12642:SF0,Pfam_domain:PF01201	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ACTGTCATTGA	.	2	BLCA
REV3L	0	.	GRCh37	6	111688580	111688580	+	Silent	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6411A>G	p.%3D	p.K2137K	ENST00000358835	15/33	135	119	15	218	218	0	REV3L,synonymous_variant,p.%3D,ENST00000435970,;REV3L,synonymous_variant,p.%3D,ENST00000358835,;REV3L,synonymous_variant,p.%3D,ENST00000368802,;REV3L,synonymous_variant,p.%3D,ENST00000368805,;REV3L,3_prime_UTR_variant,,ENST00000434009,;REV3L,3_prime_UTR_variant,,ENST00000422377,;REV3L,upstream_gene_variant,,ENST00000413831,;	C	ENSG00000009413	ENST00000358835	Transcript	synonymous_variant	6866	6411	2137	K	aaA/aaG	COSM1311463,COSM1311462	.	.	-1	REV3L	HGNC	9968	protein_coding	YES	CCDS5091.2	ENSP00000351697	DPOLZ_HUMAN	Q9UID5_HUMAN,C4TNX2_HUMAN,C4TNX1_HUMAN,C4TNX0_HUMAN,C4B7Q4_HUMAN	UPI0000140023	.	.	.	15/33	.	hmmpanther:PTHR10322:SF16,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATGCTTTGGA	.	4	BLCA
CTAGE9	0	.	GRCh37	6	132031779	132031779	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379A>G	p.Ser127Gly	p.S127G	ENST00000314099	1/1	145	126	19	197	197	0	CTAGE9,missense_variant,p.Ser127Gly,ENST00000314099,;ENPP3,intron_variant,,ENST00000358229,;ENPP3,intron_variant,,ENST00000357639,;ENPP3,intron_variant,,ENST00000414305,;	C	ENSG00000236761	ENST00000314099	Transcript	missense_variant	428	379	127	S/G	Agt/Ggt	COSM1311566,COSM1311565	.	.	-1	CTAGE9	HGNC	37275	protein_coding	YES	CCDS47475.1	ENSP00000395587	CTGE9_HUMAN	.	UPI0000073347	.	tolerated(0.07)	benign(0.373)	1/1	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23158,hmmpanther:PTHR23158:SF39	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAACTTCGTG	.	4	BLCA
FNDC1	0	.	GRCh37	6	159654483	159654483	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2939G>A	p.Arg980His	p.R980H	ENST00000297267	11/23	24	16	8	29	29	0	FNDC1,missense_variant,p.Arg917His,ENST00000340366,;FNDC1,missense_variant,p.Arg980His,ENST00000297267,;FNDC1,missense_variant,p.Arg876His,ENST00000329629,;	A	ENSG00000164694	ENST00000297267	Transcript	missense_variant	3139	2939	980	R/H	cGt/cAt	COSM1311771	.	.	1	FNDC1	HGNC	21184	protein_coding	YES	CCDS47512.1	ENSP00000297267	FNDC1_HUMAN	.	UPI0000579B80	.	deleterious_low_confidence(0)	unknown(0)	11/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23197:SF8,hmmpanther:PTHR23197	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTCGTCCGC	.	5	BLCA
CLIC1	0	.	GRCh37	6	31702009	31702009	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71G>T	p.Cys24Phe	p.C24F	ENST00000375780	3/7	56	49	7	47	47	0	CLIC1,missense_variant,p.Cys24Phe,ENST00000395892,;CLIC1,missense_variant,p.Cys24Phe,ENST00000375779,;CLIC1,missense_variant,p.Cys24Phe,ENST00000375780,;CLIC1,missense_variant,p.Cys24Phe,ENST00000375784,;DDAH2,upstream_gene_variant,,ENST00000375787,;DDAH2,upstream_gene_variant,,ENST00000375792,;DDAH2,upstream_gene_variant,,ENST00000375789,;DDAH2,upstream_gene_variant,,ENST00000416410,;DDAH2,upstream_gene_variant,,ENST00000436437,;DDAH2,upstream_gene_variant,,ENST00000483792,;DDAH2,upstream_gene_variant,,ENST00000480913,;DDAH2,upstream_gene_variant,,ENST00000488119,;DDAH2,upstream_gene_variant,,ENST00000469963,;	A	ENSG00000213719	ENST00000375780	Transcript	missense_variant	644	71	24	C/F	tGc/tTc	.	.	.	-1	CLIC1	HGNC	2062	protein_coding	YES	CCDS4719.1	ENSP00000364935	CLIC1_HUMAN	Q5SRT3_HUMAN	UPI000011785A	.	deleterious(0)	possibly_damaging(0.852)	3/7	.	hmmpanther:PTHR11260:SF165,hmmpanther:PTHR11260,Gene3D:3.40.30.10,TIGRFAM_domain:TIGR00862,Pfam_domain:PF13417,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGGGCAGTTC	.	3	BLCA
PBX2	0	.	GRCh37	6	32154671	32154671	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1032C>T	p.%3D	p.G344G	ENST00000375050	7/9	58	55	3	61	61	0	PBX2,synonymous_variant,p.%3D,ENST00000375050,;AGER,upstream_gene_variant,,ENST00000375056,;AGER,upstream_gene_variant,,ENST00000450110,;RNF5,downstream_gene_variant,,ENST00000427134,;GPSM3,downstream_gene_variant,,ENST00000487761,;AGER,upstream_gene_variant,,ENST00000375055,;AGER,upstream_gene_variant,,ENST00000375070,;AGER,upstream_gene_variant,,ENST00000438221,;AGER,upstream_gene_variant,,ENST00000375065,;AGER,upstream_gene_variant,,ENST00000375076,;AGER,upstream_gene_variant,,ENST00000375067,;GPSM3,downstream_gene_variant,,ENST00000375043,;AGER,upstream_gene_variant,,ENST00000375069,;AGER,upstream_gene_variant,,ENST00000538695,;GPSM3,downstream_gene_variant,,ENST00000375040,;XXbac-BPG300A18.13,upstream_gene_variant,,ENST00000559458,;PBX2,non_coding_transcript_exon_variant,,ENST00000495300,;PBX2,downstream_gene_variant,,ENST00000496171,;PBX2,downstream_gene_variant,,ENST00000480254,;AGER,upstream_gene_variant,,ENST00000473619,;GPSM3,downstream_gene_variant,,ENST00000472768,;AGER,upstream_gene_variant,,ENST00000488669,;AGER,upstream_gene_variant,,ENST00000484849,;PBX2,downstream_gene_variant,,ENST00000478678,;	A	ENSG00000204304	ENST00000375050	Transcript	synonymous_variant	1303	1032	344	G	ggC/ggT	COSM741769	.	.	-1	PBX2	HGNC	8633	protein_coding	YES	CCDS4748.1	ENSP00000364190	PBX2_HUMAN	.	UPI00001313B2	.	.	.	7/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11850:SF50,hmmpanther:PTHR11850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCCGCCAGA	.	2	BLCA
SNX14	0	.	GRCh37	6	86257230	86257230	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906C>A	p.Asp302Glu	p.D302E	ENST00000314673	10/29	18	14	4	68	68	0	SNX14,missense_variant,p.Asp250Glu,ENST00000505648,;SNX14,missense_variant,p.Asp302Glu,ENST00000513865,;SNX14,missense_variant,p.Asp302Glu,ENST00000369627,;SNX14,missense_variant,p.Asp302Glu,ENST00000314673,;SNX14,missense_variant,p.Asp258Glu,ENST00000346348,;SNX14,missense_variant,p.Asp229Glu,ENST00000515216,;SNX14,downstream_gene_variant,,ENST00000514419,;SNX14,downstream_gene_variant,,ENST00000509338,;SNX14,non_coding_transcript_exon_variant,,ENST00000508980,;SNX14,3_prime_UTR_variant,,ENST00000369635,;SNX14,non_coding_transcript_exon_variant,,ENST00000504191,;SNX14,non_coding_transcript_exon_variant,,ENST00000503491,;SNX14,downstream_gene_variant,,ENST00000513869,;SNX14,upstream_gene_variant,,ENST00000506182,;	T	ENSG00000135317	ENST00000314673	Transcript	missense_variant	1083	906	302	D/E	gaC/gaA	.	.	.	-1	SNX14	HGNC	14977	protein_coding	YES	CCDS5004.1	ENSP00000313121	SNX14_HUMAN	E2QRM8_HUMAN	UPI000013F8C8	.	tolerated(0.69)	benign(0.006)	10/29	.	SMART_domains:SM00313,Pfam_domain:PF02194,hmmpanther:PTHR22775:SF3,hmmpanther:PTHR22775,PROSITE_profiles:PS51207	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE	GGACTGTCATC	.	3	BLCA
MUC17	0	.	GRCh37	7	100679464	100679464	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4767G>C	p.Glu1589Asp	p.E1589D	ENST00000306151	3/13	435	408	26	411	411	0	MUC17,missense_variant,p.Glu1589Asp,ENST00000306151,;MUC17,missense_variant,p.Glu1589Asp,ENST00000379439,;	C	ENSG00000169876	ENST00000306151	Transcript	missense_variant	4831	4767	1589	E/D	gaG/gaC	COSM1312516	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	unknown(0)	3/13	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGAGGCTAA	.	2	BLCA
HYAL4	0	.	GRCh37	7	123516944	123516944	+	Missense_Mutation	SNP	C	C	T	rs150077532	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1181C>T	p.Ala394Val	p.A394V	ENST00000223026	5/5	97	75	22	87	87	0	HYAL4,missense_variant,p.Ala394Val,ENST00000223026,;HYAL4,missense_variant,p.Ala394Val,ENST00000476325,;HYAL4,3_prime_UTR_variant,,ENST00000483878,;	T	ENSG00000106302	ENST00000223026	Transcript	missense_variant	1819	1181	394	A/V	gCg/gTg	rs150077532,COSM1312631	.	.	1	HYAL4	HGNC	5323	protein_coding	YES	CCDS5789.1	ENSP00000223026	HYAL4_HUMAN	C9JU18_HUMAN,C9J6F9_HUMAN	UPI000006F62B	.	deleterious(0)	benign(0.44)	5/5	.	PIRSF_domain:PIRSF038193,hmmpanther:PTHR11769,hmmpanther:PTHR11769:SF7	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0002	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACGCGCCCA	byFrequency|byCluster|by1000G	5	BLCA
CCDC136	0	.	GRCh37	7	128452358	128452358	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2533G>C	p.Asp845His	p.D845H	ENST00000297788	13/18	20	17	3	28	28	0	CCDC136,missense_variant,p.Asp845His,ENST00000297788,;CCDC136,missense_variant,p.Asp722His,ENST00000494552,;CCDC136,missense_variant,p.Asp436His,ENST00000464672,;CCDC136,intron_variant,,ENST00000464832,;CCDC136,intron_variant,,ENST00000487361,;CCDC136,intron_variant,,ENST00000378685,;CCDC136,upstream_gene_variant,,ENST00000471729,;CCDC136,non_coding_transcript_exon_variant,,ENST00000480137,;CCDC136,intron_variant,,ENST00000528772,;CCDC136,downstream_gene_variant,,ENST00000460941,;CCDC136,downstream_gene_variant,,ENST00000485832,;	C	ENSG00000128596	ENST00000297788	Transcript	missense_variant	2900	2533	845	D/H	Gac/Cac	COSM1312666,COSM1312664,COSM1312665	.	.	1	CCDC136	HGNC	22225	protein_coding	YES	CCDS47704.1	ENSP00000297788	CC136_HUMAN	C9JAD8_HUMAN,C9J884_HUMAN,C9IYI5_HUMAN	UPI0000E445DE	.	deleterious(0)	probably_damaging(0.987)	13/18	.	hmmpanther:PTHR18889:SF9,hmmpanther:PTHR18889	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGAAGACATG	.	2	BLCA
OR2A12	0	.	GRCh37	7	143792375	143792375	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175T>C	p.Tyr59His	p.Y59H	ENST00000408949	1/1	124	118	5	127	127	0	OR2A12,missense_variant,p.Tyr59His,ENST00000408949,;	C	ENSG00000221858	ENST00000408949	Transcript	missense_variant	235	175	59	Y/H	Tat/Cat	COSM1312787	.	.	1	OR2A12	HGNC	15082	protein_coding	YES	CCDS43670.1	ENSP00000386174	O2A12_HUMAN	A4D2G4_HUMAN	UPI0000061E6F	.	deleterious(0.01)	probably_damaging(0.994)	1/1	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF50,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V60D|c.179T>A|3	MUTECT|MUSE	CCATGTATGTC	.	2	BLCA
CNTNAP2	0	.	GRCh37	7	147600794	147600794	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2236G>A	p.Asp746Asn	p.D746N	ENST00000361727	14/24	43	35	8	34	34	0	CNTNAP2,missense_variant,p.Asp137Asn,ENST00000455301,;CNTNAP2,missense_variant,p.Asp746Asn,ENST00000361727,;	A	ENSG00000174469	ENST00000361727	Transcript	missense_variant	2752	2236	746	D/N	Gac/Aac	COSM1312800	.	.	1	CNTNAP2	HGNC	13830	protein_coding	YES	CCDS5889.1	ENSP00000354778	CNTP2_HUMAN	Q9UDV4_HUMAN,Q96T77_HUMAN,Q86UL9_HUMAN,Q86UL6_HUMAN,Q86UL4_HUMAN,Q86UJ1_HUMAN,Q86UI8_HUMAN,Q75MQ9_HUMAN,Q75MF8_HUMAN,Q75MF6_HUMAN,Q75MD4_HUMAN,Q75MA1_HUMAN,Q75M92_HUMAN,Q75LG9_HUMAN,O75852_HUMAN,B7Z1Y6_HUMAN	UPI00001285FA	.	deleterious(0.02)	probably_damaging(0.951)	14/24	.	hmmpanther:PTHR10127:SF4,hmmpanther:PTHR10127	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.C745C|c.2235C>T|7	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGCGACGCG	.	5	BLCA
NOS3	0	.	GRCh37	7	150696071	150696071	+	Missense_Mutation	SNP	G	G	A	rs374834315	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.854G>A	p.Arg285His	p.R285H	ENST00000297494	8/27	176	139	37	111	111	0	NOS3,missense_variant,p.Arg285His,ENST00000467517,;NOS3,missense_variant,p.Arg285His,ENST00000484524,;NOS3,missense_variant,p.Arg79His,ENST00000461406,;NOS3,missense_variant,p.Arg285His,ENST00000297494,;NOS3,upstream_gene_variant,,ENST00000460603,;	A	ENSG00000164867	ENST00000297494	Transcript	missense_variant	1211	854	285	R/H	cGc/cAc	rs374834315,COSM1312839	.	.	1	NOS3	HGNC	7876	protein_coding	YES	CCDS5912.1	ENSP00000297494	NOS3_HUMAN	Q96P37_HUMAN,Q96J98_HUMAN,O14937_HUMAN,E7ESA7_HUMAN	UPI000013E417	.	deleterious(0)	probably_damaging(0.997)	8/27	.	hmmpanther:PTHR19384,hmmpanther:PTHR19384:SF66,Pfam_domain:PF02898,PIRSF_domain:PIRSF000333,Superfamily_domains:SSF56512	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G282E|c.845G>A|4	RADIA|MUTECT|MUSE|VARSCANS	CGGTCGCTTCG	byFrequency|byCluster	4	BLCA
MEOX2	0	.	GRCh37	7	15652118	15652118	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.809C>G	p.Ser270Ter	p.S270*	ENST00000262041	3/3	200	190	10	192	192	0	MEOX2,stop_gained,p.Ser270Ter,ENST00000262041,;	C	ENSG00000106511	ENST00000262041	Transcript	stop_gained	1219	809	270	S/*	tCa/tGa	COSM1312912	.	.	-1	MEOX2	HGNC	7014	protein_coding	YES	CCDS34605.1	ENSP00000262041	MEOX2_HUMAN	Q6FHY5_HUMAN,A4D127_HUMAN	UPI000013D247	.	.	.	3/3	.	hmmpanther:PTHR24328:SF1,hmmpanther:PTHR24328	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTGATGGG	.	2	BLCA
CRHR2	0	.	GRCh37	7	30704745	30704745	+	Nonsense_Mutation	SNP	G	G	A	rs763132126	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565C>T	p.Arg189Ter	p.R189*	ENST00000348438	6/13	91	84	6	67	67	0	CRHR2,stop_gained,p.Arg162Ter,ENST00000506074,;CRHR2,stop_gained,p.Arg162Ter,ENST00000471646,;CRHR2,stop_gained,p.Arg189Ter,ENST00000348438,;CRHR2,stop_gained,p.Arg148Ter,ENST00000341843,;CRHR2,3_prime_UTR_variant,,ENST00000452278,;	A	ENSG00000106113	ENST00000348438	Transcript	stop_gained	635	565	189	R/*	Cga/Tga	rs763132126,COSM1313028,COSM1313029	.	.	-1	CRHR2	HGNC	2358	protein_coding	YES	CCDS56478.1	ENSP00000340943	CRFR2_HUMAN	.	UPI000002A720	.	.	.	6/13	.	Transmembrane_helices:TMhelix,Prints_domain:PR00249,Superfamily_domains:SSF81321,Pfam_domain:PF00002,hmmpanther:PTHR12011:SF274,hmmpanther:PTHR12011,PROSITE_profiles:PS50261	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTTCGCAGGA	byFrequency	2	BLCA
SBDS	0	.	GRCh37	7	66459244	66459244	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>T	p.%3D	p.L71L	ENST00000246868	2/5	139	128	11	166	165	1	SBDS,synonymous_variant,p.%3D,ENST00000246868,;TYW1,upstream_gene_variant,,ENST00000442959,;TYW1,upstream_gene_variant,,ENST00000359626,;TYW1,upstream_gene_variant,,ENST00000491969,;SBDS,synonymous_variant,p.%3D,ENST00000414306,;SBDS,non_coding_transcript_exon_variant,,ENST00000490953,;SBDS,non_coding_transcript_exon_variant,,ENST00000463579,;TYW1,upstream_gene_variant,,ENST00000361660,;TYW1,upstream_gene_variant,,ENST00000475392,;	A	ENSG00000126524	ENST00000246868	Transcript	synonymous_variant	397	213	71	L	ctC/ctT	COSM1313244	.	.	-1	SBDS	HGNC	19440	protein_coding	YES	CCDS5537.1	ENSP00000246868	SBDS_HUMAN	.	UPI000013559C	.	.	.	2/5	.	hmmpanther:PTHR10927,Pfam_domain:PF01172,Gene3D:3.30.1250.10,TIGRFAM_domain:TIGR00291,Superfamily_domains:SSF89895	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGATGAGATC	.	2	BLCA
PPP1R9A	0	.	GRCh37	7	94917928	94917928	+	Silent	SNP	T	T	C	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3810T>C	p.%3D	p.S1270S	ENST00000433360	19/20	118	105	12	127	127	0	PPP1R9A,synonymous_variant,p.%3D,ENST00000433360,;PPP1R9A,synonymous_variant,p.%3D,ENST00000433881,;PPP1R9A,synonymous_variant,p.%3D,ENST00000289495,;PPP1R9A,synonymous_variant,p.%3D,ENST00000340694,;PPP1R9A,intron_variant,,ENST00000424654,;PPP1R9A,intron_variant,,ENST00000456331,;	C	ENSG00000158528	ENST00000433360	Transcript	synonymous_variant	4092	3810	1270	S	tcT/tcC	COSM1313441,COSM1313440	.	.	1	PPP1R9A	HGNC	14946	protein_coding	YES	CCDS55127.1	ENSP00000405514	NEB1_HUMAN	C9J730_HUMAN,C9J3G5_HUMAN	UPI000198CF27	.	.	.	19/20	.	Superfamily_domains:SSF47769,SMART_domains:SM00454,Gene3D:1.10.150.50,Pfam_domain:PF07647,hmmpanther:PTHR16154:SF22,hmmpanther:PTHR16154,PROSITE_profiles:PS50105	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTCTCACTG	.	4	BLCA
CTHRC1	0	.	GRCh37	8	104394752	104394752	+	Missense_Mutation	SNP	C	C	T	rs771540899	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.656C>T	p.Ser219Leu	p.S219L	ENST00000330295	4/4	141	127	13	198	198	0	CTHRC1,missense_variant,p.Ser89Leu,ENST00000520880,;CTHRC1,missense_variant,p.Ser219Leu,ENST00000330295,;CTHRC1,missense_variant,p.Ser205Leu,ENST00000520337,;RP11-1C8.6,downstream_gene_variant,,ENST00000577199,;RNU6-1011P,upstream_gene_variant,,ENST00000384668,;	T	ENSG00000164932	ENST00000330295	Transcript	missense_variant	798	656	219	S/L	tCa/tTa	rs771540899,COSM1313558	.	.	1	CTHRC1	HGNC	18831	protein_coding	YES	CCDS6299.1	ENSP00000330523	CTHR1_HUMAN	E5RK99_HUMAN	UPI0000073CB3	.	deleterious(0.05)	benign(0.059)	4/4	.	hmmpanther:PTHR24637,hmmpanther:PTHR24637:SF208	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTTCAGATT	.	4	BLCA
CTHRC1	0	.	GRCh37	8	104394804	104394804	+	Silent	SNP	C	C	T	rs754161630	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708C>T	p.%3D	p.I236I	ENST00000330295	4/4	106	95	10	165	165	0	CTHRC1,synonymous_variant,p.%3D,ENST00000520880,;CTHRC1,synonymous_variant,p.%3D,ENST00000330295,;CTHRC1,synonymous_variant,p.%3D,ENST00000520337,;RP11-1C8.6,downstream_gene_variant,,ENST00000577199,;RNU6-1011P,upstream_gene_variant,,ENST00000384668,;	T	ENSG00000164932	ENST00000330295	Transcript	synonymous_variant	850	708	236	I	atC/atT	rs754161630,COSM1313559	.	.	1	CTHRC1	HGNC	18831	protein_coding	YES	CCDS6299.1	ENSP00000330523	CTHR1_HUMAN	E5RK99_HUMAN	UPI0000073CB3	.	.	.	4/4	.	hmmpanther:PTHR24637,hmmpanther:PTHR24637:SF208	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCATCATTAT	byFrequency	4	BLCA
CSMD3	0	.	GRCh37	8	113267582	113267582	+	Missense_Mutation	SNP	C	C	A	rs774163140	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9937G>T	p.Val3313Phe	p.V3313F	ENST00000297405	62/71	42	33	9	65	65	0	CSMD3,missense_variant,p.Val3243Phe,ENST00000352409,;CSMD3,missense_variant,p.Val3144Phe,ENST00000455883,;CSMD3,missense_variant,p.Val3313Phe,ENST00000297405,;CSMD3,missense_variant,p.Val2583Phe,ENST00000339701,;CSMD3,missense_variant,p.Val3273Phe,ENST00000343508,;CSMD3,non_coding_transcript_exon_variant,,ENST00000534172,;	A	ENSG00000164796	ENST00000297405	Transcript	missense_variant	10182	9937	3313	V/F	Gtt/Ttt	rs774163140	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	deleterious(0)	possibly_damaging(0.616)	62/71	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF44,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAACCTCTG	.	5	BLCA
ZNF704	0	.	GRCh37	8	81582753	81582753	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.644G>A	p.Arg215Gln	p.R215Q	ENST00000327835	5/9	133	122	11	164	164	0	ZNF704,missense_variant,p.Arg215Gln,ENST00000327835,;ZNF704,downstream_gene_variant,,ENST00000519936,;ZNF704,non_coding_transcript_exon_variant,,ENST00000520336,;ZNF704,non_coding_transcript_exon_variant,,ENST00000522040,;	T	ENSG00000164684	ENST00000327835	Transcript	missense_variant	876	644	215	R/Q	cGa/cAa	COSM1314219	.	.	-1	ZNF704	HGNC	32291	protein_coding	YES	CCDS34913.1	ENSP00000331462	ZN704_HUMAN	E5RGL7_HUMAN	UPI000035E754	.	deleterious(0)	probably_damaging(0.999)	5/9	.	PROSITE_profiles:PS50157,hmmpanther:PTHR13006,hmmpanther:PTHR13006:SF7,PROSITE_patterns:PS00028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGTTCGGATG	.	3	BLCA
BAAT	0	.	GRCh37	9	104124824	104124824	+	Silent	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1143G>A	p.%3D	p.R381R	ENST00000259407	4/4	57	51	6	84	84	0	BAAT,synonymous_variant,p.%3D,ENST00000395051,;BAAT,synonymous_variant,p.%3D,ENST00000259407,;RP11-35N6.6,downstream_gene_variant,,ENST00000447628,;	T	ENSG00000136881	ENST00000259407	Transcript	synonymous_variant	1252	1143	381	R	agG/agA	COSM1314322	.	.	-1	BAAT	HGNC	932	protein_coding	YES	CCDS6752.1	ENSP00000259407	BAAT_HUMAN	.	UPI00000715D7	.	.	.	4/4	.	PIRSF_domain:PIRSF016521,Gene3D:3.40.50.1820,Pfam_domain:PF08840,hmmpanther:PTHR10824:SF1,hmmpanther:PTHR10824	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTAACCTCAA	.	2	BLCA
KIAA0368	0	.	GRCh37	9	114176749	114176749	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2481C>T	p.%3D	p.I827I	ENST00000259335	20/51	97	81	16	122	122	0	KIAA0368,synonymous_variant,p.%3D,ENST00000338205,;KIAA0368,synonymous_variant,p.%3D,ENST00000602447,;KIAA0368,synonymous_variant,p.%3D,ENST00000259335,;RNA5SP294,upstream_gene_variant,,ENST00000411306,;	A	ENSG00000136813	ENST00000259335	Transcript	synonymous_variant	2481	2481	827	I	atC/atT	.	.	.	-1	KIAA0368	HGNC	29020	protein_coding	YES	CCDS48006.1	ENSP00000259335	.	J3KN16_HUMAN	UPI0000DD7F7A	.	.	.	20/51	.	hmmpanther:PTHR23346,hmmpanther:PTHR23346:SF19,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTAGATCTG	.	4	BLCA
AMBP	0	.	GRCh37	9	116840418	116840418	+	Silent	SNP	C	C	T	rs750913733	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>A	p.%3D	p.T24T	ENST00000265132	1/10	102	93	9	108	108	0	AMBP,synonymous_variant,p.%3D,ENST00000265132,;AMBP,upstream_gene_variant,,ENST00000466610,;AMBP,synonymous_variant,p.%3D,ENST00000603230,;AMBP,upstream_gene_variant,,ENST00000540645,;	T	ENSG00000106927	ENST00000265132	Transcript	synonymous_variant	335	72	24	T	acG/acA	rs750913733,COSM1314386	.	.	-1	AMBP	HGNC	453	protein_coding	YES	CCDS6800.1	ENSP00000265132	AMBP_HUMAN	P78492_HUMAN	UPI000000D9AF	.	.	.	1/10	.	Gene3D:2.40.128.20	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P25P|c.75G>A|3	MUTECT|MUSE|VARSCANS	GGCGGCGTTGG	byFrequency	3	BLCA
PCSK5	0	.	GRCh37	9	78938142	78938142	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4196G>A	p.Gly1399Glu	p.G1399E	ENST00000545128	31/37	53	45	8	63	63	0	PCSK5,missense_variant,p.Gly1099Glu,ENST00000424854,;PCSK5,missense_variant,p.Gly1399Glu,ENST00000545128,;	A	ENSG00000099139	ENST00000545128	Transcript	missense_variant	4734	4196	1399	G/E	gGa/gAa	COSM1314924	.	.	1	PCSK5	HGNC	8747	protein_coding	YES	CCDS55320.1	ENSP00000446280	PCSK5_HUMAN	I0EZ71_HUMAN	UPI0001DAD817	.	deleterious(0)	probably_damaging(0.994)	31/37	.	hmmpanther:PTHR10795,hmmpanther:PTHR10795:SF327,Gene3D:2.10.220.10,SMART_domains:SM00261,SMART_domains:SM00181,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGGACTGT	.	5	BLCA
ACE2	0	.	GRCh37	X	15605982	15605982	+	Splice_Site	SNP	C	C	A	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.697-1G>T	.	p.X233_splice	ENST00000427411	.	33	18	15	73	73	0	ACE2,splice_acceptor_variant,,ENST00000427411,;ACE2,splice_acceptor_variant,,ENST00000252519,;	A	ENSG00000130234	ENST00000427411	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM756709,COSM1118447	.	.	-1	ACE2	HGNC	13557	protein_coding	YES	CCDS14169.1	ENSP00000389326	ACE2_HUMAN	.	UPI000000D907	.	.	.	.	6/18	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTAATCTGAAA	.	4	BLCA
MBTPS2	0	.	GRCh37	X	21863399	21863399	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.335C>T	p.Ser112Phe	p.S112F	ENST00000379484	3/11	71	62	8	115	115	0	MBTPS2,missense_variant,p.Ser112Phe,ENST00000365779,;MBTPS2,missense_variant,p.Ser112Phe,ENST00000379484,;MBTPS2,non_coding_transcript_exon_variant,,ENST00000465888,;	T	ENSG00000012174	ENST00000379484	Transcript	missense_variant	434	335	112	S/F	tCt/tTt	COSM1315420	.	.	1	MBTPS2	HGNC	15455	protein_coding	YES	CCDS14201.1	ENSP00000368798	MBTP2_HUMAN	.	UPI000012F5A0	.	tolerated(0.1)	benign(0.382)	3/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13325:SF2,hmmpanther:PTHR13325	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCTTCTTATT	.	3	BLCA
KDM6A	0	.	GRCh37	X	44833924	44833924	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-BT-A2LD-01A-12D-A20D-08	TCGA-BT-A2LD-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.349delC	p.Gln117ArgfsTer63	p.Q117Rfs*63	ENST00000377967	4/29	59	41	18	162	162	0	KDM6A,frameshift_variant,p.Gln117ArgfsTer63,ENST00000543216,;KDM6A,frameshift_variant,p.Gln117ArgfsTer63,ENST00000382899,;KDM6A,frameshift_variant,p.Gln117ArgfsTer63,ENST00000377967,;KDM6A,frameshift_variant,p.Gln117ArgfsTer63,ENST00000536777,;KDM6A,non_coding_transcript_exon_variant,,ENST00000475233,;	-	ENSG00000147050	ENST00000377967	Transcript	frameshift_variant	389	348	116	Y/X	taC/ta	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	4/29	.	PROSITE_profiles:PS50293,PROSITE_profiles:PS50005,hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5,CODON|p.0|c.226_654del429|3,BUFFER|p.Q117*|c.349C>T|3	INDELOCATOR*|VARSCANI*|PINDEL	TGCATACCAGAG	.	3	BLCA
TRUB1	0	.	GRCh37	10	116719506	116719506	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463C>G	p.Leu155Val	p.L155V	ENST00000298746	4/8	27	24	3	44	44	0	TRUB1,missense_variant,p.Leu155Val,ENST00000298746,;TRUB1,non_coding_transcript_exon_variant,,ENST00000485065,;	G	ENSG00000165832	ENST00000298746	Transcript	missense_variant	524	463	155	L/V	Ctg/Gtg	.	.	.	1	TRUB1	HGNC	16060	protein_coding	YES	CCDS7591.1	ENSP00000298746	TRUB1_HUMAN	B4DZ90_HUMAN,B3KWQ1_HUMAN	UPI000006DEBE	.	deleterious(0)	probably_damaging(0.99)	4/8	.	HAMAP:MF_01080,hmmpanther:PTHR13767:SF2,hmmpanther:PTHR13767,Pfam_domain:PF01509,TIGRFAM_domain:TIGR00431,Superfamily_domains:SSF55120	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGAACTGGGG	.	2	BLCA
CUBN	0	.	GRCh37	10	16949662	16949662	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7550G>C	p.Arg2517Thr	p.R2517T	ENST00000377833	49/67	65	45	20	51	51	0	CUBN,missense_variant,p.Arg2517Thr,ENST00000377833,;	G	ENSG00000107611	ENST00000377833	Transcript	missense_variant	7616	7550	2517	R/T	aGa/aCa	COSM348217	.	.	-1	CUBN	HGNC	2548	protein_coding	YES	CCDS7113.1	ENSP00000367064	CUBN_HUMAN	B3KQA6_HUMAN	UPI00001AE8F4	.	tolerated(0.23)	probably_damaging(0.924)	49/67	.	PROSITE_profiles:PS01180,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCTAATG	.	5	BLCA
PIP4K2A	0	.	GRCh37	10	22856646	22856646	+	Intron	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678+134C>T	.	.	ENST00000376573	.	34	25	9	20	20	0	PIP4K2A,intron_variant,,ENST00000376573,;PIP4K2A,intron_variant,,ENST00000604912,;PIP4K2A,intron_variant,,ENST00000545335,;PIP4K2A,intron_variant,,ENST00000323883,;PIP4K2A,non_coding_transcript_exon_variant,,ENST00000422321,;	A	ENSG00000150867	ENST00000376573	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PIP4K2A	HGNC	8997	protein_coding	YES	CCDS7141.1	ENSP00000365757	PI42A_HUMAN	S4R320_HUMAN,B4DGX2_HUMAN	UPI0000001052	.	.	.	.	6/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TTCTCGCTGGT	.	2	BLCA
SLC18A3	0	.	GRCh37	10	50819479	50819479	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.693C>T	p.%3D	p.F231F	ENST00000374115	1/1	23	19	4	18	18	0	SLC18A3,synonymous_variant,p.%3D,ENST00000374115,;CHAT,intron_variant,,ENST00000339797,;CHAT,upstream_gene_variant,,ENST00000395562,;CHAT,upstream_gene_variant,,ENST00000395559,;CHAT,upstream_gene_variant,,ENST00000455728,;CHAT,upstream_gene_variant,,ENST00000337653,;CHAT,upstream_gene_variant,,ENST00000351556,;CHAT,upstream_gene_variant,,ENST00000481336,;CHAT,upstream_gene_variant,,ENST00000460699,;CHAT,upstream_gene_variant,,ENST00000490270,;CHAT,upstream_gene_variant,,ENST00000466590,;	T	ENSG00000187714	ENST00000374115	Transcript	synonymous_variant	1133	693	231	F	ttC/ttT	.	.	.	1	SLC18A3	HGNC	10936	protein_coding	YES	CCDS7231.1	ENSP00000363229	VACHT_HUMAN	.	UPI00001F98C1	.	.	.	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF103473,Pfam_domain:PF07690,Gene3D:1.20.1250.20,hmmpanther:PTHR24004,hmmpanther:PTHR24004:SF0,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTTCGGGGG	.	4	BLCA
ADAMTS14	0	.	GRCh37	10	72498682	72498682	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1693G>C	p.Gly565Arg	p.G565R	ENST00000373208	11/22	24	13	11	30	30	0	ADAMTS14,missense_variant,p.Gly565Arg,ENST00000373208,;ADAMTS14,missense_variant,p.Gly562Arg,ENST00000373207,;	C	ENSG00000138316	ENST00000373208	Transcript	missense_variant	1693	1693	565	G/R	Ggg/Cgg	.	.	.	1	ADAMTS14	HGNC	14899	protein_coding	YES	CCDS7307.1	ENSP00000362304	ATS14_HUMAN	.	UPI000013E57B	.	deleterious(0)	probably_damaging(0.989)	11/22	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50092,hmmpanther:PTHR13723:SF24,hmmpanther:PTHR13723,Gene3D:2.20.100.10,Pfam_domain:PF00090,SMART_domains:SM00209,Superfamily_domains:SSF82895,Prints_domain:PR01857	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTGGGTCA	.	5	BLCA
RNLS	0	.	GRCh37	10	90342888	90342888	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60G>A	p.%3D	p.L20L	ENST00000331772	1/7	33	16	16	44	44	0	RNLS,synonymous_variant,p.%3D,ENST00000437752,;RNLS,synonymous_variant,p.%3D,ENST00000371947,;RNLS,synonymous_variant,p.%3D,ENST00000331772,;LIPJ,upstream_gene_variant,,ENST00000371939,;Y_RNA,downstream_gene_variant,,ENST00000364678,;RNLS,non_coding_transcript_exon_variant,,ENST00000481793,;RNLS,non_coding_transcript_exon_variant,,ENST00000466945,;LIPJ,upstream_gene_variant,,ENST00000526923,;	T	ENSG00000184719	ENST00000331772	Transcript	synonymous_variant	83	60	20	L	ctG/ctA	.	.	.	-1	RNLS	HGNC	25641	protein_coding	YES	CCDS31239.1	ENSP00000332530	RNLS_HUMAN	G9G138_HUMAN,G9G137_HUMAN	UPI00001AFF46	.	.	.	1/7	.	hmmpanther:PTHR23357,Gene3D:3.50.50.60,Pfam_domain:PF13450,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGCAG	.	5	BLCA
HECTD2	0	.	GRCh37	10	93250985	93250985	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1220G>A	p.Arg407Lys	p.R407K	ENST00000298068	12/21	45	37	7	63	63	0	HECTD2,missense_variant,p.Arg407Lys,ENST00000298068,;HECTD2,missense_variant,p.Arg411Lys,ENST00000446394,;HECTD2,missense_variant,p.Arg57Lys,ENST00000371667,;HECTD2,5_prime_UTR_variant,,ENST00000536715,;HECTD2,downstream_gene_variant,,ENST00000498446,;	A	ENSG00000165338	ENST00000298068	Transcript	missense_variant	1314	1220	407	R/K	aGa/aAa	.	.	.	1	HECTD2	HGNC	26736	protein_coding	YES	CCDS7414.1	ENSP00000298068	HECD2_HUMAN	B3KV18_HUMAN	UPI0000246D14	.	tolerated(0.21)	benign(0.05)	12/21	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF69	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGAAGACAGA	.	5	BLCA
PLCE1	0	.	GRCh37	10	96006247	96006247	+	Missense_Mutation	SNP	G	G	A	rs763441024	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2965G>A	p.Val989Met	p.V989M	ENST00000371380	7/32	69	41	28	95	95	0	PLCE1,missense_variant,p.Val989Met,ENST00000371380,;PLCE1,missense_variant,p.Val989Met,ENST00000260766,;PLCE1,missense_variant,p.Val681Met,ENST00000371375,;PLCE1,missense_variant,p.Val681Met,ENST00000371385,;	A	ENSG00000138193	ENST00000371380	Transcript	missense_variant	3200	2965	989	V/M	Gtg/Atg	rs763441024	.	.	1	PLCE1	HGNC	17175	protein_coding	YES	CCDS41552.1	ENSP00000360431	PLCE1_HUMAN	B7ZM61_HUMAN	UPI00001F93EE	.	deleterious(0)	probably_damaging(0.953)	7/32	.	Gene3D:2.30.29.30,hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTCGTGGCA	byFrequency	5	BLCA
CASP4	0	.	GRCh37	11	104820425	104820425	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.626C>G	p.Ser209Cys	p.S209C	ENST00000444739	5/9	257	240	17	73	73	0	CASP4,missense_variant,p.Ser153Cys,ENST00000393150,;CASP4,missense_variant,p.Ser209Cys,ENST00000444739,;CASP4,downstream_gene_variant,,ENST00000417440,;CASP4,upstream_gene_variant,,ENST00000533252,;CASP4,non_coding_transcript_exon_variant,,ENST00000531333,;CASP4,non_coding_transcript_exon_variant,,ENST00000529183,;CASP4,non_coding_transcript_exon_variant,,ENST00000524843,;CASP4,non_coding_transcript_exon_variant,,ENST00000533730,;CASP4,non_coding_transcript_exon_variant,,ENST00000529565,;CASP4,downstream_gene_variant,,ENST00000531546,;CASP4,upstream_gene_variant,,ENST00000534356,;CASP4,upstream_gene_variant,,ENST00000530309,;CASP4,upstream_gene_variant,,ENST00000525116,;	C	ENSG00000196954	ENST00000444739	Transcript	missense_variant	1537	626	209	S/C	tCt/tGt	.	.	.	-1	CASP4	HGNC	1505	protein_coding	YES	CCDS8327.1	ENSP00000388566	CASP4_HUMAN	Q7KYX7_HUMAN,E9PMT1_HUMAN	UPI000003AEFA	.	deleterious(0)	probably_damaging(1)	5/9	.	PROSITE_profiles:PS50208,hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF137,PROSITE_patterns:PS01121,Pfam_domain:PF00656,Gene3D:3.40.50.1460,PIRSF_domain:PIRSF038001,SMART_domains:SM00115,Superfamily_domains:SSF52129,Prints_domain:PR00376	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATGAGACATG	.	2	BLCA
ATM	0	.	GRCh37	11	108165783	108165783	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4906C>T	p.Gln1636Ter	p.Q1636*	ENST00000278616	32/63	46	30	16	99	99	0	ATM,stop_gained,p.Gln1636Ter,ENST00000452508,;ATM,stop_gained,p.Gln1636Ter,ENST00000278616,;ATM,3_prime_UTR_variant,,ENST00000531525,;ATM,non_coding_transcript_exon_variant,,ENST00000531957,;ATM,non_coding_transcript_exon_variant,,ENST00000524792,;ATM,upstream_gene_variant,,ENST00000534625,;ATM,downstream_gene_variant,,ENST00000533733,;ATM,upstream_gene_variant,,ENST00000533690,;	T	ENSG00000149311	ENST00000278616	Transcript	stop_gained	5291	4906	1636	Q/*	Cag/Tag	.	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	.	.	32/63	.	Superfamily_domains:SSF48371,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAGGGT	.	5	BLCA
MUC5AC	0	.	GRCh37	11	1213058	1213058	+	RNA	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.299C>G	.	.	ENST00000358378	1/19	31	19	11	44	44	0	MUC5AC,non_coding_transcript_exon_variant,,ENST00000358378,;	G	ENSG00000215182	ENST00000358378	Transcript	non_coding_transcript_exon_variant	299	.	.	.	.	.	.	.	1	MUC5AC	HGNC	7515	processed_transcript	.	.	.	.	.	.	.	.	.	1/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCTGGTC	.	5	BLCA
LGR4	0	.	GRCh37	11	27402440	27402440	+	Splice_Site	SNP	A	A	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.830+2T>C	.	p.X277_splice	ENST00000379214	.	26	10	16	30	30	0	LGR4,splice_donor_variant,,ENST00000389858,;LGR4,splice_donor_variant,,ENST00000379214,;LGR4,downstream_gene_variant,,ENST00000480977,;LGR4,upstream_gene_variant,,ENST00000530658,;LGR4,downstream_gene_variant,,ENST00000527773,;	G	ENSG00000205213	ENST00000379214	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	LGR4	HGNC	13299	protein_coding	YES	CCDS31449.1	ENSP00000368516	LGR4_HUMAN	Q59ER8_HUMAN	UPI00000373E7	.	.	.	.	8/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTACATAG	.	5	BLCA
PCNXL3	0	.	GRCh37	11	65396146	65396146	+	Silent	SNP	C	C	T	rs772246478	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3783C>T	p.%3D	p.H1261H	ENST00000355703	23/35	25	19	6	47	47	0	PCNXL3,synonymous_variant,p.%3D,ENST00000355703,;PCNXL3,upstream_gene_variant,,ENST00000531280,;PCNXL3,non_coding_transcript_exon_variant,,ENST00000439247,;PCNXL3,downstream_gene_variant,,ENST00000530174,;	T	ENSG00000197136	ENST00000355703	Transcript	synonymous_variant	4322	3783	1261	H	caC/caT	rs772246478	.	.	1	PCNXL3	HGNC	18760	protein_coding	YES	CCDS44650.1	ENSP00000347931	PCX3_HUMAN	.	UPI0000405B22	.	.	.	23/35	.	hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCACGCTTT	byFrequency	5	BLCA
NUMA1	0	.	GRCh37	11	71724412	71724412	+	Silent	SNP	T	T	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4137A>G	p.%3D	p.K1379K	ENST00000393695	15/27	22	17	5	25	25	0	NUMA1,synonymous_variant,p.%3D,ENST00000393695,;NUMA1,synonymous_variant,p.%3D,ENST00000358965,;NUMA1,synonymous_variant,p.%3D,ENST00000541584,;NUMA1,intron_variant,,ENST00000351960,;NUMA1,downstream_gene_variant,,ENST00000537217,;NUMA1,downstream_gene_variant,,ENST00000542977,;RP11-849H4.4,upstream_gene_variant,,ENST00000502284,;NUMA1,downstream_gene_variant,,ENST00000540843,;NUMA1,downstream_gene_variant,,ENST00000534987,;NUMA1,downstream_gene_variant,,ENST00000536119,;NUMA1,upstream_gene_variant,,ENST00000545721,;NUMA1,upstream_gene_variant,,ENST00000546036,;NUMA1,upstream_gene_variant,,ENST00000540588,;	C	ENSG00000137497	ENST00000393695	Transcript	synonymous_variant	4469	4137	1379	K	aaA/aaG	.	.	.	-1	NUMA1	HGNC	8059	protein_coding	YES	CCDS31633.1	ENSP00000377298	NUMA1_HUMAN	Q9UPG3_HUMAN,Q9UNL7_HUMAN,Q86XH4_HUMAN,Q4LE64_HUMAN,G1UI36_HUMAN,F8W6T3_HUMAN,F5H7R5_HUMAN,F5H763_HUMAN,F5H6Y5_HUMAN,F5H4Y4_HUMAN,F5H4J1_HUMAN,F5H3L6_HUMAN,F5H2F3_HUMAN,F5H1L0_HUMAN,F5H0Z7_HUMAN,F5H073_HUMAN,F5H068_HUMAN,F5GZW1_HUMAN,F5GWK2_HUMAN,F5GWA2_HUMAN	UPI000013DB8B	.	.	.	15/27	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18902,hmmpanther:PTHR18902:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TGGCGTTTCTC	.	2	BLCA
TRAFD1	0	.	GRCh37	12	112578797	112578797	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>C	p.Glu138Gln	p.E138Q	ENST00000257604	5/12	62	43	19	57	57	0	TRAFD1,missense_variant,p.Glu138Gln,ENST00000552896,;TRAFD1,missense_variant,p.Glu138Gln,ENST00000257604,;TRAFD1,missense_variant,p.Glu138Gln,ENST00000412615,;TRAFD1,downstream_gene_variant,,ENST00000549358,;TRAFD1,downstream_gene_variant,,ENST00000548092,;TRAFD1,3_prime_UTR_variant,,ENST00000547063,;TRAFD1,non_coding_transcript_exon_variant,,ENST00000550051,;TRAFD1,intron_variant,,ENST00000552890,;TRAFD1,upstream_gene_variant,,ENST00000548277,;	C	ENSG00000135148	ENST00000257604	Transcript	missense_variant	1029	412	138	E/Q	Gag/Cag	.	.	.	1	TRAFD1	HGNC	24808	protein_coding	YES	CCDS9160.1	ENSP00000257604	TRAD1_HUMAN	S4R2Z9_HUMAN,F8VVF3_HUMAN,F8VNX8_HUMAN	UPI0000073DDD	.	tolerated(0.05)	benign(0.097)	5/12	.	hmmpanther:PTHR16295:SF14,hmmpanther:PTHR16295	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGAGGGG	.	5	BLCA
TRAFD1	0	.	GRCh37	12	112583419	112583419	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880G>A	p.Glu294Lys	p.E294K	ENST00000257604	7/12	117	89	28	122	122	0	TRAFD1,missense_variant,p.Glu294Lys,ENST00000257604,;TRAFD1,missense_variant,p.Glu294Lys,ENST00000412615,;TRAFD1,downstream_gene_variant,,ENST00000549358,;TRAFD1,downstream_gene_variant,,ENST00000552896,;TRAFD1,downstream_gene_variant,,ENST00000548092,;Y_RNA,upstream_gene_variant,,ENST00000363265,;TRAFD1,3_prime_UTR_variant,,ENST00000552890,;TRAFD1,non_coding_transcript_exon_variant,,ENST00000548277,;TRAFD1,downstream_gene_variant,,ENST00000550051,;TRAFD1,downstream_gene_variant,,ENST00000547063,;	A	ENSG00000135148	ENST00000257604	Transcript	missense_variant	1497	880	294	E/K	Gaa/Aaa	.	.	.	1	TRAFD1	HGNC	24808	protein_coding	YES	CCDS9160.1	ENSP00000257604	TRAD1_HUMAN	S4R2Z9_HUMAN,F8VVF3_HUMAN,F8VNX8_HUMAN	UPI0000073DDD	.	deleterious(0)	possibly_damaging(0.623)	7/12	.	hmmpanther:PTHR16295:SF14,hmmpanther:PTHR16295	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGTGAATTT	.	5	BLCA
COQ5	0	.	GRCh37	12	120960044	120960044	+	Nonsense_Mutation	SNP	G	G	A	rs754531913	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325C>T	p.Gln109Ter	p.Q109*	ENST00000288532	2/7	37	32	5	39	39	0	COQ5,stop_gained,p.Gln28Ter,ENST00000551769,;COQ5,stop_gained,p.Gln109Ter,ENST00000445328,;COQ5,stop_gained,p.Gln83Ter,ENST00000547736,;COQ5,stop_gained,p.Gln28Ter,ENST00000552443,;COQ5,stop_gained,p.Gln109Ter,ENST00000288532,;COQ5,intron_variant,,ENST00000547943,;COQ5,downstream_gene_variant,,ENST00000547448,;RPL29P24,downstream_gene_variant,,ENST00000465434,;	A	ENSG00000110871	ENST00000288532	Transcript	stop_gained	366	325	109	Q/*	Cag/Tag	rs754531913	.	.	-1	COQ5	HGNC	28722	protein_coding	YES	CCDS31912.1	ENSP00000288532	COQ5_HUMAN	F8VVX6_HUMAN,F8VP53_HUMAN	UPI00001592AF	.	.	.	2/7	.	PROSITE_profiles:PS51608,HAMAP:MF_01813,hmmpanther:PTHR10108:SF24,hmmpanther:PTHR10108,Gene3D:3.40.50.150,Pfam_domain:PF01209,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTGGGTCC	.	4	BLCA
PPFIBP1	0	.	GRCh37	12	27829454	27829454	+	Nonsense_Mutation	SNP	C	C	T	rs754653878	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1555C>T	p.Arg519Ter	p.R519*	ENST00000318304	18/29	68	42	25	78	78	0	PPFIBP1,stop_gained,p.Arg502Ter,ENST00000228425,;PPFIBP1,stop_gained,p.Arg519Ter,ENST00000318304,;PPFIBP1,stop_gained,p.Arg366Ter,ENST00000537927,;PPFIBP1,stop_gained,p.Arg194Ter,ENST00000537261,;PPFIBP1,stop_gained,p.Arg488Ter,ENST00000542629,;PPFIBP1,stop_gained,p.Arg350Ter,ENST00000540114,;PPFIBP1,upstream_gene_variant,,ENST00000540503,;	T	ENSG00000110841	ENST00000318304	Transcript	stop_gained	1838	1555	519	R/*	Cga/Tga	rs754653878	.	.	1	PPFIBP1	HGNC	9249	protein_coding	YES	CCDS55812.1	ENSP00000314724	LIPB1_HUMAN	F5H6Q7_HUMAN	UPI00004565E6	.	.	.	18/29	.	hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCGAAAA	byFrequency	5	BLCA
AMIGO2	0	.	GRCh37	12	47471522	47471522	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1264T>C	p.Cys422Arg	p.C422R	ENST00000266581	2/2	32	24	8	36	36	0	AMIGO2,missense_variant,p.Cys422Arg,ENST00000266581,;AMIGO2,missense_variant,p.Cys422Arg,ENST00000429635,;AMIGO2,missense_variant,p.Cys422Arg,ENST00000550413,;AMIGO2,missense_variant,p.Cys422Arg,ENST00000321382,;PCED1B,upstream_gene_variant,,ENST00000546455,;	G	ENSG00000139211	ENST00000266581	Transcript	missense_variant	1731	1264	422	C/R	Tgc/Cgc	.	.	.	-1	AMIGO2	HGNC	24073	protein_coding	YES	CCDS8751.1	ENSP00000266581	AMGO2_HUMAN	B3KS95_HUMAN	UPI000000DC21	.	deleterious(0)	probably_damaging(0.999)	2/2	.	hmmpanther:PTHR24368,hmmpanther:PTHR24368:SF209	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGCATGGAG	.	5	BLCA
TMEM106C	0	.	GRCh37	12	48358029	48358029	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10C>A	p.Gln4Lys	p.Q4K	ENST00000429772	2/8	15	7	8	19	19	0	TMEM106C,missense_variant,p.Gln4Lys,ENST00000548640,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000449758,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000552546,;TMEM106C,missense_variant,p.Gln3Lys,ENST00000548965,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000552561,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000549288,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000256686,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000550552,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000429772,;TMEM106C,intron_variant,,ENST00000546749,;TMEM106C,upstream_gene_variant,,ENST00000547682,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000550146,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000548355,;TMEM106C,missense_variant,p.Gln4Lys,ENST00000553217,;TMEM106C,non_coding_transcript_exon_variant,,ENST00000552187,;TMEM106C,non_coding_transcript_exon_variant,,ENST00000551705,;TMEM106C,non_coding_transcript_exon_variant,,ENST00000548153,;TMEM106C,non_coding_transcript_exon_variant,,ENST00000551305,;TMEM106C,non_coding_transcript_exon_variant,,ENST00000550161,;TMEM106C,upstream_gene_variant,,ENST00000549287,;TMEM106C,upstream_gene_variant,,ENST00000547136,;	A	ENSG00000134291	ENST00000429772	Transcript	missense_variant	123	10	4	Q/K	Cag/Aag	.	.	.	1	TMEM106C	HGNC	28775	protein_coding	YES	CCDS8758.1	ENSP00000400471	T106C_HUMAN	F8VZW0_HUMAN,F8VVN7_HUMAN	UPI000006D603	.	tolerated(0.58)	benign(0.013)	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCAGCAT	.	5	BLCA
ASB8	0	.	GRCh37	12	48543418	48543418	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>A	p.Gly200Arg	p.G200R	ENST00000317697	4/4	45	30	14	68	68	0	ASB8,missense_variant,p.Gly200Arg,ENST00000536549,;ASB8,missense_variant,p.Gly200Arg,ENST00000317697,;ASB8,3_prime_UTR_variant,,ENST00000536953,;ASB8,3_prime_UTR_variant,,ENST00000539528,;PFKM,downstream_gene_variant,,ENST00000340802,;ASB8,downstream_gene_variant,,ENST00000540212,;PFKM,downstream_gene_variant,,ENST00000395233,;PFKM,downstream_gene_variant,,ENST00000547587,;ASB8,downstream_gene_variant,,ENST00000539503,;ASB8,downstream_gene_variant,,ENST00000548228,;ASB8,downstream_gene_variant,,ENST00000535055,;ASB8,downstream_gene_variant,,ENST00000535988,;ASB8,downstream_gene_variant,,ENST00000540782,;PFKM,downstream_gene_variant,,ENST00000359794,;PFKM,downstream_gene_variant,,ENST00000312352,;ASB8,downstream_gene_variant,,ENST00000545791,;PFKM,downstream_gene_variant,,ENST00000551804,;PFKM,downstream_gene_variant,,ENST00000553055,;ASB8,downstream_gene_variant,,ENST00000536071,;ASB8,non_coding_transcript_exon_variant,,ENST00000537754,;ASB8,non_coding_transcript_exon_variant,,ENST00000536938,;ASB8,downstream_gene_variant,,ENST00000539464,;PFKM,downstream_gene_variant,,ENST00000547581,;ASB8,downstream_gene_variant,,ENST00000539865,;ASB8,downstream_gene_variant,,ENST00000540143,;PFKM,downstream_gene_variant,,ENST00000546964,;	T	ENSG00000177981	ENST00000317697	Transcript	missense_variant	768	598	200	G/R	Gga/Aga	.	.	.	-1	ASB8	HGNC	17183	protein_coding	YES	CCDS8761.1	ENSP00000320893	ASB8_HUMAN	F8VS92_HUMAN,F5H7B4_HUMAN,F5H6A7_HUMAN,F5GZZ3_HUMAN	UPI00001260EB	.	deleterious(0.02)	probably_damaging(0.996)	4/4	.	Gene3D:1.25.40.20,hmmpanther:PTHR24134:SF1,hmmpanther:PTHR24134	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTCCAAGTC	.	5	BLCA
KRT73	0	.	GRCh37	12	53005039	53005039	+	Silent	SNP	C	C	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1059G>T	p.%3D	p.L353L	ENST00000305748	6/9	31	23	7	77	77	0	KRT73,synonymous_variant,p.%3D,ENST00000552855,;KRT73,synonymous_variant,p.%3D,ENST00000305748,;RP11-641A6.2,non_coding_transcript_exon_variant,,ENST00000552364,;RP11-641A6.2,intron_variant,,ENST00000551089,;RP11-641A6.2,upstream_gene_variant,,ENST00000549180,;KRT73,non_coding_transcript_exon_variant,,ENST00000546934,;	A	ENSG00000186049	ENST00000305748	Transcript	synonymous_variant	1094	1059	353	L	ctG/ctT	.	.	.	-1	KRT73	HGNC	28928	protein_coding	YES	CCDS8834.1	ENSP00000307014	K2C73_HUMAN	.	UPI000000DCB8	.	.	.	6/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF122,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGTCAGCTC	.	5	BLCA
KRT78	0	.	GRCh37	12	53242650	53242650	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.65C>T	p.Ser22Leu	p.S22L	ENST00000304620	1/9	19	12	7	24	24	0	KRT78,missense_variant,p.Ser22Leu,ENST00000304620,;KRT78,intron_variant,,ENST00000547110,;KRT78,upstream_gene_variant,,ENST00000359499,;KRT78,upstream_gene_variant,,ENST00000551581,;	A	ENSG00000170423	ENST00000304620	Transcript	missense_variant	129	65	22	S/L	tCa/tTa	.	.	.	-1	KRT78	HGNC	28926	protein_coding	YES	CCDS8840.1	ENSP00000306261	K2C78_HUMAN	F8VS93_HUMAN,B4DQ49_HUMAN	UPI00001AEDBE	.	tolerated(0.36)	benign(0.307)	1/9	.	hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF127,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCCTTGAGCGA	.	4	BLCA
CAND1	0	.	GRCh37	12	67703715	67703715	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3060G>A	p.%3D	p.L1020L	ENST00000545606	12/15	70	47	23	94	94	0	CAND1,synonymous_variant,p.%3D,ENST00000545606,;CAND1,synonymous_variant,p.%3D,ENST00000544619,;CAND1,3_prime_UTR_variant,,ENST00000540319,;	A	ENSG00000111530	ENST00000545606	Transcript	synonymous_variant	3497	3060	1020	L	ttG/ttA	.	.	.	1	CAND1	HGNC	30688	protein_coding	YES	CCDS8977.1	ENSP00000442318	CAND1_HUMAN	F5H6I6_HUMAN,B3KMG3_HUMAN	UPI0000037CC5	.	.	.	12/15	.	hmmpanther:PTHR12696:SF1,hmmpanther:PTHR12696,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTGAATGT	.	5	BLCA
TSPAN8	0	.	GRCh37	12	71531816	71531816	+	Missense_Mutation	SNP	G	G	C	rs751276179	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361C>G	p.Leu121Val	p.L121V	ENST00000393330	9/12	95	68	27	115	115	0	TSPAN8,missense_variant,p.Leu38Val,ENST00000552128,;TSPAN8,missense_variant,p.Leu121Val,ENST00000546561,;TSPAN8,missense_variant,p.Leu121Val,ENST00000247829,;TSPAN8,missense_variant,p.Leu121Val,ENST00000393330,;TSPAN8,downstream_gene_variant,,ENST00000552786,;	C	ENSG00000127324	ENST00000393330	Transcript	missense_variant	914	361	121	L/V	Ctc/Gtc	rs751276179	.	.	-1	TSPAN8	HGNC	11855	protein_coding	YES	CCDS8999.1	ENSP00000377003	TSN8_HUMAN	.	UPI000003EE40	.	tolerated(0.08)	benign(0.173)	9/12	.	hmmpanther:PTHR19282,hmmpanther:PTHR19282:SF33,Pfam_domain:PF00335,PIRSF_domain:PIRSF002419	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAGAGAGTTT	.	5	BLCA
NAP1L1	0	.	GRCh37	12	76461231	76461231	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126G>C	p.Met42Ile	p.M42I	ENST00000261182	4/15	60	48	12	64	64	0	NAP1L1,start_lost,p.Met1?,ENST00000542344,;NAP1L1,start_lost,p.Met1?,ENST00000548044,;NAP1L1,start_lost,p.Met1?,ENST00000551524,;NAP1L1,start_lost,p.Met1?,ENST00000431879,;NAP1L1,start_lost,p.Met1?,ENST00000548273,;NAP1L1,missense_variant,p.Met42Ile,ENST00000550934,;NAP1L1,missense_variant,p.Met42Ile,ENST00000535020,;NAP1L1,missense_variant,p.Met42Ile,ENST00000547704,;NAP1L1,missense_variant,p.Met42Ile,ENST00000552342,;NAP1L1,missense_variant,p.Met42Ile,ENST00000393263,;NAP1L1,missense_variant,p.Met42Ile,ENST00000551600,;NAP1L1,missense_variant,p.Met42Ile,ENST00000551992,;NAP1L1,missense_variant,p.Met42Ile,ENST00000547479,;NAP1L1,missense_variant,p.Met36Ile,ENST00000552056,;NAP1L1,missense_variant,p.Met42Ile,ENST00000549596,;NAP1L1,missense_variant,p.Met42Ile,ENST00000261182,;NAP1L1,intron_variant,,ENST00000544816,;NAP1L1,intron_variant,,ENST00000547773,;NAP1L1,missense_variant,p.Met4Ile,ENST00000552147,;NAP1L1,intron_variant,,ENST00000549988,;NAP1L1,upstream_gene_variant,,ENST00000547529,;NAP1L1,downstream_gene_variant,,ENST00000549479,;	G	ENSG00000187109	ENST00000261182	Transcript	missense_variant	613	126	42	M/I	atG/atC	.	.	.	-1	NAP1L1	HGNC	7637	protein_coding	YES	CCDS9013.1	ENSP00000261182	NP1L1_HUMAN	H0YIV4_HUMAN,F8W118_HUMAN,F8VY35_HUMAN,F8VRJ2_HUMAN,B7Z4K9_HUMAN	UPI0000052A55	.	tolerated(0.24)	benign(0.007)	4/15	.	hmmpanther:PTHR11875:SF34,hmmpanther:PTHR11875	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATCATCTG	.	5	BLCA
ACSS3	0	.	GRCh37	12	81472038	81472038	+	Missense_Mutation	SNP	G	G	C	rs751989029	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.139G>C	p.Gly47Arg	p.G47R	ENST00000548058	1/16	25	21	4	24	24	0	ACSS3,missense_variant,p.Gly47Arg,ENST00000261206,;ACSS3,missense_variant,p.Gly47Arg,ENST00000548058,;ACSS3,intron_variant,,ENST00000549175,;	C	ENSG00000111058	ENST00000548058	Transcript	missense_variant	1049	139	47	G/R	Ggg/Cgg	rs751989029	.	.	1	ACSS3	HGNC	24723	protein_coding	YES	CCDS9022.1	ENSP00000449535	ACSS3_HUMAN	F8VZB4_HUMAN	UPI000007060A	.	deleterious_low_confidence(0)	possibly_damaging(0.505)	1/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24095,hmmpanther:PTHR24095:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTCGGGGGC	.	4	BLCA
DCUN1D2	0	.	GRCh37	13	114138263	114138263	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>C	p.Asp38His	p.D38H	ENST00000478244	2/7	75	45	30	121	121	0	DCUN1D2,missense_variant,p.Asp38His,ENST00000478244,;DCUN1D2,missense_variant,p.Asp23His,ENST00000465938,;DCUN1D2,missense_variant,p.Asp23His,ENST00000439909,;DCUN1D2,missense_variant,p.Asp38His,ENST00000375399,;DCUN1D2,intron_variant,,ENST00000332592,;DCUN1D2,intron_variant,,ENST00000496873,;DCUN1D2,downstream_gene_variant,,ENST00000465710,;RNU1-16P,upstream_gene_variant,,ENST00000365477,;DCUN1D2,non_coding_transcript_exon_variant,,ENST00000460318,;DCUN1D2,missense_variant,p.Asp38His,ENST00000375403,;DCUN1D2,missense_variant,p.Asp96His,ENST00000438545,;	G	ENSG00000150401	ENST00000478244	Transcript	missense_variant	395	112	38	D/H	Gac/Cac	.	.	.	-1	DCUN1D2	HGNC	20328	protein_coding	YES	CCDS32013.1	ENSP00000417706	DCNL2_HUMAN	C9JRE2_HUMAN,C9JAV2_HUMAN	UPI00001CE006	.	deleterious(0)	possibly_damaging(0.548)	2/7	.	hmmpanther:PTHR12281:SF1,hmmpanther:PTHR12281,Gene3D:1.10.8.10,Pfam_domain:PF14555,Superfamily_domains:SSF46934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCGTCTAGTC	.	5	BLCA
FREM2	0	.	GRCh37	13	39263328	39263328	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1847A>C	p.His616Pro	p.H616P	ENST00000280481	1/24	32	22	10	45	44	0	FREM2,missense_variant,p.His616Pro,ENST00000280481,;	C	ENSG00000150893	ENST00000280481	Transcript	missense_variant	2063	1847	616	H/P	cAc/cCc	.	.	.	1	FREM2	HGNC	25396	protein_coding	YES	CCDS31960.1	ENSP00000280481	FREM2_HUMAN	.	UPI00005520B9	.	deleterious(0.02)	benign(0.055)	1/24	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AACTCACCCTC	.	4	BLCA
AHNAK2	0	.	GRCh37	14	105413767	105413767	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8021C>G	p.Ser2674Cys	p.S2674C	ENST00000333244	7/7	178	92	86	180	180	0	AHNAK2,missense_variant,p.Ser2674Cys,ENST00000333244,;AHNAK2,intron_variant,,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	C	ENSG00000185567	ENST00000333244	Transcript	missense_variant	8141	8021	2674	S/C	tCt/tGt	.	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	probably_damaging(0.976)	7/7	.	hmmpanther:PTHR23348:SF37,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCAGACACA	.	5	BLCA
C14orf79	0	.	GRCh37	14	105452804	105452804	+	Missense_Mutation	SNP	G	G	C	rs377403388	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36G>C	p.Leu12Phe	p.L12F	ENST00000547315	1/5	35	15	20	31	31	0	C14orf79,missense_variant,p.Leu12Phe,ENST00000547315,;C14orf79,intron_variant,,ENST00000551606,;C14orf79,upstream_gene_variant,,ENST00000549240,;C14orf79,upstream_gene_variant,,ENST00000550614,;C14orf79,upstream_gene_variant,,ENST00000549584,;C14orf79,missense_variant,p.Leu12Phe,ENST00000548641,;C14orf79,missense_variant,p.Leu12Phe,ENST00000389964,;C14orf79,intron_variant,,ENST00000551046,;	C	ENSG00000140104	ENST00000547315	Transcript	missense_variant	675	36	12	L/F	ttG/ttC	rs377403388	.	.	1	C14orf79	HGNC	20126	protein_coding	YES	CCDS42000.1	ENSP00000450114	CN079_HUMAN	J3KRA4_HUMAN,F8VUA8_HUMAN	UPI0000DACAC2	.	tolerated(0.08)	possibly_damaging(0.79)	1/5	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTGAGTGA	.	5	BLCA
ARHGEF40	0	.	GRCh37	14	21543035	21543035	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1146G>C	p.Lys382Asn	p.K382N	ENST00000298694	3/24	26	22	4	56	56	0	ARHGEF40,missense_variant,p.Lys382Asn,ENST00000555038,;ARHGEF40,missense_variant,p.Lys382Asn,ENST00000298694,;ARHGEF40,missense_variant,p.Lys382Asn,ENST00000298693,;NDRG2,upstream_gene_variant,,ENST00000403829,;ARHGEF40,missense_variant,p.Lys382Asn,ENST00000556399,;ARHGEF40,missense_variant,p.Lys382Asn,ENST00000553709,;ARHGEF40,non_coding_transcript_exon_variant,,ENST00000555052,;ARHGEF40,intron_variant,,ENST00000555232,;	C	ENSG00000165801	ENST00000298694	Transcript	missense_variant	1273	1146	382	K/N	aaG/aaC	COSM552589	.	.	1	ARHGEF40	HGNC	25516	protein_coding	YES	CCDS32041.1	ENSP00000298694	ARH40_HUMAN	.	UPI00001FCFB7	.	deleterious(0)	probably_damaging(0.977)	3/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22826:SF108,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAAAGAAGCG	.	2	BLCA
TRAV23DV6	0	.	GRCh37	14	22554943	22554943	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69G>C	p.Gln23His	p.Q23H	ENST00000390451	2/2	19	15	3	30	30	0	TRAV23DV6,missense_variant,p.Gln23His,ENST00000390451,;	C	ENSG00000211803	ENST00000390451	Transcript	missense_variant	114	69	23	Q/H	caG/caC	.	.	.	1	TRAV23DV6	HGNC	12120	TR_V_gene	YES	.	ENSP00000451203	.	A0JD19_HUMAN	UPI000011D126	.	deleterious(0.01)	probably_damaging(0.928)	2/2	.	hmmpanther:PTHR19343	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CAACAGAAGGA	.	4	BLCA
TRMT5	0	.	GRCh37	14	61446417	61446417	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199G>C	p.Glu67Gln	p.E67Q	ENST00000261249	2/5	100	42	57	115	115	0	TRMT5,missense_variant,p.Glu67Gln,ENST00000261249,;TRMT5,missense_variant,p.Glu94Gln,ENST00000555420,;TRMT5,missense_variant,p.Glu95Gln,ENST00000553903,;SLC38A6,upstream_gene_variant,,ENST00000451406,;SLC38A6,upstream_gene_variant,,ENST00000456840,;SLC38A6,upstream_gene_variant,,ENST00000267488,;SLC38A6,upstream_gene_variant,,ENST00000526105,;SLC38A6,upstream_gene_variant,,ENST00000354886,;SLC38A6,upstream_gene_variant,,ENST00000533744,;RP11-193F5.1,intron_variant,,ENST00000553946,;SLC38A6,upstream_gene_variant,,ENST00000532148,;SLC38A6,upstream_gene_variant,,ENST00000554304,;SLC38A6,upstream_gene_variant,,ENST00000491344,;SLC38A6,upstream_gene_variant,,ENST00000525723,;SLC38A6,upstream_gene_variant,,ENST00000528350,;SLC38A6,upstream_gene_variant,,ENST00000529345,;SLC38A6,upstream_gene_variant,,ENST00000525585,;SLC38A6,upstream_gene_variant,,ENST00000527591,;SLC38A6,upstream_gene_variant,,ENST00000524402,;	G	ENSG00000126814	ENST00000261249	Transcript	missense_variant	584	199	67	E/Q	Gag/Cag	.	.	.	-1	TRMT5	HGNC	23141	protein_coding	YES	CCDS32092.1	ENSP00000261249	TRM5_HUMAN	.	UPI000016003D	.	tolerated_low_confidence(0.43)	benign(0.001)	2/5	.	hmmpanther:PTHR23245:SF25,hmmpanther:PTHR23245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCATGTG	.	5	BLCA
RIN3	0	.	GRCh37	14	93119203	93119203	+	Silent	SNP	G	G	A	rs756908494	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1809G>A	p.%3D	p.K603K	ENST00000216487	6/10	39	23	15	39	39	0	RIN3,synonymous_variant,p.%3D,ENST00000216487,;RIN3,synonymous_variant,p.%3D,ENST00000556418,;RIN3,non_coding_transcript_exon_variant,,ENST00000418924,;RIN3,downstream_gene_variant,,ENST00000553992,;RIN3,3_prime_UTR_variant,,ENST00000555589,;	A	ENSG00000100599	ENST00000216487	Transcript	synonymous_variant	1968	1809	603	K	aaG/aaA	rs756908494	.	.	1	RIN3	HGNC	18751	protein_coding	YES	CCDS32144.1	ENSP00000216487	RIN3_HUMAN	Q5CZ74_HUMAN	UPI00001C1C97	.	.	.	6/10	.	hmmpanther:PTHR23101:SF58,hmmpanther:PTHR23101	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACAAGAAGGT	.	5	BLCA
SERPINA12	0	.	GRCh37	14	94953706	94953706	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1179G>A	p.%3D	p.L393L	ENST00000341228	6/6	64	52	11	72	72	0	SERPINA12,synonymous_variant,p.%3D,ENST00000556881,;SERPINA12,synonymous_variant,p.%3D,ENST00000341228,;	T	ENSG00000165953	ENST00000341228	Transcript	synonymous_variant	1975	1179	393	L	ctG/ctA	.	.	.	-1	SERPINA12	HGNC	18359	protein_coding	YES	CCDS9926.1	ENSP00000342109	SPA12_HUMAN	.	UPI000000D86C	.	.	.	6/6	.	hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF149,Pfam_domain:PF00079,Gene3D:2.30.39.10,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATCAGCAG	.	5	BLCA
LINS	0	.	GRCh37	15	101120807	101120807	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241C>G	p.Gln81Glu	p.Q81E	ENST00000314742	2/7	22	10	12	48	48	0	LINS,missense_variant,p.Gln81Glu,ENST00000560272,;LINS,missense_variant,p.Gln81Glu,ENST00000559736,;LINS,missense_variant,p.Gln81Glu,ENST00000560934,;LINS,missense_variant,p.Gln81Glu,ENST00000561308,;LINS,missense_variant,p.Gln81Glu,ENST00000314742,;LINS,missense_variant,p.Gln81Glu,ENST00000559577,;LINS,5_prime_UTR_variant,,ENST00000560941,;LINS,intron_variant,,ENST00000560133,;LINS,non_coding_transcript_exon_variant,,ENST00000561073,;LINS,non_coding_transcript_exon_variant,,ENST00000559149,;LINS,downstream_gene_variant,,ENST00000559827,;	C	ENSG00000140471	ENST00000314742	Transcript	missense_variant	464	241	81	Q/E	Cag/Gag	.	.	.	-1	LINS	HGNC	30922	protein_coding	YES	CCDS10385.1	ENSP00000318423	LINES_HUMAN	H3BNS6_HUMAN,H0YMQ0_HUMAN,H0YMK4_HUMAN,H0YM78_HUMAN,H0YKU3_HUMAN	UPI000013D795	.	tolerated(0.51)	benign(0.005)	2/7	.	hmmpanther:PTHR16057:SF1,hmmpanther:PTHR16057	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTGAGAGT	.	5	BLCA
UBE3A	0	.	GRCh37	15	25616267	25616267	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1063G>A	p.Glu355Lys	p.E355K	ENST00000397954	4/11	117	103	14	116	116	0	UBE3A,missense_variant,p.Glu332Lys,ENST00000566215,;UBE3A,missense_variant,p.Glu355Lys,ENST00000397954,;UBE3A,missense_variant,p.Glu332Lys,ENST00000438097,;UBE3A,missense_variant,p.Glu332Lys,ENST00000428984,;UBE3A,missense_variant,p.Glu352Lys,ENST00000232165,;SNHG14,intron_variant,,ENST00000554726,;	T	ENSG00000114062	ENST00000397954	Transcript	missense_variant	1063	1063	355	E/K	Gaa/Aaa	.	.	.	-1	UBE3A	HGNC	12496	protein_coding	YES	CCDS45192.1	ENSP00000381045	UBE3A_HUMAN	Q9UBN9_HUMAN,Q9H2G0_HUMAN,Q96GR7_HUMAN	UPI0000161F3B	.	tolerated(0.15)	benign(0.066)	4/11	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF301,PIRSF_domain:PIRSF037201	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAATTCATTGC	.	4	BLCA
GABRA5	0	.	GRCh37	15	27182443	27182443	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.692C>T	p.Thr231Met	p.T231M	ENST00000335625	8/11	55	45	10	26	26	0	GABRA5,missense_variant,p.Thr231Met,ENST00000355395,;GABRA5,missense_variant,p.Thr231Met,ENST00000400081,;GABRA5,missense_variant,p.Thr231Met,ENST00000335625,;GABRB3,intron_variant,,ENST00000541819,;GABRA5,downstream_gene_variant,,ENST00000555182,;	T	ENSG00000186297	ENST00000335625	Transcript	missense_variant	1580	692	231	T/M	aCg/aTg	.	.	.	1	GABRA5	HGNC	4079	protein_coding	YES	CCDS45194.1	ENSP00000335592	GBRA5_HUMAN	G3V408_HUMAN,G3V2Q9_HUMAN,G3V2K2_HUMAN,G3V2G8_HUMAN,G3V296_HUMAN,B4E1A2_HUMAN	UPI000002D731	.	deleterious(0.02)	possibly_damaging(0.863)	8/11	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF215,Pfam_domain:PF02931,TIGRFAM_domain:TIGR00860,Gene3D:2.70.170.10,Superfamily_domains:0038932,Prints_domain:PR01079	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGACGGTGG	.	5	BLCA
BAHD1	0	.	GRCh37	15	40757594	40757594	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113G>C	p.Glu705Gln	p.E705Q	ENST00000416165	6/7	28	15	12	46	46	0	BAHD1,missense_variant,p.Glu702Gln,ENST00000560846,;BAHD1,missense_variant,p.Glu705Gln,ENST00000416165,;BAHD1,missense_variant,p.Glu704Gln,ENST00000561234,;RP11-64K12.8,splice_region_variant,,ENST00000559730,;BAHD1,non_coding_transcript_exon_variant,,ENST00000561464,;	C	ENSG00000140320	ENST00000416165	Transcript	missense_variant	2184	2113	705	E/Q	Gag/Cag	.	.	.	1	BAHD1	HGNC	29153	protein_coding	YES	CCDS10058.1	ENSP00000396976	BAHD1_HUMAN	.	UPI000013D778	.	deleterious(0.01)	probably_damaging(0.988)	6/7	.	PROSITE_profiles:PS51038,hmmpanther:PTHR12505,Pfam_domain:PF01426,SMART_domains:SM00439	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTGAGGAG	.	5	BLCA
SLTM	0	.	GRCh37	15	59182515	59182515	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2044G>A	p.Glu682Lys	p.E682K	ENST00000380516	15/21	70	38	32	132	131	1	SLTM,missense_variant,p.Glu248Lys,ENST00000432750,;SLTM,missense_variant,p.Glu682Lys,ENST00000380516,;SLTM,missense_variant,p.Glu251Lys,ENST00000536328,;RNF111,intron_variant,,ENST00000559757,;SLTM,downstream_gene_variant,,ENST00000249736,;SLTM,upstream_gene_variant,,ENST00000557791,;SLTM,upstream_gene_variant,,ENST00000560494,;AC025918.2,intron_variant,,ENST00000452467,;SLTM,3_prime_UTR_variant,,ENST00000492526,;SLTM,3_prime_UTR_variant,,ENST00000557924,;SLTM,intron_variant,,ENST00000558734,;SLTM,downstream_gene_variant,,ENST00000559305,;SLTM,downstream_gene_variant,,ENST00000473359,;SLTM,downstream_gene_variant,,ENST00000558756,;SLTM,upstream_gene_variant,,ENST00000558052,;SLTM,upstream_gene_variant,,ENST00000493062,;SLTM,downstream_gene_variant,,ENST00000497088,;SLTM,upstream_gene_variant,,ENST00000560695,;	T	ENSG00000137776	ENST00000380516	Transcript	missense_variant	2132	2044	682	E/K	Gaa/Aaa	.	.	.	-1	SLTM	HGNC	20709	protein_coding	YES	CCDS10168.2	ENSP00000369887	SLTM_HUMAN	H0YKH2_HUMAN,A8K5V8_HUMAN	UPI0000039EA4	.	deleterious(0)	unknown(0)	15/21	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15683,hmmpanther:PTHR15683:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTTCGCGTT	.	5	BLCA
UACA	0	.	GRCh37	15	70994351	70994351	+	Intron	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.79-2352C>T	.	.	ENST00000322954	.	13	7	6	15	15	0	UACA,5_prime_UTR_variant,,ENST00000558758,;UACA,5_prime_UTR_variant,,ENST00000379983,;UACA,5_prime_UTR_variant,,ENST00000560441,;UACA,intron_variant,,ENST00000539319,;UACA,intron_variant,,ENST00000322954,;UACA,intron_variant,,ENST00000560167,;UACA,upstream_gene_variant,,ENST00000560523,;	A	ENSG00000137831	ENST00000322954	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	UACA	HGNC	15947	protein_coding	YES	CCDS10235.1	ENSP00000314556	UACA_HUMAN	.	UPI000006DCF3	.	.	.	.	1/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCCTGACAAG	.	3	BLCA
IREB2	0	.	GRCh37	15	78755364	78755364	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207G>C	p.Trp69Cys	p.W69C	ENST00000258886	3/22	63	30	32	136	136	0	IREB2,missense_variant,p.Trp69Cys,ENST00000258886,;IREB2,missense_variant,p.Trp12Cys,ENST00000560840,;IREB2,missense_variant,p.Trp69Cys,ENST00000560440,;IREB2,downstream_gene_variant,,ENST00000560454,;IREB2,upstream_gene_variant,,ENST00000559427,;IREB2,missense_variant,p.Trp69Cys,ENST00000558570,;IREB2,3_prime_UTR_variant,,ENST00000558525,;IREB2,intron_variant,,ENST00000559215,;	C	ENSG00000136381	ENST00000258886	Transcript	missense_variant	356	207	69	W/C	tgG/tgC	.	.	.	1	IREB2	HGNC	6115	protein_coding	YES	CCDS10302.1	ENSP00000258886	IREB2_HUMAN	H0YLE0_HUMAN	UPI00001C1F8E	.	deleterious(0)	probably_damaging(0.99)	3/22	.	hmmpanther:PTHR11670:SF31,hmmpanther:PTHR11670,Gene3D:3.30.499.10,Pfam_domain:PF00330,Superfamily_domains:SSF53732	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTGGAAAAC	.	5	BLCA
CHD2	0	.	GRCh37	15	93534736	93534736	+	Silent	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3444C>G	p.%3D	p.L1148L	ENST00000394196	27/39	39	17	22	65	65	0	CHD2,synonymous_variant,p.%3D,ENST00000557381,;CHD2,synonymous_variant,p.%3D,ENST00000394196,;	G	ENSG00000173575	ENST00000394196	Transcript	synonymous_variant	4512	3444	1148	L	ctC/ctG	.	.	.	1	CHD2	HGNC	1917	protein_coding	YES	CCDS10374.2	ENSP00000377747	CHD2_HUMAN	Q6AI05_HUMAN,Q3YLD6_HUMAN,Q3YLD5_HUMAN,G3V4S8_HUMAN,G3V418_HUMAN	UPI0000E8A85C	.	.	.	27/39	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF538	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCCCTCT	.	5	BLCA
ZC3H7A	0	.	GRCh37	16	11855796	11855796	+	Missense_Mutation	SNP	C	C	G	rs542317728	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2183G>C	p.Arg728Thr	p.R728T	ENST00000396516	17/22	21	11	10	54	54	0	ZC3H7A,missense_variant,p.Arg728Thr,ENST00000396516,;ZC3H7A,missense_variant,p.Arg638Thr,ENST00000571198,;ZC3H7A,missense_variant,p.Arg728Thr,ENST00000355758,;ZC3H7A,upstream_gene_variant,,ENST00000575984,;ZC3H7A,missense_variant,p.Arg180Thr,ENST00000571405,;ZC3H7A,downstream_gene_variant,,ENST00000572938,;ZC3H7A,upstream_gene_variant,,ENST00000570862,;ZC3H7A,downstream_gene_variant,,ENST00000575041,;ZC3H7A,downstream_gene_variant,,ENST00000571676,;ZC3H7A,downstream_gene_variant,,ENST00000576247,;	G	ENSG00000122299	ENST00000396516	Transcript	missense_variant	2381	2183	728	R/T	aGa/aCa	rs542317728	.	.	-1	ZC3H7A	HGNC	30959	protein_coding	YES	CCDS10550.1	ENSP00000379773	Z3H7A_HUMAN	I3L3S2_HUMAN,I3L3F9_HUMAN,I3L382_HUMAN,I3L1Y3_HUMAN	UPI000000DB79	.	tolerated(0.15)	possibly_damaging(0.597)	17/22	.	hmmpanther:PTHR14928,hmmpanther:PTHR14928:SF13	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTGTTT	by1000G	5	BLCA
ZC3H7A	0	.	GRCh37	16	11855861	11855861	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2118G>A	p.Met706Ile	p.M706I	ENST00000396516	17/22	23	17	6	33	33	0	ZC3H7A,missense_variant,p.Met706Ile,ENST00000396516,;ZC3H7A,missense_variant,p.Met616Ile,ENST00000571198,;ZC3H7A,missense_variant,p.Met706Ile,ENST00000355758,;ZC3H7A,upstream_gene_variant,,ENST00000575984,;ZC3H7A,missense_variant,p.Met158Ile,ENST00000571405,;ZC3H7A,non_coding_transcript_exon_variant,,ENST00000572938,;ZC3H7A,upstream_gene_variant,,ENST00000570862,;ZC3H7A,downstream_gene_variant,,ENST00000575041,;ZC3H7A,downstream_gene_variant,,ENST00000571676,;ZC3H7A,downstream_gene_variant,,ENST00000576247,;	T	ENSG00000122299	ENST00000396516	Transcript	missense_variant	2316	2118	706	M/I	atG/atA	.	.	.	-1	ZC3H7A	HGNC	30959	protein_coding	YES	CCDS10550.1	ENSP00000379773	Z3H7A_HUMAN	I3L3S2_HUMAN,I3L3F9_HUMAN,I3L382_HUMAN,I3L1Y3_HUMAN	UPI000000DB79	.	deleterious(0.01)	benign(0.027)	17/22	.	hmmpanther:PTHR14928,hmmpanther:PTHR14928:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCTTCATATT	.	3	BLCA
RP11-457I16.2	0	.	GRCh37	16	18584376	18584376	+	5'Flank	SNP	C	C	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000602805	.	9	5	4	22	22	0	RP11-457I16.2,upstream_gene_variant,,ENST00000602805,;RP11-457I16.2,upstream_gene_variant,,ENST00000561676,;ABCC6P1,non_coding_transcript_exon_variant,,ENST00000565118,;ABCC6P1,non_coding_transcript_exon_variant,,ENST00000565647,;ABCC6P1,non_coding_transcript_exon_variant,,ENST00000546162,;ABCC6P1,non_coding_transcript_exon_variant,,ENST00000565566,;ABCC6P1,non_coding_transcript_exon_variant,,ENST00000600761,;	A	ENSG00000260550	ENST00000602805	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1986	-1	RP11-457I16.2	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAGCCAAGAT	.	2	BLCA
SCNN1G	0	.	GRCh37	16	23197757	23197757	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165C>T	p.%3D	p.L55L	ENST00000300061	2/13	32	18	14	55	55	0	SCNN1G,synonymous_variant,p.%3D,ENST00000300061,;	T	ENSG00000166828	ENST00000300061	Transcript	synonymous_variant	308	165	55	L	ctC/ctT	.	.	.	1	SCNN1G	HGNC	10602	protein_coding	YES	CCDS10608.1	ENSP00000300061	SCNNG_HUMAN	Q6LCK5_HUMAN,A5X2V1_HUMAN	UPI0000070D86	.	.	.	2/13	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11690:SF19,hmmpanther:PTHR11690,Pfam_domain:PF00858,TIGRFAM_domain:TIGR00859,Prints_domain:PR01078	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTGGAT	.	5	BLCA
CLN3	0	.	GRCh37	16	28488866	28488866	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1288C>G	p.Leu430Val	p.L430V	ENST00000569430	17/17	61	37	24	55	55	0	CLN3,missense_variant,p.Leu330Val,ENST00000395653,;CLN3,missense_variant,p.Leu413Val,ENST00000354630,;CLN3,missense_variant,p.Leu376Val,ENST00000357857,;CLN3,missense_variant,p.Leu333Val,ENST00000567963,;CLN3,missense_variant,p.Leu430Val,ENST00000569430,;CLN3,missense_variant,p.Leu413Val,ENST00000565316,;CLN3,missense_variant,p.Leu430Val,ENST00000359984,;CLN3,missense_variant,p.Leu430Val,ENST00000360019,;CLN3,missense_variant,p.Leu406Val,ENST00000333496,;CLN3,missense_variant,p.Leu382Val,ENST00000355477,;CLN3,missense_variant,p.Leu352Val,ENST00000535392,;CLN3,missense_variant,p.Leu331Val,ENST00000357806,;CLN3,downstream_gene_variant,,ENST00000357076,;CLN3,downstream_gene_variant,,ENST00000568558,;CLN3,downstream_gene_variant,,ENST00000565778,;CLN3,downstream_gene_variant,,ENST00000568472,;CLN3,downstream_gene_variant,,ENST00000565047,;CLN3,missense_variant,p.Leu352Val,ENST00000568224,;CLN3,missense_variant,p.Leu127Val,ENST00000564091,;CLN3,3_prime_UTR_variant,,ENST00000566057,;CLN3,3_prime_UTR_variant,,ENST00000565140,;CLN3,3_prime_UTR_variant,,ENST00000569030,;CLN3,3_prime_UTR_variant,,ENST00000568422,;CLN3,non_coding_transcript_exon_variant,,ENST00000563874,;CLN3,non_coding_transcript_exon_variant,,ENST00000561689,;CLN3,non_coding_transcript_exon_variant,,ENST00000565354,;CLN3,non_coding_transcript_exon_variant,,ENST00000568452,;CLN3,non_coding_transcript_exon_variant,,ENST00000568076,;CLN3,downstream_gene_variant,,ENST00000566083,;CLN3,downstream_gene_variant,,ENST00000564574,;CLN3,downstream_gene_variant,,ENST00000566824,;CLN3,downstream_gene_variant,,ENST00000567495,;CLN3,downstream_gene_variant,,ENST00000568497,;	C	ENSG00000188603	ENST00000569430	Transcript	missense_variant	2108	1288	430	L/V	Ctg/Gtg	.	.	.	-1	CLN3	HGNC	2074	protein_coding	YES	CCDS10632.1	ENSP00000454229	CLN3_HUMAN	H3BPL0_HUMAN,B4DXV0_HUMAN,B4DFF3_HUMAN	UPI00000000ED	.	tolerated(1)	benign(0.047)	17/17	.	Prints_domain:PR01315,Superfamily_domains:SSF103473,PIRSF_domain:PIRSF015974,Pfam_domain:PF02487,hmmpanther:PTHR10981,hmmpanther:PTHR10981:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCAGAGGCA	.	5	BLCA
TAOK2	0	.	GRCh37	16	29998300	29998302	+	In_Frame_Del	DEL	GAA	GAA	-	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	GAA	GAA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2712_2714delAGA	p.Glu907del	p.E907del	ENST00000308893	16/16	71	53	18	79	79	0	TAOK2,inframe_deletion,p.Glu734del,ENST00000416441,;TAOK2,inframe_deletion,p.Glu794del,ENST00000543033,;TAOK2,inframe_deletion,p.Glu907del,ENST00000308893,;TAOK2,intron_variant,,ENST00000279394,;TAOK2,non_coding_transcript_exon_variant,,ENST00000566552,;TAOK2,upstream_gene_variant,,ENST00000570844,;	-	ENSG00000149930	ENST00000308893	Transcript	inframe_deletion	3750-3752	2707-2709	903	E/-	GAA/-	.	.	.	1	TAOK2	HGNC	16835	protein_coding	YES	CCDS10663.1	ENSP00000310094	TAOK2_HUMAN	.	UPI000013EDDA	.	.	.	16/16	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAGGAGGAAGAAGA	.	3	BLCA
ANKS3	0	.	GRCh37	16	4750782	4750782	+	Intron	SNP	G	G	C	rs748730013	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1284+189C>G	.	.	ENST00000304283	.	24	11	13	21	21	0	ANKS3,missense_variant,p.Phe285Leu,ENST00000450067,;ANKS3,intron_variant,,ENST00000304283,;ANKS3,intron_variant,,ENST00000446014,;ANKS3,intron_variant,,ENST00000588513,;ANKS3,intron_variant,,ENST00000585773,;ANKS3,downstream_gene_variant,,ENST00000586605,;ANKS3,downstream_gene_variant,,ENST00000592421,;NUDT16L1,downstream_gene_variant,,ENST00000304301,;ANKS3,downstream_gene_variant,,ENST00000586166,;NUDT16L1,downstream_gene_variant,,ENST00000586536,;ANKS3,downstream_gene_variant,,ENST00000592698,;NUDT16L1,downstream_gene_variant,,ENST00000405142,;ANKS3,downstream_gene_variant,,ENST00000589065,;ANKS3,3_prime_UTR_variant,,ENST00000590730,;ANKS3,intron_variant,,ENST00000591653,;ANKS3,intron_variant,,ENST00000592077,;ANKS3,intron_variant,,ENST00000590193,;ANKS3,intron_variant,,ENST00000592840,;ANKS3,intron_variant,,ENST00000590803,;ANKS3,downstream_gene_variant,,ENST00000592068,;ANKS3,downstream_gene_variant,,ENST00000586632,;ANKS3,upstream_gene_variant,,ENST00000591185,;ANKS3,upstream_gene_variant,,ENST00000589035,;ANKS3,upstream_gene_variant,,ENST00000588398,;ANKS3,downstream_gene_variant,,ENST00000586159,;	C	ENSG00000168096	ENST00000304283	Transcript	intron_variant	.	.	.	.	.	rs748730013	.	.	-1	ANKS3	HGNC	29422	protein_coding	YES	CCDS10520.1	ENSP00000304586	ANKS3_HUMAN	K7ERR7_HUMAN,K7ERF3_HUMAN,K7EQE0_HUMAN,K7EKD2_HUMAN,K7EJY2_HUMAN,D3DUE4_HUMAN	UPI00001C08FE	.	.	.	.	11/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTAGAAGCG	.	5	BLCA
PHKB	0	.	GRCh37	16	47622879	47622879	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934C>G	p.Leu312Val	p.L312V	ENST00000323584	10/31	41	22	19	60	60	0	PHKB,missense_variant,p.Leu312Val,ENST00000299167,;PHKB,missense_variant,p.Leu312Val,ENST00000323584,;PHKB,missense_variant,p.Leu305Val,ENST00000566044,;PHKB,missense_variant,p.Leu305Val,ENST00000455779,;PHKB,non_coding_transcript_exon_variant,,ENST00000567402,;PHKB,downstream_gene_variant,,ENST00000570047,;	G	ENSG00000102893	ENST00000323584	Transcript	missense_variant	958	934	312	L/V	Ctt/Gtt	.	.	.	1	PHKB	HGNC	8927	protein_coding	YES	CCDS10729.1	ENSP00000313504	KPBB_HUMAN	Q6LAJ4_HUMAN	UPI0000141140	.	deleterious(0.04)	probably_damaging(0.999)	10/31	.	hmmpanther:PTHR10749,hmmpanther:PTHR10749:SF3,Pfam_domain:PF00723,Superfamily_domains:SSF48208	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTCTTTTT	.	5	BLCA
ABCC11	0	.	GRCh37	16	48221197	48221197	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2848G>A	p.Ala950Thr	p.A950T	ENST00000394747	20/29	29	22	7	68	68	0	ABCC11,missense_variant,p.Ala950Thr,ENST00000394747,;ABCC11,missense_variant,p.Ala950Thr,ENST00000394748,;ABCC11,missense_variant,p.Ala950Thr,ENST00000353782,;ABCC11,missense_variant,p.Ala950Thr,ENST00000356608,;ABCC11,3_prime_UTR_variant,,ENST00000537808,;ABCC11,non_coding_transcript_exon_variant,,ENST00000565329,;ABCC11,downstream_gene_variant,,ENST00000569172,;	T	ENSG00000121270	ENST00000394747	Transcript	missense_variant	3198	2848	950	A/T	Gcc/Acc	.	.	.	-1	ABCC11	HGNC	14639	protein_coding	YES	CCDS10732.1	ENSP00000378230	ABCCB_HUMAN	H3BRJ2_HUMAN	UPI0000052711	.	tolerated(0.11)	benign(0.028)	20/29	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50929,hmmpanther:PTHR24223:SF168,hmmpanther:PTHR24223,Pfam_domain:PF00664,Gene3D:2hydA01,Superfamily_domains:SSF90123	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACGGCGATCA	.	5	BLCA
SPIRE2	0	.	GRCh37	16	89934618	89934618	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1800C>T	p.%3D	p.S600S	ENST00000378247	13/15	34	26	8	57	57	0	SPIRE2,synonymous_variant,p.%3D,ENST00000378247,;SPIRE2,intron_variant,,ENST00000393062,;SPIRE2,non_coding_transcript_exon_variant,,ENST00000569108,;SPIRE2,non_coding_transcript_exon_variant,,ENST00000562029,;SPIRE2,intron_variant,,ENST00000565628,;	T	ENSG00000204991	ENST00000378247	Transcript	synonymous_variant	1843	1800	600	S	agC/agT	.	.	.	1	SPIRE2	HGNC	30623	protein_coding	YES	CCDS32516.1	ENSP00000367494	SPIR2_HUMAN	B3KT42_HUMAN	UPI00001C1FA8	.	.	.	13/15	.	hmmpanther:PTHR21345:SF5,hmmpanther:PTHR21345,Gene3D:3.30.40.10,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTAGCATAAA	.	5	BLCA
TRPV2	0	.	GRCh37	17	16321139	16321139	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157C>G	p.Gln53Glu	p.Q53E	ENST00000338560	2/15	16	10	6	40	40	0	TRPV2,missense_variant,p.Gln53Glu,ENST00000338560,;TRPV2,5_prime_UTR_variant,,ENST00000577397,;TRPV2,upstream_gene_variant,,ENST00000455666,;RP11-138I1.2,upstream_gene_variant,,ENST00000580996,;	G	ENSG00000187688	ENST00000338560	Transcript	missense_variant	556	157	53	Q/E	Cag/Gag	.	.	.	1	TRPV2	HGNC	18082	protein_coding	YES	CCDS32576.1	ENSP00000342222	TRPV2_HUMAN	J3QKR1_HUMAN	UPI0000032F4E	.	tolerated(0.14)	benign(0.004)	2/15	.	hmmpanther:PTHR10582,hmmpanther:PTHR10582:SF5,TIGRFAM_domain:TIGR00870	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCAGATA	.	5	BLCA
ALDH3A1	0	.	GRCh37	17	19648434	19648434	+	Silent	SNP	C	C	T	rs771212258	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9G>A	p.%3D	p.K3K	ENST00000457500	1/10	11	7	4	25	25	0	ALDH3A1,synonymous_variant,p.%3D,ENST00000395555,;ALDH3A1,synonymous_variant,p.%3D,ENST00000574162,;ALDH3A1,synonymous_variant,p.%3D,ENST00000457500,;ALDH3A1,synonymous_variant,p.%3D,ENST00000225740,;ALDH3A1,synonymous_variant,p.%3D,ENST00000570414,;ALDH3A1,synonymous_variant,p.%3D,ENST00000444455,;ALDH3A1,synonymous_variant,p.%3D,ENST00000573368,;ALDH3A1,synonymous_variant,p.%3D,ENST00000439102,;ALDH3A1,synonymous_variant,p.%3D,ENST00000426645,;ALDH3A1,intron_variant,,ENST00000494157,;ALDH3A1,intron_variant,,ENST00000485231,;ALDH3A1,synonymous_variant,p.%3D,ENST00000468746,;ALDH3A1,non_coding_transcript_exon_variant,,ENST00000575860,;ALDH3A1,non_coding_transcript_exon_variant,,ENST00000575103,;ALDH3A1,intron_variant,,ENST00000479677,;ALDH3A1,upstream_gene_variant,,ENST00000485472,;ALDH3A1,upstream_gene_variant,,ENST00000487650,;	T	ENSG00000108602	ENST00000457500	Transcript	synonymous_variant	339	9	3	K	aaG/aaA	rs771212258	.	.	-1	ALDH3A1	HGNC	405	protein_coding	YES	CCDS11212.1	ENSP00000411821	AL3A1_HUMAN	I3L4E5_HUMAN,I3L3W9_HUMAN,I3L3I9_HUMAN,I3L1H6_HUMAN,C9JMC5_HUMAN	UPI000013C87C	.	.	.	1/10	.	hmmpanther:PTHR11699:SF105,hmmpanther:PTHR11699,Pfam_domain:PF00171,Gene3D:3.40.605.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGATCTTGCT	.	3	BLCA
EFCAB5	0	.	GRCh37	17	28407164	28407164	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3102G>C	p.Glu1034Asp	p.E1034D	ENST00000394835	16/23	58	49	9	74	74	0	EFCAB5,missense_variant,p.Glu716Asp,ENST00000419434,;EFCAB5,missense_variant,p.Glu1034Asp,ENST00000394835,;EFCAB5,missense_variant,p.Glu910Asp,ENST00000320856,;EFCAB5,intron_variant,,ENST00000394832,;EFCAB5,intron_variant,,ENST00000588978,;	C	ENSG00000176927	ENST00000394835	Transcript	missense_variant	3294	3102	1034	E/D	gaG/gaC	.	.	.	1	EFCAB5	HGNC	24801	protein_coding	YES	CCDS11254.2	ENSP00000378312	EFCB5_HUMAN	C9J1E6_HUMAN	UPI0000E59EF5	.	tolerated(0.94)	benign(0.004)	16/23	.	hmmpanther:PTHR31938,hmmpanther:PTHR31938:SF3,Superfamily_domains:SSF55781	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGAGAAAGG	.	5	BLCA
CPD	0	.	GRCh37	17	28772901	28772901	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2736G>C	p.Glu912Asp	p.E912D	ENST00000225719	12/21	42	37	4	71	71	0	CPD,missense_variant,p.Glu121Asp,ENST00000584221,;CPD,missense_variant,p.Glu665Asp,ENST00000543464,;CPD,missense_variant,p.Glu912Asp,ENST00000225719,;CPD,non_coding_transcript_exon_variant,,ENST00000588977,;CPD,upstream_gene_variant,,ENST00000584051,;CPD,downstream_gene_variant,,ENST00000581826,;CPD,upstream_gene_variant,,ENST00000584050,;	C	ENSG00000108582	ENST00000225719	Transcript	missense_variant	2812	2736	912	E/D	gaG/gaC	.	.	.	1	CPD	HGNC	2301	protein_coding	YES	CCDS11257.1	ENSP00000225719	CBPD_HUMAN	.	UPI000000DAF7	.	tolerated(0.35)	benign(0.061)	12/21	.	hmmpanther:PTHR11532:SF40,hmmpanther:PTHR11532	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGGAGAATGG	.	4	BLCA
ACACA	0	.	GRCh37	17	35603883	35603883	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2319C>T	p.%3D	p.I773I	ENST00000353139	19/56	64	48	15	78	78	0	ACACA,synonymous_variant,p.%3D,ENST00000360679,;ACACA,synonymous_variant,p.%3D,ENST00000353139,;ACACA,synonymous_variant,p.%3D,ENST00000394406,;ACACA,synonymous_variant,p.%3D,ENST00000335166,;ACACA,non_coding_transcript_exon_variant,,ENST00000590888,;ACACA,downstream_gene_variant,,ENST00000592243,;	A	ENSG00000132142	ENST00000353139	Transcript	synonymous_variant	2801	2319	773	I	atC/atT	.	.	.	-1	ACACA	HGNC	84	protein_coding	YES	CCDS42302.1	ENSP00000344789	ACACA_HUMAN	Q7Z5W8_HUMAN,K7EII5_HUMAN,K4DID9_HUMAN,B4DWK9_HUMAN,B4DK31_HUMAN,B4DIW1_HUMAN,B2ZZ90_HUMAN,A8MYL5_HUMAN	UPI00002263AC	.	.	.	19/56	.	hmmpanther:PTHR18866:SF89,hmmpanther:PTHR18866	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTGTGATGCG	.	5	BLCA
TOP2A	0	.	GRCh37	17	38556186	38556186	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3134C>A	p.Ser1045Tyr	p.S1045Y	ENST00000423485	24/35	27	21	6	24	24	0	TOP2A,missense_variant,p.Ser1045Tyr,ENST00000423485,;TOP2A,upstream_gene_variant,,ENST00000577706,;	T	ENSG00000131747	ENST00000423485	Transcript	missense_variant	3293	3134	1045	S/Y	tCt/tAt	COSM1521114	.	.	-1	TOP2A	HGNC	11989	protein_coding	YES	CCDS45672.1	ENSP00000411532	TOP2A_HUMAN	J3QR57_HUMAN,J3KTB7_HUMAN	UPI0000137195	.	tolerated(0.33)	possibly_damaging(0.89)	24/35	.	hmmpanther:PTHR10169:SF33,hmmpanther:PTHR10169,Gene3D:1.10.268.10,Pfam_domain:PF00521,SMART_domains:SM00434,Superfamily_domains:SSF56719	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCAGATTCA	.	5	BLCA
HEXIM2	0	.	GRCh37	17	43246265	43246265	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67-117G>C	.	.	ENST00000307275	.	66	49	16	62	62	0	HEXIM2,intron_variant,,ENST00000586681,;HEXIM2,intron_variant,,ENST00000589230,;HEXIM2,intron_variant,,ENST00000591576,;HEXIM2,intron_variant,,ENST00000585340,;HEXIM2,intron_variant,,ENST00000591070,;HEXIM2,intron_variant,,ENST00000593138,;HEXIM2,intron_variant,,ENST00000307275,;HEXIM2,intron_variant,,ENST00000592695,;RP13-890H12.2,non_coding_transcript_exon_variant,,ENST00000589796,;RP13-890H12.2,downstream_gene_variant,,ENST00000589451,;	C	ENSG00000168517	ENST00000307275	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	HEXIM2	HGNC	28591	protein_coding	YES	CCDS11496.1	ENSP00000302276	HEXI2_HUMAN	K7ESM2_HUMAN,K7ELS4_HUMAN,K7EJA3_HUMAN,K7EIM4_HUMAN	UPI00000730EA	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTAAGAGTGA	.	5	BLCA
HEXIM2	0	.	GRCh37	17	43246315	43246315	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67-67G>C	.	.	ENST00000307275	.	103	89	14	124	124	0	HEXIM2,intron_variant,,ENST00000586681,;HEXIM2,intron_variant,,ENST00000589230,;HEXIM2,intron_variant,,ENST00000591576,;HEXIM2,intron_variant,,ENST00000585340,;HEXIM2,intron_variant,,ENST00000591070,;HEXIM2,intron_variant,,ENST00000593138,;HEXIM2,intron_variant,,ENST00000307275,;HEXIM2,intron_variant,,ENST00000592695,;RP13-890H12.2,non_coding_transcript_exon_variant,,ENST00000589796,;RP13-890H12.2,downstream_gene_variant,,ENST00000589451,;	C	ENSG00000168517	ENST00000307275	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	HEXIM2	HGNC	28591	protein_coding	YES	CCDS11496.1	ENSP00000302276	HEXI2_HUMAN	K7ESM2_HUMAN,K7ELS4_HUMAN,K7EJA3_HUMAN,K7EIM4_HUMAN	UPI00000730EA	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTAGAGAGGGA	.	2	BLCA
ABI3	0	.	GRCh37	17	47295121	47295121	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306G>A	p.%3D	p.E102E	ENST00000225941	3/8	50	42	8	77	77	0	ABI3,synonymous_variant,p.%3D,ENST00000419580,;ABI3,synonymous_variant,p.%3D,ENST00000225941,;ABI3,upstream_gene_variant,,ENST00000573347,;ABI3,upstream_gene_variant,,ENST00000571035,;	A	ENSG00000108798	ENST00000225941	Transcript	synonymous_variant	804	306	102	E	gaG/gaA	.	.	.	1	ABI3	HGNC	29859	protein_coding	YES	CCDS11546.1	ENSP00000225941	ABI3_HUMAN	.	UPI000013C888	.	.	.	3/8	.	hmmpanther:PTHR10460:SF6,hmmpanther:PTHR10460,Pfam_domain:PF07815	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGAGAAGGT	.	5	BLCA
CACNA1G	0	.	GRCh37	17	48695256	48695256	+	Missense_Mutation	SNP	C	C	T	rs369515451	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5192C>T	p.Ala1731Val	p.A1731V	ENST00000359106	30/38	46	38	8	67	67	0	CACNA1G,missense_variant,p.Ala1708Val,ENST00000502264,;CACNA1G,missense_variant,p.Ala1697Val,ENST00000358244,;CACNA1G,missense_variant,p.Ala1731Val,ENST00000515165,;CACNA1G,missense_variant,p.Ala1713Val,ENST00000514181,;CACNA1G,missense_variant,p.Ala1697Val,ENST00000352832,;CACNA1G,missense_variant,p.Ala1708Val,ENST00000360761,;CACNA1G,missense_variant,p.Ala1720Val,ENST00000507336,;CACNA1G,missense_variant,p.Ala1697Val,ENST00000354983,;CACNA1G,missense_variant,p.Ala1686Val,ENST00000513689,;CACNA1G,missense_variant,p.Ala1731Val,ENST00000507510,;CACNA1G,missense_variant,p.Ala1731Val,ENST00000505165,;CACNA1G,missense_variant,p.Ala1674Val,ENST00000514717,;CACNA1G,missense_variant,p.Ala1679Val,ENST00000510366,;CACNA1G,missense_variant,p.Ala1713Val,ENST00000429973,;CACNA1G,missense_variant,p.Ala1697Val,ENST00000510115,;CACNA1G,missense_variant,p.Ala1690Val,ENST00000442258,;CACNA1G,missense_variant,p.Ala1720Val,ENST00000512389,;CACNA1G,missense_variant,p.Ala1738Val,ENST00000514079,;CACNA1G,missense_variant,p.Ala1720Val,ENST00000507896,;CACNA1G,missense_variant,p.Ala1713Val,ENST00000515411,;CACNA1G,missense_variant,p.Ala1686Val,ENST00000513964,;CACNA1G,missense_variant,p.Ala1731Val,ENST00000359106,;CACNA1G,missense_variant,p.Ala1731Val,ENST00000507609,;CACNA1G,missense_variant,p.Ala1697Val,ENST00000503485,;CACNA1G,missense_variant,p.Ala1720Val,ENST00000515765,;CACNA1G,missense_variant,p.Ala1708Val,ENST00000511768,;CACNA1G,missense_variant,p.Ala1708Val,ENST00000503436,;CACNA1G,missense_variant,p.Ala1690Val,ENST00000503607,;CACNA1G,missense_variant,p.Ala1731Val,ENST00000506406,;CACNA1G,missense_variant,p.Ala1720Val,ENST00000504076,;CACNA1G,missense_variant,p.Ala1713Val,ENST00000511765,;	T	ENSG00000006283	ENST00000359106	Transcript	missense_variant	5192	5192	1731	A/V	gCg/gTg	rs369515451,COSM706904,COSM706903,COSM706902	.	.	1	CACNA1G	HGNC	1394	protein_coding	YES	CCDS45730.1	ENSP00000352011	CAC1G_HUMAN	.	UPI000012727A	.	deleterious(0)	probably_damaging(1)	30/38	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF137,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGGCGCTGC	byCluster	5	BLCA
BRIP1	0	.	GRCh37	17	59761240	59761240	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3167C>G	p.Ser1056Ter	p.S1056*	ENST00000259008	20/20	159	110	49	193	193	0	BRIP1,stop_gained,p.Ser1056Ter,ENST00000259008,;BRIP1,downstream_gene_variant,,ENST00000577598,;	C	ENSG00000136492	ENST00000259008	Transcript	stop_gained	3435	3167	1056	S/*	tCa/tGa	.	.	.	-1	BRIP1	HGNC	20473	protein_coding	YES	CCDS11631.1	ENSP00000259008	FANCJ_HUMAN	J3KS24_HUMAN	UPI000013D01F	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTGAGGAT	.	5	BLCA
ACADVL	0	.	GRCh37	17	7126044	7126044	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1006G>C	p.Asp336His	p.D336H	ENST00000543245	11/21	18	10	8	35	35	0	ACADVL,missense_variant,p.Asp313His,ENST00000356839,;ACADVL,missense_variant,p.Asp336His,ENST00000543245,;ACADVL,missense_variant,p.Asp291His,ENST00000350303,;DLG4,upstream_gene_variant,,ENST00000399510,;ACADVL,upstream_gene_variant,,ENST00000542255,;ACADVL,downstream_gene_variant,,ENST00000584103,;DVL2,downstream_gene_variant,,ENST00000575458,;ACADVL,upstream_gene_variant,,ENST00000579546,;DVL2,downstream_gene_variant,,ENST00000575086,;DVL2,downstream_gene_variant,,ENST00000005340,;ACADVL,downstream_gene_variant,,ENST00000583312,;ACADVL,downstream_gene_variant,,ENST00000579886,;MIR324,downstream_gene_variant,,ENST00000362183,;ACADVL,upstream_gene_variant,,ENST00000583074,;ACADVL,downstream_gene_variant,,ENST00000577857,;ACADVL,downstream_gene_variant,,ENST00000581562,;ACADVL,3_prime_UTR_variant,,ENST00000322910,;ACADVL,3_prime_UTR_variant,,ENST00000581378,;ACADVL,non_coding_transcript_exon_variant,,ENST00000582379,;ACADVL,non_coding_transcript_exon_variant,,ENST00000578824,;ACADVL,upstream_gene_variant,,ENST00000583848,;ACADVL,downstream_gene_variant,,ENST00000578421,;ACADVL,upstream_gene_variant,,ENST00000579391,;ACADVL,downstream_gene_variant,,ENST00000579286,;DVL2,downstream_gene_variant,,ENST00000576840,;ACADVL,downstream_gene_variant,,ENST00000580263,;ACADVL,downstream_gene_variant,,ENST00000577191,;ACADVL,upstream_gene_variant,,ENST00000578033,;ACADVL,downstream_gene_variant,,ENST00000578269,;ACADVL,upstream_gene_variant,,ENST00000585203,;ACADVL,upstream_gene_variant,,ENST00000578711,;DVL2,downstream_gene_variant,,ENST00000571745,;ACADVL,downstream_gene_variant,,ENST00000582356,;ACADVL,upstream_gene_variant,,ENST00000582450,;ACADVL,upstream_gene_variant,,ENST00000578319,;ACADVL,upstream_gene_variant,,ENST00000578809,;DVL2,downstream_gene_variant,,ENST00000576285,;ACADVL,downstream_gene_variant,,ENST00000583760,;ACADVL,downstream_gene_variant,,ENST00000577433,;ACADVL,downstream_gene_variant,,ENST00000582166,;ACADVL,upstream_gene_variant,,ENST00000579425,;ACADVL,upstream_gene_variant,,ENST00000583858,;ACADVL,downstream_gene_variant,,ENST00000580365,;ACADVL,upstream_gene_variant,,ENST00000583850,;ACADVL,upstream_gene_variant,,ENST00000579894,;ACADVL,upstream_gene_variant,,ENST00000578579,;ACADVL,downstream_gene_variant,,ENST00000582056,;	C	ENSG00000072778	ENST00000543245	Transcript	missense_variant	1027	1006	336	D/H	Gat/Cat	.	.	.	1	ACADVL	HGNC	92	protein_coding	YES	CCDS58509.1	ENSP00000438689	ACADV_HUMAN	B3KPA6_HUMAN	UPI0002064F84	.	deleterious(0.03)	benign(0.07)	11/21	.	Superfamily_domains:SSF56645,Gene3D:2.40.110.10,hmmpanther:PTHR10909:SF121,hmmpanther:PTHR10909	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGATGGA	.	5	BLCA
MFSD11	0	.	GRCh37	17	74774466	74774466	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*32C>T	.	.	ENST00000588460	13/13	30	24	6	53	53	0	MFSD11,3_prime_UTR_variant,,ENST00000588460,;MFSD11,3_prime_UTR_variant,,ENST00000336509,;MFSD11,3_prime_UTR_variant,,ENST00000355954,;MFSD11,3_prime_UTR_variant,,ENST00000593181,;MFSD11,3_prime_UTR_variant,,ENST00000586622,;MFSD11,3_prime_UTR_variant,,ENST00000590514,;MFSD11,intron_variant,,ENST00000585865,;MFSD11,downstream_gene_variant,,ENST00000585958,;MFSD11,downstream_gene_variant,,ENST00000590070,;MFSD11,downstream_gene_variant,,ENST00000585692,;MFSD11,downstream_gene_variant,,ENST00000588768,;MFSD11,downstream_gene_variant,,ENST00000588647,;	T	ENSG00000092931	ENST00000588460	Transcript	3_prime_UTR_variant	3424	.	.	.	.	.	.	.	1	MFSD11	HGNC	25458	protein_coding	YES	CCDS11750.1	ENSP00000464932	MFS11_HUMAN	K7ESK9_HUMAN,K7ELU3_HUMAN	UPI0000073F31	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACCTCAGAAA	.	2	BLCA
DNAH17	0	.	GRCh37	17	76490165	76490165	+	Missense_Mutation	SNP	G	G	A	rs753084692	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6319C>T	p.Arg2107Cys	p.R2107C	ENST00000389840	41/81	14	9	4	18	18	0	DNAH17,missense_variant,p.Arg2116Cys,ENST00000585328,;DNAH17,missense_variant,p.Arg2107Cys,ENST00000389840,;DNAH17-AS1,upstream_gene_variant,,ENST00000598378,;RP11-559N14.5,non_coding_transcript_exon_variant,,ENST00000585969,;RP11-559N14.5,non_coding_transcript_exon_variant,,ENST00000591373,;RP11-559N14.5,downstream_gene_variant,,ENST00000588565,;DNAH17,upstream_gene_variant,,ENST00000586052,;	A	ENSG00000187775	ENST00000389840	Transcript	missense_variant	6444	6319	2107	R/C	Cgc/Tgc	rs753084692	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	probably_damaging(0.999)	41/81	.	hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGCGGACCT	.	5	BLCA
DNAH17	0	.	GRCh37	17	76490166	76490166	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6318C>T	p.%3D	p.V2106V	ENST00000389840	41/81	14	9	4	18	18	0	DNAH17,synonymous_variant,p.%3D,ENST00000585328,;DNAH17,synonymous_variant,p.%3D,ENST00000389840,;DNAH17-AS1,upstream_gene_variant,,ENST00000598378,;RP11-559N14.5,non_coding_transcript_exon_variant,,ENST00000585969,;RP11-559N14.5,non_coding_transcript_exon_variant,,ENST00000591373,;RP11-559N14.5,downstream_gene_variant,,ENST00000588565,;DNAH17,upstream_gene_variant,,ENST00000586052,;	A	ENSG00000187775	ENST00000389840	Transcript	synonymous_variant	6443	6318	2106	V	gtC/gtT	.	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	.	41/81	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCGGACCTG	.	5	BLCA
LAMA3	0	.	GRCh37	18	21495285	21495285	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7677A>T	p.Lys2559Asn	p.K2559N	ENST00000313654	59/75	43	38	5	51	51	0	LAMA3,missense_variant,p.Lys819Asn,ENST00000586751,;LAMA3,missense_variant,p.Lys894Asn,ENST00000587184,;LAMA3,missense_variant,p.Lys2559Asn,ENST00000313654,;LAMA3,missense_variant,p.Lys950Asn,ENST00000269217,;LAMA3,missense_variant,p.Lys2503Asn,ENST00000399516,;LAMA3,non_coding_transcript_exon_variant,,ENST00000588770,;	T	ENSG00000053747	ENST00000313654	Transcript	missense_variant	7918	7677	2559	K/N	aaA/aaT	.	.	.	1	LAMA3	HGNC	6483	protein_coding	YES	CCDS42419.1	ENSP00000324532	LAMA3_HUMAN	B0YJ32_HUMAN	UPI00001C1222	.	.	possibly_damaging(0.875)	59/75	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF259,Pfam_domain:PF00054,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACAAAGGTTG	.	3	BLCA
EPB41L3	0	.	GRCh37	18	5434085	5434085	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.641T>G	p.Val214Gly	p.V214G	ENST00000341928	7/23	52	37	15	60	60	0	EPB41L3,missense_variant,p.Val214Gly,ENST00000342933,;EPB41L3,missense_variant,p.Val214Gly,ENST00000341928,;EPB41L3,missense_variant,p.Val214Gly,ENST00000544123,;EPB41L3,missense_variant,p.Val214Gly,ENST00000400111,;EPB41L3,missense_variant,p.Val214Gly,ENST00000540638,;EPB41L3,intron_variant,,ENST00000584670,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000581757,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000545076,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000542652,;EPB41L3,upstream_gene_variant,,ENST00000578432,;	C	ENSG00000082397	ENST00000341928	Transcript	missense_variant	982	641	214	V/G	gTg/gGg	.	.	.	-1	EPB41L3	HGNC	3380	protein_coding	YES	CCDS11838.1	ENSP00000343158	E41L3_HUMAN	J3QS55_HUMAN,J3QRQ6_HUMAN,J3QR33_HUMAN,J3QKY2_HUMAN,J3QKK4_HUMAN,J3KS70_HUMAN,J3KRD1_HUMAN	UPI0000129AFA	.	deleterious(0)	probably_damaging(0.97)	7/23	.	PROSITE_profiles:PS50057,hmmpanther:PTHR23280,hmmpanther:PTHR23280:SF20,Pfam_domain:PF00373,Gene3D:1.20.80.10,PIRSF_domain:PIRSF002304,SMART_domains:SM00295,Superfamily_domains:SSF47031,Prints_domain:PR00935	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGACACGATG	.	5	BLCA
NWD1	0	.	GRCh37	19	16902336	16902336	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3116A>G	p.His1039Arg	p.H1039R	ENST00000524140	14/19	54	39	14	63	63	0	NWD1,missense_variant,p.His904Arg,ENST00000339803,;NWD1,missense_variant,p.His1039Arg,ENST00000524140,;NWD1,missense_variant,p.His1039Arg,ENST00000552788,;NWD1,missense_variant,p.His1039Arg,ENST00000379808,;NWD1,missense_variant,p.His1039Arg,ENST00000549814,;NWD1,missense_variant,p.His833Arg,ENST00000523826,;NWD1,3_prime_UTR_variant,,ENST00000438489,;NWD1,3_prime_UTR_variant,,ENST00000518676,;	G	ENSG00000188039	ENST00000524140	Transcript	missense_variant	3534	3116	1039	H/R	cAt/cGt	.	.	.	1	NWD1	HGNC	27619	protein_coding	YES	CCDS32945.2	ENSP00000428579	NWD1_HUMAN	.	UPI0000D6173E	.	tolerated(0.61)	benign(0.002)	14/19	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR22847:SF273,hmmpanther:PTHR22847	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAACATATGT	.	5	BLCA
ZNF208	0	.	GRCh37	19	22155686	22155686	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2150G>C	p.Gly717Ala	p.G717A	ENST00000397126	4/4	36	25	11	45	45	0	ZNF208,missense_variant,p.Gly717Ala,ENST00000397126,;ZNF208,intron_variant,,ENST00000601773,;ZNF208,intron_variant,,ENST00000599916,;	G	ENSG00000160321	ENST00000397126	Transcript	missense_variant	2299	2150	717	G/A	gGa/gCa	COSM3531481,COSM3531480,COSM3531482	.	.	-1	ZNF208	HGNC	12999	protein_coding	YES	CCDS54240.1	ENSP00000380315	ZN208_HUMAN	.	UPI0001B23C28	.	tolerated(0.07)	possibly_damaging(0.514)	4/4	.	Superfamily_domains:SSF57667,Pfam_domain:PF13465,Gene3D:3.30.160.60,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF103,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCCAGTA	.	5	BLCA
ANKRD27	0	.	GRCh37	19	33134246	33134246	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652C>T	p.His218Tyr	p.H218Y	ENST00000306065	8/29	177	109	67	163	163	0	ANKRD27,missense_variant,p.His218Tyr,ENST00000306065,;ANKRD27,missense_variant,p.His218Tyr,ENST00000587352,;ANKRD27,5_prime_UTR_variant,,ENST00000586463,;ANKRD27,downstream_gene_variant,,ENST00000590519,;ANKRD27,downstream_gene_variant,,ENST00000586693,;ANKRD27,upstream_gene_variant,,ENST00000591100,;ANKRD27,3_prime_UTR_variant,,ENST00000588700,;ANKRD27,non_coding_transcript_exon_variant,,ENST00000593232,;	A	ENSG00000105186	ENST00000306065	Transcript	missense_variant	811	652	218	H/Y	Cat/Tat	COSM159072	.	.	-1	ANKRD27	HGNC	25310	protein_coding	YES	CCDS32986.1	ENSP00000304292	ANR27_HUMAN	K7EPM2_HUMAN,K7EIN0_HUMAN,K7EIH4_HUMAN	UPI000004FDE9	.	deleterious(0)	benign(0.152)	8/29	.	Superfamily_domains:0044157,hmmpanther:PTHR24170,hmmpanther:PTHR24170:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATGATGGA	.	5	BLCA
CACTIN	0	.	GRCh37	19	3612139	3612139	+	Missense_Mutation	SNP	C	C	T	rs376455756	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2059G>A	p.Asp687Asn	p.D687N	ENST00000429344	10/10	67	55	12	147	147	0	CACTIN,missense_variant,p.Asp687Asn,ENST00000248420,;CACTIN,missense_variant,p.Asp220Asn,ENST00000592721,;CACTIN,missense_variant,p.Asp46Asn,ENST00000591726,;CACTIN,missense_variant,p.Asp687Asn,ENST00000429344,;CACTIN,missense_variant,p.Asp619Asn,ENST00000221899,;CACTIN,downstream_gene_variant,,ENST00000588749,;CACTIN-AS1,non_coding_transcript_exon_variant,,ENST00000592274,;CACTIN,missense_variant,p.Asp687Asn,ENST00000585942,;CACTIN,3_prime_UTR_variant,,ENST00000589321,;CACTIN,non_coding_transcript_exon_variant,,ENST00000587175,;CACTIN,downstream_gene_variant,,ENST00000591978,;	T	ENSG00000105298	ENST00000429344	Transcript	missense_variant	2112	2059	687	D/N	Gac/Aac	rs376455756	.	.	-1	CACTIN	HGNC	29938	protein_coding	YES	CCDS45920.1	ENSP00000415078	CATIN_HUMAN	K7EIU6_HUMAN	UPI00006C1962	.	tolerated(0.11)	benign(0.059)	10/10	.	hmmpanther:PTHR21737:SF6,hmmpanther:PTHR21737,Pfam_domain:PF09732,SMART_domains:SM01050	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGTCGATGA	byFrequency|byCluster	5	BLCA
ZNF585B	0	.	GRCh37	19	37698117	37698117	+	5'UTR	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-104C>T	.	.	ENST00000532828	2/5	10	7	3	12	12	0	ZNF585B,5_prime_UTR_variant,,ENST00000527838,;ZNF585B,5_prime_UTR_variant,,ENST00000532828,;ZNF585B,intron_variant,,ENST00000591492,;CTC-454I21.3,upstream_gene_variant,,ENST00000588873,;ZNF585B,non_coding_transcript_exon_variant,,ENST00000534363,;CTC-454I21.3,5_prime_UTR_variant,,ENST00000585860,;ZNF585B,5_prime_UTR_variant,,ENST00000591273,;CTC-454I21.3,5_prime_UTR_variant,,ENST00000590245,;ZNF585B,5_prime_UTR_variant,,ENST00000392156,;ZNF585B,5_prime_UTR_variant,,ENST00000526705,;	A	ENSG00000245680	ENST00000532828	Transcript	5_prime_UTR_variant	149	.	.	.	.	.	.	.	-1	ZNF585B	HGNC	30948	protein_coding	YES	CCDS12500.1	ENSP00000433773	Z585B_HUMAN	E9PQH3_HUMAN,B3KRH5_HUMAN	UPI00001AF01B	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGAGGAAGGT	.	2	BLCA
LGALS14	0	.	GRCh37	19	40197836	40197836	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198G>A	p.%3D	p.E66E	ENST00000360675	4/5	75	53	21	50	50	0	LGALS14,synonymous_variant,p.%3D,ENST00000601802,;LGALS14,synonymous_variant,p.%3D,ENST00000360675,;LGALS14,synonymous_variant,p.%3D,ENST00000392052,;	A	ENSG00000006659	ENST00000360675	Transcript	synonymous_variant	464	198	66	E	gaG/gaA	.	.	.	1	LGALS14	HGNC	30054	protein_coding	YES	CCDS12542.1	ENSP00000353893	PPL13_HUMAN	.	UPI0000202356	.	.	.	4/5	.	PROSITE_profiles:PS51304,hmmpanther:PTHR11346,hmmpanther:PTHR11346:SF92,Gene3D:2.60.120.200,Pfam_domain:PF00337,SMART_domains:SM00276,SMART_domains:SM00908,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGGTGAA	.	5	BLCA
CYP2S1	0	.	GRCh37	19	41712222	41712222	+	Silent	SNP	G	G	A	rs763569535	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1344G>A	p.%3D	p.A448A	ENST00000310054	9/9	111	77	34	97	96	0	CYP2S1,synonymous_variant,p.%3D,ENST00000542619,;CYP2S1,synonymous_variant,p.%3D,ENST00000310054,;CYP2S1,3_prime_UTR_variant,,ENST00000593890,;CYP2S1,downstream_gene_variant,,ENST00000597754,;CYP2S1,3_prime_UTR_variant,,ENST00000593545,;CYP2S1,downstream_gene_variant,,ENST00000595590,;	A	ENSG00000167600	ENST00000310054	Transcript	synonymous_variant	1560	1344	448	A	gcG/gcA	rs763569535	.	.	1	CYP2S1	HGNC	15654	protein_coding	YES	CCDS12573.1	ENSP00000308032	CP2S1_HUMAN	.	UPI00000467C9	.	.	.	9/9	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF23,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00463,Prints_domain:PR00385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGCGGAGCT	.	5	BLCA
CEACAM3	0	.	GRCh37	19	42301749	42301749	+	Missense_Mutation	SNP	G	G	A	rs782329916	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.293G>A	p.Arg98Gln	p.R98Q	ENST00000357396	2/7	211	189	22	191	191	0	CEACAM3,missense_variant,p.Arg98Gln,ENST00000357396,;CEACAM3,missense_variant,p.Arg98Gln,ENST00000344550,;CEACAM3,missense_variant,p.Arg98Gln,ENST00000221999,;CEACAM3,missense_variant,p.Arg58Gln,ENST00000596544,;CEACAM3,non_coding_transcript_exon_variant,,ENST00000595255,;CEACAM3,missense_variant,p.Arg98Gln,ENST00000415495,;CEACAM3,non_coding_transcript_exon_variant,,ENST00000599305,;	A	ENSG00000170956	ENST00000357396	Transcript	missense_variant	534	293	98	R/Q	cGa/cAa	rs782329916,COSM1248006	.	.	1	CEACAM3	HGNC	1815	protein_coding	YES	CCDS12586.2	ENSP00000349971	CEAM3_HUMAN	M0QXR5_HUMAN	UPI000013C7E7	.	tolerated(0.07)	possibly_damaging(0.661)	2/7	.	hmmpanther:PTHR19955:SF110,hmmpanther:PTHR19955,Gene3D:2.60.40.10,Pfam_domain:PF07686,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGTCGAGAGA	byFrequency	4	BLCA
LIPE	0	.	GRCh37	19	42914612	42914612	+	Silent	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1266C>G	p.%3D	p.L422L	ENST00000244289	2/10	44	36	8	37	37	0	LIPE,synonymous_variant,p.%3D,ENST00000244289,;LIPE,synonymous_variant,p.%3D,ENST00000597001,;LIPE,synonymous_variant,p.%3D,ENST00000599211,;LIPE,synonymous_variant,p.%3D,ENST00000599783,;LIPE,upstream_gene_variant,,ENST00000597620,;LIPE,upstream_gene_variant,,ENST00000599918,;LIPE,downstream_gene_variant,,ENST00000601189,;LIPE-AS1,intron_variant,,ENST00000597203,;LIPE-AS1,intron_variant,,ENST00000594624,;LIPE-AS1,downstream_gene_variant,,ENST00000593491,;LIPE-AS1,downstream_gene_variant,,ENST00000599276,;LIPE,intron_variant,,ENST00000602000,;LIPE,upstream_gene_variant,,ENST00000600224,;	C	ENSG00000079435	ENST00000244289	Transcript	synonymous_variant	1543	1266	422	L	ctC/ctG	.	.	.	-1	LIPE	HGNC	6621	protein_coding	YES	CCDS12607.1	ENSP00000244289	LIPS_HUMAN	M0QXM5_HUMAN,M0QXB1_HUMAN	UPI000013CB66	.	.	.	2/10	.	hmmpanther:PTHR23025,hmmpanther:PTHR23025:SF3,Pfam_domain:PF06350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCGGAGCTG	.	5	BLCA
MEIS3	0	.	GRCh37	19	47909680	47909680	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*17+37C>G	.	.	ENST00000561293	.	47	28	18	49	49	0	MEIS3,3_prime_UTR_variant,,ENST00000559524,;MEIS3,intron_variant,,ENST00000441740,;MEIS3,intron_variant,,ENST00000560245,;MEIS3,intron_variant,,ENST00000561096,;MEIS3,intron_variant,,ENST00000561293,;MEIS3,intron_variant,,ENST00000558555,;MEIS3,intron_variant,,ENST00000331559,;MEIS3,downstream_gene_variant,,ENST00000559338,;MEIS3,downstream_gene_variant,,ENST00000607695,;MEIS3,intron_variant,,ENST00000560253,;MEIS3,intron_variant,,ENST00000561204,;	C	ENSG00000105419	ENST00000561293	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MEIS3	HGNC	29537	protein_coding	YES	CCDS33064.1	ENSP00000453307	MEIS3_HUMAN	.	UPI000006FB11	.	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTGAGAAT	.	5	BLCA
GLTSCR1	0	.	GRCh37	19	48197763	48197763	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2675C>G	p.Ser892Cys	p.S892C	ENST00000396720	8/15	14	9	5	19	19	0	GLTSCR1,missense_variant,p.Ser892Cys,ENST00000396720,;CTD-2571L23.8,intron_variant,,ENST00000599924,;	G	ENSG00000063169	ENST00000396720	Transcript	missense_variant	2869	2675	892	S/C	tCt/tGt	.	.	.	1	GLTSCR1	HGNC	4332	protein_coding	YES	CCDS46134.1	ENSP00000379946	GSCR1_HUMAN	M0QYC3_HUMAN	UPI00016278EE	.	.	unknown(0)	8/15	.	hmmpanther:PTHR15572:SF1,hmmpanther:PTHR15572,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCTGAGA	.	5	BLCA
IGLON5	0	.	GRCh37	19	51827007	51827007	+	Missense_Mutation	SNP	C	C	T	rs765063492	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250C>T	p.Arg84Trp	p.R84W	ENST00000270642	3/8	44	27	16	39	39	0	IGLON5,missense_variant,p.Arg84Trp,ENST00000270642,;	T	ENSG00000142549	ENST00000270642	Transcript	missense_variant	250	250	84	R/W	Cgg/Tgg	rs765063492,COSM1158159	.	.	1	IGLON5	HGNC	34550	protein_coding	YES	CCDS46158.1	ENSP00000270642	IGLO5_HUMAN	.	UPI000058F1A8	.	deleterious(0)	probably_damaging(1)	3/8	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19831:SF9,hmmpanther:PTHR19831,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCGCGGGTG	.	5	BLCA
SIGLEC6	0	.	GRCh37	19	52034114	52034114	+	Missense_Mutation	SNP	G	G	A	rs780557269	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527C>T	p.Thr176Met	p.T176M	ENST00000425629	3/8	94	77	17	86	86	0	SIGLEC6,missense_variant,p.Thr140Met,ENST00000436458,;SIGLEC6,missense_variant,p.Thr165Met,ENST00000391797,;SIGLEC6,missense_variant,p.Thr176Met,ENST00000359982,;SIGLEC6,missense_variant,p.Thr176Met,ENST00000425629,;SIGLEC6,missense_variant,p.Thr176Met,ENST00000343300,;SIGLEC6,missense_variant,p.Thr176Met,ENST00000346477,;SIGLEC6,upstream_gene_variant,,ENST00000474054,;SIGLEC6,non_coding_transcript_exon_variant,,ENST00000489837,;SIGLEC6,non_coding_transcript_exon_variant,,ENST00000496422,;	A	ENSG00000105492	ENST00000425629	Transcript	missense_variant	682	527	176	T/M	aCg/aTg	rs780557269,COSM3404507,COSM3404506	.	.	-1	SIGLEC6	HGNC	10875	protein_coding	YES	CCDS12834.3	ENSP00000401502	SIGL6_HUMAN	.	UPI0000223FFD	.	tolerated(0.07)	probably_damaging(0.978)	3/8	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Pfam_domain:PF00047,Gene3D:2.60.40.10,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF41,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGCGTCCCC	byFrequency	5	BLCA
LILRA1	0	.	GRCh37	19	55112331	55112331	+	3'UTR	SNP	T	T	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*49T>A	.	.	ENST00000251372	10/10	26	22	4	27	27	0	LILRA1,3_prime_UTR_variant,,ENST00000453777,;LILRA1,3_prime_UTR_variant,,ENST00000251372,;LILRB1,intron_variant,,ENST00000418536,;LILRB1,intron_variant,,ENST00000448689,;LILRB1,intron_variant,,ENST00000396321,;LILRA1,non_coding_transcript_exon_variant,,ENST00000473156,;LILRA1,downstream_gene_variant,,ENST00000495417,;LILRA1,downstream_gene_variant,,ENST00000477255,;	A	ENSG00000104974	ENST00000251372	Transcript	3_prime_UTR_variant	1701	.	.	.	.	.	.	.	1	LILRA1	HGNC	6602	protein_coding	YES	CCDS12901.1	ENSP00000251372	LIRA1_HUMAN	.	UPI0000034C00	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGAGTGGTGG	.	3	BLCA
ZNF667	0	.	GRCh37	19	56952794	56952794	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1570G>C	p.Glu524Gln	p.E524Q	ENST00000504904	7/7	80	45	35	52	52	0	ZNF667,missense_variant,p.Glu652Gln,ENST00000342634,;ZNF667,missense_variant,p.Glu524Gln,ENST00000292069,;ZNF667,missense_variant,p.Glu524Gln,ENST00000504904,;ZNF667,3_prime_UTR_variant,,ENST00000591790,;ZNF667,downstream_gene_variant,,ENST00000587555,;ZNF667,3_prime_UTR_variant,,ENST00000592189,;	G	ENSG00000198046	ENST00000504904	Transcript	missense_variant	2290	1570	524	E/Q	Gag/Cag	.	.	.	-1	ZNF667	HGNC	28854	protein_coding	YES	CCDS12944.1	ENSP00000439402	ZN667_HUMAN	K7ERY5_HUMAN,K7EIE0_HUMAN	UPI0000202CEE	.	deleterious(0.01)	probably_damaging(0.997)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24390,hmmpanther:PTHR24390:SF46,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCTCCAG	.	5	BLCA
C19orf18	0	.	GRCh37	19	58472793	58472793	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498G>A	p.%3D	p.E166E	ENST00000314391	5/6	54	21	32	52	52	0	C19orf18,synonymous_variant,p.%3D,ENST00000314391,;	T	ENSG00000177025	ENST00000314391	Transcript	synonymous_variant	600	498	166	E	gaG/gaA	.	.	.	-1	C19orf18	HGNC	28642	protein_coding	YES	CCDS12967.1	ENSP00000321519	CS018_HUMAN	.	UPI000006D09E	.	.	.	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGTTCTCTGG	.	5	BLCA
C19orf18	0	.	GRCh37	19	58472896	58472896	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395G>C	p.Arg132Thr	p.R132T	ENST00000314391	5/6	69	30	38	79	79	0	C19orf18,missense_variant,p.Arg132Thr,ENST00000314391,;	G	ENSG00000177025	ENST00000314391	Transcript	missense_variant	497	395	132	R/T	aGa/aCa	.	.	.	-1	C19orf18	HGNC	28642	protein_coding	YES	CCDS12967.1	ENSP00000321519	CS018_HUMAN	.	UPI000006D09E	.	deleterious(0.01)	possibly_damaging(0.765)	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTCTTTCC	.	5	BLCA
ZNF132	0	.	GRCh37	19	58945407	58945407	+	Missense_Mutation	SNP	G	G	C	rs200297180	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1404C>G	p.Phe468Leu	p.F468L	ENST00000254166	3/3	89	66	22	68	68	0	ZNF132,missense_variant,p.Phe468Leu,ENST00000254166,;CTD-2619J13.17,upstream_gene_variant,,ENST00000594816,;ZNF132,non_coding_transcript_exon_variant,,ENST00000599148,;	C	ENSG00000131849	ENST00000254166	Transcript	missense_variant	1805	1404	468	F/L	ttC/ttG	rs200297180	.	.	-1	ZNF132	HGNC	12916	protein_coding	YES	CCDS12980.1	ENSP00000254166	ZN132_HUMAN	.	UPI0000366EAB	.	deleterious(0)	probably_damaging(0.997)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF219,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTGAAGTC	by1000G	5	BLCA
ANGPTL4	0	.	GRCh37	19	8438674	8438674	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1125G>A	p.%3D	p.K375K	ENST00000301455	7/7	123	106	16	154	154	0	ANGPTL4,synonymous_variant,p.%3D,ENST00000393962,;ANGPTL4,synonymous_variant,p.%3D,ENST00000541807,;ANGPTL4,synonymous_variant,p.%3D,ENST00000301455,;ANGPTL4,intron_variant,,ENST00000594875,;RAB11B-AS1,downstream_gene_variant,,ENST00000597785,;RAB11B-AS1,downstream_gene_variant,,ENST00000597407,;RAB11B-AS1,downstream_gene_variant,,ENST00000593581,;ANGPTL4,synonymous_variant,p.%3D,ENST00000593998,;ANGPTL4,3_prime_UTR_variant,,ENST00000595079,;ANGPTL4,downstream_gene_variant,,ENST00000598255,;ANGPTL4,downstream_gene_variant,,ENST00000594348,;ANGPTL4,downstream_gene_variant,,ENST00000597137,;	A	ENSG00000167772	ENST00000301455	Transcript	synonymous_variant	1296	1125	375	K	aaG/aaA	.	.	.	1	ANGPTL4	HGNC	16039	protein_coding	YES	CCDS12200.1	ENSP00000301455	ANGL4_HUMAN	M0R3A2_HUMAN,M0R0N8_HUMAN,M0QZ51_HUMAN,F5H0I2_HUMAN	UPI000003747B	.	.	.	7/7	.	PROSITE_profiles:PS51406,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF16,Gene3D:4.10.530.10,Pfam_domain:PF00147,SMART_domains:SM00186,Superfamily_domains:SSF56496	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTAAGAAGGG	.	4	BLCA
VCAM1	0	.	GRCh37	1	101200313	101200313	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2048T>C	p.Leu683Pro	p.L683P	ENST00000294728	8/9	41	21	20	56	56	0	VCAM1,missense_variant,p.Leu591Pro,ENST00000347652,;VCAM1,missense_variant,p.Leu484Pro,ENST00000370115,;VCAM1,missense_variant,p.Leu683Pro,ENST00000294728,;VCAM1,missense_variant,p.Leu621Pro,ENST00000370119,;VCAM1,upstream_gene_variant,,ENST00000603679,;	C	ENSG00000162692	ENST00000294728	Transcript	missense_variant	2149	2048	683	L/P	cTt/cCt	.	.	.	1	VCAM1	HGNC	12663	protein_coding	YES	CCDS773.1	ENSP00000294728	VCAM1_HUMAN	Q68DC4_HUMAN,G0ZI12_HUMAN,G0ZFQ0_HUMAN,F8UV74_HUMAN,F8UU18_HUMAN,F2YYR6_HUMAN	UPI0000000E06	.	deleterious(0)	probably_damaging(1)	8/9	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACACTTGATG	.	5	BLCA
NTNG1	0	.	GRCh37	1	107867418	107867418	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.761G>C	p.Arg254Thr	p.R254T	ENST00000370068	3/8	46	15	31	68	68	0	NTNG1,missense_variant,p.Arg254Thr,ENST00000370074,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370070,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370071,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370072,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370067,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370073,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370061,;NTNG1,missense_variant,p.Arg254Thr,ENST00000542803,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370068,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370066,;NTNG1,missense_variant,p.Arg254Thr,ENST00000370065,;NTNG1,non_coding_transcript_exon_variant,,ENST00000477948,;NTNG1,non_coding_transcript_exon_variant,,ENST00000294649,;	C	ENSG00000162631	ENST00000370068	Transcript	missense_variant	1607	761	254	R/T	aGa/aCa	.	.	.	1	NTNG1	HGNC	23319	protein_coding	YES	CCDS44180.1	ENSP00000359085	NTNG1_HUMAN	Q5IEC8_HUMAN	UPI0000458A3E	.	deleterious(0)	probably_damaging(0.987)	3/8	.	PROSITE_profiles:PS51117,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF28,Pfam_domain:PF00055,SMART_domains:SM00136	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCAGAGATT	.	5	BLCA
SV2A	0	.	GRCh37	1	149878363	149878363	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1724C>A	p.Thr575Lys	p.T575K	ENST00000369146	11/13	37	29	8	39	39	0	SV2A,missense_variant,p.Thr575Lys,ENST00000369145,;SV2A,missense_variant,p.Thr575Lys,ENST00000369146,;	T	ENSG00000159164	ENST00000369146	Transcript	missense_variant	2215	1724	575	T/K	aCa/aAa	.	.	.	-1	SV2A	HGNC	20566	protein_coding	YES	CCDS940.1	ENSP00000358142	SV2A_HUMAN	.	UPI000000DAD2	.	tolerated(0.08)	probably_damaging(0.911)	11/13	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24065:SF4,hmmpanther:PTHR24065,TIGRFAM_domain:TIGR01299,Pfam_domain:PF13599,Superfamily_domains:SSF141571	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGAATGTACTG	.	4	BLCA
FLG2	0	.	GRCh37	1	152324483	152324483	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5779G>A	p.Gly1927Arg	p.G1927R	ENST00000388718	3/3	181	151	29	179	179	0	FLG2,missense_variant,p.Gly1927Arg,ENST00000388718,;FLG-AS1,intron_variant,,ENST00000392688,;FLG-AS1,intron_variant,,ENST00000445097,;	T	ENSG00000143520	ENST00000388718	Transcript	missense_variant	5852	5779	1927	G/R	Gga/Aga	.	.	.	-1	FLG2	HGNC	33276	protein_coding	YES	CCDS30861.1	ENSP00000373370	FILA2_HUMAN	.	UPI00004E1DE5	.	.	probably_damaging(0.995)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22571,hmmpanther:PTHR22571:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTCCTGTCT	.	4	BLCA
ADAM15	0	.	GRCh37	1	155025187	155025187	+	Silent	SNP	G	G	A	rs781004867	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120G>A	p.%3D	p.P40P	ENST00000356955	2/23	9	6	3	16	16	0	ADAM15,missense_variant,p.Arg50Gln,ENST00000447332,;ADAM15,synonymous_variant,p.%3D,ENST00000359280,;ADAM15,synonymous_variant,p.%3D,ENST00000356955,;ADAM15,synonymous_variant,p.%3D,ENST00000360674,;ADAM15,synonymous_variant,p.%3D,ENST00000531455,;ADAM15,synonymous_variant,p.%3D,ENST00000449910,;ADAM15,synonymous_variant,p.%3D,ENST00000355956,;ADAM15,synonymous_variant,p.%3D,ENST00000271836,;ADAM15,synonymous_variant,p.%3D,ENST00000368412,;ADAM15,synonymous_variant,p.%3D,ENST00000368410,;ADAM15,synonymous_variant,p.%3D,ENST00000368413,;DCST1,downstream_gene_variant,,ENST00000423025,;DCST1,downstream_gene_variant,,ENST00000392480,;DCST1,downstream_gene_variant,,ENST00000295542,;DCST1,downstream_gene_variant,,ENST00000368419,;ADAM15,non_coding_transcript_exon_variant,,ENST00000477533,;ADAM15,non_coding_transcript_exon_variant,,ENST00000487956,;ADAM15,non_coding_transcript_exon_variant,,ENST00000485346,;ADAM15,non_coding_transcript_exon_variant,,ENST00000531831,;ADAM15,non_coding_transcript_exon_variant,,ENST00000480331,;ADAM15,non_coding_transcript_exon_variant,,ENST00000531703,;ADAM15,non_coding_transcript_exon_variant,,ENST00000472434,;ADAM15,non_coding_transcript_exon_variant,,ENST00000533732,;ADAM15,non_coding_transcript_exon_variant,,ENST00000473905,;ADAM15,upstream_gene_variant,,ENST00000470779,;ADAM15,synonymous_variant,p.%3D,ENST00000529473,;ADAM15,synonymous_variant,p.%3D,ENST00000526491,;ADAM15,non_coding_transcript_exon_variant,,ENST00000461564,;ADAM15,non_coding_transcript_exon_variant,,ENST00000527418,;DCST1,downstream_gene_variant,,ENST00000525273,;ADAM15,upstream_gene_variant,,ENST00000534019,;ADAM15,upstream_gene_variant,,ENST00000525020,;	A	ENSG00000143537	ENST00000356955	Transcript	synonymous_variant	221	120	40	P	ccG/ccA	rs781004867	.	.	1	ADAM15	HGNC	193	protein_coding	YES	CCDS1087.1	ENSP00000349436	ADA15_HUMAN	.	UPI000035CC78	.	.	.	2/23	.	hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCGAGGGA	.	2	BLCA
ISG20L2	0	.	GRCh37	1	156696939	156696939	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.506C>T	p.Ser169Phe	p.S169F	ENST00000313146	1/3	88	55	33	107	107	0	ISG20L2,missense_variant,p.Ser169Phe,ENST00000368219,;ISG20L2,missense_variant,p.Ser169Phe,ENST00000313146,;RRNAD1,upstream_gene_variant,,ENST00000476229,;RRNAD1,upstream_gene_variant,,ENST00000524343,;RRNAD1,upstream_gene_variant,,ENST00000368218,;RRNAD1,upstream_gene_variant,,ENST00000368216,;RRNAD1,upstream_gene_variant,,ENST00000519086,;RRNAD1,upstream_gene_variant,,ENST00000484742,;ISG20L2,non_coding_transcript_exon_variant,,ENST00000496538,;ISG20L2,downstream_gene_variant,,ENST00000469074,;ISG20L2,downstream_gene_variant,,ENST00000470713,;ISG20L2,upstream_gene_variant,,ENST00000472824,;	A	ENSG00000143319	ENST00000313146	Transcript	missense_variant	1289	506	169	S/F	tCc/tTc	.	.	.	-1	ISG20L2	HGNC	25745	protein_coding	YES	CCDS1153.1	ENSP00000323424	I20L2_HUMAN	.	UPI000006D42B	.	tolerated(0.14)	benign(0.004)	1/3	.	hmmpanther:PTHR12801,hmmpanther:PTHR12801:SF59	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCGGAGCAT	.	5	BLCA
FCRL4	0	.	GRCh37	1	157548317	157548317	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1376G>A	p.Gly459Glu	p.G459E	ENST00000271532	10/12	28	19	8	52	52	0	FCRL4,missense_variant,p.Gly459Glu,ENST00000271532,;FCRL4,non_coding_transcript_exon_variant,,ENST00000479869,;FCRL4,non_coding_transcript_exon_variant,,ENST00000448509,;	T	ENSG00000163518	ENST00000271532	Transcript	missense_variant	1512	1376	459	G/E	gGa/gAa	.	.	.	-1	FCRL4	HGNC	18507	protein_coding	YES	CCDS1166.1	ENSP00000271532	FCRL4_HUMAN	.	UPI000006E26B	.	tolerated(0.65)	benign(0.003)	10/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCCCTTT	.	5	BLCA
PAPPA2	0	.	GRCh37	1	176564145	176564145	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1405C>T	p.Pro469Ser	p.P469S	ENST00000367662	3/23	63	50	13	86	86	0	PAPPA2,missense_variant,p.Pro469Ser,ENST00000367661,;PAPPA2,missense_variant,p.Pro469Ser,ENST00000367662,;	T	ENSG00000116183	ENST00000367662	Transcript	missense_variant	2569	1405	469	P/S	Ccc/Tcc	.	.	.	1	PAPPA2	HGNC	14615	protein_coding	YES	CCDS41438.1	ENSP00000356634	PAPP2_HUMAN	.	UPI000004A835	.	tolerated(0.12)	benign(0.035)	3/23	.	hmmpanther:PTHR19325:SF349,hmmpanther:PTHR19325	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCCCTTT	.	5	BLCA
COLGALT2	0	.	GRCh37	1	183920204	183920204	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1073G>A	p.Arg358Gln	p.R358Q	ENST00000361927	8/12	112	63	49	168	168	0	COLGALT2,missense_variant,p.Arg95Gln,ENST00000367520,;COLGALT2,missense_variant,p.Arg358Gln,ENST00000361927,;COLGALT2,missense_variant,p.Arg358Gln,ENST00000546159,;COLGALT2,upstream_gene_variant,,ENST00000367521,;	T	ENSG00000198756	ENST00000361927	Transcript	missense_variant	1445	1073	358	R/Q	cGg/cAg	.	.	.	-1	COLGALT2	HGNC	16790	protein_coding	YES	CCDS1360.1	ENSP00000354960	GT252_HUMAN	Q5SXQ5_HUMAN,B3KT92_HUMAN	UPI000007423A	.	deleterious(0.01)	possibly_damaging(0.473)	8/12	.	Low_complexity_(Seg):seg,Pfam_domain:PF01755,hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATCCGGTCC	.	5	BLCA
HMCN1	0	.	GRCh37	1	185969307	185969307	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4005G>C	p.Glu1335Asp	p.E1335D	ENST00000271588	26/107	48	37	10	69	69	0	HMCN1,missense_variant,p.Glu1335Asp,ENST00000367492,;HMCN1,missense_variant,p.Glu1335Asp,ENST00000271588,;	C	ENSG00000143341	ENST00000271588	Transcript	missense_variant	4234	4005	1335	E/D	gaG/gaC	.	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	benign(0.012)	26/107	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00406,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGAGTACAT	.	5	BLCA
CDC73	0	.	GRCh37	1	193091303	193091303	+	5'UTR	SNP	C	C	G	rs759109408	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28C>G	.	.	ENST00000367435	1/17	39	27	12	42	42	0	CDC73,5_prime_UTR_variant,,ENST00000367435,;CDC73,upstream_gene_variant,,ENST00000482484,;	G	ENSG00000134371	ENST00000367435	Transcript	5_prime_UTR_variant	157	.	.	.	.	rs759109408	.	.	1	CDC73	HGNC	16783	protein_coding	YES	CCDS1382.1	ENSP00000356405	CDC73_HUMAN	.	UPI0000021592	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CGCCCCGAGCC	byFrequency	4	BLCA
FAM71A	0	.	GRCh37	1	212799611	212799611	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1392C>T	p.%3D	p.F464F	ENST00000294829	1/1	35	17	17	47	47	0	FAM71A,synonymous_variant,p.%3D,ENST00000294829,;RP11-338C15.5,non_coding_transcript_exon_variant,,ENST00000427949,;	T	ENSG00000162771	ENST00000294829	Transcript	synonymous_variant	1823	1392	464	F	ttC/ttT	.	.	.	1	FAM71A	HGNC	26541	protein_coding	YES	CCDS1507.1	ENSP00000294829	FA71A_HUMAN	.	UPI000013E1C2	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22574:SF9,hmmpanther:PTHR22574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCAGCCA	.	5	BLCA
KCNK2	0	.	GRCh37	1	215256571	215256571	+	5'Flank	SNP	T	T	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000444842	.	23	20	3	24	24	0	KCNK2,5_prime_UTR_variant,,ENST00000391894,;KCNK2,intron_variant,,ENST00000478774,;KCNK2,intron_variant,,ENST00000391895,;KCNK2,upstream_gene_variant,,ENST00000444842,;KCNK2,upstream_gene_variant,,ENST00000457122,;KCNK2,intron_variant,,ENST00000486921,;KCNK2,intron_variant,,ENST00000467031,;KCNK2,upstream_gene_variant,,ENST00000470177,;KCNK2,upstream_gene_variant,,ENST00000474771,;	C	ENSG00000082482	ENST00000444842	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	8	1	KCNK2	HGNC	6277	protein_coding	YES	CCDS41467.1	ENSP00000394033	KCNK2_HUMAN	C9JXY2_HUMAN,C9JDK1_HUMAN	UPI000013D4B8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCGCTCTCCC	.	2	BLCA
KCTD3	0	.	GRCh37	1	215793777	215793777	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2265G>A	p.%3D	p.K755K	ENST00000259154	18/18	73	48	25	99	99	0	KCTD3,synonymous_variant,p.%3D,ENST00000259154,;USH2A,downstream_gene_variant,,ENST00000366943,;KCTD3,downstream_gene_variant,,ENST00000452413,;USH2A,downstream_gene_variant,,ENST00000307340,;KCTD3,non_coding_transcript_exon_variant,,ENST00000495537,;KCTD3,downstream_gene_variant,,ENST00000465650,;	A	ENSG00000136636	ENST00000259154	Transcript	synonymous_variant	2559	2265	755	K	aaG/aaA	.	.	.	1	KCTD3	HGNC	21305	protein_coding	YES	CCDS1515.1	ENSP00000259154	KCTD3_HUMAN	B4DJX2_HUMAN	UPI0000071A2E	.	.	.	18/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15859,hmmpanther:PTHR15859:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAAAGG	.	5	BLCA
GALNT2	0	.	GRCh37	1	230398203	230398203	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1137-116G>C	.	.	ENST00000366672	.	14	9	5	13	13	0	GALNT2,intron_variant,,ENST00000543760,;GALNT2,intron_variant,,ENST00000366672,;GALNT2,intron_variant,,ENST00000541865,;RP5-956O18.2,intron_variant,,ENST00000440729,;GALNT2,non_coding_transcript_exon_variant,,ENST00000492568,;GALNT2,non_coding_transcript_exon_variant,,ENST00000485438,;	C	ENSG00000143641	ENST00000366672	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GALNT2	HGNC	4124	protein_coding	YES	CCDS1582.1	ENSP00000355632	GALT2_HUMAN	.	UPI0000074053	.	.	.	.	11/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGGAGCTG	.	5	BLCA
GALNT2	0	.	GRCh37	1	230398281	230398281	+	Intron	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1137-38G>C	.	.	ENST00000366672	.	43	33	10	55	55	0	GALNT2,intron_variant,,ENST00000543760,;GALNT2,intron_variant,,ENST00000366672,;GALNT2,intron_variant,,ENST00000541865,;RP5-956O18.2,intron_variant,,ENST00000440729,;GALNT2,non_coding_transcript_exon_variant,,ENST00000492568,;GALNT2,non_coding_transcript_exon_variant,,ENST00000485438,;	C	ENSG00000143641	ENST00000366672	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GALNT2	HGNC	4124	protein_coding	YES	CCDS1582.1	ENSP00000355632	GALT2_HUMAN	.	UPI0000074053	.	.	.	.	11/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGAAAGAAAGG	.	4	BLCA
GALNT2	0	.	GRCh37	1	230398353	230398353	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1171G>A	p.Glu391Lys	p.E391K	ENST00000366672	12/16	131	85	46	153	153	0	GALNT2,missense_variant,p.Glu353Lys,ENST00000543760,;GALNT2,missense_variant,p.Glu391Lys,ENST00000366672,;GALNT2,stop_retained_variant,p.%3D,ENST00000541865,;RP5-956O18.2,intron_variant,,ENST00000440729,;GALNT2,non_coding_transcript_exon_variant,,ENST00000492568,;GALNT2,non_coding_transcript_exon_variant,,ENST00000485438,;	A	ENSG00000143641	ENST00000366672	Transcript	missense_variant	1243	1171	391	E/K	Gaa/Aaa	.	.	.	1	GALNT2	HGNC	4124	protein_coding	YES	CCDS1582.1	ENSP00000355632	GALT2_HUMAN	.	UPI0000074053	.	deleterious(0.01)	benign(0.111)	12/16	.	hmmpanther:PTHR11675:SF24,hmmpanther:PTHR11675,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGAATAC	.	5	BLCA
PPIE	0	.	GRCh37	1	40214601	40214601	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535G>A	p.Glu179Lys	p.E179K	ENST00000372830	8/11	68	56	12	36	36	0	PPIE,missense_variant,p.Glu113Lys,ENST00000497370,;PPIE,missense_variant,p.Glu128Lys,ENST00000372835,;PPIE,missense_variant,p.Met137Ile,ENST00000470213,;PPIE,missense_variant,p.Glu179Lys,ENST00000324379,;PPIE,missense_variant,p.Glu179Lys,ENST00000372830,;PPIE,missense_variant,p.Glu179Lys,ENST00000356511,;PPIE,downstream_gene_variant,,ENST00000470018,;PPIE,downstream_gene_variant,,ENST00000480169,;PPIE,3_prime_UTR_variant,,ENST00000495526,;PPIE,3_prime_UTR_variant,,ENST00000475350,;PPIE,3_prime_UTR_variant,,ENST00000474804,;PPIE,non_coding_transcript_exon_variant,,ENST00000482751,;	A	ENSG00000084072	ENST00000372830	Transcript	missense_variant	535	535	179	E/K	Gaa/Aaa	.	.	.	1	PPIE	HGNC	9258	protein_coding	YES	CCDS53299.1	ENSP00000361918	PPIE_HUMAN	E9PKY5_HUMAN,E9PIB0_HUMAN	UPI00002057ED	.	deleterious(0.03)	probably_damaging(0.998)	8/11	.	Superfamily_domains:SSF50891,PIRSF_domain:PIRSF001475,Gene3D:2.40.100.10,Pfam_domain:PF00160,hmmpanther:PTHR11071,hmmpanther:PTHR11071:SF226,PROSITE_profiles:PS50072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATGAAAAG	.	5	BLCA
SZT2	0	.	GRCh37	1	43892848	43892848	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3260C>T	p.Ser1087Leu	p.S1087L	ENST00000562955	23/71	129	98	31	119	119	0	SZT2,missense_variant,p.Ser245Leu,ENST00000372442,;SZT2,missense_variant,p.Ser1087Leu,ENST00000562955,;SZT2,splice_region_variant,,ENST00000470139,;SZT2,upstream_gene_variant,,ENST00000478140,;	T	ENSG00000198198	ENST00000562955	Transcript	missense_variant	3260	3260	1087	S/L	tCa/tTa	COSM1474009,COSM1474010,COSM1474011	.	.	1	SZT2	HGNC	29040	protein_coding	YES	CCDS30694.2	ENSP00000457168	SZT2_HUMAN	.	UPI0001E24F46	.	tolerated(0.08)	benign(0.017)	23/71	.	hmmpanther:PTHR14918	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAGGTG	.	5	BLCA
TOE1	0	.	GRCh37	1	45809401	45809401	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27G>C	.	.	ENST00000372090	8/8	58	40	18	49	49	0	TOE1,3_prime_UTR_variant,,ENST00000372090,;TOE1,3_prime_UTR_variant,,ENST00000539779,;MUTYH,upstream_gene_variant,,ENST00000372098,;MUTYH,upstream_gene_variant,,ENST00000412971,;MUTYH,upstream_gene_variant,,ENST00000531105,;MUTYH,upstream_gene_variant,,ENST00000372110,;MUTYH,upstream_gene_variant,,ENST00000355498,;MUTYH,upstream_gene_variant,,ENST00000450313,;MUTYH,upstream_gene_variant,,ENST00000372104,;MUTYH,upstream_gene_variant,,ENST00000372115,;TESK2,downstream_gene_variant,,ENST00000341771,;TESK2,downstream_gene_variant,,ENST00000538496,;MUTYH,upstream_gene_variant,,ENST00000528013,;MUTYH,upstream_gene_variant,,ENST00000448481,;MUTYH,upstream_gene_variant,,ENST00000456914,;MUTYH,upstream_gene_variant,,ENST00000372100,;MUTYH,upstream_gene_variant,,ENST00000488731,;MUTYH,upstream_gene_variant,,ENST00000529984,;TESK2,downstream_gene_variant,,ENST00000372086,;MUTYH,upstream_gene_variant,,ENST00000483127,;MUTYH,upstream_gene_variant,,ENST00000435155,;TESK2,downstream_gene_variant,,ENST00000372084,;MUTYH,upstream_gene_variant,,ENST00000354383,;MUTYH,upstream_gene_variant,,ENST00000528332,;TOE1,non_coding_transcript_exon_variant,,ENST00000495703,;TOE1,downstream_gene_variant,,ENST00000477731,;TESK2,downstream_gene_variant,,ENST00000486676,;TOE1,downstream_gene_variant,,ENST00000471337,;TOE1,downstream_gene_variant,,ENST00000460057,;MUTYH,upstream_gene_variant,,ENST00000525160,;MUTYH,upstream_gene_variant,,ENST00000481571,;MUTYH,upstream_gene_variant,,ENST00000534453,;MUTYH,upstream_gene_variant,,ENST00000475516,;MUTYH,upstream_gene_variant,,ENST00000470256,;MUTYH,upstream_gene_variant,,ENST00000474703,;MUTYH,upstream_gene_variant,,ENST00000485484,;MUTYH,upstream_gene_variant,,ENST00000461495,;MUTYH,upstream_gene_variant,,ENST00000481139,;MUTYH,upstream_gene_variant,,ENST00000492494,;MUTYH,upstream_gene_variant,,ENST00000467940,;MUTYH,upstream_gene_variant,,ENST00000479746,;MUTYH,upstream_gene_variant,,ENST00000476789,;MUTYH,upstream_gene_variant,,ENST00000462387,;MUTYH,upstream_gene_variant,,ENST00000483642,;	C	ENSG00000132773	ENST00000372090	Transcript	3_prime_UTR_variant	2143	.	.	.	.	.	.	.	1	TOE1	HGNC	15954	protein_coding	YES	CCDS521.1	ENSP00000361162	TOE1_HUMAN	B3KSC7_HUMAN	UPI00000382DE	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTGGAACAG	.	5	BLCA
FAAH	0	.	GRCh37	1	46877299	46877299	+	Silent	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332C>G	p.%3D	p.L444L	ENST00000243167	12/15	21	15	6	18	18	0	FAAH,synonymous_variant,p.%3D,ENST00000243167,;FAAH,non_coding_transcript_exon_variant,,ENST00000493636,;FAAH,intron_variant,,ENST00000484697,;FAAH,downstream_gene_variant,,ENST00000489366,;FAAH,downstream_gene_variant,,ENST00000493735,;	G	ENSG00000117480	ENST00000243167	Transcript	synonymous_variant	1416	1332	444	L	ctC/ctG	.	.	.	1	FAAH	HGNC	3553	protein_coding	YES	CCDS535.1	ENSP00000243167	FAAH1_HUMAN	.	UPI000013C9E7	.	.	.	12/15	.	hmmpanther:PTHR11895,hmmpanther:PTHR11895:SF51,Gene3D:3.90.1300.10,Pfam_domain:PF01425,PIRSF_domain:PIRSF001221,Superfamily_domains:SSF75304	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCTGGGA	.	5	BLCA
CYP4A22	0	.	GRCh37	1	47609494	47609494	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696G>C	p.Met232Ile	p.M232I	ENST00000371891	6/12	68	46	22	80	80	0	CYP4A22,missense_variant,p.Met232Ile,ENST00000294337,;CYP4A22,missense_variant,p.Met232Ile,ENST00000371891,;CYP4A22,intron_variant,,ENST00000371890,;CYP4A22-AS1,intron_variant,,ENST00000444042,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000485117,;CYP4A22,intron_variant,,ENST00000490948,;	C	ENSG00000162365	ENST00000371891	Transcript	missense_variant	727	696	232	M/I	atG/atC	.	.	.	1	CYP4A22	HGNC	20575	protein_coding	YES	CCDS30707.1	ENSP00000360958	CP4AM_HUMAN	.	UPI00002371F0	.	tolerated(0.62)	benign(0.001)	6/12	.	hmmpanther:PTHR24290:SF67,hmmpanther:PTHR24290,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTATGAGGAA	.	5	BLCA
ELTD1	0	.	GRCh37	1	79383520	79383520	+	Silent	SNP	G	G	C	rs200284765	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1677C>G	p.%3D	p.T559T	ENST00000370742	11/15	53	24	29	108	108	0	ELTD1,synonymous_variant,p.%3D,ENST00000370742,;ELTD1,synonymous_variant,p.%3D,ENST00000401034,;	C	ENSG00000162618	ENST00000370742	Transcript	synonymous_variant	1741	1677	559	T	acC/acG	rs200284765	.	.	-1	ELTD1	HGNC	20822	protein_coding	YES	CCDS41352.1	ENSP00000359778	ELTD1_HUMAN	.	UPI00004561FF	.	.	.	11/15	.	PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF59,Pfam_domain:PF00002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGGTTGT	byCluster	5	BLCA
ELTD1	0	.	GRCh37	1	79403928	79403928	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433G>C	p.Glu145Gln	p.E145Q	ENST00000370742	5/15	30	17	12	42	42	0	ELTD1,missense_variant,p.Glu145Gln,ENST00000370742,;	G	ENSG00000162618	ENST00000370742	Transcript	missense_variant	497	433	145	E/Q	Gaa/Caa	.	.	.	-1	ELTD1	HGNC	20822	protein_coding	YES	CCDS41352.1	ENSP00000359778	ELTD1_HUMAN	.	UPI00004561FF	.	deleterious(0)	possibly_damaging(0.861)	5/15	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF59,Pfam_domain:PF12003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTCTTGTA	.	5	BLCA
CLCA4	0	.	GRCh37	1	87029361	87029361	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466G>A	p.Glu156Lys	p.E156K	ENST00000370563	4/14	38	12	26	54	54	0	CLCA4,missense_variant,p.Glu156Lys,ENST00000370563,;CLCA4,5_prime_UTR_variant,,ENST00000263723,;	A	ENSG00000016602	ENST00000370563	Transcript	missense_variant	508	466	156	E/K	Gag/Aag	.	.	.	1	CLCA4	HGNC	2018	protein_coding	YES	CCDS41355.1	ENSP00000359594	CLCA4_HUMAN	Q9NXP1_HUMAN	UPI00000389E8	.	deleterious(0.01)	probably_damaging(0.91)	4/14	.	hmmpanther:PTHR10579,hmmpanther:PTHR10579:SF2,Pfam_domain:PF08434,TIGRFAM_domain:TIGR00868	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATGAGTGG	.	5	BLCA
LZTS3	0	.	GRCh37	20	3147524	3147524	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286T>A	p.Ser96Thr	p.S96T	ENST00000329152	1/3	30	24	6	39	39	0	LZTS3,missense_variant,p.Ser96Thr,ENST00000329152,;LZTS3,missense_variant,p.Ser96Thr,ENST00000360342,;LZTS3,missense_variant,p.Ser96Thr,ENST00000337576,;	T	ENSG00000088899	ENST00000329152	Transcript	missense_variant	1684	286	96	S/T	Tcc/Acc	.	.	.	-1	LZTS3	Uniprot_gn	.	protein_coding	YES	.	ENSP00000332123	LZTS3_HUMAN	.	UPI0000139A8C	.	tolerated(0.41)	possibly_damaging(0.827)	1/3	.	hmmpanther:PTHR19354:SF6,hmmpanther:PTHR19354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGGAGTTGG	.	5	BLCA
MYH7B	0	.	GRCh37	20	33583205	33583205	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2893G>A	p.Glu965Lys	p.E965K	ENST00000262873	26/43	21	17	4	25	25	0	MYH7B,missense_variant,p.Glu965Lys,ENST00000262873,;MIR499A,downstream_gene_variant,,ENST00000384903,;	A	ENSG00000078814	ENST00000262873	Transcript	missense_variant	2985	2893	965	E/K	Gag/Aag	.	.	.	1	MYH7B	HGNC	15906	protein_coding	YES	CCDS42869.1	ENSP00000262873	MYH7B_HUMAN	.	UPI0000253BD4	.	.	probably_damaging(0.997)	26/43	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF310,Gene3D:1.20.5.340,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGGAGGGG	.	5	BLCA
SEMG2	0	.	GRCh37	20	43850871	43850871	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>C	p.Glu200Gln	p.E200Q	ENST00000372769	2/3	69	53	16	89	89	0	SEMG2,missense_variant,p.Glu200Gln,ENST00000372769,;	C	ENSG00000124157	ENST00000372769	Transcript	missense_variant	688	598	200	E/Q	Gaa/Caa	.	.	.	1	SEMG2	HGNC	10743	protein_coding	YES	CCDS13346.1	ENSP00000361855	SEMG2_HUMAN	.	UPI0000135845	.	tolerated(0.17)	probably_damaging(0.996)	2/3	.	hmmpanther:PTHR10547,hmmpanther:PTHR10547:SF6,Pfam_domain:PF05474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAACTA	.	5	BLCA
SNAI1	0	.	GRCh37	20	48604460	48604460	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662C>G	p.Ser221Cys	p.S221C	ENST00000244050	3/3	45	40	5	59	59	0	SNAI1,missense_variant,p.Ser221Cys,ENST00000244050,;	G	ENSG00000124216	ENST00000244050	Transcript	missense_variant	723	662	221	S/C	tCc/tGc	.	.	.	1	SNAI1	HGNC	11128	protein_coding	YES	CCDS13423.1	ENSP00000244050	SNAI1_HUMAN	.	UPI0000135B17	.	deleterious(0.03)	probably_damaging(0.997)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR11389:SF430,hmmpanther:PTHR11389,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCGCTCCAACC	.	3	BLCA
FERMT1	0	.	GRCh37	20	6096680	6096680	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.163G>C	p.Asp55His	p.D55H	ENST00000217289	3/15	32	22	10	25	25	0	FERMT1,missense_variant,p.Asp55His,ENST00000378844,;FERMT1,missense_variant,p.Asp55His,ENST00000217289,;FERMT1,5_prime_UTR_variant,,ENST00000536936,;	G	ENSG00000101311	ENST00000217289	Transcript	missense_variant	952	163	55	D/H	Gac/Cac	.	.	.	-1	FERMT1	HGNC	15889	protein_coding	YES	CCDS13098.1	ENSP00000217289	FERM1_HUMAN	Q5JWV4_HUMAN,G3V1L6_HUMAN	UPI00001285DD	.	deleterious(0)	probably_damaging(0.998)	3/15	.	hmmpanther:PTHR16160:SF12,hmmpanther:PTHR16160	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCAGTCTTGGG	.	2	BLCA
BIRC7	0	.	GRCh37	20	61870741	61870741	+	Silent	SNP	G	G	A	rs373757098	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681G>A	p.%3D	p.A227A	ENST00000217169	6/7	30	17	12	32	32	0	BIRC7,synonymous_variant,p.%3D,ENST00000217169,;BIRC7,intron_variant,,ENST00000395306,;BIRC7,intron_variant,,ENST00000342412,;NKAIN4,downstream_gene_variant,,ENST00000370307,;NKAIN4,downstream_gene_variant,,ENST00000370317,;NKAIN4,downstream_gene_variant,,ENST00000370313,;NKAIN4,downstream_gene_variant,,ENST00000370316,;MIR3196,downstream_gene_variant,,ENST00000579556,;NKAIN4,downstream_gene_variant,,ENST00000466885,;NKAIN4,downstream_gene_variant,,ENST00000470246,;NKAIN4,downstream_gene_variant,,ENST00000461738,;NKAIN4,downstream_gene_variant,,ENST00000486495,;	A	ENSG00000101197	ENST00000217169	Transcript	synonymous_variant	895	681	227	A	gcG/gcA	rs373757098,COSM1534221	.	.	1	BIRC7	HGNC	13702	protein_coding	YES	CCDS13513.1	ENSP00000217169	BIRC7_HUMAN	.	UPI00001269A6	.	.	.	6/7	.	hmmpanther:PTHR10044	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGCGTGGTG	byFrequency|byCluster	5	BLCA
C21orf62	0	.	GRCh37	21	34166208	34166208	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525C>T	p.%3D	p.F175F	ENST00000536776	2/2	39	22	17	53	53	0	C21orf62,synonymous_variant,p.%3D,ENST00000382373,;C21orf62,synonymous_variant,p.%3D,ENST00000490358,;C21orf62,synonymous_variant,p.%3D,ENST00000479548,;C21orf62,synonymous_variant,p.%3D,ENST00000536776,;C21orf62,synonymous_variant,p.%3D,ENST00000487113,;C21orf49,intron_variant,,ENST00000382378,;C21orf49,intron_variant,,ENST00000477513,;C21orf49,intron_variant,,ENST00000453404,;C21orf49,intron_variant,,ENST00000382375,;C21orf49,intron_variant,,ENST00000382377,;C21orf49,intron_variant,,ENST00000491756,;C21orf49,intron_variant,,ENST00000454365,;	A	ENSG00000205929	ENST00000536776	Transcript	synonymous_variant	666	525	175	F	ttC/ttT	.	.	.	-1	C21orf62	HGNC	1305	protein_coding	YES	CCDS42919.2	ENSP00000444950	CU062_HUMAN	.	UPI0001A81EE7	.	.	.	2/2	.	Pfam_domain:PF15137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTGAAAAG	.	5	BLCA
THAP7	0	.	GRCh37	22	21354150	21354150	+	3'UTR	SNP	C	C	T	rs762588136	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*19G>A	.	.	ENST00000215742	4/4	101	93	8	24	24	0	THAP7,3_prime_UTR_variant,,ENST00000399133,;THAP7,3_prime_UTR_variant,,ENST00000215742,;AC002472.1,downstream_gene_variant,,ENST00000547793,;LZTR1,downstream_gene_variant,,ENST00000215739,;LZTR1,downstream_gene_variant,,ENST00000415817,;LZTR1,downstream_gene_variant,,ENST00000389355,;THAP7-AS1,upstream_gene_variant,,ENST00000429962,;THAP7-AS1,upstream_gene_variant,,ENST00000452284,;THAP7-AS1,upstream_gene_variant,,ENST00000436079,;LZTR1,downstream_gene_variant,,ENST00000479606,;THAP7,non_coding_transcript_exon_variant,,ENST00000498406,;THAP7,non_coding_transcript_exon_variant,,ENST00000476667,;THAP7,non_coding_transcript_exon_variant,,ENST00000471073,;THAP7,downstream_gene_variant,,ENST00000466670,;LZTR1,downstream_gene_variant,,ENST00000464807,;LZTR1,downstream_gene_variant,,ENST00000452988,;LZTR1,downstream_gene_variant,,ENST00000498649,;THAP7,downstream_gene_variant,,ENST00000488975,;THAP7,downstream_gene_variant,,ENST00000471723,;LZTR1,downstream_gene_variant,,ENST00000491432,;LZTR1,downstream_gene_variant,,ENST00000463909,;LZTR1,downstream_gene_variant,,ENST00000439171,;LZTR1,downstream_gene_variant,,ENST00000495142,;LZTR1,downstream_gene_variant,,ENST00000415354,;TUBA3FP,downstream_gene_variant,,ENST00000442739,;	T	ENSG00000184436	ENST00000215742	Transcript	3_prime_UTR_variant	1124	.	.	.	.	rs762588136	.	.	-1	THAP7	HGNC	23190	protein_coding	YES	CCDS13787.1	ENSP00000215742	THAP7_HUMAN	.	UPI00001AE5D8	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTCGGTCA	byFrequency	2	BLCA
PIK3IP1	0	.	GRCh37	22	31685271	31685271	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.587+30G>C	.	.	ENST00000215912	.	17	11	6	25	25	0	PIK3IP1,missense_variant,p.Arg206Thr,ENST00000402249,;PIK3IP1,intron_variant,,ENST00000487265,;PIK3IP1,intron_variant,,ENST00000215912,;PIK3IP1,intron_variant,,ENST00000441972,;PIK3IP1,downstream_gene_variant,,ENST00000443175,;RP3-400N23.6,upstream_gene_variant,,ENST00000440456,;PIK3IP1,intron_variant,,ENST00000493034,;PIK3IP1,intron_variant,,ENST00000480654,;	G	ENSG00000100100	ENST00000215912	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PIK3IP1	HGNC	24942	protein_coding	YES	CCDS13893.1	ENSP00000215912	P3IP1_HUMAN	.	UPI000003F53C	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTCCTAAGA	.	5	BLCA
MYH9	0	.	GRCh37	22	36691645	36691645	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3391G>C	p.Glu1131Gln	p.E1131Q	ENST00000216181	26/41	15	12	3	34	34	0	MYH9,missense_variant,p.Glu1131Gln,ENST00000216181,;MYH9,non_coding_transcript_exon_variant,,ENST00000459960,;	G	ENSG00000100345	ENST00000216181	Transcript	missense_variant	3622	3391	1131	E/Q	Gag/Cag	.	.	.	-1	MYH9	HGNC	7579	protein_coding	YES	CCDS13927.1	ENSP00000216181	MYH9_HUMAN	Q9UMJ0_HUMAN,B1AH99_HUMAN	UPI000012FB80	.	.	probably_damaging(0.976)	26/41	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF317,hmmpanther:PTHR13140,Pfam_domain:PF01576,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCTCAGCTT	.	2	BLCA
L3MBTL2	0	.	GRCh37	22	41605741	41605741	+	Silent	SNP	C	C	T	rs201966770	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66C>T	p.%3D	p.D22D	ENST00000216237	2/17	66	53	12	109	109	0	L3MBTL2,missense_variant,p.Thr15Met,ENST00000449635,;L3MBTL2,synonymous_variant,p.%3D,ENST00000216237,;RP4-756G23.5,non_coding_transcript_exon_variant,,ENST00000441316,;RP4-756G23.5,non_coding_transcript_exon_variant,,ENST00000451176,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000489136,;L3MBTL2,synonymous_variant,p.%3D,ENST00000452106,;L3MBTL2,synonymous_variant,p.%3D,ENST00000450939,;L3MBTL2,3_prime_UTR_variant,,ENST00000453659,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000479978,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000481902,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000466589,;	T	ENSG00000100395	ENST00000216237	Transcript	synonymous_variant	224	66	22	D	gaC/gaT	rs201966770	.	.	1	L3MBTL2	HGNC	18594	protein_coding	YES	CCDS14011.1	ENSP00000216237	LMBL2_HUMAN	.	UPI000012E77E	.	.	.	2/17	.	Low_complexity_(Seg):seg	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGACGACTT	byCluster|by1000G	5	BLCA
TTLL1	0	.	GRCh37	22	43442436	43442436	+	Silent	SNP	G	G	A	rs560814513	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1122C>T	p.%3D	p.V374V	ENST00000266254	10/11	74	62	12	119	119	0	TTLL1,synonymous_variant,p.%3D,ENST00000266254,;TTLL1,synonymous_variant,p.%3D,ENST00000331018,;AL022476.2,intron_variant,,ENST00000443063,;TTLL1,3_prime_UTR_variant,,ENST00000440761,;TTLL1,3_prime_UTR_variant,,ENST00000439248,;	A	ENSG00000100271	ENST00000266254	Transcript	synonymous_variant	1363	1122	374	V	gtC/gtT	rs560814513	.	.	-1	TTLL1	HGNC	1312	protein_coding	YES	CCDS14043.1	ENSP00000266254	TTLL1_HUMAN	.	UPI00001377A7	.	.	.	10/11	.	hmmpanther:PTHR12241:SF31,hmmpanther:PTHR12241	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAGGACTTC	by1000G	5	BLCA
TTLL1	0	.	GRCh37	22	43442529	43442529	+	Silent	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1029C>G	p.%3D	p.L343L	ENST00000266254	10/11	63	49	14	114	114	0	TTLL1,synonymous_variant,p.%3D,ENST00000266254,;TTLL1,synonymous_variant,p.%3D,ENST00000331018,;AL022476.2,intron_variant,,ENST00000443063,;TTLL1,3_prime_UTR_variant,,ENST00000440761,;TTLL1,3_prime_UTR_variant,,ENST00000439248,;	C	ENSG00000100271	ENST00000266254	Transcript	synonymous_variant	1270	1029	343	L	ctC/ctG	.	.	.	-1	TTLL1	HGNC	1312	protein_coding	YES	CCDS14043.1	ENSP00000266254	TTLL1_HUMAN	.	UPI00001377A7	.	.	.	10/11	.	PROSITE_profiles:PS51221,hmmpanther:PTHR12241:SF31,hmmpanther:PTHR12241,Pfam_domain:PF03133,Superfamily_domains:SSF56059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTTGAGGAT	.	5	BLCA
KCNF1	0	.	GRCh37	2	11052945	11052945	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393G>A	p.%3D	p.L131L	ENST00000295082	1/1	39	27	11	52	52	0	KCNF1,synonymous_variant,p.%3D,ENST00000295082,;	A	ENSG00000162975	ENST00000295082	Transcript	synonymous_variant	883	393	131	L	ctG/ctA	.	.	.	1	KCNF1	HGNC	6246	protein_coding	YES	CCDS1676.1	ENSP00000295082	KCNF1_HUMAN	.	UPI000012DC98	.	.	.	1/1	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11537:SF42,hmmpanther:PTHR11537,Gene3D:3.30.710.10,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAGCGA	.	5	BLCA
GRB14	0	.	GRCh37	2	165378494	165378494	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.812C>G	p.Ser271Ter	p.S271*	ENST00000263915	6/14	40	29	11	65	65	0	GRB14,stop_gained,p.Ser226Ter,ENST00000446413,;GRB14,stop_gained,p.Ser271Ter,ENST00000263915,;GRB14,stop_gained,p.Ser184Ter,ENST00000543549,;GRB14,downstream_gene_variant,,ENST00000424693,;GRB14,non_coding_transcript_exon_variant,,ENST00000488342,;GRB14,non_coding_transcript_exon_variant,,ENST00000469573,;	C	ENSG00000115290	ENST00000263915	Transcript	stop_gained	1351	812	271	S/*	tCa/tGa	.	.	.	-1	GRB14	HGNC	4565	protein_coding	YES	CCDS2222.1	ENSP00000263915	GRB14_HUMAN	Q53QQ0_HUMAN,Q53QM9_HUMAN	UPI000013D489	.	.	.	6/14	.	PROSITE_profiles:PS50003,hmmpanther:PTHR11243,hmmpanther:PTHR11243:SF22,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTGATGTT	.	5	BLCA
XIRP2	0	.	GRCh37	2	168101230	168101230	+	Missense_Mutation	SNP	G	G	C	rs780738911	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3328G>C	p.Val1110Leu	p.V1110L	ENST00000409195	9/11	25	19	6	32	32	0	XIRP2,missense_variant,p.Val888Leu,ENST00000409273,;XIRP2,missense_variant,p.Val1110Leu,ENST00000409195,;XIRP2,missense_variant,p.Val1110Leu,ENST00000295237,;XIRP2,intron_variant,,ENST00000409605,;XIRP2,intron_variant,,ENST00000420519,;XIRP2,intron_variant,,ENST00000409756,;XIRP2,intron_variant,,ENST00000409043,;XIRP2,intron_variant,,ENST00000409728,;	C	ENSG00000163092	ENST00000409195	Transcript	missense_variant	3417	3328	1110	V/L	Gtt/Ctt	rs780738911	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	possibly_damaging(0.702)	9/11	.	hmmpanther:PTHR22591,hmmpanther:PTHR22591:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S1111L|c.3332C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAAGTTTCG	byFrequency	5	BLCA
WIPF1	0	.	GRCh37	2	175432604	175432604	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327G>C	p.Asp443His	p.D443H	ENST00000392547	6/8	49	41	8	75	75	0	WIPF1,missense_variant,p.Asp443His,ENST00000359761,;WIPF1,missense_variant,p.Asp443His,ENST00000392547,;WIPF1,missense_variant,p.Asp443His,ENST00000409891,;WIPF1,missense_variant,p.Asp443His,ENST00000272746,;WIPF1,missense_variant,p.Asp443His,ENST00000392546,;WIPF1,downstream_gene_variant,,ENST00000455428,;WIPF1,downstream_gene_variant,,ENST00000409415,;AC018890.6,intron_variant,,ENST00000412835,;AC018890.6,intron_variant,,ENST00000442996,;WIPF1,non_coding_transcript_exon_variant,,ENST00000467149,;	G	ENSG00000115935	ENST00000392547	Transcript	missense_variant	1427	1327	443	D/H	Gac/Cac	.	.	.	-1	WIPF1	HGNC	12736	protein_coding	YES	CCDS2260.1	ENSP00000376330	WIPF1_HUMAN	C9JTB9_HUMAN	UPI000013D4BD	.	deleterious(0)	possibly_damaging(0.557)	6/8	.	hmmpanther:PTHR23202,hmmpanther:PTHR23202:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCTTGGA	.	5	BLCA
TTN	0	.	GRCh37	2	179641333	179641333	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5258T>C	p.Met1753Thr	p.M1753T	ENST00000589042	28/363	57	40	17	69	69	0	TTN,missense_variant,p.Met1753Thr,ENST00000360870,;TTN,missense_variant,p.Met1707Thr,ENST00000359218,;TTN,missense_variant,p.Met1753Thr,ENST00000342992,;TTN,missense_variant,p.Met1707Thr,ENST00000342175,;TTN,missense_variant,p.Met1753Thr,ENST00000589042,;TTN,missense_variant,p.Met1753Thr,ENST00000591111,;TTN,missense_variant,p.Met1707Thr,ENST00000460472,;TTN-AS1,downstream_gene_variant,,ENST00000610005,;TTN-AS1,downstream_gene_variant,,ENST00000585451,;RP11-88L24.4,upstream_gene_variant,,ENST00000582038,;TTN-AS1,downstream_gene_variant,,ENST00000584485,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	5483	5258	1753	M/T	aTg/aCg	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	28/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATCATACGG	.	5	BLCA
NCKAP1	0	.	GRCh37	2	183800087	183800087	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2730G>C	p.Leu910Phe	p.L910F	ENST00000360982	26/32	58	44	14	55	55	0	NCKAP1,missense_variant,p.Leu910Phe,ENST00000360982,;NCKAP1,missense_variant,p.Leu904Phe,ENST00000361354,;NCKAP1,non_coding_transcript_exon_variant,,ENST00000471640,;NCKAP1,non_coding_transcript_exon_variant,,ENST00000478449,;NCKAP1,non_coding_transcript_exon_variant,,ENST00000492058,;	G	ENSG00000061676	ENST00000360982	Transcript	missense_variant	3489	2730	910	L/F	ttG/ttC	COSM3798412	.	.	-1	NCKAP1	HGNC	7666	protein_coding	YES	CCDS2288.1	ENSP00000354251	NCKP1_HUMAN	.	UPI00001693F2	.	deleterious(0)	possibly_damaging(0.749)	26/32	.	Pfam_domain:PF09735,hmmpanther:PTHR12093,hmmpanther:PTHR12093:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCAAGAC	.	5	BLCA
ITGAV	0	.	GRCh37	2	187533578	187533578	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2523C>G	p.Ile841Met	p.I841M	ENST00000261023	25/30	44	21	23	81	81	0	ITGAV,missense_variant,p.Ile841Met,ENST00000261023,;ITGAV,missense_variant,p.Ile795Met,ENST00000433736,;ITGAV,missense_variant,p.Ile805Met,ENST00000374907,;ITGAV,upstream_gene_variant,,ENST00000430709,;AC017101.10,intron_variant,,ENST00000453665,;ITGAV,non_coding_transcript_exon_variant,,ENST00000474571,;ITGAV,non_coding_transcript_exon_variant,,ENST00000496854,;ITGAV,non_coding_transcript_exon_variant,,ENST00000496477,;ITGAV,downstream_gene_variant,,ENST00000460641,;	G	ENSG00000138448	ENST00000261023	Transcript	missense_variant	2797	2523	841	I/M	atC/atG	.	.	.	1	ITGAV	HGNC	6150	protein_coding	YES	CCDS2292.1	ENSP00000261023	ITAV_HUMAN	L7RXH0_HUMAN	UPI000013D12E	.	deleterious(0.05)	probably_damaging(1)	25/30	.	hmmpanther:PTHR23220:SF4,hmmpanther:PTHR23220,Gene3D:1jv2A04,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATCCTTCA	.	5	BLCA
FZD7	0	.	GRCh37	2	202900796	202900796	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1426G>T	p.Val476Leu	p.V476L	ENST00000286201	1/1	44	19	25	54	54	0	FZD7,missense_variant,p.Val476Leu,ENST00000286201,;RP11-107N15.1,upstream_gene_variant,,ENST00000608741,;	T	ENSG00000155760	ENST00000286201	Transcript	missense_variant	1487	1426	476	V/L	Gtg/Ttg	.	.	.	1	FZD7	HGNC	4045	protein_coding	YES	CCDS2351.1	ENSP00000286201	FZD7_HUMAN	.	UPI0000051051	.	tolerated(0.08)	possibly_damaging(0.649)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR11309,hmmpanther:PTHR11309:SF31,Pfam_domain:PF01534,Prints_domain:PR00489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGCGTGCTC	.	5	BLCA
NBEAL1	0	.	GRCh37	2	204002917	204002917	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4511C>G	p.Ser1504Ter	p.S1504*	ENST00000449802	29/55	26	15	10	46	46	0	NBEAL1,stop_gained,p.Ser1504Ter,ENST00000449802,;	G	ENSG00000144426	ENST00000449802	Transcript	stop_gained	4844	4511	1504	S/*	tCa/tGa	.	.	.	1	NBEAL1	HGNC	20681	protein_coding	YES	CCDS46495.1	ENSP00000399903	NBEL1_HUMAN	.	UPI000194EC27	.	.	.	29/55	.	hmmpanther:PTHR13743:SF59,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCAGAAA	.	5	BLCA
NBEAL1	0	.	GRCh37	2	204003001	204003001	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4595C>T	p.Ser1532Leu	p.S1532L	ENST00000449802	29/55	38	23	14	70	70	0	NBEAL1,missense_variant,p.Ser1532Leu,ENST00000449802,;	T	ENSG00000144426	ENST00000449802	Transcript	missense_variant	4928	4595	1532	S/L	tCa/tTa	.	.	.	1	NBEAL1	HGNC	20681	protein_coding	YES	CCDS46495.1	ENSP00000399903	NBEL1_HUMAN	.	UPI000194EC27	.	deleterious(0.01)	benign(0.103)	29/55	.	hmmpanther:PTHR13743:SF59,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGTCAGAGG	.	5	BLCA
SPEG	0	.	GRCh37	2	220348616	220348616	+	Missense_Mutation	SNP	G	G	A	rs768837753	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6431G>A	p.Arg2144Gln	p.R2144Q	ENST00000312358	30/41	11	6	5	15	15	0	SPEG,missense_variant,p.Arg2144Gln,ENST00000312358,;AC053503.11,intron_variant,,ENST00000429882,;SPEG,non_coding_transcript_exon_variant,,ENST00000485813,;	A	ENSG00000072195	ENST00000312358	Transcript	missense_variant	6563	6431	2144	R/Q	cGa/cAa	rs768837753	.	.	1	SPEG	HGNC	16901	protein_coding	YES	CCDS42824.1	ENSP00000311684	SPEG_HUMAN	B9A038_HUMAN	UPI000066D99E	.	.	probably_damaging(0.998)	30/41	.	hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCGCCGAGCGG	byFrequency|byCluster	3	BLCA
OBSL1	0	.	GRCh37	2	220431681	220431681	+	Missense_Mutation	SNP	G	G	A	rs768202370	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2005C>T	p.Arg669Trp	p.R669W	ENST00000404537	5/21	24	17	7	35	35	0	OBSL1,missense_variant,p.Arg669Trp,ENST00000603926,;OBSL1,missense_variant,p.Arg256Trp,ENST00000289656,;OBSL1,missense_variant,p.Arg669Trp,ENST00000373876,;OBSL1,missense_variant,p.Arg669Trp,ENST00000265318,;OBSL1,missense_variant,p.Arg669Trp,ENST00000404537,;OBSL1,missense_variant,p.Arg669Trp,ENST00000373873,;OBSL1,upstream_gene_variant,,ENST00000604031,;INHA,upstream_gene_variant,,ENST00000489456,;OBSL1,downstream_gene_variant,,ENST00000465589,;OBSL1,downstream_gene_variant,,ENST00000491370,;OBSL1,non_coding_transcript_exon_variant,,ENST00000465149,;OBSL1,upstream_gene_variant,,ENST00000462385,;	A	ENSG00000124006	ENST00000404537	Transcript	missense_variant	2062	2005	669	R/W	Cgg/Tgg	rs768202370	.	.	-1	OBSL1	HGNC	29092	protein_coding	YES	CCDS46520.1	ENSP00000385636	OBSL1_HUMAN	.	UPI0000E07EA0	.	deleterious(0)	possibly_damaging(0.82)	5/21	.	hmmpanther:PTHR19900,hmmpanther:PTHR19900:SF1,Gene3D:2.60.40.10,SMART_domains:SM00409	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACCGCAGGG	.	5	BLCA
CAB39	0	.	GRCh37	2	231682512	231682512	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737T>C	p.Met246Thr	p.M246T	ENST00000258418	8/9	32	14	17	66	66	0	CAB39,missense_variant,p.Met246Thr,ENST00000409788,;CAB39,missense_variant,p.Met246Thr,ENST00000410084,;CAB39,missense_variant,p.Met246Thr,ENST00000258418,;CAB39,non_coding_transcript_exon_variant,,ENST00000493540,;	C	ENSG00000135932	ENST00000258418	Transcript	missense_variant	1166	737	246	M/T	aTg/aCg	.	.	.	1	CAB39	HGNC	20292	protein_coding	YES	CCDS2478.1	ENSP00000258418	CAB39_HUMAN	Q53RN7_HUMAN,A8K8L7_HUMAN	UPI000003622D	.	deleterious(0)	probably_damaging(0.992)	8/9	.	hmmpanther:PTHR10182,hmmpanther:PTHR10182:SF11,Pfam_domain:PF08569,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTATGACAA	.	5	BLCA
TRAF3IP1	0	.	GRCh37	2	239307435	239307435	+	Missense_Mutation	SNP	G	G	A	rs199665200	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1951G>A	p.Ala651Thr	p.A651T	ENST00000373327	17/17	35	19	16	69	69	0	TRAF3IP1,missense_variant,p.Ala651Thr,ENST00000373327,;TRAF3IP1,missense_variant,p.Ala651Thr,ENST00000391994,;TRAF3IP1,missense_variant,p.Ala585Thr,ENST00000391993,;TRAF3IP1,non_coding_transcript_exon_variant,,ENST00000483951,;TRAF3IP1,downstream_gene_variant,,ENST00000462122,;	A	ENSG00000204104	ENST00000373327	Transcript	missense_variant	2173	1951	651	A/T	Gcg/Acg	rs199665200	.	.	1	TRAF3IP1	HGNC	17861	protein_coding	YES	CCDS33415.1	ENSP00000362424	MIPT3_HUMAN	.	UPI0000070E5D	.	tolerated(0.08)	possibly_damaging(0.577)	17/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31363:SF0,hmmpanther:PTHR31363,Pfam_domain:PF10243	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTCGCGGAG	byCluster|by1000G	5	BLCA
TRAF3IP1	0	.	GRCh37	2	239307510	239307510	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2026G>C	p.Glu676Gln	p.E676Q	ENST00000373327	17/17	35	21	13	63	63	0	TRAF3IP1,missense_variant,p.Glu676Gln,ENST00000373327,;TRAF3IP1,missense_variant,p.Glu676Gln,ENST00000391994,;TRAF3IP1,missense_variant,p.Glu610Gln,ENST00000391993,;TRAF3IP1,non_coding_transcript_exon_variant,,ENST00000483951,;TRAF3IP1,downstream_gene_variant,,ENST00000462122,;	C	ENSG00000204104	ENST00000373327	Transcript	missense_variant	2248	2026	676	E/Q	Gaa/Caa	.	.	.	1	TRAF3IP1	HGNC	17861	protein_coding	YES	CCDS33415.1	ENSP00000362424	MIPT3_HUMAN	.	UPI0000070E5D	.	deleterious(0.01)	possibly_damaging(0.842)	17/17	.	hmmpanther:PTHR31363:SF0,hmmpanther:PTHR31363,Pfam_domain:PF10243	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAAGAAAAA	.	5	BLCA
SPDYA	0	.	GRCh37	2	29073346	29073346	+	3'UTR	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*539G>C	.	.	ENST00000334056	8/8	15	12	3	9	9	0	SPDYA,3_prime_UTR_variant,,ENST00000334056,;SPDYA,3_prime_UTR_variant,,ENST00000379579,;TRMT61B,intron_variant,,ENST00000306108,;TRMT61B,intron_variant,,ENST00000419999,;SPDYA,downstream_gene_variant,,ENST00000439646,;TRMT61B,downstream_gene_variant,,ENST00000484060,;SPDYA,downstream_gene_variant,,ENST00000491044,;TRMT61B,intron_variant,,ENST00000439947,;TRMT61B,downstream_gene_variant,,ENST00000490390,;	C	ENSG00000163806	ENST00000334056	Transcript	3_prime_UTR_variant	1670	.	.	.	.	.	.	.	1	SPDYA	HGNC	30613	protein_coding	YES	CCDS1767.2	ENSP00000335628	SPDYA_HUMAN	Q53R02_HUMAN,E7EPV1_HUMAN	UPI00002081C1	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATATGAGTTA	.	2	BLCA
CCDC88A	0	.	GRCh37	2	55523533	55523533	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4949G>C	p.Arg1650Thr	p.R1650T	ENST00000336838	30/33	52	44	7	51	51	0	CCDC88A,missense_variant,p.Arg1650Thr,ENST00000413716,;CCDC88A,missense_variant,p.Arg668Thr,ENST00000412148,;CCDC88A,missense_variant,p.Arg1651Thr,ENST00000436346,;CCDC88A,missense_variant,p.Arg154Thr,ENST00000444458,;CCDC88A,missense_variant,p.Arg604Thr,ENST00000456975,;CCDC88A,missense_variant,p.Arg152Thr,ENST00000422883,;CCDC88A,missense_variant,p.Arg1623Thr,ENST00000263630,;CCDC88A,missense_variant,p.Arg1650Thr,ENST00000336838,;CCDC88A,missense_variant,p.Arg826Thr,ENST00000426576,;	G	ENSG00000115355	ENST00000336838	Transcript	missense_variant	5483	4949	1650	R/T	aGa/aCa	.	.	.	-1	CCDC88A	HGNC	25523	protein_coding	YES	CCDS46288.1	ENSP00000338728	GRDN_HUMAN	C9J225_HUMAN,B4DSN0_HUMAN	UPI00005B7220	.	tolerated(0.1)	benign(0.06)	30/33	.	hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATCTGGTC	.	5	BLCA
ETAA1	0	.	GRCh37	2	67637075	67637075	+	Missense_Mutation	SNP	G	G	A	rs541916274	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2686G>A	p.Glu896Lys	p.E896K	ENST00000272342	6/6	79	45	34	114	114	0	ETAA1,missense_variant,p.Glu896Lys,ENST00000272342,;ETAA1,downstream_gene_variant,,ENST00000462772,;	A	ENSG00000143971	ENST00000272342	Transcript	missense_variant	2816	2686	896	E/K	Gaa/Aaa	rs541916274	.	.	1	ETAA1	HGNC	24648	protein_coding	YES	CCDS1882.1	ENSP00000272342	ETAA1_HUMAN	.	UPI00001414BC	.	deleterious(0.01)	probably_damaging(0.968)	6/6	.	hmmpanther:PTHR16434:SF1,hmmpanther:PTHR16434,Pfam_domain:PF15350	C:0.0006	C:0	C:0	.	C:0	C:0	C:0.0031	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTGAAGAA	byFrequency|by1000G	5	BLCA
AUP1	0	.	GRCh37	2	74753938	74753938	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1222G>C	p.Glu408Gln	p.E408Q	ENST00000377526	12/12	47	30	16	79	79	0	AUP1,missense_variant,p.Glu408Gln,ENST00000377526,;HTRA2,upstream_gene_variant,,ENST00000352222,;HTRA2,upstream_gene_variant,,ENST00000258080,;DQX1,upstream_gene_variant,,ENST00000404568,;DQX1,upstream_gene_variant,,ENST00000393951,;HTRA2,upstream_gene_variant,,ENST00000437202,;DQX1,upstream_gene_variant,,ENST00000451518,;DQX1,upstream_gene_variant,,ENST00000498552,;HTRA2,upstream_gene_variant,,ENST00000462909,;HTRA2,upstream_gene_variant,,ENST00000484881,;HTRA2,upstream_gene_variant,,ENST00000467961,;DQX1,upstream_gene_variant,,ENST00000495597,;AUP1,3_prime_UTR_variant,,ENST00000425118,;AUP1,non_coding_transcript_exon_variant,,ENST00000463900,;AUP1,non_coding_transcript_exon_variant,,ENST00000486234,;AUP1,non_coding_transcript_exon_variant,,ENST00000466894,;HTRA2,upstream_gene_variant,,ENST00000484352,;HTRA2,upstream_gene_variant,,ENST00000465521,;DQX1,upstream_gene_variant,,ENST00000483555,;DQX1,upstream_gene_variant,,ENST00000473508,;AUP1,downstream_gene_variant,,ENST00000462297,;HTRA2,upstream_gene_variant,,ENST00000482205,;DQX1,upstream_gene_variant,,ENST00000418139,;HTRA2,upstream_gene_variant,,ENST00000482331,;AUP1,downstream_gene_variant,,ENST00000464887,;AUP1,downstream_gene_variant,,ENST00000472800,;	G	ENSG00000115307	ENST00000377526	Transcript	missense_variant	1532	1222	408	E/Q	Gag/Cag	.	.	.	-1	AUP1	HGNC	891	protein_coding	YES	CCDS42702.1	ENSP00000366748	AUP1_HUMAN	.	UPI000000163A	.	tolerated_low_confidence(0.06)	benign(0.323)	12/12	.	hmmpanther:PTHR15486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCCTGGG	.	5	BLCA
EVA1A	0	.	GRCh37	2	75720316	75720316	+	3'UTR	SNP	C	C	G	rs762794728	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46G>C	.	.	ENST00000233712	4/4	91	61	30	168	168	0	EVA1A,3_prime_UTR_variant,,ENST00000410113,;EVA1A,3_prime_UTR_variant,,ENST00000233712,;EVA1A,3_prime_UTR_variant,,ENST00000393913,;EVA1A,3_prime_UTR_variant,,ENST00000410071,;EVA1A,3_prime_UTR_variant,,ENST00000410010,;EVA1A,downstream_gene_variant,,ENST00000452003,;EVA1A,downstream_gene_variant,,ENST00000432649,;snoU109,downstream_gene_variant,,ENST00000459339,;EVA1A,intron_variant,,ENST00000485891,;EVA1A,intron_variant,,ENST00000490746,;	G	ENSG00000115363	ENST00000233712	Transcript	3_prime_UTR_variant	943	.	.	.	.	rs762794728	.	.	-1	EVA1A	HGNC	25816	protein_coding	YES	CCDS1959.1	ENSP00000233712	EVA1A_HUMAN	C9JX09_HUMAN,C9J5M4_HUMAN	UPI0000071E24	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGCTCTCCTT	.	5	BLCA
FANCD2	0	.	GRCh37	3	10083234	10083234	+	Intron	SNP	T	T	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696-73T>G	.	.	ENST00000287647	.	30	16	13	18	18	0	FANCD2,3_prime_UTR_variant,,ENST00000431693,;FANCD2,intron_variant,,ENST00000383807,;FANCD2,intron_variant,,ENST00000287647,;FANCD2,intron_variant,,ENST00000419585,;FANCD2,intron_variant,,ENST00000383806,;RNU6-670P,downstream_gene_variant,,ENST00000364312,;FANCD2,upstream_gene_variant,,ENST00000483276,;FANCD2,downstream_gene_variant,,ENST00000438741,;FANCD2,upstream_gene_variant,,ENST00000464934,;	G	ENSG00000144554	ENST00000287647	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	FANCD2	HGNC	3585	protein_coding	YES	CCDS2595.1	ENSP00000287647	FACD2_HUMAN	.	UPI000006F678	.	.	.	.	9/42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AATGATTTTCT	.	4	BLCA
NFKBIZ	0	.	GRCh37	3	101573954	101573954	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1492G>T	p.Asp498Tyr	p.D498Y	ENST00000326172	7/12	48	38	10	50	50	0	NFKBIZ,missense_variant,p.Asp376Tyr,ENST00000326151,;NFKBIZ,missense_variant,p.Asp398Tyr,ENST00000394054,;NFKBIZ,missense_variant,p.Asp498Tyr,ENST00000326172,;NFKBIZ,missense_variant,p.Asp398Tyr,ENST00000483180,;NFKBIZ,downstream_gene_variant,,ENST00000491281,;NFKBIZ,upstream_gene_variant,,ENST00000477601,;NFKBIZ,downstream_gene_variant,,ENST00000461724,;NFKBIZ,non_coding_transcript_exon_variant,,ENST00000465476,;NFKBIZ,upstream_gene_variant,,ENST00000495719,;NFKBIZ,downstream_gene_variant,,ENST00000486444,;NFKBIZ,upstream_gene_variant,,ENST00000495089,;	T	ENSG00000144802	ENST00000326172	Transcript	missense_variant	1607	1492	498	D/Y	Gat/Tat	.	.	.	1	NFKBIZ	HGNC	29805	protein_coding	YES	CCDS2946.1	ENSP00000325663	IKBZ_HUMAN	C9JZ23_HUMAN,C9J5I7_HUMAN,C9J5G8_HUMAN	UPI000006FBB1	.	deleterious(0.02)	possibly_damaging(0.791)	7/12	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24124,hmmpanther:PTHR24124:SF5,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGATCTG	.	5	BLCA
SLC6A1	0	.	GRCh37	3	11068043	11068043	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1076C>G	p.Ser359Ter	p.S359*	ENST00000287766	10/16	36	33	3	64	64	0	SLC6A1,stop_gained,p.Ser181Ter,ENST00000536032,;SLC6A1,stop_gained,p.Ser359Ter,ENST00000287766,;SLC6A1,downstream_gene_variant,,ENST00000460480,;	G	ENSG00000157103	ENST00000287766	Transcript	stop_gained	1497	1076	359	S/*	tCa/tGa	.	.	.	1	SLC6A1	HGNC	11042	protein_coding	YES	CCDS2603.1	ENSP00000287766	SC6A1_HUMAN	C9J5P8_HUMAN,B7Z3C5_HUMAN	UPI000013DECF	.	.	.	10/16	.	PROSITE_profiles:PS50267,hmmpanther:PTHR11616:SF138,hmmpanther:PTHR11616,Pfam_domain:PF00209,Superfamily_domains:0053687	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCAGGTC	.	2	BLCA
POGLUT1	0	.	GRCh37	3	119205696	119205696	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>C	p.Asp219His	p.D219H	ENST00000295588	7/11	125	91	34	163	163	0	POGLUT1,missense_variant,p.Asp219His,ENST00000295588,;POGLUT1,downstream_gene_variant,,ENST00000476573,;POGLUT1,3_prime_UTR_variant,,ENST00000486607,;POGLUT1,3_prime_UTR_variant,,ENST00000497447,;POGLUT1,upstream_gene_variant,,ENST00000473648,;	C	ENSG00000163389	ENST00000295588	Transcript	missense_variant	739	655	219	D/H	Gat/Cat	.	.	.	1	POGLUT1	HGNC	22954	protein_coding	YES	CCDS2988.1	ENSP00000295588	PGLT1_HUMAN	B4DJ97_HUMAN	UPI000003B0C3	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR12203,Pfam_domain:PF05686,SMART_domains:SM00672	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACGAGATCCT	.	5	BLCA
SI	0	.	GRCh37	3	164733747	164733747	+	Missense_Mutation	SNP	A	A	G	rs752481222	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3881T>C	p.Ile1294Thr	p.I1294T	ENST00000264382	32/48	111	69	42	115	115	0	SI,missense_variant,p.Ile1294Thr,ENST00000264382,;	G	ENSG00000090402	ENST00000264382	Transcript	missense_variant	3944	3881	1294	I/T	aTt/aCt	rs752481222	.	.	-1	SI	HGNC	10856	protein_coding	YES	CCDS3196.1	ENSP00000264382	SUIS_HUMAN	.	UPI000022C287	.	tolerated(0.07)	possibly_damaging(0.904)	32/48	.	Superfamily_domains:SSF51445,Pfam_domain:PF01055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATAATAATG	byFrequency|byCluster	5	BLCA
SI	0	.	GRCh37	3	164751199	164751199	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2549C>T	p.Thr850Ile	p.T850I	ENST00000264382	23/48	16	12	3	8	8	0	SI,missense_variant,p.Thr850Ile,ENST00000264382,;	A	ENSG00000090402	ENST00000264382	Transcript	missense_variant	2612	2549	850	T/I	aCa/aTa	.	.	.	-1	SI	HGNC	10856	protein_coding	YES	CCDS3196.1	ENSP00000264382	SUIS_HUMAN	.	UPI000022C287	.	tolerated(0.16)	benign(0.054)	23/48	.	hmmpanther:PTHR22762,hmmpanther:PTHR22762:SF66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAATGTATAT	.	3	BLCA
FNDC3B	0	.	GRCh37	3	172048497	172048497	+	Missense_Mutation	SNP	G	G	A	rs779364384	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1546G>A	p.Asp516Asn	p.D516N	ENST00000336824	13/26	36	14	22	32	32	0	FNDC3B,missense_variant,p.Asp516Asn,ENST00000416957,;FNDC3B,missense_variant,p.Asp516Asn,ENST00000415807,;FNDC3B,missense_variant,p.Asp516Asn,ENST00000336824,;FNDC3B,non_coding_transcript_exon_variant,,ENST00000494000,;FNDC3B,non_coding_transcript_exon_variant,,ENST00000469491,;	A	ENSG00000075420	ENST00000336824	Transcript	missense_variant	1645	1546	516	D/N	Gat/Aat	rs779364384	.	.	1	FNDC3B	HGNC	24670	protein_coding	YES	CCDS3217.1	ENSP00000338523	FND3B_HUMAN	.	UPI00001AE8B2	.	deleterious(0.01)	benign(0.045)	13/26	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900,hmmpanther:PTHR19900:SF54,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAGGATGAA	.	2	BLCA
GNB4	0	.	GRCh37	3	179137286	179137286	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.104C>G	p.Ser35Ter	p.S35*	ENST00000232564	4/10	104	67	37	131	131	0	GNB4,stop_gained,p.Ser35Ter,ENST00000232564,;GNB4,stop_gained,p.Ser35Ter,ENST00000497513,;GNB4,stop_gained,p.Ser35Ter,ENST00000468623,;GNB4,upstream_gene_variant,,ENST00000466899,;	C	ENSG00000114450	ENST00000232564	Transcript	stop_gained	391	104	35	S/*	tCa/tGa	.	.	.	-1	GNB4	HGNC	20731	protein_coding	YES	CCDS3230.1	ENSP00000232564	GBB4_HUMAN	C9JD14_HUMAN,B4DLV5_HUMAN	UPI000012B21A	.	.	.	4/10	.	hmmpanther:PTHR19850:SF28,hmmpanther:PTHR19850,PIRSF_domain:PIRSF002394,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTGATGTA	.	5	BLCA
EIF2B5	0	.	GRCh37	3	183854514	183854514	+	Nonsense_Mutation	SNP	G	G	T	rs775719092	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310G>T	p.Glu104Ter	p.E104*	ENST00000273783	2/16	146	121	25	182	182	0	EIF2B5,stop_gained,p.Glu104Ter,ENST00000273783,;EIF2B5,stop_gained,p.Glu104Ter,ENST00000432569,;EIF2B5,stop_gained,p.Glu104Ter,ENST00000444495,;RP11-778D9.13,upstream_gene_variant,,ENST00000609288,;RP11-778D9.12,upstream_gene_variant,,ENST00000608232,;RP11-778D9.12,upstream_gene_variant,,ENST00000608135,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000498831,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000471832,;EIF2B5,upstream_gene_variant,,ENST00000492773,;EIF2B5,upstream_gene_variant,,ENST00000479833,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000481054,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000491144,;EIF2B5,intron_variant,,ENST00000432982,;EIF2B5,upstream_gene_variant,,ENST00000491008,;EIF2B5,upstream_gene_variant,,ENST00000493740,;EIF2B5,upstream_gene_variant,,ENST00000468748,;	T	ENSG00000145191	ENST00000273783	Transcript	stop_gained	432	310	104	E/*	Gaa/Taa	rs775719092	.	.	1	EIF2B5	HGNC	3261	protein_coding	YES	CCDS3252.1	ENSP00000273783	EI2BE_HUMAN	C9JRD9_HUMAN	UPI000013D9CF	.	.	.	2/16	.	hmmpanther:PTHR22572,hmmpanther:PTHR22572:SF7,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAAGAACAT	.	5	BLCA
TRA2B	0	.	GRCh37	3	185636158	185636158	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.851C>T	p.Ser284Leu	p.S284L	ENST00000453386	8/9	59	46	13	84	84	0	TRA2B,missense_variant,p.Ser123Leu,ENST00000259043,;TRA2B,missense_variant,p.Ser284Leu,ENST00000453386,;TRA2B,missense_variant,p.Ser103Leu,ENST00000414862,;TRA2B,missense_variant,p.Ser184Leu,ENST00000382191,;TRA2B,downstream_gene_variant,,ENST00000465245,;TRA2B,3_prime_UTR_variant,,ENST00000456380,;TRA2B,non_coding_transcript_exon_variant,,ENST00000463328,;TRA2B,non_coding_transcript_exon_variant,,ENST00000487615,;TRA2B,non_coding_transcript_exon_variant,,ENST00000492417,;TRA2B,non_coding_transcript_exon_variant,,ENST00000466832,;	A	ENSG00000136527	ENST00000453386	Transcript	missense_variant	1127	851	284	S/L	tCa/tTa	COSM420095	.	.	-1	TRA2B	HGNC	10781	protein_coding	YES	CCDS33905.1	ENSP00000416959	TRA2B_HUMAN	.	UPI00000040A0	.	deleterious_low_confidence(0.01)	benign(0.184)	8/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15241:SF1,hmmpanther:PTHR15241	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTGAGTAT	.	5	BLCA
GLB1	0	.	GRCh37	3	33038487	33038487	+	3'UTR	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*50G>C	.	.	ENST00000307363	16/16	46	27	18	67	67	0	GLB1,3_prime_UTR_variant,,ENST00000307377,;GLB1,3_prime_UTR_variant,,ENST00000399402,;GLB1,3_prime_UTR_variant,,ENST00000445488,;GLB1,3_prime_UTR_variant,,ENST00000307363,;	G	ENSG00000170266	ENST00000307363	Transcript	3_prime_UTR_variant	2229	.	.	.	.	.	.	.	-1	GLB1	HGNC	4298	protein_coding	YES	CCDS43061.1	ENSP00000306920	BGAL_HUMAN	C9JF15_HUMAN,C9J539_HUMAN	UPI0000E5A543	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATCTGTGA	.	5	BLCA
ZNF502	0	.	GRCh37	3	44762679	44762679	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370G>C	p.Glu124Gln	p.E124Q	ENST00000296091	4/4	41	21	20	54	54	0	ZNF502,missense_variant,p.Glu124Gln,ENST00000449836,;ZNF502,missense_variant,p.Glu124Gln,ENST00000411443,;ZNF502,missense_variant,p.Glu124Gln,ENST00000436624,;ZNF502,missense_variant,p.Glu124Gln,ENST00000296091,;	C	ENSG00000196653	ENST00000296091	Transcript	missense_variant	626	370	124	E/Q	Gag/Cag	.	.	.	1	ZNF502	HGNC	23718	protein_coding	YES	CCDS2719.1	ENSP00000296091	ZN502_HUMAN	C9JLT3_HUMAN	UPI0000072CFB	.	tolerated(0.11)	benign(0.08)	4/4	.	hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGAGAGT	.	5	BLCA
ACOX2	0	.	GRCh37	3	58494664	58494664	+	Missense_Mutation	SNP	C	C	T	rs199808000	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1939G>A	p.Glu647Lys	p.E647K	ENST00000302819	14/15	30	15	14	63	63	0	ACOX2,missense_variant,p.Glu633Lys,ENST00000459701,;ACOX2,missense_variant,p.Glu647Lys,ENST00000302819,;ACOX2,non_coding_transcript_exon_variant,,ENST00000481527,;ACOX2,3_prime_UTR_variant,,ENST00000460921,;ACOX2,non_coding_transcript_exon_variant,,ENST00000467738,;RP11-359I18.1,upstream_gene_variant,,ENST00000412199,;	T	ENSG00000168306	ENST00000302819	Transcript	missense_variant	2231	1939	647	E/K	Gaa/Aaa	rs199808000	.	.	-1	ACOX2	HGNC	120	protein_coding	YES	CCDS33775.1	ENSP00000307697	ACOX2_HUMAN	C9JY29_HUMAN,B4DPM1_HUMAN	UPI000000DC36	.	deleterious(0.01)	possibly_damaging(0.804)	14/15	.	Pfam_domain:PF01756,PIRSF_domain:PIRSF000168,Superfamily_domains:SSF47203	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTTCGTAGA	byCluster|by1000G	5	BLCA
FGF2	0	.	GRCh37	4	123813437	123813437	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753G>A	p.%3D	p.R251R	ENST00000264498	3/3	51	28	23	85	85	0	FGF2,synonymous_variant,p.%3D,ENST00000608478,;FGF2,synonymous_variant,p.%3D,ENST00000264498,;NUDT6,downstream_gene_variant,,ENST00000304430,;NUDT6,downstream_gene_variant,,ENST00000510735,;NUDT6,downstream_gene_variant,,ENST00000502270,;NUDT6,downstream_gene_variant,,ENST00000339154,;NUDT6,intron_variant,,ENST00000608639,;NUDT6,downstream_gene_variant,,ENST00000503370,;NUDT6,downstream_gene_variant,,ENST00000512116,;	A	ENSG00000138685	ENST00000264498	Transcript	synonymous_variant	821	753	251	R	agG/agA	.	.	.	1	FGF2	HGNC	3676	protein_coding	YES	CCDS34059.1	ENSP00000264498	FGF2_HUMAN	D9ZGF5_HUMAN	UPI0000367289	.	.	.	3/3	.	hmmpanther:PTHR11486,hmmpanther:PTHR11486:SF68,Pfam_domain:PF00167,Gene3D:2.80.10.50,SMART_domains:SM00442,Superfamily_domains:SSF50353,Prints_domain:PR00262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAGGAAATA	.	5	BLCA
ZNF827	0	.	GRCh37	4	146806995	146806995	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1582G>A	p.Glu528Lys	p.E528K	ENST00000379448	4/15	39	25	14	61	61	0	ZNF827,missense_variant,p.Glu528Lys,ENST00000508784,;ZNF827,missense_variant,p.Glu528Lys,ENST00000379448,;ZNF827,missense_variant,p.Glu178Lys,ENST00000513320,;ZNF827,intron_variant,,ENST00000508995,;ZNF827,upstream_gene_variant,,ENST00000513840,;	T	ENSG00000151612	ENST00000379448	Transcript	missense_variant	1646	1582	528	E/K	Gaa/Aaa	.	.	.	-1	ZNF827	HGNC	27193	protein_coding	YES	CCDS34072.1	ENSP00000368761	ZN827_HUMAN	.	UPI000049DFF1	.	tolerated(0.13)	benign(0.093)	4/15	.	hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCCTTGG	.	5	BLCA
DCHS2	0	.	GRCh37	4	155312447	155312447	+	Translation_Start_Site	SNP	C	C	T	rs772712313	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000357232	1/25	10	5	5	14	14	0	DCHS2,start_lost,p.Met1?,ENST00000357232,;DCHS2,intron_variant,,ENST00000339452,;	T	ENSG00000197410	ENST00000357232	Transcript	start_lost	3	3	1	M/I	atG/atA	rs772712313	.	.	-1	DCHS2	HGNC	23111	protein_coding	YES	CCDS3785.1	ENSP00000349768	PCD23_HUMAN	B3KT73_HUMAN	UPI000035B018	.	deleterious_low_confidence(0)	benign(0.001)	1/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGTCTCATGAT	.	3	BLCA
AADAT	0	.	GRCh37	4	171009579	171009579	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204G>A	p.Met68Ile	p.M68I	ENST00000337664	2/13	47	24	23	81	81	0	AADAT,missense_variant,p.Met68Ile,ENST00000502392,;AADAT,missense_variant,p.Met68Ile,ENST00000353187,;AADAT,missense_variant,p.Met68Ile,ENST00000507375,;AADAT,missense_variant,p.Met68Ile,ENST00000337664,;AADAT,missense_variant,p.Met59Ile,ENST00000510340,;AADAT,missense_variant,p.Met72Ile,ENST00000509167,;AADAT,missense_variant,p.Met68Ile,ENST00000515480,;AADAT,non_coding_transcript_exon_variant,,ENST00000505906,;	T	ENSG00000109576	ENST00000337664	Transcript	missense_variant	481	204	68	M/I	atG/atA	.	.	.	-1	AADAT	HGNC	17929	protein_coding	YES	CCDS3814.1	ENSP00000336808	AADAT_HUMAN	Q4W5N8_HUMAN,D6RFY7_HUMAN,D6RC56_HUMAN	UPI00000711E6	.	tolerated(0.07)	benign(0.137)	2/13	.	hmmpanther:PTHR11751:SF294,hmmpanther:PTHR11751,Pfam_domain:PF00155,Gene3D:3.40.640.10,Superfamily_domains:SSF53383	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCATCAT	.	5	BLCA
NEIL3	0	.	GRCh37	4	178243642	178243642	+	Silent	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>A	p.%3D	p.Q62Q	ENST00000264596	2/10	52	21	30	91	91	0	NEIL3,synonymous_variant,p.%3D,ENST00000264596,;NEIL3,intron_variant,,ENST00000513321,;	A	ENSG00000109674	ENST00000264596	Transcript	synonymous_variant	304	186	62	Q	caG/caA	.	.	.	1	NEIL3	HGNC	24573	protein_coding	YES	CCDS3828.1	ENSP00000264596	NEIL3_HUMAN	.	UPI000013D53D	.	.	.	2/10	.	PROSITE_profiles:PS51068,hmmpanther:PTHR22993,hmmpanther:PTHR22993:SF10,Superfamily_domains:SSF81624	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCAGAATGT	.	5	BLCA
MAN2B2	0	.	GRCh37	4	6621769	6621769	+	Missense_Mutation	SNP	G	G	C	rs754524549	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2930G>C	p.Arg977Thr	p.R977T	ENST00000285599	18/19	8	5	3	15	15	0	MAN2B2,missense_variant,p.Arg926Thr,ENST00000504248,;MAN2B2,missense_variant,p.Arg977Thr,ENST00000285599,;MAN2B2,3_prime_UTR_variant,,ENST00000505907,;MAN2B2,downstream_gene_variant,,ENST00000510427,;	C	ENSG00000013288	ENST00000285599	Transcript	missense_variant	2966	2930	977	R/T	aGa/aCa	rs754524549,COSM1743739	.	.	1	MAN2B2	HGNC	29623	protein_coding	YES	CCDS33951.1	ENSP00000285599	MA2B2_HUMAN	Q05BN7_HUMAN,B3KQN1_HUMAN	UPI000004BF05	.	tolerated(0.31)	benign(0.064)	18/19	.	hmmpanther:PTHR11607:SF5,hmmpanther:PTHR11607,Pfam_domain:PF07748,Gene3D:2.60.40.1360,Superfamily_domains:SSF74650	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACAGAGGTT	byFrequency	2	BLCA
TMPRSS11B	0	.	GRCh37	4	69101912	69101912	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.197C>T	p.Ala66Val	p.A66V	ENST00000332644	3/10	20	13	7	45	45	0	TMPRSS11B,missense_variant,p.Ala66Val,ENST00000332644,;TMPRSS11B,non_coding_transcript_exon_variant,,ENST00000502365,;	A	ENSG00000185873	ENST00000332644	Transcript	missense_variant	359	197	66	A/V	gCt/gTt	COSM380184	.	.	-1	TMPRSS11B	HGNC	25398	protein_coding	YES	CCDS3521.1	ENSP00000330475	TM11B_HUMAN	.	UPI000013E249	.	tolerated(0.47)	benign(0.004)	3/10	.	PROSITE_profiles:PS50024,hmmpanther:PTHR24256,hmmpanther:PTHR24256:SF90,Gene3D:1ivzA00,Pfam_domain:PF01390,PIRSF_domain:PIRSF037941,Superfamily_domains:0047452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGAAGCTGCG	.	5	BLCA
HNRNPA0	0	.	GRCh37	5	137089588	137089588	+	Silent	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168C>G	p.%3D	p.S56S	ENST00000314940	1/1	31	22	8	52	52	0	HNRNPA0,synonymous_variant,p.%3D,ENST00000314940,;	C	ENSG00000177733	ENST00000314940	Transcript	synonymous_variant	452	168	56	S	tcC/tcG	.	.	.	-1	HNRNPA0	HGNC	5030	protein_coding	YES	CCDS4193.1	ENSP00000316042	ROA0_HUMAN	.	UPI0000000C1D	.	.	.	1/1	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,Pfam_domain:PF14259,hmmpanther:PTHR24012,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTGGAGTA	.	5	BLCA
PCDHA2	0	.	GRCh37	5	140176525	140176525	+	Missense_Mutation	SNP	T	T	G	rs781820194	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1976T>G	p.Leu659Trp	p.L659W	ENST00000526136	1/4	59	54	5	76	76	0	PCDHA2,missense_variant,p.Leu659Trp,ENST00000378132,;PCDHA2,missense_variant,p.Leu659Trp,ENST00000526136,;PCDHA2,missense_variant,p.Leu659Trp,ENST00000520672,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,upstream_gene_variant,,ENST00000532566,;PCDHA3,upstream_gene_variant,,ENST00000522353,;	G	ENSG00000204969	ENST00000526136	Transcript	missense_variant	1976	1976	659	L/W	tTg/tGg	rs781820194	.	.	1	PCDHA2	HGNC	8668	protein_coding	YES	CCDS54914.1	ENSP00000431748	PCDA2_HUMAN	.	UPI00001273C9	.	deleterious_low_confidence(0)	probably_damaging(0.998)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF60,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCGTTGACAG	.	2	BLCA
PCDHB16	0	.	GRCh37	5	140562889	140562889	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.755C>T	p.Pro252Leu	p.P252L	ENST00000361016	1/1	58	35	23	82	82	0	PCDHB16,missense_variant,p.Pro252Leu,ENST00000361016,;PCDHB8,downstream_gene_variant,,ENST00000239444,;PCDHB9,upstream_gene_variant,,ENST00000316105,;	T	ENSG00000196963	ENST00000361016	Transcript	missense_variant	1910	755	252	P/L	cCa/cTa	.	.	.	1	PCDHB16	HGNC	14546	protein_coding	YES	CCDS4251.1	ENSP00000354293	PCDBG_HUMAN	.	UPI000006D372	.	tolerated_low_confidence(0.25)	benign(0.33)	1/1	.	Prints_domain:PR00205,Superfamily_domains:SSF49313,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF71,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTCCAGAGA	.	5	BLCA
TRIO	0	.	GRCh37	5	14502747	14502747	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8392G>A	p.Glu2798Lys	p.E2798K	ENST00000344204	54/57	49	36	13	59	59	0	TRIO,missense_variant,p.Glu2622Lys,ENST00000537187,;TRIO,missense_variant,p.Glu2798Lys,ENST00000344204,;TRIO,missense_variant,p.Glu297Lys,ENST00000344135,;TRIO,missense_variant,p.Glu2531Lys,ENST00000513206,;TRIO,3_prime_UTR_variant,,ENST00000512070,;TRIO,non_coding_transcript_exon_variant,,ENST00000508283,;TRIO,non_coding_transcript_exon_variant,,ENST00000508717,;TRIO,downstream_gene_variant,,ENST00000508343,;	A	ENSG00000038382	ENST00000344204	Transcript	missense_variant	8416	8392	2798	E/K	Gaa/Aaa	.	.	.	1	TRIO	HGNC	12303	protein_coding	YES	CCDS3883.1	ENSP00000339299	TRIO_HUMAN	.	UPI000034ECE6	.	.	unknown(0)	54/57	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:3.30.200.20,Pfam_domain:PF00069,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTGAAGTG	.	5	BLCA
FAM71B	0	.	GRCh37	5	156589852	156589852	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1424A>G	p.Asn475Ser	p.N475S	ENST00000302938	2/2	73	44	28	110	110	0	FAM71B,missense_variant,p.Asn475Ser,ENST00000302938,;ITK,intron_variant,,ENST00000521769,;MED7,upstream_gene_variant,,ENST00000524289,;	C	ENSG00000170613	ENST00000302938	Transcript	missense_variant	1520	1424	475	N/S	aAc/aGc	COSM3410054	.	.	-1	FAM71B	HGNC	28397	protein_coding	YES	CCDS4335.1	ENSP00000305596	FA71B_HUMAN	.	UPI000006F9DC	.	tolerated(0.75)	benign(0.009)	2/2	.	hmmpanther:PTHR22574:SF2,hmmpanther:PTHR22574	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGTGTTTTTA	.	5	BLCA
CTD-2139B15.2	0	.	GRCh37	5	17354060	17354060	+	RNA	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.42C>G	.	.	ENST00000511821	1/2	39	25	13	34	34	0	CTD-2139B15.2,non_coding_transcript_exon_variant,,ENST00000511821,;FTH1P10,non_coding_transcript_exon_variant,,ENST00000401830,;FTH1P10,non_coding_transcript_exon_variant,,ENST00000430907,;	G	ENSG00000248223	ENST00000511821	Transcript	non_coding_transcript_exon_variant	42	.	.	.	.	.	.	.	1	CTD-2139B15.2	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCTTGCA	.	5	BLCA
NIPBL	0	.	GRCh37	5	37008185	37008185	+	Missense_Mutation	SNP	A	A	C	rs756050354	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4315A>C	p.Thr1439Pro	p.T1439P	ENST00000282516	19/47	24	19	5	21	21	0	NIPBL,missense_variant,p.Thr1439Pro,ENST00000448238,;NIPBL,missense_variant,p.Thr1439Pro,ENST00000282516,;	C	ENSG00000164190	ENST00000282516	Transcript	missense_variant	4814	4315	1439	T/P	Act/Cct	rs756050354	.	.	1	NIPBL	HGNC	28862	protein_coding	YES	CCDS3920.1	ENSP00000282516	NIPBL_HUMAN	A2RRA7_HUMAN	UPI00003761B5	.	deleterious(0)	probably_damaging(0.997)	19/47	.	hmmpanther:PTHR21704,hmmpanther:PTHR21704:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TAGTCACTGCA	.	2	BLCA
CD180	0	.	GRCh37	5	66479990	66479990	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681G>A	p.%3D	p.L227L	ENST00000256447	3/3	56	34	22	77	77	0	CD180,synonymous_variant,p.%3D,ENST00000256447,;CTD-2306M10.1,upstream_gene_variant,,ENST00000602471,;CD180,downstream_gene_variant,,ENST00000515027,;	T	ENSG00000134061	ENST00000256447	Transcript	synonymous_variant	839	681	227	L	ttG/ttA	.	.	.	-1	CD180	HGNC	6726	protein_coding	YES	CCDS3992.1	ENSP00000256447	CD180_HUMAN	.	UPI000013CF0C	.	.	.	3/3	.	hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF231,Gene3D:3.80.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCAAACT	.	5	BLCA
HIVEP2	0	.	GRCh37	6	143091303	143091303	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4573G>C	p.Asp1525His	p.D1525H	ENST00000367603	5/10	41	34	7	49	49	0	HIVEP2,missense_variant,p.Asp1525His,ENST00000367603,;HIVEP2,missense_variant,p.Asp1525His,ENST00000012134,;HIVEP2,missense_variant,p.Asp1525His,ENST00000367604,;	G	ENSG00000010818	ENST00000367603	Transcript	missense_variant	5316	4573	1525	D/H	Gac/Cac	.	.	.	-1	HIVEP2	HGNC	4921	protein_coding	YES	CCDS43510.1	ENSP00000356575	ZEP2_HUMAN	B4DKE9_HUMAN	UPI00004708DD	.	tolerated(0.56)	probably_damaging(0.999)	5/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGTCTTGAG	.	5	BLCA
UTRN	0	.	GRCh37	6	144860503	144860503	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6443C>T	p.Ser2148Leu	p.S2148L	ENST00000367545	44/74	45	29	15	46	46	0	UTRN,missense_variant,p.Ser2148Leu,ENST00000367545,;	T	ENSG00000152818	ENST00000367545	Transcript	missense_variant	6443	6443	2148	S/L	tCa/tTa	.	.	.	1	UTRN	HGNC	12635	protein_coding	YES	CCDS34547.1	ENSP00000356515	UTRO_HUMAN	Q6LBS5_HUMAN,Q5SYY2_HUMAN,Q5JT45_HUMAN	UPI00003673F1	.	tolerated(0.34)	benign(0.007)	44/74	.	hmmpanther:PTHR11915:SF225,hmmpanther:PTHR11915,Gene3D:1.20.58.60,SMART_domains:SM00150,PIRSF_domain:PIRSF002341,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCAGATA	.	5	BLCA
IGF2R	0	.	GRCh37	6	160430152	160430152	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.400T>C	p.Cys134Arg	p.C134R	ENST00000356956	3/48	41	20	20	54	54	0	IGF2R,missense_variant,p.Cys134Arg,ENST00000356956,;AIRN,upstream_gene_variant,,ENST00000609176,;AIRN,upstream_gene_variant,,ENST00000601203,;IGF2R,upstream_gene_variant,,ENST00000464636,;	C	ENSG00000197081	ENST00000356956	Transcript	missense_variant	548	400	134	C/R	Tgt/Cgt	.	.	.	1	IGF2R	HGNC	5467	protein_coding	YES	CCDS5273.1	ENSP00000349437	MPRI_HUMAN	A0N9R7_HUMAN,A0N9R6_HUMAN	UPI0000072478	.	deleterious(0)	probably_damaging(1)	3/48	.	hmmpanther:PTHR10439:SF4,hmmpanther:PTHR10439,Pfam_domain:PF00878,Gene3D:2.70.130.10,Superfamily_domains:SSF50911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGTGTGGG	.	5	BLCA
OR10C1	0	.	GRCh37	6	29407904	29407904	+	Missense_Mutation	SNP	G	G	A	rs770812709	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>A	p.Val38Met	p.V38M	ENST00000444197	1/1	67	56	11	87	87	0	OR10C1,missense_variant,p.Val38Met,ENST00000444197,;OR11A1,intron_variant,,ENST00000377149,;	A	ENSG00000206474	ENST00000444197	Transcript	missense_variant	822	112	38	V/M	Gtg/Atg	rs770812709,COSM1329126	.	.	1	OR10C1	HGNC	8165	protein_coding	YES	CCDS34364.1	ENSP00000419119	O10C1_HUMAN	.	UPI000014068E	.	deleterious(0.02)	benign(0.342)	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR26453:SF191,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACCGTGGCA	.	5	BLCA
UBD	0	.	GRCh37	6	29523936	29523936	+	Silent	SNP	G	G	T	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.219C>A	p.%3D	p.T73T	ENST00000377050	2/2	34	26	8	40	40	0	UBD,synonymous_variant,p.%3D,ENST00000377050,;GABBR1,3_prime_UTR_variant,,ENST00000355973,;OR2I1P,downstream_gene_variant,,ENST00000453522,;OR2I1P,downstream_gene_variant,,ENST00000449341,;	T	ENSG00000213886	ENST00000377050	Transcript	synonymous_variant	443	219	73	T	acC/acA	COSM3928289	.	.	-1	UBD	HGNC	18795	protein_coding	YES	CCDS4662.1	ENSP00000366249	UBD_HUMAN	.	UPI000006F505	.	.	.	2/2	.	PROSITE_profiles:PS50053,hmmpanther:PTHR10666,hmmpanther:PTHR10666:SF5,Gene3D:3.10.20.90,Pfam_domain:PF00240,SMART_domains:SM00213,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGGATGGTCTT	.	4	BLCA
HLA-DPA1	0	.	GRCh37	6	33036461	33036461	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.749C>G	p.Ser250Cys	p.S250C	ENST00000419277	5/6	56	38	18	92	92	0	HLA-DPA1,missense_variant,p.Ser250Cys,ENST00000428995,;HLA-DPA1,missense_variant,p.Ser118Cys,ENST00000437811,;HLA-DPA1,missense_variant,p.Ser250Cys,ENST00000419277,;HLA-DPA1,downstream_gene_variant,,ENST00000453337,;HLA-DPA1,downstream_gene_variant,,ENST00000417724,;HLA-DPA1,downstream_gene_variant,,ENST00000476642,;HLA-DPA1,downstream_gene_variant,,ENST00000463066,;HLA-DPA1,non_coding_transcript_exon_variant,,ENST00000479107,;	C	ENSG00000231389	ENST00000419277	Transcript	missense_variant	879	749	250	S/C	tCt/tGt	.	.	.	-1	HLA-DPA1	HGNC	4938	protein_coding	YES	CCDS4764.1	ENSP00000393566	DPA1_HUMAN	Q9TQA9_HUMAN,Q67AU9_HUMAN,Q67AU5_HUMAN,Q67AU1_HUMAN,Q67AT9_HUMAN,Q67AT8_HUMAN,Q67AT4_HUMAN,Q67AS9_HUMAN,Q67AS8_HUMAN,Q67AS2_HUMAN,Q67AR8_HUMAN,Q67AN2_HUMAN,Q67AN1_HUMAN,Q67AN0_HUMAN,Q67AM9_HUMAN,Q67AM8_HUMAN,Q67AM7_HUMAN,Q67AM6_HUMAN,Q67AM5_HUMAN,Q67AM4_HUMAN,Q67AM3_HUMAN,Q67AM2_HUMAN,Q67AM0_HUMAN,Q67AL9_HUMAN,Q5EY04_HUMAN,Q49U71_HUMAN,Q49U69_HUMAN,Q49U67_HUMAN,Q49U65_HUMAN,Q49U63_HUMAN,Q49U61_HUMAN,Q49U59_HUMAN,Q49U57_HUMAN,Q49U55_HUMAN,Q49U53_HUMAN,Q49U51_HUMAN,Q49U49_HUMAN,Q49U47_HUMAN,Q49U45_HUMAN,Q49U43_HUMAN,Q49U41_HUMAN,Q49U39_HUMAN,Q49U37_HUMAN,Q49U35_HUMAN,Q49U33_HUMAN,Q49U31_HUMAN,Q49U29_HUMAN,Q49U27_HUMAN,Q29ZN4_HUMAN,Q29ZN3_HUMAN,Q29ZN2_HUMAN,Q29ZN1_HUMAN,Q29ZN0_HUMAN,O19680_HUMAN,J3KQ99_HUMAN,F6V115_HUMAN	UPI000012C03B	.	deleterious(0.01)	probably_damaging(0.982)	5/6	.	hmmpanther:PTHR19944:SF53,hmmpanther:PTHR19944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCCAGAACGC	.	3	BLCA
HLA-DPA1	0	.	GRCh37	6	33036806	33036806	+	Silent	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618C>G	p.%3D	p.L206L	ENST00000419277	4/6	90	61	28	155	155	0	HLA-DPA1,synonymous_variant,p.%3D,ENST00000428995,;HLA-DPA1,synonymous_variant,p.%3D,ENST00000453337,;HLA-DPA1,synonymous_variant,p.%3D,ENST00000437811,;HLA-DPA1,synonymous_variant,p.%3D,ENST00000419277,;HLA-DPA1,downstream_gene_variant,,ENST00000417724,;HLA-DPA1,downstream_gene_variant,,ENST00000476642,;HLA-DPA1,downstream_gene_variant,,ENST00000463066,;HLA-DPA1,non_coding_transcript_exon_variant,,ENST00000479107,;	C	ENSG00000231389	ENST00000419277	Transcript	synonymous_variant	748	618	206	L	ctC/ctG	.	.	.	-1	HLA-DPA1	HGNC	4938	protein_coding	YES	CCDS4764.1	ENSP00000393566	DPA1_HUMAN	Q9TQA9_HUMAN,Q67AU9_HUMAN,Q67AU5_HUMAN,Q67AU1_HUMAN,Q67AT9_HUMAN,Q67AT8_HUMAN,Q67AT4_HUMAN,Q67AS9_HUMAN,Q67AS8_HUMAN,Q67AS2_HUMAN,Q67AR8_HUMAN,Q67AN2_HUMAN,Q67AN1_HUMAN,Q67AN0_HUMAN,Q67AM9_HUMAN,Q67AM8_HUMAN,Q67AM7_HUMAN,Q67AM6_HUMAN,Q67AM5_HUMAN,Q67AM4_HUMAN,Q67AM3_HUMAN,Q67AM2_HUMAN,Q67AM0_HUMAN,Q67AL9_HUMAN,Q5EY04_HUMAN,Q49U71_HUMAN,Q49U69_HUMAN,Q49U67_HUMAN,Q49U65_HUMAN,Q49U63_HUMAN,Q49U61_HUMAN,Q49U59_HUMAN,Q49U57_HUMAN,Q49U55_HUMAN,Q49U53_HUMAN,Q49U51_HUMAN,Q49U49_HUMAN,Q49U47_HUMAN,Q49U45_HUMAN,Q49U43_HUMAN,Q49U41_HUMAN,Q49U39_HUMAN,Q49U37_HUMAN,Q49U35_HUMAN,Q49U33_HUMAN,Q49U31_HUMAN,Q49U29_HUMAN,Q49U27_HUMAN,Q29ZN4_HUMAN,Q29ZN3_HUMAN,Q29ZN2_HUMAN,Q29ZN1_HUMAN,Q29ZN0_HUMAN,O19680_HUMAN,J3KQ99_HUMAN,F6V115_HUMAN	UPI000012C03B	.	.	.	4/6	.	Superfamily_domains:SSF48726,Gene3D:2.60.40.10,hmmpanther:PTHR19944:SF53,hmmpanther:PTHR19944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTGAGGAG	.	5	BLCA
HLA-DPA1	0	.	GRCh37	6	33036864	33036864	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560C>T	p.Ser187Leu	p.S187L	ENST00000419277	4/6	113	79	33	174	174	0	HLA-DPA1,missense_variant,p.Ser187Leu,ENST00000428995,;HLA-DPA1,missense_variant,p.Ser187Leu,ENST00000453337,;HLA-DPA1,missense_variant,p.Ser55Leu,ENST00000437811,;HLA-DPA1,missense_variant,p.Ser187Leu,ENST00000419277,;HLA-DPA1,downstream_gene_variant,,ENST00000417724,;HLA-DPA1,downstream_gene_variant,,ENST00000476642,;HLA-DPA1,downstream_gene_variant,,ENST00000463066,;HLA-DPA1,non_coding_transcript_exon_variant,,ENST00000479107,;	A	ENSG00000231389	ENST00000419277	Transcript	missense_variant	690	560	187	S/L	tCa/tTa	.	.	.	-1	HLA-DPA1	HGNC	4938	protein_coding	YES	CCDS4764.1	ENSP00000393566	DPA1_HUMAN	Q9TQA9_HUMAN,Q67AU9_HUMAN,Q67AU5_HUMAN,Q67AU1_HUMAN,Q67AT9_HUMAN,Q67AT8_HUMAN,Q67AT4_HUMAN,Q67AS9_HUMAN,Q67AS8_HUMAN,Q67AS2_HUMAN,Q67AR8_HUMAN,Q67AN2_HUMAN,Q67AN1_HUMAN,Q67AN0_HUMAN,Q67AM9_HUMAN,Q67AM8_HUMAN,Q67AM7_HUMAN,Q67AM6_HUMAN,Q67AM5_HUMAN,Q67AM4_HUMAN,Q67AM3_HUMAN,Q67AM2_HUMAN,Q67AM0_HUMAN,Q67AL9_HUMAN,Q5EY04_HUMAN,Q49U71_HUMAN,Q49U69_HUMAN,Q49U67_HUMAN,Q49U65_HUMAN,Q49U63_HUMAN,Q49U61_HUMAN,Q49U59_HUMAN,Q49U57_HUMAN,Q49U55_HUMAN,Q49U53_HUMAN,Q49U51_HUMAN,Q49U49_HUMAN,Q49U47_HUMAN,Q49U45_HUMAN,Q49U43_HUMAN,Q49U41_HUMAN,Q49U39_HUMAN,Q49U37_HUMAN,Q49U35_HUMAN,Q49U33_HUMAN,Q49U31_HUMAN,Q49U29_HUMAN,Q49U27_HUMAN,Q29ZN4_HUMAN,Q29ZN3_HUMAN,Q29ZN2_HUMAN,Q29ZN1_HUMAN,Q29ZN0_HUMAN,O19680_HUMAN,J3KQ99_HUMAN,F6V115_HUMAN	UPI000012C03B	.	deleterious(0.03)	benign(0.044)	4/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00407,Pfam_domain:PF07654,Gene3D:2.60.40.10,hmmpanther:PTHR19944:SF53,hmmpanther:PTHR19944,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGCTGAGGGC	.	3	BLCA
HLA-DPA1	0	.	GRCh37	6	33037013	33037013	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411C>G	p.Ile137Met	p.I137M	ENST00000419277	4/6	61	44	16	75	75	0	HLA-DPA1,missense_variant,p.Ile137Met,ENST00000428995,;HLA-DPA1,missense_variant,p.Ile137Met,ENST00000453337,;HLA-DPA1,missense_variant,p.Ile5Met,ENST00000437811,;HLA-DPA1,missense_variant,p.Ile137Met,ENST00000419277,;HLA-DPA1,downstream_gene_variant,,ENST00000417724,;HLA-DPA1,non_coding_transcript_exon_variant,,ENST00000476642,;HLA-DPA1,non_coding_transcript_exon_variant,,ENST00000463066,;HLA-DPA1,non_coding_transcript_exon_variant,,ENST00000479107,;	C	ENSG00000231389	ENST00000419277	Transcript	missense_variant	541	411	137	I/M	atC/atG	.	.	.	-1	HLA-DPA1	HGNC	4938	protein_coding	YES	CCDS4764.1	ENSP00000393566	DPA1_HUMAN	Q9TQA9_HUMAN,Q67AU9_HUMAN,Q67AU5_HUMAN,Q67AU1_HUMAN,Q67AT9_HUMAN,Q67AT8_HUMAN,Q67AT4_HUMAN,Q67AS9_HUMAN,Q67AS8_HUMAN,Q67AS2_HUMAN,Q67AR8_HUMAN,Q67AN2_HUMAN,Q67AN1_HUMAN,Q67AN0_HUMAN,Q67AM9_HUMAN,Q67AM8_HUMAN,Q67AM7_HUMAN,Q67AM6_HUMAN,Q67AM5_HUMAN,Q67AM4_HUMAN,Q67AM3_HUMAN,Q67AM2_HUMAN,Q67AM0_HUMAN,Q67AL9_HUMAN,Q5EY04_HUMAN,Q49U71_HUMAN,Q49U69_HUMAN,Q49U67_HUMAN,Q49U65_HUMAN,Q49U63_HUMAN,Q49U61_HUMAN,Q49U59_HUMAN,Q49U57_HUMAN,Q49U55_HUMAN,Q49U53_HUMAN,Q49U51_HUMAN,Q49U49_HUMAN,Q49U47_HUMAN,Q49U45_HUMAN,Q49U43_HUMAN,Q49U41_HUMAN,Q49U39_HUMAN,Q49U37_HUMAN,Q49U35_HUMAN,Q49U33_HUMAN,Q49U31_HUMAN,Q49U29_HUMAN,Q49U27_HUMAN,Q29ZN4_HUMAN,Q29ZN3_HUMAN,Q29ZN2_HUMAN,Q29ZN1_HUMAN,Q29ZN0_HUMAN,O19680_HUMAN,J3KQ99_HUMAN,F6V115_HUMAN	UPI000012C03B	.	deleterious(0)	probably_damaging(0.997)	4/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00407,Pfam_domain:PF07654,Gene3D:2.60.40.10,hmmpanther:PTHR19944:SF53,hmmpanther:PTHR19944,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGCAGATGAG	.	3	BLCA
KIFC1	0	.	GRCh37	6	33359660	33359660	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-103C>T	.	.	ENST00000428849	1/11	11	8	3	8	8	0	KIFC1,5_prime_UTR_variant,,ENST00000450504,;KIFC1,5_prime_UTR_variant,,ENST00000428849,;RPL35AP4,upstream_gene_variant,,ENST00000412007,;	T	ENSG00000237649	ENST00000428849	Transcript	5_prime_UTR_variant	348	.	.	.	.	.	.	.	1	KIFC1	HGNC	6389	protein_coding	YES	CCDS34430.1	ENSP00000393963	KIFC1_HUMAN	.	UPI000012DDB8	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTCTCTACCC	.	2	BLCA
KIFC1	0	.	GRCh37	6	33359671	33359671	+	5'UTR	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-92C>T	.	.	ENST00000428849	1/11	11	8	3	9	9	0	KIFC1,5_prime_UTR_variant,,ENST00000450504,;KIFC1,5_prime_UTR_variant,,ENST00000428849,;RPL35AP4,upstream_gene_variant,,ENST00000412007,;	T	ENSG00000237649	ENST00000428849	Transcript	5_prime_UTR_variant	359	.	.	.	.	.	.	.	1	KIFC1	HGNC	6389	protein_coding	YES	CCDS34430.1	ENSP00000393963	KIFC1_HUMAN	.	UPI000012DDB8	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTCGCGAG	.	2	BLCA
DNAH8	0	.	GRCh37	6	38794053	38794053	+	Silent	SNP	G	G	A	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3318G>A	p.%3D	p.L1106L	ENST00000359357	27/91	59	49	9	68	68	0	DNAH8,synonymous_variant,p.%3D,ENST00000359357,;DNAH8,synonymous_variant,p.%3D,ENST00000327475,;DNAH8,synonymous_variant,p.%3D,ENST00000441566,;DNAH8,synonymous_variant,p.%3D,ENST00000449981,;SNORA8,upstream_gene_variant,,ENST00000391284,;	A	ENSG00000124721	ENST00000359357	Transcript	synonymous_variant	3572	3318	1106	L	ttG/ttA	COSM160512,COSM160513	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	.	27/91	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTGAAAAA	.	5	BLCA
DNAH8	0	.	GRCh37	6	38796008	38796008	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3481G>A	p.Glu1161Lys	p.E1161K	ENST00000359357	28/91	43	37	6	55	55	0	DNAH8,missense_variant,p.Glu1161Lys,ENST00000359357,;DNAH8,missense_variant,p.Glu1366Lys,ENST00000327475,;DNAH8,missense_variant,p.Glu1161Lys,ENST00000441566,;DNAH8,missense_variant,p.Glu1378Lys,ENST00000449981,;	A	ENSG00000124721	ENST00000359357	Transcript	missense_variant	3735	3481	1161	E/K	Gaa/Aaa	.	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	possibly_damaging(0.496)	28/91	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGAATCA	.	5	BLCA
HSP90AB1	0	.	GRCh37	6	44218782	44218782	+	Intron	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.958-3C>G	.	.	ENST00000371554	.	64	44	19	93	93	0	HSP90AB1,splice_region_variant,,ENST00000371646,;HSP90AB1,splice_region_variant,,ENST00000353801,;HSP90AB1,splice_region_variant,,ENST00000371554,;SLC35B2,downstream_gene_variant,,ENST00000538577,;SLC35B2,downstream_gene_variant,,ENST00000537814,;SLC35B2,downstream_gene_variant,,ENST00000393810,;SLC35B2,downstream_gene_variant,,ENST00000393812,;MIR4647,downstream_gene_variant,,ENST00000583964,;SLC35B2,downstream_gene_variant,,ENST00000495706,;	G	ENSG00000096384	ENST00000371554	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	HSP90AB1	HGNC	5258	protein_coding	YES	CCDS4909.1	ENSP00000360609	HS90B_HUMAN	A8K3W9_HUMAN	UPI00001411EF	.	.	.	.	6/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGCAC	.	4	BLCA
KLHL31	0	.	GRCh37	6	53519801	53519801	+	Silent	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270C>G	p.%3D	p.V90V	ENST00000370905	2/3	98	68	30	109	109	0	KLHL31,synonymous_variant,p.%3D,ENST00000407079,;KLHL31,synonymous_variant,p.%3D,ENST00000370905,;	C	ENSG00000124743	ENST00000370905	Transcript	synonymous_variant	411	270	90	V	gtC/gtG	.	.	.	-1	KLHL31	HGNC	21353	protein_coding	YES	CCDS34478.1	ENSP00000359942	KLH31_HUMAN	.	UPI000006D624	.	.	.	2/3	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF58,Pfam_domain:PF00651,Gene3D:3.30.710.10,SMART_domains:SM00225,PIRSF_domain:PIRSF037037,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGACTGA	.	5	BLCA
PHF3	0	.	GRCh37	6	64421877	64421877	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4393C>G	p.Pro1465Ala	p.P1465A	ENST00000262043	16/16	81	50	31	101	101	0	PHF3,missense_variant,p.Pro1465Ala,ENST00000393387,;PHF3,missense_variant,p.Pro1465Ala,ENST00000262043,;PHF3,missense_variant,p.Pro734Ala,ENST00000515594,;PHF3,intron_variant,,ENST00000505138,;PHF3,downstream_gene_variant,,ENST00000506783,;PHF3,3_prime_UTR_variant,,ENST00000509876,;	G	ENSG00000118482	ENST00000262043	Transcript	missense_variant	4733	4393	1465	P/A	Cct/Gct	.	.	.	1	PHF3	HGNC	8921	protein_coding	YES	CCDS4966.1	ENSP00000262043	PHF3_HUMAN	E9PE34_HUMAN,E7EVH3_HUMAN,E7ER40_HUMAN,B3KP41_HUMAN	UPI000007154D	.	deleterious(0.01)	probably_damaging(0.999)	16/16	.	hmmpanther:PTHR14914:SF6,hmmpanther:PTHR14914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCCTGTG	.	5	BLCA
COL12A1	0	.	GRCh37	6	75838090	75838090	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6262G>A	p.Asp2088Asn	p.D2088N	ENST00000322507	38/66	49	40	9	62	62	0	COL12A1,missense_variant,p.Asp2088Asn,ENST00000416123,;COL12A1,missense_variant,p.Asp2088Asn,ENST00000322507,;COL12A1,missense_variant,p.Asp2088Asn,ENST00000483888,;COL12A1,missense_variant,p.Asp924Asn,ENST00000345356,;	T	ENSG00000111799	ENST00000322507	Transcript	missense_variant	6572	6262	2088	D/N	Gac/Aac	.	.	.	-1	COL12A1	HGNC	2188	protein_coding	YES	CCDS43482.1	ENSP00000325146	COCA1_HUMAN	.	UPI000045890B	.	.	probably_damaging(0.999)	38/66	.	PROSITE_profiles:PS50853,hmmpanther:PTHR22992:SF23,hmmpanther:PTHR22992,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGTCAGGTT	.	2	BLCA
PHIP	0	.	GRCh37	6	79713497	79713497	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1603C>T	p.His535Tyr	p.H535Y	ENST00000275034	16/40	32	27	5	35	35	0	PHIP,missense_variant,p.His535Tyr,ENST00000275034,;	A	ENSG00000146247	ENST00000275034	Transcript	missense_variant	1771	1603	535	H/Y	Cat/Tat	.	.	.	-1	PHIP	HGNC	15673	protein_coding	YES	CCDS4987.1	ENSP00000275034	PHIP_HUMAN	.	UPI000013DA40	.	deleterious(0)	possibly_damaging(0.838)	16/40	.	hmmpanther:PTHR16266:SF4,hmmpanther:PTHR16266,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATGAGAGT	.	4	BLCA
IBTK	0	.	GRCh37	6	82941441	82941441	+	Silent	SNP	G	G	A	rs773049124	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537C>T	p.%3D	p.I179I	ENST00000306270	4/29	65	44	20	73	73	0	IBTK,synonymous_variant,p.%3D,ENST00000510291,;IBTK,synonymous_variant,p.%3D,ENST00000503631,;IBTK,synonymous_variant,p.%3D,ENST00000306270,;IBTK,synonymous_variant,p.%3D,ENST00000503400,;IBTK,non_coding_transcript_exon_variant,,ENST00000505222,;IBTK,non_coding_transcript_exon_variant,,ENST00000369751,;	A	ENSG00000005700	ENST00000306270	Transcript	synonymous_variant	1087	537	179	I	atC/atT	rs773049124	.	.	-1	IBTK	HGNC	17853	protein_coding	YES	CCDS34490.1	ENSP00000305721	IBTK_HUMAN	.	UPI000041929F	.	.	.	4/29	.	PROSITE_profiles:PS50012,hmmpanther:PTHR22872,hmmpanther:PTHR22872:SF2,Pfam_domain:PF00415,Gene3D:2.130.10.30,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTGATATA	.	5	BLCA
MDN1	0	.	GRCh37	6	90402717	90402717	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10032G>A	p.%3D	p.Q3344Q	ENST00000369393	63/102	28	22	5	40	40	0	MDN1,synonymous_variant,p.%3D,ENST00000369393,;MDN1,synonymous_variant,p.%3D,ENST00000428876,;	T	ENSG00000112159	ENST00000369393	Transcript	synonymous_variant	10148	10032	3344	Q	caG/caA	.	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	.	63/102	.	hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATCCTGAAC	.	5	BLCA
KMT2E	0	.	GRCh37	7	104753397	104753397	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5194C>T	p.His1732Tyr	p.H1732Y	ENST00000311117	27/27	73	51	22	82	82	0	KMT2E,missense_variant,p.His1732Tyr,ENST00000257745,;KMT2E,missense_variant,p.His1732Tyr,ENST00000311117,;KMT2E,missense_variant,p.His1690Tyr,ENST00000334877,;KMT2E,downstream_gene_variant,,ENST00000473063,;SRPK2,downstream_gene_variant,,ENST00000474770,;KMT2E,downstream_gene_variant,,ENST00000334914,;SRPK2,downstream_gene_variant,,ENST00000393651,;SRPK2,downstream_gene_variant,,ENST00000489828,;SRPK2,downstream_gene_variant,,ENST00000477925,;SRPK2,downstream_gene_variant,,ENST00000357311,;SRPK2,intron_variant,,ENST00000493638,;SRPK2,downstream_gene_variant,,ENST00000485455,;KMT2E,3_prime_UTR_variant,,ENST00000334884,;SRPK2,downstream_gene_variant,,ENST00000466917,;KMT2E,downstream_gene_variant,,ENST00000478079,;SRPK2,downstream_gene_variant,,ENST00000465072,;	T	ENSG00000005483	ENST00000311117	Transcript	missense_variant	5739	5194	1732	H/Y	Cat/Tat	.	.	.	1	KMT2E	HGNC	18541	protein_coding	YES	CCDS34723.1	ENSP00000312379	KMT2E_HUMAN	O95038_HUMAN,C9JQ68_HUMAN,C9JNE1_HUMAN	UPI0000074133	.	deleterious_low_confidence(0)	benign(0.152)	27/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCATACC	.	5	BLCA
PHF14	0	.	GRCh37	7	11022349	11022349	+	Missense_Mutation	SNP	A	A	G	rs761043102	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463A>G	p.Thr155Ala	p.T155A	ENST00000403050	3/17	26	18	8	20	20	0	PHF14,missense_variant,p.Thr155Ala,ENST00000403050,;PHF14,intron_variant,,ENST00000445996,;PHF14,intron_variant,,ENST00000476009,;PHF14,non_coding_transcript_exon_variant,,ENST00000490957,;PHF14,intron_variant,,ENST00000521747,;PHF14,intron_variant,,ENST00000423760,;	G	ENSG00000106443	ENST00000403050	Transcript	missense_variant	915	463	155	T/A	Aca/Gca	rs761043102	.	.	1	PHF14	HGNC	22203	protein_coding	YES	CCDS47542.1	ENSP00000385795	PHF14_HUMAN	.	UPI000020EB41	.	tolerated_low_confidence(0.4)	unknown(0)	3/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13793:SF10,hmmpanther:PTHR13793	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCCACAAGT	.	5	BLCA
PPP1R3A	0	.	GRCh37	7	113559074	113559074	+	5'UTR	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-23C>G	.	.	ENST00000284601	1/4	40	25	15	37	37	0	PPP1R3A,5_prime_UTR_variant,,ENST00000284601,;PPP1R3A,intron_variant,,ENST00000449795,;PPP1R3A,upstream_gene_variant,,ENST00000284602,;	C	ENSG00000154415	ENST00000284601	Transcript	5_prime_UTR_variant	47	.	.	.	.	.	.	.	-1	PPP1R3A	HGNC	9291	protein_coding	YES	CCDS5759.1	ENSP00000284601	PPR3A_HUMAN	C9JZB3_HUMAN	UPI000013DDAA	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATAAGAGAGA	.	5	BLCA
WNT16	0	.	GRCh37	7	120969787	120969787	+	Nonsense_Mutation	SNP	G	G	T	rs749225268	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262G>T	p.Glu88Ter	p.E88*	ENST00000222462	2/4	30	21	9	31	31	0	WNT16,stop_gained,p.Glu88Ter,ENST00000222462,;WNT16,stop_gained,p.Glu78Ter,ENST00000361301,;	T	ENSG00000002745	ENST00000222462	Transcript	stop_gained	552	262	88	E/*	Gag/Tag	rs749225268	.	.	1	WNT16	HGNC	16267	protein_coding	YES	CCDS5781.1	ENSP00000222462	WNT16_HUMAN	.	UPI000005104C	.	.	.	2/4	.	hmmpanther:PTHR12027,hmmpanther:PTHR12027:SF70,Pfam_domain:PF00110,SMART_domains:SM00097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACACGAGAGA	.	5	BLCA
PTPRZ1	0	.	GRCh37	7	121568216	121568216	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.65C>T	p.Ala22Val	p.A22V	ENST00000393386	2/30	87	64	22	147	147	0	PTPRZ1,missense_variant,p.Ala22Val,ENST00000449182,;PTPRZ1,missense_variant,p.Ala22Val,ENST00000393386,;PTPRZ1,non_coding_transcript_exon_variant,,ENST00000471837,;	T	ENSG00000106278	ENST00000393386	Transcript	missense_variant	476	65	22	A/V	gCt/gTt	.	.	.	1	PTPRZ1	HGNC	9685	protein_coding	YES	CCDS34740.1	ENSP00000377047	PTPRZ_HUMAN	.	UPI000020F9BB	.	tolerated(0.36)	benign(0.008)	2/30	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGGCTAATG	.	5	BLCA
AASS	0	.	GRCh37	7	121716533	121716533	+	3'UTR	SNP	T	T	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*10A>G	.	.	ENST00000393376	23/23	40	27	12	56	56	0	AASS,3_prime_UTR_variant,,ENST00000417368,;AASS,3_prime_UTR_variant,,ENST00000393376,;AASS,non_coding_transcript_exon_variant,,ENST00000473553,;AASS,3_prime_UTR_variant,,ENST00000358954,;AASS,3_prime_UTR_variant,,ENST00000431170,;AASS,non_coding_transcript_exon_variant,,ENST00000460376,;AASS,downstream_gene_variant,,ENST00000426162,;	C	ENSG00000008311	ENST00000393376	Transcript	3_prime_UTR_variant	2887	.	.	.	.	.	.	.	-1	AASS	HGNC	17366	protein_coding	YES	CCDS5783.1	ENSP00000377040	AASS_HUMAN	A4D0W4_HUMAN	UPI000004A105	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATATAATTC	.	5	BLCA
SND1	0	.	GRCh37	7	127732072	127732072	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2695C>T	p.Arg899Ter	p.R899*	ENST00000354725	24/24	128	89	38	131	131	0	SND1,stop_gained,p.Arg899Ter,ENST00000354725,;SND1,non_coding_transcript_exon_variant,,ENST00000485871,;SND1,non_coding_transcript_exon_variant,,ENST00000489417,;	T	ENSG00000197157	ENST00000354725	Transcript	stop_gained	2889	2695	899	R/*	Cga/Tga	.	.	.	1	SND1	HGNC	30646	protein_coding	YES	CCDS34747.1	ENSP00000346762	SND1_HUMAN	B2R5U1_HUMAN	UPI00000727E5	.	.	.	24/24	.	hmmpanther:PTHR12302:SF2,hmmpanther:PTHR12302,Gene3D:2.40.50.90,PIRSF_domain:PIRSF017179,Superfamily_domains:0047647	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCGAGCT	.	5	BLCA
ZNF786	0	.	GRCh37	7	148768286	148768286	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1578G>A	p.%3D	p.E526E	ENST00000491431	4/4	28	19	9	30	30	0	ZNF786,synonymous_variant,p.%3D,ENST00000491431,;ZNF786,synonymous_variant,p.%3D,ENST00000316286,;ZNF786,synonymous_variant,p.%3D,ENST00000451334,;	T	ENSG00000197362	ENST00000491431	Transcript	synonymous_variant	1643	1578	526	E	gaG/gaA	.	.	.	-1	ZNF786	HGNC	21806	protein_coding	YES	CCDS47738.1	ENSP00000417470	ZN786_HUMAN	H7BXP3_HUMAN,B4DMI1_HUMAN	UPI000013FD40	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24385:SF15,hmmpanther:PTHR24385,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTGCTCACG	.	5	BLCA
ELMO1	0	.	GRCh37	7	37264523	37264523	+	Missense_Mutation	SNP	T	T	C	rs530807698	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662A>G	p.Gln221Arg	p.Q221R	ENST00000310758	9/22	62	43	18	65	65	0	ELMO1,missense_variant,p.Gln221Arg,ENST00000442504,;ELMO1,missense_variant,p.Gln221Arg,ENST00000310758,;ELMO1,missense_variant,p.Gln221Arg,ENST00000448602,;ELMO1,upstream_gene_variant,,ENST00000433246,;ELMO1,non_coding_transcript_exon_variant,,ENST00000487336,;	C	ENSG00000155849	ENST00000310758	Transcript	missense_variant	1310	662	221	Q/R	cAg/cGg	rs530807698	.	.	-1	ELMO1	HGNC	16286	protein_coding	YES	CCDS5449.1	ENSP00000312185	ELMO1_HUMAN	C9JIW2_HUMAN,C9JB20_HUMAN,C9J5X3_HUMAN,B4DJV6_HUMAN,A4D1X5_HUMAN	UPI000006F687	.	tolerated(0.32)	possibly_damaging(0.507)	9/22	.	hmmpanther:PTHR12771:SF23,hmmpanther:PTHR12771,Gene3D:1.25.10.10,Pfam_domain:PF11841,Superfamily_domains:SSF48371	C:0.0002	C:0	C:0	.	C:0.001	C:0	C:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCCTGCGCC	by1000G	5	BLCA
HECW1	0	.	GRCh37	7	43546778	43546778	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3674G>C	p.Arg1225Thr	p.R1225T	ENST00000395891	22/30	56	37	19	65	65	0	HECW1,missense_variant,p.Arg1191Thr,ENST00000453890,;HECW1,missense_variant,p.Arg1225Thr,ENST00000395891,;HECW1,intron_variant,,ENST00000429529,;AC011738.4,downstream_gene_variant,,ENST00000436105,;	C	ENSG00000002746	ENST00000395891	Transcript	missense_variant	4279	3674	1225	R/T	aGa/aCa	.	.	.	1	HECW1	HGNC	22195	protein_coding	YES	CCDS5469.2	ENSP00000379228	HECW1_HUMAN	A4D1V5_HUMAN	UPI0000D74C41	.	deleterious(0)	probably_damaging(0.993)	22/30	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11254:SF79,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGAAGAGACT	.	5	BLCA
AEBP1	0	.	GRCh37	7	44153669	44153669	+	Missense_Mutation	SNP	G	G	A	rs757303196	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3286G>A	p.Glu1096Lys	p.E1096K	ENST00000223357	21/21	53	36	17	54	54	0	AEBP1,missense_variant,p.Glu1096Lys,ENST00000223357,;AEBP1,missense_variant,p.Glu671Lys,ENST00000450684,;POLD2,downstream_gene_variant,,ENST00000406581,;POLD2,downstream_gene_variant,,ENST00000223361,;POLD2,downstream_gene_variant,,ENST00000433715,;AEBP1,downstream_gene_variant,,ENST00000455443,;POLD2,downstream_gene_variant,,ENST00000436400,;POLD2,downstream_gene_variant,,ENST00000456038,;POLD2,downstream_gene_variant,,ENST00000452185,;POLD2,downstream_gene_variant,,ENST00000418438,;POLD2,downstream_gene_variant,,ENST00000436844,;MIR4649,downstream_gene_variant,,ENST00000582839,;AEBP1,downstream_gene_variant,,ENST00000454218,;AEBP1,3_prime_UTR_variant,,ENST00000413907,;POLD2,downstream_gene_variant,,ENST00000481104,;POLD2,downstream_gene_variant,,ENST00000463464,;AEBP1,downstream_gene_variant,,ENST00000434445,;POLD2,downstream_gene_variant,,ENST00000496539,;AEBP1,downstream_gene_variant,,ENST00000431035,;POLD2,downstream_gene_variant,,ENST00000467469,;POLD2,downstream_gene_variant,,ENST00000470867,;POLD2,downstream_gene_variant,,ENST00000461116,;POLD2,downstream_gene_variant,,ENST00000464871,;AEBP1,downstream_gene_variant,,ENST00000453052,;POLD2,downstream_gene_variant,,ENST00000489883,;	A	ENSG00000106624	ENST00000223357	Transcript	missense_variant	3591	3286	1096	E/K	Gag/Aag	rs757303196,COSM3230836	.	.	1	AEBP1	HGNC	303	protein_coding	YES	CCDS5476.1	ENSP00000223357	AEBP1_HUMAN	B4DJB3_HUMAN	UPI00000746E2	.	deleterious_low_confidence(0.01)	unknown(0)	21/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11532:SF48,hmmpanther:PTHR11532	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACCGAGGTG	.	5	BLCA
EGFR	0	.	GRCh37	7	55211118	55211118	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361G>T	p.Val121Phe	p.V121F	ENST00000275493	3/28	62	39	23	65	65	0	EGFR,missense_variant,p.Val68Phe,ENST00000454757,;EGFR,missense_variant,p.Val121Phe,ENST00000342916,;EGFR,missense_variant,p.Val121Phe,ENST00000344576,;EGFR,missense_variant,p.Val68Phe,ENST00000450046,;EGFR,missense_variant,p.Val121Phe,ENST00000455089,;EGFR,missense_variant,p.Val121Phe,ENST00000275493,;EGFR,missense_variant,p.Val121Phe,ENST00000442591,;EGFR,missense_variant,p.Val121Phe,ENST00000420316,;	T	ENSG00000146648	ENST00000275493	Transcript	missense_variant	538	361	121	V/F	Gtc/Ttc	.	.	.	1	EGFR	HGNC	3236	protein_coding	YES	CCDS5514.1	ENSP00000275493	EGFR_HUMAN	Q75MF2_HUMAN,I3WA73_HUMAN,I3WA72_HUMAN,G9MC81_HUMAN,F1JTL6_HUMAN,E9PFD7_HUMAN,C9JYS6_HUMAN,A7VN06_HUMAN	UPI000003E750	.	deleterious(0)	possibly_damaging(0.905)	3/28	.	Superfamily_domains:SSF52058,PIRSF_domain:PIRSF000619,Gene3D:3.80.20.20,Pfam_domain:PF01030,hmmpanther:PTHR24416:SF91,hmmpanther:PTHR24416	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCAGTCTTA	.	5	BLCA
RNF216	0	.	GRCh37	7	5751425	5751425	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2028G>A	p.%3D	p.K676K	ENST00000389902	13/17	20	13	7	19	19	0	RNF216,synonymous_variant,p.%3D,ENST00000389902,;RNF216,synonymous_variant,p.%3D,ENST00000425013,;RNF216,non_coding_transcript_exon_variant,,ENST00000484458,;RNF216,3_prime_UTR_variant,,ENST00000389900,;	T	ENSG00000011275	ENST00000389902	Transcript	synonymous_variant	2296	2028	676	K	aaG/aaA	.	.	.	-1	RNF216	HGNC	21698	protein_coding	YES	CCDS34594.1	ENSP00000374552	RN216_HUMAN	C9JIV3_HUMAN	UPI000013F5B3	.	.	.	13/17	.	hmmpanther:PTHR22770:SF13,hmmpanther:PTHR22770,SMART_domains:SM00647,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCTCTTCAC	.	5	BLCA
GTF2IRD2	0	.	GRCh37	7	74211723	74211723	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2128G>A	p.Glu710Lys	p.E710K	ENST00000405086	16/16	54	35	19	68	68	0	GTF2IRD2,missense_variant,p.Glu257Lys,ENST00000451013,;GTF2IRD2,missense_variant,p.Glu710Lys,ENST00000405086,;GTF2IRD2,downstream_gene_variant,,ENST00000453619,;GTF2IRD2,downstream_gene_variant,,ENST00000361071,;STAG3L2,intron_variant,,ENST00000380775,;	T	ENSG00000196275	ENST00000405086	Transcript	missense_variant	2318	2128	710	E/K	Gag/Aag	.	.	.	-1	GTF2IRD2	HGNC	30775	protein_coding	YES	CCDS5576.1	ENSP00000385491	GTD2A_HUMAN	.	UPI0000246D34	.	tolerated(0.2)	benign(0.08)	16/16	.	hmmpanther:PTHR11697,hmmpanther:PTHR11697:SF35,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCCGTGT	.	4	BLCA
PCLO	0	.	GRCh37	7	82538327	82538327	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13303T>C	p.Tyr4435His	p.Y4435H	ENST00000333891	8/25	40	35	5	37	37	0	PCLO,missense_variant,p.Tyr4435His,ENST00000333891,;PCLO,missense_variant,p.Tyr4435His,ENST00000423517,;	G	ENSG00000186472	ENST00000333891	Transcript	missense_variant	13641	13303	4435	Y/H	Tat/Cat	.	.	.	-1	PCLO	HGNC	13406	protein_coding	YES	CCDS47630.1	ENSP00000334319	PCLO_HUMAN	.	UPI0001573469	.	.	unknown(0)	8/25	.	hmmpanther:PTHR14113:SF6,hmmpanther:PTHR14113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGATAGGCTT	.	2	BLCA
ZNF804B	0	.	GRCh37	7	88964899	88964899	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2603G>C	p.Ser868Thr	p.S868T	ENST00000333190	4/4	60	46	14	77	77	0	ZNF804B,missense_variant,p.Ser868Thr,ENST00000333190,;	C	ENSG00000182348	ENST00000333190	Transcript	missense_variant	3212	2603	868	S/T	aGc/aCc	.	.	.	1	ZNF804B	HGNC	21958	protein_coding	YES	CCDS5613.1	ENSP00000329638	Z804B_HUMAN	.	UPI00001A92D2	.	tolerated(0.56)	benign(0.126)	4/4	.	hmmpanther:PTHR17614:SF12,hmmpanther:PTHR17614	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAAAGCAAGA	.	5	BLCA
MBLAC1	0	.	GRCh37	7	99725124	99725124	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.106G>A	p.Asp36Asn	p.D36N	ENST00000398075	2/2	20	10	9	10	10	0	MBLAC1,missense_variant,p.Asp36Asn,ENST00000398075,;MBLAC1,missense_variant,p.Asp36Asn,ENST00000421390,;CNPY4,downstream_gene_variant,,ENST00000262932,;RP11-506M12.1,upstream_gene_variant,,ENST00000494221,;AC073842.19,upstream_gene_variant,,ENST00000376482,;CNPY4,downstream_gene_variant,,ENST00000480692,;CNPY4,downstream_gene_variant,,ENST00000483756,;CNPY4,downstream_gene_variant,,ENST00000462193,;	A	ENSG00000214309	ENST00000398075	Transcript	missense_variant	505	106	36	D/N	Gat/Aat	.	.	.	1	MBLAC1	HGNC	22180	protein_coding	YES	CCDS43620.1	ENSP00000381150	MBLC1_HUMAN	C9JAV3_HUMAN	UPI000013FF40	.	tolerated(0.38)	benign(0.005)	2/2	.	hmmpanther:PTHR23200,hmmpanther:PTHR23200:SF37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGCGATGCC	.	5	BLCA
MBLAC1	0	.	GRCh37	7	99725577	99725577	+	Missense_Mutation	SNP	G	G	A	rs773352418	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.559G>A	p.Val187Met	p.V187M	ENST00000398075	2/2	9	5	4	13	13	0	MBLAC1,missense_variant,p.Val187Met,ENST00000398075,;MBLAC1,downstream_gene_variant,,ENST00000421390,;CNPY4,downstream_gene_variant,,ENST00000262932,;AC073842.19,upstream_gene_variant,,ENST00000376482,;RP11-506M12.1,upstream_gene_variant,,ENST00000494221,;CNPY4,downstream_gene_variant,,ENST00000480692,;CNPY4,downstream_gene_variant,,ENST00000462193,;	A	ENSG00000214309	ENST00000398075	Transcript	missense_variant	958	559	187	V/M	Gtg/Atg	rs773352418	.	.	1	MBLAC1	HGNC	22180	protein_coding	YES	CCDS43620.1	ENSP00000381150	MBLC1_HUMAN	C9JAV3_HUMAN	UPI000013FF40	.	deleterious(0)	probably_damaging(0.998)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23200,hmmpanther:PTHR23200:SF37,Gene3D:3.60.15.10,Pfam_domain:PF00753,SMART_domains:SM00849,Superfamily_domains:SSF56281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCACCGTGGTG	.	2	BLCA
ZHX2	0	.	GRCh37	8	123965696	123965696	+	Missense_Mutation	SNP	G	G	C	rs35319449	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1946G>C	p.Arg649Thr	p.R649T	ENST00000314393	3/4	71	59	12	85	85	0	ZHX2,missense_variant,p.Arg649Thr,ENST00000314393,;ZHX2,downstream_gene_variant,,ENST00000534247,;	C	ENSG00000178764	ENST00000314393	Transcript	missense_variant	2781	1946	649	R/T	aGa/aCa	rs35319449	.	.	1	ZHX2	HGNC	18513	protein_coding	YES	CCDS6336.1	ENSP00000314709	ZHX2_HUMAN	H0YKA3_HUMAN	UPI0000073CCB	.	deleterious(0)	probably_damaging(0.978)	3/4	.	PROSITE_profiles:PS50071,hmmpanther:PTHR15467,hmmpanther:PTHR15467:SF5,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAAGAACCC	byFrequency|byCluster	5	BLCA
FAM91A1	0	.	GRCh37	8	124810338	124810338	+	Silent	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1420C>T	p.%3D	p.L474L	ENST00000334705	16/24	259	145	114	327	327	0	FAM91A1,synonymous_variant,p.%3D,ENST00000334705,;FAM91A1,synonymous_variant,p.%3D,ENST00000521166,;FAM91A1,3_prime_UTR_variant,,ENST00000519721,;	T	ENSG00000176853	ENST00000334705	Transcript	synonymous_variant	1666	1420	474	L	Ctg/Ttg	.	.	.	1	FAM91A1	HGNC	26306	protein_coding	YES	CCDS6346.2	ENSP00000335082	F91A1_HUMAN	H0YC80_HUMAN	UPI0000E5AF4E	.	.	.	16/24	.	Pfam_domain:PF14648	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTGGAT	.	5	BLCA
NAT2	0	.	GRCh37	8	18258439	18258439	+	3'UTR	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*53C>T	.	.	ENST00000286479	2/2	17	7	10	26	26	0	NAT2,3_prime_UTR_variant,,ENST00000286479,;NAT2,3_prime_UTR_variant,,ENST00000520116,;	T	ENSG00000156006	ENST00000286479	Transcript	3_prime_UTR_variant	1033	.	.	.	.	.	.	.	1	NAT2	HGNC	7646	protein_coding	YES	CCDS6008.1	ENSP00000286479	ARY2_HUMAN	Q400I7_HUMAN,E7EWF9_HUMAN,A4Z6T7_HUMAN	UPI000013DE51	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATCAACTT	.	5	BLCA
IDO1	0	.	GRCh37	8	39785441	39785441	+	Missense_Mutation	SNP	C	C	T	rs768938457	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949C>T	p.Arg317Cys	p.R317C	ENST00000518237	10/10	11	5	6	8	8	0	IDO1,missense_variant,p.Arg317Cys,ENST00000522495,;IDO1,missense_variant,p.Arg317Cys,ENST00000518237,;RP11-44K6.3,intron_variant,,ENST00000517623,;IDO1,3_prime_UTR_variant,,ENST00000253513,;IDO1,non_coding_transcript_exon_variant,,ENST00000523779,;IDO1,downstream_gene_variant,,ENST00000521480,;	T	ENSG00000131203	ENST00000518237	Transcript	missense_variant	1588	949	317	R/C	Cgt/Tgt	rs768938457	.	.	1	IDO1	HGNC	6059	protein_coding	YES	CCDS47847.1	ENSP00000430950	I23O1_HUMAN	E5RIX2_HUMAN,E5RH36_HUMAN,E5RGR8_HUMAN	UPI00000012AA	.	deleterious(0)	probably_damaging(1)	10/10	.	Pfam_domain:PF01231,Superfamily_domains:SSF140959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTCCGTGAG	byFrequency	2	BLCA
EFCAB1	0	.	GRCh37	8	49643103	49643103	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315G>C	p.Met105Ile	p.M105I	ENST00000262103	3/6	22	14	8	23	23	0	EFCAB1,missense_variant,p.Met105Ile,ENST00000262103,;EFCAB1,missense_variant,p.Met53Ile,ENST00000523092,;EFCAB1,missense_variant,p.Met53Ile,ENST00000433756,;EFCAB1,missense_variant,p.Met23Ile,ENST00000522254,;EFCAB1,upstream_gene_variant,,ENST00000523008,;EFCAB1,non_coding_transcript_exon_variant,,ENST00000521721,;EFCAB1,intron_variant,,ENST00000521002,;EFCAB1,missense_variant,p.Met53Ile,ENST00000521701,;EFCAB1,upstream_gene_variant,,ENST00000519425,;	G	ENSG00000034239	ENST00000262103	Transcript	missense_variant	396	315	105	M/I	atG/atC	.	.	.	-1	EFCAB1	HGNC	25678	protein_coding	YES	CCDS6145.1	ENSP00000262103	EFCB1_HUMAN	.	UPI000006E520	.	tolerated(1)	benign(0.002)	3/6	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23055,hmmpanther:PTHR23055:SF75,Gene3D:1.10.238.10,Pfam_domain:PF13499,SMART_domains:SM00054,Superfamily_domains:SSF47473,Prints_domain:PR00450	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTCATTTT	.	5	BLCA
MSC	0	.	GRCh37	8	72756331	72756331	+	Missense_Mutation	SNP	C	C	T	rs201307659	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83G>A	p.Arg28Lys	p.R28K	ENST00000325509	1/2	25	19	6	25	25	0	MSC,missense_variant,p.Arg28Lys,ENST00000325509,;RP11-383H13.1,intron_variant,,ENST00000537896,;RP11-383H13.1,intron_variant,,ENST00000521467,;RP11-383H13.1,intron_variant,,ENST00000524152,;RP11-383H13.1,upstream_gene_variant,,ENST00000519751,;MSC,upstream_gene_variant,,ENST00000518440,;MSC,upstream_gene_variant,,ENST00000521739,;RP11-383H13.1,upstream_gene_variant,,ENST00000457356,;RP11-383H13.1,upstream_gene_variant,,ENST00000518916,;RP11-383H13.1,intron_variant,,ENST00000522519,;	T	ENSG00000178860	ENST00000325509	Transcript	missense_variant	373	83	28	R/K	aGg/aAg	rs201307659	.	.	-1	MSC	HGNC	7321	protein_coding	YES	CCDS43746.1	ENSP00000321445	MUSC_HUMAN	.	UPI000012FA29	.	tolerated_low_confidence(0.12)	benign(0.001)	1/2	.	.	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0012	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGCCTCTTG	byFrequency|byCluster|by1000G	5	BLCA
TRPA1	0	.	GRCh37	8	72967687	72967688	+	Frame_Shift_Ins	INS	-	-	T	rs770577826	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1512dupA	p.Gly505ArgfsTer7	p.G505Rfs*7	ENST00000262209	12/27	86	77	9	53	53	0	TRPA1,frameshift_variant,p.Gly357ArgfsTer7,ENST00000523582,;TRPA1,frameshift_variant,p.Gly505ArgfsTer7,ENST00000262209,;RP11-383H13.1,downstream_gene_variant,,ENST00000537896,;RP11-383H13.1,downstream_gene_variant,,ENST00000524152,;RP11-383H13.1,non_coding_transcript_exon_variant,,ENST00000457356,;RP11-383H13.1,intron_variant,,ENST00000518916,;RP11-383H13.1,downstream_gene_variant,,ENST00000519751,;RP11-383H13.1,downstream_gene_variant,,ENST00000512290,;TRPA1,non_coding_transcript_exon_variant,,ENST00000520788,;RP11-383H13.1,intron_variant,,ENST00000519068,;RP11-383H13.1,downstream_gene_variant,,ENST00000522519,;	T	ENSG00000104321	ENST00000262209	Transcript	frameshift_variant	1720-1721	1512-1513	504-505	-/X	-/A	rs770577826	.	.	-1	TRPA1	HGNC	497	protein_coding	YES	CCDS34908.1	ENSP00000262209	TRPA1_HUMAN	.	UPI000021081A	.	.	.	12/27	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24190,hmmpanther:PTHR24190:SF5,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGCACCTTTTT	byFrequency	3	BLCA
CA1	0	.	GRCh37	8	86250478	86250478	+	Intron	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235+3G>A	.	.	ENST00000523953	.	121	50	70	134	134	0	CA1,splice_region_variant,,ENST00000522579,;CA1,splice_region_variant,,ENST00000523953,;CA1,splice_region_variant,,ENST00000432364,;CA1,splice_region_variant,,ENST00000522662,;CA1,splice_region_variant,,ENST00000517618,;CA1,splice_region_variant,,ENST00000256119,;CA1,splice_region_variant,,ENST00000523858,;CA1,splice_region_variant,,ENST00000522814,;CA1,splice_region_variant,,ENST00000523022,;CA1,splice_region_variant,,ENST00000431316,;CA1,splice_region_variant,,ENST00000517590,;CA1,splice_region_variant,,ENST00000542576,;CA1,splice_region_variant,,ENST00000521679,;CA1,splice_region_variant,,ENST00000521846,;CA1,intron_variant,,ENST00000520663,;CA1,intron_variant,,ENST00000524324,;CA1,intron_variant,,ENST00000519991,;CA1,intron_variant,,ENST00000522389,;CA1,downstream_gene_variant,,ENST00000519129,;CA1,splice_region_variant,,ENST00000518341,;CA1,splice_region_variant,,ENST00000517429,;CA1,splice_region_variant,,ENST00000520990,;CA1,non_coding_transcript_exon_variant,,ENST00000520093,;CA1,intron_variant,,ENST00000518233,;CA1,downstream_gene_variant,,ENST00000520692,;CA1,upstream_gene_variant,,ENST00000523712,;	T	ENSG00000133742	ENST00000523953	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	CA1	HGNC	1368	protein_coding	YES	CCDS6237.1	ENSP00000430656	CAH1_HUMAN	E5RIF9_HUMAN,E5RHS7_HUMAN,E5RHP7_HUMAN,E5RH81_HUMAN,E5RGU8_HUMAN,E5RG43_HUMAN,E5RFL2_HUMAN	UPI000013CEEF	.	.	.	.	4/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCACCTG	.	4	BLCA
SVEP1	0	.	GRCh37	9	113192631	113192631	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5453G>T	p.Gly1818Val	p.G1818V	ENST00000401783	33/48	21	18	3	20	20	0	SVEP1,missense_variant,p.Gly1818Val,ENST00000401783,;SVEP1,missense_variant,p.Gly1795Val,ENST00000374469,;SVEP1,upstream_gene_variant,,ENST00000297826,;	A	ENSG00000165124	ENST00000401783	Transcript	missense_variant	5790	5453	1818	G/V	gGa/gTa	COSM3952196,COSM3652847	.	.	-1	SVEP1	HGNC	15985	protein_coding	YES	CCDS48004.1	ENSP00000384917	SVEP1_HUMAN	.	UPI000153DA74	.	.	probably_damaging(1)	33/48	.	Superfamily_domains:SSF57535,SMART_domains:SM00032,Gene3D:2.10.70.10,Pfam_domain:PF00084,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF43,PROSITE_profiles:PS50923	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTATCCTTCC	.	2	BLCA
SPTAN1	0	.	GRCh37	9	131351151	131351151	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2935C>T	p.Gln979Ter	p.Q979*	ENST00000372739	21/57	48	11	37	57	57	0	SPTAN1,stop_gained,p.Gln979Ter,ENST00000372739,;SPTAN1,stop_gained,p.Gln979Ter,ENST00000358161,;SPTAN1,stop_gained,p.Gln979Ter,ENST00000372731,;SPTAN1,upstream_gene_variant,,ENST00000475367,;	T	ENSG00000197694	ENST00000372739	Transcript	stop_gained	3045	2935	979	Q/*	Cag/Tag	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	.	.	21/57	.	PROSITE_profiles:PS50002,hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Gene3D:2.30.30.40,Pfam_domain:PF00018,SMART_domains:SM00150,SMART_domains:SM00326,Superfamily_domains:SSF50044,Prints_domain:PR01887,Prints_domain:PR00452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATCAGGAG	.	5	BLCA
ADAMTSL2	0	.	GRCh37	9	136402606	136402606	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170C>T	p.Thr57Met	p.T57M	ENST00000354484	3/19	50	16	34	46	46	0	ADAMTSL2,missense_variant,p.Thr57Met,ENST00000354484,;ADAMTSL2,missense_variant,p.Thr57Met,ENST00000393060,;ADAMTSL2,missense_variant,p.Thr166Met,ENST00000393061,;	T	ENSG00000197859	ENST00000354484	Transcript	missense_variant	727	170	57	T/M	aCg/aTg	COSM1460830	.	.	1	ADAMTSL2	HGNC	14631	protein_coding	YES	CCDS6976.1	ENSP00000346478	ATL2_HUMAN	A8MZ67_HUMAN	UPI000018CEA2	.	deleterious(0)	probably_damaging(0.996)	3/19	.	PROSITE_profiles:PS50092,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF147,Pfam_domain:PF00090,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895,Prints_domain:PR01857	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGACGGCGT	.	5	BLCA
SEC16A	0	.	GRCh37	9	139342332	139342332	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6420G>C	p.Trp2140Cys	p.W2140C	ENST00000313050	23/30	8	3	5	12	12	0	SEC16A,missense_variant,p.Trp1962Cys,ENST00000290037,;SEC16A,missense_variant,p.Trp2140Cys,ENST00000313050,;SEC16A,missense_variant,p.Trp146Cys,ENST00000313084,;SEC16A,missense_variant,p.Trp862Cys,ENST00000453963,;SEC16A,missense_variant,p.Trp534Cys,ENST00000277537,;SEC16A,missense_variant,p.Trp1962Cys,ENST00000431893,;SEC16A,missense_variant,p.Trp1962Cys,ENST00000371706,;SEC16A,3_prime_UTR_variant,,ENST00000398335,;SEC16A,upstream_gene_variant,,ENST00000467838,;	G	ENSG00000148396	ENST00000313050	Transcript	missense_variant	6494	6420	2140	W/C	tgG/tgC	.	.	.	-1	SEC16A	HGNC	29006	protein_coding	YES	CCDS55351.1	ENSP00000325827	.	J3KNL6_HUMAN,G1UI25_HUMAN,A0PJ75_HUMAN	UPI0000F0888B	.	deleterious(0)	probably_damaging(0.999)	23/30	.	hmmpanther:PTHR13402,hmmpanther:PTHR13402:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCACCCACTG	.	2	BLCA
CBWD1	0	.	GRCh37	9	178856	178856	+	Silent	SNP	G	G	A	rs779418945	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>T	p.%3D	p.L38L	ENST00000356521	1/15	22	7	15	26	26	0	CBWD1,synonymous_variant,p.%3D,ENST00000382447,;CBWD1,synonymous_variant,p.%3D,ENST00000377400,;CBWD1,synonymous_variant,p.%3D,ENST00000382393,;CBWD1,synonymous_variant,p.%3D,ENST00000356521,;CBWD1,synonymous_variant,p.%3D,ENST00000377447,;CBWD1,5_prime_UTR_variant,,ENST00000382389,;CBWD1,5_prime_UTR_variant,,ENST00000314367,;CBWD1,5_prime_UTR_variant,,ENST00000431099,;CBWD1,intron_variant,,ENST00000465014,;	A	ENSG00000172785	ENST00000356521	Transcript	synonymous_variant	203	114	38	L	ctC/ctT	rs779418945	.	.	-1	CBWD1	HGNC	17134	protein_coding	YES	CCDS6438.1	ENSP00000348915	CBWD1_HUMAN	.	UPI000006EFDF	.	.	.	1/15	.	hmmpanther:PTHR13748,hmmpanther:PTHR13748:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GCGCCGAGGCC	byFrequency	3	BLCA
ADAMTSL1	0	.	GRCh37	9	18753445	18753445	+	Missense_Mutation	SNP	C	C	T	rs747836852	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2156C>T	p.Thr719Met	p.T719M	ENST00000380548	16/29	14	6	8	14	14	0	ADAMTSL1,missense_variant,p.Thr719Met,ENST00000380548,;ADAMTSL1,non_coding_transcript_exon_variant,,ENST00000380559,;	T	ENSG00000178031	ENST00000380548	Transcript	missense_variant	2495	2156	719	T/M	aCg/aTg	rs747836852,COSM278655	.	.	1	ADAMTSL1	HGNC	14632	protein_coding	YES	CCDS47954.1	ENSP00000369921	ATL1_HUMAN	H7BYE3_HUMAN	UPI000004FD83	.	tolerated(0.06)	benign(0.042)	16/29	.	PROSITE_profiles:PS50092,hmmpanther:PTHR13723:SF157,hmmpanther:PTHR13723,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCACGGTGC	byFrequency	5	BLCA
PTPRD	0	.	GRCh37	9	8633417	8633417	+	Missense_Mutation	SNP	T	T	C	rs111386968	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252A>G	p.Ile84Met	p.I84M	ENST00000381196	11/43	52	29	23	84	84	0	PTPRD,missense_variant,p.Ile84Met,ENST00000397617,;PTPRD,missense_variant,p.Ile84Met,ENST00000486161,;PTPRD,missense_variant,p.Ile84Met,ENST00000358503,;PTPRD,missense_variant,p.Ile84Met,ENST00000360074,;PTPRD,missense_variant,p.Ile84Met,ENST00000481079,;PTPRD,missense_variant,p.Ile84Met,ENST00000381196,;PTPRD,missense_variant,p.Ile84Met,ENST00000397606,;PTPRD,missense_variant,p.Ile84Met,ENST00000356435,;PTPRD,missense_variant,p.Ile84Met,ENST00000355233,;PTPRD,missense_variant,p.Ile84Met,ENST00000397611,;PTPRD,missense_variant,p.Ile84Met,ENST00000540109,;PTPRD,missense_variant,p.Ile84Met,ENST00000537002,;PTPRD,missense_variant,p.Ile84Met,ENST00000463477,;PTPRD,non_coding_transcript_exon_variant,,ENST00000488774,;	C	ENSG00000153707	ENST00000381196	Transcript	missense_variant	796	252	84	I/M	atA/atG	rs111386968	.	.	-1	PTPRD	HGNC	9668	protein_coding	YES	CCDS43786.1	ENSP00000370593	PTPRD_HUMAN	C9J6E4_HUMAN,B4DK48_HUMAN	UPI0000132990	.	deleterious(0)	probably_damaging(0.991)	11/43	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF204,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTGTATTCT	byCluster	5	BLCA
STAG2	0	.	GRCh37	X	123224587	123224587	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3441delA	p.Glu1147AspfsTer13	p.E1147Dfs*13	ENST00000218089	31/35	60	41	19	39	39	0	STAG2,frameshift_variant,p.Glu1147AspfsTer16,ENST00000371160,;STAG2,frameshift_variant,p.Glu1078AspfsTer16,ENST00000354548,;STAG2,frameshift_variant,p.Glu1147AspfsTer16,ENST00000371157,;STAG2,frameshift_variant,p.Glu1147AspfsTer16,ENST00000371144,;STAG2,frameshift_variant,p.Glu1147AspfsTer13,ENST00000218089,;STAG2,frameshift_variant,p.Glu1147AspfsTer13,ENST00000371145,;STAG2,intron_variant,,ENST00000469481,;STAG2,upstream_gene_variant,,ENST00000475602,;	-	ENSG00000101972	ENST00000218089	Transcript	frameshift_variant	3950	3440	1147	E/X	gAa/ga	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	.	.	31/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGACTGAACATC	.	3	BLCA
GPR101	0	.	GRCh37	X	136113450	136113450	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384T>A	p.Asp128Glu	p.D128E	ENST00000298110	1/1	25	20	5	10	10	0	GPR101,missense_variant,p.Asp128Glu,ENST00000298110,;	T	ENSG00000165370	ENST00000298110	Transcript	missense_variant	384	384	128	D/E	gaT/gaA	.	.	.	-1	GPR101	HGNC	14963	protein_coding	YES	CCDS14662.1	ENSP00000298110	GP101_HUMAN	.	UPI000003BCCD	.	deleterious(0)	probably_damaging(1)	1/1	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,PROSITE_patterns:PS00237,hmmpanther:PTHR24248,hmmpanther:PTHR24248:SF2,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGCGATCCAC	.	4	BLCA
SPANXN2	0	.	GRCh37	X	142803825	142803825	+	5'UTR	SNP	T	T	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-63A>G	.	.	ENST00000370498	1/2	40	13	27	54	54	0	SPANXN2,5_prime_UTR_variant,,ENST00000370498,;	C	ENSG00000203924	ENST00000370498	Transcript	5_prime_UTR_variant	692	.	.	.	.	.	.	.	-1	SPANXN2	HGNC	33175	protein_coding	YES	CCDS35419.1	ENSP00000359529	SPXN2_HUMAN	.	UPI000049D98C	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTATATTGA	.	5	BLCA
BEND2	0	.	GRCh37	X	18198653	18198653	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1406C>G	p.Ser469Cys	p.S469C	ENST00000380033	9/14	45	16	28	63	63	0	BEND2,missense_variant,p.Ser378Cys,ENST00000380030,;BEND2,missense_variant,p.Ser469Cys,ENST00000380033,;	C	ENSG00000177324	ENST00000380033	Transcript	missense_variant	1539	1406	469	S/C	tCt/tGt	.	.	.	-1	BEND2	HGNC	28509	protein_coding	YES	CCDS14184.1	ENSP00000369372	BEND2_HUMAN	.	UPI000013FE0F	.	deleterious(0.01)	benign(0.05)	9/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16213,hmmpanther:PTHR16213:SF44	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACAGATGAT	.	5	BLCA
GK	0	.	GRCh37	X	30712535	30712535	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-BT-A42E-01A-11D-A23U-08	TCGA-BT-A42E-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433C>G	p.Leu145Val	p.L145V	ENST00000378943	6/20	28	6	22	36	36	0	GK,missense_variant,p.Leu145Val,ENST00000378946,;GK,missense_variant,p.Leu145Val,ENST00000378943,;GK,missense_variant,p.Leu64Val,ENST00000425166,;GK,missense_variant,p.Leu145Val,ENST00000378945,;GK,5_prime_UTR_variant,,ENST00000427190,;RP11-242C19.2,upstream_gene_variant,,ENST00000497961,;GK,missense_variant,p.His83Gln,ENST00000471362,;GK,3_prime_UTR_variant,,ENST00000481024,;GK,3_prime_UTR_variant,,ENST00000487652,;GK,3_prime_UTR_variant,,ENST00000488296,;GK,3_prime_UTR_variant,,ENST00000479048,;	G	ENSG00000198814	ENST00000378943	Transcript	missense_variant	612	433	145	L/V	Ctt/Gtt	.	.	.	1	GK	HGNC	4289	protein_coding	YES	CCDS48090.1	ENSP00000368226	GLPK_HUMAN	.	UPI000002AA89	.	tolerated(0.12)	benign(0.036)	6/20	.	Superfamily_domains:SSF53067,PIRSF_domain:PIRSF000538,TIGRFAM_domain:TIGR01311,Pfam_domain:PF00370,Gene3D:3.30.420.40,hmmpanther:PTHR10196,hmmpanther:PTHR10196:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCACTTAGC	.	5	BLCA
EIF3A	0	.	GRCh37	10	120801973	120801973	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3059G>A	p.Arg1020Gln	p.R1020Q	ENST00000369144	19/22	319	226	93	319	319	0	EIF3A,missense_variant,p.Arg986Gln,ENST00000541549,;EIF3A,missense_variant,p.Arg1020Gln,ENST00000369144,;	T	ENSG00000107581	ENST00000369144	Transcript	missense_variant	3187	3059	1020	R/Q	cGa/cAa	COSM415155	.	.	-1	EIF3A	HGNC	3271	protein_coding	YES	CCDS7608.1	ENSP00000358140	EIF3A_HUMAN	F5H335_HUMAN	UPI000012D311	.	tolerated(0.05)	probably_damaging(0.96)	19/22	.	hmmpanther:PTHR14005:SF0,hmmpanther:PTHR14005	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCGTCTA	.	5	BLCA
TTC40	0	.	GRCh37	10	134671235	134671235	+	Silent	SNP	C	C	T	rs146998210	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5433G>A	p.%3D	p.A1811A	ENST00000368586	39/58	31	23	8	28	28	0	TTC40,synonymous_variant,p.%3D,ENST00000368586,;TTC40,5_prime_UTR_variant,,ENST00000263170,;	T	ENSG00000171811	ENST00000368586	Transcript	synonymous_variant	5534	5433	1811	A	gcG/gcA	rs146998210,COSM415098	.	.	-1	TTC40	HGNC	25247	protein_coding	YES	CCDS58101.1	ENSP00000357575	TTC40_HUMAN	.	UPI0001B79116	.	.	.	39/58	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15977:SF13,hmmpanther:PTHR15977	T:0.0026	T:0.0098	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATACGCTTC	byFrequency|byCluster|by1000G	5	BLCA
MTPAP	0	.	GRCh37	10	30602779	30602779	+	Missense_Mutation	SNP	C	C	T	rs570052537	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1508G>A	p.Arg503Gln	p.R503Q	ENST00000263063	9/9	223	159	64	238	238	0	MTPAP,missense_variant,p.Arg503Gln,ENST00000263063,;MTPAP,missense_variant,p.Arg633Gln,ENST00000358107,;MTPAP,non_coding_transcript_exon_variant,,ENST00000488290,;	T	ENSG00000107951	ENST00000263063	Transcript	missense_variant	1552	1508	503	R/Q	cGa/cAa	rs570052537,COSM185066,COSM185067	.	.	-1	MTPAP	HGNC	25532	protein_coding	YES	CCDS7165.1	ENSP00000263063	PAPD1_HUMAN	Q5T852_HUMAN	UPI0000070081	.	tolerated(0.23)	benign(0.023)	9/9	.	hmmpanther:PTHR12271:SF33,hmmpanther:PTHR12271,Gene3D:2q66A01,Superfamily_domains:SSF81631	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCGGGCC	.	5	BLCA
KIF5B	0	.	GRCh37	10	32345013	32345013	+	5'UTR	SNP	C	C	G	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-112G>C	.	.	ENST00000302418	1/26	10	7	3	17	17	0	KIF5B,5_prime_UTR_variant,,ENST00000302418,;Y_RNA,upstream_gene_variant,,ENST00000383933,;	G	ENSG00000170759	ENST00000302418	Transcript	5_prime_UTR_variant	347	.	.	.	.	.	.	.	-1	KIF5B	HGNC	6324	protein_coding	YES	CCDS7171.1	ENSP00000307078	KINH_HUMAN	A8K048_HUMAN	UPI000012DE68	.	.	.	1/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGTCAGCTG	.	2	BLCA
DUPD1	0	.	GRCh37	10	76797697	76797697	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560G>A	p.Arg187Gln	p.R187Q	ENST00000338487	3/3	129	96	33	137	137	0	DUPD1,missense_variant,p.Arg187Gln,ENST00000338487,;	T	ENSG00000188716	ENST00000338487	Transcript	missense_variant	560	560	187	R/Q	cGg/cAg	COSM415441	.	.	-1	DUPD1	HGNC	23481	protein_coding	YES	CCDS31223.1	ENSP00000340609	DUPD1_HUMAN	.	UPI000003E897	.	tolerated(0.15)	possibly_damaging(0.724)	3/3	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159,hmmpanther:PTHR10159:SF114,Pfam_domain:PF00782,Gene3D:3.90.190.10,SMART_domains:SM00195,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCCGGTTC	.	5	BLCA
ITIH5	0	.	GRCh37	10	7708859	7708859	+	5'UTR	SNP	G	G	A	rs752765838	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4C>T	.	.	ENST00000256861	1/14	25	12	13	36	36	0	ITIH5,5_prime_UTR_variant,,ENST00000397146,;ITIH5,5_prime_UTR_variant,,ENST00000397145,;ITIH5,5_prime_UTR_variant,,ENST00000446830,;ITIH5,5_prime_UTR_variant,,ENST00000256861,;	A	ENSG00000123243	ENST00000256861	Transcript	5_prime_UTR_variant	76	.	.	.	.	rs752765838	.	.	-1	ITIH5	HGNC	21449	protein_coding	YES	.	ENSP00000256861	ITIH5_HUMAN	.	UPI00001F8AF3	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGCGGGGCG	byFrequency	5	BLCA
MINPP1	0	.	GRCh37	10	89268152	89268152	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.697G>C	p.Glu233Gln	p.E233Q	ENST00000371996	2/5	62	38	23	75	75	0	MINPP1,missense_variant,p.Glu233Gln,ENST00000371996,;MINPP1,missense_variant,p.Glu32Gln,ENST00000536010,;MINPP1,missense_variant,p.Glu233Gln,ENST00000371994,;	C	ENSG00000107789	ENST00000371996	Transcript	missense_variant	738	697	233	E/Q	Gag/Cag	COSM415424	.	.	1	MINPP1	HGNC	7102	protein_coding	YES	CCDS7384.1	ENSP00000361064	MINP1_HUMAN	B4E394_HUMAN	UPI0000035984	.	tolerated(0.14)	benign(0.145)	2/5	.	hmmpanther:PTHR20963,hmmpanther:PTHR20963:SF8,Pfam_domain:PF00328,Gene3D:3.40.50.1240,PIRSF_domain:PIRSF000894,Superfamily_domains:SSF53254	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTGAGAAG	.	5	BLCA
TBC1D12	0	.	GRCh37	10	96162368	96162368	+	5'UTR	SNP	C	C	T	rs776687705	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3C>T	.	.	ENST00000225235	1/13	54	41	12	63	63	0	TBC1D12,5_prime_UTR_variant,,ENST00000225235,;	T	ENSG00000108239	ENST00000225235	Transcript	5_prime_UTR_variant	108	.	.	.	.	rs776687705	.	.	1	TBC1D12	HGNC	29082	protein_coding	YES	CCDS41553.1	ENSP00000225235	TBC12_HUMAN	B9A6L3_HUMAN	UPI00001C1ED6	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCCAGATG	byFrequency	5	BLCA
TBC1D12	0	.	GRCh37	10	96162370	96162370	+	5'UTR	SNP	G	G	A	rs762145762	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000225235	1/13	52	34	17	63	63	0	TBC1D12,5_prime_UTR_variant,,ENST00000225235,;	A	ENSG00000108239	ENST00000225235	Transcript	5_prime_UTR_variant	110	.	.	.	.	rs762145762	.	.	1	TBC1D12	HGNC	29082	protein_coding	YES	CCDS41553.1	ENSP00000225235	TBC12_HUMAN	B9A6L3_HUMAN	UPI00001C1ED6	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCAGATGGT	byFrequency	5	BLCA
KMT2A	0	.	GRCh37	11	118376454	118376454	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9847C>T	p.Arg3283Ter	p.R3283*	ENST00000534358	27/36	123	73	50	185	185	0	KMT2A,stop_gained,p.Arg3280Ter,ENST00000389506,;KMT2A,stop_gained,p.Arg3242Ter,ENST00000354520,;KMT2A,stop_gained,p.Arg3283Ter,ENST00000534358,;KMT2A,upstream_gene_variant,,ENST00000534085,;KMT2A,downstream_gene_variant,,ENST00000528278,;KMT2A,upstream_gene_variant,,ENST00000534678,;	T	ENSG00000118058	ENST00000534358	Transcript	stop_gained	9870	9847	3283	R/*	Cga/Tga	COSM415319,COSM1133343	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	.	27/36	.	hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCACCGAACT	.	5	BLCA
OR10S1	0	.	GRCh37	11	123848195	123848195	+	Silent	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204C>G	p.%3D	p.L68L	ENST00000531945	1/1	41	34	7	53	53	0	OR10S1,synonymous_variant,p.%3D,ENST00000531945,;	C	ENSG00000196248	ENST00000531945	Transcript	synonymous_variant	294	204	68	L	ctC/ctG	COSM415293,COSM1475143	.	.	-1	OR10S1	HGNC	14807	protein_coding	YES	CCDS31701.1	ENSP00000431914	O10S1_HUMAN	.	UPI00001A7787	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF205,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAGGTG	.	5	BLCA
OR8B4	0	.	GRCh37	11	124294748	124294748	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20C>T	p.Ser7Phe	p.S7F	ENST00000356130	1/1	25	19	6	62	62	0	OR8B4,missense_variant,p.Ser7Phe,ENST00000356130,;	A	ENSG00000198657	ENST00000356130	Transcript	missense_variant	42	20	7	S/F	tCc/tTc	COSM415286	.	.	-1	OR8B4	HGNC	8473	protein_coding	YES	CCDS31710.1	ENSP00000348449	OR8B4_HUMAN	.	UPI00000015B0	.	deleterious_low_confidence(0)	possibly_damaging(0.467)	1/1	.	hmmpanther:PTHR26452:SF208,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGGAGCTG	.	5	BLCA
CDON	0	.	GRCh37	11	125891384	125891384	+	Silent	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108C>G	p.%3D	p.L36L	ENST00000392693	3/20	51	34	16	67	67	0	CDON,synonymous_variant,p.%3D,ENST00000534818,;CDON,synonymous_variant,p.%3D,ENST00000534661,;CDON,synonymous_variant,p.%3D,ENST00000527967,;CDON,synonymous_variant,p.%3D,ENST00000263577,;CDON,synonymous_variant,p.%3D,ENST00000392693,;CDON,synonymous_variant,p.%3D,ENST00000531586,;CDON,non_coding_transcript_exon_variant,,ENST00000525625,;CDON,upstream_gene_variant,,ENST00000531830,;	C	ENSG00000064309	ENST00000392693	Transcript	synonymous_variant	236	108	36	L	ctC/ctG	COSM415277	.	.	-1	CDON	HGNC	17104	protein_coding	YES	CCDS58192.1	ENSP00000376458	CDON_HUMAN	E9PRD8_HUMAN,E9PPQ7_HUMAN,E9PNF2_HUMAN	UPI0000E0013A	.	.	.	3/20	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489:SF12,hmmpanther:PTHR10489,Gene3D:2.60.40.10,Pfam_domain:PF13895,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGAGCGG	.	5	BLCA
RP11-113D6.10	0	.	GRCh37	11	18231258	18231258	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44C>T	p.Ser15Leu	p.S15L	ENST00000340135	2/3	79	61	18	75	75	0	RP11-113D6.10,missense_variant,p.Ser15Leu,ENST00000527059,;RP11-113D6.10,missense_variant,p.Ser15Leu,ENST00000340135,;RP11-113D6.10,missense_variant,p.Ser15Leu,ENST00000534640,;	T	ENSG00000189332	ENST00000340135	Transcript	missense_variant	282	44	15	S/L	tCa/tTa	.	.	.	1	RP11-113D6.10	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000342780	YK019_HUMAN	.	UPI00001B6518	.	deleterious_low_confidence(0)	benign(0.096)	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTCATGGA	.	5	BLCA
KIF18A	0	.	GRCh37	11	28090880	28090880	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1516G>C	p.Asp506His	p.D506H	ENST00000263181	11/17	85	60	25	118	118	0	KIF18A,missense_variant,p.Asp506His,ENST00000263181,;	G	ENSG00000121621	ENST00000263181	Transcript	missense_variant	1807	1516	506	D/H	Gat/Cat	COSM415221	.	.	-1	KIF18A	HGNC	29441	protein_coding	YES	CCDS7867.1	ENSP00000263181	KI18A_HUMAN	.	UPI0000037CCC	.	tolerated(0.06)	benign(0.004)	11/17	.	hmmpanther:PTHR24115:SF399,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCAAATT	.	5	BLCA
FJX1	0	.	GRCh37	11	35640755	35640755	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571G>A	p.Glu191Lys	p.E191K	ENST00000317811	1/1	10	6	3	22	22	0	FJX1,missense_variant,p.Glu191Lys,ENST00000317811,;FJX1,upstream_gene_variant,,ENST00000532914,;	A	ENSG00000179431	ENST00000317811	Transcript	missense_variant	1021	571	191	E/K	Gag/Aag	COSM415613,COSM415614	.	.	1	FJX1	HGNC	17166	protein_coding	YES	CCDS44570.1	ENSP00000400223	FJX1_HUMAN	.	UPI0000062321	.	deleterious(0)	probably_damaging(0.98)	1/1	.	Prints_domain:PR02072,hmmpanther:PTHR13147,hmmpanther:PTHR13147:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGGCGAGGCC	.	3	BLCA
API5	0	.	GRCh37	11	43356859	43356859	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1310G>A	p.Ser437Asn	p.S437N	ENST00000531273	12/14	126	84	42	150	150	0	API5,missense_variant,p.Ser437Asn,ENST00000378852,;API5,missense_variant,p.Ser383Asn,ENST00000420461,;API5,missense_variant,p.Ser252Asn,ENST00000526394,;API5,missense_variant,p.Ser437Asn,ENST00000534600,;API5,missense_variant,p.Ser437Asn,ENST00000531273,;API5,missense_variant,p.Ser426Asn,ENST00000455725,;API5,intron_variant,,ENST00000534695,;RP11-484D2.2,non_coding_transcript_exon_variant,,ENST00000526220,;Y_RNA,downstream_gene_variant,,ENST00000516843,;API5,non_coding_transcript_exon_variant,,ENST00000529334,;API5,non_coding_transcript_exon_variant,,ENST00000529932,;API5,intron_variant,,ENST00000532267,;	A	ENSG00000166181	ENST00000531273	Transcript	missense_variant	1449	1310	437	S/N	aGc/aAc	COSM415603,COSM1133357	.	.	1	API5	HGNC	594	protein_coding	YES	CCDS44572.1	ENSP00000431391	API5_HUMAN	.	UPI0000E229DE	.	deleterious(0.03)	probably_damaging(0.968)	12/14	.	Superfamily_domains:SSF48371,Pfam_domain:PF05918,hmmpanther:PTHR12758	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGAGCACAG	.	5	BLCA
OR8K3	0	.	GRCh37	11	56086697	56086697	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915T>A	p.Asn305Lys	p.N305K	ENST00000312711	1/1	41	32	9	65	65	0	OR8K3,missense_variant,p.Asn305Lys,ENST00000312711,;	A	ENSG00000181689	ENST00000312711	Transcript	missense_variant	915	915	305	N/K	aaT/aaA	COSM415562	.	.	1	OR8K3	HGNC	15313	protein_coding	YES	CCDS31527.1	ENSP00000323555	OR8K3_HUMAN	.	UPI0000041BE7	.	tolerated_low_confidence(1)	benign(0.001)	1/1	.	hmmpanther:PTHR26452:SF161,hmmpanther:PTHR26452,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAATAACTT	.	5	BLCA
IRF7	0	.	GRCh37	11	612784	612784	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1412G>T	p.Cys471Phe	p.C471F	ENST00000397566	9/9	84	59	25	88	88	0	IRF7,missense_variant,p.Cys471Phe,ENST00000330243,;IRF7,missense_variant,p.Cys471Phe,ENST00000397566,;IRF7,missense_variant,p.Cys429Phe,ENST00000348655,;IRF7,missense_variant,p.Cys352Phe,ENST00000525445,;IRF7,missense_variant,p.Cys429Phe,ENST00000397570,;IRF7,missense_variant,p.Cys165Phe,ENST00000397562,;IRF7,missense_variant,p.Cys458Phe,ENST00000397574,;PHRF1,downstream_gene_variant,,ENST00000264555,;CDHR5,downstream_gene_variant,,ENST00000397542,;CDHR5,downstream_gene_variant,,ENST00000349570,;PHRF1,downstream_gene_variant,,ENST00000413872,;CDHR5,downstream_gene_variant,,ENST00000358353,;PHRF1,downstream_gene_variant,,ENST00000533464,;PHRF1,downstream_gene_variant,,ENST00000416188,;IRF7,3_prime_UTR_variant,,ENST00000532326,;IRF7,3_prime_UTR_variant,,ENST00000469048,;IRF7,3_prime_UTR_variant,,ENST00000533182,;IRF7,non_coding_transcript_exon_variant,,ENST00000531912,;IRF7,non_coding_transcript_exon_variant,,ENST00000528413,;IRF7,downstream_gene_variant,,ENST00000527160,;IRF7,downstream_gene_variant,,ENST00000532096,;IRF7,downstream_gene_variant,,ENST00000532788,;CDHR5,downstream_gene_variant,,ENST00000531177,;PHRF1,downstream_gene_variant,,ENST00000534320,;IRF7,downstream_gene_variant,,ENST00000525750,;IRF7,downstream_gene_variant,,ENST00000533190,;	A	ENSG00000185507	ENST00000397566	Transcript	missense_variant	1822	1412	471	C/F	tGc/tTc	COSM415508	.	.	-1	IRF7	HGNC	6122	protein_coding	YES	CCDS7705.1	ENSP00000380697	IRF7_HUMAN	Q9HB64_HUMAN,E9PSE3_HUMAN,B4E1B1_HUMAN	UPI000013C689	.	deleterious(0)	probably_damaging(1)	9/9	.	hmmpanther:PTHR11949,hmmpanther:PTHR11949:SF2,Gene3D:2.60.200.10,Pfam_domain:PF10401,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCGGCACAGC	.	5	BLCA
BEST1	0	.	GRCh37	11	61729849	61729849	+	Nonsense_Mutation	SNP	C	C	G	rs370293904	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1043C>G	p.Ser348Ter	p.S348*	ENST00000449131	9/9	86	64	22	91	91	0	BEST1,stop_gained,p.Ser321Ter,ENST00000378042,;BEST1,stop_gained,p.Ser408Ter,ENST00000378043,;BEST1,stop_gained,p.Ser348Ter,ENST00000449131,;BEST1,stop_gained,p.Ser36Ter,ENST00000301774,;BEST1,3_prime_UTR_variant,,ENST00000435278,;BEST1,3_prime_UTR_variant,,ENST00000534553,;FTH1,intron_variant,,ENST00000529191,;FTH1,intron_variant,,ENST00000529631,;FTH1,intron_variant,,ENST00000530019,;FTH1,downstream_gene_variant,,ENST00000529548,;FTH1,downstream_gene_variant,,ENST00000532601,;FTH1,downstream_gene_variant,,ENST00000526640,;FTH1,downstream_gene_variant,,ENST00000273550,;BEST1,downstream_gene_variant,,ENST00000526988,;BEST1,3_prime_UTR_variant,,ENST00000524926,;BEST1,non_coding_transcript_exon_variant,,ENST00000524877,;BEST1,downstream_gene_variant,,ENST00000529265,;FTH1,downstream_gene_variant,,ENST00000534719,;FTH1,downstream_gene_variant,,ENST00000532829,;FTH1,downstream_gene_variant,,ENST00000533138,;FTH1,downstream_gene_variant,,ENST00000534180,;	G	ENSG00000167995	ENST00000449131	Transcript	stop_gained	1129	1043	348	S/*	tCa/tGa	rs370293904,COSM415500,COSM1133362	.	.	1	BEST1	HGNC	12703	protein_coding	YES	CCDS44623.1	ENSP00000399709	BEST1_HUMAN	G8JLA7_HUMAN	UPI0000232791	.	.	.	9/9	.	hmmpanther:PTHR10736,hmmpanther:PTHR10736:SF4	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AAACTCAAGGA	byCluster	4	BLCA
METTL12	0	.	GRCh37	11	62433975	62433975	+	Missense_Mutation	SNP	G	G	A	rs375107020	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>A	p.Glu59Lys	p.E59K	ENST00000532971	3/3	152	97	54	168	167	0	METTL12,missense_variant,p.Glu59Lys,ENST00000532971,;C11orf48,intron_variant,,ENST00000354588,;C11orf48,intron_variant,,ENST00000532208,;C11orf48,intron_variant,,ENST00000415855,;C11orf48,intron_variant,,ENST00000431002,;C11orf48,downstream_gene_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000525675,;C11orf48,upstream_gene_variant,,ENST00000524958,;C11orf48,downstream_gene_variant,,ENST00000528862,;RP11-831H9.11,upstream_gene_variant,,ENST00000528405,;C11orf83,upstream_gene_variant,,ENST00000531323,;C11orf48,downstream_gene_variant,,ENST00000377954,;C11orf48,downstream_gene_variant,,ENST00000526490,;SNORA57,downstream_gene_variant,,ENST00000383870,;METTL12,non_coding_transcript_exon_variant,,ENST00000398922,;METTL12,downstream_gene_variant,,ENST00000594728,;METTL12,non_coding_transcript_exon_variant,,ENST00000529868,;C11orf48,upstream_gene_variant,,ENST00000532786,;C11orf48,downstream_gene_variant,,ENST00000524759,;C11orf48,downstream_gene_variant,,ENST00000527679,;	A	ENSG00000214756	ENST00000532971	Transcript	missense_variant	432	175	59	E/K	Gaa/Aaa	rs375107020,COSM415488,COSM3809857	.	.	1	METTL12	HGNC	33113	protein_coding	YES	CCDS41657.1	ENSP00000431287	MET12_HUMAN	.	UPI0000D4EAB2	.	tolerated(0.23)	benign(0.296)	3/3	.	hmmpanther:PTHR12176,hmmpanther:PTHR12176:SF15,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0	A:0.0004	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGACGAAGTC	byCluster|by1000G	5	BLCA
TAF6L	0	.	GRCh37	11	62554783	62554783	+	3'UTR	SNP	C	C	T	rs200498794	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15C>T	.	.	ENST00000294168	11/11	44	35	9	47	47	0	TAF6L,3_prime_UTR_variant,,ENST00000294168,;TMEM223,intron_variant,,ENST00000528367,;NXF1,downstream_gene_variant,,ENST00000527902,;NXF1,downstream_gene_variant,,ENST00000532297,;TMEM179B,upstream_gene_variant,,ENST00000526546,;TMEM179B,upstream_gene_variant,,ENST00000533861,;TMEM223,downstream_gene_variant,,ENST00000525631,;TMEM179B,upstream_gene_variant,,ENST00000333449,;NXF1,downstream_gene_variant,,ENST00000531709,;NXF1,downstream_gene_variant,,ENST00000294172,;TMEM223,downstream_gene_variant,,ENST00000307366,;RP11-727F15.12,upstream_gene_variant,,ENST00000601484,;TMEM223,intron_variant,,ENST00000527073,;TMEM179B,upstream_gene_variant,,ENST00000532586,;TAF6L,downstream_gene_variant,,ENST00000533823,;TAF6L,downstream_gene_variant,,ENST00000524976,;TMEM179B,upstream_gene_variant,,ENST00000532345,;	T	ENSG00000162227	ENST00000294168	Transcript	3_prime_UTR_variant	2085	.	.	.	.	rs200498794	.	.	1	TAF6L	HGNC	17305	protein_coding	YES	CCDS8035.1	ENSP00000294168	TAF6L_HUMAN	E9PP94_HUMAN,E9PLV8_HUMAN	UPI00000720C0	.	.	.	11/11	.	.	A:0.0010	A:0.0023	A:0	.	A:0.002	A:0	A:0	A:0.0005	A:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCGTTCC	byFrequency|byCluster|by1000G	5	BLCA
CTTN	0	.	GRCh37	11	70281229	70281229	+	Intron	SNP	C	C	T	rs545888686	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1499+4C>T	.	.	ENST00000376561	.	94	62	32	68	68	0	CTTN,synonymous_variant,p.%3D,ENST00000301843,;CTTN,synonymous_variant,p.%3D,ENST00000346329,;CTTN,splice_region_variant,,ENST00000376561,;CTTN,splice_region_variant,,ENST00000529736,;CTTN,splice_region_variant,,ENST00000538675,;CTTN,splice_region_variant,,ENST00000393747,;CTTN,3_prime_UTR_variant,,ENST00000533931,;	T	ENSG00000085733	ENST00000376561	Transcript	splice_region_variant	.	.	.	.	.	rs545888686,COSM415756,COSM1133366	.	.	1	CTTN	HGNC	3338	protein_coding	YES	CCDS53676.1	ENSP00000365745	SRC8_HUMAN	E9PP90_HUMAN,E9PKG3_HUMAN,B4E358_HUMAN	UPI000006E3C2	.	.	.	.	17/18	.	T:0.0004	T:0	T:0	.	T:0.001	T:0	T:0.001	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTACGGGCT	byFrequency|by1000G	5	BLCA
HEPHL1	0	.	GRCh37	11	93778916	93778916	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.248C>T	p.Thr83Met	p.T83M	ENST00000315765	2/20	46	35	11	42	42	0	HEPHL1,missense_variant,p.Thr83Met,ENST00000315765,;	T	ENSG00000181333	ENST00000315765	Transcript	missense_variant	256	248	83	T/M	aCg/aTg	COSM415694	.	.	1	HEPHL1	HGNC	30477	protein_coding	YES	CCDS44710.1	ENSP00000313699	HPHL1_HUMAN	.	UPI0000237563	.	deleterious(0.01)	probably_damaging(0.999)	2/20	.	hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF615,Gene3D:2.60.40.420,Superfamily_domains:SSF49503	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCACGGATG	.	5	BLCA
MYL2	0	.	GRCh37	12	111348834	111348834	+	3'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*47C>T	.	.	ENST00000228841	7/7	81	63	18	60	60	0	MYL2,3_prime_UTR_variant,,ENST00000548438,;MYL2,3_prime_UTR_variant,,ENST00000228841,;CCDC63,downstream_gene_variant,,ENST00000308208,;CCDC63,downstream_gene_variant,,ENST00000552694,;CCDC63,downstream_gene_variant,,ENST00000545036,;MYL2,downstream_gene_variant,,ENST00000549029,;	A	ENSG00000111245	ENST00000228841	Transcript	3_prime_UTR_variant	596	.	.	.	.	.	.	.	-1	MYL2	HGNC	7583	protein_coding	YES	CCDS31901.1	ENSP00000228841	MLRV_HUMAN	Q7Z3Z1_HUMAN,Q6IB42_HUMAN	UPI0000000DF6	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCAGGGACCA	.	2	BLCA
CCDC60	0	.	GRCh37	12	119942996	119942996	+	Silent	SNP	G	G	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.771G>T	p.%3D	p.V257V	ENST00000327554	7/14	390	299	91	370	370	0	CCDC60,synonymous_variant,p.%3D,ENST00000327554,;RP11-768F21.1,intron_variant,,ENST00000535511,;RP11-768F21.1,intron_variant,,ENST00000537366,;RP11-768F21.1,intron_variant,,ENST00000509470,;	T	ENSG00000183273	ENST00000327554	Transcript	synonymous_variant	1236	771	257	V	gtG/gtT	COSM416017	.	.	1	CCDC60	HGNC	28610	protein_coding	YES	CCDS9190.1	ENSP00000333374	CCD60_HUMAN	F5H5H4_HUMAN	UPI000019906E	.	.	.	7/14	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTGAACCC	.	5	BLCA
RSRC2	0	.	GRCh37	12	122992836	122992836	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.964G>A	p.Ala322Thr	p.A322T	ENST00000331738	8/10	141	116	25	171	171	0	RSRC2,missense_variant,p.Ala322Thr,ENST00000331738,;RSRC2,missense_variant,p.Ala274Thr,ENST00000354654,;RSRC2,downstream_gene_variant,,ENST00000344591,;RSRC2,non_coding_transcript_exon_variant,,ENST00000392442,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525332,;RSRC2,3_prime_UTR_variant,,ENST00000532695,;RSRC2,3_prime_UTR_variant,,ENST00000433877,;RSRC2,non_coding_transcript_exon_variant,,ENST00000531389,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527173,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525335,;RSRC2,downstream_gene_variant,,ENST00000527399,;RSRC2,downstream_gene_variant,,ENST00000528263,;	T	ENSG00000111011	ENST00000331738	Transcript	missense_variant	1110	964	322	A/T	Gct/Act	COSM415989,COSM4039608	.	.	-1	RSRC2	HGNC	30559	protein_coding	YES	CCDS31920.1	ENSP00000330188	RSRC2_HUMAN	.	UPI00001FB8BB	.	deleterious(0.04)	unknown(0)	8/10	.	hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF88	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGCGGCTG	.	5	BLCA
DENR	0	.	GRCh37	12	123253605	123253605	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.577C>A	p.Leu193Ile	p.L193I	ENST00000280557	8/8	200	148	51	195	195	0	DENR,missense_variant,p.Leu193Ile,ENST00000280557,;DENR,intron_variant,,ENST00000455982,;Y_RNA,downstream_gene_variant,,ENST00000384187,;	A	ENSG00000139726	ENST00000280557	Transcript	missense_variant	763	577	193	L/I	Ctt/Att	COSM415983	.	.	1	DENR	HGNC	2769	protein_coding	YES	CCDS45003.1	ENSP00000280557	DENR_HUMAN	.	UPI000012918D	.	deleterious(0.04)	probably_damaging(0.997)	8/8	.	hmmpanther:PTHR12789,TIGRFAM_domain:TIGR01159	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATCTTGGA	.	5	BLCA
FOXM1	0	.	GRCh37	12	2967845	2967845	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2365G>A	p.Asp789Asn	p.D789N	ENST00000342628	10/10	93	65	27	73	73	0	FOXM1,missense_variant,p.Asp736Asn,ENST00000361953,;FOXM1,missense_variant,p.Asp789Asn,ENST00000342628,;FOXM1,missense_variant,p.Asp751Asn,ENST00000359843,;FOXM1,downstream_gene_variant,,ENST00000535350,;AC005841.1,upstream_gene_variant,,ENST00000382678,;Y_RNA,upstream_gene_variant,,ENST00000410561,;ITFG2,intron_variant,,ENST00000537710,;ITFG2,intron_variant,,ENST00000545509,;ITFG2,downstream_gene_variant,,ENST00000540300,;FOXM1,non_coding_transcript_exon_variant,,ENST00000536066,;	T	ENSG00000111206	ENST00000342628	Transcript	missense_variant	2479	2365	789	D/N	Gac/Aac	COSM415897	.	.	-1	FOXM1	HGNC	3818	protein_coding	YES	CCDS8516.1	ENSP00000342307	FOXM1_HUMAN	.	UPI000016B22B	.	deleterious(0.03)	probably_damaging(0.944)	10/10	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTCAGGGC	.	5	BLCA
KIAA1551	0	.	GRCh37	12	32138214	32138214	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4325G>A	p.Arg1442Lys	p.R1442K	ENST00000312561	4/6	143	108	35	165	165	0	KIAA1551,missense_variant,p.Arg1442Lys,ENST00000312561,;KIAA1551,downstream_gene_variant,,ENST00000381054,;KIAA1551,downstream_gene_variant,,ENST00000540924,;KIAA1551,intron_variant,,ENST00000535596,;KIAA1551,intron_variant,,ENST00000541981,;KIAA1551,intron_variant,,ENST00000397578,;KIAA1551,upstream_gene_variant,,ENST00000543763,;	A	ENSG00000174718	ENST00000312561	Transcript	missense_variant	4739	4325	1442	R/K	aGa/aAa	COSM415885	.	.	1	KIAA1551	HGNC	25559	protein_coding	YES	CCDS8725.2	ENSP00000310338	K1551_HUMAN	J3KPI3_HUMAN,F5H488_HUMAN	UPI0000577B2F	.	tolerated(0.42)	benign(0.111)	4/6	.	hmmpanther:PTHR21604,Pfam_domain:PF15395	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTAGAATTC	.	5	BLCA
TMEM117	0	.	GRCh37	12	44781901	44781901	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.991G>A	p.Gly331Arg	p.G331R	ENST00000266534	8/8	49	30	19	87	87	0	TMEM117,missense_variant,p.Gly331Arg,ENST00000266534,;TMEM117,missense_variant,p.Gly227Arg,ENST00000536799,;TMEM117,3_prime_UTR_variant,,ENST00000551577,;TMEM117,downstream_gene_variant,,ENST00000550495,;TMEM117,non_coding_transcript_exon_variant,,ENST00000546978,;TMEM117,3_prime_UTR_variant,,ENST00000546868,;	A	ENSG00000139173	ENST00000266534	Transcript	missense_variant	1118	991	331	G/R	Ggg/Agg	COSM548126,COSM415861	.	.	1	TMEM117	HGNC	25308	protein_coding	YES	CCDS8745.1	ENSP00000266534	TM117_HUMAN	H0YI63_HUMAN	UPI0000037D18	.	deleterious(0)	probably_damaging(1)	8/8	.	hmmpanther:PTHR31226,Pfam_domain:PF15113	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATGGGCAA	.	5	BLCA
DBX2	0	.	GRCh37	12	45410035	45410035	+	3'UTR	SNP	G	G	A	rs748866247	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*34C>T	.	.	ENST00000332700	4/4	50	30	20	88	88	0	DBX2,3_prime_UTR_variant,,ENST00000332700,;	A	ENSG00000185610	ENST00000332700	Transcript	3_prime_UTR_variant	1226	.	.	.	.	rs748866247	.	.	-1	DBX2	HGNC	33186	protein_coding	YES	CCDS31781.1	ENSP00000331470	DBX2_HUMAN	.	UPI000041A784	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAGCGTTCTT	byFrequency	5	BLCA
DYRK4	0	.	GRCh37	12	4722727	4722727	+	Silent	SNP	G	G	A	rs143171709	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1371G>A	p.%3D	p.T457T	ENST00000540757	13/13	91	71	19	92	92	0	DYRK4,synonymous_variant,p.%3D,ENST00000540757,;DYRK4,synonymous_variant,p.%3D,ENST00000545342,;DYRK4,synonymous_variant,p.%3D,ENST00000010132,;DYRK4,synonymous_variant,p.%3D,ENST00000543431,;AKAP3,downstream_gene_variant,,ENST00000545990,;DYRK4,downstream_gene_variant,,ENST00000544671,;AKAP3,downstream_gene_variant,,ENST00000228850,;DYRK4,downstream_gene_variant,,ENST00000542744,;DYRK4,non_coding_transcript_exon_variant,,ENST00000544050,;DYRK4,non_coding_transcript_exon_variant,,ENST00000545571,;DYRK4,non_coding_transcript_exon_variant,,ENST00000541024,;RP11-500M8.7,intron_variant,,ENST00000536588,;DYRK4,downstream_gene_variant,,ENST00000536137,;	A	ENSG00000010219	ENST00000540757	Transcript	synonymous_variant	1531	1371	457	T	acG/acA	rs143171709,COSM415845	.	.	1	DYRK4	HGNC	3095	protein_coding	YES	CCDS8530.1	ENSP00000441755	DYRK4_HUMAN	D3JEN3_HUMAN,D3JEN2_HUMAN,B4DQW1_HUMAN	UPI000006E05C	.	.	.	13/13	.	.	A:0.0004	A:0.0015	A:0	.	A:0	A:0	A:0	A:0.0009	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACGAAGCA	byFrequency|byCluster|by1000G	5	BLCA
KMT2D	0	.	GRCh37	12	49424159	49424159	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13903C>T	p.Gln4635Ter	p.Q4635*	ENST00000301067	42/54	19	13	6	19	19	0	KMT2D,stop_gained,p.Gln4635Ter,ENST00000301067,;KMT2D,non_coding_transcript_exon_variant,,ENST00000552391,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	13903	13903	4635	Q/*	Cag/Tag	COSM415826,COSM415825	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	42/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGCACCG	.	5	BLCA
ATN1	0	.	GRCh37	12	7045608	7045608	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1178C>G	p.Ser393Cys	p.S393C	ENST00000356654	5/10	96	69	27	128	128	0	ATN1,missense_variant,p.Ser393Cys,ENST00000396684,;ATN1,missense_variant,p.Ser393Cys,ENST00000356654,;ATN1,upstream_gene_variant,,ENST00000537488,;ATN1,upstream_gene_variant,,ENST00000541029,;	G	ENSG00000111676	ENST00000356654	Transcript	missense_variant	1415	1178	393	S/C	tCt/tGt	COSM416088	.	.	1	ATN1	HGNC	3033	protein_coding	YES	CCDS31734.1	ENSP00000349076	ATN1_HUMAN	Q86V38_HUMAN	UPI000006F554	.	.	probably_damaging(0.954)	5/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13859:SF9,hmmpanther:PTHR13859,Pfam_domain:PF03154	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTTCCT	.	5	BLCA
FLT1	0	.	GRCh37	13	28897021	28897021	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2859G>A	p.%3D	p.K953K	ENST00000282397	21/30	236	168	68	263	263	0	FLT1,synonymous_variant,p.%3D,ENST00000540678,;FLT1,synonymous_variant,p.%3D,ENST00000282397,;FLT1,upstream_gene_variant,,ENST00000543394,;	T	ENSG00000102755	ENST00000282397	Transcript	synonymous_variant	3111	2859	953	K	aaG/aaA	COSM416397	.	.	-1	FLT1	HGNC	3763	protein_coding	YES	CCDS9330.1	ENSP00000282397	VGFR1_HUMAN	S5U0M6_HUMAN,S5TRK2_HUMAN,L7RSL3_HUMAN,H9N1E8_HUMAN,H9N1E7_HUMAN	UPI000013DCDD	.	.	.	21/30	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF126,Pfam_domain:PF07714,SMART_domains:SM00219	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCTTGCC	.	5	BLCA
NBEA	0	.	GRCh37	13	35619479	35619479	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664C>T	p.Gln222Ter	p.Q222*	ENST00000400445	4/58	21	14	7	27	27	0	NBEA,stop_gained,p.Gln222Ter,ENST00000400445,;NBEA,stop_gained,p.Gln222Ter,ENST00000540320,;NBEA,stop_gained,p.Gln222Ter,ENST00000310336,;NBEA,stop_gained,p.Gln222Ter,ENST00000379939,;	T	ENSG00000172915	ENST00000400445	Transcript	stop_gained	1198	664	222	Q/*	Cag/Tag	COSM416385	.	.	1	NBEA	HGNC	7648	protein_coding	YES	CCDS45026.1	ENSP00000383295	NBEA_HUMAN	.	UPI00004FF92F	.	.	.	4/58	.	hmmpanther:PTHR13743:SF62,hmmpanther:PTHR13743,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATCAGATG	.	5	BLCA
ENOX1	0	.	GRCh37	13	43935581	43935581	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.216C>T	p.%3D	p.I72I	ENST00000261488	6/17	74	53	21	97	97	0	ENOX1,synonymous_variant,p.%3D,ENST00000412891,;ENOX1,synonymous_variant,p.%3D,ENST00000261488,;ENOX1,upstream_gene_variant,,ENST00000540032,;ENOX1,upstream_gene_variant,,ENST00000482207,;	A	ENSG00000120658	ENST00000261488	Transcript	synonymous_variant	794	216	72	I	atC/atT	COSM416355,COSM416356	.	.	-1	ENOX1	HGNC	25474	protein_coding	YES	CCDS9389.1	ENSP00000261488	ENOX1_HUMAN	.	UPI0000071D6F	.	.	.	6/17	.	hmmpanther:PTHR16001:SF6,hmmpanther:PTHR16001	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACAGATTGA	.	5	BLCA
KPNA3	0	.	GRCh37	13	50306520	50306520	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370G>C	p.Glu124Gln	p.E124Q	ENST00000261667	6/17	94	67	26	85	85	0	KPNA3,missense_variant,p.Glu124Gln,ENST00000261667,;	G	ENSG00000102753	ENST00000261667	Transcript	missense_variant	785	370	124	E/Q	Gaa/Caa	COSM416341	.	.	-1	KPNA3	HGNC	6396	protein_coding	YES	CCDS9421.1	ENSP00000261667	IMA4_HUMAN	.	UPI000012D5F9	.	tolerated(0.35)	benign(0.038)	6/17	.	PROSITE_profiles:PS50176,hmmpanther:PTHR23316:SF6,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF00514,PIRSF_domain:PIRSF005673,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTTTCTAGAC	.	3	BLCA
CLN5	0	.	GRCh37	13	77574603	77574603	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.723C>G	p.Phe241Leu	p.F241L	ENST00000377453	4/4	66	47	19	92	92	0	CLN5,missense_variant,p.Phe241Leu,ENST00000377453,;FBXL3,downstream_gene_variant,,ENST00000355619,;FBXL3,intron_variant,,ENST00000485797,;FBXL3,downstream_gene_variant,,ENST00000477982,;CLN5,downstream_gene_variant,,ENST00000485938,;	G	ENSG00000102805	ENST00000377453	Transcript	missense_variant	2015	723	241	F/L	ttC/ttG	.	.	.	1	CLN5	HGNC	2076	protein_coding	YES	CCDS9456.1	ENSP00000366673	CLN5_HUMAN	B4E1V6_HUMAN	UPI0000127AD8	.	tolerated(0.08)	probably_damaging(0.994)	4/4	.	hmmpanther:PTHR15380:SF0,hmmpanther:PTHR15380,Pfam_domain:PF15014	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTCAACCA	.	5	BLCA
PLD4	0	.	GRCh37	14	105397201	105397201	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.840G>A	p.%3D	p.Q280Q	ENST00000392593	7/11	236	166	70	244	244	0	PLD4,synonymous_variant,p.%3D,ENST00000540372,;PLD4,synonymous_variant,p.%3D,ENST00000392593,;PLD4,upstream_gene_variant,,ENST00000553861,;PLD4,downstream_gene_variant,,ENST00000557573,;PLD4,non_coding_transcript_exon_variant,,ENST00000472702,;PLD4,downstream_gene_variant,,ENST00000472901,;	A	ENSG00000166428	ENST00000392593	Transcript	synonymous_variant	1008	840	280	Q	caG/caA	COSM416273,COSM416272	.	.	1	PLD4	HGNC	23792	protein_coding	YES	CCDS9995.2	ENSP00000376372	PLD4_HUMAN	G3V472_HUMAN	UPI0000374BC9	.	.	.	7/11	.	hmmpanther:PTHR10185:SF8,hmmpanther:PTHR10185,Pfam_domain:PF13918	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCAGAACTT	.	5	BLCA
EDDM3B	0	.	GRCh37	14	21238299	21238299	+	5'UTR	SNP	C	C	T	rs760014696	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11C>T	.	.	ENST00000326783	2/2	52	31	21	56	56	0	EDDM3B,5_prime_UTR_variant,,ENST00000326783,;	T	ENSG00000181552	ENST00000326783	Transcript	5_prime_UTR_variant	88	.	.	.	.	rs760014696	.	.	1	EDDM3B	HGNC	19223	protein_coding	YES	CCDS9557.1	ENSP00000314810	EP3B_HUMAN	.	UPI000003EDF8	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGCCCCGGTGA	.	4	BLCA
NIN	0	.	GRCh37	14	51226630	51226630	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2344G>A	p.Glu782Lys	p.E782K	ENST00000382041	17/30	348	235	113	356	356	0	NIN,missense_variant,p.Glu782Lys,ENST00000389868,;NIN,missense_variant,p.Glu782Lys,ENST00000245441,;NIN,missense_variant,p.Glu782Lys,ENST00000324330,;NIN,missense_variant,p.Glu782Lys,ENST00000382041,;NIN,missense_variant,p.Glu273Lys,ENST00000389869,;NIN,missense_variant,p.Glu782Lys,ENST00000382043,;NIN,missense_variant,p.Glu273Lys,ENST00000530853,;NIN,missense_variant,p.Glu782Lys,ENST00000453196,;NIN,missense_variant,p.Glu782Lys,ENST00000530997,;NIN,missense_variant,p.Glu782Lys,ENST00000476352,;	T	ENSG00000100503	ENST00000382041	Transcript	missense_variant	2535	2344	782	E/K	Gag/Aag	COSM416674,COSM1133448,COSM1133447	.	.	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	deleterious(0.02)	benign(0.057)	17/30	.	hmmpanther:PTHR18905,hmmpanther:PTHR18905:SF11,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTTTCT	.	5	BLCA
SLC38A6	0	.	GRCh37	14	61486269	61486269	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374C>A	p.Ala125Glu	p.A125E	ENST00000354886	5/17	161	114	46	185	185	0	SLC38A6,missense_variant,p.Ala120Glu,ENST00000451406,;SLC38A6,missense_variant,p.Ala102Glu,ENST00000456840,;SLC38A6,missense_variant,p.Ala125Glu,ENST00000354886,;SLC38A6,missense_variant,p.Ala125Glu,ENST00000267488,;SLC38A6,missense_variant,p.Ala71Glu,ENST00000526105,;SLC38A6,intron_variant,,ENST00000533744,;SLC38A6,3_prime_UTR_variant,,ENST00000491344,;SLC38A6,3_prime_UTR_variant,,ENST00000525723,;SLC38A6,3_prime_UTR_variant,,ENST00000524402,;SLC38A6,3_prime_UTR_variant,,ENST00000529345,;SLC38A6,3_prime_UTR_variant,,ENST00000528350,;SLC38A6,3_prime_UTR_variant,,ENST00000527591,;SLC38A6,non_coding_transcript_exon_variant,,ENST00000554072,;SLC38A6,non_coding_transcript_exon_variant,,ENST00000534758,;	A	ENSG00000139974	ENST00000354886	Transcript	missense_variant	538	374	125	A/E	gCa/gAa	COSM416645,COSM416646	.	.	1	SLC38A6	HGNC	19863	protein_coding	YES	CCDS53900.1	ENSP00000346959	S38A6_HUMAN	G3V3H5_HUMAN	UPI000049DDBA	.	deleterious(0.04)	probably_damaging(0.975)	5/17	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22950,hmmpanther:PTHR22950:SF210,Pfam_domain:PF01490	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGGCAGGCA	.	5	BLCA
SMOC1	0	.	GRCh37	14	70459181	70459181	+	Missense_Mutation	SNP	G	G	A	rs199928475	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.574G>A	p.Asp192Asn	p.D192N	ENST00000361956	6/12	91	79	11	124	124	0	SMOC1,missense_variant,p.Asp192Asn,ENST00000381280,;SMOC1,missense_variant,p.Asp192Asn,ENST00000361956,;SMOC1,upstream_gene_variant,,ENST00000557483,;	A	ENSG00000198732	ENST00000361956	Transcript	missense_variant	837	574	192	D/N	Gat/Aat	rs199928475,COSM416624	.	.	1	SMOC1	HGNC	20318	protein_coding	YES	CCDS32110.1	ENSP00000355110	SMOC1_HUMAN	.	UPI0000071CCF	.	deleterious(0.04)	benign(0.152)	6/12	.	hmmpanther:PTHR12352:SF10,hmmpanther:PTHR12352	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTTCGATGGA	byCluster|by1000G	4	BLCA
PTPN21	0	.	GRCh37	14	88934319	88934319	+	3'UTR	SNP	C	C	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*162G>A	.	.	ENST00000556564	19/19	73	47	26	79	79	0	PTPN21,3_prime_UTR_variant,,ENST00000556564,;PTPN21,3_prime_UTR_variant,,ENST00000328736,;PTPN21,3_prime_UTR_variant,,ENST00000553531,;SPATA7,intron_variant,,ENST00000556406,;PTPN21,3_prime_UTR_variant,,ENST00000536337,;PTPN21,non_coding_transcript_exon_variant,,ENST00000554270,;PTPN21,downstream_gene_variant,,ENST00000557249,;	T	ENSG00000070778	ENST00000556564	Transcript	3_prime_UTR_variant	3972	.	.	.	.	.	.	.	-1	PTPN21	HGNC	9651	protein_coding	YES	CCDS9884.1	ENSP00000452414	PTN21_HUMAN	Q8WX29_HUMAN,G3V3S6_HUMAN	UPI000013D15F	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCTTCGCACG	.	3	BLCA
PTPN21	0	.	GRCh37	14	88934332	88934332	+	3'UTR	SNP	C	C	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*149G>A	.	.	ENST00000556564	19/19	90	53	37	106	106	0	PTPN21,3_prime_UTR_variant,,ENST00000556564,;PTPN21,3_prime_UTR_variant,,ENST00000328736,;PTPN21,3_prime_UTR_variant,,ENST00000553531,;SPATA7,intron_variant,,ENST00000556406,;PTPN21,3_prime_UTR_variant,,ENST00000536337,;PTPN21,non_coding_transcript_exon_variant,,ENST00000554270,;PTPN21,downstream_gene_variant,,ENST00000557249,;	T	ENSG00000070778	ENST00000556564	Transcript	3_prime_UTR_variant	3959	.	.	.	.	.	.	.	-1	PTPN21	HGNC	9651	protein_coding	YES	CCDS9884.1	ENSP00000452414	PTN21_HUMAN	Q8WX29_HUMAN,G3V3S6_HUMAN	UPI000013D15F	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCTTCAGCGT	.	3	BLCA
C14orf159	0	.	GRCh37	14	91681828	91681828	+	Silent	SNP	G	G	A	rs779568190	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1644G>A	p.%3D	p.L548L	ENST00000518868	16/17	177	129	48	138	138	0	C14orf159,synonymous_variant,p.%3D,ENST00000523816,;C14orf159,synonymous_variant,p.%3D,ENST00000518868,;C14orf159,synonymous_variant,p.%3D,ENST00000521077,;C14orf159,synonymous_variant,p.%3D,ENST00000520328,;C14orf159,synonymous_variant,p.%3D,ENST00000428926,;C14orf159,synonymous_variant,p.%3D,ENST00000522816,;C14orf159,synonymous_variant,p.%3D,ENST00000522322,;C14orf159,synonymous_variant,p.%3D,ENST00000523771,;C14orf159,synonymous_variant,p.%3D,ENST00000256324,;C14orf159,synonymous_variant,p.%3D,ENST00000525393,;C14orf159,synonymous_variant,p.%3D,ENST00000412671,;C14orf159,non_coding_transcript_exon_variant,,ENST00000557303,;C14orf159,upstream_gene_variant,,ENST00000523576,;C14orf159,synonymous_variant,p.%3D,ENST00000523461,;C14orf159,synonymous_variant,p.%3D,ENST00000517306,;C14orf159,3_prime_UTR_variant,,ENST00000523837,;	A	ENSG00000133943	ENST00000518868	Transcript	synonymous_variant	2334	1644	548	L	ctG/ctA	rs779568190,COSM416573	.	.	1	C14orf159	HGNC	20498	protein_coding	YES	CCDS41979.1	ENSP00000428263	CN159_HUMAN	E5RK56_HUMAN,E5RK14_HUMAN,E5RJD1_HUMAN,E5RJ87_HUMAN,E5RJ62_HUMAN,E5RIU5_HUMAN,E5RIL4_HUMAN,E5RHG2_HUMAN,E5RGP9_HUMAN,E5RFT5_HUMAN	UPI000000CC60	.	.	.	16/17	.	PIRSF_domain:PIRSF037204,Pfam_domain:PF14336,hmmpanther:PTHR32022	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGAGGAA	.	5	BLCA
GPR68	0	.	GRCh37	14	91700960	91700960	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435C>T	p.%3D	p.I145I	ENST00000531499	2/2	41	29	11	57	57	0	GPR68,synonymous_variant,p.%3D,ENST00000535815,;GPR68,synonymous_variant,p.%3D,ENST00000531499,;GPR68,synonymous_variant,p.%3D,ENST00000529102,;GPR68,synonymous_variant,p.%3D,ENST00000238699,;GPR68,downstream_gene_variant,,ENST00000529300,;	A	ENSG00000119714	ENST00000531499	Transcript	synonymous_variant	775	435	145	I	atC/atT	COSM416572	.	.	-1	GPR68	HGNC	4519	protein_coding	YES	CCDS9894.2	ENSP00000434045	OGR1_HUMAN	E9PNU7_HUMAN	UPI000005042A	.	.	.	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24234,hmmpanther:PTHR24234:SF5,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAGATGAC	.	5	BLCA
TRIP11	0	.	GRCh37	14	92506013	92506013	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17G>A	p.Gly6Glu	p.G6E	ENST00000267622	1/21	23	16	6	24	24	0	TRIP11,missense_variant,p.Gly6Glu,ENST00000267622,;TRIP11,intron_variant,,ENST00000555516,;TRIP11,non_coding_transcript_exon_variant,,ENST00000555105,;	T	ENSG00000100815	ENST00000267622	Transcript	missense_variant	391	17	6	G/E	gGg/gAg	COSM416566,COSM3793954	.	.	-1	TRIP11	HGNC	12305	protein_coding	YES	CCDS9899.1	ENSP00000267622	TRIPB_HUMAN	G3V4R7_HUMAN	UPI000013D767	.	tolerated(0.05)	unknown(0)	1/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18921:SF2,hmmpanther:PTHR18921	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCCCAAGC	.	5	BLCA
BUB1B	0	.	GRCh37	15	40500941	40500941	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113G>A	p.Glu705Lys	p.E705K	ENST00000287598	16/23	76	61	15	77	77	0	BUB1B,missense_variant,p.Glu719Lys,ENST00000412359,;BUB1B,missense_variant,p.Glu705Lys,ENST00000287598,;BUB1B,downstream_gene_variant,,ENST00000558972,;	A	ENSG00000156970	ENST00000287598	Transcript	missense_variant	2308	2113	705	E/K	Gag/Aag	COSM416506,COSM3932073	.	.	1	BUB1B	HGNC	1149	protein_coding	YES	CCDS10053.1	ENSP00000287598	BUB1B_HUMAN	.	UPI000006E699	.	deleterious(0.02)	possibly_damaging(0.682)	16/23	.	hmmpanther:PTHR14030,hmmpanther:PTHR14030:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.E705K|c.2113G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTGAGAAA	.	5	BLCA
INO80	0	.	GRCh37	15	41388034	41388034	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.236C>T	p.Ser79Leu	p.S79L	ENST00000361937	3/36	99	72	27	100	100	0	INO80,missense_variant,p.Ser79Leu,ENST00000361937,;INO80,missense_variant,p.Ser79Leu,ENST00000401393,;INO80,missense_variant,p.Ser79Leu,ENST00000558357,;	A	ENSG00000128908	ENST00000361937	Transcript	missense_variant	661	236	79	S/L	tCa/tTa	COSM416495,COSM416496	.	.	-1	INO80	HGNC	26956	protein_coding	YES	CCDS10071.1	ENSP00000355205	INO80_HUMAN	Q9NUK2_HUMAN	UPI00001B6AFC	.	tolerated(0.15)	benign(0.016)	3/36	.	hmmpanther:PTHR10799:SF213,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAATGAATTT	.	5	BLCA
NUSAP1	0	.	GRCh37	15	41657737	41657737	+	Silent	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798G>C	p.%3D	p.L266L	ENST00000559596	7/11	32	26	5	33	33	0	NUSAP1,synonymous_variant,p.%3D,ENST00000560177,;NUSAP1,synonymous_variant,p.%3D,ENST00000414849,;NUSAP1,synonymous_variant,p.%3D,ENST00000559596,;NUSAP1,synonymous_variant,p.%3D,ENST00000560747,;NUSAP1,synonymous_variant,p.%3D,ENST00000260359,;NUSAP1,synonymous_variant,p.%3D,ENST00000450592,;NUSAP1,synonymous_variant,p.%3D,ENST00000450318,;NUSAP1,non_coding_transcript_exon_variant,,ENST00000558123,;NUSAP1,missense_variant,p.Glu57Gln,ENST00000557840,;NUSAP1,synonymous_variant,p.%3D,ENST00000560898,;NUSAP1,upstream_gene_variant,,ENST00000560318,;	C	ENSG00000137804	ENST00000559596	Transcript	synonymous_variant	885	798	266	L	ctG/ctC	COSM416493	.	.	1	NUSAP1	HGNC	18538	protein_coding	YES	CCDS45234.1	ENSP00000453403	NUSAP_HUMAN	.	UPI0000072C6B	.	.	.	7/11	.	hmmpanther:PTHR15874,hmmpanther:PTHR15874:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTGAAGGG	.	5	BLCA
LIPC	0	.	GRCh37	15	58861007	58861007	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1481C>G	p.Ser494Ter	p.S494*	ENST00000356113	11/11	37	28	8	33	33	0	LIPC,stop_gained,p.Ser494Ter,ENST00000299022,;LIPC,stop_gained,p.Ser494Ter,ENST00000356113,;LIPC,stop_gained,p.Ser433Ter,ENST00000433326,;LIPC,downstream_gene_variant,,ENST00000414170,;LIPC,downstream_gene_variant,,ENST00000559845,;	G	ENSG00000166035	ENST00000356113	Transcript	stop_gained	2096	1481	494	S/*	tCa/tGa	COSM416882	.	.	1	LIPC	HGNC	6619	protein_coding	YES	CCDS10166.1	ENSP00000348425	LIPC_HUMAN	.	UPI000013E54D	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AACATCAAAGC	.	3	BLCA
FAM63B	0	.	GRCh37	15	59146724	59146724	+	Missense_Mutation	SNP	C	C	G	rs753222491	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1781C>G	p.Ser594Cys	p.S594C	ENST00000559228	9/9	89	66	23	70	70	0	FAM63B,missense_variant,p.Ser594Cys,ENST00000559228,;FAM63B,missense_variant,p.Ser593Cys,ENST00000450403,;RP11-30K9.5,downstream_gene_variant,,ENST00000558042,;FAM63B,3_prime_UTR_variant,,ENST00000560289,;FAM63B,3_prime_UTR_variant,,ENST00000316848,;	G	ENSG00000128923	ENST00000559228	Transcript	missense_variant	1863	1781	594	S/C	tCt/tGt	rs753222491,COSM416881	.	.	1	FAM63B	HGNC	26954	protein_coding	YES	CCDS42046.1	ENSP00000452885	FA63B_HUMAN	.	UPI0000D74C47	.	deleterious(0.01)	probably_damaging(0.971)	9/9	.	hmmpanther:PTHR18063:SF8,hmmpanther:PTHR18063	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCTGGGA	.	5	BLCA
CILP	0	.	GRCh37	15	65491367	65491367	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1257G>C	p.Gln419His	p.Q419H	ENST00000261883	9/9	137	107	29	102	102	0	CILP,missense_variant,p.Gln419His,ENST00000261883,;	G	ENSG00000138615	ENST00000261883	Transcript	missense_variant	1424	1257	419	Q/H	caG/caC	COSM416863	.	.	-1	CILP	HGNC	1980	protein_coding	YES	CCDS10203.1	ENSP00000261883	CILP1_HUMAN	.	UPI000013D21B	.	deleterious(0)	probably_damaging(0.993)	9/9	.	hmmpanther:PTHR15031,hmmpanther:PTHR15031:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTCTGAAA	.	5	BLCA
TLE3	0	.	GRCh37	15	70346924	70346924	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1688C>T	p.Ser563Leu	p.S563L	ENST00000558939	16/20	42	30	12	51	51	0	TLE3,missense_variant,p.Ser569Leu,ENST00000558201,;TLE3,missense_variant,p.Ser490Leu,ENST00000539550,;TLE3,missense_variant,p.Ser555Leu,ENST00000557997,;TLE3,missense_variant,p.Ser573Leu,ENST00000559929,;TLE3,missense_variant,p.Ser555Leu,ENST00000442299,;TLE3,missense_variant,p.Ser565Leu,ENST00000560939,;TLE3,missense_variant,p.Ser507Leu,ENST00000560589,;TLE3,missense_variant,p.Ser560Leu,ENST00000451782,;TLE3,missense_variant,p.Ser558Leu,ENST00000558379,;TLE3,missense_variant,p.Ser555Leu,ENST00000557907,;TLE3,missense_variant,p.Ser563Leu,ENST00000558939,;TLE3,missense_variant,p.Ser553Leu,ENST00000440567,;TLE3,missense_variant,p.Ser144Leu,ENST00000559191,;TLE3,missense_variant,p.Ser551Leu,ENST00000317509,;TLE3,missense_variant,p.Ser563Leu,ENST00000559048,;TLE3,3_prime_UTR_variant,,ENST00000560525,;TLE3,3_prime_UTR_variant,,ENST00000557919,;TLE3,3_prime_UTR_variant,,ENST00000561453,;TLE3,non_coding_transcript_exon_variant,,ENST00000542329,;TLE3,non_coding_transcript_exon_variant,,ENST00000557815,;TLE3,downstream_gene_variant,,ENST00000559826,;TLE3,upstream_gene_variant,,ENST00000559608,;	A	ENSG00000140332	ENST00000558939	Transcript	missense_variant	3066	1688	563	S/L	tCg/tTg	COSM416842	.	.	-1	TLE3	HGNC	11839	protein_coding	YES	CCDS45293.1	ENSP00000452871	TLE3_HUMAN	H0YNT2_HUMAN	UPI000013703A	.	deleterious(0)	benign(0.368)	16/20	.	PROSITE_profiles:PS50294,hmmpanther:PTHR10814,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGCGAGGCC	.	5	BLCA
CPEB1	0	.	GRCh37	15	83296112	83296112	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22G>C	p.Glu8Gln	p.E8Q	ENST00000568128	2/12	52	42	10	39	39	0	CPEB1,missense_variant,p.Glu8Gln,ENST00000568128,;CPEB1,missense_variant,p.Glu8Gln,ENST00000562019,;CPEB1,missense_variant,p.Glu35Gln,ENST00000563800,;CPEB1,5_prime_UTR_variant,,ENST00000567678,;CPEB1,5_prime_UTR_variant,,ENST00000568757,;CPEB1,5_prime_UTR_variant,,ENST00000569257,;CPEB1,5_prime_UTR_variant,,ENST00000450751,;CPEB1,non_coding_transcript_exon_variant,,ENST00000566716,;	G	ENSG00000214575	ENST00000568128	Transcript	missense_variant	129	22	8	E/Q	Gaa/Caa	COSM1133467	.	.	-1	CPEB1	HGNC	21744	protein_coding	YES	CCDS45329.1	ENSP00000457881	CPEB1_HUMAN	H3BPD6_HUMAN,H3BNX1_HUMAN,G8JLI7_HUMAN	UPI000018CEBD	.	deleterious_low_confidence(0.04)	benign(0.176)	2/12	.	hmmpanther:PTHR12566	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCTTCTT	.	4	BLCA
MKL2	0	.	GRCh37	16	14294324	14294324	+	Intron	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.155-9776G>A	.	.	ENST00000318282	.	356	277	78	373	373	0	MKL2,5_prime_UTR_variant,,ENST00000573051,;MKL2,intron_variant,,ENST00000572567,;MKL2,intron_variant,,ENST00000318282,;MKL2,intron_variant,,ENST00000341243,;MKL2,intron_variant,,ENST00000571589,;MKL2,intron_variant,,ENST00000574045,;MKL2,intron_variant,,ENST00000574998,;CTA-276F8.2,upstream_gene_variant,,ENST00000570581,;MKL2,intron_variant,,ENST00000575768,;TVP23CP2,non_coding_transcript_exon_variant,,ENST00000571473,;	A	ENSG00000186260	ENST00000318282	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MKL2	HGNC	29819	protein_coding	YES	CCDS32391.1	ENSP00000339086	MKL2_HUMAN	I3L0U1_HUMAN	UPI0000225CCB	.	.	.	.	2/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATCGTTTTT	.	5	BLCA
ABCC1	0	.	GRCh37	16	16139789	16139789	+	Silent	SNP	C	C	T	rs528197968	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1137C>T	p.%3D	p.L379L	ENST00000399410	9/31	51	41	10	53	53	0	ABCC1,synonymous_variant,p.%3D,ENST00000399408,;ABCC1,synonymous_variant,p.%3D,ENST00000351154,;ABCC1,synonymous_variant,p.%3D,ENST00000399410,;ABCC1,synonymous_variant,p.%3D,ENST00000349029,;ABCC1,synonymous_variant,p.%3D,ENST00000346370,;ABCC1,synonymous_variant,p.%3D,ENST00000345148,;ABCC1,synonymous_variant,p.%3D,ENST00000572882,;ABCC1,non_coding_transcript_exon_variant,,ENST00000574224,;	T	ENSG00000103222	ENST00000399410	Transcript	synonymous_variant	1312	1137	379	L	ctC/ctT	rs528197968	.	.	1	ABCC1	HGNC	51	protein_coding	YES	CCDS42122.1	ENSP00000382342	MRP1_HUMAN	Q9BV39_HUMAN	UPI00001FEEFC	.	.	.	9/31	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50929,hmmpanther:PTHR24223:SF203,hmmpanther:PTHR24223,TIGRFAM_domain:TIGR00957,Pfam_domain:PF00664,Gene3D:2hydA01,Superfamily_domains:SSF90123	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCGTGCT	by1000G	4	BLCA
PKD1	0	.	GRCh37	16	2155925	2155925	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7804C>T	p.Gln2602Ter	p.Q2602*	ENST00000262304	20/46	80	60	20	104	104	0	PKD1,stop_gained,p.Gln2602Ter,ENST00000262304,;PKD1,stop_gained,p.Gln2602Ter,ENST00000423118,;PKD1,downstream_gene_variant,,ENST00000483024,;PKD1,upstream_gene_variant,,ENST00000567946,;PKD1,downstream_gene_variant,,ENST00000488185,;PKD1,non_coding_transcript_exon_variant,,ENST00000564865,;PKD1,non_coding_transcript_exon_variant,,ENST00000561991,;PKD1,downstream_gene_variant,,ENST00000468674,;PKD1,downstream_gene_variant,,ENST00000483558,;PKD1,downstream_gene_variant,,ENST00000473780,;PKD1,upstream_gene_variant,,ENST00000475889,;PKD1,stop_gained,p.Gln831Ter,ENST00000487932,;PKD1,non_coding_transcript_exon_variant,,ENST00000565639,;PKD1,non_coding_transcript_exon_variant,,ENST00000415938,;PKD1,non_coding_transcript_exon_variant,,ENST00000486339,;PKD1,non_coding_transcript_exon_variant,,ENST00000496574,;PKD1,non_coding_transcript_exon_variant,,ENST00000564890,;PKD1,non_coding_transcript_exon_variant,,ENST00000483731,;PKD1,downstream_gene_variant,,ENST00000568591,;PKD1,upstream_gene_variant,,ENST00000562297,;PKD1,downstream_gene_variant,,ENST00000569983,;PKD1,upstream_gene_variant,,ENST00000480227,;PKD1,upstream_gene_variant,,ENST00000474088,;PKD1,upstream_gene_variant,,ENST00000471603,;	A	ENSG00000008710	ENST00000262304	Transcript	stop_gained	8013	7804	2602	Q/*	Cag/Tag	COSM417111	.	.	-1	PKD1	HGNC	9008	protein_coding	YES	CCDS32369.1	ENSP00000262304	PKD1_HUMAN	O75276_HUMAN	UPI00001B0454	.	.	.	20/46	.	PROSITE_profiles:PS51111,hmmpanther:PTHR10877:SF123,hmmpanther:PTHR10877,Pfam_domain:PF02010,TIGRFAM_domain:TIGR00864	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGCCGCA	.	4	BLCA
SRRM2	0	.	GRCh37	16	2813979	2813979	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3450G>A	p.%3D	p.S1150S	ENST00000301740	11/15	174	138	36	272	272	0	SRRM2,synonymous_variant,p.%3D,ENST00000301740,;SRRM2,downstream_gene_variant,,ENST00000576924,;SRRM2,downstream_gene_variant,,ENST00000571378,;SRRM2,downstream_gene_variant,,ENST00000575009,;SRRM2,intron_variant,,ENST00000576674,;SRRM2,downstream_gene_variant,,ENST00000572278,;SRRM2,upstream_gene_variant,,ENST00000572721,;SRRM2,downstream_gene_variant,,ENST00000575870,;SRRM2,upstream_gene_variant,,ENST00000574593,;SRRM2,downstream_gene_variant,,ENST00000570655,;SRRM2,upstream_gene_variant,,ENST00000572883,;SRRM2,upstream_gene_variant,,ENST00000576878,;SRRM2,downstream_gene_variant,,ENST00000576894,;SRRM2,upstream_gene_variant,,ENST00000571041,;SRRM2,downstream_gene_variant,,ENST00000573451,;SRRM2,upstream_gene_variant,,ENST00000573311,;SRRM2,downstream_gene_variant,,ENST00000576076,;SRRM2,downstream_gene_variant,,ENST00000573498,;SRRM2,downstream_gene_variant,,ENST00000570971,;SRRM2,downstream_gene_variant,,ENST00000571372,;SRRM2,downstream_gene_variant,,ENST00000572952,;SRRM2,upstream_gene_variant,,ENST00000570705,;	A	ENSG00000167978	ENST00000301740	Transcript	synonymous_variant	3999	3450	1150	S	tcG/tcA	COSM263874	.	.	1	SRRM2	HGNC	16639	protein_coding	YES	CCDS32373.1	ENSP00000301740	SRRM2_HUMAN	I3L4D8_HUMAN,I3L1I8_HUMAN,I3L1C0_HUMAN,I3L182_HUMAN,I3L0N7_HUMAN	UPI000049DDFC	.	.	.	11/15	.	hmmpanther:PTHR32093:SF13,hmmpanther:PTHR32093	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTCGAATTC	.	5	BLCA
COX6A2	0	.	GRCh37	16	31439079	31439079	+	3'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*16C>T	.	.	ENST00000287490	3/3	12	7	5	10	10	0	COX6A2,3_prime_UTR_variant,,ENST00000287490,;ITGAD,downstream_gene_variant,,ENST00000389202,;COX6A2,downstream_gene_variant,,ENST00000565462,;ITGAD,downstream_gene_variant,,ENST00000567308,;	A	ENSG00000156885	ENST00000287490	Transcript	3_prime_UTR_variant	413	.	.	.	.	.	.	.	-1	COX6A2	HGNC	2279	protein_coding	YES	CCDS10712.1	ENSP00000287490	CX6A2_HUMAN	.	UPI00000012DE	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCCGGGGGC	.	2	BLCA
CREBBP	0	.	GRCh37	16	3781375	3781375	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4990C>T	p.Arg1664Cys	p.R1664C	ENST00000262367	30/31	18	12	6	35	35	0	CREBBP,missense_variant,p.Arg1664Cys,ENST00000262367,;CREBBP,missense_variant,p.Arg1626Cys,ENST00000382070,;CREBBP,downstream_gene_variant,,ENST00000571763,;CREBBP,downstream_gene_variant,,ENST00000576720,;	A	ENSG00000005339	ENST00000262367	Transcript	missense_variant	5800	4990	1664	R/C	Cgc/Tgc	COSM417011	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	unknown(0)	30/31	.	hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R1664C|c.4990C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCGCGCCCAT	.	5	BLCA
CCDC135	0	.	GRCh37	16	57755576	57755576	+	Intron	SNP	C	C	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1207-3C>T	.	.	ENST00000360716	.	109	79	30	149	149	0	CCDC135,splice_region_variant,,ENST00000336825,;CCDC135,splice_region_variant,,ENST00000360716,;CCDC135,splice_region_variant,,ENST00000394337,;CCDC135,upstream_gene_variant,,ENST00000562250,;CCDC135,upstream_gene_variant,,ENST00000565609,;	T	ENSG00000159625	ENST00000360716	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CCDC135	HGNC	25289	protein_coding	YES	CCDS10787.1	ENSP00000353942	CC135_HUMAN	H3BRX1_HUMAN,H3BQY5_HUMAN	UPI00001AEB68	.	.	.	.	9/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CCCATCAGGGC	.	2	BLCA
CCDC135	0	.	GRCh37	16	57755605	57755605	+	Missense_Mutation	SNP	C	C	A	rs749432283	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1233C>A	p.Phe411Leu	p.F411L	ENST00000360716	10/19	100	72	28	135	135	0	CCDC135,missense_variant,p.Phe346Leu,ENST00000336825,;CCDC135,missense_variant,p.Phe411Leu,ENST00000360716,;CCDC135,missense_variant,p.Phe411Leu,ENST00000394337,;CCDC135,coding_sequence_variant,p.%3D,ENST00000562250,;CCDC135,upstream_gene_variant,,ENST00000565609,;	A	ENSG00000159625	ENST00000360716	Transcript	missense_variant	1454	1233	411	F/L	ttC/ttA	rs749432283,COSM416961	.	.	1	CCDC135	HGNC	25289	protein_coding	YES	CCDS10787.1	ENSP00000353942	CC135_HUMAN	H3BRX1_HUMAN,H3BQY5_HUMAN	UPI00001AEB68	.	tolerated(0.23)	benign(0.16)	10/19	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCTTCGACAT	byFrequency	3	BLCA
CAPN15	0	.	GRCh37	16	601635	601635	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2316C>T	p.%3D	p.V772V	ENST00000219611	9/14	94	61	33	111	111	0	CAPN15,synonymous_variant,p.%3D,ENST00000219611,;CAPN15,downstream_gene_variant,,ENST00000568988,;CAPN15,downstream_gene_variant,,ENST00000562370,;CAPN15,upstream_gene_variant,,ENST00000566977,;LA16c-366D1.3,intron_variant,,ENST00000565879,;CAPN15,upstream_gene_variant,,ENST00000565010,;	T	ENSG00000103326	ENST00000219611	Transcript	synonymous_variant	2679	2316	772	V	gtC/gtT	COSM416951	.	.	1	CAPN15	HGNC	11182	protein_coding	YES	CCDS10410.1	ENSP00000219611	CAN15_HUMAN	H3BR03_HUMAN	UPI0000071B68	.	.	.	9/14	.	PROSITE_profiles:PS50203,hmmpanther:PTHR10183:SF279,hmmpanther:PTHR10183,Gene3D:3.90.70.10,Pfam_domain:PF00648,SMART_domains:SM00230,Superfamily_domains:SSF54001,Prints_domain:PR00704	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTCTTCTG	.	5	BLCA
CDH3	0	.	GRCh37	16	68718667	68718667	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1364C>T	p.Thr455Ile	p.T455I	ENST00000264012	10/16	293	229	64	275	275	0	CDH3,missense_variant,p.Thr455Ile,ENST00000429102,;CDH3,missense_variant,p.Thr455Ile,ENST00000264012,;CDH3,missense_variant,p.Thr400Ile,ENST00000581171,;CDH3,3_prime_UTR_variant,,ENST00000542274,;CDH3,downstream_gene_variant,,ENST00000569036,;CDH3,upstream_gene_variant,,ENST00000567674,;CDH3,downstream_gene_variant,,ENST00000566808,;HSPE1P5,upstream_gene_variant,,ENST00000561489,;	T	ENSG00000062038	ENST00000264012	Transcript	missense_variant	1908	1364	455	T/I	aCt/aTt	COSM417307	.	.	1	CDH3	HGNC	1762	protein_coding	YES	CCDS10868.1	ENSP00000264012	CADH3_HUMAN	J3KTE9_HUMAN	UPI0000161BFF	.	tolerated(0.21)	benign(0.002)	10/16	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF267,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCACTGGGG	.	5	BLCA
GSE1	0	.	GRCh37	16	85689517	85689517	+	Missense_Mutation	SNP	C	C	T	rs199993964	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.983C>T	p.Ala328Val	p.A328V	ENST00000253458	6/16	34	25	8	36	36	0	GSE1,missense_variant,p.Ala328Val,ENST00000253458,;GSE1,missense_variant,p.Ala224Val,ENST00000405402,;GSE1,missense_variant,p.Ala135Val,ENST00000412692,;GSE1,missense_variant,p.Ala255Val,ENST00000393243,;GSE1,downstream_gene_variant,,ENST00000411612,;RN7SL381P,upstream_gene_variant,,ENST00000577658,;	T	ENSG00000131149	ENST00000253458	Transcript	missense_variant	1159	983	328	A/V	gCg/gTg	rs199993964,COSM417240	.	.	1	GSE1	HGNC	28979	protein_coding	YES	CCDS10952.1	ENSP00000253458	GSE1_HUMAN	C9JLW9_HUMAN	UPI0000185F04	.	deleterious(0.01)	unknown(0)	6/16	.	hmmpanther:PTHR17608:SF3,hmmpanther:PTHR17608,Coiled-coils_(Ncoils):Coil	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCGCGGAGA	byFrequency|byCluster|by1000G	5	BLCA
KLHDC4	0	.	GRCh37	16	87743101	87743101	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1217G>T	p.Gly406Val	p.G406V	ENST00000270583	10/12	77	58	19	92	92	0	KLHDC4,missense_variant,p.Gly349Val,ENST00000353170,;KLHDC4,missense_variant,p.Gly406Val,ENST00000270583,;KLHDC4,missense_variant,p.Gly316Val,ENST00000562261,;KLHDC4,missense_variant,p.Gly375Val,ENST00000347925,;FLJ00104,upstream_gene_variant,,ENST00000446344,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000566349,;KLHDC4,intron_variant,,ENST00000316853,;KLHDC4,upstream_gene_variant,,ENST00000568499,;KLHDC4,downstream_gene_variant,,ENST00000567513,;KLHDC4,missense_variant,p.Gly406Val,ENST00000567298,;KLHDC4,3_prime_UTR_variant,,ENST00000562155,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000569487,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000566661,;KLHDC4,downstream_gene_variant,,ENST00000562913,;	A	ENSG00000104731	ENST00000270583	Transcript	missense_variant	1276	1217	406	G/V	gGc/gTc	COSM417232	.	.	-1	KLHDC4	HGNC	25272	protein_coding	YES	CCDS10963.1	ENSP00000270583	KLDC4_HUMAN	.	UPI00000705D4	.	tolerated(0.18)	benign(0.032)	10/12	.	hmmpanther:PTHR23244:SF283,hmmpanther:PTHR23244	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAGCCTGGC	.	5	BLCA
TCF25	0	.	GRCh37	16	89977011	89977011	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1812C>G	p.Ile604Met	p.I604M	ENST00000263346	17/18	127	104	22	152	152	0	TCF25,missense_variant,p.Gln409Glu,ENST00000263347,;TCF25,missense_variant,p.Ile604Met,ENST00000263346,;TCF25,missense_variant,p.Gln506Glu,ENST00000562256,;TCF25,missense_variant,p.Gln53Glu,ENST00000566283,;MC1R,upstream_gene_variant,,ENST00000555427,;TCF25,non_coding_transcript_exon_variant,,ENST00000564957,;TCF25,non_coding_transcript_exon_variant,,ENST00000565860,;TCF25,non_coding_transcript_exon_variant,,ENST00000567171,;RP11-566K11.7,non_coding_transcript_exon_variant,,ENST00000570217,;TCF25,non_coding_transcript_exon_variant,,ENST00000570116,;TCF25,downstream_gene_variant,,ENST00000563484,;MC1R,upstream_gene_variant,,ENST00000539976,;	G	ENSG00000141002	ENST00000263346	Transcript	missense_variant	1868	1812	604	I/M	atC/atG	COSM388492	.	.	1	TCF25	HGNC	29181	protein_coding	YES	CCDS10987.1	ENSP00000263346	TCF25_HUMAN	.	UPI000012A80B	.	tolerated(0.2)	benign(0.012)	17/18	.	hmmpanther:PTHR22684:SF0,hmmpanther:PTHR22684	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTATCAGCCA	.	5	BLCA
MYH1	0	.	GRCh37	17	10419637	10419637	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227A>C	p.Gln76Pro	p.Q76P	ENST00000226207	4/40	307	249	58	334	334	0	MYH1,missense_variant,p.Gln76Pro,ENST00000226207,;MYH2,downstream_gene_variant,,ENST00000245503,;MYH2,downstream_gene_variant,,ENST00000532183,;MYH2,downstream_gene_variant,,ENST00000397183,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;	G	ENSG00000109061	ENST00000226207	Transcript	missense_variant	322	227	76	Q/P	cAa/cCa	COSM417200	.	.	-1	MYH1	HGNC	7567	protein_coding	YES	CCDS11155.1	ENSP00000226207	MYH1_HUMAN	.	UPI000013C891	.	deleterious(0.02)	possibly_damaging(0.823)	4/40	.	hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF264,Pfam_domain:PF02736,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTTGGTCA	.	5	BLCA
MYH2	0	.	GRCh37	17	10442618	10442618	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1320G>A	p.%3D	p.L440L	ENST00000245503	14/40	310	261	48	272	272	0	MYH2,synonymous_variant,p.%3D,ENST00000245503,;MYH2,synonymous_variant,p.%3D,ENST00000532183,;MYH2,synonymous_variant,p.%3D,ENST00000397183,;MYH2,downstream_gene_variant,,ENST00000578017,;MYH2,downstream_gene_variant,,ENST00000420805,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,downstream_gene_variant,,ENST00000399342,;RP11-799N11.1,downstream_gene_variant,,ENST00000581304,;	T	ENSG00000125414	ENST00000245503	Transcript	synonymous_variant	1705	1320	440	L	ctG/ctA	COSM417197	.	.	-1	MYH2	HGNC	7572	protein_coding	YES	CCDS11156.1	ENSP00000245503	MYH2_HUMAN	J3QLR0_HUMAN,E7EX84_HUMAN,C9JIX4_HUMAN	UPI000012FB6C	.	.	.	14/40	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,Pfam_domain:PF00063,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF314,PROSITE_profiles:PS51456	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCCACAGGAA	.	4	BLCA
SGSM2	0	.	GRCh37	17	2265472	2265472	+	Silent	SNP	C	C	T	rs113450178	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366C>T	p.%3D	p.L122L	ENST00000268989	4/24	248	133	114	236	236	0	SGSM2,synonymous_variant,p.%3D,ENST00000268989,;SGSM2,synonymous_variant,p.%3D,ENST00000426855,;SGSM2,synonymous_variant,p.%3D,ENST00000574563,;SGSM2,synonymous_variant,p.%3D,ENST00000574650,;SGSM2,upstream_gene_variant,,ENST00000570431,;SGSM2,synonymous_variant,p.%3D,ENST00000573062,;SGSM2,upstream_gene_variant,,ENST00000575367,;SGSM2,upstream_gene_variant,,ENST00000574857,;SGSM2,downstream_gene_variant,,ENST00000572875,;	T	ENSG00000141258	ENST00000268989	Transcript	synonymous_variant	543	366	122	L	ctC/ctT	rs113450178,COSM417651	.	.	1	SGSM2	HGNC	29026	protein_coding	YES	CCDS32526.1	ENSP00000268989	SGSM2_HUMAN	I3L1Y7_HUMAN	UPI0000160300	.	.	.	4/24	.	PROSITE_profiles:PS50826,Pfam_domain:PF02759	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0007	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCAGCCC	byFrequency|byCluster|by1000G	5	BLCA
ZNF207	0	.	GRCh37	17	30685544	30685544	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.191C>G	p.Ala64Gly	p.A64G	ENST00000394670	3/12	120	93	26	94	94	0	ZNF207,missense_variant,p.Ala10Gly,ENST00000582165,;ZNF207,missense_variant,p.Ala64Gly,ENST00000394670,;ZNF207,missense_variant,p.Ala64Gly,ENST00000577908,;ZNF207,missense_variant,p.Ala10Gly,ENST00000394679,;ZNF207,missense_variant,p.Ala10Gly,ENST00000580759,;ZNF207,missense_variant,p.Ala64Gly,ENST00000321233,;ZNF207,missense_variant,p.Ala64Gly,ENST00000394673,;ZNF207,missense_variant,p.Ala10Gly,ENST00000579634,;ZNF207,missense_variant,p.Ala67Gly,ENST00000342555,;ZNF207,missense_variant,p.Ala10Gly,ENST00000578918,;ZNF207,intron_variant,,ENST00000341711,;RP11-227G15.3,non_coding_transcript_exon_variant,,ENST00000578389,;RP11-227G15.3,non_coding_transcript_exon_variant,,ENST00000581915,;ZNF207,non_coding_transcript_exon_variant,,ENST00000577324,;ZNF207,upstream_gene_variant,,ENST00000582705,;ZNF207,upstream_gene_variant,,ENST00000579416,;ZNF207,upstream_gene_variant,,ENST00000581531,;	G	ENSG00000010244	ENST00000394670	Transcript	missense_variant	360	191	64	A/G	gCc/gGc	COSM417601	.	.	1	ZNF207	HGNC	12998	protein_coding	YES	CCDS42294.1	ENSP00000378165	ZN207_HUMAN	Q8N395_HUMAN,J3QS27_HUMAN,J3KTL1_HUMAN,J3KRW6_HUMAN,J3KRB6_HUMAN,H0Y3M2_HUMAN	UPI000020164D	.	tolerated(0.33)	possibly_damaging(0.866)	3/12	.	hmmpanther:PTHR23215	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATGCCGTAC	.	5	BLCA
KRTAP4-9	0	.	GRCh37	17	39261650	39261650	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10T>C	p.Ser4Pro	p.S4P	ENST00000391415	1/1	49	35	13	40	40	0	KRTAP4-9,missense_variant,p.Ser4Pro,ENST00000391415,;KRTAP4-16P,upstream_gene_variant,,ENST00000440582,;	C	ENSG00000212722	ENST00000391415	Transcript	missense_variant	67	10	4	S/P	Tcc/Ccc	COSM417542	.	.	1	KRTAP4-9	HGNC	18910	protein_coding	YES	CCDS54124.1	ENSP00000375234	KRA49_HUMAN	.	UPI000021D2D3	.	deleterious(0)	unknown(0)	1/1	.	hmmpanther:PTHR23262:SF1,hmmpanther:PTHR23262,Pfam_domain:PF01500	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGCTCCTGT	.	2	BLCA
EZH1	0	.	GRCh37	17	40870014	40870014	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1003A>G	p.Thr335Ala	p.T335A	ENST00000428826	10/21	79	65	13	56	56	0	EZH1,missense_variant,p.Thr286Ala,ENST00000586382,;EZH1,missense_variant,p.Thr335Ala,ENST00000592743,;EZH1,missense_variant,p.Thr265Ala,ENST00000590078,;EZH1,missense_variant,p.Thr295Ala,ENST00000585893,;EZH1,missense_variant,p.Thr335Ala,ENST00000428826,;EZH1,missense_variant,p.Thr196Ala,ENST00000435174,;EZH1,missense_variant,p.Thr326Ala,ENST00000415827,;EZH1,downstream_gene_variant,,ENST00000586089,;EZH1,downstream_gene_variant,,ENST00000593214,;EZH1,3_prime_UTR_variant,,ENST00000588239,;EZH1,3_prime_UTR_variant,,ENST00000588897,;EZH1,3_prime_UTR_variant,,ENST00000586867,;EZH1,non_coding_transcript_exon_variant,,ENST00000586103,;EZH1,non_coding_transcript_exon_variant,,ENST00000591330,;EZH1,non_coding_transcript_exon_variant,,ENST00000585912,;EZH1,intron_variant,,ENST00000585550,;EZH1,intron_variant,,ENST00000586935,;EZH1,downstream_gene_variant,,ENST00000593148,;EZH1,downstream_gene_variant,,ENST00000587179,;CTD-3193K9.1,downstream_gene_variant,,ENST00000479088,;	C	ENSG00000108799	ENST00000428826	Transcript	missense_variant	1125	1003	335	T/A	Aca/Gca	COSM417508	.	.	-1	EZH1	HGNC	3526	protein_coding	YES	CCDS32659.1	ENSP00000404658	EZH1_HUMAN	K7EPC0_HUMAN,K7EK66_HUMAN	UPI000012A3BA	.	tolerated(0.76)	benign(0)	10/21	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF314	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTGTGCCAC	.	5	BLCA
PLCD3	0	.	GRCh37	17	43195396	43195396	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>A	p.Asp409Asn	p.D409N	ENST00000322765	7/16	46	38	8	61	61	0	PLCD3,missense_variant,p.Asp409Asn,ENST00000322765,;PLCD3,upstream_gene_variant,,ENST00000539433,;PLCD3,downstream_gene_variant,,ENST00000538093,;PLCD3,downstream_gene_variant,,ENST00000590644,;PLCD3,downstream_gene_variant,,ENST00000538988,;PLCD3,non_coding_transcript_exon_variant,,ENST00000540511,;PLCD3,downstream_gene_variant,,ENST00000544446,;PLCD3,upstream_gene_variant,,ENST00000543623,;PLCD3,upstream_gene_variant,,ENST00000545702,;PLCD3,upstream_gene_variant,,ENST00000544333,;PLCD3,downstream_gene_variant,,ENST00000546350,;PLCD3,upstream_gene_variant,,ENST00000412978,;PLCD3,downstream_gene_variant,,ENST00000542173,;	T	ENSG00000161714	ENST00000322765	Transcript	missense_variant	1339	1225	409	D/N	Gac/Aac	COSM417490,COSM417491	.	.	-1	PLCD3	HGNC	9061	protein_coding	YES	.	ENSP00000313731	PLCD3_HUMAN	.	UPI00015DFB4E	.	deleterious(0.02)	probably_damaging(1)	7/16	.	Superfamily_domains:SSF51695,SMART_domains:SM00148,Pfam_domain:PF00388,Gene3D:3.20.20.190,hmmpanther:PTHR10336:SF33,hmmpanther:PTHR10336,PROSITE_profiles:PS50007	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGTCCCGGA	.	5	BLCA
C17orf107	0	.	GRCh37	17	4804616	4804616	+	3'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*788G>A	.	.	ENST00000381365	3/3	16	12	4	13	13	0	C17orf107,3_prime_UTR_variant,,ENST00000381365,;CHRNE,intron_variant,,ENST00000293780,;C17orf107,downstream_gene_variant,,ENST00000521575,;MINK1,downstream_gene_variant,,ENST00000355280,;MINK1,downstream_gene_variant,,ENST00000347992,;MINK1,downstream_gene_variant,,ENST00000576037,;MINK1,downstream_gene_variant,,ENST00000453408,;CHRNE,intron_variant,,ENST00000575637,;CHRNE,intron_variant,,ENST00000572438,;MINK1,downstream_gene_variant,,ENST00000572330,;MINK1,downstream_gene_variant,,ENST00000574453,;MINK1,downstream_gene_variant,,ENST00000571207,;MINK1,downstream_gene_variant,,ENST00000574871,;	A	ENSG00000205710	ENST00000381365	Transcript	3_prime_UTR_variant	1588	.	.	.	.	.	.	.	1	C17orf107	HGNC	37238	protein_coding	YES	CCDS45591.1	ENSP00000370770	CQ107_HUMAN	.	UPI00001C0FE1	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACAGAAAAG	.	5	BLCA
PDK2	0	.	GRCh37	17	48174834	48174834	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>C	p.Glu56Gln	p.E56Q	ENST00000503176	2/11	108	68	39	104	104	0	PDK2,missense_variant,p.Glu56Gln,ENST00000503176,;PDK2,5_prime_UTR_variant,,ENST00000508030,;PDK2,5_prime_UTR_variant,,ENST00000512238,;PDK2,5_prime_UTR_variant,,ENST00000007708,;PDK2,5_prime_UTR_variant,,ENST00000505440,;PDK2,5_prime_UTR_variant,,ENST00000503614,;RP5-875H18.4,downstream_gene_variant,,ENST00000511361,;PDK2,downstream_gene_variant,,ENST00000511026,;PDK2,non_coding_transcript_exon_variant,,ENST00000505897,;PDK2,non_coding_transcript_exon_variant,,ENST00000508960,;PDK2,upstream_gene_variant,,ENST00000515040,;	C	ENSG00000005882	ENST00000503176	Transcript	missense_variant	327	166	56	E/Q	Gag/Cag	COSM1750131,COSM417466	.	.	1	PDK2	HGNC	8810	protein_coding	YES	CCDS11559.1	ENSP00000420927	PDK2_HUMAN	D6RJH7_HUMAN,D6RHG2_HUMAN,D6RGV8_HUMAN,D6RDN9_HUMAN,D6R983_HUMAN	UPI000000D98D	.	deleterious(0.02)	possibly_damaging(0.794)	2/11	.	hmmpanther:PTHR11947:SF15,hmmpanther:PTHR11947,Pfam_domain:PF10436,Gene3D:1.20.140.20,Superfamily_domains:SSF69012	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCAGGAGCTG	.	5	BLCA
KIF2B	0	.	GRCh37	17	51901324	51901324	+	Silent	SNP	G	G	A	rs139246128	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930G>A	p.%3D	p.T310T	ENST00000268919	1/1	145	75	69	158	158	0	KIF2B,synonymous_variant,p.%3D,ENST00000268919,;	A	ENSG00000141200	ENST00000268919	Transcript	synonymous_variant	1086	930	310	T	acG/acA	rs139246128,COSM417441	.	.	1	KIF2B	HGNC	29443	protein_coding	YES	CCDS32685.1	ENSP00000268919	KIF2B_HUMAN	.	UPI000013D7E6	.	.	.	1/1	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF379,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540,Prints_domain:PR00380	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGACGTACAC	byCluster	5	BLCA
OR4D1	0	.	GRCh37	17	56233157	56233157	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643C>T	p.%3D	p.L215L	ENST00000268912	1/1	113	57	56	112	112	0	OR4D1,synonymous_variant,p.%3D,ENST00000268912,;MSX2P1,upstream_gene_variant,,ENST00000432896,;MSX2P1,upstream_gene_variant,,ENST00000584100,;	T	ENSG00000141194	ENST00000268912	Transcript	synonymous_variant	664	643	215	L	Ctg/Ttg	COSM417433	.	.	1	OR4D1	HGNC	8293	protein_coding	YES	CCDS42365.1	ENSP00000365451	OR4D1_HUMAN	.	UPI0000041E8C	.	.	.	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF315,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCTGATC	.	5	BLCA
TRIM37	0	.	GRCh37	17	57148206	57148206	+	Missense_Mutation	SNP	G	G	A	rs756060552	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787C>T	p.Pro263Ser	p.P263S	ENST00000262294	9/24	123	98	24	120	120	0	TRIM37,missense_variant,p.Pro137Ser,ENST00000581468,;TRIM37,missense_variant,p.Pro229Ser,ENST00000393065,;TRIM37,missense_variant,p.Pro263Ser,ENST00000393066,;TRIM37,missense_variant,p.Pro263Ser,ENST00000262294,;TRIM37,missense_variant,p.Pro141Ser,ENST00000376149,;TRIM37,3_prime_UTR_variant,,ENST00000577554,;TRIM37,non_coding_transcript_exon_variant,,ENST00000582852,;TRIM37,downstream_gene_variant,,ENST00000580973,;	A	ENSG00000108395	ENST00000262294	Transcript	missense_variant	1047	787	263	P/S	Cct/Tct	rs756060552,COSM417422	.	.	-1	TRIM37	HGNC	7523	protein_coding	YES	CCDS32694.1	ENSP00000262294	TRI37_HUMAN	B3KMU3_HUMAN,A8K0V9_HUMAN	UPI0000167B57	.	tolerated(0.07)	benign(0.04)	9/24	.	hmmpanther:PTHR24103:SF229,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGGAGTGG	byFrequency	5	BLCA
FAM104A	0	.	GRCh37	17	71204383	71204383	+	3'UTR	SNP	C	C	T	rs574563160	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1285G>A	.	.	ENST00000405159	4/4	72	34	37	46	46	0	FAM104A,3_prime_UTR_variant,,ENST00000403627,;COG1,3_prime_UTR_variant,,ENST00000438720,;FAM104A,3_prime_UTR_variant,,ENST00000405159,;COG1,intron_variant,,ENST00000582512,;COG1,intron_variant,,ENST00000299886,;FAM104A,downstream_gene_variant,,ENST00000583024,;FAM104A,downstream_gene_variant,,ENST00000580032,;FAM104A,downstream_gene_variant,,ENST00000579872,;FAM104A,downstream_gene_variant,,ENST00000581110,;COG1,downstream_gene_variant,,ENST00000582672,;FAM104A,downstream_gene_variant,,ENST00000583178,;COG1,intron_variant,,ENST00000582973,;COG1,downstream_gene_variant,,ENST00000577844,;COG1,downstream_gene_variant,,ENST00000577238,;COG1,downstream_gene_variant,,ENST00000580271,;	T	ENSG00000133193	ENST00000405159	Transcript	3_prime_UTR_variant	1974	.	.	.	.	rs574563160	.	.	-1	FAM104A	HGNC	25918	protein_coding	YES	CCDS45766.1	ENSP00000384832	F104A_HUMAN	J3KT35_HUMAN	UPI00005A9549	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCGTCGCGCG	byCluster	2	BLCA
EIF5A	0	.	GRCh37	17	7214697	7214697	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389C>A	p.Ser130Ter	p.S130*	ENST00000336452	4/6	166	139	26	132	132	0	EIF5A,stop_gained,p.Ser100Ter,ENST00000571955,;EIF5A,stop_gained,p.Ser100Ter,ENST00000336458,;EIF5A,stop_gained,p.Ser100Ter,ENST00000573542,;EIF5A,stop_gained,p.Ser100Ter,ENST00000576930,;EIF5A,stop_gained,p.Ser100Ter,ENST00000419711,;EIF5A,stop_gained,p.Ser130Ter,ENST00000336452,;EIF5A,stop_gained,p.Ser100Ter,ENST00000572815,;EIF5A,stop_gained,p.Ser100Ter,ENST00000573714,;EIF5A,stop_gained,p.Ser100Ter,ENST00000416016,;GPS2,3_prime_UTR_variant,,ENST00000570780,;GPS2,3_prime_UTR_variant,,ENST00000391950,;GPS2,downstream_gene_variant,,ENST00000574458,;NEURL4,downstream_gene_variant,,ENST00000570460,;GPS2,downstream_gene_variant,,ENST00000573684,;GPS2,downstream_gene_variant,,ENST00000380728,;NEURL4,downstream_gene_variant,,ENST00000315614,;GPS2,downstream_gene_variant,,ENST00000389167,;NEURL4,downstream_gene_variant,,ENST00000399464,;GPS2,downstream_gene_variant,,ENST00000577040,;RP11-542C16.2,downstream_gene_variant,,ENST00000315601,;GPS2,downstream_gene_variant,,ENST00000571695,;GPS2,downstream_gene_variant,,ENST00000573059,;EIF5A,downstream_gene_variant,,ENST00000575001,;NEURL4,downstream_gene_variant,,ENST00000573186,;NEURL4,downstream_gene_variant,,ENST00000572680,;GPS2,downstream_gene_variant,,ENST00000572172,;GPS2,downstream_gene_variant,,ENST00000572707,;EIF5A,downstream_gene_variant,,ENST00000355068,;GPS2,downstream_gene_variant,,ENST00000572363,;GPS2,downstream_gene_variant,,ENST00000574201,;RP11-542C16.2,downstream_gene_variant,,ENST00000575474,;GPS2,downstream_gene_variant,,ENST00000571569,;GPS2,downstream_gene_variant,,ENST00000571697,;GPS2,downstream_gene_variant,,ENST00000573807,;GPS2,downstream_gene_variant,,ENST00000571098,;	A	ENSG00000132507	ENST00000336452	Transcript	stop_gained	437	389	130	S/*	tCa/tAa	COSM417358,COSM1133506	.	.	1	EIF5A	HGNC	3300	protein_coding	YES	CCDS45601.1	ENSP00000336702	IF5A1_HUMAN	I3L397_HUMAN	UPI00001B5C0C	.	.	.	4/6	.	hmmpanther:PTHR11673:SF7,hmmpanther:PTHR11673,Pfam_domain:PF01287,Gene3D:2.40.50.140,TIGRFAM_domain:TIGR00037,PIRSF_domain:PIRSF003025,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTATCACTGC	.	4	BLCA
SYNGR2	0	.	GRCh37	17	76167700	76167700	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447C>T	p.%3D	p.I149I	ENST00000225777	3/4	89	59	29	68	68	0	SYNGR2,synonymous_variant,p.%3D,ENST00000225777,;SYNGR2,synonymous_variant,p.%3D,ENST00000585591,;SYNGR2,synonymous_variant,p.%3D,ENST00000588282,;SYNGR2,synonymous_variant,p.%3D,ENST00000590201,;SYNGR2,3_prime_UTR_variant,,ENST00000589711,;SYNGR2,intron_variant,,ENST00000589168,;TK1,downstream_gene_variant,,ENST00000590862,;TK1,downstream_gene_variant,,ENST00000586613,;TK1,downstream_gene_variant,,ENST00000590430,;TK1,downstream_gene_variant,,ENST00000405273,;TK1,downstream_gene_variant,,ENST00000301634,;TK1,downstream_gene_variant,,ENST00000588734,;SYNGR2,non_coding_transcript_exon_variant,,ENST00000592456,;SYNGR2,intron_variant,,ENST00000589183,;SYNGR2,downstream_gene_variant,,ENST00000591770,;TK1,downstream_gene_variant,,ENST00000592126,;	T	ENSG00000108639	ENST00000225777	Transcript	synonymous_variant	506	447	149	I	atC/atT	COSM417956	.	.	1	SYNGR2	HGNC	11499	protein_coding	YES	CCDS11753.1	ENSP00000225777	SNG2_HUMAN	K7EJ35_HUMAN	UPI00000012DD	.	.	.	3/4	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS51225,hmmpanther:PTHR10838,hmmpanther:PTHR10838:SF19,Pfam_domain:PF01284,PIRSF_domain:PIRSF011282	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCACCTT	.	5	BLCA
BIRC5	0	.	GRCh37	17	76219552	76219552	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415G>A	p.Glu139Lys	p.E139K	ENST00000301633	5/5	68	43	25	73	72	0	BIRC5,missense_variant,p.Glu139Lys,ENST00000301633,;AC087645.1,missense_variant,p.Ser243Phe,ENST00000600484,;BIRC5,missense_variant,p.Glu116Lys,ENST00000350051,;BIRC5,synonymous_variant,p.%3D,ENST00000374948,;BIRC5,downstream_gene_variant,,ENST00000592734,;BIRC5,downstream_gene_variant,,ENST00000587746,;BIRC5,non_coding_transcript_exon_variant,,ENST00000589892,;BIRC5,3_prime_UTR_variant,,ENST00000590925,;BIRC5,downstream_gene_variant,,ENST00000592115,;BIRC5,downstream_gene_variant,,ENST00000586192,;BIRC5,downstream_gene_variant,,ENST00000591800,;	A	ENSG00000089685	ENST00000301633	Transcript	missense_variant	546	415	139	E/K	Gaa/Aaa	COSM417951,COSM1133510,COSM1133511	.	.	1	BIRC5	HGNC	593	protein_coding	YES	CCDS32752.1	ENSP00000301633	.	H3BLT4_HUMAN	UPI000013F77A	.	tolerated(0.78)	possibly_damaging(0.671)	5/5	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10044:SF88,hmmpanther:PTHR10044,Gene3D:1.10.1170.10,Superfamily_domains:SSF57924	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAAGGAAACC	.	5	BLCA
DNAH2	0	.	GRCh37	17	7702000	7702000	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8523G>A	p.%3D	p.E2841E	ENST00000572933	55/86	160	77	83	142	142	0	DNAH2,synonymous_variant,p.%3D,ENST00000389173,;DNAH2,synonymous_variant,p.%3D,ENST00000572933,;	A	ENSG00000183914	ENST00000572933	Transcript	synonymous_variant	9983	8523	2841	E	gaG/gaA	COSM417947	.	.	1	DNAH2	HGNC	2948	protein_coding	YES	CCDS32551.1	ENSP00000458355	DYH2_HUMAN	.	UPI00005B2F0D	.	.	.	55/86	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF183,Gene3D:3.40.50.300,Pfam_domain:PF12780,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGAGGTGCC	.	5	BLCA
RPL26	0	.	GRCh37	17	8285553	8285553	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76C>G	p.Arg26Gly	p.R26G	ENST00000584164	2/4	111	95	16	93	93	0	RPL26,missense_variant,p.Arg26Gly,ENST00000582485,;RPL26,missense_variant,p.Arg26Gly,ENST00000584164,;RPL26,missense_variant,p.Arg26Gly,ENST00000293842,;RPL26,missense_variant,p.Arg26Gly,ENST00000583011,;RPL26,missense_variant,p.Arg26Gly,ENST00000582556,;RPL26,missense_variant,p.Arg26Gly,ENST00000583515,;RPL26,missense_variant,p.Arg26Gly,ENST00000584343,;RPL26,missense_variant,p.Arg26Gly,ENST00000578812,;RPL26,upstream_gene_variant,,ENST00000584441,;RP11-849F2.5,downstream_gene_variant,,ENST00000579904,;RP11-849F2.5,downstream_gene_variant,,ENST00000585181,;RPL26,intron_variant,,ENST00000585176,;RP11-849F2.7,missense_variant,p.Arg26Gly,ENST00000582471,;RPL26,missense_variant,p.Arg26Gly,ENST00000584906,;RPL26,non_coding_transcript_exon_variant,,ENST00000578115,;RPL26,upstream_gene_variant,,ENST00000578069,;	C	ENSG00000161970	ENST00000584164	Transcript	missense_variant	468	76	26	R/G	Cga/Gga	COSM417897	.	.	-1	RPL26	HGNC	10327	protein_coding	YES	CCDS11142.1	ENSP00000463784	RL26_HUMAN	J3QRI7_HUMAN,J3KTJ8_HUMAN	UPI0000001689	.	deleterious(0.03)	probably_damaging(0.974)	2/4	.	HAMAP:MF_01326_A,hmmpanther:PTHR11143,TIGRFAM_domain:TIGR01080,Gene3D:2.30.30.30,Superfamily_domains:SSF50104	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTCGAATGT	.	5	BLCA
TMEM241	0	.	GRCh37	18	20877820	20877820	+	3'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*151C>T	.	.	ENST00000383233	15/15	15	11	4	14	14	0	TMEM241,3_prime_UTR_variant,,ENST00000383233,;TMEM241,intron_variant,,ENST00000450466,;TMEM241,downstream_gene_variant,,ENST00000542162,;TMEM241,non_coding_transcript_exon_variant,,ENST00000475185,;TMEM241,intron_variant,,ENST00000578790,;TMEM241,downstream_gene_variant,,ENST00000577448,;TMEM241,3_prime_UTR_variant,,ENST00000473688,;TMEM241,3_prime_UTR_variant,,ENST00000477053,;TMEM241,intron_variant,,ENST00000581444,;TMEM241,intron_variant,,ENST00000583048,;TMEM241,downstream_gene_variant,,ENST00000460322,;	A	ENSG00000134490	ENST00000383233	Transcript	3_prime_UTR_variant	1095	.	.	.	.	.	.	.	-1	TMEM241	HGNC	31723	protein_coding	YES	CCDS11876.2	ENSP00000372720	TM241_HUMAN	.	UPI000022A6E0	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGTGAGGGT	.	4	BLCA
TMEM241	0	.	GRCh37	18	20877826	20877826	+	3'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*145C>T	.	.	ENST00000383233	15/15	15	11	4	15	15	0	TMEM241,3_prime_UTR_variant,,ENST00000383233,;TMEM241,intron_variant,,ENST00000450466,;TMEM241,downstream_gene_variant,,ENST00000542162,;TMEM241,non_coding_transcript_exon_variant,,ENST00000475185,;TMEM241,intron_variant,,ENST00000578790,;TMEM241,downstream_gene_variant,,ENST00000577448,;TMEM241,3_prime_UTR_variant,,ENST00000473688,;TMEM241,3_prime_UTR_variant,,ENST00000477053,;TMEM241,intron_variant,,ENST00000581444,;TMEM241,intron_variant,,ENST00000583048,;TMEM241,downstream_gene_variant,,ENST00000460322,;	A	ENSG00000134490	ENST00000383233	Transcript	3_prime_UTR_variant	1089	.	.	.	.	.	.	.	-1	TMEM241	HGNC	31723	protein_coding	YES	CCDS11876.2	ENSP00000372720	TM241_HUMAN	.	UPI000022A6E0	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGGTGATGGC	.	3	BLCA
TMEM241	0	.	GRCh37	18	20877894	20877894	+	3'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*77C>T	.	.	ENST00000383233	15/15	40	28	11	59	59	0	TMEM241,3_prime_UTR_variant,,ENST00000383233,;TMEM241,intron_variant,,ENST00000450466,;TMEM241,downstream_gene_variant,,ENST00000542162,;TMEM241,non_coding_transcript_exon_variant,,ENST00000577448,;TMEM241,non_coding_transcript_exon_variant,,ENST00000475185,;TMEM241,intron_variant,,ENST00000578790,;TMEM241,3_prime_UTR_variant,,ENST00000473688,;TMEM241,3_prime_UTR_variant,,ENST00000460322,;TMEM241,3_prime_UTR_variant,,ENST00000477053,;TMEM241,non_coding_transcript_exon_variant,,ENST00000583048,;TMEM241,intron_variant,,ENST00000581444,;	A	ENSG00000134490	ENST00000383233	Transcript	3_prime_UTR_variant	1021	.	.	.	.	.	.	.	-1	TMEM241	HGNC	31723	protein_coding	YES	CCDS11876.2	ENSP00000372720	TM241_HUMAN	.	UPI000022A6E0	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATGAGACC	.	5	BLCA
TPGS2	0	.	GRCh37	18	34387820	34387820	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243G>A	p.%3D	p.V81V	ENST00000334295	3/7	106	72	34	117	117	0	TPGS2,synonymous_variant,p.%3D,ENST00000589049,;TPGS2,synonymous_variant,p.%3D,ENST00000590842,;TPGS2,synonymous_variant,p.%3D,ENST00000334295,;TPGS2,synonymous_variant,p.%3D,ENST00000587382,;TPGS2,synonymous_variant,p.%3D,ENST00000590337,;TPGS2,synonymous_variant,p.%3D,ENST00000587129,;TPGS2,synonymous_variant,p.%3D,ENST00000593035,;TPGS2,synonymous_variant,p.%3D,ENST00000383056,;TPGS2,synonymous_variant,p.%3D,ENST00000591906,;TPGS2,non_coding_transcript_exon_variant,,ENST00000590500,;TPGS2,3_prime_UTR_variant,,ENST00000591823,;TPGS2,3_prime_UTR_variant,,ENST00000587207,;TPGS2,3_prime_UTR_variant,,ENST00000590692,;TPGS2,3_prime_UTR_variant,,ENST00000585635,;TPGS2,non_coding_transcript_exon_variant,,ENST00000587511,;	T	ENSG00000134779	ENST00000334295	Transcript	synonymous_variant	671	243	81	V	gtG/gtA	COSM417847	.	.	-1	TPGS2	HGNC	24561	protein_coding	YES	CCDS32817.1	ENSP00000335144	TPGS2_HUMAN	.	UPI0000201C11	.	.	.	3/7	.	Superfamily_domains:SSF160631,SMART_domains:SM00860,hmmpanther:PTHR31854	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTCACACT	.	5	BLCA
CELF4	0	.	GRCh37	18	34839222	34839222	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1255G>C	p.Glu419Gln	p.E419Q	ENST00000420428	11/13	39	29	10	60	60	0	CELF4,missense_variant,p.Glu419Gln,ENST00000420428,;CELF4,missense_variant,p.Glu107Gln,ENST00000587657,;CELF4,missense_variant,p.Glu108Gln,ENST00000589386,;CELF4,missense_variant,p.Glu417Gln,ENST00000361795,;CELF4,missense_variant,p.Glu407Gln,ENST00000588597,;CELF4,missense_variant,p.Glu418Gln,ENST00000412753,;CELF4,missense_variant,p.Glu418Gln,ENST00000603232,;CELF4,missense_variant,p.Glu419Gln,ENST00000591282,;CELF4,missense_variant,p.Glu417Gln,ENST00000591287,;CELF4,missense_variant,p.Glu417Gln,ENST00000601019,;CELF4,intron_variant,,ENST00000593271,;CELF4,intron_variant,,ENST00000586009,;CELF4,intron_variant,,ENST00000334919,;CELF4,intron_variant,,ENST00000587911,;CELF4,intron_variant,,ENST00000588591,;CELF4,3_prime_UTR_variant,,ENST00000590112,;	G	ENSG00000101489	ENST00000420428	Transcript	missense_variant	1651	1255	419	E/Q	Gag/Cag	COSM417846	.	.	-1	CELF4	HGNC	14015	protein_coding	YES	CCDS32818.1	ENSP00000410584	CELF4_HUMAN	K7EJK3_HUMAN	UPI00000726FC	.	deleterious(0.02)	benign(0.262)	11/13	.	hmmpanther:PTHR24622,hmmpanther:PTHR24622:SF181,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGGGCC	.	4	BLCA
BTBD2	0	.	GRCh37	19	1986426	1986426	+	3'UTR	SNP	G	G	C	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61C>G	.	.	ENST00000255608	9/9	59	46	13	62	62	0	BTBD2,3_prime_UTR_variant,,ENST00000255608,;BTBD2,downstream_gene_variant,,ENST00000587825,;AC005306.3,upstream_gene_variant,,ENST00000587498,;AC005306.3,upstream_gene_variant,,ENST00000588480,;BTBD2,downstream_gene_variant,,ENST00000592082,;BTBD2,non_coding_transcript_exon_variant,,ENST00000592895,;BTBD2,non_coding_transcript_exon_variant,,ENST00000589685,;BTBD2,downstream_gene_variant,,ENST00000589200,;BTBD2,downstream_gene_variant,,ENST00000587225,;	C	ENSG00000133243	ENST00000255608	Transcript	3_prime_UTR_variant	1656	.	.	.	.	.	.	.	-1	BTBD2	HGNC	15504	protein_coding	YES	CCDS12078.1	ENSP00000255608	BTBD2_HUMAN	Q6NT96_HUMAN	UPI0000126B02	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCAGATGAT	.	2	BLCA
KMT2B	0	.	GRCh37	19	36221009	36221009	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5059G>A	p.Asp1687Asn	p.D1687N	ENST00000222270	23/37	31	21	9	39	38	1	KMT2B,missense_variant,p.Asp1687Asn,ENST00000420124,;KMT2B,missense_variant,p.Asp1687Asn,ENST00000222270,;KMT2B,non_coding_transcript_exon_variant,,ENST00000607650,;KMT2B,upstream_gene_variant,,ENST00000592092,;	A	ENSG00000272333	ENST00000222270	Transcript	missense_variant	5059	5059	1687	D/N	Gat/Aat	COSM418318	.	.	1	KMT2B	Uniprot_gn	15840	protein_coding	YES	CCDS46055.1	ENSP00000222270	KMT2B_HUMAN	.	UPI00001376B5	.	.	probably_damaging(0.932)	23/37	.	hmmpanther:PTHR22884:SF280,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACACTGATCTC	.	4	BLCA
ZNF790	0	.	GRCh37	19	37310567	37310567	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.679G>C	p.Glu227Gln	p.E227Q	ENST00000356725	5/5	83	55	27	86	86	0	ZNF790,missense_variant,p.Glu227Gln,ENST00000356725,;ZNF790,downstream_gene_variant,,ENST00000586323,;ZNF790,downstream_gene_variant,,ENST00000528994,;ZNF790,downstream_gene_variant,,ENST00000527645,;ZNF790,downstream_gene_variant,,ENST00000525288,;CTD-2162K18.5,intron_variant,,ENST00000588906,;CTD-2162K18.5,intron_variant,,ENST00000587278,;	G	ENSG00000197863	ENST00000356725	Transcript	missense_variant	800	679	227	E/Q	Gaa/Caa	COSM418300	.	.	-1	ZNF790	HGNC	33114	protein_coding	YES	CCDS12496.1	ENSP00000349161	ZN790_HUMAN	K7EQ58_HUMAN,E9PRR6_HUMAN,E9PQ03_HUMAN,E9PL27_HUMAN	UPI0000160EF0	.	tolerated(0.12)	benign(0.058)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF224,hmmpanther:PTHR24377,Gene3D:3.30.160.60,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCATATG	.	5	BLCA
CREB3L3	0	.	GRCh37	19	4168351	4168351	+	Missense_Mutation	SNP	G	G	A	rs778428363	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718G>A	p.Glu240Lys	p.E240K	ENST00000078445	6/10	59	45	14	82	82	0	CREB3L3,missense_variant,p.Glu240Lys,ENST00000078445,;CREB3L3,missense_variant,p.Glu180Lys,ENST00000252587,;CREB3L3,missense_variant,p.Glu238Lys,ENST00000602257,;CREB3L3,missense_variant,p.Glu239Lys,ENST00000595923,;CREB3L3,intron_variant,,ENST00000602147,;CREB3L3,non_coding_transcript_exon_variant,,ENST00000598894,;	A	ENSG00000060566	ENST00000078445	Transcript	missense_variant	865	718	240	E/K	Gag/Aag	rs778428363,CM115358,COSM418232	.	.	1	CREB3L3	HGNC	18855	protein_coding	YES	CCDS12121.1	ENSP00000078445	CR3L3_HUMAN	.	UPI000006FCF0	.	deleterious(0)	probably_damaging(0.996)	6/10	.	hmmpanther:PTHR22952,hmmpanther:PTHR22952:SF98	.	.	.	.	.	.	.	.	.	.	0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGTACGAGGAG	byFrequency	2	BLCA
CREB3L3	0	.	GRCh37	19	4168358	4168358	+	Missense_Mutation	SNP	G	G	A	rs772368818	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725G>A	p.Arg242Gln	p.R242Q	ENST00000078445	6/10	62	48	13	85	85	0	CREB3L3,missense_variant,p.Arg242Gln,ENST00000078445,;CREB3L3,missense_variant,p.Arg182Gln,ENST00000252587,;CREB3L3,missense_variant,p.Arg240Gln,ENST00000602257,;CREB3L3,missense_variant,p.Arg241Gln,ENST00000595923,;CREB3L3,intron_variant,,ENST00000602147,;CREB3L3,non_coding_transcript_exon_variant,,ENST00000598894,;	A	ENSG00000060566	ENST00000078445	Transcript	missense_variant	872	725	242	R/Q	cGa/cAa	rs772368818,COSM418231	.	.	1	CREB3L3	HGNC	18855	protein_coding	YES	CCDS12121.1	ENSP00000078445	CR3L3_HUMAN	.	UPI000006FCF0	.	deleterious(0)	probably_damaging(0.993)	6/10	.	hmmpanther:PTHR22952,hmmpanther:PTHR22952:SF98,Pfam_domain:PF00170,SMART_domains:SM00338	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	GGAGCGAGTGC	.	3	BLCA
SEMA6B	0	.	GRCh37	19	4550273	4550273	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1133G>C	p.Cys378Ser	p.C378S	ENST00000586582	12/17	112	82	29	94	94	0	SEMA6B,missense_variant,p.Cys378Ser,ENST00000586965,;SEMA6B,missense_variant,p.Cys378Ser,ENST00000586582,;SEMA6B,missense_variant,p.Cys378Ser,ENST00000301293,;RN7SL121P,downstream_gene_variant,,ENST00000584223,;SEMA6B,upstream_gene_variant,,ENST00000589889,;	G	ENSG00000167680	ENST00000586582	Transcript	missense_variant	1444	1133	378	C/S	tGc/tCc	COSM418176	.	.	-1	SEMA6B	HGNC	10739	protein_coding	YES	CCDS12131.1	ENSP00000467290	SEM6B_HUMAN	.	UPI000004BA6B	.	deleterious(0)	probably_damaging(0.987)	12/17	.	PROSITE_profiles:PS51004,hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF10,Gene3D:2.130.10.10,Pfam_domain:PF01403,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCGCAGCAC	.	5	BLCA
SEMA6B	0	.	GRCh37	19	4550808	4550808	+	Intron	SNP	C	C	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1121+3G>A	.	.	ENST00000586582	.	131	89	42	110	110	0	SEMA6B,splice_region_variant,,ENST00000586965,;SEMA6B,splice_region_variant,,ENST00000586582,;SEMA6B,splice_region_variant,,ENST00000301293,;SEMA6B,upstream_gene_variant,,ENST00000589889,;	T	ENSG00000167680	ENST00000586582	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SEMA6B	HGNC	10739	protein_coding	YES	CCDS12131.1	ENSP00000467290	SEM6B_HUMAN	.	UPI000004BA6B	.	.	.	.	11/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCACCGG	.	4	BLCA
AP2S1	0	.	GRCh37	19	47349397	47349397	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6C>T	p.%3D	p.I2I	ENST00000263270	2/5	74	53	20	72	72	0	AP2S1,synonymous_variant,p.%3D,ENST00000263270,;AP2S1,synonymous_variant,p.%3D,ENST00000601498,;AP2S1,synonymous_variant,p.%3D,ENST00000352203,;AP2S1,synonymous_variant,p.%3D,ENST00000599990,;AP2S1,synonymous_variant,p.%3D,ENST00000601649,;AP2S1,5_prime_UTR_variant,,ENST00000597020,;AP2S1,intron_variant,,ENST00000593442,;AP2S1,splice_region_variant,,ENST00000597421,;	A	ENSG00000042753	ENST00000263270	Transcript	synonymous_variant	232	6	2	I	atC/atT	COSM418154	.	.	-1	AP2S1	HGNC	565	protein_coding	YES	CCDS33062.1	ENSP00000263270	AP2S1_HUMAN	M0QZ21_HUMAN	UPI0000000C79	.	.	.	2/5	.	hmmpanther:PTHR11753:SF6,hmmpanther:PTHR11753,Pfam_domain:PF01217,Gene3D:3.30.450.60,PIRSF_domain:PIRSF015588,Superfamily_domains:SSF64356	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCGGATCTG	.	5	BLCA
CRX	0	.	GRCh37	19	48343102	48343102	+	Missense_Mutation	SNP	G	G	A	rs370592248	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.778G>A	p.Ala260Thr	p.A260T	ENST00000221996	4/4	353	251	102	310	310	0	CRX,missense_variant,p.Ala260Thr,ENST00000539067,;CRX,missense_variant,p.Ala260Thr,ENST00000221996,;TPRX2P,intron_variant,,ENST00000535362,;CRX,downstream_gene_variant,,ENST00000566686,;CRX,upstream_gene_variant,,ENST00000602001,;CRX,downstream_gene_variant,,ENST00000556527,;	A	ENSG00000105392	ENST00000221996	Transcript	missense_variant	984	778	260	A/T	Gcc/Acc	rs370592248,COSM297562	.	.	1	CRX	HGNC	2383	protein_coding	YES	CCDS12706.1	ENSP00000221996	CRX_HUMAN	Q0QD45_HUMAN,H3BUU7_HUMAN,A4GUB7_HUMAN	UPI00001284E0	.	tolerated(0.2)	benign(0)	4/4	.	hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF271	.	.	.	.	.	.	.	A:0.0009	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.A260T|c.778G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGCGCCTAC	byFrequency|byCluster	5	BLCA
LRRC4B	0	.	GRCh37	19	51022595	51022595	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375C>T	p.%3D	p.I125I	ENST00000599957	3/3	71	54	16	85	85	0	LRRC4B,synonymous_variant,p.%3D,ENST00000389201,;LRRC4B,synonymous_variant,p.%3D,ENST00000600381,;LRRC4B,synonymous_variant,p.%3D,ENST00000599957,;ASPDH,upstream_gene_variant,,ENST00000598657,;ASPDH,upstream_gene_variant,,ENST00000601207,;ASPDH,upstream_gene_variant,,ENST00000376916,;ASPDH,upstream_gene_variant,,ENST00000597030,;ASPDH,upstream_gene_variant,,ENST00000593569,;ASPDH,upstream_gene_variant,,ENST00000601287,;	A	ENSG00000131409	ENST00000599957	Transcript	synonymous_variant	573	375	125	I	atC/atT	COSM418103	.	.	-1	LRRC4B	HGNC	25042	protein_coding	YES	CCDS42595.1	ENSP00000471502	LRC4B_HUMAN	M0R2G0_HUMAN,A0PJJ4_HUMAN	UPI00000497E7	.	.	.	3/3	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369,hmmpanther:PTHR24369:SF7,Gene3D:3.80.10.10,Pfam_domain:PF13306,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.I125I|c.375C>T|3	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTCGATCTT	.	4	BLCA
LILRA6	0	.	GRCh37	19	54745730	54745730	+	Missense_Mutation	SNP	G	G	A	rs748859431	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.380C>T	p.Ser127Leu	p.S127L	ENST00000396365	4/8	147	105	42	176	176	0	LILRA6,missense_variant,p.Ser127Leu,ENST00000245621,;LILRA6,missense_variant,p.Ser127Leu,ENST00000270464,;LILRA6,missense_variant,p.Ser127Leu,ENST00000391735,;LILRA6,missense_variant,p.Ser127Leu,ENST00000440558,;LILRA6,missense_variant,p.Ser127Leu,ENST00000396365,;LILRA6,missense_variant,p.Ser127Leu,ENST00000419410,;LILRB3,intron_variant,,ENST00000407860,;LILRA6,missense_variant,p.Ser127Leu,ENST00000430421,;LILRA6,non_coding_transcript_exon_variant,,ENST00000474697,;RPS9,intron_variant,,ENST00000448962,;AC010492.4,downstream_gene_variant,,ENST00000506567,;	A	ENSG00000244482	ENST00000396365	Transcript	missense_variant	420	380	127	S/L	tCa/tTa	rs748859431,COSM418050,COSM418049	.	.	-1	LILRA6	HGNC	15495	protein_coding	YES	CCDS42610.1	ENSP00000379651	LIRA6_HUMAN	.	UPI000022A9CA	.	tolerated(0.08)	possibly_damaging(0.582)	4/8	.	Superfamily_domains:SSF48726,PIRSF_domain:PIRSF001979,Pfam_domain:PF13895,Gene3D:2.60.40.10,hmmpanther:PTHR11738:SF99,hmmpanther:PTHR11738	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAGAGG	.	5	BLCA
ZSCAN5A	0	.	GRCh37	19	56733572	56733572	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.863G>A	p.Arg288Lys	p.R288K	ENST00000587340	7/7	220	148	72	208	208	0	ZSCAN5A,missense_variant,p.Arg142Lys,ENST00000587492,;ZSCAN5A,missense_variant,p.Arg142Lys,ENST00000593106,;ZSCAN5A,missense_variant,p.Arg287Lys,ENST00000592355,;ZSCAN5A,missense_variant,p.Arg288Lys,ENST00000587340,;ZSCAN5A,missense_variant,p.Arg288Lys,ENST00000391713,;ZSCAN5A,missense_variant,p.Arg171Lys,ENST00000254165,;ZSCAN5A,downstream_gene_variant,,ENST00000588955,;ZSCAN5A,downstream_gene_variant,,ENST00000588442,;ZSCAN5A,downstream_gene_variant,,ENST00000592679,;ZSCAN5A,downstream_gene_variant,,ENST00000592509,;ZSCAN5A,downstream_gene_variant,,ENST00000592101,;CTD-2086L14.1,upstream_gene_variant,,ENST00000474329,;	T	ENSG00000131848	ENST00000587340	Transcript	missense_variant	1559	863	288	R/K	aGa/aAa	COSM418008	.	.	-1	ZSCAN5A	HGNC	23710	protein_coding	YES	CCDS12941.1	ENSP00000467631	ZSA5A_HUMAN	K7ESN6_HUMAN,K7ESE4_HUMAN,K7EQW6_HUMAN,K7EN85_HUMAN,K7EMC4_HUMAN,K7EIX9_HUMAN	UPI0000072024	.	tolerated(0.14)	benign(0.338)	7/7	.	hmmpanther:PTHR10032:SF164,hmmpanther:PTHR10032	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTGTTC	.	5	BLCA
SH2D3A	0	.	GRCh37	19	6760801	6760801	+	Silent	SNP	C	C	T	rs143102735	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267G>A	p.%3D	p.P89P	ENST00000245908	3/10	137	98	39	133	133	0	SH2D3A,synonymous_variant,p.%3D,ENST00000245908,;SH2D3A,synonymous_variant,p.%3D,ENST00000597687,;SH2D3A,intron_variant,,ENST00000437152,;SH2D3A,non_coding_transcript_exon_variant,,ENST00000599563,;SH2D3A,intron_variant,,ENST00000597254,;SH2D3A,non_coding_transcript_exon_variant,,ENST00000595369,;SH2D3A,non_coding_transcript_exon_variant,,ENST00000595681,;	T	ENSG00000125731	ENST00000245908	Transcript	synonymous_variant	537	267	89	P	ccG/ccA	rs143102735,COSM418727	.	.	-1	SH2D3A	HGNC	16885	protein_coding	YES	CCDS12173.1	ENSP00000245908	SH23A_HUMAN	.	UPI000006FD60	.	.	.	3/10	.	PROSITE_profiles:PS50001,hmmpanther:PTHR14247,Pfam_domain:PF00017,Gene3D:3.30.505.10,SMART_domains:SM00252,Superfamily_domains:SSF55550,Prints_domain:PR00401	.	.	.	.	.	.	.	T:0	T:0.0006	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGCCGGTAT	byCluster	5	BLCA
MUC16	0	.	GRCh37	19	9057196	9057196	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30250C>T	p.%3D	p.L10084L	ENST00000397910	3/84	58	46	12	123	123	0	MUC16,synonymous_variant,p.%3D,ENST00000397910,;	A	ENSG00000181143	ENST00000397910	Transcript	synonymous_variant	30454	30250	10084	L	Ctg/Ttg	COSM418691,COSM418690	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	3/84	.	hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCAGTATTT	.	5	BLCA
VCAM1	0	.	GRCh37	1	101194673	101194673	+	Silent	SNP	T	T	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.939T>C	p.%3D	p.F313F	ENST00000294728	5/9	46	33	13	226	226	0	VCAM1,synonymous_variant,p.%3D,ENST00000294728,;VCAM1,synonymous_variant,p.%3D,ENST00000370119,;VCAM1,intron_variant,,ENST00000347652,;VCAM1,intron_variant,,ENST00000370115,;	C	ENSG00000162692	ENST00000294728	Transcript	synonymous_variant	1040	939	313	F	ttT/ttC	COSM414219	.	.	1	VCAM1	HGNC	12663	protein_coding	YES	CCDS773.1	ENSP00000294728	VCAM1_HUMAN	Q68DC4_HUMAN,G0ZI12_HUMAN,G0ZFQ0_HUMAN,F8UV74_HUMAN,F8UU18_HUMAN,F2YYR6_HUMAN	UPI0000000E06	.	.	.	5/9	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTTACTGT	.	5	BLCA
CELSR2	0	.	GRCh37	1	109806818	109806818	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5120G>A	p.Gly1707Glu	p.G1707E	ENST00000271332	10/34	133	100	32	99	99	0	CELSR2,missense_variant,p.Gly1707Glu,ENST00000271332,;CELSR2,upstream_gene_variant,,ENST00000459940,;	A	ENSG00000143126	ENST00000271332	Transcript	missense_variant	5181	5120	1707	G/E	gGa/gAa	COSM414201	.	.	1	CELSR2	HGNC	3231	protein_coding	YES	CCDS796.1	ENSP00000271332	CELR2_HUMAN	.	UPI00000015B6	.	tolerated(0.4)	benign(0.216)	10/34	.	PROSITE_profiles:PS50025,hmmpanther:PTHR24026:SF32,hmmpanther:PTHR24026,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGGGAGCCA	.	5	BLCA
CELSR2	0	.	GRCh37	1	109806952	109806952	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5254G>A	p.Gly1752Ser	p.G1752S	ENST00000271332	10/34	177	135	42	158	158	0	CELSR2,missense_variant,p.Gly1752Ser,ENST00000271332,;CELSR2,upstream_gene_variant,,ENST00000459940,;	A	ENSG00000143126	ENST00000271332	Transcript	missense_variant	5315	5254	1752	G/S	Ggc/Agc	COSM414200	.	.	1	CELSR2	HGNC	3231	protein_coding	YES	CCDS796.1	ENSP00000271332	CELR2_HUMAN	.	UPI00000015B6	.	tolerated(0.67)	benign(0.015)	10/34	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50025,hmmpanther:PTHR24026:SF32,hmmpanther:PTHR24026,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCCGGCGGT	.	5	BLCA
PTCHD2	0	.	GRCh37	1	11561631	11561631	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.582G>T	p.Lys194Asn	p.K194N	ENST00000294484	2/21	23	14	8	24	24	0	PTCHD2,missense_variant,p.Lys194Asn,ENST00000389575,;PTCHD2,missense_variant,p.Lys194Asn,ENST00000294484,;	T	ENSG00000204624	ENST00000294484	Transcript	missense_variant	720	582	194	K/N	aaG/aaT	COSM414159	.	.	1	PTCHD2	HGNC	29251	protein_coding	YES	CCDS41247.1	ENSP00000294484	PTHD2_HUMAN	.	UPI00001C1D7A	.	tolerated_low_confidence(0.26)	benign(0.034)	2/21	.	hmmpanther:PTHR10796:SF49,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAAGCCCAC	.	5	BLCA
PDE4DIP	0	.	GRCh37	1	144903050	144903050	+	Intron	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2815+27C>T	.	.	ENST00000369356	.	234	193	41	220	220	0	PDE4DIP,missense_variant,p.His735Tyr,ENST00000479408,;PDE4DIP,missense_variant,p.His1111Tyr,ENST00000529945,;PDE4DIP,intron_variant,,ENST00000369354,;PDE4DIP,intron_variant,,ENST00000491426,;PDE4DIP,intron_variant,,ENST00000369349,;PDE4DIP,intron_variant,,ENST00000313431,;PDE4DIP,intron_variant,,ENST00000369359,;PDE4DIP,intron_variant,,ENST00000530740,;PDE4DIP,intron_variant,,ENST00000313382,;PDE4DIP,intron_variant,,ENST00000369356,;PDE4DIP,intron_variant,,ENST00000369351,;PDE4DIP,intron_variant,,ENST00000533963,;PDE4DIP,intron_variant,,ENST00000524974,;PDE4DIP,intron_variant,,ENST00000467859,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,intron_variant,,ENST00000525886,;	A	ENSG00000178104	ENST00000369356	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	.	.	.	21/43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGATGAATTC	.	4	BLCA
POLR3C	0	.	GRCh37	1	145608196	145608196	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.501G>A	p.%3D	p.E167E	ENST00000334163	4/15	226	195	30	143	143	0	POLR3C,synonymous_variant,p.%3D,ENST00000369294,;POLR3C,synonymous_variant,p.%3D,ENST00000334163,;RNF115,upstream_gene_variant,,ENST00000369291,;POLR3C,non_coding_transcript_exon_variant,,ENST00000466003,;POLR3C,non_coding_transcript_exon_variant,,ENST00000471254,;RNF115,upstream_gene_variant,,ENST00000539368,;RNF115,upstream_gene_variant,,ENST00000542738,;	T	ENSG00000186141	ENST00000334163	Transcript	synonymous_variant	662	501	167	E	gaG/gaA	COSM414109	.	.	-1	POLR3C	HGNC	30076	protein_coding	YES	CCDS921.1	ENSP00000334564	RPC3_HUMAN	.	UPI0000071E0F	.	.	.	4/15	.	hmmpanther:PTHR12949,Pfam_domain:PF05645	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATTCTCAGT	.	4	BLCA
HRNR	0	.	GRCh37	1	152193724	152193724	+	Missense_Mutation	SNP	A	A	T	rs747338134	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.381T>A	p.Phe127Leu	p.F127L	ENST00000368801	3/3	375	319	56	256	256	0	HRNR,missense_variant,p.Phe127Leu,ENST00000368801,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;	T	ENSG00000197915	ENST00000368801	Transcript	missense_variant	457	381	127	F/L	ttT/ttA	rs747338134,COSM414059	.	.	-1	HRNR	HGNC	20846	protein_coding	YES	CCDS30859.1	ENSP00000357791	HORN_HUMAN	Q5W8V9_HUMAN	UPI00001D7CAD	.	.	benign(0.18)	3/3	.	hmmpanther:PTHR22571:SF23,hmmpanther:PTHR22571	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGACTAAAAGA	byFrequency	4	BLCA
CLCNKB	0	.	GRCh37	1	16375484	16375484	+	Intron	SNP	C	C	T	rs752155216	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.656-131C>T	.	.	ENST00000375679	.	28	21	7	44	44	0	CLCNKB,synonymous_variant,p.%3D,ENST00000375667,;CLCNKB,intron_variant,,ENST00000375679,;CLCNKB,upstream_gene_variant,,ENST00000431772,;	T	ENSG00000184908	ENST00000375679	Transcript	intron_variant	.	.	.	.	.	rs752155216	.	.	1	CLCNKB	HGNC	2027	protein_coding	YES	CCDS168.1	ENSP00000364831	CLCKB_HUMAN	.	UPI000040E261	.	.	.	.	7/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCCTGTC	.	5	BLCA
DCAF6	0	.	GRCh37	1	168034939	168034939	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2551G>C	p.Asp851His	p.D851H	ENST00000367840	19/22	85	36	49	68	68	0	DCAF6,missense_variant,p.Asp820His,ENST00000432587,;DCAF6,missense_variant,p.Asp851His,ENST00000367840,;DCAF6,missense_variant,p.Asp760His,ENST00000312263,;DCAF6,missense_variant,p.Asp780His,ENST00000367843,;DCAF6,non_coding_transcript_exon_variant,,ENST00000489398,;DCAF6,downstream_gene_variant,,ENST00000478668,;	C	ENSG00000143164	ENST00000367840	Transcript	missense_variant	2645	2551	851	D/H	Gat/Cat	COSM414347	.	.	1	DCAF6	HGNC	30002	protein_coding	YES	CCDS55657.1	ENSP00000356814	DCAF6_HUMAN	.	UPI00000743AB	.	deleterious(0)	probably_damaging(1)	19/22	.	PROSITE_profiles:PS50294,hmmpanther:PTHR15574,hmmpanther:PTHR15574:SF11,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGATAAT	.	5	BLCA
ATP13A2	0	.	GRCh37	1	17330838	17330838	+	Silent	SNP	G	G	A	rs780027766	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546C>T	p.%3D	p.F182F	ENST00000326735	6/29	41	33	8	42	42	0	ATP13A2,synonymous_variant,p.%3D,ENST00000452699,;ATP13A2,synonymous_variant,p.%3D,ENST00000509619,;ATP13A2,synonymous_variant,p.%3D,ENST00000341676,;ATP13A2,synonymous_variant,p.%3D,ENST00000508222,;ATP13A2,synonymous_variant,p.%3D,ENST00000326735,;ATP13A2,synonymous_variant,p.%3D,ENST00000511957,;ATP13A2,synonymous_variant,p.%3D,ENST00000510069,;ATP13A2,upstream_gene_variant,,ENST00000506174,;RP1-37C10.3,intron_variant,,ENST00000446261,;ATP13A2,upstream_gene_variant,,ENST00000502860,;ATP13A2,upstream_gene_variant,,ENST00000463860,;	A	ENSG00000159363	ENST00000326735	Transcript	synonymous_variant	580	546	182	F	ttC/ttT	rs780027766,CM081164,COSM414318	.	.	-1	ATP13A2	HGNC	30213	protein_coding	YES	CCDS175.1	ENSP00000327214	AT132_HUMAN	Q8N4D4_HUMAN	UPI0000049724	.	.	.	6/29	.	hmmpanther:PTHR24093:SF86,hmmpanther:PTHR24093,TIGRFAM_domain:TIGR01657	.	.	.	.	.	.	.	.	.	.	0,0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTAGAAGGC	.	5	BLCA
CACNA1S	0	.	GRCh37	1	201056980	201056980	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.978C>T	p.%3D	p.L326L	ENST00000362061	7/44	98	86	11	70	70	0	CACNA1S,synonymous_variant,p.%3D,ENST00000367338,;CACNA1S,synonymous_variant,p.%3D,ENST00000362061,;	A	ENSG00000081248	ENST00000362061	Transcript	synonymous_variant	1205	978	326	L	ctC/ctT	COSM414714	.	.	-1	CACNA1S	HGNC	1397	protein_coding	YES	CCDS1407.1	ENSP00000355192	CAC1S_HUMAN	Q13062_HUMAN,Q12966_HUMAN	UPI000020471D	.	.	.	7/44	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF190,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTTGAGGAT	.	4	BLCA
C4BPA	0	.	GRCh37	1	207314560	207314560	+	Silent	SNP	C	C	T	rs773326982	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1383C>T	p.%3D	p.V461V	ENST00000367070	10/12	144	116	27	128	128	0	C4BPA,synonymous_variant,p.%3D,ENST00000367070,;	T	ENSG00000123838	ENST00000367070	Transcript	synonymous_variant	1577	1383	461	V	gtC/gtT	rs773326982,COSM414659	.	.	1	C4BPA	HGNC	1325	protein_coding	YES	CCDS1477.1	ENSP00000356037	C4BPA_HUMAN	Q5VVQ8_HUMAN,A6PVY5_HUMAN	UPI0000126C28	.	.	.	10/12	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF341,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A464A|c.1392G>A|3	RADIA|MUTECT|MUSE|VARSCANS	CTGGTCGGACA	byFrequency	4	BLCA
MIA3	0	.	GRCh37	1	222826648	222826648	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4288G>C	p.Asp1430His	p.D1430H	ENST00000344922	15/28	77	60	16	59	59	0	MIA3,missense_variant,p.Asp1430His,ENST00000344922,;MIA3,missense_variant,p.Asp954His,ENST00000354906,;MIA3,missense_variant,p.Asp308His,ENST00000340535,;MIA3,missense_variant,p.Asp1430His,ENST00000344441,;MIA3,intron_variant,,ENST00000344507,;MIA3,downstream_gene_variant,,ENST00000467190,;MIA3,downstream_gene_variant,,ENST00000495210,;	C	ENSG00000154305	ENST00000344922	Transcript	missense_variant	4313	4288	1430	D/H	Gat/Cat	COSM414616	.	.	1	MIA3	HGNC	24008	protein_coding	YES	CCDS41470.1	ENSP00000340900	MIA3_HUMAN	.	UPI00001D75B3	.	deleterious(0.02)	benign(0.021)	15/28	.	hmmpanther:PTHR23158:SF37,hmmpanther:PTHR23158	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATGATTCA	.	5	BLCA
NID1	0	.	GRCh37	1	236208952	236208952	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.557C>G	p.Ser186Cys	p.S186C	ENST00000264187	3/20	86	70	16	53	53	0	NID1,missense_variant,p.Ser186Cys,ENST00000264187,;NID1,missense_variant,p.Ser186Cys,ENST00000366595,;	C	ENSG00000116962	ENST00000264187	Transcript	missense_variant	640	557	186	S/C	tCt/tGt	COSM414562	.	.	-1	NID1	HGNC	7821	protein_coding	YES	CCDS1608.1	ENSP00000264187	NID1_HUMAN	.	UPI000013D4D9	.	deleterious(0.04)	probably_damaging(0.95)	3/20	.	PROSITE_profiles:PS51220,hmmpanther:PTHR10529:SF107,hmmpanther:PTHR10529,Pfam_domain:PF06119,SMART_domains:SM00539	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCAGAGGAG	.	5	BLCA
THEMIS2	0	.	GRCh37	1	28212380	28212380	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1879G>A	p.Asp627Asn	p.D627N	ENST00000373921	6/6	89	66	22	91	91	0	THEMIS2,missense_variant,p.Asp375Asn,ENST00000456990,;THEMIS2,missense_variant,p.Asp627Asn,ENST00000373921,;THEMIS2,missense_variant,p.Asp498Asn,ENST00000328928,;THEMIS2,splice_region_variant,,ENST00000373927,;THEMIS2,splice_region_variant,,ENST00000373925,;THEMIS2,downstream_gene_variant,,ENST00000442118,;THEMIS2,splice_region_variant,,ENST00000492877,;THEMIS2,downstream_gene_variant,,ENST00000482828,;THEMIS2,downstream_gene_variant,,ENST00000466068,;THEMIS2,downstream_gene_variant,,ENST00000467258,;	A	ENSG00000130775	ENST00000373921	Transcript	missense_variant	1883	1879	627	D/N	Gat/Aat	COSM414496	.	.	1	THEMIS2	HGNC	16839	protein_coding	YES	CCDS41290.1	ENSP00000363031	THMS2_HUMAN	.	UPI00001A796C	.	tolerated(0.34)	benign(0.003)	6/6	.	hmmpanther:PTHR15215,hmmpanther:PTHR15215:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATGATGAT	.	5	BLCA
TINAGL1	0	.	GRCh37	1	32043028	32043028	+	Silent	SNP	C	C	T	rs769087943	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279C>T	p.%3D	p.L93L	ENST00000271064	2/12	252	184	68	217	216	1	TINAGL1,synonymous_variant,p.%3D,ENST00000441210,;TINAGL1,synonymous_variant,p.%3D,ENST00000271064,;TINAGL1,synonymous_variant,p.%3D,ENST00000537531,;TINAGL1,synonymous_variant,p.%3D,ENST00000457433,;RP11-73M7.1,upstream_gene_variant,,ENST00000435872,;TINAGL1,non_coding_transcript_exon_variant,,ENST00000481165,;TINAGL1,non_coding_transcript_exon_variant,,ENST00000466998,;TINAGL1,intron_variant,,ENST00000461030,;TINAGL1,intron_variant,,ENST00000478398,;TINAGL1,upstream_gene_variant,,ENST00000468635,;TINAGL1,upstream_gene_variant,,ENST00000498429,;	T	ENSG00000142910	ENST00000271064	Transcript	synonymous_variant	355	279	93	L	ctC/ctT	rs769087943,COSM414484	.	.	1	TINAGL1	HGNC	19168	protein_coding	YES	CCDS343.1	ENSP00000271064	TINAL_HUMAN	B4DVG5_HUMAN	UPI000003B0A6	.	.	.	2/12	.	PROSITE_profiles:PS50958,hmmpanther:PTHR12411:SF270,hmmpanther:PTHR12411	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCGGCGT	.	5	BLCA
SPOCD1	0	.	GRCh37	1	32264127	32264127	+	Silent	SNP	G	G	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1944C>A	p.%3D	p.L648L	ENST00000360482	8/16	74	60	14	73	73	0	SPOCD1,synonymous_variant,p.%3D,ENST00000452755,;SPOCD1,synonymous_variant,p.%3D,ENST00000528579,;SPOCD1,synonymous_variant,p.%3D,ENST00000257100,;SPOCD1,synonymous_variant,p.%3D,ENST00000360482,;SPOCD1,synonymous_variant,p.%3D,ENST00000533231,;SPOCD1,3_prime_UTR_variant,,ENST00000373648,;SPOCD1,downstream_gene_variant,,ENST00000529396,;SPOCD1,downstream_gene_variant,,ENST00000525930,;SPOCD1,downstream_gene_variant,,ENST00000528791,;SPOCD1,non_coding_transcript_exon_variant,,ENST00000485944,;SPOCD1,non_coding_transcript_exon_variant,,ENST00000473361,;SPOCD1,non_coding_transcript_exon_variant,,ENST00000460061,;SPOCD1,non_coding_transcript_exon_variant,,ENST00000532604,;SPOCD1,non_coding_transcript_exon_variant,,ENST00000468720,;SPOCD1,non_coding_transcript_exon_variant,,ENST00000531039,;	T	ENSG00000134668	ENST00000360482	Transcript	synonymous_variant	2074	1944	648	L	ctC/ctA	COSM414483	.	.	-1	SPOCD1	HGNC	26338	protein_coding	YES	CCDS347.1	ENSP00000353670	SPOC1_HUMAN	E9PMX0_HUMAN,E9PKC3_HUMAN	UPI000035E7DD	.	.	.	8/16	.	Superfamily_domains:0037100,SMART_domains:SM00510,Pfam_domain:PF07500,Gene3D:1enwA00,hmmpanther:PTHR14914:SF5,hmmpanther:PTHR14914,PROSITE_profiles:PS51321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCAGAGGGC	.	4	BLCA
LEPR	0	.	GRCh37	1	66091839	66091839	+	Intron	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2673+3175G>A	.	.	ENST00000349533	.	34	30	4	32	32	0	LEPR,missense_variant,p.Gly903Ser,ENST00000344610,;LEPR,missense_variant,p.Gly903Ser,ENST00000371058,;LEPR,intron_variant,,ENST00000349533,;LEPR,intron_variant,,ENST00000406510,;LEPR,intron_variant,,ENST00000371060,;LEPR,intron_variant,,ENST00000371059,;LEPR,downstream_gene_variant,,ENST00000471762,;	A	ENSG00000116678	ENST00000349533	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	LEPR	HGNC	6554	protein_coding	YES	CCDS631.1	ENSP00000330393	LEPR_HUMAN	L0I9J6_HUMAN,A2RRQ4_HUMAN	UPI000014C37B	.	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GTGGAGGTTGG	.	2	BLCA
RIN2	0	.	GRCh37	20	19955572	19955572	+	Silent	SNP	G	G	T	rs756921810	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1050G>T	p.%3D	p.T350T	ENST00000255006	8/12	43	33	10	52	52	0	RIN2,synonymous_variant,p.%3D,ENST00000255006,;RIN2,intron_variant,,ENST00000440354,;RIN2,non_coding_transcript_exon_variant,,ENST00000484638,;RIN2,downstream_gene_variant,,ENST00000467569,;	T	ENSG00000132669	ENST00000255006	Transcript	synonymous_variant	1199	1050	350	T	acG/acT	rs756921810,COSM419034,COSM1024956,COSM1592515,COSM1133644	.	.	1	RIN2	HGNC	18750	protein_coding	YES	CCDS56182.1	ENSP00000255006	RIN2_HUMAN	.	UPI00004709D0	.	.	.	8/12	.	hmmpanther:PTHR23101,hmmpanther:PTHR23101:SF51	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCACGGAGCG	byFrequency	5	BLCA
BPIFB4	0	.	GRCh37	20	31699226	31699226	+	Silent	SNP	T	T	C	rs779361536	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1828T>C	p.%3D	p.L610L	ENST00000375483	16/16	74	52	22	69	69	0	BPIFB4,synonymous_variant,p.%3D,ENST00000375483,;BPIFB4,non_coding_transcript_exon_variant,,ENST00000494121,;	C	ENSG00000186191	ENST00000375483	Transcript	synonymous_variant	1828	1828	610	L	Ttg/Ctg	rs779361536,COSM419447	.	.	1	BPIFB4	HGNC	16179	protein_coding	YES	CCDS13213.2	ENSP00000364632	BPIB4_HUMAN	.	UPI0000206190	.	.	.	16/16	.	hmmpanther:PTHR10504:SF78,hmmpanther:PTHR10504,Pfam_domain:PF02886,Gene3D:1ewfA02,SMART_domains:SM00329,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTTTGGTG	.	5	BLCA
RBM12	0	.	GRCh37	20	34242690	34242690	+	Silent	SNP	G	G	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.555C>A	p.%3D	p.V185V	ENST00000374114	3/3	68	53	15	107	106	1	RBM12,synonymous_variant,p.%3D,ENST00000374114,;RBM12,synonymous_variant,p.%3D,ENST00000424458,;RBM12,synonymous_variant,p.%3D,ENST00000359646,;RBM12,synonymous_variant,p.%3D,ENST00000374104,;CPNE1,intron_variant,,ENST00000352393,;CPNE1,intron_variant,,ENST00000414711,;CPNE1,intron_variant,,ENST00000458038,;CPNE1,intron_variant,,ENST00000397443,;CPNE1,intron_variant,,ENST00000434795,;CPNE1,intron_variant,,ENST00000397442,;CPNE1,intron_variant,,ENST00000440240,;CPNE1,intron_variant,,ENST00000412056,;CPNE1,intron_variant,,ENST00000317619,;CPNE1,intron_variant,,ENST00000430570,;CPNE1,intron_variant,,ENST00000416778,;CPNE1,intron_variant,,ENST00000435747,;CPNE1,intron_variant,,ENST00000420363,;CPNE1,intron_variant,,ENST00000439806,;CPNE1,intron_variant,,ENST00000437340,;CPNE1,intron_variant,,ENST00000397445,;CPNE1,intron_variant,,ENST00000414664,;CPNE1,intron_variant,,ENST00000397446,;CPNE1,intron_variant,,ENST00000437100,;RBM12,downstream_gene_variant,,ENST00000435161,;CPNE1,upstream_gene_variant,,ENST00000317677,;RBM12,downstream_gene_variant,,ENST00000431148,;CPNE1,downstream_gene_variant,,ENST00000475146,;CPNE1,intron_variant,,ENST00000401607,;RP1-309K20.6,intron_variant,,ENST00000541176,;RP1-309K20.6,intron_variant,,ENST00000454607,;CPNE1,intron_variant,,ENST00000439669,;CPNE1,intron_variant,,ENST00000483359,;RP1-309K20.6,intron_variant,,ENST00000441563,;	T	ENSG00000244462	ENST00000374114	Transcript	synonymous_variant	819	555	185	V	gtC/gtA	COSM419423	.	.	-1	RBM12	HGNC	9898	protein_coding	YES	CCDS13261.1	ENSP00000363228	RBM12_HUMAN	Q69YJ7_HUMAN,Q5JX62_HUMAN,A6PVI1_HUMAN,A6PVI0_HUMAN	UPI0000073D24	.	.	.	3/3	.	hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF31,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGGGACTGT	.	5	BLCA
ADA	0	.	GRCh37	20	43255222	43255222	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237C>T	p.%3D	p.I79I	ENST00000372874	4/12	120	87	33	127	127	0	ADA,synonymous_variant,p.%3D,ENST00000372874,;ADA,synonymous_variant,p.%3D,ENST00000537820,;PKIG,downstream_gene_variant,,ENST00000372882,;PKIG,downstream_gene_variant,,ENST00000372887,;ADA,non_coding_transcript_exon_variant,,ENST00000492931,;ADA,non_coding_transcript_exon_variant,,ENST00000536076,;ADA,upstream_gene_variant,,ENST00000464097,;ADA,synonymous_variant,p.%3D,ENST00000536532,;ADA,non_coding_transcript_exon_variant,,ENST00000545776,;ADA,intron_variant,,ENST00000539235,;	A	ENSG00000196839	ENST00000372874	Transcript	synonymous_variant	372	237	79	I	atC/atT	COSM419382	.	.	-1	ADA	HGNC	186	protein_coding	YES	CCDS13335.1	ENSP00000361965	ADA_HUMAN	.	UPI000000D982	.	.	.	4/12	.	HAMAP:MF_00540,hmmpanther:PTHR11409,hmmpanther:PTHR11409:SF42,TIGRFAM_domain:TIGR01430,Gene3D:3.20.20.140,Pfam_domain:PF00962,Superfamily_domains:SSF51556	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	CTTTTGATAGC	.	3	BLCA
TP53TG5	0	.	GRCh37	20	44004152	44004152	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.295G>C	p.Glu99Gln	p.E99Q	ENST00000372726	4/5	240	162	78	255	255	0	TP53TG5,missense_variant,p.Glu99Gln,ENST00000372726,;TP53TG5,missense_variant,p.Glu83Gln,ENST00000537995,;SYS1,3_prime_UTR_variant,,ENST00000426004,;TP53TG5,non_coding_transcript_exon_variant,,ENST00000494455,;SYS1-DBNDD2,intron_variant,,ENST00000475242,;TP53TG5,downstream_gene_variant,,ENST00000488588,;SYS1-DBNDD2,intron_variant,,ENST00000458187,;SYS1-DBNDD2,intron_variant,,ENST00000419593,;SYS1-DBNDD2,intron_variant,,ENST00000452133,;	G	ENSG00000124251	ENST00000372726	Transcript	missense_variant	452	295	99	E/Q	Gag/Cag	.	.	.	-1	TP53TG5	HGNC	15856	protein_coding	YES	CCDS13352.1	ENSP00000361811	T53G5_HUMAN	G5EA57_HUMAN,B4DHX6_HUMAN	UPI000000165C	.	deleterious(0.04)	possibly_damaging(0.826)	4/5	.	hmmpanther:PTHR15562,hmmpanther:PTHR15562:SF0,Pfam_domain:PF15331	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GAACTCTTCAT	.	2	BLCA
ZNF335	0	.	GRCh37	20	44589147	44589147	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1800G>C	p.Lys600Asn	p.K600N	ENST00000322927	13/28	167	118	49	140	140	0	ZNF335,missense_variant,p.Lys600Asn,ENST00000322927,;ZNF335,missense_variant,p.Lys445Asn,ENST00000426788,;ZNF335,downstream_gene_variant,,ENST00000475002,;	G	ENSG00000198026	ENST00000322927	Transcript	missense_variant	1901	1800	600	K/N	aaG/aaC	COSM419370	.	.	-1	ZNF335	HGNC	15807	protein_coding	YES	CCDS13389.1	ENSP00000325326	ZN335_HUMAN	.	UPI0000001BC3	.	deleterious(0.02)	probably_damaging(1)	13/28	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24403:SF31,hmmpanther:PTHR24403,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTTCTTAAA	.	5	BLCA
ZBTB21	0	.	GRCh37	21	43413917	43413917	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288G>A	p.%3D	p.K96K	ENST00000310826	3/3	56	39	16	71	71	0	ZBTB21,synonymous_variant,p.%3D,ENST00000425521,;ZBTB21,synonymous_variant,p.%3D,ENST00000398511,;ZBTB21,synonymous_variant,p.%3D,ENST00000398505,;ZBTB21,synonymous_variant,p.%3D,ENST00000310826,;ZBTB21,synonymous_variant,p.%3D,ENST00000398499,;ZBTB21,downstream_gene_variant,,ENST00000449949,;ZBTB21,downstream_gene_variant,,ENST00000398497,;ZBTB21,intron_variant,,ENST00000465968,;	T	ENSG00000173276	ENST00000310826	Transcript	synonymous_variant	472	288	96	K	aaG/aaA	COSM419216	.	.	-1	ZBTB21	HGNC	13083	protein_coding	YES	CCDS13678.1	ENSP00000308759	ZBT21_HUMAN	Q5KS07_HUMAN,E7EVF9_HUMAN	UPI000013C34D	.	.	.	3/3	.	PROSITE_profiles:PS50097,hmmpanther:PTHR23228:SF8,hmmpanther:PTHR23228,Gene3D:3.30.710.10,Pfam_domain:PF00651,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCTTCTC	.	5	BLCA
KRTAP10-11	0	.	GRCh37	21	46066356	46066356	+	5'UTR	SNP	C	C	G	rs782456040	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-20C>G	.	.	ENST00000334670	1/1	72	51	21	93	93	0	KRTAP10-11,5_prime_UTR_variant,,ENST00000334670,;TSPEAR,intron_variant,,ENST00000323084,;	G	ENSG00000243489	ENST00000334670	Transcript	5_prime_UTR_variant	26	.	.	.	.	rs782456040	.	.	1	KRTAP10-11	HGNC	20528	protein_coding	YES	CCDS42962.1	ENSP00000334197	KR10B_HUMAN	.	UPI000040FC94	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCACCTC	.	5	BLCA
RIMBP3	0	.	GRCh37	22	20457929	20457929	+	Missense_Mutation	SNP	C	C	T	rs749620652	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3373G>A	p.Gly1125Ser	p.G1125S	ENST00000426804	1/1	31	27	3	29	29	0	RIMBP3,missense_variant,p.Gly1125Ser,ENST00000426804,;SCARNA17,downstream_gene_variant,,ENST00000516762,;SCARNA18,downstream_gene_variant,,ENST00000516215,;RN7SKP131,upstream_gene_variant,,ENST00000363006,;	T	ENSG00000196622	ENST00000426804	Transcript	missense_variant	3858	3373	1125	G/S	Ggt/Agt	rs749620652,COSM419640	.	.	-1	RIMBP3	HGNC	29344	protein_coding	YES	CCDS46665.1	ENSP00000391564	RIM3A_HUMAN	.	UPI0000237729	.	deleterious(0)	probably_damaging(1)	1/1	.	PROSITE_profiles:PS50853,hmmpanther:PTHR14234,hmmpanther:PTHR14234:SF21,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ATAACCGGTGA	byFrequency	2	BLCA
MED15	0	.	GRCh37	22	20939289	20939289	+	Missense_Mutation	SNP	G	G	A	rs147995933	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1951G>A	p.Gly651Ser	p.G651S	ENST00000263205	15/18	210	171	38	282	282	0	MED15,missense_variant,p.Gly651Ser,ENST00000263205,;MED15,missense_variant,p.Gly611Ser,ENST00000292733,;MED15,missense_variant,p.Gly585Ser,ENST00000406969,;MED15,missense_variant,p.Gly540Ser,ENST00000382974,;MED15,missense_variant,p.Gly500Ser,ENST00000425759,;MED15,missense_variant,p.Gly585Ser,ENST00000541476,;MED15,3_prime_UTR_variant,,ENST00000542773,;MED15,downstream_gene_variant,,ENST00000478831,;MED15,3_prime_UTR_variant,,ENST00000433831,;MED15,non_coding_transcript_exon_variant,,ENST00000436496,;MED15,non_coding_transcript_exon_variant,,ENST00000489651,;MED15,non_coding_transcript_exon_variant,,ENST00000493216,;MED15,non_coding_transcript_exon_variant,,ENST00000473244,;MED15,non_coding_transcript_exon_variant,,ENST00000492381,;MED15,intron_variant,,ENST00000461076,;MED15,downstream_gene_variant,,ENST00000476187,;AC007050.18,downstream_gene_variant,,ENST00000508880,;	A	ENSG00000099917	ENST00000263205	Transcript	missense_variant	2020	1951	651	G/S	Ggc/Agc	rs147995933,COSM419637,COSM419638	.	.	1	MED15	HGNC	14248	protein_coding	YES	CCDS33602.1	ENSP00000263205	MED15_HUMAN	Q69YK5_HUMAN,C9JZV5_HUMAN,C9JM58_HUMAN,C9JGN2_HUMAN,C9J1I1_HUMAN,B4DM43_HUMAN,B3KWF1_HUMAN	UPI00001313C4	.	deleterious(0.01)	probably_damaging(0.968)	15/18	.	hmmpanther:PTHR31804,Pfam_domain:PF09606	.	.	.	.	.	.	.	A:0.0005	A:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCACGGCCCA	byCluster	5	BLCA
IGLV5-45	0	.	GRCh37	22	22730631	22730631	+	Silent	SNP	C	C	G	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126C>G	p.%3D	p.T42T	ENST00000390296	2/2	149	125	23	186	186	0	IGLV5-45,synonymous_variant,p.%3D,ENST00000390296,;IGLV1-44,upstream_gene_variant,,ENST00000390297,;	G	ENSG00000211650	ENST00000390296	Transcript	synonymous_variant	154	126	42	T	acC/acG	.	.	.	1	IGLV5-45	HGNC	5924	IG_V_gene	YES	.	ENSP00000374831	.	Q5NV82_HUMAN	UPI000011A72F	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF147,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCACCTTGCG	.	4	BLCA
CRYBB1	0	.	GRCh37	22	27008146	27008146	+	Silent	SNP	G	G	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189C>A	p.%3D	p.V63V	ENST00000215939	3/6	122	97	24	108	108	0	CRYBB1,synonymous_variant,p.%3D,ENST00000215939,;	T	ENSG00000100122	ENST00000215939	Transcript	synonymous_variant	320	189	63	V	gtC/gtA	COSM419610	.	.	-1	CRYBB1	HGNC	2397	protein_coding	YES	CCDS13840.1	ENSP00000215939	CRBB1_HUMAN	.	UPI000000165D	.	.	.	3/6	.	PROSITE_profiles:PS50915,hmmpanther:PTHR11818:SF12,hmmpanther:PTHR11818,Gene3D:2.60.20.10,Pfam_domain:PF00030,SMART_domains:SM00247,Superfamily_domains:SSF49695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E65K|c.193G>A|4	RADIA|MUTECT|MUSE|VARSCANS	TCGAAGACCAC	.	4	BLCA
MICALL1	0	.	GRCh37	22	38327931	38327931	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2007C>T	p.%3D	p.I669I	ENST00000215957	10/16	123	86	37	137	137	0	MICALL1,synonymous_variant,p.%3D,ENST00000454685,;MICALL1,synonymous_variant,p.%3D,ENST00000215957,;MICALL1,upstream_gene_variant,,ENST00000424008,;MICALL1,non_coding_transcript_exon_variant,,ENST00000402631,;	T	ENSG00000100139	ENST00000215957	Transcript	synonymous_variant	2133	2007	669	I	atC/atT	COSM419557	.	.	1	MICALL1	HGNC	29804	protein_coding	YES	CCDS13961.1	ENSP00000215957	MILK1_HUMAN	Q68D58_HUMAN,Q641Q8_HUMAN,B0QY86_HUMAN	UPI000000DCAE	.	.	.	10/16	.	hmmpanther:PTHR25069,hmmpanther:PTHR25069:SF33	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCAAACG	.	5	BLCA
MICALL1	0	.	GRCh37	22	38328839	38328839	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2178C>T	p.%3D	p.F726F	ENST00000215957	12/16	74	62	11	94	94	0	MICALL1,synonymous_variant,p.%3D,ENST00000454685,;MICALL1,synonymous_variant,p.%3D,ENST00000215957,;MICALL1,synonymous_variant,p.%3D,ENST00000424008,;MICALL1,non_coding_transcript_exon_variant,,ENST00000402631,;	T	ENSG00000100139	ENST00000215957	Transcript	synonymous_variant	2304	2178	726	F	ttC/ttT	COSM419556	.	.	1	MICALL1	HGNC	29804	protein_coding	YES	CCDS13961.1	ENSP00000215957	MILK1_HUMAN	Q68D58_HUMAN,Q641Q8_HUMAN,B0QY86_HUMAN	UPI000000DCAE	.	.	.	12/16	.	hmmpanther:PTHR25069,hmmpanther:PTHR25069:SF33,Pfam_domain:PF12130	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCAAGCT	.	5	BLCA
GTSE1	0	.	GRCh37	22	46722532	46722532	+	Missense_Mutation	SNP	C	C	T	rs528775411	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1705C>T	p.Arg569Cys	p.R569C	ENST00000454366	9/12	81	63	17	74	74	0	GTSE1,missense_variant,p.Arg569Cys,ENST00000454366,;TRMU,upstream_gene_variant,,ENST00000476901,;TRMU,upstream_gene_variant,,ENST00000486620,;GTSE1,non_coding_transcript_exon_variant,,ENST00000479645,;GTSE1,non_coding_transcript_exon_variant,,ENST00000466510,;GTSE1,upstream_gene_variant,,ENST00000491863,;	T	ENSG00000075218	ENST00000454366	Transcript	missense_variant	1917	1705	569	R/C	Cgc/Tgc	rs528775411,COSM419505	.	.	1	GTSE1	HGNC	13698	protein_coding	YES	CCDS14074.2	ENSP00000415430	GTSE1_HUMAN	.	UPI000021D19B	.	deleterious(0)	probably_damaging(0.939)	9/12	.	hmmpanther:PTHR21584:SF8,hmmpanther:PTHR21584	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCCGCAAG	by1000G	5	BLCA
NCK2	0	.	GRCh37	2	106471515	106471515	+	5'UTR	SNP	G	G	C	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-5G>C	.	.	ENST00000233154	3/5	73	51	21	77	77	0	NCK2,5_prime_UTR_variant,,ENST00000522586,;NCK2,5_prime_UTR_variant,,ENST00000233154,;NCK2,5_prime_UTR_variant,,ENST00000451463,;NCK2,5_prime_UTR_variant,,ENST00000393349,;NCK2,5_prime_UTR_variant,,ENST00000425756,;NCK2,5_prime_UTR_variant,,ENST00000393348,;AC009505.2,non_coding_transcript_exon_variant,,ENST00000427050,;AC009505.2,intron_variant,,ENST00000596418,;AC009505.2,downstream_gene_variant,,ENST00000598281,;	C	ENSG00000071051	ENST00000233154	Transcript	5_prime_UTR_variant	438	.	.	.	.	.	.	.	1	NCK2	HGNC	7665	protein_coding	YES	CCDS33266.1	ENSP00000233154	NCK2_HUMAN	Q53TG4_HUMAN,Q53T91_HUMAN,E9PEE2_HUMAN,E7EPF5_HUMAN	UPI000012FE3F	.	.	.	3/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATGAAAGA	.	5	BLCA
MERTK	0	.	GRCh37	2	112766049	112766049	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1957C>G	p.Leu653Val	p.L653V	ENST00000295408	14/19	81	55	26	97	97	0	MERTK,missense_variant,p.Leu653Val,ENST00000295408,;MERTK,missense_variant,p.Leu653Val,ENST00000421804,;MERTK,missense_variant,p.Leu477Val,ENST00000409780,;MERTK,3_prime_UTR_variant,,ENST00000439966,;	G	ENSG00000153208	ENST00000295408	Transcript	missense_variant	2214	1957	653	L/V	Cta/Gta	COSM418618	.	.	1	MERTK	HGNC	7027	protein_coding	YES	CCDS2094.1	ENSP00000295408	MERTK_HUMAN	Q96T45_HUMAN,Q53R53_HUMAN,Q53QW0_HUMAN,Q07941_HUMAN,E9PHX8_HUMAN,B4DFQ0_HUMAN	UPI000013E252	.	deleterious(0.03)	possibly_damaging(0.804)	14/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF257,Gene3D:3.30.200.20,Pfam_domain:PF07714,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCTAGGT	.	5	BLCA
GALNT5	0	.	GRCh37	2	158165235	158165235	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2677G>C	p.Glu893Gln	p.E893Q	ENST00000259056	9/10	79	56	22	160	160	0	GALNT5,missense_variant,p.Glu893Gln,ENST00000259056,;	C	ENSG00000136542	ENST00000259056	Transcript	missense_variant	3162	2677	893	E/Q	Gaa/Caa	COSM418532	.	.	1	GALNT5	HGNC	4127	protein_coding	YES	CCDS2203.1	ENSP00000259056	GALT5_HUMAN	Q68VJ5_HUMAN	UPI000019AD19	.	tolerated(0.1)	possibly_damaging(0.649)	9/10	.	PROSITE_profiles:PS50231,hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF16,Pfam_domain:PF00652,Gene3D:2.80.10.50,SMART_domains:SM00458,Superfamily_domains:SSF50370	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAACTG	.	5	BLCA
UPP2	0	.	GRCh37	2	158980394	158980394	+	Silent	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.969C>G	p.%3D	p.L323L	ENST00000605860	9/10	155	114	40	197	197	0	UPP2,synonymous_variant,p.%3D,ENST00000005756,;UPP2,synonymous_variant,p.%3D,ENST00000605860,;UPP2,synonymous_variant,p.%3D,ENST00000409859,;UPP2-IT1,upstream_gene_variant,,ENST00000439185,;UPP2,non_coding_transcript_exon_variant,,ENST00000460456,;UPP2,upstream_gene_variant,,ENST00000489438,;	G	ENSG00000007001	ENST00000605860	Transcript	synonymous_variant	1015	969	323	L	ctC/ctG	COSM418531	.	.	1	UPP2	HGNC	23061	protein_coding	YES	CCDS46435.1	ENSP00000474090	UPP2_HUMAN	.	UPI0000EE2DE7	.	.	.	9/10	.	hmmpanther:PTHR21234,hmmpanther:PTHR21234:SF13,Pfam_domain:PF01048,TIGRFAM_domain:TIGR01719,Gene3D:3.40.50.1580,Superfamily_domains:SSF53167	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTCTGTGG	.	5	BLCA
KCNS3	0	.	GRCh37	2	18112633	18112633	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358C>T	p.Arg120Cys	p.R120C	ENST00000403915	3/3	184	142	42	217	217	0	KCNS3,missense_variant,p.Arg120Cys,ENST00000304101,;KCNS3,missense_variant,p.Arg120Cys,ENST00000403915,;KCNS3,downstream_gene_variant,,ENST00000419802,;KCNS3,intron_variant,,ENST00000465292,;	T	ENSG00000170745	ENST00000403915	Transcript	missense_variant	809	358	120	R/C	Cgc/Tgc	COSM418977	.	.	1	KCNS3	HGNC	6302	protein_coding	YES	CCDS1692.1	ENSP00000385968	KCNS3_HUMAN	C9J187_HUMAN	UPI000013E93A	.	deleterious(0)	possibly_damaging(0.794)	3/3	.	hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF39,Gene3D:3.30.710.10,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAATCGCTAC	.	5	BLCA
INPP1	0	.	GRCh37	2	191227381	191227381	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233G>A	p.Gly78Glu	p.G78E	ENST00000392329	4/7	110	84	26	106	106	0	INPP1,missense_variant,p.Gly78Glu,ENST00000423767,;INPP1,missense_variant,p.Gly78Glu,ENST00000458647,;INPP1,missense_variant,p.Gly78Glu,ENST00000444194,;INPP1,missense_variant,p.Gly78Glu,ENST00000541441,;INPP1,missense_variant,p.Gly78Glu,ENST00000413239,;INPP1,missense_variant,p.Gly78Glu,ENST00000431594,;INPP1,missense_variant,p.Gly78Glu,ENST00000322522,;INPP1,missense_variant,p.Gly78Glu,ENST00000392329,;INPP1,missense_variant,p.Gly78Glu,ENST00000409027,;INPP1,downstream_gene_variant,,ENST00000458193,;INPP1,downstream_gene_variant,,ENST00000451089,;INPP1,downstream_gene_variant,,ENST00000430311,;INPP1,non_coding_transcript_exon_variant,,ENST00000422454,;INPP1,intron_variant,,ENST00000417336,;INPP1,non_coding_transcript_exon_variant,,ENST00000487628,;	A	ENSG00000151689	ENST00000392329	Transcript	missense_variant	933	233	78	G/E	gGa/gAa	COSM418947	.	.	1	INPP1	HGNC	6071	protein_coding	YES	CCDS2305.1	ENSP00000376142	INPP_HUMAN	Q6IBG4_HUMAN,E7EUX4_HUMAN,E7ET59_HUMAN,E7ENF2_HUMAN,C9J2Z6_HUMAN,C9J2N5_HUMAN,C9J173_HUMAN,C9J128_HUMAN,B8ZZF6_HUMAN	UPI000012D697	.	deleterious(0)	probably_damaging(1)	4/7	.	hmmpanther:PTHR20854:SF19,hmmpanther:PTHR20854,Pfam_domain:PF00459,Gene3D:3.30.540.10,Superfamily_domains:SSF56655	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTGGAGAAG	.	5	BLCA
APOB	0	.	GRCh37	2	21239390	21239390	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3253G>A	p.Glu1085Lys	p.E1085K	ENST00000233242	21/29	84	60	24	98	98	0	APOB,missense_variant,p.Glu1085Lys,ENST00000233242,;	T	ENSG00000084674	ENST00000233242	Transcript	missense_variant	3381	3253	1085	E/K	Gag/Aag	COSM418879	.	.	-1	APOB	HGNC	603	protein_coding	YES	CCDS1703.1	ENSP00000233242	APOB_HUMAN	S5FVK9_HUMAN,Q9UE53_HUMAN,Q9UE52_HUMAN,Q13828_HUMAN	UPI0000141B94	.	.	benign(0)	21/29	.	hmmpanther:PTHR13769,hmmpanther:PTHR13769:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCAGTAG	.	5	BLCA
APOB	0	.	GRCh37	2	21250702	21250702	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2065G>A	p.Glu689Lys	p.E689K	ENST00000233242	14/29	74	55	19	93	93	0	APOB,missense_variant,p.Glu689Lys,ENST00000233242,;APOB,missense_variant,p.Glu689Lys,ENST00000399256,;	T	ENSG00000084674	ENST00000233242	Transcript	missense_variant	2193	2065	689	E/K	Gag/Aag	COSM418877	.	.	-1	APOB	HGNC	603	protein_coding	YES	CCDS1703.1	ENSP00000233242	APOB_HUMAN	S5FVK9_HUMAN,Q9UE53_HUMAN,Q9UE52_HUMAN,Q13828_HUMAN	UPI0000141B94	.	.	probably_damaging(0.996)	14/29	.	hmmpanther:PTHR13769,hmmpanther:PTHR13769:SF1,Gene3D:1lshA03,Pfam_domain:PF09172,Superfamily_domains:SSF56968	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCGATGA	.	5	BLCA
MOGAT1	0	.	GRCh37	2	223553091	223553091	+	Missense_Mutation	SNP	G	G	T	rs763550619	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.123G>T	p.Met41Ile	p.M41I	ENST00000446656	2/6	18	12	5	36	36	0	MOGAT1,missense_variant,p.Met41Ile,ENST00000446656,;	T	ENSG00000124003	ENST00000446656	Transcript	missense_variant	123	123	41	M/I	atG/atT	rs763550619,COSM418849,COSM418848	.	.	1	MOGAT1	HGNC	18210	protein_coding	YES	CCDS46524.1	ENSP00000406674	MOGT1_HUMAN	.	UPI000013D50F	.	tolerated(0.42)	benign(0.003)	2/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12317:SF10,hmmpanther:PTHR12317,Pfam_domain:PF03982	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATGCTGAT	.	5	BLCA
SLC16A14	0	.	GRCh37	2	230902218	230902218	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411G>A	p.Asp471Asn	p.D471N	ENST00000295190	5/5	80	46	33	90	90	0	SLC16A14,missense_variant,p.Asp471Asn,ENST00000295190,;	T	ENSG00000163053	ENST00000295190	Transcript	missense_variant	1870	1411	471	D/N	Gat/Aat	COSM418833	.	.	-1	SLC16A14	HGNC	26417	protein_coding	YES	CCDS2473.1	ENSP00000295190	MOT14_HUMAN	C9JME4_HUMAN,C9JIV1_HUMAN,B3KNY7_HUMAN	UPI000004EE99	.	tolerated(0.07)	probably_damaging(0.978)	5/5	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11360:SF121,hmmpanther:PTHR11360,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.D471N|c.1411G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCATATT	.	5	BLCA
UGT1A3	0	.	GRCh37	2	234638460	234638460	+	Missense_Mutation	SNP	C	C	A	rs776482922	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>A	p.Pro230Thr	p.P230T	ENST00000482026	1/5	363	275	88	410	410	0	UGT1A3,missense_variant,p.Pro230Thr,ENST00000482026,;UGT1A8,missense_variant,p.Pro230Thr,ENST00000609767,;UGT1A10,intron_variant,,ENST00000373445,;UGT1A4,intron_variant,,ENST00000373409,;UGT1A6,intron_variant,,ENST00000305139,;UGT1A6,intron_variant,,ENST00000373424,;UGT1A8,intron_variant,,ENST00000608381,;UGT1A7,intron_variant,,ENST00000373426,;UGT1A8,intron_variant,,ENST00000609637,;UGT1A5,intron_variant,,ENST00000373414,;UGT1A6,intron_variant,,ENST00000406651,;UGT1A10,intron_variant,,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;UGT1A9,intron_variant,,ENST00000354728,;UGT1A6,non_coding_transcript_exon_variant,,ENST00000478062,;UGT1A6,intron_variant,,ENST00000480628,;UGT1A6,intron_variant,,ENST00000446481,;UGT1A4,intron_variant,,ENST00000450233,;UGT1A6,intron_variant,,ENST00000484784,;	A	ENSG00000243135	ENST00000482026	Transcript	missense_variant	707	688	230	P/T	Cct/Act	rs776482922,COSM418819	.	.	1	UGT1A3	HGNC	12535	protein_coding	YES	CCDS2509.1	ENSP00000418532	UD13_HUMAN	Q8WX91_HUMAN,A9UKC8_HUMAN,A7E1U5_HUMAN,Q5DT01_HUMAN	UPI0000001045	.	tolerated(0.25)	possibly_damaging(0.482)	1/5	.	hmmpanther:PTHR11926:SF166,hmmpanther:PTHR11926,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCCTTAT	.	5	BLCA
SH3BP4	0	.	GRCh37	2	235962412	235962412	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2844G>A	p.%3D	p.L948L	ENST00000409212	6/6	263	185	77	240	240	0	SH3BP4,synonymous_variant,p.%3D,ENST00000409212,;SH3BP4,synonymous_variant,p.%3D,ENST00000344528,;SH3BP4,synonymous_variant,p.%3D,ENST00000392011,;	A	ENSG00000130147	ENST00000409212	Transcript	synonymous_variant	3351	2844	948	L	ctG/ctA	COSM418812	.	.	1	SH3BP4	HGNC	10826	protein_coding	YES	CCDS2513.1	ENSP00000386862	SH3B4_HUMAN	C9JWW6_HUMAN,C9JRG1_HUMAN,C9JF25_HUMAN,C9JED2_HUMAN,B4E2S1_HUMAN	UPI000006DA47	.	.	.	6/6	.	hmmpanther:PTHR15603:SF3,hmmpanther:PTHR15603	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A952T|c.2854G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTGAGAGC	.	5	BLCA
TP53I3	0	.	GRCh37	2	24305998	24305998	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.163C>T	p.Pro55Ser	p.P55S	ENST00000238721	2/5	224	159	65	235	235	0	TP53I3,missense_variant,p.Pro55Ser,ENST00000313482,;TP53I3,missense_variant,p.Pro55Ser,ENST00000238721,;TP53I3,missense_variant,p.Pro55Ser,ENST00000335934,;TP53I3,missense_variant,p.Pro55Ser,ENST00000407482,;TP53I3,missense_variant,p.Pro50Ser,ENST00000413037,;TP53I3,non_coding_transcript_exon_variant,,ENST00000417886,;FAM228B,intron_variant,,ENST00000461972,;FAM228B,intron_variant,,ENST00000468799,;FAM228B,intron_variant,,ENST00000469867,;FAM228B,intron_variant,,ENST00000486967,;FAM228B,downstream_gene_variant,,ENST00000460686,;TP53I3,downstream_gene_variant,,ENST00000470636,;	A	ENSG00000115129	ENST00000238721	Transcript	missense_variant	1018	163	55	P/S	Cca/Tca	COSM418778	.	.	-1	TP53I3	HGNC	19373	protein_coding	YES	CCDS1708.1	ENSP00000238721	QORX_HUMAN	.	UPI000006D860	.	tolerated(0.05)	benign(0.01)	2/5	.	hmmpanther:PTHR11695,hmmpanther:PTHR11695:SF28,Pfam_domain:PF08240,TIGRFAM_domain:TIGR02824,Gene3D:3.90.180.10,SMART_domains:SM00829,Superfamily_domains:SSF50129	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGAGGTG	.	5	BLCA
TRMT61B	0	.	GRCh37	2	29072852	29072852	+	3'UTR	SNP	C	C	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*213G>A	.	.	ENST00000306108	7/7	28	19	9	29	29	0	TRMT61B,3_prime_UTR_variant,,ENST00000306108,;SPDYA,3_prime_UTR_variant,,ENST00000334056,;SPDYA,3_prime_UTR_variant,,ENST00000439646,;TRMT61B,3_prime_UTR_variant,,ENST00000419999,;SPDYA,3_prime_UTR_variant,,ENST00000379579,;SPDYA,non_coding_transcript_exon_variant,,ENST00000491044,;TRMT61B,downstream_gene_variant,,ENST00000484060,;TRMT61B,3_prime_UTR_variant,,ENST00000439947,;TRMT61B,downstream_gene_variant,,ENST00000490390,;	T	ENSG00000171103	ENST00000306108	Transcript	3_prime_UTR_variant	1671	.	.	.	.	.	.	.	-1	TRMT61B	HGNC	26070	protein_coding	YES	CCDS1768.1	ENSP00000302801	TR61B_HUMAN	.	UPI000006D28C	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATGTCAAACT	.	2	BLCA
AFTPH	0	.	GRCh37	2	64779737	64779737	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129G>C	p.Asp377His	p.D377H	ENST00000238855	2/10	112	81	31	152	152	0	AFTPH,missense_variant,p.Asp377His,ENST00000422803,;AFTPH,missense_variant,p.Asp8His,ENST00000409183,;AFTPH,missense_variant,p.Asp377His,ENST00000409933,;AFTPH,missense_variant,p.Asp377His,ENST00000238855,;AFTPH,missense_variant,p.Asp377His,ENST00000238856,;AFTPH,upstream_gene_variant,,ENST00000487769,;AFTPH,non_coding_transcript_exon_variant,,ENST00000498706,;	C	ENSG00000119844	ENST00000238855	Transcript	missense_variant	1443	1129	377	D/H	Gat/Cat	COSM419128,COSM1133637	.	.	1	AFTPH	HGNC	25951	protein_coding	YES	CCDS46303.1	ENSP00000238855	AFTIN_HUMAN	.	UPI00003E1F8E	.	tolerated(0.06)	probably_damaging(0.959)	2/10	.	hmmpanther:PTHR16156:SF9,hmmpanther:PTHR16156	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGATGAT	.	5	BLCA
TET3	0	.	GRCh37	2	74273845	74273845	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396G>C	p.Met132Ile	p.M132I	ENST00000409262	1/9	119	114	5	136	136	0	TET3,missense_variant,p.Met132Ile,ENST00000409262,;TET3,missense_variant,p.Met174Ile,ENST00000305799,;TET3,upstream_gene_variant,,ENST00000475405,;	C	ENSG00000187605	ENST00000409262	Transcript	missense_variant	396	396	132	M/I	atG/atC	COSM419111	.	.	1	TET3	HGNC	28313	protein_coding	YES	CCDS46339.1	ENSP00000386869	TET3_HUMAN	K9JJH7_HUMAN	UPI0000DD79F5	.	tolerated(0.42)	benign(0.045)	1/9	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTATGAAACC	.	2	BLCA
VWA3B	0	.	GRCh37	2	98737802	98737802	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583C>T	p.Pro195Ser	p.P195S	ENST00000477737	5/28	69	52	17	79	79	0	VWA3B,missense_variant,p.Pro45Ser,ENST00000451075,;VWA3B,missense_variant,p.Pro195Ser,ENST00000477737,;VWA3B,missense_variant,p.Pro195Ser,ENST00000435344,;VWA3B,non_coding_transcript_exon_variant,,ENST00000483669,;VWA3B,non_coding_transcript_exon_variant,,ENST00000463635,;VWA3B,intron_variant,,ENST00000448079,;VWA3B,downstream_gene_variant,,ENST00000484571,;VWA3B,missense_variant,p.Pro195Ser,ENST00000416277,;VWA3B,missense_variant,p.Ser111Phe,ENST00000422503,;VWA3B,missense_variant,p.Pro195Ser,ENST00000433678,;VWA3B,missense_variant,p.Pro195Ser,ENST00000448638,;VWA3B,3_prime_UTR_variant,,ENST00000432242,;VWA3B,non_coding_transcript_exon_variant,,ENST00000409460,;	T	ENSG00000168658	ENST00000477737	Transcript	missense_variant	787	583	195	P/S	Cct/Tct	COSM419054	.	.	1	VWA3B	HGNC	28385	protein_coding	YES	CCDS42718.1	ENSP00000417955	VWA3B_HUMAN	Q53RD3_HUMAN	UPI0000E9B173	.	tolerated(0.12)	possibly_damaging(0.457)	5/28	.	Pfam_domain:PF13768,hmmpanther:PTHR10338,hmmpanther:PTHR10338:SF104	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACTCCTGTG	.	5	BLCA
ATG7	0	.	GRCh37	3	11354786	11354786	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420G>C	p.Lys140Asn	p.K140N	ENST00000354449	6/19	83	67	15	87	87	0	ATG7,missense_variant,p.Lys140Asn,ENST00000354449,;ATG7,missense_variant,p.Lys140Asn,ENST00000354956,;ATG7,missense_variant,p.Lys140Asn,ENST00000451513,;ATG7,intron_variant,,ENST00000446450,;ATG7,intron_variant,,ENST00000451830,;ATG7,downstream_gene_variant,,ENST00000423116,;ATG7,non_coding_transcript_exon_variant,,ENST00000464282,;ATG7,non_coding_transcript_exon_variant,,ENST00000488924,;ATG7,missense_variant,p.Lys21Asn,ENST00000424071,;ATG7,3_prime_UTR_variant,,ENST00000418682,;ATG7,upstream_gene_variant,,ENST00000434066,;	C	ENSG00000197548	ENST00000354449	Transcript	missense_variant	445	420	140	K/N	aaG/aaC	COSM419920	.	.	1	ATG7	HGNC	16935	protein_coding	YES	CCDS2605.1	ENSP00000346437	ATG7_HUMAN	H7C059_HUMAN,C9JNU2_HUMAN,C9JKA3_HUMAN,C9JGL2_HUMAN,C9JFF4_HUMAN,C9JE55_HUMAN	UPI00000705C7	.	deleterious(0)	probably_damaging(0.924)	6/19	.	hmmpanther:PTHR10953,hmmpanther:PTHR10953:SF3,TIGRFAM_domain:TIGR01381	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAAAGAAGTA	.	5	BLCA
SRPRB	0	.	GRCh37	3	133534474	133534474	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>A	p.Glu151Lys	p.E151K	ENST00000466490	6/8	390	170	220	259	259	0	SRPRB,missense_variant,p.Glu151Lys,ENST00000466490,;SRPRB,missense_variant,p.Glu40Lys,ENST00000466636,;SRPRB,non_coding_transcript_exon_variant,,ENST00000481356,;SRPRB,non_coding_transcript_exon_variant,,ENST00000494297,;	A	ENSG00000144867	ENST00000466490	Transcript	missense_variant	736	451	151	E/K	Gag/Aag	COSM419817	.	.	1	SRPRB	HGNC	24085	protein_coding	YES	CCDS3081.1	ENSP00000418401	SRPRB_HUMAN	Q549N5_HUMAN,C9J5Z8_HUMAN	UPI0000001BC0	.	deleterious(0)	probably_damaging(0.991)	6/8	.	PROSITE_profiles:PS51417,hmmpanther:PTHR11485,Pfam_domain:PF09439,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGAGAGGTG	.	5	BLCA
ATR	0	.	GRCh37	3	142231262	142231262	+	Silent	SNP	T	T	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4692A>C	p.%3D	p.I1564I	ENST00000350721	27/47	230	177	52	156	156	0	ATR,synonymous_variant,p.%3D,ENST00000383101,;ATR,synonymous_variant,p.%3D,ENST00000350721,;	G	ENSG00000175054	ENST00000350721	Transcript	synonymous_variant	4814	4692	1564	I	atA/atC	COSM419784	.	.	-1	ATR	HGNC	882	protein_coding	YES	CCDS3124.1	ENSP00000343741	ATR_HUMAN	.	UPI0000031A31	.	.	.	27/47	.	hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF64,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTTATGGT	.	5	BLCA
SUCNR1	0	.	GRCh37	3	151599155	151599155	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824C>T	p.Ser275Phe	p.S275F	ENST00000362032	3/3	287	133	153	318	317	0	SUCNR1,missense_variant,p.Ser275Phe,ENST00000362032,;RP11-454C18.2,intron_variant,,ENST00000475855,;RP11-454C18.2,intron_variant,,ENST00000483843,;	T	ENSG00000198829	ENST00000362032	Transcript	missense_variant	929	824	275	S/F	tCc/tTc	COSM419764	.	.	1	SUCNR1	HGNC	4542	protein_coding	YES	CCDS3162.1	ENSP00000355156	SUCR1_HUMAN	.	UPI0000072507	.	tolerated(0.06)	benign(0.078)	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24231:SF14,hmmpanther:PTHR24231,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCCTTTT	.	5	BLCA
DHX36	0	.	GRCh37	3	154018909	154018909	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225C>G	p.Pro409Ala	p.P409A	ENST00000496811	10/25	182	146	36	120	120	0	DHX36,missense_variant,p.Pro323Ala,ENST00000481941,;DHX36,missense_variant,p.Pro409Ala,ENST00000496811,;DHX36,missense_variant,p.Pro409Ala,ENST00000544526,;DHX36,missense_variant,p.Pro409Ala,ENST00000308361,;DHX36,missense_variant,p.Pro409Ala,ENST00000329463,;DHX36,downstream_gene_variant,,ENST00000460875,;	C	ENSG00000174953	ENST00000496811	Transcript	missense_variant	1306	1225	409	P/A	Cca/Gca	COSM419757	.	.	-1	DHX36	HGNC	14410	protein_coding	YES	CCDS3171.1	ENSP00000417078	DHX36_HUMAN	E7EWK3_HUMAN	UPI000013ED25	.	tolerated(0.06)	benign(0.168)	10/25	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF100	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGGAACAT	.	5	BLCA
ACTL6A	0	.	GRCh37	3	179291159	179291159	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280G>A	p.Glu94Lys	p.E94K	ENST00000429709	4/14	152	125	27	91	91	0	ACTL6A,missense_variant,p.Glu52Lys,ENST00000392662,;ACTL6A,missense_variant,p.Glu52Lys,ENST00000450518,;ACTL6A,missense_variant,p.Glu94Lys,ENST00000429709,;ACTL6A,downstream_gene_variant,,ENST00000490364,;ACTL6A,splice_region_variant,,ENST00000468767,;ACTL6A,upstream_gene_variant,,ENST00000467615,;ACTL6A,missense_variant,p.Glu89Lys,ENST00000487978,;ACTL6A,splice_region_variant,,ENST00000494843,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000486471,;ACTL6A,downstream_gene_variant,,ENST00000491202,;ACTL6A,upstream_gene_variant,,ENST00000479056,;ACTL6A,upstream_gene_variant,,ENST00000467383,;	A	ENSG00000136518	ENST00000429709	Transcript	missense_variant	493	280	94	E/K	Gaa/Aaa	COSM419697	.	.	1	ACTL6A	HGNC	24124	protein_coding	YES	CCDS3231.1	ENSP00000397552	ACL6A_HUMAN	D3DNS0_HUMAN,C9JQT2_HUMAN	UPI0000001655	.	tolerated(0.08)	probably_damaging(0.947)	4/14	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF191,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGTTGAAGAC	.	2	BLCA
USP13	0	.	GRCh37	3	179460036	179460036	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1432G>A	p.Glu478Lys	p.E478K	ENST00000263966	12/21	143	124	18	74	73	1	USP13,missense_variant,p.Glu478Lys,ENST00000263966,;USP13,missense_variant,p.Glu413Lys,ENST00000496897,;USP13,missense_variant,p.Glu124Lys,ENST00000497155,;USP13,non_coding_transcript_exon_variant,,ENST00000482333,;	A	ENSG00000058056	ENST00000263966	Transcript	missense_variant	1903	1432	478	E/K	Gaa/Aaa	COSM419694	.	.	1	USP13	HGNC	12611	protein_coding	YES	CCDS3235.1	ENSP00000263966	UBP13_HUMAN	.	UPI000006DC10	.	deleterious(0)	benign(0.145)	12/21	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF426,Pfam_domain:PF00443,PIRSF_domain:PIRSF016308,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGGAAGAA	.	4	BLCA
MASP1	0	.	GRCh37	3	186954017	186954017	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1642C>T	p.Gln548Ter	p.Q548*	ENST00000296280	11/11	223	89	133	157	157	0	MASP1,stop_gained,p.Gln435Ter,ENST00000392472,;MASP1,stop_gained,p.Gln548Ter,ENST00000296280,;MASP1,intron_variant,,ENST00000337774,;MASP1,non_coding_transcript_exon_variant,,ENST00000495249,;MASP1,intron_variant,,ENST00000468121,;MASP1,non_coding_transcript_exon_variant,,ENST00000480349,;	A	ENSG00000127241	ENST00000296280	Transcript	stop_gained	1868	1642	548	Q/*	Caa/Taa	.	.	.	-1	MASP1	HGNC	6901	protein_coding	YES	CCDS33908.1	ENSP00000296280	MASP1_HUMAN	Q9NSY8_HUMAN,C9JLU5_HUMAN	UPI000007256E	.	.	.	11/11	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24255,hmmpanther:PTHR24255:SF13,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,PIRSF_domain:PIRSF001155,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTGGATGT	.	5	BLCA
KCNH8	0	.	GRCh37	3	19492801	19492801	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1730A>G	p.Tyr577Cys	p.Y577C	ENST00000328405	10/16	100	70	30	174	174	0	KCNH8,missense_variant,p.Tyr577Cys,ENST00000328405,;KCNH8,3_prime_UTR_variant,,ENST00000537696,;KCNH8,3_prime_UTR_variant,,ENST00000452398,;	G	ENSG00000183960	ENST00000328405	Transcript	missense_variant	1996	1730	577	Y/C	tAt/tGt	COSM420075	.	.	1	KCNH8	HGNC	18864	protein_coding	YES	CCDS2632.1	ENSP00000328813	KCNH8_HUMAN	.	UPI0000167D12	.	deleterious(0)	probably_damaging(0.998)	10/16	.	Prints_domain:PR01465,Superfamily_domains:SSF51206,SMART_domains:SM00100,Pfam_domain:PF00027,Gene3D:2.60.120.10,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF380,PROSITE_profiles:PS50042	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGTATCTGC	.	5	BLCA
SGOL1	0	.	GRCh37	3	20218129	20218129	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439G>A	p.Glu147Lys	p.E147K	ENST00000263753	5/9	62	50	11	67	67	0	SGOL1,missense_variant,p.Glu147Lys,ENST00000412868,;SGOL1,missense_variant,p.Glu147Lys,ENST00000437051,;SGOL1,missense_variant,p.Glu147Lys,ENST00000425061,;SGOL1,missense_variant,p.Glu147Lys,ENST00000421451,;SGOL1,missense_variant,p.Glu147Lys,ENST00000383774,;SGOL1,missense_variant,p.Glu147Lys,ENST00000429446,;SGOL1,missense_variant,p.Glu147Lys,ENST00000306698,;SGOL1,missense_variant,p.Glu147Lys,ENST00000263753,;SGOL1,missense_variant,p.Glu147Lys,ENST00000442720,;SGOL1,missense_variant,p.Glu147Lys,ENST00000417364,;SGOL1,missense_variant,p.Glu147Lys,ENST00000443724,;SGOL1,missense_variant,p.Glu147Lys,ENST00000452020,;SGOL1,missense_variant,p.Glu147Lys,ENST00000412997,;SGOL1,missense_variant,p.Glu147Lys,ENST00000419233,;SGOL1-AS1,intron_variant,,ENST00000448208,;SGOL1-AS1,intron_variant,,ENST00000441442,;SGOL1,3_prime_UTR_variant,,ENST00000456624,;	T	ENSG00000129810	ENST00000263753	Transcript	missense_variant	579	439	147	E/K	Gaa/Aaa	COSM420053	.	.	-1	SGOL1	HGNC	25088	protein_coding	YES	CCDS33716.1	ENSP00000263753	SGOL1_HUMAN	.	UPI00004CE17A	.	tolerated(0.16)	benign(0.006)	5/9	.	hmmpanther:PTHR21577	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTCAGTTT	.	5	BLCA
GLB1	0	.	GRCh37	3	33038825	33038825	+	Missense_Mutation	SNP	C	C	A	rs778375259	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1746G>T	p.Trp582Cys	p.W582C	ENST00000307363	16/16	61	42	19	69	69	0	GLB1,missense_variant,p.Trp451Cys,ENST00000307377,;GLB1,missense_variant,p.Trp552Cys,ENST00000399402,;GLB1,missense_variant,p.Trp630Cys,ENST00000445488,;GLB1,missense_variant,p.Trp582Cys,ENST00000307363,;	A	ENSG00000170266	ENST00000307363	Transcript	missense_variant	1891	1746	582	W/C	tgG/tgT	rs778375259,CM115629,COSM420045,COSM1645628	.	.	-1	GLB1	HGNC	4298	protein_coding	YES	CCDS43061.1	ENSP00000306920	BGAL_HUMAN	C9JF15_HUMAN,C9J539_HUMAN	UPI0000E5A543	.	deleterious(0)	probably_damaging(0.996)	16/16	.	Prints_domain:PR00742,Superfamily_domains:SSF49785,PIRSF_domain:PIRSF006336,Gene3D:2.60.120.260,hmmpanther:PTHR23421,hmmpanther:PTHR23421:SF61	.	.	.	.	.	.	.	.	.	.	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATCCAGAC	.	5	BLCA
MLH1	0	.	GRCh37	3	37035075	37035075	+	Missense_Mutation	SNP	G	G	A	rs587779008,rs63750081	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.37G>A	p.Glu13Lys	p.E13K	ENST00000231790	1/19	114	85	28	108	108	0	MLH1,missense_variant,p.Glu13Lys,ENST00000231790,;MLH1,missense_variant,p.Glu5Lys,ENST00000456676,;MLH1,upstream_gene_variant,,ENST00000455445,;MLH1,upstream_gene_variant,,ENST00000441265,;MLH1,upstream_gene_variant,,ENST00000429117,;MLH1,upstream_gene_variant,,ENST00000539477,;EPM2AIP1,upstream_gene_variant,,ENST00000322716,;MLH1,upstream_gene_variant,,ENST00000458205,;MLH1,upstream_gene_variant,,ENST00000435176,;MLH1,upstream_gene_variant,,ENST00000536378,;MLH1,upstream_gene_variant,,ENST00000466900,;MLH1,upstream_gene_variant,,ENST00000492474,;MLH1,upstream_gene_variant,,ENST00000476172,;MLH1,upstream_gene_variant,,ENST00000485889,;MLH1,missense_variant,p.Glu13Lys,ENST00000432299,;MLH1,missense_variant,p.Glu13Lys,ENST00000457004,;MLH1,missense_variant,p.Glu13Lys,ENST00000442249,;MLH1,missense_variant,p.Glu13Lys,ENST00000454028,;	A	ENSG00000076242	ENST00000231790	Transcript	missense_variant	253	37	13	E/K	Gag/Aag	rs587779008,HD971451,rs63750081,CM093752,MMR_c.37delG,COSM420033	.	.	1	MLH1	HGNC	7127	protein_coding	YES	CCDS2663.1	ENSP00000231790	MLH1_HUMAN	Q5GJ64_HUMAN,F2Z298_HUMAN,E7EUC9_HUMAN,C4PFY8_HUMAN,B7Z821_HUMAN,A8W2I7_HUMAN	UPI0000000C7E	.	deleterious(0)	benign(0.418)	1/19	.	hmmpanther:PTHR10073,hmmpanther:PTHR10073:SF12,TIGRFAM_domain:TIGR00585,Gene3D:3.30.565.10,Superfamily_domains:SSF55874	.	.	.	.	.	.	.	.	.	uncertain_significance,pathogenic,pathogenic	0,0,0,0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGACGAGACA	byCluster	5	BLCA
LRRN1	0	.	GRCh37	3	3887565	3887565	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1240T>A	p.Leu414Ile	p.L414I	ENST00000319331	2/2	142	99	43	168	168	0	LRRN1,missense_variant,p.Leu414Ile,ENST00000319331,;SUMF1,intron_variant,,ENST00000534863,;LRRN1,downstream_gene_variant,,ENST00000496115,;SUMF1,intron_variant,,ENST00000448413,;	A	ENSG00000175928	ENST00000319331	Transcript	missense_variant	2001	1240	414	L/I	Tta/Ata	COSM420022	.	.	1	LRRN1	HGNC	20980	protein_coding	YES	CCDS33685.1	ENSP00000314901	LRRN1_HUMAN	.	UPI0000034CB8	.	tolerated(0.41)	benign(0.011)	2/2	.	hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF97,SMART_domains:SM00082	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTTTAATC	.	5	BLCA
VIPR1	0	.	GRCh37	3	42576579	42576579	+	Missense_Mutation	SNP	G	G	A	rs375826611	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1123G>A	p.Val375Ile	p.V375I	ENST00000325123	11/13	257	185	72	260	260	0	VIPR1,missense_variant,p.Val375Ile,ENST00000325123,;VIPR1,missense_variant,p.Val327Ile,ENST00000543411,;VIPR1,missense_variant,p.Val165Ile,ENST00000438259,;VIPR1,missense_variant,p.Val334Ile,ENST00000433647,;VIPR1,downstream_gene_variant,,ENST00000439731,;VIPR1-AS1,upstream_gene_variant,,ENST00000600342,;VIPR1-AS1,upstream_gene_variant,,ENST00000452639,;VIPR1-AS1,upstream_gene_variant,,ENST00000608869,;VIPR1-AS1,upstream_gene_variant,,ENST00000601312,;VIPR1-AS1,upstream_gene_variant,,ENST00000610022,;VIPR1-AS1,upstream_gene_variant,,ENST00000593621,;VIPR1-AS1,upstream_gene_variant,,ENST00000598837,;VIPR1-AS1,upstream_gene_variant,,ENST00000602176,;VIPR1-AS1,upstream_gene_variant,,ENST00000596630,;VIPR1-AS1,upstream_gene_variant,,ENST00000593611,;VIPR1,3_prime_UTR_variant,,ENST00000439910,;VIPR1,3_prime_UTR_variant,,ENST00000443646,;VIPR1,non_coding_transcript_exon_variant,,ENST00000498102,;VIPR1,downstream_gene_variant,,ENST00000436487,;VIPR1,downstream_gene_variant,,ENST00000446673,;VIPR1,downstream_gene_variant,,ENST00000465338,;VIPR1,downstream_gene_variant,,ENST00000495189,;	A	ENSG00000114812	ENST00000325123	Transcript	missense_variant	1236	1123	375	V/I	Gtc/Atc	rs375826611,COSM420012	.	.	1	VIPR1	HGNC	12694	protein_coding	YES	CCDS2698.1	ENSP00000327246	VIPR1_HUMAN	C9JH33_HUMAN	UPI000005045A	.	tolerated(0.4)	benign(0.125)	11/13	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011:SF31,hmmpanther:PTHR12011,Gene3D:1.20.1070.10,Pfam_domain:PF00002,Superfamily_domains:SSF81321,Prints_domain:PR00249	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTCGTCGTG	byCluster|by1000G	5	BLCA
CELSR3	0	.	GRCh37	3	48698816	48698816	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1252A>T	p.Met418Leu	p.M418L	ENST00000164024	1/35	82	62	19	79	79	0	CELSR3,missense_variant,p.Met418Leu,ENST00000544264,;CELSR3,missense_variant,p.Met418Leu,ENST00000164024,;NCKIPSD,downstream_gene_variant,,ENST00000341520,;RP11-148G20.1,upstream_gene_variant,,ENST00000421275,;	A	ENSG00000008300	ENST00000164024	Transcript	missense_variant	1533	1252	418	M/L	Atg/Ttg	COSM419963	.	.	-1	CELSR3	HGNC	3230	protein_coding	YES	CCDS2775.1	ENSP00000164024	CELR3_HUMAN	B4DSQ9_HUMAN	UPI00001AE5A6	.	tolerated(0.09)	probably_damaging(0.993)	1/35	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF38,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCATCGTGG	.	5	BLCA
CELSR3	0	.	GRCh37	3	48698817	48698817	+	Silent	SNP	C	C	T	rs111946927	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1251G>A	p.%3D	p.T417T	ENST00000164024	1/35	83	63	19	81	81	0	CELSR3,synonymous_variant,p.%3D,ENST00000544264,;CELSR3,synonymous_variant,p.%3D,ENST00000164024,;NCKIPSD,downstream_gene_variant,,ENST00000341520,;RP11-148G20.1,upstream_gene_variant,,ENST00000421275,;	T	ENSG00000008300	ENST00000164024	Transcript	synonymous_variant	1532	1251	417	T	acG/acA	rs111946927,COSM419961	.	.	-1	CELSR3	HGNC	3230	protein_coding	YES	CCDS2775.1	ENSP00000164024	CELR3_HUMAN	B4DSQ9_HUMAN	UPI00001AE5A6	.	.	.	1/35	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF38,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATCGTGGT	byCluster	5	BLCA
ARIH2OS	0	.	GRCh37	3	48956327	48956327	+	Missense_Mutation	SNP	C	C	T	rs761926279	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256G>A	p.Asp86Asn	p.D86N	ENST00000408959	1/1	17	11	6	23	23	0	ARIH2OS,missense_variant,p.Asp86Asn,ENST00000408959,;ARIH2,5_prime_UTR_variant,,ENST00000356401,;ARIH2,5_prime_UTR_variant,,ENST00000449729,;ARIH2,5_prime_UTR_variant,,ENST00000449376,;ARIH2,5_prime_UTR_variant,,ENST00000452882,;ARIH2,5_prime_UTR_variant,,ENST00000433170,;ARIH2,5_prime_UTR_variant,,ENST00000430423,;ARIH2,5_prime_UTR_variant,,ENST00000420814,;ARIH2,non_coding_transcript_exon_variant,,ENST00000482427,;ARIH2,non_coding_transcript_exon_variant,,ENST00000483333,;ARIH2,non_coding_transcript_exon_variant,,ENST00000486316,;ARIH2,non_coding_transcript_exon_variant,,ENST00000495761,;ARIH2,non_coding_transcript_exon_variant,,ENST00000478224,;ARIH2,non_coding_transcript_exon_variant,,ENST00000490095,;ARIH2,non_coding_transcript_exon_variant,,ENST00000498314,;ARIH2,non_coding_transcript_exon_variant,,ENST00000488963,;ARIH2,non_coding_transcript_exon_variant,,ENST00000474618,;ARIH2,upstream_gene_variant,,ENST00000484999,;ARIH2,upstream_gene_variant,,ENST00000474936,;ARIH2,upstream_gene_variant,,ENST00000470296,;ARIH2,non_coding_transcript_exon_variant,,ENST00000463738,;ARIH2,non_coding_transcript_exon_variant,,ENST00000492077,;ARIH2,upstream_gene_variant,,ENST00000466850,;	T	ENSG00000221883	ENST00000408959	Transcript	missense_variant	492	256	86	D/N	Gac/Aac	rs761926279,COSM419960	.	.	-1	ARIH2OS	HGNC	34425	protein_coding	YES	CCDS43088.1	ENSP00000386193	ARI2O_HUMAN	.	UPI00000710A2	.	tolerated_low_confidence(0.27)	possibly_damaging(0.741)	1/1	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCGTCGGCCC	.	2	BLCA
LAMB2	0	.	GRCh37	3	49166159	49166159	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1825G>C	p.Glu609Gln	p.E609Q	ENST00000418109	15/33	160	110	49	180	180	0	LAMB2,missense_variant,p.Glu609Gln,ENST00000305544,;LAMB2,missense_variant,p.Glu609Gln,ENST00000418109,;LAMB2,downstream_gene_variant,,ENST00000494831,;LAMB2,upstream_gene_variant,,ENST00000486298,;LAMB2,upstream_gene_variant,,ENST00000464891,;LAMB2,non_coding_transcript_exon_variant,,ENST00000483321,;LAMB2,non_coding_transcript_exon_variant,,ENST00000488638,;LAMB2,upstream_gene_variant,,ENST00000469665,;LAMB2,upstream_gene_variant,,ENST00000538659,;LAMB2,upstream_gene_variant,,ENST00000542580,;LAMB2,upstream_gene_variant,,ENST00000493571,;LAMB2,upstream_gene_variant,,ENST00000477225,;LAMB2,upstream_gene_variant,,ENST00000462930,;LAMB2,upstream_gene_variant,,ENST00000477701,;LAMB2,upstream_gene_variant,,ENST00000480640,;LAMB2,upstream_gene_variant,,ENST00000483057,;	G	ENSG00000172037	ENST00000418109	Transcript	missense_variant	1990	1825	609	E/Q	Gag/Cag	COSM419951	.	.	-1	LAMB2	HGNC	6487	protein_coding	YES	CCDS2789.1	ENSP00000388325	LAMB2_HUMAN	F5H520_HUMAN	UPI000013EA62	.	tolerated(0.06)	possibly_damaging(0.557)	15/33	.	PROSITE_profiles:PS51116,hmmpanther:PTHR10574:SF36,hmmpanther:PTHR10574	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTCCAGGG	.	5	BLCA
EGF	0	.	GRCh37	4	110890162	110890162	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1611G>C	p.Glu537Asp	p.E537D	ENST00000265171	11/24	121	87	34	119	119	0	EGF,missense_variant,p.Glu537Asp,ENST00000503392,;EGF,missense_variant,p.Glu537Asp,ENST00000265171,;EGF,missense_variant,p.Glu495Asp,ENST00000509793,;EGF,non_coding_transcript_exon_variant,,ENST00000502579,;	C	ENSG00000138798	ENST00000265171	Transcript	missense_variant	2056	1611	537	E/D	gaG/gaC	COSM420242	.	.	1	EGF	HGNC	3229	protein_coding	YES	CCDS3689.1	ENSP00000265171	EGF_HUMAN	Q6QBS2_HUMAN	UPI000013D5C8	.	deleterious(0)	probably_damaging(0.98)	11/24	.	Superfamily_domains:SSF63825,PIRSF_domain:PIRSF001778,SMART_domains:SM00135,Gene3D:2.120.10.30,Pfam_domain:PF00058,hmmpanther:PTHR10529,PROSITE_profiles:PS51120	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGAGAGAGC	.	5	BLCA
ANK2	0	.	GRCh37	4	114158306	114158306	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.647A>G	p.His216Arg	p.H216R	ENST00000357077	6/46	231	165	66	250	250	0	ANK2,missense_variant,p.His195Arg,ENST00000503271,;ANK2,missense_variant,p.His216Arg,ENST00000264366,;ANK2,missense_variant,p.His195Arg,ENST00000503423,;ANK2,missense_variant,p.His216Arg,ENST00000394537,;ANK2,missense_variant,p.His195Arg,ENST00000506722,;ANK2,missense_variant,p.His216Arg,ENST00000357077,;ANK2,missense_variant,p.His231Arg,ENST00000504454,;ANK2,downstream_gene_variant,,ENST00000515034,;ANK2,downstream_gene_variant,,ENST00000508613,;	G	ENSG00000145362	ENST00000357077	Transcript	missense_variant	700	647	216	H/R	cAc/cGc	COSM420238	.	.	1	ANK2	HGNC	493	protein_coding	YES	CCDS3702.1	ENSP00000349588	ANK2_HUMAN	D6RHC5_HUMAN	UPI0000441EF3	.	.	probably_damaging(1)	6/46	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24123:SF17,hmmpanther:PTHR24123,Pfam_domain:PF13637,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACCACAATG	.	5	BLCA
BOD1L1	0	.	GRCh37	4	13602850	13602850	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5674G>A	p.Glu1892Lys	p.E1892K	ENST00000040738	10/26	153	111	42	167	167	0	BOD1L1,missense_variant,p.Glu1892Lys,ENST00000040738,;	T	ENSG00000038219	ENST00000040738	Transcript	missense_variant	5810	5674	1892	E/K	Gaa/Aaa	COSM420199	.	.	-1	BOD1L1	HGNC	31792	protein_coding	YES	CCDS3411.2	ENSP00000040738	BD1L1_HUMAN	.	UPI000066D9E3	.	.	probably_damaging(0.929)	10/26	.	hmmpanther:PTHR31532,hmmpanther:PTHR31532:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G1895E|c.5684G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCTTCTC	.	5	BLCA
CRIPAK	0	.	GRCh37	4	1389009	1389009	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.710G>T	p.Gly237Val	p.G237V	ENST00000324803	1/1	245	212	33	334	334	0	CRIPAK,missense_variant,p.Gly237Val,ENST00000324803,;	T	ENSG00000179979	ENST00000324803	Transcript	missense_variant	3670	710	237	G/V	gGa/gTa	COSM420197	.	.	1	CRIPAK	HGNC	26619	protein_coding	YES	CCDS3349.1	ENSP00000323978	CRPAK_HUMAN	.	UPI0000070390	.	tolerated(0.19)	probably_damaging(0.988)	1/1	.	SMART_domains:SM00508	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.C236R|c.706T>C|3,BUFFER|p.C236C|c.708C>T|3	RADIA|MUTECT|MUSE|VARSCANS	ATGCGGAGTGC	.	4	BLCA
FBXW7	0	.	GRCh37	4	153247289	153247289	+	Missense_Mutation	SNP	G	G	C	rs149680468	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1513C>G	p.Arg505Gly	p.R505G	ENST00000281708	10/12	76	61	14	173	173	0	FBXW7,missense_variant,p.Arg505Gly,ENST00000603548,;FBXW7,missense_variant,p.Arg425Gly,ENST00000263981,;FBXW7,missense_variant,p.Arg387Gly,ENST00000296555,;FBXW7,missense_variant,p.Arg329Gly,ENST00000393956,;FBXW7,missense_variant,p.Arg505Gly,ENST00000281708,;FBXW7,missense_variant,p.Arg505Gly,ENST00000603841,;FBXW7,non_coding_transcript_exon_variant,,ENST00000603821,;FBXW7,upstream_gene_variant,,ENST00000604316,;FBXW7,downstream_gene_variant,,ENST00000604069,;	C	ENSG00000109670	ENST00000281708	Transcript	missense_variant	2743	1513	505	R/G	Cgc/Ggc	rs149680468,COSM33763,COSM22975,COSM99604,COSM99606,COSM732380,COSM108572,COSM1154290,COSM1133711,COSM1149853,COSM108571,COSM732382,COSM99605,COSM74637,COSM99603,COSM732381	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	deleterious(0)	probably_damaging(1)	10/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	not_provided	1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	21499247	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R387G|c.1159C>G|7,SITE|p.R505G|c.1513C>G|11,SITE|p.R505G|c.1513C>G|11,SITE|p.R425G|c.1273C>G|11,CODON|p.R505L|c.1514G>T|8,CODON|p.R505?|c.1514G>H|14,CODON|p.R505H|c.1514G>A|3,BUFFER|p.R266G|c.796C>G|11,BUFFER|p.R266C|c.796C>T|32,BUFFER|p.R425C|c.1273C>T|33,BUFFER|p.R505C|c.1513C>T|32,BUFFER|p.R505S|c.1513C>A|3,BUFFER|p.R505C|c.1513C>T|66,BUFFER|p.R387C|c.1159C>T|19	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGGACTG	.	5	BLCA
CC2D2A	0	.	GRCh37	4	15569099	15569099	+	Silent	SNP	C	C	T	rs766917693	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3282C>T	p.%3D	p.L1094L	ENST00000424120	25/37	68	53	14	65	65	0	CC2D2A,synonymous_variant,p.%3D,ENST00000503292,;CC2D2A,synonymous_variant,p.%3D,ENST00000413206,;CC2D2A,synonymous_variant,p.%3D,ENST00000389652,;CC2D2A,synonymous_variant,p.%3D,ENST00000424120,;RP11-799M12.2,upstream_gene_variant,,ENST00000609724,;CC2D2A,synonymous_variant,p.%3D,ENST00000506643,;	T	ENSG00000048342	ENST00000424120	Transcript	synonymous_variant	3536	3282	1094	L	ctC/ctT	rs766917693,COSM420146,COSM1133717	.	.	1	CC2D2A	HGNC	29253	protein_coding	YES	CCDS47026.1	ENSP00000403465	C2D2A_HUMAN	D6R9V3_HUMAN	UPI000023731A	.	.	.	25/37	.	hmmpanther:PTHR20837:SF4,hmmpanther:PTHR20837,SMART_domains:SM00239	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCGGCCA	byFrequency	5	BLCA
GUCY1B3	0	.	GRCh37	4	156723403	156723403	+	Intron	SNP	C	C	T	rs747089978	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1176-91C>T	.	.	ENST00000264424	.	15	6	9	22	22	0	GUCY1B3,missense_variant,p.Thr337Met,ENST00000507146,;GUCY1B3,intron_variant,,ENST00000503520,;GUCY1B3,intron_variant,,ENST00000513437,;GUCY1B3,intron_variant,,ENST00000264424,;GUCY1B3,intron_variant,,ENST00000502959,;GUCY1B3,intron_variant,,ENST00000505764,;GUCY1B3,intron_variant,,ENST00000505154,;	T	ENSG00000061918	ENST00000264424	Transcript	intron_variant	.	.	.	.	.	rs747089978	.	.	1	GUCY1B3	HGNC	4687	protein_coding	YES	CCDS47154.1	ENSP00000264424	GCYB1_HUMAN	B7Z685_HUMAN	UPI0000033344	.	.	.	.	9/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAAACGACAC	.	5	BLCA
FAM193A	0	.	GRCh37	4	2701583	2701583	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2811G>C	p.Lys937Asn	p.K937N	ENST00000324666	17/20	109	78	30	101	101	0	FAM193A,missense_variant,p.Lys937Asn,ENST00000545951,;FAM193A,missense_variant,p.Lys791Asn,ENST00000513350,;FAM193A,missense_variant,p.Lys937Asn,ENST00000324666,;FAM193A,missense_variant,p.Lys937Asn,ENST00000382839,;FAM193A,missense_variant,p.Lys937Asn,ENST00000505311,;FAM193A,missense_variant,p.Lys959Asn,ENST00000502458,;FAM193A,3_prime_UTR_variant,,ENST00000512465,;FAM193A,3_prime_UTR_variant,,ENST00000513898,;FAM193A,non_coding_transcript_exon_variant,,ENST00000506120,;	C	ENSG00000125386	ENST00000324666	Transcript	missense_variant	3162	2811	937	K/N	aaG/aaC	COSM420608	.	.	1	FAM193A	HGNC	16822	protein_coding	YES	CCDS58875.1	ENSP00000324587	F193A_HUMAN	E7EUR8_HUMAN,D6R990_HUMAN	UPI0000551BCA	.	deleterious(0)	probably_damaging(0.99)	17/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15109:SF2,hmmpanther:PTHR15109	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGAAGGA	.	5	BLCA
TLR10	0	.	GRCh37	4	38777082	38777082	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130G>A	p.Ala44Thr	p.A44T	ENST00000308973	4/4	63	42	20	108	108	0	TLR10,missense_variant,p.Ala44Thr,ENST00000508334,;TLR10,missense_variant,p.Ala44Thr,ENST00000361424,;TLR10,missense_variant,p.Ala30Thr,ENST00000502321,;TLR10,missense_variant,p.Ala44Thr,ENST00000308973,;TLR10,missense_variant,p.Ala44Thr,ENST00000506111,;TLR10,downstream_gene_variant,,ENST00000507953,;	T	ENSG00000174123	ENST00000308973	Transcript	missense_variant	736	130	44	A/T	Gca/Aca	COSM420596	.	.	-1	TLR10	HGNC	15634	protein_coding	YES	CCDS3445.1	ENSP00000308925	TLR10_HUMAN	D6RHW6_HUMAN	UPI0000048F1C	.	tolerated(0.18)	benign(0.002)	4/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF131,Gene3D:3.80.10.10,PIRSF_domain:PIRSF037595,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTGCGGGAA	.	5	BLCA
KDR	0	.	GRCh37	4	55961077	55961077	+	Missense_Mutation	SNP	T	T	A	rs201830601	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2863A>T	p.Ile955Phe	p.I955F	ENST00000263923	21/30	88	63	24	171	171	0	KDR,missense_variant,p.Ile955Phe,ENST00000263923,;RP11-530I17.1,downstream_gene_variant,,ENST00000511222,;KDR,non_coding_transcript_exon_variant,,ENST00000509309,;	A	ENSG00000128052	ENST00000263923	Transcript	missense_variant	3159	2863	955	I/F	Atc/Ttc	rs201830601,COSM420569	.	.	-1	KDR	HGNC	6307	protein_coding	YES	CCDS3497.1	ENSP00000263923	VGFR2_HUMAN	B4DEK3_HUMAN	UPI000003AE04	.	tolerated(0.12)	benign(0.392)	21/30	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF45,Pfam_domain:PF07714,SMART_domains:SM00219	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AGGGATTGCTC	byCluster|by1000G	3	BLCA
KDR	0	.	GRCh37	4	55961105	55961105	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2835C>T	p.%3D	p.F945F	ENST00000263923	21/30	70	49	21	135	135	0	KDR,synonymous_variant,p.%3D,ENST00000263923,;RP11-530I17.1,downstream_gene_variant,,ENST00000511222,;KDR,non_coding_transcript_exon_variant,,ENST00000509309,;	A	ENSG00000128052	ENST00000263923	Transcript	synonymous_variant	3131	2835	945	F	ttC/ttT	COSM420568	.	.	-1	KDR	HGNC	6307	protein_coding	YES	CCDS3497.1	ENSP00000263923	VGFR2_HUMAN	B4DEK3_HUMAN	UPI000003AE04	.	.	.	21/30	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF45,Pfam_domain:PF07714,SMART_domains:SM00219	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TGACGGAATCG	.	3	BLCA
GRID2	0	.	GRCh37	4	94693231	94693231	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2606A>G	p.Asp869Gly	p.D869G	ENST00000282020	16/16	91	71	20	177	177	0	GRID2,missense_variant,p.Asp869Gly,ENST00000282020,;GRID2,missense_variant,p.Asp774Gly,ENST00000510992,;	G	ENSG00000152208	ENST00000282020	Transcript	missense_variant	2864	2606	869	D/G	gAc/gGc	COSM420475	.	.	1	GRID2	HGNC	4576	protein_coding	YES	CCDS3637.1	ENSP00000282020	GRID2_HUMAN	Q4W5S4_HUMAN,Q4W5L9_HUMAN,Q4W5F4_HUMAN,Q4W5B7_HUMAN,D6R976_HUMAN	UPI00001AEA78	.	deleterious(0)	probably_damaging(0.926)	16/16	.	hmmpanther:PTHR18966:SF109,hmmpanther:PTHR18966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATGACAAGG	.	5	BLCA
PPIP5K2	0	.	GRCh37	5	102526629	102526629	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3376C>T	p.Leu1126Phe	p.L1126F	ENST00000321521	28/30	114	78	35	162	162	0	PPIP5K2,missense_variant,p.Leu1126Phe,ENST00000414217,;PPIP5K2,missense_variant,p.Leu192Phe,ENST00000511022,;PPIP5K2,missense_variant,p.Leu1126Phe,ENST00000321521,;PPIP5K2,missense_variant,p.Leu302Phe,ENST00000509597,;PPIP5K2,missense_variant,p.Leu1147Phe,ENST00000358359,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000507966,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000513500,;PPIP5K2,downstream_gene_variant,,ENST00000511724,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000510672,;PPIP5K2,upstream_gene_variant,,ENST00000504083,;	T	ENSG00000145725	ENST00000321521	Transcript	missense_variant	3949	3376	1126	L/F	Ctt/Ttt	COSM420465	.	.	1	PPIP5K2	HGNC	29035	protein_coding	YES	CCDS34207.1	ENSP00000313070	VIP2_HUMAN	K7EPT7_HUMAN,D6RFG4_HUMAN	UPI000006E414	.	deleterious_low_confidence(0.04)	benign(0.234)	28/30	.	hmmpanther:PTHR12750:SF10,hmmpanther:PTHR12750	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTCTTGCT	.	5	BLCA
PPIP5K2	0	.	GRCh37	5	102537353	102537353	+	3'UTR	SNP	G	G	C	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18G>C	.	.	ENST00000321521	30/30	17	13	4	12	12	0	PPIP5K2,3_prime_UTR_variant,,ENST00000414217,;PPIP5K2,3_prime_UTR_variant,,ENST00000358359,;PPIP5K2,3_prime_UTR_variant,,ENST00000321521,;PPIP5K2,3_prime_UTR_variant,,ENST00000509597,;PPIP5K2,downstream_gene_variant,,ENST00000507966,;PPIP5K2,downstream_gene_variant,,ENST00000513500,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000504083,;	C	ENSG00000145725	ENST00000321521	Transcript	3_prime_UTR_variant	4260	.	.	.	.	.	.	.	1	PPIP5K2	HGNC	29035	protein_coding	YES	CCDS34207.1	ENSP00000313070	VIP2_HUMAN	K7EPT7_HUMAN,D6RFG4_HUMAN	UPI000006E414	.	.	.	30/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	AGCTGGAACTT	.	4	BLCA
GRIA1	0	.	GRCh37	5	153181955	153181955	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2455G>A	p.Val819Met	p.V819M	ENST00000518783	15/16	160	113	47	187	187	0	GRIA1,missense_variant,p.Val729Met,ENST00000518142,;GRIA1,missense_variant,p.Val819Met,ENST00000518783,;GRIA1,missense_variant,p.Val740Met,ENST00000521843,;GRIA1,missense_variant,p.Val809Met,ENST00000285900,;GRIA1,missense_variant,p.Val819Met,ENST00000448073,;GRIA1,missense_variant,p.Val809Met,ENST00000340592,;	A	ENSG00000155511	ENST00000518783	Transcript	missense_variant	2482	2455	819	V/M	Gtg/Atg	COSM1133729	.	.	1	GRIA1	HGNC	4571	protein_coding	YES	CCDS58987.1	ENSP00000428994	GRIA1_HUMAN	.	UPI0001E8F433	.	deleterious(0)	probably_damaging(1)	15/16	.	Prints_domain:PR00177,Pfam_domain:PF00060,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF157,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGCGTGTTC	.	5	BLCA
IRX1	0	.	GRCh37	5	3601184	3601184	+	3'UTR	SNP	G	G	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*30G>T	.	.	ENST00000302006	4/4	42	31	11	51	51	0	IRX1,3_prime_UTR_variant,,ENST00000302006,;CTD-2012M11.3,upstream_gene_variant,,ENST00000559410,;	T	ENSG00000170549	ENST00000302006	Transcript	3_prime_UTR_variant	1525	.	.	.	.	.	.	.	1	IRX1	HGNC	14358	protein_coding	YES	CCDS34132.1	ENSP00000305244	IRX1_HUMAN	.	UPI00001B6455	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGGGGGAGGG	.	2	BLCA
EGFLAM	0	.	GRCh37	5	38407204	38407204	+	Missense_Mutation	SNP	G	G	A	rs746669041	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1103G>A	p.Arg368Gln	p.R368Q	ENST00000354891	8/23	80	58	22	101	101	0	EGFLAM,missense_variant,p.Arg134Gln,ENST00000336740,;EGFLAM,missense_variant,p.Arg368Gln,ENST00000354891,;EGFLAM,missense_variant,p.Arg368Gln,ENST00000322350,;EGFLAM,intron_variant,,ENST00000397202,;EGFLAM-AS2,upstream_gene_variant,,ENST00000512603,;EGFLAM-AS2,upstream_gene_variant,,ENST00000514377,;	A	ENSG00000164318	ENST00000354891	Transcript	missense_variant	1449	1103	368	R/Q	cGa/cAa	rs746669041,COSM420706,COSM1133738	.	.	1	EGFLAM	HGNC	26810	protein_coding	YES	CCDS56363.1	ENSP00000346964	EGFLA_HUMAN	D6RJD2_HUMAN	UPI000022C806	.	tolerated(0.06)	benign(0.426)	8/23	.	PROSITE_profiles:PS50026,hmmpanther:PTHR10574:SF202,hmmpanther:PTHR10574,Gene3D:2.60.120.200,SMART_domains:SM00181,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R368Q|c.1103G>A|3,SITE|p.R368Q|c.1103G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCGCGATGCC	byFrequency	5	BLCA
IL6ST	0	.	GRCh37	5	55247891	55247891	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1565G>C	p.Gly522Ala	p.G522A	ENST00000381298	13/17	79	52	27	81	81	0	IL6ST,missense_variant,p.Gly522Ala,ENST00000336909,;IL6ST,missense_variant,p.Gly522Ala,ENST00000381298,;IL6ST,missense_variant,p.Gly461Ala,ENST00000381294,;IL6ST,missense_variant,p.Gly522Ala,ENST00000502326,;IL6ST,3_prime_UTR_variant,,ENST00000522633,;IL6ST,3_prime_UTR_variant,,ENST00000381287,;IL6ST,3_prime_UTR_variant,,ENST00000536319,;IL6ST,intron_variant,,ENST00000381293,;IL6ST,intron_variant,,ENST00000381286,;IL6ST,upstream_gene_variant,,ENST00000423954,;IL6ST,3_prime_UTR_variant,,ENST00000503773,;IL6ST,upstream_gene_variant,,ENST00000583149,;IL6ST,downstream_gene_variant,,ENST00000506241,;IL6ST,upstream_gene_variant,,ENST00000523039,;	G	ENSG00000134352	ENST00000381298	Transcript	missense_variant	1878	1565	522	G/A	gGa/gCa	COSM420675	.	.	-1	IL6ST	HGNC	6021	protein_coding	YES	CCDS3971.1	ENSP00000370698	IL6RB_HUMAN	.	UPI000013CF29	.	deleterious(0.04)	possibly_damaging(0.681)	13/17	.	PROSITE_profiles:PS50853,hmmpanther:PTHR23036:SF25,hmmpanther:PTHR23036,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGTCCTTTG	.	5	BLCA
VCAN	0	.	GRCh37	5	82817190	82817190	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3065G>A	p.Arg1022Lys	p.R1022K	ENST00000265077	7/15	62	44	17	97	97	0	VCAN,missense_variant,p.Arg1022Lys,ENST00000342785,;VCAN,missense_variant,p.Arg1022Lys,ENST00000265077,;VCAN,missense_variant,p.Arg974Lys,ENST00000512590,;VCAN,intron_variant,,ENST00000502527,;VCAN,intron_variant,,ENST00000513960,;VCAN,intron_variant,,ENST00000343200,;VCAN,intron_variant,,ENST00000515397,;	A	ENSG00000038427	ENST00000265077	Transcript	missense_variant	3630	3065	1022	R/K	aGa/aAa	COSM421162	.	.	1	VCAN	HGNC	2464	protein_coding	YES	CCDS4060.1	ENSP00000265077	CSPG2_HUMAN	.	UPI000013178B	.	tolerated(0.12)	benign(0.293)	7/15	.	hmmpanther:PTHR22804:SF6,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGAGAACAA	.	5	BLCA
GPR98	0	.	GRCh37	5	90106172	90106172	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15095G>A	p.Gly5032Glu	p.G5032E	ENST00000405460	74/90	27	19	8	26	26	0	GPR98,missense_variant,p.Gly5032Glu,ENST00000405460,;GPR98,missense_variant,p.Gly693Glu,ENST00000425867,;GPR98,downstream_gene_variant,,ENST00000513828,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	15191	15095	5032	G/E	gGg/gAg	COSM421148	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	probably_damaging(0.993)	74/90	.	Superfamily_domains:SSF141072,SMART_domains:SM00237,Pfam_domain:PF03160,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTGGGTTCC	.	5	BLCA
RFESD	0	.	GRCh37	5	94989768	94989768	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162G>A	p.Met54Ile	p.M54I	ENST00000458310	4/6	64	48	15	75	75	0	RFESD,start_lost,p.Met1?,ENST00000513950,;RFESD,start_lost,p.Met1?,ENST00000311364,;RFESD,start_lost,p.Met1?,ENST00000511684,;RFESD,missense_variant,p.Met54Ile,ENST00000458310,;RFESD,missense_variant,p.Met54Ile,ENST00000380005,;SPATA9,downstream_gene_variant,,ENST00000274432,;SPATA9,intron_variant,,ENST00000477047,;RFESD,upstream_gene_variant,,ENST00000508206,;SPATA9,downstream_gene_variant,,ENST00000379990,;SPATA9,intron_variant,,ENST00000316087,;SPATA9,intron_variant,,ENST00000477715,;RFESD,downstream_gene_variant,,ENST00000506212,;SPATA9,downstream_gene_variant,,ENST00000489917,;RFESD,downstream_gene_variant,,ENST00000504893,;	A	ENSG00000175449	ENST00000458310	Transcript	missense_variant	1493	162	54	M/I	atG/atA	COSM421141,COSM421140	.	.	1	RFESD	HGNC	29587	protein_coding	YES	CCDS47248.1	ENSP00000413592	RFESD_HUMAN	D6RBY0_HUMAN	UPI000066D9FA	.	deleterious_low_confidence(0.01)	probably_damaging(0.961)	4/6	.	hmmpanther:PTHR21496	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGAATCT	.	5	BLCA
ASF1A	0	.	GRCh37	6	119226948	119226948	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357G>A	p.%3D	p.E119E	ENST00000229595	3/4	106	73	32	123	123	0	ASF1A,synonymous_variant,p.%3D,ENST00000229595,;MCM9,intron_variant,,ENST00000316316,;MCM9,downstream_gene_variant,,ENST00000316068,;ASF1A,downstream_gene_variant,,ENST00000511766,;MCM9,downstream_gene_variant,,ENST00000436788,;	A	ENSG00000111875	ENST00000229595	Transcript	synonymous_variant	551	357	119	E	gaG/gaA	COSM421095	.	.	1	ASF1A	HGNC	20995	protein_coding	YES	CCDS47469.1	ENSP00000229595	ASF1A_HUMAN	.	UPI000004CF64	.	.	.	3/4	.	hmmpanther:PTHR12040:SF3,hmmpanther:PTHR12040,Pfam_domain:PF04729,Gene3D:1rocA00,Superfamily_domains:SSF101546	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGAGACAGA	.	5	BLCA
SYNE1	0	.	GRCh37	6	152650896	152650896	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14924G>C	p.Gly4975Ala	p.G4975A	ENST00000367255	78/146	186	138	47	212	212	0	SYNE1,missense_variant,p.Gly4904Ala,ENST00000448038,;SYNE1,missense_variant,p.Gly4975Ala,ENST00000367255,;SYNE1,missense_variant,p.Gly4904Ala,ENST00000423061,;SYNE1,missense_variant,p.Gly4722Ala,ENST00000341594,;SYNE1,missense_variant,p.Gly4975Ala,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000490135,;	G	ENSG00000131018	ENST00000367255	Transcript	missense_variant	15526	14924	4975	G/A	gGa/gCa	COSM421015,COSM421016,COSM1133757	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	benign(0.006)	78/146	.	Superfamily_domains:SSF46966,Superfamily_domains:SSF46966,SMART_domains:SM00150,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCCATCC	.	5	BLCA
TTLL2	0	.	GRCh37	6	167755005	167755005	+	Silent	SNP	G	G	A	rs758899568	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1617G>A	p.%3D	p.P539P	ENST00000239587	3/3	125	84	41	137	137	0	TTLL2,synonymous_variant,p.%3D,ENST00000239587,;TTLL2,synonymous_variant,p.%3D,ENST00000515138,;TTLL2,downstream_gene_variant,,ENST00000512917,;	A	ENSG00000120440	ENST00000239587	Transcript	synonymous_variant	1705	1617	539	P	ccG/ccA	rs758899568,COSM420983	.	.	1	TTLL2	HGNC	21211	protein_coding	YES	CCDS5301.1	ENSP00000239587	TTLL2_HUMAN	.	UPI00001A3A8B	.	.	.	3/3	.	hmmpanther:PTHR12241,hmmpanther:PTHR12241:SF90	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCCGTGTGT	byFrequency|byCluster	5	BLCA
SMOC2	0	.	GRCh37	6	169064768	169064768	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1333G>A	p.Ala445Thr	p.A445T	ENST00000354536	12/13	65	48	17	93	93	0	SMOC2,missense_variant,p.Ala434Thr,ENST00000356284,;SMOC2,missense_variant,p.Ala445Thr,ENST00000354536,;SMOC2,missense_variant,p.Ala54Thr,ENST00000417208,;SMOC2,non_coding_transcript_exon_variant,,ENST00000477998,;SMOC2,3_prime_UTR_variant,,ENST00000392100,;AL391319.1,upstream_gene_variant,,ENST00000535039,;	A	ENSG00000112562	ENST00000354536	Transcript	missense_variant	1553	1333	445	A/T	Gct/Act	COSM420978	.	.	1	SMOC2	HGNC	20323	protein_coding	YES	CCDS5307.1	ENSP00000346537	SMOC2_HUMAN	B4DNB1_HUMAN	UPI0000072A56	.	tolerated_low_confidence(0.13)	benign(0.001)	12/13	.	hmmpanther:PTHR12352:SF11,hmmpanther:PTHR12352	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATGCTGAA	.	5	BLCA
MSH5	0	.	GRCh37	6	31727896	31727896	+	Missense_Mutation	SNP	C	C	A	rs781415195	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1715C>A	p.Thr572Asn	p.T572N	ENST00000375703	19/25	265	180	84	297	297	0	MSH5,missense_variant,p.Thr246Asn,ENST00000395853,;MSH5,missense_variant,p.Thr589Asn,ENST00000375740,;MSH5,missense_variant,p.Thr572Asn,ENST00000375755,;MSH5,missense_variant,p.Thr572Asn,ENST00000375750,;MSH5,missense_variant,p.Thr589Asn,ENST00000534153,;MSH5,missense_variant,p.Thr589Asn,ENST00000375742,;MSH5,missense_variant,p.Thr572Asn,ENST00000375703,;MSH5,missense_variant,p.Thr271Asn,ENST00000431848,;SAPCD1,upstream_gene_variant,,ENST00000415669,;SAPCD1,upstream_gene_variant,,ENST00000425424,;MSH5,upstream_gene_variant,,ENST00000429846,;MSH5,downstream_gene_variant,,ENST00000450148,;SAPCD1,upstream_gene_variant,,ENST00000433778,;RNU6-850P,upstream_gene_variant,,ENST00000516934,;SAPCD1-AS1,downstream_gene_variant,,ENST00000419679,;MSH5,downstream_gene_variant,,ENST00000468602,;MSH5-SAPCD1,upstream_gene_variant,,ENST00000491552,;MSH5-SAPCD1,missense_variant,p.Thr97Asn,ENST00000498473,;MSH5-SAPCD1,missense_variant,p.Thr589Asn,ENST00000493662,;MSH5,missense_variant,p.Thr572Asn,ENST00000423982,;MSH5,missense_variant,p.Thr30Asn,ENST00000484309,;MSH5,3_prime_UTR_variant,,ENST00000463144,;MSH5,non_coding_transcript_exon_variant,,ENST00000494646,;SAPCD1,upstream_gene_variant,,ENST00000494299,;MSH5-SAPCD1,upstream_gene_variant,,ENST00000476085,;MSH5,downstream_gene_variant,,ENST00000467319,;MSH5,upstream_gene_variant,,ENST00000494458,;MSH5,downstream_gene_variant,,ENST00000468136,;	A	ENSG00000204410	ENST00000375703	Transcript	missense_variant	1770	1715	572	T/N	aCc/aAc	rs781415195,COSM421400,COSM421399	.	.	1	MSH5	HGNC	7328	protein_coding	YES	CCDS34410.1	ENSP00000364855	MSH5_HUMAN	Q5SSR2_HUMAN	UPI0000070722	.	deleterious(0.03)	benign(0.037)	19/25	.	Superfamily_domains:SSF52540,Pfam_domain:PF00488,Gene3D:3.40.50.300,hmmpanther:PTHR11361:SF20,hmmpanther:PTHR11361	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAACCTTTG	.	5	BLCA
SLC44A4	0	.	GRCh37	6	31838641	31838641	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.885C>T	p.%3D	p.F295F	ENST00000229729	10/21	147	105	42	144	144	0	SLC44A4,synonymous_variant,p.%3D,ENST00000544672,;SLC44A4,synonymous_variant,p.%3D,ENST00000229729,;SLC44A4,synonymous_variant,p.%3D,ENST00000375562,;SLC44A4,intron_variant,,ENST00000414427,;SLC44A4,downstream_gene_variant,,ENST00000462671,;SLC44A4,downstream_gene_variant,,ENST00000465707,;SLC44A4,non_coding_transcript_exon_variant,,ENST00000479777,;SLC44A4,non_coding_transcript_exon_variant,,ENST00000475563,;	A	ENSG00000204385	ENST00000229729	Transcript	synonymous_variant	906	885	295	F	ttC/ttT	COSM421396	.	.	-1	SLC44A4	HGNC	13941	protein_coding	YES	CCDS4724.2	ENSP00000229729	CTL4_HUMAN	.	UPI00004702CE	.	.	.	10/21	.	hmmpanther:PTHR12385,hmmpanther:PTHR12385:SF37	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTGAAACC	.	5	BLCA
TUBB2B	0	.	GRCh37	6	3225895	3225895	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.428C>T	p.Thr143Met	p.T143M	ENST00000259818	4/4	66	51	14	65	65	0	TUBB2B,missense_variant,p.Thr143Met,ENST00000259818,;TUBB2B,non_coding_transcript_exon_variant,,ENST00000473006,;	A	ENSG00000137285	ENST00000259818	Transcript	missense_variant	620	428	143	T/M	aCg/aTg	.	.	.	-1	TUBB2B	HGNC	30829	protein_coding	YES	CCDS4485.1	ENSP00000259818	TBB2B_HUMAN	O43209_HUMAN,A1L195_HUMAN	UPI0000024E6E	.	deleterious_low_confidence(0.01)	probably_damaging(0.997)	4/4	.	Low_complexity_(Seg):seg,Prints_domain:PR01161,Superfamily_domains:SSF52490,SMART_domains:SM00864,Pfam_domain:PF00091,Gene3D:3.40.50.1440,PROSITE_patterns:PS00227,hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCGTGCCG	.	4	BLCA
PPP2R5D	0	.	GRCh37	6	42977057	42977057	+	Intron	SNP	C	C	A	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1252-3C>A	.	.	ENST00000485511	.	359	288	70	410	410	0	PPP2R5D,splice_region_variant,,ENST00000461010,;PPP2R5D,splice_region_variant,,ENST00000486843,;PPP2R5D,splice_region_variant,,ENST00000485511,;PPP2R5D,splice_region_variant,,ENST00000394110,;PPP2R5D,splice_region_variant,,ENST00000470467,;PPP2R5D,splice_region_variant,,ENST00000472118,;KLHDC3,upstream_gene_variant,,ENST00000326974,;MEA1,downstream_gene_variant,,ENST00000244711,;KLHDC3,upstream_gene_variant,,ENST00000244670,;PPP2R5D,splice_region_variant,,ENST00000230402,;PPP2R5D,splice_region_variant,,ENST00000482315,;PPP2R5D,downstream_gene_variant,,ENST00000467447,;	A	ENSG00000112640	ENST00000485511	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	PPP2R5D	HGNC	9312	protein_coding	YES	CCDS4878.1	ENSP00000417963	2A5D_HUMAN	.	UPI0000124E92	.	.	.	.	11/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACCAGGTG	.	4	BLCA
PHIP	0	.	GRCh37	6	79727268	79727268	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1027C>T	p.His343Tyr	p.H343Y	ENST00000275034	11/40	63	43	19	80	80	0	PHIP,missense_variant,p.His343Tyr,ENST00000275034,;	A	ENSG00000146247	ENST00000275034	Transcript	missense_variant	1195	1027	343	H/Y	Cat/Tat	COSM421227	.	.	-1	PHIP	HGNC	15673	protein_coding	YES	CCDS4987.1	ENSP00000275034	PHIP_HUMAN	.	UPI000013DA40	.	deleterious(0)	possibly_damaging(0.838)	11/40	.	PROSITE_profiles:PS50294,hmmpanther:PTHR16266:SF4,hmmpanther:PTHR16266,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATGATCTG	.	5	BLCA
C6ORF165	0	.	GRCh37	6	88136336	88136336	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.933G>C	p.Lys311Asn	p.K311N	ENST00000369562	8/13	57	41	16	46	46	0	C6ORF165,missense_variant,p.Lys311Asn,ENST00000369562,;C6orf165,missense_variant,p.Lys311Asn,ENST00000507897,;C6ORF165,3_prime_UTR_variant,,ENST00000489338,;C6ORF165,non_coding_transcript_exon_variant,,ENST00000296885,;RP3-382I10.2,upstream_gene_variant,,ENST00000403708,;	C	ENSG00000272514	ENST00000369562	Transcript	missense_variant	1045	933	311	K/N	aaG/aaC	COSM421213,COSM421212	.	.	1	C6ORF165	Uniprot_gn	.	protein_coding	YES	CCDS34498.1	ENSP00000358575	.	Q8N771_HUMAN,H0UI21_HUMAN,D6RBZ4_HUMAN	UPI00001A3AA5	.	deleterious(0.05)	possibly_damaging(0.578)	8/13	.	Pfam_domain:PF12018,hmmpanther:PTHR21442,hmmpanther:PTHR21442:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAAGATAGC	.	5	BLCA
MDN1	0	.	GRCh37	6	90468570	90468570	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2570C>T	p.Ser857Phe	p.S857F	ENST00000369393	18/102	54	40	13	68	68	0	MDN1,missense_variant,p.Ser857Phe,ENST00000369393,;MDN1,missense_variant,p.Ser857Phe,ENST00000428876,;MDN1,missense_variant,p.Ser784Phe,ENST00000439638,;	A	ENSG00000112159	ENST00000369393	Transcript	missense_variant	2686	2570	857	S/F	tCt/tTt	COSM282737,COSM421205	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	benign(0.285)	18/102	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,Pfam_domain:PF07728,Gene3D:3.40.50.300,PIRSF_domain:PIRSF010340,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAAGAT	.	5	BLCA
AGFG2	0	.	GRCh37	7	100151098	100151098	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560C>G	p.Ser187Ter	p.S187*	ENST00000300176	4/12	148	112	36	170	170	0	AGFG2,stop_gained,p.Ser187Ter,ENST00000300176,;AGFG2,intron_variant,,ENST00000262935,;AGFG2,upstream_gene_variant,,ENST00000429987,;AGFG2,non_coding_transcript_exon_variant,,ENST00000474713,;AGFG2,intron_variant,,ENST00000430857,;AGFG2,intron_variant,,ENST00000477022,;	G	ENSG00000106351	ENST00000300176	Transcript	stop_gained	682	560	187	S/*	tCa/tGa	COSM421194	.	.	1	AGFG2	HGNC	5177	protein_coding	YES	CCDS5697.1	ENSP00000300176	AGFG2_HUMAN	A4D2D6_HUMAN	UPI000003E7D5	.	.	.	4/12	.	hmmpanther:PTHR23180:SF233,hmmpanther:PTHR23180	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCAGTTG	.	5	BLCA
GPR37	0	.	GRCh37	7	124404704	124404704	+	Silent	SNP	G	G	T	rs376765252	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327C>A	p.%3D	p.P109P	ENST00000303921	1/2	78	52	26	89	89	0	GPR37,synonymous_variant,p.%3D,ENST00000303921,;	T	ENSG00000170775	ENST00000303921	Transcript	synonymous_variant	978	327	109	P	ccC/ccA	rs376765252,COSM421612	.	.	-1	GPR37	HGNC	4494	protein_coding	YES	CCDS5792.1	ENSP00000306449	GPR37_HUMAN	.	UPI0000001C92	.	.	.	1/2	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCCGGGGGTCC	byFrequency|byCluster	4	BLCA
PAX4	0	.	GRCh37	7	127255253	127255253	+	Intron	SNP	G	G	C	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121-104C>G	.	.	ENST00000341640	.	44	30	14	37	37	0	PAX4,missense_variant,p.Ser4Cys,ENST00000463946,;PAX4,intron_variant,,ENST00000338516,;PAX4,intron_variant,,ENST00000378740,;PAX4,intron_variant,,ENST00000341640,;PAX4,missense_variant,p.Ser4Cys,ENST00000483494,;PAX4,non_coding_transcript_exon_variant,,ENST00000477423,;	C	ENSG00000106331	ENST00000341640	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PAX4	HGNC	8618	protein_coding	YES	CCDS5797.1	ENSP00000339906	PAX4_HUMAN	.	UPI000013C824	.	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGGACCAG	.	5	BLCA
STRA8	0	.	GRCh37	7	134927560	134927560	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286C>A	p.His96Asn	p.H96N	ENST00000275764	3/9	93	73	20	79	79	0	STRA8,missense_variant,p.His96Asn,ENST00000275764,;	A	ENSG00000146857	ENST00000275764	Transcript	missense_variant	286	286	96	H/N	Cat/Aat	COSM421588	.	.	1	STRA8	HGNC	30653	protein_coding	YES	CCDS5839.1	ENSP00000275764	STRA8_HUMAN	.	UPI00001A36D9	.	tolerated(0.09)	benign(0.23)	3/9	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF47459,Gene3D:4.10.280.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCATATT	.	5	BLCA
TBXAS1	0	.	GRCh37	7	139655334	139655334	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.757G>A	p.Glu253Lys	p.E253K	ENST00000416849	8/14	179	128	50	179	179	0	TBXAS1,missense_variant,p.Glu207Lys,ENST00000436047,;TBXAS1,missense_variant,p.Glu207Lys,ENST00000414508,;TBXAS1,missense_variant,p.Glu206Lys,ENST00000411653,;TBXAS1,missense_variant,p.Glu252Lys,ENST00000458722,;TBXAS1,missense_variant,p.Glu139Lys,ENST00000425687,;TBXAS1,missense_variant,p.Glu206Lys,ENST00000448866,;TBXAS1,missense_variant,p.Glu207Lys,ENST00000263552,;TBXAS1,missense_variant,p.Glu206Lys,ENST00000336425,;TBXAS1,missense_variant,p.Glu253Lys,ENST00000416849,;TBXAS1,non_coding_transcript_exon_variant,,ENST00000462275,;TBXAS1,3_prime_UTR_variant,,ENST00000422328,;TBXAS1,non_coding_transcript_exon_variant,,ENST00000469630,;TBXAS1,upstream_gene_variant,,ENST00000494876,;TBXAS1,downstream_gene_variant,,ENST00000476637,;	A	ENSG00000059377	ENST00000416849	Transcript	missense_variant	992	757	253	E/K	Gag/Aag	COSM421576,COSM421575	.	.	1	TBXAS1	HGNC	11609	protein_coding	YES	CCDS55174.1	ENSP00000389414	.	F8WD37_HUMAN,E7EP08_HUMAN,C9JS68_HUMAN,C9J8N6_HUMAN	UPI0001AE7134	.	deleterious(0.02)	benign(0.158)	8/14	.	Superfamily_domains:SSF48264,Pfam_domain:PF00067,Gene3D:1.10.630.10,hmmpanther:PTHR24301:SF2,hmmpanther:PTHR24301	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTGAGGAT	.	5	BLCA
EPHA1	0	.	GRCh37	7	143096402	143096402	+	Missense_Mutation	SNP	C	C	T	rs538968659	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.940G>A	p.Glu314Lys	p.E314K	ENST00000275815	5/18	138	92	46	138	138	0	EPHA1,missense_variant,p.Glu314Lys,ENST00000275815,;EPHA1,non_coding_transcript_exon_variant,,ENST00000488068,;EPHA1,downstream_gene_variant,,ENST00000497891,;EPHA1,upstream_gene_variant,,ENST00000465208,;EPHA1,upstream_gene_variant,,ENST00000479459,;EPHA1,upstream_gene_variant,,ENST00000494989,;	T	ENSG00000146904	ENST00000275815	Transcript	missense_variant	1027	940	314	E/K	Gag/Aag	rs538968659,COSM421565,COSM421566	.	.	-1	EPHA1	HGNC	3385	protein_coding	YES	CCDS5884.1	ENSP00000275815	EPHA1_HUMAN	.	UPI000013DA82	.	tolerated(0.12)	benign(0.002)	5/18	.	Superfamily_domains:SSF57184,PIRSF_domain:PIRSF000666,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF28	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTCTCACAGG	by1000G	3	BLCA
EPHA1	0	.	GRCh37	7	143096426	143096426	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.916G>A	p.Glu306Lys	p.E306K	ENST00000275815	5/18	108	76	32	95	95	0	EPHA1,missense_variant,p.Glu306Lys,ENST00000275815,;EPHA1,non_coding_transcript_exon_variant,,ENST00000488068,;EPHA1,downstream_gene_variant,,ENST00000497891,;EPHA1,upstream_gene_variant,,ENST00000465208,;EPHA1,upstream_gene_variant,,ENST00000479459,;EPHA1,upstream_gene_variant,,ENST00000494989,;	T	ENSG00000146904	ENST00000275815	Transcript	missense_variant	1003	916	306	E/K	Gag/Aag	COSM421563,COSM599769,COSM421564,COSM599770	.	.	-1	EPHA1	HGNC	3385	protein_coding	YES	CCDS5884.1	ENSP00000275815	EPHA1_HUMAN	.	UPI000013DA82	.	tolerated(0.09)	benign(0.001)	5/18	.	Superfamily_domains:SSF57184,PIRSF_domain:PIRSF000666,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF28	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCCTCAGACT	.	3	BLCA
CUL1	0	.	GRCh37	7	148484186	148484186	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1453G>A	p.Glu485Lys	p.E485K	ENST00000325222	13/22	80	57	23	119	119	0	CUL1,missense_variant,p.Glu485Lys,ENST00000602748,;CUL1,missense_variant,p.Glu485Lys,ENST00000325222,;CUL1,missense_variant,p.Glu485Lys,ENST00000409469,;	A	ENSG00000055130	ENST00000325222	Transcript	missense_variant	1732	1453	485	E/K	Gaa/Aaa	COSM302016	.	.	1	CUL1	HGNC	2551	protein_coding	YES	CCDS34772.1	ENSP00000326804	CUL1_HUMAN	Q75MQ1_HUMAN,B3KU45_HUMAN,B3KTW0_HUMAN	UPI00001286E6	.	deleterious(0)	probably_damaging(0.991)	13/22	.	PROSITE_profiles:PS50069,hmmpanther:PTHR11932,hmmpanther:PTHR11932:SF19,Gene3D:1.20.1310.10,Pfam_domain:PF00888,SMART_domains:SM00182,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E485K|c.1453G>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCCGAAGCC	.	5	BLCA
SSPO	0	.	GRCh37	7	149512401	149512401	+	RNA	SNP	C	C	T	rs577730740	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.10721C>T	.	.	ENST00000378016	75/109	22	16	6	29	29	0	SSPO,non_coding_transcript_exon_variant,,ENST00000378016,;SSPO,non_coding_transcript_exon_variant,,ENST00000478854,;SSPO,downstream_gene_variant,,ENST00000481772,;SSPO,upstream_gene_variant,,ENST00000464974,;	T	ENSG00000197558	ENST00000378016	Transcript	non_coding_transcript_exon_variant	10721	.	.	.	.	rs577730740	.	.	1	SSPO	HGNC	21998	processed_transcript	YES	.	.	.	.	.	.	.	.	75/109	.	.	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCCCAGG	by1000G	5	BLCA
KMT2C	0	.	GRCh37	7	151855998	151855998	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11620G>T	p.Glu3874Ter	p.E3874*	ENST00000262189	44/59	416	306	109	477	477	0	KMT2C,stop_gained,p.Glu3874Ter,ENST00000355193,;KMT2C,stop_gained,p.Glu460Ter,ENST00000424877,;KMT2C,stop_gained,p.Glu1380Ter,ENST00000360104,;KMT2C,stop_gained,p.Glu3874Ter,ENST00000262189,;KMT2C,intron_variant,,ENST00000418061,;KMT2C,upstream_gene_variant,,ENST00000485241,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	11839	11620	3874	E/*	Gag/Tag	COSM421534,COSM421533	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	44/59	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCCTCTT	.	5	BLCA
KMT2C	0	.	GRCh37	7	151860062	151860062	+	Nonsense_Mutation	SNP	G	G	A	rs759394420	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10600C>T	p.Gln3534Ter	p.Q3534*	ENST00000262189	43/59	161	108	53	177	177	0	KMT2C,stop_gained,p.Gln3534Ter,ENST00000355193,;KMT2C,stop_gained,p.Gln120Ter,ENST00000424877,;KMT2C,stop_gained,p.Gln1040Ter,ENST00000360104,;KMT2C,stop_gained,p.Gln3534Ter,ENST00000262189,;KMT2C,upstream_gene_variant,,ENST00000418061,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	10819	10600	3534	Q/*	Cag/Tag	rs759394420,COSM421532,COSM421531	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	43/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTGCTTCA	.	5	BLCA
HDAC9	0	.	GRCh37	7	18975511	18975511	+	Silent	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2883C>G	p.%3D	p.L961L	ENST00000441542	22/25	220	150	70	230	230	0	HDAC9,synonymous_variant,p.%3D,ENST00000401921,;HDAC9,synonymous_variant,p.%3D,ENST00000406451,;HDAC9,synonymous_variant,p.%3D,ENST00000432645,;HDAC9,synonymous_variant,p.%3D,ENST00000441542,;HDAC9,non_coding_transcript_exon_variant,,ENST00000496026,;HDAC9,non_coding_transcript_exon_variant,,ENST00000490851,;	G	ENSG00000048052	ENST00000441542	Transcript	synonymous_variant	2883	2883	961	L	ctC/ctG	COSM421509,COSM421508	.	.	1	HDAC9	HGNC	14065	protein_coding	YES	CCDS47553.1	ENSP00000408617	HDAC9_HUMAN	Q8N926_HUMAN,Q75N15_HUMAN,Q75N14_HUMAN,Q75N10_HUMAN,C9JLX1_HUMAN,C9J835_HUMAN,C9J1W4_HUMAN,C9IZS0_HUMAN	UPI000019AB75	.	.	.	22/25	.	hmmpanther:PTHR10625:SF116,hmmpanther:PTHR10625,Gene3D:3.40.800.20,Pfam_domain:PF00850,PIRSF_domain:PIRSF037911,Superfamily_domains:SSF52768	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCACAGC	.	5	BLCA
CDCA7L	0	.	GRCh37	7	21945945	21945945	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>T	p.Glu295Ter	p.E295*	ENST00000406877	6/10	214	154	59	289	289	0	CDCA7L,stop_gained,p.Glu295Ter,ENST00000406877,;CDCA7L,stop_gained,p.Glu249Ter,ENST00000373934,;CDCA7L,stop_gained,p.Glu261Ter,ENST00000356195,;CDCA7L,downstream_gene_variant,,ENST00000435031,;CDCA7L,upstream_gene_variant,,ENST00000435717,;CDCA7L,downstream_gene_variant,,ENST00000457951,;DNAH11,downstream_gene_variant,,ENST00000328843,;CDCA7L,downstream_gene_variant,,ENST00000447180,;DNAH11,downstream_gene_variant,,ENST00000409508,;CDCA7L,non_coding_transcript_exon_variant,,ENST00000465490,;CDCA7L,upstream_gene_variant,,ENST00000488845,;CDCA7L,upstream_gene_variant,,ENST00000489669,;	A	ENSG00000164649	ENST00000406877	Transcript	stop_gained	1163	883	295	E/*	Gaa/Taa	COSM421500	.	.	-1	CDCA7L	HGNC	30777	protein_coding	YES	CCDS5374.1	ENSP00000383986	CDA7L_HUMAN	C9JFL7_HUMAN	UPI000000D840	.	.	.	6/10	.	hmmpanther:PTHR31169:SF4,hmmpanther:PTHR31169	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCCGCAA	.	5	BLCA
RNF216	0	.	GRCh37	7	5662766	5662766	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2497G>C	p.Glu833Gln	p.E833Q	ENST00000389902	17/17	98	72	26	108	108	0	RNF216,missense_variant,p.Glu833Gln,ENST00000389902,;RNF216,missense_variant,p.Glu776Gln,ENST00000425013,;RNF216,non_coding_transcript_exon_variant,,ENST00000469375,;RNF216,3_prime_UTR_variant,,ENST00000389900,;	G	ENSG00000011275	ENST00000389902	Transcript	missense_variant	2765	2497	833	E/Q	Gag/Cag	COSM421906	.	.	-1	RNF216	HGNC	21698	protein_coding	YES	CCDS34594.1	ENSP00000374552	RN216_HUMAN	C9JIV3_HUMAN	UPI000013F5B3	.	tolerated(0.09)	possibly_damaging(0.781)	17/17	.	hmmpanther:PTHR22770:SF13,hmmpanther:PTHR22770	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCACAG	.	5	BLCA
RNF216	0	.	GRCh37	7	5663694	5663694	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2445G>T	p.Lys815Asn	p.K815N	ENST00000389902	16/17	31	21	9	33	33	0	RNF216,missense_variant,p.Lys815Asn,ENST00000389902,;RNF216,missense_variant,p.Lys758Asn,ENST00000425013,;RNF216,non_coding_transcript_exon_variant,,ENST00000469375,;RNF216,3_prime_UTR_variant,,ENST00000389900,;	A	ENSG00000011275	ENST00000389902	Transcript	missense_variant	2713	2445	815	K/N	aaG/aaT	COSM421905	.	.	-1	RNF216	HGNC	21698	protein_coding	YES	CCDS34594.1	ENSP00000374552	RN216_HUMAN	C9JIV3_HUMAN	UPI000013F5B3	.	deleterious(0.01)	probably_damaging(0.998)	16/17	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22770:SF13,hmmpanther:PTHR22770	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCATTCTTTCT	.	3	BLCA
RNF216	0	.	GRCh37	7	5663714	5663714	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2425G>A	p.Glu809Lys	p.E809K	ENST00000389902	16/17	31	23	8	38	38	0	RNF216,missense_variant,p.Glu809Lys,ENST00000389902,;RNF216,missense_variant,p.Glu752Lys,ENST00000425013,;RNF216,non_coding_transcript_exon_variant,,ENST00000469375,;RNF216,3_prime_UTR_variant,,ENST00000389900,;	T	ENSG00000011275	ENST00000389902	Transcript	missense_variant	2693	2425	809	E/K	Gaa/Aaa	COSM421904	.	.	-1	RNF216	HGNC	21698	protein_coding	YES	CCDS34594.1	ENSP00000374552	RN216_HUMAN	C9JIV3_HUMAN	UPI000013F5B3	.	tolerated(0.06)	benign(0.332)	16/17	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22770:SF13,hmmpanther:PTHR22770	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCTTCAGCCT	.	3	BLCA
POMZP3	0	.	GRCh37	7	76255311	76255314	+	Intron	DEL	ACTC	ACTC	-	rs774966717	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	ACTC	ACTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.65+3_65+6delGAGT	.	.	ENST00000310842	.	47	40	7	71	71	0	POMZP3,splice_region_variant,,ENST00000275569,;POMZP3,splice_region_variant,,ENST00000454397,;POMZP3,splice_region_variant,,ENST00000310842,;UPK3B,intron_variant,,ENST00000419923,;UPK3B,intron_variant,,ENST00000443097,;AC004980.7,non_coding_transcript_exon_variant,,ENST00000450661,;AC004980.7,non_coding_transcript_exon_variant,,ENST00000418663,;AC004980.7,downstream_gene_variant,,ENST00000423084,;POMZP3,splice_region_variant,,ENST00000424818,;	-	ENSG00000146707	ENST00000310842	Transcript	splice_region_variant	.	.	.	.	.	rs774966717	.	.	-1	POMZP3	HGNC	9203	protein_coding	YES	CCDS43606.1	ENSP00000309233	POZP3_HUMAN	.	UPI000059D9C5	.	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GATAATACTCACATC	byFrequency	2	BLCA
MAGI2	0	.	GRCh37	7	77885323	77885323	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1984G>A	p.Val662Ile	p.V662I	ENST00000354212	10/22	39	27	11	71	71	0	MAGI2,missense_variant,p.Val494Ile,ENST00000536571,;MAGI2,missense_variant,p.Val499Ile,ENST00000535697,;MAGI2,missense_variant,p.Val662Ile,ENST00000354212,;MAGI2,missense_variant,p.Val662Ile,ENST00000419488,;MAGI2,missense_variant,p.Val662Ile,ENST00000522391,;MAGI2,non_coding_transcript_exon_variant,,ENST00000519748,;MAGI2,non_coding_transcript_exon_variant,,ENST00000520379,;	T	ENSG00000187391	ENST00000354212	Transcript	missense_variant	2238	1984	662	V/I	Gta/Ata	COSM421874	.	.	-1	MAGI2	HGNC	18957	protein_coding	YES	CCDS5594.1	ENSP00000346151	MAGI2_HUMAN	.	UPI00001615D2	.	deleterious(0)	probably_damaging(0.997)	10/22	.	PROSITE_profiles:PS50106,hmmpanther:PTHR10316:SF27,hmmpanther:PTHR10316,Pfam_domain:PF00595,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTACTTCTG	.	5	BLCA
PCLO	0	.	GRCh37	7	82580534	82580534	+	Frame_Shift_Del	DEL	C	C	-	rs573459682	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9370delG	p.Ala3124LeufsTer4	p.A3124Lfs*4	ENST00000333891	6/25	32	20	11	30	30	0	PCLO,frameshift_variant,p.Ala3124LeufsTer4,ENST00000333891,;PCLO,frameshift_variant,p.Ala3124LeufsTer4,ENST00000423517,;PCLO,upstream_gene_variant,,ENST00000437081,;	-	ENSG00000186472	ENST00000333891	Transcript	frameshift_variant	9708	9370	3124	A/X	Gct/ct	rs573459682	.	.	-1	PCLO	HGNC	13406	protein_coding	YES	CCDS47630.1	ENSP00000334319	PCLO_HUMAN	.	UPI0001573469	.	.	.	6/25	.	hmmpanther:PTHR14113:SF6,hmmpanther:PTHR14113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CATCAGCCGTAT	byCluster	2	BLCA
ZKSCAN1	0	.	GRCh37	7	99621928	99621928	+	Missense_Mutation	SNP	G	G	A	rs148037051	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.578G>A	p.Arg193Gln	p.R193Q	ENST00000324306	3/6	55	40	15	63	63	0	ZKSCAN1,missense_variant,p.Arg193Gln,ENST00000324306,;ZKSCAN1,missense_variant,p.Arg157Gln,ENST00000426572,;ZKSCAN1,intron_variant,,ENST00000535170,;ZKSCAN1,downstream_gene_variant,,ENST00000432317,;ZKSCAN1,non_coding_transcript_exon_variant,,ENST00000482979,;	A	ENSG00000106261	ENST00000324306	Transcript	missense_variant	812	578	193	R/Q	cGa/cAa	rs148037051,COSM77081	.	.	1	ZKSCAN1	HGNC	13101	protein_coding	YES	CCDS34698.1	ENSP00000323148	ZKSC1_HUMAN	E9PC66_HUMAN,C9JRM9_HUMAN,B3KRF7_HUMAN	UPI00000726DD	.	tolerated(0.13)	benign(0.001)	3/6	.	hmmpanther:PTHR23226:SF63,hmmpanther:PTHR23226	A:0.0006	A:0.0015	A:0	.	A:0.001	A:0	A:0	A:0.0009	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCACGAGGTA	byFrequency|byCluster|by1000G	5	BLCA
VPS13B	0	.	GRCh37	8	100403871	100403871	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3021G>A	p.%3D	p.K1007K	ENST00000358544	21/62	127	108	18	81	81	0	VPS13B,synonymous_variant,p.%3D,ENST00000395996,;VPS13B,synonymous_variant,p.%3D,ENST00000358544,;VPS13B,synonymous_variant,p.%3D,ENST00000357162,;VPS13B,non_coding_transcript_exon_variant,,ENST00000522802,;VPS13B,non_coding_transcript_exon_variant,,ENST00000521037,;VPS13B,synonymous_variant,p.%3D,ENST00000496144,;	A	ENSG00000132549	ENST00000358544	Transcript	synonymous_variant	3132	3021	1007	K	aaG/aaA	COSM421818,COSM421819	.	.	1	VPS13B	HGNC	2183	protein_coding	YES	CCDS6280.1	ENSP00000351346	VP13B_HUMAN	.	UPI00001D2D35	.	.	.	21/62	.	hmmpanther:PTHR12517,hmmpanther:PTHR12517:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAAAGCAGCA	.	4	BLCA
TSNARE1	0	.	GRCh37	8	143436064	143436064	+	Missense_Mutation	SNP	G	G	A	rs557067615	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22C>T	p.Arg8Cys	p.R8C	ENST00000307180	2/14	171	145	26	101	101	0	TSNARE1,missense_variant,p.Arg8Cys,ENST00000524325,;TSNARE1,missense_variant,p.Arg8Cys,ENST00000520462,;TSNARE1,missense_variant,p.Arg8Cys,ENST00000307180,;TSNARE1,missense_variant,p.Arg8Cys,ENST00000520166,;TSNARE1,missense_variant,p.Arg8Cys,ENST00000519651,;TSNARE1,missense_variant,p.Arg24Cys,ENST00000518720,;	A	ENSG00000171045	ENST00000307180	Transcript	missense_variant	140	22	8	R/C	Cgt/Tgt	rs557067615,COSM421715	.	.	-1	TSNARE1	HGNC	26437	protein_coding	YES	CCDS6384.1	ENSP00000303437	TSNA1_HUMAN	E5RHW3_HUMAN,A0AVG3_HUMAN	UPI00001AEE5E	.	deleterious_low_confidence(0)	unknown(0)	2/14	.	Low_complexity_(Seg):seg	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCACGGGCGA	by1000G	4	BLCA
ZNF517	0	.	GRCh37	8	146033636	146033636	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1335C>T	p.%3D	p.L445L	ENST00000359971	5/5	26	13	12	18	18	0	ZNF517,synonymous_variant,p.%3D,ENST00000359971,;ZNF517,synonymous_variant,p.%3D,ENST00000531720,;ZNF517,synonymous_variant,p.%3D,ENST00000529429,;ZNF517,intron_variant,,ENST00000525105,;ZNF517,downstream_gene_variant,,ENST00000528012,;ZNF517,intron_variant,,ENST00000526178,;ZNF517,synonymous_variant,p.%3D,ENST00000533965,;ZNF517,non_coding_transcript_exon_variant,,ENST00000530879,;	T	ENSG00000197363	ENST00000359971	Transcript	synonymous_variant	1442	1335	445	L	ctC/ctT	COSM421698	.	.	1	ZNF517	HGNC	27984	protein_coding	YES	CCDS6434.1	ENSP00000353058	ZN517_HUMAN	.	UPI000045770F	.	.	.	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24379:SF20,hmmpanther:PTHR24379,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTCCACAG	.	5	BLCA
IKBKB	0	.	GRCh37	8	42177314	42177314	+	Intron	SNP	G	G	T	novel	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1578+150G>T	.	.	ENST00000520810	.	9	5	4	9	9	0	IKBKB,intron_variant,,ENST00000520810,;IKBKB,intron_variant,,ENST00000520835,;IKBKB,intron_variant,,ENST00000416505,;IKBKB,intron_variant,,ENST00000379708,;IKBKB,intron_variant,,ENST00000522147,;IKBKB,non_coding_transcript_exon_variant,,ENST00000522785,;IKBKB,intron_variant,,ENST00000517502,;IKBKB,non_coding_transcript_exon_variant,,ENST00000520201,;IKBKB,intron_variant,,ENST00000520655,;IKBKB,intron_variant,,ENST00000517890,;IKBKB,intron_variant,,ENST00000521661,;IKBKB,intron_variant,,ENST00000523105,;IKBKB,intron_variant,,ENST00000518679,;IKBKB,intron_variant,,ENST00000523517,;IKBKB,intron_variant,,ENST00000342222,;IKBKB,downstream_gene_variant,,ENST00000517917,;IKBKB,downstream_gene_variant,,ENST00000518647,;IKBKB,downstream_gene_variant,,ENST00000522545,;IKBKB,upstream_gene_variant,,ENST00000519938,;IKBKB,upstream_gene_variant,,ENST00000523018,;IKBKB,upstream_gene_variant,,ENST00000523599,;IKBKB,upstream_gene_variant,,ENST00000522133,;	T	ENSG00000104365	ENST00000520810	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	IKBKB	HGNC	5960	protein_coding	YES	CCDS6128.1	ENSP00000430684	IKKB_HUMAN	E5RGW5_HUMAN	UPI0000033729	.	.	.	.	15/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GAAAAGAGGCC	.	2	BLCA
HNF4G	0	.	GRCh37	8	76465276	76465276	+	Splice_Site	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460-1G>A	.	p.X154_splice	ENST00000396423	.	88	68	19	74	74	0	HNF4G,splice_acceptor_variant,,ENST00000396423,;HNF4G,splice_acceptor_variant,,ENST00000354370,;HNF4G,splice_acceptor_variant,,ENST00000396419,;	A	ENSG00000164749	ENST00000396423	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM422064,COSM1133835	.	.	1	HNF4G	HGNC	5026	protein_coding	YES	CCDS6220.2	ENSP00000379701	HNF4G_HUMAN	F1D8Q4_HUMAN	UPI0000D47E07	.	.	.	.	4/9	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.?|c.349-1G>A|3,SITE|p.?|c.460-1G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTAGATCTC	.	5	BLCA
ZNF189	0	.	GRCh37	9	104170392	104170392	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.342C>G	p.Phe114Leu	p.F114L	ENST00000339664	3/3	38	16	22	68	68	0	ZNF189,missense_variant,p.Phe114Leu,ENST00000339664,;ZNF189,missense_variant,p.Phe72Leu,ENST00000259395,;ZNF189,missense_variant,p.Phe100Leu,ENST00000374861,;	G	ENSG00000136870	ENST00000339664	Transcript	missense_variant	471	342	114	F/L	ttC/ttG	COSM3652358,COSM422018	.	.	1	ZNF189	HGNC	12980	protein_coding	YES	CCDS6754.1	ENSP00000342019	ZN189_HUMAN	.	UPI000013FAD5	.	tolerated(0.66)	possibly_damaging(0.827)	3/3	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF123	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.F114F|c.342C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCCTATG	.	5	BLCA
PHF19	0	.	GRCh37	9	123620306	123620306	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1659G>A	p.%3D	p.E553E	ENST00000373896	15/15	93	37	55	89	89	0	PHF19,synonymous_variant,p.%3D,ENST00000373896,;PHF19,synonymous_variant,p.%3D,ENST00000419155,;PHF19,downstream_gene_variant,,ENST00000453868,;PSMD5-AS1,downstream_gene_variant,,ENST00000447891,;PHF19,non_coding_transcript_exon_variant,,ENST00000487555,;PHF19,downstream_gene_variant,,ENST00000467266,;PHF19,downstream_gene_variant,,ENST00000462229,;PHF19,downstream_gene_variant,,ENST00000464712,;	T	ENSG00000119403	ENST00000373896	Transcript	synonymous_variant	1912	1659	553	E	gaG/gaA	COSM421972	.	.	-1	PHF19	HGNC	24566	protein_coding	YES	CCDS35116.1	ENSP00000363003	PHF19_HUMAN	F5H8K3_HUMAN,B0QZ72_HUMAN,B0QZ51_HUMAN,B0QZ50_HUMAN	UPI000016050A	.	.	.	15/15	.	hmmpanther:PTHR12628,hmmpanther:PTHR12628:SF6,Pfam_domain:PF14061	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCTCCCC	.	5	BLCA
SNAPC4	0	.	GRCh37	9	139273744	139273744	+	Silent	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2535C>G	p.%3D	p.L845L	ENST00000298532	21/23	32	19	13	44	44	0	SNAPC4,synonymous_variant,p.%3D,ENST00000298532,;	C	ENSG00000165684	ENST00000298532	Transcript	synonymous_variant	2904	2535	845	L	ctC/ctG	COSM422447	.	.	-1	SNAPC4	HGNC	11137	protein_coding	YES	CCDS6998.1	ENSP00000298532	SNPC4_HUMAN	.	UPI000013E4EC	.	.	.	21/23	.	hmmpanther:PTHR10641,hmmpanther:PTHR10641:SF191	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGAAGAGGTG	.	5	BLCA
FOCAD	0	.	GRCh37	9	20720513	20720513	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267C>T	p.%3D	p.L89L	ENST00000380249	6/46	213	113	100	288	288	0	FOCAD,synonymous_variant,p.%3D,ENST00000380249,;FOCAD,synonymous_variant,p.%3D,ENST00000338382,;MIR491,downstream_gene_variant,,ENST00000384877,;FOCAD,downstream_gene_variant,,ENST00000604036,;	T	ENSG00000188352	ENST00000380249	Transcript	synonymous_variant	631	267	89	L	ctC/ctT	COSM422400	.	.	1	FOCAD	HGNC	23377	protein_coding	YES	CCDS34993.1	ENSP00000369599	FOCAD_HUMAN	S4R450_HUMAN,S4R400_HUMAN,S4R3S9_HUMAN	UPI00002111D4	.	.	.	6/46	.	Pfam_domain:PF12530,hmmpanther:PTHR16212,hmmpanther:PTHR16212:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTCAACTT	.	5	BLCA
RGP1	0	.	GRCh37	9	35752111	35752111	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.921C>T	p.%3D	p.L307L	ENST00000378078	8/9	44	17	26	51	51	0	RGP1,synonymous_variant,p.%3D,ENST00000456972,;RGP1,synonymous_variant,p.%3D,ENST00000378078,;MSMP,downstream_gene_variant,,ENST00000436428,;GBA2,upstream_gene_variant,,ENST00000378094,;GBA2,upstream_gene_variant,,ENST00000378103,;GBA2,upstream_gene_variant,,ENST00000545786,;RP11-112J3.15,downstream_gene_variant,,ENST00000425499,;GBA2,upstream_gene_variant,,ENST00000489025,;MSMP,downstream_gene_variant,,ENST00000414286,;RGP1,non_coding_transcript_exon_variant,,ENST00000496906,;	T	ENSG00000107185	ENST00000378078	Transcript	synonymous_variant	1062	921	307	L	ctC/ctT	COSM422376,COSM422377	.	.	1	RGP1	HGNC	21965	protein_coding	YES	CCDS47964.2	ENSP00000367318	RGP1_HUMAN	.	UPI0000139519	.	.	.	8/9	.	hmmpanther:PTHR12507:SF3,hmmpanther:PTHR12507,Pfam_domain:PF08737	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGCTC	.	5	BLCA
RGP1	0	.	GRCh37	9	35752709	35752709	+	Silent	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1014C>G	p.%3D	p.L338L	ENST00000378078	9/9	45	21	24	52	52	0	RGP1,synonymous_variant,p.%3D,ENST00000456972,;RGP1,synonymous_variant,p.%3D,ENST00000378078,;MSMP,downstream_gene_variant,,ENST00000436428,;GBA2,upstream_gene_variant,,ENST00000378094,;GBA2,upstream_gene_variant,,ENST00000378103,;GBA2,upstream_gene_variant,,ENST00000545786,;RP11-112J3.15,downstream_gene_variant,,ENST00000425499,;GBA2,upstream_gene_variant,,ENST00000489025,;MSMP,downstream_gene_variant,,ENST00000414286,;RGP1,non_coding_transcript_exon_variant,,ENST00000496906,;	G	ENSG00000107185	ENST00000378078	Transcript	synonymous_variant	1155	1014	338	L	ctC/ctG	COSM422374,COSM422375	.	.	1	RGP1	HGNC	21965	protein_coding	YES	CCDS47964.2	ENSP00000367318	RGP1_HUMAN	.	UPI0000139519	.	.	.	9/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12507:SF3,hmmpanther:PTHR12507	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTACTCCTACC	.	4	BLCA
RBM10	0	.	GRCh37	X	47041369	47041369	+	Silent	SNP	C	C	G	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1713C>G	p.%3D	p.T571T	ENST00000377604	16/24	52	22	30	57	57	0	RBM10,synonymous_variant,p.%3D,ENST00000329236,;RBM10,synonymous_variant,p.%3D,ENST00000377604,;RBM10,synonymous_variant,p.%3D,ENST00000345781,;RBM10,downstream_gene_variant,,ENST00000478410,;RBM10,downstream_gene_variant,,ENST00000496012,;	G	ENSG00000182872	ENST00000377604	Transcript	synonymous_variant	2455	1713	571	T	acC/acG	COSM422559	.	.	1	RBM10	HGNC	9896	protein_coding	YES	CCDS14274.1	ENSP00000366829	RBM10_HUMAN	.	UPI0000070DF1	.	.	.	16/24	.	hmmpanther:PTHR13948:SF4,hmmpanther:PTHR13948	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTACCTACCA	.	5	BLCA
RBM10	0	.	GRCh37	X	47045533	47045533	+	Nonsense_Mutation	SNP	A	A	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2500A>T	p.Lys834Ter	p.K834*	ENST00000377604	22/24	48	23	24	53	53	0	RBM10,stop_gained,p.Lys756Ter,ENST00000329236,;RBM10,stop_gained,p.Lys834Ter,ENST00000377604,;RBM10,stop_gained,p.Lys757Ter,ENST00000345781,;UBA1,upstream_gene_variant,,ENST00000377351,;RBM10,downstream_gene_variant,,ENST00000478410,;RBM10,downstream_gene_variant,,ENST00000496012,;	T	ENSG00000182872	ENST00000377604	Transcript	stop_gained	3242	2500	834	K/*	Aag/Tag	COSM422557	.	.	1	RBM10	HGNC	9896	protein_coding	YES	CCDS14274.1	ENSP00000366829	RBM10_HUMAN	.	UPI0000070DF1	.	.	.	22/24	.	hmmpanther:PTHR13948:SF4,hmmpanther:PTHR13948	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCCAAGAGG	.	5	BLCA
AMER1	0	.	GRCh37	X	63413139	63413139	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28C>T	p.Gln10Ter	p.Q10*	ENST00000330258	2/2	80	36	43	94	94	0	AMER1,stop_gained,p.Gln10Ter,ENST00000374869,;AMER1,stop_gained,p.Gln10Ter,ENST00000403336,;AMER1,stop_gained,p.Gln10Ter,ENST00000330258,;	A	ENSG00000184675	ENST00000330258	Transcript	stop_gained	301	28	10	Q/*	Cag/Tag	COSM225107,COSM225108	.	.	-1	AMER1	HGNC	26837	protein_coding	YES	CCDS14377.2	ENSP00000329117	AMER1_HUMAN	.	UPI0000EDA0FC	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22237,hmmpanther:PTHR22237:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAGCAG	.	5	BLCA
ZMYM3	0	.	GRCh37	X	70470410	70470410	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945G>A	p.%3D	p.R315R	ENST00000353904	5/25	23	8	15	19	19	0	ZMYM3,synonymous_variant,p.%3D,ENST00000373982,;ZMYM3,synonymous_variant,p.%3D,ENST00000373988,;ZMYM3,synonymous_variant,p.%3D,ENST00000373984,;ZMYM3,synonymous_variant,p.%3D,ENST00000314425,;ZMYM3,synonymous_variant,p.%3D,ENST00000373998,;ZMYM3,synonymous_variant,p.%3D,ENST00000373981,;ZMYM3,synonymous_variant,p.%3D,ENST00000353904,;ZMYM3,intron_variant,,ENST00000373978,;ZMYM3,non_coding_transcript_exon_variant,,ENST00000489332,;	T	ENSG00000147130	ENST00000353904	Transcript	synonymous_variant	1133	945	315	R	cgG/cgA	COSM422498	.	.	-1	ZMYM3	HGNC	13054	protein_coding	YES	CCDS14409.1	ENSP00000343909	ZMYM3_HUMAN	.	UPI000013C339	.	.	.	5/25	.	Superfamily_domains:SSF57716,SMART_domains:SM00746,Pfam_domain:PF06467,hmmpanther:PTHR11697,hmmpanther:PTHR11697:SF32	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGTCCGGCA	.	5	BLCA
MAGEE1	0	.	GRCh37	X	75650837	75650837	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F1-01A-11D-A10S-08	TCGA-C4-A0F1-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2514G>C	p.Leu838Phe	p.L838F	ENST00000361470	1/1	26	14	11	34	34	0	MAGEE1,missense_variant,p.Leu838Phe,ENST00000361470,;	C	ENSG00000198934	ENST00000361470	Transcript	missense_variant	2792	2514	838	L/F	ttG/ttC	COSM422487,COSM422488	.	.	1	MAGEE1	HGNC	24934	protein_coding	YES	CCDS14433.1	ENSP00000354912	MAGE1_HUMAN	Q5JXC7_HUMAN	UPI000006F138	.	deleterious(0)	probably_damaging(0.999)	1/1	.	Pfam_domain:PF01454,PROSITE_profiles:PS50838	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTTTTGATGCA	.	4	BLCA
TAF5	0	.	GRCh37	10	105133276	105133277	+	Nonsense_Mutation	INS	-	-	A	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.722dupA	p.Tyr241Ter	p.Y241*	ENST00000369839	2/11	356	251	105	185	185	0	TAF5,stop_gained,p.Tyr241Ter,ENST00000351396,;TAF5,stop_gained,p.Tyr241Ter,ENST00000369839,;	A	ENSG00000148835	ENST00000369839	Transcript	stop_gained	744-745	721-722	241	Y/*	tat/tAat	.	.	.	1	TAF5	HGNC	11539	protein_coding	YES	CCDS7547.1	ENSP00000358854	TAF5_HUMAN	.	UPI000013DB5B	.	.	.	2/11	.	hmmpanther:PTHR19879,Pfam_domain:PF04494,Superfamily_domains:SSF160897	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTTTTATCCT	.	3	BLCA
PPP2R1B	0	.	GRCh37	11	111614171	111614171	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1483G>A	p.Val495Ile	p.V495I	ENST00000311129	12/16	188	174	14	225	225	0	PPP2R1B,missense_variant,p.Val495Ile,ENST00000527614,;PPP2R1B,missense_variant,p.Val368Ile,ENST00000393055,;PPP2R1B,missense_variant,p.Val334Ile,ENST00000427203,;PPP2R1B,missense_variant,p.Val495Ile,ENST00000311129,;PPP2R1B,missense_variant,p.Val450Ile,ENST00000341980,;PPP2R1B,missense_variant,p.Val431Ile,ENST00000426998,;PPP2R1B,intron_variant,,ENST00000531890,;PPP2R1B,3_prime_UTR_variant,,ENST00000534521,;PPP2R1B,non_coding_transcript_exon_variant,,ENST00000529672,;	T	ENSG00000137713	ENST00000311129	Transcript	missense_variant	1504	1483	495	V/I	Gtt/Att	COSM415345	.	.	-1	PPP2R1B	HGNC	9303	protein_coding	YES	CCDS8348.1	ENSP00000311344	2AAB_HUMAN	.	UPI000006CEE0	.	tolerated(1)	benign(0.005)	12/16	.	PROSITE_profiles:PS50077,hmmpanther:PTHR10648:SF9,hmmpanther:PTHR10648,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGAACAATAG	.	2	BLCA
TECTA	0	.	GRCh37	11	121039497	121039497	+	Silent	SNP	G	G	C	rs758886759	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5862G>C	p.%3D	p.T1954T	ENST00000392793	20/24	96	70	25	180	180	0	TECTA,synonymous_variant,p.%3D,ENST00000264037,;TECTA,synonymous_variant,p.%3D,ENST00000392793,;	C	ENSG00000109927	ENST00000392793	Transcript	synonymous_variant	6133	5862	1954	T	acG/acC	rs758886759,COSM415302,COSM3444337	.	.	1	TECTA	HGNC	11720	protein_coding	YES	CCDS8434.1	ENSP00000376543	TECTA_HUMAN	.	UPI000045659D	.	.	.	20/24	.	SMART_domains:SM00241,Pfam_domain:PF00100,hmmpanther:PTHR11339,PROSITE_profiles:PS51034	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGACGACTCG	.	5	BLCA
PHRF1	0	.	GRCh37	11	607297	607297	+	Missense_Mutation	SNP	G	G	A	rs752856198	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1838G>A	p.Arg613Gln	p.R613Q	ENST00000416188	14/18	195	148	47	203	203	0	PHRF1,missense_variant,p.Arg613Gln,ENST00000416188,;PHRF1,missense_variant,p.Arg614Gln,ENST00000264555,;PHRF1,missense_variant,p.Arg612Gln,ENST00000413872,;PHRF1,missense_variant,p.Arg610Gln,ENST00000533464,;PHRF1,missense_variant,p.Arg614Gln,ENST00000534320,;PHRF1,downstream_gene_variant,,ENST00000532550,;	A	ENSG00000070047	ENST00000416188	Transcript	missense_variant	1931	1838	613	R/Q	cGg/cAg	rs752856198,COSM415514,COSM415515	.	.	1	PHRF1	HGNC	24351	protein_coding	YES	CCDS44507.1	ENSP00000410626	PHRF1_HUMAN	.	UPI000189A834	.	tolerated(1)	benign(0.057)	14/18	.	hmmpanther:PTHR15242:SF1,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTCGGAACT	byFrequency	5	BLCA
PLCB3	0	.	GRCh37	11	64035013	64035013	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3690G>A	p.%3D	p.E1230E	ENST00000540288	31/32	11	3	7	10	10	0	PLCB3,synonymous_variant,p.%3D,ENST00000325234,;PLCB3,synonymous_variant,p.%3D,ENST00000279230,;PLCB3,synonymous_variant,p.%3D,ENST00000540288,;BAD,downstream_gene_variant,,ENST00000493798,;BAD,downstream_gene_variant,,ENST00000309032,;GPR137,upstream_gene_variant,,ENST00000546139,;BAD,downstream_gene_variant,,ENST00000544785,;BAD,downstream_gene_variant,,ENST00000492141,;BAD,downstream_gene_variant,,ENST00000394531,;BAD,downstream_gene_variant,,ENST00000394532,;PLCB3,downstream_gene_variant,,ENST00000536243,;	A	ENSG00000149782	ENST00000540288	Transcript	synonymous_variant	3793	3690	1230	E	gaG/gaA	COSM415476	.	.	1	PLCB3	HGNC	9056	protein_coding	YES	CCDS8064.1	ENSP00000443631	PLCB3_HUMAN	.	UPI0000131AFF	.	.	.	31/32	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGGAGAACAC	.	3	BLCA
PYGM	0	.	GRCh37	11	64525784	64525784	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.462C>T	p.%3D	p.A154A	ENST00000164139	4/20	208	50	157	310	310	0	PYGM,synonymous_variant,p.%3D,ENST00000164139,;PYGM,intron_variant,,ENST00000377432,;PYGM,upstream_gene_variant,,ENST00000460413,;	A	ENSG00000068976	ENST00000164139	Transcript	synonymous_variant	861	462	154	A	gcC/gcT	COSM415464	.	.	-1	PYGM	HGNC	9726	protein_coding	YES	CCDS8079.1	ENSP00000164139	PYGM_HUMAN	.	UPI000013C5AC	.	.	.	4/20	.	Superfamily_domains:SSF53756,PIRSF_domain:PIRSF000460,TIGRFAM_domain:TIGR02093,Pfam_domain:PF00343,Gene3D:3.40.50.2000,hmmpanther:PTHR11468:SF1,hmmpanther:PTHR11468	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGGCGGCCAG	.	5	BLCA
ANKRD49	0	.	GRCh37	11	94231644	94231644	+	Silent	SNP	T	T	C	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666T>C	p.%3D	p.Y222Y	ENST00000544612	3/3	116	72	44	192	192	0	ANKRD49,synonymous_variant,p.%3D,ENST00000544612,;ANKRD49,synonymous_variant,p.%3D,ENST00000302755,;ANKRD49,3_prime_UTR_variant,,ENST00000544253,;MRE11A,upstream_gene_variant,,ENST00000393241,;ANKRD49,downstream_gene_variant,,ENST00000540349,;MRE11A,upstream_gene_variant,,ENST00000323977,;ANKRD49,downstream_gene_variant,,ENST00000541144,;MRE11A,upstream_gene_variant,,ENST00000540013,;ANKRD49,downstream_gene_variant,,ENST00000535502,;MRE11A,upstream_gene_variant,,ENST00000538923,;ANKRD49,downstream_gene_variant,,ENST00000545130,;MRE11A,upstream_gene_variant,,ENST00000536754,;MRE11A,upstream_gene_variant,,ENST00000323929,;MRE11A,upstream_gene_variant,,ENST00000407439,;ANKRD49,non_coding_transcript_exon_variant,,ENST00000538535,;MRE11A,upstream_gene_variant,,ENST00000541157,;MRE11A,upstream_gene_variant,,ENST00000536144,;ANKRD49,downstream_gene_variant,,ENST00000539883,;ANKRD49,downstream_gene_variant,,ENST00000544514,;ANKRD49,downstream_gene_variant,,ENST00000534911,;	C	ENSG00000168876	ENST00000544612	Transcript	synonymous_variant	1163	666	222	Y	taT/taC	COSM415691	.	.	1	ANKRD49	HGNC	25970	protein_coding	YES	CCDS8300.1	ENSP00000440396	ANR49_HUMAN	F5H227_HUMAN	UPI000004A09B	.	.	.	3/3	.	hmmpanther:PTHR24144,Gene3D:1.25.40.20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTATCACTA	.	5	BLCA
HSP90B1	0	.	GRCh37	12	104326676	104326676	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>A	p.Glu123Lys	p.E123K	ENST00000299767	4/18	204	114	90	180	180	0	HSP90B1,missense_variant,p.Glu123Lys,ENST00000299767,;HSP90B1,missense_variant,p.Glu39Lys,ENST00000549334,;MIR3652,downstream_gene_variant,,ENST00000579335,;RP11-642P15.1,upstream_gene_variant,,ENST00000548897,;RP11-642P15.1,upstream_gene_variant,,ENST00000388789,;HSP90B1,3_prime_UTR_variant,,ENST00000540297,;HSP90B1,non_coding_transcript_exon_variant,,ENST00000548462,;HSP90B1,downstream_gene_variant,,ENST00000548622,;	A	ENSG00000166598	ENST00000299767	Transcript	missense_variant	549	367	123	E/K	Gaa/Aaa	COSM415662	.	.	1	HSP90B1	HGNC	12028	protein_coding	YES	CCDS9094.1	ENSP00000299767	ENPL_HUMAN	Q5CAQ5_HUMAN,F8W026_HUMAN,B4DHT9_HUMAN	UPI0000129FBA	.	tolerated(1)	benign(0.018)	4/18	.	HAMAP:MF_00505,hmmpanther:PTHR11528,hmmpanther:PTHR11528:SF44,Gene3D:3.30.565.10,Pfam_domain:PF13589,PIRSF_domain:PIRSF002583,SMART_domains:SM00387,Superfamily_domains:SSF55874	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGATGAAAAT	.	5	BLCA
HNF1A	0	.	GRCh37	12	121426830	121426830	+	Missense_Mutation	SNP	C	C	T	rs201934320	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.521C>T	p.Ala174Val	p.A174V	ENST00000257555	2/10	64	38	26	71	71	0	HNF1A,missense_variant,p.Ala174Val,ENST00000541395,;HNF1A,missense_variant,p.Ala174Val,ENST00000400024,;HNF1A,missense_variant,p.Ala174Val,ENST00000402929,;HNF1A,missense_variant,p.Ala57Val,ENST00000543427,;HNF1A,missense_variant,p.Ala174Val,ENST00000544413,;HNF1A,missense_variant,p.Ala174Val,ENST00000257555,;HNF1A,intron_variant,,ENST00000538626,;HNF1A,intron_variant,,ENST00000535955,;HNF1A,missense_variant,p.Ala222Val,ENST00000560968,;HNF1A,missense_variant,p.Ala174Val,ENST00000538646,;HNF1A,missense_variant,p.Ala174Val,ENST00000541924,;HNF1A,intron_variant,,ENST00000544574,;HNF1A,intron_variant,,ENST00000540108,;	T	ENSG00000135100	ENST00000257555	Transcript	missense_variant	747	521	174	A/V	gCg/gTg	rs201934320,CM082858,CD076809,COSM415997,COSM2175441	.	.	1	HNF1A	HGNC	11621	protein_coding	YES	CCDS9209.1	ENSP00000257555	.	E0YMJ2_HUMAN,E0YMJ1_HUMAN,B8YNW1_HUMAN,B8YNU9_HUMAN	UPI000013CF6C	.	tolerated(0.22)	benign(0.167)	2/10	.	hmmpanther:PTHR11568:SF4,hmmpanther:PTHR11568,Pfam_domain:PF04814,Gene3D:1.10.260.40,Superfamily_domains:SSF47413	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.?|c.526+1G>A|4	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGGCGCAGC	byCluster|by1000G	4	BLCA
KMT2D	0	.	GRCh37	12	49425220	49425220	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13268delC	p.Pro4423HisfsTer9	p.P4423Hfs*9	ENST00000301067	39/54	103	78	25	44	44	0	KMT2D,frameshift_variant,p.Pro4423HisfsTer9,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000549743,;KMT2D,upstream_gene_variant,,ENST00000552391,;	-	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	13268	13268	4423	P/X	cCa/ca	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	39/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R4150W|c.12448C>T|3,BUFFER|p.R4420W|c.13258C>T|3	INDELOCATOR*|VARSCANI*|PINDEL	GCACATGGCTCT	.	3	BLCA
KMT2D	0	.	GRCh37	12	49434781	49434785	+	Frame_Shift_Del	DEL	GCACA	GCACA	-	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	GCACA	GCACA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6768_6772delTGTGC	p.Val2257Ter	p.V2257*	ENST00000301067	31/54	128	77	51	69	69	0	KMT2D,frameshift_variant,p.Val2257Ter,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	-	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	6768-6772	6768-6772	2256-2258	AVP/AX	gcTGTGCct/gcct	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	31/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCTCAGGCACAGCCAA	.	3	BLCA
LIMA1	0	.	GRCh37	12	50616335	50616335	+	Intron	SNP	T	T	C	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166-67A>G	.	.	ENST00000394943	.	53	29	24	48	48	0	LIMA1,5_prime_UTR_variant,,ENST00000552783,;LIMA1,intron_variant,,ENST00000341247,;LIMA1,intron_variant,,ENST00000394943,;LIMA1,intron_variant,,ENST00000551691,;LIMA1,intron_variant,,ENST00000550592,;LIMA1,upstream_gene_variant,,ENST00000552909,;LIMA1,upstream_gene_variant,,ENST00000552823,;RP3-405J10.4,intron_variant,,ENST00000551284,;LIMA1,intron_variant,,ENST00000550611,;LIMA1,upstream_gene_variant,,ENST00000552008,;LIMA1,intron_variant,,ENST00000552720,;LIMA1,upstream_gene_variant,,ENST00000551486,;RP3-405J10.2,upstream_gene_variant,,ENST00000548666,;	C	ENSG00000050405	ENST00000394943	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	LIMA1	HGNC	24636	protein_coding	YES	CCDS44877.1	ENSP00000378400	LIMA1_HUMAN	Q59FE8_HUMAN,F8VVQ7_HUMAN,F8VTU2_HUMAN	UPI0000EE6469	.	.	.	.	3/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTTGTAAA	.	5	BLCA
KRT74	0	.	GRCh37	12	52962081	52962081	+	Silent	SNP	G	G	A	rs200004454	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1227C>T	p.%3D	p.G409G	ENST00000305620	7/9	162	121	41	118	118	0	KRT74,synonymous_variant,p.%3D,ENST00000305620,;KRT74,synonymous_variant,p.%3D,ENST00000549343,;KRT74,non_coding_transcript_exon_variant,,ENST00000546384,;	A	ENSG00000170484	ENST00000305620	Transcript	synonymous_variant	1275	1227	409	G	ggC/ggT	rs200004454,COSM416186	.	.	-1	KRT74	HGNC	28929	protein_coding	YES	CCDS8832.1	ENSP00000307240	K2C74_HUMAN	.	UPI00001AEDF9	.	.	.	7/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF94,hmmpanther:PTHR23239,Pfam_domain:PF00038,Gene3D:1.20.5.170,Superfamily_domains:SSF64593	A:0.0008	A:0	A:0.0029	.	A:0	A:0	A:0.002	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGCGCCCTC	byFrequency|byCluster|by1000G	5	BLCA
A2ML1	0	.	GRCh37	12	9006743	9006743	+	Silent	SNP	T	T	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2610T>A	p.%3D	p.I870I	ENST00000299698	21/36	53	40	12	66	66	0	A2ML1,synonymous_variant,p.%3D,ENST00000299698,;A2ML1,synonymous_variant,p.%3D,ENST00000541459,;A2ML1,synonymous_variant,p.%3D,ENST00000539547,;A2ML1,upstream_gene_variant,,ENST00000545850,;	A	ENSG00000166535	ENST00000299698	Transcript	synonymous_variant	2790	2610	870	I	atT/atA	COSM416473	.	.	1	A2ML1	HGNC	23336	protein_coding	YES	CCDS8596.2	ENSP00000299698	A2ML1_HUMAN	H0YGG5_HUMAN	UPI000022904E	.	.	.	21/36	.	hmmpanther:PTHR11412:SF79,hmmpanther:PTHR11412,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTATTAGTAC	.	5	BLCA
RCBTB1	0	.	GRCh37	13	50129739	50129739	+	Missense_Mutation	SNP	C	C	T	rs370652161	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515G>A	p.Arg172Gln	p.R172Q	ENST00000378302	6/13	52	36	16	80	80	0	RCBTB1,missense_variant,p.Arg172Gln,ENST00000258646,;RCBTB1,missense_variant,p.Arg172Gln,ENST00000546015,;RCBTB1,missense_variant,p.Arg172Gln,ENST00000378302,;RCBTB1,upstream_gene_variant,,ENST00000490058,;	T	ENSG00000136144	ENST00000378302	Transcript	missense_variant	776	515	172	R/Q	cGa/cAa	rs370652161,COSM416346	.	.	-1	RCBTB1	HGNC	18243	protein_coding	YES	CCDS9418.1	ENSP00000367552	RCBT1_HUMAN	Q9NVI3_HUMAN,B3KR20_HUMAN	UPI000007181F	.	tolerated(0.12)	probably_damaging(0.934)	6/13	.	PROSITE_profiles:PS50012,hmmpanther:PTHR22870:SF133,hmmpanther:PTHR22870,Pfam_domain:PF00415,Gene3D:2.130.10.30,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCGAGGA	byCluster	5	BLCA
SNW1	0	.	GRCh37	14	78184464	78184464	+	Silent	SNP	G	G	A	rs753036600	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1578C>T	p.%3D	p.H526H	ENST00000261531	14/14	308	200	107	416	416	0	SNW1,missense_variant,p.Thr553Met,ENST00000555761,;SNW1,synonymous_variant,p.%3D,ENST00000554775,;SNW1,synonymous_variant,p.%3D,ENST00000261531,;SLIRP,intron_variant,,ENST00000556375,;SLIRP,intron_variant,,ENST00000557623,;SLIRP,intron_variant,,ENST00000557431,;SLIRP,downstream_gene_variant,,ENST00000557342,;SLIRP,downstream_gene_variant,,ENST00000238688,;SLIRP,downstream_gene_variant,,ENST00000556831,;SLIRP,downstream_gene_variant,,ENST00000553981,;SNW1,3_prime_UTR_variant,,ENST00000556428,;SLIRP,intron_variant,,ENST00000556310,;SLIRP,downstream_gene_variant,,ENST00000556956,;SLIRP,downstream_gene_variant,,ENST00000555890,;	A	ENSG00000100603	ENST00000261531	Transcript	synonymous_variant	1641	1578	526	H	caC/caT	rs753036600,COSM416590	.	.	-1	SNW1	HGNC	16696	protein_coding	YES	CCDS9867.1	ENSP00000261531	SNW1_HUMAN	G3V4X8_HUMAN	UPI000000DB2D	.	.	.	14/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12096	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTCGTGTTC	byFrequency	5	BLCA
HBA1	0	.	GRCh37	16	226701	226701	+	5'UTR	SNP	C	C	G	rs571903706	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-15C>G	.	.	ENST00000320868	1/3	19	11	7	27	27	0	HBA1,5_prime_UTR_variant,,ENST00000320868,;HBA2,downstream_gene_variant,,ENST00000397806,;HBA2,downstream_gene_variant,,ENST00000251595,;HBA1,upstream_gene_variant,,ENST00000397797,;HBQ1,upstream_gene_variant,,ENST00000199708,;Y_RNA,upstream_gene_variant,,ENST00000384514,;HBA1,non_coding_transcript_exon_variant,,ENST00000472694,;HBA2,downstream_gene_variant,,ENST00000482565,;HBA2,downstream_gene_variant,,ENST00000484216,;HBA1,upstream_gene_variant,,ENST00000487791,;	G	ENSG00000206172	ENST00000320868	Transcript	5_prime_UTR_variant	23	.	.	.	.	rs571903706	.	.	1	HBA1	HGNC	4823	protein_coding	YES	CCDS10399.1	ENSP00000322421	HBA_HUMAN	D1MGQ2_HUMAN,Q7Z6G4_HUMAN,P78461_HUMAN,G3V1N2_HUMAN	UPI0000000239	.	.	.	1/3	.	.	G:0.0002	G:0	G:0	.	G:0	G:0	G:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	AGACTCAGAGA	by1000G	4	BLCA
ATP2A1	0	.	GRCh37	16	28913653	28913653	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2470C>T	p.Pro824Ser	p.P824S	ENST00000357084	17/22	780	725	55	230	230	0	ATP2A1,missense_variant,p.Pro699Ser,ENST00000536376,;ATP2A1,missense_variant,p.Pro824Ser,ENST00000395503,;ATP2A1,missense_variant,p.Pro824Ser,ENST00000357084,;RABEP2,downstream_gene_variant,,ENST00000357573,;RABEP2,downstream_gene_variant,,ENST00000544477,;ATP2A1,upstream_gene_variant,,ENST00000564112,;RABEP2,downstream_gene_variant,,ENST00000358201,;ATP2A1,downstream_gene_variant,,ENST00000564732,;	T	ENSG00000196296	ENST00000357084	Transcript	missense_variant	2737	2470	824	P/S	Ccc/Tcc	COSM417063	.	.	1	ATP2A1	HGNC	811	protein_coding	YES	CCDS10643.1	ENSP00000349595	AT2A1_HUMAN	H3BUU3_HUMAN	UPI000003B461	.	tolerated(0.74)	probably_damaging(0.999)	17/22	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF215,Gene3D:1.20.1110.10,TIGRFAM_domain:TIGR01116,Pfam_domain:PF00689,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAGCCCCAAG	.	2	BLCA
RPGRIP1L	0	.	GRCh37	16	53679568	53679568	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2652G>A	p.%3D	p.L884L	ENST00000379925	17/27	108	74	34	79	79	0	RPGRIP1L,synonymous_variant,p.%3D,ENST00000563746,;RPGRIP1L,synonymous_variant,p.%3D,ENST00000564374,;RPGRIP1L,synonymous_variant,p.%3D,ENST00000262135,;RPGRIP1L,synonymous_variant,p.%3D,ENST00000379925,;	T	ENSG00000103494	ENST00000379925	Transcript	synonymous_variant	2703	2652	884	L	ctG/ctA	COSM416976	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	.	.	17/27	.	hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF4,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S886L|c.2657C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAATCAGAGG	.	5	BLCA
TP53I13	0	.	GRCh37	17	27899299	27899299	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.653C>G	p.Ser218Ter	p.S218*	ENST00000301057	6/7	72	13	58	91	91	0	TP53I13,stop_gained,p.Ser218Ter,ENST00000301057,;TP53I13,stop_gained,p.Ser193Ter,ENST00000578749,;GIT1,downstream_gene_variant,,ENST00000225394,;TP53I13,downstream_gene_variant,,ENST00000583940,;GIT1,downstream_gene_variant,,ENST00000394869,;GIT1,downstream_gene_variant,,ENST00000581348,;GIT1,downstream_gene_variant,,ENST00000579937,;GIT1,downstream_gene_variant,,ENST00000585148,;GIT1,downstream_gene_variant,,ENST00000578266,;TP53I13,downstream_gene_variant,,ENST00000580183,;TP53I13,upstream_gene_variant,,ENST00000378818,;TP53I13,downstream_gene_variant,,ENST00000581411,;TP53I13,downstream_gene_variant,,ENST00000582829,;RP11-68I3.2,intron_variant,,ENST00000581474,;RP11-68I3.4,downstream_gene_variant,,ENST00000579050,;TP53I13,downstream_gene_variant,,ENST00000584522,;TP53I13,downstream_gene_variant,,ENST00000578073,;TP53I13,3_prime_UTR_variant,,ENST00000577934,;TP53I13,non_coding_transcript_exon_variant,,ENST00000579674,;GIT1,downstream_gene_variant,,ENST00000581925,;GIT1,downstream_gene_variant,,ENST00000586574,;GIT1,downstream_gene_variant,,ENST00000578670,;GIT1,downstream_gene_variant,,ENST00000473217,;GIT1,downstream_gene_variant,,ENST00000491377,;TP53I13,downstream_gene_variant,,ENST00000580132,;	G	ENSG00000167543	ENST00000301057	Transcript	stop_gained	768	653	218	S/*	tCa/tGa	COSM417621	.	.	1	TP53I13	HGNC	25102	protein_coding	YES	CCDS42289.1	ENSP00000301057	P5I13_HUMAN	K7ERH9_HUMAN,K7ELD4_HUMAN,K7EKX3_HUMAN,K7EJC6_HUMAN,J3KSX2_HUMAN	UPI000003B08D	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCTCAGCCC	.	5	BLCA
TP53	0	.	GRCh37	17	7577568	7577568	+	Missense_Mutation	SNP	C	C	A	rs730882005	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.713G>T	p.Cys238Phe	p.C238F	ENST00000269305	7/11	76	8	68	93	93	0	TP53,missense_variant,p.Cys238Phe,ENST00000413465,;TP53,missense_variant,p.Cys238Phe,ENST00000420246,;TP53,missense_variant,p.Cys238Phe,ENST00000269305,;TP53,missense_variant,p.Cys106Phe,ENST00000509690,;TP53,missense_variant,p.Cys238Phe,ENST00000359597,;TP53,missense_variant,p.Cys145Phe,ENST00000514944,;TP53,missense_variant,p.Cys238Phe,ENST00000445888,;TP53,missense_variant,p.Cys238Phe,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	A	ENSG00000141510	ENST00000269305	Transcript	missense_variant	903	713	238	C/F	tGt/tTt	rs730882005,CM034930,TP53_g.13350G>A,TP53_g.13350G>T,TP53_g.13350G>C,COSM43778,COSM44653,COSM11059,COSM179812,COSM99626,COSM249080,COSM99624,COSM179811,COSM249079,COSM3388191,COSM3403263,COSM2744631,COSM1649400,COSM99625,COSM179813,COSM249081	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,PROSITE_patterns:PS00348,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	likely_pathogenic	0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.C238F|c.713G>T|12,SITE|p.C145F|c.434G>T|12,SITE|p.C238F|c.713G>T|11,SITE|p.C238F|c.713G>T|42,SITE|p.C238F|c.713G>T|6,SITE|p.C238F|c.713G>T|6,CODON|p.0?|c.1_1182del1182|6,CODON|p.C238*|c.714T>A|4,CODON|p.C238W|c.714T>G|3,CODON|p.C238Y|c.713G>A|7,CODON|p.C238Y|c.713G>A|16,CODON|p.C238Y|c.713G>A|15,CODON|p.C238Y|c.713G>A|65,CODON|p.C238Y|c.713G>A|9,CODON|p.C145Y|c.434G>A|16,CODON|p.C238S|c.713G>C|8,BUFFER|p.N239_C242delNSSC|c.715_726del12|3,BUFFER|p.C242fs*5|c.723delC|5,BUFFER|p.C149fs*5|c.444delC|5,BUFFER|p.C242fs*5|c.723delC|12,BUFFER|p.S241delS|c.721_723delTCC|3,BUFFER|p.C242fs*5|c.723delC|5,BUFFER|p.S241F|c.722_723CC>TT|5,BUFFER|p.C242G|c.724T>G|6,BUFFER|p.C242G|c.724T>G|3,BUFFER|p.C242G|c.724T>G|3,BUFFER|p.C149G|c.445T>G|3,BUFFER|p.C242S|c.724T>A|11,BUFFER|p.C242G|c.724T>G|3,BUFFER|p.C242G|c.724T>G|3,BUFFER|p.C242R|c.724T>C|12,BUFFER|p.C242fs*5|c.722delC|6,BUFFER|p.S241fs*6|c.721delT|9,BUFFER|p.S148F|c.443C>T|15,BUFFER|p.S241Y|c.722C>A|4,BUFFER|p.S241Y|c.722C>A|15,BUFFER|p.S241C|c.722C>G|28,BUFFER|p.S241C|c.722C>G|3,BUFFER|p.S148Y|c.443C>A|5,BUFFER|p.S241F|c.722C>T|15,BUFFER|p.S241F|c.722C>T|6,BUFFER|p.S241F|c.722C>T|83,BUFFER|p.S241C|c.722C>G|4,BUFFER|p.S241Y|c.722C>A|4,BUFFER|p.S241Y|c.722C>A|5,BUFFER|p.S241Y|c.722C>A|5,BUFFER|p.S148C|c.443C>G|4,BUFFER|p.S241F|c.722C>T|9,BUFFER|p.S241F|c.722C>T|14,BUFFER|p.S241T|c.721T>A|6,BUFFER|p.S241A|c.721T>G|10,BUFFER|p.S241P|c.721T>C|5,BUFFER|p.S240R|c.720T>A|4,BUFFER|p.S240R|c.720T>G|4,BUFFER|p.S240S|c.720T>C|3,BUFFER|p.S240I|c.719G>T|6,BUFFER|p.S240C|c.718A>T|3,BUFFER|p.S240G|c.718A>G|16,BUFFER|p.N239K|c.717C>G|5,BUFFER|p.N146S|c.437A>G|6,BUFFER|p.N239T|c.716A>C|6,BUFFER|p.N239S|c.716A>G|3,BUFFER|p.N239S|c.716A>G|6,BUFFER|p.N239S|c.716A>G|4,BUFFER|p.N239S|c.716A>G|25,BUFFER|p.N239S|c.716A>G|5,BUFFER|p.N239D|c.715A>G|11,BUFFER|p.N239D|c.715A>G|13,BUFFER|p.N239D|c.715A>G|44,BUFFER|p.N146D|c.436A>G|14,BUFFER|p.N239Y|c.715A>T|6,BUFFER|p.N239D|c.715A>G|14,BUFFER|p.N239fs*1|c.714_715insT|3,BUFFER|p.N239fs*25|c.714_715insN|12,BUFFER|p.N239fs*1|c.714_715insT|4,BUFFER|p.N239fs*1|c.714_715insT|3,BUFFER|p.N146fs*1|c.435_436insT|3,BUFFER|p.C238G|c.712T>G|3,BUFFER|p.C145G|c.433T>G|3,BUFFER|p.C238G|c.712T>G|4,BUFFER|p.C238R|c.712T>C|17,BUFFER|p.C238G|c.712T>G|3,BUFFER|p.C238S|c.712T>A|12,BUFFER|p.M237I|c.711G>A|15,BUFFER|p.M237I|c.711G>T|7,BUFFER|p.M237I|c.711G>C|9,BUFFER|p.M237I|c.711G>A|78,BUFFER|p.M237I|c.711G>T|3,BUFFER|p.M237I|c.711G>A|10,BUFFER|p.M237I|c.711G>T|31,BUFFER|p.M144I|c.432G>T|7,BUFFER|p.M237I|c.711G>A|15,BUFFER|p.M237I|c.711G>T|6,BUFFER|p.M237I|c.711G>T|7,BUFFER|p.M144I|c.432G>A|15,BUFFER|p.M237I|c.711G>A|9,BUFFER|p.M237K|c.710T>A|9,BUFFER|p.M237R|c.710T>G|3,BUFFER|p.M237T|c.710T>C|3,BUFFER|p.M144T|c.431T>C|3,BUFFER|p.M237T|c.710T>C|3,BUFFER|p.M237T|c.710T>C|5,BUFFER|p.M144V|c.430A>G|3,BUFFER|p.M237V|c.709A>G|3,BUFFER|p.M237V|c.709A>G|3,BUFFER|p.M237L|c.709A>T|4,BUFFER|p.M237V|c.709A>G|10,BUFFER|p.Y236delY|c.706_708delTAC|4,BUFFER|p.Y236*|c.708C>G|3,BUFFER|p.Y143*|c.429C>A|4,BUFFER|p.Y236*|c.708C>A|4,BUFFER|p.Y236*|c.708C>A|4,BUFFER|p.Y236*|c.708C>A|11,BUFFER|p.Y236C|c.707A>G|5,BUFFER|p.Y236C|c.707A>G|4,BUFFER|p.Y236C|c.707A>G|11,BUFFER|p.Y236C|c.707A>G|55,BUFFER|p.Y143C|c.428A>G|12,BUFFER|p.Y236C|c.707A>G|11,BUFFER|p.Y236S|c.707A>C|4,BUFFER|p.Y236N|c.706T>A|3,BUFFER|p.Y236N|c.706T>A|16,BUFFER|p.Y236D|c.706T>G|7,BUFFER|p.Y236H|c.706T>C|10,BUFFER|p.Y143N|c.427T>A|3,BUFFER|p.Y236N|c.706T>A|3,BUFFER|p.N235T|c.704A>C|3,BUFFER|p.N235I|c.704A>T|4,BUFFER|p.N235S|c.704A>G|15,BUFFER|p.N235D|c.703A>G|7,BUFFER|p.Y234delY|c.700_702delTAC|3,BUFFER|p.Y234*|c.702C>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTACACATG	byFrequency|byCluster	5	BLCA
FASN	0	.	GRCh37	17	80059594	80059594	+	5'Flank	SNP	C	C	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000306749	.	278	53	224	283	282	1	CCDC57,missense_variant,p.Arg905Ser,ENST00000389641,;CCDC57,missense_variant,p.Arg905Ser,ENST00000392347,;CCDC57,3_prime_UTR_variant,,ENST00000392345,;CCDC57,intron_variant,,ENST00000583053,;FASN,upstream_gene_variant,,ENST00000306749,;CCDC57,non_coding_transcript_exon_variant,,ENST00000584717,;CCDC57,downstream_gene_variant,,ENST00000582100,;CCDC57,downstream_gene_variant,,ENST00000583593,;	G	ENSG00000169710	ENST00000306749	Transcript	upstream_gene_variant	.	.	.	.	.	COSM417913,COSM417914	.	3386	-1	FASN	HGNC	3594	protein_coding	YES	CCDS11801.1	ENSP00000304592	FAS_HUMAN	.	UPI000013EB82	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGGGCCTCTG	.	3	BLCA
SETBP1	0	.	GRCh37	18	42530725	42530725	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1420G>A	p.Glu474Lys	p.E474K	ENST00000282030	4/6	102	30	72	147	147	0	SETBP1,missense_variant,p.Glu474Lys,ENST00000282030,;	A	ENSG00000152217	ENST00000282030	Transcript	missense_variant	1716	1420	474	E/K	Gag/Aag	COSM417839,COSM1388712	.	.	1	SETBP1	HGNC	15573	protein_coding	YES	CCDS11923.2	ENSP00000282030	SETBP_HUMAN	K7ES17_HUMAN	UPI0000201C54	.	deleterious(0.02)	benign(0.217)	4/6	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF322	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATGAGTCC	.	5	BLCA
SWSAP1	0	.	GRCh37	19	11486191	11486191	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>A	p.%3D	p.K63K	ENST00000312423	2/2	465	350	115	393	393	0	SWSAP1,synonymous_variant,p.%3D,ENST00000312423,;EPOR,downstream_gene_variant,,ENST00000592375,;EPOR,downstream_gene_variant,,ENST00000222139,;CTD-2342J14.6,upstream_gene_variant,,ENST00000590399,;EPOR,downstream_gene_variant,,ENST00000588681,;EPOR,downstream_gene_variant,,ENST00000586890,;EPOR,downstream_gene_variant,,ENST00000588859,;EPOR,downstream_gene_variant,,ENST00000590927,;EPOR,downstream_gene_variant,,ENST00000591958,;	A	ENSG00000173928	ENST00000312423	Transcript	synonymous_variant	248	189	63	K	aaG/aaA	COSM417760	.	.	1	SWSAP1	HGNC	26638	protein_coding	YES	CCDS12259.1	ENSP00000310008	SWAP1_HUMAN	.	UPI000013F2CE	.	.	.	2/2	.	Gene3D:3.40.50.300,Pfam_domain:PF05729,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGAAGATCCG	.	5	BLCA
ANO8	0	.	GRCh37	19	17440975	17440975	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1232C>A	p.Ala411Asp	p.A411D	ENST00000159087	10/18	111	84	27	93	93	0	ANO8,missense_variant,p.Ala411Asp,ENST00000159087,;GTPBP3,upstream_gene_variant,,ENST00000361619,;GTPBP3,upstream_gene_variant,,ENST00000598532,;ANO8,missense_variant,p.Ala411Asp,ENST00000597643,;GTPBP3,upstream_gene_variant,,ENST00000601213,;ANO8,downstream_gene_variant,,ENST00000600711,;	T	ENSG00000074855	ENST00000159087	Transcript	missense_variant	1391	1232	411	A/D	gCc/gAc	COSM417702	.	.	-1	ANO8	HGNC	29329	protein_coding	YES	CCDS32949.1	ENSP00000159087	ANO8_HUMAN	.	UPI00001C200F	.	tolerated(1)	benign(0.008)	10/18	.	hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF26,Pfam_domain:PF04547	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCGGCACTC	.	5	BLCA
USF2	0	.	GRCh37	19	35770065	35770065	+	Intron	SNP	G	G	A	rs372149835	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952-5G>A	.	.	ENST00000222305	.	28	20	7	31	31	0	USF2,missense_variant,p.Ala345Thr,ENST00000594064,;USF2,splice_region_variant,,ENST00000222305,;USF2,splice_region_variant,,ENST00000379134,;USF2,splice_region_variant,,ENST00000599471,;USF2,splice_region_variant,,ENST00000599625,;USF2,splice_region_variant,,ENST00000343550,;USF2,splice_region_variant,,ENST00000595068,;HAMP,upstream_gene_variant,,ENST00000598398,;USF2,downstream_gene_variant,,ENST00000596380,;HAMP,upstream_gene_variant,,ENST00000222304,;USF2,splice_region_variant,,ENST00000600341,;USF2,splice_region_variant,,ENST00000607959,;USF2,splice_region_variant,,ENST00000600898,;USF2,splice_region_variant,,ENST00000594264,;HAMP,upstream_gene_variant,,ENST00000593580,;USF2,downstream_gene_variant,,ENST00000597671,;	A	ENSG00000105698	ENST00000222305	Transcript	splice_region_variant	.	.	.	.	.	rs372149835	.	.	1	USF2	HGNC	12594	protein_coding	YES	CCDS12452.1	ENSP00000222305	USF2_HUMAN	.	UPI0000137E4A	.	.	.	.	9/9	.	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	TGTCCGCCAGA	byFrequency|byCluster	4	BLCA
ZNF567	0	.	GRCh37	19	37210842	37210842	+	Missense_Mutation	SNP	G	G	T	rs754735551	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1123G>T	p.Ala375Ser	p.A375S	ENST00000585696	3/3	77	59	17	121	121	0	ZNF567,missense_variant,p.Ala375Ser,ENST00000392163,;ZNF567,missense_variant,p.Ala375Ser,ENST00000360729,;ZNF567,missense_variant,p.Ala406Ser,ENST00000536254,;ZNF567,missense_variant,p.Ala375Ser,ENST00000585696,;ZNF567,missense_variant,p.Ala375Ser,ENST00000588311,;ZNF567,intron_variant,,ENST00000589264,;ZNF850,intron_variant,,ENST00000589390,;ZNF567,intron_variant,,ENST00000591308,;	T	ENSG00000189042	ENST00000585696	Transcript	missense_variant	2353	1123	375	A/S	Gca/Tca	rs754735551,COSM418302	.	.	1	ZNF567	HGNC	28696	protein_coding	YES	CCDS12495.1	ENSP00000467379	ZN567_HUMAN	.	UPI00001BBFD4	.	tolerated(1)	probably_damaging(0.987)	3/3	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24404:SF25,hmmpanther:PTHR24404,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAGGCAAAT	.	5	BLCA
HDGFRP2	0	.	GRCh37	19	4499523	4499523	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1611G>A	p.%3D	p.E537E	ENST00000301284	14/16	61	52	9	43	43	0	HDGFRP2,synonymous_variant,p.%3D,ENST00000586428,;HDGFRP2,synonymous_variant,p.%3D,ENST00000592417,;HDGFRP2,synonymous_variant,p.%3D,ENST00000301284,;HDGFRP2,synonymous_variant,p.%3D,ENST00000586684,;HDGFRP2,synonymous_variant,p.%3D,ENST00000587016,;HDGFRP2,upstream_gene_variant,,ENST00000588271,;HDGFRP2,upstream_gene_variant,,ENST00000591328,;PLIN4,downstream_gene_variant,,ENST00000301286,;HDGFRP2,3_prime_UTR_variant,,ENST00000590872,;	A	ENSG00000167674	ENST00000301284	Transcript	synonymous_variant	1675	1611	537	E	gaG/gaA	COSM418179	.	.	1	HDGFRP2	Uniprot_gn	.	protein_coding	YES	CCDS42472.1	ENSP00000301284	HDGR2_HUMAN	K7EQ06_HUMAN,K7EJP7_HUMAN,K7EIG6_HUMAN	UPI000013E6F7	.	.	.	14/16	.	hmmpanther:PTHR12550,hmmpanther:PTHR12550:SF18,Gene3D:1.20.930.10,Pfam_domain:PF11467,Superfamily_domains:0051900	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGAGAAGGC	.	5	BLCA
SULT2B1	0	.	GRCh37	19	49055556	49055556	+	Missense_Mutation	SNP	A	A	T	rs776828696	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.47A>T	p.Tyr16Phe	p.Y16F	ENST00000201586	1/7	62	42	20	47	47	0	SULT2B1,missense_variant,p.Tyr16Phe,ENST00000201586,;	T	ENSG00000088002	ENST00000201586	Transcript	missense_variant	225	47	16	Y/F	tAt/tTt	rs776828696,COSM418144	.	.	1	SULT2B1	HGNC	11459	protein_coding	YES	CCDS12723.1	ENSP00000201586	ST2B1_HUMAN	.	UPI0000073F98	.	tolerated_low_confidence(0.16)	benign(0.002)	1/7	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTATGAAG	byFrequency	5	BLCA
KLK5	0	.	GRCh37	19	51453127	51453127	+	Missense_Mutation	SNP	C	C	T	rs369412139	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319G>A	p.Ala107Thr	p.A107T	ENST00000336334	3/6	57	12	44	70	70	0	KLK5,missense_variant,p.Ala107Thr,ENST00000391809,;KLK5,missense_variant,p.Ala107Thr,ENST00000336334,;KLK5,missense_variant,p.Ala107Thr,ENST00000594846,;KLK5,missense_variant,p.Ala107Thr,ENST00000593428,;CTB-147C22.8,upstream_gene_variant,,ENST00000594939,;CTB-147C22.8,upstream_gene_variant,,ENST00000601506,;KLK5,non_coding_transcript_exon_variant,,ENST00000595585,;	T	ENSG00000167754	ENST00000336334	Transcript	missense_variant	672	319	107	A/T	Gcc/Acc	rs369412139,COSM418096	.	.	-1	KLK5	HGNC	6366	protein_coding	YES	CCDS12810.1	ENSP00000337733	KLK5_HUMAN	M0QXX2_HUMAN	UPI000013E718	.	deleterious(0)	probably_damaging(0.995)	3/6	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24275:SF51,hmmpanther:PTHR24275,PROSITE_patterns:PS00134,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494,Prints_domain:PR00722	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTGGGCGGCCG	byCluster	4	BLCA
PPP6R1	0	.	GRCh37	19	55758320	55758320	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.152C>T	p.Pro51Leu	p.P51L	ENST00000412770	2/24	51	30	21	64	64	0	PPP6R1,missense_variant,p.Pro51Leu,ENST00000412770,;PPP6R1,missense_variant,p.Pro51Leu,ENST00000592242,;PPP6R1,missense_variant,p.Pro51Leu,ENST00000587283,;PPP6R1,upstream_gene_variant,,ENST00000591602,;PPP6R1,upstream_gene_variant,,ENST00000591323,;	A	ENSG00000105063	ENST00000412770	Transcript	missense_variant	719	152	51	P/L	cCa/cTa	COSM418021	.	.	-1	PPP6R1	HGNC	29195	protein_coding	YES	CCDS46186.1	ENSP00000414202	PP6R1_HUMAN	Q96ID3_HUMAN,K7EM28_HUMAN	UPI0000202C6D	.	deleterious(0.01)	probably_damaging(0.999)	2/24	.	hmmpanther:PTHR12634:SF13,hmmpanther:PTHR12634	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGTGGCTGC	.	5	BLCA
PRR22	0	.	GRCh37	19	5783026	5783026	+	Missense_Mutation	SNP	G	G	A	rs537666246	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1232C>T	p.Pro411Leu	p.P411L	ENST00000419421	3/3	21	13	8	25	25	0	PRR22,missense_variant,p.Pro411Leu,ENST00000419421,;PRR22,3_prime_UTR_variant,,ENST00000390672,;CATSPERD,downstream_gene_variant,,ENST00000381624,;CTB-54O9.9,downstream_gene_variant,,ENST00000586012,;DUS3L,downstream_gene_variant,,ENST00000590343,;DUS3L,downstream_gene_variant,,ENST00000309061,;DUS3L,downstream_gene_variant,,ENST00000320699,;CATSPERD,downstream_gene_variant,,ENST00000448307,;CATSPERD,downstream_gene_variant,,ENST00000309164,;DUS3L,downstream_gene_variant,,ENST00000591560,;DUS3L,downstream_gene_variant,,ENST00000593229,;DUS3L,downstream_gene_variant,,ENST00000592468,;DUS3L,downstream_gene_variant,,ENST00000590087,;DUS3L,downstream_gene_variant,,ENST00000589085,;DUS3L,downstream_gene_variant,,ENST00000589841,;DUS3L,downstream_gene_variant,,ENST00000592673,;DUS3L,downstream_gene_variant,,ENST00000590110,;	A	ENSG00000212123	ENST00000419421	Transcript	missense_variant	1337	1232	411	P/L	cCg/cTg	rs537666246,COSM417999,COSM1133564	.	.	-1	PRR22	HGNC	28354	protein_coding	YES	CCDS45933.1	ENSP00000407653	PRR22_HUMAN	.	UPI00017E10D9	.	tolerated(0.33)	benign(0.001)	3/3	.	Low_complexity_(Seg):seg	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCCGGGGGA	by1000G	5	BLCA
EMR4P	0	.	GRCh37	19	6981182	6981182	+	RNA	SNP	C	C	A	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.498G>T	.	.	ENST00000600751	6/16	29	25	4	30	30	0	EMR4P,non_coding_transcript_exon_variant,,ENST00000600751,;EMR4P,intron_variant,,ENST00000597372,;	A	ENSG00000268758	ENST00000600751	Transcript	non_coding_transcript_exon_variant	498	.	.	.	.	.	.	.	-1	EMR4P	HGNC	19240	processed_transcript	YES	.	.	.	.	.	.	.	.	6/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTAGCCCTTCT	.	3	BLCA
PRDM2	0	.	GRCh37	1	14107286	14107286	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2996C>A	p.Ser999Tyr	p.S999Y	ENST00000235372	8/10	174	72	101	180	180	0	PRDM2,missense_variant,p.Ser798Tyr,ENST00000343137,;PRDM2,missense_variant,p.Ser798Tyr,ENST00000413440,;PRDM2,missense_variant,p.Ser999Tyr,ENST00000311066,;PRDM2,missense_variant,p.Ser999Tyr,ENST00000235372,;PRDM2,intron_variant,,ENST00000505823,;PRDM2,intron_variant,,ENST00000503842,;PRDM2,intron_variant,,ENST00000376048,;PRDM2,downstream_gene_variant,,ENST00000407521,;PRDM2,downstream_gene_variant,,ENST00000487453,;PRDM2,intron_variant,,ENST00000491134,;	A	ENSG00000116731	ENST00000235372	Transcript	missense_variant	3852	2996	999	S/Y	tCt/tAt	COSM414126	.	.	1	PRDM2	HGNC	9347	protein_coding	YES	CCDS150.1	ENSP00000235372	PRDM2_HUMAN	S4R3F7_HUMAN,D6RJM6_HUMAN	UPI000013C9CD	.	.	unknown(0)	8/10	.	PIRSF_domain:PIRSF002395,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF4,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCTTCCA	.	5	BLCA
FLG	0	.	GRCh37	1	152279046	152279046	+	Missense_Mutation	SNP	G	G	T	rs748158019	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8316C>A	p.Asp2772Glu	p.D2772E	ENST00000368799	3/3	1598	1229	368	1360	1360	0	FLG,missense_variant,p.Asp2772Glu,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;	T	ENSG00000143631	ENST00000368799	Transcript	missense_variant	8352	8316	2772	D/E	gaC/gaA	rs748158019,COSM414055	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	benign(0.255)	3/3	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTGTCTTG	.	5	BLCA
SLC39A1	0	.	GRCh37	1	153932939	153932939	+	Missense_Mutation	SNP	G	G	A	rs780510822	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610C>T	p.Arg204Trp	p.R204W	ENST00000368623	3/3	84	41	43	81	81	0	SLC39A1,missense_variant,p.Arg204Trp,ENST00000368623,;SLC39A1,missense_variant,p.Arg204Trp,ENST00000368621,;SLC39A1,missense_variant,p.Arg204Trp,ENST00000413622,;SLC39A1,missense_variant,p.Arg102Trp,ENST00000537590,;SLC39A1,missense_variant,p.Arg204Trp,ENST00000417348,;SLC39A1,missense_variant,p.Arg204Trp,ENST00000310483,;SLC39A1,missense_variant,p.Arg204Trp,ENST00000429040,;SLC39A1,missense_variant,p.Arg204Trp,ENST00000356205,;CRTC2,upstream_gene_variant,,ENST00000368633,;CRTC2,upstream_gene_variant,,ENST00000368630,;CRTC2,upstream_gene_variant,,ENST00000492073,;SLC39A1,downstream_gene_variant,,ENST00000461071,;CRTC2,upstream_gene_variant,,ENST00000476883,;CRTC2,upstream_gene_variant,,ENST00000303569,;CRTC2,upstream_gene_variant,,ENST00000487235,;	A	ENSG00000143570	ENST00000368623	Transcript	missense_variant	1370	610	204	R/W	Cgg/Tgg	rs780510822,COSM414028	.	.	-1	SLC39A1	HGNC	12876	protein_coding	YES	CCDS1055.1	ENSP00000357612	S39A1_HUMAN	Q5T4K4_HUMAN,Q5T4K3_HUMAN,Q5T4K2_HUMAN,B4DNN0_HUMAN	UPI000006DDFE	.	deleterious(0.05)	benign(0.017)	3/3	.	hmmpanther:PTHR11040,hmmpanther:PTHR11040:SF30,Pfam_domain:PF02535	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCCGGTCTC	byFrequency	5	BLCA
RXRG	0	.	GRCh37	1	165370612	165370612	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280G>A	p.Arg427His	p.R427H	ENST00000359842	10/10	140	112	28	102	102	0	RXRG,missense_variant,p.Arg427His,ENST00000359842,;	T	ENSG00000143171	ENST00000359842	Transcript	missense_variant	1583	1280	427	R/H	cGt/cAt	COSM414363	.	.	-1	RXRG	HGNC	10479	protein_coding	YES	CCDS1248.1	ENSP00000352900	RXRG_HUMAN	F1D8Q7_HUMAN	UPI000004989F	.	deleterious(0)	probably_damaging(0.999)	10/10	.	hmmpanther:PTHR24083:SF83,hmmpanther:PTHR24083,Gene3D:1.10.565.10,Pfam_domain:PF00104,SMART_domains:SM00430,Superfamily_domains:SSF48508,Prints_domain:PR00398	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAACGCAGA	.	5	BLCA
DNM3	0	.	GRCh37	1	172017754	172017754	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1199C>T	p.Thr400Ile	p.T400I	ENST00000358155	10/21	30	25	5	60	60	0	DNM3,missense_variant,p.Thr400Ile,ENST00000367731,;DNM3,missense_variant,p.Thr400Ile,ENST00000355305,;DNM3,missense_variant,p.Thr400Ile,ENST00000358155,;DNM3,missense_variant,p.Thr400Ile,ENST00000367733,;DNM3,missense_variant,p.Thr290Ile,ENST00000523513,;DNM3,missense_variant,p.Thr400Ile,ENST00000520906,;	T	ENSG00000197959	ENST00000358155	Transcript	missense_variant	1375	1199	400	T/I	aCa/aTa	COSM414324	.	.	1	DNM3	HGNC	29125	protein_coding	YES	CCDS53431.1	ENSP00000350876	DYN3_HUMAN	E5RIK2_HUMAN	UPI0000251D91	.	deleterious(0.04)	possibly_damaging(0.864)	10/21	.	hmmpanther:PTHR11566:SF54,hmmpanther:PTHR11566,Pfam_domain:PF01031	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGACAGGGT	.	4	BLCA
TNR	0	.	GRCh37	1	175355398	175355398	+	Missense_Mutation	SNP	G	G	A	rs769669262	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1547C>T	p.Ser516Leu	p.S516L	ENST00000367674	8/23	78	64	13	68	68	0	TNR,missense_variant,p.Ser516Leu,ENST00000367674,;TNR,missense_variant,p.Ser516Leu,ENST00000263525,;	A	ENSG00000116147	ENST00000367674	Transcript	missense_variant	2256	1547	516	S/L	tCg/tTg	rs769669262,COSM414304	.	.	-1	TNR	HGNC	11953	protein_coding	YES	CCDS1318.1	ENSP00000356646	TENR_HUMAN	A1L306_HUMAN	UPI000013D41C	.	deleterious(0)	probably_damaging(0.974)	8/23	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143:SF39,hmmpanther:PTHR19143,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCCGAGACA	.	5	BLCA
PAPPA2	0	.	GRCh37	1	176525340	176525340	+	5'UTR	SNP	A	A	C	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-119A>C	.	.	ENST00000367662	2/23	63	48	14	44	44	0	PAPPA2,5_prime_UTR_variant,,ENST00000367661,;PAPPA2,5_prime_UTR_variant,,ENST00000367662,;PAPPA2,downstream_gene_variant,,ENST00000486075,;PAPPA2,downstream_gene_variant,,ENST00000493665,;	C	ENSG00000116183	ENST00000367662	Transcript	5_prime_UTR_variant	1046	.	.	.	.	.	.	.	1	PAPPA2	HGNC	14615	protein_coding	YES	CCDS41438.1	ENSP00000356634	PAPP2_HUMAN	.	UPI000004A835	.	.	.	2/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGAACAAAACA	.	3	BLCA
PAPPA2	0	.	GRCh37	1	176525345	176525345	+	5'UTR	SNP	A	A	T	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-114A>T	.	.	ENST00000367662	2/23	71	55	15	50	50	0	PAPPA2,5_prime_UTR_variant,,ENST00000367661,;PAPPA2,5_prime_UTR_variant,,ENST00000367662,;PAPPA2,downstream_gene_variant,,ENST00000486075,;PAPPA2,downstream_gene_variant,,ENST00000493665,;	T	ENSG00000116183	ENST00000367662	Transcript	5_prime_UTR_variant	1051	.	.	.	.	.	.	.	1	PAPPA2	HGNC	14615	protein_coding	YES	CCDS41438.1	ENSP00000356634	PAPP2_HUMAN	.	UPI000004A835	.	.	.	2/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAAACAGTTTC	.	3	BLCA
UBR4	0	.	GRCh37	1	19475090	19475090	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7461A>T	p.Glu2487Asp	p.E2487D	ENST00000375254	50/106	275	129	145	276	276	0	UBR4,missense_variant,p.Glu1208Asp,ENST00000417040,;UBR4,missense_variant,p.Glu102Asp,ENST00000425413,;UBR4,missense_variant,p.Glu2487Asp,ENST00000375254,;UBR4,missense_variant,p.Glu2487Asp,ENST00000375217,;UBR4,missense_variant,p.Glu2487Asp,ENST00000375267,;UBR4,missense_variant,p.Glu2498Asp,ENST00000375226,;UBR4,upstream_gene_variant,,ENST00000465036,;UBR4,downstream_gene_variant,,ENST00000419533,;	A	ENSG00000127481	ENST00000375254	Transcript	missense_variant	7489	7461	2487	E/D	gaA/gaT	COSM414231	.	.	-1	UBR4	HGNC	30313	protein_coding	YES	CCDS189.1	ENSP00000364403	UBR4_HUMAN	Q96HY5_HUMAN	UPI000021276F	.	.	benign(0.039)	50/106	.	hmmpanther:PTHR21725	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTTTCCAG	.	5	BLCA
KIF21B	0	.	GRCh37	1	200968596	200968596	+	Splice_Site	SNP	T	T	C	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1768-2A>G	.	p.X590_splice	ENST00000422435	.	153	41	112	183	183	0	KIF21B,splice_acceptor_variant,,ENST00000422435,;KIF21B,splice_acceptor_variant,,ENST00000360529,;KIF21B,splice_acceptor_variant,,ENST00000461742,;KIF21B,splice_acceptor_variant,,ENST00000332129,;KIF21B,downstream_gene_variant,,ENST00000534043,;	C	ENSG00000116852	ENST00000422435	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM414715	.	.	-1	KIF21B	HGNC	29442	protein_coding	YES	CCDS58056.1	ENSP00000411831	KI21B_HUMAN	.	UPI0000153E7C	.	.	.	.	12/34	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCTGGGCA	.	5	BLCA
ACBD3	0	.	GRCh37	1	226340215	226340215	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1196G>A	p.Arg399Gln	p.R399Q	ENST00000366812	7/8	383	241	142	340	340	0	ACBD3,missense_variant,p.Arg399Gln,ENST00000366812,;RP11-275I14.4,intron_variant,,ENST00000440540,;ACBD3,downstream_gene_variant,,ENST00000464927,;	T	ENSG00000182827	ENST00000366812	Transcript	missense_variant	1251	1196	399	R/Q	cGa/cAa	COSM414604	.	.	-1	ACBD3	HGNC	15453	protein_coding	YES	CCDS1551.1	ENSP00000355777	GCP60_HUMAN	.	UPI000006F1E1	.	deleterious(0.03)	possibly_damaging(0.896)	7/8	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50866,hmmpanther:PTHR22973:SF11,hmmpanther:PTHR22973,Pfam_domain:PF13897,Superfamily_domains:0041713	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCCTCGGCCC	.	3	BLCA
ACBD3	0	.	GRCh37	1	226340229	226340229	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1182G>A	p.%3D	p.V394V	ENST00000366812	7/8	420	267	152	356	355	1	ACBD3,synonymous_variant,p.%3D,ENST00000366812,;RP11-275I14.4,intron_variant,,ENST00000440540,;ACBD3,downstream_gene_variant,,ENST00000464927,;	T	ENSG00000182827	ENST00000366812	Transcript	synonymous_variant	1237	1182	394	V	gtG/gtA	COSM414603	.	.	-1	ACBD3	HGNC	15453	protein_coding	YES	CCDS1551.1	ENSP00000355777	GCP60_HUMAN	.	UPI000006F1E1	.	.	.	7/8	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50866,hmmpanther:PTHR22973:SF11,hmmpanther:PTHR22973,Superfamily_domains:0041713	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTAATCACGGA	.	3	BLCA
CSMD2	0	.	GRCh37	1	34076828	34076828	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6036C>G	p.Asn2012Lys	p.N2012K	ENST00000241312	41/70	46	30	16	59	59	0	CSMD2,missense_variant,p.Asn2052Lys,ENST00000373381,;CSMD2,missense_variant,p.Asn925Lys,ENST00000373380,;CSMD2,missense_variant,p.Asn151Lys,ENST00000373377,;CSMD2,missense_variant,p.Asn151Lys,ENST00000373388,;CSMD2,missense_variant,p.Asn2012Lys,ENST00000241312,;	C	ENSG00000121904	ENST00000241312	Transcript	missense_variant	6065	6036	2012	N/K	aaC/aaG	COSM414469	.	.	-1	CSMD2	HGNC	19290	nonsense_mediated_decay	YES	CCDS380.1	ENSP00000241312	CSMD2_HUMAN	.	UPI00004561AB	.	deleterious(0)	probably_damaging(0.938)	41/70	.	Superfamily_domains:SSF49854,SMART_domains:SM00042,Pfam_domain:PF00431,Gene3D:2.60.120.290,hmmpanther:PTHR19325:SF334,hmmpanther:PTHR19325,PROSITE_profiles:PS01180	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAAGTTCAG	.	5	BLCA
RIMS3	0	.	GRCh37	1	41101622	41101622	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325G>A	p.Asp109Asn	p.D109N	ENST00000372684	4/8	136	49	86	128	128	0	RIMS3,missense_variant,p.Asp109Asn,ENST00000372683,;RIMS3,missense_variant,p.Asp109Asn,ENST00000372684,;	T	ENSG00000117016	ENST00000372684	Transcript	missense_variant	795	325	109	D/N	Gat/Aat	COSM414918	.	.	-1	RIMS3	HGNC	21292	protein_coding	YES	CCDS30687.1	ENSP00000361769	RIMS3_HUMAN	.	UPI000006E06A	.	tolerated_low_confidence(0.07)	benign(0.347)	4/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCGGTGG	.	5	BLCA
SPATA6	0	.	GRCh37	1	48764299	48764299	+	3'UTR	SNP	A	A	T	rs527462674	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*86T>A	.	.	ENST00000371847	13/13	27	22	4	64	64	0	SPATA6,3_prime_UTR_variant,,ENST00000371843,;SPATA6,3_prime_UTR_variant,,ENST00000371847,;SPATA6,downstream_gene_variant,,ENST00000396199,;SPATA6,downstream_gene_variant,,ENST00000603831,;	T	ENSG00000132122	ENST00000371847	Transcript	3_prime_UTR_variant	1718	.	.	.	.	rs527462674	.	.	-1	SPATA6	HGNC	18309	protein_coding	YES	CCDS551.1	ENSP00000360913	SPAT6_HUMAN	.	UPI0000049C41	.	.	.	13/13	.	.	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTTAAAAAA	byFrequency|by1000G	4	BLCA
GLIS1	0	.	GRCh37	1	53986418	53986418	+	Missense_Mutation	SNP	C	C	T	rs747936449	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1090G>A	p.Glu364Lys	p.E364K	ENST00000312233	6/10	35	22	13	21	21	0	GLIS1,missense_variant,p.Glu364Lys,ENST00000312233,;	T	ENSG00000174332	ENST00000312233	Transcript	missense_variant	1657	1090	364	E/K	Gag/Aag	rs747936449,COSM414850	.	.	-1	GLIS1	HGNC	29525	protein_coding	YES	CCDS582.1	ENSP00000309653	GLIS1_HUMAN	.	UPI000013F293	.	deleterious(0.03)	probably_damaging(0.986)	6/10	.	hmmpanther:PTHR19818,hmmpanther:PTHR19818:SF75	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGGTGT	byFrequency	5	BLCA
TGFBR3	0	.	GRCh37	1	92185658	92185658	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1205C>T	p.Pro402Leu	p.P402L	ENST00000212355	9/17	125	57	68	143	143	0	TGFBR3,missense_variant,p.Pro402Leu,ENST00000525962,;TGFBR3,missense_variant,p.Pro401Leu,ENST00000370399,;TGFBR3,missense_variant,p.Pro402Leu,ENST00000212355,;TGFBR3,missense_variant,p.Pro401Leu,ENST00000465892,;TGFBR3,3_prime_UTR_variant,,ENST00000532540,;TGFBR3,3_prime_UTR_variant,,ENST00000533089,;TGFBR3,non_coding_transcript_exon_variant,,ENST00000529608,;	A	ENSG00000069702	ENST00000212355	Transcript	missense_variant	1671	1205	402	P/L	cCg/cTg	COSM414739	.	.	-1	TGFBR3	HGNC	11774	protein_coding	YES	CCDS30770.1	ENSP00000212355	TGBR3_HUMAN	E9PAW7_HUMAN	UPI000049D997	.	tolerated(0.06)	benign(0.057)	9/17	.	hmmpanther:PTHR14002,hmmpanther:PTHR14002:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAACGGAAGG	.	5	BLCA
SOGA1	0	.	GRCh37	20	35443917	35443917	+	Missense_Mutation	SNP	C	C	A	rs774245629	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1928G>T	p.Arg643Leu	p.R643L	ENST00000237536	5/15	13	9	4	12	12	0	SOGA1,missense_variant,p.Arg643Leu,ENST00000237536,;SOGA1,missense_variant,p.Arg405Leu,ENST00000279034,;SOGA1,missense_variant,p.Arg405Leu,ENST00000357779,;SOGA1,missense_variant,p.Arg246Leu,ENST00000456801,;SOGA1,missense_variant,p.Arg257Leu,ENST00000465671,;	A	ENSG00000149639	ENST00000237536	Transcript	missense_variant	2270	1928	643	R/L	cGa/cTa	rs774245629,COSM419415,COSM419414,COSM1133648,COSM1133649	.	.	-1	SOGA1	HGNC	16111	protein_coding	YES	CCDS54459.1	ENSP00000237536	SOGA1_HUMAN	I3L0I1_HUMAN,F2FB34_HUMAN	UPI0000E5A319	.	deleterious(0.04)	benign(0.229)	5/15	.	hmmpanther:PTHR15742:SF1,hmmpanther:PTHR15742	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGTCGGACC	byFrequency	5	BLCA
IFNGR2	0	.	GRCh37	21	34805103	34805103	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.804C>A	p.Phe268Leu	p.F268L	ENST00000290219	6/7	129	85	44	107	107	0	IFNGR2,missense_variant,p.Phe189Leu,ENST00000405436,;IFNGR2,missense_variant,p.Phe287Leu,ENST00000381995,;IFNGR2,missense_variant,p.Phe34Leu,ENST00000421802,;IFNGR2,missense_variant,p.Phe268Leu,ENST00000290219,;TMEM50B,non_coding_transcript_exon_variant,,ENST00000484377,;TMEM50B,downstream_gene_variant,,ENST00000470682,;TMEM50B,downstream_gene_variant,,ENST00000468874,;TMEM50B,3_prime_UTR_variant,,ENST00000420455,;IFNGR2,3_prime_UTR_variant,,ENST00000545369,;IFNGR2,downstream_gene_variant,,ENST00000439213,;	A	ENSG00000159128	ENST00000290219	Transcript	missense_variant	1452	804	268	F/L	ttC/ttA	COSM419255	.	.	1	IFNGR2	HGNC	5440	protein_coding	YES	CCDS33544.1	ENSP00000290219	INGR2_HUMAN	B5MCZ0_HUMAN,A8K881_HUMAN,A1Z2N6_HUMAN	UPI00001514B0	.	tolerated(0.29)	benign(0.063)	6/7	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20859,hmmpanther:PTHR20859:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCCTGGT	.	5	BLCA
SLC19A1	0	.	GRCh37	21	46951334	46951334	+	Silent	SNP	G	G	A	rs745419707	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.918C>T	p.%3D	p.N306N	ENST00000311124	3/6	153	115	37	146	146	0	SLC19A1,synonymous_variant,p.%3D,ENST00000567670,;SLC19A1,synonymous_variant,p.%3D,ENST00000311124,;SLC19A1,synonymous_variant,p.%3D,ENST00000380010,;SLC19A1,synonymous_variant,p.%3D,ENST00000485649,;SLC19A1,synonymous_variant,p.%3D,ENST00000417954,;SLC19A1,downstream_gene_variant,,ENST00000443742,;SLC19A1,downstream_gene_variant,,ENST00000427839,;SLC19A1,non_coding_transcript_exon_variant,,ENST00000477688,;SLC19A1,downstream_gene_variant,,ENST00000486303,;	A	ENSG00000173638	ENST00000311124	Transcript	synonymous_variant	1071	918	306	N	aaC/aaT	rs745419707,COSM419667,COSM419668	.	.	-1	SLC19A1	HGNC	10937	protein_coding	YES	CCDS13725.1	ENSP00000308895	S19A1_HUMAN	E9PIL5_HUMAN,D3DSM6_HUMAN,C9JKP4_HUMAN,C9J8K6_HUMAN	UPI000012AA0F	.	.	.	3/6	.	hmmpanther:PTHR10686:SF12,hmmpanther:PTHR10686,Gene3D:1.20.1250.20,Pfam_domain:PF01770,TIGRFAM_domain:TIGR00806,PIRSF_domain:PIRSF500793,PIRSF_domain:PIRSF028739,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCCGTTGTA	byFrequency	5	BLCA
C22orf24	0	.	GRCh37	22	32334024	32334024	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.29T>C	p.Leu10Pro	p.L10P	ENST00000248984	2/3	525	388	137	486	485	1	C22orf24,missense_variant,p.Leu10Pro,ENST00000248984,;C22orf24,missense_variant,p.Leu77Pro,ENST00000543051,;C22orf24,non_coding_transcript_exon_variant,,ENST00000486651,;C22orf24,non_coding_transcript_exon_variant,,ENST00000484682,;	G	ENSG00000128254	ENST00000248984	Transcript	missense_variant	196	29	10	L/P	cTg/cCg	COSM419586,COSM419585	.	.	-1	C22orf24	HGNC	23051	protein_coding	YES	CCDS46693.1	ENSP00000248984	CV024_HUMAN	.	UPI0000071D69	.	deleterious_low_confidence(0.01)	benign(0.086)	2/3	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGCAGCCCT	.	5	BLCA
TST	0	.	GRCh37	22	37414345	37414345	+	Silent	SNP	G	G	A	rs755745420	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429C>T	p.%3D	p.S143S	ENST00000403892	1/2	99	75	24	71	71	0	TST,synonymous_variant,p.%3D,ENST00000403892,;TST,synonymous_variant,p.%3D,ENST00000249042,;MPST,upstream_gene_variant,,ENST00000404393,;MPST,upstream_gene_variant,,ENST00000397129,;TST,downstream_gene_variant,,ENST00000438203,;MPST,upstream_gene_variant,,ENST00000404802,;MPST,upstream_gene_variant,,ENST00000341116,;MPST,upstream_gene_variant,,ENST00000401419,;MPST,upstream_gene_variant,,ENST00000397225,;MPST,upstream_gene_variant,,ENST00000429360,;Y_RNA,downstream_gene_variant,,ENST00000516603,;MPST,upstream_gene_variant,,ENST00000485587,;	A	ENSG00000128311	ENST00000403892	Transcript	synonymous_variant	1164	429	143	S	tcC/tcT	rs755745420,COSM419564	.	.	-1	TST	HGNC	12388	protein_coding	YES	CCDS13938.1	ENSP00000385828	THTR_HUMAN	B1AH48_HUMAN	UPI0000167B82	.	.	.	1/2	.	PROSITE_profiles:PS50206,hmmpanther:PTHR11364,hmmpanther:PTHR11364:SF6,Gene3D:3.40.250.10,Superfamily_domains:SSF52821	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTCGGATGT	.	5	BLCA
MIEF1	0	.	GRCh37	22	39910417	39910417	+	3'UTR	SNP	T	T	A	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*89T>A	.	.	ENST00000325301	6/6	30	22	8	25	25	0	MIEF1,3_prime_UTR_variant,,ENST00000404569,;MIEF1,3_prime_UTR_variant,,ENST00000325301,;MIEF1,intron_variant,,ENST00000402881,;MIEF1,downstream_gene_variant,,ENST00000434364,;MIEF1,3_prime_UTR_variant,,ENST00000433117,;MIEF1,downstream_gene_variant,,ENST00000428069,;	A	ENSG00000100335	ENST00000325301	Transcript	3_prime_UTR_variant	1905	.	.	.	.	.	.	.	1	MIEF1	HGNC	25979	protein_coding	YES	CCDS13995.1	ENSP00000327124	MID51_HUMAN	B0QY94_HUMAN	UPI000006FEB4	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGGTTCCTG	.	5	BLCA
SERHL2	0	.	GRCh37	22	42972584	42972584	+	3'Flank	SNP	G	G	A	rs562510604	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000327678	.	24	17	7	34	34	0	SERHL2,downstream_gene_variant,,ENST00000340239,;SERHL2,downstream_gene_variant,,ENST00000327678,;SERHL2,downstream_gene_variant,,ENST00000407614,;SERHL2,downstream_gene_variant,,ENST00000335879,;RRP7B,non_coding_transcript_exon_variant,,ENST00000357802,;RRP7B,non_coding_transcript_exon_variant,,ENST00000437211,;RRP7B,non_coding_transcript_exon_variant,,ENST00000458605,;RRP7B,downstream_gene_variant,,ENST00000421116,;SERHL2,downstream_gene_variant,,ENST00000416156,;SERHL2,downstream_gene_variant,,ENST00000534080,;SERHL2,downstream_gene_variant,,ENST00000477564,;SERHL2,downstream_gene_variant,,ENST00000527167,;RRP7B,non_coding_transcript_exon_variant,,ENST00000566851,;	A	ENSG00000183569	ENST00000327678	Transcript	downstream_gene_variant	.	.	.	.	.	rs562510604	.	2196	1	SERHL2	HGNC	29446	protein_coding	YES	CCDS14037.1	ENSP00000331376	SEHL2_HUMAN	E9PMQ2_HUMAN	UPI0000135810	.	.	.	.	.	.	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGTCGGGCAC	by1000G	3	BLCA
SCN9A	0	.	GRCh37	2	167162315	167162315	+	Missense_Mutation	SNP	C	C	T	rs775461240	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583G>A	p.Val195Ile	p.V195I	ENST00000409672	5/27	104	75	28	97	97	0	SCN9A,missense_variant,p.Val196Ile,ENST00000375387,;SCN9A,missense_variant,p.Val195Ile,ENST00000409435,;SCN9A,missense_variant,p.Val60Ile,ENST00000452182,;SCN9A,missense_variant,p.Val195Ile,ENST00000409672,;SCN9A,missense_variant,p.Val60Ile,ENST00000454569,;SCN9A,missense_variant,p.Val196Ile,ENST00000303354,;AC010127.3,downstream_gene_variant,,ENST00000447809,;SCN9A,non_coding_transcript_exon_variant,,ENST00000472119,;	T	ENSG00000169432	ENST00000409672	Transcript	missense_variant	930	583	195	V/I	Gtc/Atc	rs775461240,COSM39643,COSM1645623	.	.	-1	SCN9A	HGNC	10597	protein_coding	YES	CCDS46441.1	ENSP00000386306	SCN9A_HUMAN	Q53QP0_HUMAN	UPI0000140AC7	.	tolerated(0.09)	probably_damaging(1)	5/27	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF28,Pfam_domain:PF00520,Gene3D:1.20.120.350,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.V195I|c.583G>A|6,SITE|p.V196I|c.586G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGACGACAA	byFrequency	5	BLCA
DNAH7	0	.	GRCh37	2	196865506	196865506	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1275C>T	p.%3D	p.I425I	ENST00000312428	12/65	320	159	161	295	295	0	DNAH7,synonymous_variant,p.%3D,ENST00000410072,;DNAH7,synonymous_variant,p.%3D,ENST00000312428,;	A	ENSG00000118997	ENST00000312428	Transcript	synonymous_variant	1376	1275	425	I	atC/atT	COSM418938	.	.	-1	DNAH7	HGNC	18661	protein_coding	YES	CCDS42794.1	ENSP00000311273	DYH7_HUMAN	C9JUY3_HUMAN	UPI0000141B95	.	.	.	12/65	.	hmmpanther:PTHR10676:SF138,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAGATATC	.	5	BLCA
MYT1L	0	.	GRCh37	2	1983502	1983502	+	Silent	SNP	C	C	T	rs377141211	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48G>A	p.%3D	p.G16G	ENST00000428368	6/25	79	70	9	58	58	0	MYT1L,synonymous_variant,p.%3D,ENST00000399161,;MYT1L,synonymous_variant,p.%3D,ENST00000428368,;MYT1L,upstream_gene_variant,,ENST00000485348,;	T	ENSG00000186487	ENST00000428368	Transcript	synonymous_variant	718	48	16	G	ggG/ggA	rs377141211,COSM418930	.	.	-1	MYT1L	HGNC	7623	protein_coding	YES	CCDS46222.1	ENSP00000396103	MYT1L_HUMAN	.	UPI00004E55EA	.	.	.	6/25	.	hmmpanther:PTHR10816:SF11,hmmpanther:PTHR10816	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0	T:0.0004	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGAACCCCTTT	byCluster|by1000G	4	BLCA
IKZF2	0	.	GRCh37	2	213872344	213872344	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1321G>T	p.Val441Phe	p.V441F	ENST00000457361	8/8	74	65	9	393	393	0	IKZF2,missense_variant,p.Val441Phe,ENST00000457361,;IKZF2,missense_variant,p.Val441Phe,ENST00000434687,;IKZF2,missense_variant,p.Val296Phe,ENST00000374327,;IKZF2,missense_variant,p.Val367Phe,ENST00000421754,;IKZF2,missense_variant,p.Val369Phe,ENST00000451136,;IKZF2,missense_variant,p.Val447Phe,ENST00000342002,;IKZF2,missense_variant,p.Val415Phe,ENST00000374319,;IKZF2,3_prime_UTR_variant,,ENST00000413091,;AC079610.1,intron_variant,,ENST00000415387,;IKZF2,3_prime_UTR_variant,,ENST00000453575,;IKZF2,3_prime_UTR_variant,,ENST00000439848,;IKZF2,3_prime_UTR_variant,,ENST00000412444,;IKZF2,3_prime_UTR_variant,,ENST00000431520,;IKZF2,3_prime_UTR_variant,,ENST00000374326,;IKZF2,non_coding_transcript_exon_variant,,ENST00000484040,;	A	ENSG00000030419	ENST00000457361	Transcript	missense_variant	1490	1321	441	V/F	Gtc/Ttc	COSM418875	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	tolerated(0.69)	benign(0.165)	8/8	.	hmmpanther:PTHR24404:SF31,hmmpanther:PTHR24404	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTGACATCCT	.	4	BLCA
CDKL4	0	.	GRCh37	2	39417450	39417453	+	Frame_Shift_Del	DEL	TGTT	TGTT	-	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	TGTT	TGTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645_648delAACA	p.Arg215SerfsTer2	p.R215Sfs*2	ENST00000378803	5/8	90	69	21	88	88	0	CDKL4,frameshift_variant,p.Arg215SerfsTer2,ENST00000395035,;CDKL4,frameshift_variant,p.Arg215SerfsTer2,ENST00000378803,;CDKL4,upstream_gene_variant,,ENST00000451199,;	-	ENSG00000205111	ENST00000378803	Transcript	frameshift_variant	645-648	645-648	215-216	RT/X	agAACA/ag	.	.	.	-1	CDKL4	HGNC	19287	protein_coding	YES	CCDS33184.1	ENSP00000368080	CDKL4_HUMAN	.	UPI00000398E1	.	.	.	5/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24056,hmmpanther:PTHR24056:SF120,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	ACCTAGTGTTCTGAT	.	2	BLCA
CTNNA2	0	.	GRCh37	2	79971689	79971689	+	Silent	SNP	A	A	T	rs200888828	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279A>T	p.%3D	p.V93V	ENST00000466387	7/22	40	18	22	59	59	0	CTNNA2,synonymous_variant,p.%3D,ENST00000496558,;CTNNA2,synonymous_variant,p.%3D,ENST00000361291,;CTNNA2,synonymous_variant,p.%3D,ENST00000541047,;CTNNA2,synonymous_variant,p.%3D,ENST00000540488,;CTNNA2,synonymous_variant,p.%3D,ENST00000466387,;CTNNA2,synonymous_variant,p.%3D,ENST00000402739,;CTNNA2,synonymous_variant,p.%3D,ENST00000409971,;CTNNA2,downstream_gene_variant,,ENST00000451966,;CTNNA2,non_coding_transcript_exon_variant,,ENST00000508970,;	T	ENSG00000066032	ENST00000466387	Transcript	synonymous_variant	1003	279	93	V	gtA/gtT	rs200888828,COSM419097,COSM419096	.	.	1	CTNNA2	HGNC	2510	protein_coding	YES	CCDS42703.2	ENSP00000418191	CTNA2_HUMAN	F6KRI5_HUMAN,C9J144_HUMAN,C9IZ88_HUMAN	UPI00001A3E86	.	.	.	7/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18914,hmmpanther:PTHR18914:SF23,Pfam_domain:PF01044,Gene3D:1.20.120.230,Superfamily_domains:SSF47220	G:0.0002	G:0.0008	G:0	.	G:0	G:0	G:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGTAGAGGA	byCluster|by1000G	5	BLCA
ID2	0	.	GRCh37	2	8822191	8822191	+	5'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-105G>A	.	.	ENST00000234091	3/5	18	6	11	20	20	0	ID2,5_prime_UTR_variant,,ENST00000331129,;ID2,5_prime_UTR_variant,,ENST00000396290,;ID2,5_prime_UTR_variant,,ENST00000234091,;AC011747.7,upstream_gene_variant,,ENST00000418957,;AC011747.7,upstream_gene_variant,,ENST00000433592,;AC011747.7,upstream_gene_variant,,ENST00000455965,;AC011747.7,upstream_gene_variant,,ENST00000421298,;AC011747.7,upstream_gene_variant,,ENST00000433340,;AC011747.7,upstream_gene_variant,,ENST00000412712,;ID2,upstream_gene_variant,,ENST00000472142,;	A	ENSG00000115738	ENST00000234091	Transcript	5_prime_UTR_variant	756	.	.	.	.	.	.	.	1	ID2	HGNC	5361	protein_coding	YES	CCDS1659.1	ENSP00000234091	ID2_HUMAN	Q53T66_HUMAN	UPI00000012EE	.	.	.	3/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ATTCTGAGCCG	.	4	BLCA
FAHD2A	0	.	GRCh37	2	96078765	96078765	+	3'UTR	SNP	C	C	G	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*60C>G	.	.	ENST00000233379	8/8	20	8	12	44	44	0	FAHD2A,3_prime_UTR_variant,,ENST00000233379,;FAHD2A,3_prime_UTR_variant,,ENST00000447036,;FAHD2A,downstream_gene_variant,,ENST00000470100,;AC009238.6,downstream_gene_variant,,ENST00000512705,;	G	ENSG00000115042	ENST00000233379	Transcript	3_prime_UTR_variant	1158	.	.	.	.	.	.	.	1	FAHD2A	HGNC	24252	protein_coding	YES	CCDS2014.1	ENSP00000233379	FAH2A_HUMAN	C9JGM0_HUMAN,C9J5B6_HUMAN	UPI000006D4CC	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TAGCCCAGGGA	.	3	BLCA
CD200	0	.	GRCh37	3	112054803	112054803	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.26C>A	p.Thr9Lys	p.T9K	ENST00000473539	2/7	162	132	29	155	155	0	CD200,missense_variant,p.Thr9Lys,ENST00000473539,;CD200,intron_variant,,ENST00000315711,;CD200,intron_variant,,ENST00000383681,;CD200,intron_variant,,ENST00000607597,;CD200,intron_variant,,ENST00000606471,;RP11-90K6.1,downstream_gene_variant,,ENST00000498032,;CD200,non_coding_transcript_exon_variant,,ENST00000607516,;CD200,intron_variant,,ENST00000498096,;CD200,intron_variant,,ENST00000478595,;	A	ENSG00000091972	ENST00000473539	Transcript	missense_variant	83	26	9	T/K	aCa/aAa	COSM419455	.	.	1	CD200	HGNC	7203	protein_coding	YES	CCDS33818.1	ENSP00000420298	OX2G_HUMAN	U3KQQ2_HUMAN,F8W7G1_HUMAN	UPI00004DF0E4	.	.	possibly_damaging(0.895)	2/7	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGACAATTG	.	5	BLCA
HRH1	0	.	GRCh37	3	11301151	11301151	+	Missense_Mutation	SNP	G	G	A	rs181783018	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.428G>A	p.Arg143Gln	p.R143Q	ENST00000397056	3/3	283	228	54	200	200	0	HRH1,missense_variant,p.Arg143Gln,ENST00000431010,;HRH1,missense_variant,p.Arg143Gln,ENST00000438284,;HRH1,missense_variant,p.Arg143Gln,ENST00000397056,;HRH1,downstream_gene_variant,,ENST00000413416,;	A	ENSG00000196639	ENST00000397056	Transcript	missense_variant	619	428	143	R/Q	cGa/cAa	rs181783018,COSM419450	.	.	1	HRH1	HGNC	5182	protein_coding	YES	CCDS2604.1	ENSP00000380247	HRH1_HUMAN	.	UPI0000050401	.	deleterious(0.05)	possibly_damaging(0.7)	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249,hmmpanther:PTHR24249:SF244,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	A:0.0004	A:0.0008	A:0.0014	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCCGAGCCT	byFrequency|byCluster|by1000G	4	BLCA
C3orf30	0	.	GRCh37	3	118865565	118865565	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529C>G	p.Gln177Glu	p.Q177E	ENST00000295622	1/3	161	106	55	131	131	0	C3orf30,missense_variant,p.Gln177Glu,ENST00000295622,;C3orf30,missense_variant,p.Gln141Glu,ENST00000460150,;IGSF11,upstream_gene_variant,,ENST00000425327,;C3orf30,upstream_gene_variant,,ENST00000492792,;RP11-484M3.5,upstream_gene_variant,,ENST00000490594,;IGSF11,upstream_gene_variant,,ENST00000354673,;C3orf30,upstream_gene_variant,,ENST00000473121,;IGSF11,upstream_gene_variant,,ENST00000441144,;IGSF11,upstream_gene_variant,,ENST00000494802,;C3orf30,missense_variant,p.Gln177Glu,ENST00000494105,;	G	ENSG00000163424	ENST00000295622	Transcript	missense_variant	569	529	177	Q/E	Cag/Gag	COSM419914	.	.	1	C3orf30	HGNC	26553	protein_coding	YES	CCDS2984.1	ENSP00000295622	CC030_HUMAN	.	UPI000013E280	.	deleterious(0.01)	possibly_damaging(0.764)	1/3	.	hmmpanther:PTHR21847:SF1,hmmpanther:PTHR21847	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGACAGACC	.	5	BLCA
AADACL2	0	.	GRCh37	3	151463373	151463374	+	Frame_Shift_Del	DEL	GA	GA	T	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	GA	GA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508_509delGAinsT	p.Glu170Ter	p.E170*	ENST00000356517	4/5	397	347	50	276	276	0	AADACL2,frameshift_variant,p.Glu170Ter,ENST00000356517,;AADACL2,3_prime_UTR_variant,,ENST00000445270,;	T	ENSG00000197953	ENST00000356517	Transcript	frameshift_variant	617-618	508-509	170	E/X	GAa/Ta	.	.	.	1	AADACL2	HGNC	24427	protein_coding	YES	CCDS3161.2	ENSP00000348911	ADCL2_HUMAN	.	UPI000015F144	.	.	.	4/5	.	hmmpanther:PTHR23024,hmmpanther:PTHR23024:SF104,Pfam_domain:PF07859,Gene3D:3.40.50.1820,PIRSF_domain:PIRSF037251,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	CTTTTGGAAAAAA	.	4	BLCA
SI	0	.	GRCh37	3	164786928	164786928	+	Missense_Mutation	SNP	G	G	C	rs769799372	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.311C>G	p.Pro104Arg	p.P104R	ENST00000264382	4/48	107	73	34	87	87	0	SI,missense_variant,p.Pro104Arg,ENST00000264382,;SI,3_prime_UTR_variant,,ENST00000476593,;	C	ENSG00000090402	ENST00000264382	Transcript	missense_variant	374	311	104	P/R	cCt/cGt	rs769799372,COSM419729	.	.	-1	SI	HGNC	10856	protein_coding	YES	CCDS3196.1	ENSP00000264382	SUIS_HUMAN	.	UPI000022C287	.	deleterious(0)	probably_damaging(1)	4/48	.	Superfamily_domains:SSF74650,SMART_domains:SM00018,Pfam_domain:PF00088,Gene3D:4.10.110.10,hmmpanther:PTHR22762,hmmpanther:PTHR22762:SF66,PROSITE_profiles:PS51448	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAAGGAATA	.	5	BLCA
EIF4A2	0	.	GRCh37	3	186501413	186501413	+	Missense_Mutation	SNP	C	C	T	rs779490566	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14C>T	p.Ser5Phe	p.S5F	ENST00000323963	1/11	309	218	90	155	155	0	EIF4A2,missense_variant,p.Ser5Phe,ENST00000445596,;EIF4A2,missense_variant,p.Ser5Phe,ENST00000323963,;EIF4A2,missense_variant,p.Ser5Phe,ENST00000441007,;EIF4A2,missense_variant,p.Ser5Phe,ENST00000440191,;EIF4A2,5_prime_UTR_variant,,ENST00000356531,;EIF4A2,upstream_gene_variant,,ENST00000498746,;SNORA81,upstream_gene_variant,,ENST00000408493,;SNORA63,upstream_gene_variant,,ENST00000363548,;SNORD2,upstream_gene_variant,,ENST00000459163,;SNORA4,upstream_gene_variant,,ENST00000584302,;SNORA63,upstream_gene_variant,,ENST00000363450,;RP11-573D15.9,non_coding_transcript_exon_variant,,ENST00000577781,;EIF4A2,missense_variant,p.Ser5Phe,ENST00000426808,;EIF4A2,missense_variant,p.Ser5Phe,ENST00000443963,;EIF4A2,missense_variant,p.Ser5Phe,ENST00000429589,;EIF4A2,missense_variant,p.Ser5Phe,ENST00000425053,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465032,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465222,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000491473,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000495049,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465267,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000486805,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000475653,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000485101,;EIF4A2,upstream_gene_variant,,ENST00000497177,;EIF4A2,upstream_gene_variant,,ENST00000475409,;EIF4A2,upstream_gene_variant,,ENST00000468362,;EIF4A2,upstream_gene_variant,,ENST00000467585,;EIF4A2,upstream_gene_variant,,ENST00000496382,;EIF4A2,upstream_gene_variant,,ENST00000465792,;EIF4A2,upstream_gene_variant,,ENST00000466362,;EIF4A2,upstream_gene_variant,,ENST00000492144,;EIF4A2,upstream_gene_variant,,ENST00000461021,;EIF4A2,upstream_gene_variant,,ENST00000494445,;	T	ENSG00000156976	ENST00000323963	Transcript	missense_variant	78	14	5	S/F	tCc/tTc	rs779490566,COSM420090	.	.	1	EIF4A2	HGNC	3284	protein_coding	YES	CCDS3282.1	ENSP00000326381	IF4A2_HUMAN	Q96B07_HUMAN,J3KSN7_HUMAN,E7EMV8_HUMAN,C9JUF0_HUMAN	UPI0000000DD2	.	deleterious_low_confidence(0.05)	benign(0.221)	1/11	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTCCGCGG	.	5	BLCA
PRKCD	0	.	GRCh37	3	53213624	53213624	+	Silent	SNP	G	G	A	rs782493646	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147G>A	p.%3D	p.P49P	ENST00000394729	3/18	69	48	21	87	87	0	PRKCD,synonymous_variant,p.%3D,ENST00000464818,;PRKCD,synonymous_variant,p.%3D,ENST00000487897,;PRKCD,synonymous_variant,p.%3D,ENST00000330452,;PRKCD,synonymous_variant,p.%3D,ENST00000394729,;PRKCD,synonymous_variant,p.%3D,ENST00000478843,;PRKCD,downstream_gene_variant,,ENST00000477794,;	A	ENSG00000163932	ENST00000394729	Transcript	synonymous_variant	475	147	49	P	ccG/ccA	rs782493646,COSM420346,COSM420347	.	.	1	PRKCD	HGNC	9399	protein_coding	YES	CCDS2870.1	ENSP00000378217	KPCD_HUMAN	C9JZU8_HUMAN,C9J9P1_HUMAN,B4DFV1_HUMAN	UPI000000DA36	.	.	.	3/18	.	hmmpanther:PTHR24352,hmmpanther:PTHR24352:SF32,Gene3D:2.60.40.150,PIRSF_domain:PIRSF000551,PIRSF_domain:PIRSF501104,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCCGACCAT	.	5	BLCA
ATXN7	0	.	GRCh37	3	63985136	63985136	+	Silent	SNP	G	G	A	rs758328066	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2739G>A	p.%3D	p.T913T	ENST00000398590	14/14	45	27	17	61	61	0	ATXN7,missense_variant,p.Arg891His,ENST00000295900,;ATXN7,missense_variant,p.Arg746His,ENST00000484332,;ATXN7,missense_variant,p.Arg891His,ENST00000487717,;ATXN7,synonymous_variant,p.%3D,ENST00000522345,;ATXN7,synonymous_variant,p.%3D,ENST00000398590,;ATXN7,synonymous_variant,p.%3D,ENST00000538065,;PSMD6-AS2,upstream_gene_variant,,ENST00000472046,;ATXN7,downstream_gene_variant,,ENST00000477516,;ATXN7,downstream_gene_variant,,ENST00000474112,;	A	ENSG00000163635	ENST00000398590	Transcript	synonymous_variant	3292	2739	913	T	acG/acA	rs758328066,COSM420316,COSM420315	.	.	1	ATXN7	HGNC	10560	protein_coding	YES	CCDS54603.1	ENSP00000381590	ATX7_HUMAN	Q9UPD8_HUMAN,Q8TEZ8_HUMAN,H0YAT6_HUMAN	UPI00001B07C4	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCACGTCCCT	.	5	BLCA
TRMT10A	0	.	GRCh37	4	100479211	100479211	+	Silent	SNP	A	A	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.343T>C	p.%3D	p.L115L	ENST00000273962	3/8	31	18	12	62	62	0	TRMT10A,synonymous_variant,p.%3D,ENST00000514547,;TRMT10A,synonymous_variant,p.%3D,ENST00000273962,;TRMT10A,synonymous_variant,p.%3D,ENST00000394876,;TRMT10A,synonymous_variant,p.%3D,ENST00000394877,;TRMT10A,synonymous_variant,p.%3D,ENST00000455368,;TRMT10A,non_coding_transcript_exon_variant,,ENST00000507394,;TRMT10A,upstream_gene_variant,,ENST00000515831,;	G	ENSG00000145331	ENST00000273962	Transcript	synonymous_variant	656	343	115	L	Tta/Cta	COSM420266	.	.	-1	TRMT10A	HGNC	28403	protein_coding	YES	CCDS3650.1	ENSP00000273962	TM10A_HUMAN	D6R954_HUMAN	UPI000006D359	.	.	.	3/8	.	PROSITE_profiles:PS51675,hmmpanther:PTHR13563:SF6,hmmpanther:PTHR13563,Pfam_domain:PF01746,PIRSF_domain:PIRSF016323	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTAATACCA	.	5	BLCA
UGT8	0	.	GRCh37	4	115597250	115597250	+	Missense_Mutation	SNP	G	G	T	rs77695673	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1432G>T	p.Ala478Ser	p.A478S	ENST00000310836	6/6	139	87	52	175	175	0	UGT8,missense_variant,p.Ala478Ser,ENST00000310836,;UGT8,missense_variant,p.Ala478Ser,ENST00000394511,;	T	ENSG00000174607	ENST00000310836	Transcript	missense_variant	1954	1432	478	A/S	Gcc/Tcc	rs77695673,COSM420234	.	.	1	UGT8	HGNC	12555	protein_coding	YES	CCDS3705.1	ENSP00000311648	CGT_HUMAN	D6RFW2_HUMAN	UPI000013F094	.	tolerated(0.06)	benign(0.379)	6/6	.	Pfam_domain:PF00201,hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF169,Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTGCCTTT	suspect|byCluster	5	BLCA
RGS12	0	.	GRCh37	4	3425321	3425321	+	Missense_Mutation	SNP	G	G	A	rs774892640	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3187G>A	p.Val1063Met	p.V1063M	ENST00000344733	13/18	146	109	36	84	84	0	RGS12,missense_variant,p.Val405Met,ENST00000538395,;RGS12,missense_variant,p.Val1063Met,ENST00000336727,;RGS12,missense_variant,p.Val1063Met,ENST00000382788,;RGS12,missense_variant,p.Val461Met,ENST00000306648,;RGS12,missense_variant,p.Val1063Met,ENST00000344733,;RGS12,missense_variant,p.Val415Met,ENST00000338806,;RGS12,non_coding_transcript_exon_variant,,ENST00000507246,;RGS12,non_coding_transcript_exon_variant,,ENST00000504559,;RGS12,non_coding_transcript_exon_variant,,ENST00000511709,;RGS12,non_coding_transcript_exon_variant,,ENST00000508158,;RGS12,non_coding_transcript_exon_variant,,ENST00000515521,;RGS12,upstream_gene_variant,,ENST00000509772,;RGS12,non_coding_transcript_exon_variant,,ENST00000504194,;RGS12,non_coding_transcript_exon_variant,,ENST00000509746,;RGS12,non_coding_transcript_exon_variant,,ENST00000513991,;RGS12,non_coding_transcript_exon_variant,,ENST00000507041,;RGS12,downstream_gene_variant,,ENST00000512266,;RGS12,downstream_gene_variant,,ENST00000510803,;	A	ENSG00000159788	ENST00000344733	Transcript	missense_variant	4091	3187	1063	V/M	Gtg/Atg	rs774892640,COSM420604	.	.	1	RGS12	HGNC	9994	protein_coding	YES	CCDS3366.1	ENSP00000339381	RGS12_HUMAN	Q69YN1_HUMAN,Q56A82_HUMAN,E9PBG5_HUMAN	UPI0000133830	.	deleterious(0)	probably_damaging(1)	13/18	.	PROSITE_profiles:PS50898,hmmpanther:PTHR10845,hmmpanther:PTHR10845:SF149,Pfam_domain:PF02196,SMART_domains:SM00455,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCCGTGGTG	byFrequency	5	BLCA
TMPRSS11F	0	.	GRCh37	4	68964665	68964665	+	Silent	SNP	A	A	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103T>C	p.%3D	p.L35L	ENST00000356291	2/10	17	14	3	116	116	0	TMPRSS11F,synonymous_variant,p.%3D,ENST00000356291,;	G	ENSG00000198092	ENST00000356291	Transcript	synonymous_variant	163	103	35	L	Tta/Cta	COSM420542	.	.	-1	TMPRSS11F	HGNC	29994	protein_coding	YES	CCDS3520.1	ENSP00000348639	TM11F_HUMAN	.	UPI0000251DE7	.	.	.	2/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24256:SF64,hmmpanther:PTHR24256,PIRSF_domain:PIRSF037941	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTAATGTGA	.	2	BLCA
FRAS1	0	.	GRCh37	4	79429990	79429990	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9610C>T	p.Pro3204Ser	p.P3204S	ENST00000264895	63/74	28	17	11	55	55	0	FRAS1,missense_variant,p.Pro1433Ser,ENST00000512123,;FRAS1,missense_variant,p.Pro3204Ser,ENST00000264895,;	T	ENSG00000138759	ENST00000264895	Transcript	missense_variant	10050	9610	3204	P/S	Cct/Tct	COSM420503,COSM420504	.	.	1	FRAS1	HGNC	19185	protein_coding	YES	CCDS54771.1	ENSP00000264895	FRAS1_HUMAN	Q69YV4_HUMAN,Q4W596_HUMAN	UPI000021D4C2	.	.	benign(0.164)	63/74	.	hmmpanther:PTHR11878:SF29,hmmpanther:PTHR11878	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGACCCTCAT	.	5	BLCA
SRD5A1	0	.	GRCh37	5	6633926	6633926	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237C>T	p.%3D	p.L79L	ENST00000274192	1/5	189	172	17	70	70	0	SRD5A1,missense_variant,p.Ser88Phe,ENST00000537411,;SRD5A1,missense_variant,p.Ser88Phe,ENST00000538824,;SRD5A1,synonymous_variant,p.%3D,ENST00000274192,;NSUN2,upstream_gene_variant,,ENST00000539938,;NSUN2,upstream_gene_variant,,ENST00000264670,;NSUN2,upstream_gene_variant,,ENST00000506139,;SRD5A1,non_coding_transcript_exon_variant,,ENST00000504286,;SRD5A1,synonymous_variant,p.%3D,ENST00000513117,;SRD5A1,synonymous_variant,p.%3D,ENST00000510531,;NSUN2,upstream_gene_variant,,ENST00000504374,;	T	ENSG00000145545	ENST00000274192	Transcript	synonymous_variant	471	237	79	L	ctC/ctT	COSM420663	.	.	1	SRD5A1	HGNC	11284	protein_coding	YES	CCDS3870.1	ENSP00000274192	S5A1_HUMAN	.	UPI00000534C8	.	.	.	1/5	.	hmmpanther:PTHR10556:SF32,hmmpanther:PTHR10556,PIRSF_domain:PIRSF015596	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGTCTCCGCAG	.	3	BLCA
MARVELD2	0	.	GRCh37	5	68737477	68737477	+	Missense_Mutation	SNP	C	C	G	rs768081415	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1673C>G	p.Ser558Cys	p.S558C	ENST00000325631	7/7	63	37	26	72	72	0	MARVELD2,missense_variant,p.Ser442Cys,ENST00000436532,;MARVELD2,missense_variant,p.Ser546Cys,ENST00000454295,;MARVELD2,missense_variant,p.Ser558Cys,ENST00000325631,;MARVELD2,missense_variant,p.Ser442Cys,ENST00000413223,;MARVELD2,downstream_gene_variant,,ENST00000512803,;	G	ENSG00000152939	ENST00000325631	Transcript	missense_variant	1747	1673	558	S/C	tCt/tGt	rs768081415,COSM420656	.	.	1	MARVELD2	HGNC	26401	protein_coding	YES	CCDS34175.1	ENSP00000323264	MALD2_HUMAN	D6RAH8_HUMAN,D6RA09_HUMAN	UPI00001416EB	.	deleterious_low_confidence(0)	possibly_damaging(0.847)	7/7	.	hmmpanther:PTHR23288,hmmpanther:PTHR23288:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTCTTAAC	byFrequency	5	BLCA
AK9	0	.	GRCh37	6	109980580	109980580	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481C>T	p.Gln161Ter	p.Q161*	ENST00000424296	7/41	85	45	39	152	152	0	AK9,stop_gained,p.Gln161Ter,ENST00000424296,;AK9,stop_gained,p.Gln161Ter,ENST00000368948,;AK9,stop_gained,p.Gln49Ter,ENST00000524674,;AK9,stop_gained,p.Gln161Ter,ENST00000285397,;AK9,stop_gained,p.Gln84Ter,ENST00000448084,;AK9,stop_gained,p.Gln161Ter,ENST00000532976,;AK9,5_prime_UTR_variant,,ENST00000341338,;AK9,upstream_gene_variant,,ENST00000605986,;	A	ENSG00000155085	ENST00000424296	Transcript	stop_gained	558	481	161	Q/*	Caa/Taa	COSM421110,COSM421109	.	.	-1	AK9	HGNC	33814	protein_coding	YES	CCDS55048.1	ENSP00000410186	KAD9_HUMAN	E9PPU7_HUMAN,E9PPM3_HUMAN	UPI0001A48FC8	.	.	.	7/41	.	hmmpanther:PTHR23359,hmmpanther:PTHR23359:SF61,Pfam_domain:PF00406,Gene3D:3.40.50.300,SMART_domains:SM00382	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTGCCCAG	.	5	BLCA
GPR126	0	.	GRCh37	6	142691909	142691909	+	Missense_Mutation	SNP	G	G	C	rs778758825	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>C	p.Ala350Pro	p.A350P	ENST00000367609	4/25	52	49	3	133	133	0	GPR126,missense_variant,p.Ala350Pro,ENST00000367608,;GPR126,missense_variant,p.Ala350Pro,ENST00000296932,;GPR126,missense_variant,p.Ala350Pro,ENST00000367609,;GPR126,missense_variant,p.Ala350Pro,ENST00000230173,;GPR126,downstream_gene_variant,,ENST00000541199,;GPR126,downstream_gene_variant,,ENST00000435011,;GPR126,intron_variant,,ENST00000545477,;GPR126,non_coding_transcript_exon_variant,,ENST00000415128,;	C	ENSG00000112414	ENST00000367609	Transcript	missense_variant	1449	1048	350	A/P	Gct/Cct	rs778758825,COSM421055,COSM421054	.	.	1	GPR126	HGNC	13841	protein_coding	YES	CCDS47489.1	ENSP00000356581	GP126_HUMAN	F5H2L1_HUMAN	UPI000022CCE4	.	tolerated(0.15)	probably_damaging(0.98)	4/25	.	SMART_domains:SM00159,hmmpanther:PTHR12011:SF47,hmmpanther:PTHR12011	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAAGCTGAA	.	2	BLCA
TAB2	0	.	GRCh37	6	149700178	149700178	+	Missense_Mutation	SNP	C	C	T	rs760538795	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1127C>T	p.Thr376Met	p.T376M	ENST00000367456	4/8	90	65	25	100	100	0	TAB2,missense_variant,p.Thr376Met,ENST00000538427,;TAB2,missense_variant,p.Thr376Met,ENST00000286332,;TAB2,missense_variant,p.Thr376Met,ENST00000392282,;TAB2,missense_variant,p.Thr344Met,ENST00000536230,;TAB2,missense_variant,p.Thr376Met,ENST00000367456,;TAB2,downstream_gene_variant,,ENST00000606202,;TAB2,missense_variant,p.Thr376Met,ENST00000470466,;	T	ENSG00000055208	ENST00000367456	Transcript	missense_variant	1704	1127	376	T/M	aCg/aTg	rs760538795,COSM421042	.	.	1	TAB2	HGNC	17075	protein_coding	YES	CCDS5214.1	ENSP00000356426	TAB2_HUMAN	U3KQR0_HUMAN	UPI0000073C75	.	deleterious(0.01)	possibly_damaging(0.564)	4/8	.	hmmpanther:PTHR10351:SF27,hmmpanther:PTHR10351	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATACGGATG	.	5	BLCA
KIF13A	0	.	GRCh37	6	17777555	17777555	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4123A>G	p.Lys1375Glu	p.K1375E	ENST00000259711	34/39	45	34	10	42	42	0	KIF13A,missense_variant,p.Lys1362Glu,ENST00000378814,;KIF13A,missense_variant,p.Lys379Glu,ENST00000502297,;KIF13A,missense_variant,p.Lys1375Glu,ENST00000259711,;KIF13A,missense_variant,p.Lys1375Glu,ENST00000378826,;KIF13A,missense_variant,p.Lys769Glu,ENST00000358380,;KIF13A,missense_variant,p.Lys1362Glu,ENST00000378843,;KIF13A,missense_variant,p.Lys1375Glu,ENST00000378816,;KIF13A,downstream_gene_variant,,ENST00000506044,;	C	ENSG00000137177	ENST00000259711	Transcript	missense_variant	4229	4123	1375	K/E	Aaa/Gaa	COSM420971,COSM1133767	.	.	-1	KIF13A	HGNC	14566	protein_coding	YES	CCDS47381.1	ENSP00000259711	KI13A_HUMAN	.	UPI0000E20DA3	.	deleterious(0.01)	benign(0.297)	34/39	.	hmmpanther:PTHR24115:SF289,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTTTGGTGG	.	5	BLCA
HIST1H2AC	0	.	GRCh37	6	26124400	26124400	+	5'Flank	SNP	G	G	C	rs182845983	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000602637	.	36	28	7	39	39	0	HIST1H2AC,5_prime_UTR_variant,,ENST00000377791,;HIST1H2BC,upstream_gene_variant,,ENST00000314332,;HIST1H2BC,upstream_gene_variant,,ENST00000396984,;HIST1H2AC,upstream_gene_variant,,ENST00000602637,;HIST1H2AC,5_prime_UTR_variant,,ENST00000314088,;	C	ENSG00000180573	ENST00000602637	Transcript	upstream_gene_variant	.	.	.	.	.	rs182845983	.	31	1	HIST1H2AC	HGNC	4733	protein_coding	YES	CCDS4585.1	ENSP00000473534	H2A1C_HUMAN	.	UPI0000000DB8	.	.	.	.	.	.	A:0.0018	A:0	A:0	.	A:0	A:0.001	A:0.0082	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTTGATTTT	byFrequency|byCluster|by1000G	2	BLCA
CUL9	0	.	GRCh37	6	43156294	43156294	+	Missense_Mutation	SNP	G	G	A	rs756258868	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2021G>A	p.Arg674His	p.R674H	ENST00000252050	8/41	107	50	57	100	100	0	CUL9,missense_variant,p.Arg564His,ENST00000354495,;CUL9,missense_variant,p.Arg674His,ENST00000372647,;CUL9,missense_variant,p.Arg674His,ENST00000252050,;CUL9,non_coding_transcript_exon_variant,,ENST00000510282,;CUL9,non_coding_transcript_exon_variant,,ENST00000451399,;CUL9,non_coding_transcript_exon_variant,,ENST00000515773,;	A	ENSG00000112659	ENST00000252050	Transcript	missense_variant	2105	2021	674	R/H	cGc/cAc	rs756258868,COSM1237747,COSM421302	.	.	1	CUL9	HGNC	15982	protein_coding	YES	CCDS4890.1	ENSP00000252050	CUL9_HUMAN	.	UPI000006F22F	.	deleterious(0.04)	benign(0.083)	8/41	.	hmmpanther:PTHR22771:SF2,hmmpanther:PTHR22771	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTCGCAGCT	.	5	BLCA
HSP90AB1	0	.	GRCh37	6	44216418	44216418	+	Nonsense_Mutation	SNP	C	C	T	rs765906022	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52C>T	p.Gln18Ter	p.Q18*	ENST00000371554	2/12	307	216	90	315	314	0	HSP90AB1,stop_gained,p.Gln18Ter,ENST00000353801,;HSP90AB1,stop_gained,p.Gln18Ter,ENST00000371554,;HSP90AB1,stop_gained,p.Gln18Ter,ENST00000371646,;	T	ENSG00000096384	ENST00000371554	Transcript	stop_gained	266	52	18	Q/*	Cag/Tag	rs765906022,COSM95615	.	.	1	HSP90AB1	HGNC	5258	protein_coding	YES	CCDS4909.1	ENSP00000360609	HS90B_HUMAN	A8K3W9_HUMAN	UPI00001411EF	.	.	.	2/12	.	HAMAP:MF_00505,hmmpanther:PTHR11528,Gene3D:3.30.565.10,PIRSF_domain:PIRSF002583,Superfamily_domains:SSF55874,Prints_domain:PR00775	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAGGCA	.	5	BLCA
ME1	0	.	GRCh37	6	83963391	83963391	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.771C>A	p.Asn257Lys	p.N257K	ENST00000369705	7/14	122	99	23	195	195	0	ME1,missense_variant,p.Asn91Lys,ENST00000541327,;ME1,missense_variant,p.Asn257Lys,ENST00000369705,;ME1,missense_variant,p.Asn182Lys,ENST00000543031,;	T	ENSG00000065833	ENST00000369705	Transcript	missense_variant	888	771	257	N/K	aaC/aaA	COSM421222	.	.	-1	ME1	HGNC	6983	protein_coding	YES	CCDS34492.1	ENSP00000358719	MAOX_HUMAN	F5H4W0_HUMAN,B4DZ70_HUMAN	UPI000000127E	.	tolerated(0.31)	benign(0.004)	7/14	.	hmmpanther:PTHR23406,hmmpanther:PTHR23406:SF17,Pfam_domain:PF00390,Gene3D:3.40.50.10380,PIRSF_domain:PIRSF000106,Superfamily_domains:SSF53223,Prints_domain:PR00072	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTTGTTCAG	.	5	BLCA
FBXO24	0	.	GRCh37	7	100187841	100187841	+	Silent	SNP	C	C	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297C>G	p.%3D	p.A99A	ENST00000427939	3/10	96	32	64	53	53	0	FBXO24,synonymous_variant,p.%3D,ENST00000360609,;FBXO24,synonymous_variant,p.%3D,ENST00000465843,;FBXO24,synonymous_variant,p.%3D,ENST00000427939,;FBXO24,synonymous_variant,p.%3D,ENST00000466053,;FBXO24,synonymous_variant,p.%3D,ENST00000461079,;FBXO24,synonymous_variant,p.%3D,ENST00000241071,;FBXO24,synonymous_variant,p.%3D,ENST00000468962,;LRCH4,upstream_gene_variant,,ENST00000310300,;PCOLCE-AS1,intron_variant,,ENST00000442166,;PCOLCE-AS1,downstream_gene_variant,,ENST00000544873,;FBXO24,non_coding_transcript_exon_variant,,ENST00000498195,;FBXO24,non_coding_transcript_exon_variant,,ENST00000474649,;FBXO24,intron_variant,,ENST00000488079,;LRCH4,upstream_gene_variant,,ENST00000485583,;	G	ENSG00000106336	ENST00000427939	Transcript	synonymous_variant	309	297	99	A	gcC/gcG	COSM421192,COSM1133789	.	.	1	FBXO24	HGNC	13595	protein_coding	YES	CCDS5699.2	ENSP00000416558	FBX24_HUMAN	.	UPI00017A803B	.	.	.	3/10	.	PROSITE_profiles:PS50181,hmmpanther:PTHR12846:SF13,hmmpanther:PTHR12846,Gene3D:1.20.1280.50,Pfam_domain:PF12937,SMART_domains:SM00256,Superfamily_domains:SSF81383	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGCCCTCGG	.	5	BLCA
PCOLCE	0	.	GRCh37	7	100200011	100200011	+	5'UTR	SNP	C	C	T	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-69C>T	.	.	ENST00000223061	1/9	83	77	6	46	46	0	PCOLCE,5_prime_UTR_variant,,ENST00000223061,;FBXO24,downstream_gene_variant,,ENST00000360609,;FBXO24,downstream_gene_variant,,ENST00000427939,;FBXO24,downstream_gene_variant,,ENST00000241071,;FBXO24,downstream_gene_variant,,ENST00000468962,;PCOLCE-AS1,non_coding_transcript_exon_variant,,ENST00000442166,;PCOLCE-AS1,intron_variant,,ENST00000544873,;PCOLCE-AS1,downstream_gene_variant,,ENST00000446022,;PCOLCE,upstream_gene_variant,,ENST00000486440,;PCOLCE,upstream_gene_variant,,ENST00000496269,;FBXO24,downstream_gene_variant,,ENST00000488079,;PCOLCE,upstream_gene_variant,,ENST00000462260,;PCOLCE,upstream_gene_variant,,ENST00000472348,;PCOLCE,upstream_gene_variant,,ENST00000490909,;PCOLCE,upstream_gene_variant,,ENST00000468214,;PCOLCE,upstream_gene_variant,,ENST00000482863,;PCOLCE,upstream_gene_variant,,ENST00000460002,;PCOLCE,upstream_gene_variant,,ENST00000487172,;	T	ENSG00000106333	ENST00000223061	Transcript	5_prime_UTR_variant	212	.	.	.	.	.	.	.	1	PCOLCE	HGNC	8738	protein_coding	YES	CCDS5700.1	ENSP00000223061	PCOC1_HUMAN	.	UPI0000131428	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCGCTGCTG	.	2	BLCA
ACHE	0	.	GRCh37	7	100491616	100491616	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238C>T	p.Pro80Ser	p.P80S	ENST00000302913	2/5	177	148	28	109	109	0	ACHE,missense_variant,p.Pro80Ser,ENST00000428317,;ACHE,missense_variant,p.Pro80Ser,ENST00000241069,;ACHE,missense_variant,p.Pro80Ser,ENST00000426415,;ACHE,missense_variant,p.Pro80Ser,ENST00000411582,;ACHE,missense_variant,p.Pro80Ser,ENST00000430554,;ACHE,missense_variant,p.Pro80Ser,ENST00000419336,;ACHE,missense_variant,p.Pro80Ser,ENST00000412389,;ACHE,missense_variant,p.Pro80Ser,ENST00000302913,;ACHE,missense_variant,p.Pro80Ser,ENST00000441605,;UFSP1,upstream_gene_variant,,ENST00000388761,;ACHE,downstream_gene_variant,,ENST00000445236,;ACHE,downstream_gene_variant,,ENST00000497647,;ACHE,missense_variant,p.Pro80Ser,ENST00000454485,;ACHE,missense_variant,p.Pro80Ser,ENST00000440755,;ACHE,intron_variant,,ENST00000442452,;	A	ENSG00000087085	ENST00000302913	Transcript	missense_variant	377	238	80	P/S	Cca/Tca	COSM421666,COSM1133792	.	.	-1	ACHE	HGNC	108	protein_coding	YES	CCDS5710.1	ENSP00000303211	ACES_HUMAN	C9JUK5_HUMAN,C9JD78_HUMAN	UPI0000140DF0	.	deleterious(0.03)	possibly_damaging(0.618)	2/5	.	hmmpanther:PTHR11559,hmmpanther:PTHR11559:SF171,Pfam_domain:PF00135,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P81P|c.243G>A|3,BUFFER|p.P81P|c.243G>A|3	RADIA|MUTECT|MUSE|VARSCANS	CGGTGGCAGAA	.	4	BLCA
ORAI2	0	.	GRCh37	7	102087006	102087006	+	Missense_Mutation	SNP	G	G	A	rs372227034	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.272G>A	p.Arg91Gln	p.R91Q	ENST00000356387	4/4	97	75	22	72	72	0	ORAI2,missense_variant,p.Arg91Gln,ENST00000495936,;ORAI2,missense_variant,p.Arg91Gln,ENST00000468241,;ORAI2,missense_variant,p.Arg91Gln,ENST00000403646,;ORAI2,missense_variant,p.Arg91Gln,ENST00000473939,;ORAI2,missense_variant,p.Arg91Gln,ENST00000498661,;ORAI2,missense_variant,p.Arg91Gln,ENST00000478730,;ORAI2,missense_variant,p.Arg91Gln,ENST00000356387,;ORAI2,non_coding_transcript_exon_variant,,ENST00000488996,;	A	ENSG00000160991	ENST00000356387	Transcript	missense_variant	507	272	91	R/Q	cGg/cAg	rs372227034,COSM421655	.	.	1	ORAI2	HGNC	21667	protein_coding	YES	CCDS5722.1	ENSP00000348752	ORAI2_HUMAN	C9JUY6_HUMAN,C9JQR7_HUMAN,C9J5L2_HUMAN,C9J2H9_HUMAN,B4DUB4_HUMAN	UPI0000070E55	.	tolerated(0.37)	benign(0.002)	4/4	.	hmmpanther:PTHR31501:SF5,hmmpanther:PTHR31501,Pfam_domain:PF07856	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGCGGCCGC	byFrequency|byCluster	5	BLCA
KMT2E	0	.	GRCh37	7	104681357	104681357	+	5'UTR	SNP	G	G	A	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-43G>A	.	.	ENST00000311117	3/27	86	67	18	45	45	0	KMT2E,5_prime_UTR_variant,,ENST00000474203,;KMT2E,5_prime_UTR_variant,,ENST00000334914,;KMT2E,5_prime_UTR_variant,,ENST00000495267,;KMT2E,5_prime_UTR_variant,,ENST00000257745,;KMT2E,5_prime_UTR_variant,,ENST00000476671,;KMT2E,5_prime_UTR_variant,,ENST00000311117,;KMT2E,5_prime_UTR_variant,,ENST00000478990,;KMT2E,5_prime_UTR_variant,,ENST00000334877,;KMT2E,downstream_gene_variant,,ENST00000480368,;KMT2E,5_prime_UTR_variant,,ENST00000482560,;KMT2E,5_prime_UTR_variant,,ENST00000334884,;	A	ENSG00000005483	ENST00000311117	Transcript	5_prime_UTR_variant	503	.	.	.	.	.	.	.	1	KMT2E	HGNC	18541	protein_coding	YES	CCDS34723.1	ENSP00000312379	KMT2E_HUMAN	O95038_HUMAN,C9JQ68_HUMAN,C9JNE1_HUMAN	UPI0000074133	.	.	.	3/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAATGCATAG	.	4	BLCA
PRPS1L1	0	.	GRCh37	7	18067430	18067430	+	5'UTR	SNP	C	C	T	rs776621888	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-25G>A	.	.	ENST00000506618	1/1	46	35	11	48	48	0	PRPS1L1,5_prime_UTR_variant,,ENST00000506618,;	T	ENSG00000229937	ENST00000506618	Transcript	5_prime_UTR_variant	57	.	.	.	.	rs776621888	.	.	-1	PRPS1L1	HGNC	9463	protein_coding	YES	CCDS47552.1	ENSP00000424595	.	.	UPI0001881450	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|VARSCANS	CACTCCGTCGA	byFrequency	3	BLCA
DNAH11	0	.	GRCh37	7	21826264	21826264	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9641C>G	p.Ala3214Gly	p.A3214G	ENST00000328843	60/83	109	100	9	199	198	0	DNAH11,missense_variant,p.Ala3214Gly,ENST00000328843,;DNAH11,missense_variant,p.Ala3207Gly,ENST00000409508,;	G	ENSG00000105877	ENST00000328843	Transcript	missense_variant	9672	9641	3214	A/G	gCc/gGc	COSM421501,COSM1203970	.	.	1	DNAH11	HGNC	2942	protein_coding	YES	.	ENSP00000330671	DYH11_HUMAN	Q75MY1_HUMAN,Q75KM7_HUMAN,O95705_HUMAN,O43352_HUMAN,O15433_HUMAN	UPI000041AC4D	.	.	benign(0.018)	60/83	.	hmmpanther:PTHR10676:SF227,hmmpanther:PTHR10676,Pfam_domain:PF12777	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAAAGCCTTTC	.	3	BLCA
HECW1	0	.	GRCh37	7	43484652	43484652	+	Silent	SNP	G	G	A	rs773284429	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1881G>A	p.%3D	p.T627T	ENST00000395891	11/30	31	20	10	16	16	0	HECW1,synonymous_variant,p.%3D,ENST00000453890,;HECW1,synonymous_variant,p.%3D,ENST00000395891,;HECW1,downstream_gene_variant,,ENST00000471043,;	A	ENSG00000002746	ENST00000395891	Transcript	synonymous_variant	2486	1881	627	T	acG/acA	rs773284429,COSM421450	.	.	1	HECW1	HGNC	22195	protein_coding	YES	CCDS5469.2	ENSP00000379228	HECW1_HUMAN	A4D1V5_HUMAN	UPI0000D74C41	.	.	.	11/30	.	hmmpanther:PTHR11254:SF79,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCACGGCGCA	byFrequency	5	BLCA
FOXK1	0	.	GRCh37	7	4794201	4794201	+	Silent	SNP	C	C	T	rs763169832	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858C>T	p.%3D	p.A286A	ENST00000328914	3/9	78	66	11	69	69	0	FOXK1,synonymous_variant,p.%3D,ENST00000446823,;FOXK1,synonymous_variant,p.%3D,ENST00000460979,;FOXK1,synonymous_variant,p.%3D,ENST00000328914,;FOXK1,upstream_gene_variant,,ENST00000496023,;	T	ENSG00000164916	ENST00000328914	Transcript	synonymous_variant	858	858	286	A	gcC/gcT	rs763169832,COSM421428,COSM421429	.	.	1	FOXK1	HGNC	23480	protein_coding	YES	CCDS34591.1	ENSP00000328720	FOXK1_HUMAN	B3KV39_HUMAN	UPI00004158EB	.	.	.	3/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11829:SF107,hmmpanther:PTHR11829	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGCCGCGTC	byFrequency	4	BLCA
BET1	0	.	GRCh37	7	93633654	93633655	+	5'UTR	INS	-	-	C	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-127dupG	.	.	ENST00000222547	1/4	58	51	7	21	21	0	BET1,5_prime_UTR_variant,,ENST00000433727,;BET1,5_prime_UTR_variant,,ENST00000222547,;BET1,5_prime_UTR_variant,,ENST00000425626,;BET1,upstream_gene_variant,,ENST00000457139,;AC006378.2,intron_variant,,ENST00000426634,;AC006378.2,downstream_gene_variant,,ENST00000426193,;BET1,5_prime_UTR_variant,,ENST00000357520,;	C	ENSG00000105829	ENST00000222547	Transcript	5_prime_UTR_variant	33-34	.	.	.	.	.	.	.	-1	BET1	HGNC	14562	protein_coding	YES	CCDS5635.1	ENSP00000222547	BET1_HUMAN	Q53XK0_HUMAN	UPI000012689A	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	AAAGCGCCACG	.	2	BLCA
GPC2	0	.	GRCh37	7	99774879	99774879	+	5'UTR	SNP	C	C	G	novel	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-57G>C	.	.	ENST00000292377	1/10	30	8	21	18	18	0	GPC2,5_prime_UTR_variant,,ENST00000292377,;STAG3,upstream_gene_variant,,ENST00000422690,;STAG3,upstream_gene_variant,,ENST00000426455,;STAG3,upstream_gene_variant,,ENST00000394018,;STAG3,upstream_gene_variant,,ENST00000317296,;STAG3,upstream_gene_variant,,ENST00000416412,;STAG3,upstream_gene_variant,,ENST00000439782,;GPC2,non_coding_transcript_exon_variant,,ENST00000480087,;GPC2,non_coding_transcript_exon_variant,,ENST00000482569,;GPC2,upstream_gene_variant,,ENST00000471050,;STAG3,upstream_gene_variant,,ENST00000459699,;GPC2,non_coding_transcript_exon_variant,,ENST00000471717,;STAG3,upstream_gene_variant,,ENST00000496157,;GPC2,upstream_gene_variant,,ENST00000490629,;STAG3,upstream_gene_variant,,ENST00000482546,;	G	ENSG00000213420	ENST00000292377	Transcript	5_prime_UTR_variant	112	.	.	.	.	.	.	.	-1	GPC2	HGNC	4450	protein_coding	YES	CCDS5689.1	ENSP00000292377	GPC2_HUMAN	.	UPI000005340D	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCTCCCAAACT	.	4	BLCA
POU5F1B	0	.	GRCh37	8	128429170	128429170	+	Silent	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1059C>T	p.%3D	p.G353G	ENST00000465342	2/2	30	16	13	24	24	0	POU5F1B,synonymous_variant,p.%3D,ENST00000465342,;POU5F1B,synonymous_variant,p.%3D,ENST00000391675,;CASC8,intron_variant,,ENST00000502082,;CASC8,intron_variant,,ENST00000501396,;CASC8,intron_variant,,ENST00000523825,;	T	ENSG00000212993	ENST00000465342	Transcript	synonymous_variant	2216	1059	353	G	ggC/ggT	COSM421740,COSM421739	.	.	1	POU5F1B	HGNC	9223	protein_coding	YES	CCDS55274.1	ENSP00000419298	P5F1B_HUMAN	D5K9T1_HUMAN	UPI000013F18B	.	.	.	2/2	.	hmmpanther:PTHR11636:SF15,hmmpanther:PTHR11636	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGGCTCTCC	.	5	BLCA
COL22A1	0	.	GRCh37	8	139734291	139734291	+	Silent	SNP	C	C	T	rs374425269	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2289G>A	p.%3D	p.P763P	ENST00000303045	26/65	25	17	7	21	21	0	COL22A1,synonymous_variant,p.%3D,ENST00000303045,;COL22A1,synonymous_variant,p.%3D,ENST00000435777,;COL22A1,intron_variant,,ENST00000341807,;	T	ENSG00000169436	ENST00000303045	Transcript	synonymous_variant	2736	2289	763	P	ccG/ccA	rs374425269,COSM299834,COSM421722	.	.	-1	COL22A1	HGNC	22989	protein_coding	YES	CCDS6376.1	ENSP00000303153	COMA1_HUMAN	.	UPI00001C1EA1	.	.	.	26/65	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023:SF379,hmmpanther:PTHR24023,Pfam_domain:PF01391,Pfam_domain:PF01391	T:0.0006	T:0	T:0	.	T:0.003	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGGCGGACC	byFrequency|byCluster|by1000G	5	BLCA
BOP1	0	.	GRCh37	8	145512927	145512927	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158C>G	p.Ser53Cys	p.S53C	ENST00000307404	2/16	120	45	75	81	81	0	BOP1,missense_variant,p.Ser53Cys,ENST00000307404,;BOP1,5_prime_UTR_variant,,ENST00000529231,;BOP1,intron_variant,,ENST00000526552,;HSF1,upstream_gene_variant,,ENST00000528838,;HSF1,upstream_gene_variant,,ENST00000533240,;BOP1,non_coding_transcript_exon_variant,,ENST00000533125,;HSF1,upstream_gene_variant,,ENST00000528988,;	C	ENSG00000170727	ENST00000307404	Transcript	missense_variant	188	158	53	S/C	tCc/tGc	COSM421707	.	.	-1	BOP1	HGNC	15519	protein_coding	YES	CCDS6418.1	ENSP00000304151	BOP1_HUMAN	Q96Q25_HUMAN,Q6DKJ9_HUMAN,Q4G0D9_HUMAN,E9PRN9_HUMAN	UPI0000126A63	.	deleterious(0)	possibly_damaging(0.7)	2/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR17605,HAMAP:MF_03027	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCGGAGACG	.	5	BLCA
KIF13B	0	.	GRCh37	8	28998127	28998127	+	Missense_Mutation	SNP	C	C	A	rs758163466	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2342G>T	p.Arg781Leu	p.R781L	ENST00000524189	20/40	48	38	9	47	47	0	KIF13B,missense_variant,p.Arg781Leu,ENST00000524189,;CTD-2647L4.1,non_coding_transcript_exon_variant,,ENST00000517632,;CTD-2647L4.1,non_coding_transcript_exon_variant,,ENST00000523661,;RN7SL781P,upstream_gene_variant,,ENST00000582428,;	A	ENSG00000197892	ENST00000524189	Transcript	missense_variant	2381	2342	781	R/L	cGa/cTa	rs758163466	.	.	-1	KIF13B	HGNC	14405	protein_coding	YES	CCDS55217.1	ENSP00000427900	KI13B_HUMAN	.	UPI000035B257	.	tolerated(0.08)	benign(0.236)	20/40	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF338,Pfam_domain:PF12423	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATCGTATT	byFrequency	5	BLCA
DDHD2	0	.	GRCh37	8	38095117	38095117	+	Missense_Mutation	SNP	G	G	A	rs753948540	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.473G>A	p.Arg158Lys	p.R158K	ENST00000397166	4/18	81	64	17	57	57	0	DDHD2,missense_variant,p.Arg158Lys,ENST00000397166,;DDHD2,missense_variant,p.Arg156Lys,ENST00000528358,;DDHD2,missense_variant,p.Arg158Lys,ENST00000520272,;DDHD2,missense_variant,p.Arg158Lys,ENST00000532222,;DDHD2,upstream_gene_variant,,ENST00000532106,;DDHD2,downstream_gene_variant,,ENST00000527834,;DDHD2,downstream_gene_variant,,ENST00000529642,;DDHD2,downstream_gene_variant,,ENST00000533100,;DDHD2,non_coding_transcript_exon_variant,,ENST00000526370,;DDHD2,upstream_gene_variant,,ENST00000528888,;DDHD2,missense_variant,p.Arg128Lys,ENST00000527415,;DDHD2,3_prime_UTR_variant,,ENST00000526237,;DDHD2,non_coding_transcript_exon_variant,,ENST00000519857,;DDHD2,upstream_gene_variant,,ENST00000531344,;	A	ENSG00000085788	ENST00000397166	Transcript	missense_variant	998	473	158	R/K	aGa/aAa	rs753948540,COSM422135	.	.	1	DDHD2	HGNC	29106	protein_coding	YES	CCDS34883.1	ENSP00000380352	DDHD2_HUMAN	H0YE64_HUMAN,E9PQY9_HUMAN,E9PPH8_HUMAN,E9PP45_HUMAN,E9PK57_HUMAN,B3KXB5_HUMAN	UPI0000160E07	.	tolerated(0.12)	benign(0.018)	4/18	.	hmmpanther:PTHR15457:SF7,hmmpanther:PTHR15457	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACAGAGAAA	.	5	BLCA
KCNB2	0	.	GRCh37	8	73480335	73480335	+	Silent	SNP	A	A	G	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366A>G	p.%3D	p.E122E	ENST00000523207	2/3	164	125	38	166	165	1	KCNB2,synonymous_variant,p.%3D,ENST00000523207,;	G	ENSG00000182674	ENST00000523207	Transcript	synonymous_variant	954	366	122	E	gaA/gaG	COSM422067	.	.	1	KCNB2	HGNC	6232	protein_coding	YES	CCDS6209.1	ENSP00000430846	KCNB2_HUMAN	.	UPI000012DC85	.	.	.	2/3	.	hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF110,Gene3D:3.30.710.10,Pfam_domain:PF02214,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGAACTTGA	.	5	BLCA
ZFHX4	0	.	GRCh37	8	77776411	77776411	+	Silent	SNP	T	T	C	rs371578848	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10461T>C	p.%3D	p.V3487V	ENST00000521891	11/11	31	25	6	85	85	0	ZFHX4,synonymous_variant,p.%3D,ENST00000455469,;ZFHX4,synonymous_variant,p.%3D,ENST00000518282,;ZFHX4,synonymous_variant,p.%3D,ENST00000050961,;ZFHX4,synonymous_variant,p.%3D,ENST00000521891,;	C	ENSG00000091656	ENST00000521891	Transcript	synonymous_variant	10909	10461	3487	V	gtT/gtC	rs371578848,COSM422058	.	.	1	ZFHX4	HGNC	30939	protein_coding	YES	CCDS47878.2	ENSP00000430497	.	Q9H7F3_HUMAN,Q86WW5_HUMAN,Q6DK57_HUMAN,G3V138_HUMAN,E5RI93_HUMAN,E5RHS1_HUMAN,E5RGK3_HUMAN,E5RG79_HUMAN	UPI0000424CC7	.	.	.	11/11	.	hmmpanther:PTHR24208:SF40,hmmpanther:PTHR24208	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGTTAGATT	byFrequency|byCluster	5	BLCA
SETX	0	.	GRCh37	9	135205856	135205856	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129G>T	p.Asp377Tyr	p.D377Y	ENST00000224140	10/26	44	15	29	91	91	0	SETX,missense_variant,p.Asp377Tyr,ENST00000372169,;SETX,missense_variant,p.Asp377Tyr,ENST00000393220,;SETX,missense_variant,p.Asp377Tyr,ENST00000224140,;	A	ENSG00000107290	ENST00000224140	Transcript	missense_variant	1312	1129	377	D/Y	Gat/Tat	COSM421918	.	.	-1	SETX	HGNC	445	protein_coding	YES	CCDS6947.1	ENSP00000224140	SETX_HUMAN	.	UPI0000210D28	.	deleterious(0)	probably_damaging(0.999)	10/26	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF336	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAATCTGGGC	.	5	BLCA
FLNA	0	.	GRCh37	X	153592464	153592464	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2206G>A	p.Val736Met	p.V736M	ENST00000369850	15/48	92	19	72	151	151	0	FLNA,missense_variant,p.Val736Met,ENST00000344736,;FLNA,missense_variant,p.Val736Met,ENST00000422373,;FLNA,missense_variant,p.Val736Met,ENST00000369850,;FLNA,missense_variant,p.Val736Met,ENST00000360319,;FLNA,3_prime_UTR_variant,,ENST00000420627,;FLNA,downstream_gene_variant,,ENST00000465144,;FLNA,upstream_gene_variant,,ENST00000490936,;	T	ENSG00000196924	ENST00000369850	Transcript	missense_variant	2443	2206	736	V/M	Gtg/Atg	COSM422180	.	.	-1	FLNA	HGNC	3754	protein_coding	YES	CCDS48194.1	ENSP00000358866	FLNA_HUMAN	Q96C61_HUMAN,Q86TQ3_HUMAN,Q6NXF2_HUMAN,Q60FE5_HUMAN	UPI000013C596	.	tolerated(0.17)	benign(0.364)	15/48	.	PROSITE_profiles:PS50194,hmmpanther:PTHR11915:SF173,hmmpanther:PTHR11915,Gene3D:2.60.40.10,Pfam_domain:PF00630,SMART_domains:SM00557,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCACGTAGG	.	5	BLCA
ZNF645	0	.	GRCh37	X	22291957	22291957	+	Silent	SNP	G	G	A	.	.	TCGA-C4-A0F7-01A-11D-A10S-08	TCGA-C4-A0F7-10A-01D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.849G>A	p.%3D	p.A283A	ENST00000323684	1/1	93	21	71	141	141	0	ZNF645,synonymous_variant,p.%3D,ENST00000323684,;RP11-40F8.2,intron_variant,,ENST00000608254,;	A	ENSG00000175809	ENST00000323684	Transcript	synonymous_variant	893	849	283	A	gcG/gcA	COSM169377	.	.	1	ZNF645	HGNC	26371	protein_coding	YES	CCDS14205.1	ENSP00000323348	ZN645_HUMAN	.	UPI0000073BD5	.	.	.	1/1	.	hmmpanther:PTHR13480,hmmpanther:PTHR13480:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.A283A|c.849G>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATGCGCCACC	.	5	BLCA
PAOX	0	.	GRCh37	10	135203207	135203207	+	Missense_Mutation	SNP	G	G	A	rs199564705	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1348G>A	p.Asp450Asn	p.D450N	ENST00000278060	6/7	64	48	15	63	63	0	PAOX,missense_variant,p.Asp450Asn,ENST00000278060,;PAOX,3_prime_UTR_variant,,ENST00000368539,;PAOX,intron_variant,,ENST00000357296,;PAOX,intron_variant,,ENST00000480071,;RP11-108K14.8,upstream_gene_variant,,ENST00000468317,;MTG1,upstream_gene_variant,,ENST00000477902,;MTG1,upstream_gene_variant,,ENST00000432508,;MTG1,upstream_gene_variant,,ENST00000317502,;PAOX,non_coding_transcript_exon_variant,,ENST00000368535,;PAOX,upstream_gene_variant,,ENST00000530555,;PAOX,3_prime_UTR_variant,,ENST00000476834,;PAOX,3_prime_UTR_variant,,ENST00000356306,;PAOX,3_prime_UTR_variant,,ENST00000483211,;PAOX,intron_variant,,ENST00000529585,;MTG1,upstream_gene_variant,,ENST00000460848,;MTG1,upstream_gene_variant,,ENST00000495014,;MTG1,upstream_gene_variant,,ENST00000473735,;MTG1,upstream_gene_variant,,ENST00000498790,;	A	ENSG00000148832	ENST00000278060	Transcript	missense_variant	1431	1348	450	D/N	Gac/Aac	rs199564705,COSM415095	.	.	1	PAOX	HGNC	20837	protein_coding	YES	CCDS7683.1	ENSP00000278060	PAOX_HUMAN	D3DXI4_HUMAN,B0QZA9_HUMAN	UPI000000D787	.	deleterious(0)	probably_damaging(0.992)	6/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10742,hmmpanther:PTHR10742:SF43,Pfam_domain:PF01593	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTGGACCTG	byCluster|by1000G	5	BLCA
ITGA8	0	.	GRCh37	10	15600156	15600156	+	Nonsense_Mutation	SNP	G	G	A	rs752710916	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2683C>T	p.Arg895Ter	p.R895*	ENST00000378076	26/30	132	115	16	99	99	0	ITGA8,stop_gained,p.Arg895Ter,ENST00000378076,;	A	ENSG00000077943	ENST00000378076	Transcript	stop_gained	3037	2683	895	R/*	Cga/Tga	rs752710916,COSM415088	.	.	-1	ITGA8	HGNC	6144	protein_coding	YES	CCDS31155.1	ENSP00000367316	ITA8_HUMAN	.	UPI00001D80A0	.	.	.	26/30	.	hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF5,Gene3D:1jv2A04,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.R895*|c.2683C>T|4	RADIA|MUTECT|MUSE|VARSCANS	GTTTCGCAAAA	byFrequency	4	BLCA
ITGA8	0	.	GRCh37	10	15760853	15760853	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255C>T	p.%3D	p.P85P	ENST00000378076	2/30	163	124	38	185	184	0	ITGA8,synonymous_variant,p.%3D,ENST00000378076,;	A	ENSG00000077943	ENST00000378076	Transcript	synonymous_variant	609	255	85	P	ccC/ccT	COSM415086	.	.	-1	ITGA8	HGNC	6144	protein_coding	YES	CCDS31155.1	ENSP00000367316	ITA8_HUMAN	.	UPI00001D80A0	.	.	.	2/30	.	PROSITE_profiles:PS51470,hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF5,Gene3D:3nigC00,SMART_domains:SM00191,Superfamily_domains:SSF69318	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATCGGGCTG	.	5	BLCA
SKIDA1	0	.	GRCh37	10	21804178	21804178	+	Silent	SNP	A	A	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2574T>A	p.%3D	p.I858I	ENST00000449193	4/4	74	56	18	57	57	0	SKIDA1,synonymous_variant,p.%3D,ENST00000444772,;SKIDA1,synonymous_variant,p.%3D,ENST00000449193,;SKIDA1,downstream_gene_variant,,ENST00000487107,;	T	ENSG00000180592	ENST00000449193	Transcript	synonymous_variant	4827	2574	858	I	atT/atA	COSM415072,COSM415073	.	.	-1	SKIDA1	HGNC	32697	protein_coding	YES	CCDS44363.1	ENSP00000410041	.	E9PAX1_HUMAN	UPI00015386B3	.	.	.	4/4	.	hmmpanther:PTHR23187:SF2,hmmpanther:PTHR23187,Pfam_domain:PF15223	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCCAATAAT	.	5	BLCA
CSGALNACT2	0	.	GRCh37	10	43662480	43662480	+	Silent	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1188C>T	p.%3D	p.F396F	ENST00000374466	6/8	67	48	19	61	60	1	CSGALNACT2,synonymous_variant,p.%3D,ENST00000374466,;CSGALNACT2,downstream_gene_variant,,ENST00000374464,;	T	ENSG00000169826	ENST00000374466	Transcript	synonymous_variant	1523	1188	396	F	ttC/ttT	COSM415031	.	.	1	CSGALNACT2	HGNC	24292	protein_coding	YES	CCDS7201.1	ENSP00000363590	CGAT2_HUMAN	.	UPI000000D725	.	.	.	6/8	.	Superfamily_domains:SSF53448,Gene3D:3.90.550.10,Pfam_domain:PF05679,hmmpanther:PTHR12369:SF19,hmmpanther:PTHR12369	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTTCAGTCT	.	5	BLCA
FAM21C	0	.	GRCh37	10	46245583	46245583	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772G>A	p.Gly258Ser	p.G258S	ENST00000374362	9/30	161	135	25	160	160	0	FAM21C,missense_variant,p.Gly203Ser,ENST00000420848,;FAM21C,missense_variant,p.Gly258Ser,ENST00000374362,;FAM21C,missense_variant,p.Gly258Ser,ENST00000336378,;FAM21C,missense_variant,p.Gly202Ser,ENST00000359860,;FAM21C,missense_variant,p.Gly258Ser,ENST00000540872,;FAM21C,missense_variant,p.Gly258Ser,ENST00000537517,;	A	ENSG00000172661	ENST00000374362	Transcript	missense_variant	871	772	258	G/S	Ggc/Agc	COSM415021	.	.	1	FAM21C	HGNC	23414	protein_coding	YES	CCDS44374.2	ENSP00000363482	FA21C_HUMAN	.	UPI0000551BE9	.	deleterious(0.02)	probably_damaging(0.974)	9/30	.	hmmpanther:PTHR21669:SF4,hmmpanther:PTHR21669	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGATGGCTGT	.	4	BLCA
RBM17	0	.	GRCh37	10	6155497	6155497	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883C>G	p.Pro295Ala	p.P295A	ENST00000446108	9/12	200	158	42	198	198	0	RBM17,missense_variant,p.Pro295Ala,ENST00000379888,;RBM17,missense_variant,p.Pro295Ala,ENST00000446108,;RBM17,downstream_gene_variant,,ENST00000447032,;RBM17,downstream_gene_variant,,ENST00000418631,;RBM17,downstream_gene_variant,,ENST00000432931,;RBM17,downstream_gene_variant,,ENST00000437845,;RBM17,non_coding_transcript_exon_variant,,ENST00000476706,;RBM17,downstream_gene_variant,,ENST00000481147,;RBM17,non_coding_transcript_exon_variant,,ENST00000465906,;RBM17,upstream_gene_variant,,ENST00000496762,;RBM17,upstream_gene_variant,,ENST00000467080,;	G	ENSG00000134453	ENST00000446108	Transcript	missense_variant	1527	883	295	P/A	Ccg/Gcg	COSM414996	.	.	1	RBM17	HGNC	16944	protein_coding	YES	CCDS7077.1	ENSP00000388638	SPF45_HUMAN	Q5W011_HUMAN,Q5W009_HUMAN	UPI000000D96A	.	tolerated(0.08)	probably_damaging(0.994)	9/12	.	PIRSF_domain:PIRSF031066,hmmpanther:PTHR13288,hmmpanther:PTHR13288:SF8	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAATCCGCTG	.	5	BLCA
ANK3	0	.	GRCh37	10	61829047	61829047	+	Silent	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11592A>G	p.%3D	p.K3864K	ENST00000280772	37/44	467	355	112	564	564	0	ANK3,synonymous_variant,p.%3D,ENST00000280772,;ANK3,intron_variant,,ENST00000373827,;ANK3,intron_variant,,ENST00000373820,;ANK3,intron_variant,,ENST00000355288,;ANK3,intron_variant,,ENST00000511043,;ANK3,intron_variant,,ENST00000503366,;ANK3,upstream_gene_variant,,ENST00000459732,;	C	ENSG00000151150	ENST00000280772	Transcript	synonymous_variant	11784	11592	3864	K	aaA/aaG	COSM414995	.	.	-1	ANK3	HGNC	494	protein_coding	YES	CCDS7258.1	ENSP00000280772	ANK3_HUMAN	D6RFK6_HUMAN,D6RBY7_HUMAN,B1AQT1_HUMAN	UPI0000141BA9	.	.	.	37/44	.	hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF15	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAAGTTTGGA	.	5	BLCA
COL13A1	0	.	GRCh37	10	71677085	71677085	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.992C>T	p.Ala331Val	p.A331V	ENST00000398978	18/40	58	50	8	52	52	0	COL13A1,missense_variant,p.Ala309Val,ENST00000517713,;COL13A1,missense_variant,p.Ala309Val,ENST00000354547,;COL13A1,missense_variant,p.Ala331Val,ENST00000398978,;COL13A1,missense_variant,p.Ala302Val,ENST00000398964,;COL13A1,missense_variant,p.Ala331Val,ENST00000398971,;COL13A1,missense_variant,p.Ala309Val,ENST00000398966,;COL13A1,missense_variant,p.Ala274Val,ENST00000398969,;COL13A1,missense_variant,p.Ala331Val,ENST00000398973,;COL13A1,missense_variant,p.Ala280Val,ENST00000520133,;COL13A1,missense_variant,p.Ala274Val,ENST00000520267,;COL13A1,missense_variant,p.Ala312Val,ENST00000522165,;COL13A1,missense_variant,p.Ala312Val,ENST00000398968,;COL13A1,missense_variant,p.Ala319Val,ENST00000398974,;COL13A1,missense_variant,p.Ala331Val,ENST00000356340,;COL13A1,missense_variant,p.Ala331Val,ENST00000398972,;COL13A1,missense_variant,p.Ala309Val,ENST00000357811,;COL13A1,missense_variant,p.Ala340Val,ENST00000479733,;	T	ENSG00000197467	ENST00000398978	Transcript	missense_variant	1484	992	331	A/V	gCc/gTc	COSM414982,COSM414981	.	.	1	COL13A1	HGNC	2190	protein_coding	YES	CCDS44419.1	ENSP00000381949	CODA1_HUMAN	Q9UP45_HUMAN	UPI000046FD72	.	tolerated(0.32)	benign(0.243)	18/40	.	hmmpanther:PTHR24023,Pfam_domain:PF01391,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGAGCCAAGG	.	2	BLCA
IFIT2	0	.	GRCh37	10	91061723	91061723	+	5'UTR	SNP	T	T	C	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-158T>C	.	.	ENST00000371826	1/2	21	14	7	22	22	0	IFIT2,5_prime_UTR_variant,,ENST00000371826,;LIPA,intron_variant,,ENST00000371837,;LIPA,intron_variant,,ENST00000282673,;LIPA,intron_variant,,ENST00000487618,;LIPA,intron_variant,,ENST00000463623,;	C	ENSG00000119922	ENST00000371826	Transcript	5_prime_UTR_variant	12	.	.	.	.	.	.	.	1	IFIT2	HGNC	5409	protein_coding	YES	CCDS41548.1	ENSP00000360891	IFIT2_HUMAN	.	UPI000012D3E4	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTTGTAAC	.	5	BLCA
NELL1	0	.	GRCh37	11	21592405	21592405	+	Silent	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2076T>C	p.%3D	p.S692S	ENST00000357134	18/20	188	145	43	170	169	0	NELL1,synonymous_variant,p.%3D,ENST00000325319,;NELL1,synonymous_variant,p.%3D,ENST00000357134,;NELL1,synonymous_variant,p.%3D,ENST00000298925,;NELL1,synonymous_variant,p.%3D,ENST00000532434,;NELL1,non_coding_transcript_exon_variant,,ENST00000529218,;	C	ENSG00000165973	ENST00000357134	Transcript	synonymous_variant	2228	2076	692	S	agT/agC	COSM415226	.	.	1	NELL1	HGNC	7750	protein_coding	YES	CCDS7855.1	ENSP00000349654	NELL1_HUMAN	K9UUD5_HUMAN	UPI000013E53D	.	.	.	18/20	.	PROSITE_profiles:PS50184,hmmpanther:PTHR24042,hmmpanther:PTHR24042:SF2,Superfamily_domains:SSF57603	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAAGTCAATG	.	5	BLCA
CCDC73	0	.	GRCh37	11	32635179	32635179	+	Silent	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2685T>C	p.%3D	p.T895T	ENST00000335185	16/18	309	236	72	271	271	0	CCDC73,synonymous_variant,p.%3D,ENST00000335185,;CCDC73,intron_variant,,ENST00000528333,;CCDC73,downstream_gene_variant,,ENST00000534415,;	G	ENSG00000186714	ENST00000335185	Transcript	synonymous_variant	2729	2685	895	T	acT/acC	COSM415215	.	.	-1	CCDC73	HGNC	23261	protein_coding	YES	CCDS41630.1	ENSP00000335325	CCD73_HUMAN	.	UPI000066725E	.	.	.	16/18	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCAGTTTT	.	5	BLCA
HIPK3	0	.	GRCh37	11	33360345	33360345	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1384G>A	p.Glu462Lys	p.E462K	ENST00000303296	5/17	139	107	32	113	113	0	HIPK3,missense_variant,p.Glu462Lys,ENST00000525975,;HIPK3,missense_variant,p.Glu462Lys,ENST00000456517,;HIPK3,missense_variant,p.Glu462Lys,ENST00000379016,;HIPK3,missense_variant,p.Glu462Lys,ENST00000303296,;HIPK3,non_coding_transcript_exon_variant,,ENST00000534262,;	A	ENSG00000110422	ENST00000303296	Transcript	missense_variant	1689	1384	462	E/K	Gaa/Aaa	COSM415621	.	.	1	HIPK3	HGNC	4915	protein_coding	YES	CCDS7884.1	ENSP00000304226	HIPK3_HUMAN	E9PKD7_HUMAN	UPI000006D7F8	.	deleterious(0)	probably_damaging(0.999)	5/17	.	SMART_domains:SM00220,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR24058:SF29,hmmpanther:PTHR24058,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAAAGAAGCC	.	5	BLCA
TRIM48	0	.	GRCh37	11	55036744	55036744	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.605C>T	p.Pro202Leu	p.P202L	ENST00000417545	5/6	124	86	38	115	115	0	TRIM48,missense_variant,p.Pro202Leu,ENST00000417545,;RP11-72M10.2,downstream_gene_variant,,ENST00000526762,;	T	ENSG00000150244	ENST00000417545	Transcript	missense_variant	691	605	202	P/L	cCc/cTc	COSM415572,COSM415571	.	.	1	TRIM48	HGNC	19021	protein_coding	YES	CCDS7947.2	ENSP00000402414	TRI48_HUMAN	.	UPI0000374413	.	tolerated(0.11)	possibly_damaging(0.859)	5/6	.	hmmpanther:PTHR24103:SF310,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGCCCCAGC	.	5	BLCA
OR5M9	0	.	GRCh37	11	56230095	56230095	+	Silent	SNP	G	G	T	rs750311484	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783C>A	p.%3D	p.P261P	ENST00000279791	1/1	115	82	32	82	82	0	OR5M9,synonymous_variant,p.%3D,ENST00000279791,;	T	ENSG00000150269	ENST00000279791	Transcript	synonymous_variant	783	783	261	P	ccC/ccA	rs750311484,COSM363653,COSM415560	.	.	-1	OR5M9	HGNC	15294	protein_coding	YES	CCDS31531.1	ENSP00000279791	OR5M9_HUMAN	.	UPI0000061E81	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF13,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGTGGGTCT	.	5	BLCA
OR9G4	0	.	GRCh37	11	56510738	56510738	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550T>C	p.Cys184Arg	p.C184R	ENST00000302957	1/1	118	74	43	120	120	0	OR9G4,missense_variant,p.Cys184Arg,ENST00000302957,;OR9G3P,downstream_gene_variant,,ENST00000525553,;OR9G3P,downstream_gene_variant,,ENST00000327003,;	G	ENSG00000172457	ENST00000302957	Transcript	missense_variant	550	550	184	C/R	Tgt/Cgt	COSM415555	.	.	-1	OR9G4	HGNC	15322	protein_coding	YES	CCDS31537.1	ENSP00000307515	OR9G4_HUMAN	.	UPI00001D77DB	.	deleterious(0)	probably_damaging(1)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF141,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCACAAAAAT	.	5	BLCA
P2RX3	0	.	GRCh37	11	57137457	57137457	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1182delC	p.Ile395Ter	p.I395*	ENST00000263314	12/12	81	67	14	54	54	0	P2RX3,frameshift_variant,p.Ile395Ter,ENST00000263314,;	-	ENSG00000109991	ENST00000263314	Transcript	frameshift_variant	1215	1181	394	S/X	tCc/tc	.	.	.	1	P2RX3	HGNC	8534	protein_coding	YES	CCDS7953.1	ENSP00000263314	P2RX3_HUMAN	H0YDR6_HUMAN	UPI00000342EB	.	.	.	12/12	.	hmmpanther:PTHR10125,hmmpanther:PTHR10125:SF8,Prints_domain:PR01310	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTTCTCCATAG	.	3	BLCA
OR4D6	0	.	GRCh37	11	59224536	59224536	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103T>C	p.Tyr35His	p.Y35H	ENST00000300127	1/1	177	127	50	204	204	0	OR4D6,missense_variant,p.Tyr35His,ENST00000300127,;	C	ENSG00000166884	ENST00000300127	Transcript	missense_variant	126	103	35	Y/H	Tat/Cat	COSM415528	.	.	1	OR4D6	HGNC	15175	protein_coding	YES	CCDS31562.1	ENSP00000300127	OR4D6_HUMAN	.	UPI0000046487	.	deleterious(0.01)	probably_damaging(0.997)	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF300,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTGTATGTA	.	5	BLCA
MALAT1	0	.	GRCh37	11	65266577	65266577	+	RNA	SNP	C	C	A	rs371155719	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1345C>A	.	.	ENST00000534336	1/1	148	104	43	127	127	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	1345	.	.	.	.	rs371155719	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	A:0	A:0.0003	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GAAACCGCAGA	byFrequency|byCluster	4	BLCA
SUV420H1	0	.	GRCh37	11	67942531	67942531	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.497A>G	p.Tyr166Cys	p.Y166C	ENST00000304363	5/11	78	52	26	66	66	0	SUV420H1,missense_variant,p.Tyr95Cys,ENST00000458496,;SUV420H1,missense_variant,p.Tyr95Cys,ENST00000453170,;SUV420H1,missense_variant,p.Tyr166Cys,ENST00000402789,;SUV420H1,missense_variant,p.Tyr166Cys,ENST00000405515,;SUV420H1,missense_variant,p.Tyr166Cys,ENST00000304363,;SUV420H1,missense_variant,p.Tyr143Cys,ENST00000402185,;SUV420H1,missense_variant,p.Tyr166Cys,ENST00000401547,;SUV420H1,5_prime_UTR_variant,,ENST00000533271,;SUV420H1,missense_variant,p.Tyr166Cys,ENST00000441488,;SUV420H1,missense_variant,p.Tyr52Cys,ENST00000323599,;SUV420H1,3_prime_UTR_variant,,ENST00000427752,;SUV420H1,non_coding_transcript_exon_variant,,ENST00000524672,;	C	ENSG00000110066	ENST00000304363	Transcript	missense_variant	851	497	166	Y/C	tAt/tGt	COSM415774	.	.	-1	SUV420H1	HGNC	24283	protein_coding	YES	CCDS31623.1	ENSP00000305899	SV421_HUMAN	E9PKD9_HUMAN,C9JP58_HUMAN,C9JFG1_HUMAN,C9J6S5_HUMAN	UPI00001FADE7	.	deleterious(0.02)	benign(0.099)	5/11	.	PROSITE_profiles:PS51570,hmmpanther:PTHR12977,hmmpanther:PTHR12977:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAAATAGTGC	.	5	BLCA
ARAP1	0	.	GRCh37	11	72412744	72412744	+	Missense_Mutation	SNP	T	T	C	rs376083808	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2252A>G	p.Tyr751Cys	p.Y751C	ENST00000393609	16/35	284	212	72	287	287	0	ARAP1,missense_variant,p.Tyr39Cys,ENST00000427971,;ARAP1,missense_variant,p.Tyr506Cys,ENST00000334211,;ARAP1,missense_variant,p.Tyr511Cys,ENST00000393605,;ARAP1,missense_variant,p.Tyr751Cys,ENST00000455638,;ARAP1,missense_variant,p.Tyr39Cys,ENST00000452383,;ARAP1,missense_variant,p.Tyr506Cys,ENST00000426523,;ARAP1,missense_variant,p.Tyr751Cys,ENST00000393609,;ARAP1,missense_variant,p.Tyr445Cys,ENST00000429686,;ARAP1,missense_variant,p.Tyr751Cys,ENST00000359373,;ARAP1-AS2,intron_variant,,ENST00000500163,;ARAP1,upstream_gene_variant,,ENST00000495878,;ARAP1,non_coding_transcript_exon_variant,,ENST00000465814,;ARAP1,upstream_gene_variant,,ENST00000546293,;	C	ENSG00000186635	ENST00000393609	Transcript	missense_variant	2455	2252	751	Y/C	tAc/tGc	rs376083808,COSM415744,COSM415743	.	.	-1	ARAP1	HGNC	16925	protein_coding	YES	CCDS41687.1	ENSP00000377233	ARAP1_HUMAN	F8WBT0_HUMAN,F5GWN4_HUMAN	UPI000053F81B	.	deleterious(0.01)	probably_damaging(0.981)	16/35	.	PROSITE_profiles:PS50003,hmmpanther:PTHR23180:SF195,hmmpanther:PTHR23180,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTGTAGAGG	byFrequency|byCluster	5	BLCA
CNTN5	0	.	GRCh37	11	99941209	99941209	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216C>A	p.Pro406Thr	p.P406T	ENST00000524871	11/25	35	18	16	55	55	0	CNTN5,missense_variant,p.Pro406Thr,ENST00000279463,;CNTN5,missense_variant,p.Pro406Thr,ENST00000524871,;CNTN5,missense_variant,p.Pro406Thr,ENST00000528682,;CNTN5,missense_variant,p.Pro406Thr,ENST00000527185,;CNTN5,missense_variant,p.Pro332Thr,ENST00000418526,;CNTN5,non_coding_transcript_exon_variant,,ENST00000527682,;CNTN5,non_coding_transcript_exon_variant,,ENST00000528727,;	A	ENSG00000149972	ENST00000524871	Transcript	missense_variant	1506	1216	406	P/T	Cct/Act	COSM415682,COSM1133372	.	.	1	CNTN5	HGNC	2175	protein_coding	YES	CCDS53696.1	ENSP00000435637	CNTN5_HUMAN	B4DGP0_HUMAN	UPI000006DAB0	.	tolerated(0.27)	benign(0.063)	11/25	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF51,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGCCCTCTC	.	5	BLCA
GLTP	0	.	GRCh37	12	110290277	110290277	+	3'UTR	SNP	C	C	T	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*83G>A	.	.	ENST00000318348	5/5	160	134	26	211	211	0	GLTP,3_prime_UTR_variant,,ENST00000544393,;GLTP,3_prime_UTR_variant,,ENST00000318348,;GLTP,downstream_gene_variant,,ENST00000540772,;GLTP,downstream_gene_variant,,ENST00000537066,;GLTP,downstream_gene_variant,,ENST00000536390,;	T	ENSG00000139433	ENST00000318348	Transcript	3_prime_UTR_variant	827	.	.	.	.	.	.	.	-1	GLTP	HGNC	24867	protein_coding	YES	CCDS9136.1	ENSP00000315263	GLTP_HUMAN	E7CEM8_HUMAN	UPI00001402D4	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTTCACCGA	.	2	BLCA
CAMKK2	0	.	GRCh37	12	121706440	121706440	+	Splice_Site	SNP	C	C	T	rs199704325	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.625+1G>A	.	p.X209_splice	ENST00000324774	.	327	248	78	362	362	0	CAMKK2,splice_donor_variant,,ENST00000412367,;CAMKK2,splice_donor_variant,,ENST00000324774,;CAMKK2,splice_donor_variant,,ENST00000347034,;CAMKK2,splice_donor_variant,,ENST00000404169,;CAMKK2,splice_donor_variant,,ENST00000538733,;CAMKK2,splice_donor_variant,,ENST00000392473,;CAMKK2,splice_donor_variant,,ENST00000402834,;CAMKK2,splice_donor_variant,,ENST00000337174,;CAMKK2,splice_donor_variant,,ENST00000392474,;CAMKK2,splice_donor_variant,,ENST00000446440,;CAMKK2,non_coding_transcript_exon_variant,,ENST00000539380,;CAMKK2,intron_variant,,ENST00000535524,;CAMKK2,splice_donor_variant,,ENST00000542540,;	T	ENSG00000110931	ENST00000324774	Transcript	splice_donor_variant	.	.	.	.	.	rs199704325,COSM415995,COSM1133384	.	.	-1	CAMKK2	HGNC	1470	protein_coding	YES	CCDS9216.1	ENSP00000312741	KKCC2_HUMAN	Q8IZW1_HUMAN,F5H4I7_HUMAN,F5H360_HUMAN	UPI000013D208	.	.	.	.	5/16	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCACGTGGA	.	5	BLCA
ANKRD33	0	.	GRCh37	12	52282069	52282069	+	Nonsense_Mutation	SNP	G	G	A	rs780843226	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99G>A	p.Trp33Ter	p.W33*	ENST00000301190	1/5	184	138	45	148	148	0	ANKRD33,stop_gained,p.Trp33Ter,ENST00000301190,;ANKRD33,5_prime_UTR_variant,,ENST00000340970,;ANKRD33,5_prime_UTR_variant,,ENST00000538991,;ANKRD33,non_coding_transcript_exon_variant,,ENST00000547119,;ANKRD33,upstream_gene_variant,,ENST00000549316,;ANKRD33,stop_gained,p.Trp33Ter,ENST00000549751,;ANKRD33,non_coding_transcript_exon_variant,,ENST00000548526,;ANKRD33,non_coding_transcript_exon_variant,,ENST00000548383,;ANKRD33,upstream_gene_variant,,ENST00000550652,;	A	ENSG00000167612	ENST00000301190	Transcript	stop_gained	326	99	33	W/*	tgG/tgA	rs780843226	.	.	1	ANKRD33	HGNC	13788	protein_coding	YES	CCDS8815.1	ENSP00000301190	ANR33_HUMAN	Q5K626_HUMAN,Q5K625_HUMAN,Q5K618_HUMAN,Q5K617_HUMAN	UPI00003668C0	.	.	.	1/5	.	hmmpanther:PTHR24137,hmmpanther:PTHR24137:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCTGGGCTGT	.	3	BLCA
LRP1	0	.	GRCh37	12	57600372	57600372	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11707G>A	p.Asp3903Asn	p.D3903N	ENST00000243077	76/89	87	51	36	104	104	0	LRP1,missense_variant,p.Asp3903Asn,ENST00000243077,;LRP1,downstream_gene_variant,,ENST00000555124,;LRP1,non_coding_transcript_exon_variant,,ENST00000556356,;LRP1,downstream_gene_variant,,ENST00000556247,;LRP1,downstream_gene_variant,,ENST00000451724,;	A	ENSG00000123384	ENST00000243077	Transcript	missense_variant	12173	11707	3903	D/N	Gat/Aat	COSM416135	.	.	1	LRP1	HGNC	6692	protein_coding	YES	CCDS8932.1	ENSP00000243077	LRP1_HUMAN	Q6LBN5_HUMAN,Q6LAF4_HUMAN	UPI00001B044F	.	.	possibly_damaging(0.84)	76/89	.	Gene3D:2.120.10.30,SMART_domains:SM00135,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTGATGCT	.	5	BLCA
SLC2A3	0	.	GRCh37	12	8083900	8083900	+	Silent	SNP	G	G	T	rs138143062	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451C>A	p.%3D	p.R151R	ENST00000075120	4/10	137	96	41	144	144	0	SLC2A3,synonymous_variant,p.%3D,ENST00000544291,;SLC2A3,synonymous_variant,p.%3D,ENST00000075120,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000486749,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000495813,;SLC2A3,downstream_gene_variant,,ENST00000476634,;SLC2A3,upstream_gene_variant,,ENST00000479059,;SLC2A3,downstream_gene_variant,,ENST00000544936,;SLC2A3,upstream_gene_variant,,ENST00000490763,;SLC2A3,downstream_gene_variant,,ENST00000541671,;	T	ENSG00000059804	ENST00000075120	Transcript	synonymous_variant	692	451	151	R	Cgg/Agg	rs138143062,COSM416058	.	.	-1	SLC2A3	HGNC	11007	protein_coding	YES	CCDS8586.1	ENSP00000075120	GTR3_HUMAN	.	UPI0000001C7D	.	.	.	4/10	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24063:SF322,hmmpanther:PTHR24063,PROSITE_patterns:PS00217,TIGRFAM_domain:TIGR00879,Pfam_domain:PF00083,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	T:0.0005	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCCGCAGGG	byCluster	5	BLCA
CCER1	0	.	GRCh37	12	91347836	91347836	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684C>T	p.%3D	p.A228A	ENST00000358859	1/1	263	164	98	353	353	0	CCER1,synonymous_variant,p.%3D,ENST00000358859,;CCER1,intron_variant,,ENST00000548187,;CCER1,upstream_gene_variant,,ENST00000549707,;	A	ENSG00000197651	ENST00000358859	Transcript	synonymous_variant	1118	684	228	A	gcC/gcT	COSM416472	.	.	-1	CCER1	HGNC	28373	protein_coding	YES	CCDS9036.1	ENSP00000351727	CCER1_HUMAN	.	UPI000006EE70	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTGGCTGG	.	5	BLCA
SACS	0	.	GRCh37	13	23909550	23909550	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8465A>G	p.Asn2822Ser	p.N2822S	ENST00000382298	10/10	180	157	23	157	156	1	SACS,missense_variant,p.Asn2822Ser,ENST00000382292,;SACS,missense_variant,p.Asn2072Ser,ENST00000402364,;SACS,missense_variant,p.Asn2822Ser,ENST00000382298,;SACS,intron_variant,,ENST00000455470,;SACS,intron_variant,,ENST00000423156,;	C	ENSG00000151835	ENST00000382298	Transcript	missense_variant	9054	8465	2822	N/S	aAt/aGt	COSM416411,COSM1133420	.	.	-1	SACS	HGNC	10519	protein_coding	YES	CCDS9300.2	ENSP00000371735	SACS_HUMAN	.	UPI000047039D	.	.	possibly_damaging(0.754)	10/10	.	hmmpanther:PTHR15600:SF26,hmmpanther:PTHR15600	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTATTACAA	.	4	BLCA
ATP8A2	0	.	GRCh37	13	26273338	26273338	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2239T>A	p.Cys747Ser	p.C747S	ENST00000381655	25/37	137	81	56	150	150	0	ATP8A2,missense_variant,p.Cys707Ser,ENST00000255283,;ATP8A2,missense_variant,p.Cys747Ser,ENST00000381655,;ATP8A2,non_coding_transcript_exon_variant,,ENST00000491840,;ATP8A2,missense_variant,p.Cys587Ser,ENST00000281620,;	A	ENSG00000132932	ENST00000381655	Transcript	missense_variant	2381	2239	747	C/S	Tgc/Agc	COSM416402	.	.	1	ATP8A2	HGNC	13533	protein_coding	YES	CCDS41873.1	ENSP00000371070	AT8A2_HUMAN	.	UPI0000229592	.	tolerated(0.09)	probably_damaging(0.991)	25/37	.	hmmpanther:PTHR24092:SF45,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Pfam_domain:PF12710	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCACTGCACT	.	5	BLCA
SLC7A1	0	.	GRCh37	13	30110084	30110084	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.242G>A	p.Gly81Asp	p.G81D	ENST00000380752	3/13	83	66	17	66	66	0	SLC7A1,missense_variant,p.Gly81Asp,ENST00000450494,;SLC7A1,missense_variant,p.Gly81Asp,ENST00000380752,;	T	ENSG00000139514	ENST00000380752	Transcript	missense_variant	629	242	81	G/D	gGc/gAc	COSM416395	.	.	-1	SLC7A1	HGNC	11057	protein_coding	YES	CCDS9333.1	ENSP00000370128	CTR1_HUMAN	Q5JR49_HUMAN	UPI0000128653	.	deleterious(0)	probably_damaging(1)	3/13	.	Transmembrane_helices:TMhelix,PIRSF_domain:PIRSF006060,TIGRFAM_domain:TIGR00906,Pfam_domain:PF13520,hmmpanther:PTHR11785,hmmpanther:PTHR11785:SF207	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGGCCAGCC	.	5	BLCA
HTR2A	0	.	GRCh37	13	47469988	47469988	+	Silent	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54A>G	p.%3D	p.L18L	ENST00000378688	1/3	115	97	18	110	110	0	HTR2A,synonymous_variant,p.%3D,ENST00000378688,;HTR2A,synonymous_variant,p.%3D,ENST00000542664,;HTR2A,intron_variant,,ENST00000543956,;	C	ENSG00000102468	ENST00000378688	Transcript	synonymous_variant	186	54	18	L	ctA/ctG	COSM416351	.	.	-1	HTR2A	HGNC	5293	protein_coding	YES	CCDS9405.1	ENSP00000367959	5HT2A_HUMAN	Q9P2Q9_HUMAN,B3VRC0_HUMAN,B3VRB5_HUMAN,B3VRB0_HUMAN	UPI000000126E	.	.	.	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24247:SF30,hmmpanther:PTHR24247	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCATTAGGGA	.	5	BLCA
RB1	0	.	GRCh37	13	48947629	48947629	+	Splice_Site	SNP	G	G	C	rs587776783	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215+1G>C	.	p.X405_splice	ENST00000267163	.	221	196	25	201	201	0	RB1,splice_donor_variant,,ENST00000267163,;	C	ENSG00000139687	ENST00000267163	Transcript	splice_donor_variant	.	.	.	.	.	CS890133,rs587776783,CS982341,COSM1029,COSM1015,COSM29786,COSM1152654,COSM1133426,COSM1133427	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	.	12/26	.	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,1,1,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.?|c.1215+1G>A|6,BUFFER|p.?|c.1215+1G>A|3,BUFFER|p.?|c.1215+1G>A|10	RADIA|MUTECT|MUSE|VARSCANS	TTAACGTAAGC	byCluster	4	BLCA
RB1	0	.	GRCh37	13	49027248	49027248	+	Splice_Site	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1814+1G>A	.	p.X605_splice	ENST00000267163	.	117	78	39	113	113	0	RB1,splice_donor_variant,,ENST00000267163,;RB1,splice_donor_variant,,ENST00000480491,;	A	ENSG00000139687	ENST00000267163	Transcript	splice_donor_variant	.	.	.	.	.	CS961682,CD952454,COSM1133428	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	.	18/26	.	.	.	.	.	.	.	.	.	.	.	0,0,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATGTAAGC	.	5	BLCA
UTP14C	0	.	GRCh37	13	52604079	52604079	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1139G>A	p.Ser380Asn	p.S380N	ENST00000521776	2/2	103	63	40	83	83	0	UTP14C,missense_variant,p.Ser380Asn,ENST00000521776,;ALG11,downstream_gene_variant,,ENST00000523764,;ALG11,downstream_gene_variant,,ENST00000521508,;ALG11,downstream_gene_variant,,ENST00000519151,;	A	ENSG00000253797	ENST00000521776	Transcript	missense_variant	1872	1139	380	S/N	aGt/aAt	COSM416339	.	.	1	UTP14C	HGNC	20321	protein_coding	YES	CCDS31978.1	ENSP00000428619	UT14C_HUMAN	.	UPI000006DB4B	.	tolerated(0.14)	benign(0.056)	2/2	.	Pfam_domain:PF04615,hmmpanther:PTHR14150:SF16,hmmpanther:PTHR14150	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCAGTGACA	.	5	BLCA
HNRNPA1L2	0	.	GRCh37	13	53211535	53211535	+	5'UTR	SNP	G	G	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-134G>A	.	.	ENST00000342657	6/7	43	24	18	37	37	0	HNRNPA1L2,5_prime_UTR_variant,,ENST00000398039,;HNRNPA1L2,5_prime_UTR_variant,,ENST00000342657,;MRPS31P4,non_coding_transcript_exon_variant,,ENST00000509685,;	A	ENSG00000139675	ENST00000342657	Transcript	5_prime_UTR_variant	940	.	.	.	.	.	.	.	1	HNRNPA1L2	HGNC	27067	protein_coding	YES	CCDS31980.1	ENSP00000341285	RA1L2_HUMAN	.	UPI00001618EB	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGGGGACA	.	5	BLCA
TDRD3	0	.	GRCh37	13	61041463	61041463	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>T	p.Val149Phe	p.V149F	ENST00000535286	5/14	190	116	73	173	173	0	TDRD3,missense_variant,p.Val56Phe,ENST00000377882,;TDRD3,missense_variant,p.Val56Phe,ENST00000377894,;TDRD3,missense_variant,p.Val56Phe,ENST00000196169,;TDRD3,missense_variant,p.Val56Phe,ENST00000377881,;TDRD3,missense_variant,p.Val149Phe,ENST00000535286,;TDRD3,missense_variant,p.Val56Phe,ENST00000484389,;	T	ENSG00000083544	ENST00000535286	Transcript	missense_variant	517	445	149	V/F	Gtt/Ttt	COSM416329	.	.	1	TDRD3	HGNC	20612	protein_coding	YES	CCDS53872.1	ENSP00000440190	TDRD3_HUMAN	B1AMN9_HUMAN	UPI000174200C	.	deleterious(0)	possibly_damaging(0.692)	5/14	.	hmmpanther:PTHR13681	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACAGTTCTT	.	5	BLCA
PCDH9	0	.	GRCh37	13	67799771	67799771	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2802C>T	p.%3D	p.D934D	ENST00000544246	2/5	209	187	21	210	210	0	PCDH9,synonymous_variant,p.%3D,ENST00000377861,;PCDH9,synonymous_variant,p.%3D,ENST00000328454,;PCDH9,synonymous_variant,p.%3D,ENST00000544246,;PCDH9,synonymous_variant,p.%3D,ENST00000377865,;PCDH9,synonymous_variant,p.%3D,ENST00000456367,;	A	ENSG00000184226	ENST00000544246	Transcript	synonymous_variant	3494	2802	934	D	gaC/gaT	COSM416327	.	.	-1	PCDH9	HGNC	8661	protein_coding	YES	CCDS9444.1	ENSP00000442186	PCDH9_HUMAN	.	UPI00001FCE90	.	.	.	2/5	.	hmmpanther:PTHR24027:SF25,hmmpanther:PTHR24027,Pfam_domain:PF08374	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCAGGTCAGG	.	4	BLCA
IGHG1	0	.	GRCh37	14	106207966	106207966	+	Silent	SNP	G	G	C	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837C>G	p.%3D	p.P279P	ENST00000390548	4/6	401	343	58	401	401	0	IGHG1,synonymous_variant,p.%3D,ENST00000390542,;IGHG1,synonymous_variant,p.%3D,ENST00000390549,;IGHG1,synonymous_variant,p.%3D,ENST00000390548,;	C	ENSG00000211896	ENST00000390548	Transcript	synonymous_variant	837	837	279	P	ccC/ccG	.	.	.	-1	IGHG1	HGNC	5525	IG_C_gene	YES	.	ENSP00000374990	.	.	UPI000173A69D	.	.	.	4/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00407,Pfam_domain:PF07654,Gene3D:2.60.40.10,hmmpanther:PTHR23266,hmmpanther:PTHR23266:SF72,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCACGGGAGG	.	4	BLCA
IGHV2-5	0	.	GRCh37	14	106494311	106494311	+	Missense_Mutation	SNP	G	G	T	rs576685477	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.181C>A	p.Pro61Thr	p.P61T	ENST00000390597	2/2	168	135	32	149	149	0	IGHV2-5,missense_variant,p.Pro61Thr,ENST00000390597,;IGHVIII-5-1,downstream_gene_variant,,ENST00000523059,;	T	ENSG00000211937	ENST00000390597	Transcript	missense_variant	201	181	61	P/T	Ccc/Acc	rs576685477	.	.	-1	IGHV2-5	HGNC	5576	IG_V_gene	YES	.	ENSP00000375006	.	.	UPI0000115FEF	.	deleterious(0.02)	benign(0.289)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23266,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGGGCTGAC	by1000G	5	BLCA
OR11H12	0	.	GRCh37	14	19377902	19377903	+	Frame_Shift_Ins	INS	-	-	A	rs747004702	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317dupA	p.Asn106LysfsTer31	p.N106Kfs*31	ENST00000550708	1/1	153	135	18	178	178	0	OR11H12,frameshift_variant,p.Asn106LysfsTer31,ENST00000550708,;	A	ENSG00000257115	ENST00000550708	Transcript	frameshift_variant	381-382	309-310	103-104	-/X	-/A	rs747004702	.	.	1	OR11H12	HGNC	30738	protein_coding	YES	CCDS32017.1	ENSP00000449002	O11HC_HUMAN	.	UPI00004EAFF2	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24242,hmmpanther:PTHR24242:SF201,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	8	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	TCAGAGAAAAA	.	2	BLCA
OR4N5	0	.	GRCh37	14	20612221	20612221	+	Silent	SNP	G	G	T	rs138565527	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>T	p.%3D	p.A109A	ENST00000333629	1/1	309	225	83	294	294	0	OR4N5,synonymous_variant,p.%3D,ENST00000333629,;RNA5SP381,downstream_gene_variant,,ENST00000516076,;	T	ENSG00000184394	ENST00000333629	Transcript	synonymous_variant	327	327	109	A	gcG/gcT	rs138565527,COSM416258	.	.	1	OR4N5	HGNC	15358	protein_coding	YES	CCDS32031.1	ENSP00000332110	OR4N5_HUMAN	.	UPI0000041C40	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF40,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0009	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGCGGGAGA	byCluster|by1000G	5	BLCA
SALL2	0	.	GRCh37	14	21992660	21992660	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1202A>G	p.Tyr401Cys	p.Y401C	ENST00000327430	2/2	140	111	28	154	154	0	SALL2,missense_variant,p.Tyr264Cys,ENST00000450879,;SALL2,missense_variant,p.Tyr401Cys,ENST00000327430,;SALL2,missense_variant,p.Tyr260Cys,ENST00000546363,;SALL2,intron_variant,,ENST00000538754,;SALL2,intron_variant,,ENST00000317492,;SALL2,downstream_gene_variant,,ENST00000537235,;SALL2,downstream_gene_variant,,ENST00000541965,;AE000658.22,downstream_gene_variant,,ENST00000535893,;	C	ENSG00000165821	ENST00000327430	Transcript	missense_variant	1497	1202	401	Y/C	tAt/tGt	COSM416244	.	.	-1	SALL2	HGNC	10526	protein_coding	YES	CCDS32045.1	ENSP00000333537	SALL2_HUMAN	F5H1G6_HUMAN	UPI00001AF54D	.	deleterious(0)	probably_damaging(0.999)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23233:SF15,hmmpanther:PTHR23233,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTATAGGGC	.	5	BLCA
TRAV17	0	.	GRCh37	14	22466322	22466322	+	Silent	SNP	G	G	T	rs763440912	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252G>T	p.%3D	p.T84T	ENST00000390445	2/2	91	62	28	86	86	0	TRAV17,synonymous_variant,p.%3D,ENST00000390445,;	T	ENSG00000211797	ENST00000390445	Transcript	synonymous_variant	399	252	84	T	acG/acT	rs763440912	.	.	1	TRAV17	HGNC	12113	TR_V_gene	YES	.	ENSP00000452087	.	.	UPI000011D121	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19433:SF66,hmmpanther:PTHR19433,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCACGCTTGA	byFrequency	5	BLCA
HECTD1	0	.	GRCh37	14	31637558	31637558	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1568G>T	p.Arg523Met	p.R523M	ENST00000399332	10/43	381	293	87	373	373	0	HECTD1,missense_variant,p.Arg523Met,ENST00000399332,;HECTD1,missense_variant,p.Arg523Met,ENST00000553700,;HECTD1,missense_variant,p.Arg523Met,ENST00000556224,;HECTD1,upstream_gene_variant,,ENST00000553957,;HECTD1,downstream_gene_variant,,ENST00000554471,;	A	ENSG00000092148	ENST00000399332	Transcript	missense_variant	2057	1568	523	R/M	aGg/aTg	COSM416717	.	.	-1	HECTD1	HGNC	20157	protein_coding	YES	CCDS41939.1	ENSP00000382269	HECD1_HUMAN	G3V4V5_HUMAN	UPI0000E8AC98	.	deleterious(0.01)	possibly_damaging(0.862)	10/43	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF75	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAACCTTTTC	.	5	BLCA
CLEC14A	0	.	GRCh37	14	38724033	38724033	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1195G>A	p.Val399Ile	p.V399I	ENST00000342213	1/1	65	51	14	56	56	0	CLEC14A,missense_variant,p.Val399Ile,ENST00000342213,;	T	ENSG00000176435	ENST00000342213	Transcript	missense_variant	1542	1195	399	V/I	Gtc/Atc	COSM416695	.	.	-1	CLEC14A	HGNC	19832	protein_coding	YES	CCDS9667.1	ENSP00000353013	CLC14_HUMAN	.	UPI000000CBD4	.	tolerated(0.12)	probably_damaging(0.997)	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24838:SF258,hmmpanther:PTHR24838	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGACCACGG	.	5	BLCA
ABCD4	0	.	GRCh37	14	74756769	74756769	+	Silent	SNP	T	T	A	rs372482451	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1380A>T	p.%3D	p.P460P	ENST00000356924	13/19	154	96	57	143	143	0	ABCD4,synonymous_variant,p.%3D,ENST00000298816,;ABCD4,synonymous_variant,p.%3D,ENST00000356924,;ABCD4,synonymous_variant,p.%3D,ENST00000556517,;ABCD4,downstream_gene_variant,,ENST00000557588,;ABCD4,downstream_gene_variant,,ENST00000556971,;ABCD4,upstream_gene_variant,,ENST00000555904,;AC005519.4,intron_variant,,ENST00000554532,;ABCD4,downstream_gene_variant,,ENST00000557554,;ABCD4,synonymous_variant,p.%3D,ENST00000481348,;ABCD4,3_prime_UTR_variant,,ENST00000553745,;ABCD4,3_prime_UTR_variant,,ENST00000553486,;ABCD4,3_prime_UTR_variant,,ENST00000481935,;ABCD4,non_coding_transcript_exon_variant,,ENST00000466822,;ABCD4,intron_variant,,ENST00000474270,;ABCD4,intron_variant,,ENST00000496015,;ABCD4,downstream_gene_variant,,ENST00000460308,;ABCD4,downstream_gene_variant,,ENST00000554453,;ABCD4,downstream_gene_variant,,ENST00000556119,;ABCD4,downstream_gene_variant,,ENST00000469672,;ABCD4,upstream_gene_variant,,ENST00000484380,;ABCD4,upstream_gene_variant,,ENST00000465085,;ABCD4,downstream_gene_variant,,ENST00000555617,;ABCD4,downstream_gene_variant,,ENST00000553998,;ABCD4,downstream_gene_variant,,ENST00000489678,;	A	ENSG00000119688	ENST00000356924	Transcript	synonymous_variant	1524	1380	460	P	ccA/ccT	rs372482451,COSM416608	.	.	-1	ABCD4	HGNC	68	protein_coding	YES	CCDS9828.1	ENSP00000349396	ABCD4_HUMAN	.	UPI000004C4C8	.	.	.	13/19	.	PROSITE_profiles:PS50893,hmmpanther:PTHR11384:SF25,hmmpanther:PTHR11384,Pfam_domain:PF00005,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTGTGGCAG	.	5	BLCA
LTBP2	0	.	GRCh37	14	74988700	74988700	+	Missense_Mutation	SNP	C	C	T	rs375251079	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2702G>A	p.Arg901His	p.R901H	ENST00000261978	17/36	61	56	5	44	44	0	LTBP2,missense_variant,p.Arg901His,ENST00000261978,;LTBP2,missense_variant,p.Arg901His,ENST00000556690,;LTBP2,downstream_gene_variant,,ENST00000556359,;LTBP2,missense_variant,p.Arg901His,ENST00000553939,;	T	ENSG00000119681	ENST00000261978	Transcript	missense_variant	3089	2702	901	R/H	cGc/cAc	rs375251079,COSM416605	.	.	-1	LTBP2	HGNC	6715	protein_coding	YES	CCDS9831.1	ENSP00000261978	LTBP2_HUMAN	G3V254_HUMAN	UPI000013D239	.	tolerated(0.45)	benign(0.026)	17/36	.	Superfamily_domains:SSF57184,SMART_domains:SM00179,SMART_domains:SM00181,Pfam_domain:PF07645,Gene3D:2.10.25.10,PROSITE_patterns:PS01187,hmmpanther:PTHR24034:SF40,hmmpanther:PTHR24034,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCAGCGCCCT	byFrequency|byCluster	3	BLCA
CERS3	0	.	GRCh37	15	101041925	101041925	+	Missense_Mutation	SNP	G	G	A	rs752363146	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130C>T	p.Pro44Ser	p.P44S	ENST00000284382	4/13	83	74	8	90	90	0	CERS3,missense_variant,p.Pro44Ser,ENST00000284382,;CERS3,missense_variant,p.Pro44Ser,ENST00000394113,;CERS3,missense_variant,p.Pro44Ser,ENST00000538112,;CERS3,missense_variant,p.Pro44Ser,ENST00000558884,;CERS3,downstream_gene_variant,,ENST00000559639,;CERS3,intron_variant,,ENST00000560944,;CERS3,non_coding_transcript_exon_variant,,ENST00000559023,;	A	ENSG00000154227	ENST00000284382	Transcript	missense_variant	554	130	44	P/S	Cca/Tca	rs752363146,COSM416543	.	.	-1	CERS3	HGNC	23752	protein_coding	YES	CCDS10384.1	ENSP00000284382	CERS3_HUMAN	H0YN05_HUMAN,H0YMG6_HUMAN	UPI00001975AB	.	deleterious(0)	probably_damaging(0.999)	4/13	.	Transmembrane_helices:TMhelix,PIRSF_domain:PIRSF005225,hmmpanther:PTHR12560,hmmpanther:PTHR12560:SF4	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	ATATGGAATTG	byFrequency	3	BLCA
SNRPN	0	.	GRCh37	15	25226945	25226945	+	3'Flank	SNP	C	C	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000400100	.	27	22	5	21	21	0	SNRPN,downstream_gene_variant,,ENST00000400100,;SNRPN,downstream_gene_variant,,ENST00000400098,;SNURF,downstream_gene_variant,,ENST00000338094,;SNRPN,downstream_gene_variant,,ENST00000400097,;SNRPN,downstream_gene_variant,,ENST00000554227,;SNRPN,downstream_gene_variant,,ENST00000390687,;SNRPN,downstream_gene_variant,,ENST00000579070,;SNRPN,downstream_gene_variant,,ENST00000444203,;SNRPN,downstream_gene_variant,,ENST00000577565,;SNRPN,downstream_gene_variant,,ENST00000346403,;SNHG14,upstream_gene_variant,,ENST00000459433,;SNORD64,upstream_gene_variant,,ENST00000386683,;SNHG14,non_coding_transcript_exon_variant,,ENST00000551631,;SNORD64,upstream_gene_variant,,ENST00000605533,;SNHG14,upstream_gene_variant,,ENST00000551361,;SNURF,3_prime_UTR_variant,,ENST00000551312,;SNHG14,non_coding_transcript_exon_variant,,ENST00000557108,;SNURF,intron_variant,,ENST00000557230,;SNURF,downstream_gene_variant,,ENST00000580062,;	A	ENSG00000128739	ENST00000400100	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	3216	1	SNRPN	HGNC	11164	protein_coding	YES	CCDS10017.1	ENSP00000382972	RSMN_HUMAN	Q9UKR4_HUMAN,Q6LBS1_HUMAN,J3QLE5_HUMAN,J3KRY3_HUMAN	UPI000002948A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGACCACTT	.	5	BLCA
HERC2	0	.	GRCh37	15	28421740	28421740	+	Missense_Mutation	SNP	C	C	A	rs557061893	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9520G>T	p.Val3174Leu	p.V3174L	ENST00000261609	63/93	266	194	71	290	290	0	HERC2,missense_variant,p.Val3174Leu,ENST00000261609,;HERC2,upstream_gene_variant,,ENST00000569772,;	A	ENSG00000128731	ENST00000261609	Transcript	missense_variant	9629	9520	3174	V/L	Gta/Tta	rs557061893,COSM416528	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	probably_damaging(0.998)	63/93	.	PROSITE_profiles:PS50012,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308,Gene3D:2.130.10.30,Pfam_domain:PF00415,Superfamily_domains:SSF50985	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATACCAAAC	by1000G	5	BLCA
HERC2	0	.	GRCh37	15	28421741	28421741	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9519G>T	p.Leu3173Phe	p.L3173F	ENST00000261609	63/93	268	196	71	289	289	0	HERC2,missense_variant,p.Leu3173Phe,ENST00000261609,;HERC2,upstream_gene_variant,,ENST00000569772,;	A	ENSG00000128731	ENST00000261609	Transcript	missense_variant	9628	9519	3173	L/F	ttG/ttT	COSM416526	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	benign(0.049)	63/93	.	PROSITE_profiles:PS50012,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308,Gene3D:2.130.10.30,Pfam_domain:PF00415,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATACCAAACC	.	5	BLCA
RP11-483E23.2	0	.	GRCh37	15	28599941	28599941	+	RNA	SNP	G	G	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.466C>T	.	.	ENST00000568624	4/9	117	92	25	159	159	0	RP11-483E23.2,non_coding_transcript_exon_variant,,ENST00000568624,;RP11-483E23.2,non_coding_transcript_exon_variant,,ENST00000424531,;RP11-483E23.2,non_coding_transcript_exon_variant,,ENST00000564897,;	A	ENSG00000237850	ENST00000568624	Transcript	non_coding_transcript_exon_variant	466	.	.	.	.	.	.	.	-1	RP11-483E23.2	Clone_based_vega_gene	.	processed_transcript	YES	.	.	.	.	.	.	.	.	4/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGCTGGC	.	5	BLCA
TMEM62	0	.	GRCh37	15	43427845	43427845	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.428A>G	p.His143Arg	p.H143R	ENST00000260403	3/14	39	34	4	76	76	0	TMEM62,missense_variant,p.His143Arg,ENST00000260403,;TMEM62,missense_variant,p.His13Arg,ENST00000565291,;TMEM62,missense_variant,p.His75Arg,ENST00000564494,;TMEM62,missense_variant,p.His13Arg,ENST00000564698,;EPB42,intron_variant,,ENST00000570199,;TMEM62,missense_variant,p.His13Arg,ENST00000569535,;TMEM62,splice_region_variant,,ENST00000567441,;TMEM62,splice_region_variant,,ENST00000569926,;TMEM62,splice_region_variant,,ENST00000568197,;TMEM62,splice_region_variant,,ENST00000568182,;TMEM62,non_coding_transcript_exon_variant,,ENST00000570109,;SPCS2P1,downstream_gene_variant,,ENST00000561636,;	G	ENSG00000137842	ENST00000260403	Transcript	missense_variant	707	428	143	H/R	cAt/cGt	COSM416929	.	.	1	TMEM62	HGNC	26269	protein_coding	YES	CCDS32210.1	ENSP00000260403	TMM62_HUMAN	H3BTT1_HUMAN,H3BPV2_HUMAN	UPI00004443FD	.	deleterious(0.02)	probably_damaging(1)	3/14	.	hmmpanther:PTHR14795,Gene3D:3.60.21.10,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAATCATGGTA	.	4	BLCA
VPS13C	0	.	GRCh37	15	62176469	62176469	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9342-1G>A	.	p.X3114_splice	ENST00000261517	.	73	58	15	96	96	0	VPS13C,splice_acceptor_variant,,ENST00000261517,;VPS13C,splice_acceptor_variant,,ENST00000395896,;VPS13C,splice_acceptor_variant,,ENST00000249837,;VPS13C,splice_acceptor_variant,,ENST00000395898,;VPS13C,upstream_gene_variant,,ENST00000558919,;	T	ENSG00000129003	ENST00000261517	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	VPS13C	HGNC	23594	protein_coding	YES	CCDS32257.1	ENSP00000261517	VP13C_HUMAN	B4E2S9_HUMAN,B3KW10_HUMAN	UPI000023B7D3	.	.	.	.	67/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAACTAAAT	.	5	BLCA
CHRNA3	0	.	GRCh37	15	78893669	78893669	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1315C>A	p.Pro439Thr	p.P439T	ENST00000326828	5/6	228	159	68	241	241	0	CHRNA3,missense_variant,p.Pro439Thr,ENST00000326828,;CHRNA3,missense_variant,p.Pro439Thr,ENST00000348639,;CHRNA3,upstream_gene_variant,,ENST00000559002,;CHRNA3,downstream_gene_variant,,ENST00000558903,;CHRNA3,missense_variant,p.Pro439Thr,ENST00000559658,;	T	ENSG00000080644	ENST00000326828	Transcript	missense_variant	1700	1315	439	P/T	Cca/Aca	COSM416798	.	.	-1	CHRNA3	HGNC	1957	protein_coding	YES	CCDS10305.1	ENSP00000315602	ACHA3_HUMAN	Q6EWN2_HUMAN,B4DP53_HUMAN	UPI000013D783	.	deleterious(0.02)	probably_damaging(1)	5/6	.	hmmpanther:PTHR18945:SF445,hmmpanther:PTHR18945,TIGRFAM_domain:TIGR00860,Pfam_domain:PF02932,Superfamily_domains:SSF90112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGGTGACA	.	5	BLCA
BNC1	0	.	GRCh37	15	83935803	83935803	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.220C>T	p.Pro74Ser	p.P74S	ENST00000345382	3/5	65	46	18	71	71	0	BNC1,missense_variant,p.Pro74Ser,ENST00000345382,;BNC1,missense_variant,p.Pro67Ser,ENST00000569704,;RP11-382A20.4,intron_variant,,ENST00000565495,;	A	ENSG00000169594	ENST00000345382	Transcript	missense_variant	306	220	74	P/S	Ccc/Tcc	COSM416786	.	.	-1	BNC1	HGNC	1081	protein_coding	YES	CCDS10324.1	ENSP00000307041	BNC1_HUMAN	.	UPI0000126796	.	tolerated(0.61)	probably_damaging(0.918)	3/5	.	hmmpanther:PTHR15021:SF1,hmmpanther:PTHR15021	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGGGGATCC	.	5	BLCA
FAM169B	0	.	GRCh37	15	99023900	99023900	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.113C>T	p.Ser38Phe	p.S38F	ENST00000558256	4/7	115	69	45	128	128	0	FAM169B,missense_variant,p.Ser38Phe,ENST00000332908,;FAM169B,missense_variant,p.Ser38Phe,ENST00000558256,;	A	ENSG00000185087	ENST00000558256	Transcript	missense_variant	363	113	38	S/F	tCt/tTt	COSM416752	.	.	-1	FAM169B	HGNC	26835	protein_coding	YES	CCDS45360.1	ENSP00000453554	F169B_HUMAN	.	UPI0000199E5A	.	deleterious(0)	probably_damaging(0.971)	4/7	.	hmmpanther:PTHR22442:SF4,hmmpanther:PTHR22442	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACAGAGTGA	.	5	BLCA
TTC23	0	.	GRCh37	15	99715294	99715294	+	Missense_Mutation	SNP	C	C	T	rs755761200	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.826G>A	p.Ala276Thr	p.A276T	ENST00000394132	10/14	92	62	29	102	102	0	TTC23,missense_variant,p.Ala12Thr,ENST00000434594,;TTC23,missense_variant,p.Ala276Thr,ENST00000394129,;TTC23,missense_variant,p.Ala276Thr,ENST00000262074,;TTC23,missense_variant,p.Ala276Thr,ENST00000558663,;TTC23,missense_variant,p.Ala276Thr,ENST00000394132,;TTC23,missense_variant,p.Ala276Thr,ENST00000558613,;TTC23,missense_variant,p.Ala276Thr,ENST00000394130,;TTC23,missense_variant,p.Ala276Thr,ENST00000394136,;TTC23,missense_variant,p.Ala276Thr,ENST00000394135,;TTC23,missense_variant,p.Ala276Thr,ENST00000459771,;TTC23,non_coding_transcript_exon_variant,,ENST00000494567,;	T	ENSG00000103852	ENST00000394132	Transcript	missense_variant	1644	826	276	A/T	Gcc/Acc	rs755761200,COSM416748	.	.	-1	TTC23	HGNC	25730	protein_coding	YES	CCDS10379.2	ENSP00000377690	TTC23_HUMAN	H0YNV8_HUMAN,H0YNH7_HUMAN,H0YN45_HUMAN,H0YMN1_HUMAN,H0YM10_HUMAN,H0YKN9_HUMAN,B3KMY5_HUMAN	UPI00004525C9	.	deleterious(0)	probably_damaging(0.981)	10/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14485:SF1,hmmpanther:PTHR14485,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGGCGACGA	byFrequency	5	BLCA
DNAH3	0	.	GRCh37	16	20966209	20966209	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10997T>C	p.Met3666Thr	p.M3666T	ENST00000261383	55/62	241	175	65	216	216	0	DNAH3,missense_variant,p.Met3666Thr,ENST00000261383,;DNAH3,3_prime_UTR_variant,,ENST00000415178,;	G	ENSG00000158486	ENST00000261383	Transcript	missense_variant	10997	10997	3666	M/T	aTg/aCg	COSM417123,COSM417124	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	tolerated(0.59)	benign(0.007)	55/62	.	Pfam_domain:PF03028,hmmpanther:PTHR10676:SF242,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCACATCACC	.	5	BLCA
DNAH3	0	.	GRCh37	16	21117941	21117941	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2154C>A	p.Asn718Lys	p.N718K	ENST00000261383	15/62	109	80	29	112	112	0	DNAH3,missense_variant,p.Asn718Lys,ENST00000261383,;DNAH3,missense_variant,p.Asn718Lys,ENST00000415178,;DNAH3,non_coding_transcript_exon_variant,,ENST00000396036,;	T	ENSG00000158486	ENST00000261383	Transcript	missense_variant	2154	2154	718	N/K	aaC/aaA	COSM417115,COSM417116	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	tolerated(0.06)	benign(0.027)	15/62	.	hmmpanther:PTHR10676:SF242,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTAGTGTTGGC	.	5	BLCA
IL21R	0	.	GRCh37	16	27460030	27460030	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1043A>T	p.Lys348Met	p.K348M	ENST00000337929	9/9	110	83	27	90	90	0	IL21R,missense_variant,p.Lys348Met,ENST00000395755,;IL21R,missense_variant,p.Lys348Met,ENST00000564089,;IL21R,missense_variant,p.Lys348Met,ENST00000395754,;IL21R,missense_variant,p.Lys348Met,ENST00000337929,;IL21R-AS1,non_coding_transcript_exon_variant,,ENST00000563191,;IL21R,downstream_gene_variant,,ENST00000564583,;IL21R,downstream_gene_variant,,ENST00000561953,;	T	ENSG00000103522	ENST00000337929	Transcript	missense_variant	1516	1043	348	K/M	aAg/aTg	COSM417082	.	.	1	IL21R	HGNC	6006	protein_coding	YES	CCDS10630.1	ENSP00000338010	IL21R_HUMAN	.	UPI0000043CF0	.	deleterious(0.02)	possibly_damaging(0.717)	9/9	.	hmmpanther:PTHR23037:SF25,hmmpanther:PTHR23037	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAAGCCCA	.	5	BLCA
ZNF629	0	.	GRCh37	16	30793590	30793590	+	Missense_Mutation	SNP	C	C	T	rs776274404	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2059G>A	p.Glu687Lys	p.E687K	ENST00000262525	3/3	41	24	16	35	35	0	ZNF629,missense_variant,p.Glu687Lys,ENST00000262525,;RP11-2C24.6,downstream_gene_variant,,ENST00000575562,;	T	ENSG00000102870	ENST00000262525	Transcript	missense_variant	2267	2059	687	E/K	Gaa/Aaa	rs776274404,COSM417043	.	.	-1	ZNF629	HGNC	29008	protein_coding	YES	CCDS45463.1	ENSP00000262525	ZN629_HUMAN	.	UPI00001C1FA5	.	deleterious(0.02)	probably_damaging(0.986)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF286,hmmpanther:PTHR24377,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCGTTGC	byFrequency	5	BLCA
ZNF423	0	.	GRCh37	16	49671865	49671865	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>A	p.Asp400Asn	p.D400N	ENST00000561648	4/8	94	56	38	88	88	0	ZNF423,missense_variant,p.Asp400Asn,ENST00000262383,;ZNF423,missense_variant,p.Asp340Asn,ENST00000563137,;ZNF423,missense_variant,p.Asp340Asn,ENST00000562520,;ZNF423,missense_variant,p.Asp400Asn,ENST00000561648,;ZNF423,missense_variant,p.Asp283Asn,ENST00000567169,;ZNF423,missense_variant,p.Asp283Asn,ENST00000535559,;ZNF423,missense_variant,p.Asp340Asn,ENST00000562871,;	T	ENSG00000102935	ENST00000561648	Transcript	missense_variant	1252	1198	400	D/N	Gac/Aac	COSM416989,COSM416990	.	.	-1	ZNF423	HGNC	16762	protein_coding	YES	CCDS32445.1	ENSP00000455426	ZN423_HUMAN	F5H7S1_HUMAN,B3KNG7_HUMAN	UPI0000353ABC	.	tolerated(0.37)	benign(0.001)	4/8	.	hmmpanther:PTHR24385:SF49,hmmpanther:PTHR24385	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGTCATCCC	.	5	BLCA
CDH8	0	.	GRCh37	16	61935121	61935121	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509G>T	p.Gly170Val	p.G170V	ENST00000577390	3/12	114	75	39	163	163	0	CDH8,missense_variant,p.Gly170Val,ENST00000584337,;CDH8,missense_variant,p.Gly170Val,ENST00000577390,;CDH8,missense_variant,p.Gly170Val,ENST00000577730,;CDH8,missense_variant,p.Gly170Val,ENST00000299345,;CDH8,missense_variant,p.Gly170Val,ENST00000583382,;CDH8,downstream_gene_variant,,ENST00000577228,;CDH8,missense_variant,p.Gly170Val,ENST00000585315,;CDH8,non_coding_transcript_exon_variant,,ENST00000584966,;	A	ENSG00000150394	ENST00000577390	Transcript	missense_variant	1464	509	170	G/V	gGa/gTa	COSM416949	.	.	-1	CDH8	HGNC	1767	protein_coding	YES	CCDS10802.1	ENSP00000462701	CADH8_HUMAN	J3KTG8_HUMAN,J3KT81_HUMAN	UPI0000126D9F	.	deleterious(0)	benign(0.34)	3/12	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF85,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGTCCATTA	.	5	BLCA
CDH8	0	.	GRCh37	16	61935122	61935122	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508G>T	p.Gly170Ter	p.G170*	ENST00000577390	3/12	114	75	39	164	164	0	CDH8,stop_gained,p.Gly170Ter,ENST00000584337,;CDH8,stop_gained,p.Gly170Ter,ENST00000577390,;CDH8,stop_gained,p.Gly170Ter,ENST00000577730,;CDH8,stop_gained,p.Gly170Ter,ENST00000299345,;CDH8,stop_gained,p.Gly170Ter,ENST00000583382,;CDH8,downstream_gene_variant,,ENST00000577228,;CDH8,stop_gained,p.Gly170Ter,ENST00000585315,;CDH8,non_coding_transcript_exon_variant,,ENST00000584966,;	A	ENSG00000150394	ENST00000577390	Transcript	stop_gained	1463	508	170	G/*	Gga/Tga	COSM416947	.	.	-1	CDH8	HGNC	1767	protein_coding	YES	CCDS10802.1	ENSP00000462701	CADH8_HUMAN	J3KTG8_HUMAN,J3KT81_HUMAN	UPI0000126D9F	.	.	.	3/12	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF85,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTCCATTAA	.	5	BLCA
FOXC2	0	.	GRCh37	16	86601425	86601425	+	Silent	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484C>T	p.%3D	p.L162L	ENST00000320354	1/1	80	51	29	108	108	0	FOXC2,synonymous_variant,p.%3D,ENST00000320354,;RP11-463O9.5,upstream_gene_variant,,ENST00000563280,;	T	ENSG00000176692	ENST00000320354	Transcript	synonymous_variant	569	484	162	L	Ctg/Ttg	COSM417236	.	.	1	FOXC2	HGNC	3801	protein_coding	YES	CCDS10958.1	ENSP00000326371	FOXC2_HUMAN	I6YRR3_HUMAN	UPI000012ADC6	.	.	.	1/1	.	Superfamily_domains:SSF46785,Pfam_domain:PF00250,hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF143,PROSITE_profiles:PS50039	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTCCTGCGG	.	5	BLCA
UBBP4	0	.	GRCh37	17	21731532	21731532	+	Missense_Mutation	SNP	G	G	A	rs769823297	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>A	p.Glu203Lys	p.E203K	ENST00000578713	2/2	63	48	15	54	54	0	UBBP4,missense_variant,p.Glu27Lys,ENST00000581775,;UBBP4,missense_variant,p.Glu203Lys,ENST00000578713,;UBBP4,3_prime_UTR_variant,,ENST00000583708,;UBBP4,3_prime_UTR_variant,,ENST00000584755,;UBBP4,downstream_gene_variant,,ENST00000584398,;UBBP4,downstream_gene_variant,,ENST00000581769,;	A	ENSG00000263563	ENST00000578713	Transcript	missense_variant	611	607	203	E/K	Gaa/Aaa	rs769823297	.	.	1	UBBP4	HGNC	12467	protein_coding	YES	.	ENSP00000464265	.	J3QSA3_HUMAN,J3QRK5_HUMAN,J3KSM4_HUMAN,A8CGI2_HUMAN	UPI000268AF41	.	tolerated(0.08)	possibly_damaging(0.855)	2/2	.	PROSITE_profiles:PS50053,hmmpanther:PTHR10666,PROSITE_patterns:PS00299,Gene3D:3.10.20.90,Pfam_domain:PF00240,SMART_domains:SM00213,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTGGAAGAT	.	5	BLCA
UNC45B	0	.	GRCh37	17	33479931	33479931	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401C>T	p.Thr134Ile	p.T134I	ENST00000268876	5/20	286	242	43	274	274	0	UNC45B,missense_variant,p.Thr134Ile,ENST00000378449,;UNC45B,missense_variant,p.Thr134Ile,ENST00000433649,;UNC45B,missense_variant,p.Thr134Ile,ENST00000268876,;UNC45B,missense_variant,p.Thr134Ile,ENST00000591048,;UNC45B,missense_variant,p.Thr134Ile,ENST00000394570,;	T	ENSG00000141161	ENST00000268876	Transcript	missense_variant	498	401	134	T/I	aCa/aTa	COSM417591	.	.	1	UNC45B	HGNC	14304	protein_coding	YES	CCDS11292.1	ENSP00000268876	UN45B_HUMAN	.	UPI0000074455	.	deleterious(0.05)	possibly_damaging(0.486)	5/20	.	hmmpanther:PTHR22904:SF299,hmmpanther:PTHR22904,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCACAGACT	.	4	BLCA
UNC45B	0	.	GRCh37	17	33496943	33496943	+	Missense_Mutation	SNP	T	T	G	rs775340790	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1540T>G	p.Cys514Gly	p.C514G	ENST00000268876	11/20	106	73	33	119	119	0	UNC45B,missense_variant,p.Cys514Gly,ENST00000433649,;UNC45B,missense_variant,p.Cys514Gly,ENST00000268876,;UNC45B,missense_variant,p.Cys514Gly,ENST00000394570,;UNC45B,intron_variant,,ENST00000378449,;UNC45B,intron_variant,,ENST00000591048,;RP11-799D4.3,upstream_gene_variant,,ENST00000585646,;	G	ENSG00000141161	ENST00000268876	Transcript	missense_variant	1637	1540	514	C/G	Tgt/Ggt	rs775340790,COSM417590	.	.	1	UNC45B	HGNC	14304	protein_coding	YES	CCDS11292.1	ENSP00000268876	UN45B_HUMAN	.	UPI0000074455	.	deleterious(0.01)	probably_damaging(0.993)	11/20	.	hmmpanther:PTHR22904:SF299,hmmpanther:PTHR22904,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACAGTGTCGC	byFrequency|byCluster	5	BLCA
KRT13	0	.	GRCh37	17	39659035	39659035	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927C>T	p.%3D	p.T309T	ENST00000246635	5/8	361	285	75	394	394	0	KRT13,synonymous_variant,p.%3D,ENST00000246635,;KRT13,synonymous_variant,p.%3D,ENST00000587544,;KRT13,synonymous_variant,p.%3D,ENST00000336861,;KRT13,downstream_gene_variant,,ENST00000590425,;KRT13,downstream_gene_variant,,ENST00000587435,;AC019349.5,downstream_gene_variant,,ENST00000411759,;KRT13,downstream_gene_variant,,ENST00000587118,;KRT13,upstream_gene_variant,,ENST00000475217,;KRT13,3_prime_UTR_variant,,ENST00000464634,;KRT13,non_coding_transcript_exon_variant,,ENST00000468313,;	A	ENSG00000171401	ENST00000246635	Transcript	synonymous_variant	974	927	309	T	acC/acT	COSM417533	.	.	-1	KRT13	HGNC	6415	protein_coding	YES	CCDS11396.1	ENSP00000246635	K1C13_HUMAN	K7ERE3_HUMAN,K7EMD9_HUMAN	UPI000013CBF6	.	.	.	5/8	.	hmmpanther:PTHR23239:SF121,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTTGGTAGA	.	5	BLCA
STAT5B	0	.	GRCh37	17	40370182	40370182	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1156G>A	p.Glu386Lys	p.E386K	ENST00000293328	9/19	45	27	17	49	49	0	STAT5B,missense_variant,p.Glu386Lys,ENST00000293328,;STAT5B,non_coding_transcript_exon_variant,,ENST00000468312,;STAT5B,upstream_gene_variant,,ENST00000481517,;STAT5B,upstream_gene_variant,,ENST00000468496,;	T	ENSG00000173757	ENST00000293328	Transcript	missense_variant	1325	1156	386	E/K	Gag/Aag	COSM417518	.	.	-1	STAT5B	HGNC	11367	protein_coding	YES	CCDS11423.1	ENSP00000293328	STA5B_HUMAN	C9J4I3_HUMAN	UPI000006F059	.	tolerated(0.09)	benign(0.006)	9/19	.	hmmpanther:PTHR11801:SF42,hmmpanther:PTHR11801,Pfam_domain:PF02864,Gene3D:2.60.40.630,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTCGTTCT	.	5	BLCA
ABCA8	0	.	GRCh37	17	66871845	66871845	+	Missense_Mutation	SNP	G	G	A	rs182925368	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4280C>T	p.Thr1427Met	p.T1427M	ENST00000269080	34/38	101	60	41	79	79	0	ABCA8,missense_variant,p.Thr1427Met,ENST00000269080,;ABCA8,missense_variant,p.Thr1467Met,ENST00000430352,;ABCA8,missense_variant,p.Thr1467Met,ENST00000586539,;ABCA8,downstream_gene_variant,,ENST00000588458,;ABCA8,downstream_gene_variant,,ENST00000591459,;ABCA8,downstream_gene_variant,,ENST00000586292,;	A	ENSG00000141338	ENST00000269080	Transcript	missense_variant	4418	4280	1427	T/M	aCg/aTg	rs182925368,COSM417382,COSM4068993	.	.	-1	ABCA8	HGNC	38	protein_coding	YES	CCDS11680.1	ENSP00000269080	ABCA8_HUMAN	K7ELK9_HUMAN	UPI000004C4B7	.	deleterious(0.04)	benign(0.302)	34/38	.	PROSITE_profiles:PS50893,hmmpanther:PTHR19229:SF115,hmmpanther:PTHR19229,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCCGTGTTT	byCluster|by1000G	5	BLCA
KCNJ2	0	.	GRCh37	17	68171213	68171213	+	Silent	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33C>T	p.%3D	p.I11I	ENST00000243457	2/2	111	73	38	86	86	0	KCNJ2,synonymous_variant,p.%3D,ENST00000535240,;KCNJ2,synonymous_variant,p.%3D,ENST00000243457,;	T	ENSG00000123700	ENST00000243457	Transcript	synonymous_variant	416	33	11	I	atC/atT	COSM417368	.	.	1	KCNJ2	HGNC	6263	protein_coding	YES	CCDS11688.1	ENSP00000243457	IRK2_HUMAN	.	UPI000004F21A	.	.	.	2/2	.	hmmpanther:PTHR11767:SF43,hmmpanther:PTHR11767,Pfam_domain:PF08466	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCGTCTC	.	5	BLCA
DNAH17	0	.	GRCh37	17	76497363	76497363	+	Silent	SNP	G	G	T	rs561670361	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5344C>A	p.%3D	p.R1782R	ENST00000389840	35/81	131	102	29	111	111	0	DNAH17,synonymous_variant,p.%3D,ENST00000585328,;DNAH17,synonymous_variant,p.%3D,ENST00000389840,;DNAH17-AS1,3_prime_UTR_variant,,ENST00000598378,;RP11-559N14.5,downstream_gene_variant,,ENST00000591373,;DNAH17,downstream_gene_variant,,ENST00000587177,;	T	ENSG00000187775	ENST00000389840	Transcript	synonymous_variant	5469	5344	1782	R	Cga/Aga	rs561670361,COSM417948	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	.	35/81	.	hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTCGCTTCT	by1000G	5	BLCA
RNF213	0	.	GRCh37	17	78293139	78293139	+	Intron	SNP	G	G	A	rs147895650	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3024+27G>A	.	.	ENST00000582970	.	170	134	36	147	147	0	RNF213,synonymous_variant,p.%3D,ENST00000319921,;RNF213,intron_variant,,ENST00000582970,;RNF213,intron_variant,,ENST00000456466,;RNF213,intron_variant,,ENST00000508628,;CTD-2047H16.2,downstream_gene_variant,,ENST00000576808,;RNF213,intron_variant,,ENST00000559070,;	A	ENSG00000173821	ENST00000582970	Transcript	intron_variant	.	.	.	.	.	rs147895650,COSM417938	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	.	.	17/67	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAACGGATTC	byCluster	5	BLCA
DTNA	0	.	GRCh37	18	32395882	32395882	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613A>T	p.Thr205Ser	p.T205S	ENST00000598334	8/20	171	156	15	221	221	0	DTNA,missense_variant,p.Thr205Ser,ENST00000399113,;DTNA,missense_variant,p.Thr205Ser,ENST00000348997,;DTNA,missense_variant,p.Thr205Ser,ENST00000598334,;DTNA,missense_variant,p.Thr205Ser,ENST00000315456,;DTNA,missense_variant,p.Thr205Ser,ENST00000598774,;DTNA,missense_variant,p.Thr205Ser,ENST00000597599,;DTNA,missense_variant,p.Thr205Ser,ENST00000444659,;DTNA,missense_variant,p.Thr205Ser,ENST00000399121,;DTNA,missense_variant,p.Thr205Ser,ENST00000269190,;DTNA,missense_variant,p.Thr205Ser,ENST00000269191,;DTNA,missense_variant,p.Thr205Ser,ENST00000598142,;DTNA,missense_variant,p.Thr205Ser,ENST00000554864,;DTNA,missense_variant,p.Thr205Ser,ENST00000595022,;DTNA,missense_variant,p.Thr205Ser,ENST00000283365,;DTNA,5_prime_UTR_variant,,ENST00000399097,;DTNA,intron_variant,,ENST00000596745,;DTNA,upstream_gene_variant,,ENST00000597674,;DTNA,upstream_gene_variant,,ENST00000590727,;DTNA,upstream_gene_variant,,ENST00000556414,;DTNA,upstream_gene_variant,,ENST00000591182,;DTNA,upstream_gene_variant,,ENST00000599844,;DTNA,upstream_gene_variant,,ENST00000269192,;DTNA,upstream_gene_variant,,ENST00000601125,;AC068506.1,downstream_gene_variant,,ENST00000408482,;DTNA,non_coding_transcript_exon_variant,,ENST00000592114,;DTNA,upstream_gene_variant,,ENST00000601895,;DTNA,upstream_gene_variant,,ENST00000601632,;DTNA,downstream_gene_variant,,ENST00000585446,;	T	ENSG00000134769	ENST00000598334	Transcript	missense_variant	939	613	205	T/S	Acg/Tcg	COSM1133526,COSM1133525,COSM417855,COSM1133524,COSM417854	.	.	1	DTNA	HGNC	3057	protein_coding	YES	CCDS59312.1	ENSP00000470152	.	M0QYX6_HUMAN,K7ERZ2_HUMAN,K7ERH7_HUMAN,K7ER73_HUMAN,K7ENJ7_HUMAN,K7EMN1_HUMAN,K7EJ84_HUMAN	UPI0001E92A2F	.	tolerated(0.36)	benign(0.03)	8/20	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF268,Gene3D:1.10.238.10,Pfam_domain:PF09069,PIRSF_domain:PIRSF038204,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAGTCACGTTA	.	3	BLCA
EPOR	0	.	GRCh37	19	11489402	11489402	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880G>C	p.Glu294Gln	p.E294Q	ENST00000222139	7/8	162	156	6	188	188	0	EPOR,missense_variant,p.Glu294Gln,ENST00000592375,;EPOR,missense_variant,p.Glu294Gln,ENST00000222139,;SWSAP1,downstream_gene_variant,,ENST00000312423,;CTD-2342J14.6,upstream_gene_variant,,ENST00000590399,;EPOR,3_prime_UTR_variant,,ENST00000586890,;EPOR,3_prime_UTR_variant,,ENST00000588859,;EPOR,3_prime_UTR_variant,,ENST00000591958,;EPOR,non_coding_transcript_exon_variant,,ENST00000588681,;EPOR,non_coding_transcript_exon_variant,,ENST00000590927,;EPOR,downstream_gene_variant,,ENST00000589402,;	G	ENSG00000187266	ENST00000222139	Transcript	missense_variant	985	880	294	E/Q	Gaa/Caa	COSM417759	.	.	-1	EPOR	HGNC	3416	protein_coding	YES	CCDS12260.1	ENSP00000222139	EPOR_HUMAN	I6R7G3_HUMAN	UPI000012A0AD	.	tolerated(0.17)	benign(0.111)	7/8	.	hmmpanther:PTHR23037:SF7,hmmpanther:PTHR23037,PIRSF_domain:PIRSF001959	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCCTTCAAACT	.	2	BLCA
NANOS3	0	.	GRCh37	19	13988556	13988556	+	Missense_Mutation	SNP	G	G	T	rs778371865	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.494G>T	p.Arg165Leu	p.R165L	ENST00000339133	1/2	11	4	7	20	20	0	NANOS3,missense_variant,p.Arg165Leu,ENST00000339133,;NANOS3,missense_variant,p.Arg146Leu,ENST00000397555,;C19orf57,downstream_gene_variant,,ENST00000454313,;C19orf57,downstream_gene_variant,,ENST00000586783,;C19orf57,downstream_gene_variant,,ENST00000591586,;C19orf57,downstream_gene_variant,,ENST00000588115,;C19orf57,downstream_gene_variant,,ENST00000346736,;MIR181D,downstream_gene_variant,,ENST00000384853,;MIR181C,downstream_gene_variant,,ENST00000384881,;NANOS3,non_coding_transcript_exon_variant,,ENST00000591161,;NANOS3,intron_variant,,ENST00000591727,;C19orf57,downstream_gene_variant,,ENST00000586500,;	T	ENSG00000187556	ENST00000339133	Transcript	missense_variant	496	494	165	R/L	cGc/cTc	rs778371865,COSM417741	.	.	1	NANOS3	HGNC	22048	protein_coding	YES	CCDS42511.1	ENSP00000341992	NANO3_HUMAN	.	UPI0000366D46	.	tolerated_low_confidence(0.07)	unknown(0)	1/2	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCACCGCCGAG	byFrequency	3	BLCA
LINGO3	0	.	GRCh37	19	2290293	2290293	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1483C>T	p.%3D	p.L495L	ENST00000585527	1/1	21	15	6	10	10	0	LINGO3,synonymous_variant,p.%3D,ENST00000404279,;LINGO3,synonymous_variant,p.%3D,ENST00000585527,;	A	ENSG00000220008	ENST00000585527	Transcript	synonymous_variant	1731	1483	495	L	Ctg/Ttg	COSM417655	.	.	-1	LINGO3	HGNC	21206	protein_coding	YES	CCDS45905.1	ENSP00000467753	LIGO3_HUMAN	.	UPI00000497E2	.	.	.	1/1	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24371:SF61,hmmpanther:PTHR24371,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCAGCGTGG	.	5	BLCA
TMPRSS9	0	.	GRCh37	19	2413950	2413950	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1405C>T	p.Pro469Ser	p.P469S	ENST00000332578	9/17	34	30	4	31	31	0	TMPRSS9,missense_variant,p.Pro469Ser,ENST00000332578,;TMPRSS9,non_coding_transcript_exon_variant,,ENST00000395264,;TMPRSS9,upstream_gene_variant,,ENST00000587863,;	T	ENSG00000178297	ENST00000332578	Transcript	missense_variant	1405	1405	469	P/S	Ccc/Tcc	COSM418357	.	.	1	TMPRSS9	HGNC	30079	protein_coding	YES	CCDS12088.1	ENSP00000330264	TMPS9_HUMAN	.	UPI00001B4EC6	.	tolerated(0.16)	benign(0.006)	9/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24256,hmmpanther:PTHR24256:SF108,PIRSF_domain:PIRSF037931	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCACCCCCACC	.	2	BLCA
LMNB2	0	.	GRCh37	19	2433947	2433947	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1359C>T	p.%3D	p.G453G	ENST00000325327	8/12	43	37	6	54	54	0	LMNB2,synonymous_variant,p.%3D,ENST00000582871,;LMNB2,synonymous_variant,p.%3D,ENST00000325327,;LMNB2,upstream_gene_variant,,ENST00000532465,;LMNB2,downstream_gene_variant,,ENST00000527409,;LMNB2,downstream_gene_variant,,ENST00000534495,;LMNB2,upstream_gene_variant,,ENST00000475819,;LMNB2,non_coding_transcript_exon_variant,,ENST00000490554,;	A	ENSG00000176619	ENST00000325327	Transcript	synonymous_variant	1422	1359	453	G	ggC/ggT	COSM418356	.	.	-1	LMNB2	HGNC	6638	protein_coding	YES	CCDS12090.2	ENSP00000327054	.	J9JID7_HUMAN	UPI000059D625	.	.	.	8/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23239:SF152,hmmpanther:PTHR23239,Gene3D:2.60.40.1260,Superfamily_domains:SSF74853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCGTGCCCAG	.	4	BLCA
LMNB2	0	.	GRCh37	19	2433965	2433965	+	Silent	SNP	G	G	A	rs767447519	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1341C>T	p.%3D	p.S447S	ENST00000325327	8/12	32	27	5	44	44	0	LMNB2,synonymous_variant,p.%3D,ENST00000582871,;LMNB2,synonymous_variant,p.%3D,ENST00000325327,;LMNB2,upstream_gene_variant,,ENST00000532465,;LMNB2,downstream_gene_variant,,ENST00000527409,;LMNB2,downstream_gene_variant,,ENST00000534495,;LMNB2,upstream_gene_variant,,ENST00000475819,;LMNB2,non_coding_transcript_exon_variant,,ENST00000490554,;	A	ENSG00000176619	ENST00000325327	Transcript	synonymous_variant	1404	1341	447	S	agC/agT	rs767447519,COSM418355	.	.	-1	LMNB2	HGNC	6638	protein_coding	YES	CCDS12090.2	ENSP00000327054	.	J9JID7_HUMAN	UPI000059D625	.	.	.	8/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23239:SF152,hmmpanther:PTHR23239,Gene3D:2.60.40.1260,Superfamily_domains:SSF74853	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGGCCGCTGCC	byFrequency	2	BLCA
CACTIN	0	.	GRCh37	19	3623701	3623701	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627C>T	p.%3D	p.T209T	ENST00000429344	2/10	27	24	3	27	27	0	CACTIN,synonymous_variant,p.%3D,ENST00000221899,;CACTIN,synonymous_variant,p.%3D,ENST00000248420,;CACTIN,synonymous_variant,p.%3D,ENST00000429344,;CACTIN,upstream_gene_variant,,ENST00000588749,;CACTIN,synonymous_variant,p.%3D,ENST00000585942,;CACTIN,upstream_gene_variant,,ENST00000587175,;CACTIN,upstream_gene_variant,,ENST00000589321,;	A	ENSG00000105298	ENST00000429344	Transcript	synonymous_variant	680	627	209	T	acC/acT	COSM418317,COSM418316	.	.	-1	CACTIN	HGNC	29938	protein_coding	YES	CCDS45920.1	ENSP00000415078	CATIN_HUMAN	K7EIU6_HUMAN	UPI00006C1962	.	.	.	2/10	.	hmmpanther:PTHR21737:SF6,hmmpanther:PTHR21737	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAAGGTGCC	.	2	BLCA
RYR1	0	.	GRCh37	19	38931454	38931454	+	Missense_Mutation	SNP	G	G	A	rs539201276	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115G>A	p.Glu39Lys	p.E39K	ENST00000359596	2/106	36	29	7	16	16	0	RYR1,missense_variant,p.Glu39Lys,ENST00000355481,;RYR1,missense_variant,p.Glu39Lys,ENST00000360985,;RYR1,missense_variant,p.Glu39Lys,ENST00000359596,;	A	ENSG00000196218	ENST00000359596	Transcript	missense_variant	115	115	39	E/K	Gag/Aag	rs539201276,COSM418288	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	possibly_damaging(0.844)	2/106	.	hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715,Gene3D:2.80.10.50,Pfam_domain:PF08709	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCCGAGGGC	by1000G	5	BLCA
ZNF845	0	.	GRCh37	19	53854662	53854662	+	Missense_Mutation	SNP	G	G	A	rs746322112	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.734G>A	p.Cys245Tyr	p.C245Y	ENST00000458035	4/4	74	45	29	93	93	0	ZNF845,missense_variant,p.Cys245Tyr,ENST00000595091,;ZNF845,missense_variant,p.Cys245Tyr,ENST00000458035,;ZNF845,downstream_gene_variant,,ENST00000601857,;	A	ENSG00000213799	ENST00000458035	Transcript	missense_variant	851	734	245	C/Y	tGt/tAt	rs746322112,COSM418070	.	.	1	ZNF845	HGNC	25112	protein_coding	YES	CCDS46170.1	ENSP00000388311	ZN845_HUMAN	M0R2N3_HUMAN,M0R0Z8_HUMAN	UPI0001662BAC	.	deleterious(0)	probably_damaging(1)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF22,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAATGTGATG	.	5	BLCA
PEG3	0	.	GRCh37	19	57325002	57325002	+	3'UTR	SNP	C	C	G	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*41G>C	.	.	ENST00000326441	10/10	25	19	6	35	35	0	PEG3,3_prime_UTR_variant,,ENST00000423103,;PEG3,3_prime_UTR_variant,,ENST00000598410,;PEG3,3_prime_UTR_variant,,ENST00000326441,;ZIM2,intron_variant,,ENST00000221722,;ZIM2,intron_variant,,ENST00000601070,;ZIM2,intron_variant,,ENST00000593711,;ZIM2,intron_variant,,ENST00000599935,;ZIM2,intron_variant,,ENST00000391708,;PEG3,downstream_gene_variant,,ENST00000600833,;PEG3,downstream_gene_variant,,ENST00000599577,;PEG3,downstream_gene_variant,,ENST00000599534,;PEG3,downstream_gene_variant,,ENST00000593695,;PEG3,upstream_gene_variant,,ENST00000599565,;ZIM2,intron_variant,,ENST00000597281,;ZIM2,intron_variant,,ENST00000595671,;	G	ENSG00000198300	ENST00000326441	Transcript	3_prime_UTR_variant	5172	.	.	.	.	.	.	.	-1	PEG3	HGNC	8826	protein_coding	YES	CCDS12948.1	ENSP00000326581	PEG3_HUMAN	M0QXG1_HUMAN	UPI000006D36D	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGTCAAGTC	.	2	BLCA
ZNF606	0	.	GRCh37	19	58491249	58491249	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.799G>A	p.Asp267Asn	p.D267N	ENST00000341164	7/7	318	178	140	223	223	0	ZNF606,missense_variant,p.Asp177Asn,ENST00000536132,;ZNF606,missense_variant,p.Asp267Asn,ENST00000551380,;ZNF606,missense_variant,p.Asp267Asn,ENST00000341164,;ZNF606,3_prime_UTR_variant,,ENST00000550599,;	T	ENSG00000166704	ENST00000341164	Transcript	missense_variant	1420	799	267	D/N	Gac/Aac	COSM418744,COSM418745	.	.	-1	ZNF606	HGNC	25879	protein_coding	YES	CCDS12968.1	ENSP00000343617	ZN606_HUMAN	Q9H7U2_HUMAN,F8W1C8_HUMAN,F5H208_HUMAN	UPI000013C35B	.	tolerated(0.34)	benign(0.002)	7/7	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF278	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTCATAAT	.	5	BLCA
MUC16	0	.	GRCh37	19	9067793	9067793	+	Missense_Mutation	SNP	C	C	G	rs769190663	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19653G>C	p.Lys6551Asn	p.K6551N	ENST00000397910	3/84	79	55	24	102	102	0	MUC16,missense_variant,p.Lys6551Asn,ENST00000397910,;	G	ENSG00000181143	ENST00000397910	Transcript	missense_variant	19857	19653	6551	K/N	aaG/aaC	rs769190663,COSM418685,COSM418686,COSM418684	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	3/84	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTCTTCAC	.	5	BLCA
S1PR1	0	.	GRCh37	1	101704696	101704696	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156C>A	p.Phe52Leu	p.F52L	ENST00000305352	2/2	174	117	56	138	138	0	S1PR1,missense_variant,p.Phe52Leu,ENST00000305352,;RP4-575N6.5,upstream_gene_variant,,ENST00000561748,;RP4-575N6.4,upstream_gene_variant,,ENST00000432195,;S1PR1,non_coding_transcript_exon_variant,,ENST00000475821,;S1PR1,non_coding_transcript_exon_variant,,ENST00000475289,;	A	ENSG00000170989	ENST00000305352	Transcript	missense_variant	531	156	52	F/L	ttC/ttA	COSM414216	.	.	1	S1PR1	HGNC	3165	protein_coding	YES	CCDS777.1	ENSP00000305416	S1PR1_HUMAN	Q7L853_HUMAN	UPI0000050421	.	tolerated(0.17)	benign(0.008)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF16,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTTCATTCT	.	5	BLCA
S1PR1	0	.	GRCh37	1	101704697	101704697	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157A>T	p.Ile53Phe	p.I53F	ENST00000305352	2/2	171	115	56	139	139	0	S1PR1,missense_variant,p.Ile53Phe,ENST00000305352,;RP4-575N6.5,upstream_gene_variant,,ENST00000561748,;RP4-575N6.4,upstream_gene_variant,,ENST00000432195,;S1PR1,non_coding_transcript_exon_variant,,ENST00000475821,;S1PR1,non_coding_transcript_exon_variant,,ENST00000475289,;	T	ENSG00000170989	ENST00000305352	Transcript	missense_variant	532	157	53	I/F	Att/Ttt	COSM414214	.	.	1	S1PR1	HGNC	3165	protein_coding	YES	CCDS777.1	ENSP00000305416	S1PR1_HUMAN	Q7L853_HUMAN	UPI0000050421	.	deleterious(0)	benign(0.197)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF16,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTCATTCTC	.	5	BLCA
GPR61	0	.	GRCh37	1	110085756	110085756	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>T	p.Asp38Tyr	p.D38Y	ENST00000527748	2/2	253	221	31	110	110	0	GPR61,missense_variant,p.Asp38Tyr,ENST00000527748,;RP5-1160K1.8,intron_variant,,ENST00000526411,;GPR61,upstream_gene_variant,,ENST00000526744,;GPR61,downstream_gene_variant,,ENST00000533959,;GPR61,missense_variant,p.Asp38Tyr,ENST00000404129,;GPR61,missense_variant,p.Asp38Tyr,ENST00000469383,;	T	ENSG00000156097	ENST00000527748	Transcript	missense_variant	795	112	38	D/Y	Gat/Tat	COSM414198	.	.	1	GPR61	HGNC	13300	protein_coding	YES	CCDS801.1	ENSP00000432456	GPR61_HUMAN	Q59GL3_HUMAN,G4XH66_HUMAN	UPI000003BCCB	.	deleterious(0)	benign(0.441)	2/2	.	hmmpanther:PTHR22752:SF5,hmmpanther:PTHR22752	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACGGGATGTT	.	4	BLCA
TNFRSF1B	0	.	GRCh37	1	12253005	12253005	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.637G>C	p.Ala213Pro	p.A213P	ENST00000376259	6/10	79	57	21	74	74	0	TNFRSF1B,missense_variant,p.Ala213Pro,ENST00000376259,;TNFRSF1B,downstream_gene_variant,,ENST00000536782,;MIR4632,downstream_gene_variant,,ENST00000584158,;TNFRSF1B,non_coding_transcript_exon_variant,,ENST00000492361,;TNFRSF1B,non_coding_transcript_exon_variant,,ENST00000489921,;	C	ENSG00000028137	ENST00000376259	Transcript	missense_variant	726	637	213	A/P	Gca/Cca	COSM414139	.	.	1	TNFRSF1B	HGNC	11917	protein_coding	YES	CCDS145.1	ENSP00000365435	TNR1B_HUMAN	Q9UIH2_HUMAN,Q9UIG9_HUMAN,Q6LBF2_HUMAN	UPI000002FAE1	.	tolerated(1)	benign(0.001)	6/10	.	hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF108	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V214A|c.641T>C|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGGGCAGTA	.	5	BLCA
CHRNB2	0	.	GRCh37	1	154548504	154548504	+	3'UTR	SNP	G	G	A	rs201216419	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*96G>A	.	.	ENST00000368476	6/6	47	34	13	43	43	0	CHRNB2,3_prime_UTR_variant,,ENST00000368476,;RP11-61L14.6,downstream_gene_variant,,ENST00000421866,;	A	ENSG00000160716	ENST00000368476	Transcript	3_prime_UTR_variant	1869	.	.	.	.	rs201216419	.	.	1	CHRNB2	HGNC	1962	protein_coding	YES	CCDS1070.1	ENSP00000357461	ACHB2_HUMAN	Q5SXY3_HUMAN	UPI000012526E	.	.	.	6/6	.	.	A:0.0006	A:0	A:0	.	A:0.003	A:0	A:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGGGCGCTG	byFrequency|byCluster|by1000G	5	BLCA
BGLAP	0	.	GRCh37	1	156212941	156212941	+	Nonsense_Mutation	SNP	C	C	A	rs753310941	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>A	p.Tyr97Ter	p.Y97*	ENST00000368272	4/4	214	163	50	228	228	0	BGLAP,stop_gained,p.Tyr97Ter,ENST00000368272,;PMF1-BGLAP,3_prime_UTR_variant,,ENST00000490491,;PMF1-BGLAP,3_prime_UTR_variant,,ENST00000368276,;PMF1-BGLAP,3_prime_UTR_variant,,ENST00000320139,;PAQR6,downstream_gene_variant,,ENST00000540423,;PMF1,downstream_gene_variant,,ENST00000567140,;PMF1,downstream_gene_variant,,ENST00000368273,;PMF1,downstream_gene_variant,,ENST00000565805,;PMF1,downstream_gene_variant,,ENST00000368277,;PMF1,downstream_gene_variant,,ENST00000368279,;PAQR6,downstream_gene_variant,,ENST00000368270,;PAQR6,downstream_gene_variant,,ENST00000335852,;PAQR6,downstream_gene_variant,,ENST00000340183,;PAQR6,downstream_gene_variant,,ENST00000292291,;PAQR6,downstream_gene_variant,,ENST00000356983,;PAQR6,downstream_gene_variant,,ENST00000491107,;PAQR6,downstream_gene_variant,,ENST00000480773,;PAQR6,downstream_gene_variant,,ENST00000492619,;PAQR6,downstream_gene_variant,,ENST00000468632,;PAQR6,downstream_gene_variant,,ENST00000475507,;PAQR6,downstream_gene_variant,,ENST00000470198,;BGLAP,non_coding_transcript_exon_variant,,ENST00000471413,;PMF1,downstream_gene_variant,,ENST00000497069,;	A	ENSG00000242252	ENST00000368272	Transcript	stop_gained	561	291	97	Y/*	taC/taA	rs753310941,COSM414440	.	.	1	BGLAP	HGNC	1043	protein_coding	YES	CCDS1134.1	ENSP00000357255	OSTCN_HUMAN	.	UPI0000130EDF	.	.	.	4/4	.	Prints_domain:PR00002,Superfamily_domains:SSF57630,SMART_domains:SM00069,Pfam_domain:PF00594,hmmpanther:PTHR14235,PROSITE_profiles:PS50998	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTACGGCCC	byFrequency	5	BLCA
SPTA1	0	.	GRCh37	1	158631163	158631163	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2501G>A	p.Arg834Lys	p.R834K	ENST00000368147	18/52	183	145	38	203	203	0	SPTA1,missense_variant,p.Arg834Lys,ENST00000368147,;	T	ENSG00000163554	ENST00000368147	Transcript	missense_variant	2682	2501	834	R/K	aGg/aAg	COSM414407	.	.	-1	SPTA1	HGNC	11272	protein_coding	YES	CCDS41423.1	ENSP00000357129	SPTA1_HUMAN	O60686_HUMAN	UPI0000458906	.	tolerated(1)	probably_damaging(0.997)	18/52	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF240,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TATGCCTATTC	.	3	BLCA
OR6K2	0	.	GRCh37	1	158670235	158670235	+	Nonsense_Mutation	SNP	C	C	A	rs781319145	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.208G>T	p.Glu70Ter	p.E70*	ENST00000359610	1/1	75	63	11	84	84	0	OR6K2,stop_gained,p.Glu70Ter,ENST00000359610,;OR6K1P,upstream_gene_variant,,ENST00000456766,;	A	ENSG00000196171	ENST00000359610	Transcript	stop_gained	252	208	70	E/*	Gag/Tag	rs781319145,COSM414404	.	.	-1	OR6K2	HGNC	15029	protein_coding	YES	CCDS30902.1	ENSP00000352626	OR6K2_HUMAN	.	UPI000004B208	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF55,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATCTCCAGGA	.	4	BLCA
OR6K2	0	.	GRCh37	1	158670236	158670236	+	Silent	SNP	C	C	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207G>C	p.%3D	p.L69L	ENST00000359610	1/1	77	64	12	87	87	0	OR6K2,synonymous_variant,p.%3D,ENST00000359610,;OR6K1P,upstream_gene_variant,,ENST00000456766,;	G	ENSG00000196171	ENST00000359610	Transcript	synonymous_variant	251	207	69	L	ctG/ctC	COSM414402	.	.	-1	OR6K2	HGNC	15029	protein_coding	YES	CCDS30902.1	ENSP00000352626	OR6K2_HUMAN	.	UPI000004B208	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF55,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTCCAGGAA	.	5	BLCA
OR6N1	0	.	GRCh37	1	158736303	158736303	+	Missense_Mutation	SNP	G	G	A	rs760433982	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170C>T	p.Thr57Ile	p.T57I	ENST00000335094	1/1	133	103	30	145	145	0	OR6N1,missense_variant,p.Thr57Ile,ENST00000335094,;	A	ENSG00000197403	ENST00000335094	Transcript	missense_variant	190	170	57	T/I	aCa/aTa	rs760433982,COSM414400	.	.	-1	OR6N1	HGNC	15034	protein_coding	YES	CCDS30905.1	ENSP00000335535	OR6N1_HUMAN	.	UPI000003FE15	.	deleterious(0.03)	benign(0.003)	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26453:SF123,hmmpanther:PTHR26453,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGTGTGTGA	.	5	BLCA
MR1	0	.	GRCh37	1	181018369	181018369	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249G>A	p.%3D	p.R83R	ENST00000367580	2/6	63	49	14	62	62	0	MR1,synonymous_variant,p.%3D,ENST00000367580,;MR1,synonymous_variant,p.%3D,ENST00000282990,;MR1,synonymous_variant,p.%3D,ENST00000434571,;MR1,synonymous_variant,p.%3D,ENST00000367579,;MR1,non_coding_transcript_exon_variant,,ENST00000438435,;MR1,non_coding_transcript_exon_variant,,ENST00000486453,;MR1,non_coding_transcript_exon_variant,,ENST00000367578,;	A	ENSG00000153029	ENST00000367580	Transcript	synonymous_variant	254	249	83	R	agG/agA	COSM414276	.	.	1	MR1	HGNC	4975	protein_coding	YES	CCDS1342.1	ENSP00000356552	HMR1_HUMAN	.	UPI0000072BD9	.	.	.	2/6	.	Prints_domain:PR01638,Superfamily_domains:SSF54452,Pfam_domain:PF00129,Gene3D:3.30.500.10,hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF141	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAGGTACAC	.	5	BLCA
ACTL8	0	.	GRCh37	1	18152501	18152501	+	Silent	SNP	C	C	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.588C>G	p.%3D	p.R196R	ENST00000375406	3/3	81	69	11	92	92	0	ACTL8,synonymous_variant,p.%3D,ENST00000375406,;	G	ENSG00000117148	ENST00000375406	Transcript	synonymous_variant	804	588	196	R	cgC/cgG	COSM414274	.	.	1	ACTL8	HGNC	24018	protein_coding	YES	CCDS183.1	ENSP00000364555	ACTL8_HUMAN	.	UPI000007008F	.	.	.	3/3	.	hmmpanther:PTHR11937:SF169,hmmpanther:PTHR11937,Gene3D:3.90.640.10,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACGCTGCCT	.	5	BLCA
CACNA1E	0	.	GRCh37	1	181725138	181725138	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4036C>T	p.Arg1346Trp	p.R1346W	ENST00000367573	29/48	64	52	12	72	72	0	CACNA1E,missense_variant,p.Arg1278Trp,ENST00000358338,;CACNA1E,missense_variant,p.Arg953Trp,ENST00000367567,;CACNA1E,missense_variant,p.Arg1297Trp,ENST00000357570,;CACNA1E,missense_variant,p.Arg1327Trp,ENST00000360108,;CACNA1E,missense_variant,p.Arg1327Trp,ENST00000526775,;CACNA1E,missense_variant,p.Arg1346Trp,ENST00000367573,;CACNA1E,missense_variant,p.Arg1346Trp,ENST00000367570,;	T	ENSG00000198216	ENST00000367573	Transcript	missense_variant	4036	4036	1346	R/W	Cgg/Tgg	COSM414273	.	.	1	CACNA1E	HGNC	1392	protein_coding	YES	CCDS55664.1	ENSP00000356545	CAC1E_HUMAN	Q9UN68_HUMAN,Q9NYZ6_HUMAN,Q9NY05_HUMAN,E9PIE8_HUMAN	UPI00004588C2	.	deleterious(0)	probably_damaging(0.978)	29/48	.	Pfam_domain:PF00520,hmmpanther:PTHR10037:SF57,hmmpanther:PTHR10037	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGCCGGGAA	.	5	BLCA
TROVE2	0	.	GRCh37	1	193038543	193038543	+	Missense_Mutation	SNP	G	G	A	rs374893141	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.359G>A	p.Arg120His	p.R120H	ENST00000367446	2/9	94	67	27	96	96	0	TROVE2,missense_variant,p.Arg120His,ENST00000367444,;TROVE2,missense_variant,p.Arg120His,ENST00000400968,;TROVE2,missense_variant,p.Arg61His,ENST00000512587,;TROVE2,missense_variant,p.Arg120His,ENST00000367441,;TROVE2,missense_variant,p.Arg120His,ENST00000367446,;TROVE2,missense_variant,p.Arg120His,ENST00000367443,;TROVE2,missense_variant,p.Arg120His,ENST00000367445,;TROVE2,5_prime_UTR_variant,,ENST00000416058,;TROVE2,intron_variant,,ENST00000415442,;TROVE2,intron_variant,,ENST00000432079,;TROVE2,downstream_gene_variant,,ENST00000506303,;TROVE2,intron_variant,,ENST00000460715,;	A	ENSG00000116747	ENST00000367446	Transcript	missense_variant	569	359	120	R/H	cGc/cAc	rs374893141,COSM414234	.	.	1	TROVE2	HGNC	11313	protein_coding	YES	CCDS1379.1	ENSP00000356416	RO60_HUMAN	G5E9R9_HUMAN,D6RDN1_HUMAN	UPI0000072E7F	.	deleterious(0.03)	probably_damaging(0.934)	2/9	.	PROSITE_profiles:PS50988,hmmpanther:PTHR14202:SF0,hmmpanther:PTHR14202,Pfam_domain:PF05731,Superfamily_domains:0051422	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTCGCATTC	byFrequency|byCluster	5	BLCA
CFH	0	.	GRCh37	1	196658607	196658607	+	Missense_Mutation	SNP	G	G	A	rs371192606	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1022G>A	p.Arg341His	p.R341H	ENST00000367429	8/22	112	91	21	122	122	0	CFH,missense_variant,p.Arg277His,ENST00000359637,;CFH,missense_variant,p.Arg341His,ENST00000367429,;CFH,missense_variant,p.Arg341His,ENST00000439155,;CFH,non_coding_transcript_exon_variant,,ENST00000466229,;	A	ENSG00000000971	ENST00000367429	Transcript	missense_variant	1262	1022	341	R/H	cGt/cAt	rs371192606,CM104000,COSM209294	.	.	1	CFH	HGNC	4883	protein_coding	YES	CCDS1385.1	ENSP00000356399	CFAH_HUMAN	.	UPI000013C4D1	.	tolerated(0.21)	benign(0.008)	8/22	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF310,Pfam_domain:PF00084,SMART_domains:SM00032	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATGCGTAGAC	byFrequency|byCluster	5	BLCA
MFSD4	0	.	GRCh37	1	205538365	205538365	+	Silent	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168C>T	p.%3D	p.V56V	ENST00000367147	1/10	23	16	7	11	11	0	MFSD4,synonymous_variant,p.%3D,ENST00000536357,;MFSD4,synonymous_variant,p.%3D,ENST00000539267,;MFSD4,synonymous_variant,p.%3D,ENST00000367147,;RNU2-19P,downstream_gene_variant,,ENST00000517288,;MFSD4,non_coding_transcript_exon_variant,,ENST00000489709,;MFSD4,non_coding_transcript_exon_variant,,ENST00000475956,;	T	ENSG00000174514	ENST00000367147	Transcript	synonymous_variant	261	168	56	V	gtC/gtT	COSM414675	.	.	1	MFSD4	HGNC	25433	protein_coding	YES	CCDS1455.1	ENSP00000356115	MFSD4_HUMAN	.	UPI000019855C	.	.	.	1/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR23121:SF10,hmmpanther:PTHR23121,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGGGTCTTCTT	.	4	BLCA
RIMS3	0	.	GRCh37	1	41101634	41101634	+	Missense_Mutation	SNP	G	G	A	rs746393197	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313C>T	p.Arg105Trp	p.R105W	ENST00000372684	4/8	103	95	7	121	121	0	RIMS3,missense_variant,p.Arg105Trp,ENST00000372683,;RIMS3,missense_variant,p.Arg105Trp,ENST00000372684,;	A	ENSG00000117016	ENST00000372684	Transcript	missense_variant	783	313	105	R/W	Cgg/Tgg	rs746393197,COSM414917	.	.	-1	RIMS3	HGNC	21292	protein_coding	YES	CCDS30687.1	ENSP00000361769	RIMS3_HUMAN	.	UPI000006E06A	.	deleterious_low_confidence(0)	probably_damaging(0.993)	4/8	.	hmmpanther:PTHR12157	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCCGGCTGC	byFrequency	2	BLCA
ELAVL4	0	.	GRCh37	1	50666658	50666658	+	Silent	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.960T>C	p.%3D	p.F320F	ENST00000357083	7/7	164	130	34	183	183	0	ELAVL4,synonymous_variant,p.%3D,ENST00000371824,;ELAVL4,synonymous_variant,p.%3D,ENST00000448907,;ELAVL4,synonymous_variant,p.%3D,ENST00000371821,;ELAVL4,synonymous_variant,p.%3D,ENST00000371819,;ELAVL4,synonymous_variant,p.%3D,ENST00000357083,;ELAVL4,synonymous_variant,p.%3D,ENST00000371827,;ELAVL4,synonymous_variant,p.%3D,ENST00000371823,;ELAVL4,downstream_gene_variant,,ENST00000474675,;	C	ENSG00000162374	ENST00000357083	Transcript	synonymous_variant	1002	960	320	F	ttT/ttC	COSM414872,COSM414871	.	.	1	ELAVL4	HGNC	3315	protein_coding	YES	CCDS44139.1	ENSP00000349594	ELAV4_HUMAN	B7Z5E0_HUMAN	UPI000006F633	.	.	.	7/7	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011,hmmpanther:PTHR24011:SF243,TIGRFAM_domain:TIGR01661,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTTGGCCC	.	5	BLCA
BSND	0	.	GRCh37	1	55464829	55464829	+	5'UTR	SNP	G	G	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000371265	1/4	126	94	32	122	122	0	BSND,5_prime_UTR_variant,,ENST00000371265,;	A	ENSG00000162399	ENST00000371265	Transcript	5_prime_UTR_variant	224	.	.	.	.	.	.	.	1	BSND	HGNC	16512	protein_coding	YES	CCDS602.1	ENSP00000360312	BSND_HUMAN	Q5VU50_HUMAN	UPI000006DC8D	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGGGGGTGTG	.	2	BLCA
LHX8	0	.	GRCh37	1	75622760	75622760	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993T>A	p.Asp331Glu	p.D331E	ENST00000294638	9/10	121	61	60	83	83	0	LHX8,missense_variant,p.Asp321Glu,ENST00000356261,;LHX8,missense_variant,p.Asp331Glu,ENST00000294638,;LHX8,upstream_gene_variant,,ENST00000607240,;	A	ENSG00000162624	ENST00000294638	Transcript	missense_variant	1657	993	331	D/E	gaT/gaA	COSM414794	.	.	1	LHX8	HGNC	28838	protein_coding	YES	CCDS30756.1	ENSP00000294638	LHX8_HUMAN	Q9BYB7_HUMAN,Q6SV70_HUMAN	UPI00001972E8	.	tolerated(0.53)	benign(0.028)	9/10	.	hmmpanther:PTHR24208,hmmpanther:PTHR24208:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGATGGTAG	.	5	BLCA
HFM1	0	.	GRCh37	1	91739336	91739336	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3705G>T	p.Met1235Ile	p.M1235I	ENST00000370425	34/39	198	183	15	116	116	0	HFM1,missense_variant,p.Met914Ile,ENST00000370424,;HFM1,missense_variant,p.Met447Ile,ENST00000430465,;HFM1,missense_variant,p.Met1235Ile,ENST00000370425,;HFM1,missense_variant,p.Met467Ile,ENST00000294696,;HFM1,non_coding_transcript_exon_variant,,ENST00000462405,;	A	ENSG00000162669	ENST00000370425	Transcript	missense_variant	3804	3705	1235	M/I	atG/atT	COSM414740,COSM1660033	.	.	-1	HFM1	HGNC	20193	protein_coding	YES	CCDS30769.2	ENSP00000359454	HFM1_HUMAN	D2KTB2_HUMAN,C9JQP7_HUMAN,B7ZM00_HUMAN,A6NGI5_HUMAN	UPI0000F51F79	.	tolerated_low_confidence(0.2)	benign(0.021)	34/39	.	hmmpanther:PTHR11752,hmmpanther:PTHR11752:SF47	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTCCATTAT	.	2	BLCA
LPPR4	0	.	GRCh37	1	99772549	99772549	+	Silent	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2275C>A	p.%3D	p.R759R	ENST00000370185	7/7	211	121	89	174	174	0	LPPR4,synonymous_variant,p.%3D,ENST00000370185,;LPPR4,synonymous_variant,p.%3D,ENST00000457765,;LPPR4,synonymous_variant,p.%3D,ENST00000370184,;	A	ENSG00000117600	ENST00000370185	Transcript	synonymous_variant	2772	2275	759	R	Cgg/Agg	COSM415205	.	.	1	LPPR4	Uniprot_gn	.	protein_coding	YES	CCDS757.1	ENSP00000359204	LPPR4_HUMAN	.	UPI0000161229	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACACGGGCT	.	5	BLCA
DHX35	0	.	GRCh37	20	37662873	37662873	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1980G>T	p.Gln660His	p.Q660H	ENST00000252011	21/22	110	86	24	88	88	0	DHX35,missense_variant,p.Gln660His,ENST00000252011,;DHX35,missense_variant,p.Gln636His,ENST00000373325,;DHX35,missense_variant,p.Gln629His,ENST00000373323,;DHX35,missense_variant,p.Gln124His,ENST00000449559,;DHX35,3_prime_UTR_variant,,ENST00000484417,;DHX35,non_coding_transcript_exon_variant,,ENST00000482619,;DHX35,non_coding_transcript_exon_variant,,ENST00000493450,;	T	ENSG00000101452	ENST00000252011	Transcript	missense_variant	2013	1980	660	Q/H	caG/caT	COSM419405	.	.	1	DHX35	HGNC	15861	protein_coding	YES	CCDS13310.1	ENSP00000252011	DHX35_HUMAN	.	UPI0000129088	.	tolerated(0.31)	benign(0.073)	21/22	.	hmmpanther:PTHR18934,Pfam_domain:PF07717	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATACAGACCTC	.	5	BLCA
PANK2	0	.	GRCh37	20	3869842	3869842	+	Missense_Mutation	SNP	C	C	A	rs530609127	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.95C>A	p.Thr32Asn	p.T32N	ENST00000316562	1/7	29	26	3	34	34	0	PANK2,missense_variant,p.Thr32Asn,ENST00000316562,;PANK2,intron_variant,,ENST00000497424,;PANK2,intron_variant,,ENST00000495692,;PANK2,upstream_gene_variant,,ENST00000610179,;RP11-119B16.2,upstream_gene_variant,,ENST00000451507,;PANK2,upstream_gene_variant,,ENST00000471830,;PANK2,upstream_gene_variant,,ENST00000336066,;	A	ENSG00000125779	ENST00000316562	Transcript	missense_variant	101	95	32	T/N	aCc/aAc	rs530609127,COSM419404	.	.	1	PANK2	HGNC	15894	protein_coding	YES	CCDS13071.2	ENSP00000313377	PANK2_HUMAN	Q52M85_HUMAN,D3DVZ1_HUMAN,A4FU43_HUMAN	UPI000036701A	.	tolerated_low_confidence(0.19)	benign(0)	1/7	.	.	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CGGAACCCGGA	byFrequency|by1000G	2	BLCA
ELMO2	0	.	GRCh37	20	45022241	45022241	+	Splice_Site	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120-1G>A	.	p.X40_splice	ENST00000290246	.	301	202	99	295	295	0	ELMO2,splice_acceptor_variant,,ENST00000445496,;ELMO2,splice_acceptor_variant,,ENST00000439931,;ELMO2,splice_acceptor_variant,,ENST00000372176,;ELMO2,splice_acceptor_variant,,ENST00000290246,;ELMO2,splice_acceptor_variant,,ENST00000396391,;ELMO2,splice_acceptor_variant,,ENST00000352077,;ELMO2,splice_acceptor_variant,,ENST00000450812,;ELMO2,splice_acceptor_variant,,ENST00000488853,;ELMO2,splice_acceptor_variant,,ENST00000487583,;ELMO2,splice_acceptor_variant,,ENST00000462593,;ELMO2,splice_acceptor_variant,,ENST00000469801,;ELMO2,intron_variant,,ENST00000460474,;ELMO2,intron_variant,,ENST00000497412,;	T	ENSG00000062598	ENST00000290246	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM419362,COSM3963622	.	.	-1	ELMO2	HGNC	17233	protein_coding	YES	CCDS13398.1	ENSP00000290246	ELMO2_HUMAN	Q7Z5G9_HUMAN,Q5JVZ4_HUMAN,Q5BLP5_HUMAN,F5GZP8_HUMAN	UPI000013F6C4	.	.	.	.	4/21	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCACCTATGC	.	5	BLCA
ZNF831	0	.	GRCh37	20	57768011	57768011	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1937G>A	p.Arg646Lys	p.R646K	ENST00000371030	1/5	187	138	49	162	162	0	ZNF831,missense_variant,p.Arg646Lys,ENST00000371030,;	A	ENSG00000124203	ENST00000371030	Transcript	missense_variant	1937	1937	646	R/K	aGg/aAg	COSM419323	.	.	1	ZNF831	HGNC	16167	protein_coding	YES	CCDS42894.1	ENSP00000360069	ZN831_HUMAN	.	UPI00001D82E4	.	tolerated(0.32)	benign(0.007)	1/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF52	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCAGGGAGG	.	5	BLCA
GID8	0	.	GRCh37	20	61572869	61572869	+	Silent	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15A>G	p.%3D	p.E5E	ENST00000266069	2/5	71	55	15	58	58	0	GID8,synonymous_variant,p.%3D,ENST00000266069,;DIDO1,upstream_gene_variant,,ENST00000266070,;DIDO1,upstream_gene_variant,,ENST00000266071,;DIDO1,upstream_gene_variant,,ENST00000395335,;DIDO1,upstream_gene_variant,,ENST00000370371,;GID8,downstream_gene_variant,,ENST00000497101,;	G	ENSG00000101193	ENST00000266069	Transcript	synonymous_variant	162	15	5	E	gaA/gaG	COSM419306	.	.	1	GID8	HGNC	15857	protein_coding	YES	CCDS13510.1	ENSP00000266069	GID8_HUMAN	.	UPI0000034E17	.	.	.	2/5	.	hmmpanther:PTHR12864	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGAAAAACC	.	5	BLCA
BAGE2	0	.	GRCh37	21	11029673	11029673	+	RNA	SNP	G	G	T	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1521C>A	.	.	ENST00000470054	7/10	314	302	12	276	276	0	TPTE,non_coding_transcript_exon_variant,,ENST00000415664,;BAGE2,non_coding_transcript_exon_variant,,ENST00000470054,;BAGE2,non_coding_transcript_exon_variant,,ENST00000496773,;	T	ENSG00000187172	ENST00000470054	Transcript	non_coding_transcript_exon_variant	1521	.	.	.	.	.	.	.	-1	BAGE2	HGNC	15723	processed_transcript	YES	.	.	.	.	.	.	.	.	7/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGGGGACCA	.	2	BLCA
USP25	0	.	GRCh37	21	17203740	17203740	+	Silent	SNP	C	C	T	rs145101158	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1785C>T	p.%3D	p.A595A	ENST00000285679	16/24	161	137	23	182	182	0	USP25,synonymous_variant,p.%3D,ENST00000400183,;USP25,synonymous_variant,p.%3D,ENST00000453553,;USP25,synonymous_variant,p.%3D,ENST00000285679,;USP25,synonymous_variant,p.%3D,ENST00000285681,;USP25,intron_variant,,ENST00000351097,;	T	ENSG00000155313	ENST00000285679	Transcript	synonymous_variant	2154	1785	595	A	gcC/gcT	rs145101158,COSM419283	.	.	1	USP25	HGNC	12624	protein_coding	YES	CCDS33515.1	ENSP00000285679	UBP25_HUMAN	Q9HA22_HUMAN	UPI000002B680	.	.	.	16/24	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF111,hmmpanther:PTHR24006,PROSITE_patterns:PS00973,Pfam_domain:PF00443,Superfamily_domains:SSF54001	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATGCCGTTTT	byCluster|by1000G	4	BLCA
TRAPPC10	0	.	GRCh37	21	45504129	45504129	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2365G>A	p.Val789Met	p.V789M	ENST00000291574	15/23	41	37	4	49	49	0	TRAPPC10,missense_variant,p.Val789Met,ENST00000291574,;TRAPPC10,3_prime_UTR_variant,,ENST00000422875,;TRAPPC10,downstream_gene_variant,,ENST00000461889,;TRAPPC10,downstream_gene_variant,,ENST00000481460,;TRAPPC10,upstream_gene_variant,,ENST00000459741,;	A	ENSG00000160218	ENST00000291574	Transcript	missense_variant	2540	2365	789	V/M	Gtg/Atg	COSM419210	.	.	1	TRAPPC10	HGNC	11868	protein_coding	YES	CCDS13704.1	ENSP00000291574	TPC10_HUMAN	Q76NH5_HUMAN	UPI0000129E26	.	tolerated(0.12)	possibly_damaging(0.873)	15/23	.	hmmpanther:PTHR13251	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCACGTGGAG	.	3	BLCA
COL18A1	0	.	GRCh37	21	46910215	46910215	+	Silent	SNP	C	C	T	rs754862849	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2526C>T	p.%3D	p.P842P	ENST00000355480	19/41	18	12	6	12	12	0	COL18A1,synonymous_variant,p.%3D,ENST00000359759,;COL18A1,synonymous_variant,p.%3D,ENST00000355480,;COL18A1,synonymous_variant,p.%3D,ENST00000342220,;COL18A1,synonymous_variant,p.%3D,ENST00000400337,;SLC19A1,downstream_gene_variant,,ENST00000417954,;COL18A1,upstream_gene_variant,,ENST00000459895,;	T	ENSG00000182871	ENST00000355480	Transcript	synonymous_variant	2568	2526	842	P	ccC/ccT	rs754862849,COSM419670	.	.	1	COL18A1	HGNC	2195	protein_coding	YES	CCDS42972.1	ENSP00000347665	COIA1_HUMAN	D3DSM5_HUMAN	UPI000016A19D	.	.	.	19/41	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF390,Pfam_domain:PF01391,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCCCGGGTT	byFrequency	5	BLCA
DDTL	0	.	GRCh37	22	24313540	24313540	+	Missense_Mutation	SNP	T	T	C	rs767781615	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.350T>C	p.Ile117Thr	p.I117T	ENST00000215770	3/3	110	67	43	123	123	0	DDTL,missense_variant,p.Ile117Thr,ENST00000215770,;DDT,downstream_gene_variant,,ENST00000430101,;DDT,downstream_gene_variant,,ENST00000403754,;DDT,downstream_gene_variant,,ENST00000404092,;DDT,downstream_gene_variant,,ENST00000398344,;DDT,downstream_gene_variant,,ENST00000350608,;DDT,downstream_gene_variant,,ENST00000428792,;KB-226F1.2,downstream_gene_variant,,ENST00000609736,;DDT,downstream_gene_variant,,ENST00000444947,;	C	ENSG00000099974	ENST00000215770	Transcript	missense_variant	364	350	117	I/T	aTa/aCa	rs767781615,COSM419624	.	.	1	DDTL	HGNC	33446	protein_coding	YES	CCDS42988.1	ENSP00000215770	DDTL_HUMAN	.	UPI0000207380	.	tolerated_low_confidence(1)	benign(0)	3/3	.	hmmpanther:PTHR11954,hmmpanther:PTHR11954:SF21	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATAATAGAAG	byFrequency	5	BLCA
C2orf40	0	.	GRCh37	2	106694282	106694282	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347G>A	p.Gly116Asp	p.G116D	ENST00000238044	4/4	110	68	41	127	127	0	C2orf40,missense_variant,p.Gly80Asp,ENST00000409944,;C2orf40,missense_variant,p.Gly116Asp,ENST00000238044,;C2orf40,missense_variant,p.Gly118Asp,ENST00000437659,;C2orf40,downstream_gene_variant,,ENST00000489174,;C2orf40,non_coding_transcript_exon_variant,,ENST00000479337,;	A	ENSG00000119147	ENST00000238044	Transcript	missense_variant	456	347	116	G/D	gGc/gAc	COSM418643	.	.	1	C2orf40	HGNC	24642	protein_coding	YES	CCDS2072.1	ENSP00000238044	AUGN_HUMAN	B8ZZE5_HUMAN	UPI000004220E	.	tolerated_low_confidence(0.28)	benign(0.016)	4/4	.	hmmpanther:PTHR31613,Pfam_domain:PF15187	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTATGGCGATT	.	5	BLCA
CXCR4	0	.	GRCh37	2	136872564	136872564	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.946T>G	p.Ser316Ala	p.S316A	ENST00000409817	1/1	1149	716	432	1454	1454	0	CXCR4,missense_variant,p.Ser312Ala,ENST00000241393,;CXCR4,missense_variant,p.Ser316Ala,ENST00000409817,;CXCR4,non_coding_transcript_exon_variant,,ENST00000466288,;	C	ENSG00000121966	ENST00000409817	Transcript	missense_variant	1250	946	316	S/A	Tct/Gct	COSM418563	.	.	-1	CXCR4	HGNC	2561	protein_coding	YES	CCDS33295.1	ENSP00000386884	CXCR4_HUMAN	Q5MIL4_HUMAN	UPI000002A5E3	.	deleterious(0.02)	probably_damaging(0.96)	1/1	.	hmmpanther:PTHR24227,hmmpanther:PTHR24227:SF7,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00657	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAGAGGTTT	.	5	BLCA
THSD7B	0	.	GRCh37	2	138414424	138414424	+	Silent	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4173T>C	p.%3D	p.D1391D	ENST00000272643	23/28	62	38	24	108	108	0	THSD7B,synonymous_variant,p.%3D,ENST00000409968,;THSD7B,synonymous_variant,p.%3D,ENST00000413152,;THSD7B,synonymous_variant,p.%3D,ENST00000272643,;THSD7B,intron_variant,,ENST00000543459,;THSD7B,downstream_gene_variant,,ENST00000480352,;	C	ENSG00000144229	ENST00000272643	Transcript	synonymous_variant	4173	4173	1391	D	gaT/gaC	COSM418560,COSM1133574	.	.	1	THSD7B	HGNC	29348	protein_coding	YES	.	ENSP00000272643	THS7B_HUMAN	.	UPI00015E0A18	.	.	.	23/28	.	PROSITE_profiles:PS50092,hmmpanther:PTHR11311:SF7,hmmpanther:PTHR11311,Pfam_domain:PF00090,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTGATGGAAG	.	5	BLCA
LRP1B	0	.	GRCh37	2	141283905	141283905	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7777A>G	p.Thr2593Ala	p.T2593A	ENST00000389484	48/91	75	44	30	70	70	0	LRP1B,missense_variant,p.Thr2593Ala,ENST00000389484,;	C	ENSG00000168702	ENST00000389484	Transcript	missense_variant	8749	7777	2593	T/A	Acg/Gcg	COSM418552	.	.	-1	LRP1B	HGNC	6693	protein_coding	YES	CCDS2182.1	ENSP00000374135	LRP1B_HUMAN	Q8WY27_HUMAN,Q8WY26_HUMAN,Q580W7_HUMAN,Q53TB8_HUMAN,Q53S76_HUMAN,Q53S73_HUMAN,Q53S26_HUMAN,Q53RL0_HUMAN,Q53RG4_HUMAN,Q53RA0_HUMAN,Q53QP5_HUMAN,Q53QM8_HUMAN,Q4ZG53_HUMAN,Q4ZFV5_HUMAN	UPI00001B045B	.	.	possibly_damaging(0.523)	48/91	.	PROSITE_profiles:PS50068,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF105,Gene3D:4.10.400.10,Pfam_domain:PF00057,SMART_domains:SM00192,Superfamily_domains:SSF57424	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCGTGGCAC	.	5	BLCA
TTN	0	.	GRCh37	2	179472164	179472164	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.53251G>A	p.Gly17751Ser	p.G17751S	ENST00000589042	277/363	214	131	82	293	292	1	TTN,missense_variant,p.Gly8811Ser,ENST00000359218,;TTN,missense_variant,p.Gly16110Ser,ENST00000591111,;TTN,missense_variant,p.Gly17751Ser,ENST00000589042,;TTN,missense_variant,p.Gly15183Ser,ENST00000342992,;TTN,missense_variant,p.Gly8878Ser,ENST00000342175,;TTN,missense_variant,p.Gly8686Ser,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589234,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000419746,;TTN-AS1,downstream_gene_variant,,ENST00000586452,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	53476	53251	17751	G/S	Ggt/Agt	COSM418414,COSM418413,COSM1133595,COSM418412,COSM418411	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	277/363	.	hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAACCACAGC	.	5	BLCA
TTN	0	.	GRCh37	2	179583684	179583684	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24243A>T	p.Glu8081Asp	p.E8081D	ENST00000589042	84/363	22	11	11	20	20	0	TTN,missense_variant,p.Glu6837Asp,ENST00000342992,;TTN,missense_variant,p.Glu8081Asp,ENST00000589042,;TTN,missense_variant,p.Glu7764Asp,ENST00000591111,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,downstream_gene_variant,,ENST00000431752,;RP11-171I2.1,upstream_gene_variant,,ENST00000590024,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	24468	24243	8081	E/D	gaA/gaT	COSM1133606,COSM1645618	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	84/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,Superfamily_domains:SSF48726,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTGTTCAAA	.	5	BLCA
ABCA12	0	.	GRCh37	2	215854127	215854127	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3755G>A	p.Trp1252Ter	p.W1252*	ENST00000272895	26/53	111	70	41	159	159	0	ABCA12,stop_gained,p.Trp934Ter,ENST00000389661,;ABCA12,stop_gained,p.Trp1252Ter,ENST00000272895,;	T	ENSG00000144452	ENST00000272895	Transcript	stop_gained	3975	3755	1252	W/*	tGg/tAg	COSM418874	.	.	-1	ABCA12	HGNC	14637	protein_coding	YES	CCDS33372.1	ENSP00000272895	ABCAC_HUMAN	A0SYP7_HUMAN	UPI000019AB7A	.	.	.	26/53	.	Pfam_domain:PF12698,hmmpanther:PTHR19229:SF29,hmmpanther:PTHR19229,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGCCAGCCA	.	5	BLCA
SLC19A3	0	.	GRCh37	2	228552068	228552068	+	3'UTR	SNP	T	T	G	rs755910828	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*45A>C	.	.	ENST00000258403	6/6	78	51	27	105	105	0	SLC19A3,3_prime_UTR_variant,,ENST00000258403,;SLC19A3,3_prime_UTR_variant,,ENST00000541617,;SLC19A3,intron_variant,,ENST00000409287,;SLC19A3,3_prime_UTR_variant,,ENST00000425817,;	G	ENSG00000135917	ENST00000258403	Transcript	3_prime_UTR_variant	1608	.	.	.	.	rs755910828	.	.	-1	SLC19A3	HGNC	16266	protein_coding	YES	CCDS2468.1	ENSP00000258403	S19A3_HUMAN	C9J4J5_HUMAN,C9IZI1_HUMAN,B8ZZ39_HUMAN	UPI000004DAE9	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTTATTATTGC	.	4	BLCA
GTF3C2	0	.	GRCh37	2	27551030	27551030	+	Silent	SNP	C	C	T	rs375864086	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2283G>A	p.%3D	p.P761P	ENST00000359541	17/19	88	56	32	98	98	0	GTF3C2,synonymous_variant,p.%3D,ENST00000457098,;GTF3C2,synonymous_variant,p.%3D,ENST00000264720,;GTF3C2,synonymous_variant,p.%3D,ENST00000454704,;GTF3C2,synonymous_variant,p.%3D,ENST00000359541,;GTF3C2,upstream_gene_variant,,ENST00000431028,;MPV17,upstream_gene_variant,,ENST00000357186,;GTF3C2,3_prime_UTR_variant,,ENST00000415683,;GTF3C2,non_coding_transcript_exon_variant,,ENST00000495298,;GTF3C2,downstream_gene_variant,,ENST00000484680,;	T	ENSG00000115207	ENST00000359541	Transcript	synonymous_variant	2713	2283	761	P	ccG/ccA	rs375864086,COSM266647	.	.	-1	GTF3C2	HGNC	4665	protein_coding	YES	CCDS1749.1	ENSP00000352536	TF3C2_HUMAN	Q53SY8_HUMAN,Q53QN0_HUMAN,C9JQ12_HUMAN,C9JNH7_HUMAN	UPI0000074025	.	.	.	17/19	.	hmmpanther:PTHR15052,hmmpanther:PTHR15052:SF2	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.P761P|c.2283G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATACGGTAT	byFrequency|byCluster	5	BLCA
RPS7	0	.	GRCh37	2	3627748	3627748	+	Silent	SNP	C	C	T	rs149082052	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.405C>T	p.%3D	p.F135F	ENST00000304921	6/7	169	99	70	187	187	0	RPS7,synonymous_variant,p.%3D,ENST00000304921,;RPS7,synonymous_variant,p.%3D,ENST00000406376,;RPS7,synonymous_variant,p.%3D,ENST00000403564,;RPS7,synonymous_variant,p.%3D,ENST00000407445,;SNORA73,upstream_gene_variant,,ENST00000516722,;RPS7,non_coding_transcript_exon_variant,,ENST00000491937,;RPS7,non_coding_transcript_exon_variant,,ENST00000462576,;RPS7,non_coding_transcript_exon_variant,,ENST00000481006,;RPS7,non_coding_transcript_exon_variant,,ENST00000472966,;RPS7,downstream_gene_variant,,ENST00000479123,;	T	ENSG00000171863	ENST00000304921	Transcript	synonymous_variant	569	405	135	F	ttC/ttT	rs149082052,COSM419182	.	.	1	RPS7	HGNC	10440	protein_coding	YES	CCDS1648.1	ENSP00000339095	RS7_HUMAN	.	UPI0000029F18	.	.	.	6/7	.	hmmpanther:PTHR11278:SF0,hmmpanther:PTHR11278,Pfam_domain:PF01251	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCCCAAG	.	5	BLCA
WDR52	0	.	GRCh37	3	113145001	113145001	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.377C>G	p.Ser126Ter	p.S126*	ENST00000393845	4/35	370	240	130	403	403	0	WDR52,stop_gained,p.Ser126Ter,ENST00000393845,;WDR52,stop_gained,p.Ser126Ter,ENST00000295868,;WDR52,downstream_gene_variant,,ENST00000473143,;WDR52-AS1,intron_variant,,ENST00000473329,;WDR52-AS1,intron_variant,,ENST00000498480,;WDR52,non_coding_transcript_exon_variant,,ENST00000479422,;WDR52,intron_variant,,ENST00000489938,;WDR52,intron_variant,,ENST00000488854,;	C	ENSG00000206530	ENST00000393845	Transcript	stop_gained	444	377	126	S/*	tCa/tGa	COSM419926	.	.	-1	WDR52	HGNC	25631	protein_coding	YES	CCDS54624.1	ENSP00000377428	WDR52_HUMAN	C9K0A4_HUMAN	UPI0000367198	.	.	.	4/35	.	hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF18	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTGAATCC	.	5	BLCA
ARGFX	0	.	GRCh37	3	121305213	121305213	+	Missense_Mutation	SNP	T	T	A	rs776495012	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.714T>A	p.Asp238Glu	p.D238E	ENST00000334384	4/4	181	117	64	187	187	0	ARGFX,missense_variant,p.Asp238Glu,ENST00000334384,;snoU13,upstream_gene_variant,,ENST00000459366,;	A	ENSG00000186103	ENST00000334384	Transcript	missense_variant	724	714	238	D/E	gaT/gaA	rs776495012,COSM419907	.	.	1	ARGFX	HGNC	30146	protein_coding	YES	CCDS33834.1	ENSP00000335578	ARGFX_HUMAN	.	UPI00004ED62C	.	deleterious(0.04)	probably_damaging(0.935)	4/4	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGATGAGAA	.	5	BLCA
FBXO40	0	.	GRCh37	3	121345737	121345737	+	Nonsense_Mutation	SNP	C	C	T	rs139292085	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2110C>T	p.Arg704Ter	p.R704*	ENST00000338040	4/4	98	65	32	97	97	0	FBXO40,stop_gained,p.Arg704Ter,ENST00000338040,;HCLS1,downstream_gene_variant,,ENST00000428394,;HCLS1,downstream_gene_variant,,ENST00000314583,;HCLS1,downstream_gene_variant,,ENST00000473883,;	T	ENSG00000163833	ENST00000338040	Transcript	stop_gained	2524	2110	704	R/*	Cga/Tga	rs139292085,COSM311131,COSM419905	.	.	1	FBXO40	HGNC	29816	protein_coding	YES	CCDS33835.1	ENSP00000337510	FBX40_HUMAN	.	UPI000020A046	.	.	.	4/4	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCACGAGGA	byCluster	5	BLCA
H1FX	0	.	GRCh37	3	129034521	129034521	+	Missense_Mutation	SNP	C	C	G	rs768748159	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225G>C	p.Lys75Asn	p.K75N	ENST00000333762	1/1	14	5	9	11	11	0	H1FX,missense_variant,p.Lys75Asn,ENST00000333762,;H1FX-AS1,intron_variant,,ENST00000511998,;H1FX-AS1,intron_variant,,ENST00000433902,;H1FX-AS1,upstream_gene_variant,,ENST00000383461,;H1FX-AS1,upstream_gene_variant,,ENST00000537780,;H1FX-AS1,upstream_gene_variant,,ENST00000502789,;	G	ENSG00000184897	ENST00000333762	Transcript	missense_variant	600	225	75	K/N	aaG/aaC	rs768748159,COSM419842	.	.	-1	H1FX	HGNC	4722	protein_coding	YES	CCDS3057.1	ENSP00000329662	H1X_HUMAN	.	UPI000012BF2F	.	tolerated(0.08)	probably_damaging(0.976)	1/1	.	PROSITE_profiles:PS51504,hmmpanther:PTHR11467:SF21,hmmpanther:PTHR11467,Pfam_domain:PF00538,Gene3D:1.10.10.10,SMART_domains:SM00526,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTCTTGGC	byFrequency	2	BLCA
H1FX	0	.	GRCh37	3	129034529	129034529	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217G>A	p.Glu73Lys	p.E73K	ENST00000333762	1/1	12	5	7	9	9	0	H1FX,missense_variant,p.Glu73Lys,ENST00000333762,;H1FX-AS1,intron_variant,,ENST00000511998,;H1FX-AS1,intron_variant,,ENST00000433902,;H1FX-AS1,upstream_gene_variant,,ENST00000383461,;H1FX-AS1,upstream_gene_variant,,ENST00000537780,;H1FX-AS1,upstream_gene_variant,,ENST00000502789,;	T	ENSG00000184897	ENST00000333762	Transcript	missense_variant	592	217	73	E/K	Gag/Aag	COSM419841	.	.	-1	H1FX	HGNC	4722	protein_coding	YES	CCDS3057.1	ENSP00000329662	H1X_HUMAN	.	UPI000012BF2F	.	tolerated(0.13)	possibly_damaging(0.817)	1/1	.	PROSITE_profiles:PS51504,hmmpanther:PTHR11467:SF21,hmmpanther:PTHR11467,Pfam_domain:PF00538,Gene3D:1.10.10.10,SMART_domains:SM00526,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCGGTGT	.	2	BLCA
PRR23B	0	.	GRCh37	3	138738777	138738777	+	Missense_Mutation	SNP	C	C	T	rs745967431	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.727G>A	p.Gly243Ser	p.G243S	ENST00000329447	1/1	44	36	8	61	61	0	PRR23B,missense_variant,p.Gly243Ser,ENST00000329447,;MRPS22,intron_variant,,ENST00000495075,;	T	ENSG00000184814	ENST00000329447	Transcript	missense_variant	992	727	243	G/S	Ggt/Agt	rs745967431,COSM419798	.	.	-1	PRR23B	HGNC	33764	protein_coding	YES	CCDS33868.1	ENSP00000328768	PR23B_HUMAN	.	UPI00001C0F1A	.	tolerated(0.46)	possibly_damaging(0.624)	1/1	.	hmmpanther:PTHR31813,hmmpanther:PTHR31813:SF2,Pfam_domain:PF10630	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGACCTGGAC	.	5	BLCA
GPR171	0	.	GRCh37	3	150916249	150916249	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925C>T	p.Gln309Ter	p.Q309*	ENST00000309180	3/3	116	77	38	119	119	0	GPR171,stop_gained,p.Gln309Ter,ENST00000309180,;MED12L,intron_variant,,ENST00000474524,;MED12L,intron_variant,,ENST00000480026,;MED12L,intron_variant,,ENST00000273432,;MED12L,downstream_gene_variant,,ENST00000422248,;GPR171,downstream_gene_variant,,ENST00000480322,;MED12L,downstream_gene_variant,,ENST00000309237,;	A	ENSG00000174946	ENST00000309180	Transcript	stop_gained	1156	925	309	Q/*	Cag/Tag	COSM419773	.	.	-1	GPR171	HGNC	30057	protein_coding	YES	CCDS3155.1	ENSP00000308479	GP171_HUMAN	C9JR91_HUMAN	UPI000005046D	.	.	.	3/3	.	hmmpanther:PTHR24233,hmmpanther:PTHR24233:SF4,Gene3D:1.20.1070.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTGAGCCT	.	5	BLCA
TMPPE	0	.	GRCh37	3	33135765	33135765	+	5'UTR	SNP	G	G	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-78C>T	.	.	ENST00000342462	2/2	36	28	8	32	32	0	TMPPE,5_prime_UTR_variant,,ENST00000342462,;GLB1,intron_variant,,ENST00000399402,;GLB1,intron_variant,,ENST00000440656,;GLB1,intron_variant,,ENST00000450835,;GLB1,intron_variant,,ENST00000307363,;GLB1,intron_variant,,ENST00000307377,;GLB1,intron_variant,,ENST00000436768,;GLB1,intron_variant,,ENST00000445488,;GLB1,intron_variant,,ENST00000415454,;TMPPE,intron_variant,,ENST00000416695,;GLB1,intron_variant,,ENST00000485698,;GLB1,intron_variant,,ENST00000482097,;GLB1,intron_variant,,ENST00000464355,;GLB1,intron_variant,,ENST00000498537,;GLB1,intron_variant,,ENST00000438227,;	A	ENSG00000188167	ENST00000342462	Transcript	5_prime_UTR_variant	114	.	.	.	.	.	.	.	-1	TMPPE	HGNC	33865	protein_coding	YES	CCDS33732.1	ENSP00000343398	TMPPE_HUMAN	.	UPI000022BF97	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTGGCCAA	.	5	BLCA
ACKR2	0	.	GRCh37	3	42906025	42906025	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.31G>A	p.Ala11Thr	p.A11T	ENST00000422265	3/3	97	64	32	107	107	0	ACKR2,missense_variant,p.Ala11Thr,ENST00000497921,;ACKR2,missense_variant,p.Ala11Thr,ENST00000493193,;ACKR2,missense_variant,p.Ala11Thr,ENST00000442925,;ACKR2,missense_variant,p.Ala11Thr,ENST00000422265,;ACKR2,missense_variant,p.Ala11Thr,ENST00000492609,;ACKR2,missense_variant,p.Ala11Thr,ENST00000494619,;ACKR2,missense_variant,p.Ala11Thr,ENST00000273145,;CYP8B1,intron_variant,,ENST00000437102,;KRBOX1,intron_variant,,ENST00000426937,;ACKR2,non_coding_transcript_exon_variant,,ENST00000463699,;ACKR2,non_coding_transcript_exon_variant,,ENST00000460855,;ACKR2,non_coding_transcript_exon_variant,,ENST00000498111,;KRBOX1,intron_variant,,ENST00000451200,;RP11-141M3.5,intron_variant,,ENST00000471537,;RP11-141M3.5,intron_variant,,ENST00000496604,;RP11-141M3.5,intron_variant,,ENST00000487368,;	A	ENSG00000144648	ENST00000422265	Transcript	missense_variant	206	31	11	A/T	Gcc/Acc	COSM420004	.	.	1	ACKR2	HGNC	1565	protein_coding	YES	CCDS2706.1	ENSP00000416996	ACKR2_HUMAN	.	UPI000004358E	.	tolerated(1)	benign(0.001)	3/3	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTCGCCACT	.	5	BLCA
SCAP	0	.	GRCh37	3	47461048	47461048	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1710delC	p.Ser571AlafsTer45	p.S571Afs*45	ENST00000265565	13/23	101	89	12	91	91	0	SCAP,frameshift_variant,p.Ser179AlafsTer45,ENST00000545718,;SCAP,frameshift_variant,p.Ser316AlafsTer45,ENST00000441517,;SCAP,frameshift_variant,p.Ser571AlafsTer45,ENST00000265565,;SCAP,downstream_gene_variant,,ENST00000468965,;SCAP,downstream_gene_variant,,ENST00000465628,;SCAP,3_prime_UTR_variant,,ENST00000320017,;SCAP,3_prime_UTR_variant,,ENST00000416208,;	-	ENSG00000114650	ENST00000265565	Transcript	frameshift_variant	2123	1710	570	P/X	ccC/cc	.	.	.	-1	SCAP	HGNC	30634	protein_coding	YES	CCDS2755.2	ENSP00000265565	SCAP_HUMAN	D6RA39_HUMAN,C9JQ35_HUMAN	UPI0000135624	.	.	.	13/23	.	hmmpanther:PTHR10796:SF53,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTGGCTGGGGGG	.	3	BLCA
RASSF1	0	.	GRCh37	3	50369047	50369047	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.715G>A	p.Val239Met	p.V239M	ENST00000357043	4/6	135	119	16	181	181	0	RASSF1,missense_variant,p.Val235Met,ENST00000359365,;RASSF1,missense_variant,p.Val239Met,ENST00000357043,;RASSF1,missense_variant,p.Val165Met,ENST00000327761,;RASSF1,missense_variant,p.Val84Met,ENST00000395126,;TUSC2,upstream_gene_variant,,ENST00000232496,;RASSF1,downstream_gene_variant,,ENST00000488024,;TUSC2,upstream_gene_variant,,ENST00000463304,;TUSC2,upstream_gene_variant,,ENST00000462137,;RASSF1,3_prime_UTR_variant,,ENST00000395117,;RASSF1,3_prime_UTR_variant,,ENST00000482447,;TUSC2,upstream_gene_variant,,ENST00000454201,;RASSF1,downstream_gene_variant,,ENST00000478619,;TUSC2,upstream_gene_variant,,ENST00000421918,;TUSC2,upstream_gene_variant,,ENST00000417867,;	T	ENSG00000068028	ENST00000357043	Transcript	missense_variant	751	715	239	V/M	Gtg/Atg	COSM419929,COSM419930	.	.	-1	RASSF1	HGNC	9882	protein_coding	YES	CCDS2820.1	ENSP00000349547	RASF1_HUMAN	Q1W2K8_HUMAN	UPI000006FD97	.	deleterious(0)	probably_damaging(0.997)	4/6	.	PROSITE_profiles:PS50200,hmmpanther:PTHR22738:SF12,hmmpanther:PTHR22738,Pfam_domain:PF00788,SMART_domains:SM00314,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCACCAAGA	.	4	BLCA
CENPE	0	.	GRCh37	4	104061057	104061057	+	Silent	SNP	A	A	G	rs781105121	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6093T>C	p.%3D	p.L2031L	ENST00000265148	38/49	147	99	48	170	170	0	CENPE,synonymous_variant,p.%3D,ENST00000265148,;CENPE,intron_variant,,ENST00000380026,;	G	ENSG00000138778	ENST00000265148	Transcript	synonymous_variant	6183	6093	2031	L	ctT/ctC	rs781105121,COSM420256	.	.	-1	CENPE	HGNC	1856	protein_coding	YES	CCDS34042.1	ENSP00000265148	CENPE_HUMAN	D6RBW0_HUMAN	UPI000020B28A	.	.	.	38/49	.	hmmpanther:PTHR24115:SF384,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTCAAGGCT	.	5	BLCA
FAT4	0	.	GRCh37	4	126412722	126412722	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14745delC	p.Asn4915LysfsTer5	p.N4915Kfs*5	ENST00000394329	17/17	101	74	27	81	81	0	FAT4,frameshift_variant,p.Asn4915LysfsTer5,ENST00000394329,;FAT4,frameshift_variant,p.Asn3156LysfsTer5,ENST00000335110,;	-	ENSG00000196159	ENST00000394329	Transcript	frameshift_variant	14758	14745	4915	N/X	aaC/aa	.	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	.	17/17	.	hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGACAACACACT	.	3	BLCA
PCDH18	0	.	GRCh37	4	138452261	138452261	+	Missense_Mutation	SNP	C	C	A	rs776783693	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.982G>T	p.Asp328Tyr	p.D328Y	ENST00000344876	1/4	76	72	4	93	93	0	PCDH18,missense_variant,p.Asp328Tyr,ENST00000344876,;PCDH18,missense_variant,p.Asp108Tyr,ENST00000507846,;PCDH18,missense_variant,p.Asp328Tyr,ENST00000412923,;PCDH18,intron_variant,,ENST00000510305,;PCDH18,intron_variant,,ENST00000511115,;	A	ENSG00000189184	ENST00000344876	Transcript	missense_variant	1369	982	328	D/Y	Gat/Tat	rs776783693,COSM420198	.	.	-1	PCDH18	HGNC	14268	protein_coding	YES	CCDS34064.1	ENSP00000355082	PCD18_HUMAN	Q9NT87_HUMAN,B4DQ29_HUMAN	UPI0000047A88	.	deleterious(0)	probably_damaging(1)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF9,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAAATCTTGAG	.	2	BLCA
RBM46	0	.	GRCh37	4	155719125	155719125	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314T>C	p.Phe105Ser	p.F105S	ENST00000281722	3/5	106	63	43	124	124	0	RBM46,missense_variant,p.Phe105Ser,ENST00000510397,;RBM46,missense_variant,p.Phe105Ser,ENST00000281722,;RBM46,missense_variant,p.Phe105Ser,ENST00000514866,;RBM46,missense_variant,p.Phe105Ser,ENST00000512640,;	C	ENSG00000151962	ENST00000281722	Transcript	missense_variant	549	314	105	F/S	tTt/tCt	COSM420145,COSM1052454	.	.	1	RBM46	HGNC	28401	protein_coding	YES	CCDS3790.1	ENSP00000281722	RBM46_HUMAN	D6RF41_HUMAN	UPI000007173F	.	deleterious(0)	probably_damaging(0.991)	3/5	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,TIGRFAM_domain:TIGR01648,Gene3D:3.30.70.330,Pfam_domain:PF00076,hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF272,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTTTGTGA	.	5	BLCA
TDO2	0	.	GRCh37	4	156838600	156838600	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.950T>C	p.Ile317Thr	p.I317T	ENST00000536354	10/12	111	63	48	148	148	0	TDO2,missense_variant,p.Ile317Thr,ENST00000536354,;TDO2,non_coding_transcript_exon_variant,,ENST00000510293,;TDO2,non_coding_transcript_exon_variant,,ENST00000512584,;	C	ENSG00000151790	ENST00000536354	Transcript	missense_variant	1014	950	317	I/T	aTa/aCa	COSM420141	.	.	1	TDO2	HGNC	11708	protein_coding	YES	CCDS34086.1	ENSP00000444788	T23O_HUMAN	D6RB68_HUMAN,D6RA50_HUMAN	UPI00001367B7	.	deleterious(0)	possibly_damaging(0.551)	10/12	.	HAMAP:MF_01972,hmmpanther:PTHR10138:SF1,hmmpanther:PTHR10138,Pfam_domain:PF03301,Superfamily_domains:SSF140959	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACATAGATT	.	5	BLCA
LAP3	0	.	GRCh37	4	17606232	17606232	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1202G>T	p.Gly401Val	p.G401V	ENST00000226299	11/13	131	119	11	125	125	0	LAP3,missense_variant,p.Gly401Val,ENST00000226299,;LAP3,missense_variant,p.Gly171Val,ENST00000513105,;LAP3,missense_variant,p.Gly370Val,ENST00000606142,;AC006160.5,intron_variant,,ENST00000511010,;LAP3,non_coding_transcript_exon_variant,,ENST00000503467,;LAP3,non_coding_transcript_exon_variant,,ENST00000504614,;	T	ENSG00000002549	ENST00000226299	Transcript	missense_variant	1476	1202	401	G/V	gGa/gTa	COSM420110	.	.	1	LAP3	HGNC	18449	protein_coding	YES	CCDS3422.1	ENSP00000226299	AMPL_HUMAN	.	UPI000014F97D	.	deleterious(0)	probably_damaging(1)	11/13	.	HAMAP:MF_00181,hmmpanther:PTHR11963,hmmpanther:PTHR11963:SF13,Gene3D:3.40.630.10,Pfam_domain:PF00883,Superfamily_domains:SSF53187,Prints_domain:PR00481	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTGGGATCAG	.	3	BLCA
TENM3	0	.	GRCh37	4	183696288	183696288	+	Silent	SNP	C	C	T	rs745563653	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5286C>T	p.%3D	p.V1762V	ENST00000511685	24/28	49	34	15	58	58	0	TENM3,synonymous_variant,p.%3D,ENST00000511685,;TENM3,synonymous_variant,p.%3D,ENST00000406950,;RP11-18D7.2,upstream_gene_variant,,ENST00000513255,;	T	ENSG00000218336	ENST00000511685	Transcript	synonymous_variant	5409	5286	1762	V	gtC/gtT	rs745563653,COSM420105	.	.	1	TENM3	HGNC	29944	protein_coding	YES	CCDS47165.1	ENSP00000424226	TEN3_HUMAN	G3CAS9_HUMAN,D6RGC5_HUMAN	UPI00006C0820	.	.	.	24/28	.	hmmpanther:PTHR11219,hmmpanther:PTHR11219:SF10	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGTCTTTGG	.	5	BLCA
GBA3	0	.	GRCh37	4	22749341	22749341	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.709G>C	p.Val237Leu	p.V237L	ENST00000508166	3/5	236	194	41	255	255	0	GBA3,missense_variant,p.Val237Leu,ENST00000508166,;GBA3,missense_variant,p.Val66Leu,ENST00000511446,;GBA3,intron_variant,,ENST00000503442,;	C	ENSG00000249948	ENST00000508166	Transcript	missense_variant	811	709	237	V/L	Gtg/Ctg	COSM420617	.	.	1	GBA3	HGNC	19069	polymorphic_pseudogene	YES	.	ENSP00000427458	.	.	.	.	tolerated(0.23)	benign(0)	3/5	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCAGTGTCT	.	5	BLCA
FAM193A	0	.	GRCh37	4	2701490	2701490	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2718G>T	p.Glu906Asp	p.E906D	ENST00000324666	17/20	48	40	7	47	47	0	FAM193A,missense_variant,p.Glu906Asp,ENST00000545951,;FAM193A,missense_variant,p.Glu760Asp,ENST00000513350,;FAM193A,missense_variant,p.Glu906Asp,ENST00000324666,;FAM193A,missense_variant,p.Glu906Asp,ENST00000382839,;FAM193A,missense_variant,p.Glu906Asp,ENST00000505311,;FAM193A,missense_variant,p.Glu928Asp,ENST00000502458,;FAM193A,3_prime_UTR_variant,,ENST00000512465,;FAM193A,3_prime_UTR_variant,,ENST00000513898,;FAM193A,non_coding_transcript_exon_variant,,ENST00000506120,;	T	ENSG00000125386	ENST00000324666	Transcript	missense_variant	3069	2718	906	E/D	gaG/gaT	COSM420609	.	.	1	FAM193A	HGNC	16822	protein_coding	YES	CCDS58875.1	ENSP00000324587	F193A_HUMAN	E7EUR8_HUMAN,D6R990_HUMAN	UPI0000551BCA	.	tolerated(0.07)	probably_damaging(0.979)	17/20	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15109:SF2,hmmpanther:PTHR15109	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGAGGAGGA	.	4	BLCA
EVC2	0	.	GRCh37	4	5564598	5564598	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3904A>T	p.Met1302Leu	p.M1302L	ENST00000344408	22/22	170	117	52	223	223	0	EVC2,missense_variant,p.Met1222Leu,ENST00000310917,;EVC2,missense_variant,p.Met1302Leu,ENST00000344408,;EVC2,intron_variant,,ENST00000344938,;EVC2,3_prime_UTR_variant,,ENST00000509670,;EVC2,intron_variant,,ENST00000475313,;	A	ENSG00000173040	ENST00000344408	Transcript	missense_variant	3958	3904	1302	M/L	Atg/Ttg	COSM420570	.	.	-1	EVC2	HGNC	19747	protein_coding	YES	CCDS3382.2	ENSP00000342144	LBN_HUMAN	Q4W5B1_HUMAN,Q4W5A4_HUMAN	UPI00001910B5	.	deleterious(0.02)	benign(0.001)	22/22	.	hmmpanther:PTHR16795:SF11,hmmpanther:PTHR16795	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCATGGCCT	.	5	BLCA
AFM	0	.	GRCh37	4	74357676	74357676	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931G>T	p.Gly311Cys	p.G311C	ENST00000226355	8/15	63	38	24	104	104	0	AFM,missense_variant,p.Gly311Cys,ENST00000226355,;AFM,upstream_gene_variant,,ENST00000505794,;	T	ENSG00000079557	ENST00000226355	Transcript	missense_variant	1024	931	311	G/C	Ggc/Tgc	COSM420529	.	.	1	AFM	HGNC	316	protein_coding	YES	CCDS3557.1	ENSP00000226355	AFAM_HUMAN	.	UPI000012565D	.	deleterious(0)	probably_damaging(0.986)	8/15	.	PROSITE_profiles:PS51438,hmmpanther:PTHR11385:SF13,hmmpanther:PTHR11385,Pfam_domain:PF00273,Gene3D:1.10.246.10,SMART_domains:SM00103,PIRSF_domain:PIRSF002520,Superfamily_domains:SSF48552	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCGCGGCCAG	.	5	BLCA
PPBP	0	.	GRCh37	4	74853045	74853045	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331C>A	p.Pro111Thr	p.P111T	ENST00000296028	3/3	129	76	53	178	178	0	PPBP,missense_variant,p.Pro111Thr,ENST00000296028,;	T	ENSG00000163736	ENST00000296028	Transcript	missense_variant	425	331	111	P/T	Ccc/Acc	COSM420526	.	.	-1	PPBP	HGNC	9240	protein_coding	YES	CCDS3563.1	ENSP00000296028	CXCL7_HUMAN	D3JV43_HUMAN,D3JV42_HUMAN,D3JV41_HUMAN	UPI00000012C5	.	deleterious(0)	probably_damaging(0.995)	3/3	.	hmmpanther:PTHR10179,Gene3D:2.40.50.40,Pfam_domain:PF00048,SMART_domains:SM00199,Superfamily_domains:SSF54117,Prints_domain:PR00436,Prints_domain:PR00437	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGGGAGCAT	.	5	BLCA
WDFY3	0	.	GRCh37	4	85781566	85781566	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.179G>A	p.Arg60Lys	p.R60K	ENST00000295888	4/68	91	64	27	122	122	0	WDFY3,missense_variant,p.Arg60Lys,ENST00000295888,;WDFY3,missense_variant,p.Arg60Lys,ENST00000322366,;WDFY3,missense_variant,p.Arg60Lys,ENST00000509172,;WDFY3,downstream_gene_variant,,ENST00000502713,;WDFY3,splice_region_variant,,ENST00000426414,;WDFY3,splice_region_variant,,ENST00000504990,;	T	ENSG00000163625	ENST00000295888	Transcript	missense_variant	587	179	60	R/K	aGg/aAg	COSM420491	.	.	-1	WDFY3	HGNC	20751	protein_coding	YES	CCDS3609.1	ENSP00000295888	WDFY3_HUMAN	D6RJE4_HUMAN,A7E1Z6_HUMAN	UPI000013E2C7	.	tolerated(1)	benign(0.014)	4/68	.	hmmpanther:PTHR13743:SF55,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACCCTGTTA	.	5	BLCA
TIGD2	0	.	GRCh37	4	90035429	90035429	+	Missense_Mutation	SNP	G	G	T	rs539533845	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1304G>T	p.Arg435Leu	p.R435L	ENST00000317005	1/1	82	51	30	100	100	0	TIGD2,missense_variant,p.Arg435Leu,ENST00000317005,;RP11-84C13.1,downstream_gene_variant,,ENST00000603357,;FAM13A,upstream_gene_variant,,ENST00000502459,;	T	ENSG00000180346	ENST00000317005	Transcript	missense_variant	1462	1304	435	R/L	cGg/cTg	rs539533845,COSM420478	.	.	1	TIGD2	HGNC	18333	protein_coding	YES	CCDS3633.1	ENSP00000317170	TIGD2_HUMAN	.	UPI000013FF3C	.	deleterious(0.04)	benign(0.051)	1/1	.	hmmpanther:PTHR19303,hmmpanther:PTHR19303:SF220	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTCGGAGCA	byFrequency|byCluster	5	BLCA
SLCO4C1	0	.	GRCh37	5	101631645	101631645	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322C>T	p.%3D	p.L108L	ENST00000310954	1/13	90	86	4	80	80	0	SLCO4C1,synonymous_variant,p.%3D,ENST00000310954,;	A	ENSG00000173930	ENST00000310954	Transcript	synonymous_variant	609	322	108	L	Ctg/Ttg	COSM420468	.	.	-1	SLCO4C1	HGNC	23612	protein_coding	YES	CCDS34205.1	ENSP00000309741	SO4C1_HUMAN	Q63HP3_HUMAN	UPI00001C10B6	.	.	.	1/13	.	Pfam_domain:PF03137,TIGRFAM_domain:TIGR00805,hmmpanther:PTHR11388:SF81,hmmpanther:PTHR11388,PROSITE_profiles:PS50850,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGCAGAAAGC	.	2	BLCA
CHSY3	0	.	GRCh37	5	129521508	129521508	+	3'UTR	DEL	T	T	-	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29delT	.	.	ENST00000305031	3/3	81	72	9	90	90	0	CHSY3,3_prime_UTR_variant,,ENST00000305031,;CHSY3,downstream_gene_variant,,ENST00000507545,;	-	ENSG00000198108	ENST00000305031	Transcript	3_prime_UTR_variant	3031	.	.	.	.	.	.	.	1	CHSY3	HGNC	24293	protein_coding	YES	CCDS34223.1	ENSP00000302629	CHSS3_HUMAN	Q1JTV1_HUMAN	UPI0000251E08	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	TTTGCCTTTTTT	.	2	BLCA
LRRTM2	0	.	GRCh37	5	138209838	138209838	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412T>G	p.Leu138Val	p.L138V	ENST00000274711	2/2	45	27	18	55	55	0	LRRTM2,missense_variant,p.Leu138Val,ENST00000274711,;CTNNA1,5_prime_UTR_variant,,ENST00000518381,;LRRTM2,intron_variant,,ENST00000518785,;CTNNA1,intron_variant,,ENST00000302763,;LRRTM2,intron_variant,,ENST00000521094,;CTNNA1,intron_variant,,ENST00000355078,;CTNNA1,intron_variant,,ENST00000518825,;CTNNA1,upstream_gene_variant,,ENST00000521640,;CTNNA1,upstream_gene_variant,,ENST00000517656,;CTNNA1,upstream_gene_variant,,ENST00000522013,;CTNNA1,upstream_gene_variant,,ENST00000520865,;CTNNA1,upstream_gene_variant,,ENST00000520260,;CTNNA1,upstream_gene_variant,,ENST00000523298,;CTNNA1,upstream_gene_variant,,ENST00000523685,;CTNNA1,upstream_gene_variant,,ENST00000519634,;CTNNA1,upstream_gene_variant,,ENST00000540387,;CTNNA1,upstream_gene_variant,,ENST00000519768,;CTNNA1,upstream_gene_variant,,ENST00000519116,;CTNNA1,upstream_gene_variant,,ENST00000521683,;CTNNA1,upstream_gene_variant,,ENST00000517533,;LRRTM2,intron_variant,,ENST00000523537,;CTNNA1,intron_variant,,ENST00000520400,;CTNNA1,upstream_gene_variant,,ENST00000518263,;CTNNA1,upstream_gene_variant,,ENST00000522052,;CTNNA1,upstream_gene_variant,,ENST00000524292,;CTNNA1,intron_variant,,ENST00000521724,;CTNNA1,intron_variant,,ENST00000517534,;CTNNA1,intron_variant,,ENST00000523275,;	C	ENSG00000146006	ENST00000274711	Transcript	missense_variant	791	412	138	L/V	Ttg/Gtg	COSM420402	.	.	-1	LRRTM2	HGNC	19409	protein_coding	YES	CCDS47272.1	ENSP00000274711	LRRT2_HUMAN	.	UPI0000070039	.	tolerated(0.16)	possibly_damaging(0.557)	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24367,hmmpanther:PTHR24367:SF20,Gene3D:3.80.10.10,Pfam_domain:PF13855,SMART_domains:SM00369,Superfamily_domains:SSF52058,Prints_domain:PR00019	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCAAATTTT	.	5	BLCA
PCDHB5	0	.	GRCh37	5	140517344	140517344	+	Missense_Mutation	SNP	G	G	T	rs782307415	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2328G>T	p.Gln776His	p.Q776H	ENST00000231134	1/1	272	183	89	269	269	0	PCDHB5,missense_variant,p.Gln776His,ENST00000231134,;	T	ENSG00000113209	ENST00000231134	Transcript	missense_variant	2545	2328	776	Q/H	caG/caT	rs782307415,COSM313990,COSM420887	.	.	1	PCDHB5	HGNC	8690	protein_coding	YES	CCDS4247.1	ENSP00000231134	PCDB5_HUMAN	.	UPI00001273E1	.	tolerated_low_confidence(0.15)	benign(0.011)	1/1	.	hmmpanther:PTHR24028:SF64,hmmpanther:PTHR24028	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.Q776Q|c.2328G>A|3,BUFFER|p.G777G|c.2331C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCAGGGCGC	.	5	BLCA
PCDHB18	0	.	GRCh37	5	140616205	140616205	+	RNA	SNP	G	G	A	rs564051206	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2268G>A	.	.	ENST00000526308	1/1	233	167	66	256	255	0	PCDHB18,non_coding_transcript_exon_variant,,ENST00000526308,;PCDHB18,non_coding_transcript_exon_variant,,ENST00000524813,;PCDHB19P,upstream_gene_variant,,ENST00000570871,;	A	ENSG00000146001	ENST00000526308	Transcript	non_coding_transcript_exon_variant	2268	.	.	.	.	rs564051206,COSM420877	.	.	1	PCDHB18	HGNC	14548	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	A:0.0004	A:0.0015	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGCGTTGGC	byFrequency|by1000G	5	BLCA
PCDHGA10	0	.	GRCh37	5	140795157	140795157	+	Missense_Mutation	SNP	A	A	G	rs201666137	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2415A>G	p.Ile805Met	p.I805M	ENST00000398610	1/4	50	37	13	69	69	0	PCDHGA10,missense_variant,p.Ile805Met,ENST00000398610,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB7,upstream_gene_variant,,ENST00000398594,;	G	ENSG00000253846	ENST00000398610	Transcript	missense_variant	2415	2415	805	I/M	atA/atG	rs201666137,COSM420862	.	.	1	PCDHGA10	HGNC	8697	protein_coding	YES	CCDS47292.1	ENSP00000381611	PCDGA_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000726C3	.	tolerated_low_confidence(0.17)	benign(0.163)	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF110	.	.	.	.	.	.	.	G:0.0007	G:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTATAGAGGA	byFrequency|byCluster	2	BLCA
ABLIM3	0	.	GRCh37	5	148632376	148632376	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1914G>T	p.Lys638Asn	p.K638N	ENST00000506113	22/23	142	107	35	156	156	0	ABLIM3,missense_variant,p.Lys527Asn,ENST00000356541,;ABLIM3,missense_variant,p.Lys638Asn,ENST00000309868,;ABLIM3,missense_variant,p.Lys527Asn,ENST00000504238,;ABLIM3,missense_variant,p.Lys638Asn,ENST00000506113,;ABLIM3,missense_variant,p.Lys605Asn,ENST00000508983,;ABLIM3,missense_variant,p.Lys124Asn,ENST00000517451,;ABLIM3,missense_variant,p.Lys543Asn,ENST00000326685,;AC012613.2,intron_variant,,ENST00000523176,;RP11-331K21.1,intron_variant,,ENST00000512647,;RP11-331K21.1,intron_variant,,ENST00000522685,;ABLIM3,3_prime_UTR_variant,,ENST00000515171,;ABLIM3,non_coding_transcript_exon_variant,,ENST00000502855,;	T	ENSG00000173210	ENST00000506113	Transcript	missense_variant	2396	1914	638	K/N	aaG/aaT	COSM420840	.	.	1	ABLIM3	HGNC	29132	protein_coding	YES	CCDS4294.1	ENSP00000425394	ABLM3_HUMAN	.	UPI0000071FF7	.	deleterious(0)	benign(0.199)	22/23	.	PROSITE_profiles:PS51089,hmmpanther:PTHR24213:SF0,hmmpanther:PTHR24213,Gene3D:1.10.950.10,Superfamily_domains:SSF47050	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCAAGGATGT	.	5	BLCA
FAT2	0	.	GRCh37	5	150934193	150934193	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3675C>T	p.%3D	p.T1225T	ENST00000261800	4/23	190	166	24	212	211	1	FAT2,synonymous_variant,p.%3D,ENST00000261800,;	A	ENSG00000086570	ENST00000261800	Transcript	synonymous_variant	3688	3675	1225	T	acC/acT	COSM420824	.	.	-1	FAT2	HGNC	3596	protein_coding	YES	CCDS4317.1	ENSP00000261800	FAT2_HUMAN	.	UPI0000055B22	.	.	.	4/23	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF37,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGAGGTGGA	.	4	BLCA
HK3	0	.	GRCh37	5	176314051	176314051	+	Silent	SNP	T	T	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1809A>T	p.%3D	p.P603P	ENST00000292432	13/19	59	44	14	64	64	0	HK3,synonymous_variant,p.%3D,ENST00000292432,;HK3,upstream_gene_variant,,ENST00000514058,;HK3,non_coding_transcript_exon_variant,,ENST00000506834,;HK3,downstream_gene_variant,,ENST00000504910,;HK3,downstream_gene_variant,,ENST00000509717,;	A	ENSG00000160883	ENST00000292432	Transcript	synonymous_variant	1901	1809	603	P	ccA/ccT	COSM420776,COSM1133733	.	.	-1	HK3	HGNC	4925	protein_coding	YES	CCDS4407.1	ENSP00000292432	HXK3_HUMAN	.	UPI000006E237	.	.	.	13/19	.	hmmpanther:PTHR19443:SF1,hmmpanther:PTHR19443,Pfam_domain:PF00349,Gene3D:3.30.420.40,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCAGTGGGAG	.	5	BLCA
SLC34A1	0	.	GRCh37	5	176813554	176813554	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519G>A	p.Met173Ile	p.M173I	ENST00000324417	5/13	147	127	19	141	141	0	SLC34A1,missense_variant,p.Met173Ile,ENST00000512593,;SLC34A1,missense_variant,p.Met173Ile,ENST00000324417,;SLC34A1,downstream_gene_variant,,ENST00000504577,;SLC34A1,upstream_gene_variant,,ENST00000513614,;SLC34A1,non_coding_transcript_exon_variant,,ENST00000507685,;	A	ENSG00000131183	ENST00000324417	Transcript	missense_variant	610	519	173	M/I	atG/atA	COSM420763	.	.	1	SLC34A1	HGNC	11019	protein_coding	YES	CCDS4418.1	ENSP00000321424	NPT2A_HUMAN	Q05BP0_HUMAN,D6RCE5_HUMAN	UPI0000130408	.	deleterious(0.03)	possibly_damaging(0.596)	5/13	.	Low_complexity_(Seg):seg,TIGRFAM_domain:TIGR01013,Pfam_domain:PF02690,hmmpanther:PTHR10010,hmmpanther:PTHR10010:SF21	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATGGTCTC	.	4	BLCA
ADAMTS12	0	.	GRCh37	5	33576735	33576735	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3396C>T	p.%3D	p.S1132S	ENST00000504830	19/24	136	111	24	128	128	0	ADAMTS12,synonymous_variant,p.%3D,ENST00000504830,;ADAMTS12,synonymous_variant,p.%3D,ENST00000352040,;ADAMTS12,downstream_gene_variant,,ENST00000504582,;	A	ENSG00000151388	ENST00000504830	Transcript	synonymous_variant	3732	3396	1132	S	tcC/tcT	COSM420737	.	.	-1	ADAMTS12	HGNC	14605	protein_coding	YES	CCDS34140.1	ENSP00000422554	ATS12_HUMAN	.	UPI000013DC51	.	.	.	19/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF150	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCGGGAAGA	.	5	BLCA
AMACR	0	.	GRCh37	5	34008088	34008089	+	Frame_Shift_Del	DEL	CG	CG	-	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	CG	CG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36_37delCG	p.Gly13ProfsTer13	p.G13Pfs*13	ENST00000382085	1/6	84	69	15	52	52	0	AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000441713,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000426255,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000502637,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000382085,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000382072,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000512079,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000382068,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000335606,;AMACR,non_coding_transcript_exon_variant,,ENST00000514195,;AMACR,frameshift_variant,p.Gly13ProfsTer13,ENST00000506639,;RP11-1084J3.4,intron_variant,,ENST00000382079,;	-	ENSG00000242110	ENST00000382085	Transcript	frameshift_variant	45-46	36-37	12-13	SG/SX	tcCGgc/tcgc	.	.	.	-1	AMACR	HGNC	451	protein_coding	YES	CCDS54836.1	ENSP00000371517	AMACR_HUMAN	.	UPI000020C93C	.	.	.	1/6	.	Superfamily_domains:SSF89796,Gene3D:3.40.50.10540,hmmpanther:PTHR11837,hmmpanther:PTHR11837:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.V9M|c.25G>A|3	INDELOCATOR*|VARSCANI*|PINDEL	CCAGGCCGGACAG	.	3	BLCA
CARD6	0	.	GRCh37	5	40843579	40843579	+	Silent	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.609A>G	p.%3D	p.L203L	ENST00000254691	2/3	69	53	16	66	66	0	CARD6,synonymous_variant,p.%3D,ENST00000381677,;CARD6,synonymous_variant,p.%3D,ENST00000254691,;	G	ENSG00000132357	ENST00000254691	Transcript	synonymous_variant	808	609	203	L	ctA/ctG	COSM420698	.	.	1	CARD6	HGNC	16394	protein_coding	YES	CCDS3935.1	ENSP00000254691	CARD6_HUMAN	.	UPI000013CE50	.	.	.	2/3	.	hmmpanther:PTHR22797:SF26,hmmpanther:PTHR22797	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTAGATGA	.	5	BLCA
FBXO4	0	.	GRCh37	5	41927133	41927133	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.208A>G	p.Ile70Val	p.I70V	ENST00000281623	2/7	216	147	69	202	201	0	FBXO4,missense_variant,p.Ile70Val,ENST00000296812,;FBXO4,missense_variant,p.Ile70Val,ENST00000509134,;FBXO4,missense_variant,p.Ile70Val,ENST00000281623,;FBXO4,missense_variant,p.Ile70Val,ENST00000504463,;FBXO4,intron_variant,,ENST00000506496,;FBXO4,intron_variant,,ENST00000513496,;	G	ENSG00000151876	ENST00000281623	Transcript	missense_variant	264	208	70	I/V	Att/Gtt	COSM420697	.	.	1	FBXO4	HGNC	13583	protein_coding	YES	CCDS3938.1	ENSP00000281623	FBX4_HUMAN	.	UPI0000062307	.	tolerated(0.1)	benign(0.203)	2/7	.	Superfamily_domains:SSF81383,SMART_domains:SM00256,Pfam_domain:PF00646,Gene3D:1.20.1280.50,hmmpanther:PTHR16008,hmmpanther:PTHR16008:SF4,PROSITE_profiles:PS50181	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATATATTTTG	.	5	BLCA
VCAN	0	.	GRCh37	5	82816650	82816650	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2525A>T	p.Asp842Val	p.D842V	ENST00000265077	7/15	120	100	20	140	140	0	VCAN,missense_variant,p.Asp842Val,ENST00000342785,;VCAN,missense_variant,p.Asp842Val,ENST00000265077,;VCAN,missense_variant,p.Asp794Val,ENST00000512590,;VCAN,intron_variant,,ENST00000502527,;VCAN,intron_variant,,ENST00000513960,;VCAN,intron_variant,,ENST00000343200,;VCAN,intron_variant,,ENST00000515397,;	T	ENSG00000038427	ENST00000265077	Transcript	missense_variant	3090	2525	842	D/V	gAc/gTc	COSM421163	.	.	1	VCAN	HGNC	2464	protein_coding	YES	CCDS4060.1	ENSP00000265077	CSPG2_HUMAN	.	UPI000013178B	.	deleterious(0.04)	benign(0.075)	7/15	.	hmmpanther:PTHR22804:SF6,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAAGACATCC	.	4	BLCA
MEF2C	0	.	GRCh37	5	88047694	88047694	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.623C>T	p.Pro208Leu	p.P208L	ENST00000340208	7/12	291	262	29	351	351	0	MEF2C,missense_variant,p.Pro190Leu,ENST00000504921,;MEF2C,missense_variant,p.Pro190Leu,ENST00000510942,;MEF2C,missense_variant,p.Pro190Leu,ENST00000514028,;MEF2C,missense_variant,p.Pro190Leu,ENST00000514015,;MEF2C,missense_variant,p.Pro190Leu,ENST00000506554,;MEF2C,missense_variant,p.Pro208Leu,ENST00000340208,;MEF2C,missense_variant,p.Pro188Leu,ENST00000424173,;MEF2C,missense_variant,p.Pro190Leu,ENST00000437473,;MEF2C,missense_variant,p.Pro190Leu,ENST00000508569,;MEF2C,missense_variant,p.Pro188Leu,ENST00000513252,;MEF2C,missense_variant,p.Pro142Leu,ENST00000539796,;MEF2C,missense_variant,p.Pro188Leu,ENST00000506716,;MEF2C,non_coding_transcript_exon_variant,,ENST00000503554,;MEF2C,upstream_gene_variant,,ENST00000515715,;	A	ENSG00000081189	ENST00000340208	Transcript	missense_variant	1029	623	208	P/L	cCt/cTt	COSM421155,COSM421154,COSM1133745	.	.	-1	MEF2C	HGNC	6996	protein_coding	YES	CCDS54878.1	ENSP00000340874	MEF2C_HUMAN	H0YNI2_HUMAN,D6RJA7_HUMAN,D6RJ95_HUMAN,D6RG14_HUMAN	UPI0000D9B539	.	deleterious(0)	probably_damaging(1)	7/12	.	hmmpanther:PTHR11945:SF25,hmmpanther:PTHR11945	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.R189*|c.565C>T|3	MUTECT|MUSE|VARSCANS	TTGGAGGTCGA	.	3	BLCA
FAM172A	0	.	GRCh37	5	92956665	92956665	+	3'UTR	SNP	G	G	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28C>T	.	.	ENST00000395965	11/11	45	27	18	39	39	0	FAM172A,3_prime_UTR_variant,,ENST00000509739,;FAM172A,3_prime_UTR_variant,,ENST00000505869,;FAM172A,3_prime_UTR_variant,,ENST00000509163,;FAM172A,3_prime_UTR_variant,,ENST00000395965,;MIR2277,upstream_gene_variant,,ENST00000515916,;FAM172A,downstream_gene_variant,,ENST00000502503,;	A	ENSG00000113391	ENST00000395965	Transcript	3_prime_UTR_variant	1422	.	.	.	.	.	.	.	-1	FAM172A	HGNC	25365	protein_coding	YES	CCDS4069.1	ENSP00000379294	F172A_HUMAN	.	UPI000006DF3B	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCAGGGCGGCC	.	4	BLCA
MCTP1	0	.	GRCh37	5	94275893	94275893	+	Silent	SNP	T	T	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068A>T	p.%3D	p.T356T	ENST00000515393	5/23	147	104	43	144	144	0	MCTP1,synonymous_variant,p.%3D,ENST00000505208,;MCTP1,synonymous_variant,p.%3D,ENST00000507214,;MCTP1,synonymous_variant,p.%3D,ENST00000515393,;MCTP1,synonymous_variant,p.%3D,ENST00000512425,;MCTP1,synonymous_variant,p.%3D,ENST00000514780,;MCTP1,synonymous_variant,p.%3D,ENST00000503301,;MCTP1,synonymous_variant,p.%3D,ENST00000429576,;MCTP1,synonymous_variant,p.%3D,ENST00000312216,;MCTP1,synonymous_variant,p.%3D,ENST00000508509,;MCTP1,downstream_gene_variant,,ENST00000510732,;MCTP1,upstream_gene_variant,,ENST00000506568,;MCTP1,downstream_gene_variant,,ENST00000513695,;MCTP1,downstream_gene_variant,,ENST00000512568,;	A	ENSG00000175471	ENST00000515393	Transcript	synonymous_variant	1068	1068	356	T	acA/acT	.	.	.	-1	MCTP1	HGNC	26183	protein_coding	YES	CCDS34203.1	ENSP00000424126	MCTP1_HUMAN	E5RJR1_HUMAN	UPI0000D6165C	.	.	.	5/23	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,hmmpanther:PTHR16122:SF19,hmmpanther:PTHR16122	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ACATCTGTGGG	.	4	BLCA
STXBP5	0	.	GRCh37	6	147704100	147704100	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3380C>G	p.Ser1127Ter	p.S1127*	ENST00000321680	27/28	94	56	38	84	84	0	STXBP5,stop_gained,p.Ser1127Ter,ENST00000321680,;STXBP5,stop_gained,p.Ser1074Ter,ENST00000367480,;STXBP5,stop_gained,p.Ser782Ter,ENST00000179882,;STXBP5,stop_gained,p.Ser1091Ter,ENST00000367481,;RP11-361F15.2,upstream_gene_variant,,ENST00000443556,;	G	ENSG00000164506	ENST00000321680	Transcript	stop_gained	3380	3380	1127	S/*	tCa/tGa	COSM421043,COSM1133751	.	.	1	STXBP5	HGNC	19665	protein_coding	YES	CCDS47499.1	ENSP00000321826	STXB5_HUMAN	.	UPI0000199FE0	.	.	.	27/28	.	Superfamily_domains:SSF58038,Gene3D:1.20.5.110,hmmpanther:PTHR10241,hmmpanther:PTHR10241:SF22,PROSITE_profiles:PS50892	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTATCAAGTG	.	5	BLCA
GINM1	0	.	GRCh37	6	149893469	149893469	+	Missense_Mutation	SNP	T	T	C	rs771172096	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169T>C	p.Ser57Pro	p.S57P	ENST00000367419	2/8	82	57	24	99	99	0	GINM1,missense_variant,p.Ser57Pro,ENST00000367419,;RP1-12G14.6,downstream_gene_variant,,ENST00000435273,;	C	ENSG00000055211	ENST00000367419	Transcript	missense_variant	290	169	57	S/P	Tct/Cct	rs771172096,COSM421040	.	.	1	GINM1	HGNC	21074	protein_coding	YES	CCDS5216.1	ENSP00000356389	GINM1_HUMAN	.	UPI0000049E0C	.	deleterious(0.05)	possibly_damaging(0.742)	2/8	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATATCTAAA	.	5	BLCA
PACRG	0	.	GRCh37	6	163235240	163235240	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218G>A	p.Arg73Gln	p.R73Q	ENST00000337019	3/7	261	217	43	274	274	0	PACRG,missense_variant,p.Arg73Gln,ENST00000366888,;PACRG,missense_variant,p.Arg73Gln,ENST00000337019,;PACRG,missense_variant,p.Arg73Gln,ENST00000366889,;PACRG,upstream_gene_variant,,ENST00000534958,;PACRG,non_coding_transcript_exon_variant,,ENST00000542669,;PACRG,missense_variant,p.Arg20Gln,ENST00000541974,;PACRG,non_coding_transcript_exon_variant,,ENST00000544266,;	A	ENSG00000112530	ENST00000337019	Transcript	missense_variant	442	218	73	R/Q	cGa/cAa	COSM420989	.	.	1	PACRG	HGNC	19152	protein_coding	YES	CCDS5284.1	ENSP00000337946	PACRG_HUMAN	.	UPI00001AE671	.	deleterious(0)	probably_damaging(0.994)	3/7	.	hmmpanther:PTHR21207,Pfam_domain:PF10274	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R73Q|c.218G>A|5	RADIA|MUTECT|MUSE|VARSCANS	ATTTCGAAAAT	.	4	BLCA
LY6G6F	0	.	GRCh37	6	31675681	31675681	+	Frame_Shift_Del	DEL	C	C	-	rs750432305	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420delC	p.Cys141AlafsTer17	p.C141Afs*17	ENST00000375832	3/6	179	139	40	109	109	0	LY6G6F,frameshift_variant,p.Cys141AlafsTer17,ENST00000556581,;LY6G6F,frameshift_variant,p.Cys141AlafsTer17,ENST00000375832,;MEGT1,frameshift_variant,p.Cys141AlafsTer17,ENST00000503322,;XXbac-BPG32J3.20,intron_variant,,ENST00000461287,;ABHD16A,upstream_gene_variant,,ENST00000395952,;LY6G6E,downstream_gene_variant,,ENST00000409239,;LY6G6E,downstream_gene_variant,,ENST00000383418,;LY6G6E,downstream_gene_variant,,ENST00000450147,;LY6G6E,downstream_gene_variant,,ENST00000399142,;ABHD16A,upstream_gene_variant,,ENST00000440843,;ABHD16A,upstream_gene_variant,,ENST00000375842,;ABHD16A,upstream_gene_variant,,ENST00000538874,;ABHD16A,upstream_gene_variant,,ENST00000498420,;ABHD16A,upstream_gene_variant,,ENST00000492084,;ABHD16A,upstream_gene_variant,,ENST00000482224,;ABHD16A,upstream_gene_variant,,ENST00000477462,;ABHD16A,upstream_gene_variant,,ENST00000468037,;ABHD16A,upstream_gene_variant,,ENST00000495769,;	-	ENSG00000204424	ENST00000375832	Transcript	frameshift_variant	438	416	139	S/X	tCc/tc	rs750432305	.	.	1	LY6G6F	HGNC	13933	protein_coding	YES	CCDS34403.1	ENSP00000364992	LY66F_HUMAN	.	UPI00001B2976	.	.	.	3/6	.	hmmpanther:PTHR32286	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATGGATCCCCCT	byFrequency	3	BLCA
TREML3P	0	.	GRCh37	6	41184905	41184905	+	RNA	SNP	C	C	T	rs61735685	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.393G>A	.	.	ENST00000332842	3/6	136	76	60	169	169	0	TREML3P,non_coding_transcript_exon_variant,,ENST00000564680,;TREML3P,non_coding_transcript_exon_variant,,ENST00000332842,;TREML3P,non_coding_transcript_exon_variant,,ENST00000457327,;	T	ENSG00000184106	ENST00000332842	Transcript	non_coding_transcript_exon_variant	393	.	.	.	.	rs61735685	.	.	-1	TREML3P	HGNC	30806	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	3/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGACGTGGT	.	5	BLCA
TTBK1	0	.	GRCh37	6	43226925	43226925	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1166T>C	p.Val389Ala	p.V389A	ENST00000259750	11/15	97	87	10	130	130	0	TTBK1,missense_variant,p.Val338Ala,ENST00000304139,;TTBK1,missense_variant,p.Val389Ala,ENST00000259750,;	C	ENSG00000146216	ENST00000259750	Transcript	missense_variant	1249	1166	389	V/A	gTc/gCc	COSM421298	.	.	1	TTBK1	HGNC	19140	protein_coding	YES	CCDS34455.1	ENSP00000259750	TTBK1_HUMAN	.	UPI000041512B	.	.	benign(0.002)	11/15	.	hmmpanther:PTHR11909:SF92,hmmpanther:PTHR11909	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTTGTCCCCC	.	3	BLCA
TMEM30A	0	.	GRCh37	6	75977363	75977363	+	Silent	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339A>G	p.%3D	p.S113S	ENST00000230461	2/7	222	185	36	240	240	0	TMEM30A,synonymous_variant,p.%3D,ENST00000230461,;TMEM30A,5_prime_UTR_variant,,ENST00000370050,;TMEM30A,5_prime_UTR_variant,,ENST00000518161,;TMEM30A,intron_variant,,ENST00000475111,;	C	ENSG00000112697	ENST00000230461	Transcript	synonymous_variant	669	339	113	S	tcA/tcG	COSM421233	.	.	-1	TMEM30A	HGNC	16667	protein_coding	YES	CCDS4983.1	ENSP00000230461	CC50A_HUMAN	E5RG19_HUMAN	UPI0000071AE1	.	.	.	2/7	.	hmmpanther:PTHR10926,hmmpanther:PTHR10926:SF17,Pfam_domain:PF03381,PIRSF_domain:PIRSF015840	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAAATGACTT	.	4	BLCA
TTK	0	.	GRCh37	6	80723066	80723066	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967G>T	p.Glu323Ter	p.E323*	ENST00000369798	9/22	187	138	49	216	216	0	TTK,stop_gained,p.Glu323Ter,ENST00000509894,;TTK,stop_gained,p.Glu323Ter,ENST00000230510,;TTK,stop_gained,p.Glu323Ter,ENST00000369798,;TTK,downstream_gene_variant,,ENST00000511260,;TTK,downstream_gene_variant,,ENST00000502580,;TTK,downstream_gene_variant,,ENST00000504040,;TTK,upstream_gene_variant,,ENST00000515751,;TTK,downstream_gene_variant,,ENST00000430061,;TTK,downstream_gene_variant,,ENST00000509313,;	T	ENSG00000112742	ENST00000369798	Transcript	stop_gained	1078	967	323	E/*	Gaa/Taa	COSM421225,COSM1133788	.	.	1	TTK	HGNC	12401	protein_coding	YES	CCDS4993.1	ENSP00000358813	TTK_HUMAN	D6RIC6_HUMAN,D6RF82_HUMAN,D6REX1_HUMAN	UPI0000073C7B	.	.	.	9/22	.	hmmpanther:PTHR22974:SF21,hmmpanther:PTHR22974	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGTGAATTA	.	5	BLCA
UFL1	0	.	GRCh37	6	96990871	96990871	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1381G>A	p.Glu461Lys	p.E461K	ENST00000369278	12/19	147	98	49	155	155	0	UFL1,missense_variant,p.Glu461Lys,ENST00000369278,;	A	ENSG00000014123	ENST00000369278	Transcript	missense_variant	1447	1381	461	E/K	Gaa/Aaa	COSM421198	.	.	1	UFL1	HGNC	23039	protein_coding	YES	CCDS5034.1	ENSP00000358283	UFL1_HUMAN	B7ZAY8_HUMAN	UPI0000072D61	.	deleterious(0.04)	possibly_damaging(0.493)	12/19	.	hmmpanther:PTHR31057,hmmpanther:PTHR31057:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATGAATCT	.	5	BLCA
NAT16	0	.	GRCh37	7	100817986	100817986	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103G>A	p.Glu35Lys	p.E35K	ENST00000300303	2/4	153	131	22	148	148	0	NAT16,missense_variant,p.Glu35Lys,ENST00000444446,;NAT16,missense_variant,p.Glu35Lys,ENST00000455377,;NAT16,missense_variant,p.Glu35Lys,ENST00000443096,;NAT16,missense_variant,p.Glu35Lys,ENST00000300303,;	T	ENSG00000167011	ENST00000300303	Transcript	missense_variant	342	103	35	E/K	Gag/Aag	COSM421658	.	.	-1	NAT16	HGNC	22030	protein_coding	YES	CCDS5713.1	ENSP00000300303	NAT16_HUMAN	C9JB11_HUMAN	UPI000013E649	.	tolerated(0.52)	benign(0.015)	2/4	.	hmmpanther:PTHR23091,hmmpanther:PTHR23091:SF189	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E35K|c.103G>A|3	RADIA|MUTECT|MUSE|VARSCANS	CACCTCCTGTG	.	4	BLCA
TFEC	0	.	GRCh37	7	115596823	115596823	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292T>A	p.Tyr98Asn	p.Y98N	ENST00000265440	4/8	99	63	36	92	92	0	TFEC,missense_variant,p.Tyr31Asn,ENST00000457268,;TFEC,missense_variant,p.Tyr69Asn,ENST00000320239,;TFEC,missense_variant,p.Tyr69Asn,ENST00000393485,;TFEC,missense_variant,p.Tyr188Asn,ENST00000484212,;TFEC,missense_variant,p.Tyr98Asn,ENST00000265440,;TFEC,non_coding_transcript_exon_variant,,ENST00000497829,;	T	ENSG00000105967	ENST00000265440	Transcript	missense_variant	473	292	98	Y/N	Tat/Aat	COSM421632	.	.	-1	TFEC	HGNC	11754	protein_coding	YES	CCDS5762.1	ENSP00000265440	TFEC_HUMAN	Q75MG2_HUMAN,Q75KY0_HUMAN	UPI000006CC81	.	deleterious(0)	probably_damaging(0.999)	4/8	.	hmmpanther:PTHR10014:SF13,hmmpanther:PTHR10014	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATACACAT	.	5	BLCA
SMO	0	.	GRCh37	7	128850949	128850949	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1796C>A	p.Pro599His	p.P599H	ENST00000249373	10/12	133	95	37	132	132	0	SMO,missense_variant,p.Pro599His,ENST00000249373,;RP11-286H14.8,intron_variant,,ENST00000466717,;SMO,missense_variant,p.Pro62His,ENST00000475779,;SMO,3_prime_UTR_variant,,ENST00000462420,;SMO,downstream_gene_variant,,ENST00000495998,;	A	ENSG00000128602	ENST00000249373	Transcript	missense_variant	2076	1796	599	P/H	cCc/cAc	COSM421601	.	.	1	SMO	HGNC	11119	protein_coding	YES	CCDS5811.1	ENSP00000249373	SMO_HUMAN	A4D1K5_HUMAN	UPI0000050447	.	deleterious(0)	probably_damaging(0.992)	10/12	.	hmmpanther:PTHR11309,hmmpanther:PTHR11309:SF35	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGGCCCGTGG	.	5	BLCA
TTC26	0	.	GRCh37	7	138822608	138822608	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157G>A	p.Gly53Arg	p.G53R	ENST00000464848	3/18	149	116	33	131	131	0	TTC26,missense_variant,p.Gly53Arg,ENST00000430935,;TTC26,missense_variant,p.Gly53Arg,ENST00000495038,;TTC26,missense_variant,p.Gly53Arg,ENST00000478836,;TTC26,missense_variant,p.Gly53Arg,ENST00000474035,;TTC26,missense_variant,p.Gly53Arg,ENST00000464848,;TTC26,intron_variant,,ENST00000343187,;TTC26,non_coding_transcript_exon_variant,,ENST00000468866,;TTC26,non_coding_transcript_exon_variant,,ENST00000481482,;TTC26,non_coding_transcript_exon_variant,,ENST00000479132,;TTC26,missense_variant,p.Gly53Arg,ENST00000476296,;	A	ENSG00000105948	ENST00000464848	Transcript	missense_variant	237	157	53	G/R	Ggg/Agg	COSM421582	.	.	1	TTC26	HGNC	21882	protein_coding	YES	CCDS5852.1	ENSP00000419279	TTC26_HUMAN	B7Z1H0_HUMAN	UPI000020FBAD	.	deleterious(0.02)	possibly_damaging(0.516)	3/18	.	hmmpanther:PTHR14781,hmmpanther:PTHR14781:SF0,Gene3D:1.25.40.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTTGGGGAA	.	5	BLCA
TRPV5	0	.	GRCh37	7	142622811	142622811	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.935C>T	p.Pro312Leu	p.P312L	ENST00000265310	8/15	43	37	6	55	55	0	TRPV5,missense_variant,p.Pro312Leu,ENST00000442623,;TRPV5,missense_variant,p.Pro257Leu,ENST00000439304,;TRPV5,missense_variant,p.Pro312Leu,ENST00000265310,;	A	ENSG00000127412	ENST00000265310	Transcript	missense_variant	1284	935	312	P/L	cCa/cTa	COSM421570	.	.	-1	TRPV5	HGNC	3145	protein_coding	YES	CCDS5875.1	ENSP00000265310	TRPV5_HUMAN	Q9H480_HUMAN	UPI0000052B76	.	deleterious(0)	probably_damaging(1)	8/15	.	hmmpanther:PTHR10582:SF11,hmmpanther:PTHR10582,TIGRFAM_domain:TIGR00870	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCACTGGGGTC	.	2	BLCA
YAE1D1	0	.	GRCh37	7	39612007	39612007	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.383C>G	p.Ser128Cys	p.S128C	ENST00000223273	3/3	173	127	46	193	193	0	YAE1D1,missense_variant,p.Ser128Cys,ENST00000223273,;YAE1D1,3_prime_UTR_variant,,ENST00000448268,;YAE1D1,intron_variant,,ENST00000432096,;YAE1D1,downstream_gene_variant,,ENST00000469737,;YAE1D1,non_coding_transcript_exon_variant,,ENST00000485025,;YAE1D1,downstream_gene_variant,,ENST00000474392,;AC011290.5,upstream_gene_variant,,ENST00000438427,;	G	ENSG00000241127	ENST00000223273	Transcript	missense_variant	426	383	128	S/C	tCc/tGc	COSM421457	.	.	1	YAE1D1	HGNC	24857	protein_coding	YES	CCDS5459.1	ENSP00000223273	YAED1_HUMAN	.	UPI0000074023	.	deleterious(0)	benign(0.312)	3/3	.	hmmpanther:PTHR18829,hmmpanther:PTHR18829:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCGTCCCATG	.	5	BLCA
GCK	0	.	GRCh37	7	44190672	44190672	+	Silent	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369C>T	p.%3D	p.L123L	ENST00000345378	4/10	78	47	30	67	67	0	GCK,synonymous_variant,p.%3D,ENST00000345378,;GCK,synonymous_variant,p.%3D,ENST00000403799,;GCK,synonymous_variant,p.%3D,ENST00000395796,;GCK,intron_variant,,ENST00000437084,;GCK,upstream_gene_variant,,ENST00000336642,;GCK,upstream_gene_variant,,ENST00000473353,;GCK,downstream_gene_variant,,ENST00000476008,;GCK,upstream_gene_variant,,ENST00000459642,;	A	ENSG00000106633	ENST00000345378	Transcript	synonymous_variant	531	369	123	L	ctC/ctT	COSM421440,COSM421441	.	.	-1	GCK	HGNC	4195	protein_coding	YES	CCDS5480.1	ENSP00000223366	HXK4_HUMAN	M4PS83_HUMAN,M4PPE1_HUMAN	UPI000002AB76	.	.	.	4/10	.	hmmpanther:PTHR19443,hmmpanther:PTHR19443:SF3,Gene3D:3.30.420.40,Pfam_domain:PF00349,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F123F|c.369C>T|3,BUFFER|p.F124F|c.372C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGAAGAGCTG	.	5	BLCA
GTF2IRD2P1	0	.	GRCh37	7	72657445	72657445	+	RNA	SNP	C	C	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2467G>T	.	.	ENST00000425256	13/13	120	84	36	141	141	0	GTF2IRD2P1,non_coding_transcript_exon_variant,,ENST00000425256,;	A	ENSG00000214544	ENST00000425256	Transcript	non_coding_transcript_exon_variant	2467	.	.	.	.	.	.	.	-1	GTF2IRD2P1	HGNC	33127	processed_transcript	YES	.	.	.	.	.	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TGGTGCTTGTA	.	2	BLCA
TRHR	0	.	GRCh37	8	110100523	110100523	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.782G>A	p.Arg261Lys	p.R261K	ENST00000518632	2/3	65	48	16	45	45	0	TRHR,missense_variant,p.Arg261Lys,ENST00000311762,;TRHR,missense_variant,p.Arg261Lys,ENST00000518632,;	A	ENSG00000174417	ENST00000518632	Transcript	missense_variant	1133	782	261	R/K	aGg/aAg	COSM421779	.	.	1	TRHR	HGNC	12299	protein_coding	YES	CCDS6311.1	ENSP00000430711	TRFR_HUMAN	.	UPI0000050437	.	deleterious(0.02)	possibly_damaging(0.897)	2/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24243:SF115,hmmpanther:PTHR24243,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01846,Prints_domain:PR00751	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCAAGGAAGC	.	5	BLCA
CSMD3	0	.	GRCh37	8	113657416	113657416	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3232A>G	p.Ile1078Val	p.I1078V	ENST00000297405	20/71	79	52	26	72	72	0	CSMD3,missense_variant,p.Ile1078Val,ENST00000352409,;CSMD3,missense_variant,p.Ile974Val,ENST00000455883,;CSMD3,missense_variant,p.Ile1078Val,ENST00000297405,;CSMD3,missense_variant,p.Ile418Val,ENST00000339701,;CSMD3,missense_variant,p.Ile1038Val,ENST00000343508,;MIR2053,downstream_gene_variant,,ENST00000459295,;	C	ENSG00000164796	ENST00000297405	Transcript	missense_variant	3477	3232	1078	I/V	Atc/Gtc	COSM421767,COSM1133823	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	tolerated(0.27)	benign(0.155)	20/71	.	PROSITE_profiles:PS01180,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGATTGTTC	.	5	BLCA
HAS2	0	.	GRCh37	8	122626275	122626275	+	3'UTR	SNP	G	G	A	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*74C>T	.	.	ENST00000303924	4/4	66	50	16	56	56	0	HAS2,3_prime_UTR_variant,,ENST00000303924,;	A	ENSG00000170961	ENST00000303924	Transcript	3_prime_UTR_variant	2271	.	.	.	.	.	.	.	-1	HAS2	HGNC	4819	protein_coding	YES	CCDS6335.1	ENSP00000306991	HYAS2_HUMAN	.	UPI000012C0A9	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATCTGATGCC	.	4	BLCA
DOCK5	0	.	GRCh37	8	25234819	25234819	+	Splice_Site	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3817-2A>G	.	p.X1273_splice	ENST00000276440	.	48	26	22	55	55	0	DOCK5,splice_acceptor_variant,,ENST00000276440,;DOCK5,downstream_gene_variant,,ENST00000444569,;DOCK5,splice_acceptor_variant,,ENST00000467709,;	G	ENSG00000147459	ENST00000276440	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM422168	.	.	1	DOCK5	HGNC	23476	protein_coding	YES	CCDS6047.1	ENSP00000276440	DOCK5_HUMAN	.	UPI000022D4F3	.	.	.	.	37/51	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTCAGTGGT	.	5	BLCA
SCARA3	0	.	GRCh37	8	27516466	27516466	+	Missense_Mutation	SNP	G	G	A	rs756667575	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.779G>A	p.Arg260Gln	p.R260Q	ENST00000301904	5/6	42	27	15	62	62	0	SCARA3,missense_variant,p.Arg260Gln,ENST00000337221,;SCARA3,missense_variant,p.Arg260Gln,ENST00000301904,;	A	ENSG00000168077	ENST00000301904	Transcript	missense_variant	799	779	260	R/Q	cGg/cAg	rs756667575,COSM422164	.	.	1	SCARA3	HGNC	19000	protein_coding	YES	CCDS34871.1	ENSP00000301904	SCAR3_HUMAN	.	UPI00001B94D8	.	tolerated(0.47)	benign(0.11)	5/6	.	hmmpanther:PTHR24637,hmmpanther:PTHR24637:SF210	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACACGGCTCT	.	5	BLCA
TUBBP1	0	.	GRCh37	8	30209778	30209778	+	RNA	SNP	T	T	C	novel	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.390T>C	.	.	ENST00000518096	1/1	155	100	55	204	204	0	TUBBP1,non_coding_transcript_exon_variant,,ENST00000518096,;TUBBP1,non_coding_transcript_exon_variant,,ENST00000248151,;CTD-3107M8.2,upstream_gene_variant,,ENST00000519658,;	C	ENSG00000127589	ENST00000518096	Transcript	non_coding_transcript_exon_variant	390	.	.	.	.	.	.	.	1	TUBBP1	HGNC	12414	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTTTAGACC	.	5	BLCA
ADHFE1	0	.	GRCh37	8	67357551	67357551	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.452T>A	p.Leu151Gln	p.L151Q	ENST00000396623	6/14	266	256	10	232	232	0	ADHFE1,missense_variant,p.Leu103Gln,ENST00000415254,;ADHFE1,missense_variant,p.Leu151Gln,ENST00000396623,;ADHFE1,missense_variant,p.Leu151Gln,ENST00000379385,;ADHFE1,missense_variant,p.Leu86Gln,ENST00000523113,;ADHFE1,non_coding_transcript_exon_variant,,ENST00000496501,;ADHFE1,downstream_gene_variant,,ENST00000518781,;ADHFE1,missense_variant,p.Leu151Gln,ENST00000424777,;ADHFE1,3_prime_UTR_variant,,ENST00000449512,;ADHFE1,3_prime_UTR_variant,,ENST00000426810,;ADHFE1,3_prime_UTR_variant,,ENST00000276576,;ADHFE1,3_prime_UTR_variant,,ENST00000431959,;ADHFE1,intron_variant,,ENST00000422166,;ADHFE1,intron_variant,,ENST00000443372,;ADHFE1,intron_variant,,ENST00000419955,;ADHFE1,intron_variant,,ENST00000396621,;ADHFE1,downstream_gene_variant,,ENST00000466920,;ADHFE1,downstream_gene_variant,,ENST00000463261,;	A	ENSG00000147576	ENST00000396623	Transcript	missense_variant	483	452	151	L/Q	cTg/cAg	COSM422080,COSM422079	.	.	1	ADHFE1	HGNC	16354	protein_coding	YES	CCDS6190.2	ENSP00000379865	HOT_HUMAN	E5RFL4_HUMAN	UPI000004966C	.	deleterious(0)	probably_damaging(0.998)	6/14	.	hmmpanther:PTHR11496:SF62,hmmpanther:PTHR11496,Gene3D:3.40.50.1970,Pfam_domain:PF00465,Superfamily_domains:SSF56796	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAATCTGTATG	.	2	BLCA
PRDM14	0	.	GRCh37	8	70981498	70981498	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>C	p.Glu200Gln	p.E200Q	ENST00000276594	2/8	128	86	42	136	136	0	PRDM14,missense_variant,p.Glu200Gln,ENST00000276594,;PRDM14,downstream_gene_variant,,ENST00000426346,;	G	ENSG00000147596	ENST00000276594	Transcript	missense_variant	800	598	200	E/Q	Gag/Cag	COSM422069	.	.	-1	PRDM14	HGNC	14001	protein_coding	YES	CCDS6206.1	ENSP00000276594	PRD14_HUMAN	C9JMM8_HUMAN	UPI0000132186	.	deleterious(0.02)	probably_damaging(0.994)	2/8	.	hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF354	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCCTCCG	.	5	BLCA
DCAF4L2	0	.	GRCh37	8	88885212	88885212	+	Missense_Mutation	SNP	C	C	A	rs762130958	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988G>T	p.Ala330Ser	p.A330S	ENST00000319675	1/1	111	77	34	83	83	0	DCAF4L2,missense_variant,p.Ala330Ser,ENST00000319675,;	A	ENSG00000176566	ENST00000319675	Transcript	missense_variant	1085	988	330	A/S	Gcg/Tcg	rs762130958,COSM422045	.	.	-1	DCAF4L2	HGNC	26657	protein_coding	YES	CCDS6245.1	ENSP00000316496	DC4L2_HUMAN	Q8N7W3_HUMAN	UPI0000072860	.	tolerated(0.13)	benign(0.017)	1/1	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50294,hmmpanther:PTHR22847:SF401,hmmpanther:PTHR22847,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCGCCACGA	byFrequency	5	BLCA
TMEM67	0	.	GRCh37	8	94827619	94827619	+	Missense_Mutation	SNP	G	G	A	rs776836757	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2851G>A	p.Asp951Asn	p.D951N	ENST00000453321	27/28	106	83	22	93	93	0	TMEM67,missense_variant,p.Asp870Asn,ENST00000409623,;TMEM67,missense_variant,p.Asp951Asn,ENST00000453321,;TMEM67,non_coding_transcript_exon_variant,,ENST00000518896,;TMEM67,upstream_gene_variant,,ENST00000463467,;TMEM67,missense_variant,p.Asp941Asn,ENST00000323130,;TMEM67,non_coding_transcript_exon_variant,,ENST00000519845,;	A	ENSG00000164953	ENST00000453321	Transcript	missense_variant	2909	2851	951	D/N	Gat/Aat	rs776836757	.	.	1	TMEM67	HGNC	28396	protein_coding	YES	CCDS6258.2	ENSP00000389998	MKS3_HUMAN	E5RG10_HUMAN,C9JRQ8_HUMAN	UPI0000D624E9	.	deleterious(0.01)	probably_damaging(0.988)	27/28	.	hmmpanther:PTHR21274:SF0,hmmpanther:PTHR21274,Pfam_domain:PF09773	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTGGATTTG	.	5	BLCA
RABEPK	0	.	GRCh37	9	127996239	127996239	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099A>G	p.Ile367Val	p.I367V	ENST00000373538	8/8	337	230	107	339	339	0	RABEPK,missense_variant,p.Ile367Val,ENST00000373538,;RABEPK,missense_variant,p.Ile316Val,ENST00000259460,;RABEPK,missense_variant,p.Ile367Val,ENST00000394125,;RABEPK,3_prime_UTR_variant,,ENST00000394124,;HSPA5,downstream_gene_variant,,ENST00000324460,;	G	ENSG00000136933	ENST00000373538	Transcript	missense_variant	1409	1099	367	I/V	Att/Gtt	COSM421966	.	.	1	RABEPK	HGNC	16896	protein_coding	YES	CCDS6862.1	ENSP00000362639	RABEK_HUMAN	.	UPI000013D058	.	tolerated(0.33)	benign(0.002)	8/8	.	hmmpanther:PTHR23244:SF257,hmmpanther:PTHR23244	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTGTATTGTG	.	5	BLCA
C9orf50	0	.	GRCh37	9	132375441	132375441	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1133A>G	p.Gln378Arg	p.Q378R	ENST00000372478	6/7	158	115	43	134	134	0	C9orf50,missense_variant,p.Gln378Arg,ENST00000372478,;NTMT1,intron_variant,,ENST00000372486,;	C	ENSG00000179058	ENST00000372478	Transcript	missense_variant	1335	1133	378	Q/R	cAg/cGg	COSM421938	.	.	-1	C9orf50	HGNC	23677	protein_coding	YES	CCDS35159.1	ENSP00000361556	CI050_HUMAN	.	UPI00001D76F7	.	tolerated(0.96)	benign(0.446)	6/7	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTCTGAGCA	.	5	BLCA
LAMC3	0	.	GRCh37	9	133911631	133911631	+	Silent	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888C>T	p.%3D	p.T296T	ENST00000361069	4/28	133	98	34	140	140	0	LAMC3,synonymous_variant,p.%3D,ENST00000361069,;LAMC3,non_coding_transcript_exon_variant,,ENST00000480883,;	T	ENSG00000050555	ENST00000361069	Transcript	synonymous_variant	1021	888	296	T	acC/acT	COSM421927	.	.	1	LAMC3	HGNC	6494	protein_coding	YES	CCDS6938.1	ENSP00000354360	LAMC3_HUMAN	Q5JTC4_HUMAN	UPI000013D6D3	.	.	.	4/28	.	Superfamily_domains:SSF57196,SMART_domains:SM00180,Gene3D:2.10.25.10,Pfam_domain:PF00053,PROSITE_patterns:PS01248,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF240,PROSITE_profiles:PS50027	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACACCACCGG	.	5	BLCA
FCN2	0	.	GRCh37	9	137777143	137777143	+	Silent	SNP	C	C	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.360C>A	p.%3D	p.T120T	ENST00000291744	5/8	62	48	14	45	45	0	FCN2,synonymous_variant,p.%3D,ENST00000291744,;FCN2,synonymous_variant,p.%3D,ENST00000350339,;	A	ENSG00000160339	ENST00000291744	Transcript	synonymous_variant	370	360	120	T	acC/acA	COSM422457	.	.	1	FCN2	HGNC	3624	protein_coding	YES	CCDS6983.1	ENSP00000291744	FCN2_HUMAN	.	UPI000013E075	.	.	.	5/8	.	Superfamily_domains:SSF56496,SMART_domains:SM00186,Gene3D:3.90.215.10,Pfam_domain:PF00147,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF179,PROSITE_profiles:PS51406	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACACCATCTA	.	5	BLCA
NOTCH1	0	.	GRCh37	9	139396836	139396836	+	Missense_Mutation	SNP	G	G	T	rs777859108	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5272C>A	p.Arg1758Ser	p.R1758S	ENST00000277541	28/34	44	40	3	34	34	0	NOTCH1,missense_variant,p.Arg1758Ser,ENST00000277541,;NOTCH1,downstream_gene_variant,,ENST00000494783,;	T	ENSG00000148400	ENST00000277541	Transcript	missense_variant	5348	5272	1758	R/S	Cgc/Agc	rs777859108,COSM422441,COSM422440	.	.	-1	NOTCH1	HGNC	7881	protein_coding	YES	CCDS43905.1	ENSP00000277541	NOTC1_HUMAN	H9CXX2_HUMAN	UPI0000210F68	.	deleterious(0.04)	possibly_damaging(0.877)	28/34	.	hmmpanther:PTHR24033:SF37,hmmpanther:PTHR24033,PIRSF_domain:PIRSF002279	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTGCGGGACA	.	2	BLCA
KIAA2026	0	.	GRCh37	9	6007430	6007430	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358C>T	p.Arg120Cys	p.R120C	ENST00000399933	1/8	26	23	3	23	23	0	KIAA2026,missense_variant,p.Arg120Cys,ENST00000513355,;KIAA2026,missense_variant,p.Arg120Cys,ENST00000381461,;KIAA2026,missense_variant,p.Arg120Cys,ENST00000399933,;RANBP6,downstream_gene_variant,,ENST00000259569,;MIR4665,upstream_gene_variant,,ENST00000581132,;	A	ENSG00000183354	ENST00000399933	Transcript	missense_variant	358	358	120	R/C	Cgc/Tgc	COSM422355	.	.	-1	KIAA2026	HGNC	23378	protein_coding	YES	.	ENSP00000382815	K2026_HUMAN	.	UPI0001533DB0	.	tolerated_low_confidence(0.17)	possibly_damaging(0.556)	1/8	.	Gene3D:1.20.920.10,hmmpanther:PTHR31095:SF2,hmmpanther:PTHR31095	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGCGCGGCC	.	2	BLCA
ZCCHC6	0	.	GRCh37	9	88953842	88953842	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1231G>A	p.Ala411Thr	p.A411T	ENST00000375963	9/27	81	65	16	76	76	0	ZCCHC6,missense_variant,p.Ala411Thr,ENST00000375961,;ZCCHC6,missense_variant,p.Ala411Thr,ENST00000375963,;ZCCHC6,missense_variant,p.Ala49Thr,ENST00000375948,;ZCCHC6,5_prime_UTR_variant,,ENST00000277141,;ZCCHC6,intron_variant,,ENST00000375960,;	T	ENSG00000083223	ENST00000375963	Transcript	missense_variant	1404	1231	411	A/T	Gca/Aca	COSM422324	.	.	-1	ZCCHC6	HGNC	25817	protein_coding	YES	CCDS35057.1	ENSP00000365130	TUT7_HUMAN	.	UPI00004588F6	.	tolerated(0.06)	probably_damaging(1)	9/27	.	hmmpanther:PTHR12271:SF34,hmmpanther:PTHR12271,Gene3D:3.30.460.10,Superfamily_domains:SSF81301	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGCGCTCA	.	5	BLCA
ZMAT1	0	.	GRCh37	X	101138751	101138751	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1648G>A	p.Glu550Lys	p.E550K	ENST00000372782	7/7	137	64	73	151	151	0	ZMAT1,missense_variant,p.Glu379Lys,ENST00000458570,;ZMAT1,missense_variant,p.Glu550Lys,ENST00000540921,;ZMAT1,missense_variant,p.Glu550Lys,ENST00000372782,;ZMAT1,non_coding_transcript_exon_variant,,ENST00000494068,;ZMAT1,non_coding_transcript_exon_variant,,ENST00000488347,;ZMAT1,downstream_gene_variant,,ENST00000490757,;	T	ENSG00000166432	ENST00000372782	Transcript	missense_variant	1696	1648	550	E/K	Gaa/Aaa	COSM422288,COSM422287	.	.	-1	ZMAT1	HGNC	29377	protein_coding	YES	CCDS35348.1	ENSP00000361868	ZMAT1_HUMAN	.	UPI0000198414	.	tolerated(0.07)	possibly_damaging(0.637)	7/7	.	hmmpanther:PTHR23067,hmmpanther:PTHR23067:SF14	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCTTTGC	.	5	BLCA
ZMAT1	0	.	GRCh37	X	101141649	101141649	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560T>C	p.Leu187Ser	p.L187S	ENST00000372782	6/7	41	20	21	58	58	0	ZMAT1,missense_variant,p.Leu16Ser,ENST00000458570,;ZMAT1,missense_variant,p.Leu187Ser,ENST00000540921,;ZMAT1,missense_variant,p.Leu187Ser,ENST00000372782,;ZMAT1,non_coding_transcript_exon_variant,,ENST00000494068,;ZMAT1,non_coding_transcript_exon_variant,,ENST00000488347,;ZMAT1,non_coding_transcript_exon_variant,,ENST00000490757,;	G	ENSG00000166432	ENST00000372782	Transcript	missense_variant	608	560	187	L/S	tTa/tCa	COSM422286,COSM422285	.	.	-1	ZMAT1	HGNC	29377	protein_coding	YES	CCDS35348.1	ENSP00000361868	ZMAT1_HUMAN	.	UPI0000198414	.	tolerated(0.1)	benign(0.21)	6/7	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,SMART_domains:SM00451,Pfam_domain:PF12874,PROSITE_patterns:PS00028,hmmpanther:PTHR23067,hmmpanther:PTHR23067:SF14	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTAAAGAT	.	5	BLCA
NXF3	0	.	GRCh37	X	102348006	102348006	+	5'UTR	SNP	G	G	A	rs754027410	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-55C>T	.	.	ENST00000395065	1/20	75	35	40	77	77	0	NXF3,5_prime_UTR_variant,,ENST00000425463,;NXF3,5_prime_UTR_variant,,ENST00000425644,;NXF3,5_prime_UTR_variant,,ENST00000395065,;LL0XNC01-221F2.2,downstream_gene_variant,,ENST00000440243,;	A	ENSG00000147206	ENST00000395065	Transcript	5_prime_UTR_variant	48	.	.	.	.	rs754027410	.	.	-1	NXF3	HGNC	8073	protein_coding	YES	CCDS14503.1	ENSP00000378504	NXF3_HUMAN	.	UPI00000015F8	.	.	.	1/20	.	.	T:0.0003	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GGGACGGGAGT	by1000G	4	BLCA
FUNDC1	0	.	GRCh37	X	44401284	44401284	+	Missense_Mutation	SNP	T	T	C	rs760326817	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.92A>G	p.Gln31Arg	p.Q31R	ENST00000378045	2/5	15	8	7	26	26	0	FUNDC1,missense_variant,p.Gln31Arg,ENST00000378045,;FUNDC1,non_coding_transcript_exon_variant,,ENST00000483115,;	C	ENSG00000069509	ENST00000378045	Transcript	missense_variant	261	92	31	Q/R	cAg/cGg	rs760326817,COSM422564	.	.	-1	FUNDC1	HGNC	28746	protein_coding	YES	CCDS14263.1	ENSP00000367284	FUND1_HUMAN	.	UPI000004A05A	.	tolerated(0.37)	benign(0.003)	2/5	.	hmmpanther:PTHR21346:SF2,hmmpanther:PTHR21346	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCACTGGTGT	.	5	BLCA
PCDH11X	0	.	GRCh37	X	91132785	91132785	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-CU-A0YN-01A-21D-A10S-08	TCGA-CU-A0YN-11A-11D-A10S-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1546G>C	p.Asp516His	p.D516H	ENST00000373094	2/7	61	26	35	61	61	0	PCDH11X,missense_variant,p.Asp516His,ENST00000373088,;PCDH11X,missense_variant,p.Asp516His,ENST00000361724,;PCDH11X,missense_variant,p.Asp516His,ENST00000395337,;PCDH11X,missense_variant,p.Asp516His,ENST00000298274,;PCDH11X,missense_variant,p.Asp516His,ENST00000504220,;PCDH11X,missense_variant,p.Asp516His,ENST00000406881,;PCDH11X,missense_variant,p.Asp516His,ENST00000373094,;PCDH11X,missense_variant,p.Asp516His,ENST00000373097,;PCDH11X,missense_variant,p.Asp516His,ENST00000361655,;	C	ENSG00000102290	ENST00000373094	Transcript	missense_variant	2391	1546	516	D/H	Gat/Cat	COSM422470,COSM4111545,COSM4111549,COSM4111548,COSM4111547,COSM1133871,COSM4111546	.	.	1	PCDH11X	HGNC	8656	protein_coding	YES	CCDS14461.1	ENSP00000362186	PC11X_HUMAN	Q70LT5_HUMAN,Q70LT4_HUMAN	UPI0000070BD8	.	deleterious(0.02)	probably_damaging(1)	2/7	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF15,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTGGATTGT	.	5	BLCA
C10ORF68	0	.	GRCh37	10	33165338	33165338	+	3'UTR	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*17G>A	.	.	ENST00000302316	22/23	34	25	9	18	18	0	C10ORF68,3_prime_UTR_variant,,ENST00000375028,;C10ORF68,3_prime_UTR_variant,,ENST00000375030,;C10ORF68,downstream_gene_variant,,ENST00000375025,;C10ORF68,3_prime_UTR_variant,,ENST00000302316,;	A	ENSG00000150076	ENST00000302316	Transcript	3_prime_UTR_variant	2377	.	.	.	.	.	.	.	1	C10ORF68	Uniprot_gn	.	nonsense_mediated_decay	YES	CCDS31177.1	ENSP00000303710	CJ068_HUMAN	.	UPI000049DCE8	.	.	.	22/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTGAGCAA	.	5	BLCA
AIFM2	0	.	GRCh37	10	71873971	71873971	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1085C>G	p.Ser362Cys	p.S362C	ENST00000307864	9/9	61	44	16	73	73	0	AIFM2,missense_variant,p.Ser362Cys,ENST00000307864,;AIFM2,missense_variant,p.Ser362Cys,ENST00000373248,;H2AFY2,downstream_gene_variant,,ENST00000373255,;AIFM2,downstream_gene_variant,,ENST00000482166,;	C	ENSG00000042286	ENST00000307864	Transcript	missense_variant	1299	1085	362	S/C	tCt/tGt	.	.	.	-1	AIFM2	HGNC	21411	protein_coding	YES	CCDS7297.1	ENSP00000312370	AIFM2_HUMAN	.	UPI000003F07F	.	tolerated(0.08)	possibly_damaging(0.682)	9/9	.	hmmpanther:PTHR22915:SF5,hmmpanther:PTHR22915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGTAGAGACG	.	5	BLCA
ARNTL	0	.	GRCh37	11	13399940	13399940	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1468G>A	p.Gly490Arg	p.G490R	ENST00000389707	17/20	11	6	5	11	11	0	ARNTL,missense_variant,p.Gly447Arg,ENST00000403510,;ARNTL,missense_variant,p.Gly373Arg,ENST00000361003,;ARNTL,missense_variant,p.Gly491Arg,ENST00000403290,;ARNTL,missense_variant,p.Gly490Arg,ENST00000396441,;ARNTL,missense_variant,p.Gly448Arg,ENST00000401424,;ARNTL,missense_variant,p.Gly489Arg,ENST00000403482,;ARNTL,missense_variant,p.Gly490Arg,ENST00000389707,;ARNTL,synonymous_variant,p.%3D,ENST00000389708,;ARNTL,synonymous_variant,p.%3D,ENST00000524392,;ARNTL,non_coding_transcript_exon_variant,,ENST00000472842,;ARNTL,downstream_gene_variant,,ENST00000529390,;	A	ENSG00000133794	ENST00000389707	Transcript	missense_variant	1856	1468	490	G/R	Ggg/Agg	.	.	.	1	ARNTL	HGNC	701	protein_coding	YES	CCDS31430.1	ENSP00000374357	BMAL1_HUMAN	E9PSD2_HUMAN,E9PL54_HUMAN,E9PKN1_HUMAN,E9PKG7_HUMAN,E9PKF0_HUMAN	UPI00001D70A3	.	tolerated(0.18)	probably_damaging(0.994)	17/20	.	hmmpanther:PTHR23042,hmmpanther:PTHR23042:SF52	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGCTGGGGCA	.	3	BLCA
C11orf30	0	.	GRCh37	11	76169287	76169287	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306G>A	p.%3D	p.L102L	ENST00000529032	4/20	79	54	25	80	80	0	C11orf30,synonymous_variant,p.%3D,ENST00000533248,;C11orf30,synonymous_variant,p.%3D,ENST00000524767,;C11orf30,synonymous_variant,p.%3D,ENST00000524490,;C11orf30,synonymous_variant,p.%3D,ENST00000334736,;C11orf30,synonymous_variant,p.%3D,ENST00000525038,;C11orf30,synonymous_variant,p.%3D,ENST00000525919,;C11orf30,synonymous_variant,p.%3D,ENST00000343878,;C11orf30,synonymous_variant,p.%3D,ENST00000529032,;C11orf30,intron_variant,,ENST00000533972,;C11orf30,downstream_gene_variant,,ENST00000533988,;C11orf30,non_coding_transcript_exon_variant,,ENST00000525959,;C11orf30,non_coding_transcript_exon_variant,,ENST00000528826,;C11orf30,non_coding_transcript_exon_variant,,ENST00000427574,;	A	ENSG00000158636	ENST00000529032	Transcript	synonymous_variant	306	306	102	L	ctG/ctA	.	.	.	1	C11orf30	HGNC	18071	protein_coding	YES	CCDS8244.1	ENSP00000432327	EMSY_HUMAN	.	UPI0000071307	.	.	.	4/20	.	Superfamily_domains:0053920,hmmpanther:PTHR16500:SF2,hmmpanther:PTHR16500	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L102V|c.304C>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTGATGCC	.	5	BLCA
UTP20	0	.	GRCh37	12	101686952	101686952	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1180G>C	p.Glu394Gln	p.E394Q	ENST00000261637	11/62	52	18	33	53	53	0	UTP20,missense_variant,p.Glu394Gln,ENST00000261637,;UTP20,downstream_gene_variant,,ENST00000551825,;UTP20,downstream_gene_variant,,ENST00000551998,;	C	ENSG00000120800	ENST00000261637	Transcript	missense_variant	1354	1180	394	E/Q	Gag/Cag	.	.	.	1	UTP20	HGNC	17897	protein_coding	YES	CCDS9081.1	ENSP00000261637	UTP20_HUMAN	.	UPI00001FB38B	.	tolerated(0.36)	benign(0.007)	11/62	.	hmmpanther:PTHR17695:SF11,hmmpanther:PTHR17695,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTTGAGAGC	.	5	BLCA
KRT74	0	.	GRCh37	12	52967192	52967192	+	Missense_Mutation	SNP	G	G	A	rs766680853	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370C>T	p.Pro124Ser	p.P124S	ENST00000305620	1/9	96	68	28	128	128	0	KRT74,missense_variant,p.Pro124Ser,ENST00000305620,;KRT74,missense_variant,p.Pro124Ser,ENST00000549343,;KRT74,upstream_gene_variant,,ENST00000546384,;	A	ENSG00000170484	ENST00000305620	Transcript	missense_variant	418	370	124	P/S	Ccc/Tcc	rs766680853,COSM3871888	.	.	-1	KRT74	HGNC	28929	protein_coding	YES	CCDS8832.1	ENSP00000307240	K2C74_HUMAN	.	UPI00001AEDF9	.	deleterious(0.01)	probably_damaging(0.938)	1/9	.	hmmpanther:PTHR23239:SF94,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGGGGGCCA	.	5	BLCA
KRT76	0	.	GRCh37	12	53171103	53171103	+	5'UTR	SNP	G	G	T	rs377374238	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28C>A	.	.	ENST00000332411	1/9	44	33	11	54	54	0	KRT76,5_prime_UTR_variant,,ENST00000332411,;	T	ENSG00000185069	ENST00000332411	Transcript	5_prime_UTR_variant	27	.	.	.	.	rs377374238	.	.	-1	KRT76	HGNC	24430	protein_coding	YES	CCDS8838.1	ENSP00000330101	K22O_HUMAN	.	UPI000019B3C1	.	.	.	1/9	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAGTGATCAC	.	5	BLCA
C12orf50	0	.	GRCh37	12	88420820	88420820	+	5'UTR	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-81G>A	.	.	ENST00000298699	2/13	25	12	13	36	36	0	C12orf50,5_prime_UTR_variant,,ENST00000551163,;C12orf50,5_prime_UTR_variant,,ENST00000550553,;C12orf50,5_prime_UTR_variant,,ENST00000298699,;C12orf50,non_coding_transcript_exon_variant,,ENST00000546547,;C12orf50,non_coding_transcript_exon_variant,,ENST00000551944,;	T	ENSG00000165805	ENST00000298699	Transcript	5_prime_UTR_variant	101	.	.	.	.	.	.	.	-1	C12orf50	HGNC	26665	protein_coding	YES	CCDS9031.1	ENSP00000298699	CL050_HUMAN	F8VXH4_HUMAN	UPI0000071382	.	.	.	2/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCACAGT	.	5	BLCA
SACS	0	.	GRCh37	13	23911384	23911384	+	Missense_Mutation	SNP	G	G	C	rs753267159	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6631C>G	p.Gln2211Glu	p.Q2211E	ENST00000382298	10/10	35	27	8	39	39	0	SACS,missense_variant,p.Gln2211Glu,ENST00000382292,;SACS,missense_variant,p.Gln1461Glu,ENST00000402364,;SACS,missense_variant,p.Gln2211Glu,ENST00000382298,;SACS,intron_variant,,ENST00000455470,;SACS,intron_variant,,ENST00000423156,;	C	ENSG00000151835	ENST00000382298	Transcript	missense_variant	7220	6631	2211	Q/E	Caa/Gaa	rs753267159	.	.	-1	SACS	HGNC	10519	protein_coding	YES	CCDS9300.2	ENSP00000371735	SACS_HUMAN	.	UPI000047039D	.	.	probably_damaging(0.966)	10/10	.	hmmpanther:PTHR15600:SF26,hmmpanther:PTHR15600	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTGATATT	byFrequency	5	BLCA
PARP4	0	.	GRCh37	13	25020834	25020834	+	Missense_Mutation	SNP	C	C	G	rs764230122	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3351G>C	p.Gln1117His	p.Q1117H	ENST00000381989	27/34	55	37	17	37	37	0	PARP4,missense_variant,p.Gln1117His,ENST00000381989,;TPTE2P6,intron_variant,,ENST00000445572,;	G	ENSG00000102699	ENST00000381989	Transcript	missense_variant	3457	3351	1117	Q/H	caG/caC	rs764230122	.	.	-1	PARP4	HGNC	271	protein_coding	YES	CCDS9307.1	ENSP00000371419	PARP4_HUMAN	.	UPI000013C76E	.	deleterious(0)	probably_damaging(0.959)	27/34	.	hmmpanther:PTHR10338:SF7,hmmpanther:PTHR10338	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCTGAAG	byFrequency	5	BLCA
TRPC4	0	.	GRCh37	13	38211404	38211404	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2585C>T	p.Ala862Val	p.A862V	ENST00000379681	11/11	53	39	14	25	25	0	TRPC4,missense_variant,p.Ala684Val,ENST00000338947,;TRPC4,missense_variant,p.Ala862Val,ENST00000379681,;TRPC4,missense_variant,p.Ala684Val,ENST00000379679,;TRPC4,missense_variant,p.Ala857Val,ENST00000379705,;TRPC4,intron_variant,,ENST00000379673,;TRPC4,intron_variant,,ENST00000447043,;TRPC4,intron_variant,,ENST00000355779,;TRPC4,intron_variant,,ENST00000358477,;TRPC4,intron_variant,,ENST00000426868,;TRPC4,3_prime_UTR_variant,,ENST00000488717,;	A	ENSG00000133107	ENST00000379681	Transcript	missense_variant	2820	2585	862	A/V	gCt/gTt	.	.	.	-1	TRPC4	HGNC	12336	protein_coding	YES	CCDS45037.1	ENSP00000369003	TRPC4_HUMAN	.	UPI000006E5BE	.	tolerated_low_confidence(0.21)	benign(0.007)	11/11	.	hmmpanther:PTHR10117,hmmpanther:PTHR10117:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCAGCAGCA	.	5	BLCA
KCNRG	0	.	GRCh37	13	50594389	50594389	+	Silent	SNP	C	C	T	rs777399450	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618C>T	p.%3D	p.N206N	ENST00000312942	2/2	35	24	10	29	29	0	KCNRG,synonymous_variant,p.%3D,ENST00000312942,;KCNRG,3_prime_UTR_variant,,ENST00000360473,;TRIM13,downstream_gene_variant,,ENST00000378182,;TRIM13,non_coding_transcript_exon_variant,,ENST00000478111,;TRIM13,non_coding_transcript_exon_variant,,ENST00000474805,;	T	ENSG00000198553	ENST00000312942	Transcript	synonymous_variant	858	618	206	N	aaC/aaT	rs777399450	.	.	1	KCNRG	HGNC	18893	protein_coding	YES	CCDS9424.1	ENSP00000324191	KCNRG_HUMAN	.	UPI000000D8AF	.	.	.	2/2	.	hmmpanther:PTHR14499:SF5,hmmpanther:PTHR14499	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAACGGAAC	byFrequency	5	BLCA
PNP	0	.	GRCh37	14	20943054	20943054	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.408C>G	p.Ile136Met	p.I136M	ENST00000361505	4/6	54	29	25	64	64	0	PNP,missense_variant,p.Ile175Met,ENST00000553591,;PNP,missense_variant,p.Ile57Met,ENST00000554065,;PNP,missense_variant,p.Ile136Met,ENST00000361505,;PNP,downstream_gene_variant,,ENST00000553418,;RP11-203M5.8,non_coding_transcript_exon_variant,,ENST00000554678,;PNP,non_coding_transcript_exon_variant,,ENST00000557229,;PNP,non_coding_transcript_exon_variant,,ENST00000554056,;PNP,non_coding_transcript_exon_variant,,ENST00000556754,;PNP,downstream_gene_variant,,ENST00000556293,;	G	ENSG00000198805	ENST00000361505	Transcript	missense_variant	554	408	136	I/M	atC/atG	.	.	.	1	PNP	HGNC	7892	protein_coding	YES	CCDS9552.1	ENSP00000354532	PNPH_HUMAN	Q9P1G4_HUMAN,Q8N7G1_HUMAN,G3V393_HUMAN,G3V2H3_HUMAN	UPI00001FCF7D	.	deleterious(0)	probably_damaging(0.994)	4/6	.	Superfamily_domains:SSF53167,PIRSF_domain:PIRSF000477,Pfam_domain:PF01048,TIGRFAM_domain:TIGR01697,Gene3D:3.40.50.1580,TIGRFAM_domain:TIGR01700,hmmpanther:PTHR11904,hmmpanther:PTHR11904:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATATCAACCT	.	5	BLCA
FANCM	0	.	GRCh37	14	45605472	45605472	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238G>C	p.Gly80Arg	p.G80R	ENST00000267430	1/23	70	59	11	91	91	0	FANCM,missense_variant,p.Gly80Arg,ENST00000556036,;FANCM,missense_variant,p.Gly80Arg,ENST00000542564,;FANCM,missense_variant,p.Gly80Arg,ENST00000267430,;FKBP3,upstream_gene_variant,,ENST00000396062,;FKBP3,upstream_gene_variant,,ENST00000216330,;FANCM,upstream_gene_variant,,ENST00000554030,;FKBP3,upstream_gene_variant,,ENST00000557324,;	C	ENSG00000187790	ENST00000267430	Transcript	missense_variant	323	238	80	G/R	Ggc/Cgc	.	.	.	1	FANCM	HGNC	23168	protein_coding	YES	CCDS32070.1	ENSP00000267430	FANCM_HUMAN	.	UPI000059F032	.	deleterious(0)	probably_damaging(0.979)	1/23	.	hmmpanther:PTHR14025,hmmpanther:PTHR14025:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCGGGCGCC	.	4	BLCA
ZFP36L1	0	.	GRCh37	14	69256534	69256535	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.732dupC	p.Asp245ArgfsTer5	p.D245Rfs*5	ENST00000439696	2/2	225	155	70	173	173	0	ZFP36L1,frameshift_variant,p.Asp245ArgfsTer5,ENST00000336440,;ZFP36L1,frameshift_variant,p.Asp245ArgfsTer5,ENST00000439696,;ZFP36L1,3_prime_UTR_variant,,ENST00000555997,;ZFP36L1,downstream_gene_variant,,ENST00000557022,;ZFP36L1,downstream_gene_variant,,ENST00000408913,;ZFP36L1,downstream_gene_variant,,ENST00000553375,;ZFP36L1,downstream_gene_variant,,ENST00000557086,;	G	ENSG00000185650	ENST00000439696	Transcript	frameshift_variant	1034-1035	732-733	244-245	-/X	-/C	.	.	.	-1	ZFP36L1	HGNC	1107	protein_coding	YES	CCDS9791.1	ENSP00000388402	TISB_HUMAN	G3V2D5_HUMAN,B4E1N3_HUMAN,B4DG15_HUMAN	UPI0000136FBC	.	.	.	2/2	.	hmmpanther:PTHR12547,hmmpanther:PTHR12547:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCCATCGGGCA	.	3	BLCA
SNORD115-10	0	.	GRCh37	15	25430602	25430602	+	5'Flank	SNP	G	G	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000365073	.	37	25	12	23	23	0	SNORD115-10,upstream_gene_variant,,ENST00000365073,;SNORD115-6,downstream_gene_variant,,ENST00000363942,;SNHG14,downstream_gene_variant,,ENST00000365306,;SNORD115-11,upstream_gene_variant,,ENST00000363616,;SNORD115-9,upstream_gene_variant,,ENST00000362912,;SNORD115-8,downstream_gene_variant,,ENST00000363856,;SNHG14,non_coding_transcript_exon_variant,,ENST00000424208,;SNHG14,upstream_gene_variant,,ENST00000414175,;SNHG14,downstream_gene_variant,,ENST00000441592,;SNHG14,downstream_gene_variant,,ENST00000447911,;	T	ENSG00000201943	ENST00000365073	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2081	1	SNORD115-10	HGNC	33029	snoRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACAGAGGAA	.	5	BLCA
RYR3	0	.	GRCh37	15	33993191	33993191	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6393G>C	p.Met2131Ile	p.M2131I	ENST00000389232	42/104	14	5	8	13	13	0	RYR3,missense_variant,p.Met2131Ile,ENST00000389232,;RYR3,missense_variant,p.Met2131Ile,ENST00000415757,;	C	ENSG00000198838	ENST00000389232	Transcript	missense_variant	6463	6393	2131	M/I	atG/atC	.	.	.	1	RYR3	HGNC	10485	protein_coding	YES	CCDS45210.1	ENSP00000373884	RYR3_HUMAN	.	UPI0000E5B01A	.	.	benign(0.426)	42/104	.	Superfamily_domains:SSF48371,Pfam_domain:PF01365,hmmpanther:PTHR13715:SF16,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCGATGAGGGG	.	3	BLCA
AQR	0	.	GRCh37	15	35207303	35207303	+	Missense_Mutation	SNP	G	G	A	rs768894484	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1420C>T	p.Arg474Cys	p.R474C	ENST00000156471	16/35	56	35	21	71	71	0	AQR,missense_variant,p.Arg474Cys,ENST00000156471,;AQR,missense_variant,p.Arg474Cys,ENST00000543879,;	A	ENSG00000021776	ENST00000156471	Transcript	missense_variant	1646	1420	474	R/C	Cgc/Tgc	rs768894484	.	.	-1	AQR	HGNC	29513	protein_coding	YES	CCDS42013.1	ENSP00000156471	AQR_HUMAN	.	UPI00001C1F85	.	deleterious(0)	probably_damaging(0.999)	16/35	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF5,PIRSF_domain:PIRSF038901	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAGCGGAAGA	.	5	BLCA
MGA	0	.	GRCh37	15	42058491	42058491	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8211G>C	p.Gln2737His	p.Q2737H	ENST00000219905	24/24	18	9	9	36	36	0	MGA,missense_variant,p.Gln2737His,ENST00000219905,;MGA,missense_variant,p.Gln2737His,ENST00000570161,;MGA,missense_variant,p.Gln2698His,ENST00000389936,;MGA,missense_variant,p.Gln2528His,ENST00000545763,;MGA,missense_variant,p.Gln2528His,ENST00000566586,;MGA,downstream_gene_variant,,ENST00000564190,;RP11-107F6.3,downstream_gene_variant,,ENST00000562063,;RP11-107F6.3,downstream_gene_variant,,ENST00000607504,;MGA,downstream_gene_variant,,ENST00000568255,;	C	ENSG00000174197	ENST00000219905	Transcript	missense_variant	8392	8211	2737	Q/H	caG/caC	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	deleterious(0.01)	possibly_damaging(0.498)	24/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCAGAAAGC	.	5	BLCA
MYO5A	0	.	GRCh37	15	52613560	52613560	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4872G>C	p.Met1624Ile	p.M1624I	ENST00000399231	37/41	57	29	28	67	67	0	MYO5A,missense_variant,p.Met354Ile,ENST00000399229,;MYO5A,missense_variant,p.Met1649Ile,ENST00000358212,;MYO5A,missense_variant,p.Met1624Ile,ENST00000399231,;MYO5A,missense_variant,p.Met1621Ile,ENST00000399233,;MYO5A,missense_variant,p.Met1597Ile,ENST00000356338,;MYO5A,missense_variant,p.Met1622Ile,ENST00000553916,;MYO5A,downstream_gene_variant,,ENST00000465290,;	G	ENSG00000197535	ENST00000399231	Transcript	missense_variant	5116	4872	1624	M/I	atG/atC	.	.	.	-1	MYO5A	HGNC	7602	protein_coding	YES	CCDS42037.1	ENSP00000382177	MYO5A_HUMAN	Q9UES4_HUMAN	UPI0000E445E1	.	tolerated(0.11)	benign(0.027)	37/41	.	hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF273,PROSITE_profiles:PS51126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAATCATTGG	.	5	BLCA
ATF7IP2	0	.	GRCh37	16	10551356	10551356	+	Nonsense_Mutation	SNP	C	C	A	rs148070233	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1322C>A	p.Ser441Ter	p.S441*	ENST00000396560	7/12	147	140	7	107	107	0	ATF7IP2,stop_gained,p.Ser441Ter,ENST00000396559,;ATF7IP2,stop_gained,p.Ser441Ter,ENST00000396560,;ATF7IP2,stop_gained,p.Ser441Ter,ENST00000356427,;ATF7IP2,stop_gained,p.Ser441Ter,ENST00000324570,;ATF7IP2,intron_variant,,ENST00000543967,;ATF7IP2,non_coding_transcript_exon_variant,,ENST00000565616,;ATF7IP2,intron_variant,,ENST00000535850,;ATF7IP2,intron_variant,,ENST00000568027,;	A	ENSG00000166669	ENST00000396560	Transcript	stop_gained	1549	1322	441	S/*	tCa/tAa	rs148070233	.	.	1	ATF7IP2	HGNC	20397	protein_coding	YES	CCDS10540.1	ENSP00000379808	MCAF2_HUMAN	H3BUP1_HUMAN,H3BR07_HUMAN,H3BPC9_HUMAN,H3BNE6_HUMAN,B4DKH3_HUMAN	UPI00001FEDD8	.	.	.	7/12	.	hmmpanther:PTHR23210:SF6,hmmpanther:PTHR23210	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTGTCATCAG	byCluster	2	BLCA
TPSD1	0	.	GRCh37	16	1306599	1306599	+	Silent	SNP	G	G	C	rs781102187	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165G>C	p.%3D	p.L55L	ENST00000211076	2/5	94	58	36	95	95	0	TPSD1,synonymous_variant,p.%3D,ENST00000211076,;TPSD1,synonymous_variant,p.%3D,ENST00000397534,;PRSS29P,downstream_gene_variant,,ENST00000568091,;PRSS29P,downstream_gene_variant,,ENST00000440800,;RP11-616M22.5,upstream_gene_variant,,ENST00000566997,;	C	ENSG00000095917	ENST00000211076	Transcript	synonymous_variant	313	165	55	L	ctG/ctC	rs781102187	.	.	1	TPSD1	HGNC	14118	protein_coding	YES	CCDS10432.1	ENSP00000211076	TRYD_HUMAN	.	UPI000007066B	.	.	.	2/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24268,hmmpanther:PTHR24268:SF96,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTGAGAGT	byFrequency	5	BLCA
ADCY9	0	.	GRCh37	16	4016420	4016420	+	Missense_Mutation	SNP	C	C	T	rs745559844	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3418G>A	p.Glu1140Lys	p.E1140K	ENST00000294016	11/11	69	49	20	107	107	0	ADCY9,missense_variant,p.Glu1140Lys,ENST00000294016,;ADCY9,intron_variant,,ENST00000576936,;	T	ENSG00000162104	ENST00000294016	Transcript	missense_variant	3957	3418	1140	E/K	Gag/Aag	rs745559844,COSM231718	.	.	-1	ADCY9	HGNC	240	protein_coding	YES	CCDS32382.1	ENSP00000294016	ADCY9_HUMAN	.	UPI000012887F	.	deleterious(0.01)	possibly_damaging(0.562)	11/11	.	PROSITE_profiles:PS50125,hmmpanther:PTHR11920:SF272,hmmpanther:PTHR11920,Gene3D:3.30.70.1230,Pfam_domain:PF00211,SMART_domains:SM00044,Superfamily_domains:SSF55073	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACTCGAACA	byFrequency	5	BLCA
SLC38A7	0	.	GRCh37	16	58710202	58710202	+	Silent	SNP	G	G	A	rs769215514	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.759C>T	p.%3D	p.F253F	ENST00000570101	6/11	98	86	12	129	129	0	SLC38A7,synonymous_variant,p.%3D,ENST00000564010,;SLC38A7,synonymous_variant,p.%3D,ENST00000570214,;SLC38A7,synonymous_variant,p.%3D,ENST00000219320,;SLC38A7,synonymous_variant,p.%3D,ENST00000564100,;SLC38A7,synonymous_variant,p.%3D,ENST00000570101,;SLC38A7,downstream_gene_variant,,ENST00000563196,;SLC38A7,downstream_gene_variant,,ENST00000564391,;SLC38A7,downstream_gene_variant,,ENST00000562397,;SLC38A7,intron_variant,,ENST00000566953,;SLC38A7,synonymous_variant,p.%3D,ENST00000566598,;SLC38A7,synonymous_variant,p.%3D,ENST00000565785,;SLC38A7,non_coding_transcript_exon_variant,,ENST00000562149,;SLC38A7,non_coding_transcript_exon_variant,,ENST00000569209,;	A	ENSG00000103042	ENST00000570101	Transcript	synonymous_variant	1643	759	253	F	ttC/ttT	rs769215514	.	.	-1	SLC38A7	HGNC	25582	protein_coding	YES	CCDS10800.1	ENSP00000454646	S38A7_HUMAN	H3BRZ0_HUMAN,H3BPV9_HUMAN,H3BPK8_HUMAN,H3BN87_HUMAN	UPI000004EC72	.	.	.	6/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22950,hmmpanther:PTHR22950:SF192,Pfam_domain:PF01490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATCCGAAGCA	.	4	BLCA
DHX38	0	.	GRCh37	16	72135070	72135070	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1366delG	p.Glu456SerfsTer23	p.E456Sfs*23	ENST00000268482	10/27	104	76	28	90	90	0	DHX38,frameshift_variant,p.Glu456SerfsTer23,ENST00000268482,;DHX38,intron_variant,,ENST00000536867,;DHX38,downstream_gene_variant,,ENST00000566794,;DHX38,upstream_gene_variant,,ENST00000562774,;DHX38,downstream_gene_variant,,ENST00000566489,;DHX38,non_coding_transcript_exon_variant,,ENST00000566329,;DHX38,intron_variant,,ENST00000579387,;DHX38,downstream_gene_variant,,ENST00000563650,;DHX38,upstream_gene_variant,,ENST00000569935,;DHX38,downstream_gene_variant,,ENST00000564307,;	-	ENSG00000140829	ENST00000268482	Transcript	frameshift_variant	1873	1364	455	R/X	aGg/ag	.	.	.	1	DHX38	HGNC	17211	protein_coding	YES	CCDS10907.1	ENSP00000268482	PRP16_HUMAN	H3BV01_HUMAN,H3BQT9_HUMAN,B4DN69_HUMAN,B4DM30_HUMAN	UPI000002FBFE	.	.	.	10/27	.	hmmpanther:PTHR18934:SF91,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGCACAGGGAGC	.	3	BLCA
ZFHX3	0	.	GRCh37	16	72821498	72821498	+	Silent	SNP	C	C	G	rs370016565	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10677G>C	p.%3D	p.T3559T	ENST00000268489	10/10	192	123	69	266	266	0	ZFHX3,synonymous_variant,p.%3D,ENST00000397992,;ZFHX3,synonymous_variant,p.%3D,ENST00000268489,;AC004943.1,downstream_gene_variant,,ENST00000584072,;RP5-991G20.4,upstream_gene_variant,,ENST00000569195,;RP5-991G20.1,downstream_gene_variant,,ENST00000563328,;	G	ENSG00000140836	ENST00000268489	Transcript	synonymous_variant	11350	10677	3559	T	acG/acC	rs370016565	.	.	-1	ZFHX3	HGNC	777	protein_coding	YES	CCDS10908.1	ENSP00000268489	ZFHX3_HUMAN	Q6TCJ2_HUMAN	UPI00001AE937	.	.	.	10/10	.	hmmpanther:PTHR24208:SF84,hmmpanther:PTHR24208,SMART_domains:SM00451	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCGTGAT	byCluster	5	BLCA
RASL10B	0	.	GRCh37	17	34068088	34068088	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376G>A	p.Val126Met	p.V126M	ENST00000268864	4/4	44	27	16	62	62	0	RASL10B,missense_variant,p.Val126Met,ENST00000268864,;GAS2L2,downstream_gene_variant,,ENST00000587565,;GAS2L2,downstream_gene_variant,,ENST00000254466,;RASL10B,downstream_gene_variant,,ENST00000587350,;	A	ENSG00000141150	ENST00000268864	Transcript	missense_variant	753	376	126	V/M	Gtg/Atg	.	.	.	1	RASL10B	HGNC	30295	protein_coding	YES	CCDS11297.1	ENSP00000268864	RSLAB_HUMAN	.	UPI000004E8E7	.	deleterious(0)	possibly_damaging(0.864)	4/4	.	PROSITE_profiles:PS51421,hmmpanther:PTHR24070,hmmpanther:PTHR24070:SF209,Pfam_domain:PF00071,Gene3D:3.40.50.300,SMART_domains:SM00175,SMART_domains:SM00173,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATCGTGGGC	.	5	BLCA
ACACA	0	.	GRCh37	17	35641867	35641867	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.343A>G	p.Ser115Gly	p.S115G	ENST00000353139	4/56	114	66	47	73	73	0	ACACA,missense_variant,p.Ser20Gly,ENST00000360679,;ACACA,missense_variant,p.Ser115Gly,ENST00000353139,;ACACA,missense_variant,p.Ser78Gly,ENST00000394406,;ACACA,missense_variant,p.Ser78Gly,ENST00000451642,;ACACA,3_prime_UTR_variant,,ENST00000416895,;ACACA,5_prime_UTR_variant,,ENST00000591148,;ACACA,5_prime_UTR_variant,,ENST00000335166,;ACACA,5_prime_UTR_variant,,ENST00000394403,;ACACA,5_prime_UTR_variant,,ENST00000413318,;ACACA,3_prime_UTR_variant,,ENST00000456066,;ACACA,non_coding_transcript_exon_variant,,ENST00000590888,;	C	ENSG00000132142	ENST00000353139	Transcript	missense_variant	825	343	115	S/G	Agc/Ggc	.	.	.	-1	ACACA	HGNC	84	protein_coding	YES	CCDS42302.1	ENSP00000344789	ACACA_HUMAN	Q7Z5W8_HUMAN,K7EII5_HUMAN,K4DID9_HUMAN,B4DWK9_HUMAN,B4DK31_HUMAN,B4DIW1_HUMAN,B2ZZ90_HUMAN,A8MYL5_HUMAN	UPI00002263AC	.	deleterious_low_confidence(0)	benign(0.36)	4/56	.	hmmpanther:PTHR18866:SF89,hmmpanther:PTHR18866	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGCTGGACC	.	5	BLCA
ATP2A3	0	.	GRCh37	17	3844279	3844279	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2086G>A	p.Glu696Lys	p.E696K	ENST00000359983	14/23	94	53	41	136	136	0	ATP2A3,missense_variant,p.Glu696Lys,ENST00000397043,;ATP2A3,missense_variant,p.Glu696Lys,ENST00000359983,;ATP2A3,missense_variant,p.Glu696Lys,ENST00000309890,;ATP2A3,missense_variant,p.Glu696Lys,ENST00000397035,;ATP2A3,missense_variant,p.Glu696Lys,ENST00000397041,;ATP2A3,missense_variant,p.Glu696Lys,ENST00000352011,;ATP2A3,5_prime_UTR_variant,,ENST00000397039,;ATP2A3,upstream_gene_variant,,ENST00000576957,;ATP2A3,downstream_gene_variant,,ENST00000572694,;ATP2A3,upstream_gene_variant,,ENST00000572176,;	T	ENSG00000074370	ENST00000359983	Transcript	missense_variant	2086	2086	696	E/K	Gag/Aag	.	.	.	-1	ATP2A3	HGNC	813	protein_coding	YES	CCDS11042.1	ENSP00000353072	AT2A3_HUMAN	.	UPI0000161584	.	deleterious(0.02)	probably_damaging(0.999)	14/23	.	Superfamily_domains:SSF56784,TIGRFAM_domain:TIGR01494,TIGRFAM_domain:TIGR01116,Gene3D:1.20.1110.10,Pfam_domain:PF00702,hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF280	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCGTTAA	.	5	BLCA
KRTAP1-1	0	.	GRCh37	17	39197464	39197464	+	Silent	SNP	G	G	T	rs557959680	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>A	p.%3D	p.T62T	ENST00000306271	1/1	128	82	46	172	172	0	KRTAP1-1,synonymous_variant,p.%3D,ENST00000306271,;	T	ENSG00000188581	ENST00000306271	Transcript	synonymous_variant	250	186	62	T	acC/acA	rs557959680,COSM2839874	.	.	-1	KRTAP1-1	HGNC	16772	protein_coding	YES	CCDS42324.1	ENSP00000305975	KRA11_HUMAN	.	UPI000007191A	.	.	.	1/1	.	hmmpanther:PTHR23262:SF45,hmmpanther:PTHR23262	A:0.0004	A:0.0008	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCGGTTGA	byFrequency|byCluster|by1000G	4	BLCA
SPAG9	0	.	GRCh37	17	49156970	49156970	+	Silent	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399G>A	p.%3D	p.L133L	ENST00000262013	2/30	101	71	30	95	95	0	SPAG9,synonymous_variant,p.%3D,ENST00000505279,;SPAG9,synonymous_variant,p.%3D,ENST00000357122,;SPAG9,synonymous_variant,p.%3D,ENST00000262013,;RP11-481C4.1,intron_variant,,ENST00000509833,;SPAG9,non_coding_transcript_exon_variant,,ENST00000514613,;	T	ENSG00000008294	ENST00000262013	Transcript	synonymous_variant	608	399	133	L	ctG/ctA	.	.	.	-1	SPAG9	HGNC	14524	protein_coding	YES	CCDS45740.1	ENSP00000262013	JIP4_HUMAN	H0Y981_HUMAN	UPI0000D60DF7	.	.	.	2/30	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF09744,hmmpanther:PTHR13886	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTCAGCTC	.	5	BLCA
SEPT4	0	.	GRCh37	17	56598442	56598442	+	Silent	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239G>C	p.%3D	p.V413V	ENST00000457347	11/13	99	67	31	139	139	0	SEPT4,synonymous_variant,p.%3D,ENST00000579371,;SEPT4,synonymous_variant,p.%3D,ENST00000457347,;SEPT4,synonymous_variant,p.%3D,ENST00000317256,;SEPT4,synonymous_variant,p.%3D,ENST00000583114,;SEPT4,synonymous_variant,p.%3D,ENST00000412945,;SEPT4,synonymous_variant,p.%3D,ENST00000393086,;SEPT4,synonymous_variant,p.%3D,ENST00000580844,;SEPT4,synonymous_variant,p.%3D,ENST00000317268,;SEPT4,3_prime_UTR_variant,,ENST00000426861,;SEPT4,downstream_gene_variant,,ENST00000583291,;MTMR4,upstream_gene_variant,,ENST00000579921,;SEPT4,downstream_gene_variant,,ENST00000580809,;MTMR4,upstream_gene_variant,,ENST00000323456,;MTMR4,upstream_gene_variant,,ENST00000579925,;SEPT4,downstream_gene_variant,,ENST00000577729,;RP11-112H10.4,intron_variant,,ENST00000580589,;RP11-112H10.4,upstream_gene_variant,,ENST00000580769,;RP11-112H10.4,upstream_gene_variant,,ENST00000578022,;SEPT4,non_coding_transcript_exon_variant,,ENST00000580796,;SEPT4,non_coding_transcript_exon_variant,,ENST00000583273,;SEPT4,non_coding_transcript_exon_variant,,ENST00000582270,;SEPT4,non_coding_transcript_exon_variant,,ENST00000584488,;SEPT4,non_coding_transcript_exon_variant,,ENST00000577440,;SEPT4,downstream_gene_variant,,ENST00000581615,;MTMR4,upstream_gene_variant,,ENST00000582663,;SEPT4,downstream_gene_variant,,ENST00000584789,;SEPT4,downstream_gene_variant,,ENST00000585170,;SEPT4,downstream_gene_variant,,ENST00000578131,;	G	ENSG00000108387	ENST00000457347	Transcript	synonymous_variant	1384	1239	413	V	gtG/gtC	.	.	.	-1	SEPT4	HGNC	9165	protein_coding	YES	CCDS58582.1	ENSP00000402000	SEPT4_HUMAN	.	UPI00017A809C	.	.	.	11/13	.	PROSITE_profiles:PS51719,hmmpanther:PTHR18884,hmmpanther:PTHR18884:SF2,Pfam_domain:PF00735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTGTCACATC	.	5	BLCA
CLDN7	0	.	GRCh37	17	7165243	7165243	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120C>T	p.%3D	p.I40I	ENST00000360325	1/4	17	12	5	32	32	0	CLDN7,synonymous_variant,p.%3D,ENST00000397317,;CLDN7,synonymous_variant,p.%3D,ENST00000538261,;CLDN7,synonymous_variant,p.%3D,ENST00000571932,;CLDN7,synonymous_variant,p.%3D,ENST00000575313,;CLDN7,synonymous_variant,p.%3D,ENST00000571881,;CLDN7,synonymous_variant,p.%3D,ENST00000360325,;CLDN7,upstream_gene_variant,,ENST00000574070,;ELP5,downstream_gene_variant,,ENST00000354429,;ELP5,downstream_gene_variant,,ENST00000574993,;ELP5,downstream_gene_variant,,ENST00000573513,;ELP5,downstream_gene_variant,,ENST00000576496,;ELP5,downstream_gene_variant,,ENST00000356683,;ELP5,downstream_gene_variant,,ENST00000396627,;ELP5,downstream_gene_variant,,ENST00000396628,;ELP5,downstream_gene_variant,,ENST00000570322,;ELP5,downstream_gene_variant,,ENST00000573699,;ELP5,downstream_gene_variant,,ENST00000572104,;Y_RNA,downstream_gene_variant,,ENST00000365381,;CLDN7,downstream_gene_variant,,ENST00000573745,;RP1-4G17.5,synonymous_variant,p.%3D,ENST00000577138,;ELP5,downstream_gene_variant,,ENST00000571146,;	A	ENSG00000181885	ENST00000360325	Transcript	synonymous_variant	555	120	40	I	atC/atT	.	.	.	-1	CLDN7	HGNC	2049	protein_coding	YES	CCDS11096.1	ENSP00000353475	CLD7_HUMAN	K7EP40_HUMAN,I3L3L6_HUMAN	UPI0000140171	.	.	.	1/4	.	hmmpanther:PTHR12002:SF78,hmmpanther:PTHR12002,Pfam_domain:PF00822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGATGATGTT	.	5	BLCA
ASPSCR1	0	.	GRCh37	17	79941434	79941434	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.163C>T	p.Gln55Ter	p.Q55*	ENST00000306729	3/17	10	5	5	20	20	0	ASPSCR1,stop_gained,p.Gln36Ter,ENST00000579684,;ASPSCR1,stop_gained,p.Gln52Ter,ENST00000581484,;ASPSCR1,stop_gained,p.Gln55Ter,ENST00000306739,;ASPSCR1,stop_gained,p.Gln55Ter,ENST00000306729,;ASPSCR1,stop_gained,p.Gln55Ter,ENST00000581647,;ASPSCR1,5_prime_UTR_variant,,ENST00000580534,;ASPSCR1,5_prime_UTR_variant,,ENST00000582019,;ASPSCR1,stop_gained,p.Gln55Ter,ENST00000583503,;ASPSCR1,3_prime_UTR_variant,,ENST00000344865,;ASPSCR1,5_prime_UTR_variant,,ENST00000584454,;	T	ENSG00000169696	ENST00000306729	Transcript	stop_gained	260	163	55	Q/*	Cag/Tag	.	.	.	1	ASPSCR1	HGNC	13825	protein_coding	YES	CCDS58611.1	ENSP00000306625	ASPC1_HUMAN	.	UPI000007263D	.	.	.	3/17	.	hmmpanther:PTHR23153:SF33,hmmpanther:PTHR23153,Pfam_domain:PF11470,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGTTTCAGAGG	.	3	BLCA
CTAGE1	0	.	GRCh37	18	19997273	19997273	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502C>G	p.Gln168Glu	p.Q168E	ENST00000391403	1/1	80	45	35	153	153	0	CTAGE1,missense_variant,p.Gln168Glu,ENST00000391403,;CTAGE1,upstream_gene_variant,,ENST00000525417,;RP11-863N1.4,downstream_gene_variant,,ENST00000603437,;	C	ENSG00000212710	ENST00000391403	Transcript	missense_variant	606	502	168	Q/E	Caa/Gaa	.	.	.	-1	CTAGE1	HGNC	24346	protein_coding	YES	CCDS45837.1	ENSP00000375220	CTGE2_HUMAN	Q8NEG8_HUMAN	UPI00000721F4	.	tolerated(0.22)	benign(0.099)	1/1	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23158,hmmpanther:PTHR23158:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTTGAAATC	.	5	BLCA
DCC	0	.	GRCh37	18	50592536	50592536	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1261G>T	p.Ala421Ser	p.A421S	ENST00000442544	7/29	39	35	4	26	26	0	DCC,missense_variant,p.Ala76Ser,ENST00000581580,;DCC,missense_variant,p.Ala76Ser,ENST00000578949,;DCC,missense_variant,p.Ala421Ser,ENST00000442544,;DCC,missense_variant,p.Ala269Ser,ENST00000412726,;DCC,splice_region_variant,,ENST00000580146,;DCC,missense_variant,p.Ala355Ser,ENST00000304775,;DCC,downstream_gene_variant,,ENST00000579883,;	T	ENSG00000187323	ENST00000442544	Transcript	missense_variant	1877	1261	421	A/S	Gct/Tct	.	.	.	1	DCC	HGNC	2701	protein_coding	YES	CCDS11952.1	ENSP00000389140	DCC_HUMAN	J3QQJ6_HUMAN	UPI00001AEDC6	.	tolerated(0.17)	benign(0.013)	7/29	.	hmmpanther:PTHR10489:SF68,hmmpanther:PTHR10489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	AGCCTGGTAAG	.	2	BLCA
ZNF236	0	.	GRCh37	18	74583656	74583656	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537-1G>C	.	p.X179_splice	ENST00000253159	.	44	22	21	102	102	0	ZNF236,splice_acceptor_variant,,ENST00000579322,;ZNF236,splice_acceptor_variant,,ENST00000320610,;ZNF236,splice_acceptor_variant,,ENST00000253159,;ZNF236,intron_variant,,ENST00000583095,;ZNF236,splice_acceptor_variant,,ENST00000543926,;	C	ENSG00000130856	ENST00000253159	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ZNF236	HGNC	13028	protein_coding	YES	CCDS42447.1	ENSP00000253159	ZN236_HUMAN	.	UPI0000F6DCCB	.	.	.	.	4/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTAGGGTAT	.	5	BLCA
BRD4	0	.	GRCh37	19	15355347	15355347	+	Missense_Mutation	SNP	G	G	A	rs767979123	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2276C>T	p.Pro759Leu	p.P759L	ENST00000263377	13/20	18	11	7	18	18	0	BRD4,missense_variant,p.Pro759Leu,ENST00000263377,;BRD4,downstream_gene_variant,,ENST00000371835,;BRD4,non_coding_transcript_exon_variant,,ENST00000594066,;	A	ENSG00000141867	ENST00000263377	Transcript	missense_variant	2498	2276	759	P/L	cCg/cTg	rs767979123	.	.	-1	BRD4	HGNC	13575	protein_coding	YES	CCDS12328.1	ENSP00000263377	BRD4_HUMAN	Q96HN0_HUMAN,M0R0H4_HUMAN,M0QZD9_HUMAN	UPI0000126ACE	.	.	possibly_damaging(0.726)	13/20	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF143,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGCGGGGGC	byFrequency	5	BLCA
ELL	0	.	GRCh37	19	18632866	18632866	+	5'UTR	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000262809	1/12	28	13	14	39	39	0	ELL,5_prime_UTR_variant,,ENST00000262809,;ELL,5_prime_UTR_variant,,ENST00000594635,;ELL,non_coding_transcript_exon_variant,,ENST00000596915,;	T	ENSG00000105656	ENST00000262809	Transcript	5_prime_UTR_variant	72	.	.	.	.	.	.	.	-1	ELL	HGNC	23114	protein_coding	YES	CCDS12380.1	ENSP00000262809	ELL_HUMAN	Q75MS0_HUMAN	UPI0000062324	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCATCTTGCG	.	5	BLCA
ZNF730	0	.	GRCh37	19	23328138	23328138	+	Missense_Mutation	SNP	G	G	T	rs764271712	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292G>T	p.Val98Phe	p.V98F	ENST00000597761	4/4	14	8	6	20	20	0	ZNF730,missense_variant,p.Val98Phe,ENST00000597761,;ZNF730,downstream_gene_variant,,ENST00000599195,;	T	ENSG00000183850	ENST00000597761	Transcript	missense_variant	491	292	98	V/F	Gtc/Ttc	rs764271712	.	.	1	ZNF730	HGNC	32470	protein_coding	YES	CCDS59371.1	ENSP00000472959	ZN730_HUMAN	.	UPI000035E7F4	.	deleterious(0.01)	probably_damaging(0.956)	4/4	.	hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	AAGAAGTCATA	.	4	BLCA
RYR1	0	.	GRCh37	19	38990294	38990294	+	Silent	SNP	C	C	T	rs149295336	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7047C>T	p.%3D	p.N2349N	ENST00000359596	44/106	29	19	10	32	32	0	RYR1,synonymous_variant,p.%3D,ENST00000355481,;RYR1,synonymous_variant,p.%3D,ENST00000360985,;RYR1,synonymous_variant,p.%3D,ENST00000359596,;RYR1,synonymous_variant,p.%3D,ENST00000594335,;	T	ENSG00000196218	ENST00000359596	Transcript	synonymous_variant	7047	7047	2349	N	aaC/aaT	rs149295336	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	.	44/106	.	hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715,Pfam_domain:PF01365	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAACGCCAA	byCluster	5	BLCA
SIRT2	0	.	GRCh37	19	39369928	39369928	+	Missense_Mutation	SNP	C	C	T	rs201687831	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1037G>A	p.Arg346Gln	p.R346Q	ENST00000249396	16/16	23	14	9	43	43	0	SIRT2,missense_variant,p.Arg346Gln,ENST00000249396,;SIRT2,missense_variant,p.Arg309Gln,ENST00000392081,;SIRT2,3_prime_UTR_variant,,ENST00000358931,;RINL,upstream_gene_variant,,ENST00000340740,;SIRT2,downstream_gene_variant,,ENST00000414941,;SIRT2,downstream_gene_variant,,ENST00000407552,;RINL,upstream_gene_variant,,ENST00000598904,;RINL,upstream_gene_variant,,ENST00000591812,;SIRT2,non_coding_transcript_exon_variant,,ENST00000462654,;SIRT2,non_coding_transcript_exon_variant,,ENST00000479290,;SIRT2,downstream_gene_variant,,ENST00000443898,;RINL,upstream_gene_variant,,ENST00000596919,;SIRT2,downstream_gene_variant,,ENST00000496069,;RINL,upstream_gene_variant,,ENST00000589111,;SIRT2,downstream_gene_variant,,ENST00000420440,;RINL,upstream_gene_variant,,ENST00000599911,;RINL,upstream_gene_variant,,ENST00000598048,;	T	ENSG00000068903	ENST00000249396	Transcript	missense_variant	1339	1037	346	R/Q	cGg/cAg	rs201687831	.	.	-1	SIRT2	HGNC	10886	protein_coding	YES	CCDS12523.1	ENSP00000249396	SIR2_HUMAN	F8WF57_HUMAN,E7EWX6_HUMAN,C9JZQ0_HUMAN,C9JR33_HUMAN,C9J3U7_HUMAN,B5MCS1_HUMAN	UPI0000070897	.	tolerated(0.45)	benign(0.001)	16/16	.	hmmpanther:PTHR11085,hmmpanther:PTHR11085:SF3,Gene3D:3.40.50.1220,PIRSF_domain:PIRSF037938,Superfamily_domains:SSF52467	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTCCGGACA	byCluster|by1000G	5	BLCA
CNTD2	0	.	GRCh37	19	40732342	40732342	+	Silent	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207G>C	p.%3D	p.L69L	ENST00000430325	1/5	11	6	5	42	42	0	CNTD2,synonymous_variant,p.%3D,ENST00000433940,;CNTD2,synonymous_variant,p.%3D,ENST00000430325,;CNTD2,upstream_gene_variant,,ENST00000513948,;AKT2,downstream_gene_variant,,ENST00000392038,;CNTD2,upstream_gene_variant,,ENST00000599263,;CNTD2,synonymous_variant,p.%3D,ENST00000221818,;CNTD2,upstream_gene_variant,,ENST00000593335,;	G	ENSG00000105219	ENST00000430325	Transcript	synonymous_variant	256	207	69	L	ctG/ctC	.	.	.	-1	CNTD2	HGNC	25805	protein_coding	YES	CCDS12551.2	ENSP00000396755	CNTD2_HUMAN	D6RCS3_HUMAN	UPI00017A831A	.	.	.	1/5	.	hmmpanther:PTHR10177:SF199,hmmpanther:PTHR10177,PIRSF_domain:PIRSF001771	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCGCTCAGCGC	.	3	BLCA
CYP2S1	0	.	GRCh37	19	41704393	41704393	+	Silent	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.520C>T	p.%3D	p.L174L	ENST00000310054	4/9	120	85	34	176	175	0	CYP2S1,synonymous_variant,p.%3D,ENST00000310054,;CYP2S1,intron_variant,,ENST00000600561,;CYP2S1,intron_variant,,ENST00000542619,;CYP2S1,intron_variant,,ENST00000597754,;CYP2S1,upstream_gene_variant,,ENST00000593890,;CYP2S1,intron_variant,,ENST00000595590,;CYP2S1,intron_variant,,ENST00000593545,;	T	ENSG00000167600	ENST00000310054	Transcript	synonymous_variant	736	520	174	L	Ctg/Ttg	.	.	.	1	CYP2S1	HGNC	15654	protein_coding	YES	CCDS12573.1	ENSP00000308032	CP2S1_HUMAN	.	UPI00000467C9	.	.	.	4/9	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF23,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTGCTGGCC	.	5	BLCA
ZNF296	0	.	GRCh37	19	45574925	45574925	+	Silent	SNP	G	G	A	rs776455930	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1362C>T	p.%3D	p.F454F	ENST00000303809	3/3	73	46	26	109	109	0	ZNF296,synonymous_variant,p.%3D,ENST00000303809,;CLASRP,downstream_gene_variant,,ENST00000391953,;CLASRP,downstream_gene_variant,,ENST00000221455,;CLASRP,downstream_gene_variant,,ENST00000591904,;CLASRP,downstream_gene_variant,,ENST00000544944,;CTB-179K24.3,downstream_gene_variant,,ENST00000586744,;CLASRP,downstream_gene_variant,,ENST00000587472,;CLASRP,downstream_gene_variant,,ENST00000592876,;CLASRP,downstream_gene_variant,,ENST00000588070,;CLASRP,downstream_gene_variant,,ENST00000585432,;CLASRP,downstream_gene_variant,,ENST00000585615,;CLASRP,downstream_gene_variant,,ENST00000391952,;	A	ENSG00000170684	ENST00000303809	Transcript	synonymous_variant	1577	1362	454	F	ttC/ttT	rs776455930	.	.	-1	ZNF296	HGNC	15981	protein_coding	YES	CCDS12653.1	ENSP00000302770	ZN296_HUMAN	Q8NEY2_HUMAN,Q8IX33_HUMAN	UPI000013C363	.	.	.	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF401,PROSITE_patterns:PS00028,Pfam_domain:PF13894,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCGAAGGG	.	5	BLCA
ZNF296	0	.	GRCh37	19	45575067	45575067	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1220C>T	p.Ser407Leu	p.S407L	ENST00000303809	3/3	96	61	35	150	150	0	ZNF296,missense_variant,p.Ser407Leu,ENST00000303809,;CLASRP,downstream_gene_variant,,ENST00000391953,;CLASRP,downstream_gene_variant,,ENST00000221455,;CLASRP,downstream_gene_variant,,ENST00000591904,;CLASRP,downstream_gene_variant,,ENST00000544944,;CTB-179K24.3,downstream_gene_variant,,ENST00000586744,;CLASRP,downstream_gene_variant,,ENST00000587472,;CLASRP,downstream_gene_variant,,ENST00000592876,;CLASRP,downstream_gene_variant,,ENST00000588070,;CLASRP,downstream_gene_variant,,ENST00000585432,;CLASRP,downstream_gene_variant,,ENST00000585615,;CLASRP,downstream_gene_variant,,ENST00000391952,;	A	ENSG00000170684	ENST00000303809	Transcript	missense_variant	1435	1220	407	S/L	tCa/tTa	.	.	.	-1	ZNF296	HGNC	15981	protein_coding	YES	CCDS12653.1	ENSP00000302770	ZN296_HUMAN	Q8NEY2_HUMAN,Q8IX33_HUMAN	UPI000013C363	.	deleterious(0)	probably_damaging(0.997)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF401,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGTGAGCGC	.	5	BLCA
CD3EAP	0	.	GRCh37	19	45912210	45912210	+	Missense_Mutation	SNP	G	G	C	rs752666450	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984G>C	p.Lys328Asn	p.K328N	ENST00000309424	3/3	119	86	32	143	143	0	CD3EAP,missense_variant,p.Lys328Asn,ENST00000309424,;CD3EAP,missense_variant,p.Lys330Asn,ENST00000589804,;ERCC1,3_prime_UTR_variant,,ENST00000300853,;ERCC1,3_prime_UTR_variant,,ENST00000423698,;ERCC1,downstream_gene_variant,,ENST00000589381,;ERCC1,downstream_gene_variant,,ENST00000591636,;PPP1R13L,upstream_gene_variant,,ENST00000593226,;ERCC1,downstream_gene_variant,,ENST00000590701,;ERCC1,downstream_gene_variant,,ENST00000589165,;ERCC1,downstream_gene_variant,,ENST00000013807,;PPP1R13L,upstream_gene_variant,,ENST00000418234,;PPP1R13L,upstream_gene_variant,,ENST00000360957,;CD3EAP,downstream_gene_variant,,ENST00000592852,;PPP1R13L,upstream_gene_variant,,ENST00000592134,;CD3EAP,downstream_gene_variant,,ENST00000590794,;ERCC1,downstream_gene_variant,,ENST00000592444,;ERCC1,downstream_gene_variant,,ENST00000340192,;ERCC1,downstream_gene_variant,,ENST00000592410,;ERCC1,downstream_gene_variant,,ENST00000588738,;PPP1R13L,upstream_gene_variant,,ENST00000585905,;ERCC1,downstream_gene_variant,,ENST00000587888,;	C	ENSG00000117877	ENST00000309424	Transcript	missense_variant	1472	984	328	K/N	aaG/aaC	rs752666450	.	.	1	CD3EAP	HGNC	24219	protein_coding	YES	CCDS12661.1	ENSP00000310966	RPA34_HUMAN	K7EQC8_HUMAN	UPI0000070847	.	deleterious(0.04)	probably_damaging(0.983)	3/3	.	hmmpanther:PTHR15484:SF7,hmmpanther:PTHR15484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGAAGAAGAG	byFrequency|byCluster	5	BLCA
TPRX1	0	.	GRCh37	19	48306165	48306165	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103G>A	p.Gly35Arg	p.G35R	ENST00000322175	2/2	8	3	5	10	10	0	TPRX1,missense_variant,p.Gly35Arg,ENST00000543508,;TPRX1,missense_variant,p.Gly35Arg,ENST00000322175,;TPRX1,missense_variant,p.Gly132Arg,ENST00000535759,;	T	ENSG00000178928	ENST00000322175	Transcript	missense_variant	259	103	35	G/R	Ggg/Agg	.	.	.	-1	TPRX1	HGNC	32174	protein_coding	YES	CCDS33066.1	ENSP00000323455	TPRX1_HUMAN	.	UPI0000198666	.	deleterious_low_confidence(0.03)	unknown(0)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22979,hmmpanther:PTHR22979:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCCCAGGGA	.	2	BLCA
SPHK2	0	.	GRCh37	19	49132555	49132555	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1490C>G	p.Ser497Cys	p.S497C	ENST00000245222	7/7	112	71	41	133	133	0	SPHK2,missense_variant,p.Ser459Cys,ENST00000340932,;SPHK2,missense_variant,p.Ser461Cys,ENST00000599748,;SPHK2,missense_variant,p.Ser497Cys,ENST00000245222,;SPHK2,missense_variant,p.Ser497Cys,ENST00000598088,;SPHK2,missense_variant,p.Ser438Cys,ENST00000600537,;SPHK2,missense_variant,p.Ser559Cys,ENST00000443164,;SPHK2,missense_variant,p.Ser461Cys,ENST00000599029,;SPHK2,downstream_gene_variant,,ENST00000601704,;DBP,downstream_gene_variant,,ENST00000601104,;DBP,downstream_gene_variant,,ENST00000222122,;SPHK2,downstream_gene_variant,,ENST00000593308,;SPHK2,downstream_gene_variant,,ENST00000601712,;DBP,downstream_gene_variant,,ENST00000593500,;DBP,downstream_gene_variant,,ENST00000599385,;SPHK2,downstream_gene_variant,,ENST00000599033,;SPHK2,3_prime_UTR_variant,,ENST00000426514,;SPHK2,intron_variant,,ENST00000597434,;DBP,downstream_gene_variant,,ENST00000594723,;SPHK2,downstream_gene_variant,,ENST00000598574,;	G	ENSG00000063176	ENST00000245222	Transcript	missense_variant	1856	1490	497	S/C	tCt/tGt	.	.	.	1	SPHK2	HGNC	18859	protein_coding	YES	CCDS12727.1	ENSP00000245222	SPHK2_HUMAN	Q8N2M3_HUMAN,M0R0E9_HUMAN,M0QZP3_HUMAN,M0QXX5_HUMAN	UPI0000135E14	.	tolerated(0.07)	benign(0.01)	7/7	.	hmmpanther:PTHR12358:SF12,hmmpanther:PTHR12358	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTCTGGGC	.	5	BLCA
IL4I1	0	.	GRCh37	19	50399170	50399170	+	Missense_Mutation	SNP	C	C	G	rs761856091	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.220G>C	p.Gly74Arg	p.G74R	ENST00000595948	5/10	146	105	41	197	197	0	IL4I1,missense_variant,p.Gly74Arg,ENST00000596022,;IL4I1,missense_variant,p.Gly74Arg,ENST00000341114,;IL4I1,missense_variant,p.Gly74Arg,ENST00000595948,;IL4I1,missense_variant,p.Gly52Arg,ENST00000597295,;IL4I1,missense_variant,p.Gly52Arg,ENST00000391826,;IL4I1,intron_variant,,ENST00000593956,;IL4I1,downstream_gene_variant,,ENST00000596011,;IL4I1,3_prime_UTR_variant,,ENST00000601717,;	G	ENSG00000104951	ENST00000595948	Transcript	missense_variant	841	220	74	G/R	Ggg/Cgg	rs761856091	.	.	-1	IL4I1	HGNC	19094	protein_coding	YES	CCDS12786.1	ENSP00000472474	OXLA_HUMAN	M0R1L1_HUMAN	UPI00001678CE	.	deleterious(0)	probably_damaging(0.999)	5/10	.	hmmpanther:PTHR10742:SF21,hmmpanther:PTHR10742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCCCCCAGG	.	5	BLCA
KLK11	0	.	GRCh37	19	51525914	51525914	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>G	p.Gln246Glu	p.Q246E	ENST00000594768	6/6	79	59	19	100	100	0	KLK11,missense_variant,p.Gln246Glu,ENST00000594768,;KLK11,missense_variant,p.Gln214Glu,ENST00000319720,;KLK11,missense_variant,p.Gln214Glu,ENST00000453757,;KLK11,missense_variant,p.Gln73Glu,ENST00000600362,;KLK11,missense_variant,p.Gln105Glu,ENST00000593681,;KLK11,missense_variant,p.Gln239Glu,ENST00000391804,;KLK10,upstream_gene_variant,,ENST00000391805,;KLK10,upstream_gene_variant,,ENST00000599077,;KLK11,downstream_gene_variant,,ENST00000601671,;KLK10,upstream_gene_variant,,ENST00000309958,;KLK11,downstream_gene_variant,,ENST00000598799,;KLK10,upstream_gene_variant,,ENST00000358789,;KLK11,downstream_gene_variant,,ENST00000594458,;KLK11,3_prime_UTR_variant,,ENST00000319756,;KLK11,downstream_gene_variant,,ENST00000594827,;KLK10,upstream_gene_variant,,ENST00000601467,;	C	ENSG00000167757	ENST00000594768	Transcript	missense_variant	922	736	246	Q/E	Caa/Gaa	.	.	.	-1	KLK11	HGNC	6359	protein_coding	YES	CCDS12818.1	ENSP00000473047	KLK11_HUMAN	M0QZV0_HUMAN,M0QZI8_HUMAN	UPI000002ACDC	.	deleterious(0.02)	probably_damaging(0.999)	6/6	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24275:SF13,hmmpanther:PTHR24275,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTGAAGAG	.	5	BLCA
KIR3DL2	0	.	GRCh37	19	55365484	55365484	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.638T>A	p.Leu213Gln	p.L213Q	ENST00000326321	4/9	23	10	13	21	21	0	KIR3DL2,missense_variant,p.Leu213Gln,ENST00000270442,;KIR3DL2,missense_variant,p.Leu213Gln,ENST00000326321,;KIR3DL1,intron_variant,,ENST00000402254,;	A	ENSG00000240403	ENST00000326321	Transcript	missense_variant	671	638	213	L/Q	cTg/cAg	.	.	.	1	KIR3DL2	HGNC	6339	protein_coding	YES	CCDS12906.1	ENSP00000325525	KI3L2_HUMAN	O78200_HUMAN,E4W3V6_HUMAN,A7YL13_HUMAN	UPI000012DB25	.	deleterious(0)	possibly_damaging(0.802)	4/9	.	hmmpanther:PTHR11738:SF19,hmmpanther:PTHR11738,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCCCCTGGACA	.	3	BLCA
NLRP4	0	.	GRCh37	19	56373457	56373457	+	Silent	SNP	C	C	G	.	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2118C>G	p.%3D	p.L706L	ENST00000301295	5/10	76	47	28	80	80	0	NLRP4,synonymous_variant,p.%3D,ENST00000589437,;NLRP4,synonymous_variant,p.%3D,ENST00000301295,;NLRP4,synonymous_variant,p.%3D,ENST00000346986,;NLRP4,synonymous_variant,p.%3D,ENST00000587891,;NLRP4,downstream_gene_variant,,ENST00000587464,;	G	ENSG00000160505	ENST00000301295	Transcript	synonymous_variant	2540	2118	706	L	ctC/ctG	COSM3539717,COSM3539718	.	.	1	NLRP4	HGNC	22943	protein_coding	YES	CCDS12936.1	ENSP00000301295	NALP4_HUMAN	K7ES09_HUMAN	UPI000013E6FD	.	.	.	5/10	.	hmmpanther:PTHR24106:SF8,hmmpanther:PTHR24106,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R708H|c.2123G>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACTCTCTCG	.	5	BLCA
ARHGEF18	0	.	GRCh37	19	7527093	7527093	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1944G>T	p.Gln648His	p.Q648H	ENST00000359920	11/20	93	62	31	156	156	0	ARHGEF18,missense_variant,p.Gln648His,ENST00000359920,;ARHGEF18,missense_variant,p.Gln293His,ENST00000594665,;ARHGEF18,missense_variant,p.Gln490His,ENST00000319670,;CTD-2207O23.3,missense_variant,p.Gln606His,ENST00000593531,;	T	ENSG00000104880	ENST00000359920	Transcript	missense_variant	2197	1944	648	Q/H	caG/caT	.	.	.	1	ARHGEF18	HGNC	17090	protein_coding	YES	CCDS45946.1	ENSP00000352995	ARHGI_HUMAN	M0R125_HUMAN	UPI0000D6170D	.	tolerated(0.31)	benign(0.039)	11/20	.	hmmpanther:PTHR22825,hmmpanther:PTHR22825:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCAGATCTA	.	5	BLCA
COL11A1	0	.	GRCh37	1	103471860	103471860	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1695C>T	p.%3D	p.G565G	ENST00000370096	16/67	44	32	12	48	48	0	COL11A1,synonymous_variant,p.%3D,ENST00000512756,;COL11A1,synonymous_variant,p.%3D,ENST00000353414,;COL11A1,synonymous_variant,p.%3D,ENST00000370096,;COL11A1,synonymous_variant,p.%3D,ENST00000358392,;COL11A1,downstream_gene_variant,,ENST00000427239,;COL11A1,non_coding_transcript_exon_variant,,ENST00000461720,;COL11A1,upstream_gene_variant,,ENST00000475980,;	A	ENSG00000060718	ENST00000370096	Transcript	synonymous_variant	2008	1695	565	G	ggC/ggT	.	.	.	-1	COL11A1	HGNC	2186	protein_coding	YES	CCDS778.1	ENSP00000359114	COBA1_HUMAN	Q4FAC4_HUMAN,B4DQZ0_HUMAN	UPI00002053EF	.	.	.	16/67	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023:SF42,hmmpanther:PTHR24023,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGACGCCTCG	.	5	BLCA
VANGL2	0	.	GRCh37	1	160394991	160394991	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1389G>A	p.%3D	p.V463V	ENST00000368061	8/8	48	26	22	33	33	0	VANGL2,synonymous_variant,p.%3D,ENST00000368061,;VANGL2,downstream_gene_variant,,ENST00000483408,;	A	ENSG00000162738	ENST00000368061	Transcript	synonymous_variant	1863	1389	463	V	gtG/gtA	.	.	.	1	VANGL2	HGNC	15511	protein_coding	YES	CCDS30915.1	ENSP00000357040	VANG2_HUMAN	.	UPI00001C1D79	.	.	.	8/8	.	hmmpanther:PTHR20886,hmmpanther:PTHR20886:SF10,Pfam_domain:PF06638,PIRSF_domain:PIRSF007991	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGTGAGCGA	.	5	BLCA
NBPF1	0	.	GRCh37	1	16893821	16893821	+	Nonsense_Mutation	SNP	T	T	A	rs772026413	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2692A>T	p.Lys898Ter	p.K898*	ENST00000430580	25/29	1007	977	29	601	601	0	NBPF1,stop_gained,p.Lys898Ter,ENST00000430580,;NBPF1,3_prime_UTR_variant,,ENST00000420031,;NBPF1,3_prime_UTR_variant,,ENST00000432949,;NBPF1,downstream_gene_variant,,ENST00000287968,;NBPF1,3_prime_UTR_variant,,ENST00000392963,;	A	ENSG00000219481	ENST00000430580	Transcript	stop_gained	3580	2692	898	K/*	Aaa/Taa	rs772026413	.	.	-1	NBPF1	HGNC	26088	protein_coding	YES	.	ENSP00000474456	.	S4R3W5_HUMAN,S4R3K2_HUMAN,S4R3H5_HUMAN,Q3BBU8_HUMAN	UPI0000E04FDF	.	.	.	25/29	.	PROSITE_profiles:PS51316,hmmpanther:PTHR14199:SF16,hmmpanther:PTHR14199,Pfam_domain:PF06758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTTTCTCAT	byFrequency	2	BLCA
KCNT2	0	.	GRCh37	1	196309666	196309666	+	Missense_Mutation	SNP	C	C	T	rs775316374	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1588G>A	p.Asp530Asn	p.D530N	ENST00000294725	16/28	54	31	22	17	17	0	KCNT2,missense_variant,p.Asp530Asn,ENST00000294725,;KCNT2,missense_variant,p.Asp530Asn,ENST00000367433,;KCNT2,missense_variant,p.Asp480Asn,ENST00000367431,;KCNT2,missense_variant,p.Asp480Asn,ENST00000609185,;KCNT2,missense_variant,p.Asp141Asn,ENST00000451324,;KCNT2,non_coding_transcript_exon_variant,,ENST00000498426,;KCNT2,non_coding_transcript_exon_variant,,ENST00000610076,;KCNT2,3_prime_UTR_variant,,ENST00000466914,;	T	ENSG00000162687	ENST00000294725	Transcript	missense_variant	2504	1588	530	D/N	Gat/Aat	rs775316374,COSM3480723,COSM3480724	.	.	-1	KCNT2	HGNC	18866	protein_coding	YES	CCDS1384.1	ENSP00000294725	KCNT2_HUMAN	A9LNM6_HUMAN	UPI00001E0966	.	deleterious(0.05)	benign(0.201)	16/28	.	hmmpanther:PTHR10027,hmmpanther:PTHR10027:SF9	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTATCCTCCC	.	5	BLCA
CFHR4	0	.	GRCh37	1	196884265	196884265	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1534A>T	p.Ile512Leu	p.I512L	ENST00000367416	9/10	96	76	20	95	95	0	CFHR4,missense_variant,p.Ile512Leu,ENST00000367416,;CFHR4,missense_variant,p.Ile266Leu,ENST00000367418,;CFHR4,missense_variant,p.Ile266Leu,ENST00000251424,;CFHR4,missense_variant,p.Ile136Leu,ENST00000608469,;CFHR2,intron_variant,,ENST00000367421,;	T	ENSG00000134365	ENST00000367416	Transcript	missense_variant	1671	1534	512	I/L	Ata/Tta	.	.	.	1	CFHR4	HGNC	16979	protein_coding	YES	CCDS55671.1	ENSP00000356386	FHR4_HUMAN	.	UPI0001F6C576	.	tolerated(1)	benign(0.196)	9/10	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF328,Gene3D:2.10.70.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GATGCATACGT	.	3	BLCA
ELF3	0	.	GRCh37	1	201984341	201984342	+	Nonsense_Mutation	INS	-	-	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1007dupA	p.Tyr336Ter	p.Y336*	ENST00000359651	8/8	92	63	29	72	72	0	ELF3,stop_gained,p.Tyr336Ter,ENST00000367284,;ELF3,stop_gained,p.Tyr336Ter,ENST00000359651,;ELF3,stop_gained,p.Tyr336Ter,ENST00000367283,;ELF3,downstream_gene_variant,,ENST00000446188,;RP11-510N19.5,non_coding_transcript_exon_variant,,ENST00000504773,;RP11-465N4.4,upstream_gene_variant,,ENST00000419190,;ELF3,non_coding_transcript_exon_variant,,ENST00000475698,;ELF3,downstream_gene_variant,,ENST00000479874,;ELF3,downstream_gene_variant,,ENST00000490203,;ELF3,downstream_gene_variant,,ENST00000498017,;ELF3,downstream_gene_variant,,ENST00000470384,;ELF3,downstream_gene_variant,,ENST00000495848,;	A	ENSG00000163435	ENST00000359651	Transcript	stop_gained	4198-4199	1006-1007	336	Y/*	tac/tAac	.	.	.	1	ELF3	HGNC	3318	protein_coding	YES	CCDS1419.1	ENSP00000352673	ELF3_HUMAN	.	UPI0000034E32	.	.	.	8/8	.	PROSITE_profiles:PS50061,hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF13,Gene3D:1.10.10.10,Pfam_domain:PF00178,SMART_domains:SM00413,Superfamily_domains:SSF46785,Prints_domain:PR00454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGTACTACTAC	.	3	BLCA
OPTC	0	.	GRCh37	1	203466222	203466222	+	Silent	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.349C>T	p.%3D	p.L117L	ENST00000367222	3/8	44	19	24	36	36	0	OPTC,synonymous_variant,p.%3D,ENST00000448911,;OPTC,synonymous_variant,p.%3D,ENST00000367222,;	T	ENSG00000188770	ENST00000367222	Transcript	synonymous_variant	465	349	117	L	Ctg/Ttg	.	.	.	1	OPTC	HGNC	8158	protein_coding	YES	CCDS1439.1	ENSP00000356191	OPT_HUMAN	.	UPI00000015D9	.	.	.	3/8	.	hmmpanther:PTHR24370	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTACTGAGT	.	5	BLCA
KIF17	0	.	GRCh37	1	21024914	21024914	+	Silent	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1191G>A	p.%3D	p.V397V	ENST00000247986	6/15	50	33	16	65	65	0	KIF17,synonymous_variant,p.%3D,ENST00000247986,;KIF17,synonymous_variant,p.%3D,ENST00000400463,;KIF17,synonymous_variant,p.%3D,ENST00000375044,;KIF17,non_coding_transcript_exon_variant,,ENST00000490034,;RP5-930J4.5,upstream_gene_variant,,ENST00000440621,;	T	ENSG00000117245	ENST00000247986	Transcript	synonymous_variant	1502	1191	397	V	gtG/gtA	.	.	.	-1	KIF17	HGNC	19167	protein_coding	YES	CCDS213.1	ENSP00000247986	KIF17_HUMAN	.	UPI0000185F1A	.	.	.	6/15	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF415	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATCACAGG	.	5	BLCA
DISP1	0	.	GRCh37	1	223179094	223179094	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4355C>T	p.Ser1452Leu	p.S1452L	ENST00000284476	8/8	61	47	13	53	53	0	DISP1,missense_variant,p.Ser1452Leu,ENST00000284476,;	T	ENSG00000154309	ENST00000284476	Transcript	missense_variant	4519	4355	1452	S/L	tCa/tTa	.	.	.	1	DISP1	HGNC	19711	protein_coding	YES	CCDS1536.1	ENSP00000284476	DISP1_HUMAN	.	UPI000016069D	.	tolerated_low_confidence(0.18)	benign(0.004)	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACTCAGAAC	.	5	BLCA
PYCR2	0	.	GRCh37	1	226109569	226109569	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529G>A	p.Gly177Arg	p.G177R	ENST00000343818	4/7	20	14	5	26	26	0	PYCR2,missense_variant,p.Gly177Arg,ENST00000343818,;RP4-559A3.7,intron_variant,,ENST00000432920,;PYCR2,non_coding_transcript_exon_variant,,ENST00000489681,;PYCR2,non_coding_transcript_exon_variant,,ENST00000478402,;PYCR2,non_coding_transcript_exon_variant,,ENST00000466127,;PYCR2,downstream_gene_variant,,ENST00000472798,;PYCR2,downstream_gene_variant,,ENST00000467298,;PYCR2,non_coding_transcript_exon_variant,,ENST00000446534,;PYCR2,downstream_gene_variant,,ENST00000366823,;	T	ENSG00000143811	ENST00000343818	Transcript	missense_variant	678	529	177	G/R	Ggg/Agg	.	.	.	-1	PYCR2	HGNC	30262	protein_coding	YES	CCDS31043.1	ENSP00000342502	P5CR2_HUMAN	B3KMB7_HUMAN	UPI000006F2BB	.	deleterious(0)	probably_damaging(0.994)	4/7	.	hmmpanther:PTHR11645:SF4,hmmpanther:PTHR11645,Pfam_domain:PF14748,TIGRFAM_domain:TIGR00112,Gene3D:2ahrA02,PIRSF_domain:PIRSF000193,Superfamily_domains:SSF48179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCCGCTGC	.	5	BLCA
OR2M2	0	.	GRCh37	1	248343675	248343675	+	Silent	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.388C>T	p.%3D	p.L130L	ENST00000359682	1/1	355	242	112	237	237	0	OR2M2,synonymous_variant,p.%3D,ENST00000359682,;	T	ENSG00000198601	ENST00000359682	Transcript	synonymous_variant	388	388	130	L	Cta/Tta	.	.	.	1	OR2M2	HGNC	8268	protein_coding	YES	CCDS31106.1	ENSP00000352710	OR2M2_HUMAN	.	UPI00001612E4	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF204,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTCTAAGA	.	5	BLCA
KIAA1522	0	.	GRCh37	1	33236374	33236374	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1594C>T	p.Gln532Ter	p.Q532*	ENST00000401073	6/7	14	8	6	24	24	0	KIAA1522,stop_gained,p.Gln484Ter,ENST00000373481,;KIAA1522,stop_gained,p.Gln473Ter,ENST00000373480,;KIAA1522,stop_gained,p.Gln532Ter,ENST00000401073,;KIAA1522,intron_variant,,ENST00000294521,;YARS,downstream_gene_variant,,ENST00000373477,;YARS,downstream_gene_variant,,ENST00000487404,;YARS,downstream_gene_variant,,ENST00000469100,;YARS,downstream_gene_variant,,ENST00000490826,;KIAA1522,downstream_gene_variant,,ENST00000468130,;	T	ENSG00000162522	ENST00000401073	Transcript	stop_gained	1664	1594	532	Q/*	Cag/Tag	COSM1290184	.	.	1	KIAA1522	HGNC	29301	protein_coding	YES	CCDS41298.1	ENSP00000383851	K1522_HUMAN	.	UPI000022ACD0	.	.	.	6/7	.	hmmpanther:PTHR23039,hmmpanther:PTHR23039:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCCCAGCTG	.	5	BLCA
ADPRHL2	0	.	GRCh37	1	36557423	36557423	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513G>A	p.%3D	p.Q171Q	ENST00000373178	3/6	54	39	15	76	76	0	ADPRHL2,synonymous_variant,p.%3D,ENST00000373178,;COL8A2,downstream_gene_variant,,ENST00000303143,;TEKT2,downstream_gene_variant,,ENST00000207457,;TEKT2,downstream_gene_variant,,ENST00000473120,;COL8A2,downstream_gene_variant,,ENST00000397799,;TEKT2,downstream_gene_variant,,ENST00000469024,;	A	ENSG00000116863	ENST00000373178	Transcript	synonymous_variant	543	513	171	Q	caG/caA	.	.	.	1	ADPRHL2	HGNC	21304	protein_coding	YES	CCDS402.1	ENSP00000362273	ARHL2_HUMAN	B7ZAN4_HUMAN,B4DHV5_HUMAN	UPI0000039EBB	.	.	.	3/6	.	hmmpanther:PTHR16222,hmmpanther:PTHR16222:SF12,Pfam_domain:PF03747,Superfamily_domains:0043888	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCAGAAGGT	.	5	BLCA
ZCCHC11	0	.	GRCh37	1	52991327	52991327	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.626C>G	p.Ser209Ter	p.S209*	ENST00000257177	2/30	177	98	79	181	181	0	ZCCHC11,stop_gained,p.Ser209Ter,ENST00000355809,;ZCCHC11,stop_gained,p.Ser209Ter,ENST00000257177,;ZCCHC11,stop_gained,p.Ser209Ter,ENST00000371544,;ZCCHC11,stop_gained,p.Ser209Ter,ENST00000528642,;ZCCHC11,intron_variant,,ENST00000484723,;ZCCHC11,downstream_gene_variant,,ENST00000470626,;ZCCHC11,downstream_gene_variant,,ENST00000524582,;ZCCHC11,non_coding_transcript_exon_variant,,ENST00000371541,;ZCCHC11,stop_gained,p.Ser209Ter,ENST00000473856,;	C	ENSG00000134744	ENST00000257177	Transcript	stop_gained	771	626	209	S/*	tCa/tGa	.	.	.	-1	ZCCHC11	HGNC	28981	protein_coding	YES	CCDS30715.1	ENSP00000257177	TUT4_HUMAN	H0YEY0_HUMAN,E9PQS7_HUMAN,E9PJN7_HUMAN	UPI00001D7D0C	.	.	.	2/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTGAGTTT	.	5	BLCA
DNAJC6	0	.	GRCh37	1	65871788	65871788	+	Silent	SNP	C	C	T	rs193114909	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2463C>T	p.%3D	p.N821N	ENST00000371069	16/19	66	41	25	71	71	0	DNAJC6,synonymous_variant,p.%3D,ENST00000371069,;DNAJC6,synonymous_variant,p.%3D,ENST00000395325,;DNAJC6,synonymous_variant,p.%3D,ENST00000263441,;	T	ENSG00000116675	ENST00000371069	Transcript	synonymous_variant	2664	2463	821	N	aaC/aaT	rs193114909	.	.	1	DNAJC6	HGNC	15469	protein_coding	YES	CCDS58004.1	ENSP00000360108	AUXI_HUMAN	.	UPI000022AE8A	.	.	.	16/19	.	hmmpanther:PTHR23172,hmmpanther:PTHR23172:SF4,Superfamily_domains:SSF46565	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAACGAACG	byCluster|by1000G	5	BLCA
ZZZ3	0	.	GRCh37	1	78097992	78097992	+	Missense_Mutation	SNP	C	C	T	rs368164592	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Gly350Arg	p.G350R	ENST00000370801	5/15	91	61	29	44	44	0	ZZZ3,missense_variant,p.Gly350Arg,ENST00000370801,;ZZZ3,intron_variant,,ENST00000370798,;ZZZ3,downstream_gene_variant,,ENST00000433749,;ZZZ3,downstream_gene_variant,,ENST00000414381,;ZZZ3,non_coding_transcript_exon_variant,,ENST00000476275,;ZZZ3,downstream_gene_variant,,ENST00000463166,;ZZZ3,upstream_gene_variant,,ENST00000481346,;	T	ENSG00000036549	ENST00000370801	Transcript	missense_variant	1524	1048	350	G/R	Gga/Aga	rs368164592,COSM1234875	.	.	-1	ZZZ3	HGNC	24523	protein_coding	YES	CCDS677.1	ENSP00000359837	ZZZ3_HUMAN	C9JUA4_HUMAN,C9J283_HUMAN	UPI0000074256	.	deleterious(0.01)	benign(0.013)	5/15	.	hmmpanther:PTHR22705	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCCGGAGG	byCluster	5	BLCA
LPPR4	0	.	GRCh37	1	99767391	99767391	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.905delA	p.Lys302ArgfsTer12	p.K302Rfs*12	ENST00000370185	6/7	95	72	23	26	26	0	LPPR4,frameshift_variant,p.Lys302ArgfsTer12,ENST00000370185,;LPPR4,frameshift_variant,p.Lys144ArgfsTer12,ENST00000370184,;LPPR4,intron_variant,,ENST00000457765,;	-	ENSG00000117600	ENST00000370185	Transcript	frameshift_variant	1401	904	302	K/X	Aag/ag	.	.	.	1	LPPR4	Uniprot_gn	.	protein_coding	YES	CCDS757.1	ENSP00000359204	LPPR4_HUMAN	.	UPI0000161229	.	.	.	6/7	.	hmmpanther:PTHR10165:SF13,hmmpanther:PTHR10165,Pfam_domain:PF01569,Gene3D:1.20.144.10,SMART_domains:SM00014,Superfamily_domains:SSF48317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGTATAAGAAC	.	3	BLCA
KIF16B	0	.	GRCh37	20	16553909	16553909	+	Silent	SNP	G	G	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12C>A	p.%3D	p.V4V	ENST00000408042	1/23	11	8	3	22	22	0	KIF16B,synonymous_variant,p.%3D,ENST00000408042,;KIF16B,synonymous_variant,p.%3D,ENST00000354981,;KIF16B,synonymous_variant,p.%3D,ENST00000355755,;KIF16B,5_prime_UTR_variant,,ENST00000378003,;	T	ENSG00000089177	ENST00000408042	Transcript	synonymous_variant	170	12	4	V	gtC/gtA	.	.	.	-1	KIF16B	HGNC	15869	protein_coding	YES	CCDS56178.1	ENSP00000384164	KI16B_HUMAN	.	UPI00003BF77C	.	.	.	1/23	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF400,hmmpanther:PTHR24115,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTGACCGA	.	2	BLCA
PTPRT	0	.	GRCh37	20	41100919	41100919	+	Silent	SNP	C	C	T	rs74167780	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1437G>A	p.%3D	p.Q479Q	ENST00000373187	8/31	62	35	27	61	60	1	PTPRT,synonymous_variant,p.%3D,ENST00000373201,;PTPRT,synonymous_variant,p.%3D,ENST00000356100,;PTPRT,synonymous_variant,p.%3D,ENST00000373198,;PTPRT,synonymous_variant,p.%3D,ENST00000373193,;PTPRT,synonymous_variant,p.%3D,ENST00000373184,;PTPRT,synonymous_variant,p.%3D,ENST00000373190,;PTPRT,synonymous_variant,p.%3D,ENST00000373187,;	T	ENSG00000196090	ENST00000373187	Transcript	synonymous_variant	1437	1437	479	Q	caG/caA	rs74167780,COSM1411871	.	.	-1	PTPRT	HGNC	9682	protein_coding	YES	CCDS42874.1	ENSP00000362283	PTPRT_HUMAN	.	UPI0000246C03	.	.	.	8/31	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF208,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGTCTGCAC	.	5	BLCA
ZSWIM1	0	.	GRCh37	20	44512534	44512534	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1303G>A	p.Glu435Lys	p.E435K	ENST00000372523	2/2	68	42	26	84	84	0	ZSWIM1,missense_variant,p.Glu435Lys,ENST00000372520,;ZSWIM1,missense_variant,p.Glu435Lys,ENST00000372523,;NEURL2,downstream_gene_variant,,ENST00000372518,;NEURL2,downstream_gene_variant,,ENST00000545238,;ZSWIM3,downstream_gene_variant,,ENST00000454862,;SPATA25,downstream_gene_variant,,ENST00000372519,;ZSWIM3,downstream_gene_variant,,ENST00000255152,;	A	ENSG00000168612	ENST00000372523	Transcript	missense_variant	1398	1303	435	E/K	Gag/Aag	.	.	.	1	ZSWIM1	HGNC	16155	protein_coding	YES	CCDS13382.2	ENSP00000361601	ZSWM1_HUMAN	A8K5I9_HUMAN	UPI0000470896	.	tolerated(0.08)	benign(0.118)	2/2	.	hmmpanther:PTHR31569,hmmpanther:PTHR31569:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGTGAGACC	.	5	BLCA
SULF2	0	.	GRCh37	20	46290558	46290558	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2453G>A	p.Gly818Asp	p.G818D	ENST00000359930	18/21	83	52	30	116	116	0	SULF2,missense_variant,p.Gly818Asp,ENST00000359930,;SULF2,missense_variant,p.Gly818Asp,ENST00000484875,;SULF2,missense_variant,p.Gly818Asp,ENST00000361612,;SULF2,missense_variant,p.Gly173Asp,ENST00000495544,;SULF2,missense_variant,p.Gly818Asp,ENST00000467815,;NCOA3,downstream_gene_variant,,ENST00000341724,;NCOA3,downstream_gene_variant,,ENST00000372004,;SULF2,non_coding_transcript_exon_variant,,ENST00000433632,;SULF2,upstream_gene_variant,,ENST00000479472,;SULF2,upstream_gene_variant,,ENST00000479970,;	T	ENSG00000196562	ENST00000359930	Transcript	missense_variant	3305	2453	818	G/D	gGt/gAt	.	.	.	-1	SULF2	HGNC	20392	protein_coding	YES	CCDS13408.1	ENSP00000353007	SULF2_HUMAN	Q5BKT1_HUMAN,B1AMP9_HUMAN	UPI000003FFBA	.	deleterious(0)	probably_damaging(0.998)	18/21	.	hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF67,PIRSF_domain:PIRSF036665,Superfamily_domains:SSF53649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTAACCCTTG	.	5	BLCA
UMODL1	0	.	GRCh37	21	43535990	43535990	+	Silent	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2754G>C	p.%3D	p.R918R	ENST00000408989	13/22	33	25	8	38	38	0	UMODL1,synonymous_variant,p.%3D,ENST00000408910,;UMODL1,synonymous_variant,p.%3D,ENST00000408989,;UMODL1,synonymous_variant,p.%3D,ENST00000400424,;UMODL1,synonymous_variant,p.%3D,ENST00000400427,;UMODL1,non_coding_transcript_exon_variant,,ENST00000475047,;UMODL1,upstream_gene_variant,,ENST00000484174,;UMODL1,upstream_gene_variant,,ENST00000400423,;	C	ENSG00000177398	ENST00000408989	Transcript	synonymous_variant	2754	2754	918	R	cgG/cgC	.	.	.	1	UMODL1	HGNC	12560	protein_coding	YES	CCDS42935.1	ENSP00000386126	UROL1_HUMAN	Q6L9N9_HUMAN	UPI0000D6254B	.	.	.	13/22	.	hmmpanther:PTHR22962,hmmpanther:PTHR22962:SF135,PROSITE_profiles:PS50024,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCGGAAGCT	.	5	BLCA
KRTAP10-7	0	.	GRCh37	21	46020934	46020934	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.413C>G	p.Ser138Cys	p.S138C	ENST00000380102	1/1	184	130	54	236	236	0	KRTAP10-7,missense_variant,p.Ser138Cys,ENST00000380102,;TSPEAR,intron_variant,,ENST00000323084,;AL773602.1,non_coding_transcript_exon_variant,,ENST00000339001,;	G	ENSG00000205441	ENST00000380102	Transcript	missense_variant	438	413	138	S/C	tCt/tGt	.	.	.	1	KRTAP10-7	HGNC	22970	protein_coding	YES	.	ENSP00000369445	KR107_HUMAN	.	UPI000036709B	.	deleterious(0.01)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23262:SF40,hmmpanther:PTHR23262,Pfam_domain:PF13885	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATTCTTCAT	.	5	BLCA
HIRA	0	.	GRCh37	22	19363188	19363188	+	Missense_Mutation	SNP	C	C	A	rs116694036	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1741G>T	p.Ala581Ser	p.A581S	ENST00000263208	15/25	48	31	16	72	72	0	HIRA,missense_variant,p.Ala537Ser,ENST00000541063,;HIRA,missense_variant,p.Ala581Ser,ENST00000340170,;HIRA,missense_variant,p.Ala581Ser,ENST00000263208,;HIRA,missense_variant,p.Ala537Ser,ENST00000546308,;C22orf39,3_prime_UTR_variant,,ENST00000509549,;	A	ENSG00000100084	ENST00000263208	Transcript	missense_variant	1998	1741	581	A/S	Gcc/Tcc	rs116694036,COSM4102570	.	.	-1	HIRA	HGNC	4916	protein_coding	YES	CCDS13759.1	ENSP00000263208	HIRA_HUMAN	F5H4M2_HUMAN	UPI0000074373	.	tolerated(0.73)	benign(0.003)	15/25	.	hmmpanther:PTHR13831:SF0,hmmpanther:PTHR13831	T:0.0012	T:0	T:0	.	T:0.006	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGGCAGGAG	byFrequency|byCluster|by1000G	5	BLCA
MEI1	0	.	GRCh37	22	42180390	42180390	+	Silent	SNP	C	C	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3135C>A	p.%3D	p.L1045L	ENST00000401548	25/31	28	16	11	44	44	0	MEI1,synonymous_variant,p.%3D,ENST00000300398,;MEI1,synonymous_variant,p.%3D,ENST00000403492,;MEI1,synonymous_variant,p.%3D,ENST00000401548,;MEI1,synonymous_variant,p.%3D,ENST00000400107,;MEI1,downstream_gene_variant,,ENST00000540880,;MEI1,non_coding_transcript_exon_variant,,ENST00000484966,;MEI1,non_coding_transcript_exon_variant,,ENST00000476893,;MEI1,intron_variant,,ENST00000487535,;MEI1,downstream_gene_variant,,ENST00000462246,;MEI1,downstream_gene_variant,,ENST00000498456,;MEI1,downstream_gene_variant,,ENST00000462450,;MEI1,downstream_gene_variant,,ENST00000473736,;	A	ENSG00000167077	ENST00000401548	Transcript	synonymous_variant	3175	3135	1045	L	ctC/ctA	.	.	.	1	MEI1	HGNC	28613	protein_coding	YES	CCDS46718.1	ENSP00000384115	MEI1_HUMAN	.	UPI00006E232C	.	.	.	25/31	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12044,hmmpanther:PTHR12044:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCAGCTT	.	5	BLCA
IWS1	0	.	GRCh37	2	128263050	128263050	+	Silent	SNP	T	T	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429A>T	p.%3D	p.A143A	ENST00000295321	3/14	95	59	36	93	93	0	IWS1,synonymous_variant,p.%3D,ENST00000295321,;IWS1,synonymous_variant,p.%3D,ENST00000455721,;IWS1,synonymous_variant,p.%3D,ENST00000409725,;AC010976.2,intron_variant,,ENST00000599001,;IWS1,non_coding_transcript_exon_variant,,ENST00000460511,;IWS1,non_coding_transcript_exon_variant,,ENST00000495369,;IWS1,non_coding_transcript_exon_variant,,ENST00000486662,;IWS1,non_coding_transcript_exon_variant,,ENST00000483889,;IWS1,non_coding_transcript_exon_variant,,ENST00000478949,;IWS1,non_coding_transcript_exon_variant,,ENST00000479083,;IWS1,downstream_gene_variant,,ENST00000436740,;IWS1,upstream_gene_variant,,ENST00000497888,;	A	ENSG00000163166	ENST00000295321	Transcript	synonymous_variant	689	429	143	A	gcA/gcT	.	.	.	-1	IWS1	HGNC	25467	protein_coding	YES	CCDS2146.1	ENSP00000295321	IWS1_HUMAN	.	UPI000006EA82	.	.	.	3/14	.	hmmpanther:PTHR22908:SF56,hmmpanther:PTHR22908	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTTGCATG	.	5	BLCA
LRP2	0	.	GRCh37	2	170060776	170060776	+	Missense_Mutation	SNP	C	C	T	rs149675661	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7721G>A	p.Arg2574Lys	p.R2574K	ENST00000263816	42/79	178	115	63	105	105	0	LRP2,missense_variant,p.Arg2574Lys,ENST00000263816,;	T	ENSG00000081479	ENST00000263816	Transcript	missense_variant	8007	7721	2574	R/K	aGg/aAg	rs149675661	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	benign(0.002)	42/79	.	PROSITE_profiles:PS51120,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF220,Gene3D:2.120.10.30,Pfam_domain:PF00058,SMART_domains:SM00135,Superfamily_domains:SSF63825	G:0.0008	G:0.003	G:0	.	G:0	G:0	G:0	G:0.0009	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATCCTCTGC	byFrequency|byCluster|by1000G	5	BLCA
KLHL41	0	.	GRCh37	2	170366815	170366815	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527C>T	p.Pro176Leu	p.P176L	ENST00000284669	1/6	143	101	41	142	142	0	KLHL41,missense_variant,p.Pro176Leu,ENST00000284669,;RP11-724O16.1,intron_variant,,ENST00000513963,;BBS5,intron_variant,,ENST00000554017,;BBS5,downstream_gene_variant,,ENST00000392663,;BBS5,downstream_gene_variant,,ENST00000295240,;KLHL41,upstream_gene_variant,,ENST00000463400,;KLHL41,upstream_gene_variant,,ENST00000480330,;BBS5,downstream_gene_variant,,ENST00000472667,;	T	ENSG00000239474	ENST00000284669	Transcript	missense_variant	604	527	176	P/L	cCa/cTa	.	.	.	1	KLHL41	HGNC	16905	protein_coding	YES	CCDS2234.1	ENSP00000284669	KLH41_HUMAN	.	UPI0000000DC5	.	tolerated(0.15)	possibly_damaging(0.734)	1/6	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF146,Pfam_domain:PF07707,SMART_domains:SM00875,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTCCACAGG	.	5	BLCA
DES	0	.	GRCh37	2	220285374	220285374	+	Missense_Mutation	SNP	C	C	T	rs62636491	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.893C>T	p.Ser298Leu	p.S298L	ENST00000373960	4/9	54	39	14	58	58	0	DES,missense_variant,p.Ser298Leu,ENST00000373960,;AC053503.6,downstream_gene_variant,,ENST00000431827,;DES,non_coding_transcript_exon_variant,,ENST00000492726,;DES,non_coding_transcript_exon_variant,,ENST00000477226,;DES,upstream_gene_variant,,ENST00000483395,;	T	ENSG00000175084	ENST00000373960	Transcript	missense_variant	979	893	298	S/L	tCg/tTg	CM070891,rs62636491,DES:c.893C>T,HIFD_DES:c.893C>T	.	.	1	DES	HGNC	2770	protein_coding	YES	CCDS33383.1	ENSP00000363071	DESM_HUMAN	Q53SB5_HUMAN,Q9GZR6_HUMAN,Q2PUK1_HUMAN,L7R9R4_HUMAN	UPI0000001603	.	deleterious(0)	probably_damaging(0.975)	4/9	.	hmmpanther:PTHR23239:SF28,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	T:0.0002,T:0.0002,T:0.0002	T:0.0002,T:0.0002,T:0.0002	not_provided,likely_pathogenic	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0,0	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGTCGAAGG	byCluster	5	BLCA
SRBD1	0	.	GRCh37	2	45616464	45616464	+	Silent	SNP	G	G	A	rs764591251	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2973C>T	p.%3D	p.L991L	ENST00000263736	21/21	48	33	15	28	28	0	SRBD1,synonymous_variant,p.%3D,ENST00000535761,;SRBD1,synonymous_variant,p.%3D,ENST00000263736,;SRBD1,non_coding_transcript_exon_variant,,ENST00000490133,;	A	ENSG00000068784	ENST00000263736	Transcript	synonymous_variant	3036	2973	991	L	ctC/ctT	rs764591251,COSM1306823	.	.	-1	SRBD1	HGNC	25521	protein_coding	YES	CCDS1823.1	ENSP00000263736	SRBD1_HUMAN	B7Z6X7_HUMAN	UPI000004CC06	.	.	.	21/21	.	PROSITE_profiles:PS50126,hmmpanther:PTHR10724:SF1,hmmpanther:PTHR10724,Gene3D:2.40.50.140,SMART_domains:SM00316,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAATGAGGTC	.	5	BLCA
ID2	0	.	GRCh37	2	8822989	8822989	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.365C>G	p.Ser122Cys	p.S122C	ENST00000234091	4/5	96	64	32	153	153	0	ID2,missense_variant,p.Ser122Cys,ENST00000331129,;ID2,missense_variant,p.Ser122Cys,ENST00000396290,;ID2,missense_variant,p.Ser122Cys,ENST00000234091,;AC011747.7,upstream_gene_variant,,ENST00000418957,;AC011747.7,upstream_gene_variant,,ENST00000433592,;AC011747.7,upstream_gene_variant,,ENST00000455965,;AC011747.7,upstream_gene_variant,,ENST00000421298,;AC011747.7,upstream_gene_variant,,ENST00000433340,;AC011747.7,upstream_gene_variant,,ENST00000412712,;ID2,non_coding_transcript_exon_variant,,ENST00000472142,;	G	ENSG00000115738	ENST00000234091	Transcript	missense_variant	1225	365	122	S/C	tCt/tGt	.	.	.	1	ID2	HGNC	5361	protein_coding	YES	CCDS1659.1	ENSP00000234091	ID2_HUMAN	Q53T66_HUMAN	UPI00000012EE	.	tolerated(0.14)	benign(0.443)	4/5	.	hmmpanther:PTHR11723:SF5,hmmpanther:PTHR11723	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCTGAGT	.	5	BLCA
CPSF3	0	.	GRCh37	2	9576354	9576354	+	Silent	SNP	G	G	A	rs554338304	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624G>A	p.%3D	p.G208G	ENST00000238112	7/18	66	47	19	86	86	0	CPSF3,synonymous_variant,p.%3D,ENST00000238112,;CPSF3,synonymous_variant,p.%3D,ENST00000460593,;CPSF3,downstream_gene_variant,,ENST00000475482,;	A	ENSG00000119203	ENST00000238112	Transcript	synonymous_variant	830	624	208	G	ggG/ggA	rs554338304	.	.	1	CPSF3	HGNC	2326	protein_coding	YES	CCDS1664.1	ENSP00000238112	CPSF3_HUMAN	G5E9W3_HUMAN,C9JZH6_HUMAN	UPI00001282F5	.	.	.	7/18	.	hmmpanther:PTHR11203:SF32,hmmpanther:PTHR11203,Gene3D:3.60.15.10,SMART_domains:SM00849,Superfamily_domains:SSF56281	A:0.0004	A:0	A:0	.	A:0.002	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATGGGACCCA	byFrequency|by1000G	5	BLCA
HCLS1	0	.	GRCh37	3	121350795	121350795	+	Silent	SNP	G	G	A	rs148435056	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1359C>T	p.%3D	p.D453D	ENST00000314583	14/14	89	67	21	97	97	0	HCLS1,synonymous_variant,p.%3D,ENST00000428394,;HCLS1,synonymous_variant,p.%3D,ENST00000314583,;FBXO40,downstream_gene_variant,,ENST00000338040,;HCLS1,non_coding_transcript_exon_variant,,ENST00000473883,;HCLS1,downstream_gene_variant,,ENST00000495491,;	A	ENSG00000180353	ENST00000314583	Transcript	synonymous_variant	1451	1359	453	D	gaC/gaT	rs148435056	.	.	-1	HCLS1	HGNC	4844	protein_coding	YES	CCDS3003.1	ENSP00000320176	HCLS1_HUMAN	.	UPI000013F884	.	.	.	14/14	.	PROSITE_profiles:PS50002,hmmpanther:PTHR10829:SF5,hmmpanther:PTHR10829,Pfam_domain:PF00018,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044,Prints_domain:PR00499,Prints_domain:PR00499,Prints_domain:PR00452	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTACGTCGTC	byCluster	5	BLCA
HEG1	0	.	GRCh37	3	124746195	124746195	+	Missense_Mutation	SNP	G	G	A	rs202204864	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.767C>T	p.Ser256Leu	p.S256L	ENST00000311127	3/17	20	14	6	41	41	0	HEG1,missense_variant,p.Ser256Leu,ENST00000311127,;	A	ENSG00000173706	ENST00000311127	Transcript	missense_variant	835	767	256	S/L	tCg/tTg	rs202204864	.	.	-1	HEG1	HGNC	29227	protein_coding	YES	CCDS46898.1	ENSP00000311502	HEG1_HUMAN	.	UPI00006C069B	.	deleterious(0.03)	benign(0.089)	3/17	.	hmmpanther:PTHR24037:SF2,hmmpanther:PTHR24037	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCCGAAGTG	byCluster	5	BLCA
TOPBP1	0	.	GRCh37	3	133376679	133376679	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326T>A	p.Val109Glu	p.V109E	ENST00000260810	4/28	32	23	9	29	29	0	TOPBP1,missense_variant,p.Val109Glu,ENST00000260810,;TOPBP1,upstream_gene_variant,,ENST00000508524,;TFP1,upstream_gene_variant,,ENST00000460564,;TOPBP1,upstream_gene_variant,,ENST00000511439,;TFP1,upstream_gene_variant,,ENST00000490470,;TFP1,upstream_gene_variant,,ENST00000497521,;TOPBP1,upstream_gene_variant,,ENST00000572787,;	T	ENSG00000163781	ENST00000260810	Transcript	missense_variant	458	326	109	V/E	gTa/gAa	.	.	.	-1	TOPBP1	HGNC	17008	protein_coding	YES	CCDS46919.1	ENSP00000260810	TOPB1_HUMAN	A0AV47_HUMAN	UPI000020A292	.	deleterious(0)	possibly_damaging(0.897)	4/28	.	PROSITE_profiles:PS50172,hmmpanther:PTHR13561:SF25,hmmpanther:PTHR13561,Gene3D:3.40.50.10190,Pfam_domain:PF00533,SMART_domains:SM00292,Superfamily_domains:SSF52113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTACATCA	.	5	BLCA
TOPBP1	0	.	GRCh37	3	133376680	133376680	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325G>A	p.Val109Ile	p.V109I	ENST00000260810	4/28	32	23	9	29	29	0	TOPBP1,missense_variant,p.Val109Ile,ENST00000260810,;TOPBP1,upstream_gene_variant,,ENST00000508524,;TFP1,upstream_gene_variant,,ENST00000460564,;TOPBP1,upstream_gene_variant,,ENST00000511439,;TFP1,upstream_gene_variant,,ENST00000490470,;TFP1,upstream_gene_variant,,ENST00000497521,;TOPBP1,upstream_gene_variant,,ENST00000572787,;	T	ENSG00000163781	ENST00000260810	Transcript	missense_variant	457	325	109	V/I	Gta/Ata	.	.	.	-1	TOPBP1	HGNC	17008	protein_coding	YES	CCDS46919.1	ENSP00000260810	TOPB1_HUMAN	A0AV47_HUMAN	UPI000020A292	.	tolerated(0.19)	benign(0.029)	4/28	.	PROSITE_profiles:PS50172,hmmpanther:PTHR13561:SF25,hmmpanther:PTHR13561,Gene3D:3.40.50.10190,Pfam_domain:PF00533,SMART_domains:SM00292,Superfamily_domains:SSF52113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTACATCAG	.	5	BLCA
PIK3CA	0	.	GRCh37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1633G>A	p.Glu545Lys	p.E545K	ENST00000263967	10/21	29	18	11	18	18	0	PIK3CA,missense_variant,p.Glu545Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1790	1633	545	E/K	Gag/Aag	rs104886003,COSM763,COSM27133,COSM125370,COSM295672	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.02)	probably_damaging(0.959)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	0,1,1,1,1	21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E545K|c.1633G>A|227,SITE|p.E545K|c.1633G>A|1153,CODON|p.T544N|c.1631C>A|3,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542K|c.1624G>A|115,BUFFER|p.E542K|c.1624G>A|758,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4,BUFFER|p.Q546K|c.1636C>A|119,BUFFER|p.Q546E|c.1636C>G|15,BUFFER|p.Q546K|c.1636C>A|18,BUFFER|p.Q546R|c.1637A>G|20,BUFFER|p.Q546P|c.1637A>C|22,BUFFER|p.Q546P|c.1637A>C|7,BUFFER|p.Q546L|c.1637A>T|8,BUFFER|p.Q546R|c.1637A>G|41,BUFFER|p.Q546H|c.1638G>T|7,BUFFER|p.E547K|c.1639G>A|11,BUFFER|p.E547G|c.1640A>G|5,BUFFER|p.E547G|c.1640A>G|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTGAGCAG	byCluster	5	BLCA
HES1	0	.	GRCh37	3	193855609	193855610	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432dupC	p.Asn145GlnfsTer70	p.N145Qfs*70	ENST00000232424	4/4	75	56	19	63	63	0	HES1,frameshift_variant,p.Asn145GlnfsTer70,ENST00000232424,;HES1,downstream_gene_variant,,ENST00000476918,;	C	ENSG00000114315	ENST00000232424	Transcript	frameshift_variant	666-667	430-431	144	A/AX	gcc/gCcc	.	.	.	1	HES1	HGNC	5192	protein_coding	YES	CCDS3305.1	ENSP00000232424	HES1_HUMAN	Q8IXV0_HUMAN	UPI0000037B01	.	.	.	4/4	.	hmmpanther:PTHR10985,hmmpanther:PTHR10985:SF19,Pfam_domain:PF07527,SMART_domains:SM00511,Superfamily_domains:0053813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACCTGGCCAAC	.	3	BLCA
FLNB	0	.	GRCh37	3	58139287	58139287	+	Missense_Mutation	SNP	G	G	T	rs777140253	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6646G>T	p.Val2216Leu	p.V2216L	ENST00000490882	40/47	32	25	6	58	58	0	FLNB,missense_variant,p.Val2174Leu,ENST00000429972,;FLNB,missense_variant,p.Val2185Leu,ENST00000295956,;FLNB,missense_variant,p.Val2161Leu,ENST00000358537,;FLNB,missense_variant,p.Val2216Leu,ENST00000490882,;FLNB,missense_variant,p.Val2144Leu,ENST00000348383,;FLNB,missense_variant,p.Val1992Leu,ENST00000493452,;FLNB,missense_variant,p.Val109Leu,ENST00000466455,;FLNB,missense_variant,p.Val2005Leu,ENST00000419752,;FLNB,3_prime_UTR_variant,,ENST00000357272,;FLNB,non_coding_transcript_exon_variant,,ENST00000481470,;FLNB,upstream_gene_variant,,ENST00000468939,;FLNB,upstream_gene_variant,,ENST00000475487,;FLNB,downstream_gene_variant,,ENST00000470231,;FLNB,downstream_gene_variant,,ENST00000477629,;	T	ENSG00000136068	ENST00000490882	Transcript	missense_variant	6811	6646	2216	V/L	Gtg/Ttg	rs777140253	.	.	1	FLNB	HGNC	3755	protein_coding	YES	CCDS54599.1	ENSP00000420213	FLNB_HUMAN	.	UPI0001765F91	.	deleterious(0.03)	probably_damaging(0.994)	40/47	.	PROSITE_profiles:PS50194,hmmpanther:PTHR11915:SF238,hmmpanther:PTHR11915,Gene3D:2.60.40.10,SMART_domains:SM00557,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACCGTGGGG	.	5	BLCA
OR5K1	0	.	GRCh37	3	98188869	98188869	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.449T>C	p.Ile150Thr	p.I150T	ENST00000332650	1/1	167	113	54	66	66	0	OR5K1,missense_variant,p.Ile150Thr,ENST00000332650,;	C	ENSG00000232382	ENST00000332650	Transcript	missense_variant	546	449	150	I/T	aTa/aCa	COSM4120788	.	.	1	OR5K1	HGNC	8349	protein_coding	YES	CCDS43115.1	ENSP00000373193	OR5K1_HUMAN	.	UPI000013F5A3	.	tolerated(0.07)	benign(0.017)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF38,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCATAGCTG	.	5	BLCA
POU4F2	0	.	GRCh37	4	147561043	147561043	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313G>T	p.Glu105Ter	p.E105*	ENST00000281321	2/2	56	32	23	64	64	0	POU4F2,stop_gained,p.Glu105Ter,ENST00000281321,;AC093887.1,downstream_gene_variant,,ENST00000584185,;	T	ENSG00000151615	ENST00000281321	Transcript	stop_gained	561	313	105	E/*	Gag/Tag	.	.	.	1	POU4F2	HGNC	9219	protein_coding	YES	CCDS34074.1	ENSP00000281321	PO4F2_HUMAN	.	UPI000013DC6C	.	.	.	2/2	.	hmmpanther:PTHR11636:SF41,hmmpanther:PTHR11636	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATGAGAGT	.	5	BLCA
RPS3A	0	.	GRCh37	4	152024203	152024203	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535A>C	p.Asn179His	p.N179H	ENST00000274065	4/6	19	14	5	35	35	0	RPS3A,missense_variant,p.Asn166His,ENST00000322686,;RPS3A,missense_variant,p.Asn60His,ENST00000509736,;RPS3A,missense_variant,p.Asn159His,ENST00000510993,;RPS3A,missense_variant,p.Asn179His,ENST00000274065,;RPS3A,missense_variant,p.Asn179His,ENST00000512690,;RPS3A,missense_variant,p.Asn142His,ENST00000514682,;RPS3A,missense_variant,p.Asn123His,ENST00000515792,;RPS3A,missense_variant,p.Asn142His,ENST00000506126,;RPS3A,missense_variant,p.Asn142His,ENST00000507327,;RPS3A,intron_variant,,ENST00000512797,;RPS3A,downstream_gene_variant,,ENST00000503002,;RPS3A,downstream_gene_variant,,ENST00000505243,;RPS3A,downstream_gene_variant,,ENST00000508783,;SNORD73A,upstream_gene_variant,,ENST00000386062,;SNORD73,downstream_gene_variant,,ENST00000364394,;SH3D19,non_coding_transcript_exon_variant,,ENST00000604922,;RPS3A,3_prime_UTR_variant,,ENST00000515818,;RPS3A,non_coding_transcript_exon_variant,,ENST00000507485,;	C	ENSG00000145425	ENST00000274065	Transcript	missense_variant	615	535	179	N/H	Aat/Cat	.	.	.	1	RPS3A	HGNC	10421	protein_coding	YES	CCDS3775.1	ENSP00000346050	RS3A_HUMAN	D6RGE0_HUMAN,D6RED7_HUMAN,D6RB09_HUMAN,D6RAT0_HUMAN,D6RAS7_HUMAN,D6R9B6_HUMAN	UPI000013D9EC	.	tolerated(0.12)	possibly_damaging(0.853)	4/6	.	HAMAP:MF_03122,hmmpanther:PTHR11830,Pfam_domain:PF01015	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACAAATGAC	.	5	BLCA
PLRG1	0	.	GRCh37	4	155459229	155459229	+	Missense_Mutation	SNP	T	T	C	rs770484620	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1183A>G	p.Ile395Val	p.I395V	ENST00000499023	13/15	44	33	11	38	38	0	PLRG1,missense_variant,p.Ile386Val,ENST00000302078,;PLRG1,missense_variant,p.Ile38Val,ENST00000503251,;PLRG1,missense_variant,p.Ile395Val,ENST00000393905,;PLRG1,missense_variant,p.Ile395Val,ENST00000499023,;PLRG1,downstream_gene_variant,,ENST00000504341,;PLRG1,3_prime_UTR_variant,,ENST00000506627,;PLRG1,upstream_gene_variant,,ENST00000512773,;PLRG1,downstream_gene_variant,,ENST00000507125,;PLRG1,downstream_gene_variant,,ENST00000506918,;PLRG1,downstream_gene_variant,,ENST00000506192,;	C	ENSG00000171566	ENST00000499023	Transcript	missense_variant	1310	1183	395	I/V	Ata/Gta	rs770484620	.	.	-1	PLRG1	HGNC	9089	protein_coding	YES	CCDS34083.1	ENSP00000424417	PLRG1_HUMAN	.	UPI0000070B39	.	deleterious(0.05)	benign(0.042)	13/15	.	PROSITE_profiles:PS50294,hmmpanther:PTHR19923,hmmpanther:PTHR19923:SF0,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTTTATGTTAT	.	4	BLCA
FGFR3	0	.	GRCh37	4	1803568	1803568	+	Missense_Mutation	SNP	C	C	G	rs121913483	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.746C>G	p.Ser249Cys	p.S249C	ENST00000340107	7/18	30	7	23	41	41	0	FGFR3,missense_variant,p.Ser249Cys,ENST00000352904,;FGFR3,missense_variant,p.Ser249Cys,ENST00000412135,;FGFR3,missense_variant,p.Ser249Cys,ENST00000440486,;FGFR3,missense_variant,p.Ser249Cys,ENST00000481110,;FGFR3,missense_variant,p.Ser249Cys,ENST00000260795,;FGFR3,missense_variant,p.Ser69Cys,ENST00000507588,;FGFR3,missense_variant,p.Ser249Cys,ENST00000340107,;FGFR3,non_coding_transcript_exon_variant,,ENST00000474521,;FGFR3,upstream_gene_variant,,ENST00000469068,;	G	ENSG00000068078	ENST00000340107	Transcript	missense_variant	1002	746	249	S/C	tCc/tGc	CM950470,rs121913483,COSM715,COSM1149892	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	deleterious(0.01)	possibly_damaging(0.594)	7/18	.	hmmpanther:PTHR24416:SF128,hmmpanther:PTHR24416,PIRSF_domain:PIRSF000628	.	.	.	.	.	.	.	.	.	pathogenic	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCTCCCCGC	byFrequency|byCluster	5	BLCA
FGFR3	0	.	GRCh37	4	1805540	1805540	+	Intron	SNP	C	C	T	.	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1082-517C>T	.	.	ENST00000340107	.	62	14	47	88	88	0	FGFR3,missense_variant,p.Ser351Phe,ENST00000440486,;FGFR3,missense_variant,p.Ser351Phe,ENST00000481110,;FGFR3,missense_variant,p.Ser351Phe,ENST00000260795,;FGFR3,intron_variant,,ENST00000352904,;FGFR3,intron_variant,,ENST00000412135,;FGFR3,intron_variant,,ENST00000340107,;FGFR3,downstream_gene_variant,,ENST00000507588,;FGFR3,downstream_gene_variant,,ENST00000474521,;FGFR3,upstream_gene_variant,,ENST00000469068,;	T	ENSG00000068078	ENST00000340107	Transcript	intron_variant	.	.	.	.	.	CM084804	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	.	.	.	8/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCTGCGT	.	5	BLCA
LETM1	0	.	GRCh37	4	1815997	1815997	+	3'UTR	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*154C>T	.	.	ENST00000302787	14/14	29	4	25	55	55	0	LETM1,3_prime_UTR_variant,,ENST00000302787,;	A	ENSG00000168924	ENST00000302787	Transcript	3_prime_UTR_variant	2671	.	.	.	.	.	.	.	-1	LETM1	HGNC	6556	protein_coding	YES	CCDS3355.1	ENSP00000305653	LETM1_HUMAN	D3DVQ1_HUMAN	UPI0000073989	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATGATGAA	.	5	BLCA
ARAP2	0	.	GRCh37	4	36231154	36231154	+	5'UTR	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-46C>T	.	.	ENST00000303965	2/33	48	30	18	32	32	0	ARAP2,5_prime_UTR_variant,,ENST00000506189,;ARAP2,5_prime_UTR_variant,,ENST00000303965,;ARAP2,non_coding_transcript_exon_variant,,ENST00000508066,;	A	ENSG00000047365	ENST00000303965	Transcript	5_prime_UTR_variant	445	.	.	.	.	.	.	.	-1	ARAP2	HGNC	16924	protein_coding	YES	CCDS3441.1	ENSP00000302895	ARAP2_HUMAN	D6RAD6_HUMAN	UPI000013E917	.	.	.	2/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGATGAGACA	.	5	BLCA
UGDH	0	.	GRCh37	4	39501712	39501712	+	3'UTR	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51G>A	.	.	ENST00000316423	12/12	13	5	8	15	15	0	UGDH,3_prime_UTR_variant,,ENST00000501493,;UGDH,3_prime_UTR_variant,,ENST00000316423,;UGDH,3_prime_UTR_variant,,ENST00000507089,;UGDH,3_prime_UTR_variant,,ENST00000506179,;	T	ENSG00000109814	ENST00000316423	Transcript	3_prime_UTR_variant	1879	.	.	.	.	.	.	.	-1	UGDH	HGNC	12525	protein_coding	YES	CCDS3455.1	ENSP00000319501	UGDH_HUMAN	Q9NY20_HUMAN,Q9NQ83_HUMAN,Q9NQ82_HUMAN,Q9NQ81_HUMAN,E7ETF4_HUMAN,E7ER95_HUMAN,E7ER83_HUMAN,D6RHF4_HUMAN	UPI0000001075	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATCCTGAA	.	5	BLCA
GABRA4	0	.	GRCh37	4	46979077	46979077	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.577+1G>A	.	p.X193_splice	ENST00000264318	.	16	13	3	15	15	0	GABRA4,splice_donor_variant,,ENST00000264318,;GABRA4,splice_donor_variant,,ENST00000502874,;GABRA4,splice_donor_variant,,ENST00000511523,;GABRA4,splice_donor_variant,,ENST00000508560,;	T	ENSG00000109158	ENST00000264318	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	GABRA4	HGNC	4078	protein_coding	YES	CCDS3473.1	ENSP00000264318	GBRA4_HUMAN	.	UPI0000074200	.	.	.	.	5/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTTACAACTC	.	2	BLCA
TEC	0	.	GRCh37	4	48140931	48140931	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1644C>T	p.%3D	p.V548V	ENST00000381501	16/18	43	25	18	29	29	0	TEC,synonymous_variant,p.%3D,ENST00000381501,;TXK,upstream_gene_variant,,ENST00000264316,;TEC,downstream_gene_variant,,ENST00000511471,;TXK,upstream_gene_variant,,ENST00000510457,;TEC,3_prime_UTR_variant,,ENST00000515146,;TEC,3_prime_UTR_variant,,ENST00000505452,;TEC,downstream_gene_variant,,ENST00000511150,;	A	ENSG00000135605	ENST00000381501	Transcript	synonymous_variant	1802	1644	548	V	gtC/gtT	.	.	.	-1	TEC	HGNC	11719	protein_coding	YES	CCDS3481.1	ENSP00000370912	TEC_HUMAN	Q14219_HUMAN	UPI000013CFAE	.	.	.	16/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418:SF219,hmmpanther:PTHR24418,Pfam_domain:PF07714,Gene3D:1.10.510.10,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCAGACATC	.	5	BLCA
UTP3	0	.	GRCh37	4	71554785	71554785	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391C>T	p.Gln131Ter	p.Q131*	ENST00000254803	1/1	35	29	6	43	43	0	UTP3,stop_gained,p.Gln131Ter,ENST00000254803,;ENAM,downstream_gene_variant,,ENST00000472903,;	T	ENSG00000132467	ENST00000254803	Transcript	stop_gained	590	391	131	Q/*	Cag/Tag	.	.	.	1	UTP3	HGNC	24477	protein_coding	YES	CCDS3546.1	ENSP00000254803	SAS10_HUMAN	.	UPI0000073D63	.	.	.	1/1	.	hmmpanther:PTHR13237,hmmpanther:PTHR13237:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGGTCAGAGG	.	4	BLCA
PCDHGA2	0	.	GRCh37	5	140719469	140719469	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931G>C	p.Asp311His	p.D311H	ENST00000394576	1/4	194	130	64	258	258	0	PCDHGA2,missense_variant,p.Asp311His,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA3,upstream_gene_variant,,ENST00000253812,;PCDHGA2,non_coding_transcript_exon_variant,,ENST00000528330,;	C	ENSG00000081853	ENST00000394576	Transcript	missense_variant	931	931	311	D/H	Gat/Cat	.	.	.	1	PCDHGA2	HGNC	8700	protein_coding	YES	CCDS47289.1	ENSP00000378077	PCDG2_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000072E67	.	deleterious_low_confidence(0)	probably_damaging(0.979)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF109,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGAGGATGCT	.	3	BLCA
PCDHGA2	0	.	GRCh37	5	140719490	140719490	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952G>C	p.Asp318His	p.D318H	ENST00000394576	1/4	193	127	66	261	261	0	PCDHGA2,missense_variant,p.Asp318His,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA3,upstream_gene_variant,,ENST00000253812,;PCDHGA2,non_coding_transcript_exon_variant,,ENST00000528330,;	C	ENSG00000081853	ENST00000394576	Transcript	missense_variant	952	952	318	D/H	Gat/Cat	.	.	.	1	PCDHGA2	HGNC	8700	protein_coding	YES	CCDS47289.1	ENSP00000378077	PCDG2_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000072E67	.	deleterious_low_confidence(0)	probably_damaging(0.986)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF109,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAATTGATATT	.	3	BLCA
FAT2	0	.	GRCh37	5	150922924	150922932	+	In_Frame_Del	DEL	AGATGCTTT	AGATGCTTT	-	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	AGATGCTTT	AGATGCTTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7756_7764delAAAGCATCT	p.Lys2586_Ser2588del	p.K2586_S2588del	ENST00000261800	9/23	134	96	38	120	120	0	FAT2,inframe_deletion,p.Lys2586_Ser2588del,ENST00000261800,;	-	ENSG00000086570	ENST00000261800	Transcript	inframe_deletion	7769-7777	7756-7764	2586-2588	KAS/-	AAAGCATCT/-	.	.	.	-1	FAT2	HGNC	3596	protein_coding	YES	CCDS4317.1	ENSP00000261800	FAT2_HUMAN	.	UPI0000055B22	.	.	.	9/23	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF37,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTACTCAGATGCTTTGAACT	.	3	BLCA
RP11-423H2.1	0	.	GRCh37	5	177309490	177309490	+	RNA	SNP	C	C	T	rs745666248	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.822C>T	.	.	ENST00000506672	4/6	46	39	7	43	43	0	RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000511074,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000515065,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000507037,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000510692,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000358442,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000506672,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000515525,;RP11-423H2.1,upstream_gene_variant,,ENST00000514635,;RP11-423H2.1,upstream_gene_variant,,ENST00000503449,;RP11-423H2.1,downstream_gene_variant,,ENST00000506082,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000502601,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000504756,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000512851,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000303154,;	T	ENSG00000170089	ENST00000506672	Transcript	non_coding_transcript_exon_variant	822	.	.	.	.	rs745666248	.	.	1	RP11-423H2.1	Clone_based_vega_gene	.	processed_transcript	YES	.	.	.	.	.	.	.	.	4/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AGCCTCTGGGA	.	2	BLCA
LAMA4	0	.	GRCh37	6	112435893	112435893	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5179T>C	p.Cys1727Arg	p.C1727R	ENST00000230538	37/39	71	47	23	26	26	0	LAMA4,missense_variant,p.Cys1727Arg,ENST00000230538,;LAMA4,missense_variant,p.Cys1720Arg,ENST00000424408,;LAMA4,missense_variant,p.Cys1720Arg,ENST00000522006,;LAMA4,missense_variant,p.Cys1720Arg,ENST00000389463,;	G	ENSG00000112769	ENST00000230538	Transcript	missense_variant	5577	5179	1727	C/R	Tgt/Cgt	.	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	deleterious(0)	probably_damaging(1)	37/39	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF174,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCACAGAGAC	.	5	BLCA
LAMA2	0	.	GRCh37	6	129649456	129649456	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4210C>G	p.Gln1404Glu	p.Q1404E	ENST00000421865	29/65	79	47	31	70	69	0	LAMA2,missense_variant,p.Gln1404Glu,ENST00000421865,;	G	ENSG00000196569	ENST00000421865	Transcript	missense_variant	4259	4210	1404	Q/E	Caa/Gaa	.	.	.	1	LAMA2	HGNC	6482	protein_coding	YES	CCDS5138.1	ENSP00000400365	LAMA2_HUMAN	Q59H37_HUMAN	UPI00003673E0	.	tolerated(1)	benign(0)	29/65	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF106,Pfam_domain:PF00053,SMART_domains:SM00180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTCAACCA	.	5	BLCA
TIAM2	0	.	GRCh37	6	155458565	155458565	+	Silent	SNP	C	C	T	rs144697464	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1449C>T	p.%3D	p.A483A	ENST00000461783	7/29	104	73	30	145	145	0	TIAM2,synonymous_variant,p.%3D,ENST00000528535,;TIAM2,synonymous_variant,p.%3D,ENST00000461783,;TIAM2,synonymous_variant,p.%3D,ENST00000456144,;TIAM2,synonymous_variant,p.%3D,ENST00000318981,;TIAM2,synonymous_variant,p.%3D,ENST00000529824,;TIAM2,synonymous_variant,p.%3D,ENST00000360366,;TIAM2,5_prime_UTR_variant,,ENST00000367174,;	T	ENSG00000146426	ENST00000461783	Transcript	synonymous_variant	2722	1449	483	A	gcC/gcT	rs144697464	.	.	1	TIAM2	HGNC	11806	protein_coding	YES	CCDS34558.1	ENSP00000437188	TIAM2_HUMAN	F5H8H5_HUMAN,F5H6W6_HUMAN,F5H6R0_HUMAN,F5H1M3_HUMAN,E9PMZ8_HUMAN	UPI00004DF8BE	.	.	.	7/29	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22826:SF118,hmmpanther:PTHR22826	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCGCCGAGTC	byCluster	5	BLCA
KIF13A	0	.	GRCh37	6	17781433	17781433	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3644C>T	p.Pro1215Leu	p.P1215L	ENST00000259711	30/39	50	27	22	72	72	0	KIF13A,missense_variant,p.Pro1202Leu,ENST00000378814,;KIF13A,missense_variant,p.Pro219Leu,ENST00000502297,;KIF13A,missense_variant,p.Pro1215Leu,ENST00000259711,;KIF13A,missense_variant,p.Pro1215Leu,ENST00000378826,;KIF13A,missense_variant,p.Pro609Leu,ENST00000358380,;KIF13A,missense_variant,p.Pro213Leu,ENST00000506044,;KIF13A,missense_variant,p.Pro1202Leu,ENST00000378843,;KIF13A,missense_variant,p.Pro1215Leu,ENST00000378816,;KIF13A,downstream_gene_variant,,ENST00000514714,;	A	ENSG00000137177	ENST00000259711	Transcript	missense_variant	3750	3644	1215	P/L	cCc/cTc	.	.	.	-1	KIF13A	HGNC	14566	protein_coding	YES	CCDS47381.1	ENSP00000259711	KI13A_HUMAN	.	UPI0000E20DA3	.	deleterious(0.04)	benign(0.261)	30/39	.	Pfam_domain:PF12473,hmmpanther:PTHR24115:SF289,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATGGGCAGG	.	5	BLCA
BRD2	0	.	GRCh37	6	32945601	32945601	+	Missense_Mutation	SNP	C	C	T	rs771087576	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1397C>T	p.Ser466Phe	p.S466F	ENST00000395289	9/14	88	74	14	107	107	0	BRD2,missense_variant,p.Ser466Phe,ENST00000395289,;BRD2,missense_variant,p.Ser472Phe,ENST00000449025,;BRD2,missense_variant,p.Ser419Phe,ENST00000449085,;BRD2,missense_variant,p.Ser466Phe,ENST00000374825,;BRD2,missense_variant,p.Ser466Phe,ENST00000607833,;BRD2,missense_variant,p.Ser466Phe,ENST00000374831,;BRD2,missense_variant,p.Ser346Phe,ENST00000443797,;BRD2,missense_variant,p.Ser466Phe,ENST00000395287,;BRD2,downstream_gene_variant,,ENST00000606059,;BRD2,downstream_gene_variant,,ENST00000456339,;XXbac-BPG181M17.6,upstream_gene_variant,,ENST00000580587,;BRD2,3_prime_UTR_variant,,ENST00000482914,;BRD2,3_prime_UTR_variant,,ENST00000481259,;BRD2,3_prime_UTR_variant,,ENST00000495733,;BRD2,non_coding_transcript_exon_variant,,ENST00000464592,;BRD2,non_coding_transcript_exon_variant,,ENST00000463639,;BRD2,upstream_gene_variant,,ENST00000482838,;BRD2,upstream_gene_variant,,ENST00000469132,;	T	ENSG00000204256	ENST00000395289	Transcript	missense_variant	2998	1397	466	S/F	tCt/tTt	rs771087576	.	.	1	BRD2	HGNC	1103	protein_coding	YES	CCDS56420.1	ENSP00000378704	BRD2_HUMAN	U3KQA6_HUMAN	UPI0000227E6A	.	deleterious(0.01)	possibly_damaging(0.622)	9/14	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCTCTACTG	byFrequency	4	BLCA
ITPR3	0	.	GRCh37	6	33647908	33647908	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4222G>A	p.Glu1408Lys	p.E1408K	ENST00000374316	32/59	19	14	5	40	40	0	ITPR3,missense_variant,p.Glu1408Lys,ENST00000374316,;ITPR3,missense_variant,p.Glu1408Lys,ENST00000605930,;	A	ENSG00000096433	ENST00000374316	Transcript	missense_variant	5282	4222	1408	E/K	Gag/Aag	.	.	.	1	ITPR3	HGNC	6182	protein_coding	YES	CCDS4783.1	ENSP00000363435	ITPR3_HUMAN	A6H8K3_HUMAN	UPI000013CB74	.	deleterious(0)	probably_damaging(0.999)	32/59	.	hmmpanther:PTHR13715:SF51,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTGAGGTG	.	5	BLCA
UHRF1BP1	0	.	GRCh37	6	34789589	34789589	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204C>G	p.Ile68Met	p.I68M	ENST00000192788	2/21	70	51	19	61	61	0	UHRF1BP1,missense_variant,p.Ile68Met,ENST00000192788,;UHRF1BP1,missense_variant,p.Ile68Met,ENST00000452449,;Y_RNA,downstream_gene_variant,,ENST00000383990,;	G	ENSG00000065060	ENST00000192788	Transcript	missense_variant	375	204	68	I/M	atC/atG	.	.	.	1	UHRF1BP1	HGNC	21216	protein_coding	YES	CCDS43455.1	ENSP00000192788	URFB1_HUMAN	.	UPI00001B654C	.	deleterious(0)	probably_damaging(0.996)	2/21	.	hmmpanther:PTHR22774:SF14,hmmpanther:PTHR22774,Pfam_domain:PF12624	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCCGGGT	.	5	BLCA
FILIP1	0	.	GRCh37	6	76024278	76024278	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1270G>C	p.Glu424Gln	p.E424Q	ENST00000237172	5/6	148	104	43	152	152	0	FILIP1,missense_variant,p.Glu325Gln,ENST00000370020,;FILIP1,missense_variant,p.Glu424Gln,ENST00000393004,;FILIP1,missense_variant,p.Glu424Gln,ENST00000237172,;FILIP1,non_coding_transcript_exon_variant,,ENST00000498523,;HMGB1P39,downstream_gene_variant,,ENST00000366304,;	G	ENSG00000118407	ENST00000237172	Transcript	missense_variant	1601	1270	424	E/Q	Gaa/Caa	.	.	.	-1	FILIP1	HGNC	21015	protein_coding	YES	CCDS4984.1	ENSP00000237172	FLIP1_HUMAN	.	UPI0000160071	.	tolerated(0.07)	possibly_damaging(0.788)	5/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23166,hmmpanther:PTHR23166:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTTCAAGTC	.	5	BLCA
NT5E	0	.	GRCh37	6	86159926	86159926	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69G>A	p.%3D	p.A23A	ENST00000257770	1/9	24	14	10	18	18	0	NT5E,synonymous_variant,p.%3D,ENST00000369646,;NT5E,synonymous_variant,p.%3D,ENST00000369651,;NT5E,synonymous_variant,p.%3D,ENST00000257770,;	A	ENSG00000135318	ENST00000257770	Transcript	synonymous_variant	118	69	23	A	gcG/gcA	.	.	.	1	NT5E	HGNC	8021	protein_coding	YES	CCDS5002.1	ENSP00000257770	5NTD_HUMAN	.	UPI0000124F48	.	.	.	1/9	.	Gene3D:3.60.21.10,hmmpanther:PTHR11575:SF21,hmmpanther:PTHR11575,Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGCGGCTGG	.	5	BLCA
TFEC	0	.	GRCh37	7	115581854	115581854	+	Intron	SNP	T	T	C	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.663+93A>G	.	.	ENST00000265440	.	39	34	5	11	11	0	TFEC,3_prime_UTR_variant,,ENST00000393485,;TFEC,3_prime_UTR_variant,,ENST00000484212,;TFEC,intron_variant,,ENST00000457268,;TFEC,intron_variant,,ENST00000320239,;TFEC,intron_variant,,ENST00000265440,;TFEC,intron_variant,,ENST00000462828,;	C	ENSG00000105967	ENST00000265440	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	TFEC	HGNC	11754	protein_coding	YES	CCDS5762.1	ENSP00000265440	TFEC_HUMAN	Q75MG2_HUMAN,Q75KY0_HUMAN	UPI000006CC81	.	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTAATAAGAG	.	4	BLCA
CASP2	0	.	GRCh37	7	142991400	142991400	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553C>G	p.Gln185Glu	p.Q185E	ENST00000310447	5/11	96	76	19	123	123	0	CASP2,missense_variant,p.Gln185Glu,ENST00000310447,;CASP2,downstream_gene_variant,,ENST00000392925,;RN7SL481P,upstream_gene_variant,,ENST00000477764,;RN7SL535P,downstream_gene_variant,,ENST00000479087,;CASP2,non_coding_transcript_exon_variant,,ENST00000493642,;CASP2,3_prime_UTR_variant,,ENST00000350623,;CASP2,non_coding_transcript_exon_variant,,ENST00000481483,;CASP2,upstream_gene_variant,,ENST00000472067,;	G	ENSG00000106144	ENST00000310447	Transcript	missense_variant	794	553	185	Q/E	Caa/Gaa	.	.	.	1	CASP2	HGNC	1503	protein_coding	YES	CCDS5879.1	ENSP00000312664	CASP2_HUMAN	B4E0I5_HUMAN	UPI000020F1E8	.	tolerated(0.28)	benign(0)	5/11	.	hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF129,Gene3D:3.40.50.1460,PIRSF_domain:PIRSF038001,Superfamily_domains:SSF52129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATCAAACA	.	5	BLCA
PDE1C	0	.	GRCh37	7	31793138	31793138	+	Missense_Mutation	SNP	G	G	A	rs775393302	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2170C>T	p.Arg724Cys	p.R724C	ENST00000396193	19/19	117	62	54	55	55	0	PDE1C,missense_variant,p.Arg664Cys,ENST00000396191,;PDE1C,missense_variant,p.Arg724Cys,ENST00000396193,;PDE1C,missense_variant,p.Arg664Cys,ENST00000321453,;	A	ENSG00000154678	ENST00000396193	Transcript	missense_variant	2764	2170	724	R/C	Cgc/Tgc	rs775393302,COSM1261732,COSM1261731	.	.	-1	PDE1C	HGNC	8776	protein_coding	YES	CCDS55100.1	ENSP00000379496	.	.	UPI000045753D	.	deleterious_low_confidence(0)	benign(0.402)	19/19	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGCGTTTAA	byFrequency|byCluster	5	BLCA
PCLO	0	.	GRCh37	7	82578803	82578803	+	Missense_Mutation	SNP	C	C	T	rs369294508	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11101G>A	p.Glu3701Lys	p.E3701K	ENST00000333891	6/25	213	165	47	91	91	0	PCLO,missense_variant,p.Glu421Lys,ENST00000437081,;PCLO,missense_variant,p.Glu3701Lys,ENST00000333891,;PCLO,missense_variant,p.Glu3701Lys,ENST00000423517,;	T	ENSG00000186472	ENST00000333891	Transcript	missense_variant	11439	11101	3701	E/K	Gag/Aag	rs369294508	.	.	-1	PCLO	HGNC	13406	protein_coding	YES	CCDS47630.1	ENSP00000334319	PCLO_HUMAN	.	UPI0001573469	.	.	unknown(0)	6/25	.	hmmpanther:PTHR14113:SF6,hmmpanther:PTHR14113	.	.	.	.	.	.	.	T:0.0003	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCGGTAT	byFrequency|byCluster	5	BLCA
MBLAC1	0	.	GRCh37	7	99725616	99725616	+	Missense_Mutation	SNP	G	G	A	rs753136685	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>A	p.Glu200Lys	p.E200K	ENST00000398075	2/2	21	14	6	22	22	0	MBLAC1,missense_variant,p.Glu200Lys,ENST00000398075,;MBLAC1,downstream_gene_variant,,ENST00000421390,;CNPY4,downstream_gene_variant,,ENST00000262932,;AC073842.19,upstream_gene_variant,,ENST00000376482,;RP11-506M12.1,upstream_gene_variant,,ENST00000494221,;CNPY4,downstream_gene_variant,,ENST00000480692,;CNPY4,downstream_gene_variant,,ENST00000462193,;	A	ENSG00000214309	ENST00000398075	Transcript	missense_variant	997	598	200	E/K	Gag/Aag	rs753136685,COSM3883961	.	.	1	MBLAC1	HGNC	22180	protein_coding	YES	CCDS43620.1	ENSP00000381150	MBLC1_HUMAN	C9JAV3_HUMAN	UPI000013FF40	.	tolerated(0.06)	benign(0.058)	2/2	.	hmmpanther:PTHR23200,hmmpanther:PTHR23200:SF37,Gene3D:3.60.15.10,Pfam_domain:PF00753,SMART_domains:SM00849,Superfamily_domains:SSF56281	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGACGAGGAT	byFrequency	5	BLCA
TG	0	.	GRCh37	8	133894157	133894157	+	Missense_Mutation	SNP	G	G	C	rs199566100	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688G>C	p.Glu230Gln	p.E230Q	ENST00000220616	6/48	55	11	43	47	47	0	TG,missense_variant,p.Glu230Gln,ENST00000220616,;TG,missense_variant,p.Glu230Gln,ENST00000377869,;TG,non_coding_transcript_exon_variant,,ENST00000520769,;TG,downstream_gene_variant,,ENST00000523901,;	C	ENSG00000042832	ENST00000220616	Transcript	missense_variant	728	688	230	E/Q	Gag/Cag	rs199566100	.	.	1	TG	HGNC	11764	protein_coding	YES	CCDS34944.1	ENSP00000220616	THYG_HUMAN	Q9NYM1_HUMAN,Q9NYD9_HUMAN,E5RG33_HUMAN	UPI000013C79F	.	deleterious(0.03)	possibly_damaging(0.662)	6/48	.	Superfamily_domains:SSF57610,PIRSF_domain:PIRSF001831,Gene3D:4.10.800.10,PROSITE_profiles:PS51162	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTGAGGTA	byCluster	5	BLCA
GLI4	0	.	GRCh37	8	144358503	144358503	+	Silent	SNP	C	C	T	rs765748437	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660C>T	p.%3D	p.F220F	ENST00000340042	4/4	53	46	7	52	52	0	GLI4,synonymous_variant,p.%3D,ENST00000340042,;GLI4,synonymous_variant,p.%3D,ENST00000523522,;GLI4,3_prime_UTR_variant,,ENST00000517530,;ZFP41,3_prime_UTR_variant,,ENST00000522452,;GLI4,downstream_gene_variant,,ENST00000521682,;GLI4,downstream_gene_variant,,ENST00000344692,;GLI4,downstream_gene_variant,,ENST00000517468,;GLI4,downstream_gene_variant,,ENST00000520021,;RP13-582O9.5,downstream_gene_variant,,ENST00000519852,;RP13-582O9.5,downstream_gene_variant,,ENST00000523031,;RP13-582O9.5,downstream_gene_variant,,ENST00000524335,;RP13-582O9.5,downstream_gene_variant,,ENST00000518073,;RP13-582O9.5,downstream_gene_variant,,ENST00000517411,;RP13-582O9.5,downstream_gene_variant,,ENST00000521207,;GLI4,non_coding_transcript_exon_variant,,ENST00000523812,;GLI4,downstream_gene_variant,,ENST00000522479,;GLI4,downstream_gene_variant,,ENST00000519876,;GLI4,downstream_gene_variant,,ENST00000522033,;	T	ENSG00000250571	ENST00000340042	Transcript	synonymous_variant	745	660	220	F	ttC/ttT	rs765748437	.	.	1	GLI4	HGNC	4320	protein_coding	YES	CCDS6398.1	ENSP00000345024	GLI4_HUMAN	.	UPI0000070432	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF122,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTTCCGCGG	.	4	BLCA
ZNF517	0	.	GRCh37	8	146029623	146029623	+	Missense_Mutation	SNP	G	G	A	rs769854716	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>A	p.Asp92Asn	p.D92N	ENST00000359971	4/5	19	8	11	33	33	0	ZNF517,missense_variant,p.Asp92Asn,ENST00000359971,;ZNF517,missense_variant,p.Asp92Asn,ENST00000531720,;ZNF517,missense_variant,p.Asp85Asn,ENST00000528012,;ZNF517,missense_variant,p.Glu92Lys,ENST00000525105,;ZNF517,missense_variant,p.Asp59Asn,ENST00000529429,;ZNF517,splice_region_variant,,ENST00000526178,;ZNF517,missense_variant,p.Asp92Asn,ENST00000533965,;ZNF517,splice_region_variant,,ENST00000530879,;	A	ENSG00000197363	ENST00000359971	Transcript	missense_variant	381	274	92	D/N	Gat/Aat	rs769854716	.	.	1	ZNF517	HGNC	27984	protein_coding	YES	CCDS6434.1	ENSP00000353058	ZN517_HUMAN	.	UPI000045770F	.	tolerated(0.07)	possibly_damaging(0.539)	4/5	.	hmmpanther:PTHR24379:SF20,hmmpanther:PTHR24379	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACAGGTGAG	.	5	BLCA
MYOM2	0	.	GRCh37	8	2071163	2071163	+	Silent	SNP	C	C	G	rs757162040	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3492C>G	p.%3D	p.L1164L	ENST00000262113	29/37	70	62	8	49	49	0	MYOM2,synonymous_variant,p.%3D,ENST00000523438,;MYOM2,synonymous_variant,p.%3D,ENST00000262113,;MYOM2,non_coding_transcript_exon_variant,,ENST00000519631,;MYOM2,non_coding_transcript_exon_variant,,ENST00000520072,;MYOM2,upstream_gene_variant,,ENST00000519268,;MYOM2,upstream_gene_variant,,ENST00000523595,;MYOM2,non_coding_transcript_exon_variant,,ENST00000523443,;	G	ENSG00000036448	ENST00000262113	Transcript	synonymous_variant	3633	3492	1164	L	ctC/ctG	rs757162040	.	.	1	MYOM2	HGNC	7614	protein_coding	YES	CCDS5957.1	ENSP00000262113	MYOM2_HUMAN	E7EWH9_HUMAN	UPI000013D260	.	.	.	29/37	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19900:SF48,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF13895,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGCTCAAGGA	byFrequency	3	BLCA
NEFM	0	.	GRCh37	8	24775171	24775171	+	Silent	SNP	G	G	A	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1803G>A	p.%3D	p.L601L	ENST00000221166	3/3	37	32	5	29	29	0	NEFM,synonymous_variant,p.%3D,ENST00000433454,;NEFM,synonymous_variant,p.%3D,ENST00000221166,;NEFM,synonymous_variant,p.%3D,ENST00000437366,;NEFM,intron_variant,,ENST00000518131,;GS1-72M22.1,upstream_gene_variant,,ENST00000607058,;NEFM,intron_variant,,ENST00000521540,;NEFM,downstream_gene_variant,,ENST00000523467,;	A	ENSG00000104722	ENST00000221166	Transcript	synonymous_variant	2585	1803	601	L	ctG/ctA	.	.	.	1	NEFM	HGNC	7734	protein_coding	YES	CCDS6046.1	ENSP00000221166	NFM_HUMAN	.	UPI000013C7A9	.	.	.	3/3	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF19,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCTGGTGGC	.	2	BLCA
CSMD1	0	.	GRCh37	8	2832017	2832017	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8696G>A	p.Cys2899Tyr	p.C2899Y	ENST00000537824	56/70	26	20	6	12	12	0	CSMD1,missense_variant,p.Cys2842Tyr,ENST00000400186,;CSMD1,missense_variant,p.Cys2841Tyr,ENST00000542608,;CSMD1,missense_variant,p.Cys2842Tyr,ENST00000602723,;CSMD1,missense_variant,p.Cys2317Tyr,ENST00000335551,;CSMD1,missense_variant,p.Cys2899Tyr,ENST00000537824,;CSMD1,missense_variant,p.Cys2900Tyr,ENST00000602557,;CSMD1,missense_variant,p.Cys2900Tyr,ENST00000520002,;	T	ENSG00000183117	ENST00000537824	Transcript	missense_variant	8696	8696	2899	C/Y	tGc/tAc	.	.	.	-1	CSMD1	HGNC	14026	protein_coding	YES	CCDS55189.1	ENSP00000441462	.	F5GZ18_HUMAN	UPI0001B723C6	.	.	probably_damaging(0.979)	56/70	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325:SF323,hmmpanther:PTHR19325,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGGCACACT	.	4	BLCA
KCNV2	0	.	GRCh37	9	2718355	2718355	+	Missense_Mutation	SNP	C	C	T	rs377471498	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616C>T	p.Arg206Trp	p.R206W	ENST00000382082	1/2	9	5	4	12	12	0	KCNV2,missense_variant,p.Arg206Trp,ENST00000382082,;KIAA0020,downstream_gene_variant,,ENST00000490444,;	T	ENSG00000168263	ENST00000382082	Transcript	missense_variant	854	616	206	R/W	Cgg/Tgg	rs377471498	.	.	1	KCNV2	HGNC	19698	protein_coding	YES	CCDS6447.1	ENSP00000371514	KCNV2_HUMAN	.	UPI0000048D8E	.	deleterious(0)	probably_damaging(0.987)	1/2	.	Superfamily_domains:SSF54695,Gene3D:3.30.710.10,hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF40	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAGCGGCGC	byFrequency|byCluster	2	BLCA
KIAA1432	0	.	GRCh37	9	5762588	5762588	+	Silent	SNP	C	C	T	rs146834937	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2040C>T	p.%3D	p.I680I	ENST00000414202	18/26	32	18	14	32	32	0	KIAA1432,synonymous_variant,p.%3D,ENST00000449720,;KIAA1432,synonymous_variant,p.%3D,ENST00000545641,;KIAA1432,synonymous_variant,p.%3D,ENST00000418622,;KIAA1432,synonymous_variant,p.%3D,ENST00000251879,;KIAA1432,synonymous_variant,p.%3D,ENST00000381532,;KIAA1432,synonymous_variant,p.%3D,ENST00000414202,;KIAA1432,non_coding_transcript_exon_variant,,ENST00000276898,;ERMP1,downstream_gene_variant,,ENST00000462592,;KIAA1432,upstream_gene_variant,,ENST00000545243,;	T	ENSG00000107036	ENST00000414202	Transcript	synonymous_variant	2231	2040	680	I	atC/atT	rs146834937	.	.	1	KIAA1432	HGNC	17686	protein_coding	YES	CCDS34982.2	ENSP00000416696	RIC1_HUMAN	.	UPI00002110DE	.	.	.	18/26	.	hmmpanther:PTHR22746,hmmpanther:PTHR22746:SF10	G:0.0002	G:0	G:0	.	G:0	G:0.001	G:0	G:0	G:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCATCATGAT	byCluster|by1000G	3	BLCA
STAG2	0	.	GRCh37	X	123227962	123227962	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3673G>T	p.Gly1225Ter	p.G1225*	ENST00000218089	33/35	45	14	31	64	64	0	STAG2,stop_gained,p.Gly1188Ter,ENST00000371160,;STAG2,stop_gained,p.Gly1119Ter,ENST00000354548,;STAG2,stop_gained,p.Gly1188Ter,ENST00000371157,;STAG2,stop_gained,p.Gly1188Ter,ENST00000371144,;STAG2,stop_gained,p.Gly1225Ter,ENST00000218089,;STAG2,stop_gained,p.Gly1225Ter,ENST00000371145,;STAG2,non_coding_transcript_exon_variant,,ENST00000475602,;STAG2,intron_variant,,ENST00000469481,;	T	ENSG00000101972	ENST00000218089	Transcript	stop_gained	4183	3673	1225	G/*	Gga/Tga	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	.	.	33/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAGGGAATG	.	5	BLCA
MAGEC2	0	.	GRCh37	X	141290841	141290841	+	Silent	SNP	C	C	T	rs758440127	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.933G>A	p.%3D	p.K311K	ENST00000247452	3/3	45	8	37	76	75	0	MAGEC2,synonymous_variant,p.%3D,ENST00000247452,;	T	ENSG00000046774	ENST00000247452	Transcript	synonymous_variant	1281	933	311	K	aaG/aaA	rs758440127	.	.	-1	MAGEC2	HGNC	13574	protein_coding	YES	CCDS14678.1	ENSP00000354660	MAGC2_HUMAN	.	UPI000012F059	.	.	.	3/3	.	PROSITE_profiles:PS50838,hmmpanther:PTHR11736,hmmpanther:PTHR11736:SF29,Pfam_domain:PF01454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTTGAT	byFrequency	5	BLCA
RBM10	0	.	GRCh37	X	47038856	47038856	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.863C>G	p.Ser288Ter	p.S288*	ENST00000377604	9/24	9	6	3	17	17	0	RBM10,stop_gained,p.Ser211Ter,ENST00000329236,;RBM10,stop_gained,p.Ser288Ter,ENST00000377604,;RBM10,stop_gained,p.Ser211Ter,ENST00000345781,;RBM10,non_coding_transcript_exon_variant,,ENST00000478410,;RBM10,intron_variant,,ENST00000496012,;	G	ENSG00000182872	ENST00000377604	Transcript	stop_gained	1605	863	288	S/*	tCa/tGa	.	.	.	1	RBM10	HGNC	9896	protein_coding	YES	CCDS14274.1	ENSP00000366829	RBM10_HUMAN	.	UPI0000070DF1	.	.	.	9/24	.	hmmpanther:PTHR13948:SF4,hmmpanther:PTHR13948,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTGTCACAGG	.	2	BLCA
ELK1	0	.	GRCh37	X	47500813	47500813	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28T>C	p.Phe10Leu	p.F10L	ENST00000247161	2/6	14	4	10	23	23	0	ELK1,missense_variant,p.Phe10Leu,ENST00000247161,;ELK1,missense_variant,p.Phe10Leu,ENST00000343894,;ELK1,missense_variant,p.Phe10Leu,ENST00000376983,;ELK1,5_prime_UTR_variant,,ENST00000592066,;ELK1,non_coding_transcript_exon_variant,,ENST00000480157,;	G	ENSG00000126767	ENST00000247161	Transcript	missense_variant	128	28	10	F/L	Ttt/Ctt	.	.	.	-1	ELK1	HGNC	3321	protein_coding	YES	CCDS14283.1	ENSP00000247161	ELK1_HUMAN	Q8N9S0_HUMAN,Q86SR6_HUMAN,K7ENR1_HUMAN	UPI0000129E66	.	deleterious(0)	probably_damaging(0.994)	2/6	.	PROSITE_profiles:PS50061,hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF178,PROSITE_patterns:PS00345,Pfam_domain:PF00178,Gene3D:1.10.10.10,SMART_domains:SM00413,Superfamily_domains:SSF46785,Prints_domain:PR00454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAAACTGCC	.	5	BLCA
MED12	0	.	GRCh37	X	70341517	70341517	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-CU-A72E-01A-12D-A339-08	TCGA-CU-A72E-10A-01D-A339-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952C>G	p.His318Asp	p.H318D	ENST00000374080	7/45	40	8	32	43	43	0	MED12,missense_variant,p.His318Asp,ENST00000374102,;MED12,missense_variant,p.His318Asp,ENST00000333646,;MED12,missense_variant,p.His318Asp,ENST00000374080,;MED12,downstream_gene_variant,,ENST00000429213,;MED12,upstream_gene_variant,,ENST00000462984,;MED12,upstream_gene_variant,,ENST00000471663,;	G	ENSG00000184634	ENST00000374080	Transcript	missense_variant	984	952	318	H/D	Cat/Gat	.	.	.	1	MED12	HGNC	11957	protein_coding	YES	CCDS43970.1	ENSP00000363193	MED12_HUMAN	Q7Z2F4_HUMAN,Q7Z2F1_HUMAN,Q7Z2E0_HUMAN	UPI00004257E2	.	.	probably_damaging(0.968)	7/45	.	Pfam_domain:PF12145,hmmpanther:PTHR12796,hmmpanther:PTHR12796:SF4,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCATGTT	.	5	BLCA
FAM171A1	0	.	GRCh37	10	15255261	15255261	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2326G>A	p.Glu776Lys	p.E776K	ENST00000378116	8/8	84	70	14	85	84	0	FAM171A1,missense_variant,p.Glu776Lys,ENST00000378116,;FAM171A1,downstream_gene_variant,,ENST00000477161,;	T	ENSG00000148468	ENST00000378116	Transcript	missense_variant	2333	2326	776	E/K	Gag/Aag	COSM1297133,COSM1297132	.	.	-1	FAM171A1	HGNC	23522	protein_coding	YES	CCDS31154.1	ENSP00000367356	F1711_HUMAN	.	UPI00001414CA	.	tolerated(0.26)	benign(0.009)	8/8	.	hmmpanther:PTHR31626,Pfam_domain:PF10577,hmmpanther:PTHR31626:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCTTTCT	.	4	BLCA
SKIDA1	0	.	GRCh37	10	21805233	21805233	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1519G>A	p.Asp507Asn	p.D507N	ENST00000449193	4/4	120	103	17	336	334	2	SKIDA1,missense_variant,p.Asp428Asn,ENST00000444772,;SKIDA1,missense_variant,p.Asp507Asn,ENST00000449193,;SKIDA1,downstream_gene_variant,,ENST00000487107,;	T	ENSG00000180592	ENST00000449193	Transcript	missense_variant	3772	1519	507	D/N	Gac/Aac	COSM1297165,COSM1297166	.	.	-1	SKIDA1	HGNC	32697	protein_coding	YES	CCDS44363.1	ENSP00000410041	.	E9PAX1_HUMAN	UPI00015386B3	.	deleterious_low_confidence(0.01)	unknown(0)	4/4	.	hmmpanther:PTHR23187:SF2,hmmpanther:PTHR23187,Pfam_domain:PF15223	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GAGGTCGGGAA	.	2	BLCA
PIP4K2A	0	.	GRCh37	10	22828982	22828982	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1058A>T	p.Tyr353Phe	p.Y353F	ENST00000376573	9/10	131	94	37	136	135	1	PIP4K2A,missense_variant,p.Tyr353Phe,ENST00000376573,;PIP4K2A,missense_variant,p.Tyr294Phe,ENST00000545335,;PIP4K2A,missense_variant,p.Tyr213Phe,ENST00000323883,;PIP4K2A,downstream_gene_variant,,ENST00000604912,;PIP4K2A,upstream_gene_variant,,ENST00000474335,;	A	ENSG00000150867	ENST00000376573	Transcript	missense_variant	1287	1058	353	Y/F	tAc/tTc	COSM1297172	.	.	-1	PIP4K2A	HGNC	8997	protein_coding	YES	CCDS7141.1	ENSP00000365757	PI42A_HUMAN	S4R320_HUMAN,B4DGX2_HUMAN	UPI0000001052	.	deleterious(0.02)	probably_damaging(0.914)	9/10	.	PROSITE_profiles:PS51455,hmmpanther:PTHR23086,hmmpanther:PTHR23086:SF21,Gene3D:1bo1A02,Pfam_domain:PF01504,SMART_domains:SM00330,Superfamily_domains:SSF56104	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAAGTACACC	.	4	BLCA
LYZL1	0	.	GRCh37	10	29600117	29600117	+	3'UTR	SNP	T	T	C	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*129T>C	.	.	ENST00000375500	5/5	29	19	10	32	32	0	LYZL1,3_prime_UTR_variant,,ENST00000375500,;LYZL1,intron_variant,,ENST00000494304,;	C	ENSG00000120563	ENST00000375500	Transcript	3_prime_UTR_variant	771	.	.	.	.	.	.	.	1	LYZL1	HGNC	30502	protein_coding	YES	CCDS31174.1	ENSP00000364650	LYZL1_HUMAN	H0YDZ2_HUMAN	UPI000013CA8C	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGCTATACT	.	5	BLCA
AGAP5	0	.	GRCh37	10	75457528	75457528	+	5'UTR	SNP	G	G	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-15C>T	.	.	ENST00000374094	1/8	35	31	3	60	60	0	AGAP5,5_prime_UTR_variant,,ENST00000443782,;AGAP5,5_prime_UTR_variant,,ENST00000374094,;RP11-464F9.1,intron_variant,,ENST00000399449,;RP11-574K11.28,downstream_gene_variant,,ENST00000580790,;	A	ENSG00000172650	ENST00000374094	Transcript	5_prime_UTR_variant	27	.	.	.	.	.	.	.	-1	AGAP5	HGNC	23467	protein_coding	YES	CCDS44439.1	ENSP00000363207	AGAP5_HUMAN	.	UPI000049DCFD	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CTACTGTCTGC	.	2	BLCA
CPEB3	0	.	GRCh37	10	93952323	93952323	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1076C>G	p.Thr359Ser	p.T359S	ENST00000265997	3/10	26	20	6	37	37	0	CPEB3,missense_variant,p.Thr359Ser,ENST00000265997,;CPEB3,missense_variant,p.Thr359Ser,ENST00000412050,;	C	ENSG00000107864	ENST00000265997	Transcript	missense_variant	1249	1076	359	T/S	aCt/aGt	COSM1297502	.	.	-1	CPEB3	HGNC	21746	protein_coding	YES	CCDS31246.1	ENSP00000265997	CPEB3_HUMAN	.	UPI000013F7DE	.	tolerated(0.16)	benign(0.082)	3/10	.	hmmpanther:PTHR12566,hmmpanther:PTHR12566:SF7	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCAGTCCTT	.	5	BLCA
DSCAML1	0	.	GRCh37	11	117667803	117667803	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172C>G	p.Leu58Val	p.L58V	ENST00000321322	1/33	61	58	3	106	106	0	DSCAML1,missense_variant,p.Leu58Val,ENST00000321322,;DSCAML1,5_prime_UTR_variant,,ENST00000527706,;DSCAML1,intron_variant,,ENST00000525836,;FXYD2,downstream_gene_variant,,ENST00000532119,;FXYD2,downstream_gene_variant,,ENST00000514385,;	C	ENSG00000177103	ENST00000321322	Transcript	missense_variant	174	172	58	L/V	Ctt/Gtt	COSM1297680	.	.	-1	DSCAML1	HGNC	14656	protein_coding	YES	CCDS8384.1	ENSP00000315465	DSCL1_HUMAN	.	UPI00000726E2	.	tolerated_low_confidence(0.13)	unknown(0)	1/33	.	hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF171	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATAAAGAGGCC	.	2	BLCA
CALCA	0	.	GRCh37	11	14990325	14990325	+	3'UTR	SNP	T	T	C	rs782409051	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*20A>G	.	.	ENST00000331587	4/4	135	118	17	166	166	0	CALCA,3_prime_UTR_variant,,ENST00000396372,;CALCA,3_prime_UTR_variant,,ENST00000331587,;CALCB,intron_variant,,ENST00000523376,;CALCA,intron_variant,,ENST00000361010,;CALCA,intron_variant,,ENST00000486207,;CALCA,intron_variant,,ENST00000359642,;CALCA,non_coding_transcript_exon_variant,,ENST00000494746,;CALCA,intron_variant,,ENST00000469608,;	C	ENSG00000110680	ENST00000331587	Transcript	3_prime_UTR_variant	565	.	.	.	.	rs782409051	.	.	-1	CALCA	HGNC	1437	protein_coding	YES	CCDS7819.1	ENSP00000331746	CALC_HUMAN	.	UPI00001AFED8	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAATTAGGAA	byFrequency	4	BLCA
RAG2	0	.	GRCh37	11	36615460	36615460	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259G>C	p.Glu87Gln	p.E87Q	ENST00000311485	2/2	414	393	21	107	107	0	RAG2,missense_variant,p.Glu87Gln,ENST00000311485,;RAG2,missense_variant,p.Glu87Gln,ENST00000529083,;C11orf74,upstream_gene_variant,,ENST00000530697,;C11orf74,upstream_gene_variant,,ENST00000534635,;C11orf74,upstream_gene_variant,,ENST00000532470,;C11orf74,upstream_gene_variant,,ENST00000347206,;C11orf74,upstream_gene_variant,,ENST00000527108,;C11orf74,upstream_gene_variant,,ENST00000531554,;C11orf74,upstream_gene_variant,,ENST00000446510,;RAG2,downstream_gene_variant,,ENST00000527033,;RAG2,downstream_gene_variant,,ENST00000532616,;C11orf74,upstream_gene_variant,,ENST00000334307,;RAG2,intron_variant,,ENST00000524423,;RAG2,downstream_gene_variant,,ENST00000528428,;RAG2,downstream_gene_variant,,ENST00000530276,;RAG2,downstream_gene_variant,,ENST00000534379,;C11orf74,upstream_gene_variant,,ENST00000528092,;RAG1,downstream_gene_variant,,ENST00000534663,;C11orf74,upstream_gene_variant,,ENST00000524539,;	G	ENSG00000175097	ENST00000311485	Transcript	missense_variant	421	259	87	E/Q	Gaa/Caa	COSM1298012	.	.	-1	RAG2	HGNC	9832	protein_coding	YES	CCDS7903.1	ENSP00000308620	RAG2_HUMAN	Q9BYY1_HUMAN,Q71UK1_HUMAN,E9PQB9_HUMAN,E9PPU5_HUMAN	UPI00001330E9	.	tolerated(0.05)	benign(0.291)	2/2	.	hmmpanther:PTHR10960,hmmpanther:PTHR10960:SF0,Gene3D:1zgkA00,Pfam_domain:PF03089,Superfamily_domains:0047741	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTTCAGACT	.	2	BLCA
EXT2	0	.	GRCh37	11	44135765	44135765	+	Silent	SNP	G	G	C	rs368087959	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>C	p.%3D	p.T252T	ENST00000395673	4/14	112	105	7	117	117	0	EXT2,synonymous_variant,p.%3D,ENST00000358681,;EXT2,synonymous_variant,p.%3D,ENST00000533608,;EXT2,synonymous_variant,p.%3D,ENST00000395673,;EXT2,synonymous_variant,p.%3D,ENST00000343631,;EXT2,non_coding_transcript_exon_variant,,ENST00000529186,;	C	ENSG00000151348	ENST00000395673	Transcript	synonymous_variant	812	756	252	T	acG/acC	rs368087959,COSM1298037,COSM1298036	.	.	1	EXT2	HGNC	3513	protein_coding	YES	CCDS53618.1	ENSP00000379032	EXT2_HUMAN	E9PNL9_HUMAN,E9PJA5_HUMAN	UPI0000EE3A5C	.	.	.	4/14	.	Pfam_domain:PF03016,hmmpanther:PTHR11062,hmmpanther:PTHR11062:SF6	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTACGTGGAC	byCluster	2	BLCA
OR8J1	0	.	GRCh37	11	56128191	56128191	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.469A>G	p.Ile157Val	p.I157V	ENST00000303039	1/1	39	35	4	57	57	0	OR8J1,missense_variant,p.Ile157Val,ENST00000303039,;RPL5P29,downstream_gene_variant,,ENST00000482972,;	G	ENSG00000172487	ENST00000303039	Transcript	missense_variant	501	469	157	I/V	Att/Gtt	COSM1298178	.	.	1	OR8J1	HGNC	14855	protein_coding	YES	CCDS31529.1	ENSP00000304060	OR8J1_HUMAN	.	UPI000004BE58	.	tolerated(0.19)	benign(0.006)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF249,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTATTGTG	.	4	BLCA
TNKS1BP1	0	.	GRCh37	11	57081245	57081245	+	Missense_Mutation	SNP	G	G	A	rs771287715	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.917C>T	p.Pro306Leu	p.P306L	ENST00000532437	4/11	24	20	3	30	30	0	TNKS1BP1,missense_variant,p.Pro306Leu,ENST00000532437,;TNKS1BP1,missense_variant,p.Pro306Leu,ENST00000358252,;TNKS1BP1,upstream_gene_variant,,ENST00000530920,;TNKS1BP1,3_prime_UTR_variant,,ENST00000528882,;	A	ENSG00000149115	ENST00000532437	Transcript	missense_variant	1229	917	306	P/L	cCg/cTg	rs771287715	.	.	-1	TNKS1BP1	HGNC	19081	protein_coding	YES	CCDS7951.1	ENSP00000437271	TB182_HUMAN	E9PKK0_HUMAN,E9PKE7_HUMAN	UPI000013DB72	.	tolerated(0.18)	benign(0.001)	4/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22042:SF2,hmmpanther:PTHR22042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CAGGCGGGTGA	byFrequency	2	BLCA
STX3	0	.	GRCh37	11	59554605	59554605	+	Missense_Mutation	SNP	G	G	C	rs140824363	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210G>C	p.Glu70Asp	p.E70D	ENST00000337979	3/11	53	46	6	50	50	0	STX3,missense_variant,p.Glu70Asp,ENST00000535361,;STX3,missense_variant,p.Glu22Asp,ENST00000528805,;STX3,missense_variant,p.Glu70Asp,ENST00000529177,;STX3,missense_variant,p.Glu39Asp,ENST00000300150,;STX3,missense_variant,p.Glu70Asp,ENST00000337979,;STX3,intron_variant,,ENST00000437946,;STX3,non_coding_transcript_exon_variant,,ENST00000530498,;STX3,intron_variant,,ENST00000533637,;	C	ENSG00000166900	ENST00000337979	Transcript	missense_variant	757	210	70	E/D	gaG/gaC	rs140824363,COSM1298250	.	.	1	STX3	HGNC	11438	protein_coding	YES	CCDS7975.1	ENSP00000338562	STX3_HUMAN	Q53YE2_HUMAN,F8W9Y0_HUMAN,E9PN33_HUMAN	UPI000016786E	.	tolerated(1)	benign(0.06)	3/11	.	hmmpanther:PTHR19957:SF34,hmmpanther:PTHR19957,Pfam_domain:PF00804,Gene3D:1.20.58.70,SMART_domains:SM00503,Superfamily_domains:SSF47661	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGAGCCAAG	byCluster	4	BLCA
DNAJC4	0	.	GRCh37	11	64000221	64000221	+	Silent	SNP	C	C	T	rs372029552	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411C>T	p.%3D	p.S137S	ENST00000321685	5/7	66	59	7	160	160	0	DNAJC4,synonymous_variant,p.%3D,ENST00000535246,;DNAJC4,synonymous_variant,p.%3D,ENST00000321685,;DNAJC4,synonymous_variant,p.%3D,ENST00000321460,;DNAJC4,intron_variant,,ENST00000355040,;VEGFB,upstream_gene_variant,,ENST00000426086,;VEGFB,upstream_gene_variant,,ENST00000309422,;NUDT22,downstream_gene_variant,,ENST00000428347,;NUDT22,downstream_gene_variant,,ENST00000279206,;VEGFB,upstream_gene_variant,,ENST00000541681,;NUDT22,downstream_gene_variant,,ENST00000441250,;RP11-783K16.14,intron_variant,,ENST00000534988,;RP11-783K16.14,intron_variant,,ENST00000539963,;DNAJC4,non_coding_transcript_exon_variant,,ENST00000538961,;DNAJC4,non_coding_transcript_exon_variant,,ENST00000537109,;DNAJC4,non_coding_transcript_exon_variant,,ENST00000543791,;DNAJC4,non_coding_transcript_exon_variant,,ENST00000542376,;NUDT22,downstream_gene_variant,,ENST00000535000,;NUDT22,downstream_gene_variant,,ENST00000422364,;NUDT22,downstream_gene_variant,,ENST00000534929,;VEGFB,upstream_gene_variant,,ENST00000543462,;NUDT22,downstream_gene_variant,,ENST00000537094,;NUDT22,downstream_gene_variant,,ENST00000545184,;DNAJC4,upstream_gene_variant,,ENST00000540945,;NUDT22,downstream_gene_variant,,ENST00000543501,;DNAJC4,downstream_gene_variant,,ENST00000543685,;NUDT22,downstream_gene_variant,,ENST00000543358,;DNAJC4,downstream_gene_variant,,ENST00000536006,;	T	ENSG00000110011	ENST00000321685	Transcript	synonymous_variant	876	411	137	S	agC/agT	rs372029552	.	.	1	DNAJC4	HGNC	5271	protein_coding	YES	CCDS41666.1	ENSP00000396896	DNJC4_HUMAN	.	UPI000000DA95	.	.	.	5/7	.	hmmpanther:PTHR24078,hmmpanther:PTHR24078:SF145	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CACAGCGTGAG	byFrequency|byCluster	3	BLCA
P2RY2	0	.	GRCh37	11	72946402	72946402	+	3'UTR	SNP	A	A	G	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*64A>G	.	.	ENST00000311131	3/3	34	28	6	79	79	0	P2RY2,3_prime_UTR_variant,,ENST00000393597,;P2RY2,3_prime_UTR_variant,,ENST00000311131,;P2RY2,3_prime_UTR_variant,,ENST00000393596,;RP11-800A3.4,upstream_gene_variant,,ENST00000565433,;	G	ENSG00000175591	ENST00000311131	Transcript	3_prime_UTR_variant	1665	.	.	.	.	.	.	.	1	P2RY2	HGNC	8541	protein_coding	YES	CCDS8219.1	ENSP00000310305	P2RY2_HUMAN	.	UPI000013F103	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE|VARSCANS	TGTGCAGACGC	.	3	BLCA
ARHGEF17	0	.	GRCh37	11	73073578	73073578	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4795C>T	p.Leu1599Phe	p.L1599F	ENST00000263674	14/21	39	33	6	113	113	0	ARHGEF17,missense_variant,p.Leu1599Phe,ENST00000263674,;ARHGEF17,upstream_gene_variant,,ENST00000543530,;ARHGEF17,upstream_gene_variant,,ENST00000536481,;	T	ENSG00000110237	ENST00000263674	Transcript	missense_variant	5145	4795	1599	L/F	Ctc/Ttc	COSM1298591	.	.	1	ARHGEF17	HGNC	21726	protein_coding	YES	CCDS8221.1	ENSP00000263674	ARHGH_HUMAN	.	UPI000004980B	.	tolerated(0.14)	benign(0.155)	14/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12877:SF15,hmmpanther:PTHR12877	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGACGCTCGCG	.	4	BLCA
HEPHL1	0	.	GRCh37	11	93796804	93796804	+	Silent	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546G>C	p.%3D	p.L182L	ENST00000315765	3/20	55	50	5	79	78	1	HEPHL1,synonymous_variant,p.%3D,ENST00000315765,;	C	ENSG00000181333	ENST00000315765	Transcript	synonymous_variant	554	546	182	L	ctG/ctC	COSM1298766	.	.	1	HEPHL1	HGNC	30477	protein_coding	YES	CCDS44710.1	ENSP00000313699	HPHL1_HUMAN	.	UPI0000237563	.	.	.	3/20	.	hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF615,Pfam_domain:PF07732,Gene3D:2.60.40.420,Superfamily_domains:SSF49503	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTGACCTG	.	2	BLCA
SESN3	0	.	GRCh37	11	94911061	94911061	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1069G>A	p.Glu357Lys	p.E357K	ENST00000536441	8/10	21	16	5	24	24	0	SESN3,missense_variant,p.Glu218Lys,ENST00000278499,;SESN3,missense_variant,p.Glu357Lys,ENST00000536441,;SESN3,downstream_gene_variant,,ENST00000393234,;RP11-712B9.2,intron_variant,,ENST00000534864,;RP11-712B9.2,intron_variant,,ENST00000534891,;	T	ENSG00000149212	ENST00000536441	Transcript	missense_variant	1406	1069	357	E/K	Gaa/Aaa	COSM1298785	.	.	-1	SESN3	HGNC	23060	protein_coding	YES	CCDS8303.1	ENSP00000441927	SESN3_HUMAN	.	UPI0000135891	.	deleterious(0)	benign(0.217)	8/10	.	hmmpanther:PTHR12474:SF4,hmmpanther:PTHR12474,Pfam_domain:PF04636	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATTTTCCCAGG	.	3	BLCA
UHRF1BP1L	0	.	GRCh37	12	100452896	100452896	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2159A>T	p.Asp720Val	p.D720V	ENST00000279907	14/21	72	65	7	84	84	0	UHRF1BP1L,missense_variant,p.Asp370Val,ENST00000545232,;UHRF1BP1L,missense_variant,p.Asp720Val,ENST00000279907,;	A	ENSG00000111647	ENST00000279907	Transcript	missense_variant	2372	2159	720	D/V	gAc/gTc	COSM1298799	.	.	-1	UHRF1BP1L	HGNC	29102	protein_coding	YES	CCDS31882.1	ENSP00000279907	UH1BL_HUMAN	F8W665_HUMAN,F8VWX2_HUMAN	UPI0000160563	.	deleterious(0)	probably_damaging(0.935)	14/21	.	hmmpanther:PTHR22774:SF13,hmmpanther:PTHR22774	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ATGAGTCTACA	.	2	BLCA
GLT1D1	0	.	GRCh37	12	129432001	129432001	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>A	p.Glu180Lys	p.E180K	ENST00000281703	6/8	83	71	12	140	140	0	GLT1D1,missense_variant,p.Glu180Lys,ENST00000281703,;GLT1D1,missense_variant,p.Glu260Lys,ENST00000442111,;GLT1D1,missense_variant,p.Glu177Lys,ENST00000542193,;GLT1D1,missense_variant,p.Glu265Lys,ENST00000537468,;GLT1D1,splice_region_variant,,ENST00000413816,;GLT1D1,splice_region_variant,,ENST00000441390,;RP11-753B7.2,upstream_gene_variant,,ENST00000539058,;	A	ENSG00000151948	ENST00000281703	Transcript	missense_variant	584	538	180	E/K	Gag/Aag	COSM1299115	.	.	1	GLT1D1	HGNC	26483	protein_coding	YES	CCDS9265.1	ENSP00000281703	GL1D1_HUMAN	.	UPI0000070E33	.	deleterious(0)	possibly_damaging(0.486)	6/8	.	Superfamily_domains:SSF53756,Gene3D:3.40.50.2000,Pfam_domain:PF00534,hmmpanther:PTHR12526,hmmpanther:PTHR12526:SF331	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTGGAGGTA	.	2	BLCA
ITPR2	0	.	GRCh37	12	26818878	26818878	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1516C>T	p.Gln506Ter	p.Q506*	ENST00000381340	14/57	79	70	9	74	74	0	ITPR2,stop_gained,p.Gln506Ter,ENST00000381340,;	A	ENSG00000123104	ENST00000381340	Transcript	stop_gained	1933	1516	506	Q/*	Caa/Taa	COSM1299264	.	.	-1	ITPR2	HGNC	6181	protein_coding	YES	CCDS41764.1	ENSP00000370744	ITPR2_HUMAN	I1VE21_HUMAN	UPI00001FB7D2	.	.	.	14/57	.	hmmpanther:PTHR13715,Pfam_domain:PF01365,Gene3D:1n4kA02,Superfamily_domains:0048280	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TTTTTGACGCT	.	3	BLCA
NCAPD2	0	.	GRCh37	12	6638150	6638150	+	Missense_Mutation	SNP	C	C	T	rs766002564	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3517C>T	p.Arg1173Cys	p.R1173C	ENST00000315579	27/32	102	86	16	142	142	0	NCAPD2,missense_variant,p.Arg1128Cys,ENST00000545962,;NCAPD2,missense_variant,p.Arg1173Cys,ENST00000315579,;GAPDH,upstream_gene_variant,,ENST00000229239,;NCAPD2,downstream_gene_variant,,ENST00000382457,;RP5-940J5.3,downstream_gene_variant,,ENST00000537921,;NCAPD2,non_coding_transcript_exon_variant,,ENST00000535804,;NCAPD2,upstream_gene_variant,,ENST00000539885,;NCAPD2,downstream_gene_variant,,ENST00000542492,;NCAPD2,3_prime_UTR_variant,,ENST00000539084,;	T	ENSG00000010292	ENST00000315579	Transcript	missense_variant	4316	3517	1173	R/C	Cgc/Tgc	rs766002564,COSM942600	.	.	1	NCAPD2	HGNC	24305	protein_coding	YES	CCDS8548.1	ENSP00000325017	CND1_HUMAN	F5GZK7_HUMAN	UPI000013C8CA	.	deleterious(0)	probably_damaging(0.996)	27/32	.	hmmpanther:PTHR14222,hmmpanther:PTHR14222:SF2,Pfam_domain:PF12717,Gene3D:1.25.10.10,PIRSF_domain:PIRSF017127,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAGCCGCCTG	.	4	BLCA
A2ML1	0	.	GRCh37	12	9020633	9020633	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3913C>T	p.Gln1305Ter	p.Q1305*	ENST00000299698	30/36	81	73	8	64	64	0	A2ML1,stop_gained,p.Gln1305Ter,ENST00000299698,;A2ML1,stop_gained,p.Gln855Ter,ENST00000541459,;A2ML1,stop_gained,p.Gln814Ter,ENST00000539547,;A2ML1,stop_gained,p.Gln33Ter,ENST00000537475,;	T	ENSG00000166535	ENST00000299698	Transcript	stop_gained	4093	3913	1305	Q/*	Cag/Tag	COSM1299949	.	.	1	A2ML1	HGNC	23336	protein_coding	YES	CCDS8596.2	ENSP00000299698	A2ML1_HUMAN	H0YGG5_HUMAN	UPI000022904E	.	.	.	30/36	.	hmmpanther:PTHR11412:SF79,hmmpanther:PTHR11412	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	CAGGCCAGGGC	.	2	BLCA
F10	0	.	GRCh37	13	113795343	113795343	+	Missense_Mutation	SNP	G	G	C	rs375847622	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481G>C	p.Gly161Arg	p.G161R	ENST00000375559	5/8	56	52	4	107	107	0	F10,missense_variant,p.Gly161Arg,ENST00000375559,;F10,missense_variant,p.Gly161Arg,ENST00000409306,;F10,missense_variant,p.Gly161Arg,ENST00000375551,;F10,3_prime_UTR_variant,,ENST00000410083,;F10,non_coding_transcript_exon_variant,,ENST00000477269,;F10,non_coding_transcript_exon_variant,,ENST00000498455,;	C	ENSG00000126218	ENST00000375559	Transcript	missense_variant	519	481	161	G/R	Ggc/Cgc	rs375847622,COSM1300040	.	.	1	F10	HGNC	3528	protein_coding	YES	CCDS9530.1	ENSP00000364709	FA10_HUMAN	Q5JVE7_HUMAN	UPI000000DB39	.	tolerated(0.09)	possibly_damaging(0.769)	5/8	.	hmmpanther:PTHR24265:SF40,hmmpanther:PTHR24265,PROSITE_patterns:PS01186,Pfam_domain:PF14670,Gene3D:2.10.25.10,PIRSF_domain:PIRSF001143,SMART_domains:SM00181,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAACGGCAAG	byFrequency|byCluster	2	BLCA
KLHL1	0	.	GRCh37	13	70681399	70681399	+	Silent	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433C>T	p.%3D	p.L145L	ENST00000377844	1/11	158	133	24	225	225	0	KLHL1,synonymous_variant,p.%3D,ENST00000545028,;KLHL1,synonymous_variant,p.%3D,ENST00000377844,;ATXN8OS,non_coding_transcript_exon_variant,,ENST00000414504,;ATXN8OS,upstream_gene_variant,,ENST00000424524,;	A	ENSG00000150361	ENST00000377844	Transcript	synonymous_variant	1193	433	145	L	Ctg/Ttg	COSM1300277	.	.	-1	KLHL1	HGNC	6352	protein_coding	YES	CCDS9445.1	ENSP00000367075	KLHL1_HUMAN	Q96RF4_HUMAN	UPI000004B136	.	.	.	1/11	.	hmmpanther:PTHR24412:SF75,hmmpanther:PTHR24412	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCAGAACCA	.	4	BLCA
TEP1	0	.	GRCh37	14	20876196	20876196	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.403C>G	p.His135Asp	p.H135D	ENST00000262715	2/55	191	176	15	167	167	0	TEP1,missense_variant,p.His135Asp,ENST00000556549,;TEP1,missense_variant,p.His135Asp,ENST00000556935,;TEP1,missense_variant,p.His135Asp,ENST00000262715,;TEP1,missense_variant,p.His135Asp,ENST00000555727,;TEP1,upstream_gene_variant,,ENST00000557627,;	C	ENSG00000129566	ENST00000262715	Transcript	missense_variant	444	403	135	H/D	Cac/Gac	COSM1300473	.	.	-1	TEP1	HGNC	11726	protein_coding	YES	CCDS9548.1	ENSP00000262715	TEP1_HUMAN	G3V591_HUMAN	UPI000013D30B	.	tolerated_low_confidence(0.1)	benign(0.002)	2/55	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATGTGAGATA	.	2	BLCA
NFATC4	0	.	GRCh37	14	24836320	24836320	+	Silent	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60C>T	p.%3D	p.V20V	ENST00000413692	1/10	188	165	23	306	306	0	NFATC4,synonymous_variant,p.%3D,ENST00000413692,;NFATC4,synonymous_variant,p.%3D,ENST00000554591,;NFATC4,upstream_gene_variant,,ENST00000554050,;NFATC4,upstream_gene_variant,,ENST00000554779,;NFATC4,upstream_gene_variant,,ENST00000422617,;NFATC4,upstream_gene_variant,,ENST00000250373,;NFATC4,upstream_gene_variant,,ENST00000555590,;NFATC4,upstream_gene_variant,,ENST00000556169,;NFATC4,upstream_gene_variant,,ENST00000553469,;NFATC4,upstream_gene_variant,,ENST00000539237,;NFATC4,upstream_gene_variant,,ENST00000554661,;NFATC4,upstream_gene_variant,,ENST00000555453,;NFATC4,upstream_gene_variant,,ENST00000553708,;NFATC4,upstream_gene_variant,,ENST00000557451,;NFATC4,upstream_gene_variant,,ENST00000556279,;NFATC4,upstream_gene_variant,,ENST00000553879,;NFATC4,upstream_gene_variant,,ENST00000424781,;NFATC4,upstream_gene_variant,,ENST00000557674,;NFATC4,upstream_gene_variant,,ENST00000554966,;NFATC4,upstream_gene_variant,,ENST00000554903,;NFATC4,upstream_gene_variant,,ENST00000554344,;NFATC4,non_coding_transcript_exon_variant,,ENST00000440487,;NFATC4,upstream_gene_variant,,ENST00000557028,;NFATC4,upstream_gene_variant,,ENST00000556957,;NFATC4,upstream_gene_variant,,ENST00000556302,;NFATC4,upstream_gene_variant,,ENST00000554655,;	T	ENSG00000100968	ENST00000413692	Transcript	synonymous_variant	204	60	20	V	gtC/gtT	.	.	.	1	NFATC4	HGNC	7778	protein_coding	YES	CCDS45089.1	ENSP00000388910	NFAC4_HUMAN	G3V4K1_HUMAN	UPI00017BD050	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CGAGTCACGAA	.	3	BLCA
G2E3	0	.	GRCh37	14	31077178	31077178	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1403C>G	p.Ser468Cys	p.S468C	ENST00000206595	12/15	47	39	8	89	89	0	G2E3,missense_variant,p.Ser498Cys,ENST00000553504,;G2E3,missense_variant,p.Ser468Cys,ENST00000206595,;G2E3,missense_variant,p.Ser422Cys,ENST00000438909,;G2E3,downstream_gene_variant,,ENST00000552515,;G2E3,non_coding_transcript_exon_variant,,ENST00000547638,;G2E3,downstream_gene_variant,,ENST00000544007,;G2E3,intron_variant,,ENST00000548934,;G2E3,upstream_gene_variant,,ENST00000549159,;G2E3,downstream_gene_variant,,ENST00000547209,;	G	ENSG00000092140	ENST00000206595	Transcript	missense_variant	1557	1403	468	S/C	tCt/tGt	COSM1300557	.	.	1	G2E3	HGNC	20338	protein_coding	YES	CCDS9638.1	ENSP00000206595	G2E3_HUMAN	G3V5B6_HUMAN,G3V3B6_HUMAN,F8W0F5_HUMAN,F8VY49_HUMAN,F5GX24_HUMAN	UPI000013F3A8	.	deleterious(0)	probably_damaging(1)	12/15	.	Superfamily_domains:SSF56204,SMART_domains:SM00119,Pfam_domain:PF00632,hmmpanther:PTHR12420,hmmpanther:PTHR12420:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTTCTAAAA	.	2	BLCA
ATP5S	0	.	GRCh37	14	50779729	50779730	+	5'UTR	DEL	AC	AC	-	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	AC	AC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9_-8delCA	.	.	ENST00000311459	1/5	145	131	14	188	188	0	ATP5S,5_prime_UTR_variant,,ENST00000426751,;ATP5S,5_prime_UTR_variant,,ENST00000311459,;ATP5S,5_prime_UTR_variant,,ENST00000245448,;L2HGDH,upstream_gene_variant,,ENST00000261699,;L2HGDH,upstream_gene_variant,,ENST00000267436,;L2HGDH,upstream_gene_variant,,ENST00000555610,;L2HGDH,upstream_gene_variant,,ENST00000421284,;L2HGDH,upstream_gene_variant,,ENST00000555423,;ATP5S,intron_variant,,ENST00000555939,;ATP5S,intron_variant,,ENST00000557421,;ATP5S,intron_variant,,ENST00000554438,;L2HGDH,upstream_gene_variant,,ENST00000556393,;ATP5S,5_prime_UTR_variant,,ENST00000554204,;L2HGDH,upstream_gene_variant,,ENST00000554191,;	-	ENSG00000125375	ENST00000311459	Transcript	5_prime_UTR_variant	371-372	.	.	.	.	.	.	.	1	ATP5S	HGNC	18799	protein_coding	YES	CCDS32075.1	ENSP00000308334	ATP5S_HUMAN	.	UPI000013F17D	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CGAGATACAGTTT	.	3	BLCA
ZFP36L1	0	.	GRCh37	14	69262546	69262546	+	5'Flank	SNP	G	G	C	rs761388035	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000439696	.	129	118	11	250	249	0	ZFP36L1,missense_variant,p.Leu156Val,ENST00000408913,;ZFP36L1,intron_variant,,ENST00000557022,;ZFP36L1,intron_variant,,ENST00000553375,;ZFP36L1,intron_variant,,ENST00000557086,;ZFP36L1,upstream_gene_variant,,ENST00000336440,;ZFP36L1,upstream_gene_variant,,ENST00000439696,;ZFP36L1,upstream_gene_variant,,ENST00000555997,;	C	ENSG00000185650	ENST00000439696	Transcript	upstream_gene_variant	.	.	.	.	.	rs761388035,COSM1300782	.	2589	-1	ZFP36L1	HGNC	1107	protein_coding	YES	CCDS9791.1	ENSP00000388402	TISB_HUMAN	G3V2D5_HUMAN,B4E1N3_HUMAN,B4DG15_HUMAN	UPI0000136FBC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCCGAGAGGAG	.	3	BLCA
PDIA3	0	.	GRCh37	15	44061801	44061801	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1223A>G	p.His408Arg	p.H408R	ENST00000300289	10/13	91	79	12	132	132	0	PDIA3,missense_variant,p.His408Arg,ENST00000300289,;PDIA3,missense_variant,p.His388Arg,ENST00000538521,;ELL3,downstream_gene_variant,,ENST00000319359,;ELL3,downstream_gene_variant,,ENST00000497465,;PDIA3,3_prime_UTR_variant,,ENST00000434494,;RP11-296A16.1,downstream_gene_variant,,ENST00000417761,;PDIA3,downstream_gene_variant,,ENST00000455250,;PDIA3,upstream_gene_variant,,ENST00000497349,;ELL3,downstream_gene_variant,,ENST00000467869,;	G	ENSG00000167004	ENST00000300289	Transcript	missense_variant	1371	1223	408	H/R	cAc/cGc	COSM1301154	.	.	1	PDIA3	HGNC	4606	protein_coding	YES	CCDS10101.1	ENSP00000300289	PDIA3_HUMAN	.	UPI0000052A4F	.	deleterious(0)	probably_damaging(0.993)	10/13	.	PROSITE_profiles:PS51352,hmmpanther:PTHR18929,hmmpanther:PTHR18929:SF60,PROSITE_patterns:PS00194,TIGRFAM_domain:TIGR01130,Gene3D:3.40.30.10,Pfam_domain:PF00085,TIGRFAM_domain:TIGR01126,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTCACTGTA	.	4	BLCA
MYEF2	0	.	GRCh37	15	48443319	48443319	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1356G>A	p.Met452Ile	p.M452I	ENST00000324324	14/17	32	27	5	57	57	0	MYEF2,missense_variant,p.Met452Ile,ENST00000324324,;MYEF2,intron_variant,,ENST00000558395,;MYEF2,intron_variant,,ENST00000267836,;MYEF2,upstream_gene_variant,,ENST00000560172,;MYEF2,intron_variant,,ENST00000560513,;MYEF2,intron_variant,,ENST00000560530,;MYEF2,downstream_gene_variant,,ENST00000561351,;MYEF2,upstream_gene_variant,,ENST00000559057,;MYEF2,upstream_gene_variant,,ENST00000558289,;MYEF2,downstream_gene_variant,,ENST00000561301,;	T	ENSG00000104177	ENST00000324324	Transcript	missense_variant	1636	1356	452	M/I	atG/atA	COSM1301177	.	.	-1	MYEF2	HGNC	17940	protein_coding	YES	CCDS32230.1	ENSP00000316950	MYEF2_HUMAN	.	UPI0000366A40	.	tolerated(0.14)	benign(0.191)	14/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23003:SF15,hmmpanther:PTHR23003	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GGACCCATGTT	.	2	BLCA
UNC13C	0	.	GRCh37	15	54586192	54586192	+	Silent	SNP	T	T	C	rs751883204	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3918T>C	p.%3D	p.D1306D	ENST00000260323	10/32	106	86	20	150	150	0	UNC13C,synonymous_variant,p.%3D,ENST00000537900,;UNC13C,synonymous_variant,p.%3D,ENST00000545554,;UNC13C,synonymous_variant,p.%3D,ENST00000260323,;UNC13C,non_coding_transcript_exon_variant,,ENST00000561210,;	C	ENSG00000137766	ENST00000260323	Transcript	synonymous_variant	3918	3918	1306	D	gaT/gaC	rs751883204,COSM1301238,COSM1301239	.	.	1	UNC13C	HGNC	23149	protein_coding	YES	CCDS45264.1	ENSP00000260323	UN13C_HUMAN	H3BRP8_HUMAN	UPI0000DD82AB	.	.	.	10/32	.	PROSITE_profiles:PS50004,hmmpanther:PTHR10480,hmmpanther:PTHR10480:SF2,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGATGATTT	.	5	BLCA
TMC7	0	.	GRCh37	16	19058553	19058553	+	Silent	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1722C>T	p.%3D	p.I574I	ENST00000304381	12/16	371	331	40	320	320	0	TMC7,synonymous_variant,p.%3D,ENST00000569532,;TMC7,synonymous_variant,p.%3D,ENST00000421369,;TMC7,synonymous_variant,p.%3D,ENST00000304381,;TMC7,downstream_gene_variant,,ENST00000568469,;	T	ENSG00000170537	ENST00000304381	Transcript	synonymous_variant	1852	1722	574	I	atC/atT	COSM1301680,COSM967827	.	.	1	TMC7	HGNC	23000	protein_coding	YES	CCDS10573.1	ENSP00000304710	TMC7_HUMAN	E7ERB6_HUMAN	UPI00001AEDAD	.	.	.	12/16	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR23302,hmmpanther:PTHR23302:SF9,Pfam_domain:PF07810	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	ATTATCATCTT	.	3	BLCA
EEF2K	0	.	GRCh37	16	22269882	22269882	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1097C>T	p.Ser366Phe	p.S366F	ENST00000263026	10/18	106	74	31	107	106	0	EEF2K,missense_variant,p.Ser366Phe,ENST00000263026,;EEF2K,missense_variant,p.Ser366Phe,ENST00000568269,;EEF2K,non_coding_transcript_exon_variant,,ENST00000563555,;	T	ENSG00000103319	ENST00000263026	Transcript	missense_variant	1571	1097	366	S/F	tCt/tTt	COSM1250959,COSM1518767,COSM1250960,COSM1518768	.	.	1	EEF2K	HGNC	24615	protein_coding	YES	CCDS10604.1	ENSP00000263026	EF2K_HUMAN	.	UPI000013D387	.	deleterious(0)	probably_damaging(0.974)	10/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14187,PIRSF_domain:PIRSF038139	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTGGGA	.	5	BLCA
ALDOA	0	.	GRCh37	16	30080666	30080666	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742G>A	p.Asp248Asn	p.D248N	ENST00000395248	13/16	107	94	12	164	164	0	ALDOA,missense_variant,p.Asp194Asn,ENST00000569545,;ALDOA,missense_variant,p.Asp194Asn,ENST00000412304,;ALDOA,missense_variant,p.Asp248Asn,ENST00000564595,;ALDOA,missense_variant,p.Asp248Asn,ENST00000562679,;ALDOA,missense_variant,p.Asp198Asn,ENST00000395240,;ALDOA,missense_variant,p.Asp248Asn,ENST00000395248,;ALDOA,missense_variant,p.Asp194Asn,ENST00000564546,;ALDOA,missense_variant,p.Asp194Asn,ENST00000569798,;ALDOA,missense_variant,p.Asp194Asn,ENST00000338110,;ALDOA,missense_variant,p.Asp194Asn,ENST00000566897,;ALDOA,missense_variant,p.Asp194Asn,ENST00000563060,;ALDOA,intron_variant,,ENST00000564688,;ALDOA,upstream_gene_variant,,ENST00000565355,;ALDOA,downstream_gene_variant,,ENST00000566846,;ALDOA,downstream_gene_variant,,ENST00000563987,;ALDOA,downstream_gene_variant,,ENST00000568435,;ALDOA,downstream_gene_variant,,ENST00000562168,;ALDOA,downstream_gene_variant,,ENST00000566012,;ALDOA,non_coding_transcript_exon_variant,,ENST00000564521,;ALDOA,non_coding_transcript_exon_variant,,ENST00000566130,;ALDOA,non_coding_transcript_exon_variant,,ENST00000566146,;ALDOA,downstream_gene_variant,,ENST00000567555,;ALDOA,downstream_gene_variant,,ENST00000562302,;	A	ENSG00000149925	ENST00000395248	Transcript	missense_variant	1724	742	248	D/N	Gat/Aat	COSM1301851	.	.	1	ALDOA	HGNC	414	protein_coding	YES	CCDS58450.1	ENSP00000378669	ALDOA_HUMAN	H3BUH7_HUMAN,H3BPS8_HUMAN,A4UCS9_HUMAN	UPI0000E59D76	.	tolerated(0.06)	benign(0.137)	13/16	.	hmmpanther:PTHR11627,Pfam_domain:PF00274,Gene3D:3.20.20.70,Superfamily_domains:SSF51569	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TCCCTGATGGG	.	3	BLCA
NETO2	0	.	GRCh37	16	47162452	47162452	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>A	p.Asp89Asn	p.D89N	ENST00000562435	4/9	146	131	15	234	233	0	NETO2,missense_variant,p.Asp89Asn,ENST00000562435,;NETO2,missense_variant,p.Asp89Asn,ENST00000303155,;NETO2,upstream_gene_variant,,ENST00000562559,;	T	ENSG00000171208	ENST00000562435	Transcript	missense_variant	650	265	89	D/N	Gat/Aat	COSM1301985	.	.	-1	NETO2	HGNC	14644	protein_coding	YES	CCDS10727.1	ENSP00000455169	NETO2_HUMAN	.	UPI000003C718	.	tolerated(0.06)	possibly_damaging(0.6)	4/9	.	PROSITE_profiles:PS01180,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF314,Pfam_domain:PF00431,Gene3D:2.60.120.290,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TTCATCAAAGG	.	3	BLCA
FHOD1	0	.	GRCh37	16	67263612	67263612	+	Missense_Mutation	SNP	G	G	A	rs762626115	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3422C>T	p.Thr1141Met	p.T1141M	ENST00000258201	22/22	129	111	18	198	198	0	FHOD1,missense_variant,p.Thr1141Met,ENST00000258201,;TMEM208,downstream_gene_variant,,ENST00000304800,;LRRC29,upstream_gene_variant,,ENST00000433915,;TMEM208,downstream_gene_variant,,ENST00000563953,;LRRC29,upstream_gene_variant,,ENST00000393992,;TMEM208,downstream_gene_variant,,ENST00000565201,;LRRC29,upstream_gene_variant,,ENST00000409509,;LRRC29,upstream_gene_variant,,ENST00000447579,;LRRC29,upstream_gene_variant,,ENST00000424285,;AC040160.1,upstream_gene_variant,,ENST00000454102,;LRRC29,upstream_gene_variant,,ENST00000341546,;TMEM208,downstream_gene_variant,,ENST00000563426,;LRRC29,upstream_gene_variant,,ENST00000485549,;LRRC29,upstream_gene_variant,,ENST00000462169,;FHOD1,non_coding_transcript_exon_variant,,ENST00000567752,;FHOD1,non_coding_transcript_exon_variant,,ENST00000569085,;FHOD1,downstream_gene_variant,,ENST00000567561,;FHOD1,downstream_gene_variant,,ENST00000561922,;TMEM208,downstream_gene_variant,,ENST00000564649,;TMEM208,downstream_gene_variant,,ENST00000563168,;FHOD1,downstream_gene_variant,,ENST00000568595,;FHOD1,downstream_gene_variant,,ENST00000567509,;TMEM208,downstream_gene_variant,,ENST00000564087,;TMEM208,downstream_gene_variant,,ENST00000566486,;FHOD1,downstream_gene_variant,,ENST00000566006,;TMEM208,downstream_gene_variant,,ENST00000567193,;FHOD1,downstream_gene_variant,,ENST00000562266,;FHOD1,downstream_gene_variant,,ENST00000569888,;TMEM208,downstream_gene_variant,,ENST00000562235,;TMEM208,downstream_gene_variant,,ENST00000561586,;TMEM208,downstream_gene_variant,,ENST00000563271,;	A	ENSG00000135723	ENST00000258201	Transcript	missense_variant	3670	3422	1141	T/M	aCg/aTg	rs762626115,COSM1302119	.	.	-1	FHOD1	HGNC	17905	protein_coding	YES	CCDS10834.1	ENSP00000258201	FHOD1_HUMAN	.	UPI000013CFB9	.	deleterious(0)	probably_damaging(0.991)	22/22	.	hmmpanther:PTHR23213:SF189,hmmpanther:PTHR23213	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TCAACGTCCTT	byCluster	3	BLCA
MBTPS1	0	.	GRCh37	16	84096944	84096944	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2538C>G	p.Asp846Glu	p.D846E	ENST00000343411	19/23	159	153	5	142	142	0	MBTPS1,missense_variant,p.Asp846Glu,ENST00000343411,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000570064,;MBTPS1,upstream_gene_variant,,ENST00000561936,;MBTPS1,upstream_gene_variant,,ENST00000564049,;MBTPS1,upstream_gene_variant,,ENST00000562886,;	C	ENSG00000140943	ENST00000343411	Transcript	missense_variant	3034	2538	846	D/E	gaC/gaG	COSM1302304	.	.	-1	MBTPS1	HGNC	15456	protein_coding	YES	CCDS10941.1	ENSP00000344223	MBTP1_HUMAN	H3BV53_HUMAN	UPI0000033348	.	deleterious(0)	probably_damaging(0.999)	19/23	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGGAGTCCCC	.	2	BLCA
BANP	0	.	GRCh37	16	88039762	88039762	+	Missense_Mutation	SNP	C	C	G	rs543231944	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522C>G	p.His174Gln	p.H174Q	ENST00000393207	6/14	157	139	17	222	222	0	BANP,missense_variant,p.His143Gln,ENST00000393208,;BANP,missense_variant,p.His143Gln,ENST00000479780,;BANP,missense_variant,p.His174Gln,ENST00000393207,;BANP,missense_variant,p.His174Gln,ENST00000286122,;BANP,missense_variant,p.His182Gln,ENST00000538234,;BANP,missense_variant,p.His149Gln,ENST00000439677,;BANP,missense_variant,p.His149Gln,ENST00000355163,;BANP,missense_variant,p.His143Gln,ENST00000355022,;BANP,downstream_gene_variant,,ENST00000436970,;BANP,3_prime_UTR_variant,,ENST00000459966,;BANP,downstream_gene_variant,,ENST00000466197,;BANP,downstream_gene_variant,,ENST00000485772,;	G	ENSG00000172530	ENST00000393207	Transcript	missense_variant	743	522	174	H/Q	caC/caG	rs543231944,COSM1302333,COSM1302332	.	.	1	BANP	HGNC	13450	protein_coding	YES	CCDS54054.1	ENSP00000376902	BANP_HUMAN	C9JLT2_HUMAN	UPI0000E59DA3	.	tolerated_low_confidence(0.12)	benign(0.043)	6/14	.	hmmpanther:PTHR16243,Low_complexity_(Seg):seg	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCACGAGGA	byFrequency|by1000G	4	BLCA
ADPRM	0	.	GRCh37	17	10614321	10614321	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.889G>A	p.Glu297Lys	p.E297K	ENST00000379774	4/4	62	54	8	94	94	0	ADPRM,missense_variant,p.Glu297Lys,ENST00000379774,;ADPRM,stop_retained_variant,p.%3D,ENST00000609540,;TMEM220,intron_variant,,ENST00000580787,;TMEM220,downstream_gene_variant,,ENST00000578345,;TMEM220,downstream_gene_variant,,ENST00000341871,;TMEM220,downstream_gene_variant,,ENST00000581949,;TMEM220,downstream_gene_variant,,ENST00000455996,;TMEM220,downstream_gene_variant,,ENST00000580186,;MAGOH2,downstream_gene_variant,,ENST00000584384,;ADPRM,3_prime_UTR_variant,,ENST00000468843,;	A	ENSG00000170222	ENST00000379774	Transcript	missense_variant	980	889	297	E/K	Gaa/Aaa	COSM1302412	.	.	1	ADPRM	HGNC	30925	protein_coding	YES	CCDS11159.2	ENSP00000369099	ADPRM_HUMAN	.	UPI000040A94B	.	deleterious(0.01)	possibly_damaging(0.852)	4/4	.	Superfamily_domains:SSF56300,Gene3D:3.60.21.10,hmmpanther:PTHR16509:SF1,hmmpanther:PTHR16509	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTAGAAGGA	.	4	BLCA
NCOR1	0	.	GRCh37	17	15989705	15989705	+	Missense_Mutation	SNP	C	C	G	rs759220419	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3068G>C	p.Arg1023Pro	p.R1023P	ENST00000268712	23/46	45	38	6	102	102	0	NCOR1,missense_variant,p.Arg1039Pro,ENST00000395851,;NCOR1,missense_variant,p.Arg1023Pro,ENST00000268712,;NCOR1,downstream_gene_variant,,ENST00000436068,;AC002553.4,downstream_gene_variant,,ENST00000453217,;	G	ENSG00000141027	ENST00000268712	Transcript	missense_variant	3326	3068	1023	R/P	cGg/cCg	rs759220419,COSM1302425	.	.	-1	NCOR1	HGNC	7672	protein_coding	YES	CCDS11175.1	ENSP00000268712	NCOR1_HUMAN	Q9NSZ0_HUMAN,C9JAP0_HUMAN,B4DJ25_HUMAN	UPI000013D7D5	.	.	possibly_damaging(0.893)	23/46	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13992,hmmpanther:PTHR13992:SF5	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAGCCGAACG	.	4	BLCA
THRA	0	.	GRCh37	17	38244572	38244572	+	Silent	SNP	C	C	T	rs371948181	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.801C>T	p.%3D	p.Y267Y	ENST00000264637	8/10	104	91	13	118	118	0	THRA,synonymous_variant,p.%3D,ENST00000264637,;THRA,synonymous_variant,p.%3D,ENST00000546243,;THRA,synonymous_variant,p.%3D,ENST00000584985,;THRA,synonymous_variant,p.%3D,ENST00000394121,;THRA,synonymous_variant,p.%3D,ENST00000450525,;THRA,downstream_gene_variant,,ENST00000578218,;NR1D1,downstream_gene_variant,,ENST00000246672,;THRA,downstream_gene_variant,,ENST00000577637,;	T	ENSG00000126351	ENST00000264637	Transcript	synonymous_variant	1381	801	267	Y	taC/taT	rs371948181,COSM1302757,COSM1302758	.	.	1	THRA	HGNC	11796	protein_coding	YES	CCDS11360.1	ENSP00000264637	THA_HUMAN	J3QRW5_HUMAN,J3QRA9_HUMAN,J3QR26_HUMAN,J3KTF3_HUMAN	UPI0000136D1E	.	.	.	8/10	.	hmmpanther:PTHR24082,hmmpanther:PTHR24082:SF42,Gene3D:1.10.565.10,Pfam_domain:PF00104,SMART_domains:SM00430,Superfamily_domains:SSF48508	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CGCTACGACCC	byFrequency|byCluster	3	BLCA
SMARCE1	0	.	GRCh37	17	38792242	38792247	+	In_Frame_Del	DEL	TGTCTC	TGTCTC	-	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	TGTCTC	TGTCTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.477_482delGAGACA	p.Arg160_Gln161del	p.R160_Q161del	ENST00000348513	7/11	105	82	23	139	139	0	SMARCE1,inframe_deletion,p.Arg125_Gln126del,ENST00000377808,;SMARCE1,inframe_deletion,p.Arg125_Gln126del,ENST00000580419,;SMARCE1,inframe_deletion,p.Arg144_Gln145del,ENST00000478349,;SMARCE1,inframe_deletion,p.Arg90_Gln91del,ENST00000544009,;SMARCE1,inframe_deletion,p.Arg142_Gln143del,ENST00000580654,;SMARCE1,inframe_deletion,p.Arg142_Gln143del,ENST00000431889,;SMARCE1,inframe_deletion,p.Arg90_Gln91del,ENST00000400122,;SMARCE1,inframe_deletion,p.Arg160_Gln161del,ENST00000348513,;SMARCE1,inframe_deletion,p.Arg90_Gln91del,ENST00000577721,;SMARCE1,inframe_deletion,p.Arg90_Gln91del,ENST00000578044,;SMARCE1,downstream_gene_variant,,ENST00000582955,;SMARCE1,upstream_gene_variant,,ENST00000447024,;SMARCE1,upstream_gene_variant,,ENST00000264640,;SMARCE1,downstream_gene_variant,,ENST00000474246,;KRT222,3_prime_UTR_variant,,ENST00000476049,;SMARCE1,3_prime_UTR_variant,,ENST00000578112,;SMARCE1,3_prime_UTR_variant,,ENST00000481231,;SMARCE1,non_coding_transcript_exon_variant,,ENST00000469334,;SMARCE1,non_coding_transcript_exon_variant,,ENST00000493660,;SMARCE1,non_coding_transcript_exon_variant,,ENST00000578995,;SMARCE1,downstream_gene_variant,,ENST00000583294,;	-	ENSG00000073584	ENST00000348513	Transcript	inframe_deletion	1258-1263	477-482	159-161	QRQ/Q	caGAGACAa/caa	.	.	.	-1	SMARCE1	HGNC	11109	protein_coding	YES	CCDS11370.1	ENSP00000323967	SMCE1_HUMAN	J3QR61_HUMAN,J3QKX6_HUMAN,J3KT85_HUMAN,C0IMW8_HUMAN,B4DGM3_HUMAN	UPI000006FB55	.	.	.	7/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13711:SF150,hmmpanther:PTHR13711	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CGAGATTGTCTCTGTCG	.	3	BLCA
NBR1	0	.	GRCh37	17	41331419	41331419	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174C>G	p.Ile58Met	p.I58M	ENST00000422280	4/21	56	52	4	65	65	0	NBR1,missense_variant,p.Ile58Met,ENST00000589872,;NBR1,missense_variant,p.Ile58Met,ENST00000422280,;NBR1,missense_variant,p.Ile37Met,ENST00000542611,;NBR1,missense_variant,p.Ile58Met,ENST00000341165,;NBR1,missense_variant,p.Ile58Met,ENST00000590996,;NBR1,intron_variant,,ENST00000389312,;NBR1,downstream_gene_variant,,ENST00000586650,;NBR1,downstream_gene_variant,,ENST00000592304,;	G	ENSG00000188554	ENST00000422280	Transcript	missense_variant	633	174	58	I/M	atC/atG	COSM1302869	.	.	1	NBR1	HGNC	6746	protein_coding	YES	CCDS45694.1	ENSP00000411250	NBR1_HUMAN	Q3LRK1_HUMAN,Q3LRJ8_HUMAN,Q3LRJ5_HUMAN,Q3LRI9_HUMAN,Q3LRI6_HUMAN,Q3LRI0_HUMAN,B7Z4J4_HUMAN	UPI0000161BF3	.	deleterious(0.02)	benign(0.292)	4/21	.	hmmpanther:PTHR20930,hmmpanther:PTHR20930:SF1,Gene3D:3.10.20.240,Pfam_domain:PF00564,SMART_domains:SM00666,Superfamily_domains:SSF54277	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCATCAACAG	.	2	BLCA
TEX2	0	.	GRCh37	17	62254697	62254697	+	Silent	SNP	G	G	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2580C>A	p.%3D	p.L860L	ENST00000258991	6/12	207	178	29	167	167	0	TEX2,synonymous_variant,p.%3D,ENST00000584379,;TEX2,synonymous_variant,p.%3D,ENST00000258991,;TEX2,synonymous_variant,p.%3D,ENST00000583097,;TEX2,synonymous_variant,p.%3D,ENST00000583501,;TEX2,non_coding_transcript_exon_variant,,ENST00000577489,;	T	ENSG00000136478	ENST00000258991	Transcript	synonymous_variant	2665	2580	860	L	ctC/ctA	COSM1303194	.	.	-1	TEX2	HGNC	30884	protein_coding	YES	CCDS11658.1	ENSP00000258991	TEX2_HUMAN	Q9NX99_HUMAN,J3QKY0_HUMAN,J3KRY2_HUMAN	UPI00001AE7BC	.	.	.	6/12	.	hmmpanther:PTHR13466,hmmpanther:PTHR13466:SF2,Pfam_domain:PF10296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCTGAGTTT	.	4	BLCA
TP53	0	.	GRCh37	17	7577539	7577539	+	Missense_Mutation	SNP	G	G	A	rs121912651	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742C>T	p.Arg248Trp	p.R248W	ENST00000269305	7/11	116	90	26	128	127	1	TP53,missense_variant,p.Arg248Trp,ENST00000413465,;TP53,missense_variant,p.Arg248Trp,ENST00000420246,;TP53,missense_variant,p.Arg248Trp,ENST00000269305,;TP53,missense_variant,p.Arg116Trp,ENST00000509690,;TP53,missense_variant,p.Arg248Trp,ENST00000359597,;TP53,missense_variant,p.Arg155Trp,ENST00000514944,;TP53,missense_variant,p.Arg248Trp,ENST00000445888,;TP53,missense_variant,p.Arg248Trp,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	A	ENSG00000141510	ENST00000269305	Transcript	missense_variant	932	742	248	R/W	Cgg/Tgg	CM010465,CM900211,rs121912651,TP53_g.13379C>G,TP53_g.13379C>T,TP53_g.13379C>A,TP53_g.13379del,COSM11564,COSM45116,COSM10656,COSM44920,COSM120007,COSM1189381,COSM120005,COSM1189382,COSM3388183,COSM1640831,COSM120006,COSM1189383	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,PROSITE_patterns:PS00348,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R248W|c.742C>T|46,SITE|p.R248W|c.742C>T|92,SITE|p.R248W|c.742C>T|537,SITE|p.R155W|c.463C>T|92,SITE|p.R248W|c.742C>T|31,SITE|p.R248W|c.742C>T|87,CODON|p.0?|c.1_1182del1182|6,CODON|p.R248Q|c.743_744GG>AA|5,CODON|p.R248R|c.744G>A|5,CODON|p.R248W|c.741_742CC>TT|15,CODON|p.R248Q|c.743G>A|113,CODON|p.R248Q|c.743G>A|633,CODON|p.R248L|c.743G>T|7,CODON|p.R248L|c.743G>T|12,CODON|p.R248Q|c.743G>A|64,CODON|p.R155L|c.464G>T|12,CODON|p.R155P|c.464G>C|5,CODON|p.R248P|c.743G>C|17,CODON|p.R248L|c.743G>T|12,CODON|p.R248Q|c.743G>A|42,CODON|p.R248P|c.743G>C|5,CODON|p.R248L|c.743G>T|74,CODON|p.R155Q|c.464G>A|114,CODON|p.R248P|c.743G>C|5,CODON|p.R248Q|c.743G>A|110,BUFFER|p.L252_I254delLTI|c.751_759delATCCTCACC|4,BUFFER|p.I251I|c.753C>A|3,BUFFER|p.I251N|c.752T>A|9,BUFFER|p.I251T|c.752T>C|6,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251S|c.752T>G|12,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251fs*94|c.751delA|6,BUFFER|p.I251L|c.751A>C|3,BUFFER|p.I251F|c.751A>T|8,BUFFER|p.P250P|c.750C>T|4,BUFFER|p.P250F|c.748_749CC>TT|3,BUFFER|p.I251fs*94|c.748delC|4,BUFFER|p.P250L|c.749C>T|49,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250L|c.749C>T|8,BUFFER|p.P250L|c.749C>T|6,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250S|c.748C>T|12,BUFFER|p.R249fs*96|c.746delG|4,BUFFER|p.R249S|c.747G>T|31,BUFFER|p.R249S|c.747G>C|22,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|15,BUFFER|p.R249R|c.747G>A|6,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|314,BUFFER|p.R249S|c.747G>T|30,BUFFER|p.R249T|c.746G>C|3,BUFFER|p.R249M|c.746G>T|8,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249K|c.746G>A|17,BUFFER|p.R249M|c.746G>T|4,BUFFER|p.R249T|c.746G>C|20,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249M|c.746G>T|35,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249W|c.745A>T|36,BUFFER|p.R249W|c.745A>T|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249W|c.745A>T|4,BUFFER|p.R249G|c.745A>G|4,BUFFER|p.R249W|c.745A>T|8,BUFFER|p.R249G|c.745A>G|30,BUFFER|p.R248G|c.742C>G|14,BUFFER|p.N247N|c.741C>T|10,BUFFER|p.N247I|c.740A>T|7,BUFFER|p.N154I|c.461A>T|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247T|c.740A>C|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247S|c.740A>G|7,BUFFER|p.N247D|c.739A>G|5,BUFFER|p.N247Y|c.739A>T|3,BUFFER|p.M153I|c.459G>C|3,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>A|21,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>C|4,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246R|c.737T>G|12,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246T|c.737T>C|8,BUFFER|p.M153R|c.458T>G|3,BUFFER|p.M246K|c.737T>A|7,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246L|c.736A>T|3,BUFFER|p.M153V|c.457A>G|7,BUFFER|p.M246V|c.736A>G|3,BUFFER|p.M246V|c.736A>G|35,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246V|c.736A>G|4,BUFFER|p.G245G|c.735C>T|5,BUFFER|p.G245D|c.734G>A|10,BUFFER|p.G245V|c.734G>T|3,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245A|c.734G>C|8,BUFFER|p.G152D|c.455G>A|23,BUFFER|p.G152V|c.455G>T|15,BUFFER|p.G245V|c.734G>T|10,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245D|c.734G>A|119,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245D|c.734G>A|7,BUFFER|p.G245V|c.734G>T|69,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245R|c.733G>C|14,BUFFER|p.G245S|c.733G>A|22,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152S|c.454G>A|56,BUFFER|p.G245C|c.733G>T|4,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245S|c.733G>A|340,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245C|c.733G>T|50,BUFFER|p.G245S|c.733G>A|39,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152C|c.454G>T|6,BUFFER|p.G152R|c.454G>C|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G151G|c.453C>T|3,BUFFER|p.G244G|c.732C>T|8,BUFFER|p.G244G|c.732C>A|6,BUFFER|p.G244fs*3|c.730delG|4,BUFFER|p.G151D|c.452G>A|8,BUFFER|p.G244D|c.731G>A|42,BUFFER|p.G244D|c.731G>A|3,BUFFER|p.G244D|c.731G>A|8,BUFFER|p.G244A|c.731G>C|8,BUFFER|p.G244D|c.731G>A|8,BUFFER|p.G244V|c.731G>T|15	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCTCCGGTTCA	byCluster	4	BLCA
KDM6B	0	.	GRCh37	17	7749991	7749991	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.644C>T	p.Ser215Leu	p.S215L	ENST00000254846	8/22	101	86	15	226	226	0	KDM6B,missense_variant,p.Ser215Leu,ENST00000448097,;KDM6B,missense_variant,p.Ser215Leu,ENST00000570632,;KDM6B,missense_variant,p.Ser215Leu,ENST00000254846,;KDM6B,downstream_gene_variant,,ENST00000575521,;KDM6B,downstream_gene_variant,,ENST00000571047,;	T	ENSG00000132510	ENST00000254846	Transcript	missense_variant	1033	644	215	S/L	tCa/tTa	COSM1303429	.	.	1	KDM6B	HGNC	29012	protein_coding	YES	CCDS32552.1	ENSP00000254846	KDM6B_HUMAN	D3DTQ7_HUMAN	UPI00006C175B	.	.	unknown(0)	8/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14017,hmmpanther:PTHR14017:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	ACTCTCAGGCC	.	3	BLCA
RNF213	0	.	GRCh37	17	78319411	78319411	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7276A>G	p.Lys2426Glu	p.K2426E	ENST00000582970	29/68	190	166	24	183	182	0	RNF213,missense_variant,p.Lys2426Glu,ENST00000582970,;RNF213,missense_variant,p.Lys499Glu,ENST00000336301,;RNF213,missense_variant,p.Lys2475Glu,ENST00000508628,;	G	ENSG00000173821	ENST00000582970	Transcript	missense_variant	7419	7276	2426	K/E	Aaa/Gaa	COSM1303478,COSM1303479	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	probably_damaging(0.998)	29/68	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,hmmpanther:PTHR22605,hmmpanther:PTHR22605:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGGGAAAACC	.	4	BLCA
PIGN	0	.	GRCh37	18	59768367	59768367	+	Missense_Mutation	SNP	C	C	T	rs766943103	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2018G>A	p.Ser673Asn	p.S673N	ENST00000357637	22/31	40	37	3	54	54	0	PIGN,missense_variant,p.Ser673Asn,ENST00000400334,;PIGN,missense_variant,p.Ser673Asn,ENST00000357637,;PIGN,downstream_gene_variant,,ENST00000586566,;PIGN,non_coding_transcript_exon_variant,,ENST00000587942,;PIGN,downstream_gene_variant,,ENST00000590948,;	T	ENSG00000197563	ENST00000357637	Transcript	missense_variant	2434	2018	673	S/N	aGt/aAt	rs766943103	.	.	-1	PIGN	HGNC	8967	protein_coding	YES	CCDS45879.1	ENSP00000350263	PIGN_HUMAN	K7ESH9_HUMAN,K7ERX5_HUMAN,K7EQG0_HUMAN,K7EPN0_HUMAN,K7ENC3_HUMAN,K7EMD7_HUMAN,K7EM45_HUMAN,K7ELE1_HUMAN,K7EL34_HUMAN,K7EK83_HUMAN	UPI0000070A47	.	tolerated(0.07)	possibly_damaging(0.893)	22/31	.	hmmpanther:PTHR12250,Pfam_domain:PF04987	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	GTAGACTACTC	.	2	BLCA
GALR1	0	.	GRCh37	18	74963033	74963033	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529T>C	p.Phe177Leu	p.F177L	ENST00000299727	1/3	77	58	19	165	165	0	GALR1,missense_variant,p.Phe177Leu,ENST00000299727,;GALR1,upstream_gene_variant,,ENST00000582943,;	C	ENSG00000166573	ENST00000299727	Transcript	missense_variant	529	529	177	F/L	Ttc/Ctc	COSM1303870	.	.	1	GALR1	HGNC	4132	protein_coding	YES	CCDS12012.1	ENSP00000299727	GALR1_HUMAN	.	UPI000013E5DE	.	tolerated(0.36)	benign(0.007)	1/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24230:SF31,hmmpanther:PTHR24230,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01418	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTCTTCCAC	.	5	BLCA
HMHA1	0	.	GRCh37	19	1080434	1080434	+	Intron	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1877-29C>T	.	.	ENST00000539243	.	79	64	14	173	173	0	HMHA1,synonymous_variant,p.%3D,ENST00000536472,;HMHA1,intron_variant,,ENST00000313093,;HMHA1,intron_variant,,ENST00000590214,;HMHA1,intron_variant,,ENST00000590577,;HMHA1,intron_variant,,ENST00000539243,;HMHA1,intron_variant,,ENST00000586866,;HMHA1,intron_variant,,ENST00000543365,;HMHA1,upstream_gene_variant,,ENST00000591169,;HMHA1,upstream_gene_variant,,ENST00000590512,;HMHA1,3_prime_UTR_variant,,ENST00000587602,;HMHA1,non_coding_transcript_exon_variant,,ENST00000591293,;HMHA1,upstream_gene_variant,,ENST00000592297,;HMHA1,upstream_gene_variant,,ENST00000586378,;HMHA1,upstream_gene_variant,,ENST00000586937,;	T	ENSG00000180448	ENST00000539243	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	HMHA1	HGNC	17102	protein_coding	YES	CCDS58637.1	ENSP00000439601	HMHA1_HUMAN	O78181_HUMAN	UPI0001AE63E1	.	.	.	.	14/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGGCCCTTC	.	4	BLCA
SMARCA4	0	.	GRCh37	19	11094811	11094811	+	5'UTR	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-17C>T	.	.	ENST00000429416	3/36	63	57	6	110	109	0	SMARCA4,5_prime_UTR_variant,,ENST00000358026,;SMARCA4,5_prime_UTR_variant,,ENST00000590574,;SMARCA4,5_prime_UTR_variant,,ENST00000444061,;SMARCA4,5_prime_UTR_variant,,ENST00000344626,;SMARCA4,5_prime_UTR_variant,,ENST00000541122,;SMARCA4,5_prime_UTR_variant,,ENST00000429416,;SMARCA4,5_prime_UTR_variant,,ENST00000589677,;SMARCA4,upstream_gene_variant,,ENST00000450717,;SMARCA4,upstream_gene_variant,,ENST00000413806,;SMARCA4,upstream_gene_variant,,ENST00000591545,;	T	ENSG00000127616	ENST00000429416	Transcript	5_prime_UTR_variant	265	.	.	.	.	.	.	.	1	SMARCA4	HGNC	11100	protein_coding	YES	CCDS12253.1	ENSP00000395654	SMCA4_HUMAN	B4DSI8_HUMAN,A7E2E1_HUMAN	UPI000006F973	.	.	.	3/36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|VARSCANS	ACTGTCTGCAG	.	3	BLCA
CD79A	0	.	GRCh37	19	42383361	42383361	+	Splice_Site	SNP	T	T	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379+2T>G	.	p.X127_splice	ENST00000221972	.	28	16	12	52	52	0	CD79A,splice_donor_variant,,ENST00000221972,;CD79A,synonymous_variant,p.%3D,ENST00000597454,;CD79A,intron_variant,,ENST00000444740,;ARHGEF1,upstream_gene_variant,,ENST00000599846,;ARHGEF1,upstream_gene_variant,,ENST00000347545,;ARHGEF1,upstream_gene_variant,,ENST00000354532,;ARHGEF1,upstream_gene_variant,,ENST00000596957,;ARHGEF1,upstream_gene_variant,,ENST00000600274,;ARHGEF1,upstream_gene_variant,,ENST00000600387,;	G	ENSG00000105369	ENST00000221972	Transcript	splice_donor_variant	.	.	.	.	.	COSM1304645	.	.	1	CD79A	HGNC	1698	protein_coding	YES	CCDS12589.1	ENSP00000221972	CD79A_HUMAN	.	UPI000011398E	.	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCGTGAGTG	.	5	BLCA
UBXN6	0	.	GRCh37	19	4445342	4445342	+	3'UTR	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*153G>A	.	.	ENST00000301281	11/11	37	32	4	76	75	0	UBXN6,3_prime_UTR_variant,,ENST00000590466,;UBXN6,3_prime_UTR_variant,,ENST00000301281,;UBXN6,3_prime_UTR_variant,,ENST00000591919,;UBXN6,3_prime_UTR_variant,,ENST00000394765,;CHAF1A,downstream_gene_variant,,ENST00000301280,;CHAF1A,downstream_gene_variant,,ENST00000589648,;UBXN6,downstream_gene_variant,,ENST00000592515,;MIR4746,upstream_gene_variant,,ENST00000579802,;CTB-50L17.7,upstream_gene_variant,,ENST00000588798,;UBXN6,non_coding_transcript_exon_variant,,ENST00000588238,;UBXN6,non_coding_transcript_exon_variant,,ENST00000587009,;UBXN6,downstream_gene_variant,,ENST00000587324,;UBXN6,downstream_gene_variant,,ENST00000593024,;UBXN6,downstream_gene_variant,,ENST00000592358,;	T	ENSG00000167671	ENST00000301281	Transcript	3_prime_UTR_variant	1604	.	.	.	.	.	.	.	-1	UBXN6	HGNC	14928	protein_coding	YES	CCDS12129.1	ENSP00000301281	UBXN6_HUMAN	.	UPI000004EF28	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCCCAATTC	.	4	BLCA
UBXN6	0	.	GRCh37	19	4447594	4447594	+	Nonsense_Mutation	SNP	C	C	A	rs141391502	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>T	p.Glu190Ter	p.E190*	ENST00000301281	6/11	144	134	9	280	279	1	UBXN6,stop_gained,p.Glu190Ter,ENST00000301281,;UBXN6,stop_gained,p.Glu120Ter,ENST00000591919,;UBXN6,stop_gained,p.Glu137Ter,ENST00000394765,;UBXN6,upstream_gene_variant,,ENST00000590466,;CHAF1A,downstream_gene_variant,,ENST00000301280,;CHAF1A,downstream_gene_variant,,ENST00000589648,;UBXN6,downstream_gene_variant,,ENST00000592515,;MIR4746,downstream_gene_variant,,ENST00000579802,;CTB-50L17.7,intron_variant,,ENST00000588798,;UBXN6,non_coding_transcript_exon_variant,,ENST00000588238,;UBXN6,non_coding_transcript_exon_variant,,ENST00000587009,;UBXN6,non_coding_transcript_exon_variant,,ENST00000593024,;UBXN6,upstream_gene_variant,,ENST00000587324,;UBXN6,downstream_gene_variant,,ENST00000592358,;	A	ENSG00000167671	ENST00000301281	Transcript	stop_gained	693	568	190	E/*	Gag/Tag	rs141391502	.	.	-1	UBXN6	HGNC	14928	protein_coding	YES	CCDS12129.1	ENSP00000301281	UBXN6_HUMAN	.	UPI000004EF28	.	.	.	6/11	.	hmmpanther:PTHR23153,hmmpanther:PTHR23153:SF35,Pfam_domain:PF09409,SMART_domains:SM00580,Superfamily_domains:0052385	T:0.0004	T:0	T:0	.	T:0	T:0.002	T:0	T:0	T:0.0002	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCGGGGT	byFrequency|byCluster|by1000G	2	BLCA
ZNF180	0	.	GRCh37	19	44982133	44982134	+	Frame_Shift_Del	DEL	CT	CT	-	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	CT	CT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.564_565delAG	p.Arg188SerfsTer5	p.R188Sfs*5	ENST00000221327	5/5	84	77	7	133	133	0	ZNF180,frameshift_variant,p.Arg161SerfsTer5,ENST00000592529,;ZNF180,frameshift_variant,p.Arg163SerfsTer5,ENST00000391956,;ZNF180,frameshift_variant,p.Arg188SerfsTer5,ENST00000221327,;ZNF180,frameshift_variant,p.Arg161SerfsTer5,ENST00000591064,;ZNF180,3_prime_UTR_variant,,ENST00000586637,;ZNF180,downstream_gene_variant,,ENST00000587047,;AC069278.4,upstream_gene_variant,,ENST00000591684,;ZNF180,downstream_gene_variant,,ENST00000585514,;ZNF180,3_prime_UTR_variant,,ENST00000592095,;ZNF180,3_prime_UTR_variant,,ENST00000590088,;ZNF285B,downstream_gene_variant,,ENST00000561698,;ZNF285B,downstream_gene_variant,,ENST00000318605,;	-	ENSG00000167384	ENST00000221327	Transcript	frameshift_variant	846-847	564-565	188-189	RV/SX	agAGtc/agtc	.	.	.	-1	ZNF180	HGNC	12970	protein_coding	YES	CCDS12639.1	ENSP00000221327	ZN180_HUMAN	K7EQX9_HUMAN,K7EQP0_HUMAN	UPI000013C7BD	.	.	.	5/5	.	hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	TGCAGACTCTCTC	.	2	BLCA
A1BG	0	.	GRCh37	19	58864234	58864234	+	Intron	SNP	G	G	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340+60C>T	.	.	ENST00000263100	.	113	104	8	228	228	0	A1BG,intron_variant,,ENST00000600966,;A1BG,intron_variant,,ENST00000263100,;ZNF497,downstream_gene_variant,,ENST00000311044,;ZNF497,downstream_gene_variant,,ENST00000595763,;ZNF497,downstream_gene_variant,,ENST00000425453,;A1BG-AS1,non_coding_transcript_exon_variant,,ENST00000595302,;A1BG-AS1,intron_variant,,ENST00000593374,;A1BG-AS1,intron_variant,,ENST00000594950,;A1BG-AS1,intron_variant,,ENST00000600379,;A1BG-AS1,intron_variant,,ENST00000600686,;A1BG-AS1,intron_variant,,ENST00000593960,;A1BG-AS1,intron_variant,,ENST00000599728,;CTD-2619J13.8,intron_variant,,ENST00000599109,;CTD-2619J13.8,intron_variant,,ENST00000600123,;CTD-2619J13.8,downstream_gene_variant,,ENST00000596636,;A1BG,intron_variant,,ENST00000595014,;	A	ENSG00000121410	ENST00000263100	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	A1BG	HGNC	5	protein_coding	YES	CCDS12976.1	ENSP00000263100	A1BG_HUMAN	Q7Z3U3_HUMAN	UPI0000167B10	.	.	.	.	3/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGAGACCCC	.	2	BLCA
ZNF497	0	.	GRCh37	19	58868604	58868604	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.398C>T	p.Pro133Leu	p.P133L	ENST00000311044	3/3	31	27	4	68	68	0	ZNF497,missense_variant,p.Pro133Leu,ENST00000311044,;ZNF497,missense_variant,p.Pro133Leu,ENST00000425453,;A1BG,upstream_gene_variant,,ENST00000600966,;ZNF497,downstream_gene_variant,,ENST00000595763,;A1BG,upstream_gene_variant,,ENST00000263100,;A1BG-AS1,downstream_gene_variant,,ENST00000593374,;A1BG-AS1,downstream_gene_variant,,ENST00000594950,;A1BG-AS1,downstream_gene_variant,,ENST00000600379,;A1BG-AS1,downstream_gene_variant,,ENST00000600686,;A1BG-AS1,downstream_gene_variant,,ENST00000595302,;CTD-2619J13.9,upstream_gene_variant,,ENST00000599952,;A1BG-AS1,downstream_gene_variant,,ENST00000593960,;A1BG-AS1,downstream_gene_variant,,ENST00000599728,;CTD-2619J13.8,intron_variant,,ENST00000599109,;CTD-2619J13.8,upstream_gene_variant,,ENST00000600123,;CTD-2619J13.8,upstream_gene_variant,,ENST00000596636,;A1BG,upstream_gene_variant,,ENST00000595014,;	A	ENSG00000174586	ENST00000311044	Transcript	missense_variant	587	398	133	P/L	cCg/cTg	.	.	.	-1	ZNF497	HGNC	23714	protein_coding	YES	CCDS12977.1	ENSP00000311183	ZN497_HUMAN	.	UPI00001D819C	.	deleterious(0.01)	probably_damaging(0.956)	3/3	.	Superfamily_domains:SSF57667,Pfam_domain:PF13465,Gene3D:3.30.160.60,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF30,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TGTACGGCTTC	.	2	BLCA
S1PR1	0	.	GRCh37	1	101705363	101705363	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.823C>G	p.Leu275Val	p.L275V	ENST00000305352	2/2	303	262	40	314	314	0	S1PR1,missense_variant,p.Leu275Val,ENST00000305352,;RP4-575N6.5,upstream_gene_variant,,ENST00000561748,;RP4-575N6.4,upstream_gene_variant,,ENST00000432195,;S1PR1,downstream_gene_variant,,ENST00000475821,;S1PR1,downstream_gene_variant,,ENST00000475289,;	G	ENSG00000170989	ENST00000305352	Transcript	missense_variant	1198	823	275	L/V	Ctg/Gtg	COSM1294616	.	.	1	S1PR1	HGNC	3165	protein_coding	YES	CCDS777.1	ENSP00000305416	S1PR1_HUMAN	Q7L853_HUMAN	UPI0000050421	.	deleterious(0.04)	possibly_damaging(0.777)	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF16,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCATCCTGCTC	.	4	BLCA
DFFA	0	.	GRCh37	1	10527261	10527261	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>A	p.Glu143Lys	p.E143K	ENST00000377038	3/6	138	118	20	158	158	0	DFFA,missense_variant,p.Glu143Lys,ENST00000377036,;DFFA,missense_variant,p.Glu143Lys,ENST00000377038,;DFFA,missense_variant,p.Glu143Lys,ENST00000476658,;	T	ENSG00000160049	ENST00000377038	Transcript	missense_variant	495	427	143	E/K	Gag/Aag	COSM1294647,COSM1294646	.	.	-1	DFFA	HGNC	2772	protein_coding	YES	CCDS118.1	ENSP00000366237	DFFA_HUMAN	.	UPI00001291FA	.	deleterious(0.03)	possibly_damaging(0.654)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12306,hmmpanther:PTHR12306:SF16,Pfam_domain:PF09033,PIRSF_domain:PIRSF037865	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCTGATA	.	4	BLCA
CTTNBP2NL	0	.	GRCh37	1	112998771	112998771	+	Silent	SNP	A	A	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657A>G	p.%3D	p.E219E	ENST00000271277	6/6	77	67	9	70	70	0	CTTNBP2NL,synonymous_variant,p.%3D,ENST00000271277,;CTTNBP2NL,synonymous_variant,p.%3D,ENST00000441739,;CTTNBP2NL,upstream_gene_variant,,ENST00000607039,;	G	ENSG00000143079	ENST00000271277	Transcript	synonymous_variant	882	657	219	E	gaA/gaG	COSM1294736	.	.	1	CTTNBP2NL	HGNC	25330	protein_coding	YES	CCDS845.1	ENSP00000271277	CT2NL_HUMAN	B1AMN7_HUMAN	UPI000006ED23	.	.	.	6/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23166,hmmpanther:PTHR23166:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGAAGAGTT	.	5	BLCA
PDE4DIP	0	.	GRCh37	1	144859924	144859924	+	Silent	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6160C>T	p.%3D	p.L2054L	ENST00000369356	38/44	112	103	9	84	84	0	PDE4DIP,synonymous_variant,p.%3D,ENST00000369356,;PDE4DIP,synonymous_variant,p.%3D,ENST00000369354,;PDE4DIP,synonymous_variant,p.%3D,ENST00000369359,;PDE4DIP,synonymous_variant,p.%3D,ENST00000530740,;PDE4DIP,synonymous_variant,p.%3D,ENST00000313382,;PDE4DIP,intron_variant,,ENST00000530130,;RP4-791M13.4,intron_variant,,ENST00000532137,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524974,;PDE4DIP,intron_variant,,ENST00000526664,;PDE4DIP,downstream_gene_variant,,ENST00000494734,;PDE4DIP,upstream_gene_variant,,ENST00000525630,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000534466,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000481227,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,downstream_gene_variant,,ENST00000525886,;PDE4DIP,upstream_gene_variant,,ENST00000534367,;PDE4DIP,downstream_gene_variant,,ENST00000479369,;PDE4DIP,upstream_gene_variant,,ENST00000533768,;PDE4DIP,downstream_gene_variant,,ENST00000527901,;	A	ENSG00000178104	ENST00000369356	Transcript	synonymous_variant	6451	6160	2054	L	Ctg/Ttg	COSM1294877,COSM1294876	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	.	.	38/44	.	hmmpanther:PTHR13895:SF2,hmmpanther:PTHR13895	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCAGAGCTC	.	2	BLCA
FLG	0	.	GRCh37	1	152284039	152284039	+	Missense_Mutation	SNP	C	C	T	rs759217139	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3323G>A	p.Gly1108Glu	p.G1108E	ENST00000368799	3/3	329	273	55	342	341	0	FLG,missense_variant,p.Gly1108Glu,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;FLG-AS1,upstream_gene_variant,,ENST00000392688,;	T	ENSG00000143631	ENST00000368799	Transcript	missense_variant	3359	3323	1108	G/E	gGg/gAg	rs759217139,COSM1295089	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	probably_damaging(0.931)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22571,hmmpanther:PTHR22571:SF21	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCCCCTGAC	byFrequency	4	BLCA
CRTC2	0	.	GRCh37	1	153921053	153921053	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1742G>C	p.Gly581Ala	p.G581A	ENST00000368633	13/14	124	116	8	223	223	0	CRTC2,missense_variant,p.Gly581Ala,ENST00000368633,;CRTC2,missense_variant,p.Gly261Ala,ENST00000368630,;DENND4B,upstream_gene_variant,,ENST00000368646,;DENND4B,upstream_gene_variant,,ENST00000361217,;DENND4B,upstream_gene_variant,,ENST00000472932,;CRTC2,downstream_gene_variant,,ENST00000476883,;CRTC2,3_prime_UTR_variant,,ENST00000303569,;CRTC2,3_prime_UTR_variant,,ENST00000461638,;CRTC2,non_coding_transcript_exon_variant,,ENST00000487235,;CRTC2,downstream_gene_variant,,ENST00000467860,;CRTC2,downstream_gene_variant,,ENST00000524997,;CRTC2,downstream_gene_variant,,ENST00000493909,;	G	ENSG00000160741	ENST00000368633	Transcript	missense_variant	1870	1742	581	G/A	gGg/gCg	COSM1295126	.	.	-1	CRTC2	HGNC	27301	protein_coding	YES	CCDS30875.1	ENSP00000357622	CRTC2_HUMAN	Q8WZ18_HUMAN,Q8N332_HUMAN	UPI00001A9468	.	tolerated(0.72)	probably_damaging(0.991)	13/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13589:SF6,hmmpanther:PTHR13589	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGCCCTTCA	.	2	BLCA
CRTC2	0	.	GRCh37	1	153921067	153921067	+	Silent	SNP	A	A	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1728T>C	p.%3D	p.P576P	ENST00000368633	13/14	132	121	10	238	237	0	CRTC2,synonymous_variant,p.%3D,ENST00000368633,;CRTC2,synonymous_variant,p.%3D,ENST00000368630,;DENND4B,upstream_gene_variant,,ENST00000368646,;DENND4B,upstream_gene_variant,,ENST00000361217,;DENND4B,upstream_gene_variant,,ENST00000472932,;CRTC2,downstream_gene_variant,,ENST00000476883,;CRTC2,3_prime_UTR_variant,,ENST00000303569,;CRTC2,3_prime_UTR_variant,,ENST00000461638,;CRTC2,non_coding_transcript_exon_variant,,ENST00000487235,;CRTC2,downstream_gene_variant,,ENST00000467860,;CRTC2,downstream_gene_variant,,ENST00000524997,;CRTC2,downstream_gene_variant,,ENST00000493909,;	G	ENSG00000160741	ENST00000368633	Transcript	synonymous_variant	1856	1728	576	P	ccT/ccC	COSM1295127	.	.	-1	CRTC2	HGNC	27301	protein_coding	YES	CCDS30875.1	ENSP00000357622	CRTC2_HUMAN	Q8WZ18_HUMAN,Q8N332_HUMAN	UPI00001A9468	.	.	.	13/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13589:SF6,hmmpanther:PTHR13589	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGCCAGGGGG	.	2	BLCA
GON4L	0	.	GRCh37	1	155721969	155721969	+	Silent	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6252G>A	p.%3D	p.V2084V	ENST00000437809	30/32	155	140	15	101	101	0	GON4L,synonymous_variant,p.%3D,ENST00000437809,;GON4L,synonymous_variant,p.%3D,ENST00000368331,;GON4L,synonymous_variant,p.%3D,ENST00000271883,;MSTO1,downstream_gene_variant,,ENST00000538143,;MSTO1,downstream_gene_variant,,ENST00000452804,;GON4L,non_coding_transcript_exon_variant,,ENST00000473267,;GON4L,downstream_gene_variant,,ENST00000460075,;GON4L,downstream_gene_variant,,ENST00000483032,;MSTO2P,downstream_gene_variant,,ENST00000538914,;MSTO2P,downstream_gene_variant,,ENST00000314835,;MSTO2P,downstream_gene_variant,,ENST00000545423,;	T	ENSG00000116580	ENST00000437809	Transcript	synonymous_variant	6375	6252	2084	V	gtG/gtA	COSM1295190,COSM1295189	.	.	-1	GON4L	HGNC	25973	protein_coding	YES	CCDS44242.1	ENSP00000396117	GON4L_HUMAN	Q9NXJ9_HUMAN	UPI0000603C24	.	.	.	30/32	.	hmmpanther:PTHR16088,hmmpanther:PTHR16088:SF10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GTCTTCACCCG	.	2	BLCA
PRKCZ	0	.	GRCh37	1	2077537	2077537	+	Missense_Mutation	SNP	G	G	C	rs143367104	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624G>C	p.Glu208Asp	p.E208D	ENST00000378567	7/18	59	56	3	86	86	0	PRKCZ,missense_variant,p.Glu25Asp,ENST00000470596,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000400921,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000470511,;PRKCZ,missense_variant,p.Glu208Asp,ENST00000378567,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000466352,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000400920,;PRKCZ,missense_variant,p.Glu21Asp,ENST00000486681,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000496325,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000471018,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000470986,;PRKCZ,missense_variant,p.Glu178Asp,ENST00000468310,;PRKCZ,missense_variant,p.Glu104Asp,ENST00000461106,;PRKCZ,missense_variant,p.Glu21Asp,ENST00000497183,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000461465,;PRKCZ,missense_variant,p.Glu25Asp,ENST00000482686,;PRKCZ,downstream_gene_variant,,ENST00000495347,;RP5-892K4.1,upstream_gene_variant,,ENST00000606533,;PRKCZ,non_coding_transcript_exon_variant,,ENST00000479263,;PRKCZ,intron_variant,,ENST00000419838,;PRKCZ,missense_variant,p.Glu21Asp,ENST00000478770,;PRKCZ,3_prime_UTR_variant,,ENST00000481140,;PRKCZ,non_coding_transcript_exon_variant,,ENST00000503672,;	C	ENSG00000067606	ENST00000378567	Transcript	missense_variant	785	624	208	E/D	gaG/gaC	rs143367104,COSM1295805,COSM1295806	.	.	1	PRKCZ	HGNC	9412	protein_coding	YES	CCDS37.1	ENSP00000367830	KPCZ_HUMAN	J3KRP7_HUMAN,F2Z2H9_HUMAN,D6RGG1_HUMAN,D6RG01_HUMAN,D6REZ8_HUMAN,D6RDM0_HUMAN,D6RD31_HUMAN,D6RCN4_HUMAN,D6RC84_HUMAN,D6RBD4_HUMAN,D6RAU1_HUMAN,D6RAN5_HUMAN	UPI0000169EB7	.	tolerated(0.62)	benign(0.001)	7/18	.	PIRSF_domain:PIRSF000554,hmmpanther:PTHR24357,hmmpanther:PTHR24357:SF60	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGAGACAGA	byCluster	2	BLCA
LAMB3	0	.	GRCh37	1	209799289	209799289	+	Silent	SNP	G	G	C	rs376183751	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1680C>G	p.%3D	p.T560T	ENST00000391911	13/22	65	60	5	56	55	1	LAMB3,synonymous_variant,p.%3D,ENST00000356082,;LAMB3,synonymous_variant,p.%3D,ENST00000391911,;LAMB3,synonymous_variant,p.%3D,ENST00000367030,;MIR4260,upstream_gene_variant,,ENST00000583107,;	C	ENSG00000196878	ENST00000391911	Transcript	synonymous_variant	2070	1680	560	T	acC/acG	rs376183751,COSM1295813	.	.	-1	LAMB3	HGNC	6490	protein_coding	YES	CCDS1487.1	ENSP00000375778	LAMB3_HUMAN	Q5THA1_HUMAN	UPI000012E76F	.	.	.	13/22	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF245,hmmpanther:PTHR10574,PROSITE_patterns:PS01248,PROSITE_patterns:PS00022,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00180,Superfamily_domains:SSF57196,Prints_domain:PR00011	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCCGGTCAA	byFrequency|byCluster	2	BLCA
CDC42BPA	0	.	GRCh37	1	227316871	227316871	+	Silent	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1452C>T	p.%3D	p.S484S	ENST00000366769	11/36	70	63	7	57	57	0	CDC42BPA,synonymous_variant,p.%3D,ENST00000366769,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366765,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366764,;CDC42BPA,synonymous_variant,p.%3D,ENST00000334218,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366767,;CDC42BPA,synonymous_variant,p.%3D,ENST00000535525,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366766,;	A	ENSG00000143776	ENST00000366769	Transcript	synonymous_variant	2744	1452	484	S	agC/agT	COSM1295947,COSM1295946,COSM1295945	.	.	-1	CDC42BPA	HGNC	1737	protein_coding	YES	CCDS1558.1	ENSP00000355731	MRCKA_HUMAN	Q9NYF6_HUMAN	UPI000019097D	.	.	.	11/36	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF31	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TCTTTGCTTGC	.	3	BLCA
OR2M2	0	.	GRCh37	1	248344190	248344190	+	Silent	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903C>T	p.%3D	p.F301F	ENST00000359682	1/1	131	109	21	172	171	1	OR2M2,synonymous_variant,p.%3D,ENST00000359682,;	T	ENSG00000198601	ENST00000359682	Transcript	synonymous_variant	903	903	301	F	ttC/ttT	COSM1296171	.	.	1	OR2M2	HGNC	8268	protein_coding	YES	CCDS31106.1	ENSP00000352710	OR2M2_HUMAN	.	UPI00001612E4	.	.	.	1/1	.	hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF204,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GCATTCATGAA	.	3	BLCA
EPB41	0	.	GRCh37	1	29379626	29379626	+	Silent	SNP	C	C	A	rs145888614	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1647C>A	p.%3D	p.V549V	ENST00000343067	12/21	45	34	11	50	49	1	EPB41,synonymous_variant,p.%3D,ENST00000356093,;EPB41,synonymous_variant,p.%3D,ENST00000373798,;EPB41,synonymous_variant,p.%3D,ENST00000347529,;EPB41,synonymous_variant,p.%3D,ENST00000373800,;EPB41,synonymous_variant,p.%3D,ENST00000398863,;EPB41,synonymous_variant,p.%3D,ENST00000373797,;EPB41,synonymous_variant,p.%3D,ENST00000349460,;EPB41,synonymous_variant,p.%3D,ENST00000343067,;	A	ENSG00000159023	ENST00000343067	Transcript	synonymous_variant	1774	1647	549	V	gtC/gtA	rs145888614,COSM274979,COSM1296271,COSM274980,COSM1296270	.	.	1	EPB41	HGNC	3377	protein_coding	YES	CCDS53288.1	ENSP00000345259	41_HUMAN	.	UPI000014177D	.	.	.	12/21	.	hmmpanther:PTHR23280:SF12,hmmpanther:PTHR23280,PIRSF_domain:PIRSF002304	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCTGTCGATTC	byFrequency|byCluster	4	BLCA
S100PBP	0	.	GRCh37	1	33292110	33292110	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.410C>G	p.Ser137Cys	p.S137C	ENST00000373475	3/7	39	33	6	74	74	0	S100PBP,missense_variant,p.Ser137Cys,ENST00000398243,;S100PBP,missense_variant,p.Ser137Cys,ENST00000531256,;S100PBP,missense_variant,p.Ser137Cys,ENST00000373476,;S100PBP,missense_variant,p.Ser137Cys,ENST00000482212,;S100PBP,missense_variant,p.Ser137Cys,ENST00000373475,;S100PBP,downstream_gene_variant,,ENST00000530710,;S100PBP,downstream_gene_variant,,ENST00000530552,;S100PBP,downstream_gene_variant,,ENST00000526230,;S100PBP,downstream_gene_variant,,ENST00000529027,;S100PBP,non_coding_transcript_exon_variant,,ENST00000531123,;S100PBP,non_coding_transcript_exon_variant,,ENST00000356689,;	G	ENSG00000116497	ENST00000373475	Transcript	missense_variant	664	410	137	S/C	tCt/tGt	COSM1296301	.	.	1	S100PBP	HGNC	25768	protein_coding	YES	CCDS30666.1	ENSP00000362574	S1PBP_HUMAN	E9PSA0_HUMAN,E9PMK1_HUMAN,E9PL86_HUMAN,E9PIZ7_HUMAN,E9PIY5_HUMAN	UPI0000070449	.	deleterious(0.01)	possibly_damaging(0.849)	3/7	.	Pfam_domain:PF15427,hmmpanther:PTHR14455:SF0,hmmpanther:PTHR14455	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCTCTGTAC	.	5	BLCA
ERI3	0	.	GRCh37	1	44804820	44804820	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386G>A	p.Gly129Asp	p.G129D	ENST00000372257	3/9	210	195	15	217	217	0	ERI3,missense_variant,p.Gly127Asp,ENST00000457571,;ERI3,missense_variant,p.Gly129Asp,ENST00000372257,;ERI3,intron_variant,,ENST00000452396,;ERI3,intron_variant,,ENST00000537474,;ERI3,non_coding_transcript_exon_variant,,ENST00000495828,;	T	ENSG00000117419	ENST00000372257	Transcript	missense_variant	568	386	129	G/D	gGc/gAc	COSM1296482	.	.	-1	ERI3	HGNC	17276	protein_coding	YES	CCDS30696.1	ENSP00000361331	ERI3_HUMAN	B4DN03_HUMAN,B4DEX5_HUMAN	UPI00001C1D9B	.	tolerated(0.14)	possibly_damaging(0.541)	3/9	.	hmmpanther:PTHR23044:SF29,hmmpanther:PTHR23044	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGCGCCAAAG	.	2	BLCA
GBP5	0	.	GRCh37	1	89729593	89729593	+	Silent	SNP	C	C	T	rs267598755	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1188G>A	p.%3D	p.R396R	ENST00000343435	9/12	153	137	15	180	179	0	GBP5,synonymous_variant,p.%3D,ENST00000443807,;GBP5,synonymous_variant,p.%3D,ENST00000343435,;GBP5,synonymous_variant,p.%3D,ENST00000370459,;RP4-620F22.2,intron_variant,,ENST00000437128,;GBP5,intron_variant,,ENST00000490568,;GBP5,upstream_gene_variant,,ENST00000471171,;GBP5,non_coding_transcript_exon_variant,,ENST00000481145,;	T	ENSG00000154451	ENST00000343435	Transcript	synonymous_variant	1725	1188	396	R	cgG/cgA	rs267598755,COSM1296772	.	.	-1	GBP5	HGNC	19895	protein_coding	YES	CCDS722.1	ENSP00000340396	GBP5_HUMAN	E7ETN8_HUMAN	UPI000004B6D7	.	.	.	9/12	.	hmmpanther:PTHR10751:SF40,hmmpanther:PTHR10751,Pfam_domain:PF02841,Gene3D:1f5nA01,Superfamily_domains:0037397	.	.	.	.	.	.	.	.	.	not_provided	0,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R396W|c.1186C>T|3	RADIA|MUSE|VARSCANS	AGGTTCCGTTT	.	3	BLCA
C20orf26	0	.	GRCh37	20	20279020	20279020	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3412G>A	p.Asp1138Asn	p.D1138N	ENST00000245957	25/27	69	60	9	37	37	0	C20orf26,missense_variant,p.Asp1138Asn,ENST00000245957,;C20orf26,3_prime_UTR_variant,,ENST00000377309,;C20orf26,non_coding_transcript_exon_variant,,ENST00000469994,;C20orf26,3_prime_UTR_variant,,ENST00000377308,;	A	ENSG00000089101	ENST00000245957	Transcript	missense_variant	3488	3412	1138	D/N	Gat/Aat	COSM1025015,COSM1307198	.	.	1	C20orf26	HGNC	15872	protein_coding	YES	CCDS33447.1	ENSP00000245957	CT026_HUMAN	C9JMV0_HUMAN,C9JHE8_HUMAN,C9J610_HUMAN	UPI0000206AE4	.	deleterious(0.03)	possibly_damaging(0.684)	25/27	.	hmmpanther:PTHR21178:SF8,hmmpanther:PTHR21178	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACAGATCTC	.	4	BLCA
IDH3B	0	.	GRCh37	20	2639120	2639120	+	3'UTR	SNP	C	C	T	rs201682491	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*277G>A	.	.	ENST00000380843	12/12	88	76	12	81	80	0	IDH3B,missense_variant,p.Glu374Lys,ENST00000380851,;IDH3B,3_prime_UTR_variant,,ENST00000380843,;NOP56,downstream_gene_variant,,ENST00000445139,;NOP56,downstream_gene_variant,,ENST00000329276,;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,;SNORD110,downstream_gene_variant,,ENST00000408189,;SNORA51,downstream_gene_variant,,ENST00000606420,;SNORD57,downstream_gene_variant,,ENST00000448188,;SNORD56,downstream_gene_variant,,ENST00000413522,;IDH3B,non_coding_transcript_exon_variant,,ENST00000474315,;IDH3B,non_coding_transcript_exon_variant,,ENST00000492240,;IDH3B,non_coding_transcript_exon_variant,,ENST00000488299,;IDH3B,non_coding_transcript_exon_variant,,ENST00000466494,;IDH3B,downstream_gene_variant,,ENST00000462967,;NOP56,downstream_gene_variant,,ENST00000480992,;IDH3B,downstream_gene_variant,,ENST00000491065,;NOP56,downstream_gene_variant,,ENST00000480447,;NOP56,downstream_gene_variant,,ENST00000467857,;NOP56,downstream_gene_variant,,ENST00000466447,;NOP56,downstream_gene_variant,,ENST00000471023,;NOP56,downstream_gene_variant,,ENST00000492135,;IDH3B,downstream_gene_variant,,ENST00000466999,;NOP56,downstream_gene_variant,,ENST00000484998,;NOP56,downstream_gene_variant,,ENST00000470143,;IDH3B,downstream_gene_variant,,ENST00000477689,;NOP56,downstream_gene_variant,,ENST00000496775,;NOP56,downstream_gene_variant,,ENST00000462630,;NOP56,downstream_gene_variant,,ENST00000490753,;NOP56,downstream_gene_variant,,ENST00000494697,;NOP56,downstream_gene_variant,,ENST00000460258,;NOP56,downstream_gene_variant,,ENST00000469588,;IDH3B,downstream_gene_variant,,ENST00000479376,;NOP56,downstream_gene_variant,,ENST00000467196,;	T	ENSG00000101365	ENST00000380843	Transcript	3_prime_UTR_variant	1466	.	.	.	.	rs201682491	.	.	-1	IDH3B	HGNC	5385	protein_coding	YES	CCDS13032.1	ENSP00000370223	IDH3B_HUMAN	Q9UIC5_HUMAN,B4DU38_HUMAN	UPI000013CBC6	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|VARSCANS	AGCCTCAGTGA	.	3	BLCA
IDH3B	0	.	GRCh37	20	2639347	2639347	+	3'UTR	SNP	G	G	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*50C>T	.	.	ENST00000380843	12/12	126	114	12	126	126	0	IDH3B,3_prime_UTR_variant,,ENST00000380843,;IDH3B,intron_variant,,ENST00000380851,;NOP56,downstream_gene_variant,,ENST00000445139,;NOP56,downstream_gene_variant,,ENST00000329276,;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,;SNORD110,downstream_gene_variant,,ENST00000408189,;SNORA51,downstream_gene_variant,,ENST00000606420,;SNORD57,downstream_gene_variant,,ENST00000448188,;SNORD56,downstream_gene_variant,,ENST00000413522,;IDH3B,non_coding_transcript_exon_variant,,ENST00000492240,;IDH3B,non_coding_transcript_exon_variant,,ENST00000488299,;IDH3B,non_coding_transcript_exon_variant,,ENST00000477689,;IDH3B,non_coding_transcript_exon_variant,,ENST00000466494,;IDH3B,intron_variant,,ENST00000474315,;IDH3B,downstream_gene_variant,,ENST00000462967,;NOP56,downstream_gene_variant,,ENST00000480992,;IDH3B,downstream_gene_variant,,ENST00000491065,;NOP56,downstream_gene_variant,,ENST00000480447,;NOP56,downstream_gene_variant,,ENST00000467857,;NOP56,downstream_gene_variant,,ENST00000466447,;NOP56,downstream_gene_variant,,ENST00000471023,;NOP56,downstream_gene_variant,,ENST00000492135,;IDH3B,downstream_gene_variant,,ENST00000466999,;NOP56,downstream_gene_variant,,ENST00000484998,;NOP56,downstream_gene_variant,,ENST00000470143,;NOP56,downstream_gene_variant,,ENST00000496775,;NOP56,downstream_gene_variant,,ENST00000462630,;NOP56,downstream_gene_variant,,ENST00000490753,;NOP56,downstream_gene_variant,,ENST00000494697,;NOP56,downstream_gene_variant,,ENST00000460258,;NOP56,downstream_gene_variant,,ENST00000469588,;IDH3B,downstream_gene_variant,,ENST00000479376,;NOP56,downstream_gene_variant,,ENST00000467196,;	A	ENSG00000101365	ENST00000380843	Transcript	3_prime_UTR_variant	1239	.	.	.	.	.	.	.	-1	IDH3B	HGNC	5385	protein_coding	YES	CCDS13032.1	ENSP00000370223	IDH3B_HUMAN	Q9UIC5_HUMAN,B4DU38_HUMAN	UPI000013CBC6	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|VARSCANS	GCACTGAAGGG	.	3	BLCA
KIF3B	0	.	GRCh37	20	30917984	30918003	+	Frame_Shift_Del	DEL	GGACCACCAGAGACTATGAG	GGACCACCAGAGACTATGAG	-	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	GGACCACCAGAGACTATGAG	GGACCACCAGAGACTATGAG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2011_2030delACCACCAGAGACTATGAGGG	p.Thr671SerfsTer18	p.T671Sfs*18	ENST00000375712	8/9	42	31	11	39	39	0	KIF3B,frameshift_variant,p.Thr671SerfsTer18,ENST00000375712,;KIF3B,frameshift_variant,p.Thr297SerfsTer18,ENST00000418717,;	-	ENSG00000101350	ENST00000375712	Transcript	frameshift_variant	2176-2195	2009-2028	670-676	RTTRDYE/X	cGGACCACCAGAGACTATGAG/c	.	.	.	1	KIF3B	HGNC	6320	protein_coding	YES	CCDS13200.1	ENSP00000364864	KIF3B_HUMAN	.	UPI000012DDB1	.	.	.	8/9	.	hmmpanther:PTHR24115:SF349,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CCAGCCGGACCACCAGAGACTATGAGGGTCC	.	2	BLCA
ATP9A	0	.	GRCh37	20	50224073	50224073	+	Silent	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2796C>T	p.%3D	p.I932I	ENST00000338821	26/28	58	45	12	45	45	0	ATP9A,synonymous_variant,p.%3D,ENST00000338821,;ATP9A,synonymous_variant,p.%3D,ENST00000402822,;ATP9A,synonymous_variant,p.%3D,ENST00000311637,;	A	ENSG00000054793	ENST00000338821	Transcript	synonymous_variant	3061	2796	932	I	atC/atT	COSM1307523	.	.	-1	ATP9A	HGNC	13540	protein_coding	YES	CCDS33489.1	ENSP00000342481	ATP9A_HUMAN	Q2NLD0_HUMAN,B4DR18_HUMAN	UPI000004D334	.	.	.	26/28	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24092:SF49,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATAGATGCT	.	5	BLCA
PCK1	0	.	GRCh37	20	56139562	56139562	+	Missense_Mutation	SNP	C	C	T	rs149472972	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1211C>T	p.Ser404Leu	p.S404L	ENST00000319441	8/10	177	158	18	112	111	0	PCK1,missense_variant,p.Ser404Leu,ENST00000319441,;PCK1,missense_variant,p.Ser87Leu,ENST00000543666,;PCK1,synonymous_variant,p.%3D,ENST00000535860,;PCK1,non_coding_transcript_exon_variant,,ENST00000467047,;PCK1,non_coding_transcript_exon_variant,,ENST00000485958,;PCK1,downstream_gene_variant,,ENST00000475833,;PCK1,downstream_gene_variant,,ENST00000498194,;PCK1,downstream_gene_variant,,ENST00000470051,;	T	ENSG00000124253	ENST00000319441	Transcript	missense_variant	1375	1211	404	S/L	tCg/tTg	rs149472972	.	.	1	PCK1	HGNC	8724	protein_coding	YES	CCDS13460.1	ENSP00000319814	PCKGC_HUMAN	.	UPI000013CB5A	.	deleterious(0)	probably_damaging(0.997)	8/10	.	HAMAP:MF_00452,hmmpanther:PTHR11561,hmmpanther:PTHR11561:SF1,Gene3D:3.90.228.20,Pfam_domain:PF00821,PIRSF_domain:PIRSF001348,Superfamily_domains:SSF53795	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	CODON|p.E302K|c.904G>A|3,CODON|p.S404S|c.1212G>A|3	RADIA|MUTECT|VARSCANS	CAACTCGAGGT	byFrequency|byCluster	3	BLCA
PTK6	0	.	GRCh37	20	62168507	62168507	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.161G>A	p.Gly54Asp	p.G54D	ENST00000217185	1/8	39	25	14	56	56	0	PTK6,missense_variant,p.Gly54Asp,ENST00000217185,;PTK6,5_prime_UTR_variant,,ENST00000542869,;SRMS,downstream_gene_variant,,ENST00000217188,;	T	ENSG00000101213	ENST00000217185	Transcript	missense_variant	189	161	54	G/D	gGt/gAt	COSM1307627	.	.	-1	PTK6	HGNC	9617	protein_coding	YES	CCDS13524.1	ENSP00000217185	PTK6_HUMAN	.	UPI000004F1D9	.	deleterious(0.02)	benign(0.404)	1/8	.	PROSITE_profiles:PS50002,hmmpanther:PTHR24418:SF43,hmmpanther:PTHR24418,Gene3D:2.30.30.40,Pfam_domain:PF14604,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCACCCGCC	.	5	BLCA
MX1	0	.	GRCh37	21	42823170	42823170	+	Silent	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1509G>A	p.%3D	p.K503K	ENST00000398600	17/19	389	260	129	359	359	0	MX1,synonymous_variant,p.%3D,ENST00000398600,;MX1,synonymous_variant,p.%3D,ENST00000288383,;MX1,synonymous_variant,p.%3D,ENST00000398598,;MX1,synonymous_variant,p.%3D,ENST00000455164,;MX1,splice_region_variant,,ENST00000491110,;MX1,downstream_gene_variant,,ENST00000486275,;	A	ENSG00000157601	ENST00000398600	Transcript	synonymous_variant	2534	1509	503	K	aaG/aaA	COSM1307816	.	.	1	MX1	HGNC	7532	protein_coding	YES	CCDS13673.1	ENSP00000381601	MX1_HUMAN	H9KVD3_HUMAN,H9KVD0_HUMAN,H9KVC9_HUMAN,H9KVC7_HUMAN,H9KVC4_HUMAN,H9KVC3_HUMAN	UPI0000206F16	.	.	.	17/19	.	hmmpanther:PTHR11566:SF51,hmmpanther:PTHR11566,Pfam_domain:PF01031	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGGTAAA	.	5	BLCA
LRRC3	0	.	GRCh37	21	45877312	45877312	+	3'UTR	SNP	G	G	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11G>A	.	.	ENST00000291592	2/2	42	38	4	80	80	0	LRRC3,3_prime_UTR_variant,,ENST00000291592,;LRRC3DN,upstream_gene_variant,,ENST00000596691,;LRRC3-AS1,upstream_gene_variant,,ENST00000426578,;	A	ENSG00000160233	ENST00000291592	Transcript	3_prime_UTR_variant	1102	.	.	.	.	.	.	.	1	LRRC3	HGNC	14965	protein_coding	YES	CCDS13711.1	ENSP00000291592	LRRC3_HUMAN	.	UPI000012E946	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GTTCCGGCAGA	.	3	BLCA
EIF4ENIF1	0	.	GRCh37	22	31839041	31839041	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113A>G	p.Met705Val	p.M705V	ENST00000397525	16/19	65	48	16	78	78	0	EIF4ENIF1,missense_variant,p.Met360Val,ENST00000382180,;EIF4ENIF1,missense_variant,p.Met531Val,ENST00000344710,;EIF4ENIF1,missense_variant,p.Met705Val,ENST00000397525,;EIF4ENIF1,missense_variant,p.Met681Val,ENST00000397523,;EIF4ENIF1,missense_variant,p.Met705Val,ENST00000330125,;EIF4ENIF1,downstream_gene_variant,,ENST00000418321,;EIF4ENIF1,upstream_gene_variant,,ENST00000441289,;EIF4ENIF1,3_prime_UTR_variant,,ENST00000445424,;EIF4ENIF1,non_coding_transcript_exon_variant,,ENST00000495101,;EIF4ENIF1,non_coding_transcript_exon_variant,,ENST00000475437,;DRG1,intron_variant,,ENST00000548143,;EIF4ENIF1,downstream_gene_variant,,ENST00000487671,;	C	ENSG00000184708	ENST00000397525	Transcript	missense_variant	2337	2113	705	M/V	Atg/Gtg	COSM1308086	.	.	-1	EIF4ENIF1	HGNC	16687	protein_coding	YES	CCDS13898.1	ENSP00000380659	4ET_HUMAN	B1AKL6_HUMAN,B1AKL5_HUMAN	UPI0000124F14	.	deleterious(0)	probably_damaging(0.949)	16/19	.	Pfam_domain:PF10477,hmmpanther:PTHR12269	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACATCTTAC	.	5	BLCA
COL5A2	0	.	GRCh37	2	189904075	189904075	+	Missense_Mutation	SNP	C	C	T	rs747653593	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3848G>A	p.Arg1283His	p.R1283H	ENST00000374866	51/54	61	53	7	55	55	0	COL5A2,missense_variant,p.Arg1283His,ENST00000374866,;	T	ENSG00000204262	ENST00000374866	Transcript	missense_variant	4123	3848	1283	R/H	cGc/cAc	rs747653593,COSM1306220	.	.	-1	COL5A2	HGNC	2210	protein_coding	YES	CCDS33350.1	ENSP00000364000	CO5A2_HUMAN	D3DPH5_HUMAN	UPI00006C511C	.	.	unknown(0)	51/54	.	SMART_domains:SM00038,Gene3D:3.90.215.10,Pfam_domain:PF01410,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF481,PROSITE_profiles:PS51461	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GGCTGCGCATG	.	3	BLCA
DIS3L2	0	.	GRCh37	2	233198629	233198629	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2090C>T	p.Thr697Ile	p.T697I	ENST00000325385	17/21	113	95	17	186	186	0	DIS3L2,missense_variant,p.Thr697Ile,ENST00000325385,;DIS3L2,missense_variant,p.Thr332Ile,ENST00000424049,;DIS3L2,missense_variant,p.Thr697Ile,ENST00000409307,;DIS3L2,intron_variant,,ENST00000273009,;DIS3L2,upstream_gene_variant,,ENST00000417808,;DIS3L2,upstream_gene_variant,,ENST00000434477,;DIS3L2,upstream_gene_variant,,ENST00000418143,;DIS3L2,3_prime_UTR_variant,,ENST00000445090,;DIS3L2,3_prime_UTR_variant,,ENST00000390005,;DIS3L2,3_prime_UTR_variant,,ENST00000433430,;DIS3L2,non_coding_transcript_exon_variant,,ENST00000429283,;	T	ENSG00000144535	ENST00000325385	Transcript	missense_variant	2366	2090	697	T/I	aCa/aTa	COSM1306540	.	.	1	DIS3L2	HGNC	28648	protein_coding	YES	CCDS42834.1	ENSP00000315569	DI3L2_HUMAN	H7C440_HUMAN,C9JGP4_HUMAN	UPI000004BF03	.	deleterious(0)	probably_damaging(0.989)	17/21	.	HAMAP:MF_03045,hmmpanther:PTHR23355,hmmpanther:PTHR23355:SF9,PROSITE_patterns:PS01175,Pfam_domain:PF00773,SMART_domains:SM00955,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GTACACACACT	.	3	BLCA
ALK	0	.	GRCh37	2	29917721	29917721	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.947C>G	p.Pro316Arg	p.P316R	ENST00000389048	3/29	119	91	28	102	102	0	ALK,missense_variant,p.Pro316Arg,ENST00000389048,;ALK,intron_variant,,ENST00000431873,;	C	ENSG00000171094	ENST00000389048	Transcript	missense_variant	1854	947	316	P/R	cCc/cGc	COSM1306713	.	.	-1	ALK	HGNC	427	protein_coding	YES	CCDS33172.1	ENSP00000373700	ALK_HUMAN	Q580I3_HUMAN	UPI00001684DA	.	tolerated(0.1)	benign(0.037)	3/29	.	PROSITE_profiles:PS50060,Pfam_domain:PF00629,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGGGCATC	.	5	BLCA
GKN2	0	.	GRCh37	2	69172373	69172373	+	3'UTR	SNP	A	A	G	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*127T>C	.	.	ENST00000328895	6/6	30	27	3	33	33	0	GKN2,3_prime_UTR_variant,,ENST00000328895,;GKN2,downstream_gene_variant,,ENST00000481498,;	G	ENSG00000183607	ENST00000328895	Transcript	3_prime_UTR_variant	791	.	.	.	.	.	.	.	-1	GKN2	HGNC	24588	protein_coding	YES	CCDS33215.1	ENSP00000329292	GKN2_HUMAN	.	UPI0000160A98	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAATACAGCA	.	2	BLCA
SEMA4C	0	.	GRCh37	2	97530101	97530101	+	Silent	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981G>A	p.%3D	p.S327S	ENST00000305476	10/15	193	175	17	307	307	0	SEMA4C,synonymous_variant,p.%3D,ENST00000305476,;SEMA4C,downstream_gene_variant,,ENST00000442264,;SEMA4C,downstream_gene_variant,,ENST00000449330,;SEMA4C,non_coding_transcript_exon_variant,,ENST00000482925,;SEMA4C,upstream_gene_variant,,ENST00000467747,;SEMA4C,upstream_gene_variant,,ENST00000474420,;	T	ENSG00000168758	ENST00000305476	Transcript	synonymous_variant	1114	981	327	S	tcG/tcA	COSM1307117	.	.	-1	SEMA4C	HGNC	10731	protein_coding	YES	CCDS2029.1	ENSP00000306844	SEM4C_HUMAN	Q8NBN9_HUMAN,Q6P5A5_HUMAN,Q53RE7_HUMAN,C9JV89_HUMAN,C9J4M7_HUMAN	UPI00001A7981	.	.	.	10/15	.	PROSITE_profiles:PS51004,hmmpanther:PTHR11036:SF16,hmmpanther:PTHR11036,Gene3D:2.130.10.10,Pfam_domain:PF01403,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGGCCGACAG	.	2	BLCA
TRAT1	0	.	GRCh37	3	108565976	108565976	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>A	p.Glu72Lys	p.E72K	ENST00000295756	4/6	36	31	5	42	42	0	TRAT1,missense_variant,p.Glu72Lys,ENST00000295756,;TRAT1,missense_variant,p.Glu35Lys,ENST00000426646,;TRAT1,non_coding_transcript_exon_variant,,ENST00000493604,;TRAT1,non_coding_transcript_exon_variant,,ENST00000484927,;	A	ENSG00000163519	ENST00000295756	Transcript	missense_variant	444	214	72	E/K	Gaa/Aaa	COSM1308367	.	.	1	TRAT1	HGNC	30698	protein_coding	YES	CCDS33813.1	ENSP00000295756	TRAT1_HUMAN	.	UPI00001147D3	.	deleterious(0.01)	possibly_damaging(0.853)	4/6	.	Pfam_domain:PF15330,hmmpanther:PTHR15951	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCAGGTAAG	.	4	BLCA
COL6A6	0	.	GRCh37	3	130311550	130311550	+	Missense_Mutation	SNP	G	G	T	rs779437244	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4355G>T	p.Gly1452Val	p.G1452V	ENST00000358511	14/36	168	137	31	109	109	0	COL6A6,missense_variant,p.Gly1452Val,ENST00000453409,;COL6A6,missense_variant,p.Gly1452Val,ENST00000358511,;COL6A6,missense_variant,p.Gly231Val,ENST00000511332,;COL6A6,missense_variant,p.Gly230Val,ENST00000506143,;	T	ENSG00000206384	ENST00000358511	Transcript	missense_variant	4386	4355	1452	G/V	gGa/gTa	rs779437244,COSM1308574,COSM1308573	.	.	1	COL6A6	HGNC	27023	protein_coding	YES	CCDS46911.1	ENSP00000351310	CO6A6_HUMAN	.	UPI00015B6548	.	deleterious(0)	probably_damaging(0.971)	14/36	.	hmmpanther:PTHR22992:SF86,hmmpanther:PTHR22992	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CAGAGGACTAA	byFrequency	3	BLCA
PPP2R3A	0	.	GRCh37	3	135721343	135721343	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1003G>A	p.Glu335Lys	p.E335K	ENST00000264977	2/14	74	66	7	78	78	0	PPP2R3A,missense_variant,p.Glu335Lys,ENST00000264977,;PPP2R3A,intron_variant,,ENST00000490467,;	A	ENSG00000073711	ENST00000264977	Transcript	missense_variant	1620	1003	335	E/K	Gaa/Aaa	COSM1308629	.	.	1	PPP2R3A	HGNC	9307	protein_coding	YES	CCDS3087.1	ENSP00000264977	P2R3A_HUMAN	.	UPI0000124EAC	.	deleterious_low_confidence(0)	probably_damaging(0.98)	2/14	.	hmmpanther:PTHR14095,hmmpanther:PTHR14095:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	AATATGAAGAT	.	3	BLCA
PIK3CB	0	.	GRCh37	3	138478132	138478132	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.Trp18Ter	p.W18*	ENST00000477593	2/23	51	46	5	68	68	0	PIK3CB,stop_gained,p.Trp18Ter,ENST00000465581,;PIK3CB,stop_gained,p.Trp18Ter,ENST00000477593,;PIK3CB,stop_gained,p.Trp18Ter,ENST00000483968,;PIK3CB,stop_gained,p.Trp18Ter,ENST00000461451,;PIK3CB,stop_gained,p.Trp18Ter,ENST00000289153,;PIK3CB,stop_gained,p.Trp18Ter,ENST00000462898,;	T	ENSG00000051382	ENST00000477593	Transcript	stop_gained	128	54	18	W/*	tgG/tgA	COSM1308649	.	.	-1	PIK3CB	HGNC	8976	protein_coding	YES	CCDS3104.1	ENSP00000418143	PK3CB_HUMAN	Q9BTS4_HUMAN,Q6PJ60_HUMAN,C9JYX0_HUMAN,C9JNF6_HUMAN,C9J345_HUMAN	UPI0000046842	.	.	.	2/23	.	hmmpanther:PTHR10048:SF33,hmmpanther:PTHR10048	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCGCCCAGAT	.	4	BLCA
SLC33A1	0	.	GRCh37	3	155571496	155571496	+	Silent	SNP	G	G	A	rs746176721	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>T	p.%3D	p.L97L	ENST00000392845	1/6	81	73	7	107	106	0	SLC33A1,synonymous_variant,p.%3D,ENST00000392845,;SLC33A1,synonymous_variant,p.%3D,ENST00000359479,;SLC33A1,upstream_gene_variant,,ENST00000475842,;SLC33A1,upstream_gene_variant,,ENST00000460729,;SLC33A1,upstream_gene_variant,,ENST00000468581,;	A	ENSG00000169359	ENST00000392845	Transcript	synonymous_variant	672	291	97	L	ctC/ctT	rs746176721,COSM1308757	.	.	-1	SLC33A1	HGNC	95	protein_coding	YES	CCDS3173.1	ENSP00000376587	ACATN_HUMAN	.	UPI000006E3FD	.	.	.	1/6	.	Superfamily_domains:SSF103473,Pfam_domain:PF13000,TIGRFAM_domain:TIGR00901,hmmpanther:PTHR12778,hmmpanther:PTHR12778:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	AAAATGAGTGG	.	2	BLCA
GFM1	0	.	GRCh37	3	158408110	158408110	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2068G>A	p.Asp690Asn	p.D690N	ENST00000486715	16/18	91	82	9	119	119	0	GFM1,missense_variant,p.Asp709Asn,ENST00000264263,;GFM1,missense_variant,p.Asp690Asn,ENST00000486715,;GFM1,intron_variant,,ENST00000472383,;RP11-379F4.7,downstream_gene_variant,,ENST00000607624,;GFM1,splice_region_variant,,ENST00000478254,;GFM1,non_coding_transcript_exon_variant,,ENST00000477721,;	A	ENSG00000168827	ENST00000486715	Transcript	missense_variant	2425	2068	690	D/N	Gat/Aat	COSM1308770	.	.	1	GFM1	HGNC	13780	protein_coding	YES	CCDS33885.1	ENSP00000419038	EFGM_HUMAN	E5KND5_HUMAN,C9JA25_HUMAN	UPI000006232D	.	deleterious(0.01)	benign(0.016)	16/18	.	Superfamily_domains:SSF54980,SMART_domains:SM00838,TIGRFAM_domain:TIGR00484,Gene3D:3.30.70.240,Pfam_domain:PF00679,hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF66,HAMAP:MF_00054_B	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCAGATGTA	.	4	BLCA
ACTL6A	0	.	GRCh37	3	179301231	179301231	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1117C>T	p.Pro373Ser	p.P373S	ENST00000429709	12/14	95	86	9	151	150	0	ACTL6A,missense_variant,p.Pro331Ser,ENST00000392662,;ACTL6A,missense_variant,p.Pro331Ser,ENST00000450518,;ACTL6A,missense_variant,p.Pro373Ser,ENST00000429709,;MRPL47,downstream_gene_variant,,ENST00000476781,;RP11-15L13.4,non_coding_transcript_exon_variant,,ENST00000608818,;RP11-145M9.6,downstream_gene_variant,,ENST00000610007,;ACTL6A,downstream_gene_variant,,ENST00000467615,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000484312,;ACTL6A,upstream_gene_variant,,ENST00000461125,;ACTL6A,downstream_gene_variant,,ENST00000479056,;ACTL6A,downstream_gene_variant,,ENST00000487978,;	T	ENSG00000136518	ENST00000429709	Transcript	missense_variant	1330	1117	373	P/S	Cct/Tct	COSM1308849	.	.	1	ACTL6A	HGNC	24124	protein_coding	YES	CCDS3231.1	ENSP00000397552	ACL6A_HUMAN	D3DNS0_HUMAN,C9JQT2_HUMAN	UPI0000001655	.	deleterious(0)	probably_damaging(1)	12/14	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF191,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACTCCTCCA	.	4	BLCA
SGOL1	0	.	GRCh37	3	20225184	20225184	+	Silent	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255G>A	p.%3D	p.L85L	ENST00000263753	3/9	98	89	9	129	128	0	SGOL1,synonymous_variant,p.%3D,ENST00000412868,;SGOL1,synonymous_variant,p.%3D,ENST00000437051,;SGOL1,synonymous_variant,p.%3D,ENST00000425061,;SGOL1,synonymous_variant,p.%3D,ENST00000421451,;SGOL1,synonymous_variant,p.%3D,ENST00000383774,;SGOL1,synonymous_variant,p.%3D,ENST00000429446,;SGOL1,synonymous_variant,p.%3D,ENST00000306698,;SGOL1,synonymous_variant,p.%3D,ENST00000263753,;SGOL1,synonymous_variant,p.%3D,ENST00000442720,;SGOL1,synonymous_variant,p.%3D,ENST00000417364,;SGOL1,synonymous_variant,p.%3D,ENST00000443724,;SGOL1,synonymous_variant,p.%3D,ENST00000452020,;SGOL1,synonymous_variant,p.%3D,ENST00000412997,;SGOL1,synonymous_variant,p.%3D,ENST00000419233,;SGOL1-AS1,intron_variant,,ENST00000448208,;SGOL1-AS1,intron_variant,,ENST00000441442,;SGOL1,intron_variant,,ENST00000456624,;	T	ENSG00000129810	ENST00000263753	Transcript	synonymous_variant	395	255	85	L	ctG/ctA	.	.	.	-1	SGOL1	HGNC	25088	protein_coding	YES	CCDS33716.1	ENSP00000263753	SGOL1_HUMAN	.	UPI00004CE17A	.	.	.	3/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21577	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TTTCTCAGCTG	.	3	BLCA
TRANK1	0	.	GRCh37	3	36872485	36872485	+	Silent	SNP	T	T	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8457A>G	p.%3D	p.V2819V	ENST00000429976	21/23	206	158	47	222	222	0	TRANK1,synonymous_variant,p.%3D,ENST00000428977,;TRANK1,synonymous_variant,p.%3D,ENST00000301807,;TRANK1,synonymous_variant,p.%3D,ENST00000429976,;	C	ENSG00000168016	ENST00000429976	Transcript	synonymous_variant	8705	8457	2819	V	gtA/gtG	COSM1309046,COSM1309045,COSM1309044	.	.	-1	TRANK1	HGNC	29011	protein_coding	YES	CCDS46789.2	ENSP00000416168	TRNK1_HUMAN	B7WP88_HUMAN	UPI00017BE82B	.	.	.	21/23	.	hmmpanther:PTHR21529:SF5,hmmpanther:PTHR21529	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCATACACT	.	5	BLCA
KLHDC8B	0	.	GRCh37	3	49213182	49213182	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1013C>T	p.Ala338Val	p.A338V	ENST00000332780	6/6	71	61	10	141	141	0	KLHDC8B,missense_variant,p.Ala338Val,ENST00000332780,;C3orf84,downstream_gene_variant,,ENST00000545770,;C3orf84,downstream_gene_variant,,ENST00000432035,;KLHDC8B,non_coding_transcript_exon_variant,,ENST00000462582,;KLHDC8B,downstream_gene_variant,,ENST00000459846,;C3orf84,downstream_gene_variant,,ENST00000443990,;KLHDC8B,downstream_gene_variant,,ENST00000476495,;KLHDC8B,downstream_gene_variant,,ENST00000471811,;	T	ENSG00000185909	ENST00000332780	Transcript	missense_variant	1222	1013	338	A/V	gCc/gTc	COSM1309256	.	.	1	KLHDC8B	HGNC	28557	protein_coding	YES	CCDS2791.1	ENSP00000327468	KLD8B_HUMAN	.	UPI000004EE01	.	tolerated(0.05)	possibly_damaging(0.494)	6/6	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF152,Gene3D:1zgkA00,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGGCCCAGG	.	4	BLCA
UVSSA	0	.	GRCh37	4	1374711	1374711	+	Missense_Mutation	SNP	G	G	A	rs551571397	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1796G>A	p.Arg599Gln	p.R599Q	ENST00000389851	12/14	77	61	16	155	155	0	UVSSA,missense_variant,p.Arg150Gln,ENST00000512728,;UVSSA,missense_variant,p.Arg599Gln,ENST00000507531,;UVSSA,missense_variant,p.Arg599Gln,ENST00000389851,;UVSSA,missense_variant,p.Arg599Gln,ENST00000511216,;UVSSA,missense_variant,p.Arg150Gln,ENST00000511563,;UVSSA,upstream_gene_variant,,ENST00000507422,;UVSSA,3_prime_UTR_variant,,ENST00000503548,;	A	ENSG00000163945	ENST00000389851	Transcript	missense_variant	2243	1796	599	R/Q	cGg/cAg	rs551571397,COSM1309745	.	.	1	UVSSA	HGNC	29304	protein_coding	YES	CCDS33938.1	ENSP00000374501	UVSSA_HUMAN	.	UPI00001C1E0C	.	tolerated(0.47)	benign(0.036)	12/14	.	Pfam_domain:PF09740	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACGGCCGC	byCluster|by1000G	5	BLCA
FBXW7	0	.	GRCh37	4	153244124	153244124	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2033C>G	p.Ser678Ter	p.S678*	ENST00000281708	12/12	109	56	52	131	131	0	FBXW7,stop_gained,p.Ser678Ter,ENST00000603548,;FBXW7,stop_gained,p.Ser598Ter,ENST00000263981,;FBXW7,stop_gained,p.Ser560Ter,ENST00000296555,;FBXW7,stop_gained,p.Ser502Ter,ENST00000393956,;FBXW7,stop_gained,p.Ser678Ter,ENST00000281708,;FBXW7,stop_gained,p.Ser678Ter,ENST00000603841,;RP11-461L13.3,upstream_gene_variant,,ENST00000603766,;RP11-461L13.5,upstream_gene_variant,,ENST00000605407,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604316,;FBXW7,non_coding_transcript_exon_variant,,ENST00000603821,;FBXW7,downstream_gene_variant,,ENST00000604069,;	C	ENSG00000109670	ENST00000281708	Transcript	stop_gained	3263	2033	678	S/*	tCa/tGa	COSM732399,COSM732400,COSM1149848,COSM732402,COSM732401	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	.	.	12/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGAGGCT	.	5	BLCA
C1QTNF7	0	.	GRCh37	4	15444248	15444248	+	Missense_Mutation	SNP	C	C	T	rs776448155	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.716C>T	p.Ser239Leu	p.S239L	ENST00000295297	3/3	159	97	61	122	122	0	C1QTNF7,missense_variant,p.Ser232Leu,ENST00000444304,;C1QTNF7,missense_variant,p.Ser239Leu,ENST00000295297,;C1QTNF7,missense_variant,p.Ser232Leu,ENST00000429690,;C1QTNF7,downstream_gene_variant,,ENST00000397700,;C1QTNF7,downstream_gene_variant,,ENST00000382383,;	T	ENSG00000163145	ENST00000295297	Transcript	missense_variant	975	716	239	S/L	tCg/tTg	rs776448155,COSM1309825	.	.	1	C1QTNF7	HGNC	14342	protein_coding	YES	CCDS47025.1	ENSP00000295297	C1QT7_HUMAN	J3KPK0_HUMAN	UPI000004E7F9	.	deleterious(0)	probably_damaging(0.999)	3/3	.	PROSITE_profiles:PS50871,hmmpanther:PTHR24022,hmmpanther:PTHR24022:SF15,Gene3D:2.60.120.40,Pfam_domain:PF00386,SMART_domains:SM00110,Superfamily_domains:SSF49842,Prints_domain:PR00007	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	GGCTTCGGGGT	byFrequency	4	BLCA
FAM53A	0	.	GRCh37	4	1643302	1643302	+	Silent	SNP	G	G	A	rs151156399	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915C>T	p.%3D	p.L305L	ENST00000308132	5/5	385	339	46	503	503	0	FAM53A,stop_gained,p.Gln357Ter,ENST00000489363,;FAM53A,synonymous_variant,p.%3D,ENST00000472884,;FAM53A,synonymous_variant,p.%3D,ENST00000308132,;FAM53A,synonymous_variant,p.%3D,ENST00000461064,;FAM53A,intron_variant,,ENST00000489029,;FAM53A,non_coding_transcript_exon_variant,,ENST00000467215,;	A	ENSG00000174137	ENST00000308132	Transcript	synonymous_variant	1108	915	305	L	ctC/ctT	rs151156399,COSM1309866	.	.	-1	FAM53A	HGNC	31860	protein_coding	YES	CCDS33939.1	ENSP00000310057	FA53A_HUMAN	C9J9E1_HUMAN	UPI000023730C	.	.	.	5/5	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TAATTGAGGGA	byCluster	3	BLCA
TACC3	0	.	GRCh37	4	1730206	1730206	+	Missense_Mutation	SNP	G	G	C	rs767234946	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1077G>C	p.Glu359Asp	p.E359D	ENST00000313288	4/16	82	77	5	135	135	0	TACC3,missense_variant,p.Glu26Asp,ENST00000470136,;TACC3,missense_variant,p.Glu359Asp,ENST00000313288,;TACC3,intron_variant,,ENST00000485989,;TACC3,downstream_gene_variant,,ENST00000493975,;TACC3,downstream_gene_variant,,ENST00000458173,;TACC3,non_coding_transcript_exon_variant,,ENST00000484651,;TACC3,upstream_gene_variant,,ENST00000466077,;TACC3,downstream_gene_variant,,ENST00000467746,;	C	ENSG00000013810	ENST00000313288	Transcript	missense_variant	1183	1077	359	E/D	gaG/gaC	rs767234946,COSM1309900	.	.	1	TACC3	HGNC	11524	protein_coding	YES	CCDS3352.1	ENSP00000326550	TACC3_HUMAN	E7EMT0_HUMAN,C9JA91_HUMAN	UPI0000136869	.	deleterious(0.02)	benign(0.142)	4/16	.	hmmpanther:PTHR13924	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGAGAGAGGTC	byFrequency	2	BLCA
GALNTL6	0	.	GRCh37	4	173269794	173269794	+	Silent	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507G>A	p.%3D	p.G169G	ENST00000506823	5/13	46	31	14	103	103	0	GALNTL6,synonymous_variant,p.%3D,ENST00000508122,;GALNTL6,synonymous_variant,p.%3D,ENST00000506823,;GALNTL6,non_coding_transcript_exon_variant,,ENST00000457021,;	A	ENSG00000174473	ENST00000506823	Transcript	synonymous_variant	1164	507	169	G	ggG/ggA	COSM1309901	.	.	1	GALNTL6	HGNC	33844	protein_coding	YES	CCDS34104.1	ENSP00000423313	GLTL6_HUMAN	E5D8G0_HUMAN	UPI000058EB5C	.	.	.	5/13	.	Superfamily_domains:SSF53448,Pfam_domain:PF00535,Gene3D:3.90.550.10,hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF34	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGGGAGTCT	.	5	BLCA
HAUS3	0	.	GRCh37	4	2242103	2242103	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571C>T	p.Pro191Ser	p.P191S	ENST00000243706	2/5	32	27	5	39	39	0	HAUS3,missense_variant,p.Pro191Ser,ENST00000243706,;HAUS3,missense_variant,p.Pro191Ser,ENST00000506763,;HAUS3,missense_variant,p.Pro191Ser,ENST00000443786,;POLN,intron_variant,,ENST00000511885,;HAUS3,downstream_gene_variant,,ENST00000502440,;HAUS3,downstream_gene_variant,,ENST00000514395,;POLN,intron_variant,,ENST00000515357,;	A	ENSG00000214367	ENST00000243706	Transcript	missense_variant	801	571	191	P/S	Cca/Tca	COSM1309980	.	.	-1	HAUS3	HGNC	28719	protein_coding	YES	CCDS33941.1	ENSP00000243706	HAUS3_HUMAN	D6R993_HUMAN	UPI000020BA32	.	deleterious(0.01)	benign(0.079)	2/5	.	hmmpanther:PTHR19378:SF0,hmmpanther:PTHR19378,Pfam_domain:PF14932	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	CAGTGGATTTG	.	2	BLCA
SH3BP2	0	.	GRCh37	4	2831314	2831314	+	Silent	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.852C>T	p.%3D	p.T284T	ENST00000503393	8/13	121	107	13	199	198	0	SH3BP2,synonymous_variant,p.%3D,ENST00000503393,;SH3BP2,synonymous_variant,p.%3D,ENST00000442312,;SH3BP2,synonymous_variant,p.%3D,ENST00000356331,;SH3BP2,synonymous_variant,p.%3D,ENST00000511747,;SH3BP2,synonymous_variant,p.%3D,ENST00000435136,;SH3BP2,synonymous_variant,p.%3D,ENST00000452765,;SH3BP2,downstream_gene_variant,,ENST00000513095,;SH3BP2,downstream_gene_variant,,ENST00000512014,;SH3BP2,downstream_gene_variant,,ENST00000503219,;SH3BP2,downstream_gene_variant,,ENST00000508385,;SH3BP2,downstream_gene_variant,,ENST00000504294,;SH3BP2,downstream_gene_variant,,ENST00000502260,;SH3BP2,non_coding_transcript_exon_variant,,ENST00000515183,;SH3BP2,3_prime_UTR_variant,,ENST00000515737,;SH3BP2,non_coding_transcript_exon_variant,,ENST00000505941,;SH3BP2,non_coding_transcript_exon_variant,,ENST00000510204,;SH3BP2,non_coding_transcript_exon_variant,,ENST00000515802,;SH3BP2,intron_variant,,ENST00000504450,;SH3BP2,downstream_gene_variant,,ENST00000513020,;SH3BP2,upstream_gene_variant,,ENST00000513069,;SH3BP2,downstream_gene_variant,,ENST00000511185,;SH3BP2,downstream_gene_variant,,ENST00000506932,;SH3BP2,downstream_gene_variant,,ENST00000511237,;SH3BP2,downstream_gene_variant,,ENST00000510074,;SH3BP2,downstream_gene_variant,,ENST00000509677,;SH3BP2,downstream_gene_variant,,ENST00000512131,;SH3BP2,downstream_gene_variant,,ENST00000511663,;	T	ENSG00000087266	ENST00000503393	Transcript	synonymous_variant	891	852	284	T	acC/acT	COSM1310005	.	.	1	SH3BP2	HGNC	10825	protein_coding	YES	CCDS54716.1	ENSP00000422168	.	D6RER9_HUMAN,D6RC64_HUMAN,D6RBL6_HUMAN,D6RAB4_HUMAN,D6R995_HUMAN,D6R919_HUMAN	UPI00019638E3	.	.	.	8/13	.	hmmpanther:PTHR15126:SF4,hmmpanther:PTHR15126	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTACCTCCAA	.	4	BLCA
MFSD10	0	.	GRCh37	4	2934086	2934086	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685G>T	p.Glu229Ter	p.E229*	ENST00000329687	5/12	25	19	6	55	54	1	MFSD10,stop_gained,p.Glu229Ter,ENST00000508221,;MFSD10,stop_gained,p.Glu229Ter,ENST00000507555,;MFSD10,stop_gained,p.Glu229Ter,ENST00000355443,;MFSD10,stop_gained,p.Glu229Ter,ENST00000514800,;MFSD10,stop_gained,p.Glu229Ter,ENST00000329687,;ADD1,downstream_gene_variant,,ENST00000398125,;ADD1,downstream_gene_variant,,ENST00000536424,;ADD1,downstream_gene_variant,,ENST00000541843,;ADD1,downstream_gene_variant,,ENST00000398123,;ADD1,downstream_gene_variant,,ENST00000446856,;ADD1,downstream_gene_variant,,ENST00000355842,;ADD1,downstream_gene_variant,,ENST00000514940,;ADD1,downstream_gene_variant,,ENST00000513328,;ADD1,downstream_gene_variant,,ENST00000398129,;ADD1,downstream_gene_variant,,ENST00000264758,;ADD1,downstream_gene_variant,,ENST00000503455,;NOP14-AS1,upstream_gene_variant,,ENST00000515194,;NOP14-AS1,upstream_gene_variant,,ENST00000503709,;NOP14-AS1,upstream_gene_variant,,ENST00000505731,;NOP14-AS1,upstream_gene_variant,,ENST00000507999,;NOP14-AS1,upstream_gene_variant,,ENST00000512712,;ADD1,downstream_gene_variant,,ENST00000538860,;MFSD10,missense_variant,p.Trp194Cys,ENST00000503596,;MFSD10,3_prime_UTR_variant,,ENST00000507272,;MFSD10,non_coding_transcript_exon_variant,,ENST00000509676,;MFSD10,non_coding_transcript_exon_variant,,ENST00000512781,;MFSD10,upstream_gene_variant,,ENST00000514031,;MFSD10,upstream_gene_variant,,ENST00000508276,;ADD1,downstream_gene_variant,,ENST00000503062,;ADD1,downstream_gene_variant,,ENST00000513762,;	A	ENSG00000109736	ENST00000329687	Transcript	stop_gained	1220	685	229	E/*	Gag/Tag	.	.	.	-1	MFSD10	HGNC	16894	protein_coding	YES	CCDS3365.1	ENSP00000332646	MFS10_HUMAN	.	UPI0000073302	.	.	.	5/12	.	Superfamily_domains:SSF103473,Gene3D:1.20.1250.20,Pfam_domain:PF07690,hmmpanther:PTHR24003,hmmpanther:PTHR24003:SF438,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TTTCTCCAGGG	.	2	BLCA
ATP8A1	0	.	GRCh37	4	42596348	42596348	+	Intron	SNP	C	C	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451-3447G>T	.	.	ENST00000381668	.	91	81	10	155	154	1	ATP8A1,missense_variant,p.Gly161Val,ENST00000264449,;ATP8A1,intron_variant,,ENST00000381668,;ATP8A1,intron_variant,,ENST00000504024,;	A	ENSG00000124406	ENST00000381668	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ATP8A1	HGNC	13531	protein_coding	YES	CCDS3466.1	ENSP00000371084	AT8A1_HUMAN	H0YAJ4_HUMAN	UPI0000125063	.	.	.	.	6/36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTGCCTTTT	.	4	BLCA
GRID2	0	.	GRCh37	4	94006340	94006340	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>G	p.Arg147Gly	p.R147G	ENST00000282020	3/16	34	29	4	69	69	0	GRID2,missense_variant,p.Arg147Gly,ENST00000282020,;GRID2,intron_variant,,ENST00000510992,;GRID2,non_coding_transcript_exon_variant,,ENST00000505687,;GRID2,non_coding_transcript_exon_variant,,ENST00000515744,;GRID2,missense_variant,p.Arg62Gly,ENST00000502699,;	G	ENSG00000152208	ENST00000282020	Transcript	missense_variant	697	439	147	R/G	Cgc/Ggc	COSM1431807,COSM1310384	.	.	1	GRID2	HGNC	4576	protein_coding	YES	CCDS3637.1	ENSP00000282020	GRID2_HUMAN	Q4W5S4_HUMAN,Q4W5L9_HUMAN,Q4W5F4_HUMAN,Q4W5B7_HUMAN,D6R976_HUMAN	UPI00001AEA78	.	deleterious(0.01)	probably_damaging(0.981)	3/16	.	hmmpanther:PTHR18966:SF109,hmmpanther:PTHR18966,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGTTCGCCCA	.	4	BLCA
TERT	0	.	GRCh37	5	1253819	1253819	+	3'UTR	SNP	G	G	A	rs749338229	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24C>T	.	.	ENST00000310581	16/16	30	27	3	57	57	0	TERT,3_prime_UTR_variant,,ENST00000296820,;TERT,3_prime_UTR_variant,,ENST00000310581,;TERT,downstream_gene_variant,,ENST00000334602,;TERT,non_coding_transcript_exon_variant,,ENST00000484238,;TERT,downstream_gene_variant,,ENST00000460137,;	A	ENSG00000164362	ENST00000310581	Transcript	3_prime_UTR_variant	3481	.	.	.	.	rs749338229	.	.	-1	TERT	HGNC	11730	protein_coding	YES	CCDS3861.2	ENSP00000309572	TERT_HUMAN	Q9UNS6_HUMAN,Q9UNR4_HUMAN,Q9UBR6_HUMAN	UPI0000031309	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|VARSCANS	CTCTCGGCCTG	byFrequency	2	BLCA
FSTL4	0	.	GRCh37	5	132736544	132736544	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.295C>T	p.Pro99Ser	p.P99S	ENST00000265342	4/16	69	49	20	83	83	0	FSTL4,missense_variant,p.Pro99Ser,ENST00000265342,;FSTL4,missense_variant,p.Pro101Ser,ENST00000510685,;	A	ENSG00000053108	ENST00000265342	Transcript	missense_variant	545	295	99	P/S	Cct/Tct	COSM1310541	.	.	-1	FSTL4	HGNC	21389	protein_coding	YES	CCDS34238.1	ENSP00000265342	FSTL4_HUMAN	.	UPI000003AFB0	.	deleterious(0)	probably_damaging(1)	4/16	.	PROSITE_profiles:PS51465,hmmpanther:PTHR10913,hmmpanther:PTHR10913:SF9,Pfam_domain:PF07648,Gene3D:3.30.60.30,SMART_domains:SM00280,Superfamily_domains:SSF100895	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAGGCACGT	.	5	BLCA
KDM3B	0	.	GRCh37	5	137721755	137721756	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.826dupA	p.Arg276LysfsTer21	p.R276Kfs*21	ENST00000314358	7/24	142	123	19	139	139	0	KDM3B,frameshift_variant,p.Arg276LysfsTer21,ENST00000314358,;KDM3B,upstream_gene_variant,,ENST00000542866,;KDM3B,upstream_gene_variant,,ENST00000394866,;KDM3B,frameshift_variant,p.Arg212LysfsTer21,ENST00000510866,;KDM3B,upstream_gene_variant,,ENST00000507996,;KDM3B,downstream_gene_variant,,ENST00000512928,;	A	ENSG00000120733	ENST00000314358	Transcript	frameshift_variant	1025-1026	825-826	275-276	-/X	-/A	.	.	.	1	KDM3B	HGNC	1337	protein_coding	YES	CCDS34242.1	ENSP00000326563	KDM3B_HUMAN	F5H275_HUMAN	UPI000020C6A8	.	.	.	7/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	AAGAAGAGAGA	.	2	BLCA
PCDHGA3	0	.	GRCh37	5	140725479	140725479	+	Missense_Mutation	SNP	C	C	T	rs62378406	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1879C>T	p.Arg627Cys	p.R627C	ENST00000253812	1/4	75	60	15	144	143	0	PCDHGA3,missense_variant,p.Arg627Cys,ENST00000253812,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB1,upstream_gene_variant,,ENST00000523390,;PCDHGA2,downstream_gene_variant,,ENST00000528330,;	T	ENSG00000254245	ENST00000253812	Transcript	missense_variant	1879	1879	627	R/C	Cgc/Tgc	rs62378406,COSM1310725	.	.	1	PCDHGA3	HGNC	8701	protein_coding	YES	CCDS47290.1	ENSP00000253812	PCDG3_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000161C1A	.	deleterious_low_confidence(0.02)	possibly_damaging(0.782)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF75,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AGGTGCGCACG	.	2	BLCA
COL23A1	0	.	GRCh37	5	177673290	177673290	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1378G>A	p.Gly460Ser	p.G460S	ENST00000390654	24/29	10	6	3	10	10	0	COL23A1,missense_variant,p.Gly460Ser,ENST00000390654,;	T	ENSG00000050767	ENST00000390654	Transcript	missense_variant	1736	1378	460	G/S	Ggc/Agc	COSM1311030	.	.	-1	COL23A1	HGNC	22990	protein_coding	YES	CCDS4436.1	ENSP00000375069	CONA1_HUMAN	.	UPI0000062274	.	deleterious(0)	probably_damaging(1)	24/29	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGGCCCGGTG	.	3	BLCA
RASA1	0	.	GRCh37	5	86645051	86645051	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1123C>G	p.Leu375Val	p.L375V	ENST00000274376	8/25	43	35	8	88	87	1	RASA1,missense_variant,p.Leu208Val,ENST00000512763,;RASA1,missense_variant,p.Leu198Val,ENST00000456692,;RASA1,missense_variant,p.Leu375Val,ENST00000274376,;RASA1,missense_variant,p.Leu209Val,ENST00000506290,;RASA1,missense_variant,p.Leu375Val,ENST00000515800,;RASA1,non_coding_transcript_exon_variant,,ENST00000509953,;	G	ENSG00000145715	ENST00000274376	Transcript	missense_variant	1687	1123	375	L/V	Ctt/Gtt	COSM1311369,COSM1311370	.	.	1	RASA1	HGNC	9871	protein_coding	YES	CCDS34200.1	ENSP00000274376	RASA1_HUMAN	B4DTL8_HUMAN	UPI00001351F3	.	deleterious(0)	probably_damaging(0.954)	8/25	.	PROSITE_profiles:PS50001,hmmpanther:PTHR10194,Pfam_domain:PF00017,Gene3D:3.30.505.10,SMART_domains:SM00252,Superfamily_domains:SSF55550	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTTGTG	.	4	BLCA
STX11	0	.	GRCh37	6	144508445	144508445	+	Silent	SNP	C	C	G	rs145774130	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681C>G	p.%3D	p.L227L	ENST00000367568	2/2	39	32	7	68	68	0	STX11,synonymous_variant,p.%3D,ENST00000367568,;	G	ENSG00000135604	ENST00000367568	Transcript	synonymous_variant	864	681	227	L	ctC/ctG	rs145774130,COSM1311625	.	.	1	STX11	HGNC	11429	protein_coding	YES	CCDS5205.1	ENSP00000356540	STX11_HUMAN	.	UPI0000001C25	.	.	.	2/2	.	Superfamily_domains:SSF47661,SMART_domains:SM00397,Pfam_domain:PF05739,Gene3D:1.20.58.70,PROSITE_patterns:PS00914,hmmpanther:PTHR19957,hmmpanther:PTHR19957:SF30,PROSITE_profiles:PS50192	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0027	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCTTCTT	byFrequency|byCluster|by1000G	5	BLCA
HIST1H2BF	0	.	GRCh37	6	26200019	26200019	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233C>G	p.Ala78Gly	p.A78G	ENST00000359985	1/1	170	152	18	273	273	0	HIST1H2BF,missense_variant,p.Ala78Gly,ENST00000359985,;HIST1H3D,upstream_gene_variant,,ENST00000377831,;HIST1H4E,upstream_gene_variant,,ENST00000360441,;HIST1H2AD,upstream_gene_variant,,ENST00000341023,;HIST1H3D,upstream_gene_variant,,ENST00000356476,;HIST1H1PS1,downstream_gene_variant,,ENST00000404269,;RP1-34B20.4,upstream_gene_variant,,ENST00000405418,;	G	ENSG00000197846	ENST00000359985	Transcript	missense_variant	272	233	78	A/G	gCt/gGt	COSM1311876	.	.	1	HIST1H2BF	HGNC	4752	protein_coding	YES	CCDS4592.1	ENSP00000353074	H2B1C_HUMAN	B2R4S9_HUMAN	UPI0000000C24	.	deleterious_low_confidence(0.02)	possibly_damaging(0.872)	1/1	.	Superfamily_domains:SSF47113,SMART_domains:SM00427,Gene3D:1.10.20.10,Pfam_domain:PF00125,hmmpanther:PTHR23428	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E77K|c.229G>A|6	RADIA|MUTECT|MUSE|VARSCANS	CGAGGCTTCCC	.	4	BLCA
BRPF3	0	.	GRCh37	6	36168333	36168333	+	Silent	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234G>A	p.%3D	p.K78K	ENST00000357641	2/13	89	78	10	135	135	0	BRPF3,synonymous_variant,p.%3D,ENST00000443324,;BRPF3,synonymous_variant,p.%3D,ENST00000357641,;BRPF3,synonymous_variant,p.%3D,ENST00000446974,;BRPF3,synonymous_variant,p.%3D,ENST00000534694,;BRPF3,synonymous_variant,p.%3D,ENST00000543502,;BRPF3,synonymous_variant,p.%3D,ENST00000339717,;BRPF3,synonymous_variant,p.%3D,ENST00000534400,;BRPF3,synonymous_variant,p.%3D,ENST00000454960,;BRPF3,upstream_gene_variant,,ENST00000527657,;RP1-179N16.6,upstream_gene_variant,,ENST00000526611,;RP1-179N16.6,upstream_gene_variant,,ENST00000499560,;BRPF3,synonymous_variant,p.%3D,ENST00000441123,;BRPF3,synonymous_variant,p.%3D,ENST00000449261,;BRPF3,synonymous_variant,p.%3D,ENST00000532330,;	A	ENSG00000096070	ENST00000357641	Transcript	synonymous_variant	487	234	78	K	aaG/aaA	COSM1312145	.	.	1	BRPF3	HGNC	14256	protein_coding	YES	CCDS34437.1	ENSP00000350267	BRPF3_HUMAN	A8WI62_HUMAN,A8WI61_HUMAN	UPI00001C1E4C	.	.	.	2/13	.	hmmpanther:PTHR13793,hmmpanther:PTHR13793:SF19,Pfam_domain:PF10513	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACAAGGAAAA	.	4	BLCA
ECI2	0	.	GRCh37	6	4117578	4117578	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993G>A	p.Trp331Ter	p.W331*	ENST00000380118	9/10	97	60	37	98	97	1	ECI2,stop_gained,p.Trp331Ter,ENST00000380118,;ECI2,stop_gained,p.Trp301Ter,ENST00000380125,;ECI2,stop_gained,p.Trp301Ter,ENST00000465828,;ECI2,stop_gained,p.Trp164Ter,ENST00000413766,;ECI2,stop_gained,p.Trp301Ter,ENST00000361538,;C6orf201,intron_variant,,ENST00000333388,;C6orf201,intron_variant,,ENST00000380175,;C6orf201,intron_variant,,ENST00000430835,;C6orf201,downstream_gene_variant,,ENST00000360378,;C6orf201,upstream_gene_variant,,ENST00000496987,;ECI2,3_prime_UTR_variant,,ENST00000380120,;ECI2,3_prime_UTR_variant,,ENST00000478266,;ECI2,3_prime_UTR_variant,,ENST00000496241,;ECI2,non_coding_transcript_exon_variant,,ENST00000464583,;ECI2,non_coding_transcript_exon_variant,,ENST00000464057,;C6orf201,intron_variant,,ENST00000436110,;C6orf201,intron_variant,,ENST00000451679,;C6orf201,intron_variant,,ENST00000427996,;	T	ENSG00000198721	ENST00000380118	Transcript	stop_gained	1030	993	331	W/*	tgG/tgA	COSM1312193,COSM1312192	.	.	-1	ECI2	HGNC	14601	protein_coding	YES	CCDS43420.2	ENSP00000369461	ECI2_HUMAN	C9J000_HUMAN,B4DLL3_HUMAN	UPI000004ECA9	.	.	.	9/10	.	hmmpanther:PTHR23310,hmmpanther:PTHR23310:SF55,Pfam_domain:PF00378,Gene3D:3.90.226.10,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCCAGAC	.	5	BLCA
MLIP	0	.	GRCh37	6	54095691	54095691	+	Silent	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1293C>T	p.%3D	p.L431L	ENST00000274897	11/13	74	62	11	125	125	0	MLIP,synonymous_variant,p.%3D,ENST00000274897,;MLIP,synonymous_variant,p.%3D,ENST00000502396,;MLIP,intron_variant,,ENST00000358276,;MLIP,intron_variant,,ENST00000370876,;MLIP,intron_variant,,ENST00000509997,;MLIP,intron_variant,,ENST00000370877,;MLIP,downstream_gene_variant,,ENST00000514433,;	T	ENSG00000146147	ENST00000274897	Transcript	synonymous_variant	1406	1293	431	L	ctC/ctT	COSM1312314	.	.	1	MLIP	HGNC	21355	protein_coding	YES	CCDS4954.1	ENSP00000274897	MLIP_HUMAN	.	UPI000013DA33	.	.	.	11/13	.	hmmpanther:PTHR31514:SF1,hmmpanther:PTHR31514	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCCTCAG	.	4	BLCA
ZNF451	0	.	GRCh37	6	57013396	57013396	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2513C>T	p.Ser838Leu	p.S838L	ENST00000370706	10/15	21	13	8	42	42	0	ZNF451,missense_variant,p.Ser838Leu,ENST00000357489,;ZNF451,missense_variant,p.Ser838Leu,ENST00000370706,;ZNF451,missense_variant,p.Ser838Leu,ENST00000491832,;RP11-203B9.4,intron_variant,,ENST00000416069,;RP11-203B9.4,intron_variant,,ENST00000587815,;RP11-203B9.4,intron_variant,,ENST00000586432,;RP11-203B9.4,intron_variant,,ENST00000586053,;RP11-203B9.4,intron_variant,,ENST00000588811,;RP11-203B9.4,intron_variant,,ENST00000591553,;RP11-203B9.4,intron_variant,,ENST00000585792,;RP11-203B9.4,intron_variant,,ENST00000592038,;RP11-203B9.4,intron_variant,,ENST00000592500,;RP11-203B9.4,intron_variant,,ENST00000586668,;RP11-203B9.4,intron_variant,,ENST00000589549,;RP11-203B9.4,downstream_gene_variant,,ENST00000589263,;RP11-203B9.4,downstream_gene_variant,,ENST00000586466,;ZNF451,non_coding_transcript_exon_variant,,ENST00000444273,;ZNF451,intron_variant,,ENST00000504603,;ZNF451,upstream_gene_variant,,ENST00000508548,;	T	ENSG00000112200	ENST00000370706	Transcript	missense_variant	2757	2513	838	S/L	tCa/tTa	COSM1312333,COSM1312332	.	.	1	ZNF451	HGNC	21091	protein_coding	YES	CCDS43477.1	ENSP00000359740	ZN451_HUMAN	Q96JY2_HUMAN,D6RAV4_HUMAN	UPI000004A571	.	deleterious_low_confidence(0.04)	benign(0.005)	10/15	.	hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF436	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	TGCCTCACATA	.	4	BLCA
RELN	0	.	GRCh37	7	103155884	103155884	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7867G>A	p.Val2623Met	p.V2623M	ENST00000428762	50/65	84	76	8	53	53	0	RELN,missense_variant,p.Val2623Met,ENST00000424685,;RELN,missense_variant,p.Val2623Met,ENST00000428762,;RELN,missense_variant,p.Val2623Met,ENST00000343529,;CTB-107G13.1,downstream_gene_variant,,ENST00000422488,;	T	ENSG00000189056	ENST00000428762	Transcript	missense_variant	8027	7867	2623	V/M	Gtg/Atg	.	.	.	-1	RELN	HGNC	9957	protein_coding	YES	CCDS47680.1	ENSP00000392423	RELN_HUMAN	Q75MM8_HUMAN	UPI00001678BC	.	deleterious(0.01)	probably_damaging(0.994)	50/65	.	hmmpanther:PTHR11841,Superfamily_domains:SSF50939	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ATTCACAAATC	.	2	BLCA
RELN	0	.	GRCh37	7	103275933	103275933	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2404G>C	p.Asp802His	p.D802H	ENST00000428762	19/65	80	76	4	60	60	0	RELN,missense_variant,p.Asp802His,ENST00000424685,;RELN,missense_variant,p.Asp802His,ENST00000428762,;RELN,missense_variant,p.Asp802His,ENST00000343529,;	G	ENSG00000189056	ENST00000428762	Transcript	missense_variant	2564	2404	802	D/H	Gat/Cat	COSM1312552	.	.	-1	RELN	HGNC	9957	protein_coding	YES	CCDS47680.1	ENSP00000392423	RELN_HUMAN	Q75MM8_HUMAN	UPI00001678BC	.	deleterious(0.01)	probably_damaging(0.935)	19/65	.	hmmpanther:PTHR11841,Gene3D:2.120.10.10,Superfamily_domains:SSF50939	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTATCATAAG	.	2	BLCA
CPA1	0	.	GRCh37	7	130022031	130022031	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.464G>A	p.Arg155His	p.R155H	ENST00000011292	4/10	109	100	9	99	99	0	CPA1,missense_variant,p.Arg67His,ENST00000484324,;CPA1,missense_variant,p.Arg67His,ENST00000476062,;CPA1,missense_variant,p.Arg67His,ENST00000481342,;CPA1,missense_variant,p.Arg155His,ENST00000011292,;CPA1,intron_variant,,ENST00000604896,;CPA1,non_coding_transcript_exon_variant,,ENST00000491460,;CPA1,upstream_gene_variant,,ENST00000478096,;CPA1,upstream_gene_variant,,ENST00000479106,;CPA1,upstream_gene_variant,,ENST00000470838,;	A	ENSG00000091704	ENST00000011292	Transcript	missense_variant	614	464	155	R/H	cGt/cAt	COSM1312682	.	.	1	CPA1	HGNC	2296	protein_coding	YES	CCDS5820.1	ENSP00000011292	CBPA1_HUMAN	C9JUZ4_HUMAN,C9JUF9_HUMAN,C9JQ63_HUMAN	UPI000004D332	.	deleterious(0)	probably_damaging(0.984)	4/10	.	Prints_domain:PR00765,Superfamily_domains:SSF53187,SMART_domains:SM00631,Gene3D:3.40.630.10,Pfam_domain:PF00246,hmmpanther:PTHR11705:SF15,hmmpanther:PTHR11705	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	AGGGCGTCCCA	.	2	BLCA
SLC37A3	0	.	GRCh37	7	140058547	140058547	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414C>G	p.Phe138Leu	p.F138L	ENST00000326232	6/15	265	241	24	312	312	0	SLC37A3,missense_variant,p.Phe138Leu,ENST00000326232,;SLC37A3,missense_variant,p.Phe138Leu,ENST00000340308,;SLC37A3,missense_variant,p.Phe63Leu,ENST00000485861,;SLC37A3,missense_variant,p.Phe138Leu,ENST00000447932,;SLC37A3,intron_variant,,ENST00000469193,;SLC37A3,intron_variant,,ENST00000429996,;SLC37A3,non_coding_transcript_exon_variant,,ENST00000461089,;SLC37A3,non_coding_transcript_exon_variant,,ENST00000473707,;SLC37A3,missense_variant,p.Phe138Leu,ENST00000477571,;SLC37A3,missense_variant,p.Phe66Leu,ENST00000464834,;SLC37A3,missense_variant,p.Ser43Cys,ENST00000490760,;SLC37A3,missense_variant,p.Phe41Leu,ENST00000484416,;SLC37A3,non_coding_transcript_exon_variant,,ENST00000464865,;SLC37A3,intron_variant,,ENST00000460560,;	C	ENSG00000157800	ENST00000326232	Transcript	missense_variant	618	414	138	F/L	ttC/ttG	COSM1312747,COSM1312748	.	.	-1	SLC37A3	HGNC	20651	protein_coding	YES	CCDS5859.1	ENSP00000321498	SPX3_HUMAN	F8WF28_HUMAN	UPI0000141890	.	tolerated(0.1)	benign(0.026)	6/15	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11662:SF11,hmmpanther:PTHR11662,Gene3D:1.20.1250.20,Pfam_domain:PF07690,PIRSF_domain:PIRSF002808,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGTAGAAACG	.	3	BLCA
KRBA1	0	.	GRCh37	7	149422508	149422508	+	Missense_Mutation	SNP	C	C	T	rs767107569	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1229C>T	p.Ser410Phe	p.S410F	ENST00000255992	10/18	34	28	6	38	38	0	KRBA1,missense_variant,p.Ser410Phe,ENST00000485033,;KRBA1,missense_variant,p.Ser410Phe,ENST00000319551,;KRBA1,missense_variant,p.Ser410Phe,ENST00000255992,;KRBA1,downstream_gene_variant,,ENST00000497895,;KRBA1,downstream_gene_variant,,ENST00000467333,;KRBA1,non_coding_transcript_exon_variant,,ENST00000479560,;KRBA1,non_coding_transcript_exon_variant,,ENST00000466546,;KRBA1,missense_variant,p.Ser367Phe,ENST00000496259,;KRBA1,non_coding_transcript_exon_variant,,ENST00000496080,;KRBA1,upstream_gene_variant,,ENST00000489951,;	T	ENSG00000133619	ENST00000255992	Transcript	missense_variant	1628	1229	410	S/F	tCc/tTc	rs767107569,COSM1312825	.	.	1	KRBA1	HGNC	22228	protein_coding	YES	.	ENSP00000255992	.	C9J5U6_HUMAN,C4P1W5_HUMAN	UPI000049E0A4	.	tolerated(0.27)	probably_damaging(0.983)	10/18	.	Pfam_domain:PF15287,hmmpanther:PTHR22740	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTTCCCAGA	byFrequency	4	BLCA
FIGNL1	0	.	GRCh37	7	50513419	50513419	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1567G>A	p.Glu523Lys	p.E523K	ENST00000419119	2/2	143	114	28	203	203	0	FIGNL1,missense_variant,p.Glu523Lys,ENST00000433017,;FIGNL1,missense_variant,p.Glu523Lys,ENST00000419119,;FIGNL1,missense_variant,p.Glu523Lys,ENST00000356889,;FIGNL1,missense_variant,p.Glu523Lys,ENST00000395556,;FIGNL1,downstream_gene_variant,,ENST00000422854,;FIGNL1,downstream_gene_variant,,ENST00000420829,;FIGNL1,downstream_gene_variant,,ENST00000448788,;FIGNL1,downstream_gene_variant,,ENST00000440350,;FIGNL1,downstream_gene_variant,,ENST00000436590,;FIGNL1,downstream_gene_variant,,ENST00000435566,;	T	ENSG00000132436	ENST00000419119	Transcript	missense_variant	3121	1567	523	E/K	Gaa/Aaa	COSM190847,COSM1313161	.	.	-1	FIGNL1	HGNC	13286	protein_coding	YES	CCDS5510.1	ENSP00000410811	FIGL1_HUMAN	C9JTG6_HUMAN,C9JTB2_HUMAN,C9JP37_HUMAN,C9JKI6_HUMAN,C9JHJ4_HUMAN	UPI000013CE5D	.	deleterious(0)	probably_damaging(1)	2/2	.	hmmpanther:PTHR23074:SF75,hmmpanther:PTHR23074,Pfam_domain:PF00004,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAATTCTGTTT	.	4	BLCA
DAGLB	0	.	GRCh37	7	6456255	6456255	+	Intron	SNP	C	C	T	rs370046574	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1427+3G>A	.	.	ENST00000297056	.	161	147	14	266	266	0	DAGLB,stop_retained_variant,p.%3D,ENST00000421761,;DAGLB,splice_region_variant,,ENST00000425398,;DAGLB,splice_region_variant,,ENST00000297056,;DAGLB,splice_region_variant,,ENST00000436575,;DAGLB,intron_variant,,ENST00000428902,;DAGLB,splice_region_variant,,ENST00000497308,;DAGLB,splice_region_variant,,ENST00000482149,;DAGLB,splice_region_variant,,ENST00000462934,;DAGLB,3_prime_UTR_variant,,ENST00000454738,;	T	ENSG00000164535	ENST00000297056	Transcript	splice_region_variant	.	.	.	.	.	rs370046574	.	.	-1	DAGLB	HGNC	28923	protein_coding	YES	CCDS5350.1	ENSP00000297056	DGLB_HUMAN	E7ET49_HUMAN,B3KR38_HUMAN	UPI000006E01F	.	.	.	.	11/14	.	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	AGGCTCACCTC	byFrequency|byCluster	2	BLCA
TBL2	0	.	GRCh37	7	72988323	72988323	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391A>G	p.Arg131Gly	p.R131G	ENST00000305632	3/7	117	109	8	170	170	0	TBL2,missense_variant,p.Arg131Gly,ENST00000452475,;TBL2,missense_variant,p.Arg95Gly,ENST00000432538,;TBL2,missense_variant,p.Arg131Gly,ENST00000305632,;TBL2,non_coding_transcript_exon_variant,,ENST00000465279,;TBL2,non_coding_transcript_exon_variant,,ENST00000459913,;TBL2,non_coding_transcript_exon_variant,,ENST00000476136,;TBL2,non_coding_transcript_exon_variant,,ENST00000479892,;TBL2,downstream_gene_variant,,ENST00000468669,;TBL2,stop_lost,p.Ter108TrpextTer36,ENST00000433464,;TBL2,missense_variant,p.Arg131Gly,ENST00000450285,;TBL2,3_prime_UTR_variant,,ENST00000437521,;TBL2,3_prime_UTR_variant,,ENST00000435792,;TBL2,3_prime_UTR_variant,,ENST00000426966,;TBL2,3_prime_UTR_variant,,ENST00000424598,;TBL2,3_prime_UTR_variant,,ENST00000417008,;TBL2,3_prime_UTR_variant,,ENST00000452125,;TBL2,non_coding_transcript_exon_variant,,ENST00000496056,;TBL2,non_coding_transcript_exon_variant,,ENST00000469518,;TBL2,downstream_gene_variant,,ENST00000458466,;TBL2,upstream_gene_variant,,ENST00000495885,;TBL2,upstream_gene_variant,,ENST00000488915,;	C	ENSG00000106638	ENST00000305632	Transcript	missense_variant	633	391	131	R/G	Aga/Gga	COSM1313267	.	.	-1	TBL2	HGNC	11586	protein_coding	YES	CCDS5551.1	ENSP00000307260	TBL2_HUMAN	F2Z3G3_HUMAN,B4DY59_HUMAN	UPI0000048EF4	.	deleterious(0)	probably_damaging(0.986)	3/7	.	PROSITE_profiles:PS50294,hmmpanther:PTHR22847:SF380,hmmpanther:PTHR22847,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCTCTCATGC	.	2	BLCA
SLC25A40	0	.	GRCh37	7	87473129	87473129	+	Silent	SNP	T	T	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681A>G	p.%3D	p.K227K	ENST00000341119	9/12	33	20	13	39	39	0	SLC25A40,synonymous_variant,p.%3D,ENST00000341119,;SLC25A40,synonymous_variant,p.%3D,ENST00000446236,;SLC25A40,intron_variant,,ENST00000429674,;SLC25A40,upstream_gene_variant,,ENST00000470328,;SLC25A40,upstream_gene_variant,,ENST00000496348,;	C	ENSG00000075303	ENST00000341119	Transcript	synonymous_variant	1028	681	227	K	aaA/aaG	COSM1313366	.	.	-1	SLC25A40	HGNC	29680	protein_coding	YES	CCDS5610.1	ENSP00000344831	S2540_HUMAN	.	UPI0000071FF6	.	.	.	9/12	.	hmmpanther:PTHR24089:SF225,hmmpanther:PTHR24089,Pfam_domain:PF00153,Gene3D:1okcA00,Superfamily_domains:0048588	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGATTTCTC	.	5	BLCA
ADAM22	0	.	GRCh37	7	87825918	87825918	+	3'Flank	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000265727	.	13	10	3	10	10	0	ADAM22,3_prime_UTR_variant,,ENST00000398209,;ADAM22,3_prime_UTR_variant,,ENST00000426930,;ADAM22,3_prime_UTR_variant,,ENST00000315984,;ADAM22,3_prime_UTR_variant,,ENST00000398204,;ADAM22,downstream_gene_variant,,ENST00000413139,;ADAM22,downstream_gene_variant,,ENST00000265727,;	T	ENSG00000008277	ENST00000265727	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	21	1	ADAM22	HGNC	201	protein_coding	YES	CCDS47637.1	ENSP00000265727	ADA22_HUMAN	Q9UKK0_HUMAN,Q86UM2_HUMAN,Q75MS7_HUMAN,F8WAD8_HUMAN,D6W5P7_HUMAN	UPI00001254DC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGACCCTCTGA	.	2	BLCA
PON2	0	.	GRCh37	7	95041045	95041045	+	Silent	SNP	A	A	G	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414T>C	p.%3D	p.N138N	ENST00000222572	5/9	38	32	6	53	53	0	PON2,synonymous_variant,p.%3D,ENST00000222572,;PON2,synonymous_variant,p.%3D,ENST00000433091,;PON2,synonymous_variant,p.%3D,ENST00000536183,;GS1-293C5.1,upstream_gene_variant,,ENST00000608730,;PON2,non_coding_transcript_exon_variant,,ENST00000491069,;PON2,non_coding_transcript_exon_variant,,ENST00000490778,;PON2,non_coding_transcript_exon_variant,,ENST00000469926,;PON2,non_coding_transcript_exon_variant,,ENST00000493290,;PON2,upstream_gene_variant,,ENST00000483292,;PON2,downstream_gene_variant,,ENST00000478801,;PON2,downstream_gene_variant,,ENST00000460873,;PON2,synonymous_variant,p.%3D,ENST00000455123,;PON2,3_prime_UTR_variant,,ENST00000446142,;PON2,downstream_gene_variant,,ENST00000493469,;PON2,upstream_gene_variant,,ENST00000459842,;	G	ENSG00000105854	ENST00000222572	Transcript	synonymous_variant	661	414	138	N	aaT/aaC	COSM1313447	.	.	-1	PON2	HGNC	9205	protein_coding	YES	CCDS5640.1	ENSP00000222572	PON2_HUMAN	.	UPI000000D8F3	.	.	.	5/9	.	hmmpanther:PTHR11799:SF4,hmmpanther:PTHR11799,Gene3D:2.120.10.30,Superfamily_domains:SSF63829,Prints_domain:PR01785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTATTCTT	.	5	BLCA
SMURF1	0	.	GRCh37	7	98639810	98639810	+	Silent	SNP	G	G	A	rs367909690	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1380C>T	p.%3D	p.Y460Y	ENST00000361125	13/19	138	125	12	80	80	0	SMURF1,synonymous_variant,p.%3D,ENST00000361125,;SMURF1,synonymous_variant,p.%3D,ENST00000361368,;AC004893.11,intron_variant,,ENST00000468960,;AC004893.11,upstream_gene_variant,,ENST00000482799,;	A	ENSG00000198742	ENST00000361125	Transcript	synonymous_variant	1700	1380	460	Y	taC/taT	rs367909690,COSM1313472,COSM1744425	.	.	-1	SMURF1	HGNC	16807	protein_coding	YES	CCDS34690.1	ENSP00000354621	SMUF1_HUMAN	D6W5S0_HUMAN	UPI00000015C4	.	.	.	13/19	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF293,Pfam_domain:PF00632,PIRSF_domain:PIRSF001569,SMART_domains:SM00119,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	AGCCCGTAATA	byFrequency|byCluster	3	BLCA
RIMS2	0	.	GRCh37	8	105160951	105160951	+	Intron	SNP	C	C	T	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3335-96193C>T	.	.	ENST00000406091	.	21	17	4	64	64	0	RIMS2,missense_variant,p.Ser1077Phe,ENST00000408894,;RIMS2,missense_variant,p.Ser1088Phe,ENST00000436393,;RIMS2,intron_variant,,ENST00000406091,;RIMS2,intron_variant,,ENST00000507740,;RIMS2,intron_variant,,ENST00000262231,;	T	ENSG00000176406	ENST00000406091	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RIMS2	HGNC	17283	protein_coding	YES	CCDS55269.1	ENSP00000384892	RIMS2_HUMAN	E9PFB6_HUMAN	UPI0001597063	.	.	.	.	19/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CCAGTCTGACA	.	3	BLCA
XKR6	0	.	GRCh37	8	10755762	10755762	+	Silent	SNP	C	C	T	rs201850605	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1626G>A	p.%3D	p.T542T	ENST00000416569	3/3	46	38	8	55	55	0	XKR6,synonymous_variant,p.%3D,ENST00000304437,;XKR6,synonymous_variant,p.%3D,ENST00000416569,;XKR6,synonymous_variant,p.%3D,ENST00000382461,;	T	ENSG00000171044	ENST00000416569	Transcript	synonymous_variant	1653	1626	542	T	acG/acA	rs201850605,COSM1313595	.	.	-1	XKR6	HGNC	27806	protein_coding	YES	CCDS5978.2	ENSP00000416707	XKR6_HUMAN	.	UPI00004C7A9D	.	.	.	3/3	.	hmmpanther:PTHR32129:SF7,hmmpanther:PTHR32129	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GTGGGCGTAAC	byCluster	3	BLCA
SYBU	0	.	GRCh37	8	110592172	110592172	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.590C>A	p.Ser197Ter	p.S197*	ENST00000422135	6/8	158	138	20	193	193	0	SYBU,stop_gained,p.Ser197Ter,ENST00000422135,;SYBU,stop_gained,p.Ser197Ter,ENST00000433638,;SYBU,stop_gained,p.Ser129Ter,ENST00000532779,;SYBU,stop_gained,p.Ser67Ter,ENST00000529690,;SYBU,stop_gained,p.Ser197Ter,ENST00000440310,;SYBU,stop_gained,p.Ser196Ter,ENST00000529190,;SYBU,stop_gained,p.Ser78Ter,ENST00000533065,;SYBU,stop_gained,p.Ser196Ter,ENST00000446070,;SYBU,stop_gained,p.Ser202Ter,ENST00000424158,;SYBU,stop_gained,p.Ser78Ter,ENST00000528569,;SYBU,stop_gained,p.Ser197Ter,ENST00000408908,;SYBU,stop_gained,p.Ser78Ter,ENST00000528045,;SYBU,stop_gained,p.Ser78Ter,ENST00000528331,;SYBU,stop_gained,p.Ser78Ter,ENST00000408889,;SYBU,stop_gained,p.Ser34Ter,ENST00000533394,;SYBU,stop_gained,p.Ser196Ter,ENST00000419099,;SYBU,stop_gained,p.Ser196Ter,ENST00000528647,;SYBU,stop_gained,p.Ser197Ter,ENST00000533171,;SYBU,stop_gained,p.Ser194Ter,ENST00000399066,;SYBU,stop_gained,p.Ser197Ter,ENST00000276646,;SYBU,stop_gained,p.Ser78Ter,ENST00000532189,;SYBU,stop_gained,p.Ser196Ter,ENST00000533895,;SYBU,5_prime_UTR_variant,,ENST00000529175,;SYBU,non_coding_transcript_exon_variant,,ENST00000527664,;SYBU,non_coding_transcript_exon_variant,,ENST00000527707,;SYBU,3_prime_UTR_variant,,ENST00000532594,;SYBU,non_coding_transcript_exon_variant,,ENST00000528735,;	T	ENSG00000147642	ENST00000422135	Transcript	stop_gained	1106	590	197	S/*	tCa/tAa	COSM1313614	.	.	-1	SYBU	HGNC	26011	protein_coding	YES	CCDS47912.1	ENSP00000407118	SYBU_HUMAN	E9PRT7_HUMAN,E9PQG2_HUMAN,E9PPS4_HUMAN,E9PPC2_HUMAN,E9PN31_HUMAN,E9PLB9_HUMAN,E9PL50_HUMAN,E9PK96_HUMAN,E9PJ11_HUMAN,E9PI48_HUMAN,B3KRD1_HUMAN	UPI00000407AB	.	.	.	6/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16208,hmmpanther:PTHR16208:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GGGATGATGGG	.	3	BLCA
ENPP2	0	.	GRCh37	8	120577110	120577110	+	Silent	SNP	G	G	A	rs547371219	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2373C>T	p.%3D	p.F791F	ENST00000259486	24/26	46	40	5	52	52	0	ENPP2,synonymous_variant,p.%3D,ENST00000522167,;ENPP2,synonymous_variant,p.%3D,ENST00000259486,;ENPP2,synonymous_variant,p.%3D,ENST00000075322,;ENPP2,synonymous_variant,p.%3D,ENST00000427067,;ENPP2,synonymous_variant,p.%3D,ENST00000522826,;ENPP2,non_coding_transcript_exon_variant,,ENST00000523861,;	A	ENSG00000136960	ENST00000259486	Transcript	synonymous_variant	2423	2373	791	F	ttC/ttT	rs547371219,COSM1313669,COSM1313670	.	.	-1	ENPP2	HGNC	3357	protein_coding	YES	CCDS6329.1	ENSP00000259486	ENPP2_HUMAN	.	UPI000013C57A	.	.	.	24/26	.	Superfamily_domains:SSF54060,SMART_domains:SM00892,SMART_domains:SM00477,Pfam_domain:PF01223,Gene3D:1g8tA00,hmmpanther:PTHR10151,hmmpanther:PTHR10151:SF21	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TAGTCGAAGAT	by1000G	2	BLCA
ATAD2	0	.	GRCh37	8	124382178	124382178	+	Missense_Mutation	SNP	C	C	G	rs750961587	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.814G>C	p.Asp272His	p.D272H	ENST00000287394	7/28	28	23	5	51	51	0	ATAD2,missense_variant,p.Asp272His,ENST00000287394,;ATAD2,5_prime_UTR_variant,,ENST00000521903,;ATAD2,upstream_gene_variant,,ENST00000534257,;ATAD2,3_prime_UTR_variant,,ENST00000517666,;ATAD2,3_prime_UTR_variant,,ENST00000519124,;ATAD2,non_coding_transcript_exon_variant,,ENST00000521496,;ATAD2,downstream_gene_variant,,ENST00000530065,;	G	ENSG00000156802	ENST00000287394	Transcript	missense_variant	922	814	272	D/H	Gat/Cat	rs750961587,COSM1313692	.	.	-1	ATAD2	HGNC	30123	protein_coding	YES	CCDS6343.1	ENSP00000287394	ATAD2_HUMAN	.	UPI0000052A8C	.	deleterious(0.03)	benign(0.121)	7/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23069,hmmpanther:PTHR23069:SF1,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D275E|c.825T>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCATCAT	.	5	BLCA
DLC1	0	.	GRCh37	8	12947882	12947882	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3953C>T	p.Ser1318Leu	p.S1318L	ENST00000276297	15/18	83	72	11	108	108	0	DLC1,missense_variant,p.Ser881Leu,ENST00000358919,;DLC1,missense_variant,p.Ser807Leu,ENST00000520226,;DLC1,missense_variant,p.Ser915Leu,ENST00000512044,;DLC1,missense_variant,p.Ser1318Leu,ENST00000276297,;DLC1,non_coding_transcript_exon_variant,,ENST00000510318,;DLC1,downstream_gene_variant,,ENST00000513883,;DLC1,downstream_gene_variant,,ENST00000510250,;DLC1,upstream_gene_variant,,ENST00000521730,;	A	ENSG00000164741	ENST00000276297	Transcript	missense_variant	4363	3953	1318	S/L	tCa/tTa	COSM1313710	.	.	-1	DLC1	HGNC	2897	protein_coding	YES	CCDS5989.1	ENSP00000276297	RHG07_HUMAN	.	UPI0000210275	.	tolerated(0.28)	benign(0.002)	15/18	.	PROSITE_profiles:PS50848,hmmpanther:PTHR12659,hmmpanther:PTHR12659:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CAGCTGAGTCA	.	3	BLCA
TOR2A	0	.	GRCh37	9	130496823	130496823	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172C>T	p.Gln58Ter	p.Q58*	ENST00000373284	2/5	45	30	15	90	89	0	TOR2A,stop_gained,p.Gln58Ter,ENST00000336067,;TOR2A,stop_gained,p.Gln58Ter,ENST00000373281,;TOR2A,stop_gained,p.Gln58Ter,ENST00000373284,;TOR2A,intron_variant,,ENST00000458505,;SH2D3C,downstream_gene_variant,,ENST00000420366,;SH2D3C,downstream_gene_variant,,ENST00000373277,;SH2D3C,downstream_gene_variant,,ENST00000429553,;TTC16,downstream_gene_variant,,ENST00000373289,;SH2D3C,downstream_gene_variant,,ENST00000314830,;SH2D3C,downstream_gene_variant,,ENST00000373274,;SH2D3C,downstream_gene_variant,,ENST00000373276,;TOR2A,non_coding_transcript_exon_variant,,ENST00000472723,;TOR2A,intron_variant,,ENST00000463256,;TOR2A,intron_variant,,ENST00000496460,;TOR2A,intron_variant,,ENST00000493439,;TOR2A,intron_variant,,ENST00000463577,;TOR2A,upstream_gene_variant,,ENST00000494135,;TTC16,downstream_gene_variant,,ENST00000488285,;TTC16,downstream_gene_variant,,ENST00000489226,;	A	ENSG00000160404	ENST00000373284	Transcript	stop_gained	219	172	58	Q/*	Cag/Tag	COSM1314479,COSM1314478	.	.	-1	TOR2A	HGNC	11996	protein_coding	YES	CCDS43879.1	ENSP00000362381	TOR2A_HUMAN	.	UPI00004A3A6C	.	.	.	2/5	.	hmmpanther:PTHR10760:SF4,hmmpanther:PTHR10760,Pfam_domain:PF06309,Gene3D:3.40.50.300,PIRSF_domain:PIRSF038079,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTGAGCCA	.	5	BLCA
ASS1	0	.	GRCh37	9	133364826	133364826	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945G>C	p.Leu315Phe	p.L315F	ENST00000372394	13/16	255	233	22	350	350	0	ASS1,missense_variant,p.Leu315Phe,ENST00000372394,;ASS1,missense_variant,p.Leu315Phe,ENST00000352480,;ASS1,missense_variant,p.Leu72Phe,ENST00000372386,;ASS1,missense_variant,p.Leu315Phe,ENST00000372393,;ASS1,downstream_gene_variant,,ENST00000492400,;ASS1,downstream_gene_variant,,ENST00000493984,;ASS1,downstream_gene_variant,,ENST00000470849,;	C	ENSG00000130707	ENST00000372394	Transcript	missense_variant	1426	945	315	L/F	ttG/ttC	COSM1314566	.	.	1	ASS1	HGNC	758	protein_coding	YES	CCDS6933.1	ENSP00000361471	ASSY_HUMAN	Q8NFZ7_HUMAN,Q5T6L6_HUMAN,Q5T6L4_HUMAN	UPI00000015D6	.	tolerated(0.61)	benign(0.229)	13/16	.	HAMAP:MF_00005,hmmpanther:PTHR11587,hmmpanther:PTHR11587:SF1,Pfam_domain:PF00764,Gene3D:3.90.1260.10,TIGRFAM_domain:TIGR00032,Superfamily_domains:SSF69864	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGCTTGAAATT	.	3	BLCA
ATP8B5P	0	.	GRCh37	9	35450108	35450108	+	RNA	SNP	T	T	C	novel	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2958T>C	.	.	ENST00000430846	10/10	63	28	35	75	75	0	ATP8B5P,non_coding_transcript_exon_variant,,ENST00000439972,;ATP8B5P,non_coding_transcript_exon_variant,,ENST00000430846,;ATP8B5P,intron_variant,,ENST00000329395,;ZFAND6P1,non_coding_transcript_exon_variant,,ENST00000434138,;ATP8B5P,intron_variant,,ENST00000417941,;ATP8B5P,intron_variant,,ENST00000423138,;	C	ENSG00000179766	ENST00000430846	Transcript	non_coding_transcript_exon_variant	2958	.	.	.	.	.	.	.	1	ATP8B5P	HGNC	27245	processed_transcript	YES	.	.	.	.	.	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACATGGCAC	.	5	BLCA
IGSF1	0	.	GRCh37	X	130411013	130411013	+	Silent	SNP	G	G	T	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2523C>A	p.%3D	p.I841I	ENST00000370903	14/20	529	475	54	345	345	0	IGSF1,synonymous_variant,p.%3D,ENST00000361420,;IGSF1,synonymous_variant,p.%3D,ENST00000370904,;IGSF1,synonymous_variant,p.%3D,ENST00000370910,;IGSF1,synonymous_variant,p.%3D,ENST00000370903,;IGSF1,non_coding_transcript_exon_variant,,ENST00000467244,;IGSF1,downstream_gene_variant,,ENST00000469836,;	T	ENSG00000147255	ENST00000370903	Transcript	synonymous_variant	2806	2523	841	I	atC/atA	COSM1315218,COSM3913370	.	.	-1	IGSF1	HGNC	5948	protein_coding	YES	CCDS55491.1	ENSP00000359940	IGSF1_HUMAN	.	UPI0000E0C769	.	.	.	14/20	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11738,hmmpanther:PTHR11738:SF95,Gene3D:2.60.40.10,Pfam_domain:PF13895,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GAAATGATTAG	.	3	BLCA
FAM58A	0	.	GRCh37	X	152858023	152858023	+	Missense_Mutation	SNP	G	G	C	rs781848399	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592C>G	p.Leu198Val	p.L198V	ENST00000406277	6/7	42	35	7	92	92	0	FAM58A,missense_variant,p.Leu198Val,ENST00000406277,;FAM58A,missense_variant,p.Leu93Val,ENST00000440428,;FAM58A,intron_variant,,ENST00000429336,;FAM58A,downstream_gene_variant,,ENST00000482182,;FAM58A,non_coding_transcript_exon_variant,,ENST00000276345,;FAM58A,non_coding_transcript_exon_variant,,ENST00000370173,;FAM58A,non_coding_transcript_exon_variant,,ENST00000470284,;FAM58A,non_coding_transcript_exon_variant,,ENST00000370175,;FAM58A,non_coding_transcript_exon_variant,,ENST00000370171,;FAM58A,intron_variant,,ENST00000428722,;FAM58A,downstream_gene_variant,,ENST00000465867,;	C	ENSG00000147382	ENST00000406277	Transcript	missense_variant	695	592	198	L/V	Ctg/Gtg	rs781848399,COSM1315321,COSM1315322	.	.	-1	FAM58A	HGNC	28434	protein_coding	YES	.	ENSP00000384396	.	D3DWU4_HUMAN,K7EM37_HUMAN,J3QT30_HUMAN	UPI0001AE6FCF	.	tolerated(0.07)	possibly_damaging(0.787)	6/7	.	hmmpanther:PTHR10026,hmmpanther:PTHR10026:SF60,SMART_domains:SM00385,Superfamily_domains:SSF47954	A:0.0003	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCAGGGCCA	byCluster|by1000G	2	BLCA
EMD	0	.	GRCh37	X	153609241	153609241	+	Splice_Site	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450-1G>A	.	p.X150_splice	ENST00000369842	.	105	91	13	226	225	0	EMD,splice_acceptor_variant,,ENST00000369842,;EMD,splice_acceptor_variant,,ENST00000369835,;EMD,splice_acceptor_variant,,ENST00000492448,;EMD,splice_acceptor_variant,,ENST00000428228,;EMD,splice_acceptor_variant,,ENST00000471965,;EMD,non_coding_transcript_exon_variant,,ENST00000485261,;EMD,non_coding_transcript_exon_variant,,ENST00000486738,;EMD,non_coding_transcript_exon_variant,,ENST00000468294,;EMD,downstream_gene_variant,,ENST00000494443,;	A	ENSG00000102119	ENST00000369842	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1315354	.	.	1	EMD	HGNC	3331	protein_coding	YES	CCDS14745.1	ENSP00000358857	EMD_HUMAN	.	UPI0000129EA0	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCAGGGAAC	.	4	BLCA
KDM6A	0	.	GRCh37	X	44949018	44949018	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-DK-A2I2-01A-11D-A17V-08	TCGA-DK-A2I2-10A-01D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3579G>A	p.Trp1193Ter	p.W1193*	ENST00000377967	25/29	23	16	7	37	37	0	KDM6A,stop_gained,p.Trp836Ter,ENST00000433797,;KDM6A,stop_gained,p.Trp791Ter,ENST00000414389,;KDM6A,stop_gained,p.Trp1114Ter,ENST00000543216,;KDM6A,stop_gained,p.Trp1193Ter,ENST00000377967,;KDM6A,stop_gained,p.Trp1200Ter,ENST00000382899,;KDM6A,stop_gained,p.Trp1148Ter,ENST00000536777,;KDM6A,upstream_gene_variant,,ENST00000431196,;KDM6A,downstream_gene_variant,,ENST00000484732,;	A	ENSG00000147050	ENST00000377967	Transcript	stop_gained	3620	3579	1193	W/*	tgG/tgA	COSM1315519,COSM3694593,COSM3694594	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	25/29	.	PROSITE_profiles:PS51184,hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017,Pfam_domain:PF02373,SMART_domains:SM00558,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5,BUFFER|p.W1194*|c.3582G>A|4	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	TCTTGGTGGCC	.	4	BLCA
PKD2L1	0	.	GRCh37	10	102056830	102056830	+	Missense_Mutation	SNP	G	G	C	rs771224867	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1092C>G	p.Phe364Leu	p.F364L	ENST00000318222	6/16	65	57	8	54	54	0	PKD2L1,missense_variant,p.Phe364Leu,ENST00000318222,;PKD2L1,missense_variant,p.Phe364Leu,ENST00000353274,;PKD2L1,missense_variant,p.Phe289Leu,ENST00000338519,;PKD2L1,intron_variant,,ENST00000465680,;PKD2L1,3_prime_UTR_variant,,ENST00000528248,;PKD2L1,downstream_gene_variant,,ENST00000532547,;	C	ENSG00000107593	ENST00000318222	Transcript	missense_variant	1475	1092	364	F/L	ttC/ttG	rs771224867	.	.	-1	PKD2L1	HGNC	9011	protein_coding	YES	CCDS7492.1	ENSP00000325296	PK2L1_HUMAN	.	UPI0000130FED	.	tolerated(0.83)	benign(0.032)	6/16	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF105,Pfam_domain:PF08016,Superfamily_domains:SSF81324,Prints_domain:PR01433	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGTAGAAGAT	.	4	BLCA
SH3PXD2A	0	.	GRCh37	10	105561083	105561083	+	Missense_Mutation	SNP	G	G	A	rs748432001	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.110C>T	p.Ser37Phe	p.S37F	ENST00000355946	2/14	62	49	12	47	47	0	SH3PXD2A,missense_variant,p.Ser37Phe,ENST00000369774,;SH3PXD2A,missense_variant,p.Ser37Phe,ENST00000355946,;SH3PXD2A,upstream_gene_variant,,ENST00000420222,;	A	ENSG00000107957	ENST00000355946	Transcript	missense_variant	250	110	37	S/F	tCc/tTc	rs748432001,COSM3433890	.	.	-1	SH3PXD2A	HGNC	23664	protein_coding	YES	CCDS31278.1	ENSP00000348215	SPD2A_HUMAN	.	UPI000041B175	.	deleterious(0)	possibly_damaging(0.684)	2/14	.	PROSITE_profiles:PS50195,hmmpanther:PTHR15706,hmmpanther:PTHR15706:SF7,Gene3D:3.30.1520.10,Pfam_domain:PF00787,SMART_domains:SM00312,Superfamily_domains:SSF64268	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGGGAGGTG	.	5	BLCA
CELF2	0	.	GRCh37	10	11060001	11060001	+	5'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-52C>G	.	.	ENST00000450189	1/15	20	15	5	17	17	0	CELF2,5_prime_UTR_variant,,ENST00000450189,;CELF2,intron_variant,,ENST00000379261,;CELF2,intron_variant,,ENST00000416382,;CELF2,upstream_gene_variant,,ENST00000417956,;CELF2,upstream_gene_variant,,ENST00000399850,;CELF2,upstream_gene_variant,,ENST00000542579,;	G	ENSG00000048740	ENST00000450189	Transcript	5_prime_UTR_variant	109	.	.	.	.	.	.	.	1	CELF2	HGNC	2550	protein_coding	YES	CCDS44355.1	ENSP00000389951	.	E9PC62_HUMAN,B4DIB6_HUMAN	UPI0000F58F21	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCGCTCGGACG	.	3	BLCA
RAB11FIP2	0	.	GRCh37	10	119768467	119768467	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*42G>C	.	.	ENST00000355624	5/5	35	25	10	36	36	0	RAB11FIP2,3_prime_UTR_variant,,ENST00000355624,;RAB11FIP2,downstream_gene_variant,,ENST00000369199,;RAB11FIP2,intron_variant,,ENST00000476207,;	G	ENSG00000107560	ENST00000355624	Transcript	3_prime_UTR_variant	2021	.	.	.	.	.	.	.	-1	RAB11FIP2	HGNC	29152	protein_coding	YES	CCDS7602.1	ENSP00000347839	RFIP2_HUMAN	.	UPI0000073B4B	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTTCTCTCT	.	2	BLCA
UPF2	0	.	GRCh37	10	12077380	12077380	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43G>C	p.Asp15His	p.D15H	ENST00000356352	1/21	147	119	28	117	117	0	UPF2,missense_variant,p.Asp15His,ENST00000357604,;UPF2,missense_variant,p.Asp15His,ENST00000356352,;UPF2,missense_variant,p.Asp15His,ENST00000397053,;UPF2,non_coding_transcript_exon_variant,,ENST00000460569,;	G	ENSG00000151461	ENST00000356352	Transcript	missense_variant	517	43	15	D/H	Gac/Cac	COSM173580,COSM3934945	.	.	-1	UPF2	HGNC	17854	protein_coding	YES	CCDS7086.1	ENSP00000348708	RENT2_HUMAN	B4DHP3_HUMAN	UPI0000070D5E	.	deleterious_low_confidence(0)	unknown(0)	1/21	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCTTTTT	.	5	BLCA
DHTKD1	0	.	GRCh37	10	12110991	12110991	+	5'UTR	SNP	C	C	A	rs766759357	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-42C>A	.	.	ENST00000263035	1/17	24	20	4	13	13	0	DHTKD1,5_prime_UTR_variant,,ENST00000263035,;DHTKD1,upstream_gene_variant,,ENST00000437298,;	A	ENSG00000181192	ENST00000263035	Transcript	5_prime_UTR_variant	21	.	.	.	.	rs766759357	.	.	1	DHTKD1	HGNC	23537	protein_coding	YES	CCDS7087.1	ENSP00000263035	DHTK1_HUMAN	.	UPI000013D38C	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCCCTCGGGCT	byFrequency	2	BLCA
ATE1	0	.	GRCh37	10	123659496	123659496	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.814-1012G>A	.	.	ENST00000369043	.	78	64	14	83	83	0	ATE1,missense_variant,p.Arg273Lys,ENST00000423243,;ATE1,missense_variant,p.Arg276Lys,ENST00000224652,;ATE1,missense_variant,p.Arg161Lys,ENST00000543447,;ATE1,5_prime_UTR_variant,,ENST00000535655,;ATE1,intron_variant,,ENST00000369043,;ATE1,intron_variant,,ENST00000540606,;ATE1,intron_variant,,ENST00000369040,;ATE1,downstream_gene_variant,,ENST00000455628,;ATE1,intron_variant,,ENST00000481784,;	T	ENSG00000107669	ENST00000369043	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ATE1	HGNC	782	protein_coding	YES	CCDS31299.1	ENSP00000358039	ATE1_HUMAN	B4E107_HUMAN	UPI000002A471	.	.	.	.	6/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGATCTCACC	.	3	BLCA
PTPRE	0	.	GRCh37	10	129866424	129866424	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.881C>T	p.Ser294Leu	p.S294L	ENST00000254667	12/21	93	77	15	70	70	0	PTPRE,missense_variant,p.Ser294Leu,ENST00000419012,;PTPRE,missense_variant,p.Ser236Leu,ENST00000306042,;PTPRE,missense_variant,p.Ser294Leu,ENST00000254667,;PTPRE,3_prime_UTR_variant,,ENST00000430713,;PTPRE,missense_variant,p.Ser236Leu,ENST00000479896,;PTPRE,3_prime_UTR_variant,,ENST00000495530,;PTPRE,non_coding_transcript_exon_variant,,ENST00000492479,;PTPRE,upstream_gene_variant,,ENST00000463727,;	T	ENSG00000132334	ENST00000254667	Transcript	missense_variant	1160	881	294	S/L	tCa/tTa	.	.	.	1	PTPRE	HGNC	9669	protein_coding	YES	CCDS7657.1	ENSP00000254667	PTPRE_HUMAN	Q96P81_HUMAN,Q69YS2_HUMAN,Q5VWH6_HUMAN,Q5VWH5_HUMAN	UPI0000132991	.	tolerated(0.22)	benign(0.077)	12/21	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF49,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00404,PIRSF_domain:PIRSF002006,SMART_domains:SM00194,Superfamily_domains:SSF52799,Prints_domain:PR00700	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTCACAGC	.	4	BLCA
MKI67	0	.	GRCh37	10	129905047	129905047	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5057C>G	p.Ser1686Ter	p.S1686*	ENST00000368654	13/15	127	105	22	133	133	0	MKI67,stop_gained,p.Ser1686Ter,ENST00000368654,;MKI67,stop_gained,p.Ser1326Ter,ENST00000368653,;MKI67,upstream_gene_variant,,ENST00000464771,;MKI67,downstream_gene_variant,,ENST00000484853,;	C	ENSG00000148773	ENST00000368654	Transcript	stop_gained	5433	5057	1686	S/*	tCa/tGa	.	.	.	-1	MKI67	HGNC	7107	protein_coding	YES	CCDS7659.1	ENSP00000357643	KI67_HUMAN	.	UPI000013DB54	.	.	.	13/15	.	hmmpanther:PTHR21603,hmmpanther:PTHR21603:SF3,Pfam_domain:PF08065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGTCT	.	5	BLCA
OPTN	0	.	GRCh37	10	13151153	13151153	+	Missense_Mutation	SNP	G	G	A	rs184878637	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.31G>A	p.Glu11Lys	p.E11K	ENST00000378748	4/16	127	116	11	110	110	0	OPTN,missense_variant,p.Glu11Lys,ENST00000378748,;OPTN,missense_variant,p.Glu11Lys,ENST00000378764,;OPTN,missense_variant,p.Glu11Lys,ENST00000378757,;OPTN,missense_variant,p.Glu11Lys,ENST00000378752,;OPTN,missense_variant,p.Glu11Lys,ENST00000263036,;OPTN,missense_variant,p.Glu11Lys,ENST00000378747,;OPTN,5_prime_UTR_variant,,ENST00000430081,;OPTN,non_coding_transcript_exon_variant,,ENST00000482140,;OPTN,non_coding_transcript_exon_variant,,ENST00000487935,;OPTN,upstream_gene_variant,,ENST00000486862,;SNRPGP5,upstream_gene_variant,,ENST00000456003,;	A	ENSG00000123240	ENST00000378748	Transcript	missense_variant	393	31	11	E/K	Gaa/Aaa	rs184878637	.	.	1	OPTN	HGNC	17142	protein_coding	YES	CCDS7094.1	ENSP00000368022	OPTN_HUMAN	.	UPI000013D38D	.	tolerated(0.08)	benign(0.014)	4/16	.	hmmpanther:PTHR31553:SF2,hmmpanther:PTHR31553	A:0.0008	A:0.003	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	TCACTGAAAAG	byFrequency|byCluster|by1000G	3	BLCA
TUBGCP2	0	.	GRCh37	10	135101807	135101807	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1632C>G	p.Ile544Met	p.I544M	ENST00000543663	11/18	49	44	5	41	41	0	TUBGCP2,missense_variant,p.Ile516Met,ENST00000252936,;TUBGCP2,missense_variant,p.Ile109Met,ENST00000368562,;TUBGCP2,missense_variant,p.Ile386Met,ENST00000417178,;TUBGCP2,missense_variant,p.Ile516Met,ENST00000368563,;TUBGCP2,missense_variant,p.Ile544Met,ENST00000543663,;TUBGCP2,missense_variant,p.Ile516Met,ENST00000482278,;	C	ENSG00000130640	ENST00000543663	Transcript	missense_variant	1672	1632	544	I/M	atC/atG	.	.	.	-1	TUBGCP2	HGNC	18599	protein_coding	YES	CCDS58105.1	ENSP00000446093	GCP2_HUMAN	B3KTU7_HUMAN	UPI00020651C0	.	deleterious(0)	possibly_damaging(0.824)	11/18	.	hmmpanther:PTHR19302,hmmpanther:PTHR19302:SF13,Pfam_domain:PF04130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTTGATGGA	.	4	BLCA
ACBD7	0	.	GRCh37	10	15121001	15121001	+	Silent	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51G>C	p.%3D	p.L17L	ENST00000356189	2/4	124	98	26	144	144	0	ACBD7,synonymous_variant,p.%3D,ENST00000356189,;ACBD7,non_coding_transcript_exon_variant,,ENST00000496890,;DCLRE1CP1,non_coding_transcript_exon_variant,,ENST00000378211,;	G	ENSG00000176244	ENST00000356189	Transcript	synonymous_variant	99	51	17	L	ctG/ctC	COSM1297129	.	.	-1	ACBD7	HGNC	17715	protein_coding	YES	CCDS31153.1	ENSP00000367453	ACBD7_HUMAN	.	UPI000006F409	.	.	.	2/4	.	PROSITE_profiles:PS51228,hmmpanther:PTHR23310,hmmpanther:PTHR23310:SF51,Gene3D:1.20.80.10,Pfam_domain:PF00887,Superfamily_domains:SSF47027,Prints_domain:PR00689	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCAGCTT	.	5	BLCA
TRDMT1	0	.	GRCh37	10	17202364	17202364	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399G>C	p.Leu133Phe	p.L133F	ENST00000377799	6/11	19	16	3	14	14	0	TRDMT1,missense_variant,p.Asp41His,ENST00000436968,;TRDMT1,missense_variant,p.Leu52Phe,ENST00000457442,;TRDMT1,missense_variant,p.Asp62His,ENST00000377766,;TRDMT1,missense_variant,p.Leu66Phe,ENST00000313936,;TRDMT1,missense_variant,p.Leu133Phe,ENST00000377799,;TRDMT1,missense_variant,p.Leu109Phe,ENST00000412821,;TRDMT1,missense_variant,p.Leu91Phe,ENST00000525762,;TRDMT1,missense_variant,p.Leu87Phe,ENST00000351358,;TRDMT1,3_prime_UTR_variant,,ENST00000358282,;TRDMT1,intron_variant,,ENST00000488990,;TRDMT1,non_coding_transcript_exon_variant,,ENST00000452380,;TRDMT1,3_prime_UTR_variant,,ENST00000354631,;TRDMT1,3_prime_UTR_variant,,ENST00000424636,;TRDMT1,3_prime_UTR_variant,,ENST00000495022,;	G	ENSG00000107614	ENST00000377799	Transcript	missense_variant	447	399	133	L/F	ttG/ttC	.	.	.	-1	TRDMT1	HGNC	2977	protein_coding	YES	CCDS7114.1	ENSP00000367030	TRDMT_HUMAN	Q6ICS7_HUMAN	UPI0000129698	.	tolerated(0.07)	benign(0.432)	6/11	.	PROSITE_profiles:PS51679,hmmpanther:PTHR10629,Gene3D:3.40.50.150,Pfam_domain:PF00145,TIGRFAM_domain:TIGR00675,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGTATCAAGAG	.	3	BLCA
PLXDC2	0	.	GRCh37	10	20568701	20568701	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1543G>A	p.Glu515Lys	p.E515K	ENST00000377252	14/14	102	88	13	94	94	0	PLXDC2,missense_variant,p.Glu466Lys,ENST00000377242,;PLXDC2,missense_variant,p.Glu515Lys,ENST00000377252,;PLXDC2,non_coding_transcript_exon_variant,,ENST00000377238,;	A	ENSG00000120594	ENST00000377252	Transcript	missense_variant	2384	1543	515	E/K	Gaa/Aaa	.	.	.	1	PLXDC2	HGNC	21013	protein_coding	YES	CCDS7132.1	ENSP00000366460	PXDC2_HUMAN	.	UPI0000048F2C	.	deleterious(0)	probably_damaging(0.998)	14/14	.	hmmpanther:PTHR13055:SF11,hmmpanther:PTHR13055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTTGAACCA	.	4	BLCA
SVIL	0	.	GRCh37	10	29821774	29821774	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1522G>A	p.Glu508Lys	p.E508K	ENST00000375398	10/40	114	96	17	104	104	0	SVIL,missense_variant,p.Glu508Lys,ENST00000355867,;SVIL,missense_variant,p.Glu508Lys,ENST00000375398,;SVIL,intron_variant,,ENST00000375400,;	T	ENSG00000197321	ENST00000375398	Transcript	missense_variant	1972	1522	508	E/K	Gag/Aag	.	.	.	-1	SVIL	HGNC	11480	protein_coding	YES	CCDS7164.1	ENSP00000364547	SVIL_HUMAN	Q569J5_HUMAN	UPI0000366678	.	deleterious(0.04)	benign(0.009)	10/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAGTGG	.	4	BLCA
MTPAP	0	.	GRCh37	10	30629316	30629316	+	Missense_Mutation	SNP	G	G	T	rs753297953	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394C>A	p.His132Asn	p.H132N	ENST00000263063	3/9	117	98	19	88	87	1	MTPAP,missense_variant,p.His94Asn,ENST00000421701,;MTPAP,missense_variant,p.His67Asn,ENST00000417581,;MTPAP,missense_variant,p.His132Asn,ENST00000263063,;MTPAP,missense_variant,p.His262Asn,ENST00000358107,;MTPAP,non_coding_transcript_exon_variant,,ENST00000488290,;	T	ENSG00000107951	ENST00000263063	Transcript	missense_variant	438	394	132	H/N	Cat/Aat	rs753297953	.	.	-1	MTPAP	HGNC	25532	protein_coding	YES	CCDS7165.1	ENSP00000263063	PAPD1_HUMAN	Q5T852_HUMAN	UPI0000070081	.	tolerated(0.31)	benign(0.039)	3/9	.	hmmpanther:PTHR12271:SF33,hmmpanther:PTHR12271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTATGAGTCC	.	5	BLCA
C10ORF68	0	.	GRCh37	10	33000622	33000622	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454G>A	p.Glu152Lys	p.E152K	ENST00000302316	7/23	101	85	15	82	82	0	C10ORF68,missense_variant,p.Glu128Lys,ENST00000375028,;C10ORF68,missense_variant,p.Glu160Lys,ENST00000375030,;C10ORF68,missense_variant,p.Glu152Lys,ENST00000375025,;C10ORF68,missense_variant,p.Glu152Lys,ENST00000302316,;	A	ENSG00000150076	ENST00000302316	Transcript	missense_variant	927	454	152	E/K	Gag/Aag	.	.	.	1	C10ORF68	Uniprot_gn	.	nonsense_mediated_decay	YES	CCDS31177.1	ENSP00000303710	CJ068_HUMAN	.	UPI000049DCE8	.	tolerated(0.99)	possibly_damaging(0.771)	7/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Q150Q|c.450A>G|4	RADIA|MUTECT|MUSE|VARSCANS	AATTAGAGATT	.	4	BLCA
NRP1	0	.	GRCh37	10	33543003	33543003	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934G>A	p.Glu312Lys	p.E312K	ENST00000265371	7/18	139	124	15	115	115	0	NRP1,missense_variant,p.Glu131Lys,ENST00000374875,;NRP1,missense_variant,p.Glu312Lys,ENST00000374816,;NRP1,missense_variant,p.Glu312Lys,ENST00000374822,;NRP1,missense_variant,p.Glu113Lys,ENST00000455749,;NRP1,missense_variant,p.Glu312Lys,ENST00000432372,;NRP1,missense_variant,p.Glu312Lys,ENST00000374823,;NRP1,missense_variant,p.Glu312Lys,ENST00000374821,;NRP1,missense_variant,p.Glu312Lys,ENST00000395995,;NRP1,missense_variant,p.Glu312Lys,ENST00000265371,;NRP1,missense_variant,p.Glu312Lys,ENST00000374867,;	T	ENSG00000099250	ENST00000265371	Transcript	missense_variant	1460	934	312	E/K	Gag/Aag	.	.	.	-1	NRP1	HGNC	8004	protein_coding	YES	CCDS7177.1	ENSP00000265371	NRP1_HUMAN	Q9H2E0_HUMAN,Q9H2D9_HUMAN,Q9H2D8_HUMAN,Q9H2D7_HUMAN,Q7Z5M2_HUMAN	UPI000013D60A	.	tolerated(0.11)	probably_damaging(0.999)	7/18	.	PROSITE_profiles:PS50022,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF616,Gene3D:2.60.120.260,Pfam_domain:PF00754,PIRSF_domain:PIRSF036960,SMART_domains:SM00231,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCTCAGGGT	.	4	BLCA
CSGALNACT2	0	.	GRCh37	10	43650868	43650868	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>C	p.Glu91Gln	p.E91Q	ENST00000374466	2/8	56	47	9	61	61	0	CSGALNACT2,missense_variant,p.Glu91Gln,ENST00000374464,;CSGALNACT2,missense_variant,p.Glu91Gln,ENST00000374466,;	C	ENSG00000169826	ENST00000374466	Transcript	missense_variant	606	271	91	E/Q	Gag/Cag	.	.	.	1	CSGALNACT2	HGNC	24292	protein_coding	YES	CCDS7201.1	ENSP00000363590	CGAT2_HUMAN	.	UPI000000D725	.	tolerated(0.31)	possibly_damaging(0.85)	2/8	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF05679,hmmpanther:PTHR12369:SF19,hmmpanther:PTHR12369	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGTGAGAAG	.	5	BLCA
ZNF22	0	.	GRCh37	10	45499194	45499194	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378C>T	p.%3D	p.L126L	ENST00000298299	2/2	85	75	9	71	71	0	ZNF22,synonymous_variant,p.%3D,ENST00000298299,;C10orf25,upstream_gene_variant,,ENST00000298298,;CEP164P1,non_coding_transcript_exon_variant,,ENST00000456938,;	T	ENSG00000165512	ENST00000298299	Transcript	synonymous_variant	971	378	126	L	ctC/ctT	COSM427562	.	.	1	ZNF22	HGNC	13012	protein_coding	YES	CCDS7211.1	ENSP00000298299	ZNF22_HUMAN	.	UPI0000001C08	.	.	.	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24409,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATCTCATTCA	.	4	BLCA
RBP3	0	.	GRCh37	10	48388817	48388817	+	Silent	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2061A>T	p.%3D	p.T687T	ENST00000224600	1/4	76	63	13	53	53	0	RBP3,synonymous_variant,p.%3D,ENST00000224600,;AL731561.2,downstream_gene_variant,,ENST00000581861,;	A	ENSG00000107618	ENST00000224600	Transcript	synonymous_variant	2175	2061	687	T	acA/acT	.	.	.	-1	RBP3	HGNC	9921	protein_coding	YES	CCDS7218.1	ENSP00000224600	RET3_HUMAN	.	UPI000012D87A	.	.	.	1/4	.	hmmpanther:PTHR11261,hmmpanther:PTHR11261:SF1,Gene3D:3.30.750.44,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGCTGTGAG	.	5	BLCA
TUBAL3	0	.	GRCh37	10	5442874	5442874	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180C>G	p.Phe60Leu	p.F60L	ENST00000380419	2/4	163	139	24	126	126	0	TUBAL3,missense_variant,p.Phe20Leu,ENST00000479328,;TUBAL3,missense_variant,p.Phe60Leu,ENST00000380419,;	C	ENSG00000178462	ENST00000380419	Transcript	missense_variant	218	180	60	F/L	ttC/ttG	.	.	.	-1	TUBAL3	HGNC	23534	protein_coding	YES	CCDS7066.2	ENSP00000369784	TBAL3_HUMAN	.	UPI00000497AE	.	deleterious_low_confidence(0)	probably_damaging(0.997)	2/4	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF77,Pfam_domain:PF00091,Gene3D:3.40.50.1440,SMART_domains:SM00864,Superfamily_domains:SSF52490,Prints_domain:PR01161	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACAGAAGAA	.	4	BLCA
PCDH15	0	.	GRCh37	10	55568528	55568528	+	Missense_Mutation	SNP	G	G	A	rs775641445	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2084C>T	p.Ala695Val	p.A695V	ENST00000395440	12/12	24	19	5	32	32	0	PCDH15,missense_variant,p.Ala695Val,ENST00000395440,;PCDH15,missense_variant,p.Ala1761Val,ENST00000395445,;PCDH15,missense_variant,p.Ala626Val,ENST00000395442,;PCDH15,missense_variant,p.Ala957Val,ENST00000395446,;PCDH15,3_prime_UTR_variant,,ENST00000395438,;PCDH15,3_prime_UTR_variant,,ENST00000409834,;PCDH15,intron_variant,,ENST00000414778,;PCDH15,intron_variant,,ENST00000373965,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,3_prime_UTR_variant,,ENST00000414367,;PCDH15,intron_variant,,ENST00000476074,;	A	ENSG00000150275	ENST00000395440	Transcript	missense_variant	2479	2084	695	A/V	gCg/gTg	rs775641445	.	.	-1	PCDH15	HGNC	14674	protein_coding	.	.	ENSP00000378827	.	A2A3E5_HUMAN,A2A3D9_HUMAN	UPI0000EE0486	.	deleterious_low_confidence(0.01)	unknown(0)	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATACGCTGGT	byFrequency	4	BLCA
GDI2	0	.	GRCh37	10	5808201	5808201	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1191+3G>A	.	.	ENST00000380191	.	122	107	15	94	94	0	GDI2,splice_region_variant,,ENST00000380132,;GDI2,splice_region_variant,,ENST00000380191,;GDI2,splice_region_variant,,ENST00000380181,;GDI2,splice_region_variant,,ENST00000447751,;FAM208B,downstream_gene_variant,,ENST00000328090,;GDI2,splice_region_variant,,ENST00000479928,;FAM208B,downstream_gene_variant,,ENST00000459693,;FAM208B,downstream_gene_variant,,ENST00000487196,;	T	ENSG00000057608	ENST00000380191	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	GDI2	HGNC	4227	protein_coding	YES	CCDS7071.1	ENSP00000369538	GDIB_HUMAN	Q6IAT1_HUMAN,B3KVE3_HUMAN	UPI000012B39E	.	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	ATACTCACCTG	.	2	BLCA
ZWINT	0	.	GRCh37	10	58119876	58119876	+	Silent	SNP	G	G	C	rs775211602	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159C>G	p.%3D	p.L53L	ENST00000373944	3/9	82	63	19	56	56	0	ZWINT,synonymous_variant,p.%3D,ENST00000395405,;ZWINT,synonymous_variant,p.%3D,ENST00000373944,;ZWINT,synonymous_variant,p.%3D,ENST00000361148,;ZWINT,upstream_gene_variant,,ENST00000318387,;ZWINT,non_coding_transcript_exon_variant,,ENST00000478181,;ZWINT,intron_variant,,ENST00000467523,;ZWINT,upstream_gene_variant,,ENST00000460654,;ZWINT,3_prime_UTR_variant,,ENST00000489649,;ZWINT,non_coding_transcript_exon_variant,,ENST00000494312,;	C	ENSG00000122952	ENST00000373944	Transcript	synonymous_variant	198	159	53	L	ctC/ctG	rs775211602	.	.	-1	ZWINT	HGNC	13195	protein_coding	YES	CCDS7249.1	ENSP00000363055	ZWINT_HUMAN	A6NH27_HUMAN	UPI000013CB09	.	.	.	3/9	.	hmmpanther:PTHR31504:SF1,hmmpanther:PTHR31504,Pfam_domain:PF15556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGAGCAG	.	5	BLCA
RBM17	0	.	GRCh37	10	6152029	6152029	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643G>A	p.Glu215Lys	p.E215K	ENST00000446108	7/12	114	97	17	84	84	0	RBM17,missense_variant,p.Glu122Lys,ENST00000447032,;RBM17,missense_variant,p.Glu214Lys,ENST00000432931,;RBM17,missense_variant,p.Glu215Lys,ENST00000379888,;RBM17,missense_variant,p.Glu183Lys,ENST00000437845,;RBM17,missense_variant,p.Glu215Lys,ENST00000446108,;RBM17,downstream_gene_variant,,ENST00000418631,;RBM17,non_coding_transcript_exon_variant,,ENST00000481147,;RBM17,upstream_gene_variant,,ENST00000476706,;RBM17,upstream_gene_variant,,ENST00000496762,;RBM17,upstream_gene_variant,,ENST00000467080,;RBM17,downstream_gene_variant,,ENST00000467214,;RBM17,upstream_gene_variant,,ENST00000465906,;	A	ENSG00000134453	ENST00000446108	Transcript	missense_variant	1287	643	215	E/K	Gag/Aag	.	.	.	1	RBM17	HGNC	16944	protein_coding	YES	CCDS7077.1	ENSP00000388638	SPF45_HUMAN	Q5W011_HUMAN,Q5W009_HUMAN	UPI000000D96A	.	tolerated(0.06)	benign(0.046)	7/12	.	PIRSF_domain:PIRSF031066,hmmpanther:PTHR13288,hmmpanther:PTHR13288:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTACGAGGAA	.	4	BLCA
ANK3	0	.	GRCh37	10	61894090	61894090	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2780G>A	p.Arg927Lys	p.R927K	ENST00000280772	25/44	49	40	9	39	39	0	ANK3,missense_variant,p.Arg921Lys,ENST00000373827,;ANK3,missense_variant,p.Arg927Lys,ENST00000280772,;ANK3,missense_variant,p.Arg52Lys,ENST00000513049,;ANK3,missense_variant,p.Arg52Lys,ENST00000373815,;ANK3,missense_variant,p.Arg928Lys,ENST00000503366,;ANK3,missense_variant,p.Arg52Lys,ENST00000506635,;ANK3,missense_variant,p.Arg61Lys,ENST00000355288,;ANK3,downstream_gene_variant,,ENST00000474360,;ANK3,downstream_gene_variant,,ENST00000460468,;ANK3,downstream_gene_variant,,ENST00000486349,;	T	ENSG00000151150	ENST00000280772	Transcript	missense_variant	2972	2780	927	R/K	aGa/aAa	.	.	.	-1	ANK3	HGNC	494	protein_coding	YES	CCDS7258.1	ENSP00000280772	ANK3_HUMAN	D6RFK6_HUMAN,D6RBY7_HUMAN,B1AQT1_HUMAN	UPI0000141BA9	.	.	benign(0.118)	25/44	.	hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCTGTTC	.	5	BLCA
ANK3	0	.	GRCh37	10	61965585	61965585	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1258C>T	p.%3D	p.L420L	ENST00000280772	11/44	63	54	9	59	59	0	ANK3,synonymous_variant,p.%3D,ENST00000373827,;ANK3,synonymous_variant,p.%3D,ENST00000280772,;ANK3,synonymous_variant,p.%3D,ENST00000503366,;	A	ENSG00000151150	ENST00000280772	Transcript	synonymous_variant	1450	1258	420	L	Ctg/Ttg	.	.	.	-1	ANK3	HGNC	494	protein_coding	YES	CCDS7258.1	ENSP00000280772	ANK3_HUMAN	D6RFK6_HUMAN,D6RBY7_HUMAN,B1AQT1_HUMAN	UPI0000141BA9	.	.	.	11/44	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF15,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCAGAAGGA	.	4	BLCA
RHOBTB1	0	.	GRCh37	10	62648858	62648858	+	Missense_Mutation	SNP	C	C	G	rs753944672	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>C	p.Val190Leu	p.V190L	ENST00000337910	6/11	181	146	34	165	165	0	RHOBTB1,missense_variant,p.Val190Leu,ENST00000337910,;RHOBTB1,missense_variant,p.Val190Leu,ENST00000357917,;RHOBTB1,upstream_gene_variant,,ENST00000483488,;	G	ENSG00000072422	ENST00000337910	Transcript	missense_variant	906	568	190	V/L	Gtg/Ctg	rs753944672	.	.	-1	RHOBTB1	HGNC	18738	protein_coding	YES	CCDS7261.1	ENSP00000338671	RHBT1_HUMAN	Q567T3_HUMAN	UPI000000D9B7	.	deleterious(0.01)	probably_damaging(0.999)	6/11	.	PROSITE_profiles:PS51420,hmmpanther:PTHR24072,hmmpanther:PTHR24072:SF120,Pfam_domain:PF00071,Gene3D:3.40.50.300,SMART_domains:SM00174,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACACGCTTG	byFrequency	5	BLCA
CTNNA3	0	.	GRCh37	10	67748462	67748462	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2253G>C	p.Gln751His	p.Q751H	ENST00000433211	16/18	88	75	13	59	59	0	CTNNA3,missense_variant,p.Gln751His,ENST00000433211,;CTNNA3,missense_variant,p.Gln751His,ENST00000373744,;CTNNA3,non_coding_transcript_exon_variant,,ENST00000373735,;	G	ENSG00000183230	ENST00000433211	Transcript	missense_variant	2428	2253	751	Q/H	caG/caC	.	.	.	-1	CTNNA3	HGNC	2511	protein_coding	YES	CCDS7269.1	ENSP00000389714	CTNA3_HUMAN	Q5SW23_HUMAN,A6NKP0_HUMAN	UPI000004A0E6	.	deleterious(0.04)	unknown(0)	16/18	.	hmmpanther:PTHR18914:SF21,hmmpanther:PTHR18914,Pfam_domain:PF01044,Gene3D:1.20.120.230,Superfamily_domains:SSF47220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAATCTGCCG	.	4	BLCA
RUFY2	0	.	GRCh37	10	70105551	70105551	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1900C>T	p.Gln634Ter	p.Q634*	ENST00000388768	18/18	113	96	17	129	129	0	RUFY2,stop_gained,p.Gln189Ter,ENST00000265865,;RUFY2,stop_gained,p.Gln634Ter,ENST00000388768,;RUFY2,stop_gained,p.Gln599Ter,ENST00000602465,;RUFY2,intron_variant,,ENST00000463210,;HNRNPH3,downstream_gene_variant,,ENST00000354695,;HNRNPH3,downstream_gene_variant,,ENST00000441000,;HNRNPH3,downstream_gene_variant,,ENST00000265866,;RUFY2,non_coding_transcript_exon_variant,,ENST00000473398,;RUFY2,intron_variant,,ENST00000484083,;HNRNPH3,downstream_gene_variant,,ENST00000478698,;HNRNPH3,downstream_gene_variant,,ENST00000490442,;HNRNPH3,downstream_gene_variant,,ENST00000491200,;HNRNPH3,downstream_gene_variant,,ENST00000469172,;HNRNPH3,downstream_gene_variant,,ENST00000481819,;HNRNPH3,downstream_gene_variant,,ENST00000480987,;RUFY2,stop_gained,p.Gln613Ter,ENST00000466493,;RUFY2,non_coding_transcript_exon_variant,,ENST00000466187,;	A	ENSG00000204130	ENST00000388768	Transcript	stop_gained	2227	1900	634	Q/*	Cag/Tag	.	.	.	-1	RUFY2	HGNC	19761	protein_coding	YES	CCDS41534.1	ENSP00000373420	RUFY2_HUMAN	.	UPI000046FD20	.	.	.	18/18	.	hmmpanther:PTHR22835:SF104,hmmpanther:PTHR22835,Gene3D:3.30.40.10,SMART_domains:SM00064,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTCTGAATGA	.	3	BLCA
RUFY2	0	.	GRCh37	10	70105566	70105566	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1885C>T	p.His629Tyr	p.H629Y	ENST00000388768	18/18	126	110	16	124	124	0	RUFY2,missense_variant,p.His184Tyr,ENST00000265865,;RUFY2,missense_variant,p.His629Tyr,ENST00000388768,;RUFY2,missense_variant,p.His594Tyr,ENST00000602465,;RUFY2,intron_variant,,ENST00000463210,;HNRNPH3,downstream_gene_variant,,ENST00000354695,;HNRNPH3,downstream_gene_variant,,ENST00000441000,;HNRNPH3,downstream_gene_variant,,ENST00000265866,;RUFY2,non_coding_transcript_exon_variant,,ENST00000473398,;RUFY2,intron_variant,,ENST00000484083,;HNRNPH3,downstream_gene_variant,,ENST00000478698,;HNRNPH3,downstream_gene_variant,,ENST00000490442,;HNRNPH3,downstream_gene_variant,,ENST00000491200,;HNRNPH3,downstream_gene_variant,,ENST00000469172,;HNRNPH3,downstream_gene_variant,,ENST00000481819,;HNRNPH3,downstream_gene_variant,,ENST00000480987,;RUFY2,missense_variant,p.His608Tyr,ENST00000466493,;RUFY2,non_coding_transcript_exon_variant,,ENST00000466187,;	A	ENSG00000204130	ENST00000388768	Transcript	missense_variant	2212	1885	629	H/Y	Cat/Tat	.	.	.	-1	RUFY2	HGNC	19761	protein_coding	YES	CCDS41534.1	ENSP00000373420	RUFY2_HUMAN	.	UPI000046FD20	.	tolerated(0.24)	benign(0.074)	18/18	.	PROSITE_profiles:PS50178,hmmpanther:PTHR22835:SF104,hmmpanther:PTHR22835,Gene3D:3.30.40.10,Pfam_domain:PF01363,SMART_domains:SM00064,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCATGACAGG	.	3	BLCA
TET1	0	.	GRCh37	10	70451365	70451365	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6205G>C	p.Glu2069Gln	p.E2069Q	ENST00000373644	12/12	78	64	13	58	58	0	TET1,missense_variant,p.Glu2069Gln,ENST00000373644,;	C	ENSG00000138336	ENST00000373644	Transcript	missense_variant	6414	6205	2069	E/Q	Gag/Cag	.	.	.	1	TET1	HGNC	29484	protein_coding	YES	CCDS7281.1	ENSP00000362748	TET1_HUMAN	.	UPI000013D114	.	tolerated(0.06)	possibly_damaging(0.729)	12/12	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTGAGGCT	.	5	BLCA
TACR2	0	.	GRCh37	10	71166837	71166837	+	Intron	SNP	C	C	T	rs765603387	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.938+3G>A	.	.	ENST00000373306	.	129	103	26	113	113	0	TACR2,splice_region_variant,,ENST00000373306,;TACR2,splice_region_variant,,ENST00000373307,;	T	ENSG00000075073	ENST00000373306	Transcript	splice_region_variant	.	.	.	.	.	rs765603387	.	.	-1	TACR2	HGNC	11527	protein_coding	YES	CCDS7293.1	ENSP00000362403	NK2R_HUMAN	A6NEW7_HUMAN	UPI0000061EE3	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCACCTG	.	4	BLCA
SFMBT2	0	.	GRCh37	10	7327912	7327912	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441C>G	p.Ile147Met	p.I147M	ENST00000361972	5/21	174	145	28	123	123	0	SFMBT2,missense_variant,p.Ile147Met,ENST00000361972,;SFMBT2,missense_variant,p.Ile147Met,ENST00000397167,;SFMBT2,missense_variant,p.Ile147Met,ENST00000379713,;	C	ENSG00000198879	ENST00000361972	Transcript	missense_variant	532	441	147	I/M	atC/atG	.	.	.	-1	SFMBT2	HGNC	20256	protein_coding	YES	CCDS31138.1	ENSP00000355109	SMBT2_HUMAN	.	UPI00001C1EDF	.	deleterious(0)	probably_damaging(0.999)	5/21	.	hmmpanther:PTHR12247,hmmpanther:PTHR12247:SF62,Pfam_domain:PF02820,Gene3D:2.30.30.160,Superfamily_domains:SSF63748	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTGATTGC	.	4	BLCA
MCU	0	.	GRCh37	10	74644105	74644105	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.943G>C	p.Glu315Gln	p.E315Q	ENST00000373053	7/8	103	87	16	52	52	0	MCU,missense_variant,p.Glu266Gln,ENST00000536019,;MCU,missense_variant,p.Glu315Gln,ENST00000373053,;MCU,missense_variant,p.Glu294Gln,ENST00000357157,;MCU,non_coding_transcript_exon_variant,,ENST00000605416,;MCU,non_coding_transcript_exon_variant,,ENST00000603118,;MCU,3_prime_UTR_variant,,ENST00000605597,;	C	ENSG00000156026	ENST00000373053	Transcript	missense_variant	964	943	315	E/Q	Gag/Cag	.	.	.	1	MCU	HGNC	23526	protein_coding	YES	CCDS7317.1	ENSP00000362144	MCU_HUMAN	.	UPI000006F233	.	tolerated(0.08)	benign(0.06)	7/8	.	hmmpanther:PTHR13462,hmmpanther:PTHR13462:SF13,Pfam_domain:PF04678	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTAGAGAAA	.	4	BLCA
PPP3CB	0	.	GRCh37	10	75236954	75236954	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411+1303G>A	.	.	ENST00000394829	.	148	130	18	138	138	0	PPP3CB,missense_variant,p.Glu143Lys,ENST00000394822,;PPP3CB,intron_variant,,ENST00000342558,;PPP3CB,intron_variant,,ENST00000545874,;PPP3CB,intron_variant,,ENST00000394828,;PPP3CB,intron_variant,,ENST00000394829,;PPP3CB,intron_variant,,ENST00000360663,;	T	ENSG00000107758	ENST00000394829	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PPP3CB	HGNC	9315	protein_coding	YES	CCDS44437.1	ENSP00000378306	PP2BB_HUMAN	Q9UMB2_HUMAN	UPI000006E24B	.	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTCAGTGC	.	4	BLCA
AP3M1	0	.	GRCh37	10	75898117	75898117	+	Silent	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21C>A	p.%3D	p.L7L	ENST00000355264	2/9	112	91	20	89	89	0	AP3M1,synonymous_variant,p.%3D,ENST00000355264,;AP3M1,synonymous_variant,p.%3D,ENST00000372745,;AP3M1,non_coding_transcript_exon_variant,,ENST00000487653,;	T	ENSG00000185009	ENST00000355264	Transcript	synonymous_variant	333	21	7	L	ctC/ctA	.	.	.	-1	AP3M1	HGNC	569	protein_coding	YES	CCDS7342.1	ENSP00000347408	AP3M1_HUMAN	Q8NDP0_HUMAN	UPI00000012A0	.	.	.	2/9	.	hmmpanther:PTHR11998:SF23,hmmpanther:PTHR11998,Gene3D:3.30.450.60,Pfam_domain:PF01217,PIRSF_domain:PIRSF005992,Superfamily_domains:SSF64356	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTATGAGAAA	.	4	BLCA
ITIH5	0	.	GRCh37	10	7621728	7621728	+	Nonsense_Mutation	SNP	G	G	A	rs750184739	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1408C>T	p.Gln470Ter	p.Q470*	ENST00000256861	9/14	82	70	12	65	65	0	ITIH5,stop_gained,p.Gln470Ter,ENST00000397146,;ITIH5,stop_gained,p.Gln252Ter,ENST00000446830,;ITIH5,stop_gained,p.Gln256Ter,ENST00000298441,;ITIH5,stop_gained,p.Gln470Ter,ENST00000256861,;ITIH5,stop_gained,p.Gln470Ter,ENST00000397145,;ITIH5,non_coding_transcript_exon_variant,,ENST00000434980,;ITIH5,upstream_gene_variant,,ENST00000492668,;ITIH5,3_prime_UTR_variant,,ENST00000461751,;ITIH5,non_coding_transcript_exon_variant,,ENST00000476417,;ITIH5,upstream_gene_variant,,ENST00000468389,;	A	ENSG00000123243	ENST00000256861	Transcript	stop_gained	1487	1408	470	Q/*	Cag/Tag	rs750184739	.	.	-1	ITIH5	HGNC	21449	protein_coding	YES	.	ENSP00000256861	ITIH5_HUMAN	.	UPI00001F8AF3	.	.	.	9/14	.	PROSITE_profiles:PS50234,hmmpanther:PTHR10338:SF62,hmmpanther:PTHR10338,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTGCGAGC	byFrequency|byCluster	4	BLCA
CDHR1	0	.	GRCh37	10	85972124	85972124	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1743G>C	p.Gln581His	p.Q581H	ENST00000372117	15/17	123	95	27	113	113	0	CDHR1,missense_variant,p.Gln285His,ENST00000440770,;CDHR1,missense_variant,p.Gln581His,ENST00000372117,;CDHR1,missense_variant,p.Gln581His,ENST00000332904,;CDHR1,upstream_gene_variant,,ENST00000459673,;	C	ENSG00000148600	ENST00000372117	Transcript	missense_variant	1846	1743	581	Q/H	caG/caC	.	.	.	1	CDHR1	HGNC	14550	protein_coding	YES	CCDS7372.1	ENSP00000361189	CDHR1_HUMAN	F1T0L2_HUMAN	UPI0000161C2F	.	tolerated(0.52)	probably_damaging(0.961)	15/17	.	Superfamily_domains:SSF49313,Gene3D:2.60.40.60,hmmpanther:PTHR24027:SF2,hmmpanther:PTHR24027	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCAGAAGAA	.	5	BLCA
LARP4B	0	.	GRCh37	10	866764	866764	+	Silent	SNP	C	C	G	rs138617518	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1506G>C	p.%3D	p.R502R	ENST00000316157	13/17	94	81	12	88	88	0	LARP4B,synonymous_variant,p.%3D,ENST00000316157,;LARP4B,synonymous_variant,p.%3D,ENST00000448368,;LARP4B,upstream_gene_variant,,ENST00000440895,;LARP4B,non_coding_transcript_exon_variant,,ENST00000609318,;LARP4B,upstream_gene_variant,,ENST00000608970,;	G	ENSG00000107929	ENST00000316157	Transcript	synonymous_variant	1547	1506	502	R	cgG/cgC	rs138617518	.	.	-1	LARP4B	HGNC	28987	protein_coding	YES	CCDS31131.1	ENSP00000326128	LAR4B_HUMAN	B5MCU2_HUMAN	UPI00001F8C87	.	.	.	13/17	.	hmmpanther:PTHR22792,hmmpanther:PTHR22792:SF43	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCCGGTA	byCluster	5	BLCA
ACTA2	0	.	GRCh37	10	90698141	90698141	+	Intron	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.809-142C>G	.	.	ENST00000458208	.	15	11	4	12	12	0	ACTA2,intron_variant,,ENST00000224784,;STAMBPL1,intron_variant,,ENST00000371927,;ACTA2,intron_variant,,ENST00000458208,;ACTA2,downstream_gene_variant,,ENST00000415557,;ACTA2,downstream_gene_variant,,ENST00000458159,;ACTA2-AS1,non_coding_transcript_exon_variant,,ENST00000437930,;ACTA2-AS1,upstream_gene_variant,,ENST00000596007,;ACTA2,downstream_gene_variant,,ENST00000480297,;	C	ENSG00000107796	ENST00000458208	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ACTA2	HGNC	130	protein_coding	YES	CCDS7392.1	ENSP00000402373	ACTA_HUMAN	D2JYH4_HUMAN,Q562S2_HUMAN,F6UVQ4_HUMAN,F6QUT6_HUMAN,B4DUI8_HUMAN,B3KPP5_HUMAN	UPI0000000E0F	.	.	.	.	7/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGAGAGACA	.	5	BLCA
RPP30	0	.	GRCh37	10	92662989	92662989	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.939G>C	p.Gln313His	p.Q313H	ENST00000413330	13/14	69	56	13	50	50	0	RPP30,missense_variant,p.Gln313His,ENST00000413330,;RPP30,downstream_gene_variant,,ENST00000414836,;RPP30,downstream_gene_variant,,ENST00000371703,;RPP30,non_coding_transcript_exon_variant,,ENST00000489806,;RPP30,non_coding_transcript_exon_variant,,ENST00000470933,;RPP30,intron_variant,,ENST00000480406,;RPP30,downstream_gene_variant,,ENST00000479678,;RPP30,downstream_gene_variant,,ENST00000466462,;RPP30,downstream_gene_variant,,ENST00000487998,;	C	ENSG00000148688	ENST00000413330	Transcript	missense_variant	974	939	313	Q/H	caG/caC	.	.	.	1	RPP30	HGNC	17688	protein_coding	YES	CCDS44458.1	ENSP00000389182	RPP30_HUMAN	.	UPI00001F9394	.	deleterious_low_confidence(0)	possibly_damaging(0.522)	13/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCAGAGAGA	.	5	BLCA
PGR	0	.	GRCh37	11	100933355	100933355	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2035C>G	p.Gln679Glu	p.Q679E	ENST00000325455	4/8	220	190	30	169	169	0	PGR,missense_variant,p.Gln679Glu,ENST00000325455,;PGR,missense_variant,p.Gln85Glu,ENST00000534013,;PGR,intron_variant,,ENST00000263463,;PGR,missense_variant,p.Gln679Glu,ENST00000534780,;PGR,missense_variant,p.Gln640Glu,ENST00000528960,;PGR,non_coding_transcript_exon_variant,,ENST00000533207,;PGR,intron_variant,,ENST00000526300,;	C	ENSG00000082175	ENST00000325455	Transcript	missense_variant	3489	2035	679	Q/E	Caa/Gaa	.	.	.	-1	PGR	HGNC	8910	protein_coding	YES	CCDS8310.1	ENSP00000325120	PRGR_HUMAN	Q6TZ07_HUMAN	UPI0000046E22	.	tolerated(0.1)	possibly_damaging(0.713)	4/8	.	hmmpanther:PTHR24084:SF7,hmmpanther:PTHR24084,Gene3D:1.10.565.10,Superfamily_domains:SSF48508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTGACCTG	.	4	BLCA
BIRC2	0	.	GRCh37	11	102239153	102239153	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1240C>G	p.Gln414Glu	p.Q414E	ENST00000227758	6/9	142	116	26	88	88	0	BIRC2,missense_variant,p.Gln414Glu,ENST00000227758,;BIRC2,missense_variant,p.Gln393Glu,ENST00000532672,;BIRC2,missense_variant,p.Gln365Glu,ENST00000530675,;BIRC2,missense_variant,p.Gln76Glu,ENST00000533742,;BIRC2,intron_variant,,ENST00000531259,;BIRC2,non_coding_transcript_exon_variant,,ENST00000527910,;BIRC2,non_coding_transcript_exon_variant,,ENST00000534130,;BIRC2,downstream_gene_variant,,ENST00000528344,;	G	ENSG00000110330	ENST00000227758	Transcript	missense_variant	2639	1240	414	Q/E	Caa/Gaa	.	.	.	1	BIRC2	HGNC	590	protein_coding	YES	CCDS8316.1	ENSP00000227758	BIRC2_HUMAN	E9PNM6_HUMAN,E9PMH5_HUMAN,E9PIW1_HUMAN,E9PI77_HUMAN	UPI00000015E7	.	deleterious(0)	benign(0.403)	6/9	.	hmmpanther:PTHR10044:SF79,hmmpanther:PTHR10044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTCAAAGT	.	5	BLCA
DDI1	0	.	GRCh37	11	103907428	103907428	+	5'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-123G>C	.	.	ENST00000302259	1/1	20	16	4	13	13	0	DDI1,5_prime_UTR_variant,,ENST00000302259,;PDGFD,intron_variant,,ENST00000529268,;PDGFD,intron_variant,,ENST00000302251,;PDGFD,intron_variant,,ENST00000393158,;	C	ENSG00000170967	ENST00000302259	Transcript	5_prime_UTR_variant	121	.	.	.	.	.	.	.	1	DDI1	HGNC	18961	protein_coding	YES	CCDS31660.1	ENSP00000302805	DDI1_HUMAN	.	UPI0000047AEA	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAATGAGCCC	.	4	BLCA
CUL5	0	.	GRCh37	11	107965541	107965541	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1570G>A	p.Asp524Asn	p.D524N	ENST00000393094	15/19	77	65	12	74	74	0	CUL5,missense_variant,p.Asp524Asn,ENST00000393094,;CUL5,missense_variant,p.Asp524Asn,ENST00000531427,;	A	ENSG00000166266	ENST00000393094	Transcript	missense_variant	2186	1570	524	D/N	Gat/Aat	.	.	.	1	CUL5	HGNC	2556	protein_coding	YES	CCDS31668.1	ENSP00000376808	CUL5_HUMAN	L0L6D8_HUMAN,L0L6C1_HUMAN	UPI00001380B0	.	deleterious(0.01)	probably_damaging(0.951)	15/19	.	PROSITE_profiles:PS50069,hmmpanther:PTHR11932,hmmpanther:PTHR11932:SF65,Pfam_domain:PF00888,SMART_domains:SM00182,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCTGATTCA	.	5	BLCA
ARHGAP20	0	.	GRCh37	11	110451029	110451029	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2641G>C	p.Glu881Gln	p.E881Q	ENST00000260283	16/16	202	174	28	189	189	0	ARHGAP20,missense_variant,p.Glu881Gln,ENST00000260283,;ARHGAP20,missense_variant,p.Glu424Gln,ENST00000529591,;ARHGAP20,missense_variant,p.Glu845Gln,ENST00000527598,;ARHGAP20,missense_variant,p.Glu845Gln,ENST00000528829,;ARHGAP20,missense_variant,p.Glu855Gln,ENST00000357139,;ARHGAP20,missense_variant,p.Glu855Gln,ENST00000533353,;ARHGAP20,missense_variant,p.Glu858Gln,ENST00000524756,;	G	ENSG00000137727	ENST00000260283	Transcript	missense_variant	2926	2641	881	E/Q	Gag/Cag	.	.	.	-1	ARHGAP20	HGNC	18357	protein_coding	YES	CCDS31673.1	ENSP00000260283	RHG20_HUMAN	.	UPI000013D0BA	.	tolerated(0.14)	benign(0.064)	16/16	.	hmmpanther:PTHR23179,hmmpanther:PTHR23179:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCTCCAT	.	4	BLCA
SIK2	0	.	GRCh37	11	111573969	111573969	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.770C>G	p.Ser257Cys	p.S257C	ENST00000304987	7/15	84	69	15	56	56	0	SIK2,missense_variant,p.Ser257Cys,ENST00000304987,;	G	ENSG00000170145	ENST00000304987	Transcript	missense_variant	943	770	257	S/C	tCc/tGc	.	.	.	1	SIK2	HGNC	21680	protein_coding	YES	CCDS8347.1	ENSP00000305976	SIK2_HUMAN	.	UPI000006F406	.	deleterious(0.01)	possibly_damaging(0.802)	7/15	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343:SF145,hmmpanther:PTHR24343,Gene3D:1.10.510.10,Pfam_domain:PF00069,PIRSF_domain:PIRSF037014,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCCAAAC	.	5	BLCA
CADM1	0	.	GRCh37	11	115047241	115047241	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1282G>A	p.Glu428Lys	p.E428K	ENST00000452722	10/10	159	133	26	146	146	0	CADM1,missense_variant,p.Glu428Lys,ENST00000452722,;CADM1,missense_variant,p.Glu457Lys,ENST00000331581,;CADM1,missense_variant,p.Glu429Lys,ENST00000536727,;CADM1,missense_variant,p.Glu399Lys,ENST00000545380,;CADM1,missense_variant,p.Glu400Lys,ENST00000542447,;CADM1,missense_variant,p.Glu439Lys,ENST00000537058,;CADM1,non_coding_transcript_exon_variant,,ENST00000543375,;CADM1,intron_variant,,ENST00000545960,;CADM1,intron_variant,,ENST00000537140,;CADM1,non_coding_transcript_exon_variant,,ENST00000546000,;CADM1,non_coding_transcript_exon_variant,,ENST00000540852,;	T	ENSG00000182985	ENST00000452722	Transcript	missense_variant	1303	1282	428	E/K	Gaa/Aaa	.	.	.	-1	CADM1	HGNC	5951	protein_coding	YES	CCDS8373.1	ENSP00000395359	CADM1_HUMAN	Q6MZK6_HUMAN,F5H8J9_HUMAN,F5H0H5_HUMAN	UPI0000049C25	.	deleterious(0)	probably_damaging(0.954)	10/10	.	hmmpanther:PTHR23277,hmmpanther:PTHR23277:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGCAT	.	4	BLCA
APOA4	0	.	GRCh37	11	116691425	116691425	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*158C>G	.	.	ENST00000357780	3/3	17	13	4	10	10	0	APOA4,3_prime_UTR_variant,,ENST00000357780,;	C	ENSG00000110244	ENST00000357780	Transcript	3_prime_UTR_variant	1464	.	.	.	.	.	.	.	-1	APOA4	HGNC	602	protein_coding	YES	CCDS31681.1	ENSP00000350425	APOA4_HUMAN	.	UPI00001AE660	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGCTAGATTCT	.	4	BLCA
CEP164	0	.	GRCh37	11	117258004	117258004	+	Missense_Mutation	SNP	G	G	C	rs187622644	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1810G>C	p.Glu604Gln	p.E604Q	ENST00000278935	15/33	130	113	17	91	91	0	CEP164,missense_variant,p.Glu604Gln,ENST00000278935,;CEP164,non_coding_transcript_exon_variant,,ENST00000533706,;CEP164,non_coding_transcript_exon_variant,,ENST00000529153,;CEP164,non_coding_transcript_exon_variant,,ENST00000533223,;CEP164,non_coding_transcript_exon_variant,,ENST00000533675,;	C	ENSG00000110274	ENST00000278935	Transcript	missense_variant	1957	1810	604	E/Q	Gag/Cag	rs187622644	.	.	1	CEP164	HGNC	29182	protein_coding	YES	CCDS31683.1	ENSP00000278935	CE164_HUMAN	E9PR73_HUMAN,E9PLS8_HUMAN,E9PIM2_HUMAN,E9PI05_HUMAN	UPI00001FA422	.	deleterious(0.03)	probably_damaging(0.925)	15/33	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18902,hmmpanther:PTHR18902:SF8	A:0.0008	A:0	A:0	.	A:0.004	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACTCGAGCAA	byFrequency|byCluster|by1000G	4	BLCA
DSCAML1	0	.	GRCh37	11	117342738	117342738	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2979C>G	p.Phe993Leu	p.F993L	ENST00000321322	15/33	61	56	5	48	48	0	DSCAML1,missense_variant,p.Phe723Leu,ENST00000527706,;DSCAML1,missense_variant,p.Phe993Leu,ENST00000321322,;	C	ENSG00000177103	ENST00000321322	Transcript	missense_variant	2981	2979	993	F/L	ttC/ttG	COSM1250729	.	.	-1	DSCAML1	HGNC	14656	protein_coding	YES	CCDS8384.1	ENSP00000315465	DSCL1_HUMAN	.	UPI00000726E2	.	tolerated(0.42)	benign(0.005)	15/33	.	PROSITE_profiles:PS50853,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF171,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCTTGAAGTC	.	3	BLCA
TMPRSS13	0	.	GRCh37	11	117789424	117789424	+	Missense_Mutation	SNP	G	G	T	rs760435142	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151C>A	p.Pro51Thr	p.P51T	ENST00000524993	2/13	62	51	11	58	58	0	TMPRSS13,missense_variant,p.Pro51Thr,ENST00000526090,;TMPRSS13,missense_variant,p.Pro51Thr,ENST00000524993,;TMPRSS13,missense_variant,p.Pro51Thr,ENST00000430170,;TMPRSS13,missense_variant,p.Pro51Thr,ENST00000528626,;TMPRSS13,missense_variant,p.Pro51Thr,ENST00000445164,;TMPRSS13,non_coding_transcript_exon_variant,,ENST00000525794,;TMPRSS13,intron_variant,,ENST00000528135,;	T	ENSG00000137747	ENST00000524993	Transcript	missense_variant	209	151	51	P/T	Ccg/Acg	rs760435142	.	.	-1	TMPRSS13	HGNC	29808	protein_coding	YES	CCDS41721.1	ENSP00000434279	.	Q1RMF8_HUMAN,E9PRA0_HUMAN	UPI0000E5923F	.	deleterious_low_confidence(0.01)	possibly_damaging(0.803)	2/13	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF037935	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCGGAGGTG	byFrequency	4	BLCA
KMT2A	0	.	GRCh37	11	118344991	118344991	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3117G>C	p.Lys1039Asn	p.K1039N	ENST00000534358	3/36	66	55	10	53	53	0	KMT2A,missense_variant,p.Lys150Asn,ENST00000527869,;KMT2A,missense_variant,p.Lys1039Asn,ENST00000389506,;KMT2A,missense_variant,p.Lys117Asn,ENST00000533790,;KMT2A,missense_variant,p.Lys1039Asn,ENST00000354520,;KMT2A,missense_variant,p.Lys1039Asn,ENST00000534358,;KMT2A,missense_variant,p.Lys1072Asn,ENST00000531904,;	C	ENSG00000118058	ENST00000534358	Transcript	missense_variant	3140	3117	1039	K/N	aaG/aaC	.	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	probably_damaging(0.983)	3/36	.	hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAGTAA	.	5	BLCA
KMT2A	0	.	GRCh37	11	118377246	118377246	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10639C>T	p.Gln3547Ter	p.Q3547*	ENST00000534358	27/36	67	53	14	61	61	0	KMT2A,stop_gained,p.Gln3544Ter,ENST00000389506,;KMT2A,stop_gained,p.Gln3506Ter,ENST00000354520,;KMT2A,stop_gained,p.Gln3547Ter,ENST00000534358,;KMT2A,upstream_gene_variant,,ENST00000534085,;KMT2A,downstream_gene_variant,,ENST00000528278,;KMT2A,upstream_gene_variant,,ENST00000534678,;	T	ENSG00000118058	ENST00000534358	Transcript	stop_gained	10662	10639	3547	Q/*	Cag/Tag	.	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	.	27/36	.	hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTTCAGCTG	.	5	BLCA
DDX6	0	.	GRCh37	11	118625475	118625475	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1398G>C	p.Lys466Asn	p.K466N	ENST00000264018	13/14	115	95	20	98	98	0	DDX6,missense_variant,p.Lys466Asn,ENST00000526070,;DDX6,missense_variant,p.Lys466Asn,ENST00000264018,;DDX6,missense_variant,p.Lys466Asn,ENST00000534980,;AP002954.4,downstream_gene_variant,,ENST00000526274,;DDX6,non_coding_transcript_exon_variant,,ENST00000529162,;	G	ENSG00000110367	ENST00000264018	Transcript	missense_variant	1704	1398	466	K/N	aaG/aaC	.	.	.	-1	DDX6	HGNC	2747	protein_coding	YES	CCDS44751.1	ENSP00000264018	DDX6_HUMAN	B2R858_HUMAN	UPI000013D4A2	.	deleterious(0.01)	benign(0.081)	13/14	.	PROSITE_profiles:PS51194,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF214,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCTTATC	.	5	BLCA
RP11-196E1.3	0	.	GRCh37	11	119510591	119510591	+	RNA	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.900C>T	.	.	ENST00000532153	5/7	62	50	12	50	50	0	PVRL1,missense_variant,p.Glu379Lys,ENST00000341398,;RP11-196E1.3,non_coding_transcript_exon_variant,,ENST00000532153,;RP11-196E1.3,downstream_gene_variant,,ENST00000601999,;PVRL1,upstream_gene_variant,,ENST00000531468,;	T	ENSG00000254561	ENST00000532153	Transcript	non_coding_transcript_exon_variant	900	.	.	.	.	.	.	.	1	RP11-196E1.3	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	5/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCCGGTG	.	5	BLCA
USP47	0	.	GRCh37	11	11964413	11964413	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2641G>C	p.Asp881His	p.D881H	ENST00000339865	19/27	92	78	14	91	91	0	USP47,missense_variant,p.Asp969His,ENST00000399455,;USP47,missense_variant,p.Asp949His,ENST00000527733,;USP47,missense_variant,p.Asp881His,ENST00000339865,;USP47,5_prime_UTR_variant,,ENST00000539466,;USP47,upstream_gene_variant,,ENST00000530041,;USP47,non_coding_transcript_exon_variant,,ENST00000525078,;USP47,upstream_gene_variant,,ENST00000531513,;	C	ENSG00000170242	ENST00000339865	Transcript	missense_variant	3404	2641	881	D/H	Gat/Cat	.	.	.	1	USP47	HGNC	20076	protein_coding	YES	CCDS41619.1	ENSP00000339957	UBP47_HUMAN	.	UPI00001F9D69	.	deleterious(0.01)	probably_damaging(0.993)	19/27	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF98,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTGATACT	.	5	BLCA
TBCEL	0	.	GRCh37	11	120957546	120957546	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1016G>C	p.Arg339Thr	p.R339T	ENST00000422003	8/8	73	63	9	55	55	0	TBCEL,missense_variant,p.Arg106Thr,ENST00000533134,;TBCEL,missense_variant,p.Arg339Thr,ENST00000422003,;TBCEL,missense_variant,p.Arg339Thr,ENST00000529397,;TBCEL,3_prime_UTR_variant,,ENST00000531148,;TBCEL,3_prime_UTR_variant,,ENST00000284259,;TBCEL,3_prime_UTR_variant,,ENST00000533712,;TBCEL,non_coding_transcript_exon_variant,,ENST00000533169,;	C	ENSG00000154114	ENST00000422003	Transcript	missense_variant	1204	1016	339	R/T	aGa/aCa	.	.	.	1	TBCEL	HGNC	28115	protein_coding	YES	CCDS31692.1	ENSP00000403925	TBCEL_HUMAN	E9PNS0_HUMAN,E9PJJ0_HUMAN	UPI0000D62697	.	tolerated(0.43)	benign(0.033)	8/8	.	PROSITE_profiles:PS50053,hmmpanther:PTHR15140,hmmpanther:PTHR15140:SF10,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTAAGACCCC	.	4	BLCA
MIR125B1	0	.	GRCh37	11	121970541	121970541	+	RNA	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.12C>T	.	.	ENST00000385236	1/1	34	25	9	18	18	0	MIR125B1,non_coding_transcript_exon_variant,,ENST00000385236,;RP11-166D19.1,intron_variant,,ENST00000532890,;RP11-166D19.1,intron_variant,,ENST00000528986,;RP11-166D19.1,intron_variant,,ENST00000524376,;RP11-166D19.1,intron_variant,,ENST00000534297,;RP11-166D19.1,intron_variant,,ENST00000532315,;RP11-166D19.1,intron_variant,,ENST00000531381,;RP11-166D19.1,intron_variant,,ENST00000529823,;RP11-166D19.1,intron_variant,,ENST00000534195,;RP11-166D19.1,intron_variant,,ENST00000532319,;RP11-166D19.1,intron_variant,,ENST00000530955,;RP11-166D19.1,intron_variant,,ENST00000531071,;RP11-166D19.1,downstream_gene_variant,,ENST00000531629,;RP11-166D19.1,downstream_gene_variant,,ENST00000530072,;	A	ENSG00000207971	ENST00000385236	Transcript	non_coding_transcript_exon_variant	12	.	.	.	.	.	.	.	-1	MIR125B1	HGNC	31506	miRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTGAGAGG	.	5	BLCA
UBASH3B	0	.	GRCh37	11	122669698	122669698	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1406C>T	p.Ser469Phe	p.S469F	ENST00000284273	10/14	93	77	15	89	89	0	UBASH3B,missense_variant,p.Ser469Phe,ENST00000284273,;UBASH3B,downstream_gene_variant,,ENST00000530578,;UBASH3B,downstream_gene_variant,,ENST00000526493,;	T	ENSG00000154127	ENST00000284273	Transcript	missense_variant	1781	1406	469	S/F	tCc/tTc	.	.	.	1	UBASH3B	HGNC	29884	protein_coding	YES	CCDS31694.1	ENSP00000284273	UBS3B_HUMAN	.	UPI0000047471	.	deleterious(0)	probably_damaging(1)	10/14	.	Superfamily_domains:SSF53254,Pfam_domain:PF00300,Gene3D:3.40.50.1240,hmmpanther:PTHR16469,hmmpanther:PTHR16469:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTCCCCGT	.	5	BLCA
CHEK1	0	.	GRCh37	11	125513755	125513755	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883C>G	p.Gln295Glu	p.Q295E	ENST00000534070	9/13	89	71	18	71	71	0	CHEK1,missense_variant,p.Gln295Glu,ENST00000438015,;CHEK1,missense_variant,p.Gln295Glu,ENST00000544373,;CHEK1,missense_variant,p.Gln295Glu,ENST00000278916,;CHEK1,missense_variant,p.Gln311Glu,ENST00000427383,;CHEK1,missense_variant,p.Gln295Glu,ENST00000534070,;CHEK1,missense_variant,p.Gln295Glu,ENST00000428830,;CHEK1,missense_variant,p.Gln295Glu,ENST00000524737,;CHEK1,non_coding_transcript_exon_variant,,ENST00000532449,;CHEK1,non_coding_transcript_exon_variant,,ENST00000528761,;CHEK1,upstream_gene_variant,,ENST00000498122,;CHEK1,non_coding_transcript_exon_variant,,ENST00000528276,;	G	ENSG00000149554	ENST00000534070	Transcript	missense_variant	1138	883	295	Q/E	Caa/Gaa	.	.	.	1	CHEK1	HGNC	1925	protein_coding	YES	CCDS8459.1	ENSP00000435371	CHK1_HUMAN	Q6W8P8_HUMAN,E9PRU7_HUMAN,E9PQW7_HUMAN,E9PM65_HUMAN,E9PKQ3_HUMAN,E9PJI4_HUMAN	UPI000013DBA3	.	tolerated(1)	benign(0.007)	9/13	.	hmmpanther:PTHR24344	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCAATCC	.	5	BLCA
PUS3	0	.	GRCh37	11	125763587	125763587	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*93C>G	.	.	ENST00000227474	4/4	33	28	5	32	32	0	PUS3,3_prime_UTR_variant,,ENST00000227474,;PUS3,3_prime_UTR_variant,,ENST00000530811,;HYLS1,intron_variant,,ENST00000425380,;HYLS1,intron_variant,,ENST00000356438,;HYLS1,intron_variant,,ENST00000526028,;PUS3,downstream_gene_variant,,ENST00000529801,;PUS3,downstream_gene_variant,,ENST00000534158,;	C	ENSG00000110060	ENST00000227474	Transcript	3_prime_UTR_variant	1637	.	.	.	.	.	.	.	-1	PUS3	HGNC	25461	protein_coding	YES	CCDS8466.1	ENSP00000227474	PUS3_HUMAN	E9PRI9_HUMAN,E9PNY6_HUMAN	UPI0000071F9E	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATCTGAATTC	.	3	BLCA
ETS1	0	.	GRCh37	11	128360415	128360415	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271C>G	p.Gln91Glu	p.Q91E	ENST00000392668	4/10	116	95	20	96	96	0	ETS1,missense_variant,p.Gln47Glu,ENST00000531611,;ETS1,missense_variant,p.Gln91Glu,ENST00000392668,;ETS1,missense_variant,p.Gln47Glu,ENST00000319397,;ETS1,missense_variant,p.Gln19Glu,ENST00000608978,;ETS1,missense_variant,p.Gln47Glu,ENST00000526145,;ETS1,missense_variant,p.Gln47Glu,ENST00000345075,;ETS1,intron_variant,,ENST00000535549,;	C	ENSG00000134954	ENST00000392668	Transcript	missense_variant	356	271	91	Q/E	Caa/Gaa	.	.	.	-1	ETS1	HGNC	3488	protein_coding	YES	CCDS44767.1	ENSP00000376436	ETS1_HUMAN	.	UPI00001BDB62	.	deleterious(0.04)	possibly_damaging(0.875)	4/10	.	hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF46,Gene3D:1.10.150.50,PIRSF_domain:PIRSF001698,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTGAGACA	.	5	BLCA
CYP2R1	0	.	GRCh37	11	14899843	14899843	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1331G>A	p.Gly444Glu	p.G444E	ENST00000334636	5/5	58	45	13	36	36	0	CYP2R1,missense_variant,p.Gly211Glu,ENST00000532378,;CYP2R1,missense_variant,p.Gly444Glu,ENST00000334636,;CYP2R1,downstream_gene_variant,,ENST00000529043,;CYP2R1,downstream_gene_variant,,ENST00000526489,;CYP2R1,downstream_gene_variant,,ENST00000532641,;CYP2R1,downstream_gene_variant,,ENST00000526276,;CYP2R1,splice_region_variant,,ENST00000534686,;CYP2R1,splice_region_variant,,ENST00000530609,;CYP2R1,splice_region_variant,,ENST00000532805,;CYP2R1,splice_region_variant,,ENST00000525015,;	T	ENSG00000186104	ENST00000334636	Transcript	missense_variant	1378	1331	444	G/E	gGa/gAa	.	.	.	-1	CYP2R1	HGNC	20580	protein_coding	YES	CCDS7818.1	ENSP00000334592	CP2R1_HUMAN	.	UPI000003F04B	.	deleterious(0)	probably_damaging(1)	5/5	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF48,PROSITE_patterns:PS00086,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00463,Prints_domain:PR00385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTTCCTAAA	.	2	BLCA
SOX6	0	.	GRCh37	11	16007851	16007851	+	Silent	SNP	C	C	T	rs552585211	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2022G>A	p.%3D	p.P674P	ENST00000396356	15/16	196	169	27	169	169	0	SOX6,synonymous_variant,p.%3D,ENST00000527619,;SOX6,synonymous_variant,p.%3D,ENST00000528429,;SOX6,synonymous_variant,p.%3D,ENST00000528252,;SOX6,synonymous_variant,p.%3D,ENST00000352083,;SOX6,synonymous_variant,p.%3D,ENST00000396356,;SOX6,synonymous_variant,p.%3D,ENST00000316399,;SOX6,non_coding_transcript_exon_variant,,ENST00000527840,;	T	ENSG00000110693	ENST00000396356	Transcript	synonymous_variant	2100	2022	674	P	ccG/ccA	rs552585211	.	.	-1	SOX6	HGNC	16421	protein_coding	YES	CCDS7821.1	ENSP00000379644	SOX6_HUMAN	E9PQL4_HUMAN,E9PQ67_HUMAN,E9PN02_HUMAN	UPI00001F9DE4	.	.	.	15/16	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF47095,Gene3D:1.10.30.10,hmmpanther:PTHR10270,hmmpanther:PTHR10270:SF89	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R673*|c.2017C>T|3,BUFFER|p.R669*|c.2005C>T|3	RADIA|MUTECT|MUSE|VARSCANS	CGTTTCGGTCG	by1000G	4	BLCA
TSG101	0	.	GRCh37	11	18505487	18505487	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.773G>A	p.Arg258Gln	p.R258Q	ENST00000251968	8/10	362	342	19	241	241	0	TSG101,missense_variant,p.Arg258Gln,ENST00000536719,;TSG101,missense_variant,p.Arg258Gln,ENST00000251968,;TSG101,missense_variant,p.Arg153Gln,ENST00000357193,;LDHAL6A,downstream_gene_variant,,ENST00000396213,;LDHAL6A,downstream_gene_variant,,ENST00000280706,;TSG101,non_coding_transcript_exon_variant,,ENST00000543054,;TSG101,non_coding_transcript_exon_variant,,ENST00000540555,;TSG101,non_coding_transcript_exon_variant,,ENST00000545247,;TSG101,upstream_gene_variant,,ENST00000584526,;TSG101,upstream_gene_variant,,ENST00000580814,;	T	ENSG00000074319	ENST00000251968	Transcript	missense_variant	1189	773	258	R/Q	cGa/cAa	.	.	.	-1	TSG101	HGNC	15971	protein_coding	YES	CCDS7842.1	ENSP00000251968	TS101_HUMAN	L0L6B6_HUMAN,J3QRU6_HUMAN,D3DQY6_HUMAN	UPI000004750C	.	tolerated(0.07)	possibly_damaging(0.544)	8/10	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23306:SF17,hmmpanther:PTHR23306,SMART_domains:SM00212	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTTCGTTTC	.	2	BLCA
PTPN5	0	.	GRCh37	11	18751345	18751345	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1350C>T	p.%3D	p.G450G	ENST00000358540	13/15	82	73	9	74	74	0	PTPN5,synonymous_variant,p.%3D,ENST00000358540,;PTPN5,synonymous_variant,p.%3D,ENST00000396170,;PTPN5,synonymous_variant,p.%3D,ENST00000396166,;PTPN5,synonymous_variant,p.%3D,ENST00000396167,;PTPN5,synonymous_variant,p.%3D,ENST00000396171,;PTPN5,synonymous_variant,p.%3D,ENST00000396168,;PTPN5,synonymous_variant,p.%3D,ENST00000477854,;IGSF22,upstream_gene_variant,,ENST00000513874,;RP11-1081L13.4,intron_variant,,ENST00000527285,;IGSF22,upstream_gene_variant,,ENST00000412229,;IGSF22,upstream_gene_variant,,ENST00000319338,;IGSF22,upstream_gene_variant,,ENST00000504981,;	A	ENSG00000110786	ENST00000358540	Transcript	synonymous_variant	1781	1350	450	G	ggC/ggT	.	.	.	-1	PTPN5	HGNC	9657	protein_coding	YES	CCDS7845.1	ENSP00000351342	PTN5_HUMAN	Q86TL3_HUMAN,E9PLZ4_HUMAN,B7ZAF5_HUMAN	UPI00001AE663	.	.	.	13/15	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134:SF40,hmmpanther:PTHR19134,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00404,SMART_domains:SM00194,PIRSF_domain:PIRSF001997,Superfamily_domains:SSF52799,Prints_domain:PR00700	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCAGGCCTCG	.	4	BLCA
NAV2	0	.	GRCh37	11	20075648	20075648	+	Missense_Mutation	SNP	C	C	A	rs777712101	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4573C>A	p.Arg1525Ser	p.R1525S	ENST00000396087	19/41	40	33	7	26	26	0	NAV2,missense_variant,p.Arg1438Ser,ENST00000360655,;NAV2,missense_variant,p.Arg551Ser,ENST00000525322,;NAV2,missense_variant,p.Arg566Ser,ENST00000533917,;NAV2,missense_variant,p.Arg1454Ser,ENST00000527559,;NAV2,missense_variant,p.Arg1502Ser,ENST00000349880,;NAV2,missense_variant,p.Arg1525Ser,ENST00000396087,;NAV2,missense_variant,p.Arg1502Ser,ENST00000396085,;NAV2,missense_variant,p.Arg1456Ser,ENST00000540292,;NAV2,missense_variant,p.Arg566Ser,ENST00000311043,;NAV2-AS2,upstream_gene_variant,,ENST00000533767,;	A	ENSG00000166833	ENST00000396087	Transcript	missense_variant	4672	4573	1525	R/S	Cgc/Agc	rs777712101	.	.	1	NAV2	HGNC	15997	protein_coding	YES	CCDS58126.1	ENSP00000379396	NAV2_HUMAN	.	UPI00001E0580	.	tolerated(0.21)	probably_damaging(0.996)	19/41	.	hmmpanther:PTHR12784:SF6,hmmpanther:PTHR12784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTCGCACG	.	4	BLCA
NELL1	0	.	GRCh37	11	21135215	21135215	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1381G>C	p.Asp461His	p.D461H	ENST00000357134	13/20	160	132	28	121	121	0	NELL1,missense_variant,p.Asp404His,ENST00000325319,;NELL1,missense_variant,p.Asp461His,ENST00000357134,;NELL1,missense_variant,p.Asp489His,ENST00000298925,;NELL1,missense_variant,p.Asp461His,ENST00000532434,;NELL1,non_coding_transcript_exon_variant,,ENST00000530672,;	C	ENSG00000165973	ENST00000357134	Transcript	missense_variant	1533	1381	461	D/H	Gac/Cac	.	.	.	1	NELL1	HGNC	7750	protein_coding	YES	CCDS7855.1	ENSP00000349654	NELL1_HUMAN	K9UUD5_HUMAN	UPI000013E53D	.	tolerated(0.08)	probably_damaging(0.928)	13/20	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24042,hmmpanther:PTHR24042:SF2,PROSITE_patterns:PS00010,PROSITE_patterns:PS01186,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTGACTGT	.	5	BLCA
TRPM5	0	.	GRCh37	11	2426092	2426092	+	3'UTR	SNP	C	C	A	rs536895776	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*75G>T	.	.	ENST00000155858	24/24	37	30	7	26	26	0	TRPM5,3_prime_UTR_variant,,ENST00000533881,;TRPM5,3_prime_UTR_variant,,ENST00000452833,;TRPM5,3_prime_UTR_variant,,ENST00000155858,;TRPM5,downstream_gene_variant,,ENST00000533060,;TSSC4,downstream_gene_variant,,ENST00000451491,;TSSC4,downstream_gene_variant,,ENST00000496468,;TSSC4,downstream_gene_variant,,ENST00000437110,;TSSC4,downstream_gene_variant,,ENST00000380992,;TSSC4,downstream_gene_variant,,ENST00000435795,;TSSC4,downstream_gene_variant,,ENST00000485682,;TSSC4,downstream_gene_variant,,ENST00000440813,;TRPM5,downstream_gene_variant,,ENST00000528453,;TSSC4,downstream_gene_variant,,ENST00000380996,;TSSC4,downstream_gene_variant,,ENST00000333256,;AC124057.5,intron_variant,,ENST00000433035,;TSSC4,downstream_gene_variant,,ENST00000467308,;	A	ENSG00000070985	ENST00000155858	Transcript	3_prime_UTR_variant	3582	.	.	.	.	rs536895776	.	.	-1	TRPM5	HGNC	14323	protein_coding	YES	CCDS31340.1	ENSP00000155858	TRPM5_HUMAN	.	UPI000003B069	.	.	.	24/24	.	.	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGTCGGCAA	byCluster|by1000G	2	BLCA
LUZP2	0	.	GRCh37	11	24927548	24927548	+	Missense_Mutation	SNP	G	G	C	rs201285320	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.408G>C	p.Leu136Phe	p.L136F	ENST00000336930	6/12	67	60	7	67	67	0	LUZP2,missense_variant,p.Leu136Phe,ENST00000336930,;LUZP2,missense_variant,p.Leu50Phe,ENST00000533227,;LUZP2,intron_variant,,ENST00000529015,;	C	ENSG00000187398	ENST00000336930	Transcript	missense_variant	474	408	136	L/F	ttG/ttC	rs201285320	.	.	1	LUZP2	HGNC	23206	protein_coding	YES	CCDS31446.1	ENSP00000336817	LUZP2_HUMAN	.	UPI000019816C	.	deleterious(0)	probably_damaging(0.996)	6/12	.	Pfam_domain:PF15294,Coiled-coils_(Ncoils):Coil,Low_complexity_(Seg):seg,hmmpanther:PTHR22414	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCTTGAAAAA	byCluster|by1000G	3	BLCA
MUC15	0	.	GRCh37	11	26587440	26587440	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.47C>T	p.Ser16Phe	p.S16F	ENST00000436318	2/4	54	45	9	43	43	0	MUC15,missense_variant,p.Ser16Phe,ENST00000281268,;MUC15,missense_variant,p.Ser16Phe,ENST00000527569,;MUC15,missense_variant,p.Ser16Phe,ENST00000436318,;MUC15,missense_variant,p.Ser16Phe,ENST00000529533,;MUC15,5_prime_UTR_variant,,ENST00000455601,;ANO3,intron_variant,,ENST00000537978,;ANO3,intron_variant,,ENST00000531568,;ANO3,intron_variant,,ENST00000525139,;ANO3,intron_variant,,ENST00000256737,;ANO3,downstream_gene_variant,,ENST00000529242,;	A	ENSG00000169550	ENST00000436318	Transcript	missense_variant	181	47	16	S/F	tCc/tTc	.	.	.	-1	MUC15	HGNC	14956	protein_coding	YES	CCDS44557.1	ENSP00000416753	.	E9PII6_HUMAN	UPI0000D4B9CF	.	tolerated_low_confidence(0.06)	benign(0)	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAAGGAATCT	.	2	BLCA
BDNF	0	.	GRCh37	11	27680080	27680080	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278C>T	p.Ser93Leu	p.S93L	ENST00000438929	3/3	116	96	20	94	94	0	BDNF,missense_variant,p.Ser11Leu,ENST00000439476,;BDNF,missense_variant,p.Ser11Leu,ENST00000533131,;BDNF,missense_variant,p.Ser93Leu,ENST00000438929,;BDNF,missense_variant,p.Ser11Leu,ENST00000356660,;BDNF,missense_variant,p.Ser11Leu,ENST00000532997,;BDNF,missense_variant,p.Ser11Leu,ENST00000395981,;BDNF,missense_variant,p.Ser11Leu,ENST00000420794,;BDNF,missense_variant,p.Ser11Leu,ENST00000418212,;BDNF,missense_variant,p.Ser11Leu,ENST00000395983,;BDNF,missense_variant,p.Ser11Leu,ENST00000525528,;BDNF,missense_variant,p.Ser11Leu,ENST00000395980,;BDNF,missense_variant,p.Ser11Leu,ENST00000525950,;BDNF,missense_variant,p.Ser11Leu,ENST00000395978,;BDNF,missense_variant,p.Ser26Leu,ENST00000395986,;BDNF,missense_variant,p.Ser11Leu,ENST00000530861,;BDNF,missense_variant,p.Ser19Leu,ENST00000314915,;BDNF,missense_variant,p.Ser11Leu,ENST00000533246,;BDNF-AS,intron_variant,,ENST00000502161,;BDNF-AS,intron_variant,,ENST00000530313,;BDNF-AS,intron_variant,,ENST00000530686,;BDNF-AS,intron_variant,,ENST00000499008,;BDNF-AS,intron_variant,,ENST00000501176,;BDNF-AS,intron_variant,,ENST00000499568,;BDNF-AS,intron_variant,,ENST00000500662,;BDNF-AS,downstream_gene_variant,,ENST00000532965,;BDNF,non_coding_transcript_exon_variant,,ENST00000584049,;BDNF,3_prime_UTR_variant,,ENST00000530786,;	A	ENSG00000176697	ENST00000438929	Transcript	missense_variant	419	278	93	S/L	tCa/tTa	.	.	.	-1	BDNF	HGNC	1033	protein_coding	YES	CCDS44558.1	ENSP00000414303	BDNF_HUMAN	S5MI63_HUMAN,Q96TC2_HUMAN,Q969N8_HUMAN	UPI0001594492	.	tolerated(0.05)	possibly_damaging(0.765)	3/3	.	hmmpanther:PTHR11589,hmmpanther:PTHR11589:SF3,Prints_domain:PR01912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTATGAAATA	.	5	BLCA
RCN1	0	.	GRCh37	11	32118817	32118817	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382G>A	p.Asp128Asn	p.D128N	ENST00000054950	2/6	46	39	7	43	43	0	RCN1,missense_variant,p.Asp77Asn,ENST00000532942,;RCN1,missense_variant,p.Asp128Asn,ENST00000054950,;RCN1,5_prime_UTR_variant,,ENST00000530348,;RCN1,5_prime_UTR_variant,,ENST00000532721,;RP1-65P5.3,intron_variant,,ENST00000533009,;RCN1,upstream_gene_variant,,ENST00000532474,;RCN1,non_coding_transcript_exon_variant,,ENST00000533898,;RCN1,upstream_gene_variant,,ENST00000527337,;RCN1,upstream_gene_variant,,ENST00000531345,;	A	ENSG00000049449	ENST00000054950	Transcript	missense_variant	675	382	128	D/N	Gat/Aat	.	.	.	1	RCN1	HGNC	9934	protein_coding	YES	CCDS7876.1	ENSP00000054950	RCN1_HUMAN	Q5J7V8_HUMAN,H0YDA4_HUMAN,E9PP27_HUMAN,E9PLM2_HUMAN	UPI0000000CA7	.	tolerated(0.49)	benign(0.178)	2/6	.	PROSITE_profiles:PS50222,hmmpanther:PTHR10827,hmmpanther:PTHR10827:SF17,PROSITE_patterns:PS00018,Pfam_domain:PF13499,Gene3D:1.10.238.10,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATGATAGG	.	5	BLCA
EIF3M	0	.	GRCh37	11	32615485	32615485	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>C	p.Asp203His	p.D203H	ENST00000531120	6/11	91	80	11	54	54	0	EIF3M,missense_variant,p.Asp203His,ENST00000531120,;EIF3M,missense_variant,p.Asp44His,ENST00000526267,;EIF3M,missense_variant,p.Asp71His,ENST00000524896,;EIF3M,missense_variant,p.Asp140His,ENST00000323213,;EIF3M,downstream_gene_variant,,ENST00000533439,;EIF3M,missense_variant,p.Asp71His,ENST00000525782,;EIF3M,3_prime_UTR_variant,,ENST00000524711,;EIF3M,3_prime_UTR_variant,,ENST00000531921,;EIF3M,3_prime_UTR_variant,,ENST00000532444,;EIF3M,non_coding_transcript_exon_variant,,ENST00000530026,;EIF3M,non_coding_transcript_exon_variant,,ENST00000525054,;HNRNPA3P9,upstream_gene_variant,,ENST00000604913,;	C	ENSG00000149100	ENST00000531120	Transcript	missense_variant	670	607	203	D/H	Gat/Cat	.	.	.	1	EIF3M	HGNC	24460	protein_coding	YES	CCDS7880.1	ENSP00000436049	EIF3M_HUMAN	J3KNJ2_HUMAN,E9PN86_HUMAN	UPI0000070F8A	.	deleterious(0)	possibly_damaging(0.623)	6/11	.	HAMAP:MF_03012,hmmpanther:PTHR15350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGTTGATGCC	.	4	BLCA
KIAA1549L	0	.	GRCh37	11	33589665	33589665	+	Silent	SNP	G	G	A	rs776320585	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3231G>A	p.%3D	p.Q1077Q	ENST00000321505	8/20	25	18	7	23	23	0	KIAA1549L,synonymous_variant,p.%3D,ENST00000321505,;KIAA1549L,synonymous_variant,p.%3D,ENST00000526400,;KIAA1549L,synonymous_variant,p.%3D,ENST00000389726,;KIAA1549L,synonymous_variant,p.%3D,ENST00000265654,;	A	ENSG00000110427	ENST00000321505	Transcript	synonymous_variant	3411	3231	1077	Q	caG/caA	rs776320585	.	.	1	KIAA1549L	HGNC	24836	protein_coding	YES	CCDS44565.2	ENSP00000315295	K154L_HUMAN	.	UPI0000E59322	.	.	.	8/20	.	Pfam_domain:PF12877,hmmpanther:PTHR21590,hmmpanther:PTHR21590:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCAGAGCTT	.	5	BLCA
APIP	0	.	GRCh37	11	34912058	34912058	+	Missense_Mutation	SNP	C	C	T	rs201392083	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200G>A	p.Arg67Gln	p.R67Q	ENST00000395787	3/7	66	58	8	65	65	0	APIP,missense_variant,p.Arg67Gln,ENST00000395787,;APIP,missense_variant,p.Arg84Gln,ENST00000278359,;APIP,non_coding_transcript_exon_variant,,ENST00000527830,;APIP,missense_variant,p.Arg20Gln,ENST00000532428,;	T	ENSG00000149089	ENST00000395787	Transcript	missense_variant	415	200	67	R/Q	cGa/cAa	rs201392083	.	.	-1	APIP	HGNC	17581	protein_coding	YES	CCDS7895.1	ENSP00000379133	MTNB_HUMAN	.	UPI00000411D1	.	tolerated(0.07)	benign(0.064)	3/7	.	HAMAP:MF_03116,hmmpanther:PTHR10640,Gene3D:3.40.225.10,Pfam_domain:PF00596,TIGRFAM_domain:TIGR03328,SMART_domains:SM01007,Superfamily_domains:SSF53639	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	T:0.0011	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATTCGTTCC	byFrequency|byCluster|by1000G	4	BLCA
PAMR1	0	.	GRCh37	11	35457448	35457448	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1384+3G>C	.	.	ENST00000278360	.	68	53	15	35	35	0	PAMR1,splice_region_variant,,ENST00000532848,;PAMR1,splice_region_variant,,ENST00000378880,;PAMR1,splice_region_variant,,ENST00000527605,;PAMR1,splice_region_variant,,ENST00000378878,;PAMR1,splice_region_variant,,ENST00000278360,;PAMR1,splice_region_variant,,ENST00000531219,;	G	ENSG00000149090	ENST00000278360	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	PAMR1	HGNC	24554	protein_coding	YES	CCDS7898.1	ENSP00000278360	PAMR1_HUMAN	E9PQ70_HUMAN	UPI000013DB70	.	.	.	.	10/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCACTAG	.	4	BLCA
LDLRAD3	0	.	GRCh37	11	36250936	36250936	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1027G>C	p.Glu343Gln	p.E343Q	ENST00000315571	6/6	79	69	10	65	65	0	LDLRAD3,missense_variant,p.Glu343Gln,ENST00000315571,;LDLRAD3,missense_variant,p.Glu294Gln,ENST00000528989,;LDLRAD3,missense_variant,p.Glu333Gln,ENST00000524419,;LDLRAD3,downstream_gene_variant,,ENST00000529759,;LDLRAD3,downstream_gene_variant,,ENST00000532490,;LDLRAD3,downstream_gene_variant,,ENST00000534091,;	C	ENSG00000179241	ENST00000315571	Transcript	missense_variant	1048	1027	343	E/Q	Gaa/Caa	.	.	.	1	LDLRAD3	HGNC	27046	protein_coding	YES	CCDS31462.1	ENSP00000318607	LRAD3_HUMAN	.	UPI000003B0FB	.	deleterious_low_confidence(0.01)	benign(0.018)	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACTGAAGAA	.	4	BLCA
PGAP2	0	.	GRCh37	11	3838631	3838631	+	Missense_Mutation	SNP	G	G	A	rs138861663	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>A	p.Asp72Asn	p.D72N	ENST00000278243	3/7	99	80	18	77	77	0	PGAP2,missense_variant,p.Asp102Asn,ENST00000464906,;PGAP2,missense_variant,p.Asp72Asn,ENST00000396991,;PGAP2,missense_variant,p.Asp72Asn,ENST00000278243,;PGAP2,intron_variant,,ENST00000465307,;PGAP2,intron_variant,,ENST00000459679,;PGAP2,intron_variant,,ENST00000496834,;PGAP2,intron_variant,,ENST00000396986,;PGAP2,intron_variant,,ENST00000463452,;PGAP2,intron_variant,,ENST00000479072,;PGAP2,intron_variant,,ENST00000300730,;PGAP2,intron_variant,,ENST00000464261,;PGAP2,intron_variant,,ENST00000532523,;PGAP2,intron_variant,,ENST00000464441,;PGAP2,intron_variant,,ENST00000396993,;PGAP2,intron_variant,,ENST00000532535,;PGAP2,intron_variant,,ENST00000493547,;PGAP2,intron_variant,,ENST00000469307,;AC090587.2,non_coding_transcript_exon_variant,,ENST00000507938,;PGAP2,intron_variant,,ENST00000489571,;PGAP2,intron_variant,,ENST00000532017,;PGAP2,non_coding_transcript_exon_variant,,ENST00000529944,;PGAP2,intron_variant,,ENST00000495026,;PGAP2,intron_variant,,ENST00000485602,;PGAP2,intron_variant,,ENST00000487112,;PGAP2,intron_variant,,ENST00000465237,;PGAP2,intron_variant,,ENST00000525937,;PGAP2,intron_variant,,ENST00000478773,;PGAP2,intron_variant,,ENST00000524661,;PGAP2,intron_variant,,ENST00000475884,;PGAP2,intron_variant,,ENST00000483829,;PGAP2,intron_variant,,ENST00000464590,;PGAP2,intron_variant,,ENST00000528216,;PGAP2,intron_variant,,ENST00000492246,;PGAP2,intron_variant,,ENST00000490830,;PGAP2,intron_variant,,ENST00000464229,;PGAP2,intron_variant,,ENST00000477358,;PGAP2,intron_variant,,ENST00000534498,;	A	ENSG00000148985	ENST00000278243	Transcript	missense_variant	415	214	72	D/N	Gat/Aat	rs138861663,COSM348414	.	.	1	PGAP2	HGNC	17893	protein_coding	YES	CCDS7747.1	ENSP00000278243	PGAP2_HUMAN	E9PPF7_HUMAN	UPI000006E9EC	.	deleterious(0.02)	benign(0.142)	3/7	.	hmmpanther:PTHR12892:SF11,hmmpanther:PTHR12892	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCGATGGG	byCluster	5	BLCA
AMBRA1	0	.	GRCh37	11	46563643	46563643	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1654G>A	p.Glu552Lys	p.E552K	ENST00000314845	8/19	65	51	13	52	52	0	AMBRA1,missense_variant,p.Glu642Lys,ENST00000534300,;AMBRA1,missense_variant,p.Glu552Lys,ENST00000533727,;AMBRA1,missense_variant,p.Glu642Lys,ENST00000426438,;AMBRA1,missense_variant,p.Glu642Lys,ENST00000298834,;AMBRA1,missense_variant,p.Glu552Lys,ENST00000314845,;AMBRA1,missense_variant,p.Glu642Lys,ENST00000528950,;AMBRA1,missense_variant,p.Glu642Lys,ENST00000458649,;AMBRA1,downstream_gene_variant,,ENST00000524783,;AMBRA1,downstream_gene_variant,,ENST00000531542,;	T	ENSG00000110497	ENST00000314845	Transcript	missense_variant	2014	1654	552	E/K	Gag/Aag	.	.	.	-1	AMBRA1	HGNC	25990	protein_coding	YES	CCDS31475.1	ENSP00000318313	AMRA1_HUMAN	E9PL55_HUMAN	UPI0000237851	.	tolerated_low_confidence(0.06)	benign(0.302)	8/19	.	hmmpanther:PTHR22874:SF1,hmmpanther:PTHR22874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCCTGCG	.	5	BLCA
OR4S1	0	.	GRCh37	11	48327898	48327898	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124C>G	p.Leu42Val	p.L42V	ENST00000319988	1/1	160	138	21	149	149	0	OR4S1,missense_variant,p.Leu42Val,ENST00000319988,;	G	ENSG00000176555	ENST00000319988	Transcript	missense_variant	124	124	42	L/V	Ctg/Gtg	COSM333221	.	.	1	OR4S1	HGNC	14705	protein_coding	YES	CCDS31488.1	ENSP00000321447	OR4S1_HUMAN	.	UPI0000041B2E	.	deleterious(0.02)	benign(0.136)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF226,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCTGGTC	.	4	BLCA
OR4S1	0	.	GRCh37	11	48327995	48327995	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221C>G	p.Thr74Ser	p.T74S	ENST00000319988	1/1	115	105	10	107	107	0	OR4S1,missense_variant,p.Thr74Ser,ENST00000319988,;	G	ENSG00000176555	ENST00000319988	Transcript	missense_variant	221	221	74	T/S	aCt/aGt	.	.	.	1	OR4S1	HGNC	14705	protein_coding	YES	CCDS31488.1	ENSP00000321447	OR4S1_HUMAN	.	UPI0000041B2E	.	tolerated(0.3)	benign(0.01)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF226,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATCCACTACCA	.	3	BLCA
PTDSS2	0	.	GRCh37	11	489482	489482	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.937C>T	p.Arg313Cys	p.R313C	ENST00000308020	9/12	58	48	10	49	49	0	PTDSS2,missense_variant,p.Arg313Cys,ENST00000308020,;PTDSS2,downstream_gene_variant,,ENST00000532614,;PTDSS2,non_coding_transcript_exon_variant,,ENST00000527325,;PTDSS2,non_coding_transcript_exon_variant,,ENST00000526878,;PTDSS2,non_coding_transcript_exon_variant,,ENST00000531411,;PTDSS2,upstream_gene_variant,,ENST00000530029,;PTDSS2,downstream_gene_variant,,ENST00000531520,;	T	ENSG00000174915	ENST00000308020	Transcript	missense_variant	1113	937	313	R/C	Cgc/Tgc	COSM429104	.	.	1	PTDSS2	HGNC	15463	protein_coding	YES	CCDS7696.1	ENSP00000308258	PTSS2_HUMAN	E9PS47_HUMAN	UPI000004124C	.	deleterious(0)	probably_damaging(0.999)	9/12	.	hmmpanther:PTHR12615,hmmpanther:PTHR12615:SF0,Pfam_domain:PF03034	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGTCGCTGG	.	5	BLCA
OR51G2	0	.	GRCh37	11	4936549	4936549	+	Silent	SNP	G	G	A	rs775127617	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345C>T	p.%3D	p.L115L	ENST00000322013	1/1	40	35	5	32	32	0	OR51G2,synonymous_variant,p.%3D,ENST00000322013,;MMP26,intron_variant,,ENST00000380390,;MMP26,intron_variant,,ENST00000477339,;	A	ENSG00000176893	ENST00000322013	Transcript	synonymous_variant	374	345	115	L	ctC/ctT	rs775127617	.	.	-1	OR51G2	HGNC	15198	protein_coding	YES	CCDS31365.1	ENSP00000322593	O51G2_HUMAN	.	UPI0000041C2F	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26450,hmmpanther:PTHR26450:SF133,PROSITE_patterns:PS00237,Pfam_domain:PF10320,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTCGAGGAA	byFrequency	4	BLCA
OR51A4	0	.	GRCh37	11	4967560	4967560	+	Silent	SNP	G	G	A	rs750309930	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.771C>T	p.%3D	p.I257I	ENST00000380373	1/1	185	174	11	153	153	0	OR51A4,synonymous_variant,p.%3D,ENST00000380373,;MMP26,intron_variant,,ENST00000380390,;MMP26,intron_variant,,ENST00000477339,;	A	ENSG00000205497	ENST00000380373	Transcript	synonymous_variant	797	771	257	I	atC/atT	rs750309930	.	.	-1	OR51A4	HGNC	14795	protein_coding	YES	CCDS31367.1	ENSP00000369731	O51A4_HUMAN	.	UPI0000047195	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26450,hmmpanther:PTHR26450:SF61,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGTTGATGAT	.	2	BLCA
OR52E2	0	.	GRCh37	11	5080205	5080205	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.653C>G	p.Ser218Cys	p.S218C	ENST00000321522	1/1	69	55	14	68	68	0	OR52E2,missense_variant,p.Ser218Cys,ENST00000321522,;	C	ENSG00000176787	ENST00000321522	Transcript	missense_variant	653	653	218	S/C	tCt/tGt	.	.	.	-1	OR52E2	HGNC	14769	protein_coding	YES	CCDS31371.1	ENSP00000322088	O52E2_HUMAN	.	UPI0000046AE3	.	deleterious(0)	probably_damaging(1)	1/1	.	Transmembrane_helices:TMhelix,Prints_domain:PR00237,Superfamily_domains:SSF81321,Pfam_domain:PF13853,Gene3D:1.20.1070.10,hmmpanther:PTHR26450,hmmpanther:PTHR26450:SF118,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAAGAAAGG	.	5	BLCA
OR5AP2	0	.	GRCh37	11	56409376	56409376	+	Silent	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.540C>T	p.%3D	p.I180I	ENST00000302981	1/1	98	79	18	128	128	0	OR5AP2,synonymous_variant,p.%3D,ENST00000302981,;OR5AP2,synonymous_variant,p.%3D,ENST00000544374,;AP002517.1,downstream_gene_variant,,ENST00000584225,;	A	ENSG00000172464	ENST00000302981	Transcript	synonymous_variant	540	540	180	I	atC/atT	COSM72002	.	.	-1	OR5AP2	HGNC	15258	protein_coding	YES	CCDS31534.1	ENSP00000303111	O5AP2_HUMAN	.	UPI0000061EE6	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF151,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Y184H|c.550T>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTGATCCT	.	5	BLCA
OR5AP2	0	.	GRCh37	11	56409796	56409796	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120C>G	p.Ile40Met	p.I40M	ENST00000302981	1/1	114	97	17	107	107	0	OR5AP2,missense_variant,p.Ile40Met,ENST00000302981,;OR5AP2,missense_variant,p.Ile41Met,ENST00000544374,;AP002517.1,downstream_gene_variant,,ENST00000584225,;	C	ENSG00000172464	ENST00000302981	Transcript	missense_variant	120	120	40	I/M	atC/atG	.	.	.	-1	OR5AP2	HGNC	15258	protein_coding	YES	CCDS31534.1	ENSP00000303111	O5AP2_HUMAN	.	UPI0000061EE6	.	deleterious(0.04)	possibly_damaging(0.757)	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR26452:SF151,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATAGATCAA	.	5	BLCA
OR1S1	0	.	GRCh37	11	57982693	57982693	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.477C>T	p.%3D	p.V159V	ENST00000309433	1/1	214	178	35	171	171	0	OR1S1,synonymous_variant,p.%3D,ENST00000309433,;	T	ENSG00000172774	ENST00000309433	Transcript	synonymous_variant	477	477	159	V	gtC/gtT	.	.	.	1	OR1S1	HGNC	8227	protein_coding	YES	CCDS31546.1	ENSP00000311688	OR1S1_HUMAN	.	UPI0000041C51	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF180,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAGTCATCTC	.	4	BLCA
ZFP91	0	.	GRCh37	11	58384940	58384940	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1474C>T	p.Leu492Phe	p.L492F	ENST00000316059	11/11	85	65	19	67	67	0	ZFP91,missense_variant,p.Leu492Phe,ENST00000316059,;ZFP91-CNTF,missense_variant,p.Leu492Phe,ENST00000389919,;ZFP91-CNTF,missense_variant,p.Leu319Phe,ENST00000422974,;	T	ENSG00000186660	ENST00000316059	Transcript	missense_variant	1645	1474	492	L/F	Ctt/Ttt	.	.	.	1	ZFP91	HGNC	14983	protein_coding	YES	CCDS31553.1	ENSP00000339030	ZFP91_HUMAN	B4DIN6_HUMAN	UPI0000070D45	.	deleterious_low_confidence(0)	probably_damaging(0.972)	11/11	.	hmmpanther:PTHR11389:SF437,hmmpanther:PTHR11389,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGTCTTCCT	.	5	BLCA
GLYATL1	0	.	GRCh37	11	58723231	58723231	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733G>A	p.Glu245Lys	p.E245K	ENST00000300079	7/7	61	49	12	39	39	0	GLYATL1,missense_variant,p.Glu214Lys,ENST00000317391,;GLYATL1,missense_variant,p.Glu245Lys,ENST00000300079,;GLYATL1,downstream_gene_variant,,ENST00000532726,;GLYATL1,downstream_gene_variant,,ENST00000526351,;GLYATL1,downstream_gene_variant,,ENST00000525608,;RP11-142C4.6,intron_variant,,ENST00000533954,;RP11-142C4.6,downstream_gene_variant,,ENST00000525714,;GLYATL1,intron_variant,,ENST00000534063,;GLYATL1,downstream_gene_variant,,ENST00000533864,;GLYATL1,downstream_gene_variant,,ENST00000524403,;GLYATL1,3_prime_UTR_variant,,ENST00000527708,;GLYATL1,3_prime_UTR_variant,,ENST00000530240,;GLYATL1,non_coding_transcript_exon_variant,,ENST00000534119,;GLYATL1,downstream_gene_variant,,ENST00000524881,;GLYATL1,downstream_gene_variant,,ENST00000530774,;	A	ENSG00000166840	ENST00000300079	Transcript	missense_variant	783	733	245	E/K	Gag/Aag	.	.	.	1	GLYATL1	HGNC	30519	protein_coding	YES	CCDS31556.1	ENSP00000300079	GLYL1_HUMAN	E9PP99_HUMAN,E9PNJ8_HUMAN,E9PK55_HUMAN	UPI000006ED98	.	tolerated(0.07)	probably_damaging(0.976)	7/7	.	hmmpanther:PTHR15298,hmmpanther:PTHR15298:SF7,Gene3D:3.40.630.30,Pfam_domain:PF08444,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAGAGGGA	.	5	BLCA
DTX4	0	.	GRCh37	11	58956681	58956681	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044C>T	p.%3D	p.L348L	ENST00000227451	4/9	34	27	6	23	23	0	DTX4,synonymous_variant,p.%3D,ENST00000227451,;DTX4,synonymous_variant,p.%3D,ENST00000532982,;DTX4,non_coding_transcript_exon_variant,,ENST00000531902,;	T	ENSG00000110042	ENST00000227451	Transcript	synonymous_variant	1148	1044	348	L	ctC/ctT	.	.	.	1	DTX4	HGNC	29151	protein_coding	YES	CCDS44612.1	ENSP00000227451	DTX4_HUMAN	.	UPI00001C1F00	.	.	.	4/9	.	hmmpanther:PTHR12622:SF5,hmmpanther:PTHR12622	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCTCACCAG	.	4	BLCA
MS4A13	0	.	GRCh37	11	60310034	60310034	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>C	p.Glu149Gln	p.E149Q	ENST00000378186	7/7	57	52	5	43	43	0	MS4A13,missense_variant,p.Glu149Gln,ENST00000378186,;MS4A13,missense_variant,p.Glu109Gln,ENST00000378185,;MS4A13,missense_variant,p.Glu58Gln,ENST00000527948,;MS4A13,missense_variant,p.Glu90Gln,ENST00000437058,;	C	ENSG00000204979	ENST00000378186	Transcript	missense_variant	768	445	149	E/Q	Gag/Cag	.	.	.	1	MS4A13	HGNC	16674	protein_coding	YES	CCDS31571.1	ENSP00000367428	M4A13_HUMAN	.	UPI0000D6260E	.	deleterious_low_confidence(0.01)	benign(0.174)	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGCTGAGAGC	.	3	BLCA
CD5	0	.	GRCh37	11	60889221	60889221	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.944T>A	p.Val315Glu	p.V315E	ENST00000347785	6/11	56	41	14	31	31	0	CD5,missense_variant,p.Val315Glu,ENST00000347785,;CD5,downstream_gene_variant,,ENST00000544014,;	A	ENSG00000110448	ENST00000347785	Transcript	missense_variant	1110	944	315	V/E	gTg/gAg	.	.	.	1	CD5	HGNC	1685	protein_coding	YES	CCDS8000.1	ENSP00000342681	CD5_HUMAN	H6D9U9_HUMAN	UPI000013D472	.	deleterious(0)	probably_damaging(0.999)	6/11	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331:SF265,hmmpanther:PTHR19331,Pfam_domain:PF00530,Gene3D:3.10.250.10,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGGTGTGCC	.	5	BLCA
RPLP0P2	0	.	GRCh37	11	61404601	61404601	+	RNA	SNP	C	C	T	rs756516209	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1205C>T	.	.	ENST00000496593	5/5	50	46	4	32	32	0	RPLP0P2,non_coding_transcript_exon_variant,,ENST00000496593,;RPLP0P2,downstream_gene_variant,,ENST00000475561,;RPLP0P2,downstream_gene_variant,,ENST00000492786,;RPLP0P2,downstream_gene_variant,,ENST00000475331,;RPLP0P2,downstream_gene_variant,,ENST00000478959,;RPLP0P2,non_coding_transcript_exon_variant,,ENST00000490750,;	T	ENSG00000243742	ENST00000496593	Transcript	non_coding_transcript_exon_variant	1205	.	.	.	.	rs756516209	.	.	1	RPLP0P2	HGNC	17960	processed_transcript	YES	.	.	.	.	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGGGGCGCCAT	byFrequency	3	BLCA
DAGLA	0	.	GRCh37	11	61508640	61508640	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1990G>A	p.Glu664Lys	p.E664K	ENST00000257215	19/20	79	63	16	64	64	0	DAGLA,missense_variant,p.Glu664Lys,ENST00000257215,;DAGLA,3_prime_UTR_variant,,ENST00000540717,;	A	ENSG00000134780	ENST00000257215	Transcript	missense_variant	2106	1990	664	E/K	Gag/Aag	COSM4034634	.	.	1	DAGLA	HGNC	1165	protein_coding	YES	CCDS31578.1	ENSP00000257215	DGLA_HUMAN	.	UPI00001678B3	.	tolerated(0.07)	benign(0.067)	19/20	.	hmmpanther:PTHR21493,hmmpanther:PTHR21493:SF87	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGAGAAC	.	5	BLCA
AHNAK	0	.	GRCh37	11	62293287	62293287	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8602G>C	p.Glu2868Gln	p.E2868Q	ENST00000378024	5/5	324	273	51	318	318	0	AHNAK,missense_variant,p.Glu2868Gln,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;	G	ENSG00000124942	ENST00000378024	Transcript	missense_variant	8877	8602	2868	E/Q	Gaa/Caa	COSM1509231	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	benign(0.276)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTTCAGGAC	.	4	BLCA
AHNAK	0	.	GRCh37	11	62297007	62297007	+	Missense_Mutation	SNP	C	C	T	rs766962118	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4882G>A	p.Asp1628Asn	p.D1628N	ENST00000378024	5/5	234	205	29	181	181	0	AHNAK,missense_variant,p.Asp1628Asn,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,downstream_gene_variant,,ENST00000530285,;AHNAK,downstream_gene_variant,,ENST00000528508,;	T	ENSG00000124942	ENST00000378024	Transcript	missense_variant	5157	4882	1628	D/N	Gat/Aat	rs766962118	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	probably_damaging(0.954)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATATCAATAT	byFrequency	4	BLCA
AHNAK	0	.	GRCh37	11	62300842	62300842	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1047C>G	p.Ile349Met	p.I349M	ENST00000378024	5/5	82	71	11	74	74	0	AHNAK,missense_variant,p.Ile349Met,ENST00000378024,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,downstream_gene_variant,,ENST00000531324,;AHNAK,downstream_gene_variant,,ENST00000530285,;AHNAK,downstream_gene_variant,,ENST00000528508,;RP11-864I4.3,upstream_gene_variant,,ENST00000544108,;	C	ENSG00000124942	ENST00000378024	Transcript	missense_variant	1322	1047	349	I/M	atC/atG	COSM3450972	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	possibly_damaging(0.875)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTGGATAGT	.	5	BLCA
MTA2	0	.	GRCh37	11	62364862	62364862	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619C>G	p.Leu207Val	p.L207V	ENST00000278823	8/18	46	37	8	34	34	0	MTA2,missense_variant,p.Leu34Val,ENST00000524902,;MTA2,missense_variant,p.Leu34Val,ENST00000527204,;MTA2,missense_variant,p.Leu207Val,ENST00000278823,;EML3,downstream_gene_variant,,ENST00000278845,;EML3,downstream_gene_variant,,ENST00000494176,;EML3,downstream_gene_variant,,ENST00000394773,;EML3,downstream_gene_variant,,ENST00000529309,;EML3,downstream_gene_variant,,ENST00000394776,;EML3,downstream_gene_variant,,ENST00000531557,;EML3,downstream_gene_variant,,ENST00000439994,;MTA2,non_coding_transcript_exon_variant,,ENST00000531261,;MTA2,downstream_gene_variant,,ENST00000532239,;MTA2,downstream_gene_variant,,ENST00000526844,;EML3,downstream_gene_variant,,ENST00000494448,;MTA2,upstream_gene_variant,,ENST00000531179,;EML3,downstream_gene_variant,,ENST00000460939,;	C	ENSG00000149480	ENST00000278823	Transcript	missense_variant	1009	619	207	L/V	Cta/Gta	.	.	.	-1	MTA2	HGNC	7411	protein_coding	YES	CCDS8022.1	ENSP00000278823	MTA2_HUMAN	Q68DB1_HUMAN	UPI000012F743	.	deleterious(0.02)	benign(0.219)	8/18	.	hmmpanther:PTHR10865:SF4,hmmpanther:PTHR10865,PROSITE_profiles:PS51156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTAGGGCTC	.	5	BLCA
C11orf48	0	.	GRCh37	11	62437203	62437203	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223C>G	p.Leu75Val	p.L75V	ENST00000532208	3/7	108	99	9	94	94	0	C11orf48,missense_variant,p.Leu75Val,ENST00000354588,;C11orf48,missense_variant,p.Leu75Val,ENST00000532208,;C11orf48,missense_variant,p.Leu100Val,ENST00000377954,;C11orf48,missense_variant,p.Leu75Val,ENST00000526490,;C11orf48,missense_variant,p.Leu101Val,ENST00000431002,;C11orf48,5_prime_UTR_variant,,ENST00000528862,;C11orf48,5_prime_UTR_variant,,ENST00000415855,;C11orf48,intron_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000525675,;C11orf48,upstream_gene_variant,,ENST00000524958,;RP11-831H9.11,upstream_gene_variant,,ENST00000528405,;C11orf83,upstream_gene_variant,,ENST00000531323,;C11orf83,upstream_gene_variant,,ENST00000377953,;METTL12,downstream_gene_variant,,ENST00000532971,;SNORA57,downstream_gene_variant,,ENST00000383870,;METTL12,downstream_gene_variant,,ENST00000398922,;METTL12,downstream_gene_variant,,ENST00000594728,;C11orf48,non_coding_transcript_exon_variant,,ENST00000527679,;C11orf48,intron_variant,,ENST00000524759,;C11orf48,upstream_gene_variant,,ENST00000532786,;METTL12,downstream_gene_variant,,ENST00000529868,;	C	ENSG00000162194	ENST00000532208	Transcript	missense_variant	658	223	75	L/V	Ctc/Gtc	.	.	.	-1	C11orf48	HGNC	28351	protein_coding	YES	CCDS8028.1	ENSP00000436848	CK048_HUMAN	E9PL64_HUMAN	UPI00003520AA	.	deleterious_low_confidence(0.01)	benign(0.008)	3/7	.	Pfam_domain:PF15317,hmmpanther:PTHR14987,hmmpanther:PTHR14987:SF1,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGGAGATCCC	.	3	BLCA
C11orf48	0	.	GRCh37	11	62437529	62437529	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-26C>T	.	.	ENST00000532208	2/7	56	39	16	38	38	0	C11orf48,5_prime_UTR_variant,,ENST00000532208,;C11orf48,5_prime_UTR_variant,,ENST00000526490,;C11orf48,5_prime_UTR_variant,,ENST00000431002,;C11orf48,intron_variant,,ENST00000528862,;C11orf48,intron_variant,,ENST00000354588,;C11orf48,intron_variant,,ENST00000415855,;C11orf48,intron_variant,,ENST00000377954,;C11orf48,upstream_gene_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000525675,;C11orf48,upstream_gene_variant,,ENST00000524958,;RP11-831H9.11,upstream_gene_variant,,ENST00000528405,;C11orf83,upstream_gene_variant,,ENST00000531323,;C11orf83,upstream_gene_variant,,ENST00000377953,;METTL12,downstream_gene_variant,,ENST00000532971,;SNORA57,downstream_gene_variant,,ENST00000383870,;METTL12,downstream_gene_variant,,ENST00000398922,;METTL12,downstream_gene_variant,,ENST00000594728,;C11orf48,intron_variant,,ENST00000524759,;C11orf48,intron_variant,,ENST00000527679,;C11orf48,upstream_gene_variant,,ENST00000532786,;METTL12,downstream_gene_variant,,ENST00000529868,;	A	ENSG00000162194	ENST00000532208	Transcript	5_prime_UTR_variant	410	.	.	.	.	.	.	.	-1	C11orf48	HGNC	28351	protein_coding	YES	CCDS8028.1	ENSP00000436848	CK048_HUMAN	E9PL64_HUMAN	UPI00003520AA	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGATGATTGA	.	3	BLCA
C11orf48	0	.	GRCh37	11	62437540	62437540	+	5'UTR	SNP	G	G	A	rs766564325	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-37C>T	.	.	ENST00000532208	2/7	47	35	12	36	36	0	C11orf48,5_prime_UTR_variant,,ENST00000532208,;C11orf48,5_prime_UTR_variant,,ENST00000526490,;C11orf48,5_prime_UTR_variant,,ENST00000431002,;C11orf48,intron_variant,,ENST00000528862,;C11orf48,intron_variant,,ENST00000354588,;C11orf48,intron_variant,,ENST00000415855,;C11orf48,intron_variant,,ENST00000377954,;C11orf48,upstream_gene_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000525675,;C11orf48,upstream_gene_variant,,ENST00000524958,;RP11-831H9.11,upstream_gene_variant,,ENST00000528405,;C11orf83,upstream_gene_variant,,ENST00000531323,;C11orf83,upstream_gene_variant,,ENST00000377953,;METTL12,downstream_gene_variant,,ENST00000532971,;SNORA57,downstream_gene_variant,,ENST00000383870,;METTL12,downstream_gene_variant,,ENST00000398922,;METTL12,downstream_gene_variant,,ENST00000594728,;C11orf48,intron_variant,,ENST00000524759,;C11orf48,intron_variant,,ENST00000527679,;C11orf48,upstream_gene_variant,,ENST00000532786,;METTL12,downstream_gene_variant,,ENST00000529868,;	A	ENSG00000162194	ENST00000532208	Transcript	5_prime_UTR_variant	399	.	.	.	.	rs766564325	.	.	-1	C11orf48	HGNC	28351	protein_coding	YES	CCDS8028.1	ENSP00000436848	CK048_HUMAN	E9PL64_HUMAN	UPI00003520AA	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTCAGAGGAG	.	3	BLCA
C11orf48	0	.	GRCh37	11	62437545	62437545	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-42C>T	.	.	ENST00000532208	2/7	43	32	11	35	35	0	C11orf48,5_prime_UTR_variant,,ENST00000532208,;C11orf48,5_prime_UTR_variant,,ENST00000526490,;C11orf48,5_prime_UTR_variant,,ENST00000431002,;C11orf48,intron_variant,,ENST00000528862,;C11orf48,intron_variant,,ENST00000354588,;C11orf48,intron_variant,,ENST00000415855,;C11orf48,intron_variant,,ENST00000377954,;C11orf48,upstream_gene_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000525675,;C11orf48,upstream_gene_variant,,ENST00000524958,;RP11-831H9.11,upstream_gene_variant,,ENST00000528405,;C11orf83,upstream_gene_variant,,ENST00000531323,;C11orf83,upstream_gene_variant,,ENST00000377953,;METTL12,downstream_gene_variant,,ENST00000532971,;SNORA57,downstream_gene_variant,,ENST00000383870,;METTL12,downstream_gene_variant,,ENST00000398922,;METTL12,downstream_gene_variant,,ENST00000594728,;C11orf48,intron_variant,,ENST00000524759,;C11orf48,intron_variant,,ENST00000527679,;C11orf48,upstream_gene_variant,,ENST00000532786,;METTL12,downstream_gene_variant,,ENST00000529868,;	A	ENSG00000162194	ENST00000532208	Transcript	5_prime_UTR_variant	394	.	.	.	.	.	.	.	-1	C11orf48	HGNC	28351	protein_coding	YES	CCDS8028.1	ENSP00000436848	CK048_HUMAN	E9PL64_HUMAN	UPI00003520AA	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGGAGAGTAC	.	3	BLCA
C11orf83	0	.	GRCh37	11	62439220	62439220	+	Translation_Start_Site	SNP	G	G	A	rs781477334	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000531323	2/3	86	75	11	77	77	0	C11orf83,start_lost,p.Met1?,ENST00000531323,;C11orf83,start_lost,p.Met1?,ENST00000377953,;C11orf48,5_prime_UTR_variant,,ENST00000354588,;C11orf48,5_prime_UTR_variant,,ENST00000431002,;C11orf48,intron_variant,,ENST00000528862,;C11orf48,upstream_gene_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000532208,;UBXN1,downstream_gene_variant,,ENST00000301935,;UBXN1,downstream_gene_variant,,ENST00000294119,;UBXN1,downstream_gene_variant,,ENST00000534176,;C11orf48,upstream_gene_variant,,ENST00000415855,;UBXN1,downstream_gene_variant,,ENST00000533000,;METTL12,downstream_gene_variant,,ENST00000532971,;UBXN1,downstream_gene_variant,,ENST00000529640,;C11orf48,upstream_gene_variant,,ENST00000377954,;C11orf48,upstream_gene_variant,,ENST00000526490,;METTL12,downstream_gene_variant,,ENST00000398922,;C11orf48,non_coding_transcript_exon_variant,,ENST00000524759,;UBXN1,downstream_gene_variant,,ENST00000532904,;METTL12,downstream_gene_variant,,ENST00000529868,;UBXN1,downstream_gene_variant,,ENST00000525717,;C11orf48,upstream_gene_variant,,ENST00000527679,;UBXN1,downstream_gene_variant,,ENST00000533476,;	A	ENSG00000204922	ENST00000531323	Transcript	start_lost	546	3	1	M/I	atG/atA	rs781477334	.	.	1	C11orf83	HGNC	34399	protein_coding	YES	CCDS41658.1	ENSP00000432692	CK083_HUMAN	.	UPI00001FA976	.	deleterious(0)	benign(0.043)	2/3	.	Pfam_domain:PF15141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGGATTC	byFrequency	4	BLCA
LRRN4CL	0	.	GRCh37	11	62455473	62455473	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508G>C	p.Glu170Gln	p.E170Q	ENST00000317449	2/2	30	26	4	27	27	0	LRRN4CL,missense_variant,p.Glu170Gln,ENST00000317449,;BSCL2,downstream_gene_variant,,ENST00000524862,;BSCL2,downstream_gene_variant,,ENST00000421906,;BSCL2,downstream_gene_variant,,ENST00000403098,;BSCL2,downstream_gene_variant,,ENST00000433053,;BSCL2,downstream_gene_variant,,ENST00000403550,;BSCL2,downstream_gene_variant,,ENST00000360796,;BSCL2,downstream_gene_variant,,ENST00000407022,;BSCL2,downstream_gene_variant,,ENST00000405837,;BSCL2,downstream_gene_variant,,ENST00000531524,;BSCL2,downstream_gene_variant,,ENST00000449636,;BSCL2,downstream_gene_variant,,ENST00000448568,;BSCL2,downstream_gene_variant,,ENST00000278893,;BSCL2,downstream_gene_variant,,ENST00000526426,;BSCL2,downstream_gene_variant,,ENST00000412351,;BSCL2,downstream_gene_variant,,ENST00000532115,;BSCL2,downstream_gene_variant,,ENST00000301781,;BSCL2,downstream_gene_variant,,ENST00000463679,;HNRNPUL2-BSCL2,downstream_gene_variant,,ENST00000403734,;BSCL2,downstream_gene_variant,,ENST00000470529,;BSCL2,downstream_gene_variant,,ENST00000468505,;	G	ENSG00000177363	ENST00000317449	Transcript	missense_variant	986	508	170	E/Q	Gag/Cag	.	.	.	-1	LRRN4CL	HGNC	33724	protein_coding	YES	CCDS8030.1	ENSP00000325808	LRN4L_HUMAN	.	UPI00000359F7	.	tolerated(0.14)	possibly_damaging(0.454)	2/2	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24366	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	GCCCTCTCCTC	.	2	BLCA
SLC3A2	0	.	GRCh37	11	62620497	62620497	+	5'Flank	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000377891	.	108	87	21	78	78	0	SLC3A2,upstream_gene_variant,,ENST00000377892,;SLC3A2,upstream_gene_variant,,ENST00000377891,;SLC3A2,upstream_gene_variant,,ENST00000377890,;SLC3A2,upstream_gene_variant,,ENST00000377889,;SLC3A2,upstream_gene_variant,,ENST00000535296,;SNHG1,non_coding_transcript_exon_variant,,ENST00000384756,;SNHG1,intron_variant,,ENST00000537925,;SNHG1,intron_variant,,ENST00000545440,;SNHG1,intron_variant,,ENST00000540725,;SNHG1,intron_variant,,ENST00000537068,;SNHG1,intron_variant,,ENST00000539975,;SNHG1,intron_variant,,ENST00000541615,;SNHG1,intron_variant,,ENST00000538266,;SNHG1,intron_variant,,ENST00000537869,;SNHG1,intron_variant,,ENST00000541578,;SNHG1,intron_variant,,ENST00000539921,;SNHG1,intron_variant,,ENST00000542112,;SNHG1,downstream_gene_variant,,ENST00000365607,;SNHG1,downstream_gene_variant,,ENST00000384147,;SNHG1,downstream_gene_variant,,ENST00000539303,;SNHG1,downstream_gene_variant,,ENST00000383926,;SNHG1,downstream_gene_variant,,ENST00000364799,;SNHG1,downstream_gene_variant,,ENST00000384706,;SNHG1,downstream_gene_variant,,ENST00000516331,;SNHG1,downstream_gene_variant,,ENST00000384693,;SNHG1,downstream_gene_variant,,ENST00000363981,;SNHG1,non_coding_transcript_exon_variant,,ENST00000544550,;SNHG1,non_coding_transcript_exon_variant,,ENST00000538654,;SNHG1,intron_variant,,ENST00000545688,;SNHG1,intron_variant,,ENST00000535076,;SNHG1,downstream_gene_variant,,ENST00000540904,;SNHG1,downstream_gene_variant,,ENST00000537024,;SNHG1,downstream_gene_variant,,ENST00000541416,;SNHG1,downstream_gene_variant,,ENST00000545920,;SNHG1,downstream_gene_variant,,ENST00000545308,;SNHG1,downstream_gene_variant,,ENST00000537965,;SNHG1,downstream_gene_variant,,ENST00000544983,;SNHG1,downstream_gene_variant,,ENST00000540865,;SNHG1,downstream_gene_variant,,ENST00000535689,;	T	ENSG00000168003	ENST00000377891	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	3086	1	SLC3A2	HGNC	11026	protein_coding	YES	CCDS31588.1	ENSP00000367123	.	J3KPF3_HUMAN,F5H867_HUMAN,F5H056_HUMAN,F5GZI0_HUMAN,B4E2Z3_HUMAN	UPI00004EC298	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCTTCAT	.	5	BLCA
RTN3	0	.	GRCh37	11	63487722	63487722	+	Missense_Mutation	SNP	C	C	T	rs764385400	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1748C>T	p.Ser583Leu	p.S583L	ENST00000377819	3/9	117	98	19	107	107	0	RTN3,missense_variant,p.Ser564Leu,ENST00000339997,;RTN3,missense_variant,p.Ser583Leu,ENST00000377819,;RTN3,missense_variant,p.Ser471Leu,ENST00000540798,;RTN3,intron_variant,,ENST00000537981,;RTN3,intron_variant,,ENST00000356000,;RTN3,intron_variant,,ENST00000354497,;RTN3,intron_variant,,ENST00000542238,;RTN3,intron_variant,,ENST00000341307,;RTN3,downstream_gene_variant,,ENST00000545432,;RTN3,downstream_gene_variant,,ENST00000543552,;RTN3,intron_variant,,ENST00000543123,;RTN3,intron_variant,,ENST00000536011,;	T	ENSG00000133318	ENST00000377819	Transcript	missense_variant	1902	1748	583	S/L	tCa/tTa	rs764385400	.	.	1	RTN3	HGNC	10469	protein_coding	YES	CCDS58141.1	ENSP00000367050	RTN3_HUMAN	.	UPI00004546A2	.	deleterious(0.04)	possibly_damaging(0.642)	3/9	.	hmmpanther:PTHR10994,hmmpanther:PTHR10994:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTCAAAAG	.	5	BLCA
RCOR2	0	.	GRCh37	11	63681768	63681768	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.640G>A	p.Glu214Lys	p.E214K	ENST00000301459	7/12	60	50	10	46	46	0	RCOR2,missense_variant,p.Glu214Lys,ENST00000301459,;MARK2,downstream_gene_variant,,ENST00000513765,;MARK2,downstream_gene_variant,,ENST00000509502,;MARK2,downstream_gene_variant,,ENST00000508192,;MARK2,downstream_gene_variant,,ENST00000377809,;MARK2,downstream_gene_variant,,ENST00000315032,;MARK2,downstream_gene_variant,,ENST00000502399,;MARK2,downstream_gene_variant,,ENST00000361128,;MARK2,downstream_gene_variant,,ENST00000350490,;MARK2,downstream_gene_variant,,ENST00000402010,;MARK2,downstream_gene_variant,,ENST00000377810,;MARK2,downstream_gene_variant,,ENST00000413835,;RCOR2,upstream_gene_variant,,ENST00000473926,;RCOR2,upstream_gene_variant,,ENST00000489217,;	T	ENSG00000167771	ENST00000301459	Transcript	missense_variant	1028	640	214	E/K	Gag/Aag	.	.	.	-1	RCOR2	HGNC	27455	protein_coding	YES	CCDS8052.1	ENSP00000301459	RCOR2_HUMAN	.	UPI000016194C	.	deleterious(0.04)	possibly_damaging(0.787)	7/12	.	hmmpanther:PTHR16089,hmmpanther:PTHR16089:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCCCTCACTCA	.	3	BLCA
RCOR2	0	.	GRCh37	11	63682398	63682398	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294G>C	p.Glu98Asp	p.E98D	ENST00000301459	4/12	155	131	24	143	143	0	RCOR2,missense_variant,p.Glu98Asp,ENST00000301459,;MARK2,downstream_gene_variant,,ENST00000402010,;MARK2,downstream_gene_variant,,ENST00000377809,;MARK2,downstream_gene_variant,,ENST00000315032,;MARK2,downstream_gene_variant,,ENST00000377810,;MARK2,downstream_gene_variant,,ENST00000413835,;RCOR2,upstream_gene_variant,,ENST00000473926,;RCOR2,upstream_gene_variant,,ENST00000489217,;	G	ENSG00000167771	ENST00000301459	Transcript	missense_variant	682	294	98	E/D	gaG/gaC	.	.	.	-1	RCOR2	HGNC	27455	protein_coding	YES	CCDS8052.1	ENSP00000301459	RCOR2_HUMAN	.	UPI000016194C	.	tolerated(0.11)	benign(0.439)	4/12	.	PROSITE_profiles:PS51156,hmmpanther:PTHR16089,hmmpanther:PTHR16089:SF12,Pfam_domain:PF01448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCTTCTCCTT	.	3	BLCA
RCOR2	0	.	GRCh37	11	63682424	63682424	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268G>C	p.Asp90His	p.D90H	ENST00000301459	4/12	114	96	18	119	119	0	RCOR2,missense_variant,p.Asp90His,ENST00000301459,;MARK2,downstream_gene_variant,,ENST00000402010,;MARK2,downstream_gene_variant,,ENST00000377809,;MARK2,downstream_gene_variant,,ENST00000315032,;MARK2,downstream_gene_variant,,ENST00000377810,;MARK2,downstream_gene_variant,,ENST00000413835,;RCOR2,upstream_gene_variant,,ENST00000473926,;RCOR2,upstream_gene_variant,,ENST00000489217,;	G	ENSG00000167771	ENST00000301459	Transcript	missense_variant	656	268	90	D/H	Gac/Cac	.	.	.	-1	RCOR2	HGNC	27455	protein_coding	YES	CCDS8052.1	ENSP00000301459	RCOR2_HUMAN	.	UPI000016194C	.	deleterious(0)	probably_damaging(0.997)	4/12	.	PROSITE_profiles:PS51156,hmmpanther:PTHR16089,hmmpanther:PTHR16089:SF12,Pfam_domain:PF01448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTGTCAACTG	.	3	BLCA
STIP1	0	.	GRCh37	11	63967681	63967681	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1161C>G	p.Ile387Met	p.I387M	ENST00000305218	10/14	367	313	54	255	255	0	STIP1,missense_variant,p.Ile363Met,ENST00000538945,;STIP1,missense_variant,p.Ile387Met,ENST00000305218,;STIP1,missense_variant,p.Ile434Met,ENST00000358794,;STIP1,upstream_gene_variant,,ENST00000540887,;STIP1,downstream_gene_variant,,ENST00000543847,;STIP1,downstream_gene_variant,,ENST00000540501,;STIP1,downstream_gene_variant,,ENST00000544739,;STIP1,downstream_gene_variant,,ENST00000537479,;STIP1,non_coding_transcript_exon_variant,,ENST00000538497,;STIP1,intron_variant,,ENST00000536973,;STIP1,upstream_gene_variant,,ENST00000355603,;	G	ENSG00000168439	ENST00000305218	Transcript	missense_variant	1308	1161	387	I/M	atC/atG	.	.	.	1	STIP1	HGNC	11387	protein_coding	YES	CCDS8058.1	ENSP00000305958	STIP1_HUMAN	.	UPI000012D225	.	deleterious(0)	possibly_damaging(0.791)	10/14	.	PROSITE_profiles:PS50293,PROSITE_profiles:PS50005,hmmpanther:PTHR22904,hmmpanther:PTHR22904:SF296,Gene3D:1.25.40.10,Pfam_domain:PF13414,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATCAAAAG	.	4	BLCA
FERMT3	0	.	GRCh37	11	63988079	63988079	+	Missense_Mutation	SNP	G	G	A	rs199681648	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1495G>A	p.Glu499Lys	p.E499K	ENST00000279227	12/15	27	20	7	13	13	0	FERMT3,missense_variant,p.Glu495Lys,ENST00000345728,;FERMT3,missense_variant,p.Glu499Lys,ENST00000279227,;FERMT3,synonymous_variant,p.%3D,ENST00000545896,;TRPT1,downstream_gene_variant,,ENST00000317459,;TRPT1,downstream_gene_variant,,ENST00000545812,;FERMT3,downstream_gene_variant,,ENST00000544997,;TRPT1,downstream_gene_variant,,ENST00000394546,;TRPT1,downstream_gene_variant,,ENST00000394547,;TRPT1,downstream_gene_variant,,ENST00000541278,;TRPT1,downstream_gene_variant,,ENST00000546133,;TRPT1,downstream_gene_variant,,ENST00000546089,;TRPT1,downstream_gene_variant,,ENST00000544286,;TRPT1,downstream_gene_variant,,ENST00000540472,;TRPT1,downstream_gene_variant,,ENST00000542040,;FERMT3,downstream_gene_variant,,ENST00000546255,;TRPT1,downstream_gene_variant,,ENST00000537907,;FERMT3,downstream_gene_variant,,ENST00000540957,;TRPT1,downstream_gene_variant,,ENST00000536234,;TRPT1,downstream_gene_variant,,ENST00000539595,;TRPT1,downstream_gene_variant,,ENST00000539436,;FERMT3,upstream_gene_variant,,ENST00000540554,;FERMT3,downstream_gene_variant,,ENST00000541326,;TRPT1,downstream_gene_variant,,ENST00000541928,;TRPT1,downstream_gene_variant,,ENST00000536158,;	A	ENSG00000149781	ENST00000279227	Transcript	missense_variant	1590	1495	499	E/K	Gag/Aag	rs199681648	.	.	1	FERMT3	HGNC	23151	protein_coding	YES	CCDS8060.1	ENSP00000279227	URP2_HUMAN	F5H3I6_HUMAN,F5H1C6_HUMAN	UPI000019270B	.	tolerated(0.62)	benign(0.422)	12/15	.	hmmpanther:PTHR16160:SF1,hmmpanther:PTHR16160,Pfam_domain:PF00373,Gene3D:1.20.80.10,SMART_domains:SM00295,Superfamily_domains:SSF47031	A:0.0004	A:0.0008	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGCCGAGGGC	byFrequency|byCluster|by1000G	3	BLCA
FKBP2	0	.	GRCh37	11	64010692	64010692	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>A	p.Glu65Lys	p.E65K	ENST00000394540	3/6	80	68	12	60	60	0	FKBP2,missense_variant,p.Glu65Lys,ENST00000394540,;FKBP2,missense_variant,p.Glu65Lys,ENST00000449942,;FKBP2,missense_variant,p.Glu65Lys,ENST00000309366,;FKBP2,missense_variant,p.Glu65Lys,ENST00000535135,;VEGFB,downstream_gene_variant,,ENST00000426086,;PPP1R14B,downstream_gene_variant,,ENST00000392210,;VEGFB,downstream_gene_variant,,ENST00000309422,;PPP1R14B,downstream_gene_variant,,ENST00000542235,;PPP1R14B,downstream_gene_variant,,ENST00000309318,;RP11-783K16.13,downstream_gene_variant,,ENST00000545800,;RP11-783K16.5,upstream_gene_variant,,ENST00000538355,;RP11-783K16.5,upstream_gene_variant,,ENST00000544553,;FKBP2,non_coding_transcript_exon_variant,,ENST00000541388,;FKBP2,non_coding_transcript_exon_variant,,ENST00000536642,;VEGFB,downstream_gene_variant,,ENST00000543462,;	A	ENSG00000173486	ENST00000394540	Transcript	missense_variant	663	193	65	E/K	Gag/Aag	.	.	.	1	FKBP2	HGNC	3718	protein_coding	YES	CCDS8063.1	ENSP00000378046	FKBP2_HUMAN	Q53XJ5_HUMAN,F5H0N4_HUMAN	UPI000012A810	.	tolerated(0.59)	possibly_damaging(0.58)	3/6	.	PROSITE_profiles:PS50059,hmmpanther:PTHR10516,hmmpanther:PTHR10516:SF134,Pfam_domain:PF00254,Gene3D:3.10.50.40,Superfamily_domains:SSF54534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGACAGAGTTT	.	4	BLCA
CCDC88B	0	.	GRCh37	11	64108940	64108940	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495C>T	p.%3D	p.L165L	ENST00000356786	6/27	87	78	8	64	64	0	CCDC88B,synonymous_variant,p.%3D,ENST00000356786,;CCDC88B,upstream_gene_variant,,ENST00000301897,;CCDC88B,non_coding_transcript_exon_variant,,ENST00000463837,;CCDC88B,upstream_gene_variant,,ENST00000494566,;CCDC88B,upstream_gene_variant,,ENST00000492980,;CCDC88B,upstream_gene_variant,,ENST00000494080,;	T	ENSG00000168071	ENST00000356786	Transcript	synonymous_variant	539	495	165	L	ctC/ctT	.	.	.	1	CCDC88B	HGNC	26757	protein_coding	YES	CCDS8072.2	ENSP00000349238	CC88B_HUMAN	.	UPI00001FAAA6	.	.	.	6/27	.	Superfamily_domains:0050601,Pfam_domain:PF05622,hmmpanther:PTHR18947:SF29,hmmpanther:PTHR18947	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCTCGAGGT	.	4	BLCA
NRXN2	0	.	GRCh37	11	64453336	64453336	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934G>A	p.Asp312Asn	p.D312N	ENST00000265459	6/23	108	93	15	97	97	0	NRXN2,missense_variant,p.Asp312Asn,ENST00000377551,;NRXN2,missense_variant,p.Asp73Asn,ENST00000417749,;NRXN2,missense_variant,p.Asp312Asn,ENST00000265459,;NRXN2,missense_variant,p.Asp83Asn,ENST00000442300,;NRXN2,missense_variant,p.Asp312Asn,ENST00000409571,;NRXN2,missense_variant,p.Asp288Asn,ENST00000377559,;NRXN2,missense_variant,p.Asp102Asn,ENST00000437746,;NRXN2,non_coding_transcript_exon_variant,,ENST00000466324,;	T	ENSG00000110076	ENST00000265459	Transcript	missense_variant	1396	934	312	D/N	Gat/Aat	.	.	.	-1	NRXN2	HGNC	8009	protein_coding	YES	CCDS8077.1	ENSP00000265459	NRX2A_HUMAN	.	UPI0000130AA2	.	deleterious(0)	benign(0.071)	6/23	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF593,hmmpanther:PTHR10127,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATCAGTGC	.	4	BLCA
POLA2	0	.	GRCh37	11	65061653	65061653	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274C>T	p.Ser425Leu	p.S425L	ENST00000265465	14/18	469	398	71	435	435	0	POLA2,missense_variant,p.Ser217Leu,ENST00000541089,;POLA2,missense_variant,p.Ser95Leu,ENST00000525924,;POLA2,missense_variant,p.Ser425Leu,ENST00000265465,;POLA2,non_coding_transcript_exon_variant,,ENST00000534785,;POLA2,3_prime_UTR_variant,,ENST00000527850,;POLA2,non_coding_transcript_exon_variant,,ENST00000533192,;POLA2,non_coding_transcript_exon_variant,,ENST00000527618,;	T	ENSG00000014138	ENST00000265465	Transcript	missense_variant	1805	1274	425	S/L	tCa/tTa	.	.	.	1	POLA2	HGNC	30073	protein_coding	YES	CCDS8098.1	ENSP00000265465	DPOA2_HUMAN	E9PIQ6_HUMAN,B3KSX6_HUMAN	UPI000007375F	.	deleterious(0)	probably_damaging(0.992)	14/18	.	hmmpanther:PTHR23061:SF12,hmmpanther:PTHR23061,Pfam_domain:PF04042,PIRSF_domain:PIRSF018300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCGTCATTGA	.	4	BLCA
TMEM151A	0	.	GRCh37	11	66062581	66062581	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.864C>G	p.Phe288Leu	p.F288L	ENST00000327259	2/2	24	17	6	14	14	0	TMEM151A,missense_variant,p.Phe288Leu,ENST00000327259,;	G	ENSG00000179292	ENST00000327259	Transcript	missense_variant	1008	864	288	F/L	ttC/ttG	.	.	.	1	TMEM151A	HGNC	28497	protein_coding	YES	CCDS8133.1	ENSP00000326244	T151A_HUMAN	.	UPI0000070F9B	.	deleterious(0)	possibly_damaging(0.716)	2/2	.	Pfam_domain:PF14857,hmmpanther:PTHR31893,hmmpanther:PTHR31893:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCTGGCT	.	5	BLCA
B3GNT1	0	.	GRCh37	11	66113586	66113586	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1182G>C	p.Lys394Asn	p.K394N	ENST00000311181	2/2	131	113	18	109	109	0	B3GNT1,missense_variant,p.Lys394Asn,ENST00000311181,;BRMS1,upstream_gene_variant,,ENST00000359957,;BRMS1,upstream_gene_variant,,ENST00000524699,;RP11-867G23.8,upstream_gene_variant,,ENST00000531602,;BRMS1,upstream_gene_variant,,ENST00000530756,;BRMS1,upstream_gene_variant,,ENST00000425825,;RP11-867G23.8,upstream_gene_variant,,ENST00000581155,;RP11-867G23.8,upstream_gene_variant,,ENST00000580881,;BRMS1,upstream_gene_variant,,ENST00000529544,;BRMS1,upstream_gene_variant,,ENST00000530238,;BRMS1,upstream_gene_variant,,ENST00000534617,;BRMS1,upstream_gene_variant,,ENST00000527375,;BRMS1,upstream_gene_variant,,ENST00000525127,;	G	ENSG00000174684	ENST00000311181	Transcript	missense_variant	1329	1182	394	K/N	aaG/aaC	COSM3416142	.	.	-1	B3GNT1	HGNC	15685	protein_coding	YES	CCDS8136.1	ENSP00000309096	B3GN1_HUMAN	B4DGI0_HUMAN	UPI00000358A1	.	deleterious(0.02)	possibly_damaging(0.736)	2/2	.	hmmpanther:PTHR12270:SF20,hmmpanther:PTHR12270,Pfam_domain:PF13896	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGATCTTATT	.	4	BLCA
RBM14-RBM4	0	.	GRCh37	11	66384488	66384488	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297C>G	p.Phe99Leu	p.F99L	ENST00000412278	1/3	121	108	13	140	140	0	RBM14-RBM4,missense_variant,p.Phe99Leu,ENST00000412278,;RBM14,missense_variant,p.Phe99Leu,ENST00000310137,;RBM4,missense_variant,p.Phe99Leu,ENST00000514361,;RBM14-RBM4,missense_variant,p.Phe99Leu,ENST00000500635,;RBM14,missense_variant,p.Phe99Leu,ENST00000443702,;RBM14,missense_variant,p.Phe99Leu,ENST00000393979,;RBM14,missense_variant,p.Phe99Leu,ENST00000409738,;RBM14,missense_variant,p.Phe99Leu,ENST00000409372,;RBM4,5_prime_UTR_variant,,ENST00000503028,;RNU4-39P,upstream_gene_variant,,ENST00000362455,;RBM14-RBM4,non_coding_transcript_exon_variant,,ENST00000511114,;RBM14,non_coding_transcript_exon_variant,,ENST00000512283,;RBM14,upstream_gene_variant,,ENST00000496694,;RBM14,upstream_gene_variant,,ENST00000461478,;RBM14,upstream_gene_variant,,ENST00000460762,;RBM14-RBM4,missense_variant,p.Phe99Leu,ENST00000421355,;	G	ENSG00000248643	ENST00000412278	Transcript	missense_variant	392	297	99	F/L	ttC/ttG	.	.	.	1	RBM14-RBM4	HGNC	38840	protein_coding	YES	CCDS55774.1	ENSP00000388552	.	.	UPI0001641710	.	deleterious(0.01)	possibly_damaging(0.842)	1/3	.	hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF242,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCGAGCG	.	4	BLCA
LRP5	0	.	GRCh37	11	68157442	68157442	+	Silent	SNP	C	C	T	rs772589056	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1506C>T	p.%3D	p.L502L	ENST00000294304	7/23	72	55	17	59	59	0	LRP5,synonymous_variant,p.%3D,ENST00000294304,;LRP5,intron_variant,,ENST00000529993,;	T	ENSG00000162337	ENST00000294304	Transcript	synonymous_variant	1612	1506	502	L	ctC/ctT	rs772589056	.	.	1	LRP5	HGNC	6697	protein_coding	YES	CCDS8181.1	ENSP00000294304	LRP5_HUMAN	E9PHY1_HUMAN	UPI0000073246	.	.	.	7/23	.	Superfamily_domains:SSF63825,PIRSF_domain:PIRSF036314,SMART_domains:SM00135,Pfam_domain:PF00058,Gene3D:2.120.10.30,hmmpanther:PTHR10529:SF202,hmmpanther:PTHR10529,PROSITE_profiles:PS51120	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCGGGTG	.	5	BLCA
MTL5	0	.	GRCh37	11	68483325	68483325	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1000G>A	p.Glu334Lys	p.E334K	ENST00000255087	7/10	47	41	6	42	42	0	MTL5,missense_variant,p.Glu27Lys,ENST00000543240,;MTL5,missense_variant,p.Glu334Lys,ENST00000255087,;	T	ENSG00000132749	ENST00000255087	Transcript	missense_variant	1184	1000	334	E/K	Gaa/Aaa	.	.	.	-1	MTL5	HGNC	7446	protein_coding	YES	CCDS8184.1	ENSP00000255087	MTL5_HUMAN	.	UPI00001FAE07	.	tolerated(0.07)	benign(0.424)	7/10	.	PROSITE_profiles:PS51634,hmmpanther:PTHR12446:SF20,hmmpanther:PTHR12446	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGTTCAATAT	.	2	BLCA
RBMXL2	0	.	GRCh37	11	7110384	7110384	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33C>T	p.%3D	p.F11F	ENST00000306904	1/1	34	27	7	38	38	0	RBMXL2,synonymous_variant,p.%3D,ENST00000306904,;	T	ENSG00000170748	ENST00000306904	Transcript	synonymous_variant	220	33	11	F	ttC/ttT	COSM235279	.	.	1	RBMXL2	HGNC	17886	protein_coding	YES	CCDS7777.1	ENSP00000304139	RMXL2_HUMAN	.	UPI000013EBA5	.	.	.	1/1	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF306,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00361,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCATTGG	.	5	BLCA
P2RY2	0	.	GRCh37	11	72945369	72945369	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165C>G	p.%3D	p.L55L	ENST00000311131	3/3	117	98	18	87	87	0	P2RY2,synonymous_variant,p.%3D,ENST00000393597,;P2RY2,synonymous_variant,p.%3D,ENST00000311131,;P2RY2,synonymous_variant,p.%3D,ENST00000393596,;RP11-800A3.4,upstream_gene_variant,,ENST00000565433,;	G	ENSG00000175591	ENST00000311131	Transcript	synonymous_variant	632	165	55	L	ctC/ctG	.	.	.	1	P2RY2	HGNC	8541	protein_coding	YES	CCDS8219.1	ENSP00000310305	P2RY2_HUMAN	.	UPI000013F103	.	.	.	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24231:SF17,hmmpanther:PTHR24231,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGCTCTACAT	.	4	BLCA
ARHGEF17	0	.	GRCh37	11	73021511	73021511	+	Missense_Mutation	SNP	G	G	A	rs755362750	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1828G>A	p.Asp610Asn	p.D610N	ENST00000263674	1/21	62	51	10	83	83	0	ARHGEF17,missense_variant,p.Asp610Asn,ENST00000263674,;ARHGEF17,upstream_gene_variant,,ENST00000544519,;RP11-800A3.7,upstream_gene_variant,,ENST00000546324,;	A	ENSG00000110237	ENST00000263674	Transcript	missense_variant	2178	1828	610	D/N	Gat/Aat	rs755362750	.	.	1	ARHGEF17	HGNC	21726	protein_coding	YES	CCDS8221.1	ENSP00000263674	ARHGH_HUMAN	.	UPI000004980B	.	tolerated_low_confidence(0.05)	possibly_damaging(0.563)	1/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12877:SF15,hmmpanther:PTHR12877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAAGATGAT	.	5	BLCA
ARHGEF17	0	.	GRCh37	11	73021889	73021889	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2206G>A	p.Asp736Asn	p.D736N	ENST00000263674	1/21	76	61	14	43	43	0	ARHGEF17,missense_variant,p.Asp736Asn,ENST00000263674,;ARHGEF17,upstream_gene_variant,,ENST00000544519,;RP11-800A3.7,upstream_gene_variant,,ENST00000546324,;	A	ENSG00000110237	ENST00000263674	Transcript	missense_variant	2556	2206	736	D/N	Gac/Aac	.	.	.	1	ARHGEF17	HGNC	21726	protein_coding	YES	CCDS8221.1	ENSP00000263674	ARHGH_HUMAN	.	UPI000004980B	.	deleterious_low_confidence(0)	probably_damaging(0.996)	1/21	.	hmmpanther:PTHR12877:SF15,hmmpanther:PTHR12877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGTGACCCA	.	5	BLCA
ARHGEF17	0	.	GRCh37	11	73022186	73022186	+	Missense_Mutation	SNP	G	G	A	rs763144304	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2503G>A	p.Gly835Arg	p.G835R	ENST00000263674	1/21	90	79	10	60	60	0	ARHGEF17,missense_variant,p.Gly835Arg,ENST00000263674,;ARHGEF17,upstream_gene_variant,,ENST00000544519,;RP11-800A3.7,upstream_gene_variant,,ENST00000546324,;	A	ENSG00000110237	ENST00000263674	Transcript	missense_variant	2853	2503	835	G/R	Ggg/Agg	rs763144304	.	.	1	ARHGEF17	HGNC	21726	protein_coding	YES	CCDS8221.1	ENSP00000263674	ARHGH_HUMAN	.	UPI000004980B	.	deleterious_low_confidence(0.01)	probably_damaging(0.946)	1/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12877:SF15,hmmpanther:PTHR12877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCGTGGGGAG	byFrequency	4	BLCA
C2CD3	0	.	GRCh37	11	73803494	73803494	+	Missense_Mutation	SNP	C	C	G	rs759687227	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3484G>C	p.Glu1162Gln	p.E1162Q	ENST00000313663	19/31	108	89	19	110	110	0	C2CD3,missense_variant,p.Glu1162Gln,ENST00000313663,;C2CD3,missense_variant,p.Glu1162Gln,ENST00000334126,;C2CD3,upstream_gene_variant,,ENST00000414160,;C2CD3,upstream_gene_variant,,ENST00000540057,;	G	ENSG00000168014	ENST00000313663	Transcript	missense_variant	3711	3484	1162	E/Q	Gag/Cag	rs759687227,COSM1510055,COSM1510056	.	.	-1	C2CD3	HGNC	24564	protein_coding	YES	CCDS31636.1	ENSP00000323339	C2CD3_HUMAN	.	UPI0000D62650	.	deleterious(0.02)	possibly_damaging(0.743)	19/31	.	hmmpanther:PTHR21254,hmmpanther:PTHR21254:SF1,Gene3D:2.60.40.150	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCAATCC	.	5	BLCA
SPCS2	0	.	GRCh37	11	74688053	74688053	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646C>T	p.His216Tyr	p.H216Y	ENST00000263672	5/5	37	30	7	28	28	0	SPCS2,missense_variant,p.His77Tyr,ENST00000526361,;SPCS2,missense_variant,p.His247Tyr,ENST00000532972,;SPCS2,missense_variant,p.His147Tyr,ENST00000530257,;SPCS2,missense_variant,p.His216Tyr,ENST00000263672,;SPCS2,non_coding_transcript_exon_variant,,ENST00000527225,;SPCS2,intron_variant,,ENST00000528265,;	T	ENSG00000118363	ENST00000263672	Transcript	missense_variant	685	646	216	H/Y	Cat/Tat	.	.	.	1	SPCS2	HGNC	28962	protein_coding	YES	CCDS44681.1	ENSP00000263672	SPCS2_HUMAN	.	UPI0000135D6A	.	tolerated(0.17)	probably_damaging(0.993)	5/5	.	hmmpanther:PTHR13085:SF0,hmmpanther:PTHR13085,Pfam_domain:PF06703	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTCCATGAC	.	4	BLCA
USP35	0	.	GRCh37	11	77911851	77911851	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1194C>G	p.Ile398Met	p.I398M	ENST00000529308	6/11	63	56	7	41	41	0	USP35,missense_variant,p.Ile154Met,ENST00000528910,;USP35,missense_variant,p.Ile398Met,ENST00000529308,;USP35,missense_variant,p.Ile129Met,ENST00000526425,;USP35,5_prime_UTR_variant,,ENST00000441408,;USP35,intron_variant,,ENST00000530267,;USP35,intron_variant,,ENST00000530535,;USP35,3_prime_UTR_variant,,ENST00000530546,;	G	ENSG00000118369	ENST00000529308	Transcript	missense_variant	1455	1194	398	I/M	atC/atG	.	.	.	1	USP35	HGNC	20061	protein_coding	YES	CCDS41693.1	ENSP00000431876	UBP35_HUMAN	E9PRM2_HUMAN,E9PK78_HUMAN	UPI0000456553	.	deleterious(0)	unknown(0)	6/11	.	hmmpanther:PTHR24006:SF343,hmmpanther:PTHR24006,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATCAAGGT	.	4	BLCA
ANKRD42	0	.	GRCh37	11	82909636	82909636	+	Intron	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138+36C>A	.	.	ENST00000393392	.	22	16	6	14	14	0	ANKRD42,synonymous_variant,p.%3D,ENST00000531895,;ANKRD42,synonymous_variant,p.%3D,ENST00000533342,;ANKRD42,synonymous_variant,p.%3D,ENST00000393389,;ANKRD42,synonymous_variant,p.%3D,ENST00000260047,;ANKRD42,synonymous_variant,p.%3D,ENST00000526731,;ANKRD42,5_prime_UTR_variant,,ENST00000528722,;ANKRD42,intron_variant,,ENST00000393392,;RP11-727A23.5,upstream_gene_variant,,ENST00000529811,;RP11-727A23.5,upstream_gene_variant,,ENST00000528083,;RP11-727A23.5,upstream_gene_variant,,ENST00000529031,;RP11-727A23.5,upstream_gene_variant,,ENST00000528524,;RP11-727A23.5,upstream_gene_variant,,ENST00000500634,;	A	ENSG00000137494	ENST00000393392	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ANKRD42	HGNC	26752	protein_coding	YES	CCDS8265.1	ENSP00000377051	ANR42_HUMAN	.	UPI000013D0A8	.	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCCATAA	.	5	BLCA
CCDC81	0	.	GRCh37	11	86097120	86097120	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107C>G	p.Ser36Ter	p.S36*	ENST00000445632	2/15	81	75	6	62	62	0	CCDC81,stop_gained,p.Ser36Ter,ENST00000531271,;CCDC81,stop_gained,p.Ser36Ter,ENST00000445632,;CCDC81,stop_gained,p.Ser36Ter,ENST00000354755,;CCDC81,5_prime_UTR_variant,,ENST00000278487,;	G	ENSG00000149201	ENST00000445632	Transcript	stop_gained	379	107	36	S/*	tCa/tGa	.	.	.	1	CCDC81	HGNC	26281	protein_coding	YES	CCDS53691.1	ENSP00000415528	CCD81_HUMAN	B4DQN0_HUMAN	UPI0000E5BE97	.	.	.	2/15	.	Pfam_domain:PF14908,hmmpanther:PTHR14362,hmmpanther:PTHR14362:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGTATCAGAAT	.	3	BLCA
CHID1	0	.	GRCh37	11	883271	883271	+	Missense_Mutation	SNP	C	C	G	rs773727065	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.911G>C	p.Arg304Pro	p.R304P	ENST00000454838	10/13	118	104	14	97	97	0	CHID1,missense_variant,p.Arg279Pro,ENST00000323578,;CHID1,missense_variant,p.Arg304Pro,ENST00000336845,;CHID1,missense_variant,p.Arg304Pro,ENST00000528581,;CHID1,missense_variant,p.Arg279Pro,ENST00000436108,;CHID1,missense_variant,p.Arg279Pro,ENST00000449825,;CHID1,missense_variant,p.Arg304Pro,ENST00000454838,;CHID1,missense_variant,p.Arg309Pro,ENST00000323541,;CHID1,missense_variant,p.Arg248Pro,ENST00000429789,;CHID1,missense_variant,p.Arg183Pro,ENST00000531859,;CHID1,upstream_gene_variant,,ENST00000529539,;CHID1,non_coding_transcript_exon_variant,,ENST00000524832,;CHID1,non_coding_transcript_exon_variant,,ENST00000526714,;CHID1,non_coding_transcript_exon_variant,,ENST00000528534,;CHID1,missense_variant,p.Arg44Pro,ENST00000528521,;CHID1,non_coding_transcript_exon_variant,,ENST00000531010,;CHID1,downstream_gene_variant,,ENST00000534254,;CHID1,upstream_gene_variant,,ENST00000534207,;	G	ENSG00000177830	ENST00000454838	Transcript	missense_variant	1018	911	304	R/P	cGa/cCa	rs773727065	.	.	-1	CHID1	HGNC	28474	protein_coding	YES	CCDS44511.1	ENSP00000398722	CHID1_HUMAN	H0YDL6_HUMAN,E9PJL0_HUMAN,E9PJ91_HUMAN	UPI000003B0AE	.	deleterious(0.02)	probably_damaging(0.947)	10/13	.	hmmpanther:PTHR11177,Gene3D:3.20.20.80,Pfam_domain:PF00704,SMART_domains:SM00636,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCGAACC	byFrequency	4	BLCA
CHORDC1	0	.	GRCh37	11	89956126	89956126	+	5'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4G>C	.	.	ENST00000320585	1/11	37	27	9	23	23	0	CHORDC1,5_prime_UTR_variant,,ENST00000530765,;CHORDC1,5_prime_UTR_variant,,ENST00000320585,;CHORDC1,5_prime_UTR_variant,,ENST00000457199,;CHORDC1,5_prime_UTR_variant,,ENST00000529402,;CHORDC1,5_prime_UTR_variant,,ENST00000525317,;CHORDC1,5_prime_UTR_variant,,ENST00000533062,;CHORDC1,5_prime_UTR_variant,,ENST00000533772,;CHORDC1,non_coding_transcript_exon_variant,,ENST00000533739,;CHORDC1,non_coding_transcript_exon_variant,,ENST00000533724,;	G	ENSG00000110172	ENST00000320585	Transcript	5_prime_UTR_variant	407	.	.	.	.	.	.	.	-1	CHORDC1	HGNC	14525	protein_coding	YES	CCDS8289.1	ENSP00000319255	CHRD1_HUMAN	E9PHZ2_HUMAN	UPI000013F1A2	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTTTTC	.	5	BLCA
SCUBE2	0	.	GRCh37	11	9080890	9080890	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1050G>A	p.%3D	p.K350K	ENST00000520467	9/22	60	48	11	52	52	0	SCUBE2,synonymous_variant,p.%3D,ENST00000457346,;SCUBE2,synonymous_variant,p.%3D,ENST00000450649,;SCUBE2,synonymous_variant,p.%3D,ENST00000309263,;SCUBE2,synonymous_variant,p.%3D,ENST00000520467,;SCUBE2,synonymous_variant,p.%3D,ENST00000531429,;SCUBE2,synonymous_variant,p.%3D,ENST00000519788,;RP11-467K18.2,intron_variant,,ENST00000521394,;RP11-467K18.2,downstream_gene_variant,,ENST00000531592,;	T	ENSG00000175356	ENST00000520467	Transcript	synonymous_variant	1121	1050	350	K	aaG/aaA	.	.	.	-1	SCUBE2	HGNC	30425	protein_coding	YES	CCDS7797.2	ENSP00000429969	SCUB2_HUMAN	.	UPI0001E5E848	.	.	.	9/22	.	hmmpanther:PTHR24046,hmmpanther:PTHR24046:SF3,PROSITE_patterns:PS01186,Gene3D:2.10.25.10,Pfam_domain:PF14670,SMART_domains:SM00179,SMART_domains:SM00181,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCTTGCA	.	5	BLCA
FAT3	0	.	GRCh37	11	92088162	92088162	+	Missense_Mutation	SNP	G	G	A	rs774871868	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2884G>A	p.Asp962Asn	p.D962N	ENST00000298047	1/27	93	81	11	83	83	0	FAT3,missense_variant,p.Asp962Asn,ENST00000541502,;FAT3,missense_variant,p.Asp962Asn,ENST00000298047,;FAT3,missense_variant,p.Asp962Asn,ENST00000409404,;FAT3,missense_variant,p.Asp812Asn,ENST00000525166,;FAT3,upstream_gene_variant,,ENST00000528921,;	A	ENSG00000165323	ENST00000298047	Transcript	missense_variant	2901	2884	962	D/N	Gat/Aat	rs774871868,COSM351948,COSM351947	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	probably_damaging(1)	1/27	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCATGATCCA	.	4	BLCA
MRE11A	0	.	GRCh37	11	94212886	94212886	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356C>T	p.Ser119Leu	p.S119L	ENST00000323929	5/20	78	61	17	51	51	0	MRE11A,missense_variant,p.Ser119Leu,ENST00000393241,;MRE11A,missense_variant,p.Ser119Leu,ENST00000323977,;MRE11A,missense_variant,p.Ser119Leu,ENST00000536754,;MRE11A,missense_variant,p.Ser119Leu,ENST00000323929,;MRE11A,missense_variant,p.Ser119Leu,ENST00000540013,;MRE11A,missense_variant,p.Ser122Leu,ENST00000407439,;MRE11A,downstream_gene_variant,,ENST00000538923,;MRE11A,intron_variant,,ENST00000541157,;MRE11A,downstream_gene_variant,,ENST00000536144,;	A	ENSG00000020922	ENST00000323929	Transcript	missense_variant	579	356	119	S/L	tCa/tTa	.	.	.	-1	MRE11A	HGNC	7230	protein_coding	YES	CCDS8299.1	ENSP00000325863	MRE11_HUMAN	Q9BS79_HUMAN,F5H742_HUMAN,F5H256_HUMAN	UPI000012F4D3	.	deleterious(0)	probably_damaging(0.962)	5/20	.	hmmpanther:PTHR10139,TIGRFAM_domain:TIGR00583,Gene3D:3.60.21.10,Pfam_domain:PF00149,PIRSF_domain:PIRSF000882,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTGAAATG	.	5	BLCA
AC010203.1	0	.	GRCh37	12	100551506	100551506	+	5'Flank	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000408843	.	40	32	8	26	26	0	AC010203.1,upstream_gene_variant,,ENST00000408843,;RN7SL176P,downstream_gene_variant,,ENST00000580352,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000397112,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000545820,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000304813,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000537988,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000456437,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000266746,;GOLGA2P5,downstream_gene_variant,,ENST00000429462,;	A	ENSG00000221770	ENST00000408843	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	390	-1	AC010203.1	Clone_based_ensembl_gene	.	miRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTGAAAAA	.	5	BLCA
NUP37	0	.	GRCh37	12	102506004	102506004	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.163G>C	p.Glu55Gln	p.E55Q	ENST00000552283	3/10	69	57	11	65	65	0	NUP37,missense_variant,p.Glu55Gln,ENST00000551744,;NUP37,missense_variant,p.Glu55Gln,ENST00000552283,;NUP37,missense_variant,p.Glu55Gln,ENST00000251074,;NUP37,non_coding_transcript_exon_variant,,ENST00000548994,;NUP37,non_coding_transcript_exon_variant,,ENST00000543021,;NUP37,non_coding_transcript_exon_variant,,ENST00000551200,;	G	ENSG00000075188	ENST00000552283	Transcript	missense_variant	303	163	55	E/Q	Gaa/Caa	.	.	.	-1	NUP37	HGNC	29929	protein_coding	YES	CCDS9089.1	ENSP00000448054	NUP37_HUMAN	F8VXF5_HUMAN	UPI00000372E7	.	deleterious(0.02)	benign(0.16)	3/10	.	hmmpanther:PTHR22806,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCTTCTT	.	5	BLCA
RAD52	0	.	GRCh37	12	1025437	1025437	+	Intron	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865+73C>G	.	.	ENST00000358495	.	18	14	4	18	18	0	RAD52,3_prime_UTR_variant,,ENST00000536177,;RAD52,intron_variant,,ENST00000539046,;RAD52,intron_variant,,ENST00000358495,;RAD52,intron_variant,,ENST00000430095,;WNK1,downstream_gene_variant,,ENST00000315939,;WNK1,downstream_gene_variant,,ENST00000340908,;WNK1,downstream_gene_variant,,ENST00000535572,;WNK1,downstream_gene_variant,,ENST00000537687,;RAD52,intron_variant,,ENST00000535376,;RAD52,downstream_gene_variant,,ENST00000542584,;RAD52,upstream_gene_variant,,ENST00000542297,;RAD52,intron_variant,,ENST00000481052,;RAD52,intron_variant,,ENST00000468231,;RAD52,intron_variant,,ENST00000228345,;RAD52,intron_variant,,ENST00000543912,;RAD52,intron_variant,,ENST00000461568,;RAD52,intron_variant,,ENST00000488642,;RAD52,intron_variant,,ENST00000463750,;	C	ENSG00000002016	ENST00000358495	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RAD52	HGNC	9824	protein_coding	YES	CCDS8507.2	ENSP00000351284	RAD52_HUMAN	Q9UHE1_HUMAN,Q5DR82_HUMAN,Q3MI84_HUMAN,F5H3Q1_HUMAN,F5GX95_HUMAN,D3DUP4_HUMAN	UPI0000133035	.	.	.	.	9/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGAATCA	.	4	BLCA
STAB2	0	.	GRCh37	12	104121065	104121065	+	Silent	SNP	G	G	C	rs765909613	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4872G>C	p.%3D	p.L1624L	ENST00000388887	47/69	289	247	41	223	223	0	STAB2,synonymous_variant,p.%3D,ENST00000388887,;	C	ENSG00000136011	ENST00000388887	Transcript	synonymous_variant	5076	4872	1624	L	ctG/ctC	rs765909613	.	.	1	STAB2	HGNC	18629	protein_coding	YES	CCDS31888.1	ENSP00000373539	STAB2_HUMAN	H0YIF3_HUMAN	UPI00001ADDF4	.	.	.	47/69	.	PROSITE_profiles:PS50213,hmmpanther:PTHR24038:SF0,hmmpanther:PTHR24038,Pfam_domain:PF02469,Gene3D:2.30.180.10,Superfamily_domains:SSF82153	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATCTGGTCGG	byFrequency	4	BLCA
TMEM119	0	.	GRCh37	12	108985794	108985794	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366G>A	p.%3D	p.Q122Q	ENST00000392806	2/2	40	33	7	31	31	0	TMEM119,synonymous_variant,p.%3D,ENST00000392806,;TMEM119,synonymous_variant,p.%3D,ENST00000549031,;TMEM119,downstream_gene_variant,,ENST00000547567,;TMEM119,downstream_gene_variant,,ENST00000549447,;	T	ENSG00000183160	ENST00000392806	Transcript	synonymous_variant	535	366	122	Q	caG/caA	.	.	.	-1	TMEM119	HGNC	27884	protein_coding	YES	CCDS9119.1	ENSP00000376553	TM119_HUMAN	F8W0W9_HUMAN,F8VZL0_HUMAN,F8VS22_HUMAN	UPI0000049333	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTTCTGCTT	.	2	BLCA
ATP2A2	0	.	GRCh37	12	110784074	110784074	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2928G>C	p.%3D	p.V976V	ENST00000539276	20/20	89	77	12	78	78	0	ATP2A2,synonymous_variant,p.%3D,ENST00000395494,;ATP2A2,synonymous_variant,p.%3D,ENST00000548169,;ATP2A2,synonymous_variant,p.%3D,ENST00000308664,;ATP2A2,synonymous_variant,p.%3D,ENST00000539276,;ATP2A2,synonymous_variant,p.%3D,ENST00000553144,;ATP2A2,3_prime_UTR_variant,,ENST00000377685,;ATP2A2,non_coding_transcript_exon_variant,,ENST00000313432,;ATP2A2,downstream_gene_variant,,ENST00000547792,;	C	ENSG00000174437	ENST00000539276	Transcript	synonymous_variant	3037	2928	976	V	gtG/gtC	.	.	.	1	ATP2A2	HGNC	812	protein_coding	YES	CCDS9144.1	ENSP00000440045	AT2A2_HUMAN	.	UPI0000001C3A	.	.	.	20/20	.	hmmpanther:PTHR24093:SF234,hmmpanther:PTHR24093,Pfam_domain:PF00689,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCGTGATTCT	.	4	BLCA
RAD9B	0	.	GRCh37	12	110969422	110969422	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1278C>T	p.%3D	p.F426F	ENST00000392672	12/12	52	46	6	49	49	0	RAD9B,missense_variant,p.Ser321Phe,ENST00000409778,;RAD9B,synonymous_variant,p.%3D,ENST00000392672,;RAD9B,3_prime_UTR_variant,,ENST00000409300,;RAD9B,3_prime_UTR_variant,,ENST00000409246,;RAD9B,3_prime_UTR_variant,,ENST00000409425,;PPTC7,3_prime_UTR_variant,,ENST00000354300,;RAD9B,3_prime_UTR_variant,,ENST00000358071,;	T	ENSG00000151164	ENST00000392672	Transcript	synonymous_variant	1377	1278	426	F	ttC/ttT	.	.	.	1	RAD9B	HGNC	21700	protein_coding	YES	CCDS9148.2	ENSP00000376440	.	J3KPN7_HUMAN	UPI00001FB1B7	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTCTGTAT	.	4	BLCA
NAA25	0	.	GRCh37	12	112467399	112467399	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2855C>T	p.Ser952Leu	p.S952L	ENST00000261745	24/24	136	105	30	111	111	0	NAA25,missense_variant,p.Ser952Leu,ENST00000261745,;NAA25,3_prime_UTR_variant,,ENST00000549711,;NAA25,non_coding_transcript_exon_variant,,ENST00000552527,;NAA25,non_coding_transcript_exon_variant,,ENST00000548181,;	A	ENSG00000111300	ENST00000261745	Transcript	missense_variant	3104	2855	952	S/L	tCa/tTa	.	.	.	-1	NAA25	HGNC	25783	protein_coding	YES	CCDS9159.1	ENSP00000261745	NAA25_HUMAN	.	UPI00001FBB50	.	deleterious(0)	benign(0.424)	24/24	.	hmmpanther:PTHR22767,hmmpanther:PTHR22767:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGTGAGTGC	.	5	BLCA
TPCN1	0	.	GRCh37	12	113703991	113703991	+	Missense_Mutation	SNP	G	G	A	rs770682225	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460G>A	p.Glu154Lys	p.E154K	ENST00000550785	5/29	173	147	26	144	144	0	TPCN1,missense_variant,p.Glu14Lys,ENST00000552542,;TPCN1,missense_variant,p.Glu58Lys,ENST00000552642,;TPCN1,missense_variant,p.Glu154Lys,ENST00000541517,;TPCN1,missense_variant,p.Glu82Lys,ENST00000550873,;TPCN1,missense_variant,p.Glu137Lys,ENST00000547275,;TPCN1,missense_variant,p.Glu14Lys,ENST00000392569,;TPCN1,missense_variant,p.Glu14Lys,ENST00000548465,;TPCN1,missense_variant,p.Glu14Lys,ENST00000552897,;TPCN1,missense_variant,p.Glu82Lys,ENST00000335509,;TPCN1,missense_variant,p.Glu168Lys,ENST00000552985,;TPCN1,missense_variant,p.Glu154Lys,ENST00000550785,;TPCN1,non_coding_transcript_exon_variant,,ENST00000552077,;TPCN1,non_coding_transcript_exon_variant,,ENST00000428632,;	A	ENSG00000186815	ENST00000550785	Transcript	missense_variant	629	460	154	E/K	Gag/Aag	rs770682225	.	.	1	TPCN1	HGNC	18182	protein_coding	YES	CCDS44985.1	ENSP00000448083	TPC1_HUMAN	F8W1L6_HUMAN,F8W1G4_HUMAN,F8VZZ6_HUMAN,F8VV93_HUMAN,F8VR74_HUMAN,B7Z3R2_HUMAN	UPI00004066FB	.	tolerated(0.07)	benign(0.072)	5/29	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF201	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGCGAGAAC	byFrequency	4	BLCA
LRP6	0	.	GRCh37	12	12279758	12279758	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4179C>G	p.Ile1393Met	p.I1393M	ENST00000261349	20/23	100	88	12	83	83	0	LRP6,missense_variant,p.Ile1348Met,ENST00000543091,;LRP6,missense_variant,p.Ile1393Met,ENST00000261349,;BCL2L14,intron_variant,,ENST00000396369,;LRP6,intron_variant,,ENST00000540527,;LRP6,intron_variant,,ENST00000540415,;LRP6,missense_variant,p.Ile1258Met,ENST00000538239,;BCL2L14,intron_variant,,ENST00000298566,;	C	ENSG00000070018	ENST00000261349	Transcript	missense_variant	4256	4179	1393	I/M	atC/atG	.	.	.	-1	LRP6	HGNC	6698	protein_coding	YES	CCDS8647.1	ENSP00000261349	LRP6_HUMAN	F5H0Z3_HUMAN,B3KQA9_HUMAN	UPI00001FB66C	.	deleterious(0.02)	benign(0.163)	20/23	.	Transmembrane_helices:TMhelix,PIRSF_domain:PIRSF036314,hmmpanther:PTHR10529:SF109,hmmpanther:PTHR10529	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCAGATAAA	.	4	BLCA
ZCCHC8	0	.	GRCh37	12	122958430	122958430	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1738G>A	p.Glu580Lys	p.E580K	ENST00000336229	14/14	366	320	46	282	282	0	ZCCHC8,missense_variant,p.Glu191Lys,ENST00000538116,;ZCCHC8,missense_variant,p.Glu342Lys,ENST00000543897,;ZCCHC8,missense_variant,p.Glu342Lys,ENST00000536306,;ZCCHC8,missense_variant,p.Glu580Lys,ENST00000336229,;ZCCHC8,downstream_gene_variant,,ENST00000536663,;ZCCHC8,downstream_gene_variant,,ENST00000542892,;ZCCHC8,downstream_gene_variant,,ENST00000544054,;	T	ENSG00000033030	ENST00000336229	Transcript	missense_variant	1869	1738	580	E/K	Gag/Aag	.	.	.	-1	ZCCHC8	HGNC	25265	protein_coding	YES	.	ENSP00000337313	ZCHC8_HUMAN	F5H803_HUMAN,F5H6J5_HUMAN,F5GYI9_HUMAN,F5GXQ6_HUMAN	UPI00001E0582	.	deleterious(0.04)	benign(0.041)	14/14	.	hmmpanther:PTHR13316,hmmpanther:PTHR13316:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCATCCA	.	4	BLCA
DNAH10	0	.	GRCh37	12	124298405	124298405	+	Silent	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3372C>G	p.%3D	p.L1124L	ENST00000409039	20/78	28	23	5	27	27	0	DNAH10,synonymous_variant,p.%3D,ENST00000409039,;DNAH10,non_coding_transcript_exon_variant,,ENST00000447853,;DNAH10,non_coding_transcript_exon_variant,,ENST00000467219,;	G	ENSG00000197653	ENST00000409039	Transcript	synonymous_variant	3397	3372	1124	L	ctC/ctG	COSM3457624	.	.	1	DNAH10	HGNC	2941	protein_coding	YES	CCDS9255.2	ENSP00000386770	DYH10_HUMAN	.	UPI00014F7B89	.	.	.	20/78	.	hmmpanther:PTHR10676:SF135,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTCAGATA	.	5	BLCA
DNAH10	0	.	GRCh37	12	124382423	124382423	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9033G>C	p.Leu3011Phe	p.L3011F	ENST00000409039	54/78	107	90	17	74	74	0	DNAH10,missense_variant,p.Leu3011Phe,ENST00000409039,;	C	ENSG00000197653	ENST00000409039	Transcript	missense_variant	9058	9033	3011	L/F	ttG/ttC	.	.	.	1	DNAH10	HGNC	2941	protein_coding	YES	CCDS9255.2	ENSP00000386770	DYH10_HUMAN	.	UPI00014F7B89	.	.	possibly_damaging(0.887)	54/78	.	hmmpanther:PTHR10676:SF135,hmmpanther:PTHR10676,Pfam_domain:PF12780,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AAATTGAGGCG	.	3	BLCA
NCOR2	0	.	GRCh37	12	124826499	124826499	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5058C>G	p.Ile1686Met	p.I1686M	ENST00000405201	34/47	84	77	7	98	98	0	NCOR2,missense_variant,p.Ile1693Met,ENST00000356219,;NCOR2,missense_variant,p.Ile35Met,ENST00000453428,;NCOR2,missense_variant,p.Ile1247Met,ENST00000404121,;NCOR2,missense_variant,p.Ile1676Met,ENST00000429285,;NCOR2,missense_variant,p.Ile1686Met,ENST00000405201,;NCOR2,missense_variant,p.Ile1676Met,ENST00000404621,;NCOR2,missense_variant,p.Ile1677Met,ENST00000397355,;NCOR2,downstream_gene_variant,,ENST00000458234,;NCOR2,upstream_gene_variant,,ENST00000440187,;	C	ENSG00000196498	ENST00000405201	Transcript	missense_variant	5059	5058	1686	I/M	atC/atG	.	.	.	-1	NCOR2	HGNC	7673	protein_coding	YES	CCDS41858.2	ENSP00000384018	.	C9JFD3_HUMAN,C9J330_HUMAN	UPI000013D737	.	.	probably_damaging(0.997)	34/47	.	hmmpanther:PTHR13992:SF21,hmmpanther:PTHR13992	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCATTGATGAT	.	2	BLCA
ERC1	0	.	GRCh37	12	1289715	1289715	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1747C>G	p.Leu583Val	p.L583V	ENST00000397203	9/19	77	63	14	53	53	0	ERC1,missense_variant,p.Leu583Val,ENST00000546231,;ERC1,missense_variant,p.Leu583Val,ENST00000360905,;ERC1,missense_variant,p.Leu583Val,ENST00000589028,;ERC1,missense_variant,p.Leu583Val,ENST00000397203,;ERC1,missense_variant,p.Leu555Val,ENST00000543086,;ERC1,missense_variant,p.Leu583Val,ENST00000355446,;ERC1,non_coding_transcript_exon_variant,,ENST00000536573,;ERC1,missense_variant,p.Leu283Val,ENST00000545948,;ERC1,missense_variant,p.Leu583Val,ENST00000542302,;ERC1,missense_variant,p.Leu555Val,ENST00000440394,;ERC1,missense_variant,p.Leu555Val,ENST00000347735,;ERC1,non_coding_transcript_exon_variant,,ENST00000538971,;	G	ENSG00000082805	ENST00000397203	Transcript	missense_variant	2153	1747	583	L/V	Ctt/Gtt	COSM23076	.	.	1	ERC1	HGNC	17072	protein_coding	YES	CCDS8508.1	ENSP00000380386	RB6I2_HUMAN	K7EKH8_HUMAN,K7EIZ7_HUMAN	UPI000007479C	.	deleterious(0.03)	benign(0.313)	9/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18861,hmmpanther:PTHR18861:SF1,Pfam_domain:PF10174,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCTTCAA	.	5	BLCA
PUS1	0	.	GRCh37	12	132426504	132426504	+	Silent	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1212C>A	p.%3D	p.L404L	ENST00000376649	5/6	28	21	7	22	22	0	PUS1,synonymous_variant,p.%3D,ENST00000542167,;PUS1,synonymous_variant,p.%3D,ENST00000443358,;PUS1,synonymous_variant,p.%3D,ENST00000322060,;PUS1,synonymous_variant,p.%3D,ENST00000440818,;PUS1,synonymous_variant,p.%3D,ENST00000376649,;PUS1,intron_variant,,ENST00000535067,;PUS1,downstream_gene_variant,,ENST00000537484,;PUS1,downstream_gene_variant,,ENST00000538037,;PUS1,non_coding_transcript_exon_variant,,ENST00000543754,;	A	ENSG00000177192	ENST00000376649	Transcript	synonymous_variant	1712	1212	404	L	ctC/ctA	.	.	.	1	PUS1	HGNC	15508	protein_coding	YES	CCDS9275.2	ENSP00000365837	TRUA_HUMAN	E5KMT6_HUMAN,E5KMT5_HUMAN,G8JLB3_HUMAN,F5GY32_HUMAN	UPI000006FC81	.	.	.	5/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11142:SF4,hmmpanther:PTHR11142	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTCACGGC	.	2	BLCA
EP400NL	0	.	GRCh37	12	132589708	132589708	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.747C>G	p.Phe249Leu	p.F249L	ENST00000443539	5/6	72	62	10	52	52	0	EP400NL,missense_variant,p.Phe249Leu,ENST00000392352,;EP400NL,missense_variant,p.Phe312Leu,ENST00000389560,;EP400NL,missense_variant,p.Phe249Leu,ENST00000443539,;EP400NL,missense_variant,p.Phe381Leu,ENST00000376625,;EP400NL,missense_variant,p.Phe228Leu,ENST00000361109,;EP400NL,downstream_gene_variant,,ENST00000539205,;EP400NL,downstream_gene_variant,,ENST00000407361,;EP400NL,downstream_gene_variant,,ENST00000454179,;EP400NL,intron_variant,,ENST00000488030,;EP400NL,missense_variant,p.Phe313Leu,ENST00000332441,;EP400NL,missense_variant,p.Phe381Leu,ENST00000446190,;	G	ENSG00000185684	ENST00000443539	Transcript	missense_variant	1288	747	249	F/L	ttC/ttG	.	.	.	1	EP400NL	HGNC	26602	protein_coding	YES	.	ENSP00000404338	E400N_HUMAN	F2Z2G7_HUMAN	UPI00003E27F2	.	deleterious_low_confidence(0)	probably_damaging(0.995)	5/6	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF599	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTTCTTGCA	.	4	BLCA
NOC4L	0	.	GRCh37	12	132632648	132632648	+	Silent	SNP	G	G	A	rs745832393	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.735G>A	p.%3D	p.L245L	ENST00000330579	7/15	38	29	8	35	35	0	NOC4L,synonymous_variant,p.%3D,ENST00000330579,;NOC4L,synonymous_variant,p.%3D,ENST00000541954,;NOC4L,upstream_gene_variant,,ENST00000538784,;DDX51,upstream_gene_variant,,ENST00000397333,;NOC4L,non_coding_transcript_exon_variant,,ENST00000535343,;DDX51,upstream_gene_variant,,ENST00000329073,;	A	ENSG00000184967	ENST00000330579	Transcript	synonymous_variant	776	735	245	L	ctG/ctA	rs745832393,COSM937218	.	.	1	NOC4L	HGNC	28461	protein_coding	YES	CCDS9277.1	ENSP00000328854	NOC4L_HUMAN	F5H5K6_HUMAN	UPI00000723C4	.	.	.	7/15	.	hmmpanther:PTHR12455:SF0,hmmpanther:PTHR12455	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAAGGT	byFrequency	5	BLCA
PXMP2	0	.	GRCh37	12	133281207	133281207	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522C>T	p.%3D	p.F174F	ENST00000317479	5/5	102	84	18	94	94	0	PXMP2,missense_variant,p.Pro46Ser,ENST00000539093,;PXMP2,missense_variant,p.Pro46Ser,ENST00000545677,;PXMP2,missense_variant,p.Ser80Phe,ENST00000543589,;RP13-672B3.2,missense_variant,p.Pro46Ser,ENST00000537262,;PXMP2,missense_variant,p.Pro127Ser,ENST00000428960,;PXMP2,synonymous_variant,p.%3D,ENST00000317479,;PXMP2,downstream_gene_variant,,ENST00000454379,;	T	ENSG00000176894	ENST00000317479	Transcript	synonymous_variant	587	522	174	F	ttC/ttT	.	.	.	1	PXMP2	HGNC	9716	protein_coding	YES	CCDS9279.1	ENSP00000321271	PXMP2_HUMAN	.	UPI000016788C	.	.	.	5/5	.	hmmpanther:PTHR11266:SF7,hmmpanther:PTHR11266,Pfam_domain:PF04117	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTCCGGGT	.	5	BLCA
STRAP	0	.	GRCh37	12	16052899	16052899	+	Silent	SNP	C	C	T	rs368728573	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837C>T	p.%3D	p.L279L	ENST00000419869	8/10	123	105	17	93	93	0	STRAP,synonymous_variant,p.%3D,ENST00000025399,;STRAP,synonymous_variant,p.%3D,ENST00000419869,;STRAP,synonymous_variant,p.%3D,ENST00000538352,;STRAP,synonymous_variant,p.%3D,ENST00000538718,;STRAP,3_prime_UTR_variant,,ENST00000541731,;STRAP,downstream_gene_variant,,ENST00000536737,;STRAP,upstream_gene_variant,,ENST00000539887,;	T	ENSG00000023734	ENST00000419869	Transcript	synonymous_variant	1150	837	279	L	ctC/ctT	rs368728573	.	.	1	STRAP	HGNC	30796	protein_coding	YES	CCDS8676.1	ENSP00000392270	STRAP_HUMAN	B0AZV0_HUMAN	UPI0000137C97	.	.	.	8/10	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR19877,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTCTATGC	byFrequency|byCluster	4	BLCA
WNT5B	0	.	GRCh37	12	1748930	1748930	+	Missense_Mutation	SNP	G	G	C	rs771228804	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.409G>C	p.Glu137Gln	p.E137Q	ENST00000397196	4/5	26	21	5	19	19	0	WNT5B,missense_variant,p.Glu137Gln,ENST00000543071,;WNT5B,missense_variant,p.Glu137Gln,ENST00000537031,;WNT5B,missense_variant,p.Glu137Gln,ENST00000545811,;WNT5B,missense_variant,p.Glu137Gln,ENST00000310594,;WNT5B,missense_variant,p.Glu137Gln,ENST00000397196,;WNT5B,intron_variant,,ENST00000542408,;WNT5B,downstream_gene_variant,,ENST00000539198,;	C	ENSG00000111186	ENST00000397196	Transcript	missense_variant	641	409	137	E/Q	Gag/Cag	rs771228804,COSM3688114	.	.	1	WNT5B	HGNC	16265	protein_coding	YES	CCDS8510.1	ENSP00000380379	WNT5B_HUMAN	F5H7Q6_HUMAN,F5H364_HUMAN,F5H034_HUMAN	UPI0000138F3C	.	tolerated(0.33)	possibly_damaging(0.783)	4/5	.	hmmpanther:PTHR12027,hmmpanther:PTHR12027:SF87,Pfam_domain:PF00110,SMART_domains:SM00097,Prints_domain:PR01349	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGCGAGCTC	.	2	BLCA
PIK3C2G	0	.	GRCh37	12	18435561	18435561	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546C>T	p.%3D	p.F182F	ENST00000433979	2/32	112	97	14	105	105	0	PIK3C2G,synonymous_variant,p.%3D,ENST00000535651,;PIK3C2G,synonymous_variant,p.%3D,ENST00000538779,;PIK3C2G,synonymous_variant,p.%3D,ENST00000266497,;PIK3C2G,synonymous_variant,p.%3D,ENST00000433979,;RERGL,intron_variant,,ENST00000541632,;PIK3C2G,upstream_gene_variant,,ENST00000536967,;PIK3C2G,synonymous_variant,p.%3D,ENST00000546003,;	T	ENSG00000139144	ENST00000433979	Transcript	synonymous_variant	662	546	182	F	ttC/ttT	.	.	.	1	PIK3C2G	HGNC	8973	protein_coding	YES	CCDS44839.1	ENSP00000404845	P3C2G_HUMAN	.	UPI000013D6EF	.	.	.	2/32	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTCAAG	.	4	BLCA
LRTM2	0	.	GRCh37	12	1940420	1940420	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387G>C	p.Arg129Ser	p.R129S	ENST00000543818	4/5	115	96	19	87	87	0	LRTM2,missense_variant,p.Arg129Ser,ENST00000535041,;LRTM2,missense_variant,p.Arg129Ser,ENST00000543818,;LRTM2,missense_variant,p.Arg129Ser,ENST00000299194,;CACNA2D4,intron_variant,,ENST00000585732,;CACNA2D4,intron_variant,,ENST00000587995,;CACNA2D4,intron_variant,,ENST00000586184,;CACNA2D4,intron_variant,,ENST00000382722,;CACNA2D4,intron_variant,,ENST00000588077,;CACNA2D4,intron_variant,,ENST00000585708,;LRTM2,downstream_gene_variant,,ENST00000546167,;LRTM2,downstream_gene_variant,,ENST00000543694,;LRTM2,intron_variant,,ENST00000543730,;LRTM2,downstream_gene_variant,,ENST00000546157,;LRTM2,downstream_gene_variant,,ENST00000540378,;LRTM2,downstream_gene_variant,,ENST00000539859,;LRTM2,downstream_gene_variant,,ENST00000544489,;LRTM2,downstream_gene_variant,,ENST00000545157,;LRTM2,downstream_gene_variant,,ENST00000542529,;CACNA2D4,intron_variant,,ENST00000444595,;CACNA2D4,intron_variant,,ENST00000280663,;CACNA2D4,intron_variant,,ENST00000537784,;	C	ENSG00000166159	ENST00000543818	Transcript	missense_variant	1229	387	129	R/S	agG/agC	.	.	.	1	LRTM2	HGNC	32443	protein_coding	YES	CCDS31726.1	ENSP00000446278	LRTM2_HUMAN	F5H2B4_HUMAN,F5GZY9_HUMAN	UPI00000714D3	.	tolerated(0.42)	benign(0.289)	4/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373:SF103,hmmpanther:PTHR24373,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCAGGACCCT	.	5	BLCA
SOX5	0	.	GRCh37	12	23793809	23793809	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954G>A	p.%3D	p.L318L	ENST00000451604	8/15	65	56	8	49	49	0	SOX5,synonymous_variant,p.%3D,ENST00000309359,;SOX5,synonymous_variant,p.%3D,ENST00000381381,;SOX5,synonymous_variant,p.%3D,ENST00000546136,;SOX5,synonymous_variant,p.%3D,ENST00000537393,;SOX5,synonymous_variant,p.%3D,ENST00000541536,;SOX5,synonymous_variant,p.%3D,ENST00000451604,;SOX5,synonymous_variant,p.%3D,ENST00000545921,;RP11-437F6.1,downstream_gene_variant,,ENST00000546118,;SOX5,non_coding_transcript_exon_variant,,ENST00000536629,;SOX5,non_coding_transcript_exon_variant,,ENST00000535530,;SOX5,synonymous_variant,p.%3D,ENST00000367206,;SOX5,non_coding_transcript_exon_variant,,ENST00000536911,;	T	ENSG00000134532	ENST00000451604	Transcript	synonymous_variant	1056	954	318	L	ctG/ctA	.	.	.	-1	SOX5	HGNC	11201	protein_coding	YES	CCDS8699.1	ENSP00000398273	SOX5_HUMAN	T2CYZ2_HUMAN,F5GWL1_HUMAN	UPI000007405E	.	.	.	8/15	.	hmmpanther:PTHR10270,hmmpanther:PTHR10270:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGATCAGCTG	.	4	BLCA
ITPR2	0	.	GRCh37	12	26553145	26553145	+	Silent	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7446C>A	p.%3D	p.L2482L	ENST00000381340	53/57	179	146	33	114	114	0	ITPR2,synonymous_variant,p.%3D,ENST00000381340,;RP11-513G19.1,intron_variant,,ENST00000535324,;ITPR2,3_prime_UTR_variant,,ENST00000451599,;	T	ENSG00000123104	ENST00000381340	Transcript	synonymous_variant	7863	7446	2482	L	ctC/ctA	.	.	.	-1	ITPR2	HGNC	6181	protein_coding	YES	CCDS41764.1	ENSP00000370744	ITPR2_HUMAN	I1VE21_HUMAN	UPI00001FB7D2	.	.	.	53/57	.	hmmpanther:PTHR13715,Pfam_domain:PF00520	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAAGGAGAGT	.	4	BLCA
ITPR2	0	.	GRCh37	12	26878699	26878699	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164-1G>C	.	p.X55_splice	ENST00000381340	.	98	81	17	74	74	0	ITPR2,splice_acceptor_variant,,ENST00000242737,;ITPR2,splice_acceptor_variant,,ENST00000381340,;ITPR2,non_coding_transcript_exon_variant,,ENST00000536627,;ITPR2,splice_acceptor_variant,,ENST00000545235,;	G	ENSG00000123104	ENST00000381340	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	ITPR2	HGNC	6181	protein_coding	YES	CCDS41764.1	ENSP00000370744	ITPR2_HUMAN	I1VE21_HUMAN	UPI00001FB7D2	.	.	.	.	2/56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTCTGTGA	.	5	BLCA
BICD1	0	.	GRCh37	12	32487456	32487456	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2107G>A	p.Glu703Lys	p.E703K	ENST00000281474	6/10	48	38	9	48	48	0	BICD1,missense_variant,p.Glu703Lys,ENST00000281474,;BICD1,missense_variant,p.Glu703Lys,ENST00000548411,;BICD1,downstream_gene_variant,,ENST00000547680,;BICD1,missense_variant,p.Glu703Lys,ENST00000395758,;BICD1,non_coding_transcript_exon_variant,,ENST00000552160,;BICD1,upstream_gene_variant,,ENST00000552226,;	A	ENSG00000151746	ENST00000281474	Transcript	missense_variant	2210	2107	703	E/K	Gag/Aag	.	.	.	1	BICD1	HGNC	1049	protein_coding	YES	CCDS8726.1	ENSP00000281474	BICD1_HUMAN	.	UPI00001AEA67	.	deleterious(0)	probably_damaging(0.997)	6/10	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF09730,hmmpanther:PTHR31233:SF3,hmmpanther:PTHR31233	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGCTGAGGTG	.	3	BLCA
KDM5A	0	.	GRCh37	12	427339	427339	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2830G>A	p.Glu944Lys	p.E944K	ENST00000399788	19/28	154	123	31	138	138	0	KDM5A,missense_variant,p.Glu944Lys,ENST00000382815,;KDM5A,missense_variant,p.Glu563Lys,ENST00000544760,;KDM5A,missense_variant,p.Glu944Lys,ENST00000399788,;KDM5A,downstream_gene_variant,,ENST00000541335,;	T	ENSG00000073614	ENST00000399788	Transcript	missense_variant	3193	2830	944	E/K	Gaa/Aaa	.	.	.	-1	KDM5A	HGNC	9886	protein_coding	YES	CCDS41736.1	ENSP00000382688	KDM5A_HUMAN	.	UPI0000DB2E73	.	tolerated(0.46)	benign(0.05)	19/28	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF17,Pfam_domain:PF08429	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTCAGCCA	.	5	BLCA
KDM5A	0	.	GRCh37	12	443421	443421	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1476C>G	p.Ile492Met	p.I492M	ENST00000399788	11/28	142	118	24	98	98	0	KDM5A,missense_variant,p.Ile492Met,ENST00000382815,;KDM5A,missense_variant,p.Ile111Met,ENST00000544760,;KDM5A,missense_variant,p.Ile492Met,ENST00000399788,;KDM5A,non_coding_transcript_exon_variant,,ENST00000544777,;	C	ENSG00000073614	ENST00000399788	Transcript	missense_variant	1839	1476	492	I/M	atC/atG	.	.	.	-1	KDM5A	HGNC	9886	protein_coding	YES	CCDS41736.1	ENSP00000382688	KDM5A_HUMAN	.	UPI0000DB2E73	.	deleterious(0)	probably_damaging(0.996)	11/28	.	PROSITE_profiles:PS51184,hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF17,Pfam_domain:PF02373,SMART_domains:SM00558,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGTTGATGGA	.	4	BLCA
KDM5A	0	.	GRCh37	12	475238	475238	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>T	p.%3D	p.V133V	ENST00000399788	4/28	378	317	61	278	277	1	KDM5A,synonymous_variant,p.%3D,ENST00000382815,;KDM5A,synonymous_variant,p.%3D,ENST00000399788,;KDM5A,synonymous_variant,p.%3D,ENST00000536014,;KDM5A,synonymous_variant,p.%3D,ENST00000535014,;KDM5A,intron_variant,,ENST00000544760,;	A	ENSG00000073614	ENST00000399788	Transcript	synonymous_variant	762	399	133	V	gtC/gtT	.	.	.	-1	KDM5A	HGNC	9886	protein_coding	YES	CCDS41736.1	ENSP00000382688	KDM5A_HUMAN	.	UPI0000DB2E73	.	.	.	4/28	.	PROSITE_profiles:PS51011,hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF17,Gene3D:1.10.150.60,Pfam_domain:PF01388,SMART_domains:SM00501,SMART_domains:SM01014,Superfamily_domains:SSF46774	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGTGACCAT	.	4	BLCA
ADCY6	0	.	GRCh37	12	49170016	49170016	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1653C>T	p.%3D	p.L551L	ENST00000307885	7/21	81	71	10	54	54	0	ADCY6,synonymous_variant,p.%3D,ENST00000307885,;ADCY6,synonymous_variant,p.%3D,ENST00000550422,;ADCY6,synonymous_variant,p.%3D,ENST00000357869,;ADCY6,downstream_gene_variant,,ENST00000548820,;MIR4701,upstream_gene_variant,,ENST00000583094,;ADCY6,non_coding_transcript_exon_variant,,ENST00000552090,;ADCY6,upstream_gene_variant,,ENST00000548351,;ADCY6,upstream_gene_variant,,ENST00000547260,;ADCY6,upstream_gene_variant,,ENST00000552099,;ADCY6,downstream_gene_variant,,ENST00000551435,;	A	ENSG00000174233	ENST00000307885	Transcript	synonymous_variant	2348	1653	551	L	ctC/ctT	.	.	.	-1	ADCY6	HGNC	237	protein_coding	YES	CCDS8767.1	ENSP00000311405	ADCY6_HUMAN	Q9NR74_HUMAN,Q6LCE1_HUMAN	UPI000003EC29	.	.	.	7/21	.	hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF263,Gene3D:3.30.70.1230,Superfamily_domains:SSF55073	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGATGAGGAA	.	4	BLCA
CACNB3	0	.	GRCh37	12	49219263	49219263	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.620G>C	p.Arg207Thr	p.R207T	ENST00000301050	8/13	80	71	9	74	74	0	CACNB3,missense_variant,p.Arg180Thr,ENST00000547392,;CACNB3,missense_variant,p.Arg31Thr,ENST00000550064,;CACNB3,missense_variant,p.Arg207Thr,ENST00000301050,;CACNB3,missense_variant,p.Arg206Thr,ENST00000536187,;CACNB3,missense_variant,p.Arg31Thr,ENST00000547818,;CACNB3,missense_variant,p.Arg166Thr,ENST00000547230,;CACNB3,missense_variant,p.Arg194Thr,ENST00000540990,;CACNB3,intron_variant,,ENST00000550190,;CACNB3,downstream_gene_variant,,ENST00000548279,;DDX23,downstream_gene_variant,,ENST00000308025,;DDX23,downstream_gene_variant,,ENST00000550834,;CACNB3,downstream_gene_variant,,ENST00000550168,;CACNB3,downstream_gene_variant,,ENST00000552022,;CACNB3,downstream_gene_variant,,ENST00000549971,;CACNB3,3_prime_UTR_variant,,ENST00000550391,;CACNB3,3_prime_UTR_variant,,ENST00000548874,;CACNB3,3_prime_UTR_variant,,ENST00000550483,;CACNB3,3_prime_UTR_variant,,ENST00000551544,;CACNB3,non_coding_transcript_exon_variant,,ENST00000552480,;CACNB3,non_coding_transcript_exon_variant,,ENST00000548860,;CACNB3,downstream_gene_variant,,ENST00000549226,;CACNB3,downstream_gene_variant,,ENST00000551716,;CACNB3,downstream_gene_variant,,ENST00000552812,;CACNB3,downstream_gene_variant,,ENST00000547693,;CACNB3,downstream_gene_variant,,ENST00000550771,;	C	ENSG00000167535	ENST00000301050	Transcript	missense_variant	819	620	207	R/T	aGa/aCa	.	.	.	1	CACNB3	HGNC	1403	protein_coding	YES	CCDS8769.1	ENSP00000301050	CACB3_HUMAN	F8VUW8_HUMAN,F8VU10_HUMAN	UPI000000D9BA	.	deleterious(0)	probably_damaging(0.996)	8/13	.	hmmpanther:PTHR11824,Pfam_domain:PF00625,Gene3D:3.40.50.300,SMART_domains:SM00072,Superfamily_domains:SSF52540,Prints_domain:PR01626	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACACAGATTTG	.	4	BLCA
SPATS2	0	.	GRCh37	12	49888605	49888605	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346C>G	p.Gln116Glu	p.Q116E	ENST00000553127	8/15	47	41	6	39	39	0	SPATS2,missense_variant,p.Gln116Glu,ENST00000321898,;SPATS2,missense_variant,p.Gln116Glu,ENST00000553127,;SPATS2,missense_variant,p.Gln116Glu,ENST00000552918,;SPATS2,downstream_gene_variant,,ENST00000550997,;SPATS2,downstream_gene_variant,,ENST00000551540,;SPATS2,non_coding_transcript_exon_variant,,ENST00000552557,;SPATS2,non_coding_transcript_exon_variant,,ENST00000552655,;SPATS2,missense_variant,p.Gln116Glu,ENST00000549412,;SPATS2,3_prime_UTR_variant,,ENST00000549045,;SPATS2,downstream_gene_variant,,ENST00000549375,;	G	ENSG00000123352	ENST00000553127	Transcript	missense_variant	859	346	116	Q/E	Caa/Gaa	COSM3461667	.	.	1	SPATS2	HGNC	18650	protein_coding	YES	CCDS31794.1	ENSP00000448228	SPAS2_HUMAN	F8W128_HUMAN,F8VZS5_HUMAN,F8VXP9_HUMAN,F8VXB3_HUMAN,F8VX46_HUMAN,F8VRH4_HUMAN	UPI0000171C5F	.	tolerated(0.81)	benign(0.01)	8/15	.	Pfam_domain:PF07139,hmmpanther:PTHR15623:SF9,hmmpanther:PTHR15623	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATTCAAGAG	.	4	BLCA
KCNA1	0	.	GRCh37	12	5020817	5020817	+	Silent	SNP	C	C	T	rs770849823	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.273C>T	p.%3D	p.A91A	ENST00000382545	2/2	138	116	22	83	83	0	KCNA1,synonymous_variant,p.%3D,ENST00000382545,;KCNA1,intron_variant,,ENST00000541095,;KCNA1,intron_variant,,ENST00000543874,;	T	ENSG00000111262	ENST00000382545	Transcript	synonymous_variant	1380	273	91	A	gcC/gcT	rs770849823	.	.	1	KCNA1	HGNC	6218	protein_coding	YES	CCDS8535.1	ENSP00000371985	KCNA1_HUMAN	.	UPI000013C8E0	.	.	.	2/2	.	Prints_domain:PR00169,Superfamily_domains:SSF54695,SMART_domains:SM00225,Pfam_domain:PF02214,Gene3D:3.30.710.10,hmmpanther:PTHR11537:SF24,hmmpanther:PTHR11537	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F89F|c.267C>T|3	RADIA|MUTECT|MUSE|VARSCANS	GACGCCATCCT	byFrequency	4	BLCA
TFCP2	0	.	GRCh37	12	51511519	51511519	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>C	p.Glu96Gln	p.E96Q	ENST00000257915	3/15	68	57	10	51	51	0	TFCP2,missense_variant,p.Glu96Gln,ENST00000257915,;TFCP2,missense_variant,p.Glu96Gln,ENST00000548115,;TFCP2,missense_variant,p.Glu96Gln,ENST00000307660,;TFCP2,missense_variant,p.Glu96Gln,ENST00000549867,;TFCP2,5_prime_UTR_variant,,ENST00000548108,;	G	ENSG00000135457	ENST00000257915	Transcript	missense_variant	745	286	96	E/Q	Gaa/Caa	.	.	.	-1	TFCP2	HGNC	11748	protein_coding	YES	CCDS8808.1	ENSP00000257915	TFCP2_HUMAN	F8VWL0_HUMAN	UPI0000071CCA	.	deleterious(0)	probably_damaging(0.993)	3/15	.	Pfam_domain:PF04516,hmmpanther:PTHR11037,hmmpanther:PTHR11037:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATTTCATAAG	.	4	BLCA
BIN2	0	.	GRCh37	12	51707673	51707673	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96G>A	p.%3D	p.L32L	ENST00000267012	2/13	114	98	15	75	75	0	BIN2,synonymous_variant,p.%3D,ENST00000267012,;BIN2,synonymous_variant,p.%3D,ENST00000544402,;BIN2,synonymous_variant,p.%3D,ENST00000452142,;BIN2,intron_variant,,ENST00000604560,;BIN2,synonymous_variant,p.%3D,ENST00000605423,;BIN2,non_coding_transcript_exon_variant,,ENST00000605039,;	T	ENSG00000110934	ENST00000267012	Transcript	synonymous_variant	158	96	32	L	ttG/ttA	.	.	.	-1	BIN2	HGNC	1053	protein_coding	YES	CCDS8811.1	ENSP00000267012	BIN2_HUMAN	.	UPI000013D71F	.	.	.	2/13	.	PROSITE_profiles:PS51021,hmmpanther:PTHR10321:SF11,hmmpanther:PTHR10321,Pfam_domain:PF03114,SMART_domains:SM00721,Superfamily_domains:SSF103657,Prints_domain:PR01251	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCCCAATTT	.	4	BLCA
ESPL1	0	.	GRCh37	12	53682428	53682428	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4653G>C	p.Glu1551Asp	p.E1551D	ENST00000257934	20/31	70	58	11	62	62	0	ESPL1,missense_variant,p.Glu1551Asp,ENST00000257934,;ESPL1,missense_variant,p.Glu1551Asp,ENST00000552462,;ESPL1,3_prime_UTR_variant,,ENST00000552671,;ESPL1,non_coding_transcript_exon_variant,,ENST00000552600,;ESPL1,non_coding_transcript_exon_variant,,ENST00000553016,;ESPL1,non_coding_transcript_exon_variant,,ENST00000549154,;ESPL1,downstream_gene_variant,,ENST00000535123,;	C	ENSG00000135476	ENST00000257934	Transcript	missense_variant	4744	4653	1551	E/D	gaG/gaC	.	.	.	1	ESPL1	HGNC	16856	protein_coding	YES	CCDS8852.1	ENSP00000257934	ESPL1_HUMAN	H3BRX7_HUMAN	UPI00003668C3	.	tolerated(0.29)	benign(0.001)	20/31	.	hmmpanther:PTHR12792	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGAGAGTGA	.	5	BLCA
PDE1B	0	.	GRCh37	12	54966478	54966478	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688G>A	p.Asp230Asn	p.D230N	ENST00000243052	7/16	414	347	66	344	344	0	PDE1B,missense_variant,p.Asp189Asn,ENST00000538346,;PDE1B,missense_variant,p.Asp210Asn,ENST00000550620,;PDE1B,missense_variant,p.Asp230Asn,ENST00000243052,;PPP1R1A,downstream_gene_variant,,ENST00000547431,;PDE1B,non_coding_transcript_exon_variant,,ENST00000394277,;PDE1B,non_coding_transcript_exon_variant,,ENST00000542335,;PDE1B,3_prime_UTR_variant,,ENST00000550285,;PDE1B,non_coding_transcript_exon_variant,,ENST00000548855,;PDE1B,upstream_gene_variant,,ENST00000552774,;	A	ENSG00000123360	ENST00000243052	Transcript	missense_variant	1124	688	230	D/N	Gat/Aat	COSM941179	.	.	1	PDE1B	HGNC	8775	protein_coding	YES	CCDS8882.1	ENSP00000243052	PDE1B_HUMAN	Q7Z364_HUMAN,B4DK72_HUMAN,B3KX78_HUMAN	UPI0000001607	.	deleterious(0)	probably_damaging(0.953)	7/16	.	hmmpanther:PTHR11347,hmmpanther:PTHR11347:SF83,Pfam_domain:PF00233,Gene3D:1.10.1300.10,SMART_domains:SM00471,Superfamily_domains:SSF109604,Prints_domain:PR00387	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCCGATGTT	.	4	BLCA
ERBB3	0	.	GRCh37	12	56492571	56492571	+	Silent	SNP	C	C	T	rs780969100	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2721C>T	p.%3D	p.F907F	ENST00000267101	23/28	153	136	16	107	107	0	ERBB3,synonymous_variant,p.%3D,ENST00000553131,;ERBB3,synonymous_variant,p.%3D,ENST00000415288,;ERBB3,synonymous_variant,p.%3D,ENST00000450146,;ERBB3,synonymous_variant,p.%3D,ENST00000267101,;ERBB3,synonymous_variant,p.%3D,ENST00000550070,;ERBB3,synonymous_variant,p.%3D,ENST00000549832,;RP11-603J24.9,upstream_gene_variant,,ENST00000548861,;ERBB3,3_prime_UTR_variant,,ENST00000551085,;ERBB3,non_coding_transcript_exon_variant,,ENST00000548709,;ERBB3,intron_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;ERBB3,downstream_gene_variant,,ENST00000549644,;ERBB3,downstream_gene_variant,,ENST00000550828,;ERBB3,downstream_gene_variant,,ENST00000549205,;ERBB3,upstream_gene_variant,,ENST00000552691,;	T	ENSG00000065361	ENST00000267101	Transcript	synonymous_variant	3161	2721	907	F	ttC/ttT	rs780969100,COSM1606370,COSM1606369	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	.	.	23/28	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF88,hmmpanther:PTHR24416,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCGGGGC	byFrequency	4	BLCA
ZC3H10	0	.	GRCh37	12	56514595	56514595	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249G>A	p.%3D	p.Q83Q	ENST00000257940	3/3	104	90	13	89	89	0	ZC3H10,synonymous_variant,p.%3D,ENST00000257940,;ZC3H10,synonymous_variant,p.%3D,ENST00000546903,;ESYT1,intron_variant,,ENST00000551790,;ZC3H10,downstream_gene_variant,,ENST00000551880,;RPL41,downstream_gene_variant,,ENST00000546591,;RPL41,downstream_gene_variant,,ENST00000501597,;ZC3H10,downstream_gene_variant,,ENST00000552345,;RP11-603J24.5,non_coding_transcript_exon_variant,,ENST00000549438,;RP11-603J24.5,intron_variant,,ENST00000550947,;RP11-603J24.6,upstream_gene_variant,,ENST00000550840,;RPL41,downstream_gene_variant,,ENST00000546654,;ZC3H10,downstream_gene_variant,,ENST00000549973,;RPL41,downstream_gene_variant,,ENST00000546485,;RPL41,downstream_gene_variant,,ENST00000552314,;RPL41,downstream_gene_variant,,ENST00000358888,;	A	ENSG00000135482	ENST00000257940	Transcript	synonymous_variant	525	249	83	Q	caG/caA	.	.	.	1	ZC3H10	HGNC	25893	protein_coding	YES	CCDS8903.1	ENSP00000257940	ZC3HA_HUMAN	F8VYY3_HUMAN,F8VSG0_HUMAN,F8VQT2_HUMAN	UPI0000070771	.	.	.	3/3	.	SMART_domains:SM00356,hmmpanther:PTHR12675,PROSITE_profiles:PS50103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCAGAACAA	.	4	BLCA
RBMS2	0	.	GRCh37	12	56974983	56974983	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.558G>C	p.Glu186Asp	p.E186D	ENST00000262031	6/14	217	193	24	198	198	0	RBMS2,missense_variant,p.Glu186Asp,ENST00000552247,;RBMS2,missense_variant,p.Glu61Asp,ENST00000550726,;RBMS2,missense_variant,p.Glu186Asp,ENST00000262031,;RBMS2,missense_variant,p.Glu41Asp,ENST00000542360,;RBMS2,non_coding_transcript_exon_variant,,ENST00000552228,;RBMS2,intron_variant,,ENST00000552916,;	C	ENSG00000076067	ENST00000262031	Transcript	missense_variant	653	558	186	E/D	gaG/gaC	.	.	.	1	RBMS2	HGNC	9909	protein_coding	YES	CCDS8923.1	ENSP00000262031	RBMS2_HUMAN	F8VV01_HUMAN	UPI000006EEB0	.	tolerated(0.08)	benign(0.428)	6/14	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Pfam_domain:PF00076,Gene3D:3.30.70.330,hmmpanther:PTHR24011:SF257,hmmpanther:PTHR24011,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAGAGAAGTG	.	4	BLCA
ATP5B	0	.	GRCh37	12	57032035	57032035	+	3'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*72G>A	.	.	ENST00000262030	10/10	66	57	9	33	33	0	ATP5B,3_prime_UTR_variant,,ENST00000552919,;ATP5B,3_prime_UTR_variant,,ENST00000262030,;ATP5B,downstream_gene_variant,,ENST00000551570,;ATP5B,downstream_gene_variant,,ENST00000552104,;BAZ2A,upstream_gene_variant,,ENST00000379441,;ATP5B,downstream_gene_variant,,ENST00000552959,;ATP5B,downstream_gene_variant,,ENST00000553007,;BAZ2A,upstream_gene_variant,,ENST00000549506,;BAZ2A,upstream_gene_variant,,ENST00000551812,;BAZ2A,upstream_gene_variant,,ENST00000179765,;ATP5B,downstream_gene_variant,,ENST00000551020,;ATP5B,non_coding_transcript_exon_variant,,ENST00000548474,;ATP5B,downstream_gene_variant,,ENST00000547808,;ATP5B,downstream_gene_variant,,ENST00000550162,;BAZ2A,upstream_gene_variant,,ENST00000550730,;ATP5B,downstream_gene_variant,,ENST00000551182,;ATP5B,downstream_gene_variant,,ENST00000547250,;	T	ENSG00000110955	ENST00000262030	Transcript	3_prime_UTR_variant	1713	.	.	.	.	.	.	.	-1	ATP5B	HGNC	830	protein_coding	YES	CCDS8924.1	ENSP00000262030	ATPB_HUMAN	Q0QEN7_HUMAN	UPI000012644E	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTGCAGCCT	.	4	BLCA
AGAP2	0	.	GRCh37	12	58135768	58135768	+	5'Flank	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000547588	.	131	112	19	117	117	0	AGAP2,synonymous_variant,p.%3D,ENST00000257897,;AGAP2,upstream_gene_variant,,ENST00000328568,;AGAP2,upstream_gene_variant,,ENST00000547588,;TSPAN31,upstream_gene_variant,,ENST00000552816,;TSPAN31,upstream_gene_variant,,ENST00000548167,;TSPAN31,upstream_gene_variant,,ENST00000547472,;TSPAN31,upstream_gene_variant,,ENST00000547992,;TSPAN31,upstream_gene_variant,,ENST00000257910,;TSPAN31,intron_variant,,ENST00000547311,;TSPAN31,intron_variant,,ENST00000550528,;TSPAN31,intron_variant,,ENST00000553221,;TSPAN31,upstream_gene_variant,,ENST00000548093,;TSPAN31,upstream_gene_variant,,ENST00000550791,;TSPAN31,upstream_gene_variant,,ENST00000546993,;TSPAN31,upstream_gene_variant,,ENST00000546922,;TSPAN31,upstream_gene_variant,,ENST00000549052,;TSPAN31,upstream_gene_variant,,ENST00000553089,;	C	ENSG00000135439	ENST00000547588	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	3739	-1	AGAP2	HGNC	16921	protein_coding	YES	CCDS44932.1	ENSP00000449241	.	F8VVT9_HUMAN,B3KVD5_HUMAN	UPI00001AF80C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTGAGGCG	.	4	BLCA
AVPR1A	0	.	GRCh37	12	63541315	63541315	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1081C>G	p.Gln361Glu	p.Q361E	ENST00000299178	2/2	173	144	29	165	165	0	AVPR1A,missense_variant,p.Gln361Glu,ENST00000299178,;AVPR1A,missense_variant,p.Gln142Glu,ENST00000550940,;	C	ENSG00000166148	ENST00000299178	Transcript	missense_variant	1187	1081	361	Q/E	Caa/Gaa	.	.	.	-1	AVPR1A	HGNC	895	protein_coding	YES	CCDS8965.1	ENSP00000299178	V1AR_HUMAN	.	UPI0000050439	.	tolerated(0.08)	benign(0.006)	2/2	.	hmmpanther:PTHR24241,hmmpanther:PTHR24241:SF17,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00752	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTTGAACAC	.	4	BLCA
SRGAP1	0	.	GRCh37	12	64536403	64536403	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3209G>T	p.Gly1070Val	p.G1070V	ENST00000355086	22/22	91	84	7	70	70	0	SRGAP1,missense_variant,p.Gly1007Val,ENST00000543397,;SRGAP1,missense_variant,p.Gly1047Val,ENST00000357825,;SRGAP1,missense_variant,p.Gly1070Val,ENST00000355086,;RP11-196H14.3,downstream_gene_variant,,ENST00000536455,;SRGAP1,downstream_gene_variant,,ENST00000542841,;	T	ENSG00000196935	ENST00000355086	Transcript	missense_variant	3733	3209	1070	G/V	gGa/gTa	.	.	.	1	SRGAP1	HGNC	17382	protein_coding	YES	CCDS8967.1	ENSP00000347198	SRGP1_HUMAN	.	UPI00001A9CB9	.	tolerated_low_confidence(0.06)	benign(0.197)	22/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14166,hmmpanther:PTHR14166:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATAGGACCTG	.	3	BLCA
B4GALNT3	0	.	GRCh37	12	662974	662974	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1885G>C	p.Asp629His	p.D629H	ENST00000266383	14/20	128	111	17	112	112	0	B4GALNT3,missense_variant,p.Asp532His,ENST00000322843,;B4GALNT3,missense_variant,p.Asp629His,ENST00000266383,;B4GALNT3,non_coding_transcript_exon_variant,,ENST00000535402,;	C	ENSG00000139044	ENST00000266383	Transcript	missense_variant	1898	1885	629	D/H	Gac/Cac	.	.	.	1	B4GALNT3	HGNC	24137	protein_coding	YES	CCDS8504.1	ENSP00000266383	B4GN3_HUMAN	.	UPI0000366851	.	deleterious(0)	probably_damaging(0.997)	14/20	.	hmmpanther:PTHR12369:SF15,hmmpanther:PTHR12369	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTTTGACCCG	.	4	BLCA
GPR162	0	.	GRCh37	12	6933319	6933319	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255G>C	p.Trp85Cys	p.W85C	ENST00000311268	2/5	109	93	15	112	112	0	GPR162,missense_variant,p.Trp85Cys,ENST00000311268,;GPR162,intron_variant,,ENST00000428545,;GPR162,intron_variant,,ENST00000382315,;GPR162,upstream_gene_variant,,ENST00000545321,;LEPREL2,upstream_gene_variant,,ENST00000251761,;LEPREL2,upstream_gene_variant,,ENST00000396725,;CD4,downstream_gene_variant,,ENST00000011653,;GPR162,non_coding_transcript_exon_variant,,ENST00000541431,;GPR162,upstream_gene_variant,,ENST00000542330,;GPR162,non_coding_transcript_exon_variant,,ENST00000535220,;CD4,downstream_gene_variant,,ENST00000437800,;LEPREL2,upstream_gene_variant,,ENST00000536140,;LEPREL2,upstream_gene_variant,,ENST00000606935,;	C	ENSG00000250510	ENST00000311268	Transcript	missense_variant	1042	255	85	W/C	tgG/tgC	.	.	.	1	GPR162	HGNC	16693	protein_coding	YES	CCDS8563.1	ENSP00000311528	GP162_HUMAN	J3KPJ9_HUMAN	UPI000005046E	.	deleterious(0)	probably_damaging(0.999)	2/5	.	PROSITE_profiles:PS50262,hmmpanther:PTHR16518:SF6,hmmpanther:PTHR16518,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTGGAACGA	.	4	BLCA
PTPRB	0	.	GRCh37	12	70949010	70949010	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5073C>T	p.%3D	p.V1691V	ENST00000334414	20/34	72	61	11	48	48	0	PTPRB,synonymous_variant,p.%3D,ENST00000538708,;PTPRB,synonymous_variant,p.%3D,ENST00000550358,;PTPRB,synonymous_variant,p.%3D,ENST00000261266,;PTPRB,synonymous_variant,p.%3D,ENST00000451516,;PTPRB,synonymous_variant,p.%3D,ENST00000550857,;PTPRB,synonymous_variant,p.%3D,ENST00000334414,;PTPRB,downstream_gene_variant,,ENST00000551525,;PTPRB,downstream_gene_variant,,ENST00000548122,;	A	ENSG00000127329	ENST00000334414	Transcript	synonymous_variant	5118	5073	1691	V	gtC/gtT	.	.	.	-1	PTPRB	HGNC	9665	protein_coding	YES	CCDS44943.1	ENSP00000334928	PTPRB_HUMAN	.	UPI00002294FA	.	.	.	20/34	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF219,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGTTGACAGT	.	4	BLCA
CLLU1OS	0	.	GRCh37	12	92814910	92814910	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.182C>G	p.Ser61Ter	p.S61*	ENST00000378487	3/4	113	96	17	110	110	0	CLLU1OS,stop_gained,p.Ser61Ter,ENST00000378487,;CLLU1OS,stop_gained,p.Ser61Ter,ENST00000538965,;CLLU1,upstream_gene_variant,,ENST00000378485,;RP11-693J15.4,upstream_gene_variant,,ENST00000508671,;CLLU1,upstream_gene_variant,,ENST00000512817,;CLLU1,upstream_gene_variant,,ENST00000472839,;CLLU1,upstream_gene_variant,,ENST00000589406,;CLLU1,upstream_gene_variant,,ENST00000586526,;	C	ENSG00000205057	ENST00000378487	Transcript	stop_gained	184	182	61	S/*	tCa/tGa	.	.	.	-1	CLLU1OS	HGNC	24070	protein_coding	YES	CCDS31871.1	ENSP00000367748	CLU1O_HUMAN	.	UPI00004B2BD0	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTGAAATC	.	4	BLCA
LIG4	0	.	GRCh37	13	108862221	108862221	+	Missense_Mutation	SNP	T	T	A	rs770386631	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1396A>T	p.Ile466Phe	p.I466F	ENST00000356922	2/2	303	257	45	275	274	1	LIG4,missense_variant,p.Ile466Phe,ENST00000405925,;LIG4,missense_variant,p.Ile466Phe,ENST00000356922,;LIG4,missense_variant,p.Ile466Phe,ENST00000442234,;	A	ENSG00000174405	ENST00000356922	Transcript	missense_variant	1669	1396	466	I/F	Att/Ttt	rs770386631,COSM325682	.	.	-1	LIG4	HGNC	6601	protein_coding	YES	CCDS9508.1	ENSP00000349393	DNLI4_HUMAN	.	UPI00000742BF	.	deleterious(0)	probably_damaging(0.925)	2/2	.	PROSITE_profiles:PS50160,hmmpanther:PTHR10459,hmmpanther:PTHR10459:SF7,TIGRFAM_domain:TIGR00574,Gene3D:2.40.50.140,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACAATTAAAA	.	4	BLCA
COL4A1	0	.	GRCh37	13	110817222	110817222	+	Silent	SNP	C	C	T	rs368982371	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4137G>A	p.%3D	p.P1379P	ENST00000375820	46/52	17	11	6	8	8	0	COL4A1,synonymous_variant,p.%3D,ENST00000375820,;COL4A1,upstream_gene_variant,,ENST00000474391,;COL4A1,upstream_gene_variant,,ENST00000467182,;	T	ENSG00000187498	ENST00000375820	Transcript	synonymous_variant	4259	4137	1379	P	ccG/ccA	rs368982371	.	.	-1	COL4A1	HGNC	2202	protein_coding	YES	CCDS9511.1	ENSP00000364979	CO4A1_HUMAN	A9LSU1_HUMAN	UPI00001FCA8A	.	.	.	46/52	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF61	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTTCGGGCC	byFrequency|byCluster	2	BLCA
F7	0	.	GRCh37	13	113772909	113772909	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988G>A	p.Glu330Lys	p.E330K	ENST00000375581	9/9	36	30	6	46	46	0	F7,missense_variant,p.Glu308Lys,ENST00000346342,;F7,missense_variant,p.Glu330Lys,ENST00000375581,;F7,missense_variant,p.Glu261Lys,ENST00000541084,;F10,upstream_gene_variant,,ENST00000375559,;F10,upstream_gene_variant,,ENST00000375551,;F10,upstream_gene_variant,,ENST00000409306,;F7,downstream_gene_variant,,ENST00000473085,;F10,upstream_gene_variant,,ENST00000483537,;F10,upstream_gene_variant,,ENST00000410083,;F10,upstream_gene_variant,,ENST00000477269,;F7,downstream_gene_variant,,ENST00000479674,;F7,downstream_gene_variant,,ENST00000444337,;	A	ENSG00000057593	ENST00000375581	Transcript	missense_variant	1023	988	330	E/K	Gag/Aag	.	.	.	1	F7	HGNC	3544	protein_coding	YES	CCDS9528.1	ENSP00000364731	FA7_HUMAN	Q9UMU6_HUMAN,A3RKG7_HUMAN	UPI000012A414	.	deleterious(0.04)	benign(0.05)	9/9	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24265:SF34,hmmpanther:PTHR24265,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,PIRSF_domain:PIRSF001143,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTGAGAGG	.	5	BLCA
F10	0	.	GRCh37	13	113798338	113798338	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.676G>A	p.Glu226Lys	p.E226K	ENST00000375559	6/8	78	65	13	68	68	0	F10,missense_variant,p.Glu226Lys,ENST00000375559,;F10,missense_variant,p.Glu226Lys,ENST00000409306,;F10,missense_variant,p.Glu226Lys,ENST00000375551,;F10,3_prime_UTR_variant,,ENST00000410083,;F10,non_coding_transcript_exon_variant,,ENST00000477269,;F10,non_coding_transcript_exon_variant,,ENST00000498455,;	A	ENSG00000126218	ENST00000375559	Transcript	missense_variant	714	676	226	E/K	Gag/Aag	.	.	.	1	F10	HGNC	3528	protein_coding	YES	CCDS9530.1	ENSP00000364709	FA10_HUMAN	Q5JVE7_HUMAN	UPI000000DB39	.	tolerated(0.46)	benign(0.011)	6/8	.	hmmpanther:PTHR24265:SF40,hmmpanther:PTHR24265,PIRSF_domain:PIRSF001143	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTGAGAGG	.	5	BLCA
TMCO3	0	.	GRCh37	13	114157865	114157865	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1000C>G	p.Leu334Val	p.L334V	ENST00000434316	6/13	94	72	21	104	104	0	TMCO3,missense_variant,p.Leu334Val,ENST00000375391,;TMCO3,missense_variant,p.Leu334Val,ENST00000434316,;TMCO3,non_coding_transcript_exon_variant,,ENST00000474393,;TMCO3,intron_variant,,ENST00000462877,;TMCO3,downstream_gene_variant,,ENST00000473287,;	G	ENSG00000150403	ENST00000434316	Transcript	missense_variant	1359	1000	334	L/V	Ctt/Gtt	.	.	.	1	TMCO3	HGNC	20329	protein_coding	YES	CCDS9537.1	ENSP00000389399	TMCO3_HUMAN	.	UPI000004C642	.	tolerated(0.94)	benign(0.004)	6/13	.	Pfam_domain:PF00999,hmmpanther:PTHR16254,Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCTTGTT	.	5	BLCA
MPHOSPH8	0	.	GRCh37	13	20220920	20220920	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.707G>C	p.Arg236Thr	p.R236T	ENST00000361479	3/14	45	38	7	25	25	0	MPHOSPH8,missense_variant,p.Arg236Thr,ENST00000361479,;MPHOSPH8,missense_variant,p.Arg236Thr,ENST00000414242,;	C	ENSG00000196199	ENST00000361479	Transcript	missense_variant	775	707	236	R/T	aGa/aCa	COSM695871	.	.	1	MPHOSPH8	HGNC	29810	protein_coding	YES	CCDS9287.1	ENSP00000355388	MPP8_HUMAN	.	UPI0000051C18	.	deleterious_low_confidence(0)	possibly_damaging(0.735)	3/14	.	hmmpanther:PTHR24188:SF6,hmmpanther:PTHR24188	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATAAGAGATT	.	5	BLCA
MPHOSPH8	0	.	GRCh37	13	20221255	20221255	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1042G>C	p.Glu348Gln	p.E348Q	ENST00000361479	3/14	55	50	5	45	45	0	MPHOSPH8,missense_variant,p.Glu348Gln,ENST00000361479,;MPHOSPH8,missense_variant,p.Glu348Gln,ENST00000414242,;	C	ENSG00000196199	ENST00000361479	Transcript	missense_variant	1110	1042	348	E/Q	Gag/Cag	.	.	.	1	MPHOSPH8	HGNC	29810	protein_coding	YES	CCDS9287.1	ENSP00000355388	MPP8_HUMAN	.	UPI0000051C18	.	deleterious_low_confidence(0)	probably_damaging(0.92)	3/14	.	hmmpanther:PTHR24188:SF6,hmmpanther:PTHR24188,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCTAGAGAAC	.	3	BLCA
MIPEP	0	.	GRCh37	13	24330705	24330705	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2023G>C	p.Glu675Gln	p.E675Q	ENST00000382172	18/19	83	78	5	51	51	0	MIPEP,missense_variant,p.Glu675Gln,ENST00000382172,;MIPEP,synonymous_variant,p.%3D,ENST00000433710,;MIPEP,non_coding_transcript_exon_variant,,ENST00000464194,;	G	ENSG00000027001	ENST00000382172	Transcript	missense_variant	2122	2023	675	E/Q	Gag/Cag	.	.	.	-1	MIPEP	HGNC	7104	protein_coding	YES	CCDS9303.1	ENSP00000371607	MIPEP_HUMAN	.	UPI000013C54A	.	tolerated(0.1)	benign(0.356)	18/19	.	hmmpanther:PTHR11804:SF5,hmmpanther:PTHR11804,Gene3D:2o36A02,Pfam_domain:PF01432,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCTCCCTGC	.	2	BLCA
PARP4	0	.	GRCh37	13	25009585	25009585	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3694G>A	p.Glu1232Lys	p.E1232K	ENST00000381989	31/34	128	100	28	135	135	0	PARP4,missense_variant,p.Glu1232Lys,ENST00000381989,;TPTE2P6,intron_variant,,ENST00000445572,;	T	ENSG00000102699	ENST00000381989	Transcript	missense_variant	3800	3694	1232	E/K	Gaa/Aaa	.	.	.	-1	PARP4	HGNC	271	protein_coding	YES	CCDS9307.1	ENSP00000371419	PARP4_HUMAN	.	UPI000013C76E	.	deleterious(0.05)	benign(0.025)	31/34	.	hmmpanther:PTHR10338:SF7,hmmpanther:PTHR10338	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAATTCTGGCC	.	5	BLCA
PARP4	0	.	GRCh37	13	25072346	25072346	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499G>C	p.Glu167Gln	p.E167Q	ENST00000381989	6/34	44	37	7	22	22	0	PARP4,missense_variant,p.Glu167Gln,ENST00000381989,;TPTE2P6,intron_variant,,ENST00000445572,;	G	ENSG00000102699	ENST00000381989	Transcript	missense_variant	605	499	167	E/Q	Gaa/Caa	.	.	.	-1	PARP4	HGNC	271	protein_coding	YES	CCDS9307.1	ENSP00000371419	PARP4_HUMAN	.	UPI000013C76E	.	tolerated(0.09)	benign(0.024)	6/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCTTCCTGGC	.	2	BLCA
ATP8A2	0	.	GRCh37	13	26129156	26129156	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1213G>C	p.Asp405His	p.D405H	ENST00000381655	13/37	89	80	9	75	75	0	ATP8A2,missense_variant,p.Asp365His,ENST00000255283,;ATP8A2,missense_variant,p.Asp405His,ENST00000381655,;ATP8A2,missense_variant,p.Asp245His,ENST00000281620,;	C	ENSG00000132932	ENST00000381655	Transcript	missense_variant	1355	1213	405	D/H	Gac/Cac	.	.	.	1	ATP8A2	HGNC	13533	protein_coding	YES	CCDS41873.1	ENSP00000371070	AT8A2_HUMAN	.	UPI0000229592	.	deleterious(0)	probably_damaging(0.981)	13/37	.	hmmpanther:PTHR24092:SF45,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAAATGACACT	.	3	BLCA
SLC25A15	0	.	GRCh37	13	41382650	41382650	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.699C>G	p.Ile233Met	p.I233M	ENST00000338625	6/7	157	134	22	130	129	0	SLC25A15,missense_variant,p.Ile233Met,ENST00000338625,;SLC25A15,downstream_gene_variant,,ENST00000417731,;MIR621,upstream_gene_variant,,ENST00000384919,;SLC25A15,downstream_gene_variant,,ENST00000478827,;SLC25A15,downstream_gene_variant,,ENST00000470509,;	G	ENSG00000102743	ENST00000338625	Transcript	missense_variant	935	699	233	I/M	atC/atG	.	.	.	1	SLC25A15	HGNC	10985	protein_coding	YES	CCDS9373.1	ENSP00000342267	ORNT1_HUMAN	F2Z354_HUMAN	UPI0000130E9D	.	deleterious(0)	possibly_damaging(0.721)	6/7	.	PROSITE_profiles:PS50920,hmmpanther:PTHR24089,hmmpanther:PTHR24089:SF192,Gene3D:1okcA00,Pfam_domain:PF00153,Superfamily_domains:0048588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTATCAAATC	.	4	BLCA
ENOX1	0	.	GRCh37	13	43930219	43930219	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.659A>T	p.Gln220Leu	p.Q220L	ENST00000261488	8/17	73	64	9	63	63	0	ENOX1,missense_variant,p.Gln220Leu,ENST00000412891,;ENOX1,missense_variant,p.Gln33Leu,ENST00000540032,;ENOX1,missense_variant,p.Gln220Leu,ENST00000261488,;ENOX1,downstream_gene_variant,,ENST00000482207,;	A	ENSG00000120658	ENST00000261488	Transcript	missense_variant	1237	659	220	Q/L	cAg/cTg	.	.	.	-1	ENOX1	HGNC	25474	protein_coding	YES	CCDS9389.1	ENSP00000261488	ENOX1_HUMAN	.	UPI0000071D6F	.	deleterious(0.03)	benign(0.008)	8/17	.	PROSITE_profiles:PS50102,hmmpanther:PTHR16001:SF6,hmmpanther:PTHR16001,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCCTGGGCA	.	4	BLCA
ZC3H13	0	.	GRCh37	13	46559692	46559692	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1460G>C	p.Arg487Thr	p.R487T	ENST00000282007	10/17	208	186	22	139	139	0	ZC3H13,missense_variant,p.Arg487Thr,ENST00000242848,;ZC3H13,missense_variant,p.Arg487Thr,ENST00000282007,;	G	ENSG00000123200	ENST00000282007	Transcript	missense_variant	1531	1460	487	R/T	aGa/aCa	.	.	.	-1	ZC3H13	HGNC	20368	protein_coding	YES	CCDS9400.1	ENSP00000282007	ZC3HD_HUMAN	.	UPI0000366969	.	.	unknown(0)	10/17	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATCTCTGCTA	.	4	BLCA
KIAA0226L	0	.	GRCh37	13	46919708	46919708	+	Silent	SNP	C	C	G	rs758483239	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1659G>C	p.%3D	p.P553P	ENST00000429979	13/15	35	30	4	22	22	0	KIAA0226L,synonymous_variant,p.%3D,ENST00000322896,;KIAA0226L,synonymous_variant,p.%3D,ENST00000389908,;KIAA0226L,synonymous_variant,p.%3D,ENST00000378784,;KIAA0226L,synonymous_variant,p.%3D,ENST00000534925,;KIAA0226L,synonymous_variant,p.%3D,ENST00000429979,;KIAA0226L,synonymous_variant,p.%3D,ENST00000409879,;KIAA0226L,3_prime_UTR_variant,,ENST00000378781,;KIAA0226L,intron_variant,,ENST00000378787,;KIAA0226L,intron_variant,,ENST00000378797,;KIAA0226L,3_prime_UTR_variant,,ENST00000441284,;KIAA0226L,non_coding_transcript_exon_variant,,ENST00000487195,;PPP1R2P4,non_coding_transcript_exon_variant,,ENST00000535073,;	G	ENSG00000102445	ENST00000429979	Transcript	synonymous_variant	2264	1659	553	P	ccG/ccC	rs758483239	.	.	-1	KIAA0226L	HGNC	20420	protein_coding	YES	CCDS31970.2	ENSP00000396935	K226L_HUMAN	Q5W050_HUMAN,A8XR14_HUMAN,A8KAG9_HUMAN	UPI00001FCD59	.	.	.	13/15	.	Pfam_domain:PF13901,hmmpanther:PTHR12326,hmmpanther:PTHR12326:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCCCGGCAC	.	4	BLCA
LMO7	0	.	GRCh37	13	76415254	76415254	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2893C>G	p.Gln965Glu	p.Q965E	ENST00000465261	20/27	45	39	6	38	38	0	LMO7,missense_variant,p.Gln1250Glu,ENST00000357063,;LMO7,missense_variant,p.Gln77Glu,ENST00000533809,;LMO7,missense_variant,p.Gln965Glu,ENST00000321797,;LMO7,missense_variant,p.Gln134Glu,ENST00000525914,;LMO7,missense_variant,p.Gln842Glu,ENST00000526202,;LMO7,missense_variant,p.Gln965Glu,ENST00000465261,;LMO7,missense_variant,p.Gln278Glu,ENST00000524651,;LMO7,missense_variant,p.Gln916Glu,ENST00000341547,;LMO7,missense_variant,p.Gln1250Glu,ENST00000377534,;LMO7,missense_variant,p.Gln864Glu,ENST00000377499,;LMO7,missense_variant,p.Gln874Glu,ENST00000447038,;LMO7,downstream_gene_variant,,ENST00000525107,;LMO7,downstream_gene_variant,,ENST00000485987,;	G	ENSG00000136153	ENST00000465261	Transcript	missense_variant	3653	2893	965	Q/E	Caa/Gaa	.	.	.	1	LMO7	HGNC	6646	protein_coding	YES	CCDS53876.1	ENSP00000433352	.	E9PRJ0_HUMAN,E9PLH4_HUMAN	UPI0001929501	.	deleterious(0)	possibly_damaging(0.546)	20/27	.	hmmpanther:PTHR15551,hmmpanther:PTHR15551:SF4,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATATCAACGT	.	4	BLCA
EDNRB	0	.	GRCh37	13	78492556	78492556	+	Missense_Mutation	SNP	C	C	G	rs754429925	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423G>C	p.Lys141Asn	p.K141N	ENST00000377211	2/8	74	62	12	63	63	0	EDNRB,missense_variant,p.Lys51Asn,ENST00000446573,;EDNRB,missense_variant,p.Lys141Asn,ENST00000377211,;EDNRB,missense_variant,p.Lys51Asn,ENST00000334286,;RNF219-AS1,upstream_gene_variant,,ENST00000607862,;EDNRB,non_coding_transcript_exon_variant,,ENST00000475537,;	G	ENSG00000136160	ENST00000377211	Transcript	missense_variant	576	423	141	K/N	aaG/aaC	rs754429925	.	.	-1	EDNRB	HGNC	3180	protein_coding	YES	CCDS55902.1	ENSP00000366416	EDNRB_HUMAN	.	UPI0000046D5C	.	tolerated(0.15)	benign(0.366)	2/8	.	hmmpanther:PTHR24243:SF30,hmmpanther:PTHR24243,Prints_domain:PR00571	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTCTTAGT	byFrequency	5	BLCA
SLITRK5	0	.	GRCh37	13	88327860	88327860	+	Missense_Mutation	SNP	C	C	G	rs764307377	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217C>G	p.Leu73Val	p.L73V	ENST00000325089	2/2	199	167	31	168	168	0	SLITRK5,missense_variant,p.Leu73Val,ENST00000325089,;SLITRK5,intron_variant,,ENST00000400028,;MIR4500HG,upstream_gene_variant,,ENST00000436290,;MIR4500HG,upstream_gene_variant,,ENST00000441617,;MIR4500HG,upstream_gene_variant,,ENST00000606590,;MIR4500HG,upstream_gene_variant,,ENST00000453832,;	G	ENSG00000165300	ENST00000325089	Transcript	missense_variant	436	217	73	L/V	Ctc/Gtc	rs764307377	.	.	1	SLITRK5	HGNC	20295	protein_coding	YES	CCDS9465.1	ENSP00000366283	SLIK5_HUMAN	.	UPI000015F6F7	.	tolerated(0.87)	benign(0.109)	2/2	.	hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF10,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAGTCTCTCT	.	4	BLCA
SLITRK5	0	.	GRCh37	13	88328195	88328195	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>G	p.%3D	p.L184L	ENST00000325089	2/2	126	108	18	116	116	0	SLITRK5,synonymous_variant,p.%3D,ENST00000325089,;SLITRK5,intron_variant,,ENST00000400028,;MIR4500HG,upstream_gene_variant,,ENST00000436290,;MIR4500HG,upstream_gene_variant,,ENST00000441617,;MIR4500HG,upstream_gene_variant,,ENST00000606590,;MIR4500HG,upstream_gene_variant,,ENST00000453832,;	G	ENSG00000165300	ENST00000325089	Transcript	synonymous_variant	771	552	184	L	ctC/ctG	.	.	.	1	SLITRK5	HGNC	20295	protein_coding	YES	CCDS9465.1	ENSP00000366283	SLIK5_HUMAN	.	UPI000015F6F7	.	.	.	2/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51450,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF10,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCAATGA	.	5	BLCA
WARS	0	.	GRCh37	14	100828117	100828117	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241G>A	p.Glu81Lys	p.E81K	ENST00000355338	3/11	229	200	29	222	222	0	WARS,missense_variant,p.Glu81Lys,ENST00000557722,;WARS,missense_variant,p.Glu81Lys,ENST00000554772,;WARS,missense_variant,p.Glu81Lys,ENST00000554820,;WARS,missense_variant,p.Glu81Lys,ENST00000556660,;WARS,missense_variant,p.Glu40Lys,ENST00000556645,;WARS,missense_variant,p.Glu40Lys,ENST00000553395,;WARS,missense_variant,p.Glu81Lys,ENST00000557135,;WARS,missense_variant,p.Glu81Lys,ENST00000355338,;WARS,missense_variant,p.Glu81Lys,ENST00000392882,;WARS,missense_variant,p.Glu40Lys,ENST00000556504,;WARS,missense_variant,p.Glu40Lys,ENST00000557297,;WARS,missense_variant,p.Glu81Lys,ENST00000553524,;WARS,missense_variant,p.Glu40Lys,ENST00000358655,;WARS,missense_variant,p.Glu40Lys,ENST00000344102,;WARS,missense_variant,p.Glu81Lys,ENST00000553769,;WARS,missense_variant,p.Glu81Lys,ENST00000553545,;WARS,missense_variant,p.Glu81Lys,ENST00000553413,;WARS,missense_variant,p.Glu40Lys,ENST00000556435,;WARS,missense_variant,p.Glu81Lys,ENST00000556698,;WARS,missense_variant,p.Glu115Lys,ENST00000555410,;WARS,missense_variant,p.Glu40Lys,ENST00000556338,;WARS,downstream_gene_variant,,ENST00000555031,;WARS,downstream_gene_variant,,ENST00000555813,;WARS,downstream_gene_variant,,ENST00000554509,;WARS,downstream_gene_variant,,ENST00000556695,;WARS,downstream_gene_variant,,ENST00000556209,;WARS,downstream_gene_variant,,ENST00000556295,;WARS,downstream_gene_variant,,ENST00000554605,;WARS,non_coding_transcript_exon_variant,,ENST00000554084,;WARS,non_coding_transcript_exon_variant,,ENST00000557239,;WARS,3_prime_UTR_variant,,ENST00000556783,;WARS,non_coding_transcript_exon_variant,,ENST00000557094,;WARS,non_coding_transcript_exon_variant,,ENST00000555063,;WARS,non_coding_transcript_exon_variant,,ENST00000556579,;WARS,non_coding_transcript_exon_variant,,ENST00000554331,;WARS,non_coding_transcript_exon_variant,,ENST00000553808,;WARS,downstream_gene_variant,,ENST00000557347,;RP11-638I2.10,upstream_gene_variant,,ENST00000557231,;	T	ENSG00000140105	ENST00000355338	Transcript	missense_variant	860	241	81	E/K	Gaa/Aaa	.	.	.	-1	WARS	HGNC	12729	protein_coding	YES	CCDS9960.1	ENSP00000347495	SYWC_HUMAN	P78534_HUMAN,G3V5W1_HUMAN,G3V5U1_HUMAN,G3V5H5_HUMAN,G3V4S4_HUMAN,G3V4N8_HUMAN,G3V4C7_HUMAN,G3V456_HUMAN,G3V423_HUMAN,G3V3Y5_HUMAN,G3V3X0_HUMAN,G3V3S7_HUMAN,G3V3R3_HUMAN,G3V3P2_HUMAN,G3V3H8_HUMAN,G3V339_HUMAN,G3V313_HUMAN,G3V2F2_HUMAN,G3V2C0_HUMAN,G3V277_HUMAN,G3V227_HUMAN,B4DTK8_HUMAN	UPI0000000E0E	.	tolerated(0.52)	benign(0.001)	3/11	.	hmmpanther:PTHR10055:SF1,hmmpanther:PTHR10055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCAGCTT	.	4	BLCA
RTL1	0	.	GRCh37	14	101349479	101349479	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1647G>T	p.Met549Ile	p.M549I	ENST00000534062	1/1	62	55	7	48	48	0	RTL1,missense_variant,p.Met549Ile,ENST00000534062,;MIR432,upstream_gene_variant,,ENST00000606207,;MIR433,downstream_gene_variant,,ENST00000384837,;MIR136,upstream_gene_variant,,ENST00000385207,;MIR127,downstream_gene_variant,,ENST00000384876,;MIR431,downstream_gene_variant,,ENST00000385266,;	A	ENSG00000254656	ENST00000534062	Transcript	missense_variant	1706	1647	549	M/I	atG/atT	.	.	.	-1	RTL1	HGNC	14665	protein_coding	YES	CCDS53910.1	ENSP00000435342	RTL1_HUMAN	.	UPI00001D7B9E	.	tolerated(1)	benign(0)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	AGGCTCATGCC	.	3	BLCA
MIR370	0	.	GRCh37	14	101377493	101377493	+	RNA	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.18C>A	.	.	ENST00000362135	1/1	68	60	7	61	61	0	MIR370,non_coding_transcript_exon_variant,,ENST00000362135,;MEG8,intron_variant,,ENST00000553465,;MEG8,intron_variant,,ENST00000556475,;MEG8,upstream_gene_variant,,ENST00000553421,;SNORD112,upstream_gene_variant,,ENST00000515960,;MEG8,downstream_gene_variant,,ENST00000554852,;MEG8,downstream_gene_variant,,ENST00000554323,;MEG8,downstream_gene_variant,,ENST00000553584,;	A	ENSG00000199005	ENST00000362135	Transcript	non_coding_transcript_exon_variant	18	.	.	.	.	.	.	.	1	MIR370	HGNC	31784	miRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGTCACGTC	.	4	BLCA
SNORD114-1	0	.	GRCh37	14	101416195	101416195	+	RNA	SNP	G	G	A	rs762608893	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.26G>A	.	.	ENST00000362705	1/1	63	52	11	64	64	0	SNORD114-1,non_coding_transcript_exon_variant,,ENST00000362705,;AL132709.5,intron_variant,,ENST00000414488,;AL132709.5,intron_variant,,ENST00000427085,;AL132709.5,intron_variant,,ENST00000434716,;SNORD114-2,upstream_gene_variant,,ENST00000363953,;AL132709.5,downstream_gene_variant,,ENST00000556720,;AL132709.5,downstream_gene_variant,,ENST00000554485,;SNORD113-9,downstream_gene_variant,,ENST00000365080,;AL132709.5,downstream_gene_variant,,ENST00000555354,;AL132709.5,upstream_gene_variant,,ENST00000554369,;SNORD114-4,upstream_gene_variant,,ENST00000363962,;SNORD114-3,upstream_gene_variant,,ENST00000364969,;AL132709.5,upstream_gene_variant,,ENST00000556637,;	A	ENSG00000199575	ENST00000362705	Transcript	non_coding_transcript_exon_variant	26	.	.	.	.	rs762608893	.	.	1	SNORD114-1	HGNC	32989	snoRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGGCGTATGA	byFrequency	4	BLCA
PPP2R5C	0	.	GRCh37	14	102384237	102384237	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489G>C	p.Glu497Gln	p.E497Q	ENST00000422945	15/16	102	91	11	64	64	0	PPP2R5C,missense_variant,p.Glu91Gln,ENST00000555237,;PPP2R5C,missense_variant,p.Glu497Gln,ENST00000422945,;PPP2R5C,missense_variant,p.Glu466Gln,ENST00000334743,;PPP2R5C,missense_variant,p.Glu495Gln,ENST00000557268,;PPP2R5C,intron_variant,,ENST00000350249,;PPP2R5C,intron_variant,,ENST00000328724,;PPP2R5C,3_prime_UTR_variant,,ENST00000557071,;PPP2R5C,non_coding_transcript_exon_variant,,ENST00000554147,;	C	ENSG00000078304	ENST00000422945	Transcript	missense_variant	1585	1489	497	E/Q	Gaa/Caa	.	.	.	1	PPP2R5C	HGNC	9311	protein_coding	YES	CCDS53912.1	ENSP00000412324	2A5G_HUMAN	H0YJ75_HUMAN	UPI0001A7AE62	.	tolerated(0.16)	possibly_damaging(0.642)	15/16	.	hmmpanther:PTHR10257,PIRSF_domain:PIRSF028043	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTGAAGAT	.	4	BLCA
DYNC1H1	0	.	GRCh37	14	102483764	102483764	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8100G>C	p.Trp2700Cys	p.W2700C	ENST00000360184	40/78	140	118	21	111	111	0	DYNC1H1,missense_variant,p.Trp2700Cys,ENST00000360184,;DYNC1H1,upstream_gene_variant,,ENST00000555204,;	C	ENSG00000197102	ENST00000360184	Transcript	missense_variant	8264	8100	2700	W/C	tgG/tgC	.	.	.	1	DYNC1H1	HGNC	2961	protein_coding	YES	CCDS9966.1	ENSP00000348965	DYHC1_HUMAN	Q92862_HUMAN,B4DSR6_HUMAN	UPI00001B515A	.	.	probably_damaging(1)	40/78	.	hmmpanther:PTHR10676:SF28,hmmpanther:PTHR10676,Gene3D:3.40.50.300,Pfam_domain:PF12775,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATGGGTGAA	.	4	BLCA
TECPR2	0	.	GRCh37	14	102898452	102898452	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1404G>C	p.Lys468Asn	p.K468N	ENST00000359520	8/20	15	12	3	12	12	0	TECPR2,missense_variant,p.Lys468Asn,ENST00000359520,;TECPR2,missense_variant,p.Lys468Asn,ENST00000558678,;TECPR2,upstream_gene_variant,,ENST00000560060,;	C	ENSG00000196663	ENST00000359520	Transcript	missense_variant	1630	1404	468	K/N	aaG/aaC	.	.	.	1	TECPR2	HGNC	19957	protein_coding	YES	CCDS32162.1	ENSP00000352510	TCPR2_HUMAN	.	UPI00001FDC38	.	deleterious(0.01)	benign(0.279)	8/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23287:SF16,hmmpanther:PTHR23287	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.K469R|c.1406A>G|3	MUTECT|MUSE	AAGAAGAAGAA	.	2	BLCA
AMN	0	.	GRCh37	14	103390309	103390309	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200C>T	p.Ser67Leu	p.S67L	ENST00000299155	3/12	131	109	21	134	134	0	AMN,missense_variant,p.Ser67Leu,ENST00000299155,;AMN,upstream_gene_variant,,ENST00000559525,;AMN,upstream_gene_variant,,ENST00000559789,;AMN,non_coding_transcript_exon_variant,,ENST00000541086,;AMN,upstream_gene_variant,,ENST00000558590,;AMN,upstream_gene_variant,,ENST00000559442,;	T	ENSG00000166126	ENST00000299155	Transcript	missense_variant	233	200	67	S/L	tCa/tTa	.	.	.	1	AMN	HGNC	14604	protein_coding	YES	CCDS9977.1	ENSP00000299155	AMNLS_HUMAN	B3KP64_HUMAN	UPI0000037792	.	deleterious(0.01)	possibly_damaging(0.656)	3/12	.	hmmpanther:PTHR14995,hmmpanther:PTHR14995:SF1,Pfam_domain:PF14828	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCAGACA	.	5	BLCA
PPP1R13B	0	.	GRCh37	14	104216224	104216224	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.876G>A	p.%3D	p.Q292Q	ENST00000202556	8/17	129	110	19	108	108	0	PPP1R13B,synonymous_variant,p.%3D,ENST00000202556,;PPP1R13B,upstream_gene_variant,,ENST00000423488,;PPP1R13B,intron_variant,,ENST00000556325,;PPP1R13B,upstream_gene_variant,,ENST00000555708,;PPP1R13B,upstream_gene_variant,,ENST00000555183,;PPP1R13B,downstream_gene_variant,,ENST00000554106,;PPP1R13B,upstream_gene_variant,,ENST00000555991,;PPP1R13B,3_prime_UTR_variant,,ENST00000557082,;PPP1R13B,upstream_gene_variant,,ENST00000556597,;	T	ENSG00000088808	ENST00000202556	Transcript	synonymous_variant	1159	876	292	Q	caG/caA	.	.	.	-1	PPP1R13B	HGNC	14950	protein_coding	YES	CCDS41997.1	ENSP00000202556	ASPP1_HUMAN	G3V5J1_HUMAN	UPI000049DDC7	.	.	.	8/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24131,hmmpanther:PTHR24131:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGCTG	.	4	BLCA
C14orf2	0	.	GRCh37	14	104381498	104381498	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80G>A	p.Trp27Ter	p.W27*	ENST00000414262	3/5	79	60	18	59	59	0	C14orf2,stop_gained,p.Trp10Ter,ENST00000553430,;C14orf2,stop_gained,p.Trp10Ter,ENST00000554880,;C14orf2,stop_gained,p.Trp10Ter,ENST00000555030,;C14orf2,stop_gained,p.Trp27Ter,ENST00000414262,;C14orf2,stop_gained,p.Trp10Ter,ENST00000557040,;C14orf2,stop_gained,p.Trp10Ter,ENST00000286953,;C14orf2,stop_gained,p.Trp10Ter,ENST00000554713,;C14orf2,intron_variant,,ENST00000553449,;C14orf2,non_coding_transcript_exon_variant,,ENST00000557260,;C14orf2,non_coding_transcript_exon_variant,,ENST00000554089,;C14orf2,non_coding_transcript_exon_variant,,ENST00000554528,;C14orf2,upstream_gene_variant,,ENST00000554287,;	T	ENSG00000156411	ENST00000414262	Transcript	stop_gained	330	80	27	W/*	tGg/tAg	.	.	.	-1	C14orf2	HGNC	1188	protein_coding	YES	CCDS45169.1	ENSP00000401770	68MP_HUMAN	.	UPI000000CC79	.	.	.	3/5	.	hmmpanther:PTHR15233,hmmpanther:PTHR15233:SF0,Pfam_domain:PF08039	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATCCATATG	.	5	BLCA
TOX4	0	.	GRCh37	14	21957551	21957551	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.799G>C	p.Glu267Gln	p.E267Q	ENST00000405508	6/10	110	90	20	92	92	0	TOX4,missense_variant,p.Glu267Gln,ENST00000405508,;TOX4,missense_variant,p.Glu244Gln,ENST00000448790,;TOX4,missense_variant,p.Glu267Gln,ENST00000262709,;TOX4,downstream_gene_variant,,ENST00000457430,;TOX4,downstream_gene_variant,,ENST00000416256,;TOX4,downstream_gene_variant,,ENST00000494242,;TOX4,3_prime_UTR_variant,,ENST00000455393,;TOX4,non_coding_transcript_exon_variant,,ENST00000473176,;TOX4,non_coding_transcript_exon_variant,,ENST00000476180,;TOX4,upstream_gene_variant,,ENST00000463119,;TOX4,downstream_gene_variant,,ENST00000455138,;TOX4,downstream_gene_variant,,ENST00000447695,;TOX4,downstream_gene_variant,,ENST00000487242,;	C	ENSG00000092203	ENST00000405508	Transcript	missense_variant	1075	799	267	E/Q	Gag/Cag	COSM1677867	.	.	1	TOX4	HGNC	20161	protein_coding	YES	CCDS32043.1	ENSP00000385102	TOX4_HUMAN	.	UPI000006EA81	.	deleterious(0)	possibly_damaging(0.883)	6/10	.	Prints_domain:PR00886,Superfamily_domains:SSF47095,SMART_domains:SM00398,Gene3D:1.10.30.10,Pfam_domain:PF00505,hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF143,PROSITE_profiles:PS50118	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E267*|c.799G>T|3	MUTECT|MUSE	GAGAGGAGCAA	.	2	BLCA
TRAV8-4	0	.	GRCh37	14	22362696	22362696	+	5'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-45C>T	.	.	ENST00000390438	1/2	34	26	7	45	45	0	TRAV8-4,5_prime_UTR_variant,,ENST00000390438,;	T	ENSG00000211790	ENST00000390438	Transcript	5_prime_UTR_variant	84	.	.	.	.	.	.	.	1	TRAV8-4	HGNC	12149	TR_V_gene	YES	.	ENSP00000445942	TVA3_HUMAN	.	UPI000011C70D	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCTGTCC	.	5	BLCA
DCAF11	0	.	GRCh37	14	24590581	24590581	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1254G>A	p.%3D	p.R418R	ENST00000446197	13/15	107	90	16	107	107	0	DCAF11,synonymous_variant,p.%3D,ENST00000396936,;DCAF11,synonymous_variant,p.%3D,ENST00000559144,;DCAF11,synonymous_variant,p.%3D,ENST00000559115,;DCAF11,synonymous_variant,p.%3D,ENST00000396941,;RP11-468E2.6,synonymous_variant,p.%3D,ENST00000558325,;DCAF11,synonymous_variant,p.%3D,ENST00000446197,;DCAF11,downstream_gene_variant,,ENST00000559354,;DCAF11,downstream_gene_variant,,ENST00000560713,;DCAF11,downstream_gene_variant,,ENST00000559593,;DCAF11,downstream_gene_variant,,ENST00000558215,;DCAF11,downstream_gene_variant,,ENST00000560901,;DCAF11,downstream_gene_variant,,ENST00000561001,;DCAF11,downstream_gene_variant,,ENST00000560459,;DCAF11,downstream_gene_variant,,ENST00000559796,;DCAF11,downstream_gene_variant,,ENST00000561375,;DCAF11,downstream_gene_variant,,ENST00000561041,;DCAF11,downstream_gene_variant,,ENST00000558638,;DCAF11,downstream_gene_variant,,ENST00000559017,;DCAF11,downstream_gene_variant,,ENST00000559288,;DCAF11,downstream_gene_variant,,ENST00000559382,;DCAF11,downstream_gene_variant,,ENST00000558408,;DCAF11,downstream_gene_variant,,ENST00000557810,;DCAF11,downstream_gene_variant,,ENST00000557809,;DCAF11,downstream_gene_variant,,ENST00000560171,;DCAF11,downstream_gene_variant,,ENST00000561016,;DCAF11,downstream_gene_variant,,ENST00000557952,;DCAF11,downstream_gene_variant,,ENST00000561056,;DCAF11,3_prime_UTR_variant,,ENST00000326009,;DCAF11,3_prime_UTR_variant,,ENST00000558914,;DCAF11,3_prime_UTR_variant,,ENST00000557802,;DCAF11,non_coding_transcript_exon_variant,,ENST00000558624,;DCAF11,non_coding_transcript_exon_variant,,ENST00000559472,;DCAF11,downstream_gene_variant,,ENST00000558706,;DCAF11,downstream_gene_variant,,ENST00000560046,;DCAF11,downstream_gene_variant,,ENST00000559451,;DCAF11,downstream_gene_variant,,ENST00000560457,;DCAF11,downstream_gene_variant,,ENST00000557888,;DCAF11,downstream_gene_variant,,ENST00000560614,;	A	ENSG00000100897	ENST00000446197	Transcript	synonymous_variant	1981	1254	418	R	cgG/cgA	.	.	.	1	DCAF11	HGNC	20258	protein_coding	YES	CCDS9610.1	ENSP00000415556	DCA11_HUMAN	H0YNS2_HUMAN,H0YNK2_HUMAN,H0YMZ4_HUMAN,H0YM56_HUMAN,H0YLQ1_HUMAN,H0YL64_HUMAN,H0YKR8_HUMAN	UPI0000073AB2	.	.	.	13/15	.	PROSITE_profiles:PS50294,hmmpanther:PTHR19847,PIRSF_domain:PIRSF038135	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCGGAAGCT	.	4	BLCA
HEATR5A	0	.	GRCh37	14	31790818	31790818	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3856G>A	p.Asp1286Asn	p.D1286N	ENST00000543095	25/36	39	27	11	23	23	0	HEATR5A,missense_variant,p.Asp1286Asn,ENST00000543095,;HEATR5A,missense_variant,p.Asp1280Asn,ENST00000389961,;HEATR5A,missense_variant,p.Asp914Asn,ENST00000538864,;HEATR5A,missense_variant,p.Asp1280Asn,ENST00000439348,;HEATR5A,missense_variant,p.Asp993Asn,ENST00000439727,;HEATR5A,downstream_gene_variant,,ENST00000549719,;HEATR5A,downstream_gene_variant,,ENST00000550819,;HEATR5A,downstream_gene_variant,,ENST00000550366,;	T	ENSG00000129493	ENST00000543095	Transcript	missense_variant	4041	3856	1286	D/N	Gac/Aac	.	.	.	-1	HEATR5A	HGNC	20276	protein_coding	.	.	ENSP00000437968	.	F8VQQ6_HUMAN,F5H619_HUMAN,E9PB09_HUMAN	UPI0001890E04	.	tolerated(0.32)	benign(0.011)	25/36	.	hmmpanther:PTHR21663:SF1,hmmpanther:PTHR21663,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCACTGT	.	5	BLCA
NUBPL	0	.	GRCh37	14	32030639	32030639	+	5'UTR	SNP	C	C	T	rs201073307	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7C>T	.	.	ENST00000281081	1/11	25	20	5	16	16	0	NUBPL,5_prime_UTR_variant,,ENST00000550649,;NUBPL,5_prime_UTR_variant,,ENST00000281081,;NUBPL,intron_variant,,ENST00000550005,;NUBPL,upstream_gene_variant,,ENST00000551314,;CTD-2213F21.3,upstream_gene_variant,,ENST00000548096,;CTD-2213F21.4,upstream_gene_variant,,ENST00000547093,;NUBPL,downstream_gene_variant,,ENST00000552814,;NUBPL,upstream_gene_variant,,ENST00000548937,;NUBPL,upstream_gene_variant,,ENST00000550355,;NUBPL,5_prime_UTR_variant,,ENST00000547839,;NUBPL,upstream_gene_variant,,ENST00000552489,;NUBPL,upstream_gene_variant,,ENST00000549838,;	T	ENSG00000151413	ENST00000281081	Transcript	5_prime_UTR_variant	39	.	.	.	.	rs201073307	.	.	1	NUBPL	HGNC	20278	protein_coding	YES	CCDS41940.1	ENSP00000281081	NUBPL_HUMAN	F8W061_HUMAN,B3KSK2_HUMAN	UPI00003669AB	.	.	.	1/11	.	.	T:0.0010	T:0	T:0	.	T:0.004	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGTTCCGCGT	byFrequency|byCluster|by1000G	5	BLCA
PNN	0	.	GRCh37	14	39644534	39644534	+	Missense_Mutation	SNP	G	G	C	rs143676445	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51G>C	p.Glu17Asp	p.E17D	ENST00000216832	1/9	38	30	7	28	28	0	PNN,missense_variant,p.Glu17Asp,ENST00000553331,;PNN,missense_variant,p.Glu17Asp,ENST00000216832,;PNN,missense_variant,p.Glu17Asp,ENST00000556530,;TRAPPC6B,upstream_gene_variant,,ENST00000347691,;RP11-407N17.4,intron_variant,,ENST00000556537,;PNN,upstream_gene_variant,,ENST00000557680,;PNN,non_coding_transcript_exon_variant,,ENST00000554117,;TRAPPC6B,upstream_gene_variant,,ENST00000469361,;TRAPPC6B,upstream_gene_variant,,ENST00000555269,;TRAPPC6B,upstream_gene_variant,,ENST00000556765,;PNN,upstream_gene_variant,,ENST00000554902,;	C	ENSG00000100941	ENST00000216832	Transcript	missense_variant	118	51	17	E/D	gaG/gaC	rs143676445	.	.	1	PNN	HGNC	9162	protein_coding	YES	CCDS9671.1	ENSP00000216832	PININ_HUMAN	.	UPI000013C70D	.	tolerated(0.14)	possibly_damaging(0.777)	1/9	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF04697,hmmpanther:PTHR12707	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGAGAGTCT	byCluster	5	BLCA
KLHDC2	0	.	GRCh37	14	50249293	50249293	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1078C>T	p.Gln360Ter	p.Q360*	ENST00000298307	12/13	64	57	7	52	52	0	KLHDC2,stop_gained,p.Gln360Ter,ENST00000298307,;KLHDC2,intron_variant,,ENST00000554589,;KLHDC2,intron_variant,,ENST00000557247,;NEMF,downstream_gene_variant,,ENST00000555970,;NEMF,downstream_gene_variant,,ENST00000382135,;NEMF,downstream_gene_variant,,ENST00000298310,;NEMF,downstream_gene_variant,,ENST00000546046,;NEMF,downstream_gene_variant,,ENST00000545773,;NEMF,downstream_gene_variant,,ENST00000554275,;NEMF,downstream_gene_variant,,ENST00000556691,;KLHDC2,downstream_gene_variant,,ENST00000553538,;NEMF,downstream_gene_variant,,ENST00000556925,;KLHDC2,3_prime_UTR_variant,,ENST00000555443,;KLHDC2,3_prime_UTR_variant,,ENST00000555739,;KLHDC2,non_coding_transcript_exon_variant,,ENST00000554115,;KLHDC2,non_coding_transcript_exon_variant,,ENST00000553579,;NEMF,downstream_gene_variant,,ENST00000557193,;NEMF,downstream_gene_variant,,ENST00000556074,;KLHDC2,downstream_gene_variant,,ENST00000556559,;KLHDC2,downstream_gene_variant,,ENST00000557063,;	T	ENSG00000165516	ENST00000298307	Transcript	stop_gained	1939	1078	360	Q/*	Caa/Taa	.	.	.	1	KLHDC2	HGNC	20231	protein_coding	YES	CCDS9693.1	ENSP00000298307	KLDC2_HUMAN	.	UPI00000372DF	.	.	.	12/13	.	hmmpanther:PTHR23244:SF261,hmmpanther:PTHR23244	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGTTCAACCA	.	4	BLCA
SOS2	0	.	GRCh37	14	50671062	50671062	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153G>C	p.%3D	p.L51L	ENST00000216373	2/23	292	252	39	211	211	0	SOS2,synonymous_variant,p.%3D,ENST00000543680,;SOS2,synonymous_variant,p.%3D,ENST00000216373,;SOS2,non_coding_transcript_exon_variant,,ENST00000556469,;SOS2,non_coding_transcript_exon_variant,,ENST00000555666,;SOS2,stop_lost,p.Ter71SerextTer19,ENST00000556452,;	G	ENSG00000100485	ENST00000216373	Transcript	synonymous_variant	428	153	51	L	ctG/ctC	.	.	.	-1	SOS2	HGNC	11188	protein_coding	YES	CCDS9697.1	ENSP00000216373	SOS2_HUMAN	B4DJ05_HUMAN	UPI000013C6E8	.	.	.	2/23	.	hmmpanther:PTHR23113:SF150,hmmpanther:PTHR23113,Gene3D:1.10.20.10,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATCAGCTC	.	4	BLCA
KIAA0586	0	.	GRCh37	14	58941343	58941343	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2812G>A	p.Glu938Lys	p.E938K	ENST00000354386	21/34	35	29	6	26	26	0	KIAA0586,missense_variant,p.Glu809Lys,ENST00000261244,;KIAA0586,missense_variant,p.Glu841Lys,ENST00000423743,;KIAA0586,missense_variant,p.Glu938Lys,ENST00000354386,;KIAA0586,missense_variant,p.Glu870Lys,ENST00000556134,;KIAA0586,non_coding_transcript_exon_variant,,ENST00000538571,;	A	ENSG00000100578	ENST00000354386	Transcript	missense_variant	3056	2812	938	E/K	Gaa/Aaa	.	.	.	1	KIAA0586	HGNC	19960	protein_coding	YES	CCDS58320.1	ENSP00000346359	TALD3_HUMAN	.	UPI0001AE6998	.	deleterious(0.01)	probably_damaging(0.981)	21/34	.	hmmpanther:PTHR15721,hmmpanther:PTHR15721:SF2,Pfam_domain:PF15324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGATGAAATT	.	4	BLCA
KIAA0586	0	.	GRCh37	14	58955547	58955547	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3895G>A	p.Glu1299Lys	p.E1299K	ENST00000354386	26/34	72	65	7	56	56	0	KIAA0586,missense_variant,p.Glu1170Lys,ENST00000261244,;KIAA0586,missense_variant,p.Glu1202Lys,ENST00000423743,;KIAA0586,missense_variant,p.Glu1299Lys,ENST00000354386,;KIAA0586,missense_variant,p.Glu1231Lys,ENST00000556134,;KIAA0586,upstream_gene_variant,,ENST00000555397,;KIAA0586,non_coding_transcript_exon_variant,,ENST00000538571,;	A	ENSG00000100578	ENST00000354386	Transcript	missense_variant	4139	3895	1299	E/K	Gaa/Aaa	.	.	.	1	KIAA0586	HGNC	19960	protein_coding	YES	CCDS58320.1	ENSP00000346359	TALD3_HUMAN	.	UPI0001AE6998	.	deleterious(0)	probably_damaging(0.999)	26/34	.	hmmpanther:PTHR15721,hmmpanther:PTHR15721:SF2,Pfam_domain:PF15324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCTCTGAAGGA	.	3	BLCA
DAAM1	0	.	GRCh37	14	59782054	59782054	+	Silent	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330C>G	p.%3D	p.L110L	ENST00000395125	3/25	156	140	16	129	129	0	DAAM1,synonymous_variant,p.%3D,ENST00000351081,;DAAM1,synonymous_variant,p.%3D,ENST00000395125,;DAAM1,synonymous_variant,p.%3D,ENST00000360909,;DAAM1,intron_variant,,ENST00000557327,;	G	ENSG00000100592	ENST00000395125	Transcript	synonymous_variant	353	330	110	L	ctC/ctG	COSM459141	.	.	1	DAAM1	HGNC	18142	protein_coding	YES	CCDS9737.1	ENSP00000378557	DAAM1_HUMAN	.	UPI0000161FAA	.	.	.	3/25	.	PROSITE_profiles:PS51232,hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF181,Gene3D:1.25.10.10,Pfam_domain:PF06371,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCAATTC	.	4	BLCA
SYNE2	0	.	GRCh37	14	64587684	64587684	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13063C>G	p.Gln4355Glu	p.Q4355E	ENST00000358025	68/116	121	93	28	96	96	0	SYNE2,missense_variant,p.Gln4370Glu,ENST00000554584,;SYNE2,missense_variant,p.Gln740Glu,ENST00000394768,;SYNE2,missense_variant,p.Gln74Glu,ENST00000553455,;SYNE2,missense_variant,p.Gln4355Glu,ENST00000344113,;SYNE2,missense_variant,p.Gln740Glu,ENST00000357395,;SYNE2,missense_variant,p.Gln4355Glu,ENST00000358025,;SYNE2,missense_variant,p.Gln989Glu,ENST00000555002,;ESR2,intron_variant,,ENST00000556275,;ESR2,intron_variant,,ENST00000542956,;	G	ENSG00000054654	ENST00000358025	Transcript	missense_variant	13293	13063	4355	Q/E	Caa/Gaa	.	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	benign(0.019)	68/116	.	hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCAAGAA	.	5	BLCA
ZFYVE26	0	.	GRCh37	14	68272007	68272007	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>A	p.Glu400Lys	p.E400K	ENST00000347230	8/42	38	35	3	20	20	0	ZFYVE26,missense_variant,p.Glu400Lys,ENST00000555452,;ZFYVE26,missense_variant,p.Glu400Lys,ENST00000347230,;ZFYVE26,missense_variant,p.Glu400Lys,ENST00000554557,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000557407,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000554523,;ZFYVE26,intron_variant,,ENST00000557366,;	T	ENSG00000072121	ENST00000347230	Transcript	missense_variant	1337	1198	400	E/K	Gag/Aag	.	.	.	-1	ZFYVE26	HGNC	20761	protein_coding	YES	CCDS9788.1	ENSP00000251119	ZFY26_HUMAN	.	UPI00001FD735	.	tolerated(0.68)	benign(0.001)	8/42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	GAGCTCATCAC	.	2	BLCA
RAD51B	0	.	GRCh37	14	68353838	68353838	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.673C>G	p.Gln225Glu	p.Q225E	ENST00000487270	7/11	141	112	28	107	107	0	RAD51B,missense_variant,p.Gln225Glu,ENST00000471583,;RAD51B,missense_variant,p.Gln225Glu,ENST00000488612,;RAD51B,missense_variant,p.Gln225Glu,ENST00000390683,;RAD51B,missense_variant,p.Gln225Glu,ENST00000487861,;RAD51B,missense_variant,p.Gln225Glu,ENST00000487270,;RAD51B,non_coding_transcript_exon_variant,,ENST00000492236,;RAD51B,non_coding_transcript_exon_variant,,ENST00000478014,;RAD51B,non_coding_transcript_exon_variant,,ENST00000553734,;RAD51B,non_coding_transcript_exon_variant,,ENST00000497460,;RAD51B,non_coding_transcript_exon_variant,,ENST00000554244,;RAD51B,non_coding_transcript_exon_variant,,ENST00000553595,;RAD51B,non_coding_transcript_exon_variant,,ENST00000555907,;RAD51B,upstream_gene_variant,,ENST00000469165,;RAD51B,upstream_gene_variant,,ENST00000460526,;RAD51B,3_prime_UTR_variant,,ENST00000479335,;RAD51B,non_coding_transcript_exon_variant,,ENST00000474051,;	G	ENSG00000182185	ENST00000487270	Transcript	missense_variant	721	673	225	Q/E	Caa/Gaa	.	.	.	1	RAD51B	HGNC	9822	protein_coding	YES	CCDS9789.1	ENSP00000419471	RA51B_HUMAN	G3V4W9_HUMAN,C9J5S9_HUMAN	UPI0000073AB0	.	tolerated(0.08)	benign(0.014)	7/11	.	PROSITE_profiles:PS50162,hmmpanther:PTHR22942,hmmpanther:PTHR22942:SF15,Gene3D:3.40.50.300,Pfam_domain:PF08423,PIRSF_domain:PIRSF005856,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCAAGGC	.	5	BLCA
ADAM21	0	.	GRCh37	14	70924778	70924778	+	Missense_Mutation	SNP	G	G	C	rs764758775	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>C	p.Glu188Gln	p.E188Q	ENST00000603540	2/2	84	76	8	67	67	0	ADAM21,missense_variant,p.Glu188Gln,ENST00000603540,;ADAM21,missense_variant,p.Glu188Gln,ENST00000267499,;RP11-486O13.4,intron_variant,,ENST00000556646,;	C	ENSG00000139985	ENST00000603540	Transcript	missense_variant	820	562	188	E/Q	Gaa/Caa	rs764758775,COSM553607,COSM553608	.	.	1	ADAM21	HGNC	200	protein_coding	YES	CCDS9804.1	ENSP00000474385	ADA21_HUMAN	.	UPI000013D756	.	tolerated(1)	benign(0.002)	2/2	.	hmmpanther:PTHR11905:SF116,hmmpanther:PTHR11905	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATTTGAAGAG	.	3	BLCA
RGS6	0	.	GRCh37	14	72818856	72818856	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138C>G	p.Ile46Met	p.I46M	ENST00000553525	3/18	42	36	6	25	25	0	RGS6,missense_variant,p.Ile46Met,ENST00000555571,;RGS6,missense_variant,p.Ile46Met,ENST00000355512,;RGS6,missense_variant,p.Ile46Met,ENST00000406236,;RGS6,missense_variant,p.Ile46Met,ENST00000343854,;RGS6,missense_variant,p.Ile46Met,ENST00000553530,;RGS6,missense_variant,p.Ile46Met,ENST00000404301,;RGS6,missense_variant,p.Ile46Met,ENST00000553525,;RGS6,missense_variant,p.Ile46Met,ENST00000556437,;RGS6,missense_variant,p.Ile46Met,ENST00000402788,;RGS6,missense_variant,p.Ile46Met,ENST00000407322,;RGS6,missense_variant,p.Ile46Met,ENST00000554474,;	G	ENSG00000182732	ENST00000553525	Transcript	missense_variant	661	138	46	I/M	atC/atG	.	.	.	1	RGS6	HGNC	10002	protein_coding	YES	CCDS55924.1	ENSP00000451030	RGS6_HUMAN	Q59FJ8_HUMAN	UPI00001698D0	.	deleterious(0)	benign(0.142)	3/18	.	Superfamily_domains:SSF46785,SMART_domains:SM00049,Gene3D:1.10.10.10,Pfam_domain:PF00610,hmmpanther:PTHR10845,hmmpanther:PTHR10845:SF27,PROSITE_profiles:PS50186	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCAGAAC	.	5	BLCA
PSEN1	0	.	GRCh37	14	73637515	73637515	+	Missense_Mutation	SNP	G	G	C	rs777371921	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98G>C	p.Arg33Thr	p.R33T	ENST00000324501	4/12	47	38	9	24	24	0	PSEN1,missense_variant,p.Arg29Thr,ENST00000394164,;PSEN1,missense_variant,p.Arg29Thr,ENST00000556066,;PSEN1,missense_variant,p.Arg29Thr,ENST00000553599,;PSEN1,missense_variant,p.Arg29Thr,ENST00000556533,;PSEN1,missense_variant,p.Arg33Thr,ENST00000344094,;PSEN1,missense_variant,p.Arg33Thr,ENST00000557511,;PSEN1,missense_variant,p.Arg33Thr,ENST00000324501,;PSEN1,missense_variant,p.Arg29Thr,ENST00000556951,;PSEN1,missense_variant,p.Arg33Thr,ENST00000555254,;PSEN1,missense_variant,p.Arg29Thr,ENST00000557356,;PSEN1,missense_variant,p.Arg29Thr,ENST00000553719,;PSEN1,missense_variant,p.Arg29Thr,ENST00000560005,;PSEN1,missense_variant,p.Arg33Thr,ENST00000261970,;PSEN1,missense_variant,p.Arg33Thr,ENST00000554131,;PSEN1,missense_variant,p.Arg33Thr,ENST00000394157,;PSEN1,missense_variant,p.Arg33Thr,ENST00000557293,;PSEN1,missense_variant,p.Arg29Thr,ENST00000557037,;PSEN1,missense_variant,p.Arg29Thr,ENST00000556864,;PSEN1,missense_variant,p.Arg29Thr,ENST00000357710,;PSEN1,5_prime_UTR_variant,,ENST00000406768,;PSEN1,non_coding_transcript_exon_variant,,ENST00000553447,;PSEN1,missense_variant,p.Arg33Thr,ENST00000553855,;PSEN1,missense_variant,p.Arg29Thr,ENST00000555386,;PSEN1,3_prime_UTR_variant,,ENST00000559361,;	C	ENSG00000080815	ENST00000324501	Transcript	missense_variant	370	98	33	R/T	aGa/aCa	rs777371921	.	.	1	PSEN1	HGNC	9508	protein_coding	YES	CCDS9812.1	ENSP00000326366	PSN1_HUMAN	G3V4P4_HUMAN,G3V4M0_HUMAN,G3V2G7_HUMAN,E7ES96_HUMAN	UPI000003F05F	.	tolerated(0.27)	benign(0.005)	4/12	.	hmmpanther:PTHR10202,hmmpanther:PTHR10202:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATAGAGAAC	.	5	BLCA
ALDH6A1	0	.	GRCh37	14	74527289	74527289	+	3'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*56C>T	.	.	ENST00000553458	12/12	36	29	7	16	16	0	ALDH6A1,3_prime_UTR_variant,,ENST00000350259,;ALDH6A1,3_prime_UTR_variant,,ENST00000555126,;ALDH6A1,3_prime_UTR_variant,,ENST00000553458,;CCDC176,intron_variant,,ENST00000553773,;CCDC176,intron_variant,,ENST00000394009,;CCDC176,downstream_gene_variant,,ENST00000492247,;AC005484.5,intron_variant,,ENST00000492026,;ALDH6A1,non_coding_transcript_exon_variant,,ENST00000554501,;	A	ENSG00000119711	ENST00000553458	Transcript	3_prime_UTR_variant	1763	.	.	.	.	.	.	.	-1	ALDH6A1	HGNC	7179	protein_coding	YES	CCDS9826.1	ENSP00000450436	MMSA_HUMAN	G3V4Z4_HUMAN	UPI0000001610	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCTGGTCAA	.	4	BLCA
AREL1	0	.	GRCh37	14	75134072	75134072	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2053G>A	p.Glu685Lys	p.E685K	ENST00000356357	17/20	95	78	17	59	59	0	AREL1,missense_variant,p.Glu685Lys,ENST00000356357,;AREL1,missense_variant,p.Glu524Lys,ENST00000556202,;AREL1,non_coding_transcript_exon_variant,,ENST00000557401,;AREL1,3_prime_UTR_variant,,ENST00000555330,;AREL1,upstream_gene_variant,,ENST00000557688,;AREL1,downstream_gene_variant,,ENST00000469797,;AREL1,downstream_gene_variant,,ENST00000556327,;AREL1,upstream_gene_variant,,ENST00000554070,;AREL1,downstream_gene_variant,,ENST00000481010,;	T	ENSG00000119682	ENST00000356357	Transcript	missense_variant	2569	2053	685	E/K	Gaa/Aaa	.	.	.	-1	AREL1	HGNC	20363	protein_coding	YES	CCDS41971.1	ENSP00000348714	AREL1_HUMAN	H0YJ67_HUMAN,G3V506_HUMAN,G3V245_HUMAN	UPI0000073D44	.	tolerated(0.13)	benign(0.017)	17/20	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254:SF284,hmmpanther:PTHR11254,Pfam_domain:PF00632,SMART_domains:SM00119,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCATTCA	.	5	BLCA
ANGEL1	0	.	GRCh37	14	77255661	77255661	+	Silent	SNP	G	G	C	rs201802123	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1923C>G	p.%3D	p.L641L	ENST00000251089	10/10	155	136	19	113	113	0	ANGEL1,synonymous_variant,p.%3D,ENST00000557179,;ANGEL1,synonymous_variant,p.%3D,ENST00000251089,;ANGEL1,downstream_gene_variant,,ENST00000555079,;RP11-488C13.5,upstream_gene_variant,,ENST00000554058,;RP11-488C13.5,upstream_gene_variant,,ENST00000556072,;	C	ENSG00000013523	ENST00000251089	Transcript	synonymous_variant	2036	1923	641	L	ctC/ctG	rs201802123	.	.	-1	ANGEL1	HGNC	19961	protein_coding	YES	CCDS9852.1	ENSP00000251089	ANGE1_HUMAN	G3V5C4_HUMAN	UPI0000139C7E	.	.	.	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12121,hmmpanther:PTHR12121:SF28,Gene3D:3.60.10.10,Superfamily_domains:SSF56219	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCAGAGTAT	byCluster|by1000G	4	BLCA
IRF2BPL	0	.	GRCh37	14	77493146	77493146	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.990G>C	p.Lys330Asn	p.K330N	ENST00000238647	1/1	27	23	4	29	29	0	IRF2BPL,missense_variant,p.Lys330Asn,ENST00000238647,;	G	ENSG00000119669	ENST00000238647	Transcript	missense_variant	1889	990	330	K/N	aaG/aaC	.	.	.	-1	IRF2BPL	HGNC	14282	protein_coding	YES	CCDS9854.1	ENSP00000238647	I2BPL_HUMAN	.	UPI00000738BA	.	deleterious(0)	unknown(0)	1/1	.	hmmpanther:PTHR10816:SF14,hmmpanther:PTHR10816	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTTACC	.	4	BLCA
PTPN21	0	.	GRCh37	14	88945269	88945269	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2506C>G	p.Leu836Val	p.L836V	ENST00000556564	13/19	69	61	8	68	68	0	PTPN21,missense_variant,p.Leu836Val,ENST00000556564,;PTPN21,missense_variant,p.Leu836Val,ENST00000328736,;PTPN21,3_prime_UTR_variant,,ENST00000536337,;PTPN21,non_coding_transcript_exon_variant,,ENST00000554270,;PTPN21,upstream_gene_variant,,ENST00000557249,;	C	ENSG00000070778	ENST00000556564	Transcript	missense_variant	2791	2506	836	L/V	Cta/Gta	.	.	.	-1	PTPN21	HGNC	9651	protein_coding	YES	CCDS9884.1	ENSP00000452414	PTN21_HUMAN	Q8WX29_HUMAN,G3V3S6_HUMAN	UPI000013D15F	.	tolerated(0.08)	benign(0.15)	13/19	.	hmmpanther:PTHR19134:SF78,hmmpanther:PTHR19134,PIRSF_domain:PIRSF000934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTAGAGGCG	.	4	BLCA
SLC24A4	0	.	GRCh37	14	92960001	92960001	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29C>G	.	.	ENST00000532405	17/17	25	20	5	25	25	0	SLC24A4,3_prime_UTR_variant,,ENST00000531433,;SLC24A4,3_prime_UTR_variant,,ENST00000525557,;SLC24A4,3_prime_UTR_variant,,ENST00000393265,;SLC24A4,3_prime_UTR_variant,,ENST00000351924,;SLC24A4,3_prime_UTR_variant,,ENST00000298877,;SLC24A4,3_prime_UTR_variant,,ENST00000532405,;SLC24A4,non_coding_transcript_exon_variant,,ENST00000526482,;SLC24A4,non_coding_transcript_exon_variant,,ENST00000554925,;	G	ENSG00000140090	ENST00000532405	Transcript	3_prime_UTR_variant	2124	.	.	.	.	.	.	.	1	SLC24A4	HGNC	10978	protein_coding	YES	CCDS9903.2	ENSP00000431840	NCKX4_HUMAN	G3V505_HUMAN,B4DHR5_HUMAN	UPI000044C5DE	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CTGATCTGGAC	.	4	BLCA
GOLGA5	0	.	GRCh37	14	93264129	93264129	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347C>G	p.Ser116Ter	p.S116*	ENST00000163416	2/13	74	62	12	58	58	0	GOLGA5,stop_gained,p.Ser116Ter,ENST00000355976,;GOLGA5,stop_gained,p.Ser116Ter,ENST00000163416,;	G	ENSG00000066455	ENST00000163416	Transcript	stop_gained	603	347	116	S/*	tCa/tGa	.	.	.	1	GOLGA5	HGNC	4428	protein_coding	YES	CCDS9905.1	ENSP00000163416	GOGA5_HUMAN	.	UPI000013C5AA	.	.	.	2/13	.	hmmpanther:PTHR13815:SF5,hmmpanther:PTHR13815	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTCAGAAC	.	5	BLCA
BTBD7	0	.	GRCh37	14	93760261	93760261	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1105G>A	p.Glu369Lys	p.E369K	ENST00000334746	3/11	87	67	19	77	77	0	BTBD7,missense_variant,p.Glu79Lys,ENST00000553975,;BTBD7,missense_variant,p.Glu369Lys,ENST00000334746,;BTBD7,missense_variant,p.Glu369Lys,ENST00000298896,;BTBD7,missense_variant,p.Glu369Lys,ENST00000555525,;BTBD7,missense_variant,p.Glu38Lys,ENST00000393170,;BTBD7,intron_variant,,ENST00000554565,;BTBD7,downstream_gene_variant,,ENST00000554968,;BTBD7,missense_variant,p.Glu6Lys,ENST00000355125,;BTBD7,non_coding_transcript_exon_variant,,ENST00000554644,;	T	ENSG00000011114	ENST00000334746	Transcript	missense_variant	1413	1105	369	E/K	Gaa/Aaa	.	.	.	-1	BTBD7	HGNC	18269	protein_coding	YES	CCDS32146.1	ENSP00000335615	BTBD7_HUMAN	G3V2J4_HUMAN	UPI00001FDA78	.	deleterious(0.01)	benign(0.328)	3/11	.	hmmpanther:PTHR16064,Gene3D:3.30.710.10,Pfam_domain:PF00651,SMART_domains:SM00225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCTTCTG	.	5	BLCA
DDX24	0	.	GRCh37	14	94528806	94528806	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880G>A	p.Glu294Lys	p.E294K	ENST00000330836	3/9	95	79	16	82	82	0	DDX24,missense_variant,p.Glu44Lys,ENST00000544005,;DDX24,missense_variant,p.Glu294Lys,ENST00000330836,;DDX24,missense_variant,p.Glu251Lys,ENST00000555054,;DDX24,non_coding_transcript_exon_variant,,ENST00000555762,;	T	ENSG00000089737	ENST00000330836	Transcript	missense_variant	1012	880	294	E/K	Gag/Aag	.	.	.	-1	DDX24	HGNC	13266	protein_coding	YES	CCDS9918.1	ENSP00000328690	DDX24_HUMAN	G3V529_HUMAN,F5GYL3_HUMAN	UPI0000129082	.	tolerated(0.1)	benign(0.026)	3/9	.	SMART_domains:SM00487,Pfam_domain:PF00270,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF91,PROSITE_profiles:PS51192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACTCAGCTT	.	4	BLCA
SETD3	0	.	GRCh37	14	99932065	99932065	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78G>A	p.%3D	p.L26L	ENST00000331768	2/13	92	78	14	79	79	0	SETD3,synonymous_variant,p.%3D,ENST00000331768,;SETD3,synonymous_variant,p.%3D,ENST00000329331,;SETD3,synonymous_variant,p.%3D,ENST00000436070,;SETD3,non_coding_transcript_exon_variant,,ENST00000453938,;SETD3,synonymous_variant,p.%3D,ENST00000357563,;SETD3,synonymous_variant,p.%3D,ENST00000453764,;SETD3,synonymous_variant,p.%3D,ENST00000446066,;	T	ENSG00000183576	ENST00000331768	Transcript	synonymous_variant	238	78	26	L	ttG/ttA	COSM380380	.	.	-1	SETD3	HGNC	20493	protein_coding	YES	CCDS9951.1	ENSP00000327436	SETD3_HUMAN	.	UPI000000CC6D	.	.	.	2/13	.	PROSITE_profiles:PS51565,hmmpanther:PTHR13271,hmmpanther:PTHR13271:SF8	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTTCAAGAT	.	4	BLCA
DNM1P46	0	.	GRCh37	15	100340167	100340167	+	RNA	SNP	G	G	C	rs772077597	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.760C>G	.	.	ENST00000341853	4/5	26	18	7	21	21	0	DNM1P46,non_coding_transcript_exon_variant,,ENST00000561042,;DNM1P46,non_coding_transcript_exon_variant,,ENST00000341853,;DNM1P46,non_coding_transcript_exon_variant,,ENST00000559110,;DNM1P46,non_coding_transcript_exon_variant,,ENST00000425045,;DNM1P46,non_coding_transcript_exon_variant,,ENST00000415963,;	C	ENSG00000182397	ENST00000341853	Transcript	non_coding_transcript_exon_variant	760	.	.	.	.	rs772077597	.	.	-1	DNM1P46	HGNC	35199	processed_transcript	YES	.	.	.	.	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGGAGTGT	.	5	BLCA
TARSL2	0	.	GRCh37	15	102242448	102242448	+	Silent	SNP	G	G	A	rs375324842	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215C>T	p.%3D	p.I405I	ENST00000335968	9/19	169	147	21	115	115	0	TARSL2,synonymous_variant,p.%3D,ENST00000335968,;TARSL2,upstream_gene_variant,,ENST00000557811,;TARSL2,synonymous_variant,p.%3D,ENST00000539112,;TARSL2,synonymous_variant,p.%3D,ENST00000558533,;	A	ENSG00000185418	ENST00000335968	Transcript	synonymous_variant	1432	1215	405	I	atC/atT	rs375324842,COSM3499837	.	.	-1	TARSL2	HGNC	24728	protein_coding	YES	CCDS10394.1	ENSP00000338093	SYTC2_HUMAN	.	UPI00001FE055	.	.	.	9/19	.	HAMAP:MF_00184,hmmpanther:PTHR11451:SF19,hmmpanther:PTHR11451,TIGRFAM_domain:TIGR00418,Gene3D:3.30.930.10,Superfamily_domains:SSF55681	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCCGATCTT	byCluster	4	BLCA
NIPA1	0	.	GRCh37	15	23048697	23048697	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*132G>C	.	.	ENST00000337435	5/5	18	13	5	17	17	0	NIPA1,3_prime_UTR_variant,,ENST00000538684,;NIPA1,3_prime_UTR_variant,,ENST00000561183,;NIPA1,3_prime_UTR_variant,,ENST00000337435,;NIPA1,3_prime_UTR_variant,,ENST00000437912,;NIPA1,3_prime_UTR_variant,,ENST00000559448,;NIPA1,downstream_gene_variant,,ENST00000560069,;NIPA1,downstream_gene_variant,,ENST00000557930,;	G	ENSG00000170113	ENST00000337435	Transcript	3_prime_UTR_variant	1147	.	.	.	.	.	.	.	-1	NIPA1	HGNC	17043	protein_coding	YES	CCDS10011.1	ENSP00000337452	NIPA1_HUMAN	Q3SYP4_HUMAN	UPI00001D9756	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATCCACCA	.	5	BLCA
MKRN3	0	.	GRCh37	15	23811429	23811429	+	Missense_Mutation	SNP	C	C	T	rs777359232	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.500C>T	p.Ser167Phe	p.S167F	ENST00000314520	1/1	55	45	10	49	49	0	MKRN3,missense_variant,p.Ser167Phe,ENST00000314520,;MKRN3,intron_variant,,ENST00000564592,;MKRN3,intron_variant,,ENST00000568252,;MIR4508,upstream_gene_variant,,ENST00000584178,;RP11-73C9.1,downstream_gene_variant,,ENST00000563044,;MKRN3,upstream_gene_variant,,ENST00000568945,;MKRN3,intron_variant,,ENST00000570112,;	T	ENSG00000179455	ENST00000314520	Transcript	missense_variant	976	500	167	S/F	tCc/tTc	rs777359232,COSM3886763	.	.	1	MKRN3	HGNC	7114	protein_coding	YES	CCDS10013.1	ENSP00000313881	MKRN3_HUMAN	.	UPI000000DAA1	.	tolerated(0.1)	benign(0.03)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11224,hmmpanther:PTHR11224:SF38	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCCTTGC	byFrequency	5	BLCA
HERC2	0	.	GRCh37	15	28508223	28508223	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1963C>G	p.Gln655Glu	p.Q655E	ENST00000261609	15/93	131	119	12	128	128	0	HERC2,missense_variant,p.Gln655Glu,ENST00000261609,;HERC2,3_prime_UTR_variant,,ENST00000564734,;	C	ENSG00000128731	ENST00000261609	Transcript	missense_variant	2072	1963	655	Q/E	Caa/Gaa	.	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	possibly_damaging(0.906)	15/93	.	PROSITE_profiles:PS50012,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308,Gene3D:2.130.10.30,Pfam_domain:PF00415,SMART_domains:SM00706,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GTCTTGAAGCT	.	3	BLCA
FAN1	0	.	GRCh37	15	31197412	31197412	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546G>C	p.Gln182His	p.Q182H	ENST00000362065	2/15	77	70	7	75	75	0	FAN1,missense_variant,p.Gln182His,ENST00000561607,;FAN1,missense_variant,p.Gln182His,ENST00000362065,;FAN1,missense_variant,p.Gln182His,ENST00000561594,;FAN1,missense_variant,p.Gln182His,ENST00000565466,;FAN1,intron_variant,,ENST00000562892,;FAN1,missense_variant,p.Gln182His,ENST00000565280,;RP11-540B6.3,downstream_gene_variant,,ENST00000565492,;	C	ENSG00000198690	ENST00000362065	Transcript	missense_variant	837	546	182	Q/H	caG/caC	.	.	.	1	FAN1	HGNC	29170	protein_coding	YES	CCDS32186.1	ENSP00000354497	FAN1_HUMAN	.	UPI000006D713	.	tolerated(0.15)	benign(0.04)	2/15	.	hmmpanther:PTHR15749:SF4,hmmpanther:PTHR15749	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACAGAGTTC	.	4	BLCA
RYR3	0	.	GRCh37	15	33939638	33939638	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3955G>A	p.Glu1319Lys	p.E1319K	ENST00000389232	30/104	57	46	11	45	45	0	RYR3,missense_variant,p.Glu1319Lys,ENST00000389232,;RYR3,missense_variant,p.Glu1319Lys,ENST00000415757,;	A	ENSG00000198838	ENST00000389232	Transcript	missense_variant	4025	3955	1319	E/K	Gaa/Aaa	.	.	.	1	RYR3	HGNC	10485	protein_coding	YES	CCDS45210.1	ENSP00000373884	RYR3_HUMAN	.	UPI0000E5B01A	.	.	benign(0.015)	30/104	.	hmmpanther:PTHR13715:SF16,hmmpanther:PTHR13715,PROSITE_profiles:PS50188	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAAGAAATA	.	5	BLCA
THBS1	0	.	GRCh37	15	39885656	39885656	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3054G>A	p.%3D	p.R1018R	ENST00000260356	19/22	377	319	57	278	278	0	THBS1,synonymous_variant,p.%3D,ENST00000260356,;CTD-2033D15.1,downstream_gene_variant,,ENST00000560769,;THBS1,non_coding_transcript_exon_variant,,ENST00000484734,;THBS1,downstream_gene_variant,,ENST00000560894,;THBS1,downstream_gene_variant,,ENST00000466755,;THBS1,downstream_gene_variant,,ENST00000478845,;THBS1,downstream_gene_variant,,ENST00000497720,;THBS1,downstream_gene_variant,,ENST00000490247,;THBS1,upstream_gene_variant,,ENST00000559746,;	A	ENSG00000137801	ENST00000260356	Transcript	synonymous_variant	3219	3054	1018	R	agG/agA	.	.	.	1	THBS1	HGNC	11785	protein_coding	YES	CCDS32194.1	ENSP00000260356	TSP1_HUMAN	Q7KYY3_HUMAN,A8MZG1_HUMAN,A0PJG0_HUMAN	UPI00001FE219	.	.	.	19/22	.	PROSITE_profiles:PS51236,hmmpanther:PTHR10199,hmmpanther:PTHR10199:SF78,Gene3D:2.60.120.200,Pfam_domain:PF05735,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAAGGGACGA	.	4	BLCA
C15orf57	0	.	GRCh37	15	40846308	40846308	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447G>C	p.Lys149Asn	p.K149N	ENST00000558750	4/4	77	64	13	73	73	0	C15orf57,missense_variant,p.Lys140Asn,ENST00000416810,;C15orf57,missense_variant,p.Lys140Asn,ENST00000358005,;C15orf57,missense_variant,p.Lys140Asn,ENST00000559103,;C15orf57,missense_variant,p.Lys149Asn,ENST00000558750,;C15orf57,missense_variant,p.Lys41Asn,ENST00000558918,;C15orf57,intron_variant,,ENST00000560305,;C15orf57,intron_variant,,ENST00000558113,;C15orf57,intron_variant,,ENST00000561011,;C15orf57,intron_variant,,ENST00000559911,;C15orf57,downstream_gene_variant,,ENST00000558871,;RP11-111A22.1,intron_variant,,ENST00000561460,;RP11-111A22.1,downstream_gene_variant,,ENST00000561039,;C15orf57,missense_variant,p.Lys140Asn,ENST00000559153,;C15orf57,missense_variant,p.Lys140Asn,ENST00000559291,;	G	ENSG00000128891	ENST00000558750	Transcript	missense_variant	647	447	149	K/N	aaG/aaC	.	.	.	-1	C15orf57	HGNC	28295	protein_coding	YES	CCDS42022.1	ENSP00000452773	CO057_HUMAN	H0YN78_HUMAN,H0YLN5_HUMAN	UPI000045681E	.	deleterious(0)	probably_damaging(0.983)	4/4	.	Pfam_domain:PF14989,hmmpanther:PTHR31800,hmmpanther:PTHR31800:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTTGAA	.	5	BLCA
CASC5	0	.	GRCh37	15	40914042	40914042	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1658C>T	p.Ser553Leu	p.S553L	ENST00000346991	11/27	84	75	9	60	60	0	CASC5,missense_variant,p.Ser553Leu,ENST00000346991,;CASC5,missense_variant,p.Ser527Leu,ENST00000399668,;CASC5,3_prime_UTR_variant,,ENST00000527044,;CASC5,non_coding_transcript_exon_variant,,ENST00000533001,;CASC5,intron_variant,,ENST00000534204,;CASC5,upstream_gene_variant,,ENST00000526913,;	T	ENSG00000137812	ENST00000346991	Transcript	missense_variant	2048	1658	553	S/L	tCa/tTa	.	.	.	1	CASC5	HGNC	24054	protein_coding	YES	CCDS42023.1	ENSP00000335463	CASC5_HUMAN	.	UPI0000E59BD3	.	tolerated(0.07)	benign(0.081)	11/27	.	hmmpanther:PTHR16520,hmmpanther:PTHR16520:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACATCAGAAG	.	4	BLCA
CASC5	0	.	GRCh37	15	40914272	40914272	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1888C>T	p.Gln630Ter	p.Q630*	ENST00000346991	11/27	90	69	20	61	61	0	CASC5,stop_gained,p.Gln630Ter,ENST00000346991,;CASC5,stop_gained,p.Gln604Ter,ENST00000399668,;CASC5,3_prime_UTR_variant,,ENST00000527044,;CASC5,non_coding_transcript_exon_variant,,ENST00000533001,;CASC5,intron_variant,,ENST00000534204,;CASC5,upstream_gene_variant,,ENST00000526913,;	T	ENSG00000137812	ENST00000346991	Transcript	stop_gained	2278	1888	630	Q/*	Cag/Tag	.	.	.	1	CASC5	HGNC	24054	protein_coding	YES	CCDS42023.1	ENSP00000335463	CASC5_HUMAN	.	UPI0000E59BD3	.	.	.	11/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16520,hmmpanther:PTHR16520:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCAGAGC	.	5	BLCA
LTK	0	.	GRCh37	15	41805975	41805975	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-68C>T	.	.	ENST00000263800	1/20	19	14	5	32	32	0	LTK,5_prime_UTR_variant,,ENST00000561619,;LTK,5_prime_UTR_variant,,ENST00000263800,;LTK,5_prime_UTR_variant,,ENST00000355166,;LTK,5_prime_UTR_variant,,ENST00000453182,;RPAP1,downstream_gene_variant,,ENST00000561603,;RPAP1,downstream_gene_variant,,ENST00000304330,;LTK,non_coding_transcript_exon_variant,,ENST00000563518,;RPAP1,downstream_gene_variant,,ENST00000562303,;RPAP1,downstream_gene_variant,,ENST00000565167,;	A	ENSG00000062524	ENST00000263800	Transcript	5_prime_UTR_variant	30	.	.	.	.	.	.	.	-1	LTK	HGNC	6721	protein_coding	YES	CCDS10077.1	ENSP00000263800	LTK_HUMAN	.	UPI000013D463	.	.	.	1/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTTGACAGC	.	4	BLCA
RPAP1	0	.	GRCh37	15	41813024	41813024	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3360C>G	p.%3D	p.L1120L	ENST00000304330	22/25	46	40	6	51	51	0	RPAP1,synonymous_variant,p.%3D,ENST00000304330,;RPAP1,intron_variant,,ENST00000561603,;RPAP1,downstream_gene_variant,,ENST00000565035,;RPAP1,synonymous_variant,p.%3D,ENST00000562303,;RPAP1,non_coding_transcript_exon_variant,,ENST00000565167,;RPAP1,downstream_gene_variant,,ENST00000564934,;RPAP1,downstream_gene_variant,,ENST00000561631,;	C	ENSG00000103932	ENST00000304330	Transcript	synonymous_variant	3477	3360	1120	L	ctC/ctG	.	.	.	-1	RPAP1	HGNC	24567	protein_coding	YES	CCDS10079.1	ENSP00000306123	RPAP1_HUMAN	H3BPY8_HUMAN,H3BPM3_HUMAN	UPI000013D465	.	.	.	22/25	.	hmmpanther:PTHR21483:SF18,hmmpanther:PTHR21483	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGAGAGTCC	.	4	BLCA
MGA	0	.	GRCh37	15	42003121	42003121	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2658G>C	p.Leu886Phe	p.L886F	ENST00000219905	8/24	173	148	25	131	130	1	MGA,missense_variant,p.Leu886Phe,ENST00000219905,;MGA,missense_variant,p.Leu886Phe,ENST00000563576,;MGA,missense_variant,p.Leu886Phe,ENST00000570161,;MGA,missense_variant,p.Leu886Phe,ENST00000545763,;MGA,missense_variant,p.Leu886Phe,ENST00000389936,;MGA,missense_variant,p.Leu886Phe,ENST00000566718,;MGA,missense_variant,p.Leu886Phe,ENST00000566586,;	C	ENSG00000174197	ENST00000219905	Transcript	missense_variant	2839	2658	886	L/F	ttG/ttC	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	tolerated(0.55)	benign(0.013)	8/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTGAAACC	.	4	BLCA
SNAP23	0	.	GRCh37	15	42805172	42805172	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.77G>A	p.Arg26Lys	p.R26K	ENST00000249647	3/8	42	36	6	64	64	0	SNAP23,missense_variant,p.Arg26Lys,ENST00000567094,;SNAP23,missense_variant,p.Arg26Lys,ENST00000397138,;SNAP23,missense_variant,p.Arg26Lys,ENST00000249647,;SNAP23,missense_variant,p.Arg26Lys,ENST00000349777,;SNAP23,missense_variant,p.Arg26Lys,ENST00000564153,;SNAP23,missense_variant,p.Arg26Lys,ENST00000561526,;SNAP23,missense_variant,p.Arg26Lys,ENST00000568859,;SNAP23,5_prime_UTR_variant,,ENST00000566327,;SNAP23,upstream_gene_variant,,ENST00000563830,;SNAP23,upstream_gene_variant,,ENST00000568841,;SNAP23,upstream_gene_variant,,ENST00000563873,;SNAP23,missense_variant,p.Arg26Lys,ENST00000566035,;SNAP23,missense_variant,p.Arg26Lys,ENST00000563765,;SNAP23,missense_variant,p.Arg26Lys,ENST00000568451,;SNAP23,missense_variant,p.Arg26Lys,ENST00000568331,;SNAP23,non_coding_transcript_exon_variant,,ENST00000568227,;SNAP23,non_coding_transcript_exon_variant,,ENST00000568745,;SNAP23,non_coding_transcript_exon_variant,,ENST00000568514,;SNAP23,downstream_gene_variant,,ENST00000563451,;	A	ENSG00000092531	ENST00000249647	Transcript	missense_variant	545	77	26	R/K	aGa/aAa	.	.	.	1	SNAP23	HGNC	11131	protein_coding	YES	CCDS10087.1	ENSP00000249647	SNP23_HUMAN	H3BV99_HUMAN,H3BR18_HUMAN,H3BM38_HUMAN,A8K287_HUMAN	UPI0000000A2C	.	deleterious(0.05)	benign(0.03)	3/8	.	PROSITE_profiles:PS50192,hmmpanther:PTHR19305,hmmpanther:PTHR19305:SF4,Gene3D:1.20.5.110,SMART_domains:SM00397,Superfamily_domains:SSF58038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGAGAATCC	.	4	BLCA
TMEM62	0	.	GRCh37	15	43438827	43438827	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Asp205Asn	p.D205N	ENST00000260403	5/14	122	107	15	112	112	0	TMEM62,missense_variant,p.Asp205Asn,ENST00000260403,;TMEM62,missense_variant,p.Asp137Asn,ENST00000564494,;TMEM62,missense_variant,p.Asp75Asn,ENST00000564698,;TMEM62,downstream_gene_variant,,ENST00000565291,;EPB42,intron_variant,,ENST00000570199,;TMEM62,3_prime_UTR_variant,,ENST00000569535,;TMEM62,non_coding_transcript_exon_variant,,ENST00000569897,;TMEM62,intron_variant,,ENST00000567441,;TMEM62,intron_variant,,ENST00000568182,;TMEM62,downstream_gene_variant,,ENST00000569926,;TMEM62,downstream_gene_variant,,ENST00000568197,;	A	ENSG00000137842	ENST00000260403	Transcript	missense_variant	892	613	205	D/N	Gat/Aat	.	.	.	1	TMEM62	HGNC	26269	protein_coding	YES	CCDS32210.1	ENSP00000260403	TMM62_HUMAN	H3BTT1_HUMAN,H3BPV2_HUMAN	UPI00004443FD	.	tolerated(0.97)	benign(0.012)	5/14	.	hmmpanther:PTHR14795,Gene3D:3.60.21.10,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTAGATAAG	.	4	BLCA
TP53BP1	0	.	GRCh37	15	43783913	43783913	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325A>T	p.Ile109Phe	p.I109F	ENST00000382044	4/28	221	178	43	167	167	0	TP53BP1,missense_variant,p.Ile109Phe,ENST00000413546,;TP53BP1,missense_variant,p.Ile109Phe,ENST00000382039,;TP53BP1,missense_variant,p.Ile109Phe,ENST00000450115,;TP53BP1,missense_variant,p.Ile104Phe,ENST00000263801,;TP53BP1,missense_variant,p.Ile109Phe,ENST00000382044,;TP53BP1,non_coding_transcript_exon_variant,,ENST00000572085,;	A	ENSG00000067369	ENST00000382044	Transcript	missense_variant	453	325	109	I/F	Atc/Ttc	.	.	.	-1	TP53BP1	HGNC	11999	protein_coding	YES	CCDS45250.1	ENSP00000371475	TP53B_HUMAN	B3KVT9_HUMAN	UPI0000D720ED	.	tolerated(0.75)	benign(0.361)	4/28	.	hmmpanther:PTHR15321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGATGGAAC	.	5	BLCA
RNU6-354P	0	.	GRCh37	15	44028996	44028996	+	5'Flank	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000383862	.	35	31	4	38	38	0	RNU6-354P,upstream_gene_variant,,ENST00000383862,;CATSPER2P1,non_coding_transcript_exon_variant,,ENST00000381680,;CATSPER2P1,non_coding_transcript_exon_variant,,ENST00000416302,;CATSPER2P1,intron_variant,,ENST00000439564,;	T	ENSG00000206589	ENST00000383862	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2513	-1	RNU6-354P	HGNC	47317	snRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TTCTTCATCCC	.	2	BLCA
SLC28A2	0	.	GRCh37	15	45555411	45555411	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415G>A	p.Glu139Lys	p.E139K	ENST00000347644	5/18	96	79	17	67	67	0	SLC28A2,missense_variant,p.Glu127Lys,ENST00000560438,;SLC28A2,missense_variant,p.Glu139Lys,ENST00000347644,;CTD-2651B20.3,intron_variant,,ENST00000560344,;CTD-2651B20.3,intron_variant,,ENST00000561404,;SLC28A2,missense_variant,p.Glu52Lys,ENST00000559924,;	A	ENSG00000137860	ENST00000347644	Transcript	missense_variant	480	415	139	E/K	Gaa/Aaa	.	.	.	1	SLC28A2	HGNC	11002	protein_coding	YES	CCDS10121.1	ENSP00000315006	S28A2_HUMAN	.	UPI000013D0D5	.	tolerated(0.92)	benign(0.001)	5/18	.	hmmpanther:PTHR10590,hmmpanther:PTHR10590:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTGAAAAC	.	5	BLCA
SQRDL	0	.	GRCh37	15	45968325	45968325	+	Silent	SNP	C	C	T	rs753665576	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681C>T	p.%3D	p.I227I	ENST00000260324	6/10	232	199	32	209	209	0	SQRDL,synonymous_variant,p.%3D,ENST00000260324,;RP11-96O20.4,synonymous_variant,p.%3D,ENST00000564080,;SQRDL,synonymous_variant,p.%3D,ENST00000568606,;SQRDL,downstream_gene_variant,,ENST00000566934,;	T	ENSG00000137767	ENST00000260324	Transcript	synonymous_variant	1067	681	227	I	atC/atT	rs753665576	.	.	1	SQRDL	HGNC	20390	protein_coding	YES	CCDS10127.1	ENSP00000260324	SQRD_HUMAN	H3BV36_HUMAN,H3BUD7_HUMAN,H3BT21_HUMAN	UPI0000135EA5	.	.	.	6/10	.	hmmpanther:PTHR10632,Pfam_domain:PF07992	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATATCATTTT	.	4	BLCA
DUT	0	.	GRCh37	15	48633852	48633852	+	Intron	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702+70G>C	.	.	ENST00000331200	.	45	38	7	34	34	0	DUT,3_prime_UTR_variant,,ENST00000559540,;DUT,intron_variant,,ENST00000558813,;DUT,intron_variant,,ENST00000455976,;DUT,intron_variant,,ENST00000331200,;DUT,intron_variant,,ENST00000558472,;DUT,intron_variant,,ENST00000559416,;DUT,intron_variant,,ENST00000558367,;DUT,downstream_gene_variant,,ENST00000559935,;DUT,downstream_gene_variant,,ENST00000561350,;DUT,intron_variant,,ENST00000559852,;DUT,intron_variant,,ENST00000558978,;	C	ENSG00000128951	ENST00000331200	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	DUT	HGNC	3078	protein_coding	YES	CCDS32231.1	ENSP00000370376	DUT_HUMAN	.	UPI000035ECE0	.	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTGAGAAT	.	4	BLCA
TRPM7	0	.	GRCh37	15	50888505	50888505	+	Silent	SNP	G	G	C	rs575467501	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3237C>G	p.%3D	p.V1079V	ENST00000313478	23/39	138	120	18	76	76	0	TRPM7,synonymous_variant,p.%3D,ENST00000560955,;TRPM7,synonymous_variant,p.%3D,ENST00000313478,;TRPM7,non_coding_transcript_exon_variant,,ENST00000560284,;	C	ENSG00000092439	ENST00000313478	Transcript	synonymous_variant	3519	3237	1079	V	gtC/gtG	rs575467501	.	.	-1	TRPM7	HGNC	17994	protein_coding	YES	CCDS42035.1	ENSP00000320239	TRPM7_HUMAN	.	UPI0000071CBA	.	.	.	23/39	.	Transmembrane_helices:TMhelix,Pfam_domain:PF00520,hmmpanther:PTHR13800:SF8,hmmpanther:PTHR13800	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTAGACTGC	by1000G	4	BLCA
DMXL2	0	.	GRCh37	15	51827926	51827926	+	Silent	SNP	C	C	G	rs767545425	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2370G>C	p.%3D	p.L790L	ENST00000543779	13/43	102	82	20	86	86	0	DMXL2,synonymous_variant,p.%3D,ENST00000449909,;DMXL2,synonymous_variant,p.%3D,ENST00000543779,;DMXL2,synonymous_variant,p.%3D,ENST00000251076,;	G	ENSG00000104093	ENST00000543779	Transcript	synonymous_variant	2460	2370	790	L	ctG/ctC	rs767545425	.	.	-1	DMXL2	HGNC	2938	protein_coding	YES	CCDS53946.1	ENSP00000441858	DMXL2_HUMAN	.	UPI00001FE4C2	.	.	.	13/43	.	SMART_domains:SM00320,hmmpanther:PTHR13950:SF11,hmmpanther:PTHR13950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTCAGATT	.	5	BLCA
BCL2L10	0	.	GRCh37	15	52401969	52401969	+	3'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*76G>A	.	.	ENST00000260442	2/2	225	198	26	167	167	0	BCL2L10,3_prime_UTR_variant,,ENST00000561198,;BCL2L10,3_prime_UTR_variant,,ENST00000260442,;	T	ENSG00000137875	ENST00000260442	Transcript	3_prime_UTR_variant	740	.	.	.	.	.	.	.	-1	BCL2L10	HGNC	993	protein_coding	YES	CCDS10148.1	ENSP00000260442	B2L10_HUMAN	.	UPI000013D0DA	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTCAGTTC	.	4	BLCA
C15orf65	0	.	GRCh37	15	55710292	55710292	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19-129C>G	.	.	ENST00000569691	.	59	52	7	40	40	0	DYX1C1,missense_variant,p.Glu363Gln,ENST00000448430,;DYX1C1,missense_variant,p.Glu363Gln,ENST00000380679,;C15orf65,intron_variant,,ENST00000569691,;DYX1C1-CCPG1,intron_variant,,ENST00000565113,;DYX1C1-CCPG1,intron_variant,,ENST00000568310,;C15orf65,intron_variant,,ENST00000570794,;DYX1C1,intron_variant,,ENST00000524160,;	G	ENSG00000261652	ENST00000569691	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	C15orf65	HGNC	44654	protein_coding	YES	CCDS58363.1	ENSP00000456337	CO065_HUMAN	.	UPI000016162D	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTCAGAGG	.	4	BLCA
PRTG	0	.	GRCh37	15	55972312	55972312	+	Missense_Mutation	SNP	G	G	A	rs377763914	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.913C>T	p.Arg305Trp	p.R305W	ENST00000389286	6/20	62	56	5	53	53	0	PRTG,missense_variant,p.Arg305Trp,ENST00000389286,;PRTG,upstream_gene_variant,,ENST00000561465,;RP11-420M1.2,upstream_gene_variant,,ENST00000561155,;PRTG,upstream_gene_variant,,ENST00000559842,;	A	ENSG00000166450	ENST00000389286	Transcript	missense_variant	961	913	305	R/W	Cgg/Tgg	rs377763914,COSM4055782	.	.	-1	PRTG	HGNC	26373	protein_coding	YES	CCDS42040.1	ENSP00000373937	PRTG_HUMAN	H0YKD6_HUMAN	UPI00001555A7	.	deleterious(0)	probably_damaging(1)	6/20	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00408,Pfam_domain:PF07679,hmmpanther:PTHR10489:SF20,hmmpanther:PTHR10489,PROSITE_profiles:PS50835	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0.0003	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGCCCGACAAA	byCluster|by1000G	3	BLCA
NEDD4	0	.	GRCh37	15	56208209	56208209	+	Nonsense_Mutation	SNP	G	G	C	rs766915892	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.821C>G	p.Ser274Ter	p.S274*	ENST00000338963	1/22	125	106	19	103	103	0	NEDD4,stop_gained,p.Ser274Ter,ENST00000506154,;NEDD4,stop_gained,p.Ser274Ter,ENST00000338963,;NEDD4,stop_gained,p.Ser274Ter,ENST00000508342,;NEDD4,intron_variant,,ENST00000435532,;NEDD4,upstream_gene_variant,,ENST00000508871,;NEDD4,intron_variant,,ENST00000514893,;NEDD4,stop_gained,p.Ser154Ter,ENST00000503468,;NEDD4,intron_variant,,ENST00000507063,;NEDD4,intron_variant,,ENST00000502612,;	C	ENSG00000069869	ENST00000338963	Transcript	stop_gained	1121	821	274	S/*	tCa/tGa	rs766915892	.	.	-1	NEDD4	HGNC	7727	protein_coding	YES	CCDS10156.1	ENSP00000345530	NEDD4_HUMAN	.	UPI00001418FE	.	.	.	1/22	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTGAAGGA	.	5	BLCA
TEX9	0	.	GRCh37	15	56687022	56687022	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.818C>T	p.Ser273Leu	p.S273L	ENST00000352903	9/13	50	39	10	28	28	0	TEX9,missense_variant,p.Ser198Leu,ENST00000558083,;TEX9,missense_variant,p.Ser198Leu,ENST00000537232,;TEX9,missense_variant,p.Ser273Leu,ENST00000352903,;TEX9,missense_variant,p.Ser273Leu,ENST00000561221,;TEX9,missense_variant,p.Ser29Leu,ENST00000560582,;TEX9,downstream_gene_variant,,ENST00000560827,;RP11-48G14.2,non_coding_transcript_exon_variant,,ENST00000564401,;TEX9,downstream_gene_variant,,ENST00000559546,;TEX9,downstream_gene_variant,,ENST00000558127,;	T	ENSG00000151575	ENST00000352903	Transcript	missense_variant	842	818	273	S/L	tCa/tTa	.	.	.	1	TEX9	HGNC	29585	protein_coding	YES	CCDS10157.1	ENSP00000342169	TEX9_HUMAN	H0YKG1_HUMAN,B4DH73_HUMAN	UPI00000731FD	.	deleterious(0.03)	benign(0.009)	9/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23313,Superfamily_domains:SSF57997	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCAGTAG	.	5	BLCA
TEX9	0	.	GRCh37	15	56719898	56719898	+	Silent	SNP	G	G	A	rs746766895	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1059G>A	p.%3D	p.K353K	ENST00000352903	11/13	252	221	31	175	175	0	TEX9,synonymous_variant,p.%3D,ENST00000537232,;TEX9,synonymous_variant,p.%3D,ENST00000352903,;TEX9,intron_variant,,ENST00000560582,;MNS1,downstream_gene_variant,,ENST00000260453,;MNS1,intron_variant,,ENST00000566386,;	A	ENSG00000151575	ENST00000352903	Transcript	synonymous_variant	1083	1059	353	K	aaG/aaA	rs746766895	.	.	1	TEX9	HGNC	29585	protein_coding	YES	CCDS10157.1	ENSP00000342169	TEX9_HUMAN	H0YKG1_HUMAN,B4DH73_HUMAN	UPI00000731FD	.	.	.	11/13	.	hmmpanther:PTHR23313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCAAGAAACA	.	4	BLCA
USP3	0	.	GRCh37	15	63883061	63883061	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*36G>C	.	.	ENST00000380324	15/15	59	47	12	45	45	0	USP3,3_prime_UTR_variant,,ENST00000380324,;USP3,3_prime_UTR_variant,,ENST00000558285,;USP3,3_prime_UTR_variant,,ENST00000540797,;USP3,3_prime_UTR_variant,,ENST00000539772,;USP3,3_prime_UTR_variant,,ENST00000559711,;USP3,3_prime_UTR_variant,,ENST00000268049,;USP3-AS1,intron_variant,,ENST00000559737,;USP3-AS1,intron_variant,,ENST00000561256,;USP3-AS1,intron_variant,,ENST00000558831,;USP3-AS1,intron_variant,,ENST00000560962,;USP3-AS1,intron_variant,,ENST00000559861,;USP3-AS1,downstream_gene_variant,,ENST00000560622,;USP3-AS1,upstream_gene_variant,,ENST00000559357,;USP3-AS1,upstream_gene_variant,,ENST00000560350,;USP3-AS1,downstream_gene_variant,,ENST00000561191,;USP3,non_coding_transcript_exon_variant,,ENST00000558218,;USP3,3_prime_UTR_variant,,ENST00000559257,;USP3,3_prime_UTR_variant,,ENST00000560202,;USP3,3_prime_UTR_variant,,ENST00000538686,;USP3,3_prime_UTR_variant,,ENST00000559192,;USP3,3_prime_UTR_variant,,ENST00000558157,;USP3,non_coding_transcript_exon_variant,,ENST00000559718,;USP3,non_coding_transcript_exon_variant,,ENST00000561381,;USP3,downstream_gene_variant,,ENST00000559873,;	C	ENSG00000140455	ENST00000380324	Transcript	3_prime_UTR_variant	1728	.	.	.	.	.	.	.	1	USP3	HGNC	12626	protein_coding	YES	CCDS32265.1	ENSP00000369681	UBP3_HUMAN	Q9Y2R8_HUMAN,H0YM72_HUMAN,B4DWJ6_HUMAN	UPI0000071F2D	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCAGAGAAA	.	4	BLCA
PTPLAD1	0	.	GRCh37	15	65849213	65849213	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.341C>G	p.Ser114Cys	p.S114C	ENST00000261875	4/11	17	13	3	15	15	0	PTPLAD1,missense_variant,p.Ser114Cys,ENST00000261875,;PTPLAD1,missense_variant,p.Ser89Cys,ENST00000568793,;PTPLAD1,missense_variant,p.Ser152Cys,ENST00000565299,;PTPLAD1,5_prime_UTR_variant,,ENST00000569894,;PTPLAD1,5_prime_UTR_variant,,ENST00000566074,;PTPLAD1,5_prime_UTR_variant,,ENST00000562901,;PTPLAD1,5_prime_UTR_variant,,ENST00000562832,;PTPLAD1,5_prime_UTR_variant,,ENST00000566511,;PTPLAD1,intron_variant,,ENST00000442729,;RNU6-19P,upstream_gene_variant,,ENST00000384718,;PTPLAD1,downstream_gene_variant,,ENST00000566239,;	G	ENSG00000074696	ENST00000261875	Transcript	missense_variant	507	341	114	S/C	tCt/tGt	.	.	.	1	PTPLAD1	HGNC	24175	protein_coding	YES	CCDS45282.1	ENSP00000261875	HACD3_HUMAN	H3BRL8_HUMAN,H3BMZ1_HUMAN	UPI00001D6EF0	.	deleterious(0)	probably_damaging(0.999)	4/11	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11035,hmmpanther:PTHR11035:SF20,Gene3D:2.60.40.790	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAATCTGATG	.	5	BLCA
IQCH	0	.	GRCh37	15	67793068	67793068	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3068C>G	p.Ser1023Cys	p.S1023C	ENST00000335894	21/21	64	52	12	45	45	0	IQCH,missense_variant,p.Ser680Cys,ENST00000546225,;IQCH,missense_variant,p.Ser1023Cys,ENST00000335894,;IQCH,missense_variant,p.Ser86Cys,ENST00000558759,;IQCH,3_prime_UTR_variant,,ENST00000358767,;IQCH,3_prime_UTR_variant,,ENST00000360277,;IQCH-AS1,intron_variant,,ENST00000559285,;IQCH-AS1,intron_variant,,ENST00000559298,;IQCH-AS1,intron_variant,,ENST00000561232,;IQCH,3_prime_UTR_variant,,ENST00000514049,;	G	ENSG00000103599	ENST00000335894	Transcript	missense_variant	3134	3068	1023	S/C	tCt/tGt	.	.	.	1	IQCH	HGNC	25721	protein_coding	YES	CCDS32273.1	ENSP00000336861	IQCH_HUMAN	H3BRL4_HUMAN	UPI000013CCE9	.	tolerated_low_confidence(0.1)	possibly_damaging(0.639)	21/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTAAAC	.	5	BLCA
ITGA11	0	.	GRCh37	15	68596207	68596207	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3398C>G	p.Ser1133Cys	p.S1133C	ENST00000315757	29/30	45	42	3	51	51	0	ITGA11,missense_variant,p.Ser1133Cys,ENST00000315757,;ITGA11,missense_variant,p.Ser1134Cys,ENST00000423218,;RP11-709B3.2,upstream_gene_variant,,ENST00000569808,;	C	ENSG00000137809	ENST00000315757	Transcript	missense_variant	3485	3398	1133	S/C	tCc/tGc	.	.	.	-1	ITGA11	HGNC	6136	protein_coding	YES	CCDS45291.1	ENSP00000327290	ITA11_HUMAN	.	UPI00001FE74D	.	tolerated(0.07)	probably_damaging(0.928)	29/30	.	hmmpanther:PTHR23220:SF21,hmmpanther:PTHR23220,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTGGAGATC	.	2	BLCA
ARIH1	0	.	GRCh37	15	72837290	72837290	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.573G>C	p.Leu191Phe	p.L191F	ENST00000379887	3/14	100	91	9	84	84	0	ARIH1,missense_variant,p.Leu191Phe,ENST00000379887,;ARIH1,intron_variant,,ENST00000564062,;ARIH1,downstream_gene_variant,,ENST00000567762,;ARIH1,intron_variant,,ENST00000570085,;	C	ENSG00000166233	ENST00000379887	Transcript	missense_variant	887	573	191	L/F	ttG/ttC	.	.	.	1	ARIH1	HGNC	689	protein_coding	YES	CCDS10244.1	ENSP00000369217	ARI1_HUMAN	.	UPI0000033466	.	tolerated(0.12)	benign(0.321)	3/14	.	PROSITE_profiles:PS50089,hmmpanther:PTHR11685,hmmpanther:PTHR11685:SF10,Gene3D:3.30.40.10,Pfam_domain:PF13923,SMART_domains:SM00184,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACTTGAACTA	.	3	BLCA
HIGD2B	0	.	GRCh37	15	72968669	72968669	+	Missense_Mutation	SNP	G	G	A	rs763698110	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.47C>T	p.Ser16Leu	p.S16L	ENST00000311755	3/3	19	16	3	20	20	0	HIGD2B,missense_variant,p.Ser16Leu,ENST00000311755,;	A	ENSG00000175202	ENST00000311755	Transcript	missense_variant	571	47	16	S/L	tCg/tTg	rs763698110	.	.	-1	HIGD2B	HGNC	26984	protein_coding	YES	.	ENSP00000307951	HIG2B_HUMAN	.	UPI000013F1F3	.	tolerated(0.17)	benign(0.302)	3/3	.	hmmpanther:PTHR12297,hmmpanther:PTHR12297:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTCGATGAT	.	2	BLCA
NEO1	0	.	GRCh37	15	73470685	73470685	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1208C>T	p.Ser403Leu	p.S403L	ENST00000339362	8/30	78	69	9	81	81	0	NEO1,missense_variant,p.Ser403Leu,ENST00000261908,;NEO1,missense_variant,p.Ser403Leu,ENST00000558964,;NEO1,missense_variant,p.Ser403Leu,ENST00000339362,;NEO1,missense_variant,p.Ser79Leu,ENST00000560328,;NEO1,missense_variant,p.Ser403Leu,ENST00000560262,;	T	ENSG00000067141	ENST00000339362	Transcript	missense_variant	1655	1208	403	S/L	tCa/tTa	.	.	.	1	NEO1	HGNC	7754	protein_coding	YES	CCDS10247.1	ENSP00000341198	NEO1_HUMAN	.	UPI000013D221	.	tolerated(0.06)	benign(0.051)	8/30	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF55,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAATCAGATG	.	4	BLCA
ISLR2	0	.	GRCh37	15	74425108	74425108	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13C>T	p.Arg5Trp	p.R5W	ENST00000361742	4/4	41	31	9	42	42	0	ISLR2,missense_variant,p.Arg5Trp,ENST00000565540,;ISLR2,missense_variant,p.Arg5Trp,ENST00000567206,;ISLR2,missense_variant,p.Arg5Trp,ENST00000445793,;ISLR2,missense_variant,p.Arg5Trp,ENST00000565332,;ISLR2,missense_variant,p.Arg5Trp,ENST00000453268,;ISLR2,missense_variant,p.Arg5Trp,ENST00000561740,;ISLR2,missense_variant,p.Arg5Trp,ENST00000569886,;ISLR2,missense_variant,p.Arg5Trp,ENST00000361742,;ISLR2,missense_variant,p.Arg5Trp,ENST00000419208,;ISLR2,missense_variant,p.Arg5Trp,ENST00000435464,;ISLR2,missense_variant,p.Arg5Trp,ENST00000565159,;RP11-247C2.2,upstream_gene_variant,,ENST00000514871,;RP11-247C2.2,upstream_gene_variant,,ENST00000563727,;ISLR2,intron_variant,,ENST00000561975,;ISLR2,downstream_gene_variant,,ENST00000565068,;	T	ENSG00000167178	ENST00000361742	Transcript	missense_variant	782	13	5	R/W	Cgg/Tgg	COSM1301409	.	.	1	ISLR2	HGNC	29286	protein_coding	YES	CCDS10259.1	ENSP00000355402	ISLR2_HUMAN	H3BNZ6_HUMAN,H3BM95_HUMAN,H3BM69_HUMAN	UPI000004C60F	.	tolerated(0.18)	probably_damaging(0.973)	4/4	.	Cleavage_site_(Signalp):SignalP-noTM,PROSITE_profiles:PS51257,hmmpanther:PTHR24366:SF12,hmmpanther:PTHR24366	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCGGGCC	.	5	BLCA
ARID3B	0	.	GRCh37	15	74836524	74836524	+	Missense_Mutation	SNP	G	G	C	rs377303553	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>C	p.Glu83Gln	p.E83Q	ENST00000346246	2/9	61	55	6	29	29	0	ARID3B,missense_variant,p.Glu83Gln,ENST00000346246,;ARID3B,upstream_gene_variant,,ENST00000566147,;ARID3B,non_coding_transcript_exon_variant,,ENST00000569680,;	C	ENSG00000179361	ENST00000346246	Transcript	missense_variant	478	247	83	E/Q	Gaa/Caa	rs377303553	.	.	1	ARID3B	HGNC	14350	protein_coding	YES	CCDS10264.1	ENSP00000343126	ARI3B_HUMAN	H3BQ92_HUMAN	UPI0000070441	.	deleterious_low_confidence(0.03)	possibly_damaging(0.87)	2/9	.	hmmpanther:PTHR15348,hmmpanther:PTHR15348:SF3	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTTTGAACGG	byFrequency|byCluster	4	BLCA
ARID3B	0	.	GRCh37	15	74884062	74884062	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327G>A	p.Glu443Lys	p.E443K	ENST00000346246	7/9	27	21	5	27	27	0	ARID3B,missense_variant,p.Glu443Lys,ENST00000346246,;ARID3B,downstream_gene_variant,,ENST00000566147,;ARID3B,upstream_gene_variant,,ENST00000563567,;ARID3B,non_coding_transcript_exon_variant,,ENST00000566468,;	A	ENSG00000179361	ENST00000346246	Transcript	missense_variant	1558	1327	443	E/K	Gag/Aag	.	.	.	1	ARID3B	HGNC	14350	protein_coding	YES	CCDS10264.1	ENSP00000343126	ARI3B_HUMAN	H3BQ92_HUMAN	UPI0000070441	.	deleterious(0)	probably_damaging(0.997)	7/9	.	PROSITE_profiles:PS51486,hmmpanther:PTHR15348,hmmpanther:PTHR15348:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCTGAGGAG	.	2	BLCA
CSK	0	.	GRCh37	15	75091737	75091737	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>A	p.Asp123Asn	p.D123N	ENST00000220003	5/13	37	29	7	40	40	0	CSK,missense_variant,p.Asp44Asn,ENST00000567123,;CSK,missense_variant,p.Asp123Asn,ENST00000439220,;CSK,missense_variant,p.Asp123Asn,ENST00000220003,;CSK,missense_variant,p.Asp123Asn,ENST00000567571,;CSK,missense_variant,p.Asp123Asn,ENST00000309470,;CSK,downstream_gene_variant,,ENST00000569915,;CSK,downstream_gene_variant,,ENST00000569462,;CSK,non_coding_transcript_exon_variant,,ENST00000562066,;CSK,non_coding_transcript_exon_variant,,ENST00000567135,;CSK,non_coding_transcript_exon_variant,,ENST00000568329,;CSK,upstream_gene_variant,,ENST00000566464,;CSK,downstream_gene_variant,,ENST00000563894,;CSK,upstream_gene_variant,,ENST00000569321,;CSK,upstream_gene_variant,,ENST00000564216,;CSK,upstream_gene_variant,,ENST00000563010,;	A	ENSG00000103653	ENST00000220003	Transcript	missense_variant	1096	367	123	D/N	Gac/Aac	.	.	.	1	CSK	HGNC	2444	protein_coding	YES	CCDS10269.1	ENSP00000220003	CSK_HUMAN	Q53EL3_HUMAN,H3BUM9_HUMAN,H3BU69_HUMAN,H3BN15_HUMAN,B4DMZ0_HUMAN,B2R6Q4_HUMAN	UPI0000128541	.	tolerated(0.49)	benign(0.217)	5/13	.	Prints_domain:PR00401,Superfamily_domains:SSF55550,SMART_domains:SM00252,Gene3D:3.30.505.10,Pfam_domain:PF00017,hmmpanther:PTHR24418:SF52,hmmpanther:PTHR24418,PROSITE_profiles:PS50001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGACGGC	.	5	BLCA
MAN2C1	0	.	GRCh37	15	75652499	75652499	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1638C>T	p.%3D	p.L546L	ENST00000565683	14/26	191	158	33	135	135	0	MAN2C1,synonymous_variant,p.%3D,ENST00000565683,;MAN2C1,synonymous_variant,p.%3D,ENST00000563622,;MAN2C1,synonymous_variant,p.%3D,ENST00000267978,;MAN2C1,synonymous_variant,p.%3D,ENST00000569482,;MAN2C1,downstream_gene_variant,,ENST00000566256,;NEIL1,downstream_gene_variant,,ENST00000564784,;MAN2C1,downstream_gene_variant,,ENST00000561615,;MAN2C1,downstream_gene_variant,,ENST00000568374,;NEIL1,downstream_gene_variant,,ENST00000355059,;NEIL1,downstream_gene_variant,,ENST00000569035,;RP11-817O13.6,upstream_gene_variant,,ENST00000563660,;MAN2C1,downstream_gene_variant,,ENST00000563539,;MAN2C1,downstream_gene_variant,,ENST00000566253,;MAN2C1,3_prime_UTR_variant,,ENST00000566634,;MAN2C1,non_coding_transcript_exon_variant,,ENST00000563441,;MAN2C1,non_coding_transcript_exon_variant,,ENST00000562461,;MAN2C1,non_coding_transcript_exon_variant,,ENST00000563596,;MAN2C1,non_coding_transcript_exon_variant,,ENST00000564785,;MAN2C1,upstream_gene_variant,,ENST00000563794,;MAN2C1,downstream_gene_variant,,ENST00000421803,;MAN2C1,downstream_gene_variant,,ENST00000565699,;MAN2C1,upstream_gene_variant,,ENST00000566099,;MAN2C1,upstream_gene_variant,,ENST00000561693,;MAN2C1,upstream_gene_variant,,ENST00000566569,;MAN2C1,upstream_gene_variant,,ENST00000567360,;NEIL1,downstream_gene_variant,,ENST00000569758,;MAN2C1,downstream_gene_variant,,ENST00000565784,;MAN2C1,downstream_gene_variant,,ENST00000563058,;MAN2C1,upstream_gene_variant,,ENST00000562067,;MAN2C1,upstream_gene_variant,,ENST00000566013,;MAN2C1,downstream_gene_variant,,ENST00000569355,;MAN2C1,downstream_gene_variant,,ENST00000562071,;MAN2C1,downstream_gene_variant,,ENST00000568944,;MAN2C1,downstream_gene_variant,,ENST00000565801,;MAN2C1,upstream_gene_variant,,ENST00000564570,;NEIL1,downstream_gene_variant,,ENST00000561643,;MAN2C1,downstream_gene_variant,,ENST00000565534,;NEIL1,downstream_gene_variant,,ENST00000565121,;MAN2C1,downstream_gene_variant,,ENST00000563013,;MAN2C1,upstream_gene_variant,,ENST00000564929,;MAN2C1,upstream_gene_variant,,ENST00000567163,;MAN2C1,upstream_gene_variant,,ENST00000563368,;MAN2C1,downstream_gene_variant,,ENST00000570257,;NEIL1,downstream_gene_variant,,ENST00000567393,;MAN2C1,upstream_gene_variant,,ENST00000565953,;MAN2C1,downstream_gene_variant,,ENST00000562228,;MAN2C1,upstream_gene_variant,,ENST00000563528,;MAN2C1,upstream_gene_variant,,ENST00000569176,;	A	ENSG00000140400	ENST00000565683	Transcript	synonymous_variant	1650	1638	546	L	ctC/ctT	.	.	.	-1	MAN2C1	HGNC	6827	protein_coding	YES	CCDS58391.1	ENSP00000457788	MA2C1_HUMAN	H3BRV3_HUMAN	UPI0000229CBC	.	.	.	14/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11607:SF15,hmmpanther:PTHR11607,Gene3D:3bvxA02,Pfam_domain:PF09261,SMART_domains:SM00872,Superfamily_domains:SSF88688	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTACTGAGCAG	.	4	BLCA
CSPG4	0	.	GRCh37	15	75968322	75968322	+	Missense_Mutation	SNP	C	C	T	rs370893364	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6538G>A	p.Glu2180Lys	p.E2180K	ENST00000308508	10/10	25	21	4	16	16	0	CSPG4,missense_variant,p.Glu2180Lys,ENST00000308508,;AC105020.1,upstream_gene_variant,,ENST00000435356,;CTD-2026K11.1,upstream_gene_variant,,ENST00000569467,;	T	ENSG00000173546	ENST00000308508	Transcript	missense_variant	6631	6538	2180	E/K	Gag/Aag	rs370893364	.	.	-1	CSPG4	HGNC	2466	protein_coding	YES	CCDS10284.1	ENSP00000312506	CSPG4_HUMAN	.	UPI00001AEEB6	.	tolerated(0.7)	benign(0.002)	10/10	.	hmmpanther:PTHR15036,hmmpanther:PTHR15036:SF11	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCGGGGA	byFrequency|byCluster	2	BLCA
PEAK1	0	.	GRCh37	15	77473584	77473584	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685G>C	p.Glu229Gln	p.E229Q	ENST00000560626	4/7	208	175	33	164	164	0	PEAK1,missense_variant,p.Glu229Gln,ENST00000560626,;PEAK1,missense_variant,p.Glu229Gln,ENST00000558305,;PEAK1,missense_variant,p.Glu229Gln,ENST00000564328,;PEAK1,missense_variant,p.Glu229Gln,ENST00000312493,;PEAK1,downstream_gene_variant,,ENST00000565820,;PEAK1,downstream_gene_variant,,ENST00000567808,;PEAK1,upstream_gene_variant,,ENST00000559791,;PEAK1,upstream_gene_variant,,ENST00000560854,;	G	ENSG00000173517	ENST00000560626	Transcript	missense_variant	1161	685	229	E/Q	Gag/Cag	.	.	.	-1	PEAK1	HGNC	29431	protein_coding	YES	CCDS42062.1	ENSP00000452796	PEAK1_HUMAN	H3BUZ5_HUMAN,H3BUE6_HUMAN	UPI00002378D0	.	tolerated(0.09)	possibly_damaging(0.765)	4/7	.	hmmpanther:PTHR22972,hmmpanther:PTHR22972:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACTCTGGGT	.	4	BLCA
SH2D7	0	.	GRCh37	15	78393296	78393296	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.701C>G	p.Ser234Cys	p.S234C	ENST00000328828	5/6	55	44	11	51	51	0	SH2D7,missense_variant,p.Ser234Cys,ENST00000328828,;SH2D7,missense_variant,p.Ser98Cys,ENST00000409568,;CIB2,downstream_gene_variant,,ENST00000539011,;CIB2,downstream_gene_variant,,ENST00000258930,;CIB2,downstream_gene_variant,,ENST00000557846,;CIB2,downstream_gene_variant,,ENST00000559645,;CIB2,downstream_gene_variant,,ENST00000560618,;CIB2,downstream_gene_variant,,ENST00000561190,;CIB2,downstream_gene_variant,,ENST00000557818,;CIB2,downstream_gene_variant,,ENST00000557917,;	G	ENSG00000183476	ENST00000328828	Transcript	missense_variant	701	701	234	S/C	tCt/tGt	.	.	.	1	SH2D7	HGNC	34549	protein_coding	YES	CCDS45315.1	ENSP00000327846	SH2D7_HUMAN	B8ZZB5_HUMAN	UPI00006C15D7	.	deleterious(0.01)	possibly_damaging(0.862)	5/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14388,hmmpanther:PTHR14388:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCTTTTG	.	5	BLCA
ADAMTSL3	0	.	GRCh37	15	84506907	84506907	+	Missense_Mutation	SNP	G	G	A	rs745534521	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.667G>A	p.Asp223Asn	p.D223N	ENST00000286744	7/30	88	69	18	73	73	0	ADAMTSL3,missense_variant,p.Asp223Asn,ENST00000286744,;ADAMTSL3,missense_variant,p.Asp223Asn,ENST00000567476,;ADAMTSL3,non_coding_transcript_exon_variant,,ENST00000561483,;ADAMTSL3,non_coding_transcript_exon_variant,,ENST00000569510,;	A	ENSG00000156218	ENST00000286744	Transcript	missense_variant	891	667	223	D/N	Gat/Aat	rs745534521,COSM1717975	.	.	1	ADAMTSL3	HGNC	14633	protein_coding	YES	CCDS10326.1	ENSP00000286744	ATL3_HUMAN	.	UPI00001615A5	.	deleterious(0.03)	benign(0.135)	7/30	.	Prints_domain:PR01857,hmmpanther:PTHR13723:SF169,hmmpanther:PTHR13723	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGCGATGGC	byFrequency	5	BLCA
TNFRSF17	0	.	GRCh37	16	12059215	12059215	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>C	p.Glu12Gln	p.E12Q	ENST00000053243	1/3	253	214	39	198	198	0	TNFRSF17,missense_variant,p.Glu12Gln,ENST00000396495,;TNFRSF17,missense_variant,p.Glu4Gln,ENST00000562385,;TNFRSF17,missense_variant,p.Glu12Gln,ENST00000053243,;RP11-166B2.1,intron_variant,,ENST00000538896,;AC007216.2,downstream_gene_variant,,ENST00000597717,;RP11-166B2.1,intron_variant,,ENST00000532936,;UBL5P4,downstream_gene_variant,,ENST00000562584,;	C	ENSG00000048462	ENST00000053243	Transcript	missense_variant	252	34	12	E/Q	Gaa/Caa	.	.	.	1	TNFRSF17	HGNC	11913	protein_coding	YES	CCDS10552.1	ENSP00000053243	TNR17_HUMAN	.	UPI000013C562	.	deleterious(0.02)	possibly_damaging(0.772)	1/3	.	hmmpanther:PTHR20437:SF0,hmmpanther:PTHR20437,Pfam_domain:PF09257,PIRSF_domain:PIRSF011859,Superfamily_domains:SSF57586,Prints_domain:PR01967	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATGAATAT	.	4	BLCA
ABCC6	0	.	GRCh37	16	16248813	16248813	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3958G>A	p.Glu1320Lys	p.E1320K	ENST00000205557	28/31	10	6	4	8	8	0	ABCC6,missense_variant,p.Glu1320Lys,ENST00000205557,;ABCC6,3_prime_UTR_variant,,ENST00000456970,;ABCC6,non_coding_transcript_exon_variant,,ENST00000576204,;	T	ENSG00000091262	ENST00000205557	Transcript	missense_variant	3988	3958	1320	E/K	Gag/Aag	.	.	.	-1	ABCC6	HGNC	57	protein_coding	YES	CCDS10568.1	ENSP00000205557	MRP6_HUMAN	.	UPI00001AE5CA	.	tolerated(0.19)	benign(0.444)	28/31	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,Pfam_domain:PF00005,TIGRFAM_domain:TIGR00957,hmmpanther:PTHR24223:SF63,hmmpanther:PTHR24223,PROSITE_profiles:PS50893	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCCTCAGCTG	.	2	BLCA
CRAMP1L	0	.	GRCh37	16	1718005	1718005	+	Missense_Mutation	SNP	C	C	T	rs371340604	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3145C>T	p.Leu1049Phe	p.L1049F	ENST00000397412	18/21	35	27	8	31	31	0	CRAMP1L,missense_variant,p.Leu1046Phe,ENST00000436138,;CRAMP1L,missense_variant,p.Leu1049Phe,ENST00000293925,;CRAMP1L,missense_variant,p.Leu1049Phe,ENST00000397412,;CRAMP1L,missense_variant,p.Leu150Phe,ENST00000415022,;CRAMP1L,missense_variant,p.Leu427Phe,ENST00000262317,;LA16c-431H6.6,3_prime_UTR_variant,,ENST00000454337,;CRAMP1L,non_coding_transcript_exon_variant,,ENST00000492778,;CRAMP1L,upstream_gene_variant,,ENST00000468839,;CRAMP1L,downstream_gene_variant,,ENST00000466562,;CRAMP1L,downstream_gene_variant,,ENST00000467286,;CRAMP1L,downstream_gene_variant,,ENST00000498594,;	T	ENSG00000007545	ENST00000397412	Transcript	missense_variant	3244	3145	1049	L/F	Ctc/Ttc	rs371340604	.	.	1	CRAMP1L	HGNC	14122	protein_coding	YES	CCDS10440.2	ENSP00000380559	CRML_HUMAN	B2RNX8_HUMAN	UPI000066D946	.	deleterious(0.03)	benign(0.139)	18/21	.	hmmpanther:PTHR21677	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCTCCAG	byCluster	5	BLCA
SPSB3	0	.	GRCh37	16	1827834	1827834	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.635C>T	p.Ser212Leu	p.S212L	ENST00000566339	6/7	38	28	9	41	41	0	SPSB3,missense_variant,p.Ser212Leu,ENST00000301717,;SPSB3,missense_variant,p.Ser212Leu,ENST00000566339,;MRPS34,upstream_gene_variant,,ENST00000397375,;SPSB3,downstream_gene_variant,,ENST00000569769,;MRPS34,upstream_gene_variant,,ENST00000177742,;EME2,downstream_gene_variant,,ENST00000568449,;EME2,downstream_gene_variant,,ENST00000307394,;SPSB3,non_coding_transcript_exon_variant,,ENST00000564709,;SPSB3,non_coding_transcript_exon_variant,,ENST00000563668,;SPSB3,non_coding_transcript_exon_variant,,ENST00000563741,;EME2,non_coding_transcript_exon_variant,,ENST00000570069,;SPSB3,non_coding_transcript_exon_variant,,ENST00000567868,;SPSB3,non_coding_transcript_exon_variant,,ENST00000569380,;EME2,intron_variant,,ENST00000561903,;SPSB3,downstream_gene_variant,,ENST00000564070,;SPSB3,downstream_gene_variant,,ENST00000568416,;SPSB3,downstream_gene_variant,,ENST00000563705,;EME2,downstream_gene_variant,,ENST00000565326,;EME2,downstream_gene_variant,,ENST00000561564,;SPSB3,downstream_gene_variant,,ENST00000565550,;EME2,downstream_gene_variant,,ENST00000564182,;	A	ENSG00000162032	ENST00000566339	Transcript	missense_variant	966	635	212	S/L	tCg/tTg	.	.	.	-1	SPSB3	HGNC	30629	protein_coding	YES	CCDS32365.1	ENSP00000457206	SPSB3_HUMAN	D3DU79_HUMAN,H3BP12_HUMAN	UPI000006FA20	.	deleterious(0.01)	possibly_damaging(0.871)	6/7	.	PROSITE_profiles:PS50188,hmmpanther:PTHR12245:SF5,hmmpanther:PTHR12245,Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCGCGATGAG	.	5	BLCA
IGFALS	0	.	GRCh37	16	1842251	1842251	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.282C>T	p.%3D	p.L94L	ENST00000415638	2/2	25	21	4	22	22	0	IGFALS,missense_variant,p.Ser67Leu,ENST00000568221,;IGFALS,synonymous_variant,p.%3D,ENST00000415638,;IGFALS,synonymous_variant,p.%3D,ENST00000215539,;SPSB3,intron_variant,,ENST00000569769,;NUBP2,downstream_gene_variant,,ENST00000565134,;NUBP2,downstream_gene_variant,,ENST00000565987,;HAGH,downstream_gene_variant,,ENST00000564445,;NUBP2,downstream_gene_variant,,ENST00000262302,;NUBP2,downstream_gene_variant,,ENST00000562263,;NUBP2,downstream_gene_variant,,ENST00000543305,;NUBP2,downstream_gene_variant,,ENST00000563136,;NUBP2,downstream_gene_variant,,ENST00000568287,;NUBP2,downstream_gene_variant,,ENST00000568706,;NUBP2,downstream_gene_variant,,ENST00000569898,;NUBP2,downstream_gene_variant,,ENST00000565603,;NUBP2,downstream_gene_variant,,ENST00000567700,;NUBP2,downstream_gene_variant,,ENST00000568834,;NUBP2,downstream_gene_variant,,ENST00000564227,;NUBP2,downstream_gene_variant,,ENST00000566090,;	A	ENSG00000099769	ENST00000415638	Transcript	synonymous_variant	362	282	94	L	ctC/ctT	.	.	.	-1	IGFALS	HGNC	5468	protein_coding	YES	CCDS53982.1	ENSP00000416683	ALS_HUMAN	.	UPI00019863AB	.	.	.	2/2	.	hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF67,Gene3D:3.80.10.10,Pfam_domain:PF01462,SMART_domains:SM00013,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGCTGAGCTC	.	4	BLCA
NOMO2	0	.	GRCh37	16	18544483	18544483	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239G>C	p.%3D	p.R413R	ENST00000381474	12/32	371	334	36	333	333	0	NOMO2,synonymous_variant,p.%3D,ENST00000330537,;NOMO2,synonymous_variant,p.%3D,ENST00000543392,;NOMO2,synonymous_variant,p.%3D,ENST00000381474,;NOMO2,3_prime_UTR_variant,,ENST00000564991,;NOMO2,upstream_gene_variant,,ENST00000569051,;NOMO2,upstream_gene_variant,,ENST00000567831,;RP11-457I16.4,upstream_gene_variant,,ENST00000575091,;	G	ENSG00000185164	ENST00000381474	Transcript	synonymous_variant	1305	1239	413	R	cgG/cgC	.	.	.	-1	NOMO2	HGNC	22652	protein_coding	YES	CCDS32394.1	ENSP00000370883	NOMO2_HUMAN	.	UPI00001AFC79	.	.	.	12/32	.	hmmpanther:PTHR23303	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATATCCGACC	.	4	BLCA
TBL3	0	.	GRCh37	16	2028430	2028430	+	Missense_Mutation	SNP	G	G	A	rs761998071	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2251G>A	p.Glu751Lys	p.E751K	ENST00000568546	21/22	65	50	14	51	51	0	TBL3,missense_variant,p.Glu751Lys,ENST00000568546,;TBL3,missense_variant,p.Glu640Lys,ENST00000332704,;AC005606.1,upstream_gene_variant,,ENST00000598236,;NOXO1,downstream_gene_variant,,ENST00000354249,;NOXO1,downstream_gene_variant,,ENST00000567471,;NOXO1,downstream_gene_variant,,ENST00000566005,;NOXO1,downstream_gene_variant,,ENST00000397280,;NOXO1,downstream_gene_variant,,ENST00000356120,;TBL3,non_coding_transcript_exon_variant,,ENST00000569628,;TBL3,non_coding_transcript_exon_variant,,ENST00000567615,;TBL3,downstream_gene_variant,,ENST00000561907,;NOXO1,downstream_gene_variant,,ENST00000563181,;TBL3,downstream_gene_variant,,ENST00000569792,;TBL3,downstream_gene_variant,,ENST00000564171,;NOXO1,downstream_gene_variant,,ENST00000569739,;	A	ENSG00000183751	ENST00000568546	Transcript	missense_variant	2379	2251	751	E/K	Gaa/Aaa	rs761998071	.	.	1	TBL3	HGNC	11587	protein_coding	YES	CCDS10453.1	ENSP00000454836	TBL3_HUMAN	A0JLS5_HUMAN	UPI000006F172	.	tolerated(0.17)	benign(0.017)	21/22	.	Low_complexity_(Seg):seg,Pfam_domain:PF08625,hmmpanther:PTHR19854:SF15,hmmpanther:PTHR19854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTACGAAGGC	.	5	BLCA
THUMPD1	0	.	GRCh37	16	20749188	20749188	+	Nonsense_Mutation	SNP	G	G	C	rs758767309	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.497C>G	p.Ser166Ter	p.S166*	ENST00000381337	3/5	176	145	31	129	129	0	THUMPD1,stop_gained,p.Ser166Ter,ENST00000381337,;THUMPD1,stop_gained,p.Ser166Ter,ENST00000396083,;THUMPD1,stop_gained,p.Ser252Ter,ENST00000431224,;ACSM3,intron_variant,,ENST00000561584,;ACSM3,intron_variant,,ENST00000568235,;ACSM3,intron_variant,,ENST00000501740,;THUMPD1,3_prime_UTR_variant,,ENST00000565248,;THUMPD1,non_coding_transcript_exon_variant,,ENST00000570231,;THUMPD1,downstream_gene_variant,,ENST00000569768,;	C	ENSG00000066654	ENST00000381337	Transcript	stop_gained	842	497	166	S/*	tCa/tGa	rs758767309	.	.	-1	THUMPD1	HGNC	23807	protein_coding	YES	CCDS10588.1	ENSP00000370741	THUM1_HUMAN	O60362_HUMAN,B4DFY9_HUMAN	UPI000007226C	.	.	.	3/5	.	PROSITE_profiles:PS51165,hmmpanther:PTHR13452,hmmpanther:PTHR13452:SF6,Pfam_domain:PF02926,SMART_domains:SM00981	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGAGATG	byFrequency	5	BLCA
ERI2	0	.	GRCh37	16	20812641	20812641	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.344C>T	p.Ser115Phe	p.S115F	ENST00000357967	5/9	168	151	17	136	136	0	ERI2,missense_variant,p.Ser22Phe,ENST00000563117,;ERI2,missense_variant,p.Ser115Phe,ENST00000569729,;ERI2,missense_variant,p.Ser22Phe,ENST00000564349,;ERI2,missense_variant,p.Ser115Phe,ENST00000357967,;ERI2,missense_variant,p.Ser115Phe,ENST00000300005,;ERI2,5_prime_UTR_variant,,ENST00000389345,;ACSM3,downstream_gene_variant,,ENST00000562251,;ACSM3,downstream_gene_variant,,ENST00000569141,;ACSM3,downstream_gene_variant,,ENST00000289416,;ACSM3,downstream_gene_variant,,ENST00000450120,;ERI2,downstream_gene_variant,,ENST00000568251,;ERI2,downstream_gene_variant,,ENST00000563537,;ACSM3,downstream_gene_variant,,ENST00000567387,;ERI2,downstream_gene_variant,,ENST00000565884,;ACSM3,downstream_gene_variant,,ENST00000567711,;ERI2,downstream_gene_variant,,ENST00000566223,;ERI2,downstream_gene_variant,,ENST00000567562,;ERI2,downstream_gene_variant,,ENST00000562277,;ERI2,missense_variant,p.Ser115Phe,ENST00000568805,;ERI2,non_coding_transcript_exon_variant,,ENST00000567859,;ERI2,upstream_gene_variant,,ENST00000562215,;ACSM3,downstream_gene_variant,,ENST00000567006,;ERI2,upstream_gene_variant,,ENST00000562987,;	A	ENSG00000196678	ENST00000357967	Transcript	missense_variant	387	344	115	S/F	tCt/tTt	.	.	.	-1	ERI2	HGNC	30541	protein_coding	YES	CCDS45436.1	ENSP00000350651	ERI2_HUMAN	.	UPI0000EE8210	.	deleterious(0)	possibly_damaging(0.866)	5/9	.	hmmpanther:PTHR23044:SF30,hmmpanther:PTHR23044,Pfam_domain:PF00929,Gene3D:3.30.420.10,SMART_domains:SM00479,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTGAGATAAG	.	4	BLCA
AC004381.6	0	.	GRCh37	16	20860751	20860751	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2274G>C	p.%3D	p.L758L	ENST00000261377	20/20	80	67	13	79	79	0	AC004381.6,synonymous_variant,p.%3D,ENST00000564274,;AC004381.6,synonymous_variant,p.%3D,ENST00000261377,;AC004381.6,synonymous_variant,p.%3D,ENST00000348433,;ERI2,intron_variant,,ENST00000564349,;AC004381.6,downstream_gene_variant,,ENST00000561474,;AC004381.6,3_prime_UTR_variant,,ENST00000566993,;AC004381.6,downstream_gene_variant,,ENST00000568334,;	C	ENSG00000005189	ENST00000261377	Transcript	synonymous_variant	2483	2274	758	L	ctG/ctC	.	.	.	1	AC004381.6	Clone_based_vega_gene	.	protein_coding	YES	CCDS10591.1	ENSP00000261377	REXON_HUMAN	H3BV93_HUMAN,H3BUT7_HUMAN,H3BSE4_HUMAN,H3BSC5_HUMAN,H3BR13_HUMAN,H3BQ98_HUMAN,H3BPB2_HUMAN,H3BM72_HUMAN	UPI0000073454	.	.	.	20/20	.	hmmpanther:PTHR12801:SF61,hmmpanther:PTHR12801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTGATGGG	.	5	BLCA
SCNN1B	0	.	GRCh37	16	23391756	23391756	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1557C>T	p.%3D	p.L519L	ENST00000343070	13/13	119	99	19	89	89	0	SCNN1B,synonymous_variant,p.%3D,ENST00000307331,;SCNN1B,synonymous_variant,p.%3D,ENST00000568923,;SCNN1B,synonymous_variant,p.%3D,ENST00000343070,;SCNN1B,synonymous_variant,p.%3D,ENST00000568085,;SCNN1B,3_prime_UTR_variant,,ENST00000564275,;	T	ENSG00000168447	ENST00000343070	Transcript	synonymous_variant	1733	1557	519	L	ctC/ctT	.	.	.	1	SCNN1B	HGNC	10600	protein_coding	YES	CCDS10609.1	ENSP00000345751	SCNNB_HUMAN	B2R812_HUMAN	UPI0000135616	.	.	.	13/13	.	hmmpanther:PTHR11690:SF18,hmmpanther:PTHR11690,TIGRFAM_domain:TIGR00859,Pfam_domain:PF00858,Gene3D:1.10.287.770,Prints_domain:PR01078	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTCTCGAA	.	4	BLCA
ATP2A1	0	.	GRCh37	16	28898975	28898975	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.860C>A	p.Ser287Tyr	p.S287Y	ENST00000357084	8/22	135	122	12	97	97	0	ATP2A1,missense_variant,p.Ser162Tyr,ENST00000536376,;ATP2A1,missense_variant,p.Ser287Tyr,ENST00000395503,;ATP2A1,missense_variant,p.Ser287Tyr,ENST00000357084,;ATP2A1,upstream_gene_variant,,ENST00000565042,;ATP2A1,upstream_gene_variant,,ENST00000564732,;ATP2A1,upstream_gene_variant,,ENST00000564470,;	A	ENSG00000196296	ENST00000357084	Transcript	missense_variant	1127	860	287	S/Y	tCc/tAc	.	.	.	1	ATP2A1	HGNC	811	protein_coding	YES	CCDS10643.1	ENSP00000349595	AT2A1_HUMAN	H3BUU3_HUMAN	UPI000003B461	.	deleterious(0.02)	probably_damaging(0.997)	8/22	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF215,Pfam_domain:PF00122,TIGRFAM_domain:TIGR01494,TIGRFAM_domain:TIGR01116,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGCTCCTGGT	.	3	BLCA
ALDOA	0	.	GRCh37	16	30081176	30081176	+	Silent	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987G>A	p.%3D	p.Q329Q	ENST00000395248	15/16	49	43	6	41	41	0	ALDOA,synonymous_variant,p.%3D,ENST00000569545,;ALDOA,synonymous_variant,p.%3D,ENST00000412304,;ALDOA,synonymous_variant,p.%3D,ENST00000565355,;ALDOA,synonymous_variant,p.%3D,ENST00000564595,;ALDOA,synonymous_variant,p.%3D,ENST00000395240,;ALDOA,synonymous_variant,p.%3D,ENST00000395248,;ALDOA,synonymous_variant,p.%3D,ENST00000564688,;ALDOA,synonymous_variant,p.%3D,ENST00000564546,;ALDOA,synonymous_variant,p.%3D,ENST00000569798,;ALDOA,synonymous_variant,p.%3D,ENST00000338110,;ALDOA,synonymous_variant,p.%3D,ENST00000566897,;ALDOA,synonymous_variant,p.%3D,ENST00000563060,;ALDOA,downstream_gene_variant,,ENST00000562679,;ALDOA,downstream_gene_variant,,ENST00000566846,;ALDOA,downstream_gene_variant,,ENST00000563987,;ALDOA,downstream_gene_variant,,ENST00000568435,;ALDOA,downstream_gene_variant,,ENST00000562168,;ALDOA,downstream_gene_variant,,ENST00000566012,;ALDOA,non_coding_transcript_exon_variant,,ENST00000564521,;ALDOA,non_coding_transcript_exon_variant,,ENST00000566130,;ALDOA,downstream_gene_variant,,ENST00000567555,;ALDOA,downstream_gene_variant,,ENST00000566146,;	A	ENSG00000149925	ENST00000395248	Transcript	synonymous_variant	1969	987	329	Q	caG/caA	COSM435097	.	.	1	ALDOA	HGNC	414	protein_coding	YES	CCDS58450.1	ENSP00000378669	ALDOA_HUMAN	H3BUH7_HUMAN,H3BPS8_HUMAN,A4UCS9_HUMAN	UPI0000E59D76	.	.	.	15/16	.	hmmpanther:PTHR11627,Pfam_domain:PF00274,Gene3D:3.20.20.70,Superfamily_domains:SSF51569	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGCCAGAGTGA	.	3	BLCA
SETD1A	0	.	GRCh37	16	30977267	30977267	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2065C>G	p.Arg689Gly	p.R689G	ENST00000262519	8/19	153	144	9	158	158	0	SETD1A,missense_variant,p.Arg689Gly,ENST00000262519,;SETD1A,downstream_gene_variant,,ENST00000452917,;	G	ENSG00000099381	ENST00000262519	Transcript	missense_variant	2751	2065	689	R/G	Cgg/Ggg	COSM126105	.	.	1	SETD1A	HGNC	29010	protein_coding	YES	CCDS32435.1	ENSP00000262519	SET1A_HUMAN	C9J2Z9_HUMAN	UPI00001C1FA9	.	.	benign(0.025)	8/19	.	hmmpanther:PTHR22884:SF295,hmmpanther:PTHR22884	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAACTCGGCTC	.	2	BLCA
FUS	0	.	GRCh37	16	31195651	31195651	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457C>T	p.Gln153Ter	p.Q153*	ENST00000254108	5/15	91	80	10	70	69	1	FUS,stop_gained,p.Gln152Ter,ENST00000380244,;FUS,stop_gained,p.Gln153Ter,ENST00000254108,;FUS,stop_gained,p.Gln153Ter,ENST00000568685,;RP11-388M20.6,upstream_gene_variant,,ENST00000564743,;FUS,upstream_gene_variant,,ENST00000474990,;FUS,stop_gained,p.Gln153Ter,ENST00000566605,;FUS,non_coding_transcript_exon_variant,,ENST00000487974,;FUS,non_coding_transcript_exon_variant,,ENST00000487509,;FUS,upstream_gene_variant,,ENST00000568901,;FUS,upstream_gene_variant,,ENST00000564766,;FUS,upstream_gene_variant,,ENST00000570090,;FUS,downstream_gene_variant,,ENST00000487045,;	T	ENSG00000089280	ENST00000254108	Transcript	stop_gained	562	457	153	Q/*	Cag/Tag	COSM417032	.	.	1	FUS	HGNC	4010	protein_coding	YES	CCDS10707.1	ENSP00000254108	FUS_HUMAN	Q6IBQ5_HUMAN	UPI000012AD9A	.	.	.	5/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23238:SF5,hmmpanther:PTHR23238	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CCCCTCAGGGC	.	3	BLCA
PYCARD	0	.	GRCh37	16	31212907	31212907	+	Silent	SNP	C	C	T	rs770638973	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.587G>A	p.%3D	p.%3D	ENST00000247470	3/3	115	103	12	102	102	0	PYCARD,stop_retained_variant,p.%3D,ENST00000247470,;PYCARD,stop_retained_variant,p.%3D,ENST00000350605,;C16orf98,upstream_gene_variant,,ENST00000561916,;PYCARD,downstream_gene_variant,,ENST00000561508,;RP11-388M20.1,downstream_gene_variant,,ENST00000565152,;PYCARD,non_coding_transcript_exon_variant,,ENST00000565022,;	T	ENSG00000103490	ENST00000247470	Transcript	stop_retained_variant	889	587	196	*	tGa/tAa	rs770638973	.	.	-1	PYCARD	HGNC	16608	protein_coding	YES	CCDS10708.1	ENSP00000247470	ASC_HUMAN	.	UPI0000032BA7	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTCAGCTC	.	4	BLCA
ITGAX	0	.	GRCh37	16	31371055	31371055	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.465G>A	p.%3D	p.L155L	ENST00000268296	6/30	56	49	6	44	44	0	ITGAX,synonymous_variant,p.%3D,ENST00000562522,;ITGAX,synonymous_variant,p.%3D,ENST00000268296,;ITGAX,downstream_gene_variant,,ENST00000562918,;ITGAX,upstream_gene_variant,,ENST00000571644,;ITGAX,downstream_gene_variant,,ENST00000564308,;ITGAX,downstream_gene_variant,,ENST00000567409,;RP11-120K18.3,downstream_gene_variant,,ENST00000561830,;	A	ENSG00000140678	ENST00000268296	Transcript	synonymous_variant	586	465	155	L	ctG/ctA	.	.	.	1	ITGAX	HGNC	6152	protein_coding	YES	CCDS10711.1	ENSP00000268296	ITAX_HUMAN	B4DDX0_HUMAN	UPI00001C0366	.	.	.	6/30	.	Prints_domain:PR00453,Superfamily_domains:SSF53300,SMART_domains:SM00327,Pfam_domain:PF00092,hmmpanther:PTHR23220:SF17,hmmpanther:PTHR23220,PROSITE_profiles:PS50234	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTGATCGA	.	4	BLCA
RGS11	0	.	GRCh37	16	321237	321237	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.827C>G	p.Ser276Ter	p.S276*	ENST00000397770	12/17	30	26	4	29	29	0	RGS11,stop_gained,p.Ser276Ter,ENST00000397770,;RGS11,stop_gained,p.Ser255Ter,ENST00000316163,;RGS11,stop_gained,p.Ser265Ter,ENST00000359740,;ARHGDIG,intron_variant,,ENST00000435035,;ARHGDIG,intron_variant,,ENST00000412541,;ITFG3,downstream_gene_variant,,ENST00000442458,;ITFG3,downstream_gene_variant,,ENST00000600536,;RGS11,downstream_gene_variant,,ENST00000397768,;RGS11,downstream_gene_variant,,ENST00000431291,;ITFG3,downstream_gene_variant,,ENST00000301679,;ITFG3,downstream_gene_variant,,ENST00000450082,;ARHGDIG,intron_variant,,ENST00000464609,;RGS11,3_prime_UTR_variant,,ENST00000168869,;RGS11,non_coding_transcript_exon_variant,,ENST00000481672,;RGS11,non_coding_transcript_exon_variant,,ENST00000477143,;RGS11,downstream_gene_variant,,ENST00000472466,;RGS11,downstream_gene_variant,,ENST00000493449,;	C	ENSG00000076344	ENST00000397770	Transcript	stop_gained	845	827	276	S/*	tCa/tGa	.	.	.	-1	RGS11	HGNC	9993	protein_coding	YES	CCDS42088.1	ENSP00000380876	RGS11_HUMAN	Q4TT70_HUMAN	UPI000013382E	.	.	.	12/17	.	hmmpanther:PTHR10845:SF21,hmmpanther:PTHR10845,Pfam_domain:PF00631,SMART_domains:SM00224,Superfamily_domains:SSF48670	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCTGAGATC	.	4	BLCA
OR2C1	0	.	GRCh37	16	3406126	3406126	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>G	p.Phe62Leu	p.F62L	ENST00000304936	1/1	143	124	19	146	146	0	OR2C1,missense_variant,p.Phe62Leu,ENST00000304936,;	G	ENSG00000168158	ENST00000304936	Transcript	missense_variant	238	186	62	F/L	ttC/ttG	COSM3509433	.	.	1	OR2C1	HGNC	8242	protein_coding	YES	CCDS10502.1	ENSP00000307726	OR2C1_HUMAN	.	UPI000013E9E9	.	deleterious(0)	probably_damaging(0.986)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF237,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCCTCAG	.	4	BLCA
CDIP1	0	.	GRCh37	16	4562597	4562597	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.603C>T	p.%3D	p.I201I	ENST00000399599	5/5	66	57	9	59	59	0	CDIP1,missense_variant,p.Ser86Phe,ENST00000562579,;CDIP1,synonymous_variant,p.%3D,ENST00000567695,;CDIP1,synonymous_variant,p.%3D,ENST00000562334,;CDIP1,synonymous_variant,p.%3D,ENST00000563332,;CDIP1,synonymous_variant,p.%3D,ENST00000563507,;CDIP1,synonymous_variant,p.%3D,ENST00000399599,;CDIP1,3_prime_UTR_variant,,ENST00000564828,;HMOX2,downstream_gene_variant,,ENST00000575129,;CDIP1,downstream_gene_variant,,ENST00000563186,;HMOX2,downstream_gene_variant,,ENST00000570622,;HMOX2,downstream_gene_variant,,ENST00000572812,;HMOX2,downstream_gene_variant,,ENST00000458134,;HMOX2,downstream_gene_variant,,ENST00000570646,;HMOX2,downstream_gene_variant,,ENST00000406590,;HMOX2,downstream_gene_variant,,ENST00000575120,;HMOX2,downstream_gene_variant,,ENST00000576827,;HMOX2,downstream_gene_variant,,ENST00000398595,;HMOX2,downstream_gene_variant,,ENST00000575051,;CDIP1,downstream_gene_variant,,ENST00000589890,;HMOX2,downstream_gene_variant,,ENST00000574466,;HMOX2,downstream_gene_variant,,ENST00000219700,;CDIP1,downstream_gene_variant,,ENST00000588381,;HMOX2,downstream_gene_variant,,ENST00000414777,;HMOX2,downstream_gene_variant,,ENST00000570445,;CDIP1,downstream_gene_variant,,ENST00000586728,;CDIP1,downstream_gene_variant,,ENST00000566234,;CDIP1,3_prime_UTR_variant,,ENST00000589159,;	A	ENSG00000089486	ENST00000399599	Transcript	synonymous_variant	1152	603	201	I	atC/atT	.	.	.	-1	CDIP1	HGNC	13234	protein_coding	YES	CCDS42114.1	ENSP00000382508	CDIP1_HUMAN	K7ESA8_HUMAN,K7ENR4_HUMAN,K7EK15_HUMAN,H3BTX4_HUMAN	UPI00000711C0	.	.	.	5/5	.	hmmpanther:PTHR23292:SF7,hmmpanther:PTHR23292,Pfam_domain:PF10601,SMART_domains:SM00714	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGTAGATGTA	.	4	BLCA
NOD2	0	.	GRCh37	16	50759418	50759418	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2901C>T	p.%3D	p.L967L	ENST00000300589	10/12	102	86	16	94	94	0	NOD2,synonymous_variant,p.%3D,ENST00000300589,;NOD2,downstream_gene_variant,,ENST00000534057,;NOD2,downstream_gene_variant,,ENST00000524712,;NOD2,downstream_gene_variant,,ENST00000527052,;NOD2,downstream_gene_variant,,ENST00000529633,;NOD2,downstream_gene_variant,,ENST00000534067,;	T	ENSG00000167207	ENST00000300589	Transcript	synonymous_variant	3006	2901	967	L	ctC/ctT	COSM703525,COSM703524	.	.	1	NOD2	HGNC	5331	protein_coding	YES	CCDS10746.1	ENSP00000300589	NOD2_HUMAN	Q7Z597_HUMAN,Q7Z596_HUMAN,Q6TDC3_HUMAN,E9PK30_HUMAN,D9N2T7_HUMAN,D6CHF9_HUMAN,B5B2Z6_HUMAN,B5B2Z5_HUMAN,B5B2Z4_HUMAN,B5A7D5_HUMAN,A7KZR0_HUMAN,A7KZQ9_HUMAN,A7J384_HUMAN,A3FA72_HUMAN	UPI000005027A	.	.	.	10/12	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF64,Pfam_domain:PF13516,Gene3D:3.80.10.10,SMART_domains:SM00368,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCCAGGA	.	5	BLCA
CHD9	0	.	GRCh37	16	53296986	53296986	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4297G>C	p.Asp1433His	p.D1433H	ENST00000566029	20/39	81	54	26	61	61	0	CHD9,missense_variant,p.Asp1433His,ENST00000566029,;CHD9,missense_variant,p.Asp959His,ENST00000565803,;CHD9,missense_variant,p.Asp1433His,ENST00000447540,;CHD9,missense_variant,p.Asp1433His,ENST00000564845,;CHD9,missense_variant,p.Asp1433His,ENST00000398510,;CHD9,non_coding_transcript_exon_variant,,ENST00000219084,;	C	ENSG00000177200	ENST00000566029	Transcript	missense_variant	4506	4297	1433	D/H	Gat/Cat	.	.	.	1	CHD9	HGNC	25701	protein_coding	YES	CCDS45485.1	ENSP00000457466	CHD9_HUMAN	H3BV31_HUMAN,H3BSP3_HUMAN,H3BRU9_HUMAN	UPI00001FF1A0	.	.	probably_damaging(1)	20/39	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF48	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATAGATATA	.	5	BLCA
RPGRIP1L	0	.	GRCh37	16	53720391	53720391	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.730G>C	p.Glu244Gln	p.E244Q	ENST00000379925	6/27	108	67	40	82	82	0	RPGRIP1L,missense_variant,p.Glu244Gln,ENST00000562230,;RPGRIP1L,missense_variant,p.Glu244Gln,ENST00000563746,;RPGRIP1L,missense_variant,p.Glu244Gln,ENST00000564374,;RPGRIP1L,missense_variant,p.Glu244Gln,ENST00000262135,;RPGRIP1L,missense_variant,p.Glu244Gln,ENST00000379925,;	G	ENSG00000103494	ENST00000379925	Transcript	missense_variant	781	730	244	E/Q	Gag/Cag	.	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	deleterious(0)	probably_damaging(0.946)	6/27	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACTCAATTT	.	5	BLCA
HERPUD1	0	.	GRCh37	16	56969206	56969206	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207C>G	p.%3D	p.L69L	ENST00000439977	2/8	90	64	26	56	56	0	HERPUD1,synonymous_variant,p.%3D,ENST00000344114,;HERPUD1,synonymous_variant,p.%3D,ENST00000569429,;HERPUD1,synonymous_variant,p.%3D,ENST00000379792,;HERPUD1,synonymous_variant,p.%3D,ENST00000300302,;HERPUD1,synonymous_variant,p.%3D,ENST00000439977,;HERPUD1,synonymous_variant,p.%3D,ENST00000563343,;HERPUD1,upstream_gene_variant,,ENST00000563911,;HERPUD1,upstream_gene_variant,,ENST00000568358,;HERPUD1,upstream_gene_variant,,ENST00000568651,;RP11-325K4.3,upstream_gene_variant,,ENST00000565861,;HERPUD1,non_coding_transcript_exon_variant,,ENST00000570273,;HERPUD1,upstream_gene_variant,,ENST00000563781,;HERPUD1,3_prime_UTR_variant,,ENST00000565966,;HERPUD1,non_coding_transcript_exon_variant,,ENST00000568676,;HERPUD1,non_coding_transcript_exon_variant,,ENST00000562914,;HERPUD1,non_coding_transcript_exon_variant,,ENST00000566550,;HERPUD1,non_coding_transcript_exon_variant,,ENST00000569569,;HERPUD1,upstream_gene_variant,,ENST00000567944,;HERPUD1,upstream_gene_variant,,ENST00000564678,;	G	ENSG00000051108	ENST00000439977	Transcript	synonymous_variant	404	207	69	L	ctC/ctG	.	.	.	1	HERPUD1	HGNC	13744	protein_coding	YES	CCDS10771.1	ENSP00000409555	HERP1_HUMAN	Q9HBR2_HUMAN,B4E3N8_HUMAN	UPI0000000B03	.	.	.	2/8	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50053,hmmpanther:PTHR12943,hmmpanther:PTHR12943:SF7,Pfam_domain:PF00240,Gene3D:3.10.20.90,SMART_domains:SM00213,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCAGGGA	.	5	BLCA
PIGQ	0	.	GRCh37	16	633432	633432	+	Missense_Mutation	SNP	C	C	G	rs141844646	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2081C>G	p.Ser694Cys	p.S694C	ENST00000026218	10/10	65	55	10	62	62	0	PIGQ,missense_variant,p.Ser694Cys,ENST00000026218,;PIGQ,3_prime_UTR_variant,,ENST00000321878,;PIGQ,downstream_gene_variant,,ENST00000409527,;PIGQ,downstream_gene_variant,,ENST00000540241,;PIGQ,downstream_gene_variant,,ENST00000544860,;PIGQ,downstream_gene_variant,,ENST00000540548,;PIGQ,non_coding_transcript_exon_variant,,ENST00000476438,;PIGQ,non_coding_transcript_exon_variant,,ENST00000480424,;PIGQ,downstream_gene_variant,,ENST00000420990,;PIGQ,downstream_gene_variant,,ENST00000443147,;PIGQ,downstream_gene_variant,,ENST00000537901,;	G	ENSG00000007541	ENST00000026218	Transcript	missense_variant	2169	2081	694	S/C	tCt/tGt	rs141844646	.	.	1	PIGQ	HGNC	14135	protein_coding	YES	CCDS10411.1	ENSP00000026218	PIGQ_HUMAN	J3QTH6_HUMAN,B8ZZC7_HUMAN,B8ZZ31_HUMAN,B8ZZ29_HUMAN	UPI000006CC88	.	deleterious_low_confidence(0)	benign(0.265)	10/10	.	.	.	.	.	.	.	.	.	G:0.0002	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTGCCC	byCluster	5	BLCA
PIGQ	0	.	GRCh37	16	633746	633746	+	3'UTR	SNP	C	C	T	rs760641703	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*112C>T	.	.	ENST00000026218	10/10	31	26	5	17	17	0	PIGQ,3_prime_UTR_variant,,ENST00000321878,;PIGQ,3_prime_UTR_variant,,ENST00000026218,;PIGQ,downstream_gene_variant,,ENST00000409527,;PIGQ,downstream_gene_variant,,ENST00000540241,;PIGQ,downstream_gene_variant,,ENST00000544860,;PIGQ,downstream_gene_variant,,ENST00000540548,;PIGQ,non_coding_transcript_exon_variant,,ENST00000476438,;PIGQ,non_coding_transcript_exon_variant,,ENST00000480424,;PIGQ,downstream_gene_variant,,ENST00000420990,;PIGQ,downstream_gene_variant,,ENST00000443147,;PIGQ,downstream_gene_variant,,ENST00000537901,;	T	ENSG00000007541	ENST00000026218	Transcript	3_prime_UTR_variant	2483	.	.	.	.	rs760641703	.	.	1	PIGQ	HGNC	14135	protein_coding	YES	CCDS10411.1	ENSP00000026218	PIGQ_HUMAN	J3QTH6_HUMAN,B8ZZC7_HUMAN,B8ZZ31_HUMAN,B8ZZ29_HUMAN	UPI000006CC88	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCCCGTAGC	.	4	BLCA
PDP2	0	.	GRCh37	16	66919543	66919543	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1356G>A	p.%3D	p.Q452Q	ENST00000311765	2/2	51	35	15	40	40	0	PDP2,synonymous_variant,p.%3D,ENST00000311765,;PDP2,downstream_gene_variant,,ENST00000568398,;PDP2,downstream_gene_variant,,ENST00000566543,;PDP2,downstream_gene_variant,,ENST00000561704,;PDP2,downstream_gene_variant,,ENST00000566776,;PDP2,downstream_gene_variant,,ENST00000568869,;RP11-61A14.3,upstream_gene_variant,,ENST00000561811,;RP11-61A14.3,upstream_gene_variant,,ENST00000563086,;RP11-61A14.2,upstream_gene_variant,,ENST00000561475,;PDP2,intron_variant,,ENST00000568720,;PDP2,intron_variant,,ENST00000566805,;	A	ENSG00000172840	ENST00000311765	Transcript	synonymous_variant	1690	1356	452	Q	caG/caA	.	.	.	1	PDP2	HGNC	30263	protein_coding	YES	CCDS10822.1	ENSP00000309548	PDP2_HUMAN	H3BV50_HUMAN,H3BTU5_HUMAN,H3BSA5_HUMAN,H3BRB7_HUMAN,H3BQX2_HUMAN	UPI0000044254	.	.	.	2/2	.	hmmpanther:PTHR13832,hmmpanther:PTHR13832:SF255,Gene3D:3.60.40.10,SMART_domains:SM00332	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCAGAGCCT	.	5	BLCA
CTCF	0	.	GRCh37	16	67654637	67654637	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1124G>C	p.Gly375Ala	p.G375A	ENST00000264010	6/12	105	67	38	90	90	0	CTCF,missense_variant,p.Gly47Ala,ENST00000401394,;CTCF,missense_variant,p.Gly375Ala,ENST00000264010,;	C	ENSG00000102974	ENST00000264010	Transcript	missense_variant	1568	1124	375	G/A	gGa/gCa	.	.	.	1	CTCF	HGNC	13723	protein_coding	YES	CCDS10841.1	ENSP00000264010	CTCF_HUMAN	.	UPI0000000DDE	.	deleterious(0)	probably_damaging(1)	6/12	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF123,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R377C|c.1129C>T|3,BUFFER|p.R377H|c.1130G>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGGAGAGC	.	5	BLCA
ENKD1	0	.	GRCh37	16	67697683	67697683	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.620G>A	p.Arg207Gln	p.R207Q	ENST00000243878	5/7	27	18	9	14	14	0	ENKD1,missense_variant,p.Arg207Gln,ENST00000243878,;ENKD1,intron_variant,,ENST00000602644,;PARD6A,downstream_gene_variant,,ENST00000458121,;PARD6A,downstream_gene_variant,,ENST00000602551,;ACD,upstream_gene_variant,,ENST00000219251,;PARD6A,downstream_gene_variant,,ENST00000219255,;C16orf86,upstream_gene_variant,,ENST00000403458,;ACD,upstream_gene_variant,,ENST00000602850,;ACD,upstream_gene_variant,,ENST00000393919,;ACD,upstream_gene_variant,,ENST00000602320,;ACD,upstream_gene_variant,,ENST00000602382,;C16orf86,upstream_gene_variant,,ENST00000602365,;ENKD1,downstream_gene_variant,,ENST00000602409,;C16orf86,upstream_gene_variant,,ENST00000602974,;ENKD1,missense_variant,p.Glu125Lys,ENST00000602415,;ENKD1,non_coding_transcript_exon_variant,,ENST00000602942,;ENKD1,non_coding_transcript_exon_variant,,ENST00000602642,;PARD6A,downstream_gene_variant,,ENST00000602727,;ACD,upstream_gene_variant,,ENST00000602860,;C16orf86,upstream_gene_variant,,ENST00000459925,;ACD,upstream_gene_variant,,ENST00000602821,;ACD,upstream_gene_variant,,ENST00000602423,;ACD,upstream_gene_variant,,ENST00000602945,;ACD,upstream_gene_variant,,ENST00000602780,;C16orf86,upstream_gene_variant,,ENST00000445068,;ACD,upstream_gene_variant,,ENST00000602519,;ACD,upstream_gene_variant,,ENST00000602622,;C16orf86,upstream_gene_variant,,ENST00000602987,;ENKD1,downstream_gene_variant,,ENST00000602531,;	T	ENSG00000124074	ENST00000243878	Transcript	missense_variant	942	620	207	R/Q	cGa/cAa	.	.	.	-1	ENKD1	HGNC	25246	protein_coding	YES	CCDS10844.1	ENSP00000243878	ENKD1_HUMAN	.	UPI00000727D7	.	tolerated(0.38)	benign(0.004)	5/7	.	hmmpanther:PTHR21490:SF2,hmmpanther:PTHR21490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCGTGCA	.	5	BLCA
FAM195A	0	.	GRCh37	16	697517	697517	+	Missense_Mutation	SNP	G	G	A	rs140456076	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283G>A	p.Glu95Lys	p.E95K	ENST00000307650	3/5	30	26	4	28	28	0	FAM195A,missense_variant,p.Glu95Lys,ENST00000307650,;WDR90,upstream_gene_variant,,ENST00000293879,;WDR90,upstream_gene_variant,,ENST00000549091,;AL022341.3,downstream_gene_variant,,ENST00000455294,;FAM195A,3_prime_UTR_variant,,ENST00000491999,;FAM195A,non_coding_transcript_exon_variant,,ENST00000575894,;FAM195A,intron_variant,,ENST00000474840,;WDR90,upstream_gene_variant,,ENST00000552943,;WDR90,upstream_gene_variant,,ENST00000549648,;WDR90,upstream_gene_variant,,ENST00000550593,;WDR90,upstream_gene_variant,,ENST00000420061,;	A	ENSG00000172366	ENST00000307650	Transcript	missense_variant	462	283	95	E/K	Gag/Aag	rs140456076	.	.	1	FAM195A	HGNC	14142	protein_coding	YES	CCDS10415.1	ENSP00000305138	F195A_HUMAN	.	UPI0000073123	.	tolerated(0.07)	benign(0.168)	3/5	.	hmmpanther:PTHR19890,Pfam_domain:PF14799	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCACGAGGAG	byCluster|by1000G	4	BLCA
HCCAT5	0	.	GRCh37	16	73127109	73127109	+	Intron	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.767A>T	.	.	ENST00000569990	2/3	26	17	9	18	18	0	HCCAT5,splice_region_variant,,ENST00000569990,;	T	ENSG00000260880	ENST00000569990	Transcript	splice_region_variant	767	.	.	.	.	.	.	.	1	HCCAT5	HGNC	48612	lincRNA	YES	.	.	.	.	.	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGAGGTAA	.	5	BLCA
FBXL16	0	.	GRCh37	16	744271	744271	+	3'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4G>A	.	.	ENST00000397621	6/6	19	14	4	12	12	0	FBXL16,3_prime_UTR_variant,,ENST00000324361,;FBXL16,3_prime_UTR_variant,,ENST00000397621,;FBXL16,3_prime_UTR_variant,,ENST00000562563,;WDR24,upstream_gene_variant,,ENST00000293883,;WDR24,upstream_gene_variant,,ENST00000248142,;LA16c-313D11.12,downstream_gene_variant,,ENST00000566927,;FBXL16,downstream_gene_variant,,ENST00000562585,;FBXL16,non_coding_transcript_exon_variant,,ENST00000562648,;LA16c-313D11.12,downstream_gene_variant,,ENST00000575305,;	T	ENSG00000127585	ENST00000397621	Transcript	3_prime_UTR_variant	1776	.	.	.	.	.	.	.	-1	FBXL16	HGNC	14150	protein_coding	YES	CCDS10421.1	ENSP00000380746	FXL16_HUMAN	Q8N4J3_HUMAN,B3KR59_HUMAN	UPI0000141371	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCGCGCT	.	5	BLCA
FBXL16	0	.	GRCh37	16	745574	745574	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.983C>T	p.Ser328Leu	p.S328L	ENST00000397621	3/6	25	21	4	19	19	0	FBXL16,missense_variant,p.Ser328Leu,ENST00000324361,;FBXL16,missense_variant,p.Ser328Leu,ENST00000397621,;FBXL16,missense_variant,p.Ser116Leu,ENST00000562563,;LA16c-313D11.12,downstream_gene_variant,,ENST00000566927,;FBXL16,upstream_gene_variant,,ENST00000562585,;FBXL16,upstream_gene_variant,,ENST00000562648,;LA16c-313D11.12,downstream_gene_variant,,ENST00000575305,;	A	ENSG00000127585	ENST00000397621	Transcript	missense_variant	1315	983	328	S/L	tCg/tTg	.	.	.	-1	FBXL16	HGNC	14150	protein_coding	YES	CCDS10421.1	ENSP00000380746	FXL16_HUMAN	Q8N4J3_HUMAN,B3KR59_HUMAN	UPI0000141371	.	tolerated(0.09)	probably_damaging(0.997)	3/6	.	hmmpanther:PTHR23125,hmmpanther:PTHR23125:SF233,Gene3D:3.80.10.10,Pfam_domain:PF13516,SMART_domains:SM00367,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCCGAGAGG	.	4	BLCA
WDR59	0	.	GRCh37	16	74950088	74950088	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1036G>A	p.Glu346Lys	p.E346K	ENST00000262144	12/26	84	56	27	63	63	0	WDR59,missense_variant,p.Glu346Lys,ENST00000262144,;WDR59,upstream_gene_variant,,ENST00000569229,;WDR59,upstream_gene_variant,,ENST00000562854,;WDR59,non_coding_transcript_exon_variant,,ENST00000536050,;WDR59,non_coding_transcript_exon_variant,,ENST00000569549,;WDR59,non_coding_transcript_exon_variant,,ENST00000561717,;WDR59,upstream_gene_variant,,ENST00000562371,;WDR59,upstream_gene_variant,,ENST00000562539,;	T	ENSG00000103091	ENST00000262144	Transcript	missense_variant	1167	1036	346	E/K	Gag/Aag	.	.	.	-1	WDR59	HGNC	25706	protein_coding	YES	CCDS32488.1	ENSP00000262144	WDR59_HUMAN	H3BUE9_HUMAN,H3BR95_HUMAN	UPI000019839C	.	tolerated(0.14)	benign(0.021)	12/26	.	hmmpanther:PTHR22850,hmmpanther:PTHR22850:SF96	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAGGTT	.	5	BLCA
MSLN	0	.	GRCh37	16	815688	815688	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.796-3C>G	.	.	ENST00000382862	.	34	27	7	30	30	0	MSLN,splice_region_variant,,ENST00000382862,;MSLN,splice_region_variant,,ENST00000563651,;MSLN,splice_region_variant,,ENST00000566549,;MSLN,splice_region_variant,,ENST00000563941,;MSLN,splice_region_variant,,ENST00000545450,;MSLNL,downstream_gene_variant,,ENST00000442466,;MSLNL,downstream_gene_variant,,ENST00000543963,;MSLN,upstream_gene_variant,,ENST00000566269,;MSLN,downstream_gene_variant,,ENST00000569566,;MSLNL,downstream_gene_variant,,ENST00000293892,;MSLN,upstream_gene_variant,,ENST00000561896,;MIR662,upstream_gene_variant,,ENST00000384847,;	G	ENSG00000102854	ENST00000382862	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	MSLN	HGNC	7371	protein_coding	YES	CCDS32356.1	ENSP00000372313	MSLN_HUMAN	H3BV92_HUMAN	UPI000004EC9C	.	.	.	.	9/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCAGGGC	.	4	BLCA
MSLN	0	.	GRCh37	16	818647	818647	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1808-1G>C	.	p.X603_splice	ENST00000382862	.	42	33	9	48	48	0	MSLN,splice_acceptor_variant,,ENST00000382862,;MSLN,splice_acceptor_variant,,ENST00000566549,;MSLN,splice_acceptor_variant,,ENST00000563941,;MSLN,splice_acceptor_variant,,ENST00000545450,;MSLN,missense_variant,p.Arg326Thr,ENST00000561896,;MSLN,intron_variant,,ENST00000566269,;MSLNL,downstream_gene_variant,,ENST00000442466,;MSLNL,downstream_gene_variant,,ENST00000543963,;MSLN,downstream_gene_variant,,ENST00000569566,;MSLN,downstream_gene_variant,,ENST00000563651,;MSLNL,downstream_gene_variant,,ENST00000293892,;MIR662,upstream_gene_variant,,ENST00000384847,;	C	ENSG00000102854	ENST00000382862	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	MSLN	HGNC	7371	protein_coding	YES	CCDS32356.1	ENSP00000372313	MSLN_HUMAN	H3BV92_HUMAN	UPI000004EC9C	.	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTAGAGGCC	.	5	BLCA
CTU2	0	.	GRCh37	16	88779732	88779732	+	Silent	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.750C>A	p.%3D	p.I250I	ENST00000453996	8/15	59	44	15	45	45	0	CTU2,synonymous_variant,p.%3D,ENST00000312060,;CTU2,synonymous_variant,p.%3D,ENST00000378384,;CTU2,synonymous_variant,p.%3D,ENST00000567949,;CTU2,synonymous_variant,p.%3D,ENST00000453996,;PIEZO1,downstream_gene_variant,,ENST00000518793,;CTU2,downstream_gene_variant,,ENST00000564921,;CTU2,upstream_gene_variant,,ENST00000567316,;PIEZO1,downstream_gene_variant,,ENST00000327397,;PIEZO1,downstream_gene_variant,,ENST00000301015,;PIEZO1,downstream_gene_variant,,ENST00000466823,;MIR4722,downstream_gene_variant,,ENST00000578292,;CTU2,3_prime_UTR_variant,,ENST00000564105,;CTU2,non_coding_transcript_exon_variant,,ENST00000566637,;PIEZO1,downstream_gene_variant,,ENST00000419505,;CTU2,upstream_gene_variant,,ENST00000562011,;PIEZO1,downstream_gene_variant,,ENST00000472168,;CTU2,upstream_gene_variant,,ENST00000564584,;PIEZO1,downstream_gene_variant,,ENST00000484567,;PIEZO1,downstream_gene_variant,,ENST00000521877,;CTU2,downstream_gene_variant,,ENST00000565071,;PIEZO1,downstream_gene_variant,,ENST00000495568,;	A	ENSG00000174177	ENST00000453996	Transcript	synonymous_variant	818	750	250	I	atC/atA	.	.	.	1	CTU2	HGNC	28005	protein_coding	YES	CCDS45545.1	ENSP00000388320	CTU2_HUMAN	H3BNU5_HUMAN,B4DS10_HUMAN	UPI0000251EAE	.	.	.	8/15	.	HAMAP:MF_03054,hmmpanther:PTHR20882,Gene3D:3.40.50.620,Superfamily_domains:SSF52402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCCTCCA	.	5	BLCA
CDK10	0	.	GRCh37	16	89757912	89757912	+	Silent	SNP	C	C	T	rs188735443	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294C>T	p.%3D	p.I98I	ENST00000353379	4/13	31	23	8	31	30	1	CDK10,synonymous_variant,p.%3D,ENST00000564192,;CDK10,synonymous_variant,p.%3D,ENST00000505473,;CDK10,synonymous_variant,p.%3D,ENST00000331006,;CDK10,synonymous_variant,p.%3D,ENST00000353379,;SPATA2L,downstream_gene_variant,,ENST00000335360,;SPATA2L,downstream_gene_variant,,ENST00000289805,;RP11-368I7.4,upstream_gene_variant,,ENST00000567544,;CDK10,non_coding_transcript_exon_variant,,ENST00000514965,;CDK10,downstream_gene_variant,,ENST00000503560,;CDK10,3_prime_UTR_variant,,ENST00000512912,;CDK10,3_prime_UTR_variant,,ENST00000502547,;CDK10,3_prime_UTR_variant,,ENST00000511415,;CDK10,3_prime_UTR_variant,,ENST00000510811,;CDK10,3_prime_UTR_variant,,ENST00000508723,;CDK10,non_coding_transcript_exon_variant,,ENST00000568456,;CDK10,non_coding_transcript_exon_variant,,ENST00000472018,;CDK10,non_coding_transcript_exon_variant,,ENST00000504473,;CDK10,non_coding_transcript_exon_variant,,ENST00000505733,;CDK10,non_coding_transcript_exon_variant,,ENST00000507205,;CDK10,non_coding_transcript_exon_variant,,ENST00000378277,;CDK10,upstream_gene_variant,,ENST00000567932,;CDK10,upstream_gene_variant,,ENST00000565470,;CDK10,upstream_gene_variant,,ENST00000561477,;	T	ENSG00000185324	ENST00000353379	Transcript	synonymous_variant	337	294	98	I	atC/atT	rs188735443	.	.	1	CDK10	HGNC	1770	protein_coding	YES	CCDS10984.2	ENSP00000338673	CDK10_HUMAN	.	UPI0000127436	.	.	.	4/13	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24056:SF179,hmmpanther:PTHR24056,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AACATCGTGGA	byCluster|by1000G	4	BLCA
ZNF276	0	.	GRCh37	16	89795702	89795702	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1145C>T	p.Ser382Phe	p.S382F	ENST00000443381	6/11	121	81	40	90	90	0	ZNF276,missense_variant,p.Ser168Phe,ENST00000446326,;ZNF276,missense_variant,p.Ser290Phe,ENST00000568064,;ZNF276,missense_variant,p.Ser382Phe,ENST00000443381,;ZNF276,missense_variant,p.Ser307Phe,ENST00000289816,;ZNF276,3_prime_UTR_variant,,ENST00000568295,;ZNF276,3_prime_UTR_variant,,ENST00000562530,;ZNF276,3_prime_UTR_variant,,ENST00000563541,;ZNF276,non_coding_transcript_exon_variant,,ENST00000569426,;ZNF276,non_coding_transcript_exon_variant,,ENST00000563983,;ZNF276,non_coding_transcript_exon_variant,,ENST00000561536,;ZNF276,upstream_gene_variant,,ENST00000564004,;ZNF276,upstream_gene_variant,,ENST00000569582,;	T	ENSG00000158805	ENST00000443381	Transcript	missense_variant	1242	1145	382	S/F	tCc/tTc	.	.	.	1	ZNF276	HGNC	23330	protein_coding	YES	CCDS45554.1	ENSP00000415836	ZN276_HUMAN	.	UPI0000EE7D9C	.	tolerated(0.09)	benign(0.091)	6/11	.	hmmpanther:PTHR11389:SF340,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAGTCCTTTG	.	5	BLCA
MYH13	0	.	GRCh37	17	10212869	10212869	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4935G>A	p.%3D	p.K1645K	ENST00000418404	33/41	30	26	4	26	26	0	MYH13,synonymous_variant,p.%3D,ENST00000418404,;MYH13,synonymous_variant,p.%3D,ENST00000252172,;RP11-401O9.4,intron_variant,,ENST00000609088,;	T	ENSG00000006788	ENST00000418404	Transcript	synonymous_variant	5099	4935	1645	K	aaG/aaA	.	.	.	-1	MYH13	HGNC	7571	protein_coding	YES	CCDS45613.1	ENSP00000404570	MYH13_HUMAN	.	UPI0000DB39EA	.	.	.	33/41	.	hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF267,Pfam_domain:PF01576,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGATGCTTCTG	.	3	BLCA
MYH8	0	.	GRCh37	17	10299867	10299867	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4528+3G>A	.	.	ENST00000403437	.	39	31	8	24	24	0	MYH8,splice_region_variant,,ENST00000403437,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;	T	ENSG00000133020	ENST00000403437	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	MYH8	HGNC	7578	protein_coding	YES	CCDS11153.1	ENSP00000384330	MYH8_HUMAN	.	UPI000012FB7D	.	.	.	.	32/39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCACGTT	.	4	BLCA
MYH1	0	.	GRCh37	17	10397923	10397923	+	Missense_Mutation	SNP	C	C	T	rs763718197	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5534G>A	p.Arg1845His	p.R1845H	ENST00000226207	38/40	106	100	6	113	113	0	MYH1,missense_variant,p.Arg1845His,ENST00000226207,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;	T	ENSG00000109061	ENST00000226207	Transcript	missense_variant	5629	5534	1845	R/H	cGc/cAc	rs763718197	.	.	-1	MYH1	HGNC	7567	protein_coding	YES	CCDS11155.1	ENSP00000226207	MYH1_HUMAN	.	UPI000013C891	.	tolerated(0.08)	probably_damaging(0.971)	38/40	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF264,Pfam_domain:PF01576,Superfamily_domains:SSF57997	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTGCGTAGA	.	2	BLCA
RP11-385D13.1	0	.	GRCh37	17	15517163	15517163	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1785C>G	p.%3D	p.L595L	ENST00000455584	9/17	116	105	11	103	102	0	RP11-385D13.1,synonymous_variant,p.%3D,ENST00000455584,;CDRT1,synonymous_variant,p.%3D,ENST00000261644,;CDRT1,synonymous_variant,p.%3D,ENST00000395906,;	C	ENSG00000251537	ENST00000455584	Transcript	synonymous_variant	1829	1785	595	L	ctC/ctG	.	.	.	-1	RP11-385D13.1	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000402644	.	H0Y626_HUMAN,J3QKY5_HUMAN	UPI000268AF94	.	.	.	9/17	.	hmmpanther:PTHR19872,hmmpanther:PTHR19872:SF7,Gene3D:1.20.1280.50,Superfamily_domains:SSF81383	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TTGGAGAGGTG	.	3	BLCA
SMYD4	0	.	GRCh37	17	1703233	1703233	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1455G>A	p.%3D	p.V485V	ENST00000305513	5/11	74	68	6	76	76	0	SMYD4,synonymous_variant,p.%3D,ENST00000491788,;SMYD4,synonymous_variant,p.%3D,ENST00000305513,;SMYD4,downstream_gene_variant,,ENST00000570368,;SMYD4,downstream_gene_variant,,ENST00000571854,;SMYD4,downstream_gene_variant,,ENST00000573937,;	T	ENSG00000186532	ENST00000305513	Transcript	synonymous_variant	1623	1455	485	V	gtG/gtA	.	.	.	-1	SMYD4	HGNC	21067	protein_coding	YES	CCDS11013.1	ENSP00000304360	SMYD4_HUMAN	I3L496_HUMAN,I3L428_HUMAN,I3L2P4_HUMAN	UPI000013EA5C	.	.	.	5/11	.	PROSITE_profiles:PS50280,hmmpanther:PTHR12197:SF152,hmmpanther:PTHR12197,Pfam_domain:PF00856	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATAGTCACGTC	.	3	BLCA
SMYD4	0	.	GRCh37	17	1703325	1703325	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1363G>C	p.Glu455Gln	p.E455Q	ENST00000305513	5/11	119	98	21	129	129	0	SMYD4,missense_variant,p.Glu259Gln,ENST00000491788,;SMYD4,missense_variant,p.Glu455Gln,ENST00000305513,;SMYD4,downstream_gene_variant,,ENST00000570368,;SMYD4,downstream_gene_variant,,ENST00000571854,;SMYD4,downstream_gene_variant,,ENST00000573937,;	G	ENSG00000186532	ENST00000305513	Transcript	missense_variant	1531	1363	455	E/Q	Gaa/Caa	.	.	.	-1	SMYD4	HGNC	21067	protein_coding	YES	CCDS11013.1	ENSP00000304360	SMYD4_HUMAN	I3L496_HUMAN,I3L428_HUMAN,I3L2P4_HUMAN	UPI000013EA5C	.	tolerated(0.93)	benign(0.034)	5/11	.	PROSITE_profiles:PS50280,hmmpanther:PTHR12197:SF152,hmmpanther:PTHR12197,Pfam_domain:PF00856	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTCTAGCT	.	4	BLCA
MYO15A	0	.	GRCh37	17	18023320	18023320	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1206G>A	p.%3D	p.P402P	ENST00000205890	2/66	118	100	17	112	112	0	MYO15A,synonymous_variant,p.%3D,ENST00000205890,;MYO15A,non_coding_transcript_exon_variant,,ENST00000583079,;	A	ENSG00000091536	ENST00000205890	Transcript	synonymous_variant	1544	1206	402	P	ccG/ccA	.	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	.	2/66	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCCGGAGGA	.	4	BLCA
MYO15A	0	.	GRCh37	17	18041449	18041449	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4896G>C	p.Gln1632His	p.Q1632H	ENST00000205890	17/66	175	151	24	150	150	0	MYO15A,missense_variant,p.Gln1632His,ENST00000205890,;MYO15A,upstream_gene_variant,,ENST00000412324,;	C	ENSG00000091536	ENST00000205890	Transcript	missense_variant	5234	4896	1632	Q/H	caG/caC	.	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	unknown(0)	17/66	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,Pfam_domain:PF00063,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF351,PROSITE_profiles:PS51456,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCAGATAGA	.	4	BLCA
FAM83G	0	.	GRCh37	17	18907176	18907176	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.179C>G	p.Ser60Trp	p.S60W	ENST00000388995	2/6	56	48	8	59	59	0	FAM83G,missense_variant,p.Ser60Trp,ENST00000585154,;FAM83G,missense_variant,p.Ser60Trp,ENST00000388995,;FAM83G,missense_variant,p.Ser60Trp,ENST00000345041,;SLC5A10,intron_variant,,ENST00000417251,;SLC5A10,intron_variant,,ENST00000395647,;SLC5A10,intron_variant,,ENST00000395643,;SLC5A10,intron_variant,,ENST00000395642,;SLC5A10,intron_variant,,ENST00000395645,;SLC5A10,intron_variant,,ENST00000317977,;FAM83G,upstream_gene_variant,,ENST00000399096,;	C	ENSG00000188522	ENST00000388995	Transcript	missense_variant	403	179	60	S/W	tCg/tGg	.	.	.	-1	FAM83G	HGNC	32554	protein_coding	YES	CCDS42276.1	ENSP00000373647	FA83G_HUMAN	.	UPI0000E03260	.	deleterious(0)	probably_damaging(1)	2/6	.	hmmpanther:PTHR16181:SF5,hmmpanther:PTHR16181,Pfam_domain:PF07894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCCGAGAGG	.	5	BLCA
RNF112	0	.	GRCh37	17	19317896	19317896	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934-3C>T	.	.	ENST00000461366	.	55	48	7	48	48	0	RNF112,splice_region_variant,,ENST00000461366,;RNF112,downstream_gene_variant,,ENST00000575165,;AC004448.2,upstream_gene_variant,,ENST00000437646,;CTB-187M2.2,upstream_gene_variant,,ENST00000579897,;RNF112,downstream_gene_variant,,ENST00000580109,;RNF112,downstream_gene_variant,,ENST00000574149,;RNF112,upstream_gene_variant,,ENST00000574782,;	T	ENSG00000128482	ENST00000461366	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	RNF112	HGNC	12968	protein_coding	YES	CCDS58529.1	ENSP00000454919	RN112_HUMAN	J3QRB8_HUMAN	UPI00001B0607	.	.	.	.	8/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCTTTCAGCAT	.	3	BLCA
SLC47A1	0	.	GRCh37	17	19480648	19480648	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1495G>A	p.Glu499Lys	p.E499K	ENST00000270570	17/17	84	71	13	78	78	0	SLC47A1,missense_variant,p.Glu245Lys,ENST00000571335,;SLC47A1,missense_variant,p.Glu26Lys,ENST00000581558,;SLC47A1,missense_variant,p.Glu499Lys,ENST00000270570,;SLC47A1,missense_variant,p.Glu499Lys,ENST00000457293,;SLC47A1,missense_variant,p.Glu197Lys,ENST00000575023,;SLC47A1,missense_variant,p.Glu499Lys,ENST00000395585,;SLC47A1,stop_retained_variant,p.%3D,ENST00000436810,;RP11-1113L8.1,intron_variant,,ENST00000574267,;AC025627.7,upstream_gene_variant,,ENST00000454535,;AC025627.7,upstream_gene_variant,,ENST00000420951,;SLC47A1,non_coding_transcript_exon_variant,,ENST00000575377,;SLC47A1,non_coding_transcript_exon_variant,,ENST00000495425,;SLC47A1,non_coding_transcript_exon_variant,,ENST00000573009,;SLC47A1,non_coding_transcript_exon_variant,,ENST00000497548,;RP11-1113L8.2,downstream_gene_variant,,ENST00000576220,;	A	ENSG00000142494	ENST00000270570	Transcript	missense_variant	1581	1495	499	E/K	Gaa/Aaa	.	.	.	1	SLC47A1	HGNC	25588	protein_coding	YES	CCDS11209.1	ENSP00000270570	S47A1_HUMAN	B4E3B2_HUMAN,B4DPA7_HUMAN	UPI0000071042	.	tolerated(0.1)	benign(0.164)	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTGAAAAC	.	4	BLCA
SMG6	0	.	GRCh37	17	2203548	2203548	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499G>A	p.Glu167Lys	p.E167K	ENST00000263073	2/19	285	245	39	282	282	0	SMG6,missense_variant,p.Glu136Lys,ENST00000544865,;SMG6,missense_variant,p.Glu167Lys,ENST00000263073,;SRR,upstream_gene_variant,,ENST00000576620,;SRR,upstream_gene_variant,,ENST00000575840,;SRR,upstream_gene_variant,,ENST00000576848,;SRR,upstream_gene_variant,,ENST00000344595,;SRR,upstream_gene_variant,,ENST00000574987,;SRR,upstream_gene_variant,,ENST00000572709,;	T	ENSG00000070366	ENST00000263073	Transcript	missense_variant	550	499	167	E/K	Gaa/Aaa	.	.	.	-1	SMG6	HGNC	17809	protein_coding	YES	CCDS11016.1	ENSP00000263073	EST1A_HUMAN	K7ENH7_HUMAN,K7ELM2_HUMAN,K7EKV2_HUMAN,I3L421_HUMAN,I3L3A9_HUMAN,I3L355_HUMAN,I3L1W8_HUMAN,I3L176_HUMAN	UPI00002005C8	.	tolerated_low_confidence(0.31)	benign(0.201)	2/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13548:SF1,hmmpanther:PTHR13548	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTTCTTCCT	.	4	BLCA
TRAF4	0	.	GRCh37	17	27076606	27076606	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11G>C	.	.	ENST00000262395	7/7	67	58	9	47	47	0	TRAF4,3_prime_UTR_variant,,ENST00000262395,;TRAF4,3_prime_UTR_variant,,ENST00000262396,;TRAF4,intron_variant,,ENST00000444415,;TRAF4,downstream_gene_variant,,ENST00000473421,;TRAF4,downstream_gene_variant,,ENST00000584944,;TRAF4,downstream_gene_variant,,ENST00000422344,;AC010761.9,upstream_gene_variant,,ENST00000577325,;AC010761.10,downstream_gene_variant,,ENST00000579468,;TRAF4,downstream_gene_variant,,ENST00000469529,;TRAF4,downstream_gene_variant,,ENST00000478021,;TRAF4,downstream_gene_variant,,ENST00000475329,;TRAF4,downstream_gene_variant,,ENST00000498540,;TRAF4,downstream_gene_variant,,ENST00000580073,;TRAF4,downstream_gene_variant,,ENST00000578917,;TRAF4,downstream_gene_variant,,ENST00000394925,;TRAF4,downstream_gene_variant,,ENST00000586813,;TRAF4,downstream_gene_variant,,ENST00000461195,;TRAF4,downstream_gene_variant,,ENST00000454852,;	C	ENSG00000076604	ENST00000262395	Transcript	3_prime_UTR_variant	1553	.	.	.	.	.	.	.	1	TRAF4	HGNC	12034	protein_coding	YES	CCDS11243.1	ENSP00000262395	TRAF4_HUMAN	K7ER49_HUMAN,K7EJG7_HUMAN	UPI000006D8C8	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTGGGGTTCG	.	2	BLCA
NF1	0	.	GRCh37	17	29553450	29553450	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2002-3C>G	.	.	ENST00000358273	.	54	42	12	43	43	0	NF1,splice_region_variant,,ENST00000456735,;NF1,splice_region_variant,,ENST00000358273,;NF1,splice_region_variant,,ENST00000356175,;NF1,downstream_gene_variant,,ENST00000431387,;NF1,splice_region_variant,,ENST00000495910,;NF1,splice_region_variant,,ENST00000579081,;NF1,splice_region_variant,,ENST00000493220,;	G	ENSG00000196712	ENST00000358273	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	NF1	HGNC	7765	protein_coding	YES	CCDS42292.1	ENSP00000351015	NF1_HUMAN	Q9UMU3_HUMAN,Q4W6X4_HUMAN,K7EP94_HUMAN	UPI000012FFAE	.	.	.	.	17/57	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCAGGAT	.	4	BLCA
RHOT1	0	.	GRCh37	17	30510207	30510207	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.456G>A	p.%3D	p.L152L	ENST00000358365	8/21	118	105	13	87	87	0	RHOT1,synonymous_variant,p.%3D,ENST00000354266,;RHOT1,synonymous_variant,p.%3D,ENST00000583994,;RHOT1,synonymous_variant,p.%3D,ENST00000581094,;RHOT1,synonymous_variant,p.%3D,ENST00000394692,;RHOT1,synonymous_variant,p.%3D,ENST00000358365,;RHOT1,synonymous_variant,p.%3D,ENST00000545287,;RHOT1,synonymous_variant,p.%3D,ENST00000333942,;AC116407.2,upstream_gene_variant,,ENST00000600034,;RHOT1,intron_variant,,ENST00000580976,;RHOT1,synonymous_variant,p.%3D,ENST00000581031,;RHOT1,3_prime_UTR_variant,,ENST00000578205,;	A	ENSG00000126858	ENST00000358365	Transcript	synonymous_variant	683	456	152	L	ctG/ctA	.	.	.	1	RHOT1	HGNC	21168	protein_coding	YES	CCDS32610.1	ENSP00000351132	MIRO1_HUMAN	.	UPI0000074394	.	.	.	8/21	.	Prints_domain:PR00449,Superfamily_domains:SSF52540,SMART_domains:SM00175,SMART_domains:SM00173,PIRSF_domain:PIRSF037488,SMART_domains:SM00174,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,hmmpanther:PTHR24072,hmmpanther:PTHR24072:SF124,PROSITE_profiles:PS51423	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTGAAGAA	.	4	BLCA
C17orf75	0	.	GRCh37	17	30658809	30658809	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1164G>A	p.Met388Ile	p.M388I	ENST00000577809	10/10	77	70	7	47	47	0	C17orf75,missense_variant,p.Met388Ile,ENST00000577809,;C17orf75,missense_variant,p.Met388Ile,ENST00000225805,;C17orf75,3_prime_UTR_variant,,ENST00000582961,;C17orf75,intron_variant,,ENST00000583104,;C17orf75,downstream_gene_variant,,ENST00000580558,;C17orf75,downstream_gene_variant,,ENST00000583334,;C17orf75,downstream_gene_variant,,ENST00000581747,;C17orf75,downstream_gene_variant,,ENST00000583774,;RP11-227G15.2,downstream_gene_variant,,ENST00000580360,;RP11-227G15.3,intron_variant,,ENST00000578389,;RP11-227G15.3,intron_variant,,ENST00000581915,;C17orf75,downstream_gene_variant,,ENST00000578215,;C17orf75,downstream_gene_variant,,ENST00000583221,;	T	ENSG00000108666	ENST00000577809	Transcript	missense_variant	1214	1164	388	M/I	atG/atA	.	.	.	-1	C17orf75	HGNC	30173	protein_coding	YES	CCDS58537.1	ENSP00000464275	NJMU_HUMAN	Q8NI83_HUMAN,K7ERX0_HUMAN,K7EIQ2_HUMAN,K7EII1_HUMAN,J3KRR1_HUMAN	UPI00001AE577	.	tolerated(0.42)	benign(0.005)	10/10	.	hmmpanther:PTHR14416,Pfam_domain:PF15053	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCTTTCATGAA	.	3	BLCA
ZNF207	0	.	GRCh37	17	30678824	30678824	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.61G>A	p.Asp21Asn	p.D21N	ENST00000394670	2/12	95	82	13	81	81	0	ZNF207,missense_variant,p.Asp21Asn,ENST00000341711,;ZNF207,missense_variant,p.Asp21Asn,ENST00000394670,;ZNF207,missense_variant,p.Asp21Asn,ENST00000577908,;ZNF207,missense_variant,p.Asp21Asn,ENST00000321233,;ZNF207,missense_variant,p.Asp21Asn,ENST00000394673,;ZNF207,missense_variant,p.Asp24Asn,ENST00000342555,;ZNF207,5_prime_UTR_variant,,ENST00000582165,;ZNF207,5_prime_UTR_variant,,ENST00000394679,;ZNF207,5_prime_UTR_variant,,ENST00000580759,;ZNF207,5_prime_UTR_variant,,ENST00000579634,;ZNF207,5_prime_UTR_variant,,ENST00000578918,;C17orf75,upstream_gene_variant,,ENST00000583774,;MIR632,downstream_gene_variant,,ENST00000385193,;RP11-227G15.3,non_coding_transcript_exon_variant,,ENST00000578389,;RP11-227G15.3,non_coding_transcript_exon_variant,,ENST00000581915,;ZNF207,non_coding_transcript_exon_variant,,ENST00000577324,;	A	ENSG00000010244	ENST00000394670	Transcript	missense_variant	230	61	21	D/N	Gat/Aat	.	.	.	1	ZNF207	HGNC	12998	protein_coding	YES	CCDS42294.1	ENSP00000378165	ZN207_HUMAN	Q8N395_HUMAN,J3QS27_HUMAN,J3KTL1_HUMAN,J3KRW6_HUMAN,J3KRB6_HUMAN,H0Y3M2_HUMAN	UPI000020164D	.	deleterious(0)	benign(0.068)	2/12	.	SMART_domains:SM00355,PROSITE_patterns:PS00028,hmmpanther:PTHR23215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTTTGATGAT	.	4	BLCA
C17orf102	0	.	GRCh37	17	32905942	32905942	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358C>A	p.Leu120Met	p.L120M	ENST00000357754	1/2	310	248	62	273	273	0	C17orf102,missense_variant,p.Leu120Met,ENST00000357754,;TMEM132E,upstream_gene_variant,,ENST00000321639,;	T	ENSG00000197322	ENST00000357754	Transcript	missense_variant	447	358	120	L/M	Ctg/Atg	.	.	.	-1	C17orf102	HGNC	34412	protein_coding	YES	CCDS42297.1	ENSP00000350392	CQ102_HUMAN	.	UPI0000456A77	.	tolerated_low_confidence(0.1)	benign(0.002)	1/2	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACAGAATAA	.	5	BLCA
MRM1	0	.	GRCh37	17	34958748	34958748	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509G>A	p.Gly170Glu	p.G170E	ENST00000250156	1/5	50	44	6	40	40	0	MRM1,missense_variant,p.Gly170Glu,ENST00000250156,;MRM1,intron_variant,,ENST00000585770,;DHRS11,downstream_gene_variant,,ENST00000590554,;DHRS11,downstream_gene_variant,,ENST00000491046,;DHRS11,downstream_gene_variant,,ENST00000585376,;DHRS11,downstream_gene_variant,,ENST00000251312,;DHRS11,downstream_gene_variant,,ENST00000593204,;DHRS11,downstream_gene_variant,,ENST00000590527,;DHRS11,downstream_gene_variant,,ENST00000586848,;	A	ENSG00000129282	ENST00000250156	Transcript	missense_variant	748	509	170	G/E	gGa/gAa	.	.	.	1	MRM1	HGNC	26202	protein_coding	YES	CCDS32631.1	ENSP00000250156	MRM1_HUMAN	K7EJT9_HUMAN	UPI000004B637	.	deleterious(0)	probably_damaging(1)	1/5	.	hmmpanther:PTHR12029:SF7,hmmpanther:PTHR12029,TIGRFAM_domain:TIGR00186,Pfam_domain:PF00588,Gene3D:3.40.1280.10,Superfamily_domains:SSF75217	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCGGAGTGG	.	4	BLCA
DDX52	0	.	GRCh37	17	35974371	35974371	+	Missense_Mutation	SNP	C	C	G	rs748486159	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1770G>C	p.Lys590Asn	p.K590N	ENST00000349699	15/15	114	97	17	115	115	0	DDX52,missense_variant,p.Lys482Asn,ENST00000394367,;DDX52,missense_variant,p.Lys590Asn,ENST00000349699,;SYNRG,upstream_gene_variant,,ENST00000394378,;SYNRG,upstream_gene_variant,,ENST00000502449,;SYNRG,upstream_gene_variant,,ENST00000591288,;SYNRG,upstream_gene_variant,,ENST00000339208,;SYNRG,upstream_gene_variant,,ENST00000345615,;SYNRG,upstream_gene_variant,,ENST00000585689,;SYNRG,upstream_gene_variant,,ENST00000585472,;SYNRG,upstream_gene_variant,,ENST00000346661,;RP11-697E22.1,downstream_gene_variant,,ENST00000591689,;SYNRG,upstream_gene_variant,,ENST00000394379,;DDX52,missense_variant,p.Lys106Asn,ENST00000591354,;DDX52,3_prime_UTR_variant,,ENST00000488402,;DDX52,non_coding_transcript_exon_variant,,ENST00000592520,;	G	ENSG00000141141	ENST00000349699	Transcript	missense_variant	1814	1770	590	K/N	aaG/aaC	rs748486159,COSM3970002	.	.	-1	DDX52	HGNC	20038	protein_coding	YES	CCDS11323.1	ENSP00000268854	DDX52_HUMAN	A8MTP9_HUMAN	UPI0000046805	.	deleterious(0.04)	benign(0.031)	15/15	.	hmmpanther:PTHR24031:SF33,hmmpanther:PTHR24031	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTTGCT	byFrequency	5	BLCA
SRCIN1	0	.	GRCh37	17	36715948	36715948	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1898C>G	p.Ser633Trp	p.S633W	ENST00000264659	10/19	19	14	5	19	19	0	SRCIN1,missense_variant,p.Ser633Trp,ENST00000264659,;SRCIN1,missense_variant,p.Ser421Trp,ENST00000542707,;SRCIN1,missense_variant,p.Ser667Trp,ENST00000578925,;SRCIN1,downstream_gene_variant,,ENST00000584266,;SRCIN1,non_coding_transcript_exon_variant,,ENST00000398579,;SRCIN1,upstream_gene_variant,,ENST00000578160,;SRCIN1,non_coding_transcript_exon_variant,,ENST00000577193,;	C	ENSG00000017373	ENST00000264659	Transcript	missense_variant	2123	1898	633	S/W	tCg/tGg	COSM1266788	.	.	-1	SRCIN1	HGNC	29506	protein_coding	YES	CCDS45660.1	ENSP00000264659	SRCN1_HUMAN	.	UPI0000E27F82	.	deleterious(0.01)	possibly_damaging(0.792)	10/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22741:SF5,hmmpanther:PTHR22741	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCCGAGGGC	.	2	BLCA
CACNB1	0	.	GRCh37	17	37340339	37340339	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.843C>G	p.%3D	p.L281L	ENST00000394303	10/14	75	64	11	66	66	0	CACNB1,synonymous_variant,p.%3D,ENST00000344140,;CACNB1,synonymous_variant,p.%3D,ENST00000394303,;CACNB1,synonymous_variant,p.%3D,ENST00000394310,;CACNB1,downstream_gene_variant,,ENST00000582877,;CACNB1,downstream_gene_variant,,ENST00000492737,;CACNB1,downstream_gene_variant,,ENST00000577582,;CACNB1,non_coding_transcript_exon_variant,,ENST00000539338,;CACNB1,downstream_gene_variant,,ENST00000536613,;	C	ENSG00000067191	ENST00000394303	Transcript	synonymous_variant	1051	843	281	L	ctC/ctG	.	.	.	-1	CACNB1	HGNC	1401	protein_coding	YES	CCDS42311.1	ENSP00000377840	CACB1_HUMAN	.	UPI0000127290	.	.	.	10/14	.	Prints_domain:PR01626,Superfamily_domains:SSF52540,SMART_domains:SM00072,Gene3D:3.40.50.300,Pfam_domain:PF00625,hmmpanther:PTHR11824:SF6,hmmpanther:PTHR11824	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTTGAGAAC	.	5	BLCA
ERBB2	0	.	GRCh37	17	37863257	37863257	+	Missense_Mutation	SNP	G	G	C	rs778487069	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.88G>C	p.Asp30His	p.D30H	ENST00000269571	2/27	60	54	6	48	48	0	ERBB2,missense_variant,p.Asp30His,ENST00000584450,;ERBB2,missense_variant,p.Asp15His,ENST00000541774,;ERBB2,missense_variant,p.Asp30His,ENST00000269571,;ERBB2,5_prime_UTR_variant,,ENST00000578709,;ERBB2,5_prime_UTR_variant,,ENST00000540042,;ERBB2,5_prime_UTR_variant,,ENST00000584099,;ERBB2,5_prime_UTR_variant,,ENST00000578199,;ERBB2,5_prime_UTR_variant,,ENST00000406381,;ERBB2,5_prime_UTR_variant,,ENST00000540147,;ERBB2,5_prime_UTR_variant,,ENST00000584601,;ERBB2,intron_variant,,ENST00000445658,;ERBB2,upstream_gene_variant,,ENST00000578502,;ERBB2,missense_variant,p.Asp30His,ENST00000582648,;ERBB2,missense_variant,p.Asp30His,ENST00000578373,;ERBB2,non_coding_transcript_exon_variant,,ENST00000584908,;ERBB2,non_coding_transcript_exon_variant,,ENST00000582788,;ERBB2,upstream_gene_variant,,ENST00000583038,;ERBB2,upstream_gene_variant,,ENST00000583391,;	C	ENSG00000141736	ENST00000269571	Transcript	missense_variant	247	88	30	D/H	Gac/Cac	rs778487069	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	deleterious(0.03)	probably_damaging(0.999)	2/27	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF137,Gene3D:3.80.20.20,PIRSF_domain:PIRSF000619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACAGACATG	.	4	BLCA
PSMD3	0	.	GRCh37	17	38145041	38145041	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>C	p.Glu219Gln	p.E219Q	ENST00000264639	4/12	126	105	21	117	117	0	PSMD3,missense_variant,p.Glu81Gln,ENST00000541736,;PSMD3,missense_variant,p.Glu219Gln,ENST00000264639,;PSMD3,missense_variant,p.Glu71Gln,ENST00000540504,;PSMD3,3_prime_UTR_variant,,ENST00000415039,;PSMD3,non_coding_transcript_exon_variant,,ENST00000580980,;PSMD3,upstream_gene_variant,,ENST00000485835,;	C	ENSG00000108344	ENST00000264639	Transcript	missense_variant	829	655	219	E/Q	Gag/Cag	.	.	.	1	PSMD3	HGNC	9560	protein_coding	YES	CCDS11356.1	ENSP00000264639	PSMD3_HUMAN	Q96N86_HUMAN,B3KNN7_HUMAN	UPI0000001062	.	deleterious(0)	probably_damaging(0.994)	4/12	.	hmmpanther:PTHR10758:SF2,hmmpanther:PTHR10758,Gene3D:1.25.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATGAGTTC	.	5	BLCA
ZZEF1	0	.	GRCh37	17	3917671	3917671	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8284C>T	p.Gln2762Ter	p.Q2762*	ENST00000381638	50/55	167	142	25	144	144	0	ZZEF1,stop_gained,p.Gln2762Ter,ENST00000381638,;ZZEF1,non_coding_transcript_exon_variant,,ENST00000573536,;ZZEF1,downstream_gene_variant,,ENST00000572831,;ZZEF1,downstream_gene_variant,,ENST00000575428,;	A	ENSG00000074755	ENST00000381638	Transcript	stop_gained	8409	8284	2762	Q/*	Cag/Tag	.	.	.	-1	ZZEF1	HGNC	29027	protein_coding	YES	CCDS11043.1	ENSP00000371051	ZZEF1_HUMAN	.	UPI00004569F7	.	.	.	50/55	.	Gene3D:2.60.120.290,hmmpanther:PTHR22772,hmmpanther:PTHR22772:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTGAGACC	.	4	BLCA
KRTAP4-2	0	.	GRCh37	17	39333898	39333898	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*108C>G	.	.	ENST00000377726	1/1	42	38	4	23	23	0	KRTAP4-2,3_prime_UTR_variant,,ENST00000377726,;	C	ENSG00000244537	ENST00000377726	Transcript	3_prime_UTR_variant	563	.	.	.	.	.	.	.	-1	KRTAP4-2	HGNC	18900	protein_coding	YES	CCDS11384.1	ENSP00000366955	KRA42_HUMAN	.	UPI0000246F2E	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCAAGAATTG	.	4	BLCA
ZZEF1	0	.	GRCh37	17	3935433	3935433	+	Silent	SNP	C	C	T	rs749247444	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6879G>A	p.%3D	p.R2293R	ENST00000381638	42/55	183	156	26	147	147	0	ZZEF1,synonymous_variant,p.%3D,ENST00000573183,;ZZEF1,synonymous_variant,p.%3D,ENST00000381638,;ZZEF1,3_prime_UTR_variant,,ENST00000571436,;ZZEF1,non_coding_transcript_exon_variant,,ENST00000573606,;ZZEF1,downstream_gene_variant,,ENST00000572426,;	T	ENSG00000074755	ENST00000381638	Transcript	synonymous_variant	7004	6879	2293	R	cgG/cgA	rs749247444	.	.	-1	ZZEF1	HGNC	29027	protein_coding	YES	CCDS11043.1	ENSP00000371051	ZZEF1_HUMAN	.	UPI00004569F7	.	.	.	42/55	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22772,hmmpanther:PTHR22772:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCCGAGT	.	4	BLCA
STAT3	0	.	GRCh37	17	40478169	40478169	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1330G>A	p.Glu444Lys	p.E444K	ENST00000264657	15/24	73	60	13	41	41	0	STAT3,missense_variant,p.Glu444Lys,ENST00000588969,;STAT3,missense_variant,p.Glu444Lys,ENST00000585517,;STAT3,missense_variant,p.Glu444Lys,ENST00000404395,;STAT3,missense_variant,p.Glu444Lys,ENST00000264657,;STAT3,missense_variant,p.Glu346Lys,ENST00000389272,;STAT3,upstream_gene_variant,,ENST00000471989,;STAT3,upstream_gene_variant,,ENST00000498330,;STAT3,downstream_gene_variant,,ENST00000478276,;	T	ENSG00000168610	ENST00000264657	Transcript	missense_variant	1643	1330	444	E/K	Gag/Aag	.	.	.	-1	STAT3	HGNC	11364	protein_coding	YES	CCDS32656.1	ENSP00000264657	STAT3_HUMAN	G8JLH9_HUMAN	UPI0000031047	.	tolerated(0.37)	benign(0.311)	15/24	.	hmmpanther:PTHR11801:SF2,hmmpanther:PTHR11801,Pfam_domain:PF02864,Gene3D:2.60.40.630,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCGGTCT	.	5	BLCA
CCR10	0	.	GRCh37	17	40831733	40831733	+	Silent	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927C>T	p.%3D	p.L309L	ENST00000332438	2/2	39	32	6	25	25	0	CCR10,synonymous_variant,p.%3D,ENST00000591765,;CCR10,synonymous_variant,p.%3D,ENST00000332438,;PLEKHH3,upstream_gene_variant,,ENST00000412503,;PLEKHH3,upstream_gene_variant,,ENST00000587627,;PLEKHH3,upstream_gene_variant,,ENST00000591022,;CCR10,downstream_gene_variant,,ENST00000591568,;CNTNAP1,upstream_gene_variant,,ENST00000264638,;PLEKHH3,upstream_gene_variant,,ENST00000293349,;CTD-3193K9.3,downstream_gene_variant,,ENST00000592440,;CTD-3193K9.4,upstream_gene_variant,,ENST00000593139,;PLEKHH3,upstream_gene_variant,,ENST00000591544,;PLEKHH3,upstream_gene_variant,,ENST00000456950,;PLEKHH3,upstream_gene_variant,,ENST00000591196,;CNTNAP1,upstream_gene_variant,,ENST00000591662,;PLEKHH3,upstream_gene_variant,,ENST00000591490,;	A	ENSG00000184451	ENST00000332438	Transcript	synonymous_variant	947	927	309	L	ctC/ctT	COSM3795637	.	.	-1	CCR10	HGNC	4474	protein_coding	YES	CCDS11435.1	ENSP00000332504	CCR10_HUMAN	K7ER70_HUMAN,K7EPC9_HUMAN	UPI0000212EE9	.	.	.	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24227,hmmpanther:PTHR24227:SF72,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTAGAGAAC	.	5	BLCA
WNK4	0	.	GRCh37	17	40937119	40937119	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1175G>A	p.Arg392Lys	p.R392K	ENST00000246914	5/19	20	14	6	20	20	0	WNK4,missense_variant,p.Arg392Lys,ENST00000246914,;WNK4,upstream_gene_variant,,ENST00000587705,;WNK4,intron_variant,,ENST00000591448,;WNK4,upstream_gene_variant,,ENST00000592072,;WNK4,downstream_gene_variant,,ENST00000592669,;	A	ENSG00000126562	ENST00000246914	Transcript	missense_variant	1196	1175	392	R/K	aGa/aAa	.	.	.	1	WNK4	HGNC	14544	protein_coding	YES	CCDS11439.1	ENSP00000246914	WNK4_HUMAN	B0LPI0_HUMAN	UPI000006FC0F	.	deleterious(0.02)	unknown(0)	5/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR13902:SF52,hmmpanther:PTHR13902,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCAGAAAGC	.	5	BLCA
G6PC	0	.	GRCh37	17	41056052	41056052	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.335G>A	p.Gly112Glu	p.G112E	ENST00000253801	2/5	96	74	22	82	82	0	G6PC,missense_variant,p.Gly112Glu,ENST00000585489,;G6PC,missense_variant,p.Gly112Glu,ENST00000253801,;G6PC,missense_variant,p.Gly112Glu,ENST00000592383,;G6PC,non_coding_transcript_exon_variant,,ENST00000588481,;	A	ENSG00000131482	ENST00000253801	Transcript	missense_variant	414	335	112	G/E	gGa/gAa	.	.	.	1	G6PC	HGNC	4056	protein_coding	YES	CCDS11446.1	ENSP00000253801	G6PC_HUMAN	.	UPI000013CDF5	.	deleterious(0)	probably_damaging(1)	2/5	.	Superfamily_domains:SSF48317,SMART_domains:SM00014,PIRSF_domain:PIRSF000905,Gene3D:1.20.144.10,Pfam_domain:PF01569,hmmpanther:PTHR12591:SF3,hmmpanther:PTHR12591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTGGACCAG	.	5	BLCA
HDAC5	0	.	GRCh37	17	42164824	42164824	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1843G>A	p.Glu615Lys	p.E615K	ENST00000225983	13/27	40	33	7	19	19	0	HDAC5,missense_variant,p.Glu614Lys,ENST00000393622,;HDAC5,missense_variant,p.Glu615Lys,ENST00000225983,;HDAC5,missense_variant,p.Glu614Lys,ENST00000586802,;HDAC5,missense_variant,p.Glu614Lys,ENST00000336057,;HDAC5,downstream_gene_variant,,ENST00000588261,;HDAC5,non_coding_transcript_exon_variant,,ENST00000592385,;HDAC5,upstream_gene_variant,,ENST00000588419,;HDAC5,upstream_gene_variant,,ENST00000593013,;HDAC5,downstream_gene_variant,,ENST00000587776,;	T	ENSG00000108840	ENST00000225983	Transcript	missense_variant	2167	1843	615	E/K	Gag/Aag	.	.	.	-1	HDAC5	HGNC	14068	protein_coding	YES	CCDS32663.1	ENSP00000225983	HDAC5_HUMAN	K7EJZ7_HUMAN,K7EJL6_HUMAN	UPI0000508BBA	.	tolerated(0.26)	benign(0.107)	13/27	.	hmmpanther:PTHR10625,hmmpanther:PTHR10625:SF57,PIRSF_domain:PIRSF037911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCAGCAC	.	4	BLCA
ATXN7L3	0	.	GRCh37	17	42275038	42275038	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>A	p.Glu38Lys	p.E38K	ENST00000454077	2/12	155	137	18	129	128	0	ATXN7L3,missense_variant,p.Glu38Lys,ENST00000590169,;ATXN7L3,missense_variant,p.Glu38Lys,ENST00000589805,;ATXN7L3,missense_variant,p.Glu38Lys,ENST00000587097,;ATXN7L3,missense_variant,p.Glu38Lys,ENST00000454077,;ATXN7L3,missense_variant,p.Glu38Lys,ENST00000389384,;ATXN7L3,upstream_gene_variant,,ENST00000591295,;ATXN7L3,upstream_gene_variant,,ENST00000590537,;CTB-175E5.7,upstream_gene_variant,,ENST00000586560,;ATXN7L3,intron_variant,,ENST00000593073,;ATXN7L3,upstream_gene_variant,,ENST00000587022,;ATXN7L3,upstream_gene_variant,,ENST00000589607,;ATXN7L3,upstream_gene_variant,,ENST00000591807,;ATXN7L3,upstream_gene_variant,,ENST00000586688,;	T	ENSG00000087152	ENST00000454077	Transcript	missense_variant	112	112	38	E/K	Gag/Aag	.	.	.	-1	ATXN7L3	HGNC	25416	protein_coding	YES	CCDS45697.1	ENSP00000397259	AT7L3_HUMAN	K7ENZ2_HUMAN,K7EMZ3_HUMAN,K7EJK2_HUMAN,B4DKS1_HUMAN	UPI00001613AC	.	deleterious(0)	probably_damaging(0.925)	2/12	.	HAMAP:MF_03047,hmmpanther:PTHR15117,hmmpanther:PTHR15117:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCAAAGC	.	4	BLCA
CDC27	0	.	GRCh37	17	45266572	45266572	+	5'Flank	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000531206	.	30	23	7	34	34	0	CDC27,5_prime_UTR_variant,,ENST00000066544,;CDC27,5_prime_UTR_variant,,ENST00000527547,;CDC27,5_prime_UTR_variant,,ENST00000575483,;CDC27,5_prime_UTR_variant,,ENST00000446365,;CDC27,upstream_gene_variant,,ENST00000531206,;CDC27,intron_variant,,ENST00000532575,;CDC27,upstream_gene_variant,,ENST00000528748,;CDC27,5_prime_UTR_variant,,ENST00000526866,;CDC27,5_prime_UTR_variant,,ENST00000533415,;CDC27,5_prime_UTR_variant,,ENST00000532893,;CDC27,non_coding_transcript_exon_variant,,ENST00000525495,;CDC27,non_coding_transcript_exon_variant,,ENST00000528147,;	G	ENSG00000004897	ENST00000531206	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	30	-1	CDC27	HGNC	1728	protein_coding	YES	CCDS45720.1	ENSP00000434614	CDC27_HUMAN	I0EZ72_HUMAN,I0EZ68_HUMAN	UPI0000E59FE6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCAGGCC	.	2	BLCA
ITGB3	0	.	GRCh37	17	45369745	45369745	+	Missense_Mutation	SNP	G	G	A	rs750572541	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1501G>A	p.Glu501Lys	p.E501K	ENST00000559488	10/15	99	82	16	74	74	0	ITGB3,missense_variant,p.Glu454Lys,ENST00000435993,;ITGB3,missense_variant,p.Glu501Lys,ENST00000559488,;ITGB3,downstream_gene_variant,,ENST00000571680,;ITGB3,missense_variant,p.Glu490Lys,ENST00000560629,;ITGB3,downstream_gene_variant,,ENST00000573377,;	A	ENSG00000259207	ENST00000559488	Transcript	missense_variant	1517	1501	501	E/K	Gag/Aag	rs750572541	.	.	1	ITGB3	HGNC	6156	protein_coding	YES	CCDS11511.1	ENSP00000452786	ITB3_HUMAN	F2X0V0_HUMAN,F1C634_HUMAN,F1C632_HUMAN,F1C630_HUMAN	UPI000013D240	.	deleterious(0.03)	benign(0.178)	10/15	.	hmmpanther:PTHR10082:SF25,hmmpanther:PTHR10082,PIRSF_domain:PIRSF002512	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCAGAGGAG	.	5	BLCA
TBKBP1	0	.	GRCh37	17	45773487	45773487	+	Silent	SNP	C	C	T	rs748034009	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9C>T	p.%3D	p.S3S	ENST00000361722	1/9	52	33	18	34	34	0	TBKBP1,synonymous_variant,p.%3D,ENST00000578982,;TBKBP1,synonymous_variant,p.%3D,ENST00000361722,;TBKBP1,synonymous_variant,p.%3D,ENST00000537587,;	T	ENSG00000198933	ENST00000361722	Transcript	synonymous_variant	858	9	3	S	tcC/tcT	rs748034009	.	.	1	TBKBP1	HGNC	30140	protein_coding	YES	CCDS45722.1	ENSP00000354777	TBKB1_HUMAN	J3KS71_HUMAN,F5H1U4_HUMAN	UPI000006E6FC	.	.	.	1/9	.	hmmpanther:PTHR14432:SF2,hmmpanther:PTHR14432	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGTCCATGTT	.	5	BLCA
HOXB3	0	.	GRCh37	17	46629725	46629725	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112C>G	p.Gln38Glu	p.Q38E	ENST00000470495	1/2	55	46	9	35	35	0	HOXB3,missense_variant,p.Gln38Glu,ENST00000476342,;HOXB3,missense_variant,p.Gln38Glu,ENST00000498678,;HOXB3,missense_variant,p.Gln38Glu,ENST00000470495,;HOXB3,missense_variant,p.Gln38Glu,ENST00000311626,;HOXB3,splice_region_variant,,ENST00000472863,;HOXB3,splice_region_variant,,ENST00000489475,;HOXB3,splice_region_variant,,ENST00000471459,;HOXB3,intron_variant,,ENST00000460160,;HOXB3,intron_variant,,ENST00000485909,;HOXB3,intron_variant,,ENST00000490677,;HOXB3,downstream_gene_variant,,ENST00000465120,;HOXB-AS3,intron_variant,,ENST00000465846,;HOXB-AS1,downstream_gene_variant,,ENST00000508688,;HOXB-AS1,downstream_gene_variant,,ENST00000502764,;HOXB-AS2,upstream_gene_variant,,ENST00000464382,;HOXB-AS1,downstream_gene_variant,,ENST00000435312,;HOXB3,downstream_gene_variant,,ENST00000478644,;	C	ENSG00000120093	ENST00000470495	Transcript	missense_variant	1560	112	38	Q/E	Cag/Gag	.	.	.	-1	HOXB3	HGNC	5114	protein_coding	YES	CCDS11528.1	ENSP00000417207	HXB3_HUMAN	C9J2I3_HUMAN,B7ZAD0_HUMAN,B7Z5N8_HUMAN	UPI00001AEFBF	.	tolerated(0.06)	possibly_damaging(0.785)	1/2	.	hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Q34fs*41|c.100delC|3,BUFFER|p.Q34fs*68|c.100_101insC|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAAATG	.	5	BLCA
HOXB3	0	.	GRCh37	17	46629845	46629845	+	5'UTR	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9C>A	.	.	ENST00000470495	1/2	20	17	3	24	24	0	HOXB3,5_prime_UTR_variant,,ENST00000476342,;HOXB3,5_prime_UTR_variant,,ENST00000498678,;HOXB3,5_prime_UTR_variant,,ENST00000470495,;HOXB3,5_prime_UTR_variant,,ENST00000311626,;HOXB3,intron_variant,,ENST00000460160,;HOXB3,intron_variant,,ENST00000485909,;HOXB3,intron_variant,,ENST00000472863,;HOXB3,intron_variant,,ENST00000489475,;HOXB3,intron_variant,,ENST00000471459,;HOXB3,intron_variant,,ENST00000490677,;HOXB3,downstream_gene_variant,,ENST00000465120,;HOXB-AS3,intron_variant,,ENST00000465846,;HOXB-AS1,downstream_gene_variant,,ENST00000508688,;HOXB-AS1,downstream_gene_variant,,ENST00000502764,;HOXB-AS2,upstream_gene_variant,,ENST00000464382,;HOXB-AS1,downstream_gene_variant,,ENST00000435312,;HOXB3,downstream_gene_variant,,ENST00000478644,;	T	ENSG00000120093	ENST00000470495	Transcript	5_prime_UTR_variant	1440	.	.	.	.	.	.	.	-1	HOXB3	HGNC	5114	protein_coding	YES	CCDS11528.1	ENSP00000417207	HXB3_HUMAN	C9J2I3_HUMAN,B7ZAD0_HUMAN,B7Z5N8_HUMAN	UPI00001AEFBF	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGTGAGGCC	.	4	BLCA
HOXB8	0	.	GRCh37	17	46690650	46690650	+	Missense_Mutation	SNP	C	C	T	rs771982800	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646G>A	p.Glu216Lys	p.E216K	ENST00000239144	2/2	137	114	23	119	119	0	HOXB8,missense_variant,p.Glu215Lys,ENST00000576562,;HOXB8,missense_variant,p.Glu65Lys,ENST00000498634,;HOXB8,missense_variant,p.Glu216Lys,ENST00000239144,;HOXB8,downstream_gene_variant,,ENST00000468443,;HOXB7,upstream_gene_variant,,ENST00000239165,;HOXB7,intron_variant,,ENST00000567101,;HOXB7,upstream_gene_variant,,ENST00000467314,;	T	ENSG00000120068	ENST00000239144	Transcript	missense_variant	881	646	216	E/K	Gag/Aag	rs771982800	.	.	-1	HOXB8	HGNC	5119	protein_coding	YES	CCDS11533.1	ENSP00000239144	HXB8_HUMAN	I3L221_HUMAN	UPI000012CF63	.	deleterious(0.01)	possibly_damaging(0.905)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTCGCATT	byFrequency	4	BLCA
KAT7	0	.	GRCh37	17	47874172	47874172	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.224G>T	p.Arg75Ile	p.R75I	ENST00000259021	3/15	177	150	26	144	144	0	KAT7,missense_variant,p.Arg75Ile,ENST00000259021,;KAT7,missense_variant,p.Arg75Ile,ENST00000509773,;KAT7,missense_variant,p.Arg75Ile,ENST00000424009,;KAT7,5_prime_UTR_variant,,ENST00000506533,;KAT7,5_prime_UTR_variant,,ENST00000435742,;KAT7,5_prime_UTR_variant,,ENST00000503935,;KAT7,intron_variant,,ENST00000510819,;KAT7,intron_variant,,ENST00000454930,;KAT7,non_coding_transcript_exon_variant,,ENST00000509124,;RP11-613C6.4,downstream_gene_variant,,ENST00000513669,;	T	ENSG00000136504	ENST00000259021	Transcript	missense_variant	504	224	75	R/I	aGa/aTa	.	.	.	1	KAT7	HGNC	17016	protein_coding	YES	CCDS11554.1	ENSP00000259021	KAT7_HUMAN	G3V125_HUMAN,B4DJ40_HUMAN,B4DGH8_HUMAN	UPI000006D3D5	.	deleterious_low_confidence(0)	probably_damaging(0.993)	3/15	.	hmmpanther:PTHR10615	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCAGAAGAG	.	4	BLCA
KAT7	0	.	GRCh37	17	47874209	47874209	+	Silent	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261G>C	p.%3D	p.V87V	ENST00000259021	3/15	194	164	29	187	187	0	KAT7,synonymous_variant,p.%3D,ENST00000259021,;KAT7,synonymous_variant,p.%3D,ENST00000509773,;KAT7,synonymous_variant,p.%3D,ENST00000424009,;KAT7,5_prime_UTR_variant,,ENST00000506533,;KAT7,5_prime_UTR_variant,,ENST00000435742,;KAT7,5_prime_UTR_variant,,ENST00000503935,;KAT7,intron_variant,,ENST00000510819,;KAT7,intron_variant,,ENST00000454930,;KAT7,non_coding_transcript_exon_variant,,ENST00000509124,;RP11-613C6.4,downstream_gene_variant,,ENST00000513669,;	C	ENSG00000136504	ENST00000259021	Transcript	synonymous_variant	541	261	87	V	gtG/gtC	COSM3795754	.	.	1	KAT7	HGNC	17016	protein_coding	YES	CCDS11554.1	ENSP00000259021	KAT7_HUMAN	G3V125_HUMAN,B4DJ40_HUMAN,B4DGH8_HUMAN	UPI000006D3D5	.	.	.	3/15	.	hmmpanther:PTHR10615	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGTGACACC	.	4	BLCA
MINK1	0	.	GRCh37	17	4789780	4789780	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808C>G	p.Leu270Val	p.L270V	ENST00000355280	10/32	200	175	25	136	136	0	MINK1,missense_variant,p.Leu270Val,ENST00000355280,;MINK1,missense_variant,p.Leu270Val,ENST00000347992,;MINK1,missense_variant,p.Leu270Val,ENST00000453408,;RN7SL784P,downstream_gene_variant,,ENST00000577319,;MINK1,missense_variant,p.Leu133Val,ENST00000571207,;MINK1,3_prime_UTR_variant,,ENST00000574453,;MINK1,non_coding_transcript_exon_variant,,ENST00000572330,;MINK1,downstream_gene_variant,,ENST00000577021,;	G	ENSG00000141503	ENST00000355280	Transcript	missense_variant	1004	808	270	L/V	Ctc/Gtc	.	.	.	1	MINK1	HGNC	17565	protein_coding	YES	CCDS45588.1	ENSP00000347427	MINK1_HUMAN	Q9HBM9_HUMAN,Q8NG69_HUMAN	UPI00001678BB	.	deleterious(0)	possibly_damaging(0.626)	10/32	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF196,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATGTCTCATC	.	4	BLCA
MINK1	0	.	GRCh37	17	4789839	4789839	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.867C>T	p.%3D	p.I289I	ENST00000355280	10/32	129	110	19	85	85	0	MINK1,synonymous_variant,p.%3D,ENST00000355280,;MINK1,synonymous_variant,p.%3D,ENST00000347992,;MINK1,synonymous_variant,p.%3D,ENST00000453408,;RN7SL784P,downstream_gene_variant,,ENST00000577319,;MINK1,synonymous_variant,p.%3D,ENST00000571207,;MINK1,3_prime_UTR_variant,,ENST00000574453,;MINK1,non_coding_transcript_exon_variant,,ENST00000572330,;MINK1,downstream_gene_variant,,ENST00000577021,;	T	ENSG00000141503	ENST00000355280	Transcript	synonymous_variant	1063	867	289	I	atC/atT	.	.	.	1	MINK1	HGNC	17565	protein_coding	YES	CCDS45588.1	ENSP00000347427	MINK1_HUMAN	Q9HBM9_HUMAN,Q8NG69_HUMAN	UPI00001678BB	.	.	.	10/32	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF196,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCATCCGGGA	.	4	BLCA
MINK1	0	.	GRCh37	17	4789840	4789840	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.868C>T	p.Arg290Trp	p.R290W	ENST00000355280	10/32	127	108	19	86	86	0	MINK1,missense_variant,p.Arg290Trp,ENST00000355280,;MINK1,missense_variant,p.Arg290Trp,ENST00000347992,;MINK1,missense_variant,p.Arg290Trp,ENST00000453408,;RN7SL784P,downstream_gene_variant,,ENST00000577319,;MINK1,missense_variant,p.Arg153Trp,ENST00000571207,;MINK1,3_prime_UTR_variant,,ENST00000574453,;MINK1,non_coding_transcript_exon_variant,,ENST00000572330,;MINK1,downstream_gene_variant,,ENST00000577021,;	T	ENSG00000141503	ENST00000355280	Transcript	missense_variant	1064	868	290	R/W	Cgg/Tgg	.	.	.	1	MINK1	HGNC	17565	protein_coding	YES	CCDS45588.1	ENSP00000347427	MINK1_HUMAN	Q9HBM9_HUMAN,Q8NG69_HUMAN	UPI00001678BB	.	deleterious(0)	possibly_damaging(0.588)	10/32	.	hmmpanther:PTHR24361:SF196,hmmpanther:PTHR24361,Gene3D:1.10.510.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCATCCGGGAC	.	4	BLCA
ABCC3	0	.	GRCh37	17	48762102	48762102	+	Missense_Mutation	SNP	G	G	A	rs750587507	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4146G>A	p.Met1382Ile	p.M1382I	ENST00000285238	29/31	111	99	12	86	86	0	ABCC3,missense_variant,p.Met1382Ile,ENST00000285238,;ABCC3,3_prime_UTR_variant,,ENST00000502426,;ABCC3,3_prime_UTR_variant,,ENST00000505699,;ABCC3,non_coding_transcript_exon_variant,,ENST00000503337,;ABCC3,upstream_gene_variant,,ENST00000508929,;ABCC3,upstream_gene_variant,,ENST00000504586,;	A	ENSG00000108846	ENST00000285238	Transcript	missense_variant	4226	4146	1382	M/I	atG/atA	rs750587507	.	.	1	ABCC3	HGNC	54	protein_coding	YES	CCDS32681.1	ENSP00000285238	MRP3_HUMAN	Q96QA9_HUMAN,Q2M3C9_HUMAN	UPI000004B145	.	tolerated(0.09)	possibly_damaging(0.465)	29/31	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24223,hmmpanther:PTHR24223:SF199,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00957,Pfam_domain:PF00005,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCATGAACCT	.	4	BLCA
USP6	0	.	GRCh37	17	5042639	5042639	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168C>G	p.Pro390Ala	p.P390A	ENST00000574788	22/38	58	51	7	57	57	0	USP6,missense_variant,p.Pro390Ala,ENST00000250066,;USP6,missense_variant,p.Pro390Ala,ENST00000574788,;USP6,missense_variant,p.Pro73Ala,ENST00000304328,;USP6,missense_variant,p.Pro390Ala,ENST00000332776,;USP6,missense_variant,p.Pro390Ala,ENST00000572949,;USP6,3_prime_UTR_variant,,ENST00000575709,;USP6,downstream_gene_variant,,ENST00000357482,;	G	ENSG00000129204	ENST00000574788	Transcript	missense_variant	3398	1168	390	P/A	Cca/Gca	.	.	.	1	USP6	HGNC	12629	protein_coding	YES	CCDS11069.2	ENSP00000460380	UBP6_HUMAN	Q6U210_HUMAN	UPI000006226F	.	deleterious_low_confidence(0.01)	possibly_damaging(0.539)	22/38	.	hmmpanther:PTHR24006:SF380,hmmpanther:PTHR24006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCCCTCCAGGC	.	3	BLCA
USP6	0	.	GRCh37	17	5058888	5058888	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2815C>A	p.His939Asn	p.H939N	ENST00000574788	31/38	88	73	15	66	66	0	USP6,missense_variant,p.His939Asn,ENST00000250066,;USP6,missense_variant,p.His939Asn,ENST00000574788,;USP6,missense_variant,p.His622Asn,ENST00000304328,;USP6,3_prime_UTR_variant,,ENST00000332776,;USP6,3_prime_UTR_variant,,ENST00000572949,;USP6,3_prime_UTR_variant,,ENST00000575709,;	A	ENSG00000129204	ENST00000574788	Transcript	missense_variant	5045	2815	939	H/N	Cat/Aat	.	.	.	1	USP6	HGNC	12629	protein_coding	YES	CCDS11069.2	ENSP00000460380	UBP6_HUMAN	Q6U210_HUMAN	UPI000006226F	.	tolerated_low_confidence(0.1)	probably_damaging(0.997)	31/38	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF380,hmmpanther:PTHR24006,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTCATGCC	.	5	BLCA
USP6	0	.	GRCh37	17	5074102	5074102	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3846C>T	p.%3D	p.G1282G	ENST00000574788	36/38	131	111	20	110	110	0	USP6,synonymous_variant,p.%3D,ENST00000250066,;USP6,synonymous_variant,p.%3D,ENST00000574788,;USP6,synonymous_variant,p.%3D,ENST00000304328,;USP6,3_prime_UTR_variant,,ENST00000332776,;USP6,3_prime_UTR_variant,,ENST00000572949,;USP6,3_prime_UTR_variant,,ENST00000575709,;	T	ENSG00000129204	ENST00000574788	Transcript	synonymous_variant	6076	3846	1282	G	ggC/ggT	COSM981472	.	.	1	USP6	HGNC	12629	protein_coding	YES	CCDS11069.2	ENSP00000460380	UBP6_HUMAN	Q6U210_HUMAN	UPI000006226F	.	.	.	36/38	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF380,hmmpanther:PTHR24006,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGGCGATGG	.	4	BLCA
TOM1L1	0	.	GRCh37	17	52981124	52981124	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>G	p.Ile38Met	p.I38M	ENST00000575882	2/16	95	80	15	103	103	0	TOM1L1,missense_variant,p.Ile35Met,ENST00000572576,;TOM1L1,missense_variant,p.Ile37Met,ENST00000570499,;TOM1L1,missense_variant,p.Ile38Met,ENST00000570371,;TOM1L1,missense_variant,p.Ile38Met,ENST00000575333,;TOM1L1,missense_variant,p.Ile28Met,ENST00000575909,;TOM1L1,missense_variant,p.Ile38Met,ENST00000445275,;TOM1L1,missense_variant,p.Ile38Met,ENST00000572158,;TOM1L1,missense_variant,p.Ile3Met,ENST00000572405,;TOM1L1,missense_variant,p.Ile3Met,ENST00000573607,;TOM1L1,missense_variant,p.Ile38Met,ENST00000575882,;TOM1L1,5_prime_UTR_variant,,ENST00000572298,;TOM1L1,5_prime_UTR_variant,,ENST00000540336,;TOM1L1,intron_variant,,ENST00000348161,;TOM1L1,intron_variant,,ENST00000536554,;TOM1L1,downstream_gene_variant,,ENST00000574744,;TOM1L1,missense_variant,p.Ile38Met,ENST00000572360,;TOM1L1,missense_variant,p.Ile38Met,ENST00000571319,;TOM1L1,3_prime_UTR_variant,,ENST00000570965,;TOM1L1,intron_variant,,ENST00000576932,;	G	ENSG00000141198	ENST00000575882	Transcript	missense_variant	467	114	38	I/M	atC/atG	COSM3519695,COSM1303070	.	.	1	TOM1L1	HGNC	11983	protein_coding	YES	CCDS11582.1	ENSP00000460823	TM1L1_HUMAN	I3L4N3_HUMAN,I3L1Q1_HUMAN,B7Z9E2_HUMAN	UPI000003E7E0	.	deleterious(0.03)	probably_damaging(1)	2/16	.	PROSITE_profiles:PS50179,hmmpanther:PTHR13856:SF28,hmmpanther:PTHR13856,Pfam_domain:PF00790,Gene3D:1.25.40.90,PIRSF_domain:PIRSF036948,SMART_domains:SM00288,Superfamily_domains:SSF48464	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCTGTGA	.	5	BLCA
MRPS23	0	.	GRCh37	17	55926667	55926667	+	Missense_Mutation	SNP	C	C	G	rs746305531	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.149G>C	p.Arg50Pro	p.R50P	ENST00000313608	2/5	77	65	11	59	59	0	MRPS23,missense_variant,p.Arg50Pro,ENST00000313608,;MRPS23,missense_variant,p.Arg50Pro,ENST00000578444,;MRPS23,5_prime_UTR_variant,,ENST00000579380,;MRPS23,non_coding_transcript_exon_variant,,ENST00000579768,;	G	ENSG00000181610	ENST00000313608	Transcript	missense_variant	195	149	50	R/P	cGa/cCa	rs746305531	.	.	-1	MRPS23	HGNC	14509	protein_coding	YES	CCDS11598.1	ENSP00000320184	RT23_HUMAN	.	UPI0000073570	.	deleterious(0.04)	probably_damaging(0.951)	2/5	.	hmmpanther:PTHR15925,Pfam_domain:PF10484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCGAGGC	.	5	BLCA
SMG8	0	.	GRCh37	17	57289102	57289102	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1690C>T	p.Gln564Ter	p.Q564*	ENST00000543872	2/5	103	86	16	62	62	0	SMG8,stop_gained,p.Gln564Ter,ENST00000543872,;SMG8,stop_gained,p.Gln107Ter,ENST00000582469,;SMG8,stop_gained,p.Gln564Ter,ENST00000578922,;SMG8,stop_gained,p.Gln564Ter,ENST00000300917,;CTD-2510F5.6,intron_variant,,ENST00000577660,;SMG8,intron_variant,,ENST00000580498,;SMG8,stop_gained,p.Gln8Ter,ENST00000580798,;	T	ENSG00000167447	ENST00000543872	Transcript	stop_gained	1954	1690	564	Q/*	Cag/Tag	.	.	.	1	SMG8	HGNC	25551	protein_coding	YES	CCDS11615.1	ENSP00000438748	SMG8_HUMAN	.	UPI000006CCB5	.	.	.	2/5	.	hmmpanther:PTHR13091,hmmpanther:PTHR13091:SF0,Pfam_domain:PF10220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCAGCTC	.	5	BLCA
CLTC	0	.	GRCh37	17	57760510	57760510	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3928G>C	p.Glu1310Gln	p.E1310Q	ENST00000269122	25/32	130	112	17	116	116	0	CLTC,missense_variant,p.Glu1310Gln,ENST00000269122,;CLTC,missense_variant,p.Glu1310Gln,ENST00000393043,;CLTC,missense_variant,p.Glu247Gln,ENST00000579456,;CLTC,upstream_gene_variant,,ENST00000475458,;CLTC,upstream_gene_variant,,ENST00000472651,;PTRH2,intron_variant,,ENST00000587935,;CLTC,upstream_gene_variant,,ENST00000496076,;	C	ENSG00000141367	ENST00000269122	Transcript	missense_variant	4202	3928	1310	E/Q	Gag/Cag	.	.	.	1	CLTC	HGNC	2092	protein_coding	YES	CCDS32696.1	ENSP00000269122	CLH1_HUMAN	Q49AL0_HUMAN	UPI0000127ABD	.	deleterious(0.02)	probably_damaging(1)	25/32	.	PROSITE_profiles:PS50236,hmmpanther:PTHR10292:SF7,hmmpanther:PTHR10292,Gene3D:1.25.40.10,Pfam_domain:PF00637,PIRSF_domain:PIRSF002290,SMART_domains:SM00299,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTTGAGCGA	.	4	BLCA
CA4	0	.	GRCh37	17	58235781	58235781	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718G>A	p.Glu240Lys	p.E240K	ENST00000300900	7/8	40	29	10	23	23	0	CA4,missense_variant,p.Glu54Lys,ENST00000587265,;CA4,missense_variant,p.Glu240Lys,ENST00000300900,;CA4,missense_variant,p.Glu112Lys,ENST00000590203,;CA4,downstream_gene_variant,,ENST00000591725,;CA4,3_prime_UTR_variant,,ENST00000586876,;CA4,downstream_gene_variant,,ENST00000585705,;	A	ENSG00000167434	ENST00000300900	Transcript	missense_variant	817	718	240	E/K	Gag/Aag	.	.	.	1	CA4	HGNC	1375	protein_coding	YES	CCDS11624.1	ENSP00000300900	CAH4_HUMAN	Q6FHI7_HUMAN,K7ENI8_HUMAN	UPI000004EC91	.	tolerated(0.44)	benign(0.377)	7/8	.	Superfamily_domains:SSF51069,SMART_domains:SM01057,Gene3D:3.10.200.10,Pfam_domain:PF00194,hmmpanther:PTHR18952,hmmpanther:PTHR18952:SF95,PROSITE_profiles:PS51144	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGGGAGCCC	.	5	BLCA
C17orf64	0	.	GRCh37	17	58511134	58511134	+	3'Flank	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000269127	.	72	62	9	56	56	0	C17orf64,downstream_gene_variant,,ENST00000269127,;RPL12P38,non_coding_transcript_exon_variant,,ENST00000588627,;RPL12P38,non_coding_transcript_exon_variant,,ENST00000471280,;	A	ENSG00000141371	ENST00000269127	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	2352	1	C17orf64	HGNC	26990	protein_coding	YES	CCDS32698.2	ENSP00000269127	CQ064_HUMAN	K7EQ24_HUMAN	UPI0000161125	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGTCATGAG	.	4	BLCA
MRC2	0	.	GRCh37	17	60769597	60769597	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4225C>T	p.Pro1409Ser	p.P1409S	ENST00000303375	30/30	23	19	3	26	26	0	MRC2,missense_variant,p.Pro275Ser,ENST00000446119,;MRC2,missense_variant,p.Pro1409Ser,ENST00000303375,;MRC2,downstream_gene_variant,,ENST00000580916,;MRC2,non_coding_transcript_exon_variant,,ENST00000583597,;	T	ENSG00000011028	ENST00000303375	Transcript	missense_variant	4627	4225	1409	P/S	Cca/Tca	.	.	.	1	MRC2	HGNC	16875	protein_coding	YES	CCDS11634.1	ENSP00000307513	MRC2_HUMAN	J3QQZ6_HUMAN	UPI000013E895	.	tolerated(0.81)	benign(0.011)	30/30	.	hmmpanther:PTHR22803:SF69,hmmpanther:PTHR22803	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGCTTCCAGAG	.	3	BLCA
TANC2	0	.	GRCh37	17	61499156	61499156	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5813T>A	p.Val1938Asp	p.V1938D	ENST00000424789	25/25	87	75	12	59	59	0	TANC2,missense_variant,p.Val1948Asp,ENST00000389520,;TANC2,missense_variant,p.Val1938Asp,ENST00000424789,;TANC2,3_prime_UTR_variant,,ENST00000583356,;RP11-269G24.3,intron_variant,,ENST00000583552,;	A	ENSG00000170921	ENST00000424789	Transcript	missense_variant	5817	5813	1938	V/D	gTc/gAc	.	.	.	1	TANC2	HGNC	30212	protein_coding	YES	CCDS45754.1	ENSP00000387593	TANC2_HUMAN	.	UPI00015D57DF	.	deleterious_low_confidence(0.01)	possibly_damaging(0.879)	25/25	.	hmmpanther:PTHR24166:SF21,hmmpanther:PTHR24166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGAGTCAGCC	.	4	BLCA
TEX2	0	.	GRCh37	17	62270958	62270958	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2137G>A	p.Glu713Lys	p.E713K	ENST00000258991	4/12	181	151	29	161	161	0	TEX2,missense_variant,p.Glu713Lys,ENST00000584379,;TEX2,missense_variant,p.Glu713Lys,ENST00000258991,;TEX2,missense_variant,p.Glu713Lys,ENST00000583097,;TEX2,missense_variant,p.Glu214Lys,ENST00000583501,;	T	ENSG00000136478	ENST00000258991	Transcript	missense_variant	2222	2137	713	E/K	Gaa/Aaa	.	.	.	-1	TEX2	HGNC	30884	protein_coding	YES	CCDS11658.1	ENSP00000258991	TEX2_HUMAN	Q9NX99_HUMAN,J3QKY0_HUMAN,J3KRY2_HUMAN	UPI00001AE7BC	.	tolerated(0.1)	benign(0.061)	4/12	.	hmmpanther:PTHR13466,hmmpanther:PTHR13466:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTCCGACT	.	4	BLCA
CACNG4	0	.	GRCh37	17	64961105	64961105	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78C>T	p.%3D	p.I26I	ENST00000262138	1/4	38	25	13	20	20	0	CACNG4,synonymous_variant,p.%3D,ENST00000262138,;	T	ENSG00000075461	ENST00000262138	Transcript	synonymous_variant	80	78	26	I	atC/atT	.	.	.	1	CACNG4	HGNC	1408	protein_coding	YES	CCDS11667.1	ENSP00000262138	CCG4_HUMAN	.	UPI0000001649	.	.	.	1/4	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12107,hmmpanther:PTHR12107:SF7,Pfam_domain:PF00822,Prints_domain:PR01792	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCATCGCCAT	.	4	BLCA
ABCA10	0	.	GRCh37	17	67144872	67144872	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*96G>C	.	.	ENST00000269081	40/40	18	15	3	10	10	0	ABCA10,3_prime_UTR_variant,,ENST00000416101,;ABCA10,3_prime_UTR_variant,,ENST00000269081,;ABCA10,intron_variant,,ENST00000522787,;ABCA10,intron_variant,,ENST00000521538,;ABCA10,non_coding_transcript_exon_variant,,ENST00000519732,;ABCA10,3_prime_UTR_variant,,ENST00000523419,;ABCA10,3_prime_UTR_variant,,ENST00000522406,;ABCA10,3_prime_UTR_variant,,ENST00000518929,;ABCA10,non_coding_transcript_exon_variant,,ENST00000524231,;ABCA10,downstream_gene_variant,,ENST00000588514,;	G	ENSG00000154263	ENST00000269081	Transcript	3_prime_UTR_variant	5638	.	.	.	.	.	.	.	-1	ABCA10	HGNC	30	protein_coding	YES	CCDS11684.1	ENSP00000269081	ABCAA_HUMAN	K7ERP5_HUMAN	UPI000013D7F6	.	.	.	40/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTTCTTTTG	.	2	BLCA
GLOD4	0	.	GRCh37	17	681910	681910	+	Intron	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140+25C>G	.	.	ENST00000301329	.	67	56	10	45	45	0	GLOD4,missense_variant,p.Ser22Cys,ENST00000536578,;GLOD4,intron_variant,,ENST00000301329,;GLOD4,intron_variant,,ENST00000301328,;GLOD4,intron_variant,,ENST00000576419,;RNMTL1,upstream_gene_variant,,ENST00000571157,;RNMTL1,upstream_gene_variant,,ENST00000304478,;GLOD4,missense_variant,p.Ile55Met,ENST00000575790,;GLOD4,3_prime_UTR_variant,,ENST00000576670,;GLOD4,3_prime_UTR_variant,,ENST00000574554,;GLOD4,non_coding_transcript_exon_variant,,ENST00000574354,;GLOD4,non_coding_transcript_exon_variant,,ENST00000576750,;GLOD4,intron_variant,,ENST00000574581,;GLOD4,intron_variant,,ENST00000575851,;GLOD4,intron_variant,,ENST00000572220,;GLOD4,intron_variant,,ENST00000576239,;RNMTL1,upstream_gene_variant,,ENST00000574509,;RNMTL1,upstream_gene_variant,,ENST00000574916,;GLOD4,upstream_gene_variant,,ENST00000571073,;	C	ENSG00000167699	ENST00000301329	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	GLOD4	HGNC	14111	protein_coding	YES	CCDS32520.1	ENSP00000301329	GLOD4_HUMAN	B4DX01_HUMAN,B3KV49_HUMAN	UPI000003CA3C	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGAGATTTT	.	4	BLCA
DLG4	0	.	GRCh37	17	7096312	7096312	+	Silent	SNP	G	G	A	rs755899483	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1947C>T	p.%3D	p.S649S	ENST00000399510	19/22	45	38	7	36	36	0	DLG4,synonymous_variant,p.%3D,ENST00000399506,;DLG4,synonymous_variant,p.%3D,ENST00000302955,;DLG4,synonymous_variant,p.%3D,ENST00000399510,;DLG4,synonymous_variant,p.%3D,ENST00000491753,;DLG4,upstream_gene_variant,,ENST00000489885,;	A	ENSG00000132535	ENST00000399510	Transcript	synonymous_variant	2800	1947	649	S	agC/agT	rs755899483	.	.	-1	DLG4	HGNC	2903	protein_coding	YES	CCDS45599.1	ENSP00000382428	DLG4_HUMAN	Q3ZCU5_HUMAN,K7EKU8_HUMAN,K7EKP9_HUMAN,B9EGL1_HUMAN,B7Z647_HUMAN	UPI0000048D63	.	.	.	19/22	.	PROSITE_profiles:PS50052,hmmpanther:PTHR23119:SF4,hmmpanther:PTHR23119,Gene3D:3.30.63.10,Pfam_domain:PF00625,SMART_domains:SM00072,PIRSF_domain:PIRSF001741,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGTGGCTGTT	.	2	BLCA
NEURL4	0	.	GRCh37	17	7230258	7230258	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.864G>A	p.%3D	p.L288L	ENST00000399464	4/29	110	100	10	126	126	0	NEURL4,synonymous_variant,p.%3D,ENST00000570460,;NEURL4,synonymous_variant,p.%3D,ENST00000571887,;NEURL4,synonymous_variant,p.%3D,ENST00000399464,;NEURL4,synonymous_variant,p.%3D,ENST00000315614,;NEURL4,intron_variant,,ENST00000573186,;NEURL4,upstream_gene_variant,,ENST00000576485,;NEURL4,upstream_gene_variant,,ENST00000571508,;NEURL4,upstream_gene_variant,,ENST00000576966,;NEURL4,upstream_gene_variant,,ENST00000571243,;NEURL4,upstream_gene_variant,,ENST00000573651,;AC026954.6,upstream_gene_variant,,ENST00000429771,;	T	ENSG00000215041	ENST00000399464	Transcript	synonymous_variant	880	864	288	L	ctG/ctA	.	.	.	-1	NEURL4	HGNC	34410	protein_coding	YES	CCDS42251.1	ENSP00000382390	NEUL4_HUMAN	.	UPI000020081C	.	.	.	4/29	.	hmmpanther:PTHR12429:SF2,hmmpanther:PTHR12429	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACATTCAGGAG	.	3	BLCA
USH1G	0	.	GRCh37	17	72915738	72915738	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1193C>G	p.Ser398Cys	p.S398C	ENST00000319642	2/3	72	64	8	53	53	0	USH1G,missense_variant,p.Ser398Cys,ENST00000319642,;OTOP2,upstream_gene_variant,,ENST00000580223,;OTOP2,upstream_gene_variant,,ENST00000331427,;USH1G,3_prime_UTR_variant,,ENST00000579243,;OTOP2,upstream_gene_variant,,ENST00000584711,;	C	ENSG00000182040	ENST00000319642	Transcript	missense_variant	1376	1193	398	S/C	tCt/tGt	.	.	.	-1	USH1G	HGNC	16356	protein_coding	YES	CCDS32725.1	ENSP00000320076	USH1G_HUMAN	.	UPI00001BC010	.	deleterious(0.04)	benign(0.037)	2/3	.	Pfam_domain:PF00536,Gene3D:1.10.150.50,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGAGAGGCC	.	4	BLCA
WBP2	0	.	GRCh37	17	73847741	73847741	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>C	p.Asp26His	p.D26H	ENST00000591399	3/9	169	148	21	176	176	0	WBP2,missense_variant,p.Asp26His,ENST00000433525,;WBP2,missense_variant,p.Asp26His,ENST00000590221,;WBP2,missense_variant,p.Asp26His,ENST00000591399,;WBP2,missense_variant,p.Asp26His,ENST00000254806,;WBP2,missense_variant,p.Asp4His,ENST00000585462,;WBP2,missense_variant,p.Asp4His,ENST00000593002,;WBP2,missense_variant,p.Asp4His,ENST00000344296,;WBP2,intron_variant,,ENST00000589642,;WBP2,intron_variant,,ENST00000587374,;WBP2,upstream_gene_variant,,ENST00000586257,;WBP2,non_coding_transcript_exon_variant,,ENST00000590450,;WBP2,missense_variant,p.Asp26His,ENST00000591831,;WBP2,3_prime_UTR_variant,,ENST00000588373,;WBP2,non_coding_transcript_exon_variant,,ENST00000589241,;WBP2,non_coding_transcript_exon_variant,,ENST00000592802,;WBP2,non_coding_transcript_exon_variant,,ENST00000587642,;WBP2,non_coding_transcript_exon_variant,,ENST00000589834,;WBP2,non_coding_transcript_exon_variant,,ENST00000416574,;WBP2,upstream_gene_variant,,ENST00000589236,;	G	ENSG00000132471	ENST00000591399	Transcript	missense_variant	501	76	26	D/H	Gat/Cat	.	.	.	-1	WBP2	HGNC	12738	protein_coding	YES	CCDS11731.1	ENSP00000467579	WBP2_HUMAN	K7ESN4_HUMAN,K7EIJ0_HUMAN,A6NG10_HUMAN	UPI0000138EBB	.	deleterious(0.03)	possibly_damaging(0.757)	3/9	.	hmmpanther:PTHR31606:SF4,hmmpanther:PTHR31606,Pfam_domain:PF02893,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGATCATAGG	.	4	BLCA
SENP3	0	.	GRCh37	17	7476125	7476125	+	3'Flank	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000429205	.	171	146	25	174	174	0	SENP3,downstream_gene_variant,,ENST00000321337,;EIF4A1,upstream_gene_variant,,ENST00000584784,;EIF4A1,upstream_gene_variant,,ENST00000583802,;EIF4A1,upstream_gene_variant,,ENST00000581384,;EIF4A1,upstream_gene_variant,,ENST00000585024,;SENP3,downstream_gene_variant,,ENST00000582789,;EIF4A1,upstream_gene_variant,,ENST00000577929,;SENP3,downstream_gene_variant,,ENST00000581093,;EIF4A1,upstream_gene_variant,,ENST00000380512,;EIF4A1,upstream_gene_variant,,ENST00000584860,;SENP3,downstream_gene_variant,,ENST00000580231,;EIF4A1,upstream_gene_variant,,ENST00000582169,;EIF4A1,upstream_gene_variant,,ENST00000578495,;EIF4A1,upstream_gene_variant,,ENST00000578754,;SENP3,downstream_gene_variant,,ENST00000429205,;EIF4A1,upstream_gene_variant,,ENST00000582746,;EIF4A1,upstream_gene_variant,,ENST00000293831,;EIF4A1,upstream_gene_variant,,ENST00000581770,;EIF4A1,upstream_gene_variant,,ENST00000583389,;EIF4A1,upstream_gene_variant,,ENST00000577269,;SNORD10,upstream_gene_variant,,ENST00000459579,;SNORA48,upstream_gene_variant,,ENST00000386847,;SENP3-EIF4A1,non_coding_transcript_exon_variant,,ENST00000579777,;EIF4A1,upstream_gene_variant,,ENST00000581808,;SENP3,downstream_gene_variant,,ENST00000578813,;SENP3,downstream_gene_variant,,ENST00000578868,;SENP3,downstream_gene_variant,,ENST00000580042,;SNORA67,upstream_gene_variant,,ENST00000581621,;EIF4A1,synonymous_variant,p.%3D,ENST00000580888,;EIF4A1,upstream_gene_variant,,ENST00000584798,;EIF4A1,upstream_gene_variant,,ENST00000577738,;EIF4A1,upstream_gene_variant,,ENST00000582213,;EIF4A1,upstream_gene_variant,,ENST00000578476,;EIF4A1,upstream_gene_variant,,ENST00000583217,;EIF4A1,upstream_gene_variant,,ENST00000582848,;EIF4A1,upstream_gene_variant,,ENST00000580886,;EIF4A1,upstream_gene_variant,,ENST00000577731,;EIF4A1,upstream_gene_variant,,ENST00000584054,;EIF4A1,upstream_gene_variant,,ENST00000580461,;EIF4A1,upstream_gene_variant,,ENST00000578324,;EIF4A1,upstream_gene_variant,,ENST00000584712,;EIF4A1,upstream_gene_variant,,ENST00000581841,;SENP3,downstream_gene_variant,,ENST00000581010,;EIF4A1,upstream_gene_variant,,ENST00000396527,;EIF4A1,upstream_gene_variant,,ENST00000584901,;EIF4A1,upstream_gene_variant,,ENST00000581544,;EIF4A1,upstream_gene_variant,,ENST00000579085,;EIF4A1,upstream_gene_variant,,ENST00000578569,;EIF4A1,upstream_gene_variant,,ENST00000579139,;EIF4A1,upstream_gene_variant,,ENST00000582050,;EIF4A1,upstream_gene_variant,,ENST00000583899,;	C	ENSG00000161956	ENST00000429205	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	838	1	SENP3	HGNC	17862	protein_coding	YES	.	ENSP00000403712	SENP3_HUMAN	.	UPI0000163BE7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTCGATAGG	.	4	BLCA
EIF4A1	0	.	GRCh37	17	7480706	7480706	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669G>A	p.%3D	p.V223V	ENST00000293831	7/11	116	104	12	87	87	0	EIF4A1,synonymous_variant,p.%3D,ENST00000584860,;EIF4A1,synonymous_variant,p.%3D,ENST00000578495,;EIF4A1,synonymous_variant,p.%3D,ENST00000578754,;EIF4A1,synonymous_variant,p.%3D,ENST00000582746,;EIF4A1,synonymous_variant,p.%3D,ENST00000293831,;EIF4A1,synonymous_variant,p.%3D,ENST00000583389,;EIF4A1,synonymous_variant,p.%3D,ENST00000577269,;EIF4A1,intron_variant,,ENST00000584784,;CD68,upstream_gene_variant,,ENST00000380498,;EIF4A1,downstream_gene_variant,,ENST00000583802,;EIF4A1,downstream_gene_variant,,ENST00000581384,;EIF4A1,downstream_gene_variant,,ENST00000585024,;CD68,upstream_gene_variant,,ENST00000584180,;EIF4A1,downstream_gene_variant,,ENST00000380512,;EIF4A1,downstream_gene_variant,,ENST00000577929,;EIF4A1,downstream_gene_variant,,ENST00000582169,;CD68,upstream_gene_variant,,ENST00000250092,;CD68,upstream_gene_variant,,ENST00000584502,;EIF4A1,downstream_gene_variant,,ENST00000581770,;SNORD10,downstream_gene_variant,,ENST00000459579,;SNORA48,downstream_gene_variant,,ENST00000386847,;SNORA67,upstream_gene_variant,,ENST00000384423,;AC113189.5,downstream_gene_variant,,ENST00000417897,;AC113189.5,downstream_gene_variant,,ENST00000572046,;AC113189.5,downstream_gene_variant,,ENST00000415124,;SENP3-EIF4A1,non_coding_transcript_exon_variant,,ENST00000579777,;SNORA67,non_coding_transcript_exon_variant,,ENST00000581621,;EIF4A1,upstream_gene_variant,,ENST00000581808,;EIF4A1,3_prime_UTR_variant,,ENST00000581544,;EIF4A1,non_coding_transcript_exon_variant,,ENST00000583217,;EIF4A1,non_coding_transcript_exon_variant,,ENST00000577731,;EIF4A1,non_coding_transcript_exon_variant,,ENST00000578324,;EIF4A1,non_coding_transcript_exon_variant,,ENST00000396527,;EIF4A1,non_coding_transcript_exon_variant,,ENST00000578569,;EIF4A1,downstream_gene_variant,,ENST00000584798,;EIF4A1,downstream_gene_variant,,ENST00000577738,;EIF4A1,downstream_gene_variant,,ENST00000582213,;EIF4A1,downstream_gene_variant,,ENST00000580888,;EIF4A1,downstream_gene_variant,,ENST00000578476,;EIF4A1,downstream_gene_variant,,ENST00000582848,;EIF4A1,downstream_gene_variant,,ENST00000580886,;EIF4A1,downstream_gene_variant,,ENST00000584054,;EIF4A1,downstream_gene_variant,,ENST00000580461,;EIF4A1,downstream_gene_variant,,ENST00000584712,;EIF4A1,upstream_gene_variant,,ENST00000581841,;EIF4A1,downstream_gene_variant,,ENST00000584901,;EIF4A1,downstream_gene_variant,,ENST00000579085,;EIF4A1,downstream_gene_variant,,ENST00000579139,;EIF4A1,upstream_gene_variant,,ENST00000582050,;EIF4A1,downstream_gene_variant,,ENST00000583899,;	A	ENSG00000161960	ENST00000293831	Transcript	synonymous_variant	685	669	223	V	gtG/gtA	.	.	.	1	EIF4A1	HGNC	3282	protein_coding	YES	CCDS11113.1	ENSP00000293831	IF4A1_HUMAN	J3QLN6_HUMAN,J3QKZ9_HUMAN,J3KTN0_HUMAN,J3KTB5_HUMAN,J3KS93_HUMAN,B4DNH2_HUMAN	UPI000000411B	.	.	.	7/11	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF221,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGGTGACCAA	.	3	BLCA
MGAT5B	0	.	GRCh37	17	74902216	74902216	+	Silent	SNP	C	C	G	rs143464770	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1005C>G	p.%3D	p.L335L	ENST00000428789	7/16	46	39	7	34	34	0	MGAT5B,synonymous_variant,p.%3D,ENST00000428789,;MGAT5B,synonymous_variant,p.%3D,ENST00000569840,;MGAT5B,synonymous_variant,p.%3D,ENST00000301618,;MGAT5B,non_coding_transcript_exon_variant,,ENST00000374998,;MGAT5B,synonymous_variant,p.%3D,ENST00000565043,;	G	ENSG00000167889	ENST00000428789	Transcript	synonymous_variant	1108	1005	335	L	ctC/ctG	rs143464770	.	.	1	MGAT5B	HGNC	24140	protein_coding	YES	CCDS45788.1	ENSP00000391227	MGT5B_HUMAN	.	UPI0000231C88	.	.	.	7/16	.	hmmpanther:PTHR15075:SF4,hmmpanther:PTHR15075,Pfam_domain:PF15024	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0014	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACTCTATGT	byCluster|by1000G	4	BLCA
USP36	0	.	GRCh37	17	76832305	76832305	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141G>C	p.Lys47Asn	p.K47N	ENST00000542802	3/21	66	49	16	56	56	0	USP36,missense_variant,p.Lys47Asn,ENST00000588365,;USP36,missense_variant,p.Lys47Asn,ENST00000592275,;USP36,missense_variant,p.Lys47Asn,ENST00000542802,;USP36,missense_variant,p.Lys47Asn,ENST00000587783,;USP36,missense_variant,p.Lys47Asn,ENST00000312010,;USP36,missense_variant,p.Lys47Asn,ENST00000586896,;USP36,missense_variant,p.Lys47Asn,ENST00000589424,;USP36,missense_variant,p.Lys47Asn,ENST00000586531,;USP36,missense_variant,p.Lys47Asn,ENST00000590546,;USP36,missense_variant,p.Lys47Asn,ENST00000589225,;USP36,missense_variant,p.Lys47Asn,ENST00000588086,;USP36,non_coding_transcript_exon_variant,,ENST00000592907,;USP36,intron_variant,,ENST00000591942,;	G	ENSG00000055483	ENST00000542802	Transcript	missense_variant	585	141	47	K/N	aaG/aaC	.	.	.	-1	USP36	HGNC	20062	protein_coding	YES	CCDS32755.1	ENSP00000441214	UBP36_HUMAN	K7ERC1_HUMAN,K7EQS0_HUMAN,K7EPT1_HUMAN,K7ELT3_HUMAN,K7EJI3_HUMAN	UPI00000398BB	.	deleterious(0)	probably_damaging(0.913)	3/21	.	hmmpanther:PTHR24006:SF409,hmmpanther:PTHR24006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTTGCT	.	5	BLCA
KDM6B	0	.	GRCh37	17	7749991	7749991	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.644C>T	p.Ser215Leu	p.S215L	ENST00000254846	8/22	94	75	18	72	72	0	KDM6B,missense_variant,p.Ser215Leu,ENST00000448097,;KDM6B,missense_variant,p.Ser215Leu,ENST00000570632,;KDM6B,missense_variant,p.Ser215Leu,ENST00000254846,;KDM6B,downstream_gene_variant,,ENST00000575521,;KDM6B,downstream_gene_variant,,ENST00000571047,;	T	ENSG00000132510	ENST00000254846	Transcript	missense_variant	1033	644	215	S/L	tCa/tTa	COSM1303429	.	.	1	KDM6B	HGNC	29012	protein_coding	YES	CCDS32552.1	ENSP00000254846	KDM6B_HUMAN	D3DTQ7_HUMAN	UPI00006C175B	.	.	unknown(0)	8/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14017,hmmpanther:PTHR14017:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCAGGCC	.	5	BLCA
RNF213	0	.	GRCh37	17	78280188	78280188	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2347C>T	p.Arg783Cys	p.R783C	ENST00000582970	12/68	173	141	32	124	124	0	RNF213,missense_variant,p.Arg783Cys,ENST00000582970,;RNF213,missense_variant,p.Arg783Cys,ENST00000319921,;RNF213,missense_variant,p.Arg783Cys,ENST00000456466,;RNF213,missense_variant,p.Arg832Cys,ENST00000508628,;RNF213,non_coding_transcript_exon_variant,,ENST00000559070,;	T	ENSG00000173821	ENST00000582970	Transcript	missense_variant	2490	2347	783	R/C	Cgt/Tgt	COSM3523370,COSM3523371,COSM3523372	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	benign(0.238)	12/68	.	hmmpanther:PTHR22605,hmmpanther:PTHR22605:SF5	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGTCGTTTT	.	5	BLCA
RNF213	0	.	GRCh37	17	78336962	78336962	+	Missense_Mutation	SNP	G	G	A	rs756638485	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11416G>A	p.Glu3806Lys	p.E3806K	ENST00000582970	40/68	99	88	10	91	91	0	RNF213,missense_variant,p.Glu1879Lys,ENST00000336301,;RNF213,missense_variant,p.Glu3806Lys,ENST00000582970,;RNF213,missense_variant,p.Glu3855Lys,ENST00000508628,;CTD-2047H16.4,intron_variant,,ENST00000572151,;CTD-2047H16.4,intron_variant,,ENST00000575034,;RNF213,non_coding_transcript_exon_variant,,ENST00000558116,;RNF213,upstream_gene_variant,,ENST00000558488,;RNF213,upstream_gene_variant,,ENST00000559603,;RNF213,downstream_gene_variant,,ENST00000560694,;	A	ENSG00000173821	ENST00000582970	Transcript	missense_variant	11559	11416	3806	E/K	Gag/Aag	rs756638485	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	benign(0.306)	40/68	.	hmmpanther:PTHR22605,hmmpanther:PTHR22605:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCCGAGGAA	.	4	BLCA
FASN	0	.	GRCh37	17	80048886	80048886	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1552G>T	p.Asp518Tyr	p.D518Y	ENST00000306749	10/43	54	45	9	38	38	0	FASN,missense_variant,p.Asp518Tyr,ENST00000306749,;	A	ENSG00000169710	ENST00000306749	Transcript	missense_variant	1771	1552	518	D/Y	Gat/Tat	.	.	.	-1	FASN	HGNC	3594	protein_coding	YES	CCDS11801.1	ENSP00000304592	FAS_HUMAN	.	UPI000013EB82	.	deleterious(0.01)	possibly_damaging(0.893)	10/43	.	hmmpanther:PTHR11712,hmmpanther:PTHR11712:SF227,Gene3D:3.40.366.10,Pfam_domain:PF00698,SMART_domains:SM00827,Superfamily_domains:SSF52151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATCTCGGA	.	5	BLCA
CCDC57	0	.	GRCh37	17	80159550	80159550	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>A	p.Glu91Lys	p.E91K	ENST00000392343	3/15	107	92	15	69	69	0	CCDC57,missense_variant,p.Glu91Lys,ENST00000389641,;CCDC57,missense_variant,p.Glu91Lys,ENST00000392343,;CCDC57,missense_variant,p.Glu91Lys,ENST00000392347,;CCDC57,upstream_gene_variant,,ENST00000581625,;CCDC57,upstream_gene_variant,,ENST00000578910,;	T	ENSG00000176155	ENST00000392343	Transcript	missense_variant	626	271	91	E/K	Gag/Aag	COSM1741848,COSM1741847	.	.	-1	CCDC57	HGNC	27564	protein_coding	YES	.	ENSP00000376154	CCD57_HUMAN	.	UPI000022A20F	.	deleterious(0)	probably_damaging(0.985)	3/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23161:SF1,hmmpanther:PTHR23161	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTCTGCCC	.	4	BLCA
ZNF750	0	.	GRCh37	17	80789280	80789280	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1051G>C	p.Glu351Gln	p.E351Q	ENST00000269394	2/3	186	165	21	159	159	0	ZNF750,missense_variant,p.Glu351Gln,ENST00000269394,;ZNF750,5_prime_UTR_variant,,ENST00000572562,;TBCD,intron_variant,,ENST00000539345,;TBCD,intron_variant,,ENST00000397466,;TBCD,intron_variant,,ENST00000355528,;	G	ENSG00000141579	ENST00000269394	Transcript	missense_variant	1885	1051	351	E/Q	Gaa/Caa	.	.	.	-1	ZNF750	HGNC	25843	protein_coding	YES	CCDS11819.1	ENSP00000269394	ZN750_HUMAN	I3L0W7_HUMAN,B4DWV0_HUMAN	UPI000013D82D	.	deleterious(0.01)	possibly_damaging(0.892)	2/3	.	hmmpanther:PTHR14678:SF1,hmmpanther:PTHR14678	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCAAGCA	.	4	BLCA
ZNF750	0	.	GRCh37	17	80790114	80790115	+	Nonsense_Mutation	INS	-	-	GTCTA	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.212_216dupTAGAC	p.Pro73Ter	p.P73*	ENST00000269394	2/3	145	109	36	122	122	0	ZNF750,stop_gained,p.Pro73Ter,ENST00000269394,;TBCD,intron_variant,,ENST00000539345,;TBCD,intron_variant,,ENST00000397466,;ZNF750,intron_variant,,ENST00000572562,;TBCD,intron_variant,,ENST00000355528,;	GTCTA	ENSG00000141579	ENST00000269394	Transcript	stop_gained	1050-1051	216-217	72-73	-/*	-/TAGAC	.	.	.	-1	ZNF750	HGNC	25843	protein_coding	YES	CCDS11819.1	ENSP00000269394	ZN750_HUMAN	I3L0W7_HUMAN,B4DWV0_HUMAN	UPI000013D82D	.	.	.	2/3	.	hmmpanther:PTHR14678:SF1,hmmpanther:PTHR14678	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTTGGGGTCTA	.	2	BLCA
NDEL1	0	.	GRCh37	17	8351882	8351882	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.404C>T	p.Ser135Leu	p.S135L	ENST00000334527	5/9	64	53	11	63	63	0	NDEL1,missense_variant,p.Ser135Leu,ENST00000299734,;NDEL1,missense_variant,p.Ser135Leu,ENST00000582665,;NDEL1,missense_variant,p.Ser135Leu,ENST00000402554,;NDEL1,missense_variant,p.Ser135Leu,ENST00000380025,;NDEL1,missense_variant,p.Ser135Leu,ENST00000334527,;NDEL1,missense_variant,p.Ser135Leu,ENST00000582812,;NDEL1,intron_variant,,ENST00000585098,;NDEL1,downstream_gene_variant,,ENST00000580012,;NDEL1,downstream_gene_variant,,ENST00000582490,;NDEL1,upstream_gene_variant,,ENST00000582277,;NDEL1,upstream_gene_variant,,ENST00000581679,;NDEL1,downstream_gene_variant,,ENST00000584866,;NDEL1,non_coding_transcript_exon_variant,,ENST00000581189,;NDEL1,downstream_gene_variant,,ENST00000583066,;NDEL1,downstream_gene_variant,,ENST00000579880,;NDEL1,downstream_gene_variant,,ENST00000580237,;NDEL1,downstream_gene_variant,,ENST00000580738,;	T	ENSG00000166579	ENST00000334527	Transcript	missense_variant	601	404	135	S/L	tCa/tTa	.	.	.	1	NDEL1	HGNC	17620	protein_coding	YES	CCDS11143.1	ENSP00000333982	NDEL1_HUMAN	J3QL85_HUMAN,J3QL31_HUMAN,J3KT16_HUMAN,J3KSF2_HUMAN,J3KRK9_HUMAN,B4DS41_HUMAN	UPI000000D76C	.	deleterious(0)	probably_damaging(0.999)	5/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10921,hmmpanther:PTHR10921:SF0,Pfam_domain:PF04880	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCACTGG	.	5	BLCA
MYH10	0	.	GRCh37	17	8380343	8380343	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5730G>A	p.Met1910Ile	p.M1910I	ENST00000360416	42/43	89	80	9	78	78	0	MYH10,missense_variant,p.Met1900Ile,ENST00000396239,;MYH10,missense_variant,p.Met1879Ile,ENST00000269243,;MYH10,missense_variant,p.Met1895Ile,ENST00000379980,;MYH10,missense_variant,p.Met1910Ile,ENST00000360416,;NDEL1,intron_variant,,ENST00000299734,;NDEL1,intron_variant,,ENST00000581679,;MYH10,downstream_gene_variant,,ENST00000476737,;	T	ENSG00000133026	ENST00000360416	Transcript	missense_variant	5869	5730	1910	M/I	atG/atA	.	.	.	-1	MYH10	HGNC	7568	protein_coding	YES	CCDS58515.1	ENSP00000353590	MYH10_HUMAN	Q9UMG3_HUMAN,Q9UE82_HUMAN,Q9BWG0_HUMAN,G1UI33_HUMAN,E7ERA5_HUMAN,D3DTS1_HUMAN	UPI0000E24926	.	.	benign(0.071)	42/43	.	Pfam_domain:PF01576,hmmpanther:PTHR13140:SF328,hmmpanther:PTHR13140,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTCATCCG	.	4	BLCA
MFSD6L	0	.	GRCh37	17	8701637	8701637	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.802G>C	p.Asp268His	p.D268H	ENST00000329805	1/1	115	99	16	93	93	0	MFSD6L,missense_variant,p.Asp268His,ENST00000329805,;PIK3R6,downstream_gene_variant,,ENST00000311434,;PIK3R6,downstream_gene_variant,,ENST00000434064,;PIK3R6,downstream_gene_variant,,ENST00000452122,;PIK3R6,downstream_gene_variant,,ENST00000583984,;	G	ENSG00000185156	ENST00000329805	Transcript	missense_variant	1031	802	268	D/H	Gat/Cat	.	.	.	-1	MFSD6L	HGNC	26656	protein_coding	YES	CCDS11146.1	ENSP00000330051	MFS6L_HUMAN	.	UPI0000141B5F	.	deleterious(0)	probably_damaging(0.993)	1/1	.	hmmpanther:PTHR16172:SF22,hmmpanther:PTHR16172,Pfam_domain:PF13347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCATCTGCCA	.	4	BLCA
WDR16	0	.	GRCh37	17	9497616	9497616	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.514G>A	p.Glu172Lys	p.E172K	ENST00000352665	4/14	195	165	30	180	180	0	WDR16,missense_variant,p.Glu182Lys,ENST00000299764,;WDR16,missense_variant,p.Glu172Lys,ENST00000352665,;WDR16,missense_variant,p.Glu104Lys,ENST00000396219,;WDR16,3_prime_UTR_variant,,ENST00000576499,;WDR16,3_prime_UTR_variant,,ENST00000572333,;WDR16,3_prime_UTR_variant,,ENST00000575247,;WDR16,3_prime_UTR_variant,,ENST00000576630,;WDR16,non_coding_transcript_exon_variant,,ENST00000576320,;WDR16,intron_variant,,ENST00000574937,;RPL19P18,upstream_gene_variant,,ENST00000466869,;	A	ENSG00000166596	ENST00000352665	Transcript	missense_variant	583	514	172	E/K	Gag/Aag	.	.	.	1	WDR16	HGNC	16053	protein_coding	YES	CCDS11149.2	ENSP00000339449	WDR16_HUMAN	.	UPI00001AECC1	.	tolerated(0.26)	benign(0.269)	4/14	.	PROSITE_profiles:PS50294,hmmpanther:PTHR13720:SF14,hmmpanther:PTHR13720,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGATGAGATG	.	4	BLCA
PIEZO2	0	.	GRCh37	18	10696492	10696492	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6534C>T	p.%3D	p.L2178L	ENST00000503781	42/52	61	55	6	73	73	0	PIEZO2,synonymous_variant,p.%3D,ENST00000285141,;PIEZO2,synonymous_variant,p.%3D,ENST00000580640,;PIEZO2,synonymous_variant,p.%3D,ENST00000503781,;PIEZO2,synonymous_variant,p.%3D,ENST00000538948,;PIEZO2,synonymous_variant,p.%3D,ENST00000302079,;PIEZO2,3_prime_UTR_variant,,ENST00000582913,;	A	ENSG00000154864	ENST00000503781	Transcript	synonymous_variant	6534	6534	2178	L	ctC/ctT	.	.	.	-1	PIEZO2	HGNC	26270	protein_coding	YES	.	ENSP00000421377	PIEZ2_HUMAN	J3KSM7_HUMAN	UPI0001B3CB29	.	.	.	42/52	.	hmmpanther:PTHR13167,hmmpanther:PTHR13167:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATGAGGTT	.	4	BLCA
RIOK3	0	.	GRCh37	18	21057017	21057017	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1221C>T	p.%3D	p.L407L	ENST00000339486	10/13	75	67	8	63	63	0	RIOK3,synonymous_variant,p.%3D,ENST00000339486,;RIOK3,synonymous_variant,p.%3D,ENST00000577501,;RIOK3,synonymous_variant,p.%3D,ENST00000581585,;RIOK3,upstream_gene_variant,,ENST00000577250,;RIOK3,3_prime_UTR_variant,,ENST00000584130,;RIOK3,non_coding_transcript_exon_variant,,ENST00000581302,;RIOK3,non_coding_transcript_exon_variant,,ENST00000581339,;RIOK3,upstream_gene_variant,,ENST00000581220,;	T	ENSG00000101782	ENST00000339486	Transcript	synonymous_variant	1838	1221	407	L	ctC/ctT	.	.	.	1	RIOK3	HGNC	11451	protein_coding	YES	CCDS11877.1	ENSP00000341874	RIOK3_HUMAN	B0YJ89_HUMAN	UPI000013C732	.	.	.	10/13	.	hmmpanther:PTHR10593,hmmpanther:PTHR10593:SF22,PROSITE_patterns:PS01245,Pfam_domain:PF01163,Gene3D:1.10.510.10,PIRSF_domain:PIRSF038146,SMART_domains:SM00090,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTCAGTGA	.	4	BLCA
LAMA3	0	.	GRCh37	18	21500974	21500974	+	Missense_Mutation	SNP	G	G	C	rs771300319	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7999G>C	p.Glu2667Gln	p.E2667Q	ENST00000313654	61/75	70	60	10	53	53	0	LAMA3,missense_variant,p.Glu927Gln,ENST00000586751,;LAMA3,missense_variant,p.Glu1002Gln,ENST00000587184,;LAMA3,missense_variant,p.Glu2667Gln,ENST00000313654,;LAMA3,missense_variant,p.Glu1058Gln,ENST00000269217,;LAMA3,missense_variant,p.Glu2611Gln,ENST00000399516,;LAMA3,non_coding_transcript_exon_variant,,ENST00000588770,;	C	ENSG00000053747	ENST00000313654	Transcript	missense_variant	8240	7999	2667	E/Q	Gag/Cag	rs771300319	.	.	1	LAMA3	HGNC	6483	protein_coding	YES	CCDS42419.1	ENSP00000324532	LAMA3_HUMAN	B0YJ32_HUMAN	UPI00001C1222	.	.	benign(0.363)	61/75	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF259,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAAAGAGAGA	.	4	BLCA
LAMA3	0	.	GRCh37	18	21532955	21532955	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9738C>T	p.%3D	p.V3246V	ENST00000313654	74/75	88	76	12	65	65	0	LAMA3,synonymous_variant,p.%3D,ENST00000587184,;LAMA3,synonymous_variant,p.%3D,ENST00000313654,;LAMA3,synonymous_variant,p.%3D,ENST00000269217,;LAMA3,synonymous_variant,p.%3D,ENST00000399516,;LAMA3,intron_variant,,ENST00000588004,;RP11-403A21.1,downstream_gene_variant,,ENST00000582300,;LAMA3,splice_region_variant,,ENST00000588770,;	T	ENSG00000053747	ENST00000313654	Transcript	synonymous_variant	9979	9738	3246	V	gtC/gtT	.	.	.	1	LAMA3	HGNC	6483	protein_coding	YES	CCDS42419.1	ENSP00000324532	LAMA3_HUMAN	B0YJ32_HUMAN	UPI00001C1222	.	.	.	74/75	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF259,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGTCACCAT	.	4	BLCA
AQP4	0	.	GRCh37	18	24436234	24436234	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.913G>C	p.Asp305His	p.D305H	ENST00000383168	5/5	225	195	29	224	224	0	AQP4,missense_variant,p.Asp305His,ENST00000383168,;AQP4,missense_variant,p.Asp283His,ENST00000440832,;AQP4,missense_variant,p.Asp283His,ENST00000581374,;AQP4,downstream_gene_variant,,ENST00000578776,;AQP4-AS1,intron_variant,,ENST00000582605,;AQP4-AS1,intron_variant,,ENST00000579964,;AQP4,downstream_gene_variant,,ENST00000583022,;AQP4,downstream_gene_variant,,ENST00000383170,;AQP4,downstream_gene_variant,,ENST00000584088,;	G	ENSG00000171885	ENST00000383168	Transcript	missense_variant	1042	913	305	D/H	Gac/Cac	.	.	.	-1	AQP4	HGNC	637	protein_coding	YES	CCDS11889.1	ENSP00000372654	AQP4_HUMAN	F1DSG4_HUMAN,B4DHF5_HUMAN	UPI0000125D1F	.	tolerated_low_confidence(0.07)	benign(0.168)	5/5	.	hmmpanther:PTHR19139,hmmpanther:PTHR19139:SF34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGGTCAACGT	.	4	BLCA
SMCHD1	0	.	GRCh37	18	2656144	2656144	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.70G>A	p.Gly24Ser	p.G24S	ENST00000320876	1/48	17	12	5	9	9	0	SMCHD1,missense_variant,p.Gly24Ser,ENST00000320876,;SMCHD1,missense_variant,p.Gly24Ser,ENST00000261598,;CBX3P2,upstream_gene_variant,,ENST00000579647,;CBX3P2,upstream_gene_variant,,ENST00000583365,;CBX3P2,upstream_gene_variant,,ENST00000597101,;	A	ENSG00000101596	ENST00000320876	Transcript	missense_variant	408	70	24	G/S	Ggc/Agc	.	.	.	1	SMCHD1	HGNC	29090	protein_coding	YES	CCDS45822.1	ENSP00000326603	SMHD1_HUMAN	.	UPI00001D7AAD	.	tolerated_low_confidence(0.16)	benign(0.115)	1/48	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTCGGCCAC	.	5	BLCA
DSG1	0	.	GRCh37	18	28918318	28918318	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1306G>A	p.Asp436Asn	p.D436N	ENST00000257192	10/15	98	88	10	89	89	0	DSG1,missense_variant,p.Asp436Asn,ENST00000257192,;	A	ENSG00000134760	ENST00000257192	Transcript	missense_variant	1518	1306	436	D/N	Gat/Aat	.	.	.	1	DSG1	HGNC	3048	protein_coding	YES	CCDS11896.1	ENSP00000257192	DSG1_HUMAN	B7Z845_HUMAN	UPI000013CF4C	.	tolerated(0.43)	benign(0.011)	10/15	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24025:SF9,hmmpanther:PTHR24025,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGTTGATTCA	.	4	BLCA
EPG5	0	.	GRCh37	18	43496478	43496478	+	Silent	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3309C>A	p.%3D	p.V1103V	ENST00000282041	18/44	40	32	7	37	37	0	EPG5,synonymous_variant,p.%3D,ENST00000282041,;EPG5,non_coding_transcript_exon_variant,,ENST00000586655,;EPG5,non_coding_transcript_exon_variant,,ENST00000585906,;EPG5,non_coding_transcript_exon_variant,,ENST00000587974,;EPG5,upstream_gene_variant,,ENST00000587884,;EPG5,upstream_gene_variant,,ENST00000592272,;EPG5,upstream_gene_variant,,ENST00000590884,;	T	ENSG00000152223	ENST00000282041	Transcript	synonymous_variant	3344	3309	1103	V	gtC/gtA	.	.	.	-1	EPG5	HGNC	29331	protein_coding	YES	CCDS11926.2	ENSP00000282041	EPG5_HUMAN	Q9BYJ3_HUMAN,Q9BTI0_HUMAN	UPI00004F6F8A	.	.	.	18/44	.	hmmpanther:PTHR31139,hmmpanther:PTHR31139:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGTGACCTG	.	5	BLCA
DYM	0	.	GRCh37	18	46645272	46645272	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1588G>C	p.Glu530Gln	p.E530Q	ENST00000269445	15/17	89	80	9	61	61	0	DYM,missense_variant,p.Glu530Gln,ENST00000269445,;DYM,missense_variant,p.Glu340Gln,ENST00000442713,;RP11-15F12.3,intron_variant,,ENST00000585251,;DYM,upstream_gene_variant,,ENST00000583270,;	G	ENSG00000141627	ENST00000269445	Transcript	missense_variant	2046	1588	530	E/Q	Gaa/Caa	.	.	.	-1	DYM	HGNC	21317	protein_coding	YES	CCDS11937.1	ENSP00000269445	DYM_HUMAN	J3QRF2_HUMAN,J3QR81_HUMAN,J3KSF9_HUMAN,J3KRG4_HUMAN	UPI00001AE953	.	deleterious(0)	probably_damaging(1)	15/17	.	hmmpanther:PTHR12895:SF9,hmmpanther:PTHR12895,Pfam_domain:PF09742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R533*|c.1597C>T|6	RADIA|MUTECT|MUSE|VARSCANS	CACTTCTTCAA	.	4	BLCA
ALPK2	0	.	GRCh37	18	56203547	56203547	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3872C>G	p.Ser1291Cys	p.S1291C	ENST00000361673	5/13	150	129	21	128	128	0	ALPK2,missense_variant,p.Ser1291Cys,ENST00000361673,;RP11-1151B14.4,non_coding_transcript_exon_variant,,ENST00000591360,;ALPK2,downstream_gene_variant,,ENST00000587842,;ALPK2,non_coding_transcript_exon_variant,,ENST00000589204,;	C	ENSG00000198796	ENST00000361673	Transcript	missense_variant	4086	3872	1291	S/C	tCt/tGt	.	.	.	-1	ALPK2	HGNC	20565	protein_coding	YES	CCDS11966.2	ENSP00000354991	ALPK2_HUMAN	.	UPI000022A768	.	tolerated(0.09)	benign(0.007)	5/13	.	hmmpanther:PTHR14187,hmmpanther:PTHR14187:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCAGAGGGG	.	4	BLCA
RAX	0	.	GRCh37	18	56936174	56936174	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*62C>G	.	.	ENST00000334889	3/3	30	24	5	27	27	0	RAX,3_prime_UTR_variant,,ENST00000256852,;RAX,3_prime_UTR_variant,,ENST00000334889,;RAX,downstream_gene_variant,,ENST00000555288,;RAX,downstream_gene_variant,,ENST00000591550,;	C	ENSG00000134438	ENST00000334889	Transcript	3_prime_UTR_variant	1290	.	.	.	.	.	.	.	-1	RAX	HGNC	18662	protein_coding	YES	CCDS11972.1	ENSP00000334813	RX_HUMAN	G3V2C8_HUMAN	UPI000013CF2F	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGGAGAGAGG	.	3	BLCA
RAX	0	.	GRCh37	18	56936181	56936181	+	3'UTR	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*55A>T	.	.	ENST00000334889	3/3	37	29	8	30	30	0	RAX,3_prime_UTR_variant,,ENST00000256852,;RAX,3_prime_UTR_variant,,ENST00000334889,;RAX,downstream_gene_variant,,ENST00000555288,;RAX,downstream_gene_variant,,ENST00000591550,;	A	ENSG00000134438	ENST00000334889	Transcript	3_prime_UTR_variant	1283	.	.	.	.	.	.	.	-1	RAX	HGNC	18662	protein_coding	YES	CCDS11972.1	ENSP00000334813	RX_HUMAN	G3V2C8_HUMAN	UPI000013CF2F	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGGATGCGGG	.	3	BLCA
DSEL	0	.	GRCh37	18	65181271	65181271	+	Missense_Mutation	SNP	C	C	T	rs768456129	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.605G>A	p.Arg202Gln	p.R202Q	ENST00000310045	2/2	71	63	8	60	60	0	DSEL,missense_variant,p.Arg202Gln,ENST00000310045,;RP11-638L3.1,upstream_gene_variant,,ENST00000583687,;CTD-2541J13.2,downstream_gene_variant,,ENST00000583493,;CTD-2541J13.2,downstream_gene_variant,,ENST00000581951,;	T	ENSG00000171451	ENST00000310045	Transcript	missense_variant	2079	605	202	R/Q	cGa/cAa	rs768456129,COSM218565	.	.	-1	DSEL	HGNC	18144	protein_coding	YES	CCDS11995.1	ENSP00000310565	DSEL_HUMAN	.	UPI00000740A1	.	tolerated(0.25)	probably_damaging(0.978)	2/2	.	hmmpanther:PTHR15532,hmmpanther:PTHR15532:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R202Q|c.605G>A|3	MUTECT|MUSE|VARSCANS	GTCTTCGATGA	.	3	BLCA
LAMA1	0	.	GRCh37	18	6964670	6964670	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7328G>A	p.Arg2443Lys	p.R2443K	ENST00000389658	51/63	184	157	27	163	163	0	LAMA1,missense_variant,p.Arg2443Lys,ENST00000389658,;LAMA1,non_coding_transcript_exon_variant,,ENST00000488064,;LAMA1,non_coding_transcript_exon_variant,,ENST00000490190,;LAMA1,non_coding_transcript_exon_variant,,ENST00000579014,;LAMA1,downstream_gene_variant,,ENST00000484335,;LAMA1,upstream_gene_variant,,ENST00000488089,;	T	ENSG00000101680	ENST00000389658	Transcript	missense_variant	7422	7328	2443	R/K	aGa/aAa	.	.	.	-1	LAMA1	HGNC	6481	protein_coding	YES	CCDS32787.1	ENSP00000374309	LAMA1_HUMAN	Q7Z5W6_HUMAN,Q6P6D3_HUMAN	UPI00001C1FF9	.	tolerated(0.09)	benign(0.119)	51/63	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574:SF38,hmmpanther:PTHR10574,Gene3D:2.60.120.200,Pfam_domain:PF00054,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAACTCTTGAC	.	4	BLCA
CNDP1	0	.	GRCh37	18	72238449	72238449	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.785C>T	p.Ser262Leu	p.S262L	ENST00000358821	7/12	93	77	16	83	83	0	CNDP1,missense_variant,p.Ser262Leu,ENST00000358821,;CNDP1,missense_variant,p.Ser219Leu,ENST00000582365,;CNDP1,upstream_gene_variant,,ENST00000578498,;CNDP1,downstream_gene_variant,,ENST00000585136,;CNDP1,3_prime_UTR_variant,,ENST00000584316,;CNDP1,non_coding_transcript_exon_variant,,ENST00000584004,;	T	ENSG00000150656	ENST00000358821	Transcript	missense_variant	1013	785	262	S/L	tCa/tTa	.	.	.	1	CNDP1	HGNC	20675	protein_coding	YES	CCDS12007.1	ENSP00000351682	CNDP1_HUMAN	.	UPI0000141054	.	deleterious(0)	probably_damaging(0.995)	7/12	.	hmmpanther:PTHR11014:SF58,hmmpanther:PTHR11014,Gene3D:3.30.70.360,Pfam_domain:PF01546,Pfam_domain:PF07687,PIRSF_domain:PIRSF037242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCAGGAA	.	5	BLCA
ZNF407	0	.	GRCh37	18	72632492	72632492	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5272C>T	p.Arg1758Cys	p.R1758C	ENST00000299687	7/8	48	43	5	29	29	0	ZNF407,missense_variant,p.Arg1758Cys,ENST00000299687,;ZNF407,missense_variant,p.Arg1758Cys,ENST00000577538,;	T	ENSG00000215421	ENST00000299687	Transcript	missense_variant	5272	5272	1758	R/C	Cgc/Tgc	.	.	.	1	ZNF407	HGNC	19904	protein_coding	YES	CCDS45885.1	ENSP00000299687	ZN407_HUMAN	.	UPI0000F58ED1	.	deleterious(0)	probably_damaging(0.997)	7/8	.	hmmpanther:PTHR24402:SF5,hmmpanther:PTHR24402,Gene3D:3.30.160.60,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATATCCGCAAA	.	2	BLCA
EIF3G	0	.	GRCh37	19	10230580	10230580	+	5'Flank	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000253108	.	63	53	9	33	33	0	EIF3G,upstream_gene_variant,,ENST00000589454,;P2RY11,downstream_gene_variant,,ENST00000321826,;EIF3G,upstream_gene_variant,,ENST00000587146,;EIF3G,upstream_gene_variant,,ENST00000593054,;EIF3G,upstream_gene_variant,,ENST00000253108,;EIF3G,upstream_gene_variant,,ENST00000588709,;EIF3G,upstream_gene_variant,,ENST00000587168,;EIF3G,5_prime_UTR_variant,,ENST00000593095,;EIF3G,non_coding_transcript_exon_variant,,ENST00000587681,;EIF3G,non_coding_transcript_exon_variant,,ENST00000589458,;EIF3G,non_coding_transcript_exon_variant,,ENST00000589009,;EIF3G,non_coding_transcript_exon_variant,,ENST00000592485,;EIF3G,upstream_gene_variant,,ENST00000586151,;EIF3G,upstream_gene_variant,,ENST00000590647,;EIF3G,upstream_gene_variant,,ENST00000587590,;EIF3G,upstream_gene_variant,,ENST00000590940,;EIF3G,upstream_gene_variant,,ENST00000590158,;EIF3G,upstream_gene_variant,,ENST00000587993,;EIF3G,upstream_gene_variant,,ENST00000593066,;EIF3G,upstream_gene_variant,,ENST00000589674,;	C	ENSG00000130811	ENST00000253108	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2	-1	EIF3G	HGNC	3274	protein_coding	YES	CCDS12227.1	ENSP00000253108	EIF3G_HUMAN	.	UPI000012D2FE	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCGGAAGCG	.	4	BLCA
ICAM5	0	.	GRCh37	19	10403673	10403673	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1217-1G>C	.	p.X406_splice	ENST00000221980	.	90	72	18	61	61	0	ICAM5,splice_acceptor_variant,,ENST00000221980,;ICAM5,downstream_gene_variant,,ENST00000587398,;ICAM4,downstream_gene_variant,,ENST00000393717,;ICAM4,downstream_gene_variant,,ENST00000380770,;ICAM4,downstream_gene_variant,,ENST00000340992,;CTD-2369P2.8,upstream_gene_variant,,ENST00000589379,;ICAM5,downstream_gene_variant,,ENST00000586004,;ICAM5,splice_acceptor_variant,,ENST00000586480,;ICAM5,downstream_gene_variant,,ENST00000588912,;	C	ENSG00000105376	ENST00000221980	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ICAM5	HGNC	5348	protein_coding	YES	CCDS12233.1	ENSP00000221980	ICAM5_HUMAN	K7EIL3_HUMAN	UPI000013C7E4	.	.	.	.	5/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCAGACGCT	.	5	BLCA
ZGLP1	0	.	GRCh37	19	10418946	10418946	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>A	p.Glu138Lys	p.E138K	ENST00000403903	1/4	66	55	11	45	45	0	ZGLP1,missense_variant,p.Glu54Lys,ENST00000403352,;ZGLP1,missense_variant,p.Glu138Lys,ENST00000403903,;FDX1L,3_prime_UTR_variant,,ENST00000541276,;FDX1L,downstream_gene_variant,,ENST00000393708,;FDX1L,downstream_gene_variant,,ENST00000494368,;FDX1L,downstream_gene_variant,,ENST00000492239,;CTD-2369P2.10,3_prime_UTR_variant,,ENST00000452032,;FDX1L,downstream_gene_variant,,ENST00000453681,;ZGLP1,upstream_gene_variant,,ENST00000480726,;FDX1L,downstream_gene_variant,,ENST00000460631,;FDX1L,downstream_gene_variant,,ENST00000343376,;CTD-2369P2.10,downstream_gene_variant,,ENST00000493771,;	T	ENSG00000220201	ENST00000403903	Transcript	missense_variant	1611	412	138	E/K	Gag/Aag	.	.	.	-1	ZGLP1	HGNC	37245	protein_coding	YES	CCDS45959.1	ENSP00000384434	ZGLP1_HUMAN	B5MCP8_HUMAN	UPI00001D8262	.	tolerated(0.05)	benign(0.198)	1/4	.	hmmpanther:PTHR10071:SF153,hmmpanther:PTHR10071	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCGGTGC	.	4	BLCA
RAVER1	0	.	GRCh37	19	10431553	10431553	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1599C>G	p.%3D	p.L533L	ENST00000293677	9/13	33	27	5	25	25	0	RAVER1,missense_variant,p.Pro64Ala,ENST00000585935,;RAVER1,synonymous_variant,p.%3D,ENST00000293677,;FDX1L,upstream_gene_variant,,ENST00000393708,;FDX1L,upstream_gene_variant,,ENST00000541276,;FDX1L,upstream_gene_variant,,ENST00000494368,;RAVER1,missense_variant,p.Pro91Ala,ENST00000593136,;RAVER1,non_coding_transcript_exon_variant,,ENST00000592208,;CTD-2369P2.10,upstream_gene_variant,,ENST00000452032,;CTD-2369P2.12,upstream_gene_variant,,ENST00000586529,;RAVER1,downstream_gene_variant,,ENST00000591969,;FDX1L,upstream_gene_variant,,ENST00000453681,;FDX1L,upstream_gene_variant,,ENST00000486454,;FDX1L,upstream_gene_variant,,ENST00000460631,;FDX1L,upstream_gene_variant,,ENST00000343376,;	C	ENSG00000161847	ENST00000293677	Transcript	synonymous_variant	1681	1599	533	L	ctC/ctG	.	.	.	-1	RAVER1	HGNC	30296	protein_coding	YES	CCDS45960.1	ENSP00000293677	.	K7EQG2_HUMAN,E9PAU2_HUMAN	UPI0000E042A4	.	.	.	9/13	.	hmmpanther:PTHR23189,hmmpanther:PTHR23189:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGGGAGCAG	.	5	BLCA
KRI1	0	.	GRCh37	19	10670161	10670161	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1086G>C	p.%3D	p.L362L	ENST00000312962	12/19	116	95	20	101	101	0	KRI1,synonymous_variant,p.%3D,ENST00000312962,;KRI1,synonymous_variant,p.%3D,ENST00000361821,;KRI1,intron_variant,,ENST00000539027,;KRI1,downstream_gene_variant,,ENST00000543682,;KRI1,downstream_gene_variant,,ENST00000537964,;KRI1,non_coding_transcript_exon_variant,,ENST00000536689,;KRI1,non_coding_transcript_exon_variant,,ENST00000537363,;KRI1,non_coding_transcript_exon_variant,,ENST00000478863,;KRI1,non_coding_transcript_exon_variant,,ENST00000536714,;KRI1,downstream_gene_variant,,ENST00000544397,;KRI1,downstream_gene_variant,,ENST00000546063,;KRI1,upstream_gene_variant,,ENST00000543842,;KRI1,upstream_gene_variant,,ENST00000537433,;KRI1,downstream_gene_variant,,ENST00000432197,;	G	ENSG00000129347	ENST00000312962	Transcript	synonymous_variant	1106	1086	362	L	ctG/ctC	.	.	.	-1	KRI1	HGNC	25769	protein_coding	YES	CCDS12242.1	ENSP00000320917	KRI1_HUMAN	.	UPI0000246DCC	.	.	.	12/19	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14490,Pfam_domain:PF05178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAGGTT	.	5	BLCA
POLR2E	0	.	GRCh37	19	1095360	1095360	+	5'UTR	SNP	G	G	C	rs367958813	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-46C>G	.	.	ENST00000215587	1/8	59	52	7	44	44	0	POLR2E,5_prime_UTR_variant,,ENST00000215587,;POLR2E,upstream_gene_variant,,ENST00000586746,;POLR2E,upstream_gene_variant,,ENST00000585838,;POLR2E,5_prime_UTR_variant,,ENST00000589737,;POLR2E,non_coding_transcript_exon_variant,,ENST00000586817,;POLR2E,non_coding_transcript_exon_variant,,ENST00000591709,;POLR2E,upstream_gene_variant,,ENST00000591767,;POLR2E,upstream_gene_variant,,ENST00000592597,;	C	ENSG00000099817	ENST00000215587	Transcript	5_prime_UTR_variant	239	.	.	.	.	rs367958813	.	.	-1	POLR2E	HGNC	9192	protein_coding	YES	CCDS12056.1	ENSP00000215587	RPAB1_HUMAN	E5KT65_HUMAN,B4DJ89_HUMAN	UPI000013C68D	.	.	.	1/8	.	.	C:0.0006	C:0	C:0.0043	.	C:0	C:0	C:0	C:0.0002	C:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCGAGAACCC	byFrequency|byCluster|by1000G	2	BLCA
OR4F17	0	.	GRCh37	19	110706	110706	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28C>T	p.Leu10Phe	p.L10F	ENST00000585993	2/2	539	486	53	434	434	0	OR4F17,missense_variant,p.Leu10Phe,ENST00000318050,;OR4F17,missense_variant,p.Leu10Phe,ENST00000585993,;	T	ENSG00000176695	ENST00000585993	Transcript	missense_variant	167	28	10	L/F	Ctc/Ttc	COSM3891496	.	.	1	OR4F17	HGNC	15381	protein_coding	YES	CCDS32854.1	ENSP00000467301	O4F17_HUMAN	.	UPI0000041E2A	.	deleterious(0.02)	probably_damaging(0.998)	2/2	.	hmmpanther:PTHR26451:SF72,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGTCTCTCT	.	4	BLCA
ACP5	0	.	GRCh37	19	11687403	11687403	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.390G>C	p.Trp130Cys	p.W130C	ENST00000592828	6/7	55	49	6	55	55	0	ACP5,missense_variant,p.Trp130Cys,ENST00000592828,;ACP5,missense_variant,p.Trp130Cys,ENST00000218758,;ACP5,missense_variant,p.Trp130Cys,ENST00000412435,;ACP5,missense_variant,p.Trp130Cys,ENST00000433365,;ZNF627,intron_variant,,ENST00000585493,;ACP5,intron_variant,,ENST00000590420,;ACP5,downstream_gene_variant,,ENST00000590832,;ACP5,downstream_gene_variant,,ENST00000592659,;ACP5,downstream_gene_variant,,ENST00000591319,;ACP5,downstream_gene_variant,,ENST00000589792,;ZNF627,intron_variant,,ENST00000593279,;ZNF627,downstream_gene_variant,,ENST00000588651,;ACP5,splice_region_variant,,ENST00000588625,;ACP5,downstream_gene_variant,,ENST00000588079,;ACP5,downstream_gene_variant,,ENST00000588524,;	G	ENSG00000102575	ENST00000592828	Transcript	missense_variant	793	390	130	W/C	tgG/tgC	.	.	.	-1	ACP5	HGNC	124	protein_coding	YES	CCDS12265.1	ENSP00000468767	PPA5_HUMAN	K7ESF2_HUMAN,K7EJD9_HUMAN,K7EIP0_HUMAN	UPI0000001288	.	deleterious(0)	possibly_damaging(0.823)	6/7	.	hmmpanther:PTHR10161,Pfam_domain:PF00149,Gene3D:3.60.21.10,PIRSF_domain:PIRSF000898,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTTCCTGTG	.	4	BLCA
ZNF823	0	.	GRCh37	19	11832718	11832718	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1631G>A	p.Arg544Gln	p.R544Q	ENST00000341191	4/4	125	103	22	89	89	0	ZNF823,missense_variant,p.Arg362Gln,ENST00000545749,;ZNF823,missense_variant,p.Arg544Gln,ENST00000341191,;ZNF823,downstream_gene_variant,,ENST00000440527,;ZNF823,downstream_gene_variant,,ENST00000586121,;ZNF823,downstream_gene_variant,,ENST00000431998,;CTC-499B15.6,downstream_gene_variant,,ENST00000586983,;	T	ENSG00000197933	ENST00000341191	Transcript	missense_variant	1785	1631	544	R/Q	cGa/cAa	.	.	.	-1	ZNF823	HGNC	30936	protein_coding	YES	CCDS45981.1	ENSP00000340683	ZN823_HUMAN	K7EN93_HUMAN,C9J2N8_HUMAN,B7Z8D4_HUMAN	UPI0000203407	.	tolerated(0.63)	benign(0.053)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24379:SF27,hmmpanther:PTHR24379,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R547I|c.1640G>T|3,BUFFER|p.R547I|c.1640G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTCGTAGA	.	5	BLCA
ZNF433	0	.	GRCh37	19	12126028	12126028	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1654C>T	p.His552Tyr	p.H552Y	ENST00000344980	4/4	168	146	22	133	133	0	ZNF433,missense_variant,p.His552Tyr,ENST00000344980,;ZNF433,missense_variant,p.His517Tyr,ENST00000419886,;ZNF433,downstream_gene_variant,,ENST00000411841,;ZNF433,downstream_gene_variant,,ENST00000550745,;ZNF433,downstream_gene_variant,,ENST00000478765,;ZNF433,downstream_gene_variant,,ENST00000552904,;ZNF433,downstream_gene_variant,,ENST00000547560,;ZNF433,downstream_gene_variant,,ENST00000550507,;ZNF433,downstream_gene_variant,,ENST00000455504,;CTD-2006C1.2,intron_variant,,ENST00000406892,;CTD-2006C1.2,intron_variant,,ENST00000495324,;CTD-2006C1.2,intron_variant,,ENST00000476474,;CTD-2006C1.2,intron_variant,,ENST00000588047,;CTD-2006C1.10,downstream_gene_variant,,ENST00000547473,;ZNF433,downstream_gene_variant,,ENST00000548669,;	A	ENSG00000197647	ENST00000344980	Transcript	missense_variant	1825	1654	552	H/Y	Cat/Tat	.	.	.	-1	ZNF433	HGNC	20811	protein_coding	YES	CCDS45983.1	ENSP00000339767	ZN433_HUMAN	F8W652_HUMAN,F8W0C9_HUMAN,F8VXJ9_HUMAN	UPI0000071556	.	deleterious(0)	probably_damaging(1)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24379:SF25,hmmpanther:PTHR24379,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATGAATTT	.	4	BLCA
ZNF44	0	.	GRCh37	19	12383363	12383363	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1851C>T	p.%3D	p.F617F	ENST00000356109	5/5	65	52	13	54	54	0	ZNF44,synonymous_variant,p.%3D,ENST00000356109,;ZNF44,synonymous_variant,p.%3D,ENST00000355684,;ZNF44,synonymous_variant,p.%3D,ENST00000393337,;ZNF44,synonymous_variant,p.%3D,ENST00000397742,;ZNF44,intron_variant,,ENST00000600003,;ZNF44,downstream_gene_variant,,ENST00000354656,;	A	ENSG00000197857	ENST00000356109	Transcript	synonymous_variant	1970	1851	617	F	ttC/ttT	.	.	.	-1	ZNF44	HGNC	13110	protein_coding	YES	CCDS54223.1	ENSP00000348419	ZNF44_HUMAN	Q6LDH8_HUMAN,O14858_HUMAN	UPI00017A7462	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24379:SF17,hmmpanther:PTHR24379,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGACTGAAGGC	.	5	BLCA
ZNF442	0	.	GRCh37	19	12462058	12462058	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.341A>G	p.Asp114Gly	p.D114G	ENST00000242804	6/6	137	104	33	120	120	0	ZNF442,missense_variant,p.Asp45Gly,ENST00000424168,;ZNF442,missense_variant,p.Asp45Gly,ENST00000438182,;ZNF442,missense_variant,p.Asp114Gly,ENST00000242804,;CTD-3105H18.13,upstream_gene_variant,,ENST00000563695,;ZNF442,downstream_gene_variant,,ENST00000462995,;	C	ENSG00000198342	ENST00000242804	Transcript	missense_variant	924	341	114	D/G	gAt/gGt	.	.	.	-1	ZNF442	HGNC	20877	protein_coding	YES	CCDS12271.1	ENSP00000242804	ZN442_HUMAN	C9JC15_HUMAN,B4DJ48_HUMAN	UPI000006D14F	.	deleterious(0.04)	benign(0.005)	6/6	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24379,hmmpanther:PTHR24379:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGATCTACT	.	5	BLCA
MAN2B1	0	.	GRCh37	19	12758066	12758066	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2904C>T	p.%3D	p.L968L	ENST00000456935	23/24	94	83	10	82	82	0	MAN2B1,synonymous_variant,p.%3D,ENST00000221363,;MAN2B1,synonymous_variant,p.%3D,ENST00000456935,;MAN2B1,downstream_gene_variant,,ENST00000595880,;MAN2B1,downstream_gene_variant,,ENST00000433513,;MAN2B1,upstream_gene_variant,,ENST00000480851,;CTD-2192J16.22,synonymous_variant,p.%3D,ENST00000597692,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000466794,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000469423,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000493218,;MAN2B1,downstream_gene_variant,,ENST00000596591,;CTD-2192J16.15,upstream_gene_variant,,ENST00000325000,;	A	ENSG00000104774	ENST00000456935	Transcript	synonymous_variant	2945	2904	968	L	ctC/ctT	.	.	.	-1	MAN2B1	HGNC	6826	protein_coding	YES	CCDS32919.1	ENSP00000395473	MA2B1_HUMAN	B4E0K9_HUMAN	UPI00000559EC	.	.	.	23/24	.	hmmpanther:PTHR11607:SF3,hmmpanther:PTHR11607,Pfam_domain:PF07748,Gene3D:2.60.40.1360,Superfamily_domains:SSF74650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTGAGCCT	.	4	BLCA
DHPS	0	.	GRCh37	19	12792570	12792570	+	Missense_Mutation	SNP	G	G	A	rs773297930	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11C>T	p.Ser4Phe	p.S4F	ENST00000210060	1/9	41	32	8	42	42	0	DHPS,missense_variant,p.Ser4Phe,ENST00000210060,;DHPS,missense_variant,p.Ser4Phe,ENST00000351660,;DHPS,upstream_gene_variant,,ENST00000594424,;DHPS,upstream_gene_variant,,ENST00000597152,;DHPS,upstream_gene_variant,,ENST00000600864,;DHPS,upstream_gene_variant,,ENST00000598246,;DHPS,upstream_gene_variant,,ENST00000596162,;CTD-2192J16.26,downstream_gene_variant,,ENST00000593554,;DHPS,upstream_gene_variant,,ENST00000599481,;DHPS,missense_variant,p.Ser4Phe,ENST00000595912,;DHPS,missense_variant,p.Ser4Phe,ENST00000601639,;DHPS,missense_variant,p.Ser4Phe,ENST00000595100,;DHPS,missense_variant,p.Ser4Phe,ENST00000601537,;DHPS,non_coding_transcript_exon_variant,,ENST00000593473,;DHPS,upstream_gene_variant,,ENST00000598850,;DHPS,upstream_gene_variant,,ENST00000593400,;DHPS,upstream_gene_variant,,ENST00000593432,;DHPS,upstream_gene_variant,,ENST00000600510,;DHPS,upstream_gene_variant,,ENST00000596847,;DHPS,upstream_gene_variant,,ENST00000600451,;DHPS,upstream_gene_variant,,ENST00000593423,;DHPS,upstream_gene_variant,,ENST00000595844,;	A	ENSG00000095059	ENST00000210060	Transcript	missense_variant	147	11	4	S/F	tCc/tTc	rs773297930	.	.	-1	DHPS	HGNC	2869	protein_coding	YES	CCDS12276.1	ENSP00000210060	DHYS_HUMAN	M0R1T2_HUMAN	UPI00001293B4	.	deleterious(0.01)	benign(0.044)	1/9	.	hmmpanther:PTHR11703	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGGGAACCT	.	5	BLCA
RAD23A	0	.	GRCh37	19	13063804	13063804	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1033G>A	p.Glu345Lys	p.E345K	ENST00000586534	9/9	117	110	7	126	126	0	RAD23A,missense_variant,p.Glu180Lys,ENST00000541222,;RAD23A,missense_variant,p.Glu344Lys,ENST00000316856,;RAD23A,missense_variant,p.Glu290Lys,ENST00000592268,;RAD23A,missense_variant,p.Glu345Lys,ENST00000586534,;RAD23A,missense_variant,p.Glu132Lys,ENST00000590881,;GADD45GIP1,downstream_gene_variant,,ENST00000316939,;RAD23A,downstream_gene_variant,,ENST00000588826,;RAD23A,3_prime_UTR_variant,,ENST00000593114,;RAD23A,3_prime_UTR_variant,,ENST00000591499,;RAD23A,3_prime_UTR_variant,,ENST00000586375,;RAD23A,non_coding_transcript_exon_variant,,ENST00000591467,;RAD23A,downstream_gene_variant,,ENST00000588329,;	A	ENSG00000179262	ENST00000586534	Transcript	missense_variant	1094	1033	345	E/K	Gaa/Aaa	.	.	.	1	RAD23A	HGNC	9812	protein_coding	YES	CCDS12289.1	ENSP00000467024	RD23A_HUMAN	K7ENJ0_HUMAN,B4DDJ7_HUMAN	UPI000000D7F7	.	deleterious(0)	probably_damaging(0.97)	9/9	.	PROSITE_profiles:PS50030,hmmpanther:PTHR10621,hmmpanther:PTHR10621:SF3,Pfam_domain:PF00627,TIGRFAM_domain:TIGR00601,Gene3D:1.10.8.10,SMART_domains:SM00165,Superfamily_domains:SSF46934,Prints_domain:PR01839	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTGTGAAAAA	.	2	BLCA
CACNA1A	0	.	GRCh37	19	13386725	13386725	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3928G>A	p.Asp1310Asn	p.D1310N	ENST00000360228	24/47	50	42	7	34	34	0	CACNA1A,missense_variant,p.Asp1311Asn,ENST00000573710,;CACNA1A,missense_variant,p.Asp1310Asn,ENST00000360228,;CACNA1A,upstream_gene_variant,,ENST00000585802,;	T	ENSG00000141837	ENST00000360228	Transcript	missense_variant	3928	3928	1310	D/N	Gac/Aac	.	.	.	-1	CACNA1A	HGNC	1388	protein_coding	YES	CCDS45998.1	ENSP00000353362	CAC1A_HUMAN	Q9UN69_HUMAN,Q9UHM9_HUMAN	UPI0000141565	.	.	benign(0.001)	24/47	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF59,Pfam_domain:PF00520,Gene3D:1.20.120.350,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGTCACGGA	.	4	BLCA
MRI1	0	.	GRCh37	19	13875420	13875420	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18C>T	p.%3D	p.I6I	ENST00000040663	1/6	51	38	12	43	43	0	MRI1,synonymous_variant,p.%3D,ENST00000040663,;MRI1,synonymous_variant,p.%3D,ENST00000319545,;MRI1,synonymous_variant,p.%3D,ENST00000593245,;CCDC130,downstream_gene_variant,,ENST00000221554,;CCDC130,downstream_gene_variant,,ENST00000589096,;CCDC130,downstream_gene_variant,,ENST00000585844,;CCDC130,downstream_gene_variant,,ENST00000589669,;CCDC130,downstream_gene_variant,,ENST00000586666,;CCDC130,downstream_gene_variant,,ENST00000586600,;CCDC130,downstream_gene_variant,,ENST00000587019,;MRI1,non_coding_transcript_exon_variant,,ENST00000588526,;MRI1,non_coding_transcript_exon_variant,,ENST00000589290,;MRI1,non_coding_transcript_exon_variant,,ENST00000591688,;CCDC130,downstream_gene_variant,,ENST00000593174,;	T	ENSG00000037757	ENST00000040663	Transcript	synonymous_variant	58	18	6	I	atC/atT	.	.	.	1	MRI1	HGNC	28469	protein_coding	YES	CCDS32923.1	ENSP00000040663	MTNA_HUMAN	.	UPI0000051F79	.	.	.	1/6	.	HAMAP:MF_01678,hmmpanther:PTHR10233:SF6,hmmpanther:PTHR10233,TIGRFAM_domain:TIGR00512,Gene3D:1.20.120.420,Superfamily_domains:SSF100950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGATCCGCTA	.	5	BLCA
ZSWIM4	0	.	GRCh37	19	13928140	13928140	+	Missense_Mutation	SNP	G	G	C	rs140227825	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1291G>C	p.Glu431Gln	p.E431Q	ENST00000254323	7/13	115	101	14	80	80	0	ZSWIM4,missense_variant,p.Glu431Gln,ENST00000254323,;ZSWIM4,missense_variant,p.Glu265Gln,ENST00000440752,;ZSWIM4,missense_variant,p.Glu340Gln,ENST00000590508,;ZSWIM4,upstream_gene_variant,,ENST00000592227,;RN7SL619P,upstream_gene_variant,,ENST00000581753,;	C	ENSG00000132003	ENST00000254323	Transcript	missense_variant	1480	1291	431	E/Q	Gag/Cag	rs140227825	.	.	1	ZSWIM4	HGNC	25704	protein_coding	YES	CCDS32924.1	ENSP00000254323	ZSWM4_HUMAN	Q9HA55_HUMAN	UPI00001C2005	.	tolerated(0.14)	unknown(0)	7/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22619,hmmpanther:PTHR22619:SF4	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTGGAGGAG	byCluster	4	BLCA
RFX1	0	.	GRCh37	19	14074531	14074531	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2389G>C	p.Glu797Gln	p.E797Q	ENST00000254325	18/21	21	17	3	17	17	0	RFX1,missense_variant,p.Glu797Gln,ENST00000254325,;DCAF15,downstream_gene_variant,,ENST00000585468,;DCAF15,downstream_gene_variant,,ENST00000587307,;DCAF15,downstream_gene_variant,,ENST00000254337,;RFX1,non_coding_transcript_exon_variant,,ENST00000588520,;DCAF15,downstream_gene_variant,,ENST00000588523,;DCAF15,downstream_gene_variant,,ENST00000591385,;	G	ENSG00000132005	ENST00000254325	Transcript	missense_variant	2624	2389	797	E/Q	Gag/Cag	.	.	.	-1	RFX1	HGNC	9982	protein_coding	YES	CCDS12301.1	ENSP00000254325	RFX1_HUMAN	.	UPI000013CE29	.	deleterious(0.01)	probably_damaging(0.932)	18/21	.	hmmpanther:PTHR12619,hmmpanther:PTHR12619:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTCCTCGCAGC	.	3	BLCA
EMR3	0	.	GRCh37	19	14758014	14758014	+	Silent	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861G>T	p.%3D	p.T287T	ENST00000253673	8/16	206	165	41	187	187	0	EMR3,synonymous_variant,p.%3D,ENST00000253673,;EMR3,synonymous_variant,p.%3D,ENST00000599900,;EMR3,synonymous_variant,p.%3D,ENST00000344373,;EMR3,synonymous_variant,p.%3D,ENST00000443157,;	A	ENSG00000131355	ENST00000253673	Transcript	synonymous_variant	962	861	287	T	acG/acT	.	.	.	-1	EMR3	HGNC	23647	protein_coding	YES	CCDS12315.1	ENSP00000253673	EMR3_HUMAN	M0R1G2_HUMAN	UPI0000456C29	.	.	.	8/16	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.T287M|c.860C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCAGCGTCAC	.	5	BLCA
OR7A5	0	.	GRCh37	19	14939034	14939034	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20C>T	p.Thr7Ile	p.T7I	ENST00000322301	2/2	52	43	9	45	45	0	OR7A5,missense_variant,p.Thr7Ile,ENST00000594432,;OR7A5,missense_variant,p.Thr7Ile,ENST00000322301,;OR7A5,intron_variant,,ENST00000599549,;OR7A5,intron_variant,,ENST00000595922,;OR7A5,intron_variant,,ENST00000601611,;	A	ENSG00000188269	ENST00000322301	Transcript	missense_variant	108	20	7	T/I	aCa/aTa	.	.	.	-1	OR7A5	HGNC	8368	protein_coding	YES	CCDS12318.1	ENSP00000316955	OR7A5_HUMAN	.	UPI0000041DE3	.	deleterious_low_confidence(0.01)	probably_damaging(0.931)	2/2	.	hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF219,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTGTATCA	.	5	BLCA
OR10H1	0	.	GRCh37	19	15918788	15918788	+	Silent	SNP	G	G	A	rs745832561	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60C>T	p.%3D	p.F20F	ENST00000334920	1/1	140	113	26	109	109	0	OR10H1,synonymous_variant,p.%3D,ENST00000334920,;	A	ENSG00000186723	ENST00000334920	Transcript	synonymous_variant	149	60	20	F	ttC/ttT	rs745832561	.	.	-1	OR10H1	HGNC	8172	protein_coding	YES	CCDS12335.1	ENSP00000335596	O10H1_HUMAN	.	UPI000004CA3D	.	.	.	1/1	.	hmmpanther:PTHR24247,hmmpanther:PTHR24247:SF85,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGGGAAGAC	.	5	BLCA
CIB3	0	.	GRCh37	19	16272206	16272206	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*70G>C	.	.	ENST00000269878	6/6	29	25	4	18	18	0	CIB3,3_prime_UTR_variant,,ENST00000269878,;HSH2D,downstream_gene_variant,,ENST00000593154,;HSH2D,downstream_gene_variant,,ENST00000588246,;HSH2D,downstream_gene_variant,,ENST00000593031,;HSH2D,downstream_gene_variant,,ENST00000397372,;CIB3,downstream_gene_variant,,ENST00000379859,;HSH2D,downstream_gene_variant,,ENST00000253680,;CIB3,downstream_gene_variant,,ENST00000541493,;HSH2D,downstream_gene_variant,,ENST00000587963,;HSH2D,downstream_gene_variant,,ENST00000591154,;CIB3,downstream_gene_variant,,ENST00000597251,;HSH2D,downstream_gene_variant,,ENST00000589463,;	G	ENSG00000141977	ENST00000269878	Transcript	3_prime_UTR_variant	684	.	.	.	.	.	.	.	-1	CIB3	HGNC	24580	protein_coding	YES	CCDS12340.1	ENSP00000269878	CIB3_HUMAN	.	UPI00000736D6	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTCAGAAA	.	2	BLCA
KCNN1	0	.	GRCh37	19	18104305	18104305	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1314G>A	p.%3D	p.R438R	ENST00000222249	10/11	49	38	10	19	19	0	KCNN1,synonymous_variant,p.%3D,ENST00000222249,;	A	ENSG00000105642	ENST00000222249	Transcript	synonymous_variant	1633	1314	438	R	cgG/cgA	.	.	.	1	KCNN1	HGNC	6290	protein_coding	YES	CCDS67611.1	ENSP00000476519	KCNN1_HUMAN	.	UPI00001649F9	.	.	.	10/11	.	hmmpanther:PTHR10153:SF8,hmmpanther:PTHR10153,Pfam_domain:PF02888,Gene3D:1.10.287.70,SMART_domains:SM01053,Superfamily_domains:SSF81327	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCGGAGTGT	.	5	BLCA
REXO1	0	.	GRCh37	19	1825877	1825877	+	Silent	SNP	C	C	T	rs370185305	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1977G>A	p.%3D	p.Q659Q	ENST00000170168	3/16	73	67	6	67	67	0	REXO1,synonymous_variant,p.%3D,ENST00000170168,;CTB-31O20.4,downstream_gene_variant,,ENST00000587741,;CTB-31O20.4,downstream_gene_variant,,ENST00000590531,;CTB-31O20.4,downstream_gene_variant,,ENST00000593201,;REXO1,downstream_gene_variant,,ENST00000587524,;REXO1,upstream_gene_variant,,ENST00000586343,;CTB-31O20.4,downstream_gene_variant,,ENST00000590823,;	T	ENSG00000079313	ENST00000170168	Transcript	synonymous_variant	2072	1977	659	Q	caG/caA	rs370185305	.	.	-1	REXO1	HGNC	24616	protein_coding	YES	CCDS32866.1	ENSP00000170168	REXO1_HUMAN	.	UPI0000202F63	.	.	.	3/16	.	hmmpanther:PTHR12801:SF62,hmmpanther:PTHR12801	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTCTGCCC	byCluster	2	BLCA
REXO1	0	.	GRCh37	19	1825898	1825898	+	Silent	SNP	C	C	G	rs368799886	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1956G>C	p.%3D	p.L652L	ENST00000170168	3/16	59	53	6	54	54	0	REXO1,synonymous_variant,p.%3D,ENST00000170168,;CTB-31O20.4,downstream_gene_variant,,ENST00000587741,;CTB-31O20.4,downstream_gene_variant,,ENST00000590531,;CTB-31O20.4,downstream_gene_variant,,ENST00000593201,;REXO1,downstream_gene_variant,,ENST00000587524,;REXO1,upstream_gene_variant,,ENST00000586343,;CTB-31O20.4,downstream_gene_variant,,ENST00000590823,;	G	ENSG00000079313	ENST00000170168	Transcript	synonymous_variant	2051	1956	652	L	ctG/ctC	rs368799886	.	.	-1	REXO1	HGNC	24616	protein_coding	YES	CCDS32866.1	ENSP00000170168	REXO1_HUMAN	.	UPI0000202F63	.	.	.	3/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12801:SF62,hmmpanther:PTHR12801	.	.	.	.	.	.	.	G:0.0002	G:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGTCAGACC	.	2	BLCA
YJEFN3	0	.	GRCh37	19	19648141	19648141	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708G>C	p.Glu236Asp	p.E236D	ENST00000514277	7/7	11	8	3	8	8	0	YJEFN3,missense_variant,p.Glu186Asp,ENST00000436027,;YJEFN3,missense_variant,p.Glu236Asp,ENST00000514277,;NDUFA13,downstream_gene_variant,,ENST00000512771,;CILP2,upstream_gene_variant,,ENST00000586018,;YJEFN3,downstream_gene_variant,,ENST00000608404,;CILP2,upstream_gene_variant,,ENST00000291495,;CTC-260F20.3,downstream_gene_variant,,ENST00000555938,;CTC-260F20.3,downstream_gene_variant,,ENST00000586674,;CILP2,upstream_gene_variant,,ENST00000588333,;YJEFN3,non_coding_transcript_exon_variant,,ENST00000458210,;	C	ENSG00000250067	ENST00000514277	Transcript	missense_variant	746	708	236	E/D	gaG/gaC	.	.	.	1	YJEFN3	HGNC	24785	protein_coding	YES	CCDS42530.1	ENSP00000426964	YJEN3_HUMAN	.	UPI000013E04C	.	tolerated(0.06)	benign(0.065)	7/7	.	Superfamily_domains:SSF64153,Gene3D:3.40.50.10260,Pfam_domain:PF03853,TIGRFAM_domain:TIGR00197,hmmpanther:PTHR13232:SF12,hmmpanther:PTHR13232,PROSITE_profiles:PS51385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGAGACCGG	.	2	BLCA
CSNK1G2	0	.	GRCh37	19	1980192	1980192	+	Missense_Mutation	SNP	G	G	A	rs143259235	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1238G>A	p.Arg413Gln	p.R413Q	ENST00000255641	12/12	75	63	12	50	50	0	CSNK1G2,missense_variant,p.Arg413Gln,ENST00000255641,;CSNK1G2,downstream_gene_variant,,ENST00000591752,;CSNK1G2,downstream_gene_variant,,ENST00000589385,;CSNK1G2,downstream_gene_variant,,ENST00000589861,;CSNK1G2,downstream_gene_variant,,ENST00000590106,;CSNK1G2,downstream_gene_variant,,ENST00000585957,;CSNK1G2,downstream_gene_variant,,ENST00000591002,;CSNK1G2,downstream_gene_variant,,ENST00000585959,;	A	ENSG00000133275	ENST00000255641	Transcript	missense_variant	1733	1238	413	R/Q	cGa/cAa	rs143259235	.	.	1	CSNK1G2	HGNC	2455	protein_coding	YES	CCDS12077.1	ENSP00000255641	KC1G2_HUMAN	.	UPI00000015E2	.	tolerated_low_confidence(0.07)	probably_damaging(0.997)	12/12	.	hmmpanther:PTHR11909,hmmpanther:PTHR11909:SF101	A:0.0004	A:0	A:0	.	A:0	A:0	A:0.002	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGCGACACA	byFrequency|byCluster|by1000G	5	BLCA
ZNF506	0	.	GRCh37	19	19906020	19906020	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.676G>C	p.Glu226Gln	p.E226Q	ENST00000443905	4/5	100	91	8	91	91	0	ZNF506,missense_variant,p.Glu194Gln,ENST00000450683,;ZNF506,missense_variant,p.Glu226Gln,ENST00000443905,;ZNF506,missense_variant,p.Glu226Gln,ENST00000540806,;ZNF506,intron_variant,,ENST00000590766,;ZNF506,intron_variant,,ENST00000587461,;ZNF506,downstream_gene_variant,,ENST00000590319,;ZNF506,downstream_gene_variant,,ENST00000587452,;ZNF506,downstream_gene_variant,,ENST00000545006,;CTC-559E9.4,intron_variant,,ENST00000590274,;CTC-559E9.6,intron_variant,,ENST00000591884,;CTC-559E9.6,intron_variant,,ENST00000589657,;CTC-559E9.5,upstream_gene_variant,,ENST00000590697,;ZNF506,missense_variant,p.Glu226Gln,ENST00000591639,;ZNF506,non_coding_transcript_exon_variant,,ENST00000587822,;ZNF506,intron_variant,,ENST00000586260,;	G	ENSG00000081665	ENST00000443905	Transcript	missense_variant	824	676	226	E/Q	Gag/Cag	.	.	.	-1	ZNF506	HGNC	23780	protein_coding	YES	CCDS42531.1	ENSP00000393835	ZN506_HUMAN	K7ERD0_HUMAN	UPI00001B6472	.	deleterious(0.03)	possibly_damaging(0.512)	4/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF82,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTCTCTCCAG	.	3	BLCA
ZNF66	0	.	GRCh37	19	20959281	20959281	+	Intron	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3+25G>A	.	.	ENST00000344519	.	108	92	15	85	85	0	ZNF66,5_prime_UTR_variant,,ENST00000360204,;ZNF66,intron_variant,,ENST00000594534,;ZNF66,intron_variant,,ENST00000344519,;	A	ENSG00000160229	ENST00000344519	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ZNF66	HGNC	13135	protein_coding	YES	.	ENSP00000461425	ZNF66_HUMAN	.	UPI00025A2C0A	.	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCCCGAGAGA	.	4	BLCA
ZNF254	0	.	GRCh37	19	24310134	24310134	+	Silent	SNP	C	C	T	rs776337445	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332C>T	p.%3D	p.I444I	ENST00000357002	4/4	83	73	10	73	73	0	ZNF254,synonymous_variant,p.%3D,ENST00000357002,;ZNF254,synonymous_variant,p.%3D,ENST00000342944,;ZNF254,downstream_gene_variant,,ENST00000595187,;ZNF254,downstream_gene_variant,,ENST00000594886,;	T	ENSG00000213096	ENST00000357002	Transcript	synonymous_variant	1447	1332	444	I	atC/atT	rs776337445	.	.	1	ZNF254	HGNC	13047	protein_coding	YES	CCDS32983.1	ENSP00000349494	ZN254_HUMAN	F5H2M4_HUMAN	UPI0000366DB6	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF153,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTATCTGGTC	byFrequency	4	BLCA
HMG20B	0	.	GRCh37	19	3573775	3573775	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124G>C	p.Glu42Gln	p.E42Q	ENST00000333651	3/10	35	28	7	26	26	0	HMG20B,missense_variant,p.Glu42Gln,ENST00000333651,;HMG20B,missense_variant,p.Glu42Gln,ENST00000262949,;HMG20B,missense_variant,p.Glu42Gln,ENST00000416526,;HMG20B,missense_variant,p.Glu42Gln,ENST00000417382,;HMG20B,missense_variant,p.Glu42Gln,ENST00000453933,;MFSD12,upstream_gene_variant,,ENST00000592652,;HMG20B,upstream_gene_variant,,ENST00000585900,;HMG20B,non_coding_transcript_exon_variant,,ENST00000585741,;MFSD12,non_coding_transcript_exon_variant,,ENST00000591878,;MFSD12,intron_variant,,ENST00000586402,;HMG20B,missense_variant,p.Glu42Gln,ENST00000435022,;MFSD12,5_prime_UTR_variant,,ENST00000585814,;HMG20B,non_coding_transcript_exon_variant,,ENST00000470356,;HMG20B,non_coding_transcript_exon_variant,,ENST00000488973,;HMG20B,upstream_gene_variant,,ENST00000461099,;HMG20B,upstream_gene_variant,,ENST00000483417,;HMG20B,upstream_gene_variant,,ENST00000464304,;HMG20B,upstream_gene_variant,,ENST00000487894,;HMG20B,upstream_gene_variant,,ENST00000493191,;HMG20B,upstream_gene_variant,,ENST00000486028,;MFSD12,upstream_gene_variant,,ENST00000588626,;	C	ENSG00000064961	ENST00000333651	Transcript	missense_variant	199	124	42	E/Q	Gag/Cag	.	.	.	1	HMG20B	HGNC	5002	protein_coding	YES	CCDS45919.1	ENSP00000328269	HM20B_HUMAN	C9JQA7_HUMAN,C9J8X5_HUMAN	UPI000006D8AE	.	deleterious(0.05)	benign(0.195)	3/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGGCGAGAAG	.	5	BLCA
LSR	0	.	GRCh37	19	35757813	35757813	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1231G>C	p.Glu411Gln	p.E411Q	ENST00000361790	8/10	30	19	10	36	36	0	LSR,missense_variant,p.Glu353Gln,ENST00000347609,;LSR,missense_variant,p.Glu411Gln,ENST00000361790,;LSR,missense_variant,p.Glu262Gln,ENST00000605618,;LSR,missense_variant,p.Glu392Gln,ENST00000354900,;LSR,missense_variant,p.Glu255Gln,ENST00000427250,;LSR,missense_variant,p.Glu343Gln,ENST00000360798,;LSR,missense_variant,p.Glu391Gln,ENST00000602122,;USF2,upstream_gene_variant,,ENST00000222305,;USF2,upstream_gene_variant,,ENST00000379134,;USF2,upstream_gene_variant,,ENST00000343550,;USF2,upstream_gene_variant,,ENST00000596380,;LSR,downstream_gene_variant,,ENST00000599658,;USF2,upstream_gene_variant,,ENST00000595068,;USF2,upstream_gene_variant,,ENST00000594064,;USF2,upstream_gene_variant,,ENST00000599471,;USF2,upstream_gene_variant,,ENST00000599625,;USF2,upstream_gene_variant,,ENST00000598058,;AD000684.2,downstream_gene_variant,,ENST00000602262,;LSR,downstream_gene_variant,,ENST00000602044,;USF2,upstream_gene_variant,,ENST00000600341,;LSR,downstream_gene_variant,,ENST00000597933,;LSR,non_coding_transcript_exon_variant,,ENST00000597446,;USF2,upstream_gene_variant,,ENST00000607959,;USF2,upstream_gene_variant,,ENST00000602164,;USF2,upstream_gene_variant,,ENST00000597671,;USF2,upstream_gene_variant,,ENST00000593708,;	C	ENSG00000105699	ENST00000361790	Transcript	missense_variant	1390	1231	411	E/Q	Gag/Cag	.	.	.	1	LSR	HGNC	29572	protein_coding	YES	CCDS12450.1	ENSP00000354575	LSR_HUMAN	.	UPI000003117A	.	deleterious(0.03)	probably_damaging(0.997)	8/10	.	hmmpanther:PTHR15923,hmmpanther:PTHR15923:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAGGAGCTG	.	5	BLCA
KMT2B	0	.	GRCh37	19	36211928	36211928	+	Missense_Mutation	SNP	C	C	T	rs368369291	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1679C>T	p.Ser560Leu	p.S560L	ENST00000222270	3/37	11	8	3	14	14	0	KMT2B,missense_variant,p.Ser560Leu,ENST00000222270,;KMT2B,missense_variant,p.Ser560Leu,ENST00000420124,;KMT2B,intron_variant,,ENST00000341701,;ZBTB32,downstream_gene_variant,,ENST00000392197,;ZBTB32,downstream_gene_variant,,ENST00000262630,;ZBTB32,downstream_gene_variant,,ENST00000426659,;KMT2B,non_coding_transcript_exon_variant,,ENST00000607650,;KMT2B,intron_variant,,ENST00000606995,;ZBTB32,downstream_gene_variant,,ENST00000481182,;	T	ENSG00000272333	ENST00000222270	Transcript	missense_variant	1679	1679	560	S/L	tCa/tTa	rs368369291	.	.	1	KMT2B	Uniprot_gn	15840	protein_coding	YES	CCDS46055.1	ENSP00000222270	KMT2B_HUMAN	.	UPI00001376B5	.	.	possibly_damaging(0.879)	3/37	.	hmmpanther:PTHR22884:SF280,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCTCACCTG	byFrequency|byCluster	2	BLCA
CACTIN	0	.	GRCh37	19	3624086	3624086	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.242C>T	p.Ser81Leu	p.S81L	ENST00000429344	2/10	124	99	25	100	100	0	CACTIN,missense_variant,p.Ser13Leu,ENST00000221899,;CACTIN,missense_variant,p.Ser81Leu,ENST00000248420,;CACTIN,missense_variant,p.Ser81Leu,ENST00000429344,;CACTIN,upstream_gene_variant,,ENST00000588749,;CACTIN,missense_variant,p.Ser81Leu,ENST00000585942,;CACTIN,upstream_gene_variant,,ENST00000587175,;CACTIN,upstream_gene_variant,,ENST00000589321,;	A	ENSG00000105298	ENST00000429344	Transcript	missense_variant	295	242	81	S/L	tCa/tTa	.	.	.	-1	CACTIN	HGNC	29938	protein_coding	YES	CCDS45920.1	ENSP00000415078	CATIN_HUMAN	K7EIU6_HUMAN	UPI00006C1962	.	deleterious_low_confidence(0)	unknown(0)	2/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21737:SF6,hmmpanther:PTHR21737	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTGAGTGC	.	5	BLCA
KIRREL2	0	.	GRCh37	19	36350381	36350381	+	Splice_Site	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.523-2A>T	.	p.X175_splice	ENST00000360202	.	50	43	7	30	30	0	KIRREL2,splice_acceptor_variant,,ENST00000592409,;KIRREL2,splice_acceptor_variant,,ENST00000262625,;KIRREL2,splice_acceptor_variant,,ENST00000360202,;KIRREL2,splice_acceptor_variant,,ENST00000586102,;KIRREL2,splice_acceptor_variant,,ENST00000347900,;NPHS1,intron_variant,,ENST00000591817,;	T	ENSG00000126259	ENST00000360202	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	KIRREL2	HGNC	18816	protein_coding	YES	CCDS12481.1	ENSP00000353331	KIRR2_HUMAN	.	UPI0000366DD8	.	.	.	.	4/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCCAGACCC	.	4	BLCA
LRFN3	0	.	GRCh37	19	36430720	36430720	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393C>T	p.%3D	p.V131V	ENST00000588831	3/4	74	67	6	63	63	0	LRFN3,synonymous_variant,p.%3D,ENST00000588831,;LRFN3,synonymous_variant,p.%3D,ENST00000246529,;LRFN3,downstream_gene_variant,,ENST00000585876,;LRFN3,downstream_gene_variant,,ENST00000587257,;	T	ENSG00000126243	ENST00000588831	Transcript	synonymous_variant	1447	393	131	V	gtC/gtT	.	.	.	1	LRFN3	HGNC	28370	protein_coding	YES	CCDS12483.1	ENSP00000466989	LRFN3_HUMAN	.	UPI0000070E5A	.	.	.	3/4	.	hmmpanther:PTHR24373:SF1,hmmpanther:PTHR24373,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTGGTCAACTT	.	3	BLCA
ZNF568	0	.	GRCh37	19	37441534	37441534	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479G>A	p.%3D	p.Q493Q	ENST00000333987	7/7	113	97	15	96	96	0	ZNF568,synonymous_variant,p.%3D,ENST00000415168,;ZNF568,synonymous_variant,p.%3D,ENST00000333987,;ZNF568,synonymous_variant,p.%3D,ENST00000587857,;ZNF568,intron_variant,,ENST00000455427,;ZNF568,intron_variant,,ENST00000444991,;ZNF568,intron_variant,,ENST00000427117,;	A	ENSG00000198453	ENST00000333987	Transcript	synonymous_variant	1985	1479	493	Q	caG/caA	.	.	.	1	ZNF568	HGNC	25392	protein_coding	YES	CCDS42558.1	ENSP00000334685	ZN568_HUMAN	A2VDJ6_HUMAN	UPI000059D700	.	.	.	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF147,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCAGAGAAT	.	4	BLCA
SIPA1L3	0	.	GRCh37	19	38673327	38673327	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4377G>A	p.Trp1459Ter	p.W1459*	ENST00000222345	16/22	73	62	11	76	76	0	SIPA1L3,stop_gained,p.Trp1459Ter,ENST00000222345,;SIPA1L3,stop_gained,p.Trp72Ter,ENST00000601054,;CTB-102L5.7,upstream_gene_variant,,ENST00000594299,;SIPA1L3,non_coding_transcript_exon_variant,,ENST00000595495,;	A	ENSG00000105738	ENST00000222345	Transcript	stop_gained	4886	4377	1459	W/*	tgG/tgA	.	.	.	1	SIPA1L3	HGNC	23801	protein_coding	YES	CCDS33007.1	ENSP00000222345	SI1L3_HUMAN	Q8IUV1_HUMAN	UPI00001D8160	.	.	.	16/22	.	hmmpanther:PTHR15711,hmmpanther:PTHR15711:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGTGGAAGAG	.	4	BLCA
RYR1	0	.	GRCh37	19	38993165	38993165	+	Missense_Mutation	SNP	G	G	A	rs752762748	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7633G>A	p.Glu2545Lys	p.E2545K	ENST00000359596	48/106	18	14	4	18	18	0	RYR1,missense_variant,p.Glu2545Lys,ENST00000355481,;RYR1,missense_variant,p.Glu2545Lys,ENST00000360985,;RYR1,missense_variant,p.Glu2545Lys,ENST00000359596,;RYR1,missense_variant,p.Glu363Lys,ENST00000594335,;	A	ENSG00000196218	ENST00000359596	Transcript	missense_variant	7633	7633	2545	E/K	Gag/Aag	rs752762748	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	benign(0.004)	48/106	.	hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCACCGAGATG	byFrequency	2	BLCA
MAP4K1	0	.	GRCh37	19	39096346	39096346	+	Missense_Mutation	SNP	C	C	T	rs760256139	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>A	p.Glu409Lys	p.E409K	ENST00000591517	18/32	29	23	5	29	29	0	MAP4K1,missense_variant,p.Glu409Lys,ENST00000396857,;MAP4K1,missense_variant,p.Glu405Lys,ENST00000589130,;MAP4K1,missense_variant,p.Glu409Lys,ENST00000591517,;MAP4K1,missense_variant,p.Glu71Lys,ENST00000423454,;MAP4K1,missense_variant,p.Glu113Lys,ENST00000591921,;MAP4K1,intron_variant,,ENST00000586296,;CTB-186G2.1,downstream_gene_variant,,ENST00000589557,;MAP4K1,downstream_gene_variant,,ENST00000589002,;MAP4K1,3_prime_UTR_variant,,ENST00000585583,;	T	ENSG00000104814	ENST00000591517	Transcript	missense_variant	1254	1225	409	E/K	Gag/Aag	rs760256139	.	.	-1	MAP4K1	HGNC	6863	protein_coding	YES	CCDS59385.1	ENSP00000465039	M4K1_HUMAN	.	UPI00000747ED	.	tolerated(0.16)	benign(0.194)	18/32	.	hmmpanther:PTHR24361:SF88,hmmpanther:PTHR24361,PIRSF_domain:PIRSF038172,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCGTCTG	byFrequency|byCluster	5	BLCA
FCGBP	0	.	GRCh37	19	40383904	40383904	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9706G>A	p.Gly3236Arg	p.G3236R	ENST00000221347	21/36	13	8	5	12	12	0	FCGBP,missense_variant,p.Gly3236Arg,ENST00000221347,;	T	ENSG00000090920	ENST00000221347	Transcript	missense_variant	9714	9706	3236	G/R	Ggg/Agg	.	.	.	-1	FCGBP	HGNC	13572	protein_coding	YES	CCDS12546.1	ENSP00000221347	FCGBP_HUMAN	.	UPI00001B0455	.	.	probably_damaging(0.989)	21/36	.	hmmpanther:PTHR11339:SF244,hmmpanther:PTHR11339,Pfam_domain:PF12714,SMART_domains:SM00215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.C3235C|c.9705C>T|7	RADIA|VARSCANS	AGGCCCGCAGC	.	2	BLCA
LTBP4	0	.	GRCh37	19	41135318	41135318	+	Missense_Mutation	SNP	G	G	A	rs543939793	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4735G>A	p.Glu1579Lys	p.E1579K	ENST00000308370	34/34	117	101	16	90	90	0	LTBP4,missense_variant,p.Glu1512Lys,ENST00000396819,;LTBP4,missense_variant,p.Glu1542Lys,ENST00000204005,;LTBP4,missense_variant,p.Glu1579Lys,ENST00000308370,;LTBP4,3_prime_UTR_variant,,ENST00000545697,;LTBP4,3_prime_UTR_variant,,ENST00000243562,;LTBP4,downstream_gene_variant,,ENST00000599724,;LTBP4,downstream_gene_variant,,ENST00000601032,;LTBP4,non_coding_transcript_exon_variant,,ENST00000602240,;LTBP4,non_coding_transcript_exon_variant,,ENST00000598677,;LTBP4,non_coding_transcript_exon_variant,,ENST00000600509,;LTBP4,non_coding_transcript_exon_variant,,ENST00000599225,;LTBP4,non_coding_transcript_exon_variant,,ENST00000601209,;LTBP4,non_coding_transcript_exon_variant,,ENST00000598166,;LTBP4,non_coding_transcript_exon_variant,,ENST00000595118,;LTBP4,non_coding_transcript_exon_variant,,ENST00000318809,;LTBP4,downstream_gene_variant,,ENST00000597151,;	A	ENSG00000090006	ENST00000308370	Transcript	missense_variant	4735	4735	1579	E/K	Gag/Aag	rs543939793	.	.	1	LTBP4	HGNC	6717	protein_coding	YES	.	ENSP00000311905	LTBP4_HUMAN	.	UPI000179A7A0	.	deleterious(0.01)	possibly_damaging(0.631)	34/34	.	Superfamily_domains:SSF57184,SMART_domains:SM00181,SMART_domains:SM00179,Pfam_domain:PF07645,Gene3D:3.90.290.10,PROSITE_patterns:PS01187,hmmpanther:PTHR24034,hmmpanther:PTHR24034:SF41,PROSITE_profiles:PS50026	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGATGAGGCC	by1000G	4	BLCA
CYP2A7	0	.	GRCh37	19	41384746	41384746	+	Missense_Mutation	SNP	C	C	G	rs775290715	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.750G>C	p.Lys250Asn	p.K250N	ENST00000301146	5/9	78	60	17	59	59	0	CYP2A7,missense_variant,p.Lys199Asn,ENST00000291764,;CYP2A7,missense_variant,p.Lys250Asn,ENST00000301146,;CYP2A7,non_coding_transcript_exon_variant,,ENST00000598264,;CTC-490E21.12,intron_variant,,ENST00000601627,;CYP2A7,upstream_gene_variant,,ENST00000602008,;CYP2A7,downstream_gene_variant,,ENST00000594332,;	G	ENSG00000198077	ENST00000301146	Transcript	missense_variant	1292	750	250	K/N	aaG/aaC	rs775290715	.	.	-1	CYP2A7	HGNC	2611	protein_coding	YES	CCDS12569.1	ENSP00000301146	CP2A7_HUMAN	.	UPI000013E6D5	.	deleterious(0.01)	possibly_damaging(0.876)	5/9	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF96,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTTGGC	byFrequency|byCluster	5	BLCA
CYP2A7	0	.	GRCh37	19	41388065	41388065	+	Silent	SNP	C	C	G	rs532990146	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51G>C	p.%3D	p.V17V	ENST00000301146	1/9	53	44	9	64	64	0	CYP2A7,synonymous_variant,p.%3D,ENST00000291764,;CYP2A7,synonymous_variant,p.%3D,ENST00000301146,;CYP2A7,synonymous_variant,p.%3D,ENST00000594332,;CTC-490E21.12,intron_variant,,ENST00000601627,;CYP2A7,upstream_gene_variant,,ENST00000598264,;	G	ENSG00000198077	ENST00000301146	Transcript	synonymous_variant	593	51	17	V	gtG/gtC	rs532990146	.	.	-1	CYP2A7	HGNC	2611	protein_coding	YES	CCDS12569.1	ENSP00000301146	CP2A7_HUMAN	.	UPI000013E6D5	.	.	.	1/9	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF96	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATCACAGT	by1000G	5	BLCA
BCKDHA	0	.	GRCh37	19	41928903	41928903	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.996G>C	p.Arg332Ser	p.R332S	ENST00000269980	8/9	14	10	3	11	11	0	BCKDHA,missense_variant,p.Arg335Ser,ENST00000457836,;BCKDHA,missense_variant,p.Arg366Ser,ENST00000595085,;CTC-435M10.3,missense_variant,p.Arg366Ser,ENST00000540732,;BCKDHA,missense_variant,p.Arg332Ser,ENST00000269980,;BCKDHA,missense_variant,p.Arg303Ser,ENST00000542943,;BCKDHA,upstream_gene_variant,,ENST00000544905,;BCKDHA,downstream_gene_variant,,ENST00000541315,;B3GNT8,downstream_gene_variant,,ENST00000321702,;CTC-435M10.6,upstream_gene_variant,,ENST00000598887,;B3GNT8,downstream_gene_variant,,ENST00000601379,;B3GNT8,downstream_gene_variant,,ENST00000601616,;BCKDHA,downstream_gene_variant,,ENST00000535632,;BCKDHA,downstream_gene_variant,,ENST00000538423,;BCKDHA,downstream_gene_variant,,ENST00000545787,;	C	ENSG00000248098	ENST00000269980	Transcript	missense_variant	1364	996	332	R/S	agG/agC	.	.	.	1	BCKDHA	HGNC	986	protein_coding	YES	CCDS12581.1	ENSP00000269980	ODBA_HUMAN	Q9UMB3_HUMAN,Q59EI3_HUMAN	UPI0000130BC4	.	deleterious(0)	probably_damaging(1)	8/9	.	Superfamily_domains:SSF52518,Pfam_domain:PF00676,Gene3D:3.40.50.970,hmmpanther:PTHR11516:SF1,hmmpanther:PTHR11516	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGATCGG	.	4	BLCA
PSG5	0	.	GRCh37	19	43683262	43683262	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.431-2962G>A	.	.	ENST00000366175	.	278	240	37	218	218	0	PSG5,missense_variant,p.Glu160Lys,ENST00000599812,;PSG5,intron_variant,,ENST00000407356,;PSG5,intron_variant,,ENST00000404580,;PSG5,intron_variant,,ENST00000407568,;PSG5,intron_variant,,ENST00000366175,;PSG5,intron_variant,,ENST00000342951,;PSG5,downstream_gene_variant,,ENST00000401992,;PSG5,downstream_gene_variant,,ENST00000489220,;PSG5,intron_variant,,ENST00000600817,;	T	ENSG00000204941	ENST00000366175	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PSG5	HGNC	9522	protein_coding	YES	CCDS12617.1	ENSP00000382334	PSG5_HUMAN	.	UPI000013C7B9	.	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCCCTGG	.	4	BLCA
PHLDB3	0	.	GRCh37	19	43979513	43979513	+	3'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*49G>A	.	.	ENST00000292140	16/16	27	24	3	29	29	0	PHLDB3,3_prime_UTR_variant,,ENST00000292140,;PHLDB3,downstream_gene_variant,,ENST00000600660,;PHLDB3,downstream_gene_variant,,ENST00000596141,;PHLDB3,non_coding_transcript_exon_variant,,ENST00000595498,;PHLDB3,downstream_gene_variant,,ENST00000598849,;	T	ENSG00000176531	ENST00000292140	Transcript	3_prime_UTR_variant	2333	.	.	.	.	.	.	.	-1	PHLDB3	HGNC	30499	protein_coding	YES	CCDS12621.2	ENSP00000292140	PHLB3_HUMAN	M0R3I7_HUMAN,M0R038_HUMAN	UPI00015C725F	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCCCGCGCC	.	2	BLCA
ZNF284	0	.	GRCh37	19	44590807	44590807	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1176C>T	p.%3D	p.V392V	ENST00000421176	5/5	134	116	18	113	113	0	ZNF284,synonymous_variant,p.%3D,ENST00000421176,;RNU6-902P,upstream_gene_variant,,ENST00000517212,;ZNF223,3_prime_UTR_variant,,ENST00000591793,;	T	ENSG00000186026	ENST00000421176	Transcript	synonymous_variant	1392	1176	392	V	gtC/gtT	.	.	.	1	ZNF284	HGNC	13078	protein_coding	YES	CCDS46099.1	ENSP00000411032	ZN284_HUMAN	.	UPI00005788EA	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24388,hmmpanther:PTHR24388:SF2,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGGTCCACAA	.	4	BLCA
ERCC1	0	.	GRCh37	19	45920135	45920135	+	Silent	SNP	G	G	C	rs753735571	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546C>G	p.%3D	p.L182L	ENST00000013807	5/8	25	20	4	17	17	0	ERCC1,synonymous_variant,p.%3D,ENST00000589381,;ERCC1,synonymous_variant,p.%3D,ENST00000591636,;ERCC1,synonymous_variant,p.%3D,ENST00000590701,;ERCC1,synonymous_variant,p.%3D,ENST00000589165,;ERCC1,synonymous_variant,p.%3D,ENST00000300853,;ERCC1,synonymous_variant,p.%3D,ENST00000423698,;ERCC1,synonymous_variant,p.%3D,ENST00000013807,;ERCC1,synonymous_variant,p.%3D,ENST00000592083,;ERCC1,synonymous_variant,p.%3D,ENST00000592023,;ERCC1,synonymous_variant,p.%3D,ENST00000340192,;ERCC1,downstream_gene_variant,,ENST00000589214,;ERCC1,upstream_gene_variant,,ENST00000592444,;ERCC1,upstream_gene_variant,,ENST00000592410,;ERCC1,upstream_gene_variant,,ENST00000588738,;ERCC1,3_prime_UTR_variant,,ENST00000587888,;ERCC1,non_coding_transcript_exon_variant,,ENST00000588300,;ERCC1,non_coding_transcript_exon_variant,,ENST00000592905,;	C	ENSG00000012061	ENST00000013807	Transcript	synonymous_variant	738	546	182	L	ctC/ctG	rs753735571	.	.	-1	ERCC1	HGNC	3433	protein_coding	YES	CCDS12663.1	ENSP00000013807	ERCC1_HUMAN	Q8WWH8_HUMAN,K7ER89_HUMAN,K7EP14_HUMAN,K7EK97_HUMAN	UPI000019C835	.	.	.	5/8	.	hmmpanther:PTHR12749:SF0,hmmpanther:PTHR12749,TIGRFAM_domain:TIGR00597,Superfamily_domains:SSF52980	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTGAGGGC	.	5	BLCA
VASP	0	.	GRCh37	19	46026926	46026926	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846G>A	p.%3D	p.E282E	ENST00000245932	8/13	36	27	9	27	27	0	VASP,synonymous_variant,p.%3D,ENST00000245932,;VASP,downstream_gene_variant,,ENST00000590603,;VASP,downstream_gene_variant,,ENST00000592139,;OPA3,downstream_gene_variant,,ENST00000323060,;VASP,downstream_gene_variant,,ENST00000586619,;VASP,synonymous_variant,p.%3D,ENST00000588482,;VASP,3_prime_UTR_variant,,ENST00000586014,;VASP,non_coding_transcript_exon_variant,,ENST00000590459,;VASP,non_coding_transcript_exon_variant,,ENST00000588463,;VASP,upstream_gene_variant,,ENST00000587444,;VASP,upstream_gene_variant,,ENST00000588273,;	A	ENSG00000125753	ENST00000245932	Transcript	synonymous_variant	1202	846	282	E	gaG/gaA	.	.	.	1	VASP	HGNC	12652	protein_coding	YES	CCDS33051.1	ENSP00000245932	VASP_HUMAN	K7ENR7_HUMAN	UPI0000001C69	.	.	.	8/13	.	hmmpanther:PTHR11202:SF12,hmmpanther:PTHR11202,PIRSF_domain:PIRSF038010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGAGAAAAC	.	5	BLCA
SNRPD2	0	.	GRCh37	19	46191771	46191771	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.56G>A	p.Arg19Gln	p.R19Q	ENST00000342669	2/3	116	96	19	118	118	0	SNRPD2,missense_variant,p.Arg19Gln,ENST00000588301,;SNRPD2,missense_variant,p.Arg9Gln,ENST00000587367,;SNRPD2,missense_variant,p.Arg9Gln,ENST00000391932,;SNRPD2,missense_variant,p.Arg9Gln,ENST00000588599,;SNRPD2,missense_variant,p.Arg19Gln,ENST00000342669,;SNRPD2,missense_variant,p.Arg19Gln,ENST00000590212,;SNRPD2,intron_variant,,ENST00000585392,;QPCTL,upstream_gene_variant,,ENST00000366382,;QPCTL,upstream_gene_variant,,ENST00000012049,;GIPR,downstream_gene_variant,,ENST00000590918,;SNRPD2,downstream_gene_variant,,ENST00000587579,;QPCTL,upstream_gene_variant,,ENST00000591606,;	T	ENSG00000125743	ENST00000342669	Transcript	missense_variant	501	56	19	R/Q	cGa/cAa	.	.	.	-1	SNRPD2	HGNC	11159	protein_coding	YES	CCDS33053.1	ENSP00000342374	SMD2_HUMAN	K7EJB5_HUMAN	UPI0000028222	.	tolerated(0.63)	benign(0.007)	2/3	.	hmmpanther:PTHR12777	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCGCTTC	.	5	BLCA
RSPH6A	0	.	GRCh37	19	46317957	46317957	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478G>A	p.Gly160Ser	p.G160S	ENST00000221538	1/6	61	48	13	57	57	0	RSPH6A,missense_variant,p.Gly160Ser,ENST00000221538,;RSPH6A,missense_variant,p.Gly160Ser,ENST00000597055,;RSPH6A,upstream_gene_variant,,ENST00000600188,;SYMPK,downstream_gene_variant,,ENST00000245934,;SYMPK,downstream_gene_variant,,ENST00000598155,;SYMPK,downstream_gene_variant,,ENST00000599460,;SYMPK,downstream_gene_variant,,ENST00000599814,;SYMPK,downstream_gene_variant,,ENST00000593504,;SYMPK,downstream_gene_variant,,ENST00000600237,;SYMPK,downstream_gene_variant,,ENST00000598364,;SYMPK,downstream_gene_variant,,ENST00000596824,;SYMPK,downstream_gene_variant,,ENST00000598329,;	T	ENSG00000104941	ENST00000221538	Transcript	missense_variant	621	478	160	G/S	Ggt/Agt	.	.	.	-1	RSPH6A	HGNC	14241	protein_coding	YES	CCDS12675.1	ENSP00000221538	RSH6A_HUMAN	M0R103_HUMAN	UPI0000037C58	.	tolerated_low_confidence(0.85)	benign(0.002)	1/6	.	hmmpanther:PTHR13159,hmmpanther:PTHR13159:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCACCTTCAG	.	5	BLCA
DHX34	0	.	GRCh37	19	47879256	47879256	+	Missense_Mutation	SNP	G	G	A	rs775749081	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2383G>A	p.Glu795Lys	p.E795K	ENST00000328771	11/17	92	77	14	83	83	0	DHX34,missense_variant,p.Glu795Lys,ENST00000328771,;DHX34,downstream_gene_variant,,ENST00000471451,;DHX34,missense_variant,p.Glu184Lys,ENST00000460681,;DHX34,non_coding_transcript_exon_variant,,ENST00000486327,;	A	ENSG00000134815	ENST00000328771	Transcript	missense_variant	2732	2383	795	E/K	Gag/Aag	rs775749081,COSM712164	.	.	1	DHX34	HGNC	16719	protein_coding	YES	CCDS12700.1	ENSP00000331907	DHX34_HUMAN	.	UPI0000202759	.	tolerated(0.91)	benign(0.108)	11/17	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF110,Pfam_domain:PF07717	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGCGAGCAG	byFrequency	5	BLCA
PLIN3	0	.	GRCh37	19	4839528	4839528	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981C>T	p.%3D	p.L327L	ENST00000221957	8/8	35	28	7	29	29	0	PLIN3,synonymous_variant,p.%3D,ENST00000589163,;PLIN3,synonymous_variant,p.%3D,ENST00000585479,;PLIN3,synonymous_variant,p.%3D,ENST00000221957,;PLIN3,synonymous_variant,p.%3D,ENST00000592528,;CTC-518P12.6,downstream_gene_variant,,ENST00000591657,;	A	ENSG00000105355	ENST00000221957	Transcript	synonymous_variant	1158	981	327	L	ctC/ctT	.	.	.	-1	PLIN3	HGNC	16893	protein_coding	YES	CCDS12137.1	ENSP00000221957	PLIN3_HUMAN	K7EL96_HUMAN,K7EJD0_HUMAN	UPI000013C7E2	.	.	.	8/8	.	hmmpanther:PTHR14024,Pfam_domain:PF03036,PIRSF_domain:PIRSF036881,Superfamily_domains:0043810	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTGAGCGC	.	5	BLCA
NTN5	0	.	GRCh37	19	49174183	49174183	+	Missense_Mutation	SNP	C	C	G	rs753500994	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.61G>C	p.Asp21His	p.D21H	ENST00000270235	2/7	35	26	9	21	21	0	NTN5,missense_variant,p.Asp21His,ENST00000270235,;NTN5,intron_variant,,ENST00000596844,;SEC1P,intron_variant,,ENST00000430145,;SEC1P,intron_variant,,ENST00000474419,;SEC1P,intron_variant,,ENST00000483163,;NTN5,non_coding_transcript_exon_variant,,ENST00000600468,;SEC1P,intron_variant,,ENST00000521217,;	G	ENSG00000142233	ENST00000270235	Transcript	missense_variant	157	61	21	D/H	Gat/Cat	rs753500994	.	.	-1	NTN5	HGNC	25208	protein_coding	YES	CCDS33068.1	ENSP00000270235	NET5_HUMAN	M0QXZ9_HUMAN	UPI000007032D	.	tolerated(0.22)	benign(0.019)	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATCGTAGC	byFrequency	5	BLCA
FGF21	0	.	GRCh37	19	49259604	49259604	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111C>T	p.%3D	p.L37L	ENST00000593756	2/4	49	38	10	31	31	0	FGF21,synonymous_variant,p.%3D,ENST00000593756,;FGF21,synonymous_variant,p.%3D,ENST00000222157,;FUT1,upstream_gene_variant,,ENST00000310160,;FUT1,upstream_gene_variant,,ENST00000601931,;FUT1,upstream_gene_variant,,ENST00000597220,;FUT1,upstream_gene_variant,,ENST00000599826,;FUT1,upstream_gene_variant,,ENST00000601988,;	T	ENSG00000105550	ENST00000593756	Transcript	synonymous_variant	683	111	37	L	ctC/ctT	.	.	.	1	FGF21	HGNC	3678	protein_coding	YES	CCDS12734.1	ENSP00000471477	FGF21_HUMAN	.	UPI000003BE44	.	.	.	2/4	.	hmmpanther:PTHR11486:SF62,hmmpanther:PTHR11486,PIRSF_domain:PIRSF037961	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCCTGCA	.	5	BLCA
CGB	0	.	GRCh37	19	49526323	49526323	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318C>T	p.%3D	p.L106L	ENST00000357383	3/3	125	114	10	115	115	0	CGB,synonymous_variant,p.%3D,ENST00000357383,;CTB-60B18.6,synonymous_variant,p.%3D,ENST00000591656,;CTB-60B18.6,downstream_gene_variant,,ENST00000604577,;CTB-60B18.10,upstream_gene_variant,,ENST00000600007,;NTF6A,downstream_gene_variant,,ENST00000591175,;	A	ENSG00000104827	ENST00000357383	Transcript	synonymous_variant	680	318	106	L	ctC/ctT	.	.	.	-1	CGB	HGNC	1886	protein_coding	YES	CCDS12749.1	ENSP00000349954	CGB2_HUMAN,CGHB_HUMAN	K7ELM3_HUMAN,J3KNZ1_HUMAN	UPI0000035497	.	.	.	3/3	.	Superfamily_domains:SSF57501,SMART_domains:SM00068,Gene3D:2.10.90.10,Pfam_domain:PF00007,PROSITE_patterns:PS00689,hmmpanther:PTHR11515,hmmpanther:PTHR11515:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	CAGCTGAGAGC	.	2	BLCA
PPFIA3	0	.	GRCh37	19	49639073	49639073	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1558C>T	p.Gln520Ter	p.Q520*	ENST00000334186	14/30	85	69	16	74	74	0	PPFIA3,stop_gained,p.Gln520Ter,ENST00000334186,;PPFIA3,stop_gained,p.Gln520Ter,ENST00000602351,;PPFIA3,stop_gained,p.Gln520Ter,ENST00000602655,;PPFIA3,non_coding_transcript_exon_variant,,ENST00000421230,;PPFIA3,non_coding_transcript_exon_variant,,ENST00000602716,;	T	ENSG00000177380	ENST00000334186	Transcript	stop_gained	1907	1558	520	Q/*	Cag/Tag	.	.	.	1	PPFIA3	HGNC	9247	protein_coding	YES	CCDS12758.1	ENSP00000335614	LIPA3_HUMAN	R4GNF1_HUMAN	UPI00001AE464	.	.	.	14/30	.	hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCAGGCA	.	5	BLCA
CPT1C	0	.	GRCh37	19	50195567	50195567	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58G>C	p.Glu20Gln	p.E20Q	ENST00000392518	3/20	46	38	8	35	35	0	CPT1C,missense_variant,p.Glu20Gln,ENST00000602019,;CPT1C,missense_variant,p.Glu20Gln,ENST00000598293,;CPT1C,missense_variant,p.Glu20Gln,ENST00000323446,;CPT1C,missense_variant,p.Glu20Gln,ENST00000595969,;CPT1C,missense_variant,p.Glu20Gln,ENST00000594587,;CPT1C,missense_variant,p.Glu20Gln,ENST00000392518,;CPT1C,missense_variant,p.Glu20Gln,ENST00000354199,;CPT1C,missense_variant,p.Glu20Gln,ENST00000598396,;CPT1C,missense_variant,p.Glu20Gln,ENST00000405931,;PRMT1,downstream_gene_variant,,ENST00000391851,;PRMT1,downstream_gene_variant,,ENST00000532489,;ADM5,downstream_gene_variant,,ENST00000420022,;PRMT1,downstream_gene_variant,,ENST00000454376,;CTB-33G10.6,upstream_gene_variant,,ENST00000596472,;CPT1C,non_coding_transcript_exon_variant,,ENST00000598714,;PRMT1,downstream_gene_variant,,ENST00000527866,;PRMT1,downstream_gene_variant,,ENST00000530361,;CPT1C,missense_variant,p.Glu20Gln,ENST00000596922,;CPT1C,missense_variant,p.Glu20Gln,ENST00000594038,;CPT1C,missense_variant,p.Glu20Gln,ENST00000595568,;CPT1C,missense_variant,p.Glu20Gln,ENST00000598259,;CPT1C,non_coding_transcript_exon_variant,,ENST00000599023,;CPT1C,non_coding_transcript_exon_variant,,ENST00000295404,;CPT1C,non_coding_transcript_exon_variant,,ENST00000600944,;	C	ENSG00000169169	ENST00000392518	Transcript	missense_variant	430	58	20	E/Q	Gaa/Caa	.	.	.	1	CPT1C	HGNC	18540	protein_coding	YES	CCDS12779.1	ENSP00000376303	CPT1C_HUMAN	M0R2V3_HUMAN,M0R115_HUMAN,M0QZ13_HUMAN,B3KU49_HUMAN	UPI0000071C78	.	deleterious(0.01)	benign(0.193)	3/20	.	hmmpanther:PTHR22589,hmmpanther:PTHR22589:SF55	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAAGTG	.	5	BLCA
LRRC4B	0	.	GRCh37	19	51022267	51022267	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.703G>C	p.Glu235Gln	p.E235Q	ENST00000599957	3/3	38	30	7	25	25	0	LRRC4B,missense_variant,p.Glu235Gln,ENST00000389201,;LRRC4B,missense_variant,p.Glu235Gln,ENST00000600381,;LRRC4B,missense_variant,p.Glu235Gln,ENST00000599957,;ASPDH,upstream_gene_variant,,ENST00000598657,;ASPDH,upstream_gene_variant,,ENST00000601207,;ASPDH,upstream_gene_variant,,ENST00000376916,;ASPDH,upstream_gene_variant,,ENST00000597030,;ASPDH,upstream_gene_variant,,ENST00000593569,;ASPDH,upstream_gene_variant,,ENST00000601287,;	G	ENSG00000131409	ENST00000599957	Transcript	missense_variant	901	703	235	E/Q	Gag/Cag	.	.	.	-1	LRRC4B	HGNC	25042	protein_coding	YES	CCDS42595.1	ENSP00000471502	LRC4B_HUMAN	M0R2G0_HUMAN,A0PJJ4_HUMAN	UPI00000497E7	.	deleterious(0.01)	possibly_damaging(0.886)	3/3	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369,hmmpanther:PTHR24369:SF7,Gene3D:3.80.10.10,Pfam_domain:PF00560,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCAGCT	.	5	BLCA
SIGLEC10	0	.	GRCh37	19	51914354	51914354	+	Silent	SNP	C	C	T	rs774632621	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2093G>A	p.%3D	p.%3D	ENST00000356298	11/12	78	68	10	74	74	0	SIGLEC10,stop_retained_variant,p.%3D,ENST00000436984,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000353836,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000356298,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000525998,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000441969,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000432469,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000339313,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000439889,;SIGLEC10,stop_retained_variant,p.%3D,ENST00000442846,;SIGLEC10,downstream_gene_variant,,ENST00000529627,;CTD-2616J11.3,upstream_gene_variant,,ENST00000532473,;CTD-2616J11.2,upstream_gene_variant,,ENST00000532688,;CTD-2616J11.2,upstream_gene_variant,,ENST00000526996,;SIGLEC10,non_coding_transcript_exon_variant,,ENST00000357375,;	T	ENSG00000142512	ENST00000356298	Transcript	stop_retained_variant	2210	2093	698	*	tGa/tAa	rs774632621	.	.	-1	SIGLEC10	HGNC	15620	protein_coding	YES	CCDS12832.1	ENSP00000348646	SIG10_HUMAN	.	UPI0000047E1A	.	.	.	11/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCATTGG	.	4	BLCA
ZNF836	0	.	GRCh37	19	52658816	52658816	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2120C>G	p.Ser707Ter	p.S707*	ENST00000322146	5/5	73	66	7	84	84	0	ZNF836,stop_gained,p.Ser707Ter,ENST00000597252,;ZNF836,stop_gained,p.Ser707Ter,ENST00000322146,;ZNF836,downstream_gene_variant,,ENST00000596428,;ZNF836,downstream_gene_variant,,ENST00000597065,;CTC-471J1.8,intron_variant,,ENST00000598982,;CTC-471J1.8,intron_variant,,ENST00000594362,;ZNF836,upstream_gene_variant,,ENST00000599618,;	C	ENSG00000196267	ENST00000322146	Transcript	stop_gained	2642	2120	707	S/*	tCa/tGa	.	.	.	-1	ZNF836	HGNC	34333	protein_coding	YES	CCDS46162.1	ENSP00000325038	ZN836_HUMAN	M0QZ88_HUMAN,M0QYS4_HUMAN	UPI00001D818C	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF229,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTTTTGAACTT	.	3	BLCA
ZNF468	0	.	GRCh37	19	53344811	53344811	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736G>A	p.Asp246Asn	p.D246N	ENST00000595646	4/4	127	102	24	117	117	0	ZNF468,missense_variant,p.Asp193Asn,ENST00000390651,;ZNF468,missense_variant,p.Asp193Asn,ENST00000396409,;ZNF468,missense_variant,p.Asp246Asn,ENST00000595646,;ZNF468,3_prime_UTR_variant,,ENST00000243639,;ZNF28,intron_variant,,ENST00000596559,;ZNF28,intron_variant,,ENST00000594602,;ZNF468,downstream_gene_variant,,ENST00000601847,;ZNF468,downstream_gene_variant,,ENST00000597924,;ZNF468,downstream_gene_variant,,ENST00000601980,;ZNF468,downstream_gene_variant,,ENST00000602144,;	T	ENSG00000204604	ENST00000595646	Transcript	missense_variant	857	736	246	D/N	Gat/Aat	.	.	.	-1	ZNF468	HGNC	33105	protein_coding	YES	CCDS33094.1	ENSP00000470381	ZN468_HUMAN	.	UPI00001D8191	.	tolerated(0.49)	probably_damaging(0.945)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24407:SF14,hmmpanther:PTHR24407,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCACATT	.	5	BLCA
ZNF816	0	.	GRCh37	19	53453155	53453155	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1873G>A	p.Glu625Lys	p.E625K	ENST00000357666	5/5	182	166	16	140	140	0	ZNF816,missense_variant,p.Glu625Lys,ENST00000444460,;ZNF816,missense_variant,p.Glu625Lys,ENST00000357666,;ZNF816,intron_variant,,ENST00000434371,;ZNF321P,intron_variant,,ENST00000391777,;ZNF816,downstream_gene_variant,,ENST00000438970,;ZNF816,downstream_gene_variant,,ENST00000332302,;ZNF816,downstream_gene_variant,,ENST00000391786,;ZNF816,downstream_gene_variant,,ENST00000270457,;ZNF816,downstream_gene_variant,,ENST00000457013,;ZNF816,downstream_gene_variant,,ENST00000535506,;	T	ENSG00000180257	ENST00000357666	Transcript	missense_variant	2174	1873	625	E/K	Gag/Aag	.	.	.	-1	ZNF816	HGNC	26995	protein_coding	YES	CCDS33096.1	ENSP00000350295	ZN816_HUMAN	I3L0H5_HUMAN	UPI0000251D78	.	tolerated(0.07)	benign(0.07)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF236,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACACTCATTAC	.	3	BLCA
CNOT3	0	.	GRCh37	19	54646887	54646887	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58G>A	p.Glu20Lys	p.E20K	ENST00000406403	2/17	203	170	32	201	201	0	CNOT3,missense_variant,p.Glu20Lys,ENST00000406403,;CNOT3,missense_variant,p.Glu20Lys,ENST00000221232,;CNOT3,5_prime_UTR_variant,,ENST00000358389,;CNOT3,upstream_gene_variant,,ENST00000440571,;CNOT3,non_coding_transcript_exon_variant,,ENST00000482247,;CNOT3,upstream_gene_variant,,ENST00000447684,;	A	ENSG00000088038	ENST00000406403	Transcript	missense_variant	1661	58	20	E/K	Gag/Aag	COSM96799	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	deleterious(0)	probably_damaging(0.994)	2/17	.	PIRSF_domain:PIRSF005290,Pfam_domain:PF04065,hmmpanther:PTHR23326,hmmpanther:PTHR23326:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.E20K|c.58G>A|7	RADIA|MUTECT|MUSE|VARSCANS	TGTCCGAGGGC	.	4	BLCA
LILRB2	0	.	GRCh37	19	54780688	54780688	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1456C>T	p.Arg486Ter	p.R486*	ENST00000391749	10/14	167	139	28	176	176	0	LILRB2,stop_gained,p.Arg370Ter,ENST00000434421,;LILRB2,stop_gained,p.Arg485Ter,ENST00000314446,;LILRB2,stop_gained,p.Arg485Ter,ENST00000391748,;LILRB2,stop_gained,p.Arg486Ter,ENST00000391749,;LILRB2,stop_gained,p.Arg486Ter,ENST00000391746,;LILRB2,downstream_gene_variant,,ENST00000471216,;LILRB2,stop_gained,p.Arg162Ter,ENST00000455108,;LILRB2,non_coding_transcript_exon_variant,,ENST00000493242,;	A	ENSG00000131042	ENST00000391749	Transcript	stop_gained	1728	1456	486	R/*	Cga/Tga	.	.	.	-1	LILRB2	HGNC	6606	protein_coding	YES	CCDS12886.1	ENSP00000375629	LIRB2_HUMAN	C9JF29_HUMAN	UPI00000707E4	.	.	.	10/14	.	hmmpanther:PTHR11738:SF92,hmmpanther:PTHR11738	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R483Q|c.1448G>A|3	RADIA|MUTECT|MUSE|VARSCANS	ACGTCGATGTC	.	4	BLCA
LILRB2	0	.	GRCh37	19	54782818	54782818	+	Silent	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.804T>A	p.%3D	p.P268P	ENST00000391749	6/14	101	83	18	75	75	0	LILRB2,synonymous_variant,p.%3D,ENST00000434421,;LILRB2,synonymous_variant,p.%3D,ENST00000314446,;LILRB2,synonymous_variant,p.%3D,ENST00000391748,;LILRB2,synonymous_variant,p.%3D,ENST00000391749,;LILRB2,synonymous_variant,p.%3D,ENST00000391746,;MIR4752,upstream_gene_variant,,ENST00000579672,;LILRB2,downstream_gene_variant,,ENST00000471216,;LILRB2,non_coding_transcript_exon_variant,,ENST00000493242,;LILRB2,upstream_gene_variant,,ENST00000455108,;	T	ENSG00000131042	ENST00000391749	Transcript	synonymous_variant	1076	804	268	P	ccT/ccA	.	.	.	-1	LILRB2	HGNC	6606	protein_coding	YES	CCDS12886.1	ENSP00000375629	LIRB2_HUMAN	C9JF29_HUMAN	UPI00000707E4	.	.	.	6/14	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00408,Pfam_domain:PF13895,Gene3D:2.60.40.10,hmmpanther:PTHR11738:SF92,hmmpanther:PTHR11738,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCCAGGGAG	.	5	BLCA
LAIR1	0	.	GRCh37	19	54868131	54868131	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>T	p.%3D	p.F184F	ENST00000391742	6/10	75	63	12	67	67	0	LAIR1,synonymous_variant,p.%3D,ENST00000474878,;LAIR1,synonymous_variant,p.%3D,ENST00000391742,;LAIR1,synonymous_variant,p.%3D,ENST00000348231,;LAIR1,synonymous_variant,p.%3D,ENST00000434277,;LAIR1,synonymous_variant,p.%3D,ENST00000391743,;LAIR1,synonymous_variant,p.%3D,ENST00000313038,;LAIR1,downstream_gene_variant,,ENST00000438193,;LAIR1,downstream_gene_variant,,ENST00000444687,;CTD-2587H19.1,upstream_gene_variant,,ENST00000596234,;LAIR1,non_coding_transcript_exon_variant,,ENST00000463489,;LAIR1,downstream_gene_variant,,ENST00000484116,;LAIR1,downstream_gene_variant,,ENST00000480122,;LAIR1,downstream_gene_variant,,ENST00000468656,;LAIR1,3_prime_UTR_variant,,ENST00000391741,;LAIR1,3_prime_UTR_variant,,ENST00000440716,;LAIR1,3_prime_UTR_variant,,ENST00000418556,;LAIR1,non_coding_transcript_exon_variant,,ENST00000460312,;LAIR1,non_coding_transcript_exon_variant,,ENST00000475389,;LAIR1,non_coding_transcript_exon_variant,,ENST00000467269,;LAIR1,non_coding_transcript_exon_variant,,ENST00000498511,;LAIR1,downstream_gene_variant,,ENST00000427131,;LAIR1,downstream_gene_variant,,ENST00000420483,;LAIR1,downstream_gene_variant,,ENST00000423853,;LAIR1,downstream_gene_variant,,ENST00000436513,;	A	ENSG00000167613	ENST00000391742	Transcript	synonymous_variant	705	552	184	F	ttC/ttT	.	.	.	-1	LAIR1	HGNC	6477	protein_coding	YES	CCDS12891.1	ENSP00000375622	LAIR1_HUMAN	.	UPI000011A058	.	.	.	6/10	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11738:SF12,hmmpanther:PTHR11738	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCAGAAGAG	.	4	BLCA
TMEM150B	0	.	GRCh37	19	55828287	55828287	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372C>T	p.%3D	p.F124F	ENST00000326652	7/8	25	21	4	20	20	0	TMEM150B,synonymous_variant,p.%3D,ENST00000585918,;TMEM150B,synonymous_variant,p.%3D,ENST00000438693,;TMEM150B,synonymous_variant,p.%3D,ENST00000326652,;TMEM150B,synonymous_variant,p.%3D,ENST00000591570,;BRSK1,downstream_gene_variant,,ENST00000309383,;BRSK1,downstream_gene_variant,,ENST00000590333,;BRSK1,downstream_gene_variant,,ENST00000326848,;CTD-2105E13.14,upstream_gene_variant,,ENST00000596786,;TMEM150B,missense_variant,p.His82Tyr,ENST00000592731,;TMEM150B,3_prime_UTR_variant,,ENST00000586609,;TMEM150B,3_prime_UTR_variant,,ENST00000592603,;TMEM150B,downstream_gene_variant,,ENST00000592891,;	A	ENSG00000180061	ENST00000326652	Transcript	synonymous_variant	555	372	124	F	ttC/ttT	.	.	.	-1	TMEM150B	HGNC	34415	protein_coding	YES	CCDS42629.1	ENSP00000320757	T150B_HUMAN	K7EM00_HUMAN,K7EKL2_HUMAN	UPI00001AF4D4	.	.	.	7/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR21324,hmmpanther:PTHR21324:SF3,Pfam_domain:PF10277	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGATGAAGGC	.	2	BLCA
NLRP9	0	.	GRCh37	19	56241199	56241199	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1992C>T	p.%3D	p.L664L	ENST00000332836	3/9	60	47	13	61	61	0	NLRP9,synonymous_variant,p.%3D,ENST00000332836,;NLRP9,synonymous_variant,p.%3D,ENST00000590200,;	A	ENSG00000185792	ENST00000332836	Transcript	synonymous_variant	2020	1992	664	L	ctC/ctT	.	.	.	-1	NLRP9	HGNC	22941	protein_coding	YES	CCDS12934.1	ENSP00000331857	NALP9_HUMAN	.	UPI00001B6B39	.	.	.	3/9	.	hmmpanther:PTHR24106:SF72,hmmpanther:PTHR24106,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATGAGTTT	.	5	BLCA
SAFB	0	.	GRCh37	19	5626483	5626483	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.257C>G	p.Ser86Ter	p.S86*	ENST00000588852	2/21	78	66	11	65	65	0	SAFB,stop_gained,p.Ser86Ter,ENST00000588852,;SAFB,stop_gained,p.Ser86Ter,ENST00000454510,;SAFB,stop_gained,p.Ser86Ter,ENST00000292123,;SAFB,stop_gained,p.Ser86Ter,ENST00000592224,;SAFB,missense_variant,p.Gln20Glu,ENST00000538656,;SAFB,5_prime_UTR_variant,,ENST00000433404,;SAFB2,upstream_gene_variant,,ENST00000252542,;SAFB2,upstream_gene_variant,,ENST00000590262,;SAFB,non_coding_transcript_exon_variant,,ENST00000586934,;SAFB,stop_gained,p.Ser86Ter,ENST00000589863,;SAFB,non_coding_transcript_exon_variant,,ENST00000591666,;SAFB2,upstream_gene_variant,,ENST00000591120,;	G	ENSG00000160633	ENST00000588852	Transcript	stop_gained	310	257	86	S/*	tCa/tGa	.	.	.	1	SAFB	HGNC	10520	protein_coding	YES	CCDS59339.1	ENSP00000467423	SAFB1_HUMAN	Q68DW3_HUMAN,F5GZU3_HUMAN	UPI0000E5BE82	.	.	.	2/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15683:SF6,hmmpanther:PTHR15683	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCAAAGA	.	5	BLCA
CATSPERD	0	.	GRCh37	19	5745932	5745932	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666C>G	p.Phe222Leu	p.F222L	ENST00000381624	9/22	248	206	42	197	197	0	CATSPERD,missense_variant,p.Phe222Leu,ENST00000381624,;CATSPERD,5_prime_UTR_variant,,ENST00000381614,;	G	ENSG00000174898	ENST00000381624	Transcript	missense_variant	727	666	222	F/L	ttC/ttG	.	.	.	1	CATSPERD	HGNC	28598	protein_coding	YES	CCDS12149.2	ENSP00000371037	CTSRD_HUMAN	.	UPI000059D641	.	deleterious(0.02)	benign(0.338)	9/22	.	Pfam_domain:PF15020	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTTCAAGTA	.	4	BLCA
ZNF671	0	.	GRCh37	19	58232821	58232821	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633G>A	p.%3D	p.Q211Q	ENST00000317398	4/4	123	108	15	114	114	0	ZNF671,synonymous_variant,p.%3D,ENST00000317398,;ZNF671,synonymous_variant,p.%3D,ENST00000335820,;AC003006.7,intron_variant,,ENST00000594684,;ZNF551,downstream_gene_variant,,ENST00000596085,;ZNF671,downstream_gene_variant,,ENST00000596939,;AC003006.7,intron_variant,,ENST00000599221,;ZNF671,downstream_gene_variant,,ENST00000599961,;ZNF671,downstream_gene_variant,,ENST00000594803,;ZNF671,3_prime_UTR_variant,,ENST00000601584,;ZNF671,3_prime_UTR_variant,,ENST00000600125,;	T	ENSG00000083814	ENST00000317398	Transcript	synonymous_variant	729	633	211	Q	caG/caA	.	.	.	-1	ZNF671	HGNC	26279	protein_coding	YES	CCDS12961.1	ENSP00000321848	ZN671_HUMAN	C9J3V7_HUMAN	UPI000013C612	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24390:SF44,hmmpanther:PTHR24390,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTTCTGGTG	.	4	BLCA
ZNF586	0	.	GRCh37	19	58291116	58291116	+	Silent	SNP	G	G	A	rs765773408	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1161G>A	p.%3D	p.S387S	ENST00000396154	3/3	161	139	21	121	121	0	ZNF586,synonymous_variant,p.%3D,ENST00000391702,;ZNF586,synonymous_variant,p.%3D,ENST00000396154,;ZNF586,3_prime_UTR_variant,,ENST00000396150,;ZNF586,intron_variant,,ENST00000598183,;ZNF586,intron_variant,,ENST00000599802,;ZNF586,intron_variant,,ENST00000598885,;	A	ENSG00000083828	ENST00000396154	Transcript	synonymous_variant	1334	1161	387	S	tcG/tcA	rs765773408	.	.	1	ZNF586	HGNC	25949	protein_coding	YES	CCDS42640.1	ENSP00000379458	ZN586_HUMAN	.	UPI0000202D48	.	.	.	3/3	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50157,hmmpanther:PTHR24387:SF34,hmmpanther:PTHR24387,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTCGTTCCG	byFrequency	4	BLCA
ZNF814	0	.	GRCh37	19	58385386	58385386	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1372C>A	p.His458Asn	p.H458N	ENST00000435989	3/3	32	25	6	16	16	0	ZNF814,missense_variant,p.His458Asn,ENST00000435989,;ZNF814,intron_variant,,ENST00000600634,;ZNF814,intron_variant,,ENST00000597342,;ZNF814,intron_variant,,ENST00000595048,;ZNF814,intron_variant,,ENST00000595295,;ZNF814,intron_variant,,ENST00000596604,;ZNF814,intron_variant,,ENST00000597832,;ZNF814,downstream_gene_variant,,ENST00000597807,;ZNF814,intron_variant,,ENST00000594629,;ZNF814,intron_variant,,ENST00000597348,;ZNF814,intron_variant,,ENST00000595894,;CTD-2583A14.9,downstream_gene_variant,,ENST00000602124,;ZNF814,upstream_gene_variant,,ENST00000594159,;	T	ENSG00000204514	ENST00000435989	Transcript	missense_variant	1607	1372	458	H/N	Cac/Aac	.	.	.	-1	ZNF814	HGNC	33258	protein_coding	YES	CCDS46212.1	ENSP00000410545	ZN814_HUMAN	.	UPI0001662BAD	.	deleterious(0)	probably_damaging(0.941)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF3,PROSITE_patterns:PS00028,Pfam_domain:PF00096,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGTGAACTC	.	5	BLCA
ZNF446	0	.	GRCh37	19	58989021	58989021	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.360G>C	p.%3D	p.L120L	ENST00000594369	3/7	87	76	11	53	53	0	ZNF446,synonymous_variant,p.%3D,ENST00000596341,;ZNF446,synonymous_variant,p.%3D,ENST00000335841,;ZNF446,synonymous_variant,p.%3D,ENST00000600013,;ZNF446,synonymous_variant,p.%3D,ENST00000594369,;ZNF324,downstream_gene_variant,,ENST00000535298,;ZNF324,downstream_gene_variant,,ENST00000196482,;ZNF324,downstream_gene_variant,,ENST00000593925,;ZNF324,downstream_gene_variant,,ENST00000536459,;CTD-2619J13.23,upstream_gene_variant,,ENST00000598051,;ZNF446,downstream_gene_variant,,ENST00000599913,;ZNF446,non_coding_transcript_exon_variant,,ENST00000391694,;ZNF446,non_coding_transcript_exon_variant,,ENST00000594468,;SLC27A5,downstream_gene_variant,,ENST00000595851,;	C	ENSG00000083838	ENST00000594369	Transcript	synonymous_variant	741	360	120	L	ctG/ctC	.	.	.	1	ZNF446	HGNC	21036	protein_coding	YES	CCDS12982.1	ENSP00000472802	ZN446_HUMAN	Q9UFF2_HUMAN,M0R034_HUMAN	UPI0000071779	.	.	.	3/7	.	SMART_domains:SM00431,hmmpanther:PTHR10032,hmmpanther:PTHR10032:SF73	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCCTGAAGCA	.	4	BLCA
C3	0	.	GRCh37	19	6697514	6697514	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2637G>C	p.Lys879Asn	p.K879N	ENST00000245907	21/41	49	41	8	52	52	0	C3,missense_variant,p.Lys879Asn,ENST00000245907,;C3,non_coding_transcript_exon_variant,,ENST00000594005,;C3,upstream_gene_variant,,ENST00000598805,;C3,downstream_gene_variant,,ENST00000602053,;	G	ENSG00000125730	ENST00000245907	Transcript	missense_variant	2730	2637	879	K/N	aaG/aaC	.	.	.	-1	C3	HGNC	1318	protein_coding	YES	CCDS32883.1	ENSP00000245907	CO3_HUMAN	Q6LDJ0_HUMAN,M0R1Q1_HUMAN	UPI000013EC9B	.	deleterious(0.04)	benign(0.242)	21/41	.	hmmpanther:PTHR11412,hmmpanther:PTHR11412:SF81	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	CGCCTCTTGGT	.	4	BLCA
PNPLA6	0	.	GRCh37	19	7619567	7619567	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2622C>G	p.Ile874Met	p.I874M	ENST00000414982	23/34	99	86	13	93	93	0	PNPLA6,missense_variant,p.Ile826Met,ENST00000450331,;PNPLA6,missense_variant,p.Ile864Met,ENST00000600737,;PNPLA6,missense_variant,p.Ile799Met,ENST00000545201,;PNPLA6,missense_variant,p.Ile826Met,ENST00000221249,;PNPLA6,missense_variant,p.Ile874Met,ENST00000414982,;PNPLA6,upstream_gene_variant,,ENST00000599947,;PNPLA6,downstream_gene_variant,,ENST00000594864,;PNPLA6,downstream_gene_variant,,ENST00000595889,;PNPLA6,downstream_gene_variant,,ENST00000599951,;PNPLA6,upstream_gene_variant,,ENST00000595352,;PNPLA6,downstream_gene_variant,,ENST00000599311,;PNPLA6,downstream_gene_variant,,ENST00000595176,;	G	ENSG00000032444	ENST00000414982	Transcript	missense_variant	2817	2622	874	I/M	atC/atG	.	.	.	1	PNPLA6	HGNC	16268	protein_coding	YES	CCDS54206.1	ENSP00000407509	PLPL6_HUMAN	.	UPI0001AE63FF	.	deleterious(0)	probably_damaging(0.987)	23/34	.	hmmpanther:PTHR14226:SF26,hmmpanther:PTHR14226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCATCCTCAT	.	4	BLCA
ELAVL1	0	.	GRCh37	19	8038682	8038682	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357G>C	p.Gln119His	p.Q119H	ENST00000407627	4/6	89	72	17	53	53	0	ELAVL1,missense_variant,p.Gln146His,ENST00000351593,;ELAVL1,missense_variant,p.Gln119His,ENST00000593807,;ELAVL1,missense_variant,p.Gln119His,ENST00000407627,;ELAVL1,missense_variant,p.Gln119His,ENST00000596459,;ELAVL1,missense_variant,p.Gln37His,ENST00000596154,;ELAVL1,upstream_gene_variant,,ENST00000595499,;	G	ENSG00000066044	ENST00000407627	Transcript	missense_variant	487	357	119	Q/H	caG/caC	.	.	.	-1	ELAVL1	HGNC	3312	protein_coding	YES	CCDS12193.1	ENSP00000385269	ELAV1_HUMAN	.	UPI0000129E74	.	deleterious(0.04)	possibly_damaging(0.738)	4/6	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011,hmmpanther:PTHR24011:SF228,Gene3D:3.30.70.330,Pfam_domain:PF00076,TIGRFAM_domain:TIGR01661,SMART_domains:SM00360,Superfamily_domains:SSF54928,Prints_domain:PR00961	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCTGGGT	.	5	BLCA
AZU1	0	.	GRCh37	19	829704	829704	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358C>T	p.Gln120Ter	p.Q120*	ENST00000233997	3/5	39	32	7	41	41	0	AZU1,stop_gained,p.Gln120Ter,ENST00000233997,;AZU1,splice_region_variant,,ENST00000592205,;	T	ENSG00000172232	ENST00000233997	Transcript	stop_gained	379	358	120	Q/*	Cag/Tag	.	.	.	1	AZU1	HGNC	913	protein_coding	YES	CCDS12044.1	ENSP00000233997	CAP7_HUMAN	.	UPI0000126ECD	.	.	.	3/5	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50240,hmmpanther:PTHR24271,hmmpanther:PTHR24271:SF10,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494,Prints_domain:PR00722	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTCAGGTG	.	2	BLCA
MUC16	0	.	GRCh37	19	9058707	9058707	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28739C>G	p.Ser9580Cys	p.S9580C	ENST00000397910	3/84	52	48	4	46	46	0	MUC16,missense_variant,p.Ser9580Cys,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	missense_variant	28943	28739	9580	S/C	tCt/tGt	COSM262108,COSM262109	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	3/84	.	hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGAGATGAC	.	2	BLCA
MUC16	0	.	GRCh37	19	9086583	9086583	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5232G>C	p.Gln1744His	p.Q1744H	ENST00000397910	1/84	99	84	15	89	89	0	MUC16,missense_variant,p.Gln1744His,ENST00000397910,;	G	ENSG00000181143	ENST00000397910	Transcript	missense_variant	5436	5232	1744	Q/H	caG/caC	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	1/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATCTGGCT	.	4	BLCA
MUC16	0	.	GRCh37	19	9089500	9089500	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2315C>A	p.Ser772Tyr	p.S772Y	ENST00000397910	1/84	166	132	34	148	148	0	MUC16,missense_variant,p.Ser772Tyr,ENST00000397910,;	T	ENSG00000181143	ENST00000397910	Transcript	missense_variant	2519	2315	772	S/Y	tCc/tAc	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	1/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V769V|c.2307T>C|4,BUFFER|p.V769V|c.2307T>C|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATGGAGGAA	.	5	BLCA
ZNF177	0	.	GRCh37	19	9490244	9490244	+	Missense_Mutation	SNP	C	C	G	rs566941898	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202C>G	p.Gln68Glu	p.Q68E	ENST00000434737	3/5	25	17	7	28	28	0	ZNF177,missense_variant,p.Gln68Glu,ENST00000434737,;ZNF177,missense_variant,p.Gln68Glu,ENST00000590616,;ZNF177,missense_variant,p.Gln68Glu,ENST00000589262,;ZNF177,missense_variant,p.Gln68Glu,ENST00000343499,;ZNF559-ZNF177,missense_variant,p.Gln68Glu,ENST00000446085,;ZNF177,missense_variant,p.Gln68Glu,ENST00000602856,;ZNF559-ZNF177,missense_variant,p.Gln68Glu,ENST00000603656,;ZNF177,missense_variant,p.Gln68Glu,ENST00000602738,;ZNF559-ZNF177,missense_variant,p.Gln68Glu,ENST00000541595,;ZNF177,downstream_gene_variant,,ENST00000592912,;ZNF559-ZNF177,non_coding_transcript_exon_variant,,ENST00000605471,;ZNF559-ZNF177,3_prime_UTR_variant,,ENST00000603974,;ZNF559-ZNF177,3_prime_UTR_variant,,ENST00000604886,;ZNF559-ZNF177,3_prime_UTR_variant,,ENST00000605093,;ZNF559-ZNF177,3_prime_UTR_variant,,ENST00000605006,;ZNF559-ZNF177,downstream_gene_variant,,ENST00000593242,;ZNF559-ZNF177,downstream_gene_variant,,ENST00000605775,;ZNF559-ZNF177,downstream_gene_variant,,ENST00000604543,;ZNF559-ZNF177,downstream_gene_variant,,ENST00000603024,;	G	ENSG00000188629	ENST00000434737	Transcript	missense_variant	258	202	68	Q/E	Caa/Gaa	rs566941898	.	.	1	ZNF177	HGNC	12966	protein_coding	YES	CCDS54214.1	ENSP00000415070	ZN177_HUMAN	.	UPI0001AE6431	.	deleterious(0.05)	probably_damaging(0.954)	3/5	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF126,SMART_domains:SM00349,Superfamily_domains:0044637	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATCAAGAA	by1000G	5	BLCA
SLC30A7	0	.	GRCh37	1	101387367	101387367	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.812C>T	p.Ser271Leu	p.S271L	ENST00000370112	8/12	197	165	32	196	196	0	SLC30A7,missense_variant,p.Ser271Leu,ENST00000357650,;SLC30A7,missense_variant,p.Ser271Leu,ENST00000370112,;	T	ENSG00000162695	ENST00000370112	Transcript	missense_variant	999	812	271	S/L	tCa/tTa	.	.	.	1	SLC30A7	HGNC	19306	protein_coding	YES	CCDS776.1	ENSP00000359130	ZNT7_HUMAN	.	UPI0000050F45	.	deleterious(0)	probably_damaging(1)	8/12	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11562,hmmpanther:PTHR11562:SF13,TIGRFAM_domain:TIGR01297,Gene3D:3h90A01,Pfam_domain:PF01545,Superfamily_domains:0054606	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGTTCAATTC	.	4	BLCA
AMY2B	0	.	GRCh37	1	104114773	104114773	+	Silent	SNP	C	C	T	rs766489351	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210C>T	p.%3D	p.F70F	ENST00000361355	4/12	321	310	11	303	303	0	AMY2B,synonymous_variant,p.%3D,ENST00000435302,;AMY2B,synonymous_variant,p.%3D,ENST00000361355,;AMY2B,synonymous_variant,p.%3D,ENST00000453959,;AMY2B,non_coding_transcript_exon_variant,,ENST00000491397,;AMY2B,upstream_gene_variant,,ENST00000462971,;AMY2B,synonymous_variant,p.%3D,ENST00000477657,;ACTG1P4,downstream_gene_variant,,ENST00000425123,;	T	ENSG00000240038	ENST00000361355	Transcript	synonymous_variant	826	210	70	F	ttC/ttT	rs766489351,COSM3801093	.	.	1	AMY2B	HGNC	478	protein_coding	YES	CCDS782.1	ENSP00000354610	AMY2B_HUMAN	C9JWK7_HUMAN,C9J2Z5_HUMAN	UPI0000000CB1	.	.	.	4/12	.	hmmpanther:PTHR10357,hmmpanther:PTHR10357:SF105,Gene3D:3.20.20.80,Pfam_domain:PF00128,SMART_domains:SM00642,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTTCAGACC	.	2	BLCA
PGD	0	.	GRCh37	1	10459129	10459129	+	5'Flank	SNP	C	C	T	rs373806571	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000270776	.	32	25	7	18	18	0	PGD,5_prime_UTR_variant,,ENST00000541529,;PGD,intron_variant,,ENST00000491493,;PGD,upstream_gene_variant,,ENST00000270776,;PGD,upstream_gene_variant,,ENST00000538557,;PGD,upstream_gene_variant,,ENST00000465632,;PGD,upstream_gene_variant,,ENST00000460189,;PGD,upstream_gene_variant,,ENST00000483936,;PGD,non_coding_transcript_exon_variant,,ENST00000487775,;PGD,upstream_gene_variant,,ENST00000477958,;	T	ENSG00000142657	ENST00000270776	Transcript	upstream_gene_variant	.	.	.	.	.	rs373806571	.	8	1	PGD	HGNC	8891	protein_coding	YES	CCDS113.1	ENSP00000270776	6PGD_HUMAN	K7EMN2_HUMAN,K7EM49_HUMAN,B4DV68_HUMAN,B4DQJ8_HUMAN	UPI0000169DB9	.	.	.	.	.	.	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCGTCCT	byFrequency|byCluster	5	BLCA
CELSR2	0	.	GRCh37	1	109812635	109812635	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7188C>G	p.Phe2396Leu	p.F2396L	ENST00000271332	23/34	136	112	23	137	137	0	CELSR2,missense_variant,p.Phe2396Leu,ENST00000271332,;CELSR2,non_coding_transcript_exon_variant,,ENST00000489018,;CELSR2,upstream_gene_variant,,ENST00000498157,;CELSR2,downstream_gene_variant,,ENST00000459940,;	G	ENSG00000143126	ENST00000271332	Transcript	missense_variant	7249	7188	2396	F/L	ttC/ttG	.	.	.	1	CELSR2	HGNC	3231	protein_coding	YES	CCDS796.1	ENSP00000271332	CELR2_HUMAN	.	UPI00000015B6	.	tolerated(1)	benign(0)	23/34	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR24026:SF32,hmmpanther:PTHR24026,Pfam_domain:PF00002,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTTCCT	.	5	BLCA
SYPL2	0	.	GRCh37	1	110022243	110022243	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*73C>G	.	.	ENST00000369872	6/6	36	30	6	33	33	0	SYPL2,3_prime_UTR_variant,,ENST00000401021,;SYPL2,3_prime_UTR_variant,,ENST00000369872,;ATXN7L2,upstream_gene_variant,,ENST00000369870,;SYPL2,downstream_gene_variant,,ENST00000475497,;ATXN7L2,upstream_gene_variant,,ENST00000463678,;	G	ENSG00000143028	ENST00000369872	Transcript	3_prime_UTR_variant	1108	.	.	.	.	.	.	.	1	SYPL2	HGNC	27638	protein_coding	YES	CCDS41365.1	ENSP00000358888	SYPL2_HUMAN	B4DWF6_HUMAN	UPI0000047AE5	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCTCTTCCT	.	2	BLCA
GPR61	0	.	GRCh37	1	110086039	110086039	+	Missense_Mutation	SNP	C	C	T	rs571875540	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395C>T	p.Ser132Leu	p.S132L	ENST00000527748	2/2	124	102	22	114	114	0	GPR61,missense_variant,p.Ser132Leu,ENST00000527748,;RP5-1160K1.8,non_coding_transcript_exon_variant,,ENST00000526411,;GPR61,upstream_gene_variant,,ENST00000526744,;GPR61,downstream_gene_variant,,ENST00000533959,;GPR61,missense_variant,p.Ser132Leu,ENST00000404129,;GPR61,missense_variant,p.Ser132Leu,ENST00000469383,;	T	ENSG00000156097	ENST00000527748	Transcript	missense_variant	1078	395	132	S/L	tCg/tTg	rs571875540	.	.	1	GPR61	HGNC	13300	protein_coding	YES	CCDS801.1	ENSP00000432456	GPR61_HUMAN	Q59GL3_HUMAN,G4XH66_HUMAN	UPI000003BCCB	.	deleterious(0)	possibly_damaging(0.835)	2/2	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,PROSITE_patterns:PS00237,hmmpanther:PTHR22752:SF5,hmmpanther:PTHR22752,PROSITE_profiles:PS50262,Transmembrane_helices:TMhelix	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCGGTGT	by1000G	5	BLCA
LRIF1	0	.	GRCh37	1	111490848	111490848	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2043C>T	p.%3D	p.L681L	ENST00000369763	4/4	213	178	34	184	184	0	LRIF1,synonymous_variant,p.%3D,ENST00000494675,;LRIF1,synonymous_variant,p.%3D,ENST00000369763,;LRIF1,synonymous_variant,p.%3D,ENST00000485275,;RP11-96K19.2,intron_variant,,ENST00000440689,;	A	ENSG00000121931	ENST00000369763	Transcript	synonymous_variant	2434	2043	681	L	ctC/ctT	.	.	.	-1	LRIF1	HGNC	30299	protein_coding	YES	CCDS30800.1	ENSP00000358778	LRIF1_HUMAN	.	UPI0000205296	.	.	.	4/4	.	hmmpanther:PTHR16131,hmmpanther:PTHR16131:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCGTGAGAAT	.	4	BLCA
MOV10	0	.	GRCh37	1	113232569	113232569	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685G>A	p.Ala229Thr	p.A229T	ENST00000413052	5/21	89	76	13	56	56	0	MOV10,missense_variant,p.Ala173Thr,ENST00000369644,;MOV10,missense_variant,p.Ala229Thr,ENST00000357443,;MOV10,missense_variant,p.Ala229Thr,ENST00000369645,;MOV10,missense_variant,p.Ala229Thr,ENST00000413052,;MOV10,downstream_gene_variant,,ENST00000544796,;RP11-426L16.3,downstream_gene_variant,,ENST00000421943,;MOV10,non_coding_transcript_exon_variant,,ENST00000468624,;MOV10,non_coding_transcript_exon_variant,,ENST00000496577,;MOV10,downstream_gene_variant,,ENST00000475429,;MOV10,upstream_gene_variant,,ENST00000479858,;MOV10,downstream_gene_variant,,ENST00000465579,;	A	ENSG00000155363	ENST00000413052	Transcript	missense_variant	1075	685	229	A/T	Gcc/Acc	.	.	.	1	MOV10	HGNC	7200	protein_coding	YES	CCDS853.1	ENSP00000399797	MOV10_HUMAN	Q5JR04_HUMAN,B3KQ43_HUMAN	UPI000012FA84	.	tolerated(0.55)	benign(0.001)	5/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10887:SF326,hmmpanther:PTHR10887	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGAGCCGGC	.	4	BLCA
MAGI3	0	.	GRCh37	1	114201821	114201821	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2749G>C	p.Asp917His	p.D917H	ENST00000307546	16/21	113	94	18	97	97	0	MAGI3,missense_variant,p.Asp942His,ENST00000369617,;MAGI3,missense_variant,p.Asp917His,ENST00000369615,;MAGI3,missense_variant,p.Asp917His,ENST00000307546,;MAGI3,missense_variant,p.Asp917His,ENST00000369611,;	C	ENSG00000081026	ENST00000307546	Transcript	missense_variant	2824	2749	917	D/H	Gat/Cat	.	.	.	1	MAGI3	HGNC	29647	protein_coding	YES	CCDS44196.1	ENSP00000304604	MAGI3_HUMAN	.	UPI00004589AE	.	tolerated(0.19)	probably_damaging(0.952)	16/21	.	PROSITE_profiles:PS50106,hmmpanther:PTHR10316:SF10,hmmpanther:PTHR10316,Gene3D:2.30.42.10,Pfam_domain:PF00595,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATGATAAC	.	5	BLCA
PHTF1	0	.	GRCh37	1	114301341	114301341	+	5'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-16C>G	.	.	ENST00000369604	2/19	61	56	5	61	61	0	PHTF1,5_prime_UTR_variant,,ENST00000357783,;PHTF1,5_prime_UTR_variant,,ENST00000369596,;PHTF1,5_prime_UTR_variant,,ENST00000369600,;PHTF1,5_prime_UTR_variant,,ENST00000369604,;PHTF1,5_prime_UTR_variant,,ENST00000447664,;PHTF1,5_prime_UTR_variant,,ENST00000393357,;PHTF1,5_prime_UTR_variant,,ENST00000446739,;PHTF1,5_prime_UTR_variant,,ENST00000369598,;RSBN1,downstream_gene_variant,,ENST00000261441,;PHTF1,non_coding_transcript_exon_variant,,ENST00000493212,;	C	ENSG00000116793	ENST00000369604	Transcript	5_prime_UTR_variant	469	.	.	.	.	.	.	.	-1	PHTF1	HGNC	8939	protein_coding	YES	CCDS861.1	ENSP00000358617	PHTF1_HUMAN	F6T5D1_HUMAN	UPI000013C9D0	.	.	.	2/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCCAGAGAAT	.	3	BLCA
DCLRE1B	0	.	GRCh37	1	114454667	114454667	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1453C>T	p.His485Tyr	p.H485Y	ENST00000369563	4/4	151	119	32	144	144	0	DCLRE1B,missense_variant,p.His485Tyr,ENST00000369563,;DCLRE1B,intron_variant,,ENST00000466480,;	T	ENSG00000118655	ENST00000369563	Transcript	missense_variant	1899	1453	485	H/Y	Cac/Tac	.	.	.	1	DCLRE1B	HGNC	17641	protein_coding	YES	CCDS866.1	ENSP00000358576	DCR1B_HUMAN	.	UPI000006FBBC	.	tolerated_low_confidence(0.35)	benign(0.001)	4/4	.	hmmpanther:PTHR23240:SF5,hmmpanther:PTHR23240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCCCACAGC	.	5	BLCA
CD101	0	.	GRCh37	1	117554561	117554561	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.814C>T	p.Gln272Ter	p.Q272*	ENST00000256652	3/10	72	57	14	57	57	0	CD101,stop_gained,p.Gln272Ter,ENST00000369470,;CD101,stop_gained,p.Gln272Ter,ENST00000256652,;	T	ENSG00000134256	ENST00000256652	Transcript	stop_gained	872	814	272	Q/*	Caa/Taa	.	.	.	1	CD101	HGNC	5949	protein_coding	YES	CCDS891.1	ENSP00000256652	IGSF2_HUMAN	.	UPI000013CF1F	.	.	.	3/10	.	hmmpanther:PTHR12207:SF20,hmmpanther:PTHR12207,Gene3D:2.60.40.10,SMART_domains:SM00409	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGATCAAACC	.	5	BLCA
PLOD1	0	.	GRCh37	1	12009946	12009946	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.285C>T	p.%3D	p.V95V	ENST00000196061	3/19	169	145	24	127	127	0	PLOD1,synonymous_variant,p.%3D,ENST00000429000,;PLOD1,synonymous_variant,p.%3D,ENST00000449038,;PLOD1,synonymous_variant,p.%3D,ENST00000376369,;PLOD1,synonymous_variant,p.%3D,ENST00000196061,;PLOD1,non_coding_transcript_exon_variant,,ENST00000485046,;PLOD1,non_coding_transcript_exon_variant,,ENST00000358133,;PLOD1,upstream_gene_variant,,ENST00000465920,;	T	ENSG00000083444	ENST00000196061	Transcript	synonymous_variant	312	285	95	V	gtC/gtT	.	.	.	1	PLOD1	HGNC	9081	protein_coding	YES	CCDS142.1	ENSP00000196061	PLOD1_HUMAN	Q9UL44_HUMAN	UPI000013C611	.	.	.	3/19	.	hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGTCATTCT	.	4	BLCA
NOTCH2	0	.	GRCh37	1	120457999	120457999	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7346G>C	p.Gly2449Ala	p.G2449A	ENST00000256646	34/34	134	101	33	124	124	0	NOTCH2,missense_variant,p.Gly2449Ala,ENST00000256646,;RP5-1042I8.7,upstream_gene_variant,,ENST00000566949,;	G	ENSG00000134250	ENST00000256646	Transcript	missense_variant	7566	7346	2449	G/A	gGa/gCa	.	.	.	-1	NOTCH2	HGNC	7882	protein_coding	YES	CCDS908.1	ENSP00000256646	NOTC2_HUMAN	Q9UFD5_HUMAN,Q13560_HUMAN	UPI000013CF1D	.	tolerated(0.79)	benign(0.248)	34/34	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24033:SF4,hmmpanther:PTHR24033,PIRSF_domain:PIRSF002279	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCAGCA	.	5	BLCA
MFN2	0	.	GRCh37	1	12061836	12061836	+	Silent	SNP	C	C	T	rs747677218	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981C>T	p.%3D	p.L327L	ENST00000235329	10/19	400	326	74	299	299	0	MFN2,synonymous_variant,p.%3D,ENST00000235329,;MFN2,synonymous_variant,p.%3D,ENST00000444836,;	T	ENSG00000116688	ENST00000235329	Transcript	synonymous_variant	1303	981	327	L	ctC/ctT	rs747677218	.	.	1	MFN2	HGNC	16877	protein_coding	YES	CCDS30587.1	ENSP00000235329	MFN2_HUMAN	Q5JXC5_HUMAN	UPI0000039854	.	.	.	10/19	.	PROSITE_profiles:PS51718,hmmpanther:PTHR10465,hmmpanther:PTHR10465:SF1,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCGCAGA	.	5	BLCA
TNFRSF8	0	.	GRCh37	1	12195644	12195644	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1310-1G>C	.	p.X437_splice	ENST00000263932	.	44	38	6	37	37	0	TNFRSF8,splice_acceptor_variant,,ENST00000417814,;TNFRSF8,splice_acceptor_variant,,ENST00000263932,;TNFRSF8,splice_acceptor_variant,,ENST00000413146,;TNFRSF8,splice_acceptor_variant,,ENST00000479933,;TNFRSF8,splice_acceptor_variant,,ENST00000514649,;	C	ENSG00000120949	ENST00000263932	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	TNFRSF8	HGNC	11923	protein_coding	YES	CCDS144.1	ENSP00000263932	.	A5D8T4_HUMAN	UPI000013D48C	.	.	.	.	12/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCAGATTCC	.	4	BLCA
TNFRSF1B	0	.	GRCh37	1	12254037	12254037	+	Missense_Mutation	SNP	G	G	C	rs760722962	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813G>C	p.Leu271Phe	p.L271F	ENST00000376259	7/10	84	78	6	55	55	0	TNFRSF1B,missense_variant,p.Leu271Phe,ENST00000376259,;TNFRSF1B,downstream_gene_variant,,ENST00000536782,;MIR4632,downstream_gene_variant,,ENST00000584158,;TNFRSF1B,non_coding_transcript_exon_variant,,ENST00000492361,;TNFRSF1B,downstream_gene_variant,,ENST00000489921,;	C	ENSG00000028137	ENST00000376259	Transcript	missense_variant	902	813	271	L/F	ttG/ttC	rs760722962	.	.	1	TNFRSF1B	HGNC	11917	protein_coding	YES	CCDS145.1	ENSP00000365435	TNR1B_HUMAN	Q9UIH2_HUMAN,Q9UIG9_HUMAN,Q6LBF2_HUMAN	UPI000002FAE1	.	tolerated(0.05)	benign(0.055)	7/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF108	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTTGGGTCT	.	2	BLCA
HNRNPCL1	0	.	GRCh37	1	12907618	12907618	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525G>T	p.Leu175Phe	p.L175F	ENST00000317869	2/2	288	236	52	248	247	1	HNRNPCL1,missense_variant,p.Leu175Phe,ENST00000317869,;	A	ENSG00000179172	ENST00000317869	Transcript	missense_variant	751	525	175	L/F	ttG/ttT	.	.	.	-1	HNRNPCL1	HGNC	29295	protein_coding	YES	CCDS30591.1	ENSP00000365370	HNRCL_HUMAN	.	UPI0000134525	.	deleterious(0)	possibly_damaging(0.602)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13968:SF17,hmmpanther:PTHR13968,PIRSF_domain:PIRSF037992	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAACTT	.	4	BLCA
ITGA10	0	.	GRCh37	1	145532243	145532243	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.887G>C	p.Arg296Thr	p.R296T	ENST00000369304	8/30	49	38	11	42	42	0	ITGA10,missense_variant,p.Arg165Thr,ENST00000538811,;ITGA10,missense_variant,p.Arg153Thr,ENST00000539363,;ITGA10,missense_variant,p.Arg296Thr,ENST00000369304,;ITGA10,non_coding_transcript_exon_variant,,ENST00000481236,;ITGA10,downstream_gene_variant,,ENST00000468261,;	C	ENSG00000143127	ENST00000369304	Transcript	missense_variant	1062	887	296	R/T	aGa/aCa	.	.	.	1	ITGA10	HGNC	6135	protein_coding	YES	CCDS918.1	ENSP00000358310	ITA10_HUMAN	.	UPI000013D8D1	.	deleterious(0.02)	benign(0.005)	8/30	.	PROSITE_profiles:PS50234,hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF26,Pfam_domain:PF00092,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGAAGAGTGA	.	2	BLCA
BCL9	0	.	GRCh37	1	147090749	147090749	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.788C>T	p.Pro263Leu	p.P263L	ENST00000234739	8/10	113	93	19	96	96	0	BCL9,missense_variant,p.Pro263Leu,ENST00000234739,;BCL9,downstream_gene_variant,,ENST00000473292,;	T	ENSG00000116128	ENST00000234739	Transcript	missense_variant	1528	788	263	P/L	cCa/cTa	.	.	.	1	BCL9	HGNC	1008	protein_coding	YES	CCDS30833.1	ENSP00000234739	BCL9_HUMAN	.	UPI000013C9B9	.	tolerated(0.31)	benign(0.006)	8/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15185,hmmpanther:PTHR15185:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCACCAGCAC	.	5	BLCA
GJA5	0	.	GRCh37	1	147230407	147230407	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.940C>T	p.Gln314Ter	p.Q314*	ENST00000271348	2/2	133	113	20	116	116	0	GJA5,stop_gained,p.Gln314Ter,ENST00000271348,;GJA5,stop_gained,p.Gln314Ter,ENST00000369237,;GJA5,downstream_gene_variant,,ENST00000430508,;RP11-433J22.2,intron_variant,,ENST00000428911,;	A	ENSG00000143140	ENST00000271348	Transcript	stop_gained	1102	940	314	Q/*	Cag/Tag	.	.	.	-1	GJA5	HGNC	4279	protein_coding	YES	CCDS929.1	ENSP00000271348	CXA5_HUMAN	.	UPI000013D8D2	.	.	.	2/2	.	hmmpanther:PTHR11984:SF13,hmmpanther:PTHR11984,Superfamily_domains:0049114	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTGGATGA	.	4	BLCA
HIST2H2BE	0	.	GRCh37	1	149857978	149857978	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>G	p.Phe71Leu	p.F71L	ENST00000369155	1/1	258	215	43	192	192	0	HIST2H2BE,missense_variant,p.Phe71Leu,ENST00000369155,;BOLA1,upstream_gene_variant,,ENST00000369153,;HIST2H2AB,downstream_gene_variant,,ENST00000331128,;HIST2H2AC,upstream_gene_variant,,ENST00000331380,;	C	ENSG00000184678	ENST00000369155	Transcript	missense_variant	255	213	71	F/L	ttC/ttG	COSM161553	.	.	-1	HIST2H2BE	HGNC	4760	protein_coding	YES	CCDS936.1	ENSP00000358151	H2B2E_HUMAN	.	UPI0000000C6F	.	deleterious_low_confidence(0.02)	probably_damaging(0.93)	1/1	.	hmmpanther:PTHR23428,Gene3D:1.10.20.10,Pfam_domain:PF00125,SMART_domains:SM00427,Superfamily_domains:SSF47113,Prints_domain:PR00621	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTCGAAGAT	.	4	BLCA
C1orf51	0	.	GRCh37	1	150255774	150255774	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.97G>T	p.Asp33Tyr	p.D33Y	ENST00000290363	1/5	130	107	23	127	127	0	C1orf51,missense_variant,p.Asp33Tyr,ENST00000369095,;C1orf51,missense_variant,p.Asp33Tyr,ENST00000290363,;C1orf51,intron_variant,,ENST00000369094,;C1orf51,intron_variant,,ENST00000417398,;C1orf51,intron_variant,,ENST00000447007,;C1orf54,downstream_gene_variant,,ENST00000369099,;C1orf54,downstream_gene_variant,,ENST00000369098,;C1orf54,downstream_gene_variant,,ENST00000369102,;C1orf51,non_coding_transcript_exon_variant,,ENST00000469255,;C1orf51,upstream_gene_variant,,ENST00000497211,;	T	ENSG00000159208	ENST00000290363	Transcript	missense_variant	546	97	33	D/Y	Gat/Tat	.	.	.	1	C1orf51	HGNC	25200	protein_coding	YES	CCDS949.1	ENSP00000290363	CA051_HUMAN	Q5TB14_HUMAN,Q5TB13_HUMAN,Q5TB12_HUMAN	UPI000000DBBF	.	deleterious_low_confidence(0)	probably_damaging(0.971)	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTGATAGT	.	5	BLCA
MRPS21	0	.	GRCh37	1	150266763	150266763	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-24G>A	.	.	ENST00000369084	1/2	37	31	6	30	30	0	MRPS21,5_prime_UTR_variant,,ENST00000369084,;MRPS21,5_prime_UTR_variant,,ENST00000309092,;	A	ENSG00000187145	ENST00000369084	Transcript	5_prime_UTR_variant	424	.	.	.	.	.	.	.	1	MRPS21	HGNC	14046	protein_coding	YES	CCDS950.1	ENSP00000358080	RT21_HUMAN	.	UPI0000135297	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTACAGAGTGA	.	4	BLCA
TDRKH	0	.	GRCh37	1	151752451	151752451	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397C>T	p.Gln133Ter	p.Q133*	ENST00000368822	4/14	114	99	15	87	87	0	TDRKH,stop_gained,p.Gln133Ter,ENST00000368827,;TDRKH,stop_gained,p.Gln129Ter,ENST00000368823,;TDRKH,stop_gained,p.Gln133Ter,ENST00000368824,;TDRKH,stop_gained,p.Gln133Ter,ENST00000458431,;TDRKH,stop_gained,p.Gln133Ter,ENST00000368822,;TDRKH,intron_variant,,ENST00000440583,;TDRKH,intron_variant,,ENST00000368825,;TDRKH,downstream_gene_variant,,ENST00000526378,;TDRKH,intron_variant,,ENST00000484421,;TDRKH,non_coding_transcript_exon_variant,,ENST00000486986,;TDRKH,intron_variant,,ENST00000525790,;TDRKH,intron_variant,,ENST00000526413,;TDRKH,downstream_gene_variant,,ENST00000530202,;TDRKH,downstream_gene_variant,,ENST00000463553,;TDRKH,downstream_gene_variant,,ENST00000494725,;	A	ENSG00000182134	ENST00000368822	Transcript	stop_gained	1031	397	133	Q/*	Cag/Tag	.	.	.	-1	TDRKH	HGNC	11713	protein_coding	YES	CCDS41394.1	ENSP00000357812	TDRKH_HUMAN	Q9NYV3_HUMAN,E9PKN8_HUMAN,B4DJ68_HUMAN	UPI0000204267	.	.	.	4/14	.	PROSITE_profiles:PS50084,hmmpanther:PTHR22948:SF13,hmmpanther:PTHR22948,Gene3D:3.30.1370.10,Pfam_domain:PF00013,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTGGGGAA	.	4	BLCA
S100A7	0	.	GRCh37	1	153431477	153431477	+	Missense_Mutation	SNP	G	G	C	rs752369258	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13C>G	p.Gln5Glu	p.Q5E	ENST00000368723	2/3	167	143	23	132	132	0	S100A7,missense_variant,p.Gln5Glu,ENST00000368723,;S100A7,missense_variant,p.Gln5Glu,ENST00000368722,;	C	ENSG00000143556	ENST00000368723	Transcript	missense_variant	124	13	5	Q/E	Caa/Gaa	rs752369258,COSM1498270	.	.	-1	S100A7	HGNC	10497	protein_coding	YES	CCDS1039.1	ENSP00000357712	S10A7_HUMAN	.	UPI000013D90F	.	tolerated(1)	benign(0.001)	2/3	.	hmmpanther:PTHR11639,hmmpanther:PTHR11639:SF64,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTGAGTGT	.	4	BLCA
ILF2	0	.	GRCh37	1	153634895	153634895	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1150G>A	p.Glu384Lys	p.E384K	ENST00000361891	14/14	47	41	6	33	33	0	ILF2,missense_variant,p.Glu384Lys,ENST00000361891,;ILF2,downstream_gene_variant,,ENST00000368681,;SNAPIN,downstream_gene_variant,,ENST00000368685,;ILF2,downstream_gene_variant,,ENST00000368684,;ILF2,non_coding_transcript_exon_variant,,ENST00000480213,;SNAPIN,downstream_gene_variant,,ENST00000478558,;SNAPIN,downstream_gene_variant,,ENST00000474959,;SNAPIN,downstream_gene_variant,,ENST00000462880,;	T	ENSG00000143621	ENST00000361891	Transcript	missense_variant	1276	1150	384	E/K	Gaa/Aaa	COSM1285536	.	.	-1	ILF2	HGNC	6037	protein_coding	YES	CCDS1050.1	ENSP00000355011	ILF2_HUMAN	F4ZW62_HUMAN,B4DY09_HUMAN	UPI0000027483	.	tolerated_low_confidence(0.15)	unknown(0)	14/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10910	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTTCTTCTT	.	4	BLCA
NUP210L	0	.	GRCh37	1	153974213	153974213	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5179G>A	p.Glu1727Lys	p.E1727K	ENST00000368559	36/40	289	247	42	221	221	0	NUP210L,missense_variant,p.Glu1727Lys,ENST00000368559,;NUP210L,intron_variant,,ENST00000368553,;NUP210L,intron_variant,,ENST00000271854,;U3,upstream_gene_variant,,ENST00000516860,;	T	ENSG00000143552	ENST00000368559	Transcript	missense_variant	5251	5179	1727	E/K	Gag/Aag	.	.	.	-1	NUP210L	HGNC	29915	protein_coding	YES	CCDS41399.1	ENSP00000357547	P210L_HUMAN	.	UPI000023724F	.	tolerated(0.15)	benign(0.038)	36/40	.	hmmpanther:PTHR23019:SF1,hmmpanther:PTHR23019	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCTAGCT	.	4	BLCA
GBA	0	.	GRCh37	1	155209797	155209797	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187G>C	p.Asp63His	p.D63H	ENST00000327247	4/12	38	33	5	28	28	0	GBA,missense_variant,p.Asp63His,ENST00000427500,;GBA,missense_variant,p.Asp63His,ENST00000327247,;GBA,missense_variant,p.Asp63His,ENST00000368373,;GBA,5_prime_UTR_variant,,ENST00000428024,;GBA,intron_variant,,ENST00000536770,;AL713999.1,upstream_gene_variant,,ENST00000401290,;GBA,non_coding_transcript_exon_variant,,ENST00000493842,;GBA,non_coding_transcript_exon_variant,,ENST00000473570,;GBA,non_coding_transcript_exon_variant,,ENST00000484489,;GBA,non_coding_transcript_exon_variant,,ENST00000470104,;GBA,intron_variant,,ENST00000467918,;GBA,upstream_gene_variant,,ENST00000491081,;GBA,upstream_gene_variant,,ENST00000497670,;GBA,upstream_gene_variant,,ENST00000478472,;GBA,upstream_gene_variant,,ENST00000464536,;GBA,upstream_gene_variant,,ENST00000460156,;	G	ENSG00000177628	ENST00000327247	Transcript	missense_variant	420	187	63	D/H	Gac/Cac	CM050263	.	.	-1	GBA	HGNC	4177	protein_coding	YES	CCDS1102.1	ENSP00000314508	GLCM_HUMAN	Q9UQU9_HUMAN,J3KQG4_HUMAN	UPI0000073DCE	.	deleterious(0)	probably_damaging(0.999)	4/12	.	Prints_domain:PR00843,Superfamily_domains:SSF51011,Pfam_domain:PF02055,Gene3D:2.60.40.1180,hmmpanther:PTHR11069,hmmpanther:PTHR11069:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGTCACAGT	.	4	BLCA
PKLR	0	.	GRCh37	1	155263300	155263300	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>C	p.Asp400His	p.D400H	ENST00000342741	8/11	63	51	11	52	52	0	PKLR,missense_variant,p.Asp400His,ENST00000342741,;PKLR,missense_variant,p.Asp369His,ENST00000392414,;HCN3,downstream_gene_variant,,ENST00000368358,;HCN3,downstream_gene_variant,,ENST00000496230,;HCN3,downstream_gene_variant,,ENST00000492035,;PKLR,downstream_gene_variant,,ENST00000434082,;	G	ENSG00000143627	ENST00000342741	Transcript	missense_variant	1237	1198	400	D/H	Gac/Cac	.	.	.	-1	PKLR	HGNC	9020	protein_coding	YES	CCDS1109.1	ENSP00000339933	KPYR_HUMAN	Q16715_HUMAN,B4DPM0_HUMAN	UPI0000001292	.	deleterious(0)	probably_damaging(1)	8/11	.	hmmpanther:PTHR11817,hmmpanther:PTHR11817:SF9,TIGRFAM_domain:TIGR01064,Gene3D:3.20.20.60,Pfam_domain:PF00224,Superfamily_domains:SSF51621,Prints_domain:PR01050	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTCAGCCC	.	5	BLCA
TMEM51	0	.	GRCh37	1	15541871	15541871	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288C>A	p.Asp96Glu	p.D96E	ENST00000428417	2/3	36	31	4	24	24	0	TMEM51,missense_variant,p.Asp96Glu,ENST00000434578,;TMEM51,missense_variant,p.Asp96Glu,ENST00000400796,;TMEM51,missense_variant,p.Asp96Glu,ENST00000376014,;TMEM51,missense_variant,p.Asp96Glu,ENST00000376008,;TMEM51,missense_variant,p.Asp96Glu,ENST00000451326,;TMEM51,missense_variant,p.Asp96Glu,ENST00000428417,;	A	ENSG00000171729	ENST00000428417	Transcript	missense_variant	734	288	96	D/E	gaC/gaA	.	.	.	1	TMEM51	HGNC	25488	protein_coding	YES	CCDS154.1	ENSP00000394899	TMM51_HUMAN	B1AP03_HUMAN	UPI0000073712	.	tolerated(1)	benign(0.001)	2/3	.	Pfam_domain:PF15345,hmmpanther:PTHR16015	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGACCTGGC	.	4	BLCA
KIAA0907	0	.	GRCh37	1	155895749	155895749	+	Intron	SNP	G	G	C	rs755570043	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.682-115C>G	.	.	ENST00000368321	.	83	65	17	77	77	0	KIAA0907,intron_variant,,ENST00000368320,;KIAA0907,intron_variant,,ENST00000368319,;KIAA0907,intron_variant,,ENST00000368321,;SCARNA4,non_coding_transcript_exon_variant,,ENST00000516999,;KIAA0907,intron_variant,,ENST00000482337,;KIAA0907,upstream_gene_variant,,ENST00000483237,;KIAA0907,downstream_gene_variant,,ENST00000466713,;KIAA0907,upstream_gene_variant,,ENST00000478002,;	C	ENSG00000132680	ENST00000368321	Transcript	intron_variant	.	.	.	.	.	rs755570043	.	.	-1	KIAA0907	HGNC	29145	protein_coding	YES	CCDS30885.1	ENSP00000357304	K0907_HUMAN	.	UPI00001A36E0	.	.	.	.	6/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTAGAGTGT	.	5	BLCA
SEMA4A	0	.	GRCh37	1	156146639	156146639	+	Missense_Mutation	SNP	C	C	T	rs762402192	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2137C>T	p.Arg713Trp	p.R713W	ENST00000368285	15/15	98	79	19	47	47	0	SEMA4A,missense_variant,p.Arg713Trp,ENST00000368282,;SEMA4A,missense_variant,p.Arg713Trp,ENST00000355014,;SEMA4A,missense_variant,p.Arg713Trp,ENST00000368285,;SEMA4A,missense_variant,p.Arg581Trp,ENST00000368286,;SEMA4A,missense_variant,p.Arg581Trp,ENST00000368284,;SEMA4A,downstream_gene_variant,,ENST00000484155,;SEMA4A,downstream_gene_variant,,ENST00000487358,;SEMA4A,downstream_gene_variant,,ENST00000462892,;	T	ENSG00000196189	ENST00000368285	Transcript	missense_variant	2404	2137	713	R/W	Cgg/Tgg	rs762402192	.	.	1	SEMA4A	HGNC	10729	protein_coding	YES	CCDS1132.1	ENSP00000357268	SEM4A_HUMAN	Q9HA40_HUMAN,Q5TCJ7_HUMAN,Q5TCJ5_HUMAN,Q5TCI6_HUMAN,B4DKS5_HUMAN	UPI000007217A	.	deleterious(0)	probably_damaging(0.947)	15/15	.	hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCGGGGC	byFrequency	5	BLCA
NES	0	.	GRCh37	1	156639168	156639168	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4812G>A	p.%3D	p.L1604L	ENST00000368223	4/4	87	76	10	65	65	0	NES,synonymous_variant,p.%3D,ENST00000368223,;	T	ENSG00000132688	ENST00000368223	Transcript	synonymous_variant	4945	4812	1604	L	ctG/ctA	.	.	.	-1	NES	HGNC	7756	protein_coding	YES	CCDS1151.1	ENSP00000357206	NEST_HUMAN	Q2YDX4_HUMAN	UPI0000213DC0	.	.	.	4/4	.	hmmpanther:PTHR23239:SF131,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTTCAGGAA	.	4	BLCA
LRRC71	0	.	GRCh37	1	156897567	156897567	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865C>T	p.His289Tyr	p.H289Y	ENST00000337428	8/15	60	52	7	52	52	0	LRRC71,missense_variant,p.His289Tyr,ENST00000337428,;LRRC71,non_coding_transcript_exon_variant,,ENST00000476550,;LRRC71,non_coding_transcript_exon_variant,,ENST00000490146,;LRRC71,upstream_gene_variant,,ENST00000472465,;	T	ENSG00000160838	ENST00000337428	Transcript	missense_variant	1019	865	289	H/Y	Cac/Tac	.	.	.	1	LRRC71	HGNC	26556	protein_coding	YES	CCDS44249.1	ENSP00000336661	LRC71_HUMAN	.	UPI00000719B9	.	deleterious(0.04)	possibly_damaging(0.833)	8/15	.	hmmpanther:PTHR24106,Gene3D:3.80.10.10,SMART_domains:SM00368,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCCCACAAC	.	4	BLCA
IGSF8	0	.	GRCh37	1	160063782	160063782	+	Missense_Mutation	SNP	C	C	T	rs777071877	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622G>A	p.Glu208Lys	p.E208K	ENST00000368086	3/7	117	101	16	89	88	1	IGSF8,missense_variant,p.Glu208Lys,ENST00000314485,;IGSF8,missense_variant,p.Glu208Lys,ENST00000368086,;IGSF8,missense_variant,p.Glu208Lys,ENST00000448417,;KCNJ9,downstream_gene_variant,,ENST00000368088,;IGSF8,non_coding_transcript_exon_variant,,ENST00000460351,;	T	ENSG00000162729	ENST00000368086	Transcript	missense_variant	839	622	208	E/K	Gag/Aag	rs777071877	.	.	-1	IGSF8	HGNC	17813	protein_coding	YES	CCDS1195.1	ENSP00000357065	IGSF8_HUMAN	C9J8Z4_HUMAN	UPI0000073CBA	.	tolerated(0.27)	benign(0.397)	3/7	.	hmmpanther:PTHR12207,hmmpanther:PTHR12207:SF22,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCTCGGGCA	byFrequency	3	BLCA
SLAMF7	0	.	GRCh37	1	160718077	160718077	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.149C>G	p.Ser50Cys	p.S50C	ENST00000368043	2/7	81	72	8	60	60	0	SLAMF7,missense_variant,p.Ser50Cys,ENST00000359331,;SLAMF7,missense_variant,p.Ser50Cys,ENST00000495334,;SLAMF7,missense_variant,p.Ser50Cys,ENST00000368043,;SLAMF7,missense_variant,p.Ser50Cys,ENST00000444090,;SLAMF7,missense_variant,p.Ser50Cys,ENST00000441662,;SLAMF7,intron_variant,,ENST00000458602,;SLAMF7,intron_variant,,ENST00000368042,;SLAMF7,intron_variant,,ENST00000458104,;SLAMF7,non_coding_transcript_exon_variant,,ENST00000488819,;SLAMF7,upstream_gene_variant,,ENST00000484221,;	G	ENSG00000026751	ENST00000368043	Transcript	missense_variant	186	149	50	S/C	tCt/tGt	.	.	.	1	SLAMF7	HGNC	21394	protein_coding	YES	CCDS1209.1	ENSP00000357022	SLAF7_HUMAN	.	UPI00000389DC	.	deleterious(0)	probably_damaging(0.985)	2/7	.	hmmpanther:PTHR12080:SF46,hmmpanther:PTHR12080,Gene3D:2.60.40.10,Pfam_domain:PF07686,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGACTCTATTG	.	4	BLCA
ITLN1	0	.	GRCh37	1	160854638	160854638	+	Silent	SNP	G	G	A	rs765290429	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30C>T	p.%3D	p.L10L	ENST00000326245	2/8	242	207	34	213	213	0	ITLN1,synonymous_variant,p.%3D,ENST00000326245,;ITLN1,upstream_gene_variant,,ENST00000464077,;ITLN1,upstream_gene_variant,,ENST00000487531,;	A	ENSG00000179914	ENST00000326245	Transcript	synonymous_variant	146	30	10	L	ctC/ctT	rs765290429	.	.	-1	ITLN1	HGNC	18259	protein_coding	YES	CCDS1211.1	ENSP00000323587	ITLN1_HUMAN	.	UPI0000032AA3	.	.	.	2/8	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTATGAGAAA	byFrequency	3	BLCA
ITLN1	0	.	GRCh37	1	160854650	160854650	+	Silent	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18C>T	p.%3D	p.F6F	ENST00000326245	2/8	221	192	29	204	204	0	ITLN1,synonymous_variant,p.%3D,ENST00000326245,;ITLN1,upstream_gene_variant,,ENST00000464077,;ITLN1,upstream_gene_variant,,ENST00000487531,;	A	ENSG00000179914	ENST00000326245	Transcript	synonymous_variant	134	18	6	F	ttC/ttT	COSM3477056	.	.	-1	ITLN1	HGNC	18259	protein_coding	YES	CCDS1211.1	ENSP00000323587	ITLN1_HUMAN	.	UPI0000032AA3	.	.	.	2/8	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCAGGAAGCT	.	3	BLCA
NIT1	0	.	GRCh37	1	161089363	161089363	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418C>T	p.Gln140Ter	p.Q140*	ENST00000368009	4/7	38	30	8	32	32	0	NIT1,stop_gained,p.Gln140Ter,ENST00000368008,;NIT1,stop_gained,p.Gln140Ter,ENST00000368009,;NIT1,stop_gained,p.Gln104Ter,ENST00000392190,;NIT1,stop_gained,p.Gln125Ter,ENST00000368007,;DEDD,downstream_gene_variant,,ENST00000490843,;DEDD,downstream_gene_variant,,ENST00000464113,;DEDD,downstream_gene_variant,,ENST00000368006,;PFDN2,upstream_gene_variant,,ENST00000368010,;DEDD,downstream_gene_variant,,ENST00000458050,;DEDD,downstream_gene_variant,,ENST00000392188,;DEDD,downstream_gene_variant,,ENST00000368005,;DEDD,downstream_gene_variant,,ENST00000545495,;NIT1,non_coding_transcript_exon_variant,,ENST00000486962,;NIT1,non_coding_transcript_exon_variant,,ENST00000461376,;NIT1,non_coding_transcript_exon_variant,,ENST00000491497,;NIT1,non_coding_transcript_exon_variant,,ENST00000496768,;NIT1,non_coding_transcript_exon_variant,,ENST00000477684,;NIT1,non_coding_transcript_exon_variant,,ENST00000496861,;NIT1,non_coding_transcript_exon_variant,,ENST00000492411,;NIT1,non_coding_transcript_exon_variant,,ENST00000485594,;NIT1,non_coding_transcript_exon_variant,,ENST00000479266,;NIT1,downstream_gene_variant,,ENST00000478277,;DEDD,downstream_gene_variant,,ENST00000486041,;NIT1,downstream_gene_variant,,ENST00000473918,;DEDD,downstream_gene_variant,,ENST00000489249,;DEDD,downstream_gene_variant,,ENST00000472996,;NIT1,upstream_gene_variant,,ENST00000479728,;PFDN2,upstream_gene_variant,,ENST00000468311,;DEDD,downstream_gene_variant,,ENST00000473679,;DEDD,downstream_gene_variant,,ENST00000496632,;DEDD,downstream_gene_variant,,ENST00000463227,;	T	ENSG00000158793	ENST00000368009	Transcript	stop_gained	494	418	140	Q/*	Cag/Tag	.	.	.	1	NIT1	HGNC	7828	protein_coding	YES	CCDS1218.1	ENSP00000356988	NIT1_HUMAN	.	UPI00000715F9	.	.	.	4/7	.	PROSITE_profiles:PS50263,hmmpanther:PTHR23088,hmmpanther:PTHR23088:SF5,Gene3D:3.60.110.10,Pfam_domain:PF00795,Superfamily_domains:SSF56317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTCAGAAA	.	5	BLCA
UHMK1	0	.	GRCh37	1	162467847	162467847	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57C>G	p.Phe19Leu	p.F19L	ENST00000489294	1/8	42	31	11	41	41	0	UHMK1,missense_variant,p.Phe19Leu,ENST00000489294,;UHMK1,missense_variant,p.Phe19Leu,ENST00000538489,;UHMK1,intron_variant,,ENST00000545294,;UHMK1,upstream_gene_variant,,ENST00000282169,;	G	ENSG00000152332	ENST00000489294	Transcript	missense_variant	215	57	19	F/L	ttC/ttG	.	.	.	1	UHMK1	HGNC	19683	protein_coding	YES	CCDS1239.1	ENSP00000420270	UHMK1_HUMAN	.	UPI000000DCCA	.	tolerated(0.84)	benign(0.001)	1/8	.	hmmpanther:PTHR23139,hmmpanther:PTHR23139:SF14,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCGGGCG	.	5	BLCA
HSD17B7	0	.	GRCh37	1	162762471	162762471	+	Nonsense_Mutation	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58A>T	p.Lys20Ter	p.K20*	ENST00000254521	2/9	23	19	3	14	14	0	HSD17B7,stop_gained,p.Lys20Ter,ENST00000367913,;HSD17B7,stop_gained,p.Lys20Ter,ENST00000367917,;HSD17B7,stop_gained,p.Lys20Ter,ENST00000367915,;HSD17B7,stop_gained,p.Lys20Ter,ENST00000254521,;HSD17B7,non_coding_transcript_exon_variant,,ENST00000485405,;HSD17B7,non_coding_transcript_exon_variant,,ENST00000463037,;HSD17B7,upstream_gene_variant,,ENST00000484251,;HSD17B7,stop_gained,p.Lys20Ter,ENST00000466176,;	T	ENSG00000132196	ENST00000254521	Transcript	stop_gained	113	58	20	K/*	Aag/Tag	.	.	.	1	HSD17B7	HGNC	5215	protein_coding	YES	CCDS1242.1	ENSP00000254521	DHB7_HUMAN	.	UPI000004C64C	.	.	.	2/9	.	hmmpanther:PTHR24316:SF314,hmmpanther:PTHR24316,Pfam_domain:PF00106,Gene3D:3.40.50.720,Superfamily_domains:SSF51735,Prints_domain:PR00081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTGCAAGCGG	.	4	BLCA
EPHA2	0	.	GRCh37	1	16475149	16475150	+	Frame_Shift_Del	DEL	GG	GG	-	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	GG	GG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546_547delCC	p.Phe182LeufsTer31	p.F182Lfs*31	ENST00000358432	3/17	81	71	10	68	68	0	EPHA2,frameshift_variant,p.Phe182LeufsTer31,ENST00000358432,;EPHA2,non_coding_transcript_exon_variant,,ENST00000461614,;EPHA2,upstream_gene_variant,,ENST00000480202,;	-	ENSG00000142627	ENST00000358432	Transcript	frameshift_variant	701-702	546-547	182-183	FQ/LX	ttCCag/ttag	.	.	.	-1	EPHA2	HGNC	3386	protein_coding	YES	CCDS169.1	ENSP00000351209	EPHA2_HUMAN	Q96HF4_HUMAN,Q8IZL0_HUMAN	UPI00000731AB	.	.	.	3/17	.	PROSITE_profiles:PS51550,hmmpanther:PTHR24416:SF306,hmmpanther:PTHR24416,PROSITE_patterns:PS00790,Pfam_domain:PF01404,Gene3D:2.60.120.260,PIRSF_domain:PIRSF000666,SMART_domains:SM00615,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TATCCTGGAAGGC	.	3	BLCA
NBPF1	0	.	GRCh37	1	16895604	16895604	+	Missense_Mutation	SNP	C	C	G	rs747983924	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2578G>C	p.Glu860Gln	p.E860Q	ENST00000430580	23/29	2396	2303	93	2046	2046	0	NBPF1,missense_variant,p.Glu860Gln,ENST00000430580,;NBPF1,3_prime_UTR_variant,,ENST00000420031,;NBPF1,3_prime_UTR_variant,,ENST00000287968,;NBPF1,intron_variant,,ENST00000432949,;NBPF1,3_prime_UTR_variant,,ENST00000392963,;	G	ENSG00000219481	ENST00000430580	Transcript	missense_variant	3466	2578	860	E/Q	Gag/Cag	rs747983924	.	.	-1	NBPF1	HGNC	26088	protein_coding	YES	.	ENSP00000474456	.	S4R3W5_HUMAN,S4R3K2_HUMAN,S4R3H5_HUMAN,Q3BBU8_HUMAN	UPI0000E04FDF	.	deleterious(0.03)	possibly_damaging(0.891)	23/29	.	PROSITE_profiles:PS51316,hmmpanther:PTHR14199:SF16,hmmpanther:PTHR14199,Pfam_domain:PF06758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTCTAATG	byFrequency	2	BLCA
F5	0	.	GRCh37	1	169524545	169524545	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993G>C	p.Lys331Asn	p.K331N	ENST00000367797	7/25	80	67	12	58	58	0	F5,missense_variant,p.Lys331Asn,ENST00000367796,;F5,missense_variant,p.Lys194Asn,ENST00000546081,;F5,missense_variant,p.Lys331Asn,ENST00000367797,;	G	ENSG00000198734	ENST00000367797	Transcript	missense_variant	1195	993	331	K/N	aaG/aaC	.	.	.	-1	F5	HGNC	3542	protein_coding	YES	CCDS1281.1	ENSP00000356771	FA5_HUMAN	Q8TD21_HUMAN,Q2HZZ1_HUMAN,Q1L610_HUMAN	UPI0000070F01	.	tolerated(0.15)	probably_damaging(0.999)	7/25	.	hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF597,Gene3D:2.60.40.420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTTTTCTTTGG	.	3	BLCA
MROH9	0	.	GRCh37	1	170961386	170961386	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1110G>A	p.%3D	p.L370L	ENST00000367759	12/22	62	52	10	42	42	0	MROH9,synonymous_variant,p.%3D,ENST00000367759,;MROH9,synonymous_variant,p.%3D,ENST00000367758,;MROH9,upstream_gene_variant,,ENST00000426136,;	A	ENSG00000117501	ENST00000367759	Transcript	synonymous_variant	1264	1110	370	L	ctG/ctA	.	.	.	1	MROH9	HGNC	26287	protein_coding	YES	CCDS53429.1	ENSP00000356733	MROH9_HUMAN	.	UPI0001B09232	.	.	.	12/22	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF5,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATACTGAAAGG	.	4	BLCA
RASAL2	0	.	GRCh37	1	178433412	178433412	+	Splice_Site	SNP	G	G	A	rs755250741	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3253-1G>A	.	p.X1085_splice	ENST00000367649	.	59	49	9	47	47	0	RASAL2,splice_acceptor_variant,,ENST00000462775,;RASAL2,splice_acceptor_variant,,ENST00000367649,;RASAL2,splice_acceptor_variant,,ENST00000448150,;RASAL2,splice_acceptor_variant,,ENST00000433130,;	A	ENSG00000075391	ENST00000367649	Transcript	splice_acceptor_variant	.	.	.	.	.	rs755250741	.	.	1	RASAL2	HGNC	9874	protein_coding	YES	CCDS1321.2	ENSP00000356621	NGAP_HUMAN	Q8IW42_HUMAN,Q6P4F9_HUMAN	UPI00019B254F	.	.	.	.	14/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGGTTCA	.	5	BLCA
ARHGEF10L	0	.	GRCh37	1	17913957	17913957	+	Missense_Mutation	SNP	G	G	C	rs745558479	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>C	p.Asp14His	p.D14H	ENST00000361221	3/29	49	45	4	47	47	0	ARHGEF10L,missense_variant,p.Asp14His,ENST00000375415,;ARHGEF10L,missense_variant,p.Asp14His,ENST00000361221,;ARHGEF10L,missense_variant,p.Asp14His,ENST00000434513,;ARHGEF10L,missense_variant,p.Asp14His,ENST00000452522,;ARHGEF10L,upstream_gene_variant,,ENST00000375420,;	C	ENSG00000074964	ENST00000361221	Transcript	missense_variant	199	40	14	D/H	Gat/Cat	rs745558479	.	.	1	ARHGEF10L	HGNC	25540	protein_coding	YES	CCDS182.1	ENSP00000355060	ARGAL_HUMAN	.	UPI00003664EA	.	deleterious_low_confidence(0)	possibly_damaging(0.614)	3/29	.	hmmpanther:PTHR12877,hmmpanther:PTHR12877:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGAGATCAG	.	2	BLCA
KIAA1614	0	.	GRCh37	1	180914765	180914765	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*41G>C	.	.	ENST00000367588	9/9	16	13	3	10	10	0	KIAA1614,3_prime_UTR_variant,,ENST00000367588,;KIAA1614,3_prime_UTR_variant,,ENST00000367587,;RP11-46A10.5,non_coding_transcript_exon_variant,,ENST00000358073,;RP11-46A10.4,downstream_gene_variant,,ENST00000415647,;KIAA1614,intron_variant,,ENST00000461346,;KIAA1614,downstream_gene_variant,,ENST00000483705,;	C	ENSG00000135835	ENST00000367588	Transcript	3_prime_UTR_variant	3669	.	.	.	.	.	.	.	1	KIAA1614	HGNC	29327	protein_coding	YES	CCDS41442.1	ENSP00000356560	K1614_HUMAN	.	UPI00001C1D75	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACAGGACTAG	.	2	BLCA
NPL	0	.	GRCh37	1	182798132	182798132	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*89G>C	.	.	ENST00000367553	12/12	31	25	6	30	30	0	NPL,3_prime_UTR_variant,,ENST00000258317,;NPL,3_prime_UTR_variant,,ENST00000367554,;NPL,3_prime_UTR_variant,,ENST00000367553,;NPL,intron_variant,,ENST00000367552,;NPL,intron_variant,,ENST00000367555,;NPL,intron_variant,,ENST00000460179,;NPL,intron_variant,,ENST00000488424,;NPL,downstream_gene_variant,,ENST00000463899,;	C	ENSG00000135838	ENST00000367553	Transcript	3_prime_UTR_variant	1096	.	.	.	.	.	.	.	1	NPL	HGNC	16781	protein_coding	YES	CCDS1350.1	ENSP00000356524	NPL_HUMAN	.	UPI00000728AB	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTTGAATAA	.	4	BLCA
DHX9	0	.	GRCh37	1	182827713	182827713	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.838C>G	p.Gln280Glu	p.Q280E	ENST00000367549	9/28	122	97	24	103	103	0	DHX9,missense_variant,p.Gln280Glu,ENST00000367549,;DHX9,upstream_gene_variant,,ENST00000477802,;DHX9,downstream_gene_variant,,ENST00000479271,;DHX9,downstream_gene_variant,,ENST00000483416,;	G	ENSG00000135829	ENST00000367549	Transcript	missense_variant	948	838	280	Q/E	Caa/Gaa	.	.	.	1	DHX9	HGNC	2750	protein_coding	YES	CCDS41444.1	ENSP00000356520	DHX9_HUMAN	.	UPI00001AEF15	.	tolerated(0.33)	benign(0.003)	9/28	.	hmmpanther:PTHR18934:SF84,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCAAGAT	.	5	BLCA
SHCBP1L	0	.	GRCh37	1	182921954	182921954	+	Silent	SNP	G	G	C	rs765675128	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315C>G	p.%3D	p.P105P	ENST00000367547	1/10	26	22	4	25	25	0	SHCBP1L,synonymous_variant,p.%3D,ENST00000367547,;SHCBP1L,upstream_gene_variant,,ENST00000423786,;SHCBP1L,non_coding_transcript_exon_variant,,ENST00000497549,;SHCBP1L,non_coding_transcript_exon_variant,,ENST00000488956,;SHCBP1L,non_coding_transcript_exon_variant,,ENST00000483655,;SHCBP1L,upstream_gene_variant,,ENST00000467208,;RP11-505O17.1,downstream_gene_variant,,ENST00000418657,;	C	ENSG00000157060	ENST00000367547	Transcript	synonymous_variant	552	315	105	P	ccC/ccG	rs765675128	.	.	-1	SHCBP1L	HGNC	16788	protein_coding	YES	CCDS30955.1	ENSP00000356518	SHP1L_HUMAN	.	UPI000006F7B9	.	.	.	1/10	.	hmmpanther:PTHR14695:SF7,hmmpanther:PTHR14695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GGCAGGGGCTG	.	2	BLCA
LAMC2	0	.	GRCh37	1	183190000	183190000	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.544G>A	p.Glu182Lys	p.E182K	ENST00000264144	5/23	110	98	12	89	89	0	LAMC2,missense_variant,p.Glu182Lys,ENST00000264144,;LAMC2,missense_variant,p.Glu182Lys,ENST00000493293,;	A	ENSG00000058085	ENST00000264144	Transcript	missense_variant	609	544	182	E/K	Gag/Aag	.	.	.	1	LAMC2	HGNC	6493	protein_coding	YES	CCDS1352.1	ENSP00000264144	LAMC2_HUMAN	.	UPI000013D4CA	.	tolerated(0.47)	benign(0.072)	5/23	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF79,hmmpanther:PTHR10574,PROSITE_patterns:PS01248,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00181,SMART_domains:SM00180,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	ACCCTGAGGGC	.	3	BLCA
LAMC2	0	.	GRCh37	1	183201368	183201368	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1904C>G	p.Ser635Ter	p.S635*	ENST00000264144	13/23	182	155	26	131	131	0	LAMC2,stop_gained,p.Ser635Ter,ENST00000264144,;LAMC2,stop_gained,p.Ser635Ter,ENST00000493293,;	G	ENSG00000058085	ENST00000264144	Transcript	stop_gained	1969	1904	635	S/*	tCa/tGa	.	.	.	1	LAMC2	HGNC	6493	protein_coding	YES	CCDS1352.1	ENSP00000264144	LAMC2_HUMAN	.	UPI000013D4CA	.	.	.	13/23	.	hmmpanther:PTHR10574:SF79,hmmpanther:PTHR10574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTCAAAGG	.	4	BLCA
COLGALT2	0	.	GRCh37	1	183920164	183920164	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1113G>C	p.Lys371Asn	p.K371N	ENST00000361927	8/12	347	293	54	271	271	0	COLGALT2,missense_variant,p.Lys108Asn,ENST00000367520,;COLGALT2,missense_variant,p.Lys371Asn,ENST00000361927,;COLGALT2,missense_variant,p.Lys371Asn,ENST00000546159,;COLGALT2,upstream_gene_variant,,ENST00000367521,;	G	ENSG00000198756	ENST00000361927	Transcript	missense_variant	1485	1113	371	K/N	aaG/aaC	.	.	.	-1	COLGALT2	HGNC	16790	protein_coding	YES	CCDS1360.1	ENSP00000354960	GT252_HUMAN	Q5SXQ5_HUMAN,B3KT92_HUMAN	UPI000007423A	.	deleterious(0.02)	possibly_damaging(0.855)	8/12	.	Pfam_domain:PF01755,hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAATCTTGAC	.	4	BLCA
BRINP3	0	.	GRCh37	1	190423924	190423924	+	Missense_Mutation	SNP	C	C	T	rs370647729	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.97G>A	p.Ala33Thr	p.A33T	ENST00000367462	2/8	40	33	7	32	32	0	BRINP3,missense_variant,p.Ala33Thr,ENST00000367462,;BRINP3,5_prime_UTR_variant,,ENST00000534846,;BRINP3,downstream_gene_variant,,ENST00000445957,;	T	ENSG00000162670	ENST00000367462	Transcript	missense_variant	329	97	33	A/T	Gct/Act	rs370647729	.	.	-1	BRINP3	HGNC	22393	protein_coding	YES	CCDS1373.1	ENSP00000356432	BRNP3_HUMAN	.	UPI00001C1D9A	.	tolerated(0.17)	benign(0.002)	2/8	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR15564:SF2,hmmpanther:PTHR15564	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGCAACCG	byCluster	5	BLCA
ALDH4A1	0	.	GRCh37	1	19208312	19208312	+	Missense_Mutation	SNP	G	G	A	rs372738622	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748C>T	p.Arg250Trp	p.R250W	ENST00000375341	8/15	56	43	13	35	35	0	ALDH4A1,missense_variant,p.Arg190Trp,ENST00000538309,;ALDH4A1,missense_variant,p.Arg250Trp,ENST00000538839,;ALDH4A1,missense_variant,p.Arg250Trp,ENST00000290597,;ALDH4A1,missense_variant,p.Arg250Trp,ENST00000375341,;ALDH4A1,downstream_gene_variant,,ENST00000432718,;MIR4695,downstream_gene_variant,,ENST00000577305,;ALDH4A1,downstream_gene_variant,,ENST00000454547,;RP13-279N23.2,3_prime_UTR_variant,,ENST00000494072,;	A	ENSG00000159423	ENST00000375341	Transcript	missense_variant	1006	748	250	R/W	Cgg/Tgg	rs372738622	.	.	-1	ALDH4A1	HGNC	406	protein_coding	YES	CCDS188.1	ENSP00000364490	AL4A1_HUMAN	.	UPI000007418C	.	deleterious(0)	probably_damaging(0.967)	8/15	.	hmmpanther:PTHR11699,hmmpanther:PTHR11699:SF18,TIGRFAM_domain:TIGR01236,Pfam_domain:PF00171,Gene3D:3.40.605.10,Superfamily_domains:SSF53720	A:0.0006	A:0	A:0.0014	.	A:0	A:0	A:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCCGAAGGA	byFrequency|byCluster|by1000G	5	BLCA
KCNT2	0	.	GRCh37	1	196250016	196250016	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2884G>C	p.Glu962Gln	p.E962Q	ENST00000294725	25/28	68	56	11	51	51	0	KCNT2,missense_variant,p.Glu888Gln,ENST00000609185,;KCNT2,missense_variant,p.Glu962Gln,ENST00000294725,;KCNT2,missense_variant,p.Glu938Gln,ENST00000367433,;KCNT2,missense_variant,p.Glu888Gln,ENST00000367431,;KCNT2,3_prime_UTR_variant,,ENST00000451324,;KCNT2,non_coding_transcript_exon_variant,,ENST00000610076,;KCNT2,non_coding_transcript_exon_variant,,ENST00000498426,;	G	ENSG00000162687	ENST00000294725	Transcript	missense_variant	3800	2884	962	E/Q	Gag/Cag	.	.	.	-1	KCNT2	HGNC	18866	protein_coding	YES	CCDS1384.1	ENSP00000294725	KCNT2_HUMAN	A9LNM6_HUMAN	UPI00001E0966	.	tolerated(0.39)	benign(0.085)	25/28	.	hmmpanther:PTHR10027,hmmpanther:PTHR10027:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTCAGTCC	.	5	BLCA
CFHR1	0	.	GRCh37	1	196801134	196801134	+	3'UTR	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5A>T	.	.	ENST00000320493	6/6	85	64	21	79	79	0	CFHR1,3_prime_UTR_variant,,ENST00000367424,;CFHR1,3_prime_UTR_variant,,ENST00000320493,;CFHR2,intron_variant,,ENST00000367421,;CFHR1,downstream_gene_variant,,ENST00000480960,;	T	ENSG00000244414	ENST00000320493	Transcript	3_prime_UTR_variant	1086	.	.	.	.	.	.	.	1	CFHR1	HGNC	4888	protein_coding	YES	CCDS1386.1	ENSP00000314299	FHR1_HUMAN	Q6LBM9_HUMAN	UPI000013CCFE	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATCAATCAT	.	5	BLCA
KIF21B	0	.	GRCh37	1	200973999	200973999	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.795C>T	p.%3D	p.L265L	ENST00000422435	6/35	66	59	7	63	63	0	KIF21B,synonymous_variant,p.%3D,ENST00000422435,;KIF21B,synonymous_variant,p.%3D,ENST00000360529,;KIF21B,synonymous_variant,p.%3D,ENST00000461742,;KIF21B,synonymous_variant,p.%3D,ENST00000332129,;KIF21B,non_coding_transcript_exon_variant,,ENST00000534043,;	A	ENSG00000116852	ENST00000422435	Transcript	synonymous_variant	1112	795	265	L	ctC/ctT	.	.	.	-1	KIF21B	HGNC	29442	protein_coding	YES	CCDS58056.1	ENSP00000411831	KI21B_HUMAN	.	UPI0000153E7C	.	.	.	6/35	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF335,hmmpanther:PTHR24115,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGTGAGTGT	.	4	BLCA
TNNT2	0	.	GRCh37	1	201332521	201332521	+	Missense_Mutation	SNP	C	C	G	rs397516468	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.473G>C	p.Arg158Pro	p.R158P	ENST00000509001	11/16	141	121	20	112	112	0	TNNT2,missense_variant,p.Arg158Pro,ENST00000367318,;TNNT2,missense_variant,p.Arg170Pro,ENST00000458432,;TNNT2,missense_variant,p.Arg158Pro,ENST00000367317,;TNNT2,missense_variant,p.Arg153Pro,ENST00000360372,;TNNT2,missense_variant,p.Arg158Pro,ENST00000367315,;TNNT2,missense_variant,p.Arg158Pro,ENST00000509001,;TNNT2,missense_variant,p.Arg158Pro,ENST00000367322,;TNNT2,missense_variant,p.Arg160Pro,ENST00000421663,;TNNT2,missense_variant,p.Arg153Pro,ENST00000438742,;TNNT2,missense_variant,p.Arg168Pro,ENST00000455702,;TNNT2,missense_variant,p.Arg128Pro,ENST00000367320,;TNNT2,missense_variant,p.Arg163Pro,ENST00000236918,;TNNT2,downstream_gene_variant,,ENST00000422165,;TNNT2,downstream_gene_variant,,ENST00000412633,;TNNT2,non_coding_transcript_exon_variant,,ENST00000460780,;TNNT2,non_coding_transcript_exon_variant,,ENST00000479297,;TNNT2,non_coding_transcript_exon_variant,,ENST00000466570,;TNNT2,downstream_gene_variant,,ENST00000475686,;TNNT2,upstream_gene_variant,,ENST00000477035,;TNNT2,upstream_gene_variant,,ENST00000476888,;TNNT2,non_coding_transcript_exon_variant,,ENST00000491504,;TNNT2,non_coding_transcript_exon_variant,,ENST00000515042,;TNNT2,downstream_gene_variant,,ENST00000503459,;TNNT2,downstream_gene_variant,,ENST00000472177,;TNNT2,downstream_gene_variant,,ENST00000445079,;TNNT2,downstream_gene_variant,,ENST00000494095,;	G	ENSG00000118194	ENST00000509001	Transcript	missense_variant	760	473	158	R/P	cGa/cCa	rs397516468,COSM214070	.	.	-1	TNNT2	HGNC	11949	protein_coding	YES	CCDS30969.1	ENSP00000422031	TNNT2_HUMAN	Q8IZA1_HUMAN,Q15608_HUMAN,A9QLG2_HUMAN,A9QLG1_HUMAN	UPI000014A55F	.	deleterious(0.03)	probably_damaging(0.998)	11/16	.	Pfam_domain:PF00992,hmmpanther:PTHR11521:SF5,hmmpanther:PTHR11521,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	uncertain_significance	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCGTCGAGCC	.	4	BLCA
ADORA1	0	.	GRCh37	1	203135020	203135020	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.973G>C	p.Asp325His	p.D325H	ENST00000367236	3/3	56	49	6	45	45	0	ADORA1,missense_variant,p.Asp325His,ENST00000367236,;ADORA1,missense_variant,p.Asp325His,ENST00000309502,;ADORA1,missense_variant,p.Asp325His,ENST00000337894,;ADORA1,3_prime_UTR_variant,,ENST00000367235,;MYBPH,downstream_gene_variant,,ENST00000255416,;ADORA1,non_coding_transcript_exon_variant,,ENST00000467253,;ADORA1,non_coding_transcript_exon_variant,,ENST00000472535,;ADORA1,downstream_gene_variant,,ENST00000464019,;	C	ENSG00000163485	ENST00000367236	Transcript	missense_variant	1894	973	325	D/H	Gat/Cat	.	.	.	1	ADORA1	HGNC	262	protein_coding	YES	CCDS1434.1	ENSP00000356205	AA1R_HUMAN	.	UPI00000503E1	.	tolerated(0.06)	benign(0.001)	3/3	.	hmmpanther:PTHR24246:SF1,hmmpanther:PTHR24246	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTGATGAC	.	4	BLCA
PIK3C2B	0	.	GRCh37	1	204423840	204423840	+	Missense_Mutation	SNP	G	G	C	rs761242122	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2023C>G	p.His675Asp	p.H675D	ENST00000367187	13/34	192	177	15	142	142	0	PIK3C2B,missense_variant,p.His675Asp,ENST00000367187,;PIK3C2B,missense_variant,p.His675Asp,ENST00000424712,;PIK3C2B,non_coding_transcript_exon_variant,,ENST00000496872,;PIK3C2B,upstream_gene_variant,,ENST00000479079,;	C	ENSG00000133056	ENST00000367187	Transcript	missense_variant	2580	2023	675	H/D	Cac/Gac	rs761242122	.	.	-1	PIK3C2B	HGNC	8972	protein_coding	YES	CCDS1446.1	ENSP00000356155	P3C2B_HUMAN	Q5SW98_HUMAN,Q5SW97_HUMAN,Q4LE65_HUMAN,A2RUF7_HUMAN	UPI00002056D1	.	tolerated(0.6)	benign(0.215)	13/34	.	PROSITE_profiles:PS51547,hmmpanther:PTHR10048:SF30,hmmpanther:PTHR10048,Gene3D:2.60.40.150,Pfam_domain:PF00792,SMART_domains:SM00142,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAAGTGAGCTC	byFrequency	3	BLCA
CNTN2	0	.	GRCh37	1	205028387	205028387	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.663C>T	p.%3D	p.F221F	ENST00000331830	6/23	40	35	4	36	36	0	CNTN2,synonymous_variant,p.%3D,ENST00000331830,;AL583832.1,upstream_gene_variant,,ENST00000515887,;CNTN2,non_coding_transcript_exon_variant,,ENST00000530117,;CNTN2,non_coding_transcript_exon_variant,,ENST00000481872,;CNTN2,upstream_gene_variant,,ENST00000527340,;CNTN2,downstream_gene_variant,,ENST00000532366,;	T	ENSG00000184144	ENST00000331830	Transcript	synonymous_variant	947	663	221	F	ttC/ttT	.	.	.	1	CNTN2	HGNC	2172	protein_coding	YES	CCDS1449.1	ENSP00000330633	CNTN2_HUMAN	.	UPI00001266A5	.	.	.	6/23	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF50,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GTCTTCAGCAA	.	2	BLCA
CDK18	0	.	GRCh37	1	205497029	205497029	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927G>C	p.%3D	p.L309L	ENST00000506784	9/16	120	97	23	101	101	0	CDK18,synonymous_variant,p.%3D,ENST00000360066,;CDK18,synonymous_variant,p.%3D,ENST00000506784,;CDK18,synonymous_variant,p.%3D,ENST00000429964,;CDK18,downstream_gene_variant,,ENST00000478560,;CDK18,downstream_gene_variant,,ENST00000443813,;CDK18,downstream_gene_variant,,ENST00000419301,;CDK18,downstream_gene_variant,,ENST00000506215,;CDK18,non_coding_transcript_exon_variant,,ENST00000506489,;CDK18,non_coding_transcript_exon_variant,,ENST00000509056,;CDK18,non_coding_transcript_exon_variant,,ENST00000505932,;CDK18,upstream_gene_variant,,ENST00000484080,;CDK18,downstream_gene_variant,,ENST00000507067,;CDK18,upstream_gene_variant,,ENST00000515514,;CDK18,downstream_gene_variant,,ENST00000507240,;CDK18,upstream_gene_variant,,ENST00000468954,;CDK18,upstream_gene_variant,,ENST00000512008,;CDK18,upstream_gene_variant,,ENST00000459862,;CDK18,3_prime_UTR_variant,,ENST00000504648,;CDK18,3_prime_UTR_variant,,ENST00000515494,;CDK18,non_coding_transcript_exon_variant,,ENST00000489617,;CDK18,downstream_gene_variant,,ENST00000462976,;CDK18,downstream_gene_variant,,ENST00000476153,;CDK18,upstream_gene_variant,,ENST00000504162,;CDK18,downstream_gene_variant,,ENST00000512922,;	C	ENSG00000117266	ENST00000506784	Transcript	synonymous_variant	1147	927	309	L	ctG/ctC	.	.	.	1	CDK18	HGNC	8751	protein_coding	YES	CCDS1454.1	ENSP00000423665	CDK18_HUMAN	Q9BWF9_HUMAN,E9PMF2_HUMAN,D6RGH0_HUMAN,B4DHU6_HUMAN,B3KX76_HUMAN	UPI000035030C	.	.	.	9/16	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24056:SF52,hmmpanther:PTHR24056,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGAAGCT	.	5	BLCA
PFKFB2	0	.	GRCh37	1	207245702	207245702	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1504G>A	p.Glu502Lys	p.E502K	ENST00000367080	15/15	92	77	15	79	79	0	PFKFB2,missense_variant,p.Glu502Lys,ENST00000367080,;PFKFB2,missense_variant,p.Glu469Lys,ENST00000545806,;PFKFB2,intron_variant,,ENST00000541914,;PFKFB2,intron_variant,,ENST00000367079,;PFKFB2,intron_variant,,ENST00000411990,;PFKFB2,intron_variant,,ENST00000473310,;PFKFB2,intron_variant,,ENST00000483688,;	A	ENSG00000123836	ENST00000367080	Transcript	missense_variant	1628	1504	502	E/K	Gaa/Aaa	.	.	.	1	PFKFB2	HGNC	8873	protein_coding	YES	CCDS31004.1	ENSP00000356047	F262_HUMAN	B0FLL2_HUMAN	UPI000012A3F0	.	.	benign(0.016)	15/15	.	hmmpanther:PTHR10606:SF13,hmmpanther:PTHR10606	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCAAGAAGGG	.	4	BLCA
C4BPA	0	.	GRCh37	1	207297598	207297598	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.593C>G	p.Ser198Cys	p.S198C	ENST00000367070	6/12	163	137	25	112	112	0	C4BPA,missense_variant,p.Ser198Cys,ENST00000367070,;C4BPA,downstream_gene_variant,,ENST00000421786,;	G	ENSG00000123838	ENST00000367070	Transcript	missense_variant	787	593	198	S/C	tCt/tGt	.	.	.	1	C4BPA	HGNC	1325	protein_coding	YES	CCDS1477.1	ENSP00000356037	C4BPA_HUMAN	Q5VVQ8_HUMAN,A6PVY5_HUMAN	UPI0000126C28	.	deleterious(0.01)	probably_damaging(0.994)	6/12	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF341,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTTCTGTCA	.	4	BLCA
CR2	0	.	GRCh37	1	207646467	207646467	+	Nonsense_Mutation	SNP	C	C	T	rs755692271	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1921C>T	p.Gln641Ter	p.Q641*	ENST00000367057	10/20	134	108	26	118	118	0	CR2,stop_gained,p.Gln614Ter,ENST00000458541,;CR2,stop_gained,p.Gln641Ter,ENST00000367057,;CR2,stop_gained,p.Gln641Ter,ENST00000367058,;CR2,stop_gained,p.Gln641Ter,ENST00000367059,;CR2,downstream_gene_variant,,ENST00000485707,;CR2,downstream_gene_variant,,ENST00000475194,;	T	ENSG00000117322	ENST00000367057	Transcript	stop_gained	2110	1921	641	Q/*	Cag/Tag	rs755692271,COSM678875	.	.	1	CR2	HGNC	2336	protein_coding	YES	CCDS31007.1	ENSP00000356024	CR2_HUMAN	.	UPI0000366600	.	.	.	10/20	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF330,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTAGTCAGATT	byFrequency	3	BLCA
PLXNA2	0	.	GRCh37	1	208207863	208207863	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4839C>G	p.Ile1613Met	p.I1613M	ENST00000367033	27/32	60	52	7	49	49	0	PLXNA2,missense_variant,p.Ile1613Met,ENST00000367033,;PLXNA2,upstream_gene_variant,,ENST00000483048,;PLXNA2,downstream_gene_variant,,ENST00000463510,;PLXNA2,upstream_gene_variant,,ENST00000480053,;	C	ENSG00000076356	ENST00000367033	Transcript	missense_variant	5597	4839	1613	I/M	atC/atG	.	.	.	-1	PLXNA2	HGNC	9100	protein_coding	YES	CCDS31013.1	ENSP00000356000	PLXA2_HUMAN	.	UPI000022B239	.	tolerated(0.16)	benign(0.023)	27/32	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22625:SF37,hmmpanther:PTHR22625,Pfam_domain:PF08337	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGGAGATGCT	.	4	BLCA
HP1BP3	0	.	GRCh37	1	21106326	21106326	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>A	p.Glu59Lys	p.E59K	ENST00000312239	3/13	78	64	13	71	71	0	HP1BP3,missense_variant,p.Glu59Lys,ENST00000375000,;HP1BP3,missense_variant,p.Glu21Lys,ENST00000424732,;HP1BP3,missense_variant,p.Glu59Lys,ENST00000414993,;HP1BP3,missense_variant,p.Glu59Lys,ENST00000312239,;HP1BP3,missense_variant,p.Glu59Lys,ENST00000438032,;HP1BP3,missense_variant,p.Glu59Lys,ENST00000417710,;HP1BP3,missense_variant,p.Glu21Lys,ENST00000419490,;HP1BP3,missense_variant,p.Glu21Lys,ENST00000437575,;HP1BP3,downstream_gene_variant,,ENST00000443615,;HP1BP3,upstream_gene_variant,,ENST00000419948,;HP1BP3,upstream_gene_variant,,ENST00000375003,;HP1BP3,non_coding_transcript_exon_variant,,ENST00000487117,;	T	ENSG00000127483	ENST00000312239	Transcript	missense_variant	315	175	59	E/K	Gaa/Aaa	.	.	.	-1	HP1BP3	HGNC	24973	protein_coding	YES	CCDS30621.1	ENSP00000312625	HP1B3_HUMAN	Q5SWC8_HUMAN,B4E0N8_HUMAN,B0QZK9_HUMAN,B0QZK8_HUMAN,B0QZK6_HUMAN,B0QZK5_HUMAN	UPI0000036038	.	tolerated_low_confidence(0.13)	benign(0.01)	3/13	.	hmmpanther:PTHR15832:SF1,hmmpanther:PTHR15832	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTTCAGCAA	.	4	BLCA
EIF4G3	0	.	GRCh37	1	21329288	21329288	+	5'UTR	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-53C>A	.	.	ENST00000602326	5/35	125	104	21	106	106	0	EIF4G3,5_prime_UTR_variant,,ENST00000374935,;EIF4G3,5_prime_UTR_variant,,ENST00000411888,;EIF4G3,5_prime_UTR_variant,,ENST00000374927,;EIF4G3,5_prime_UTR_variant,,ENST00000356916,;EIF4G3,5_prime_UTR_variant,,ENST00000400422,;EIF4G3,5_prime_UTR_variant,,ENST00000374937,;EIF4G3,5_prime_UTR_variant,,ENST00000602326,;EIF4G3,5_prime_UTR_variant,,ENST00000438975,;EIF4G3,5_prime_UTR_variant,,ENST00000264211,;RPS15AP6,downstream_gene_variant,,ENST00000420703,;	T	ENSG00000075151	ENST00000602326	Transcript	5_prime_UTR_variant	532	.	.	.	.	.	.	.	-1	EIF4G3	HGNC	3298	protein_coding	YES	CCDS55580.1	ENSP00000473510	IF4G3_HUMAN	Q59GJ0_HUMAN,F5H564_HUMAN	UPI0001639589	.	.	.	5/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCAGAGGGA	.	2	BLCA
PROX1	0	.	GRCh37	1	214169998	214169998	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120G>A	p.%3D	p.T40T	ENST00000366958	2/5	80	65	14	61	61	0	PROX1,synonymous_variant,p.%3D,ENST00000498508,;PROX1,synonymous_variant,p.%3D,ENST00000366958,;PROX1,synonymous_variant,p.%3D,ENST00000607425,;PROX1,synonymous_variant,p.%3D,ENST00000471129,;PROX1,synonymous_variant,p.%3D,ENST00000261454,;PROX1,synonymous_variant,p.%3D,ENST00000435016,;	A	ENSG00000117707	ENST00000366958	Transcript	synonymous_variant	728	120	40	T	acG/acA	.	.	.	1	PROX1	HGNC	9459	protein_coding	YES	CCDS31021.1	ENSP00000355925	PROX1_HUMAN	U3KPY6_HUMAN,C9JU29_HUMAN,B4DP41_HUMAN	UPI0000071D14	.	.	.	2/5	.	hmmpanther:PTHR12198:SF2,hmmpanther:PTHR12198	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAACGTTTTT	.	5	BLCA
CENPF	0	.	GRCh37	1	214816665	214816665	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4984G>C	p.Asp1662His	p.D1662H	ENST00000366955	12/20	93	76	17	71	71	0	CENPF,missense_variant,p.Asp1662His,ENST00000366955,;	C	ENSG00000117724	ENST00000366955	Transcript	missense_variant	5152	4984	1662	D/H	Gat/Cat	.	.	.	1	CENPF	HGNC	1857	protein_coding	YES	CCDS31023.1	ENSP00000355922	CENPF_HUMAN	.	UPI00001AE985	.	.	probably_damaging(0.999)	12/20	.	hmmpanther:PTHR18874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGATGTA	.	5	BLCA
CENPF	0	.	GRCh37	1	214832305	214832305	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9075G>A	p.%3D	p.L3025L	ENST00000366955	19/20	121	99	21	70	70	0	CENPF,synonymous_variant,p.%3D,ENST00000366955,;CENPF,downstream_gene_variant,,ENST00000467765,;CENPF,downstream_gene_variant,,ENST00000469862,;	A	ENSG00000117724	ENST00000366955	Transcript	synonymous_variant	9243	9075	3025	L	ctG/ctA	.	.	.	1	CENPF	HGNC	1857	protein_coding	YES	CCDS31023.1	ENSP00000355922	CENPF_HUMAN	.	UPI00001AE985	.	.	.	19/20	.	hmmpanther:PTHR18874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTGAGTCT	.	5	BLCA
ECE1	0	.	GRCh37	1	21605738	21605738	+	Silent	SNP	G	G	A	rs772546036	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226C>T	p.%3D	p.L76L	ENST00000374893	3/19	116	97	19	117	117	0	ECE1,synonymous_variant,p.%3D,ENST00000264205,;ECE1,synonymous_variant,p.%3D,ENST00000436918,;ECE1,synonymous_variant,p.%3D,ENST00000357071,;ECE1,synonymous_variant,p.%3D,ENST00000374893,;ECE1,synonymous_variant,p.%3D,ENST00000527991,;ECE1,synonymous_variant,p.%3D,ENST00000415912,;ECE1,synonymous_variant,p.%3D,ENST00000481130,;ECE1,5_prime_UTR_variant,,ENST00000473505,;ECE1,non_coding_transcript_exon_variant,,ENST00000463334,;ECE1,non_coding_transcript_exon_variant,,ENST00000526194,;	A	ENSG00000117298	ENST00000374893	Transcript	synonymous_variant	301	226	76	L	Ctg/Ttg	rs772546036	.	.	-1	ECE1	HGNC	3146	protein_coding	YES	CCDS215.1	ENSP00000364028	ECE1_HUMAN	E9PN99_HUMAN,E9PJG1_HUMAN	UPI0000129B5E	.	.	.	3/19	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11733:SF104,hmmpanther:PTHR11733	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCAGAAGTA	byFrequency	5	BLCA
USH2A	0	.	GRCh37	1	216462647	216462647	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1946G>C	p.Arg649Thr	p.R649T	ENST00000307340	11/72	99	78	20	87	87	0	USH2A,missense_variant,p.Arg649Thr,ENST00000366942,;USH2A,missense_variant,p.Arg649Thr,ENST00000366943,;USH2A,missense_variant,p.Arg649Thr,ENST00000307340,;	G	ENSG00000042781	ENST00000307340	Transcript	missense_variant	2333	1946	649	R/T	aGa/aCa	.	.	.	-1	USH2A	HGNC	12601	protein_coding	YES	CCDS31025.1	ENSP00000305941	USH2A_HUMAN	.	UPI000034E5B6	.	.	benign(0.055)	11/72	.	Superfamily_domains:SSF57196,SMART_domains:SM00180,Pfam_domain:PF00053,Gene3D:2.10.25.10,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF170,PROSITE_profiles:PS50027	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTAGTG	.	5	BLCA
BPNT1	0	.	GRCh37	1	220232104	220232104	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*82G>C	.	.	ENST00000469520	10/10	50	41	9	48	48	0	BPNT1,3_prime_UTR_variant,,ENST00000544404,;BPNT1,3_prime_UTR_variant,,ENST00000469520,;BPNT1,3_prime_UTR_variant,,ENST00000322067,;BPNT1,3_prime_UTR_variant,,ENST00000414869,;BPNT1,intron_variant,,ENST00000354807,;BPNT1,downstream_gene_variant,,ENST00000480959,;BPNT1,downstream_gene_variant,,ENST00000463953,;BPNT1,downstream_gene_variant,,ENST00000498791,;BPNT1,downstream_gene_variant,,ENST00000482136,;	G	ENSG00000162813	ENST00000469520	Transcript	3_prime_UTR_variant	1459	.	.	.	.	.	.	.	-1	BPNT1	HGNC	1096	protein_coding	YES	CCDS41469.1	ENSP00000446828	BPNT1_HUMAN	F8VVW8_HUMAN,F8VRY7_HUMAN,B4DPS5_HUMAN	UPI000007212C	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGCTCAAGTG	.	3	BLCA
LDLRAD2	0	.	GRCh37	1	22148630	22148630	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.806-65C>T	.	.	ENST00000344642	.	33	29	4	26	26	0	LDLRAD2,intron_variant,,ENST00000344642,;LDLRAD2,intron_variant,,ENST00000543870,;HSPG2,downstream_gene_variant,,ENST00000374695,;LDLRAD2,non_coding_transcript_exon_variant,,ENST00000484271,;HSPG2,downstream_gene_variant,,ENST00000486901,;HSPG2,downstream_gene_variant,,ENST00000481644,;	T	ENSG00000187942	ENST00000344642	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	LDLRAD2	HGNC	32071	protein_coding	YES	CCDS30624.1	ENSP00000340988	LRAD2_HUMAN	.	UPI0000470177	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGCTGA	.	4	BLCA
LDLRAD2	0	.	GRCh37	1	22148698	22148698	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.809C>G	p.Ser270Cys	p.S270C	ENST00000344642	5/5	67	62	5	38	38	0	LDLRAD2,missense_variant,p.Ser270Cys,ENST00000344642,;LDLRAD2,missense_variant,p.Ser270Cys,ENST00000543870,;HSPG2,downstream_gene_variant,,ENST00000374695,;LDLRAD2,non_coding_transcript_exon_variant,,ENST00000484271,;HSPG2,downstream_gene_variant,,ENST00000486901,;HSPG2,downstream_gene_variant,,ENST00000481644,;	G	ENSG00000187942	ENST00000344642	Transcript	missense_variant	996	809	270	S/C	tCc/tGc	.	.	.	1	LDLRAD2	HGNC	32071	protein_coding	YES	CCDS30624.1	ENSP00000340988	LRAD2_HUMAN	.	UPI0000470177	.	deleterious_low_confidence(0.04)	benign(0.062)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGGCTCCACTG	.	3	BLCA
HSPG2	0	.	GRCh37	1	22222419	22222419	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240G>C	p.Gln80His	p.Q80H	ENST00000374695	3/97	30	26	3	27	27	0	HSPG2,missense_variant,p.Gln59His,ENST00000412328,;HSPG2,missense_variant,p.Gln46His,ENST00000439717,;HSPG2,missense_variant,p.Gln80His,ENST00000374695,;	G	ENSG00000142798	ENST00000374695	Transcript	missense_variant	320	240	80	Q/H	caG/caC	COSM532828	.	.	-1	HSPG2	HGNC	5273	protein_coding	YES	CCDS30625.1	ENSP00000363827	PGBM_HUMAN	B6EU51_HUMAN	UPI0000212778	.	.	benign(0.057)	3/97	.	PROSITE_profiles:PS50024,SMART_domains:SM00200	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCCATCTGGAA	.	3	BLCA
BROX	0	.	GRCh37	1	222902118	222902118	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.704C>G	p.Ser235Cys	p.S235C	ENST00000340934	9/13	65	54	10	63	63	0	BROX,missense_variant,p.Ser235Cys,ENST00000537020,;BROX,missense_variant,p.Ser235Cys,ENST00000340934,;BROX,missense_variant,p.Ser203Cys,ENST00000539697,;BROX,downstream_gene_variant,,ENST00000426638,;BROX,downstream_gene_variant,,ENST00000473962,;BROX,downstream_gene_variant,,ENST00000489191,;	G	ENSG00000162819	ENST00000340934	Transcript	missense_variant	1110	704	235	S/C	tCt/tGt	.	.	.	1	BROX	HGNC	26512	protein_coding	YES	CCDS1534.1	ENSP00000343742	BROX_HUMAN	Q5VW33_HUMAN	UPI000013E1D1	.	tolerated(0.1)	benign(0.003)	9/13	.	PROSITE_profiles:PS51180,hmmpanther:PTHR23032,Gene3D:2xs1A01,Pfam_domain:PF03097,SMART_domains:SM01041	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTCTGCCA	.	5	BLCA
TMEM63A	0	.	GRCh37	1	226049941	226049941	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1062C>G	p.Phe354Leu	p.F354L	ENST00000366835	13/25	57	53	4	33	33	0	TMEM63A,missense_variant,p.Phe354Leu,ENST00000366835,;TMEM63A,missense_variant,p.Phe28Leu,ENST00000537914,;TMEM63A,non_coding_transcript_exon_variant,,ENST00000474478,;TMEM63A,downstream_gene_variant,,ENST00000483779,;TMEM63A,upstream_gene_variant,,ENST00000487971,;	C	ENSG00000196187	ENST00000366835	Transcript	missense_variant	1333	1062	354	F/L	ttC/ttG	.	.	.	-1	TMEM63A	HGNC	29118	protein_coding	YES	CCDS31042.1	ENSP00000355800	TM63A_HUMAN	Q2HIZ8_HUMAN	UPI000006DE50	.	tolerated(0.17)	benign(0.252)	13/25	.	hmmpanther:PTHR13018,hmmpanther:PTHR13018:SF24,Pfam_domain:PF02714,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTGGAAGGT	.	2	BLCA
PARP1	0	.	GRCh37	1	226576408	226576408	+	Missense_Mutation	SNP	C	C	G	rs780770803	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666G>C	p.Lys222Asn	p.K222N	ENST00000366794	5/23	138	122	16	133	133	0	PARP1,missense_variant,p.Lys222Asn,ENST00000366794,;PARP1,downstream_gene_variant,,ENST00000366792,;PARP1,downstream_gene_variant,,ENST00000366791,;PARP1,non_coding_transcript_exon_variant,,ENST00000469663,;	G	ENSG00000143799	ENST00000366794	Transcript	missense_variant	810	666	222	K/N	aaG/aaC	rs780770803	.	.	-1	PARP1	HGNC	270	protein_coding	YES	CCDS1554.1	ENSP00000355759	PARP1_HUMAN	Q96P95_HUMAN	UPI000013D92D	.	tolerated(0.07)	possibly_damaging(0.536)	5/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15447:SF13,hmmpanther:PTHR15447,PIRSF_domain:PIRSF000489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GATTTCTTCTT	.	3	BLCA
PARP1	0	.	GRCh37	1	226576425	226576425	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649G>C	p.Asp217His	p.D217H	ENST00000366794	5/23	158	142	16	150	150	0	PARP1,missense_variant,p.Asp217His,ENST00000366794,;PARP1,downstream_gene_variant,,ENST00000366792,;PARP1,downstream_gene_variant,,ENST00000366791,;PARP1,non_coding_transcript_exon_variant,,ENST00000469663,;	G	ENSG00000143799	ENST00000366794	Transcript	missense_variant	793	649	217	D/H	Gat/Cat	.	.	.	-1	PARP1	HGNC	270	protein_coding	YES	CCDS1554.1	ENSP00000355759	PARP1_HUMAN	Q96P95_HUMAN	UPI000013D92D	.	deleterious(0.05)	benign(0.149)	5/23	.	hmmpanther:PTHR15447:SF13,hmmpanther:PTHR15447,PIRSF_domain:PIRSF000489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCATCCACTC	.	3	BLCA
PARP1	0	.	GRCh37	1	226595596	226595596	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.35A>G	p.Glu12Gly	p.E12G	ENST00000366794	1/23	38	33	5	26	26	0	PARP1,missense_variant,p.Glu12Gly,ENST00000366792,;PARP1,missense_variant,p.Glu12Gly,ENST00000366790,;PARP1,missense_variant,p.Glu12Gly,ENST00000366794,;PARP1,missense_variant,p.Glu12Gly,ENST00000366791,;RP11-118H4.3,downstream_gene_variant,,ENST00000604335,;	C	ENSG00000143799	ENST00000366794	Transcript	missense_variant	179	35	12	E/G	gAg/gGg	.	.	.	-1	PARP1	HGNC	270	protein_coding	YES	CCDS1554.1	ENSP00000355759	PARP1_HUMAN	Q96P95_HUMAN	UPI000013D92D	.	deleterious(0)	probably_damaging(0.949)	1/23	.	PROSITE_profiles:PS50064,hmmpanther:PTHR15447:SF13,hmmpanther:PTHR15447,Pfam_domain:PF00645,Gene3D:1v9xA00,PIRSF_domain:PIRSF000489,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTACTCGACT	.	2	BLCA
ZBTB40	0	.	GRCh37	1	22816672	22816672	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231G>A	p.Met77Ile	p.M77I	ENST00000404138	3/19	91	75	16	63	63	0	ZBTB40,missense_variant,p.Met77Ile,ENST00000404138,;ZBTB40,missense_variant,p.Met77Ile,ENST00000375647,;ZBTB40,missense_variant,p.Met77Ile,ENST00000374651,;ZBTB40,missense_variant,p.Met77Ile,ENST00000400239,;	A	ENSG00000184677	ENST00000404138	Transcript	missense_variant	742	231	77	M/I	atG/atA	.	.	.	1	ZBTB40	HGNC	29045	protein_coding	YES	CCDS224.1	ENSP00000384527	ZBT40_HUMAN	B1AKC8_HUMAN	UPI0000204652	.	tolerated(0.1)	benign(0.14)	3/19	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24394:SF0,hmmpanther:PTHR24394,Pfam_domain:PF00651,Gene3D:3.30.710.10,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATGATGTA	.	5	BLCA
GUK1	0	.	GRCh37	1	228336365	228336365	+	Splice_Site	SNP	G	G	A	rs778563697	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.539-1G>A	.	p.X180_splice	ENST00000366728	.	68	62	5	48	48	0	GUK1,splice_acceptor_variant,,ENST00000453943,;GUK1,splice_acceptor_variant,,ENST00000435153,;GUK1,splice_acceptor_variant,,ENST00000391865,;GUK1,splice_acceptor_variant,,ENST00000366722,;GUK1,splice_acceptor_variant,,ENST00000366726,;GUK1,splice_acceptor_variant,,ENST00000366718,;GUK1,splice_acceptor_variant,,ENST00000366716,;GUK1,splice_acceptor_variant,,ENST00000366728,;GUK1,splice_acceptor_variant,,ENST00000312726,;GUK1,splice_acceptor_variant,,ENST00000366721,;GUK1,splice_acceptor_variant,,ENST00000366730,;GUK1,splice_acceptor_variant,,ENST00000366723,;GUK1,downstream_gene_variant,,ENST00000412265,;GJC2,upstream_gene_variant,,ENST00000366714,;GUK1,splice_acceptor_variant,,ENST00000464858,;GUK1,splice_acceptor_variant,,ENST00000493138,;GUK1,splice_acceptor_variant,,ENST00000480056,;GUK1,splice_acceptor_variant,,ENST00000485838,;GUK1,splice_acceptor_variant,,ENST00000486668,;GUK1,splice_acceptor_variant,,ENST00000477206,;GUK1,splice_acceptor_variant,,ENST00000492871,;GUK1,splice_acceptor_variant,,ENST00000470040,;GUK1,splice_acceptor_variant,,ENST00000471270,;GUK1,non_coding_transcript_exon_variant,,ENST00000465025,;GUK1,non_coding_transcript_exon_variant,,ENST00000498115,;GUK1,intron_variant,,ENST00000470155,;GUK1,downstream_gene_variant,,ENST00000498092,;GUK1,downstream_gene_variant,,ENST00000491613,;GUK1,downstream_gene_variant,,ENST00000485859,;GUK1,downstream_gene_variant,,ENST00000472939,;GUK1,downstream_gene_variant,,ENST00000460224,;GUK1,downstream_gene_variant,,ENST00000478725,;GUK1,downstream_gene_variant,,ENST00000485168,;GUK1,downstream_gene_variant,,ENST00000462807,;GUK1,downstream_gene_variant,,ENST00000481341,;GUK1,downstream_gene_variant,,ENST00000485083,;GUK1,downstream_gene_variant,,ENST00000485733,;GUK1,downstream_gene_variant,,ENST00000493209,;GUK1,downstream_gene_variant,,ENST00000484953,;GUK1,downstream_gene_variant,,ENST00000495999,;	A	ENSG00000143774	ENST00000366728	Transcript	splice_acceptor_variant	.	.	.	.	.	rs778563697	.	.	1	GUK1	HGNC	4693	protein_coding	YES	CCDS55689.1	ENSP00000355689	KGUA_HUMAN	.	UPI000046FFA0	.	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCAGGAAAT	byFrequency	2	BLCA
ABCB10	0	.	GRCh37	1	229666156	229666156	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1436-1G>C	.	p.X479_splice	ENST00000344517	.	106	91	15	90	90	0	ABCB10,splice_acceptor_variant,,ENST00000344517,;RNU4-21P,downstream_gene_variant,,ENST00000362802,;ABCB10,splice_acceptor_variant,,ENST00000486755,;	G	ENSG00000135776	ENST00000344517	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	ABCB10	HGNC	41	protein_coding	YES	CCDS1580.1	ENSP00000355637	ABCBA_HUMAN	Q6ZMF8_HUMAN	UPI000013CFBF	.	.	.	.	7/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCTCTGAAA	.	4	BLCA
GNPAT	0	.	GRCh37	1	231413373	231413373	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*85G>C	.	.	ENST00000366647	16/16	33	26	7	28	28	0	GNPAT,3_prime_UTR_variant,,ENST00000366647,;GNPAT,downstream_gene_variant,,ENST00000366646,;GNPAT,downstream_gene_variant,,ENST00000416000,;RNA5SP80,downstream_gene_variant,,ENST00000410475,;GNPAT,downstream_gene_variant,,ENST00000469332,;	C	ENSG00000116906	ENST00000366647	Transcript	3_prime_UTR_variant	2297	.	.	.	.	.	.	.	1	GNPAT	HGNC	4416	protein_coding	YES	CCDS1592.1	ENSP00000355607	GNPAT_HUMAN	Q71V38_HUMAN	UPI0000000A2A	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAGACA	.	5	BLCA
MLK4	0	.	GRCh37	1	233497931	233497931	+	Missense_Mutation	SNP	C	C	G	rs760636152	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1444C>G	p.Leu482Val	p.L482V	ENST00000366624	5/10	89	75	14	69	69	0	MLK4,missense_variant,p.Leu482Val,ENST00000366623,;MLK4,missense_variant,p.Leu482Val,ENST00000366624,;	G	ENSG00000143674	ENST00000366624	Transcript	missense_variant	1705	1444	482	L/V	Ctg/Gtg	rs760636152	.	.	1	MLK4	Uniprot_gn	.	protein_coding	YES	CCDS1598.1	ENSP00000355583	M3KL4_HUMAN	.	UPI000013D922	.	deleterious(0)	possibly_damaging(0.694)	5/10	.	PIRSF_domain:PIRSF000556,hmmpanther:PTHR23257:SF418,hmmpanther:PTHR23257,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATTCTGATA	.	4	BLCA
PANK4	0	.	GRCh37	1	2442190	2442190	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1865C>T	p.Ala622Val	p.A622V	ENST00000378466	16/19	107	93	14	88	88	0	PANK4,missense_variant,p.Ala583Val,ENST00000435556,;PANK4,missense_variant,p.Ala622Val,ENST00000378466,;PANK4,splice_region_variant,,ENST00000502512,;PANK4,splice_region_variant,,ENST00000505228,;PANK4,non_coding_transcript_exon_variant,,ENST00000471361,;PANK4,downstream_gene_variant,,ENST00000468002,;PANK4,downstream_gene_variant,,ENST00000487804,;PANK4,downstream_gene_variant,,ENST00000515423,;	A	ENSG00000157881	ENST00000378466	Transcript	missense_variant	1878	1865	622	A/V	gCa/gTa	.	.	.	-1	PANK4	HGNC	19366	protein_coding	YES	CCDS42.1	ENSP00000367727	PANK4_HUMAN	.	UPI000000DA54	.	tolerated(1)	benign(0.004)	16/19	.	hmmpanther:PTHR12280,Pfam_domain:PF01937,PIRSF_domain:PIRSF036939,Superfamily_domains:SSF111321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATCTGCGAAA	.	4	BLCA
AHCTF1	0	.	GRCh37	1	247013863	247013863	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5472G>C	p.Lys1824Asn	p.K1824N	ENST00000326225	33/36	56	48	8	41	41	0	AHCTF1,missense_variant,p.Lys1815Asn,ENST00000391829,;AHCTF1,missense_variant,p.Lys1850Asn,ENST00000366508,;AHCTF1,missense_variant,p.Lys1824Asn,ENST00000326225,;AHCTF1,non_coding_transcript_exon_variant,,ENST00000470300,;AHCTF1,non_coding_transcript_exon_variant,,ENST00000483900,;AHCTF1,upstream_gene_variant,,ENST00000498601,;	G	ENSG00000153207	ENST00000326225	Transcript	missense_variant	5569	5472	1824	K/N	aaG/aaC	.	.	.	-1	AHCTF1	HGNC	24618	protein_coding	YES	CCDS1629.2	ENSP00000355465	ELYS_HUMAN	C9J5C5_HUMAN	UPI0000204034	.	deleterious(0.04)	possibly_damaging(0.603)	33/36	.	hmmpanther:PTHR21583	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TCTTTCTTTCT	.	2	BLCA
AHCTF1	0	.	GRCh37	1	247061536	247061536	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624G>C	p.Asp542His	p.D542H	ENST00000326225	12/36	103	85	18	91	91	0	AHCTF1,missense_variant,p.Asp533His,ENST00000391829,;AHCTF1,missense_variant,p.Asp568His,ENST00000366508,;AHCTF1,missense_variant,p.Asp542His,ENST00000326225,;AHCTF1,non_coding_transcript_exon_variant,,ENST00000470300,;	G	ENSG00000153207	ENST00000326225	Transcript	missense_variant	1721	1624	542	D/H	Gat/Cat	.	.	.	-1	AHCTF1	HGNC	24618	protein_coding	YES	CCDS1629.2	ENSP00000355465	ELYS_HUMAN	C9J5C5_HUMAN	UPI0000204034	.	deleterious(0)	probably_damaging(0.991)	12/36	.	hmmpanther:PTHR21583	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCAACAA	.	5	BLCA
CNKSR1	0	.	GRCh37	1	26516075	26516075	+	3'UTR	SNP	G	G	C	rs181741272	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*36G>C	.	.	ENST00000361530	21/21	77	64	13	79	78	0	CNKSR1,3_prime_UTR_variant,,ENST00000531191,;CNKSR1,3_prime_UTR_variant,,ENST00000361530,;CNKSR1,3_prime_UTR_variant,,ENST00000374253,;CATSPER4,upstream_gene_variant,,ENST00000338855,;CATSPER4,upstream_gene_variant,,ENST00000456354,;CNKSR1,3_prime_UTR_variant,,ENST00000482227,;CATSPER4,upstream_gene_variant,,ENST00000518899,;CNKSR1,downstream_gene_variant,,ENST00000480617,;CNKSR1,downstream_gene_variant,,ENST00000484874,;CNKSR1,downstream_gene_variant,,ENST00000525687,;CNKSR1,downstream_gene_variant,,ENST00000528281,;	C	ENSG00000142675	ENST00000361530	Transcript	3_prime_UTR_variant	2323	.	.	.	.	rs181741272	.	.	1	CNKSR1	HGNC	19700	protein_coding	YES	CCDS276.1	ENSP00000354609	CNKR1_HUMAN	Q53GM7_HUMAN,G3V160_HUMAN	UPI0000366501	.	.	.	21/21	.	.	A:0.0006	A:0	A:0.0014	.	A:0	A:0.001	A:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCCGAGGGC	byFrequency|byCluster|by1000G	5	BLCA
ATPIF1	0	.	GRCh37	1	28562644	28562644	+	5'UTR	SNP	C	C	G	rs747486253	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-51C>G	.	.	ENST00000335514	1/3	22	19	3	24	24	0	ATPIF1,5_prime_UTR_variant,,ENST00000497986,;ATPIF1,5_prime_UTR_variant,,ENST00000335514,;ATPIF1,upstream_gene_variant,,ENST00000468425,;DNAJC8,upstream_gene_variant,,ENST00000263697,;ATPIF1,upstream_gene_variant,,ENST00000465645,;RP5-1092A3.4,downstream_gene_variant,,ENST00000604716,;DNAJC8,upstream_gene_variant,,ENST00000489277,;DNAJC8,upstream_gene_variant,,ENST00000488868,;DNAJC8,upstream_gene_variant,,ENST00000482674,;	G	ENSG00000130770	ENST00000335514	Transcript	5_prime_UTR_variant	1	.	.	.	.	rs747486253	.	.	1	ATPIF1	HGNC	871	protein_coding	YES	CCDS319.1	ENSP00000335203	ATIF1_HUMAN	.	UPI000012D0D2	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTAACGAGAG	.	2	BLCA
NKAIN1	0	.	GRCh37	1	31655374	31655374	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.532+3G>C	.	.	ENST00000373736	.	88	77	11	83	82	1	NKAIN1,splice_region_variant,,ENST00000398657,;NKAIN1,splice_region_variant,,ENST00000526106,;NKAIN1,splice_region_variant,,ENST00000373736,;NKAIN1,splice_region_variant,,ENST00000263693,;NKAIN1,downstream_gene_variant,,ENST00000530145,;NKAIN1,upstream_gene_variant,,ENST00000528449,;NKAIN1,downstream_gene_variant,,ENST00000533581,;	G	ENSG00000084628	ENST00000373736	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	NKAIN1	HGNC	25743	protein_coding	YES	CCDS339.2	ENSP00000362841	NKAI1_HUMAN	R4GNE2_HUMAN	UPI000004A116	.	.	.	.	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TTACTCACAGC	.	3	BLCA
SERINC2	0	.	GRCh37	1	31906004	31906004	+	Missense_Mutation	SNP	G	G	A	rs377048384	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1231G>A	p.Val411Ile	p.V411I	ENST00000373710	10/11	73	61	12	73	73	0	SERINC2,missense_variant,p.Val406Ile,ENST00000536384,;SERINC2,missense_variant,p.Val411Ile,ENST00000373710,;SERINC2,missense_variant,p.Val406Ile,ENST00000536859,;SERINC2,missense_variant,p.Val402Ile,ENST00000373709,;AC114494.1,upstream_gene_variant,,ENST00000596131,;SERINC2,non_coding_transcript_exon_variant,,ENST00000491976,;	A	ENSG00000168528	ENST00000373710	Transcript	missense_variant	1504	1231	411	V/I	Gtc/Atc	rs377048384,COSM680063	.	.	1	SERINC2	HGNC	23231	protein_coding	YES	CCDS55583.1	ENSP00000362814	SERC2_HUMAN	.	UPI000059CF90	.	tolerated(1)	benign(0.003)	10/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10383:SF22,hmmpanther:PTHR10383,Pfam_domain:PF03348	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACGTCATG	byFrequency|byCluster	5	BLCA
COL16A1	0	.	GRCh37	1	32154562	32154562	+	Missense_Mutation	SNP	C	C	T	rs565116526	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1667G>A	p.Cys556Tyr	p.C556Y	ENST00000373672	25/71	53	46	7	45	45	0	COL16A1,missense_variant,p.Cys556Tyr,ENST00000373672,;COL16A1,missense_variant,p.Cys275Tyr,ENST00000373667,;COL16A1,missense_variant,p.Cys556Tyr,ENST00000373668,;COL16A1,missense_variant,p.Cys556Tyr,ENST00000271069,;COL16A1,non_coding_transcript_exon_variant,,ENST00000482478,;COL16A1,non_coding_transcript_exon_variant,,ENST00000529928,;COL16A1,non_coding_transcript_exon_variant,,ENST00000474000,;	T	ENSG00000084636	ENST00000373672	Transcript	missense_variant	2184	1667	556	C/Y	tGc/tAc	rs565116526	.	.	-1	COL16A1	HGNC	2193	protein_coding	YES	CCDS41297.1	ENSP00000362776	COGA1_HUMAN	.	UPI0000203DD1	.	.	unknown(0)	25/71	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF372	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAAGCAGGGC	byCluster|by1000G	4	BLCA
GJB3	0	.	GRCh37	1	35251033	35251033	+	Nonsense_Mutation	SNP	C	C	T	rs139005182	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.670C>T	p.Arg224Ter	p.R224*	ENST00000373366	2/2	32	27	5	31	31	0	GJB3,stop_gained,p.Arg224Ter,ENST00000373366,;GJB3,stop_gained,p.Arg224Ter,ENST00000373362,;RP1-34M23.5,intron_variant,,ENST00000542839,;SMIM12,intron_variant,,ENST00000426886,;	T	ENSG00000188910	ENST00000373366	Transcript	stop_gained	1285	670	224	R/*	Cga/Tga	rs139005182	.	.	1	GJB3	HGNC	4285	protein_coding	YES	CCDS384.1	ENSP00000362464	CXB3_HUMAN	A1YRJ5_HUMAN	UPI00001287EC	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11984:SF29,hmmpanther:PTHR11984	G:0.0004	G:0.0008	G:0.0014	.	G:0	G:0	G:0	G:0.0007	G:0	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGAGGG	byFrequency|byCluster|by1000G	5	BLCA
ZMYM6	0	.	GRCh37	1	35485132	35485132	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250C>T	p.Pro84Ser	p.P84S	ENST00000357182	4/16	76	66	10	61	61	0	ZMYM6,missense_variant,p.Pro84Ser,ENST00000357182,;ZMYM6,missense_variant,p.Pro84Ser,ENST00000415531,;ZMYM6,missense_variant,p.Pro84Ser,ENST00000373333,;ZMYM6,missense_variant,p.Pro84Ser,ENST00000317538,;ZMYM6,missense_variant,p.Pro84Ser,ENST00000373340,;ZMYM6,non_coding_transcript_exon_variant,,ENST00000460607,;ZMYM6,intron_variant,,ENST00000493328,;RP11-244H3.4,missense_variant,p.Pro84Ser,ENST00000487874,;	A	ENSG00000163867	ENST00000357182	Transcript	missense_variant	478	250	84	P/S	Cca/Tca	.	.	.	-1	ZMYM6	HGNC	13050	protein_coding	YES	CCDS387.2	ENSP00000349708	ZMYM6_HUMAN	Q7L9K1_HUMAN,A4Z946_HUMAN	UPI000040EBC6	.	tolerated(0.35)	probably_damaging(0.99)	4/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11697:SF92,hmmpanther:PTHR11697,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTGGAACTG	.	4	BLCA
ZMYM4	0	.	GRCh37	1	35824634	35824634	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.194C>T	p.Ser65Leu	p.S65L	ENST00000314607	3/30	81	62	18	66	66	0	ZMYM4,missense_variant,p.Ser65Leu,ENST00000373297,;ZMYM4,missense_variant,p.Ser33Leu,ENST00000441447,;ZMYM4,missense_variant,p.Ser65Leu,ENST00000314607,;ZMYM4,upstream_gene_variant,,ENST00000457946,;ZMYM4-AS1,non_coding_transcript_exon_variant,,ENST00000432683,;ZMYM4,upstream_gene_variant,,ENST00000482131,;	T	ENSG00000146463	ENST00000314607	Transcript	missense_variant	274	194	65	S/L	tCa/tTa	.	.	.	1	ZMYM4	HGNC	13055	protein_coding	YES	CCDS389.1	ENSP00000322915	ZMYM4_HUMAN	.	UPI0000203EE6	.	tolerated_low_confidence(0.19)	benign(0.01)	3/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTCATTGC	.	5	BLCA
OSCP1	0	.	GRCh37	1	36915856	36915856	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112+3G>A	.	.	ENST00000235532	.	63	44	18	51	51	0	OSCP1,splice_region_variant,,ENST00000315643,;OSCP1,splice_region_variant,,ENST00000356637,;OSCP1,splice_region_variant,,ENST00000235532,;OSCP1,splice_region_variant,,ENST00000354267,;OSCP1,splice_region_variant,,ENST00000445843,;OSCP1,splice_region_variant,,ENST00000524789,;	T	ENSG00000116885	ENST00000235532	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	OSCP1	HGNC	29971	protein_coding	YES	CCDS409.2	ENSP00000235532	OSCP1_HUMAN	C9JF58_HUMAN	UPI000059CFA3	.	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCACCTT	.	4	BLCA
INPP5B	0	.	GRCh37	1	38332209	38332209	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2308C>G	p.Leu770Val	p.L770V	ENST00000373024	21/24	63	51	11	59	59	0	INPP5B,missense_variant,p.Leu850Val,ENST00000373026,;INPP5B,missense_variant,p.Leu606Val,ENST00000373027,;INPP5B,missense_variant,p.Leu850Val,ENST00000373023,;INPP5B,missense_variant,p.Leu770Val,ENST00000373024,;RP11-109P14.10,downstream_gene_variant,,ENST00000419993,;INPP5B,non_coding_transcript_exon_variant,,ENST00000470364,;INPP5B,upstream_gene_variant,,ENST00000487328,;INPP5B,downstream_gene_variant,,ENST00000474758,;	C	ENSG00000204084	ENST00000373024	Transcript	missense_variant	2396	2308	770	L/V	Ctg/Gtg	COSM1627043	.	.	-1	INPP5B	HGNC	6077	protein_coding	YES	CCDS41306.1	ENSP00000362115	I5P2_HUMAN	.	UPI0000458AD7	.	deleterious(0)	possibly_damaging(0.902)	21/24	.	PROSITE_profiles:PS50238,hmmpanther:PTHR11200:SF30,hmmpanther:PTHR11200,Gene3D:1.10.555.10,Pfam_domain:PF00620,SMART_domains:SM00324,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACAGATCTT	.	5	BLCA
MACF1	0	.	GRCh37	1	39919384	39919384	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14571C>T	p.%3D	p.F4857F	ENST00000545844	84/94	147	129	18	110	110	0	MACF1,synonymous_variant,p.%3D,ENST00000372925,;MACF1,synonymous_variant,p.%3D,ENST00000361689,;MACF1,synonymous_variant,p.%3D,ENST00000289893,;MACF1,synonymous_variant,p.%3D,ENST00000564288,;MACF1,synonymous_variant,p.%3D,ENST00000539005,;MACF1,synonymous_variant,p.%3D,ENST00000372915,;MACF1,synonymous_variant,p.%3D,ENST00000317713,;MACF1,synonymous_variant,p.%3D,ENST00000567887,;MACF1,synonymous_variant,p.%3D,ENST00000545844,;MACF1,upstream_gene_variant,,ENST00000360115,;MACF1,non_coding_transcript_exon_variant,,ENST00000487656,;MACF1,upstream_gene_variant,,ENST00000497964,;	T	ENSG00000127603	ENST00000545844	Transcript	synonymous_variant	14679	14571	4857	F	ttC/ttT	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	.	84/94	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Gene3D:1.20.58.60,Pfam_domain:PF00435	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATTCATGAA	.	4	BLCA
PABPC4	0	.	GRCh37	1	40034587	40034587	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763G>C	p.Glu255Gln	p.E255Q	ENST00000372858	6/16	161	137	24	148	148	0	PABPC4,missense_variant,p.Glu255Gln,ENST00000372858,;PABPC4,missense_variant,p.Glu255Gln,ENST00000372862,;PABPC4,missense_variant,p.Glu255Gln,ENST00000372857,;PABPC4,missense_variant,p.Glu168Gln,ENST00000474378,;PABPC4,missense_variant,p.Glu255Gln,ENST00000372856,;PABPC4,missense_variant,p.Glu157Gln,ENST00000421687,;PABPC4,downstream_gene_variant,,ENST00000451091,;PABPC4,upstream_gene_variant,,ENST00000437136,;PABPC4,upstream_gene_variant,,ENST00000527718,;SNORA55,upstream_gene_variant,,ENST00000364587,;RP11-69E11.8,intron_variant,,ENST00000415255,;PABPC4,non_coding_transcript_exon_variant,,ENST00000529216,;PABPC4,3_prime_UTR_variant,,ENST00000470443,;PABPC4,non_coding_transcript_exon_variant,,ENST00000525751,;PABPC4,upstream_gene_variant,,ENST00000468476,;PABPC4,downstream_gene_variant,,ENST00000492519,;PABPC4,upstream_gene_variant,,ENST00000492468,;PABPC4,upstream_gene_variant,,ENST00000525045,;PABPC4,upstream_gene_variant,,ENST00000461578,;PABPC4,upstream_gene_variant,,ENST00000513632,;PABPC4,upstream_gene_variant,,ENST00000484555,;PABPC4,upstream_gene_variant,,ENST00000483770,;PABPC4,upstream_gene_variant,,ENST00000525669,;PABPC4,upstream_gene_variant,,ENST00000477556,;	G	ENSG00000090621	ENST00000372858	Transcript	missense_variant	1213	763	255	E/Q	Gaa/Caa	.	.	.	-1	PABPC4	HGNC	8557	protein_coding	YES	CCDS44115.1	ENSP00000361949	PABP4_HUMAN	B1ANR1_HUMAN	UPI00002057C5	.	tolerated(0.13)	probably_damaging(0.964)	6/16	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011,hmmpanther:PTHR24011:SF265,Pfam_domain:PF00076,TIGRFAM_domain:TIGR01628,Gene3D:3.30.70.330,SMART_domains:SM00360,SMART_domains:SM00361,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTCTTTTC	.	4	BLCA
PABPC4	0	.	GRCh37	1	40041434	40041434	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190G>A	p.Asp64Asn	p.D64N	ENST00000372858	1/16	38	30	7	33	33	0	PABPC4,missense_variant,p.Asp64Asn,ENST00000372858,;PABPC4,missense_variant,p.Asp64Asn,ENST00000372857,;PABPC4,missense_variant,p.Asp64Asn,ENST00000372862,;PABPC4,missense_variant,p.Asp64Asn,ENST00000451091,;PABPC4,missense_variant,p.Asp64Asn,ENST00000372856,;PABPC4,downstream_gene_variant,,ENST00000531243,;PABPC4,upstream_gene_variant,,ENST00000474378,;PABPC4,upstream_gene_variant,,ENST00000421687,;RP11-69E11.8,downstream_gene_variant,,ENST00000415255,;PABPC4,upstream_gene_variant,,ENST00000529216,;PABPC4,missense_variant,p.Asp8Asn,ENST00000470443,;PABPC4,upstream_gene_variant,,ENST00000525751,;	T	ENSG00000090621	ENST00000372858	Transcript	missense_variant	640	190	64	D/N	Gac/Aac	.	.	.	-1	PABPC4	HGNC	8557	protein_coding	YES	CCDS44115.1	ENSP00000361949	PABP4_HUMAN	B1ANR1_HUMAN	UPI00002057C5	.	deleterious(0)	probably_damaging(0.984)	1/16	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011,hmmpanther:PTHR24011:SF265,Pfam_domain:PF00076,TIGRFAM_domain:TIGR01628,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACCGTCGGCCG	.	4	BLCA
ZMPSTE24	0	.	GRCh37	1	40723841	40723841	+	5'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-103C>T	.	.	ENST00000372759	1/10	49	40	9	29	29	0	ZMPSTE24,5_prime_UTR_variant,,ENST00000372759,;RP1-39G22.7,upstream_gene_variant,,ENST00000567508,;ZMPSTE24,upstream_gene_variant,,ENST00000479131,;ZMPSTE24,upstream_gene_variant,,ENST00000472583,;RP1-39G22.4,downstream_gene_variant,,ENST00000447743,;	T	ENSG00000084073	ENST00000372759	Transcript	5_prime_UTR_variant	63	.	.	.	.	.	.	.	1	ZMPSTE24	HGNC	12877	protein_coding	YES	CCDS449.1	ENSP00000361845	FACE1_HUMAN	B3KNM6_HUMAN	UPI000012A4C5	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGGAAA	.	5	BLCA
HIVEP3	0	.	GRCh37	1	42050020	42050020	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.449C>T	p.Ser150Phe	p.S150F	ENST00000372583	4/9	158	134	24	103	103	0	HIVEP3,missense_variant,p.Ser150Phe,ENST00000429157,;HIVEP3,missense_variant,p.Ser150Phe,ENST00000372584,;HIVEP3,missense_variant,p.Ser150Phe,ENST00000247584,;HIVEP3,missense_variant,p.Ser150Phe,ENST00000372583,;HIVEP3,upstream_gene_variant,,ENST00000460604,;	A	ENSG00000127124	ENST00000372583	Transcript	missense_variant	1335	449	150	S/F	tCc/tTc	.	.	.	-1	HIVEP3	HGNC	13561	protein_coding	YES	CCDS463.1	ENSP00000361664	ZEP3_HUMAN	.	UPI000013CC24	.	.	possibly_damaging(0.629)	4/9	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGATGGAAGCG	.	4	BLCA
PPIH	0	.	GRCh37	1	43132256	43132256	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463G>C	p.Glu155Gln	p.E155Q	ENST00000304979	8/10	95	86	9	75	75	0	PPIH,missense_variant,p.Glu112Gln,ENST00000455203,;PPIH,missense_variant,p.Glu129Gln,ENST00000440068,;PPIH,missense_variant,p.Glu155Gln,ENST00000304979,;PPIH,missense_variant,p.Glu112Gln,ENST00000372550,;PPIH,missense_variant,p.Glu74Gln,ENST00000461351,;	C	ENSG00000171960	ENST00000304979	Transcript	missense_variant	485	463	155	E/Q	Gag/Cag	.	.	.	1	PPIH	HGNC	14651	protein_coding	YES	CCDS469.1	ENSP00000306614	PPIH_HUMAN	Q6FH36_HUMAN,H0YEL5_HUMAN,C9JQD4_HUMAN	UPI0000026830	.	deleterious(0.03)	probably_damaging(0.981)	8/10	.	PROSITE_profiles:PS50072,hmmpanther:PTHR11071:SF58,hmmpanther:PTHR11071,Pfam_domain:PF00160,Gene3D:2.40.100.10,PIRSF_domain:PIRSF001467,Superfamily_domains:SSF50891	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGATTGAGGTA	.	4	BLCA
ERI3	0	.	GRCh37	1	44713660	44713660	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882G>C	p.Met294Ile	p.M294I	ENST00000372257	8/9	57	46	11	43	43	0	ERI3,missense_variant,p.Met179Ile,ENST00000372259,;ERI3,missense_variant,p.Met176Ile,ENST00000452396,;ERI3,missense_variant,p.Met117Ile,ENST00000537474,;ERI3,missense_variant,p.Met161Ile,ENST00000456170,;ERI3,missense_variant,p.Met294Ile,ENST00000372257,;ERI3-IT1,upstream_gene_variant,,ENST00000414156,;ERI3,non_coding_transcript_exon_variant,,ENST00000479101,;ERI3,non_coding_transcript_exon_variant,,ENST00000462341,;ERI3,upstream_gene_variant,,ENST00000489710,;	G	ENSG00000117419	ENST00000372257	Transcript	missense_variant	1064	882	294	M/I	atG/atC	.	.	.	-1	ERI3	HGNC	17276	protein_coding	YES	CCDS30696.1	ENSP00000361331	ERI3_HUMAN	B4DN03_HUMAN,B4DEX5_HUMAN	UPI00001C1D9B	.	deleterious(0.02)	possibly_damaging(0.648)	8/9	.	hmmpanther:PTHR23044:SF29,hmmpanther:PTHR23044,Pfam_domain:PF00929,Gene3D:3.30.420.10,SMART_domains:SM00479,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCATGTC	.	5	BLCA
RPS8	0	.	GRCh37	1	45241264	45241264	+	5'UTR	SNP	G	G	C	rs200295931	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-5G>C	.	.	ENST00000396651	1/6	194	156	38	183	183	0	RPS8,5_prime_UTR_variant,,ENST00000396651,;RPS8,5_prime_UTR_variant,,ENST00000372209,;SNORD55,upstream_gene_variant,,ENST00000581525,;SNORD38B,upstream_gene_variant,,ENST00000384690,;SNORD46,upstream_gene_variant,,ENST00000364043,;SNORD38A,upstream_gene_variant,,ENST00000365161,;RP11-269F19.2,non_coding_transcript_exon_variant,,ENST00000428791,;RPS8,non_coding_transcript_exon_variant,,ENST00000470475,;RPS8,intron_variant,,ENST00000497035,;RPS8,upstream_gene_variant,,ENST00000474582,;RPS8,upstream_gene_variant,,ENST00000464658,;RPS8,upstream_gene_variant,,ENST00000484599,;RPS8,upstream_gene_variant,,ENST00000485390,;RPS15AP11,downstream_gene_variant,,ENST00000594193,;RPS15AP11,downstream_gene_variant,,ENST00000455333,;	C	ENSG00000142937	ENST00000396651	Transcript	5_prime_UTR_variant	156	.	.	.	.	rs200295931	.	.	1	RPS8	HGNC	10441	protein_coding	YES	CCDS513.1	ENSP00000379888	RS8_HUMAN	Q9BS10_HUMAN,Q5JR94_HUMAN	UPI000015D557	.	.	.	1/6	.	.	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0006	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCCGAGCGA	byCluster|by1000G	5	BLCA
RAD54L	0	.	GRCh37	1	46724415	46724415	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>G	p.Gln90Glu	p.Q90E	ENST00000371975	4/18	86	80	6	98	98	0	RAD54L,missense_variant,p.Gln90Glu,ENST00000469835,;RAD54L,missense_variant,p.Gln90Glu,ENST00000442598,;RAD54L,missense_variant,p.Gln90Glu,ENST00000371975,;RAD54L,non_coding_transcript_exon_variant,,ENST00000493985,;RAD54L,non_coding_transcript_exon_variant,,ENST00000487700,;RAD54L,non_coding_transcript_exon_variant,,ENST00000493032,;RAD54L,non_coding_transcript_exon_variant,,ENST00000463715,;RAD54L,upstream_gene_variant,,ENST00000476687,;LRRC41,downstream_gene_variant,,ENST00000496156,;RAD54L,upstream_gene_variant,,ENST00000472889,;RAD54L,upstream_gene_variant,,ENST00000473251,;	G	ENSG00000085999	ENST00000371975	Transcript	missense_variant	942	268	90	Q/E	Caa/Gaa	.	.	.	1	RAD54L	HGNC	9826	protein_coding	YES	CCDS532.1	ENSP00000361043	RAD54_HUMAN	.	UPI0000378007	.	tolerated(1)	benign(0.014)	4/18	.	hmmpanther:PTHR10799:SF208,hmmpanther:PTHR10799,Pfam_domain:PF08658	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTATCAAGGT	.	2	BLCA
RAD54L	0	.	GRCh37	1	46726471	46726471	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550G>C	p.Glu184Gln	p.E184Q	ENST00000371975	7/18	53	40	13	54	54	0	RAD54L,missense_variant,p.Glu184Gln,ENST00000469835,;RAD54L,missense_variant,p.Glu184Gln,ENST00000442598,;RAD54L,missense_variant,p.Glu184Gln,ENST00000371975,;RAD54L,non_coding_transcript_exon_variant,,ENST00000493985,;RAD54L,non_coding_transcript_exon_variant,,ENST00000493032,;RAD54L,non_coding_transcript_exon_variant,,ENST00000472889,;RAD54L,intron_variant,,ENST00000487700,;RAD54L,intron_variant,,ENST00000463715,;RAD54L,upstream_gene_variant,,ENST00000476687,;LRRC41,downstream_gene_variant,,ENST00000496156,;RAD54L,upstream_gene_variant,,ENST00000473251,;	C	ENSG00000085999	ENST00000371975	Transcript	missense_variant	1224	550	184	E/Q	Gag/Cag	.	.	.	1	RAD54L	HGNC	9826	protein_coding	YES	CCDS532.1	ENSP00000361043	RAD54_HUMAN	.	UPI0000378007	.	deleterious(0.04)	possibly_damaging(0.619)	7/18	.	PROSITE_profiles:PS51192,hmmpanther:PTHR10799:SF208,hmmpanther:PTHR10799,Pfam_domain:PF00176,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATGAGATG	.	5	BLCA
LRRC41	0	.	GRCh37	1	46751426	46751426	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1103C>G	p.Ser368Cys	p.S368C	ENST00000343304	4/10	136	121	15	118	118	0	LRRC41,missense_variant,p.Ser368Cys,ENST00000343304,;LRRC41,non_coding_transcript_exon_variant,,ENST00000498402,;LRRC41,non_coding_transcript_exon_variant,,ENST00000472710,;LRRC41,upstream_gene_variant,,ENST00000496156,;	C	ENSG00000132128	ENST00000343304	Transcript	missense_variant	1389	1103	368	S/C	tCt/tGt	.	.	.	-1	LRRC41	HGNC	16917	protein_coding	YES	CCDS533.1	ENSP00000343298	LRC41_HUMAN	.	UPI0000225CC7	.	deleterious(0.03)	possibly_damaging(0.843)	4/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15354:SF1,hmmpanther:PTHR15354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAGGCA	.	4	BLCA
PDZK1IP1	0	.	GRCh37	1	47650692	47650692	+	Missense_Mutation	SNP	G	G	A	rs150391778	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.254C>T	p.Ser85Leu	p.S85L	ENST00000294338	3/4	104	97	7	85	85	0	PDZK1IP1,missense_variant,p.Ser85Leu,ENST00000294338,;PDZK1IP1,missense_variant,p.Ser85Leu,ENST00000371885,;LINC00853,downstream_gene_variant,,ENST00000429328,;PDZK1IP1,non_coding_transcript_exon_variant,,ENST00000491793,;PDZK1IP1,non_coding_transcript_exon_variant,,ENST00000489919,;	A	ENSG00000162366	ENST00000294338	Transcript	missense_variant	377	254	85	S/L	tCg/tTg	rs150391778,COSM3865717	.	.	-1	PDZK1IP1	HGNC	16887	protein_coding	YES	CCDS546.1	ENSP00000294338	PDZ1I_HUMAN	.	UPI000004EC8A	.	tolerated(0.11)	benign(0.014)	3/4	.	hmmpanther:PTHR15296:SF0,hmmpanther:PTHR15296	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.S85S|c.255G>A|3	MUTECT|MUSE	CCATCGAAGAG	byCluster	2	BLCA
ORC1	0	.	GRCh37	1	52854281	52854281	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216G>A	p.Glu406Lys	p.E406K	ENST00000371568	8/17	157	135	21	132	132	0	ORC1,missense_variant,p.Glu406Lys,ENST00000371566,;ORC1,missense_variant,p.Glu406Lys,ENST00000371568,;	T	ENSG00000085840	ENST00000371568	Transcript	missense_variant	1435	1216	406	E/K	Gaa/Aaa	.	.	.	-1	ORC1	HGNC	8487	protein_coding	YES	CCDS566.1	ENSP00000360623	ORC1_HUMAN	.	UPI000013D2FB	.	tolerated(0.07)	benign(0.014)	8/17	.	hmmpanther:PTHR10763:SF6,hmmpanther:PTHR10763	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTTGGT	.	4	BLCA
DMRTB1	0	.	GRCh37	1	53925175	53925175	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49C>T	p.His17Tyr	p.H17Y	ENST00000371445	1/4	63	51	12	43	43	0	DMRTB1,missense_variant,p.His17Tyr,ENST00000371445,;DMRTB1,upstream_gene_variant,,ENST00000463126,;	T	ENSG00000143006	ENST00000371445	Transcript	missense_variant	104	49	17	H/Y	Cat/Tat	.	.	.	1	DMRTB1	HGNC	13913	protein_coding	YES	CCDS581.1	ENSP00000360500	DMRTB_HUMAN	I6L9A0_HUMAN	UPI000006FF4C	.	deleterious(0)	probably_damaging(1)	1/4	.	PROSITE_profiles:PS50809,hmmpanther:PTHR12322,hmmpanther:PTHR12322:SF18,PROSITE_patterns:PS40000,Gene3D:1lpvA00,Pfam_domain:PF00751,SMART_domains:SM00301,Superfamily_domains:0040609	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAACCATGGC	.	4	BLCA
MRPL37	0	.	GRCh37	1	54683945	54683945	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23G>C	.	.	ENST00000360840	7/7	159	141	18	143	143	0	MRPL37,3_prime_UTR_variant,,ENST00000360840,;MRPL37,3_prime_UTR_variant,,ENST00000336230,;MRPL37,intron_variant,,ENST00000398219,;MRPL37,intron_variant,,ENST00000605337,;	C	ENSG00000116221	ENST00000360840	Transcript	3_prime_UTR_variant	1372	.	.	.	.	.	.	.	1	MRPL37	HGNC	14034	protein_coding	YES	CCDS589.1	ENSP00000354086	RM37_HUMAN	.	UPI000006CF76	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCCTGAAACC	.	4	BLCA
ACOT11	0	.	GRCh37	1	55051512	55051512	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.246G>C	p.Glu82Asp	p.E82D	ENST00000371316	3/17	47	42	5	45	45	0	ACOT11,missense_variant,p.Glu82Asp,ENST00000371316,;ACOT11,missense_variant,p.Glu82Asp,ENST00000343744,;ACOT11,non_coding_transcript_exon_variant,,ENST00000498228,;ACOT11,intron_variant,,ENST00000481208,;	C	ENSG00000162390	ENST00000371316	Transcript	missense_variant	328	246	82	E/D	gaG/gaC	.	.	.	1	ACOT11	HGNC	18156	protein_coding	YES	CCDS592.1	ENSP00000360366	ACO11_HUMAN	.	UPI0000136D55	.	deleterious(0.03)	possibly_damaging(0.869)	3/17	.	hmmpanther:PTHR11049,hmmpanther:PTHR11049:SF1,Pfam_domain:PF03061,Gene3D:3.10.129.10,Superfamily_domains:SSF54637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGGAGAGGCA	.	4	BLCA
CHD5	0	.	GRCh37	1	6208929	6208929	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1368C>T	p.%3D	p.L456L	ENST00000262450	9/42	65	59	6	53	53	0	CHD5,synonymous_variant,p.%3D,ENST00000262450,;CHD5,5_prime_UTR_variant,,ENST00000378021,;CHD5,synonymous_variant,p.%3D,ENST00000496404,;CHD5,upstream_gene_variant,,ENST00000462991,;	A	ENSG00000116254	ENST00000262450	Transcript	synonymous_variant	1468	1368	456	L	ctC/ctT	.	.	.	-1	CHD5	HGNC	16816	protein_coding	YES	CCDS57.1	ENSP00000262450	CHD5_HUMAN	.	UPI000006CD03	.	.	.	9/42	.	PROSITE_profiles:PS50016,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF583,PROSITE_patterns:PS01359,Gene3D:3.30.40.10,Pfam_domain:PF00628,SMART_domains:SM00249,Superfamily_domains:SSF54160	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGCAGAGCCA	.	3	BLCA
DOCK7	0	.	GRCh37	1	63021642	63021642	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2450C>A	p.Ser817Tyr	p.S817Y	ENST00000340370	21/49	122	109	13	103	103	0	DOCK7,missense_variant,p.Ser817Tyr,ENST00000251157,;DOCK7,missense_variant,p.Ser817Tyr,ENST00000340370,;DOCK7,upstream_gene_variant,,ENST00000454575,;	T	ENSG00000116641	ENST00000340370	Transcript	missense_variant	2468	2450	817	S/Y	tCt/tAt	.	.	.	-1	DOCK7	HGNC	19190	protein_coding	YES	CCDS30734.1	ENSP00000340742	DOCK7_HUMAN	.	UPI000044FEA9	.	deleterious(0)	possibly_damaging(0.69)	21/49	.	hmmpanther:PTHR23317:SF78,hmmpanther:PTHR23317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAAAGATGCT	.	4	BLCA
ITGB3BP	0	.	GRCh37	1	63974204	63974204	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.160G>A	p.Glu54Lys	p.E54K	ENST00000371092	3/10	63	54	9	60	60	0	ITGB3BP,missense_variant,p.Glu54Lys,ENST00000371092,;ITGB3BP,missense_variant,p.Glu15Lys,ENST00000271002,;ITGB3BP,missense_variant,p.Glu15Lys,ENST00000283568,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000465781,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000478138,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000460251,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000460394,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000462285,;ITGB3BP,intron_variant,,ENST00000489863,;ITGB3BP,missense_variant,p.Glu15Lys,ENST00000489099,;	T	ENSG00000142856	ENST00000371092	Transcript	missense_variant	221	160	54	E/K	Gaa/Aaa	.	.	.	-1	ITGB3BP	HGNC	6157	protein_coding	YES	CCDS55603.1	ENSP00000360133	CENPR_HUMAN	D3DQ59_HUMAN	UPI0000470389	.	tolerated(0.21)	benign(0.05)	3/10	.	hmmpanther:PTHR15581,hmmpanther:PTHR15581:SF0,PIRSF_domain:PIRSF011860	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTTCTA	.	5	BLCA
AK4	0	.	GRCh37	1	65656422	65656422	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>C	p.Glu59Gln	p.E59Q	ENST00000395334	3/6	82	74	8	67	67	0	AK4,missense_variant,p.Glu59Gln,ENST00000327299,;AK4,missense_variant,p.Glu59Gln,ENST00000395334,;AK4,missense_variant,p.Glu7Gln,ENST00000546702,;AK4,missense_variant,p.Glu59Gln,ENST00000545314,;AK4,non_coding_transcript_exon_variant,,ENST00000470888,;AK4,non_coding_transcript_exon_variant,,ENST00000479060,;AK4,non_coding_transcript_exon_variant,,ENST00000474968,;AK4,non_coding_transcript_exon_variant,,ENST00000497030,;	C	ENSG00000162433	ENST00000395334	Transcript	missense_variant	533	175	59	E/Q	Gag/Cag	.	.	.	1	AK4	HGNC	363	protein_coding	YES	CCDS629.1	ENSP00000378743	KAD4_HUMAN	D3DQ64_HUMAN	UPI000011E13C	.	tolerated(0.13)	benign(0.032)	3/6	.	Superfamily_domains:SSF52540,TIGRFAM_domain:TIGR01351,Pfam_domain:PF00406,Gene3D:3.40.50.300,hmmpanther:PTHR23359,hmmpanther:PTHR23359:SF58,HAMAP:MF_00235,HAMAP:MF_03169,HAMAP:MF_03170	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATATAGAGAAA	.	3	BLCA
PTGER3	0	.	GRCh37	1	71318412	71318412	+	3'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*110C>T	.	.	ENST00000460330	4/4	58	52	6	46	46	0	PTGER3,3_prime_UTR_variant,,ENST00000460330,;PTGER3,3_prime_UTR_variant,,ENST00000370932,;PTGER3,3_prime_UTR_variant,,ENST00000370931,;PTGER3,3_prime_UTR_variant,,ENST00000351052,;PTGER3,3_prime_UTR_variant,,ENST00000479353,;PTGER3,3_prime_UTR_variant,,ENST00000361210,;PTGER3,3_prime_UTR_variant,,ENST00000497146,;	A	ENSG00000050628	ENST00000460330	Transcript	3_prime_UTR_variant	1291	.	.	.	.	.	.	.	-1	PTGER3	HGNC	9595	protein_coding	.	CCDS652.1	ENSP00000418073	PE2R3_HUMAN	.	UPI0000001277	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGAAGAAGTA	.	3	BLCA
ELTD1	0	.	GRCh37	1	79392738	79392738	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.916G>A	p.Gly306Ser	p.G306S	ENST00000370742	8/15	126	109	16	77	77	0	ELTD1,missense_variant,p.Gly306Ser,ENST00000370742,;	T	ENSG00000162618	ENST00000370742	Transcript	missense_variant	980	916	306	G/S	Ggt/Agt	.	.	.	-1	ELTD1	HGNC	20822	protein_coding	YES	CCDS41352.1	ENSP00000359778	ELTD1_HUMAN	.	UPI00004561FF	.	tolerated(0.08)	probably_damaging(0.951)	8/15	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF59,Pfam_domain:PF12003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGACCAATAC	.	4	BLCA
FAM41C	0	.	GRCh37	1	809712	809712	+	5'Flank	SNP	G	G	A	rs772565985	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000432963	.	237	218	18	188	188	0	FAM41C,non_coding_transcript_exon_variant,,ENST00000446136,;FAM41C,intron_variant,,ENST00000427857,;FAM41C,upstream_gene_variant,,ENST00000432963,;TUBB8P11,non_coding_transcript_exon_variant,,ENST00000415481,;	A	ENSG00000230368	ENST00000432963	Transcript	upstream_gene_variant	.	.	.	.	.	rs772565985	.	4131	-1	FAM41C	HGNC	27635	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGCTGAGGAG	byCluster	3	BLCA
RP11-486G15.2	0	.	GRCh37	1	84543999	84543999	+	5'Flank	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000605506	.	24	21	3	16	16	0	PRKACB,5_prime_UTR_variant,,ENST00000370689,;PRKACB,5_prime_UTR_variant,,ENST00000370688,;RP11-486G15.2,upstream_gene_variant,,ENST00000605506,;	G	ENSG00000271576	ENST00000605506	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	385	-1	RP11-486G15.2	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCATCGCCCC	.	2	BLCA
CTBS	0	.	GRCh37	1	85036401	85036401	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180C>G	p.%3D	p.V60V	ENST00000370630	2/7	77	70	6	64	64	0	CTBS,synonymous_variant,p.%3D,ENST00000370630,;CTBS,splice_region_variant,,ENST00000477677,;SPATA1,downstream_gene_variant,,ENST00000460286,;CTBS,splice_region_variant,,ENST00000465118,;CTBS,splice_region_variant,,ENST00000370625,;SPATA1,downstream_gene_variant,,ENST00000263717,;	C	ENSG00000117151	ENST00000370630	Transcript	synonymous_variant	229	180	60	V	gtC/gtG	.	.	.	-1	CTBS	HGNC	2496	protein_coding	YES	CCDS698.1	ENSP00000359664	DIAC_HUMAN	.	UPI00001293CB	.	.	.	2/7	.	Superfamily_domains:SSF51445,SMART_domains:SM00636,hmmpanther:PTHR11177:SF150,hmmpanther:PTHR11177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACAAAGACCTG	.	3	BLCA
COL24A1	0	.	GRCh37	1	86591140	86591140	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879C>G	p.Ile293Met	p.I293M	ENST00000370571	3/60	143	123	20	129	129	0	COL24A1,missense_variant,p.Ile293Met,ENST00000436319,;COL24A1,missense_variant,p.Ile293Met,ENST00000370571,;COL24A1,downstream_gene_variant,,ENST00000496682,;COL24A1,missense_variant,p.Ile293Met,ENST00000426639,;	C	ENSG00000171502	ENST00000370571	Transcript	missense_variant	1246	879	293	I/M	atC/atG	COSM912747,COSM682856	.	.	-1	COL24A1	HGNC	20821	protein_coding	YES	CCDS41353.1	ENSP00000359603	COOA1_HUMAN	E9PNK8_HUMAN	UPI000013E81F	.	tolerated(0.24)	benign(0.004)	3/60	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF360	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTATGATATT	.	4	BLCA
CLCA2	0	.	GRCh37	1	86896592	86896592	+	Missense_Mutation	SNP	G	G	C	rs752394361	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.523G>C	p.Asp175His	p.D175H	ENST00000370565	4/14	169	149	20	134	134	0	CLCA2,missense_variant,p.Asp175His,ENST00000370565,;	C	ENSG00000137975	ENST00000370565	Transcript	missense_variant	685	523	175	D/H	Gat/Cat	rs752394361	.	.	1	CLCA2	HGNC	2016	protein_coding	YES	CCDS708.1	ENSP00000359596	CLCA2_HUMAN	.	UPI0000035838	.	deleterious(0)	probably_damaging(1)	4/14	.	hmmpanther:PTHR10579:SF39,hmmpanther:PTHR10579,Pfam_domain:PF08434,TIGRFAM_domain:TIGR00868	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTTCGATGAG	byFrequency	4	BLCA
GBP5	0	.	GRCh37	1	89729419	89729419	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1362G>A	p.%3D	p.Q454Q	ENST00000343435	9/12	136	117	19	112	112	0	GBP5,synonymous_variant,p.%3D,ENST00000443807,;GBP5,synonymous_variant,p.%3D,ENST00000343435,;GBP5,synonymous_variant,p.%3D,ENST00000370459,;RP4-620F22.2,intron_variant,,ENST00000437128,;GBP5,intron_variant,,ENST00000490568,;GBP5,upstream_gene_variant,,ENST00000471171,;GBP5,non_coding_transcript_exon_variant,,ENST00000481145,;	T	ENSG00000154451	ENST00000343435	Transcript	synonymous_variant	1899	1362	454	Q	caG/caA	.	.	.	-1	GBP5	HGNC	19895	protein_coding	YES	CCDS722.1	ENSP00000340396	GBP5_HUMAN	E7ETN8_HUMAN	UPI000004B6D7	.	.	.	9/12	.	hmmpanther:PTHR10751:SF40,hmmpanther:PTHR10751,Pfam_domain:PF02841,Gene3D:1f5nA01,Superfamily_domains:0037397	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATACCTGTAT	.	4	BLCA
LRRC8C	0	.	GRCh37	1	90179927	90179927	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1798G>C	p.Asp600His	p.D600H	ENST00000370454	3/3	78	64	13	79	79	0	LRRC8C,missense_variant,p.Asp600His,ENST00000370454,;LRRC8C,intron_variant,,ENST00000479252,;RP11-302M6.4,intron_variant,,ENST00000370453,;	C	ENSG00000171488	ENST00000370454	Transcript	missense_variant	2053	1798	600	D/H	Gac/Cac	.	.	.	1	LRRC8C	HGNC	25075	protein_coding	YES	CCDS725.1	ENSP00000359483	LRC8C_HUMAN	.	UPI000013E814	.	deleterious(0.03)	possibly_damaging(0.905)	3/3	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23155,hmmpanther:PTHR23155:SF415,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTGACCTG	.	5	BLCA
CCDC18	0	.	GRCh37	1	93646200	93646200	+	5'Flank	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000370276	.	44	31	12	36	36	0	CCDC18,missense_variant,p.Pro38Leu,ENST00000557479,;CCDC18,5_prime_UTR_variant,,ENST00000334652,;TMED5,5_prime_UTR_variant,,ENST00000370282,;CCDC18,5_prime_UTR_variant,,ENST00000401026,;CCDC18,5_prime_UTR_variant,,ENST00000338949,;CCDC18,intron_variant,,ENST00000343253,;TMED5,upstream_gene_variant,,ENST00000370280,;TMED5,upstream_gene_variant,,ENST00000479918,;CCDC18,upstream_gene_variant,,ENST00000370276,;CCDC18,upstream_gene_variant,,ENST00000448243,;CCDC18,intron_variant,,ENST00000528942,;CCDC18,upstream_gene_variant,,ENST00000481180,;TMED5,upstream_gene_variant,,ENST00000370290,;CCDC18,upstream_gene_variant,,ENST00000479653,;	T	ENSG00000122483	ENST00000370276	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	81	1	CCDC18	HGNC	30370	protein_coding	YES	.	ENSP00000359299	.	.	UPI0001F78148	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCCGCGCC	.	4	BLCA
SIRPD	0	.	GRCh37	20	1517862	1517862	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>C	p.Glu172Asp	p.E172D	ENST00000381623	3/4	65	49	16	80	80	0	SIRPD,missense_variant,p.Glu55Asp,ENST00000429387,;SIRPD,missense_variant,p.Glu173Asp,ENST00000381621,;SIRPD,missense_variant,p.Glu172Asp,ENST00000381623,;RP4-576H24.4,downstream_gene_variant,,ENST00000566961,;RP4-576H24.2,intron_variant,,ENST00000453770,;	G	ENSG00000125900	ENST00000381623	Transcript	missense_variant	1706	516	172	E/D	gaG/gaC	.	.	.	-1	SIRPD	HGNC	16248	protein_coding	YES	CCDS13018.1	ENSP00000371036	SIRPD_HUMAN	.	UPI000013CBD7	.	deleterious_low_confidence(0.05)	benign(0.024)	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTCAGG	.	5	BLCA
SIRPB1	0	.	GRCh37	20	1552587	1552587	+	Missense_Mutation	SNP	C	C	T	rs200471530	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530G>A	p.Arg177Lys	p.R177K	ENST00000381605	3/6	140	114	26	93	93	0	SIRPB1,missense_variant,p.Arg177Lys,ENST00000381605,;RP4-576H24.4,intron_variant,,ENST00000564763,;RP4-576H24.4,intron_variant,,ENST00000566961,;RP4-576H24.4,intron_variant,,ENST00000567028,;SIRPB1,intron_variant,,ENST00000262929,;SIRPB1,intron_variant,,ENST00000563840,;SIRPB1,intron_variant,,ENST00000381603,;SIRPB1,intron_variant,,ENST00000569629,;SIRPB1,upstream_gene_variant,,ENST00000565076,;	T	ENSG00000101307	ENST00000381605	Transcript	missense_variant	595	530	177	R/K	aGa/aAa	rs200471530	.	.	-1	SIRPB1	HGNC	15928	protein_coding	YES	CCDS13019.1	ENSP00000371018	SIRB1_HUMAN	.	UPI000036700F	.	tolerated(0.19)	benign(0.007)	3/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00407,Pfam_domain:PF07654,Gene3D:2.60.40.10,hmmpanther:PTHR19971:SF6,hmmpanther:PTHR19971,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCTGGGA	byFrequency|byCluster	5	BLCA
PCSK2	0	.	GRCh37	20	17434510	17434510	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>A	p.Asp337Asn	p.D337N	ENST00000262545	9/12	85	76	9	61	61	0	PCSK2,missense_variant,p.Asp337Asn,ENST00000262545,;PCSK2,missense_variant,p.Asp318Asn,ENST00000377899,;PCSK2,missense_variant,p.Asp302Asn,ENST00000536609,;	A	ENSG00000125851	ENST00000262545	Transcript	missense_variant	1324	1009	337	D/N	Gac/Aac	.	.	.	1	PCSK2	HGNC	8744	protein_coding	YES	CCDS13125.1	ENSP00000262545	NEC2_HUMAN	Q9UM69_HUMAN	UPI0000000C6E	.	tolerated(0.68)	probably_damaging(1)	9/12	.	hmmpanther:PTHR10795,hmmpanther:PTHR10795:SF11,Pfam_domain:PF00082,Gene3D:3.40.50.200,Superfamily_domains:SSF52743	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.N336N|c.1008C>T|3	RADIA|MUTECT|MUSE|VARSCANS	TCAACGACGGC	.	4	BLCA
RRBP1	0	.	GRCh37	20	17639291	17639291	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.572A>T	p.Gln191Leu	p.Q191L	ENST00000377807	4/26	127	105	22	112	112	0	RRBP1,missense_variant,p.Gln621Leu,ENST00000246043,;RRBP1,missense_variant,p.Gln191Leu,ENST00000360807,;RRBP1,missense_variant,p.Gln621Leu,ENST00000377813,;RRBP1,missense_variant,p.Gln191Leu,ENST00000377807,;RRBP1,intron_variant,,ENST00000455029,;RRBP1,downstream_gene_variant,,ENST00000398782,;RRBP1,missense_variant,p.Gln96Leu,ENST00000495501,;	A	ENSG00000125844	ENST00000377807	Transcript	missense_variant	926	572	191	Q/L	cAa/cTa	.	.	.	-1	RRBP1	HGNC	10448	protein_coding	YES	CCDS13128.1	ENSP00000367038	RRBP1_HUMAN	F8W7S5_HUMAN	UPI000002B2C0	.	tolerated(0.14)	benign(0.145)	4/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18939:SF4,hmmpanther:PTHR18939	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTTGCTTT	.	5	BLCA
PDYN	0	.	GRCh37	20	1961415	1961415	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319G>C	p.Glu107Gln	p.E107Q	ENST00000217305	4/4	115	94	20	89	89	0	PDYN,missense_variant,p.Glu107Gln,ENST00000540134,;PDYN,missense_variant,p.Glu107Gln,ENST00000539905,;PDYN,missense_variant,p.Glu107Gln,ENST00000217305,;RP4-684O24.5,intron_variant,,ENST00000446562,;	G	ENSG00000101327	ENST00000217305	Transcript	missense_variant	545	319	107	E/Q	Gag/Cag	.	.	.	-1	PDYN	HGNC	8820	protein_coding	YES	CCDS13023.1	ENSP00000217305	PDYN_HUMAN	Q2YEM6_HUMAN,Q2YEL0_HUMAN,B4DIB7_HUMAN	UPI000012FE6A	.	tolerated(0.08)	possibly_damaging(0.719)	4/4	.	hmmpanther:PTHR11438,hmmpanther:PTHR11438:SF4,Prints_domain:PR01030	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCCAGCT	.	5	BLCA
CRNKL1	0	.	GRCh37	20	20031137	20031137	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664G>A	p.Asp222Asn	p.D222N	ENST00000377340	3/15	75	61	13	84	84	0	CRNKL1,missense_variant,p.Asp210Asn,ENST00000377327,;CRNKL1,missense_variant,p.Asp222Asn,ENST00000377340,;CRNKL1,missense_variant,p.Asp61Asn,ENST00000536226,;C20orf26,upstream_gene_variant,,ENST00000475466,;C20orf26,upstream_gene_variant,,ENST00000377306,;C20orf26,upstream_gene_variant,,ENST00000245957,;C20orf26,upstream_gene_variant,,ENST00000389656,;C20orf26,upstream_gene_variant,,ENST00000377309,;C20orf26,upstream_gene_variant,,ENST00000377303,;C20orf26,upstream_gene_variant,,ENST00000340348,;CRNKL1,3_prime_UTR_variant,,ENST00000490910,;CRNKL1,3_prime_UTR_variant,,ENST00000496549,;C20orf26,upstream_gene_variant,,ENST00000494029,;	T	ENSG00000101343	ENST00000377340	Transcript	missense_variant	696	664	222	D/N	Gat/Aat	.	.	.	-1	CRNKL1	HGNC	15762	protein_coding	YES	CCDS33446.1	ENSP00000366557	CRNL1_HUMAN	.	UPI00004A39A7	.	deleterious(0)	possibly_damaging(0.449)	3/15	.	SMART_domains:SM00386,hmmpanther:PTHR11246,hmmpanther:PTHR11246:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATCATTTA	.	5	BLCA
C20orf26	0	.	GRCh37	20	20055855	20055855	+	Missense_Mutation	SNP	G	G	C	rs767278773	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394G>C	p.Glu132Gln	p.E132Q	ENST00000245957	5/27	98	79	19	83	83	0	C20orf26,missense_variant,p.Glu132Gln,ENST00000451767,;C20orf26,missense_variant,p.Glu132Gln,ENST00000475466,;C20orf26,missense_variant,p.Glu132Gln,ENST00000377306,;C20orf26,missense_variant,p.Glu132Gln,ENST00000245957,;C20orf26,missense_variant,p.Glu86Gln,ENST00000340348,;C20orf26,missense_variant,p.Glu132Gln,ENST00000377303,;C20orf26,missense_variant,p.Glu28Gln,ENST00000472660,;C20orf26,5_prime_UTR_variant,,ENST00000389656,;C20orf26,5_prime_UTR_variant,,ENST00000377309,;C20orf26,downstream_gene_variant,,ENST00000494029,;	C	ENSG00000089101	ENST00000245957	Transcript	missense_variant	470	394	132	E/Q	Gag/Cag	rs767278773	.	.	1	C20orf26	HGNC	15872	protein_coding	YES	CCDS33447.1	ENSP00000245957	CT026_HUMAN	C9JMV0_HUMAN,C9JHE8_HUMAN,C9J610_HUMAN	UPI0000206AE4	.	deleterious(0.01)	possibly_damaging(0.742)	5/27	.	hmmpanther:PTHR21178:SF8,hmmpanther:PTHR21178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCAGAGCTG	.	5	BLCA
C20orf26	0	.	GRCh37	20	20056136	20056136	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>G	p.Ser148Ter	p.S148*	ENST00000245957	6/27	130	115	15	162	162	0	C20orf26,stop_gained,p.Ser148Ter,ENST00000451767,;C20orf26,stop_gained,p.Ser148Ter,ENST00000377306,;C20orf26,stop_gained,p.Ser148Ter,ENST00000245957,;C20orf26,stop_gained,p.Ser102Ter,ENST00000340348,;C20orf26,stop_gained,p.Ser148Ter,ENST00000377303,;C20orf26,stop_gained,p.Ser44Ter,ENST00000472660,;C20orf26,5_prime_UTR_variant,,ENST00000389656,;C20orf26,5_prime_UTR_variant,,ENST00000377309,;C20orf26,downstream_gene_variant,,ENST00000475466,;C20orf26,downstream_gene_variant,,ENST00000494029,;	G	ENSG00000089101	ENST00000245957	Transcript	stop_gained	519	443	148	S/*	tCa/tGa	.	.	.	1	C20orf26	HGNC	15872	protein_coding	YES	CCDS33447.1	ENSP00000245957	CT026_HUMAN	C9JMV0_HUMAN,C9JHE8_HUMAN,C9J610_HUMAN	UPI0000206AE4	.	.	.	6/27	.	hmmpanther:PTHR21178:SF8,hmmpanther:PTHR21178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCAACTC	.	4	BLCA
RALGAPA2	0	.	GRCh37	20	20505503	20505503	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3733G>C	p.Glu1245Gln	p.E1245Q	ENST00000202677	29/40	17	13	4	9	9	0	RALGAPA2,missense_variant,p.Glu1245Gln,ENST00000202677,;RALGAPA2,missense_variant,p.Glu1062Gln,ENST00000430436,;	G	ENSG00000188559	ENST00000202677	Transcript	missense_variant	3741	3733	1245	E/Q	Gag/Cag	.	.	.	-1	RALGAPA2	HGNC	16207	protein_coding	YES	CCDS46584.1	ENSP00000202677	RGPA2_HUMAN	.	UPI000040F987	.	deleterious(0.01)	possibly_damaging(0.54)	29/40	.	hmmpanther:PTHR10063,hmmpanther:PTHR10063:SF2,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTACTCTGCAC	.	4	BLCA
RP4-777D9.2	0	.	GRCh37	20	21142854	21142854	+	Intron	SNP	C	C	G	rs777197960	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.5142+583G>C	.	.	ENST00000591761	.	151	132	19	124	124	0	RP4-777D9.2,intron_variant,,ENST00000591761,;RP5-872K7.7,intron_variant,,ENST00000425746,;RP5-872K7.7,upstream_gene_variant,,ENST00000434043,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000428699,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000458446,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000445992,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000457464,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000424111,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000427692,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000432487,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000447448,;PLK1S1,non_coding_transcript_exon_variant,,ENST00000246027,;RPS15AP1,downstream_gene_variant,,ENST00000457423,;	G	ENSG00000232712	ENST00000591761	Transcript	intron_variant	.	.	.	.	.	rs777197960	.	.	-1	RP4-777D9.2	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	.	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACTCATTGC	.	4	BLCA
NKX2-2	0	.	GRCh37	20	21494205	21494205	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103G>C	p.Glu35Gln	p.E35Q	ENST00000377142	1/2	61	48	13	45	45	0	NKX2-2,missense_variant,p.Glu35Gln,ENST00000377142,;NKX2-2-AS1,downstream_gene_variant,,ENST00000549659,;	G	ENSG00000125820	ENST00000377142	Transcript	missense_variant	460	103	35	E/Q	Gag/Cag	.	.	.	-1	NKX2-2	HGNC	7835	protein_coding	YES	CCDS13145.1	ENSP00000366347	NKX22_HUMAN	.	UPI00001301E6	.	tolerated(0.36)	benign(0.024)	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24340,hmmpanther:PTHR24340:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCTTCCT	.	5	BLCA
ASXL1	0	.	GRCh37	20	31022853	31022853	+	Nonsense_Mutation	SNP	C	C	T	rs751021760	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2338C>T	p.Gln780Ter	p.Q780*	ENST00000375687	13/13	73	60	12	62	62	0	ASXL1,stop_gained,p.Gln780Ter,ENST00000375687,;ASXL1,stop_gained,p.Gln775Ter,ENST00000306058,;ASXL1,downstream_gene_variant,,ENST00000553345,;ASXL1,downstream_gene_variant,,ENST00000555564,;	T	ENSG00000171456	ENST00000375687	Transcript	stop_gained	2762	2338	780	Q/*	Cag/Tag	rs751021760,COSM1012910	.	.	1	ASXL1	HGNC	18318	protein_coding	YES	CCDS13201.1	ENSP00000364839	ASXL1_HUMAN	.	UPI000036702C	.	.	.	13/13	.	hmmpanther:PTHR13578,hmmpanther:PTHR13578:SF19	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCAGTTG	.	5	BLCA
ASXL1	0	.	GRCh37	20	31024778	31024778	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4263C>T	p.%3D	p.L1421L	ENST00000375687	13/13	151	129	22	140	140	0	ASXL1,synonymous_variant,p.%3D,ENST00000375687,;ASXL1,synonymous_variant,p.%3D,ENST00000306058,;ASXL1,downstream_gene_variant,,ENST00000553345,;ASXL1,downstream_gene_variant,,ENST00000555564,;	T	ENSG00000171456	ENST00000375687	Transcript	synonymous_variant	4687	4263	1421	L	ctC/ctT	.	.	.	1	ASXL1	HGNC	18318	protein_coding	YES	CCDS13201.1	ENSP00000364839	ASXL1_HUMAN	.	UPI000036702C	.	.	.	13/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13578,hmmpanther:PTHR13578:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTCAGTGA	.	4	BLCA
TRPC4AP	0	.	GRCh37	20	33596513	33596513	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1549C>T	p.Arg517Cys	p.R517C	ENST00000252015	13/19	128	114	13	108	108	0	TRPC4AP,missense_variant,p.Arg119Cys,ENST00000539834,;TRPC4AP,missense_variant,p.Arg509Cys,ENST00000451813,;TRPC4AP,missense_variant,p.Arg517Cys,ENST00000252015,;TRPC4AP,missense_variant,p.Arg478Cys,ENST00000432634,;	A	ENSG00000100991	ENST00000252015	Transcript	missense_variant	1639	1549	517	R/C	Cgt/Tgt	.	.	.	-1	TRPC4AP	HGNC	16181	protein_coding	YES	CCDS13246.1	ENSP00000252015	TP4AP_HUMAN	.	UPI000004FADD	.	deleterious(0)	probably_damaging(0.994)	13/19	.	hmmpanther:PTHR31743,hmmpanther:PTHR31743:SF1,Pfam_domain:PF12463,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGACGAGTTA	.	4	BLCA
CEP250	0	.	GRCh37	20	34055151	34055151	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622G>C	p.Glu208Gln	p.E208Q	ENST00000397527	9/35	108	90	18	106	106	0	CEP250,missense_variant,p.Glu208Gln,ENST00000425934,;CEP250,missense_variant,p.Glu208Gln,ENST00000397524,;CEP250,missense_variant,p.Glu208Gln,ENST00000342580,;CEP250,missense_variant,p.Glu208Gln,ENST00000397527,;CEP250,downstream_gene_variant,,ENST00000446710,;CEP250,downstream_gene_variant,,ENST00000420564,;CEP250,downstream_gene_variant,,ENST00000465987,;CEP250,missense_variant,p.Glu208Gln,ENST00000461386,;CEP250,upstream_gene_variant,,ENST00000474829,;	C	ENSG00000126001	ENST00000397527	Transcript	missense_variant	1342	622	208	E/Q	Gag/Cag	.	.	.	1	CEP250	HGNC	1859	protein_coding	YES	CCDS13255.1	ENSP00000380661	CP250_HUMAN	Q5JWS6_HUMAN,Q5JWS5_HUMAN,G1UI40_HUMAN	UPI000006FE8F	.	.	probably_damaging(0.999)	9/35	.	Pfam_domain:PF15035,hmmpanther:PTHR23159,hmmpanther:PTHR23159:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAGCAT	.	5	BLCA
CEP250	0	.	GRCh37	20	34091585	34091585	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5388G>A	p.%3D	p.L1796L	ENST00000397527	30/35	114	94	19	79	79	0	CEP250,synonymous_variant,p.%3D,ENST00000422671,;CEP250,synonymous_variant,p.%3D,ENST00000342580,;CEP250,synonymous_variant,p.%3D,ENST00000397527,;CEP250,downstream_gene_variant,,ENST00000425525,;	A	ENSG00000126001	ENST00000397527	Transcript	synonymous_variant	6108	5388	1796	L	ctG/ctA	.	.	.	1	CEP250	HGNC	1859	protein_coding	YES	CCDS13255.1	ENSP00000380661	CP250_HUMAN	Q5JWS6_HUMAN,Q5JWS5_HUMAN,G1UI40_HUMAN	UPI000006FE8F	.	.	.	30/35	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23159,hmmpanther:PTHR23159:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTGAAGGA	.	5	BLCA
PHF20	0	.	GRCh37	20	34505427	34505427	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1847C>T	p.Ser616Phe	p.S616F	ENST00000374012	13/18	39	26	13	31	31	0	PHF20,missense_variant,p.Ser13Phe,ENST00000420233,;PHF20,missense_variant,p.Ser616Phe,ENST00000374012,;PHF20,3_prime_UTR_variant,,ENST00000439301,;PHF20,downstream_gene_variant,,ENST00000339089,;PHF20,downstream_gene_variant,,ENST00000374000,;PHF20,downstream_gene_variant,,ENST00000481202,;	T	ENSG00000025293	ENST00000374012	Transcript	missense_variant	1976	1847	616	S/F	tCc/tTc	.	.	.	1	PHF20	HGNC	16098	protein_coding	YES	CCDS13268.1	ENSP00000363124	PHF20_HUMAN	Q5JXL1_HUMAN,Q5JWZ0_HUMAN,B3KUL4_HUMAN	UPI000006E61B	.	tolerated(0.06)	probably_damaging(0.999)	13/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15856:SF27,hmmpanther:PTHR15856	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGTCCTCTT	.	5	BLCA
NDRG3	0	.	GRCh37	20	35281994	35281994	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057G>C	p.Asp353His	p.D353H	ENST00000349004	16/16	52	43	9	44	44	0	NDRG3,missense_variant,p.Asp366His,ENST00000373803,;NDRG3,missense_variant,p.Asp258His,ENST00000373773,;NDRG3,missense_variant,p.Asp353His,ENST00000349004,;NDRG3,missense_variant,p.Asp341His,ENST00000359675,;NDRG3,missense_variant,p.Asp249His,ENST00000540765,;	G	ENSG00000101079	ENST00000349004	Transcript	missense_variant	1139	1057	353	D/H	Gat/Cat	.	.	.	-1	NDRG3	HGNC	14462	protein_coding	YES	CCDS13285.1	ENSP00000345292	NDRG3_HUMAN	.	UPI000012FEDF	.	deleterious(0.04)	benign(0.422)	16/16	.	hmmpanther:PTHR11034:SF20,hmmpanther:PTHR11034	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATCTGACT	.	5	BLCA
LBP	0	.	GRCh37	20	36997710	36997710	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1053C>T	p.%3D	p.F351F	ENST00000217407	10/15	147	126	20	108	108	0	LBP,synonymous_variant,p.%3D,ENST00000217407,;	T	ENSG00000129988	ENST00000217407	Transcript	synonymous_variant	1214	1053	351	F	ttC/ttT	.	.	.	1	LBP	HGNC	6517	protein_coding	YES	CCDS13304.1	ENSP00000217407	LBP_HUMAN	.	UPI000013C728	.	.	.	10/15	.	hmmpanther:PTHR10504,hmmpanther:PTHR10504:SF43,Pfam_domain:PF02886,Gene3D:1ewfA02,SMART_domains:SM00329,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L349P|c.1046T>C|3	RADIA|MUTECT|MUSE|VARSCANS	AACTTCAGCCC	.	4	BLCA
RALGAPB	0	.	GRCh37	20	37126021	37126021	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415C>T	p.Arg139Ter	p.R139*	ENST00000262879	4/30	155	128	26	107	107	0	RALGAPB,stop_gained,p.Arg139Ter,ENST00000397040,;RALGAPB,stop_gained,p.Arg139Ter,ENST00000397042,;RALGAPB,stop_gained,p.Arg139Ter,ENST00000262879,;RALGAPB,stop_gained,p.Arg139Ter,ENST00000537204,;RALGAPB,5_prime_UTR_variant,,ENST00000397038,;RALGAPB,upstream_gene_variant,,ENST00000438490,;RALGAPB,upstream_gene_variant,,ENST00000495949,;	T	ENSG00000170471	ENST00000262879	Transcript	stop_gained	699	415	139	R/*	Cga/Tga	COSM3840973	.	.	1	RALGAPB	HGNC	29221	protein_coding	YES	CCDS13305.1	ENSP00000262879	RLGPB_HUMAN	Q6MZJ2_HUMAN	UPI000000DBFD	.	.	.	4/30	.	hmmpanther:PTHR21344	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGATTCGACTA	.	4	BLCA
RALGAPB	0	.	GRCh37	20	37153584	37153584	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1783G>A	p.Asp595Asn	p.D595N	ENST00000262879	11/30	240	195	44	172	172	0	RALGAPB,missense_variant,p.Asp373Asn,ENST00000397038,;RALGAPB,missense_variant,p.Asp595Asn,ENST00000397040,;RALGAPB,missense_variant,p.Asp595Asn,ENST00000397042,;RALGAPB,missense_variant,p.Asp595Asn,ENST00000262879,;RALGAPB,missense_variant,p.Asp423Asn,ENST00000438490,;RALGAPB,downstream_gene_variant,,ENST00000537204,;RALGAPB,non_coding_transcript_exon_variant,,ENST00000461423,;	A	ENSG00000170471	ENST00000262879	Transcript	missense_variant	2067	1783	595	D/N	Gac/Aac	COSM723744	.	.	1	RALGAPB	HGNC	29221	protein_coding	YES	CCDS13305.1	ENSP00000262879	RLGPB_HUMAN	Q6MZJ2_HUMAN	UPI000000DBFD	.	deleterious(0)	probably_damaging(0.999)	11/30	.	hmmpanther:PTHR21344	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTGACAGG	.	4	BLCA
CENPB	0	.	GRCh37	20	3766876	3766876	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255C>G	p.Phe85Leu	p.F85L	ENST00000379751	1/1	100	84	16	88	88	0	CENPB,missense_variant,p.Phe85Leu,ENST00000379751,;CDC25B,upstream_gene_variant,,ENST00000379598,;CDC25B,upstream_gene_variant,,ENST00000344256,;SPEF1,upstream_gene_variant,,ENST00000379756,;SPEF1,upstream_gene_variant,,ENST00000471499,;SPEF1,upstream_gene_variant,,ENST00000463490,;	C	ENSG00000125817	ENST00000379751	Transcript	missense_variant	462	255	85	F/L	ttC/ttG	.	.	.	-1	CENPB	HGNC	1852	protein_coding	YES	CCDS13064.1	ENSP00000369075	CENPB_HUMAN	Q96EI4_HUMAN,Q71VN4_HUMAN,Q71VN3_HUMAN	UPI00001274F8	.	tolerated(0.2)	unknown(0)	1/1	.	Superfamily_domains:SSF46689,SMART_domains:SM00674,Pfam_domain:PF03221,Gene3D:1.10.10.60,hmmpanther:PTHR19303,hmmpanther:PTHR19303:SF194,PROSITE_profiles:PS51253	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGAACCA	.	5	BLCA
PREX1	0	.	GRCh37	20	47274676	47274676	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1972G>C	p.Glu658Gln	p.E658Q	ENST00000371941	17/40	314	277	36	301	301	0	PREX1,missense_variant,p.Glu658Gln,ENST00000396220,;PREX1,missense_variant,p.Glu658Gln,ENST00000371941,;PREX1,upstream_gene_variant,,ENST00000482556,;	G	ENSG00000124126	ENST00000371941	Transcript	missense_variant	1995	1972	658	E/Q	Gag/Cag	.	.	.	-1	PREX1	HGNC	32594	protein_coding	YES	CCDS13410.1	ENSP00000361009	PREX1_HUMAN	.	UPI000013D375	.	tolerated(0.19)	benign(0.244)	17/40	.	PROSITE_profiles:PS50106,hmmpanther:PTHR22829,hmmpanther:PTHR22829:SF6,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTCAGCCA	.	4	BLCA
ZNF217	0	.	GRCh37	20	52199198	52199198	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168C>G	p.%3D	p.V56V	ENST00000371471	2/6	109	88	20	102	102	0	ZNF217,synonymous_variant,p.%3D,ENST00000302342,;ZNF217,synonymous_variant,p.%3D,ENST00000431687,;ZNF217,synonymous_variant,p.%3D,ENST00000371471,;ZNF217,downstream_gene_variant,,ENST00000540425,;	C	ENSG00000171940	ENST00000371471	Transcript	synonymous_variant	594	168	56	V	gtC/gtG	.	.	.	-1	ZNF217	HGNC	13009	protein_coding	YES	CCDS13443.1	ENSP00000360526	ZN217_HUMAN	A2A326_HUMAN	UPI000013C323	.	.	.	2/6	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGACATT	.	5	BLCA
GNAS	0	.	GRCh37	20	57485890	57485890	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6G>C	.	.	ENST00000371100	13/13	58	52	6	37	37	0	GNAS,3_prime_UTR_variant,,ENST00000371085,;GNAS,3_prime_UTR_variant,,ENST00000313949,;GNAS,3_prime_UTR_variant,,ENST00000306090,;GNAS,3_prime_UTR_variant,,ENST00000371075,;GNAS,3_prime_UTR_variant,,ENST00000354359,;GNAS,3_prime_UTR_variant,,ENST00000371095,;GNAS,3_prime_UTR_variant,,ENST00000371102,;GNAS,3_prime_UTR_variant,,ENST00000265620,;GNAS,3_prime_UTR_variant,,ENST00000371100,;GNAS,downstream_gene_variant,,ENST00000603546,;GNAS,downstream_gene_variant,,ENST00000450130,;GNAS,downstream_gene_variant,,ENST00000604005,;GNAS,non_coding_transcript_exon_variant,,ENST00000477931,;GNAS,non_coding_transcript_exon_variant,,ENST00000464624,;GNAS,non_coding_transcript_exon_variant,,ENST00000480975,;GNAS,downstream_gene_variant,,ENST00000481039,;GNAS,downstream_gene_variant,,ENST00000482112,;GNAS,downstream_gene_variant,,ENST00000467321,;GNAS,downstream_gene_variant,,ENST00000469431,;GNAS,downstream_gene_variant,,ENST00000480232,;GNAS,downstream_gene_variant,,ENST00000472183,;GNAS,downstream_gene_variant,,ENST00000464788,;GNAS,downstream_gene_variant,,ENST00000488652,;GNAS,downstream_gene_variant,,ENST00000490374,;GNAS,downstream_gene_variant,,ENST00000493958,;GNAS,downstream_gene_variant,,ENST00000488546,;GNAS,downstream_gene_variant,,ENST00000470512,;GNAS,downstream_gene_variant,,ENST00000494081,;GNAS,downstream_gene_variant,,ENST00000492907,;GNAS,downstream_gene_variant,,ENST00000468895,;GNAS,downstream_gene_variant,,ENST00000467227,;GNAS,downstream_gene_variant,,ENST00000476935,;GNAS,non_coding_transcript_exon_variant,,ENST00000487862,;GNAS,non_coding_transcript_exon_variant,,ENST00000476196,;GNAS,non_coding_transcript_exon_variant,,ENST00000496934,;GNAS,downstream_gene_variant,,ENST00000479025,;GNAS,downstream_gene_variant,,ENST00000487981,;GNAS,downstream_gene_variant,,ENST00000475610,;	C	ENSG00000087460	ENST00000371100	Transcript	3_prime_UTR_variant	3672	.	.	.	.	.	.	.	1	GNAS	HGNC	4392	protein_coding	YES	CCDS46622.1	ENSP00000360141	GNAS1_HUMAN	S4R3W4_HUMAN,S4R3V9_HUMAN,S4R3F1_HUMAN,S4R3E3_HUMAN,S4R379_HUMAN,B0AZR9_HUMAN	UPI0000E444AE	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAGGGAACCC	.	4	BLCA
DIDO1	0	.	GRCh37	20	61526467	61526467	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2265G>C	p.%3D	p.V755V	ENST00000266070	9/16	346	292	53	281	281	0	DIDO1,synonymous_variant,p.%3D,ENST00000266070,;DIDO1,synonymous_variant,p.%3D,ENST00000395335,;DIDO1,synonymous_variant,p.%3D,ENST00000395340,;DIDO1,synonymous_variant,p.%3D,ENST00000395343,;	G	ENSG00000101191	ENST00000266070	Transcript	synonymous_variant	2591	2265	755	V	gtG/gtC	.	.	.	-1	DIDO1	HGNC	2680	protein_coding	YES	CCDS33506.1	ENSP00000266070	DIDO1_HUMAN	.	UPI0000206380	.	.	.	9/16	.	PROSITE_profiles:PS51321,hmmpanther:PTHR14914:SF7,hmmpanther:PTHR14914,Pfam_domain:PF07500,Gene3D:1enwA00,SMART_domains:SM00510,Superfamily_domains:0037100	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCTCACAAG	.	4	BLCA
DIDO1	0	.	GRCh37	20	61527713	61527713	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2086G>A	p.Glu696Lys	p.E696K	ENST00000266070	8/16	80	71	9	81	81	0	DIDO1,missense_variant,p.Glu696Lys,ENST00000266070,;DIDO1,missense_variant,p.Glu696Lys,ENST00000395335,;DIDO1,missense_variant,p.Glu696Lys,ENST00000395340,;DIDO1,missense_variant,p.Glu696Lys,ENST00000395343,;	T	ENSG00000101191	ENST00000266070	Transcript	missense_variant	2412	2086	696	E/K	Gaa/Aaa	.	.	.	-1	DIDO1	HGNC	2680	protein_coding	YES	CCDS33506.1	ENSP00000266070	DIDO1_HUMAN	.	UPI0000206380	.	.	probably_damaging(0.999)	8/16	.	PROSITE_profiles:PS51321,hmmpanther:PTHR14914:SF7,hmmpanther:PTHR14914,Pfam_domain:PF07500,Gene3D:1enwA00,SMART_domains:SM00510,Superfamily_domains:0037100	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTTCTGTCA	.	4	BLCA
LTN1	0	.	GRCh37	21	30331900	30331900	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2611G>C	p.Asp871His	p.D871H	ENST00000389194	13/30	187	152	34	120	120	0	LTN1,missense_variant,p.Asp825His,ENST00000361371,;LTN1,missense_variant,p.Asp871His,ENST00000389194,;LTN1,downstream_gene_variant,,ENST00000389195,;LTN1,non_coding_transcript_exon_variant,,ENST00000486427,;LTN1,non_coding_transcript_exon_variant,,ENST00000475344,;	G	ENSG00000198862	ENST00000389194	Transcript	missense_variant	2617	2611	871	D/H	Gat/Cat	COSM3799823	.	.	-1	LTN1	HGNC	13082	protein_coding	YES	CCDS33527.2	ENSP00000373846	LTN1_HUMAN	G1UI34_HUMAN	UPI000049DF6C	.	deleterious(0)	probably_damaging(0.936)	13/30	.	hmmpanther:PTHR12389	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCACAGA	.	5	BLCA
CCT8	0	.	GRCh37	21	30437349	30437349	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702C>T	p.%3D	p.V234V	ENST00000286788	7/15	131	115	15	101	101	0	CCT8,synonymous_variant,p.%3D,ENST00000286788,;CCT8,synonymous_variant,p.%3D,ENST00000542732,;CCT8,synonymous_variant,p.%3D,ENST00000540844,;CCT8,intron_variant,,ENST00000431234,;CCT8,upstream_gene_variant,,ENST00000432178,;AF129075.5,upstream_gene_variant,,ENST00000457162,;CCT8,non_coding_transcript_exon_variant,,ENST00000470450,;CCT8,upstream_gene_variant,,ENST00000480359,;CCT8,downstream_gene_variant,,ENST00000494296,;CCT8,downstream_gene_variant,,ENST00000481059,;CCT8,upstream_gene_variant,,ENST00000475205,;CCT8,upstream_gene_variant,,ENST00000496121,;CCT8,downstream_gene_variant,,ENST00000484403,;	A	ENSG00000156261	ENST00000286788	Transcript	synonymous_variant	909	702	234	V	gtC/gtT	.	.	.	-1	CCT8	HGNC	1623	protein_coding	YES	CCDS33528.1	ENSP00000286788	TCPQ_HUMAN	Q7Z759_HUMAN	UPI0000136B0D	.	.	.	7/15	.	Superfamily_domains:SSF52029,Gene3D:3.50.7.10,TIGRFAM_domain:TIGR02346,Pfam_domain:PF00118,hmmpanther:PTHR11353,hmmpanther:PTHR11353:SF60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTGACAGA	.	4	BLCA
CCT8	0	.	GRCh37	21	30437415	30437415	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.636C>G	p.Ile212Met	p.I212M	ENST00000286788	7/15	93	81	12	80	80	0	CCT8,missense_variant,p.Ile212Met,ENST00000286788,;CCT8,missense_variant,p.Ile193Met,ENST00000542732,;CCT8,missense_variant,p.Ile139Met,ENST00000540844,;CCT8,intron_variant,,ENST00000431234,;CCT8,upstream_gene_variant,,ENST00000432178,;AF129075.5,upstream_gene_variant,,ENST00000457162,;CCT8,non_coding_transcript_exon_variant,,ENST00000470450,;CCT8,non_coding_transcript_exon_variant,,ENST00000481059,;CCT8,upstream_gene_variant,,ENST00000480359,;CCT8,downstream_gene_variant,,ENST00000494296,;CCT8,non_coding_transcript_exon_variant,,ENST00000484403,;CCT8,upstream_gene_variant,,ENST00000475205,;CCT8,upstream_gene_variant,,ENST00000496121,;	C	ENSG00000156261	ENST00000286788	Transcript	missense_variant	843	636	212	I/M	atC/atG	.	.	.	-1	CCT8	HGNC	1623	protein_coding	YES	CCDS33528.1	ENSP00000286788	TCPQ_HUMAN	Q7Z759_HUMAN	UPI0000136B0D	.	deleterious(0.01)	possibly_damaging(0.595)	7/15	.	Superfamily_domains:SSF54849,TIGRFAM_domain:TIGR02346,Pfam_domain:PF00118,Gene3D:3.30.260.10,hmmpanther:PTHR11353,hmmpanther:PTHR11353:SF60,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTGATACC	.	4	BLCA
SCAF4	0	.	GRCh37	21	33044014	33044014	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3142G>C	p.Glu1048Gln	p.E1048Q	ENST00000286835	20/20	149	126	23	95	95	0	SCAF4,missense_variant,p.Glu1026Gln,ENST00000399804,;SCAF4,missense_variant,p.Glu1048Gln,ENST00000286835,;SCAF4,missense_variant,p.Glu1033Gln,ENST00000434667,;SOD1,downstream_gene_variant,,ENST00000270142,;SOD1,downstream_gene_variant,,ENST00000389995,;AP000254.8,upstream_gene_variant,,ENST00000609934,;SOD1,downstream_gene_variant,,ENST00000476106,;SOD1,downstream_gene_variant,,ENST00000470944,;	G	ENSG00000156304	ENST00000286835	Transcript	missense_variant	3525	3142	1048	E/Q	Gag/Cag	.	.	.	-1	SCAF4	HGNC	19304	protein_coding	YES	CCDS33537.1	ENSP00000286835	SFR15_HUMAN	Q0P607_HUMAN	UPI0000206D66	.	.	unknown(0)	20/20	.	hmmpanther:PTHR14124,hmmpanther:PTHR14124:SF2,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCTTCCA	.	4	BLCA
SCAF4	0	.	GRCh37	21	33076155	33076155	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244G>C	p.Asp82His	p.D82H	ENST00000286835	4/20	124	106	17	103	103	0	SCAF4,missense_variant,p.Asp82His,ENST00000399804,;SCAF4,missense_variant,p.Asp82His,ENST00000286835,;SCAF4,missense_variant,p.Asp67His,ENST00000434667,;SCAF4,non_coding_transcript_exon_variant,,ENST00000485790,;SCAF4,upstream_gene_variant,,ENST00000467731,;HMGN1P2,upstream_gene_variant,,ENST00000445197,;	G	ENSG00000156304	ENST00000286835	Transcript	missense_variant	627	244	82	D/H	Gat/Cat	.	.	.	-1	SCAF4	HGNC	19304	protein_coding	YES	CCDS33537.1	ENSP00000286835	SFR15_HUMAN	Q0P607_HUMAN	UPI0000206D66	.	.	probably_damaging(1)	4/20	.	Superfamily_domains:SSF48464,SMART_domains:SM00582,Gene3D:1.25.40.90,Pfam_domain:PF04818,hmmpanther:PTHR14124,hmmpanther:PTHR14124:SF2,PROSITE_profiles:PS51391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATCTTTAT	.	4	BLCA
EVA1C	0	.	GRCh37	21	33867394	33867394	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.692G>C	p.Arg231Thr	p.R231T	ENST00000300255	5/8	88	75	13	84	84	0	EVA1C,missense_variant,p.Arg231Thr,ENST00000300255,;EVA1C,missense_variant,p.Arg136Thr,ENST00000412833,;EVA1C,missense_variant,p.Arg231Thr,ENST00000382699,;EVA1C,intron_variant,,ENST00000401402,;EVA1C,non_coding_transcript_exon_variant,,ENST00000459833,;EVA1C,non_coding_transcript_exon_variant,,ENST00000496615,;EVA1C,upstream_gene_variant,,ENST00000485488,;EVA1C,missense_variant,p.Arg124Thr,ENST00000457807,;EVA1C,3_prime_UTR_variant,,ENST00000437338,;EVA1C,non_coding_transcript_exon_variant,,ENST00000464037,;EVA1C,intron_variant,,ENST00000435323,;EXOSC3P1,upstream_gene_variant,,ENST00000448649,;	C	ENSG00000166979	ENST00000300255	Transcript	missense_variant	1165	692	231	R/T	aGa/aCa	COSM1632453	.	.	1	EVA1C	HGNC	13239	protein_coding	YES	CCDS13614.1	ENSP00000300255	EVA1C_HUMAN	C9JS02_HUMAN,B3KWG0_HUMAN	UPI00000373F4	.	deleterious(0)	probably_damaging(0.968)	5/8	.	PROSITE_profiles:PS50228,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF220,Pfam_domain:PF02140	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGATGCA	.	5	BLCA
PAXBP1	0	.	GRCh37	21	34116017	34116017	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2239G>C	p.Asp747His	p.D747H	ENST00000331923	14/18	69	63	6	73	73	0	PAXBP1,missense_variant,p.Asp747His,ENST00000290178,;PAXBP1,missense_variant,p.Asp747His,ENST00000331923,;PAXBP1-AS1,downstream_gene_variant,,ENST00000440052,;PAXBP1,3_prime_UTR_variant,,ENST00000443785,;PAXBP1,non_coding_transcript_exon_variant,,ENST00000466846,;PAXBP1,non_coding_transcript_exon_variant,,ENST00000497873,;PAXBP1,upstream_gene_variant,,ENST00000445049,;PAXBP1,downstream_gene_variant,,ENST00000421049,;	G	ENSG00000159086	ENST00000331923	Transcript	missense_variant	2429	2239	747	D/H	Gat/Cat	COSM123331	.	.	-1	PAXBP1	HGNC	13579	protein_coding	YES	CCDS13619.1	ENSP00000328992	PAXB1_HUMAN	Q9NZD7_HUMAN,Q8N6E6_HUMAN,Q8N2J1_HUMAN,B3KY25_HUMAN	UPI000012B294	.	deleterious(0)	probably_damaging(0.999)	14/18	.	Pfam_domain:PF07842,hmmpanther:PTHR12214:SF2,hmmpanther:PTHR12214,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACATCATCAT	.	3	BLCA
C21orf62	0	.	GRCh37	21	34166708	34166708	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25C>G	p.Leu9Val	p.L9V	ENST00000536776	2/2	71	61	10	44	44	0	C21orf62,missense_variant,p.Leu9Val,ENST00000490358,;C21orf62,missense_variant,p.Leu9Val,ENST00000479548,;C21orf62,missense_variant,p.Leu9Val,ENST00000536776,;C21orf62,missense_variant,p.Leu9Val,ENST00000487113,;C21orf62,intron_variant,,ENST00000382373,;C21orf49,intron_variant,,ENST00000382378,;C21orf49,intron_variant,,ENST00000477513,;C21orf49,intron_variant,,ENST00000453404,;C21orf49,intron_variant,,ENST00000382375,;C21orf49,intron_variant,,ENST00000382377,;C21orf49,intron_variant,,ENST00000491756,;C21orf49,intron_variant,,ENST00000454365,;	C	ENSG00000205929	ENST00000536776	Transcript	missense_variant	166	25	9	L/V	Ctt/Gtt	.	.	.	-1	C21orf62	HGNC	1305	protein_coding	YES	CCDS42919.2	ENSP00000444950	CU062_HUMAN	.	UPI0001A81EE7	.	tolerated(0.06)	benign(0.018)	2/2	.	Cleavage_site_(Signalp):SignalP-noTM,Pfam_domain:PF15137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGAAGACAGT	.	4	BLCA
IFNGR2	0	.	GRCh37	21	34809249	34809249	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994G>C	p.Asp332His	p.D332H	ENST00000290219	7/7	71	62	9	58	58	0	IFNGR2,missense_variant,p.Asp253His,ENST00000405436,;IFNGR2,missense_variant,p.Asp351His,ENST00000381995,;IFNGR2,missense_variant,p.Asp332His,ENST00000290219,;IFNGR2,intron_variant,,ENST00000421802,;TMEM50B,non_coding_transcript_exon_variant,,ENST00000484377,;TMEM50B,non_coding_transcript_exon_variant,,ENST00000468874,;TMEM50B,intron_variant,,ENST00000470682,;IFNGR2,3_prime_UTR_variant,,ENST00000545369,;TMEM50B,intron_variant,,ENST00000420455,;IFNGR2,downstream_gene_variant,,ENST00000439213,;	C	ENSG00000159128	ENST00000290219	Transcript	missense_variant	1642	994	332	D/H	Gat/Cat	.	.	.	1	IFNGR2	HGNC	5440	protein_coding	YES	CCDS33544.1	ENSP00000290219	INGR2_HUMAN	B5MCZ0_HUMAN,A8K881_HUMAN,A1Z2N6_HUMAN	UPI00001514B0	.	deleterious(0.05)	benign(0.063)	7/7	.	hmmpanther:PTHR20859,hmmpanther:PTHR20859:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGAAGATGTT	.	4	BLCA
SH3BGR	0	.	GRCh37	21	40834402	40834402	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.336G>A	p.Met112Ile	p.M112I	ENST00000333634	2/7	65	54	11	64	64	0	SH3BGR,start_lost,p.Met1?,ENST00000380631,;SH3BGR,start_lost,p.Met1?,ENST00000458295,;SH3BGR,start_lost,p.Met1?,ENST00000380637,;SH3BGR,start_lost,p.Met1?,ENST00000440288,;SH3BGR,start_lost,p.Met1?,ENST00000380634,;SH3BGR,missense_variant,p.Met112Ile,ENST00000333634,;SH3BGR,missense_variant,p.Met41Ile,ENST00000452550,;SH3BGR,upstream_gene_variant,,ENST00000423596,;	A	ENSG00000185437	ENST00000333634	Transcript	missense_variant	414	336	112	M/I	atG/atA	.	.	.	1	SH3BGR	HGNC	10822	protein_coding	YES	CCDS13666.1	ENSP00000332513	SH3BG_HUMAN	C9JX40_HUMAN	UPI00001B03C6	.	deleterious(0.01)	possibly_damaging(0.817)	2/7	.	hmmpanther:PTHR12232,hmmpanther:PTHR12232:SF1,Pfam_domain:PF04908,Gene3D:3.40.30.10,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATGAGAGA	.	4	BLCA
C2CD2	0	.	GRCh37	21	43309335	43309335	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1989G>A	p.%3D	p.R663R	ENST00000380486	14/14	45	41	4	45	45	0	C2CD2,synonymous_variant,p.%3D,ENST00000449165,;C2CD2,synonymous_variant,p.%3D,ENST00000329623,;C2CD2,synonymous_variant,p.%3D,ENST00000380486,;C2CD2,non_coding_transcript_exon_variant,,ENST00000482186,;C2CD2,non_coding_transcript_exon_variant,,ENST00000482084,;	T	ENSG00000157617	ENST00000380486	Transcript	synonymous_variant	2231	1989	663	R	cgG/cgA	.	.	.	-1	C2CD2	HGNC	1266	protein_coding	YES	CCDS42933.1	ENSP00000369853	CU025_HUMAN	.	UPI0000206BBE	.	.	.	14/14	.	hmmpanther:PTHR21119:SF6,hmmpanther:PTHR21119	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTCCGGGA	.	3	BLCA
KRTAP10-10	0	.	GRCh37	21	46057525	46057525	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.191C>G	p.Ser64Ter	p.S64*	ENST00000380095	1/1	155	123	31	125	125	0	KRTAP10-10,stop_gained,p.Ser64Ter,ENST00000380095,;TSPEAR,intron_variant,,ENST00000323084,;	G	ENSG00000221859	ENST00000380095	Transcript	stop_gained	253	191	64	S/*	tCa/tGa	.	.	.	1	KRTAP10-10	HGNC	22972	protein_coding	YES	CCDS33585.1	ENSP00000369438	KR10A_HUMAN	.	UPI00001A95B8	.	.	.	1/1	.	hmmpanther:PTHR23262:SF40,hmmpanther:PTHR23262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATCAGGCT	.	5	BLCA
TSPEAR	0	.	GRCh37	21	46066328	46066328	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82+65020G>C	.	.	ENST00000323084	.	77	64	12	47	47	0	TSPEAR,intron_variant,,ENST00000323084,;KRTAP10-11,upstream_gene_variant,,ENST00000334670,;	G	ENSG00000175894	ENST00000323084	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	TSPEAR	HGNC	1268	protein_coding	YES	CCDS13712.1	ENSP00000321987	TSEAR_HUMAN	.	UPI0000137746	.	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCACACA	.	4	BLCA
FAM207A	0	.	GRCh37	21	46363700	46363700	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231C>T	p.%3D	p.V77V	ENST00000291634	2/6	70	59	10	71	71	0	FAM207A,synonymous_variant,p.%3D,ENST00000291634,;FAM207A,synonymous_variant,p.%3D,ENST00000397826,;FAM207A,synonymous_variant,p.%3D,ENST00000458015,;C21orf67,upstream_gene_variant,,ENST00000380070,;C21orf67,upstream_gene_variant,,ENST00000330551,;C21orf67,upstream_gene_variant,,ENST00000397841,;	T	ENSG00000160256	ENST00000291634	Transcript	synonymous_variant	279	231	77	V	gtC/gtT	.	.	.	1	FAM207A	HGNC	15811	protein_coding	YES	CCDS13718.1	ENSP00000291634	F207A_HUMAN	.	UPI00001286B9	.	.	.	2/6	.	hmmpanther:PTHR31109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCGTCAGGAG	.	4	BLCA
PRMT2	0	.	GRCh37	21	48068369	48068369	+	Splice_Site	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328-1G>A	.	p.X110_splice	ENST00000397637	.	54	47	7	69	69	0	PRMT2,splice_acceptor_variant,,ENST00000397637,;PRMT2,splice_acceptor_variant,,ENST00000451211,;PRMT2,splice_acceptor_variant,,ENST00000455177,;PRMT2,splice_acceptor_variant,,ENST00000440086,;PRMT2,splice_acceptor_variant,,ENST00000334494,;PRMT2,splice_acceptor_variant,,ENST00000291705,;PRMT2,splice_acceptor_variant,,ENST00000397628,;PRMT2,splice_acceptor_variant,,ENST00000397638,;PRMT2,splice_acceptor_variant,,ENST00000355680,;PRMT2,splice_acceptor_variant,,ENST00000458387,;PRMT2,non_coding_transcript_exon_variant,,ENST00000491389,;PRMT2,upstream_gene_variant,,ENST00000498151,;PRMT2,splice_acceptor_variant,,ENST00000481861,;PRMT2,splice_acceptor_variant,,ENST00000482508,;	A	ENSG00000160310	ENST00000397637	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM725723,COSM1149406	.	.	1	PRMT2	HGNC	5186	protein_coding	YES	CCDS13737.1	ENSP00000380759	ANM2_HUMAN	Q5U7D4_HUMAN	UPI0000125B21	.	.	.	.	4/10	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCAGAAACT	.	4	BLCA
MICAL3	0	.	GRCh37	22	18273609	18273609	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5898G>C	p.Gln1966His	p.Q1966H	ENST00000441493	32/32	61	51	9	35	35	0	MICAL3,missense_variant,p.Gln1966His,ENST00000441493,;MICAL3,downstream_gene_variant,,ENST00000579997,;MICAL3,downstream_gene_variant,,ENST00000577821,;MICAL3,non_coding_transcript_exon_variant,,ENST00000580469,;MICAL3,non_coding_transcript_exon_variant,,ENST00000252134,;XXbac-B461K10.4,non_coding_transcript_exon_variant,,ENST00000476405,;	G	ENSG00000243156	ENST00000441493	Transcript	missense_variant	6251	5898	1966	Q/H	caG/caC	.	.	.	-1	MICAL3	HGNC	24694	protein_coding	YES	CCDS46659.1	ENSP00000416015	MICA3_HUMAN	C9J922_HUMAN,A8K0E1_HUMAN	UPI0001823FDE	.	.	probably_damaging(0.998)	32/32	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF218,Pfam_domain:PF12130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCTGCTC	.	5	BLCA
TRMT2A	0	.	GRCh37	22	20102177	20102177	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1153G>C	p.Glu385Gln	p.E385Q	ENST00000252136	7/12	89	72	16	79	79	0	TRMT2A,missense_variant,p.Glu385Gln,ENST00000403707,;TRMT2A,missense_variant,p.Glu385Gln,ENST00000439169,;TRMT2A,missense_variant,p.Glu385Gln,ENST00000404751,;TRMT2A,missense_variant,p.Glu385Gln,ENST00000252136,;RANBP1,upstream_gene_variant,,ENST00000411892,;RANBP1,upstream_gene_variant,,ENST00000331821,;RANBP1,upstream_gene_variant,,ENST00000430524,;TRMT2A,downstream_gene_variant,,ENST00000445045,;DGCR8,downstream_gene_variant,,ENST00000351989,;RANBP1,upstream_gene_variant,,ENST00000421656,;TRMT2A,upstream_gene_variant,,ENST00000444256,;RANBP1,upstream_gene_variant,,ENST00000418705,;TRMT2A,upstream_gene_variant,,ENST00000444845,;RANBP1,upstream_gene_variant,,ENST00000432879,;RANBP1,upstream_gene_variant,,ENST00000402752,;DGCR8,downstream_gene_variant,,ENST00000383024,;RANBP1,upstream_gene_variant,,ENST00000423859,;DGCR8,downstream_gene_variant,,ENST00000407755,;RANBP1,upstream_gene_variant,,ENST00000416427,;AC006547.8,upstream_gene_variant,,ENST00000412713,;TRMT2A,non_coding_transcript_exon_variant,,ENST00000492988,;TRMT2A,non_coding_transcript_exon_variant,,ENST00000488335,;TRMT2A,downstream_gene_variant,,ENST00000480460,;RANBP1,upstream_gene_variant,,ENST00000467920,;TRMT2A,non_coding_transcript_exon_variant,,ENST00000494820,;TRMT2A,non_coding_transcript_exon_variant,,ENST00000463710,;TRMT2A,non_coding_transcript_exon_variant,,ENST00000471040,;TRMT2A,downstream_gene_variant,,ENST00000494641,;TRMT2A,downstream_gene_variant,,ENST00000464535,;TRMT2A,upstream_gene_variant,,ENST00000480339,;DGCR8,downstream_gene_variant,,ENST00000498171,;TRMT2A,upstream_gene_variant,,ENST00000487378,;DGCR8,downstream_gene_variant,,ENST00000495826,;TRMT2A,upstream_gene_variant,,ENST00000487668,;RANBP1,upstream_gene_variant,,ENST00000488484,;TRMT2A,downstream_gene_variant,,ENST00000468917,;TRMT2A,downstream_gene_variant,,ENST00000459644,;RANBP1,upstream_gene_variant,,ENST00000435265,;DGCR8,downstream_gene_variant,,ENST00000475941,;	G	ENSG00000099899	ENST00000252136	Transcript	missense_variant	1542	1153	385	E/Q	Gag/Cag	.	.	.	-1	TRMT2A	HGNC	24974	protein_coding	YES	CCDS13774.1	ENSP00000252136	TRM2A_HUMAN	C9K041_HUMAN	UPI00001BBFC5	.	tolerated(0.05)	benign(0.097)	7/12	.	PROSITE_profiles:PS51687,hmmpanther:PTHR11061:SF24,hmmpanther:PTHR11061,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCCAGGG	.	5	BLCA
THAP7	0	.	GRCh37	22	21355679	21355679	+	Silent	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.102G>C	p.%3D	p.P34P	ENST00000215742	2/4	153	135	18	157	157	0	THAP7,synonymous_variant,p.%3D,ENST00000399133,;THAP7,synonymous_variant,p.%3D,ENST00000215742,;AC002472.1,downstream_gene_variant,,ENST00000547793,;LZTR1,downstream_gene_variant,,ENST00000215739,;LZTR1,downstream_gene_variant,,ENST00000415817,;LZTR1,downstream_gene_variant,,ENST00000389355,;THAP7-AS1,upstream_gene_variant,,ENST00000429962,;THAP7-AS1,upstream_gene_variant,,ENST00000452284,;THAP7-AS1,upstream_gene_variant,,ENST00000436079,;LZTR1,downstream_gene_variant,,ENST00000479606,;THAP7,non_coding_transcript_exon_variant,,ENST00000466670,;THAP7,non_coding_transcript_exon_variant,,ENST00000488975,;THAP7,non_coding_transcript_exon_variant,,ENST00000471723,;THAP7,non_coding_transcript_exon_variant,,ENST00000498406,;THAP7,non_coding_transcript_exon_variant,,ENST00000476667,;THAP7,non_coding_transcript_exon_variant,,ENST00000471073,;LZTR1,downstream_gene_variant,,ENST00000452988,;LZTR1,downstream_gene_variant,,ENST00000498649,;LZTR1,downstream_gene_variant,,ENST00000463909,;LZTR1,downstream_gene_variant,,ENST00000439171,;TUBA3FP,downstream_gene_variant,,ENST00000442739,;	G	ENSG00000184436	ENST00000215742	Transcript	synonymous_variant	277	102	34	P	ccG/ccC	COSM3390119	.	.	-1	THAP7	HGNC	23190	protein_coding	YES	CCDS13787.1	ENSP00000215742	THAP7_HUMAN	.	UPI00001AE5D8	.	.	.	2/4	.	PROSITE_profiles:PS50950,hmmpanther:PTHR23080:SF14,hmmpanther:PTHR23080,Pfam_domain:PF05485,SMART_domains:SM00980,SMART_domains:SM00692,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCGGGTT	.	4	BLCA
GSTT1	0	.	GRCh37	22	24376861	24376861	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.489C>G	p.Ile163Met	p.I163M	ENST00000248935	4/5	51	44	7	67	67	0	GSTT1,missense_variant,p.Ile163Met,ENST00000248935,;GSTT1,missense_variant,p.Ile45Met,ENST00000439996,;GSTT1,intron_variant,,ENST00000417870,;GSTT1,intron_variant,,ENST00000436103,;GSTT1,downstream_gene_variant,,ENST00000447865,;KB-226F1.1,downstream_gene_variant,,ENST00000608619,;GSTT1,3_prime_UTR_variant,,ENST00000458231,;GSTT1,3_prime_UTR_variant,,ENST00000426209,;GSTT1,3_prime_UTR_variant,,ENST00000417831,;GSTT1,3_prime_UTR_variant,,ENST00000417489,;GSTT1,downstream_gene_variant,,ENST00000428175,;GSTT1,downstream_gene_variant,,ENST00000480898,;GSTT1,downstream_gene_variant,,ENST00000418883,;AP000351.10,downstream_gene_variant,,ENST00000439866,;AP000351.10,downstream_gene_variant,,ENST00000503903,;	C	ENSG00000184674	ENST00000248935	Transcript	missense_variant	542	489	163	I/M	atC/atG	.	.	.	-1	GSTT1	HGNC	4641	protein_coding	YES	CCDS13822.1	ENSP00000248935	GSTT1_HUMAN	Q6IC69_HUMAN,Q4GZS9_HUMAN,C9JA47_HUMAN	UPI000004A942	.	tolerated(0.07)	possibly_damaging(0.682)	4/5	.	Superfamily_domains:SSF47616,Pfam_domain:PF00043,Gene3D:1.20.1050.10,hmmpanther:PTHR11260,hmmpanther:PTHR11260:SF168,PROSITE_profiles:PS50405	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGAGATGTG	.	4	BLCA
CABIN1	0	.	GRCh37	22	24462941	24462941	+	Missense_Mutation	SNP	G	G	C	rs771922098	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2041G>C	p.Asp681His	p.D681H	ENST00000398319	16/37	59	55	4	60	60	0	CABIN1,missense_variant,p.Asp681His,ENST00000398319,;CABIN1,missense_variant,p.Asp631His,ENST00000405822,;CABIN1,missense_variant,p.Asp681His,ENST00000263119,;CABIN1,upstream_gene_variant,,ENST00000484593,;	C	ENSG00000099991	ENST00000398319	Transcript	missense_variant	2426	2041	681	D/H	Gat/Cat	rs771922098	.	.	1	CABIN1	HGNC	24187	protein_coding	YES	CCDS13823.1	ENSP00000381364	CABIN_HUMAN	.	UPI0000126D6C	.	deleterious(0)	possibly_damaging(0.866)	16/37	.	hmmpanther:PTHR15502,hmmpanther:PTHR15502:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATTGATAAG	.	2	BLCA
PIWIL3	0	.	GRCh37	22	25155941	25155941	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118C>G	p.Gln40Glu	p.Q40E	ENST00000332271	3/21	256	225	31	238	238	0	PIWIL3,missense_variant,p.Gln40Glu,ENST00000332271,;PIWIL3,5_prime_UTR_variant,,ENST00000527701,;PIWIL3,5_prime_UTR_variant,,ENST00000533313,;PIWIL3,non_coding_transcript_exon_variant,,ENST00000532537,;	C	ENSG00000184571	ENST00000332271	Transcript	missense_variant	535	118	40	Q/E	Cag/Gag	.	.	.	-1	PIWIL3	HGNC	18443	protein_coding	YES	CCDS33623.1	ENSP00000330031	PIWL3_HUMAN	.	UPI00002073D6	.	tolerated(0.42)	benign(0.057)	3/21	.	hmmpanther:PTHR22892:SF28,hmmpanther:PTHR22892	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAACTGAGGGG	.	4	BLCA
EMID1	0	.	GRCh37	22	29650224	29650224	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152G>C	p.Leu384Phe	p.L384F	ENST00000334018	14/15	159	132	27	137	137	0	EMID1,missense_variant,p.Leu363Phe,ENST00000404755,;EMID1,missense_variant,p.Leu384Phe,ENST00000334018,;EMID1,intron_variant,,ENST00000404820,;EMID1,non_coding_transcript_exon_variant,,ENST00000488820,;EMID1,non_coding_transcript_exon_variant,,ENST00000487477,;	C	ENSG00000186998	ENST00000334018	Transcript	missense_variant	1340	1152	384	L/F	ttG/ttC	COSM3964182	.	.	1	EMID1	HGNC	18036	protein_coding	YES	CCDS33630.1	ENSP00000335481	EMID1_HUMAN	F8WDX7_HUMAN	UPI00001A796B	.	deleterious(0.02)	possibly_damaging(0.897)	14/15	.	hmmpanther:PTHR24023:SF363,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTTGAAGAT	.	4	BLCA
GAL3ST1	0	.	GRCh37	22	30951555	30951555	+	Missense_Mutation	SNP	G	G	C	rs779999112	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657C>G	p.Phe219Leu	p.F219L	ENST00000402321	3/3	120	100	20	94	94	0	GAL3ST1,missense_variant,p.Phe219Leu,ENST00000401975,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000402369,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000406955,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000406361,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000441967,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000452827,;GAL3ST1,missense_variant,p.Phe220Leu,ENST00000431313,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000402321,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000338911,;GAL3ST1,missense_variant,p.Phe219Leu,ENST00000443111,;GAL3ST1,downstream_gene_variant,,ENST00000428682,;GAL3ST1,downstream_gene_variant,,ENST00000426220,;GAL3ST1,downstream_gene_variant,,ENST00000447224,;GAL3ST1,downstream_gene_variant,,ENST00000423371,;GAL3ST1,downstream_gene_variant,,ENST00000453479,;GAL3ST1,downstream_gene_variant,,ENST00000445645,;GAL3ST1,downstream_gene_variant,,ENST00000427899,;GAL3ST1,downstream_gene_variant,,ENST00000416358,;GAL3ST1,downstream_gene_variant,,ENST00000448604,;GAL3ST1,downstream_gene_variant,,ENST00000411821,;GAL3ST1,downstream_gene_variant,,ENST00000423299,;GAL3ST1,downstream_gene_variant,,ENST00000437282,;GAL3ST1,downstream_gene_variant,,ENST00000443136,;	C	ENSG00000128242	ENST00000402321	Transcript	missense_variant	975	657	219	F/L	ttC/ttG	rs779999112	.	.	-1	GAL3ST1	HGNC	24240	protein_coding	YES	CCDS13879.1	ENSP00000385735	G3ST1_HUMAN	C9K037_HUMAN,C9JYD7_HUMAN,C9JU54_HUMAN,C9JN55_HUMAN,C9JLB5_HUMAN,C9JKD7_HUMAN,C9JIS3_HUMAN,C9JGL4_HUMAN,C9J993_HUMAN,C9J6M2_HUMAN,C9J4I2_HUMAN,C9J2X7_HUMAN,C9J2M1_HUMAN	UPI00001285C2	.	tolerated(0.11)	probably_damaging(0.95)	3/3	.	hmmpanther:PTHR14647:SF56,hmmpanther:PTHR14647,Pfam_domain:PF06990	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGAAGAAGAG	.	5	BLCA
MORC2	0	.	GRCh37	22	31334114	31334114	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966C>G	p.Ile322Met	p.I322M	ENST00000215862	14/27	84	72	12	69	69	0	MORC2,missense_variant,p.Ile322Met,ENST00000215862,;MORC2,missense_variant,p.Ile384Met,ENST00000397641,;MORC2,intron_variant,,ENST00000469915,;MORC2,downstream_gene_variant,,ENST00000476152,;	C	ENSG00000133422	ENST00000215862	Transcript	missense_variant	2330	966	322	I/M	atC/atG	.	.	.	-1	MORC2	HGNC	23573	protein_coding	YES	CCDS33636.1	ENSP00000215862	MORC2_HUMAN	.	UPI000012DB74	.	deleterious(0)	benign(0.08)	14/27	.	hmmpanther:PTHR23337:SF7,hmmpanther:PTHR23337	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTAGATGAA	.	4	BLCA
MYH9	0	.	GRCh37	22	36700117	36700117	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2314G>A	p.Glu772Lys	p.E772K	ENST00000216181	19/41	56	44	12	46	46	0	MYH9,missense_variant,p.Glu772Lys,ENST00000216181,;MYH9,upstream_gene_variant,,ENST00000495928,;MYH9,upstream_gene_variant,,ENST00000473022,;	T	ENSG00000100345	ENST00000216181	Transcript	missense_variant	2545	2314	772	E/K	Gag/Aag	.	.	.	-1	MYH9	HGNC	7579	protein_coding	YES	CCDS13927.1	ENSP00000216181	MYH9_HUMAN	Q9UMJ0_HUMAN,B1AH99_HUMAN	UPI000012FB80	.	.	probably_damaging(0.999)	19/41	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF317,hmmpanther:PTHR13140,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCAGGT	.	5	BLCA
KCTD17	0	.	GRCh37	22	37455372	37455372	+	Missense_Mutation	SNP	C	C	G	rs553067785	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527C>G	p.Ser176Cys	p.S176C	ENST00000402077	5/8	129	113	16	92	92	0	KCTD17,missense_variant,p.Ser176Cys,ENST00000403888,;KCTD17,missense_variant,p.Ser176Cys,ENST00000402077,;KCTD17,missense_variant,p.Ser131Cys,ENST00000456470,;RN7SKP214,upstream_gene_variant,,ENST00000364208,;KCTD17,3_prime_UTR_variant,,ENST00000421900,;KCTD17,non_coding_transcript_exon_variant,,ENST00000462640,;KCTD17,non_coding_transcript_exon_variant,,ENST00000478231,;KCTD17,non_coding_transcript_exon_variant,,ENST00000483389,;	G	ENSG00000100379	ENST00000402077	Transcript	missense_variant	528	527	176	S/C	tCc/tGc	rs553067785	.	.	1	KCTD17	HGNC	25705	protein_coding	YES	CCDS13940.2	ENSP00000384391	KCD17_HUMAN	.	UPI0000EE5BFA	.	deleterious(0.01)	benign(0.284)	5/8	.	hmmpanther:PTHR14958:SF20,hmmpanther:PTHR14958	G:0.0002	G:0	G:0	.	G:0.001	G:0	G:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCTACA	by1000G	4	BLCA
SH3BP1	0	.	GRCh37	22	38043485	38043485	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1156G>C	p.Glu386Gln	p.E386Q	ENST00000357436	13/18	31	27	4	18	18	0	SH3BP1,missense_variant,p.Glu386Gln,ENST00000336738,;SH3BP1,missense_variant,p.Glu322Gln,ENST00000599616,;SH3BP1,missense_variant,p.Glu386Gln,ENST00000442465,;SH3BP1,missense_variant,p.Glu386Gln,ENST00000357436,;Z83844.1,intron_variant,,ENST00000456099,;SH3BP1,downstream_gene_variant,,ENST00000495174,;SH3BP1,missense_variant,p.Glu386Gln,ENST00000417536,;SH3BP1,3_prime_UTR_variant,,ENST00000451997,;SH3BP1,non_coding_transcript_exon_variant,,ENST00000469947,;SH3BP1,non_coding_transcript_exon_variant,,ENST00000471650,;SH3BP1,non_coding_transcript_exon_variant,,ENST00000466097,;SH3BP1,downstream_gene_variant,,ENST00000459646,;	C	ENSG00000100092	ENST00000357436	Transcript	missense_variant	1469	1156	386	E/Q	Gag/Cag	.	.	.	1	SH3BP1	HGNC	10824	protein_coding	YES	CCDS13952.2	ENSP00000350018	3BP1_HUMAN	F8WEQ3_HUMAN	UPI000004EE00	.	tolerated(0.23)	benign(0.055)	13/18	.	PROSITE_profiles:PS50238,hmmpanther:PTHR14130:SF12,hmmpanther:PTHR14130,Gene3D:1.10.555.10,Pfam_domain:PF00620,SMART_domains:SM00324,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TCCAAGAGGTG	.	3	BLCA
EIF3L	0	.	GRCh37	22	38266335	38266335	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.732G>A	p.%3D	p.L244L	ENST00000412331	8/13	71	53	17	50	50	0	EIF3L,synonymous_variant,p.%3D,ENST00000406934,;EIF3L,synonymous_variant,p.%3D,ENST00000381683,;EIF3L,synonymous_variant,p.%3D,ENST00000412331,;EIF3L,non_coding_transcript_exon_variant,,ENST00000464790,;EIF3L,non_coding_transcript_exon_variant,,ENST00000476955,;EIF3L,non_coding_transcript_exon_variant,,ENST00000482600,;EIF3L,non_coding_transcript_exon_variant,,ENST00000477256,;EIF3L,downstream_gene_variant,,ENST00000436452,;EIF3L,downstream_gene_variant,,ENST00000439997,;	A	ENSG00000100129	ENST00000412331	Transcript	synonymous_variant	1314	732	244	L	ttG/ttA	.	.	.	1	EIF3L	HGNC	18138	protein_coding	YES	CCDS13960.1	ENSP00000416892	EIF3L_HUMAN	Q7Z5X3_HUMAN,C9JHP4_HUMAN,B3KNG0_HUMAN,B0QY89_HUMAN	UPI00000012D7	.	.	.	8/13	.	HAMAP:MF_03011,hmmpanther:PTHR13242,Pfam_domain:PF10255	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTGGAGGT	.	5	BLCA
APOBEC3H	0	.	GRCh37	22	39499691	39499691	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*35-3C>T	.	.	ENST00000401756	.	140	121	19	141	141	0	APOBEC3H,splice_region_variant,,ENST00000348946,;APOBEC3H,splice_region_variant,,ENST00000401756,;APOBEC3H,splice_region_variant,,ENST00000442487,;APOBEC3H,downstream_gene_variant,,ENST00000421988,;APOBEC3H,downstream_gene_variant,,ENST00000474235,;	T	ENSG00000100298	ENST00000401756	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	APOBEC3H	HGNC	24100	protein_coding	YES	CCDS54530.1	ENSP00000385741	ABC3H_HUMAN	.	UPI00002077A2	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CCTCTCAGCAG	.	2	BLCA
EP300	0	.	GRCh37	22	41551100	41551100	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3244C>T	p.Gln1082Ter	p.Q1082*	ENST00000263253	17/31	279	240	39	228	228	0	EP300,stop_gained,p.Gln1082Ter,ENST00000263253,;	T	ENSG00000100393	ENST00000263253	Transcript	stop_gained	4463	3244	1082	Q/*	Cag/Tag	.	.	.	1	EP300	HGNC	3373	protein_coding	YES	CCDS14010.1	ENSP00000263253	EP300_HUMAN	B5A250_HUMAN	UPI00001AE876	.	.	.	17/31	.	PROSITE_profiles:PS50014,hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF4,PROSITE_patterns:PS00633,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370,Prints_domain:PR00503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCAGCTT	.	4	BLCA
EP300	0	.	GRCh37	22	41574216	41574216	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6501G>A	p.%3D	p.Q2167Q	ENST00000263253	31/31	119	96	23	64	64	0	EP300,synonymous_variant,p.%3D,ENST00000263253,;RP1-85F18.5,intron_variant,,ENST00000420537,;RP1-85F18.6,intron_variant,,ENST00000415054,;	A	ENSG00000100393	ENST00000263253	Transcript	synonymous_variant	7720	6501	2167	Q	caG/caA	.	.	.	1	EP300	HGNC	3373	protein_coding	YES	CCDS14010.1	ENSP00000263253	EP300_HUMAN	B5A250_HUMAN	UPI00001AE876	.	.	.	31/31	.	hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCAGATGAA	.	5	BLCA
MCAT	0	.	GRCh37	22	43539109	43539109	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.246C>G	p.%3D	p.L82L	ENST00000290429	1/4	23	20	3	12	12	0	MCAT,synonymous_variant,p.%3D,ENST00000290429,;MCAT,synonymous_variant,p.%3D,ENST00000327555,;MCAT,upstream_gene_variant,,ENST00000608052,;MCAT,non_coding_transcript_exon_variant,,ENST00000464244,;	C	ENSG00000100294	ENST00000290429	Transcript	synonymous_variant	292	246	82	L	ctC/ctG	.	.	.	-1	MCAT	HGNC	29622	protein_coding	YES	CCDS33660.1	ENSP00000290429	FABD_HUMAN	.	UPI000003B003	.	.	.	1/4	.	hmmpanther:PTHR10982,Gene3D:3.40.366.10,Pfam_domain:PF00698,SMART_domains:SM00827,Superfamily_domains:SSF52151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGTTGAGCAG	.	2	BLCA
TTLL12	0	.	GRCh37	22	43579140	43579140	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>A	p.Glu65Lys	p.E65K	ENST00000216129	2/14	130	109	21	105	105	0	TTLL12,missense_variant,p.Glu65Lys,ENST00000216129,;	T	ENSG00000100304	ENST00000216129	Transcript	missense_variant	257	193	65	E/K	Gaa/Aaa	.	.	.	-1	TTLL12	HGNC	28974	protein_coding	YES	CCDS14047.1	ENSP00000216129	TTL12_HUMAN	.	UPI000013938D	.	tolerated(0.21)	benign(0.197)	2/14	.	hmmpanther:PTHR12241,hmmpanther:PTHR12241:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCCCCAG	.	4	BLCA
PARVG	0	.	GRCh37	22	44592250	44592250	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666G>C	p.Gln222His	p.Q222H	ENST00000444313	11/14	91	79	11	85	85	0	PARVG,missense_variant,p.Gln222His,ENST00000444313,;PARVG,missense_variant,p.Gln222His,ENST00000415224,;PARVG,missense_variant,p.Gln222His,ENST00000422871,;PARVG,intron_variant,,ENST00000472551,;PARVG,3_prime_UTR_variant,,ENST00000356909,;PARVG,non_coding_transcript_exon_variant,,ENST00000468564,;PARVG,non_coding_transcript_exon_variant,,ENST00000475485,;	C	ENSG00000138964	ENST00000444313	Transcript	missense_variant	1150	666	222	Q/H	caG/caC	.	.	.	1	PARVG	HGNC	14654	protein_coding	YES	CCDS14057.1	ENSP00000391583	PARVG_HUMAN	B0QYM9_HUMAN	UPI000004470F	.	deleterious(0)	benign(0.213)	11/14	.	PROSITE_profiles:PS50021,hmmpanther:PTHR12114,hmmpanther:PTHR12114:SF1,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCAGAAGCT	.	4	BLCA
GTSE1	0	.	GRCh37	22	46725347	46725347	+	Silent	SNP	C	C	T	rs61737807	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2019C>T	p.%3D	p.C673C	ENST00000454366	11/12	155	127	27	138	138	0	GTSE1,synonymous_variant,p.%3D,ENST00000454366,;TRMU,upstream_gene_variant,,ENST00000476901,;TRMU,upstream_gene_variant,,ENST00000486620,;GTSE1,non_coding_transcript_exon_variant,,ENST00000491863,;GTSE1,downstream_gene_variant,,ENST00000479645,;GTSE1,downstream_gene_variant,,ENST00000466510,;	T	ENSG00000075218	ENST00000454366	Transcript	synonymous_variant	2231	2019	673	C	tgC/tgT	rs61737807,COSM1035149	.	.	1	GTSE1	HGNC	13698	protein_coding	YES	CCDS14074.2	ENSP00000415430	GTSE1_HUMAN	.	UPI000021D19B	.	.	.	11/12	.	hmmpanther:PTHR21584:SF8,hmmpanther:PTHR21584	.	.	.	.	.	.	.	T:0.0002	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTGCGATAC	byFrequency|byCluster	4	BLCA
SELO	0	.	GRCh37	22	50647058	50647058	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.852C>G	p.%3D	p.L284L	ENST00000380903	3/9	104	89	15	72	72	0	SELO,synonymous_variant,p.%3D,ENST00000380903,;RP3-402G11.28,non_coding_transcript_exon_variant,,ENST00000608016,;RP3-402G11.27,upstream_gene_variant,,ENST00000610050,;SELO,non_coding_transcript_exon_variant,,ENST00000492092,;	G	ENSG00000073169	ENST00000380903	Transcript	synonymous_variant	910	852	284	L	ctC/ctG	.	.	.	1	SELO	Uniprot_gn	.	protein_coding	YES	CCDS43034.1	ENSP00000370288	SELO_HUMAN	.	UPI00001B2972	.	.	.	3/9	.	HAMAP:MF_00692,hmmpanther:PTHR12153,Pfam_domain:PF02696	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCGACTA	.	5	BLCA
NPAS2	0	.	GRCh37	2	101521208	101521208	+	5'UTR	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9G>A	.	.	ENST00000335681	2/21	31	25	6	18	17	1	NPAS2,missense_variant,p.Glu63Lys,ENST00000427413,;NPAS2,missense_variant,p.Glu63Lys,ENST00000542504,;NPAS2,5_prime_UTR_variant,,ENST00000335681,;	A	ENSG00000170485	ENST00000335681	Transcript	5_prime_UTR_variant	277	.	.	.	.	COSM1590454	.	.	1	NPAS2	HGNC	7895	protein_coding	YES	CCDS2048.1	ENSP00000338283	NPAS2_HUMAN	A2I2P5_HUMAN	UPI0000163B27	.	.	.	2/21	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCATAGAAAAT	.	3	BLCA
GPR45	0	.	GRCh37	2	105858706	105858706	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391G>C	p.Asp131His	p.D131H	ENST00000258456	1/1	53	46	7	47	47	0	GPR45,missense_variant,p.Asp131His,ENST00000258456,;	C	ENSG00000135973	ENST00000258456	Transcript	missense_variant	507	391	131	D/H	Gac/Cac	.	.	.	1	GPR45	HGNC	4503	protein_coding	YES	CCDS2066.1	ENSP00000258456	GPR45_HUMAN	B5B0C1_HUMAN	UPI000013CFD3	.	deleterious(0)	probably_damaging(0.99)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24245,hmmpanther:PTHR24245:SF4,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGTGGACCGC	.	4	BLCA
TGFBRAP1	0	.	GRCh37	2	105889361	105889361	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1923G>A	p.%3D	p.L641L	ENST00000393359	10/12	58	47	11	71	71	0	TGFBRAP1,synonymous_variant,p.%3D,ENST00000393359,;TGFBRAP1,synonymous_variant,p.%3D,ENST00000258449,;	T	ENSG00000135966	ENST00000393359	Transcript	synonymous_variant	2350	1923	641	L	ctG/ctA	COSM4083946	.	.	-1	TGFBRAP1	HGNC	16836	protein_coding	YES	CCDS2067.1	ENSP00000377027	TGFA1_HUMAN	.	UPI0000072CA9	.	.	.	10/12	.	PROSITE_profiles:PS50236,hmmpanther:PTHR12894,hmmpanther:PTHR12894:SF16,Pfam_domain:PF00637	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCGCAGCTT	.	5	BLCA
PDIA6	0	.	GRCh37	2	10930949	10930949	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595G>C	p.Glu199Gln	p.E199Q	ENST00000272227	7/13	66	54	12	62	62	0	PDIA6,missense_variant,p.Glu251Gln,ENST00000404371,;PDIA6,missense_variant,p.Glu199Gln,ENST00000272227,;PDIA6,missense_variant,p.Glu196Gln,ENST00000540494,;PDIA6,missense_variant,p.Glu247Gln,ENST00000404824,;PDIA6,missense_variant,p.Glu204Gln,ENST00000381611,;	G	ENSG00000143870	ENST00000272227	Transcript	missense_variant	743	595	199	E/Q	Gag/Cag	.	.	.	-1	PDIA6	HGNC	30168	protein_coding	YES	CCDS1675.1	ENSP00000272227	PDIA6_HUMAN	.	UPI000013148C	.	tolerated(0.07)	possibly_damaging(0.51)	7/13	.	PROSITE_profiles:PS51352,hmmpanther:PTHR18929,hmmpanther:PTHR18929:SF38,PROSITE_patterns:PS00194,Gene3D:3.40.30.10,TIGRFAM_domain:TIGR01126,Pfam_domain:PF00085,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACTCTGGCT	.	2	BLCA
ANAPC1	0	.	GRCh37	2	112630977	112630977	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>C	p.Glu146Gln	p.E146Q	ENST00000341068	5/48	117	107	9	94	94	0	ANAPC1,missense_variant,p.Glu146Gln,ENST00000341068,;ANAPC1,non_coding_transcript_exon_variant,,ENST00000489177,;ANAPC1,intron_variant,,ENST00000451367,;	G	ENSG00000153107	ENST00000341068	Transcript	missense_variant	1209	436	146	E/Q	Gaa/Caa	.	.	.	-1	ANAPC1	HGNC	19988	protein_coding	YES	CCDS2093.1	ENSP00000339109	APC1_HUMAN	.	UPI000006EC6E	.	tolerated(0.23)	benign(0.179)	5/48	.	hmmpanther:PTHR12827	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACTTCATTGC	.	3	BLCA
CKAP2L	0	.	GRCh37	2	113496498	113496498	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2140C>T	p.Leu714Phe	p.L714F	ENST00000302450	9/9	201	174	27	174	174	0	CKAP2L,missense_variant,p.Leu714Phe,ENST00000302450,;CKAP2L,missense_variant,p.Leu549Phe,ENST00000541405,;NT5DC4,intron_variant,,ENST00000327581,;NT5DC4,non_coding_transcript_exon_variant,,ENST00000491170,;CKAP2L,3_prime_UTR_variant,,ENST00000435431,;CKAP2L,downstream_gene_variant,,ENST00000474331,;	A	ENSG00000169607	ENST00000302450	Transcript	missense_variant	2219	2140	714	L/F	Ctt/Ttt	.	.	.	-1	CKAP2L	HGNC	26877	protein_coding	YES	CCDS2100.1	ENSP00000305204	CKP2L_HUMAN	F5H0M5_HUMAN	UPI0000207D64	.	deleterious(0)	probably_damaging(0.999)	9/9	.	hmmpanther:PTHR16076,hmmpanther:PTHR16076:SF7,Pfam_domain:PF15297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCAAGAGAAG	.	4	BLCA
ROCK2	0	.	GRCh37	2	11354586	11354586	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1940G>C	p.Arg647Thr	p.R647T	ENST00000315872	17/33	61	50	10	43	43	0	ROCK2,missense_variant,p.Arg647Thr,ENST00000315872,;ROCK2,missense_variant,p.Arg404Thr,ENST00000401753,;ROCK2,downstream_gene_variant,,ENST00000261535,;ROCK2,downstream_gene_variant,,ENST00000484951,;	G	ENSG00000134318	ENST00000315872	Transcript	missense_variant	2389	1940	647	R/T	aGa/aCa	.	.	.	-1	ROCK2	HGNC	10252	protein_coding	YES	CCDS42654.1	ENSP00000317985	ROCK2_HUMAN	Q14DU5_HUMAN,E9PF63_HUMAN	UPI000034ECB0	.	deleterious(0.03)	possibly_damaging(0.467)	17/33	.	hmmpanther:PTHR22988:SF24,hmmpanther:PTHR22988,PIRSF_domain:PIRSF037568	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATATTCTACCT	.	2	BLCA
MARCO	0	.	GRCh37	2	119699940	119699940	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.64C>T	p.His22Tyr	p.H22Y	ENST00000327097	1/17	67	56	10	61	61	0	MARCO,missense_variant,p.His22Tyr,ENST00000327097,;MARCO,5_prime_UTR_variant,,ENST00000412481,;MARCO,5_prime_UTR_variant,,ENST00000541757,;	T	ENSG00000019169	ENST00000327097	Transcript	missense_variant	199	64	22	H/Y	Cac/Tac	COSM3894622	.	.	1	MARCO	HGNC	6895	protein_coding	YES	CCDS2124.1	ENSP00000318916	MARCO_HUMAN	Q4ZG40_HUMAN,C9JKT8_HUMAN,B4DW79_HUMAN,B4DLJ6_HUMAN	UPI0000000DF8	.	deleterious(0.04)	benign(0.043)	1/17	.	hmmpanther:PTHR24021:SF16,hmmpanther:PTHR24021	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTTCACCAA	.	4	BLCA
BIN1	0	.	GRCh37	2	127834214	127834214	+	Missense_Mutation	SNP	G	G	C	rs758601442	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153C>G	p.Phe51Leu	p.F51L	ENST00000316724	2/19	157	128	28	116	116	0	BIN1,missense_variant,p.Phe51Leu,ENST00000351659,;BIN1,missense_variant,p.Phe51Leu,ENST00000316724,;BIN1,missense_variant,p.Phe51Leu,ENST00000393041,;BIN1,missense_variant,p.Phe51Leu,ENST00000393040,;BIN1,missense_variant,p.Phe51Leu,ENST00000348750,;BIN1,missense_variant,p.Phe51Leu,ENST00000357970,;BIN1,missense_variant,p.Phe51Leu,ENST00000346226,;BIN1,missense_variant,p.Phe51Leu,ENST00000409400,;BIN1,missense_variant,p.Phe51Leu,ENST00000259238,;BIN1,missense_variant,p.Phe51Leu,ENST00000352848,;BIN1,missense_variant,p.Phe51Leu,ENST00000376113,;	C	ENSG00000136717	ENST00000316724	Transcript	missense_variant	565	153	51	F/L	ttC/ttG	rs758601442	.	.	-1	BIN1	HGNC	1052	protein_coding	YES	CCDS2138.1	ENSP00000316779	BIN1_HUMAN	.	UPI0000001303	.	tolerated(0.06)	probably_damaging(1)	2/19	.	PROSITE_profiles:PS51021,hmmpanther:PTHR10321:SF24,hmmpanther:PTHR10321,Pfam_domain:PF03114,Gene3D:1.20.1270.60,SMART_domains:SM00721,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTGAAATT	.	5	BLCA
SAP130	0	.	GRCh37	2	128700004	128700004	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3087G>A	p.%3D	p.L1029L	ENST00000357702	20/21	134	118	15	101	101	0	SAP130,synonymous_variant,p.%3D,ENST00000259235,;SAP130,synonymous_variant,p.%3D,ENST00000259234,;SAP130,synonymous_variant,p.%3D,ENST00000357702,;	T	ENSG00000136715	ENST00000357702	Transcript	synonymous_variant	3219	3087	1029	L	ctG/ctA	.	.	.	-1	SAP130	HGNC	29813	protein_coding	YES	CCDS54397.1	ENSP00000350333	SP130_HUMAN	Q96DP1_HUMAN,C9J683_HUMAN	UPI00005989D6	.	.	.	20/21	.	hmmpanther:PTHR13497	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTATCAGTTC	.	4	BLCA
POTEF	0	.	GRCh37	2	130877918	130877918	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.171C>G	p.%3D	p.L57L	ENST00000357462	1/15	403	351	51	366	366	0	POTEF,synonymous_variant,p.%3D,ENST00000361163,;POTEF,synonymous_variant,p.%3D,ENST00000357462,;POTEF,synonymous_variant,p.%3D,ENST00000360967,;POTEF,synonymous_variant,p.%3D,ENST00000409914,;	C	ENSG00000196604	ENST00000357462	Transcript	synonymous_variant	265	171	57	L	ctC/ctG	.	.	.	-1	POTEF	HGNC	33905	protein_coding	YES	CCDS46409.1	ENSP00000350052	POTEF_HUMAN	.	UPI0000418FEA	.	.	.	1/15	.	hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTGAGTGT	.	4	BLCA
TUBA3E	0	.	GRCh37	2	130951671	130951671	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744G>A	p.%3D	p.L248L	ENST00000312988	4/5	215	204	10	203	203	0	TUBA3E,synonymous_variant,p.%3D,ENST00000312988,;MZT2B,downstream_gene_variant,,ENST00000409255,;MZT2B,downstream_gene_variant,,ENST00000457492,;MZT2B,downstream_gene_variant,,ENST00000425361,;MZT2B,downstream_gene_variant,,ENST00000455239,;MZT2B,downstream_gene_variant,,ENST00000281871,;MZT2B,downstream_gene_variant,,ENST00000480182,;	T	ENSG00000152086	ENST00000312988	Transcript	synonymous_variant	845	744	248	L	ctG/ctA	.	.	.	-1	TUBA3E	HGNC	20765	protein_coding	YES	CCDS2158.1	ENSP00000318197	TBA3E_HUMAN	F8VXZ7_HUMAN	UPI00001BE8EB	.	.	.	4/5	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF65,Gene3D:3.40.50.1440,SMART_domains:SM00865,Superfamily_domains:SSF55307	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACATTCAGGGC	.	2	BLCA
TUBA3D	0	.	GRCh37	2	132238010	132238010	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744G>A	p.%3D	p.L248L	ENST00000321253	4/5	110	98	12	81	81	0	TUBA3D,synonymous_variant,p.%3D,ENST00000321253,;MZT2A,downstream_gene_variant,,ENST00000309451,;MZT2A,downstream_gene_variant,,ENST00000410036,;TUBA3D,downstream_gene_variant,,ENST00000409047,;MZT2A,intron_variant,,ENST00000445782,;MZT2A,intron_variant,,ENST00000427024,;	A	ENSG00000075886	ENST00000321253	Transcript	synonymous_variant	851	744	248	L	ctG/ctA	.	.	.	1	TUBA3D	HGNC	24071	protein_coding	YES	CCDS33290.1	ENSP00000326042	TBA3C_HUMAN	Q1ZYQ1_HUMAN,F8VXZ7_HUMAN	UPI0000027DB1	.	.	.	4/5	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF65,Gene3D:3.40.50.1440,SMART_domains:SM00865,Superfamily_domains:SSF55307	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTGAATGT	.	4	BLCA
MAP3K19	0	.	GRCh37	2	135738566	135738566	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3745G>A	p.Asp1249Asn	p.D1249N	ENST00000375845	9/10	65	54	11	59	59	0	MAP3K19,missense_variant,p.Asp381Asn,ENST00000392917,;MAP3K19,missense_variant,p.Asp431Asn,ENST00000375844,;MAP3K19,missense_variant,p.Asp1249Asn,ENST00000375845,;MAP3K19,missense_variant,p.Asp383Asn,ENST00000392918,;MAP3K19,missense_variant,p.Asp639Asn,ENST00000437365,;MAP3K19,missense_variant,p.Asp110Asn,ENST00000315513,;MAP3K19,missense_variant,p.Asp1136Asn,ENST00000358371,;MAP3K19,3_prime_UTR_variant,,ENST00000392915,;MAP3K19,non_coding_transcript_exon_variant,,ENST00000478805,;	T	ENSG00000176601	ENST00000375845	Transcript	missense_variant	3776	3745	1249	D/N	Gat/Aat	.	.	.	-1	MAP3K19	HGNC	26249	protein_coding	YES	CCDS2176.2	ENSP00000365005	M3K19_HUMAN	H7C041_HUMAN,C9JGQ2_HUMAN,C9JEJ9_HUMAN	UPI00004F77F2	.	deleterious(0)	probably_damaging(1)	9/10	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF129,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATCTGATT	.	5	BLCA
RAB3GAP1	0	.	GRCh37	2	135878476	135878476	+	Nonsense_Mutation	SNP	C	C	T	rs775490485	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>T	p.Gln246Ter	p.Q246*	ENST00000442034	8/25	121	106	15	93	93	0	RAB3GAP1,stop_gained,p.Gln246Ter,ENST00000442034,;RAB3GAP1,stop_gained,p.Gln202Ter,ENST00000539493,;RAB3GAP1,stop_gained,p.Gln246Ter,ENST00000264158,;RAB3GAP1,non_coding_transcript_exon_variant,,ENST00000487003,;RAB3GAP1,upstream_gene_variant,,ENST00000489858,;	T	ENSG00000115839	ENST00000442034	Transcript	stop_gained	746	736	246	Q/*	Cag/Tag	rs775490485	.	.	1	RAB3GAP1	HGNC	17063	protein_coding	YES	CCDS54402.1	ENSP00000411418	.	C9J837_HUMAN	UPI0000D4C196	.	.	.	8/25	.	hmmpanther:PTHR21422	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCAGCAA	.	4	BLCA
ZRANB3	0	.	GRCh37	2	136071137	136071137	+	Missense_Mutation	SNP	C	C	T	rs746409776	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888G>A	p.Met296Ile	p.M296I	ENST00000264159	8/21	136	106	30	80	80	0	ZRANB3,missense_variant,p.Met296Ile,ENST00000401392,;ZRANB3,missense_variant,p.Met296Ile,ENST00000536680,;ZRANB3,missense_variant,p.Met296Ile,ENST00000264159,;ZRANB3,non_coding_transcript_exon_variant,,ENST00000452187,;ZRANB3,missense_variant,p.Met296Ile,ENST00000403017,;	T	ENSG00000121988	ENST00000264159	Transcript	missense_variant	1005	888	296	M/I	atG/atA	rs746409776	.	.	-1	ZRANB3	HGNC	25249	protein_coding	YES	CCDS46419.1	ENSP00000264159	ZRAB3_HUMAN	.	UPI0000509F0C	.	deleterious(0.04)	benign(0.033)	8/21	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCATTAT	.	5	BLCA
LRP1B	0	.	GRCh37	2	141641528	141641528	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4027G>A	p.Asp1343Asn	p.D1343N	ENST00000389484	25/91	126	112	14	138	138	0	LRP1B,missense_variant,p.Asp1343Asn,ENST00000389484,;LRP1B,missense_variant,p.Asp488Asn,ENST00000434794,;	T	ENSG00000168702	ENST00000389484	Transcript	missense_variant	4999	4027	1343	D/N	Gac/Aac	.	.	.	-1	LRP1B	HGNC	6693	protein_coding	YES	CCDS2182.1	ENSP00000374135	LRP1B_HUMAN	Q8WY27_HUMAN,Q8WY26_HUMAN,Q580W7_HUMAN,Q53TB8_HUMAN,Q53S76_HUMAN,Q53S73_HUMAN,Q53S26_HUMAN,Q53RL0_HUMAN,Q53RG4_HUMAN,Q53RA0_HUMAN,Q53QP5_HUMAN,Q53QM8_HUMAN,Q4ZG53_HUMAN,Q4ZFV5_HUMAN	UPI00001B045B	.	.	benign(0.003)	25/91	.	PROSITE_profiles:PS51120,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF105,Gene3D:2.120.10.30,SMART_domains:SM00135,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGTCGACTG	.	4	BLCA
KIF5C	0	.	GRCh37	2	149840233	149840233	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1669G>C	p.Asp557His	p.D557H	ENST00000435030	15/26	43	36	7	47	47	0	KIF5C,missense_variant,p.Asp325His,ENST00000397413,;KIF5C,missense_variant,p.Asp557His,ENST00000435030,;KIF5C,missense_variant,p.Asp462His,ENST00000414838,;KIF5C,non_coding_transcript_exon_variant,,ENST00000464066,;KIF5C,non_coding_transcript_exon_variant,,ENST00000460377,;	C	ENSG00000168280	ENST00000435030	Transcript	missense_variant	2037	1669	557	D/H	Gat/Cat	.	.	.	1	KIF5C	HGNC	6325	protein_coding	YES	.	ENSP00000393379	KIF5C_HUMAN	Q9UFW7_HUMAN,Q57Z91_HUMAN,Q57YV6_HUMAN,Q57YV5_HUMAN,Q53QT4_HUMAN,C9JWB9_HUMAN	UPI000012DDB7	.	deleterious(0)	probably_damaging(0.992)	15/26	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF365	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAAAGATCTG	.	5	BLCA
CACNB4	0	.	GRCh37	2	152695610	152695610	+	3'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23C>T	.	.	ENST00000539935	14/14	41	34	6	31	31	0	CACNB4,3_prime_UTR_variant,,ENST00000534999,;CACNB4,3_prime_UTR_variant,,ENST00000427385,;CACNB4,3_prime_UTR_variant,,ENST00000397327,;CACNB4,3_prime_UTR_variant,,ENST00000360283,;CACNB4,3_prime_UTR_variant,,ENST00000539935,;CACNB4,3_prime_UTR_variant,,ENST00000439467,;CACNB4,downstream_gene_variant,,ENST00000201943,;	A	ENSG00000182389	ENST00000539935	Transcript	3_prime_UTR_variant	1654	.	.	.	.	.	.	.	-1	CACNB4	HGNC	1404	protein_coding	YES	CCDS46426.1	ENSP00000438949	CACB4_HUMAN	Q9NZA2_HUMAN,Q580I4_HUMAN,Q53S65_HUMAN	UPI0000208F1E	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGATGAATAT	.	4	BLCA
NR4A2	0	.	GRCh37	2	157184435	157184435	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1086G>A	p.%3D	p.V362V	ENST00000339562	5/8	10	6	4	15	15	0	NR4A2,synonymous_variant,p.%3D,ENST00000409108,;NR4A2,synonymous_variant,p.%3D,ENST00000429376,;NR4A2,synonymous_variant,p.%3D,ENST00000539077,;NR4A2,synonymous_variant,p.%3D,ENST00000406048,;NR4A2,synonymous_variant,p.%3D,ENST00000426264,;NR4A2,synonymous_variant,p.%3D,ENST00000409572,;NR4A2,synonymous_variant,p.%3D,ENST00000339562,;NR4A2,downstream_gene_variant,,ENST00000421709,;NR4A2,downstream_gene_variant,,ENST00000424077,;NR4A2,synonymous_variant,p.%3D,ENST00000417764,;NR4A2,synonymous_variant,p.%3D,ENST00000417972,;	T	ENSG00000153234	ENST00000339562	Transcript	synonymous_variant	1449	1086	362	V	gtG/gtA	.	.	.	-1	NR4A2	HGNC	7981	protein_coding	YES	CCDS2201.1	ENSP00000344479	NR4A2_HUMAN	Q6NXU0_HUMAN,F1D8N6_HUMAN,C9JWQ1_HUMAN,C9IYM5_HUMAN	UPI0000036A18	.	.	.	5/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24085,hmmpanther:PTHR24085:SF0,Gene3D:1.10.565.10,Superfamily_domains:SSF48508,Prints_domain:PR01284,Prints_domain:PR01287	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGACTCACCGG	.	3	BLCA
ACVR1	0	.	GRCh37	2	158637047	158637047	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133G>A	p.Glu45Lys	p.E45K	ENST00000263640	4/11	68	59	9	77	77	0	ACVR1,missense_variant,p.Glu45Lys,ENST00000434821,;ACVR1,missense_variant,p.Glu45Lys,ENST00000263640,;ACVR1,missense_variant,p.Glu45Lys,ENST00000409283,;ACVR1,missense_variant,p.Glu45Lys,ENST00000410057,;ACVR1,missense_variant,p.Glu45Lys,ENST00000424669,;ACVR1,missense_variant,p.Glu45Lys,ENST00000412025,;ACVR1,missense_variant,p.Glu45Lys,ENST00000539637,;ACVR1,missense_variant,p.Glu45Lys,ENST00000440523,;ACVR1,non_coding_transcript_exon_variant,,ENST00000487456,;	T	ENSG00000115170	ENST00000263640	Transcript	missense_variant	563	133	45	E/K	Gag/Aag	.	.	.	-1	ACVR1	HGNC	171	protein_coding	YES	CCDS2206.1	ENSP00000263640	ACVR1_HUMAN	D3DPA4_HUMAN,Q53SV1_HUMAN,Q53SF4_HUMAN,F5GY91_HUMAN,C9JW28_HUMAN,C9JHJ7_HUMAN,C9J1R3_HUMAN	UPI000000163F	.	tolerated(0.88)	benign(0.03)	4/11	.	Superfamily_domains:SSF57302,Pfam_domain:PF01064,Gene3D:2.10.60.10,hmmpanther:PTHR23255:SF56,hmmpanther:PTHR23255	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCCTCATTAC	.	4	BLCA
DPP4	0	.	GRCh37	2	162894854	162894854	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571G>A	p.Glu191Lys	p.E191K	ENST00000360534	8/26	163	133	29	126	126	0	DPP4,missense_variant,p.Glu191Lys,ENST00000360534,;DPP4,non_coding_transcript_exon_variant,,ENST00000497461,;DPP4,3_prime_UTR_variant,,ENST00000416189,;DPP4,3_prime_UTR_variant,,ENST00000434918,;DPP4,non_coding_transcript_exon_variant,,ENST00000490286,;DPP4,downstream_gene_variant,,ENST00000461836,;DPP4,downstream_gene_variant,,ENST00000413651,;	T	ENSG00000197635	ENST00000360534	Transcript	missense_variant	1132	571	191	E/K	Gaa/Aaa	.	.	.	-1	DPP4	HGNC	3009	protein_coding	YES	CCDS2216.1	ENSP00000353731	DPP4_HUMAN	.	UPI000004F7BF	.	tolerated(0.28)	benign(0.004)	8/26	.	hmmpanther:PTHR11731,hmmpanther:PTHR11731:SF93,Gene3D:2.140.10.30,Pfam_domain:PF00930,Superfamily_domains:SSF82171	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCTTTCC	.	5	BLCA
PXDN	0	.	GRCh37	2	1651941	1651941	+	Intron	SNP	C	C	T	rs769502289	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3608+3G>A	.	.	ENST00000252804	.	215	180	35	203	203	0	PXDN,splice_region_variant,,ENST00000252804,;PXDN,downstream_gene_variant,,ENST00000433670,;PXDN,downstream_gene_variant,,ENST00000465809,;PXDN,upstream_gene_variant,,ENST00000477093,;PXDN,intron_variant,,ENST00000478155,;PXDN,upstream_gene_variant,,ENST00000453308,;PXDN,downstream_gene_variant,,ENST00000493779,;	T	ENSG00000130508	ENST00000252804	Transcript	splice_region_variant	.	.	.	.	.	rs769502289	.	.	-1	PXDN	HGNC	14966	protein_coding	YES	CCDS46221.1	ENSP00000252804	PXDN_HUMAN	.	UPI00001C1DC2	.	.	.	.	17/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CAGCTCACCTT	.	3	BLCA
SCN3A	0	.	GRCh37	2	166019214	166019214	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.819G>A	p.%3D	p.L273L	ENST00000283254	8/28	103	87	16	95	95	0	SCN3A,synonymous_variant,p.%3D,ENST00000440431,;SCN3A,synonymous_variant,p.%3D,ENST00000360093,;SCN3A,synonymous_variant,p.%3D,ENST00000283254,;SCN3A,synonymous_variant,p.%3D,ENST00000409101,;SCN3A,downstream_gene_variant,,ENST00000453007,;	T	ENSG00000153253	ENST00000283254	Transcript	synonymous_variant	1287	819	273	L	ctG/ctA	.	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	.	.	8/28	.	hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Pfam_domain:PF00520	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCAGATT	.	4	BLCA
SCN3A	0	.	GRCh37	2	166019298	166019298	+	Missense_Mutation	SNP	C	C	G	rs750819244	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.735G>C	p.Lys245Asn	p.K245N	ENST00000283254	8/28	133	116	16	130	130	0	SCN3A,missense_variant,p.Lys245Asn,ENST00000440431,;SCN3A,missense_variant,p.Lys245Asn,ENST00000360093,;SCN3A,missense_variant,p.Lys245Asn,ENST00000283254,;SCN3A,missense_variant,p.Lys245Asn,ENST00000409101,;SCN3A,downstream_gene_variant,,ENST00000453007,;	G	ENSG00000153253	ENST00000283254	Transcript	missense_variant	1203	735	245	K/N	aaG/aaC	rs750819244,COSM4136512,COSM4136513	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	deleterious(0)	probably_damaging(0.985)	8/28	.	hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCTTCTTTAC	.	3	BLCA
SCN3A	0	.	GRCh37	2	166019331	166019331	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702G>C	p.Lys234Asn	p.K234N	ENST00000283254	8/28	112	97	15	127	127	0	SCN3A,missense_variant,p.Lys234Asn,ENST00000440431,;SCN3A,missense_variant,p.Lys234Asn,ENST00000360093,;SCN3A,missense_variant,p.Lys234Asn,ENST00000283254,;SCN3A,missense_variant,p.Lys234Asn,ENST00000409101,;SCN3A,downstream_gene_variant,,ENST00000453007,;	G	ENSG00000153253	ENST00000283254	Transcript	missense_variant	1170	702	234	K/N	aaG/aaC	.	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	deleterious(0.01)	probably_damaging(0.985)	8/28	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGGTCTTTAA	.	4	BLCA
SCN3A	0	.	GRCh37	2	166020343	166020343	+	Intron	SNP	C	C	G	rs373492562	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.603-124G>C	.	.	ENST00000283254	.	115	104	11	75	75	0	SCN3A,missense_variant,p.Leu221Phe,ENST00000360093,;SCN3A,missense_variant,p.Leu221Phe,ENST00000409101,;SCN3A,intron_variant,,ENST00000440431,;SCN3A,intron_variant,,ENST00000283254,;SCN3A,downstream_gene_variant,,ENST00000453007,;	G	ENSG00000153253	ENST00000283254	Transcript	intron_variant	.	.	.	.	.	rs373492562	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	.	.	.	6/27	.	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTCAAGAC	byCluster	4	BLCA
SCN2A	0	.	GRCh37	2	166198841	166198841	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2424C>G	p.%3D	p.L808L	ENST00000357398	15/27	107	96	11	92	92	0	SCN2A,synonymous_variant,p.%3D,ENST00000283256,;SCN2A,synonymous_variant,p.%3D,ENST00000375437,;SCN2A,synonymous_variant,p.%3D,ENST00000375427,;SCN2A,synonymous_variant,p.%3D,ENST00000357398,;SCN2A,non_coding_transcript_exon_variant,,ENST00000480032,;	G	ENSG00000136531	ENST00000357398	Transcript	synonymous_variant	2714	2424	808	L	ctC/ctG	.	.	.	1	SCN2A	HGNC	10588	protein_coding	YES	CCDS33313.1	ENSP00000349973	SCN2A_HUMAN	F8T7W7_HUMAN	UPI000002A663	.	.	.	15/27	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037:SF133,hmmpanther:PTHR10037,Pfam_domain:PF00520,Gene3D:1.20.120.350,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTCTCAAGAT	.	3	BLCA
SCN1A	0	.	GRCh37	2	166903421	166903421	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1236C>G	p.Phe412Leu	p.F412L	ENST00000303395	9/26	140	115	25	114	114	0	SCN1A,missense_variant,p.Phe412Leu,ENST00000409050,;SCN1A,missense_variant,p.Phe412Leu,ENST00000423058,;SCN1A,missense_variant,p.Phe412Leu,ENST00000303395,;SCN1A,missense_variant,p.Phe412Leu,ENST00000375405,;AC010127.3,intron_variant,,ENST00000595647,;AC010127.3,intron_variant,,ENST00000599041,;AC010127.3,intron_variant,,ENST00000595268,;	C	ENSG00000144285	ENST00000303395	Transcript	missense_variant	1236	1236	412	F/L	ttC/ttG	.	.	.	-1	SCN1A	HGNC	10585	protein_coding	YES	CCDS54413.1	ENSP00000303540	SCN1A_HUMAN	F8T7W7_HUMAN	UPI000003C71D	.	deleterious(0)	probably_damaging(0.994)	9/26	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF133,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTAGAATGA	.	5	BLCA
SCN9A	0	.	GRCh37	2	167163512	167163512	+	Missense_Mutation	SNP	G	G	A	rs748725716	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331C>T	p.Pro111Ser	p.P111S	ENST00000409672	3/27	23	17	6	29	29	0	SCN9A,missense_variant,p.Pro111Ser,ENST00000409672,;SCN9A,missense_variant,p.Pro111Ser,ENST00000375387,;SCN9A,missense_variant,p.Pro111Ser,ENST00000409435,;SCN9A,missense_variant,p.Pro111Ser,ENST00000303354,;SCN9A,upstream_gene_variant,,ENST00000452182,;SCN9A,upstream_gene_variant,,ENST00000454569,;SCN9A,upstream_gene_variant,,ENST00000472119,;	A	ENSG00000169432	ENST00000409672	Transcript	missense_variant	678	331	111	P/S	Cct/Tct	rs748725716,COSM3569265,COSM3569264	.	.	-1	SCN9A	HGNC	10597	protein_coding	YES	CCDS46441.1	ENSP00000386306	SCN9A_HUMAN	Q53QP0_HUMAN	UPI0000140AC7	.	deleterious(0.01)	probably_damaging(0.936)	3/27	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF28	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAAGGAGAAA	.	5	BLCA
LRP2	0	.	GRCh37	2	170066055	170066055	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6377G>C	p.Arg2126Thr	p.R2126T	ENST00000263816	38/79	97	79	18	76	76	0	LRP2,missense_variant,p.Arg2126Thr,ENST00000263816,;	G	ENSG00000081479	ENST00000263816	Transcript	missense_variant	6663	6377	2126	R/T	aGa/aCa	.	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	possibly_damaging(0.881)	38/79	.	PROSITE_profiles:PS51120,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF220,Gene3D:2.120.10.30,SMART_domains:SM00135,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A2123V|c.6368C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAATTCTACGG	.	5	BLCA
HOXD3	0	.	GRCh37	2	177036599	177036599	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.896C>T	p.Pro299Leu	p.P299L	ENST00000468418	4/4	36	27	8	25	25	0	HOXD3,missense_variant,p.Pro299Leu,ENST00000410016,;HOXD3,missense_variant,p.Pro299Leu,ENST00000249440,;HOXD3,missense_variant,p.Pro299Leu,ENST00000468418,;HOXD3,downstream_gene_variant,,ENST00000432796,;HOXD-AS1,downstream_gene_variant,,ENST00000417086,;HOXD-AS1,downstream_gene_variant,,ENST00000549329,;HOXD-AS1,downstream_gene_variant,,ENST00000447538,;HOXD-AS1,downstream_gene_variant,,ENST00000413969,;HOXD-AS1,downstream_gene_variant,,ENST00000416928,;HOXD-AS1,downstream_gene_variant,,ENST00000552156,;HOXD-AS1,downstream_gene_variant,,ENST00000547207,;HOXD-AS1,downstream_gene_variant,,ENST00000425005,;HOXD-AS1,downstream_gene_variant,,ENST00000436126,;HOXD-AS1,downstream_gene_variant,,ENST00000546798,;HOXD-AS1,downstream_gene_variant,,ENST00000456876,;HOXD-AS1,downstream_gene_variant,,ENST00000452365,;	T	ENSG00000128652	ENST00000468418	Transcript	missense_variant	2986	896	299	P/L	cCg/cTg	.	.	.	1	HOXD3	HGNC	5137	protein_coding	YES	CCDS2270.1	ENSP00000424734	HXD3_HUMAN	C9J1M3_HUMAN	UPI000013CC84	.	deleterious(0.01)	probably_damaging(0.913)	4/4	.	hmmpanther:PTHR24326:SF4,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCGCCGCCTG	.	5	BLCA
TTC30B	0	.	GRCh37	2	178416445	178416445	+	Missense_Mutation	SNP	C	C	G	rs769665633	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1047G>C	p.Leu349Phe	p.L349F	ENST00000408939	1/1	138	118	19	142	142	0	TTC30B,missense_variant,p.Leu349Phe,ENST00000408939,;	G	ENSG00000196659	ENST00000408939	Transcript	missense_variant	1298	1047	349	L/F	ttG/ttC	rs769665633	.	.	-1	TTC30B	HGNC	26425	protein_coding	YES	CCDS42784.1	ENSP00000386181	TT30B_HUMAN	.	UPI000013DE25	.	deleterious(0.02)	probably_damaging(0.91)	1/1	.	hmmpanther:PTHR20931,hmmpanther:PTHR20931:SF2,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAATCAAATG	.	4	BLCA
TTN	0	.	GRCh37	2	179412812	179412812	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93541G>A	p.Glu31181Lys	p.E31181K	ENST00000589042	339/363	165	134	31	152	152	0	TTN,missense_variant,p.Glu22241Lys,ENST00000359218,;TTN,missense_variant,p.Glu29540Lys,ENST00000591111,;TTN,missense_variant,p.Glu31181Lys,ENST00000589042,;TTN,missense_variant,p.Glu22308Lys,ENST00000342175,;TTN,missense_variant,p.Glu28613Lys,ENST00000342992,;TTN,missense_variant,p.Glu22116Lys,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;RP11-65L3.2,upstream_gene_variant,,ENST00000603415,;TTN-AS1,downstream_gene_variant,,ENST00000590040,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	93766	93541	31181	E/K	Gaa/Aaa	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	339/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATATTCAGTTT	.	4	BLCA
TTN	0	.	GRCh37	2	179422195	179422195	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.87794G>C	p.Gly29265Ala	p.G29265A	ENST00000589042	329/363	129	108	21	121	121	0	TTN,missense_variant,p.Gly20325Ala,ENST00000359218,;TTN,missense_variant,p.Gly27624Ala,ENST00000591111,;TTN,missense_variant,p.Gly29265Ala,ENST00000589042,;TTN,missense_variant,p.Gly20392Ala,ENST00000342175,;TTN,missense_variant,p.Gly26697Ala,ENST00000342992,;TTN,missense_variant,p.Gly20200Ala,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	88019	87794	29265	G/A	gGa/gCa	COSM3798265,COSM3798264,COSM3798261,COSM3798263,COSM3798262	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	329/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTCCATTT	.	4	BLCA
TTN	0	.	GRCh37	2	179433019	179433019	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.77840G>A	p.Arg25947Lys	p.R25947K	ENST00000589042	326/363	122	98	23	109	109	0	TTN,missense_variant,p.Arg17007Lys,ENST00000359218,;TTN,missense_variant,p.Arg24306Lys,ENST00000591111,;TTN,missense_variant,p.Arg25947Lys,ENST00000589042,;TTN,missense_variant,p.Arg17074Lys,ENST00000342175,;TTN,missense_variant,p.Arg23379Lys,ENST00000342992,;TTN,missense_variant,p.Arg16882Lys,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	78065	77840	25947	R/K	aGa/aAa	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTCTAGCA	.	5	BLCA
TTN	0	.	GRCh37	2	179445025	179445025	+	Intron	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67057+24C>T	.	.	ENST00000589042	.	155	136	19	124	124	0	TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000589042,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000342992,;TTN,intron_variant,,ENST00000460472,;RP11-171I2.2,non_coding_transcript_exon_variant,,ENST00000603521,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;TTN-AS1,upstream_gene_variant,,ENST00000590743,;RP11-171I2.5,downstream_gene_variant,,ENST00000604215,;TTN-AS1,upstream_gene_variant,,ENST00000589907,;	A	ENSG00000155657	ENST00000589042	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	.	317/362	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATATGATTCT	.	4	BLCA
TTN	0	.	GRCh37	2	179480470	179480470	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48358G>C	p.Val16120Leu	p.V16120L	ENST00000589042	258/363	97	84	12	98	98	0	TTN,missense_variant,p.Val7180Leu,ENST00000359218,;TTN,missense_variant,p.Val14479Leu,ENST00000591111,;TTN,missense_variant,p.Val16120Leu,ENST00000589042,;TTN,missense_variant,p.Val13552Leu,ENST00000342992,;TTN,missense_variant,p.Val7247Leu,ENST00000342175,;TTN,missense_variant,p.Val7055Leu,ENST00000460472,;RP11-171I2.4,upstream_gene_variant,,ENST00000605334,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000589234,;TTN-AS1,upstream_gene_variant,,ENST00000604956,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	48583	48358	16120	V/L	Gtt/Ctt	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	258/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGAACAAGAT	.	4	BLCA
TTN	0	.	GRCh37	2	179481234	179481234	+	Missense_Mutation	SNP	C	C	G	rs369453963	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48284G>C	p.Arg16095Pro	p.R16095P	ENST00000589042	257/363	147	134	13	131	131	0	TTN,missense_variant,p.Arg7155Pro,ENST00000359218,;TTN,missense_variant,p.Arg14454Pro,ENST00000591111,;TTN,missense_variant,p.Arg16095Pro,ENST00000589042,;TTN,missense_variant,p.Arg13527Pro,ENST00000342992,;TTN,missense_variant,p.Arg7222Pro,ENST00000342175,;TTN,missense_variant,p.Arg7030Pro,ENST00000460472,;RP11-171I2.4,upstream_gene_variant,,ENST00000605334,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000589234,;TTN-AS1,upstream_gene_variant,,ENST00000604956,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	48509	48284	16095	R/P	cGa/cCa	rs369453963	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	257/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	T:0.0003	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTCTCGTTTT	byFrequency|byCluster	3	BLCA
TTN	0	.	GRCh37	2	179579878	179579878	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.26035G>C	p.Asp8679His	p.D8679H	ENST00000589042	90/363	225	184	41	232	231	0	TTN,missense_variant,p.Asp7435His,ENST00000342992,;TTN,missense_variant,p.Asp8679His,ENST00000589042,;TTN,missense_variant,p.Asp8362His,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,downstream_gene_variant,,ENST00000592630,;TTN-AS1,downstream_gene_variant,,ENST00000431752,;TTN-AS1,downstream_gene_variant,,ENST00000589830,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	26260	26035	8679	D/H	Gac/Cac	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	90/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00406,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGTCTTTAT	.	4	BLCA
TTN	0	.	GRCh37	2	179592954	179592954	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19597G>C	p.Glu6533Gln	p.E6533Q	ENST00000589042	67/363	66	52	14	51	51	0	TTN,missense_variant,p.Glu5289Gln,ENST00000342992,;TTN,missense_variant,p.Glu6533Gln,ENST00000589042,;TTN,missense_variant,p.Glu6216Gln,ENST00000591111,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,upstream_gene_variant,,ENST00000582847,;RP11-171I2.1,downstream_gene_variant,,ENST00000590024,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	19822	19597	6533	E/Q	Gag/Cag	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	67/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00406,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCATGGC	.	5	BLCA
TTN	0	.	GRCh37	2	179612313	179612313	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11311+5538G>A	.	.	ENST00000589042	.	127	112	15	95	95	0	TTN,missense_variant,p.Met4938Ile,ENST00000360870,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000342992,;TTN,intron_variant,,ENST00000589042,;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000590773,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000578746,;TTN-AS1,downstream_gene_variant,,ENST00000582847,;	T	ENSG00000155657	ENST00000589042	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	.	47/362	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTCCATTGA	.	4	BLCA
NCKAP1	0	.	GRCh37	2	183817958	183817958	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2273C>G	p.Ser758Ter	p.S758*	ENST00000360982	22/32	95	77	18	85	85	0	NCKAP1,stop_gained,p.Ser758Ter,ENST00000360982,;NCKAP1,stop_gained,p.Ser752Ter,ENST00000361354,;NCKAP1,downstream_gene_variant,,ENST00000493359,;NCKAP1,downstream_gene_variant,,ENST00000495619,;	C	ENSG00000061676	ENST00000360982	Transcript	stop_gained	3032	2273	758	S/*	tCa/tGa	.	.	.	-1	NCKAP1	HGNC	7666	protein_coding	YES	CCDS2288.1	ENSP00000354251	NCKP1_HUMAN	.	UPI00001693F2	.	.	.	22/32	.	Pfam_domain:PF09735,hmmpanther:PTHR12093,hmmpanther:PTHR12093:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATTGACTGG	.	5	BLCA
DUSP19	0	.	GRCh37	2	183948270	183948270	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261G>A	p.%3D	p.L87L	ENST00000354221	2/4	69	60	9	49	49	0	DUSP19,synonymous_variant,p.%3D,ENST00000342619,;DUSP19,synonymous_variant,p.%3D,ENST00000354221,;AC064871.3,splice_region_variant,,ENST00000444562,;DUSP19,non_coding_transcript_exon_variant,,ENST00000469344,;	A	ENSG00000162999	ENST00000354221	Transcript	synonymous_variant	436	261	87	L	ctG/ctA	.	.	.	1	DUSP19	HGNC	18894	protein_coding	YES	CCDS2289.1	ENSP00000346160	DUS19_HUMAN	.	UPI000000D7B9	.	.	.	2/4	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159,hmmpanther:PTHR10159:SF302,Pfam_domain:PF00782,Gene3D:3.90.190.10,SMART_domains:SM00195,Superfamily_domains:SSF52799,Prints_domain:PR01908	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACACTGAAAAA	.	3	BLCA
COL5A2	0	.	GRCh37	2	189904098	189904098	+	Silent	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3825C>G	p.%3D	p.L1275L	ENST00000374866	51/54	84	71	12	72	72	0	COL5A2,synonymous_variant,p.%3D,ENST00000374866,;	C	ENSG00000204262	ENST00000374866	Transcript	synonymous_variant	4100	3825	1275	L	ctC/ctG	COSM396524	.	.	-1	COL5A2	HGNC	2210	protein_coding	YES	CCDS33350.1	ENSP00000364000	CO5A2_HUMAN	D3DPH5_HUMAN	UPI00006C511C	.	.	.	51/54	.	SMART_domains:SM00038,Gene3D:3.90.215.10,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF481,PROSITE_profiles:PS51461	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACTGAGTGA	.	5	BLCA
GTF3C3	0	.	GRCh37	2	197643678	197643678	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332C>T	p.%3D	p.L444L	ENST00000263956	10/18	73	66	7	79	79	0	GTF3C3,synonymous_variant,p.%3D,ENST00000263956,;GTF3C3,synonymous_variant,p.%3D,ENST00000448087,;GTF3C3,upstream_gene_variant,,ENST00000435252,;GTF3C3,upstream_gene_variant,,ENST00000416690,;GTF3C3,downstream_gene_variant,,ENST00000409364,;GTF3C3,downstream_gene_variant,,ENST00000466862,;	A	ENSG00000119041	ENST00000263956	Transcript	synonymous_variant	1422	1332	444	L	ctC/ctT	.	.	.	-1	GTF3C3	HGNC	4666	protein_coding	YES	CCDS2316.1	ENSP00000263956	TF3C3_HUMAN	.	UPI0000070C01	.	.	.	10/18	.	PROSITE_profiles:PS50005,PROSITE_profiles:PS50293,hmmpanther:PTHR23082,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCACTGAGGAG	.	3	BLCA
PLCL1	0	.	GRCh37	2	198968662	198968662	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3105+2T>C	.	p.X1035_splice	ENST00000428675	.	32	24	8	25	25	0	PLCL1,splice_donor_variant,,ENST00000487695,;PLCL1,splice_donor_variant,,ENST00000428675,;PLCL1,splice_donor_variant,,ENST00000437704,;PLCL1,splice_donor_variant,,ENST00000435320,;	C	ENSG00000115896	ENST00000428675	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	PLCL1	HGNC	9063	protein_coding	YES	CCDS2326.2	ENSP00000402861	PLCL1_HUMAN	.	UPI000165BCF5	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GAAGGTAGATG	.	4	BLCA
SATB2	0	.	GRCh37	2	200136881	200136881	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*53C>G	.	.	ENST00000417098	11/11	52	41	11	55	55	0	SATB2,3_prime_UTR_variant,,ENST00000260926,;SATB2,3_prime_UTR_variant,,ENST00000428695,;SATB2,3_prime_UTR_variant,,ENST00000443023,;SATB2,3_prime_UTR_variant,,ENST00000417098,;SATB2,3_prime_UTR_variant,,ENST00000457245,;	C	ENSG00000119042	ENST00000417098	Transcript	3_prime_UTR_variant	3072	.	.	.	.	.	.	.	-1	SATB2	HGNC	21637	protein_coding	YES	CCDS2327.1	ENSP00000401112	SATB2_HUMAN	Q59FT3_HUMAN	UPI00000336B1	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATGAAAGC	.	5	BLCA
WDR35	0	.	GRCh37	2	20138060	20138060	+	Missense_Mutation	SNP	G	G	C	rs775076264	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2062C>G	p.Gln688Glu	p.Q688E	ENST00000345530	19/28	154	127	27	118	118	0	WDR35,missense_variant,p.Gln253Glu,ENST00000416055,;WDR35,missense_variant,p.Gln688Glu,ENST00000345530,;WDR35,missense_variant,p.Gln677Glu,ENST00000281405,;WDR35,missense_variant,p.Gln223Glu,ENST00000453014,;WDR35,missense_variant,p.Gln688Glu,ENST00000414212,;WDR35,3_prime_UTR_variant,,ENST00000445063,;	C	ENSG00000118965	ENST00000345530	Transcript	missense_variant	2178	2062	688	Q/E	Cag/Gag	rs775076264,COSM3798488	.	.	-1	WDR35	HGNC	29250	protein_coding	YES	CCDS33152.1	ENSP00000314444	WDR35_HUMAN	.	UPI000034E5D3	.	tolerated(0.28)	benign(0.063)	19/28	.	hmmpanther:PTHR16517:SF1,hmmpanther:PTHR16517,PIRSF_domain:PIRSF037536	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTGAGATG	.	4	BLCA
ALS2	0	.	GRCh37	2	202625889	202625889	+	Silent	SNP	G	G	C	rs748243739	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.828C>G	p.%3D	p.L276L	ENST00000264276	4/34	108	90	18	73	73	0	ALS2,synonymous_variant,p.%3D,ENST00000467448,;ALS2,synonymous_variant,p.%3D,ENST00000264276,;ALS2,downstream_gene_variant,,ENST00000409632,;ALS2,downstream_gene_variant,,ENST00000410052,;ALS2,downstream_gene_variant,,ENST00000462747,;ALS2,downstream_gene_variant,,ENST00000496244,;ALS2,non_coding_transcript_exon_variant,,ENST00000482891,;ALS2,non_coding_transcript_exon_variant,,ENST00000482789,;AC007279.2,upstream_gene_variant,,ENST00000448547,;	C	ENSG00000003393	ENST00000264276	Transcript	synonymous_variant	1201	828	276	L	ctC/ctG	rs748243739	.	.	-1	ALS2	HGNC	443	protein_coding	YES	CCDS42800.1	ENSP00000264276	ALS2_HUMAN	J3KQ43_HUMAN,J3KQ33_HUMAN,A8K4R4_HUMAN	UPI0000231C77	.	.	.	4/34	.	hmmpanther:PTHR22870,hmmpanther:PTHR22870:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAGAGC	.	5	BLCA
ICA1L	0	.	GRCh37	2	203676481	203676481	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.898G>C	p.Glu300Gln	p.E300Q	ENST00000392237	10/14	162	150	12	130	130	0	ICA1L,missense_variant,p.Glu300Gln,ENST00000392237,;ICA1L,missense_variant,p.Glu300Gln,ENST00000358299,;ICA1L,intron_variant,,ENST00000420558,;ICA1L,missense_variant,p.Glu300Gln,ENST00000438804,;ICA1L,downstream_gene_variant,,ENST00000494560,;	G	ENSG00000163596	ENST00000392237	Transcript	missense_variant	1056	898	300	E/Q	Gag/Cag	.	.	.	-1	ICA1L	HGNC	14442	protein_coding	YES	CCDS2354.1	ENSP00000376070	ICA1L_HUMAN	C9JRB6_HUMAN,C9JP49_HUMAN,C9JEP0_HUMAN,C9JEN4_HUMAN,C9JDM8_HUMAN,C9JDK6_HUMAN,C9JAQ4_HUMAN,C9J9Z8_HUMAN,C9J5Z0_HUMAN,C9J1M7_HUMAN	UPI000007263F	.	tolerated(0.19)	benign(0.309)	10/14	.	hmmpanther:PTHR10164,hmmpanther:PTHR10164:SF2,Pfam_domain:PF04629	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCTCAAAGC	.	2	BLCA
ZDBF2	0	.	GRCh37	2	207170834	207170834	+	Missense_Mutation	SNP	G	G	C	rs371415978	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1582G>C	p.Asp528His	p.D528H	ENST00000374423	5/5	63	55	8	64	64	0	ZDBF2,missense_variant,p.Asp528His,ENST00000374423,;	C	ENSG00000204186	ENST00000374423	Transcript	missense_variant	1968	1582	528	D/H	Gat/Cat	rs371415978	.	.	1	ZDBF2	HGNC	29313	protein_coding	YES	CCDS46501.1	ENSP00000363545	ZDBF2_HUMAN	N0DVB2_HUMAN	UPI000022BDE3	.	deleterious(0)	probably_damaging(0.969)	5/5	.	hmmpanther:PTHR21639:SF2,hmmpanther:PTHR21639	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTTGATAAG	byCluster	4	BLCA
KLF7	0	.	GRCh37	2	207988724	207988724	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507G>A	p.%3D	p.K169K	ENST00000309446	2/4	95	82	13	91	91	0	KLF7,synonymous_variant,p.%3D,ENST00000309446,;KLF7,synonymous_variant,p.%3D,ENST00000421199,;KLF7,synonymous_variant,p.%3D,ENST00000423015,;KLF7,synonymous_variant,p.%3D,ENST00000412414,;KLF7,synonymous_variant,p.%3D,ENST00000435602,;KLF7,intron_variant,,ENST00000458272,;KLF7,downstream_gene_variant,,ENST00000426163,;KLF7,downstream_gene_variant,,ENST00000457962,;KLF7-IT1,upstream_gene_variant,,ENST00000428777,;KLF7,intron_variant,,ENST00000467833,;KLF7,downstream_gene_variant,,ENST00000451244,;	T	ENSG00000118263	ENST00000309446	Transcript	synonymous_variant	884	507	169	K	aaG/aaA	.	.	.	-1	KLF7	HGNC	6350	protein_coding	YES	CCDS2373.1	ENSP00000309570	KLF7_HUMAN	Q53TP3_HUMAN,Q4ZG79_HUMAN,E7EUU0_HUMAN,E7EQY2_HUMAN	UPI0000042958	.	.	.	2/4	.	hmmpanther:PTHR23223:SF2,hmmpanther:PTHR23223	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTTCTTGGC	.	4	BLCA
MAP2	0	.	GRCh37	2	210559835	210559835	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2941G>A	p.Glu981Lys	p.E981K	ENST00000360351	7/15	77	71	6	59	59	0	MAP2,missense_variant,p.Glu977Lys,ENST00000447185,;MAP2,missense_variant,p.Glu981Lys,ENST00000360351,;MAP2,intron_variant,,ENST00000361559,;MAP2,intron_variant,,ENST00000199940,;MAP2,intron_variant,,ENST00000392194,;MAP2,intron_variant,,ENST00000452717,;MAP2,downstream_gene_variant,,ENST00000445941,;MAP2,intron_variant,,ENST00000482864,;MAP2,intron_variant,,ENST00000471619,;MAP2,downstream_gene_variant,,ENST00000461253,;MAP2,downstream_gene_variant,,ENST00000481649,;MAP2,upstream_gene_variant,,ENST00000475600,;	A	ENSG00000078018	ENST00000360351	Transcript	missense_variant	3447	2941	981	E/K	Gaa/Aaa	.	.	.	1	MAP2	HGNC	6839	protein_coding	YES	CCDS2384.1	ENSP00000353508	MTAP2_HUMAN	A8MZ31_HUMAN	UPI000013D119	.	deleterious_low_confidence(0.02)	benign(0.41)	7/15	.	hmmpanther:PTHR11501:SF15,hmmpanther:PTHR11501,Pfam_domain:PF08377	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACTGAAGAG	.	2	BLCA
MAP2	0	.	GRCh37	2	210595046	210595046	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5409C>T	p.%3D	p.I1803I	ENST00000360351	15/15	61	55	5	45	45	0	MAP2,synonymous_variant,p.%3D,ENST00000360351,;MAP2,synonymous_variant,p.%3D,ENST00000447185,;MAP2,synonymous_variant,p.%3D,ENST00000199940,;MAP2,synonymous_variant,p.%3D,ENST00000392194,;MAP2,synonymous_variant,p.%3D,ENST00000361559,;MAP2,downstream_gene_variant,,ENST00000475600,;	T	ENSG00000078018	ENST00000360351	Transcript	synonymous_variant	5915	5409	1803	I	atC/atT	.	.	.	1	MAP2	HGNC	6839	protein_coding	YES	CCDS2384.1	ENSP00000353508	MTAP2_HUMAN	A8MZ31_HUMAN	UPI000013D119	.	.	.	15/15	.	hmmpanther:PTHR11501:SF15,hmmpanther:PTHR11501	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCATCAACCT	.	3	BLCA
FN1	0	.	GRCh37	2	216274360	216274360	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2225C>T	p.Ser742Leu	p.S742L	ENST00000354785	15/46	60	42	18	40	40	0	FN1,missense_variant,p.Ser742Leu,ENST00000357867,;FN1,missense_variant,p.Ser742Leu,ENST00000432072,;FN1,missense_variant,p.Ser742Leu,ENST00000421182,;FN1,missense_variant,p.Ser742Leu,ENST00000443816,;FN1,missense_variant,p.Ser742Leu,ENST00000346544,;FN1,missense_variant,p.Ser742Leu,ENST00000345488,;FN1,missense_variant,p.Ser742Leu,ENST00000354785,;FN1,missense_variant,p.Ser742Leu,ENST00000336916,;FN1,missense_variant,p.Ser742Leu,ENST00000359671,;FN1,missense_variant,p.Ser742Leu,ENST00000357009,;FN1,missense_variant,p.Ser742Leu,ENST00000446046,;FN1,missense_variant,p.Ser742Leu,ENST00000323926,;FN1,missense_variant,p.Ser742Leu,ENST00000356005,;FN1,non_coding_transcript_exon_variant,,ENST00000471193,;	A	ENSG00000115414	ENST00000354785	Transcript	missense_variant	2595	2225	742	S/L	tCa/tTa	.	.	.	-1	FN1	HGNC	3778	protein_coding	YES	CCDS42814.1	ENSP00000346839	FINC_HUMAN	Q9H382_HUMAN,Q7L553_HUMAN,Q53S27_HUMAN,A6YID6_HUMAN	UPI0000E5A2B5	.	deleterious(0)	probably_damaging(0.999)	15/46	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50853,hmmpanther:PTHR19143:SF187,hmmpanther:PTHR19143,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAGACC	.	5	BLCA
FN1	0	.	GRCh37	2	216286816	216286816	+	Missense_Mutation	SNP	C	C	G	rs376696206	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1544G>C	p.Arg515Pro	p.R515P	ENST00000354785	10/46	123	104	19	93	93	0	FN1,missense_variant,p.Arg515Pro,ENST00000357867,;FN1,missense_variant,p.Arg515Pro,ENST00000432072,;FN1,missense_variant,p.Arg515Pro,ENST00000421182,;FN1,missense_variant,p.Arg515Pro,ENST00000443816,;FN1,missense_variant,p.Arg515Pro,ENST00000346544,;FN1,missense_variant,p.Arg515Pro,ENST00000345488,;FN1,missense_variant,p.Arg515Pro,ENST00000354785,;FN1,missense_variant,p.Arg515Pro,ENST00000426059,;FN1,missense_variant,p.Arg515Pro,ENST00000336916,;FN1,missense_variant,p.Arg515Pro,ENST00000359671,;FN1,missense_variant,p.Arg515Pro,ENST00000357009,;FN1,missense_variant,p.Arg515Pro,ENST00000446046,;FN1,missense_variant,p.Arg515Pro,ENST00000323926,;FN1,missense_variant,p.Arg515Pro,ENST00000356005,;FN1,upstream_gene_variant,,ENST00000496542,;	G	ENSG00000115414	ENST00000354785	Transcript	missense_variant	1914	1544	515	R/P	cGa/cCa	rs376696206	.	.	-1	FN1	HGNC	3778	protein_coding	YES	CCDS42814.1	ENSP00000346839	FINC_HUMAN	Q9H382_HUMAN,Q7L553_HUMAN,Q53S27_HUMAN,A6YID6_HUMAN	UPI0000E5A2B5	.	deleterious(0)	probably_damaging(0.999)	10/46	.	hmmpanther:PTHR19143:SF187,hmmpanther:PTHR19143,Superfamily_domains:SSF57603	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCGAAGC	byFrequency|byCluster	4	BLCA
PNKD	0	.	GRCh37	2	219137570	219137570	+	Intron	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.236+1298G>A	.	.	ENST00000273077	.	31	26	5	25	25	0	PNKD,3_prime_UTR_variant,,ENST00000248451,;PNKD,intron_variant,,ENST00000273077,;TMBIM1,downstream_gene_variant,,ENST00000444881,;TMBIM1,downstream_gene_variant,,ENST00000396809,;TMBIM1,downstream_gene_variant,,ENST00000258412,;AAMP,upstream_gene_variant,,ENST00000420660,;TMBIM1,downstream_gene_variant,,ENST00000445635,;AAMP,upstream_gene_variant,,ENST00000444053,;AAMP,upstream_gene_variant,,ENST00000248450,;AAMP,upstream_gene_variant,,ENST00000447885,;PNKD,intron_variant,,ENST00000472650,;PNKD,non_coding_transcript_exon_variant,,ENST00000469689,;AAMP,upstream_gene_variant,,ENST00000475678,;TMBIM1,downstream_gene_variant,,ENST00000439306,;TMBIM1,downstream_gene_variant,,ENST00000492966,;AAMP,upstream_gene_variant,,ENST00000461911,;AAMP,upstream_gene_variant,,ENST00000489767,;TMBIM1,downstream_gene_variant,,ENST00000465082,;TMBIM1,downstream_gene_variant,,ENST00000437694,;	A	ENSG00000127838	ENST00000273077	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	PNKD	HGNC	9153	protein_coding	YES	CCDS2411.1	ENSP00000273077	PNKD_HUMAN	.	UPI0000246C7E	.	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCAGAGGGC	.	4	BLCA
RNF25	0	.	GRCh37	2	219530894	219530894	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>T	p.%3D	p.L139L	ENST00000295704	6/10	37	31	5	30	30	0	RNF25,synonymous_variant,p.%3D,ENST00000295704,;BCS1L,downstream_gene_variant,,ENST00000423377,;BCS1L,downstream_gene_variant,,ENST00000412366,;BCS1L,downstream_gene_variant,,ENST00000430322,;BCS1L,downstream_gene_variant,,ENST00000443791,;BCS1L,downstream_gene_variant,,ENST00000426649,;BCS1L,downstream_gene_variant,,ENST00000456050,;BCS1L,downstream_gene_variant,,ENST00000439945,;BCS1L,downstream_gene_variant,,ENST00000392109,;BCS1L,downstream_gene_variant,,ENST00000359273,;BCS1L,downstream_gene_variant,,ENST00000428880,;BCS1L,downstream_gene_variant,,ENST00000392111,;BCS1L,downstream_gene_variant,,ENST00000436603,;BCS1L,downstream_gene_variant,,ENST00000392110,;BCS1L,downstream_gene_variant,,ENST00000431802,;BCS1L,downstream_gene_variant,,ENST00000465706,;RNF25,missense_variant,p.Ser125Phe,ENST00000423170,;RNF25,non_coding_transcript_exon_variant,,ENST00000497832,;RNF25,non_coding_transcript_exon_variant,,ENST00000473034,;RNF25,non_coding_transcript_exon_variant,,ENST00000463188,;RNF25,upstream_gene_variant,,ENST00000474339,;BCS1L,downstream_gene_variant,,ENST00000493376,;BCS1L,downstream_gene_variant,,ENST00000477422,;BCS1L,downstream_gene_variant,,ENST00000471576,;BCS1L,downstream_gene_variant,,ENST00000460579,;	A	ENSG00000163481	ENST00000295704	Transcript	synonymous_variant	858	417	139	L	ctC/ctT	.	.	.	-1	RNF25	HGNC	14662	protein_coding	YES	CCDS2420.1	ENSP00000295704	RNF25_HUMAN	.	UPI000013431F	.	.	.	6/10	.	PROSITE_profiles:PS50089,hmmpanther:PTHR13198,Pfam_domain:PF13639,Gene3D:3.30.40.10,SMART_domains:SM00184,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATAGAGGCA	.	4	BLCA
RNF25	0	.	GRCh37	2	219532820	219532820	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269C>T	p.Ser90Leu	p.S90L	ENST00000295704	4/10	488	426	61	406	406	0	RNF25,missense_variant,p.Ser90Leu,ENST00000295704,;STK36,upstream_gene_variant,,ENST00000392105,;STK36,upstream_gene_variant,,ENST00000424080,;BCS1L,downstream_gene_variant,,ENST00000412366,;STK36,upstream_gene_variant,,ENST00000440309,;BCS1L,downstream_gene_variant,,ENST00000426649,;BCS1L,downstream_gene_variant,,ENST00000439945,;BCS1L,downstream_gene_variant,,ENST00000392109,;BCS1L,downstream_gene_variant,,ENST00000359273,;BCS1L,downstream_gene_variant,,ENST00000392111,;BCS1L,downstream_gene_variant,,ENST00000436603,;BCS1L,downstream_gene_variant,,ENST00000392110,;STK36,upstream_gene_variant,,ENST00000295709,;BCS1L,downstream_gene_variant,,ENST00000431802,;STK36,upstream_gene_variant,,ENST00000455724,;STK36,upstream_gene_variant,,ENST00000392106,;BCS1L,downstream_gene_variant,,ENST00000465706,;RNF25,stop_gained,p.Gln76Ter,ENST00000423170,;RNF25,non_coding_transcript_exon_variant,,ENST00000497832,;RNF25,non_coding_transcript_exon_variant,,ENST00000473034,;RNF25,non_coding_transcript_exon_variant,,ENST00000463188,;RNF25,upstream_gene_variant,,ENST00000474339,;STK36,upstream_gene_variant,,ENST00000473557,;BCS1L,downstream_gene_variant,,ENST00000477422,;BCS1L,downstream_gene_variant,,ENST00000460579,;STK36,upstream_gene_variant,,ENST00000468026,;	A	ENSG00000163481	ENST00000295704	Transcript	missense_variant	710	269	90	S/L	tCa/tTa	.	.	.	-1	RNF25	HGNC	14662	protein_coding	YES	CCDS2420.1	ENSP00000295704	RNF25_HUMAN	.	UPI000013431F	.	deleterious(0)	probably_damaging(1)	4/10	.	PROSITE_profiles:PS50908,hmmpanther:PTHR13198,Gene3D:3.10.110.10,Pfam_domain:PF05773,SMART_domains:SM00591,Superfamily_domains:SSF54495	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CATCTGAAAGT	.	3	BLCA
RNF25	0	.	GRCh37	2	219532840	219532840	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249C>G	p.Ile83Met	p.I83M	ENST00000295704	4/10	442	380	62	390	390	0	RNF25,missense_variant,p.Ile83Met,ENST00000295704,;STK36,upstream_gene_variant,,ENST00000392105,;STK36,upstream_gene_variant,,ENST00000424080,;BCS1L,downstream_gene_variant,,ENST00000412366,;STK36,upstream_gene_variant,,ENST00000440309,;BCS1L,downstream_gene_variant,,ENST00000426649,;BCS1L,downstream_gene_variant,,ENST00000439945,;BCS1L,downstream_gene_variant,,ENST00000392109,;BCS1L,downstream_gene_variant,,ENST00000359273,;BCS1L,downstream_gene_variant,,ENST00000392111,;BCS1L,downstream_gene_variant,,ENST00000436603,;BCS1L,downstream_gene_variant,,ENST00000392110,;STK36,upstream_gene_variant,,ENST00000295709,;BCS1L,downstream_gene_variant,,ENST00000431802,;STK36,upstream_gene_variant,,ENST00000455724,;STK36,upstream_gene_variant,,ENST00000392106,;BCS1L,downstream_gene_variant,,ENST00000465706,;RNF25,missense_variant,p.Ser69Cys,ENST00000423170,;RNF25,non_coding_transcript_exon_variant,,ENST00000497832,;RNF25,non_coding_transcript_exon_variant,,ENST00000473034,;RNF25,non_coding_transcript_exon_variant,,ENST00000463188,;RNF25,upstream_gene_variant,,ENST00000474339,;STK36,upstream_gene_variant,,ENST00000473557,;BCS1L,downstream_gene_variant,,ENST00000477422,;BCS1L,downstream_gene_variant,,ENST00000460579,;STK36,upstream_gene_variant,,ENST00000468026,;	C	ENSG00000163481	ENST00000295704	Transcript	missense_variant	690	249	83	I/M	atC/atG	.	.	.	-1	RNF25	HGNC	14662	protein_coding	YES	CCDS2420.1	ENSP00000295704	RNF25_HUMAN	.	UPI000013431F	.	deleterious(0)	probably_damaging(0.96)	4/10	.	PROSITE_profiles:PS50908,hmmpanther:PTHR13198,Gene3D:3.10.110.10,Pfam_domain:PF05773,SMART_domains:SM00591,Superfamily_domains:SSF54495	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTCGGATAGA	.	3	BLCA
RNF25	0	.	GRCh37	2	219532976	219532976	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205C>T	p.Gln69Ter	p.Q69*	ENST00000295704	3/10	112	97	14	92	92	0	RNF25,stop_gained,p.Gln69Ter,ENST00000295704,;STK36,upstream_gene_variant,,ENST00000392105,;STK36,upstream_gene_variant,,ENST00000424080,;BCS1L,downstream_gene_variant,,ENST00000412366,;STK36,upstream_gene_variant,,ENST00000440309,;BCS1L,downstream_gene_variant,,ENST00000426649,;BCS1L,downstream_gene_variant,,ENST00000439945,;BCS1L,downstream_gene_variant,,ENST00000392109,;BCS1L,downstream_gene_variant,,ENST00000359273,;BCS1L,downstream_gene_variant,,ENST00000392111,;BCS1L,downstream_gene_variant,,ENST00000436603,;BCS1L,downstream_gene_variant,,ENST00000392110,;STK36,upstream_gene_variant,,ENST00000295709,;BCS1L,downstream_gene_variant,,ENST00000431802,;STK36,upstream_gene_variant,,ENST00000455724,;STK36,upstream_gene_variant,,ENST00000392106,;BCS1L,downstream_gene_variant,,ENST00000465706,;RNF25,non_coding_transcript_exon_variant,,ENST00000473034,;RNF25,non_coding_transcript_exon_variant,,ENST00000463188,;RNF25,intron_variant,,ENST00000423170,;RNF25,upstream_gene_variant,,ENST00000474339,;STK36,upstream_gene_variant,,ENST00000473557,;BCS1L,downstream_gene_variant,,ENST00000477422,;RNF25,upstream_gene_variant,,ENST00000497832,;BCS1L,downstream_gene_variant,,ENST00000460579,;STK36,upstream_gene_variant,,ENST00000468026,;	A	ENSG00000163481	ENST00000295704	Transcript	stop_gained	646	205	69	Q/*	Cag/Tag	COSM1306431	.	.	-1	RNF25	HGNC	14662	protein_coding	YES	CCDS2420.1	ENSP00000295704	RNF25_HUMAN	.	UPI000013431F	.	.	.	3/10	.	PROSITE_profiles:PS50908,hmmpanther:PTHR13198,Gene3D:3.10.110.10,Pfam_domain:PF05773,SMART_domains:SM00591,Superfamily_domains:SSF54495	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACCTGAAGCA	.	3	BLCA
STK36	0	.	GRCh37	2	219561852	219561852	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2677G>A	p.Glu893Lys	p.E893K	ENST00000295709	23/27	246	213	32	226	226	0	STK36,missense_variant,p.Glu872Lys,ENST00000392105,;STK36,missense_variant,p.Glu893Lys,ENST00000440309,;STK36,missense_variant,p.Glu893Lys,ENST00000295709,;STK36,missense_variant,p.Glu872Lys,ENST00000392106,;STK36,missense_variant,p.Glu56Lys,ENST00000419433,;STK36,non_coding_transcript_exon_variant,,ENST00000486644,;STK36,non_coding_transcript_exon_variant,,ENST00000462031,;STK36,downstream_gene_variant,,ENST00000473681,;STK36,downstream_gene_variant,,ENST00000492486,;STK36,downstream_gene_variant,,ENST00000480709,;	A	ENSG00000163482	ENST00000295709	Transcript	missense_variant	2956	2677	893	E/K	Gag/Aag	COSM1016474	.	.	1	STK36	HGNC	17209	protein_coding	YES	CCDS2421.1	ENSP00000295709	STK36_HUMAN	C9JDA4_HUMAN,C9J1B8_HUMAN	UPI00000342FC	.	tolerated(0.78)	benign(0.003)	23/27	.	hmmpanther:PTHR22983:SF6,hmmpanther:PTHR22983	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCCGAGGAG	.	4	BLCA
PTPRN	0	.	GRCh37	2	220166950	220166950	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903C>T	p.%3D	p.S301S	ENST00000295718	6/23	57	49	7	50	50	0	PTPRN,synonymous_variant,p.%3D,ENST00000409251,;PTPRN,synonymous_variant,p.%3D,ENST00000423636,;PTPRN,synonymous_variant,p.%3D,ENST00000295718,;PTPRN,downstream_gene_variant,,ENST00000442029,;PTPRN,downstream_gene_variant,,ENST00000412847,;PTPRN,downstream_gene_variant,,ENST00000451506,;PTPRN,downstream_gene_variant,,ENST00000440552,;PTPRN,downstream_gene_variant,,ENST00000446182,;AC114803.3,intron_variant,,ENST00000417355,;PTPRN,downstream_gene_variant,,ENST00000468454,;PTPRN,non_coding_transcript_exon_variant,,ENST00000462351,;PTPRN,downstream_gene_variant,,ENST00000606213,;PTPRN,downstream_gene_variant,,ENST00000476930,;PTPRN,upstream_gene_variant,,ENST00000486480,;PTPRN,upstream_gene_variant,,ENST00000489650,;	A	ENSG00000054356	ENST00000295718	Transcript	synonymous_variant	1144	903	301	S	agC/agT	.	.	.	-1	PTPRN	HGNC	9676	protein_coding	YES	CCDS2440.1	ENSP00000295718	PTPRN_HUMAN	Q96IA0_HUMAN,Q7KZS4_HUMAN,C9JJL7_HUMAN,C9JCQ0_HUMAN,C9J392_HUMAN	UPI0000132999	.	.	.	6/23	.	hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTGCTCCC	.	4	BLCA
SPHKAP	0	.	GRCh37	2	228883636	228883636	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1934G>A	p.Arg645Lys	p.R645K	ENST00000392056	7/12	128	109	19	94	94	0	SPHKAP,missense_variant,p.Arg645Lys,ENST00000344657,;SPHKAP,missense_variant,p.Arg645Lys,ENST00000392056,;	T	ENSG00000153820	ENST00000392056	Transcript	missense_variant	1981	1934	645	R/K	aGg/aAg	.	.	.	-1	SPHKAP	HGNC	30619	protein_coding	YES	CCDS46537.1	ENSP00000375909	SPKAP_HUMAN	.	UPI0000411D7E	.	tolerated(1)	benign(0.003)	7/12	.	hmmpanther:PTHR10226,hmmpanther:PTHR10226:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTCCTGTTC	.	4	BLCA
SPHKAP	0	.	GRCh37	2	228890180	228890180	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.371A>G	p.Lys124Arg	p.K124R	ENST00000392056	5/12	90	78	12	100	100	0	SPHKAP,missense_variant,p.Lys124Arg,ENST00000344657,;SPHKAP,missense_variant,p.Lys124Arg,ENST00000392056,;	C	ENSG00000153820	ENST00000392056	Transcript	missense_variant	418	371	124	K/R	aAa/aGa	.	.	.	-1	SPHKAP	HGNC	30619	protein_coding	YES	CCDS46537.1	ENSP00000375909	SPKAP_HUMAN	.	UPI0000411D7E	.	tolerated(0.07)	probably_damaging(0.999)	5/12	.	hmmpanther:PTHR10226,hmmpanther:PTHR10226:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTCTTTTGGT	.	3	BLCA
SPHKAP	0	.	GRCh37	2	228890211	228890211	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340C>G	p.Leu114Val	p.L114V	ENST00000392056	5/12	114	97	17	96	96	0	SPHKAP,missense_variant,p.Leu114Val,ENST00000344657,;SPHKAP,missense_variant,p.Leu114Val,ENST00000392056,;	C	ENSG00000153820	ENST00000392056	Transcript	missense_variant	387	340	114	L/V	Ctt/Gtt	.	.	.	-1	SPHKAP	HGNC	30619	protein_coding	YES	CCDS46537.1	ENSP00000375909	SPKAP_HUMAN	.	UPI0000411D7E	.	deleterious(0)	possibly_damaging(0.783)	5/12	.	hmmpanther:PTHR10226,hmmpanther:PTHR10226:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATAAGTTTTG	.	4	BLCA
INPP5D	0	.	GRCh37	2	234106777	234106777	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2694C>T	p.%3D	p.I898I	ENST00000359570	27/29	34	28	6	25	25	0	INPP5D,synonymous_variant,p.%3D,ENST00000445964,;INPP5D,synonymous_variant,p.%3D,ENST00000415617,;INPP5D,synonymous_variant,p.%3D,ENST00000455936,;INPP5D,synonymous_variant,p.%3D,ENST00000450745,;INPP5D,synonymous_variant,p.%3D,ENST00000417661,;INPP5D,synonymous_variant,p.%3D,ENST00000359570,;INPP5D,synonymous_variant,p.%3D,ENST00000435188,;	T	ENSG00000168918	ENST00000359570	Transcript	synonymous_variant	2694	2694	898	I	atC/atT	COSM3579221	.	.	1	INPP5D	HGNC	6079	protein_coding	YES	.	ENSP00000352575	SHIP1_HUMAN	H0Y5Q9_HUMAN,C9JF09_HUMAN	UPI0002065B89	.	.	.	27/29	.	hmmpanther:PTHR11200,hmmpanther:PTHR11200:SF69	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAATCATCAA	.	4	BLCA
USP40	0	.	GRCh37	2	234436214	234436214	+	Missense_Mutation	SNP	C	C	G	rs754640028	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1597G>C	p.Asp533His	p.D533H	ENST00000450966	12/31	37	21	15	28	28	0	USP40,missense_variant,p.Asp521His,ENST00000251722,;USP40,missense_variant,p.Asp521His,ENST00000427112,;USP40,missense_variant,p.Asp533His,ENST00000450966,;USP40,upstream_gene_variant,,ENST00000452724,;USP40,non_coding_transcript_exon_variant,,ENST00000485943,;	G	ENSG00000085982	ENST00000450966	Transcript	missense_variant	1597	1597	533	D/H	Gat/Cat	rs754640028	.	.	-1	USP40	HGNC	20069	protein_coding	YES	CCDS46547.1	ENSP00000415434	UBP40_HUMAN	.	UPI0000232F06	.	deleterious(0)	probably_damaging(0.979)	12/31	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24006:SF423,hmmpanther:PTHR24006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATCACATT	.	5	BLCA
UGT1A3	0	.	GRCh37	2	234637770	234637770	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3G>A	.	.	ENST00000482026	1/5	88	71	16	47	47	0	UGT1A3,5_prime_UTR_variant,,ENST00000482026,;UGT1A10,intron_variant,,ENST00000373445,;UGT1A4,intron_variant,,ENST00000373409,;UGT1A6,intron_variant,,ENST00000305139,;UGT1A6,intron_variant,,ENST00000373424,;UGT1A8,intron_variant,,ENST00000608381,;UGT1A7,intron_variant,,ENST00000373426,;UGT1A8,intron_variant,,ENST00000609637,;UGT1A5,intron_variant,,ENST00000373414,;UGT1A6,intron_variant,,ENST00000406651,;UGT1A10,intron_variant,,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;UGT1A9,intron_variant,,ENST00000354728,;UGT1A8,upstream_gene_variant,,ENST00000609767,;UGT1A6,intron_variant,,ENST00000480628,;UGT1A6,intron_variant,,ENST00000478062,;UGT1A6,intron_variant,,ENST00000446481,;UGT1A4,intron_variant,,ENST00000450233,;UGT1A6,intron_variant,,ENST00000484784,;	A	ENSG00000243135	ENST00000482026	Transcript	5_prime_UTR_variant	17	.	.	.	.	.	.	.	1	UGT1A3	HGNC	12535	protein_coding	YES	CCDS2509.1	ENSP00000418532	UD13_HUMAN	Q8WX91_HUMAN,A9UKC8_HUMAN,A7E1U5_HUMAN,Q5DT01_HUMAN	UPI0000001045	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGATG	.	4	BLCA
COL6A3	0	.	GRCh37	2	238285641	238285641	+	Silent	SNP	G	G	C	rs567151556	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2844C>G	p.%3D	p.V948V	ENST00000295550	7/44	102	90	11	89	89	0	COL6A3,synonymous_variant,p.%3D,ENST00000392003,;COL6A3,synonymous_variant,p.%3D,ENST00000472056,;COL6A3,synonymous_variant,p.%3D,ENST00000409809,;COL6A3,synonymous_variant,p.%3D,ENST00000295550,;COL6A3,synonymous_variant,p.%3D,ENST00000347401,;COL6A3,synonymous_variant,p.%3D,ENST00000346358,;COL6A3,synonymous_variant,p.%3D,ENST00000353578,;COL6A3,synonymous_variant,p.%3D,ENST00000392004,;COL6A3,downstream_gene_variant,,ENST00000433762,;	C	ENSG00000163359	ENST00000295550	Transcript	synonymous_variant	3297	2844	948	V	gtC/gtG	rs567151556	.	.	-1	COL6A3	HGNC	2213	protein_coding	YES	CCDS33412.1	ENSP00000295550	CO6A3_HUMAN	Q8N4Z1_HUMAN,D9ZGF2_HUMAN	UPI0000456F39	.	.	.	7/44	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22992,hmmpanther:PTHR22992:SF83,Pfam_domain:PF00092,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGCGACCAG	byFrequency|byCluster	4	BLCA
MTERFD2	0	.	GRCh37	2	242038916	242038916	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415G>A	p.Glu139Lys	p.E139K	ENST00000391980	2/4	197	168	29	145	145	0	MTERFD2,missense_variant,p.Glu139Lys,ENST00000407095,;MTERFD2,missense_variant,p.Glu118Lys,ENST00000434791,;MTERFD2,missense_variant,p.Glu132Lys,ENST00000424798,;MTERFD2,missense_variant,p.Glu139Lys,ENST00000495694,;MTERFD2,missense_variant,p.Glu139Lys,ENST00000401626,;MTERFD2,missense_variant,p.Glu139Lys,ENST00000391980,;MTERFD2,intron_variant,,ENST00000439144,;MTERFD2,intron_variant,,ENST00000406593,;SNED1,downstream_gene_variant,,ENST00000405547,;MTERFD2,upstream_gene_variant,,ENST00000414146,;SNED1,downstream_gene_variant,,ENST00000310397,;MTERFD2,intron_variant,,ENST00000480298,;MTERFD2,intron_variant,,ENST00000455202,;MTERFD2,intron_variant,,ENST00000464344,;MTERFD2,intron_variant,,ENST00000493169,;MTERFD2,upstream_gene_variant,,ENST00000488567,;MTERFD2,missense_variant,p.Glu139Lys,ENST00000241527,;MTERFD2,non_coding_transcript_exon_variant,,ENST00000475860,;MTERFD2,intron_variant,,ENST00000460915,;MTERFD2,intron_variant,,ENST00000476564,;MTERFD2,upstream_gene_variant,,ENST00000496878,;	T	ENSG00000122085	ENST00000391980	Transcript	missense_variant	474	415	139	E/K	Gag/Aag	.	.	.	-1	MTERFD2	HGNC	28785	protein_coding	YES	CCDS2544.1	ENSP00000375840	MTER2_HUMAN	C9JX74_HUMAN,B4DFP7_HUMAN	UPI0000209875	.	tolerated(0.09)	possibly_damaging(0.609)	2/4	.	hmmpanther:PTHR13068,hmmpanther:PTHR13068:SF11,Pfam_domain:PF02536	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCTGGAT	.	4	BLCA
MTERFD2	0	.	GRCh37	2	242039121	242039121	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210G>C	p.Arg70Ser	p.R70S	ENST00000391980	2/4	93	77	16	85	85	0	MTERFD2,missense_variant,p.Arg70Ser,ENST00000407095,;MTERFD2,missense_variant,p.Arg49Ser,ENST00000434791,;MTERFD2,missense_variant,p.Arg63Ser,ENST00000424798,;MTERFD2,missense_variant,p.Arg70Ser,ENST00000495694,;MTERFD2,missense_variant,p.Arg70Ser,ENST00000401626,;MTERFD2,missense_variant,p.Arg70Ser,ENST00000391980,;MTERFD2,intron_variant,,ENST00000439144,;MTERFD2,intron_variant,,ENST00000406593,;SNED1,downstream_gene_variant,,ENST00000405547,;MTERFD2,upstream_gene_variant,,ENST00000414146,;SNED1,downstream_gene_variant,,ENST00000310397,;MTERFD2,intron_variant,,ENST00000480298,;MTERFD2,intron_variant,,ENST00000455202,;MTERFD2,intron_variant,,ENST00000464344,;MTERFD2,intron_variant,,ENST00000493169,;MTERFD2,upstream_gene_variant,,ENST00000488567,;MTERFD2,missense_variant,p.Arg70Ser,ENST00000241527,;MTERFD2,non_coding_transcript_exon_variant,,ENST00000475860,;MTERFD2,intron_variant,,ENST00000460915,;MTERFD2,intron_variant,,ENST00000476564,;MTERFD2,upstream_gene_variant,,ENST00000496878,;	G	ENSG00000122085	ENST00000391980	Transcript	missense_variant	269	210	70	R/S	agG/agC	.	.	.	-1	MTERFD2	HGNC	28785	protein_coding	YES	CCDS2544.1	ENSP00000375840	MTER2_HUMAN	C9JX74_HUMAN,B4DFP7_HUMAN	UPI0000209875	.	tolerated(0.17)	benign(0.077)	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCCTGCA	.	5	BLCA
PASK	0	.	GRCh37	2	242072387	242072387	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1365G>C	p.%3D	p.R455R	ENST00000358649	9/18	83	75	8	63	63	0	PASK,synonymous_variant,p.%3D,ENST00000405260,;PASK,synonymous_variant,p.%3D,ENST00000358649,;PASK,synonymous_variant,p.%3D,ENST00000403638,;PASK,synonymous_variant,p.%3D,ENST00000544142,;PASK,synonymous_variant,p.%3D,ENST00000539818,;PASK,synonymous_variant,p.%3D,ENST00000234040,;PASK,downstream_gene_variant,,ENST00000415234,;PASK,downstream_gene_variant,,ENST00000433589,;PASK,non_coding_transcript_exon_variant,,ENST00000493544,;PASK,downstream_gene_variant,,ENST00000437780,;	G	ENSG00000115687	ENST00000358649	Transcript	synonymous_variant	1429	1365	455	R	cgG/cgC	.	.	.	-1	PASK	HGNC	17270	protein_coding	YES	CCDS58759.1	ENSP00000351475	PASK_HUMAN	Q14148_HUMAN,C9J4R3_HUMAN,C9J1Z3_HUMAN	UPI0000456F4C	.	.	.	9/18	.	hmmpanther:PTHR22971:SF2,hmmpanther:PTHR22971	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCTTCCGGAT	.	3	BLCA
HDLBP	0	.	GRCh37	2	242203922	242203922	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>C	p.Glu59Gln	p.E59Q	ENST00000391975	4/28	190	157	32	171	171	0	HDLBP,missense_variant,p.Glu59Gln,ENST00000310931,;HDLBP,missense_variant,p.Glu95Gln,ENST00000427183,;HDLBP,missense_variant,p.Glu59Gln,ENST00000420451,;HDLBP,missense_variant,p.Glu59Gln,ENST00000425989,;HDLBP,missense_variant,p.Glu59Gln,ENST00000430918,;HDLBP,missense_variant,p.Glu59Gln,ENST00000391976,;HDLBP,missense_variant,p.Glu59Gln,ENST00000441124,;HDLBP,missense_variant,p.Glu59Gln,ENST00000444092,;HDLBP,missense_variant,p.Glu59Gln,ENST00000426343,;HDLBP,missense_variant,p.Glu59Gln,ENST00000452065,;HDLBP,missense_variant,p.Glu59Gln,ENST00000422933,;HDLBP,missense_variant,p.Glu59Gln,ENST00000428482,;HDLBP,missense_variant,p.Glu59Gln,ENST00000413241,;HDLBP,missense_variant,p.Glu59Gln,ENST00000442714,;HDLBP,missense_variant,p.Glu59Gln,ENST00000391975,;HDLBP,missense_variant,p.Arg17Ser,ENST00000449864,;HDLBP,missense_variant,p.Glu59Gln,ENST00000423693,;HDLBP,upstream_gene_variant,,ENST00000373292,;HDLBP,downstream_gene_variant,,ENST00000449504,;HDLBP,downstream_gene_variant,,ENST00000427007,;HDLBP,downstream_gene_variant,,ENST00000417540,;HDLBP,upstream_gene_variant,,ENST00000453141,;HDLBP,downstream_gene_variant,,ENST00000458564,;HDLBP,downstream_gene_variant,,ENST00000422080,;HDLBP,downstream_gene_variant,,ENST00000496569,;HDLBP,downstream_gene_variant,,ENST00000490697,;HDLBP,downstream_gene_variant,,ENST00000462130,;	G	ENSG00000115677	ENST00000391975	Transcript	missense_variant	403	175	59	E/Q	Gaa/Caa	.	.	.	-1	HDLBP	HGNC	4857	protein_coding	YES	CCDS2547.1	ENSP00000375836	VIGLN_HUMAN	Q96CF6_HUMAN,C9JZI8_HUMAN,C9JT62_HUMAN,C9JQ82_HUMAN,C9JMQ6_HUMAN,C9JKQ5_HUMAN,C9JIZ1_HUMAN,C9JHZ8_HUMAN,C9JHS7_HUMAN,C9JHN6_HUMAN,C9JES8_HUMAN,C9JEJ8_HUMAN,C9JBS3_HUMAN,C9J5E5_HUMAN	UPI00001AEF85	.	tolerated(0.43)	benign(0.017)	4/28	.	hmmpanther:PTHR10627:SF34,hmmpanther:PTHR10627	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCCTGGG	.	5	BLCA
NEU4	0	.	GRCh37	2	242755694	242755694	+	Missense_Mutation	SNP	C	C	T	rs376890171	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52C>T	p.Arg18Cys	p.R18C	ENST00000325935	2/4	28	24	4	33	33	0	NEU4,missense_variant,p.Arg5Cys,ENST00000407683,;NEU4,missense_variant,p.Arg18Cys,ENST00000325935,;NEU4,missense_variant,p.Arg5Cys,ENST00000391969,;NEU4,missense_variant,p.Arg44Cys,ENST00000435934,;NEU4,missense_variant,p.Arg5Cys,ENST00000415936,;NEU4,missense_variant,p.Arg5Cys,ENST00000405370,;NEU4,missense_variant,p.Arg46Cys,ENST00000428592,;NEU4,missense_variant,p.Arg5Cys,ENST00000435894,;NEU4,missense_variant,p.Arg5Cys,ENST00000420288,;NEU4,missense_variant,p.Arg17Cys,ENST00000404257,;NEU4,missense_variant,p.Arg5Cys,ENST00000423583,;NEU4,missense_variant,p.Arg17Cys,ENST00000426032,;AC114730.3,upstream_gene_variant,,ENST00000420272,;AC114730.3,upstream_gene_variant,,ENST00000413820,;AC114730.3,upstream_gene_variant,,ENST00000439270,;NEU4,missense_variant,p.Arg5Cys,ENST00000435855,;NEU4,non_coding_transcript_exon_variant,,ENST00000488997,;NEU4,non_coding_transcript_exon_variant,,ENST00000406147,;NEU4,non_coding_transcript_exon_variant,,ENST00000476542,;NEU4,downstream_gene_variant,,ENST00000494678,;	T	ENSG00000204099	ENST00000325935	Transcript	missense_variant	481	52	18	R/C	Cgt/Tgt	rs376890171,COSM3783424	.	.	1	NEU4	HGNC	21328	protein_coding	YES	CCDS54441.1	ENSP00000320318	NEUR4_HUMAN	C9JRN9_HUMAN,C9J5X2_HUMAN,C9J2V4_HUMAN,B3KR54_HUMAN	UPI0000EE378E	.	tolerated(0.05)	possibly_damaging(0.854)	2/4	.	hmmpanther:PTHR10628:SF8,hmmpanther:PTHR10628	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCCCTCGTACC	byFrequency|byCluster	3	BLCA
ASXL2	0	.	GRCh37	2	25972727	25972727	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1698C>G	p.%3D	p.L566L	ENST00000435504	12/13	143	133	10	121	121	0	ASXL2,synonymous_variant,p.%3D,ENST00000272341,;ASXL2,synonymous_variant,p.%3D,ENST00000336112,;ASXL2,synonymous_variant,p.%3D,ENST00000404843,;ASXL2,synonymous_variant,p.%3D,ENST00000435504,;	C	ENSG00000143970	ENST00000435504	Transcript	synonymous_variant	1992	1698	566	L	ctC/ctG	.	.	.	-1	ASXL2	HGNC	23805	protein_coding	YES	.	ENSP00000391447	ASXL2_HUMAN	.	UPI00001DFBE8	.	.	.	12/13	.	hmmpanther:PTHR13578:SF11,hmmpanther:PTHR13578	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTGAGGCT	.	2	BLCA
ASXL2	0	.	GRCh37	2	25972943	25972943	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1482C>T	p.%3D	p.V494V	ENST00000435504	12/13	180	159	21	150	150	0	ASXL2,synonymous_variant,p.%3D,ENST00000272341,;ASXL2,synonymous_variant,p.%3D,ENST00000336112,;ASXL2,synonymous_variant,p.%3D,ENST00000404843,;ASXL2,synonymous_variant,p.%3D,ENST00000435504,;	A	ENSG00000143970	ENST00000435504	Transcript	synonymous_variant	1776	1482	494	V	gtC/gtT	.	.	.	-1	ASXL2	HGNC	23805	protein_coding	YES	.	ENSP00000391447	ASXL2_HUMAN	.	UPI00001DFBE8	.	.	.	12/13	.	hmmpanther:PTHR13578:SF11,hmmpanther:PTHR13578	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGTGACTGG	.	4	BLCA
ASXL2	0	.	GRCh37	2	25991658	25991658	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.584C>T	p.Ser195Leu	p.S195L	ENST00000435504	7/13	179	155	24	151	151	0	ASXL2,missense_variant,p.Ser167Leu,ENST00000336112,;ASXL2,missense_variant,p.Ser195Leu,ENST00000435504,;ASXL2,5_prime_UTR_variant,,ENST00000272341,;ASXL2,5_prime_UTR_variant,,ENST00000404843,;ASXL2,non_coding_transcript_exon_variant,,ENST00000497092,;	A	ENSG00000143970	ENST00000435504	Transcript	missense_variant	878	584	195	S/L	tCa/tTa	.	.	.	-1	ASXL2	HGNC	23805	protein_coding	YES	.	ENSP00000391447	ASXL2_HUMAN	.	UPI00001DFBE8	.	tolerated(1)	benign(0.003)	7/13	.	hmmpanther:PTHR13578:SF11,hmmpanther:PTHR13578	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAGTGAGAGA	.	4	BLCA
IFT172	0	.	GRCh37	2	27680610	27680610	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3124G>A	p.Glu1042Lys	p.E1042K	ENST00000260570	29/48	62	50	12	35	35	0	IFT172,missense_variant,p.Glu1042Lys,ENST00000260570,;IFT172,upstream_gene_variant,,ENST00000443889,;IFT172,non_coding_transcript_exon_variant,,ENST00000507184,;IFT172,upstream_gene_variant,,ENST00000450564,;IFT172,upstream_gene_variant,,ENST00000509128,;IFT172,upstream_gene_variant,,ENST00000475909,;IFT172,downstream_gene_variant,,ENST00000476693,;AC074117.13,downstream_gene_variant,,ENST00000417130,;	T	ENSG00000138002	ENST00000260570	Transcript	missense_variant	3228	3124	1042	E/K	Gaa/Aaa	.	.	.	-1	IFT172	HGNC	30391	protein_coding	YES	CCDS1755.1	ENSP00000260570	IF172_HUMAN	H7C161_HUMAN	UPI0000353ABB	.	tolerated(0.19)	benign(0.06)	29/48	.	hmmpanther:PTHR15722,hmmpanther:PTHR15722:SF2,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCAGCCT	.	5	BLCA
CRIM1	0	.	GRCh37	2	36583686	36583686	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251G>C	p.Cys84Ser	p.C84S	ENST00000280527	1/17	72	63	9	59	59	0	CRIM1,missense_variant,p.Cys84Ser,ENST00000280527,;CRIM1,missense_variant,p.Cys25Ser,ENST00000428774,;CRIM1,missense_variant,p.Cys34Ser,ENST00000426856,;RP11-490M8.1,upstream_gene_variant,,ENST00000565283,;	C	ENSG00000150938	ENST00000280527	Transcript	missense_variant	618	251	84	C/S	tGc/tCc	.	.	.	1	CRIM1	HGNC	2359	protein_coding	YES	CCDS1783.1	ENSP00000280527	CRIM1_HUMAN	Q53TR0_HUMAN,Q53TH9_HUMAN,Q4ZG85_HUMAN,B4DUW0_HUMAN	UPI000004C628	.	deleterious(0)	possibly_damaging(0.478)	1/17	.	PROSITE_profiles:PS51323,SMART_domains:SM00121,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTGCGACC	.	4	BLCA
PRKD3	0	.	GRCh37	2	37487426	37487426	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1986G>C	p.Met662Ile	p.M662I	ENST00000379066	15/19	100	83	17	72	72	0	PRKD3,missense_variant,p.Met662Ile,ENST00000234179,;PRKD3,missense_variant,p.Met662Ile,ENST00000379066,;PRKD3,intron_variant,,ENST00000452104,;PRKD3,downstream_gene_variant,,ENST00000443977,;PRKD3,non_coding_transcript_exon_variant,,ENST00000469275,;	G	ENSG00000115825	ENST00000379066	Transcript	missense_variant	2749	1986	662	M/I	atG/atC	.	.	.	-1	PRKD3	HGNC	9408	protein_coding	YES	CCDS1789.1	ENSP00000368356	KPCD3_HUMAN	C9JKP8_HUMAN	UPI0000035B4D	.	deleterious(0)	possibly_damaging(0.896)	15/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22968,hmmpanther:PTHR22968:SF11,Pfam_domain:PF00069,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000552,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATCATTTC	.	5	BLCA
ATL2	0	.	GRCh37	2	38536543	38536543	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1049G>C	p.Arg350Thr	p.R350T	ENST00000378954	9/13	81	67	14	64	64	0	ATL2,missense_variant,p.Arg332Thr,ENST00000332337,;ATL2,missense_variant,p.Arg350Thr,ENST00000419554,;ATL2,missense_variant,p.Arg179Thr,ENST00000539122,;ATL2,missense_variant,p.Arg179Thr,ENST00000402054,;ATL2,missense_variant,p.Arg332Thr,ENST00000452935,;ATL2,missense_variant,p.Arg179Thr,ENST00000406122,;ATL2,missense_variant,p.Arg168Thr,ENST00000449130,;ATL2,missense_variant,p.Arg350Thr,ENST00000378954,;ATL2,missense_variant,p.Arg179Thr,ENST00000546051,;ATL2,downstream_gene_variant,,ENST00000443098,;ATL2,3_prime_UTR_variant,,ENST00000405384,;	G	ENSG00000119787	ENST00000378954	Transcript	missense_variant	1051	1049	350	R/T	aGa/aCa	COSM224191	.	.	-1	ATL2	HGNC	24047	protein_coding	YES	CCDS46260.1	ENSP00000368237	ATLA2_HUMAN	B7ZA64_HUMAN	UPI00001B00A2	.	deleterious(0)	possibly_damaging(0.46)	9/13	.	Superfamily_domains:0037397,Pfam_domain:PF02841,Gene3D:1f5nA01,hmmpanther:PTHR10751:SF42,hmmpanther:PTHR10751	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCTACAA	.	5	BLCA
EML4	0	.	GRCh37	2	42522291	42522291	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1245G>A	p.%3D	p.V415V	ENST00000318522	12/23	100	75	24	75	75	0	EML4,synonymous_variant,p.%3D,ENST00000401738,;EML4,synonymous_variant,p.%3D,ENST00000318522,;EML4,synonymous_variant,p.%3D,ENST00000402711,;EML4,non_coding_transcript_exon_variant,,ENST00000406175,;	A	ENSG00000143924	ENST00000318522	Transcript	synonymous_variant	1507	1245	415	V	gtG/gtA	.	.	.	1	EML4	HGNC	1316	protein_coding	YES	CCDS1807.1	ENSP00000320663	EMAL4_HUMAN	F2Z2B5_HUMAN	UPI0000140350	.	.	.	12/23	.	hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF11,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V412A|c.1235T>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTGGAGTT	.	5	BLCA
PPM1B	0	.	GRCh37	2	44457614	44457614	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1197G>A	p.Met399Ile	p.M399I	ENST00000282412	6/6	107	87	19	99	99	0	PPM1B,missense_variant,p.Met399Ile,ENST00000282412,;PPM1B,missense_variant,p.Met112Ile,ENST00000345249,;PPM1B,3_prime_UTR_variant,,ENST00000409432,;PPM1B,intron_variant,,ENST00000378551,;PPM1B,intron_variant,,ENST00000459690,;PPM1B,intron_variant,,ENST00000378540,;PPM1B,intron_variant,,ENST00000487286,;	A	ENSG00000138032	ENST00000282412	Transcript	missense_variant	1609	1197	399	M/I	atG/atA	.	.	.	1	PPM1B	HGNC	9276	protein_coding	YES	CCDS1817.1	ENSP00000282412	PPM1B_HUMAN	C9JIR6_HUMAN	UPI0000130FE7	.	tolerated_low_confidence(0.4)	benign(0)	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAATGAGAAT	.	5	BLCA
EPCAM	0	.	GRCh37	2	47612302	47612302	+	Intron	SNP	C	C	G	rs201314303	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859-3C>G	.	.	ENST00000263735	.	280	245	35	217	217	0	EPCAM,splice_region_variant,,ENST00000405271,;EPCAM,splice_region_variant,,ENST00000263735,;EPCAM,splice_region_variant,,ENST00000456133,;EPCAM,splice_region_variant,,ENST00000490733,;	G	ENSG00000119888	ENST00000263735	Transcript	splice_region_variant	.	.	.	.	.	rs201314303	.	.	1	EPCAM	HGNC	11529	protein_coding	YES	CCDS1833.1	ENSP00000263735	EPCAM_HUMAN	.	UPI000013D450	.	.	.	.	7/8	.	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CCACTCAGGTT	byCluster	3	BLCA
MSH2	0	.	GRCh37	2	47639622	47639622	+	Nonsense_Mutation	SNP	C	C	T	rs63750488	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.715C>T	p.Gln239Ter	p.Q239*	ENST00000233146	4/16	54	47	6	45	45	0	MSH2,stop_gained,p.Gln239Ter,ENST00000406134,;MSH2,stop_gained,p.Gln239Ter,ENST00000233146,;MSH2,stop_gained,p.Gln173Ter,ENST00000543555,;MSH2,downstream_gene_variant,,ENST00000454849,;	T	ENSG00000095002	ENST00000233146	Transcript	stop_gained	938	715	239	Q/*	Cag/Tag	rs63750488,CM033922,MMR_c.715C>T	.	.	1	MSH2	HGNC	7325	protein_coding	YES	CCDS1834.1	ENSP00000233146	MSH2_HUMAN	Q53RU4_HUMAN,C9J809_HUMAN,B4DL39_HUMAN	UPI00000405F6	.	.	.	4/16	.	hmmpanther:PTHR11361,hmmpanther:PTHR11361:SF35,Pfam_domain:PF05188,Gene3D:3.30.420.110,PIRSF_domain:PIRSF005813	.	.	.	.	.	.	.	.	.	pathogenic	.	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,0	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTATCAGGAC	.	4	BLCA
XPO1	0	.	GRCh37	2	61708412	61708412	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2977C>G	p.Gln993Glu	p.Q993E	ENST00000401558	24/25	62	57	5	41	41	0	XPO1,missense_variant,p.Gln993Glu,ENST00000404992,;XPO1,missense_variant,p.Gln993Glu,ENST00000401558,;XPO1,missense_variant,p.Gln993Glu,ENST00000406957,;RP11-355B11.2,intron_variant,,ENST00000603652,;RP11-355B11.2,intron_variant,,ENST00000578974,;RP11-355B11.2,intron_variant,,ENST00000603028,;RP11-355B11.2,downstream_gene_variant,,ENST00000603199,;RP11-355B11.2,upstream_gene_variant,,ENST00000605437,;XPO1,downstream_gene_variant,,ENST00000494468,;XPO1,3_prime_UTR_variant,,ENST00000428210,;XPO1,non_coding_transcript_exon_variant,,ENST00000481073,;XPO1,downstream_gene_variant,,ENST00000492182,;XPO1,downstream_gene_variant,,ENST00000461407,;	C	ENSG00000082898	ENST00000401558	Transcript	missense_variant	3705	2977	993	Q/E	Caa/Gaa	.	.	.	-1	XPO1	HGNC	12825	protein_coding	YES	CCDS33205.1	ENSP00000384863	XPO1_HUMAN	C9JV99_HUMAN,C9JQ02_HUMAN,C9JKM9_HUMAN,C9JF49_HUMAN,C9J673_HUMAN,C9IZS4_HUMAN,C9IYM2_HUMAN,B7ZB16_HUMAN,B3KWD0_HUMAN	UPI0000001C23	.	tolerated(0.12)	probably_damaging(0.953)	24/25	.	hmmpanther:PTHR11223,Pfam_domain:PF08767,Gene3D:1.25.10.10,SMART_domains:SM01102,Superfamily_domains:SSF48371,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACTTGAGCAC	.	2	BLCA
FAM161A	0	.	GRCh37	2	62069260	62069260	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.419C>T	p.Ser140Phe	p.S140F	ENST00000404929	2/7	155	126	29	123	123	0	FAM161A,missense_variant,p.Ser140Phe,ENST00000405894,;FAM161A,missense_variant,p.Ser140Phe,ENST00000404929,;FAM161A,missense_variant,p.Ser140Phe,ENST00000456262,;FAM161A,missense_variant,p.Ser136Phe,ENST00000418113,;FAM161A,3_prime_UTR_variant,,ENST00000307507,;FAM161A,upstream_gene_variant,,ENST00000496369,;	A	ENSG00000170264	ENST00000404929	Transcript	missense_variant	431	419	140	S/F	tCc/tTc	.	.	.	-1	FAM161A	HGNC	25808	protein_coding	YES	CCDS56120.1	ENSP00000385158	F161A_HUMAN	.	UPI00006C0438	.	tolerated(0.65)	benign(0.249)	2/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21501,hmmpanther:PTHR21501:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTGGAAGAG	.	5	BLCA
C2orf42	0	.	GRCh37	2	70408762	70408762	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356C>G	p.Ser119Ter	p.S119*	ENST00000264434	3/10	71	60	11	47	47	0	C2orf42,stop_gained,p.Ser119Ter,ENST00000420306,;C2orf42,stop_gained,p.Ser119Ter,ENST00000264434,;C2orf42,stop_gained,p.Ser119Ter,ENST00000447804,;C2orf42,stop_gained,p.Ser119Ter,ENST00000419381,;C2orf42,stop_gained,p.Ser119Ter,ENST00000417865,;C2orf42,downstream_gene_variant,,ENST00000425268,;C2orf42,downstream_gene_variant,,ENST00000428010,;C2orf42,downstream_gene_variant,,ENST00000457952,;C2orf42,downstream_gene_variant,,ENST00000417203,;C2orf42,downstream_gene_variant,,ENST00000428751,;C2orf42,non_coding_transcript_exon_variant,,ENST00000470096,;C2orf42,downstream_gene_variant,,ENST00000487560,;C2orf42,downstream_gene_variant,,ENST00000464505,;C2orf42,downstream_gene_variant,,ENST00000495353,;	C	ENSG00000115998	ENST00000264434	Transcript	stop_gained	736	356	119	S/*	tCa/tGa	.	.	.	-1	C2orf42	HGNC	26056	protein_coding	YES	CCDS1899.1	ENSP00000264434	CB042_HUMAN	C9JZF3_HUMAN,C9JV10_HUMAN,C9JS43_HUMAN,C9JKD5_HUMAN,C9JK51_HUMAN,C9JJF4_HUMAN,C9J5U1_HUMAN,C9J4L7_HUMAN	UPI0000037CF2	.	.	.	3/10	.	hmmpanther:PTHR13518	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATGAGGGG	.	5	BLCA
TET3	0	.	GRCh37	2	74327745	74327745	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3425C>G	p.Ser1142Cys	p.S1142C	ENST00000409262	9/9	34	28	6	26	26	0	TET3,missense_variant,p.Ser1142Cys,ENST00000409262,;	G	ENSG00000187605	ENST00000409262	Transcript	missense_variant	3425	3425	1142	S/C	tCc/tGc	.	.	.	1	TET3	HGNC	28313	protein_coding	YES	CCDS46339.1	ENSP00000386869	TET3_HUMAN	K9JJH7_HUMAN	UPI0000DD79F5	.	deleterious(0.01)	possibly_damaging(0.89)	9/9	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF4,Pfam_domain:PF12851	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCCAAGT	.	5	BLCA
SLC4A5	0	.	GRCh37	2	74489306	74489306	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769G>T	p.Glu257Ter	p.E257*	ENST00000377634	11/31	50	43	6	46	46	0	SLC4A5,stop_gained,p.Glu257Ter,ENST00000377632,;SLC4A5,stop_gained,p.Glu257Ter,ENST00000425249,;SLC4A5,stop_gained,p.Glu193Ter,ENST00000359484,;SLC4A5,stop_gained,p.Glu193Ter,ENST00000358683,;SLC4A5,stop_gained,p.Glu257Ter,ENST00000423644,;SLC4A5,stop_gained,p.Glu257Ter,ENST00000394019,;SLC4A5,stop_gained,p.Glu257Ter,ENST00000346834,;SLC4A5,stop_gained,p.Glu257Ter,ENST00000377634,;SLC4A5,stop_gained,p.Glu257Ter,ENST00000357822,;SLC4A5,downstream_gene_variant,,ENST00000444570,;SLC4A5,downstream_gene_variant,,ENST00000432728,;SLC4A5,non_coding_transcript_exon_variant,,ENST00000483195,;RP11-287D1.3,3_prime_UTR_variant,,ENST00000451608,;	A	ENSG00000188687	ENST00000377634	Transcript	stop_gained	1169	769	257	E/*	Gaa/Taa	.	.	.	-1	SLC4A5	HGNC	18168	protein_coding	YES	CCDS1936.1	ENSP00000366861	S4A5_HUMAN	Q9UDR3_HUMAN,Q53S35_HUMAN,Q53QY5_HUMAN,C9JW32_HUMAN,C9JU12_HUMAN,C9JNL6_HUMAN	UPI000013C97B	.	.	.	11/31	.	hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF20,Pfam_domain:PF07565,TIGRFAM_domain:TIGR00834,Gene3D:1hynR00,Superfamily_domains:SSF55804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTCCGTGG	.	4	BLCA
HTRA2	0	.	GRCh37	2	74757255	74757255	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.122C>G	p.Ser41Ter	p.S41*	ENST00000258080	1/8	46	36	9	32	32	0	HTRA2,stop_gained,p.Ser41Ter,ENST00000352222,;HTRA2,stop_gained,p.Ser41Ter,ENST00000258080,;HTRA2,stop_gained,p.Ser28Ter,ENST00000437202,;DQX1,upstream_gene_variant,,ENST00000404568,;DQX1,upstream_gene_variant,,ENST00000393951,;LOXL3,downstream_gene_variant,,ENST00000409986,;LOXL3,downstream_gene_variant,,ENST00000264094,;LOXL3,downstream_gene_variant,,ENST00000409249,;AUP1,upstream_gene_variant,,ENST00000377526,;LOXL3,downstream_gene_variant,,ENST00000409549,;DQX1,upstream_gene_variant,,ENST00000451518,;LOXL3,downstream_gene_variant,,ENST00000393937,;HTRA2,intron_variant,,ENST00000462909,;HTRA2,intron_variant,,ENST00000484881,;HTRA2,intron_variant,,ENST00000467961,;DQX1,upstream_gene_variant,,ENST00000498552,;AUP1,upstream_gene_variant,,ENST00000463900,;HTRA2,upstream_gene_variant,,ENST00000484352,;AUP1,upstream_gene_variant,,ENST00000486234,;HTRA2,upstream_gene_variant,,ENST00000465521,;DQX1,upstream_gene_variant,,ENST00000473508,;LOXL3,downstream_gene_variant,,ENST00000470907,;AUP1,upstream_gene_variant,,ENST00000462297,;HTRA2,upstream_gene_variant,,ENST00000482205,;HTRA2,upstream_gene_variant,,ENST00000482331,;AUP1,upstream_gene_variant,,ENST00000464887,;AUP1,upstream_gene_variant,,ENST00000466894,;AUP1,upstream_gene_variant,,ENST00000425118,;AUP1,upstream_gene_variant,,ENST00000472800,;	G	ENSG00000115317	ENST00000258080	Transcript	stop_gained	752	122	41	S/*	tCa/tGa	.	.	.	1	HTRA2	HGNC	14348	protein_coding	YES	CCDS1951.1	ENSP00000258080	HTRA2_HUMAN	.	UPI000012CB84	.	.	.	1/8	.	hmmpanther:PTHR22939:SF69,hmmpanther:PTHR22939	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGTCAGGAA	.	5	BLCA
M1AP	0	.	GRCh37	2	74834320	74834320	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457G>C	p.Glu153Gln	p.E153Q	ENST00000290536	4/11	161	131	29	128	128	0	M1AP,missense_variant,p.Glu153Gln,ENST00000536235,;M1AP,missense_variant,p.Glu153Gln,ENST00000409585,;M1AP,missense_variant,p.Glu153Gln,ENST00000290536,;M1AP,5_prime_UTR_variant,,ENST00000358434,;M1AP,non_coding_transcript_exon_variant,,ENST00000478437,;M1AP,intron_variant,,ENST00000422394,;M1AP,intron_variant,,ENST00000438226,;	G	ENSG00000159374	ENST00000290536	Transcript	missense_variant	574	457	153	E/Q	Gag/Cag	.	.	.	-1	M1AP	HGNC	25183	protein_coding	YES	CCDS33229.1	ENSP00000290536	M1AP_HUMAN	C9JPR9_HUMAN	UPI0000072570	.	tolerated(0.16)	benign(0.135)	4/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCTTTTC	.	5	BLCA
RETSAT	0	.	GRCh37	2	85571416	85571416	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312C>G	p.Leu438Val	p.L438V	ENST00000295802	8/11	54	47	6	54	54	0	RETSAT,missense_variant,p.Leu438Val,ENST00000263854,;RETSAT,missense_variant,p.Leu438Val,ENST00000295802,;RETSAT,missense_variant,p.Leu227Val,ENST00000449375,;RETSAT,missense_variant,p.Leu377Val,ENST00000457495,;RETSAT,non_coding_transcript_exon_variant,,ENST00000475624,;RETSAT,missense_variant,p.Leu277Val,ENST00000429806,;RETSAT,3_prime_UTR_variant,,ENST00000438611,;PEBP1P2,upstream_gene_variant,,ENST00000603980,;	C	ENSG00000042445	ENST00000295802	Transcript	missense_variant	1425	1312	438	L/V	Ctc/Gtc	.	.	.	-1	RETSAT	HGNC	25991	protein_coding	YES	CCDS1972.1	ENSP00000295802	RETST_HUMAN	I0EZ74_HUMAN	UPI000003BBD9	.	tolerated(0.1)	benign(0.005)	8/11	.	hmmpanther:PTHR10668,hmmpanther:PTHR10668:SF61	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAGAGAAGAG	.	4	BLCA
KDM3A	0	.	GRCh37	2	86676939	86676939	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>C	p.Glu66Gln	p.E66Q	ENST00000409556	4/27	89	74	15	74	74	0	KDM3A,missense_variant,p.Glu66Gln,ENST00000409064,;KDM3A,missense_variant,p.Glu66Gln,ENST00000452034,;KDM3A,missense_variant,p.Glu66Gln,ENST00000427678,;KDM3A,missense_variant,p.Glu66Gln,ENST00000409556,;KDM3A,missense_variant,p.Glu66Gln,ENST00000312912,;KDM3A,intron_variant,,ENST00000542128,;KDM3A,non_coding_transcript_exon_variant,,ENST00000466058,;KDM3A,non_coding_transcript_exon_variant,,ENST00000498528,;KDM3A,missense_variant,p.Glu66Gln,ENST00000441719,;KDM3A,non_coding_transcript_exon_variant,,ENST00000463013,;	C	ENSG00000115548	ENST00000409556	Transcript	missense_variant	561	196	66	E/Q	Gaa/Caa	.	.	.	1	KDM3A	HGNC	20815	protein_coding	YES	CCDS1990.1	ENSP00000386660	KDM3A_HUMAN	C9JC73_HUMAN,C9J7Q7_HUMAN	UPI0000161FAE	.	deleterious(0)	probably_damaging(0.997)	4/27	.	hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGTGGAATTT	.	4	BLCA
ITGB1BP1	0	.	GRCh37	2	9552439	9552439	+	Missense_Mutation	SNP	C	C	G	rs755295860	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>C	p.Glu83Gln	p.E83Q	ENST00000360635	5/8	123	107	16	106	106	0	ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000467606,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000360635,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000494563,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000488451,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000359712,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000238091,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000484735,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000456913,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000460001,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000355346,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000492079,;ITGB1BP1,downstream_gene_variant,,ENST00000497105,;ITGB1BP1,non_coding_transcript_exon_variant,,ENST00000497031,;ITGB1BP1,non_coding_transcript_exon_variant,,ENST00000490426,;ITGB1BP1,non_coding_transcript_exon_variant,,ENST00000482798,;ITGB1BP1,missense_variant,p.Glu83Gln,ENST00000483795,;ITGB1BP1,3_prime_UTR_variant,,ENST00000464228,;ITGB1BP1,non_coding_transcript_exon_variant,,ENST00000465527,;ITGB1BP1,non_coding_transcript_exon_variant,,ENST00000463190,;ITGB1BP1,upstream_gene_variant,,ENST00000460720,;ITGB1BP1,upstream_gene_variant,,ENST00000470507,;	G	ENSG00000119185	ENST00000360635	Transcript	missense_variant	1144	247	83	E/Q	Gaa/Caa	rs755295860,COSM1307089	.	.	-1	ITGB1BP1	HGNC	23927	protein_coding	YES	CCDS1662.1	ENSP00000353850	ITBP1_HUMAN	C9JZ07_HUMAN,C9JBU8_HUMAN,C9J6Y2_HUMAN,C9J5T5_HUMAN,C9J0J6_HUMAN,C9IZZ8_HUMAN	UPI000012DA43	.	tolerated(0.34)	benign(0.026)	5/8	.	hmmpanther:PTHR32055,hmmpanther:PTHR32055:SF1,Pfam_domain:PF10480,Gene3D:2.30.29.30,SMART_domains:SM00462,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTTCAAGGC	.	4	BLCA
ADAM17	0	.	GRCh37	2	9650239	9650239	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1213C>T	p.His405Tyr	p.H405Y	ENST00000310823	11/19	133	115	18	109	109	0	ADAM17,missense_variant,p.His405Tyr,ENST00000310823,;RP11-400L8.2,intron_variant,,ENST00000472619,;RP11-400L8.2,intron_variant,,ENST00000480764,;	A	ENSG00000151694	ENST00000310823	Transcript	missense_variant	1396	1213	405	H/Y	Cat/Tat	.	.	.	-1	ADAM17	HGNC	195	protein_coding	YES	CCDS1665.1	ENSP00000309968	ADA17_HUMAN	Q53S40_HUMAN,Q53RS1_HUMAN,Q53RF5_HUMAN,B2RNB2_HUMAN	UPI00001254D4	.	deleterious(0)	probably_damaging(0.999)	11/19	.	PROSITE_profiles:PS50215,hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF121,Gene3D:3.40.390.10,Pfam_domain:PF13688,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCATGAGTTG	.	4	BLCA
SNRNP200	0	.	GRCh37	2	96955031	96955031	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3027G>A	p.%3D	p.L1009L	ENST00000323853	22/45	71	62	9	62	62	0	SNRNP200,synonymous_variant,p.%3D,ENST00000323853,;SNRNP200,intron_variant,,ENST00000349783,;SNRNP200,non_coding_transcript_exon_variant,,ENST00000480615,;SNRNP200,upstream_gene_variant,,ENST00000480242,;SNRNP200,upstream_gene_variant,,ENST00000429650,;SNRNP200,upstream_gene_variant,,ENST00000497539,;	T	ENSG00000144028	ENST00000323853	Transcript	synonymous_variant	3105	3027	1009	L	ctG/ctA	.	.	.	-1	SNRNP200	HGNC	30859	protein_coding	YES	CCDS2020.1	ENSP00000317123	U520_HUMAN	Q9P172_HUMAN,Q7L5W4_HUMAN,Q5ZF01_HUMAN,A4FU77_HUMAN,A2RRQ7_HUMAN	UPI0000207C53	.	.	.	22/45	.	hmmpanther:PTHR11752:SF55,hmmpanther:PTHR11752,Pfam_domain:PF02889,SMART_domains:SM00973,SMART_domains:SM00611	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACTCAGGGT	.	4	BLCA
FAHD2B	0	.	GRCh37	2	97749450	97749450	+	3'UTR	SNP	G	G	C	rs749754764	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*42C>G	.	.	ENST00000414820	9/9	74	69	5	61	61	0	FAHD2B,3_prime_UTR_variant,,ENST00000272610,;FAHD2B,3_prime_UTR_variant,,ENST00000440566,;FAHD2B,3_prime_UTR_variant,,ENST00000414820,;FAHD2B,downstream_gene_variant,,ENST00000468548,;FAHD2B,downstream_gene_variant,,ENST00000474849,;FAHD2B,downstream_gene_variant,,ENST00000463096,;AC018892.9,downstream_gene_variant,,ENST00000340118,;AC018892.9,downstream_gene_variant,,ENST00000445404,;	C	ENSG00000144199	ENST00000414820	Transcript	3_prime_UTR_variant	1258	.	.	.	.	rs749754764	.	.	-1	FAHD2B	HGNC	25318	protein_coding	YES	CCDS2030.1	ENSP00000410470	FAH2B_HUMAN	.	UPI000004D29E	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGGGAGCAG	byFrequency	2	BLCA
KIAA1211L	0	.	GRCh37	2	99449420	99449420	+	Missense_Mutation	SNP	C	C	T	rs767305487	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280G>A	p.Asp94Asn	p.D94N	ENST00000397899	4/10	173	145	28	156	156	0	KIAA1211L,missense_variant,p.Asp108Asn,ENST00000415261,;KIAA1211L,missense_variant,p.Asp94Asn,ENST00000397899,;KIAA1211L,missense_variant,p.Asp108Asn,ENST00000428096,;KIAA1211L,missense_variant,p.Asp122Asn,ENST00000423771,;KIAA1211L,intron_variant,,ENST00000462314,;	T	ENSG00000196872	ENST00000397899	Transcript	missense_variant	612	280	94	D/N	Gac/Aac	rs767305487	.	.	-1	KIAA1211L	HGNC	33454	protein_coding	YES	CCDS42720.1	ENSP00000380996	K121L_HUMAN	.	UPI0000E59245	.	deleterious(0)	possibly_damaging(0.741)	4/10	.	hmmpanther:PTHR22118:SF5,hmmpanther:PTHR22118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTGTCGTGAG	.	4	BLCA
MYH15	0	.	GRCh37	3	108211377	108211377	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901C>G	p.Gln301Glu	p.Q301E	ENST00000273353	10/42	52	41	10	42	42	0	MYH15,missense_variant,p.Gln301Glu,ENST00000273353,;	C	ENSG00000144821	ENST00000273353	Transcript	missense_variant	958	901	301	Q/E	Caa/Gaa	.	.	.	-1	MYH15	HGNC	31073	protein_coding	YES	CCDS43127.1	ENSP00000273353	MYH15_HUMAN	H9XFA0_HUMAN	UPI0000253B6F	.	deleterious(0)	possibly_damaging(0.791)	10/42	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,Pfam_domain:PF00063,hmmpanther:PTHR13140:SF263,hmmpanther:PTHR13140,PROSITE_profiles:PS51456	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTGATAGA	.	5	BLCA
C3orf52	0	.	GRCh37	3	111831982	111831982	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397-3507C>G	.	.	ENST00000431717	.	28	21	7	14	14	0	C3orf52,synonymous_variant,p.%3D,ENST00000264848,;C3orf52,intron_variant,,ENST00000484828,;C3orf52,intron_variant,,ENST00000431717,;C3orf52,intron_variant,,ENST00000430855,;MIR567,downstream_gene_variant,,ENST00000385205,;C3orf52,non_coding_transcript_exon_variant,,ENST00000467942,;C3orf52,downstream_gene_variant,,ENST00000494096,;C3orf52,intron_variant,,ENST00000480282,;C3orf52,downstream_gene_variant,,ENST00000497610,;	G	ENSG00000114529	ENST00000431717	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	C3orf52	HGNC	26255	protein_coding	YES	CCDS54620.1	ENSP00000399392	TTMP_HUMAN	.	UPI000188445B	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCTTGCT	.	5	BLCA
GCSAM	0	.	GRCh37	3	111842619	111842619	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226G>A	p.Asp76Asn	p.D76N	ENST00000484193	6/6	116	98	17	81	81	0	GCSAM,missense_variant,p.Asp76Asn,ENST00000484193,;GCSAM,missense_variant,p.Asp74Asn,ENST00000308910,;GCSAM,missense_variant,p.Asp57Asn,ENST00000488580,;GCSAM,missense_variant,p.Asp59Asn,ENST00000460387,;GCSAM,missense_variant,p.Asp57Asn,ENST00000487901,;C3orf52,downstream_gene_variant,,ENST00000430855,;C3orf52,intron_variant,,ENST00000467942,;GCSAM,splice_region_variant,,ENST00000470085,;GCSAM,splice_region_variant,,ENST00000495418,;C3orf52,intron_variant,,ENST00000480282,;	T	ENSG00000174500	ENST00000484193	Transcript	missense_variant	360	226	76	D/N	Gac/Aac	.	.	.	-1	GCSAM	HGNC	20253	protein_coding	YES	CCDS54622.1	ENSP00000419485	GCSAM_HUMAN	C9JY41_HUMAN,C9IY73_HUMAN	UPI000042262E	.	deleterious(0.03)	possibly_damaging(0.507)	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTGTCCTGCT	.	4	BLCA
C3orf17	0	.	GRCh37	3	112738497	112738497	+	5'UTR	SNP	G	G	C	rs774302190	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3C>G	.	.	ENST00000314400	1/9	35	24	11	22	22	0	C3orf17,5_prime_UTR_variant,,ENST00000314400,;C3orf17,5_prime_UTR_variant,,ENST00000383675,;C3orf17,upstream_gene_variant,,ENST00000393857,;C3orf17,upstream_gene_variant,,ENST00000472166,;RP11-572M11.4,non_coding_transcript_exon_variant,,ENST00000460707,;RP11-572M11.4,non_coding_transcript_exon_variant,,ENST00000470313,;RP11-572M11.4,non_coding_transcript_exon_variant,,ENST00000496389,;RP11-572M11.4,non_coding_transcript_exon_variant,,ENST00000467342,;C3orf17,non_coding_transcript_exon_variant,,ENST00000494575,;C3orf17,5_prime_UTR_variant,,ENST00000461381,;C3orf17,5_prime_UTR_variant,,ENST00000462295,;C3orf17,5_prime_UTR_variant,,ENST00000496340,;C3orf17,5_prime_UTR_variant,,ENST00000469809,;C3orf17,5_prime_UTR_variant,,ENST00000472637,;C3orf17,5_prime_UTR_variant,,ENST00000491121,;C3orf17,5_prime_UTR_variant,,ENST00000494164,;C3orf17,5_prime_UTR_variant,,ENST00000472705,;C3orf17,5_prime_UTR_variant,,ENST00000469169,;C3orf17,5_prime_UTR_variant,,ENST00000470663,;C3orf17,5_prime_UTR_variant,,ENST00000489848,;C3orf17,5_prime_UTR_variant,,ENST00000473284,;C3orf17,5_prime_UTR_variant,,ENST00000460410,;C3orf17,non_coding_transcript_exon_variant,,ENST00000486271,;C3orf17,upstream_gene_variant,,ENST00000496206,;GTPBP8,downstream_gene_variant,,ENST00000485330,;C3orf17,upstream_gene_variant,,ENST00000494891,;	C	ENSG00000163608	ENST00000314400	Transcript	5_prime_UTR_variant	190	.	.	.	.	rs774302190	.	.	-1	C3orf17	HGNC	24496	protein_coding	YES	CCDS33824.1	ENSP00000320251	CC017_HUMAN	C9J9E3_HUMAN,A8MVI8_HUMAN	UPI0000367197	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGCGAGGCG	byFrequency	5	BLCA
ATP6V1A	0	.	GRCh37	3	113508676	113508676	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.977C>G	p.Ser326Cys	p.S326C	ENST00000273398	8/15	64	57	7	48	48	0	ATP6V1A,missense_variant,p.Ser326Cys,ENST00000273398,;ATP6V1A,missense_variant,p.Ser293Cys,ENST00000538620,;ATP6V1A,downstream_gene_variant,,ENST00000475322,;ATP6V1A,downstream_gene_variant,,ENST00000496747,;ATP6V1A,3_prime_UTR_variant,,ENST00000470455,;	G	ENSG00000114573	ENST00000273398	Transcript	missense_variant	1085	977	326	S/C	tCt/tGt	COSM3714341	.	.	1	ATP6V1A	HGNC	851	protein_coding	YES	CCDS2976.1	ENSP00000273398	VATA_HUMAN	C9JVW8_HUMAN,C9JA17_HUMAN,B7Z2V6_HUMAN,B7Z1R5_HUMAN	UPI000013809A	.	tolerated(0.06)	probably_damaging(1)	8/15	.	HAMAP:MF_00309,hmmpanther:PTHR15184:SF7,hmmpanther:PTHR15184,Pfam_domain:PF00006,TIGRFAM_domain:TIGR01042,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCTATTT	.	2	BLCA
KIAA1407	0	.	GRCh37	3	113765547	113765547	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162A>G	p.%3D	p.S54S	ENST00000295878	3/17	44	38	6	50	50	0	KIAA1407,synonymous_variant,p.%3D,ENST00000295878,;KIAA1407,synonymous_variant,p.%3D,ENST00000491000,;KIAA1407,5_prime_UTR_variant,,ENST00000545063,;QTRTD1,intron_variant,,ENST00000472599,;KIAA1407,intron_variant,,ENST00000483766,;KIAA1407,non_coding_transcript_exon_variant,,ENST00000480588,;KIAA1407,synonymous_variant,p.%3D,ENST00000460813,;KIAA1407,intron_variant,,ENST00000463695,;KIAA1407,intron_variant,,ENST00000481358,;	C	ENSG00000163617	ENST00000295878	Transcript	synonymous_variant	309	162	54	S	tcA/tcG	.	.	.	-1	KIAA1407	HGNC	29272	protein_coding	YES	CCDS2977.1	ENSP00000295878	K1407_HUMAN	.	UPI00000732E9	.	.	.	3/17	.	hmmpanther:PTHR22028:SF3,hmmpanther:PTHR22028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCATTTGACAC	.	2	BLCA
QTRTD1	0	.	GRCh37	3	113804602	113804602	+	Missense_Mutation	SNP	C	C	G	rs778423305	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1135C>G	p.Leu379Val	p.L379V	ENST00000485050	9/9	168	144	24	154	154	0	QTRTD1,missense_variant,p.Leu261Val,ENST00000493014,;QTRTD1,missense_variant,p.Leu379Val,ENST00000485050,;QTRTD1,missense_variant,p.Leu367Val,ENST00000281273,;QTRTD1,missense_variant,p.Leu244Val,ENST00000479882,;QTRTD1,3_prime_UTR_variant,,ENST00000462966,;QTRTD1,downstream_gene_variant,,ENST00000462869,;QTRTD1,non_coding_transcript_exon_variant,,ENST00000495782,;QTRTD1,non_coding_transcript_exon_variant,,ENST00000483272,;	G	ENSG00000151576	ENST00000485050	Transcript	missense_variant	1250	1135	379	L/V	Ctg/Gtg	rs778423305	.	.	1	QTRTD1	HGNC	25771	protein_coding	YES	CCDS58844.1	ENSP00000420682	QTRD1_HUMAN	.	UPI00005A727B	.	deleterious(0)	probably_damaging(0.99)	9/9	.	HAMAP:MF_03043,hmmpanther:PTHR11962,Gene3D:3.20.20.105,Pfam_domain:PF01702,TIGRFAM_domain:TIGR00449,Superfamily_domains:SSF51713	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCATCTGCTG	.	4	BLCA
GTF2E1	0	.	GRCh37	3	120469634	120469634	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235G>C	p.Glu79Gln	p.E79Q	ENST00000283875	2/5	97	82	14	74	74	0	GTF2E1,missense_variant,p.Glu79Gln,ENST00000492959,;GTF2E1,missense_variant,p.Glu79Gln,ENST00000283875,;GTF2E1,intron_variant,,ENST00000469772,;GTF2E1,downstream_gene_variant,,ENST00000484715,;GTF2E1,non_coding_transcript_exon_variant,,ENST00000497393,;	C	ENSG00000153767	ENST00000283875	Transcript	missense_variant	328	235	79	E/Q	Gag/Cag	.	.	.	1	GTF2E1	HGNC	4650	protein_coding	YES	CCDS3002.1	ENSP00000283875	T2EA_HUMAN	Q53F88_HUMAN,Q05DN6_HUMAN,E9PER7_HUMAN,C9J329_HUMAN,C9IYL4_HUMAN	UPI000013DD5F	.	deleterious(0)	probably_damaging(1)	2/5	.	PROSITE_profiles:PS51344,hmmpanther:PTHR13097,hmmpanther:PTHR13097:SF6,Pfam_domain:PF02002,SMART_domains:SM00531	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTAGAGACT	.	5	BLCA
POLQ	0	.	GRCh37	3	121215688	121215688	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2245C>T	p.Gln749Ter	p.Q749*	ENST00000264233	14/30	100	93	7	86	86	0	POLQ,stop_gained,p.Gln749Ter,ENST00000264233,;RPL7AP11,downstream_gene_variant,,ENST00000486538,;	A	ENSG00000051341	ENST00000264233	Transcript	stop_gained	2374	2245	749	Q/*	Caa/Taa	.	.	.	-1	POLQ	HGNC	9186	protein_coding	YES	CCDS33833.1	ENSP00000264233	DPOLQ_HUMAN	.	UPI0000D61B5F	.	.	.	14/30	.	hmmpanther:PTHR11752,hmmpanther:PTHR11752:SF48,Superfamily_domains:SSF158702	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATTGAATCT	.	2	BLCA
GOLGB1	0	.	GRCh37	3	121413748	121413748	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5622G>C	p.Glu1874Asp	p.E1874D	ENST00000393667	13/22	236	197	39	197	197	0	GOLGB1,missense_variant,p.Glu1874Asp,ENST00000393667,;GOLGB1,missense_variant,p.Glu1869Asp,ENST00000340645,;GOLGB1,downstream_gene_variant,,ENST00000494517,;GOLGB1,downstream_gene_variant,,ENST00000489400,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;	G	ENSG00000173230	ENST00000393667	Transcript	missense_variant	5733	5622	1874	E/D	gaG/gaC	.	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	possibly_damaging(0.747)	13/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTTCTCATT	.	4	BLCA
KPNA1	0	.	GRCh37	3	122172734	122172734	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547G>C	p.Glu183Gln	p.E183Q	ENST00000344337	6/14	77	65	12	102	102	0	KPNA1,missense_variant,p.Glu183Gln,ENST00000344337,;KPNA1,missense_variant,p.Glu183Gln,ENST00000465882,;KPNA1,missense_variant,p.Glu183Gln,ENST00000482287,;KPNA1,intron_variant,,ENST00000476916,;KPNA1,downstream_gene_variant,,ENST00000493510,;KPNA1,non_coding_transcript_exon_variant,,ENST00000470904,;KPNA1,non_coding_transcript_exon_variant,,ENST00000466923,;KPNA1,non_coding_transcript_exon_variant,,ENST00000464940,;KPNA1,3_prime_UTR_variant,,ENST00000494339,;KPNA1,3_prime_UTR_variant,,ENST00000485027,;	G	ENSG00000114030	ENST00000344337	Transcript	missense_variant	724	547	183	E/Q	Gaa/Caa	.	.	.	-1	KPNA1	HGNC	6394	protein_coding	YES	CCDS3013.1	ENSP00000343701	IMA5_HUMAN	C9JYI4_HUMAN,C9JWD9_HUMAN,C9J4U1_HUMAN,B3KXZ2_HUMAN	UPI000013D524	.	tolerated(0.33)	probably_damaging(0.999)	6/14	.	PROSITE_profiles:PS50176,hmmpanther:PTHR23316:SF3,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF00514,SMART_domains:SM00185,PIRSF_domain:PIRSF005673,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCAAACT	.	5	BLCA
DTX3L	0	.	GRCh37	3	122284793	122284793	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.275C>T	p.Ser92Leu	p.S92L	ENST00000296161	2/5	100	85	15	55	55	0	DTX3L,missense_variant,p.Ser92Leu,ENST00000296161,;DTX3L,missense_variant,p.Ser92Leu,ENST00000383661,;PARP9,upstream_gene_variant,,ENST00000471785,;PARP9,upstream_gene_variant,,ENST00000492382,;PARP9,upstream_gene_variant,,ENST00000477522,;PARP9,upstream_gene_variant,,ENST00000462315,;PARP9,upstream_gene_variant,,ENST00000360356,;PARP9,upstream_gene_variant,,ENST00000466126,;	T	ENSG00000163840	ENST00000296161	Transcript	missense_variant	464	275	92	S/L	tCa/tTa	.	.	.	1	DTX3L	HGNC	30323	protein_coding	YES	CCDS3015.1	ENSP00000296161	DTX3L_HUMAN	.	UPI000000D9D0	.	tolerated(0.14)	benign(0.003)	2/5	.	hmmpanther:PTHR12622:SF23,hmmpanther:PTHR12622	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATTCAATAA	.	5	BLCA
ADCY5	0	.	GRCh37	3	123166691	123166691	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702C>T	p.%3D	p.F234F	ENST00000462833	1/21	41	37	4	50	50	0	ADCY5,synonymous_variant,p.%3D,ENST00000462833,;	A	ENSG00000173175	ENST00000462833	Transcript	synonymous_variant	1915	702	234	F	ttC/ttT	.	.	.	-1	ADCY5	HGNC	236	protein_coding	YES	CCDS3022.1	ENSP00000419361	ADCY5_HUMAN	C9JRT8_HUMAN,C9JQ38_HUMAN,B7Z801_HUMAN,B7Z2C7_HUMAN	UPI000015E262	.	.	.	1/21	.	hmmpanther:PTHR11920:SF259,hmmpanther:PTHR11920	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGGAAGAAGTA	.	3	BLCA
PPARG	0	.	GRCh37	3	12475489	12475489	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1363G>C	p.Glu455Gln	p.E455Q	ENST00000287820	7/7	82	66	15	66	66	0	PPARG,missense_variant,p.Glu455Gln,ENST00000287820,;PPARG,missense_variant,p.Glu433Gln,ENST00000397026,;PPARG,missense_variant,p.Glu427Gln,ENST00000397010,;PPARG,missense_variant,p.Glu427Gln,ENST00000397012,;PPARG,missense_variant,p.Glu427Gln,ENST00000309576,;PPARG,missense_variant,p.Glu427Gln,ENST00000397015,;PPARG,3_prime_UTR_variant,,ENST00000397000,;PPARG,3_prime_UTR_variant,,ENST00000539812,;PPARG,3_prime_UTR_variant,,ENST00000397023,;	C	ENSG00000132170	ENST00000287820	Transcript	missense_variant	1484	1363	455	E/Q	Gag/Cag	.	.	.	1	PPARG	HGNC	9236	protein_coding	YES	CCDS2609.1	ENSP00000287820	PPARG_HUMAN	Q9UEF6_HUMAN,Q6L9M1_HUMAN,E9PFJ1_HUMAN,E7EUD1_HUMAN,E7EU07_HUMAN,D2KUA6_HUMAN	UPI0000055911	.	deleterious(0.03)	benign(0.03)	7/7	.	hmmpanther:PTHR24082:SF14,hmmpanther:PTHR24082,Gene3D:1.10.565.10,Pfam_domain:PF00104,SMART_domains:SM00430,Superfamily_domains:SSF48508,Prints_domain:PR01288	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGAGTCC	.	5	BLCA
OSBPL11	0	.	GRCh37	3	125298733	125298733	+	Missense_Mutation	SNP	T	T	A	rs770514443	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.385A>T	p.Ser129Cys	p.S129C	ENST00000296220	3/13	101	81	19	111	111	0	OSBPL11,missense_variant,p.Ser129Cys,ENST00000296220,;	A	ENSG00000144909	ENST00000296220	Transcript	missense_variant	675	385	129	S/C	Agt/Tgt	rs770514443	.	.	-1	OSBPL11	HGNC	16397	protein_coding	YES	CCDS3033.1	ENSP00000296220	OSB11_HUMAN	Q9GZM0_HUMAN	UPI0000130E9C	.	deleterious(0)	probably_damaging(0.994)	3/13	.	PROSITE_profiles:PS50003,hmmpanther:PTHR10972,hmmpanther:PTHR10972:SF46,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACTGGCAG	.	5	BLCA
MGLL	0	.	GRCh37	3	127540569	127540569	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.123C>G	p.Phe41Leu	p.F41L	ENST00000265052	2/8	74	65	8	59	59	0	MGLL,missense_variant,p.Phe41Leu,ENST00000265052,;MGLL,missense_variant,p.Phe31Leu,ENST00000494830,;MGLL,missense_variant,p.Phe41Leu,ENST00000453507,;MGLL,missense_variant,p.Phe31Leu,ENST00000398104,;MGLL,missense_variant,p.Phe31Leu,ENST00000434178,;MGLL,non_coding_transcript_exon_variant,,ENST00000479967,;	C	ENSG00000074416	ENST00000265052	Transcript	missense_variant	663	123	41	F/L	ttC/ttG	.	.	.	-1	MGLL	HGNC	17038	protein_coding	YES	CCDS46902.1	ENSP00000265052	MGLL_HUMAN	C9JAM4_HUMAN,C9J8Q3_HUMAN	UPI000004EC90	.	deleterious(0.01)	possibly_damaging(0.547)	2/8	.	Superfamily_domains:SSF53474,Gene3D:3.40.50.1820,hmmpanther:PTHR11614,hmmpanther:PTHR11614:SF87	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCAGAAGAG	.	4	BLCA
RAB6B	0	.	GRCh37	3	133614398	133614398	+	5'UTR	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-88C>A	.	.	ENST00000285208	1/8	19	14	5	20	20	0	RAB6B,5_prime_UTR_variant,,ENST00000460865,;RAB6B,5_prime_UTR_variant,,ENST00000469959,;RAB6B,5_prime_UTR_variant,,ENST00000285208,;RAB6B,5_prime_UTR_variant,,ENST00000543906,;RAB6B,upstream_gene_variant,,ENST00000486858,;RAB6B,upstream_gene_variant,,ENST00000477759,;RAB6B,upstream_gene_variant,,ENST00000488969,;	T	ENSG00000154917	ENST00000285208	Transcript	5_prime_UTR_variant	263	.	.	.	.	.	.	.	-1	RAB6B	HGNC	14902	protein_coding	YES	CCDS3082.1	ENSP00000285208	RAB6B_HUMAN	Q9UL29_HUMAN,J3KR73_HUMAN,C9JU14_HUMAN,C9JB90_HUMAN	UPI000000125F	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGGCCGGCGGT	.	3	BLCA
RAB6B	0	.	GRCh37	3	133614408	133614408	+	5'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-98C>G	.	.	ENST00000285208	1/8	11	7	4	17	17	0	RAB6B,5_prime_UTR_variant,,ENST00000460865,;RAB6B,5_prime_UTR_variant,,ENST00000469959,;RAB6B,5_prime_UTR_variant,,ENST00000285208,;RAB6B,5_prime_UTR_variant,,ENST00000543906,;RAB6B,upstream_gene_variant,,ENST00000486858,;RAB6B,upstream_gene_variant,,ENST00000477759,;RAB6B,upstream_gene_variant,,ENST00000488969,;	C	ENSG00000154917	ENST00000285208	Transcript	5_prime_UTR_variant	253	.	.	.	.	.	.	.	-1	RAB6B	HGNC	14902	protein_coding	YES	CCDS3082.1	ENSP00000285208	RAB6B_HUMAN	Q9UL29_HUMAN,J3KR73_HUMAN,C9JU14_HUMAN,C9JB90_HUMAN	UPI000000125F	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCGGGAGCCG	.	3	BLCA
NUP210	0	.	GRCh37	3	13377104	13377104	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3693C>T	p.%3D	p.I1231I	ENST00000254508	28/40	59	51	8	43	43	0	NUP210,synonymous_variant,p.%3D,ENST00000254508,;NUP210,downstream_gene_variant,,ENST00000485755,;	A	ENSG00000132182	ENST00000254508	Transcript	synonymous_variant	3776	3693	1231	I	atC/atT	.	.	.	-1	NUP210	HGNC	30052	protein_coding	YES	CCDS33704.1	ENSP00000254508	PO210_HUMAN	.	UPI00001600AF	.	.	.	28/40	.	hmmpanther:PTHR23019,hmmpanther:PTHR23019:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCGGATCGA	.	4	BLCA
NUP210	0	.	GRCh37	3	13418988	13418988	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1120G>A	p.Asp374Asn	p.D374N	ENST00000254508	9/40	218	183	35	163	163	0	NUP210,missense_variant,p.Asp374Asn,ENST00000254508,;NUP210,non_coding_transcript_exon_variant,,ENST00000420141,;	T	ENSG00000132182	ENST00000254508	Transcript	missense_variant	1203	1120	374	D/N	Gac/Aac	.	.	.	-1	NUP210	HGNC	30052	protein_coding	YES	CCDS33704.1	ENSP00000254508	PO210_HUMAN	.	UPI00001600AF	.	deleterious(0)	probably_damaging(0.95)	9/40	.	hmmpanther:PTHR23019,hmmpanther:PTHR23019:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGTCAAAAA	.	4	BLCA
STAG1	0	.	GRCh37	3	136141832	136141832	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1705G>A	p.Glu569Lys	p.E569K	ENST00000383202	17/34	42	37	5	38	38	0	STAG1,missense_variant,p.Glu153Lys,ENST00000536929,;STAG1,missense_variant,p.Glu343Lys,ENST00000434713,;STAG1,missense_variant,p.Glu569Lys,ENST00000383202,;STAG1,missense_variant,p.Glu180Lys,ENST00000492318,;STAG1,missense_variant,p.Glu569Lys,ENST00000236698,;STAG1,3_prime_UTR_variant,,ENST00000483235,;STAG1,3_prime_UTR_variant,,ENST00000487065,;	T	ENSG00000118007	ENST00000383202	Transcript	missense_variant	1962	1705	569	E/K	Gaa/Aaa	.	.	.	-1	STAG1	HGNC	11354	protein_coding	YES	CCDS3090.1	ENSP00000372689	STAG1_HUMAN	Q4LE48_HUMAN	UPI000020A2DE	.	deleterious(0)	possibly_damaging(0.589)	17/34	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTTCAGTCA	.	4	BLCA
DBR1	0	.	GRCh37	3	137885986	137885986	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.651C>G	p.%3D	p.L217L	ENST00000260803	5/8	115	91	24	80	80	0	DBR1,synonymous_variant,p.%3D,ENST00000260803,;DBR1,5_prime_UTR_variant,,ENST00000505015,;DBR1,downstream_gene_variant,,ENST00000463982,;DBR1,3_prime_UTR_variant,,ENST00000477557,;DBR1,upstream_gene_variant,,ENST00000460271,;	C	ENSG00000138231	ENST00000260803	Transcript	synonymous_variant	805	651	217	L	ctC/ctG	.	.	.	-1	DBR1	HGNC	15594	protein_coding	YES	CCDS33863.1	ENSP00000260803	DBR1_HUMAN	F5GWV2_HUMAN	UPI000006DFC5	.	.	.	5/8	.	hmmpanther:PTHR12849,Pfam_domain:PF00149,Gene3D:3.60.21.10,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTGAGATG	.	5	BLCA
COPB2	0	.	GRCh37	3	139102140	139102140	+	Silent	SNP	C	C	T	rs754242337	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141G>A	p.%3D	p.Q47Q	ENST00000333188	2/22	71	61	10	58	58	0	COPB2,synonymous_variant,p.%3D,ENST00000333188,;COPB2,synonymous_variant,p.%3D,ENST00000512242,;COPB2,synonymous_variant,p.%3D,ENST00000514508,;COPB2,synonymous_variant,p.%3D,ENST00000515006,;COPB2,synonymous_variant,p.%3D,ENST00000513274,;COPB2,synonymous_variant,p.%3D,ENST00000507777,;COPB2,synonymous_variant,p.%3D,ENST00000512153,;RNU6-736P,upstream_gene_variant,,ENST00000516436,;COPB2,splice_region_variant,,ENST00000510491,;COPB2,splice_region_variant,,ENST00000510181,;COPB2,non_coding_transcript_exon_variant,,ENST00000504295,;	T	ENSG00000184432	ENST00000333188	Transcript	synonymous_variant	323	141	47	Q	caG/caA	rs754242337	.	.	-1	COPB2	HGNC	2232	protein_coding	YES	CCDS3108.1	ENSP00000329419	COPB2_HUMAN	D6RCL6_HUMAN,D6RBZ7_HUMAN,D6RBT6_HUMAN,D6RBG7_HUMAN,B4DZI8_HUMAN	UPI0000161FB4	.	.	.	2/22	.	Superfamily_domains:SSF50978,PIRSF_domain:PIRSF005567,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR19876,PROSITE_profiles:PS50082,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTACCTGTGT	.	4	BLCA
RBP2	0	.	GRCh37	3	139172008	139172008	+	Missense_Mutation	SNP	C	C	G	rs532077222	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.355G>C	p.Glu119Gln	p.E119Q	ENST00000232217	4/4	71	62	8	48	48	0	RBP2,missense_variant,p.Glu119Gln,ENST00000232217,;RBP2,downstream_gene_variant,,ENST00000511956,;RP11-319G6.1,intron_variant,,ENST00000515247,;RP11-319G6.1,downstream_gene_variant,,ENST00000510068,;	G	ENSG00000114113	ENST00000232217	Transcript	missense_variant	412	355	119	E/Q	Gag/Cag	rs532077222	.	.	-1	RBP2	HGNC	9920	protein_coding	YES	CCDS3109.1	ENSP00000232217	RET2_HUMAN	D6RGE6_HUMAN,D6RB89_HUMAN	UPI000013C95E	.	deleterious(0.01)	possibly_damaging(0.841)	4/4	.	hmmpanther:PTHR11955:SF59,hmmpanther:PTHR11955,Pfam_domain:PF00061,Gene3D:2.40.128.20,Superfamily_domains:SSF50814,Prints_domain:PR00178	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCTGCA	by1000G	4	BLCA
CLSTN2	0	.	GRCh37	3	140251268	140251268	+	Missense_Mutation	SNP	G	G	T	rs770995848	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1447G>T	p.Asp483Tyr	p.D483Y	ENST00000458420	9/17	125	107	18	111	111	0	CLSTN2,missense_variant,p.Asp483Tyr,ENST00000458420,;CLSTN2,non_coding_transcript_exon_variant,,ENST00000511524,;	T	ENSG00000158258	ENST00000458420	Transcript	missense_variant	1637	1447	483	D/Y	Gac/Tac	rs770995848	.	.	1	CLSTN2	HGNC	17448	protein_coding	YES	CCDS3112.1	ENSP00000402460	CSTN2_HUMAN	B3KUA5_HUMAN,B3KU27_HUMAN	UPI00001B0051	.	deleterious(0)	probably_damaging(0.999)	9/17	.	hmmpanther:PTHR14139,hmmpanther:PTHR14139:SF3,Pfam_domain:PF13385,Gene3D:2.60.120.200,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAACGACTGG	.	4	BLCA
GRK7	0	.	GRCh37	3	141535745	141535745	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1515C>T	p.%3D	p.F505F	ENST00000264952	4/4	296	252	44	212	212	0	GRK7,synonymous_variant,p.%3D,ENST00000264952,;	T	ENSG00000114124	ENST00000264952	Transcript	synonymous_variant	1652	1515	505	F	ttC/ttT	.	.	.	1	GRK7	HGNC	17031	protein_coding	YES	CCDS3120.1	ENSP00000264952	GRK7_HUMAN	.	UPI000004244D	.	.	.	4/4	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51285,hmmpanther:PTHR24355,hmmpanther:PTHR24355:SF12,SMART_domains:SM00133,Superfamily_domains:SSF56112,Prints_domain:PR00717	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCAAAAA	.	4	BLCA
XRN1	0	.	GRCh37	3	142031975	142031975	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4657+3G>A	.	.	ENST00000264951	.	204	172	32	137	136	0	XRN1,splice_region_variant,,ENST00000264951,;XRN1,intron_variant,,ENST00000498077,;XRN1,intron_variant,,ENST00000392981,;	T	ENSG00000114127	ENST00000264951	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	XRN1	HGNC	30654	protein_coding	YES	CCDS3123.1	ENSP00000264951	XRN1_HUMAN	C9JCZ8_HUMAN	UPI0000074113	.	.	.	.	40/41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GATCTCACCTG	.	3	BLCA
CAPN7	0	.	GRCh37	3	15288273	15288273	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2045T>G	p.Ile682Ser	p.I682S	ENST00000253693	18/21	55	50	5	46	46	0	CAPN7,missense_variant,p.Ile682Ser,ENST00000253693,;CAPN7,3_prime_UTR_variant,,ENST00000443567,;CAPN7,non_coding_transcript_exon_variant,,ENST00000463417,;CAPN7,upstream_gene_variant,,ENST00000472400,;	G	ENSG00000131375	ENST00000253693	Transcript	missense_variant	2298	2045	682	I/S	aTt/aGt	.	.	.	1	CAPN7	HGNC	1484	protein_coding	YES	CCDS2624.1	ENSP00000253693	CAN7_HUMAN	.	UPI0000038A6D	.	deleterious(0)	probably_damaging(0.923)	18/21	.	Superfamily_domains:SSF49758,hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAGATTCCTT	.	2	BLCA
CAPN7	0	.	GRCh37	3	15288279	15288279	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2051C>T	p.Ser684Leu	p.S684L	ENST00000253693	18/21	54	50	4	48	48	0	CAPN7,missense_variant,p.Ser684Leu,ENST00000253693,;CAPN7,3_prime_UTR_variant,,ENST00000443567,;CAPN7,non_coding_transcript_exon_variant,,ENST00000463417,;CAPN7,upstream_gene_variant,,ENST00000472400,;	T	ENSG00000131375	ENST00000253693	Transcript	missense_variant	2304	2051	684	S/L	tCa/tTa	.	.	.	1	CAPN7	HGNC	1484	protein_coding	YES	CCDS2624.1	ENSP00000253693	CAN7_HUMAN	.	UPI0000038A6D	.	tolerated(0.08)	benign(0.004)	18/21	.	hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTTCACCAT	.	2	BLCA
DHX36	0	.	GRCh37	3	154033931	154033931	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>A	p.Glu89Lys	p.E89K	ENST00000496811	2/25	52	44	8	35	35	0	DHX36,missense_variant,p.Glu3Lys,ENST00000481941,;DHX36,missense_variant,p.Glu89Lys,ENST00000496811,;DHX36,missense_variant,p.Glu89Lys,ENST00000544526,;DHX36,missense_variant,p.Glu89Lys,ENST00000308361,;DHX36,missense_variant,p.Glu89Lys,ENST00000329463,;DHX36,non_coding_transcript_exon_variant,,ENST00000491011,;DHX36,upstream_gene_variant,,ENST00000462464,;	T	ENSG00000174953	ENST00000496811	Transcript	missense_variant	346	265	89	E/K	Gaa/Aaa	.	.	.	-1	DHX36	HGNC	14410	protein_coding	YES	CCDS3171.1	ENSP00000417078	DHX36_HUMAN	E7EWK3_HUMAN	UPI000013ED25	.	tolerated(0.17)	benign(0.14)	2/25	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF100	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGTTCATCCA	.	5	BLCA
COLQ	0	.	GRCh37	3	15520507	15520507	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370G>C	p.Glu124Gln	p.E124Q	ENST00000383788	5/17	97	82	15	87	87	0	COLQ,missense_variant,p.Glu124Gln,ENST00000383788,;COLQ,missense_variant,p.Glu114Gln,ENST00000383781,;COLQ,missense_variant,p.Glu124Gln,ENST00000603808,;COLQ,missense_variant,p.Glu67Gln,ENST00000605797,;COLQ,missense_variant,p.Glu90Gln,ENST00000383786,;COLQ,missense_variant,p.Glu114Gln,ENST00000435459,;COLQ,missense_variant,p.Glu124Gln,ENST00000383785,;COLQ,intron_variant,,ENST00000383787,;COLQ,non_coding_transcript_exon_variant,,ENST00000603469,;COLQ,upstream_gene_variant,,ENST00000604401,;	G	ENSG00000206561	ENST00000383788	Transcript	missense_variant	496	370	124	E/Q	Gag/Cag	.	.	.	-1	COLQ	HGNC	2226	protein_coding	YES	CCDS33709.1	ENSP00000373298	COLQ_HUMAN	.	UPI000013F74C	.	deleterious(0.03)	unknown(0)	5/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTCCCCCT	.	5	BLCA
LRRC34	0	.	GRCh37	3	169511388	169511388	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*35C>G	.	.	ENST00000446859	11/11	36	29	6	29	29	0	LRRC34,3_prime_UTR_variant,,ENST00000316515,;LRRC34,3_prime_UTR_variant,,ENST00000528597,;LRRC34,3_prime_UTR_variant,,ENST00000446859,;LRRC34,3_prime_UTR_variant,,ENST00000522526,;LRRC34,3_prime_UTR_variant,,ENST00000522830,;MYNN,downstream_gene_variant,,ENST00000349841,;MYNN,downstream_gene_variant,,ENST00000544106,;RP11-362K14.7,non_coding_transcript_exon_variant,,ENST00000602913,;RP11-362K14.6,upstream_gene_variant,,ENST00000602835,;LRRC34,non_coding_transcript_exon_variant,,ENST00000518252,;LRRC34,non_coding_transcript_exon_variant,,ENST00000522329,;LRRC34,downstream_gene_variant,,ENST00000602774,;LRRC34,downstream_gene_variant,,ENST00000524327,;LRRC34,downstream_gene_variant,,ENST00000524054,;LRRC34,non_coding_transcript_exon_variant,,ENST00000522596,;LRRC34,downstream_gene_variant,,ENST00000522080,;	C	ENSG00000171757	ENST00000446859	Transcript	3_prime_UTR_variant	1546	.	.	.	.	.	.	.	-1	LRRC34	HGNC	28408	protein_coding	YES	CCDS54672.1	ENSP00000414635	LRC34_HUMAN	G3V115_HUMAN	UPI0000E5AA9B	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATAAGACAAG	.	2	BLCA
LRRIQ4	0	.	GRCh37	3	169539714	169539714	+	Nonsense_Mutation	SNP	C	C	G	rs763052671	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5C>G	p.Ser2Ter	p.S2*	ENST00000340806	1/5	54	50	4	44	44	0	LRRIQ4,stop_gained,p.Ser2Ter,ENST00000340806,;	G	ENSG00000188306	ENST00000340806	Transcript	stop_gained	5	5	2	S/*	tCa/tGa	rs763052671	.	.	1	LRRIQ4	HGNC	34298	protein_coding	YES	CCDS46951.1	ENSP00000342188	LRIQ4_HUMAN	.	UPI0000197671	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATGTCAAAAG	.	2	BLCA
LRRIQ4	0	.	GRCh37	3	169539937	169539937	+	Silent	SNP	C	C	G	rs758139638	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228C>G	p.%3D	p.L76L	ENST00000340806	1/5	120	101	18	111	111	0	LRRIQ4,synonymous_variant,p.%3D,ENST00000340806,;	G	ENSG00000188306	ENST00000340806	Transcript	synonymous_variant	228	228	76	L	ctC/ctG	rs758139638,COSM3846701	.	.	1	LRRIQ4	HGNC	34298	protein_coding	YES	CCDS46951.1	ENSP00000342188	LRIQ4_HUMAN	.	UPI0000197671	.	.	.	1/5	.	Superfamily_domains:SSF52058,SMART_domains:SM00369,Pfam_domain:PF13855,Gene3D:3.80.10.10,hmmpanther:PTHR23155,hmmpanther:PTHR23155:SF481,PROSITE_profiles:PS51450	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCTACCT	.	5	BLCA
SPATA16	0	.	GRCh37	3	172607390	172607390	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1680G>C	p.Met560Ile	p.M560I	ENST00000351008	11/11	187	159	27	145	144	0	SPATA16,missense_variant,p.Met560Ile,ENST00000351008,;	G	ENSG00000144962	ENST00000351008	Transcript	missense_variant	1864	1680	560	M/I	atG/atC	COSM3590322	.	.	-1	SPATA16	HGNC	29935	protein_coding	YES	CCDS3221.1	ENSP00000341765	SPT16_HUMAN	.	UPI000013D9BF	.	deleterious(0.04)	benign(0.043)	11/11	.	Pfam_domain:PF15015	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTTCATTTT	.	4	BLCA
HTR3C	0	.	GRCh37	3	183774037	183774037	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.352G>A	p.Glu118Lys	p.E118K	ENST00000318351	4/9	149	119	29	91	91	0	HTR3C,missense_variant,p.Glu118Lys,ENST00000318351,;	A	ENSG00000178084	ENST00000318351	Transcript	missense_variant	386	352	118	E/K	Gaa/Aaa	.	.	.	1	HTR3C	HGNC	24003	protein_coding	YES	CCDS3250.1	ENSP00000322617	5HT3C_HUMAN	.	UPI00001402D6	.	tolerated(0.45)	benign(0.02)	4/9	.	hmmpanther:PTHR18945:SF409,hmmpanther:PTHR18945,Gene3D:2.70.170.10,Pfam_domain:PF02931,Superfamily_domains:0038932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCTGAAAAC	.	5	BLCA
KNG1	0	.	GRCh37	3	186459949	186459949	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1764C>T	p.%3D	p.I588I	ENST00000265023	10/10	141	116	24	122	122	0	KNG1,synonymous_variant,p.%3D,ENST00000265023,;KNG1,intron_variant,,ENST00000447445,;KNG1,intron_variant,,ENST00000287611,;RP11-573D15.8,intron_variant,,ENST00000354642,;RP11-573D15.8,intron_variant,,ENST00000599314,;RP11-573D15.8,downstream_gene_variant,,ENST00000596632,;RP11-573D15.8,downstream_gene_variant,,ENST00000596329,;RP11-573D15.8,downstream_gene_variant,,ENST00000609726,;RP11-573D15.8,downstream_gene_variant,,ENST00000609652,;	T	ENSG00000113889	ENST00000265023	Transcript	synonymous_variant	1976	1764	588	I	atC/atT	.	.	.	1	KNG1	HGNC	6383	protein_coding	YES	CCDS43183.1	ENSP00000265023	KNG1_HUMAN	.	UPI000013D5AC	.	.	.	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13814,hmmpanther:PTHR13814:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCCCTGA	.	4	BLCA
EIF4A2	0	.	GRCh37	3	186501371	186501371	+	5'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-29C>T	.	.	ENST00000323963	1/11	107	94	12	99	99	0	EIF4A2,5_prime_UTR_variant,,ENST00000445596,;EIF4A2,5_prime_UTR_variant,,ENST00000323963,;EIF4A2,5_prime_UTR_variant,,ENST00000441007,;EIF4A2,5_prime_UTR_variant,,ENST00000440191,;EIF4A2,upstream_gene_variant,,ENST00000356531,;EIF4A2,upstream_gene_variant,,ENST00000498746,;SNORA81,upstream_gene_variant,,ENST00000408493,;SNORA63,upstream_gene_variant,,ENST00000363548,;SNORD2,upstream_gene_variant,,ENST00000459163,;SNORA4,upstream_gene_variant,,ENST00000584302,;SNORA63,upstream_gene_variant,,ENST00000363450,;RP11-573D15.9,non_coding_transcript_exon_variant,,ENST00000577781,;EIF4A2,5_prime_UTR_variant,,ENST00000426808,;EIF4A2,5_prime_UTR_variant,,ENST00000429589,;EIF4A2,5_prime_UTR_variant,,ENST00000425053,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465032,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465222,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000491473,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000495049,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465267,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000486805,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000485101,;EIF4A2,upstream_gene_variant,,ENST00000497177,;EIF4A2,upstream_gene_variant,,ENST00000475409,;EIF4A2,upstream_gene_variant,,ENST00000475653,;EIF4A2,upstream_gene_variant,,ENST00000443963,;EIF4A2,upstream_gene_variant,,ENST00000468362,;EIF4A2,upstream_gene_variant,,ENST00000467585,;EIF4A2,upstream_gene_variant,,ENST00000496382,;EIF4A2,upstream_gene_variant,,ENST00000465792,;EIF4A2,upstream_gene_variant,,ENST00000466362,;EIF4A2,upstream_gene_variant,,ENST00000492144,;EIF4A2,upstream_gene_variant,,ENST00000461021,;EIF4A2,upstream_gene_variant,,ENST00000494445,;	T	ENSG00000156976	ENST00000323963	Transcript	5_prime_UTR_variant	36	.	.	.	.	.	.	.	1	EIF4A2	HGNC	3284	protein_coding	YES	CCDS3282.1	ENSP00000326381	IF4A2_HUMAN	Q96B07_HUMAN,J3KSN7_HUMAN,E7EMV8_HUMAN,C9JUF0_HUMAN	UPI0000000DD2	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTTTCAGTCG	.	3	BLCA
ST6GAL1	0	.	GRCh37	3	186760546	186760546	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.55C>T	p.%3D	p.L19L	ENST00000169298	4/8	211	175	36	201	201	0	ST6GAL1,synonymous_variant,p.%3D,ENST00000448408,;ST6GAL1,synonymous_variant,p.%3D,ENST00000440338,;ST6GAL1,synonymous_variant,p.%3D,ENST00000458216,;ST6GAL1,synonymous_variant,p.%3D,ENST00000448044,;ST6GAL1,synonymous_variant,p.%3D,ENST00000438590,;ST6GAL1,synonymous_variant,p.%3D,ENST00000423451,;ST6GAL1,synonymous_variant,p.%3D,ENST00000416235,;ST6GAL1,synonymous_variant,p.%3D,ENST00000446170,;ST6GAL1,synonymous_variant,p.%3D,ENST00000430309,;ST6GAL1,synonymous_variant,p.%3D,ENST00000169298,;ST6GAL1,synonymous_variant,p.%3D,ENST00000417392,;ST6GAL1,intron_variant,,ENST00000457772,;ST6GAL1,intron_variant,,ENST00000455441,;ST6GAL1,intron_variant,,ENST00000427315,;ST6GAL1,upstream_gene_variant,,ENST00000442023,;ST6GAL1,upstream_gene_variant,,ENST00000464827,;ST6GAL1,upstream_gene_variant,,ENST00000448449,;	T	ENSG00000073849	ENST00000169298	Transcript	synonymous_variant	729	55	19	L	Ctg/Ttg	.	.	.	1	ST6GAL1	HGNC	10860	protein_coding	YES	CCDS3285.1	ENSP00000169298	SIAT1_HUMAN	C9K0R8_HUMAN,C9JVK7_HUMAN,C9JTR0_HUMAN,C9JR47_HUMAN,C9JPG6_HUMAN,C9JKG0_HUMAN,C9JI90_HUMAN,C9JH16_HUMAN,C9JFM4_HUMAN,C9JAT4_HUMAN,C9J6X5_HUMAN,C9IYS8_HUMAN,B2R513_HUMAN	UPI000000D97B	.	.	.	4/8	.	PIRSF_domain:PIRSF005557,hmmpanther:PTHR13713,hmmpanther:PTHR13713:SF34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTGTTT	.	4	BLCA
TP63	0	.	GRCh37	3	189612186	189612186	+	Silent	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1938C>G	p.%3D	p.L646L	ENST00000264731	14/14	110	86	24	87	87	0	TP63,synonymous_variant,p.%3D,ENST00000354600,;TP63,synonymous_variant,p.%3D,ENST00000456148,;TP63,synonymous_variant,p.%3D,ENST00000440651,;TP63,synonymous_variant,p.%3D,ENST00000449992,;TP63,synonymous_variant,p.%3D,ENST00000264731,;TP63,synonymous_variant,p.%3D,ENST00000382063,;TP63,3_prime_UTR_variant,,ENST00000320472,;TP63,downstream_gene_variant,,ENST00000392461,;TP63,downstream_gene_variant,,ENST00000392460,;TP63,downstream_gene_variant,,ENST00000392463,;	G	ENSG00000073282	ENST00000264731	Transcript	synonymous_variant	2027	1938	646	L	ctC/ctG	COSM3591246,COSM3591247	.	.	1	TP63	HGNC	15979	protein_coding	YES	CCDS3293.1	ENSP00000264731	P63_HUMAN	.	UPI0000073CF2	.	.	.	14/14	.	hmmpanther:PTHR11447,hmmpanther:PTHR11447:SF8	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R643Q|c.1928G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCCGCCA	.	5	BLCA
FGF12	0	.	GRCh37	3	191888250	191888250	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610G>A	p.Glu204Lys	p.E204K	ENST00000454309	4/5	124	102	22	103	103	0	FGF12,missense_variant,p.Glu142Lys,ENST00000450716,;FGF12,missense_variant,p.Glu118Lys,ENST00000448795,;FGF12,missense_variant,p.Glu142Lys,ENST00000445105,;FGF12,missense_variant,p.Glu99Lys,ENST00000440901,;FGF12,missense_variant,p.Glu105Lys,ENST00000430714,;FGF12,missense_variant,p.Glu204Lys,ENST00000454309,;FGF12,missense_variant,p.Glu142Lys,ENST00000264730,;FGF12,downstream_gene_variant,,ENST00000418610,;	T	ENSG00000114279	ENST00000454309	Transcript	missense_variant	1436	610	204	E/K	Gaa/Aaa	.	.	.	-1	FGF12	HGNC	3668	protein_coding	YES	CCDS3301.1	ENSP00000413496	FGF12_HUMAN	C9JUK8_HUMAN	UPI0000003FDD	.	tolerated(0.13)	benign(0.019)	4/5	.	Superfamily_domains:SSF50353,Gene3D:2.80.10.50,hmmpanther:PTHR11486,hmmpanther:PTHR11486:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCAATAG	.	4	BLCA
ATP13A5	0	.	GRCh37	3	193002713	193002713	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3216C>G	p.Ile1072Met	p.I1072M	ENST00000342358	27/30	37	33	4	41	41	0	ATP13A5,missense_variant,p.Ile1072Met,ENST00000342358,;ATP13A5,non_coding_transcript_exon_variant,,ENST00000495496,;	C	ENSG00000187527	ENST00000342358	Transcript	missense_variant	3334	3216	1072	I/M	atC/atG	.	.	.	-1	ATP13A5	HGNC	31789	protein_coding	YES	CCDS33914.1	ENSP00000341942	AT135_HUMAN	.	UPI000050EC1D	.	deleterious(0.01)	probably_damaging(0.91)	27/30	.	Transmembrane_helices:TMhelix,Superfamily_domains:0049473,TIGRFAM_domain:TIGR01657,hmmpanther:PTHR24093:SF237,hmmpanther:PTHR24093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R1069Q|c.3206G>A|3	MUTECT|MUSE	GTATAGATGGG	.	2	BLCA
LRRC15	0	.	GRCh37	3	194081015	194081015	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.776C>G	p.Ser259Cys	p.S259C	ENST00000439944	2/2	78	62	15	73	73	0	LRRC15,missense_variant,p.Ser253Cys,ENST00000347624,;LRRC15,missense_variant,p.Ser259Cys,ENST00000439944,;LRRC15,missense_variant,p.Ser259Cys,ENST00000428839,;	C	ENSG00000172061	ENST00000439944	Transcript	missense_variant	776	776	259	S/C	tCc/tGc	.	.	.	-1	LRRC15	HGNC	20818	protein_coding	YES	CCDS46984.1	ENSP00000389128	LRC15_HUMAN	.	UPI000153D75D	.	deleterious(0)	probably_damaging(0.992)	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369:SF15,hmmpanther:PTHR24369,Pfam_domain:PF12799,Gene3D:3.80.10.10,SMART_domains:SM00364,SMART_domains:SM00369,SMART_domains:SM00365,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTGGACAGG	.	5	BLCA
MUC4	0	.	GRCh37	3	195516581	195516581	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1870A>T	p.Thr624Ser	p.T624S	ENST00000463781	2/25	276	233	42	280	280	0	MUC4,missense_variant,p.Thr624Ser,ENST00000475231,;MUC4,missense_variant,p.Thr624Ser,ENST00000463781,;MUC4,intron_variant,,ENST00000346145,;MUC4,intron_variant,,ENST00000349607,;MUC4,missense_variant,p.Thr624Ser,ENST00000477086,;MUC4,missense_variant,p.Thr624Ser,ENST00000466475,;MUC4,missense_variant,p.Thr624Ser,ENST00000478156,;MUC4,missense_variant,p.Thr624Ser,ENST00000470451,;MUC4,missense_variant,p.Thr624Ser,ENST00000479406,;MUC4,missense_variant,p.Thr624Ser,ENST00000477756,;MUC4,missense_variant,p.Thr624Ser,ENST00000462323,;MUC4,missense_variant,p.Thr624Ser,ENST00000480843,;	A	ENSG00000145113	ENST00000463781	Transcript	missense_variant	2330	1870	624	T/S	Aca/Tca	.	.	.	-1	MUC4	HGNC	7514	protein_coding	YES	CCDS54700.1	ENSP00000417498	.	O75456_HUMAN,E9PDY6_HUMAN	UPI0001B3CB30	.	.	unknown(0)	2/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTGTGGAAT	.	4	BLCA
NR1D2	0	.	GRCh37	3	24006504	24006504	+	Missense_Mutation	SNP	C	C	G	rs771305840	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1183C>G	p.His395Asp	p.H395D	ENST00000312521	6/8	158	141	16	117	117	0	NR1D2,missense_variant,p.His395Asp,ENST00000312521,;NR1D2,non_coding_transcript_exon_variant,,ENST00000492552,;NR1D2,3_prime_UTR_variant,,ENST00000383773,;NR1D2,non_coding_transcript_exon_variant,,ENST00000472780,;NR1D2,downstream_gene_variant,,ENST00000468700,;	G	ENSG00000174738	ENST00000312521	Transcript	missense_variant	1502	1183	395	H/D	Cat/Gat	rs771305840	.	.	1	NR1D2	HGNC	7963	protein_coding	YES	CCDS33718.1	ENSP00000310006	NR1D2_HUMAN	.	UPI0000209A6C	.	tolerated(0.57)	benign(0.008)	6/8	.	hmmpanther:PTHR24082,hmmpanther:PTHR24082:SF112,Pfam_domain:PF00104,Superfamily_domains:SSF48508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	ATCCTCATAAA	.	3	BLCA
PDCD6IP	0	.	GRCh37	3	33877665	33877665	+	Nonsense_Mutation	SNP	C	C	T	rs757693835	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.979C>T	p.Arg327Ter	p.R327*	ENST00000457054	8/18	167	147	20	122	122	0	PDCD6IP,stop_gained,p.Arg327Ter,ENST00000457054,;PDCD6IP,stop_gained,p.Arg322Ter,ENST00000307296,;PDCD6IP,downstream_gene_variant,,ENST00000482561,;PDCD6IP,3_prime_UTR_variant,,ENST00000412887,;PDCD6IP,non_coding_transcript_exon_variant,,ENST00000487821,;	T	ENSG00000170248	ENST00000457054	Transcript	stop_gained	1134	979	327	R/*	Cga/Tga	rs757693835	.	.	1	PDCD6IP	HGNC	8766	protein_coding	YES	CCDS54561.1	ENSP00000411825	PDC6I_HUMAN	.	UPI00004121D3	.	.	.	8/18	.	PROSITE_profiles:PS51180,hmmpanther:PTHR23030:SF19,hmmpanther:PTHR23030,Pfam_domain:PF03097,Gene3D:2xs1A01,SMART_domains:SM01041	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGATCGAGTT	.	4	BLCA
PDCD6IP	0	.	GRCh37	3	33886985	33886985	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1561C>G	p.His521Asp	p.H521D	ENST00000457054	12/18	95	72	22	89	89	0	PDCD6IP,missense_variant,p.His521Asp,ENST00000457054,;PDCD6IP,missense_variant,p.His516Asp,ENST00000307296,;PDCD6IP,non_coding_transcript_exon_variant,,ENST00000465122,;PDCD6IP,downstream_gene_variant,,ENST00000412887,;	G	ENSG00000170248	ENST00000457054	Transcript	missense_variant	1716	1561	521	H/D	Cat/Gat	COSM1537620	.	.	1	PDCD6IP	HGNC	8766	protein_coding	YES	CCDS54561.1	ENSP00000411825	PDC6I_HUMAN	.	UPI00004121D3	.	deleterious(0.01)	possibly_damaging(0.581)	12/18	.	hmmpanther:PTHR23030:SF19,hmmpanther:PTHR23030,Pfam_domain:PF13949,Gene3D:2xs1A03	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCATCGT	.	5	BLCA
VILL	0	.	GRCh37	3	38045803	38045803	+	Missense_Mutation	SNP	G	G	A	rs759154079	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1863G>A	p.Met621Ile	p.M621I	ENST00000283713	16/20	42	27	14	45	45	0	VILL,missense_variant,p.Met621Ile,ENST00000383759,;VILL,missense_variant,p.Met339Ile,ENST00000465644,;VILL,missense_variant,p.Met621Ile,ENST00000283713,;PLCD1,downstream_gene_variant,,ENST00000463876,;PLCD1,downstream_gene_variant,,ENST00000334661,;VILL,non_coding_transcript_exon_variant,,ENST00000486616,;VILL,non_coding_transcript_exon_variant,,ENST00000488209,;PLCD1,downstream_gene_variant,,ENST00000484829,;VILL,downstream_gene_variant,,ENST00000412008,;PLCD1,downstream_gene_variant,,ENST00000461445,;VILL,downstream_gene_variant,,ENST00000463080,;PLCD1,downstream_gene_variant,,ENST00000495367,;PLCD1,downstream_gene_variant,,ENST00000495395,;PLCD1,downstream_gene_variant,,ENST00000417185,;VILL,downstream_gene_variant,,ENST00000484717,;	A	ENSG00000136059	ENST00000283713	Transcript	missense_variant	2129	1863	621	M/I	atG/atA	rs759154079	.	.	1	VILL	HGNC	30906	protein_coding	YES	CCDS2670.2	ENSP00000283713	VILL_HUMAN	E9PFV5_HUMAN,C9JUR8_HUMAN	UPI000022BFB0	.	deleterious(0)	benign(0.045)	16/20	.	hmmpanther:PTHR11977:SF30,hmmpanther:PTHR11977,Gene3D:3.40.20.10,SMART_domains:SM00262,Superfamily_domains:SSF55753	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACATGGGCTG	.	5	BLCA
DLEC1	0	.	GRCh37	3	38104127	38104127	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929G>A	p.Arg310Lys	p.R310K	ENST00000308059	5/37	70	53	16	61	61	0	DLEC1,missense_variant,p.Arg310Lys,ENST00000308059,;DLEC1,missense_variant,p.Arg310Lys,ENST00000346219,;DLEC1,missense_variant,p.Arg310Lys,ENST00000452631,;DLEC1,upstream_gene_variant,,ENST00000469151,;DLEC1,non_coding_transcript_exon_variant,,ENST00000440294,;DLEC1,upstream_gene_variant,,ENST00000447130,;	A	ENSG00000008226	ENST00000308059	Transcript	missense_variant	950	929	310	R/K	aGa/aAa	.	.	.	1	DLEC1	HGNC	2899	protein_coding	YES	CCDS2672.2	ENSP00000308597	DLEC1_HUMAN	.	UPI00006EB134	.	tolerated(0.12)	possibly_damaging(0.828)	5/37	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGAGAGAGC	.	5	BLCA
LRRN1	0	.	GRCh37	3	3886952	3886952	+	Missense_Mutation	SNP	G	G	C	rs750597257	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627G>C	p.Met209Ile	p.M209I	ENST00000319331	2/2	214	187	27	169	169	0	LRRN1,missense_variant,p.Met209Ile,ENST00000319331,;SUMF1,intron_variant,,ENST00000534863,;LRRN1,downstream_gene_variant,,ENST00000496115,;SUMF1,intron_variant,,ENST00000448413,;	C	ENSG00000175928	ENST00000319331	Transcript	missense_variant	1388	627	209	M/I	atG/atC	rs750597257,COSM2987105	.	.	1	LRRN1	HGNC	20980	protein_coding	YES	CCDS33685.1	ENSP00000314901	LRRN1_HUMAN	.	UPI0000034CB8	.	deleterious(0.01)	benign(0.088)	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF97,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATATGAACTT	.	4	BLCA
CCR8	0	.	GRCh37	3	39374924	39374924	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*34C>G	.	.	ENST00000326306	2/2	22	18	4	14	14	0	CCR8,3_prime_UTR_variant,,ENST00000414803,;CCR8,3_prime_UTR_variant,,ENST00000326306,;CCR8,3_prime_UTR_variant,,ENST00000545843,;RP11-241K18.2,downstream_gene_variant,,ENST00000435940,;HNRNPA1P21,upstream_gene_variant,,ENST00000424115,;	G	ENSG00000179934	ENST00000326306	Transcript	3_prime_UTR_variant	1240	.	.	.	.	.	.	.	1	CCR8	HGNC	1609	protein_coding	YES	CCDS2684.1	ENSP00000326432	CCR8_HUMAN	.	UPI0000043587	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATTTTCTTGAA	.	3	BLCA
ENTPD3	0	.	GRCh37	3	40453376	40453376	+	Silent	SNP	C	C	G	rs762056205	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.360C>G	p.%3D	p.V120V	ENST00000301825	5/11	126	114	12	89	89	0	ENTPD3,synonymous_variant,p.%3D,ENST00000445129,;ENTPD3,synonymous_variant,p.%3D,ENST00000456402,;ENTPD3,synonymous_variant,p.%3D,ENST00000301825,;ENTPD3-AS1,intron_variant,,ENST00000425156,;ENTPD3-AS1,intron_variant,,ENST00000452768,;ENTPD3-AS1,intron_variant,,ENST00000439293,;	G	ENSG00000168032	ENST00000301825	Transcript	synonymous_variant	478	360	120	V	gtC/gtG	rs762056205	.	.	1	ENTPD3	HGNC	3365	protein_coding	YES	CCDS2691.1	ENSP00000301825	ENTP3_HUMAN	.	UPI000013E75E	.	.	.	5/11	.	hmmpanther:PTHR11782,hmmpanther:PTHR11782:SF38,Pfam_domain:PF01150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAGTCAAGGG	byFrequency	3	BLCA
KLHL40	0	.	GRCh37	3	42727309	42727309	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199G>C	p.Glu67Gln	p.E67Q	ENST00000287777	1/6	27	18	9	28	28	0	KLHL40,missense_variant,p.Glu67Gln,ENST00000287777,;	C	ENSG00000157119	ENST00000287777	Transcript	missense_variant	299	199	67	E/Q	Gag/Cag	.	.	.	1	KLHL40	HGNC	30372	protein_coding	YES	CCDS2703.1	ENSP00000287777	KLH40_HUMAN	.	UPI000000D866	.	deleterious(0.03)	possibly_damaging(0.451)	1/6	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF22,Pfam_domain:PF00651,Gene3D:3.30.710.10,SMART_domains:SM00225,PIRSF_domain:PIRSF037037,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	AGCCGGAGCGC	.	4	BLCA
ZNF852	0	.	GRCh37	3	44541961	44541961	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.308C>T	p.Ser103Leu	p.S103L	ENST00000436261	4/4	39	30	9	38	38	0	ZNF852,missense_variant,p.Ser103Leu,ENST00000436261,;ZNF852,non_coding_transcript_exon_variant,,ENST00000489411,;ZNF852,non_coding_transcript_exon_variant,,ENST00000463067,;	A	ENSG00000178917	ENST00000436261	Transcript	missense_variant	469	308	103	S/L	tCa/tTa	.	.	.	-1	ZNF852	HGNC	27713	protein_coding	YES	.	ENSP00000389841	ZN852_HUMAN	.	UPI000198C97D	.	tolerated(0.23)	benign(0.019)	4/4	.	hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTGAGGGT	.	5	BLCA
KIF15	0	.	GRCh37	3	44869779	44869779	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2930G>C	p.Arg977Thr	p.R977T	ENST00000326047	24/35	52	47	5	41	41	0	KIF15,missense_variant,p.Arg612Thr,ENST00000425755,;KIF15,missense_variant,p.Arg977Thr,ENST00000326047,;KIF15,downstream_gene_variant,,ENST00000481166,;KIF15,3_prime_UTR_variant,,ENST00000438321,;KIF15,3_prime_UTR_variant,,ENST00000453693,;	C	ENSG00000163808	ENST00000326047	Transcript	missense_variant	3079	2930	977	R/T	aGa/aCa	.	.	.	1	KIF15	HGNC	17273	protein_coding	YES	CCDS33744.1	ENSP00000324020	KIF15_HUMAN	D6RCT7_HUMAN	UPI000006DB0E	.	tolerated(0.64)	benign(0.388)	24/35	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115:SF87,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTCTAGAGATT	.	3	BLCA
PTH1R	0	.	GRCh37	3	46945099	46945099	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1735G>C	p.Glu579Gln	p.E579Q	ENST00000313049	14/14	170	145	25	136	136	0	PTH1R,missense_variant,p.Glu579Gln,ENST00000430002,;PTH1R,missense_variant,p.Glu579Gln,ENST00000418619,;PTH1R,missense_variant,p.Glu579Gln,ENST00000449590,;PTH1R,missense_variant,p.Glu579Gln,ENST00000313049,;PTH1R,missense_variant,p.Glu168Gln,ENST00000422115,;PTH1R,downstream_gene_variant,,ENST00000427125,;PTH1R,downstream_gene_variant,,ENST00000490109,;PTH1R,3_prime_UTR_variant,,ENST00000428220,;	C	ENSG00000160801	ENST00000313049	Transcript	missense_variant	1938	1735	579	E/Q	Gag/Cag	.	.	.	1	PTH1R	HGNC	9608	protein_coding	YES	CCDS2747.1	ENSP00000321999	PTH1R_HUMAN	Q71UK6_HUMAN,E7EWE7_HUMAN	UPI000005041F	.	tolerated(0.17)	benign(0.019)	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTGAGCGG	.	4	BLCA
SETD2	0	.	GRCh37	3	47163962	47163962	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2164C>T	p.Gln722Ter	p.Q722*	ENST00000409792	3/21	156	128	28	105	105	0	SETD2,stop_gained,p.Gln722Ter,ENST00000409792,;SETD2,stop_gained,p.Gln678Ter,ENST00000412450,;SETD2,stop_gained,p.Gln356Ter,ENST00000445387,;SETD2,stop_gained,p.Gln594Ter,ENST00000330022,;SETD2,stop_gained,p.Gln440Ter,ENST00000431180,;	A	ENSG00000181555	ENST00000409792	Transcript	stop_gained	2207	2164	722	Q/*	Cag/Tag	COSM1732533,COSM1732532	.	.	-1	SETD2	HGNC	18420	protein_coding	YES	CCDS2749.2	ENSP00000386759	SETD2_HUMAN	C9JG86_HUMAN	UPI00017E10FB	.	.	.	3/21	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF294	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	ATTCTGAAATC	.	4	BLCA
SETD2	0	.	GRCh37	3	47164447	47164447	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1679C>T	p.Ser560Leu	p.S560L	ENST00000409792	3/21	165	140	25	110	110	0	SETD2,missense_variant,p.Ser560Leu,ENST00000409792,;SETD2,missense_variant,p.Ser516Leu,ENST00000412450,;SETD2,missense_variant,p.Ser194Leu,ENST00000445387,;SETD2,missense_variant,p.Ser432Leu,ENST00000330022,;SETD2,missense_variant,p.Ser278Leu,ENST00000431180,;	A	ENSG00000181555	ENST00000409792	Transcript	missense_variant	1722	1679	560	S/L	tCa/tTa	COSM1495564,COSM1732058,COSM1495563,COSM1732057	.	.	-1	SETD2	HGNC	18420	protein_coding	YES	CCDS2749.2	ENSP00000386759	SETD2_HUMAN	C9JG86_HUMAN	UPI00017E10FB	.	deleterious_low_confidence(0.02)	benign(0.293)	3/21	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF294	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTTGAAAGG	.	4	BLCA
SCAP	0	.	GRCh37	3	47468688	47468688	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696C>G	p.%3D	p.V232V	ENST00000265565	6/23	112	103	9	124	124	0	SCAP,synonymous_variant,p.%3D,ENST00000265565,;SCAP,intron_variant,,ENST00000545718,;SCAP,intron_variant,,ENST00000441517,;SCAP,downstream_gene_variant,,ENST00000416847,;SCAP,downstream_gene_variant,,ENST00000495603,;SCAP,upstream_gene_variant,,ENST00000468965,;SCAP,downstream_gene_variant,,ENST00000420588,;SCAP,non_coding_transcript_exon_variant,,ENST00000494938,;SCAP,intron_variant,,ENST00000428413,;SCAP,intron_variant,,ENST00000416208,;SCAP,intron_variant,,ENST00000320017,;SCAP,downstream_gene_variant,,ENST00000487942,;	C	ENSG00000114650	ENST00000265565	Transcript	synonymous_variant	1109	696	232	V	gtC/gtG	.	.	.	-1	SCAP	HGNC	30634	protein_coding	YES	CCDS2755.2	ENSP00000265565	SCAP_HUMAN	D6RA39_HUMAN,C9JQ35_HUMAN	UPI0000135624	.	.	.	6/23	.	hmmpanther:PTHR10796:SF53,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TAGGAGACCAT	.	3	BLCA
CSPG5	0	.	GRCh37	3	47619074	47619074	+	Missense_Mutation	SNP	C	C	T	rs747674278	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442G>A	p.Glu148Lys	p.E148K	ENST00000383738	2/5	79	67	12	73	73	0	CSPG5,missense_variant,p.Glu148Lys,ENST00000264723,;CSPG5,missense_variant,p.Glu148Lys,ENST00000383738,;CSPG5,missense_variant,p.Glu10Lys,ENST00000456150,;CSPG5,downstream_gene_variant,,ENST00000465441,;	T	ENSG00000114646	ENST00000383738	Transcript	missense_variant	2541	442	148	E/K	Gag/Aag	rs747674278	.	.	-1	CSPG5	HGNC	2467	protein_coding	YES	CCDS56253.1	ENSP00000373244	CSPG5_HUMAN	B7Z2E0_HUMAN	UPI0000D61AFE	.	deleterious_low_confidence(0.03)	benign(0.038)	2/5	.	Pfam_domain:PF06566,hmmpanther:PTHR15381,hmmpanther:PTHR15381:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTGTAG	byFrequency	5	BLCA
MST1	0	.	GRCh37	3	49725032	49725032	+	Silent	SNP	C	C	T	rs768061083	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312G>A	p.%3D	p.T104T	ENST00000449682	3/18	73	64	8	40	40	0	MST1,synonymous_variant,p.%3D,ENST00000449682,;MST1,synonymous_variant,p.%3D,ENST00000383728,;MST1,synonymous_variant,p.%3D,ENST00000545762,;APEH,downstream_gene_variant,,ENST00000296456,;APEH,downstream_gene_variant,,ENST00000438011,;RNF123,upstream_gene_variant,,ENST00000454491,;MST1,upstream_gene_variant,,ENST00000448220,;RNF123,upstream_gene_variant,,ENST00000327697,;RNF123,upstream_gene_variant,,ENST00000432042,;MST1,non_coding_transcript_exon_variant,,ENST00000494828,;MST1,downstream_gene_variant,,ENST00000491943,;MST1,non_coding_transcript_exon_variant,,ENST00000488350,;MST1,non_coding_transcript_exon_variant,,ENST00000492370,;MST1,non_coding_transcript_exon_variant,,ENST00000481055,;MST1,non_coding_transcript_exon_variant,,ENST00000490966,;MST1,non_coding_transcript_exon_variant,,ENST00000484673,;MST1,upstream_gene_variant,,ENST00000494809,;APEH,downstream_gene_variant,,ENST00000480772,;APEH,downstream_gene_variant,,ENST00000469362,;RNF123,upstream_gene_variant,,ENST00000443204,;MST1,upstream_gene_variant,,ENST00000484144,;RNF123,upstream_gene_variant,,ENST00000486102,;RNF123,upstream_gene_variant,,ENST00000487805,;AC099668.5,upstream_gene_variant,,ENST00000563780,;MST1,upstream_gene_variant,,ENST00000498021,;MST1,upstream_gene_variant,,ENST00000479115,;MST1,upstream_gene_variant,,ENST00000484269,;MST1,upstream_gene_variant,,ENST00000489007,;MST1,upstream_gene_variant,,ENST00000497359,;MST1,upstream_gene_variant,,ENST00000481930,;MST1,upstream_gene_variant,,ENST00000468847,;MST1,upstream_gene_variant,,ENST00000493836,;MST1,upstream_gene_variant,,ENST00000480268,;MST1,upstream_gene_variant,,ENST00000492329,;RNF123,upstream_gene_variant,,ENST00000457726,;	T	ENSG00000173531	ENST00000449682	Transcript	synonymous_variant	674	312	104	T	acG/acA	rs768061083	.	.	-1	MST1	HGNC	7380	protein_coding	YES	CCDS33757.2	ENSP00000414287	.	G3XAK1_HUMAN	UPI0000EE2A31	.	.	.	3/18	.	PROSITE_profiles:PS50948,hmmpanther:PTHR24272,hmmpanther:PTHR24272:SF43,Gene3D:3.50.4.10,Pfam_domain:PF00024,PIRSF_domain:PIRSF001152,SMART_domains:SM00473,PIRSF_domain:PIRSF500185,Superfamily_domains:SSF57414	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTCGTGTG	.	4	BLCA
RBM6	0	.	GRCh37	3	50005788	50005788	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930G>A	p.%3D	p.V310V	ENST00000266022	3/21	88	74	13	72	71	0	RBM6,synonymous_variant,p.%3D,ENST00000266022,;RBM6,synonymous_variant,p.%3D,ENST00000443081,;RBM6,intron_variant,,ENST00000539992,;RBM6,intron_variant,,ENST00000442092,;RBM6,intron_variant,,ENST00000422955,;RBM6,downstream_gene_variant,,ENST00000433811,;RBM6,intron_variant,,ENST00000441115,;RBM6,downstream_gene_variant,,ENST00000491874,;RBM6,downstream_gene_variant,,ENST00000488807,;RBM6,synonymous_variant,p.%3D,ENST00000425608,;RBM6,synonymous_variant,p.%3D,ENST00000454079,;RBM6,intron_variant,,ENST00000419610,;RBM6,intron_variant,,ENST00000434592,;	A	ENSG00000004534	ENST00000266022	Transcript	synonymous_variant	1189	930	310	V	gtG/gtA	.	.	.	1	RBM6	HGNC	9903	protein_coding	YES	CCDS2809.1	ENSP00000266022	RBM6_HUMAN	E9PGM9_HUMAN,C9JSL1_HUMAN,C9JMC8_HUMAN,C9JII0_HUMAN,B4DNY1_HUMAN	UPI000013D6C0	.	.	.	3/21	.	hmmpanther:PTHR13948:SF22,hmmpanther:PTHR13948	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGTGAACAG	.	5	BLCA
EDEM1	0	.	GRCh37	3	5236909	5236909	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525C>G	p.Ile175Met	p.I175M	ENST00000256497	2/12	78	65	13	72	72	0	EDEM1,missense_variant,p.Ile175Met,ENST00000256497,;EDEM1,5_prime_UTR_variant,,ENST00000445686,;EDEM1,missense_variant,p.Ile46Met,ENST00000434243,;EDEM1,non_coding_transcript_exon_variant,,ENST00000465369,;EDEM1,non_coding_transcript_exon_variant,,ENST00000492751,;EDEM1,non_coding_transcript_exon_variant,,ENST00000465187,;	G	ENSG00000134109	ENST00000256497	Transcript	missense_variant	658	525	175	I/M	atC/atG	.	.	.	1	EDEM1	HGNC	18967	protein_coding	YES	CCDS33686.1	ENSP00000256497	EDEM1_HUMAN	.	UPI0000040633	.	tolerated(0.09)	probably_damaging(0.967)	2/12	.	hmmpanther:PTHR11742,hmmpanther:PTHR11742:SF25,Pfam_domain:PF01532,Gene3D:1.50.10.50,Superfamily_domains:SSF48225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATCAATGA	.	4	BLCA
BAP1	0	.	GRCh37	3	52437805	52437805	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1356C>G	p.%3D	p.L452L	ENST00000460680	13/17	93	75	18	69	69	0	BAP1,synonymous_variant,p.%3D,ENST00000296288,;BAP1,synonymous_variant,p.%3D,ENST00000460680,;BAP1,intron_variant,,ENST00000469613,;BAP1,upstream_gene_variant,,ENST00000478368,;DNAH1,downstream_gene_variant,,ENST00000420323,;BAP1,downstream_gene_variant,,ENST00000470173,;BAP1,non_coding_transcript_exon_variant,,ENST00000490804,;DNAH1,downstream_gene_variant,,ENST00000486752,;BAP1,downstream_gene_variant,,ENST00000490917,;DNAH1,downstream_gene_variant,,ENST00000490713,;BAP1,upstream_gene_variant,,ENST00000466093,;BAP1,downstream_gene_variant,,ENST00000483984,;DNAH1,downstream_gene_variant,,ENST00000488988,;BAP1,downstream_gene_variant,,ENST00000471532,;	C	ENSG00000163930	ENST00000460680	Transcript	synonymous_variant	1828	1356	452	L	ctC/ctG	.	.	.	-1	BAP1	HGNC	950	protein_coding	YES	CCDS2853.1	ENSP00000417132	BAP1_HUMAN	F8WEY5_HUMAN,C9J7L9_HUMAN	UPI0000071B3D	.	.	.	13/17	.	hmmpanther:PTHR10589:SF23,hmmpanther:PTHR10589	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGAGCTT	.	5	BLCA
NISCH	0	.	GRCh37	3	52526301	52526301	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4318C>T	p.His1440Tyr	p.H1440Y	ENST00000345716	21/21	248	209	38	204	202	1	NISCH,missense_variant,p.His1440Tyr,ENST00000479054,;NISCH,missense_variant,p.His1440Tyr,ENST00000345716,;STAB1,upstream_gene_variant,,ENST00000321725,;NISCH,downstream_gene_variant,,ENST00000488243,;NISCH,non_coding_transcript_exon_variant,,ENST00000489895,;STAB1,upstream_gene_variant,,ENST00000481607,;NISCH,downstream_gene_variant,,ENST00000467594,;STAB1,upstream_gene_variant,,ENST00000479355,;	T	ENSG00000010322	ENST00000345716	Transcript	missense_variant	4452	4318	1440	H/Y	Cat/Tat	.	.	.	1	NISCH	HGNC	18006	protein_coding	YES	CCDS33767.1	ENSP00000339958	NISCH_HUMAN	.	UPI000036715D	.	tolerated(0.07)	possibly_damaging(0.775)	21/21	.	hmmpanther:PTHR15454:SF7,hmmpanther:PTHR15454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGTCATGAC	.	4	BLCA
CACNA2D3	0	.	GRCh37	3	55043460	55043460	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2865G>A	p.Met955Ile	p.M955I	ENST00000474759	34/38	51	44	7	39	39	0	CACNA2D3,missense_variant,p.Met955Ile,ENST00000474759,;CACNA2D3,missense_variant,p.Met955Ile,ENST00000415676,;CACNA2D3,missense_variant,p.Met861Ile,ENST00000490478,;CACNA2D3,missense_variant,p.Met955Ile,ENST00000288197,;CACNA2D3,non_coding_transcript_exon_variant,,ENST00000478261,;CACNA2D3,3_prime_UTR_variant,,ENST00000471363,;CACNA2D3,non_coding_transcript_exon_variant,,ENST00000471865,;	A	ENSG00000157445	ENST00000474759	Transcript	missense_variant	2913	2865	955	M/I	atG/atA	.	.	.	1	CACNA2D3	HGNC	15460	protein_coding	YES	CCDS54598.1	ENSP00000419101	CA2D3_HUMAN	C9JAV5_HUMAN	UPI000004A7BF	.	tolerated(0.4)	benign(0.003)	34/38	.	hmmpanther:PTHR10166:SF25,hmmpanther:PTHR10166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATATGACAGC	.	4	BLCA
PDE12	0	.	GRCh37	3	57543279	57543279	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1173C>A	p.Phe391Leu	p.F391L	ENST00000311180	1/3	70	55	14	52	52	0	PDE12,missense_variant,p.Phe391Leu,ENST00000311180,;PDE12,missense_variant,p.Phe391Leu,ENST00000487257,;	A	ENSG00000174840	ENST00000311180	Transcript	missense_variant	1276	1173	391	F/L	ttC/ttA	.	.	.	1	PDE12	HGNC	25386	protein_coding	YES	CCDS33772.1	ENSP00000309142	PDE12_HUMAN	.	UPI000049DFA7	.	tolerated(0.13)	benign(0.309)	1/3	.	hmmpanther:PTHR12121:SF37,hmmpanther:PTHR12121,Gene3D:3.60.10.10,Pfam_domain:PF03372,Superfamily_domains:SSF56219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCAGCCT	.	5	BLCA
PDE12	0	.	GRCh37	3	57543322	57543322	+	Missense_Mutation	SNP	G	G	C	rs778808470	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216G>C	p.Glu406Gln	p.E406Q	ENST00000311180	1/3	87	78	9	78	78	0	PDE12,missense_variant,p.Glu406Gln,ENST00000311180,;PDE12,missense_variant,p.Glu406Gln,ENST00000487257,;	C	ENSG00000174840	ENST00000311180	Transcript	missense_variant	1319	1216	406	E/Q	Gag/Cag	rs778808470	.	.	1	PDE12	HGNC	25386	protein_coding	YES	CCDS33772.1	ENSP00000309142	PDE12_HUMAN	.	UPI000049DFA7	.	tolerated(0.59)	benign(0.006)	1/3	.	hmmpanther:PTHR12121:SF37,hmmpanther:PTHR12121,Gene3D:3.60.10.10,Pfam_domain:PF03372,Superfamily_domains:SSF56219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTCGAGTCC	.	4	BLCA
PRICKLE2	0	.	GRCh37	3	64133257	64133257	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.909G>C	p.Gln303His	p.Q303H	ENST00000295902	7/8	117	98	19	102	102	0	PRICKLE2,missense_variant,p.Gln303His,ENST00000295902,;PRICKLE2,missense_variant,p.Gln359His,ENST00000564377,;	G	ENSG00000163637	ENST00000295902	Transcript	missense_variant	1495	909	303	Q/H	caG/caC	.	.	.	-1	PRICKLE2	HGNC	20340	protein_coding	YES	CCDS2902.1	ENSP00000295902	PRIC2_HUMAN	C9JY03_HUMAN	UPI0000160A8B	.	tolerated(0.07)	benign(0.348)	7/8	.	PROSITE_profiles:PS50023,hmmpanther:PTHR24218:SF5,hmmpanther:PTHR24218,Gene3D:2.10.110.10,Pfam_domain:PF00412,SMART_domains:SM00132	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATCTGGCC	.	5	BLCA
LRIG1	0	.	GRCh37	3	66449420	66449420	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1206C>T	p.%3D	p.F402F	ENST00000273261	10/19	41	33	7	22	22	0	LRIG1,synonymous_variant,p.%3D,ENST00000383703,;LRIG1,synonymous_variant,p.%3D,ENST00000273261,;LRIG1,non_coding_transcript_exon_variant,,ENST00000496559,;LRIG1,non_coding_transcript_exon_variant,,ENST00000495037,;	A	ENSG00000144749	ENST00000273261	Transcript	synonymous_variant	1731	1206	402	F	ttC/ttT	.	.	.	-1	LRIG1	HGNC	17360	protein_coding	YES	CCDS33783.1	ENSP00000273261	LRIG1_HUMAN	.	UPI000004C5BE	.	.	.	10/19	.	Superfamily_domains:SSF52058,SMART_domains:SM00369,SMART_domains:SM00365,Gene3D:3.80.10.10,Pfam_domain:PF13855,hmmpanther:PTHR24367:SF245,hmmpanther:PTHR24367,PROSITE_profiles:PS51450	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGAGAATGC	.	5	BLCA
EOGT	0	.	GRCh37	3	69028848	69028848	+	Missense_Mutation	SNP	G	G	C	rs527394057	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1053C>G	p.Phe351Leu	p.F351L	ENST00000295571	13/15	85	69	16	63	63	0	EOGT,missense_variant,p.Phe159Leu,ENST00000540955,;EOGT,missense_variant,p.Phe334Leu,ENST00000540764,;EOGT,missense_variant,p.Phe435Leu,ENST00000383701,;EOGT,missense_variant,p.Phe351Leu,ENST00000295571,;EOGT,3_prime_UTR_variant,,ENST00000403140,;EOGT,non_coding_transcript_exon_variant,,ENST00000496647,;EOGT,downstream_gene_variant,,ENST00000480846,;	C	ENSG00000163378	ENST00000295571	Transcript	missense_variant	1458	1053	351	F/L	ttC/ttG	rs527394057	.	.	-1	EOGT	HGNC	28526	protein_coding	YES	CCDS2908.1	ENSP00000295571	EOGT_HUMAN	F5H225_HUMAN,C9JQM7_HUMAN,C9J4G5_HUMAN	UPI00002132FF	.	deleterious(0)	possibly_damaging(0.682)	13/15	.	hmmpanther:PTHR20961:SF3,hmmpanther:PTHR20961,Pfam_domain:PF04577	A:0.0080	A:0	A:0	.	A:0	A:0	A:0.0409	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAAGGAAAAG	byFrequency|byCluster|by1000G	5	BLCA
UBA3	0	.	GRCh37	3	69126979	69126979	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153C>T	p.%3D	p.F51F	ENST00000361055	3/18	257	205	52	194	194	0	UBA3,synonymous_variant,p.%3D,ENST00000361055,;UBA3,synonymous_variant,p.%3D,ENST00000415609,;UBA3,synonymous_variant,p.%3D,ENST00000349511,;UBA3,5_prime_UTR_variant,,ENST00000540295,;UBA3,synonymous_variant,p.%3D,ENST00000465627,;UBA3,synonymous_variant,p.%3D,ENST00000461934,;UBA3,non_coding_transcript_exon_variant,,ENST00000485424,;UBA3,non_coding_transcript_exon_variant,,ENST00000493957,;UBA3,non_coding_transcript_exon_variant,,ENST00000465108,;UBA3,non_coding_transcript_exon_variant,,ENST00000466763,;UBA3,downstream_gene_variant,,ENST00000464605,;	A	ENSG00000144744	ENST00000361055	Transcript	synonymous_variant	208	153	51	F	ttC/ttT	.	.	.	-1	UBA3	HGNC	12470	protein_coding	YES	CCDS2909.1	ENSP00000354340	UBA3_HUMAN	B7Z5F6_HUMAN	UPI00001E058C	.	.	.	3/18	.	hmmpanther:PTHR10953	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGTGAAGGG	.	4	BLCA
ROBO2	0	.	GRCh37	3	77666886	77666886	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3564G>C	p.Leu1188Phe	p.L1188F	ENST00000487694	23/27	72	61	11	75	75	0	ROBO2,missense_variant,p.Leu1172Phe,ENST00000332191,;ROBO2,missense_variant,p.Leu1172Phe,ENST00000461745,;ROBO2,missense_variant,p.Leu4Phe,ENST00000475334,;ROBO2,missense_variant,p.Leu329Phe,ENST00000490991,;ROBO2,missense_variant,p.Leu1188Phe,ENST00000487694,;ROBO2,non_coding_transcript_exon_variant,,ENST00000469233,;ROBO2,3_prime_UTR_variant,,ENST00000473767,;	C	ENSG00000185008	ENST00000487694	Transcript	missense_variant	3843	3564	1188	L/F	ttG/ttC	.	.	.	1	ROBO2	HGNC	10250	protein_coding	YES	CCDS54609.1	ENSP00000417335	ROBO2_HUMAN	H9XFA4_HUMAN	UPI0000D891EC	.	deleterious(0.01)	possibly_damaging(0.587)	23/27	.	hmmpanther:PTHR10489:SF27,hmmpanther:PTHR10489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTGACAAG	.	5	BLCA
SETD5	0	.	GRCh37	3	9516147	9516147	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3512C>T	p.Ser1171Leu	p.S1171L	ENST00000402198	21/23	130	123	7	82	82	0	SETD5,missense_variant,p.Ser1073Leu,ENST00000402466,;SETD5,missense_variant,p.Ser1190Leu,ENST00000407969,;SETD5,missense_variant,p.Ser1171Leu,ENST00000402198,;SETD5,missense_variant,p.Ser839Leu,ENST00000399686,;SETD5,missense_variant,p.Ser1171Leu,ENST00000406341,;SETD5,missense_variant,p.Ser1073Leu,ENST00000302463,;SETD5,downstream_gene_variant,,ENST00000421188,;SETD5,non_coding_transcript_exon_variant,,ENST00000479538,;SETD5,3_prime_UTR_variant,,ENST00000413704,;SETD5,non_coding_transcript_exon_variant,,ENST00000486465,;SETD5,non_coding_transcript_exon_variant,,ENST00000459941,;SETD5,non_coding_transcript_exon_variant,,ENST00000492939,;SETD5,non_coding_transcript_exon_variant,,ENST00000466242,;SETD5,non_coding_transcript_exon_variant,,ENST00000493918,;SETD5,upstream_gene_variant,,ENST00000466826,;	T	ENSG00000168137	ENST00000402198	Transcript	missense_variant	3947	3512	1171	S/L	tCa/tTa	.	.	.	1	SETD5	HGNC	25566	protein_coding	YES	CCDS46741.1	ENSP00000385852	SETD5_HUMAN	C9JLM1_HUMAN,C9JLA7_HUMAN,A8K0G4_HUMAN	UPI0000411FEE	.	tolerated(0.06)	probably_damaging(0.996)	21/23	.	hmmpanther:PTHR16286:SF11,hmmpanther:PTHR16286	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACATCAGTAG	.	2	BLCA
DCBLD2	0	.	GRCh37	3	98536636	98536636	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189G>A	p.Glu397Lys	p.E397K	ENST00000326840	9/16	67	63	4	53	53	0	DCBLD2,missense_variant,p.Glu397Lys,ENST00000326857,;DCBLD2,missense_variant,p.Glu397Lys,ENST00000326840,;ST3GAL6,intron_variant,,ENST00000491912,;ST3GAL6,intron_variant,,ENST00000495502,;DCBLD2,downstream_gene_variant,,ENST00000469648,;DCBLD2,non_coding_transcript_exon_variant,,ENST00000460008,;DCBLD2,non_coding_transcript_exon_variant,,ENST00000479144,;DCBLD2,upstream_gene_variant,,ENST00000470393,;	T	ENSG00000057019	ENST00000326840	Transcript	missense_variant	1552	1189	397	E/K	Gag/Aag	.	.	.	-1	DCBLD2	HGNC	24627	protein_coding	YES	CCDS46878.1	ENSP00000321573	DCBD2_HUMAN	B7Z7Y3_HUMAN	UPI0000072ABB	.	tolerated(0.22)	benign(0.395)	9/16	.	PROSITE_profiles:PS50022,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF571,Pfam_domain:PF00754,Gene3D:2.60.120.260,SMART_domains:SM00231,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTCTCTGT	.	2	BLCA
IL17RE	0	.	GRCh37	3	9953193	9953193	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1139C>G	p.Ser380Ter	p.S380*	ENST00000295980	13/17	217	194	23	182	182	0	IL17RE,stop_gained,p.Ser413Ter,ENST00000421412,;IL17RE,stop_gained,p.Ser380Ter,ENST00000383814,;IL17RE,stop_gained,p.Ser380Ter,ENST00000295980,;IL17RE,stop_gained,p.Ser380Ter,ENST00000454190,;IL17RE,downstream_gene_variant,,ENST00000454992,;IL17RE,3_prime_UTR_variant,,ENST00000434065,;IL17RE,3_prime_UTR_variant,,ENST00000444427,;IL17RE,3_prime_UTR_variant,,ENST00000383815,;IL17RE,non_coding_transcript_exon_variant,,ENST00000480244,;IL17RE,downstream_gene_variant,,ENST00000489181,;IL17RE,downstream_gene_variant,,ENST00000483258,;	G	ENSG00000163701	ENST00000295980	Transcript	stop_gained	1256	1139	380	S/*	tCa/tGa	.	.	.	1	IL17RE	HGNC	18439	protein_coding	YES	CCDS2589.1	ENSP00000295980	I17RE_HUMAN	.	UPI000003E87E	.	.	.	13/17	.	hmmpanther:PTHR15583,hmmpanther:PTHR15583:SF5,Pfam_domain:PF15037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCAAGAA	.	4	BLCA
SLC39A8	0	.	GRCh37	4	103189214	103189214	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.863C>A	p.Ser288Ter	p.S288*	ENST00000394833	6/8	97	86	11	89	89	0	SLC39A8,stop_gained,p.Ser288Ter,ENST00000356736,;SLC39A8,stop_gained,p.Ser288Ter,ENST00000394833,;SLC39A8,stop_gained,p.Ser288Ter,ENST00000424970,;SLC39A8,downstream_gene_variant,,ENST00000512337,;	T	ENSG00000138821	ENST00000394833	Transcript	stop_gained	1340	863	288	S/*	tCa/tAa	COSM3598708	.	.	-1	SLC39A8	HGNC	20862	protein_coding	YES	CCDS3656.1	ENSP00000378310	S39A8_HUMAN	.	UPI0000046C4E	.	.	.	6/8	.	hmmpanther:PTHR12191:SF2,hmmpanther:PTHR12191,Pfam_domain:PF02535	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACATGAACTT	.	4	BLCA
CENPE	0	.	GRCh37	4	104115599	104115599	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560-1G>C	.	p.X187_splice	ENST00000265148	.	49	39	10	53	53	0	CENPE,splice_acceptor_variant,,ENST00000503705,;CENPE,splice_acceptor_variant,,ENST00000380026,;CENPE,splice_acceptor_variant,,ENST00000265148,;CENPE,splice_acceptor_variant,,ENST00000514974,;	G	ENSG00000138778	ENST00000265148	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	CENPE	HGNC	1856	protein_coding	YES	CCDS34042.1	ENSP00000265148	CENPE_HUMAN	D6RBW0_HUMAN	UPI000020B28A	.	.	.	.	6/48	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCTGTAA	.	5	BLCA
TBCK	0	.	GRCh37	4	106967792	106967792	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2617C>G	p.Leu873Val	p.L873V	ENST00000273980	27/27	41	32	8	36	36	0	TBCK,missense_variant,p.Leu810Val,ENST00000361687,;TBCK,missense_variant,p.Leu873Val,ENST00000273980,;TBCK,missense_variant,p.Leu873Val,ENST00000394708,;TBCK,missense_variant,p.Leu873Val,ENST00000432496,;TBCK,missense_variant,p.Leu834Val,ENST00000394706,;TBCK,3_prime_UTR_variant,,ENST00000467183,;TBCK,non_coding_transcript_exon_variant,,ENST00000510927,;	C	ENSG00000145348	ENST00000273980	Transcript	missense_variant	3065	2617	873	L/V	Cta/Gta	.	.	.	-1	TBCK	HGNC	28261	protein_coding	YES	CCDS54788.1	ENSP00000273980	TBCK_HUMAN	D6RDY5_HUMAN,D6RDG2_HUMAN,D6RC61_HUMAN,D6R950_HUMAN	UPI000013EF70	.	deleterious(0)	probably_damaging(0.996)	27/27	.	PROSITE_profiles:PS50206,Gene3D:3.40.250.10,Pfam_domain:PF00581,SMART_domains:SM00450,Superfamily_domains:SSF52821	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTAGAATAC	.	5	BLCA
LARP7	0	.	GRCh37	4	113568507	113568507	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820G>A	p.Glu274Lys	p.E274K	ENST00000509061	9/15	90	77	13	71	71	0	LARP7,missense_variant,p.Glu267Lys,ENST00000505034,;LARP7,missense_variant,p.Glu48Lys,ENST00000511529,;LARP7,missense_variant,p.Glu267Lys,ENST00000324052,;LARP7,missense_variant,p.Glu267Lys,ENST00000344442,;LARP7,missense_variant,p.Glu274Lys,ENST00000509061,;LARP7,intron_variant,,ENST00000513553,;LARP7,downstream_gene_variant,,ENST00000507443,;LARP7,downstream_gene_variant,,ENST00000508577,;MIR367,downstream_gene_variant,,ENST00000362299,;MIR302D,downstream_gene_variant,,ENST00000362275,;MIR302C,downstream_gene_variant,,ENST00000362232,;MIR302A,downstream_gene_variant,,ENST00000385192,;MIR302B,downstream_gene_variant,,ENST00000362188,;MIR302B,intron_variant,,ENST00000510655,;MIR302B,intron_variant,,ENST00000509938,;MIR302B,intron_variant,,ENST00000505215,;LARP7,downstream_gene_variant,,ENST00000503316,;LARP7,3_prime_UTR_variant,,ENST00000509622,;LARP7,downstream_gene_variant,,ENST00000505216,;LARP7,downstream_gene_variant,,ENST00000512589,;	A	ENSG00000174720	ENST00000509061	Transcript	missense_variant	1123	820	274	E/K	Gaa/Aaa	.	.	.	1	LARP7	HGNC	24912	protein_coding	YES	CCDS58924.1	ENSP00000422626	LARP7_HUMAN	D6RFF0_HUMAN,D6RF49_HUMAN,D6RAF3_HUMAN	UPI000020B34C	.	tolerated(0.31)	benign(0.39)	9/15	.	hmmpanther:PTHR22792:SF3,hmmpanther:PTHR22792	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACTGAACCC	.	4	BLCA
ANK2	0	.	GRCh37	4	114279943	114279943	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10169C>G	p.Ser3390Cys	p.S3390C	ENST00000357077	38/46	132	109	22	113	113	0	ANK2,missense_variant,p.Ser3357Cys,ENST00000264366,;ANK2,missense_variant,p.Ser3390Cys,ENST00000357077,;ANK2,missense_variant,p.Ser400Cys,ENST00000505342,;ANK2,intron_variant,,ENST00000514960,;ANK2,intron_variant,,ENST00000394537,;ANK2,intron_variant,,ENST00000509550,;ANK2,intron_variant,,ENST00000506722,;ANK2,intron_variant,,ENST00000504415,;ANK2,intron_variant,,ENST00000510275,;ANK2,intron_variant,,ENST00000508007,;	G	ENSG00000145362	ENST00000357077	Transcript	missense_variant	10222	10169	3390	S/C	tCt/tGt	.	.	.	1	ANK2	HGNC	493	protein_coding	YES	CCDS3702.1	ENSP00000349588	ANK2_HUMAN	D6RHC5_HUMAN	UPI0000441EF3	.	.	probably_damaging(0.967)	38/46	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24123:SF17,hmmpanther:PTHR24123	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATCTGAAT	.	5	BLCA
SEC24D	0	.	GRCh37	4	119673190	119673190	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1668C>G	p.%3D	p.V556V	ENST00000280551	13/23	53	46	7	35	35	0	SEC24D,synonymous_variant,p.%3D,ENST00000419654,;SEC24D,synonymous_variant,p.%3D,ENST00000429811,;SEC24D,synonymous_variant,p.%3D,ENST00000379735,;SEC24D,synonymous_variant,p.%3D,ENST00000280551,;SEC24D,synonymous_variant,p.%3D,ENST00000511481,;SEC24D,non_coding_transcript_exon_variant,,ENST00000505134,;SEC24D,non_coding_transcript_exon_variant,,ENST00000511033,;SEC24D,3_prime_UTR_variant,,ENST00000514561,;SEC24D,downstream_gene_variant,,ENST00000509818,;	C	ENSG00000150961	ENST00000280551	Transcript	synonymous_variant	1907	1668	556	V	gtC/gtG	.	.	.	-1	SEC24D	HGNC	10706	protein_coding	YES	CCDS3710.1	ENSP00000280551	SC24D_HUMAN	E9PDM8_HUMAN,D6RGJ5_HUMAN	UPI00001AEA4F	.	.	.	13/23	.	hmmpanther:PTHR13803:SF6,hmmpanther:PTHR13803,Gene3D:3.40.50.410,Pfam_domain:PF04811,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAAAGACAGT	.	4	BLCA
SYNPO2	0	.	GRCh37	4	119953034	119953034	+	Missense_Mutation	SNP	C	C	G	rs749196392	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3104C>G	p.Ser1035Cys	p.S1035C	ENST00000307142	4/5	77	64	13	63	63	0	SYNPO2,missense_variant,p.Ser1035Cys,ENST00000434046,;SYNPO2,missense_variant,p.Ser1035Cys,ENST00000307142,;SYNPO2,missense_variant,p.Ser1035Cys,ENST00000429713,;SYNPO2,intron_variant,,ENST00000448416,;SYNPO2,intron_variant,,ENST00000504178,;	G	ENSG00000172403	ENST00000307142	Transcript	missense_variant	3300	3104	1035	S/C	tCc/tGc	rs749196392	.	.	1	SYNPO2	HGNC	17732	protein_coding	YES	CCDS34054.1	ENSP00000306015	SYNP2_HUMAN	.	UPI00001D75EB	.	tolerated(0.22)	benign(0.012)	4/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24217:SF9,hmmpanther:PTHR24217	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCCTTCT	.	5	BLCA
PDE5A	0	.	GRCh37	4	120422327	120422327	+	Missense_Mutation	SNP	C	C	T	rs199573045	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2488G>A	p.Glu830Lys	p.E830K	ENST00000354960	20/21	103	85	18	105	105	0	PDE5A,missense_variant,p.Glu182Lys,ENST00000503412,;PDE5A,missense_variant,p.Glu788Lys,ENST00000264805,;PDE5A,missense_variant,p.Glu830Lys,ENST00000354960,;PDE5A,missense_variant,p.Glu778Lys,ENST00000394439,;RP11-33B1.1,intron_variant,,ENST00000510844,;RP11-33B1.1,intron_variant,,ENST00000498873,;RP11-33B1.1,downstream_gene_variant,,ENST00000506451,;RP11-33B1.1,downstream_gene_variant,,ENST00000510011,;RP11-33B1.1,downstream_gene_variant,,ENST00000502760,;PDE5A,downstream_gene_variant,,ENST00000512494,;	T	ENSG00000138735	ENST00000354960	Transcript	missense_variant	2808	2488	830	E/K	Gag/Aag	rs199573045	.	.	-1	PDE5A	HGNC	8784	protein_coding	YES	CCDS3713.1	ENSP00000347046	PDE5A_HUMAN	Q9P0K6_HUMAN,Q9P0K4_HUMAN,Q4W5L4_HUMAN,G5E9C5_HUMAN,C9JGT3_HUMAN	UPI000013D571	.	tolerated(0.48)	benign(0.071)	20/21	.	hmmpanther:PTHR11347:SF21,hmmpanther:PTHR11347,Gene3D:1.10.1300.10,Pfam_domain:PF00233,Superfamily_domains:SSF109604	G:0.0002	G:0.0008	G:0	.	G:0	G:0	G:0	G:0.0007	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCATACA	byCluster|by1000G	5	BLCA
NDNF	0	.	GRCh37	4	121957872	121957872	+	Silent	SNP	G	G	A	rs148977529	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1254C>T	p.%3D	p.L418L	ENST00000379692	4/4	194	162	32	172	172	0	NDNF,synonymous_variant,p.%3D,ENST00000379692,;NDNF,downstream_gene_variant,,ENST00000515757,;NDNF,downstream_gene_variant,,ENST00000511408,;NDNF,downstream_gene_variant,,ENST00000506900,;	A	ENSG00000173376	ENST00000379692	Transcript	synonymous_variant	1781	1254	418	L	ctC/ctT	rs148977529,COSM1050511	.	.	-1	NDNF	HGNC	26256	protein_coding	YES	CCDS3717.2	ENSP00000369014	NDNF_HUMAN	D6RF18_HUMAN,D6R972_HUMAN	UPI00001D6985	.	.	.	4/4	.	hmmpanther:PTHR14619,hmmpanther:PTHR14619:SF1,Pfam_domain:PF10179	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.002	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGAACGAGGTA	byCluster|by1000G	4	BLCA
TNIP3	0	.	GRCh37	4	122078329	122078329	+	Nonsense_Mutation	SNP	G	G	A	rs200434182	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.514C>T	p.Gln172Ter	p.Q172*	ENST00000509841	7/13	406	348	57	336	336	0	TNIP3,stop_gained,p.Gln172Ter,ENST00000509841,;TNIP3,stop_gained,p.Gln95Ter,ENST00000454328,;TNIP3,stop_gained,p.Gln95Ter,ENST00000057513,;TNIP3,stop_gained,p.Gln165Ter,ENST00000507879,;TNIP3,non_coding_transcript_exon_variant,,ENST00000506753,;TNIP3,non_coding_transcript_exon_variant,,ENST00000515605,;	A	ENSG00000050730	ENST00000509841	Transcript	stop_gained	593	514	172	Q/*	Cag/Tag	rs200434182	.	.	-1	TNIP3	HGNC	19315	protein_coding	YES	CCDS58926.1	ENSP00000426613	TNIP3_HUMAN	.	UPI00017A8362	.	.	.	7/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31882,hmmpanther:PTHR31882:SF2	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTGATGCG	byCluster|by1000G	4	BLCA
KIAA1109	0	.	GRCh37	4	123249265	123249265	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11002G>A	p.Glu3668Lys	p.E3668K	ENST00000264501	66/86	56	51	5	69	69	0	KIAA1109,missense_variant,p.Glu79Lys,ENST00000306802,;KIAA1109,missense_variant,p.Glu372Lys,ENST00000438707,;KIAA1109,missense_variant,p.Glu3668Lys,ENST00000264501,;KIAA1109,missense_variant,p.Glu3668Lys,ENST00000388738,;KIAA1109,downstream_gene_variant,,ENST00000455637,;KIAA1109,downstream_gene_variant,,ENST00000419325,;KIAA1109,non_coding_transcript_exon_variant,,ENST00000480651,;	A	ENSG00000138688	ENST00000264501	Transcript	missense_variant	11375	11002	3668	E/K	Gag/Aag	.	.	.	1	KIAA1109	HGNC	26953	protein_coding	YES	CCDS43267.1	ENSP00000264501	K1109_HUMAN	B3KN93_HUMAN	UPI0000DD87B4	.	.	benign(0.079)	66/86	.	hmmpanther:PTHR31640:SF1,hmmpanther:PTHR31640	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCAGAGGAG	.	2	BLCA
FAT4	0	.	GRCh37	4	126372224	126372224	+	Silent	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10053G>A	p.%3D	p.K3351K	ENST00000394329	9/17	130	106	24	135	135	0	FAT4,synonymous_variant,p.%3D,ENST00000394329,;FAT4,synonymous_variant,p.%3D,ENST00000335110,;FAT4,downstream_gene_variant,,ENST00000509444,;	A	ENSG00000196159	ENST00000394329	Transcript	synonymous_variant	10066	10053	3351	K	aaG/aaA	COSM244442,COSM244443	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	.	9/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGACTGG	.	5	BLCA
FAT4	0	.	GRCh37	4	126411454	126411454	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13477C>T	p.Gln4493Ter	p.Q4493*	ENST00000394329	17/17	107	96	11	98	98	0	FAT4,stop_gained,p.Gln4493Ter,ENST00000394329,;FAT4,stop_gained,p.Gln2734Ter,ENST00000335110,;	T	ENSG00000196159	ENST00000394329	Transcript	stop_gained	13490	13477	4493	Q/*	Cag/Tag	.	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	.	17/17	.	hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAGTCAGGGC	.	4	BLCA
HSP90AB2P	0	.	GRCh37	4	13338902	13338902	+	RNA	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.797G>A	.	.	ENST00000507090	1/1	36	28	8	30	30	0	HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000602906,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000507090,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000382444,;	A	ENSG00000205940	ENST00000507090	Transcript	non_coding_transcript_exon_variant	797	.	.	.	.	.	.	.	1	HSP90AB2P	HGNC	32537	transcribed_processed_pseudogene	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	AAGAAGAAAAC	.	4	BLCA
UVSSA	0	.	GRCh37	4	1347046	1347046	+	Missense_Mutation	SNP	C	C	G	rs371967224	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.779C>G	p.Ser260Cys	p.S260C	ENST00000389851	5/14	34	22	12	35	35	0	UVSSA,missense_variant,p.Ser260Cys,ENST00000507531,;UVSSA,missense_variant,p.Ser260Cys,ENST00000389851,;UVSSA,missense_variant,p.Ser260Cys,ENST00000511216,;AC078852.1,upstream_gene_variant,,ENST00000504748,;UVSSA,upstream_gene_variant,,ENST00000505716,;	G	ENSG00000163945	ENST00000389851	Transcript	missense_variant	1226	779	260	S/C	tCt/tGt	rs371967224,COSM3775559	.	.	1	UVSSA	HGNC	29304	protein_coding	YES	CCDS33938.1	ENSP00000374501	UVSSA_HUMAN	.	UPI00001C1E0C	.	tolerated(0.2)	benign(0.003)	5/14	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCTGCAG	byCluster	5	BLCA
RAB28	0	.	GRCh37	4	13481126	13481126	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100C>G	p.Gln34Glu	p.Q34E	ENST00000330852	2/7	47	33	14	52	52	0	RAB28,missense_variant,p.Gln34Glu,ENST00000288723,;RAB28,missense_variant,p.Gln34Glu,ENST00000330852,;RAB28,missense_variant,p.Gln34Glu,ENST00000338176,;RAB28,missense_variant,p.Gln34Glu,ENST00000508274,;	C	ENSG00000157869	ENST00000330852	Transcript	missense_variant	315	100	34	Q/E	Caa/Gaa	.	.	.	-1	RAB28	HGNC	9768	protein_coding	YES	CCDS33961.1	ENSP00000328551	RAB28_HUMAN	.	UPI00000741FF	.	tolerated(0.2)	benign(0.028)	2/7	.	Prints_domain:PR00449,Superfamily_domains:SSF52540,SMART_domains:SM00173,SMART_domains:SM00175,SMART_domains:SM00176,SMART_domains:SM00174,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,PROSITE_profiles:PS51419,hmmpanther:PTHR24073	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTGAGCAA	.	5	BLCA
RAB33B	0	.	GRCh37	4	140375562	140375562	+	Silent	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213A>T	p.%3D	p.R71R	ENST00000305626	1/2	37	32	5	33	33	0	RAB33B,synonymous_variant,p.%3D,ENST00000305626,;RP11-83A24.2,upstream_gene_variant,,ENST00000610159,;RP11-83A24.2,upstream_gene_variant,,ENST00000609359,;RP11-83A24.2,upstream_gene_variant,,ENST00000608663,;RP11-83A24.2,upstream_gene_variant,,ENST00000608661,;RAB33B,downstream_gene_variant,,ENST00000507271,;	T	ENSG00000172007	ENST00000305626	Transcript	synonymous_variant	602	213	71	R	cgA/cgT	.	.	.	1	RAB33B	HGNC	16075	protein_coding	YES	CCDS3747.1	ENSP00000306496	RB33B_HUMAN	.	UPI000000123D	.	.	.	1/2	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073,hmmpanther:PTHR24073:SF378,Pfam_domain:PF00071,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,SMART_domains:SM00176,SMART_domains:SM00174,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TTCCGAGAACG	.	2	BLCA
ABCE1	0	.	GRCh37	4	146026785	146026785	+	Missense_Mutation	SNP	G	G	C	rs748937474	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132G>C	p.Gln44His	p.Q44H	ENST00000296577	3/18	119	102	17	91	91	0	ABCE1,missense_variant,p.Gln44His,ENST00000296577,;ABCE1,missense_variant,p.Gln44His,ENST00000502586,;ABCE1,intron_variant,,ENST00000506506,;ABCE1,intron_variant,,ENST00000502803,;ABCE1,missense_variant,p.Gln44His,ENST00000507193,;ABCE1,upstream_gene_variant,,ENST00000504292,;	C	ENSG00000164163	ENST00000296577	Transcript	missense_variant	647	132	44	Q/H	caG/caC	rs748937474	.	.	1	ABCE1	HGNC	69	protein_coding	YES	CCDS34071.1	ENSP00000296577	ABCE1_HUMAN	D6RGF4_HUMAN,D6R9I9_HUMAN	UPI0000001226	.	tolerated(0.1)	benign(0.243)	3/18	.	Superfamily_domains:SSF54862,Gene3D:3.30.70.20,hmmpanther:PTHR19248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCAGAGCAA	.	4	BLCA
SMAD1	0	.	GRCh37	4	146463793	146463793	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718C>T	p.Gln240Ter	p.Q240*	ENST00000515385	4/7	84	69	15	57	57	0	SMAD1,stop_gained,p.Gln240Ter,ENST00000302085,;SMAD1,stop_gained,p.Gln240Ter,ENST00000515385,;SMAD1,stop_gained,p.Gln240Ter,ENST00000394092,;SMAD1,upstream_gene_variant,,ENST00000510948,;SMAD1,downstream_gene_variant,,ENST00000502342,;SMAD1,upstream_gene_variant,,ENST00000511125,;SMAD1,upstream_gene_variant,,ENST00000511255,;	T	ENSG00000170365	ENST00000515385	Transcript	stop_gained	1260	718	240	Q/*	Cag/Tag	.	.	.	1	SMAD1	HGNC	6767	protein_coding	YES	CCDS3765.1	ENSP00000426568	SMAD1_HUMAN	D6REQ3_HUMAN,D6RDN7_HUMAN,D6RD62_HUMAN,D6RBH9_HUMAN,D6RAY1_HUMAN	UPI0000135A76	.	.	.	4/7	.	Superfamily_domains:SSF49879,hmmpanther:PTHR13703:SF23,hmmpanther:PTHR13703	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCAGCCG	.	5	BLCA
SMAD1	0	.	GRCh37	4	146467968	146467968	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.889G>A	p.Asp297Asn	p.D297N	ENST00000515385	5/7	125	100	25	115	115	0	SMAD1,missense_variant,p.Asp297Asn,ENST00000302085,;SMAD1,missense_variant,p.Asp297Asn,ENST00000515385,;SMAD1,missense_variant,p.Asp297Asn,ENST00000394092,;SMAD1,non_coding_transcript_exon_variant,,ENST00000510948,;SMAD1,non_coding_transcript_exon_variant,,ENST00000511125,;SMAD1,non_coding_transcript_exon_variant,,ENST00000511255,;	A	ENSG00000170365	ENST00000515385	Transcript	missense_variant	1431	889	297	D/N	Gat/Aat	.	.	.	1	SMAD1	HGNC	6767	protein_coding	YES	CCDS3765.1	ENSP00000426568	SMAD1_HUMAN	D6REQ3_HUMAN,D6RDN7_HUMAN,D6RD62_HUMAN,D6RBH9_HUMAN,D6RAY1_HUMAN	UPI0000135A76	.	deleterious(0.03)	probably_damaging(0.998)	5/7	.	Superfamily_domains:SSF49879,SMART_domains:SM00524,Pfam_domain:PF03166,Gene3D:2.60.200.10,hmmpanther:PTHR13703:SF23,hmmpanther:PTHR13703,PROSITE_profiles:PS51076	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTGGATGGT	.	5	BLCA
TMEM184C	0	.	GRCh37	4	148555556	148555556	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1288G>C	p.Glu430Gln	p.E430Q	ENST00000296582	10/10	61	50	10	52	52	0	TMEM184C,missense_variant,p.Glu430Gln,ENST00000296582,;TMEM184C,intron_variant,,ENST00000508208,;PRMT10,downstream_gene_variant,,ENST00000322396,;PRMT10,downstream_gene_variant,,ENST00000541232,;TMEM184C,3_prime_UTR_variant,,ENST00000505999,;PRMT10,downstream_gene_variant,,ENST00000510269,;PRMT10,downstream_gene_variant,,ENST00000511687,;PRMT10,downstream_gene_variant,,ENST00000514886,;TMEM184C,downstream_gene_variant,,ENST00000506826,;	C	ENSG00000164168	ENST00000296582	Transcript	missense_variant	1862	1288	430	E/Q	Gaa/Caa	.	.	.	1	TMEM184C	HGNC	25587	protein_coding	YES	CCDS3770.1	ENSP00000296582	T184C_HUMAN	.	UPI000013E360	.	tolerated(0.16)	benign(0.001)	10/10	.	hmmpanther:PTHR23423,hmmpanther:PTHR23423:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAAGAACCT	.	5	BLCA
LRBA	0	.	GRCh37	4	151773603	151773603	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3259G>C	p.Glu1087Gln	p.E1087Q	ENST00000357115	23/58	122	95	26	82	82	0	LRBA,missense_variant,p.Glu1087Gln,ENST00000535741,;LRBA,missense_variant,p.Glu1087Gln,ENST00000507224,;LRBA,missense_variant,p.Glu1087Gln,ENST00000357115,;LRBA,missense_variant,p.Glu1087Gln,ENST00000510413,;LRBA,upstream_gene_variant,,ENST00000509835,;LRBA,upstream_gene_variant,,ENST00000502839,;	G	ENSG00000198589	ENST00000357115	Transcript	missense_variant	3503	3259	1087	E/Q	Gaa/Caa	.	.	.	-1	LRBA	HGNC	1742	protein_coding	YES	CCDS3773.1	ENSP00000349629	LRBA_HUMAN	Q7KZN3_HUMAN	UPI000013E35C	.	tolerated_low_confidence(0.06)	possibly_damaging(0.545)	23/58	.	hmmpanther:PTHR13743,hmmpanther:PTHR13743:SF64	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTGAAG	.	5	BLCA
RAPGEF2	0	.	GRCh37	4	160251091	160251091	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>C	p.Glu250Gln	p.E250Q	ENST00000264431	6/24	101	81	19	70	70	0	RAPGEF2,missense_variant,p.Glu250Gln,ENST00000264431,;RAPGEF2,upstream_gene_variant,,ENST00000512056,;RAPGEF2,non_coding_transcript_exon_variant,,ENST00000513816,;	C	ENSG00000109756	ENST00000264431	Transcript	missense_variant	1167	748	250	E/Q	Gag/Cag	.	.	.	1	RAPGEF2	HGNC	16854	protein_coding	YES	CCDS43277.1	ENSP00000264431	RPGF2_HUMAN	Q9UFT5_HUMAN,Q4W5Q4_HUMAN,Q17RH5_HUMAN,D6REY8_HUMAN,B4DG82_HUMAN	UPI0000033783	.	tolerated(0.06)	benign(0.342)	6/24	.	hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF202,Gene3D:2ii0A01,SMART_domains:SM00100,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGAGAGATT	.	5	BLCA
TAPT1-AS1	0	.	GRCh37	4	16258195	16258195	+	RNA	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.550C>A	.	.	ENST00000570786	3/3	14	9	5	15	15	0	TAPT1-AS1,non_coding_transcript_exon_variant,,ENST00000573308,;TAPT1-AS1,non_coding_transcript_exon_variant,,ENST00000570786,;TAPT1-AS1,intron_variant,,ENST00000573950,;RPS21P4,upstream_gene_variant,,ENST00000487122,;	A	ENSG00000263327	ENST00000570786	Transcript	non_coding_transcript_exon_variant	550	.	.	.	.	.	.	.	1	TAPT1-AS1	HGNC	26832	antisense	YES	.	.	.	.	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTGCTGCCA	.	5	BLCA
TRIM60	0	.	GRCh37	4	165962176	165962176	+	Nonsense_Mutation	SNP	C	C	T	rs201792320	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952C>T	p.Arg318Ter	p.R318*	ENST00000512596	3/3	127	110	17	111	111	0	TRIM60,stop_gained,p.Arg318Ter,ENST00000341062,;TRIM60,stop_gained,p.Arg318Ter,ENST00000512596,;TRIM60,stop_gained,p.Arg318Ter,ENST00000508504,;TRIM60,downstream_gene_variant,,ENST00000507119,;RP11-366M4.17,upstream_gene_variant,,ENST00000508621,;	T	ENSG00000176979	ENST00000512596	Transcript	stop_gained	1168	952	318	R/*	Cga/Tga	rs201792320,COSM1052914	.	.	1	TRIM60	HGNC	21162	protein_coding	YES	CCDS3808.1	ENSP00000421142	TRI60_HUMAN	D6RAS2_HUMAN	UPI000006DAAD	.	.	.	3/3	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF304,hmmpanther:PTHR24103,Pfam_domain:PF13765,SMART_domains:SM00589,Superfamily_domains:SSF49899,Prints_domain:PR01407	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R318Q|c.953G>A|4	RADIA|MUTECT|MUSE|VARSCANS	CTGTGCGATAT	byFrequency|byCluster	4	BLCA
AADAT	0	.	GRCh37	4	170983085	170983085	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1194G>A	p.%3D	p.L398L	ENST00000337664	12/13	88	74	14	63	63	0	AADAT,synonymous_variant,p.%3D,ENST00000337664,;AADAT,synonymous_variant,p.%3D,ENST00000353187,;AADAT,synonymous_variant,p.%3D,ENST00000509167,;AADAT,synonymous_variant,p.%3D,ENST00000515480,;	T	ENSG00000109576	ENST00000337664	Transcript	synonymous_variant	1471	1194	398	L	ttG/ttA	.	.	.	-1	AADAT	HGNC	17929	protein_coding	YES	CCDS3814.1	ENSP00000336808	AADAT_HUMAN	Q4W5N8_HUMAN,D6RFY7_HUMAN,D6RC56_HUMAN	UPI00000711E6	.	.	.	12/13	.	hmmpanther:PTHR11751:SF294,hmmpanther:PTHR11751,Gene3D:3.90.1150.10,Pfam_domain:PF00155,Superfamily_domains:SSF53383	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCAAGTA	.	5	BLCA
AGA	0	.	GRCh37	4	178352919	178352919	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984C>T	p.%3D	p.F328F	ENST00000264595	9/9	64	55	8	67	67	0	AGA,synonymous_variant,p.%3D,ENST00000264595,;AGA,downstream_gene_variant,,ENST00000510635,;AGA,downstream_gene_variant,,ENST00000502310,;AGA,downstream_gene_variant,,ENST00000506853,;	A	ENSG00000038002	ENST00000264595	Transcript	synonymous_variant	1112	984	328	F	ttC/ttT	.	.	.	-1	AGA	HGNC	318	protein_coding	YES	CCDS3829.1	ENSP00000264595	ASPG_HUMAN	Q6LD43_HUMAN	UPI000013D53C	.	.	.	9/9	.	hmmpanther:PTHR10188,hmmpanther:PTHR10188:SF6,Pfam_domain:PF01112,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCATGAAACT	.	4	BLCA
FGFR3	0	.	GRCh37	4	1803568	1803568	+	Missense_Mutation	SNP	C	C	G	rs121913483	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.746C>G	p.Ser249Cys	p.S249C	ENST00000340107	7/18	45	31	13	27	27	0	FGFR3,missense_variant,p.Ser249Cys,ENST00000352904,;FGFR3,missense_variant,p.Ser249Cys,ENST00000412135,;FGFR3,missense_variant,p.Ser249Cys,ENST00000440486,;FGFR3,missense_variant,p.Ser249Cys,ENST00000481110,;FGFR3,missense_variant,p.Ser249Cys,ENST00000260795,;FGFR3,missense_variant,p.Ser69Cys,ENST00000507588,;FGFR3,missense_variant,p.Ser249Cys,ENST00000340107,;FGFR3,non_coding_transcript_exon_variant,,ENST00000474521,;FGFR3,upstream_gene_variant,,ENST00000469068,;	G	ENSG00000068078	ENST00000340107	Transcript	missense_variant	1002	746	249	S/C	tCc/tGc	CM950470,rs121913483,COSM715,COSM1149892	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	deleterious(0.01)	possibly_damaging(0.594)	7/18	.	hmmpanther:PTHR24416:SF128,hmmpanther:PTHR24416,PIRSF_domain:PIRSF000628	.	.	.	.	.	.	.	.	.	pathogenic	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.S249C|c.746C>G|14,SITE|p.S249C|c.746C>G|1250,BUFFER|p.R248C|c.742C>T|11,BUFFER|p.R248C|c.742C>T|248	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCCCCGC	byFrequency|byCluster	4	BLCA
TLR3	0	.	GRCh37	4	187004198	187004198	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1358G>A	p.Arg453Lys	p.R453K	ENST00000296795	4/5	75	65	10	71	71	0	TLR3,missense_variant,p.Arg176Lys,ENST00000504367,;TLR3,missense_variant,p.Arg453Lys,ENST00000296795,;TLR3,downstream_gene_variant,,ENST00000513189,;TLR3,downstream_gene_variant,,ENST00000508051,;TLR3,non_coding_transcript_exon_variant,,ENST00000512264,;	A	ENSG00000164342	ENST00000296795	Transcript	missense_variant	1462	1358	453	R/K	aGa/aAa	.	.	.	1	TLR3	HGNC	11849	protein_coding	YES	CCDS3846.1	ENSP00000296795	TLR3_HUMAN	E6Y0F1_HUMAN,Q1KMK2_HUMAN,E9PGH4_HUMAN	UPI0000049B3E	.	tolerated(0.88)	benign(0)	4/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF5,Gene3D:3.80.10.10,Pfam_domain:PF13855,SMART_domains:SM00365,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGGAGAGGTC	.	4	BLCA
WHSC1	0	.	GRCh37	4	1959760	1959760	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2982C>G	p.Ile994Met	p.I994M	ENST00000382895	18/24	127	79	48	79	79	0	WHSC1,missense_variant,p.Ile994Met,ENST00000508803,;WHSC1,missense_variant,p.Ile342Met,ENST00000382888,;WHSC1,missense_variant,p.Ile994Met,ENST00000382892,;WHSC1,missense_variant,p.Ile994Met,ENST00000382895,;WHSC1,missense_variant,p.Ile994Met,ENST00000382891,;WHSC1,downstream_gene_variant,,ENST00000514329,;WHSC1,non_coding_transcript_exon_variant,,ENST00000482415,;WHSC1,downstream_gene_variant,,ENST00000513726,;WHSC1,downstream_gene_variant,,ENST00000503207,;WHSC1,downstream_gene_variant,,ENST00000502425,;WHSC1,downstream_gene_variant,,ENST00000505643,;WHSC1,3_prime_UTR_variant,,ENST00000353275,;WHSC1,3_prime_UTR_variant,,ENST00000312087,;WHSC1,downstream_gene_variant,,ENST00000507094,;AL132868.1,downstream_gene_variant,,ENST00000327785,;	G	ENSG00000109685	ENST00000382895	Transcript	missense_variant	3413	2982	994	I/M	atC/atG	.	.	.	1	WHSC1	HGNC	12766	protein_coding	YES	CCDS33940.1	ENSP00000372351	NSD2_HUMAN	D6RIS1_HUMAN,D6RFE7_HUMAN,D6R9V2_HUMAN	UPI0000073F57	.	deleterious(0)	probably_damaging(0.999)	18/24	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF293,Gene3D:2.170.270.10,Superfamily_domains:SSF82199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCAAGGT	.	5	BLCA
STIM2	0	.	GRCh37	4	26959236	26959236	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.285C>T	p.%3D	p.F95F	ENST00000465503	3/13	102	82	20	85	85	0	STIM2,synonymous_variant,p.%3D,ENST00000467011,;STIM2,synonymous_variant,p.%3D,ENST00000412829,;STIM2,synonymous_variant,p.%3D,ENST00000494628,;STIM2,synonymous_variant,p.%3D,ENST00000237364,;STIM2,synonymous_variant,p.%3D,ENST00000382009,;STIM2,synonymous_variant,p.%3D,ENST00000467087,;STIM2,synonymous_variant,p.%3D,ENST00000478049,;STIM2,synonymous_variant,p.%3D,ENST00000463501,;STIM2,synonymous_variant,p.%3D,ENST00000465503,;	T	ENSG00000109689	ENST00000465503	Transcript	synonymous_variant	663	285	95	F	ttC/ttT	COSM420610	.	.	1	STIM2	HGNC	19205	protein_coding	YES	CCDS54751.1	ENSP00000417569	.	R4GNC5_HUMAN,R4GN82_HUMAN,R4GMP0_HUMAN,Q05BJ5_HUMAN,H0Y860_HUMAN	UPI0001B79443	.	.	.	3/13	.	hmmpanther:PTHR15136:SF2,hmmpanther:PTHR15136	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTCATCAG	.	5	BLCA
ADD1	0	.	GRCh37	4	2877795	2877795	+	Missense_Mutation	SNP	G	G	A	rs140325938	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153G>A	p.Met51Ile	p.M51I	ENST00000264758	2/15	67	57	9	66	66	0	ADD1,missense_variant,p.Met51Ile,ENST00000511797,;ADD1,missense_variant,p.Met51Ile,ENST00000355842,;ADD1,missense_variant,p.Met51Ile,ENST00000398125,;ADD1,missense_variant,p.Met51Ile,ENST00000398123,;ADD1,missense_variant,p.Met51Ile,ENST00000513328,;ADD1,missense_variant,p.Met51Ile,ENST00000398129,;ADD1,missense_variant,p.Met51Ile,ENST00000508277,;ADD1,missense_variant,p.Met51Ile,ENST00000264758,;ADD1,missense_variant,p.Met51Ile,ENST00000446856,;ADD1,missense_variant,p.Met51Ile,ENST00000503455,;ADD1,missense_variant,p.Met51Ile,ENST00000510101,;ADD1,non_coding_transcript_exon_variant,,ENST00000540541,;ADD1,non_coding_transcript_exon_variant,,ENST00000509039,;ADD1,non_coding_transcript_exon_variant,,ENST00000508684,;ADD1,non_coding_transcript_exon_variant,,ENST00000503169,;	A	ENSG00000087274	ENST00000264758	Transcript	missense_variant	341	153	51	M/I	atG/atA	rs140325938	.	.	1	ADD1	HGNC	243	protein_coding	YES	CCDS3363.1	ENSP00000264758	ADDA_HUMAN	D6RAH3_HUMAN	UPI000002A35E	.	deleterious(0.01)	probably_damaging(0.986)	2/15	.	hmmpanther:PTHR10672,hmmpanther:PTHR10672:SF4	C:0.0002	C:0	C:0	.	C:0	C:0	C:0.001	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATGATGGA	byCluster|by1000G	4	BLCA
RGS12	0	.	GRCh37	4	3319682	3319682	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1785G>A	p.%3D	p.L595L	ENST00000344733	2/18	185	161	24	150	149	1	RGS12,synonymous_variant,p.%3D,ENST00000543385,;RGS12,synonymous_variant,p.%3D,ENST00000336727,;RGS12,synonymous_variant,p.%3D,ENST00000382788,;RGS12,synonymous_variant,p.%3D,ENST00000344733,;RGS12,upstream_gene_variant,,ENST00000511805,;RP11-357G3.2,downstream_gene_variant,,ENST00000600073,;RGS12,synonymous_variant,p.%3D,ENST00000514268,;RGS12,non_coding_transcript_exon_variant,,ENST00000502947,;RGS12,intron_variant,,ENST00000506631,;	A	ENSG00000159788	ENST00000344733	Transcript	synonymous_variant	2689	1785	595	L	ctG/ctA	.	.	.	1	RGS12	HGNC	9994	protein_coding	YES	CCDS3366.1	ENSP00000339381	RGS12_HUMAN	Q69YN1_HUMAN,Q56A82_HUMAN,E9PBG5_HUMAN	UPI0000133830	.	.	.	2/18	.	hmmpanther:PTHR10845,hmmpanther:PTHR10845:SF149	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCTGAATGC	.	4	BLCA
ATP8A1	0	.	GRCh37	4	42415017	42415017	+	Silent	SNP	G	G	A	rs112287290	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3411C>T	p.%3D	p.F1137F	ENST00000381668	37/37	59	51	7	37	37	0	ATP8A1,synonymous_variant,p.%3D,ENST00000381668,;ATP8A1,synonymous_variant,p.%3D,ENST00000264449,;ATP8A1,3_prime_UTR_variant,,ENST00000514372,;ATP8A1,non_coding_transcript_exon_variant,,ENST00000511858,;	A	ENSG00000124406	ENST00000381668	Transcript	synonymous_variant	3643	3411	1137	F	ttC/ttT	rs112287290	.	.	-1	ATP8A1	HGNC	13531	protein_coding	YES	CCDS3466.1	ENSP00000371084	AT8A1_HUMAN	H0YAJ4_HUMAN	UPI0000125063	.	.	.	37/37	.	hmmpanther:PTHR24092,hmmpanther:PTHR24092:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAGAGAACGC	.	4	BLCA
CNGA1	0	.	GRCh37	4	47944133	47944133	+	Missense_Mutation	SNP	G	G	A	rs769046389	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.689C>T	p.Ser230Leu	p.S230L	ENST00000402813	8/10	94	61	33	66	66	0	CNGA1,missense_variant,p.Ser230Leu,ENST00000402813,;CNGA1,missense_variant,p.Ser161Leu,ENST00000544810,;CNGA1,missense_variant,p.Ser161Leu,ENST00000358519,;CNGA1,missense_variant,p.Ser161Leu,ENST00000514170,;CNGA1,missense_variant,p.Ser161Leu,ENST00000420489,;CNGA1,downstream_gene_variant,,ENST00000504722,;NIPAL1,intron_variant,,ENST00000513724,;NIPAL1,intron_variant,,ENST00000500571,;CNGA1,downstream_gene_variant,,ENST00000506118,;	A	ENSG00000198515	ENST00000402813	Transcript	missense_variant	832	689	230	S/L	tCg/tTg	rs769046389	.	.	-1	CNGA1	HGNC	2148	protein_coding	YES	CCDS47050.1	ENSP00000384264	CNGA1_HUMAN	D6RCF1_HUMAN,D6R978_HUMAN	UPI0001881B54	.	deleterious(0)	possibly_damaging(0.532)	8/10	.	hmmpanther:PTHR10217:SF387,hmmpanther:PTHR10217,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCCGAGGGA	.	5	BLCA
LRRC66	0	.	GRCh37	4	52861337	52861337	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1851G>C	p.Gln617His	p.Q617H	ENST00000343457	4/4	85	65	19	69	69	0	LRRC66,missense_variant,p.Gln617His,ENST00000343457,;	G	ENSG00000188993	ENST00000343457	Transcript	missense_variant	1858	1851	617	Q/H	caG/caC	COSM245504	.	.	-1	LRRC66	HGNC	34299	protein_coding	YES	CCDS43229.1	ENSP00000341944	LRC66_HUMAN	.	UPI0000425C5B	.	tolerated(0.36)	benign(0.049)	4/4	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCTGCGA	.	5	BLCA
CEP135	0	.	GRCh37	4	56831889	56831889	+	Missense_Mutation	SNP	C	C	T	rs748056369	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.908C>T	p.Ser303Phe	p.S303F	ENST00000257287	8/26	63	56	7	47	47	0	CEP135,missense_variant,p.Ser303Phe,ENST00000257287,;CEP135,downstream_gene_variant,,ENST00000422247,;CEP135,non_coding_transcript_exon_variant,,ENST00000506202,;CEP135,non_coding_transcript_exon_variant,,ENST00000515081,;	T	ENSG00000174799	ENST00000257287	Transcript	missense_variant	1032	908	303	S/F	tCt/tTt	rs748056369	.	.	1	CEP135	HGNC	29086	protein_coding	YES	CCDS33986.1	ENSP00000257287	CP135_HUMAN	.	UPI00003CE420	.	deleterious(0)	benign(0.431)	8/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23159,hmmpanther:PTHR23159:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACATCTGAAG	.	4	BLCA
TECRL	0	.	GRCh37	4	65145773	65145773	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*17C>G	.	.	ENST00000381210	12/12	70	59	11	38	38	0	TECRL,3_prime_UTR_variant,,ENST00000381210,;TECRL,intron_variant,,ENST00000507440,;TECRL,downstream_gene_variant,,ENST00000511997,;	C	ENSG00000205678	ENST00000381210	Transcript	3_prime_UTR_variant	1220	.	.	.	.	.	.	.	-1	TECRL	HGNC	27365	protein_coding	YES	CCDS33990.1	ENSP00000370607	TECRL_HUMAN	D6RBZ3_HUMAN	UPI0000141A54	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATAGGAGATA	.	4	BLCA
TADA2B	0	.	GRCh37	4	7045475	7045475	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169G>A	p.Gly57Arg	p.G57R	ENST00000310074	1/2	13	7	5	17	17	0	TADA2B,missense_variant,p.Gly57Arg,ENST00000310074,;TADA2B,intron_variant,,ENST00000506692,;TADA2B,intron_variant,,ENST00000512388,;CCDC96,upstream_gene_variant,,ENST00000310085,;RP11-367J11.2,intron_variant,,ENST00000500031,;	A	ENSG00000173011	ENST00000310074	Transcript	missense_variant	358	169	57	G/R	Ggg/Agg	.	.	.	1	TADA2B	HGNC	30781	protein_coding	YES	CCDS47007.1	ENSP00000308022	TAD2B_HUMAN	D6RJ05_HUMAN,D6RC20_HUMAN	UPI00001996F4	.	deleterious(0.01)	possibly_damaging(0.695)	1/2	.	hmmpanther:PTHR12374,PIRSF_domain:PIRSF025024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE	ACGGCGGGCGC	.	3	BLCA
ALB	0	.	GRCh37	4	74280809	74280809	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1116A>T	p.Arg372Ser	p.R372S	ENST00000295897	9/15	149	133	16	138	138	0	ALB,missense_variant,p.Arg372Ser,ENST00000509063,;ALB,missense_variant,p.Arg217Ser,ENST00000511370,;ALB,missense_variant,p.Arg180Ser,ENST00000415165,;ALB,missense_variant,p.Arg372Ser,ENST00000295897,;ALB,missense_variant,p.Arg222Ser,ENST00000503124,;ALB,missense_variant,p.Arg257Ser,ENST00000401494,;ALB,non_coding_transcript_exon_variant,,ENST00000505649,;ALB,upstream_gene_variant,,ENST00000495173,;ALB,3_prime_UTR_variant,,ENST00000476441,;ALB,non_coding_transcript_exon_variant,,ENST00000484992,;ALB,non_coding_transcript_exon_variant,,ENST00000504043,;ALB,upstream_gene_variant,,ENST00000508932,;ALB,upstream_gene_variant,,ENST00000486939,;ALB,downstream_gene_variant,,ENST00000507673,;	T	ENSG00000163631	ENST00000295897	Transcript	missense_variant	1205	1116	372	R/S	agA/agT	.	.	.	1	ALB	HGNC	399	protein_coding	YES	CCDS3555.1	ENSP00000295897	ALBU_HUMAN	.	UPI000002C1AC	.	deleterious(0)	probably_damaging(0.993)	9/15	.	PROSITE_profiles:PS51438,hmmpanther:PTHR11385,hmmpanther:PTHR11385:SF6,Gene3D:1.10.246.10,Pfam_domain:PF00273,SMART_domains:SM00103,PIRSF_domain:PIRSF002520,Superfamily_domains:SSF48552,Prints_domain:PR00802	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGAGACTTGC	.	4	BLCA
IL8	0	.	GRCh37	4	74607387	74607387	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>A	p.Glu65Lys	p.E65K	ENST00000307407	2/4	68	62	6	55	55	0	IL8,missense_variant,p.Glu65Lys,ENST00000307407,;IL8,missense_variant,p.Glu65Lys,ENST00000401931,;IL8,non_coding_transcript_exon_variant,,ENST00000483500,;	A	ENSG00000169429	ENST00000307407	Transcript	missense_variant	346	193	65	E/K	Gaa/Aaa	.	.	.	1	IL8	HGNC	6025	protein_coding	YES	CCDS34005.1	ENSP00000306512	IL8_HUMAN	C9J4T6_HUMAN	UPI0000000DD0	.	deleterious(0.02)	probably_damaging(1)	2/4	.	Prints_domain:PR00436,Prints_domain:PR00437,Superfamily_domains:SSF54117,SMART_domains:SM00199,Gene3D:2.40.50.40,Pfam_domain:PF00048,PROSITE_patterns:PS00471,hmmpanther:PTHR10179,hmmpanther:PTHR10179:SF35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACACAGAAATT	.	3	BLCA
SDAD1	0	.	GRCh37	4	76882458	76882458	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1185C>G	p.Ile395Met	p.I395M	ENST00000356260	15/22	120	99	21	84	84	0	SDAD1,missense_variant,p.Ile358Met,ENST00000395711,;SDAD1,missense_variant,p.Ile395Met,ENST00000356260,;AC110615.1,downstream_gene_variant,,ENST00000599764,;SDAD1,non_coding_transcript_exon_variant,,ENST00000513089,;SDAD1,downstream_gene_variant,,ENST00000507396,;SDAD1,upstream_gene_variant,,ENST00000502543,;SDAD1,3_prime_UTR_variant,,ENST00000395710,;	C	ENSG00000198301	ENST00000356260	Transcript	missense_variant	1304	1185	395	I/M	atC/atG	.	.	.	-1	SDAD1	HGNC	25537	protein_coding	YES	CCDS3573.2	ENSP00000348596	SDA1_HUMAN	.	UPI000020B02A	.	deleterious(0.01)	possibly_damaging(0.493)	15/22	.	hmmpanther:PTHR12730,hmmpanther:PTHR12730:SF0,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCATTGATTCT	.	4	BLCA
SHROOM3	0	.	GRCh37	4	77659989	77659989	+	Silent	SNP	G	G	T	rs758685837	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.663G>T	p.%3D	p.G221G	ENST00000296043	5/11	106	95	11	74	74	0	SHROOM3,synonymous_variant,p.%3D,ENST00000296043,;SHROOM3,non_coding_transcript_exon_variant,,ENST00000473602,;SHROOM3,intron_variant,,ENST00000469923,;SHROOM3,downstream_gene_variant,,ENST00000481002,;SHROOM3,non_coding_transcript_exon_variant,,ENST00000486758,;	T	ENSG00000138771	ENST00000296043	Transcript	synonymous_variant	1616	663	221	G	ggG/ggT	rs758685837	.	.	1	SHROOM3	HGNC	30422	protein_coding	YES	CCDS3579.2	ENSP00000296043	SHRM3_HUMAN	.	UPI0000E5AC1C	.	.	.	5/11	.	hmmpanther:PTHR15012:SF33,hmmpanther:PTHR15012	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGGGGAGCAT	.	3	BLCA
CXCL13	0	.	GRCh37	4	78527039	78527039	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20C>T	p.Ser7Phe	p.S7F	ENST00000286758	2/5	75	64	11	58	58	0	CXCL13,missense_variant,p.Ser7Phe,ENST00000286758,;CXCL13,non_coding_transcript_exon_variant,,ENST00000506590,;	T	ENSG00000156234	ENST00000286758	Transcript	missense_variant	98	20	7	S/F	tCt/tTt	COSM222922	.	.	1	CXCL13	HGNC	10639	protein_coding	YES	CCDS3582.1	ENSP00000286758	CXL13_HUMAN	Q53X90_HUMAN	UPI0000000CC9	.	tolerated(0.17)	benign(0.432)	2/5	.	Prints_domain:PR00436,hmmpanther:PTHR10179,hmmpanther:PTHR10179:SF27,Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATCTCTGC	.	5	BLCA
HNRNPDL	0	.	GRCh37	4	83349499	83349499	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.544G>C	p.Asp182His	p.D182H	ENST00000295470	2/8	116	99	16	108	108	0	HNRNPDL,missense_variant,p.Asp182His,ENST00000502762,;HNRNPDL,missense_variant,p.Asp63His,ENST00000349655,;HNRNPDL,missense_variant,p.Asp63His,ENST00000602300,;HNRNPDL,missense_variant,p.Asp182His,ENST00000295470,;ENOPH1,upstream_gene_variant,,ENST00000273920,;ENOPH1,upstream_gene_variant,,ENST00000509635,;HNRNPDL,intron_variant,,ENST00000514511,;HNRNPDL,upstream_gene_variant,,ENST00000507721,;ENOPH1,upstream_gene_variant,,ENST00000505846,;	G	ENSG00000152795	ENST00000295470	Transcript	missense_variant	720	544	182	D/H	Gat/Cat	.	.	.	-1	HNRNPDL	HGNC	5037	protein_coding	YES	CCDS3593.1	ENSP00000295470	HNRDL_HUMAN	B4DGN3_HUMAN	UPI0000073377	.	deleterious(0.03)	possibly_damaging(0.46)	2/8	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF275,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCTGTTT	.	4	BLCA
TIGD2	0	.	GRCh37	4	90034116	90034116	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-10G>A	.	.	ENST00000317005	1/1	93	73	20	66	66	0	TIGD2,5_prime_UTR_variant,,ENST00000317005,;RP11-84C13.1,downstream_gene_variant,,ENST00000603357,;FAM13A,upstream_gene_variant,,ENST00000502459,;	A	ENSG00000180346	ENST00000317005	Transcript	5_prime_UTR_variant	149	.	.	.	.	.	.	.	1	TIGD2	HGNC	18333	protein_coding	YES	CCDS3633.1	ENSP00000317170	TIGD2_HUMAN	.	UPI000013FF3C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTAGACACT	.	5	BLCA
GRID2	0	.	GRCh37	4	94690400	94690400	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2400G>A	p.%3D	p.L800L	ENST00000282020	15/16	85	68	17	64	64	0	GRID2,synonymous_variant,p.%3D,ENST00000282020,;GRID2,synonymous_variant,p.%3D,ENST00000510992,;	A	ENSG00000152208	ENST00000282020	Transcript	synonymous_variant	2658	2400	800	L	ctG/ctA	.	.	.	1	GRID2	HGNC	4576	protein_coding	YES	CCDS3637.1	ENSP00000282020	GRID2_HUMAN	Q4W5S4_HUMAN,Q4W5L9_HUMAN,Q4W5F4_HUMAN,Q4W5B7_HUMAN,D6R976_HUMAN	UPI00001AEA78	.	.	.	15/16	.	hmmpanther:PTHR18966:SF109,hmmpanther:PTHR18966,Pfam_domain:PF00497,Pfam_domain:PF00060,SMART_domains:SM00079,Superfamily_domains:SSF53850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGAAGCA	.	5	BLCA
FAM173B	0	.	GRCh37	5	10235328	10235328	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.490C>G	p.Gln164Glu	p.Q164E	ENST00000511437	4/5	41	37	4	37	37	0	FAM173B,missense_variant,p.Gln164Glu,ENST00000511437,;FAM173B,5_prime_UTR_variant,,ENST00000280330,;FAM173B,intron_variant,,ENST00000510047,;FAM173B,non_coding_transcript_exon_variant,,ENST00000510052,;FAM173B,3_prime_UTR_variant,,ENST00000506108,;FAM173B,intron_variant,,ENST00000504390,;FAM173B,downstream_gene_variant,,ENST00000508553,;	C	ENSG00000150756	ENST00000511437	Transcript	missense_variant	503	490	164	Q/E	Cag/Gag	.	.	.	-1	FAM173B	HGNC	27029	protein_coding	YES	CCDS43301.1	ENSP00000422338	F173B_HUMAN	J3KN90_HUMAN	UPI000020BF92	.	tolerated(0.14)	possibly_damaging(0.868)	4/5	.	Superfamily_domains:SSF53335,Gene3D:3.40.50.150,hmmpanther:PTHR13610,hmmpanther:PTHR13610:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	CATCTGAGGCA	.	2	BLCA
SLC12A7	0	.	GRCh37	5	1057746	1057746	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2866A>T	p.Arg956Trp	p.R956W	ENST00000264930	22/24	123	102	21	123	123	0	SLC12A7,missense_variant,p.Arg314Trp,ENST00000513223,;SLC12A7,missense_variant,p.Arg956Trp,ENST00000264930,;SLC12A7,non_coding_transcript_exon_variant,,ENST00000514994,;	A	ENSG00000113504	ENST00000264930	Transcript	missense_variant	2910	2866	956	R/W	Agg/Tgg	.	.	.	-1	SLC12A7	HGNC	10915	protein_coding	YES	CCDS34129.1	ENSP00000264930	S12A7_HUMAN	.	UPI0000141815	.	deleterious(0)	benign(0.031)	22/24	.	hmmpanther:PTHR11827:SF47,hmmpanther:PTHR11827,TIGRFAM_domain:TIGR00930	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCCTGTCGT	.	4	BLCA
DMXL1	0	.	GRCh37	5	118506141	118506141	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5655C>T	p.%3D	p.I1885I	ENST00000311085	24/43	91	78	13	72	72	0	DMXL1,synonymous_variant,p.%3D,ENST00000539542,;DMXL1,synonymous_variant,p.%3D,ENST00000311085,;DMXL1,non_coding_transcript_exon_variant,,ENST00000504497,;DMXL1,upstream_gene_variant,,ENST00000507552,;	T	ENSG00000172869	ENST00000311085	Transcript	synonymous_variant	5735	5655	1885	I	atC/atT	.	.	.	1	DMXL1	HGNC	2937	protein_coding	YES	CCDS4125.1	ENSP00000309690	DMXL1_HUMAN	F1T0K4_HUMAN,E7EMZ0_HUMAN	UPI000013F0EC	.	.	.	24/43	.	hmmpanther:PTHR13950,hmmpanther:PTHR13950:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCATCAAGAA	.	4	BLCA
DMXL1	0	.	GRCh37	5	118582839	118582839	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9009G>A	p.Met3003Ile	p.M3003I	ENST00000311085	43/43	128	111	17	105	105	0	DMXL1,missense_variant,p.Met3024Ile,ENST00000539542,;DMXL1,missense_variant,p.Met3003Ile,ENST00000311085,;DMXL1,non_coding_transcript_exon_variant,,ENST00000505312,;DMXL1,non_coding_transcript_exon_variant,,ENST00000514595,;	A	ENSG00000172869	ENST00000311085	Transcript	missense_variant	9089	9009	3003	M/I	atG/atA	.	.	.	1	DMXL1	HGNC	2937	protein_coding	YES	CCDS4125.1	ENSP00000309690	DMXL1_HUMAN	F1T0K4_HUMAN,E7EMZ0_HUMAN	UPI000013F0EC	.	deleterious(0.01)	benign(0.064)	43/43	.	hmmpanther:PTHR13950,hmmpanther:PTHR13950:SF12,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAATGAAAAT	.	4	BLCA
PRR16	0	.	GRCh37	5	120021821	120021821	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.263C>G	p.Ser88Cys	p.S88C	ENST00000379551	3/3	124	102	22	90	90	0	PRR16,missense_variant,p.Ser111Cys,ENST00000407149,;PRR16,missense_variant,p.Ser41Cys,ENST00000446965,;PRR16,missense_variant,p.Ser41Cys,ENST00000505123,;PRR16,missense_variant,p.Ser41Cys,ENST00000509923,;PRR16,missense_variant,p.Ser88Cys,ENST00000379551,;	G	ENSG00000184838	ENST00000379551	Transcript	missense_variant	620	263	88	S/C	tCt/tGt	.	.	.	1	PRR16	HGNC	29654	protein_coding	YES	CCDS4127.1	ENSP00000368869	PRR16_HUMAN	D6RGF0_HUMAN	UPI0000073195	.	deleterious_low_confidence(0.02)	probably_damaging(0.999)	3/3	.	hmmpanther:PTHR15917,hmmpanther:PTHR15917:SF0,Pfam_domain:PF15252	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGTCTGCTA	.	5	BLCA
FBN2	0	.	GRCh37	5	127624244	127624244	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6643G>A	p.Asp2215Asn	p.D2215N	ENST00000508053	59/71	72	57	15	74	74	0	FBN2,missense_variant,p.Asp2215Asn,ENST00000262464,;FBN2,missense_variant,p.Asp2215Asn,ENST00000508053,;	T	ENSG00000138829	ENST00000508053	Transcript	missense_variant	7618	6643	2215	D/N	Gat/Aat	.	.	.	-1	FBN2	HGNC	3604	protein_coding	YES	CCDS34222.1	ENSP00000424571	FBN2_HUMAN	.	UPI0000519468	.	tolerated(0.28)	possibly_damaging(0.58)	59/71	.	Superfamily_domains:SSF57184,SMART_domains:SM00179,PIRSF_domain:PIRSF036312,Gene3D:2.10.25.10,Pfam_domain:PF07645,PROSITE_patterns:PS01187,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF19,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCAGTAT	.	5	BLCA
IL13	0	.	GRCh37	5	131993887	131993887	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9G>A	p.%3D	p.P3P	ENST00000304506	1/4	52	43	8	35	35	0	IL13,synonymous_variant,p.%3D,ENST00000304506,;AC004041.2,intron_variant,,ENST00000435042,;AC004041.2,upstream_gene_variant,,ENST00000417516,;AC004041.2,upstream_gene_variant,,ENST00000458509,;IL13,intron_variant,,ENST00000468334,;IL13,intron_variant,,ENST00000487267,;IL13,intron_variant,,ENST00000459878,;IL13,non_coding_transcript_exon_variant,,ENST00000462480,;	A	ENSG00000169194	ENST00000304506	Transcript	synonymous_variant	23	9	3	P	ccG/ccA	.	.	.	1	IL13	HGNC	5973	protein_coding	YES	CCDS4157.1	ENSP00000304915	IL13_HUMAN	Q4VB53_HUMAN	UPI0000167822	.	.	.	1/4	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCCGCTCCT	.	4	BLCA
DDX46	0	.	GRCh37	5	134146935	134146935	+	Missense_Mutation	SNP	G	G	A	rs754452422	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2173G>A	p.Glu725Lys	p.E725K	ENST00000354283	17/23	91	76	15	65	65	0	DDX46,missense_variant,p.Glu725Lys,ENST00000354283,;DDX46,missense_variant,p.Glu725Lys,ENST00000452510,;DDX46,3_prime_UTR_variant,,ENST00000507392,;DDX46,non_coding_transcript_exon_variant,,ENST00000503946,;	A	ENSG00000145833	ENST00000354283	Transcript	missense_variant	2308	2173	725	E/K	Gag/Aag	rs754452422	.	.	1	DDX46	HGNC	18681	protein_coding	YES	CCDS34240.1	ENSP00000346236	DDX46_HUMAN	.	UPI0000072E73	.	tolerated(0.16)	benign(0.065)	17/23	.	PROSITE_profiles:PS51194,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF158,Gene3D:3.40.50.300,Superfamily_domains:SSF52540,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACAGAGGAT	.	4	BLCA
DDX46	0	.	GRCh37	5	134147521	134147521	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2422G>A	p.Asp808Asn	p.D808N	ENST00000354283	18/23	88	68	19	72	72	0	DDX46,missense_variant,p.Asp808Asn,ENST00000354283,;DDX46,missense_variant,p.Asp808Asn,ENST00000452510,;DDX46,3_prime_UTR_variant,,ENST00000507392,;DDX46,non_coding_transcript_exon_variant,,ENST00000503946,;	A	ENSG00000145833	ENST00000354283	Transcript	missense_variant	2557	2422	808	D/N	Gat/Aat	.	.	.	1	DDX46	HGNC	18681	protein_coding	YES	CCDS34240.1	ENSP00000346236	DDX46_HUMAN	.	UPI0000072E73	.	deleterious(0.03)	probably_damaging(0.91)	18/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF158	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGAGGATGCT	.	3	BLCA
DDX46	0	.	GRCh37	5	134147527	134147527	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2428G>A	p.Ala810Thr	p.A810T	ENST00000354283	18/23	84	68	16	70	70	0	DDX46,missense_variant,p.Ala810Thr,ENST00000354283,;DDX46,missense_variant,p.Ala810Thr,ENST00000452510,;DDX46,3_prime_UTR_variant,,ENST00000507392,;DDX46,non_coding_transcript_exon_variant,,ENST00000503946,;	A	ENSG00000145833	ENST00000354283	Transcript	missense_variant	2563	2428	810	A/T	Gca/Aca	.	.	.	1	DDX46	HGNC	18681	protein_coding	YES	CCDS34240.1	ENSP00000346236	DDX46_HUMAN	.	UPI0000072E73	.	tolerated(0.43)	benign(0.146)	18/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF158	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGCTGCAGTT	.	3	BLCA
H2AFY	0	.	GRCh37	5	134670751	134670751	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1034C>A	p.Ser345Tyr	p.S345Y	ENST00000511689	9/9	111	96	15	86	85	1	H2AFY,missense_variant,p.Ser345Tyr,ENST00000510038,;H2AFY,missense_variant,p.Ser173Tyr,ENST00000423969,;H2AFY,missense_variant,p.Ser344Tyr,ENST00000304332,;H2AFY,missense_variant,p.Ser342Tyr,ENST00000312469,;H2AFY,missense_variant,p.Ser345Tyr,ENST00000511689,;C5orf66,intron_variant,,ENST00000432382,;C5orf66,upstream_gene_variant,,ENST00000555438,;H2AFY,non_coding_transcript_exon_variant,,ENST00000451949,;H2AFY,non_coding_transcript_exon_variant,,ENST00000512507,;H2AFY,non_coding_transcript_exon_variant,,ENST00000360597,;C5orf66,intron_variant,,ENST00000513931,;H2AFY,3_prime_UTR_variant,,ENST00000506671,;H2AFY,non_coding_transcript_exon_variant,,ENST00000511494,;H2AFY,downstream_gene_variant,,ENST00000505827,;	T	ENSG00000113648	ENST00000511689	Transcript	missense_variant	1628	1034	345	S/Y	tCc/tAc	.	.	.	-1	H2AFY	HGNC	4740	protein_coding	YES	CCDS4185.1	ENSP00000423563	H2AY_HUMAN	.	UPI00000723ED	.	deleterious(0)	possibly_damaging(0.892)	9/9	.	PROSITE_profiles:PS51154,Gene3D:3.40.220.10,PIRSF_domain:PIRSF037942,Superfamily_domains:SSF52949	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGATGGAAGAG	.	4	BLCA
KIF20A	0	.	GRCh37	5	137518573	137518573	+	Missense_Mutation	SNP	G	G	C	rs768806257	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726G>C	p.Lys242Asn	p.K242N	ENST00000394894	7/19	49	45	4	46	46	0	KIF20A,missense_variant,p.Lys224Asn,ENST00000508792,;KIF20A,missense_variant,p.Lys242Asn,ENST00000394894,;BRD8,upstream_gene_variant,,ENST00000254900,;BRD8,upstream_gene_variant,,ENST00000455658,;BRD8,upstream_gene_variant,,ENST00000402931,;KIF20A,downstream_gene_variant,,ENST00000504621,;BRD8,upstream_gene_variant,,ENST00000411594,;BRD8,upstream_gene_variant,,ENST00000430331,;BRD8,upstream_gene_variant,,ENST00000454473,;BRD8,upstream_gene_variant,,ENST00000418329,;BRD8,upstream_gene_variant,,ENST00000230901,;KIF20A,downstream_gene_variant,,ENST00000513276,;CDC23,downstream_gene_variant,,ENST00000394886,;BRD8,upstream_gene_variant,,ENST00000425764,;KIF20A,downstream_gene_variant,,ENST00000503417,;BRD8,upstream_gene_variant,,ENST00000471437,;BRD8,upstream_gene_variant,,ENST00000432618,;BRD8,upstream_gene_variant,,ENST00000515254,;BRD8,upstream_gene_variant,,ENST00000512140,;BRD8,upstream_gene_variant,,ENST00000450756,;BRD8,upstream_gene_variant,,ENST00000428808,;KIF20A,upstream_gene_variant,,ENST00000502338,;KIF20A,downstream_gene_variant,,ENST00000511638,;	C	ENSG00000112984	ENST00000394894	Transcript	missense_variant	952	726	242	K/N	aaG/aaC	rs768806257	.	.	1	KIF20A	HGNC	9787	protein_coding	YES	CCDS4199.1	ENSP00000378356	KI20A_HUMAN	D6RBN1_HUMAN,D6R9E4_HUMAN	UPI0000000CCE	.	tolerated(0.07)	benign(0.422)	7/19	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF352,hmmpanther:PTHR24115,Pfam_domain:PF00225,SMART_domains:SM00129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGAAGAGGAG	byFrequency	3	BLCA
MATR3	0	.	GRCh37	5	138655105	138655105	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1517C>G	p.Ser506Cys	p.S506C	ENST00000394805	9/15	94	78	16	64	64	0	MATR3,missense_variant,p.Ser506Cys,ENST00000502929,;MATR3,missense_variant,p.Ser506Cys,ENST00000510056,;MATR3,missense_variant,p.Ser506Cys,ENST00000394800,;MATR3,missense_variant,p.Ser218Cys,ENST00000503811,;MATR3,missense_variant,p.Ser104Cys,ENST00000511249,;MATR3,missense_variant,p.Ser168Cys,ENST00000502499,;MATR3,missense_variant,p.Ser506Cys,ENST00000394805,;MATR3,missense_variant,p.Ser506Cys,ENST00000509990,;MATR3,missense_variant,p.Ser168Cys,ENST00000504203,;MATR3,missense_variant,p.Ser266Cys,ENST00000515833,;MATR3,missense_variant,p.Ser506Cys,ENST00000361059,;MATR3,downstream_gene_variant,,ENST00000512876,;MATR3,downstream_gene_variant,,ENST00000514528,;MATR3,downstream_gene_variant,,ENST00000512107,;MATR3,downstream_gene_variant,,ENST00000504311,;MATR3,downstream_gene_variant,,ENST00000506147,;MATR3,downstream_gene_variant,,ENST00000504045,;MATR3,downstream_gene_variant,,ENST00000509644,;MATR3,downstream_gene_variant,,ENST00000513678,;MATR3,non_coding_transcript_exon_variant,,ENST00000511978,;MATR3,intron_variant,,ENST00000509918,;MATR3,non_coding_transcript_exon_variant,,ENST00000502422,;MATR3,non_coding_transcript_exon_variant,,ENST00000504643,;MATR3,non_coding_transcript_exon_variant,,ENST00000505625,;MATR3,upstream_gene_variant,,ENST00000512040,;MATR3,upstream_gene_variant,,ENST00000502944,;MATR3,downstream_gene_variant,,ENST00000514402,;MATR3,downstream_gene_variant,,ENST00000511333,;MATR3,downstream_gene_variant,,ENST00000507860,;MATR3,downstream_gene_variant,,ENST00000513121,;	G	ENSG00000015479	ENST00000394805	Transcript	missense_variant	1852	1517	506	S/C	tCt/tGt	.	.	.	1	MATR3	HGNC	6912	protein_coding	YES	CCDS4210.1	ENSP00000378284	MATR3_HUMAN	Q9H4N1_HUMAN,D6REK4_HUMAN,D6RE02_HUMAN,D6RCM3_HUMAN,D6RBS2_HUMAN,D6RBK5_HUMAN,D6RBI2_HUMAN,D6RB45_HUMAN,D6RAY2_HUMAN,D6RAM9_HUMAN,D6R9F3_HUMAN,D6R991_HUMAN,D6R8Z5_HUMAN,B3KM87_HUMAN	UPI0000000DEE	.	deleterious(0.03)	probably_damaging(0.987)	9/15	.	PROSITE_profiles:PS50102,hmmpanther:PTHR15592,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTCTGGCT	.	5	BLCA
SLC23A1	0	.	GRCh37	5	138718195	138718195	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136C>T	p.%3D	p.L46L	ENST00000353963	2/15	58	51	6	35	35	0	SLC23A1,synonymous_variant,p.%3D,ENST00000508270,;SLC23A1,synonymous_variant,p.%3D,ENST00000348729,;SLC23A1,synonymous_variant,p.%3D,ENST00000353963,;SLC23A1,upstream_gene_variant,,ENST00000504513,;SLC23A1,non_coding_transcript_exon_variant,,ENST00000503919,;MZB1,downstream_gene_variant,,ENST00000417694,;SLC23A1,upstream_gene_variant,,ENST00000502863,;SLC23A1,upstream_gene_variant,,ENST00000506512,;MZB1,downstream_gene_variant,,ENST00000503481,;	A	ENSG00000170482	ENST00000353963	Transcript	synonymous_variant	175	136	46	L	Ctg/Ttg	.	.	.	-1	SLC23A1	HGNC	10974	protein_coding	YES	CCDS4213.1	ENSP00000302851	S23A1_HUMAN	.	UPI000020C6FE	.	.	.	2/15	.	Transmembrane_helices:TMhelix,Pfam_domain:PF00860,hmmpanther:PTHR11119,hmmpanther:PTHR11119:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CAGCAGGATGC	.	2	BLCA
SLC23A1	0	.	GRCh37	5	138718196	138718196	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135C>T	p.%3D	p.I45I	ENST00000353963	2/15	57	50	7	34	34	0	SLC23A1,synonymous_variant,p.%3D,ENST00000508270,;SLC23A1,synonymous_variant,p.%3D,ENST00000348729,;SLC23A1,synonymous_variant,p.%3D,ENST00000353963,;SLC23A1,upstream_gene_variant,,ENST00000504513,;SLC23A1,non_coding_transcript_exon_variant,,ENST00000503919,;MZB1,downstream_gene_variant,,ENST00000417694,;SLC23A1,upstream_gene_variant,,ENST00000502863,;SLC23A1,upstream_gene_variant,,ENST00000506512,;MZB1,downstream_gene_variant,,ENST00000503481,;	A	ENSG00000170482	ENST00000353963	Transcript	synonymous_variant	174	135	45	I	atC/atT	.	.	.	-1	SLC23A1	HGNC	10974	protein_coding	YES	CCDS4213.1	ENSP00000302851	S23A1_HUMAN	.	UPI000020C6FE	.	.	.	2/15	.	Transmembrane_helices:TMhelix,Pfam_domain:PF00860,hmmpanther:PTHR11119,hmmpanther:PTHR11119:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	AGCAGGATGCA	.	3	BLCA
HARS	0	.	GRCh37	5	140056909	140056909	+	Intron	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.823+3G>T	.	.	ENST00000504156	.	64	56	7	61	61	0	HARS,splice_region_variant,,ENST00000504366,;HARS,splice_region_variant,,ENST00000448240,;HARS,splice_region_variant,,ENST00000431330,;HARS,splice_region_variant,,ENST00000504156,;HARS,splice_region_variant,,ENST00000457527,;HARS,splice_region_variant,,ENST00000507746,;HARS,splice_region_variant,,ENST00000307633,;HARS,splice_region_variant,,ENST00000415192,;HARS,splice_region_variant,,ENST00000438307,;WDR55,downstream_gene_variant,,ENST00000358337,;DND1,upstream_gene_variant,,ENST00000542735,;WDR55,downstream_gene_variant,,ENST00000520764,;HARS,splice_region_variant,,ENST00000506579,;HARS,upstream_gene_variant,,ENST00000509087,;WDR55,downstream_gene_variant,,ENST00000504897,;HARS,downstream_gene_variant,,ENST00000512396,;WDR55,downstream_gene_variant,,ENST00000511232,;HARS,downstream_gene_variant,,ENST00000518126,;WDR55,downstream_gene_variant,,ENST00000506393,;	A	ENSG00000170445	ENST00000504156	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	HARS	HGNC	4816	protein_coding	YES	CCDS4237.1	ENSP00000425634	SYHC_HUMAN	D6RF05_HUMAN,B3KWE1_HUMAN	UPI00001364CE	.	.	.	.	8/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUSE|VARSCANS	TTCCTCACCAT	.	3	BLCA
PCDHA5	0	.	GRCh37	5	140203314	140203314	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1954G>A	p.Asp652Asn	p.D652N	ENST00000529859	1/4	97	82	15	92	92	0	PCDHA5,missense_variant,p.Asp652Asn,ENST00000529619,;PCDHA5,missense_variant,p.Asp652Asn,ENST00000378126,;PCDHA5,missense_variant,p.Asp652Asn,ENST00000529859,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA6,upstream_gene_variant,,ENST00000527624,;PCDHA6,upstream_gene_variant,,ENST00000529310,;	A	ENSG00000204965	ENST00000529859	Transcript	missense_variant	1954	1954	652	D/N	Gac/Aac	.	.	.	1	PCDHA5	HGNC	8671	protein_coding	YES	CCDS54917.1	ENSP00000436557	PCDA5_HUMAN	.	UPI00001273CD	.	deleterious_low_confidence(0)	probably_damaging(0.999)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF111,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAAGGACCAT	.	4	BLCA
PCDHA9	0	.	GRCh37	5	140230219	140230219	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2139C>T	p.%3D	p.L713L	ENST00000532602	1/4	166	148	18	148	148	0	PCDHA9,synonymous_variant,p.%3D,ENST00000378122,;PCDHA9,synonymous_variant,p.%3D,ENST00000532602,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;	T	ENSG00000204961	ENST00000532602	Transcript	synonymous_variant	3172	2139	713	L	ctC/ctT	.	.	.	1	PCDHA9	HGNC	8675	protein_coding	YES	CCDS54920.1	ENSP00000436042	PCDA9_HUMAN	.	UPI00001273D1	.	.	.	1/4	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF67	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCTCACGCT	.	4	BLCA
PCDHA9	0	.	GRCh37	5	140230278	140230278	+	Missense_Mutation	SNP	C	C	T	rs138234390	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2198C>T	p.Ala733Val	p.A733V	ENST00000532602	1/4	163	131	32	121	121	0	PCDHA9,missense_variant,p.Ala733Val,ENST00000378122,;PCDHA9,missense_variant,p.Ala733Val,ENST00000532602,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;	T	ENSG00000204961	ENST00000532602	Transcript	missense_variant	3231	2198	733	A/V	gCg/gTg	rs138234390	.	.	1	PCDHA9	HGNC	8675	protein_coding	YES	CCDS54920.1	ENSP00000436042	PCDA9_HUMAN	.	UPI00001273D1	.	tolerated_low_confidence(0.06)	benign(0.002)	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF67	G:0.0068	G:0	G:0	.	G:0	G:0.001	G:0.0337	G:0	G:0.0007	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCGCGCCTG	byFrequency|byCluster|by1000G	5	BLCA
PCDHA10	0	.	GRCh37	5	140235895	140235895	+	Missense_Mutation	SNP	C	C	T	rs782387382	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262C>T	p.Arg88Trp	p.R88W	ENST00000307360	1/4	313	271	42	255	255	0	PCDHA10,missense_variant,p.Arg88Trp,ENST00000506939,;PCDHA10,missense_variant,p.Arg88Trp,ENST00000307360,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA9,intron_variant,,ENST00000532602,;AC005609.1,downstream_gene_variant,,ENST00000502505,;PCDHA9,downstream_gene_variant,,ENST00000378122,;PCDHA14,upstream_gene_variant,,ENST00000506751,;	T	ENSG00000250120	ENST00000307360	Transcript	missense_variant	262	262	88	R/W	Cgg/Tgg	rs782387382	.	.	1	PCDHA10	HGNC	8664	protein_coding	YES	CCDS54921.1	ENSP00000304234	PCDAA_HUMAN	.	UPI00001273D3	.	deleterious_low_confidence(0.01)	possibly_damaging(0.833)	1/4	.	Prints_domain:PR00205,Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF08266,hmmpanther:PTHR24028:SF76,hmmpanther:PTHR24028,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCTCGGATT	byFrequency	4	BLCA
PCDHAC2	0	.	GRCh37	5	140348889	140348889	+	Silent	SNP	C	C	G	rs782271875	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2538C>G	p.%3D	p.L846L	ENST00000289269	1/4	38	35	3	29	29	0	PCDHAC2,synonymous_variant,p.%3D,ENST00000289269,;PCDHAC1,intron_variant,,ENST00000253807,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA11,intron_variant,,ENST00000398640,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA12,intron_variant,,ENST00000398631,;PCDHA13,intron_variant,,ENST00000289272,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA9,intron_variant,,ENST00000532602,;PCDHA13,intron_variant,,ENST00000409494,;	G	ENSG00000243232	ENST00000289269	Transcript	synonymous_variant	3070	2538	846	L	ctC/ctG	rs782271875	.	.	1	PCDHAC2	HGNC	8677	protein_coding	YES	CCDS4242.1	ENSP00000289269	PCDC2_HUMAN	.	UPI0000127786	.	.	.	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTCAAAAA	byFrequency	2	BLCA
PCDHGA1	0	.	GRCh37	5	140712171	140712171	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1920G>C	p.Gln640His	p.Q640H	ENST00000517417	1/4	123	105	17	88	88	0	PCDHGA1,missense_variant,p.Gln640His,ENST00000517417,;PCDHGA1,missense_variant,p.Gln640His,ENST00000378105,;AC005618.6,downstream_gene_variant,,ENST00000606901,;AC005618.6,downstream_gene_variant,,ENST00000606674,;	C	ENSG00000204956	ENST00000517417	Transcript	missense_variant	1920	1920	640	Q/H	caG/caC	.	.	.	1	PCDHGA1	HGNC	8696	protein_coding	YES	CCDS54922.1	ENSP00000431083	PCDG1_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000070596	.	deleterious_low_confidence(0.01)	benign(0.33)	1/4	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028:SF108,hmmpanther:PTHR24028,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCAGAGTCT	.	4	BLCA
PCDHGA8	0	.	GRCh37	5	140773778	140773778	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1398G>C	p.%3D	p.L466L	ENST00000398604	1/4	42	36	6	35	35	0	PCDHGA8,synonymous_variant,p.%3D,ENST00000398604,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB2,intron_variant,,ENST00000522605,;	C	ENSG00000253767	ENST00000398604	Transcript	synonymous_variant	1398	1398	466	L	ctG/ctC	.	.	.	1	PCDHGA8	HGNC	8706	protein_coding	YES	CCDS47291.1	ENSP00000381605	PCDG8_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000006FC06	.	.	.	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF72,Gene3D:2.60.40.60,Pfam_domain:PF00028,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTGAGAGG	.	4	BLCA
PCDH12	0	.	GRCh37	5	141331125	141331125	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2911C>G	p.Gln971Glu	p.Q971E	ENST00000231484	2/4	150	118	31	121	121	0	PCDH12,missense_variant,p.Gln971Glu,ENST00000231484,;AC005740.6,upstream_gene_variant,,ENST00000607378,;	C	ENSG00000113555	ENST00000231484	Transcript	missense_variant	4122	2911	971	Q/E	Cag/Gag	.	.	.	-1	PCDH12	HGNC	8657	protein_coding	YES	CCDS4269.1	ENSP00000231484	PCD12_HUMAN	E5RJD4_HUMAN	UPI00001313B4	.	deleterious(0.03)	possibly_damaging(0.459)	2/4	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTGATGCA	.	5	BLCA
TRIO	0	.	GRCh37	5	14297232	14297232	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1228G>C	p.Glu410Gln	p.E410Q	ENST00000344204	7/57	88	71	17	80	80	0	TRIO,missense_variant,p.Glu410Gln,ENST00000537187,;TRIO,missense_variant,p.Glu361Gln,ENST00000509967,;TRIO,missense_variant,p.Glu410Gln,ENST00000344204,;TRIO,missense_variant,p.Glu143Gln,ENST00000513206,;TRIO,missense_variant,p.Glu351Gln,ENST00000512070,;TRIO,non_coding_transcript_exon_variant,,ENST00000504606,;TRIO,non_coding_transcript_exon_variant,,ENST00000515144,;	C	ENSG00000038382	ENST00000344204	Transcript	missense_variant	1252	1228	410	E/Q	Gag/Cag	.	.	.	1	TRIO	HGNC	12303	protein_coding	YES	CCDS3883.1	ENSP00000339299	TRIO_HUMAN	.	UPI000034ECE6	.	.	possibly_damaging(0.482)	7/57	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Pfam_domain:PF00435,Gene3D:1.20.58.60,hmmpanther:PTHR22826:SF104,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTGGAGTCT	.	5	BLCA
TRIO	0	.	GRCh37	5	14498739	14498739	+	Silent	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8322G>C	p.%3D	p.L2774L	ENST00000344204	53/57	128	115	12	116	115	0	TRIO,synonymous_variant,p.%3D,ENST00000537187,;TRIO,synonymous_variant,p.%3D,ENST00000344204,;TRIO,synonymous_variant,p.%3D,ENST00000513206,;TRIO,synonymous_variant,p.%3D,ENST00000344135,;TRIO,3_prime_UTR_variant,,ENST00000512070,;TRIO,non_coding_transcript_exon_variant,,ENST00000508717,;TRIO,non_coding_transcript_exon_variant,,ENST00000508343,;TRIO,non_coding_transcript_exon_variant,,ENST00000508283,;TRIO,downstream_gene_variant,,ENST00000503399,;	C	ENSG00000038382	ENST00000344204	Transcript	synonymous_variant	8346	8322	2774	L	ctG/ctC	COSM1063726	.	.	1	TRIO	HGNC	12303	protein_coding	YES	CCDS3883.1	ENSP00000339299	TRIO_HUMAN	.	UPI000034ECE6	.	.	.	53/57	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07679,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCCTGAGGGT	.	3	BLCA
LARS	0	.	GRCh37	5	145524039	145524039	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1651G>T	p.Glu551Ter	p.E551*	ENST00000394434	17/32	84	69	15	67	67	0	LARS,stop_gained,p.Glu505Ter,ENST00000545646,;LARS,stop_gained,p.Glu497Ter,ENST00000510191,;LARS,stop_gained,p.Glu551Ter,ENST00000394434,;LARS,stop_gained,p.Glu524Ter,ENST00000274562,;LARS,non_coding_transcript_exon_variant,,ENST00000507095,;LARS,upstream_gene_variant,,ENST00000512412,;LARS,non_coding_transcript_exon_variant,,ENST00000504323,;LARS,non_coding_transcript_exon_variant,,ENST00000508667,;LARS,upstream_gene_variant,,ENST00000514104,;	A	ENSG00000133706	ENST00000394434	Transcript	stop_gained	1818	1651	551	E/*	Gaa/Taa	.	.	.	-1	LARS	HGNC	6512	protein_coding	YES	CCDS34265.1	ENSP00000377954	SYLC_HUMAN	Q9NVC0_HUMAN,Q9NPU8_HUMAN,Q9HAM7_HUMAN,Q2TU79_HUMAN,B4DJ10_HUMAN,B3KXA9_HUMAN	UPI0000037316	.	.	.	17/32	.	hmmpanther:PTHR11946:SF51,hmmpanther:PTHR11946,Pfam_domain:PF00133,Gene3D:3.40.50.620,TIGRFAM_domain:TIGR00395,Superfamily_domains:SSF52374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTCCAGGT	.	5	BLCA
MFAP3	0	.	GRCh37	5	153432740	153432740	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Glu186Lys	p.E186K	ENST00000436816	3/3	82	73	8	67	67	0	MFAP3,missense_variant,p.Glu186Lys,ENST00000436816,;MFAP3,missense_variant,p.Glu40Lys,ENST00000439768,;MFAP3,missense_variant,p.Glu186Lys,ENST00000322602,;MFAP3,downstream_gene_variant,,ENST00000520899,;MFAP3,downstream_gene_variant,,ENST00000522782,;MFAP3,downstream_gene_variant,,ENST00000522177,;MFAP3,intron_variant,,ENST00000520327,;MFAP3,intron_variant,,ENST00000521527,;MFAP3,downstream_gene_variant,,ENST00000519928,;	A	ENSG00000037749	ENST00000436816	Transcript	missense_variant	775	556	186	E/K	Gag/Aag	.	.	.	1	MFAP3	HGNC	7034	protein_coding	YES	CCDS4324.1	ENSP00000409933	MFAP3_HUMAN	E5RJ59_HUMAN,E5RHQ6_HUMAN	UPI00000012A1	.	deleterious(0)	benign(0.341)	3/3	.	hmmpanther:PTHR14340:SF3,hmmpanther:PTHR14340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAATGAGTTC	.	4	BLCA
HAVCR1	0	.	GRCh37	5	156476141	156476141	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.689C>T	p.Ser230Phe	p.S230F	ENST00000339252	4/8	104	91	13	93	93	0	HAVCR1,missense_variant,p.Ser230Phe,ENST00000425854,;HAVCR1,missense_variant,p.Ser230Phe,ENST00000339252,;HAVCR1,missense_variant,p.Ser230Phe,ENST00000523175,;HAVCR1,missense_variant,p.Ser230Phe,ENST00000544197,;HAVCR1,missense_variant,p.Ser230Phe,ENST00000522693,;HAVCR1,downstream_gene_variant,,ENST00000518745,;HAVCR1,non_coding_transcript_exon_variant,,ENST00000517644,;	A	ENSG00000113249	ENST00000339252	Transcript	missense_variant	1222	689	230	S/F	tCt/tTt	.	.	.	-1	HAVCR1	HGNC	17866	protein_coding	YES	CCDS43392.1	ENSP00000344844	HAVR1_HUMAN	E5RIF6_HUMAN	UPI000006EEEC	.	tolerated(0.13)	probably_damaging(0.919)	4/8	.	hmmpanther:PTHR15498:SF8,hmmpanther:PTHR15498	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAAGATGGT	.	4	BLCA
GABRP	0	.	GRCh37	5	170221248	170221248	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>C	p.Gln62His	p.Q62H	ENST00000518525	5/11	243	213	29	200	200	0	GABRP,missense_variant,p.Gln62His,ENST00000519385,;GABRP,missense_variant,p.Gln62His,ENST00000265294,;GABRP,missense_variant,p.Gln62His,ENST00000522868,;GABRP,missense_variant,p.Gln62His,ENST00000519598,;GABRP,missense_variant,p.Gln62His,ENST00000521009,;GABRP,missense_variant,p.Gln62His,ENST00000521481,;GABRP,missense_variant,p.Gln62His,ENST00000518525,;GABRP,downstream_gene_variant,,ENST00000519196,;GABRP,non_coding_transcript_exon_variant,,ENST00000519137,;	C	ENSG00000094755	ENST00000518525	Transcript	missense_variant	650	186	62	Q/H	caG/caC	.	.	.	1	GABRP	HGNC	4089	protein_coding	YES	CCDS4375.1	ENSP00000430100	GBRP_HUMAN	E5RK74_HUMAN,E5RHU0_HUMAN,E5RHF6_HUMAN,E5RGF7_HUMAN,E5RG98_HUMAN	UPI000003C534	.	tolerated(0.15)	benign(0.353)	5/11	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF470,Gene3D:2.70.170.10,TIGRFAM_domain:TIGR00860,Pfam_domain:PF02931,Superfamily_domains:0038932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTACAGATAGC	.	4	BLCA
DUSP1	0	.	GRCh37	5	172196648	172196648	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.663G>C	p.Lys221Asn	p.K221N	ENST00000239223	3/4	192	163	29	120	120	0	DUSP1,missense_variant,p.Lys221Asn,ENST00000239223,;RP11-779O18.3,intron_variant,,ENST00000523005,;	G	ENSG00000120129	ENST00000239223	Transcript	missense_variant	906	663	221	K/N	aaG/aaC	.	.	.	-1	DUSP1	HGNC	3064	protein_coding	YES	CCDS4380.1	ENSP00000239223	DUS1_HUMAN	B4E2X6_HUMAN	UPI000004EED8	.	deleterious(0.01)	probably_damaging(0.98)	3/4	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159:SF309,hmmpanther:PTHR10159,Gene3D:3.90.190.10,Pfam_domain:PF00782,PIRSF_domain:PIRSF000939,SMART_domains:SM00195,SMART_domains:SM00404,Superfamily_domains:SSF52799,Prints_domain:PR01764,Prints_domain:PR01908	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCTCTTGTA	.	4	BLCA
STC2	0	.	GRCh37	5	172755067	172755067	+	Missense_Mutation	SNP	G	G	A	rs769870162	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130C>T	p.Arg44Cys	p.R44C	ENST00000265087	1/4	105	89	16	83	83	0	STC2,missense_variant,p.Arg44Cys,ENST00000265087,;STC2,upstream_gene_variant,,ENST00000518455,;STC2,upstream_gene_variant,,ENST00000520648,;STC2,upstream_gene_variant,,ENST00000520593,;STC2,non_coding_transcript_exon_variant,,ENST00000519511,;	A	ENSG00000113739	ENST00000265087	Transcript	missense_variant	1440	130	44	R/C	Cgc/Tgc	rs769870162	.	.	-1	STC2	HGNC	11374	protein_coding	YES	CCDS4388.1	ENSP00000265087	STC2_HUMAN	Q6FHC9_HUMAN,E5RG57_HUMAN,B3KNF2_HUMAN	UPI00001360B8	.	deleterious(0)	probably_damaging(1)	1/4	.	Pfam_domain:PF03298,hmmpanther:PTHR11245,hmmpanther:PTHR11245:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGCGGCCTT	byFrequency	4	BLCA
ZNF454	0	.	GRCh37	5	178392389	178392389	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984T>C	p.%3D	p.Y328Y	ENST00000320129	5/5	67	57	10	52	52	0	ZNF454,synonymous_variant,p.%3D,ENST00000519564,;ZNF454,synonymous_variant,p.%3D,ENST00000320129,;RP11-281O15.4,upstream_gene_variant,,ENST00000519491,;	C	ENSG00000178187	ENST00000320129	Transcript	synonymous_variant	1287	984	328	Y	taT/taC	.	.	.	1	ZNF454	HGNC	21200	protein_coding	YES	CCDS4441.1	ENSP00000326249	ZN454_HUMAN	.	UPI00001407C7	.	.	.	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF221,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTATAAATG	.	4	BLCA
RUFY1	0	.	GRCh37	5	179032922	179032922	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1902G>A	p.%3D	p.L634L	ENST00000319449	16/18	84	74	9	66	66	0	RUFY1,synonymous_variant,p.%3D,ENST00000319449,;RUFY1,synonymous_variant,p.%3D,ENST00000502434,;RUFY1,synonymous_variant,p.%3D,ENST00000437570,;RUFY1,synonymous_variant,p.%3D,ENST00000393438,;RUFY1,3_prime_UTR_variant,,ENST00000377001,;RP11-1379J22.2,upstream_gene_variant,,ENST00000500262,;RUFY1,upstream_gene_variant,,ENST00000508797,;RUFY1,non_coding_transcript_exon_variant,,ENST00000502531,;RUFY1,downstream_gene_variant,,ENST00000393448,;RUFY1,upstream_gene_variant,,ENST00000503583,;	A	ENSG00000176783	ENST00000319449	Transcript	synonymous_variant	1914	1902	634	L	ctG/ctA	.	.	.	1	RUFY1	HGNC	19760	protein_coding	YES	CCDS4445.2	ENSP00000325594	RUFY1_HUMAN	.	UPI0000D74C3F	.	.	.	16/18	.	hmmpanther:PTHR22835:SF84,hmmpanther:PTHR22835,SMART_domains:SM00064,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACTGAAGGT	.	4	BLCA
TBC1D9B	0	.	GRCh37	5	179300157	179300157	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2278G>C	p.Glu760Gln	p.E760Q	ENST00000356834	13/22	47	39	8	48	48	0	TBC1D9B,missense_variant,p.Glu760Gln,ENST00000355235,;TBC1D9B,missense_variant,p.Glu760Gln,ENST00000356834,;TBC1D9B,intron_variant,,ENST00000524222,;TBC1D9B,intron_variant,,ENST00000522472,;TBC1D9B,upstream_gene_variant,,ENST00000444477,;TBC1D9B,upstream_gene_variant,,ENST00000519746,;TBC1D9B,upstream_gene_variant,,ENST00000522180,;TBC1D9B,upstream_gene_variant,,ENST00000522921,;TBC1D9B,upstream_gene_variant,,ENST00000521469,;TBC1D9B,downstream_gene_variant,,ENST00000518459,;TBC1D9B,upstream_gene_variant,,ENST00000521669,;TBC1D9B,upstream_gene_variant,,ENST00000520912,;TBC1D9B,upstream_gene_variant,,ENST00000519757,;	G	ENSG00000197226	ENST00000356834	Transcript	missense_variant	2316	2278	760	E/Q	Gag/Cag	.	.	.	-1	TBC1D9B	HGNC	29097	protein_coding	YES	CCDS43408.1	ENSP00000349291	TBC9B_HUMAN	.	UPI000034ECFF	.	tolerated(0.2)	benign(0.031)	13/22	.	hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTGCAG	.	5	BLCA
TBC1D9B	0	.	GRCh37	5	179306733	179306733	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1311C>T	p.%3D	p.L437L	ENST00000356834	8/22	79	66	13	52	52	0	TBC1D9B,synonymous_variant,p.%3D,ENST00000355235,;TBC1D9B,synonymous_variant,p.%3D,ENST00000356834,;TBC1D9B,intron_variant,,ENST00000524222,;TBC1D9B,upstream_gene_variant,,ENST00000522472,;TBC1D9B,downstream_gene_variant,,ENST00000522029,;TBC1D9B,non_coding_transcript_exon_variant,,ENST00000518115,;TBC1D9B,upstream_gene_variant,,ENST00000518459,;	A	ENSG00000197226	ENST00000356834	Transcript	synonymous_variant	1349	1311	437	L	ctC/ctT	.	.	.	-1	TBC1D9B	HGNC	29097	protein_coding	YES	CCDS43408.1	ENSP00000349291	TBC9B_HUMAN	.	UPI000034ECFF	.	.	.	8/22	.	hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTGAGGGG	.	2	BLCA
FLT4	0	.	GRCh37	5	180043904	180043904	+	Missense_Mutation	SNP	C	C	T	rs56082504	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3092G>A	p.Arg1031Gln	p.R1031Q	ENST00000261937	22/30	106	87	18	74	74	0	FLT4,missense_variant,p.Arg1031Gln,ENST00000261937,;FLT4,missense_variant,p.Arg1031Gln,ENST00000502649,;FLT4,missense_variant,p.Arg1031Gln,ENST00000393347,;FLT4,missense_variant,p.Arg69Gln,ENST00000512795,;FLT4,downstream_gene_variant,,ENST00000424276,;FLT4,non_coding_transcript_exon_variant,,ENST00000507059,;FLT4,non_coding_transcript_exon_variant,,ENST00000514810,;FLT4,upstream_gene_variant,,ENST00000510000,;	T	ENSG00000037280	ENST00000261937	Transcript	missense_variant	3171	3092	1031	R/Q	cGa/cAa	rs56082504	.	.	-1	FLT4	HGNC	3767	protein_coding	YES	CCDS4457.1	ENSP00000261937	VGFR3_HUMAN	D6RFF2_HUMAN	UPI00001488E7	.	deleterious(0)	probably_damaging(0.979)	22/30	.	Superfamily_domains:SSF56112,SMART_domains:SM00219,Gene3D:1.10.510.10,Pfam_domain:PF07714,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF49,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCGGGAA	byFrequency|byCluster	5	BLCA
CDH12	0	.	GRCh37	5	21755734	21755734	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1851G>C	p.Leu617Phe	p.L617F	ENST00000382254	14/15	84	70	14	83	83	0	CDH12,missense_variant,p.Leu577Phe,ENST00000522262,;CDH12,missense_variant,p.Leu617Phe,ENST00000504376,;CDH12,missense_variant,p.Leu617Phe,ENST00000382254,;RP11-804N13.1,intron_variant,,ENST00000522350,;CDH12,non_coding_transcript_exon_variant,,ENST00000521384,;CDH12,non_coding_transcript_exon_variant,,ENST00000517378,;	G	ENSG00000154162	ENST00000382254	Transcript	missense_variant	2938	1851	617	L/F	ttG/ttC	.	.	.	-1	CDH12	HGNC	1751	protein_coding	YES	CCDS3890.1	ENSP00000371689	CAD12_HUMAN	B3KRT0_HUMAN	UPI00000622EB	.	deleterious(0.02)	probably_damaging(0.991)	14/15	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF293	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAATCAACGC	.	5	BLCA
NPR3	0	.	GRCh37	5	32789507	32789507	+	3'UTR	SNP	C	C	T	rs757312234	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*3056C>T	.	.	ENST00000265074	8/8	146	123	23	120	120	0	NPR3,3_prime_UTR_variant,,ENST00000265074,;AC026703.1,5_prime_UTR_variant,,ENST00000326958,;NPR3,downstream_gene_variant,,ENST00000434067,;NPR3,downstream_gene_variant,,ENST00000415167,;NPR3,downstream_gene_variant,,ENST00000415685,;	T	ENSG00000113389	ENST00000265074	Transcript	3_prime_UTR_variant	5025	.	.	.	.	rs757312234	.	.	1	NPR3	HGNC	7945	protein_coding	YES	CCDS56357.1	ENSP00000265074	ANPRC_HUMAN	.	UPI0000125B46	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTTTCATGAG	byFrequency	4	BLCA
UGT3A2	0	.	GRCh37	5	36049520	36049520	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314G>C	p.Gly105Ala	p.G105A	ENST00000282507	4/7	75	67	7	69	69	0	UGT3A2,missense_variant,p.Gly71Ala,ENST00000513300,;UGT3A2,missense_variant,p.Gly105Ala,ENST00000515131,;UGT3A2,missense_variant,p.Gly105Ala,ENST00000282507,;UGT3A2,intron_variant,,ENST00000545528,;UGT3A2,intron_variant,,ENST00000504954,;UGT3A2,intron_variant,,ENST00000504685,;	G	ENSG00000168671	ENST00000282507	Transcript	missense_variant	416	314	105	G/A	gGa/gCa	COSM3615890	.	.	-1	UGT3A2	HGNC	27266	protein_coding	YES	CCDS3914.1	ENSP00000282507	UD3A2_HUMAN	F5H377_HUMAN,D6RDU1_HUMAN	UPI000013DCE8	.	tolerated(0.72)	benign(0.003)	4/7	.	hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF121,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.G105E|c.314G>A|3	RADIA|MUTECT|MUSE|VARSCANS	ATTTTCCTCTG	.	4	BLCA
C6	0	.	GRCh37	5	41160370	41160370	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1558C>T	p.Pro520Ser	p.P520S	ENST00000263413	11/18	107	87	19	78	78	0	C6,missense_variant,p.Pro520Ser,ENST00000263413,;C6,missense_variant,p.Pro520Ser,ENST00000337836,;C6,non_coding_transcript_exon_variant,,ENST00000475349,;C6,downstream_gene_variant,,ENST00000473450,;C6,non_coding_transcript_exon_variant,,ENST00000511470,;	A	ENSG00000039537	ENST00000263413	Transcript	missense_variant	1823	1558	520	P/S	Cct/Tct	.	.	.	-1	C6	HGNC	1339	protein_coding	YES	CCDS3936.1	ENSP00000263413	CO6_HUMAN	C9JX36_HUMAN,C9JC72_HUMAN	UPI000013D401	.	tolerated(0.26)	probably_damaging(0.992)	11/18	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF23,PROSITE_profiles:PS51412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAGGATCGA	.	5	BLCA
C6	0	.	GRCh37	5	41186270	41186270	+	Missense_Mutation	SNP	C	C	G	rs779633819	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628G>C	p.Asp210His	p.D210H	ENST00000263413	6/18	74	70	4	66	66	0	C6,missense_variant,p.Asp210His,ENST00000263413,;C6,missense_variant,p.Asp210His,ENST00000337836,;C6,intron_variant,,ENST00000475349,;	G	ENSG00000039537	ENST00000263413	Transcript	missense_variant	893	628	210	D/H	Gat/Cat	rs779633819	.	.	-1	C6	HGNC	1339	protein_coding	YES	CCDS3936.1	ENSP00000263413	CO6_HUMAN	C9JX36_HUMAN,C9JC72_HUMAN	UPI000013D401	.	deleterious(0.01)	possibly_damaging(0.907)	6/18	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF23,PROSITE_profiles:PS51412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GTTATCAAGGA	.	2	BLCA
PLCXD3	0	.	GRCh37	5	41382280	41382280	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460C>T	p.His154Tyr	p.H154Y	ENST00000377801	2/3	225	188	37	161	161	0	PLCXD3,missense_variant,p.His154Tyr,ENST00000328457,;PLCXD3,missense_variant,p.His154Tyr,ENST00000377801,;	A	ENSG00000182836	ENST00000377801	Transcript	missense_variant	535	460	154	H/Y	Cac/Tac	COSM2690473	.	.	-1	PLCXD3	HGNC	31822	protein_coding	YES	CCDS34150.1	ENSP00000367032	PLCX3_HUMAN	B3KXD1_HUMAN	UPI0000049DBB	.	deleterious(0)	probably_damaging(0.997)	2/3	.	PROSITE_profiles:PS50007,hmmpanther:PTHR13593,hmmpanther:PTHR13593:SF33,Gene3D:3.20.20.190,Pfam_domain:PF00388,SMART_domains:SM00148,Superfamily_domains:SSF51695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGGTGATATT	.	4	BLCA
C5orf55	0	.	GRCh37	5	442943	442943	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6C>T	.	.	ENST00000408966	1/1	59	48	11	50	50	0	C5orf55,5_prime_UTR_variant,,ENST00000408966,;EXOC3,upstream_gene_variant,,ENST00000508022,;EXOC3,upstream_gene_variant,,ENST00000315013,;EXOC3,upstream_gene_variant,,ENST00000512944,;AHRR,downstream_gene_variant,,ENST00000316418,;EXOC3,upstream_gene_variant,,ENST00000510441,;EXOC3,upstream_gene_variant,,ENST00000515601,;	A	ENSG00000221990	ENST00000408966	Transcript	5_prime_UTR_variant	316	.	.	.	.	.	.	.	-1	C5orf55	HGNC	25175	protein_coding	YES	CCDS43298.1	ENSP00000386139	CE055_HUMAN	.	UPI00000718E4	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGCAGAGGAT	.	3	BLCA
C5orf55	0	.	GRCh37	5	442952	442952	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-15C>T	.	.	ENST00000408966	1/1	55	44	11	46	46	0	C5orf55,5_prime_UTR_variant,,ENST00000408966,;EXOC3,upstream_gene_variant,,ENST00000508022,;EXOC3,upstream_gene_variant,,ENST00000315013,;EXOC3,upstream_gene_variant,,ENST00000512944,;AHRR,downstream_gene_variant,,ENST00000316418,;EXOC3,upstream_gene_variant,,ENST00000510441,;EXOC3,upstream_gene_variant,,ENST00000515601,;	A	ENSG00000221990	ENST00000408966	Transcript	5_prime_UTR_variant	307	.	.	.	.	.	.	.	-1	C5orf55	HGNC	25175	protein_coding	YES	CCDS43298.1	ENSP00000386139	CE055_HUMAN	.	UPI00000718E4	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGGAGACAGC	.	3	BLCA
ARL15	0	.	GRCh37	5	53409235	53409235	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259G>A	p.Asp87Asn	p.D87N	ENST00000504924	4/5	56	46	10	47	46	0	ARL15,missense_variant,p.Asp87Asn,ENST00000507646,;ARL15,missense_variant,p.Asp87Asn,ENST00000504924,;ARL15,5_prime_UTR_variant,,ENST00000502271,;ARL15,non_coding_transcript_exon_variant,,ENST00000510591,;ARL15,non_coding_transcript_exon_variant,,ENST00000505630,;	T	ENSG00000185305	ENST00000504924	Transcript	missense_variant	353	259	87	D/N	Gat/Aat	.	.	.	-1	ARL15	HGNC	25945	protein_coding	YES	CCDS54850.1	ENSP00000433427	ARL15_HUMAN	R4GN67_HUMAN	UPI000006D66A	.	deleterious(0.05)	benign(0.078)	4/5	.	PROSITE_profiles:PS51417,hmmpanther:PTHR11711,hmmpanther:PTHR11711:SF114,Gene3D:3.40.50.300,Pfam_domain:PF00025,SMART_domains:SM00177,SMART_domains:SM00178,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTTATCAGCCC	.	4	BLCA
SNX18	0	.	GRCh37	5	53839058	53839058	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1671G>C	p.Lys557Asn	p.K557N	ENST00000381410	2/2	80	71	9	70	70	0	SNX18,missense_variant,p.Lys557Asn,ENST00000381410,;SNX18,3_prime_UTR_variant,,ENST00000343017,;	C	ENSG00000178996	ENST00000381410	Transcript	missense_variant	1861	1671	557	K/N	aaG/aaC	.	.	.	1	SNX18	HGNC	19245	protein_coding	.	CCDS43317.1	ENSP00000370817	SNX18_HUMAN	.	UPI00001A8545	.	deleterious(0)	possibly_damaging(0.782)	2/2	.	hmmpanther:PTHR10555,hmmpanther:PTHR10555:SF13,Pfam_domain:PF10456,PIRSF_domain:PIRSF027744	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGAAGATGGA	.	4	BLCA
ELOVL7	0	.	GRCh37	5	60067790	60067790	+	Missense_Mutation	SNP	C	C	G	rs201156536	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195G>C	p.Lys65Asn	p.K65N	ENST00000508821	4/9	50	42	8	38	38	0	ELOVL7,missense_variant,p.Lys52Asn,ENST00000505959,;ELOVL7,missense_variant,p.Lys65Asn,ENST00000511799,;ELOVL7,missense_variant,p.Lys65Asn,ENST00000425382,;ELOVL7,missense_variant,p.Lys65Asn,ENST00000507047,;ELOVL7,missense_variant,p.Lys65Asn,ENST00000508821,;ELOVL7,missense_variant,p.Lys65Asn,ENST00000438340,;ELOVL7,missense_variant,p.Lys65Asn,ENST00000514809,;ELOVL7,missense_variant,p.Lys65Asn,ENST00000504455,;	G	ENSG00000164181	ENST00000508821	Transcript	missense_variant	510	195	65	K/N	aaG/aaC	rs201156536	.	.	-1	ELOVL7	HGNC	26292	protein_coding	YES	CCDS34164.1	ENSP00000424123	ELOV7_HUMAN	D6RBM2_HUMAN	UPI000004CAF4	.	tolerated(0.09)	possibly_damaging(0.805)	4/9	.	hmmpanther:PTHR11157:SF8,hmmpanther:PTHR11157,Pfam_domain:PF01151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTTGAG	.	5	BLCA
HTR1A	0	.	GRCh37	5	63256845	63256845	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702G>C	p.Glu234Asp	p.E234D	ENST00000323865	1/1	99	91	8	88	88	0	HTR1A,missense_variant,p.Glu234Asp,ENST00000323865,;HTR1A,downstream_gene_variant,,ENST00000506598,;RP11-158J3.2,intron_variant,,ENST00000502882,;	G	ENSG00000178394	ENST00000323865	Transcript	missense_variant	936	702	234	E/D	gaG/gaC	.	.	.	-1	HTR1A	HGNC	5286	protein_coding	YES	CCDS34168.1	ENSP00000316244	5HT1A_HUMAN	Q5ZGX3_HUMAN,D6RA34_HUMAN	UPI0000124F1A	.	tolerated(0.31)	benign(0.015)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24247,hmmpanther:PTHR24247:SF20,Pfam_domain:PF00001,Prints_domain:PR00512	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.G237R|c.709G>A|3	MUTECT|MUSE|VARSCANS	GTCTTCTCCAC	.	3	BLCA
MAST4	0	.	GRCh37	5	66456367	66456367	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3732G>A	p.%3D	p.K1244K	ENST00000403625	27/29	134	112	22	104	104	0	MAST4,synonymous_variant,p.%3D,ENST00000403666,;MAST4,synonymous_variant,p.%3D,ENST00000404260,;MAST4,synonymous_variant,p.%3D,ENST00000443808,;MAST4,synonymous_variant,p.%3D,ENST00000261569,;MAST4,synonymous_variant,p.%3D,ENST00000405643,;MAST4,synonymous_variant,p.%3D,ENST00000403625,;	A	ENSG00000069020	ENST00000403625	Transcript	synonymous_variant	4027	3732	1244	K	aaG/aaA	.	.	.	1	MAST4	HGNC	19037	protein_coding	YES	CCDS54861.1	ENSP00000385727	.	J3QT34_HUMAN	UPI000173A2B0	.	.	.	27/29	.	hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF139,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATAAGAGCCG	.	4	BLCA
CCDC125	0	.	GRCh37	5	68578528	68578528	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28G>C	.	.	ENST00000396496	12/12	74	60	14	38	38	0	CCDC125,3_prime_UTR_variant,,ENST00000396499,;CCDC125,3_prime_UTR_variant,,ENST00000511257,;CCDC125,3_prime_UTR_variant,,ENST00000383374,;CCDC125,3_prime_UTR_variant,,ENST00000396496,;CCDC125,non_coding_transcript_exon_variant,,ENST00000460090,;	G	ENSG00000183323	ENST00000396496	Transcript	3_prime_UTR_variant	1672	.	.	.	.	.	.	.	-1	CCDC125	HGNC	28924	protein_coding	YES	CCDS4000.1	ENSP00000379754	CC125_HUMAN	.	UPI00004572F8	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCTCAGT	.	5	BLCA
GFM2	0	.	GRCh37	5	74026190	74026190	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1621G>C	p.Glu541Gln	p.E541Q	ENST00000296805	17/21	79	67	12	57	57	0	GFM2,missense_variant,p.Glu494Gln,ENST00000345239,;GFM2,missense_variant,p.Glu541Gln,ENST00000509430,;GFM2,missense_variant,p.Glu541Gln,ENST00000296805,;GFM2,non_coding_transcript_exon_variant,,ENST00000514734,;GFM2,intron_variant,,ENST00000515125,;GFM2,non_coding_transcript_exon_variant,,ENST00000506263,;	G	ENSG00000164347	ENST00000296805	Transcript	missense_variant	2079	1621	541	E/Q	Gag/Cag	.	.	.	-1	GFM2	HGNC	29682	protein_coding	YES	CCDS4023.1	ENSP00000296805	RRF2M_HUMAN	D6RF75_HUMAN	UPI0000129CA7	.	deleterious(0.02)	benign(0.056)	17/21	.	hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF13,Gene3D:3.30.70.870,Pfam_domain:PF14492,Superfamily_domains:SSF54980	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCTATAT	.	5	BLCA
F2RL2	0	.	GRCh37	5	75914343	75914343	+	Silent	SNP	C	C	T	rs749677052	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>A	p.%3D	p.T63T	ENST00000296641	2/2	155	127	27	156	156	0	F2RL2,synonymous_variant,p.%3D,ENST00000504899,;F2RL2,synonymous_variant,p.%3D,ENST00000296641,;IQGAP2,intron_variant,,ENST00000505766,;IQGAP2,intron_variant,,ENST00000274364,;IQGAP2,intron_variant,,ENST00000509074,;IQGAP2,intron_variant,,ENST00000514350,;IQGAP2,intron_variant,,ENST00000514001,;IQGAP2,intron_variant,,ENST00000502745,;IQGAP2,intron_variant,,ENST00000396234,;IQGAP2,intron_variant,,ENST00000379730,;IQGAP2,intron_variant,,ENST00000515505,;IQGAP2,3_prime_UTR_variant,,ENST00000504254,;IQGAP2,intron_variant,,ENST00000513534,;	T	ENSG00000164220	ENST00000296641	Transcript	synonymous_variant	393	189	63	T	acG/acA	rs749677052,COSM1724522	.	.	-1	F2RL2	HGNC	3539	protein_coding	YES	CCDS4031.1	ENSP00000296641	PAR3_HUMAN	.	UPI0000050431	.	.	.	2/2	.	Prints_domain:PR01429,hmmpanther:PTHR24232:SF0,hmmpanther:PTHR24232	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAATCGTGGC	byFrequency	5	BLCA
FASTKD3	0	.	GRCh37	5	7866908	7866908	+	Missense_Mutation	SNP	C	C	G	rs780480840	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1289G>C	p.Arg430Thr	p.R430T	ENST00000264669	2/7	83	70	13	79	79	0	FASTKD3,missense_variant,p.Arg430Thr,ENST00000264669,;MTRR,upstream_gene_variant,,ENST00000514220,;MTRR,upstream_gene_variant,,ENST00000440940,;MTRR,upstream_gene_variant,,ENST00000341013,;FASTKD3,downstream_gene_variant,,ENST00000504695,;MTRR,upstream_gene_variant,,ENST00000502550,;FASTKD3,downstream_gene_variant,,ENST00000507572,;MTRR,upstream_gene_variant,,ENST00000506877,;MTRR,upstream_gene_variant,,ENST00000512217,;MTRR,upstream_gene_variant,,ENST00000264668,;FASTKD3,intron_variant,,ENST00000513658,;FASTKD3,intron_variant,,ENST00000282110,;MTRR,intron_variant,,ENST00000502509,;MTRR,downstream_gene_variant,,ENST00000507837,;FASTKD3,missense_variant,p.Arg430Thr,ENST00000507036,;FASTKD3,3_prime_UTR_variant,,ENST00000511261,;MTRR,upstream_gene_variant,,ENST00000514369,;MTRR,upstream_gene_variant,,ENST00000510525,;MTRR,upstream_gene_variant,,ENST00000503550,;MTRR,upstream_gene_variant,,ENST00000508047,;MTRR,upstream_gene_variant,,ENST00000510279,;MTRR,upstream_gene_variant,,ENST00000513439,;FASTKD3,upstream_gene_variant,,ENST00000513577,;MTRR,upstream_gene_variant,,ENST00000511461,;	G	ENSG00000124279	ENST00000264669	Transcript	missense_variant	1426	1289	430	R/T	aGa/aCa	rs780480840	.	.	-1	FASTKD3	HGNC	28758	protein_coding	YES	CCDS3873.1	ENSP00000264669	FAKD3_HUMAN	D6RHY4_HUMAN,D6RC07_HUMAN	UPI000020BF43	.	deleterious(0.03)	possibly_damaging(0.513)	2/7	.	hmmpanther:PTHR21228,hmmpanther:PTHR21228:SF9,Pfam_domain:PF06743	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTAAAT	.	5	BLCA
FASTKD3	0	.	GRCh37	5	7867071	7867071	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1126G>C	p.Glu376Gln	p.E376Q	ENST00000264669	2/7	88	69	19	70	70	0	FASTKD3,missense_variant,p.Glu376Gln,ENST00000264669,;MTRR,upstream_gene_variant,,ENST00000514220,;MTRR,upstream_gene_variant,,ENST00000440940,;MTRR,upstream_gene_variant,,ENST00000341013,;FASTKD3,downstream_gene_variant,,ENST00000504695,;MTRR,upstream_gene_variant,,ENST00000502550,;FASTKD3,downstream_gene_variant,,ENST00000507572,;MTRR,upstream_gene_variant,,ENST00000506877,;MTRR,upstream_gene_variant,,ENST00000512217,;MTRR,upstream_gene_variant,,ENST00000264668,;FASTKD3,intron_variant,,ENST00000513658,;FASTKD3,intron_variant,,ENST00000282110,;MTRR,intron_variant,,ENST00000502509,;MTRR,downstream_gene_variant,,ENST00000507837,;FASTKD3,missense_variant,p.Glu376Gln,ENST00000507036,;FASTKD3,3_prime_UTR_variant,,ENST00000511261,;MTRR,upstream_gene_variant,,ENST00000514369,;MTRR,upstream_gene_variant,,ENST00000510525,;MTRR,upstream_gene_variant,,ENST00000503550,;MTRR,upstream_gene_variant,,ENST00000508047,;MTRR,upstream_gene_variant,,ENST00000510279,;MTRR,upstream_gene_variant,,ENST00000513439,;FASTKD3,upstream_gene_variant,,ENST00000513577,;MTRR,upstream_gene_variant,,ENST00000511461,;	G	ENSG00000124279	ENST00000264669	Transcript	missense_variant	1263	1126	376	E/Q	Gag/Cag	.	.	.	-1	FASTKD3	HGNC	28758	protein_coding	YES	CCDS3873.1	ENSP00000264669	FAKD3_HUMAN	D6RHY4_HUMAN,D6RC07_HUMAN	UPI000020BF43	.	tolerated(1)	benign(0.036)	2/7	.	hmmpanther:PTHR21228,hmmpanther:PTHR21228:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTACTCCATGA	.	5	BLCA
FASTKD3	0	.	GRCh37	5	7867190	7867190	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1007G>C	p.Arg336Thr	p.R336T	ENST00000264669	2/7	95	78	17	80	80	0	FASTKD3,missense_variant,p.Arg336Thr,ENST00000264669,;MTRR,upstream_gene_variant,,ENST00000514220,;MTRR,upstream_gene_variant,,ENST00000440940,;MTRR,upstream_gene_variant,,ENST00000341013,;FASTKD3,downstream_gene_variant,,ENST00000504695,;MTRR,upstream_gene_variant,,ENST00000502550,;FASTKD3,downstream_gene_variant,,ENST00000507572,;MTRR,upstream_gene_variant,,ENST00000506877,;MTRR,upstream_gene_variant,,ENST00000512217,;MTRR,upstream_gene_variant,,ENST00000264668,;FASTKD3,intron_variant,,ENST00000513658,;FASTKD3,intron_variant,,ENST00000282110,;MTRR,intron_variant,,ENST00000502509,;FASTKD3,missense_variant,p.Arg336Thr,ENST00000507036,;FASTKD3,3_prime_UTR_variant,,ENST00000511261,;MTRR,upstream_gene_variant,,ENST00000514369,;MTRR,upstream_gene_variant,,ENST00000510525,;MTRR,upstream_gene_variant,,ENST00000503550,;MTRR,upstream_gene_variant,,ENST00000508047,;MTRR,upstream_gene_variant,,ENST00000510279,;MTRR,upstream_gene_variant,,ENST00000513439,;FASTKD3,upstream_gene_variant,,ENST00000513577,;MTRR,upstream_gene_variant,,ENST00000511461,;	G	ENSG00000124279	ENST00000264669	Transcript	missense_variant	1144	1007	336	R/T	aGa/aCa	.	.	.	-1	FASTKD3	HGNC	28758	protein_coding	YES	CCDS3873.1	ENSP00000264669	FAKD3_HUMAN	D6RHY4_HUMAN,D6RC07_HUMAN	UPI000020BF43	.	tolerated(0.33)	benign(0.007)	2/7	.	hmmpanther:PTHR21228,hmmpanther:PTHR21228:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTCTCCTA	.	5	BLCA
FASTKD3	0	.	GRCh37	5	7867383	7867383	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.814G>A	p.Glu272Lys	p.E272K	ENST00000264669	2/7	119	99	19	112	111	0	FASTKD3,missense_variant,p.Glu272Lys,ENST00000264669,;MTRR,upstream_gene_variant,,ENST00000514220,;MTRR,upstream_gene_variant,,ENST00000440940,;MTRR,upstream_gene_variant,,ENST00000341013,;FASTKD3,downstream_gene_variant,,ENST00000504695,;MTRR,upstream_gene_variant,,ENST00000502550,;FASTKD3,downstream_gene_variant,,ENST00000507572,;MTRR,upstream_gene_variant,,ENST00000506877,;MTRR,upstream_gene_variant,,ENST00000512217,;MTRR,upstream_gene_variant,,ENST00000264668,;FASTKD3,intron_variant,,ENST00000513658,;FASTKD3,intron_variant,,ENST00000282110,;MTRR,intron_variant,,ENST00000502509,;FASTKD3,missense_variant,p.Glu272Lys,ENST00000507036,;FASTKD3,3_prime_UTR_variant,,ENST00000511261,;MTRR,upstream_gene_variant,,ENST00000514369,;MTRR,upstream_gene_variant,,ENST00000510525,;MTRR,upstream_gene_variant,,ENST00000503550,;MTRR,upstream_gene_variant,,ENST00000508047,;MTRR,upstream_gene_variant,,ENST00000510279,;MTRR,upstream_gene_variant,,ENST00000513439,;FASTKD3,upstream_gene_variant,,ENST00000513577,;MTRR,upstream_gene_variant,,ENST00000511461,;	T	ENSG00000124279	ENST00000264669	Transcript	missense_variant	951	814	272	E/K	Gaa/Aaa	.	.	.	-1	FASTKD3	HGNC	28758	protein_coding	YES	CCDS3873.1	ENSP00000264669	FAKD3_HUMAN	D6RHY4_HUMAN,D6RC07_HUMAN	UPI000020BF43	.	tolerated(0.4)	benign(0.002)	2/7	.	hmmpanther:PTHR21228,hmmpanther:PTHR21228:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTTCATCCA	.	5	BLCA
EDIL3	0	.	GRCh37	5	83402642	83402642	+	Nonsense_Mutation	SNP	G	G	C	rs750981151	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.476C>G	p.Ser159Ter	p.S159*	ENST00000296591	6/11	141	111	30	92	92	0	EDIL3,stop_gained,p.Ser159Ter,ENST00000296591,;EDIL3,stop_gained,p.Ser149Ter,ENST00000380138,;EDIL3,non_coding_transcript_exon_variant,,ENST00000507663,;	C	ENSG00000164176	ENST00000296591	Transcript	stop_gained	895	476	159	S/*	tCa/tGa	rs750981151	.	.	-1	EDIL3	HGNC	3173	protein_coding	YES	CCDS4062.1	ENSP00000296591	EDIL3_HUMAN	.	UPI000004D126	.	.	.	6/11	.	Superfamily_domains:SSF49785,SMART_domains:SM00231,Gene3D:2.60.120.260,hmmpanther:PTHR10127:SF29,hmmpanther:PTHR10127,PROSITE_profiles:PS50022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAGCAT	.	5	BLCA
LYSMD3	0	.	GRCh37	5	89814705	89814705	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.852C>T	p.%3D	p.F284F	ENST00000315948	3/3	132	114	18	126	126	0	LYSMD3,missense_variant,p.Ser126Leu,ENST00000500869,;LYSMD3,synonymous_variant,p.%3D,ENST00000315948,;LYSMD3,3_prime_UTR_variant,,ENST00000509384,;POLR3G,downstream_gene_variant,,ENST00000504930,;POLR3G,downstream_gene_variant,,ENST00000399107,;LYSMD3,downstream_gene_variant,,ENST00000453259,;	A	ENSG00000176018	ENST00000315948	Transcript	synonymous_variant	997	852	284	F	ttC/ttT	.	.	.	-1	LYSMD3	HGNC	26969	protein_coding	YES	CCDS43338.1	ENSP00000314518	LYSM3_HUMAN	A8K613_HUMAN	UPI000015FBC3	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTGAAATG	.	4	BLCA
GPR98	0	.	GRCh37	5	89985761	89985761	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6574G>A	p.Asp2192Asn	p.D2192N	ENST00000405460	30/90	29	26	3	24	24	0	GPR98,missense_variant,p.Asp2192Asn,ENST00000405460,;GPR98,upstream_gene_variant,,ENST00000509621,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	6670	6574	2192	D/N	Gat/Aat	COSM1544376	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	probably_damaging(0.945)	30/90	.	Superfamily_domains:SSF141072,SMART_domains:SM00237,Pfam_domain:PF03160,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TTAATGATATC	.	2	BLCA
SPATA9	0	.	GRCh37	5	94994576	94994576	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516C>G	p.Ile172Met	p.I172M	ENST00000274432	5/5	140	118	22	106	106	0	SPATA9,missense_variant,p.Ile172Met,ENST00000274432,;RFESD,downstream_gene_variant,,ENST00000513950,;RFESD,downstream_gene_variant,,ENST00000458310,;RFESD,downstream_gene_variant,,ENST00000311364,;RFESD,downstream_gene_variant,,ENST00000380005,;RFESD,downstream_gene_variant,,ENST00000511684,;SPATA9,non_coding_transcript_exon_variant,,ENST00000477047,;SPATA9,non_coding_transcript_exon_variant,,ENST00000379990,;RFESD,intron_variant,,ENST00000508206,;SPATA9,missense_variant,p.Ile172Met,ENST00000316087,;SPATA9,missense_variant,p.Ile96Met,ENST00000477715,;SPATA9,3_prime_UTR_variant,,ENST00000489917,;	C	ENSG00000145757	ENST00000274432	Transcript	missense_variant	658	516	172	I/M	atC/atG	.	.	.	-1	SPATA9	HGNC	22988	protein_coding	YES	CCDS4076.1	ENSP00000274432	SPAT9_HUMAN	.	UPI000000DBD8	.	deleterious(0)	possibly_damaging(0.837)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGATGTT	.	5	BLCA
AIM1	0	.	GRCh37	6	106967395	106967395	+	Missense_Mutation	SNP	C	C	G	rs779392084	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088C>G	p.Ser363Cys	p.S363C	ENST00000369066	2/20	104	86	18	74	74	0	AIM1,missense_variant,p.Ser363Cys,ENST00000369066,;	G	ENSG00000112297	ENST00000369066	Transcript	missense_variant	1575	1088	363	S/C	tCt/tGt	rs779392084	.	.	1	AIM1	HGNC	356	protein_coding	YES	CCDS34506.1	ENSP00000358062	AIM1_HUMAN	B3KPT0_HUMAN	UPI000013C91D	.	deleterious_low_confidence(0.01)	benign(0.294)	2/20	.	hmmpanther:PTHR11818:SF2,hmmpanther:PTHR11818	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTCTTCTG	.	5	BLCA
RFX6	0	.	GRCh37	6	117232129	117232129	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.704C>G	p.Ser235Ter	p.S235*	ENST00000332958	7/19	156	132	23	117	117	0	RFX6,stop_gained,p.Ser235Ter,ENST00000332958,;RFX6,non_coding_transcript_exon_variant,,ENST00000471966,;RFX6,non_coding_transcript_exon_variant,,ENST00000487683,;	G	ENSG00000185002	ENST00000332958	Transcript	stop_gained	720	704	235	S/*	tCa/tGa	COSM450391	.	.	1	RFX6	HGNC	21478	protein_coding	YES	CCDS5113.1	ENSP00000332208	RFX6_HUMAN	.	UPI00001609BE	.	.	.	7/19	.	hmmpanther:PTHR12619:SF16,hmmpanther:PTHR12619	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGCTCAAAAA	.	4	BLCA
SLC18B1	0	.	GRCh37	6	133100544	133100544	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.659-1G>C	.	p.X220_splice	ENST00000275227	.	73	63	10	75	75	0	SLC18B1,splice_acceptor_variant,,ENST00000275227,;SLC18B1,splice_acceptor_variant,,ENST00000538764,;SLC18B1,intron_variant,,ENST00000367918,;	G	ENSG00000146409	ENST00000275227	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	SLC18B1	HGNC	21573	protein_coding	YES	CCDS5163.1	ENSP00000275227	S18B1_HUMAN	.	UPI000013DA50	.	.	.	.	6/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACTCTTTAG	.	4	BLCA
BCLAF1	0	.	GRCh37	6	136599060	136599060	+	Missense_Mutation	SNP	G	G	C	rs146790565	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.959C>G	p.Ser320Trp	p.S320W	ENST00000531224	4/13	237	224	12	217	217	0	BCLAF1,missense_variant,p.Ser320Trp,ENST00000529826,;BCLAF1,missense_variant,p.Ser320Trp,ENST00000527536,;BCLAF1,missense_variant,p.Ser318Trp,ENST00000392348,;BCLAF1,missense_variant,p.Ser320Trp,ENST00000530767,;BCLAF1,missense_variant,p.Ser320Trp,ENST00000531224,;BCLAF1,missense_variant,p.Ser318Trp,ENST00000353331,;BCLAF1,missense_variant,p.Ser318Trp,ENST00000527759,;BCLAF1,missense_variant,p.Ser61Trp,ENST00000533621,;BCLAF1,missense_variant,p.Ser320Trp,ENST00000527613,;BCLAF1,missense_variant,p.Ser318Trp,ENST00000534269,;BCLAF1,missense_variant,p.Ser318Trp,ENST00000530429,;BCLAF1,missense_variant,p.Ser320Trp,ENST00000532384,;BCLAF1,upstream_gene_variant,,ENST00000476194,;BCLAF1,upstream_gene_variant,,ENST00000532076,;BCLAF1,upstream_gene_variant,,ENST00000534792,;BCLAF1,downstream_gene_variant,,ENST00000528229,;	C	ENSG00000029363	ENST00000531224	Transcript	missense_variant	1212	959	320	S/W	tCg/tGg	rs146790565,COSM3620956	.	.	-1	BCLAF1	HGNC	16863	protein_coding	YES	CCDS5177.1	ENSP00000435210	BCLF1_HUMAN	B0AZU3_HUMAN	UPI000006FCE7	.	deleterious(0.04)	possibly_damaging(0.871)	4/13	.	Pfam_domain:PF15440,hmmpanther:PTHR15268,hmmpanther:PTHR15268:SF4	.	.	.	.	.	.	.	A:0	A:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAACGAGGAA	byCluster	2	BLCA
ECT2L	0	.	GRCh37	6	139134448	139134448	+	Missense_Mutation	SNP	C	C	G	rs771630511	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.37C>G	p.Pro13Ala	p.P13A	ENST00000423192	2/21	109	95	14	96	96	0	ECT2L,missense_variant,p.Pro13Ala,ENST00000367682,;ECT2L,missense_variant,p.Pro13Ala,ENST00000401414,;ECT2L,missense_variant,p.Pro13Ala,ENST00000423192,;ECT2L,upstream_gene_variant,,ENST00000541398,;	G	ENSG00000203734	ENST00000423192	Transcript	missense_variant	198	37	13	P/A	Cct/Gct	rs771630511	.	.	1	ECT2L	HGNC	21118	protein_coding	YES	CCDS43508.1	ENSP00000387388	ECT2L_HUMAN	B7ZBI6_HUMAN	UPI0000E86804	.	deleterious(0)	probably_damaging(0.958)	2/21	.	hmmpanther:PTHR12673:SF70,hmmpanther:PTHR12673	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGACACCTTTT	.	4	BLCA
FBXO30	0	.	GRCh37	6	146125779	146125779	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1763G>C	p.Gly588Ala	p.G588A	ENST00000237281	2/3	107	91	16	87	87	0	FBXO30,missense_variant,p.Gly588Ala,ENST00000237281,;	G	ENSG00000118496	ENST00000237281	Transcript	missense_variant	1930	1763	588	G/A	gGa/gCa	.	.	.	-1	FBXO30	HGNC	15600	protein_coding	YES	CCDS5208.1	ENSP00000237281	FBX30_HUMAN	.	UPI0000071E84	.	tolerated(0.32)	possibly_damaging(0.835)	2/3	.	hmmpanther:PTHR15933,hmmpanther:PTHR15933:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTCCAAAT	.	4	BLCA
LATS1	0	.	GRCh37	6	150001312	150001312	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2292G>A	p.Trp764Ter	p.W764*	ENST00000543571	5/8	139	119	19	96	96	0	LATS1,stop_gained,p.Trp764Ter,ENST00000253339,;LATS1,stop_gained,p.Trp764Ter,ENST00000543571,;LATS1,downstream_gene_variant,,ENST00000392273,;LATS1,downstream_gene_variant,,ENST00000458696,;LATS1,non_coding_transcript_exon_variant,,ENST00000542747,;LATS1,3_prime_UTR_variant,,ENST00000441107,;LATS1,downstream_gene_variant,,ENST00000542720,;	T	ENSG00000131023	ENST00000543571	Transcript	stop_gained	2840	2292	764	W/*	tgG/tgA	.	.	.	-1	LATS1	HGNC	6514	protein_coding	YES	CCDS34551.1	ENSP00000437550	LATS1_HUMAN	.	UPI0000073DC2	.	.	.	5/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF138,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTACCCATTC	.	3	BLCA
LATS1	0	.	GRCh37	6	150001317	150001317	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2287G>A	p.Glu763Lys	p.E763K	ENST00000543571	5/8	142	122	19	98	98	0	LATS1,missense_variant,p.Glu763Lys,ENST00000253339,;LATS1,missense_variant,p.Glu763Lys,ENST00000543571,;LATS1,downstream_gene_variant,,ENST00000392273,;LATS1,downstream_gene_variant,,ENST00000458696,;LATS1,non_coding_transcript_exon_variant,,ENST00000542747,;LATS1,3_prime_UTR_variant,,ENST00000441107,;LATS1,downstream_gene_variant,,ENST00000542720,;	T	ENSG00000131023	ENST00000543571	Transcript	missense_variant	2835	2287	763	E/K	Gaa/Aaa	.	.	.	-1	LATS1	HGNC	6514	protein_coding	YES	CCDS34551.1	ENSP00000437550	LATS1_HUMAN	.	UPI0000073DC2	.	deleterious(0.01)	probably_damaging(0.994)	5/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF138,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCATTCATTGT	.	3	BLCA
LATS1	0	.	GRCh37	6	150005006	150005006	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1219C>T	p.Gln407Ter	p.Q407*	ENST00000543571	4/8	260	226	34	196	196	0	LATS1,stop_gained,p.Gln407Ter,ENST00000253339,;LATS1,stop_gained,p.Gln407Ter,ENST00000392273,;LATS1,stop_gained,p.Gln407Ter,ENST00000543571,;LATS1,downstream_gene_variant,,ENST00000458696,;LATS1,non_coding_transcript_exon_variant,,ENST00000542747,;LATS1,3_prime_UTR_variant,,ENST00000441107,;LATS1,downstream_gene_variant,,ENST00000542720,;	A	ENSG00000131023	ENST00000543571	Transcript	stop_gained	1767	1219	407	Q/*	Cag/Tag	.	.	.	-1	LATS1	HGNC	6514	protein_coding	YES	CCDS34551.1	ENSP00000437550	LATS1_HUMAN	.	UPI0000073DC2	.	.	.	4/8	.	hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF138	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACTGAGGAA	.	4	BLCA
RAET1L	0	.	GRCh37	6	150342222	150342222	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450C>G	p.%3D	p.L150L	ENST00000367341	3/5	220	187	32	163	163	0	RAET1L,synonymous_variant,p.%3D,ENST00000367341,;RAET1L,synonymous_variant,p.%3D,ENST00000286380,;	C	ENSG00000155918	ENST00000367341	Transcript	synonymous_variant	450	450	150	L	ctC/ctG	.	.	.	-1	RAET1L	HGNC	16798	protein_coding	YES	CCDS5224.1	ENSP00000356310	RET1L_HUMAN	J7HEN7_HUMAN,J7HBF1_HUMAN	UPI000013DE43	.	.	.	3/5	.	hmmpanther:PTHR16675:SF148,hmmpanther:PTHR16675,Pfam_domain:PF00129,Gene3D:3.30.500.10,Superfamily_domains:SSF54452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAAAGAGTAG	.	4	BLCA
JARID2	0	.	GRCh37	6	15468887	15468887	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608C>T	p.Ser203Leu	p.S203L	ENST00000341776	5/18	60	43	16	39	39	0	JARID2,missense_variant,p.Ser31Leu,ENST00000397311,;JARID2,missense_variant,p.Ser165Leu,ENST00000541660,;JARID2,missense_variant,p.Ser203Leu,ENST00000341776,;	T	ENSG00000008083	ENST00000341776	Transcript	missense_variant	852	608	203	S/L	tCa/tTa	COSM3777254	.	.	1	JARID2	HGNC	6196	protein_coding	YES	CCDS4533.1	ENSP00000341280	JARD2_HUMAN	Q96PA1_HUMAN	UPI0000161C67	.	deleterious(0)	possibly_damaging(0.563)	5/18	.	hmmpanther:PTHR10694	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCATCTT	.	5	BLCA
SCAF8	0	.	GRCh37	6	155154575	155154575	+	3'UTR	SNP	C	C	T	rs377011579	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46C>T	.	.	ENST00000367178	20/20	52	45	7	32	32	0	SCAF8,3_prime_UTR_variant,,ENST00000367186,;SCAF8,3_prime_UTR_variant,,ENST00000367178,;SCAF8,3_prime_UTR_variant,,ENST00000417268,;TIAM2,intron_variant,,ENST00000461783,;TIAM2,intron_variant,,ENST00000460692,;TIAM2,intron_variant,,ENST00000535064,;	T	ENSG00000213079	ENST00000367178	Transcript	3_prime_UTR_variant	4438	.	.	.	.	rs377011579	.	.	1	SCAF8	HGNC	20959	protein_coding	YES	CCDS5247.1	ENSP00000356146	SCAF8_HUMAN	Q9H8B2_HUMAN,Q8NDE9_HUMAN	UPI0000070A1C	.	.	.	20/20	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCTCTCTGT	byCluster	2	BLCA
TMEM242	0	.	GRCh37	6	157744516	157744516	+	Missense_Mutation	SNP	C	C	A	rs201491283	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16G>T	p.Ala6Ser	p.A6S	ENST00000400788	1/4	210	186	24	181	181	0	TMEM242,missense_variant,p.Ala6Ser,ENST00000367144,;TMEM242,missense_variant,p.Ala6Ser,ENST00000400788,;RP5-933K21.3,upstream_gene_variant,,ENST00000603032,;	A	ENSG00000215712	ENST00000400788	Transcript	missense_variant	118	16	6	A/S	Gct/Tct	rs201491283	.	.	-1	TMEM242	HGNC	17206	protein_coding	YES	CCDS43519.1	ENSP00000383594	TM242_HUMAN	.	UPI0000071567	.	tolerated_low_confidence(0.44)	benign(0.003)	1/4	.	Pfam_domain:PF07096,hmmpanther:PTHR13141,hmmpanther:PTHR13141:SF3	.	.	.	.	.	.	.	T:0	T:0.001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCAGCGCCCG	byFrequency|byCluster	4	BLCA
SNX9	0	.	GRCh37	6	158327215	158327215	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.676G>C	p.Ala226Pro	p.A226P	ENST00000392185	7/18	90	80	10	88	88	0	SNX9,missense_variant,p.Ala226Pro,ENST00000392185,;	C	ENSG00000130340	ENST00000392185	Transcript	missense_variant	847	676	226	A/P	Gca/Cca	.	.	.	1	SNX9	HGNC	14973	protein_coding	YES	CCDS5253.1	ENSP00000376024	SNX9_HUMAN	B3KXH8_HUMAN	UPI0000135B47	.	tolerated(0.11)	benign(0.001)	7/18	.	hmmpanther:PTHR10555,hmmpanther:PTHR10555:SF14,PIRSF_domain:PIRSF027744	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTAGCAAAA	.	4	BLCA
MAS1	0	.	GRCh37	6	160328242	160328242	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255C>T	p.%3D	p.F85F	ENST00000252660	1/1	243	207	36	218	218	0	MAS1,synonymous_variant,p.%3D,ENST00000252660,;RP1-249F5.3,downstream_gene_variant,,ENST00000434562,;	T	ENSG00000130368	ENST00000252660	Transcript	synonymous_variant	269	255	85	F	ttC/ttT	.	.	.	1	MAS1	HGNC	6899	protein_coding	YES	CCDS5272.1	ENSP00000252660	MAS_HUMAN	.	UPI0000050458	.	.	.	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR11334:SF4,hmmpanther:PTHR11334,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00533,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTTTCATCTT	.	4	BLCA
IGF2R	0	.	GRCh37	6	160467653	160467653	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2027C>G	p.Ser676Ter	p.S676*	ENST00000356956	15/48	87	71	15	61	61	0	IGF2R,stop_gained,p.Ser676Ter,ENST00000356956,;	G	ENSG00000197081	ENST00000356956	Transcript	stop_gained	2175	2027	676	S/*	tCa/tGa	.	.	.	1	IGF2R	HGNC	5467	protein_coding	YES	CCDS5273.1	ENSP00000349437	MPRI_HUMAN	A0N9R7_HUMAN,A0N9R6_HUMAN	UPI0000072478	.	.	.	15/48	.	hmmpanther:PTHR10439:SF4,hmmpanther:PTHR10439,Gene3D:2.70.130.10,Pfam_domain:PF00878,Superfamily_domains:SSF50911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTCAGGAG	.	5	BLCA
SLC17A4	0	.	GRCh37	6	25777134	25777134	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215C>T	p.%3D	p.I405I	ENST00000377905	10/12	134	112	22	81	81	0	SLC17A4,synonymous_variant,p.%3D,ENST00000397076,;SLC17A4,synonymous_variant,p.%3D,ENST00000377905,;SLC17A4,synonymous_variant,p.%3D,ENST00000439485,;	T	ENSG00000146039	ENST00000377905	Transcript	synonymous_variant	1334	1215	405	I	atC/atT	.	.	.	1	SLC17A4	HGNC	10932	protein_coding	YES	CCDS4564.1	ENSP00000367137	S17A4_HUMAN	.	UPI0000073585	.	.	.	10/12	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR11662,hmmpanther:PTHR11662:SF25,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCAGCAG	.	5	BLCA
HIST1H1C	0	.	GRCh37	6	26056660	26056660	+	5'UTR	SNP	G	G	A	rs779418596	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4C>T	.	.	ENST00000343677	1/1	59	47	11	40	40	0	HIST1H1C,5_prime_UTR_variant,,ENST00000343677,;	A	ENSG00000187837	ENST00000343677	Transcript	5_prime_UTR_variant	40	.	.	.	.	rs779418596	.	.	-1	HIST1H1C	HGNC	4716	protein_coding	YES	CCDS4577.1	ENSP00000339566	H12_HUMAN	.	UPI0000001BD9	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTGAGAAT	byFrequency	5	BLCA
HIST1H2AC	0	.	GRCh37	6	26124440	26124440	+	5'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-21G>C	.	.	ENST00000602637	1/2	71	61	10	58	58	0	HIST1H2AC,5_prime_UTR_variant,,ENST00000377791,;HIST1H2AC,5_prime_UTR_variant,,ENST00000602637,;HIST1H2BC,upstream_gene_variant,,ENST00000314332,;HIST1H2BC,upstream_gene_variant,,ENST00000396984,;HIST1H2AC,5_prime_UTR_variant,,ENST00000314088,;	C	ENSG00000180573	ENST00000602637	Transcript	5_prime_UTR_variant	10	.	.	.	.	.	.	.	1	HIST1H2AC	HGNC	4733	protein_coding	YES	CCDS4585.1	ENSP00000473534	H2A1C_HUMAN	.	UPI0000000DB8	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTTGGTGAT	.	4	BLCA
HIST1H2BJ	0	.	GRCh37	6	27100478	27100478	+	Missense_Mutation	SNP	C	C	T	rs114239522	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52G>A	p.Ala18Thr	p.A18T	ENST00000607124	1/2	178	152	25	122	122	0	HIST1H2BJ,missense_variant,p.Ala18Thr,ENST00000541790,;HIST1H2BJ,missense_variant,p.Ala18Thr,ENST00000339812,;HIST1H2BJ,missense_variant,p.Ala18Thr,ENST00000607124,;HIST1H2AG,upstream_gene_variant,,ENST00000359193,;HIST1H2BJ,upstream_gene_variant,,ENST00000606923,;	T	ENSG00000124635	ENST00000607124	Transcript	missense_variant	52	52	18	A/T	Gcg/Acg	rs114239522	.	.	-1	HIST1H2BJ	HGNC	4761	protein_coding	YES	CCDS4618.1	ENSP00000476136	H2B1J_HUMAN	.	UPI0000001BD5	.	deleterious_low_confidence(0.05)	unknown(0)	1/2	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF47113,Gene3D:1.10.20.10,hmmpanther:PTHR23428	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCGCCTTCT	byCluster|by1000G	4	BLCA
HIST1H2AH	0	.	GRCh37	6	27115308	27115308	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14G>C	.	.	ENST00000377459	1/1	67	53	14	58	58	0	HIST1H2AH,3_prime_UTR_variant,,ENST00000377459,;HIST1H2BK,upstream_gene_variant,,ENST00000356950,;HIST1H2BK,upstream_gene_variant,,ENST00000396891,;MIR3143,upstream_gene_variant,,ENST00000584253,;	C	ENSG00000184825	ENST00000377459	Transcript	3_prime_UTR_variant	448	.	.	.	.	.	.	.	1	HIST1H2AH	HGNC	13671	protein_coding	YES	CCDS4622.1	ENSP00000366679	H2A1H_HUMAN	A3KPC7_HUMAN	UPI0000073C8A	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTGAAAAC	.	5	BLCA
MAS1L	0	.	GRCh37	6	29455149	29455149	+	Silent	SNP	G	G	A	rs755505260	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>T	p.%3D	p.F177F	ENST00000377127	1/1	79	67	11	59	59	0	MAS1L,synonymous_variant,p.%3D,ENST00000377127,;RPS17P1,downstream_gene_variant,,ENST00000396783,;	A	ENSG00000204687	ENST00000377127	Transcript	synonymous_variant	590	531	177	F	ttC/ttT	rs755505260	.	.	-1	MAS1L	HGNC	13961	protein_coding	YES	CCDS4661.1	ENSP00000366331	MAS1L_HUMAN	.	UPI000003B44C	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR11334:SF12,hmmpanther:PTHR11334,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR02108	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGGGGAAGAG	.	4	BLCA
ZNRD1-AS1	0	.	GRCh37	6	29977339	29977339	+	Intron	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.731+164C>T	.	.	ENST00000376797	.	91	80	10	78	78	0	ZNRD1-AS1,intron_variant,,ENST00000420251,;ZNRD1-AS1,intron_variant,,ENST00000448093,;ZNRD1-AS1,intron_variant,,ENST00000425604,;ZNRD1-AS1,intron_variant,,ENST00000376797,;ZNRD1-AS1,downstream_gene_variant,,ENST00000444051,;HLA-J,non_coding_transcript_exon_variant,,ENST00000495278,;HLA-J,non_coding_transcript_exon_variant,,ENST00000462773,;HLA-J,non_coding_transcript_exon_variant,,ENST00000469281,;HLA-J,downstream_gene_variant,,ENST00000494367,;HCG4P3,upstream_gene_variant,,ENST00000458060,;	A	ENSG00000204623	ENST00000376797	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ZNRD1-AS1	HGNC	13924	antisense	YES	.	.	.	.	.	.	.	.	.	6/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGACTGAGAGG	.	4	BLCA
TRIM31	0	.	GRCh37	6	30080583	30080583	+	5'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1C>G	.	.	ENST00000376734	2/9	70	60	10	54	54	0	TRIM31,5_prime_UTR_variant,,ENST00000376734,;TRIM31,5_prime_UTR_variant,,ENST00000540829,;TRIM31-AS1,intron_variant,,ENST00000440874,;TRIM31,upstream_gene_variant,,ENST00000485864,;TRIM31,upstream_gene_variant,,ENST00000480808,;TRIM31,upstream_gene_variant,,ENST00000493404,;TRIM31,upstream_gene_variant,,ENST00000468264,;	C	ENSG00000204616	ENST00000376734	Transcript	5_prime_UTR_variant	126	.	.	.	.	.	.	.	-1	TRIM31	HGNC	16289	protein_coding	YES	CCDS34374.1	ENSP00000365924	TRI31_HUMAN	Q2L6J1_HUMAN	UPI00001B0109	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGACAGA	.	5	BLCA
TRIM26	0	.	GRCh37	6	30164394	30164394	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664G>A	p.Glu222Lys	p.E222K	ENST00000454678	6/10	66	59	7	42	42	0	TRIM26,missense_variant,p.Glu222Lys,ENST00000416596,;TRIM26,missense_variant,p.Glu222Lys,ENST00000454678,;TRIM26,missense_variant,p.Glu222Lys,ENST00000453195,;TRIM26,missense_variant,p.Glu222Lys,ENST00000437089,;TRIM26,downstream_gene_variant,,ENST00000418026,;TRIM26,downstream_gene_variant,,ENST00000434785,;TRIM26,downstream_gene_variant,,ENST00000487829,;	T	ENSG00000234127	ENST00000454678	Transcript	missense_variant	1101	664	222	E/K	Gag/Aag	.	.	.	-1	TRIM26	HGNC	12962	protein_coding	YES	CCDS4678.1	ENSP00000410446	TRI26_HUMAN	Q5SPU2_HUMAN,A2AE50_HUMAN,A2AE48_HUMAN	UPI0000001C20	.	tolerated(0.21)	possibly_damaging(0.468)	6/10	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24103:SF277,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTCTCCCTGC	.	3	BLCA
HLA-E	0	.	GRCh37	6	30458171	30458171	+	Missense_Mutation	SNP	C	C	G	rs746369515	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.489C>G	p.Ile163Met	p.I163M	ENST00000376630	3/8	85	73	11	55	55	0	HLA-E,missense_variant,p.Ile163Met,ENST00000376630,;HLA-E,non_coding_transcript_exon_variant,,ENST00000493699,;HLA-E,downstream_gene_variant,,ENST00000484194,;RANP1,downstream_gene_variant,,ENST00000437856,;RANP1,downstream_gene_variant,,ENST00000455094,;	G	ENSG00000204592	ENST00000376630	Transcript	missense_variant	554	489	163	I/M	atC/atG	rs746369515	.	.	1	HLA-E	HGNC	4962	protein_coding	YES	CCDS34379.1	ENSP00000365817	.	Q9TNU8_HUMAN,Q9MW44_HUMAN,Q7Z367_HUMAN,Q6KBZ5_HUMAN,Q6DU44_HUMAN,Q59EE1_HUMAN,Q30168_HUMAN,Q2L6I5_HUMAN,Q29896_HUMAN,O19744_HUMAN,O19683_HUMAN,O19682_HUMAN,I3RW89_HUMAN,E2G051_HUMAN	UPI000000DD70	.	deleterious_low_confidence(0.01)	possibly_damaging(0.844)	3/8	.	hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF133,Pfam_domain:PF00129,Gene3D:3.30.500.10,Superfamily_domains:SSF54452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGATCTCCGA	.	4	BLCA
NRM	0	.	GRCh37	6	30657907	30657907	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>A	p.Glu83Lys	p.E83K	ENST00000259953	3/5	94	84	10	63	63	0	NRM,missense_variant,p.Glu83Lys,ENST00000376420,;NRM,missense_variant,p.Glu83Lys,ENST00000376421,;NRM,missense_variant,p.Glu83Lys,ENST00000444096,;NRM,missense_variant,p.Glu83Lys,ENST00000259953,;PPP1R18,upstream_gene_variant,,ENST00000399199,;PPP1R18,upstream_gene_variant,,ENST00000274853,;NRM,non_coding_transcript_exon_variant,,ENST00000462857,;NRM,non_coding_transcript_exon_variant,,ENST00000470733,;NRM,non_coding_transcript_exon_variant,,ENST00000495946,;NRM,intron_variant,,ENST00000482141,;NRM,intron_variant,,ENST00000474864,;PPP1R18,upstream_gene_variant,,ENST00000467662,;PPP1R18,upstream_gene_variant,,ENST00000488324,;	T	ENSG00000137404	ENST00000259953	Transcript	missense_variant	599	247	83	E/K	Gaa/Aaa	.	.	.	-1	NRM	HGNC	8003	protein_coding	YES	CCDS4686.1	ENSP00000259953	NRM_HUMAN	B4DP16_HUMAN	UPI0000049DF1	.	tolerated(0.73)	benign(0.42)	3/5	.	Pfam_domain:PF07298,hmmpanther:PTHR31040	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTCAGCTG	.	4	BLCA
SFTA2	0	.	GRCh37	6	30899818	30899818	+	Missense_Mutation	SNP	C	C	T	rs769731034	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.56G>A	p.Gly19Glu	p.G19E	ENST00000359086	1/3	22	16	6	24	24	0	SFTA2,missense_variant,p.Gly19Glu,ENST00000359086,;Y_RNA,downstream_gene_variant,,ENST00000516952,;SFTA2,non_coding_transcript_exon_variant,,ENST00000474914,;	T	ENSG00000196260	ENST00000359086	Transcript	missense_variant	135	56	19	G/E	gGa/gAa	rs769731034	.	.	-1	SFTA2	HGNC	18386	protein_coding	YES	CCDS4691.1	ENSP00000351989	SFTA2_HUMAN	.	UPI00000389E6	.	tolerated(0.14)	unknown(0)	1/3	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCCATGT	.	5	BLCA
HLA-B	0	.	GRCh37	6	31323359	31323359	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630G>A	p.%3D	p.K210K	ENST00000412585	4/8	184	165	19	145	145	0	HLA-B,synonymous_variant,p.%3D,ENST00000412585,;HLA-B,synonymous_variant,p.%3D,ENST00000434333,;HLA-B,non_coding_transcript_exon_variant,,ENST00000463574,;HLA-B,non_coding_transcript_exon_variant,,ENST00000498007,;HLA-B,non_coding_transcript_exon_variant,,ENST00000474381,;HLA-B,upstream_gene_variant,,ENST00000481849,;HLA-B,upstream_gene_variant,,ENST00000497377,;XXbac-BPG248L24.12,upstream_gene_variant,,ENST00000603274,;	T	ENSG00000234745	ENST00000412585	Transcript	synonymous_variant	659	630	210	K	aaG/aaA	.	.	.	-1	HLA-B	HGNC	4932	protein_coding	YES	CCDS34394.1	ENSP00000399168	1B73_HUMAN,1B07_HUMAN,1B42_HUMAN,1B67_HUMAN,1B81_HUMAN,1B48_HUMAN	T1R372_HUMAN,R4QQU0_HUMAN,N0A4A9_HUMAN,N0A0K3_HUMAN,M9XMA8_HUMAN,M9PAL2_HUMAN,M9P9U8_HUMAN,M9P9C4_HUMAN,M9P9A4_HUMAN,M9P990_HUMAN,M9P8G8_HUMAN,M1FXF1_HUMAN,M1FWX2_HUMAN,M1F4D0_HUMAN,E5FQ95_HUMAN,Q9UIP1_HUMAN,Q9TQC5_HUMAN,Q9TQC2_HUMAN,Q9TPU4_HUMAN,Q9GIM0_HUMAN,Q95IE1_HUMAN,Q95HL7_HUMAN,Q8SP64_HUMAN,Q8HWQ3_HUMAN,Q861E5_HUMAN,Q861D6_HUMAN,Q861D4_HUMAN,Q7YP17_HUMAN,Q7YNX2_HUMAN,Q7JGR7_HUMAN,Q710M8_HUMAN,Q710M7_HUMAN,Q70HJ6_HUMAN,Q709M5_HUMAN,Q6ZXT6_HUMAN,Q5QR88_HUMAN,Q5QR87_HUMAN,Q5QR86_HUMAN,Q5QR85_HUMAN,Q5QR84_HUMAN,Q5QR83_HUMAN,Q5QR76_HUMAN,Q5QR73_HUMAN,Q5QR69_HUMAN,Q5QR62_HUMAN,Q5QR60_HUMAN,Q5QR59_HUMAN,Q5QR58_HUMAN,Q5QR57_HUMAN,Q5QR48_HUMAN,Q5QR47_HUMAN,Q5QR46_HUMAN,Q5QR36_HUMAN,Q5QR34_HUMAN,Q5QR33_HUMAN,Q5QR31_HUMAN,Q5F311_HUMAN,Q53ZP0_HUMAN,Q29923_HUMAN,Q29843_HUMAN,Q256S0_HUMAN,O19782_HUMAN,O19746_HUMAN,O19644_HUMAN,O19638_HUMAN,O19563_HUMAN,L0RH50_HUMAN,L0BXM2_HUMAN,K9LCN4_HUMAN,K9L8E6_HUMAN,K7QT39_HUMAN,K7P5R9_HUMAN,K4JQY2_HUMAN,J9UP90_HUMAN,J9PWQ9_HUMAN,J9PW07_HUMAN,J7K017_HUMAN,J7F682_HUMAN,J7F577_HUMAN,I7A4E3_HUMAN,I6TRW4_HUMAN,I6RCX9_HUMAN,I6NXG0_HUMAN,I6NWI0_HUMAN,I6NVS4_HUMAN,I4EC43_HUMAN,I3VZ13_HUMAN,I3UI65_HUMAN,I3QHR8_HUMAN,I2B2Z4_HUMAN,I2B2W6_HUMAN,H9C5J4_HUMAN,H9BQ86_HUMAN,H9BQ83_HUMAN,H9BQ82_HUMAN,G9I2L1_HUMAN,G3D6I7_HUMAN,G1EPU3_HUMAN,G1EPN0_HUMAN,G1EPJ1_HUMAN,G1ENJ6_HUMAN,G1ENJ0_HUMAN,G1EMP0_HUMAN,G1EMK6_HUMAN,G0ZMJ0_HUMAN,G0ZMH5_HUMAN,G0Z8C9_HUMAN,G0WVB6_HUMAN,F8SKV9_HUMAN,F8RHF3_HUMAN,F6KRS1_HUMAN,F6KRR7_HUMAN,F6KRQ7_HUMAN,F4YU56_HUMAN,F4YTC4_HUMAN,F4NBP2_HUMAN,F4NBP0_HUMAN,F2X5W5_HUMAN,F2X5T3_HUMAN,F2VNN2_HUMAN,E9LY38_HUMAN,E7BYA5_HUMAN,E3SWI1_HUMAN,E3SWH9_HUMAN,E2GJN0_HUMAN,E2DH92_HUMAN,E2D5Q2_HUMAN,E2D5P9_HUMAN,E2D5N8_HUMAN,D9U3G7_HUMAN,D7NSR4_HUMAN,D5L9C9_HUMAN,D5FWA6_HUMAN,D5FI14_HUMAN,D5FHY1_HUMAN,D5FHV8_HUMAN,D5FHU6_HUMAN,D4HPL2_HUMAN,D4HPB9_HUMAN,D4HPB2_HUMAN,D4HP81_HUMAN,D3Y5Y4_HUMAN,D3U4B8_HUMAN,D2DL25_HUMAN,D2DKQ8_HUMAN,D2DKN8_HUMAN,D2DKN6_HUMAN,D2DKF7_HUMAN,D2DKF6_HUMAN,C9WEP9_HUMAN,C9WEN6_HUMAN,C9WD06_HUMAN,C9WCZ5_HUMAN,C9WCQ2_HUMAN,C9E1H2_HUMAN,C8CH80_HUMAN,C8CAX9_HUMAN,C7FDQ9_HUMAN,C6L830_HUMAN,C5JA70_HUMAN,C3VIU8_HUMAN,B9VWB1_HUMAN,B4DUK6_HUMAN,B2YG95_HUMAN,A7E1C3_HUMAN,A5PHP5_HUMAN,A2VC07_HUMAN	UPI0000000B17	.	.	.	4/8	.	PROSITE_profiles:PS50835,hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF157,Gene3D:3.30.500.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	TGTGTCTTTGG	.	2	BLCA
HLA-B	0	.	GRCh37	6	31323370	31323370	+	Splice_Site	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.620-1G>C	.	p.X207_splice	ENST00000412585	.	186	165	21	134	134	0	HLA-B,splice_acceptor_variant,,ENST00000412585,;HLA-B,splice_acceptor_variant,,ENST00000434333,;HLA-B,splice_acceptor_variant,,ENST00000498007,;HLA-B,non_coding_transcript_exon_variant,,ENST00000463574,;HLA-B,non_coding_transcript_exon_variant,,ENST00000474381,;HLA-B,upstream_gene_variant,,ENST00000481849,;HLA-B,upstream_gene_variant,,ENST00000497377,;XXbac-BPG248L24.12,upstream_gene_variant,,ENST00000603274,;	G	ENSG00000234745	ENST00000412585	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM339507	.	.	-1	HLA-B	HGNC	4932	protein_coding	YES	CCDS34394.1	ENSP00000399168	1B73_HUMAN,1B07_HUMAN,1B42_HUMAN,1B67_HUMAN,1B81_HUMAN,1B48_HUMAN	T1R372_HUMAN,R4QQU0_HUMAN,N0A4A9_HUMAN,N0A0K3_HUMAN,M9XMA8_HUMAN,M9PAL2_HUMAN,M9P9U8_HUMAN,M9P9C4_HUMAN,M9P9A4_HUMAN,M9P990_HUMAN,M9P8G8_HUMAN,M1FXF1_HUMAN,M1FWX2_HUMAN,M1F4D0_HUMAN,E5FQ95_HUMAN,Q9UIP1_HUMAN,Q9TQC5_HUMAN,Q9TQC2_HUMAN,Q9TPU4_HUMAN,Q9GIM0_HUMAN,Q95IE1_HUMAN,Q95HL7_HUMAN,Q8SP64_HUMAN,Q8HWQ3_HUMAN,Q861E5_HUMAN,Q861D6_HUMAN,Q861D4_HUMAN,Q7YP17_HUMAN,Q7YNX2_HUMAN,Q7JGR7_HUMAN,Q710M8_HUMAN,Q710M7_HUMAN,Q70HJ6_HUMAN,Q709M5_HUMAN,Q6ZXT6_HUMAN,Q5QR88_HUMAN,Q5QR87_HUMAN,Q5QR86_HUMAN,Q5QR85_HUMAN,Q5QR84_HUMAN,Q5QR83_HUMAN,Q5QR76_HUMAN,Q5QR73_HUMAN,Q5QR69_HUMAN,Q5QR62_HUMAN,Q5QR60_HUMAN,Q5QR59_HUMAN,Q5QR58_HUMAN,Q5QR57_HUMAN,Q5QR48_HUMAN,Q5QR47_HUMAN,Q5QR46_HUMAN,Q5QR36_HUMAN,Q5QR34_HUMAN,Q5QR33_HUMAN,Q5QR31_HUMAN,Q5F311_HUMAN,Q53ZP0_HUMAN,Q29923_HUMAN,Q29843_HUMAN,Q256S0_HUMAN,O19782_HUMAN,O19746_HUMAN,O19644_HUMAN,O19638_HUMAN,O19563_HUMAN,L0RH50_HUMAN,L0BXM2_HUMAN,K9LCN4_HUMAN,K9L8E6_HUMAN,K7QT39_HUMAN,K7P5R9_HUMAN,K4JQY2_HUMAN,J9UP90_HUMAN,J9PWQ9_HUMAN,J9PW07_HUMAN,J7K017_HUMAN,J7F682_HUMAN,J7F577_HUMAN,I7A4E3_HUMAN,I6TRW4_HUMAN,I6RCX9_HUMAN,I6NXG0_HUMAN,I6NWI0_HUMAN,I6NVS4_HUMAN,I4EC43_HUMAN,I3VZ13_HUMAN,I3UI65_HUMAN,I3QHR8_HUMAN,I2B2Z4_HUMAN,I2B2W6_HUMAN,H9C5J4_HUMAN,H9BQ86_HUMAN,H9BQ83_HUMAN,H9BQ82_HUMAN,G9I2L1_HUMAN,G3D6I7_HUMAN,G1EPU3_HUMAN,G1EPN0_HUMAN,G1EPJ1_HUMAN,G1ENJ6_HUMAN,G1ENJ0_HUMAN,G1EMP0_HUMAN,G1EMK6_HUMAN,G0ZMJ0_HUMAN,G0ZMH5_HUMAN,G0Z8C9_HUMAN,G0WVB6_HUMAN,F8SKV9_HUMAN,F8RHF3_HUMAN,F6KRS1_HUMAN,F6KRR7_HUMAN,F6KRQ7_HUMAN,F4YU56_HUMAN,F4YTC4_HUMAN,F4NBP2_HUMAN,F4NBP0_HUMAN,F2X5W5_HUMAN,F2X5T3_HUMAN,F2VNN2_HUMAN,E9LY38_HUMAN,E7BYA5_HUMAN,E3SWI1_HUMAN,E3SWH9_HUMAN,E2GJN0_HUMAN,E2DH92_HUMAN,E2D5Q2_HUMAN,E2D5P9_HUMAN,E2D5N8_HUMAN,D9U3G7_HUMAN,D7NSR4_HUMAN,D5L9C9_HUMAN,D5FWA6_HUMAN,D5FI14_HUMAN,D5FHY1_HUMAN,D5FHV8_HUMAN,D5FHU6_HUMAN,D4HPL2_HUMAN,D4HPB9_HUMAN,D4HPB2_HUMAN,D4HP81_HUMAN,D3Y5Y4_HUMAN,D3U4B8_HUMAN,D2DL25_HUMAN,D2DKQ8_HUMAN,D2DKN8_HUMAN,D2DKN6_HUMAN,D2DKF7_HUMAN,D2DKF6_HUMAN,C9WEP9_HUMAN,C9WEN6_HUMAN,C9WD06_HUMAN,C9WCZ5_HUMAN,C9WCQ2_HUMAN,C9E1H2_HUMAN,C8CH80_HUMAN,C8CAX9_HUMAN,C7FDQ9_HUMAN,C6L830_HUMAN,C5JA70_HUMAN,C3VIU8_HUMAN,B9VWB1_HUMAN,B4DUK6_HUMAN,B2YG95_HUMAN,A7E1C3_HUMAN,A5PHP5_HUMAN,A2VC07_HUMAN	UPI0000000B17	.	.	.	.	3/7	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGGTCTGATG	.	3	BLCA
PRRC2A	0	.	GRCh37	6	31595668	31595668	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1417G>A	p.Glu473Lys	p.E473K	ENST00000376033	12/31	134	111	23	110	110	0	PRRC2A,missense_variant,p.Glu473Lys,ENST00000376033,;PRRC2A,missense_variant,p.Glu473Lys,ENST00000376007,;SNORA38,downstream_gene_variant,,ENST00000363946,;PRRC2A,downstream_gene_variant,,ENST00000469577,;PRRC2A,downstream_gene_variant,,ENST00000464079,;PRRC2A,upstream_gene_variant,,ENST00000483470,;PRRC2A,downstream_gene_variant,,ENST00000464890,;	A	ENSG00000204469	ENST00000376033	Transcript	missense_variant	1651	1417	473	E/K	Gaa/Aaa	.	.	.	1	PRRC2A	HGNC	13918	protein_coding	YES	CCDS4708.1	ENSP00000365201	PRC2A_HUMAN	.	UPI000020E56F	.	.	unknown(0)	12/31	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAAGAG	.	5	BLCA
VWA7	0	.	GRCh37	6	31735409	31735409	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1626G>C	p.Lys542Asn	p.K542N	ENST00000375688	11/17	342	331	10	268	268	0	VWA7,missense_variant,p.Lys542Asn,ENST00000375686,;VWA7,missense_variant,p.Lys542Asn,ENST00000447450,;VWA7,missense_variant,p.Lys542Asn,ENST00000375688,;MSH5,downstream_gene_variant,,ENST00000395853,;SAPCD1,downstream_gene_variant,,ENST00000415669,;MSH5,downstream_gene_variant,,ENST00000375740,;SAPCD1,downstream_gene_variant,,ENST00000425424,;MSH5,downstream_gene_variant,,ENST00000375755,;MSH5,downstream_gene_variant,,ENST00000375750,;MSH5,downstream_gene_variant,,ENST00000534153,;MSH5,downstream_gene_variant,,ENST00000429846,;MSH5,downstream_gene_variant,,ENST00000375742,;MSH5,downstream_gene_variant,,ENST00000375703,;MSH5,downstream_gene_variant,,ENST00000431848,;SAPCD1,downstream_gene_variant,,ENST00000433778,;SAPCD1-AS1,upstream_gene_variant,,ENST00000419679,;VWA7,non_coding_transcript_exon_variant,,ENST00000467576,;VWA7,downstream_gene_variant,,ENST00000487013,;MSH5-SAPCD1,downstream_gene_variant,,ENST00000491552,;VWA7,non_coding_transcript_exon_variant,,ENST00000486423,;MSH5-SAPCD1,downstream_gene_variant,,ENST00000498473,;SAPCD1,downstream_gene_variant,,ENST00000494299,;MSH5-SAPCD1,downstream_gene_variant,,ENST00000476085,;MSH5-SAPCD1,downstream_gene_variant,,ENST00000493662,;MSH5,downstream_gene_variant,,ENST00000484309,;MSH5,downstream_gene_variant,,ENST00000494458,;MSH5,downstream_gene_variant,,ENST00000463144,;	G	ENSG00000204396	ENST00000375688	Transcript	missense_variant	1827	1626	542	K/N	aaG/aaC	.	.	.	-1	VWA7	HGNC	13939	protein_coding	YES	CCDS4721.2	ENSP00000364840	VWA7_HUMAN	.	UPI0000E5AD19	.	tolerated(0.21)	benign(0.148)	11/17	.	hmmpanther:PTHR14905:SF9,hmmpanther:PTHR14905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTTCTTGAT	.	2	BLCA
LSM2	0	.	GRCh37	6	31765794	31765794	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135C>G	p.%3D	p.V45V	ENST00000375661	4/5	112	95	17	84	84	0	LSM2,synonymous_variant,p.%3D,ENST00000375661,;VARS,upstream_gene_variant,,ENST00000444930,;VARS,upstream_gene_variant,,ENST00000440048,;VARS,upstream_gene_variant,,ENST00000375663,;LSM2,non_coding_transcript_exon_variant,,ENST00000491421,;LSM2,non_coding_transcript_exon_variant,,ENST00000470083,;LSM2,non_coding_transcript_exon_variant,,ENST00000470086,;LSM2,non_coding_transcript_exon_variant,,ENST00000493387,;LSM2,intron_variant,,ENST00000477182,;LSM2,downstream_gene_variant,,ENST00000475835,;	C	ENSG00000204392	ENST00000375661	Transcript	synonymous_variant	362	135	45	V	gtC/gtG	.	.	.	-1	LSM2	HGNC	13940	protein_coding	YES	CCDS4722.1	ENSP00000364813	LSM2_HUMAN	.	UPI00000E839D	.	.	.	4/5	.	Superfamily_domains:SSF50182,PIRSF_domain:PIRSF016394,SMART_domains:SM00651,Pfam_domain:PF01423,Gene3D:2.30.30.100,hmmpanther:PTHR13829	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTGACACT	.	5	BLCA
EHMT2	0	.	GRCh37	6	31852767	31852767	+	Silent	SNP	G	G	A	rs764415942	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2370C>T	p.%3D	p.I790I	ENST00000375537	19/28	75	67	7	65	65	0	EHMT2,synonymous_variant,p.%3D,ENST00000375537,;EHMT2,synonymous_variant,p.%3D,ENST00000436026,;EHMT2,synonymous_variant,p.%3D,ENST00000375528,;EHMT2,synonymous_variant,p.%3D,ENST00000395728,;EHMT2,synonymous_variant,p.%3D,ENST00000375530,;EHMT2-AS1,downstream_gene_variant,,ENST00000434689,;EHMT2,non_coding_transcript_exon_variant,,ENST00000480912,;EHMT2,upstream_gene_variant,,ENST00000478491,;EHMT2,non_coding_transcript_exon_variant,,ENST00000477678,;EHMT2,non_coding_transcript_exon_variant,,ENST00000461880,;EHMT2,non_coding_transcript_exon_variant,,ENST00000494816,;	A	ENSG00000204371	ENST00000375537	Transcript	synonymous_variant	2377	2370	790	I	atC/atT	rs764415942	.	.	-1	EHMT2	HGNC	14129	protein_coding	YES	CCDS4725.1	ENSP00000364687	EHMT2_HUMAN	.	UPI000013D085	.	.	.	19/28	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF306,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCCCAGATGAT	byFrequency	3	BLCA
STK19	0	.	GRCh37	6	31940164	31940164	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306C>T	p.%3D	p.F102F	ENST00000375333	2/8	84	72	12	70	70	0	STK19,synonymous_variant,p.%3D,ENST00000375331,;STK19,synonymous_variant,p.%3D,ENST00000460018,;STK19,synonymous_variant,p.%3D,ENST00000375333,;DXO,upstream_gene_variant,,ENST00000495340,;SKIV2L,downstream_gene_variant,,ENST00000544581,;SKIV2L,downstream_gene_variant,,ENST00000491994,;SKIV2L,downstream_gene_variant,,ENST00000375394,;DXO,upstream_gene_variant,,ENST00000375356,;DXO,upstream_gene_variant,,ENST00000375349,;DXO,upstream_gene_variant,,ENST00000337523,;STK19,non_coding_transcript_exon_variant,,ENST00000463823,;SKIV2L,downstream_gene_variant,,ENST00000470453,;SKIV2L,downstream_gene_variant,,ENST00000461915,;SKIV2L,downstream_gene_variant,,ENST00000471818,;DXO,upstream_gene_variant,,ENST00000474587,;DXO,upstream_gene_variant,,ENST00000487914,;STK19,upstream_gene_variant,,ENST00000466336,;DXO,upstream_gene_variant,,ENST00000478221,;STK19,synonymous_variant,p.%3D,ENST00000483801,;STK19,synonymous_variant,p.%3D,ENST00000519179,;STK19,non_coding_transcript_exon_variant,,ENST00000473983,;STK19,non_coding_transcript_exon_variant,,ENST00000479644,;STK19,non_coding_transcript_exon_variant,,ENST00000466132,;STK19,non_coding_transcript_exon_variant,,ENST00000492583,;STK19,non_coding_transcript_exon_variant,,ENST00000478486,;DXO,upstream_gene_variant,,ENST00000473976,;DXO,upstream_gene_variant,,ENST00000492946,;SKIV2L,downstream_gene_variant,,ENST00000494058,;STK19,upstream_gene_variant,,ENST00000469907,;SKIV2L,downstream_gene_variant,,ENST00000484835,;DXO,upstream_gene_variant,,ENST00000480240,;DXO,upstream_gene_variant,,ENST00000498357,;DXO,upstream_gene_variant,,ENST00000477826,;SKIV2L,downstream_gene_variant,,ENST00000474839,;DXO,upstream_gene_variant,,ENST00000491327,;SKIV2L,downstream_gene_variant,,ENST00000465703,;DXO,upstream_gene_variant,,ENST00000460058,;DXO,upstream_gene_variant,,ENST00000485557,;STK19,upstream_gene_variant,,ENST00000491861,;STK19,upstream_gene_variant,,ENST00000484540,;STK19,upstream_gene_variant,,ENST00000471028,;SKIV2L,downstream_gene_variant,,ENST00000483553,;SKIV2L,downstream_gene_variant,,ENST00000485349,;	T	ENSG00000204344	ENST00000375333	Transcript	synonymous_variant	359	306	102	F	ttC/ttT	.	.	.	1	STK19	HGNC	11398	protein_coding	YES	CCDS4733.1	ENSP00000364482	STK19_HUMAN	C9J6S8_HUMAN	UPI0000136063	.	.	.	2/8	.	hmmpanther:PTHR15243:SF0,hmmpanther:PTHR15243	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTTCCCCGG	.	4	BLCA
BRD2	0	.	GRCh37	6	32947861	32947861	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2203G>C	p.Glu735Gln	p.E735Q	ENST00000395289	12/14	72	63	9	76	76	0	BRD2,missense_variant,p.Glu735Gln,ENST00000395289,;BRD2,missense_variant,p.Glu706Gln,ENST00000449025,;BRD2,missense_variant,p.Glu653Gln,ENST00000449085,;BRD2,missense_variant,p.Glu700Gln,ENST00000374825,;BRD2,missense_variant,p.Glu700Gln,ENST00000374831,;BRD2,missense_variant,p.Glu580Gln,ENST00000443797,;BRD2,missense_variant,p.Glu735Gln,ENST00000395287,;BRD2,downstream_gene_variant,,ENST00000607833,;BRD2,downstream_gene_variant,,ENST00000606059,;BRD2,downstream_gene_variant,,ENST00000456339,;BRD2,3_prime_UTR_variant,,ENST00000482914,;BRD2,non_coding_transcript_exon_variant,,ENST00000482838,;BRD2,non_coding_transcript_exon_variant,,ENST00000469132,;BRD2,downstream_gene_variant,,ENST00000481259,;BRD2,downstream_gene_variant,,ENST00000464592,;BRD2,downstream_gene_variant,,ENST00000495733,;BRD2,downstream_gene_variant,,ENST00000463639,;	C	ENSG00000204256	ENST00000395289	Transcript	missense_variant	3804	2203	735	E/Q	Gag/Cag	.	.	.	1	BRD2	HGNC	1103	protein_coding	YES	CCDS56420.1	ENSP00000378704	BRD2_HUMAN	U3KQA6_HUMAN	UPI0000227E6A	.	deleterious(0.03)	benign(0.403)	12/14	.	PROSITE_profiles:PS51525,hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTGAGCGC	.	4	BLCA
SLC39A7	0	.	GRCh37	6	33169620	33169620	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.510G>C	p.Gln170His	p.Q170H	ENST00000374677	2/7	98	82	15	92	92	0	SLC39A7,missense_variant,p.Gln170His,ENST00000374675,;SLC39A7,missense_variant,p.Gln80His,ENST00000444757,;SLC39A7,missense_variant,p.Gln170His,ENST00000374677,;RXRB,upstream_gene_variant,,ENST00000544186,;HSD17B8,upstream_gene_variant,,ENST00000374662,;RXRB,upstream_gene_variant,,ENST00000413614,;RXRB,upstream_gene_variant,,ENST00000374680,;RXRB,upstream_gene_variant,,ENST00000374685,;RNY4P10,downstream_gene_variant,,ENST00000365571,;SLC39A7,upstream_gene_variant,,ENST00000463972,;HSD17B8,upstream_gene_variant,,ENST00000469186,;RXRB,upstream_gene_variant,,ENST00000483281,;RXRB,upstream_gene_variant,,ENST00000481441,;	C	ENSG00000112473	ENST00000374677	Transcript	missense_variant	883	510	170	Q/H	caG/caC	.	.	.	1	SLC39A7	HGNC	4927	protein_coding	YES	CCDS43453.1	ENSP00000363809	S39A7_HUMAN	Q29984_HUMAN	UPI0000046C3F	.	deleterious(0)	probably_damaging(0.95)	2/7	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR16950,hmmpanther:PTHR16950:SF5,Pfam_domain:PF02535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCAGATCTT	.	5	BLCA
SLC39A7	0	.	GRCh37	6	33170401	33170401	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.864G>C	p.Lys288Asn	p.K288N	ENST00000374677	5/7	66	57	9	31	31	0	SLC39A7,missense_variant,p.Lys288Asn,ENST00000374675,;SLC39A7,missense_variant,p.Lys198Asn,ENST00000444757,;SLC39A7,missense_variant,p.Lys288Asn,ENST00000374677,;RXRB,upstream_gene_variant,,ENST00000544186,;HSD17B8,upstream_gene_variant,,ENST00000374662,;RXRB,upstream_gene_variant,,ENST00000413614,;RXRB,upstream_gene_variant,,ENST00000374680,;RXRB,upstream_gene_variant,,ENST00000374685,;RNY4P10,downstream_gene_variant,,ENST00000365571,;SLC39A7,non_coding_transcript_exon_variant,,ENST00000463972,;HSD17B8,upstream_gene_variant,,ENST00000469186,;RXRB,upstream_gene_variant,,ENST00000483281,;RXRB,upstream_gene_variant,,ENST00000481441,;	C	ENSG00000112473	ENST00000374677	Transcript	missense_variant	1237	864	288	K/N	aaG/aaC	.	.	.	1	SLC39A7	HGNC	4927	protein_coding	YES	CCDS43453.1	ENSP00000363809	S39A7_HUMAN	Q29984_HUMAN	UPI0000046C3F	.	deleterious(0.05)	benign(0.115)	5/7	.	hmmpanther:PTHR16950,hmmpanther:PTHR16950:SF5,Pfam_domain:PF02535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGAAGAGGCG	.	4	BLCA
VPS52	0	.	GRCh37	6	33236338	33236338	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.637G>A	p.Glu213Lys	p.E213K	ENST00000445902	7/20	74	64	10	59	59	0	VPS52,missense_variant,p.Glu88Lys,ENST00000436044,;VPS52,missense_variant,p.Glu213Lys,ENST00000445902,;VPS52,3_prime_UTR_variant,,ENST00000482399,;RPS18,upstream_gene_variant,,ENST00000474973,;RPS18,upstream_gene_variant,,ENST00000439602,;VPS52,non_coding_transcript_exon_variant,,ENST00000478934,;VPS52,non_coding_transcript_exon_variant,,ENST00000464425,;VPS52,non_coding_transcript_exon_variant,,ENST00000463486,;VPS52,upstream_gene_variant,,ENST00000495981,;RPS18,upstream_gene_variant,,ENST00000476222,;VPS52,upstream_gene_variant,,ENST00000493674,;VPS52,upstream_gene_variant,,ENST00000471309,;RPS18,upstream_gene_variant,,ENST00000496813,;RPS18,upstream_gene_variant,,ENST00000490191,;RPS18,upstream_gene_variant,,ENST00000474626,;VPS52,upstream_gene_variant,,ENST00000495755,;VPS52,upstream_gene_variant,,ENST00000461743,;VPS52,upstream_gene_variant,,ENST00000493379,;	T	ENSG00000223501	ENST00000445902	Transcript	missense_variant	856	637	213	E/K	Gaa/Aaa	.	.	.	-1	VPS52	HGNC	10518	protein_coding	YES	CCDS4770.2	ENSP00000409952	VPS52_HUMAN	B4DS44_HUMAN,B4DNI9_HUMAN	UPI000006E468	.	tolerated(0.13)	benign(0.038)	7/20	.	hmmpanther:PTHR14190,Pfam_domain:PF04129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTCCTGCT	.	4	BLCA
VPS52	0	.	GRCh37	6	33236339	33236339	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.636G>A	p.%3D	p.Q212Q	ENST00000445902	7/20	75	64	11	60	60	0	VPS52,synonymous_variant,p.%3D,ENST00000436044,;VPS52,synonymous_variant,p.%3D,ENST00000445902,;VPS52,3_prime_UTR_variant,,ENST00000482399,;RPS18,upstream_gene_variant,,ENST00000474973,;RPS18,upstream_gene_variant,,ENST00000439602,;VPS52,non_coding_transcript_exon_variant,,ENST00000478934,;VPS52,non_coding_transcript_exon_variant,,ENST00000464425,;VPS52,non_coding_transcript_exon_variant,,ENST00000463486,;VPS52,upstream_gene_variant,,ENST00000495981,;RPS18,upstream_gene_variant,,ENST00000476222,;VPS52,upstream_gene_variant,,ENST00000493674,;VPS52,upstream_gene_variant,,ENST00000471309,;RPS18,upstream_gene_variant,,ENST00000496813,;RPS18,upstream_gene_variant,,ENST00000490191,;RPS18,upstream_gene_variant,,ENST00000474626,;VPS52,upstream_gene_variant,,ENST00000495755,;VPS52,upstream_gene_variant,,ENST00000461743,;VPS52,upstream_gene_variant,,ENST00000493379,;	T	ENSG00000223501	ENST00000445902	Transcript	synonymous_variant	855	636	212	Q	caG/caA	.	.	.	-1	VPS52	HGNC	10518	protein_coding	YES	CCDS4770.2	ENSP00000409952	VPS52_HUMAN	B4DS44_HUMAN,B4DNI9_HUMAN	UPI000006E468	.	.	.	7/20	.	hmmpanther:PTHR14190,Pfam_domain:PF04129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTCCTGCTC	.	4	BLCA
SLC26A8	0	.	GRCh37	6	35965594	35965594	+	Missense_Mutation	SNP	G	G	A	rs752023890	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.548C>T	p.Ser183Leu	p.S183L	ENST00000490799	5/20	84	67	16	55	55	0	SLC26A8,missense_variant,p.Ser183Leu,ENST00000490799,;SLC26A8,missense_variant,p.Ser183Leu,ENST00000355574,;SLC26A8,missense_variant,p.Ser183Leu,ENST00000394602,;SLC26A8,non_coding_transcript_exon_variant,,ENST00000486155,;SLC26A8,downstream_gene_variant,,ENST00000469847,;	A	ENSG00000112053	ENST00000490799	Transcript	missense_variant	902	548	183	S/L	tCg/tTg	rs752023890,COSM3626122	.	.	-1	SLC26A8	HGNC	14468	protein_coding	YES	CCDS4813.1	ENSP00000417638	S26A8_HUMAN	.	UPI00000739C0	.	deleterious(0)	possibly_damaging(0.509)	5/20	.	hmmpanther:PTHR11814,hmmpanther:PTHR11814:SF11	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCGAAAAC	.	5	BLCA
BRPF3	0	.	GRCh37	6	36178226	36178226	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2100C>T	p.%3D	p.I700I	ENST00000357641	6/13	94	84	10	58	58	0	BRPF3,synonymous_variant,p.%3D,ENST00000443324,;BRPF3,synonymous_variant,p.%3D,ENST00000357641,;BRPF3,synonymous_variant,p.%3D,ENST00000534694,;BRPF3,synonymous_variant,p.%3D,ENST00000543502,;BRPF3,synonymous_variant,p.%3D,ENST00000339717,;BRPF3,synonymous_variant,p.%3D,ENST00000534400,;BRPF3,downstream_gene_variant,,ENST00000527657,;BRPF3,synonymous_variant,p.%3D,ENST00000449261,;BRPF3,3_prime_UTR_variant,,ENST00000441123,;BRPF3,3_prime_UTR_variant,,ENST00000532330,;BRPF3,upstream_gene_variant,,ENST00000532538,;BRPF3,upstream_gene_variant,,ENST00000441730,;	T	ENSG00000096070	ENST00000357641	Transcript	synonymous_variant	2353	2100	700	I	atC/atT	.	.	.	1	BRPF3	HGNC	14256	protein_coding	YES	CCDS34437.1	ENSP00000350267	BRPF3_HUMAN	A8WI62_HUMAN,A8WI61_HUMAN	UPI00001C1E4C	.	.	.	6/13	.	hmmpanther:PTHR13793,hmmpanther:PTHR13793:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATCGGCTA	.	4	BLCA
CCDC167	0	.	GRCh37	6	37452917	37452917	+	Silent	SNP	C	C	T	rs773457760	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96G>A	p.%3D	p.V32V	ENST00000373408	2/4	39	28	11	33	32	1	CCDC167,synonymous_variant,p.%3D,ENST00000373408,;CMTR1,downstream_gene_variant,,ENST00000373451,;CMTR1,downstream_gene_variant,,ENST00000457419,;	T	ENSG00000198937	ENST00000373408	Transcript	synonymous_variant	155	96	32	V	gtG/gtA	rs773457760	.	.	-1	CCDC167	HGNC	21239	protein_coding	YES	CCDS34441.1	ENSP00000362507	CC167_HUMAN	.	UPI000015D1A3	.	.	.	2/4	.	Pfam_domain:PF15188,hmmpanther:PTHR31759,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GAGTTCACGGC	byFrequency	2	BLCA
DAAM2	0	.	GRCh37	6	39867939	39867939	+	Silent	SNP	C	C	T	rs760590416	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2766C>T	p.%3D	p.F922F	ENST00000398904	23/25	23	19	4	14	14	0	DAAM2,synonymous_variant,p.%3D,ENST00000538976,;DAAM2,synonymous_variant,p.%3D,ENST00000274867,;DAAM2,synonymous_variant,p.%3D,ENST00000398904,;MOCS1,downstream_gene_variant,,ENST00000373188,;MOCS1,downstream_gene_variant,,ENST00000373175,;MOCS1,downstream_gene_variant,,ENST00000308559,;MOCS1,downstream_gene_variant,,ENST00000373186,;RP11-61I13.3,upstream_gene_variant,,ENST00000606829,;RP11-61I13.3,upstream_gene_variant,,ENST00000430595,;RP11-61I13.3,upstream_gene_variant,,ENST00000420293,;RP11-61I13.3,upstream_gene_variant,,ENST00000437947,;MOCS1,intron_variant,,ENST00000373181,;	T	ENSG00000146122	ENST00000398904	Transcript	synonymous_variant	2948	2766	922	F	ttC/ttT	rs760590416	.	.	1	DAAM2	HGNC	18143	protein_coding	YES	CCDS56426.1	ENSP00000381876	DAAM2_HUMAN	.	UPI000020DC88	.	.	.	23/25	.	Superfamily_domains:SSF101447,SMART_domains:SM00498,Pfam_domain:PF02181,hmmpanther:PTHR23213:SF171,hmmpanther:PTHR23213,PROSITE_profiles:PS51444	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTCAGCTT	.	4	BLCA
VEGFA	0	.	GRCh37	6	43748497	43748497	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.991C>T	p.Gln331Ter	p.Q331*	ENST00000372055	6/8	120	101	19	95	95	0	VEGFA,stop_gained,p.Gln151Ter,ENST00000520948,;VEGFA,stop_gained,p.Gln331Ter,ENST00000372055,;VEGFA,stop_gained,p.Gln331Ter,ENST00000425836,;VEGFA,stop_gained,p.Gln303Ter,ENST00000519767,;VEGFA,stop_gained,p.Gln331Ter,ENST00000413642,;VEGFA,stop_gained,p.Gln151Ter,ENST00000523873,;VEGFA,stop_gained,p.Gln151Ter,ENST00000518689,;VEGFA,intron_variant,,ENST00000520265,;VEGFA,intron_variant,,ENST00000523950,;VEGFA,intron_variant,,ENST00000230480,;VEGFA,intron_variant,,ENST00000372077,;VEGFA,intron_variant,,ENST00000324450,;VEGFA,intron_variant,,ENST00000372064,;VEGFA,intron_variant,,ENST00000457104,;VEGFA,intron_variant,,ENST00000372067,;VEGFA,intron_variant,,ENST00000482630,;VEGFA,intron_variant,,ENST00000518824,;VEGFA,intron_variant,,ENST00000523125,;VEGFA,intron_variant,,ENST00000417285,;VEGFA,non_coding_transcript_exon_variant,,ENST00000480614,;VEGFA,intron_variant,,ENST00000497139,;VEGFA,intron_variant,,ENST00000493786,;VEGFA,downstream_gene_variant,,ENST00000518538,;VEGFA,downstream_gene_variant,,ENST00000476772,;VEGFA,downstream_gene_variant,,ENST00000512683,;	T	ENSG00000112715	ENST00000372055	Transcript	stop_gained	991	991	331	Q/*	Caa/Taa	.	.	.	1	VEGFA	HGNC	12680	protein_coding	YES	CCDS34457.1	ENSP00000361125	.	Q9UNS8_HUMAN,J3KPA4_HUMAN	UPI0000D61463	.	.	.	6/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12025,hmmpanther:PTHR12025:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGGGCAAAAA	.	4	BLCA
RHAG	0	.	GRCh37	6	49586889	49586889	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.341+3G>C	.	.	ENST00000371175	.	90	73	16	70	70	0	RHAG,splice_region_variant,,ENST00000229810,;RHAG,splice_region_variant,,ENST00000371175,;	G	ENSG00000112077	ENST00000371175	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	RHAG	HGNC	10006	protein_coding	YES	CCDS4927.1	ENSP00000360217	RHAG_HUMAN	Q9UL98_HUMAN,Q9UK69_HUMAN,Q9UHG8_HUMAN,Q9UBB8_HUMAN	UPI000006D18F	.	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	ATGCTCACTTT	.	2	BLCA
MLIP	0	.	GRCh37	6	53989646	53989646	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595C>T	p.Gln199Ter	p.Q199*	ENST00000274897	3/13	62	49	13	47	47	0	MLIP,stop_gained,p.Gln137Ter,ENST00000370876,;MLIP,stop_gained,p.Gln210Ter,ENST00000502396,;MLIP,stop_gained,p.Gln158Ter,ENST00000503951,;MLIP,stop_gained,p.Gln81Ter,ENST00000447836,;MLIP,stop_gained,p.Gln200Ter,ENST00000514433,;MLIP,stop_gained,p.Gln199Ter,ENST00000514921,;MLIP,stop_gained,p.Gln193Ter,ENST00000358276,;MLIP,stop_gained,p.Gln199Ter,ENST00000274897,;MLIP,stop_gained,p.Gln147Ter,ENST00000509997,;MLIP,stop_gained,p.Gln81Ter,ENST00000511678,;MLIP,stop_gained,p.Gln147Ter,ENST00000370877,;MLIP,downstream_gene_variant,,ENST00000460844,;MLIP,downstream_gene_variant,,ENST00000505762,;MLIP,non_coding_transcript_exon_variant,,ENST00000511744,;	T	ENSG00000146147	ENST00000274897	Transcript	stop_gained	708	595	199	Q/*	Cag/Tag	.	.	.	1	MLIP	HGNC	21355	protein_coding	YES	CCDS4954.1	ENSP00000274897	MLIP_HUMAN	.	UPI000013DA33	.	.	.	3/13	.	hmmpanther:PTHR31514:SF1,hmmpanther:PTHR31514,Pfam_domain:PF15274	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGCAA	.	5	BLCA
ZNF451	0	.	GRCh37	6	57025901	57025901	+	Silent	SNP	C	C	T	rs181673882	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3090C>T	p.%3D	p.N1030N	ENST00000370706	14/15	138	124	14	109	109	0	ZNF451,synonymous_variant,p.%3D,ENST00000357489,;ZNF451,synonymous_variant,p.%3D,ENST00000370706,;RP11-203B9.4,intron_variant,,ENST00000416069,;RP11-203B9.4,intron_variant,,ENST00000587815,;RP11-203B9.4,intron_variant,,ENST00000586432,;RP11-203B9.4,intron_variant,,ENST00000586053,;RP11-203B9.4,intron_variant,,ENST00000588811,;RP11-203B9.4,intron_variant,,ENST00000591553,;RP11-203B9.4,intron_variant,,ENST00000585792,;RP11-203B9.4,intron_variant,,ENST00000589263,;RP11-203B9.4,intron_variant,,ENST00000592038,;RP11-203B9.4,intron_variant,,ENST00000592500,;RP11-203B9.4,intron_variant,,ENST00000586466,;RP11-203B9.4,intron_variant,,ENST00000586668,;RP11-203B9.4,intron_variant,,ENST00000589549,;RP11-203B9.4,downstream_gene_variant,,ENST00000590164,;RP11-203B9.4,downstream_gene_variant,,ENST00000588819,;RP11-203B9.4,downstream_gene_variant,,ENST00000589312,;RP11-203B9.4,downstream_gene_variant,,ENST00000592785,;RP11-203B9.4,downstream_gene_variant,,ENST00000589394,;ZNF451,3_prime_UTR_variant,,ENST00000504603,;ZNF451,non_coding_transcript_exon_variant,,ENST00000504364,;	T	ENSG00000112200	ENST00000370706	Transcript	synonymous_variant	3334	3090	1030	N	aaC/aaT	rs181673882	.	.	1	ZNF451	HGNC	21091	protein_coding	YES	CCDS43477.1	ENSP00000359740	ZN451_HUMAN	Q96JY2_HUMAN,D6RAV4_HUMAN	UPI000004A571	.	.	.	14/15	.	.	T:0.0004	T:0.0008	T:0.0014	.	T:0	T:0	T:0	T:0.0005	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATAACATGGG	byFrequency|byCluster|by1000G	4	BLCA
FAM135A	0	.	GRCh37	6	71238130	71238130	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3750G>C	p.%3D	p.L1250L	ENST00000418814	16/22	111	102	8	95	95	0	FAM135A,synonymous_variant,p.%3D,ENST00000457062,;FAM135A,synonymous_variant,p.%3D,ENST00000505868,;FAM135A,synonymous_variant,p.%3D,ENST00000361499,;FAM135A,synonymous_variant,p.%3D,ENST00000505769,;FAM135A,synonymous_variant,p.%3D,ENST00000418814,;FAM135A,synonymous_variant,p.%3D,ENST00000370479,;FAM135A,downstream_gene_variant,,ENST00000515323,;FAM135A,3_prime_UTR_variant,,ENST00000194672,;FAM135A,downstream_gene_variant,,ENST00000393299,;	C	ENSG00000082269	ENST00000418814	Transcript	synonymous_variant	4364	3750	1250	L	ctG/ctC	.	.	.	1	FAM135A	HGNC	21084	protein_coding	YES	CCDS55028.1	ENSP00000410768	F135A_HUMAN	D6RFG9_HUMAN,D6REA8_HUMAN,D6RC17_HUMAN	UPI000004A0FF	.	.	.	16/22	.	Superfamily_domains:SSF53474,Gene3D:3.40.50.1820,Pfam_domain:PF05057,hmmpanther:PTHR12482,hmmpanther:PTHR12482:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCTGATTGT	.	2	BLCA
RREB1	0	.	GRCh37	6	7248826	7248826	+	Silent	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4854G>A	p.%3D	p.Q1618Q	ENST00000379938	13/13	57	49	8	53	53	0	RREB1,synonymous_variant,p.%3D,ENST00000349384,;RREB1,synonymous_variant,p.%3D,ENST00000334984,;RREB1,synonymous_variant,p.%3D,ENST00000379938,;RREB1,synonymous_variant,p.%3D,ENST00000379933,;	A	ENSG00000124782	ENST00000379938	Transcript	synonymous_variant	5391	4854	1618	Q	caG/caA	COSM1487905,COSM1487904	.	.	1	RREB1	HGNC	10449	protein_coding	YES	CCDS34335.1	ENSP00000369270	RREB1_HUMAN	C9JU34_HUMAN,C9JPJ6_HUMAN,C9JE09_HUMAN	UPI000020E496	.	.	.	13/13	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF42	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCAGAAAGC	.	4	BLCA
OOEP	0	.	GRCh37	6	74079008	74079008	+	Silent	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>T	p.%3D	p.F97F	ENST00000370359	2/3	53	43	10	52	52	0	OOEP,synonymous_variant,p.%3D,ENST00000441145,;OOEP,synonymous_variant,p.%3D,ENST00000370359,;OOEP,synonymous_variant,p.%3D,ENST00000370363,;OOEP-AS1,upstream_gene_variant,,ENST00000445350,;RPL39P3,downstream_gene_variant,,ENST00000424573,;	A	ENSG00000203907	ENST00000370359	Transcript	synonymous_variant	291	291	97	F	ttC/ttT	COSM293082	.	.	-1	OOEP	HGNC	21382	protein_coding	YES	CCDS47451.1	ENSP00000359384	OOEP_HUMAN	.	UPI00001D8132	.	.	.	2/3	.	hmmpanther:PTHR19447:SF14,hmmpanther:PTHR19447	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F97F|c.291C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCCGAAAAC	.	5	BLCA
FILIP1	0	.	GRCh37	6	76024256	76024256	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1292G>C	p.Arg431Thr	p.R431T	ENST00000237172	5/6	221	192	28	164	163	1	FILIP1,missense_variant,p.Arg332Thr,ENST00000370020,;FILIP1,missense_variant,p.Arg431Thr,ENST00000393004,;FILIP1,missense_variant,p.Arg431Thr,ENST00000237172,;FILIP1,non_coding_transcript_exon_variant,,ENST00000498523,;HMGB1P39,downstream_gene_variant,,ENST00000366304,;	G	ENSG00000118407	ENST00000237172	Transcript	missense_variant	1623	1292	431	R/T	aGa/aCa	.	.	.	-1	FILIP1	HGNC	21015	protein_coding	YES	CCDS4984.1	ENSP00000237172	FLIP1_HUMAN	.	UPI0000160071	.	deleterious(0)	possibly_damaging(0.907)	5/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23166,hmmpanther:PTHR23166:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATTCTCTTC	.	4	BLCA
HTR1B	0	.	GRCh37	6	78172850	78172850	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271C>G	p.Leu91Val	p.L91V	ENST00000369947	1/1	129	110	19	108	108	0	HTR1B,missense_variant,p.Leu91Val,ENST00000369947,;	C	ENSG00000135312	ENST00000369947	Transcript	missense_variant	641	271	91	L/V	Ctg/Gtg	COSM3784729	.	.	-1	HTR1B	HGNC	5287	protein_coding	YES	CCDS4986.1	ENSP00000358963	5HT1B_HUMAN	.	UPI00000007CB	.	deleterious(0)	probably_damaging(1)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24247,hmmpanther:PTHR24247:SF16,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCAGAGAGG	.	4	BLCA
TTK	0	.	GRCh37	6	80721692	80721692	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891G>C	p.Met297Ile	p.M297I	ENST00000369798	8/22	62	53	9	44	44	0	TTK,missense_variant,p.Met297Ile,ENST00000509894,;TTK,missense_variant,p.Met297Ile,ENST00000230510,;TTK,missense_variant,p.Met297Ile,ENST00000369798,;TTK,downstream_gene_variant,,ENST00000511260,;TTK,downstream_gene_variant,,ENST00000502580,;TTK,downstream_gene_variant,,ENST00000504040,;TTK,upstream_gene_variant,,ENST00000515751,;TTK,downstream_gene_variant,,ENST00000430061,;TTK,downstream_gene_variant,,ENST00000509313,;	C	ENSG00000112742	ENST00000369798	Transcript	missense_variant	1002	891	297	M/I	atG/atC	.	.	.	1	TTK	HGNC	12401	protein_coding	YES	CCDS4993.1	ENSP00000358813	TTK_HUMAN	D6RIC6_HUMAN,D6RF82_HUMAN,D6REX1_HUMAN	UPI0000073C7B	.	tolerated(0.3)	benign(0)	8/22	.	hmmpanther:PTHR22974:SF21,hmmpanther:PTHR22974	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTATGAAAAG	.	2	BLCA
MDN1	0	.	GRCh37	6	90368487	90368487	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14863G>C	p.Glu4955Gln	p.E4955Q	ENST00000369393	89/102	277	245	31	223	223	0	MDN1,missense_variant,p.Glu4955Gln,ENST00000369393,;MDN1,missense_variant,p.Glu4955Gln,ENST00000428876,;	G	ENSG00000112159	ENST00000369393	Transcript	missense_variant	14979	14863	4955	E/Q	Gag/Cag	.	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	unknown(0)	89/102	.	hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTTCCC	.	4	BLCA
MDN1	0	.	GRCh37	6	90371850	90371850	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14521G>A	p.Asp4841Asn	p.D4841N	ENST00000369393	87/102	144	130	13	109	109	0	MDN1,missense_variant,p.Asp4841Asn,ENST00000369393,;MDN1,missense_variant,p.Asp4841Asn,ENST00000428876,;	T	ENSG00000112159	ENST00000369393	Transcript	missense_variant	14637	14521	4841	D/N	Gat/Aat	.	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	possibly_damaging(0.649)	87/102	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCATCATCAG	.	3	BLCA
MDN1	0	.	GRCh37	6	90432698	90432698	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5943G>A	p.Met1981Ile	p.M1981I	ENST00000369393	40/102	232	204	28	225	225	0	MDN1,missense_variant,p.Met1981Ile,ENST00000369393,;MDN1,missense_variant,p.Met1981Ile,ENST00000428876,;	T	ENSG00000112159	ENST00000369393	Transcript	missense_variant	6059	5943	1981	M/I	atG/atA	.	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	probably_damaging(0.942)	40/102	.	hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCTCATTCT	.	4	BLCA
MDN1	0	.	GRCh37	6	90432853	90432853	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5788G>A	p.Glu1930Lys	p.E1930K	ENST00000369393	40/102	183	159	24	166	166	0	MDN1,missense_variant,p.Glu1930Lys,ENST00000369393,;MDN1,missense_variant,p.Glu1930Lys,ENST00000428876,;	T	ENSG00000112159	ENST00000369393	Transcript	missense_variant	5904	5788	1930	E/K	Gaa/Aaa	.	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	benign(0.055)	40/102	.	hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCATGAT	.	4	BLCA
EPHA7	0	.	GRCh37	6	93969199	93969199	+	Splice_Site	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1799-2A>T	.	p.X600_splice	ENST00000369303	.	97	80	16	103	103	0	EPHA7,splice_acceptor_variant,,ENST00000369303,;	A	ENSG00000135333	ENST00000369303	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	EPHA7	HGNC	3390	protein_coding	YES	CCDS5031.1	ENSP00000358309	EPHA7_HUMAN	.	UPI0000044771	.	.	.	.	9/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAACTGTAAT	.	5	BLCA
UFL1	0	.	GRCh37	6	97001173	97001173	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2179C>T	p.Leu727Phe	p.L727F	ENST00000369278	19/19	65	53	12	54	54	0	UFL1,missense_variant,p.Leu727Phe,ENST00000369278,;	T	ENSG00000014123	ENST00000369278	Transcript	missense_variant	2245	2179	727	L/F	Ctt/Ttt	.	.	.	1	UFL1	HGNC	23039	protein_coding	YES	CCDS5034.1	ENSP00000358283	UFL1_HUMAN	B7ZAY8_HUMAN	UPI0000072D61	.	tolerated(0.07)	benign(0.202)	19/19	.	hmmpanther:PTHR31057,hmmpanther:PTHR31057:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCTTTTG	.	5	BLCA
USP45	0	.	GRCh37	6	99936646	99936646	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529G>A	p.Glu177Lys	p.E177K	ENST00000327681	6/18	110	98	12	81	81	0	USP45,missense_variant,p.Glu177Lys,ENST00000369233,;USP45,missense_variant,p.Glu177Lys,ENST00000500704,;USP45,missense_variant,p.Glu177Lys,ENST00000327681,;USP45,missense_variant,p.Glu177Lys,ENST00000472914,;USP45,missense_variant,p.Glu177Lys,ENST00000329966,;USP45,5_prime_UTR_variant,,ENST00000392738,;USP45,missense_variant,p.Glu177Lys,ENST00000506871,;USP45,missense_variant,p.Glu21Lys,ENST00000507717,;USP45,missense_variant,p.Glu144Lys,ENST00000496518,;	T	ENSG00000123552	ENST00000327681	Transcript	missense_variant	1062	529	177	E/K	Gaa/Aaa	COSM1082829	.	.	-1	USP45	HGNC	20080	protein_coding	YES	CCDS34501.1	ENSP00000333376	UBP45_HUMAN	F5H1L5_HUMAN,D6RE98_HUMAN	UPI0000253B80	.	tolerated(0.33)	benign(0.02)	6/18	.	hmmpanther:PTHR24006:SF346,hmmpanther:PTHR24006	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTCATCTG	.	4	BLCA
PPP1R35	0	.	GRCh37	7	100033921	100033921	+	Missense_Mutation	SNP	G	G	T	rs377765261	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.77C>A	p.Pro26Gln	p.P26Q	ENST00000292330	1/4	16	13	3	13	13	0	PPP1R35,missense_variant,p.Pro26Gln,ENST00000292330,;MEPCE,downstream_gene_variant,,ENST00000414441,;MEPCE,downstream_gene_variant,,ENST00000310512,;RP11-758P17.3,non_coding_transcript_exon_variant,,ENST00000475250,;RP11-758P17.2,intron_variant,,ENST00000492523,;PPP1R35,upstream_gene_variant,,ENST00000476185,;PPP1R35,non_coding_transcript_exon_variant,,ENST00000487452,;PPP1R35,non_coding_transcript_exon_variant,,ENST00000491407,;MEPCE,downstream_gene_variant,,ENST00000497759,;PPP1R35,upstream_gene_variant,,ENST00000470295,;MEPCE,downstream_gene_variant,,ENST00000479201,;	T	ENSG00000160813	ENST00000292330	Transcript	missense_variant	268	77	26	P/Q	cCg/cAg	rs377765261	.	.	-1	PPP1R35	HGNC	28320	protein_coding	YES	CCDS5694.1	ENSP00000292330	PPR35_HUMAN	.	UPI000006D9DB	.	deleterious(0.03)	probably_damaging(0.999)	1/4	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	A:0.0003	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GCTCCGGGGGT	.	2	BLCA
EPO	0	.	GRCh37	7	100319611	100319611	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>C	p.Leu62Phe	p.L62F	ENST00000252723	3/5	87	72	15	87	87	0	EPO,missense_variant,p.Leu62Phe,ENST00000252723,;	C	ENSG00000130427	ENST00000252723	Transcript	missense_variant	367	186	62	L/F	ttG/ttC	.	.	.	1	EPO	HGNC	3415	protein_coding	YES	CCDS5705.1	ENSP00000252723	EPO_HUMAN	U3MHQ9_HUMAN,G9JKG7_HUMAN,B7ZKK5_HUMAN	UPI0000033477	.	tolerated(0.41)	benign(0.053)	3/5	.	hmmpanther:PTHR10370,Pfam_domain:PF00758,Gene3D:1.20.1250.10,PIRSF_domain:PIRSF001951,Superfamily_domains:SSF47266,Prints_domain:PR00272	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTGAATGA	.	5	BLCA
PRKRIP1	0	.	GRCh37	7	102016305	102016305	+	5'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-638C>G	.	.	ENST00000496391	3/10	146	125	21	123	123	0	PRKRIP1,5_prime_UTR_variant,,ENST00000496391,;PRKRIP1,upstream_gene_variant,,ENST00000462601,;RP11-163E9.2,non_coding_transcript_exon_variant,,ENST00000484974,;PRKRIP1,non_coding_transcript_exon_variant,,ENST00000469763,;RP11-163E9.2,non_coding_transcript_exon_variant,,ENST00000492837,;PRKRIP1,non_coding_transcript_exon_variant,,ENST00000477886,;PRKRIP1,non_coding_transcript_exon_variant,,ENST00000482465,;PRKRIP1,non_coding_transcript_exon_variant,,ENST00000482549,;RP11-163E9.2,non_coding_transcript_exon_variant,,ENST00000476426,;RP11-163E9.1,downstream_gene_variant,,ENST00000426478,;	G	ENSG00000128563	ENST00000496391	Transcript	5_prime_UTR_variant	673	.	.	.	.	.	.	.	1	PRKRIP1	HGNC	21894	protein_coding	YES	CCDS34714.1	ENSP00000419270	PKRI1_HUMAN	.	UPI000003587A	.	.	.	3/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTCACCCA	.	4	BLCA
ATXN7L1	0	.	GRCh37	7	105516981	105516981	+	Missense_Mutation	SNP	G	G	C	rs765746186	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24C>G	p.Ile8Met	p.I8M	ENST00000419735	1/12	79	70	9	56	56	0	ATXN7L1,missense_variant,p.Ile8Met,ENST00000318724,;ATXN7L1,missense_variant,p.Ile8Met,ENST00000419735,;ATXN7L1,upstream_gene_variant,,ENST00000478915,;ATXN7L1,non_coding_transcript_exon_variant,,ENST00000464874,;CDHR3,upstream_gene_variant,,ENST00000487084,;CDHR3,upstream_gene_variant,,ENST00000470188,;CDHR3,upstream_gene_variant,,ENST00000474330,;ATXN7L1,non_coding_transcript_exon_variant,,ENST00000481880,;CDHR3,upstream_gene_variant,,ENST00000488386,;	C	ENSG00000146776	ENST00000419735	Transcript	missense_variant	70	24	8	I/M	atC/atG	rs765746186	.	.	-1	ATXN7L1	HGNC	22210	protein_coding	YES	CCDS47682.1	ENSP00000410759	AT7L1_HUMAN	F8WDE7_HUMAN	UPI000162C85E	.	deleterious_low_confidence(0)	probably_damaging(0.923)	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CACGGGATTCG	.	3	BLCA
COG5	0	.	GRCh37	7	106871097	106871097	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2224G>A	p.Asp742Asn	p.D742N	ENST00000297135	19/22	186	164	22	142	142	0	COG5,missense_variant,p.Asp721Asn,ENST00000347053,;COG5,missense_variant,p.Asp742Asn,ENST00000393603,;COG5,missense_variant,p.Asp742Asn,ENST00000297135,;COG5,non_coding_transcript_exon_variant,,ENST00000464542,;	T	ENSG00000164597	ENST00000297135	Transcript	missense_variant	2749	2224	742	D/N	Gat/Aat	.	.	.	-1	COG5	HGNC	14857	protein_coding	YES	CCDS5742.1	ENSP00000297135	COG5_HUMAN	U3KQU7_HUMAN,B3KMW0_HUMAN	UPI0000246D05	.	deleterious(0.03)	benign(0.105)	19/22	.	hmmpanther:PTHR13228:SF3,hmmpanther:PTHR13228	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAATCAGATA	.	4	BLCA
GPR22	0	.	GRCh37	7	107115790	107115790	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1285C>T	p.Gln429Ter	p.Q429*	ENST00000304402	3/3	52	40	12	44	44	0	GPR22,stop_gained,p.Gln429Ter,ENST00000304402,;COG5,intron_variant,,ENST00000347053,;COG5,intron_variant,,ENST00000393603,;COG5,intron_variant,,ENST00000297135,;COG5,intron_variant,,ENST00000475638,;COG5,intron_variant,,ENST00000484237,;GPR22,downstream_gene_variant,,ENST00000473300,;GPR22,downstream_gene_variant,,ENST00000496754,;	T	ENSG00000172209	ENST00000304402	Transcript	stop_gained	2628	1285	429	Q/*	Cag/Tag	.	.	.	1	GPR22	HGNC	4477	protein_coding	YES	CCDS5744.1	ENSP00000302676	GPR22_HUMAN	Q59G39_HUMAN,A4D0R8_HUMAN	UPI000013E975	.	.	.	3/3	.	hmmpanther:PTHR24241:SF1,hmmpanther:PTHR24241	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCAGGTT	.	5	BLCA
LAMB4	0	.	GRCh37	7	107749663	107749663	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.355G>C	p.Asp119His	p.D119H	ENST00000388781	5/34	84	79	5	95	95	0	LAMB4,missense_variant,p.Asp119His,ENST00000388781,;LAMB4,missense_variant,p.Asp119His,ENST00000414450,;LAMB4,missense_variant,p.Asp119His,ENST00000418464,;LAMB4,missense_variant,p.Asp119His,ENST00000388780,;LAMB4,missense_variant,p.Asp119His,ENST00000205386,;LAMB4,non_coding_transcript_exon_variant,,ENST00000475469,;	G	ENSG00000091128	ENST00000388781	Transcript	missense_variant	439	355	119	D/H	Gac/Cac	.	.	.	-1	LAMB4	HGNC	6491	protein_coding	YES	CCDS34732.1	ENSP00000373433	LAMB4_HUMAN	C9JM08_HUMAN	UPI0000198CD5	.	deleterious(0)	probably_damaging(0.999)	5/34	.	PROSITE_profiles:PS51117,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF256,Pfam_domain:PF00055,SMART_domains:SM00136	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAGTCCAGTC	.	2	BLCA
GPR85	0	.	GRCh37	7	112724459	112724459	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318C>G	p.Phe106Leu	p.F106L	ENST00000297146	3/3	84	70	14	75	75	0	GPR85,missense_variant,p.Phe106Leu,ENST00000297146,;GPR85,missense_variant,p.Phe106Leu,ENST00000449735,;GPR85,missense_variant,p.Phe106Leu,ENST00000501255,;GPR85,missense_variant,p.Phe106Leu,ENST00000424100,;GPR85,missense_variant,p.Phe106Leu,ENST00000449591,;GPR85,downstream_gene_variant,,ENST00000438062,;GPR85,downstream_gene_variant,,ENST00000487573,;GPR85,missense_variant,p.Phe106Leu,ENST00000610164,;	C	ENSG00000164604	ENST00000297146	Transcript	missense_variant	922	318	106	F/L	ttC/ttG	COSM234760	.	.	-1	GPR85	HGNC	4536	protein_coding	YES	CCDS5758.1	ENSP00000297146	GPR85_HUMAN	C9JDK8_HUMAN,C9JBQ9_HUMAN,A4D0T8_HUMAN	UPI0000004048	.	deleterious(0)	benign(0.42)	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR19268,hmmpanther:PTHR19268:SF7,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTGGAAACA	.	5	BLCA
FOXP2	0	.	GRCh37	7	114268607	114268607	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346G>A	p.Val116Met	p.V116M	ENST00000408937	5/18	136	117	19	119	119	0	FOXP2,missense_variant,p.Val91Met,ENST00000452963,;FOXP2,missense_variant,p.Val91Met,ENST00000378237,;FOXP2,missense_variant,p.Val91Met,ENST00000393498,;FOXP2,missense_variant,p.Val91Met,ENST00000403559,;FOXP2,missense_variant,p.Val91Met,ENST00000360232,;FOXP2,missense_variant,p.Val116Met,ENST00000408937,;FOXP2,missense_variant,p.Val115Met,ENST00000390668,;FOXP2,missense_variant,p.Val91Met,ENST00000350908,;FOXP2,missense_variant,p.Val91Met,ENST00000393494,;FOXP2,5_prime_UTR_variant,,ENST00000393500,;FOXP2,5_prime_UTR_variant,,ENST00000393489,;FOXP2,intron_variant,,ENST00000393495,;FOXP2,upstream_gene_variant,,ENST00000393491,;AC020606.1,upstream_gene_variant,,ENST00000580664,;FOXP2,non_coding_transcript_exon_variant,,ENST00000459666,;FOXP2,3_prime_UTR_variant,,ENST00000440349,;FOXP2,3_prime_UTR_variant,,ENST00000441290,;FOXP2,3_prime_UTR_variant,,ENST00000412402,;	A	ENSG00000128573	ENST00000408937	Transcript	missense_variant	720	346	116	V/M	Gtg/Atg	.	.	.	1	FOXP2	HGNC	13875	protein_coding	YES	CCDS43635.1	ENSP00000386200	FOXP2_HUMAN	.	UPI000007412B	.	tolerated(0.16)	probably_damaging(0.961)	5/18	.	hmmpanther:PTHR25042:SF12,hmmpanther:PTHR25042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCAGTGGCC	.	4	BLCA
FOXP2	0	.	GRCh37	7	114329859	114329859	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2101G>A	p.Glu701Lys	p.E701K	ENST00000408937	18/18	76	65	10	72	72	0	FOXP2,missense_variant,p.Glu584Lys,ENST00000393489,;FOXP2,missense_variant,p.Glu701Lys,ENST00000408937,;FOXP2,missense_variant,p.Glu655Lys,ENST00000393498,;FOXP2,missense_variant,p.Glu693Lys,ENST00000403559,;FOXP2,missense_variant,p.Glu491Lys,ENST00000393491,;FOXP2,missense_variant,p.Glu676Lys,ENST00000393494,;FOXP2,missense_variant,p.Glu676Lys,ENST00000350908,;FOXP2,3_prime_UTR_variant,,ENST00000412402,;	A	ENSG00000128573	ENST00000408937	Transcript	missense_variant	2475	2101	701	E/K	Gag/Aag	.	.	.	1	FOXP2	HGNC	13875	protein_coding	YES	CCDS43635.1	ENSP00000386200	FOXP2_HUMAN	.	UPI000007412B	.	deleterious(0.02)	benign(0.007)	18/18	.	hmmpanther:PTHR25042:SF12,hmmpanther:PTHR25042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAGCCA	.	4	BLCA
CFTR	0	.	GRCh37	7	117235110	117235110	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2617G>C	p.Glu873Gln	p.E873Q	ENST00000003084	15/27	47	40	7	47	47	0	CFTR,missense_variant,p.Glu843Gln,ENST00000426809,;CFTR,missense_variant,p.Glu812Gln,ENST00000454343,;CFTR,missense_variant,p.Glu873Gln,ENST00000003084,;	C	ENSG00000001626	ENST00000003084	Transcript	missense_variant	2749	2617	873	E/Q	Gag/Cag	.	.	.	1	CFTR	HGNC	1884	protein_coding	YES	CCDS5773.1	ENSP00000003084	CFTR_HUMAN	Q9UML7_HUMAN,Q9UJ19_HUMAN,Q99989_HUMAN,Q6KEJ7_HUMAN,Q6KEJ4_HUMAN,Q6KEJ1_HUMAN,Q6KEI8_HUMAN,Q6KEI7_HUMAN,Q6KEI2_HUMAN,Q6KEH8_HUMAN,Q6KEH6_HUMAN,Q6KEH3_HUMAN,Q6KEG9_HUMAN,Q6KEG6_HUMAN,Q6KEG3_HUMAN,Q6KEF9_HUMAN,Q6KEF5_HUMAN,Q6KEE7_HUMAN,Q6KEE3_HUMAN,Q6KED8_HUMAN,Q6KED3_HUMAN,Q6KEC8_HUMAN,Q6KEC3_HUMAN,Q6KEB8_HUMAN,Q6KEB2_HUMAN,Q6KEA5_HUMAN,Q6KEA0_HUMAN,Q6KE95_HUMAN,Q5I6N7_HUMAN,Q5I6N6_HUMAN,Q5I6N5_HUMAN,Q5I6N4_HUMAN,Q5I6F9_HUMAN,C9J6L5_HUMAN,A4L9V0_HUMAN	UPI000013C4D4	.	tolerated(0.21)	benign(0.021)	15/27	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50929,hmmpanther:PTHR24223:SF19,hmmpanther:PTHR24223,Pfam_domain:PF00664,TIGRFAM_domain:TIGR01271,Gene3D:2hydA01,Superfamily_domains:SSF90123	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGAGGTA	.	5	BLCA
CFTR	0	.	GRCh37	7	117282514	117282514	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3740G>C	p.Gly1247Ala	p.G1247A	ENST00000003084	23/27	86	79	7	74	74	0	CFTR,missense_variant,p.Gly1217Ala,ENST00000426809,;CFTR,missense_variant,p.Gly1186Ala,ENST00000454343,;CFTR,missense_variant,p.Gly1247Ala,ENST00000003084,;AC000111.6,intron_variant,,ENST00000456270,;	C	ENSG00000001626	ENST00000003084	Transcript	missense_variant	3872	3740	1247	G/A	gGa/gCa	.	.	.	1	CFTR	HGNC	1884	protein_coding	YES	CCDS5773.1	ENSP00000003084	CFTR_HUMAN	Q9UML7_HUMAN,Q9UJ19_HUMAN,Q99989_HUMAN,Q6KEJ7_HUMAN,Q6KEJ4_HUMAN,Q6KEJ1_HUMAN,Q6KEI8_HUMAN,Q6KEI7_HUMAN,Q6KEI2_HUMAN,Q6KEH8_HUMAN,Q6KEH6_HUMAN,Q6KEH3_HUMAN,Q6KEG9_HUMAN,Q6KEG6_HUMAN,Q6KEG3_HUMAN,Q6KEF9_HUMAN,Q6KEF5_HUMAN,Q6KEE7_HUMAN,Q6KEE3_HUMAN,Q6KED8_HUMAN,Q6KED3_HUMAN,Q6KEC8_HUMAN,Q6KEC3_HUMAN,Q6KEB8_HUMAN,Q6KEB2_HUMAN,Q6KEA5_HUMAN,Q6KEA0_HUMAN,Q6KE95_HUMAN,Q5I6N7_HUMAN,Q5I6N6_HUMAN,Q5I6N5_HUMAN,Q5I6N4_HUMAN,Q5I6F9_HUMAN,C9J6L5_HUMAN,A4L9V0_HUMAN	UPI000013C4D4	.	deleterious(0)	benign(0.205)	23/27	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24223:SF19,hmmpanther:PTHR24223,Gene3D:3.40.50.300,Pfam_domain:PF00005,TIGRFAM_domain:TIGR01271,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AACTGGATCAG	.	3	BLCA
AASS	0	.	GRCh37	7	121733143	121733143	+	Silent	SNP	A	A	C	rs749996209	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1725T>G	p.%3D	p.T575T	ENST00000393376	15/23	109	92	17	96	96	0	AASS,synonymous_variant,p.%3D,ENST00000417368,;AASS,synonymous_variant,p.%3D,ENST00000393376,;AASS,non_coding_transcript_exon_variant,,ENST00000473553,;AASS,synonymous_variant,p.%3D,ENST00000358954,;AASS,3_prime_UTR_variant,,ENST00000431170,;	C	ENSG00000008311	ENST00000393376	Transcript	synonymous_variant	1821	1725	575	T	acT/acG	rs749996209	.	.	-1	AASS	HGNC	17366	protein_coding	YES	CCDS5783.1	ENSP00000377040	AASS_HUMAN	A4D0W4_HUMAN	UPI000004A105	.	.	.	15/23	.	hmmpanther:PTHR11133:SF11,hmmpanther:PTHR11133,Gene3D:3.40.50.720,Pfam_domain:PF03435,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGCAGTGAC	.	5	BLCA
FEZF1	0	.	GRCh37	7	121943864	121943864	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628G>C	p.Glu210Gln	p.E210Q	ENST00000442488	1/4	85	71	14	74	74	0	FEZF1,missense_variant,p.Glu160Gln,ENST00000427185,;FEZF1,missense_variant,p.Glu210Gln,ENST00000442488,;FEZF1,missense_variant,p.Glu210Gln,ENST00000331178,;FEZF1,downstream_gene_variant,,ENST00000418046,;FEZF1-AS1,non_coding_transcript_exon_variant,,ENST00000428449,;FEZF1-AS1,upstream_gene_variant,,ENST00000424404,;FEZF1-AS1,upstream_gene_variant,,ENST00000437317,;	G	ENSG00000128610	ENST00000442488	Transcript	missense_variant	696	628	210	E/Q	Gag/Cag	.	.	.	-1	FEZF1	HGNC	22788	protein_coding	YES	CCDS34741.2	ENSP00000411145	FEZF1_HUMAN	C9J0C5_HUMAN	UPI00004193D6	.	deleterious(0.02)	possibly_damaging(0.494)	1/4	.	hmmpanther:PTHR23228:SF124,hmmpanther:PTHR23228	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCCACCG	.	5	BLCA
POT1	0	.	GRCh37	7	124491967	124491967	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.908C>T	p.Ser303Leu	p.S303L	ENST00000357628	11/19	61	50	10	58	58	0	POT1,missense_variant,p.Ser172Leu,ENST00000393329,;POT1,missense_variant,p.Ser303Leu,ENST00000357628,;POT1,missense_variant,p.Ser101Leu,ENST00000610141,;POT1,missense_variant,p.Ser303Leu,ENST00000607932,;POT1,missense_variant,p.Ser303Leu,ENST00000609106,;POT1,missense_variant,p.Ser303Leu,ENST00000608057,;POT1,downstream_gene_variant,,ENST00000608126,;	A	ENSG00000128513	ENST00000357628	Transcript	missense_variant	1507	908	303	S/L	tCa/tTa	.	.	.	-1	POT1	HGNC	17284	protein_coding	YES	CCDS5793.1	ENSP00000350249	POTE1_HUMAN	C9JPG9_HUMAN,A8MTK3_HUMAN	UPI0000073E3F	.	tolerated(0.38)	benign(0)	11/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14513:SF2,hmmpanther:PTHR14513	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTGAATGC	.	5	BLCA
POT1	0	.	GRCh37	7	124532351	124532351	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93C>G	p.Phe31Leu	p.F31L	ENST00000357628	6/19	265	213	51	206	206	0	POT1,missense_variant,p.Phe31Leu,ENST00000446993,;POT1,missense_variant,p.Phe31Leu,ENST00000357628,;POT1,missense_variant,p.Phe31Leu,ENST00000609702,;POT1,5_prime_UTR_variant,,ENST00000393329,;POT1,non_coding_transcript_exon_variant,,ENST00000608261,;POT1,downstream_gene_variant,,ENST00000608437,;POT1,missense_variant,p.Phe31Leu,ENST00000607932,;POT1,missense_variant,p.Phe31Leu,ENST00000429326,;POT1,missense_variant,p.Phe31Leu,ENST00000609106,;POT1,missense_variant,p.Phe31Leu,ENST00000608057,;	C	ENSG00000128513	ENST00000357628	Transcript	missense_variant	692	93	31	F/L	ttC/ttG	.	.	.	-1	POT1	HGNC	17284	protein_coding	YES	CCDS5793.1	ENSP00000350249	POTE1_HUMAN	C9JPG9_HUMAN,A8MTK3_HUMAN	UPI0000073E3F	.	deleterious(0)	probably_damaging(0.94)	6/19	.	hmmpanther:PTHR14513:SF2,hmmpanther:PTHR14513,Pfam_domain:PF02765,Gene3D:2.40.50.140,SMART_domains:SM00976,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTAAAGAACTT	.	5	BLCA
CCDC136	0	.	GRCh37	7	128457906	128457906	+	Missense_Mutation	SNP	C	C	T	rs765486541	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3458C>T	p.Ser1153Leu	p.S1153L	ENST00000297788	17/18	179	172	7	130	130	0	CCDC136,missense_variant,p.Ser1153Leu,ENST00000297788,;CCDC136,missense_variant,p.Ser445Leu,ENST00000464832,;CCDC136,missense_variant,p.Ser514Leu,ENST00000487361,;CCDC136,missense_variant,p.Ser433Leu,ENST00000378685,;CCDC136,intron_variant,,ENST00000494552,;CCDC136,intron_variant,,ENST00000464672,;CCDC136,intron_variant,,ENST00000471729,;CCDC136,non_coding_transcript_exon_variant,,ENST00000528772,;CCDC136,intron_variant,,ENST00000480137,;	T	ENSG00000128596	ENST00000297788	Transcript	missense_variant	3825	3458	1153	S/L	tCg/tTg	rs765486541	.	.	1	CCDC136	HGNC	22225	protein_coding	YES	CCDS47704.1	ENSP00000297788	CC136_HUMAN	C9JAD8_HUMAN,C9J884_HUMAN,C9IYI5_HUMAN	UPI0000E445DE	.	deleterious(0)	benign(0.371)	17/18	.	hmmpanther:PTHR18889:SF9,hmmpanther:PTHR18889	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACGTCGTCCT	.	2	BLCA
TMEM140	0	.	GRCh37	7	134849592	134849592	+	Silent	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>A	p.%3D	p.L133L	ENST00000275767	2/2	48	40	8	34	34	0	TMEM140,synonymous_variant,p.%3D,ENST00000275767,;C7orf49,downstream_gene_variant,,ENST00000424142,;C7orf49,downstream_gene_variant,,ENST00000430372,;C7orf49,downstream_gene_variant,,ENST00000393114,;C7orf49,downstream_gene_variant,,ENST00000483029,;RP11-134L10.1,upstream_gene_variant,,ENST00000608819,;C7orf49,intron_variant,,ENST00000459937,;C7orf49,downstream_gene_variant,,ENST00000477820,;C7orf49,downstream_gene_variant,,ENST00000472428,;C7orf49,downstream_gene_variant,,ENST00000488161,;C7orf49,downstream_gene_variant,,ENST00000487774,;C7orf49,downstream_gene_variant,,ENST00000486115,;C7orf49,downstream_gene_variant,,ENST00000481410,;	A	ENSG00000146859	ENST00000275767	Transcript	synonymous_variant	622	399	133	L	ctC/ctA	.	.	.	1	TMEM140	HGNC	21870	protein_coding	YES	CCDS5837.1	ENSP00000275767	TM140_HUMAN	.	UPI000045760C	.	.	.	2/2	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Pfam_domain:PF14985,hmmpanther:PTHR16103:SF0,hmmpanther:PTHR16103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTTCCT	.	5	BLCA
ATP6V0A4	0	.	GRCh37	7	138417679	138417679	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1851C>G	p.Ile617Met	p.I617M	ENST00000310018	17/22	46	36	9	26	26	0	ATP6V0A4,missense_variant,p.Ile617Met,ENST00000310018,;ATP6V0A4,missense_variant,p.Ile617Met,ENST00000393054,;ATP6V0A4,missense_variant,p.Ile617Met,ENST00000353492,;ATP6V0A4,downstream_gene_variant,,ENST00000471085,;	C	ENSG00000105929	ENST00000310018	Transcript	missense_variant	2134	1851	617	I/M	atC/atG	.	.	.	-1	ATP6V0A4	HGNC	866	protein_coding	YES	CCDS5849.1	ENSP00000308122	VPP4_HUMAN	.	UPI000013CDFD	.	deleterious(0)	probably_damaging(1)	17/22	.	hmmpanther:PTHR11629,hmmpanther:PTHR11629:SF26,Pfam_domain:PF01496,PIRSF_domain:PIRSF001293	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTGATGAA	.	5	BLCA
CLEC5A	0	.	GRCh37	7	141629960	141629960	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.511G>C	p.Asp171His	p.D171H	ENST00000546910	7/7	155	131	24	115	115	0	CLEC5A,missense_variant,p.Asp171His,ENST00000546910,;CLEC5A,missense_variant,p.Asp67His,ENST00000439991,;CLEC5A,missense_variant,p.Asp148His,ENST00000551012,;MGAM,intron_variant,,ENST00000465654,;CLEC5A,downstream_gene_variant,,ENST00000438351,;MGAM,intron_variant,,ENST00000497554,;CLEC5A,downstream_gene_variant,,ENST00000470595,;CLEC5A,3_prime_UTR_variant,,ENST00000418498,;CLEC5A,downstream_gene_variant,,ENST00000481301,;	G	ENSG00000258227	ENST00000546910	Transcript	missense_variant	708	511	171	D/H	Gat/Cat	.	.	.	-1	CLEC5A	HGNC	2054	protein_coding	YES	CCDS5870.1	ENSP00000449999	CLC5A_HUMAN	A4D1U7_HUMAN	UPI0000071CCD	.	deleterious(0)	probably_damaging(1)	7/7	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22800:SF150,hmmpanther:PTHR22800,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATCAAATG	.	4	BLCA
TRBV6-8	0	.	GRCh37	7	142124314	142124314	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164G>A	p.Arg55Gln	p.R55Q	ENST00000390376	2/2	174	146	28	152	152	0	TRBV6-8,missense_variant,p.Arg55Gln,ENST00000390376,;TRBV7-7,upstream_gene_variant,,ENST00000390377,;	T	ENSG00000253534	ENST00000390376	Transcript	missense_variant	164	164	55	R/Q	cGa/cAa	.	.	.	-1	TRBV6-8	HGNC	12233	TR_V_gene	YES	.	ENSP00000374899	.	.	UPI0001AE7154	.	tolerated(0.09)	possibly_damaging(0.463)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23268,hmmpanther:PTHR23268:SF18,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGTCGATAC	.	4	BLCA
TRBV5-6	0	.	GRCh37	7	142131863	142131863	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15C>T	p.%3D	p.L5L	ENST00000390375	1/2	74	66	8	75	75	0	TRBV5-6,synonymous_variant,p.%3D,ENST00000390375,;	A	ENSG00000211728	ENST00000390375	Transcript	synonymous_variant	56	15	5	L	ctC/ctT	.	.	.	-1	TRBV5-6	HGNC	12223	TR_V_gene	YES	.	ENSP00000374898	.	A0A599_HUMAN	UPI00001140EA	.	.	.	1/2	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23268:SF21,hmmpanther:PTHR23268,Gene3D:2.60.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGAGGAGCCC	.	4	BLCA
EPHB6	0	.	GRCh37	7	142562295	142562295	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737A>T	p.Gln246Leu	p.Q246L	ENST00000392957	7/20	141	119	22	118	118	0	EPHB6,missense_variant,p.Gln246Leu,ENST00000442129,;EPHB6,missense_variant,p.Gln246Leu,ENST00000392957,;EPHB6,intron_variant,,ENST00000411471,;EPHB6,downstream_gene_variant,,ENST00000497095,;EPHB6,missense_variant,p.Arg157Trp,ENST00000422643,;EPHB6,3_prime_UTR_variant,,ENST00000425995,;EPHB6,non_coding_transcript_exon_variant,,ENST00000466783,;EPHB6,upstream_gene_variant,,ENST00000486511,;	T	ENSG00000106123	ENST00000392957	Transcript	missense_variant	1524	737	246	Q/L	cAg/cTg	.	.	.	1	EPHB6	HGNC	3396	protein_coding	YES	CCDS5873.2	ENSP00000376684	EPHB6_HUMAN	.	UPI00006635A8	.	tolerated(0.18)	probably_damaging(0.978)	7/20	.	hmmpanther:PTHR24416:SF300,hmmpanther:PTHR24416,PIRSF_domain:PIRSF000666	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGCAGGCCA	.	5	BLCA
EPHA1	0	.	GRCh37	7	143098438	143098438	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411C>G	p.%3D	p.L137L	ENST00000275815	3/18	131	103	27	113	113	0	EPHA1,synonymous_variant,p.%3D,ENST00000275815,;EPHA1,non_coding_transcript_exon_variant,,ENST00000488068,;EPHA1,non_coding_transcript_exon_variant,,ENST00000497891,;EPHA1,upstream_gene_variant,,ENST00000479459,;EPHA1,upstream_gene_variant,,ENST00000494989,;	C	ENSG00000146904	ENST00000275815	Transcript	synonymous_variant	498	411	137	L	ctC/ctG	.	.	.	-1	EPHA1	HGNC	3385	protein_coding	YES	CCDS5884.1	ENSP00000275815	EPHA1_HUMAN	.	UPI000013DA82	.	.	.	3/18	.	Superfamily_domains:SSF49785,SMART_domains:SM00615,PIRSF_domain:PIRSF000666,Pfam_domain:PF01404,Gene3D:2.60.120.260,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF28,PROSITE_profiles:PS51550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTCGGAGCTG	.	5	BLCA
CUL1	0	.	GRCh37	7	148483671	148483671	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327G>A	p.Glu443Lys	p.E443K	ENST00000325222	12/22	86	67	19	60	60	0	CUL1,missense_variant,p.Glu443Lys,ENST00000602748,;CUL1,missense_variant,p.Glu443Lys,ENST00000325222,;CUL1,missense_variant,p.Glu443Lys,ENST00000409469,;	A	ENSG00000055130	ENST00000325222	Transcript	missense_variant	1606	1327	443	E/K	Gaa/Aaa	.	.	.	1	CUL1	HGNC	2551	protein_coding	YES	CCDS34772.1	ENSP00000326804	CUL1_HUMAN	Q75MQ1_HUMAN,B3KU45_HUMAN,B3KTW0_HUMAN	UPI00001286E6	.	deleterious(0)	probably_damaging(0.982)	12/22	.	PROSITE_profiles:PS50069,hmmpanther:PTHR11932,hmmpanther:PTHR11932:SF19,Gene3D:1.20.1310.10,Pfam_domain:PF00888,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTAGAAGAC	.	5	BLCA
ZNF398	0	.	GRCh37	7	148863325	148863325	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.496G>C	p.Glu166Gln	p.E166Q	ENST00000475153	3/6	96	77	19	57	56	0	ZNF398,missense_variant,p.Glu166Gln,ENST00000475153,;ZNF398,missense_variant,p.Glu171Gln,ENST00000540950,;ZNF398,5_prime_UTR_variant,,ENST00000335901,;ZNF398,5_prime_UTR_variant,,ENST00000483892,;ZNF398,5_prime_UTR_variant,,ENST00000426851,;ZNF398,5_prime_UTR_variant,,ENST00000420008,;ZNF398,5_prime_UTR_variant,,ENST00000491174,;ZNF398,non_coding_transcript_exon_variant,,ENST00000485111,;	C	ENSG00000197024	ENST00000475153	Transcript	missense_variant	763	496	166	E/Q	Gaa/Caa	.	.	.	1	ZNF398	HGNC	18373	protein_coding	YES	CCDS5894.1	ENSP00000420418	ZN398_HUMAN	.	UPI000000DA2F	.	deleterious(0)	probably_damaging(0.998)	3/6	.	Superfamily_domains:0044637,SMART_domains:SM00349,Pfam_domain:PF01352,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF9,PROSITE_profiles:PS50805,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAGGAACTT	.	5	BLCA
ZNF746	0	.	GRCh37	7	149172354	149172354	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1059G>A	p.%3D	p.E353E	ENST00000458143	7/7	35	31	4	28	28	0	ZNF746,synonymous_variant,p.%3D,ENST00000340622,;ZNF746,synonymous_variant,p.%3D,ENST00000458143,;ZNF746,downstream_gene_variant,,ENST00000471735,;	T	ENSG00000181220	ENST00000458143	Transcript	synonymous_variant	1330	1059	353	E	gaG/gaA	.	.	.	-1	ZNF746	HGNC	21948	protein_coding	YES	CCDS55180.1	ENSP00000395007	ZN746_HUMAN	Q96N48_HUMAN	UPI00015DA840	.	.	.	7/7	.	hmmpanther:PTHR24402:SF13,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCCTCTCAGG	.	2	BLCA
KRBA1	0	.	GRCh37	7	149431123	149431123	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3077G>A	p.Trp1026Ter	p.W1026*	ENST00000255992	18/18	27	24	3	19	19	0	KRBA1,stop_gained,p.Trp966Ter,ENST00000485033,;KRBA1,stop_gained,p.Trp966Ter,ENST00000319551,;KRBA1,stop_gained,p.Trp1026Ter,ENST00000255992,;KRBA1,non_coding_transcript_exon_variant,,ENST00000479560,;KRBA1,non_coding_transcript_exon_variant,,ENST00000466546,;KRBA1,3_prime_UTR_variant,,ENST00000496259,;KRBA1,downstream_gene_variant,,ENST00000489951,;	A	ENSG00000133619	ENST00000255992	Transcript	stop_gained	3476	3077	1026	W/*	tGg/tAg	.	.	.	1	KRBA1	HGNC	22228	protein_coding	YES	.	ENSP00000255992	.	C9J5U6_HUMAN,C4P1W5_HUMAN	UPI000049E0A4	.	.	.	18/18	.	hmmpanther:PTHR22740	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGATGGGGGG	.	2	BLCA
ZNF467	0	.	GRCh37	7	149462730	149462730	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861G>C	p.Leu287Phe	p.L287F	ENST00000302017	5/5	26	19	6	29	29	0	ZNF467,missense_variant,p.Leu287Phe,ENST00000302017,;ZNF467,intron_variant,,ENST00000484747,;	G	ENSG00000181444	ENST00000302017	Transcript	missense_variant	1275	861	287	L/F	ttG/ttC	.	.	.	-1	ZNF467	HGNC	23154	protein_coding	YES	CCDS5899.1	ENSP00000304769	ZN467_HUMAN	.	UPI0000160B41	.	deleterious(0.04)	probably_damaging(1)	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24402:SF14,hmmpanther:PTHR24402,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T285T|c.855G>A|3	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CGAATCAAGTG	.	4	BLCA
SSPO	0	.	GRCh37	7	149489151	149489151	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.5399-3C>G	.	.	ENST00000378016	.	95	84	11	75	75	0	SSPO,splice_region_variant,,ENST00000378016,;SSPO,splice_region_variant,,ENST00000262089,;SSPO,upstream_gene_variant,,ENST00000472797,;SSPO,splice_region_variant,,ENST00000475488,;	G	ENSG00000197558	ENST00000378016	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	SSPO	HGNC	21998	processed_transcript	YES	.	.	.	.	.	.	.	.	.	35/108	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCTCTCAGAGC	.	3	BLCA
ZNF862	0	.	GRCh37	7	149557965	149557965	+	Silent	SNP	G	G	A	rs374598768	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1716G>A	p.%3D	p.L572L	ENST00000223210	7/8	57	49	8	56	56	0	ZNF862,synonymous_variant,p.%3D,ENST00000223210,;RP4-751H13.7,non_coding_transcript_exon_variant,,ENST00000608963,;ZNF862,downstream_gene_variant,,ENST00000478024,;	A	ENSG00000106479	ENST00000223210	Transcript	synonymous_variant	1961	1716	572	L	ctG/ctA	rs374598768	.	.	1	ZNF862	HGNC	34519	protein_coding	YES	CCDS47741.1	ENSP00000223210	ZN862_HUMAN	C9JB70_HUMAN	UPI000016105C	.	.	.	7/8	.	hmmpanther:PTHR23232,hmmpanther:PTHR23232:SF43	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCTGAATGA	byCluster	4	BLCA
RARRES2	0	.	GRCh37	7	150037212	150037212	+	Missense_Mutation	SNP	C	C	T	rs762000378	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256G>A	p.Glu86Lys	p.E86K	ENST00000466675	2/5	682	585	96	576	574	2	RARRES2,missense_variant,p.Glu86Lys,ENST00000482669,;RARRES2,missense_variant,p.Glu86Lys,ENST00000223271,;RARRES2,missense_variant,p.Glu86Lys,ENST00000467793,;RARRES2,missense_variant,p.Glu86Lys,ENST00000466675,;LRRC61,downstream_gene_variant,,ENST00000359623,;LRRC61,downstream_gene_variant,,ENST00000323078,;LRRC61,downstream_gene_variant,,ENST00000493307,;RP4-584D14.7,upstream_gene_variant,,ENST00000563946,;RARRES2,non_coding_transcript_exon_variant,,ENST00000478771,;	T	ENSG00000106538	ENST00000466675	Transcript	missense_variant	1290	256	86	E/K	Gag/Aag	rs762000378	.	.	-1	RARRES2	HGNC	9868	protein_coding	YES	CCDS5902.1	ENSP00000418009	RARR2_HUMAN	.	UPI0000136F55	.	tolerated(0.12)	benign(0.1)	2/5	.	Superfamily_domains:SSF54403,Gene3D:3.10.450.10,hmmpanther:PTHR15106:SF2,hmmpanther:PTHR15106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GCACTCGGGTT	.	2	BLCA
KMT2C	0	.	GRCh37	7	151841937	151841937	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14204C>G	p.Ser4735Ter	p.S4735*	ENST00000262189	55/59	64	57	7	45	45	0	KMT2C,stop_gained,p.Ser4792Ter,ENST00000355193,;KMT2C,stop_gained,p.Ser1348Ter,ENST00000424877,;KMT2C,stop_gained,p.Ser2292Ter,ENST00000360104,;KMT2C,stop_gained,p.Ser4735Ter,ENST00000262189,;KMT2C,upstream_gene_variant,,ENST00000485655,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	C	ENSG00000055609	ENST00000262189	Transcript	stop_gained	14423	14204	4735	S/*	tCa/tGa	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	55/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTTTGAGGTG	.	2	BLCA
HTR5A	0	.	GRCh37	7	154875957	154875957	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.834G>A	p.%3D	p.Q278Q	ENST00000287907	2/2	67	56	11	45	45	0	HTR5A,synonymous_variant,p.%3D,ENST00000287907,;HTR5A,non_coding_transcript_exon_variant,,ENST00000486819,;	A	ENSG00000157219	ENST00000287907	Transcript	synonymous_variant	1410	834	278	Q	caG/caA	.	.	.	1	HTR5A	HGNC	5300	protein_coding	YES	CCDS5936.1	ENSP00000287907	5HT5A_HUMAN	Q86UN1_HUMAN,Q75LH0_HUMAN,A4D2N2_HUMAN	UPI000004477E	.	.	.	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24247:SF14,hmmpanther:PTHR24247,Gene3D:1.20.1070.10,Pfam_domain:PF00001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCAGAAGGA	.	5	BLCA
PTPRN2	0	.	GRCh37	7	157361643	157361643	+	Silent	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2853G>C	p.%3D	p.R951R	ENST00000389418	21/23	98	87	11	87	87	0	PTPRN2,synonymous_variant,p.%3D,ENST00000409483,;PTPRN2,synonymous_variant,p.%3D,ENST00000389416,;PTPRN2,synonymous_variant,p.%3D,ENST00000404321,;PTPRN2,synonymous_variant,p.%3D,ENST00000389418,;PTPRN2,synonymous_variant,p.%3D,ENST00000389413,;	G	ENSG00000155093	ENST00000389418	Transcript	synonymous_variant	2863	2853	951	R	cgG/cgC	COSM745701,COSM1647993	.	.	-1	PTPRN2	HGNC	9677	protein_coding	YES	CCDS5947.1	ENSP00000374069	PTPR2_HUMAN	Q9NSR5_HUMAN	UPI000002E7C7	.	.	.	21/23	.	PROSITE_profiles:PS50056,PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF2,PROSITE_patterns:PS00383,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00194,SMART_domains:SM00404,Superfamily_domains:SSF52799,Prints_domain:PR00700	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCTCCGGCC	.	4	BLCA
ESYT2	0	.	GRCh37	7	158554234	158554234	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1330C>G	p.Leu444Val	p.L444V	ENST00000251527	11/22	89	75	14	97	97	0	ESYT2,missense_variant,p.Leu444Val,ENST00000251527,;ESYT2,missense_variant,p.Leu414Val,ENST00000275418,;	C	ENSG00000117868	ENST00000251527	Transcript	missense_variant	1396	1330	444	L/V	Ctt/Gtt	.	.	.	-1	ESYT2	HGNC	22211	protein_coding	YES	CCDS34791.1	ENSP00000251527	ESYT2_HUMAN	.	UPI00002339BD	.	tolerated(0.06)	benign(0.086)	11/22	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,hmmpanther:PTHR10774,hmmpanther:PTHR10774:SF6,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATAAGACTAT	.	4	BLCA
NUPL2	0	.	GRCh37	7	23235486	23235486	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>C	p.Leu158Phe	p.L158F	ENST00000258742	4/7	89	75	13	112	112	0	NUPL2,missense_variant,p.Leu158Phe,ENST00000413919,;NUPL2,missense_variant,p.Leu158Phe,ENST00000258742,;AC005082.1,downstream_gene_variant,,ENST00000366347,;NUPL2,non_coding_transcript_exon_variant,,ENST00000487595,;NUPL2,missense_variant,p.Leu158Phe,ENST00000438012,;NUPL2,3_prime_UTR_variant,,ENST00000437140,;NUPL2,non_coding_transcript_exon_variant,,ENST00000485250,;NUPL2,non_coding_transcript_exon_variant,,ENST00000477844,;NUPL2,non_coding_transcript_exon_variant,,ENST00000486136,;NUPL2,upstream_gene_variant,,ENST00000489145,;	C	ENSG00000136243	ENST00000258742	Transcript	missense_variant	733	474	158	L/F	ttG/ttC	.	.	.	1	NUPL2	HGNC	17010	protein_coding	YES	CCDS5379.1	ENSP00000258742	NUPL2_HUMAN	.	UPI0000072A3C	.	deleterious(0)	probably_damaging(0.999)	4/7	.	hmmpanther:PTHR21495,hmmpanther:PTHR21495:SF42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTGAGGCT	.	5	BLCA
MPP6	0	.	GRCh37	7	24703280	24703280	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.723G>C	p.Leu241Phe	p.L241F	ENST00000222644	6/12	66	50	16	56	56	0	MPP6,missense_variant,p.Leu241Phe,ENST00000430180,;MPP6,missense_variant,p.Leu241Phe,ENST00000396475,;MPP6,missense_variant,p.Leu129Phe,ENST00000409761,;MPP6,missense_variant,p.Leu241Phe,ENST00000222644,;MPP6,non_coding_transcript_exon_variant,,ENST00000472674,;MPP6,upstream_gene_variant,,ENST00000464384,;	C	ENSG00000105926	ENST00000222644	Transcript	missense_variant	973	723	241	L/F	ttG/ttC	.	.	.	1	MPP6	HGNC	18167	protein_coding	YES	CCDS5388.1	ENSP00000222644	MPP6_HUMAN	C9JGI8_HUMAN,C9J4Q3_HUMAN,B8ZZG1_HUMAN	UPI0000001C1B	.	deleterious(0)	probably_damaging(0.996)	6/12	.	Superfamily_domains:SSF50044,SMART_domains:SM00326,Gene3D:2.30.30.40,Pfam_domain:PF07653,hmmpanther:PTHR23122:SF36,hmmpanther:PTHR23122,PROSITE_profiles:PS50002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTGAAGTT	.	5	BLCA
C7orf31	0	.	GRCh37	7	25200830	25200830	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361G>A	p.Asp121Asn	p.D121N	ENST00000409280	4/10	49	41	7	41	41	0	C7orf31,missense_variant,p.Asp121Asn,ENST00000409280,;C7orf31,missense_variant,p.Asp121Asn,ENST00000443822,;C7orf31,missense_variant,p.Asp121Asn,ENST00000283905,;C7orf31,downstream_gene_variant,,ENST00000415598,;	T	ENSG00000153790	ENST00000409280	Transcript	missense_variant	670	361	121	D/N	Gat/Aat	.	.	.	-1	C7orf31	HGNC	21722	protein_coding	YES	CCDS5394.1	ENSP00000386604	CG031_HUMAN	C9JTB1_HUMAN,C9JF06_HUMAN,C9J431_HUMAN	UPI000013DD61	.	tolerated(0.1)	benign(0.04)	4/10	.	hmmpanther:PTHR31393,Pfam_domain:PF15093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S120fs*9|c.358delA|4	RADIA|MUTECT|MUSE|VARSCANS	GACATCACTTT	.	4	BLCA
HNRNPA2B1	0	.	GRCh37	7	26237295	26237295	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>A	p.Glu34Lys	p.E34K	ENST00000354667	3/12	92	81	11	62	62	0	HNRNPA2B1,missense_variant,p.Glu34Lys,ENST00000354667,;HNRNPA2B1,missense_variant,p.Glu22Lys,ENST00000356674,;CBX3,upstream_gene_variant,,ENST00000456948,;CBX3,upstream_gene_variant,,ENST00000409747,;CBX3,upstream_gene_variant,,ENST00000337620,;CBX3,upstream_gene_variant,,ENST00000396386,;CBX3,upstream_gene_variant,,ENST00000497498,;HNRNPA2B1,missense_variant,p.Glu34Lys,ENST00000360787,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000490912,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000463181,;HNRNPA2B1,upstream_gene_variant,,ENST00000495810,;	T	ENSG00000122566	ENST00000354667	Transcript	missense_variant	269	100	34	E/K	Gaa/Aaa	.	.	.	-1	HNRNPA2B1	HGNC	5033	protein_coding	YES	CCDS43557.1	ENSP00000346694	ROA2_HUMAN	.	UPI000002F091	.	deleterious(0.01)	probably_damaging(0.996)	3/12	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012:SF329,hmmpanther:PTHR24012,Pfam_domain:PF14259,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTGTGG	.	4	BLCA
JAZF1	0	.	GRCh37	7	27880454	27880454	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418G>A	p.Glu140Lys	p.E140K	ENST00000283928	4/5	132	109	22	99	99	0	JAZF1,missense_variant,p.Glu107Lys,ENST00000430432,;JAZF1,missense_variant,p.Glu116Lys,ENST00000447620,;JAZF1,missense_variant,p.Glu127Lys,ENST00000427814,;JAZF1,missense_variant,p.Glu140Lys,ENST00000283928,;TAX1BP1,synonymous_variant,p.%3D,ENST00000488564,;JAZF1,non_coding_transcript_exon_variant,,ENST00000466516,;JAZF1,3_prime_UTR_variant,,ENST00000452993,;	T	ENSG00000153814	ENST00000283928	Transcript	missense_variant	584	418	140	E/K	Gag/Aag	.	.	.	-1	JAZF1	HGNC	28917	protein_coding	YES	CCDS5416.1	ENSP00000283928	JAZF1_HUMAN	.	UPI00001B2E49	.	tolerated(0.16)	benign(0.011)	4/5	.	hmmpanther:PTHR23057:SF2,hmmpanther:PTHR23057,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCATAGT	.	5	BLCA
GHRHR	0	.	GRCh37	7	31008470	31008470	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.79G>C	p.Glu27Gln	p.E27Q	ENST00000326139	2/13	46	38	8	48	48	0	GHRHR,missense_variant,p.Glu27Gln,ENST00000326139,;GHRHR,upstream_gene_variant,,ENST00000409904,;GHRHR,upstream_gene_variant,,ENST00000409316,;GHRHR,non_coding_transcript_exon_variant,,ENST00000466427,;GHRHR,upstream_gene_variant,,ENST00000461424,;GHRHR,upstream_gene_variant,,ENST00000489974,;GHRHR,upstream_gene_variant,,ENST00000337750,;GHRHR,upstream_gene_variant,,ENST00000461390,;GHRHR,upstream_gene_variant,,ENST00000396227,;	C	ENSG00000106128	ENST00000326139	Transcript	missense_variant	125	79	27	E/Q	Gaa/Caa	COSM3923489	.	.	1	GHRHR	HGNC	4266	protein_coding	YES	CCDS5432.1	ENSP00000320180	GHRHR_HUMAN	P78471_HUMAN,P78470_HUMAN	UPI0000061EE1	.	deleterious(0.04)	possibly_damaging(0.873)	2/13	.	hmmpanther:PTHR12011:SF209,hmmpanther:PTHR12011,Superfamily_domains:SSF111418	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCAGAATGT	.	5	BLCA
CCDC129	0	.	GRCh37	7	31682636	31682636	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1730A>T	p.Tyr577Phe	p.Y577F	ENST00000451887	11/15	212	182	30	170	170	0	CCDC129,missense_variant,p.Tyr577Phe,ENST00000451887,;CCDC129,missense_variant,p.Tyr459Phe,ENST00000409210,;CCDC129,missense_variant,p.Tyr403Phe,ENST00000319386,;CCDC129,missense_variant,p.Tyr551Phe,ENST00000407970,;	T	ENSG00000180347	ENST00000451887	Transcript	missense_variant	1742	1730	577	Y/F	tAt/tTt	.	.	.	1	CCDC129	HGNC	27363	protein_coding	YES	CCDS59050.1	ENSP00000395835	CC129_HUMAN	E7ERG9_HUMAN,E7EQ43_HUMAN,B8ZZ49_HUMAN	UPI00020655D9	.	tolerated(0.6)	benign(0.192)	11/15	.	hmmpanther:PTHR17469,hmmpanther:PTHR17469:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAGTATGAGG	.	4	BLCA
PPP1R17	0	.	GRCh37	7	31735120	31735120	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120C>G	p.%3D	p.L40L	ENST00000342032	3/5	158	150	7	118	118	0	PPP1R17,synonymous_variant,p.%3D,ENST00000342032,;PPP1R17,intron_variant,,ENST00000409146,;PPP1R17,upstream_gene_variant,,ENST00000498609,;	G	ENSG00000106341	ENST00000342032	Transcript	synonymous_variant	748	120	40	L	ctC/ctG	.	.	.	1	PPP1R17	HGNC	16973	protein_coding	YES	CCDS5436.1	ENSP00000340125	PPR17_HUMAN	.	UPI000006D182	.	.	.	3/5	.	hmmpanther:PTHR15387:SF0,hmmpanther:PTHR15387	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATCTCAAAAA	.	2	BLCA
HECW1	0	.	GRCh37	7	43484922	43484922	+	Silent	SNP	G	G	A	rs760214176	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2151G>A	p.%3D	p.T717T	ENST00000395891	11/30	101	77	24	73	73	0	HECW1,synonymous_variant,p.%3D,ENST00000453890,;HECW1,synonymous_variant,p.%3D,ENST00000395891,;HECW1,downstream_gene_variant,,ENST00000471043,;	A	ENSG00000002746	ENST00000395891	Transcript	synonymous_variant	2756	2151	717	T	acG/acA	rs760214176	.	.	1	HECW1	HGNC	22195	protein_coding	YES	CCDS5469.2	ENSP00000379228	HECW1_HUMAN	A4D1V5_HUMAN	UPI0000D74C41	.	.	.	11/30	.	hmmpanther:PTHR11254:SF79,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACACGCGCTT	byFrequency	5	BLCA
COA1	0	.	GRCh37	7	43684865	43684865	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249C>T	p.%3D	p.D83D	ENST00000395879	3/5	62	47	15	40	40	0	COA1,synonymous_variant,p.%3D,ENST00000395879,;COA1,synonymous_variant,p.%3D,ENST00000310564,;COA1,synonymous_variant,p.%3D,ENST00000223336,;COA1,synonymous_variant,p.%3D,ENST00000415798,;COA1,synonymous_variant,p.%3D,ENST00000395880,;COA1,synonymous_variant,p.%3D,ENST00000431651,;COA1,downstream_gene_variant,,ENST00000470156,;COA1,upstream_gene_variant,,ENST00000488813,;COA1,downstream_gene_variant,,ENST00000459713,;COA1,synonymous_variant,p.%3D,ENST00000446564,;COA1,synonymous_variant,p.%3D,ENST00000446330,;COA1,synonymous_variant,p.%3D,ENST00000438444,;COA1,synonymous_variant,p.%3D,ENST00000415076,;COA1,non_coding_transcript_exon_variant,,ENST00000490251,;COA1,downstream_gene_variant,,ENST00000418140,;COA1,downstream_gene_variant,,ENST00000448704,;COA1,downstream_gene_variant,,ENST00000457939,;COA1,downstream_gene_variant,,ENST00000420441,;COA1,downstream_gene_variant,,ENST00000451651,;	A	ENSG00000106603	ENST00000395879	Transcript	synonymous_variant	1931	249	83	D	gaC/gaT	.	.	.	-1	COA1	HGNC	21868	protein_coding	YES	CCDS5471.1	ENSP00000379218	COA1_HUMAN	C9JA07_HUMAN,C9J6J1_HUMAN	UPI000006E8D7	.	.	.	3/5	.	Pfam_domain:PF08695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAATGTCCAC	.	5	BLCA
ACTB	0	.	GRCh37	7	5569226	5569226	+	Missense_Mutation	SNP	G	G	T	rs370972197	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.63C>A	p.Phe21Leu	p.F21L	ENST00000331789	2/6	40	32	8	41	41	0	ACTB,missense_variant,p.Phe21Leu,ENST00000443528,;ACTB,missense_variant,p.Phe21Leu,ENST00000414620,;ACTB,missense_variant,p.Phe24Leu,ENST00000417101,;ACTB,missense_variant,p.Phe21Leu,ENST00000432588,;ACTB,missense_variant,p.Phe21Leu,ENST00000331789,;AC006483.1,upstream_gene_variant,,ENST00000579427,;ACTB,intron_variant,,ENST00000473257,;ACTB,upstream_gene_variant,,ENST00000464611,;ACTB,missense_variant,p.Phe21Leu,ENST00000425660,;ACTB,non_coding_transcript_exon_variant,,ENST00000493945,;ACTB,non_coding_transcript_exon_variant,,ENST00000480301,;ACTB,non_coding_transcript_exon_variant,,ENST00000477812,;ACTB,non_coding_transcript_exon_variant,,ENST00000462494,;ACTB,non_coding_transcript_exon_variant,,ENST00000484841,;	T	ENSG00000075624	ENST00000331789	Transcript	missense_variant	255	63	21	F/L	ttC/ttA	rs370972197,COSM1550013,COSM3639808	.	.	-1	ACTB	HGNC	132	protein_coding	YES	CCDS5341.1	ENSP00000349960	ACTB_HUMAN	Q9UE89_HUMAN,Q96FU6_HUMAN,Q96DE1_HUMAN,Q6PJ43_HUMAN,Q562Z7_HUMAN,Q1KLZ0_HUMAN,E7EVS6_HUMAN,C9JZR7_HUMAN,C9JTX5_HUMAN,B4E335_HUMAN,B3KWQ3_HUMAN,A5GZ75_HUMAN,A4UCT3_HUMAN,A1E282_HUMAN	UPI000000082D	.	tolerated_low_confidence(0.06)	probably_damaging(0.988)	2/6	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF187,Pfam_domain:PF00022,Gene3D:3.30.420.40,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGCGAAGCC	byFrequency|byCluster	5	BLCA
SBDS	0	.	GRCh37	7	66458288	66458288	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375G>C	p.Lys125Asn	p.K125N	ENST00000246868	3/5	301	255	46	238	238	0	SBDS,missense_variant,p.Lys125Asn,ENST00000246868,;TYW1,upstream_gene_variant,,ENST00000442959,;TYW1,upstream_gene_variant,,ENST00000359626,;TYW1,upstream_gene_variant,,ENST00000491969,;SBDS,3_prime_UTR_variant,,ENST00000414306,;SBDS,non_coding_transcript_exon_variant,,ENST00000490953,;SBDS,non_coding_transcript_exon_variant,,ENST00000463579,;TYW1,upstream_gene_variant,,ENST00000361660,;TYW1,upstream_gene_variant,,ENST00000475392,;	G	ENSG00000126524	ENST00000246868	Transcript	missense_variant	559	375	125	K/N	aaG/aaC	.	.	.	-1	SBDS	HGNC	19440	protein_coding	YES	CCDS5537.1	ENSP00000246868	SBDS_HUMAN	.	UPI000013559C	.	tolerated(0.15)	benign(0.281)	3/5	.	hmmpanther:PTHR10927,TIGRFAM_domain:TIGR00291,Pfam_domain:PF09377,Superfamily_domains:SSF109728	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTCTTTGT	.	4	BLCA
ZNF12	0	.	GRCh37	7	6731446	6731446	+	Nonsense_Mutation	SNP	G	G	C	rs765623756	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1127C>G	p.Ser376Ter	p.S376*	ENST00000405858	5/5	63	56	7	66	66	0	ZNF12,stop_gained,p.Ser376Ter,ENST00000405858,;ZNF12,stop_gained,p.Ser302Ter,ENST00000404360,;ZNF12,stop_gained,p.Ser338Ter,ENST00000342651,;AC073343.2,upstream_gene_variant,,ENST00000577401,;AC073343.13,intron_variant,,ENST00000366167,;	C	ENSG00000164631	ENST00000405858	Transcript	stop_gained	1669	1127	376	S/*	tCa/tGa	rs765623756	.	.	-1	ZNF12	HGNC	12902	protein_coding	YES	CCDS47538.1	ENSP00000385939	ZNF12_HUMAN	.	UPI000020EAF7	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF85,hmmpanther:PTHR24377,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTGAATGT	.	4	BLCA
CALN1	0	.	GRCh37	7	71571256	71571256	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>G	p.Leu90Val	p.L90V	ENST00000395275	4/7	62	50	11	52	52	0	CALN1,missense_variant,p.Leu48Val,ENST00000446128,;CALN1,missense_variant,p.Leu48Val,ENST00000431984,;CALN1,missense_variant,p.Leu48Val,ENST00000395276,;CALN1,missense_variant,p.Leu90Val,ENST00000395275,;CALN1,missense_variant,p.Leu48Val,ENST00000329008,;CALN1,missense_variant,p.Leu48Val,ENST00000405452,;CALN1,missense_variant,p.Leu90Val,ENST00000412588,;ABCF2P2,downstream_gene_variant,,ENST00000450549,;	C	ENSG00000183166	ENST00000395275	Transcript	missense_variant	657	268	90	L/V	Ctg/Gtg	.	.	.	-1	CALN1	HGNC	13248	protein_coding	YES	CCDS47603.1	ENSP00000378690	CABP8_HUMAN	Q86UM7_HUMAN,Q86UL5_HUMAN,Q75MW5_HUMAN,Q75MP5_HUMAN,Q75MI2_HUMAN,E9PFU3_HUMAN,A4D1Z1_HUMAN	UPI0000D4B903	.	deleterious(0.02)	probably_damaging(0.954)	4/7	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23050,hmmpanther:PTHR23050:SF51,Gene3D:1.10.238.10,Pfam_domain:PF13499,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCAGAACCC	.	5	BLCA
POM121	0	.	GRCh37	7	72400549	72400549	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.380C>T	p.Ser127Phe	p.S127F	ENST00000395270	8/16	162	132	30	135	135	0	POM121,missense_variant,p.Ser127Phe,ENST00000446813,;POM121,missense_variant,p.Ser127Phe,ENST00000257622,;POM121,missense_variant,p.Ser392Phe,ENST00000434423,;POM121,missense_variant,p.Ser127Phe,ENST00000358357,;POM121,missense_variant,p.Ser127Phe,ENST00000395270,;RP11-313P13.5,upstream_gene_variant,,ENST00000608799,;	T	ENSG00000196313	ENST00000395270	Transcript	missense_variant	1421	380	127	S/F	tCt/tTt	.	.	.	1	POM121	HGNC	19702	protein_coding	YES	CCDS59059.1	ENSP00000378687	P121A_HUMAN	A8MY32_HUMAN	UPI000013DA6B	.	deleterious(0)	probably_damaging(0.999)	8/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23193:SF5,hmmpanther:PTHR23193,Pfam_domain:PF15229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTTCCA	.	4	BLCA
GTF2IRD2P1	0	.	GRCh37	7	72658353	72658353	+	RNA	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1559G>C	.	.	ENST00000425256	13/13	79	68	11	83	83	0	GTF2IRD2P1,non_coding_transcript_exon_variant,,ENST00000425256,;GTF2IRD2P1,downstream_gene_variant,,ENST00000449689,;	G	ENSG00000214544	ENST00000425256	Transcript	non_coding_transcript_exon_variant	1559	.	.	.	.	.	.	.	-1	GTF2IRD2P1	HGNC	33127	processed_transcript	YES	.	.	.	.	.	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAACAC	.	4	BLCA
FKBP6	0	.	GRCh37	7	72755313	72755313	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825T>A	p.Phe275Leu	p.F275L	ENST00000252037	7/9	212	167	45	189	189	0	FKBP6,missense_variant,p.Phe230Leu,ENST00000442793,;FKBP6,missense_variant,p.Phe275Leu,ENST00000252037,;FKBP6,missense_variant,p.Phe245Leu,ENST00000413573,;FKBP6,missense_variant,p.Phe270Leu,ENST00000431982,;RNU6-1080P,upstream_gene_variant,,ENST00000383982,;FKBP6,3_prime_UTR_variant,,ENST00000445032,;FKBP6,downstream_gene_variant,,ENST00000429879,;	A	ENSG00000077800	ENST00000252037	Transcript	missense_variant	894	825	275	F/L	ttT/ttA	.	.	.	1	FKBP6	HGNC	3722	protein_coding	YES	CCDS43595.1	ENSP00000252037	FKBP6_HUMAN	.	UPI000000165F	.	deleterious(0.01)	benign(0.297)	7/9	.	PROSITE_profiles:PS50293,hmmpanther:PTHR10516:SF10,hmmpanther:PTHR10516,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTTCTAGT	.	5	BLCA
STX1A	0	.	GRCh37	7	73117977	73117977	+	Intron	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.540+108G>T	.	.	ENST00000222812	.	32	27	5	25	25	0	WBSCR22,3_prime_UTR_variant,,ENST00000423166,;STX1A,intron_variant,,ENST00000395156,;STX1A,intron_variant,,ENST00000395155,;STX1A,intron_variant,,ENST00000222812,;STX1A,intron_variant,,ENST00000395154,;STX1A,intron_variant,,ENST00000496216,;STX1A,intron_variant,,ENST00000470878,;STX1A,intron_variant,,ENST00000480126,;STX1A,upstream_gene_variant,,ENST00000491645,;STX1A,upstream_gene_variant,,ENST00000484736,;WBSCR22,3_prime_UTR_variant,,ENST00000436944,;STX1A,intron_variant,,ENST00000491427,;STX1A,intron_variant,,ENST00000497980,;STX1A,intron_variant,,ENST00000461441,;STX1A,downstream_gene_variant,,ENST00000494245,;STX1A,downstream_gene_variant,,ENST00000462135,;	A	ENSG00000106089	ENST00000222812	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	STX1A	HGNC	11433	protein_coding	YES	CCDS34655.1	ENSP00000222812	STX1A_HUMAN	Q75ME0_HUMAN	UPI0000136065	.	.	.	.	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGCCTTACA	.	4	BLCA
POM121C	0	.	GRCh37	7	75048695	75048695	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2774C>A	p.Thr925Asn	p.T925N	ENST00000453279	14/15	50	45	5	27	27	0	POM121C,missense_variant,p.Thr925Asn,ENST00000453279,;POM121C,missense_variant,p.Thr1167Asn,ENST00000257665,;NSUN5P1,downstream_gene_variant,,ENST00000393633,;NSUN5P1,downstream_gene_variant,,ENST00000455158,;NSUN5P1,downstream_gene_variant,,ENST00000422386,;NSUN5P1,downstream_gene_variant,,ENST00000464979,;NSUN5P1,downstream_gene_variant,,ENST00000428392,;NSUN5P1,downstream_gene_variant,,ENST00000457988,;POM121C,downstream_gene_variant,,ENST00000473168,;POM121C,non_coding_transcript_exon_variant,,ENST00000476072,;POM121C,downstream_gene_variant,,ENST00000473609,;NSUN5P1,downstream_gene_variant,,ENST00000427550,;NSUN5P1,downstream_gene_variant,,ENST00000421140,;	T	ENSG00000135213	ENST00000453279	Transcript	missense_variant	3639	2774	925	T/N	aCc/aAc	.	.	.	-1	POM121C	HGNC	34005	protein_coding	YES	CCDS47617.1	ENSP00000414208	P121C_HUMAN	C9JFL1_HUMAN,B4DDR5_HUMAN,A8MY32_HUMAN	UPI00001C1E87	.	deleterious(0.02)	benign(0.039)	14/15	.	hmmpanther:PTHR23193,hmmpanther:PTHR23193:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGGGGTGTTC	.	3	BLCA
YWHAG	0	.	GRCh37	7	75959272	75959272	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366C>G	p.Phe122Leu	p.F122L	ENST00000307630	2/2	168	140	27	182	182	0	YWHAG,missense_variant,p.Phe122Leu,ENST00000307630,;	C	ENSG00000170027	ENST00000307630	Transcript	missense_variant	589	366	122	F/L	ttC/ttG	.	.	.	-1	YWHAG	HGNC	12852	protein_coding	YES	CCDS5584.1	ENSP00000306330	1433G_HUMAN	B4DHC4_HUMAN	UPI000000106B	.	deleterious_low_confidence(0.03)	probably_damaging(0.999)	2/2	.	hmmpanther:PTHR18860,hmmpanther:PTHR18860:SF2,Gene3D:3iquA00,Pfam_domain:PF00244,SMART_domains:SM00101,PIRSF_domain:PIRSF000868,Superfamily_domains:SSF48445,Prints_domain:PR00305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTAGAACAC	.	4	BLCA
CROT	0	.	GRCh37	7	86998691	86998691	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632-1G>C	.	p.X211_splice	ENST00000419147	.	142	121	21	99	99	0	CROT,splice_acceptor_variant,,ENST00000331536,;CROT,splice_acceptor_variant,,ENST00000419147,;CROT,splice_acceptor_variant,,ENST00000442291,;CROT,splice_acceptor_variant,,ENST00000488850,;	C	ENSG00000005469	ENST00000419147	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	CROT	HGNC	2366	protein_coding	YES	CCDS47634.1	ENSP00000413575	OCTC_HUMAN	B4DT97_HUMAN	UPI000020F4C5	.	.	.	.	7/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCAGAGAGT	.	4	BLCA
C7orf63	0	.	GRCh37	7	89897610	89897610	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.444G>A	p.Met148Ile	p.M148I	ENST00000389297	6/23	49	38	11	34	34	0	C7orf63,missense_variant,p.Met88Ile,ENST00000457170,;C7orf63,missense_variant,p.Met148Ile,ENST00000497910,;C7orf63,missense_variant,p.Met148Ile,ENST00000389297,;C7orf63,missense_variant,p.Met148Ile,ENST00000316089,;C7orf63,upstream_gene_variant,,ENST00000418199,;AC002064.4,intron_variant,,ENST00000420245,;C7orf63,non_coding_transcript_exon_variant,,ENST00000463311,;C7orf63,downstream_gene_variant,,ENST00000485791,;C7orf63,missense_variant,p.Met148Ile,ENST00000451029,;C7orf63,3_prime_UTR_variant,,ENST00000427396,;C7orf63,upstream_gene_variant,,ENST00000475031,;	A	ENSG00000105792	ENST00000389297	Transcript	missense_variant	695	444	148	M/I	atG/atA	.	.	.	1	C7orf63	HGNC	26107	protein_coding	YES	CCDS43613.2	ENSP00000373948	CG063_HUMAN	F8WBX7_HUMAN	UPI000066DA29	.	deleterious(0.03)	benign(0.023)	6/23	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR14716,hmmpanther:PTHR14716:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATGAAAAT	.	5	BLCA
ANKIB1	0	.	GRCh37	7	91875738	91875738	+	5'UTR	SNP	G	G	A	rs777454786	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-186G>A	.	.	ENST00000265742	1/20	15	11	4	16	16	0	ANKIB1,5_prime_UTR_variant,,ENST00000265742,;KRIT1,upstream_gene_variant,,ENST00000394505,;KRIT1,upstream_gene_variant,,ENST00000433016,;KRIT1,upstream_gene_variant,,ENST00000425073,;KRIT1,upstream_gene_variant,,ENST00000413688,;KRIT1,upstream_gene_variant,,ENST00000444960,;KRIT1,upstream_gene_variant,,ENST00000340022,;KRIT1,upstream_gene_variant,,ENST00000394503,;KRIT1,upstream_gene_variant,,ENST00000430102,;KRIT1,upstream_gene_variant,,ENST00000422347,;KRIT1,upstream_gene_variant,,ENST00000458493,;KRIT1,upstream_gene_variant,,ENST00000425919,;KRIT1,upstream_gene_variant,,ENST00000452773,;KRIT1,upstream_gene_variant,,ENST00000412043,;KRIT1,upstream_gene_variant,,ENST00000458177,;KRIT1,upstream_gene_variant,,ENST00000394507,;KRIT1,upstream_gene_variant,,ENST00000454017,;KRIT1,upstream_gene_variant,,ENST00000440209,;KRIT1,upstream_gene_variant,,ENST00000466166,;KRIT1,upstream_gene_variant,,ENST00000489087,;KRIT1,upstream_gene_variant,,ENST00000470309,;	A	ENSG00000001629	ENST00000265742	Transcript	5_prime_UTR_variant	191	.	.	.	.	rs777454786	.	.	1	ANKIB1	HGNC	22215	protein_coding	YES	CCDS47639.1	ENSP00000265742	AKIB1_HUMAN	Q4VBX8_HUMAN,C9JZ63_HUMAN	UPI00001C1E7C	.	.	.	1/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACCTGAGGTC	.	3	BLCA
TRRAP	0	.	GRCh37	7	98509802	98509802	+	Missense_Mutation	SNP	C	C	A	rs147405090	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2165C>A	p.Ser722Tyr	p.S722Y	ENST00000359863	18/72	122	98	24	108	108	0	TRRAP,missense_variant,p.Ser722Tyr,ENST00000355540,;TRRAP,missense_variant,p.Ser721Tyr,ENST00000446306,;TRRAP,missense_variant,p.Ser437Tyr,ENST00000456197,;TRRAP,missense_variant,p.Ser722Tyr,ENST00000359863,;	A	ENSG00000196367	ENST00000359863	Transcript	missense_variant	2374	2165	722	S/Y	tCc/tAc	rs147405090,COSM107494,COSM107495	.	.	1	TRRAP	HGNC	12347	protein_coding	YES	CCDS59066.1	ENSP00000352925	TRRAP_HUMAN	C9K0N1_HUMAN	UPI00004575B4	.	.	probably_damaging(0.984)	18/72	.	hmmpanther:PTHR11139:SF1,hmmpanther:PTHR11139	.	.	.	.	.	.	.	.	.	not_provided	1,1,1	21499247	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.S722F|c.2165C>T|15,CODON|p.S722F|c.2165C>T|13	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCCCTCT	byFrequency|byCluster	5	BLCA
TRRAP	0	.	GRCh37	7	98563392	98563392	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7029G>A	p.%3D	p.R2343R	ENST00000359863	48/72	71	60	10	55	55	0	TRRAP,synonymous_variant,p.%3D,ENST00000355540,;TRRAP,synonymous_variant,p.%3D,ENST00000446306,;TRRAP,synonymous_variant,p.%3D,ENST00000456197,;TRRAP,synonymous_variant,p.%3D,ENST00000359863,;	A	ENSG00000196367	ENST00000359863	Transcript	synonymous_variant	7238	7029	2343	R	cgG/cgA	.	.	.	1	TRRAP	HGNC	12347	protein_coding	YES	CCDS59066.1	ENSP00000352925	TRRAP_HUMAN	C9K0N1_HUMAN	UPI00004575B4	.	.	.	48/72	.	hmmpanther:PTHR11139:SF1,hmmpanther:PTHR11139,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCGGAAGAA	.	4	BLCA
CYP3A5	0	.	GRCh37	7	99247765	99247765	+	Silent	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1344C>G	p.%3D	p.L448L	ENST00000222982	12/13	237	202	35	190	190	0	CYP3A5,synonymous_variant,p.%3D,ENST00000222982,;CYP3A5,synonymous_variant,p.%3D,ENST00000343703,;CYP3A5,3_prime_UTR_variant,,ENST00000339843,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000461920,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000469887,;CYP3A5,downstream_gene_variant,,ENST00000488187,;	C	ENSG00000106258	ENST00000222982	Transcript	synonymous_variant	1444	1344	448	L	ctC/ctG	COSM3778734,COSM3778735	.	.	-1	CYP3A5	HGNC	2638	protein_coding	YES	CCDS5672.1	ENSP00000222982	CP3A5_HUMAN	Q96RK6_HUMAN,Q7Z447_HUMAN,Q7Z446_HUMAN	UPI000000163D	.	.	.	12/13	.	Prints_domain:PR00385,Superfamily_domains:SSF48264,Pfam_domain:PF00067,Gene3D:1.10.630.10,hmmpanther:PTHR24302:SF3,hmmpanther:PTHR24302	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCATGAGAGC	.	4	BLCA
AZGP1	0	.	GRCh37	7	99564518	99564518	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*108G>C	.	.	ENST00000292401	4/4	27	24	3	31	31	0	AZGP1,3_prime_UTR_variant,,ENST00000411734,;AZGP1,3_prime_UTR_variant,,ENST00000419575,;AZGP1,3_prime_UTR_variant,,ENST00000292401,;AZGP1,non_coding_transcript_exon_variant,,ENST00000483612,;AZGP1,downstream_gene_variant,,ENST00000495765,;AZGP1,downstream_gene_variant,,ENST00000477251,;	G	ENSG00000160862	ENST00000292401	Transcript	3_prime_UTR_variant	1142	.	.	.	.	.	.	.	-1	AZGP1	HGNC	910	protein_coding	YES	CCDS5680.1	ENSP00000292401	ZA2G_HUMAN	.	UPI00000720DE	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCAGGCC	.	2	BLCA
VPS13B	0	.	GRCh37	8	100821673	100821673	+	Missense_Mutation	SNP	G	G	C	rs747515158	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8087G>C	p.Gly2696Ala	p.G2696A	ENST00000358544	44/62	72	60	11	80	80	0	VPS13B,missense_variant,p.Gly2696Ala,ENST00000358544,;VPS13B,missense_variant,p.Gly2671Ala,ENST00000357162,;VPS13B,3_prime_UTR_variant,,ENST00000395996,;	C	ENSG00000132549	ENST00000358544	Transcript	missense_variant	8198	8087	2696	G/A	gGg/gCg	rs747515158	.	.	1	VPS13B	HGNC	2183	protein_coding	YES	CCDS6280.1	ENSP00000351346	VP13B_HUMAN	.	UPI00001D2D35	.	tolerated(0.06)	probably_damaging(0.939)	44/62	.	hmmpanther:PTHR12517,hmmpanther:PTHR12517:SF0,Pfam_domain:PF06650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCGGGACTT	.	4	BLCA
RNF19A	0	.	GRCh37	8	101270861	101270861	+	Missense_Mutation	SNP	C	C	T	rs375014597	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2440G>A	p.Asp814Asn	p.D814N	ENST00000519449	11/11	115	93	22	101	101	0	RNF19A,missense_variant,p.Asp814Asn,ENST00000519449,;RNF19A,missense_variant,p.Asp814Asn,ENST00000341084,;SPAG1,intron_variant,,ENST00000519409,;RNF19A,downstream_gene_variant,,ENST00000523255,;RNF19A,downstream_gene_variant,,ENST00000523644,;RNF19A,downstream_gene_variant,,ENST00000520071,;RNF19A,downstream_gene_variant,,ENST00000520903,;	T	ENSG00000034677	ENST00000519449	Transcript	missense_variant	2757	2440	814	D/N	Gat/Aat	rs375014597	.	.	-1	RNF19A	HGNC	13432	protein_coding	YES	CCDS6286.1	ENSP00000428968	RN19A_HUMAN	E7ETB2_HUMAN,E7EQV8_HUMAN,E7EQ63_HUMAN,A3KCU8_HUMAN	UPI000013D5E6	.	tolerated_low_confidence(0.08)	benign(0.026)	11/11	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATCGCCAA	byFrequency|byCluster	5	BLCA
UBR5	0	.	GRCh37	8	103372333	103372333	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.352G>C	p.Glu118Gln	p.E118Q	ENST00000520539	5/59	71	65	6	51	51	0	UBR5,missense_variant,p.Glu118Gln,ENST00000520539,;UBR5,missense_variant,p.Glu118Gln,ENST00000220959,;UBR5,missense_variant,p.Glu118Gln,ENST00000521922,;UBR5,non_coding_transcript_exon_variant,,ENST00000522327,;	G	ENSG00000104517	ENST00000520539	Transcript	missense_variant	959	352	118	E/Q	Gag/Cag	.	.	.	-1	UBR5	HGNC	16806	protein_coding	YES	CCDS34933.1	ENSP00000429084	UBR5_HUMAN	Q49A65_HUMAN,E5RFK7_HUMAN,B3KML2_HUMAN	UPI0000129BCB	.	tolerated(0.29)	benign(0.012)	5/59	.	hmmpanther:PTHR11254:SF77,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGTCTCAGAAC	.	3	BLCA
LRP12	0	.	GRCh37	8	105509479	105509479	+	Missense_Mutation	SNP	T	T	C	rs146849446	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1301A>G	p.Asn434Ser	p.N434S	ENST00000276654	5/7	133	112	20	96	96	0	LRP12,missense_variant,p.Asn23Ser,ENST00000523007,;LRP12,missense_variant,p.Asn434Ser,ENST00000276654,;LRP12,missense_variant,p.Asn415Ser,ENST00000424843,;LRP12,downstream_gene_variant,,ENST00000520770,;LRP12,upstream_gene_variant,,ENST00000518375,;LRP12,upstream_gene_variant,,ENST00000522046,;	C	ENSG00000147650	ENST00000276654	Transcript	missense_variant	1410	1301	434	N/S	aAc/aGc	rs146849446	.	.	-1	LRP12	HGNC	31708	protein_coding	YES	CCDS6303.1	ENSP00000276654	LRP12_HUMAN	E5RIW8_HUMAN,B3KWZ8_HUMAN	UPI0000047A9F	.	deleterious(0)	probably_damaging(0.993)	5/7	.	PROSITE_profiles:PS50068,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF216,Gene3D:4.10.400.10,SMART_domains:SM00192,Superfamily_domains:SSF57424,Prints_domain:PR00261	.	.	.	.	.	.	.	C:0.0002	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTAGTTGCAG	byCluster	5	BLCA
ABRA	0	.	GRCh37	8	107781826	107781826	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.593G>T	p.Gly198Val	p.G198V	ENST00000311955	1/2	196	165	30	189	189	0	ABRA,missense_variant,p.Gly198Val,ENST00000311955,;	A	ENSG00000174429	ENST00000311955	Transcript	missense_variant	648	593	198	G/V	gGa/gTa	.	.	.	-1	ABRA	HGNC	30655	protein_coding	YES	CCDS6305.1	ENSP00000311436	ABRA_HUMAN	.	UPI000006F0DE	.	deleterious(0.03)	probably_damaging(0.967)	1/2	.	hmmpanther:PTHR22739:SF7,hmmpanther:PTHR22739	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCCTCCA	.	4	BLCA
PKHD1L1	0	.	GRCh37	8	110489479	110489479	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8943G>A	p.%3D	p.Q2981Q	ENST00000378402	53/78	99	88	11	79	79	0	PKHD1L1,synonymous_variant,p.%3D,ENST00000378402,;PKHD1L1,upstream_gene_variant,,ENST00000526472,;	A	ENSG00000205038	ENST00000378402	Transcript	synonymous_variant	9047	8943	2981	Q	caG/caA	.	.	.	1	PKHD1L1	HGNC	20313	protein_coding	YES	CCDS47911.1	ENSP00000367655	PKHL1_HUMAN	.	UPI0000E5B020	.	.	.	53/78	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF213	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCAGAGTCA	.	4	BLCA
SYBU	0	.	GRCh37	8	110587478	110587478	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1649C>T	p.Ser550Leu	p.S550L	ENST00000422135	8/8	90	76	14	53	53	0	SYBU,missense_variant,p.Ser550Leu,ENST00000422135,;SYBU,missense_variant,p.Ser550Leu,ENST00000433638,;SYBU,missense_variant,p.Ser482Leu,ENST00000532779,;SYBU,missense_variant,p.Ser420Leu,ENST00000529690,;SYBU,missense_variant,p.Ser550Leu,ENST00000440310,;SYBU,missense_variant,p.Ser431Leu,ENST00000533065,;SYBU,missense_variant,p.Ser549Leu,ENST00000446070,;SYBU,missense_variant,p.Ser555Leu,ENST00000424158,;SYBU,missense_variant,p.Ser344Leu,ENST00000529175,;SYBU,missense_variant,p.Ser550Leu,ENST00000408908,;SYBU,missense_variant,p.Ser431Leu,ENST00000528331,;SYBU,missense_variant,p.Ser431Leu,ENST00000408889,;SYBU,missense_variant,p.Ser549Leu,ENST00000419099,;SYBU,missense_variant,p.Ser549Leu,ENST00000528647,;SYBU,missense_variant,p.Ser550Leu,ENST00000533171,;SYBU,missense_variant,p.Ser547Leu,ENST00000399066,;SYBU,missense_variant,p.Ser550Leu,ENST00000276646,;SYBU,missense_variant,p.Ser549Leu,ENST00000533895,;SYBU,downstream_gene_variant,,ENST00000529190,;SYBU,downstream_gene_variant,,ENST00000528569,;SYBU,downstream_gene_variant,,ENST00000528045,;SYBU,downstream_gene_variant,,ENST00000533394,;SYBU,downstream_gene_variant,,ENST00000532189,;SYBU,downstream_gene_variant,,ENST00000527664,;SYBU,downstream_gene_variant,,ENST00000527707,;SYBU,downstream_gene_variant,,ENST00000528735,;SYBU,downstream_gene_variant,,ENST00000532594,;	A	ENSG00000147642	ENST00000422135	Transcript	missense_variant	2165	1649	550	S/L	tCa/tTa	.	.	.	-1	SYBU	HGNC	26011	protein_coding	YES	CCDS47912.1	ENSP00000407118	SYBU_HUMAN	E9PRT7_HUMAN,E9PQG2_HUMAN,E9PPS4_HUMAN,E9PPC2_HUMAN,E9PN31_HUMAN,E9PLB9_HUMAN,E9PL50_HUMAN,E9PK96_HUMAN,E9PJ11_HUMAN,E9PI48_HUMAN,B3KRD1_HUMAN	UPI00000407AB	.	deleterious(0.03)	possibly_damaging(0.757)	8/8	.	hmmpanther:PTHR16208,hmmpanther:PTHR16208:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGAGTTT	.	5	BLCA
SYBU	0	.	GRCh37	8	110655035	110655035	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151G>A	p.Glu51Lys	p.E51K	ENST00000422135	3/8	73	62	11	67	67	0	SYBU,missense_variant,p.Glu51Lys,ENST00000422135,;SYBU,missense_variant,p.Glu51Lys,ENST00000534578,;SYBU,missense_variant,p.Glu56Lys,ENST00000424158,;SYBU,missense_variant,p.Glu51Lys,ENST00000527600,;SYBU,missense_variant,p.Glu50Lys,ENST00000533821,;SYBU,missense_variant,p.Glu51Lys,ENST00000408908,;SYBU,missense_variant,p.Glu51Lys,ENST00000526302,;SYBU,missense_variant,p.Glu51Lys,ENST00000524720,;SYBU,missense_variant,p.Glu51Lys,ENST00000534501,;SYBU,missense_variant,p.Glu50Lys,ENST00000419099,;SYBU,missense_variant,p.Glu50Lys,ENST00000528647,;SYBU,missense_variant,p.Glu51Lys,ENST00000533171,;SYBU,missense_variant,p.Glu51Lys,ENST00000433638,;SYBU,missense_variant,p.Glu51Lys,ENST00000440310,;SYBU,missense_variant,p.Glu50Lys,ENST00000529190,;SYBU,missense_variant,p.Glu50Lys,ENST00000446070,;SYBU,missense_variant,p.Glu50Lys,ENST00000534184,;SYBU,missense_variant,p.Glu48Lys,ENST00000399066,;SYBU,missense_variant,p.Glu51Lys,ENST00000276646,;SYBU,missense_variant,p.Glu50Lys,ENST00000533895,;SYBU,missense_variant,p.Glu51Lys,ENST00000528716,;SYBU,intron_variant,,ENST00000532779,;SYBU,intron_variant,,ENST00000528569,;SYBU,intron_variant,,ENST00000528045,;SYBU,intron_variant,,ENST00000528331,;SYBU,intron_variant,,ENST00000408889,;SYBU,intron_variant,,ENST00000532189,;SYBU,intron_variant,,ENST00000533065,;SYBU,intron_variant,,ENST00000530841,;SYBU,intron_variant,,ENST00000531230,;RP11-422N16.3,upstream_gene_variant,,ENST00000499579,;SYBU,intron_variant,,ENST00000527664,;SYBU,non_coding_transcript_exon_variant,,ENST00000531284,;	T	ENSG00000147642	ENST00000422135	Transcript	missense_variant	667	151	51	E/K	Gag/Aag	.	.	.	-1	SYBU	HGNC	26011	protein_coding	YES	CCDS47912.1	ENSP00000407118	SYBU_HUMAN	E9PRT7_HUMAN,E9PQG2_HUMAN,E9PPS4_HUMAN,E9PPC2_HUMAN,E9PN31_HUMAN,E9PLB9_HUMAN,E9PL50_HUMAN,E9PK96_HUMAN,E9PJ11_HUMAN,E9PI48_HUMAN,B3KRD1_HUMAN	UPI00000407AB	.	deleterious(0)	probably_damaging(0.997)	3/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16208,hmmpanther:PTHR16208:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCAGAGA	.	4	BLCA
CSMD3	0	.	GRCh37	8	113504727	113504727	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5269A>T	p.Ser1757Cys	p.S1757C	ENST00000297405	31/71	85	72	13	88	88	0	CSMD3,missense_variant,p.Ser1757Cys,ENST00000352409,;CSMD3,missense_variant,p.Ser1653Cys,ENST00000455883,;CSMD3,missense_variant,p.Ser1757Cys,ENST00000297405,;CSMD3,missense_variant,p.Ser1097Cys,ENST00000339701,;CSMD3,missense_variant,p.Ser1717Cys,ENST00000343508,;	A	ENSG00000164796	ENST00000297405	Transcript	missense_variant	5514	5269	1757	S/C	Agt/Tgt	.	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	deleterious(0.02)	probably_damaging(0.995)	31/71	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF44,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAACTTGGCA	.	4	BLCA
SLC30A8	0	.	GRCh37	8	118184901	118184901	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1091G>T	p.Cys364Phe	p.C364F	ENST00000456015	8/8	124	112	12	97	97	0	SLC30A8,missense_variant,p.Cys315Phe,ENST00000427715,;SLC30A8,missense_variant,p.Cys364Phe,ENST00000456015,;SLC30A8,missense_variant,p.Cys315Phe,ENST00000519688,;SLC30A8,missense_variant,p.Cys315Phe,ENST00000521243,;	T	ENSG00000164756	ENST00000456015	Transcript	missense_variant	1091	1091	364	C/F	tGt/tTt	COSM202175	.	.	1	SLC30A8	HGNC	20303	protein_coding	YES	CCDS6322.1	ENSP00000415011	ZNT8_HUMAN	E5RG87_HUMAN	UPI00001B00D6	.	deleterious(0)	probably_damaging(0.999)	8/8	.	hmmpanther:PTHR11562:SF37,hmmpanther:PTHR11562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCTGTGAAG	.	4	BLCA
ENPP2	0	.	GRCh37	8	120582984	120582984	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2034C>G	p.Phe678Leu	p.F678L	ENST00000259486	21/26	29	23	6	32	32	0	ENPP2,missense_variant,p.Phe261Leu,ENST00000522167,;ENPP2,missense_variant,p.Phe678Leu,ENST00000259486,;ENPP2,missense_variant,p.Phe626Leu,ENST00000075322,;ENPP2,missense_variant,p.Phe647Leu,ENST00000427067,;ENPP2,missense_variant,p.Phe651Leu,ENST00000522826,;ENPP2,downstream_gene_variant,,ENST00000518109,;ENPP2,non_coding_transcript_exon_variant,,ENST00000523861,;	C	ENSG00000136960	ENST00000259486	Transcript	missense_variant	2084	2034	678	F/L	ttC/ttG	.	.	.	-1	ENPP2	HGNC	3357	protein_coding	YES	CCDS6329.1	ENSP00000259486	ENPP2_HUMAN	.	UPI000013C57A	.	tolerated(0.96)	benign(0)	21/26	.	Superfamily_domains:SSF54060,SMART_domains:SM00892,SMART_domains:SM00477,Pfam_domain:PF01223,Gene3D:1g8tA00,hmmpanther:PTHR10151,hmmpanther:PTHR10151:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTAGGAATAT	.	5	BLCA
COL14A1	0	.	GRCh37	8	121209047	121209047	+	Missense_Mutation	SNP	C	C	G	rs777735334	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454C>G	p.Gln152Glu	p.Q152E	ENST00000297848	6/48	183	149	34	123	123	0	COL14A1,missense_variant,p.Gln4Glu,ENST00000523142,;COL14A1,missense_variant,p.Gln152Glu,ENST00000309791,;COL14A1,missense_variant,p.Gln152Glu,ENST00000537875,;COL14A1,missense_variant,p.Gln152Glu,ENST00000247781,;COL14A1,missense_variant,p.Gln152Glu,ENST00000297848,;COL14A1,upstream_gene_variant,,ENST00000434620,;COL14A1,non_coding_transcript_exon_variant,,ENST00000432943,;COL14A1,missense_variant,p.Gln152Glu,ENST00000498051,;	G	ENSG00000187955	ENST00000297848	Transcript	missense_variant	724	454	152	Q/E	Caa/Gaa	rs777735334	.	.	1	COL14A1	HGNC	2191	protein_coding	YES	CCDS34938.1	ENSP00000297848	COEA1_HUMAN	.	UPI000046D377	.	tolerated(0.08)	benign(0)	6/48	.	hmmpanther:PTHR22992:SF89,hmmpanther:PTHR22992,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGTCAAACT	.	5	BLCA
ANXA13	0	.	GRCh37	8	124701168	124701168	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.784G>C	p.Glu262Gln	p.E262Q	ENST00000262219	10/12	200	164	35	170	170	0	ANXA13,missense_variant,p.Glu262Gln,ENST00000262219,;ANXA13,missense_variant,p.Glu221Gln,ENST00000419625,;	G	ENSG00000104537	ENST00000262219	Transcript	missense_variant	852	784	262	E/Q	Gaa/Caa	.	.	.	-1	ANXA13	HGNC	536	protein_coding	YES	CCDS34939.1	ENSP00000262219	ANX13_HUMAN	E5RIN3_HUMAN	UPI000016A41E	.	deleterious(0.01)	probably_damaging(0.937)	10/12	.	hmmpanther:PTHR10502:SF105,hmmpanther:PTHR10502,Pfam_domain:PF00191,Gene3D:1.10.220.10,SMART_domains:SM00335,Superfamily_domains:SSF47874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTATGT	.	5	BLCA
FER1L6	0	.	GRCh37	8	125103704	125103704	+	Missense_Mutation	SNP	G	G	A	rs746744523	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4432G>A	p.Glu1478Lys	p.E1478K	ENST00000522917	34/41	121	103	18	81	81	0	FER1L6,missense_variant,p.Glu1478Lys,ENST00000522917,;FER1L6,missense_variant,p.Glu1478Lys,ENST00000399018,;FER1L6-AS2,intron_variant,,ENST00000520031,;	A	ENSG00000214814	ENST00000522917	Transcript	missense_variant	4638	4432	1478	E/K	Gaa/Aaa	rs746744523,COSM213582	.	.	1	FER1L6	HGNC	28065	protein_coding	YES	CCDS43767.1	ENSP00000428280	FR1L6_HUMAN	.	UPI0000E9B4AA	.	deleterious(0.01)	possibly_damaging(0.797)	34/41	.	hmmpanther:PTHR12546:SF37,hmmpanther:PTHR12546	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E1478K|c.4432G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCGAAATC	byFrequency	5	BLCA
SQLE	0	.	GRCh37	8	126021218	126021218	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.828C>G	p.%3D	p.L276L	ENST00000265896	5/11	27	23	3	21	21	0	SQLE,synonymous_variant,p.%3D,ENST00000265896,;SQLE,synonymous_variant,p.%3D,ENST00000523430,;SQLE,upstream_gene_variant,,ENST00000518931,;SQLE,downstream_gene_variant,,ENST00000521232,;SQLE,upstream_gene_variant,,ENST00000520493,;	G	ENSG00000104549	ENST00000265896	Transcript	synonymous_variant	1726	828	276	L	ctC/ctG	.	.	.	1	SQLE	HGNC	11279	protein_coding	YES	CCDS47918.1	ENSP00000265896	ERG1_HUMAN	Q9UNR6_HUMAN,H0YBN7_HUMAN,B4DHX0_HUMAN	UPI0000073EEE	.	.	.	5/11	.	Superfamily_domains:SSF51905,Gene3D:3.50.50.60,hmmpanther:PTHR10835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTCCATGC	.	4	BLCA
SQLE	0	.	GRCh37	8	126021528	126021528	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1051G>C	p.Glu351Gln	p.E351Q	ENST00000265896	6/11	112	86	26	72	72	0	SQLE,missense_variant,p.Glu3Gln,ENST00000518931,;SQLE,missense_variant,p.Glu351Gln,ENST00000265896,;SQLE,missense_variant,p.Glu256Gln,ENST00000523430,;SQLE,downstream_gene_variant,,ENST00000521232,;SQLE,upstream_gene_variant,,ENST00000520493,;	C	ENSG00000104549	ENST00000265896	Transcript	missense_variant	1949	1051	351	E/Q	Gaa/Caa	.	.	.	1	SQLE	HGNC	11279	protein_coding	YES	CCDS47918.1	ENSP00000265896	ERG1_HUMAN	Q9UNR6_HUMAN,H0YBN7_HUMAN,B4DHX0_HUMAN	UPI0000073EEE	.	tolerated(0.06)	benign(0.035)	6/11	.	Pfam_domain:PF08491,hmmpanther:PTHR10835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGAGAAATG	.	5	BLCA
FAM84B	0	.	GRCh37	8	127569508	127569508	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.127G>C	p.Glu43Gln	p.E43Q	ENST00000304916	2/2	24	16	7	20	20	0	FAM84B,missense_variant,p.Glu43Gln,ENST00000304916,;RP11-103H7.5,non_coding_transcript_exon_variant,,ENST00000524320,;RP11-89K10.1,upstream_gene_variant,,ENST00000520512,;RP11-89K10.1,upstream_gene_variant,,ENST00000519880,;RP11-89K10.1,upstream_gene_variant,,ENST00000517773,;FAM84B,upstream_gene_variant,,ENST00000517458,;	G	ENSG00000168672	ENST00000304916	Transcript	missense_variant	583	127	43	E/Q	Gag/Cag	.	.	.	-1	FAM84B	HGNC	24166	protein_coding	YES	CCDS6358.1	ENSP00000302578	FA84B_HUMAN	.	UPI00000710F2	.	deleterious(0.01)	benign(0.196)	2/2	.	hmmpanther:PTHR13943,hmmpanther:PTHR13943:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCATCGT	.	5	BLCA
KHDRBS3	0	.	GRCh37	8	136619236	136619236	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846G>C	p.Gln282His	p.Q282H	ENST00000355849	7/9	122	94	27	131	131	0	KHDRBS3,missense_variant,p.Gln55His,ENST00000520981,;KHDRBS3,missense_variant,p.Gln254His,ENST00000524199,;KHDRBS3,missense_variant,p.Gln282His,ENST00000355849,;KHDRBS3,intron_variant,,ENST00000524282,;KHDRBS3,non_coding_transcript_exon_variant,,ENST00000522433,;KHDRBS3,non_coding_transcript_exon_variant,,ENST00000518728,;KHDRBS3,non_coding_transcript_exon_variant,,ENST00000522079,;KHDRBS3,intron_variant,,ENST00000517859,;KHDRBS3,upstream_gene_variant,,ENST00000521461,;	C	ENSG00000131773	ENST00000355849	Transcript	missense_variant	1256	846	282	Q/H	caG/caC	COSM749221	.	.	1	KHDRBS3	HGNC	18117	protein_coding	YES	CCDS6374.1	ENSP00000348108	KHDR3_HUMAN	.	UPI0000073E6F	.	tolerated(0.11)	possibly_damaging(0.667)	7/9	.	hmmpanther:PTHR11208:SF29,hmmpanther:PTHR11208	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACAGAGTTA	.	5	BLCA
COL22A1	0	.	GRCh37	8	139732984	139732984	+	Missense_Mutation	SNP	G	G	C	rs747598908	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2353C>G	p.Arg785Gly	p.R785G	ENST00000303045	27/65	212	191	21	159	159	0	COL22A1,missense_variant,p.Arg785Gly,ENST00000303045,;COL22A1,missense_variant,p.Arg785Gly,ENST00000435777,;COL22A1,splice_region_variant,,ENST00000341807,;	C	ENSG00000169436	ENST00000303045	Transcript	missense_variant	2800	2353	785	R/G	Cgg/Ggg	rs747598908	.	.	-1	COL22A1	HGNC	22989	protein_coding	YES	CCDS6376.1	ENSP00000303153	COMA1_HUMAN	.	UPI00001C1EA1	.	.	probably_damaging(0.992)	27/65	.	hmmpanther:PTHR24023:SF379,hmmpanther:PTHR24023,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACCCGAAGGC	byFrequency	3	BLCA
TRAPPC9	0	.	GRCh37	8	141461476	141461476	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>G	p.Phe97Leu	p.F97L	ENST00000389328	2/23	41	37	4	17	17	0	TRAPPC9,missense_variant,p.Phe97Leu,ENST00000389328,;TRAPPC9,5_prime_UTR_variant,,ENST00000389327,;TRAPPC9,5_prime_UTR_variant,,ENST00000438773,;TRAPPC9,upstream_gene_variant,,ENST00000520857,;	C	ENSG00000167632	ENST00000389328	Transcript	missense_variant	306	291	97	F/L	ttC/ttG	.	.	.	-1	TRAPPC9	HGNC	30832	protein_coding	YES	CCDS34946.1	ENSP00000373979	TPPC9_HUMAN	.	UPI0000DBEF2B	.	tolerated(0.46)	benign(0.294)	2/23	.	hmmpanther:PTHR21512,hmmpanther:PTHR21512:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUSE|VARSCANS	ATTTTGAAGTC	.	3	BLCA
JRK	0	.	GRCh37	8	143746147	143746147	+	RNA	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1664G>A	.	.	ENST00000507178	2/2	21	15	5	21	21	0	JRK,non_coding_transcript_exon_variant,,ENST00000422119,;JRK,non_coding_transcript_exon_variant,,ENST00000507178,;JRK,non_coding_transcript_exon_variant,,ENST00000512113,;JRK,downstream_gene_variant,,ENST00000503272,;JRK,downstream_gene_variant,,ENST00000591357,;JRK,upstream_gene_variant,,ENST00000506774,;	T	ENSG00000234616	ENST00000507178	Transcript	non_coding_transcript_exon_variant	1664	.	.	.	.	.	.	.	-1	JRK	HGNC	6199	processed_transcript	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCCCGCT	.	4	BLCA
ZNF696	0	.	GRCh37	8	144378883	144378883	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1038G>A	p.%3D	p.E346E	ENST00000330143	3/3	12	9	3	10	10	0	ZNF696,synonymous_variant,p.%3D,ENST00000330143,;ZNF696,downstream_gene_variant,,ENST00000520333,;ZNF696,downstream_gene_variant,,ENST00000521537,;ZNF696,downstream_gene_variant,,ENST00000523891,;ZNF696,downstream_gene_variant,,ENST00000518432,;ZNF696,downstream_gene_variant,,ENST00000518575,;	A	ENSG00000185730	ENST00000330143	Transcript	synonymous_variant	1447	1038	346	E	gaG/gaA	.	.	.	1	ZNF696	HGNC	25872	protein_coding	YES	CCDS6399.1	ENSP00000328515	ZN696_HUMAN	E5RG39_HUMAN,E5RFI7_HUMAN	UPI000013E0BC	.	.	.	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF110,hmmpanther:PTHR24377,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCGAGAAGCC	.	2	BLCA
PUF60	0	.	GRCh37	8	144900174	144900174	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.675C>G	p.Phe225Leu	p.F225L	ENST00000526683	8/12	46	38	8	36	36	0	PUF60,missense_variant,p.Phe245Leu,ENST00000529999,;PUF60,missense_variant,p.Phe208Leu,ENST00000349157,;PUF60,missense_variant,p.Phe165Leu,ENST00000313352,;PUF60,missense_variant,p.Phe179Leu,ENST00000527197,;PUF60,missense_variant,p.Phe225Leu,ENST00000526683,;PUF60,missense_variant,p.Phe182Leu,ENST00000453551,;PUF60,missense_variant,p.Phe196Leu,ENST00000456095,;PUF60,missense_variant,p.Phe245Leu,ENST00000531897,;PUF60,missense_variant,p.Phe223Leu,ENST00000527744,;PUF60,missense_variant,p.Phe207Leu,ENST00000526459,;PUF60,intron_variant,,ENST00000532884,;SCRIB,upstream_gene_variant,,ENST00000377533,;SCRIB,upstream_gene_variant,,ENST00000356994,;PUF60,downstream_gene_variant,,ENST00000533162,;SCRIB,upstream_gene_variant,,ENST00000320476,;MIR937,upstream_gene_variant,,ENST00000401271,;PUF60,non_coding_transcript_exon_variant,,ENST00000531951,;PUF60,non_coding_transcript_exon_variant,,ENST00000524570,;PUF60,non_coding_transcript_exon_variant,,ENST00000528999,;PUF60,downstream_gene_variant,,ENST00000533362,;PUF60,non_coding_transcript_exon_variant,,ENST00000528320,;PUF60,downstream_gene_variant,,ENST00000529693,;PUF60,downstream_gene_variant,,ENST00000531995,;PUF60,downstream_gene_variant,,ENST00000526151,;PUF60,downstream_gene_variant,,ENST00000532127,;PUF60,downstream_gene_variant,,ENST00000527584,;	C	ENSG00000179950	ENST00000526683	Transcript	missense_variant	1231	675	225	F/L	ttC/ttG	COSM3646151	.	.	-1	PUF60	HGNC	17042	protein_coding	YES	CCDS47934.1	ENSP00000434359	PUF60_HUMAN	.	UPI00000713CF	.	tolerated(0.08)	benign(0.005)	8/12	.	hmmpanther:PTHR24011:SF246,hmmpanther:PTHR24011,TIGRFAM_domain:TIGR01645,Gene3D:3.30.70.330	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTTGAAGGC	.	5	BLCA
PLEC	0	.	GRCh37	8	144990875	144990875	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13525delC	p.Gln4509ArgfsTer3	p.Q4509Rfs*3	ENST00000322810	32/32	74	66	8	67	67	0	PLEC,frameshift_variant,p.Gln4509ArgfsTer3,ENST00000322810,;PLEC,frameshift_variant,p.Gln4395ArgfsTer3,ENST00000527096,;PLEC,frameshift_variant,p.Gln4372ArgfsTer3,ENST00000345136,;PLEC,frameshift_variant,p.Gln4376ArgfsTer3,ENST00000357649,;PLEC,frameshift_variant,p.Gln4340ArgfsTer3,ENST00000398774,;PLEC,frameshift_variant,p.Gln4372ArgfsTer3,ENST00000354589,;PLEC,frameshift_variant,p.Gln4358ArgfsTer3,ENST00000356346,;PLEC,frameshift_variant,p.Gln4399ArgfsTer3,ENST00000436759,;PLEC,frameshift_variant,p.Gln4350ArgfsTer3,ENST00000354958,;	-	ENSG00000178209	ENST00000322810	Transcript	frameshift_variant	13695	13525	4509	Q/X	Cag/ag	.	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	.	32/32	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGGCCTGGGCGG	.	3	BLCA
PLEC	0	.	GRCh37	8	144994603	144994603	+	Missense_Mutation	SNP	T	T	C	rs782543325	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9797A>G	p.Gln3266Arg	p.Q3266R	ENST00000322810	32/32	32	26	5	18	18	0	PLEC,missense_variant,p.Gln3266Arg,ENST00000322810,;PLEC,missense_variant,p.Gln3152Arg,ENST00000527096,;PLEC,missense_variant,p.Gln3129Arg,ENST00000345136,;PLEC,missense_variant,p.Gln3133Arg,ENST00000357649,;PLEC,missense_variant,p.Gln3097Arg,ENST00000398774,;PLEC,missense_variant,p.Gln3129Arg,ENST00000354589,;PLEC,missense_variant,p.Gln3115Arg,ENST00000356346,;PLEC,missense_variant,p.Gln3156Arg,ENST00000436759,;PLEC,missense_variant,p.Gln3107Arg,ENST00000354958,;PLEC,downstream_gene_variant,,ENST00000527303,;	C	ENSG00000178209	ENST00000322810	Transcript	missense_variant	9967	9797	3266	Q/R	cAg/cGg	rs782543325	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	benign(0.119)	32/32	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCCTGCTCC	.	4	BLCA
OPLAH	0	.	GRCh37	8	145112921	145112921	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1080C>T	p.%3D	p.L360L	ENST00000426825	8/28	82	72	10	74	74	0	OPLAH,synonymous_variant,p.%3D,ENST00000426825,;OPLAH,non_coding_transcript_exon_variant,,ENST00000534424,;OPLAH,downstream_gene_variant,,ENST00000567871,;OPLAH,upstream_gene_variant,,ENST00000527993,;OPLAH,upstream_gene_variant,,ENST00000531027,;	A	ENSG00000178814	ENST00000426825	Transcript	synonymous_variant	1162	1080	360	L	ctC/ctT	.	.	.	-1	OPLAH	HGNC	8149	protein_coding	YES	.	ENSP00000475943	OPLA_HUMAN	.	UPI000035154E	.	.	.	8/28	.	hmmpanther:PTHR11365:SF2,hmmpanther:PTHR11365,Pfam_domain:PF01968	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAGGCG	.	4	BLCA
RECQL4	0	.	GRCh37	8	145738304	145738304	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2681G>C	p.Arg894Thr	p.R894T	ENST00000428558	16/22	12	9	3	10	10	0	RECQL4,missense_variant,p.Arg285Thr,ENST00000534626,;RECQL4,missense_variant,p.Arg894Thr,ENST00000428558,;MFSD3,downstream_gene_variant,,ENST00000301327,;RECQL4,downstream_gene_variant,,ENST00000524998,;RECQL4,downstream_gene_variant,,ENST00000532846,;CTD-2517M22.17,intron_variant,,ENST00000580385,;RECQL4,non_coding_transcript_exon_variant,,ENST00000532237,;RECQL4,non_coding_transcript_exon_variant,,ENST00000532269,;RECQL4,upstream_gene_variant,,ENST00000531875,;RECQL4,upstream_gene_variant,,ENST00000529424,;RECQL4,upstream_gene_variant,,ENST00000301323,;MFSD3,downstream_gene_variant,,ENST00000534427,;MFSD3,downstream_gene_variant,,ENST00000528047,;RECQL4,downstream_gene_variant,,ENST00000534538,;RECQL4,downstream_gene_variant,,ENST00000534270,;MFSD3,downstream_gene_variant,,ENST00000526749,;	G	ENSG00000160957	ENST00000428558	Transcript	missense_variant	2723	2681	894	R/T	aGa/aCa	.	.	.	-1	RECQL4	HGNC	9949	protein_coding	YES	.	ENSP00000475456	.	U3KQ17_HUMAN	UPI0000E5E124	.	tolerated(0.46)	benign(0.012)	16/22	.	hmmpanther:PTHR13710,hmmpanther:PTHR13710:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCCTTCTGGGT	.	2	BLCA
SLC7A2	0	.	GRCh37	8	17419460	17419460	+	Silent	SNP	C	C	T	rs148420262	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1632C>T	p.%3D	p.L544L	ENST00000004531	10/12	237	188	49	193	192	0	SLC7A2,synonymous_variant,p.%3D,ENST00000522656,;SLC7A2,synonymous_variant,p.%3D,ENST00000494857,;SLC7A2,synonymous_variant,p.%3D,ENST00000470360,;SLC7A2,synonymous_variant,p.%3D,ENST00000398090,;SLC7A2,synonymous_variant,p.%3D,ENST00000004531,;	T	ENSG00000003989	ENST00000004531	Transcript	synonymous_variant	1680	1632	544	L	ctC/ctT	rs148420262	.	.	1	SLC7A2	HGNC	11060	protein_coding	YES	CCDS55203.1	ENSP00000004531	CTR2_HUMAN	.	UPI0001A336A4	.	.	.	10/12	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11785:SF242,hmmpanther:PTHR11785,TIGRFAM_domain:TIGR00906	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0005	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCGTGTT	byFrequency|byCluster|by1000G	5	BLCA
ASAH1	0	.	GRCh37	8	17944414	17944414	+	5'Flank	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000381733	.	67	58	9	61	61	0	ASAH1,upstream_gene_variant,,ENST00000520781,;ASAH1,upstream_gene_variant,,ENST00000314146,;ASAH1,upstream_gene_variant,,ENST00000417108,;ASAH1,upstream_gene_variant,,ENST00000262097,;ASAH1,upstream_gene_variant,,ENST00000381733,;CTD-2547L16.1,non_coding_transcript_exon_variant,,ENST00000505114,;CTD-2547L16.1,non_coding_transcript_exon_variant,,ENST00000521775,;CTD-2547L16.1,non_coding_transcript_exon_variant,,ENST00000499554,;CTD-2547L16.1,non_coding_transcript_exon_variant,,ENST00000517798,;CTD-2547L16.1,non_coding_transcript_exon_variant,,ENST00000517747,;ASAH1,upstream_gene_variant,,ENST00000520051,;ASAH1,upstream_gene_variant,,ENST00000519468,;ASAH1,upstream_gene_variant,,ENST00000523593,;ASAH1,upstream_gene_variant,,ENST00000518087,;CTD-2547L16.3,downstream_gene_variant,,ENST00000517431,;	T	ENSG00000104763	ENST00000381733	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1937	-1	ASAH1	HGNC	735	protein_coding	YES	CCDS6005.1	ENSP00000371152	ASAH1_HUMAN	B1B5R9_HUMAN,B1B5Q0_HUMAN,B1B5P7_HUMAN,B1B5P6_HUMAN	UPI0000210A34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAATCACAAA	.	4	BLCA
FAM160B2	0	.	GRCh37	8	21958965	21958965	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1631T>C	p.Val544Ala	p.V544A	ENST00000289921	13/17	15	11	4	8	8	0	FAM160B2,missense_variant,p.Val544Ala,ENST00000289921,;FAM160B2,missense_variant,p.Val544Ala,ENST00000450006,;FAM160B2,non_coding_transcript_exon_variant,,ENST00000477614,;FAM160B2,upstream_gene_variant,,ENST00000523633,;FAM160B2,downstream_gene_variant,,ENST00000498344,;FAM160B2,upstream_gene_variant,,ENST00000496599,;FAM160B2,downstream_gene_variant,,ENST00000491733,;FAM160B2,downstream_gene_variant,,ENST00000427751,;FAM160B2,downstream_gene_variant,,ENST00000488968,;FAM160B2,downstream_gene_variant,,ENST00000464226,;FAM160B2,downstream_gene_variant,,ENST00000474579,;FAM160B2,downstream_gene_variant,,ENST00000462914,;AC091171.1,upstream_gene_variant,,ENST00000436711,;	C	ENSG00000158863	ENST00000289921	Transcript	missense_variant	1677	1631	544	V/A	gTc/gCc	.	.	.	1	FAM160B2	HGNC	16492	protein_coding	YES	CCDS6021.2	ENSP00000289921	F16B2_HUMAN	.	UPI00006C5119	.	deleterious(0)	probably_damaging(0.999)	13/17	.	hmmpanther:PTHR21705,hmmpanther:PTHR21705:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTGGTCCCCG	.	3	BLCA
EGR3	0	.	GRCh37	8	22548691	22548691	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459C>G	p.%3D	p.L153L	ENST00000317216	2/2	41	33	8	43	43	0	EGR3,synonymous_variant,p.%3D,ENST00000522910,;EGR3,synonymous_variant,p.%3D,ENST00000317216,;EGR3,3_prime_UTR_variant,,ENST00000519492,;RP11-459E5.1,intron_variant,,ENST00000523627,;EGR3,non_coding_transcript_exon_variant,,ENST00000524088,;EGR3,non_coding_transcript_exon_variant,,ENST00000518773,;	C	ENSG00000179388	ENST00000317216	Transcript	synonymous_variant	817	459	153	L	ctC/ctG	.	.	.	-1	EGR3	HGNC	3240	protein_coding	YES	CCDS6033.1	ENSP00000318057	EGR3_HUMAN	B4DH80_HUMAN	UPI0000129E0F	.	.	.	2/2	.	hmmpanther:PTHR10042:SF24,hmmpanther:PTHR10042,Pfam_domain:PF11928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTAGAGGTC	.	5	BLCA
TNFRSF10A	0	.	GRCh37	8	23049351	23049351	+	Silent	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1263G>A	p.%3D	p.R421R	ENST00000221132	10/10	126	106	20	103	102	0	TNFRSF10A,synonymous_variant,p.%3D,ENST00000221132,;RP11-1149O23.2,downstream_gene_variant,,ENST00000518308,;TNFRSF10A,non_coding_transcript_exon_variant,,ENST00000519862,;	T	ENSG00000104689	ENST00000221132	Transcript	synonymous_variant	1328	1263	421	R	cgG/cgA	COSM3647342	.	.	-1	TNFRSF10A	HGNC	11904	protein_coding	YES	CCDS6039.1	ENSP00000221132	TR10A_HUMAN	E5RFH1_HUMAN	UPI000013C7A8	.	.	.	10/10	.	PROSITE_profiles:PS50017,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF41,Pfam_domain:PF00531,Gene3D:1.10.533.10,PIRSF_domain:PIRSF037867,SMART_domains:SM00005,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGTTCCGTCC	.	4	BLCA
LOXL2	0	.	GRCh37	8	23225676	23225676	+	Missense_Mutation	SNP	C	C	G	rs144629041	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>C	p.Gln63His	p.Q63H	ENST00000389131	2/14	99	84	15	79	79	0	LOXL2,missense_variant,p.Gln144His,ENST00000524144,;LOXL2,missense_variant,p.Gln63His,ENST00000389131,;LOXL2,missense_variant,p.Gln63His,ENST00000524168,;LOXL2,missense_variant,p.Gln104His,ENST00000520871,;LOXL2,missense_variant,p.Gln63His,ENST00000519243,;LOXL2,missense_variant,p.Gln63His,ENST00000518083,;LOXL2,intron_variant,,ENST00000523833,;RP11-177H13.2,downstream_gene_variant,,ENST00000519692,;	G	ENSG00000134013	ENST00000389131	Transcript	missense_variant	559	189	63	Q/H	caG/caC	rs144629041	.	.	-1	LOXL2	HGNC	6666	protein_coding	YES	CCDS34864.1	ENSP00000373783	LOXL2_HUMAN	E5RJL2_HUMAN,E5RI22_HUMAN,E5RFE2_HUMAN	UPI000012E7AB	.	tolerated(0.53)	possibly_damaging(0.863)	2/14	.	Superfamily_domains:SSF56487,SMART_domains:SM00202,Gene3D:3.10.250.10,hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF10,PROSITE_profiles:PS50287	T:0.0016	T:0.0061	T:0	.	T:0	T:0	T:0	T:0.0073	T:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCTGCCC	byFrequency|byCluster|by1000G	4	BLCA
CDCA2	0	.	GRCh37	8	25343320	25343320	+	Missense_Mutation	SNP	C	C	A	rs754273757	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411C>A	p.Pro471Thr	p.P471T	ENST00000330560	11/15	174	144	29	160	160	0	CDCA2,missense_variant,p.Pro456Thr,ENST00000380665,;CDCA2,missense_variant,p.Pro471Thr,ENST00000330560,;CDCA2,non_coding_transcript_exon_variant,,ENST00000523454,;CDCA2,non_coding_transcript_exon_variant,,ENST00000521098,;	A	ENSG00000184661	ENST00000330560	Transcript	missense_variant	1888	1411	471	P/T	Cct/Act	rs754273757	.	.	1	CDCA2	HGNC	14623	protein_coding	YES	CCDS6049.1	ENSP00000328228	CDCA2_HUMAN	.	UPI000013DF9A	.	tolerated(0.28)	benign(0.112)	11/15	.	hmmpanther:PTHR21603:SF2,hmmpanther:PTHR21603	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCTCCTAAT	byFrequency	4	BLCA
BNIP3L	0	.	GRCh37	8	26265788	26265788	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507G>A	p.Met169Ile	p.M169I	ENST00000380629	5/6	107	93	14	75	75	0	BNIP3L,missense_variant,p.Met169Ile,ENST00000380629,;BNIP3L,missense_variant,p.Met147Ile,ENST00000523949,;BNIP3L,missense_variant,p.Met129Ile,ENST00000518611,;BNIP3L,missense_variant,p.Met129Ile,ENST00000520409,;BNIP3L,missense_variant,p.Met129Ile,ENST00000523515,;BNIP3L,non_coding_transcript_exon_variant,,ENST00000521254,;BNIP3L,3_prime_UTR_variant,,ENST00000520077,;	A	ENSG00000104765	ENST00000380629	Transcript	missense_variant	740	507	169	M/I	atG/atA	.	.	.	1	BNIP3L	HGNC	1085	protein_coding	YES	CCDS6050.1	ENSP00000370003	BNI3L_HUMAN	Q6IBV1_HUMAN,B4DTN1_HUMAN,B0AZS9_HUMAN	UPI000004CF4D	.	tolerated(0.27)	benign(0.381)	5/6	.	hmmpanther:PTHR15186:SF3,hmmpanther:PTHR15186,Pfam_domain:PF06553	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AGCATGAGGAA	.	3	BLCA
TUBBP1	0	.	GRCh37	8	30210367	30210367	+	RNA	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.979C>G	.	.	ENST00000518096	1/1	89	77	12	59	59	0	TUBBP1,non_coding_transcript_exon_variant,,ENST00000518096,;TUBBP1,non_coding_transcript_exon_variant,,ENST00000248151,;CTD-3107M8.2,upstream_gene_variant,,ENST00000519658,;	G	ENSG00000127589	ENST00000518096	Transcript	non_coding_transcript_exon_variant	979	.	.	.	.	.	.	.	1	TUBBP1	HGNC	12414	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTATCGAGCT	.	5	BLCA
TEX15	0	.	GRCh37	8	30701223	30701223	+	Missense_Mutation	SNP	C	C	G	rs766162785	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5311G>C	p.Glu1771Gln	p.E1771Q	ENST00000256246	1/4	63	50	12	52	52	0	TEX15,missense_variant,p.Glu1771Gln,ENST00000256246,;	G	ENSG00000133863	ENST00000256246	Transcript	missense_variant	5386	5311	1771	E/Q	Gaa/Caa	rs766162785,COSM3715915	.	.	-1	TEX15	HGNC	11738	protein_coding	YES	CCDS6080.1	ENSP00000256246	TEX15_HUMAN	D3DSV6_HUMAN	UPI000013CEF9	.	tolerated(0.06)	benign(0.032)	1/4	.	hmmpanther:PTHR22380,hmmpanther:PTHR22380:SF1	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAAGCA	byFrequency	5	BLCA
CSMD1	0	.	GRCh37	8	3226890	3226890	+	Missense_Mutation	SNP	G	G	C	rs768811613	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2785C>G	p.Leu929Val	p.L929V	ENST00000537824	19/70	24	18	5	22	22	0	CSMD1,missense_variant,p.Leu930Val,ENST00000400186,;CSMD1,missense_variant,p.Leu929Val,ENST00000542608,;CSMD1,missense_variant,p.Leu930Val,ENST00000602723,;CSMD1,missense_variant,p.Leu410Val,ENST00000335551,;CSMD1,missense_variant,p.Leu929Val,ENST00000537824,;CSMD1,missense_variant,p.Leu930Val,ENST00000520002,;CSMD1,missense_variant,p.Leu929Val,ENST00000539096,;CSMD1,missense_variant,p.Leu930Val,ENST00000602557,;RP11-279L11.1,downstream_gene_variant,,ENST00000520815,;CSMD1,splice_region_variant,,ENST00000523488,;	C	ENSG00000183117	ENST00000537824	Transcript	missense_variant	2785	2785	929	L/V	Cta/Gta	rs768811613	.	.	-1	CSMD1	HGNC	14026	protein_coding	YES	CCDS55189.1	ENSP00000441462	.	F5GZ18_HUMAN	UPI0001B723C6	.	.	probably_damaging(0.999)	19/70	.	Gene3D:2.60.120.290,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATAGAGCTT	.	5	BLCA
WHSC1L1	0	.	GRCh37	8	38172276	38172276	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2131G>T	p.Gly711Cys	p.G711C	ENST00000317025	12/24	55	51	4	43	43	0	WHSC1L1,missense_variant,p.Gly711Cys,ENST00000433384,;WHSC1L1,missense_variant,p.Gly711Cys,ENST00000317025,;WHSC1L1,missense_variant,p.Gly711Cys,ENST00000527502,;WHSC1L1,downstream_gene_variant,,ENST00000316985,;WHSC1L1,downstream_gene_variant,,ENST00000528627,;WHSC1L1,downstream_gene_variant,,ENST00000525081,;	A	ENSG00000147548	ENST00000317025	Transcript	missense_variant	2649	2131	711	G/C	Ggt/Tgt	.	.	.	-1	WHSC1L1	HGNC	12767	protein_coding	YES	CCDS43729.1	ENSP00000313983	NSD3_HUMAN	E9PQ95_HUMAN,E9PKA2_HUMAN	UPI000006F297	.	deleterious(0)	probably_damaging(0.968)	12/24	.	PROSITE_profiles:PS50016,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF301,PROSITE_patterns:PS01359,Gene3D:3.30.40.10,SMART_domains:SM00249,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCACCAGAGC	.	2	BLCA
KAT6A	0	.	GRCh37	8	41906295	41906296	+	Frame_Shift_Del	DEL	TC	TC	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	TC	TC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200_201delGAinsT	p.Gly67ValfsTer14	p.G67Vfs*14	ENST00000396930	3/18	267	237	30	202	202	0	KAT6A,frameshift_variant,p.Gly67ValfsTer14,ENST00000396930,;KAT6A,frameshift_variant,p.Gly67ValfsTer14,ENST00000406337,;KAT6A,frameshift_variant,p.Gly67ValfsTer14,ENST00000485568,;KAT6A,frameshift_variant,p.Gly67ValfsTer14,ENST00000265713,;KAT6A,downstream_gene_variant,,ENST00000426524,;	A	ENSG00000083168	ENST00000396930	Transcript	frameshift_variant	744-745	200-201	67	G/X	gGA/gT	.	.	.	-1	KAT6A	HGNC	13013	protein_coding	YES	CCDS6124.1	ENSP00000380136	KAT6A_HUMAN	A5PKX7_HUMAN	UPI000013D666	.	.	.	3/18	.	hmmpanther:PTHR10615:SF26,hmmpanther:PTHR10615	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*	ATTGAGTCCTTTA	.	4	BLCA
SLC20A2	0	.	GRCh37	8	42329899	42329899	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10G>C	p.Asp4His	p.D4H	ENST00000342228	2/11	95	86	9	94	94	0	SLC20A2,missense_variant,p.Asp4His,ENST00000518384,;SLC20A2,missense_variant,p.Asp4His,ENST00000522707,;SLC20A2,missense_variant,p.Asp4His,ENST00000518717,;SLC20A2,missense_variant,p.Asp4His,ENST00000520179,;SLC20A2,missense_variant,p.Asp4His,ENST00000342228,;SLC20A2,missense_variant,p.Asp4His,ENST00000520262,;SLC20A2,missense_variant,p.Asp4His,ENST00000517366,;SLC20A2,non_coding_transcript_exon_variant,,ENST00000524237,;SLC20A2,missense_variant,p.Asp4His,ENST00000524211,;	G	ENSG00000168575	ENST00000342228	Transcript	missense_variant	380	10	4	D/H	Gat/Cat	.	.	.	-1	SLC20A2	HGNC	10947	protein_coding	YES	CCDS6132.1	ENSP00000340465	S20A2_HUMAN	E5RJW9_HUMAN,E5RIX1_HUMAN,E5RGJ6_HUMAN,E5RGG8_HUMAN	UPI000006DC58	.	deleterious(0.02)	benign(0.004)	2/11	.	hmmpanther:PTHR11101,hmmpanther:PTHR11101:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CTCATCCATGG	.	2	BLCA
RP1	0	.	GRCh37	8	55542217	55542217	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5775C>T	p.%3D	p.I1925I	ENST00000220676	4/4	141	135	6	112	112	0	RP1,synonymous_variant,p.%3D,ENST00000220676,;	T	ENSG00000104237	ENST00000220676	Transcript	synonymous_variant	5923	5775	1925	I	atC/atT	.	.	.	1	RP1	HGNC	10263	protein_coding	YES	CCDS6160.1	ENSP00000220676	RP1_HUMAN	A0FDN2_HUMAN	UPI000013455B	.	.	.	4/4	.	hmmpanther:PTHR23005:SF4,hmmpanther:PTHR23005	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ATTATCCAACC	.	2	BLCA
ANGPT2	0	.	GRCh37	8	6377388	6377388	+	Missense_Mutation	SNP	G	G	C	rs149555402	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927C>G	p.Ile309Met	p.I309M	ENST00000325203	5/9	197	172	25	203	203	0	ANGPT2,missense_variant,p.Ile308Met,ENST00000523120,;ANGPT2,missense_variant,p.Ile308Met,ENST00000415216,;ANGPT2,missense_variant,p.Ile257Met,ENST00000338312,;ANGPT2,missense_variant,p.Ile309Met,ENST00000325203,;MCPH1,intron_variant,,ENST00000344683,;MCPH1,intron_variant,,ENST00000519221,;MCPH1,intron_variant,,ENST00000521129,;	C	ENSG00000091879	ENST00000325203	Transcript	missense_variant	1402	927	309	I/M	atC/atG	rs149555402,COSM3703418,COSM3703419	.	.	-1	ANGPT2	HGNC	485	protein_coding	YES	CCDS5958.1	ENSP00000314897	ANGP2_HUMAN	Q9H4C0_HUMAN	UPI0000034767	.	tolerated(0.24)	benign(0.124)	5/9	.	PROSITE_profiles:PS51406,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF199,Gene3D:3.90.215.10,Pfam_domain:PF00147,SMART_domains:SM00186,Superfamily_domains:SSF56496	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTGATCTC	by1000G	4	BLCA
MYBL1	0	.	GRCh37	8	67478985	67478985	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1884C>G	p.%3D	p.V628V	ENST00000522677	14/16	32	27	4	26	26	0	MYBL1,synonymous_variant,p.%3D,ENST00000522677,;MYBL1,synonymous_variant,p.%3D,ENST00000524176,;MYBL1,synonymous_variant,p.%3D,ENST00000517885,;MYBL1,non_coding_transcript_exon_variant,,ENST00000522419,;	C	ENSG00000185697	ENST00000522677	Transcript	synonymous_variant	2295	1884	628	V	gtC/gtG	.	.	.	-1	MYBL1	HGNC	7547	protein_coding	YES	CCDS47867.1	ENSP00000429633	MYBA_HUMAN	Q6LD85_HUMAN	UPI000012FADE	.	.	.	14/16	.	Pfam_domain:PF09316,hmmpanther:PTHR10641:SF153,hmmpanther:PTHR10641	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTAAGACTAG	.	4	BLCA
COPS5	0	.	GRCh37	8	67955458	67955458	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*10G>C	.	.	ENST00000357849	8/8	74	62	12	55	55	0	COPS5,3_prime_UTR_variant,,ENST00000517736,;COPS5,3_prime_UTR_variant,,ENST00000357849,;COPS5,non_coding_transcript_exon_variant,,ENST00000523086,;PPP1R42,intron_variant,,ENST00000517834,;COPS5,3_prime_UTR_variant,,ENST00000518374,;COPS5,non_coding_transcript_exon_variant,,ENST00000521509,;COPS5,non_coding_transcript_exon_variant,,ENST00000521386,;COPS5,downstream_gene_variant,,ENST00000523890,;	G	ENSG00000121022	ENST00000357849	Transcript	3_prime_UTR_variant	1336	.	.	.	.	.	.	.	-1	COPS5	HGNC	2240	protein_coding	YES	CCDS6198.1	ENSP00000350512	CSN5_HUMAN	E5RHF2_HUMAN	UPI000006D7AB	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAGAGA	.	5	BLCA
GDAP1	0	.	GRCh37	8	75274136	75274136	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502G>A	p.Glu168Lys	p.E168K	ENST00000220822	4/6	93	78	14	64	64	0	GDAP1,missense_variant,p.Glu100Lys,ENST00000434412,;GDAP1,missense_variant,p.Glu168Lys,ENST00000220822,;GDAP1,non_coding_transcript_exon_variant,,ENST00000524366,;GDAP1,non_coding_transcript_exon_variant,,ENST00000521096,;GDAP1,non_coding_transcript_exon_variant,,ENST00000520797,;GDAP1,downstream_gene_variant,,ENST00000523640,;GDAP1,upstream_gene_variant,,ENST00000524195,;GDAP1,3_prime_UTR_variant,,ENST00000522568,;	A	ENSG00000104381	ENST00000220822	Transcript	missense_variant	582	502	168	E/K	Gag/Aag	.	.	.	1	GDAP1	HGNC	15968	protein_coding	YES	CCDS34911.1	ENSP00000220822	GDAP1_HUMAN	B4DIH2_HUMAN	UPI00001AE62B	.	tolerated(0.37)	benign(0.192)	4/6	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50405,hmmpanther:PTHR11260:SF127,hmmpanther:PTHR11260	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.S169S|c.507T>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACAGAGTCT	.	5	BLCA
RALYL	0	.	GRCh37	8	85799997	85799997	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>C	p.Gly295Arg	p.G295R	ENST00000517638	8/9	99	90	9	63	63	0	RALYL,missense_variant,p.Gly209Arg,ENST00000523850,;RALYL,missense_variant,p.Gly282Arg,ENST00000521268,;RALYL,missense_variant,p.Gly282Arg,ENST00000522455,;RALYL,missense_variant,p.Gly295Arg,ENST00000517638,;RALYL,missense_variant,p.Gly282Arg,ENST00000521695,;RALYL,missense_variant,p.Gly271Arg,ENST00000518566,;RALYL,intron_variant,,ENST00000521376,;RALYL,intron_variant,,ENST00000518065,;	C	ENSG00000184672	ENST00000517638	Transcript	missense_variant	1007	883	295	G/R	Ggg/Cgg	.	.	.	1	RALYL	HGNC	27036	protein_coding	YES	CCDS55252.1	ENSP00000430128	.	G3V129_HUMAN,E5RIX9_HUMAN,E5RG71_HUMAN	UPI00002108E6	.	tolerated(0.44)	probably_damaging(0.933)	8/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13968,PIRSF_domain:PIRSF037992	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAGATGGGGGT	.	3	BLCA
CNBD1	0	.	GRCh37	8	88365898	88365898	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1187T>G	p.Leu396Arg	p.L396R	ENST00000518476	10/11	68	54	14	48	48	0	CNBD1,missense_variant,p.Leu33Arg,ENST00000521593,;CNBD1,missense_variant,p.Leu88Arg,ENST00000523299,;CNBD1,missense_variant,p.Leu396Arg,ENST00000518476,;	G	ENSG00000176571	ENST00000518476	Transcript	missense_variant	1238	1187	396	L/R	cTt/cGt	COSM1248523,COSM1248524,COSM3901908,COSM197883,COSM3901907,COSM1248522	.	.	1	CNBD1	HGNC	26663	protein_coding	YES	CCDS55259.1	ENSP00000430073	CNBD1_HUMAN	.	UPI000006EA68	.	deleterious(0)	probably_damaging(0.999)	10/11	.	PROSITE_profiles:PS50042,hmmpanther:PTHR11635,hmmpanther:PTHR11635:SF124,Pfam_domain:PF00027,Gene3D:2.60.120.10,Superfamily_domains:SSF51206	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.L396R|c.1187T>G|5,SITE|p.L396R|c.1187T>G|6,CODON|p.L396P|c.1187T>C|4,CODON|p.L396P|c.1187T>C|4	RADIA|MUTECT|MUSE|VARSCANS	GAAACTTAAGG	.	4	BLCA
RUNX1T1	0	.	GRCh37	8	93074908	93074908	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121+32667G>A	.	.	ENST00000436581	.	40	34	6	45	45	0	RUNX1T1,missense_variant,p.Asp40Asn,ENST00000518449,;RUNX1T1,5_prime_UTR_variant,,ENST00000518317,;RUNX1T1,5_prime_UTR_variant,,ENST00000521319,;RUNX1T1,5_prime_UTR_variant,,ENST00000519061,;RUNX1T1,5_prime_UTR_variant,,ENST00000521733,;RUNX1T1,5_prime_UTR_variant,,ENST00000396218,;RUNX1T1,intron_variant,,ENST00000523168,;RUNX1T1,intron_variant,,ENST00000517792,;RUNX1T1,intron_variant,,ENST00000520583,;RUNX1T1,intron_variant,,ENST00000518832,;RUNX1T1,intron_variant,,ENST00000522467,;RUNX1T1,intron_variant,,ENST00000436581,;RUNX1T1,intron_variant,,ENST00000518954,;RUNX1T1,intron_variant,,ENST00000360348,;RUNX1T1,intron_variant,,ENST00000518823,;RUNX1T1,intron_variant,,ENST00000520974,;RUNX1T1,intron_variant,,ENST00000518844,;RUNX1T1,intron_variant,,ENST00000523629,;RUNX1T1,intron_variant,,ENST00000520724,;RUNX1T1,intron_variant,,ENST00000520428,;RUNX1T1,intron_variant,,ENST00000517919,;RUNX1T1,intron_variant,,ENST00000519847,;RUNX1T1,intron_variant,,ENST00000518992,;RUNX1T1,intron_variant,,ENST00000265814,;RUNX1T1,intron_variant,,ENST00000520556,;RUNX1T1,intron_variant,,ENST00000521375,;RUNX1T1,non_coding_transcript_exon_variant,,ENST00000522163,;RUNX1T1,intron_variant,,ENST00000520172,;RUNX1T1,intron_variant,,ENST00000522860,;RUNX1T1,intron_variant,,ENST00000522065,;RUNX1T1,intron_variant,,ENST00000518256,;RUNX1T1,intron_variant,,ENST00000522316,;RUNX1T1,missense_variant,p.Asp40Asn,ENST00000517493,;RUNX1T1,missense_variant,p.Asp40Asn,ENST00000524215,;RUNX1T1,intron_variant,,ENST00000521897,;RUNX1T1,intron_variant,,ENST00000519422,;RUNX1T1,intron_variant,,ENST00000519577,;RUNX1T1,intron_variant,,ENST00000523290,;RUNX1T1,intron_variant,,ENST00000521902,;	T	ENSG00000079102	ENST00000436581	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RUNX1T1	HGNC	1535	protein_coding	YES	CCDS56544.1	ENSP00000402257	MTG8_HUMAN	Q9HBV9_HUMAN,E5RK76_HUMAN,E5RJB3_HUMAN,E5RHJ8_HUMAN,E5RH72_HUMAN,E5RH30_HUMAN,E5RG85_HUMAN	UPI0001D5F276	.	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCATCGCCGG	.	4	BLCA
KIAA1429	0	.	GRCh37	8	95531373	95531373	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2353G>T	p.Glu785Ter	p.E785*	ENST00000297591	9/24	124	103	20	99	99	0	KIAA1429,stop_gained,p.Glu785Ter,ENST00000297591,;KIAA1429,stop_gained,p.Glu785Ter,ENST00000421249,;KIAA1429,stop_gained,p.Glu785Ter,ENST00000437199,;KIAA1429,stop_gained,p.Glu138Ter,ENST00000522263,;	A	ENSG00000164944	ENST00000297591	Transcript	stop_gained	2429	2353	785	E/*	Gaa/Taa	.	.	.	-1	KIAA1429	HGNC	24500	protein_coding	YES	CCDS34923.1	ENSP00000297591	VIR_HUMAN	.	UPI00001BBB23	.	.	.	9/24	.	hmmpanther:PTHR23185:SF0,hmmpanther:PTHR23185	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCACTGG	.	4	BLCA
CCNE2	0	.	GRCh37	8	95902767	95902767	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.329C>G	p.Ser110Ter	p.S110*	ENST00000520509	6/12	229	184	44	175	175	0	CCNE2,stop_gained,p.Ser110Ter,ENST00000308108,;CCNE2,stop_gained,p.Ser110Ter,ENST00000396133,;CCNE2,stop_gained,p.Ser110Ter,ENST00000520509,;CCNE2,upstream_gene_variant,,ENST00000524224,;CCNE2,non_coding_transcript_exon_variant,,ENST00000523476,;CCNE2,missense_variant,p.Phe59Leu,ENST00000521809,;CCNE2,3_prime_UTR_variant,,ENST00000519889,;CCNE2,downstream_gene_variant,,ENST00000517487,;RP11-347C18.1,upstream_gene_variant,,ENST00000391360,;	C	ENSG00000175305	ENST00000520509	Transcript	stop_gained	582	329	110	S/*	tCa/tGa	.	.	.	-1	CCNE2	HGNC	1590	protein_coding	YES	CCDS6264.1	ENSP00000429089	CCNE2_HUMAN	.	UPI00001275CF	.	.	.	6/12	.	hmmpanther:PTHR10177:SF70,hmmpanther:PTHR10177,PIRSF_domain:PIRSF001771,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTTGAACAT	.	4	BLCA
CCDC180	0	.	GRCh37	9	100076963	100076963	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.784G>A	p.Glu262Lys	p.E262K	ENST00000375202	21/51	24	21	3	25	25	0	CCDC180,missense_variant,p.Glu401Lys,ENST00000357054,;CCDC180,missense_variant,p.Glu262Lys,ENST00000375202,;CCDC180,missense_variant,p.Glu262Lys,ENST00000529487,;CCDC180,missense_variant,p.Glu401Lys,ENST00000395220,;CCDC180,missense_variant,p.Glu259Lys,ENST00000411667,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000532526,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000375206,;CCDC180,non_coding_transcript_exon_variant,,ENST00000460482,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000534123,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000529787,;CCDC180,non_coding_transcript_exon_variant,,ENST00000494917,;	A	ENSG00000197816	ENST00000375202	Transcript	missense_variant	2136	784	262	E/K	Gag/Aag	.	.	.	1	CCDC180	HGNC	29303	protein_coding	YES	CCDS35077.2	ENSP00000364348	CC180_HUMAN	B7ZMG3_HUMAN	UPI00016277C6	.	tolerated(0.11)	benign(0.193)	21/51	.	hmmpanther:PTHR21444:SF14,hmmpanther:PTHR21444,Pfam_domain:PF14643	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAAGGAGCTG	.	4	BLCA
TDRD7	0	.	GRCh37	9	100222556	100222556	+	Silent	SNP	C	C	T	rs540915855	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952C>T	p.%3D	p.L318L	ENST00000355295	7/17	81	68	12	58	58	0	TDRD7,synonymous_variant,p.%3D,ENST00000422139,;TDRD7,synonymous_variant,p.%3D,ENST00000355295,;	T	ENSG00000196116	ENST00000355295	Transcript	synonymous_variant	1247	952	318	L	Cta/Tta	rs540915855	.	.	1	TDRD7	HGNC	30831	protein_coding	YES	CCDS6725.1	ENSP00000347444	TDRD7_HUMAN	.	UPI00002114B5	.	.	.	7/17	.	hmmpanther:PTHR22948:SF14,hmmpanther:PTHR22948	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCTATCC	by1000G	5	BLCA
NANS	0	.	GRCh37	9	100843392	100843392	+	Intron	SNP	C	C	G	rs372629755	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.870+28C>G	.	.	ENST00000210444	.	53	46	6	43	43	0	NANS,missense_variant,p.Leu108Val,ENST00000427646,;NANS,intron_variant,,ENST00000210444,;TRIM14,intron_variant,,ENST00000375098,;TRIM14,downstream_gene_variant,,ENST00000342043,;NANS,downstream_gene_variant,,ENST00000415280,;TRIM14,downstream_gene_variant,,ENST00000341469,;TRIM14,non_coding_transcript_exon_variant,,ENST00000478530,;NANS,intron_variant,,ENST00000461452,;NANS,downstream_gene_variant,,ENST00000495319,;	G	ENSG00000095380	ENST00000210444	Transcript	intron_variant	.	.	.	.	.	rs372629755	.	.	1	NANS	HGNC	19237	protein_coding	YES	CCDS6733.1	ENSP00000210444	SIAS_HUMAN	.	UPI000013597F	.	.	.	.	5/5	.	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGTTCTGCTG	.	4	BLCA
CORO2A	0	.	GRCh37	9	100899883	100899883	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289G>C	p.Glu97Gln	p.E97Q	ENST00000343933	3/12	162	140	22	116	116	0	CORO2A,missense_variant,p.Glu97Gln,ENST00000375077,;CORO2A,missense_variant,p.Glu97Gln,ENST00000343933,;	G	ENSG00000106789	ENST00000343933	Transcript	missense_variant	547	289	97	E/Q	Gag/Cag	COSM1553874	.	.	-1	CORO2A	HGNC	2255	protein_coding	YES	CCDS6735.1	ENSP00000343746	COR2A_HUMAN	.	UPI0000127C45	.	deleterious(0.02)	benign(0.035)	3/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF2,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATCTCAAAAT	.	4	BLCA
ABCA1	0	.	GRCh37	9	107553262	107553262	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5868C>G	p.Phe1956Leu	p.F1956L	ENST00000374736	44/50	196	165	31	136	136	0	ABCA1,missense_variant,p.Phe1956Leu,ENST00000374736,;	C	ENSG00000165029	ENST00000374736	Transcript	missense_variant	6263	5868	1956	F/L	ttC/ttG	.	.	.	-1	ABCA1	HGNC	29	protein_coding	YES	CCDS6762.1	ENSP00000363868	ABCA1_HUMAN	Q9NS76_HUMAN,Q9NP93_HUMAN,Q9H002_HUMAN	UPI000013E441	.	deleterious(0.02)	possibly_damaging(0.558)	44/50	.	PROSITE_profiles:PS50893,hmmpanther:PTHR19229:SF34,hmmpanther:PTHR19229,Pfam_domain:PF00005,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTGAAAGT	.	4	BLCA
ZNF462	0	.	GRCh37	9	109689086	109689086	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2893G>C	p.Glu965Gln	p.E965Q	ENST00000277225	3/13	111	97	13	87	87	0	ZNF462,missense_variant,p.Glu965Gln,ENST00000277225,;ZNF462,missense_variant,p.Glu965Gln,ENST00000457913,;ZNF462,intron_variant,,ENST00000472574,;ZNF462,upstream_gene_variant,,ENST00000441147,;RP11-508N12.4,downstream_gene_variant,,ENST00000451160,;ZNF462,upstream_gene_variant,,ENST00000374686,;ZNF462,upstream_gene_variant,,ENST00000497489,;ZNF462,upstream_gene_variant,,ENST00000480607,;	C	ENSG00000148143	ENST00000277225	Transcript	missense_variant	3182	2893	965	E/Q	Gag/Cag	.	.	.	1	ZNF462	HGNC	21684	protein_coding	YES	CCDS35096.1	ENSP00000277225	ZN462_HUMAN	U3KQ68_HUMAN,F5H0Z0_HUMAN	UPI0000470106	.	.	possibly_damaging(0.526)	3/13	.	hmmpanther:PTHR24385:SF52,hmmpanther:PTHR24385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGTGGAGCAG	.	4	BLCA
SVEP1	0	.	GRCh37	9	113234567	113234567	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2636A>G	p.Tyr879Cys	p.Y879C	ENST00000401783	15/48	83	71	12	90	90	0	SVEP1,missense_variant,p.Tyr879Cys,ENST00000401783,;SVEP1,missense_variant,p.Tyr856Cys,ENST00000374469,;SVEP1,missense_variant,p.Tyr879Cys,ENST00000302728,;SVEP1,downstream_gene_variant,,ENST00000374461,;SVEP1,non_coding_transcript_exon_variant,,ENST00000467821,;	C	ENSG00000165124	ENST00000401783	Transcript	missense_variant	2973	2636	879	Y/C	tAc/tGc	.	.	.	-1	SVEP1	HGNC	15985	protein_coding	YES	CCDS48004.1	ENSP00000384917	SVEP1_HUMAN	.	UPI000153DA74	.	.	probably_damaging(0.984)	15/48	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGAGTAATCC	.	4	BLCA
PTBP3	0	.	GRCh37	9	115030431	115030431	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351G>A	p.%3D	p.V117V	ENST00000458258	4/14	98	77	20	67	67	0	PTBP3,synonymous_variant,p.%3D,ENST00000374257,;PTBP3,synonymous_variant,p.%3D,ENST00000210227,;PTBP3,synonymous_variant,p.%3D,ENST00000343327,;PTBP3,synonymous_variant,p.%3D,ENST00000334318,;PTBP3,synonymous_variant,p.%3D,ENST00000374255,;PTBP3,synonymous_variant,p.%3D,ENST00000458258,;RN7SL430P,downstream_gene_variant,,ENST00000464176,;PTBP3,non_coding_transcript_exon_variant,,ENST00000487997,;	T	ENSG00000119314	ENST00000458258	Transcript	synonymous_variant	351	351	117	V	gtG/gtA	.	.	.	-1	PTBP3	HGNC	10253	protein_coding	YES	CCDS59141.1	ENSP00000414921	PTBP3_HUMAN	.	UPI000000DA96	.	.	.	4/14	.	PROSITE_profiles:PS50102,hmmpanther:PTHR11546:SF21,hmmpanther:PTHR11546,Gene3D:3.30.70.330,TIGRFAM_domain:TIGR01649,Pfam_domain:PF13893,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAATTCACCAT	.	5	BLCA
HDHD3	0	.	GRCh37	9	116136181	116136181	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454G>A	p.Glu152Lys	p.E152K	ENST00000238379	2/2	227	181	46	163	163	0	HDHD3,missense_variant,p.Glu152Lys,ENST00000374180,;HDHD3,missense_variant,p.Glu152Lys,ENST00000238379,;BSPRY,downstream_gene_variant,,ENST00000374183,;HDHD3,non_coding_transcript_exon_variant,,ENST00000485934,;BSPRY,downstream_gene_variant,,ENST00000462085,;	T	ENSG00000119431	ENST00000238379	Transcript	missense_variant	1352	454	152	E/K	Gaa/Aaa	.	.	.	-1	HDHD3	HGNC	28171	protein_coding	YES	CCDS6793.1	ENSP00000238379	HDHD3_HUMAN	.	UPI0000073CC1	.	tolerated(0.28)	benign(0.004)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12725,hmmpanther:PTHR12725:SF57,TIGRFAM_domain:TIGR02252,Pfam_domain:PF13419,Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR01549,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGTTCACGCA	.	4	BLCA
ORM2	0	.	GRCh37	9	117092756	117092756	+	Missense_Mutation	SNP	G	G	A	rs201562247	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157G>A	p.Glu53Lys	p.E53K	ENST00000431067	2/6	78	66	11	64	64	0	ORM2,missense_variant,p.Arg191Gln,ENST00000412657,;ORM2,missense_variant,p.Glu53Lys,ENST00000431067,;AKNA,downstream_gene_variant,,ENST00000307564,;AKNA,downstream_gene_variant,,ENST00000374079,;ORM1,downstream_gene_variant,,ENST00000259396,;	A	ENSG00000228278	ENST00000431067	Transcript	missense_variant	193	157	53	E/K	Gag/Aag	rs201562247	.	.	1	ORM2	HGNC	8499	protein_coding	YES	CCDS6804.1	ENSP00000394936	A1AG2_HUMAN	.	UPI0000052DC9	.	deleterious(0.01)	benign(0.127)	2/6	.	hmmpanther:PTHR11967:SF2,hmmpanther:PTHR11967,Gene3D:2.40.128.20,Pfam_domain:PF00061,PIRSF_domain:PIRSF036899,Superfamily_domains:SSF50814	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAACGAGGAG	byCluster|by1000G	4	BLCA
PAPPA	0	.	GRCh37	9	118949460	118949460	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>T	p.Ser148Leu	p.S148L	ENST00000328252	2/22	74	65	9	60	60	0	PAPPA,missense_variant,p.Ser148Leu,ENST00000328252,;PAPPA,upstream_gene_variant,,ENST00000534838,;	T	ENSG00000182752	ENST00000328252	Transcript	missense_variant	812	443	148	S/L	tCa/tTa	.	.	.	1	PAPPA	HGNC	8602	protein_coding	YES	CCDS6813.1	ENSP00000330658	PAPP1_HUMAN	Q5QFB7_HUMAN,F5GZ19_HUMAN	UPI00001E0589	.	tolerated(0.56)	possibly_damaging(0.637)	2/22	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF347,Gene3D:2.60.120.200,Pfam_domain:PF13385,SMART_domains:SM00560,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATCTCACGTG	.	4	BLCA
CNTRL	0	.	GRCh37	9	123933782	123933782	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6373G>A	p.Glu2125Lys	p.E2125K	ENST00000373855	40/44	34	30	4	19	19	0	CNTRL,missense_variant,p.Glu2125Lys,ENST00000373855,;CNTRL,missense_variant,p.Glu1573Lys,ENST00000373850,;CNTRL,missense_variant,p.Glu2125Lys,ENST00000238341,;CNTRL,non_coding_transcript_exon_variant,,ENST00000373845,;	A	ENSG00000119397	ENST00000373855	Transcript	missense_variant	6633	6373	2125	E/K	Gag/Aag	.	.	.	1	CNTRL	HGNC	1858	protein_coding	YES	CCDS35118.1	ENSP00000362962	CNTRL_HUMAN	Q5JVD3_HUMAN,Q5JVD6_HUMAN,Q5JVD1_HUMAN	UPI0000211718	.	.	probably_damaging(0.96)	40/44	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18877,hmmpanther:PTHR18877:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAGGAGCTC	.	2	BLCA
RC3H2	0	.	GRCh37	9	125652518	125652518	+	Intron	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583+73G>A	.	.	ENST00000373670	.	24	20	4	11	11	0	RC3H2,stop_retained_variant,p.%3D,ENST00000471874,;RC3H2,intron_variant,,ENST00000423239,;RC3H2,intron_variant,,ENST00000357244,;RC3H2,intron_variant,,ENST00000373670,;RC3H2,intron_variant,,ENST00000373665,;RC3H2,intron_variant,,ENST00000335387,;RC3H2,non_coding_transcript_exon_variant,,ENST00000478216,;RC3H2,intron_variant,,ENST00000498479,;	T	ENSG00000056586	ENST00000373670	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RC3H2	HGNC	21461	protein_coding	YES	CCDS43874.1	ENSP00000362774	RC3H2_HUMAN	.	UPI0000048D91	.	.	.	.	3/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGATTCACCGA	.	4	BLCA
LRSAM1	0	.	GRCh37	9	130241761	130241761	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880G>A	p.Glu294Lys	p.E294K	ENST00000323301	12/25	32	27	5	29	29	0	LRSAM1,missense_variant,p.Glu294Lys,ENST00000300417,;LRSAM1,missense_variant,p.Glu294Lys,ENST00000323301,;LRSAM1,missense_variant,p.Glu294Lys,ENST00000373324,;LRSAM1,missense_variant,p.Glu294Lys,ENST00000373322,;LRSAM1,non_coding_transcript_exon_variant,,ENST00000498513,;LRSAM1,non_coding_transcript_exon_variant,,ENST00000483302,;LRSAM1,upstream_gene_variant,,ENST00000472068,;	A	ENSG00000148356	ENST00000323301	Transcript	missense_variant	1484	880	294	E/K	Gag/Aag	.	.	.	1	LRSAM1	HGNC	25135	protein_coding	YES	CCDS6873.1	ENSP00000322937	LRSM1_HUMAN	.	UPI000013DB12	.	tolerated(0.22)	possibly_damaging(0.871)	12/25	.	hmmpanther:PTHR23155:SF420,hmmpanther:PTHR23155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGATGAGATC	.	2	BLCA
ST6GALNAC4	0	.	GRCh37	9	130674733	130674733	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.425A>C	p.Lys142Thr	p.K142T	ENST00000335791	4/6	93	77	16	89	89	0	ST6GALNAC4,missense_variant,p.Lys142Thr,ENST00000335791,;ST6GALNAC4,missense_variant,p.Lys58Thr,ENST00000343609,;ST6GALNAC4,missense_variant,p.Lys58Thr,ENST00000361444,;ST6GALNAC4,non_coding_transcript_exon_variant,,ENST00000495983,;ST6GALNAC4,non_coding_transcript_exon_variant,,ENST00000483438,;ST6GALNAC4,intron_variant,,ENST00000467674,;ST6GALNAC4,downstream_gene_variant,,ENST00000479747,;ST6GALNAC4,upstream_gene_variant,,ENST00000474282,;	G	ENSG00000136840	ENST00000335791	Transcript	missense_variant	701	425	142	K/T	aAg/aCg	.	.	.	-1	ST6GALNAC4	HGNC	17846	protein_coding	YES	CCDS6883.1	ENSP00000336733	SIA7D_HUMAN	A8K7N4_HUMAN,A6NJX0_HUMAN	UPI0000001658	.	.	benign(0.088)	4/6	.	hmmpanther:PTHR13713:SF35,hmmpanther:PTHR13713,Pfam_domain:PF00777	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCTTCTGG	.	5	BLCA
NAIF1	0	.	GRCh37	9	130829073	130829073	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.308G>A	p.Gly103Glu	p.G103E	ENST00000373078	1/2	76	59	17	65	65	0	NAIF1,missense_variant,p.Gly103Glu,ENST00000373078,;SLC25A25,upstream_gene_variant,,ENST00000373068,;SLC25A25,upstream_gene_variant,,ENST00000373069,;NAIF1,intron_variant,,ENST00000466139,;NAIF1,upstream_gene_variant,,ENST00000470245,;NAIF1,upstream_gene_variant,,ENST00000488519,;	T	ENSG00000171169	ENST00000373078	Transcript	missense_variant	528	308	103	G/E	gGa/gAa	COSM607583	.	.	-1	NAIF1	HGNC	25446	protein_coding	YES	CCDS6889.1	ENSP00000362170	NAIF1_HUMAN	.	UPI0000160C94	.	tolerated_low_confidence(0.06)	benign(0.177)	1/2	.	hmmpanther:PTHR23098,hmmpanther:PTHR23098:SF5,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCGTCC	.	5	BLCA
NAIF1	0	.	GRCh37	9	130829083	130829083	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298G>A	p.Glu100Lys	p.E100K	ENST00000373078	1/2	80	61	18	69	69	0	NAIF1,missense_variant,p.Glu100Lys,ENST00000373078,;SLC25A25,upstream_gene_variant,,ENST00000373068,;SLC25A25,upstream_gene_variant,,ENST00000373069,;NAIF1,intron_variant,,ENST00000466139,;NAIF1,upstream_gene_variant,,ENST00000470245,;NAIF1,upstream_gene_variant,,ENST00000488519,;	T	ENSG00000171169	ENST00000373078	Transcript	missense_variant	518	298	100	E/K	Gag/Aag	.	.	.	-1	NAIF1	HGNC	25446	protein_coding	YES	CCDS6889.1	ENSP00000362170	NAIF1_HUMAN	.	UPI0000160C94	.	tolerated_low_confidence(0.59)	benign(0.054)	1/2	.	hmmpanther:PTHR23098,hmmpanther:PTHR23098:SF5,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGTGG	.	5	BLCA
SPTAN1	0	.	GRCh37	9	131395906	131395906	+	3'UTR	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*293C>T	.	.	ENST00000372739	57/57	123	106	17	91	91	0	SPTAN1,3_prime_UTR_variant,,ENST00000358161,;SPTAN1,3_prime_UTR_variant,,ENST00000372739,;SPTAN1,3_prime_UTR_variant,,ENST00000372731,;WDR34,downstream_gene_variant,,ENST00000372715,;WDR34,downstream_gene_variant,,ENST00000451652,;WDR34,downstream_gene_variant,,ENST00000419989,;WDR34,downstream_gene_variant,,ENST00000473486,;WDR34,downstream_gene_variant,,ENST00000480613,;WDR34,downstream_gene_variant,,ENST00000483181,;	T	ENSG00000197694	ENST00000372739	Transcript	3_prime_UTR_variant	7837	.	.	.	.	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	.	.	57/57	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTTCATGTA	.	2	BLCA
RAPGEF1	0	.	GRCh37	9	134463382	134463382	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2581G>C	p.Glu861Gln	p.E861Q	ENST00000372190	18/24	29	24	4	21	21	0	RAPGEF1,missense_variant,p.Glu271Gln,ENST00000414781,;RAPGEF1,missense_variant,p.Glu861Gln,ENST00000372190,;RAPGEF1,missense_variant,p.Glu860Gln,ENST00000372195,;RAPGEF1,missense_variant,p.Glu843Gln,ENST00000372189,;	G	ENSG00000107263	ENST00000372190	Transcript	missense_variant	2740	2581	861	E/Q	Gag/Cag	.	.	.	-1	RAPGEF1	HGNC	4568	protein_coding	YES	CCDS48048.1	ENSP00000361264	RPGF1_HUMAN	Q5JUE5_HUMAN	UPI0000074689	.	tolerated(0.22)	possibly_damaging(0.623)	18/24	.	Superfamily_domains:0041591,SMART_domains:SM00147,Pfam_domain:PF00617,Gene3D:2ii0A02,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF40,PROSITE_profiles:PS50009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCATGGC	.	5	BLCA
TTF1	0	.	GRCh37	9	135266219	135266219	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1988-1G>A	.	p.X663_splice	ENST00000334270	.	136	119	16	105	104	0	TTF1,splice_acceptor_variant,,ENST00000334270,;	T	ENSG00000125482	ENST00000334270	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	TTF1	HGNC	12397	protein_coding	YES	CCDS6948.1	ENSP00000333920	TTF1_HUMAN	.	UPI00001B55A7	.	.	.	.	6/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R666C|c.1996C>T|3	RADIA|MUSE|VARSCANS	TCTTTCTGTAG	.	3	BLCA
BARHL1	0	.	GRCh37	9	135458245	135458245	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.61G>A	p.Ala21Thr	p.A21T	ENST00000263610	1/3	124	95	29	83	83	0	BARHL1,missense_variant,p.Ala21Thr,ENST00000542090,;BARHL1,missense_variant,p.Ala21Thr,ENST00000263610,;	A	ENSG00000125492	ENST00000263610	Transcript	missense_variant	674	61	21	A/T	Gcc/Acc	COSM3905111	.	.	1	BARHL1	HGNC	953	protein_coding	YES	CCDS6950.1	ENSP00000263610	BARH1_HUMAN	.	UPI0000126AD2	.	tolerated_low_confidence(0.12)	benign(0.019)	1/3	.	hmmpanther:PTHR24330:SF8,hmmpanther:PTHR24330	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCCGCCCTT	.	5	BLCA
MED22	0	.	GRCh37	9	136214954	136214954	+	5'Flank	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000491289	.	29	25	4	23	23	0	MED22,5_prime_UTR_variant,,ENST00000344469,;MED22,5_prime_UTR_variant,,ENST00000343730,;MED22,5_prime_UTR_variant,,ENST00000494177,;MED22,5_prime_UTR_variant,,ENST00000371999,;MED22,5_prime_UTR_variant,,ENST00000457204,;SURF1,downstream_gene_variant,,ENST00000371974,;MED22,upstream_gene_variant,,ENST00000476080,;RPL7A,upstream_gene_variant,,ENST00000426651,;RPL7A,upstream_gene_variant,,ENST00000315731,;MED22,upstream_gene_variant,,ENST00000491289,;RPL7A,upstream_gene_variant,,ENST00000323345,;MED22,upstream_gene_variant,,ENST00000446777,;SNORD36C,upstream_gene_variant,,ENST00000516733,;SNORD24,upstream_gene_variant,,ENST00000383884,;SNORD36A,upstream_gene_variant,,ENST00000362874,;SNORD36B,upstream_gene_variant,,ENST00000363961,;RPL7A,upstream_gene_variant,,ENST00000496554,;RPL7A,upstream_gene_variant,,ENST00000468019,;RPL7A,upstream_gene_variant,,ENST00000485706,;RPL7A,upstream_gene_variant,,ENST00000489392,;SURF1,downstream_gene_variant,,ENST00000495952,;MED22,upstream_gene_variant,,ENST00000471524,;RPL7A,upstream_gene_variant,,ENST00000463740,;RPL7A,upstream_gene_variant,,ENST00000492798,;MED22,non_coding_transcript_exon_variant,,ENST00000482295,;SURF1,downstream_gene_variant,,ENST00000437995,;	G	ENSG00000148297	ENST00000491289	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	396	-1	MED22	HGNC	11477	protein_coding	YES	CCDS6963.1	ENSP00000420393	MED22_HUMAN	Q5T8T8_HUMAN,Q5T8T6_HUMAN,E9PGW7_HUMAN,E7EN96_HUMAN	UPI000013623C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAGCCC	.	4	BLCA
ADAMTS13	0	.	GRCh37	9	136323136	136323136	+	Missense_Mutation	SNP	C	C	T	rs781854383	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3997C>T	p.Pro1333Ser	p.P1333S	ENST00000371929	28/29	74	66	8	53	53	0	ADAMTS13,missense_variant,p.Pro1246Ser,ENST00000356589,;ADAMTS13,missense_variant,p.Pro1333Ser,ENST00000371929,;ADAMTS13,missense_variant,p.Pro129Ser,ENST00000371910,;ADAMTS13,missense_variant,p.Pro1277Ser,ENST00000355699,;ADAMTS13,3_prime_UTR_variant,,ENST00000371916,;CACFD1,upstream_gene_variant,,ENST00000540581,;CACFD1,upstream_gene_variant,,ENST00000291722,;CACFD1,upstream_gene_variant,,ENST00000542192,;CACFD1,upstream_gene_variant,,ENST00000444798,;CACFD1,upstream_gene_variant,,ENST00000316948,;ADAMTS13,intron_variant,,ENST00000485925,;CACFD1,upstream_gene_variant,,ENST00000474734,;CACFD1,upstream_gene_variant,,ENST00000489519,;	T	ENSG00000160323	ENST00000371929	Transcript	missense_variant	4441	3997	1333	P/S	Ccg/Tcg	rs781854383	.	.	1	ADAMTS13	HGNC	1366	protein_coding	YES	CCDS6970.1	ENSP00000360997	ATS13_HUMAN	Q6QNA4_HUMAN,B3KWF7_HUMAN	UPI0000000DAD	.	deleterious(0.02)	benign(0.228)	28/29	.	Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTCCGCAC	.	4	BLCA
LCN9	0	.	GRCh37	9	138556079	138556079	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168G>A	p.%3D	p.L56L	ENST00000277526	2/7	95	81	14	85	85	0	LCN9,synonymous_variant,p.%3D,ENST00000277526,;LCN9,non_coding_transcript_exon_variant,,ENST00000430290,;LCN9,upstream_gene_variant,,ENST00000554343,;	A	ENSG00000148386	ENST00000277526	Transcript	synonymous_variant	168	168	56	L	ctG/ctA	.	.	.	1	LCN9	HGNC	17442	protein_coding	YES	CCDS56593.1	ENSP00000277526	LCN9_HUMAN	.	UPI00003779EE	.	.	.	2/7	.	hmmpanther:PTHR11430:SF28,hmmpanther:PTHR11430,Pfam_domain:PF00061,Gene3D:2.40.128.20,Superfamily_domains:SSF50814	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTGAGGGT	.	4	BLCA
CAMSAP1	0	.	GRCh37	9	138703110	138703110	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*45G>C	.	.	ENST00000389532	17/17	14	9	4	12	12	0	CAMSAP1,3_prime_UTR_variant,,ENST00000389532,;CAMSAP1,3_prime_UTR_variant,,ENST00000312405,;CAMSAP1,3_prime_UTR_variant,,ENST00000409386,;CAMSAP1,non_coding_transcript_exon_variant,,ENST00000483991,;CAMSAP1,downstream_gene_variant,,ENST00000482664,;CAMSAP1,downstream_gene_variant,,ENST00000487868,;	G	ENSG00000130559	ENST00000389532	Transcript	3_prime_UTR_variant	4919	.	.	.	.	.	.	.	-1	CAMSAP1	HGNC	19946	protein_coding	YES	CCDS35176.2	ENSP00000374183	CAMP1_HUMAN	.	UPI0000EDA283	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GGCATCATTTA	.	4	BLCA
TPRN	0	.	GRCh37	9	140087040	140087040	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1829A>T	p.Glu610Val	p.E610V	ENST00000409012	2/4	31	28	3	23	23	0	TPRN,missense_variant,p.Glu610Val,ENST00000409012,;TPRN,missense_variant,p.Glu549Val,ENST00000321773,;TPRN,missense_variant,p.Glu408Val,ENST00000333046,;ANAPC2,upstream_gene_variant,,ENST00000323927,;SSNA1,downstream_gene_variant,,ENST00000322310,;SSNA1,downstream_gene_variant,,ENST00000464553,;SSNA1,downstream_gene_variant,,ENST00000459860,;TPRN,downstream_gene_variant,,ENST00000541945,;SSNA1,downstream_gene_variant,,ENST00000463511,;TPRN,non_coding_transcript_exon_variant,,ENST00000477345,;	A	ENSG00000176058	ENST00000409012	Transcript	missense_variant	1916	1829	610	E/V	gAg/gTg	.	.	.	-1	TPRN	HGNC	26894	protein_coding	YES	CCDS56594.1	ENSP00000387100	TPRN_HUMAN	Q86WR5_HUMAN	UPI0001722188	.	deleterious(0.02)	benign(0.371)	2/4	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21685:SF1,hmmpanther:PTHR21685	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCCTCCTCC	.	2	BLCA
NELFB	0	.	GRCh37	9	140151363	140151363	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454G>C	p.Asp152His	p.D152H	ENST00000343053	4/13	75	67	7	58	58	0	NELFB,missense_variant,p.Asp152His,ENST00000343053,;C9orf173,downstream_gene_variant,,ENST00000412566,;C9orf173,downstream_gene_variant,,ENST00000388931,;	C	ENSG00000188986	ENST00000343053	Transcript	missense_variant	791	454	152	D/H	Gac/Cac	.	.	.	1	NELFB	HGNC	24324	protein_coding	YES	CCDS7040.1	ENSP00000339495	NELFB_HUMAN	.	UPI0000070699	.	deleterious(0.05)	probably_damaging(0.945)	4/13	.	hmmpanther:PTHR13503,Pfam_domain:PF06209	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCAAGACAAC	.	4	BLCA
CACNA1B	0	.	GRCh37	9	140878631	140878631	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1698C>G	p.Ile566Met	p.I566M	ENST00000371372	13/47	13	8	5	10	10	0	CACNA1B,missense_variant,p.Ile567Met,ENST00000371355,;CACNA1B,missense_variant,p.Ile567Met,ENST00000371357,;CACNA1B,missense_variant,p.Ile566Met,ENST00000277551,;CACNA1B,missense_variant,p.Ile566Met,ENST00000371363,;CACNA1B,missense_variant,p.Ile566Met,ENST00000371372,;CACNA1B,5_prime_UTR_variant,,ENST00000277549,;	G	ENSG00000148408	ENST00000371372	Transcript	missense_variant	1843	1698	566	I/M	atC/atG	.	.	.	1	CACNA1B	HGNC	1389	protein_coding	YES	CCDS59522.1	ENSP00000360423	CAC1B_HUMAN	Q9HBI3_HUMAN,Q9HBH4_HUMAN,Q9HBG3_HUMAN,Q9HBG2_HUMAN,Q9HAT5_HUMAN,Q9HAT4_HUMAN	UPI0000127267	.	deleterious(0.04)	benign(0.118)	13/47	.	Superfamily_domains:SSF81324,Gene3D:1.20.120.350,Pfam_domain:PF00520,hmmpanther:PTHR10037:SF161,hmmpanther:PTHR10037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GCCATCAAGCC	.	4	BLCA
BNC2	0	.	GRCh37	9	16870721	16870721	+	5'Flank	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000380672	.	27	24	3	19	19	0	BNC2,5_prime_UTR_variant,,ENST00000380667,;BNC2,5_prime_UTR_variant,,ENST00000380666,;BNC2,5_prime_UTR_variant,,ENST00000486514,;BNC2,upstream_gene_variant,,ENST00000380672,;BNC2,5_prime_UTR_variant,,ENST00000484726,;	G	ENSG00000173068	ENST00000380672	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	17	-1	BNC2	HGNC	30988	protein_coding	YES	CCDS6482.2	ENSP00000370047	BNC2_HUMAN	S4R351_HUMAN,Q06HC7_HUMAN,Q06HC2_HUMAN,Q06HB9_HUMAN,D3DRJ1_HUMAN	UPI000035E7B0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTCGGCCG	.	2	BLCA
KLHL9	0	.	GRCh37	9	21333682	21333682	+	Missense_Mutation	SNP	G	G	A	rs772072891	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1177C>T	p.His393Tyr	p.H393Y	ENST00000359039	1/1	97	83	14	80	80	0	KLHL9,missense_variant,p.His325Tyr,ENST00000537938,;KLHL9,missense_variant,p.His393Tyr,ENST00000359039,;	A	ENSG00000198642	ENST00000359039	Transcript	missense_variant	1698	1177	393	H/Y	Cac/Tac	rs772072891	.	.	-1	KLHL9	HGNC	18732	protein_coding	YES	CCDS6503.1	ENSP00000351933	KLHL9_HUMAN	Q9H8J3_HUMAN,Q7Z350_HUMAN,Q58EZ4_HUMAN	UPI0000049FCF	.	deleterious(0)	probably_damaging(0.94)	1/1	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF68,Gene3D:1k3iA02,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAGTGAAAGA	.	4	BLCA
CDKN2A	0	.	GRCh37	9	21971124	21971125	+	Frame_Shift_Del	DEL	GA	GA	-	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	GA	GA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233_234delTC	p.Leu78HisfsTer41	p.L78Hfs*41	ENST00000498124	2/4	35	24	11	25	25	0	CDKN2A,frameshift_variant,p.Leu27HisfsTer41,ENST00000578845,;CDKN2A,frameshift_variant,p.His93ProfsTer67,ENST00000579755,;CDKN2A,frameshift_variant,p.Leu27HisfsTer41,ENST00000494262,;CDKN2A,frameshift_variant,p.Leu27HisfsTer41,ENST00000498628,;CDKN2A,frameshift_variant,p.His93ProfsTer54,ENST00000530628,;CDKN2A,frameshift_variant,p.Leu78HisfsTer41,ENST00000446177,;CDKN2A,frameshift_variant,p.Leu78HisfsTer41,ENST00000304494,;CDKN2A,frameshift_variant,p.His134ProfsTer67,ENST00000361570,;CDKN2A,frameshift_variant,p.Leu78HisfsTer41,ENST00000498124,;CDKN2A,frameshift_variant,p.Leu27HisfsTer41,ENST00000479692,;CDKN2A,frameshift_variant,p.Leu78HisfsTer41,ENST00000579122,;CDKN2A,frameshift_variant,p.Leu27HisfsTer41,ENST00000497750,;C9orf53,downstream_gene_variant,,ENST00000441769,;CDKN2A,non_coding_transcript_exon_variant,,ENST00000380150,;CDKN2A,upstream_gene_variant,,ENST00000577854,;CDKN2A,3_prime_UTR_variant,,ENST00000380151,;RP11-145E5.5,intron_variant,,ENST00000404796,;	-	ENSG00000147889	ENST00000498124	Transcript	frameshift_variant	272-273	233-234	78	L/X	cTC/c	COSM12518,COSM128615,COSM128616	.	.	-1	CDKN2A	HGNC	1787	protein_coding	YES	CCDS56565.1	ENSP00000418915	CD2A1_HUMAN	Q9UPB7_HUMAN	UPI0001565711	.	.	.	2/4	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24144:SF30,hmmpanther:PTHR24144,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	deletion	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.L78fs*41|c.233_234delTC|6,CODON|p.0?|c.1_471del471|15,CODON|p.R80*|c.237_238CC>TT|10,CODON|p.L78fs*41|c.231_232delTC|5,BUFFER|p.V82M|c.244G>A|3,BUFFER|p.P81L|c.242C>T|9,BUFFER|p.R80Q|c.239G>A|3,BUFFER|p.R80*|c.238C>T|116,BUFFER|p.P135L|c.404C>T|29,BUFFER|p.R80*|c.238C>T|14,BUFFER|p.R80*|c.238C>T|31,BUFFER|p.A76V|c.227C>T|3,BUFFER|p.A76T|c.226G>A|3	INDELOCATOR|VARSCANI	TCGGGTGAGAGTG	.	2	BLCA
DMRTA1	0	.	GRCh37	9	22451849	22451849	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1454C>A	p.Ser485Tyr	p.S485Y	ENST00000325870	2/2	86	74	12	75	75	0	DMRTA1,missense_variant,p.Ser485Tyr,ENST00000325870,;	A	ENSG00000176399	ENST00000325870	Transcript	missense_variant	1679	1454	485	S/Y	tCc/tAc	.	.	.	1	DMRTA1	HGNC	13826	protein_coding	YES	CCDS6514.1	ENSP00000319651	DMRTA_HUMAN	.	UPI000014178A	.	deleterious(0.02)	benign(0.091)	2/2	.	hmmpanther:PTHR12322,hmmpanther:PTHR12322:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCCAGTA	.	4	BLCA
TEK	0	.	GRCh37	9	27197399	27197399	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1711G>A	p.Glu571Lys	p.E571K	ENST00000380036	12/23	126	104	21	124	124	0	TEK,missense_variant,p.Glu528Lys,ENST00000406359,;TEK,missense_variant,p.Glu424Lys,ENST00000519097,;TEK,missense_variant,p.Glu381Lys,ENST00000519080,;TEK,missense_variant,p.Glu571Lys,ENST00000380036,;RNA5SP280,upstream_gene_variant,,ENST00000411230,;	A	ENSG00000120156	ENST00000380036	Transcript	missense_variant	2153	1711	571	E/K	Gaa/Aaa	.	.	.	1	TEK	HGNC	11724	protein_coding	YES	CCDS6519.1	ENSP00000369375	TIE2_HUMAN	.	UPI000021121E	.	tolerated(0.83)	benign(0.007)	12/23	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF125,hmmpanther:PTHR24416,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCGGAAGAT	.	5	BLCA
LINGO2	0	.	GRCh37	9	27949815	27949815	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.855C>G	p.Ile285Met	p.I285M	ENST00000379992	6/6	117	94	22	79	79	0	LINGO2,missense_variant,p.Ile285Met,ENST00000308675,;LINGO2,missense_variant,p.Ile285Met,ENST00000379992,;	C	ENSG00000174482	ENST00000379992	Transcript	missense_variant	1305	855	285	I/M	atC/atG	.	.	.	-1	LINGO2	HGNC	21207	protein_coding	YES	CCDS6524.1	ENSP00000369328	LIGO2_HUMAN	.	UPI000004C7CD	.	deleterious(0)	probably_damaging(0.999)	6/6	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF38,Pfam_domain:PF00560,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTGATGGG	.	5	BLCA
CHMP5	0	.	GRCh37	9	33270688	33270688	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289C>T	p.Gln97Ter	p.Q97*	ENST00000223500	4/8	115	101	14	99	99	0	CHMP5,stop_gained,p.Gln97Ter,ENST00000223500,;CHMP5,stop_gained,p.Gln97Ter,ENST00000419016,;	T	ENSG00000086065	ENST00000223500	Transcript	stop_gained	426	289	97	Q/*	Cag/Tag	.	.	.	1	CHMP5	HGNC	26942	protein_coding	YES	CCDS6537.1	ENSP00000223500	CHMP5_HUMAN	.	UPI000003602D	.	.	.	4/8	.	hmmpanther:PTHR22761:SF12,hmmpanther:PTHR22761,Pfam_domain:PF03357	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATCCAGTCT	.	4	BLCA
RUSC2	0	.	GRCh37	9	35555644	35555644	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2602G>C	p.Glu868Gln	p.E868Q	ENST00000455600	3/12	60	52	8	41	41	0	RUSC2,missense_variant,p.Glu868Gln,ENST00000361226,;RUSC2,missense_variant,p.Glu868Gln,ENST00000455600,;	C	ENSG00000198853	ENST00000455600	Transcript	missense_variant	3171	2602	868	E/Q	Gag/Cag	.	.	.	1	RUSC2	HGNC	23625	protein_coding	YES	CCDS35008.1	ENSP00000393922	RUSC2_HUMAN	.	UPI00001C1EB0	.	tolerated(0.37)	probably_damaging(0.993)	3/12	.	hmmpanther:PTHR15591,hmmpanther:PTHR15591:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCAGAGAGC	.	4	BLCA
TLN1	0	.	GRCh37	9	35703793	35703793	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6336G>A	p.Trp2112Ter	p.W2112*	ENST00000314888	47/57	78	58	19	55	55	0	TLN1,stop_gained,p.Trp2006Ter,ENST00000540444,;TLN1,stop_gained,p.Trp2112Ter,ENST00000314888,;TLN1,non_coding_transcript_exon_variant,,ENST00000464379,;TLN1,upstream_gene_variant,,ENST00000489255,;TLN1,downstream_gene_variant,,ENST00000495712,;TLN1,non_coding_transcript_exon_variant,,ENST00000466916,;TLN1,non_coding_transcript_exon_variant,,ENST00000465002,;TLN1,downstream_gene_variant,,ENST00000486788,;	T	ENSG00000137076	ENST00000314888	Transcript	stop_gained	6690	6336	2112	W/*	tgG/tgA	.	.	.	-1	TLN1	HGNC	11845	protein_coding	YES	CCDS35009.1	ENSP00000316029	TLN1_HUMAN	.	UPI0000211375	.	.	.	47/57	.	Superfamily_domains:SSF47220,Gene3D:1.20.1440.10,hmmpanther:PTHR19981:SF7,hmmpanther:PTHR19981	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A2110A|c.6330T>C|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGCCACAC	.	5	BLCA
SPAG8	0	.	GRCh37	9	35808116	35808116	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*54G>C	.	.	ENST00000340291	8/8	42	38	4	42	42	0	SPAG8,3_prime_UTR_variant,,ENST00000340291,;NPR2,intron_variant,,ENST00000447210,;NPR2,intron_variant,,ENST00000421267,;NPR2,intron_variant,,ENST00000342694,;SPAG8,downstream_gene_variant,,ENST00000497810,;HINT2,downstream_gene_variant,,ENST00000259667,;SPAG8,downstream_gene_variant,,ENST00000484764,;SPAG8,downstream_gene_variant,,ENST00000396638,;AL133410.1,downstream_gene_variant,,ENST00000582432,;SPAG8,non_coding_transcript_exon_variant,,ENST00000463889,;HINT2,downstream_gene_variant,,ENST00000474848,;HINT2,downstream_gene_variant,,ENST00000474908,;HINT2,downstream_gene_variant,,ENST00000472085,;HINT2,downstream_gene_variant,,ENST00000490578,;SPAG8,downstream_gene_variant,,ENST00000489063,;HINT2,downstream_gene_variant,,ENST00000471774,;SPAG8,downstream_gene_variant,,ENST00000479751,;HINT2,downstream_gene_variant,,ENST00000461169,;SPAG8,3_prime_UTR_variant,,ENST00000475644,;SPAG8,non_coding_transcript_exon_variant,,ENST00000460836,;NPR2,intron_variant,,ENST00000448821,;NPR2,intron_variant,,ENST00000464810,;SPAG8,downstream_gene_variant,,ENST00000471631,;SPAG8,downstream_gene_variant,,ENST00000495667,;SPAG8,downstream_gene_variant,,ENST00000472605,;NPR2,upstream_gene_variant,,ENST00000469249,;	G	ENSG00000137098	ENST00000340291	Transcript	3_prime_UTR_variant	1685	.	.	.	.	.	.	.	-1	SPAG8	HGNC	14105	protein_coding	YES	CCDS6592.1	ENSP00000340982	SPAG8_HUMAN	F8WBP3_HUMAN	UPI000013E78B	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTCCTCTC	.	2	BLCA
HINT2	0	.	GRCh37	9	35813039	35813039	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12G>C	.	.	ENST00000259667	5/5	155	127	28	99	99	0	HINT2,3_prime_UTR_variant,,ENST00000259667,;FAM221B,downstream_gene_variant,,ENST00000423537,;SPAG8,upstream_gene_variant,,ENST00000497810,;SPAG8,upstream_gene_variant,,ENST00000340291,;TMEM8B,upstream_gene_variant,,ENST00000377996,;SPAG8,upstream_gene_variant,,ENST00000484764,;NPR2,downstream_gene_variant,,ENST00000447210,;NPR2,downstream_gene_variant,,ENST00000421267,;SPAG8,upstream_gene_variant,,ENST00000396638,;NPR2,downstream_gene_variant,,ENST00000342694,;AL133410.1,upstream_gene_variant,,ENST00000582432,;HINT2,non_coding_transcript_exon_variant,,ENST00000474848,;HINT2,non_coding_transcript_exon_variant,,ENST00000474908,;HINT2,non_coding_transcript_exon_variant,,ENST00000472085,;HINT2,non_coding_transcript_exon_variant,,ENST00000490578,;HINT2,non_coding_transcript_exon_variant,,ENST00000471774,;HINT2,non_coding_transcript_exon_variant,,ENST00000461169,;SPAG8,upstream_gene_variant,,ENST00000463889,;SPAG8,upstream_gene_variant,,ENST00000489063,;SPAG8,upstream_gene_variant,,ENST00000479751,;SPAG8,upstream_gene_variant,,ENST00000471631,;SPAG8,upstream_gene_variant,,ENST00000495667,;SPAG8,upstream_gene_variant,,ENST00000460836,;NPR2,downstream_gene_variant,,ENST00000448821,;SPAG8,upstream_gene_variant,,ENST00000475644,;SPAG8,upstream_gene_variant,,ENST00000472605,;FAM221B,downstream_gene_variant,,ENST00000388950,;NPR2,downstream_gene_variant,,ENST00000464810,;NPR2,downstream_gene_variant,,ENST00000469249,;	G	ENSG00000137133	ENST00000259667	Transcript	3_prime_UTR_variant	546	.	.	.	.	.	.	.	-1	HINT2	HGNC	18344	protein_coding	YES	CCDS6594.1	ENSP00000259667	HINT2_HUMAN	.	UPI000000DC49	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAATCAGTTG	.	4	BLCA
TMEM8B	0	.	GRCh37	9	35846974	35846974	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.801C>T	p.%3D	p.F267F	ENST00000377988	10/13	101	94	7	96	96	0	TMEM8B,synonymous_variant,p.%3D,ENST00000377988,;TMEM8B,synonymous_variant,p.%3D,ENST00000377991,;TMEM8B,synonymous_variant,p.%3D,ENST00000377996,;TMEM8B,synonymous_variant,p.%3D,ENST00000439587,;TMEM8B,downstream_gene_variant,,ENST00000464519,;TMEM8B,downstream_gene_variant,,ENST00000490199,;TMEM8B,downstream_gene_variant,,ENST00000473947,;	T	ENSG00000137103	ENST00000377988	Transcript	synonymous_variant	2089	801	267	F	ttC/ttT	.	.	.	1	TMEM8B	HGNC	21427	protein_coding	YES	CCDS43800.1	ENSP00000367227	TMM8B_HUMAN	.	UPI00002113B9	.	.	.	10/13	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14319:SF6,hmmpanther:PTHR14319,Pfam_domain:PF12036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTCACCAT	.	2	BLCA
SPATA31A3	0	.	GRCh37	9	40705383	40705383	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3040G>C	p.Glu1014Gln	p.E1014Q	ENST00000356699	4/4	23	19	4	18	18	0	SPATA31A3,missense_variant,p.Glu1014Gln,ENST00000356699,;RP11-395E19.5,non_coding_transcript_exon_variant,,ENST00000432614,;SPATA31A3,downstream_gene_variant,,ENST00000463536,;	C	ENSG00000147926	ENST00000356699	Transcript	missense_variant	3069	3040	1014	E/Q	Gag/Cag	.	.	.	1	SPATA31A3	HGNC	32003	protein_coding	YES	CCDS47969.1	ENSP00000349132	S31A3_HUMAN	.	UPI00004588FC	.	tolerated(0.07)	probably_damaging(0.969)	4/4	.	hmmpanther:PTHR21859:SF9,hmmpanther:PTHR21859	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AATTTGAGCCT	.	2	BLCA
DOCK8	0	.	GRCh37	9	452115	452115	+	Missense_Mutation	SNP	G	G	A	rs773324998	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6066G>A	p.Met2022Ile	p.M2022I	ENST00000453981	46/48	34	31	3	16	16	0	DOCK8,missense_variant,p.Met1954Ile,ENST00000432829,;DOCK8,missense_variant,p.Met2022Ile,ENST00000453981,;DOCK8,missense_variant,p.Met1922Ile,ENST00000469391,;DOCK8,missense_variant,p.Met1489Ile,ENST00000382329,;RP11-165F24.3,downstream_gene_variant,,ENST00000586805,;RP11-165F24.3,downstream_gene_variant,,ENST00000589287,;RP11-165F24.3,downstream_gene_variant,,ENST00000590240,;RP11-165F24.3,downstream_gene_variant,,ENST00000588474,;RP11-165F24.3,downstream_gene_variant,,ENST00000585944,;RP11-165F24.3,downstream_gene_variant,,ENST00000415004,;RP11-165F24.3,downstream_gene_variant,,ENST00000588989,;RP11-165F24.3,downstream_gene_variant,,ENST00000590518,;RP11-165F24.3,downstream_gene_variant,,ENST00000591577,;RP11-165F24.3,downstream_gene_variant,,ENST00000589387,;RP11-165F24.3,downstream_gene_variant,,ENST00000585631,;RP11-165F24.3,downstream_gene_variant,,ENST00000593137,;RP11-165F24.3,downstream_gene_variant,,ENST00000585819,;RP11-165F24.3,downstream_gene_variant,,ENST00000592805,;DOCK8,splice_region_variant,,ENST00000495184,;	A	ENSG00000107099	ENST00000453981	Transcript	missense_variant	6178	6066	2022	M/I	atG/atA	rs773324998	.	.	1	DOCK8	HGNC	19191	protein_coding	YES	CCDS6440.2	ENSP00000408464	DOCK8_HUMAN	E2J6M5_HUMAN,C9J7A3_HUMAN,C9J613_HUMAN	UPI0000E0B9E5	.	tolerated(0.05)	benign(0.089)	46/48	.	PROSITE_profiles:PS51651,hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF74,Pfam_domain:PF06920	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCATGAGGTA	.	2	BLCA
RLN2	0	.	GRCh37	9	5300025	5300025	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*73C>G	.	.	ENST00000381627	2/2	28	25	3	25	25	0	RLN2,3_prime_UTR_variant,,ENST00000416837,;RLN2,3_prime_UTR_variant,,ENST00000308420,;RLN2,3_prime_UTR_variant,,ENST00000381627,;	C	ENSG00000107014	ENST00000381627	Transcript	3_prime_UTR_variant	1020	.	.	.	.	.	.	.	-1	RLN2	HGNC	10027	protein_coding	YES	CCDS6460.1	ENSP00000371040	REL2_HUMAN	.	UPI000002C1A0	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACCTGATAGA	.	2	BLCA
PDCD1LG2	0	.	GRCh37	9	5534847	5534847	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158G>T	p.Gly53Val	p.G53V	ENST00000397747	3/7	85	69	15	61	61	0	PDCD1LG2,missense_variant,p.Gly53Val,ENST00000397747,;PDCD1LG2,missense_variant,p.Gly53Val,ENST00000397745,;	T	ENSG00000197646	ENST00000397747	Transcript	missense_variant	406	158	53	G/V	gGa/gTa	.	.	.	1	PDCD1LG2	HGNC	18731	protein_coding	YES	CCDS6465.1	ENSP00000380855	PD1L2_HUMAN	.	UPI0000050EF2	.	deleterious(0.05)	possibly_damaging(0.548)	3/7	.	hmmpanther:PTHR25462,hmmpanther:PTHR25462:SF56,Gene3D:2.60.40.10,Pfam_domain:PF13895,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTGGAGCAA	.	5	BLCA
FOXD4L5	0	.	GRCh37	9	70177733	70177733	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251C>T	p.Ser84Leu	p.S84L	ENST00000377420	1/1	344	316	28	316	316	0	FOXD4L5,missense_variant,p.Ser84Leu,ENST00000377420,;RP11-15J10.1,downstream_gene_variant,,ENST00000445695,;	A	ENSG00000204779	ENST00000377420	Transcript	missense_variant	1083	251	84	S/L	tCa/tTa	.	.	.	-1	FOXD4L5	HGNC	18522	protein_coding	YES	CCDS47977.1	ENSP00000366637	FX4L5_HUMAN	Q8WTR0_HUMAN	UPI0000458A33	.	tolerated(0.1)	possibly_damaging(0.879)	1/1	.	hmmpanther:PTHR11829:SF149,hmmpanther:PTHR11829	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCTGAGGGG	.	2	BLCA
PGM5	0	.	GRCh37	9	71080073	71080073	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1108C>T	p.%3D	p.L370L	ENST00000396396	7/11	123	97	26	105	105	0	PGM5,synonymous_variant,p.%3D,ENST00000396392,;PGM5,synonymous_variant,p.%3D,ENST00000396396,;PGM5,non_coding_transcript_exon_variant,,ENST00000472639,;	T	ENSG00000154330	ENST00000396396	Transcript	synonymous_variant	1337	1108	370	L	Ctg/Ttg	.	.	.	1	PGM5	HGNC	8908	protein_coding	YES	CCDS6622.2	ENSP00000379678	PGM5_HUMAN	.	UPI0000210ABF	.	.	.	7/11	.	hmmpanther:PTHR22573,hmmpanther:PTHR22573:SF27,Gene3D:3.40.120.10,Pfam_domain:PF02880,Superfamily_domains:SSF53738	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATCTGATG	.	5	BLCA
TRPM3	0	.	GRCh37	9	73164576	73164576	+	Missense_Mutation	SNP	C	C	T	rs374965020	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3553G>A	p.Asp1185Asn	p.D1185N	ENST00000377110	24/25	50	39	11	38	38	0	TRPM3,missense_variant,p.Asp1185Asn,ENST00000377111,;TRPM3,missense_variant,p.Asp1057Asn,ENST00000377106,;TRPM3,missense_variant,p.Asp1047Asn,ENST00000360823,;TRPM3,missense_variant,p.Asp1047Asn,ENST00000358082,;TRPM3,missense_variant,p.Asp1057Asn,ENST00000396292,;TRPM3,missense_variant,p.Asp1034Asn,ENST00000396280,;TRPM3,missense_variant,p.Asp1212Asn,ENST00000423814,;TRPM3,missense_variant,p.Asp1044Asn,ENST00000408909,;TRPM3,missense_variant,p.Asp1189Asn,ENST00000357533,;TRPM3,missense_variant,p.Asp1185Asn,ENST00000377110,;TRPM3,missense_variant,p.Asp1044Asn,ENST00000377105,;TRPM3,missense_variant,p.Asp1044Asn,ENST00000396285,;	T	ENSG00000083067	ENST00000377110	Transcript	missense_variant	3797	3553	1185	D/N	Gat/Aat	rs374965020	.	.	-1	TRPM3	HGNC	17992	protein_coding	YES	CCDS43835.1	ENSP00000366314	TRPM3_HUMAN	.	UPI0001596895	.	tolerated(0.09)	benign(0.155)	24/25	.	hmmpanther:PTHR13800,hmmpanther:PTHR13800:SF7	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCGGTTA	byFrequency|byCluster	5	BLCA
GDA	0	.	GRCh37	9	74764422	74764422	+	5'UTR	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54C>G	.	.	ENST00000238018	1/15	22	18	4	19	19	0	GDA,5_prime_UTR_variant,,ENST00000238018,;GDA,5_prime_UTR_variant,,ENST00000358399,;GDA,5_prime_UTR_variant,,ENST00000376986,;GDA,5_prime_UTR_variant,,ENST00000376989,;GDA,intron_variant,,ENST00000545168,;GDA,5_prime_UTR_variant,,ENST00000475764,;	G	ENSG00000119125	ENST00000238018	Transcript	5_prime_UTR_variant	130	.	.	.	.	.	.	.	1	GDA	HGNC	4212	protein_coding	YES	CCDS56576.1	ENSP00000238018	GUAD_HUMAN	Q5SZC3_HUMAN,B4DIP8_HUMAN,B3KUM3_HUMAN	UPI000015828B	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTCTCCGCCG	.	2	BLCA
CEP78	0	.	GRCh37	9	80855244	80855244	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463C>G	p.Leu155Val	p.L155V	ENST00000376597	3/16	38	33	5	23	23	0	CEP78,missense_variant,p.Leu155Val,ENST00000376598,;CEP78,missense_variant,p.Leu155Val,ENST00000376597,;CEP78,missense_variant,p.Leu155Val,ENST00000277082,;CEP78,missense_variant,p.Leu155Val,ENST00000415759,;CEP78,missense_variant,p.Leu155Val,ENST00000424347,;CEP78,intron_variant,,ENST00000476652,;CEP78,non_coding_transcript_exon_variant,,ENST00000536374,;	G	ENSG00000148019	ENST00000376597	Transcript	missense_variant	607	463	155	L/V	Ctt/Gtt	.	.	.	1	CEP78	HGNC	25740	protein_coding	YES	CCDS47984.1	ENSP00000365782	CEP78_HUMAN	.	UPI000153BFA4	.	deleterious(0.02)	probably_damaging(0.99)	3/16	.	hmmpanther:PTHR24110,Gene3D:3.80.10.10,Pfam_domain:PF13516,SMART_domains:SM00368,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCTCTTGCA	.	4	BLCA
PTPRD	0	.	GRCh37	9	8484335	8484335	+	Missense_Mutation	SNP	C	C	A	rs749208350	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3197G>T	p.Arg1066Leu	p.R1066L	ENST00000381196	27/43	58	52	5	56	56	0	PTPRD,missense_variant,p.Arg645Leu,ENST00000397617,;PTPRD,missense_variant,p.Arg655Leu,ENST00000486161,;PTPRD,missense_variant,p.Arg1044Leu,ENST00000358503,;PTPRD,missense_variant,p.Arg1053Leu,ENST00000360074,;PTPRD,missense_variant,p.Arg1066Leu,ENST00000381196,;PTPRD,missense_variant,p.Arg645Leu,ENST00000397606,;PTPRD,missense_variant,p.Arg1066Leu,ENST00000356435,;PTPRD,missense_variant,p.Arg655Leu,ENST00000355233,;PTPRD,missense_variant,p.Arg652Leu,ENST00000397611,;PTPRD,missense_variant,p.Arg1066Leu,ENST00000540109,;PTPRD,missense_variant,p.Arg652Leu,ENST00000537002,;PTPRD,downstream_gene_variant,,ENST00000471274,;PTPRD,non_coding_transcript_exon_variant,,ENST00000477552,;	A	ENSG00000153707	ENST00000381196	Transcript	missense_variant	3741	3197	1066	R/L	cGa/cTa	rs749208350	.	.	-1	PTPRD	HGNC	9668	protein_coding	YES	CCDS43786.1	ENSP00000370593	PTPRD_HUMAN	C9J6E4_HUMAN,B4DK48_HUMAN	UPI0000132990	.	deleterious(0.02)	possibly_damaging(0.491)	27/43	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Gene3D:2.60.40.10,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF204,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGCTCGGCCA	.	3	BLCA
PTPRD	0	.	GRCh37	9	8501008	8501008	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1874G>C	p.Ser625Thr	p.S625T	ENST00000381196	21/43	70	58	11	61	61	0	PTPRD,missense_variant,p.Ser612Thr,ENST00000358503,;PTPRD,missense_variant,p.Ser612Thr,ENST00000360074,;PTPRD,missense_variant,p.Ser625Thr,ENST00000381196,;PTPRD,missense_variant,p.Ser625Thr,ENST00000356435,;PTPRD,missense_variant,p.Ser625Thr,ENST00000540109,;PTPRD,intron_variant,,ENST00000397617,;PTPRD,intron_variant,,ENST00000486161,;PTPRD,intron_variant,,ENST00000397606,;PTPRD,intron_variant,,ENST00000355233,;PTPRD,intron_variant,,ENST00000397611,;PTPRD,intron_variant,,ENST00000537002,;PTPRD,non_coding_transcript_exon_variant,,ENST00000471274,;	G	ENSG00000153707	ENST00000381196	Transcript	missense_variant	2418	1874	625	S/T	aGt/aCt	.	.	.	-1	PTPRD	HGNC	9668	protein_coding	YES	CCDS43786.1	ENSP00000370593	PTPRD_HUMAN	C9J6E4_HUMAN,B4DK48_HUMAN	UPI0000132990	.	tolerated(0.41)	unknown(0)	21/43	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF204,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAATACTAGTG	.	4	BLCA
RASEF	0	.	GRCh37	9	85624578	85624578	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.937G>A	p.Asp313Asn	p.D313N	ENST00000376447	6/17	95	79	16	64	64	0	RASEF,missense_variant,p.Asp313Asn,ENST00000376447,;	T	ENSG00000165105	ENST00000376447	Transcript	missense_variant	1198	937	313	D/N	Gat/Aat	.	.	.	-1	RASEF	HGNC	26464	protein_coding	YES	CCDS6662.1	ENSP00000365630	RASEF_HUMAN	.	UPI0000074189	.	tolerated(0.09)	benign(0.034)	6/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22621,hmmpanther:PTHR22621:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGATCAGCAT	.	4	BLCA
NTRK2	0	.	GRCh37	9	87563520	87563520	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1908G>A	p.Met636Ile	p.M636I	ENST00000376214	18/21	44	38	6	37	37	0	NTRK2,missense_variant,p.Met620Ile,ENST00000376213,;NTRK2,missense_variant,p.Met636Ile,ENST00000376214,;NTRK2,missense_variant,p.Met620Ile,ENST00000323115,;NTRK2,missense_variant,p.Met636Ile,ENST00000277120,;	A	ENSG00000148053	ENST00000376214	Transcript	missense_variant	2846	1908	636	M/I	atG/atA	.	.	.	1	NTRK2	HGNC	8032	protein_coding	YES	CCDS6671.1	ENSP00000365387	NTRK2_HUMAN	S5MD53_HUMAN,Q8WXJ4_HUMAN	UPI000006FA0D	.	deleterious(0)	possibly_damaging(0.596)	18/21	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF136,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACATGAAGCA	.	4	BLCA
ZCCHC6	0	.	GRCh37	9	88961239	88961239	+	Missense_Mutation	SNP	C	C	G	rs375411108	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.677G>C	p.Arg226Thr	p.R226T	ENST00000375963	3/27	129	106	22	131	131	0	ZCCHC6,missense_variant,p.Arg226Thr,ENST00000375961,;ZCCHC6,missense_variant,p.Arg59Thr,ENST00000375947,;ZCCHC6,missense_variant,p.Arg226Thr,ENST00000375960,;ZCCHC6,missense_variant,p.Arg226Thr,ENST00000375963,;ZCCHC6,5_prime_UTR_variant,,ENST00000277141,;ZCCHC6,upstream_gene_variant,,ENST00000375948,;	G	ENSG00000083223	ENST00000375963	Transcript	missense_variant	850	677	226	R/T	aGa/aCa	rs375411108	.	.	-1	ZCCHC6	HGNC	25817	protein_coding	YES	CCDS35057.1	ENSP00000365130	TUT7_HUMAN	.	UPI00004588F6	.	deleterious(0)	probably_damaging(0.938)	3/27	.	hmmpanther:PTHR12271:SF34,hmmpanther:PTHR12271	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCTCTTC	byCluster	5	BLCA
DAPK1	0	.	GRCh37	9	90265013	90265013	+	Missense_Mutation	SNP	G	G	C	rs552049139	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1606G>C	p.Asp536His	p.D536H	ENST00000408954	16/26	37	33	4	38	38	0	DAPK1,missense_variant,p.Asp536His,ENST00000358077,;DAPK1,missense_variant,p.Asp536His,ENST00000491893,;DAPK1,missense_variant,p.Asp536His,ENST00000408954,;DAPK1,missense_variant,p.Asp536His,ENST00000469640,;DAPK1,missense_variant,p.Asp536His,ENST00000472284,;DAPK1,non_coding_transcript_exon_variant,,ENST00000494010,;DAPK1,non_coding_transcript_exon_variant,,ENST00000495281,;DAPK1,3_prime_UTR_variant,,ENST00000489291,;DAPK1,non_coding_transcript_exon_variant,,ENST00000469067,;DAPK1,non_coding_transcript_exon_variant,,ENST00000475804,;	C	ENSG00000196730	ENST00000408954	Transcript	missense_variant	1941	1606	536	D/H	Gac/Cac	rs552049139	.	.	1	DAPK1	HGNC	2674	protein_coding	YES	CCDS43842.1	ENSP00000386135	DAPK1_HUMAN	.	UPI0000210C2F	.	tolerated(0.12)	possibly_damaging(0.865)	16/26	.	Prints_domain:PR01415,Superfamily_domains:SSF48403,SMART_domains:SM00248,Gene3D:1.25.40.20,Pfam_domain:PF00023,hmmpanther:PTHR22964:SF54,hmmpanther:PTHR22964,PROSITE_profiles:PS50297,PROSITE_profiles:PS50088	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCCGACCTT	byFrequency|byCluster	4	BLCA
SYK	0	.	GRCh37	9	93657847	93657847	+	Missense_Mutation	SNP	C	C	T	rs773478505	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1873C>T	p.Arg625Trp	p.R625W	ENST00000375754	14/14	90	79	11	67	67	0	SYK,missense_variant,p.Arg625Trp,ENST00000375754,;SYK,missense_variant,p.Arg602Trp,ENST00000375747,;SYK,missense_variant,p.Arg602Trp,ENST00000375751,;SYK,missense_variant,p.Arg625Trp,ENST00000375746,;	T	ENSG00000165025	ENST00000375754	Transcript	missense_variant	2021	1873	625	R/W	Cgg/Tgg	rs773478505	.	.	1	SYK	HGNC	11491	protein_coding	YES	CCDS6688.1	ENSP00000364907	KSYK_HUMAN	.	UPI000012E0DD	.	deleterious(0.01)	probably_damaging(1)	14/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418:SF79,hmmpanther:PTHR24418,PIRSF_domain:PIRSF000604,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTGCGGCTG	.	4	BLCA
ZNF782	0	.	GRCh37	9	99580252	99580252	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2053C>G	p.Gln685Glu	p.Q685E	ENST00000481138	6/6	173	153	19	135	135	0	ZNF782,missense_variant,p.Gln674Glu,ENST00000289032,;ZNF782,missense_variant,p.Gln685Glu,ENST00000481138,;ZNF782,missense_variant,p.Gln553Glu,ENST00000535338,;ZNF782,downstream_gene_variant,,ENST00000478850,;ZNF782,downstream_gene_variant,,ENST00000466833,;	C	ENSG00000196597	ENST00000481138	Transcript	missense_variant	2715	2053	685	Q/E	Caa/Gaa	COSM1234598	.	.	-1	ZNF782	HGNC	33110	protein_coding	YES	CCDS35075.1	ENSP00000419397	ZN782_HUMAN	G3V1K9_HUMAN,C9J9Y8_HUMAN	UPI00001D76E3	.	tolerated(0.1)	benign(0.064)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF111,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTTGACTGA	.	4	BLCA
ZNF782	0	.	GRCh37	9	99580592	99580592	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1713C>G	p.Phe571Leu	p.F571L	ENST00000481138	6/6	251	213	37	200	200	0	ZNF782,missense_variant,p.Phe560Leu,ENST00000289032,;ZNF782,missense_variant,p.Phe571Leu,ENST00000481138,;ZNF782,missense_variant,p.Phe439Leu,ENST00000535338,;ZNF782,downstream_gene_variant,,ENST00000478850,;ZNF782,downstream_gene_variant,,ENST00000466833,;	C	ENSG00000196597	ENST00000481138	Transcript	missense_variant	2375	1713	571	F/L	ttC/ttG	.	.	.	-1	ZNF782	HGNC	33110	protein_coding	YES	CCDS35075.1	ENSP00000419397	ZN782_HUMAN	G3V1K9_HUMAN,C9J9Y8_HUMAN	UPI00001D76E3	.	deleterious(0)	probably_damaging(0.999)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF111,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGACTGAAAGC	.	4	BLCA
RAB40A	0	.	GRCh37	X	102755348	102755348	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>C	p.Glu113Gln	p.E113Q	ENST00000372633	1/1	39	32	7	29	29	0	RAB40A,missense_variant,p.Glu113Gln,ENST00000304236,;RAB40A,missense_variant,p.Glu113Gln,ENST00000372633,;LL0XNC01-250H12.3,downstream_gene_variant,,ENST00000445990,;	G	ENSG00000172476	ENST00000372633	Transcript	missense_variant	2456	337	113	E/Q	Gag/Cag	.	.	.	-1	RAB40A	HGNC	18283	protein_coding	YES	CCDS35357.1	ENSP00000361716	RB40A_HUMAN	.	UPI000013E953	.	deleterious(0.04)	benign(0.099)	1/1	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073,hmmpanther:PTHR24073:SF442,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00175,SMART_domains:SM00174,SMART_domains:SM00176,SMART_domains:SM00173,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TTCCTCAATCT	.	2	BLCA
FAM199X	0	.	GRCh37	X	103411590	103411590	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124G>C	p.Asp42His	p.D42H	ENST00000493442	1/6	19	13	6	22	22	0	FAM199X,missense_variant,p.Asp42His,ENST00000493442,;	C	ENSG00000123575	ENST00000493442	Transcript	missense_variant	290	124	42	D/H	Gac/Cac	.	.	.	1	FAM199X	HGNC	25195	protein_coding	YES	CCDS35364.1	ENSP00000417581	F199X_HUMAN	B0QYU2_HUMAN	UPI00001C2069	.	deleterious_low_confidence(0)	probably_damaging(0.996)	1/6	.	hmmpanther:PTHR32003:SF1,hmmpanther:PTHR32003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGACATC	.	4	BLCA
FRMD7	0	.	GRCh37	X	131261886	131261886	+	5'UTR	SNP	G	G	C	rs200222913	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14C>G	.	.	ENST00000298542	1/12	61	45	16	56	56	0	FRMD7,5_prime_UTR_variant,,ENST00000298542,;FRMD7,upstream_gene_variant,,ENST00000464296,;RP1-305B16.3,downstream_gene_variant,,ENST00000424708,;	C	ENSG00000165694	ENST00000298542	Transcript	5_prime_UTR_variant	163	.	.	.	.	rs200222913	.	.	-1	FRMD7	HGNC	8079	protein_coding	YES	CCDS35397.1	ENSP00000298542	FRMD7_HUMAN	.	UPI00001C0AED	.	.	.	1/12	.	.	A:0.0003	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0015	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGTTGGG	byCluster|by1000G	5	BLCA
GPR112	0	.	GRCh37	X	135431321	135431321	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5456C>G	p.Ser1819Ter	p.S1819*	ENST00000394143	6/26	56	36	20	52	52	0	GPR112,stop_gained,p.Ser1756Ter,ENST00000287534,;GPR112,stop_gained,p.Ser1819Ter,ENST00000370652,;GPR112,stop_gained,p.Ser1819Ter,ENST00000394143,;GPR112,stop_gained,p.Ser1614Ter,ENST00000394141,;GPR112,stop_gained,p.Ser1614Ter,ENST00000412101,;	G	ENSG00000156920	ENST00000394143	Transcript	stop_gained	5747	5456	1819	S/*	tCa/tGa	COSM3558256	.	.	1	GPR112	HGNC	18992	protein_coding	YES	CCDS35409.1	ENSP00000377699	GP112_HUMAN	.	UPI00004CEC5B	.	.	.	6/26	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF225	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTCATACC	.	5	BLCA
GPM6B	0	.	GRCh37	X	13790949	13790949	+	3'UTR	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51C>T	.	.	ENST00000316715	8/8	33	16	17	34	34	0	GPM6B,3_prime_UTR_variant,,ENST00000454189,;GPM6B,3_prime_UTR_variant,,ENST00000316715,;GPM6B,3_prime_UTR_variant,,ENST00000493677,;GPM6B,downstream_gene_variant,,ENST00000472735,;GPM6B,downstream_gene_variant,,ENST00000355135,;GPM6B,downstream_gene_variant,,ENST00000398361,;GPM6B,downstream_gene_variant,,ENST00000356942,;GPM6B,downstream_gene_variant,,ENST00000495211,;OFD1,downstream_gene_variant,,ENST00000380550,;OFD1,downstream_gene_variant,,ENST00000340096,;OFD1,downstream_gene_variant,,ENST00000380567,;OFD1,downstream_gene_variant,,ENST00000464463,;OFD1,downstream_gene_variant,,ENST00000474705,;OFD1,downstream_gene_variant,,ENST00000490265,;	A	ENSG00000046653	ENST00000316715	Transcript	3_prime_UTR_variant	1476	.	.	.	.	.	.	.	-1	GPM6B	HGNC	4461	protein_coding	YES	CCDS35206.1	ENSP00000316861	GPM6B_HUMAN	C9JZE8_HUMAN,C9J8H8_HUMAN,B7Z613_HUMAN	UPI00000721CA	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGATGAT	.	5	BLCA
GPM6B	0	.	GRCh37	X	13791015	13791015	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.972C>G	p.%3D	p.L324L	ENST00000316715	8/8	86	56	30	81	81	0	GPM6B,synonymous_variant,p.%3D,ENST00000472735,;GPM6B,synonymous_variant,p.%3D,ENST00000316715,;GPM6B,synonymous_variant,p.%3D,ENST00000493677,;GPM6B,3_prime_UTR_variant,,ENST00000454189,;GPM6B,downstream_gene_variant,,ENST00000355135,;GPM6B,downstream_gene_variant,,ENST00000398361,;GPM6B,downstream_gene_variant,,ENST00000356942,;GPM6B,downstream_gene_variant,,ENST00000495211,;OFD1,downstream_gene_variant,,ENST00000380550,;OFD1,downstream_gene_variant,,ENST00000340096,;OFD1,downstream_gene_variant,,ENST00000380567,;OFD1,downstream_gene_variant,,ENST00000464463,;OFD1,downstream_gene_variant,,ENST00000474705,;OFD1,downstream_gene_variant,,ENST00000490265,;	C	ENSG00000046653	ENST00000316715	Transcript	synonymous_variant	1410	972	324	L	ctC/ctG	.	.	.	-1	GPM6B	HGNC	4461	protein_coding	YES	CCDS35206.1	ENSP00000316861	GPM6B_HUMAN	C9JZE8_HUMAN,C9J8H8_HUMAN,B7Z613_HUMAN	UPI00000721CA	.	.	.	8/8	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11683,hmmpanther:PTHR11683:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATTGAGTTG	.	5	BLCA
GPM6B	0	.	GRCh37	X	13792538	13792538	+	Intron	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.838-1389C>G	.	.	ENST00000316715	.	11	7	4	12	12	0	GPM6B,3_prime_UTR_variant,,ENST00000398361,;GPM6B,3_prime_UTR_variant,,ENST00000356942,;GPM6B,3_prime_UTR_variant,,ENST00000454189,;GPM6B,3_prime_UTR_variant,,ENST00000355135,;GPM6B,intron_variant,,ENST00000472735,;GPM6B,intron_variant,,ENST00000493677,;GPM6B,intron_variant,,ENST00000316715,;GPM6B,downstream_gene_variant,,ENST00000495211,;	C	ENSG00000046653	ENST00000316715	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	GPM6B	HGNC	4461	protein_coding	YES	CCDS35206.1	ENSP00000316861	GPM6B_HUMAN	C9JZE8_HUMAN,C9J8H8_HUMAN,B7Z613_HUMAN	UPI00000721CA	.	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGGTGAGTTT	.	3	BLCA
GEMIN8	0	.	GRCh37	X	14038306	14038306	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.363G>C	p.Glu121Asp	p.E121D	ENST00000380523	4/5	133	94	39	142	142	0	GEMIN8,missense_variant,p.Glu121Asp,ENST00000332885,;GEMIN8,missense_variant,p.Glu121Asp,ENST00000380523,;GEMIN8,missense_variant,p.Glu121Asp,ENST00000398355,;GEMIN8,non_coding_transcript_exon_variant,,ENST00000460203,;GEMIN8,non_coding_transcript_exon_variant,,ENST00000477386,;	G	ENSG00000046647	ENST00000380523	Transcript	missense_variant	682	363	121	E/D	gaG/gaC	COSM1315252	.	.	-1	GEMIN8	HGNC	26044	protein_coding	YES	CCDS14159.1	ENSP00000369895	GEMI8_HUMAN	H7BYE2_HUMAN	UPI0000070657	.	tolerated(0.23)	benign(0.126)	4/5	.	hmmpanther:PTHR16238:SF7,hmmpanther:PTHR16238,Pfam_domain:PF15348	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCTCTTC	.	5	BLCA
SLITRK4	0	.	GRCh37	X	142716593	142716593	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2332G>C	p.Glu778Gln	p.E778Q	ENST00000381779	2/2	103	73	30	80	80	0	SLITRK4,missense_variant,p.Glu778Gln,ENST00000381779,;SLITRK4,missense_variant,p.Glu778Gln,ENST00000338017,;SLITRK4,missense_variant,p.Glu778Gln,ENST00000356928,;	G	ENSG00000179542	ENST00000381779	Transcript	missense_variant	2558	2332	778	E/Q	Gag/Cag	.	.	.	-1	SLITRK4	HGNC	23502	protein_coding	YES	CCDS14679.1	ENSP00000371198	SLIK4_HUMAN	.	UPI000004E650	.	tolerated(0.11)	probably_damaging(0.979)	2/2	.	hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCAAAGC	.	5	BLCA
MTM1	0	.	GRCh37	X	149783103	149783103	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.273G>A	p.%3D	p.S91S	ENST00000370396	5/15	33	25	7	39	39	0	MTM1,synonymous_variant,p.%3D,ENST00000370396,;MTM1,5_prime_UTR_variant,,ENST00000542741,;MTM1,intron_variant,,ENST00000543350,;MTM1,intron_variant,,ENST00000413012,;MTM1,intron_variant,,ENST00000424519,;MTM1,non_coding_transcript_exon_variant,,ENST00000490530,;MTM1,intron_variant,,ENST00000306167,;	A	ENSG00000171100	ENST00000370396	Transcript	synonymous_variant	327	273	91	S	tcG/tcA	.	.	.	1	MTM1	HGNC	7448	protein_coding	YES	CCDS14694.1	ENSP00000359423	MTM1_HUMAN	B7Z499_HUMAN	UPI000012F7F5	.	.	.	5/15	.	hmmpanther:PTHR10807:SF62,hmmpanther:PTHR10807,Pfam_domain:PF02893,Gene3D:2.30.29.30,SMART_domains:SM00568,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTCGAGAAT	.	5	BLCA
CNGA2	0	.	GRCh37	X	150912862	150912862	+	Silent	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1887C>G	p.%3D	p.L629L	ENST00000329903	6/6	85	58	27	66	66	0	CNGA2,synonymous_variant,p.%3D,ENST00000329903,;	G	ENSG00000183862	ENST00000329903	Transcript	synonymous_variant	1920	1887	629	L	ctC/ctG	.	.	.	1	CNGA2	HGNC	2149	protein_coding	YES	CCDS14701.1	ENSP00000328478	CNGA2_HUMAN	.	UPI000003E7AE	.	.	.	6/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTCAAGCA	.	5	BLCA
BGN	0	.	GRCh37	X	152772350	152772350	+	Missense_Mutation	SNP	G	G	C	rs782401746	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739G>C	p.Glu247Gln	p.E247Q	ENST00000331595	6/8	57	34	23	65	65	0	BGN,missense_variant,p.Glu247Gln,ENST00000331595,;BGN,downstream_gene_variant,,ENST00000431891,;BGN,non_coding_transcript_exon_variant,,ENST00000472615,;BGN,non_coding_transcript_exon_variant,,ENST00000480756,;BGN,intron_variant,,ENST00000492658,;	C	ENSG00000182492	ENST00000331595	Transcript	missense_variant	925	739	247	E/Q	Gag/Cag	rs782401746	.	.	1	BGN	HGNC	1044	protein_coding	YES	CCDS14721.1	ENSP00000327336	PGS1_HUMAN	B4DDQ2_HUMAN,A6NLG9_HUMAN	UPI000003BDBA	.	tolerated(0.17)	benign(0.032)	6/8	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369:SF6,hmmpanther:PTHR24369,Gene3D:3.80.10.10,PIRSF_domain:PIRSF002490,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E245K|c.733G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTGGAGGAC	.	5	BLCA
SRPK3	0	.	GRCh37	X	153050895	153050895	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624C>G	p.Leu542Val	p.L542V	ENST00000370101	15/15	74	61	12	63	63	0	SRPK3,missense_variant,p.Leu509Val,ENST00000370108,;SRPK3,missense_variant,p.Leu467Val,ENST00000370100,;SRPK3,missense_variant,p.Leu609Val,ENST00000489426,;SRPK3,missense_variant,p.Leu508Val,ENST00000393786,;SRPK3,missense_variant,p.Leu541Val,ENST00000370104,;SRPK3,missense_variant,p.Leu542Val,ENST00000370101,;IDH3G,downstream_gene_variant,,ENST00000454076,;IDH3G,downstream_gene_variant,,ENST00000444450,;SRPK3,downstream_gene_variant,,ENST00000430541,;IDH3G,downstream_gene_variant,,ENST00000427365,;IDH3G,downstream_gene_variant,,ENST00000370093,;SRPK3,downstream_gene_variant,,ENST00000458681,;IDH3G,downstream_gene_variant,,ENST00000217901,;IDH3G,downstream_gene_variant,,ENST00000370092,;IDH3G,downstream_gene_variant,,ENST00000444338,;IDH3G,downstream_gene_variant,,ENST00000497043,;IDH3G,downstream_gene_variant,,ENST00000491235,;IDH3G,downstream_gene_variant,,ENST00000495356,;IDH3G,downstream_gene_variant,,ENST00000461215,;	G	ENSG00000184343	ENST00000370101	Transcript	missense_variant	1670	1624	542	L/V	Ctg/Gtg	.	.	.	1	SRPK3	HGNC	11402	protein_coding	YES	CCDS35441.1	ENSP00000359119	SRPK3_HUMAN	.	UPI000050571A	.	deleterious(0.01)	possibly_damaging(0.466)	15/15	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF100,hmmpanther:PTHR24055,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCTGCTG	.	5	BLCA
L1CAM	0	.	GRCh37	X	153130411	153130411	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2911C>T	p.Arg971Trp	p.R971W	ENST00000370060	23/29	105	68	37	73	73	0	L1CAM,missense_variant,p.Arg973Trp,ENST00000538883,;L1CAM,missense_variant,p.Arg971Trp,ENST00000370060,;L1CAM,missense_variant,p.Arg966Trp,ENST00000370055,;L1CAM,missense_variant,p.Arg966Trp,ENST00000361981,;L1CAM,missense_variant,p.Arg973Trp,ENST00000543994,;L1CAM,missense_variant,p.Arg971Trp,ENST00000361699,;L1CAM,missense_variant,p.Arg971Trp,ENST00000370057,;L1CAM,upstream_gene_variant,,ENST00000370058,;L1CAM,downstream_gene_variant,,ENST00000455590,;L1CAM,downstream_gene_variant,,ENST00000496122,;L1CAM,downstream_gene_variant,,ENST00000474853,;L1CAM,downstream_gene_variant,,ENST00000484652,;L1CAM,upstream_gene_variant,,ENST00000491983,;	A	ENSG00000198910	ENST00000370060	Transcript	missense_variant	3101	2911	971	R/W	Cgg/Tgg	COSM219016	.	.	-1	L1CAM	HGNC	6470	protein_coding	YES	CCDS14733.1	ENSP00000359077	L1CAM_HUMAN	Q86SE4_HUMAN,Q7Z3Z9_HUMAN,Q7Z2J9_HUMAN,Q7Z2J8_HUMAN,Q7Z2J6_HUMAN,Q7Z2J0_HUMAN,Q7Z2I3_HUMAN,Q7Z2H2_HUMAN,Q7Z2F9_HUMAN,E9PHJ4_HUMAN,E7EPI4_HUMAN	UPI0000126E89	.	deleterious(0.02)	possibly_damaging(0.601)	23/29	.	PROSITE_profiles:PS50853,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF42,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R971W|c.2911C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCCGAAGGT	.	5	BLCA
SH3KBP1	0	.	GRCh37	X	19701995	19701995	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.672C>G	p.Ile224Met	p.I224M	ENST00000397821	6/18	126	119	7	104	104	0	SH3KBP1,missense_variant,p.Ile187Met,ENST00000379698,;SH3KBP1,missense_variant,p.Ile171Met,ENST00000432234,;SH3KBP1,missense_variant,p.Ile224Met,ENST00000397821,;SH3KBP1,missense_variant,p.Ile268Met,ENST00000379697,;SH3KBP1,missense_variant,p.Ile132Met,ENST00000431164,;SH3KBP1,missense_variant,p.Ile204Met,ENST00000379726,;SH3KBP1,intron_variant,,ENST00000494961,;	C	ENSG00000147010	ENST00000397821	Transcript	missense_variant	963	672	224	I/M	atC/atG	.	.	.	-1	SH3KBP1	HGNC	13867	protein_coding	YES	CCDS14193.1	ENSP00000380921	SH3K1_HUMAN	Q5JPT6_HUMAN,B7Z6E8_HUMAN	UPI000006CC82	.	deleterious(0)	benign(0.082)	6/18	.	hmmpanther:PTHR14167,hmmpanther:PTHR14167:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTTTGATTGG	.	2	BLCA
PLCXD1	0	.	GRCh37	X	215978	215978	+	Silent	SNP	C	C	G	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.948C>G	p.%3D	p.L316L	ENST00000381657	7/7	95	82	13	63	63	0	PLCXD1,synonymous_variant,p.%3D,ENST00000381657,;PLCXD1,synonymous_variant,p.%3D,ENST00000399012,;PLCXD1,synonymous_variant,p.%3D,ENST00000381663,;GTPBP6,downstream_gene_variant,,ENST00000326153,;	G	ENSG00000182378	ENST00000381657	Transcript	synonymous_variant	1462	948	316	L	ctC/ctG	COSM756553	.	.	1	PLCXD1	HGNC	23148	protein_coding	YES	CCDS14103.1	ENSP00000371073	PLCX1_HUMAN	K7EIC3_HUMAN,C9JP92_HUMAN	UPI0000048190	.	.	.	7/7	.	hmmpanther:PTHR13593:SF24,hmmpanther:PTHR13593,Gene3D:3.20.20.190,Superfamily_domains:SSF51695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCAATCA	.	5	BLCA
ZBED1	0	.	GRCh37	X	2408602	2408602	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159G>C	p.Gln53His	p.Q53H	ENST00000381223	2/2	155	136	19	124	124	0	ZBED1,missense_variant,p.Gln53His,ENST00000381223,;ZBED1,missense_variant,p.Gln53His,ENST00000461691,;ZBED1,missense_variant,p.Gln53His,ENST00000381222,;ZBED1,missense_variant,p.Gln53His,ENST00000381218,;DHRSX,intron_variant,,ENST00000444280,;DHRSX,intron_variant,,ENST00000334651,;DHRSX,intron_variant,,ENST00000412516,;DHRSX,intron_variant,,ENST00000430536,;ZBED1,upstream_gene_variant,,ENST00000515319,;DHRSX,intron_variant,,ENST00000478825,;DHRSX,intron_variant,,ENST00000441131,;	G	ENSG00000214717	ENST00000381223	Transcript	missense_variant	363	159	53	Q/H	caG/caC	.	.	.	-1	ZBED1	HGNC	447	protein_coding	YES	CCDS14118.1	ENSP00000370621	ZBED1_HUMAN	C9JXP4_HUMAN	UPI0000073DE9	.	deleterious(0.01)	probably_damaging(0.995)	2/2	.	Superfamily_domains:SSF57667,SMART_domains:SM00614,Pfam_domain:PF02892,hmmpanther:PTHR23272,hmmpanther:PTHR23272:SF2,PROSITE_profiles:PS50808	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGATCTGGGC	.	4	BLCA
POLA1	0	.	GRCh37	X	24833165	24833165	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3348G>A	p.%3D	p.L1116L	ENST00000379059	30/37	68	43	25	62	62	0	POLA1,synonymous_variant,p.%3D,ENST00000379059,;POLA1,synonymous_variant,p.%3D,ENST00000379068,;POLA1,non_coding_transcript_exon_variant,,ENST00000494204,;POLA1,downstream_gene_variant,,ENST00000480125,;	A	ENSG00000101868	ENST00000379059	Transcript	synonymous_variant	3363	3348	1116	L	ctG/ctA	.	.	.	1	POLA1	HGNC	9173	protein_coding	YES	CCDS14214.1	ENSP00000368349	DPOLA_HUMAN	.	UPI000014D383	.	.	.	30/37	.	hmmpanther:PTHR10322,hmmpanther:PTHR10322:SF18,TIGRFAM_domain:TIGR00592,Pfam_domain:PF00136,Superfamily_domains:SSF56672	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTGATAGA	.	5	BLCA
CHDC2	0	.	GRCh37	X	36091420	36091420	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.355T>G	p.Phe119Val	p.F119V	ENST00000313548	4/11	68	48	19	72	71	1	CHDC2,missense_variant,p.Phe119Val,ENST00000313548,;CHDC2,missense_variant,p.Phe295Val,ENST00000378660,;	G	ENSG00000176034	ENST00000313548	Transcript	missense_variant	541	355	119	F/V	Ttc/Gtc	.	.	.	1	CHDC2	HGNC	26708	protein_coding	YES	CCDS14238.1	ENSP00000324767	CHDC2_HUMAN	.	UPI000006F5CD	.	deleterious(0)	probably_damaging(0.998)	4/11	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGGTTCAGT	.	5	BLCA
CASK	0	.	GRCh37	X	41414878	41414878	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1817C>T	p.Ser606Leu	p.S606L	ENST00000378166	20/27	39	31	8	23	23	0	CASK,missense_variant,p.Ser577Leu,ENST00000421587,;CASK,missense_variant,p.Ser583Leu,ENST00000442742,;CASK,missense_variant,p.Ser606Leu,ENST00000378166,;CASK,missense_variant,p.Ser606Leu,ENST00000318588,;CASK,missense_variant,p.Ser198Leu,ENST00000378179,;CASK,missense_variant,p.Ser606Leu,ENST00000378163,;CASK,intron_variant,,ENST00000361962,;CASK,intron_variant,,ENST00000378158,;CASK,intron_variant,,ENST00000378168,;CASK,downstream_gene_variant,,ENST00000378154,;CASK,non_coding_transcript_exon_variant,,ENST00000472704,;	A	ENSG00000147044	ENST00000378166	Transcript	missense_variant	1844	1817	606	S/L	tCa/tTa	COSM3965254	.	.	-1	CASK	HGNC	1497	protein_coding	YES	CCDS14257.1	ENSP00000367408	CSKP_HUMAN	.	UPI000013DA91	.	tolerated_low_confidence(0.67)	benign(0.005)	20/27	.	hmmpanther:PTHR23122,hmmpanther:PTHR23122:SF40	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGTTGATGGC	.	5	BLCA
KDM6A	0	.	GRCh37	X	44918514	44918514	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.997C>T	p.Gln333Ter	p.Q333*	ENST00000377967	12/29	48	38	10	27	27	0	KDM6A,stop_gained,p.Gln333Ter,ENST00000543216,;KDM6A,stop_gained,p.Gln333Ter,ENST00000382899,;KDM6A,stop_gained,p.Gln333Ter,ENST00000377967,;KDM6A,stop_gained,p.Gln333Ter,ENST00000536777,;KDM6A,upstream_gene_variant,,ENST00000433797,;KDM6A,upstream_gene_variant,,ENST00000414389,;KDM6A,upstream_gene_variant,,ENST00000451692,;	T	ENSG00000147050	ENST00000377967	Transcript	stop_gained	1038	997	333	Q/*	Cag/Tag	COSM28786,COSM1319437,COSM2965327,COSM3390645	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	12/29	.	PROSITE_profiles:PS50005,PROSITE_profiles:PS50293,hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017,Gene3D:1.25.40.10,Pfam_domain:PF13414,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5,BUFFER|p.D336G|c.1007A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCAGCCC	.	5	BLCA
WAS	0	.	GRCh37	X	48542302	48542302	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60G>C	p.Gln20His	p.Q20H	ENST00000376701	1/12	38	25	13	43	43	0	WAS,missense_variant,p.Gln20His,ENST00000450772,;WAS,missense_variant,p.Gln20His,ENST00000376701,;WAS,non_coding_transcript_exon_variant,,ENST00000465982,;WAS,non_coding_transcript_exon_variant,,ENST00000483750,;WAS,upstream_gene_variant,,ENST00000490627,;WAS,upstream_gene_variant,,ENST00000474174,;	C	ENSG00000015285	ENST00000376701	Transcript	missense_variant	135	60	20	Q/H	caG/caC	.	.	.	1	WAS	HGNC	12731	protein_coding	YES	CCDS14303.1	ENSP00000365891	WASP_HUMAN	C9J3B7_HUMAN	UPI000003CA0A	.	deleterious(0.04)	benign(0.035)	1/12	.	hmmpanther:PTHR12779:SF2,hmmpanther:PTHR12779,Gene3D:2.30.29.30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CAGCAGAACAT	.	4	BLCA
CXorf67	0	.	GRCh37	X	51150956	51150956	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088C>A	p.Ser363Tyr	p.S363Y	ENST00000342995	1/1	34	21	12	30	30	0	CXorf67,missense_variant,p.Ser363Tyr,ENST00000342995,;RP11-348F1.2,intron_variant,,ENST00000455931,;	A	ENSG00000187690	ENST00000342995	Transcript	missense_variant	1190	1088	363	S/Y	tCt/tAt	.	.	.	1	CXorf67	HGNC	33738	protein_coding	YES	.	ENSP00000342680	CX067_HUMAN	.	UPI000000DB6D	.	tolerated(0.46)	possibly_damaging(0.452)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22467,hmmpanther:PTHR22467:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTCTGGGT	.	5	BLCA
HEPH	0	.	GRCh37	X	65474894	65474894	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2743C>T	p.Gln915Ter	p.Q915*	ENST00000519389	16/21	38	28	9	19	19	0	HEPH,stop_gained,p.Gln861Ter,ENST00000343002,;HEPH,stop_gained,p.Gln915Ter,ENST00000519389,;HEPH,stop_gained,p.Gln864Ter,ENST00000441993,;HEPH,stop_gained,p.Gln864Ter,ENST00000374727,;HEPH,stop_gained,p.Gln672Ter,ENST00000419594,;HEPH,stop_gained,p.Gln594Ter,ENST00000336279,;	T	ENSG00000089472	ENST00000519389	Transcript	stop_gained	2922	2743	915	Q/*	Cag/Tag	COSM1682678	.	.	1	HEPH	HGNC	4866	protein_coding	YES	CCDS14384.3	ENSP00000430620	HEPH_HUMAN	Q5JZ07_HUMAN,Q1HE23_HUMAN,B4DFV3_HUMAN	UPI0001C06560	.	.	.	16/21	.	Superfamily_domains:SSF49503,Gene3D:2.60.40.420,hmmpanther:PTHR10127:SF317,hmmpanther:PTHR10127	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTATCAGTGG	.	5	BLCA
PHKA1	0	.	GRCh37	X	71839103	71839103	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2190C>T	p.%3D	p.F730F	ENST00000373542	20/32	26	16	9	9	9	0	PHKA1,synonymous_variant,p.%3D,ENST00000373545,;PHKA1,synonymous_variant,p.%3D,ENST00000339490,;PHKA1,synonymous_variant,p.%3D,ENST00000373542,;PHKA1,synonymous_variant,p.%3D,ENST00000541944,;PHKA1,synonymous_variant,p.%3D,ENST00000373539,;	A	ENSG00000067177	ENST00000373542	Transcript	synonymous_variant	2350	2190	730	F	ttC/ttT	.	.	.	-1	PHKA1	HGNC	8925	protein_coding	YES	CCDS14421.1	ENSP00000362643	KPB1_HUMAN	.	UPI000013D340	.	.	.	20/32	.	hmmpanther:PTHR10749:SF4,hmmpanther:PTHR10749,Pfam_domain:PF00723	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTGAATGA	.	5	BLCA
FGF16	0	.	GRCh37	X	76709728	76709728	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.81G>T	p.Glu28Ter	p.E28*	ENST00000439435	1/2	12	7	5	11	11	0	FGF16,stop_gained,p.Glu28Ter,ENST00000439435,;	T	ENSG00000196468	ENST00000439435	Transcript	stop_gained	81	82	28	E/*	Gag/Tag	.	.	.	1	FGF16	HGNC	3672	protein_coding	YES	.	ENSP00000399324	.	.	UPI000059DB67	.	.	.	1/2	.	hmmpanther:PTHR11486:SF27,hmmpanther:PTHR11486,Gene3D:2.80.10.50,Pfam_domain:PF00167,SMART_domains:SM00442,Superfamily_domains:SSF50353,Prints_domain:PR00263,Prints_domain:PR00262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGAATGAGCGA	.	3	BLCA
ATRX	0	.	GRCh37	X	76931749	76931749	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3781G>A	p.Asp1261Asn	p.D1261N	ENST00000373344	10/35	106	85	21	109	109	0	ATRX,missense_variant,p.Asp1223Asn,ENST00000395603,;ATRX,missense_variant,p.Asp1261Asn,ENST00000373344,;ATRX,non_coding_transcript_exon_variant,,ENST00000480283,;ATRX,non_coding_transcript_exon_variant,,ENST00000493470,;	T	ENSG00000085224	ENST00000373344	Transcript	missense_variant	3996	3781	1261	D/N	Gat/Aat	.	.	.	-1	ATRX	HGNC	886	protein_coding	YES	CCDS14434.1	ENSP00000362441	ATRX_HUMAN	B4DLE1_HUMAN	UPI0000161F78	.	.	probably_damaging(0.926)	10/35	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10799:SF566,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCATCAT	.	5	BLCA
ATRX	0	.	GRCh37	X	76939606	76939606	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142C>T	p.Ser381Leu	p.S381L	ENST00000373344	9/35	208	142	66	209	208	1	ATRX,missense_variant,p.Ser343Leu,ENST00000395603,;ATRX,missense_variant,p.Ser381Leu,ENST00000373344,;ATRX,non_coding_transcript_exon_variant,,ENST00000480283,;ATRX,upstream_gene_variant,,ENST00000493470,;	A	ENSG00000085224	ENST00000373344	Transcript	missense_variant	1357	1142	381	S/L	tCa/tTa	.	.	.	-1	ATRX	HGNC	886	protein_coding	YES	CCDS14434.1	ENSP00000362441	ATRX_HUMAN	B4DLE1_HUMAN	UPI0000161F78	.	.	benign(0.002)	9/35	.	hmmpanther:PTHR10799:SF566,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAATTA	.	5	BLCA
PABPC5	0	.	GRCh37	X	90690802	90690802	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226T>C	p.%3D	p.L76L	ENST00000312600	2/2	39	26	13	38	38	0	PABPC5,synonymous_variant,p.%3D,ENST00000312600,;PABPC5,intron_variant,,ENST00000373105,;PABPC5-AS1,upstream_gene_variant,,ENST00000456187,;	C	ENSG00000174740	ENST00000312600	Transcript	synonymous_variant	440	226	76	L	Ttg/Ctg	.	.	.	1	PABPC5	HGNC	13629	protein_coding	YES	CCDS14460.1	ENSP00000308012	PABP5_HUMAN	Q5JQF3_HUMAN,B4DM75_HUMAN	UPI0000087790	.	.	.	2/2	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011:SF241,hmmpanther:PTHR24011,Pfam_domain:PF00076,TIGRFAM_domain:TIGR01628,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCTTGAAC	.	5	BLCA
UTY	0	.	GRCh37	Y	15582006	15582006	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.320C>G	p.Ser107Ter	p.S107*	ENST00000331397	3/28	26	21	5	18	18	0	UTY,stop_gained,p.Ser107Ter,ENST00000538878,;UTY,stop_gained,p.Ser107Ter,ENST00000382896,;UTY,stop_gained,p.Ser107Ter,ENST00000537580,;UTY,stop_gained,p.Ser107Ter,ENST00000362096,;UTY,stop_gained,p.Ser107Ter,ENST00000329134,;UTY,stop_gained,p.Ser107Ter,ENST00000331397,;UTY,stop_gained,p.Ser107Ter,ENST00000540140,;UTY,stop_gained,p.Ser107Ter,ENST00000382893,;UTY,stop_gained,p.Ser107Ter,ENST00000545955,;UTY,non_coding_transcript_exon_variant,,ENST00000474365,;UTY,non_coding_transcript_exon_variant,,ENST00000478900,;	C	ENSG00000183878	ENST00000331397	Transcript	stop_gained	1328	320	107	S/*	tCa/tGa	.	.	.	-1	UTY	HGNC	12638	protein_coding	YES	CCDS14783.1	ENSP00000328939	UTY_HUMAN	Q9P108_HUMAN,Q86UB8_HUMAN,Q590G7_HUMAN,F4MH39_HUMAN	UPI00001B3DBF	.	.	.	3/28	.	PROSITE_profiles:PS50005,PROSITE_profiles:PS50293,hmmpanther:PTHR14017,hmmpanther:PTHR14017:SF17,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTGAATAA	.	5	BLCA
PCDH11Y	0	.	GRCh37	Y	4967173	4967173	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A7XN-01A-11D-A34U-08	TCGA-E7-A7XN-10A-01D-A34X-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1554G>A	p.Met518Ile	p.M518I	ENST00000362095	2/3	58	43	15	41	41	0	PCDH11Y,missense_variant,p.Met518Ile,ENST00000215473,;PCDH11Y,missense_variant,p.Met507Ile,ENST00000333703,;PCDH11Y,missense_variant,p.Met497Ile,ENST00000400457,;PCDH11Y,missense_variant,p.Met518Ile,ENST00000362095,;	A	ENSG00000099715	ENST00000362095	Transcript	missense_variant	2288	1554	518	M/I	atG/atA	.	.	.	1	PCDH11Y	HGNC	15813	protein_coding	YES	CCDS14777.1	ENSP00000355419	PC11Y_HUMAN	.	UPI000006EF4D	.	tolerated(0.71)	benign(0)	2/3	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF15,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGATGAAAGT	.	5	BLCA
UPF2	0	.	GRCh37	10	11963300	11963304	+	Frame_Shift_Del	DEL	ACGTC	ACGTC	-	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	ACGTC	ACGTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3812_3816delGACGT	p.Arg1271MetfsTer10	p.R1271Mfs*10	ENST00000356352	21/21	118	101	17	105	105	0	UPF2,frameshift_variant,p.Arg1271MetfsTer10,ENST00000357604,;UPF2,frameshift_variant,p.Arg1271MetfsTer10,ENST00000356352,;UPF2,frameshift_variant,p.Arg1271MetfsTer10,ENST00000397053,;RNU6-1095P,upstream_gene_variant,,ENST00000516148,;	-	ENSG00000151461	ENST00000356352	Transcript	frameshift_variant	4286-4290	3812-3816	1271-1272	RR/X	aGACGT/a	.	.	.	-1	UPF2	HGNC	17854	protein_coding	YES	CCDS7086.1	ENSP00000348708	RENT2_HUMAN	B4DHP3_HUMAN	UPI0000070D5E	.	.	.	21/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	GGATCAACGTCTCCTA	.	2	BLCA
PSTK	0	.	GRCh37	10	124740062	124740062	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67C>G	p.Leu23Val	p.L23V	ENST00000368887	1/7	12	9	3	17	17	0	PSTK,missense_variant,p.Leu23Val,ENST00000368887,;PSTK,missense_variant,p.Leu24Val,ENST00000406217,;PSTK,missense_variant,p.Leu23Val,ENST00000405485,;PSTK,non_coding_transcript_exon_variant,,ENST00000483455,;PSTK,intron_variant,,ENST00000465232,;PSTK,upstream_gene_variant,,ENST00000497219,;PSTK,upstream_gene_variant,,ENST00000496079,;PSTK,upstream_gene_variant,,ENST00000483755,;PSTK,upstream_gene_variant,,ENST00000493461,;	G	ENSG00000179988	ENST00000368887	Transcript	missense_variant	507	67	23	L/V	Ctc/Gtc	.	.	.	1	PSTK	HGNC	28578	protein_coding	YES	CCDS7633.1	ENSP00000357882	PSTK_HUMAN	.	UPI000013F992	.	deleterious(0)	possibly_damaging(0.635)	1/7	.	Superfamily_domains:SSF52540,Superfamily_domains:SSF52540,Gene3D:3.40.50.300,Pfam_domain:PF08433,TIGRFAM_domain:TIGR03575,hmmpanther:PTHR20873	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGTCCTCTGT	.	2	BLCA
FRMD4A	0	.	GRCh37	10	13717008	13717008	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1154A>G	p.Lys385Arg	p.K385R	ENST00000357447	16/25	89	76	13	49	49	0	FRMD4A,missense_variant,p.Lys385Arg,ENST00000378503,;FRMD4A,missense_variant,p.Lys418Arg,ENST00000264546,;FRMD4A,missense_variant,p.Lys385Arg,ENST00000357447,;FRMD4A,missense_variant,p.Lys370Arg,ENST00000358621,;RP11-295P9.12,upstream_gene_variant,,ENST00000609756,;	C	ENSG00000151474	ENST00000357447	Transcript	missense_variant	1523	1154	385	K/R	aAg/aGg	.	.	.	-1	FRMD4A	HGNC	25491	protein_coding	YES	CCDS7101.1	ENSP00000350032	FRM4A_HUMAN	F8WAN4_HUMAN	UPI0000366665	.	tolerated(0.29)	possibly_damaging(0.5)	16/25	.	hmmpanther:PTHR23281:SF12,hmmpanther:PTHR23281,Pfam_domain:PF11819	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCCTTCTTG	.	4	BLCA
C1QL3	0	.	GRCh37	10	16562644	16562644	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.421G>A	p.Glu141Lys	p.E141K	ENST00000298943	1/2	82	67	15	48	48	0	C1QL3,missense_variant,p.Glu141Lys,ENST00000298943,;	T	ENSG00000165985	ENST00000298943	Transcript	missense_variant	1361	421	141	E/K	Gag/Aag	COSM4013063	.	.	-1	C1QL3	HGNC	19359	protein_coding	YES	CCDS31156.1	ENSP00000298943	C1QL3_HUMAN	.	UPI000013E53F	.	deleterious(0.02)	possibly_damaging(0.642)	1/2	.	PROSITE_profiles:PS50871,hmmpanther:PTHR24022,hmmpanther:PTHR24022:SF24,Gene3D:2.60.120.40,Pfam_domain:PF00386,SMART_domains:SM00110,Superfamily_domains:SSF49842,Prints_domain:PR00007	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCGTAGC	.	5	BLCA
STAM	0	.	GRCh37	10	17730077	17730077	+	Missense_Mutation	SNP	G	G	A	rs568999505	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.349G>A	p.Asp117Asn	p.D117N	ENST00000377524	5/14	99	65	34	74	74	0	STAM,missense_variant,p.Asp117Asn,ENST00000377524,;STAM,missense_variant,p.Asp6Asn,ENST00000540523,;STAM,missense_variant,p.Asp6Asn,ENST00000377500,;STAM,3_prime_UTR_variant,,ENST00000445846,;STAM,non_coding_transcript_exon_variant,,ENST00000486183,;	A	ENSG00000136738	ENST00000377524	Transcript	missense_variant	564	349	117	D/N	Gat/Aat	rs568999505	.	.	1	STAM	HGNC	11357	protein_coding	YES	CCDS7122.1	ENSP00000366746	STAM1_HUMAN	C9J1E5_HUMAN,B4DZT2_HUMAN,A6NMU3_HUMAN	UPI000006E278	.	tolerated(0.05)	benign(0.078)	5/14	.	PROSITE_profiles:PS50179,hmmpanther:PTHR13856:SF26,hmmpanther:PTHR13856,Pfam_domain:PF00790,Gene3D:1.25.40.90,SMART_domains:SM00288,Superfamily_domains:SSF48464	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACAGATGAA	by1000G	5	BLCA
EPC1	0	.	GRCh37	10	32561089	32561089	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1939G>C	p.Val647Leu	p.V647L	ENST00000263062	13/15	56	45	11	26	26	0	EPC1,missense_variant,p.Val624Leu,ENST00000319778,;EPC1,missense_variant,p.Val574Leu,ENST00000375110,;EPC1,missense_variant,p.Val647Leu,ENST00000263062,;RP11-166N17.1,downstream_gene_variant,,ENST00000415731,;EPC1,non_coding_transcript_exon_variant,,ENST00000479380,;EPC1,non_coding_transcript_exon_variant,,ENST00000476533,;EPC1,non_coding_transcript_exon_variant,,ENST00000492710,;	G	ENSG00000120616	ENST00000263062	Transcript	missense_variant	2209	1939	647	V/L	Gtt/Ctt	.	.	.	-1	EPC1	HGNC	19876	protein_coding	YES	CCDS7172.1	ENSP00000263062	EPC1_HUMAN	Q68DJ2_HUMAN	UPI000006F77F	.	tolerated(0.26)	benign(0.002)	13/15	.	hmmpanther:PTHR14898,hmmpanther:PTHR14898:SF3,Pfam_domain:PF06752	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAACAAAAC	.	5	BLCA
RBP3	0	.	GRCh37	10	48388319	48388319	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2559G>A	p.%3D	p.E853E	ENST00000224600	1/4	27	21	6	17	17	0	RBP3,synonymous_variant,p.%3D,ENST00000224600,;AL731561.2,downstream_gene_variant,,ENST00000581861,;	T	ENSG00000107618	ENST00000224600	Transcript	synonymous_variant	2673	2559	853	E	gaG/gaA	.	.	.	-1	RBP3	HGNC	9921	protein_coding	YES	CCDS7218.1	ENSP00000224600	RET3_HUMAN	.	UPI000012D87A	.	.	.	1/4	.	hmmpanther:PTHR11261,hmmpanther:PTHR11261:SF1,Pfam_domain:PF03572,Gene3D:3.90.226.10,SMART_domains:SM00245,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AAGGCCTCGGC	.	2	BLCA
PRKG1	0	.	GRCh37	10	54040658	54040658	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1513C>G	p.Leu505Val	p.L505V	ENST00000373980	13/18	116	86	29	59	59	0	PRKG1,missense_variant,p.Leu490Val,ENST00000401604,;PRKG1,missense_variant,p.Leu208Val,ENST00000373975,;PRKG1,missense_variant,p.Leu478Val,ENST00000373985,;PRKG1,missense_variant,p.Leu505Val,ENST00000373980,;PRKG1-AS1,intron_variant,,ENST00000452247,;PRKG1-AS1,intron_variant,,ENST00000426785,;	G	ENSG00000185532	ENST00000373980	Transcript	missense_variant	1930	1513	505	L/V	Ctc/Gtc	COSM3438668,COSM3438669	.	.	1	PRKG1	HGNC	9414	protein_coding	YES	CCDS7244.1	ENSP00000363092	KGP1_HUMAN	.	UPI000012DDCD	.	deleterious(0)	probably_damaging(0.924)	13/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24353:SF61,hmmpanther:PTHR24353,PROSITE_patterns:PS00108,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,PIRSF_domain:PIRSF000559,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATCTCATC	.	5	BLCA
BICC1	0	.	GRCh37	10	60549576	60549576	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930C>T	p.%3D	p.I310I	ENST00000373886	8/21	172	131	41	115	114	0	BICC1,synonymous_variant,p.%3D,ENST00000373886,;BICC1,upstream_gene_variant,,ENST00000263103,;	T	ENSG00000122870	ENST00000373886	Transcript	synonymous_variant	934	930	310	I	atC/atT	.	.	.	1	BICC1	HGNC	19351	protein_coding	YES	CCDS31206.1	ENSP00000362993	BICC1_HUMAN	.	UPI000059D156	.	.	.	8/21	.	PROSITE_profiles:PS50084,hmmpanther:PTHR10627,hmmpanther:PTHR10627:SF32,Pfam_domain:PF00013,Gene3D:3.30.1370.10,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATATCATGCA	.	5	BLCA
PFKFB3	0	.	GRCh37	10	6258109	6258109	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321G>T	p.Leu107Phe	p.L107F	ENST00000379775	4/15	143	120	22	113	113	0	PFKFB3,missense_variant,p.Leu121Phe,ENST00000540253,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000379785,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000317350,;PFKFB3,missense_variant,p.Leu87Phe,ENST00000536985,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000379782,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000360521,;PFKFB3,missense_variant,p.Leu87Phe,ENST00000379789,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000379775,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000467491,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000477914,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000461744,;PFKFB3,missense_variant,p.Leu107Phe,ENST00000490474,;	T	ENSG00000170525	ENST00000379775	Transcript	missense_variant	651	321	107	L/F	ttG/ttT	COSM1297339,COSM1297340	.	.	1	PFKFB3	HGNC	8874	protein_coding	YES	CCDS7078.1	ENSP00000369100	F263_HUMAN	Q9UBT0_HUMAN,Q5VX18_HUMAN	UPI0000001082	.	.	probably_damaging(1)	4/15	.	Superfamily_domains:SSF52540,PIRSF_domain:PIRSF000709,Gene3D:3.40.50.300,Pfam_domain:PF01591,hmmpanther:PTHR10606:SF12,hmmpanther:PTHR10606	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTTGAGAGA	.	4	BLCA
CDH23	0	.	GRCh37	10	73572631	73572631	+	Missense_Mutation	SNP	G	G	C	rs374156784	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2897G>C	p.Arg966Pro	p.R966P	ENST00000398788	21/23	22	16	6	12	12	0	CDH23,missense_variant,p.Arg966Pro,ENST00000398788,;CDH23,missense_variant,p.Arg3211Pro,ENST00000224721,;PSAP,downstream_gene_variant,,ENST00000394934,;PSAP,downstream_gene_variant,,ENST00000394936,;CDH23,non_coding_transcript_exon_variant,,ENST00000475158,;	C	ENSG00000107736	ENST00000398788	Transcript	missense_variant	3214	2897	966	R/P	cGt/cCt	rs374156784,COSM539546	.	.	1	CDH23	HGNC	13733	protein_coding	YES	CCDS53540.1	ENSP00000381768	CAD23_HUMAN	.	UPI0000496839	.	deleterious_low_confidence(0)	benign(0.011)	21/23	.	hmmpanther:PTHR24027:SF277,hmmpanther:PTHR24027	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.001	A:0	uncertain_significance	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTCGTGAGG	byCluster|by1000G	5	BLCA
USP54	0	.	GRCh37	10	75277120	75277120	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3064C>G	p.Gln1022Glu	p.Q1022E	ENST00000339859	19/23	112	76	36	74	74	0	USP54,missense_variant,p.Gln872Glu,ENST00000428547,;USP54,missense_variant,p.Gln1022Glu,ENST00000339859,;USP54,missense_variant,p.Gln1022Glu,ENST00000408019,;USP54,missense_variant,p.Gln204Glu,ENST00000422491,;USP54,missense_variant,p.Gln110Glu,ENST00000394811,;RP11-137L10.6,intron_variant,,ENST00000600206,;RP11-137L10.6,intron_variant,,ENST00000597958,;RP11-137L10.6,intron_variant,,ENST00000595069,;RP11-137L10.6,intron_variant,,ENST00000593790,;RP11-137L10.6,downstream_gene_variant,,ENST00000600607,;USP54,non_coding_transcript_exon_variant,,ENST00000497106,;USP54,3_prime_UTR_variant,,ENST00000418501,;USP54,3_prime_UTR_variant,,ENST00000466048,;USP54,3_prime_UTR_variant,,ENST00000424265,;USP54,downstream_gene_variant,,ENST00000498143,;	C	ENSG00000166348	ENST00000339859	Transcript	missense_variant	3165	3064	1022	Q/E	Caa/Gaa	COSM685364,COSM685363	.	.	-1	USP54	HGNC	23513	protein_coding	YES	CCDS7329.2	ENSP00000345216	UBP54_HUMAN	.	UPI0000DFF136	.	tolerated_low_confidence(0.11)	benign(0.08)	19/23	.	hmmpanther:PTHR22975,hmmpanther:PTHR22975:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTGAGCAA	.	5	BLCA
KIAA1377	0	.	GRCh37	11	101863539	101863539	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3275C>A	p.Ser1092Tyr	p.S1092Y	ENST00000263468	10/11	64	50	14	54	54	0	KIAA1377,missense_variant,p.Ser893Tyr,ENST00000537689,;KIAA1377,missense_variant,p.Ser1092Tyr,ENST00000263468,;KIAA1377,missense_variant,p.Ser56Tyr,ENST00000532077,;KIAA1377,3_prime_UTR_variant,,ENST00000532529,;	A	ENSG00000110318	ENST00000263468	Transcript	missense_variant	3545	3275	1092	S/Y	tCc/tAc	.	.	.	1	KIAA1377	HGNC	29264	protein_coding	YES	CCDS31658.1	ENSP00000263468	K1377_HUMAN	F5H5S1_HUMAN	UPI0000160A3D	.	deleterious(0)	probably_damaging(0.982)	10/11	.	hmmpanther:PTHR31191	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCCATCA	.	5	BLCA
POU2AF1	0	.	GRCh37	11	111228351	111228351	+	Missense_Mutation	SNP	G	G	A	rs754119748	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.275C>T	p.Thr92Ile	p.T92I	ENST00000393067	4/5	46	32	13	17	17	0	POU2AF1,missense_variant,p.Thr94Ile,ENST00000531398,;POU2AF1,missense_variant,p.Thr92Ile,ENST00000393067,;POU2AF1,non_coding_transcript_exon_variant,,ENST00000525584,;POU2AF1,downstream_gene_variant,,ENST00000530793,;POU2AF1,downstream_gene_variant,,ENST00000525662,;	A	ENSG00000110777	ENST00000393067	Transcript	missense_variant	790	275	92	T/I	aCc/aTc	rs754119748	.	.	-1	POU2AF1	HGNC	9211	protein_coding	YES	CCDS31675.1	ENSP00000376786	OBF1_HUMAN	.	UPI000011D77C	.	deleterious(0.04)	benign(0.049)	4/5	.	hmmpanther:PTHR15363:SF3,hmmpanther:PTHR15363,Pfam_domain:PF09310	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGGGGTGGGC	.	5	BLCA
ARHGAP32	0	.	GRCh37	11	128932222	128932222	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874C>T	p.Pro292Ser	p.P292S	ENST00000310343	9/22	52	48	3	52	52	0	ARHGAP32,missense_variant,p.Pro218Ser,ENST00000524655,;ARHGAP32,missense_variant,p.Pro292Ser,ENST00000310343,;ARHGAP32,downstream_gene_variant,,ENST00000525234,;ARHGAP32,non_coding_transcript_exon_variant,,ENST00000533509,;	A	ENSG00000134909	ENST00000310343	Transcript	missense_variant	874	874	292	P/S	Ccc/Tcc	.	.	.	-1	ARHGAP32	HGNC	17399	protein_coding	YES	CCDS44769.1	ENSP00000310561	RHG32_HUMAN	I7H0B0_HUMAN	UPI000159C61F	.	deleterious(0.01)	probably_damaging(0.994)	9/22	.	PROSITE_profiles:PS50002,hmmpanther:PTHR15729,hmmpanther:PTHR15729:SF9,Gene3D:2.30.30.40,Pfam_domain:PF14604,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGGGGCATGT	.	2	BLCA
MRGPRX1	0	.	GRCh37	11	18956411	18956411	+	5'UTR	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-80G>A	.	.	ENST00000302797	1/1	114	95	19	77	77	0	MRGPRX1,5_prime_UTR_variant,,ENST00000302797,;RP11-583F24.8,upstream_gene_variant,,ENST00000528646,;MRGPRX1,intron_variant,,ENST00000526914,;	T	ENSG00000170255	ENST00000302797	Transcript	5_prime_UTR_variant	146	.	.	.	.	.	.	.	-1	MRGPRX1	HGNC	17962	protein_coding	YES	CCDS7846.1	ENSP00000305766	MRGX1_HUMAN	.	UPI000003BCCF	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCACCACCC	.	2	BLCA
MPPED2	0	.	GRCh37	11	30557541	30557541	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310G>C	p.Gly104Arg	p.G104R	ENST00000358117	2/6	32	26	6	23	23	0	MPPED2,missense_variant,p.Gly104Arg,ENST00000448418,;MPPED2,missense_variant,p.Gly104Arg,ENST00000358117,;MPPED2,splice_region_variant,,ENST00000525519,;MPPED2,missense_variant,p.Asp104His,ENST00000526437,;MPPED2,splice_region_variant,,ENST00000524636,;	G	ENSG00000066382	ENST00000358117	Transcript	missense_variant	433	310	104	G/R	Gga/Cga	.	.	.	-1	MPPED2	HGNC	1180	protein_coding	YES	CCDS7870.1	ENSP00000350833	MPPD2_HUMAN	F2Z346_HUMAN	UPI0000124E87	.	tolerated(0.06)	benign(0.005)	2/6	.	hmmpanther:PTHR12905:SF3,hmmpanther:PTHR12905,Pfam_domain:PF00149,Gene3D:3.60.21.10,PIRSF_domain:PIRSF035808,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTACCTAACC	.	3	BLCA
CAPRIN1	0	.	GRCh37	11	34118751	34118751	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1909G>A	p.Asp637Asn	p.D637N	ENST00000341394	17/19	44	40	4	57	57	0	CAPRIN1,missense_variant,p.Asp637Asn,ENST00000532820,;CAPRIN1,missense_variant,p.Asp637Asn,ENST00000389645,;CAPRIN1,missense_variant,p.Asp637Asn,ENST00000530820,;CAPRIN1,missense_variant,p.Asp637Asn,ENST00000341394,;CAPRIN1,missense_variant,p.Asp556Asn,ENST00000529307,;CAPRIN1,non_coding_transcript_exon_variant,,ENST00000531668,;CAPRIN1,non_coding_transcript_exon_variant,,ENST00000533562,;CAPRIN1,non_coding_transcript_exon_variant,,ENST00000533657,;CAPRIN1,non_coding_transcript_exon_variant,,ENST00000528856,;CAPRIN1,downstream_gene_variant,,ENST00000528948,;	A	ENSG00000135387	ENST00000341394	Transcript	missense_variant	2098	1909	637	D/N	Gat/Aat	.	.	.	1	CAPRIN1	HGNC	6743	protein_coding	YES	CCDS31453.1	ENSP00000340329	CAPR1_HUMAN	G3V153_HUMAN,E9PLA9_HUMAN	UPI0000251DB5	.	deleterious(0)	probably_damaging(0.99)	17/19	.	hmmpanther:PTHR22922,hmmpanther:PTHR22922:SF3,Pfam_domain:PF12287	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATATGATGGT	.	4	BLCA
NUP160	0	.	GRCh37	11	47869415	47869415	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.299A>G	p.Asn100Ser	p.N100S	ENST00000378460	2/36	62	54	8	55	55	0	NUP160,missense_variant,p.Asn66Ser,ENST00000532747,;NUP160,missense_variant,p.Asn100Ser,ENST00000526870,;NUP160,missense_variant,p.Asn100Ser,ENST00000378460,;NUP160,5_prime_UTR_variant,,ENST00000530326,;NUP160,non_coding_transcript_exon_variant,,ENST00000529863,;	C	ENSG00000030066	ENST00000378460	Transcript	missense_variant	346	299	100	N/S	aAc/aGc	.	.	.	-1	NUP160	HGNC	18017	protein_coding	YES	CCDS31484.1	ENSP00000367721	NU160_HUMAN	.	UPI0000185FEB	.	deleterious(0)	probably_damaging(0.958)	2/36	.	hmmpanther:PTHR21286,Pfam_domain:PF11715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTGTTTCTG	.	4	BLCA
HRAS	0	.	GRCh37	11	534289	534289	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>A	p.Gly12Ser	p.G12S	ENST00000451590	2/5	36	31	4	39	39	0	HRAS,missense_variant,p.Gly12Ser,ENST00000417302,;HRAS,missense_variant,p.Gly12Ser,ENST00000397596,;HRAS,missense_variant,p.Gly12Ser,ENST00000311189,;HRAS,missense_variant,p.Gly12Ser,ENST00000397594,;HRAS,missense_variant,p.Gly12Ser,ENST00000451590,;LRRC56,upstream_gene_variant,,ENST00000270115,;RP13-46H24.1,downstream_gene_variant,,ENST00000526431,;HRAS,non_coding_transcript_exon_variant,,ENST00000468682,;HRAS,non_coding_transcript_exon_variant,,ENST00000482021,;HRAS,upstream_gene_variant,,ENST00000479482,;HRAS,upstream_gene_variant,,ENST00000462734,;HRAS,upstream_gene_variant,,ENST00000478324,;HRAS,missense_variant,p.Gly12Ser,ENST00000493230,;	T	ENSG00000174775	ENST00000451590	Transcript	missense_variant	222	34	12	G/S	Ggc/Agc	CM061797,CM053283,COSM480,COSM482,COSM481,COSM1644659,COSM1746299,COSM3931342	.	.	-1	HRAS	HGNC	5173	protein_coding	YES	CCDS7698.1	ENSP00000407586	RASH_HUMAN	Q9UM97_HUMAN,Q71SP6_HUMAN,P78460_HUMAN	UPI0000001251	.	deleterious(0.02)	possibly_damaging(0.525)	2/5	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51421,hmmpanther:PTHR24070:SF184,hmmpanther:PTHR24070,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00174,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	0,0,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.G12S|c.34G>A|79,SITE|p.G12S|c.34G>A|6,CODON|p.G12A|c.35G>C|9,CODON|p.G12D|c.35G>A|17,CODON|p.G12V|c.35G>T|251,CODON|p.G12D|c.35G>A|67,BUFFER|p.G13D|c.38G>A|3,BUFFER|p.G13D|c.38G>A|14,BUFFER|p.G13V|c.38G>T|4,BUFFER|p.G13V|c.38G>T|19,BUFFER|p.G13R|c.37G>C|21,BUFFER|p.G13R|c.37G>C|311,BUFFER|p.G13C|c.37G>T|7,BUFFER|p.G13S|c.37G>A|14,BUFFER|p.G12C|c.34G>T|32,BUFFER|p.G12R|c.34G>C|14	RADIA|MUTECT|VARSCANS	ACCGCCGGCGC	.	3	BLCA
OR5W2	0	.	GRCh37	11	55681984	55681984	+	Silent	SNP	C	C	A	rs752473307	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.75G>T	p.%3D	p.V25V	ENST00000344514	1/1	58	36	21	60	60	0	OR5W2,synonymous_variant,p.%3D,ENST00000344514,;	A	ENSG00000187612	ENST00000344514	Transcript	synonymous_variant	75	75	25	V	gtG/gtT	rs752473307	.	.	-1	OR5W2	HGNC	15299	protein_coding	YES	CCDS31513.1	ENSP00000342448	OR5W2_HUMAN	.	UPI0000061E8D	.	.	.	1/1	.	hmmpanther:PTHR26452:SF58,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGTCACTTT	.	5	BLCA
TRIM5	0	.	GRCh37	11	5685996	5685996	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*43C>G	.	.	ENST00000380034	8/8	31	25	6	46	46	0	TRIM5,3_prime_UTR_variant,,ENST00000380034,;TRIM5,3_prime_UTR_variant,,ENST00000305836,;TRIM5,3_prime_UTR_variant,,ENST00000396847,;TRIM5,intron_variant,,ENST00000380027,;TRIM5,intron_variant,,ENST00000438025,;TRIM5,intron_variant,,ENST00000396853,;TRIM5,intron_variant,,ENST00000396855,;TRIM5,intron_variant,,ENST00000483835,;TRIM5,downstream_gene_variant,,ENST00000465634,;TRIM5,downstream_gene_variant,,ENST00000492086,;TRIM5,3_prime_UTR_variant,,ENST00000433961,;	C	ENSG00000132256	ENST00000380034	Transcript	3_prime_UTR_variant	1782	.	.	.	.	.	.	.	-1	TRIM5	HGNC	16276	protein_coding	YES	CCDS31393.1	ENSP00000369373	TRIM5_HUMAN	L7REZ6_HUMAN,L7RET5_HUMAN,E7EQQ5_HUMAN,D8L201_HUMAN,C9JWN8_HUMAN	UPI00000717A7	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTGGACAAG	.	2	BLCA
OR56A4	0	.	GRCh37	11	6023726	6023726	+	Missense_Mutation	SNP	G	G	A	rs748087343	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.653C>T	p.Ser218Phe	p.S218F	ENST00000330728	1/1	33	25	8	23	23	0	OR56A4,missense_variant,p.Ser218Phe,ENST00000330728,;	A	ENSG00000183389	ENST00000330728	Transcript	missense_variant	699	653	218	S/F	tCt/tTt	rs748087343,COSM3450493	.	.	-1	OR56A4	HGNC	14791	protein_coding	YES	CCDS31404.1	ENSP00000328215	O56A4_HUMAN	.	UPI000041A756	.	deleterious(0.03)	possibly_damaging(0.894)	1/1	.	Superfamily_domains:SSF81321,Pfam_domain:PF13853,Gene3D:1.20.1070.10,hmmpanther:PTHR24248,hmmpanther:PTHR24248:SF60,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCAGAAAGC	.	5	BLCA
OR56B4	0	.	GRCh37	11	6129139	6129139	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131C>T	p.Ala44Val	p.A44V	ENST00000316529	1/1	57	50	6	46	46	0	OR56B4,missense_variant,p.Ala44Val,ENST00000316529,;RP11-290F24.3,downstream_gene_variant,,ENST00000529961,;	T	ENSG00000180919	ENST00000316529	Transcript	missense_variant	226	131	44	A/V	gCt/gTt	.	.	.	1	OR56B4	HGNC	15248	protein_coding	YES	CCDS31406.1	ENSP00000321196	O56B4_HUMAN	.	UPI000004B214	.	deleterious(0.02)	benign(0.17)	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR26450,hmmpanther:PTHR26450:SF131,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTAGCTCTTG	.	4	BLCA
EML3	0	.	GRCh37	11	62376855	62376855	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729A>G	p.%3D	p.P243P	ENST00000394773	6/22	85	58	27	86	86	0	EML3,synonymous_variant,p.%3D,ENST00000278845,;EML3,synonymous_variant,p.%3D,ENST00000494176,;EML3,synonymous_variant,p.%3D,ENST00000394773,;EML3,synonymous_variant,p.%3D,ENST00000394776,;EML3,synonymous_variant,p.%3D,ENST00000529309,;EML3,synonymous_variant,p.%3D,ENST00000531557,;ROM1,upstream_gene_variant,,ENST00000278833,;ROM1,upstream_gene_variant,,ENST00000525801,;EML3,downstream_gene_variant,,ENST00000419857,;ROM1,upstream_gene_variant,,ENST00000534093,;EML3,downstream_gene_variant,,ENST00000466671,;ROM1,upstream_gene_variant,,ENST00000525947,;EML3,downstream_gene_variant,,ENST00000466886,;RP11-831H9.3,downstream_gene_variant,,ENST00000532626,;EML3,upstream_gene_variant,,ENST00000438258,;ROM1,upstream_gene_variant,,ENST00000529273,;EML3,3_prime_UTR_variant,,ENST00000494448,;EML3,upstream_gene_variant,,ENST00000460939,;EML3,upstream_gene_variant,,ENST00000526116,;EML3,upstream_gene_variant,,ENST00000462626,;EML3,upstream_gene_variant,,ENST00000483199,;EML3,upstream_gene_variant,,ENST00000533165,;EML3,upstream_gene_variant,,ENST00000524518,;	C	ENSG00000149499	ENST00000394773	Transcript	synonymous_variant	1037	729	243	P	ccA/ccG	.	.	.	-1	EML3	HGNC	26666	protein_coding	YES	CCDS8023.2	ENSP00000378254	EMAL3_HUMAN	G3V195_HUMAN,E9PJV5_HUMAN,C9J6V3_HUMAN	UPI0000228E33	.	.	.	6/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF15,Pfam_domain:PF03451,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCGGTGGGCC	.	5	BLCA
FERMT3	0	.	GRCh37	11	63990581	63990581	+	Missense_Mutation	SNP	G	G	C	rs774682839	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1744G>C	p.Asp582His	p.D582H	ENST00000279227	14/15	51	42	8	45	45	0	FERMT3,missense_variant,p.Asp578His,ENST00000345728,;FERMT3,missense_variant,p.Asp582His,ENST00000279227,;FERMT3,missense_variant,p.Asp99His,ENST00000545896,;TRPT1,downstream_gene_variant,,ENST00000317459,;TRPT1,downstream_gene_variant,,ENST00000545812,;FERMT3,downstream_gene_variant,,ENST00000544997,;TRPT1,downstream_gene_variant,,ENST00000394546,;NUDT22,upstream_gene_variant,,ENST00000428347,;TRPT1,downstream_gene_variant,,ENST00000394547,;NUDT22,upstream_gene_variant,,ENST00000279206,;TRPT1,downstream_gene_variant,,ENST00000541278,;NUDT22,upstream_gene_variant,,ENST00000539325,;TRPT1,downstream_gene_variant,,ENST00000546133,;TRPT1,downstream_gene_variant,,ENST00000546089,;TRPT1,downstream_gene_variant,,ENST00000544286,;NUDT22,upstream_gene_variant,,ENST00000441250,;TRPT1,downstream_gene_variant,,ENST00000540472,;FERMT3,non_coding_transcript_exon_variant,,ENST00000540554,;TRPT1,downstream_gene_variant,,ENST00000542040,;NUDT22,upstream_gene_variant,,ENST00000535000,;FERMT3,downstream_gene_variant,,ENST00000546255,;NUDT22,upstream_gene_variant,,ENST00000422364,;TRPT1,downstream_gene_variant,,ENST00000537907,;FERMT3,downstream_gene_variant,,ENST00000540957,;TRPT1,downstream_gene_variant,,ENST00000536234,;TRPT1,downstream_gene_variant,,ENST00000539595,;TRPT1,downstream_gene_variant,,ENST00000539436,;FERMT3,downstream_gene_variant,,ENST00000541326,;NUDT22,upstream_gene_variant,,ENST00000543358,;TRPT1,downstream_gene_variant,,ENST00000541928,;NUDT22,upstream_gene_variant,,ENST00000537707,;TRPT1,downstream_gene_variant,,ENST00000536158,;	C	ENSG00000149781	ENST00000279227	Transcript	missense_variant	1839	1744	582	D/H	Gac/Cac	rs774682839	.	.	1	FERMT3	HGNC	23151	protein_coding	YES	CCDS8060.1	ENSP00000279227	URP2_HUMAN	F5H3I6_HUMAN,F5H1C6_HUMAN	UPI000019270B	.	deleterious(0)	probably_damaging(0.998)	14/15	.	hmmpanther:PTHR16160:SF1,hmmpanther:PTHR16160,Gene3D:2.30.29.30,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATCGACTTG	.	5	BLCA
MRPL49	0	.	GRCh37	11	64893219	64893219	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376G>T	p.Asp126Tyr	p.D126Y	ENST00000279242	4/4	144	107	37	107	107	0	MRPL49,missense_variant,p.Asp126Tyr,ENST00000279242,;MRPL49,missense_variant,p.Asp87Tyr,ENST00000533943,;MRPL49,3_prime_UTR_variant,,ENST00000534078,;MRPL49,intron_variant,,ENST00000531705,;FAU,upstream_gene_variant,,ENST00000279259,;FAU,upstream_gene_variant,,ENST00000525297,;SYVN1,downstream_gene_variant,,ENST00000307289,;FAU,upstream_gene_variant,,ENST00000526555,;MRPL49,downstream_gene_variant,,ENST00000526171,;FAU,upstream_gene_variant,,ENST00000529259,;FAU,upstream_gene_variant,,ENST00000434372,;SYVN1,downstream_gene_variant,,ENST00000294256,;FAU,upstream_gene_variant,,ENST00000529639,;SYVN1,downstream_gene_variant,,ENST00000377190,;SYVN1,downstream_gene_variant,,ENST00000526060,;FAU,upstream_gene_variant,,ENST00000527548,;FAU,upstream_gene_variant,,ENST00000531743,;MRPL49,non_coding_transcript_exon_variant,,ENST00000524482,;MRPL49,non_coding_transcript_exon_variant,,ENST00000528529,;SYVN1,downstream_gene_variant,,ENST00000527765,;SYVN1,downstream_gene_variant,,ENST00000526121,;MRPL49,missense_variant,p.Asp126Tyr,ENST00000526319,;MRPL49,non_coding_transcript_exon_variant,,ENST00000532671,;SYVN1,intron_variant,,ENST00000530451,;FAU,upstream_gene_variant,,ENST00000531357,;SYVN1,downstream_gene_variant,,ENST00000449943,;	T	ENSG00000149792	ENST00000279242	Transcript	missense_variant	395	376	126	D/Y	Gat/Tat	.	.	.	1	MRPL49	HGNC	1176	protein_coding	YES	CCDS8096.1	ENSP00000279242	RM49_HUMAN	.	UPI000000122A	.	deleterious(0.01)	benign(0.398)	4/4	.	hmmpanther:PTHR13477,hmmpanther:PTHR13477:SF0,Pfam_domain:PF05046	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAAGATTTT	.	5	BLCA
MRPL49	0	.	GRCh37	11	64893425	64893425	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*81G>C	.	.	ENST00000279242	4/4	26	20	6	19	19	0	MRPL49,3_prime_UTR_variant,,ENST00000534078,;MRPL49,3_prime_UTR_variant,,ENST00000279242,;MRPL49,3_prime_UTR_variant,,ENST00000533943,;MRPL49,intron_variant,,ENST00000531705,;FAU,upstream_gene_variant,,ENST00000279259,;FAU,upstream_gene_variant,,ENST00000525297,;SYVN1,downstream_gene_variant,,ENST00000307289,;FAU,upstream_gene_variant,,ENST00000526555,;MRPL49,downstream_gene_variant,,ENST00000526171,;FAU,upstream_gene_variant,,ENST00000529259,;FAU,upstream_gene_variant,,ENST00000434372,;SYVN1,downstream_gene_variant,,ENST00000294256,;FAU,upstream_gene_variant,,ENST00000529639,;SYVN1,downstream_gene_variant,,ENST00000377190,;SYVN1,downstream_gene_variant,,ENST00000526060,;FAU,upstream_gene_variant,,ENST00000527548,;FAU,upstream_gene_variant,,ENST00000531743,;MRPL49,non_coding_transcript_exon_variant,,ENST00000524482,;MRPL49,non_coding_transcript_exon_variant,,ENST00000528529,;SYVN1,downstream_gene_variant,,ENST00000527765,;SYVN1,downstream_gene_variant,,ENST00000526121,;MRPL49,non_coding_transcript_exon_variant,,ENST00000532671,;MRPL49,intron_variant,,ENST00000526319,;SYVN1,intron_variant,,ENST00000530451,;FAU,upstream_gene_variant,,ENST00000531357,;SYVN1,downstream_gene_variant,,ENST00000449943,;	C	ENSG00000149792	ENST00000279242	Transcript	3_prime_UTR_variant	601	.	.	.	.	.	.	.	1	MRPL49	HGNC	1176	protein_coding	YES	CCDS8096.1	ENSP00000279242	RM49_HUMAN	.	UPI000000122A	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTGGAGCCC	.	5	BLCA
FOSL1	0	.	GRCh37	11	65664290	65664290	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287C>T	p.Pro96Leu	p.P96L	ENST00000312562	2/4	59	49	10	61	61	0	FOSL1,missense_variant,p.Pro96Leu,ENST00000531493,;FOSL1,missense_variant,p.Pro96Leu,ENST00000312562,;FOSL1,missense_variant,p.Pro96Leu,ENST00000532401,;FOSL1,intron_variant,,ENST00000534222,;FOSL1,intron_variant,,ENST00000448083,;	A	ENSG00000175592	ENST00000312562	Transcript	missense_variant	474	287	96	P/L	cCt/cTt	.	.	.	-1	FOSL1	HGNC	13718	protein_coding	YES	CCDS8121.1	ENSP00000310170	FOSL1_HUMAN	.	UPI0000049C8A	.	tolerated(0.19)	benign(0.021)	2/4	.	hmmpanther:PTHR23351:SF6,hmmpanther:PTHR23351	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACAAGGCCTT	.	5	BLCA
TPP1	0	.	GRCh37	11	6635696	6635696	+	3'UTR	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*81C>T	.	.	ENST00000299427	13/13	14	10	4	8	8	0	TPP1,3_prime_UTR_variant,,ENST00000533371,;TPP1,3_prime_UTR_variant,,ENST00000299427,;TAF10,upstream_gene_variant,,ENST00000299424,;ILK,downstream_gene_variant,,ENST00000420936,;ILK,downstream_gene_variant,,ENST00000537806,;ILK,downstream_gene_variant,,ENST00000299421,;ILK,downstream_gene_variant,,ENST00000528995,;TPP1,downstream_gene_variant,,ENST00000436873,;TPP1,downstream_gene_variant,,ENST00000528657,;ILK,downstream_gene_variant,,ENST00000396751,;RP11-732A19.9,upstream_gene_variant,,ENST00000545572,;RP11-732A19.2,upstream_gene_variant,,ENST00000527398,;TPP1,downstream_gene_variant,,ENST00000534644,;TPP1,downstream_gene_variant,,ENST00000524903,;TPP1,downstream_gene_variant,,ENST00000532191,;ILK,downstream_gene_variant,,ENST00000530016,;TPP1,downstream_gene_variant,,ENST00000524788,;TAF10,upstream_gene_variant,,ENST00000527248,;ILK,downstream_gene_variant,,ENST00000534706,;ILK,downstream_gene_variant,,ENST00000526711,;TPP1,downstream_gene_variant,,ENST00000528807,;ILK,downstream_gene_variant,,ENST00000528784,;TPP1,downstream_gene_variant,,ENST00000524924,;TAF10,upstream_gene_variant,,ENST00000531760,;TPP1,downstream_gene_variant,,ENST00000530040,;TPP1,downstream_gene_variant,,ENST00000524611,;ILK,downstream_gene_variant,,ENST00000526318,;ILK,downstream_gene_variant,,ENST00000527394,;ILK,downstream_gene_variant,,ENST00000527327,;TPP1,downstream_gene_variant,,ENST00000528917,;TPP1,downstream_gene_variant,,ENST00000428886,;TAF10,upstream_gene_variant,,ENST00000526743,;TPP1,downstream_gene_variant,,ENST00000528571,;TPP1,downstream_gene_variant,,ENST00000531754,;TAF10,upstream_gene_variant,,ENST00000532344,;ILK,downstream_gene_variant,,ENST00000532063,;	A	ENSG00000166340	ENST00000299427	Transcript	3_prime_UTR_variant	1834	.	.	.	.	.	.	.	-1	TPP1	HGNC	2073	protein_coding	YES	CCDS7770.1	ENSP00000299427	TPP1_HUMAN	E9PME9_HUMAN,D3DQU2_HUMAN	UPI0000001109	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGCAGGGCTT	.	3	BLCA
PC	0	.	GRCh37	11	66617150	66617150	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3079T>G	p.Phe1027Val	p.F1027V	ENST00000393960	21/23	41	33	7	37	37	0	PC,missense_variant,p.Phe1027Val,ENST00000393960,;PC,missense_variant,p.Phe1027Val,ENST00000393958,;PC,missense_variant,p.Phe147Val,ENST00000529047,;PC,missense_variant,p.Phe1027Val,ENST00000393955,;RCE1,downstream_gene_variant,,ENST00000525356,;RCE1,downstream_gene_variant,,ENST00000309657,;RCE1,downstream_gene_variant,,ENST00000524506,;PC,non_coding_transcript_exon_variant,,ENST00000528224,;PC,downstream_gene_variant,,ENST00000530259,;RCE1,downstream_gene_variant,,ENST00000534645,;PC,upstream_gene_variant,,ENST00000529352,;RCE1,downstream_gene_variant,,ENST00000533277,;RCE1,downstream_gene_variant,,ENST00000532775,;RCE1,downstream_gene_variant,,ENST00000524849,;	C	ENSG00000173599	ENST00000393960	Transcript	missense_variant	3361	3079	1027	F/V	Ttt/Gtt	.	.	.	-1	PC	HGNC	8636	protein_coding	YES	CCDS8152.1	ENSP00000377532	PYC_HUMAN	E9PS68_HUMAN	UPI0000132BC4	.	deleterious(0.01)	possibly_damaging(0.734)	21/23	.	Superfamily_domains:SSF89000,PIRSF_domain:PIRSF001594,TIGRFAM_domain:TIGR01235,Gene3D:2qf7A03,Pfam_domain:PF02436,hmmpanther:PTHR18866	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAAGGTGG	.	4	BLCA
NUMA1	0	.	GRCh37	11	71714955	71714955	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6314C>T	p.Ala2105Val	p.A2105V	ENST00000393695	26/27	51	35	16	52	52	0	NUMA1,missense_variant,p.Ala2105Val,ENST00000393695,;NUMA1,missense_variant,p.Ala954Val,ENST00000541584,;NUMA1,missense_variant,p.Ala969Val,ENST00000351960,;NUMA1,missense_variant,p.Ala2091Val,ENST00000358965,;IL18BP,downstream_gene_variant,,ENST00000393705,;IL18BP,downstream_gene_variant,,ENST00000393707,;IL18BP,downstream_gene_variant,,ENST00000497194,;IL18BP,downstream_gene_variant,,ENST00000404792,;IL18BP,downstream_gene_variant,,ENST00000260049,;IL18BP,downstream_gene_variant,,ENST00000531053,;IL18BP,downstream_gene_variant,,ENST00000393703,;IL18BP,downstream_gene_variant,,ENST00000337131,;IL18BP,downstream_gene_variant,,ENST00000531777,;NUMA1,downstream_gene_variant,,ENST00000541262,;IL18BP,downstream_gene_variant,,ENST00000414358,;IL18BP,downstream_gene_variant,,ENST00000525932,;NUMA1,non_coding_transcript_exon_variant,,ENST00000540626,;IL18BP,intron_variant,,ENST00000343898,;NUMA1,downstream_gene_variant,,ENST00000545721,;NUMA1,downstream_gene_variant,,ENST00000546036,;IL18BP,downstream_gene_variant,,ENST00000534583,;	A	ENSG00000137497	ENST00000393695	Transcript	missense_variant	6646	6314	2105	A/V	gCc/gTc	.	.	.	-1	NUMA1	HGNC	8059	protein_coding	YES	CCDS31633.1	ENSP00000377298	NUMA1_HUMAN	Q9UPG3_HUMAN,Q9UNL7_HUMAN,Q86XH4_HUMAN,Q4LE64_HUMAN,G1UI36_HUMAN,F8W6T3_HUMAN,F5H7R5_HUMAN,F5H763_HUMAN,F5H6Y5_HUMAN,F5H4Y4_HUMAN,F5H4J1_HUMAN,F5H3L6_HUMAN,F5H2F3_HUMAN,F5H1L0_HUMAN,F5H0Z7_HUMAN,F5H073_HUMAN,F5H068_HUMAN,F5GZW1_HUMAN,F5GWK2_HUMAN,F5GWA2_HUMAN	UPI000013DB8B	.	.	benign(0.008)	26/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18902,hmmpanther:PTHR18902:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTGGCACCA	.	5	BLCA
UTP20	0	.	GRCh37	12	101750853	101750853	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5684G>C	p.Gly1895Ala	p.G1895A	ENST00000261637	43/62	56	50	6	32	32	0	UTP20,missense_variant,p.Gly1895Ala,ENST00000261637,;snoU13,downstream_gene_variant,,ENST00000458958,;	C	ENSG00000120800	ENST00000261637	Transcript	missense_variant	5858	5684	1895	G/A	gGa/gCa	.	.	.	1	UTP20	HGNC	17897	protein_coding	YES	CCDS9081.1	ENSP00000261637	UTP20_HUMAN	.	UPI00001FB38B	.	deleterious(0)	probably_damaging(1)	43/62	.	hmmpanther:PTHR17695:SF11,hmmpanther:PTHR17695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGTGGATACC	.	4	BLCA
MYBPC1	0	.	GRCh37	12	102040593	102040593	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.943C>T	p.Gln315Ter	p.Q315*	ENST00000452455	11/30	67	52	14	41	41	0	MYBPC1,stop_gained,p.Gln296Ter,ENST00000536007,;MYBPC1,stop_gained,p.Gln289Ter,ENST00000547405,;MYBPC1,stop_gained,p.Gln315Ter,ENST00000550270,;MYBPC1,stop_gained,p.Gln340Ter,ENST00000361685,;MYBPC1,stop_gained,p.Gln216Ter,ENST00000551300,;MYBPC1,stop_gained,p.Gln340Ter,ENST00000361466,;MYBPC1,stop_gained,p.Gln315Ter,ENST00000452455,;MYBPC1,stop_gained,p.Gln328Ter,ENST00000549145,;MYBPC1,stop_gained,p.Gln302Ter,ENST00000392934,;MYBPC1,stop_gained,p.Gln315Ter,ENST00000553190,;MYBPC1,stop_gained,p.Gln315Ter,ENST00000545503,;MYBPC1,stop_gained,p.Gln315Ter,ENST00000441232,;MYBPC1,stop_gained,p.Gln315Ter,ENST00000360610,;MYBPC1,stop_gained,p.Gln301Ter,ENST00000547509,;MYBPC1,stop_gained,p.Gln303Ter,ENST00000541119,;MYBPC1,downstream_gene_variant,,ENST00000550514,;RP11-755O11.2,non_coding_transcript_exon_variant,,ENST00000552081,;RP11-755O11.2,non_coding_transcript_exon_variant,,ENST00000547027,;MYBPC1,intron_variant,,ENST00000550501,;MYBPC1,downstream_gene_variant,,ENST00000552198,;	T	ENSG00000196091	ENST00000452455	Transcript	stop_gained	1045	943	315	Q/*	Cag/Tag	.	.	.	1	MYBPC1	HGNC	7549	protein_coding	YES	CCDS58268.1	ENSP00000400908	MYPC1_HUMAN	F8W1Z9_HUMAN	UPI0001AE6B26	.	.	.	11/30	.	hmmpanther:PTHR19900:SF43,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTGTCAGATG	.	3	BLCA
MYBPC1	0	.	GRCh37	12	102040609	102040609	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.959C>T	p.Ser320Leu	p.S320L	ENST00000452455	11/30	72	59	13	51	51	0	MYBPC1,missense_variant,p.Ser301Leu,ENST00000536007,;MYBPC1,missense_variant,p.Ser294Leu,ENST00000547405,;MYBPC1,missense_variant,p.Ser320Leu,ENST00000550270,;MYBPC1,missense_variant,p.Ser345Leu,ENST00000361685,;MYBPC1,missense_variant,p.Ser221Leu,ENST00000551300,;MYBPC1,missense_variant,p.Ser345Leu,ENST00000361466,;MYBPC1,missense_variant,p.Ser320Leu,ENST00000452455,;MYBPC1,missense_variant,p.Ser333Leu,ENST00000549145,;MYBPC1,missense_variant,p.Ser307Leu,ENST00000392934,;MYBPC1,missense_variant,p.Ser320Leu,ENST00000553190,;MYBPC1,missense_variant,p.Ser320Leu,ENST00000545503,;MYBPC1,missense_variant,p.Ser320Leu,ENST00000441232,;MYBPC1,missense_variant,p.Ser320Leu,ENST00000360610,;MYBPC1,missense_variant,p.Ser306Leu,ENST00000547509,;MYBPC1,missense_variant,p.Ser308Leu,ENST00000541119,;MYBPC1,downstream_gene_variant,,ENST00000550514,;RP11-755O11.2,non_coding_transcript_exon_variant,,ENST00000552081,;RP11-755O11.2,non_coding_transcript_exon_variant,,ENST00000547027,;MYBPC1,intron_variant,,ENST00000550501,;MYBPC1,downstream_gene_variant,,ENST00000552198,;	T	ENSG00000196091	ENST00000452455	Transcript	missense_variant	1061	959	320	S/L	tCa/tTa	.	.	.	1	MYBPC1	HGNC	7549	protein_coding	YES	CCDS58268.1	ENSP00000400908	MYPC1_HUMAN	F8W1Z9_HUMAN	UPI0001AE6B26	.	deleterious(0)	possibly_damaging(0.595)	11/30	.	hmmpanther:PTHR19900:SF43,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGATTCAGAGT	.	3	BLCA
SPPL3	0	.	GRCh37	12	121205247	121205247	+	Frame_Shift_Del	DEL	C	C	-	rs764831738	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.923delG	p.Arg308ProfsTer17	p.R308Pfs*17	ENST00000353487	9/11	55	48	7	27	27	0	SPPL3,frameshift_variant,p.Arg308ProfsTer17,ENST00000353487,;SPPL3,downstream_gene_variant,,ENST00000543608,;SPPL3,downstream_gene_variant,,ENST00000536996,;SPPL3,downstream_gene_variant,,ENST00000543854,;SPPL3,non_coding_transcript_exon_variant,,ENST00000545209,;SPPL3,non_coding_transcript_exon_variant,,ENST00000392495,;	-	ENSG00000157837	ENST00000353487	Transcript	frameshift_variant	1427	923	308	R/X	cGc/cc	rs764831738	.	.	-1	SPPL3	HGNC	30424	protein_coding	YES	CCDS9208.1	ENSP00000288680	SPPL3_HUMAN	F5H7J2_HUMAN,F5H6I1_HUMAN,F5H4Y6_HUMAN,F5H4L1_HUMAN,F5H2A2_HUMAN	UPI0000013590	.	.	.	9/11	.	hmmpanther:PTHR12174,hmmpanther:PTHR12174:SF22,Pfam_domain:PF04258,SMART_domains:SM00730	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGCATGCGCCCG	.	3	BLCA
SPPL3	0	.	GRCh37	12	121205362	121205362	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808G>T	p.Gly270Ter	p.G270*	ENST00000353487	9/11	48	38	9	34	34	0	SPPL3,stop_gained,p.Gly270Ter,ENST00000353487,;SPPL3,downstream_gene_variant,,ENST00000543608,;SPPL3,downstream_gene_variant,,ENST00000536996,;SPPL3,downstream_gene_variant,,ENST00000543854,;SPPL3,non_coding_transcript_exon_variant,,ENST00000545209,;SPPL3,non_coding_transcript_exon_variant,,ENST00000392495,;	A	ENSG00000157837	ENST00000353487	Transcript	stop_gained	1312	808	270	G/*	Gga/Tga	.	.	.	-1	SPPL3	HGNC	30424	protein_coding	YES	CCDS9208.1	ENSP00000288680	SPPL3_HUMAN	F5H7J2_HUMAN,F5H6I1_HUMAN,F5H4Y6_HUMAN,F5H4L1_HUMAN,F5H2A2_HUMAN	UPI0000013590	.	.	.	9/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12174,hmmpanther:PTHR12174:SF22,Pfam_domain:PF04258,SMART_domains:SM00730	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTCCGATGC	.	5	BLCA
PITPNM2	0	.	GRCh37	12	123477076	123477076	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2374C>G	p.Pro792Ala	p.P792A	ENST00000320201	15/25	71	53	17	44	44	0	PITPNM2,missense_variant,p.Pro792Ala,ENST00000542749,;PITPNM2,missense_variant,p.Pro792Ala,ENST00000280562,;PITPNM2,missense_variant,p.Pro513Ala,ENST00000392428,;PITPNM2,missense_variant,p.Pro792Ala,ENST00000320201,;PITPNM2,downstream_gene_variant,,ENST00000436074,;	C	ENSG00000090975	ENST00000320201	Transcript	missense_variant	2513	2374	792	P/A	Ccg/Gcg	.	.	.	-1	PITPNM2	HGNC	21044	protein_coding	YES	CCDS9242.1	ENSP00000322218	PITM2_HUMAN	Q9UF51_HUMAN,F5H664_HUMAN	UPI0000070D27	.	deleterious(0)	probably_damaging(0.999)	15/25	.	Pfam_domain:PF02862,hmmpanther:PTHR10658,hmmpanther:PTHR10658:SF41,PROSITE_profiles:PS51043	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCGGGTAGC	.	5	BLCA
RILPL1	0	.	GRCh37	12	124008081	124008081	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.421G>T	p.Asp141Tyr	p.D141Y	ENST00000376874	2/7	113	88	24	81	81	0	RILPL1,missense_variant,p.Asp141Tyr,ENST00000376874,;	A	ENSG00000188026	ENST00000376874	Transcript	missense_variant	657	421	141	D/Y	Gat/Tat	.	.	.	-1	RILPL1	HGNC	26814	protein_coding	YES	CCDS45006.1	ENSP00000366070	RIPL1_HUMAN	F5H6W5_HUMAN	UPI00004CEC2A	.	deleterious(0)	probably_damaging(0.98)	2/7	.	Pfam_domain:PF09744,hmmpanther:PTHR21502,hmmpanther:PTHR21502:SF6,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATCCTTGT	.	5	BLCA
GTF2H3	0	.	GRCh37	12	124144444	124144444	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787G>T	p.Glu263Ter	p.E263*	ENST00000543341	11/13	116	81	34	79	79	0	GTF2H3,stop_gained,p.Glu149Ter,ENST00000543154,;GTF2H3,stop_gained,p.Glu222Ter,ENST00000228955,;GTF2H3,stop_gained,p.Glu263Ter,ENST00000543341,;GTF2H3,stop_gained,p.Glu220Ter,ENST00000536375,;GTF2H3,downstream_gene_variant,,ENST00000538845,;GTF2H3,downstream_gene_variant,,ENST00000538533,;GTF2H3,downstream_gene_variant,,ENST00000539994,;GTF2H3,3_prime_UTR_variant,,ENST00000543415,;GTF2H3,non_coding_transcript_exon_variant,,ENST00000539429,;GTF2H3,downstream_gene_variant,,ENST00000542279,;GTF2H3,downstream_gene_variant,,ENST00000537695,;	T	ENSG00000111358	ENST00000543341	Transcript	stop_gained	818	787	263	E/*	Gaa/Taa	.	.	.	1	GTF2H3	HGNC	4657	protein_coding	YES	CCDS9252.1	ENSP00000445162	TF2H3_HUMAN	B4DNZ6_HUMAN	UPI00000622FE	.	.	.	11/13	.	Pfam_domain:PF03850,TIGRFAM_domain:TIGR00627,hmmpanther:PTHR12831:SF0,hmmpanther:PTHR12831	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTGAAATT	.	5	BLCA
GPR133	0	.	GRCh37	12	131466498	131466498	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.380G>T	p.Gly127Val	p.G127V	ENST00000261654	5/25	118	99	18	84	84	0	GPR133,missense_variant,p.Gly159Val,ENST00000535015,;GPR133,missense_variant,p.Gly127Val,ENST00000261654,;GPR133,intron_variant,,ENST00000542091,;GPR133,upstream_gene_variant,,ENST00000537600,;RP11-243M5.1,downstream_gene_variant,,ENST00000537998,;GPR133,non_coding_transcript_exon_variant,,ENST00000541143,;	T	ENSG00000111452	ENST00000261654	Transcript	missense_variant	939	380	127	G/V	gGa/gTa	.	.	.	1	GPR133	HGNC	19893	protein_coding	YES	CCDS9272.1	ENSP00000261654	GP133_HUMAN	F5H4Y0_HUMAN,B2CKK9_HUMAN	UPI0000241C7A	.	deleterious(0)	probably_damaging(0.994)	5/25	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF216,Pfam_domain:PF13385,Gene3D:2.60.120.200,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGGGACAGG	.	5	BLCA
SFSWAP	0	.	GRCh37	12	132204013	132204013	+	Missense_Mutation	SNP	G	G	A	rs200555358	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535G>A	p.Glu179Lys	p.E179K	ENST00000541286	4/19	69	48	21	66	66	0	SFSWAP,missense_variant,p.Glu179Lys,ENST00000541286,;SFSWAP,missense_variant,p.Glu179Lys,ENST00000261674,;SFSWAP,5_prime_UTR_variant,,ENST00000535236,;SFSWAP,upstream_gene_variant,,ENST00000542813,;SFSWAP,3_prime_UTR_variant,,ENST00000538548,;SFSWAP,non_coding_transcript_exon_variant,,ENST00000540469,;SFSWAP,downstream_gene_variant,,ENST00000535399,;	A	ENSG00000061936	ENST00000541286	Transcript	missense_variant	628	535	179	E/K	Gaa/Aaa	rs200555358	.	.	1	SFSWAP	HGNC	10790	protein_coding	YES	CCDS58290.1	ENSP00000437738	SFSWA_HUMAN	F5H5X1_HUMAN	UPI000204AB4C	.	tolerated(0.06)	benign(0.123)	4/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13161:SF15,hmmpanther:PTHR13161	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCGAAAAT	byCluster|by1000G	5	BLCA
SFSWAP	0	.	GRCh37	12	132239971	132239971	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1495T>C	p.Tyr499His	p.Y499H	ENST00000541286	10/19	68	50	18	56	56	0	SFSWAP,missense_variant,p.Tyr139His,ENST00000537164,;SFSWAP,missense_variant,p.Tyr499His,ENST00000541286,;SFSWAP,missense_variant,p.Tyr292His,ENST00000535236,;SFSWAP,missense_variant,p.Tyr499His,ENST00000261674,;RP11-495K9.5,downstream_gene_variant,,ENST00000537032,;SFSWAP,3_prime_UTR_variant,,ENST00000538548,;SFSWAP,downstream_gene_variant,,ENST00000535202,;	C	ENSG00000061936	ENST00000541286	Transcript	missense_variant	1588	1495	499	Y/H	Tat/Cat	.	.	.	1	SFSWAP	HGNC	10790	protein_coding	YES	CCDS58290.1	ENSP00000437738	SFSWA_HUMAN	F5H5X1_HUMAN	UPI000204AB4C	.	deleterious(0)	probably_damaging(0.999)	10/19	.	PROSITE_profiles:PS50128,hmmpanther:PTHR13161:SF15,hmmpanther:PTHR13161,Pfam_domain:PF01805,SMART_domains:SM00648,Superfamily_domains:SSF109905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTATTATGAG	.	5	BLCA
ITPR2	0	.	GRCh37	12	26647275	26647275	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5183-2A>G	.	p.X1728_splice	ENST00000381340	.	28	18	10	17	17	0	ITPR2,splice_acceptor_variant,,ENST00000381340,;ITPR2,splice_acceptor_variant,,ENST00000543958,;ITPR2,splice_acceptor_variant,,ENST00000540429,;ITPR2,upstream_gene_variant,,ENST00000451599,;	C	ENSG00000123104	ENST00000381340	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	ITPR2	HGNC	6181	protein_coding	YES	CCDS41764.1	ENSP00000370744	ITPR2_HUMAN	I1VE21_HUMAN	UPI00001FB7D2	.	.	.	.	38/56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCCTGTGAT	.	5	BLCA
AMN1	0	.	GRCh37	12	31850846	31850846	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362C>G	p.Ser121Cys	p.S121C	ENST00000281471	4/7	65	52	13	50	50	0	AMN1,missense_variant,p.Ser103Cys,ENST00000536761,;AMN1,missense_variant,p.Ser121Cys,ENST00000281471,;AMN1,missense_variant,p.Ser103Cys,ENST00000535408,;AMN1,missense_variant,p.Ser103Cys,ENST00000537562,;AMN1,5_prime_UTR_variant,,ENST00000542781,;AMN1,5_prime_UTR_variant,,ENST00000541931,;AMN1,downstream_gene_variant,,ENST00000537960,;AMN1,downstream_gene_variant,,ENST00000506446,;AMN1,downstream_gene_variant,,ENST00000457428,;	C	ENSG00000151743	ENST00000281471	Transcript	missense_variant	528	362	121	S/C	tCt/tGt	.	.	.	-1	AMN1	HGNC	27281	protein_coding	YES	CCDS44858.1	ENSP00000281471	AMN1_HUMAN	F5H3D1_HUMAN,F5H1R2_HUMAN,F5GWF7_HUMAN,B7Z7J3_HUMAN	UPI000013DC7A	.	tolerated(0.18)	benign(0.006)	4/7	.	Superfamily_domains:SSF52047,SMART_domains:SM00367,Gene3D:3.80.10.10,hmmpanther:PTHR23125	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAAAGAAGCT	.	5	BLCA
AMIGO2	0	.	GRCh37	12	47472708	47472708	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78G>A	p.%3D	p.L26L	ENST00000266581	2/2	82	72	9	71	71	0	AMIGO2,synonymous_variant,p.%3D,ENST00000266581,;AMIGO2,synonymous_variant,p.%3D,ENST00000429635,;AMIGO2,synonymous_variant,p.%3D,ENST00000550413,;AMIGO2,synonymous_variant,p.%3D,ENST00000321382,;PCED1B,upstream_gene_variant,,ENST00000546455,;	T	ENSG00000139211	ENST00000266581	Transcript	synonymous_variant	545	78	26	L	ttG/ttA	.	.	.	-1	AMIGO2	HGNC	24073	protein_coding	YES	CCDS8751.1	ENSP00000266581	AMGO2_HUMAN	B3KS95_HUMAN	UPI000000DC21	.	.	.	2/2	.	hmmpanther:PTHR24368,hmmpanther:PTHR24368:SF209	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCAGCAAACA	.	4	BLCA
LIMA1	0	.	GRCh37	12	50616126	50616145	+	Frame_Shift_Del	DEL	TGGTCTGCTCTGTGCCTAAT	TGGTCTGCTCTGTGCCTAAT	-	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	TGGTCTGCTCTGTGCCTAAT	TGGTCTGCTCTGTGCCTAAT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289_308delATTAGGCACAGAGCAGACCA	p.Ile97SerfsTer4	p.I97Sfs*4	ENST00000394943	4/11	114	101	13	106	106	0	LIMA1,frameshift_variant,p.Ile97SerfsTer4,ENST00000341247,;LIMA1,frameshift_variant,p.Ile97SerfsTer4,ENST00000394943,;LIMA1,frameshift_variant,p.Ile97SerfsTer4,ENST00000551691,;LIMA1,frameshift_variant,p.Ile97SerfsTer4,ENST00000550592,;LIMA1,5_prime_UTR_variant,,ENST00000552909,;LIMA1,5_prime_UTR_variant,,ENST00000552783,;LIMA1,5_prime_UTR_variant,,ENST00000552823,;RP3-405J10.4,intron_variant,,ENST00000551284,;LIMA1,non_coding_transcript_exon_variant,,ENST00000550611,;LIMA1,upstream_gene_variant,,ENST00000552008,;LIMA1,frameshift_variant,p.Ile97SerfsTer4,ENST00000552720,;LIMA1,upstream_gene_variant,,ENST00000551486,;RP3-405J10.2,upstream_gene_variant,,ENST00000548666,;	-	ENSG00000050405	ENST00000394943	Transcript	frameshift_variant	399-418	289-308	97-103	IRHRADH/X	ATTAGGCACAGAGCAGACCAt/t	.	.	.	-1	LIMA1	HGNC	24636	protein_coding	YES	CCDS44877.1	ENSP00000378400	LIMA1_HUMAN	Q59FE8_HUMAN,F8VVQ7_HUMAN,F8VTU2_HUMAN	UPI0000EE6469	.	.	.	4/11	.	hmmpanther:PTHR24206,hmmpanther:PTHR24206:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGAGGATGGTCTGCTCTGTGCCTAATCTCAG	.	3	BLCA
KIF5A	0	.	GRCh37	12	57965104	57965104	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294G>A	p.Asp432Asn	p.D432N	ENST00000455537	13/29	37	21	15	25	25	0	KIF5A,missense_variant,p.Asp432Asn,ENST00000455537,;KIF5A,missense_variant,p.Asp343Asn,ENST00000286452,;	A	ENSG00000155980	ENST00000455537	Transcript	missense_variant	1568	1294	432	D/N	Gat/Aat	.	.	.	1	KIF5A	HGNC	6323	protein_coding	YES	CCDS8945.1	ENSP00000408979	KIF5A_HUMAN	.	UPI000013DE4C	.	deleterious(0)	probably_damaging(0.998)	13/29	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGGATGAT	.	5	BLCA
USP15	0	.	GRCh37	12	62777939	62777939	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1329A>G	p.%3D	p.K443K	ENST00000280377	11/22	49	42	6	39	39	0	USP15,synonymous_variant,p.%3D,ENST00000353364,;USP15,synonymous_variant,p.%3D,ENST00000393654,;USP15,synonymous_variant,p.%3D,ENST00000280377,;USP15,downstream_gene_variant,,ENST00000547317,;USP15,non_coding_transcript_exon_variant,,ENST00000549268,;	G	ENSG00000135655	ENST00000280377	Transcript	synonymous_variant	1387	1329	443	K	aaA/aaG	.	.	.	1	USP15	HGNC	12613	protein_coding	YES	CCDS58251.1	ENSP00000280377	UBP15_HUMAN	F8VZG8_HUMAN,F8VVY7_HUMAN	UPI00001379F8	.	.	.	11/22	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF387,hmmpanther:PTHR24006,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCAAATCAAC	.	3	BLCA
HELB	0	.	GRCh37	12	66703654	66703654	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.946A>G	p.Asn316Asp	p.N316D	ENST00000247815	4/13	137	113	23	100	100	0	HELB,missense_variant,p.Asn316Asp,ENST00000247815,;HELB,missense_variant,p.Asn316Asp,ENST00000440906,;HELB,missense_variant,p.Asn316Asp,ENST00000545134,;HELB,missense_variant,p.Asn316Asp,ENST00000542394,;	G	ENSG00000127311	ENST00000247815	Transcript	missense_variant	1005	946	316	N/D	Aat/Gat	.	.	.	1	HELB	HGNC	17196	protein_coding	YES	CCDS8976.1	ENSP00000247815	HELB_HUMAN	.	UPI000013CC2D	.	tolerated(1)	benign(0.001)	4/13	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF97,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTGAATGAC	.	5	BLCA
SLC6A15	0	.	GRCh37	12	85255282	85255282	+	3'UTR	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*129C>T	.	.	ENST00000266682	12/12	26	19	7	20	20	0	SLC6A15,3_prime_UTR_variant,,ENST00000309283,;SLC6A15,3_prime_UTR_variant,,ENST00000266682,;SLC6A15,downstream_gene_variant,,ENST00000552192,;SLC6A15,downstream_gene_variant,,ENST00000548267,;	A	ENSG00000072041	ENST00000266682	Transcript	3_prime_UTR_variant	2864	.	.	.	.	.	.	.	-1	SLC6A15	HGNC	13621	protein_coding	YES	CCDS9026.1	ENSP00000266682	S6A15_HUMAN	Q68CX0_HUMAN,F8VX16_HUMAN,F8VSG1_HUMAN	UPI0000038BF2	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTAGGATTA	.	5	BLCA
EEA1	0	.	GRCh37	12	93221728	93221728	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1364T>C	p.Val455Ala	p.V455A	ENST00000322349	12/29	115	86	29	82	82	0	EEA1,missense_variant,p.Val455Ala,ENST00000322349,;EEA1,3_prime_UTR_variant,,ENST00000418984,;	G	ENSG00000102189	ENST00000322349	Transcript	missense_variant	1629	1364	455	V/A	gTg/gCg	.	.	.	-1	EEA1	HGNC	3185	protein_coding	YES	CCDS31874.1	ENSP00000317955	EEA1_HUMAN	.	UPI000013C754	.	tolerated(0.31)	benign(0.085)	12/29	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23164:SF2,hmmpanther:PTHR23164	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCCACTTGT	.	5	BLCA
ATP11A	0	.	GRCh37	13	113460595	113460595	+	Silent	SNP	G	G	C	rs560486738	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321G>C	p.%3D	p.T107T	ENST00000487903	4/30	112	93	18	88	88	0	ATP11A,synonymous_variant,p.%3D,ENST00000375645,;ATP11A,synonymous_variant,p.%3D,ENST00000375630,;ATP11A,synonymous_variant,p.%3D,ENST00000418678,;ATP11A,synonymous_variant,p.%3D,ENST00000283558,;ATP11A,synonymous_variant,p.%3D,ENST00000487903,;ATP11A,non_coding_transcript_exon_variant,,ENST00000466946,;ATP11A,non_coding_transcript_exon_variant,,ENST00000459908,;	C	ENSG00000068650	ENST00000487903	Transcript	synonymous_variant	409	321	107	T	acG/acC	rs560486738	.	.	1	ATP11A	HGNC	13552	protein_coding	YES	CCDS32011.1	ENSP00000420387	AT11A_HUMAN	.	UPI00001FCB27	.	.	.	4/30	.	Superfamily_domains:0049473,TIGRFAM_domain:TIGR01494,Pfam_domain:PF00122,Gene3D:2.70.150.10,TIGRFAM_domain:TIGR01652,hmmpanther:PTHR24092:SF33,hmmpanther:PTHR24092	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GTGACGGCTAT	by1000G	3	BLCA
MTMR6	0	.	GRCh37	13	25823472	25823472	+	Missense_Mutation	SNP	G	G	T	rs577874132	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1764C>A	p.Ser588Arg	p.S588R	ENST00000381801	14/14	68	56	12	77	77	0	MTMR6,missense_variant,p.Ser588Arg,ENST00000381801,;MTMR6,intron_variant,,ENST00000540661,;AL590787.1,downstream_gene_variant,,ENST00000408397,;	T	ENSG00000139505	ENST00000381801	Transcript	missense_variant	2526	1764	588	S/R	agC/agA	rs577874132	.	.	-1	MTMR6	HGNC	7453	protein_coding	YES	CCDS9313.1	ENSP00000371221	MTMR6_HUMAN	Q8N5Q4_HUMAN	UPI00001FC8D0	.	tolerated_low_confidence(0.07)	benign(0.055)	14/14	.	hmmpanther:PTHR10807:SF34,hmmpanther:PTHR10807	A:0.0006	A:0	A:0	.	A:0	A:0	A:0.0031	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTGCTGCC	byFrequency|by1000G	5	BLCA
SLC46A3	0	.	GRCh37	13	29286865	29286865	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1012G>C	p.Gly338Arg	p.G338R	ENST00000380814	3/7	74	51	23	75	75	0	SLC46A3,missense_variant,p.Gly338Arg,ENST00000266943,;SLC46A3,missense_variant,p.Gly338Arg,ENST00000380814,;	G	ENSG00000139508	ENST00000380814	Transcript	missense_variant	1511	1012	338	G/R	Gga/Cga	.	.	.	-1	SLC46A3	HGNC	27501	protein_coding	YES	CCDS45021.1	ENSP00000370192	S46A3_HUMAN	.	UPI0000199D25	.	deleterious(0)	probably_damaging(1)	3/7	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR23038:SF50,hmmpanther:PTHR23038,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTCCTGTCA	.	5	BLCA
PCDH9	0	.	GRCh37	13	66878787	66878787	+	Nonstop_Mutation	SNP	T	T	G	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3714A>C	p.Ter1238TyrextTer26	p.*1238Yext*26	ENST00000544246	5/5	54	40	13	39	39	0	PCDH9,stop_lost,p.Ter1204TyrextTer?,ENST00000328454,;PCDH9,stop_lost,p.Ter1238TyrextTer26,ENST00000544246,;PCDH9,stop_lost,p.Ter1238TyrextTer26,ENST00000377865,;PCDH9,stop_lost,p.Ter1204TyrextTer26,ENST00000456367,;PCDH9-AS1,intron_variant,,ENST00000430861,;	G	ENSG00000184226	ENST00000544246	Transcript	stop_lost	4406	3714	1238	*/Y	taA/taC	COSM1261220,COSM3980068	.	.	-1	PCDH9	HGNC	8661	protein_coding	YES	CCDS9444.1	ENSP00000442186	PCDH9_HUMAN	.	UPI00001FCE90	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTCTTAGAG	.	5	BLCA
MYCBP2	0	.	GRCh37	13	77642913	77642913	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11844A>G	p.%3D	p.E3948E	ENST00000544440	70/83	75	56	19	54	54	0	MYCBP2,synonymous_variant,p.%3D,ENST00000357337,;MYCBP2,synonymous_variant,p.%3D,ENST00000429715,;MYCBP2,synonymous_variant,p.%3D,ENST00000544440,;MYCBP2,synonymous_variant,p.%3D,ENST00000407578,;	C	ENSG00000005810	ENST00000544440	Transcript	synonymous_variant	11862	11844	3948	E	gaA/gaG	.	.	.	-1	MYCBP2	HGNC	23386	protein_coding	YES	.	ENSP00000444596	MYCB2_HUMAN	.	UPI0000212757	.	.	.	70/83	.	hmmpanther:PTHR12846:SF14,hmmpanther:PTHR12846	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTCTTCACG	.	5	BLCA
SPRY2	0	.	GRCh37	13	80911159	80911159	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.682C>G	p.His228Asp	p.H228D	ENST00000377102	2/2	48	35	12	58	58	0	SPRY2,missense_variant,p.His228Asp,ENST00000377102,;SPRY2,missense_variant,p.His228Asp,ENST00000377104,;SPRY2,missense_variant,p.His228Asp,ENST00000540649,;	C	ENSG00000136158	ENST00000377102	Transcript	missense_variant	1660	682	228	H/D	Cac/Gac	.	.	.	-1	SPRY2	HGNC	11270	protein_coding	YES	CCDS9463.1	ENSP00000366306	SPY2_HUMAN	.	UPI0000001301	.	deleterious(0)	probably_damaging(0.991)	2/2	.	PROSITE_profiles:PS51227,hmmpanther:PTHR12365:SF8,hmmpanther:PTHR12365,Pfam_domain:PF05210	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTGATAGA	.	5	BLCA
YY1	0	.	GRCh37	14	100705714	100705714	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133G>T	p.Glu45Ter	p.E45*	ENST00000262238	1/5	19	14	5	9	9	0	YY1,stop_gained,p.Glu45Ter,ENST00000262238,;YY1,upstream_gene_variant,,ENST00000554804,;YY1,downstream_gene_variant,,ENST00000554371,;YY1,upstream_gene_variant,,ENST00000553625,;RP11-638I2.4,upstream_gene_variant,,ENST00000554537,;	T	ENSG00000100811	ENST00000262238	Transcript	stop_gained	393	133	45	E/*	Gag/Tag	.	.	.	1	YY1	HGNC	12856	protein_coding	YES	CCDS9957.1	ENSP00000262238	TYY1_HUMAN	G3V3M8_HUMAN	UPI00001378FC	.	.	.	1/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14003:SF10,hmmpanther:PTHR14003,PIRSF_domain:PIRSF037113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGGAGGAGGAG	.	2	BLCA
TM9SF1	0	.	GRCh37	14	24662252	24662252	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569A>G	p.Asp190Gly	p.D190G	ENST00000261789	3/6	57	43	13	43	43	0	TM9SF1,missense_variant,p.Asp190Gly,ENST00000261789,;TM9SF1,missense_variant,p.Asp190Gly,ENST00000530468,;TM9SF1,missense_variant,p.Asp190Gly,ENST00000396854,;TM9SF1,missense_variant,p.Asp103Gly,ENST00000524835,;TM9SF1,missense_variant,p.Asp399Gly,ENST00000530611,;TM9SF1,missense_variant,p.Asp190Gly,ENST00000528010,;TM9SF1,missense_variant,p.Asp190Gly,ENST00000528669,;TM9SF1,missense_variant,p.Asp399Gly,ENST00000556387,;TM9SF1,missense_variant,p.Asp190Gly,ENST00000525592,;TM9SF1,missense_variant,p.Asp190Gly,ENST00000528895,;TM9SF1,missense_variant,p.Asp103Gly,ENST00000530563,;TM9SF1,intron_variant,,ENST00000532632,;IPO4,upstream_gene_variant,,ENST00000354464,;TM9SF1,missense_variant,p.Asp190Gly,ENST00000529332,;TM9SF1,non_coding_transcript_exon_variant,,ENST00000531406,;IPO4,upstream_gene_variant,,ENST00000558193,;IPO4,upstream_gene_variant,,ENST00000560798,;IPO4,upstream_gene_variant,,ENST00000561090,;IPO4,upstream_gene_variant,,ENST00000557996,;IPO4,upstream_gene_variant,,ENST00000561199,;RP11-468E2.2,upstream_gene_variant,,ENST00000561419,;IPO4,upstream_gene_variant,,ENST00000560315,;IPO4,upstream_gene_variant,,ENST00000560155,;IPO4,upstream_gene_variant,,ENST00000559588,;IPO4,upstream_gene_variant,,ENST00000561034,;IPO4,upstream_gene_variant,,ENST00000560222,;IPO4,upstream_gene_variant,,ENST00000558046,;IPO4,upstream_gene_variant,,ENST00000559635,;IPO4,upstream_gene_variant,,ENST00000559253,;IPO4,upstream_gene_variant,,ENST00000558780,;IPO4,upstream_gene_variant,,ENST00000558718,;	C	ENSG00000100926	ENST00000261789	Transcript	missense_variant	928	569	190	D/G	gAt/gGt	.	.	.	-1	TM9SF1	HGNC	11864	protein_coding	YES	CCDS9617.1	ENSP00000261789	TM9S1_HUMAN	G3V1B9_HUMAN,E9PS99_HUMAN,E9PQY7_HUMAN,E9PNW2_HUMAN,E9PL78_HUMAN,E9PJC4_HUMAN	UPI000000CC18	.	tolerated(0.4)	benign(0.309)	3/6	.	hmmpanther:PTHR10766:SF14,hmmpanther:PTHR10766,Pfam_domain:PF02990	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCATCCAAG	.	5	BLCA
KHNYN	0	.	GRCh37	14	24901081	24901081	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.614C>T	p.Ala205Val	p.A205V	ENST00000251343	3/8	79	65	14	81	80	0	KHNYN,missense_variant,p.Ala205Val,ENST00000251343,;KHNYN,missense_variant,p.Ala205Val,ENST00000556842,;KHNYN,missense_variant,p.Ala205Val,ENST00000553935,;CBLN3,upstream_gene_variant,,ENST00000555436,;CBLN3,upstream_gene_variant,,ENST00000267406,;KHNYN,upstream_gene_variant,,ENST00000554268,;KHNYN,downstream_gene_variant,,ENST00000556510,;KHNYN,upstream_gene_variant,,ENST00000556255,;	T	ENSG00000100441	ENST00000251343	Transcript	missense_variant	753	614	205	A/V	gCa/gTa	COSM119722	.	.	1	KHNYN	HGNC	20166	protein_coding	YES	CCDS32058.1	ENSP00000251343	KHNYN_HUMAN	G3V3G3_HUMAN,G3V331_HUMAN	UPI000000CC1F	.	tolerated(0.22)	benign(0.002)	3/8	.	hmmpanther:PTHR12876,hmmpanther:PTHR12876:SF28	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAGCACTGG	.	5	BLCA
KHNYN	0	.	GRCh37	14	24906567	24906567	+	3'UTR	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*76C>G	.	.	ENST00000251343	8/8	29	23	6	29	29	0	KHNYN,3_prime_UTR_variant,,ENST00000556842,;KHNYN,3_prime_UTR_variant,,ENST00000553935,;KHNYN,3_prime_UTR_variant,,ENST00000554268,;KHNYN,3_prime_UTR_variant,,ENST00000251343,;SDR39U1,downstream_gene_variant,,ENST00000399390,;SDR39U1,downstream_gene_variant,,ENST00000556523,;SDR39U1,downstream_gene_variant,,ENST00000555225,;SDR39U1,downstream_gene_variant,,ENST00000554698,;SDR39U1,downstream_gene_variant,,ENST00000555355,;SDR39U1,downstream_gene_variant,,ENST00000555365,;SDR39U1,downstream_gene_variant,,ENST00000556249,;SDR39U1,downstream_gene_variant,,ENST00000553343,;SDR39U1,downstream_gene_variant,,ENST00000538105,;SDR39U1,downstream_gene_variant,,ENST00000399395,;SDR39U1,downstream_gene_variant,,ENST00000553930,;SDR39U1,downstream_gene_variant,,ENST00000555830,;SDR39U1,downstream_gene_variant,,ENST00000555561,;KHNYN,non_coding_transcript_exon_variant,,ENST00000556255,;SDR39U1,downstream_gene_variant,,ENST00000554947,;SDR39U1,downstream_gene_variant,,ENST00000553546,;SDR39U1,downstream_gene_variant,,ENST00000553937,;SDR39U1,downstream_gene_variant,,ENST00000556175,;SDR39U1,downstream_gene_variant,,ENST00000555778,;SDR39U1,downstream_gene_variant,,ENST00000556548,;SDR39U1,downstream_gene_variant,,ENST00000556707,;SDR39U1,downstream_gene_variant,,ENST00000544691,;SDR39U1,downstream_gene_variant,,ENST00000556262,;	G	ENSG00000100441	ENST00000251343	Transcript	3_prime_UTR_variant	2252	.	.	.	.	.	.	.	1	KHNYN	HGNC	20166	protein_coding	YES	CCDS32058.1	ENSP00000251343	KHNYN_HUMAN	G3V3G3_HUMAN,G3V331_HUMAN	UPI000000CC1F	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCTGCTG	.	5	BLCA
MIS18BP1	0	.	GRCh37	14	45706894	45706894	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1174A>G	p.Ser392Gly	p.S392G	ENST00000310806	5/17	100	76	23	77	77	0	MIS18BP1,missense_variant,p.Ser392Gly,ENST00000310806,;MIS18BP1,downstream_gene_variant,,ENST00000494512,;MIS18BP1,downstream_gene_variant,,ENST00000492652,;MIS18BP1,missense_variant,p.Ser392Gly,ENST00000454990,;MIS18BP1,missense_variant,p.Ser160Gly,ENST00000453142,;	C	ENSG00000129534	ENST00000310806	Transcript	missense_variant	1633	1174	392	S/G	Agc/Ggc	.	.	.	-1	MIS18BP1	HGNC	20190	protein_coding	YES	CCDS9684.1	ENSP00000309790	M18BP_HUMAN	C9J2Q8_HUMAN	UPI00001FD488	.	tolerated(0.11)	benign(0.002)	5/17	.	hmmpanther:PTHR16124:SF1,hmmpanther:PTHR16124,Pfam_domain:PF09133	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGCTTTTAA	.	5	BLCA
NIN	0	.	GRCh37	14	51243772	51243772	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561G>A	p.%3D	p.L187L	ENST00000382041	7/30	80	74	6	66	66	0	NIN,synonymous_variant,p.%3D,ENST00000389868,;NIN,synonymous_variant,p.%3D,ENST00000245441,;NIN,synonymous_variant,p.%3D,ENST00000324330,;NIN,synonymous_variant,p.%3D,ENST00000382041,;NIN,synonymous_variant,p.%3D,ENST00000382043,;NIN,synonymous_variant,p.%3D,ENST00000453196,;NIN,synonymous_variant,p.%3D,ENST00000453401,;NIN,synonymous_variant,p.%3D,ENST00000530997,;NIN,synonymous_variant,p.%3D,ENST00000476352,;NIN,upstream_gene_variant,,ENST00000474937,;	T	ENSG00000100503	ENST00000382041	Transcript	synonymous_variant	752	561	187	L	ctG/ctA	.	.	.	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	.	.	7/30	.	Superfamily_domains:SSF47473,Gene3D:1.10.238.10,hmmpanther:PTHR18905,hmmpanther:PTHR18905:SF11,PROSITE_profiles:PS50222	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTGCAGTTT	.	2	BLCA
AREL1	0	.	GRCh37	14	75142407	75142407	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075C>T	p.Pro359Ser	p.P359S	ENST00000356357	8/20	426	393	33	306	306	0	AREL1,missense_variant,p.Pro359Ser,ENST00000356357,;AREL1,missense_variant,p.Pro198Ser,ENST00000556202,;AREL1,intron_variant,,ENST00000490805,;AREL1,non_coding_transcript_exon_variant,,ENST00000557401,;AREL1,missense_variant,p.Pro3Ser,ENST00000481010,;AREL1,missense_variant,p.Pro359Ser,ENST00000555330,;AREL1,non_coding_transcript_exon_variant,,ENST00000469797,;AREL1,non_coding_transcript_exon_variant,,ENST00000556327,;AREL1,downstream_gene_variant,,ENST00000553279,;AREL1,downstream_gene_variant,,ENST00000553411,;	A	ENSG00000119682	ENST00000356357	Transcript	missense_variant	1591	1075	359	P/S	Cca/Tca	.	.	.	-1	AREL1	HGNC	20363	protein_coding	YES	CCDS41971.1	ENSP00000348714	AREL1_HUMAN	H0YJ67_HUMAN,G3V506_HUMAN,G3V245_HUMAN	UPI0000073D44	.	deleterious(0.03)	probably_damaging(0.996)	8/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11254:SF284,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTGGTGACA	.	2	BLCA
GOLGA6L7P	0	.	GRCh37	15	29092255	29092255	+	RNA	SNP	A	A	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.168T>A	.	.	ENST00000567390	2/8	37	30	7	35	35	0	GOLGA6L7P,non_coding_transcript_exon_variant,,ENST00000569815,;RP11-578F21.12,intron_variant,,ENST00000566178,;RP11-578F21.12,intron_variant,,ENST00000564604,;GOLGA6L7P,non_coding_transcript_exon_variant,,ENST00000567390,;	T	ENSG00000261649	ENST00000567390	Transcript	non_coding_transcript_exon_variant	168	.	.	.	.	.	.	.	-1	GOLGA6L7P	HGNC	37442	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTTAGCGCC	.	5	BLCA
C15orf41	0	.	GRCh37	15	37100570	37100570	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762G>C	p.Glu254Asp	p.E254D	ENST00000566621	11/11	52	39	13	45	45	0	C15orf41,missense_variant,p.Ala17Pro,ENST00000563167,;C15orf41,missense_variant,p.Glu254Asp,ENST00000437989,;C15orf41,missense_variant,p.Glu260Asp,ENST00000569302,;C15orf41,missense_variant,p.Glu78Asp,ENST00000562489,;C15orf41,missense_variant,p.Glu156Asp,ENST00000338183,;C15orf41,missense_variant,p.Glu156Asp,ENST00000567389,;C15orf41,missense_variant,p.Glu156Asp,ENST00000562877,;C15orf41,missense_variant,p.Glu254Asp,ENST00000566621,;C15orf41,non_coding_transcript_exon_variant,,ENST00000565792,;C15orf41,non_coding_transcript_exon_variant,,ENST00000566932,;CSNK1A1P1,intron_variant,,ENST00000430593,;C15orf41,non_coding_transcript_exon_variant,,ENST00000566677,;	C	ENSG00000186073	ENST00000566621	Transcript	missense_variant	1012	762	254	E/D	gaG/gaC	.	.	.	1	C15orf41	HGNC	26929	protein_coding	YES	CCDS45215.1	ENSP00000455397	CO041_HUMAN	H3BNF9_HUMAN	UPI00001FE1DF	.	tolerated(0.22)	benign(0.083)	11/11	.	hmmpanther:PTHR31661:SF1,hmmpanther:PTHR31661,Pfam_domain:PF14811	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGAGCTGGA	.	5	BLCA
INO80	0	.	GRCh37	15	41350881	41350881	+	Silent	SNP	T	T	C	rs758964021	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1941A>G	p.%3D	p.Q647Q	ENST00000361937	16/36	60	46	13	65	65	0	INO80,synonymous_variant,p.%3D,ENST00000361937,;INO80,synonymous_variant,p.%3D,ENST00000401393,;INO80,synonymous_variant,p.%3D,ENST00000558357,;INO80,intron_variant,,ENST00000559995,;	C	ENSG00000128908	ENST00000361937	Transcript	synonymous_variant	2366	1941	647	Q	caA/caG	rs758964021	.	.	-1	INO80	HGNC	26956	protein_coding	YES	CCDS10071.1	ENSP00000355205	INO80_HUMAN	Q9NUK2_HUMAN	UPI00001B6AFC	.	.	.	16/36	.	PROSITE_profiles:PS51192,hmmpanther:PTHR10799:SF213,hmmpanther:PTHR10799,Gene3D:3.40.50.300,Pfam_domain:PF00176,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTATTGCCA	byFrequency	5	BLCA
MGA	0	.	GRCh37	15	42019568	42019568	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3621A>G	p.%3D	p.K1207K	ENST00000219905	10/24	133	105	28	106	106	0	MGA,synonymous_variant,p.%3D,ENST00000219905,;MGA,synonymous_variant,p.%3D,ENST00000570161,;MGA,synonymous_variant,p.%3D,ENST00000545763,;MGA,synonymous_variant,p.%3D,ENST00000389936,;MGA,synonymous_variant,p.%3D,ENST00000566586,;	G	ENSG00000174197	ENST00000219905	Transcript	synonymous_variant	3802	3621	1207	K	aaA/aaG	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	.	.	10/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTAAATCTCC	.	5	BLCA
FBN1	0	.	GRCh37	15	48779348	48779348	+	Frame_Shift_Del	DEL	G	G	-	rs775417975	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3513delC	p.Cys1171TrpfsTer2	p.C1171Wfs*2	ENST00000316623	29/66	66	56	10	38	38	0	FBN1,frameshift_variant,p.Cys1171TrpfsTer2,ENST00000316623,;FBN1,intron_variant,,ENST00000537463,;	-	ENSG00000166147	ENST00000316623	Transcript	frameshift_variant	3969	3513	1171	C/X	tgC/tg	CM095637,rs775417975,CM970512	.	.	-1	FBN1	HGNC	3603	protein_coding	YES	CCDS32232.1	ENSP00000325527	FBN1_HUMAN	Q75N89_HUMAN,Q75N88_HUMAN,H0YN80_HUMAN	UPI0000163B0B	.	.	.	29/66	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF22,PROSITE_patterns:PS01187,PROSITE_patterns:PS00010,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,PIRSF_domain:PIRSF036312,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	1,0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTTCACGCAACG	byFrequency	3	BLCA
TEX9	0	.	GRCh37	15	56683503	56683503	+	Nonsense_Mutation	SNP	C	C	G	rs139609954	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.458C>G	p.Ser153Ter	p.S153*	ENST00000352903	7/13	107	83	23	62	62	0	TEX9,stop_gained,p.Ser78Ter,ENST00000558083,;TEX9,stop_gained,p.Ser78Ter,ENST00000537232,;TEX9,stop_gained,p.Ser153Ter,ENST00000352903,;TEX9,stop_gained,p.Ser78Ter,ENST00000560827,;TEX9,stop_gained,p.Ser153Ter,ENST00000561221,;TEX9,upstream_gene_variant,,ENST00000560582,;RP11-48G14.2,downstream_gene_variant,,ENST00000564401,;TEX9,3_prime_UTR_variant,,ENST00000558127,;TEX9,upstream_gene_variant,,ENST00000559546,;	G	ENSG00000151575	ENST00000352903	Transcript	stop_gained	482	458	153	S/*	tCa/tGa	rs139609954	.	.	1	TEX9	HGNC	29585	protein_coding	YES	CCDS10157.1	ENSP00000342169	TEX9_HUMAN	H0YKG1_HUMAN,B4DH73_HUMAN	UPI00000731FD	.	.	.	7/13	.	hmmpanther:PTHR23313	.	.	.	.	.	.	.	G:0.0005	G:0	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCAGACT	byCluster|by1000G	5	BLCA
MYO9A	0	.	GRCh37	15	72118885	72118885	+	3'UTR	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*36G>T	.	.	ENST00000356056	42/42	41	32	9	44	44	0	MYO9A,3_prime_UTR_variant,,ENST00000561618,;MYO9A,3_prime_UTR_variant,,ENST00000568042,;MYO9A,3_prime_UTR_variant,,ENST00000424560,;MYO9A,3_prime_UTR_variant,,ENST00000564571,;MYO9A,3_prime_UTR_variant,,ENST00000356056,;MYO9A,3_prime_UTR_variant,,ENST00000444904,;MYO9A,downstream_gene_variant,,ENST00000568481,;CTD-2524L6.3,downstream_gene_variant,,ENST00000562658,;CTD-2524L6.3,downstream_gene_variant,,ENST00000561834,;CTD-2524L6.3,downstream_gene_variant,,ENST00000563041,;MYO9A,downstream_gene_variant,,ENST00000564699,;	A	ENSG00000066933	ENST00000356056	Transcript	3_prime_UTR_variant	8156	.	.	.	.	.	.	.	-1	MYO9A	HGNC	7608	protein_coding	YES	CCDS10239.1	ENSP00000348349	MYO9A_HUMAN	H3BSU8_HUMAN,H3BMS3_HUMAN	UPI000013D213	.	.	.	42/42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTACCACTCT	.	5	BLCA
STOML1	0	.	GRCh37	15	74276451	74276451	+	Missense_Mutation	SNP	C	C	T	rs141171144	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1024G>A	p.Gly342Arg	p.G342R	ENST00000316900	7/7	27	20	6	29	29	0	STOML1,missense_variant,p.Gly271Arg,ENST00000359750,;STOML1,missense_variant,p.Gly292Arg,ENST00000316911,;STOML1,missense_variant,p.Gly291Arg,ENST00000564777,;STOML1,missense_variant,p.Gly342Arg,ENST00000316900,;STOML1,missense_variant,p.Gly299Arg,ENST00000541638,;STOML1,missense_variant,p.Gly254Arg,ENST00000561656,;STOML1,downstream_gene_variant,,ENST00000566081,;STOML1,downstream_gene_variant,,ENST00000565240,;STOML1,downstream_gene_variant,,ENST00000562453,;STOML1,non_coding_transcript_exon_variant,,ENST00000561480,;STOML1,downstream_gene_variant,,ENST00000567052,;STOML1,downstream_gene_variant,,ENST00000563229,;	T	ENSG00000067221	ENST00000316900	Transcript	missense_variant	1149	1024	342	G/R	Ggg/Agg	rs141171144,COSM4056760	.	.	-1	STOML1	HGNC	14560	protein_coding	YES	CCDS10254.1	ENSP00000319323	STML1_HUMAN	H3BVF2_HUMAN	UPI00000377B6	.	deleterious(0)	probably_damaging(0.958)	7/7	.	hmmpanther:PTHR10264,hmmpanther:PTHR10264:SF70,Pfam_domain:PF02036,Gene3D:3.30.1050.10,Superfamily_domains:SSF55718	.	.	.	.	.	.	.	T:0.0005	T:0.0003	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCCCGTGTC	byFrequency|byCluster	5	BLCA
MPI	0	.	GRCh37	15	75183823	75183823	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.248G>A	p.Gly83Asp	p.G83D	ENST00000352410	3/8	194	155	38	134	134	0	MPI,missense_variant,p.Gly83Asp,ENST00000352410,;MPI,missense_variant,p.Gly63Asp,ENST00000564633,;MPI,missense_variant,p.Gly83Asp,ENST00000323744,;MPI,missense_variant,p.Gly63Asp,ENST00000563786,;MPI,missense_variant,p.Gly83Asp,ENST00000566377,;MPI,missense_variant,p.Gly71Asp,ENST00000568828,;MPI,missense_variant,p.Gly83Asp,ENST00000565576,;MPI,missense_variant,p.Gly83Asp,ENST00000567132,;MPI,missense_variant,p.Gly33Asp,ENST00000564003,;MPI,missense_variant,p.Gly33Asp,ENST00000535694,;MPI,missense_variant,p.Gly63Asp,ENST00000567570,;MPI,missense_variant,p.Gly83Asp,ENST00000563422,;MPI,missense_variant,p.Gly70Asp,ENST00000567177,;MPI,missense_variant,p.Gly63Asp,ENST00000569931,;MPI,missense_variant,p.Gly63Asp,ENST00000562606,;MPI,missense_variant,p.Gly83Asp,ENST00000562800,;MPI,missense_variant,p.Gly83Asp,ENST00000568907,;MPI,missense_variant,p.Gly102Asp,ENST00000569233,;MPI,3_prime_UTR_variant,,ENST00000561470,;MPI,non_coding_transcript_exon_variant,,ENST00000568840,;MPI,non_coding_transcript_exon_variant,,ENST00000567116,;MPI,upstream_gene_variant,,ENST00000566556,;MPI,downstream_gene_variant,,ENST00000568303,;	A	ENSG00000178802	ENST00000352410	Transcript	missense_variant	315	248	83	G/D	gGc/gAc	.	.	.	1	MPI	HGNC	7216	protein_coding	YES	CCDS10272.1	ENSP00000318318	MPI_HUMAN	H3BPU7_HUMAN,H3BPM5_HUMAN,H3BPB8_HUMAN,H3BP57_HUMAN,F5GX71_HUMAN	UPI000000DB74	.	deleterious(0)	probably_damaging(0.974)	3/8	.	hmmpanther:PTHR10309:SF0,hmmpanther:PTHR10309,Gene3D:2.60.120.10,TIGRFAM_domain:TIGR00218,Pfam_domain:PF01238,PIRSF_domain:PIRSF001480,Superfamily_domains:SSF51182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGGGCTCAA	.	5	BLCA
MEIOB	0	.	GRCh37	16	1889287	1889287	+	Missense_Mutation	SNP	C	C	T	rs373473943,rs758440898	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1187G>A	p.Gly396Glu	p.G396E	ENST00000412554	12/14	50	40	9	35	35	0	MEIOB,missense_variant,p.Gly396Glu,ENST00000397344,;MEIOB,missense_variant,p.Gly396Glu,ENST00000325962,;FAHD1,missense_variant,p.Pro221Ser,ENST00000382668,;MEIOB,missense_variant,p.Gly396Glu,ENST00000412554,;MEIOB,missense_variant,p.Gly189Glu,ENST00000470044,;MEIOB,missense_variant,p.Gly396Glu,ENST00000452149,;FAHD1,3_prime_UTR_variant,,ENST00000382666,;LA16c-429E7.1,downstream_gene_variant,,ENST00000570247,;MEIOB,non_coding_transcript_exon_variant,,ENST00000490154,;	T	ENSG00000162039	ENST00000412554	Transcript	missense_variant	1382	1187	396	G/E	gGa/gAa	rs373473943,rs758440898	.	.	-1	MEIOB	HGNC	28569	protein_coding	YES	CCDS53983.1	ENSP00000390778	MEIOB_HUMAN	H3BU10_HUMAN,H3BSU6_HUMAN	UPI000198C771	.	tolerated(0.07)	possibly_damaging(0.692)	12/14	.	hmmpanther:PTHR21166:SF2,hmmpanther:PTHR21166,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTTCCTGTG	byCluster	5	BLCA
C16orf62	0	.	GRCh37	16	19710913	19710913	+	Silent	SNP	C	C	G	rs765372304	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3003C>G	p.%3D	p.L1001L	ENST00000438132	30/31	57	43	14	46	46	0	C16orf62,synonymous_variant,p.%3D,ENST00000417362,;C16orf62,synonymous_variant,p.%3D,ENST00000542027,;C16orf62,synonymous_variant,p.%3D,ENST00000543152,;C16orf62,synonymous_variant,p.%3D,ENST00000542263,;C16orf62,synonymous_variant,p.%3D,ENST00000251143,;C16orf62,synonymous_variant,p.%3D,ENST00000438132,;C16orf62,synonymous_variant,p.%3D,ENST00000448695,;KNOP1,downstream_gene_variant,,ENST00000219837,;C16orf62,non_coding_transcript_exon_variant,,ENST00000566850,;	G	ENSG00000103544	ENST00000438132	Transcript	synonymous_variant	3051	3003	1001	L	ctC/ctG	rs765372304	.	.	1	C16orf62	HGNC	24641	protein_coding	YES	CCDS32397.2	ENSP00000400815	.	I3L1U5_HUMAN,H3BV68_HUMAN,E7EWW0_HUMAN	UPI0001E1129C	.	.	.	30/31	.	hmmpanther:PTHR13673,hmmpanther:PTHR13673:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCTCCGT	.	5	BLCA
RBBP6	0	.	GRCh37	16	24582507	24582507	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4120C>G	p.Gln1374Glu	p.Q1374E	ENST00000319715	18/18	39	32	7	38	38	0	RBBP6,missense_variant,p.Gln534Glu,ENST00000381039,;RBBP6,missense_variant,p.Gln1374Glu,ENST00000319715,;RBBP6,missense_variant,p.Gln1340Glu,ENST00000348022,;RBBP6,downstream_gene_variant,,ENST00000564314,;RBBP6,non_coding_transcript_exon_variant,,ENST00000562430,;RBBP6,downstream_gene_variant,,ENST00000570185,;	G	ENSG00000122257	ENST00000319715	Transcript	missense_variant	4552	4120	1374	Q/E	Cag/Gag	.	.	.	1	RBBP6	HGNC	9889	protein_coding	YES	CCDS10621.1	ENSP00000317872	RBBP6_HUMAN	I3L3Y2_HUMAN,H3BUN0_HUMAN,H3BSK8_HUMAN	UPI00001A96B8	.	deleterious_low_confidence(0)	unknown(0)	18/18	.	hmmpanther:PTHR15439:SF1,hmmpanther:PTHR15439	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATTCAGAAA	.	5	BLCA
CDH16	0	.	GRCh37	16	66945116	66945116	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1893C>G	p.%3D	p.T631T	ENST00000299752	14/18	32	24	8	19	19	0	CDH16,synonymous_variant,p.%3D,ENST00000570262,;CDH16,synonymous_variant,p.%3D,ENST00000565796,;CDH16,synonymous_variant,p.%3D,ENST00000394055,;CDH16,synonymous_variant,p.%3D,ENST00000568632,;CDH16,synonymous_variant,p.%3D,ENST00000299752,;CDH16,downstream_gene_variant,,ENST00000565235,;CDH16,downstream_gene_variant,,ENST00000567009,;CDH16,3_prime_UTR_variant,,ENST00000567269,;CDH16,3_prime_UTR_variant,,ENST00000568698,;	C	ENSG00000166589	ENST00000299752	Transcript	synonymous_variant	2087	1893	631	T	acC/acG	.	.	.	-1	CDH16	HGNC	1755	protein_coding	YES	CCDS10823.1	ENSP00000299752	CAD16_HUMAN	J3QLA1_HUMAN	UPI0000126DB1	.	.	.	14/18	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF1,hmmpanther:PTHR24028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTAGGTGTC	.	5	BLCA
CYB5B	0	.	GRCh37	16	69481052	69481075	+	Splice_Site	DEL	GCACCCTGGAGGAGAAGAGGTTCT	GCACCCTGGAGGAGAAGAGGTTCT	-	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	GCACCCTGGAGGAGAAGAGGTTCT	GCACCCTGGAGGAGAAGAGGTTCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.176_199delACCCTGGAGGAGAAGAGGTTCTGC	p.His59_Leu66del	p.X59_splice	ENST00000307892	2/5	41	34	7	29	29	0	CYB5B,splice_acceptor_variant,p.His59_Leu66del,ENST00000307892,;CYB5B,splice_acceptor_variant,p.His55_Leu62del,ENST00000561792,;CYB5B,splice_acceptor_variant,p.His55_Leu62del,ENST00000515314,;CYB5B,splice_acceptor_variant,p.His55_Leu62del,ENST00000512062,;CYB5B,intron_variant,,ENST00000568237,;CYB5B,splice_acceptor_variant,,ENST00000568342,;CYB5B,splice_acceptor_variant,,ENST00000514123,;RP11-343C2.10,upstream_gene_variant,,ENST00000562497,;	-	ENSG00000103018	ENST00000307892	Transcript	splice_acceptor_variant	?-286	?-197	?-66	.	.	.	.	.	1	CYB5B	HGNC	24374	protein_coding	YES	CCDS10880.2	ENSP00000308430	.	Q5HYD9_HUMAN,J3KNF8_HUMAN	UPI00000710AB	.	.	.	2/5	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CTTGTAGCACCCTGGAGGAGAAGAGGTTCTGCTGG	.	2	BLCA
FANCA	0	.	GRCh37	16	89805631	89805631	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4077C>G	p.Asp1359Glu	p.D1359E	ENST00000389301	41/43	41	29	12	26	26	0	FANCA,missense_variant,p.Asp76Glu,ENST00000561722,;FANCA,missense_variant,p.Asp1359Glu,ENST00000389301,;FANCA,missense_variant,p.Asp152Glu,ENST00000567879,;FANCA,missense_variant,p.Asp136Glu,ENST00000564475,;FANCA,missense_variant,p.Asp1359Glu,ENST00000568369,;FANCA,missense_variant,p.Asp93Glu,ENST00000564870,;ZNF276,3_prime_UTR_variant,,ENST00000289816,;ZNF276,downstream_gene_variant,,ENST00000568064,;ZNF276,downstream_gene_variant,,ENST00000443381,;ZNF276,downstream_gene_variant,,ENST00000446326,;ZNF276,non_coding_transcript_exon_variant,,ENST00000563983,;FANCA,non_coding_transcript_exon_variant,,ENST00000562424,;FANCA,downstream_gene_variant,,ENST00000564969,;ZNF276,downstream_gene_variant,,ENST00000564004,;FANCA,downstream_gene_variant,,ENST00000568626,;ZNF276,downstream_gene_variant,,ENST00000568295,;ZNF276,downstream_gene_variant,,ENST00000561536,;ZNF276,downstream_gene_variant,,ENST00000569901,;FANCA,downstream_gene_variant,,ENST00000305699,;FANCA,downstream_gene_variant,,ENST00000567988,;ZNF276,downstream_gene_variant,,ENST00000569582,;ZNF276,downstream_gene_variant,,ENST00000562530,;	C	ENSG00000187741	ENST00000389301	Transcript	missense_variant	4108	4077	1359	D/E	gaC/gaG	.	.	.	-1	FANCA	HGNC	3582	protein_coding	YES	CCDS32515.1	ENSP00000373952	FANCA_HUMAN	H3BT53_HUMAN	UPI0000520A1A	.	tolerated(0.12)	benign(0.417)	41/43	.	Prints_domain:PR00826,hmmpanther:PTHR12047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACATGTCCAC	.	5	BLCA
HS3ST3A1	0	.	GRCh37	17	13503916	13503916	+	Silent	SNP	G	G	A	rs368104034	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>T	p.%3D	p.D177D	ENST00000284110	1/2	16	11	5	8	8	0	HS3ST3A1,synonymous_variant,p.%3D,ENST00000284110,;	A	ENSG00000153976	ENST00000284110	Transcript	synonymous_variant	1329	531	177	D	gaC/gaT	rs368104034	.	.	-1	HS3ST3A1	HGNC	5196	protein_coding	YES	CCDS11165.1	ENSP00000284110	HS3SA_HUMAN	J3KSX5_HUMAN	UPI000000DAA6	.	.	.	1/2	.	Superfamily_domains:SSF52540,Pfam_domain:PF00685,Gene3D:3.40.50.300,hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF35	A:0.0008	A:0	A:0.0029	.	A:0	A:0.001	A:0.001	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGCACGTCGGG	byFrequency|byCluster|by1000G	3	BLCA
FLII	0	.	GRCh37	17	18151059	18151059	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2399C>T	p.Ala800Val	p.A800V	ENST00000327031	20/30	29	22	7	21	21	0	FLII,missense_variant,p.Ala800Val,ENST00000327031,;FLII,missense_variant,p.Ala714Val,ENST00000379450,;FLII,missense_variant,p.Ala789Val,ENST00000579294,;FLII,missense_variant,p.Ala745Val,ENST00000545457,;FLII,intron_variant,,ENST00000577485,;FLII,intron_variant,,ENST00000578558,;FLII,upstream_gene_variant,,ENST00000577398,;FLII,downstream_gene_variant,,ENST00000488932,;LLGL1,downstream_gene_variant,,ENST00000316843,;FLII,3_prime_UTR_variant,,ENST00000578101,;FLII,non_coding_transcript_exon_variant,,ENST00000577402,;FLII,upstream_gene_variant,,ENST00000493600,;FLII,downstream_gene_variant,,ENST00000488221,;FLII,upstream_gene_variant,,ENST00000459958,;FLII,upstream_gene_variant,,ENST00000487693,;FLII,downstream_gene_variant,,ENST00000461110,;FLII,upstream_gene_variant,,ENST00000580966,;FLII,upstream_gene_variant,,ENST00000581858,;FLII,downstream_gene_variant,,ENST00000577626,;FLII,upstream_gene_variant,,ENST00000493401,;FLII,upstream_gene_variant,,ENST00000465046,;FLII,downstream_gene_variant,,ENST00000496727,;FLII,upstream_gene_variant,,ENST00000487369,;FLII,upstream_gene_variant,,ENST00000474265,;FLII,upstream_gene_variant,,ENST00000580453,;LLGL1,downstream_gene_variant,,ENST00000479155,;	A	ENSG00000177731	ENST00000327031	Transcript	missense_variant	2625	2399	800	A/V	gCc/gTc	.	.	.	-1	FLII	HGNC	3750	protein_coding	YES	CCDS11192.1	ENSP00000324573	FLII_HUMAN	K7EP37_HUMAN,K7EP27_HUMAN	UPI0000001284	.	deleterious(0)	probably_damaging(0.999)	20/30	.	hmmpanther:PTHR11977,hmmpanther:PTHR11977:SF16,Pfam_domain:PF00626,Gene3D:3.40.20.10,SMART_domains:SM00262,Superfamily_domains:SSF55753	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGGGCGGCA	.	5	BLCA
ALDOC	0	.	GRCh37	17	26901578	26901578	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.558T>G	p.Ile186Met	p.I186M	ENST00000226253	6/9	144	89	55	150	150	0	ALDOC,missense_variant,p.Ile186Met,ENST00000226253,;ALDOC,missense_variant,p.Ile186Met,ENST00000395321,;ALDOC,intron_variant,,ENST00000395319,;PIGS,upstream_gene_variant,,ENST00000395346,;ALDOC,downstream_gene_variant,,ENST00000581807,;SPAG5,downstream_gene_variant,,ENST00000321765,;PIGS,upstream_gene_variant,,ENST00000308360,;ALDOC,downstream_gene_variant,,ENST00000578590,;PIGS,upstream_gene_variant,,ENST00000543734,;ALDOC,downstream_gene_variant,,ENST00000460201,;SPAG5,downstream_gene_variant,,ENST00000582076,;ALDOC,downstream_gene_variant,,ENST00000584086,;ALDOC,downstream_gene_variant,,ENST00000435638,;RP11-192H23.5,downstream_gene_variant,,ENST00000585189,;PIGS,upstream_gene_variant,,ENST00000584413,;RP11-192H23.4,intron_variant,,ENST00000481916,;SPAG5,downstream_gene_variant,,ENST00000581133,;SPAG5,downstream_gene_variant,,ENST00000582175,;PIGS,upstream_gene_variant,,ENST00000584080,;SPAG5,downstream_gene_variant,,ENST00000580676,;PIGS,upstream_gene_variant,,ENST00000268758,;PIGS,upstream_gene_variant,,ENST00000582721,;SPAG5,downstream_gene_variant,,ENST00000580406,;SPAG5,downstream_gene_variant,,ENST00000577259,;PIGS,upstream_gene_variant,,ENST00000577594,;SPAG5,downstream_gene_variant,,ENST00000580377,;ALDOC,downstream_gene_variant,,ENST00000582381,;PIGS,upstream_gene_variant,,ENST00000583631,;SPAG5,downstream_gene_variant,,ENST00000580682,;	C	ENSG00000109107	ENST00000226253	Transcript	missense_variant	1034	558	186	I/M	atT/atG	.	.	.	-1	ALDOC	HGNC	418	protein_coding	YES	CCDS11236.1	ENSP00000226253	ALDOC_HUMAN	K7EKH5_HUMAN,J3QKP5_HUMAN,J3QKK1_HUMAN,J3KSV6_HUMAN,C9J8F3_HUMAN,B7Z1N6_HUMAN	UPI0000000C53	.	deleterious(0.01)	probably_damaging(0.937)	6/9	.	hmmpanther:PTHR11627,hmmpanther:PTHR11627:SF3,Pfam_domain:PF00274,Gene3D:3.20.20.70,Superfamily_domains:SSF51569	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCACAATAGG	.	5	BLCA
CPD	0	.	GRCh37	17	28788315	28788315	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3616A>T	p.Ser1206Cys	p.S1206C	ENST00000225719	18/21	87	45	41	74	74	0	CPD,missense_variant,p.Ser959Cys,ENST00000543464,;CPD,missense_variant,p.Ser1206Cys,ENST00000225719,;CPD,intron_variant,,ENST00000584221,;CPD,downstream_gene_variant,,ENST00000584051,;CPD,intron_variant,,ENST00000579502,;CPD,downstream_gene_variant,,ENST00000580396,;CPD,downstream_gene_variant,,ENST00000584050,;	T	ENSG00000108582	ENST00000225719	Transcript	missense_variant	3692	3616	1206	S/C	Agt/Tgt	.	.	.	1	CPD	HGNC	2301	protein_coding	YES	CCDS11257.1	ENSP00000225719	CBPD_HUMAN	.	UPI000000DAF7	.	deleterious(0)	probably_damaging(0.982)	18/21	.	hmmpanther:PTHR11532:SF40,hmmpanther:PTHR11532,Gene3D:3.40.630.10,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTAGTATG	.	5	BLCA
ACACA	0	.	GRCh37	17	35548097	35548097	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4536C>G	p.%3D	p.L1512L	ENST00000353139	38/56	37	29	8	31	31	0	ACACA,synonymous_variant,p.%3D,ENST00000591119,;ACACA,synonymous_variant,p.%3D,ENST00000360679,;ACACA,synonymous_variant,p.%3D,ENST00000353139,;ACACA,synonymous_variant,p.%3D,ENST00000394406,;ACACA,synonymous_variant,p.%3D,ENST00000335166,;ACACA,upstream_gene_variant,,ENST00000592427,;ACACA,non_coding_transcript_exon_variant,,ENST00000586621,;	C	ENSG00000132142	ENST00000353139	Transcript	synonymous_variant	5018	4536	1512	L	ctC/ctG	.	.	.	-1	ACACA	HGNC	84	protein_coding	YES	CCDS42302.1	ENSP00000344789	ACACA_HUMAN	Q7Z5W8_HUMAN,K7EII5_HUMAN,K4DID9_HUMAN,B4DWK9_HUMAN,B4DK31_HUMAN,B4DIW1_HUMAN,B2ZZ90_HUMAN,A8MYL5_HUMAN	UPI00002263AC	.	.	.	38/56	.	hmmpanther:PTHR18866:SF89,hmmpanther:PTHR18866,Pfam_domain:PF08326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTGAGGAA	.	5	BLCA
MLX	0	.	GRCh37	17	40722064	40722064	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.703G>C	p.Asp235His	p.D235H	ENST00000246912	7/8	59	55	3	58	58	0	MLX,missense_variant,p.Asp151His,ENST00000346833,;MLX,missense_variant,p.Asp181His,ENST00000435881,;MLX,missense_variant,p.Asp235His,ENST00000246912,;MLX,missense_variant,p.Asp205His,ENST00000591024,;PSMC3IP,downstream_gene_variant,,ENST00000253789,;PSMC3IP,downstream_gene_variant,,ENST00000590760,;COASY,downstream_gene_variant,,ENST00000421097,;PSMC3IP,downstream_gene_variant,,ENST00000587209,;COASY,downstream_gene_variant,,ENST00000449624,;COASY,downstream_gene_variant,,ENST00000393818,;COASY,downstream_gene_variant,,ENST00000420359,;COASY,downstream_gene_variant,,ENST00000590958,;PSMC3IP,downstream_gene_variant,,ENST00000393795,;MLX,non_coding_transcript_exon_variant,,ENST00000590050,;MLX,non_coding_transcript_exon_variant,,ENST00000585403,;MLX,intron_variant,,ENST00000588320,;MLX,downstream_gene_variant,,ENST00000586393,;MLX,downstream_gene_variant,,ENST00000592717,;MLX,downstream_gene_variant,,ENST00000591195,;MLX,downstream_gene_variant,,ENST00000590084,;PSMC3IP,downstream_gene_variant,,ENST00000588544,;COASY,downstream_gene_variant,,ENST00000591583,;PSMC3IP,downstream_gene_variant,,ENST00000589505,;COASY,downstream_gene_variant,,ENST00000591753,;PSMC3IP,downstream_gene_variant,,ENST00000590931,;PSMC3IP,downstream_gene_variant,,ENST00000586337,;	C	ENSG00000108788	ENST00000246912	Transcript	missense_variant	756	703	235	D/H	Gac/Cac	COSM1479595	.	.	1	MLX	HGNC	11645	protein_coding	YES	CCDS11430.1	ENSP00000246912	MLX_HUMAN	.	UPI000012F237	.	deleterious(0)	probably_damaging(0.999)	7/8	.	hmmpanther:PTHR15741,hmmpanther:PTHR15741:SF25	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCTGACCAG	.	2	BLCA
MRPL27	0	.	GRCh37	17	48450558	48450558	+	5'UTR	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-27C>A	.	.	ENST00000225969	1/4	17	8	9	15	15	0	MRPL27,5_prime_UTR_variant,,ENST00000225969,;MRPL27,5_prime_UTR_variant,,ENST00000442592,;MRPL27,upstream_gene_variant,,ENST00000508200,;EME1,upstream_gene_variant,,ENST00000393271,;MRPL27,upstream_gene_variant,,ENST00000507088,;EME1,upstream_gene_variant,,ENST00000338165,;MRPL27,upstream_gene_variant,,ENST00000511860,;MRPL27,upstream_gene_variant,,ENST00000503633,;EME1,upstream_gene_variant,,ENST00000511648,;EME1,upstream_gene_variant,,ENST00000511519,;LRRC59,downstream_gene_variant,,ENST00000503118,;EME1,upstream_gene_variant,,ENST00000510246,;MRPL27,upstream_gene_variant,,ENST00000514928,;EME1,upstream_gene_variant,,ENST00000513077,;EME1,upstream_gene_variant,,ENST00000510007,;EME1,upstream_gene_variant,,ENST00000511711,;	T	ENSG00000108826	ENST00000225969	Transcript	5_prime_UTR_variant	18	.	.	.	.	.	.	.	-1	MRPL27	HGNC	14483	protein_coding	YES	CCDS11564.1	ENSP00000225969	RM27_HUMAN	D6RAN8_HUMAN	UPI00001342E1	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTCGAAAAG	.	5	BLCA
ACAP1	0	.	GRCh37	17	7249747	7249747	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.944G>A	p.Cys315Tyr	p.C315Y	ENST00000158762	12/22	99	58	41	84	84	0	ACAP1,missense_variant,p.Cys315Tyr,ENST00000158762,;ACAP1,upstream_gene_variant,,ENST00000574499,;ACAP1,upstream_gene_variant,,ENST00000571471,;ACAP1,downstream_gene_variant,,ENST00000575425,;ACAP1,downstream_gene_variant,,ENST00000570457,;ACAP1,upstream_gene_variant,,ENST00000575415,;ACAP1,upstream_gene_variant,,ENST00000570504,;ACAP1,downstream_gene_variant,,ENST00000573893,;ACAP1,non_coding_transcript_exon_variant,,ENST00000570439,;ACAP1,downstream_gene_variant,,ENST00000571220,;ACAP1,upstream_gene_variant,,ENST00000576594,;ACAP1,downstream_gene_variant,,ENST00000576628,;	A	ENSG00000072818	ENST00000158762	Transcript	missense_variant	1150	944	315	C/Y	tGc/tAc	.	.	.	1	ACAP1	HGNC	16467	protein_coding	YES	CCDS11101.1	ENSP00000158762	ACAP1_HUMAN	I3L2Z4_HUMAN,I3L268_HUMAN,I3L0K9_HUMAN	UPI000012749A	.	deleterious(0)	probably_damaging(1)	12/22	.	PROSITE_profiles:PS50003,hmmpanther:PTHR23180:SF197,hmmpanther:PTHR23180,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGCACAG	.	5	BLCA
CABLES1	0	.	GRCh37	18	20833798	20833798	+	Missense_Mutation	SNP	A	A	T	rs372087098	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1659A>T	p.Lys553Asn	p.K553N	ENST00000256925	9/10	56	47	9	45	45	0	CABLES1,missense_variant,p.Lys288Asn,ENST00000420687,;CABLES1,missense_variant,p.Lys226Asn,ENST00000400473,;CABLES1,missense_variant,p.Lys553Asn,ENST00000256925,;TMEM241,intron_variant,,ENST00000450466,;RP11-17J14.2,downstream_gene_variant,,ENST00000585184,;TMEM241,intron_variant,,ENST00000578790,;CABLES1,intron_variant,,ENST00000585061,;CABLES1,3_prime_UTR_variant,,ENST00000579963,;TMEM241,intron_variant,,ENST00000581444,;	T	ENSG00000134508	ENST00000256925	Transcript	missense_variant	1659	1659	553	K/N	aaA/aaT	rs372087098	.	.	1	CABLES1	HGNC	25097	protein_coding	YES	CCDS42417.1	ENSP00000256925	CABL1_HUMAN	A7K6Y5_HUMAN	UPI00004C2CAA	.	deleterious(0.05)	probably_damaging(0.998)	9/10	.	hmmpanther:PTHR22896,hmmpanther:PTHR22896:SF1,Gene3D:1.10.472.10,Pfam_domain:PF00134,PIRSF_domain:PIRSF025798,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGAAACTCAA	.	5	BLCA
TPGS2	0	.	GRCh37	18	34380205	34380205	+	Missense_Mutation	SNP	T	T	C	rs199516988	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.452A>G	p.Asn151Ser	p.N151S	ENST00000334295	5/7	191	151	40	148	148	0	TPGS2,missense_variant,p.Asn151Ser,ENST00000589049,;TPGS2,missense_variant,p.Asn151Ser,ENST00000590842,;TPGS2,missense_variant,p.Asn151Ser,ENST00000334295,;TPGS2,missense_variant,p.Asn139Ser,ENST00000587382,;TPGS2,missense_variant,p.Asn151Ser,ENST00000587129,;TPGS2,missense_variant,p.Asn116Ser,ENST00000593035,;TPGS2,missense_variant,p.Asn108Ser,ENST00000383056,;TPGS2,missense_variant,p.Asn108Ser,ENST00000591906,;TPGS2,non_coding_transcript_exon_variant,,ENST00000590500,;TPGS2,non_coding_transcript_exon_variant,,ENST00000590652,;TPGS2,upstream_gene_variant,,ENST00000590258,;TPGS2,3_prime_UTR_variant,,ENST00000591823,;TPGS2,3_prime_UTR_variant,,ENST00000590692,;TPGS2,3_prime_UTR_variant,,ENST00000585635,;	C	ENSG00000134779	ENST00000334295	Transcript	missense_variant	880	452	151	N/S	aAt/aGt	rs199516988	.	.	-1	TPGS2	HGNC	24561	protein_coding	YES	CCDS32817.1	ENSP00000335144	TPGS2_HUMAN	.	UPI0000201C11	.	tolerated(0.35)	benign(0.004)	5/7	.	Superfamily_domains:SSF160631,SMART_domains:SM00860,hmmpanther:PTHR31854	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCATTGCAT	byCluster	5	BLCA
PPP4R1	0	.	GRCh37	18	9583194	9583214	+	In_Frame_Del	DEL	GAAACCGCCATGAAGCATTCA	GAAACCGCCATGAAGCATTCA	-	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	GAAACCGCCATGAAGCATTCA	GAAACCGCCATGAAGCATTCA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.819_839delTGAATGCTTCATGGCGGTTTC	p.Glu274_Ser280del	p.E274_S280del	ENST00000400556	9/20	63	53	10	42	42	0	PPP4R1,inframe_deletion,p.Glu257_Ser263del,ENST00000400555,;PPP4R1,inframe_deletion,p.Glu274_Ser280del,ENST00000400556,;PPP4R1,downstream_gene_variant,,ENST00000580745,;PPP4R1,downstream_gene_variant,,ENST00000582240,;PPP4R1,downstream_gene_variant,,ENST00000584074,;PPP4R1,downstream_gene_variant,,ENST00000581250,;RP11-881L2.1,upstream_gene_variant,,ENST00000584109,;PPP4R1,intron_variant,,ENST00000580583,;PPP4R1,downstream_gene_variant,,ENST00000579415,;PPP4R1,downstream_gene_variant,,ENST00000583903,;PPP4R1,downstream_gene_variant,,ENST00000578178,;PPP4R1,downstream_gene_variant,,ENST00000582933,;PPP4R1,downstream_gene_variant,,ENST00000579638,;PPP4R1,3_prime_UTR_variant,,ENST00000285124,;PPP4R1,downstream_gene_variant,,ENST00000580182,;PPP4R1,downstream_gene_variant,,ENST00000578875,;	-	ENSG00000154845	ENST00000400556	Transcript	inframe_deletion	893-913	819-839	273-280	AECFMAVS/A	gcTGAATGCTTCATGGCGGTTTCa/gca	.	.	.	-1	PPP4R1	HGNC	9320	protein_coding	YES	CCDS42412.1	ENSP00000383402	PP4R1_HUMAN	J3QLA6_HUMAN,J3QL26_HUMAN,J3KSB0_HUMAN,J3KRU1_HUMAN,B4DID3_HUMAN	UPI000006D6DE	.	.	.	9/20	.	hmmpanther:PTHR10648:SF8,hmmpanther:PTHR10648,Gene3D:1.25.10.10,Pfam_domain:PF02985,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	GCACATGAAACCGCCATGAAGCATTCAGCACA	.	2	BLCA
C3P1	0	.	GRCh37	19	10169269	10169269	+	RNA	SNP	A	A	G	rs779776684	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2907A>G	.	.	ENST00000497718	24/37	72	63	9	50	50	0	C3P1,non_coding_transcript_exon_variant,,ENST00000495140,;C3P1,non_coding_transcript_exon_variant,,ENST00000497718,;	G	ENSG00000167798	ENST00000497718	Transcript	non_coding_transcript_exon_variant	2907	.	.	.	.	rs779776684	.	.	1	C3P1	HGNC	34414	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	24/37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGGATGTAT	.	4	BLCA
SYDE1	0	.	GRCh37	19	15224636	15224636	+	Silent	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2070C>A	p.%3D	p.V690V	ENST00000342784	8/8	173	122	51	115	115	0	SYDE1,synonymous_variant,p.%3D,ENST00000600440,;SYDE1,synonymous_variant,p.%3D,ENST00000600252,;SYDE1,synonymous_variant,p.%3D,ENST00000342784,;ILVBL,downstream_gene_variant,,ENST00000598709,;SYDE1,downstream_gene_variant,,ENST00000602203,;ILVBL,downstream_gene_variant,,ENST00000534378,;ILVBL,downstream_gene_variant,,ENST00000263383,;SYDE1,downstream_gene_variant,,ENST00000597977,;ILVBL,downstream_gene_variant,,ENST00000534806,;ILVBL,downstream_gene_variant,,ENST00000533148,;ILVBL,downstream_gene_variant,,ENST00000533086,;ILVBL,downstream_gene_variant,,ENST00000596093,;ILVBL,downstream_gene_variant,,ENST00000524779,;ILVBL,downstream_gene_variant,,ENST00000525880,;	A	ENSG00000105137	ENST00000342784	Transcript	synonymous_variant	2101	2070	690	V	gtC/gtA	.	.	.	1	SYDE1	HGNC	25824	protein_coding	YES	CCDS12324.1	ENSP00000341489	SYDE1_HUMAN	.	UPI00001C092C	.	.	.	8/8	.	hmmpanther:PTHR23178:SF22,hmmpanther:PTHR23178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGTCGGCGA	.	5	BLCA
ZNF737	0	.	GRCh37	19	20728764	20728764	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.245C>T	p.Ala82Val	p.A82V	ENST00000427401	4/4	44	38	6	56	56	0	ZNF737,missense_variant,p.Ala18Val,ENST00000594419,;ZNF737,missense_variant,p.Ala82Val,ENST00000427401,;ZNF737,upstream_gene_variant,,ENST00000596530,;ZNF737,3_prime_UTR_variant,,ENST00000597940,;	A	ENSG00000237440	ENST00000427401	Transcript	missense_variant	340	245	82	A/V	gCc/gTc	.	.	.	-1	ZNF737	HGNC	32468	protein_coding	YES	CCDS54238.1	ENSP00000395733	ZN737_HUMAN	M0R1D1_HUMAN	UPI0000198506	.	deleterious(0.04)	benign(0.424)	4/4	.	hmmpanther:PTHR24384:SF93,hmmpanther:PTHR24384	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCGGGCAAAA	.	4	BLCA
ZNF536	0	.	GRCh37	19	31039609	31039609	+	Missense_Mutation	SNP	C	C	T	rs375648549	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3083C>T	p.Ala1028Val	p.A1028V	ENST00000355537	4/5	87	63	24	52	52	0	ZNF536,missense_variant,p.Ala1028Val,ENST00000355537,;ZNF536,upstream_gene_variant,,ENST00000592773,;ZNF536,downstream_gene_variant,,ENST00000585628,;	T	ENSG00000198597	ENST00000355537	Transcript	missense_variant	3230	3083	1028	A/V	gCg/gTg	rs375648549,COSM994443	.	.	1	ZNF536	HGNC	29025	protein_coding	YES	CCDS32984.1	ENSP00000347730	ZN536_HUMAN	K7EKT4_HUMAN,K7EJP8_HUMAN	UPI000006ED3E	.	deleterious(0)	benign(0.12)	4/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF5	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAAGCGAAAC	byFrequency|byCluster	5	BLCA
GNA11	0	.	GRCh37	19	3110265	3110265	+	Silent	SNP	C	C	T	rs140204057	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255C>T	p.%3D	p.T85T	ENST00000078429	2/7	43	35	8	38	38	0	GNA11,synonymous_variant,p.%3D,ENST00000078429,;GNA11,upstream_gene_variant,,ENST00000587636,;GNA11,intron_variant,,ENST00000586763,;GNA11,upstream_gene_variant,,ENST00000588401,;	T	ENSG00000088256	ENST00000078429	Transcript	synonymous_variant	497	255	85	T	acC/acT	rs140204057	.	.	1	GNA11	HGNC	4379	protein_coding	YES	CCDS12103.1	ENSP00000078429	GNA11_HUMAN	Q59FM5_HUMAN	UPI000004D209	.	.	.	2/7	.	hmmpanther:PTHR10218:SF81,hmmpanther:PTHR10218,Gene3D:1.10.400.10,Pfam_domain:PF00503,SMART_domains:SM00275,Superfamily_domains:SSF47895,Prints_domain:PR00442	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCACCGCCAT	by1000G	5	BLCA
DPY19L3	0	.	GRCh37	19	32902322	32902322	+	Intron	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237+44C>G	.	.	ENST00000342179	.	57	48	9	51	51	0	DPY19L3,missense_variant,p.Ser94Cys,ENST00000587077,;DPY19L3,intron_variant,,ENST00000342179,;DPY19L3,intron_variant,,ENST00000392250,;DPY19L3,intron_variant,,ENST00000586427,;DPY19L3,intron_variant,,ENST00000586987,;DPY19L3,intron_variant,,ENST00000592503,;	G	ENSG00000178904	ENST00000342179	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	DPY19L3	HGNC	27120	protein_coding	YES	CCDS12422.1	ENSP00000344937	D19L3_HUMAN	K7ELG1_HUMAN	UPI00001C10BE	.	.	.	.	3/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGATCTCCAG	.	5	BLCA
SCN1B	0	.	GRCh37	19	35523483	35523483	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.92T>C	p.Val31Ala	p.V31A	ENST00000415950	2/3	119	97	21	88	88	0	SCN1B,missense_variant,p.Val31Ala,ENST00000595652,;SCN1B,missense_variant,p.Val31Ala,ENST00000415950,;SCN1B,missense_variant,p.Val31Ala,ENST00000262631,;CTD-2527I21.9,upstream_gene_variant,,ENST00000601692,;SCN1B,non_coding_transcript_exon_variant,,ENST00000596348,;SCN1B,upstream_gene_variant,,ENST00000602150,;	C	ENSG00000105711	ENST00000415950	Transcript	missense_variant	92	92	31	V/A	gTg/gCg	.	.	.	1	SCN1B	HGNC	10586	protein_coding	YES	CCDS46047.1	ENSP00000396915	SCN1B_HUMAN	.	UPI00000473F0	.	deleterious(0)	probably_damaging(0.986)	2/3	.	Superfamily_domains:SSF48726,Gene3D:2.60.40.10,hmmpanther:PTHR10546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCGTGTATG	.	4	BLCA
FXYD5	0	.	GRCh37	19	35657303	35657303	+	Intron	SNP	G	G	T	rs551621866	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.487+75G>T	.	.	ENST00000342879	.	38	34	4	42	42	0	FXYD5,missense_variant,p.Gly188Cys,ENST00000588699,;FXYD5,missense_variant,p.Gly188Cys,ENST00000543307,;FXYD5,intron_variant,,ENST00000392217,;FXYD5,intron_variant,,ENST00000590686,;FXYD5,intron_variant,,ENST00000423817,;FXYD5,intron_variant,,ENST00000392219,;FXYD5,intron_variant,,ENST00000342879,;FXYD5,intron_variant,,ENST00000541435,;FXYD5,intron_variant,,ENST00000586925,;FXYD5,intron_variant,,ENST00000591716,;FXYD5,intron_variant,,ENST00000592290,;FXYD5,intron_variant,,ENST00000496493,;	T	ENSG00000089327	ENST00000342879	Transcript	intron_variant	.	.	.	.	.	rs551621866	.	.	1	FXYD5	HGNC	4029	protein_coding	YES	CCDS12447.1	ENSP00000344254	FXYD5_HUMAN	.	UPI0000048F47	.	.	.	.	7/7	.	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAAAGGTCCC	byFrequency|byCluster|by1000G	4	BLCA
ARHGAP33	0	.	GRCh37	19	36271141	36271141	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530T>A	p.Leu177His	p.L177H	ENST00000314737	7/21	77	69	8	56	56	0	ARHGAP33,missense_variant,p.Leu177His,ENST00000007510,;ARHGAP33,missense_variant,p.Leu41His,ENST00000378944,;ARHGAP33,missense_variant,p.Leu177His,ENST00000314737,;ARHGAP33,upstream_gene_variant,,ENST00000587447,;ARHGAP33,upstream_gene_variant,,ENST00000588248,;ARHGAP33,downstream_gene_variant,,ENST00000221905,;ARHGAP33,downstream_gene_variant,,ENST00000589133,;ARHGAP33,upstream_gene_variant,,ENST00000591438,;ARHGAP33,upstream_gene_variant,,ENST00000593034,;ARHGAP33,downstream_gene_variant,,ENST00000590893,;ARHGAP33,upstream_gene_variant,,ENST00000587984,;ARHGAP33,upstream_gene_variant,,ENST00000601474,;ARHGAP33,upstream_gene_variant,,ENST00000586918,;	A	ENSG00000004777	ENST00000314737	Transcript	missense_variant	614	530	177	L/H	cTc/cAc	.	.	.	1	ARHGAP33	HGNC	23085	protein_coding	YES	CCDS12477.1	ENSP00000320038	RHG33_HUMAN	.	UPI000013F8F9	.	deleterious_low_confidence(0)	probably_damaging(0.938)	7/21	.	hmmpanther:PTHR15729,hmmpanther:PTHR15729:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTCCTCAGTG	.	3	BLCA
ZNF461	0	.	GRCh37	19	37147369	37147369	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213G>C	p.Glu71Asp	p.E71D	ENST00000588268	4/6	52	47	5	48	48	0	ZNF461,missense_variant,p.Glu6Asp,ENST00000591370,;ZNF461,missense_variant,p.Glu65Asp,ENST00000592829,;ZNF461,missense_variant,p.Glu71Asp,ENST00000360357,;ZNF461,missense_variant,p.Glu71Asp,ENST00000588268,;ZNF461,non_coding_transcript_exon_variant,,ENST00000591827,;ZNF461,3_prime_UTR_variant,,ENST00000590361,;ZNF461,3_prime_UTR_variant,,ENST00000588844,;ZNF461,3_prime_UTR_variant,,ENST00000396893,;ZNF461,downstream_gene_variant,,ENST00000592496,;	G	ENSG00000197808	ENST00000588268	Transcript	missense_variant	441	213	71	E/D	gaG/gaC	.	.	.	-1	ZNF461	HGNC	21629	protein_coding	YES	CCDS54257.1	ENSP00000467931	ZN461_HUMAN	K7EJM1_HUMAN,K7EIW1_HUMAN	UPI00002021CA	.	tolerated(0.6)	benign(0.007)	4/6	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24377:SF277,hmmpanther:PTHR24377	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTGTCTCTTC	.	2	BLCA
ZNF345	0	.	GRCh37	19	37368673	37368673	+	Missense_Mutation	SNP	A	A	G	rs770709729	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.941A>G	p.Tyr314Cys	p.Y314C	ENST00000529555	2/2	80	62	17	85	85	0	ZNF345,missense_variant,p.Tyr314Cys,ENST00000589046,;ZNF345,missense_variant,p.Tyr314Cys,ENST00000529555,;ZNF345,missense_variant,p.Tyr314Cys,ENST00000420450,;ZNF345,intron_variant,,ENST00000526123,;ZNF345,intron_variant,,ENST00000586933,;ZNF345,downstream_gene_variant,,ENST00000585396,;ZNF345,downstream_gene_variant,,ENST00000331800,;ZNF345,downstream_gene_variant,,ENST00000532141,;ZNF345,downstream_gene_variant,,ENST00000586646,;ZNF345,intron_variant,,ENST00000525851,;ZNF345,intron_variant,,ENST00000432005,;ZNF345,intron_variant,,ENST00000534729,;ZNF345,intron_variant,,ENST00000529989,;	G	ENSG00000251247	ENST00000529555	Transcript	missense_variant	1729	941	314	Y/C	tAt/tGt	rs770709729	.	.	1	ZNF345	HGNC	16367	protein_coding	YES	CCDS12497.1	ENSP00000431202	ZN345_HUMAN	K7EM63_HUMAN,K7EKZ8_HUMAN,F8W8R5_HUMAN,E9PLT7_HUMAN,B7Z4L5_HUMAN	UPI000013C364	.	deleterious(0)	probably_damaging(0.983)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF283,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTATGAGT	.	5	BLCA
RYR1	0	.	GRCh37	19	38973746	38973746	+	Missense_Mutation	SNP	A	A	G	rs755755514	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4700A>G	p.Lys1567Arg	p.K1567R	ENST00000359596	32/106	49	43	6	33	33	0	RYR1,missense_variant,p.Lys1567Arg,ENST00000355481,;RYR1,missense_variant,p.Lys1567Arg,ENST00000360985,;RYR1,missense_variant,p.Lys1567Arg,ENST00000359596,;	G	ENSG00000196218	ENST00000359596	Transcript	missense_variant	4700	4700	1567	K/R	aAg/aGg	rs755755514	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	possibly_damaging(0.86)	32/106	.	PROSITE_profiles:PS50188,hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715,Pfam_domain:PF00622,SMART_domains:SM00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGGGAAGCAGA	.	2	BLCA
NCCRP1	0	.	GRCh37	19	39691042	39691042	+	Missense_Mutation	SNP	C	C	T	rs759181864	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.605C>T	p.Ala202Val	p.A202V	ENST00000339852	5/6	130	104	25	120	120	0	NCCRP1,missense_variant,p.Ala202Val,ENST00000339852,;SYCN,downstream_gene_variant,,ENST00000318438,;	T	ENSG00000188505	ENST00000339852	Transcript	missense_variant	627	605	202	A/V	gCg/gTg	rs759181864,COSM1393505	.	.	1	NCCRP1	HGNC	33739	protein_coding	YES	CCDS12529.1	ENSP00000342137	FBX50_HUMAN	.	UPI00001C0962	.	deleterious(0)	probably_damaging(0.983)	5/6	.	Superfamily_domains:SSF49785,Pfam_domain:PF04300,Gene3D:2.60.120.260,hmmpanther:PTHR12125,hmmpanther:PTHR12125:SF1,PROSITE_profiles:PS51114	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGCGGCCG	.	5	BLCA
ADCK4	0	.	GRCh37	19	41220456	41220456	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82G>C	p.Gly28Arg	p.G28R	ENST00000324464	2/15	55	38	16	59	59	0	ADCK4,missense_variant,p.Gly28Arg,ENST00000243583,;ADCK4,missense_variant,p.Gly28Arg,ENST00000600707,;ADCK4,missense_variant,p.Gly28Arg,ENST00000450541,;ADCK4,missense_variant,p.Gly28Arg,ENST00000594084,;ADCK4,missense_variant,p.Gly28Arg,ENST00000594720,;ADCK4,missense_variant,p.Gly28Arg,ENST00000594490,;ADCK4,missense_variant,p.Gly28Arg,ENST00000324464,;ADCK4,missense_variant,p.Gly28Arg,ENST00000601967,;ADCK4,missense_variant,p.Gly28Arg,ENST00000596357,;ADCK4,intron_variant,,ENST00000595254,;ADCK4,intron_variant,,ENST00000600080,;ITPKC,upstream_gene_variant,,ENST00000263370,;ADCK4,downstream_gene_variant,,ENST00000593723,;ADCK4,missense_variant,p.Gly28Arg,ENST00000599643,;ADCK4,missense_variant,p.Gly28Arg,ENST00000601304,;ADCK4,non_coding_transcript_exon_variant,,ENST00000601451,;ADCK4,intron_variant,,ENST00000596455,;ADCK4,intron_variant,,ENST00000593544,;	G	ENSG00000123815	ENST00000324464	Transcript	missense_variant	384	82	28	G/R	Ggg/Cgg	.	.	.	-1	ADCK4	HGNC	19041	protein_coding	YES	CCDS12562.1	ENSP00000315118	ADCK4_HUMAN	M0R3F7_HUMAN,M0R340_HUMAN,M0R307_HUMAN,M0R011_HUMAN,M0R001_HUMAN,M0QZZ2_HUMAN	UPI0000071B0F	.	tolerated_low_confidence(0.57)	benign(0.013)	2/15	.	hmmpanther:PTHR10566:SF22,hmmpanther:PTHR10566	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCCCAGGG	.	5	BLCA
TOMM40	0	.	GRCh37	19	45396118	45396118	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367A>C	p.Thr123Pro	p.T123P	ENST00000426677	3/9	28	22	5	24	24	0	TOMM40,missense_variant,p.Thr123Pro,ENST00000252487,;TOMM40,missense_variant,p.Thr123Pro,ENST00000589649,;TOMM40,missense_variant,p.Thr123Pro,ENST00000426677,;TOMM40,missense_variant,p.Thr123Pro,ENST00000405636,;TOMM40,missense_variant,p.Thr123Pro,ENST00000592434,;PVRL2,downstream_gene_variant,,ENST00000592018,;PVRL2,downstream_gene_variant,,ENST00000252483,;TOMM40,downstream_gene_variant,,ENST00000589253,;CTB-129P6.4,upstream_gene_variant,,ENST00000585408,;TOMM40,upstream_gene_variant,,ENST00000592041,;	C	ENSG00000130204	ENST00000426677	Transcript	missense_variant	547	367	123	T/P	Aca/Cca	.	.	.	1	TOMM40	HGNC	18001	protein_coding	YES	CCDS12646.1	ENSP00000410339	TOM40_HUMAN	K7EKG6_HUMAN,K7EJ57_HUMAN	UPI0000130CBB	.	tolerated(0.18)	benign(0.403)	3/9	.	hmmpanther:PTHR10802,hmmpanther:PTHR10802:SF1,Pfam_domain:PF01459,Gene3D:2.40.160.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	TCAGCACAATC	.	4	BLCA
ERCC2	0	.	GRCh37	19	45856034	45856034	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1872C>G	p.%3D	p.P624P	ENST00000391945	20/23	74	69	5	57	57	0	ERCC2,synonymous_variant,p.%3D,ENST00000391941,;ERCC2,synonymous_variant,p.%3D,ENST00000391944,;ERCC2,synonymous_variant,p.%3D,ENST00000391945,;KLC3,downstream_gene_variant,,ENST00000470402,;KLC3,downstream_gene_variant,,ENST00000589373,;KLC3,downstream_gene_variant,,ENST00000589837,;KLC3,downstream_gene_variant,,ENST00000391946,;KLC3,downstream_gene_variant,,ENST00000585434,;ERCC2,non_coding_transcript_exon_variant,,ENST00000588652,;ERCC2,non_coding_transcript_exon_variant,,ENST00000391942,;ERCC2,downstream_gene_variant,,ENST00000587376,;	C	ENSG00000104884	ENST00000391945	Transcript	synonymous_variant	1950	1872	624	P	ccC/ccG	.	.	.	-1	ERCC2	HGNC	3434	protein_coding	YES	CCDS33049.1	ENSP00000375809	ERCC2_HUMAN	K7EIT8_HUMAN,A8MX75_HUMAN	UPI0000139012	.	.	.	20/23	.	hmmpanther:PTHR11472:SF1,hmmpanther:PTHR11472,Pfam_domain:PF13307,TIGRFAM_domain:TIGR00604,SMART_domains:SM00491,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	ACGTAGGGGAC	.	3	BLCA
ERCC2	0	.	GRCh37	19	45867687	45867687	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.713A>G	p.Asn238Ser	p.N238S	ENST00000391945	8/23	34	28	5	25	25	0	ERCC2,missense_variant,p.Asn214Ser,ENST00000391941,;ERCC2,missense_variant,p.Asn160Ser,ENST00000391944,;ERCC2,missense_variant,p.Asn214Ser,ENST00000586131,;ERCC2,missense_variant,p.Asn238Ser,ENST00000391945,;ERCC2,missense_variant,p.Asn214Ser,ENST00000391940,;ERCC2,missense_variant,p.Asn214Ser,ENST00000485403,;ERCC2,intron_variant,,ENST00000221481,;ERCC2,downstream_gene_variant,,ENST00000586856,;ERCC2,intron_variant,,ENST00000586441,;ERCC2,intron_variant,,ENST00000591309,;ERCC2,intron_variant,,ENST00000586737,;ERCC2,upstream_gene_variant,,ENST00000587376,;ERCC2,upstream_gene_variant,,ENST00000391942,;	C	ENSG00000104884	ENST00000391945	Transcript	missense_variant	791	713	238	N/S	aAc/aGc	COSM418170,COSM1750977	.	.	-1	ERCC2	HGNC	3434	protein_coding	YES	CCDS33049.1	ENSP00000375809	ERCC2_HUMAN	K7EIT8_HUMAN,A8MX75_HUMAN	UPI0000139012	.	deleterious(0)	probably_damaging(0.979)	8/23	.	PROSITE_profiles:PS51193,hmmpanther:PTHR11472:SF1,hmmpanther:PTHR11472,PROSITE_patterns:PS00690,Gene3D:3.40.50.300,Pfam_domain:PF06733,TIGRFAM_domain:TIGR00604,SMART_domains:SM00488,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.N238S|c.713A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATGTTGTGG	.	5	BLCA
RPL13A	0	.	GRCh37	19	49993925	49993925	+	Intron	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256+92A>G	.	.	ENST00000391857	.	50	47	3	36	36	0	RPL13A,intron_variant,,ENST00000467825,;RPL13A,intron_variant,,ENST00000391857,;FLT3LG,downstream_gene_variant,,ENST00000598555,;FLT3LG,downstream_gene_variant,,ENST00000600429,;FLT3LG,downstream_gene_variant,,ENST00000597551,;FLT3LG,downstream_gene_variant,,ENST00000204637,;FLT3LG,downstream_gene_variant,,ENST00000596435,;FLT3LG,downstream_gene_variant,,ENST00000594009,;SNORD33,non_coding_transcript_exon_variant,,ENST00000362761,;SNORD35A,upstream_gene_variant,,ENST00000363389,;SNORD34,upstream_gene_variant,,ENST00000365633,;SNORD32A,downstream_gene_variant,,ENST00000364805,;RPL13A,intron_variant,,ENST00000477613,;CTD-3148I10.15,downstream_gene_variant,,ENST00000595815,;RPL13A,non_coding_transcript_exon_variant,,ENST00000488946,;RPL13A,non_coding_transcript_exon_variant,,ENST00000476268,;RPL13A,non_coding_transcript_exon_variant,,ENST00000468655,;RPL13A,intron_variant,,ENST00000486930,;RPL13A,intron_variant,,ENST00000474171,;RPL13A,intron_variant,,ENST00000484279,;RPL13A,intron_variant,,ENST00000472481,;RPL13A,intron_variant,,ENST00000479992,;FLT3LG,downstream_gene_variant,,ENST00000600084,;FLT3LG,downstream_gene_variant,,ENST00000601800,;FLT3LG,downstream_gene_variant,,ENST00000598472,;RPL13A,upstream_gene_variant,,ENST00000476300,;CTD-3148I10.9,downstream_gene_variant,,ENST00000599536,;	G	ENSG00000142541	ENST00000391857	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RPL13A	HGNC	10304	protein_coding	YES	CCDS12768.1	ENSP00000375730	RL13A_HUMAN	Q9BSQ6_HUMAN,Q8J015_HUMAN	UPI000013D896	.	.	.	.	4/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAGATGACT	.	2	BLCA
PRKCG	0	.	GRCh37	19	54396620	54396620	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.914G>T	p.Cys305Phe	p.C305F	ENST00000263431	9/18	141	115	26	124	124	0	PRKCG,missense_variant,p.Cys192Phe,ENST00000542049,;PRKCG,missense_variant,p.Cys305Phe,ENST00000540413,;PRKCG,missense_variant,p.Val276Leu,ENST00000536044,;PRKCG,missense_variant,p.Cys305Phe,ENST00000263431,;PRKCG,downstream_gene_variant,,ENST00000419486,;PRKCG,downstream_gene_variant,,ENST00000474397,;PRKCG,downstream_gene_variant,,ENST00000479081,;	T	ENSG00000126583	ENST00000263431	Transcript	missense_variant	1196	914	305	C/F	tGt/tTt	.	.	.	1	PRKCG	HGNC	9402	protein_coding	YES	CCDS12867.1	ENSP00000263431	KPCG_HUMAN	M0R0Z4_HUMAN,M0R0I9_HUMAN,H7BZ60_HUMAN	UPI000000DC69	.	tolerated(0.31)	benign(0.03)	9/18	.	PIRSF_domain:PIRSF000550,hmmpanther:PTHR24357,hmmpanther:PTHR24357:SF64	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTTGTAACT	.	5	BLCA
CNOT3	0	.	GRCh37	19	54647986	54647986	+	Missense_Mutation	SNP	C	C	T	rs138688054	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401C>T	p.Thr134Met	p.T134M	ENST00000406403	6/17	35	32	3	35	35	0	CNOT3,missense_variant,p.Thr55Met,ENST00000440571,;CNOT3,missense_variant,p.Thr134Met,ENST00000406403,;CNOT3,missense_variant,p.Thr134Met,ENST00000221232,;CNOT3,5_prime_UTR_variant,,ENST00000358389,;CNOT3,missense_variant,p.Thr53Met,ENST00000447684,;CNOT3,non_coding_transcript_exon_variant,,ENST00000482247,;	T	ENSG00000088038	ENST00000406403	Transcript	missense_variant	2004	401	134	T/M	aCg/aTg	rs138688054	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	deleterious(0)	probably_damaging(0.991)	6/17	.	PIRSF_domain:PIRSF005290,Pfam_domain:PF04065,hmmpanther:PTHR23326,hmmpanther:PTHR23326:SF1,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	T:0.0005	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CGACACGCTCA	byFrequency|byCluster	2	BLCA
NLRP8	0	.	GRCh37	19	56466879	56466879	+	Silent	SNP	C	C	A	rs780563272	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1455C>A	p.%3D	p.T485T	ENST00000291971	3/10	138	110	28	118	118	0	NLRP8,synonymous_variant,p.%3D,ENST00000590542,;NLRP8,synonymous_variant,p.%3D,ENST00000291971,;	A	ENSG00000179709	ENST00000291971	Transcript	synonymous_variant	1526	1455	485	T	acC/acA	rs780563272,COSM3673025	.	.	1	NLRP8	HGNC	22940	protein_coding	YES	CCDS12937.1	ENSP00000291971	NALP8_HUMAN	.	UPI00001BB3C9	.	.	.	3/10	.	hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF11	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCACCGCCTT	.	5	BLCA
ZNF416	0	.	GRCh37	19	58083387	58083387	+	3'UTR	SNP	C	C	T	rs779120147	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*100G>A	.	.	ENST00000196489	4/4	68	61	7	50	50	0	ZNF416,3_prime_UTR_variant,,ENST00000196489,;	T	ENSG00000083817	ENST00000196489	Transcript	3_prime_UTR_variant	2108	.	.	.	.	rs779120147	.	.	-1	ZNF416	HGNC	20645	protein_coding	YES	CCDS12954.1	ENSP00000196489	ZN416_HUMAN	.	UPI000007314D	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCAGACGGCTC	.	3	BLCA
KHSRP	0	.	GRCh37	19	6418756	6418756	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737G>T	p.Gly246Val	p.G246V	ENST00000398148	8/20	59	50	8	62	62	0	KHSRP,missense_variant,p.Gly165Val,ENST00000599395,;KHSRP,missense_variant,p.Gly102Val,ENST00000595548,;KHSRP,missense_variant,p.Gly102Val,ENST00000595258,;KHSRP,missense_variant,p.Gly246Val,ENST00000398148,;KHSRP,upstream_gene_variant,,ENST00000600480,;KHSRP,upstream_gene_variant,,ENST00000594496,;KHSRP,upstream_gene_variant,,ENST00000597656,;KHSRP,upstream_gene_variant,,ENST00000594745,;KHSRP,upstream_gene_variant,,ENST00000595223,;MIR3940,upstream_gene_variant,,ENST00000579148,;KHSRP,non_coding_transcript_exon_variant,,ENST00000595112,;KHSRP,downstream_gene_variant,,ENST00000597704,;KHSRP,upstream_gene_variant,,ENST00000599642,;	A	ENSG00000088247	ENST00000398148	Transcript	missense_variant	830	737	246	G/V	gGc/gTc	.	.	.	-1	KHSRP	HGNC	6316	protein_coding	YES	CCDS45936.1	ENSP00000381216	FUBP2_HUMAN	M0QYH3_HUMAN,M0QXW7_HUMAN	UPI000049DE96	.	deleterious(0)	probably_damaging(0.996)	8/20	.	PROSITE_profiles:PS50084,hmmpanther:PTHR10288,hmmpanther:PTHR10288:SF101,Pfam_domain:PF00013,Gene3D:3.30.1370.10,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGGCCGGCC	.	4	BLCA
EXTL2	0	.	GRCh37	1	101339469	101339469	+	3'UTR	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29A>G	.	.	ENST00000370114	5/5	53	45	8	36	36	0	EXTL2,3_prime_UTR_variant,,ENST00000535414,;EXTL2,3_prime_UTR_variant,,ENST00000370113,;EXTL2,3_prime_UTR_variant,,ENST00000370114,;EXTL2,downstream_gene_variant,,ENST00000416479,;EXTL2,downstream_gene_variant,,ENST00000450240,;	C	ENSG00000162694	ENST00000370114	Transcript	3_prime_UTR_variant	2459	.	.	.	.	.	.	.	-1	EXTL2	HGNC	3516	protein_coding	YES	CCDS775.1	ENSP00000359132	EXTL2_HUMAN	Q8N8F1_HUMAN,O00245_HUMAN,F5GZK1_HUMAN,C9IYF5_HUMAN	UPI000012A35B	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGTTTTCAG	.	2	BLCA
SORT1	0	.	GRCh37	1	109888389	109888389	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.947C>A	p.Ser316Tyr	p.S316Y	ENST00000256637	8/20	125	120	5	115	115	0	SORT1,missense_variant,p.Ser179Tyr,ENST00000538502,;SORT1,missense_variant,p.Ser316Tyr,ENST00000256637,;	T	ENSG00000134243	ENST00000256637	Transcript	missense_variant	1006	947	316	S/Y	tCt/tAt	.	.	.	-1	SORT1	HGNC	11186	protein_coding	YES	CCDS798.1	ENSP00000256637	SORT_HUMAN	.	UPI0000074182	.	deleterious(0)	probably_damaging(0.953)	8/20	.	hmmpanther:PTHR12106:SF23,hmmpanther:PTHR12106,Gene3D:2.130.10.140,SMART_domains:SM00602,Superfamily_domains:SSF110296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCACAGAGGCA	.	2	BLCA
PTGFRN	0	.	GRCh37	1	117504133	117504134	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1483dupA	p.Thr495AsnfsTer46	p.T495Nfs*46	ENST00000393203	5/9	107	89	18	57	57	0	PTGFRN,frameshift_variant,p.Thr495AsnfsTer46,ENST00000393203,;RNA5SP55,downstream_gene_variant,,ENST00000516701,;	A	ENSG00000134247	ENST00000393203	Transcript	frameshift_variant	1629-1630	1482-1483	494-495	-/X	-/A	.	.	.	1	PTGFRN	HGNC	9601	protein_coding	YES	CCDS890.1	ENSP00000376899	FPRP_HUMAN	Q9H3U3_HUMAN	UPI000012ABC4	.	.	.	5/9	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00406,Gene3D:2.60.40.10,Pfam_domain:PF13895,hmmpanther:PTHR12207:SF3,hmmpanther:PTHR12207,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAACATACAGA	.	3	BLCA
VPS13D	0	.	GRCh37	1	12378315	12378315	+	Silent	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7335G>T	p.%3D	p.V2445V	ENST00000358136	31/70	96	76	20	77	77	0	VPS13D,synonymous_variant,p.%3D,ENST00000358136,;VPS13D,synonymous_variant,p.%3D,ENST00000011700,;VPS13D,synonymous_variant,p.%3D,ENST00000356315,;VPS13D,non_coding_transcript_exon_variant,,ENST00000460333,;VPS13D,non_coding_transcript_exon_variant,,ENST00000487188,;	T	ENSG00000048707	ENST00000358136	Transcript	synonymous_variant	7465	7335	2445	V	gtG/gtT	.	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	.	31/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGTGAAGAG	.	5	BLCA
RPRD2	0	.	GRCh37	1	150443138	150443138	+	Missense_Mutation	SNP	A	A	G	rs777781351	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1714A>G	p.Thr572Ala	p.T572A	ENST00000369068	11/11	32	27	5	38	38	0	RPRD2,missense_variant,p.Thr572Ala,ENST00000369068,;RPRD2,missense_variant,p.Thr546Ala,ENST00000539519,;RPRD2,missense_variant,p.Thr546Ala,ENST00000401000,;RPRD2,non_coding_transcript_exon_variant,,ENST00000492220,;	G	ENSG00000163125	ENST00000369068	Transcript	missense_variant	1718	1714	572	T/A	Acc/Gcc	rs777781351	.	.	1	RPRD2	HGNC	29039	protein_coding	YES	CCDS44216.1	ENSP00000358064	RPRD2_HUMAN	.	UPI00001D7CA8	.	tolerated_low_confidence(0.47)	benign(0)	11/11	.	hmmpanther:PTHR12460,hmmpanther:PTHR12460:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTACCATA	.	4	BLCA
TARS2	0	.	GRCh37	1	150463184	150463184	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495C>A	p.Phe165Leu	p.F165L	ENST00000369064	4/18	112	92	20	87	87	0	TARS2,missense_variant,p.Phe165Leu,ENST00000369054,;TARS2,missense_variant,p.Phe165Leu,ENST00000369064,;TARS2,missense_variant,p.Phe165Leu,ENST00000606933,;TARS2,intron_variant,,ENST00000438568,;TARS2,upstream_gene_variant,,ENST00000463555,;TARS2,upstream_gene_variant,,ENST00000480070,;TARS2,missense_variant,p.Ser108Tyr,ENST00000369051,;TARS2,intron_variant,,ENST00000467982,;TARS2,intron_variant,,ENST00000466989,;TARS2,downstream_gene_variant,,ENST00000369053,;TARS2,downstream_gene_variant,,ENST00000479372,;TARS2,upstream_gene_variant,,ENST00000462578,;TARS2,upstream_gene_variant,,ENST00000460794,;	A	ENSG00000143374	ENST00000369064	Transcript	missense_variant	529	495	165	F/L	ttC/ttA	COSM1333816,COSM177632	.	.	1	TARS2	HGNC	30740	protein_coding	YES	CCDS952.1	ENSP00000358060	SYTM_HUMAN	Q9H045_HUMAN	UPI00000492D1	.	deleterious(0.02)	benign(0.058)	4/18	.	HAMAP:MF_00184,hmmpanther:PTHR11451:SF13,hmmpanther:PTHR11451,TIGRFAM_domain:TIGR00418,Gene3D:1tkeA02,Superfamily_domains:SSF55186	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTTCTTCCT	.	5	BLCA
ARNT	0	.	GRCh37	1	150789620	150789620	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1637A>G	p.Asp546Gly	p.D546G	ENST00000358595	17/22	56	42	14	52	52	0	ARNT,missense_variant,p.Asp546Gly,ENST00000358595,;ARNT,missense_variant,p.Asp546Gly,ENST00000354396,;ARNT,missense_variant,p.Asp531Gly,ENST00000505755,;ARNT,missense_variant,p.Asp532Gly,ENST00000515192,;RNU6-1309P,upstream_gene_variant,,ENST00000363305,;ARNT,intron_variant,,ENST00000471844,;ARNT,downstream_gene_variant,,ENST00000510273,;	C	ENSG00000143437	ENST00000358595	Transcript	missense_variant	1838	1637	546	D/G	gAt/gGt	.	.	.	-1	ARNT	HGNC	700	protein_coding	YES	CCDS970.1	ENSP00000351407	ARNT_HUMAN	.	UPI0000030984	.	tolerated(0.08)	benign(0.213)	17/22	.	hmmpanther:PTHR23042,hmmpanther:PTHR23042:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCATCTGAC	.	5	BLCA
TTC24	0	.	GRCh37	1	156553130	156553130	+	Missense_Mutation	SNP	G	G	A	rs371865118	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1040G>A	p.Gly347Glu	p.G347E	ENST00000368236	5/11	17	11	6	12	12	0	TTC24,missense_variant,p.Gly347Glu,ENST00000368236,;TTC24,missense_variant,p.Gly347Glu,ENST00000368237,;AL365181.1,downstream_gene_variant,,ENST00000581084,;TTC24,intron_variant,,ENST00000413282,;TTC24,intron_variant,,ENST00000495690,;TTC24,intron_variant,,ENST00000478081,;TTC24,upstream_gene_variant,,ENST00000462049,;	A	ENSG00000187862	ENST00000368236	Transcript	missense_variant	1076	1040	347	G/E	gGg/gAg	rs371865118	.	.	1	TTC24	HGNC	32348	protein_coding	YES	CCDS53379.1	ENSP00000357219	TTC24_HUMAN	.	UPI0000418EC1	.	deleterious(0.01)	probably_damaging(0.993)	5/11	.	Superfamily_domains:SSF48452,Pfam_domain:PF13424,Gene3D:1.25.40.10,hmmpanther:PTHR10098,hmmpanther:PTHR10098:SF98,PROSITE_profiles:PS50293	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAGGGGACA	byFrequency|byCluster	5	BLCA
CD1D	0	.	GRCh37	1	158152732	158152732	+	Nonsense_Mutation	SNP	C	C	A	rs765167318	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.672C>A	p.Cys224Ter	p.C224*	ENST00000368171	5/7	126	97	28	89	89	0	CD1D,stop_gained,p.Cys224Ter,ENST00000368171,;	A	ENSG00000158473	ENST00000368171	Transcript	stop_gained	1171	672	224	C/*	tgC/tgA	rs765167318	.	.	1	CD1D	HGNC	1637	protein_coding	YES	CCDS1173.1	ENSP00000357153	CD1D_HUMAN	.	UPI00000012B1	.	.	.	5/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF146,Pfam_domain:PF07654,Gene3D:2.60.40.10,SMART_domains:SM00407,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTGCCATGT	.	5	BLCA
ADAMTS4	0	.	GRCh37	1	161166023	161166023	+	Missense_Mutation	SNP	C	C	G	rs372130629	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1028G>C	p.Arg343Pro	p.R343P	ENST00000367996	3/9	47	37	10	52	52	0	ADAMTS4,missense_variant,p.Arg343Pro,ENST00000367996,;ADAMTS4,3_prime_UTR_variant,,ENST00000367995,;NDUFS2,upstream_gene_variant,,ENST00000367993,;NDUFS2,upstream_gene_variant,,ENST00000496133,;ADAMTS4,upstream_gene_variant,,ENST00000478394,;NDUFS2,upstream_gene_variant,,ENST00000479948,;	G	ENSG00000158859	ENST00000367996	Transcript	missense_variant	1457	1028	343	R/P	cGg/cCg	rs372130629,COSM898518,COSM1151885	.	.	-1	ADAMTS4	HGNC	220	protein_coding	YES	CCDS1223.1	ENSP00000356975	ATS4_HUMAN	.	UPI000014194C	.	deleterious(0)	probably_damaging(1)	3/9	.	PROSITE_profiles:PS50215,hmmpanther:PTHR13723:SF38,hmmpanther:PTHR13723,Gene3D:3.40.390.10,Pfam_domain:PF01421,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	T:0.0005	T:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTCCGAGCC	byFrequency|byCluster	5	BLCA
DUSP27	0	.	GRCh37	1	167096885	167096885	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2517G>A	p.%3D	p.K839K	ENST00000361200	6/6	61	50	11	60	60	0	DUSP27,synonymous_variant,p.%3D,ENST00000361200,;DUSP27,synonymous_variant,p.%3D,ENST00000443333,;DUSP27,synonymous_variant,p.%3D,ENST00000271385,;DUSP27,intron_variant,,ENST00000485151,;	A	ENSG00000198842	ENST00000361200	Transcript	synonymous_variant	2683	2517	839	K	aaG/aaA	.	.	.	1	DUSP27	HGNC	25034	protein_coding	YES	CCDS30932.1	ENSP00000354483	DUS27_HUMAN	.	UPI000040DFF5	.	.	.	6/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10159:SF25,hmmpanther:PTHR10159	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGAAGGAGAA	.	5	BLCA
NPL	0	.	GRCh37	1	182781338	182781338	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278C>T	p.Ser93Leu	p.S93L	ENST00000367553	5/12	42	31	11	26	26	0	NPL,missense_variant,p.Ser93Leu,ENST00000367552,;NPL,missense_variant,p.Ser93Leu,ENST00000367555,;NPL,missense_variant,p.Ser93Leu,ENST00000258317,;NPL,missense_variant,p.Ser74Leu,ENST00000367554,;NPL,missense_variant,p.Ser93Leu,ENST00000367553,;NPL,downstream_gene_variant,,ENST00000367550,;NPL,non_coding_transcript_exon_variant,,ENST00000463899,;NPL,non_coding_transcript_exon_variant,,ENST00000479721,;NPL,non_coding_transcript_exon_variant,,ENST00000488424,;NPL,downstream_gene_variant,,ENST00000460690,;	T	ENSG00000135838	ENST00000367553	Transcript	missense_variant	322	278	93	S/L	tCa/tTa	.	.	.	1	NPL	HGNC	16781	protein_coding	YES	CCDS1350.1	ENSP00000356524	NPL_HUMAN	.	UPI00000728AB	.	deleterious(0)	possibly_damaging(0.685)	5/12	.	hmmpanther:PTHR12128:SF21,hmmpanther:PTHR12128,Pfam_domain:PF00701,Gene3D:3.20.20.70,PIRSF_domain:PIRSF001365,Superfamily_domains:SSF51569,Prints_domain:PR00146	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGTCACAGG	.	5	BLCA
PHLDA3	0	.	GRCh37	1	201437599	201437599	+	Nonsense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316A>T	p.Lys106Ter	p.K106*	ENST00000367311	1/2	102	81	21	75	75	0	PHLDA3,stop_gained,p.Lys106Ter,ENST00000367309,;PHLDA3,stop_gained,p.Lys106Ter,ENST00000367311,;RP11-134G8.8,upstream_gene_variant,,ENST00000430471,;PHLDA3,non_coding_transcript_exon_variant,,ENST00000485436,;PHLDA3,upstream_gene_variant,,ENST00000497057,;	A	ENSG00000174307	ENST00000367311	Transcript	stop_gained	714	316	106	K/*	Aag/Tag	.	.	.	-1	PHLDA3	HGNC	8934	protein_coding	YES	CCDS1412.1	ENSP00000356280	PHLA3_HUMAN	.	UPI00000716DA	.	.	.	1/2	.	hmmpanther:PTHR15478	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTTGAACT	.	5	BLCA
SLC26A9	0	.	GRCh37	1	205902136	205902136	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202A>G	p.Lys68Glu	p.K68E	ENST00000367134	3/22	37	30	7	32	32	0	SLC26A9,missense_variant,p.Lys68Glu,ENST00000367135,;SLC26A9,missense_variant,p.Lys68Glu,ENST00000340781,;SLC26A9,missense_variant,p.Lys68Glu,ENST00000367134,;RP4-681L3.2,upstream_gene_variant,,ENST00000421166,;SLC26A9,upstream_gene_variant,,ENST00000491127,;SLC26A9,upstream_gene_variant,,ENST00000469392,;	C	ENSG00000174502	ENST00000367134	Transcript	missense_variant	316	202	68	K/E	Aaa/Gaa	.	.	.	-1	SLC26A9	HGNC	14469	protein_coding	YES	CCDS30989.1	ENSP00000356102	.	B1AVM8_HUMAN	UPI000013DF98	.	deleterious(0)	probably_damaging(0.994)	3/22	.	hmmpanther:PTHR11814:SF17,hmmpanther:PTHR11814,Pfam_domain:PF13792,TIGRFAM_domain:TIGR00815	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTTAATCT	.	5	BLCA
NBPF3	0	.	GRCh37	1	21804683	21804683	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039G>A	p.Asp347Asn	p.D347N	ENST00000318249	9/15	242	183	58	180	180	0	NBPF3,missense_variant,p.Asp291Asn,ENST00000434838,;NBPF3,missense_variant,p.Asp347Asn,ENST00000318249,;NBPF3,missense_variant,p.Asp291Asn,ENST00000318220,;NBPF3,missense_variant,p.Asp372Asn,ENST00000342104,;NBPF3,missense_variant,p.Asp277Asn,ENST00000454000,;NBPF3,non_coding_transcript_exon_variant,,ENST00000469876,;NBPF3,non_coding_transcript_exon_variant,,ENST00000477050,;	A	ENSG00000142794	ENST00000318249	Transcript	missense_variant	1389	1039	347	D/N	Gat/Aat	.	.	.	1	NBPF3	HGNC	25076	protein_coding	YES	CCDS216.1	ENSP00000316782	NBPF3_HUMAN	.	UPI0000037D6C	.	deleterious(0.01)	probably_damaging(0.945)	9/15	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51316,hmmpanther:PTHR14199:SF15,hmmpanther:PTHR14199,Pfam_domain:PF06758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGGGATGAA	.	5	BLCA
TP53BP2	0	.	GRCh37	1	223990351	223990351	+	Intron	SNP	A	A	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.996+82T>G	.	.	ENST00000343537	.	59	45	14	45	45	0	TP53BP2,intron_variant,,ENST00000391878,;TP53BP2,intron_variant,,ENST00000343537,;TP53BP2,intron_variant,,ENST00000494100,;TP53BP2,upstream_gene_variant,,ENST00000391879,;TP53BP2,non_coding_transcript_exon_variant,,ENST00000498843,;TP53BP2,intron_variant,,ENST00000489310,;TP53BP2,intron_variant,,ENST00000481128,;TP53BP2,downstream_gene_variant,,ENST00000496282,;TP53BP2,downstream_gene_variant,,ENST00000473135,;TP53BP2,non_coding_transcript_exon_variant,,ENST00000490896,;TP53BP2,intron_variant,,ENST00000464172,;TP53BP2,upstream_gene_variant,,ENST00000483398,;TP53BP2,upstream_gene_variant,,ENST00000464656,;	C	ENSG00000143514	ENST00000343537	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	TP53BP2	HGNC	12000	protein_coding	YES	CCDS44319.1	ENSP00000341957	ASPP2_HUMAN	B7Z2E9_HUMAN,B4DI25_HUMAN,B4DH76_HUMAN	UPI0000D4B5F2	.	.	.	.	8/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGAAGAAG	.	5	BLCA
WDR26	0	.	GRCh37	1	224577491	224577491	+	3'UTR	SNP	C	C	A	rs373648084	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46G>T	.	.	ENST00000414423	14/14	37	33	4	15	15	0	WDR26,3_prime_UTR_variant,,ENST00000414423,;WDR26,3_prime_UTR_variant,,ENST00000366852,;WDR26,3_prime_UTR_variant,,ENST00000295024,;WDR26,intron_variant,,ENST00000480676,;WDR26,3_prime_UTR_variant,,ENST00000486652,;	A	ENSG00000162923	ENST00000414423	Transcript	3_prime_UTR_variant	2226	.	.	.	.	rs373648084	.	.	-1	WDR26	HGNC	21208	protein_coding	YES	CCDS31037.2	ENSP00000408108	WDR26_HUMAN	C9JCS7_HUMAN	UPI0000203FB7	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AAATACGACTA	.	2	BLCA
SIPA1L2	0	.	GRCh37	1	232601013	232601013	+	Missense_Mutation	SNP	C	C	A	rs746362891	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2393G>T	p.Arg798Leu	p.R798L	ENST00000366630	8/22	140	110	29	94	94	0	SIPA1L2,missense_variant,p.Arg798Leu,ENST00000366630,;SIPA1L2,missense_variant,p.Arg798Leu,ENST00000262861,;SIPA1L2,upstream_gene_variant,,ENST00000308942,;	A	ENSG00000116991	ENST00000366630	Transcript	missense_variant	2752	2393	798	R/L	cGa/cTa	rs746362891	.	.	-1	SIPA1L2	HGNC	23800	protein_coding	YES	CCDS41474.1	ENSP00000355589	SI1L2_HUMAN	.	UPI00001D7D6A	.	tolerated(0.06)	probably_damaging(0.953)	8/22	.	Superfamily_domains:0043732,Pfam_domain:PF02145,hmmpanther:PTHR15711:SF7,hmmpanther:PTHR15711,PROSITE_profiles:PS50085	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCTCGAAAC	byFrequency|byCluster	5	BLCA
TPRG1L	0	.	GRCh37	1	3544188	3544188	+	Missense_Mutation	SNP	G	G	A	rs767432752	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595G>A	p.Ala199Thr	p.A199T	ENST00000378344	4/5	154	122	32	114	114	0	TPRG1L,missense_variant,p.Ala140Thr,ENST00000344579,;TPRG1L,missense_variant,p.Ala199Thr,ENST00000378344,;WRAP73,downstream_gene_variant,,ENST00000270708,;WRAP73,downstream_gene_variant,,ENST00000378322,;WRAP73,downstream_gene_variant,,ENST00000424367,;RP11-46F15.2,upstream_gene_variant,,ENST00000435049,;WRAP73,downstream_gene_variant,,ENST00000471223,;	A	ENSG00000158109	ENST00000378344	Transcript	missense_variant	666	595	199	A/T	Gca/Aca	rs767432752	.	.	1	TPRG1L	HGNC	27007	protein_coding	YES	CCDS47.1	ENSP00000367595	TPRGL_HUMAN	.	UPI000014067B	.	tolerated(0.55)	benign(0.027)	4/5	.	hmmpanther:PTHR31108:SF3,hmmpanther:PTHR31108	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGCGCAGAT	.	5	BLCA
SFPQ	0	.	GRCh37	1	35656103	35656103	+	Nonsense_Mutation	SNP	G	G	A	rs748450120	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411C>T	p.Gln471Ter	p.Q471*	ENST00000357214	4/10	39	35	4	37	37	0	SFPQ,stop_gained,p.Gln471Ter,ENST00000357214,;SFPQ,stop_gained,p.Gln25Ter,ENST00000470472,;SFPQ,upstream_gene_variant,,ENST00000460428,;	A	ENSG00000116560	ENST00000357214	Transcript	stop_gained	1510	1411	471	Q/*	Caa/Taa	rs748450120,COSM1296340	.	.	-1	SFPQ	HGNC	10774	protein_coding	YES	CCDS388.1	ENSP00000349748	SFPQ_HUMAN	Q9BSV4_HUMAN	UPI00001358B9	.	.	.	4/10	.	hmmpanther:PTHR23189,hmmpanther:PTHR23189:SF42,Pfam_domain:PF08075	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTTTGATACA	.	3	BLCA
C1orf109	0	.	GRCh37	1	38149079	38149079	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486T>C	p.%3D	p.S162S	ENST00000358011	4/5	88	70	17	80	80	0	C1orf109,synonymous_variant,p.%3D,ENST00000491981,;C1orf109,synonymous_variant,p.%3D,ENST00000464085,;C1orf109,synonymous_variant,p.%3D,ENST00000358011,;C1orf109,downstream_gene_variant,,ENST00000486637,;C1orf109,downstream_gene_variant,,ENST00000477060,;C1orf109,downstream_gene_variant,,ENST00000461359,;C1orf109,non_coding_transcript_exon_variant,,ENST00000464178,;C1orf109,non_coding_transcript_exon_variant,,ENST00000609516,;C1orf109,3_prime_UTR_variant,,ENST00000494120,;	G	ENSG00000116922	ENST00000358011	Transcript	synonymous_variant	676	486	162	S	tcT/tcC	.	.	.	-1	C1orf109	HGNC	26039	protein_coding	YES	CCDS423.1	ENSP00000350704	CA109_HUMAN	B7Z9X8_HUMAN,B4DRQ5_HUMAN	UPI00000736AB	.	.	.	4/5	.	hmmpanther:PTHR16234:SF4,hmmpanther:PTHR16234,Pfam_domain:PF15011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATAGACGA	.	5	BLCA
OSBPL9	0	.	GRCh37	1	52238337	52238338	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1143dupC	p.Lys382GlnfsTer12	p.K382Qfs*12	ENST00000447887	14/24	141	121	20	97	97	0	OSBPL9,frameshift_variant,p.Lys372GlnfsTer12,ENST00000428468,;OSBPL9,frameshift_variant,p.Lys390GlnfsTer12,ENST00000371710,;OSBPL9,frameshift_variant,p.Lys382GlnfsTer12,ENST00000447887,;OSBPL9,frameshift_variant,p.Lys194GlnfsTer12,ENST00000486942,;OSBPL9,frameshift_variant,p.Lys377GlnfsTer12,ENST00000337809,;OSBPL9,frameshift_variant,p.Lys207GlnfsTer12,ENST00000435686,;OSBPL9,frameshift_variant,p.Lys359GlnfsTer12,ENST00000371714,;OSBPL9,frameshift_variant,p.Lys262GlnfsTer12,ENST00000361556,;OSBPL9,frameshift_variant,p.Lys291GlnfsTer12,ENST00000530544,;OSBPL9,frameshift_variant,p.Lys207GlnfsTer12,ENST00000531828,;OSBPL9,frameshift_variant,p.Lys355GlnfsTer12,ENST00000453295,;OSBPL9,frameshift_variant,p.Lys194GlnfsTer12,ENST00000462759,;OSBPL9,non_coding_transcript_exon_variant,,ENST00000533825,;OSBPL9,3_prime_UTR_variant,,ENST00000528603,;OSBPL9,3_prime_UTR_variant,,ENST00000531061,;OSBPL9,3_prime_UTR_variant,,ENST00000495776,;OSBPL9,3_prime_UTR_variant,,ENST00000489990,;OSBPL9,3_prime_UTR_variant,,ENST00000435274,;OSBPL9,non_coding_transcript_exon_variant,,ENST00000531819,;OSBPL9,non_coding_transcript_exon_variant,,ENST00000475697,;	C	ENSG00000117859	ENST00000447887	Transcript	frameshift_variant	1161-1162	1142-1143	381	H/HX	cac/caCc	.	.	.	1	OSBPL9	HGNC	16386	protein_coding	YES	CCDS44145.1	ENSP00000412733	OSBL9_HUMAN	Q9BRN2_HUMAN,E9PNR1_HUMAN,B3KW33_HUMAN	UPI0000167BAD	.	.	.	14/24	.	hmmpanther:PTHR10972:SF27,hmmpanther:PTHR10972,Superfamily_domains:0051579	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGAGCACAAGA	.	3	BLCA
MRPL37	0	.	GRCh37	1	54675780	54675780	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808A>G	p.Ile270Val	p.I270V	ENST00000360840	4/7	104	82	21	95	95	0	MRPL37,missense_variant,p.Ile270Val,ENST00000360840,;MRPL37,missense_variant,p.Ile139Val,ENST00000336230,;MRPL37,missense_variant,p.Ile55Val,ENST00000398219,;MRPL37,missense_variant,p.Ile270Val,ENST00000605337,;MRPL37,non_coding_transcript_exon_variant,,ENST00000487096,;MRPL37,non_coding_transcript_exon_variant,,ENST00000490670,;	G	ENSG00000116221	ENST00000360840	Transcript	missense_variant	885	808	270	I/V	Att/Gtt	.	.	.	1	MRPL37	HGNC	14034	protein_coding	YES	CCDS589.1	ENSP00000354086	RM37_HUMAN	.	UPI000006CF76	.	tolerated(1)	benign(0.001)	4/7	.	hmmpanther:PTHR15889,hmmpanther:PTHR15889:SF1,Pfam_domain:PF07147	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAATATTTAT	.	5	BLCA
LRRC7	0	.	GRCh37	1	70504634	70504634	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3013G>T	p.Asp1005Tyr	p.D1005Y	ENST00000035383	19/25	40	30	10	29	29	0	LRRC7,missense_variant,p.Asp289Tyr,ENST00000415775,;LRRC7,missense_variant,p.Asp1005Tyr,ENST00000035383,;LRRC7,missense_variant,p.Asp1010Tyr,ENST00000310961,;	T	ENSG00000033122	ENST00000035383	Transcript	missense_variant	3043	3013	1005	D/Y	Gat/Tat	.	.	.	1	LRRC7	HGNC	18531	protein_coding	YES	CCDS645.1	ENSP00000035383	LRRC7_HUMAN	.	UPI000006F29B	.	deleterious(0)	probably_damaging(0.999)	19/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGGATGATGAG	.	4	BLCA
SRSF11	0	.	GRCh37	1	70687340	70687340	+	Silent	SNP	C	C	T	rs781582113	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21C>T	p.%3D	p.V7V	ENST00000370950	2/13	113	97	15	98	98	0	SRSF11,synonymous_variant,p.%3D,ENST00000454435,;SRSF11,synonymous_variant,p.%3D,ENST00000405432,;SRSF11,synonymous_variant,p.%3D,ENST00000370951,;SRSF11,synonymous_variant,p.%3D,ENST00000436161,;SRSF11,synonymous_variant,p.%3D,ENST00000370950,;SRSF11,synonymous_variant,p.%3D,ENST00000395136,;RP4-677H15.4,upstream_gene_variant,,ENST00000422107,;SRSF11,non_coding_transcript_exon_variant,,ENST00000463877,;SRSF11,non_coding_transcript_exon_variant,,ENST00000469170,;SRSF11,upstream_gene_variant,,ENST00000486667,;SRSF11,synonymous_variant,p.%3D,ENST00000473950,;SRSF11,synonymous_variant,p.%3D,ENST00000475204,;	T	ENSG00000116754	ENST00000370950	Transcript	synonymous_variant	103	21	7	V	gtC/gtT	rs781582113	.	.	1	SRSF11	HGNC	10782	protein_coding	YES	CCDS647.1	ENSP00000359988	SRS11_HUMAN	Q6N079_HUMAN	UPI00001358C5	.	.	.	2/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTCGTCCCCAG	byFrequency	3	BLCA
SRSF11	0	.	GRCh37	1	70687345	70687345	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.26G>T	p.Ser9Ile	p.S9I	ENST00000370950	2/13	113	97	15	90	90	0	SRSF11,missense_variant,p.Ser9Ile,ENST00000454435,;SRSF11,missense_variant,p.Ser9Ile,ENST00000405432,;SRSF11,missense_variant,p.Ser9Ile,ENST00000370951,;SRSF11,missense_variant,p.Ser9Ile,ENST00000436161,;SRSF11,missense_variant,p.Ser9Ile,ENST00000370950,;SRSF11,missense_variant,p.Ser9Ile,ENST00000395136,;RP4-677H15.4,upstream_gene_variant,,ENST00000422107,;SRSF11,non_coding_transcript_exon_variant,,ENST00000463877,;SRSF11,non_coding_transcript_exon_variant,,ENST00000469170,;SRSF11,upstream_gene_variant,,ENST00000486667,;SRSF11,missense_variant,p.Ser9Ile,ENST00000473950,;SRSF11,missense_variant,p.Ser9Ile,ENST00000475204,;	T	ENSG00000116754	ENST00000370950	Transcript	missense_variant	108	26	9	S/I	aGc/aTc	.	.	.	1	SRSF11	HGNC	10782	protein_coding	YES	CCDS647.1	ENSP00000359988	SRS11_HUMAN	Q6N079_HUMAN	UPI00001358C5	.	deleterious_low_confidence(0)	unknown(0)	2/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCCAGCACTG	.	3	BLCA
SRSF11	0	.	GRCh37	1	70687346	70687346	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27C>A	p.Ser9Arg	p.S9R	ENST00000370950	2/13	111	96	15	91	91	0	SRSF11,missense_variant,p.Ser9Arg,ENST00000454435,;SRSF11,missense_variant,p.Ser9Arg,ENST00000405432,;SRSF11,missense_variant,p.Ser9Arg,ENST00000370951,;SRSF11,missense_variant,p.Ser9Arg,ENST00000436161,;SRSF11,missense_variant,p.Ser9Arg,ENST00000370950,;SRSF11,missense_variant,p.Ser9Arg,ENST00000395136,;RP4-677H15.4,upstream_gene_variant,,ENST00000422107,;SRSF11,non_coding_transcript_exon_variant,,ENST00000463877,;SRSF11,non_coding_transcript_exon_variant,,ENST00000469170,;SRSF11,upstream_gene_variant,,ENST00000486667,;SRSF11,missense_variant,p.Ser9Arg,ENST00000473950,;SRSF11,missense_variant,p.Ser9Arg,ENST00000475204,;	A	ENSG00000116754	ENST00000370950	Transcript	missense_variant	109	27	9	S/R	agC/agA	.	.	.	1	SRSF11	HGNC	10782	protein_coding	YES	CCDS647.1	ENSP00000359988	SRS11_HUMAN	Q6N079_HUMAN	UPI00001358C5	.	deleterious_low_confidence(0)	unknown(0)	2/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCAGCACTGC	.	3	BLCA
TTLL7	0	.	GRCh37	1	84387031	84387031	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189C>T	p.Gln397Ter	p.Q397*	ENST00000260505	11/21	96	72	23	74	74	0	TTLL7,stop_gained,p.Gln397Ter,ENST00000260505,;TTLL7,non_coding_transcript_exon_variant,,ENST00000477524,;TTLL7,non_coding_transcript_exon_variant,,ENST00000472688,;TTLL7,non_coding_transcript_exon_variant,,ENST00000482783,;TTLL7,non_coding_transcript_exon_variant,,ENST00000488014,;TTLL7,stop_gained,p.Gln82Ter,ENST00000474957,;TTLL7,stop_gained,p.Gln281Ter,ENST00000485638,;TTLL7,stop_gained,p.Gln397Ter,ENST00000480174,;	A	ENSG00000137941	ENST00000260505	Transcript	stop_gained	1567	1189	397	Q/*	Caa/Taa	.	.	.	-1	TTLL7	HGNC	26242	protein_coding	YES	CCDS690.2	ENSP00000260505	TTLL7_HUMAN	.	UPI000020391D	.	.	.	11/21	.	hmmpanther:PTHR12241:SF11,hmmpanther:PTHR12241	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTGAGCCT	.	5	BLCA
ISM1	0	.	GRCh37	20	13269291	13269291	+	Missense_Mutation	SNP	G	G	A	rs373498255	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>A	p.Ala250Thr	p.A250T	ENST00000262487	4/6	76	63	13	63	62	1	ISM1,missense_variant,p.Ala250Thr,ENST00000262487,;TASP1,intron_variant,,ENST00000539805,;	A	ENSG00000101230	ENST00000262487	Transcript	missense_variant	754	748	250	A/T	Gca/Aca	rs373498255	.	.	1	ISM1	HGNC	16213	protein_coding	YES	CCDS46579.1	ENSP00000262487	ISM1_HUMAN	.	UPI00004A0D4C	.	deleterious(0.01)	possibly_damaging(0.73)	4/6	.	PROSITE_profiles:PS50092,hmmpanther:PTHR10199,Pfam_domain:PF00090,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACTGCAACA	.	4	BLCA
REM1	0	.	GRCh37	20	30070208	30070208	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.542G>A	p.Arg181His	p.R181H	ENST00000201979	4/5	58	46	12	30	30	0	REM1,missense_variant,p.Arg181His,ENST00000201979,;LINC00028,upstream_gene_variant,,ENST00000435497,;	A	ENSG00000088320	ENST00000201979	Transcript	missense_variant	835	542	181	R/H	cGc/cAc	COSM1223529	.	.	1	REM1	HGNC	15922	protein_coding	YES	CCDS13181.1	ENSP00000201979	REM1_HUMAN	.	UPI0000073CEB	.	deleterious(0)	possibly_damaging(0.761)	4/5	.	PROSITE_profiles:PS51421,hmmpanther:PTHR24070:SF216,hmmpanther:PTHR24070,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,Pfam_domain:PF00071,SMART_domains:SM00175,SMART_domains:SM00174,SMART_domains:SM00173,PIRSF_domain:PIRSF038017,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGCGCACAC	.	5	BLCA
EIF2S2	0	.	GRCh37	20	32677524	32677524	+	3'UTR	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12C>T	.	.	ENST00000374980	9/9	51	42	9	40	40	0	EIF2S2,3_prime_UTR_variant,,ENST00000374980,;RALY,intron_variant,,ENST00000489384,;	A	ENSG00000125977	ENST00000374980	Transcript	3_prime_UTR_variant	1236	.	.	.	.	.	.	.	-1	EIF2S2	HGNC	3266	protein_coding	YES	CCDS13231.1	ENSP00000364119	IF2B_HUMAN	Q96I16_HUMAN,Q6IBR8_HUMAN	UPI000012D28F	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCAGTGATT	.	5	BLCA
SLC32A1	0	.	GRCh37	20	37353264	37353264	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-104G>A	.	.	ENST00000217420	1/2	17	11	6	12	12	0	SLC32A1,5_prime_UTR_variant,,ENST00000217420,;	A	ENSG00000101438	ENST00000217420	Transcript	5_prime_UTR_variant	160	.	.	.	.	.	.	.	1	SLC32A1	HGNC	11018	protein_coding	YES	CCDS13307.1	ENSP00000217420	VIAAT_HUMAN	.	UPI0000043423	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGAGCAAGC	.	5	BLCA
OSER1	0	.	GRCh37	20	42826138	42826138	+	Missense_Mutation	SNP	C	C	T	rs750973244	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433G>A	p.Ala145Thr	p.A145T	ENST00000372970	6/6	114	92	22	69	69	0	OSER1,missense_variant,p.Ala145Thr,ENST00000372970,;OSER1,missense_variant,p.Ala145Thr,ENST00000255174,;	T	ENSG00000132823	ENST00000372970	Transcript	missense_variant	614	433	145	A/T	Gca/Aca	rs750973244	.	.	-1	OSER1	HGNC	16105	protein_coding	YES	CCDS13327.1	ENSP00000362061	OSER1_HUMAN	.	UPI000004A0E4	.	tolerated(0.23)	benign(0.11)	6/6	.	hmmpanther:PTHR31383,hmmpanther:PTHR31383:SF1,Pfam_domain:PF05604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTGCCCCTG	byFrequency	5	BLCA
OSER1	0	.	GRCh37	20	42826201	42826201	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370T>C	p.Ser124Pro	p.S124P	ENST00000372970	6/6	140	108	31	67	67	0	OSER1,missense_variant,p.Ser124Pro,ENST00000372970,;OSER1,missense_variant,p.Ser124Pro,ENST00000255174,;	G	ENSG00000132823	ENST00000372970	Transcript	missense_variant	551	370	124	S/P	Tca/Cca	.	.	.	-1	OSER1	HGNC	16105	protein_coding	YES	CCDS13327.1	ENSP00000362061	OSER1_HUMAN	.	UPI000004A0E4	.	tolerated(1)	benign(0.002)	6/6	.	hmmpanther:PTHR31383,hmmpanther:PTHR31383:SF1,Pfam_domain:PF05604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATGAAATTC	.	5	BLCA
WFDC8	0	.	GRCh37	20	44184453	44184453	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.332G>A	p.Trp111Ter	p.W111*	ENST00000357199	4/7	73	51	21	59	59	0	WFDC8,stop_gained,p.Trp111Ter,ENST00000357199,;WFDC8,stop_gained,p.Trp111Ter,ENST00000289953,;RNA5SP485,downstream_gene_variant,,ENST00000365053,;	T	ENSG00000158901	ENST00000357199	Transcript	stop_gained	411	332	111	W/*	tGg/tAg	COSM3939369	.	.	-1	WFDC8	HGNC	16163	protein_coding	YES	CCDS13361.1	ENSP00000361735	WFDC8_HUMAN	.	UPI000016059B	.	.	.	4/7	.	PROSITE_profiles:PS50279,hmmpanther:PTHR10083:SF169,hmmpanther:PTHR10083,Pfam_domain:PF00014,Gene3D:4.10.410.10,SMART_domains:SM00131,Superfamily_domains:SSF57362	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGCCAGCGC	.	5	BLCA
SLC35C2	0	.	GRCh37	20	44983600	44983600	+	Silent	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.582C>A	p.%3D	p.L194L	ENST00000372227	7/10	42	34	8	29	29	0	SLC35C2,missense_variant,p.Ser149Tyr,ENST00000420518,;SLC35C2,synonymous_variant,p.%3D,ENST00000543605,;SLC35C2,synonymous_variant,p.%3D,ENST00000372229,;SLC35C2,synonymous_variant,p.%3D,ENST00000372230,;SLC35C2,synonymous_variant,p.%3D,ENST00000317734,;SLC35C2,synonymous_variant,p.%3D,ENST00000243896,;SLC35C2,synonymous_variant,p.%3D,ENST00000372227,;SLC35C2,downstream_gene_variant,,ENST00000424568,;SLC35C2,non_coding_transcript_exon_variant,,ENST00000484318,;SLC35C2,non_coding_transcript_exon_variant,,ENST00000481809,;SLC35C2,non_coding_transcript_exon_variant,,ENST00000487729,;SLC35C2,non_coding_transcript_exon_variant,,ENST00000480329,;SLC35C2,downstream_gene_variant,,ENST00000484188,;SLC35C2,upstream_gene_variant,,ENST00000493599,;	T	ENSG00000080189	ENST00000372227	Transcript	synonymous_variant	1123	582	194	L	ctC/ctA	.	.	.	-1	SLC35C2	HGNC	17117	protein_coding	YES	CCDS13396.1	ENSP00000361301	S35C2_HUMAN	.	UPI00000015E5	.	.	.	7/10	.	hmmpanther:PTHR11132:SF32,hmmpanther:PTHR11132,Pfam_domain:PF03151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTGGAGGCC	.	2	BLCA
BHLHE23	0	.	GRCh37	20	61637572	61637572	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507C>T	p.%3D	p.N169N	ENST00000370346	1/1	18	12	6	10	10	0	BHLHE23,synonymous_variant,p.%3D,ENST00000370346,;RP11-305P22.9,upstream_gene_variant,,ENST00000606208,;RP11-305P22.9,upstream_gene_variant,,ENST00000607802,;	A	ENSG00000125533	ENST00000370346	Transcript	synonymous_variant	816	507	169	N	aaC/aaT	.	.	.	-1	BHLHE23	HGNC	16093	protein_coding	YES	.	ENSP00000359371	BHE23_HUMAN	.	UPI0000072058	.	.	.	1/1	.	Superfamily_domains:SSF47459,hmmpanther:PTHR19290:SF53,hmmpanther:PTHR19290	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTGGTTGAG	.	5	BLCA
MYT1	0	.	GRCh37	20	62850369	62850369	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1952C>T	p.Pro651Leu	p.P651L	ENST00000328439	12/23	42	29	13	35	35	0	MYT1,missense_variant,p.Pro678Leu,ENST00000536311,;MYT1,missense_variant,p.Pro353Leu,ENST00000360149,;MYT1,missense_variant,p.Pro651Leu,ENST00000328439,;	T	ENSG00000196132	ENST00000328439	Transcript	missense_variant	2316	1952	651	P/L	cCa/cTa	.	.	.	1	MYT1	HGNC	7622	protein_coding	YES	CCDS13558.1	ENSP00000327465	MYT1_HUMAN	.	UPI000012FBFA	.	.	possibly_damaging(0.61)	12/23	.	Pfam_domain:PF08474,hmmpanther:PTHR10816,hmmpanther:PTHR10816:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGCCACAGG	.	5	BLCA
SOD1	0	.	GRCh37	21	33032093	33032093	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11A>G	p.Lys4Arg	p.K4R	ENST00000270142	1/5	50	43	6	41	41	0	SOD1,missense_variant,p.Lys4Arg,ENST00000270142,;SOD1,missense_variant,p.Lys4Arg,ENST00000389995,;AP000253.1,upstream_gene_variant,,ENST00000449339,;SNORA81,upstream_gene_variant,,ENST00000458922,;SOD1,non_coding_transcript_exon_variant,,ENST00000470944,;SOD1,non_coding_transcript_exon_variant,,ENST00000476106,;	G	ENSG00000142168	ENST00000270142	Transcript	missense_variant	159	11	4	K/R	aAg/aGg	.	.	.	1	SOD1	HGNC	11179	protein_coding	YES	CCDS33536.1	ENSP00000270142	SODC_HUMAN	.	UPI0000000C20	.	tolerated(0.1)	benign(0.014)	1/5	.	Superfamily_domains:SSF49329,Gene3D:2.60.40.200,hmmpanther:PTHR10003:SF33,hmmpanther:PTHR10003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACGAAGGCCG	.	5	BLCA
TRPM2	0	.	GRCh37	21	45837906	45837906	+	Silent	SNP	G	G	A	rs376722041	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3243G>A	p.%3D	p.P1081P	ENST00000397928	21/32	76	60	15	58	56	1	TRPM2,synonymous_variant,p.%3D,ENST00000300481,;TRPM2,synonymous_variant,p.%3D,ENST00000397928,;TRPM2,synonymous_variant,p.%3D,ENST00000397932,;TRPM2,synonymous_variant,p.%3D,ENST00000300482,;AP001065.2,intron_variant,,ENST00000423310,;AP001065.2,upstream_gene_variant,,ENST00000456880,;TRPM2,non_coding_transcript_exon_variant,,ENST00000498430,;	A	ENSG00000142185	ENST00000397928	Transcript	synonymous_variant	3688	3243	1081	P	ccG/ccA	rs376722041,COSM3371828	.	.	1	TRPM2	HGNC	12339	protein_coding	YES	CCDS13710.1	ENSP00000381023	TRPM2_HUMAN	C9JZQ8_HUMAN	UPI0000169D60	.	.	.	21/32	.	hmmpanther:PTHR13800:SF2,hmmpanther:PTHR13800	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GCGCCGCCCCC	.	3	BLCA
NAGA	0	.	GRCh37	22	42463220	42463220	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>T	p.%3D	p.T133T	ENST00000396398	4/9	167	131	36	125	125	0	NAGA,synonymous_variant,p.%3D,ENST00000396398,;NAGA,synonymous_variant,p.%3D,ENST00000402937,;NAGA,synonymous_variant,p.%3D,ENST00000403363,;	A	ENSG00000198951	ENST00000396398	Transcript	synonymous_variant	932	399	133	T	acC/acT	.	.	.	-1	NAGA	HGNC	7631	protein_coding	YES	CCDS14030.1	ENSP00000379680	NAGAB_HUMAN	.	UPI000012FD03	.	.	.	4/9	.	hmmpanther:PTHR11452,hmmpanther:PTHR11452:SF25,Gene3D:3.20.20.70,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTGTGGTGCC	.	5	BLCA
A4GALT	0	.	GRCh37	22	43089097	43089097	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861C>T	p.%3D	p.I287I	ENST00000401850	2/2	15	12	3	15	15	0	A4GALT,synonymous_variant,p.%3D,ENST00000381278,;A4GALT,synonymous_variant,p.%3D,ENST00000249005,;A4GALT,synonymous_variant,p.%3D,ENST00000401850,;A4GALT,downstream_gene_variant,,ENST00000483026,;A4GALT,downstream_gene_variant,,ENST00000465765,;	A	ENSG00000128274	ENST00000401850	Transcript	synonymous_variant	1351	861	287	I	atC/atT	.	.	.	-1	A4GALT	HGNC	18149	protein_coding	YES	CCDS14041.1	ENSP00000384794	A4GAT_HUMAN	S6CQT5_HUMAN,S6CPX2_HUMAN,M1KVK7_HUMAN,Q7Z2I1_HUMAN	UPI000003FF92	.	.	.	2/2	.	Superfamily_domains:SSF53448,Pfam_domain:PF04572,hmmpanther:PTHR12042,hmmpanther:PTHR12042:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGGGATGGG	.	2	BLCA
PLXNB2	0	.	GRCh37	22	50720089	50720089	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3428C>T	p.Thr1143Met	p.T1143M	ENST00000449103	21/37	45	37	8	46	46	0	PLXNB2,missense_variant,p.Thr1143Met,ENST00000359337,;PLXNB2,missense_variant,p.Thr161Met,ENST00000427829,;PLXNB2,missense_variant,p.Thr1143Met,ENST00000449103,;PLXNB2,intron_variant,,ENST00000411680,;PLXNB2,downstream_gene_variant,,ENST00000434732,;PLXNB2,downstream_gene_variant,,ENST00000496720,;PLXNB2,non_coding_transcript_exon_variant,,ENST00000479701,;PLXNB2,non_coding_transcript_exon_variant,,ENST00000463165,;PLXNB2,non_coding_transcript_exon_variant,,ENST00000492578,;PLXNB2,upstream_gene_variant,,ENST00000479818,;	A	ENSG00000196576	ENST00000449103	Transcript	missense_variant	3569	3428	1143	T/M	aCg/aTg	COSM1035406	.	.	-1	PLXNB2	HGNC	9104	protein_coding	YES	CCDS43035.1	ENSP00000409171	PLXB2_HUMAN	Q2TBE4_HUMAN,E2PU09_HUMAN,A6QRH1_HUMAN	UPI000003812D	.	deleterious(0.01)	probably_damaging(0.991)	21/37	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCCGTCAGC	.	5	BLCA
LMF2	0	.	GRCh37	22	50945329	50945329	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.230G>A	p.Gly77Asp	p.G77D	ENST00000474879	2/14	10	7	3	11	11	0	LMF2,missense_variant,p.Gly52Asp,ENST00000216080,;LMF2,missense_variant,p.Gly77Asp,ENST00000380796,;LMF2,missense_variant,p.Gly77Asp,ENST00000474879,;NCAPH2,upstream_gene_variant,,ENST00000523045,;NCAPH2,upstream_gene_variant,,ENST00000395701,;NCAPH2,upstream_gene_variant,,ENST00000420993,;NCAPH2,upstream_gene_variant,,ENST00000299821,;NCAPH2,upstream_gene_variant,,ENST00000395698,;LMF2,non_coding_transcript_exon_variant,,ENST00000505981,;LMF2,non_coding_transcript_exon_variant,,ENST00000507607,;NCAPH2,upstream_gene_variant,,ENST00000418794,;LMF2,upstream_gene_variant,,ENST00000514938,;NCAPH2,upstream_gene_variant,,ENST00000518394,;LMF2,upstream_gene_variant,,ENST00000504717,;	T	ENSG00000100258	ENST00000474879	Transcript	missense_variant	246	230	77	G/D	gGc/gAc	.	.	.	-1	LMF2	HGNC	25096	protein_coding	YES	CCDS14093.2	ENSP00000424381	LMF2_HUMAN	.	UPI0000071DF9	.	deleterious(0.03)	benign(0.26)	2/14	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR14463,hmmpanther:PTHR14463:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGGCCCTGG	.	2	BLCA
SLC5A7	0	.	GRCh37	2	108614419	108614419	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.574C>G	p.Leu192Val	p.L192V	ENST00000264047	5/9	107	80	27	113	113	0	SLC5A7,missense_variant,p.Leu192Val,ENST00000264047,;SLC5A7,missense_variant,p.Leu87Val,ENST00000540517,;SLC5A7,missense_variant,p.Leu192Val,ENST00000409059,;	G	ENSG00000115665	ENST00000264047	Transcript	missense_variant	850	574	192	L/V	Ctc/Gtc	.	.	.	1	SLC5A7	HGNC	14025	protein_coding	YES	CCDS2074.1	ENSP00000264047	SC5A7_HUMAN	Q2T9H3_HUMAN,F5H382_HUMAN	UPI0000070792	.	deleterious(0.03)	probably_damaging(0.967)	5/9	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50283,hmmpanther:PTHR11819,hmmpanther:PTHR11819:SF129,Pfam_domain:PF00474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCAGCTCTTT	.	5	BLCA
GCC2	0	.	GRCh37	2	109066134	109066134	+	Missense_Mutation	SNP	G	G	C	rs370453746	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52G>C	p.Gly18Arg	p.G18R	ENST00000309863	2/23	88	63	24	45	45	0	GCC2,missense_variant,p.Gly21Arg,ENST00000409821,;GCC2,missense_variant,p.Gly18Arg,ENST00000309863,;GCC2,upstream_gene_variant,,ENST00000409896,;GCC2,non_coding_transcript_exon_variant,,ENST00000478207,;GCC2,missense_variant,p.Gly18Arg,ENST00000482325,;GCC2,non_coding_transcript_exon_variant,,ENST00000467566,;	C	ENSG00000135968	ENST00000309863	Transcript	missense_variant	766	52	18	G/R	Ggg/Cgg	rs370453746	.	.	1	GCC2	HGNC	23218	protein_coding	YES	CCDS33268.1	ENSP00000307939	GCC2_HUMAN	B8ZZW2_HUMAN,B3KR21_HUMAN	UPI000049DF0C	.	deleterious(0)	possibly_damaging(0.723)	2/23	.	hmmpanther:PTHR18902,hmmpanther:PTHR18902:SF23	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACCGGGAAA	byCluster	5	BLCA
E2F6	0	.	GRCh37	2	11586604	11586604	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.845G>A	p.%3D	p.%3D	ENST00000381525	7/7	52	44	7	35	35	0	E2F6,stop_retained_variant,p.%3D,ENST00000542100,;E2F6,stop_retained_variant,p.%3D,ENST00000307236,;E2F6,stop_retained_variant,p.%3D,ENST00000546212,;E2F6,stop_retained_variant,p.%3D,ENST00000381525,;E2F6,3_prime_UTR_variant,,ENST00000362009,;E2F6,3_prime_UTR_variant,,ENST00000444832,;E2F6,3_prime_UTR_variant,,ENST00000428221,;E2F6,3_prime_UTR_variant,,ENST00000437573,;E2F6,3_prime_UTR_variant,,ENST00000455198,;E2F6,non_coding_transcript_exon_variant,,ENST00000471343,;E2F6,downstream_gene_variant,,ENST00000468775,;E2F6,downstream_gene_variant,,ENST00000421117,;	T	ENSG00000169016	ENST00000381525	Transcript	stop_retained_variant	1115	845	282	*	tGa/tAa	.	.	.	-1	E2F6	HGNC	3120	protein_coding	YES	CCDS1680.2	ENSP00000370936	E2F6_HUMAN	Q6Q9Z5_HUMAN,Q53YM3_HUMAN	UPI0000000C90	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATCAGTTG	.	4	BLCA
PTPN4	0	.	GRCh37	2	120620165	120620165	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192G>T	p.Leu64Phe	p.L64F	ENST00000263708	3/27	106	93	13	75	75	0	PTPN4,missense_variant,p.Leu64Phe,ENST00000488279,;PTPN4,missense_variant,p.Leu64Phe,ENST00000420482,;PTPN4,missense_variant,p.Leu64Phe,ENST00000263708,;PTPN4,non_coding_transcript_exon_variant,,ENST00000460289,;PTPN4,non_coding_transcript_exon_variant,,ENST00000485247,;	T	ENSG00000088179	ENST00000263708	Transcript	missense_variant	963	192	64	L/F	ttG/ttT	.	.	.	1	PTPN4	HGNC	9656	protein_coding	YES	CCDS2129.1	ENSP00000263708	PTN4_HUMAN	Q580X3_HUMAN,Q53QV5_HUMAN,Q53Q76_HUMAN,Q4ZG31_HUMAN,J3KQP5_HUMAN,F5H1A0_HUMAN	UPI0000000CA9	.	deleterious(0)	probably_damaging(1)	3/27	.	PROSITE_profiles:PS50057,hmmpanther:PTHR19134:SF187,hmmpanther:PTHR19134,Gene3D:3.10.20.90,Pfam_domain:PF09379,PIRSF_domain:PIRSF000927,SMART_domains:SM00295,Superfamily_domains:SSF54236,Prints_domain:PR00935	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTGACTGA	.	4	BLCA
GALNT5	0	.	GRCh37	2	158114759	158114782	+	In_Frame_Del	DEL	AGGATTCAGAGTTCAGCCAGACCA	AGGATTCAGAGTTCAGCCAGACCA	-	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	AGGATTCAGAGTTCAGCCAGACCA	AGGATTCAGAGTTCAGCCAGACCA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169_192delTTCAGAGTTCAGCCAGACCAAGGA	p.Phe57_Gly64del	p.F57_G64del	ENST00000259056	1/10	144	109	35	89	89	0	GALNT5,inframe_deletion,p.Phe57_Gly64del,ENST00000259056,;	-	ENSG00000136542	ENST00000259056	Transcript	inframe_deletion	650-673	165-188	55-63	IGFRVQPDQ/I	atAGGATTCAGAGTTCAGCCAGACCAa/ata	.	.	.	1	GALNT5	HGNC	4127	protein_coding	YES	CCDS2203.1	ENSP00000259056	GALT5_HUMAN	Q68VJ5_HUMAN	UPI000019AD19	.	.	.	1/10	.	hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	GCGGATAGGATTCAGAGTTCAGCCAGACCAAGGAA	.	2	BLCA
CCDC148	0	.	GRCh37	2	159028604	159028604	+	3'UTR	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*21A>G	.	.	ENST00000283233	14/14	88	70	18	75	75	0	CCDC148,3_prime_UTR_variant,,ENST00000409187,;CCDC148,3_prime_UTR_variant,,ENST00000283233,;CCDC148-AS1,intron_variant,,ENST00000412781,;CCDC148,3_prime_UTR_variant,,ENST00000448656,;CCDC148,3_prime_UTR_variant,,ENST00000454257,;	C	ENSG00000153237	ENST00000283233	Transcript	3_prime_UTR_variant	2111	.	.	.	.	.	.	.	-1	CCDC148	HGNC	25191	protein_coding	YES	CCDS33304.1	ENSP00000283233	CC148_HUMAN	.	UPI0000208F63	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACATATAGA	.	5	BLCA
LY75-CD302	0	.	GRCh37	2	160737661	160737661	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1337A>G	p.Tyr446Cys	p.Y446C	ENST00000504764	8/39	93	81	12	71	71	0	LY75-CD302,missense_variant,p.Tyr446Cys,ENST00000504764,;LY75,missense_variant,p.Tyr446Cys,ENST00000553424,;LY75,missense_variant,p.Tyr446Cys,ENST00000554112,;LY75,missense_variant,p.Tyr446Cys,ENST00000263636,;LY75-CD302,missense_variant,p.Tyr446Cys,ENST00000505052,;LY75,non_coding_transcript_exon_variant,,ENST00000484559,;	C	ENSG00000248672	ENST00000504764	Transcript	missense_variant	1365	1337	446	Y/C	tAt/tGt	.	.	.	-1	LY75-CD302	HGNC	38828	protein_coding	YES	CCDS56141.1	ENSP00000423463	.	.	UPI00018817E3	.	deleterious(0)	probably_damaging(0.993)	8/39	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22803:SF65,hmmpanther:PTHR22803,Gene3D:3.10.100.10,Pfam_domain:PF00059,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCAATATGTT	.	4	BLCA
RBMS1	0	.	GRCh37	2	161138808	161138808	+	Intron	SNP	T	T	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901-933A>C	.	.	ENST00000348849	.	88	67	20	80	80	0	RBMS1,missense_variant,p.Lys300Thr,ENST00000392753,;RBMS1,intron_variant,,ENST00000409972,;RBMS1,intron_variant,,ENST00000348849,;RBMS1,intron_variant,,ENST00000409289,;RBMS1,intron_variant,,ENST00000409075,;RBMS1,non_coding_transcript_exon_variant,,ENST00000474820,;RBMS1,non_coding_transcript_exon_variant,,ENST00000490637,;RBMS1,non_coding_transcript_exon_variant,,ENST00000477965,;RBMS1,upstream_gene_variant,,ENST00000474147,;RBMS1,upstream_gene_variant,,ENST00000464200,;RBMS1,downstream_gene_variant,,ENST00000491781,;	G	ENSG00000153250	ENST00000348849	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RBMS1	HGNC	9907	protein_coding	YES	CCDS2213.1	ENSP00000294904	RBMS1_HUMAN	Q9UEK5_HUMAN,E7EPF2_HUMAN	UPI00000713D4	.	.	.	.	9/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCCTTTGCC	.	5	BLCA
COBLL1	0	.	GRCh37	2	165551150	165551150	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2866C>T	p.Pro956Ser	p.P956S	ENST00000342193	12/14	32	28	4	37	37	0	COBLL1,missense_variant,p.Pro918Ser,ENST00000375458,;COBLL1,missense_variant,p.Pro956Ser,ENST00000409184,;COBLL1,missense_variant,p.Pro956Ser,ENST00000342193,;COBLL1,missense_variant,p.Pro994Ser,ENST00000392717,;COBLL1,missense_variant,p.Pro1023Ser,ENST00000194871,;COBLL1,non_coding_transcript_exon_variant,,ENST00000493713,;COBLL1,upstream_gene_variant,,ENST00000495084,;COBLL1,non_coding_transcript_exon_variant,,ENST00000493868,;COBLL1,non_coding_transcript_exon_variant,,ENST00000489955,;	A	ENSG00000082438	ENST00000342193	Transcript	missense_variant	3082	2866	956	P/S	Ccc/Tcc	.	.	.	-1	COBLL1	HGNC	23571	protein_coding	YES	CCDS2223.2	ENSP00000341360	COBL1_HUMAN	C9JWZ0_HUMAN,C9JAU3_HUMAN,B3KMG7_HUMAN	UPI000007132B	.	tolerated(0.34)	benign(0.027)	12/14	.	hmmpanther:PTHR21557:SF2,hmmpanther:PTHR21557	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAGGGAGAAA	.	2	BLCA
RAD51AP2	0	.	GRCh37	2	17697922	17697923	+	Frame_Shift_Ins	INS	-	-	A	rs781047879	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1760dupT	p.Leu587PhefsTer4	p.L587Ffs*4	ENST00000399080	1/3	100	82	18	59	59	0	RAD51AP2,frameshift_variant,p.Leu587PhefsTer4,ENST00000399080,;	A	ENSG00000214842	ENST00000399080	Transcript	frameshift_variant	1784-1785	1760-1761	587	L/FX	ttg/ttTg	rs781047879	.	.	-1	RAD51AP2	HGNC	34417	protein_coding	YES	CCDS42656.1	ENSP00000382030	R51A2_HUMAN	.	UPI0000418FD4	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTGAGCAAAAA	.	3	BLCA
HOXD1	0	.	GRCh37	2	177054731	177054731	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.848A>G	p.Lys283Arg	p.K283R	ENST00000331462	2/2	160	138	22	131	131	0	HOXD1,missense_variant,p.Lys283Arg,ENST00000331462,;HOXD-AS1,upstream_gene_variant,,ENST00000436126,;HOXD-AS1,upstream_gene_variant,,ENST00000452365,;HOXD-AS1,upstream_gene_variant,,ENST00000417086,;HOXD-AS1,upstream_gene_variant,,ENST00000425005,;HOXD-AS1,upstream_gene_variant,,ENST00000413969,;	G	ENSG00000128645	ENST00000331462	Transcript	missense_variant	1071	848	283	K/R	aAa/aGa	.	.	.	1	HOXD1	HGNC	5132	protein_coding	YES	CCDS2271.1	ENSP00000328598	HXD1_HUMAN	.	UPI000012CF80	.	deleterious(0)	probably_damaging(1)	2/2	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF183,PROSITE_patterns:PS00027,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689,Prints_domain:PR00024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGAAACAGA	.	4	BLCA
TTC30B	0	.	GRCh37	2	178415703	178415703	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1789A>G	p.Met597Val	p.M597V	ENST00000408939	1/1	156	130	26	130	130	0	TTC30B,missense_variant,p.Met597Val,ENST00000408939,;	C	ENSG00000196659	ENST00000408939	Transcript	missense_variant	2040	1789	597	M/V	Atg/Gtg	.	.	.	-1	TTC30B	HGNC	26425	protein_coding	YES	CCDS42784.1	ENSP00000386181	TT30B_HUMAN	.	UPI000013DE25	.	deleterious(0.02)	benign(0.206)	1/1	.	hmmpanther:PTHR20931,hmmpanther:PTHR20931:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACATGTTTT	.	5	BLCA
DNAH7	0	.	GRCh37	2	196799388	196799388	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3398C>T	p.Thr1133Ile	p.T1133I	ENST00000312428	21/65	147	125	22	122	122	0	DNAH7,missense_variant,p.Thr1133Ile,ENST00000312428,;	A	ENSG00000118997	ENST00000312428	Transcript	missense_variant	3499	3398	1133	T/I	aCa/aTa	.	.	.	-1	DNAH7	HGNC	18661	protein_coding	YES	CCDS42794.1	ENSP00000311273	DYH7_HUMAN	C9JUY3_HUMAN	UPI0000141B95	.	deleterious(0.02)	probably_damaging(1)	21/65	.	hmmpanther:PTHR10676:SF138,hmmpanther:PTHR10676,Pfam_domain:PF08393	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTGTTGAA	.	4	BLCA
HECW2	0	.	GRCh37	2	197189745	197189745	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700A>G	p.Thr234Ala	p.T234A	ENST00000260983	6/29	180	150	30	173	173	0	HECW2,missense_variant,p.Thr234Ala,ENST00000260983,;HECW2,5_prime_UTR_variant,,ENST00000409111,;	C	ENSG00000138411	ENST00000260983	Transcript	missense_variant	883	700	234	T/A	Act/Gct	.	.	.	-1	HECW2	HGNC	29853	protein_coding	YES	CCDS33354.1	ENSP00000260983	HECW2_HUMAN	C9JPI9_HUMAN,C9JHL2_HUMAN	UPI00001A75E8	.	tolerated(0.56)	benign(0.038)	6/29	.	PROSITE_profiles:PS50004,hmmpanther:PTHR11254:SF127,hmmpanther:PTHR11254,Pfam_domain:PF00168,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATAGTAGACC	.	4	BLCA
MAP2	0	.	GRCh37	2	210557962	210557962	+	Silent	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068C>A	p.%3D	p.T356T	ENST00000360351	7/15	60	53	7	43	43	0	MAP2,synonymous_variant,p.%3D,ENST00000447185,;MAP2,synonymous_variant,p.%3D,ENST00000360351,;MAP2,synonymous_variant,p.%3D,ENST00000445941,;MAP2,intron_variant,,ENST00000361559,;MAP2,intron_variant,,ENST00000199940,;MAP2,intron_variant,,ENST00000392194,;MAP2,intron_variant,,ENST00000452717,;MAP2,intron_variant,,ENST00000482864,;MAP2,intron_variant,,ENST00000471619,;MAP2,downstream_gene_variant,,ENST00000461253,;MAP2,downstream_gene_variant,,ENST00000481649,;MAP2,upstream_gene_variant,,ENST00000475600,;	A	ENSG00000078018	ENST00000360351	Transcript	synonymous_variant	1574	1068	356	T	acC/acA	.	.	.	1	MAP2	HGNC	6839	protein_coding	YES	CCDS2384.1	ENSP00000353508	MTAP2_HUMAN	A8MZ31_HUMAN	UPI000013D119	.	.	.	7/15	.	hmmpanther:PTHR11501:SF15,hmmpanther:PTHR11501	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAACCAGTGG	.	4	BLCA
APOB	0	.	GRCh37	2	21235228	21235228	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4512T>C	p.%3D	p.S1504S	ENST00000233242	26/29	82	61	20	58	58	0	APOB,synonymous_variant,p.%3D,ENST00000233242,;	G	ENSG00000084674	ENST00000233242	Transcript	synonymous_variant	4640	4512	1504	S	tcT/tcC	.	.	.	-1	APOB	HGNC	603	protein_coding	YES	CCDS1703.1	ENSP00000233242	APOB_HUMAN	S5FVK9_HUMAN,Q9UE53_HUMAN,Q9UE52_HUMAN,Q13828_HUMAN	UPI0000141B94	.	.	.	26/29	.	hmmpanther:PTHR13769,hmmpanther:PTHR13769:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACAAGACAG	.	5	BLCA
TM4SF20	0	.	GRCh37	2	228228662	228228662	+	Silent	SNP	A	A	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.468T>A	p.%3D	p.G156G	ENST00000304568	4/4	79	58	20	59	59	0	TM4SF20,synonymous_variant,p.%3D,ENST00000304568,;	T	ENSG00000168955	ENST00000304568	Transcript	synonymous_variant	506	468	156	G	ggT/ggA	.	.	.	-1	TM4SF20	HGNC	26230	protein_coding	YES	CCDS2466.1	ENSP00000303028	T4S20_HUMAN	.	UPI000013E99B	.	.	.	4/4	.	Pfam_domain:PF05805,hmmpanther:PTHR14198,hmmpanther:PTHR14198:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAACCAGT	.	5	BLCA
NDUFAF7	0	.	GRCh37	2	37475333	37475333	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1166A>G	p.Tyr389Cys	p.Y389C	ENST00000002125	10/10	60	49	11	49	49	0	NDUFAF7,missense_variant,p.Tyr389Cys,ENST00000002125,;NDUFAF7,missense_variant,p.Tyr291Cys,ENST00000336237,;NDUFAF7,downstream_gene_variant,,ENST00000431821,;NDUFAF7,downstream_gene_variant,,ENST00000439218,;PRKD3,downstream_gene_variant,,ENST00000234179,;PRKD3,downstream_gene_variant,,ENST00000379066,;NDUFAF7,non_coding_transcript_exon_variant,,ENST00000419278,;NDUFAF7,downstream_gene_variant,,ENST00000483999,;NDUFAF7,non_coding_transcript_exon_variant,,ENST00000474154,;NDUFAF7,non_coding_transcript_exon_variant,,ENST00000474257,;NDUFAF7,intron_variant,,ENST00000441905,;NDUFAF7,downstream_gene_variant,,ENST00000455230,;	G	ENSG00000003509	ENST00000002125	Transcript	missense_variant	1206	1166	389	Y/C	tAt/tGt	.	.	.	1	NDUFAF7	HGNC	28816	protein_coding	YES	CCDS1788.1	ENSP00000002125	NDUF7_HUMAN	C9JS27_HUMAN,C9JP36_HUMAN,C9JEL7_HUMAN,C9J236_HUMAN	UPI000004A041	.	deleterious(0)	probably_damaging(0.992)	10/10	.	hmmpanther:PTHR12049,hmmpanther:PTHR12049:SF5,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATATGATA	.	5	BLCA
MAP4K3	0	.	GRCh37	2	39514002	39514006	+	Frame_Shift_Del	DEL	TTTCT	TTTCT	-	rs752310736	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	TTTCT	TTTCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1574_1578delAGAAA	p.Lys525ArgfsTer7	p.K525Rfs*7	ENST00000263881	21/34	70	59	11	48	48	0	MAP4K3,frameshift_variant,p.Lys441ArgfsTer7,ENST00000437545,;MAP4K3,frameshift_variant,p.Lys525ArgfsTer7,ENST00000263881,;MAP4K3,frameshift_variant,p.Lys78ArgfsTer7,ENST00000536018,;MAP4K3,frameshift_variant,p.Lys504ArgfsTer7,ENST00000341681,;SNORA67,upstream_gene_variant,,ENST00000516664,;MAP4K3,downstream_gene_variant,,ENST00000474502,;MAP4K3,downstream_gene_variant,,ENST00000497566,;MAP4K3,downstream_gene_variant,,ENST00000465701,;	-	ENSG00000011566	ENST00000263881	Transcript	frameshift_variant	1899-1903	1574-1578	525-526	KK/X	aAGAAA/a	rs752310736	.	.	-1	MAP4K3	HGNC	6865	protein_coding	YES	CCDS1803.1	ENSP00000263881	M4K3_HUMAN	Q53RV1_HUMAN,H7C1A4_HUMAN,B4DSS3_HUMAN,B3KMM5_HUMAN	UPI00000747E6	.	.	.	21/34	.	hmmpanther:PTHR24361:SF205,hmmpanther:PTHR24361,PIRSF_domain:PIRSF038172	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	TACATCTTTCTTTTCT	.	2	BLCA
TTC7A	0	.	GRCh37	2	47206029	47206029	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.747G>C	p.%3D	p.V249V	ENST00000319190	5/20	41	36	5	33	33	0	TTC7A,synonymous_variant,p.%3D,ENST00000394850,;TTC7A,synonymous_variant,p.%3D,ENST00000319190,;TTC7A,synonymous_variant,p.%3D,ENST00000409245,;TTC7A,5_prime_UTR_variant,,ENST00000263737,;TTC7A,non_coding_transcript_exon_variant,,ENST00000474321,;TTC7A,non_coding_transcript_exon_variant,,ENST00000461601,;TTC7A,synonymous_variant,p.%3D,ENST00000441914,;TTC7A,3_prime_UTR_variant,,ENST00000409825,;TTC7A,non_coding_transcript_exon_variant,,ENST00000491786,;	C	ENSG00000068724	ENST00000319190	Transcript	synonymous_variant	1115	747	249	V	gtG/gtC	.	.	.	1	TTC7A	HGNC	19750	protein_coding	YES	CCDS33193.1	ENSP00000316699	TTC7A_HUMAN	F5H4E1_HUMAN	UPI00001BDC89	.	.	.	5/20	.	hmmpanther:PTHR23083,hmmpanther:PTHR23083:SF342	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATGTGAAAAA	.	4	BLCA
VAX2	0	.	GRCh37	2	71160141	71160141	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.680C>T	p.Pro227Leu	p.P227L	ENST00000234392	3/3	37	29	7	25	25	0	VAX2,missense_variant,p.Pro227Leu,ENST00000234392,;ATP6V1B1,upstream_gene_variant,,ENST00000234396,;ATP6V1B1,upstream_gene_variant,,ENST00000412314,;snoU13,upstream_gene_variant,,ENST00000459218,;ATP6V1B1,upstream_gene_variant,,ENST00000432367,;	T	ENSG00000116035	ENST00000234392	Transcript	missense_variant	712	680	227	P/L	cCa/cTa	.	.	.	1	VAX2	HGNC	12661	protein_coding	YES	CCDS1911.1	ENSP00000234392	VAX2_HUMAN	F1T0K5_HUMAN	UPI0000138215	.	tolerated(0.14)	benign(0.002)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24339,hmmpanther:PTHR24339:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCCCACGCC	.	5	BLCA
ANKRD20A8P	0	.	GRCh37	2	95519022	95519022	+	RNA	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.530T>C	.	.	ENST00000432432	3/15	243	201	42	204	203	1	ANKRD20A8P,non_coding_transcript_exon_variant,,ENST00000432432,;ANKRD20A8P,non_coding_transcript_exon_variant,,ENST00000446135,;	G	ENSG00000229089	ENST00000432432	Transcript	non_coding_transcript_exon_variant	530	.	.	.	.	.	.	.	-1	ANKRD20A8P	HGNC	23666	processed_transcript	YES	.	.	.	.	.	.	.	.	3/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAGCATAATG	.	4	BLCA
ABI3BP	0	.	GRCh37	3	100617628	100617628	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460C>T	p.Pro154Ser	p.P154S	ENST00000284322	4/35	46	37	9	38	38	0	ABI3BP,missense_variant,p.Pro154Ser,ENST00000284322,;ABI3BP,missense_variant,p.Pro73Ser,ENST00000527258,;ABI3BP,missense_variant,p.Pro154Ser,ENST00000495063,;ABI3BP,missense_variant,p.Pro94Ser,ENST00000530539,;ABI3BP,missense_variant,p.Pro154Ser,ENST00000471714,;ABI3BP,downstream_gene_variant,,ENST00000532144,;ABI3BP,non_coding_transcript_exon_variant,,ENST00000475896,;ABI3BP,downstream_gene_variant,,ENST00000530236,;	A	ENSG00000154175	ENST00000284322	Transcript	missense_variant	570	460	154	P/S	Cca/Tca	COSM255430	.	.	-1	ABI3BP	HGNC	17265	protein_coding	YES	CCDS46880.1	ENSP00000284322	TARSH_HUMAN	.	UPI000011C136	.	tolerated(0.08)	possibly_damaging(0.641)	4/35	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Gene3D:2.60.40.10,hmmpanther:PTHR23197,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTTGGCAATG	.	2	BLCA
HRH1	0	.	GRCh37	3	11300831	11300831	+	Silent	SNP	T	T	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108T>G	p.%3D	p.T36T	ENST00000397056	3/3	67	53	13	42	42	0	HRH1,synonymous_variant,p.%3D,ENST00000431010,;HRH1,synonymous_variant,p.%3D,ENST00000438284,;HRH1,synonymous_variant,p.%3D,ENST00000397056,;HRH1,downstream_gene_variant,,ENST00000413416,;	G	ENSG00000196639	ENST00000397056	Transcript	synonymous_variant	299	108	36	T	acT/acG	.	.	.	1	HRH1	HGNC	5182	protein_coding	YES	CCDS2604.1	ENSP00000380247	HRH1_HUMAN	.	UPI0000050401	.	.	.	3/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24249,hmmpanther:PTHR24249:SF244,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCACTATCTG	.	5	BLCA
KIAA2018	0	.	GRCh37	3	113375143	113375143	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5386C>G	p.Pro1796Ala	p.P1796A	ENST00000316407	7/7	234	191	43	162	162	0	KIAA2018,missense_variant,p.Pro1796Ala,ENST00000478658,;KIAA2018,missense_variant,p.Pro1796Ala,ENST00000316407,;KIAA2018,intron_variant,,ENST00000491165,;KIAA2018,non_coding_transcript_exon_variant,,ENST00000496826,;	C	ENSG00000176542	ENST00000316407	Transcript	missense_variant	5797	5386	1796	P/A	Cca/Gca	.	.	.	-1	KIAA2018	HGNC	30494	protein_coding	YES	CCDS43133.1	ENSP00000320794	K2018_HUMAN	.	UPI00004800D8	.	.	benign(0.065)	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTGGTGGGT	.	4	BLCA
FSTL1	0	.	GRCh37	3	120122193	120122193	+	Missense_Mutation	SNP	C	C	A	rs566161223	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.590G>T	p.Cys197Phe	p.C197F	ENST00000295633	8/11	57	47	10	42	42	0	FSTL1,missense_variant,p.Cys197Phe,ENST00000295633,;FSTL1,missense_variant,p.Cys162Phe,ENST00000424703,;FSTL1,upstream_gene_variant,,ENST00000480823,;FSTL1,downstream_gene_variant,,ENST00000468098,;FSTL1,upstream_gene_variant,,ENST00000488318,;	A	ENSG00000163430	ENST00000295633	Transcript	missense_variant	947	590	197	C/F	tGt/tTt	rs566161223	.	.	-1	FSTL1	HGNC	3972	protein_coding	YES	CCDS2998.1	ENSP00000295633	FSTL1_HUMAN	Q9BZQ0_HUMAN,C9J5G4_HUMAN	UPI00000422DB	.	deleterious(0)	probably_damaging(0.982)	8/11	.	PROSITE_profiles:PS50222,hmmpanther:PTHR10913:SF38,hmmpanther:PTHR10913,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACACAGAGT	by1000G	5	BLCA
ZXDC	0	.	GRCh37	3	126191040	126191040	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1016A>G	p.Tyr339Cys	p.Y339C	ENST00000389709	2/10	67	47	20	74	74	0	ZXDC,missense_variant,p.Tyr339Cys,ENST00000389709,;ZXDC,missense_variant,p.Tyr339Cys,ENST00000336332,;ZXDC,missense_variant,p.Tyr47Cys,ENST00000515545,;	C	ENSG00000070476	ENST00000389709	Transcript	missense_variant	1070	1016	339	Y/C	tAt/tGt	.	.	.	-1	ZXDC	HGNC	28160	protein_coding	YES	CCDS43145.1	ENSP00000374359	ZXDC_HUMAN	Q9H891_HUMAN,Q69YU0_HUMAN	UPI0000D7A440	.	deleterious(0)	probably_damaging(0.999)	2/10	.	PROSITE_profiles:PS50157,hmmpanther:PTHR19818,hmmpanther:PTHR19818:SF74,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCATACTGC	.	5	BLCA
SLC35G2	0	.	GRCh37	3	136573881	136573881	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579T>C	p.%3D	p.N193N	ENST00000446465	2/2	134	107	27	94	94	0	SLC35G2,synonymous_variant,p.%3D,ENST00000393079,;SLC35G2,synonymous_variant,p.%3D,ENST00000446465,;RP11-85F14.5,intron_variant,,ENST00000474250,;RP11-85F14.5,intron_variant,,ENST00000470236,;RP11-85F14.5,intron_variant,,ENST00000461864,;	C	ENSG00000168917	ENST00000446465	Transcript	synonymous_variant	1207	579	193	N	aaT/aaC	.	.	.	1	SLC35G2	HGNC	28480	protein_coding	YES	CCDS3091.1	ENSP00000400839	S35G2_HUMAN	.	UPI000013EB08	.	.	.	2/2	.	hmmpanther:PTHR22911,hmmpanther:PTHR22911:SF34,Pfam_domain:PF00892,Superfamily_domains:0043518	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCAATGGGAC	.	5	BLCA
C3orf79	0	.	GRCh37	3	153220301	153220301	+	3'UTR	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*30G>C	.	.	ENST00000446603	3/3	36	23	12	30	30	0	C3orf79,3_prime_UTR_variant,,ENST00000446603,;RP11-23D24.2,intron_variant,,ENST00000493214,;	C	ENSG00000237787	ENST00000446603	Transcript	3_prime_UTR_variant	395	.	.	.	.	.	.	.	1	C3orf79	HGNC	37259	protein_coding	YES	CCDS46937.1	ENSP00000389475	CC079_HUMAN	.	UPI00001410DF	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAATGAGAGG	.	5	BLCA
RARRES1	0	.	GRCh37	3	158431599	158431599	+	Missense_Mutation	SNP	C	C	T	rs781666181	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326G>A	p.Arg109His	p.R109H	ENST00000237696	2/6	124	101	23	100	100	0	RARRES1,missense_variant,p.Arg109His,ENST00000479756,;RARRES1,missense_variant,p.Arg109His,ENST00000237696,;RARRES1,non_coding_transcript_exon_variant,,ENST00000498640,;RARRES1,upstream_gene_variant,,ENST00000462663,;	T	ENSG00000118849	ENST00000237696	Transcript	missense_variant	607	326	109	R/H	cGc/cAc	rs781666181	.	.	-1	RARRES1	HGNC	9867	protein_coding	YES	CCDS3184.1	ENSP00000237696	TIG1_HUMAN	.	UPI000006E088	.	tolerated(0.6)	benign(0.023)	2/6	.	Pfam_domain:PF06907,Gene3D:3.10.450.10,PIRSF_domain:PIRSF500784,PIRSF_domain:PIRSF011132,Superfamily_domains:SSF54403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTAGCGCTCT	byFrequency	5	BLCA
KPNA4	0	.	GRCh37	3	160248719	160248719	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393A>G	p.%3D	p.L131L	ENST00000334256	7/17	48	38	10	40	40	0	KPNA4,synonymous_variant,p.%3D,ENST00000334256,;	C	ENSG00000186432	ENST00000334256	Transcript	synonymous_variant	699	393	131	L	ttA/ttG	.	.	.	-1	KPNA4	HGNC	6397	protein_coding	YES	CCDS3191.1	ENSP00000334373	IMA3_HUMAN	.	UPI0000001648	.	.	.	7/17	.	Superfamily_domains:SSF48371,PIRSF_domain:PIRSF005673,SMART_domains:SM00185,Pfam_domain:PF00514,Gene3D:1.25.10.10,hmmpanther:PTHR23316:SF7,hmmpanther:PTHR23316,PROSITE_profiles:PS50176	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTGTAAAGA	.	5	BLCA
PLD1	0	.	GRCh37	3	171410146	171410146	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1314G>T	p.Leu438Phe	p.L438F	ENST00000351298	13/27	81	61	19	64	64	0	PLD1,missense_variant,p.Leu438Phe,ENST00000356327,;PLD1,missense_variant,p.Leu438Phe,ENST00000340989,;PLD1,missense_variant,p.Leu438Phe,ENST00000342215,;PLD1,missense_variant,p.Leu438Phe,ENST00000351298,;snoU13,upstream_gene_variant,,ENST00000458788,;PLD1,non_coding_transcript_exon_variant,,ENST00000481505,;	A	ENSG00000075651	ENST00000351298	Transcript	missense_variant	1441	1314	438	L/F	ttG/ttT	.	.	.	-1	PLD1	HGNC	9067	protein_coding	YES	CCDS3216.1	ENSP00000342793	PLD1_HUMAN	C9IY79_HUMAN	UPI0000131BDC	.	deleterious(0)	probably_damaging(0.987)	13/27	.	hmmpanther:PTHR18896:SF57,hmmpanther:PTHR18896,Gene3D:3.30.870.10,PIRSF_domain:PIRSF009376,Superfamily_domains:SSF56024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCATCAAAGT	.	5	BLCA
VPS8	0	.	GRCh37	3	184566960	184566960	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643C>G	p.Leu215Val	p.L215V	ENST00000437079	9/48	48	39	9	26	26	0	VPS8,missense_variant,p.Leu213Val,ENST00000436792,;VPS8,missense_variant,p.Leu215Val,ENST00000287546,;VPS8,missense_variant,p.Leu215Val,ENST00000437079,;VPS8,missense_variant,p.Leu213Val,ENST00000446204,;VPS8,downstream_gene_variant,,ENST00000422105,;VPS8,missense_variant,p.Phe143Leu,ENST00000452666,;VPS8,non_coding_transcript_exon_variant,,ENST00000469479,;VPS8,non_coding_transcript_exon_variant,,ENST00000465818,;VPS8,upstream_gene_variant,,ENST00000469713,;	G	ENSG00000156931	ENST00000437079	Transcript	missense_variant	814	643	215	L/V	Ctt/Gtt	.	.	.	1	VPS8	HGNC	29122	protein_coding	YES	CCDS46971.1	ENSP00000397879	VPS8_HUMAN	C9JPI1_HUMAN,C9JKL0_HUMAN,C9JIA0_HUMAN	UPI0000160BDC	.	deleterious(0.04)	probably_damaging(0.947)	9/48	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR12816,hmmpanther:PTHR12816:SF19,Gene3D:2.130.10.10,Superfamily_domains:SSF50969,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTCTTTGT	.	5	BLCA
MAP3K13	0	.	GRCh37	3	185191450	185191450	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2331A>G	p.%3D	p.E777E	ENST00000265026	11/14	186	150	35	138	138	0	MAP3K13,synonymous_variant,p.%3D,ENST00000535426,;MAP3K13,synonymous_variant,p.%3D,ENST00000443863,;MAP3K13,synonymous_variant,p.%3D,ENST00000265026,;MAP3K13,synonymous_variant,p.%3D,ENST00000446828,;MAP3K13,synonymous_variant,p.%3D,ENST00000424227,;MAP3K13,3_prime_UTR_variant,,ENST00000438053,;TMEM41A,downstream_gene_variant,,ENST00000382227,;	G	ENSG00000073803	ENST00000265026	Transcript	synonymous_variant	2665	2331	777	E	gaA/gaG	.	.	.	1	MAP3K13	HGNC	6852	protein_coding	YES	CCDS3270.1	ENSP00000265026	M3K13_HUMAN	C9JP65_HUMAN,C9J4W2_HUMAN	UPI000006CF91	.	.	.	11/14	.	PIRSF_domain:PIRSF038165,PIRSF_domain:PIRSF500742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGGAAGAAAA	.	5	BLCA
NR1D2	0	.	GRCh37	3	24018906	24018906	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1736C>G	p.Pro579Arg	p.P579R	ENST00000312521	8/8	69	52	17	51	51	0	NR1D2,missense_variant,p.Pro579Arg,ENST00000312521,;NR1D2,non_coding_transcript_exon_variant,,ENST00000492552,;NR1D2,3_prime_UTR_variant,,ENST00000383773,;	G	ENSG00000174738	ENST00000312521	Transcript	missense_variant	2055	1736	579	P/R	cCt/cGt	.	.	.	1	NR1D2	HGNC	7963	protein_coding	YES	CCDS33718.1	ENSP00000310006	NR1D2_HUMAN	.	UPI0000209A6C	.	deleterious(0)	probably_damaging(0.997)	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACCCTTAAG	.	5	BLCA
TRAK1	0	.	GRCh37	3	42236344	42236344	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1024G>A	p.Glu342Lys	p.E342K	ENST00000327628	10/16	22	18	4	17	17	0	TRAK1,missense_variant,p.Glu268Lys,ENST00000449246,;TRAK1,missense_variant,p.Glu284Lys,ENST00000396175,;TRAK1,missense_variant,p.Glu60Lys,ENST00000427771,;TRAK1,missense_variant,p.Glu284Lys,ENST00000341421,;TRAK1,missense_variant,p.Glu342Lys,ENST00000327628,;TRAK1,non_coding_transcript_exon_variant,,ENST00000487159,;TRAK1,non_coding_transcript_exon_variant,,ENST00000484786,;	A	ENSG00000182606	ENST00000327628	Transcript	missense_variant	1424	1024	342	E/K	Gag/Aag	.	.	.	1	TRAK1	HGNC	29947	protein_coding	YES	CCDS43072.1	ENSP00000328998	TRAK1_HUMAN	.	UPI0000139F52	.	deleterious(0)	possibly_damaging(0.831)	10/16	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15751:SF11,hmmpanther:PTHR15751,Pfam_domain:PF04849	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCATGAGGCG	.	4	BLCA
LRTM1	0	.	GRCh37	3	54962052	54962052	+	5'UTR	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-114C>T	.	.	ENST00000273286	1/3	38	33	5	26	26	0	LRTM1,5_prime_UTR_variant,,ENST00000273286,;CACNA2D3,intron_variant,,ENST00000474759,;LRTM1,intron_variant,,ENST00000493075,;CACNA2D3,intron_variant,,ENST00000415676,;CACNA2D3,intron_variant,,ENST00000490478,;CACNA2D3,intron_variant,,ENST00000288197,;CACNA2D3,intron_variant,,ENST00000471363,;	A	ENSG00000144771	ENST00000273286	Transcript	5_prime_UTR_variant	50	.	.	.	.	.	.	.	-1	LRTM1	HGNC	25023	protein_coding	YES	CCDS2876.1	ENSP00000273286	LRTM1_HUMAN	.	UPI000006CEEC	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCTGAACCC	.	4	BLCA
PDE12	0	.	GRCh37	3	57545297	57545297	+	Missense_Mutation	SNP	A	A	G	rs763230699	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1396A>G	p.Ile466Val	p.I466V	ENST00000311180	3/3	77	66	11	62	62	0	PDE12,missense_variant,p.Ile466Val,ENST00000311180,;PDE12,3_prime_UTR_variant,,ENST00000487257,;	G	ENSG00000174840	ENST00000311180	Transcript	missense_variant	1499	1396	466	I/V	Att/Gtt	rs763230699	.	.	1	PDE12	HGNC	25386	protein_coding	YES	CCDS33772.1	ENSP00000309142	PDE12_HUMAN	.	UPI000049DFA7	.	tolerated(0.24)	benign(0.233)	3/3	.	hmmpanther:PTHR12121:SF37,hmmpanther:PTHR12121,Gene3D:3.60.10.10,Pfam_domain:PF03372,Superfamily_domains:SSF56219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTATATTCGC	.	2	BLCA
TMF1	0	.	GRCh37	3	69087847	69087847	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2019C>T	p.%3D	p.A673A	ENST00000398559	8/17	148	116	31	114	114	0	TMF1,synonymous_variant,p.%3D,ENST00000398559,;TMF1,synonymous_variant,p.%3D,ENST00000543976,;CTD-2013N24.2,intron_variant,,ENST00000596523,;CTD-2013N24.2,intron_variant,,ENST00000597950,;CTD-2013N24.2,intron_variant,,ENST00000596732,;CTD-2013N24.2,intron_variant,,ENST00000598783,;CTD-2013N24.2,intron_variant,,ENST00000601735,;CTD-2013N24.2,intron_variant,,ENST00000595925,;CTD-2013N24.2,intron_variant,,ENST00000482368,;CTD-2013N24.2,intron_variant,,ENST00000596274,;CTD-2013N24.2,downstream_gene_variant,,ENST00000601511,;CTD-2013N24.2,downstream_gene_variant,,ENST00000599467,;TMF1,synonymous_variant,p.%3D,ENST00000488010,;	A	ENSG00000144747	ENST00000398559	Transcript	synonymous_variant	2236	2019	673	A	gcC/gcT	.	.	.	-1	TMF1	HGNC	11870	protein_coding	YES	CCDS43105.1	ENSP00000381567	TMF1_HUMAN	.	UPI000013D9A7	.	.	.	8/17	.	hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF285	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTGGCTTT	.	5	BLCA
EPHA3	0	.	GRCh37	3	89259167	89259167	+	Missense_Mutation	SNP	G	G	C	rs753700696	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.311G>C	p.Arg104Pro	p.R104P	ENST00000336596	3/17	92	73	19	83	83	0	EPHA3,missense_variant,p.Arg104Pro,ENST00000494014,;EPHA3,missense_variant,p.Arg104Pro,ENST00000452448,;EPHA3,missense_variant,p.Arg104Pro,ENST00000336596,;	C	ENSG00000044524	ENST00000336596	Transcript	missense_variant	536	311	104	R/P	cGa/cCa	rs753700696,COSM3597858,COSM3597859	.	.	1	EPHA3	HGNC	3387	protein_coding	YES	CCDS2922.1	ENSP00000337451	EPHA3_HUMAN	.	UPI0000163BE4	.	deleterious(0)	probably_damaging(0.997)	3/17	.	PROSITE_profiles:PS51550,hmmpanther:PTHR24416:SF18,hmmpanther:PTHR24416,Pfam_domain:PF01404,Gene3D:2.60.120.260,SMART_domains:SM00615,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTACGAGACT	.	5	BLCA
ANK2	0	.	GRCh37	4	114158181	114158181	+	Silent	SNP	A	A	G	rs781072009	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522A>G	p.%3D	p.G174G	ENST00000357077	6/46	84	63	20	75	75	0	ANK2,synonymous_variant,p.%3D,ENST00000503271,;ANK2,synonymous_variant,p.%3D,ENST00000264366,;ANK2,synonymous_variant,p.%3D,ENST00000503423,;ANK2,synonymous_variant,p.%3D,ENST00000394537,;ANK2,synonymous_variant,p.%3D,ENST00000515034,;ANK2,synonymous_variant,p.%3D,ENST00000506722,;ANK2,synonymous_variant,p.%3D,ENST00000357077,;ANK2,synonymous_variant,p.%3D,ENST00000504454,;ANK2,downstream_gene_variant,,ENST00000508613,;	G	ENSG00000145362	ENST00000357077	Transcript	synonymous_variant	575	522	174	G	ggA/ggG	rs781072009	.	.	1	ANK2	HGNC	493	protein_coding	YES	CCDS3702.1	ENSP00000349588	ANK2_HUMAN	D6RHC5_HUMAN	UPI0000441EF3	.	.	.	6/46	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24123:SF17,hmmpanther:PTHR24123,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGGACACAA	.	5	BLCA
SPON2	0	.	GRCh37	4	1161258	1161258	+	3'UTR	SNP	T	T	G	rs768525585	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2A>C	.	.	ENST00000290902	6/6	72	61	11	48	48	0	SPON2,3_prime_UTR_variant,,ENST00000290902,;SPON2,3_prime_UTR_variant,,ENST00000431380,;SPON2,downstream_gene_variant,,ENST00000511679,;SPON2,downstream_gene_variant,,ENST00000502483,;SPON2,downstream_gene_variant,,ENST00000503765,;SPON2,downstream_gene_variant,,ENST00000509233,;SPON2,downstream_gene_variant,,ENST00000514490,;SPON2,downstream_gene_variant,,ENST00000511672,;SPON2,downstream_gene_variant,,ENST00000515004,;RP11-20I20.4,upstream_gene_variant,,ENST00000609548,;SPON2,downstream_gene_variant,,ENST00000509697,;SPON2,downstream_gene_variant,,ENST00000512888,;SPON2,downstream_gene_variant,,ENST00000512150,;SPON2,downstream_gene_variant,,ENST00000507466,;SPON2,downstream_gene_variant,,ENST00000504909,;	G	ENSG00000159674	ENST00000290902	Transcript	3_prime_UTR_variant	1331	.	.	.	.	rs768525585	.	.	-1	SPON2	HGNC	11253	protein_coding	YES	CCDS3347.1	ENSP00000290902	SPON2_HUMAN	D6RIH5_HUMAN,D6REX2_HUMAN,D6RBY3_HUMAN,D6RB12_HUMAN	UPI000004F20E	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTGGTCTTAG	byFrequency	4	BLCA
PDE5A	0	.	GRCh37	4	120463680	120463680	+	Silent	SNP	C	C	T	rs200062137	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1506G>A	p.%3D	p.G502G	ENST00000354960	10/21	76	59	16	45	45	0	PDE5A,synonymous_variant,p.%3D,ENST00000264805,;PDE5A,synonymous_variant,p.%3D,ENST00000354960,;PDE5A,synonymous_variant,p.%3D,ENST00000394439,;PDE5A,non_coding_transcript_exon_variant,,ENST00000512739,;RP11-33B1.1,intron_variant,,ENST00000498873,;RP11-33B1.1,intron_variant,,ENST00000500559,;PDE5A,upstream_gene_variant,,ENST00000513594,;PDE5A,upstream_gene_variant,,ENST00000502912,;	T	ENSG00000138735	ENST00000354960	Transcript	synonymous_variant	1826	1506	502	G	ggG/ggA	rs200062137	.	.	-1	PDE5A	HGNC	8784	protein_coding	YES	CCDS3713.1	ENSP00000347046	PDE5A_HUMAN	Q9P0K6_HUMAN,Q9P0K4_HUMAN,Q4W5L4_HUMAN,G5E9C5_HUMAN,C9JGT3_HUMAN	UPI000013D571	.	.	.	10/21	.	hmmpanther:PTHR11347:SF21,hmmpanther:PTHR11347,Gene3D:3.30.450.40,Pfam_domain:PF01590,SMART_domains:SM00065,Superfamily_domains:SSF55781	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATCCCCAA	byCluster|by1000G	5	BLCA
NAA15	0	.	GRCh37	4	140278629	140278629	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1177G>T	p.Ala393Ser	p.A393S	ENST00000296543	11/20	49	42	7	44	44	0	NAA15,missense_variant,p.Ala393Ser,ENST00000296543,;NAA15,missense_variant,p.Ala393Ser,ENST00000398947,;NAA15,non_coding_transcript_exon_variant,,ENST00000468029,;	T	ENSG00000164134	ENST00000296543	Transcript	missense_variant	1500	1177	393	A/S	Gct/Tct	.	.	.	1	NAA15	HGNC	30782	protein_coding	YES	CCDS43270.1	ENSP00000296543	NAA15_HUMAN	.	UPI000004B631	.	deleterious(0.02)	benign(0.364)	11/20	.	Superfamily_domains:SSF48452,PIRSF_domain:PIRSF000422,SMART_domains:SM00028,Gene3D:1.25.40.10,Pfam_domain:PF12569,hmmpanther:PTHR22767,hmmpanther:PTHR22767:SF4,PROSITE_profiles:PS50005,PROSITE_profiles:PS50293	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|VARSCANS	CTATTGCTTTG	.	3	BLCA
NAA15	0	.	GRCh37	4	140278630	140278630	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1178C>T	p.Ala393Val	p.A393V	ENST00000296543	11/20	49	41	7	43	43	0	NAA15,missense_variant,p.Ala393Val,ENST00000296543,;NAA15,missense_variant,p.Ala393Val,ENST00000398947,;NAA15,non_coding_transcript_exon_variant,,ENST00000468029,;	T	ENSG00000164134	ENST00000296543	Transcript	missense_variant	1501	1178	393	A/V	gCt/gTt	.	.	.	1	NAA15	HGNC	30782	protein_coding	YES	CCDS43270.1	ENSP00000296543	NAA15_HUMAN	.	UPI000004B631	.	deleterious(0)	probably_damaging(0.936)	11/20	.	Superfamily_domains:SSF48452,PIRSF_domain:PIRSF000422,SMART_domains:SM00028,Gene3D:1.25.40.10,Pfam_domain:PF12569,hmmpanther:PTHR22767,hmmpanther:PTHR22767:SF4,PROSITE_profiles:PS50005,PROSITE_profiles:PS50293	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|VARSCANS	TATTGCTTTGG	.	3	BLCA
ARHGAP10	0	.	GRCh37	4	148993173	148993173	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2302G>T	p.Glu768Ter	p.E768*	ENST00000336498	23/23	49	41	7	47	47	0	ARHGAP10,stop_gained,p.Glu395Ter,ENST00000507661,;ARHGAP10,stop_gained,p.Glu768Ter,ENST00000336498,;ARHGAP10,stop_gained,p.Glu366Ter,ENST00000414545,;ARHGAP10,non_coding_transcript_exon_variant,,ENST00000510076,;ARHGAP10,non_coding_transcript_exon_variant,,ENST00000506020,;ARHGAP10,non_coding_transcript_exon_variant,,ENST00000506054,;	T	ENSG00000071205	ENST00000336498	Transcript	stop_gained	2541	2302	768	E/*	Gaa/Taa	.	.	.	1	ARHGAP10	HGNC	26099	protein_coding	YES	CCDS34075.1	ENSP00000336923	RHG10_HUMAN	Q8ND72_HUMAN,Q3KQX3_HUMAN	UPI000013EA63	.	.	.	23/23	.	PROSITE_profiles:PS50002,hmmpanther:PTHR12552,hmmpanther:PTHR12552:SF5,Pfam_domain:PF14604,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTAGAAGGG	.	4	BLCA
VEGFC	0	.	GRCh37	4	177605147	177605147	+	Missense_Mutation	SNP	C	C	T	rs759656061	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1193G>A	p.Gly398Glu	p.G398E	ENST00000280193	7/7	96	77	19	92	92	0	VEGFC,missense_variant,p.Gly398Glu,ENST00000280193,;RP11-313E19.2,intron_variant,,ENST00000509194,;RP11-313E19.2,intron_variant,,ENST00000504017,;	T	ENSG00000150630	ENST00000280193	Transcript	missense_variant	1609	1193	398	G/E	gGa/gAa	rs759656061	.	.	-1	VEGFC	HGNC	12682	protein_coding	YES	CCDS43285.1	ENSP00000280193	VEGFC_HUMAN	.	UPI000020B749	.	deleterious(0.04)	probably_damaging(0.941)	7/7	.	hmmpanther:PTHR12025,hmmpanther:PTHR12025:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATCCTGGC	.	5	BLCA
JAKMIP1	0	.	GRCh37	4	6107452	6107452	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372G>A	p.%3D	p.A124A	ENST00000409021	3/21	16	8	8	10	10	0	JAKMIP1,synonymous_variant,p.%3D,ENST00000409021,;JAKMIP1,synonymous_variant,p.%3D,ENST00000409831,;JAKMIP1,synonymous_variant,p.%3D,ENST00000282924,;JAKMIP1,intron_variant,,ENST00000409371,;JAKMIP1,intron_variant,,ENST00000410077,;JAKMIP1,intron_variant,,ENST00000457227,;JAKMIP1,synonymous_variant,p.%3D,ENST00000473053,;	T	ENSG00000152969	ENST00000409021	Transcript	synonymous_variant	822	372	124	A	gcG/gcA	.	.	.	-1	JAKMIP1	HGNC	26460	protein_coding	YES	CCDS47005.1	ENSP00000386711	JKIP1_HUMAN	F2Z2K5_HUMAN	UPI00015734C1	.	.	.	3/21	.	hmmpanther:PTHR18935,hmmpanther:PTHR18935:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGGCCGCGCC	.	2	BLCA
SEC31A	0	.	GRCh37	4	83763479	83763479	+	Missense_Mutation	SNP	C	C	A	rs142882690	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2782G>T	p.Ala928Ser	p.A928S	ENST00000395310	22/27	27	19	8	12	12	0	SEC31A,missense_variant,p.Ala928Ser,ENST00000448323,;SEC31A,missense_variant,p.Ala889Ser,ENST00000505984,;SEC31A,missense_variant,p.Ala692Ser,ENST00000264405,;SEC31A,missense_variant,p.Ala928Ser,ENST00000395310,;SEC31A,missense_variant,p.Ala928Ser,ENST00000508502,;SEC31A,missense_variant,p.Ala959Ser,ENST00000505472,;SEC31A,missense_variant,p.Ala928Ser,ENST00000432794,;SEC31A,missense_variant,p.Ala78Ser,ENST00000503937,;SEC31A,missense_variant,p.Ala928Ser,ENST00000355196,;SEC31A,missense_variant,p.Ala923Ser,ENST00000443462,;SEC31A,missense_variant,p.Ala889Ser,ENST00000326950,;SEC31A,missense_variant,p.Ala889Ser,ENST00000348405,;SEC31A,intron_variant,,ENST00000511338,;SEC31A,intron_variant,,ENST00000311785,;SEC31A,intron_variant,,ENST00000500777,;SEC31A,intron_variant,,ENST00000509142,;SEC31A,intron_variant,,ENST00000513858,;SEC31A,downstream_gene_variant,,ENST00000508479,;SEC31A,non_coding_transcript_exon_variant,,ENST00000515749,;	A	ENSG00000138674	ENST00000395310	Transcript	missense_variant	2965	2782	928	A/S	Gca/Tca	rs142882690	.	.	-1	SEC31A	HGNC	17052	protein_coding	YES	CCDS3596.1	ENSP00000378721	SC31A_HUMAN	U3KQC9_HUMAN,D6REC0_HUMAN,D6REA9_HUMAN,D6RE64_HUMAN,D6RCQ9_HUMAN,D6RBT0_HUMAN	UPI000003E7E1	.	tolerated(0.54)	benign(0.002)	22/27	.	hmmpanther:PTHR13923:SF23,hmmpanther:PTHR13923	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGCTGCGT	byCluster	4	BLCA
PKD2	0	.	GRCh37	4	88987031	88987031	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2358G>A	p.%3D	p.R786R	ENST00000237596	12/15	49	40	9	50	50	0	PKD2,synonymous_variant,p.%3D,ENST00000237596,;PKD2,synonymous_variant,p.%3D,ENST00000502363,;PKD2,synonymous_variant,p.%3D,ENST00000508588,;PKD2,splice_region_variant,,ENST00000511337,;PKD2,splice_region_variant,,ENST00000512858,;	A	ENSG00000118762	ENST00000237596	Transcript	synonymous_variant	2424	2358	786	R	agG/agA	.	.	.	1	PKD2	HGNC	9009	protein_coding	YES	CCDS3627.1	ENSP00000237596	PKD2_HUMAN	Q9UEU6_HUMAN,B7Z2D4_HUMAN,B4DFN3_HUMAN,B4DE45_HUMAN	UPI000013CA1D	.	.	.	12/15	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF114	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAGGGTGGG	.	5	BLCA
DMXL1	0	.	GRCh37	5	118437645	118437645	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.230delG	p.Gly77GlufsTer36	p.G77Efs*36	ENST00000311085	3/43	50	38	12	36	36	0	DMXL1,frameshift_variant,p.Gly77GlufsTer36,ENST00000539542,;DMXL1,frameshift_variant,p.Gly77GlufsTer36,ENST00000311085,;DMXL1,frameshift_variant,p.Gly77GlufsTer36,ENST00000503802,;DMXL1,non_coding_transcript_exon_variant,,ENST00000515335,;DMXL1,non_coding_transcript_exon_variant,,ENST00000510924,;DMXL1,non_coding_transcript_exon_variant,,ENST00000509902,;DMXL1,upstream_gene_variant,,ENST00000514151,;	-	ENSG00000172869	ENST00000311085	Transcript	frameshift_variant	309	229	77	G/X	Gga/ga	.	.	.	1	DMXL1	HGNC	2937	protein_coding	YES	CCDS4125.1	ENSP00000309690	DMXL1_HUMAN	F1T0K4_HUMAN,E7EMZ0_HUMAN	UPI000013F0EC	.	.	.	3/43	.	hmmpanther:PTHR13950,hmmpanther:PTHR13950:SF12,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCTTATGGAAAT	.	3	BLCA
PCDHGA4	0	.	GRCh37	5	140736874	140736874	+	Missense_Mutation	SNP	G	G	A	rs764785344	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2107G>A	p.Val703Ile	p.V703I	ENST00000571252	1/4	64	50	13	52	52	0	PCDHGA4,missense_variant,p.Val703Ile,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGB2,upstream_gene_variant,,ENST00000522605,;	A	ENSG00000262576	ENST00000571252	Transcript	missense_variant	2107	2107	703	V/I	Gtc/Atc	rs764785344,COSM1650349,COSM1650348	.	.	1	PCDHGA4	HGNC	8702	protein_coding	YES	CCDS58979.1	ENSP00000458570	PCDG4_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000070861	.	tolerated_low_confidence(0.18)	benign(0.046)	1/4	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24028:SF94,hmmpanther:PTHR24028	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGCGTCTTC	.	5	BLCA
CAMK2A	0	.	GRCh37	5	149669140	149669140	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49G>C	p.Glu17Gln	p.E17Q	ENST00000398376	1/19	68	59	8	58	58	0	CAMK2A,missense_variant,p.Glu17Gln,ENST00000348628,;CAMK2A,missense_variant,p.Glu17Gln,ENST00000510347,;CAMK2A,missense_variant,p.Glu17Gln,ENST00000398376,;CAMK2A,non_coding_transcript_exon_variant,,ENST00000507995,;CAMK2A,non_coding_transcript_exon_variant,,ENST00000508662,;	G	ENSG00000070808	ENST00000398376	Transcript	missense_variant	53	49	17	E/Q	Gag/Cag	COSM1064323	.	.	-1	CAMK2A	HGNC	1460	protein_coding	YES	CCDS43387.1	ENSP00000381412	KCC2A_HUMAN	D6RHX9_HUMAN,D6RFJ0_HUMAN,A8K161_HUMAN	UPI0000161115	.	deleterious_low_confidence(0.01)	possibly_damaging(0.698)	1/19	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR24347:SF158,hmmpanther:PTHR24347,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCGAAGA	.	4	BLCA
MYOZ3	0	.	GRCh37	5	150056288	150056288	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>T	p.Gly203Ter	p.G203*	ENST00000297130	7/7	78	70	8	60	60	0	MYOZ3,stop_gained,p.Gly203Ter,ENST00000297130,;MYOZ3,stop_gained,p.Gly203Ter,ENST00000517768,;MYOZ3,missense_variant,p.Arg119Met,ENST00000520112,;MYOZ3,downstream_gene_variant,,ENST00000523553,;CTC-345K18.2,upstream_gene_variant,,ENST00000511626,;MYOZ3,non_coding_transcript_exon_variant,,ENST00000456566,;MYOZ3,non_coding_transcript_exon_variant,,ENST00000521300,;MYOZ3,downstream_gene_variant,,ENST00000524256,;	T	ENSG00000164591	ENST00000297130	Transcript	stop_gained	806	607	203	G/*	Gga/Tga	.	.	.	1	MYOZ3	HGNC	18565	protein_coding	YES	CCDS4309.1	ENSP00000297130	MYOZ3_HUMAN	H0YC50_HUMAN	UPI000013E3C8	.	.	.	7/7	.	hmmpanther:PTHR15941:SF10,hmmpanther:PTHR15941,Pfam_domain:PF05556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TTGGAGGACCC	.	3	BLCA
ZNF300	0	.	GRCh37	5	150276496	150276496	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.353T>C	p.Leu118Ser	p.L118S	ENST00000446148	7/7	80	64	16	68	68	0	ZNF300,missense_variant,p.Leu66Ser,ENST00000418587,;ZNF300,missense_variant,p.Leu102Ser,ENST00000274599,;ZNF300,missense_variant,p.Leu102Ser,ENST00000394226,;ZNF300,missense_variant,p.Leu118Ser,ENST00000446148,;ZNF300,3_prime_UTR_variant,,ENST00000427179,;IRGM,intron_variant,,ENST00000520549,;	G	ENSG00000145908	ENST00000446148	Transcript	missense_variant	781	353	118	L/S	tTg/tCg	.	.	.	-1	ZNF300	HGNC	13091	protein_coding	YES	CCDS54940.1	ENSP00000397178	.	J3KQF6_HUMAN	UPI0001AE74AD	.	tolerated(0.73)	possibly_damaging(0.647)	7/7	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF288	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCCAAAATA	.	5	BLCA
FBXL7	0	.	GRCh37	5	15936981	15936981	+	Missense_Mutation	SNP	G	G	T	rs771503233	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1162G>T	p.Gly388Cys	p.G388C	ENST00000504595	4/4	28	23	5	28	28	0	FBXL7,missense_variant,p.Gly376Cys,ENST00000329673,;FBXL7,missense_variant,p.Gly341Cys,ENST00000510662,;FBXL7,missense_variant,p.Gly388Cys,ENST00000504595,;MIR887,downstream_gene_variant,,ENST00000401258,;	T	ENSG00000183580	ENST00000504595	Transcript	missense_variant	1643	1162	388	G/C	Ggc/Tgc	rs771503233,COSM1065145	.	.	1	FBXL7	HGNC	13604	protein_coding	YES	CCDS54833.1	ENSP00000423630	FBXL7_HUMAN	J3KNM9_HUMAN,D6RDY7_HUMAN	UPI00000724E0	.	deleterious(0.01)	probably_damaging(0.995)	4/4	.	hmmpanther:PTHR23125:SF70,hmmpanther:PTHR23125,Pfam_domain:PF13516,Gene3D:3.80.10.10,SMART_domains:SM00367,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGAGGGCATC	.	4	BLCA
PDZD2	0	.	GRCh37	5	32093105	32093105	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7820T>C	p.Ile2607Thr	p.I2607T	ENST00000438447	21/25	72	52	19	57	57	0	PDZD2,missense_variant,p.Ile2607Thr,ENST00000438447,;PDZD2,missense_variant,p.Ile2607Thr,ENST00000282493,;	C	ENSG00000133401	ENST00000438447	Transcript	missense_variant	8208	7820	2607	I/T	aTt/aCt	.	.	.	1	PDZD2	HGNC	18486	protein_coding	YES	CCDS34137.1	ENSP00000402033	PDZD2_HUMAN	B4DGS3_HUMAN	UPI000069648B	.	deleterious(0)	possibly_damaging(0.649)	21/25	.	hmmpanther:PTHR11324:SF16,hmmpanther:PTHR11324,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCATTCAGG	.	5	BLCA
TARS	0	.	GRCh37	5	33455765	33455765	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>C	p.Glu250Gln	p.E250Q	ENST00000455217	7/20	77	63	13	41	41	0	TARS,missense_variant,p.Glu217Gln,ENST00000502553,;TARS,missense_variant,p.Glu217Gln,ENST00000265112,;TARS,missense_variant,p.Glu113Gln,ENST00000541634,;TARS,missense_variant,p.Glu250Gln,ENST00000455217,;TARS,missense_variant,p.Glu96Gln,ENST00000414361,;TARS,downstream_gene_variant,,ENST00000514259,;TARS,3_prime_UTR_variant,,ENST00000509731,;TARS,3_prime_UTR_variant,,ENST00000507716,;TARS,3_prime_UTR_variant,,ENST00000508361,;TARS,downstream_gene_variant,,ENST00000513066,;TARS,upstream_gene_variant,,ENST00000504698,;TARS,downstream_gene_variant,,ENST00000505012,;	C	ENSG00000113407	ENST00000455217	Transcript	missense_variant	870	748	250	E/Q	Gaa/Caa	.	.	.	1	TARS	HGNC	11572	protein_coding	YES	CCDS58943.1	ENSP00000387710	SYTC_HUMAN	D6RBR8_HUMAN	UPI00017A6D60	.	tolerated(0.06)	possibly_damaging(0.468)	7/20	.	Superfamily_domains:SSF55186,Gene3D:1tkeA03,TIGRFAM_domain:TIGR00418,hmmpanther:PTHR11451,hmmpanther:PTHR11451:SF23,HAMAP:MF_00184,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTGAAAGA	.	5	BLCA
NADK2	0	.	GRCh37	5	36195210	36195210	+	3'UTR	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*36G>A	.	.	ENST00000381937	12/12	48	40	8	24	24	0	NADK2,3_prime_UTR_variant,,ENST00000502355,;NADK2,3_prime_UTR_variant,,ENST00000282512,;NADK2,3_prime_UTR_variant,,ENST00000506945,;NADK2,3_prime_UTR_variant,,ENST00000397338,;NADK2,3_prime_UTR_variant,,ENST00000381937,;NADK2,downstream_gene_variant,,ENST00000514504,;NADK2,non_coding_transcript_exon_variant,,ENST00000511613,;NADK2,non_coding_transcript_exon_variant,,ENST00000509225,;NADK2,non_coding_transcript_exon_variant,,ENST00000404560,;	T	ENSG00000152620	ENST00000381937	Transcript	3_prime_UTR_variant	1365	.	.	.	.	.	.	.	-1	NADK2	HGNC	26404	protein_coding	YES	CCDS47197.1	ENSP00000371362	NAKD2_HUMAN	Q49AR0_HUMAN,D6RHI4_HUMAN	UPI000150640C	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTCTCGCC	.	5	BLCA
CARD6	0	.	GRCh37	5	40853064	40853064	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1630G>T	p.Gly544Cys	p.G544C	ENST00000254691	3/3	112	93	19	85	85	0	CARD6,missense_variant,p.Gly544Cys,ENST00000254691,;CARD6,intron_variant,,ENST00000381677,;	T	ENSG00000132357	ENST00000254691	Transcript	missense_variant	1829	1630	544	G/C	Ggt/Tgt	.	.	.	1	CARD6	HGNC	16394	protein_coding	YES	CCDS3935.1	ENSP00000254691	CARD6_HUMAN	.	UPI000013CE50	.	deleterious(0)	possibly_damaging(0.894)	3/3	.	hmmpanther:PTHR22797:SF26,hmmpanther:PTHR22797	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTGGTTTT	.	5	BLCA
MROH2B	0	.	GRCh37	5	41009477	41009477	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3325G>A	p.Glu1109Lys	p.E1109K	ENST00000399564	32/42	120	90	29	73	73	0	MROH2B,missense_variant,p.Glu664Lys,ENST00000506092,;MROH2B,missense_variant,p.Glu1109Lys,ENST00000399564,;MROH2B,non_coding_transcript_exon_variant,,ENST00000515297,;MROH2B,non_coding_transcript_exon_variant,,ENST00000503890,;	T	ENSG00000171495	ENST00000399564	Transcript	missense_variant	3776	3325	1109	E/K	Gaa/Aaa	COSM1311154,COSM3828078	.	.	-1	MROH2B	HGNC	26857	protein_coding	YES	CCDS47202.1	ENSP00000382476	MRO2B_HUMAN	F5GZ06_HUMAN	UPI000020CA04	.	tolerated(0.25)	benign(0.064)	32/42	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF15,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCAGCCA	.	5	BLCA
C5orf55	0	.	GRCh37	5	442599	442599	+	Silent	SNP	G	G	A	rs770480125	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339C>T	p.%3D	p.R113R	ENST00000408966	1/1	62	45	17	37	37	0	C5orf55,synonymous_variant,p.%3D,ENST00000408966,;EXOC3,upstream_gene_variant,,ENST00000508022,;EXOC3,upstream_gene_variant,,ENST00000315013,;EXOC3,upstream_gene_variant,,ENST00000512944,;AHRR,downstream_gene_variant,,ENST00000316418,;EXOC3,upstream_gene_variant,,ENST00000510441,;EXOC3,upstream_gene_variant,,ENST00000515601,;	A	ENSG00000221990	ENST00000408966	Transcript	synonymous_variant	660	339	113	R	cgC/cgT	rs770480125	.	.	-1	C5orf55	HGNC	25175	protein_coding	YES	CCDS43298.1	ENSP00000386139	CE055_HUMAN	.	UPI00000718E4	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGCGCGGCC	.	5	BLCA
ADAMTS16	0	.	GRCh37	5	5232609	5232609	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1830T>G	p.Ser610Arg	p.S610R	ENST00000274181	12/23	72	61	10	53	53	0	ADAMTS16,missense_variant,p.Ser610Arg,ENST00000274181,;ADAMTS16,upstream_gene_variant,,ENST00000513709,;ADAMTS16,non_coding_transcript_exon_variant,,ENST00000433402,;	G	ENSG00000145536	ENST00000274181	Transcript	missense_variant	1968	1830	610	S/R	agT/agG	COSM1244295,COSM1244294	.	.	1	ADAMTS16	HGNC	17108	protein_coding	YES	CCDS43299.1	ENSP00000274181	ATS16_HUMAN	B2G3Q1_HUMAN	UPI00004572CA	.	tolerated(0.08)	benign(0.158)	12/23	.	PROSITE_profiles:PS50092,hmmpanther:PTHR13723:SF140,hmmpanther:PTHR13723,Gene3D:2.20.100.10,Pfam_domain:PF00090,SMART_domains:SM00209,Superfamily_domains:SSF82895,Prints_domain:PR01857	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAGTCGCCT	.	5	BLCA
FST	0	.	GRCh37	5	52778754	52778754	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130G>T	p.Val44Phe	p.V44F	ENST00000256759	2/6	28	18	10	21	21	0	FST,missense_variant,p.Val44Phe,ENST00000396947,;FST,missense_variant,p.Val44Phe,ENST00000256759,;FST,upstream_gene_variant,,ENST00000497789,;FST,upstream_gene_variant,,ENST00000504226,;FST,non_coding_transcript_exon_variant,,ENST00000491717,;	T	ENSG00000134363	ENST00000256759	Transcript	missense_variant	513	130	44	V/F	Gtc/Ttc	.	.	.	1	FST	HGNC	3971	protein_coding	YES	CCDS3959.1	ENSP00000256759	FST_HUMAN	.	UPI000012AC56	.	tolerated(0.11)	benign(0.32)	2/6	.	PROSITE_profiles:PS51364,hmmpanther:PTHR10913,hmmpanther:PTHR10913:SF6,Superfamily_domains:SSF57581	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAGGTCCTG	.	5	BLCA
IPO11	0	.	GRCh37	5	61887442	61887442	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2741C>T	p.Ser914Leu	p.S914L	ENST00000409296	28/30	45	41	4	40	40	0	IPO11,missense_variant,p.Ser139Leu,ENST00000511713,;IPO11,missense_variant,p.Ser914Leu,ENST00000409296,;IPO11,missense_variant,p.Ser874Leu,ENST00000325324,;IPO11,5_prime_UTR_variant,,ENST00000409534,;IPO11,non_coding_transcript_exon_variant,,ENST00000511133,;	T	ENSG00000086200	ENST00000409296	Transcript	missense_variant	2871	2741	914	S/L	tCa/tTa	.	.	.	1	IPO11	HGNC	20628	protein_coding	YES	CCDS47217.1	ENSP00000386992	IPO11_HUMAN	E7EMB7_HUMAN,D6RJB1_HUMAN,D6RCQ2_HUMAN,D6RCN7_HUMAN	UPI00017EE9F4	.	tolerated(0.38)	benign(0.002)	28/30	.	hmmpanther:PTHR10997:SF7,hmmpanther:PTHR10997,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CATTTCAGTAG	.	3	BLCA
FCHO2	0	.	GRCh37	5	72377797	72377799	+	Frame_Shift_Del	DEL	CCC	CCC	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	CCC	CCC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2168_2170delCCCinsT	p.Pro723LeufsTer17	p.P723Lfs*17	ENST00000430046	23/26	96	71	25	65	65	0	FCHO2,frameshift_variant,p.Pro690LeufsTer17,ENST00000512348,;FCHO2,frameshift_variant,p.Pro723LeufsTer17,ENST00000341845,;FCHO2,frameshift_variant,p.Pro723LeufsTer17,ENST00000430046,;FCHO2,downstream_gene_variant,,ENST00000508431,;	T	ENSG00000157107	ENST00000430046	Transcript	frameshift_variant	2284-2286	2168-2170	723-724	PP/LX	cCCCct/cTct	.	.	.	1	FCHO2	HGNC	25180	protein_coding	YES	CCDS47230.1	ENSP00000393776	FCHO2_HUMAN	B4DEU7_HUMAN	UPI000019971A	.	.	.	23/26	.	PROSITE_profiles:PS51072,hmmpanther:PTHR23065,hmmpanther:PTHR23065:SF8,Pfam_domain:PF10291	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	CCCTTCCCCCTGCA	.	5	BLCA
F2R	0	.	GRCh37	5	76029019	76029019	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.969C>T	p.%3D	p.I323I	ENST00000319211	2/2	80	75	5	64	64	0	F2R,synonymous_variant,p.%3D,ENST00000319211,;	T	ENSG00000181104	ENST00000319211	Transcript	synonymous_variant	1234	969	323	I	atC/atT	.	.	.	1	F2R	HGNC	3537	protein_coding	YES	CCDS4032.1	ENSP00000321326	PAR1_HUMAN	Q71UT7_HUMAN,Q6LCF1_HUMAN	UPI0000131312	.	.	.	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24232:SF20,hmmpanther:PTHR24232,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01428,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCATCATTTG	.	2	BLCA
F2RL1	0	.	GRCh37	5	76128930	76128930	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498G>A	p.Met166Ile	p.M166I	ENST00000296677	2/2	200	160	40	156	156	0	F2RL1,missense_variant,p.Met166Ile,ENST00000296677,;F2RL1,missense_variant,p.Met72Ile,ENST00000514165,;RN7SL208P,downstream_gene_variant,,ENST00000577964,;	A	ENSG00000164251	ENST00000296677	Transcript	missense_variant	704	498	166	M/I	atG/atA	.	.	.	1	F2RL1	HGNC	3538	protein_coding	YES	CCDS4033.1	ENSP00000296677	PAR2_HUMAN	D6RJH3_HUMAN	UPI000013E36E	.	tolerated(1)	benign(0.013)	2/2	.	Transmembrane_helices:TMhelix,Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR24232,hmmpanther:PTHR24232:SF21,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATGACCTG	.	5	BLCA
VCAN	0	.	GRCh37	5	82837857	82837857	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9035C>T	p.Pro3012Leu	p.P3012L	ENST00000265077	8/15	62	42	19	42	42	0	VCAN,missense_variant,p.Pro3012Leu,ENST00000265077,;VCAN,missense_variant,p.Pro2025Leu,ENST00000343200,;VCAN,intron_variant,,ENST00000342785,;VCAN,intron_variant,,ENST00000502527,;VCAN,intron_variant,,ENST00000512590,;VCAN,downstream_gene_variant,,ENST00000513960,;VCAN-AS1,intron_variant,,ENST00000513899,;VCAN-AS1,intron_variant,,ENST00000512090,;VCAN,non_coding_transcript_exon_variant,,ENST00000513016,;VCAN,non_coding_transcript_exon_variant,,ENST00000507162,;VCAN,downstream_gene_variant,,ENST00000515397,;	T	ENSG00000038427	ENST00000265077	Transcript	missense_variant	9600	9035	3012	P/L	cCt/cTt	.	.	.	1	VCAN	HGNC	2464	protein_coding	YES	CCDS4060.1	ENSP00000265077	CSPG2_HUMAN	.	UPI000013178B	.	tolerated(0.68)	benign(0.016)	8/15	.	hmmpanther:PTHR22804:SF6,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACCCTGAAA	.	5	BLCA
FOXQ1	0	.	GRCh37	6	1313374	1313376	+	In_Frame_Del	DEL	CAA	CAA	-	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	CAA	CAA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436_438delAAC	p.Asn146del	p.N146del	ENST00000296839	1/1	43	33	10	42	42	0	FOXQ1,inframe_deletion,p.Asn146del,ENST00000296839,;	-	ENSG00000164379	ENST00000296839	Transcript	inframe_deletion	700-702	435-437	145-146	IN/I	atCAAc/atc	.	.	.	1	FOXQ1	HGNC	20951	protein_coding	YES	CCDS4471.1	ENSP00000296839	FOXQ1_HUMAN	.	UPI000013E397	.	.	.	1/1	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829:SF60,hmmpanther:PTHR11829,Gene3D:1.10.10.10,Pfam_domain:PF00250,SMART_domains:SM00339,Superfamily_domains:SSF46785,Prints_domain:PR00053	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	GGAGATCAACGAGT	.	2	BLCA
DCDC2	0	.	GRCh37	6	24178651	24178651	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1233G>T	p.Glu411Asp	p.E411D	ENST00000378454	9/10	129	112	17	84	84	0	DCDC2,missense_variant,p.Glu164Asp,ENST00000378450,;DCDC2,missense_variant,p.Glu411Asp,ENST00000378454,;	A	ENSG00000146038	ENST00000378454	Transcript	missense_variant	1535	1233	411	E/D	gaG/gaT	.	.	.	-1	DCDC2	HGNC	18141	protein_coding	YES	CCDS4550.1	ENSP00000367715	DCDC2_HUMAN	.	UPI000013DA24	.	deleterious_low_confidence(0.01)	possibly_damaging(0.89)	9/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23004:SF5,hmmpanther:PTHR23004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATTCTCCTC	.	4	BLCA
DCDC2	0	.	GRCh37	6	24302032	24302032	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.468C>T	p.%3D	p.L156L	ENST00000378454	4/10	95	68	27	86	86	0	DCDC2,synonymous_variant,p.%3D,ENST00000378454,;	A	ENSG00000146038	ENST00000378454	Transcript	synonymous_variant	770	468	156	L	ctC/ctT	.	.	.	-1	DCDC2	HGNC	18141	protein_coding	YES	CCDS4550.1	ENSP00000367715	DCDC2_HUMAN	.	UPI000013DA24	.	.	.	4/10	.	PROSITE_profiles:PS50309,hmmpanther:PTHR23004:SF5,hmmpanther:PTHR23004,Gene3D:1mfwA00,Pfam_domain:PF03607,SMART_domains:SM00537,Superfamily_domains:SSF89837	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAAGGAGGCG	.	5	BLCA
HIST1H2AD	0	.	GRCh37	6	26199132	26199132	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>C	p.Ala114Pro	p.A114P	ENST00000341023	1/1	94	70	23	88	88	0	HIST1H2AD,missense_variant,p.Ala114Pro,ENST00000341023,;HIST1H3D,5_prime_UTR_variant,,ENST00000377831,;HIST1H2BF,upstream_gene_variant,,ENST00000359985,;HIST1H3D,upstream_gene_variant,,ENST00000356476,;HIST1H1PS1,downstream_gene_variant,,ENST00000404269,;RP1-34B20.4,upstream_gene_variant,,ENST00000405418,;	G	ENSG00000196866	ENST00000341023	Transcript	missense_variant	340	340	114	A/P	Gct/Cct	.	.	.	-1	HIST1H2AD	HGNC	4729	protein_coding	YES	CCDS4591.1	ENSP00000341094	H2A1D_HUMAN	.	UPI0000001C04	.	tolerated_low_confidence(0.15)	benign(0.034)	1/1	.	hmmpanther:PTHR23430:SF24,hmmpanther:PTHR23430,Gene3D:1.10.20.10,SMART_domains:SM00414,Superfamily_domains:SSF47113,Prints_domain:PR00620	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACAGCCTGGA	.	5	BLCA
KIF6	0	.	GRCh37	6	39328252	39328252	+	Silent	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2001G>A	p.%3D	p.L667L	ENST00000287152	18/23	79	59	20	61	61	0	KIF6,synonymous_variant,p.%3D,ENST00000394362,;KIF6,synonymous_variant,p.%3D,ENST00000287152,;KIF6,synonymous_variant,p.%3D,ENST00000373213,;KIF6,synonymous_variant,p.%3D,ENST00000373215,;KIF6,synonymous_variant,p.%3D,ENST00000373216,;KIF6,synonymous_variant,p.%3D,ENST00000229913,;KIF6,synonymous_variant,p.%3D,ENST00000541946,;KIF6,synonymous_variant,p.%3D,ENST00000458470,;KIF6,synonymous_variant,p.%3D,ENST00000538893,;	T	ENSG00000164627	ENST00000287152	Transcript	synonymous_variant	2096	2001	667	L	ttG/ttA	.	.	.	-1	KIF6	HGNC	21202	protein_coding	YES	CCDS4844.1	ENSP00000287152	KIF6_HUMAN	.	UPI0000457436	.	.	.	18/23	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115:SF194,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGCAAGTG	.	5	BLCA
ABCC10	0	.	GRCh37	6	43403613	43403613	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1733C>G	p.Pro578Arg	p.P578R	ENST00000372530	5/22	84	58	25	74	74	0	ABCC10,missense_variant,p.Pro578Arg,ENST00000372530,;ABCC10,missense_variant,p.Pro134Arg,ENST00000372515,;ABCC10,missense_variant,p.Pro535Arg,ENST00000244533,;ABCC10,downstream_gene_variant,,ENST00000443426,;ABCC10,downstream_gene_variant,,ENST00000502549,;ABCC10,non_coding_transcript_exon_variant,,ENST00000463024,;ABCC10,upstream_gene_variant,,ENST00000469856,;	G	ENSG00000124574	ENST00000372530	Transcript	missense_variant	1948	1733	578	P/R	cCa/cGa	.	.	.	1	ABCC10	HGNC	52	protein_coding	YES	CCDS56430.1	ENSP00000361608	MRP7_HUMAN	Q9UFG1_HUMAN,Q8TBA1_HUMAN,D6R9B3_HUMAN	UPI000004A062	.	tolerated(0.16)	probably_damaging(0.921)	5/22	.	hmmpanther:PTHR24223:SF197,hmmpanther:PTHR24223,Gene3D:2hydA01,Superfamily_domains:SSF90123	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTCCAAACC	.	5	BLCA
PKHD1	0	.	GRCh37	6	51908479	51908479	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2765C>G	p.Ser922Cys	p.S922C	ENST00000371117	26/67	46	36	10	33	33	0	PKHD1,missense_variant,p.Ser922Cys,ENST00000340994,;PKHD1,missense_variant,p.Ser922Cys,ENST00000371117,;	C	ENSG00000170927	ENST00000371117	Transcript	missense_variant	3041	2765	922	S/C	tCt/tGt	.	.	.	-1	PKHD1	HGNC	9016	protein_coding	YES	CCDS4935.1	ENSP00000360158	PKHD1_HUMAN	.	UPI000013C4C0	.	deleterious(0)	probably_damaging(0.933)	26/67	.	Gene3D:2.60.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAAAGAGCAG	.	5	BLCA
ZNF451	0	.	GRCh37	6	57012711	57012711	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1828A>G	p.Ile610Val	p.I610V	ENST00000370706	10/15	75	53	22	63	63	0	ZNF451,missense_variant,p.Ile610Val,ENST00000357489,;ZNF451,missense_variant,p.Ile610Val,ENST00000370706,;ZNF451,missense_variant,p.Ile610Val,ENST00000491832,;RP11-203B9.4,non_coding_transcript_exon_variant,,ENST00000589549,;RP11-203B9.4,intron_variant,,ENST00000416069,;RP11-203B9.4,intron_variant,,ENST00000587815,;RP11-203B9.4,intron_variant,,ENST00000586432,;RP11-203B9.4,intron_variant,,ENST00000586053,;RP11-203B9.4,intron_variant,,ENST00000588811,;RP11-203B9.4,intron_variant,,ENST00000591553,;RP11-203B9.4,intron_variant,,ENST00000585792,;RP11-203B9.4,intron_variant,,ENST00000592038,;RP11-203B9.4,intron_variant,,ENST00000592500,;RP11-203B9.4,intron_variant,,ENST00000586668,;RP11-203B9.4,downstream_gene_variant,,ENST00000589263,;RP11-203B9.4,downstream_gene_variant,,ENST00000586466,;ZNF451,non_coding_transcript_exon_variant,,ENST00000444273,;ZNF451,intron_variant,,ENST00000504603,;ZNF451,upstream_gene_variant,,ENST00000508548,;	G	ENSG00000112200	ENST00000370706	Transcript	missense_variant	2072	1828	610	I/V	Att/Gtt	.	.	.	1	ZNF451	HGNC	21091	protein_coding	YES	CCDS43477.1	ENSP00000359740	ZN451_HUMAN	Q96JY2_HUMAN,D6RAV4_HUMAN	UPI000004A571	.	tolerated(0.12)	probably_damaging(0.996)	10/15	.	hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF436,Pfam_domain:PF13894,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGGATTTGT	.	5	BLCA
FBXL4	0	.	GRCh37	6	99347204	99347204	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1257C>G	p.Phe419Leu	p.F419L	ENST00000369244	7/10	104	91	13	86	86	0	FBXL4,missense_variant,p.Phe419Leu,ENST00000229971,;FBXL4,missense_variant,p.Phe419Leu,ENST00000369244,;	C	ENSG00000112234	ENST00000369244	Transcript	missense_variant	1686	1257	419	F/L	ttC/ttG	.	.	.	-1	FBXL4	HGNC	13601	protein_coding	YES	CCDS5041.1	ENSP00000358247	FBXL4_HUMAN	.	UPI000012ADE3	.	tolerated(0.25)	possibly_damaging(0.546)	7/10	.	Superfamily_domains:SSF52047,SMART_domains:SM00367,Gene3D:3.80.10.10,hmmpanther:PTHR23125:SF244,hmmpanther:PTHR23125	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTGAAAGC	.	5	BLCA
COQ3	0	.	GRCh37	6	99819440	99819440	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753T>C	p.%3D	p.T251T	ENST00000254759	6/7	64	52	11	25	25	0	COQ3,synonymous_variant,p.%3D,ENST00000369242,;COQ3,synonymous_variant,p.%3D,ENST00000369240,;COQ3,synonymous_variant,p.%3D,ENST00000254759,;COQ3,downstream_gene_variant,,ENST00000479163,;	G	ENSG00000132423	ENST00000254759	Transcript	synonymous_variant	778	753	251	T	acT/acC	.	.	.	-1	COQ3	HGNC	18175	protein_coding	YES	CCDS5042.1	ENSP00000254759	COQ3_HUMAN	.	UPI000020DFCE	.	.	.	6/7	.	hmmpanther:PTHR23134:SF7,hmmpanther:PTHR23134,TIGRFAM_domain:TIGR01983,Gene3D:3.40.50.150,Pfam_domain:PF13489,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTGTAGTAAT	.	5	BLCA
HBP1	0	.	GRCh37	7	106830730	106830730	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1035T>A	p.Phe345Leu	p.F345L	ENST00000222574	8/11	174	142	32	155	155	0	HBP1,missense_variant,p.Phe345Leu,ENST00000222574,;HBP1,missense_variant,p.Phe345Leu,ENST00000468410,;HBP1,missense_variant,p.Phe337Leu,ENST00000498408,;HBP1,missense_variant,p.Phe345Leu,ENST00000485846,;CTA-363E19.2,downstream_gene_variant,,ENST00000607036,;HBP1,intron_variant,,ENST00000461963,;HBP1,non_coding_transcript_exon_variant,,ENST00000463202,;HBP1,non_coding_transcript_exon_variant,,ENST00000483809,;	A	ENSG00000105856	ENST00000222574	Transcript	missense_variant	1221	1035	345	F/L	ttT/ttA	.	.	.	1	HBP1	HGNC	23200	protein_coding	YES	CCDS5741.1	ENSP00000222574	HBP1_HUMAN	H7C4S2_HUMAN,C9JQU7_HUMAN,C9JPK6_HUMAN,C9JAW1_HUMAN,C9J8V6_HUMAN,C9J5U3_HUMAN,B4DJ36_HUMAN	UPI000006DC04	.	tolerated(0.21)	benign(0.182)	8/11	.	PROSITE_profiles:PS51148,hmmpanther:PTHR15499:SF2,hmmpanther:PTHR15499	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATTTTGATGA	.	4	BLCA
PPP1R3A	0	.	GRCh37	7	113519786	113519786	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1361C>T	p.Pro454Leu	p.P454L	ENST00000284601	4/4	92	80	12	67	67	0	PPP1R3A,missense_variant,p.Pro454Leu,ENST00000284601,;PPP1R3A,missense_variant,p.Pro133Leu,ENST00000449795,;PPP1R3A,downstream_gene_variant,,ENST00000284602,;	A	ENSG00000154415	ENST00000284601	Transcript	missense_variant	1430	1361	454	P/L	cCt/cTt	COSM1084210	.	.	-1	PPP1R3A	HGNC	9291	protein_coding	YES	CCDS5759.1	ENSP00000284601	PPR3A_HUMAN	C9JZB3_HUMAN	UPI000013DDAA	.	deleterious(0.02)	benign(0.021)	4/4	.	hmmpanther:PTHR12307,hmmpanther:PTHR12307:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCAAGGTATT	.	4	BLCA
KLHL7	0	.	GRCh37	7	23157522	23157522	+	Intron	SNP	T	T	A	rs757094254	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121-5874T>A	.	.	ENST00000339077	.	64	46	18	49	49	0	KLHL7,5_prime_UTR_variant,,ENST00000545771,;KLHL7,5_prime_UTR_variant,,ENST00000322231,;KLHL7,5_prime_UTR_variant,,ENST00000410047,;KLHL7,intron_variant,,ENST00000409689,;KLHL7,intron_variant,,ENST00000539124,;KLHL7,intron_variant,,ENST00000339077,;KLHL7,intron_variant,,ENST00000322275,;KLHL7,intron_variant,,ENST00000542558,;KLHL7,upstream_gene_variant,,ENST00000545443,;KLHL7,intron_variant,,ENST00000459661,;KLHL7,intron_variant,,ENST00000479288,;KLHL7,intron_variant,,ENST00000479700,;KLHL7,3_prime_UTR_variant,,ENST00000521082,;KLHL7,non_coding_transcript_exon_variant,,ENST00000491352,;	A	ENSG00000122550	ENST00000339077	Transcript	intron_variant	.	.	.	.	.	rs757094254	.	.	1	KLHL7	HGNC	15646	protein_coding	YES	CCDS34609.1	ENSP00000343273	KLHL7_HUMAN	E5RFN1_HUMAN,B7Z4N7_HUMAN,B7Z3P9_HUMAN	UPI0000037B12	.	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAATTTGATA	.	5	BLCA
HOXA2	0	.	GRCh37	7	27140643	27140643	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.833C>T	p.Thr278Ile	p.T278I	ENST00000222718	2/2	100	84	15	81	81	0	HOXA2,missense_variant,p.Thr278Ile,ENST00000222718,;HOTAIRM1,downstream_gene_variant,,ENST00000593300,;HOTAIRM1,downstream_gene_variant,,ENST00000425358,;HOTAIRM1,downstream_gene_variant,,ENST00000429611,;HOTAIRM1,downstream_gene_variant,,ENST00000428939,;HOTAIRM1,downstream_gene_variant,,ENST00000495032,;HOTAIRM1,downstream_gene_variant,,ENST00000434063,;	A	ENSG00000105996	ENST00000222718	Transcript	missense_variant	1144	833	278	T/I	aCc/aTc	COSM382455	.	.	-1	HOXA2	HGNC	5103	protein_coding	YES	CCDS5403.1	ENSP00000222718	HXA2_HUMAN	.	UPI0000049C49	.	tolerated(0.11)	benign(0.193)	2/2	.	hmmpanther:PTHR24326:SF42,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTGGTTAAA	.	5	BLCA
CDK13	0	.	GRCh37	7	40102700	40102700	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2780+1G>A	.	p.X927_splice	ENST00000181839	.	44	40	4	59	59	0	CDK13,splice_donor_variant,,ENST00000340829,;CDK13,splice_donor_variant,,ENST00000181839,;CDK13,splice_donor_variant,,ENST00000484589,;	A	ENSG00000065883	ENST00000181839	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	CDK13	HGNC	1733	protein_coding	YES	CCDS5461.1	ENSP00000181839	CDK13_HUMAN	.	UPI000013C5E3	.	.	.	.	9/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATAAGGTAAGC	.	2	BLCA
CAMK2B	0	.	GRCh37	7	44282882	44282882	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>T	p.Ala190Ser	p.A190S	ENST00000395749	8/24	44	38	5	34	34	0	CAMK2B,missense_variant,p.Ala190Ser,ENST00000258682,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000395749,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000353625,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000457475,;CAMK2B,missense_variant,p.Ala61Ser,ENST00000502837,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000395747,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000346990,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000350811,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000440254,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000358707,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000347193,;CAMK2B,upstream_gene_variant,,ENST00000433930,;CAMK2B,downstream_gene_variant,,ENST00000421607,;CAMK2B,downstream_gene_variant,,ENST00000424197,;CAMK2B,downstream_gene_variant,,ENST00000415369,;CAMK2B,non_coding_transcript_exon_variant,,ENST00000497127,;CAMK2B,non_coding_transcript_exon_variant,,ENST00000497584,;CAMK2B,downstream_gene_variant,,ENST00000470984,;CAMK2B,downstream_gene_variant,,ENST00000462128,;CAMK2B,downstream_gene_variant,,ENST00000484972,;CAMK2B,downstream_gene_variant,,ENST00000495819,;CAMK2B,missense_variant,p.Ala190Ser,ENST00000353185,;CAMK2B,3_prime_UTR_variant,,ENST00000523845,;	A	ENSG00000058404	ENST00000395749	Transcript	missense_variant	645	568	190	A/S	Gcg/Tcg	.	.	.	-1	CAMK2B	HGNC	1461	protein_coding	YES	CCDS5483.1	ENSP00000379098	KCC2B_HUMAN	Q75LA8_HUMAN,Q75KE9_HUMAN,D3DVK8_HUMAN,A4D2J9_HUMAN	UPI0000164A3E	.	deleterious_low_confidence(0)	probably_damaging(0.931)	8/24	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR24347,hmmpanther:PTHR24347:SF107,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATACGCCTCTT	.	4	BLCA
SEPT14	0	.	GRCh37	7	55902224	55902224	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.614A>G	p.Gln205Arg	p.Q205R	ENST00000388975	6/10	35	28	7	23	23	0	SEPT14,missense_variant,p.Gln205Arg,ENST00000388975,;	C	ENSG00000154997	ENST00000388975	Transcript	missense_variant	731	614	205	Q/R	cAg/cGg	.	.	.	-1	SEPT14	HGNC	33280	protein_coding	YES	CCDS5519.2	ENSP00000373627	SEP14_HUMAN	.	UPI0000E0AB69	.	tolerated(0.09)	possibly_damaging(0.872)	6/10	.	PROSITE_profiles:PS51719,hmmpanther:PTHR18884:SF51,hmmpanther:PTHR18884,Pfam_domain:PF00735,Gene3D:3.40.50.300,PIRSF_domain:PIRSF006698,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ACGTCTGTAAA	.	4	BLCA
FKBP6	0	.	GRCh37	7	72754661	72754661	+	Nonsense_Mutation	SNP	C	C	T	rs781881868	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610C>T	p.Arg204Ter	p.R204*	ENST00000252037	6/9	53	40	13	50	50	0	FKBP6,stop_gained,p.Arg159Ter,ENST00000442793,;FKBP6,stop_gained,p.Arg204Ter,ENST00000252037,;FKBP6,stop_gained,p.Arg174Ter,ENST00000413573,;FKBP6,stop_gained,p.Arg199Ter,ENST00000431982,;RNU6-1080P,upstream_gene_variant,,ENST00000383982,;FKBP6,3_prime_UTR_variant,,ENST00000445032,;FKBP6,3_prime_UTR_variant,,ENST00000429879,;	T	ENSG00000077800	ENST00000252037	Transcript	stop_gained	679	610	204	R/*	Cga/Tga	rs781881868	.	.	1	FKBP6	HGNC	3722	protein_coding	YES	CCDS43595.1	ENSP00000252037	FKBP6_HUMAN	.	UPI000000165F	.	.	.	6/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10516:SF10,hmmpanther:PTHR10516,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGGCGATCA	byFrequency	5	BLCA
HIP1	0	.	GRCh37	7	75183750	75183750	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2039C>T	p.Ala680Val	p.A680V	ENST00000336926	20/31	53	46	7	40	40	0	HIP1,missense_variant,p.Ala680Val,ENST00000434438,;HIP1,missense_variant,p.Ala680Val,ENST00000336926,;HIP1,downstream_gene_variant,,ENST00000404944,;	A	ENSG00000127946	ENST00000336926	Transcript	missense_variant	2066	2039	680	A/V	gCc/gTc	.	.	.	-1	HIP1	HGNC	4913	protein_coding	YES	CCDS34669.1	ENSP00000336747	HIP1_HUMAN	Q8TDA4_HUMAN,B4DYD7_HUMAN,B4DK46_HUMAN	UPI000013D65F	.	tolerated(0.09)	benign(0.005)	20/31	.	hmmpanther:PTHR10407:SF14,hmmpanther:PTHR10407	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAGGCCAGA	.	5	BLCA
LMTK2	0	.	GRCh37	7	97821567	97821567	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1790T>C	p.Leu597Pro	p.L597P	ENST00000297293	11/14	44	35	9	40	40	0	LMTK2,missense_variant,p.Leu597Pro,ENST00000297293,;	C	ENSG00000164715	ENST00000297293	Transcript	missense_variant	2083	1790	597	L/P	cTt/cCt	.	.	.	1	LMTK2	HGNC	17880	protein_coding	YES	CCDS5654.1	ENSP00000297293	LMTK2_HUMAN	.	UPI000014F277	.	tolerated(0.06)	possibly_damaging(0.62)	11/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAACTTGAGG	.	5	BLCA
CYP3A7	0	.	GRCh37	7	99312265	99312265	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711T>C	p.%3D	p.N237N	ENST00000336374	8/13	105	87	17	84	84	0	CYP3A7,synonymous_variant,p.%3D,ENST00000336374,;AC069294.1,downstream_gene_variant,,ENST00000408560,;CYP3A7,non_coding_transcript_exon_variant,,ENST00000477357,;CYP3A7,downstream_gene_variant,,ENST00000498080,;	G	ENSG00000160870	ENST00000336374	Transcript	synonymous_variant	714	711	237	N	aaT/aaC	.	.	.	-1	CYP3A7	HGNC	2640	protein_coding	YES	CCDS5673.1	ENSP00000337450	CP3A7_HUMAN	.	UPI000013F283	.	.	.	8/13	.	hmmpanther:PTHR24302,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGATATTTAA	.	5	BLCA
RGS22	0	.	GRCh37	8	100999771	100999771	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3095C>T	p.Ser1032Leu	p.S1032L	ENST00000360863	21/28	57	46	10	47	47	0	RGS22,missense_variant,p.Ser851Leu,ENST00000523287,;RGS22,missense_variant,p.Ser1020Leu,ENST00000523437,;RGS22,missense_variant,p.Ser1032Leu,ENST00000360863,;RGS22,non_coding_transcript_exon_variant,,ENST00000517769,;	A	ENSG00000132554	ENST00000360863	Transcript	missense_variant	3290	3095	1032	S/L	tCa/tTa	.	.	.	-1	RGS22	HGNC	24499	protein_coding	YES	CCDS43758.1	ENSP00000354109	RGS22_HUMAN	E5RHE4_HUMAN,E5RFV6_HUMAN	UPI0000E5AF25	.	deleterious(0)	benign(0.119)	21/28	.	PROSITE_profiles:PS50132,hmmpanther:PTHR10845:SF132,hmmpanther:PTHR10845,Pfam_domain:PF00615,SMART_domains:SM00315,Superfamily_domains:SSF48097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTGAAGTA	.	5	BLCA
FER1L6	0	.	GRCh37	8	124992721	124992721	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1080T>A	p.Phe360Leu	p.F360L	ENST00000522917	11/41	106	69	37	60	60	0	FER1L6,missense_variant,p.Phe360Leu,ENST00000522917,;FER1L6,missense_variant,p.Phe360Leu,ENST00000399018,;FER1L6-AS1,downstream_gene_variant,,ENST00000518567,;	A	ENSG00000214814	ENST00000522917	Transcript	missense_variant	1286	1080	360	F/L	ttT/ttA	.	.	.	1	FER1L6	HGNC	28065	protein_coding	YES	CCDS43767.1	ENSP00000428280	FR1L6_HUMAN	.	UPI0000E9B4AA	.	tolerated(0.18)	probably_damaging(0.998)	11/41	.	hmmpanther:PTHR12546:SF37,hmmpanther:PTHR12546,Gene3D:2.60.40.150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTTGGGCC	.	5	BLCA
FAM135B	0	.	GRCh37	8	139189617	139189617	+	Missense_Mutation	SNP	A	A	C	rs781694312	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1076T>G	p.Leu359Arg	p.L359R	ENST00000395297	11/20	58	41	17	44	44	0	FAM135B,missense_variant,p.Leu359Arg,ENST00000395297,;FAM135B,missense_variant,p.Leu359Arg,ENST00000276737,;FAM135B,3_prime_UTR_variant,,ENST00000482951,;	C	ENSG00000147724	ENST00000395297	Transcript	missense_variant	1247	1076	359	L/R	cTt/cGt	rs781694312,COSM604331,COSM1650754,COSM604332,COSM1650753	.	.	-1	FAM135B	HGNC	28029	protein_coding	YES	CCDS6375.2	ENSP00000378710	F135B_HUMAN	J3QSR3_HUMAN	UPI000057A0DB	.	tolerated(0.36)	benign(0.01)	11/20	.	Pfam_domain:PF12394,hmmpanther:PTHR12482:SF3,hmmpanther:PTHR12482	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.L359P|c.1076T>C|4,CODON|p.L359P|c.1076T>C|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCAAGTTTT	.	5	BLCA
SLURP1	0	.	GRCh37	8	143822607	143822607	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.266A>G	p.His89Arg	p.H89R	ENST00000246515	3/3	28	20	7	19	19	0	SLURP1,missense_variant,p.His89Arg,ENST00000246515,;THEM6,downstream_gene_variant,,ENST00000336138,;THEM6,downstream_gene_variant,,ENST00000518798,;THEM6,downstream_gene_variant,,ENST00000520217,;	C	ENSG00000126233	ENST00000246515	Transcript	missense_variant	292	266	89	H/R	cAc/cGc	.	.	.	-1	SLURP1	HGNC	18746	protein_coding	YES	CCDS6387.1	ENSP00000246515	SLUR1_HUMAN	.	UPI000011D637	.	tolerated(0.41)	benign(0.177)	3/3	.	hmmpanther:PTHR10036:SF4,hmmpanther:PTHR10036,Gene3D:2.10.60.10,Pfam_domain:PF00021,Superfamily_domains:SSF57302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGGTGGGCG	.	5	BLCA
LRRC24	0	.	GRCh37	8	145749541	145749541	+	Missense_Mutation	SNP	C	C	T	rs201638765	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560G>A	p.Arg187Gln	p.R187Q	ENST00000529415	4/5	176	169	7	130	130	0	LRRC24,missense_variant,p.Arg187Gln,ENST00000529415,;LRRC24,missense_variant,p.Arg184Gln,ENST00000533758,;LRRC14,3_prime_UTR_variant,,ENST00000292524,;C8orf82,downstream_gene_variant,,ENST00000532827,;LRRC14,downstream_gene_variant,,ENST00000525766,;C8orf82,downstream_gene_variant,,ENST00000527462,;C8orf82,downstream_gene_variant,,ENST00000524821,;LRRC14,downstream_gene_variant,,ENST00000530854,;C8orf82,downstream_gene_variant,,ENST00000313465,;LRRC14,downstream_gene_variant,,ENST00000527730,;LRRC14,downstream_gene_variant,,ENST00000529022,;LRRC14,intron_variant,,ENST00000528528,;LRRC14,intron_variant,,ENST00000530242,;LRRC14,intron_variant,,ENST00000529995,;C8orf82,downstream_gene_variant,,ENST00000534680,;LRRC14,downstream_gene_variant,,ENST00000531310,;	T	ENSG00000254402	ENST00000529415	Transcript	missense_variant	678	560	187	R/Q	cGa/cAa	rs201638765	.	.	-1	LRRC24	HGNC	28947	protein_coding	YES	CCDS34969.1	ENSP00000434849	LRC24_HUMAN	.	UPI0000419443	.	tolerated(0.67)	benign(0.037)	4/5	.	Superfamily_domains:SSF52058,SMART_domains:SM00369,Gene3D:3.80.10.10,Pfam_domain:PF13855,hmmpanther:PTHR24367,hmmpanther:PTHR24367:SF255,PROSITE_profiles:PS51450	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTCGGCTG	byCluster|by1000G	2	BLCA
ZNF7	0	.	GRCh37	8	146067713	146067713	+	Silent	SNP	C	C	T	rs146760497	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1221C>T	p.%3D	p.H407H	ENST00000528372	5/5	121	79	42	96	96	0	ZNF7,synonymous_variant,p.%3D,ENST00000528372,;ZNF7,synonymous_variant,p.%3D,ENST00000446747,;ZNF7,synonymous_variant,p.%3D,ENST00000325241,;ZNF7,synonymous_variant,p.%3D,ENST00000544249,;ZNF7,intron_variant,,ENST00000325217,;ZNF7,intron_variant,,ENST00000525266,;ZNF7,downstream_gene_variant,,ENST00000533314,;ZNF7,downstream_gene_variant,,ENST00000532777,;ZNF7,downstream_gene_variant,,ENST00000529819,;ZNF7,downstream_gene_variant,,ENST00000528130,;ZNF7,downstream_gene_variant,,ENST00000527218,;ZNF7,downstream_gene_variant,,ENST00000530776,;ZNF7,downstream_gene_variant,,ENST00000532051,;ZNF7,downstream_gene_variant,,ENST00000532393,;ZNF7,non_coding_transcript_exon_variant,,ENST00000528017,;COMMD5,intron_variant,,ENST00000530332,;ZNF7,downstream_gene_variant,,ENST00000529767,;ZNF7,downstream_gene_variant,,ENST00000532382,;ZNF7,downstream_gene_variant,,ENST00000530082,;	T	ENSG00000147789	ENST00000528372	Transcript	synonymous_variant	1461	1221	407	H	caC/caT	rs146760497	.	.	1	ZNF7	HGNC	13139	protein_coding	YES	CCDS6435.1	ENSP00000432724	ZNF7_HUMAN	Q7KZ25_HUMAN,F5H290_HUMAN,E9PPK0_HUMAN	UPI000013C3F8	.	.	.	5/5	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF189,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	T:0.0008	T:0.0008	T:0	.	T:0.003	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCACGCTGT	byFrequency|byCluster|by1000G	5	BLCA
MCM4	0	.	GRCh37	8	48874652	48874652	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.275A>G	p.Tyr92Cys	p.Y92C	ENST00000262105	3/16	96	71	25	65	65	0	MCM4,missense_variant,p.Tyr92Cys,ENST00000518221,;MCM4,missense_variant,p.Tyr92Cys,ENST00000262105,;MCM4,missense_variant,p.Tyr42Cys,ENST00000519170,;MCM4,missense_variant,p.Tyr92Cys,ENST00000523944,;PRKDC,upstream_gene_variant,,ENST00000314191,;MCM4,upstream_gene_variant,,ENST00000520637,;PRKDC,upstream_gene_variant,,ENST00000338368,;PRKDC,upstream_gene_variant,,ENST00000540819,;PRKDC,upstream_gene_variant,,ENST00000523565,;PRKDC,upstream_gene_variant,,ENST00000518216,;MCM4,3_prime_UTR_variant,,ENST00000524086,;MCM4,non_coding_transcript_exon_variant,,ENST00000520934,;MCM4,non_coding_transcript_exon_variant,,ENST00000519138,;MCM4,downstream_gene_variant,,ENST00000520994,;	G	ENSG00000104738	ENST00000262105	Transcript	missense_variant	484	275	92	Y/C	tAc/tGc	.	.	.	1	MCM4	HGNC	6947	protein_coding	YES	CCDS6143.1	ENSP00000262105	MCM4_HUMAN	E5RFR3_HUMAN,E5RFJ8_HUMAN,A4FS09_HUMAN	UPI000013D25C	.	deleterious(0)	probably_damaging(0.997)	3/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATACGGCA	.	5	BLCA
XKR4	0	.	GRCh37	8	56015435	56015435	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387C>A	p.Asp129Glu	p.D129E	ENST00000327381	1/3	88	72	16	59	59	0	XKR4,missense_variant,p.Asp129Glu,ENST00000327381,;	A	ENSG00000206579	ENST00000327381	Transcript	missense_variant	487	387	129	D/E	gaC/gaA	.	.	.	1	XKR4	HGNC	29394	protein_coding	YES	CCDS34893.1	ENSP00000328326	XKR4_HUMAN	.	UPI000016098C	.	deleterious(0)	probably_damaging(0.995)	1/3	.	Transmembrane_helices:TMhelix,Pfam_domain:PF09815,hmmpanther:PTHR32129:SF14,hmmpanther:PTHR32129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGACGTCTG	.	5	BLCA
MMP16	0	.	GRCh37	8	89128907	89128907	+	Silent	SNP	C	C	A	rs149503873	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.912G>T	p.%3D	p.P304P	ENST00000286614	6/10	135	117	18	96	95	0	MMP16,synonymous_variant,p.%3D,ENST00000286614,;MMP16,non_coding_transcript_exon_variant,,ENST00000544227,;	A	ENSG00000156103	ENST00000286614	Transcript	synonymous_variant	1194	912	304	P	ccG/ccT	rs149503873,COSM172422	.	.	-1	MMP16	HGNC	7162	protein_coding	YES	CCDS6246.1	ENSP00000286614	MMP16_HUMAN	.	UPI000003DC73	.	.	.	6/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10201,hmmpanther:PTHR10201:SF26,PIRSF_domain:PIRSF001191	T:0.0008	T:0.003	T:0	.	T:0	T:0	T:0	T:0.0016	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTGTCGGTAG	byFrequency|byCluster|by1000G	4	BLCA
RAD54B	0	.	GRCh37	8	95412469	95412469	+	Silent	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1167T>C	p.%3D	p.D389D	ENST00000336148	7/15	42	31	11	15	15	0	RAD54B,synonymous_variant,p.%3D,ENST00000336148,;RAD54B,3_prime_UTR_variant,,ENST00000463267,;FSBP,3_prime_UTR_variant,,ENST00000517506,;RAD54B,upstream_gene_variant,,ENST00000523192,;	G	ENSG00000197275	ENST00000336148	Transcript	synonymous_variant	1292	1167	389	D	gaT/gaC	.	.	.	-1	RAD54B	HGNC	17228	protein_coding	YES	CCDS6262.1	ENSP00000336606	RA54B_HUMAN	E5RHN9_HUMAN	UPI0000070088	.	.	.	7/15	.	Superfamily_domains:SSF52540,SMART_domains:SM00487,Pfam_domain:PF00176,Gene3D:3.40.50.300,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF568,PROSITE_profiles:PS51192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTGATCAAC	.	2	BLCA
TGFBR1	0	.	GRCh37	9	101908834	101908834	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>T	p.Asp400Tyr	p.D400Y	ENST00000374994	7/9	190	117	72	166	166	0	TGFBR1,missense_variant,p.Asp331Tyr,ENST00000550253,;TGFBR1,missense_variant,p.Asp404Tyr,ENST00000552516,;TGFBR1,missense_variant,p.Asp323Tyr,ENST00000374990,;TGFBR1,missense_variant,p.Asp400Tyr,ENST00000374994,;RNA5SP290,upstream_gene_variant,,ENST00000517133,;TGFBR1,intron_variant,,ENST00000549766,;	T	ENSG00000106799	ENST00000374994	Transcript	missense_variant	1315	1198	400	D/Y	Gac/Tac	COSM3835285,COSM1288445	.	.	1	TGFBR1	HGNC	11772	protein_coding	YES	CCDS6738.1	ENSP00000364133	TGFR1_HUMAN	Q5T7S2_HUMAN,F8VVC4_HUMAN,B4DY26_HUMAN	UPI000011D62A	.	deleterious(0)	probably_damaging(1)	7/9	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255:SF61,hmmpanther:PTHR23255,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTGACATC	.	5	BLCA
ZNF618	0	.	GRCh37	9	116812148	116812148	+	Missense_Mutation	SNP	G	G	T	rs777681009	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2287G>T	p.Ala763Ser	p.A763S	ENST00000288466	14/14	114	58	56	97	97	0	ZNF618,missense_variant,p.Ala763Ser,ENST00000288466,;ZNF618,missense_variant,p.Ala856Ser,ENST00000374126,;ZNF618,non_coding_transcript_exon_variant,,ENST00000470105,;	T	ENSG00000157657	ENST00000288466	Transcript	missense_variant	2386	2287	763	A/S	Gct/Tct	rs777681009	.	.	1	ZNF618	HGNC	29416	protein_coding	YES	CCDS48008.1	ENSP00000288466	ZN618_HUMAN	.	UPI0000D4BD81	.	tolerated(0.73)	benign(0.003)	14/14	.	hmmpanther:PTHR24383:SF12,hmmpanther:PTHR24383,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTGCTGCC	.	5	BLCA
AKNA	0	.	GRCh37	9	117108961	117108961	+	Nonsense_Mutation	SNP	G	G	A	rs765932672	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3502C>T	p.Arg1168Ter	p.R1168*	ENST00000307564	17/22	34	20	13	24	24	0	AKNA,stop_gained,p.Arg1168Ter,ENST00000307564,;AKNA,stop_gained,p.Arg1168Ter,ENST00000374088,;AKNA,stop_gained,p.Arg113Ter,ENST00000374079,;AKNA,stop_gained,p.Arg628Ter,ENST00000223791,;AKNA,stop_gained,p.Arg1087Ter,ENST00000374075,;AKNA,non_coding_transcript_exon_variant,,ENST00000492875,;AKNA,downstream_gene_variant,,ENST00000491133,;	A	ENSG00000106948	ENST00000307564	Transcript	stop_gained	3664	3502	1168	R/*	Cga/Tga	rs765932672	.	.	-1	AKNA	HGNC	24108	protein_coding	YES	CCDS6805.1	ENSP00000303769	AKNA_HUMAN	.	UPI000021168C	.	.	.	17/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21510:SF12,hmmpanther:PTHR21510	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTCGGAGCA	byFrequency	5	BLCA
UAP1L1	0	.	GRCh37	9	139972887	139972887	+	Intron	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495-67G>A	.	.	ENST00000409858	.	32	23	9	30	30	0	UAP1L1,stop_gained,p.Trp20Ter,ENST00000360271,;UAP1L1,intron_variant,,ENST00000409858,;UAP1L1,intron_variant,,ENST00000476184,;UAP1L1,upstream_gene_variant,,ENST00000474787,;	A	ENSG00000197355	ENST00000409858	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	UAP1L1	HGNC	28082	protein_coding	YES	CCDS7028.2	ENSP00000386935	UAP1L_HUMAN	.	UPI000016047B	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTGGTCCG	.	5	BLCA
KIAA2026	0	.	GRCh37	9	5921268	5921268	+	Silent	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4728A>G	p.%3D	p.G1576G	ENST00000399933	8/8	104	61	43	60	60	0	KIAA2026,synonymous_variant,p.%3D,ENST00000381461,;KIAA2026,synonymous_variant,p.%3D,ENST00000399933,;KIAA2026,3_prime_UTR_variant,,ENST00000540714,;KIAA2026,upstream_gene_variant,,ENST00000436015,;	C	ENSG00000183354	ENST00000399933	Transcript	synonymous_variant	4728	4728	1576	G	ggA/ggG	.	.	.	-1	KIAA2026	HGNC	23378	protein_coding	YES	.	ENSP00000382815	K2026_HUMAN	.	UPI0001533DB0	.	.	.	8/8	.	hmmpanther:PTHR31095:SF2,hmmpanther:PTHR31095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTAGTCCAAT	.	5	BLCA
ARMCX2	0	.	GRCh37	X	100912483	100912483	+	Missense_Mutation	SNP	C	C	T	rs782236145	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.92G>A	p.Arg31Lys	p.R31K	ENST00000328766	5/5	41	25	16	38	38	0	ARMCX2,missense_variant,p.Arg31Lys,ENST00000431597,;ARMCX2,missense_variant,p.Arg31Lys,ENST00000458024,;ARMCX2,missense_variant,p.Arg31Lys,ENST00000440675,;ARMCX2,missense_variant,p.Arg31Lys,ENST00000356824,;ARMCX2,missense_variant,p.Arg31Lys,ENST00000328766,;ARMCX2,missense_variant,p.Arg31Lys,ENST00000433318,;ARMCX2,missense_variant,p.Arg31Lys,ENST00000413506,;ARMCX2,missense_variant,p.Arg31Lys,ENST00000330154,;ARMCX2,non_coding_transcript_exon_variant,,ENST00000467416,;ARMCX2,downstream_gene_variant,,ENST00000488982,;ARMCX2,downstream_gene_variant,,ENST00000496581,;ARMCX2,downstream_gene_variant,,ENST00000475854,;ARMCX2,downstream_gene_variant,,ENST00000479333,;	T	ENSG00000184867	ENST00000328766	Transcript	missense_variant	546	92	31	R/K	aGa/aAa	rs782236145	.	.	-1	ARMCX2	HGNC	16869	protein_coding	YES	CCDS14490.1	ENSP00000331662	ARMX2_HUMAN	Q5H9E1_HUMAN,Q5H9E0_HUMAN,Q5H9D8_HUMAN,Q5H9D7_HUMAN	UPI0000071305	.	deleterious_low_confidence(0.04)	benign(0.005)	5/5	.	hmmpanther:PTHR15712:SF9,hmmpanther:PTHR15712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTCTCCCC	.	5	BLCA
ACSL4	0	.	GRCh37	X	108926500	108926500	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.216C>T	p.%3D	p.D72D	ENST00000340800	4/17	112	68	43	82	82	0	ACSL4,synonymous_variant,p.%3D,ENST00000340800,;ACSL4,synonymous_variant,p.%3D,ENST00000348502,;ACSL4,synonymous_variant,p.%3D,ENST00000508092,;ACSL4,synonymous_variant,p.%3D,ENST00000502391,;ACSL4,synonymous_variant,p.%3D,ENST00000469796,;ACSL4,synonymous_variant,p.%3D,ENST00000505855,;ACSL4,synonymous_variant,p.%3D,ENST00000504980,;ACSL4,downstream_gene_variant,,ENST00000469857,;	A	ENSG00000068366	ENST00000340800	Transcript	synonymous_variant	721	216	72	D	gaC/gaT	.	.	.	-1	ACSL4	HGNC	3571	protein_coding	YES	CCDS14548.1	ENSP00000339787	ACSL4_HUMAN	Q5JWV8_HUMAN,D6RFW9_HUMAN,D6RF95_HUMAN,D6RDA8_HUMAN,D6RD96_HUMAN	UPI000012E293	.	.	.	4/17	.	hmmpanther:PTHR24096,hmmpanther:PTHR24096:SF126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGATGTCTAT	.	5	BLCA
DOCK11	0	.	GRCh37	X	117770339	117770339	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3917C>T	p.Ser1306Leu	p.S1306L	ENST00000276202	36/53	53	33	20	59	59	0	DOCK11,missense_variant,p.Ser1306Leu,ENST00000276204,;DOCK11,missense_variant,p.Ser1306Leu,ENST00000276202,;RBBP8P1,upstream_gene_variant,,ENST00000449447,;	T	ENSG00000147251	ENST00000276202	Transcript	missense_variant	3980	3917	1306	S/L	tCa/tTa	COSM3843324	.	.	1	DOCK11	HGNC	23483	protein_coding	YES	CCDS35373.1	ENSP00000276202	DOC11_HUMAN	B3KNP4_HUMAN	UPI000022DB8F	.	tolerated(0.1)	benign(0.122)	36/53	.	hmmpanther:PTHR23317:SF81,hmmpanther:PTHR23317	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTATCACCTC	.	5	BLCA
STAG2	0	.	GRCh37	X	123202475	123202475	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2327T>C	p.Leu776Pro	p.L776P	ENST00000218089	24/35	68	37	30	51	51	0	STAG2,missense_variant,p.Leu776Pro,ENST00000371160,;STAG2,missense_variant,p.Leu707Pro,ENST00000354548,;STAG2,missense_variant,p.Leu776Pro,ENST00000371157,;STAG2,missense_variant,p.Leu776Pro,ENST00000371144,;STAG2,missense_variant,p.Leu776Pro,ENST00000218089,;STAG2,missense_variant,p.Leu776Pro,ENST00000371145,;STAG2,intron_variant,,ENST00000469481,;STAG2,downstream_gene_variant,,ENST00000466748,;	C	ENSG00000101972	ENST00000218089	Transcript	missense_variant	2837	2327	776	L/P	cTg/cCg	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	deleterious(0)	probably_damaging(0.952)	24/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACCTGACCA	.	5	BLCA
FHL1	0	.	GRCh37	X	135289283	135289283	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265T>C	p.Cys89Arg	p.C89R	ENST00000394155	4/8	73	42	31	42	42	0	FHL1,missense_variant,p.Cys89Arg,ENST00000370690,;FHL1,missense_variant,p.Cys118Arg,ENST00000539015,;FHL1,missense_variant,p.Cys105Arg,ENST00000370676,;FHL1,missense_variant,p.Cys89Arg,ENST00000420362,;FHL1,missense_variant,p.Cys89Arg,ENST00000449474,;FHL1,missense_variant,p.Cys89Arg,ENST00000543669,;FHL1,missense_variant,p.Cys89Arg,ENST00000370674,;FHL1,missense_variant,p.Cys105Arg,ENST00000370683,;FHL1,missense_variant,p.Cys89Arg,ENST00000345434,;FHL1,missense_variant,p.Cys89Arg,ENST00000394155,;FHL1,missense_variant,p.Cys89Arg,ENST00000458357,;FHL1,missense_variant,p.Cys89Arg,ENST00000535737,;FHL1,missense_variant,p.Cys89Arg,ENST00000452016,;FHL1,missense_variant,p.Cys89Arg,ENST00000394153,;FHL1,missense_variant,p.Cys89Arg,ENST00000456445,;FHL1,missense_variant,p.Cys89Arg,ENST00000434885,;FHL1,non_coding_transcript_exon_variant,,ENST00000477080,;FHL1,non_coding_transcript_exon_variant,,ENST00000477204,;	C	ENSG00000022267	ENST00000394155	Transcript	missense_variant	594	265	89	C/R	Tgc/Cgc	.	.	.	1	FHL1	HGNC	3702	protein_coding	YES	CCDS55507.1	ENSP00000377710	FHL1_HUMAN	Q5JXI3_HUMAN,Q5JXI0_HUMAN,Q5JXH9_HUMAN,Q5JXH8_HUMAN,Q5JXH7_HUMAN	UPI000007089A	.	deleterious(0.01)	probably_damaging(1)	4/8	.	PROSITE_profiles:PS50023,hmmpanther:PTHR24208,Gene3D:2.10.110.10,Pfam_domain:PF00412,SMART_domains:SM00132,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGTGCAAC	.	5	BLCA
MIR508	0	.	GRCh37	X	146318513	146318513	+	RNA	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.33G>A	.	.	ENST00000384857	1/1	15	11	4	15	15	0	MIR508,mature_miRNA_variant,,ENST00000384857,;	T	ENSG00000207589	ENST00000384857	Transcript	mature_miRNA_variant	33	.	.	.	.	.	.	.	-1	MIR508	HGNC	32145	miRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCTGGAG	.	5	BLCA
PDZD4	0	.	GRCh37	X	153068841	153068841	+	Silent	SNP	G	G	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2277C>G	p.%3D	p.V759V	ENST00000164640	8/8	12	3	9	13	13	0	PDZD4,synonymous_variant,p.%3D,ENST00000164640,;PDZD4,synonymous_variant,p.%3D,ENST00000393758,;PDZD4,synonymous_variant,p.%3D,ENST00000544474,;SSR4,downstream_gene_variant,,ENST00000370085,;SSR4,downstream_gene_variant,,ENST00000320857,;SSR4,downstream_gene_variant,,ENST00000370087,;SSR4,downstream_gene_variant,,ENST00000370086,;PDZD4,downstream_gene_variant,,ENST00000480418,;SSR4,downstream_gene_variant,,ENST00000485612,;PDZD4,downstream_gene_variant,,ENST00000475140,;SSR4,downstream_gene_variant,,ENST00000471880,;SSR4,downstream_gene_variant,,ENST00000486204,;PDZD4,downstream_gene_variant,,ENST00000468491,;SSR4,downstream_gene_variant,,ENST00000482902,;SSR4,downstream_gene_variant,,ENST00000460616,;PDZD4,downstream_gene_variant,,ENST00000484792,;PDZD4,downstream_gene_variant,,ENST00000483693,;SSR4,downstream_gene_variant,,ENST00000447375,;PDZD4,downstream_gene_variant,,ENST00000480650,;	C	ENSG00000067840	ENST00000164640	Transcript	synonymous_variant	2469	2277	759	V	gtC/gtG	.	.	.	-1	PDZD4	HGNC	21167	protein_coding	YES	CCDS14732.1	ENSP00000164640	PDZD4_HUMAN	Q17RL8_HUMAN	UPI0000211CAA	.	.	.	8/8	.	hmmpanther:PTHR15545,hmmpanther:PTHR15545:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGTAGACCCG	.	3	BLCA
ATP6AP1	0	.	GRCh37	X	153664175	153664175	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1351A>C	p.Lys451Gln	p.K451Q	ENST00000369762	10/10	125	78	46	89	89	0	ATP6AP1,missense_variant,p.Lys451Gln,ENST00000369762,;ATP6AP1,downstream_gene_variant,,ENST00000422890,;GDI1,upstream_gene_variant,,ENST00000447750,;ATP6AP1,downstream_gene_variant,,ENST00000449556,;GDI1,upstream_gene_variant,,ENST00000475976,;GDI1,upstream_gene_variant,,ENST00000485143,;ATP6AP1,downstream_gene_variant,,ENST00000484908,;GDI1,upstream_gene_variant,,ENST00000471972,;ATP6AP1,3_prime_UTR_variant,,ENST00000455205,;ATP6AP1,non_coding_transcript_exon_variant,,ENST00000491569,;GDI1,upstream_gene_variant,,ENST00000415109,;GDI1,upstream_gene_variant,,ENST00000445564,;GDI1,upstream_gene_variant,,ENST00000476540,;ATP6AP1,downstream_gene_variant,,ENST00000429585,;GDI1,upstream_gene_variant,,ENST00000489589,;GDI1,upstream_gene_variant,,ENST00000491154,;ATP6AP1,downstream_gene_variant,,ENST00000446552,;GDI1,upstream_gene_variant,,ENST00000468483,;GDI1,upstream_gene_variant,,ENST00000481304,;GDI1,upstream_gene_variant,,ENST00000434049,;ATP6AP1,downstream_gene_variant,,ENST00000439372,;	C	ENSG00000071553	ENST00000369762	Transcript	missense_variant	1412	1351	451	K/Q	Aag/Cag	.	.	.	1	ATP6AP1	HGNC	868	protein_coding	YES	CCDS35451.1	ENSP00000358777	VAS1_HUMAN	Q9H0C7_HUMAN	UPI000013811E	.	tolerated(0.05)	probably_damaging(0.974)	10/10	.	hmmpanther:PTHR12471,hmmpanther:PTHR12471:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTCAAGACC	.	5	BLCA
TXLNG	0	.	GRCh37	X	16846329	16846329	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.611C>T	p.Ala204Val	p.A204V	ENST00000380122	4/10	47	30	17	41	41	0	TXLNG,missense_variant,p.Ala204Val,ENST00000380122,;TXLNG,missense_variant,p.Ala72Val,ENST00000398155,;	T	ENSG00000086712	ENST00000380122	Transcript	missense_variant	672	611	204	A/V	gCa/gTa	.	.	.	1	TXLNG	HGNC	18578	protein_coding	YES	CCDS14178.1	ENSP00000369465	TXLNG_HUMAN	.	UPI00001AE847	.	deleterious(0)	probably_damaging(0.987)	4/10	.	hmmpanther:PTHR16127:SF14,hmmpanther:PTHR16127,Pfam_domain:PF09728	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGGCAAGAA	.	5	BLCA
MED14	0	.	GRCh37	X	40571448	40571448	+	Silent	SNP	G	G	A	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879C>T	p.%3D	p.Y293Y	ENST00000324817	7/31	113	68	45	87	87	0	MED14,synonymous_variant,p.%3D,ENST00000324817,;MED14,downstream_gene_variant,,ENST00000492219,;MED14,downstream_gene_variant,,ENST00000482034,;	A	ENSG00000180182	ENST00000324817	Transcript	synonymous_variant	998	879	293	Y	taC/taT	.	.	.	-1	MED14	HGNC	2370	protein_coding	YES	CCDS14254.1	ENSP00000323720	MED14_HUMAN	.	UPI00001414B1	.	.	.	7/31	.	hmmpanther:PTHR12809,hmmpanther:PTHR12809:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTGTACAT	.	5	BLCA
GNL3L	0	.	GRCh37	X	54578149	54578149	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-E7-A97P-01A-11D-A38G-08	TCGA-E7-A97P-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1012A>G	p.Ile338Val	p.I338V	ENST00000336470	11/16	37	19	17	22	22	0	GNL3L,missense_variant,p.Ile338Val,ENST00000360845,;GNL3L,missense_variant,p.Ile338Val,ENST00000336470,;	G	ENSG00000130119	ENST00000336470	Transcript	missense_variant	1151	1012	338	I/V	Atc/Gtc	.	.	.	1	GNL3L	HGNC	25553	protein_coding	YES	CCDS14360.1	ENSP00000338573	GNL3L_HUMAN	.	UPI000006CF81	.	tolerated(0.07)	probably_damaging(0.994)	11/16	.	hmmpanther:PTHR11089,hmmpanther:PTHR11089:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACCATCCTG	.	5	BLCA
USP54	0	.	GRCh37	10	75258708	75258708	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4734C>T	p.%3D	p.G1578G	ENST00000339859	23/23	134	93	41	135	135	0	USP54,synonymous_variant,p.%3D,ENST00000428547,;USP54,synonymous_variant,p.%3D,ENST00000339859,;USP54,synonymous_variant,p.%3D,ENST00000408019,;USP54,synonymous_variant,p.%3D,ENST00000422491,;USP54,synonymous_variant,p.%3D,ENST00000394811,;PPP3CB,upstream_gene_variant,,ENST00000342558,;PPP3CB,upstream_gene_variant,,ENST00000394828,;PPP3CB,upstream_gene_variant,,ENST00000394822,;PPP3CB,upstream_gene_variant,,ENST00000360663,;PPP3CB,upstream_gene_variant,,ENST00000394829,;PPP3CB,upstream_gene_variant,,ENST00000545874,;RP11-137L10.6,intron_variant,,ENST00000600206,;RP11-137L10.6,intron_variant,,ENST00000596320,;RP11-137L10.6,intron_variant,,ENST00000600887,;RP11-137L10.6,intron_variant,,ENST00000595935,;RP11-137L10.6,intron_variant,,ENST00000593790,;RP11-137L10.6,intron_variant,,ENST00000442133,;RP11-137L10.6,intron_variant,,ENST00000597958,;RP11-137L10.6,intron_variant,,ENST00000595069,;RP11-137L10.6,intron_variant,,ENST00000600607,;RP11-137L10.6,downstream_gene_variant,,ENST00000422977,;USP54,non_coding_transcript_exon_variant,,ENST00000497106,;USP54,3_prime_UTR_variant,,ENST00000418501,;USP54,3_prime_UTR_variant,,ENST00000466048,;USP54,3_prime_UTR_variant,,ENST00000424265,;RP11-137L10.6,intron_variant,,ENST00000439792,;USP54,downstream_gene_variant,,ENST00000464635,;	A	ENSG00000166348	ENST00000339859	Transcript	synonymous_variant	4835	4734	1578	G	ggC/ggT	COSM1297420,COSM1297419	.	.	-1	USP54	HGNC	23513	protein_coding	YES	CCDS7329.2	ENSP00000345216	UBP54_HUMAN	.	UPI0000DFF136	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAGGCCCTT	.	5	BLCA
LAYN	0	.	GRCh37	11	111414797	111414797	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259C>A	p.Gln87Lys	p.Q87K	ENST00000375615	3/8	29	22	7	49	49	0	LAYN,missense_variant,p.Gln87Lys,ENST00000525126,;LAYN,missense_variant,p.Gln87Lys,ENST00000375615,;LAYN,missense_variant,p.Gln79Lys,ENST00000375614,;LAYN,missense_variant,p.Gln79Lys,ENST00000533265,;LAYN,5_prime_UTR_variant,,ENST00000436913,;LAYN,5_prime_UTR_variant,,ENST00000528102,;LAYN,5_prime_UTR_variant,,ENST00000533999,;LAYN,5_prime_UTR_variant,,ENST00000530962,;LAYN,non_coding_transcript_exon_variant,,ENST00000528924,;LAYN,missense_variant,p.Gln79Lys,ENST00000525866,;	A	ENSG00000204381	ENST00000375615	Transcript	missense_variant	444	259	87	Q/K	Cag/Aag	COSM1297640	.	.	1	LAYN	HGNC	29471	protein_coding	YES	CCDS58178.1	ENSP00000364765	LAYN_HUMAN	E9PQY8_HUMAN,E9PK64_HUMAN,B4DDS5_HUMAN	UPI0000048EB1	.	deleterious(0)	probably_damaging(0.998)	3/8	.	PROSITE_profiles:PS50041,hmmpanther:PTHR14789,hmmpanther:PTHR14789:SF2,Gene3D:3.10.100.10,Pfam_domain:PF00059,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAACAGAAA	.	2	BLCA
NUP160	0	.	GRCh37	11	47828670	47828670	+	Missense_Mutation	SNP	A	A	G	rs141856485	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2398T>C	p.Ser800Pro	p.S800P	ENST00000378460	19/36	48	34	13	43	43	0	NUP160,missense_variant,p.Ser686Pro,ENST00000528071,;NUP160,missense_variant,p.Ser686Pro,ENST00000530326,;NUP160,missense_variant,p.Ser800Pro,ENST00000378460,;NUP160,downstream_gene_variant,,ENST00000528501,;RNA5SP340,upstream_gene_variant,,ENST00000517132,;NUP160,upstream_gene_variant,,ENST00000527750,;NUP160,upstream_gene_variant,,ENST00000526569,;	G	ENSG00000030066	ENST00000378460	Transcript	missense_variant	2445	2398	800	S/P	Tca/Cca	rs141856485,COSM1298100	.	.	-1	NUP160	HGNC	18017	protein_coding	YES	CCDS31484.1	ENSP00000367721	NU160_HUMAN	.	UPI0000185FEB	.	deleterious(0.01)	benign(0.375)	19/36	.	hmmpanther:PTHR21286	G:0.0004	G:0.0008	G:0.0014	.	G:0	G:0	G:0	G:0.002	G:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGATAAGT	byFrequency|byCluster|by1000G	5	BLCA
OR5T1	0	.	GRCh37	11	56043703	56043703	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589C>A	p.Leu197Ile	p.L197I	ENST00000313033	1/1	176	124	51	155	155	0	OR5T1,missense_variant,p.Leu197Ile,ENST00000313033,;	A	ENSG00000181698	ENST00000313033	Transcript	missense_variant	675	589	197	L/I	Ctt/Att	COSM1298172	.	.	1	OR5T1	HGNC	14821	protein_coding	YES	CCDS31525.1	ENSP00000323612	OR5T1_HUMAN	.	UPI000004B22E	.	deleterious(0.02)	possibly_damaging(0.859)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24248:SF33,hmmpanther:PTHR24248,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTGCTTGCT	.	5	BLCA
OR5M10	0	.	GRCh37	11	56344430	56344430	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768C>A	p.Phe256Leu	p.F256L	ENST00000526812	1/1	166	116	50	188	188	0	OR5M10,missense_variant,p.Phe256Leu,ENST00000526812,;	T	ENSG00000254834	ENST00000526812	Transcript	missense_variant	834	768	256	F/L	ttC/ttA	COSM1298192	.	.	-1	OR5M10	HGNC	15290	protein_coding	YES	CCDS53630.1	ENSP00000436004	OR5MA_HUMAN	.	UPI0000041BEE	.	tolerated(0.16)	benign(0.042)	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81321,Pfam_domain:PF13853,Gene3D:1.20.1070.10,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF98,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGAAGAG	.	5	BLCA
GNG3	0	.	GRCh37	11	62476150	62476150	+	Missense_Mutation	SNP	G	G	C	rs762309720	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>C	p.Val34Leu	p.V34L	ENST00000294117	3/3	50	33	16	45	45	0	GNG3,missense_variant,p.Val34Leu,ENST00000294117,;BSCL2,intron_variant,,ENST00000524862,;BSCL2,intron_variant,,ENST00000433053,;BSCL2,intron_variant,,ENST00000405837,;BSCL2,intron_variant,,ENST00000530009,;BSCL2,intron_variant,,ENST00000464544,;BSCL2,intron_variant,,ENST00000532818,;BSCL2,intron_variant,,ENST00000531524,;BSCL2,intron_variant,,ENST00000528874,;BSCL2,upstream_gene_variant,,ENST00000421906,;BSCL2,upstream_gene_variant,,ENST00000403550,;BSCL2,upstream_gene_variant,,ENST00000360796,;BSCL2,upstream_gene_variant,,ENST00000407022,;HNRNPUL2,downstream_gene_variant,,ENST00000301785,;BSCL2,upstream_gene_variant,,ENST00000525000,;BSCL2,upstream_gene_variant,,ENST00000533982,;BSCL2,upstream_gene_variant,,ENST00000278893,;BSCL2,upstream_gene_variant,,ENST00000448568,;BSCL2,upstream_gene_variant,,ENST00000537604,;BSCL2,upstream_gene_variant,,ENST00000530900,;HNRNPUL2-BSCL2,intron_variant,,ENST00000403734,;BSCL2,upstream_gene_variant,,ENST00000301781,;BSCL2,upstream_gene_variant,,ENST00000413908,;	C	ENSG00000162188	ENST00000294117	Transcript	missense_variant	359	100	34	V/L	Gtg/Ctg	rs762309720,COSM1298334	.	.	1	GNG3	HGNC	4405	protein_coding	YES	CCDS8032.1	ENSP00000294117	GBG3_HUMAN	.	UPI00000011D8	.	deleterious(0)	benign(0.364)	3/3	.	PROSITE_profiles:PS50058,hmmpanther:PTHR13809:SF11,hmmpanther:PTHR13809,Pfam_domain:PF00631,Gene3D:4.10.260.10,SMART_domains:SM00224,Superfamily_domains:SSF48670,Prints_domain:PR00321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGGTGTCC	.	5	BLCA
TMEM151A	0	.	GRCh37	11	66062568	66062568	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.851G>T	p.Arg284Leu	p.R284L	ENST00000327259	2/2	14	10	4	11	11	0	TMEM151A,missense_variant,p.Arg284Leu,ENST00000327259,;	T	ENSG00000179292	ENST00000327259	Transcript	missense_variant	995	851	284	R/L	cGc/cTc	COSM1298445	.	.	1	TMEM151A	HGNC	28497	protein_coding	YES	CCDS8133.1	ENSP00000326244	T151A_HUMAN	.	UPI0000070F9B	.	deleterious(0.03)	probably_damaging(0.998)	2/2	.	Pfam_domain:PF14857,hmmpanther:PTHR31893,hmmpanther:PTHR31893:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCGCGCGCCT	.	5	BLCA
PPP6R3	0	.	GRCh37	11	68359045	68359045	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1787G>A	p.Gly596Glu	p.G596E	ENST00000393801	18/25	29	25	4	17	17	0	PPP6R3,missense_variant,p.Gly561Glu,ENST00000527403,;PPP6R3,missense_variant,p.Gly550Glu,ENST00000265637,;PPP6R3,missense_variant,p.Gly596Glu,ENST00000393799,;PPP6R3,missense_variant,p.Gly516Glu,ENST00000529710,;PPP6R3,missense_variant,p.Gly364Glu,ENST00000534534,;PPP6R3,missense_variant,p.Gly590Glu,ENST00000524904,;PPP6R3,missense_variant,p.Gly596Glu,ENST00000393800,;PPP6R3,missense_variant,p.Gly516Glu,ENST00000265636,;PPP6R3,missense_variant,p.Gly567Glu,ENST00000524845,;PPP6R3,missense_variant,p.Gly596Glu,ENST00000393801,;PPP6R3,missense_variant,p.Gly303Glu,ENST00000534190,;PPP6R3,splice_region_variant,,ENST00000526307,;PPP6R3,splice_region_variant,,ENST00000525421,;	A	ENSG00000110075	ENST00000393801	Transcript	missense_variant	2002	1787	596	G/E	gGa/gAa	.	.	.	1	PPP6R3	HGNC	1173	protein_coding	YES	CCDS53671.1	ENSP00000377390	PP6R3_HUMAN	E9PNN8_HUMAN,E9PKG4_HUMAN,E9PK08_HUMAN,E9PJD8_HUMAN	UPI0000688150	.	deleterious(0.02)	benign(0.363)	18/25	.	hmmpanther:PTHR12634:SF12,hmmpanther:PTHR12634	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	TTAGGGAAATA	.	2	BLCA
RNFT2	0	.	GRCh37	12	117204665	117204665	+	Missense_Mutation	SNP	C	C	T	rs746690644	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674C>T	p.Ala225Val	p.A225V	ENST00000257575	6/11	8	4	4	14	14	0	RNFT2,missense_variant,p.Ala225Val,ENST00000407967,;RNFT2,missense_variant,p.Ala225Val,ENST00000392549,;RNFT2,missense_variant,p.Ala225Val,ENST00000257575,;RNFT2,missense_variant,p.Ala225Val,ENST00000319176,;RNFT2,3_prime_UTR_variant,,ENST00000547718,;	T	ENSG00000135119	ENST00000257575	Transcript	missense_variant	907	674	225	A/V	gCg/gTg	rs746690644,COSM1298962,COSM1298961	.	.	1	RNFT2	HGNC	25905	protein_coding	YES	CCDS44987.1	ENSP00000257575	RNFT2_HUMAN	.	UPI00001FBBF4	.	tolerated(0.16)	benign(0.003)	6/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR15860:SF2,hmmpanther:PTHR15860	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGGCGGGGA	byFrequency	2	BLCA
ABCC9	0	.	GRCh37	12	22068813	22068813	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.605T>C	p.Val202Ala	p.V202A	ENST00000261200	5/38	44	33	11	51	51	0	ABCC9,missense_variant,p.Val202Ala,ENST00000345162,;ABCC9,missense_variant,p.Val202Ala,ENST00000261201,;ABCC9,missense_variant,p.Val202Ala,ENST00000261200,;ABCC9,upstream_gene_variant,,ENST00000544039,;	G	ENSG00000069431	ENST00000261200	Transcript	missense_variant	605	605	202	V/A	gTa/gCa	COSM1299233,COSM1299234	.	.	-1	ABCC9	HGNC	60	protein_coding	YES	CCDS8693.1	ENSP00000261200	ABCC9_HUMAN	Q8N9N1_HUMAN	UPI000013D13F	.	deleterious(0.01)	possibly_damaging(0.561)	5/38	.	Prints_domain:PR01092,hmmpanther:PTHR24223:SF173,hmmpanther:PTHR24223	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTTTACTTTC	.	3	BLCA
DBX2	0	.	GRCh37	12	45417649	45417649	+	Silent	SNP	T	T	G	rs139089550	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.528A>C	p.%3D	p.T176T	ENST00000332700	3/4	58	37	20	51	51	0	DBX2,synonymous_variant,p.%3D,ENST00000332700,;	G	ENSG00000185610	ENST00000332700	Transcript	synonymous_variant	700	528	176	T	acA/acC	rs139089550,COSM1299376	.	.	-1	DBX2	HGNC	33186	protein_coding	YES	CCDS31781.1	ENSP00000331470	DBX2_HUMAN	.	UPI000041A784	.	.	.	3/4	.	hmmpanther:PTHR24331,hmmpanther:PTHR24331:SF4,Gene3D:1.10.10.60	.	.	.	.	.	.	.	C:0.0002	C:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGTGTCAG	byCluster	5	BLCA
PHLDA1	0	.	GRCh37	12	76424771	76424771	+	Frame_Shift_Del	DEL	A	A	-	rs747810433	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.751delT	p.Tyr251ThrfsTer5	p.Y251Tfs*5	ENST00000266671	1/2	63	49	14	43	43	0	PHLDA1,frameshift_variant,p.Tyr110ThrfsTer5,ENST00000602540,;PHLDA1,frameshift_variant,p.Tyr251ThrfsTer5,ENST00000266671,;RP11-290L1.3,non_coding_transcript_exon_variant,,ENST00000552367,;RP11-290L1.2,upstream_gene_variant,,ENST00000547721,;	-	ENSG00000139289	ENST00000266671	Transcript	frameshift_variant	2942	751	251	Y/X	Tac/ac	rs747810433	.	.	-1	PHLDA1	HGNC	8933	protein_coding	YES	CCDS31861.1	ENSP00000266671	PHLA1_HUMAN	R4GND3_HUMAN,A2BDE7_HUMAN	UPI000013D704	.	.	.	1/2	.	hmmpanther:PTHR15478,hmmpanther:PTHR15478:SF4,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGAAGTACATGT	byFrequency	3	BLCA
NANOGP1	0	.	GRCh37	12	8051494	8051494	+	RNA	SNP	G	G	A	rs760254614	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.714G>A	.	.	ENST00000607111	3/4	150	112	38	155	155	0	NANOGP1,non_coding_transcript_exon_variant,,ENST00000607111,;NANOGP1,non_coding_transcript_exon_variant,,ENST00000525030,;RP11-277E18.2,upstream_gene_variant,,ENST00000533382,;	A	ENSG00000176654	ENST00000607111	Transcript	non_coding_transcript_exon_variant	714	.	.	.	.	rs760254614,COSM1299894	.	.	1	NANOGP1	HGNC	23099	processed_transcript	YES	.	.	.	.	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGACGTGTGA	.	5	BLCA
POSTN	0	.	GRCh37	13	38162072	38162072	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.493T>A	p.Leu165Ile	p.L165I	ENST00000379747	5/23	62	42	20	105	105	0	POSTN,missense_variant,p.Leu165Ile,ENST00000379747,;POSTN,missense_variant,p.Leu165Ile,ENST00000379749,;POSTN,missense_variant,p.Leu165Ile,ENST00000541481,;POSTN,missense_variant,p.Leu165Ile,ENST00000379743,;POSTN,missense_variant,p.Leu165Ile,ENST00000541179,;POSTN,missense_variant,p.Leu165Ile,ENST00000379742,;	T	ENSG00000133110	ENST00000379747	Transcript	missense_variant	611	493	165	L/I	Tta/Ata	COSM1300182	.	.	-1	POSTN	HGNC	16953	protein_coding	YES	CCDS9364.1	ENSP00000369071	POSTN_HUMAN	.	UPI000013CEB8	.	deleterious(0)	probably_damaging(0.999)	5/23	.	Superfamily_domains:SSF82153,SMART_domains:SM00554,PIRSF_domain:PIRSF016553,Pfam_domain:PF02469,Gene3D:2.30.180.10,hmmpanther:PTHR10900:SF12,hmmpanther:PTHR10900,PROSITE_profiles:PS50213	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTAAAGCAT	.	5	BLCA
PACS2	0	.	GRCh37	14	105833710	105833710	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.584C>T	p.Thr195Met	p.T195M	ENST00000458164	5/25	80	53	27	61	61	0	PACS2,missense_variant,p.Thr195Met,ENST00000458164,;PACS2,missense_variant,p.Thr195Met,ENST00000447393,;PACS2,missense_variant,p.Thr165Met,ENST00000547217,;PACS2,missense_variant,p.Thr195Met,ENST00000325438,;PACS2,missense_variant,p.Thr128Met,ENST00000430725,;PACS2,downstream_gene_variant,,ENST00000546915,;PACS2,splice_region_variant,,ENST00000552138,;PACS2,upstream_gene_variant,,ENST00000551692,;	T	ENSG00000179364	ENST00000458164	Transcript	missense_variant	759	584	195	T/M	aCg/aTg	COSM1300446	.	.	1	PACS2	HGNC	23794	protein_coding	YES	CCDS45178.2	ENSP00000399732	PACS2_HUMAN	F8W0V0_HUMAN,F8W0B1_HUMAN	UPI0000E56F01	.	tolerated(0.15)	possibly_damaging(0.591)	5/25	.	hmmpanther:PTHR13280:SF15,hmmpanther:PTHR13280	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCACGGGTG	.	5	BLCA
BATF	0	.	GRCh37	14	76012936	76012936	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300G>T	p.%3D	p.T100T	ENST00000286639	3/3	27	18	8	20	20	0	BATF,synonymous_variant,p.%3D,ENST00000286639,;BATF,intron_variant,,ENST00000555504,;BATF,non_coding_transcript_exon_variant,,ENST00000555795,;	T	ENSG00000156127	ENST00000286639	Transcript	synonymous_variant	558	300	100	T	acG/acT	COSM1300835	.	.	1	BATF	HGNC	958	protein_coding	YES	CCDS9843.1	ENSP00000286639	BATF_HUMAN	.	UPI0000073D64	.	.	.	3/3	.	hmmpanther:PTHR23351,hmmpanther:PTHR23351:SF14	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCACGCCCTC	.	5	BLCA
TTC7B	0	.	GRCh37	14	91044541	91044541	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2219C>A	p.Ala740Asp	p.A740D	ENST00000328459	19/20	27	17	9	26	26	0	TTC7B,missense_variant,p.Ala227Asp,ENST00000553972,;TTC7B,missense_variant,p.Ala740Asp,ENST00000328459,;TTC7B,missense_variant,p.Ala757Asp,ENST00000357056,;TTC7B,missense_variant,p.Ala168Asp,ENST00000557292,;TTC7B,intron_variant,,ENST00000555894,;TTC7B,non_coding_transcript_exon_variant,,ENST00000554654,;TTC7B,non_coding_transcript_exon_variant,,ENST00000556960,;TTC7B,3_prime_UTR_variant,,ENST00000555005,;TTC7B,non_coding_transcript_exon_variant,,ENST00000557059,;	T	ENSG00000165914	ENST00000328459	Transcript	missense_variant	2341	2219	740	A/D	gCt/gAt	COSM1300890	.	.	-1	TTC7B	HGNC	19858	protein_coding	YES	CCDS32140.1	ENSP00000336127	TTC7B_HUMAN	G3V3E4_HUMAN,B3KX34_HUMAN	UPI00001FD9F0	.	deleterious(0.03)	probably_damaging(0.977)	19/20	.	SMART_domains:SM00028,Pfam_domain:PF13414,Gene3D:1.25.40.10,hmmpanther:PTHR23083:SF365,hmmpanther:PTHR23083,PROSITE_profiles:PS50005,PROSITE_profiles:PS50293,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCAGCAATC	.	5	BLCA
GABRA5	0	.	GRCh37	15	27184598	27184598	+	Intron	SNP	G	G	T	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725-474G>T	.	.	ENST00000335625	.	18	12	6	18	18	0	GABRB3,5_prime_UTR_variant,,ENST00000541819,;GABRA5,intron_variant,,ENST00000355395,;GABRA5,intron_variant,,ENST00000400081,;GABRA5,intron_variant,,ENST00000335625,;GABRA5,downstream_gene_variant,,ENST00000555182,;	T	ENSG00000186297	ENST00000335625	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GABRA5	HGNC	4079	protein_coding	YES	CCDS45194.1	ENSP00000335592	GBRA5_HUMAN	G3V408_HUMAN,G3V2Q9_HUMAN,G3V2K2_HUMAN,G3V2G8_HUMAN,G3V296_HUMAN,B4E1A2_HUMAN	UPI000002D731	.	.	.	.	8/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTGCGACA	.	5	BLCA
FAN1	0	.	GRCh37	15	31197966	31197966	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1100G>A	p.Gly367Asp	p.G367D	ENST00000362065	2/15	138	109	29	113	113	0	FAN1,missense_variant,p.Gly367Asp,ENST00000561607,;FAN1,missense_variant,p.Gly367Asp,ENST00000362065,;FAN1,missense_variant,p.Gly367Asp,ENST00000561594,;FAN1,missense_variant,p.Gly367Asp,ENST00000565466,;FAN1,intron_variant,,ENST00000562892,;FAN1,missense_variant,p.Gly367Asp,ENST00000565280,;	A	ENSG00000198690	ENST00000362065	Transcript	missense_variant	1391	1100	367	G/D	gGt/gAt	COSM1301016	.	.	1	FAN1	HGNC	29170	protein_coding	YES	CCDS32186.1	ENSP00000354497	FAN1_HUMAN	.	UPI000006D713	.	tolerated(0.28)	benign(0.005)	2/15	.	hmmpanther:PTHR15749:SF4,hmmpanther:PTHR15749	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGTCAAA	.	5	BLCA
AQR	0	.	GRCh37	15	35149047	35149047	+	Silent	SNP	C	C	T	rs751382762	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4404G>A	p.%3D	p.P1468P	ENST00000156471	35/35	78	73	5	77	77	0	AQR,synonymous_variant,p.%3D,ENST00000156471,;AQR,3_prime_UTR_variant,,ENST00000543879,;AQR,non_coding_transcript_exon_variant,,ENST00000559767,;AQR,non_coding_transcript_exon_variant,,ENST00000559090,;	T	ENSG00000021776	ENST00000156471	Transcript	synonymous_variant	4630	4404	1468	P	ccG/ccA	rs751382762,COSM1301051	.	.	-1	AQR	HGNC	29513	protein_coding	YES	CCDS42013.1	ENSP00000156471	AQR_HUMAN	.	UPI00001C1F85	.	.	.	35/35	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGCCGGTGC	byFrequency	2	BLCA
UNC13C	0	.	GRCh37	15	54305273	54305273	+	Missense_Mutation	SNP	C	C	A	rs779967285	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173C>A	p.Thr58Asn	p.T58N	ENST00000260323	1/32	50	42	7	60	60	0	UNC13C,missense_variant,p.Thr58Asn,ENST00000537900,;UNC13C,missense_variant,p.Thr58Asn,ENST00000545554,;UNC13C,missense_variant,p.Thr58Asn,ENST00000260323,;	A	ENSG00000137766	ENST00000260323	Transcript	missense_variant	173	173	58	T/N	aCt/aAt	rs779967285,COSM1301234,COSM1301235	.	.	1	UNC13C	HGNC	23149	protein_coding	YES	CCDS45264.1	ENSP00000260323	UN13C_HUMAN	H3BRP8_HUMAN	UPI0000DD82AB	.	tolerated_low_confidence(0.07)	possibly_damaging(0.588)	1/32	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACACTTTTA	.	5	BLCA
TMEM8A	0	.	GRCh37	16	424858	424858	+	Missense_Mutation	SNP	T	T	C	rs376351004	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1474A>G	p.Thr492Ala	p.T492A	ENST00000431232	9/13	25	21	4	29	29	0	TMEM8A,missense_variant,p.Thr299Ala,ENST00000250930,;TMEM8A,missense_variant,p.Thr40Ala,ENST00000448854,;TMEM8A,missense_variant,p.Thr492Ala,ENST00000431232,;MRPL28,upstream_gene_variant,,ENST00000447696,;MRPL28,upstream_gene_variant,,ENST00000450882,;MRPL28,upstream_gene_variant,,ENST00000389675,;TMEM8A,upstream_gene_variant,,ENST00000424078,;MRPL28,upstream_gene_variant,,ENST00000441883,;MRPL28,upstream_gene_variant,,ENST00000199706,;TMEM8A,downstream_gene_variant,,ENST00000427313,;TMEM8A,downstream_gene_variant,,ENST00000476735,;TMEM8A,non_coding_transcript_exon_variant,,ENST00000467452,;TMEM8A,non_coding_transcript_exon_variant,,ENST00000475348,;MRPL28,upstream_gene_variant,,ENST00000483764,;MRPL28,upstream_gene_variant,,ENST00000469744,;MRPL28,upstream_gene_variant,,ENST00000481453,;MRPL28,upstream_gene_variant,,ENST00000461550,;	C	ENSG00000129925	ENST00000431232	Transcript	missense_variant	1635	1474	492	T/A	Acc/Gcc	rs376351004,COSM1301964	.	.	-1	TMEM8A	HGNC	17205	protein_coding	YES	CCDS10407.1	ENSP00000401338	TMM8A_HUMAN	K4DI83_HUMAN,C9J8D7_HUMAN	UPI000013CCD4	.	tolerated(0.57)	benign(0.005)	9/13	.	hmmpanther:PTHR14319:SF7,hmmpanther:PTHR14319	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAGGTGGTCT	.	4	BLCA
PLEKHG4	0	.	GRCh37	16	67314151	67314151	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204G>A	p.%3D	p.R68R	ENST00000360461	1/21	57	42	14	42	42	0	PLEKHG4,synonymous_variant,p.%3D,ENST00000567938,;PLEKHG4,synonymous_variant,p.%3D,ENST00000565899,;PLEKHG4,synonymous_variant,p.%3D,ENST00000360461,;PLEKHG4,synonymous_variant,p.%3D,ENST00000379344,;PLEKHG4,synonymous_variant,p.%3D,ENST00000427155,;PLEKHG4,synonymous_variant,p.%3D,ENST00000562144,;PLEKHG4,synonymous_variant,p.%3D,ENST00000565773,;PLEKHG4,synonymous_variant,p.%3D,ENST00000450733,;PLEKHG4,intron_variant,,ENST00000562744,;PLEKHG4,downstream_gene_variant,,ENST00000568621,;PLEKHG4,synonymous_variant,p.%3D,ENST00000563969,;PLEKHG4,synonymous_variant,p.%3D,ENST00000393966,;	A	ENSG00000196155	ENST00000360461	Transcript	synonymous_variant	2739	204	68	R	agG/agA	COSM1302122	.	.	1	PLEKHG4	HGNC	24501	protein_coding	YES	CCDS32466.1	ENSP00000353646	PKHG4_HUMAN	H3BSU4_HUMAN,H3BQP9_HUMAN,H3BQE6_HUMAN,H3BPQ5_HUMAN,H3BME5_HUMAN,C5IFI8_HUMAN	UPI000013C774	.	.	.	1/21	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGGAAATT	.	5	BLCA
HYDIN	0	.	GRCh37	16	71004443	71004443	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5599C>A	p.Gln1867Lys	p.Q1867K	ENST00000393567	36/86	28	19	8	40	40	0	HYDIN,missense_variant,p.Gln1867Lys,ENST00000393567,;HYDIN,non_coding_transcript_exon_variant,,ENST00000543521,;HYDIN,non_coding_transcript_exon_variant,,ENST00000309900,;	T	ENSG00000157423	ENST00000393567	Transcript	missense_variant	5750	5599	1867	Q/K	Cag/Aag	COSM1302220,COSM1302221	.	.	-1	HYDIN	HGNC	19368	protein_coding	YES	CCDS59269.1	ENSP00000377197	HYDIN_HUMAN	K0A1M3_HUMAN,I1Z9D0_HUMAN,F5H8I6_HUMAN,F5GXK3_HUMAN	UPI0001FEF4F9	.	.	possibly_damaging(0.828)	36/86	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTGCTGAT	.	5	BLCA
USP32	0	.	GRCh37	17	58260712	58260712	+	Missense_Mutation	SNP	C	C	T	rs768633869	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3937G>A	p.Val1313Ile	p.V1313I	ENST00000300896	31/34	82	63	18	96	96	0	USP32,missense_variant,p.Val983Ile,ENST00000592339,;USP32,missense_variant,p.Val1313Ile,ENST00000300896,;USP32,upstream_gene_variant,,ENST00000593071,;USP32,non_coding_transcript_exon_variant,,ENST00000586238,;	T	ENSG00000170832	ENST00000300896	Transcript	missense_variant	4132	3937	1313	V/I	Gta/Ata	rs768633869,COSM1303137	.	.	-1	USP32	HGNC	19143	protein_coding	YES	CCDS32697.1	ENSP00000300896	UBP32_HUMAN	Q86WP5_HUMAN,Q6IRT0_HUMAN,Q4VC15_HUMAN,K7EQL6_HUMAN	UPI0000047AF8	.	tolerated(0.12)	possibly_damaging(0.888)	31/34	.	Superfamily_domains:SSF54001,Pfam_domain:PF00443,hmmpanther:PTHR24006:SF392,hmmpanther:PTHR24006,PROSITE_profiles:PS50235	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTACCAAAA	byFrequency	5	BLCA
ELP2	0	.	GRCh37	18	33738800	33738800	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1662A>T	p.Gln554His	p.Q554H	ENST00000442325	15/23	28	16	12	58	58	0	ELP2,missense_variant,p.Gln554His,ENST00000442325,;ELP2,missense_variant,p.Gln419His,ENST00000542824,;ELP2,missense_variant,p.Gln484His,ENST00000350494,;ELP2,missense_variant,p.Gln463His,ENST00000351393,;ELP2,missense_variant,p.Gln489His,ENST00000358232,;ELP2,missense_variant,p.Gln419His,ENST00000423854,;ELP2,splice_region_variant,,ENST00000542050,;ELP2,splice_region_variant,,ENST00000543861,;ELP2,missense_variant,p.Gln489His,ENST00000539560,;ELP2,intron_variant,,ENST00000540799,;ELP2,upstream_gene_variant,,ENST00000540766,;ELP2,upstream_gene_variant,,ENST00000541294,;	T	ENSG00000134759	ENST00000442325	Transcript	missense_variant	1698	1662	554	Q/H	caA/caT	COSM1303724	.	.	1	ELP2	HGNC	18248	protein_coding	YES	CCDS56065.1	ENSP00000414851	ELP2_HUMAN	.	UPI0000E03DE9	.	tolerated(0.12)	benign(0.005)	15/23	.	hmmpanther:PTHR13729,hmmpanther:PTHR13729:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TAGCAAGATAG	.	4	BLCA
RTTN	0	.	GRCh37	18	67864903	67864903	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.650A>G	p.Asp217Gly	p.D217G	ENST00000255674	6/49	43	31	11	52	52	0	RTTN,missense_variant,p.Asp217Gly,ENST00000255674,;RTTN,missense_variant,p.Asp217Gly,ENST00000454359,;RTTN,missense_variant,p.Asp217Gly,ENST00000437017,;RTTN,missense_variant,p.Asp217Gly,ENST00000581161,;RTTN,missense_variant,p.Asp7Gly,ENST00000583043,;RTTN,non_coding_transcript_exon_variant,,ENST00000581583,;	C	ENSG00000176225	ENST00000255674	Transcript	missense_variant	937	650	217	D/G	gAt/gGt	COSM1303837	.	.	-1	RTTN	HGNC	18654	protein_coding	YES	CCDS42443.1	ENSP00000255674	RTTN_HUMAN	.	UPI0000201E92	.	deleterious(0)	probably_damaging(1)	6/49	.	Superfamily_domains:SSF48371,Superfamily_domains:SSF48371,hmmpanther:PTHR31691:SF1,hmmpanther:PTHR31691	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAATCTTGC	.	5	BLCA
KCNG2	0	.	GRCh37	18	77624205	77624205	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>A	p.Ala180Thr	p.A180T	ENST00000316249	1/2	17	7	9	23	23	0	KCNG2,missense_variant,p.Ala180Thr,ENST00000316249,;	A	ENSG00000178342	ENST00000316249	Transcript	missense_variant	538	538	180	A/T	Gcc/Acc	COSM1303877	.	.	1	KCNG2	HGNC	6249	protein_coding	YES	CCDS12019.1	ENSP00000315654	KCNG2_HUMAN	.	UPI000012DC9B	.	deleterious(0.02)	benign(0.125)	1/2	.	Transmembrane_helices:TMhelix,Prints_domain:PR00169,Superfamily_domains:SSF81324,Gene3D:1.20.120.350,hmmpanther:PTHR11537:SF90,hmmpanther:PTHR11537	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCGCCTGC	.	5	BLCA
COMP	0	.	GRCh37	19	18897060	18897060	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1296C>T	p.%3D	p.S432S	ENST00000222271	12/19	60	43	16	48	48	0	COMP,synonymous_variant,p.%3D,ENST00000542601,;COMP,synonymous_variant,p.%3D,ENST00000425807,;COMP,synonymous_variant,p.%3D,ENST00000222271,;CRTC1,downstream_gene_variant,,ENST00000338797,;COMP,non_coding_transcript_exon_variant,,ENST00000546510,;	A	ENSG00000105664	ENST00000222271	Transcript	synonymous_variant	1341	1296	432	S	agC/agT	COSM1304211	.	.	-1	COMP	HGNC	2227	protein_coding	YES	CCDS12385.1	ENSP00000222271	COMP_HUMAN	G3XAP6_HUMAN	UPI000013C7F6	.	.	.	12/19	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51234,hmmpanther:PTHR10199,hmmpanther:PTHR10199:SF81,Pfam_domain:PF02412,Gene3D:1ux6A01,Superfamily_domains:0044556	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATCGCTGTC	.	5	BLCA
MAG	0	.	GRCh37	19	35793406	35793406	+	Silent	SNP	G	G	A	rs200660504	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1026G>A	p.%3D	p.T342T	ENST00000392213	7/11	26	17	9	40	40	0	MAG,synonymous_variant,p.%3D,ENST00000392213,;MAG,synonymous_variant,p.%3D,ENST00000537831,;MAG,synonymous_variant,p.%3D,ENST00000361922,;MAG,downstream_gene_variant,,ENST00000600291,;MAG,downstream_gene_variant,,ENST00000595791,;MAG,downstream_gene_variant,,ENST00000597035,;	A	ENSG00000105695	ENST00000392213	Transcript	synonymous_variant	1185	1026	342	T	acG/acA	rs200660504,COSM1304439,COSM1304438	.	.	1	MAG	HGNC	6783	protein_coding	YES	CCDS12455.1	ENSP00000376048	MAG_HUMAN	M0R3I4_HUMAN,M0R3B9_HUMAN,M0QZU4_HUMAN	UPI000012EB2F	.	.	.	7/11	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF23,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.T342T|c.1026G>A|3,SITE|p.T342T|c.1026G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGACGGTCTC	byCluster|by1000G	5	BLCA
PHLDB3	0	.	GRCh37	19	44008096	44008098	+	In_Frame_Del	DEL	CTT	CTT	-	rs756497243	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	CTT	CTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173_175delAAG	p.Glu58del	p.E58del	ENST00000292140	2/16	66	49	17	43	43	0	PHLDB3,inframe_deletion,p.Glu58del,ENST00000601646,;PHLDB3,inframe_deletion,p.Glu58del,ENST00000599242,;PHLDB3,inframe_deletion,p.Glu58del,ENST00000292140,;PHLDB3,inframe_deletion,p.Glu58del,ENST00000594808,;ETHE1,downstream_gene_variant,,ENST00000292147,;ETHE1,downstream_gene_variant,,ENST00000600651,;PHLDB3,non_coding_transcript_exon_variant,,ENST00000596902,;ETHE1,downstream_gene_variant,,ENST00000594342,;ETHE1,downstream_gene_variant,,ENST00000598330,;	-	ENSG00000176531	ENST00000292140	Transcript	inframe_deletion	534-536	173-175	58-59	EV/V	gAAGtg/gtg	rs756497243,COSM439712,COSM439713	.	.	-1	PHLDB3	HGNC	30499	protein_coding	YES	CCDS12621.2	ENSP00000292140	PHLB3_HUMAN	M0R3I7_HUMAN,M0R038_HUMAN	UPI00015C725F	.	.	.	2/16	.	hmmpanther:PTHR12156,hmmpanther:PTHR12156:SF15,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	deletion	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTCCCACTTCTTCT	.	2	BLCA
ZBTB45	0	.	GRCh37	19	59025507	59025507	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1450G>A	p.Glu484Lys	p.E484K	ENST00000594051	3/3	17	11	6	12	12	0	ZBTB45,missense_variant,p.Glu484Lys,ENST00000594051,;ZBTB45,missense_variant,p.Glu484Lys,ENST00000354590,;ZBTB45,missense_variant,p.Glu484Lys,ENST00000600990,;ZBTB45,downstream_gene_variant,,ENST00000596739,;ZBTB45,downstream_gene_variant,,ENST00000600130,;SLC27A5,upstream_gene_variant,,ENST00000601355,;SLC27A5,upstream_gene_variant,,ENST00000263093,;SLC27A5,upstream_gene_variant,,ENST00000593745,;SLC27A5,upstream_gene_variant,,ENST00000594683,;	T	ENSG00000119574	ENST00000594051	Transcript	missense_variant	1931	1450	484	E/K	Gag/Aag	COSM1305240	.	.	-1	ZBTB45	HGNC	23715	protein_coding	YES	CCDS12984.1	ENSP00000469089	ZBT45_HUMAN	Q8NDR3_HUMAN,M0QZ57_HUMAN	UPI00000739B8	.	deleterious(0)	probably_damaging(0.991)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF460,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCGGGCC	.	5	BLCA
HMGCS2	0	.	GRCh37	1	120306857	120306857	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.497G>T	p.Cys166Phe	p.C166F	ENST00000369406	2/10	53	37	15	59	59	0	HMGCS2,missense_variant,p.Cys166Phe,ENST00000544913,;HMGCS2,missense_variant,p.Cys166Phe,ENST00000369406,;HMGCS2,non_coding_transcript_exon_variant,,ENST00000476640,;HMGCS2,upstream_gene_variant,,ENST00000472375,;	A	ENSG00000134240	ENST00000369406	Transcript	missense_variant	547	497	166	C/F	tGc/tTc	COSM1294811	.	.	-1	HMGCS2	HGNC	5008	protein_coding	YES	CCDS905.1	ENSP00000358414	HMCS2_HUMAN	.	UPI000000DA7A	.	deleterious(0)	probably_damaging(1)	2/10	.	hmmpanther:PTHR11877,hmmpanther:PTHR11877:SF16,PROSITE_patterns:PS01226,Pfam_domain:PF01154,Gene3D:3.40.47.10,TIGRFAM_domain:TIGR01833,Superfamily_domains:SSF53901	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTAGCAGGCA	.	5	BLCA
AADACL3	0	.	GRCh37	1	12785941	12785941	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1031T>G	p.Val344Gly	p.V344G	ENST00000359318	4/4	48	37	11	47	47	0	AADACL3,missense_variant,p.Val344Gly,ENST00000359318,;AADACL3,missense_variant,p.Val274Gly,ENST00000332530,;	G	ENSG00000188984	ENST00000359318	Transcript	missense_variant	1236	1031	344	V/G	gTt/gGt	COSM1294858,COSM1294857	.	.	1	AADACL3	HGNC	32037	protein_coding	YES	CCDS41253.1	ENSP00000352268	ADCL3_HUMAN	.	UPI00001611D0	.	deleterious(0)	benign(0.33)	4/4	.	hmmpanther:PTHR23024,hmmpanther:PTHR23024:SF107,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTAGTTCAAT	.	5	BLCA
FLG	0	.	GRCh37	1	152283571	152283571	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3791G>A	p.Arg1264Lys	p.R1264K	ENST00000368799	3/3	266	195	70	214	214	0	FLG,missense_variant,p.Arg1264Lys,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;FLG-AS1,upstream_gene_variant,,ENST00000392688,;	T	ENSG00000143631	ENST00000368799	Transcript	missense_variant	3827	3791	1264	R/K	aGg/aAg	COSM1295087	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	benign(0.22)	3/3	.	hmmpanther:PTHR22571,hmmpanther:PTHR22571:SF21,Pfam_domain:PF03516	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGCCTGCTT	.	5	BLCA
KCNH1	0	.	GRCh37	1	210977474	210977474	+	Silent	SNP	C	C	T	rs774134239	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1497G>A	p.%3D	p.T499T	ENST00000271751	8/11	34	31	3	28	28	0	KCNH1,synonymous_variant,p.%3D,ENST00000367007,;KCNH1,synonymous_variant,p.%3D,ENST00000271751,;	T	ENSG00000143473	ENST00000271751	Transcript	synonymous_variant	1525	1497	499	T	acG/acA	rs774134239,COSM1295824	.	.	-1	KCNH1	HGNC	6250	protein_coding	YES	CCDS1496.1	ENSP00000271751	KCNH1_HUMAN	.	UPI000003230D	.	.	.	8/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF377,Gene3D:1.10.287.70,Superfamily_domains:SSF81324,Prints_domain:PR01463	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAGTCGTCAC	byFrequency	4	BLCA
SMYD2	0	.	GRCh37	1	214491427	214491427	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.354C>A	p.%3D	p.I118I	ENST00000366957	4/12	127	108	19	95	94	1	SMYD2,synonymous_variant,p.%3D,ENST00000415093,;SMYD2,synonymous_variant,p.%3D,ENST00000366957,;SMYD2,non_coding_transcript_exon_variant,,ENST00000491455,;SMYD2,non_coding_transcript_exon_variant,,ENST00000460580,;SMYD2,non_coding_transcript_exon_variant,,ENST00000471645,;	A	ENSG00000143499	ENST00000366957	Transcript	synonymous_variant	376	354	118	I	atC/atA	COSM1295855,COSM3483230	.	.	1	SMYD2	HGNC	20982	protein_coding	YES	CCDS31022.1	ENSP00000355924	SMYD2_HUMAN	I6L9H7_HUMAN	UPI0000205E5F	.	.	.	4/12	.	Superfamily_domains:SSF82199,SMART_domains:SM00317,Pfam_domain:PF00856,hmmpanther:PTHR12197,hmmpanther:PTHR12197:SF15,PROSITE_profiles:PS50280	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATCCACCC	.	4	BLCA
USH2A	0	.	GRCh37	1	216373065	216373065	+	Missense_Mutation	SNP	C	C	A	rs373698501	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3715G>T	p.Ala1239Ser	p.A1239S	ENST00000307340	17/72	70	37	32	52	52	0	USH2A,missense_variant,p.Ala1239Ser,ENST00000366942,;USH2A,missense_variant,p.Ala1239Ser,ENST00000366943,;USH2A,missense_variant,p.Ala1239Ser,ENST00000307340,;RP5-1099E6.3,intron_variant,,ENST00000420867,;MRPS18BP1,downstream_gene_variant,,ENST00000414228,;	A	ENSG00000042781	ENST00000307340	Transcript	missense_variant	4102	3715	1239	A/S	Gcc/Tcc	rs373698501,COSM1295871	.	.	-1	USH2A	HGNC	12601	protein_coding	YES	CCDS31025.1	ENSP00000305941	USH2A_HUMAN	.	UPI000034E5B6	.	.	possibly_damaging(0.78)	17/72	.	Superfamily_domains:SSF49265,Gene3D:2.60.40.10,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF170,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGGCTGTGG	byCluster	5	BLCA
MTR	0	.	GRCh37	1	236992566	236992566	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1073C>G	p.Ser358Cys	p.S358C	ENST00000366577	12/33	93	67	26	121	121	0	MTR,missense_variant,p.Ser358Cys,ENST00000366577,;MTR,missense_variant,p.Ser358Cys,ENST00000535889,;MTR,splice_region_variant,,ENST00000463959,;	G	ENSG00000116984	ENST00000366577	Transcript	missense_variant	1467	1073	358	S/C	tCt/tGt	COSM1296048	.	.	1	MTR	HGNC	7468	protein_coding	YES	CCDS1614.1	ENSP00000355536	METH_HUMAN	.	UPI0000036BC4	.	deleterious(0.01)	benign(0.078)	12/33	.	Superfamily_domains:SSF82282,PIRSF_domain:PIRSF000381,TIGRFAM_domain:TIGR02082,Gene3D:3.20.20.330,hmmpanther:PTHR21091:SF97,hmmpanther:PTHR21091	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGTCTGGTG	.	5	BLCA
IFNLR1	0	.	GRCh37	1	24484264	24484264	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.919C>T	p.Arg307Ter	p.R307*	ENST00000327535	7/7	215	141	74	182	182	0	IFNLR1,stop_gained,p.Arg278Ter,ENST00000374421,;IFNLR1,stop_gained,p.Arg307Ter,ENST00000327535,;IFNLR1,3_prime_UTR_variant,,ENST00000327575,;IFNLR1,downstream_gene_variant,,ENST00000374419,;IFNLR1,downstream_gene_variant,,ENST00000374418,;	A	ENSG00000185436	ENST00000327535	Transcript	stop_gained	932	919	307	R/*	Cga/Tga	COSM1296105	.	.	-1	IFNLR1	HGNC	18584	protein_coding	YES	CCDS248.1	ENSP00000327824	INLR1_HUMAN	A4QPA4_HUMAN	UPI000004D3FC	.	.	.	7/7	.	hmmpanther:PTHR20859,hmmpanther:PTHR20859:SF46	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTCGAGGCG	.	5	BLCA
CHD5	0	.	GRCh37	1	6184072	6184072	+	Silent	SNP	C	C	T	rs140639533	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4635G>A	p.%3D	p.S1545S	ENST00000262450	31/42	18	14	4	18	18	0	CHD5,synonymous_variant,p.%3D,ENST00000378021,;CHD5,synonymous_variant,p.%3D,ENST00000262450,;CHD5,synonymous_variant,p.%3D,ENST00000462991,;CHD5,3_prime_UTR_variant,,ENST00000377999,;CHD5,intron_variant,,ENST00000496404,;CHD5,downstream_gene_variant,,ENST00000491020,;	T	ENSG00000116254	ENST00000262450	Transcript	synonymous_variant	4735	4635	1545	S	tcG/tcA	rs140639533,COSM1296620	.	.	-1	CHD5	HGNC	16816	protein_coding	YES	CCDS57.1	ENSP00000262450	CHD5_HUMAN	.	UPI000006CD03	.	.	.	31/42	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF583	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTCCGAGGA	byCluster	4	BLCA
ALG14	0	.	GRCh37	1	95448617	95448617	+	3'UTR	SNP	G	G	T	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15C>A	.	.	ENST00000370205	4/4	63	40	23	57	57	0	ALG14,3_prime_UTR_variant,,ENST00000370205,;ALG14,downstream_gene_variant,,ENST00000507727,;	T	ENSG00000172339	ENST00000370205	Transcript	3_prime_UTR_variant	713	.	.	.	.	.	.	.	-1	ALG14	HGNC	28287	protein_coding	YES	CCDS752.1	ENSP00000359224	ALG14_HUMAN	.	UPI0000071DA6	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGTCAGT	.	5	BLCA
C20orf26	0	.	GRCh37	20	20055897	20055897	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436C>T	p.%3D	p.L146L	ENST00000245957	5/27	69	56	13	64	64	0	C20orf26,synonymous_variant,p.%3D,ENST00000451767,;C20orf26,synonymous_variant,p.%3D,ENST00000377306,;C20orf26,synonymous_variant,p.%3D,ENST00000245957,;C20orf26,synonymous_variant,p.%3D,ENST00000340348,;C20orf26,synonymous_variant,p.%3D,ENST00000377303,;C20orf26,synonymous_variant,p.%3D,ENST00000472660,;C20orf26,5_prime_UTR_variant,,ENST00000389656,;C20orf26,5_prime_UTR_variant,,ENST00000377309,;C20orf26,downstream_gene_variant,,ENST00000475466,;C20orf26,downstream_gene_variant,,ENST00000494029,;	T	ENSG00000089101	ENST00000245957	Transcript	synonymous_variant	512	436	146	L	Cta/Tta	COSM1307193	.	.	1	C20orf26	HGNC	15872	protein_coding	YES	CCDS33447.1	ENSP00000245957	CT026_HUMAN	C9JMV0_HUMAN,C9JHE8_HUMAN,C9J610_HUMAN	UPI0000206AE4	.	.	.	5/27	.	hmmpanther:PTHR21178:SF8,hmmpanther:PTHR21178	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGCCTAGGT	.	5	BLCA
BPIFA3	0	.	GRCh37	20	31811765	31811765	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276C>A	p.Ser92Arg	p.S92R	ENST00000375454	2/7	54	39	14	40	40	0	BPIFA3,missense_variant,p.Ser92Arg,ENST00000375454,;BPIFA3,missense_variant,p.Ser92Arg,ENST00000375452,;BPIFA3,splice_region_variant,,ENST00000471233,;BPIFA3,splice_region_variant,,ENST00000490499,;	A	ENSG00000131059	ENST00000375454	Transcript	missense_variant	486	276	92	S/R	agC/agA	COSM1307283	.	.	1	BPIFA3	HGNC	16204	protein_coding	YES	CCDS13216.2	ENSP00000364603	BPIA3_HUMAN	.	UPI00003E72D6	.	tolerated(0.42)	possibly_damaging(0.761)	2/7	.	hmmpanther:PTHR10504,hmmpanther:PTHR10504:SF3,Pfam_domain:PF01273,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAGCAGGTG	.	5	BLCA
PTPRT	0	.	GRCh37	20	41514514	41514514	+	Silent	SNP	G	G	T	rs190021886	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147C>A	p.%3D	p.T49T	ENST00000373187	2/31	61	39	22	71	71	0	PTPRT,synonymous_variant,p.%3D,ENST00000373201,;PTPRT,synonymous_variant,p.%3D,ENST00000373198,;PTPRT,synonymous_variant,p.%3D,ENST00000373193,;PTPRT,synonymous_variant,p.%3D,ENST00000373187,;PTPRT,synonymous_variant,p.%3D,ENST00000356100,;PTPRT,synonymous_variant,p.%3D,ENST00000373184,;PTPRT,synonymous_variant,p.%3D,ENST00000373190,;PTPRT,non_coding_transcript_exon_variant,,ENST00000485499,;	T	ENSG00000196090	ENST00000373187	Transcript	synonymous_variant	147	147	49	T	acC/acA	rs190021886,COSM1307411,COSM149176	.	.	-1	PTPRT	HGNC	9682	protein_coding	YES	CCDS42874.1	ENSP00000362283	PTPRT_HUMAN	.	UPI0000246C03	.	.	.	2/31	.	PROSITE_profiles:PS50060,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF208,Pfam_domain:PF00629,SMART_domains:SM00137,Superfamily_domains:SSF49899	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGGTCCC	byCluster|by1000G	5	BLCA
RAE1	0	.	GRCh37	20	55948637	55948637	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.749C>T	p.Pro250Leu	p.P250L	ENST00000395841	9/12	78	57	21	75	75	0	RAE1,missense_variant,p.Pro250Leu,ENST00000527947,;RAE1,missense_variant,p.Pro250Leu,ENST00000395840,;RAE1,missense_variant,p.Pro250Leu,ENST00000395841,;RAE1,missense_variant,p.Pro250Leu,ENST00000371242,;RAE1,non_coding_transcript_exon_variant,,ENST00000462438,;RAE1,intron_variant,,ENST00000492498,;	T	ENSG00000101146	ENST00000395841	Transcript	missense_variant	1169	749	250	P/L	cCc/cTc	COSM1307540	.	.	1	RAE1	HGNC	9828	protein_coding	YES	CCDS13458.1	ENSP00000379182	RAE1L_HUMAN	B0QZ37_HUMAN,B0QZ36_HUMAN	UPI0000133017	.	tolerated(0.18)	possibly_damaging(0.639)	9/12	.	hmmpanther:PTHR10971,hmmpanther:PTHR10971:SF11,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P248fs*29|c.738delC|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACCCGTAAG	.	5	BLCA
DSCR3	0	.	GRCh37	21	38593877	38593877	+	3'Flank	DEL	G	G	-	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000309117	.	82	64	18	55	55	0	DSCR3,downstream_gene_variant,,ENST00000288304,;DSCR3,downstream_gene_variant,,ENST00000539844,;DSCR3,downstream_gene_variant,,ENST00000476950,;DSCR3,downstream_gene_variant,,ENST00000398998,;DSCR3,downstream_gene_variant,,ENST00000309117,;DSCR3,downstream_gene_variant,,ENST00000399001,;DSCR9,non_coding_transcript_exon_variant,,ENST00000454482,;AP001432.14,non_coding_transcript_exon_variant,,ENST00000440629,;DSCR9,downstream_gene_variant,,ENST00000578829,;DSCR9,downstream_gene_variant,,ENST00000585273,;DSCR9,downstream_gene_variant,,ENST00000543267,;DSCR9,downstream_gene_variant,,ENST00000584840,;DSCR9,downstream_gene_variant,,ENST00000581640,;DSCR3,downstream_gene_variant,,ENST00000488368,;DSCR3,downstream_gene_variant,,ENST00000399000,;DSCR3,downstream_gene_variant,,ENST00000497493,;	-	ENSG00000157538	ENST00000309117	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1844	-1	DSCR3	HGNC	3044	protein_coding	YES	CCDS33553.1	ENSP00000311399	DSCR3_HUMAN	.	UPI000012990B	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCCTTGCCCAC	.	3	BLCA
SULT1C4	0	.	GRCh37	2	108998249	108998250	+	Frame_Shift_Ins	INS	-	-	AT	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.203_204dupTA	p.Gln69TyrfsTer24	p.Q69Yfs*24	ENST00000272452	2/7	62	40	22	47	47	0	SULT1C4,frameshift_variant,p.Gln69TyrfsTer24,ENST00000272452,;SULT1C4,frameshift_variant,p.Gln69TyrfsTer24,ENST00000409309,;SULT1C4,non_coding_transcript_exon_variant,,ENST00000494122,;	AT	ENSG00000198075	ENST00000272452	Transcript	frameshift_variant	527-528	201-202	67-68	-/X	-/AT	.	.	.	1	SULT1C4	HGNC	11457	protein_coding	YES	CCDS2077.1	ENSP00000272452	ST1C4_HUMAN	.	UPI000013D958	.	.	.	2/7	.	hmmpanther:PTHR11783:SF51,hmmpanther:PTHR11783,Gene3D:3.40.50.300,Pfam_domain:PF00685,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAATTAATACA	.	3	BLCA
KCNH7	0	.	GRCh37	2	163374588	163374588	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.544G>T	p.Val182Leu	p.V182L	ENST00000332142	4/16	67	40	26	96	96	0	KCNH7,missense_variant,p.Val182Leu,ENST00000332142,;KCNH7,missense_variant,p.Val182Leu,ENST00000328032,;KCNH7,non_coding_transcript_exon_variant,,ENST00000477019,;	A	ENSG00000184611	ENST00000332142	Transcript	missense_variant	644	544	182	V/L	Gtg/Ttg	COSM1305764,COSM1305765	.	.	-1	KCNH7	HGNC	18863	protein_coding	YES	CCDS2219.1	ENSP00000331727	KCNH7_HUMAN	.	UPI0000167D11	.	tolerated(0.2)	benign(0.017)	4/16	.	hmmpanther:PTHR10217:SF466,hmmpanther:PTHR10217	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCACATCGG	.	5	BLCA
XIRP2	0	.	GRCh37	2	168114500	168114500	+	3'UTR	SNP	C	C	A	rs762357613	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*173C>A	.	.	ENST00000409195	11/11	65	41	23	87	87	0	XIRP2,missense_variant,p.Gln260Lys,ENST00000409605,;XIRP2,missense_variant,p.Gln515Lys,ENST00000420519,;XIRP2,missense_variant,p.Gln482Lys,ENST00000409756,;XIRP2,missense_variant,p.Gln482Lys,ENST00000409043,;XIRP2,missense_variant,p.Gln515Lys,ENST00000409728,;XIRP2,3_prime_UTR_variant,,ENST00000409273,;XIRP2,3_prime_UTR_variant,,ENST00000409195,;XIRP2,3_prime_UTR_variant,,ENST00000295237,;	A	ENSG00000163092	ENST00000409195	Transcript	3_prime_UTR_variant	10912	.	.	.	.	rs762357613	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAACCAAAGC	.	5	BLCA
TTN	0	.	GRCh37	2	179428664	179428664	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82195G>T	p.Gly27399Cys	p.G27399C	ENST00000589042	326/363	70	52	18	81	81	0	TTN,missense_variant,p.Gly18459Cys,ENST00000359218,;TTN,missense_variant,p.Gly25758Cys,ENST00000591111,;TTN,missense_variant,p.Gly27399Cys,ENST00000589042,;TTN,missense_variant,p.Gly18526Cys,ENST00000342175,;TTN,missense_variant,p.Gly24831Cys,ENST00000342992,;TTN,missense_variant,p.Gly18334Cys,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	82420	82195	27399	G/C	Ggt/Tgt	COSM1306004,COSM1306003,COSM1306000,COSM1306002,COSM1306001	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCACCACCAT	.	5	BLCA
ZNF804A	0	.	GRCh37	2	185800685	185800685	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>T	p.Glu188Ter	p.E188*	ENST00000302277	4/4	46	31	15	74	74	0	ZNF804A,stop_gained,p.Glu188Ter,ENST00000302277,;	T	ENSG00000170396	ENST00000302277	Transcript	stop_gained	1156	562	188	E/*	Gaa/Taa	COSM1306211	.	.	1	ZNF804A	HGNC	21711	protein_coding	YES	CCDS2291.1	ENSP00000303252	Z804A_HUMAN	.	UPI00001B4B18	.	.	.	4/4	.	hmmpanther:PTHR17614:SF13,hmmpanther:PTHR17614	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAAAGT	.	5	BLCA
SLC8A1	0	.	GRCh37	2	40402404	40402404	+	Missense_Mutation	SNP	G	G	T	rs572248277	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1933C>A	p.Leu645Ile	p.L645I	ENST00000403092	4/11	26	19	6	32	32	0	SLC8A1,missense_variant,p.Leu645Ile,ENST00000403092,;SLC8A1,missense_variant,p.Leu645Ile,ENST00000542756,;SLC8A1,missense_variant,p.Leu645Ile,ENST00000332839,;SLC8A1,missense_variant,p.Leu645Ile,ENST00000405901,;SLC8A1,intron_variant,,ENST00000408028,;SLC8A1,intron_variant,,ENST00000405269,;SLC8A1,intron_variant,,ENST00000402441,;SLC8A1,intron_variant,,ENST00000406785,;SLC8A1,intron_variant,,ENST00000542024,;SLC8A1,intron_variant,,ENST00000406391,;SLC8A1-AS1,intron_variant,,ENST00000435515,;SLC8A1-AS1,intron_variant,,ENST00000599268,;SLC8A1-AS1,intron_variant,,ENST00000601679,;SLC8A1-AS1,intron_variant,,ENST00000599956,;SLC8A1-AS1,intron_variant,,ENST00000596532,;SLC8A1-AS1,intron_variant,,ENST00000597385,;SLC8A1-AS1,intron_variant,,ENST00000598247,;SLC8A1-AS1,intron_variant,,ENST00000599740,;SLC8A1-AS1,intron_variant,,ENST00000593848,;SLC8A1-AS1,intron_variant,,ENST00000597170,;SLC8A1-AS1,intron_variant,,ENST00000444629,;SLC8A1-AS1,intron_variant,,ENST00000593878,;SLC8A1,intron_variant,,ENST00000407929,;	T	ENSG00000183023	ENST00000403092	Transcript	missense_variant	1967	1933	645	L/I	Ctt/Att	rs572248277,COSM1306794	.	.	-1	SLC8A1	HGNC	11068	protein_coding	YES	CCDS1806.1	ENSP00000384763	NAC1_HUMAN	Q6LAJ9_HUMAN,Q6LAJ8_HUMAN,Q4QQH3_HUMAN,E9PCL8_HUMAN,E9PB98_HUMAN	UPI000012FC46	.	tolerated(0.49)	benign(0.001)	4/11	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF6,TIGRFAM_domain:TIGR00845	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCAAGCTCAT	by1000G	5	BLCA
GKN1	0	.	GRCh37	2	69207922	69207922	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.567C>T	p.%3D	p.D189D	ENST00000377938	6/6	47	36	11	43	43	0	GKN1,synonymous_variant,p.%3D,ENST00000377938,;GKN1,downstream_gene_variant,,ENST00000478888,;	T	ENSG00000169605	ENST00000377938	Transcript	synonymous_variant	630	567	189	D	gaC/gaT	COSM1306945	.	.	1	GKN1	HGNC	23217	protein_coding	YES	CCDS1891.2	ENSP00000367172	GKN1_HUMAN	Q53YU7_HUMAN	UPI0000126BA7	.	.	.	6/6	.	hmmpanther:PTHR16483,hmmpanther:PTHR16483:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGACATTTC	.	5	BLCA
IGKV1D-43	0	.	GRCh37	2	90249335	90249335	+	Silent	SNP	C	C	A	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>A	p.%3D	p.I97I	ENST00000468879	2/2	281	262	19	331	331	0	IGKV1D-43,synonymous_variant,p.%3D,ENST00000468879,;	A	ENSG00000242580	ENST00000468879	Transcript	synonymous_variant	472	291	97	I	atC/atA	.	.	.	1	IGKV1D-43	HGNC	5758	IG_V_gene	YES	.	ENSP00000417961	.	.	UPI0000116191	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF122,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCATCAGCAG	.	2	BLCA
IGKV1D-43	0	.	GRCh37	2	90249359	90249359	+	Silent	SNP	T	T	C	rs763766462	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315T>C	p.%3D	p.F105F	ENST00000468879	2/2	284	250	34	312	311	0	IGKV1D-43,synonymous_variant,p.%3D,ENST00000468879,;	C	ENSG00000242580	ENST00000468879	Transcript	synonymous_variant	496	315	105	F	ttT/ttC	rs763766462	.	.	1	IGKV1D-43	HGNC	5758	IG_V_gene	YES	.	ENSP00000417961	.	.	UPI0000116191	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF122,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTTGCAAC	.	4	BLCA
TRIM71	0	.	GRCh37	3	32932318	32932318	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1622G>C	p.Ser541Thr	p.S541T	ENST00000383763	4/4	53	28	25	46	46	0	TRIM71,missense_variant,p.Ser541Thr,ENST00000383763,;	C	ENSG00000206557	ENST00000383763	Transcript	missense_variant	1685	1622	541	S/T	aGt/aCt	COSM1309035	.	.	1	TRIM71	HGNC	32669	protein_coding	YES	CCDS43060.1	ENSP00000373272	LIN41_HUMAN	.	UPI000067CB89	.	tolerated(0.75)	benign(0.007)	4/4	.	Superfamily_domains:SSF81296,SMART_domains:SM00557,Gene3D:2.60.40.10,Pfam_domain:PF00630,hmmpanther:PTHR24103:SF281,hmmpanther:PTHR24103,PROSITE_profiles:PS50194	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGAGTGATC	.	5	BLCA
CRTAP	0	.	GRCh37	3	33184069	33184069	+	3'UTR	SNP	C	C	T	rs373838055	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*129C>T	.	.	ENST00000320954	7/7	9	3	6	10	10	0	CRTAP,3_prime_UTR_variant,,ENST00000449224,;CRTAP,3_prime_UTR_variant,,ENST00000320954,;RP11-627J17.1,downstream_gene_variant,,ENST00000607832,;	T	ENSG00000170275	ENST00000320954	Transcript	3_prime_UTR_variant	1434	.	.	.	.	rs373838055	.	.	1	CRTAP	HGNC	2379	protein_coding	YES	CCDS2657.1	ENSP00000323696	CRTAP_HUMAN	Q8NB01_HUMAN,B4DPA3_HUMAN	UPI000012700A	.	.	.	7/7	.	.	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCCGTCTC	byFrequency|byCluster|by1000G	2	BLCA
ANO10	0	.	GRCh37	3	43618536	43618536	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.810C>A	p.Tyr270Ter	p.Y270*	ENST00000292246	6/13	32	18	13	59	59	0	ANO10,stop_gained,p.Tyr159Ter,ENST00000451430,;ANO10,stop_gained,p.Tyr270Ter,ENST00000292246,;ANO10,stop_gained,p.Tyr159Ter,ENST00000428472,;ANO10,stop_gained,p.Tyr270Ter,ENST00000414522,;ANO10,stop_gained,p.Tyr204Ter,ENST00000396091,;ANO10,intron_variant,,ENST00000350459,;ANO10,intron_variant,,ENST00000427171,;	T	ENSG00000160746	ENST00000292246	Transcript	stop_gained	981	810	270	Y/*	taC/taA	COSM1309138	.	.	-1	ANO10	HGNC	25519	protein_coding	YES	CCDS2710.2	ENSP00000292246	ANO10_HUMAN	C9JQC9_HUMAN,C9JPY2_HUMAN,C9JJS5_HUMAN,C9JA49_HUMAN,C9IZD0_HUMAN,C9IYD3_HUMAN	UPI000020A59A	.	.	.	6/13	.	Pfam_domain:PF04547,hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF18	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGTAGGT	.	5	BLCA
ERC2	0	.	GRCh37	3	56468890	56468890	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146T>C	p.Ile49Thr	p.I49T	ENST00000288221	2/18	50	22	28	63	63	0	ERC2,missense_variant,p.Ile49Thr,ENST00000288221,;ERC2,non_coding_transcript_exon_variant,,ENST00000472917,;ERC2,upstream_gene_variant,,ENST00000477381,;ERC2,missense_variant,p.Ile49Thr,ENST00000460849,;	G	ENSG00000187672	ENST00000288221	Transcript	missense_variant	402	146	49	I/T	aTc/aCc	COSM1309388,COSM1309389	.	.	-1	ERC2	HGNC	31922	protein_coding	YES	CCDS46851.1	ENSP00000288221	ERC2_HUMAN	.	UPI00001C1572	.	deleterious(0)	probably_damaging(0.998)	2/18	.	hmmpanther:PTHR18861,hmmpanther:PTHR18861:SF3	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGGATATTC	.	5	BLCA
PTPRG	0	.	GRCh37	3	61989085	61989085	+	Missense_Mutation	SNP	G	G	T	rs749642322	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433G>T	p.Ala145Ser	p.A145S	ENST00000474889	4/30	44	21	22	64	64	0	PTPRG,missense_variant,p.Ala145Ser,ENST00000295874,;PTPRG,missense_variant,p.Ala145Ser,ENST00000474889,;	T	ENSG00000144724	ENST00000474889	Transcript	missense_variant	810	433	145	A/S	Gct/Tct	rs749642322,COSM1309422	.	.	1	PTPRG	HGNC	9671	protein_coding	YES	CCDS2895.1	ENSP00000418112	PTPRG_HUMAN	O60420_HUMAN	UPI00001AEBFB	.	deleterious(0.04)	probably_damaging(0.93)	4/30	.	PROSITE_profiles:PS51144,hmmpanther:PTHR19134:SF189,hmmpanther:PTHR19134,Pfam_domain:PF00194,Gene3D:3.10.200.10,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAAGCTGAG	.	5	BLCA
BBS12	0	.	GRCh37	4	123663547	123663547	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.500C>T	p.Thr167Ile	p.T167I	ENST00000542236	3/3	70	46	24	56	56	0	BBS12,missense_variant,p.Thr167Ile,ENST00000542236,;BBS12,missense_variant,p.Thr167Ile,ENST00000314218,;BBS12,missense_variant,p.Thr167Ile,ENST00000433287,;	T	ENSG00000181004	ENST00000542236	Transcript	missense_variant	881	500	167	T/I	aCt/aTt	COSM1309675	.	.	1	BBS12	HGNC	26648	protein_coding	YES	CCDS3728.1	ENSP00000438273	BBS12_HUMAN	C9J8H7_HUMAN	UPI0000231CAC	.	tolerated(0.44)	benign(0.072)	3/3	.	hmmpanther:PTHR11353:SF30,hmmpanther:PTHR11353	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATACTGATT	.	5	BLCA
CLGN	0	.	GRCh37	4	141334194	141334194	+	Silent	SNP	C	C	A	rs775372946	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.39G>T	p.%3D	p.L13L	ENST00000325617	2/15	58	42	16	45	45	0	CLGN,synonymous_variant,p.%3D,ENST00000414773,;CLGN,synonymous_variant,p.%3D,ENST00000325617,;CLGN,synonymous_variant,p.%3D,ENST00000537281,;CLGN,synonymous_variant,p.%3D,ENST00000509477,;	A	ENSG00000153132	ENST00000325617	Transcript	synonymous_variant	480	39	13	L	ctG/ctT	rs775372946,COSM1309757	.	.	-1	CLGN	HGNC	2060	protein_coding	YES	CCDS3751.1	ENSP00000326699	CLGN_HUMAN	D6RAZ4_HUMAN,B4DRG2_HUMAN	UPI0000126E4A	.	.	.	2/15	.	hmmpanther:PTHR11073,hmmpanther:PTHR11073:SF7,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAACAGAAG	.	5	BLCA
FGB	0	.	GRCh37	4	155487059	155487059	+	Missense_Mutation	SNP	C	C	T	rs755819016	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214C>T	p.Arg72Trp	p.R72W	ENST00000302068	2/8	46	33	12	42	42	0	FGB,missense_variant,p.Arg72Trp,ENST00000302068,;FGB,intron_variant,,ENST00000509493,;FGB,non_coding_transcript_exon_variant,,ENST00000502545,;FGB,3_prime_UTR_variant,,ENST00000425838,;FGB,non_coding_transcript_exon_variant,,ENST00000473984,;FGB,non_coding_transcript_exon_variant,,ENST00000497097,;FGB,non_coding_transcript_exon_variant,,ENST00000498375,;	T	ENSG00000171564	ENST00000302068	Transcript	missense_variant	277	214	72	R/W	Cgg/Tgg	rs755819016,COSM1309832	.	.	1	FGB	HGNC	3662	protein_coding	YES	CCDS3786.1	ENSP00000306099	FIBB_HUMAN	D6REL8_HUMAN,D3DP13_HUMAN,B4E1D3_HUMAN	UPI000012A778	.	deleterious(0)	possibly_damaging(0.724)	2/8	.	hmmpanther:PTHR19143:SF23,hmmpanther:PTHR19143	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATCGGGCT	.	5	BLCA
PROM1	0	.	GRCh37	4	15993957	15993957	+	Missense_Mutation	SNP	G	G	T	rs770131333	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1825C>A	p.Leu609Met	p.L609M	ENST00000510224	17/28	86	58	28	100	100	0	PROM1,missense_variant,p.Leu609Met,ENST00000539194,;PROM1,missense_variant,p.Leu609Met,ENST00000540805,;PROM1,missense_variant,p.Leu600Met,ENST00000505450,;PROM1,missense_variant,p.Leu609Met,ENST00000510224,;PROM1,missense_variant,p.Leu600Met,ENST00000508167,;PROM1,missense_variant,p.Leu600Met,ENST00000543373,;PROM1,missense_variant,p.Leu609Met,ENST00000447510,;	T	ENSG00000007062	ENST00000510224	Transcript	missense_variant	2074	1825	609	L/M	Ctg/Atg	rs770131333,COSM1309855	.	.	-1	PROM1	HGNC	9454	protein_coding	YES	CCDS47029.1	ENSP00000426809	PROM1_HUMAN	D6RIF3_HUMAN,D6RBI0_HUMAN	UPI000004ECD6	.	deleterious(0)	probably_damaging(0.999)	17/28	.	Pfam_domain:PF05478,hmmpanther:PTHR22730,hmmpanther:PTHR22730:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACAGAAAGA	.	5	BLCA
FAT1	0	.	GRCh37	4	187630666	187630666	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316G>A	p.Ala106Thr	p.A106T	ENST00000441802	2/27	61	26	34	73	73	0	FAT1,missense_variant,p.Ala106Thr,ENST00000509647,;FAT1,missense_variant,p.Ala106Thr,ENST00000441802,;	T	ENSG00000083857	ENST00000441802	Transcript	missense_variant	526	316	106	A/T	Gct/Act	COSM1309960,COSM1309959	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	probably_damaging(0.997)	2/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATAGCTGTAT	.	5	BLCA
EXOC1	0	.	GRCh37	4	56765938	56765938	+	Missense_Mutation	SNP	G	G	A	rs373611067	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2225G>A	p.Arg742Gln	p.R742Q	ENST00000381295	17/19	89	65	24	97	97	0	EXOC1,missense_variant,p.Arg742Gln,ENST00000381295,;EXOC1,missense_variant,p.Arg727Gln,ENST00000349598,;EXOC1,missense_variant,p.Arg742Gln,ENST00000346134,;EXOC1,non_coding_transcript_exon_variant,,ENST00000511971,;EXOC1,upstream_gene_variant,,ENST00000506936,;	A	ENSG00000090989	ENST00000381295	Transcript	missense_variant	2573	2225	742	R/Q	cGa/cAa	rs373611067,COSM1310150	.	.	1	EXOC1	HGNC	30380	protein_coding	YES	CCDS3502.1	ENSP00000370695	EXOC1_HUMAN	.	UPI000013574F	.	tolerated(1)	benign(0.065)	17/19	.	hmmpanther:PTHR16092,hmmpanther:PTHR16092:SF19,Pfam_domain:PF09763	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCGATTGA	byFrequency|byCluster	5	BLCA
MAN2A1	0	.	GRCh37	5	109026216	109026216	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98A>G	p.Tyr33Cys	p.Y33C	ENST00000261483	1/22	19	14	4	10	10	0	MAN2A1,missense_variant,p.Tyr33Cys,ENST00000261483,;AC012603.1,downstream_gene_variant,,ENST00000583099,;CTC-332L22.1,upstream_gene_variant,,ENST00000606424,;	G	ENSG00000112893	ENST00000261483	Transcript	missense_variant	1150	98	33	Y/C	tAc/tGc	COSM1310425	.	.	1	MAN2A1	HGNC	6824	protein_coding	YES	CCDS34209.1	ENSP00000261483	MA2A1_HUMAN	Q49A69_HUMAN	UPI000013D193	.	tolerated(0.16)	possibly_damaging(0.711)	1/22	.	hmmpanther:PTHR11607,hmmpanther:PTHR11607:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTACCCCA	.	5	BLCA
PCDHGA3	0	.	GRCh37	5	140725895	140725895	+	Silent	SNP	G	G	A	rs775563489	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2295G>A	p.%3D	p.K765K	ENST00000253812	1/4	144	116	28	147	147	0	PCDHGA3,synonymous_variant,p.%3D,ENST00000253812,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB1,upstream_gene_variant,,ENST00000523390,;PCDHGA2,downstream_gene_variant,,ENST00000528330,;	A	ENSG00000254245	ENST00000253812	Transcript	synonymous_variant	2295	2295	765	K	aaG/aaA	rs775563489,COSM1310726	.	.	1	PCDHGA3	HGNC	8701	protein_coding	YES	CCDS47290.1	ENSP00000253812	PCDG3_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000161C1A	.	.	.	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF75	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGAAGAGCCA	byFrequency	5	BLCA
PCDHGA8	0	.	GRCh37	5	140772771	140772771	+	Missense_Mutation	SNP	C	C	T	rs373432896	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391C>T	p.Pro131Ser	p.P131S	ENST00000398604	1/4	76	56	20	62	62	0	PCDHGA8,missense_variant,p.Pro131Ser,ENST00000398604,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB2,intron_variant,,ENST00000522605,;	T	ENSG00000253767	ENST00000398604	Transcript	missense_variant	391	391	131	P/S	Cca/Tca	rs373432896,COSM1310735	.	.	1	PCDHGA8	HGNC	8706	protein_coding	YES	CCDS47291.1	ENSP00000381605	PCDG8_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000006FC06	.	deleterious_low_confidence(0)	probably_damaging(0.997)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF72,PROSITE_patterns:PS00232,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	T:0.0003	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAACCCAAAA	byCluster	5	BLCA
TCOF1	0	.	GRCh37	5	149771567	149771567	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3345C>A	p.%3D	p.T1115T	ENST00000504761	21/26	36	26	10	38	38	0	TCOF1,synonymous_variant,p.%3D,ENST00000427724,;TCOF1,synonymous_variant,p.%3D,ENST00000513346,;TCOF1,synonymous_variant,p.%3D,ENST00000439160,;TCOF1,synonymous_variant,p.%3D,ENST00000377797,;TCOF1,synonymous_variant,p.%3D,ENST00000451292,;TCOF1,synonymous_variant,p.%3D,ENST00000445265,;TCOF1,synonymous_variant,p.%3D,ENST00000323668,;TCOF1,synonymous_variant,p.%3D,ENST00000504761,;TCOF1,intron_variant,,ENST00000515516,;TCOF1,non_coding_transcript_exon_variant,,ENST00000506630,;TCOF1,non_coding_transcript_exon_variant,,ENST00000514442,;TCOF1,downstream_gene_variant,,ENST00000506767,;	A	ENSG00000070814	ENST00000504761	Transcript	synonymous_variant	3345	3345	1115	T	acC/acA	COSM1310856,COSM1310855	.	.	1	TCOF1	HGNC	11654	protein_coding	YES	CCDS54936.1	ENSP00000421655	TCOF_HUMAN	Q9UFD4_HUMAN	UPI0000EE3736	.	.	.	21/26	.	hmmpanther:PTHR20787	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCACCTCCGT	.	5	BLCA
ATP10B	0	.	GRCh37	5	160033952	160033952	+	Missense_Mutation	SNP	C	C	G	rs753483912	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2980G>C	p.Ala994Pro	p.A994P	ENST00000327245	19/26	125	92	33	135	135	0	ATP10B,missense_variant,p.Ala994Pro,ENST00000327245,;ATP10B,downstream_gene_variant,,ENST00000522169,;ATP10B,upstream_gene_variant,,ENST00000523758,;ATP10B,upstream_gene_variant,,ENST00000517815,;	G	ENSG00000118322	ENST00000327245	Transcript	missense_variant	3827	2980	994	A/P	Gct/Cct	rs753483912,COSM1310907	.	.	-1	ATP10B	HGNC	13543	protein_coding	YES	CCDS43394.1	ENSP00000313600	AT10B_HUMAN	.	UPI0000191DAE	.	tolerated(0.22)	possibly_damaging(0.633)	19/26	.	Superfamily_domains:SSF56784,Pfam_domain:PF12710,TIGRFAM_domain:TIGR01652,hmmpanther:PTHR24092:SF42,hmmpanther:PTHR24092	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGCTTCTG	.	5	BLCA
RUFY1	0	.	GRCh37	5	178994559	178994560	+	Frame_Shift_Del	DEL	TT	TT	-	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	TT	TT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700_701delTT	p.Leu234LysfsTer5	p.L234Kfs*5	ENST00000319449	4/18	43	37	6	36	36	0	RUFY1,frameshift_variant,p.Leu234LysfsTer5,ENST00000319449,;RUFY1,frameshift_variant,p.Leu45LysfsTer5,ENST00000508609,;RUFY1,frameshift_variant,p.Leu234LysfsTer5,ENST00000377001,;RUFY1,frameshift_variant,p.Leu192LysfsTer5,ENST00000502984,;RUFY1,frameshift_variant,p.Leu126LysfsTer5,ENST00000437570,;RUFY1,frameshift_variant,p.Leu126LysfsTer5,ENST00000393438,;RUFY1,non_coding_transcript_exon_variant,,ENST00000503514,;RUFY1,non_coding_transcript_exon_variant,,ENST00000514238,;RUFY1,frameshift_variant,p.Leu146LysfsTer5,ENST00000393448,;RUFY1,downstream_gene_variant,,ENST00000507569,;PRDX2P3,upstream_gene_variant,,ENST00000515779,;	-	ENSG00000176783	ENST00000319449	Transcript	frameshift_variant	712-713	700-701	234	L/X	TTa/a	.	.	.	1	RUFY1	HGNC	19760	protein_coding	YES	CCDS4445.2	ENSP00000325594	RUFY1_HUMAN	.	UPI0000D74C3F	.	.	.	4/18	.	PROSITE_profiles:PS50826,hmmpanther:PTHR22835:SF84,hmmpanther:PTHR22835,Pfam_domain:PF02759,SMART_domains:SM00593,Superfamily_domains:0052343	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CATCTCTTAAGGT	.	2	BLCA
VCAN	0	.	GRCh37	5	82818114	82818114	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3989G>T	p.Arg1330Ile	p.R1330I	ENST00000265077	7/15	74	53	20	99	99	0	VCAN,missense_variant,p.Arg1330Ile,ENST00000342785,;VCAN,missense_variant,p.Arg1330Ile,ENST00000265077,;VCAN,missense_variant,p.Arg1282Ile,ENST00000512590,;VCAN,intron_variant,,ENST00000502527,;VCAN,intron_variant,,ENST00000513960,;VCAN,intron_variant,,ENST00000343200,;VCAN,intron_variant,,ENST00000515397,;	T	ENSG00000038427	ENST00000265077	Transcript	missense_variant	4554	3989	1330	R/I	aGa/aTa	COSM1311365	.	.	1	VCAN	HGNC	2464	protein_coding	YES	CCDS4060.1	ENSP00000265077	CSPG2_HUMAN	.	UPI000013178B	.	tolerated(0.09)	benign(0.209)	7/15	.	hmmpanther:PTHR22804:SF6,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCAGAGAAA	.	5	BLCA
SYCP2L	0	.	GRCh37	6	10956472	10956472	+	Nonsense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2160T>A	p.Tyr720Ter	p.Y720*	ENST00000283141	25/30	32	24	8	26	26	0	SYCP2L,stop_gained,p.Tyr720Ter,ENST00000283141,;SYCP2L,3_prime_UTR_variant,,ENST00000341041,;	A	ENSG00000153157	ENST00000283141	Transcript	stop_gained	2456	2160	720	Y/*	taT/taA	COSM1311447	.	.	1	SYCP2L	HGNC	21537	protein_coding	YES	CCDS43423.1	ENSP00000283141	SYC2L_HUMAN	.	UPI000022CA18	.	.	.	25/30	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15607:SF14,hmmpanther:PTHR15607	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.E721K|c.2161G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATATGAGGT	.	5	BLCA
CTAGE9	0	.	GRCh37	6	132030144	132030144	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2014C>A	p.Leu672Ile	p.L672I	ENST00000314099	1/1	41	23	18	59	59	0	CTAGE9,missense_variant,p.Leu672Ile,ENST00000314099,;ENPP3,intron_variant,,ENST00000358229,;ENPP3,intron_variant,,ENST00000357639,;ENPP3,intron_variant,,ENST00000414305,;	T	ENSG00000236761	ENST00000314099	Transcript	missense_variant	2063	2014	672	L/I	Ctt/Att	.	.	.	-1	CTAGE9	HGNC	37275	protein_coding	YES	CCDS47475.1	ENSP00000395587	CTGE9_HUMAN	.	UPI0000073347	.	tolerated(0.14)	benign(0.167)	1/1	.	hmmpanther:PTHR23158,hmmpanther:PTHR23158:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	ACCAAGATCAT	.	2	BLCA
KIF25	0	.	GRCh37	6	168434587	168434587	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>A	p.Gly65Arg	p.G65R	ENST00000443060	5/10	55	42	12	61	61	0	KIF25,missense_variant,p.Gly65Arg,ENST00000351261,;KIF25,missense_variant,p.Gly65Arg,ENST00000354419,;KIF25,missense_variant,p.Gly65Arg,ENST00000443060,;KIF25,upstream_gene_variant,,ENST00000496008,;KIF25,downstream_gene_variant,,ENST00000515361,;KIF25,non_coding_transcript_exon_variant,,ENST00000504593,;	A	ENSG00000125337	ENST00000443060	Transcript	missense_variant	584	193	65	G/R	Gga/Aga	COSM1311815	.	.	1	KIF25	HGNC	6390	protein_coding	YES	CCDS5305.1	ENSP00000388878	KIF25_HUMAN	.	UPI000012DDAB	.	deleterious(0)	probably_damaging(0.999)	5/10	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF327,hmmpanther:PTHR24115,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540,Prints_domain:PR00380	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTATGGACAG	.	5	BLCA
OR10C1	0	.	GRCh37	6	29408136	29408136	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.344C>A	p.Ala115Glu	p.A115E	ENST00000444197	1/1	65	43	22	77	77	0	OR10C1,missense_variant,p.Ala115Glu,ENST00000444197,;OR11A1,intron_variant,,ENST00000377149,;	A	ENSG00000206474	ENST00000444197	Transcript	missense_variant	1054	344	115	A/E	gCa/gAa	COSM1311933	.	.	1	OR10C1	HGNC	8165	protein_coding	YES	CCDS34364.1	ENSP00000419119	O10C1_HUMAN	.	UPI000014068E	.	deleterious(0)	probably_damaging(0.997)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF191,hmmpanther:PTHR26453,PROSITE_patterns:PS00237,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGCAGCCA	.	5	BLCA
XPO5	0	.	GRCh37	6	43543609	43543609	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8C>T	.	.	ENST00000265351	1/32	103	78	24	67	67	0	XPO5,5_prime_UTR_variant,,ENST00000265351,;POLH,upstream_gene_variant,,ENST00000372226,;POLH,upstream_gene_variant,,ENST00000443535,;POLH,upstream_gene_variant,,ENST00000535400,;POLH,upstream_gene_variant,,ENST00000372236,;XPO5,5_prime_UTR_variant,,ENST00000398799,;	A	ENSG00000124571	ENST00000265351	Transcript	5_prime_UTR_variant	204	.	.	.	.	.	.	.	-1	XPO5	HGNC	17675	protein_coding	YES	CCDS47430.1	ENSP00000265351	XPO5_HUMAN	E2QRM3_HUMAN	UPI000006CC97	.	.	.	1/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGCGCCACG	.	5	BLCA
PRSS35	0	.	GRCh37	6	84233295	84233295	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135C>T	p.%3D	p.L45L	ENST00000536636	3/3	108	78	30	120	120	0	PRSS35,synonymous_variant,p.%3D,ENST00000369700,;PRSS35,synonymous_variant,p.%3D,ENST00000536636,;	T	ENSG00000146250	ENST00000536636	Transcript	synonymous_variant	480	135	45	L	ctC/ctT	COSM1312410	.	.	1	PRSS35	HGNC	21387	protein_coding	YES	CCDS4999.1	ENSP00000440870	PRS35_HUMAN	.	UPI000006D2C7	.	.	.	3/3	.	hmmpanther:PTHR15462:SF7,hmmpanther:PTHR15462	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCACCAG	.	5	BLCA
LRGUK	0	.	GRCh37	7	133876486	133876486	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1414G>A	p.Asp472Asn	p.D472N	ENST00000285928	12/20	59	43	15	61	61	0	LRGUK,missense_variant,p.Asp472Asn,ENST00000285928,;	A	ENSG00000155530	ENST00000285928	Transcript	missense_variant	1483	1414	472	D/N	Gat/Aat	COSM1312692	.	.	1	LRGUK	HGNC	21964	protein_coding	YES	CCDS5830.1	ENSP00000285928	LRGUK_HUMAN	.	UPI0000072C76	.	tolerated(0.08)	benign(0.168)	12/20	.	PROSITE_profiles:PS50052,hmmpanther:PTHR10588,hmmpanther:PTHR10588:SF35,Gene3D:3.30.63.10,Pfam_domain:PF00625,SMART_domains:SM00072,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTTTGATGAA	.	3	BLCA
LRGUK	0	.	GRCh37	7	133876489	133876489	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1417G>T	p.Glu473Ter	p.E473*	ENST00000285928	12/20	57	43	13	60	60	0	LRGUK,stop_gained,p.Glu473Ter,ENST00000285928,;	T	ENSG00000155530	ENST00000285928	Transcript	stop_gained	1486	1417	473	E/*	Gaa/Taa	COSM1312693	.	.	1	LRGUK	HGNC	21964	protein_coding	YES	CCDS5830.1	ENSP00000285928	LRGUK_HUMAN	.	UPI0000072C76	.	.	.	12/20	.	PROSITE_profiles:PS50052,hmmpanther:PTHR10588,hmmpanther:PTHR10588:SF35,Gene3D:3.30.63.10,Pfam_domain:PF00625,SMART_domains:SM00072,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGATGAAATG	.	3	BLCA
OR2A2	0	.	GRCh37	7	143807132	143807132	+	Missense_Mutation	SNP	G	G	T	rs373747609	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457G>T	p.Ala153Ser	p.A153S	ENST00000408979	1/1	90	54	36	96	95	1	OR2A2,missense_variant,p.Ala153Ser,ENST00000408979,;	T	ENSG00000221989	ENST00000408979	Transcript	missense_variant	526	457	153	A/S	Gcc/Tcc	rs373747609,COSM1312790	.	.	1	OR2A2	HGNC	8230	protein_coding	YES	CCDS43671.1	ENSP00000386209	OR2A2_HUMAN	.	UPI0000061E70	.	tolerated(0.19)	benign(0.013)	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF13853,hmmpanther:PTHR26453:SF82,hmmpanther:PTHR26453,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTGCCCTG	.	5	BLCA
NME8	0	.	GRCh37	7	37916593	37916593	+	Silent	SNP	C	C	G	rs759874838	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.978C>G	p.%3D	p.L326L	ENST00000199447	12/18	22	17	4	24	24	0	NME8,synonymous_variant,p.%3D,ENST00000440017,;NME8,synonymous_variant,p.%3D,ENST00000199447,;EPDR1,intron_variant,,ENST00000476620,;NME8,intron_variant,,ENST00000426106,;	G	ENSG00000086288	ENST00000199447	Transcript	synonymous_variant	1350	978	326	L	ctC/ctG	rs759874838,COSM3638523,COSM1313067	.	.	1	NME8	HGNC	16473	protein_coding	YES	CCDS5452.1	ENSP00000199447	TXND3_HUMAN	.	UPI00000700CB	.	.	.	12/18	.	hmmpanther:PTHR11349:SF45,hmmpanther:PTHR11349,Gene3D:3.30.70.141,Pfam_domain:PF00334,SMART_domains:SM00562,Superfamily_domains:SSF54919	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCTCTTTCA	.	5	BLCA
HECW1	0	.	GRCh37	7	43547627	43547627	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3763C>A	p.Arg1255Ser	p.R1255S	ENST00000395891	23/30	57	42	14	55	55	0	HECW1,missense_variant,p.Arg1221Ser,ENST00000453890,;HECW1,missense_variant,p.Arg1255Ser,ENST00000395891,;HECW1,intron_variant,,ENST00000429529,;AC011738.4,downstream_gene_variant,,ENST00000436105,;	A	ENSG00000002746	ENST00000395891	Transcript	missense_variant	4368	3763	1255	R/S	Cgc/Agc	COSM3638815,COSM1313094,COSM1313095,COSM3638814	.	.	1	HECW1	HGNC	22195	protein_coding	YES	CCDS5469.2	ENSP00000379228	HECW1_HUMAN	A4D1V5_HUMAN	UPI0000D74C41	.	deleterious(0.02)	probably_damaging(0.995)	23/30	.	hmmpanther:PTHR11254:SF79,hmmpanther:PTHR11254,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATTCGCCGG	.	5	BLCA
ABCB1	0	.	GRCh37	7	87165842	87165842	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2413G>T	p.Asp805Tyr	p.D805Y	ENST00000265724	21/29	46	38	8	66	66	0	ABCB1,missense_variant,p.Asp805Tyr,ENST00000265724,;ABCB1,missense_variant,p.Asp741Tyr,ENST00000543898,;ABCB1,non_coding_transcript_exon_variant,,ENST00000496821,;ABCB1,upstream_gene_variant,,ENST00000488737,;	A	ENSG00000085563	ENST00000265724	Transcript	missense_variant	2831	2413	805	D/Y	Gat/Tat	COSM1092608,COSM1313359	.	.	-1	ABCB1	HGNC	40	protein_coding	YES	CCDS5608.1	ENSP00000265724	MDR1_HUMAN	Q6TBL4_HUMAN,E7EWT8_HUMAN,B5U2G4_HUMAN,A4D1D2_HUMAN	UPI000013D66C	.	deleterious(0)	probably_damaging(0.997)	21/29	.	PROSITE_profiles:PS50929,hmmpanther:PTHR24221,hmmpanther:PTHR24221:SF155,Pfam_domain:PF00664,Gene3D:2hydA01,Superfamily_domains:SSF90123	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCAAACC	.	5	BLCA
PON2	0	.	GRCh37	7	95034713	95034713	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994G>T	p.Val332Leu	p.V332L	ENST00000222572	9/9	107	91	16	104	104	0	PON2,missense_variant,p.Val332Leu,ENST00000222572,;PON2,missense_variant,p.Val353Leu,ENST00000536183,;PON2,missense_variant,p.Val320Leu,ENST00000433091,;PON2,non_coding_transcript_exon_variant,,ENST00000483292,;PON2,downstream_gene_variant,,ENST00000469926,;PON2,3_prime_UTR_variant,,ENST00000446142,;PON2,3_prime_UTR_variant,,ENST00000455123,;PON2,downstream_gene_variant,,ENST00000459842,;	A	ENSG00000105854	ENST00000222572	Transcript	missense_variant	1241	994	332	V/L	Gta/Tta	COSM1313445	.	.	-1	PON2	HGNC	9205	protein_coding	YES	CCDS5640.1	ENSP00000222572	PON2_HUMAN	.	UPI000000D8F3	.	deleterious(0)	benign(0.189)	9/9	.	hmmpanther:PTHR11799:SF4,hmmpanther:PTHR11799,Gene3D:2.120.10.30,Superfamily_domains:SSF63829	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTACAGAAC	.	4	BLCA
RP1L1	0	.	GRCh37	8	10470140	10470140	+	Missense_Mutation	SNP	C	C	A	rs752197092	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1468G>T	p.Gly490Trp	p.G490W	ENST00000382483	4/4	50	44	6	77	77	0	RP1L1,missense_variant,p.Gly490Trp,ENST00000382483,;	A	ENSG00000183638	ENST00000382483	Transcript	missense_variant	1692	1468	490	G/W	Ggg/Tgg	rs752197092,COSM1313564	.	.	-1	RP1L1	HGNC	15946	protein_coding	YES	CCDS43708.1	ENSP00000371923	.	A6NKC6_HUMAN	UPI00001AF9CC	.	.	benign(0.062)	4/4	.	hmmpanther:PTHR23005:SF3,hmmpanther:PTHR23005	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUSE|VARSCANS	AGCCCCTATCT	byFrequency	3	BLCA
RHOXF1	0	.	GRCh37	X	119249648	119249648	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.125C>A	p.Pro42Gln	p.P42Q	ENST00000217999	1/3	110	92	18	87	87	0	RHOXF1,missense_variant,p.Pro42Gln,ENST00000217999,;GS1-421I3.4,downstream_gene_variant,,ENST00000422226,;RP4-755D9.1,intron_variant,,ENST00000553843,;RP4-755D9.1,upstream_gene_variant,,ENST00000555831,;RP4-755D9.1,upstream_gene_variant,,ENST00000557073,;	T	ENSG00000101883	ENST00000217999	Transcript	missense_variant	200	125	42	P/Q	cCa/cAa	COSM1315149	.	.	-1	RHOXF1	HGNC	29993	protein_coding	YES	CCDS14593.1	ENSP00000217999	RHXF1_HUMAN	.	UPI0000046608	.	tolerated(0.38)	probably_damaging(0.937)	1/3	.	hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF314	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGGAGCT	.	5	BLCA
ZBTB33	0	.	GRCh37	X	119387328	119387328	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58A>T	p.Asn20Tyr	p.N20Y	ENST00000326624	2/2	229	137	91	221	221	0	ZBTB33,missense_variant,p.Asn20Tyr,ENST00000326624,;ZBTB33,missense_variant,p.Asn20Tyr,ENST00000557385,;	T	ENSG00000177485	ENST00000326624	Transcript	missense_variant	286	58	20	N/Y	Aac/Tac	COSM1315150	.	.	1	ZBTB33	HGNC	16682	protein_coding	YES	CCDS14596.1	ENSP00000314153	KAISO_HUMAN	.	UPI0000072F87	.	deleterious(0.01)	possibly_damaging(0.498)	2/2	.	hmmpanther:PTHR23228:SF46,hmmpanther:PTHR23228,Gene3D:3.30.710.10,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTGAACTCC	.	5	BLCA
DCAF12L2	0	.	GRCh37	X	125299664	125299664	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244A>T	p.Arg82Trp	p.R82W	ENST00000538699	2/2	73	48	25	46	46	0	DCAF12L2,missense_variant,p.Arg82Trp,ENST00000538699,;DCAF12L2,missense_variant,p.Arg82Trp,ENST00000360028,;	A	ENSG00000198354	ENST00000538699	Transcript	missense_variant	325	244	82	R/W	Agg/Tgg	COSM1315191,COSM1315190	.	.	-1	DCAF12L2	HGNC	32950	protein_coding	YES	CCDS43991.1	ENSP00000441489	DC122_HUMAN	.	UPI0000197594	.	deleterious(0)	possibly_damaging(0.566)	2/2	.	hmmpanther:PTHR19860,hmmpanther:PTHR19860:SF8	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCCTCTGGA	.	5	BLCA
MAGEA12	0	.	GRCh37	X	151900075	151900075	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726C>A	p.%3D	p.P242P	ENST00000393900	3/3	256	203	52	189	188	1	MAGEA12,synonymous_variant,p.%3D,ENST00000393869,;MAGEA12,synonymous_variant,p.%3D,ENST00000357916,;MAGEA12,synonymous_variant,p.%3D,ENST00000393900,;CSAG1,upstream_gene_variant,,ENST00000370287,;CSAG1,upstream_gene_variant,,ENST00000452779,;CSAG1,upstream_gene_variant,,ENST00000370291,;CSAG4,intron_variant,,ENST00000361201,;CSAG1,upstream_gene_variant,,ENST00000361211,;CSAG4,upstream_gene_variant,,ENST00000583763,;CSAG4,upstream_gene_variant,,ENST00000535353,;	T	ENSG00000213401	ENST00000393900	Transcript	synonymous_variant	1080	726	242	P	ccC/ccA	COSM1315293	.	.	-1	MAGEA12	HGNC	6799	protein_coding	YES	CCDS14710.1	ENSP00000377478	MAGAC_HUMAN	Q6FHH8_HUMAN	UPI0000000C51	.	.	.	3/3	.	PROSITE_profiles:PS50838,hmmpanther:PTHR11736:SF74,hmmpanther:PTHR11736,Pfam_domain:PF01454	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTGGGATG	.	5	BLCA
TAZ	0	.	GRCh37	X	153648506	153648506	+	Intron	SNP	G	G	T	novel	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.647-45G>T	.	.	ENST00000299328	.	333	267	65	210	209	1	TAZ,missense_variant,p.Cys171Phe,ENST00000369776,;TAZ,intron_variant,,ENST00000475699,;TAZ,intron_variant,,ENST00000369790,;TAZ,intron_variant,,ENST00000351413,;TAZ,intron_variant,,ENST00000350743,;TAZ,intron_variant,,ENST00000299328,;TAZ,downstream_gene_variant,,ENST00000439735,;TAZ,downstream_gene_variant,,ENST00000454722,;TAZ,intron_variant,,ENST00000498029,;TAZ,downstream_gene_variant,,ENST00000470127,;TAZ,intron_variant,,ENST00000494912,;TAZ,intron_variant,,ENST00000455296,;TAZ,intron_variant,,ENST00000369793,;TAZ,intron_variant,,ENST00000433313,;TAZ,intron_variant,,ENST00000426231,;TAZ,downstream_gene_variant,,ENST00000476679,;TAZ,downstream_gene_variant,,ENST00000476307,;TAZ,downstream_gene_variant,,ENST00000483780,;TAZ,downstream_gene_variant,,ENST00000483674,;	T	ENSG00000102125	ENST00000299328	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	TAZ	HGNC	11577	protein_coding	YES	CCDS14748.1	ENSP00000299328	TAZ_HUMAN	F2Z2H6_HUMAN,Q2VF39_HUMAN	UPI0000136CA2	.	.	.	.	8/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTGCCCTG	.	4	BLCA
F8	0	.	GRCh37	X	154157894	154157894	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4171G>T	p.Asp1391Tyr	p.D1391Y	ENST00000360256	14/26	243	146	97	162	162	0	F8,missense_variant,p.Asp1391Tyr,ENST00000360256,;	A	ENSG00000185010	ENST00000360256	Transcript	missense_variant	4372	4171	1391	D/Y	Gat/Tat	COSM1315374,COSM1315373	.	.	-1	F8	HGNC	3546	protein_coding	YES	CCDS35457.1	ENSP00000353393	FA8_HUMAN	Q9UQQ5_HUMAN,Q71UI6_HUMAN,Q2VF45_HUMAN,Q003V9_HUMAN,Q003V5_HUMAN,A0FJ19_HUMAN,A0A2G6_HUMAN	UPI000012A416	.	tolerated(0.21)	benign(0.139)	14/26	.	hmmpanther:PTHR10127:SF50,hmmpanther:PTHR10127,PIRSF_domain:PIRSF000354	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAATCTGATA	.	5	BLCA
NHS	0	.	GRCh37	X	17744475	17744475	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2186G>T	p.Cys729Phe	p.C729F	ENST00000380060	6/8	156	117	38	125	125	0	NHS,missense_variant,p.Cys729Phe,ENST00000380060,;NHS,missense_variant,p.Cys573Phe,ENST00000398097,;NHS,downstream_gene_variant,,ENST00000485305,;	T	ENSG00000188158	ENST00000380060	Transcript	missense_variant	2524	2186	729	C/F	tGc/tTc	COSM1315400,COSM1315401	.	.	1	NHS	HGNC	7820	protein_coding	YES	CCDS14181.1	ENSP00000369400	NHS_HUMAN	.	UPI00001DFBF3	.	deleterious(0.02)	probably_damaging(0.999)	6/8	.	hmmpanther:PTHR23039:SF5,hmmpanther:PTHR23039,Pfam_domain:PF15273	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGCCCAA	.	5	BLCA
CHST7	0	.	GRCh37	X	46433887	46433887	+	Missense_Mutation	SNP	C	C	T	rs766923926	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.521C>T	p.Pro174Leu	p.P174L	ENST00000276055	1/2	35	30	5	34	34	0	CHST7,missense_variant,p.Pro174Leu,ENST00000276055,;	T	ENSG00000147119	ENST00000276055	Transcript	missense_variant	669	521	174	P/L	cCg/cTg	rs766923926,COSM3681774,COSM1315525	.	.	1	CHST7	HGNC	13817	protein_coding	YES	CCDS14268.1	ENSP00000276055	CHST7_HUMAN	.	UPI000000DADD	.	deleterious_low_confidence(0.03)	benign(0.007)	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10704:SF5,hmmpanther:PTHR10704,Gene3D:3.40.50.300,Pfam_domain:PF00685,PIRSF_domain:PIRSF005883	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCGCCGGGGG	byFrequency	4	BLCA
GLOD5	0	.	GRCh37	X	48631819	48631819	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451C>A	p.Leu151Met	p.L151M	ENST00000303227	4/4	98	65	32	63	63	0	GLOD5,missense_variant,p.Leu118Met,ENST00000445229,;GLOD5,missense_variant,p.Leu151Met,ENST00000303227,;RNU6-29P,downstream_gene_variant,,ENST00000384637,;GLOD5,non_coding_transcript_exon_variant,,ENST00000470676,;AC115617.2,downstream_gene_variant,,ENST00000419045,;	A	ENSG00000171433	ENST00000303227	Transcript	missense_variant	492	451	151	L/M	Ctg/Atg	COSM1315551	.	.	1	GLOD5	HGNC	33358	protein_coding	YES	CCDS55410.1	ENSP00000302552	GLOD5_HUMAN	.	UPI00003D5F30	.	deleterious(0)	probably_damaging(1)	4/4	.	Superfamily_domains:SSF54593,Gene3D:3.10.180.10,Pfam_domain:PF12681,hmmpanther:PTHR21366,hmmpanther:PTHR21366:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATCTGATT	.	5	BLCA
ERAS	0	.	GRCh37	X	48687714	48687714	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.181C>G	p.Leu61Val	p.L61V	ENST00000338270	1/1	37	30	7	31	31	0	ERAS,missense_variant,p.Leu61Val,ENST00000338270,;HDAC6,downstream_gene_variant,,ENST00000376619,;HDAC6,downstream_gene_variant,,ENST00000430858,;HDAC6,downstream_gene_variant,,ENST00000334136,;HDAC6,downstream_gene_variant,,ENST00000444343,;PCSK1N,downstream_gene_variant,,ENST00000218230,;PCSK1N,downstream_gene_variant,,ENST00000478242,;HDAC6,downstream_gene_variant,,ENST00000488543,;HDAC6,downstream_gene_variant,,ENST00000477528,;HDAC6,downstream_gene_variant,,ENST00000486227,;	G	ENSG00000187682	ENST00000338270	Transcript	missense_variant	432	181	61	L/V	Ctg/Gtg	COSM1315554	.	.	1	ERAS	HGNC	5174	protein_coding	YES	CCDS35246.1	ENSP00000339136	RASE_HUMAN	.	UPI0000160110	.	deleterious(0)	benign(0.392)	1/1	.	Prints_domain:PR00449,Superfamily_domains:SSF52540,SMART_domains:SM00174,SMART_domains:SM00175,SMART_domains:SM00173,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,Pfam_domain:PF00071,hmmpanther:PTHR24070,hmmpanther:PTHR24070:SF55,PROSITE_profiles:PS51421	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGCTGAAC	.	5	BLCA
BRWD3	0	.	GRCh37	X	79973160	79973160	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B4-01A-12D-A202-08	TCGA-FD-A3B4-10A-01D-A202-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2143G>T	p.Ala715Ser	p.A715S	ENST00000373275	19/41	104	74	30	118	118	0	BRWD3,missense_variant,p.Ala715Ser,ENST00000373275,;BRWD3,non_coding_transcript_exon_variant,,ENST00000497335,;BRWD3,non_coding_transcript_exon_variant,,ENST00000473691,;	A	ENSG00000165288	ENST00000373275	Transcript	missense_variant	2360	2143	715	A/S	Gct/Tct	COSM1315718	.	.	-1	BRWD3	HGNC	17342	protein_coding	YES	CCDS14447.1	ENSP00000362372	BRWD3_HUMAN	.	UPI000045785B	.	tolerated(0.18)	benign(0.056)	19/41	.	hmmpanther:PTHR16266:SF25,hmmpanther:PTHR16266	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGCATTGT	.	5	BLCA
CHUK	0	.	GRCh37	10	101967090	101967090	+	Splice_Site	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129-1G>A	.	p.X377_splice	ENST00000370397	.	40	36	4	25	25	0	CHUK,splice_acceptor_variant,,ENST00000370397,;	T	ENSG00000213341	ENST00000370397	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1296843,COSM6164	.	.	-1	CHUK	HGNC	1974	protein_coding	YES	CCDS7488.1	ENSP00000359424	IKKA_HUMAN	.	UPI000013D6C7	.	.	.	.	10/20	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCTGAAA	.	4	BLCA
CELF2	0	.	GRCh37	10	11308619	11308619	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597G>A	p.Met199Ile	p.M199I	ENST00000450189	6/15	43	37	5	68	68	0	CELF2,missense_variant,p.Met168Ile,ENST00000427450,;CELF2,missense_variant,p.Met168Ile,ENST00000608830,;CELF2,missense_variant,p.Met168Ile,ENST00000399850,;CELF2,missense_variant,p.Met192Ile,ENST00000379261,;CELF2,missense_variant,p.Met168Ile,ENST00000354897,;CELF2,missense_variant,p.Met192Ile,ENST00000416382,;CELF2,missense_variant,p.Met81Ile,ENST00000537122,;CELF2,missense_variant,p.Met168Ile,ENST00000609692,;CELF2,missense_variant,p.Met168Ile,ENST00000417956,;CELF2,missense_variant,p.Met168Ile,ENST00000354440,;CELF2,missense_variant,p.Met199Ile,ENST00000542579,;CELF2,missense_variant,p.Met199Ile,ENST00000450189,;CELF2,missense_variant,p.Met168Ile,ENST00000315874,;CELF2,intron_variant,,ENST00000609870,;	A	ENSG00000048740	ENST00000450189	Transcript	missense_variant	757	597	199	M/I	atG/atA	COSM1296937,COSM1296936	.	.	1	CELF2	HGNC	2550	protein_coding	YES	CCDS44355.1	ENSP00000389951	.	E9PC62_HUMAN,B4DIB6_HUMAN	UPI0000F58F21	.	deleterious(0.02)	probably_damaging(0.959)	6/15	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24622,hmmpanther:PTHR24622:SF164,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGCATCA	.	4	BLCA
DCLRE1A	0	.	GRCh37	10	115596920	115596920	+	Nonsense_Mutation	SNP	G	G	A	rs747657243	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2863C>T	p.Gln955Ter	p.Q955*	ENST00000361384	8/9	126	84	41	151	151	0	DCLRE1A,stop_gained,p.Gln955Ter,ENST00000361384,;DCLRE1A,stop_gained,p.Gln955Ter,ENST00000369305,;	A	ENSG00000198924	ENST00000361384	Transcript	stop_gained	3781	2863	955	Q/*	Cag/Tag	rs747657243,COSM1296945	.	.	-1	DCLRE1A	HGNC	17660	protein_coding	YES	CCDS7584.1	ENSP00000355185	DCR1A_HUMAN	.	UPI000006EFFE	.	.	.	8/9	.	hmmpanther:PTHR23240,hmmpanther:PTHR23240:SF6,Pfam_domain:PF07522,Superfamily_domains:SSF56281	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTGATTGT	.	5	BLCA
FGFR2	0	.	GRCh37	10	123274680	123274680	+	Missense_Mutation	SNP	G	G	A	rs372348666	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1241C>T	p.Pro414Leu	p.P414L	ENST00000457416	9/18	107	85	22	144	144	0	FGFR2,missense_variant,p.Pro324Leu,ENST00000336553,;FGFR2,missense_variant,p.Pro5Leu,ENST00000429361,;FGFR2,missense_variant,p.Pro413Leu,ENST00000351936,;FGFR2,missense_variant,p.Pro413Leu,ENST00000346997,;FGFR2,missense_variant,p.Pro301Leu,ENST00000369061,;FGFR2,missense_variant,p.Pro325Leu,ENST00000360144,;FGFR2,missense_variant,p.Pro413Leu,ENST00000358487,;FGFR2,missense_variant,p.Pro299Leu,ENST00000369059,;FGFR2,missense_variant,p.Pro414Leu,ENST00000369058,;FGFR2,missense_variant,p.Pro298Leu,ENST00000356226,;FGFR2,missense_variant,p.Pro185Leu,ENST00000478859,;FGFR2,missense_variant,p.Pro324Leu,ENST00000357555,;FGFR2,missense_variant,p.Pro414Leu,ENST00000369056,;FGFR2,missense_variant,p.Pro414Leu,ENST00000457416,;FGFR2,intron_variant,,ENST00000369060,;FGFR2,downstream_gene_variant,,ENST00000463870,;FGFR2,downstream_gene_variant,,ENST00000490349,;FGFR2,3_prime_UTR_variant,,ENST00000604236,;	A	ENSG00000066468	ENST00000457416	Transcript	missense_variant	1833	1241	414	P/L	cCg/cTg	rs372348666,COSM4012177,COSM1297005,COSM1297006,COSM4012178,COSM4012176,COSM1297004,COSM4012175,COSM4012174,COSM1297003	.	.	-1	FGFR2	HGNC	3689	protein_coding	YES	CCDS7620.2	ENSP00000410294	FGFR2_HUMAN	Q9UMB0_HUMAN,Q9UEH2_HUMAN,D3DRD6_HUMAN	UPI000002A99A	.	tolerated(0.31)	probably_damaging(1)	9/18	.	hmmpanther:PTHR24416:SF130,hmmpanther:PTHR24416,Gene3D:3.30.200.20,PIRSF_domain:PIRSF000628	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCCGGCTGG	byFrequency|byCluster	5	BLCA
AKR1C3	0	.	GRCh37	10	5136590	5136590	+	5'UTR	SNP	G	G	C	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-47G>C	.	.	ENST00000380554	1/9	107	92	15	54	54	0	AKR1C3,5_prime_UTR_variant,,ENST00000380554,;AKR1C3,intron_variant,,ENST00000439082,;AKR1C3,intron_variant,,ENST00000602997,;AKR1C3,intron_variant,,ENST00000605149,;U8,upstream_gene_variant,,ENST00000459536,;AKR1C3,intron_variant,,ENST00000605781,;AKR1C3,intron_variant,,ENST00000480822,;AKR1C3,intron_variant,,ENST00000470862,;AKR1C3,upstream_gene_variant,,ENST00000603312,;AKR1C3,upstream_gene_variant,,ENST00000480697,;AKR1C3,upstream_gene_variant,,ENST00000605322,;	C	ENSG00000196139	ENST00000380554	Transcript	5_prime_UTR_variant	606	.	.	.	.	.	.	.	1	AKR1C3	HGNC	386	protein_coding	YES	CCDS7063.1	ENSP00000369927	AK1C3_HUMAN	B4DL37_HUMAN	UPI0000140951	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCTGAGGAG	.	2	BLCA
A1CF	0	.	GRCh37	10	52569778	52569778	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1509G>A	p.%3D	p.L503L	ENST00000373995	12/13	73	49	23	86	86	0	A1CF,synonymous_variant,p.%3D,ENST00000373993,;A1CF,synonymous_variant,p.%3D,ENST00000282641,;A1CF,synonymous_variant,p.%3D,ENST00000395495,;A1CF,synonymous_variant,p.%3D,ENST00000374001,;A1CF,synonymous_variant,p.%3D,ENST00000373995,;A1CF,synonymous_variant,p.%3D,ENST00000373997,;A1CF,synonymous_variant,p.%3D,ENST00000395489,;ASAH2B,intron_variant,,ENST00000483649,;A1CF,downstream_gene_variant,,ENST00000493415,;	T	ENSG00000148584	ENST00000373995	Transcript	synonymous_variant	1768	1509	503	L	ctG/ctA	COSM1297307,COSM1297306	.	.	-1	A1CF	HGNC	24086	protein_coding	YES	CCDS7243.1	ENSP00000363107	A1CF_HUMAN	.	UPI000013DB32	.	.	.	12/13	.	TIGRFAM_domain:TIGR01648,Pfam_domain:PF14709,Superfamily_domains:SSF54768	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCAGCTT	.	5	BLCA
MICU1	0	.	GRCh37	10	74234899	74234899	+	Missense_Mutation	SNP	C	C	T	rs368702991	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892G>A	p.Glu298Lys	p.E298K	ENST00000361114	8/12	21	7	14	12	12	0	MICU1,missense_variant,p.Glu100Lys,ENST00000489666,;MICU1,missense_variant,p.Glu100Lys,ENST00000398763,;MICU1,missense_variant,p.Glu300Lys,ENST00000398761,;MICU1,missense_variant,p.Glu298Lys,ENST00000401998,;MICU1,missense_variant,p.Glu100Lys,ENST00000418483,;MICU1,missense_variant,p.Glu298Lys,ENST00000361114,;MICU1,downstream_gene_variant,,ENST00000603011,;MICU1,downstream_gene_variant,,ENST00000603173,;MICU1,upstream_gene_variant,,ENST00000605385,;MICU1,downstream_gene_variant,,ENST00000604529,;MICU1,missense_variant,p.Glu141Lys,ENST00000476605,;	T	ENSG00000107745	ENST00000361114	Transcript	missense_variant	989	892	298	E/K	Gaa/Aaa	rs368702991	.	.	-1	MICU1	HGNC	1530	protein_coding	YES	CCDS55715.1	ENSP00000354415	MICU1_HUMAN	.	UPI0000035D9A	.	tolerated(0.13)	benign(0.043)	8/12	.	hmmpanther:PTHR12294:SF1,hmmpanther:PTHR12294,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER	AAATTCGAGGA	byFrequency|byCluster	2	BLCA
NRG3	0	.	GRCh37	10	84118578	84118578	+	Missense_Mutation	SNP	G	G	C	rs764611896	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.907G>C	p.Glu303Gln	p.E303Q	ENST00000372141	2/9	89	64	25	113	113	0	NRG3,missense_variant,p.Glu107Gln,ENST00000404576,;NRG3,missense_variant,p.Glu303Gln,ENST00000404547,;NRG3,missense_variant,p.Glu133Gln,ENST00000556918,;NRG3,missense_variant,p.Glu82Gln,ENST00000372142,;NRG3,missense_variant,p.Glu303Gln,ENST00000372141,;NRG3,synonymous_variant,p.%3D,ENST00000555784,;NRG3,3_prime_UTR_variant,,ENST00000602794,;	C	ENSG00000185737	ENST00000372141	Transcript	missense_variant	934	907	303	E/Q	Gag/Cag	rs764611896,COSM1297466,COSM920843,COSM1297467,COSM920844	.	.	1	NRG3	HGNC	7999	protein_coding	YES	CCDS31233.1	ENSP00000361214	NRG3_HUMAN	D9ZHQ8_HUMAN	UPI00003D64C0	.	deleterious(0.03)	benign(0.444)	2/9	.	Superfamily_domains:SSF57196,Gene3D:2.10.25.10,hmmpanther:PTHR11100,hmmpanther:PTHR11100:SF18,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.E82K|c.244G>A|3,CODON|p.E303K|c.907G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGCGAGTGC	byFrequency	5	BLCA
IFIT2	0	.	GRCh37	10	91061740	91061740	+	5'UTR	SNP	G	G	T	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-141G>T	.	.	ENST00000371826	1/2	8	5	3	13	13	0	IFIT2,5_prime_UTR_variant,,ENST00000371826,;LIPA,intron_variant,,ENST00000371837,;LIPA,intron_variant,,ENST00000282673,;LIPA,intron_variant,,ENST00000487618,;LIPA,intron_variant,,ENST00000463623,;	T	ENSG00000119922	ENST00000371826	Transcript	5_prime_UTR_variant	29	.	.	.	.	.	.	.	1	IFIT2	HGNC	5409	protein_coding	YES	CCDS41548.1	ENSP00000360891	IFIT2_HUMAN	.	UPI000012D3E4	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAGGGAAAC	.	2	BLCA
KIF11	0	.	GRCh37	10	94368903	94368903	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.514C>G	p.Leu172Val	p.L172V	ENST00000260731	5/22	109	88	21	69	69	0	KIF11,missense_variant,p.Leu172Val,ENST00000260731,;	G	ENSG00000138160	ENST00000260731	Transcript	missense_variant	604	514	172	L/V	Ctt/Gtt	COSM1297504	.	.	1	KIF11	HGNC	6388	protein_coding	YES	CCDS7422.1	ENSP00000260731	KIF11_HUMAN	.	UPI000013D0FC	.	deleterious(0)	probably_damaging(1)	5/22	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF105,hmmpanther:PTHR24115,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCTTAAT	.	5	BLCA
ATM	0	.	GRCh37	11	108196036	108196036	+	Splice_Site	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6573-1G>A	.	p.X2191_splice	ENST00000278616	.	66	15	50	93	93	0	ATM,splice_acceptor_variant,,ENST00000278616,;ATM,splice_acceptor_variant,,ENST00000452508,;C11orf65,intron_variant,,ENST00000525729,;ATM,splice_acceptor_variant,,ENST00000524792,;ATM,splice_acceptor_variant,,ENST00000533690,;ATM,upstream_gene_variant,,ENST00000527389,;ATM,upstream_gene_variant,,ENST00000525537,;	A	ENSG00000149311	ENST00000278616	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1297611,COSM1297610	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	.	.	.	45/62	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCAGATCAG	.	5	BLCA
C11orf65	0	.	GRCh37	11	108264059	108264059	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607C>G	p.Leu203Val	p.L203V	ENST00000393084	7/9	106	95	11	135	135	0	C11orf65,missense_variant,p.Leu203Val,ENST00000393084,;C11orf65,missense_variant,p.Leu35Val,ENST00000524755,;C11orf65,missense_variant,p.Leu154Val,ENST00000525729,;C11orf65,missense_variant,p.Leu185Val,ENST00000533583,;C11orf65,missense_variant,p.Leu203Val,ENST00000529391,;C11orf65,non_coding_transcript_exon_variant,,ENST00000526725,;C11orf65,missense_variant,p.Leu203Val,ENST00000527531,;	C	ENSG00000166323	ENST00000393084	Transcript	missense_variant	677	607	203	L/V	Cta/Gta	COSM1297624	.	.	-1	C11orf65	HGNC	28519	protein_coding	YES	CCDS8340.1	ENSP00000376799	CK065_HUMAN	.	UPI000006DEE6	.	tolerated(1)	benign(0.02)	7/9	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTAGAGTTT	.	4	BLCA
VPS11	0	.	GRCh37	11	118949563	118949563	+	Missense_Mutation	SNP	G	G	A	rs368691793	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2119G>A	p.Val707Met	p.V707M	ENST00000300793	14/17	25	9	15	25	25	0	VPS11,missense_variant,p.Val707Met,ENST00000300793,;VPS11,non_coding_transcript_exon_variant,,ENST00000527798,;VPS11,non_coding_transcript_exon_variant,,ENST00000531528,;VPS11,upstream_gene_variant,,ENST00000524454,;VPS11,downstream_gene_variant,,ENST00000530809,;VPS11,downstream_gene_variant,,ENST00000534551,;VPS11,non_coding_transcript_exon_variant,,ENST00000529838,;VPS11,downstream_gene_variant,,ENST00000526829,;	A	ENSG00000160695	ENST00000300793	Transcript	missense_variant	2161	2119	707	V/M	Gtg/Atg	rs368691793,COSM1297707	.	.	1	VPS11	HGNC	14583	protein_coding	YES	.	ENSP00000475301	.	U3KPW6_HUMAN	UPI00015E0077	.	deleterious(0.03)	possibly_damaging(0.467)	14/17	.	PIRSF_domain:PIRSF007860,hmmpanther:PTHR23323:SF24,hmmpanther:PTHR23323,PROSITE_profiles:PS50236	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGCGTGTGT	byCluster	5	BLCA
VSIG2	0	.	GRCh37	11	124620668	124620668	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369C>A	p.%3D	p.V123V	ENST00000326621	3/7	39	22	17	53	53	0	VSIG2,synonymous_variant,p.%3D,ENST00000403470,;VSIG2,synonymous_variant,p.%3D,ENST00000326621,;ESAM,downstream_gene_variant,,ENST00000435477,;NRGN,downstream_gene_variant,,ENST00000284292,;ESAM,downstream_gene_variant,,ENST00000444566,;NRGN,downstream_gene_variant,,ENST00000412681,;ESAM,downstream_gene_variant,,ENST00000442070,;ESAM,downstream_gene_variant,,ENST00000278927,;RP11-677M14.2,upstream_gene_variant,,ENST00000531241,;ESAM,downstream_gene_variant,,ENST00000485116,;ESAM,downstream_gene_variant,,ENST00000464067,;ESAM,downstream_gene_variant,,ENST00000417453,;	T	ENSG00000019102	ENST00000326621	Transcript	synonymous_variant	470	369	123	V	gtC/gtA	COSM1297780	.	.	-1	VSIG2	HGNC	17149	protein_coding	YES	CCDS8452.1	ENSP00000318684	VSIG2_HUMAN	.	UPI0000035BBB	.	.	.	3/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12231:SF78,hmmpanther:PTHR12231,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTTGACTTG	.	5	BLCA
DUSP8	0	.	GRCh37	11	1579452	1579452	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.587C>G	p.Ser196Cys	p.S196C	ENST00000397374	5/7	38	20	18	43	43	0	DUSP8,missense_variant,p.Ser196Cys,ENST00000397374,;DUSP8,missense_variant,p.Ser196Cys,ENST00000331588,;DUSP8,non_coding_transcript_exon_variant,,ENST00000528778,;	C	ENSG00000184545	ENST00000397374	Transcript	missense_variant	715	587	196	S/C	tCc/tGc	COSM1297880	.	.	-1	DUSP8	HGNC	3074	protein_coding	YES	CCDS7724.1	ENSP00000380530	DUS8_HUMAN	.	UPI000000DAD1	.	deleterious(0)	probably_damaging(0.954)	5/7	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159:SF108,hmmpanther:PTHR10159,Gene3D:3.90.190.10,Pfam_domain:PF00782,SMART_domains:SM00195,Superfamily_domains:SSF52799,Prints_domain:PR01764	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCAGGAGTTG	.	2	BLCA
OR52K1	0	.	GRCh37	11	4510933	4510933	+	Missense_Mutation	SNP	G	G	A	rs552943528	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.803G>A	p.Arg268His	p.R268H	ENST00000307632	1/1	217	183	33	308	306	2	OR52K1,missense_variant,p.Arg268His,ENST00000307632,;	A	ENSG00000196778	ENST00000307632	Transcript	missense_variant	825	803	268	R/H	cGc/cAc	rs552943528,COSM1218745	.	.	1	OR52K1	HGNC	15222	protein_coding	YES	CCDS31352.1	ENSP00000302422	O52K1_HUMAN	.	UPI00001AEE74	.	tolerated(1)	benign(0.008)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26450:SF21,hmmpanther:PTHR26450,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R268H|c.803G>A|3	RADIA|VARSCANS	AGCCCGCCATG	by1000G	2	BLCA
OR5T1	0	.	GRCh37	11	56043115	56043115	+	Translation_Start_Site	SNP	A	A	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1A>C	p.Met1?	p.M1?	ENST00000313033	1/1	368	360	8	274	274	0	OR5T1,start_lost,p.Met1?,ENST00000313033,;	C	ENSG00000181698	ENST00000313033	Transcript	start_lost	87	1	1	M/L	Atg/Ctg	COSM1298170	.	.	1	OR5T1	HGNC	14821	protein_coding	YES	CCDS31525.1	ENSP00000323612	OR5T1_HUMAN	.	UPI000004B22E	.	deleterious_low_confidence(0.02)	benign(0.031)	1/1	.	hmmpanther:PTHR24248:SF33,hmmpanther:PTHR24248	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTAAAATGTCA	.	2	BLCA
TMEM132A	0	.	GRCh37	11	60695125	60695125	+	Nonsense_Mutation	SNP	C	C	T	rs768669264	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328C>T	p.Arg110Ter	p.R110*	ENST00000005286	3/11	208	193	15	217	217	0	TMEM132A,stop_gained,p.Arg110Ter,ENST00000453848,;TMEM132A,stop_gained,p.Arg110Ter,ENST00000005286,;TMEM132A,5_prime_UTR_variant,,ENST00000544065,;TMEM132A,upstream_gene_variant,,ENST00000536409,;TMEM109,downstream_gene_variant,,ENST00000536171,;TMEM109,downstream_gene_variant,,ENST00000227525,;RP11-881M11.4,upstream_gene_variant,,ENST00000543907,;TMEM132A,non_coding_transcript_exon_variant,,ENST00000540276,;TMEM132A,downstream_gene_variant,,ENST00000537110,;TMEM132A,upstream_gene_variant,,ENST00000539899,;TMEM132A,downstream_gene_variant,,ENST00000543732,;TMEM132A,downstream_gene_variant,,ENST00000537065,;TMEM109,downstream_gene_variant,,ENST00000540280,;TMEM132A,non_coding_transcript_exon_variant,,ENST00000534983,;TMEM132A,non_coding_transcript_exon_variant,,ENST00000544098,;	T	ENSG00000006118	ENST00000005286	Transcript	stop_gained	481	328	110	R/*	Cga/Tga	rs768669264,COSM1298263,COSM1298264	.	.	1	TMEM132A	HGNC	31092	protein_coding	YES	CCDS7997.1	ENSP00000005286	T132A_HUMAN	F5H765_HUMAN	UPI0000190977	.	.	.	3/11	.	hmmpanther:PTHR13388:SF6,hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTCGAGTC	.	2	BLCA
CDHR5	0	.	GRCh37	11	620354	620354	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.822C>G	p.Ile274Met	p.I274M	ENST00000358353	9/16	72	62	10	128	128	0	CDHR5,missense_variant,p.Ile274Met,ENST00000397542,;CDHR5,missense_variant,p.Ile274Met,ENST00000349570,;CDHR5,missense_variant,p.Ile274Met,ENST00000358353,;IRF7,upstream_gene_variant,,ENST00000330243,;IRF7,upstream_gene_variant,,ENST00000397566,;IRF7,upstream_gene_variant,,ENST00000348655,;IRF7,upstream_gene_variant,,ENST00000525445,;CDHR5,downstream_gene_variant,,ENST00000534311,;IRF7,upstream_gene_variant,,ENST00000397570,;CDHR5,downstream_gene_variant,,ENST00000526077,;IRF7,upstream_gene_variant,,ENST00000397562,;CDHR5,downstream_gene_variant,,ENST00000531088,;IRF7,upstream_gene_variant,,ENST00000397574,;CDHR5,non_coding_transcript_exon_variant,,ENST00000532949,;CDHR5,downstream_gene_variant,,ENST00000529337,;CDHR5,3_prime_UTR_variant,,ENST00000531177,;CDHR5,non_coding_transcript_exon_variant,,ENST00000531899,;IRF7,upstream_gene_variant,,ENST00000532326,;IRF7,upstream_gene_variant,,ENST00000532096,;IRF7,upstream_gene_variant,,ENST00000532788,;IRF7,upstream_gene_variant,,ENST00000469048,;IRF7,upstream_gene_variant,,ENST00000533182,;IRF7,upstream_gene_variant,,ENST00000533190,;	C	ENSG00000099834	ENST00000358353	Transcript	missense_variant	1145	822	274	I/M	atC/atG	COSM1298290	.	.	-1	CDHR5	HGNC	7521	protein_coding	YES	CCDS7707.1	ENSP00000351118	CDHR5_HUMAN	.	UPI0000456444	.	deleterious(0)	probably_damaging(0.965)	9/16	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,hmmpanther:PTHR24027:SF121,hmmpanther:PTHR24027,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTAGATGGG	.	5	BLCA
INTS5	0	.	GRCh37	11	62416037	62416037	+	Silent	SNP	C	C	T	rs776759313	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1515G>A	p.%3D	p.L505L	ENST00000330574	2/2	126	107	19	123	123	0	INTS5,synonymous_variant,p.%3D,ENST00000330574,;GANAB,upstream_gene_variant,,ENST00000525994,;GANAB,upstream_gene_variant,,ENST00000356638,;GANAB,upstream_gene_variant,,ENST00000534779,;RP11-831H9.11,downstream_gene_variant,,ENST00000528405,;GANAB,upstream_gene_variant,,ENST00000540933,;GANAB,upstream_gene_variant,,ENST00000346178,;GANAB,upstream_gene_variant,,ENST00000534419,;GANAB,upstream_gene_variant,,ENST00000529737,;GANAB,upstream_gene_variant,,ENST00000534613,;GANAB,upstream_gene_variant,,ENST00000532402,;GANAB,upstream_gene_variant,,ENST00000526210,;GANAB,upstream_gene_variant,,ENST00000526392,;	T	ENSG00000185085	ENST00000330574	Transcript	synonymous_variant	1568	1515	505	L	ctG/ctA	rs776759313,COSM1298327	.	.	-1	INTS5	HGNC	29352	protein_coding	YES	CCDS8027.1	ENSP00000327889	INT5_HUMAN	.	UPI0000161948	.	.	.	2/2	.	Pfam_domain:PF14838,hmmpanther:PTHR31697,hmmpanther:PTHR31697:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACAGCAGGCC	.	4	BLCA
P2RY2	0	.	GRCh37	11	72945902	72945902	+	Missense_Mutation	SNP	C	C	T	rs766632202	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.698C>T	p.Ser233Leu	p.S233L	ENST00000311131	3/3	123	60	62	60	60	0	P2RY2,missense_variant,p.Ser233Leu,ENST00000393597,;P2RY2,missense_variant,p.Ser233Leu,ENST00000311131,;P2RY2,missense_variant,p.Ser233Leu,ENST00000393596,;RP11-800A3.4,upstream_gene_variant,,ENST00000565433,;	T	ENSG00000175591	ENST00000311131	Transcript	missense_variant	1165	698	233	S/L	tCg/tTg	rs766632202,COSM1298590	.	.	1	P2RY2	HGNC	8541	protein_coding	YES	CCDS8219.1	ENSP00000310305	P2RY2_HUMAN	.	UPI000013F103	.	tolerated(0.07)	benign(0.025)	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24231:SF17,hmmpanther:PTHR24231,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTCGGGCG	byFrequency	5	BLCA
B3GNT6	0	.	GRCh37	11	76751660	76751660	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1065A>G	p.%3D	p.L355L	ENST00000533140	2/2	34	27	6	13	13	0	B3GNT6,synonymous_variant,p.%3D,ENST00000421061,;B3GNT6,synonymous_variant,p.%3D,ENST00000533140,;B3GNT6,synonymous_variant,p.%3D,ENST00000354301,;B3GNT6,downstream_gene_variant,,ENST00000528622,;	G	ENSG00000198488	ENST00000533140	Transcript	synonymous_variant	1203	1065	355	L	ctA/ctG	COSM1298634	.	.	1	B3GNT6	HGNC	24141	protein_coding	YES	CCDS53681.1	ENSP00000435352	B3GN6_HUMAN	E9PJ79_HUMAN	UPI00001FAFE0	.	.	.	2/2	.	hmmpanther:PTHR11214,hmmpanther:PTHR11214:SF24	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CTGCTAGTGCA	.	4	BLCA
NLRP10	0	.	GRCh37	11	7981220	7981220	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1939G>C	p.Glu647Gln	p.E647Q	ENST00000328600	2/2	26	13	12	29	28	0	NLRP10,missense_variant,p.Glu647Gln,ENST00000328600,;NLRP10,downstream_gene_variant,,ENST00000526590,;	G	ENSG00000182261	ENST00000328600	Transcript	missense_variant	2101	1939	647	E/Q	Gag/Cag	COSM1298674	.	.	-1	NLRP10	HGNC	21464	protein_coding	YES	CCDS7784.1	ENSP00000327763	NAL10_HUMAN	E9PPY0_HUMAN	UPI0000167F6C	.	deleterious(0.05)	possibly_damaging(0.573)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCTGTCC	.	5	BLCA
NLRP10	0	.	GRCh37	11	7981650	7981650	+	Missense_Mutation	SNP	C	C	G	rs551262214	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1509G>C	p.Glu503Asp	p.E503D	ENST00000328600	2/2	65	28	37	104	104	0	NLRP10,missense_variant,p.Glu503Asp,ENST00000328600,;NLRP10,downstream_gene_variant,,ENST00000526590,;	G	ENSG00000182261	ENST00000328600	Transcript	missense_variant	1671	1509	503	E/D	gaG/gaC	rs551262214,COSM1298675	.	.	-1	NLRP10	HGNC	21464	protein_coding	YES	CCDS7784.1	ENSP00000327763	NAL10_HUMAN	E9PPY0_HUMAN	UPI0000167F6C	.	tolerated(0.47)	benign(0.003)	2/2	.	hmmpanther:PTHR24106:SF103,hmmpanther:PTHR24106	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGCTCCTT	by1000G	5	BLCA
CLIP1	0	.	GRCh37	12	122758620	122758620	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4056G>C	p.%3D	p.L1352L	ENST00000540338	24/25	301	163	138	295	295	0	CLIP1,synonymous_variant,p.%3D,ENST00000537178,;CLIP1,synonymous_variant,p.%3D,ENST00000302528,;CLIP1,synonymous_variant,p.%3D,ENST00000361654,;CLIP1,synonymous_variant,p.%3D,ENST00000545889,;CLIP1,synonymous_variant,p.%3D,ENST00000358808,;CLIP1,synonymous_variant,p.%3D,ENST00000540539,;CLIP1,synonymous_variant,p.%3D,ENST00000540338,;CLIP1,non_coding_transcript_exon_variant,,ENST00000536634,;CLIP1,non_coding_transcript_exon_variant,,ENST00000501271,;CLIP1,non_coding_transcript_exon_variant,,ENST00000538120,;CLIP1,downstream_gene_variant,,ENST00000543205,;	G	ENSG00000130779	ENST00000540338	Transcript	synonymous_variant	4098	4056	1352	L	ctG/ctC	COSM1299033	.	.	-1	CLIP1	HGNC	10461	protein_coding	YES	CCDS58285.1	ENSP00000439093	CLIP1_HUMAN	F5H367_HUMAN,F5H270_HUMAN	UPI0000E00D4E	.	.	.	24/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18916,hmmpanther:PTHR18916:SF30	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCAGGGC	.	5	BLCA
ANKLE2	0	.	GRCh37	12	133313491	133313491	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1581G>A	p.%3D	p.L527L	ENST00000357997	8/13	114	69	44	106	106	0	ANKLE2,synonymous_variant,p.%3D,ENST00000535036,;ANKLE2,synonymous_variant,p.%3D,ENST00000337516,;ANKLE2,synonymous_variant,p.%3D,ENST00000357997,;ANKLE2,synonymous_variant,p.%3D,ENST00000539605,;ANKLE2,upstream_gene_variant,,ENST00000542282,;ANKLE2,downstream_gene_variant,,ENST00000545623,;ANKLE2,upstream_gene_variant,,ENST00000538766,;ANKLE2,upstream_gene_variant,,ENST00000542657,;ANKLE2,upstream_gene_variant,,ENST00000542374,;ANKLE2,downstream_gene_variant,,ENST00000538637,;ANKLE2,non_coding_transcript_exon_variant,,ENST00000439231,;ANKLE2,non_coding_transcript_exon_variant,,ENST00000538591,;ANKLE2,non_coding_transcript_exon_variant,,ENST00000505031,;	T	ENSG00000176915	ENST00000357997	Transcript	synonymous_variant	1671	1581	527	L	ctG/ctA	COSM1299167	.	.	-1	ANKLE2	HGNC	29101	protein_coding	YES	CCDS41869.1	ENSP00000350686	ANKL2_HUMAN	F5H417_HUMAN,F5H2H5_HUMAN,F5H1E7_HUMAN,F5H1D4_HUMAN	UPI00001981FB	.	.	.	8/13	.	hmmpanther:PTHR20976,hmmpanther:PTHR20976:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCAGGGG	.	5	BLCA
FOXM1	0	.	GRCh37	12	2973567	2973567	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1185G>A	p.%3D	p.V395V	ENST00000342628	8/10	148	93	54	101	101	0	FOXM1,synonymous_variant,p.%3D,ENST00000361953,;FOXM1,synonymous_variant,p.%3D,ENST00000535350,;FOXM1,synonymous_variant,p.%3D,ENST00000342628,;FOXM1,synonymous_variant,p.%3D,ENST00000359843,;Y_RNA,downstream_gene_variant,,ENST00000410561,;ITFG2,downstream_gene_variant,,ENST00000537710,;ITFG2,downstream_gene_variant,,ENST00000545509,;FOXM1,downstream_gene_variant,,ENST00000537018,;FOXM1,non_coding_transcript_exon_variant,,ENST00000366362,;FOXM1,non_coding_transcript_exon_variant,,ENST00000536066,;FOXM1,downstream_gene_variant,,ENST00000538564,;FOXM1,downstream_gene_variant,,ENST00000545049,;	T	ENSG00000111206	ENST00000342628	Transcript	synonymous_variant	1299	1185	395	V	gtG/gtA	COSM1299301	.	.	-1	FOXM1	HGNC	3818	protein_coding	YES	CCDS8516.1	ENSP00000342307	FOXM1_HUMAN	.	UPI000016B22B	.	.	.	8/10	.	hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF140	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCACCGA	.	5	BLCA
KIF21A	0	.	GRCh37	12	39761747	39761747	+	Missense_Mutation	SNP	C	C	A	rs758912579	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>T	p.Asp180Tyr	p.D180Y	ENST00000361418	4/38	219	164	54	201	201	0	KIF21A,missense_variant,p.Asp180Tyr,ENST00000541463,;KIF21A,missense_variant,p.Asp180Tyr,ENST00000361961,;KIF21A,missense_variant,p.Asp180Tyr,ENST00000361418,;KIF21A,missense_variant,p.Asp180Tyr,ENST00000544797,;KIF21A,missense_variant,p.Asp180Tyr,ENST00000395670,;KIF21A,upstream_gene_variant,,ENST00000552908,;	A	ENSG00000139116	ENST00000361418	Transcript	missense_variant	554	538	180	D/Y	Gat/Tat	rs758912579,COSM938950	.	.	-1	KIF21A	HGNC	19349	protein_coding	YES	CCDS53776.1	ENSP00000354878	KI21A_HUMAN	.	UPI0000212ED9	.	deleterious(0)	probably_damaging(1)	4/38	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF398,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATCTTCAT	byFrequency	5	BLCA
KDM5A	0	.	GRCh37	12	427453	427453	+	Nonsense_Mutation	SNP	C	C	A	rs780617531	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2716G>T	p.Glu906Ter	p.E906*	ENST00000399788	19/28	167	153	14	152	152	0	KDM5A,stop_gained,p.Glu906Ter,ENST00000382815,;KDM5A,stop_gained,p.Glu525Ter,ENST00000544760,;KDM5A,stop_gained,p.Glu906Ter,ENST00000399788,;KDM5A,downstream_gene_variant,,ENST00000541335,;	A	ENSG00000073614	ENST00000399788	Transcript	stop_gained	3079	2716	906	E/*	Gaa/Taa	rs780617531,COSM1299359,COSM1299358	.	.	-1	KDM5A	HGNC	9886	protein_coding	YES	CCDS41736.1	ENSP00000382688	KDM5A_HUMAN	.	UPI0000DB2E73	.	.	.	19/28	.	hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF17,Pfam_domain:PF08429	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACTTCGTCCA	byFrequency	3	BLCA
KMT2D	0	.	GRCh37	12	49415856	49415858	+	In_Frame_Del	DEL	GAT	GAT	-	rs587783704	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	GAT	GAT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16489_16491delATC	p.Ile5497del	p.I5497del	ENST00000301067	53/54	227	70	157	279	279	0	KMT2D,inframe_deletion,p.Ile5497del,ENST00000301067,;KMT2D,inframe_deletion,p.Ile178del,ENST00000526209,;PRKAG1,upstream_gene_variant,,ENST00000548950,;PRKAG1,upstream_gene_variant,,ENST00000548065,;PRKAG1,upstream_gene_variant,,ENST00000548605,;PRKAG1,upstream_gene_variant,,ENST00000552212,;PRKAG1,upstream_gene_variant,,ENST00000548857,;PRKAG1,upstream_gene_variant,,ENST00000547082,;PRKAG1,upstream_gene_variant,,ENST00000547306,;PRKAG1,upstream_gene_variant,,ENST00000316299,;PRKAG1,upstream_gene_variant,,ENST00000551121,;PRKAG1,upstream_gene_variant,,ENST00000395170,;PRKAG1,upstream_gene_variant,,ENST00000552463,;PRKAG1,upstream_gene_variant,,ENST00000547125,;PRKAG1,upstream_gene_variant,,ENST00000551696,;RP11-386G11.5,downstream_gene_variant,,ENST00000547866,;RP11-386G11.5,downstream_gene_variant,,ENST00000552933,;RP11-386G11.5,downstream_gene_variant,,ENST00000547395,;RP11-386G11.5,downstream_gene_variant,,ENST00000552284,;PRKAG1,upstream_gene_variant,,ENST00000552657,;PRKAG1,upstream_gene_variant,,ENST00000549726,;PRKAG1,upstream_gene_variant,,ENST00000550125,;PRKAG1,upstream_gene_variant,,ENST00000550448,;PRKAG1,upstream_gene_variant,,ENST00000546531,;	-	ENSG00000167548	ENST00000301067	Transcript	inframe_deletion	16489-16491	16489-16491	5497	I/-	ATC/-	rs587783704	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	53/54	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50280,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324,Pfam_domain:PF00856,Gene3D:2.170.270.10,SMART_domains:SM00317,Superfamily_domains:SSF82199	.	.	.	.	.	.	.	.	.	likely_pathogenic	.	.	.	.	.	.	MODERATE	.	deletion	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R5231*|c.15691C>T|5,BUFFER|p.R5501*|c.16501C>T|3	INDELOCATOR|VARSCANI	GCTGGAGATGATGA	.	2	BLCA
ZC3H10	0	.	GRCh37	12	56515546	56515546	+	Silent	SNP	G	G	A	rs375224738	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1200G>A	p.%3D	p.S400S	ENST00000257940	3/3	79	71	8	73	73	0	ZC3H10,synonymous_variant,p.%3D,ENST00000257940,;ESYT1,intron_variant,,ENST00000551790,;ZC3H10,downstream_gene_variant,,ENST00000551880,;RPL41,downstream_gene_variant,,ENST00000546591,;ZC3H10,downstream_gene_variant,,ENST00000546903,;RPL41,downstream_gene_variant,,ENST00000501597,;ZC3H10,downstream_gene_variant,,ENST00000552345,;RP11-603J24.5,intron_variant,,ENST00000549438,;RP11-603J24.5,intron_variant,,ENST00000550947,;RP11-603J24.6,upstream_gene_variant,,ENST00000550840,;RPL41,downstream_gene_variant,,ENST00000546654,;ZC3H10,downstream_gene_variant,,ENST00000549973,;RPL41,downstream_gene_variant,,ENST00000546485,;RPL41,downstream_gene_variant,,ENST00000552314,;RPL41,downstream_gene_variant,,ENST00000358888,;	A	ENSG00000135482	ENST00000257940	Transcript	synonymous_variant	1476	1200	400	S	tcG/tcA	rs375224738,COSM1299650	.	.	1	ZC3H10	HGNC	25893	protein_coding	YES	CCDS8903.1	ENSP00000257940	ZC3HA_HUMAN	F8VYY3_HUMAN,F8VSG0_HUMAN,F8VQT2_HUMAN	UPI0000070771	.	.	.	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12675	.	.	.	.	.	.	.	C:0	C:0.0003	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTATCGATGGC	byFrequency|byCluster	4	BLCA
NAP1L1	0	.	GRCh37	12	76449866	76449866	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.505G>A	p.Glu169Lys	p.E169K	ENST00000261182	7/15	48	36	12	29	29	0	NAP1L1,missense_variant,p.Glu142Lys,ENST00000550934,;NAP1L1,missense_variant,p.Glu127Lys,ENST00000542344,;NAP1L1,missense_variant,p.Glu169Lys,ENST00000535020,;NAP1L1,missense_variant,p.Glu128Lys,ENST00000548044,;NAP1L1,missense_variant,p.Glu176Lys,ENST00000547704,;NAP1L1,missense_variant,p.Glu180Lys,ENST00000552342,;NAP1L1,missense_variant,p.Glu169Lys,ENST00000393263,;NAP1L1,missense_variant,p.Glu175Lys,ENST00000551600,;NAP1L1,missense_variant,p.Glu101Lys,ENST00000431879,;NAP1L1,missense_variant,p.Glu169Lys,ENST00000551992,;NAP1L1,missense_variant,p.Glu128Lys,ENST00000548273,;NAP1L1,missense_variant,p.Glu106Lys,ENST00000547773,;NAP1L1,missense_variant,p.Glu163Lys,ENST00000552056,;NAP1L1,missense_variant,p.Glu169Lys,ENST00000549596,;NAP1L1,missense_variant,p.Glu169Lys,ENST00000261182,;NAP1L1,5_prime_UTR_variant,,ENST00000547993,;NAP1L1,5_prime_UTR_variant,,ENST00000544816,;NAP1L1,downstream_gene_variant,,ENST00000551524,;NAP1L1,downstream_gene_variant,,ENST00000547479,;NAP1L1,missense_variant,p.Glu109Lys,ENST00000547529,;NAP1L1,missense_variant,p.Glu130Lys,ENST00000552147,;NAP1L1,downstream_gene_variant,,ENST00000549988,;NAP1L1,upstream_gene_variant,,ENST00000547969,;RP11-290L1.4,upstream_gene_variant,,ENST00000552477,;	T	ENSG00000187109	ENST00000261182	Transcript	missense_variant	992	505	169	E/K	Gaa/Aaa	COSM1299871	.	.	-1	NAP1L1	HGNC	7637	protein_coding	YES	CCDS9013.1	ENSP00000261182	NP1L1_HUMAN	H0YIV4_HUMAN,F8W118_HUMAN,F8VY35_HUMAN,F8VRJ2_HUMAN,B7Z4K9_HUMAN	UPI0000052A55	.	tolerated(0.08)	benign(0.285)	7/15	.	Superfamily_domains:SSF143113,Pfam_domain:PF00956,hmmpanther:PTHR11875:SF34,hmmpanther:PTHR11875	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTCAGGAA	.	5	BLCA
ACSS3	0	.	GRCh37	12	81647291	81647291	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1837G>C	p.Glu613Gln	p.E613Q	ENST00000548058	15/16	82	18	63	79	79	0	ACSS3,missense_variant,p.Glu612Gln,ENST00000261206,;ACSS3,missense_variant,p.Glu613Gln,ENST00000548058,;ACSS3,missense_variant,p.Glu295Gln,ENST00000548324,;PPFIA2,downstream_gene_variant,,ENST00000549396,;PPFIA2,downstream_gene_variant,,ENST00000550584,;	C	ENSG00000111058	ENST00000548058	Transcript	missense_variant	2747	1837	613	E/Q	Gag/Cag	COSM1299903	.	.	1	ACSS3	HGNC	24723	protein_coding	YES	CCDS9022.1	ENSP00000449535	ACSS3_HUMAN	F8VZB4_HUMAN	UPI000007060A	.	tolerated(0.19)	benign(0.004)	15/16	.	hmmpanther:PTHR24095,hmmpanther:PTHR24095:SF0,Gene3D:3.30.300.30,Pfam_domain:PF13193,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAGGAGCAA	.	5	BLCA
ATP2B1	0	.	GRCh37	12	90028786	90028786	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649C>G	p.Gln217Glu	p.Q217E	ENST00000428670	4/21	97	30	66	124	123	1	ATP2B1,missense_variant,p.Gln217Glu,ENST00000428670,;ATP2B1,missense_variant,p.Gln217Glu,ENST00000359142,;ATP2B1,missense_variant,p.Gln217Glu,ENST00000261173,;ATP2B1,missense_variant,p.Gln217Glu,ENST00000348959,;ATP2B1,upstream_gene_variant,,ENST00000393164,;	C	ENSG00000070961	ENST00000428670	Transcript	missense_variant	1106	649	217	Q/E	Caa/Gaa	COSM1299944,COSM1299945	.	.	-1	ATP2B1	HGNC	814	protein_coding	YES	CCDS9035.1	ENSP00000392043	AT2B1_HUMAN	Q3L582_HUMAN	UPI000002A436	.	deleterious(0.05)	probably_damaging(0.979)	4/21	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF245,Gene3D:2.70.150.10,TIGRFAM_domain:TIGR01494,Pfam_domain:PF00122,Superfamily_domains:0049471	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTGAGCAA	.	5	BLCA
PCDH8	0	.	GRCh37	13	53420246	53420246	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2326C>T	p.Arg776Cys	p.R776C	ENST00000377942	1/3	64	57	7	80	80	0	PCDH8,missense_variant,p.Arg776Cys,ENST00000338862,;PCDH8,missense_variant,p.Arg776Cys,ENST00000377942,;	A	ENSG00000136099	ENST00000377942	Transcript	missense_variant	2530	2326	776	R/C	Cgc/Tgc	COSM1300256	.	.	-1	PCDH8	HGNC	8660	protein_coding	YES	CCDS9438.1	ENSP00000367177	PCDH8_HUMAN	.	UPI0000072D47	.	deleterious(0)	probably_damaging(0.983)	1/3	.	hmmpanther:PTHR24028:SF46,hmmpanther:PTHR24028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGGCGGTTGC	.	4	BLCA
RBM26	0	.	GRCh37	13	79945269	79945269	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445C>T	p.Arg149Cys	p.R149C	ENST00000267229	5/21	55	27	28	57	57	0	RBM26,missense_variant,p.Arg149Cys,ENST00000438737,;RBM26,missense_variant,p.Arg149Cys,ENST00000438724,;RBM26,missense_variant,p.Arg149Cys,ENST00000267229,;RBM26,upstream_gene_variant,,ENST00000461008,;	A	ENSG00000139746	ENST00000267229	Transcript	missense_variant	459	445	149	R/C	Cgt/Tgt	COSM1300333,COSM1300334	.	.	-1	RBM26	HGNC	20327	protein_coding	YES	CCDS9462.1	ENSP00000267229	RBM26_HUMAN	.	UPI00001A95DC	.	deleterious(0.02)	unknown(0)	5/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14398,hmmpanther:PTHR14398:SF2	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAACGATCAT	.	5	BLCA
CEP170B	0	.	GRCh37	14	105349634	105349634	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.840G>C	p.Lys280Asn	p.K280N	ENST00000414716	8/19	30	20	10	32	32	0	CEP170B,missense_variant,p.Lys280Asn,ENST00000414716,;CEP170B,missense_variant,p.Lys210Asn,ENST00000556508,;CEP170B,missense_variant,p.Lys210Asn,ENST00000418279,;CEP170B,missense_variant,p.Lys281Asn,ENST00000453495,;	C	ENSG00000099814	ENST00000414716	Transcript	missense_variant	1068	840	280	K/N	aaG/aaC	COSM1300431,COSM1300430	.	.	1	CEP170B	HGNC	20362	protein_coding	YES	CCDS45175.1	ENSP00000404151	C170B_HUMAN	E9PFC1_HUMAN	UPI00001FDCF7	.	deleterious(0)	probably_damaging(1)	8/19	.	hmmpanther:PTHR15715,hmmpanther:PTHR15715:SF18	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	GGCAAGATGAA	.	4	BLCA
MIS18BP1	0	.	GRCh37	14	45673353	45673353	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3358G>A	p.Glu1120Lys	p.E1120K	ENST00000310806	17/17	51	31	20	49	49	0	MIS18BP1,missense_variant,p.Glu1120Lys,ENST00000310806,;FANCM,downstream_gene_variant,,ENST00000554809,;FANCM,downstream_gene_variant,,ENST00000556250,;FANCM,downstream_gene_variant,,ENST00000267430,;FANCM,downstream_gene_variant,,ENST00000542564,;FANCM,downstream_gene_variant,,ENST00000555484,;MIS18BP1,non_coding_transcript_exon_variant,,ENST00000470424,;MIS18BP1,downstream_gene_variant,,ENST00000496413,;FANCM,downstream_gene_variant,,ENST00000553551,;FANCM,downstream_gene_variant,,ENST00000557110,;	T	ENSG00000129534	ENST00000310806	Transcript	missense_variant	3817	3358	1120	E/K	Gaa/Aaa	COSM1300620	.	.	-1	MIS18BP1	HGNC	20190	protein_coding	YES	CCDS9684.1	ENSP00000309790	M18BP_HUMAN	C9J2Q8_HUMAN	UPI00001FD488	.	deleterious(0)	probably_damaging(0.968)	17/17	.	hmmpanther:PTHR16124:SF1,hmmpanther:PTHR16124	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCTTCAT	.	5	BLCA
SOCS4	0	.	GRCh37	14	55509991	55509991	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.232T>C	p.%3D	p.L78L	ENST00000395472	2/2	146	86	60	139	139	0	SOCS4,synonymous_variant,p.%3D,ENST00000339298,;SOCS4,synonymous_variant,p.%3D,ENST00000395472,;SOCS4,synonymous_variant,p.%3D,ENST00000555846,;	C	ENSG00000180008	ENST00000395472	Transcript	synonymous_variant	564	232	78	L	Tta/Cta	COSM1300676	.	.	1	SOCS4	HGNC	19392	protein_coding	YES	CCDS9722.1	ENSP00000378855	SOCS4_HUMAN	Q5H9R6_HUMAN	UPI000000CC33	.	.	.	2/2	.	hmmpanther:PTHR10385,hmmpanther:PTHR10385:SF29,Pfam_domain:PF12610	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGACTTAGAT	.	5	BLCA
SYNE2	0	.	GRCh37	14	64457725	64457725	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2538C>G	p.Ile846Met	p.I846M	ENST00000358025	21/116	80	73	6	86	86	0	SYNE2,missense_variant,p.Ile846Met,ENST00000554584,;SYNE2,missense_variant,p.Ile846Met,ENST00000358025,;SYNE2,missense_variant,p.Ile846Met,ENST00000344113,;SYNE2,5_prime_UTR_variant,,ENST00000357395,;	G	ENSG00000054654	ENST00000358025	Transcript	missense_variant	2768	2538	846	I/M	atC/atG	COSM1300733	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	benign(0.131)	21/116	.	hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACATCAGGCT	.	3	BLCA
SLC8A3	0	.	GRCh37	14	70518710	70518710	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2028C>G	p.Phe676Leu	p.F676L	ENST00000381269	5/8	37	24	12	47	47	0	SLC8A3,missense_variant,p.Phe673Leu,ENST00000534137,;SLC8A3,missense_variant,p.Phe676Leu,ENST00000381269,;SLC8A3,missense_variant,p.Phe674Leu,ENST00000357887,;SLC8A3,missense_variant,p.Phe33Leu,ENST00000394330,;SLC8A3,missense_variant,p.Phe674Leu,ENST00000528359,;SLC8A3,missense_variant,p.Phe670Leu,ENST00000356921,;SLC8A3,missense_variant,p.Phe47Leu,ENST00000216568,;SLC8A3,missense_variant,p.Phe33Leu,ENST00000533541,;SLC8A3,3_prime_UTR_variant,,ENST00000494208,;	C	ENSG00000100678	ENST00000381269	Transcript	missense_variant	2782	2028	676	F/L	ttC/ttG	COSM1300788,COSM1300789	.	.	-1	SLC8A3	HGNC	11070	protein_coding	YES	CCDS35498.1	ENSP00000370669	NAC3_HUMAN	Q86TQ9_HUMAN	UPI0000073C9A	.	tolerated(0.06)	probably_damaging(0.995)	5/8	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF7,TIGRFAM_domain:TIGR00845,Superfamily_domains:SSF141072	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACCTTGAACTC	.	4	BLCA
SLC24A4	0	.	GRCh37	14	92959977	92959977	+	3'UTR	SNP	G	G	C	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5G>C	.	.	ENST00000532405	17/17	35	28	6	44	43	1	SLC24A4,3_prime_UTR_variant,,ENST00000531433,;SLC24A4,3_prime_UTR_variant,,ENST00000525557,;SLC24A4,3_prime_UTR_variant,,ENST00000393265,;SLC24A4,3_prime_UTR_variant,,ENST00000351924,;SLC24A4,3_prime_UTR_variant,,ENST00000298877,;SLC24A4,3_prime_UTR_variant,,ENST00000532405,;SLC24A4,non_coding_transcript_exon_variant,,ENST00000526482,;SLC24A4,non_coding_transcript_exon_variant,,ENST00000554925,;	C	ENSG00000140090	ENST00000532405	Transcript	3_prime_UTR_variant	2100	.	.	.	.	.	.	.	1	SLC24A4	HGNC	10978	protein_coding	YES	CCDS9903.2	ENSP00000431840	NCKX4_HUMAN	G3V505_HUMAN,B4DHR5_HUMAN	UPI000044C5DE	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE	GCGCTGAGTCG	.	3	BLCA
IFI27	0	.	GRCh37	14	94582170	94582170	+	Silent	SNP	G	G	A	rs376868044	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165G>A	p.%3D	p.A55A	ENST00000555744	4/5	15	9	6	13	13	0	IFI27,synonymous_variant,p.%3D,ENST00000557634,;IFI27,synonymous_variant,p.%3D,ENST00000555744,;IFI27,synonymous_variant,p.%3D,ENST00000554448,;IFI27,synonymous_variant,p.%3D,ENST00000448882,;IFI27,synonymous_variant,p.%3D,ENST00000444961,;IFI27,synonymous_variant,p.%3D,ENST00000556544,;IFI27,synonymous_variant,p.%3D,ENST00000557098,;IFI27,synonymous_variant,p.%3D,ENST00000298902,;IFI27,synonymous_variant,p.%3D,ENST00000554800,;IFI27,downstream_gene_variant,,ENST00000555819,;IFI27,synonymous_variant,p.%3D,ENST00000557035,;IFI27,non_coding_transcript_exon_variant,,ENST00000553285,;IFI27,non_coding_transcript_exon_variant,,ENST00000555121,;IFI27,downstream_gene_variant,,ENST00000557700,;IFI27,downstream_gene_variant,,ENST00000555081,;	A	ENSG00000165949	ENST00000555744	Transcript	synonymous_variant	353	165	55	A	gcG/gcA	rs376868044,COSM1300927	.	.	1	IFI27	HGNC	5397	protein_coding	YES	CCDS32148.1	ENSP00000451956	IFI27_HUMAN	Q7Z5R2_HUMAN,G3V4U3_HUMAN,G3V4L7_HUMAN,G3V3Q7_HUMAN,G3V2M7_HUMAN	UPI000013E535	.	.	.	4/5	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR16932,hmmpanther:PTHR16932:SF15,Pfam_domain:PF06140	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGCGGCGGG	byFrequency|byCluster	5	BLCA
RPAP1	0	.	GRCh37	15	41819472	41819472	+	Missense_Mutation	SNP	G	G	A	rs764215280	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1639C>T	p.Arg547Trp	p.R547W	ENST00000304330	13/25	53	32	21	42	42	0	RPAP1,missense_variant,p.Arg547Trp,ENST00000561603,;RPAP1,missense_variant,p.Arg547Trp,ENST00000304330,;RPAP1,upstream_gene_variant,,ENST00000565035,;RPAP1,downstream_gene_variant,,ENST00000568413,;RPAP1,missense_variant,p.Arg547Trp,ENST00000562303,;RPAP1,upstream_gene_variant,,ENST00000564934,;RPAP1,upstream_gene_variant,,ENST00000561631,;	A	ENSG00000103932	ENST00000304330	Transcript	missense_variant	1756	1639	547	R/W	Cgg/Tgg	rs764215280,COSM1301110	.	.	-1	RPAP1	HGNC	24567	protein_coding	YES	CCDS10079.1	ENSP00000306123	RPAP1_HUMAN	H3BPY8_HUMAN,H3BPM3_HUMAN	UPI000013D465	.	deleterious(0)	probably_damaging(1)	13/25	.	hmmpanther:PTHR21483:SF18,hmmpanther:PTHR21483	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCCGAGGCA	byFrequency	5	BLCA
CAPN3	0	.	GRCh37	15	42702003	42702003	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2011G>A	p.Asp671Asn	p.D671N	ENST00000397163	18/24	290	151	138	317	317	0	CAPN3,missense_variant,p.Asp6Asn,ENST00000397204,;CAPN3,missense_variant,p.Asp165Asn,ENST00000567071,;CAPN3,missense_variant,p.Asp579Asn,ENST00000349748,;CAPN3,missense_variant,p.Asp115Asn,ENST00000569827,;CAPN3,missense_variant,p.Asp65Asn,ENST00000565559,;CAPN3,missense_variant,p.Asp37Asn,ENST00000564503,;CAPN3,missense_variant,p.Asp671Asn,ENST00000397163,;CAPN3,missense_variant,p.Asp6Asn,ENST00000569136,;CAPN3,missense_variant,p.Asp578Asn,ENST00000356316,;CAPN3,missense_variant,p.Asp159Asn,ENST00000397200,;CAPN3,missense_variant,p.Asp665Asn,ENST00000318023,;CAPN3,missense_variant,p.Asp6Asn,ENST00000561817,;CAPN3,missense_variant,p.Asp665Asn,ENST00000357568,;CAPN3,missense_variant,p.Asp6Asn,ENST00000337571,;ZNF106,downstream_gene_variant,,ENST00000263805,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000466369,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000495723,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000549793,;CAPN3,non_coding_transcript_exon_variant,,ENST00000562199,;CAPN3,missense_variant,p.Asp75Asn,ENST00000565274,;CAPN3,non_coding_transcript_exon_variant,,ENST00000466222,;CAPN3,upstream_gene_variant,,ENST00000568153,;CAPN3,downstream_gene_variant,,ENST00000565173,;CAPN3,upstream_gene_variant,,ENST00000567817,;	A	ENSG00000092529	ENST00000397163	Transcript	missense_variant	2230	2011	671	D/N	Gat/Aat	COSM1301130,COSM1301131	.	.	1	CAPN3	HGNC	1480	protein_coding	YES	CCDS45245.1	ENSP00000380349	CAN3_HUMAN	H3BS30_HUMAN	UPI000000103F	.	tolerated(0.63)	benign(0.008)	18/24	.	Superfamily_domains:SSF47473,Gene3D:1.10.238.10,Pfam_domain:PF13833,hmmpanther:PTHR10183:SF49,hmmpanther:PTHR10183,PROSITE_profiles:PS50222	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCAGATGAG	.	5	BLCA
TGM5	0	.	GRCh37	15	43552710	43552710	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78C>T	p.%3D	p.I26I	ENST00000220420	2/13	158	78	79	175	175	0	TGM5,synonymous_variant,p.%3D,ENST00000220420,;TGM5,synonymous_variant,p.%3D,ENST00000349114,;	A	ENSG00000104055	ENST00000220420	Transcript	synonymous_variant	86	78	26	I	atC/atT	COSM1301143	.	.	-1	TGM5	HGNC	11781	protein_coding	YES	CCDS32212.1	ENSP00000220420	TGM5_HUMAN	.	UPI0000136CCF	.	.	.	2/13	.	Superfamily_domains:SSF81296,PIRSF_domain:PIRSF000459,Gene3D:2.60.40.10,Pfam_domain:PF00868,hmmpanther:PTHR11590:SF38,hmmpanther:PTHR11590	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTGATCTC	.	5	BLCA
FBXO22	0	.	GRCh37	15	76206519	76206519	+	Missense_Mutation	SNP	C	C	G	rs372221349	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436C>G	p.Leu146Val	p.L146V	ENST00000308275	4/7	70	49	21	86	86	0	FBXO22,missense_variant,p.Leu42Val,ENST00000540507,;FBXO22,missense_variant,p.Leu42Val,ENST00000569054,;FBXO22,missense_variant,p.Leu146Val,ENST00000308275,;FBXO22,missense_variant,p.Leu146Val,ENST00000453211,;FBXO22,missense_variant,p.Leu140Val,ENST00000565036,;FBXO22,downstream_gene_variant,,ENST00000565131,;FBXO22,missense_variant,p.Leu32Val,ENST00000561885,;FBXO22,3_prime_UTR_variant,,ENST00000569022,;FBXO22,intron_variant,,ENST00000569749,;	G	ENSG00000167196	ENST00000308275	Transcript	missense_variant	541	436	146	L/V	Ctt/Gtt	rs372221349,COSM1301453,COSM1147605,COSM1301454	.	.	1	FBXO22	HGNC	13593	protein_coding	YES	CCDS10287.1	ENSP00000307833	FBX22_HUMAN	H3BUC1_HUMAN,H3BTR7_HUMAN,H3BRE0_HUMAN	UPI0000049FDF	.	tolerated(0.19)	probably_damaging(0.994)	4/7	.	hmmpanther:PTHR14939:SF4,hmmpanther:PTHR14939	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTCCTTGGG	byFrequency|byCluster	5	BLCA
RPS2	0	.	GRCh37	16	2012392	2012392	+	Intron	SNP	G	G	C	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.709+106C>G	.	.	ENST00000343262	.	46	37	9	39	39	0	RPS2,3_prime_UTR_variant,,ENST00000526586,;RPS2,intron_variant,,ENST00000529806,;RPS2,intron_variant,,ENST00000533186,;RPS2,intron_variant,,ENST00000526522,;RPS2,intron_variant,,ENST00000530225,;RPS2,intron_variant,,ENST00000343262,;RPL3L,upstream_gene_variant,,ENST00000565426,;NDUFB10,downstream_gene_variant,,ENST00000268668,;RPS2,downstream_gene_variant,,ENST00000527302,;RNF151,upstream_gene_variant,,ENST00000569210,;NDUFB10,downstream_gene_variant,,ENST00000570172,;RNF151,upstream_gene_variant,,ENST00000321392,;NDUFB10,downstream_gene_variant,,ENST00000543683,;NDUFB10,downstream_gene_variant,,ENST00000569148,;RPS2,downstream_gene_variant,,ENST00000563194,;RNF151,upstream_gene_variant,,ENST00000569714,;SNORA10,non_coding_transcript_exon_variant,,ENST00000384084,;SNHG9,upstream_gene_variant,,ENST00000459373,;SNHG9,upstream_gene_variant,,ENST00000531523,;SNHG9,upstream_gene_variant,,ENST00000564014,;SNORA64,downstream_gene_variant,,ENST00000384674,;RPL3L,upstream_gene_variant,,ENST00000566484,;RPS2,non_coding_transcript_exon_variant,,ENST00000534461,;RPS2,intron_variant,,ENST00000527109,;RPS2,intron_variant,,ENST00000533872,;RPS2,intron_variant,,ENST00000532746,;RPS2,intron_variant,,ENST00000531065,;RPS2,intron_variant,,ENST00000527871,;RPS2,intron_variant,,ENST00000533161,;NDUFB10,downstream_gene_variant,,ENST00000565031,;RPS2,downstream_gene_variant,,ENST00000526908,;RPS2,downstream_gene_variant,,ENST00000527826,;AC005363.9,downstream_gene_variant,,ENST00000530779,;	C	ENSG00000140988	ENST00000343262	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RPS2	HGNC	10404	protein_coding	YES	CCDS10452.1	ENSP00000341885	RS2_HUMAN	Q9BSW5_HUMAN,Q8NI62_HUMAN,O60249_HUMAN,H3BNG3_HUMAN,E9PMM9_HUMAN	UPI000000128D	.	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTAGGAGAGC	.	5	BLCA
PKD1	0	.	GRCh37	16	2142498	2142498	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11252A>T	p.Gln3751Leu	p.Q3751L	ENST00000262304	39/46	27	16	10	29	29	0	PKD1,missense_variant,p.Gln3751Leu,ENST00000262304,;PKD1,missense_variant,p.Gln3750Leu,ENST00000423118,;TSC2,downstream_gene_variant,,ENST00000439673,;TSC2,downstream_gene_variant,,ENST00000219476,;TSC2,downstream_gene_variant,,ENST00000568454,;TSC2,downstream_gene_variant,,ENST00000569110,;TSC2,downstream_gene_variant,,ENST00000401874,;TSC2,downstream_gene_variant,,ENST00000353929,;TSC2,downstream_gene_variant,,ENST00000350773,;TSC2,downstream_gene_variant,,ENST00000382538,;MIR1225,upstream_gene_variant,,ENST00000408729,;RP11-304L19.1,intron_variant,,ENST00000570072,;RP11-304L19.1,intron_variant,,ENST00000563284,;RP11-304L19.3,downstream_gene_variant,,ENST00000565937,;PKD1,3_prime_UTR_variant,,ENST00000487932,;PKD1,3_prime_UTR_variant,,ENST00000562425,;PKD1,non_coding_transcript_exon_variant,,ENST00000567355,;PKD1,non_coding_transcript_exon_variant,,ENST00000485120,;PKD1,downstream_gene_variant,,ENST00000568796,;PKD1,upstream_gene_variant,,ENST00000561668,;TSC2,downstream_gene_variant,,ENST00000569930,;TSC2,downstream_gene_variant,,ENST00000497886,;PKD1,upstream_gene_variant,,ENST00000472577,;TSC2,downstream_gene_variant,,ENST00000439117,;PKD1,downstream_gene_variant,,ENST00000472659,;PKD1,upstream_gene_variant,,ENST00000564313,;	A	ENSG00000008710	ENST00000262304	Transcript	missense_variant	11461	11252	3751	Q/L	cAg/cTg	CM034122,COSM1301729	.	.	-1	PKD1	HGNC	9008	protein_coding	YES	CCDS32369.1	ENSP00000262304	PKD1_HUMAN	O75276_HUMAN	UPI00001B0454	.	.	possibly_damaging(0.771)	39/46	.	hmmpanther:PTHR10877:SF123,hmmpanther:PTHR10877,Pfam_domain:PF08016	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACCTGCCGC	.	5	BLCA
CACNG3	0	.	GRCh37	16	24372924	24372924	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>T	p.Arg230Ter	p.R230*	ENST00000005284	4/4	59	41	17	47	47	0	CACNG3,stop_gained,p.Arg230Ter,ENST00000005284,;	T	ENSG00000006116	ENST00000005284	Transcript	stop_gained	1890	688	230	R/*	Cga/Tga	COSM1167923	.	.	1	CACNG3	HGNC	1407	protein_coding	YES	CCDS10620.1	ENSP00000005284	CCG3_HUMAN	.	UPI000000D979	.	.	.	4/4	.	hmmpanther:PTHR12107:SF5,hmmpanther:PTHR12107,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R230*|c.688C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATCGATTC	.	5	BLCA
RABEP2	0	.	GRCh37	16	28935803	28935803	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195G>C	p.Glu65Asp	p.E65D	ENST00000358201	2/13	103	98	5	111	111	0	RABEP2,missense_variant,p.Glu55Asp,ENST00000567483,;RABEP2,missense_variant,p.Glu12Asp,ENST00000568703,;RABEP2,missense_variant,p.Glu65Asp,ENST00000358201,;RABEP2,missense_variant,p.Glu65Asp,ENST00000357573,;RABEP2,intron_variant,,ENST00000544477,;RABEP2,intron_variant,,ENST00000566762,;RABEP2,upstream_gene_variant,,ENST00000561501,;RABEP2,non_coding_transcript_exon_variant,,ENST00000562475,;RABEP2,non_coding_transcript_exon_variant,,ENST00000561803,;RABEP2,non_coding_transcript_exon_variant,,ENST00000564473,;RABEP2,missense_variant,p.Glu12Asp,ENST00000563577,;RABEP2,non_coding_transcript_exon_variant,,ENST00000564579,;RABEP2,non_coding_transcript_exon_variant,,ENST00000562590,;RABEP2,non_coding_transcript_exon_variant,,ENST00000570030,;	G	ENSG00000177548	ENST00000358201	Transcript	missense_variant	784	195	65	E/D	gaG/gaC	COSM1301827	.	.	-1	RABEP2	HGNC	24817	protein_coding	YES	CCDS42140.1	ENSP00000350934	RABE2_HUMAN	H3BU67_HUMAN,H3BNR8_HUMAN,H3BNR2_HUMAN	UPI0000367822	.	deleterious(0.01)	probably_damaging(0.997)	2/13	.	hmmpanther:PTHR31179:SF6,hmmpanther:PTHR31179,Pfam_domain:PF03528	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCTCTCGCT	.	2	BLCA
ZNF200	0	.	GRCh37	16	3283794	3283794	+	5'UTR	SNP	C	C	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-39G>T	.	.	ENST00000431561	2/5	131	96	34	136	136	0	ZNF200,5_prime_UTR_variant,,ENST00000414144,;ZNF200,5_prime_UTR_variant,,ENST00000575948,;ZNF200,5_prime_UTR_variant,,ENST00000431561,;ZNF200,5_prime_UTR_variant,,ENST00000396870,;ZNF200,5_prime_UTR_variant,,ENST00000396868,;ZNF200,5_prime_UTR_variant,,ENST00000396871,;ZNF200,5_prime_UTR_variant,,ENST00000575617,;ZNF200,non_coding_transcript_exon_variant,,ENST00000575630,;ZNF200,downstream_gene_variant,,ENST00000577015,;	A	ENSG00000010539	ENST00000431561	Transcript	5_prime_UTR_variant	575	.	.	.	.	.	.	.	-1	ZNF200	HGNC	12993	protein_coding	YES	CCDS10497.1	ENSP00000395723	ZN200_HUMAN	I3L1E4_HUMAN	UPI00001D89D6	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCCAGAG	.	5	BLCA
C16orf71	0	.	GRCh37	16	4790239	4790239	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362G>A	p.Arg121Lys	p.R121K	ENST00000299320	4/10	101	58	42	88	88	0	C16orf71,missense_variant,p.Arg135Lys,ENST00000590191,;C16orf71,missense_variant,p.Arg121Lys,ENST00000299320,;C16orf71,missense_variant,p.Arg121Lys,ENST00000586724,;RP11-127I20.7,intron_variant,,ENST00000588099,;C16orf71,non_coding_transcript_exon_variant,,ENST00000586256,;	A	ENSG00000166246	ENST00000299320	Transcript	missense_variant	840	362	121	R/K	aGa/aAa	COSM1301990	.	.	1	C16orf71	HGNC	25081	protein_coding	YES	CCDS10521.1	ENSP00000299320	CP071_HUMAN	K7ENX3_HUMAN	UPI000013E57E	.	tolerated(0.37)	benign(0.001)	4/10	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAGACC	.	5	BLCA
IRX5	0	.	GRCh37	16	54965196	54965196	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86C>T	p.Ser29Leu	p.S29L	ENST00000394636	1/3	17	10	6	46	46	0	IRX5,missense_variant,p.Ser29Leu,ENST00000320990,;IRX5,missense_variant,p.Ser29Leu,ENST00000560154,;IRX5,missense_variant,p.Ser29Leu,ENST00000394636,;IRX5,upstream_gene_variant,,ENST00000558597,;CRNDE,upstream_gene_variant,,ENST00000558952,;CTD-3032H12.2,upstream_gene_variant,,ENST00000560487,;CRNDE,upstream_gene_variant,,ENST00000559598,;CRNDE,upstream_gene_variant,,ENST00000560208,;CRNDE,upstream_gene_variant,,ENST00000502066,;CRNDE,upstream_gene_variant,,ENST00000501177,;CRNDE,upstream_gene_variant,,ENST00000559432,;CRNDE,upstream_gene_variant,,ENST00000560912,;CRNDE,upstream_gene_variant,,ENST00000557792,;	T	ENSG00000176842	ENST00000394636	Transcript	missense_variant	423	86	29	S/L	tCg/tTg	COSM1302029	.	.	1	IRX5	HGNC	14361	protein_coding	YES	CCDS10751.1	ENSP00000378132	IRX5_HUMAN	.	UPI00001FF1CD	.	tolerated(0.35)	benign(0.064)	1/3	.	hmmpanther:PTHR11211:SF17,hmmpanther:PTHR11211	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCGGGGC	.	5	BLCA
GNAO1	0	.	GRCh37	16	56368731	56368731	+	Missense_Mutation	SNP	C	C	G	rs370565559	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.555C>G	p.Ile185Met	p.I185M	ENST00000262494	5/8	47	30	16	44	44	0	GNAO1,missense_variant,p.Ile185Met,ENST00000262493,;GNAO1,missense_variant,p.Ile185Met,ENST00000262494,;GNAO1,missense_variant,p.Ile98Met,ENST00000562316,;GNAO1,downstream_gene_variant,,ENST00000563440,;GNAO1,downstream_gene_variant,,ENST00000565363,;GNAO1,upstream_gene_variant,,ENST00000568375,;	G	ENSG00000087258	ENST00000262494	Transcript	missense_variant	815	555	185	I/M	atC/atG	rs370565559,COSM1302034,COSM1302035	.	.	1	GNAO1	HGNC	4389	protein_coding	YES	CCDS10757.1	ENSP00000262494	GNAO_HUMAN	Q6AWC5_HUMAN,H3BTM2_HUMAN,H3BQG8_HUMAN	UPI000007349C	.	deleterious(0)	probably_damaging(0.996)	5/8	.	hmmpanther:PTHR10218,hmmpanther:PTHR10218:SF203,Gene3D:3.40.50.300,Pfam_domain:PF00503,SMART_domains:SM00275,Superfamily_domains:SSF52540,Prints_domain:PR00318	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCATCGTAGA	byCluster	3	BLCA
CDH8	0	.	GRCh37	16	61858917	61858917	+	Silent	SNP	C	C	T	rs148693252	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.834G>A	p.%3D	p.Q278Q	ENST00000577390	5/12	43	25	18	89	89	0	CDH8,synonymous_variant,p.%3D,ENST00000584337,;CDH8,synonymous_variant,p.%3D,ENST00000577390,;CDH8,synonymous_variant,p.%3D,ENST00000577730,;CDH8,synonymous_variant,p.%3D,ENST00000299345,;CDH8,synonymous_variant,p.%3D,ENST00000583382,;CDH8,synonymous_variant,p.%3D,ENST00000585315,;	T	ENSG00000150394	ENST00000577390	Transcript	synonymous_variant	1789	834	278	Q	caG/caA	rs148693252,COSM1302088	.	.	-1	CDH8	HGNC	1767	protein_coding	YES	CCDS10802.1	ENSP00000462701	CADH8_HUMAN	J3KTG8_HUMAN,J3KT81_HUMAN	UPI0000126D9F	.	.	.	5/12	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF85,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Superfamily_domains:SSF49313,Prints_domain:PR00205	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0	T:0.0006	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACTCTGTGC	byCluster|by1000G	5	BLCA
JMJD8	0	.	GRCh37	16	731746	731746	+	3'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1048C>T	.	.	ENST00000412368	9/9	30	14	15	26	26	0	JMJD8,3_prime_UTR_variant,,ENST00000609261,;JMJD8,3_prime_UTR_variant,,ENST00000454700,;JMJD8,3_prime_UTR_variant,,ENST00000293882,;JMJD8,3_prime_UTR_variant,,ENST00000412368,;STUB1,intron_variant,,ENST00000565677,;STUB1,intron_variant,,ENST00000567173,;STUB1,intron_variant,,ENST00000219548,;STUB1,intron_variant,,ENST00000564316,;STUB1,intron_variant,,ENST00000564370,;STUB1,intron_variant,,ENST00000566408,;JMJD8,downstream_gene_variant,,ENST00000562111,;JMJD8,downstream_gene_variant,,ENST00000562824,;RHBDL1,downstream_gene_variant,,ENST00000352681,;RHBDL1,downstream_gene_variant,,ENST00000561556,;WDR24,downstream_gene_variant,,ENST00000293883,;RHBDL1,downstream_gene_variant,,ENST00000219551,;WDR24,downstream_gene_variant,,ENST00000248142,;LA16c-313D11.9,upstream_gene_variant,,ENST00000571933,;LA16c-313D11.9,upstream_gene_variant,,ENST00000567091,;STUB1,intron_variant,,ENST00000566181,;JMJD8,non_coding_transcript_exon_variant,,ENST00000565302,;JMJD8,non_coding_transcript_exon_variant,,ENST00000568689,;JMJD8,non_coding_transcript_exon_variant,,ENST00000567120,;STUB1,intron_variant,,ENST00000569248,;STUB1,intron_variant,,ENST00000563505,;STUB1,upstream_gene_variant,,ENST00000565813,;JMJD8,downstream_gene_variant,,ENST00000565258,;JMJD8,downstream_gene_variant,,ENST00000569396,;JMJD8,downstream_gene_variant,,ENST00000563088,;RHBDL1,downstream_gene_variant,,ENST00000450775,;JMJD8,downstream_gene_variant,,ENST00000566199,;JMJD8,downstream_gene_variant,,ENST00000568313,;JMJD8,downstream_gene_variant,,ENST00000570037,;WDR24,downstream_gene_variant,,ENST00000567014,;STUB1,downstream_gene_variant,,ENST00000567790,;JMJD8,downstream_gene_variant,,ENST00000569441,;JMJD8,downstream_gene_variant,,ENST00000564436,;JMJD8,downstream_gene_variant,,ENST00000567901,;	A	ENSG00000161999	ENST00000412368	Transcript	3_prime_UTR_variant	1963	.	.	.	.	.	.	.	-1	JMJD8	HGNC	14148	protein_coding	YES	CCDS45369.1	ENSP00000399475	JMJD8_HUMAN	.	UPI0000471011	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCAGACATC	.	5	BLCA
ATP2C2	0	.	GRCh37	16	84495721	84495721	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2708A>G	p.Asn903Ser	p.N903S	ENST00000262429	26/27	102	91	10	113	113	0	ATP2C2,missense_variant,p.Asn932Ser,ENST00000416219,;ATP2C2,missense_variant,p.Asn903Ser,ENST00000262429,;RP11-517C16.2,non_coding_transcript_exon_variant,,ENST00000565700,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000420010,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000567892,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000565631,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000567222,;ATP2C2,downstream_gene_variant,,ENST00000567629,;ATP2C2,downstream_gene_variant,,ENST00000566874,;	G	ENSG00000064270	ENST00000262429	Transcript	missense_variant	2797	2708	903	N/S	aAc/aGc	COSM1302308	.	.	1	ATP2C2	HGNC	29103	protein_coding	YES	CCDS42207.1	ENSP00000262429	AT2C2_HUMAN	.	UPI0000252110	.	tolerated(0.44)	benign(0.044)	26/27	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF220,Gene3D:1.20.1110.10,Pfam_domain:PF00689,TIGRFAM_domain:TIGR01522,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGAACCTGG	.	4	BLCA
ZNF287	0	.	GRCh37	17	16466508	16466508	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.667G>A	p.Glu223Lys	p.E223K	ENST00000395824	5/6	52	16	35	57	57	0	ZNF287,missense_variant,p.Glu223Lys,ENST00000395824,;ZNF287,missense_variant,p.Glu223Lys,ENST00000395825,;ZNF287,downstream_gene_variant,,ENST00000448349,;RP1-77H15.1,upstream_gene_variant,,ENST00000580311,;ZNF287,downstream_gene_variant,,ENST00000461555,;ZNF287,downstream_gene_variant,,ENST00000578303,;ZNF287,non_coding_transcript_exon_variant,,ENST00000498796,;	T	ENSG00000141040	ENST00000395824	Transcript	missense_variant	1285	667	223	E/K	Gaa/Aaa	COSM1302434	.	.	-1	ZNF287	HGNC	13502	protein_coding	YES	CCDS11179.2	ENSP00000379168	ZN287_HUMAN	C9JAV4_HUMAN	UPI0000200A57	.	deleterious(0.01)	probably_damaging(0.991)	5/6	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24402:SF201,hmmpanther:PTHR24402,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCCAATA	.	5	BLCA
MIEN1	0	.	GRCh37	17	37886006	37886006	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>A	p.Glu66Lys	p.E66K	ENST00000394231	3/4	154	98	55	102	102	0	MIEN1,missense_variant,p.Glu66Lys,ENST00000577810,;MIEN1,missense_variant,p.Glu66Lys,ENST00000394231,;ERBB2,downstream_gene_variant,,ENST00000580074,;ERBB2,downstream_gene_variant,,ENST00000584450,;ERBB2,downstream_gene_variant,,ENST00000541774,;ERBB2,downstream_gene_variant,,ENST00000445658,;ERBB2,downstream_gene_variant,,ENST00000269571,;ERBB2,downstream_gene_variant,,ENST00000406381,;ERBB2,downstream_gene_variant,,ENST00000540147,;ERBB2,downstream_gene_variant,,ENST00000584601,;MIR4728,downstream_gene_variant,,ENST00000580969,;MIEN1,non_coding_transcript_exon_variant,,ENST00000474210,;ERBB2,intron_variant,,ENST00000584888,;MIEN1,non_coding_transcript_exon_variant,,ENST00000582963,;MIEN1,non_coding_transcript_exon_variant,,ENST00000469568,;MIEN1,non_coding_transcript_exon_variant,,ENST00000498164,;ERBB2,downstream_gene_variant,,ENST00000583038,;ERBB2,downstream_gene_variant,,ENST00000578373,;	T	ENSG00000141741	ENST00000394231	Transcript	missense_variant	488	196	66	E/K	Gag/Aag	COSM1302749	.	.	-1	MIEN1	HGNC	28230	protein_coding	YES	CCDS11344.1	ENSP00000377778	MIEN1_HUMAN	.	UPI0000043728	.	deleterious(0)	probably_damaging(0.999)	3/4	.	hmmpanther:PTHR15124,hmmpanther:PTHR15124:SF15,Gene3D:3.40.30.10,Pfam_domain:PF10262,TIGRFAM_domain:TIGR02174,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCAAAGG	.	5	BLCA
TUBG2	0	.	GRCh37	17	40815491	40815491	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.576C>G	p.%3D	p.L192L	ENST00000251412	6/11	224	125	98	159	159	0	TUBG2,synonymous_variant,p.%3D,ENST00000251412,;PLEKHH3,downstream_gene_variant,,ENST00000412503,;PLEKHH3,downstream_gene_variant,,ENST00000591022,;PLEKHH3,downstream_gene_variant,,ENST00000293349,;PLEKHH3,downstream_gene_variant,,ENST00000456950,;TUBG2,non_coding_transcript_exon_variant,,ENST00000588870,;PLEKHH3,downstream_gene_variant,,ENST00000591476,;PLEKHH3,downstream_gene_variant,,ENST00000591196,;TUBG2,downstream_gene_variant,,ENST00000590396,;PLEKHH3,downstream_gene_variant,,ENST00000591490,;	G	ENSG00000037042	ENST00000251412	Transcript	synonymous_variant	775	576	192	L	ctC/ctG	COSM1302852	.	.	1	TUBG2	HGNC	12419	protein_coding	YES	CCDS32658.1	ENSP00000251412	TBG2_HUMAN	.	UPI0000136A5C	.	.	.	6/11	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF79,Pfam_domain:PF00091,Gene3D:3.40.50.1440,SMART_domains:SM00864,Superfamily_domains:SSF52490,Prints_domain:PR01161	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCAAGAG	.	5	BLCA
TEX14	0	.	GRCh37	17	56651579	56651579	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3490G>T	p.Glu1164Ter	p.E1164*	ENST00000240361	23/33	99	70	29	57	57	0	TEX14,stop_gained,p.Glu1118Ter,ENST00000349033,;TEX14,stop_gained,p.Glu1158Ter,ENST00000389934,;TEX14,stop_gained,p.Glu1164Ter,ENST00000240361,;TEX14,3_prime_UTR_variant,,ENST00000582740,;TEX14,upstream_gene_variant,,ENST00000581147,;	A	ENSG00000121101	ENST00000240361	Transcript	stop_gained	3576	3490	1164	E/*	Gag/Tag	COSM1303117,COSM1303116	.	.	-1	TEX14	HGNC	11737	protein_coding	YES	CCDS56042.1	ENSP00000240361	TEX14_HUMAN	.	UPI0000DAC9CA	.	.	.	23/33	.	hmmpanther:PTHR23060	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCCTTTG	.	5	BLCA
KCNH6	0	.	GRCh37	17	61611651	61611651	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1080C>G	p.Ile360Met	p.I360M	ENST00000583023	5/14	96	72	24	92	92	0	KCNH6,missense_variant,p.Ile360Met,ENST00000580652,;KCNH6,missense_variant,p.Ile360Met,ENST00000581784,;KCNH6,missense_variant,p.Ile360Met,ENST00000583023,;KCNH6,missense_variant,p.Ile360Met,ENST00000456941,;KCNH6,missense_variant,p.Ile360Met,ENST00000314672,;KCNH6,3_prime_UTR_variant,,ENST00000583465,;	G	ENSG00000173826	ENST00000583023	Transcript	missense_variant	1091	1080	360	I/M	atC/atG	COSM1303174	.	.	1	KCNH6	HGNC	18862	protein_coding	YES	CCDS11638.1	ENSP00000463533	KCNH6_HUMAN	.	UPI000012DCAB	.	deleterious(0.01)	possibly_damaging(0.688)	5/14	.	Superfamily_domains:SSF81324,Pfam_domain:PF00520,Gene3D:1.10.287.70,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCTTCCG	.	5	BLCA
SRSF2	0	.	GRCh37	17	74732295	74732295	+	Missense_Mutation	SNP	C	C	A	rs770113956	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.614G>T	p.Arg205Leu	p.R205L	ENST00000392485	2/2	124	93	31	101	101	0	SRSF2,missense_variant,p.Arg205Leu,ENST00000392485,;SRSF2,missense_variant,p.Arg193Leu,ENST00000508921,;SRSF2,missense_variant,p.Arg205Leu,ENST00000359995,;MFSD11,5_prime_UTR_variant,,ENST00000586622,;RP11-318A15.7,intron_variant,,ENST00000587459,;MFSD11,upstream_gene_variant,,ENST00000336509,;METTL23,downstream_gene_variant,,ENST00000590964,;METTL23,downstream_gene_variant,,ENST00000588783,;MFSD11,upstream_gene_variant,,ENST00000588460,;METTL23,downstream_gene_variant,,ENST00000586200,;METTL23,downstream_gene_variant,,ENST00000588563,;MFSD11,upstream_gene_variant,,ENST00000590514,;METTL23,downstream_gene_variant,,ENST00000586738,;METTL23,downstream_gene_variant,,ENST00000588822,;SRSF2,downstream_gene_variant,,ENST00000358156,;SRSF2,downstream_gene_variant,,ENST00000583836,;MFSD11,upstream_gene_variant,,ENST00000593181,;METTL23,downstream_gene_variant,,ENST00000591571,;MFSD11,upstream_gene_variant,,ENST00000591864,;METTL23,downstream_gene_variant,,ENST00000588302,;MFSD11,upstream_gene_variant,,ENST00000587661,;METTL23,downstream_gene_variant,,ENST00000592849,;MFSD11,upstream_gene_variant,,ENST00000355954,;MFSD11,upstream_gene_variant,,ENST00000586689,;MFSD11,upstream_gene_variant,,ENST00000590393,;METTL23,downstream_gene_variant,,ENST00000588964,;METTL23,downstream_gene_variant,,ENST00000586752,;METTL23,downstream_gene_variant,,ENST00000341249,;METTL23,downstream_gene_variant,,ENST00000589977,;MIR636,downstream_gene_variant,,ENST00000384825,;SRSF2,missense_variant,p.Arg205Leu,ENST00000585202,;SRSF2,missense_variant,p.Arg205Leu,ENST00000452355,;SRSF2,non_coding_transcript_exon_variant,,ENST00000582449,;SRSF2,upstream_gene_variant,,ENST00000589919,;MFSD11,upstream_gene_variant,,ENST00000588031,;MFSD11,upstream_gene_variant,,ENST00000588768,;SRSF2,upstream_gene_variant,,ENST00000592676,;METTL23,downstream_gene_variant,,ENST00000589581,;SRSF2,upstream_gene_variant,,ENST00000586778,;MFSD11,upstream_gene_variant,,ENST00000588670,;	A	ENSG00000161547	ENST00000392485	Transcript	missense_variant	787	614	205	R/L	cGa/cTa	rs770113956,COSM1303383,COSM1303384	.	.	-1	SRSF2	HGNC	10783	protein_coding	YES	CCDS11749.1	ENSP00000376276	SRSF2_HUMAN	B3KUY1_HUMAN	UPI0000000C2A	.	tolerated(0.21)	unknown(0)	2/2	.	hmmpanther:PTHR23147,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGATCGCGAC	byFrequency	5	BLCA
SLC26A11	0	.	GRCh37	17	78225191	78225191	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720G>T	p.Glu574Ter	p.E574*	ENST00000361193	17/18	122	95	27	118	118	0	SLC26A11,stop_gained,p.Glu574Ter,ENST00000361193,;SLC26A11,stop_gained,p.Glu574Ter,ENST00000572725,;SLC26A11,stop_gained,p.Glu574Ter,ENST00000546047,;SLC26A11,stop_gained,p.Glu574Ter,ENST00000411502,;SLC26A11,3_prime_UTR_variant,,ENST00000575019,;	T	ENSG00000181045	ENST00000361193	Transcript	stop_gained	2000	1720	574	E/*	Gaa/Taa	COSM1303466	.	.	1	SLC26A11	HGNC	14471	protein_coding	YES	CCDS11771.2	ENSP00000355384	S2611_HUMAN	Q96BU7_HUMAN,I3L3K8_HUMAN,I3L2J9_HUMAN,I3L1H1_HUMAN,I3L124_HUMAN	UPI000003E7B7	.	.	.	17/18	.	hmmpanther:PTHR11814:SF55,hmmpanther:PTHR11814,Gene3D:3.30.750.24,Pfam_domain:PF01740,Superfamily_domains:SSF52091	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTGGAAGAA	.	5	BLCA
CABLES1	0	.	GRCh37	18	20735805	20735805	+	Intron	SNP	G	G	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.845+19234G>A	.	.	ENST00000256925	.	39	35	4	26	26	0	CABLES1,5_prime_UTR_variant,,ENST00000420687,;CABLES1,intron_variant,,ENST00000582882,;CABLES1,intron_variant,,ENST00000400473,;CABLES1,intron_variant,,ENST00000256925,;CABLES1,intron_variant,,ENST00000580153,;CABLES1,intron_variant,,ENST00000583220,;CABLES1,intron_variant,,ENST00000585061,;CABLES1,intron_variant,,ENST00000580644,;CABLES1,intron_variant,,ENST00000578052,;CABLES1,intron_variant,,ENST00000579963,;	A	ENSG00000134508	ENST00000256925	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CABLES1	HGNC	25097	protein_coding	YES	CCDS42417.1	ENSP00000256925	CABL1_HUMAN	A7K6Y5_HUMAN	UPI00004C2CAA	.	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTGGTGTT	.	2	BLCA
EMILIN2	0	.	GRCh37	18	2891297	2891297	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1172C>T	p.Ser391Leu	p.S391L	ENST00000254528	4/8	64	37	27	47	47	0	EMILIN2,missense_variant,p.Ser391Leu,ENST00000254528,;	T	ENSG00000132205	ENST00000254528	Transcript	missense_variant	1331	1172	391	S/L	tCa/tTa	COSM987529,COSM1303661	.	.	1	EMILIN2	HGNC	19881	protein_coding	YES	CCDS11828.1	ENSP00000254528	EMIL2_HUMAN	.	UPI000013CE3E	.	tolerated(0.2)	benign(0.15)	4/8	.	hmmpanther:PTHR15427,hmmpanther:PTHR15427:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTCAGCCC	.	5	BLCA
C18orf25	0	.	GRCh37	18	43796552	43796552	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.706G>T	p.Glu236Ter	p.E236*	ENST00000282059	2/5	27	18	9	15	15	0	C18orf25,stop_gained,p.Glu236Ter,ENST00000321319,;C18orf25,stop_gained,p.Glu236Ter,ENST00000282059,;C18orf25,stop_gained,p.Glu85Ter,ENST00000588730,;C18orf25,downstream_gene_variant,,ENST00000587591,;	T	ENSG00000152242	ENST00000282059	Transcript	stop_gained	1080	706	236	E/*	Gag/Tag	COSM1303747	.	.	1	C18orf25	HGNC	28172	protein_coding	YES	CCDS42430.1	ENSP00000282059	CR025_HUMAN	Q5BIX2_HUMAN,K7ER64_HUMAN,K7EQH1_HUMAN	UPI000013DCB6	.	.	.	2/5	.	hmmpanther:PTHR13644,Pfam_domain:PF15303	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGAGATA	.	5	BLCA
IL27RA	0	.	GRCh37	19	14159887	14159887	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1236G>T	p.Glu412Asp	p.E412D	ENST00000263379	9/14	74	69	5	65	65	0	IL27RA,missense_variant,p.Glu412Asp,ENST00000263379,;PALM3,downstream_gene_variant,,ENST00000340790,;	T	ENSG00000104998	ENST00000263379	Transcript	missense_variant	1361	1236	412	E/D	gaG/gaT	COSM1304084	.	.	1	IL27RA	HGNC	17290	protein_coding	YES	CCDS12303.1	ENSP00000263379	I27RA_HUMAN	.	UPI0000039E1F	.	deleterious(0.02)	possibly_damaging(0.501)	9/14	.	Superfamily_domains:SSF49265,hmmpanther:PTHR23036,hmmpanther:PTHR23036:SF6,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGAGGAATT	.	2	BLCA
ZNF546	0	.	GRCh37	19	40521762	40521762	+	3'UTR	SNP	G	G	A	rs757354868	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*74G>A	.	.	ENST00000347077	7/7	13	9	4	8	8	0	ZNF546,3_prime_UTR_variant,,ENST00000600094,;ZNF546,3_prime_UTR_variant,,ENST00000347077,;ZNF546,intron_variant,,ENST00000596894,;ZNF546,downstream_gene_variant,,ENST00000601138,;ZNF546,downstream_gene_variant,,ENST00000599504,;CTC-471F3.6,upstream_gene_variant,,ENST00000593658,;	A	ENSG00000187187	ENST00000347077	Transcript	3_prime_UTR_variant	2801	.	.	.	.	rs757354868	.	.	1	ZNF546	HGNC	28671	protein_coding	YES	CCDS12548.1	ENSP00000339823	ZN546_HUMAN	M0R292_HUMAN,M0QXR6_HUMAN	UPI00001984E3	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTACGGAACA	byFrequency	2	BLCA
CEACAM5	0	.	GRCh37	19	42222226	42222226	+	Missense_Mutation	SNP	G	G	A	rs376701458	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1417G>A	p.Gly473Arg	p.G473R	ENST00000221992	6/10	87	83	4	75	75	0	CEACAM5,missense_variant,p.Gly472Arg,ENST00000398599,;CEACAM5,missense_variant,p.Gly473Arg,ENST00000221992,;CEACAM5,missense_variant,p.Gly473Arg,ENST00000405816,;CEA,intron_variant,,ENST00000598976,;CEA,intron_variant,,ENST00000435837,;CEACAM5,intron_variant,,ENST00000595403,;CEACAM5,downstream_gene_variant,,ENST00000595113,;CEACAM5,downstream_gene_variant,,ENST00000596606,;	A	ENSG00000105388	ENST00000221992	Transcript	missense_variant	1531	1417	473	G/R	Gga/Aga	rs376701458,COSM997102	.	.	1	CEACAM5	HGNC	1817	protein_coding	YES	CCDS12584.1	ENSP00000221992	CEAM5_HUMAN	Q7KZ28_HUMAN,M0QXV9_HUMAN	UPI000013C7E5	.	deleterious(0.02)	probably_damaging(0.951)	6/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19955:SF113,hmmpanther:PTHR19955,Gene3D:2.60.40.10,Pfam_domain:PF13895,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGCGGACTC	byFrequency|byCluster	2	BLCA
CLPTM1	0	.	GRCh37	19	45496010	45496010	+	Missense_Mutation	SNP	C	C	T	rs141261045	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1865C>T	p.Thr622Met	p.T622M	ENST00000337392	14/14	79	73	6	73	73	0	CLPTM1,missense_variant,p.Thr622Met,ENST00000337392,;CLPTM1,missense_variant,p.Thr608Met,ENST00000541297,;CLPTM1,missense_variant,p.Thr520Met,ENST00000546079,;CLPTM1,synonymous_variant,p.%3D,ENST00000586915,;CLPTM1,downstream_gene_variant,,ENST00000586975,;CLPTM1,downstream_gene_variant,,ENST00000589347,;CLPTM1,downstream_gene_variant,,ENST00000588855,;CLPTM1,downstream_gene_variant,,ENST00000588274,;	T	ENSG00000104853	ENST00000337392	Transcript	missense_variant	2015	1865	622	T/M	aCg/aTg	rs141261045,COSM1304763,COSM1304764	.	.	1	CLPTM1	HGNC	2087	protein_coding	YES	CCDS12651.1	ENSP00000336994	CLPT1_HUMAN	K7EKQ7_HUMAN,B4DDS3_HUMAN	UPI0000072CBA	.	tolerated(0.1)	possibly_damaging(0.791)	14/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21347,hmmpanther:PTHR21347:SF0	G:0.0002	G:0	G:0	.	G:0	G:0.001	G:0	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCACGCCCA	byCluster|by1000G	2	BLCA
RELB	0	.	GRCh37	19	45541121	45541121	+	3'UTR	SNP	C	C	G	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*73C>G	.	.	ENST00000221452	12/12	17	12	5	20	20	0	RELB,3_prime_UTR_variant,,ENST00000221452,;RELB,3_prime_UTR_variant,,ENST00000505236,;RELB,3_prime_UTR_variant,,ENST00000589972,;RELB,3_prime_UTR_variant,,ENST00000540120,;CLASRP,upstream_gene_variant,,ENST00000391953,;CLASRP,upstream_gene_variant,,ENST00000588936,;CLASRP,upstream_gene_variant,,ENST00000221455,;CLASRP,upstream_gene_variant,,ENST00000544944,;CLASRP,upstream_gene_variant,,ENST00000591410,;CLASRP,upstream_gene_variant,,ENST00000592056,;CLASRP,upstream_gene_variant,,ENST00000587112,;CLASRP,upstream_gene_variant,,ENST00000391952,;CLASRP,upstream_gene_variant,,ENST00000588247,;RELB,downstream_gene_variant,,ENST00000509229,;	G	ENSG00000104856	ENST00000221452	Transcript	3_prime_UTR_variant	1963	.	.	.	.	.	.	.	1	RELB	HGNC	9956	protein_coding	YES	CCDS46110.1	ENSP00000221452	RELB_HUMAN	.	UPI00000012B7	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATGTCTAGCA	.	2	BLCA
PRR12	0	.	GRCh37	19	50102618	50102618	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3768G>A	p.%3D	p.S1256S	ENST00000418929	5/14	44	38	5	26	26	0	PRR12,synonymous_variant,p.%3D,ENST00000418929,;	A	ENSG00000126464	ENST00000418929	Transcript	synonymous_variant	3780	3768	1256	S	tcG/tcA	COSM1304915,COSM1304914	.	.	1	PRR12	HGNC	29217	protein_coding	YES	CCDS46143.1	ENSP00000394510	PRR12_HUMAN	.	UPI0001596889	.	.	.	5/14	.	hmmpanther:PTHR14709:SF1,hmmpanther:PTHR14709	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTCGAGCCT	.	4	BLCA
ZNF432	0	.	GRCh37	19	52537344	52537344	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1588G>A	p.Val530Ile	p.V530I	ENST00000594154	5/5	167	121	46	123	123	0	ZNF432,missense_variant,p.Val530Ile,ENST00000221315,;ZNF432,missense_variant,p.Val530Ile,ENST00000594154,;ZNF432,downstream_gene_variant,,ENST00000598745,;ZNF614,upstream_gene_variant,,ENST00000597952,;ZNF432,downstream_gene_variant,,ENST00000600368,;	T	ENSG00000256087	ENST00000594154	Transcript	missense_variant	1801	1588	530	V/I	Gta/Ata	COSM1304997	.	.	-1	ZNF432	HGNC	20810	protein_coding	YES	CCDS12848.1	ENSP00000470488	ZN432_HUMAN	M0R258_HUMAN,M0R0H8_HUMAN,M0R0E2_HUMAN	UPI0000139CDC	.	tolerated(0.39)	benign(0.373)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF165,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTACAACAA	.	5	BLCA
ZNF765	0	.	GRCh37	19	53911005	53911005	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.197G>C	p.Arg66Thr	p.R66T	ENST00000396408	4/4	105	63	42	53	53	0	ZNF765,missense_variant,p.Arg66Thr,ENST00000396408,;ZNF765,missense_variant,p.Arg13Thr,ENST00000505866,;ZNF765,intron_variant,,ENST00000594030,;ZNF765,intron_variant,,ENST00000504146,;ZNF765,intron_variant,,ENST00000507045,;ZNF765,intron_variant,,ENST00000504235,;	C	ENSG00000196417	ENST00000396408	Transcript	missense_variant	314	197	66	R/T	aGa/aCa	COSM1305056	.	.	1	ZNF765	HGNC	25092	protein_coding	YES	CCDS46171.1	ENSP00000379689	ZN765_HUMAN	D6RF03_HUMAN	UPI000040C508	.	tolerated(1)	benign(0.001)	4/4	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24407:SF12,hmmpanther:PTHR24407,SMART_domains:SM00349	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATAGAGAAG	.	5	BLCA
CNOT3	0	.	GRCh37	19	54657318	54657318	+	Intron	SNP	C	C	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2038-134C>A	.	.	ENST00000406403	.	55	33	22	34	34	0	CNOT3,intron_variant,,ENST00000457463,;CNOT3,intron_variant,,ENST00000406403,;CNOT3,intron_variant,,ENST00000221232,;LENG1,downstream_gene_variant,,ENST00000222224,;CNOT3,downstream_gene_variant,,ENST00000358389,;CNOT3,downstream_gene_variant,,ENST00000440571,;CNOT3,upstream_gene_variant,,ENST00000471126,;CNOT3,non_coding_transcript_exon_variant,,ENST00000496327,;CNOT3,3_prime_UTR_variant,,ENST00000447684,;CNOT3,intron_variant,,ENST00000482247,;CNOT3,intron_variant,,ENST00000489953,;	A	ENSG00000088038	ENST00000406403	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	.	.	.	15/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCCAAGA	.	5	BLCA
LILRB2	0	.	GRCh37	19	54783434	54783434	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424C>A	p.Leu142Ile	p.L142I	ENST00000391749	5/14	178	154	23	104	104	0	LILRB2,missense_variant,p.Leu26Ile,ENST00000434421,;LILRB2,missense_variant,p.Leu142Ile,ENST00000314446,;LILRB2,missense_variant,p.Leu142Ile,ENST00000391748,;LILRB2,missense_variant,p.Leu142Ile,ENST00000391749,;LILRB2,missense_variant,p.Leu142Ile,ENST00000391746,;MIR4752,upstream_gene_variant,,ENST00000579672,;LILRB2,downstream_gene_variant,,ENST00000471216,;LILRB2,non_coding_transcript_exon_variant,,ENST00000493242,;LILRB2,upstream_gene_variant,,ENST00000455108,;	T	ENSG00000131042	ENST00000391749	Transcript	missense_variant	696	424	142	L/I	Ctc/Atc	COSM1305082,COSM3893393,COSM317565	.	.	-1	LILRB2	HGNC	6606	protein_coding	YES	CCDS12886.1	ENSP00000375629	LIRB2_HUMAN	C9JF29_HUMAN	UPI00000707E4	.	deleterious(0.02)	benign(0.285)	5/14	.	Superfamily_domains:SSF48726,Gene3D:2.60.40.10,Pfam_domain:PF13927,hmmpanther:PTHR11738:SF92,hmmpanther:PTHR11738	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGAGGGTCA	.	4	BLCA
PTPRH	0	.	GRCh37	19	55716720	55716720	+	Missense_Mutation	SNP	G	G	C	rs768559826	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.593C>G	p.Ser198Cys	p.S198C	ENST00000376350	4/20	179	171	8	167	167	0	PTPRH,missense_variant,p.Ser198Cys,ENST00000376350,;PTPRH,intron_variant,,ENST00000263434,;PTPRH,non_coding_transcript_exon_variant,,ENST00000588559,;PTPRH,non_coding_transcript_exon_variant,,ENST00000586852,;PTPRH,downstream_gene_variant,,ENST00000587662,;PTPRH,downstream_gene_variant,,ENST00000586310,;PTPRH,downstream_gene_variant,,ENST00000588370,;	C	ENSG00000080031	ENST00000376350	Transcript	missense_variant	616	593	198	S/C	tCc/tGc	rs768559826,COSM1305127	.	.	-1	PTPRH	HGNC	9672	protein_coding	YES	CCDS33110.1	ENSP00000365528	PTPRH_HUMAN	.	UPI000006EDE6	.	.	unknown(0)	4/20	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF254,Gene3D:2.60.40.10,SMART_domains:SM00060	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCGGGAGCTG	.	2	BLCA
ZNF470	0	.	GRCh37	19	57089446	57089446	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1649C>T	p.Ala550Val	p.A550V	ENST00000330619	6/6	97	66	31	61	61	0	ZNF470,missense_variant,p.Ala550Val,ENST00000391709,;ZNF470,missense_variant,p.Ala550Val,ENST00000330619,;ZNF470,intron_variant,,ENST00000594953,;ZNF470,intron_variant,,ENST00000601902,;ZNF470,intron_variant,,ENST00000601059,;	T	ENSG00000197016	ENST00000330619	Transcript	missense_variant	2335	1649	550	A/V	gCa/gTa	COSM1305168	.	.	1	ZNF470	HGNC	22220	protein_coding	YES	CCDS33122.1	ENSP00000333223	ZN470_HUMAN	.	UPI0000D61826	.	deleterious(0.01)	benign(0.062)	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTGCACACC	.	5	BLCA
DENND1C	0	.	GRCh37	19	6476930	6476930	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616G>A	p.Gly206Arg	p.G206R	ENST00000381480	10/23	47	39	7	58	58	0	DENND1C,missense_variant,p.Gly206Arg,ENST00000381480,;DENND1C,missense_variant,p.Gly162Arg,ENST00000543576,;DENND1C,downstream_gene_variant,,ENST00000590173,;DENND1C,downstream_gene_variant,,ENST00000588421,;DENND1C,downstream_gene_variant,,ENST00000590473,;DENND1C,downstream_gene_variant,,ENST00000591030,;DENND1C,missense_variant,p.Gly162Arg,ENST00000590867,;DENND1C,non_coding_transcript_exon_variant,,ENST00000589491,;DENND1C,non_coding_transcript_exon_variant,,ENST00000588988,;DENND1C,non_coding_transcript_exon_variant,,ENST00000592543,;DENND1C,downstream_gene_variant,,ENST00000586046,;DENND1C,upstream_gene_variant,,ENST00000590444,;DENND1C,upstream_gene_variant,,ENST00000590818,;	T	ENSG00000205744	ENST00000381480	Transcript	missense_variant	729	616	206	G/R	Ggg/Agg	COSM1305261,COSM1305260	.	.	-1	DENND1C	HGNC	26225	protein_coding	YES	CCDS45938.1	ENSP00000370889	DEN1C_HUMAN	K7ENM0_HUMAN,K7EMN9_HUMAN,K7EM80_HUMAN,K7EKL5_HUMAN,B3KP66_HUMAN	UPI000007469C	.	tolerated(0.58)	probably_damaging(0.995)	10/23	.	PROSITE_profiles:PS50211,hmmpanther:PTHR13196:SF21,hmmpanther:PTHR13196,Pfam_domain:PF02141,SMART_domains:SM00799	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCCCCACGA	.	5	BLCA
HIAT1	0	.	GRCh37	1	100534050	100534050	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.727G>C	p.Asp243His	p.D243H	ENST00000370152	7/12	104	73	31	130	130	0	HIAT1,missense_variant,p.Asp243His,ENST00000370152,;RP4-714D9.2,intron_variant,,ENST00000432294,;	C	ENSG00000156875	ENST00000370152	Transcript	missense_variant	863	727	243	D/H	Gat/Cat	COSM1294605	.	.	1	HIAT1	HGNC	23363	protein_coding	YES	CCDS763.1	ENSP00000359171	HIAT1_HUMAN	.	UPI0000049F99	.	deleterious(0)	possibly_damaging(0.682)	7/12	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24003:SF367,hmmpanther:PTHR24003,Pfam_domain:PF07690,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGATTCC	.	5	BLCA
COL11A1	0	.	GRCh37	1	103431095	103431095	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2864G>A	p.Gly955Glu	p.G955E	ENST00000370096	38/67	133	78	55	144	144	0	COL11A1,missense_variant,p.Gly839Glu,ENST00000512756,;COL11A1,missense_variant,p.Gly916Glu,ENST00000353414,;COL11A1,missense_variant,p.Gly955Glu,ENST00000370096,;COL11A1,missense_variant,p.Gly967Glu,ENST00000358392,;COL11A1,upstream_gene_variant,,ENST00000465209,;	T	ENSG00000060718	ENST00000370096	Transcript	missense_variant	3177	2864	955	G/E	gGa/gAa	COSM1294631,COSM1294632	.	.	-1	COL11A1	HGNC	2186	protein_coding	YES	CCDS778.1	ENSP00000359114	COBA1_HUMAN	Q4FAC4_HUMAN,B4DQZ0_HUMAN	UPI00002053EF	.	.	unknown(0)	38/67	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023:SF42,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATCCCTAA	.	5	BLCA
PSRC1	0	.	GRCh37	1	109824459	109824459	+	Missense_Mutation	SNP	C	C	T	rs144416204	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.301G>A	p.Glu101Lys	p.E101K	ENST00000369909	4/8	45	24	21	37	37	0	PSRC1,missense_variant,p.Glu101Lys,ENST00000369909,;PSRC1,missense_variant,p.Glu101Lys,ENST00000429031,;PSRC1,missense_variant,p.Glu101Lys,ENST00000369904,;PSRC1,missense_variant,p.Glu101Lys,ENST00000409267,;PSRC1,missense_variant,p.Glu101Lys,ENST00000438534,;PSRC1,missense_variant,p.Glu101Lys,ENST00000418914,;PSRC1,missense_variant,p.Glu101Lys,ENST00000369907,;PSRC1,missense_variant,p.Glu101Lys,ENST00000409138,;PSRC1,missense_variant,p.Glu101Lys,ENST00000369903,;PSRC1,upstream_gene_variant,,ENST00000474126,;PSRC1,non_coding_transcript_exon_variant,,ENST00000471740,;PSRC1,non_coding_transcript_exon_variant,,ENST00000459765,;PSRC1,non_coding_transcript_exon_variant,,ENST00000492431,;	T	ENSG00000134222	ENST00000369909	Transcript	missense_variant	445	301	101	E/K	Gag/Aag	rs144416204,COSM1294674	.	.	-1	PSRC1	HGNC	24472	protein_coding	YES	CCDS797.1	ENSP00000358925	PSRC1_HUMAN	Q5T2Z1_HUMAN,Q5T2Z0_HUMAN	UPI0000073C97	.	tolerated(0.19)	benign(0.165)	4/8	.	hmmpanther:PTHR21584:SF1,hmmpanther:PTHR21584,Pfam_domain:PF15259	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCGCCTG	byCluster	5	BLCA
C1orf43	0	.	GRCh37	1	154180113	154180113	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.578G>A	p.Arg193Gln	p.R193Q	ENST00000368521	7/7	93	70	23	89	89	0	C1orf43,missense_variant,p.Arg141Gln,ENST00000362076,;C1orf43,missense_variant,p.Arg159Gln,ENST00000350592,;C1orf43,missense_variant,p.Arg175Gln,ENST00000368519,;C1orf43,missense_variant,p.Arg193Gln,ENST00000368521,;C1orf189,upstream_gene_variant,,ENST00000368525,;C1orf43,downstream_gene_variant,,ENST00000368518,;C1orf43,downstream_gene_variant,,ENST00000368516,;C1orf43,non_coding_transcript_exon_variant,,ENST00000493814,;C1orf43,non_coding_transcript_exon_variant,,ENST00000483282,;C1orf43,downstream_gene_variant,,ENST00000470180,;	T	ENSG00000143612	ENST00000368521	Transcript	missense_variant	777	578	193	R/Q	cGa/cAa	COSM1295136,COSM1295135	.	.	-1	C1orf43	HGNC	29876	protein_coding	YES	CCDS41404.1	ENSP00000357507	CA043_HUMAN	.	UPI0000070171	.	tolerated(0.16)	benign(0.033)	7/7	.	hmmpanther:PTHR21425,hmmpanther:PTHR21425:SF2,Gene3D:1.10.1040.10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCGTGCT	.	5	BLCA
IFI16	0	.	GRCh37	1	159015192	159015192	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1435G>A	p.Glu479Lys	p.E479K	ENST00000368131	8/11	184	153	31	192	192	0	IFI16,missense_variant,p.Glu479Lys,ENST00000295809,;IFI16,missense_variant,p.Glu427Lys,ENST00000430894,;IFI16,missense_variant,p.Glu479Lys,ENST00000368131,;IFI16,missense_variant,p.Glu423Lys,ENST00000359709,;IFI16,intron_variant,,ENST00000340979,;IFI16,intron_variant,,ENST00000368132,;IFI16,intron_variant,,ENST00000448393,;IFI16,non_coding_transcript_exon_variant,,ENST00000493884,;IFI16,intron_variant,,ENST00000562225,;IFI16,intron_variant,,ENST00000483916,;	A	ENSG00000163565	ENST00000368131	Transcript	missense_variant	1725	1435	479	E/K	Gag/Aag	COSM138246	.	.	1	IFI16	HGNC	5395	protein_coding	YES	CCDS1180.3	ENSP00000357113	IF16_HUMAN	H3BVE6_HUMAN,H3BR88_HUMAN,H3BR65_HUMAN,H3BM18_HUMAN	UPI00001412C9	.	tolerated(0.81)	benign(0.008)	8/11	.	hmmpanther:PTHR12200:SF5,hmmpanther:PTHR12200	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CAGCTGAGAGC	.	3	BLCA
RGS5	0	.	GRCh37	1	163131761	163131761	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.161C>G	p.Ser54Trp	p.S54W	ENST00000530507	3/5	61	54	7	87	87	0	RGS5,missense_variant,p.Ser54Trp,ENST00000313961,;RGS5,missense_variant,p.Ser74Trp,ENST00000367903,;RGS5,missense_variant,p.Ser17Trp,ENST00000531476,;RGS5,missense_variant,p.Ser54Trp,ENST00000530507,;RGS5,intron_variant,,ENST00000527988,;RP11-267N12.1,intron_variant,,ENST00000415437,;RGS5,non_coding_transcript_exon_variant,,ENST00000534288,;RGS5,non_coding_transcript_exon_variant,,ENST00000531954,;RGS5,non_coding_transcript_exon_variant,,ENST00000428971,;RGS5,non_coding_transcript_exon_variant,,ENST00000530241,;RGS5,non_coding_transcript_exon_variant,,ENST00000525894,;	C	ENSG00000143248	ENST00000530507	Transcript	missense_variant	229	161	54	S/W	tCg/tGg	COSM1295393	.	.	-1	RGS5	HGNC	10001	protein_coding	YES	CCDS58041.1	ENSP00000433001	RGS5_HUMAN	.	UPI0001F78466	.	deleterious(0.01)	possibly_damaging(0.656)	3/5	.	Superfamily_domains:SSF48097,hmmpanther:PTHR10845,hmmpanther:PTHR10845:SF42	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGCGAGGTT	.	5	BLCA
POGK	0	.	GRCh37	1	166818581	166818581	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>A	p.%3D	p.K255K	ENST00000367875	5/5	56	23	33	68	68	0	POGK,synonymous_variant,p.%3D,ENST00000367876,;POGK,synonymous_variant,p.%3D,ENST00000536514,;POGK,synonymous_variant,p.%3D,ENST00000537173,;POGK,synonymous_variant,p.%3D,ENST00000367875,;POGK,downstream_gene_variant,,ENST00000449930,;	A	ENSG00000143157	ENST00000367875	Transcript	synonymous_variant	1125	765	255	K	aaG/aaA	COSM1295417	.	.	1	POGK	HGNC	18800	protein_coding	YES	CCDS1254.1	ENSP00000356849	POGK_HUMAN	Q5TIJ2_HUMAN	UPI0000167816	.	.	.	5/5	.	PROSITE_profiles:PS51253,hmmpanther:PTHR19303:SF21,hmmpanther:PTHR19303,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAAGAATGG	.	5	BLCA
POU2F1	0	.	GRCh37	1	167365643	167365643	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1108G>C	p.Glu370Gln	p.E370Q	ENST00000367866	10/16	116	87	29	103	103	0	POU2F1,missense_variant,p.Glu347Gln,ENST00000420254,;POU2F1,missense_variant,p.Glu255Gln,ENST00000443275,;POU2F1,missense_variant,p.Glu307Gln,ENST00000429375,;POU2F1,missense_variant,p.Glu359Gln,ENST00000367862,;POU2F1,missense_variant,p.Glu370Gln,ENST00000367866,;POU2F1,missense_variant,p.Glu347Gln,ENST00000541643,;POU2F1,downstream_gene_variant,,ENST00000452019,;POU2F1,non_coding_transcript_exon_variant,,ENST00000559648,;POU2F1,non_coding_transcript_exon_variant,,ENST00000367865,;POU2F1,3_prime_UTR_variant,,ENST00000271411,;POU2F1,non_coding_transcript_exon_variant,,ENST00000557874,;POU2F1,downstream_gene_variant,,ENST00000560232,;	C	ENSG00000143190	ENST00000367866	Transcript	missense_variant	1177	1108	370	E/Q	Gag/Cag	COSM1295425,COSM1295424	.	.	1	POU2F1	HGNC	9212	protein_coding	YES	CCDS1259.2	ENSP00000356840	.	J3KP77_HUMAN	UPI0000EE3C74	.	tolerated(0.12)	unknown(0)	10/16	.	PROSITE_profiles:PS51179,hmmpanther:PTHR11636,hmmpanther:PTHR11636:SF47,Gene3D:1.10.260.40,Pfam_domain:PF00157,SMART_domains:SM00352,Superfamily_domains:SSF47413,Prints_domain:PR00028	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTAGAGAAG	.	5	BLCA
PRRX1	0	.	GRCh37	1	170688895	170688895	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>T	p.Lys90Asn	p.K90N	ENST00000239461	2/4	31	23	7	19	19	0	PRRX1,missense_variant,p.Lys90Asn,ENST00000497230,;PRRX1,missense_variant,p.Lys90Asn,ENST00000239461,;PRRX1,missense_variant,p.Lys90Asn,ENST00000367760,;PRRX1,non_coding_transcript_exon_variant,,ENST00000553786,;PRRX1,upstream_gene_variant,,ENST00000495280,;PRRX1,upstream_gene_variant,,ENST00000476867,;	T	ENSG00000116132	ENST00000239461	Transcript	missense_variant	583	270	90	K/N	aaG/aaT	COSM3863500,COSM1295464,COSM3863501,COSM1295465	.	.	1	PRRX1	HGNC	9142	protein_coding	YES	CCDS1290.1	ENSP00000239461	PRRX1_HUMAN	.	UPI0000131D11	.	tolerated(0.15)	probably_damaging(0.966)	2/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF300,Gene3D:1.10.10.60,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAAGAAGAG	.	5	BLCA
PRRX1	0	.	GRCh37	1	170688965	170688965	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>A	p.Glu114Lys	p.E114K	ENST00000239461	2/4	88	69	18	91	91	0	PRRX1,missense_variant,p.Glu114Lys,ENST00000497230,;PRRX1,missense_variant,p.Glu114Lys,ENST00000239461,;PRRX1,missense_variant,p.Glu114Lys,ENST00000367760,;PRRX1,non_coding_transcript_exon_variant,,ENST00000553786,;PRRX1,upstream_gene_variant,,ENST00000495280,;PRRX1,upstream_gene_variant,,ENST00000476867,;	A	ENSG00000116132	ENST00000239461	Transcript	missense_variant	653	340	114	E/K	Gag/Aag	COSM1295466,COSM1295467	.	.	1	PRRX1	HGNC	9142	protein_coding	YES	CCDS1290.1	ENSP00000239461	PRRX1_HUMAN	.	UPI0000131D11	.	tolerated(0.05)	probably_damaging(0.987)	2/4	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF300,Gene3D:1.10.10.60,Pfam_domain:PF00046,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTGAGCGG	.	5	BLCA
CEP350	0	.	GRCh37	1	179965793	179965793	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.501G>A	p.Met167Ile	p.M167I	ENST00000367607	6/38	34	15	19	31	31	0	CEP350,missense_variant,p.Met167Ile,ENST00000367607,;CEP350,missense_variant,p.Met141Ile,ENST00000491495,;CEP350,downstream_gene_variant,,ENST00000357434,;RP11-52I18.1,downstream_gene_variant,,ENST00000424289,;	A	ENSG00000135837	ENST00000367607	Transcript	missense_variant	919	501	167	M/I	atG/atA	COSM1295553,COSM1295554	.	.	1	CEP350	HGNC	24238	protein_coding	YES	CCDS1336.1	ENSP00000356579	CE350_HUMAN	Q5T2X4_HUMAN	UPI000013CFC5	.	.	benign(0.002)	6/38	.	hmmpanther:PTHR13958	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGATAGG	.	5	BLCA
DHX9	0	.	GRCh37	1	182849629	182849630	+	Intron	INS	-	-	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2513-2dupA	.	.	ENST00000367549	.	77	67	10	67	67	0	DHX9,splice_region_variant,,ENST00000367549,;DHX9,splice_region_variant,,ENST00000485081,;DHX9,splice_region_variant,,ENST00000474446,;DHX9,upstream_gene_variant,,ENST00000473076,;DHX9,downstream_gene_variant,,ENST00000490519,;	A	ENSG00000135829	ENST00000367549	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	DHX9	HGNC	2750	protein_coding	YES	CCDS41444.1	ENSP00000356520	DHX9_HUMAN	.	UPI00001AEF15	.	.	.	.	21/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCCACAGAGC	.	3	BLCA
NFASC	0	.	GRCh37	1	204955232	204955232	+	Intron	SNP	C	C	T	rs111234773	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2471-1314C>T	.	.	ENST00000339876	.	64	56	8	48	48	0	NFASC,synonymous_variant,p.%3D,ENST00000404076,;NFASC,synonymous_variant,p.%3D,ENST00000367170,;NFASC,synonymous_variant,p.%3D,ENST00000338515,;NFASC,synonymous_variant,p.%3D,ENST00000360049,;NFASC,synonymous_variant,p.%3D,ENST00000404907,;NFASC,synonymous_variant,p.%3D,ENST00000367171,;NFASC,synonymous_variant,p.%3D,ENST00000539706,;NFASC,synonymous_variant,p.%3D,ENST00000430393,;NFASC,synonymous_variant,p.%3D,ENST00000513543,;NFASC,synonymous_variant,p.%3D,ENST00000367172,;NFASC,synonymous_variant,p.%3D,ENST00000338586,;NFASC,intron_variant,,ENST00000425360,;NFASC,intron_variant,,ENST00000401399,;NFASC,intron_variant,,ENST00000339876,;NFASC,intron_variant,,ENST00000367173,;NFASC,intron_variant,,ENST00000367169,;NFASC,upstream_gene_variant,,ENST00000413225,;NFASC,non_coding_transcript_exon_variant,,ENST00000404977,;NFASC,intron_variant,,ENST00000468328,;NFASC,upstream_gene_variant,,ENST00000492085,;NFASC,upstream_gene_variant,,ENST00000495396,;NFASC,downstream_gene_variant,,ENST00000471392,;NFASC,3_prime_UTR_variant,,ENST00000504476,;NFASC,non_coding_transcript_exon_variant,,ENST00000512826,;	T	ENSG00000163531	ENST00000339876	Transcript	intron_variant	.	.	.	.	.	rs111234773	.	.	1	NFASC	HGNC	29866	protein_coding	YES	CCDS53460.1	ENSP00000344786	NFASC_HUMAN	D6RHX4_HUMAN	UPI0000237208	.	.	.	.	21/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCACCCCGGA	byFrequency|byCluster	4	BLCA
CDC42BPA	0	.	GRCh37	1	227307535	227307535	+	Silent	SNP	C	C	T	rs371811786	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1617G>A	p.%3D	p.T539T	ENST00000366769	12/36	21	18	3	17	17	0	CDC42BPA,synonymous_variant,p.%3D,ENST00000366769,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366765,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366764,;CDC42BPA,synonymous_variant,p.%3D,ENST00000334218,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366767,;CDC42BPA,synonymous_variant,p.%3D,ENST00000535525,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366766,;	T	ENSG00000143776	ENST00000366769	Transcript	synonymous_variant	2909	1617	539	T	acG/acA	rs371811786,COSM1295944,COSM1295943,COSM1295942	.	.	-1	CDC42BPA	HGNC	1737	protein_coding	YES	CCDS1558.1	ENSP00000355731	MRCKA_HUMAN	Q9NYF6_HUMAN	UPI000019097D	.	.	.	12/36	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF31	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0.0002	T:0	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTAACGTTTT	byCluster|by1000G	2	BLCA
TRIM11	0	.	GRCh37	1	228594276	228594276	+	5'UTR	SNP	G	G	A	rs767877309	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14C>T	.	.	ENST00000284551	1/6	40	14	26	43	43	0	TRIM11,5_prime_UTR_variant,,ENST00000284551,;TRIM11,5_prime_UTR_variant,,ENST00000366699,;TRIM11,upstream_gene_variant,,ENST00000602308,;TRIM17,downstream_gene_variant,,ENST00000366697,;TRIM11,upstream_gene_variant,,ENST00000602582,;TRIM17,downstream_gene_variant,,ENST00000456946,;TRIM17,downstream_gene_variant,,ENST00000295033,;TRIM17,downstream_gene_variant,,ENST00000366698,;TRIM11,upstream_gene_variant,,ENST00000493030,;TRIM17,downstream_gene_variant,,ENST00000479800,;RP11-245P10.4,upstream_gene_variant,,ENST00000436779,;TRIM11,upstream_gene_variant,,ENST00000460651,;	A	ENSG00000154370	ENST00000284551	Transcript	5_prime_UTR_variant	266	.	.	.	.	rs767877309	.	.	-1	TRIM11	HGNC	16281	protein_coding	YES	CCDS31048.1	ENSP00000284551	TRI11_HUMAN	.	UPI000005340A	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAGGGGAGG	byFrequency	5	BLCA
LYST	0	.	GRCh37	1	235907429	235907429	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8001G>C	p.Leu2667Phe	p.L2667F	ENST00000389794	30/53	78	71	7	45	45	0	LYST,missense_variant,p.Leu2667Phe,ENST00000389793,;LYST,missense_variant,p.Leu2667Phe,ENST00000389794,;LYST,downstream_gene_variant,,ENST00000487530,;LYST,upstream_gene_variant,,ENST00000461526,;	G	ENSG00000143669	ENST00000389794	Transcript	missense_variant	8176	8001	2667	L/F	ttG/ttC	COSM1296021	.	.	-1	LYST	HGNC	1968	protein_coding	YES	CCDS31062.1	ENSP00000374444	LYST_HUMAN	.	UPI000020509E	.	tolerated(0.06)	probably_damaging(0.996)	30/53	.	hmmpanther:PTHR13743,hmmpanther:PTHR13743:SF60	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTCTCAAAAT	.	2	BLCA
TMEM57	0	.	GRCh37	1	25810749	25810749	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1297G>A	p.Glu433Lys	p.E433K	ENST00000374343	7/11	56	49	7	84	84	0	TMEM57,missense_variant,p.Glu75Lys,ENST00000399763,;TMEM57,missense_variant,p.Glu206Lys,ENST00000399766,;TMEM57,missense_variant,p.Glu433Lys,ENST00000374343,;	A	ENSG00000204178	ENST00000374343	Transcript	missense_variant	1476	1297	433	E/K	Gag/Aag	COSM1296199	.	.	1	TMEM57	HGNC	25572	protein_coding	YES	CCDS30638.1	ENSP00000363463	MACOI_HUMAN	Q9H5V1_HUMAN	UPI000004A074	.	deleterious(0.01)	probably_damaging(0.999)	7/11	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13289:SF4,hmmpanther:PTHR13289,Pfam_domain:PF09726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAACGAGCTG	.	4	BLCA
MANEAL	0	.	GRCh37	1	38265863	38265863	+	Missense_Mutation	SNP	G	G	T	rs747213969	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1362G>T	p.Gln454His	p.Q454H	ENST00000373045	4/4	146	130	16	56	56	0	MANEAL,missense_variant,p.Gln454His,ENST00000373045,;MANEAL,missense_variant,p.Gln260His,ENST00000525897,;MANEAL,missense_variant,p.Gln232His,ENST00000329006,;MANEAL,3_prime_UTR_variant,,ENST00000397631,;MANEAL,3_prime_UTR_variant,,ENST00000532512,;YRDC,downstream_gene_variant,,ENST00000373044,;RP11-109P14.9,intron_variant,,ENST00000433474,;	T	ENSG00000185090	ENST00000373045	Transcript	missense_variant	1743	1362	454	Q/H	caG/caT	rs747213969,COSM1296382,COSM1296381	.	.	1	MANEAL	HGNC	26452	protein_coding	YES	CCDS44110.1	ENSP00000362136	MANEL_HUMAN	E9PMU5_HUMAN	UPI0000203F8E	.	tolerated(0.07)	possibly_damaging(0.773)	4/4	.	hmmpanther:PTHR13572,hmmpanther:PTHR13572:SF2	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCAGTGGCT	.	4	BLCA
INPP5B	0	.	GRCh37	1	38332195	38332195	+	Silent	SNP	T	T	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2322A>T	p.%3D	p.P774P	ENST00000373024	21/24	150	133	17	65	65	0	INPP5B,synonymous_variant,p.%3D,ENST00000373026,;INPP5B,synonymous_variant,p.%3D,ENST00000373027,;INPP5B,synonymous_variant,p.%3D,ENST00000373023,;INPP5B,synonymous_variant,p.%3D,ENST00000373024,;RP11-109P14.10,downstream_gene_variant,,ENST00000419993,;INPP5B,non_coding_transcript_exon_variant,,ENST00000470364,;INPP5B,upstream_gene_variant,,ENST00000487328,;INPP5B,downstream_gene_variant,,ENST00000474758,;	A	ENSG00000204084	ENST00000373024	Transcript	synonymous_variant	2410	2322	774	P	ccA/ccT	COSM1296384	.	.	-1	INPP5B	HGNC	6077	protein_coding	YES	CCDS41306.1	ENSP00000362115	I5P2_HUMAN	.	UPI0000458AD7	.	.	.	21/24	.	PROSITE_profiles:PS50238,hmmpanther:PTHR11200:SF30,hmmpanther:PTHR11200,Gene3D:1.10.555.10,Pfam_domain:PF00620,SMART_domains:SM00324,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCCTGGTTG	.	4	BLCA
TCTEX1D4	0	.	GRCh37	1	45271785	45271785	+	Missense_Mutation	SNP	C	C	T	rs762079372	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Val186Met	p.V186M	ENST00000372200	2/2	32	27	5	14	14	0	TCTEX1D4,missense_variant,p.Val186Met,ENST00000372200,;TCTEX1D4,missense_variant,p.Val186Met,ENST00000339355,;BTBD19,upstream_gene_variant,,ENST00000450269,;BTBD19,upstream_gene_variant,,ENST00000409335,;BTBD19,upstream_gene_variant,,ENST00000453418,;PLK3,downstream_gene_variant,,ENST00000372201,;PLK3,downstream_gene_variant,,ENST00000476731,;PLK3,downstream_gene_variant,,ENST00000493100,;PLK3,downstream_gene_variant,,ENST00000492398,;PLK3,downstream_gene_variant,,ENST00000465443,;PLK3,downstream_gene_variant,,ENST00000461769,;PLK3,downstream_gene_variant,,ENST00000461358,;BTBD19,upstream_gene_variant,,ENST00000485668,;BTBD19,upstream_gene_variant,,ENST00000439563,;BTBD19,upstream_gene_variant,,ENST00000482715,;BTBD19,upstream_gene_variant,,ENST00000475105,;	T	ENSG00000188396	ENST00000372200	Transcript	missense_variant	1065	556	186	V/M	Gtg/Atg	rs762079372,COSM1296490	.	.	-1	TCTEX1D4	HGNC	32315	protein_coding	YES	CCDS30699.1	ENSP00000361274	TC1D4_HUMAN	.	UPI0000199BA2	.	tolerated(0.18)	probably_damaging(0.986)	2/2	.	Pfam_domain:PF03645,hmmpanther:PTHR21255,hmmpanther:PTHR21255:SF18	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACCACGTGAA	byFrequency	2	BLCA
UROD	0	.	GRCh37	1	45480045	45480045	+	Intron	SNP	A	A	G	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.637-66A>G	.	.	ENST00000246337	.	169	148	21	86	86	0	UROD,intron_variant,,ENST00000428106,;UROD,intron_variant,,ENST00000434478,;UROD,intron_variant,,ENST00000246337,;HECTD3,upstream_gene_variant,,ENST00000372172,;ZSWIM5,downstream_gene_variant,,ENST00000359600,;UROD,non_coding_transcript_exon_variant,,ENST00000472254,;UROD,non_coding_transcript_exon_variant,,ENST00000494399,;UROD,intron_variant,,ENST00000462688,;UROD,intron_variant,,ENST00000469548,;UROD,intron_variant,,ENST00000478467,;UROD,intron_variant,,ENST00000486699,;UROD,intron_variant,,ENST00000491300,;UROD,downstream_gene_variant,,ENST00000491773,;UROD,upstream_gene_variant,,ENST00000466193,;UROD,upstream_gene_variant,,ENST00000465678,;UROD,downstream_gene_variant,,ENST00000463092,;UROD,downstream_gene_variant,,ENST00000490385,;UROD,downstream_gene_variant,,ENST00000460334,;UROD,downstream_gene_variant,,ENST00000496439,;UROD,downstream_gene_variant,,ENST00000473012,;UROD,downstream_gene_variant,,ENST00000460906,;UROD,downstream_gene_variant,,ENST00000461035,;	G	ENSG00000126088	ENST00000246337	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	UROD	HGNC	12591	protein_coding	YES	CCDS518.1	ENSP00000246337	DCUP_HUMAN	Q71UD5_HUMAN,Q71UD4_HUMAN	UPI0000112E85	.	.	.	.	6/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTGGATTTTG	.	4	BLCA
FOXE3	0	.	GRCh37	1	47882237	47882237	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250C>G	p.Leu84Val	p.L84V	ENST00000335071	1/1	31	22	9	20	20	0	FOXE3,missense_variant,p.Leu84Val,ENST00000335071,;	G	ENSG00000186790	ENST00000335071	Transcript	missense_variant	494	250	84	L/V	Ctg/Gtg	COSM1296534	.	.	1	FOXE3	HGNC	3808	protein_coding	YES	CCDS550.1	ENSP00000334472	FOXE3_HUMAN	.	UPI000012ADD3	.	deleterious(0.01)	possibly_damaging(0.556)	1/1	.	Prints_domain:PR00053,Superfamily_domains:SSF46785,SMART_domains:SM00339,Gene3D:1.10.10.10,Pfam_domain:PF00250,PROSITE_patterns:PS00657,hmmpanther:PTHR11829:SF120,hmmpanther:PTHR11829,PROSITE_profiles:PS50039	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTGGCG	.	5	BLCA
ROR1	0	.	GRCh37	1	64605962	64605962	+	Nonsense_Mutation	SNP	C	C	T	rs182196435	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.781C>T	p.Gln261Ter	p.Q261*	ENST00000371079	6/9	185	87	98	144	144	0	ROR1,stop_gained,p.Gln261Ter,ENST00000371080,;ROR1,stop_gained,p.Gln261Ter,ENST00000371079,;ROR1,5_prime_UTR_variant,,ENST00000545203,;RP11-24J23.2,intron_variant,,ENST00000424995,;ROR1,non_coding_transcript_exon_variant,,ENST00000482426,;	T	ENSG00000185483	ENST00000371079	Transcript	stop_gained	1156	781	261	Q/*	Caa/Taa	rs182196435,COSM1296637	.	.	1	ROR1	HGNC	10256	protein_coding	YES	CCDS626.1	ENSP00000360120	ROR1_HUMAN	.	UPI00001AF82C	.	.	.	6/9	.	PROSITE_profiles:PS50038,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF132,Pfam_domain:PF01392,Gene3D:2.40.20.10,PIRSF_domain:PIRSF000624	G:0.0002	G:0	G:0	.	G:0.001	G:0	G:0	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGTCAAACA	byCluster|by1000G	5	BLCA
KLHL17	0	.	GRCh37	1	897016	897016	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375G>A	p.Met125Ile	p.M125I	ENST00000338591	3/12	21	5	16	17	17	0	KLHL17,missense_variant,p.Met125Ile,ENST00000338591,;NOC2L,upstream_gene_variant,,ENST00000327044,;PLEKHN1,upstream_gene_variant,,ENST00000379409,;PLEKHN1,upstream_gene_variant,,ENST00000379407,;PLEKHN1,upstream_gene_variant,,ENST00000379410,;NOC2L,upstream_gene_variant,,ENST00000487214,;KLHL17,non_coding_transcript_exon_variant,,ENST00000463212,;KLHL17,upstream_gene_variant,,ENST00000466300,;NOC2L,upstream_gene_variant,,ENST00000469563,;NOC2L,upstream_gene_variant,,ENST00000477976,;KLHL17,upstream_gene_variant,,ENST00000481067,;	A	ENSG00000187961	ENST00000338591	Transcript	missense_variant	482	375	125	M/I	atG/atA	COSM1296771	.	.	1	KLHL17	HGNC	24023	protein_coding	YES	CCDS30550.1	ENSP00000343930	KLH17_HUMAN	Q0VGE6_HUMAN,B3KXL7_HUMAN	UPI00001DFBF0	.	deleterious(0.01)	possibly_damaging(0.519)	3/12	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF168,Pfam_domain:PF00651,Gene3D:3.30.710.10,SMART_domains:SM00225,PIRSF_domain:PIRSF037037,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATGAGCGA	.	5	BLCA
MTF2	0	.	GRCh37	1	93602319	93602319	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1517G>C	p.Arg506Thr	p.R506T	ENST00000370298	15/15	97	60	36	72	72	0	MTF2,missense_variant,p.Arg449Thr,ENST00000370303,;MTF2,missense_variant,p.Arg404Thr,ENST00000540243,;MTF2,missense_variant,p.Arg404Thr,ENST00000545708,;MTF2,missense_variant,p.Arg506Thr,ENST00000370298,;MTF2,non_coding_transcript_exon_variant,,ENST00000467953,;MTF2,non_coding_transcript_exon_variant,,ENST00000471953,;MTF2,non_coding_transcript_exon_variant,,ENST00000489480,;MTF2,non_coding_transcript_exon_variant,,ENST00000476037,;MTF2,downstream_gene_variant,,ENST00000497976,;MTF2,downstream_gene_variant,,ENST00000487263,;	C	ENSG00000143033	ENST00000370298	Transcript	missense_variant	1806	1517	506	R/T	aGa/aCa	COSM1296801	.	.	1	MTF2	HGNC	29535	protein_coding	YES	CCDS742.1	ENSP00000359321	MTF2_HUMAN	.	UPI0000205B55	.	tolerated(0.13)	benign(0.112)	15/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12628:SF12,hmmpanther:PTHR12628	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAGCAC	.	5	BLCA
SERINC3	0	.	GRCh37	20	43139962	43139962	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>G	p.Ser148Cys	p.S148C	ENST00000342374	4/10	50	26	23	64	64	0	SERINC3,missense_variant,p.Ser93Cys,ENST00000541235,;SERINC3,missense_variant,p.Ser148Cys,ENST00000255175,;SERINC3,missense_variant,p.Ser148Cys,ENST00000342374,;SERINC3,downstream_gene_variant,,ENST00000468234,;	C	ENSG00000132824	ENST00000342374	Transcript	missense_variant	601	443	148	S/C	tCt/tGt	COSM1307434	.	.	-1	SERINC3	HGNC	11699	protein_coding	YES	CCDS13333.1	ENSP00000340243	SERC3_HUMAN	Q5H936_HUMAN,B4DUE9_HUMAN	UPI0000136B4D	.	deleterious(0)	probably_damaging(0.971)	4/10	.	Transmembrane_helices:TMhelix,Pfam_domain:PF03348,hmmpanther:PTHR10383,hmmpanther:PTHR10383:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAGAGCCA	.	5	BLCA
ZNF334	0	.	GRCh37	20	45132865	45132865	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229C>G	p.Gln77Glu	p.Q77E	ENST00000347606	4/5	47	28	18	40	40	0	ZNF334,missense_variant,p.Gln100Glu,ENST00000593880,;ZNF334,missense_variant,p.Gln39Glu,ENST00000596323,;ZNF334,missense_variant,p.Gln77Glu,ENST00000347606,;ZNF334,missense_variant,p.Gln39Glu,ENST00000457685,;	C	ENSG00000198185	ENST00000347606	Transcript	missense_variant	412	229	77	Q/E	Cag/Gag	COSM1307476	.	.	-1	ZNF334	HGNC	15806	protein_coding	YES	CCDS33480.1	ENSP00000255129	ZN334_HUMAN	M0R3E1_HUMAN	UPI000004A0FE	.	deleterious(0.04)	benign(0.001)	4/5	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF116	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTGATTTG	.	5	BLCA
FAM209B	0	.	GRCh37	20	55108402	55108402	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5G>T	p.Trp2Leu	p.W2L	ENST00000371325	1/2	182	128	53	212	212	0	FAM209B,missense_variant,p.Trp2Leu,ENST00000371325,;	T	ENSG00000213714	ENST00000371325	Transcript	missense_variant	101	5	2	W/L	tGg/tTg	.	.	.	1	FAM209B	HGNC	16101	protein_coding	YES	CCDS33494.1	ENSP00000360376	F209B_HUMAN	.	UPI00001D82E0	.	tolerated(0.63)	possibly_damaging(0.803)	1/2	.	Cleavage_site_(Signalp):SignalP-TM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTGGACGC	.	5	BLCA
NCAM2	0	.	GRCh37	21	22881192	22881192	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2098G>T	p.Gly700Trp	p.G700W	ENST00000400546	16/18	33	23	9	49	49	0	NCAM2,missense_variant,p.Gly700Trp,ENST00000400546,;NCAM2,missense_variant,p.Gly558Trp,ENST00000284894,;	T	ENSG00000154654	ENST00000400546	Transcript	missense_variant	2347	2098	700	G/W	Ggg/Tgg	.	.	.	1	NCAM2	HGNC	7657	protein_coding	YES	CCDS42910.1	ENSP00000383392	NCAM2_HUMAN	D3DSC5_HUMAN	UPI00001A3703	.	deleterious(0)	probably_damaging(0.995)	16/18	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10489:SF35,hmmpanther:PTHR10489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTGGGCTT	.	5	BLCA
SPECC1L	0	.	GRCh37	22	24720319	24720319	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2070C>G	p.Ile690Met	p.I690M	ENST00000314328	6/17	50	30	19	43	43	0	SPECC1L,missense_variant,p.Ile690Met,ENST00000541492,;SPECC1L,missense_variant,p.Ile690Met,ENST00000314328,;SPECC1L,missense_variant,p.Ile690Met,ENST00000421374,;SPECC1L,missense_variant,p.Ile690Met,ENST00000437398,;SPECC1L,downstream_gene_variant,,ENST00000440893,;SPECC1L,downstream_gene_variant,,ENST00000416735,;SPECC1L-ADORA2A,missense_variant,p.Ile690Met,ENST00000358654,;	G	ENSG00000100014	ENST00000314328	Transcript	missense_variant	2355	2070	690	I/M	atC/atG	COSM1308011	.	.	1	SPECC1L	HGNC	29022	protein_coding	YES	CCDS33619.1	ENSP00000325785	CYTSA_HUMAN	C9JLY8_HUMAN,C9J8U1_HUMAN	UPI00001B64E9	.	deleterious(0)	probably_damaging(0.927)	6/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23167:SF18,hmmpanther:PTHR23167	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCTTTGA	.	5	BLCA
NOL12	0	.	GRCh37	22	38084997	38084997	+	Missense_Mutation	SNP	G	G	A	rs756287059	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379G>A	p.Glu127Lys	p.E127K	ENST00000359114	4/6	106	75	30	102	102	0	NOL12,missense_variant,p.Glu127Lys,ENST00000359114,;NOL12,splice_region_variant,,ENST00000493862,;NOL12,missense_variant,p.Glu120Lys,ENST00000455236,;NOL12,missense_variant,p.Glu127Lys,ENST00000438329,;NOL12,splice_region_variant,,ENST00000484650,;NOL12,splice_region_variant,,ENST00000468597,;NOL12,downstream_gene_variant,,ENST00000474032,;	A	ENSG00000100101	ENST00000359114	Transcript	missense_variant	449	379	127	E/K	Gag/Aag	rs756287059,COSM1308150	.	.	1	NOL12	HGNC	28585	protein_coding	YES	CCDS13955.1	ENSP00000352021	NOL12_HUMAN	B4DGP7_HUMAN	UPI0000073B12	.	tolerated(0.6)	benign(0.044)	4/6	.	hmmpanther:PTHR14577:SF0,hmmpanther:PTHR14577	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAGGTG	.	5	BLCA
ATF4	0	.	GRCh37	22	39918553	39918553	+	Silent	SNP	G	G	A	rs777087053	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1002G>A	p.%3D	p.L334L	ENST00000337304	2/2	24	21	3	22	22	0	ATF4,synonymous_variant,p.%3D,ENST00000396680,;ATF4,synonymous_variant,p.%3D,ENST00000337304,;ATF4,synonymous_variant,p.%3D,ENST00000404241,;MIEF1,downstream_gene_variant,,ENST00000325301,;	A	ENSG00000128272	ENST00000337304	Transcript	synonymous_variant	1884	1002	334	L	ctG/ctA	rs777087053,COSM1308178	.	.	1	ATF4	HGNC	786	protein_coding	YES	CCDS13996.1	ENSP00000336790	ATF4_HUMAN	Q96AQ3_HUMAN,B4DJD4_HUMAN	UPI000000DABF	.	.	.	2/2	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF57959,SMART_domains:SM00338,Gene3D:1.20.5.170,Pfam_domain:PF00170,hmmpanther:PTHR13044:SF2,hmmpanther:PTHR13044,PROSITE_profiles:PS50217	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCTGAAAGA	.	2	BLCA
MPPED1	0	.	GRCh37	22	43831096	43831096	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>T	p.Gly123Trp	p.G123W	ENST00000417669	3/7	51	35	16	42	42	0	MPPED1,missense_variant,p.Gly123Trp,ENST00000542779,;MPPED1,missense_variant,p.Gly123Trp,ENST00000443721,;MPPED1,missense_variant,p.Gly156Trp,ENST00000538182,;MPPED1,missense_variant,p.Gly123Trp,ENST00000417669,;MPPED1,missense_variant,p.Gly17Trp,ENST00000414469,;MPPED1,intron_variant,,ENST00000439548,;MPPED1,downstream_gene_variant,,ENST00000334209,;	T	ENSG00000186732	ENST00000417669	Transcript	missense_variant	811	367	123	G/W	Ggg/Tgg	COSM1308242	.	.	1	MPPED1	HGNC	1306	protein_coding	YES	CCDS46723.1	ENSP00000388137	MPPD1_HUMAN	Q20WK9_HUMAN,F5H6C9_HUMAN,B4DS06_HUMAN,B1AH63_HUMAN,B1AH62_HUMAN	UPI000006DF41	.	deleterious(0)	probably_damaging(1)	3/7	.	hmmpanther:PTHR12905,hmmpanther:PTHR12905:SF9,Gene3D:3.60.21.10,Pfam_domain:PF00149,PIRSF_domain:PIRSF035808,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCTGGGGCTC	.	3	BLCA
MOV10L1	0	.	GRCh37	22	50553619	50553620	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1209dupG	p.Leu404AlafsTer15	p.L404Afs*15	ENST00000262794	8/27	235	156	79	174	174	0	MOV10L1,frameshift_variant,p.Leu384AlafsTer15,ENST00000540615,;MOV10L1,frameshift_variant,p.Leu404AlafsTer15,ENST00000545383,;MOV10L1,frameshift_variant,p.Leu404AlafsTer15,ENST00000262794,;MOV10L1,frameshift_variant,p.Leu404AlafsTer15,ENST00000395858,;MOV10L1,5_prime_UTR_variant,,ENST00000395843,;MOV10L1,frameshift_variant,p.Leu84AlafsTer15,ENST00000434497,;	G	ENSG00000073146	ENST00000262794	Transcript	frameshift_variant	1286-1287	1203-1204	401-402	-/X	-/G	.	.	.	1	MOV10L1	HGNC	7201	protein_coding	YES	CCDS14084.1	ENSP00000262794	M10L1_HUMAN	.	UPI00000421FB	.	.	.	8/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAGCCTGGGGG	.	3	BLCA
SCN1A	0	.	GRCh37	2	166908238	166908238	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.955C>G	p.Gln319Glu	p.Q319E	ENST00000303395	6/26	27	21	5	19	19	0	SCN1A,missense_variant,p.Gln319Glu,ENST00000409050,;SCN1A,missense_variant,p.Gln319Glu,ENST00000423058,;SCN1A,missense_variant,p.Gln319Glu,ENST00000303395,;SCN1A,missense_variant,p.Gln319Glu,ENST00000375405,;AC010127.3,intron_variant,,ENST00000595647,;AC010127.3,intron_variant,,ENST00000599041,;AC010127.3,intron_variant,,ENST00000595268,;	C	ENSG00000144285	ENST00000303395	Transcript	missense_variant	955	955	319	Q/E	Caa/Gaa	COSM1305808,COSM1305807	.	.	-1	SCN1A	HGNC	10585	protein_coding	YES	CCDS54413.1	ENSP00000303540	SCN1A_HUMAN	F8T7W7_HUMAN	UPI000003C71D	.	tolerated(0.91)	benign(0)	6/26	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF133,Pfam_domain:PF00520,Prints_domain:PR01664	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGAATAT	.	5	BLCA
AGPS	0	.	GRCh37	2	178362475	178362475	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1344A>G	p.%3D	p.K448K	ENST00000264167	13/20	14	5	9	11	11	0	AGPS,synonymous_variant,p.%3D,ENST00000264167,;AGPS,intron_variant,,ENST00000409888,;	G	ENSG00000018510	ENST00000264167	Transcript	synonymous_variant	1490	1344	448	K	aaA/aaG	COSM1305877	.	.	1	AGPS	HGNC	327	protein_coding	YES	CCDS2275.1	ENSP00000264167	ADAS_HUMAN	Q53SN7_HUMAN,Q53SG6_HUMAN,Q53S12_HUMAN,B7Z3Q4_HUMAN	UPI00001254E8	.	.	.	13/20	.	hmmpanther:PTHR11748,hmmpanther:PTHR11748:SF3,Pfam_domain:PF02913	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	TTAAAAAAGTT	.	4	BLCA
GEN1	0	.	GRCh37	2	17941319	17941319	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109G>A	p.Glu37Lys	p.E37K	ENST00000381254	2/14	101	90	11	75	75	0	GEN1,missense_variant,p.Glu37Lys,ENST00000524465,;GEN1,missense_variant,p.Glu37Lys,ENST00000381254,;GEN1,missense_variant,p.Glu37Lys,ENST00000532257,;GEN1,missense_variant,p.Glu37Lys,ENST00000317402,;SMC6,intron_variant,,ENST00000428868,;SMC6,intron_variant,,ENST00000402989,;GEN1,upstream_gene_variant,,ENST00000534669,;	A	ENSG00000178295	ENST00000381254	Transcript	missense_variant	323	109	37	E/K	Gag/Aag	COSM1305959	.	.	1	GEN1	HGNC	26881	protein_coding	YES	CCDS1691.1	ENSP00000370653	GEN_HUMAN	E9PM30_HUMAN,E9PLG0_HUMAN	UPI00004113DA	.	deleterious(0)	probably_damaging(1)	2/14	.	hmmpanther:PTHR11081,hmmpanther:PTHR11081:SF23,Pfam_domain:PF00752,Gene3D:3.40.50.1010,SMART_domains:SM00485,Superfamily_domains:SSF88723,Prints_domain:PR00853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGTGAGGCA	.	4	BLCA
NCKAP1	0	.	GRCh37	2	183868005	183868005	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286C>G	p.Leu96Val	p.L96V	ENST00000360982	4/32	43	35	7	40	40	0	NCKAP1,missense_variant,p.Leu96Val,ENST00000360982,;NCKAP1,missense_variant,p.Leu90Val,ENST00000361354,;	C	ENSG00000061676	ENST00000360982	Transcript	missense_variant	1045	286	96	L/V	Ctg/Gtg	COSM1306209	.	.	-1	NCKAP1	HGNC	7666	protein_coding	YES	CCDS2288.1	ENSP00000354251	NCKP1_HUMAN	.	UPI00001693F2	.	deleterious(0.01)	benign(0.172)	4/32	.	Pfam_domain:PF09735,hmmpanther:PTHR12093,hmmpanther:PTHR12093:SF11,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCAGATTTT	.	5	BLCA
STK36	0	.	GRCh37	2	219549924	219549924	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1353G>C	p.Gln451His	p.Q451H	ENST00000295709	11/27	67	48	19	101	101	0	STK36,missense_variant,p.Gln451His,ENST00000392105,;STK36,missense_variant,p.Gln451His,ENST00000440309,;STK36,missense_variant,p.Gln451His,ENST00000295709,;STK36,missense_variant,p.Gln451His,ENST00000392106,;STK36,missense_variant,p.Gln83His,ENST00000414413,;STK36,missense_variant,p.Gln43His,ENST00000422778,;STK36,non_coding_transcript_exon_variant,,ENST00000470568,;STK36,upstream_gene_variant,,ENST00000480709,;	C	ENSG00000163482	ENST00000295709	Transcript	missense_variant	1632	1353	451	Q/H	caG/caC	COSM1306432	.	.	1	STK36	HGNC	17209	protein_coding	YES	CCDS2421.1	ENSP00000295709	STK36_HUMAN	C9JDA4_HUMAN,C9J1B8_HUMAN	UPI00000342FC	.	deleterious(0.05)	possibly_damaging(0.885)	11/27	.	hmmpanther:PTHR22983:SF6,hmmpanther:PTHR22983	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAGTCA	.	5	BLCA
CHRNG	0	.	GRCh37	2	233409214	233409214	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1173C>G	p.%3D	p.L391L	ENST00000389494	10/12	85	26	59	128	128	0	CHRNG,synonymous_variant,p.%3D,ENST00000389494,;CHRNG,synonymous_variant,p.%3D,ENST00000389492,;TIGD1,downstream_gene_variant,,ENST00000408957,;CHRNG,downstream_gene_variant,,ENST00000485094,;	G	ENSG00000196811	ENST00000389494	Transcript	synonymous_variant	1194	1173	391	L	ctC/ctG	COSM720233	.	.	1	CHRNG	HGNC	1967	protein_coding	YES	CCDS33400.1	ENSP00000374145	ACHG_HUMAN	.	UPI000022BE9E	.	.	.	10/12	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF60,Pfam_domain:PF02932,Superfamily_domains:SSF90112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCTGCCT	.	5	BLCA
PREPL	0	.	GRCh37	2	44548554	44548554	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2125G>C	p.Glu709Gln	p.E709Q	ENST00000409936	15/15	41	14	26	56	56	0	PREPL,missense_variant,p.Glu620Gln,ENST00000409957,;PREPL,missense_variant,p.Glu709Gln,ENST00000260648,;PREPL,missense_variant,p.Glu620Gln,ENST00000541738,;PREPL,missense_variant,p.Glu709Gln,ENST00000410081,;PREPL,missense_variant,p.Glu647Gln,ENST00000378511,;PREPL,missense_variant,p.Glu643Gln,ENST00000378520,;PREPL,missense_variant,p.Glu709Gln,ENST00000409936,;PREPL,missense_variant,p.Glu620Gln,ENST00000409411,;PREPL,missense_variant,p.Glu709Gln,ENST00000409272,;SLC3A1,3_prime_UTR_variant,,ENST00000260649,;PREPL,intron_variant,,ENST00000444696,;SLC3A1,downstream_gene_variant,,ENST00000409380,;SLC3A1,downstream_gene_variant,,ENST00000409387,;SLC3A1,downstream_gene_variant,,ENST00000409740,;PREPL,downstream_gene_variant,,ENST00000420756,;PREPL,missense_variant,p.Glu709Gln,ENST00000426481,;PREPL,missense_variant,p.Glu709Gln,ENST00000425263,;	G	ENSG00000138078	ENST00000409936	Transcript	missense_variant	2563	2125	709	E/Q	Gaa/Caa	COSM1690538,COSM1306820	.	.	-1	PREPL	HGNC	30228	protein_coding	YES	CCDS33190.1	ENSP00000386543	PPCEL_HUMAN	C9JMT4_HUMAN	UPI0000208358	.	deleterious(0.01)	probably_damaging(0.998)	15/15	.	hmmpanther:PTHR11757,hmmpanther:PTHR11757:SF3,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCCTCGT	.	5	BLCA
OTX1	0	.	GRCh37	2	63283479	63283479	+	3'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28G>A	.	.	ENST00000282549	5/5	37	34	3	34	34	0	OTX1,3_prime_UTR_variant,,ENST00000282549,;OTX1,3_prime_UTR_variant,,ENST00000366671,;OTX1,3_prime_UTR_variant,,ENST00000405984,;OTX1,downstream_gene_variant,,ENST00000477348,;OTX1,downstream_gene_variant,,ENST00000476383,;OTX1,downstream_gene_variant,,ENST00000484066,;	A	ENSG00000115507	ENST00000282549	Transcript	3_prime_UTR_variant	1369	.	.	.	.	.	.	.	1	OTX1	HGNC	8521	protein_coding	YES	CCDS1873.1	ENSP00000282549	OTX1_HUMAN	Q9P2R2_HUMAN,B4DM62_HUMAN	UPI0000130F36	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAACGCAACT	.	2	BLCA
CIAO1	0	.	GRCh37	2	96933152	96933152	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233C>T	p.Ser78Phe	p.S78F	ENST00000488633	2/7	144	128	15	123	123	0	CIAO1,missense_variant,p.Ser78Phe,ENST00000488633,;TMEM127,upstream_gene_variant,,ENST00000258439,;TMEM127,upstream_gene_variant,,ENST00000432959,;CIAO1,non_coding_transcript_exon_variant,,ENST00000469320,;CIAO1,non_coding_transcript_exon_variant,,ENST00000491394,;CIAO1,intron_variant,,ENST00000272402,;	T	ENSG00000144021	ENST00000488633	Transcript	missense_variant	452	233	78	S/F	tCt/tTt	COSM1307107	.	.	1	CIAO1	HGNC	14280	protein_coding	YES	CCDS2019.1	ENSP00000418287	CIAO1_HUMAN	.	UPI0000127987	.	deleterious(0)	probably_damaging(0.999)	2/7	.	HAMAP:MF_03037,PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR19920,hmmpanther:PTHR19920:SF0,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTGCCA	.	4	BLCA
PHLDB2	0	.	GRCh37	3	111685499	111685499	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3117G>C	p.Glu1039Asp	p.E1039D	ENST00000431670	14/18	101	46	55	111	111	0	PHLDB2,missense_variant,p.Glu1023Asp,ENST00000393923,;PHLDB2,missense_variant,p.Glu996Asp,ENST00000412622,;PHLDB2,missense_variant,p.Glu996Asp,ENST00000481953,;PHLDB2,missense_variant,p.Glu996Asp,ENST00000498699,;PHLDB2,missense_variant,p.Glu530Asp,ENST00000495180,;PHLDB2,missense_variant,p.Glu1039Asp,ENST00000431670,;PHLDB2,missense_variant,p.Glu1039Asp,ENST00000393925,;PHLDB2,non_coding_transcript_exon_variant,,ENST00000470699,;PHLDB2,non_coding_transcript_exon_variant,,ENST00000478584,;PHLDB2,non_coding_transcript_exon_variant,,ENST00000486886,;	C	ENSG00000144824	ENST00000431670	Transcript	missense_variant	3528	3117	1039	E/D	gaG/gaC	COSM1308385,COSM1308384,COSM1308383	.	.	1	PHLDB2	HGNC	29573	protein_coding	YES	CCDS46886.1	ENSP00000405405	PHLB2_HUMAN	Q8NEI7_HUMAN,Q659D2_HUMAN	UPI0000457152	.	deleterious(0)	probably_damaging(0.999)	14/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12156:SF17,hmmpanther:PTHR12156	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGAGAGACT	.	5	BLCA
C3orf17	0	.	GRCh37	3	112724558	112724558	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1529G>C	p.Gly510Ala	p.G510A	ENST00000314400	9/9	112	89	22	133	133	0	C3orf17,missense_variant,p.Gly374Ala,ENST00000393857,;C3orf17,missense_variant,p.Gly510Ala,ENST00000314400,;C3orf17,missense_variant,p.Gly440Ala,ENST00000383675,;GTPBP8,downstream_gene_variant,,ENST00000383678,;GTPBP8,downstream_gene_variant,,ENST00000467752,;GTPBP8,downstream_gene_variant,,ENST00000383677,;GTPBP8,downstream_gene_variant,,ENST00000473129,;C3orf17,downstream_gene_variant,,ENST00000472762,;C3orf17,3_prime_UTR_variant,,ENST00000462295,;C3orf17,3_prime_UTR_variant,,ENST00000469809,;C3orf17,3_prime_UTR_variant,,ENST00000472637,;C3orf17,3_prime_UTR_variant,,ENST00000472705,;C3orf17,3_prime_UTR_variant,,ENST00000469169,;C3orf17,3_prime_UTR_variant,,ENST00000489848,;C3orf17,3_prime_UTR_variant,,ENST00000473284,;C3orf17,non_coding_transcript_exon_variant,,ENST00000486271,;C3orf17,non_coding_transcript_exon_variant,,ENST00000474311,;GTPBP8,intron_variant,,ENST00000485330,;C3orf17,downstream_gene_variant,,ENST00000461381,;C3orf17,downstream_gene_variant,,ENST00000496206,;C3orf17,downstream_gene_variant,,ENST00000464816,;GTPBP8,downstream_gene_variant,,ENST00000295864,;C3orf17,downstream_gene_variant,,ENST00000482229,;GTPBP8,downstream_gene_variant,,ENST00000488781,;	G	ENSG00000163608	ENST00000314400	Transcript	missense_variant	1721	1529	510	G/A	gGa/gCa	COSM1308398	.	.	-1	C3orf17	HGNC	24496	protein_coding	YES	CCDS33824.1	ENSP00000320251	CC017_HUMAN	C9J9E3_HUMAN,A8MVI8_HUMAN	UPI0000367197	.	tolerated(0.15)	benign(0.075)	9/9	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCCACTA	.	5	BLCA
ATP6V1A	0	.	GRCh37	3	113499971	113499971	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157G>C	p.Glu53Gln	p.E53Q	ENST00000273398	3/15	137	69	68	155	155	0	ATP6V1A,missense_variant,p.Glu53Gln,ENST00000273398,;ATP6V1A,missense_variant,p.Glu53Gln,ENST00000475322,;ATP6V1A,missense_variant,p.Glu20Gln,ENST00000496747,;ATP6V1A,missense_variant,p.Glu20Gln,ENST00000538620,;ATP6V1A,3_prime_UTR_variant,,ENST00000470455,;ATP6V1A,downstream_gene_variant,,ENST00000462855,;	C	ENSG00000114573	ENST00000273398	Transcript	missense_variant	265	157	53	E/Q	Gag/Cag	COSM1308417	.	.	1	ATP6V1A	HGNC	851	protein_coding	YES	CCDS2976.1	ENSP00000273398	VATA_HUMAN	C9JVW8_HUMAN,C9JA17_HUMAN,B7Z2V6_HUMAN,B7Z1R5_HUMAN	UPI000013809A	.	deleterious(0)	possibly_damaging(0.894)	3/15	.	HAMAP:MF_00309,hmmpanther:PTHR15184:SF7,hmmpanther:PTHR15184,TIGRFAM_domain:TIGR01042,Pfam_domain:PF02874,Superfamily_domains:SSF50615	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGAGAGATT	.	5	BLCA
PLA1A	0	.	GRCh37	3	119327641	119327641	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300G>C	p.Trp100Cys	p.W100C	ENST00000273371	3/11	170	129	40	169	169	0	PLA1A,missense_variant,p.Trp84Cys,ENST00000494440,;PLA1A,missense_variant,p.Trp100Cys,ENST00000273371,;PLA1A,missense_variant,p.Trp100Cys,ENST00000495992,;PLA1A,5_prime_UTR_variant,,ENST00000488919,;PLA1A,upstream_gene_variant,,ENST00000475963,;PLA1A,downstream_gene_variant,,ENST00000472126,;	C	ENSG00000144837	ENST00000273371	Transcript	missense_variant	372	300	100	W/C	tgG/tgC	COSM1308442	.	.	1	PLA1A	HGNC	17661	protein_coding	YES	CCDS2991.1	ENSP00000273371	PLA1A_HUMAN	.	UPI0000073F97	.	deleterious(0)	probably_damaging(1)	3/11	.	Superfamily_domains:SSF53474,PIRSF_domain:PIRSF000865,Gene3D:3.40.50.1820,Pfam_domain:PF00151,hmmpanther:PTHR11610,hmmpanther:PTHR11610:SF86	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGATTGA	.	5	BLCA
UMPS	0	.	GRCh37	3	124449224	124449224	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-95G>A	.	.	ENST00000232607	1/6	38	33	4	38	38	0	UMPS,5_prime_UTR_variant,,ENST00000232607,;UMPS,upstream_gene_variant,,ENST00000536109,;UMPS,upstream_gene_variant,,ENST00000538242,;KALRN,downstream_gene_variant,,ENST00000291478,;UMPS,upstream_gene_variant,,ENST00000413078,;MIR544B,upstream_gene_variant,,ENST00000582372,;RP11-71H17.7,downstream_gene_variant,,ENST00000568966,;UMPS,upstream_gene_variant,,ENST00000474588,;UMPS,upstream_gene_variant,,ENST00000462091,;UMPS,upstream_gene_variant,,ENST00000479719,;UMPS,upstream_gene_variant,,ENST00000497791,;UMPS,upstream_gene_variant,,ENST00000467167,;UMPS,upstream_gene_variant,,ENST00000460034,;RP11-71H17.1,downstream_gene_variant,,ENST00000475510,;	A	ENSG00000114491	ENST00000232607	Transcript	5_prime_UTR_variant	12	.	.	.	.	.	.	.	1	UMPS	HGNC	12563	protein_coding	YES	CCDS3029.1	ENSP00000232607	UMPS_HUMAN	B5LY64_HUMAN,A8K5J1_HUMAN	UPI0000001223	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACGAGGCAGGC	.	3	BLCA
CPA3	0	.	GRCh37	3	148601417	148601417	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.796G>A	p.Asp266Asn	p.D266N	ENST00000296046	9/11	84	80	4	109	109	0	CPA3,missense_variant,p.Asp266Asn,ENST00000296046,;RP11-680B3.2,intron_variant,,ENST00000488190,;CPA3,non_coding_transcript_exon_variant,,ENST00000477926,;	A	ENSG00000163751	ENST00000296046	Transcript	missense_variant	848	796	266	D/N	Gac/Aac	COSM1308702	.	.	1	CPA3	HGNC	2298	protein_coding	YES	CCDS3138.1	ENSP00000296046	CBPA3_HUMAN	.	UPI000013E2F4	.	tolerated(1)	benign(0)	9/11	.	hmmpanther:PTHR11705,hmmpanther:PTHR11705:SF65,Pfam_domain:PF00246,Gene3D:3.40.630.10,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAATGACCCA	.	2	BLCA
CAPN7	0	.	GRCh37	3	15283750	15283750	+	Silent	SNP	T	T	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1854T>G	p.%3D	p.V618V	ENST00000253693	16/21	62	54	8	34	34	0	CAPN7,synonymous_variant,p.%3D,ENST00000253693,;CAPN7,downstream_gene_variant,,ENST00000415565,;CAPN7,missense_variant,p.Phe92Cys,ENST00000443567,;CAPN7,upstream_gene_variant,,ENST00000472400,;CAPN7,upstream_gene_variant,,ENST00000463417,;	G	ENSG00000131375	ENST00000253693	Transcript	synonymous_variant	2107	1854	618	V	gtT/gtG	COSM1308733	.	.	1	CAPN7	HGNC	1484	protein_coding	YES	CCDS2624.1	ENSP00000253693	CAN7_HUMAN	.	UPI0000038A6D	.	.	.	16/21	.	Superfamily_domains:SSF49758,Gene3D:2.60.120.380,hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF22	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAGTTTATTA	.	4	BLCA
LRRC31	0	.	GRCh37	3	169558008	169558008	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1421G>T	p.Cys474Phe	p.C474F	ENST00000316428	9/9	91	78	13	107	107	0	LRRC31,missense_variant,p.Cys418Phe,ENST00000264676,;LRRC31,missense_variant,p.Cys474Phe,ENST00000316428,;LRRC31,3_prime_UTR_variant,,ENST00000523069,;LRRIQ4,downstream_gene_variant,,ENST00000340806,;	A	ENSG00000114248	ENST00000316428	Transcript	missense_variant	1479	1421	474	C/F	tGc/tTc	COSM1308805	.	.	-1	LRRC31	HGNC	26261	protein_coding	YES	CCDS43167.1	ENSP00000325978	LRC31_HUMAN	.	UPI00001D690F	.	tolerated(0.38)	benign(0.018)	9/9	.	hmmpanther:PTHR24109,Gene3D:3.80.10.10,SMART_domains:SM00368,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGGCAGAAC	.	5	BLCA
PIK3CA	0	.	GRCh37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1633G>A	p.Glu545Lys	p.E545K	ENST00000263967	10/21	55	45	10	51	51	0	PIK3CA,missense_variant,p.Glu545Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1790	1633	545	E/K	Gag/Aag	rs104886003,COSM763,COSM27133,COSM125370,COSM295672	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.02)	probably_damaging(0.959)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	0,1,1,1,1	21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E545K|c.1633G>A|227,SITE|p.E545K|c.1633G>A|1153,CODON|p.T544N|c.1631C>A|3,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542K|c.1624G>A|115,BUFFER|p.E542K|c.1624G>A|758,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4,BUFFER|p.Q546K|c.1636C>A|119,BUFFER|p.Q546E|c.1636C>G|15,BUFFER|p.Q546K|c.1636C>A|18,BUFFER|p.Q546R|c.1637A>G|20,BUFFER|p.Q546P|c.1637A>C|22,BUFFER|p.Q546P|c.1637A>C|7,BUFFER|p.Q546L|c.1637A>T|8,BUFFER|p.Q546R|c.1637A>G|41,BUFFER|p.Q546H|c.1638G>T|7,BUFFER|p.E547K|c.1639G>A|11,BUFFER|p.E547G|c.1640A>G|5,BUFFER|p.E547G|c.1640A>G|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAGCAG	byCluster	5	BLCA
USP13	0	.	GRCh37	3	179458119	179458119	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1339G>A	p.Asp447Asn	p.D447N	ENST00000263966	11/21	110	88	22	77	77	0	USP13,missense_variant,p.Asp447Asn,ENST00000263966,;USP13,missense_variant,p.Asp382Asn,ENST00000496897,;USP13,missense_variant,p.Asp93Asn,ENST00000497155,;USP13,non_coding_transcript_exon_variant,,ENST00000482333,;	A	ENSG00000058056	ENST00000263966	Transcript	missense_variant	1810	1339	447	D/N	Gat/Aat	COSM1308851	.	.	1	USP13	HGNC	12611	protein_coding	YES	CCDS3235.1	ENSP00000263966	UBP13_HUMAN	.	UPI000006DC10	.	deleterious(0)	probably_damaging(1)	11/21	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF426,Pfam_domain:PF00443,PIRSF_domain:PIRSF016308,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCAAGATGCC	.	5	BLCA
DNAJB11	0	.	GRCh37	3	186289895	186289895	+	Missense_Mutation	SNP	A	A	G	rs777074056	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80A>G	p.Tyr27Cys	p.Y27C	ENST00000439351	3/11	59	24	35	52	52	0	DNAJB11,missense_variant,p.Tyr27Cys,ENST00000265028,;DNAJB11,missense_variant,p.Tyr27Cys,ENST00000439351,;TBCCD1,upstream_gene_variant,,ENST00000338733,;TBCCD1,upstream_gene_variant,,ENST00000413695,;TBCCD1,upstream_gene_variant,,ENST00000446782,;TBCCD1,upstream_gene_variant,,ENST00000424280,;DNAJB11,non_coding_transcript_exon_variant,,ENST00000464877,;	G	ENSG00000090520	ENST00000439351	Transcript	missense_variant	1009	80	27	Y/C	tAt/tGt	rs777074056,COSM1308922	.	.	1	DNAJB11	HGNC	14889	protein_coding	YES	CCDS3277.1	ENSP00000414398	DJB11_HUMAN	B3KW63_HUMAN	UPI0000001BF7	.	deleterious(0)	probably_damaging(1)	3/11	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50076,hmmpanther:PTHR24077:SF210,hmmpanther:PTHR24077,Pfam_domain:PF00226,Gene3D:1.10.287.110,SMART_domains:SM00271,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTATAAGA	.	5	BLCA
TMEM44	0	.	GRCh37	3	194309273	194309273	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1413G>C	p.%3D	p.L471L	ENST00000392432	11/11	83	41	42	95	95	0	TMEM44,synonymous_variant,p.%3D,ENST00000432352,;TMEM44,synonymous_variant,p.%3D,ENST00000473092,;TMEM44,synonymous_variant,p.%3D,ENST00000392432,;TMEM44,synonymous_variant,p.%3D,ENST00000347147,;TMEM44,synonymous_variant,p.%3D,ENST00000452358,;TMEM44,synonymous_variant,p.%3D,ENST00000273580,;TMEM44,3_prime_UTR_variant,,ENST00000429560,;TMEM44,3_prime_UTR_variant,,ENST00000381975,;TMEM44-AS1,intron_variant,,ENST00000419571,;TMEM44-AS1,intron_variant,,ENST00000453671,;TMEM44-AS1,intron_variant,,ENST00000447982,;TMEM44,non_coding_transcript_exon_variant,,ENST00000476750,;TMEM44,non_coding_transcript_exon_variant,,ENST00000477651,;TMEM44,downstream_gene_variant,,ENST00000419280,;	G	ENSG00000145014	ENST00000392432	Transcript	synonymous_variant	1619	1413	471	L	ctG/ctC	COSM253862,COSM1308958,COSM1308957,COSM1753106	.	.	-1	TMEM44	HGNC	25120	protein_coding	YES	CCDS54699.1	ENSP00000376227	TMM44_HUMAN	Q96I73_HUMAN	UPI00015E0940	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.L434L|c.1302G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCAGGTG	.	5	BLCA
ZNF501	0	.	GRCh37	3	44776196	44776196	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283C>T	p.Gln95Ter	p.Q95*	ENST00000396048	3/3	130	105	25	122	121	0	ZNF501,stop_gained,p.Gln95Ter,ENST00000396048,;KIAA1143,downstream_gene_variant,,ENST00000484437,;ZNF501,downstream_gene_variant,,ENST00000491543,;ZNF501,downstream_gene_variant,,ENST00000484233,;ZNF501,downstream_gene_variant,,ENST00000486486,;	T	ENSG00000186446	ENST00000396048	Transcript	stop_gained	720	283	95	Q/*	Cag/Tag	COSM1309154	.	.	1	ZNF501	HGNC	23717	protein_coding	YES	CCDS2720.2	ENSP00000379363	ZN501_HUMAN	Q15923_HUMAN	UPI00005A76A1	.	.	.	3/3	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCAGCAT	.	5	BLCA
MAGI1	0	.	GRCh37	3	65367599	65367599	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2654A>G	p.Lys885Arg	p.K885R	ENST00000402939	16/23	64	36	28	76	76	0	MAGI1,missense_variant,p.Lys788Arg,ENST00000463103,;MAGI1,missense_variant,p.Lys671Arg,ENST00000472257,;MAGI1,missense_variant,p.Lys885Arg,ENST00000402939,;MAGI1,missense_variant,p.Lys913Arg,ENST00000330909,;MAGI1,missense_variant,p.Lys794Arg,ENST00000460329,;MAGI1,missense_variant,p.Lys913Arg,ENST00000483466,;MAGI1,missense_variant,p.Lys885Arg,ENST00000497477,;MAGI1,upstream_gene_variant,,ENST00000480729,;MAGI1,non_coding_transcript_exon_variant,,ENST00000468159,;	C	ENSG00000151276	ENST00000402939	Transcript	missense_variant	2654	2654	885	K/R	aAg/aGg	COSM1309442,COSM1309441,COSM1309440	.	.	-1	MAGI1	HGNC	946	protein_coding	YES	CCDS33780.1	ENSP00000385450	MAGI1_HUMAN	.	UPI0000457132	.	tolerated(1)	probably_damaging(0.986)	16/23	.	PROSITE_profiles:PS50106,hmmpanther:PTHR10316,hmmpanther:PTHR10316:SF12,Gene3D:2.30.42.10,Pfam_domain:PF00595,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGCTTGGCA	.	5	BLCA
CLGN	0	.	GRCh37	4	141327104	141327104	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411G>C	p.Leu137Phe	p.L137F	ENST00000325617	5/15	64	54	9	58	58	0	CLGN,missense_variant,p.Leu137Phe,ENST00000414773,;CLGN,missense_variant,p.Leu137Phe,ENST00000325617,;CLGN,missense_variant,p.Leu137Phe,ENST00000537281,;CLGN,missense_variant,p.Leu137Phe,ENST00000509477,;	G	ENSG00000153132	ENST00000325617	Transcript	missense_variant	852	411	137	L/F	ttG/ttC	COSM1309756	.	.	-1	CLGN	HGNC	2060	protein_coding	YES	CCDS3751.1	ENSP00000326699	CLGN_HUMAN	D6RAZ4_HUMAN,B4DRG2_HUMAN	UPI0000126E4A	.	tolerated(0.09)	benign(0.332)	5/15	.	Superfamily_domains:SSF49899,Gene3D:2.60.120.200,Pfam_domain:PF00262,hmmpanther:PTHR11073,hmmpanther:PTHR11073:SF7	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATCAAGGG	.	5	BLCA
ZNF827	0	.	GRCh37	4	146824287	146824287	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124G>T	p.Glu42Ter	p.E42*	ENST00000379448	2/15	119	105	13	109	108	0	ZNF827,stop_gained,p.Glu42Ter,ENST00000508784,;ZNF827,stop_gained,p.Glu42Ter,ENST00000379448,;ZNF827,intron_variant,,ENST00000513320,;	A	ENSG00000151612	ENST00000379448	Transcript	stop_gained	188	124	42	E/*	Gaa/Taa	COSM1309785,COSM1309784	.	.	-1	ZNF827	HGNC	27193	protein_coding	YES	CCDS34072.1	ENSP00000368761	ZN827_HUMAN	.	UPI000049DFF1	.	.	.	2/15	.	hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF4	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTCTGACG	.	4	BLCA
NR3C2	0	.	GRCh37	4	149073667	149073667	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2463T>C	p.%3D	p.H821H	ENST00000358102	6/9	95	88	7	91	91	0	NR3C2,synonymous_variant,p.%3D,ENST00000358102,;NR3C2,synonymous_variant,p.%3D,ENST00000344721,;NR3C2,synonymous_variant,p.%3D,ENST00000355292,;NR3C2,synonymous_variant,p.%3D,ENST00000512865,;NR3C2,synonymous_variant,p.%3D,ENST00000511528,;RP11-76G10.1,intron_variant,,ENST00000514843,;NR3C2,non_coding_transcript_exon_variant,,ENST00000503313,;NR3C2,non_coding_transcript_exon_variant,,ENST00000503174,;NR3C2,intron_variant,,ENST00000342437,;	G	ENSG00000151623	ENST00000358102	Transcript	synonymous_variant	2826	2463	821	H	caT/caC	COSM1309790	.	.	-1	NR3C2	HGNC	7979	protein_coding	YES	CCDS3772.1	ENSP00000350815	.	Q4W5E8_HUMAN,B0ZBF6_HUMAN	UPI000013DC6D	.	.	.	6/9	.	hmmpanther:PTHR24084:SF22,hmmpanther:PTHR24084,Gene3D:1.10.565.10,Pfam_domain:PF00104,SMART_domains:SM00430,Superfamily_domains:SSF48508	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCGTATGTTT	.	3	BLCA
DCLK2	0	.	GRCh37	4	151141909	151141909	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1162G>T	p.Asp388Tyr	p.D388Y	ENST00000302176	7/17	28	19	9	30	30	0	DCLK2,missense_variant,p.Asp388Tyr,ENST00000302176,;DCLK2,missense_variant,p.Asp371Tyr,ENST00000296550,;DCLK2,missense_variant,p.Asp370Tyr,ENST00000506325,;DCLK2,missense_variant,p.Asp370Tyr,ENST00000411937,;	T	ENSG00000170390	ENST00000302176	Transcript	missense_variant	1162	1162	388	D/Y	Gac/Tac	COSM1309798,COSM1309797	.	.	1	DCLK2	HGNC	19002	protein_coding	YES	CCDS47142.2	ENSP00000303887	DCLK2_HUMAN	.	UPI0000D615C9	.	tolerated(0.08)	benign(0.004)	7/17	.	hmmpanther:PTHR24347,hmmpanther:PTHR24347:SF122,Gene3D:3.30.200.20	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTGACCGT	.	5	BLCA
TBC1D1	0	.	GRCh37	4	38091654	38091654	+	Missense_Mutation	SNP	C	C	T	rs751773027	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2152C>T	p.Arg718Cys	p.R718C	ENST00000261439	13/20	71	54	17	99	99	0	TBC1D1,missense_variant,p.Arg199Cys,ENST00000421339,;TBC1D1,missense_variant,p.Arg718Cys,ENST00000261439,;TBC1D1,missense_variant,p.Arg812Cys,ENST00000508802,;TBC1D1,missense_variant,p.Arg589Cys,ENST00000446803,;TBC1D1,downstream_gene_variant,,ENST00000443855,;TBC1D1,3_prime_UTR_variant,,ENST00000510573,;	T	ENSG00000065882	ENST00000261439	Transcript	missense_variant	2507	2152	718	R/C	Cgt/Tgt	rs751773027,COSM1310035	.	.	1	TBC1D1	HGNC	11578	protein_coding	YES	CCDS33972.1	ENSP00000261439	TBCD1_HUMAN	H0Y8P0_HUMAN,Q8NC59_HUMAN,Q7Z6H2_HUMAN,Q6PJJ8_HUMAN,B9A6J6_HUMAN,A0JNU9_HUMAN	UPI0000367235	.	deleterious(0.02)	benign(0.028)	13/20	.	hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF204,Pfam_domain:PF11830	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCGTGAG	.	5	BLCA
GABRA4	0	.	GRCh37	4	46979532	46979532	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389C>T	p.Pro130Leu	p.P130L	ENST00000264318	4/9	67	35	32	45	45	0	GABRA4,missense_variant,p.Pro130Leu,ENST00000264318,;GABRA4,3_prime_UTR_variant,,ENST00000502874,;GABRA4,3_prime_UTR_variant,,ENST00000511523,;GABRA4,3_prime_UTR_variant,,ENST00000508560,;	A	ENSG00000109158	ENST00000264318	Transcript	missense_variant	1372	389	130	P/L	cCt/cTt	COSM1310090	.	.	-1	GABRA4	HGNC	4078	protein_coding	YES	CCDS3473.1	ENSP00000264318	GBRA4_HUMAN	.	UPI0000074200	.	deleterious(0)	probably_damaging(1)	4/9	.	Prints_domain:PR00252,Superfamily_domains:0038932,TIGRFAM_domain:TIGR00860,Gene3D:2.70.170.10,Pfam_domain:PF02931,hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF393	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCAGGGGTC	.	5	BLCA
EVC2	0	.	GRCh37	4	5633750	5633750	+	Missense_Mutation	SNP	C	C	G	rs763041096	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1480G>C	p.Glu494Gln	p.E494Q	ENST00000344408	11/22	61	51	9	62	62	0	EVC2,missense_variant,p.Glu494Gln,ENST00000344938,;EVC2,missense_variant,p.Glu414Gln,ENST00000310917,;EVC2,missense_variant,p.Glu494Gln,ENST00000344408,;EVC2,missense_variant,p.Glu414Gln,ENST00000475313,;EVC2,missense_variant,p.Arg411Thr,ENST00000509670,;	G	ENSG00000173040	ENST00000344408	Transcript	missense_variant	1534	1480	494	E/Q	Gag/Cag	rs763041096,COSM1310146	.	.	-1	EVC2	HGNC	19747	protein_coding	YES	CCDS3382.2	ENSP00000342144	LBN_HUMAN	Q4W5B1_HUMAN,Q4W5A4_HUMAN	UPI00001910B5	.	tolerated(0.06)	benign(0.372)	11/22	.	hmmpanther:PTHR16795:SF11,hmmpanther:PTHR16795,Pfam_domain:PF12297	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACTCTACAG	.	5	BLCA
HSD17B4	0	.	GRCh37	5	118814608	118814608	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589C>G	p.Leu197Val	p.L197V	ENST00000504811	9/25	118	77	40	140	140	0	HSD17B4,missense_variant,p.Leu32Val,ENST00000414835,;HSD17B4,missense_variant,p.Leu35Val,ENST00000513628,;HSD17B4,missense_variant,p.Leu197Val,ENST00000504811,;HSD17B4,missense_variant,p.Leu172Val,ENST00000256216,;HSD17B4,missense_variant,p.Leu154Val,ENST00000515320,;HSD17B4,missense_variant,p.Leu148Val,ENST00000510025,;HSD17B4,5_prime_UTR_variant,,ENST00000509514,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000512841,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000508788,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000505181,;HSD17B4,downstream_gene_variant,,ENST00000519184,;HSD17B4,missense_variant,p.Leu172Val,ENST00000442060,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000503168,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000515235,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000512644,;HSD17B4,downstream_gene_variant,,ENST00000511186,;HSD17B4,downstream_gene_variant,,ENST00000507695,;	G	ENSG00000133835	ENST00000504811	Transcript	missense_variant	773	589	197	L/V	Ctg/Gtg	COSM1310463	.	.	1	HSD17B4	HGNC	5213	protein_coding	YES	CCDS56379.1	ENSP00000420914	DHB4_HUMAN	Q9UBA4_HUMAN,E7EWE5_HUMAN,E7ET17_HUMAN	UPI0001AE7403	.	tolerated(0.55)	benign(0.046)	9/25	.	hmmpanther:PTHR24316,hmmpanther:PTHR24316:SF2,PROSITE_patterns:PS00061,Gene3D:3.40.50.720,Pfam_domain:PF00106,Superfamily_domains:SSF51735,Prints_domain:PR00081,Prints_domain:PR00080	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCTGGGC	.	5	BLCA
PRRC1	0	.	GRCh37	5	126883526	126883529	+	Frame_Shift_Del	DEL	TTGT	TTGT	-	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	TTGT	TTGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044_1047delTTTG	p.Cys348TrpfsTer12	p.C348Wfs*12	ENST00000296666	8/9	93	56	37	141	141	0	PRRC1,frameshift_variant,p.Cys348TrpfsTer12,ENST00000442138,;PRRC1,frameshift_variant,p.Cys348TrpfsTer12,ENST00000296666,;PRRC1,frameshift_variant,p.Cys348TrpfsTer12,ENST00000512635,;PRRC1,non_coding_transcript_exon_variant,,ENST00000513427,;	-	ENSG00000164244	ENST00000296666	Transcript	frameshift_variant	1229-1232	1041-1044	347-348	GC/X	ggTTGT/gg	.	.	.	1	PRRC1	HGNC	28164	protein_coding	YES	CCDS4143.1	ENSP00000296666	PRRC1_HUMAN	.	UPI0000073C8E	.	.	.	8/9	.	Superfamily_domains:SSF52972,Gene3D:3.90.950.10,Pfam_domain:PF01931,hmmpanther:PTHR23276,hmmpanther:PTHR23276:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CATTGGTTGTTTGGT	.	3	BLCA
PCDHA7	0	.	GRCh37	5	140214295	140214295	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327C>T	p.%3D	p.I109I	ENST00000525929	1/4	261	229	31	312	312	0	PCDHA7,synonymous_variant,p.%3D,ENST00000378125,;PCDHA7,synonymous_variant,p.%3D,ENST00000525929,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;	T	ENSG00000204963	ENST00000525929	Transcript	synonymous_variant	327	327	109	I	atC/atT	COSM1310641,COSM3826962,COSM1310640,COSM3826961	.	.	1	PCDHA7	HGNC	8673	protein_coding	YES	CCDS54918.1	ENSP00000436426	PCDA7_HUMAN	.	UPI00001273CF	.	.	.	1/4	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF08266,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF67,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGATCGTGGA	.	4	BLCA
MARCH11	0	.	GRCh37	5	16067594	16067594	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1195G>A	p.Val399Met	p.V399M	ENST00000332432	4/4	330	177	153	299	299	0	MARCH11,missense_variant,p.Val399Met,ENST00000332432,;MARCH11,3_prime_UTR_variant,,ENST00000507111,;	T	ENSG00000183654	ENST00000332432	Transcript	missense_variant	1395	1195	399	V/M	Gtg/Atg	COSM1310908	.	.	-1	MARCH11	HGNC	33609	protein_coding	YES	CCDS47192.1	ENSP00000333181	MARHB_HUMAN	.	UPI00015B3D4A	.	deleterious(0)	probably_damaging(0.99)	4/4	.	hmmpanther:PTHR23012:SF67,hmmpanther:PTHR23012	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCACTCTCA	.	5	BLCA
DOCK2	0	.	GRCh37	5	169494533	169494533	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4487A>T	p.Glu1496Val	p.E1496V	ENST00000256935	45/52	66	45	21	93	93	0	DOCK2,missense_variant,p.Glu557Val,ENST00000540750,;DOCK2,missense_variant,p.Glu1496Val,ENST00000256935,;DOCK2,missense_variant,p.Glu988Val,ENST00000520908,;DOCK2,non_coding_transcript_exon_variant,,ENST00000523351,;DOCK2,3_prime_UTR_variant,,ENST00000524185,;DOCK2,non_coding_transcript_exon_variant,,ENST00000520450,;	T	ENSG00000134516	ENST00000256935	Transcript	missense_variant	4567	4487	1496	E/V	gAg/gTg	COSM1310949	.	.	1	DOCK2	HGNC	2988	protein_coding	YES	CCDS4371.1	ENSP00000256935	DOCK2_HUMAN	Q5XG91_HUMAN,B3KXW9_HUMAN	UPI00001A38CC	.	deleterious(0)	probably_damaging(0.922)	45/52	.	PROSITE_profiles:PS51651,hmmpanther:PTHR23317:SF73,hmmpanther:PTHR23317,Pfam_domain:PF06920	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGGAGAATG	.	5	BLCA
FAM153B	0	.	GRCh37	5	175520235	175520235	+	Silent	SNP	C	C	G	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66C>G	p.%3D	p.L22L	ENST00000515817	4/20	179	157	22	292	292	0	FAM153B,synonymous_variant,p.%3D,ENST00000253490,;FAM153B,synonymous_variant,p.%3D,ENST00000503724,;FAM153B,synonymous_variant,p.%3D,ENST00000512862,;FAM153B,synonymous_variant,p.%3D,ENST00000515817,;FAM153B,synonymous_variant,p.%3D,ENST00000510151,;FAM153B,non_coding_transcript_exon_variant,,ENST00000393522,;FAM153B,non_coding_transcript_exon_variant,,ENST00000503533,;FAM153B,synonymous_variant,p.%3D,ENST00000508296,;FAM153B,downstream_gene_variant,,ENST00000513938,;FAM153B,downstream_gene_variant,,ENST00000511680,;FAM153B,downstream_gene_variant,,ENST00000514235,;FAM153B,downstream_gene_variant,,ENST00000507409,;	G	ENSG00000182230	ENST00000515817	Transcript	synonymous_variant	350	66	22	L	ctC/ctG	.	.	.	1	FAM153B	HGNC	27323	protein_coding	YES	CCDS43401.2	ENSP00000427684	.	H0YL08_HUMAN,D6RF84_HUMAN,D6RA46_HUMAN	UPI00001D7EF3	.	.	.	4/20	.	Prints_domain:PR02041	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	GAGCTCCACCT	.	2	BLCA
SLC34A1	0	.	GRCh37	5	176812835	176812835	+	Silent	SNP	C	C	T	rs144202147	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93C>T	p.%3D	p.Y31Y	ENST00000324417	2/13	14	10	4	19	19	0	SLC34A1,synonymous_variant,p.%3D,ENST00000504577,;SLC34A1,synonymous_variant,p.%3D,ENST00000512593,;SLC34A1,synonymous_variant,p.%3D,ENST00000324417,;SLC34A1,upstream_gene_variant,,ENST00000513614,;SLC34A1,non_coding_transcript_exon_variant,,ENST00000507685,;	T	ENSG00000131183	ENST00000324417	Transcript	synonymous_variant	184	93	31	Y	taC/taT	rs144202147	.	.	1	SLC34A1	HGNC	11019	protein_coding	YES	CCDS4418.1	ENSP00000321424	NPT2A_HUMAN	Q05BP0_HUMAN,D6RCE5_HUMAN	UPI0000130408	.	.	.	2/13	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE	GCCTACGTGCC	byCluster	3	BLCA
BDP1	0	.	GRCh37	5	70806316	70806316	+	Missense_Mutation	SNP	G	G	A	rs374517452	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3397G>A	p.Glu1133Lys	p.E1133K	ENST00000358731	17/39	88	66	21	95	95	0	BDP1,missense_variant,p.Glu1133Lys,ENST00000358731,;BDP1,5_prime_UTR_variant,,ENST00000380675,;BDP1,non_coding_transcript_exon_variant,,ENST00000508917,;BDP1,non_coding_transcript_exon_variant,,ENST00000508157,;	A	ENSG00000145734	ENST00000358731	Transcript	missense_variant	3660	3397	1133	E/K	Gag/Aag	rs374517452,COSM1311294	.	.	1	BDP1	HGNC	13652	protein_coding	YES	CCDS43328.1	ENSP00000351575	BDP1_HUMAN	.	UPI000020CA90	.	tolerated(0.11)	possibly_damaging(0.499)	17/39	.	hmmpanther:PTHR22929:SF0,hmmpanther:PTHR22929	.	.	.	.	.	.	.	A:0.0003	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCAGAGGTG	byCluster	5	BLCA
PTPRK	0	.	GRCh37	6	128540172	128540173	+	Frame_Shift_Del	DEL	AG	AG	-	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	AG	AG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762_763delCT	p.Phe255GlnfsTer9	p.F255Qfs*9	ENST00000368213	6/31	116	102	14	120	120	0	PTPRK,frameshift_variant,p.Phe255GlnfsTer9,ENST00000532331,;PTPRK,frameshift_variant,p.Phe255GlnfsTer9,ENST00000368226,;PTPRK,frameshift_variant,p.Phe255GlnfsTer9,ENST00000368215,;PTPRK,frameshift_variant,p.Phe255GlnfsTer9,ENST00000368207,;PTPRK,frameshift_variant,p.Phe255GlnfsTer9,ENST00000368210,;PTPRK,frameshift_variant,p.Phe255GlnfsTer9,ENST00000368227,;PTPRK,frameshift_variant,p.Phe255GlnfsTer9,ENST00000368213,;PTPRK,frameshift_variant,p.Phe72GlnfsTer9,ENST00000490332,;PTPRK,non_coding_transcript_exon_variant,,ENST00000524534,;PTPRK,non_coding_transcript_exon_variant,,ENST00000498284,;PTPRK,non_coding_transcript_exon_variant,,ENST00000368205,;PTPRK,non_coding_transcript_exon_variant,,ENST00000524481,;PTPRK,downstream_gene_variant,,ENST00000495748,;PTPRK,3_prime_UTR_variant,,ENST00000531050,;	-	ENSG00000152894	ENST00000368213	Transcript	frameshift_variant	987-988	762-763	254-255	SF/SX	tcCTtc/tctc	.	.	.	-1	PTPRK	HGNC	9674	protein_coding	YES	CCDS47473.1	ENSP00000357196	PTPRK_HUMAN	.	UPI0001747A04	.	.	.	6/31	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Pfam_domain:PF13895,Gene3D:2.60.40.10,hmmpanther:PTHR19134:SF209,hmmpanther:PTHR19134,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	ATCTGAAGGAAGC	.	2	BLCA
TULP4	0	.	GRCh37	6	158923390	158923390	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2695G>A	p.Glu899Lys	p.E899K	ENST00000367097	13/14	132	78	54	166	166	0	TULP4,missense_variant,p.Glu899Lys,ENST00000367097,;TULP4,intron_variant,,ENST00000367094,;	A	ENSG00000130338	ENST00000367097	Transcript	missense_variant	4052	2695	899	E/K	Gag/Aag	COSM1311756	.	.	1	TULP4	HGNC	15530	protein_coding	YES	CCDS34561.1	ENSP00000356064	TULP4_HUMAN	.	UPI000013CD76	.	deleterious_low_confidence(0)	probably_damaging(0.991)	13/14	.	hmmpanther:PTHR16517,hmmpanther:PTHR16517:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAGGAGGTG	.	5	BLCA
COL11A2	0	.	GRCh37	6	33144976	33144976	+	Silent	SNP	G	G	A	rs373989427	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1740C>T	p.%3D	p.I580I	ENST00000374708	22/64	75	40	34	73	73	0	COL11A2,synonymous_variant,p.%3D,ENST00000395197,;COL11A2,synonymous_variant,p.%3D,ENST00000374713,;COL11A2,synonymous_variant,p.%3D,ENST00000361917,;COL11A2,synonymous_variant,p.%3D,ENST00000374712,;COL11A2,synonymous_variant,p.%3D,ENST00000357486,;COL11A2,synonymous_variant,p.%3D,ENST00000374708,;COL11A2,synonymous_variant,p.%3D,ENST00000341947,;COL11A2,synonymous_variant,p.%3D,ENST00000374714,;COL11A2,downstream_gene_variant,,ENST00000457788,;COL11A2,non_coding_transcript_exon_variant,,ENST00000477772,;	A	ENSG00000204248	ENST00000374708	Transcript	synonymous_variant	1999	1740	580	I	atC/atT	rs373989427,COSM596041	.	.	-1	COL11A2	HGNC	2187	protein_coding	YES	CCDS43452.1	ENSP00000363840	.	Q6LCP7_HUMAN,Q4VXY6_HUMAN	UPI000013E9A5	.	.	.	22/64	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF509	A:0.0006	A:0.0015	A:0.0014	.	A:0	A:0	A:0	A:0.001	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCGATGGC	byFrequency|byCluster|by1000G	5	BLCA
UHRF1BP1	0	.	GRCh37	6	34825934	34825934	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1801G>C	p.Glu601Gln	p.E601Q	ENST00000192788	14/21	90	52	38	76	76	0	UHRF1BP1,missense_variant,p.Glu601Gln,ENST00000192788,;UHRF1BP1,missense_variant,p.Glu601Gln,ENST00000452449,;	C	ENSG00000065060	ENST00000192788	Transcript	missense_variant	1972	1801	601	E/Q	Gag/Cag	COSM1312111	.	.	1	UHRF1BP1	HGNC	21216	protein_coding	YES	CCDS43455.1	ENSP00000192788	URFB1_HUMAN	.	UPI00001B654C	.	tolerated(0.05)	benign(0.017)	14/21	.	hmmpanther:PTHR22774:SF14,hmmpanther:PTHR22774	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCAGAGTTG	.	5	BLCA
UHRF1BP1	0	.	GRCh37	6	34826146	34826146	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2013G>A	p.%3D	p.Q671Q	ENST00000192788	14/21	127	79	47	136	136	0	UHRF1BP1,synonymous_variant,p.%3D,ENST00000192788,;UHRF1BP1,synonymous_variant,p.%3D,ENST00000452449,;	A	ENSG00000065060	ENST00000192788	Transcript	synonymous_variant	2184	2013	671	Q	caG/caA	COSM1312112	.	.	1	UHRF1BP1	HGNC	21216	protein_coding	YES	CCDS43455.1	ENSP00000192788	URFB1_HUMAN	.	UPI00001B654C	.	.	.	14/21	.	hmmpanther:PTHR22774:SF14,hmmpanther:PTHR22774	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCAGATGGA	.	5	BLCA
UHRF1BP1	0	.	GRCh37	6	34826515	34826515	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2382G>A	p.%3D	p.L794L	ENST00000192788	14/21	168	86	81	153	153	0	UHRF1BP1,synonymous_variant,p.%3D,ENST00000192788,;UHRF1BP1,synonymous_variant,p.%3D,ENST00000452449,;	A	ENSG00000065060	ENST00000192788	Transcript	synonymous_variant	2553	2382	794	L	ctG/ctA	COSM1312113	.	.	1	UHRF1BP1	HGNC	21216	protein_coding	YES	CCDS43455.1	ENSP00000192788	URFB1_HUMAN	.	UPI00001B654C	.	.	.	14/21	.	hmmpanther:PTHR22774:SF14,hmmpanther:PTHR22774	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTGAAAGA	.	5	BLCA
MDN1	0	.	GRCh37	6	90398348	90398348	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11203T>C	p.Ser3735Pro	p.S3735P	ENST00000369393	66/102	26	18	8	65	65	0	MDN1,missense_variant,p.Ser3735Pro,ENST00000369393,;MDN1,missense_variant,p.Ser3735Pro,ENST00000428876,;	G	ENSG00000112159	ENST00000369393	Transcript	missense_variant	11319	11203	3735	S/P	Tca/Cca	COSM1312435	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	possibly_damaging(0.68)	66/102	.	hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CTCTGAGAAAC	.	4	BLCA
MUC17	0	.	GRCh37	7	100683101	100683101	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8404A>G	p.Thr2802Ala	p.T2802A	ENST00000306151	3/13	533	414	118	475	475	0	MUC17,missense_variant,p.Thr2802Ala,ENST00000306151,;MUC17,missense_variant,p.Thr2802Ala,ENST00000379439,;MUC17,upstream_gene_variant,,ENST00000470303,;	G	ENSG00000169876	ENST00000306151	Transcript	missense_variant	8468	8404	2802	T/A	Acc/Gcc	COSM1312524	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	unknown(0)	3/13	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCAACCTCA	.	5	BLCA
EPHB6	0	.	GRCh37	7	142567654	142567654	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2542G>C	p.Gly848Arg	p.G848R	ENST00000392957	17/20	63	35	28	74	74	0	EPHB6,missense_variant,p.Gly848Arg,ENST00000442129,;EPHB6,missense_variant,p.Gly571Arg,ENST00000411471,;EPHB6,missense_variant,p.Gly848Arg,ENST00000392957,;TRPV6,downstream_gene_variant,,ENST00000436401,;TRPV6,downstream_gene_variant,,ENST00000359396,;EPHB6,non_coding_transcript_exon_variant,,ENST00000476059,;EPHB6,3_prime_UTR_variant,,ENST00000425995,;EPHB6,3_prime_UTR_variant,,ENST00000422643,;EPHB6,non_coding_transcript_exon_variant,,ENST00000486511,;EPHB6,non_coding_transcript_exon_variant,,ENST00000466783,;EPHB6,non_coding_transcript_exon_variant,,ENST00000471581,;TRPV6,downstream_gene_variant,,ENST00000463646,;TRPV6,downstream_gene_variant,,ENST00000485138,;TRPV6,downstream_gene_variant,,ENST00000487077,;	C	ENSG00000106123	ENST00000392957	Transcript	missense_variant	3329	2542	848	G/R	Ggg/Cgg	COSM1312764	.	.	1	EPHB6	HGNC	3396	protein_coding	YES	CCDS5873.2	ENSP00000376684	EPHB6_HUMAN	.	UPI00006635A8	.	deleterious(0)	probably_damaging(1)	17/20	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF300,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTGGGATA	.	5	BLCA
KMT2C	0	.	GRCh37	7	151879673	151879673	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5272C>T	p.Arg1758Cys	p.R1758C	ENST00000262189	36/59	94	63	31	98	98	0	KMT2C,missense_variant,p.Arg1758Cys,ENST00000355193,;KMT2C,missense_variant,p.Arg1758Cys,ENST00000262189,;KMT2C,upstream_gene_variant,,ENST00000558665,;KMT2C,upstream_gene_variant,,ENST00000360104,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	missense_variant	5491	5272	1758	R/C	Cgt/Tgt	COSM1312873,COSM1312872	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	probably_damaging(0.999)	36/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACGCATTT	.	5	BLCA
DNAH11	0	.	GRCh37	7	21932046	21932046	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12532G>A	p.Glu4178Lys	p.E4178K	ENST00000328843	78/83	381	243	138	388	388	0	DNAH11,missense_variant,p.Glu4178Lys,ENST00000328843,;DNAH11,missense_variant,p.Glu4171Lys,ENST00000409508,;DNAH11,upstream_gene_variant,,ENST00000479878,;	A	ENSG00000105877	ENST00000328843	Transcript	missense_variant	12563	12532	4178	E/K	Gaa/Aaa	COSM1312959	.	.	1	DNAH11	HGNC	2942	protein_coding	YES	.	ENSP00000330671	DYH11_HUMAN	Q75MY1_HUMAN,Q75KM7_HUMAN,O95705_HUMAN,O43352_HUMAN,O15433_HUMAN	UPI000041AC4D	.	.	benign(0.272)	78/83	.	hmmpanther:PTHR10676:SF227,hmmpanther:PTHR10676,Pfam_domain:PF03028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTGAAGAT	.	5	BLCA
UBE2D4	0	.	GRCh37	7	43982600	43982600	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168T>C	p.%3D	p.F56F	ENST00000222402	4/7	172	101	71	140	140	0	UBE2D4,synonymous_variant,p.%3D,ENST00000394798,;UBE2D4,synonymous_variant,p.%3D,ENST00000446008,;UBE2D4,synonymous_variant,p.%3D,ENST00000222402,;POLR2J4,non_coding_transcript_exon_variant,,ENST00000427076,;UBE2D4,synonymous_variant,p.%3D,ENST00000415051,;UBE2D4,3_prime_UTR_variant,,ENST00000443780,;UBE2D4,3_prime_UTR_variant,,ENST00000440899,;UBE2D4,3_prime_UTR_variant,,ENST00000440652,;UBE2D4,3_prime_UTR_variant,,ENST00000450743,;UBE2D4,intron_variant,,ENST00000454350,;UBE2D4,intron_variant,,ENST00000473007,;UBE2D4,intron_variant,,ENST00000454428,;	C	ENSG00000078967	ENST00000222402	Transcript	synonymous_variant	257	168	56	F	ttT/ttC	COSM1313099	.	.	1	UBE2D4	HGNC	21647	protein_coding	YES	CCDS5474.1	ENSP00000222402	UB2D4_HUMAN	F8WCA2_HUMAN	UPI000007403F	.	.	.	4/7	.	PROSITE_profiles:PS50127,hmmpanther:PTHR24068:SF24,hmmpanther:PTHR24068,Gene3D:3.10.110.10,Pfam_domain:PF00179,SMART_domains:SM00212,Superfamily_domains:SSF54495	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTTCCTAC	.	5	BLCA
NPC1L1	0	.	GRCh37	7	44573141	44573141	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2298G>A	p.Met766Ile	p.M766I	ENST00000289547	8/20	104	96	8	78	78	0	NPC1L1,missense_variant,p.Met766Ile,ENST00000546276,;NPC1L1,missense_variant,p.Met766Ile,ENST00000381160,;NPC1L1,missense_variant,p.Met766Ile,ENST00000289547,;NPC1L1,3_prime_UTR_variant,,ENST00000423141,;	T	ENSG00000015520	ENST00000289547	Transcript	missense_variant	2354	2298	766	M/I	atG/atA	COSM1313108	.	.	-1	NPC1L1	HGNC	7898	protein_coding	YES	CCDS5491.1	ENSP00000289547	NPCL1_HUMAN	.	UPI000013DF88	.	deleterious(0)	probably_damaging(0.974)	8/20	.	Superfamily_domains:SSF82866,Pfam_domain:PF12349,Gene3D:2j8sB01,hmmpanther:PTHR10796,hmmpanther:PTHR10796:SF89,PROSITE_profiles:PS50156	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTGGCATGGG	.	3	BLCA
PKD1L1	0	.	GRCh37	7	47884664	47884664	+	Silent	SNP	G	G	A	rs140257069	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5166C>T	p.%3D	p.L1722L	ENST00000289672	33/57	68	35	32	71	71	0	PKD1L1,synonymous_variant,p.%3D,ENST00000289672,;HUS1,intron_variant,,ENST00000436444,;	A	ENSG00000158683	ENST00000289672	Transcript	synonymous_variant	5217	5166	1722	L	ctC/ctT	rs140257069,COSM1313128	.	.	-1	PKD1L1	HGNC	18053	protein_coding	YES	CCDS34633.1	ENSP00000289672	PK1L1_HUMAN	.	UPI0000130FA9	.	.	.	33/57	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF32	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGCGAGGCG	byCluster	5	BLCA
PSPH	0	.	GRCh37	7	56079478	56079478	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655C>A	p.Leu219Met	p.L219M	ENST00000395471	8/8	161	136	24	132	132	0	PSPH,missense_variant,p.Leu219Met,ENST00000275605,;PSPH,missense_variant,p.Leu219Met,ENST00000395471,;PSPH,downstream_gene_variant,,ENST00000421626,;PSPH,non_coding_transcript_exon_variant,,ENST00000459834,;PSPH,missense_variant,p.Leu219Met,ENST00000437355,;	T	ENSG00000146733	ENST00000395471	Transcript	missense_variant	1461	655	219	L/M	Ctg/Atg	COSM1313197	.	.	-1	PSPH	HGNC	9577	protein_coding	YES	CCDS5522.1	ENSP00000378854	SERB_HUMAN	C9JEJ7_HUMAN,C9JBI3_HUMAN	UPI000013DA6D	.	tolerated(0.06)	probably_damaging(0.997)	8/8	.	Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR00338,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCAGCTCTA	.	4	BLCA
DAGLB	0	.	GRCh37	7	6449968	6449968	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1613G>C	p.Gly538Ala	p.G538A	ENST00000297056	14/15	105	65	40	85	85	0	DAGLB,missense_variant,p.Gly409Ala,ENST00000425398,;DAGLB,missense_variant,p.Gly538Ala,ENST00000297056,;DAGLB,missense_variant,p.Gly497Ala,ENST00000436575,;DAGLB,3_prime_UTR_variant,,ENST00000428902,;DAGLB,downstream_gene_variant,,ENST00000421761,;DAGLB,non_coding_transcript_exon_variant,,ENST00000482149,;DAGLB,non_coding_transcript_exon_variant,,ENST00000462934,;DAGLB,downstream_gene_variant,,ENST00000454738,;DAGLB,downstream_gene_variant,,ENST00000497308,;	G	ENSG00000164535	ENST00000297056	Transcript	missense_variant	1783	1613	538	G/A	gGa/gCa	COSM1313229	.	.	-1	DAGLB	HGNC	28923	protein_coding	YES	CCDS5350.1	ENSP00000297056	DGLB_HUMAN	E7ET49_HUMAN,B3KR38_HUMAN	UPI000006E01F	.	deleterious(0.04)	probably_damaging(0.999)	14/15	.	hmmpanther:PTHR21493:SF8,hmmpanther:PTHR21493	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCCTCCA	.	5	BLCA
KCTD7	0	.	GRCh37	7	66273984	66273984	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189G>A	p.Glu397Lys	p.E397K	ENST00000510829	9/9	41	15	26	36	36	0	KCTD7,missense_variant,p.Glu437Lys,ENST00000380828,;RABGEF1,missense_variant,p.Glu411Lys,ENST00000437078,;RABGEF1,missense_variant,p.Glu397Lys,ENST00000284957,;KCTD7,missense_variant,p.Glu397Lys,ENST00000451741,;RABGEF1,missense_variant,p.Glu410Lys,ENST00000439720,;KCTD7,missense_variant,p.Glu397Lys,ENST00000510829,;RABGEF1,missense_variant,p.Glu397Lys,ENST00000450873,;RABGEF1,non_coding_transcript_exon_variant,,ENST00000484547,;GTF2IRD1P1,downstream_gene_variant,,ENST00000457166,;RABGEF1,downstream_gene_variant,,ENST00000461017,;RABGEF1,3_prime_UTR_variant,,ENST00000607882,;KCTD7,3_prime_UTR_variant,,ENST00000503687,;	A	ENSG00000243335	ENST00000510829	Transcript	missense_variant	1343	1189	397	E/K	Gag/Aag	COSM1313238	.	.	1	KCTD7	HGNC	21957	protein_coding	YES	CCDS5535.1	ENSP00000421124	.	C9JDA2_HUMAN,B3KMF1_HUMAN	UPI00000730D5	.	tolerated(0.26)	benign(0.021)	9/9	.	hmmpanther:PTHR23101:SF49,hmmpanther:PTHR23101	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAGAGT	.	5	BLCA
KCTD7	0	.	GRCh37	7	66274059	66274059	+	Missense_Mutation	SNP	G	G	C	rs772254607	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1264G>C	p.Glu422Gln	p.E422Q	ENST00000510829	9/9	51	33	18	30	30	0	KCTD7,missense_variant,p.Glu462Gln,ENST00000380828,;RABGEF1,missense_variant,p.Glu436Gln,ENST00000437078,;RABGEF1,missense_variant,p.Glu422Gln,ENST00000284957,;KCTD7,missense_variant,p.Glu422Gln,ENST00000451741,;RABGEF1,missense_variant,p.Glu435Gln,ENST00000439720,;KCTD7,missense_variant,p.Glu422Gln,ENST00000510829,;RABGEF1,missense_variant,p.Glu422Gln,ENST00000450873,;RABGEF1,non_coding_transcript_exon_variant,,ENST00000484547,;GTF2IRD1P1,downstream_gene_variant,,ENST00000457166,;RABGEF1,downstream_gene_variant,,ENST00000461017,;RABGEF1,3_prime_UTR_variant,,ENST00000607882,;KCTD7,3_prime_UTR_variant,,ENST00000503687,;	C	ENSG00000243335	ENST00000510829	Transcript	missense_variant	1418	1264	422	E/Q	Gaa/Caa	rs772254607,COSM1313239	.	.	1	KCTD7	HGNC	21957	protein_coding	YES	CCDS5535.1	ENSP00000421124	.	C9JDA2_HUMAN,B3KMF1_HUMAN	UPI00000730D5	.	tolerated(0.31)	benign(0.018)	9/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23101:SF49,hmmpanther:PTHR23101	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATGAACGA	byFrequency	5	BLCA
ELN	0	.	GRCh37	7	73471787	73471787	+	Intron	SNP	G	G	A	novel	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1358-183G>A	.	.	ENST00000252034	.	26	16	10	32	32	0	ELN,missense_variant,p.Gly478Glu,ENST00000358929,;ELN,intron_variant,,ENST00000380562,;ELN,intron_variant,,ENST00000252034,;ELN,intron_variant,,ENST00000380576,;ELN,intron_variant,,ENST00000380575,;ELN,intron_variant,,ENST00000320492,;ELN,intron_variant,,ENST00000445912,;ELN,intron_variant,,ENST00000414324,;ELN,intron_variant,,ENST00000429192,;ELN,intron_variant,,ENST00000380553,;ELN,intron_variant,,ENST00000320399,;ELN,intron_variant,,ENST00000458204,;ELN,intron_variant,,ENST00000357036,;ELN,intron_variant,,ENST00000380584,;CTB-51J22.1,downstream_gene_variant,,ENST00000435932,;ELN,downstream_gene_variant,,ENST00000466878,;ELN,downstream_gene_variant,,ENST00000492210,;	A	ENSG00000049540	ENST00000252034	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ELN	HGNC	3327	protein_coding	YES	CCDS5562.2	ENSP00000252034	ELN_HUMAN	Q9UMK5_HUMAN	UPI0000D4A0DC	.	.	.	.	21/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGGGAGGAG	.	5	BLCA
ADAP1	0	.	GRCh37	7	938746	938746	+	Silent	SNP	C	C	T	rs146090079	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1020G>A	p.%3D	p.T340T	ENST00000265846	10/11	113	70	42	85	85	0	ADAP1,synonymous_variant,p.%3D,ENST00000449296,;ADAP1,synonymous_variant,p.%3D,ENST00000453175,;ADAP1,synonymous_variant,p.%3D,ENST00000446141,;ADAP1,synonymous_variant,p.%3D,ENST00000265846,;ADAP1,synonymous_variant,p.%3D,ENST00000539900,;GET4,downstream_gene_variant,,ENST00000265857,;ADAP1,downstream_gene_variant,,ENST00000454383,;ADAP1,downstream_gene_variant,,ENST00000437486,;GET4,downstream_gene_variant,,ENST00000407192,;ADAP1,downstream_gene_variant,,ENST00000453823,;COX19,3_prime_UTR_variant,,ENST00000457254,;ADAP1,non_coding_transcript_exon_variant,,ENST00000478000,;ADAP1,non_coding_transcript_exon_variant,,ENST00000495809,;ADAP1,downstream_gene_variant,,ENST00000481406,;SUN1,downstream_gene_variant,,ENST00000457861,;GET4,downstream_gene_variant,,ENST00000464468,;	T	ENSG00000105963	ENST00000265846	Transcript	synonymous_variant	1240	1020	340	T	acG/acA	rs146090079,COSM1313432	.	.	-1	ADAP1	HGNC	16486	protein_coding	YES	CCDS5318.1	ENSP00000265846	ADAP1_HUMAN	H7C2Q4_HUMAN	UPI000013D694	.	.	.	10/11	.	Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30,Pfam_domain:PF15413,hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF219,PROSITE_profiles:PS50003	T:0.0008	T:0.003	T:0	.	T:0	T:0	T:0	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTCCGTCTC	byFrequency|byCluster|by1000G	5	BLCA
BAIAP2L1	0	.	GRCh37	7	97922787	97922787	+	3'UTR	SNP	C	C	T	rs374411124	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46G>A	.	.	ENST00000005260	14/14	122	112	10	121	121	0	BAIAP2L1,3_prime_UTR_variant,,ENST00000005260,;BRI3,downstream_gene_variant,,ENST00000297290,;BRI3,downstream_gene_variant,,ENST00000539286,;BRI3,downstream_gene_variant,,ENST00000456357,;BRI3,downstream_gene_variant,,ENST00000473967,;BRI3,intron_variant,,ENST00000491463,;	T	ENSG00000006453	ENST00000005260	Transcript	3_prime_UTR_variant	1798	.	.	.	.	rs374411124	.	.	-1	BAIAP2L1	HGNC	21649	protein_coding	YES	CCDS34687.1	ENSP00000005260	BI2L1_HUMAN	.	UPI0000035DA9	.	.	.	14/14	.	.	.	.	.	.	.	.	.	T:0	T:0.0003	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATTCCGCAAG	byFrequency|byCluster	2	BLCA
ZNF655	0	.	GRCh37	7	99170613	99170613	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987G>C	p.Lys329Asn	p.K329N	ENST00000424881	4/4	102	72	30	85	85	0	ZNF655,missense_variant,p.Lys329Asn,ENST00000493277,;ZNF655,missense_variant,p.Lys329Asn,ENST00000424881,;ZNF655,missense_variant,p.Lys294Asn,ENST00000252713,;ZNF655,missense_variant,p.Lys294Asn,ENST00000394163,;ZNF655,3_prime_UTR_variant,,ENST00000425063,;ZNF655,downstream_gene_variant,,ENST00000422647,;ZNF655,downstream_gene_variant,,ENST00000449244,;ZNF655,downstream_gene_variant,,ENST00000422164,;ZNF655,downstream_gene_variant,,ENST00000427931,;ZNF655,downstream_gene_variant,,ENST00000454654,;ZNF655,non_coding_transcript_exon_variant,,ENST00000419215,;GS1-259H13.10,intron_variant,,ENST00000486324,;ZNF655,non_coding_transcript_exon_variant,,ENST00000494357,;GS1-259H13.10,intron_variant,,ENST00000455905,;ZNF655,downstream_gene_variant,,ENST00000412636,;ZNF655,downstream_gene_variant,,ENST00000493947,;	C	ENSG00000197343	ENST00000424881	Transcript	missense_variant	1207	987	329	K/N	aaG/aaC	COSM1313488,COSM1313487	.	.	1	ZNF655	HGNC	30899	protein_coding	YES	CCDS47655.1	ENSP00000393876	ZN655_HUMAN	Q68DU4_HUMAN,F8WEB1_HUMAN,C9JUB9_HUMAN,C9JS03_HUMAN,C9IYG2_HUMAN	UPI000020F66D	.	tolerated(0.05)	possibly_damaging(0.607)	4/4	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF284,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAAGAAAAT	.	5	BLCA
STAG3	0	.	GRCh37	7	99798542	99798542	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2011G>T	p.Val671Leu	p.V671L	ENST00000426455	19/34	85	71	13	96	96	0	STAG3,missense_variant,p.Val671Leu,ENST00000426455,;STAG3,missense_variant,p.Val613Leu,ENST00000394018,;STAG3,missense_variant,p.Val671Leu,ENST00000317296,;GATS,3_prime_UTR_variant,,ENST00000436886,;STAG3,upstream_gene_variant,,ENST00000412190,;GATS,non_coding_transcript_exon_variant,,ENST00000543273,;STAG3,non_coding_transcript_exon_variant,,ENST00000491498,;STAG3,non_coding_transcript_exon_variant,,ENST00000440830,;GATS,downstream_gene_variant,,ENST00000414997,;GATS,downstream_gene_variant,,ENST00000454084,;GATS,downstream_gene_variant,,ENST00000437485,;GATS,downstream_gene_variant,,ENST00000440058,;STAG3,non_coding_transcript_exon_variant,,ENST00000496157,;STAG3,non_coding_transcript_exon_variant,,ENST00000476057,;STAG3,non_coding_transcript_exon_variant,,ENST00000479359,;STAG3,downstream_gene_variant,,ENST00000477469,;STAG3,upstream_gene_variant,,ENST00000451963,;	T	ENSG00000066923	ENST00000426455	Transcript	missense_variant	2418	2011	671	V/L	Gta/Tta	COSM1313509	.	.	1	STAG3	HGNC	11356	protein_coding	YES	CCDS34703.1	ENSP00000400359	STAG3_HUMAN	D6W5U7_HUMAN,C9JYW5_HUMAN,C9JTG4_HUMAN,B4DYS8_HUMAN	UPI000020F6E0	.	tolerated(0.22)	benign(0.005)	19/34	.	hmmpanther:PTHR11199:SF4,hmmpanther:PTHR11199,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTAGTAGAT	.	5	BLCA
UBR5	0	.	GRCh37	8	103373850	103373850	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67C>G	p.Arg23Gly	p.R23G	ENST00000520539	2/59	75	69	5	50	50	0	UBR5,missense_variant,p.Arg23Gly,ENST00000520539,;UBR5,missense_variant,p.Arg23Gly,ENST00000220959,;UBR5,missense_variant,p.Arg23Gly,ENST00000521922,;UBR5,upstream_gene_variant,,ENST00000522327,;	C	ENSG00000104517	ENST00000520539	Transcript	missense_variant	674	67	23	R/G	Cga/Gga	COSM165382	.	.	-1	UBR5	HGNC	16806	protein_coding	YES	CCDS34933.1	ENSP00000429084	UBR5_HUMAN	Q49A65_HUMAN,E5RFK7_HUMAN,B3KML2_HUMAN	UPI0000129BCB	.	deleterious(0)	possibly_damaging(0.791)	2/59	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11254:SF77,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R23G|c.67C>G|5	MUTECT|MUSE	TTCTCGTAACC	.	2	BLCA
EXOSC4	0	.	GRCh37	8	145134859	145134859	+	Missense_Mutation	SNP	G	G	T	rs557258449	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.185G>T	p.Arg62Leu	p.R62L	ENST00000316052	2/3	177	136	40	189	189	0	EXOSC4,missense_variant,p.Arg62Leu,ENST00000525936,;EXOSC4,missense_variant,p.Arg62Leu,ENST00000316052,;EXOSC4,missense_variant,p.Arg85Leu,ENST00000527954,;GPAA1,upstream_gene_variant,,ENST00000361036,;GPAA1,upstream_gene_variant,,ENST00000524418,;GPAA1,upstream_gene_variant,,ENST00000525087,;GPAA1,upstream_gene_variant,,ENST00000530258,;GPAA1,upstream_gene_variant,,ENST00000355091,;CTD-3065J16.9,upstream_gene_variant,,ENST00000524499,;GPAA1,upstream_gene_variant,,ENST00000527144,;GPAA1,upstream_gene_variant,,ENST00000526233,;GPAA1,upstream_gene_variant,,ENST00000526341,;GPAA1,upstream_gene_variant,,ENST00000530796,;GPAA1,upstream_gene_variant,,ENST00000528073,;GPAA1,upstream_gene_variant,,ENST00000531593,;GPAA1,upstream_gene_variant,,ENST00000530633,;GPAA1,upstream_gene_variant,,ENST00000527653,;GPAA1,upstream_gene_variant,,ENST00000534072,;GPAA1,upstream_gene_variant,,ENST00000532758,;GPAA1,upstream_gene_variant,,ENST00000529638,;GPAA1,upstream_gene_variant,,ENST00000529503,;GPAA1,upstream_gene_variant,,ENST00000525308,;	T	ENSG00000178896	ENST00000316052	Transcript	missense_variant	288	185	62	R/L	cGg/cTg	rs557258449,COSM1313847	.	.	1	EXOSC4	HGNC	18189	protein_coding	YES	CCDS6414.1	ENSP00000315476	EXOS4_HUMAN	.	UPI0000000C49	.	tolerated(0.06)	benign(0.401)	2/3	.	Superfamily_domains:SSF54211,Pfam_domain:PF01138,Gene3D:1e3hA01,hmmpanther:PTHR11953,hmmpanther:PTHR11953:SF0	A:0.0004	A:0	A:0	.	A:0.002	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCCGGGCTC	byFrequency|by1000G	5	BLCA
CHMP7	0	.	GRCh37	8	23112846	23112846	+	Silent	SNP	C	C	T	rs759170647	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.558C>T	p.%3D	p.L186L	ENST00000397677	4/11	71	42	29	75	74	0	CHMP7,synonymous_variant,p.%3D,ENST00000397677,;CHMP7,synonymous_variant,p.%3D,ENST00000519984,;CHMP7,synonymous_variant,p.%3D,ENST00000313219,;CHMP7,upstream_gene_variant,,ENST00000520102,;CHMP7,missense_variant,p.Ser129Phe,ENST00000519503,;CHMP7,3_prime_UTR_variant,,ENST00000517325,;CHMP7,3_prime_UTR_variant,,ENST00000519414,;CHMP7,non_coding_transcript_exon_variant,,ENST00000523091,;CHMP7,non_coding_transcript_exon_variant,,ENST00000519529,;CHMP7,upstream_gene_variant,,ENST00000521656,;	T	ENSG00000147457	ENST00000397677	Transcript	synonymous_variant	1206	558	186	L	ctC/ctT	rs759170647,COSM421671	.	.	1	CHMP7	HGNC	28439	protein_coding	YES	CCDS6040.1	ENSP00000380794	CHMP7_HUMAN	E5RJI3_HUMAN,B3KRZ9_HUMAN,B3KMN6_HUMAN	UPI0000049FB7	.	.	.	4/11	.	hmmpanther:PTHR22761:SF6,hmmpanther:PTHR22761	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCTGTGC	.	5	BLCA
PPP2R2A	0	.	GRCh37	8	26227900	26227900	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1345C>T	p.%3D	p.L449L	ENST00000315985	10/10	90	56	34	114	114	0	PPP2R2A,synonymous_variant,p.%3D,ENST00000380737,;PPP2R2A,synonymous_variant,p.%3D,ENST00000315985,;PPP2R2A,downstream_gene_variant,,ENST00000524169,;PPP2R2A,non_coding_transcript_exon_variant,,ENST00000517754,;PPP2R2A,non_coding_transcript_exon_variant,,ENST00000518890,;PPP2R2A,downstream_gene_variant,,ENST00000518215,;PPP2R2A,downstream_gene_variant,,ENST00000518208,;	T	ENSG00000221914	ENST00000315985	Transcript	synonymous_variant	1376	1345	449	L	Ctg/Ttg	COSM1313953	.	.	1	PPP2R2A	HGNC	9304	protein_coding	YES	CCDS55213.1	ENSP00000325074	2ABA_HUMAN	E5RFR9_HUMAN	UPI0000E219EC	.	.	.	10/10	.	hmmpanther:PTHR11871,hmmpanther:PTHR11871:SF2,PIRSF_domain:PIRSF037309,SMART_domains:SM00320,Prints_domain:PR00600	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCTGTAT	.	5	BLCA
CSMD1	0	.	GRCh37	8	3265577	3265577	+	Missense_Mutation	SNP	C	C	T	rs779494957	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1915G>A	p.Ala639Thr	p.A639T	ENST00000537824	14/70	45	37	8	49	49	0	CSMD1,missense_variant,p.Ala640Thr,ENST00000400186,;CSMD1,missense_variant,p.Ala639Thr,ENST00000542608,;CSMD1,missense_variant,p.Ala640Thr,ENST00000602723,;CSMD1,missense_variant,p.Ala120Thr,ENST00000335551,;CSMD1,missense_variant,p.Ala639Thr,ENST00000539096,;CSMD1,missense_variant,p.Ala639Thr,ENST00000537824,;CSMD1,missense_variant,p.Ala640Thr,ENST00000602557,;CSMD1,missense_variant,p.Ala640Thr,ENST00000520002,;	T	ENSG00000183117	ENST00000537824	Transcript	missense_variant	1915	1915	639	A/T	Gcg/Acg	rs779494957,COSM1099317,COSM1099316	.	.	-1	CSMD1	HGNC	14026	protein_coding	YES	CCDS55189.1	ENSP00000441462	.	F5GZ18_HUMAN	UPI0001B723C6	.	.	benign(0.008)	14/70	.	PROSITE_profiles:PS01180,Pfam_domain:PF00431,Gene3D:2.60.120.290,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.A639T|c.1915G>A|3,BUFFER|p.A368T|c.1102G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCGCGAGAA	byFrequency	5	BLCA
PREX2	0	.	GRCh37	8	69030877	69030877	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3419C>G	p.Ser1140Ter	p.S1140*	ENST00000288368	27/40	103	53	49	134	134	0	PREX2,stop_gained,p.Ser1140Ter,ENST00000288368,;	G	ENSG00000046889	ENST00000288368	Transcript	stop_gained	3696	3419	1140	S/*	tCa/tGa	COSM1314168	.	.	1	PREX2	HGNC	22950	protein_coding	YES	CCDS6201.1	ENSP00000288368	PREX2_HUMAN	Q56UR8_HUMAN	UPI0000375435	.	.	.	27/40	.	hmmpanther:PTHR22829,hmmpanther:PTHR22829:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCAGGTG	.	5	BLCA
GAPVD1	0	.	GRCh37	9	128113141	128113141	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3640G>C	p.Glu1214Gln	p.E1214Q	ENST00000394105	22/27	98	94	4	130	130	0	GAPVD1,missense_variant,p.Glu1187Gln,ENST00000297933,;GAPVD1,missense_variant,p.Glu1160Gln,ENST00000470056,;GAPVD1,missense_variant,p.Glu1205Gln,ENST00000394104,;GAPVD1,missense_variant,p.Glu1214Gln,ENST00000394105,;GAPVD1,missense_variant,p.Glu1179Gln,ENST00000265956,;GAPVD1,missense_variant,p.Glu1139Gln,ENST00000394083,;GAPVD1,missense_variant,p.Glu1205Gln,ENST00000495955,;GAPVD1,missense_variant,p.Glu1166Gln,ENST00000312123,;GAPVD1,non_coding_transcript_exon_variant,,ENST00000474637,;GAPVD1,upstream_gene_variant,,ENST00000467707,;	C	ENSG00000165219	ENST00000394105	Transcript	missense_variant	3800	3640	1214	E/Q	Gag/Cag	COSM1314451	.	.	1	GAPVD1	HGNC	23375	protein_coding	YES	CCDS35138.1	ENSP00000377665	GAPD1_HUMAN	C9IZX9_HUMAN	UPI00001D76F1	.	deleterious(0.04)	possibly_damaging(0.647)	22/27	.	hmmpanther:PTHR23101:SF55,hmmpanther:PTHR23101	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCTGAGGAC	.	2	BLCA
SLC2A6	0	.	GRCh37	9	136341379	136341379	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.542C>T	p.Ser181Phe	p.S181F	ENST00000371899	4/10	50	46	4	75	75	0	SLC2A6,missense_variant,p.Ser108Phe,ENST00000414172,;SLC2A6,missense_variant,p.Ser181Phe,ENST00000371899,;SLC2A6,missense_variant,p.Ser181Phe,ENST00000371897,;SLC2A6,missense_variant,p.Ser181Phe,ENST00000432868,;SLC2A6,non_coding_transcript_exon_variant,,ENST00000485978,;	A	ENSG00000160326	ENST00000371899	Transcript	missense_variant	620	542	181	S/F	tCc/tTc	COSM1314599	.	.	-1	SLC2A6	HGNC	11011	protein_coding	YES	CCDS6975.1	ENSP00000360966	GTR6_HUMAN	.	UPI0000001BE8	.	deleterious(0.02)	probably_damaging(0.996)	4/10	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24063,hmmpanther:PTHR24063:SF47,TIGRFAM_domain:TIGR00879,Pfam_domain:PF00083,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACAGGGATCCG	.	3	BLCA
RXRA	0	.	GRCh37	9	137293588	137293588	+	Missense_Mutation	SNP	C	C	G	rs747438088	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.139C>G	p.Leu47Val	p.L47V	ENST00000481739	2/10	89	29	60	137	137	0	RXRA,missense_variant,p.Leu47Val,ENST00000481739,;RXRA,upstream_gene_variant,,ENST00000540193,;RXRA,non_coding_transcript_exon_variant,,ENST00000356384,;RXRA,non_coding_transcript_exon_variant,,ENST00000484822,;	G	ENSG00000186350	ENST00000481739	Transcript	missense_variant	191	139	47	L/V	Ctg/Gtg	rs747438088,COSM1314607	.	.	1	RXRA	HGNC	10477	protein_coding	YES	CCDS35172.1	ENSP00000419692	RXRA_HUMAN	Q6P3U7_HUMAN,F1D8Q5_HUMAN,B3KY83_HUMAN	UPI0000042A9A	.	tolerated_low_confidence(0.08)	benign(0.192)	2/10	.	Pfam_domain:PF11825,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF39	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAGCTGCAT	.	5	BLCA
RP11-383M4.6	0	.	GRCh37	9	84547434	84547434	+	Intron	SNP	G	G	A	rs554959073	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1040-1125C>T	.	.	ENST00000585776	.	43	25	17	17	17	0	RP11-383M4.6,intron_variant,,ENST00000585776,;RP11-383M4.2,upstream_gene_variant,,ENST00000427387,;SPATA31D4,non_coding_transcript_exon_variant,,ENST00000341875,;SPATA31D4,non_coding_transcript_exon_variant,,ENST00000419782,;	A	ENSG00000267559	ENST00000585776	Transcript	intron_variant	.	.	.	.	.	rs554959073	.	.	-1	RP11-383M4.6	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	4/4	.	A:0.0004	A:0.0008	A:0.0014	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GATCCGGAGAC	byFrequency|by1000G	3	BLCA
NAA35	0	.	GRCh37	9	88611429	88611429	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993A>T	p.Arg331Ser	p.R331S	ENST00000361671	12/23	61	19	41	46	46	0	NAA35,missense_variant,p.Arg331Ser,ENST00000361671,;	T	ENSG00000135040	ENST00000361671	Transcript	missense_variant	1126	993	331	R/S	agA/agT	COSM1314996	.	.	1	NAA35	HGNC	24340	protein_coding	YES	CCDS6673.1	ENSP00000354972	NAA35_HUMAN	.	UPI000004FA2B	.	tolerated(0.42)	benign(0)	12/23	.	hmmpanther:PTHR21373	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAGATTAAT	.	5	BLCA
STAG2	0	.	GRCh37	X	123200110	123200110	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2182C>T	p.Gln728Ter	p.Q728*	ENST00000218089	22/35	86	20	66	79	79	0	STAG2,stop_gained,p.Gln728Ter,ENST00000371160,;STAG2,stop_gained,p.Gln659Ter,ENST00000354548,;STAG2,stop_gained,p.Gln728Ter,ENST00000371157,;STAG2,stop_gained,p.Gln728Ter,ENST00000371144,;STAG2,stop_gained,p.Gln728Ter,ENST00000218089,;STAG2,stop_gained,p.Gln728Ter,ENST00000371145,;STAG2,downstream_gene_variant,,ENST00000455404,;STAG2,intron_variant,,ENST00000469481,;STAG2,downstream_gene_variant,,ENST00000483575,;STAG2,downstream_gene_variant,,ENST00000466748,;STAG2,downstream_gene_variant,,ENST00000471107,;	T	ENSG00000101972	ENST00000218089	Transcript	stop_gained	2692	2182	728	Q/*	Cag/Tag	COSM1315179,COSM1315178	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	.	.	22/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGCAGGTT	.	5	BLCA
ARSH	0	.	GRCh37	X	2928167	2928167	+	Silent	SNP	G	G	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>C	p.%3D	p.L63L	ENST00000381130	2/9	22	19	3	21	21	0	ARSH,synonymous_variant,p.%3D,ENST00000381130,;	C	ENSG00000205667	ENST00000381130	Transcript	synonymous_variant	189	189	63	L	ctG/ctC	COSM1315444	.	.	1	ARSH	HGNC	32488	protein_coding	YES	CCDS35198.1	ENSP00000370522	ARSH_HUMAN	.	UPI00001D7C2E	.	.	.	2/9	.	Superfamily_domains:SSF53649,Gene3D:3.40.720.10,Pfam_domain:PF00884,PROSITE_patterns:PS00523,hmmpanther:PTHR10342:SF72,hmmpanther:PTHR10342	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTGACCGG	.	2	BLCA
KDM6A	0	.	GRCh37	X	44949073	44949073	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3634C>T	p.Gln1212Ter	p.Q1212*	ENST00000377967	25/29	39	6	33	45	45	0	KDM6A,stop_gained,p.Gln855Ter,ENST00000433797,;KDM6A,stop_gained,p.Gln810Ter,ENST00000414389,;KDM6A,stop_gained,p.Gln1133Ter,ENST00000543216,;KDM6A,stop_gained,p.Gln1212Ter,ENST00000377967,;KDM6A,stop_gained,p.Gln1219Ter,ENST00000382899,;KDM6A,stop_gained,p.Gln1167Ter,ENST00000536777,;KDM6A,upstream_gene_variant,,ENST00000431196,;KDM6A,downstream_gene_variant,,ENST00000484732,;	T	ENSG00000147050	ENST00000377967	Transcript	stop_gained	3675	3634	1212	Q/*	Cag/Tag	COSM1315520	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	25/29	.	PROSITE_profiles:PS51184,hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017,Pfam_domain:PF02373,SMART_domains:SM00558,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATTCAGCGA	.	5	BLCA
TFE3	0	.	GRCh37	X	48895739	48895739	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763T>G	p.Ser255Ala	p.S255A	ENST00000315869	4/10	31	22	9	22	22	0	TFE3,missense_variant,p.Ser255Ala,ENST00000315869,;TFE3,non_coding_transcript_exon_variant,,ENST00000487451,;TFE3,non_coding_transcript_exon_variant,,ENST00000481606,;TFE3,3_prime_UTR_variant,,ENST00000493583,;	C	ENSG00000068323	ENST00000315869	Transcript	missense_variant	1023	763	255	S/A	Tcc/Gcc	COSM1315559,COSM1315560	.	.	-1	TFE3	HGNC	11752	protein_coding	YES	CCDS14315.3	ENSP00000314129	TFE3_HUMAN	B4DIA5_HUMAN	UPI0000117AE8	.	tolerated(0.07)	benign(0.097)	4/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10014:SF37,hmmpanther:PTHR10014	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGGACCCGA	.	5	BLCA
WNK3	0	.	GRCh37	X	54321194	54321194	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1485A>C	p.Arg495Ser	p.R495S	ENST00000354646	8/24	34	26	8	22	22	0	WNK3,missense_variant,p.Arg495Ser,ENST00000375159,;WNK3,missense_variant,p.Arg495Ser,ENST00000354646,;WNK3,missense_variant,p.Arg495Ser,ENST00000375169,;	G	ENSG00000196632	ENST00000354646	Transcript	missense_variant	1924	1485	495	R/S	agA/agC	COSM1315610	.	.	-1	WNK3	HGNC	14543	protein_coding	YES	CCDS14357.1	ENSP00000346667	WNK3_HUMAN	B1AQN8_HUMAN	UPI00001AF003	.	deleterious(0)	probably_damaging(0.964)	8/24	.	hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF47,Gene3D:3.10.20.90	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCTCTTGT	.	5	BLCA
VSIG4	0	.	GRCh37	X	65253367	65253367	+	Missense_Mutation	SNP	C	C	G	rs773781706	.	TCGA-FD-A3B5-01A-11D-A20D-08	TCGA-FD-A3B5-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361G>C	p.Asp121His	p.D121H	ENST00000374737	2/8	136	122	14	91	91	0	VSIG4,missense_variant,p.Asp121His,ENST00000455586,;VSIG4,missense_variant,p.Asp121His,ENST00000412866,;VSIG4,missense_variant,p.Asp121His,ENST00000374737,;VSIG4,missense_variant,p.Asp48His,ENST00000427538,;	G	ENSG00000155659	ENST00000374737	Transcript	missense_variant	470	361	121	D/H	Gat/Cat	rs773781706,COSM1315636	.	.	-1	VSIG4	HGNC	17032	protein_coding	YES	CCDS14383.1	ENSP00000363869	VSIG4_HUMAN	.	UPI000006F146	.	deleterious(0.01)	possibly_damaging(0.69)	2/8	.	PROSITE_profiles:PS50835,hmmpanther:PTHR15466:SF1,hmmpanther:PTHR15466,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATCAGGAG	byFrequency	4	BLCA
KIAA1598	0	.	GRCh37	10	118764613	118764613	+	5'UTR	SNP	A	A	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-23T>C	.	.	ENST00000355371	1/17	16	7	9	10	10	0	KIAA1598,5_prime_UTR_variant,,ENST00000260777,;KIAA1598,5_prime_UTR_variant,,ENST00000392903,;KIAA1598,5_prime_UTR_variant,,ENST00000355371,;KIAA1598,intron_variant,,ENST00000392901,;	G	ENSG00000187164	ENST00000355371	Transcript	5_prime_UTR_variant	476	.	.	.	.	.	.	.	-1	KIAA1598	HGNC	29319	protein_coding	YES	CCDS44482.1	ENSP00000347532	SHOT1_HUMAN	.	UPI0000404A8F	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATAAAAGG	.	5	BLCA
PDZD8	0	.	GRCh37	10	119044045	119044045	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2199T>A	p.Ser733Arg	p.S733R	ENST00000334464	5/5	19	5	13	30	30	0	PDZD8,missense_variant,p.Ser733Arg,ENST00000334464,;PDZD8,non_coding_transcript_exon_variant,,ENST00000482496,;PDZD8,downstream_gene_variant,,ENST00000489302,;	T	ENSG00000165650	ENST00000334464	Transcript	missense_variant	2439	2199	733	S/R	agT/agA	COSM1296981	.	.	-1	PDZD8	HGNC	26974	protein_coding	YES	CCDS7600.1	ENSP00000334642	PDZD8_HUMAN	.	UPI00000723CC	.	deleterious(0)	probably_damaging(0.998)	5/5	.	hmmpanther:PTHR21519,hmmpanther:PTHR21519:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTAAACTAAC	.	5	BLCA
MKI67	0	.	GRCh37	10	129903242	129903242	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6862C>T	p.Gln2288Ter	p.Q2288*	ENST00000368654	13/15	68	21	47	112	112	0	MKI67,stop_gained,p.Gln2288Ter,ENST00000368654,;MKI67,stop_gained,p.Gln1928Ter,ENST00000368653,;MKI67,upstream_gene_variant,,ENST00000464771,;	A	ENSG00000148773	ENST00000368654	Transcript	stop_gained	7238	6862	2288	Q/*	Cag/Tag	COSM1297065	.	.	-1	MKI67	HGNC	7107	protein_coding	YES	CCDS7659.1	ENSP00000357643	KI67_HUMAN	.	UPI000013DB54	.	.	.	13/15	.	hmmpanther:PTHR21603,hmmpanther:PTHR21603:SF3,Pfam_domain:PF08065	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGCACTG	.	5	BLCA
GPR123	0	.	GRCh37	10	134912182	134912182	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170T>A	p.Leu57Gln	p.L57Q	ENST00000392607	4/7	138	46	92	95	95	0	GPR123,missense_variant,p.Leu777Gln,ENST00000607359,;GPR123,missense_variant,p.Leu57Gln,ENST00000392607,;GPR123,upstream_gene_variant,,ENST00000392606,;	A	ENSG00000197177	ENST00000392607	Transcript	missense_variant	606	170	57	L/Q	cTg/cAg	COSM1297106,COSM1297107	.	.	1	GPR123	HGNC	13838	protein_coding	YES	CCDS41580.1	ENSP00000376384	GP123_HUMAN	.	UPI00003D41AD	.	deleterious(0)	possibly_damaging(0.901)	4/7	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF261,Pfam_domain:PF00002	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCCTGAATT	.	5	BLCA
PRPF18	0	.	GRCh37	10	13655788	13655788	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627T>C	p.%3D	p.Y209Y	ENST00000378572	7/10	56	45	11	47	47	0	PRPF18,synonymous_variant,p.%3D,ENST00000417658,;RP11-295P9.3,synonymous_variant,p.%3D,ENST00000601460,;PRPF18,synonymous_variant,p.%3D,ENST00000378572,;PRPF18,downstream_gene_variant,,ENST00000320054,;RP11-295P9.3,upstream_gene_variant,,ENST00000595538,;	C	ENSG00000165630	ENST00000378572	Transcript	synonymous_variant	787	627	209	Y	taT/taC	COSM1297117	.	.	1	PRPF18	HGNC	17351	protein_coding	YES	CCDS7100.1	ENSP00000367835	PRP18_HUMAN	M0QXX3_HUMAN	UPI0000070C82	.	.	.	7/10	.	Superfamily_domains:0036629,Pfam_domain:PF02840,Gene3D:1dvkA00,hmmpanther:PTHR13007:SF19,hmmpanther:PTHR13007	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTATGTGAA	.	5	BLCA
PFKP	0	.	GRCh37	10	3162099	3162099	+	Silent	SNP	C	C	T	rs377404730	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1546C>T	p.%3D	p.L516L	ENST00000381125	16/22	284	203	80	84	84	0	PFKP,synonymous_variant,p.%3D,ENST00000381125,;PFKP,synonymous_variant,p.%3D,ENST00000381075,;PFKP,intron_variant,,ENST00000413079,;	T	ENSG00000067057	ENST00000381125	Transcript	synonymous_variant	1622	1546	516	L	Ctg/Ttg	rs377404730,COSM1297214,COSM1297215	.	.	1	PFKP	HGNC	8878	protein_coding	YES	CCDS7059.1	ENSP00000370517	K6PP_HUMAN	Q5VSR6_HUMAN,Q5VSR5_HUMAN,B1APP8_HUMAN,B1APP6_HUMAN	UPI00000012D2	.	.	.	16/22	.	Superfamily_domains:SSF53784,PIRSF_domain:PIRSF000533,TIGRFAM_domain:TIGR02478,Pfam_domain:PF00365,Gene3D:3.40.50.450,hmmpanther:PTHR13697:SF5,hmmpanther:PTHR13697	.	.	.	.	.	.	.	G:0	G:0.0002	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTCCTGGAG	byFrequency|byCluster	5	BLCA
ZNF485	0	.	GRCh37	10	44112556	44112556	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1065G>A	p.%3D	p.Q355Q	ENST00000361807	5/5	97	78	19	77	77	0	ZNF485,synonymous_variant,p.%3D,ENST00000374437,;ZNF485,synonymous_variant,p.%3D,ENST00000374435,;ZNF485,synonymous_variant,p.%3D,ENST00000361807,;ZNF485,downstream_gene_variant,,ENST00000430885,;	A	ENSG00000198298	ENST00000361807	Transcript	synonymous_variant	1259	1065	355	Q	caG/caA	COSM1297252,COSM1297251	.	.	1	ZNF485	HGNC	23440	protein_coding	YES	CCDS7205.2	ENSP00000354694	ZN485_HUMAN	C9JV60_HUMAN,B4DSE6_HUMAN,B2R8D6_HUMAN	UPI00000717FE	.	.	.	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,hmmpanther:PTHR24376:SF14,hmmpanther:PTHR24376,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCAGTGTCG	.	5	BLCA
SYT15	0	.	GRCh37	10	46969378	46969378	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83T>C	p.Leu28Pro	p.L28P	ENST00000374321	2/8	243	187	56	86	86	0	SYT15,missense_variant,p.Leu28Pro,ENST00000503753,;SYT15,missense_variant,p.Leu28Pro,ENST00000374321,;SYT15,missense_variant,p.Leu28Pro,ENST00000374325,;SYT15,intron_variant,,ENST00000512997,;SYT15,intron_variant,,ENST00000374323,;SYT15,upstream_gene_variant,,ENST00000374328,;RP11-38L15.3,downstream_gene_variant,,ENST00000506914,;	G	ENSG00000204176	ENST00000374321	Transcript	missense_variant	150	83	28	L/P	cTg/cCg	COSM1297273,COSM1297271,COSM1297272	.	.	-1	SYT15	HGNC	17167	protein_coding	YES	CCDS44376.1	ENSP00000363441	SYT15_HUMAN	.	UPI00001AA161	.	deleterious(0)	probably_damaging(0.982)	2/8	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCACAGACAG	.	5	BLCA
NRBF2	0	.	GRCh37	10	64911926	64911926	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132C>G	p.%3D	p.A44A	ENST00000277746	3/4	60	50	9	40	40	0	NRBF2,synonymous_variant,p.%3D,ENST00000435510,;NRBF2,synonymous_variant,p.%3D,ENST00000277746,;	G	ENSG00000148572	ENST00000277746	Transcript	synonymous_variant	313	132	44	A	gcC/gcG	COSM1297347	.	.	1	NRBF2	HGNC	19692	protein_coding	YES	CCDS7268.1	ENSP00000277746	NRBF2_HUMAN	.	UPI000006D398	.	.	.	3/4	.	hmmpanther:PTHR14964:SF2,hmmpanther:PTHR14964,Superfamily_domains:0052258	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGCCATGAA	.	5	BLCA
CDH23	0	.	GRCh37	10	73574769	73574769	+	Missense_Mutation	SNP	C	C	T	rs201727938	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3079C>T	p.Arg1027Cys	p.R1027C	ENST00000398788	23/23	116	99	17	45	45	0	CDH23,missense_variant,p.Arg1027Cys,ENST00000398788,;CDH23,missense_variant,p.Arg3272Cys,ENST00000224721,;PSAP,downstream_gene_variant,,ENST00000394934,;PSAP,downstream_gene_variant,,ENST00000394936,;CDH23,non_coding_transcript_exon_variant,,ENST00000475158,;PSAP,downstream_gene_variant,,ENST00000493143,;PSAP,downstream_gene_variant,,ENST00000495196,;	T	ENSG00000107736	ENST00000398788	Transcript	missense_variant	3396	3079	1027	R/C	Cgc/Tgc	rs201727938,COSM1297410	.	.	1	CDH23	HGNC	13733	protein_coding	YES	CCDS53540.1	ENSP00000381768	CAD23_HUMAN	.	UPI0000496839	.	deleterious_low_confidence(0)	benign(0.224)	23/23	.	hmmpanther:PTHR24027:SF277,hmmpanther:PTHR24027	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTGCGCTTC	byCluster|by1000G	4	BLCA
CAMK2G	0	.	GRCh37	10	75634270	75634270	+	5'UTR	SNP	C	C	T	rs754492903	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-51G>A	.	.	ENST00000322680	1/21	39	29	10	13	13	0	CAMK2G,5_prime_UTR_variant,,ENST00000322680,;CAMK2G,5_prime_UTR_variant,,ENST00000322635,;CAMK2G,5_prime_UTR_variant,,ENST00000394762,;CAMK2G,5_prime_UTR_variant,,ENST00000423381,;CAMK2G,5_prime_UTR_variant,,ENST00000444854,;CAMK2G,5_prime_UTR_variant,,ENST00000351293,;CAMK2G,upstream_gene_variant,,ENST00000305762,;CAMK2G,upstream_gene_variant,,ENST00000372765,;CAMK2G,non_coding_transcript_exon_variant,,ENST00000472912,;	T	ENSG00000148660	ENST00000322680	Transcript	5_prime_UTR_variant	74	.	.	.	.	rs754492903	.	.	-1	CAMK2G	HGNC	1463	protein_coding	YES	CCDS7338.1	ENSP00000319060	KCC2G_HUMAN	Q13280_HUMAN	UPI000016781F	.	.	.	1/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCACAGTCA	.	5	BLCA
ITIH5	0	.	GRCh37	10	7621948	7621948	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1188G>T	p.%3D	p.R396R	ENST00000256861	9/14	85	40	45	33	33	0	ITIH5,synonymous_variant,p.%3D,ENST00000397146,;ITIH5,synonymous_variant,p.%3D,ENST00000446830,;ITIH5,synonymous_variant,p.%3D,ENST00000298441,;ITIH5,synonymous_variant,p.%3D,ENST00000256861,;ITIH5,synonymous_variant,p.%3D,ENST00000397145,;ITIH5,non_coding_transcript_exon_variant,,ENST00000434980,;ITIH5,upstream_gene_variant,,ENST00000492668,;ITIH5,3_prime_UTR_variant,,ENST00000461751,;ITIH5,non_coding_transcript_exon_variant,,ENST00000476417,;ITIH5,upstream_gene_variant,,ENST00000468389,;	A	ENSG00000123243	ENST00000256861	Transcript	synonymous_variant	1267	1188	396	R	cgG/cgT	COSM1297438,COSM1297439	.	.	-1	ITIH5	HGNC	21449	protein_coding	YES	.	ENSP00000256861	ITIH5_HUMAN	.	UPI00001F8AF3	.	.	.	9/14	.	PROSITE_profiles:PS50234,hmmpanther:PTHR10338:SF62,hmmpanther:PTHR10338,Pfam_domain:PF00092,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCTCCGGTC	.	5	BLCA
IFIT2	0	.	GRCh37	10	91065822	91065822	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111delA	p.Val38TyrfsTer23	p.V38Yfs*23	ENST00000371826	2/2	43	31	12	39	39	0	IFIT2,frameshift_variant,p.Val38TyrfsTer23,ENST00000371826,;LIPA,intron_variant,,ENST00000371837,;LIPA,intron_variant,,ENST00000282673,;LIPA,intron_variant,,ENST00000487618,;LIPA,intron_variant,,ENST00000463623,;	-	ENSG00000119922	ENST00000371826	Transcript	frameshift_variant	278	109	37	K/X	Aaa/aa	.	.	.	1	IFIT2	HGNC	5409	protein_coding	YES	CCDS41548.1	ENSP00000360891	IFIT2_HUMAN	.	UPI000012D3E4	.	.	.	2/2	.	hmmpanther:PTHR10271:SF4,hmmpanther:PTHR10271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAAGACAAAGTA	.	3	BLCA
PLCE1	0	.	GRCh37	10	96025625	96025625	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4191C>T	p.%3D	p.P1397P	ENST00000371380	15/32	23	4	19	43	43	0	PLCE1,synonymous_variant,p.%3D,ENST00000371380,;PLCE1,synonymous_variant,p.%3D,ENST00000260766,;PLCE1,synonymous_variant,p.%3D,ENST00000371375,;PLCE1,synonymous_variant,p.%3D,ENST00000371385,;	T	ENSG00000138193	ENST00000371380	Transcript	synonymous_variant	4426	4191	1397	P	ccC/ccT	COSM1297520,COSM1297518,COSM1297519	.	.	1	PLCE1	HGNC	17175	protein_coding	YES	CCDS41552.1	ENSP00000360431	PLCE1_HUMAN	B7ZM61_HUMAN	UPI00001F93EE	.	.	.	15/32	.	Prints_domain:PR00390,Superfamily_domains:SSF51695,SMART_domains:SM00148,Pfam_domain:PF00388,Gene3D:3.20.20.190,hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF6,PROSITE_profiles:PS50007	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACCCCTCTC	.	5	BLCA
KMT2A	0	.	GRCh37	11	118368671	118368671	+	Nonsense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5685T>G	p.Tyr1895Ter	p.Y1895*	ENST00000534358	21/36	48	33	14	70	70	0	KMT2A,stop_gained,p.Tyr1892Ter,ENST00000389506,;KMT2A,stop_gained,p.Tyr1854Ter,ENST00000354520,;KMT2A,stop_gained,p.Tyr1895Ter,ENST00000534358,;KMT2A,upstream_gene_variant,,ENST00000528278,;	G	ENSG00000118058	ENST00000534358	Transcript	stop_gained	5708	5685	1895	Y/*	taT/taG	COSM1297696,COSM1297695	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	.	21/36	.	hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATATATTGG	.	5	BLCA
HSPA8	0	.	GRCh37	11	122929417	122929417	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1445C>T	p.Ala482Val	p.A482V	ENST00000534624	7/9	70	39	31	84	84	0	HSPA8,missense_variant,p.Ala246Val,ENST00000534319,;HSPA8,missense_variant,p.Ala463Val,ENST00000526110,;HSPA8,missense_variant,p.Ala73Val,ENST00000524552,;HSPA8,missense_variant,p.Ala482Val,ENST00000227378,;HSPA8,missense_variant,p.Ala482Val,ENST00000532636,;HSPA8,missense_variant,p.Ala336Val,ENST00000533540,;HSPA8,missense_variant,p.Ala34Val,ENST00000526686,;HSPA8,missense_variant,p.Ala482Val,ENST00000534624,;HSPA8,intron_variant,,ENST00000453788,;HSPA8,downstream_gene_variant,,ENST00000525463,;HSPA8,downstream_gene_variant,,ENST00000525624,;HSPA8,downstream_gene_variant,,ENST00000528292,;HSPA8,downstream_gene_variant,,ENST00000532182,;HSPA8,downstream_gene_variant,,ENST00000534567,;HSPA8,downstream_gene_variant,,ENST00000530391,;HSPA8,downstream_gene_variant,,ENST00000527387,;HSPA8,downstream_gene_variant,,ENST00000524590,;SNORD14D,downstream_gene_variant,,ENST00000384390,;SNORD14E,upstream_gene_variant,,ENST00000364009,;SNORD14C,downstream_gene_variant,,ENST00000365382,;HSPA8,downstream_gene_variant,,ENST00000526862,;HSPA8,downstream_gene_variant,,ENST00000533238,;HSPA8,non_coding_transcript_exon_variant,,ENST00000532091,;HSPA8,downstream_gene_variant,,ENST00000527983,;HSPA8,downstream_gene_variant,,ENST00000532780,;HSPA8,downstream_gene_variant,,ENST00000531063,;HSPA8,downstream_gene_variant,,ENST00000532167,;	A	ENSG00000109971	ENST00000534624	Transcript	missense_variant	1722	1445	482	A/V	gCc/gTc	COSM1297757	.	.	-1	HSPA8	HGNC	5241	protein_coding	YES	CCDS8440.1	ENSP00000432083	HSP7C_HUMAN	Q9NZ87_HUMAN,Q96IS6_HUMAN,Q96H53_HUMAN,Q96BE0_HUMAN,E9PS65_HUMAN,E9PQQ4_HUMAN,E9PQK7_HUMAN,E9PPY6_HUMAN,E9PN89_HUMAN,E9PN25_HUMAN,E9PM13_HUMAN,E9PLF4_HUMAN,E9PK54_HUMAN,A8K7Q2_HUMAN	UPI0000000801	.	deleterious_low_confidence(0.02)	benign(0.016)	7/9	.	hmmpanther:PTHR19375,hmmpanther:PTHR19375:SF156,Pfam_domain:PF00012,Gene3D:2.60.34.10,Superfamily_domains:SSF100920,Prints_domain:PR00301	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTGGCATCA	.	5	BLCA
E2F8	0	.	GRCh37	11	19253864	19253864	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.983T>C	p.Ile328Thr	p.I328T	ENST00000527884	7/13	58	23	35	90	90	0	E2F8,missense_variant,p.Ile328Thr,ENST00000527884,;E2F8,missense_variant,p.Ile328Thr,ENST00000250024,;RP11-428C19.4,intron_variant,,ENST00000527978,;	G	ENSG00000129173	ENST00000527884	Transcript	missense_variant	1216	983	328	I/T	aTc/aCc	COSM1297910	.	.	-1	E2F8	HGNC	24727	protein_coding	YES	CCDS7849.1	ENSP00000434199	E2F8_HUMAN	E9PMT9_HUMAN	UPI00001F9E94	.	deleterious(0)	probably_damaging(1)	7/13	.	hmmpanther:PTHR12081,hmmpanther:PTHR12081:SF40,Pfam_domain:PF02319,Gene3D:1.10.10.10,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTGATAAGA	.	5	BLCA
NLRP6	0	.	GRCh37	11	285201	285201	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2576A>G	p.Gln859Arg	p.Q859R	ENST00000312165	8/8	24	15	8	13	13	0	NLRP6,missense_variant,p.Gln858Arg,ENST00000534750,;NLRP6,missense_variant,p.Gln859Arg,ENST00000312165,;ATHL1,upstream_gene_variant,,ENST00000409655,;ATHL1,upstream_gene_variant,,ENST00000409479,;ATHL1,upstream_gene_variant,,ENST00000409548,;RP11-326C3.2,upstream_gene_variant,,ENST00000525217,;RP11-326C3.2,upstream_gene_variant,,ENST00000533924,;RP11-326C3.2,upstream_gene_variant,,ENST00000534742,;ATHL1,upstream_gene_variant,,ENST00000529087,;ATHL1,upstream_gene_variant,,ENST00000482937,;ATHL1,upstream_gene_variant,,ENST00000474221,;	G	ENSG00000174885	ENST00000312165	Transcript	missense_variant	2576	2576	859	Q/R	cAg/cGg	COSM1297945	.	.	1	NLRP6	HGNC	22944	protein_coding	YES	CCDS7693.1	ENSP00000309767	NALP6_HUMAN	.	UPI00001AEFE1	.	tolerated(0.41)	benign(0.002)	8/8	.	Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTACAGGAGC	.	5	BLCA
CARS	0	.	GRCh37	11	3026647	3026647	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2166G>A	p.%3D	p.V722V	ENST00000380525	20/23	80	45	34	105	105	0	CARS,synonymous_variant,p.%3D,ENST00000278224,;CARS,synonymous_variant,p.%3D,ENST00000397111,;CARS,synonymous_variant,p.%3D,ENST00000380525,;CARS,synonymous_variant,p.%3D,ENST00000397114,;CARS,synonymous_variant,p.%3D,ENST00000401769,;CARS,non_coding_transcript_exon_variant,,ENST00000470221,;CARS,3_prime_UTR_variant,,ENST00000529772,;CARS,3_prime_UTR_variant,,ENST00000531387,;CARS,non_coding_transcript_exon_variant,,ENST00000484484,;CARS,non_coding_transcript_exon_variant,,ENST00000526890,;CARS,non_coding_transcript_exon_variant,,ENST00000466442,;	T	ENSG00000110619	ENST00000380525	Transcript	synonymous_variant	2236	2166	722	V	gtG/gtA	COSM1297950,COSM1297949	.	.	-1	CARS	HGNC	1493	protein_coding	YES	CCDS41600.1	ENSP00000369897	SYCC_HUMAN	.	UPI00004C4152	.	.	.	20/23	.	HAMAP:MF_00041,hmmpanther:PTHR10890,hmmpanther:PTHR10890:SF3	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCACCAC	.	5	BLCA
DCDC1	0	.	GRCh37	11	30914479	30914479	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4959A>G	p.Ile1653Met	p.I1653M	ENST00000597505	34/36	48	37	10	90	90	0	DCDC1,missense_variant,p.Ile1653Met,ENST00000597505,;DCDC1,missense_variant,p.Ile391Met,ENST00000406071,;DCDC1,missense_variant,p.Ile344Met,ENST00000303697,;DCDC1,missense_variant,p.Ile688Met,ENST00000444572,;DCDC1,non_coding_transcript_exon_variant,,ENST00000483396,;	C	ENSG00000170959	ENST00000597505	Transcript	missense_variant	4959	4959	1653	I/M	atA/atG	COSM1297951	.	.	-1	DCDC1	HGNC	20625	protein_coding	.	.	ENSP00000472625	.	M0R2J8_HUMAN	UPI0002A47319	.	tolerated(0.12)	possibly_damaging(0.506)	34/36	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGCTATACG	.	5	BLCA
SLC1A2	0	.	GRCh37	11	35287040	35287040	+	Intron	SNP	T	T	C	rs771348409	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1653+34A>G	.	.	ENST00000278379	.	22	17	5	32	32	0	SLC1A2,missense_variant,p.Ile563Val,ENST00000606205,;SLC1A2,intron_variant,,ENST00000395753,;SLC1A2,intron_variant,,ENST00000395750,;SLC1A2,intron_variant,,ENST00000464522,;SLC1A2,intron_variant,,ENST00000278379,;SLC1A2,downstream_gene_variant,,ENST00000531628,;SLC1A2,intron_variant,,ENST00000479543,;	C	ENSG00000110436	ENST00000278379	Transcript	intron_variant	.	.	.	.	.	rs771348409	.	.	-1	SLC1A2	HGNC	10940	protein_coding	YES	CCDS31459.1	ENSP00000278379	EAA2_HUMAN	A2A2U1_HUMAN	UPI0000129B12	.	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTATATACAAG	.	2	BLCA
CRY2	0	.	GRCh37	11	45891186	45891186	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075C>T	p.Pro359Ser	p.P359S	ENST00000443527	7/12	229	179	50	132	132	0	CRY2,missense_variant,p.Pro359Ser,ENST00000443527,;CRY2,missense_variant,p.Pro277Ser,ENST00000417225,;CRY2,non_coding_transcript_exon_variant,,ENST00000495237,;CRY2,non_coding_transcript_exon_variant,,ENST00000496667,;CRY2,upstream_gene_variant,,ENST00000488962,;CRY2,downstream_gene_variant,,ENST00000525110,;	T	ENSG00000121671	ENST00000443527	Transcript	missense_variant	1097	1075	359	P/S	Ccc/Tcc	COSM1298046	.	.	1	CRY2	HGNC	2385	protein_coding	YES	CCDS7915.2	ENSP00000406751	.	B4DZD6_HUMAN,B4DIJ2_HUMAN,A2I2P1_HUMAN	UPI000174F724	.	deleterious(0.03)	possibly_damaging(0.821)	7/12	.	hmmpanther:PTHR11455,hmmpanther:PTHR11455:SF15,Gene3D:1owlA03,Pfam_domain:PF03441,Superfamily_domains:SSF48173	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATCCCCTGG	.	5	BLCA
OR4A16	0	.	GRCh37	11	55111294	55111294	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618G>A	p.Met206Ile	p.M206I	ENST00000314721	1/1	110	96	14	123	123	0	OR4A16,missense_variant,p.Met206Ile,ENST00000314721,;	A	ENSG00000181961	ENST00000314721	Transcript	missense_variant	668	618	206	M/I	atG/atA	COSM1298133	.	.	1	OR4A16	HGNC	15153	protein_coding	YES	CCDS31499.1	ENSP00000325128	O4A16_HUMAN	.	UPI0000061EB2	.	tolerated_low_confidence(0.58)	benign(0.034)	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF13853,hmmpanther:PTHR26451:SF153,hmmpanther:PTHR26451,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTATGGTCAT	.	4	BLCA
OR52N5	0	.	GRCh37	11	5799737	5799737	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.128A>T	p.Tyr43Phe	p.Y43F	ENST00000317093	1/1	97	43	53	141	141	0	OR52N5,missense_variant,p.Tyr43Phe,ENST00000317093,;TRIM5,intron_variant,,ENST00000412903,;TRIM5,intron_variant,,ENST00000380027,;	A	ENSG00000181009	ENST00000317093	Transcript	missense_variant	161	128	43	Y/F	tAc/tTc	COSM1298226	.	.	-1	OR52N5	HGNC	15231	protein_coding	YES	CCDS31397.1	ENSP00000322866	O52N5_HUMAN	.	UPI0000041BF9	.	deleterious(0.03)	possibly_damaging(0.756)	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR26450:SF18,hmmpanther:PTHR26450,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGTACATT	.	5	BLCA
HRASLS5	0	.	GRCh37	11	63233662	63233662	+	Missense_Mutation	SNP	T	T	C	rs751385656	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.667A>G	p.Ile223Val	p.I223V	ENST00000301790	5/6	69	51	17	100	100	0	HRASLS5,missense_variant,p.Ile213Val,ENST00000540857,;HRASLS5,missense_variant,p.Ile223Val,ENST00000539221,;HRASLS5,missense_variant,p.Ile5Val,ENST00000538712,;HRASLS5,missense_variant,p.Ile223Val,ENST00000301790,;HRASLS5,3_prime_UTR_variant,,ENST00000394615,;HRASLS5,3_prime_UTR_variant,,ENST00000536887,;	C	ENSG00000168004	ENST00000301790	Transcript	missense_variant	827	667	223	I/V	Atc/Gtc	rs751385656,COSM1298348	.	.	-1	HRASLS5	HGNC	24978	protein_coding	YES	CCDS8044.1	ENSP00000301790	HRSL5_HUMAN	F5H4Q3_HUMAN	UPI000013E758	.	tolerated(1)	benign(0.014)	5/6	.	hmmpanther:PTHR13943,hmmpanther:PTHR13943:SF2,Pfam_domain:PF04970	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.I223I|c.669C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGATCTTGT	byFrequency	5	BLCA
PRDX5	0	.	GRCh37	11	64085714	64085714	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27G>A	p.%3D	p.L9L	ENST00000265462	1/6	144	112	31	70	70	0	PRDX5,synonymous_variant,p.%3D,ENST00000265462,;PRDX5,synonymous_variant,p.%3D,ENST00000352435,;PRDX5,synonymous_variant,p.%3D,ENST00000347941,;TRMT112,upstream_gene_variant,,ENST00000544844,;ESRRA,downstream_gene_variant,,ENST00000545035,;ESRRA,downstream_gene_variant,,ENST00000405666,;TRMT112,upstream_gene_variant,,ENST00000535750,;ESRRA,downstream_gene_variant,,ENST00000000442,;TRMT112,upstream_gene_variant,,ENST00000308774,;ESRRA,downstream_gene_variant,,ENST00000406310,;TRMT112,upstream_gene_variant,,ENST00000539854,;ESRRA,downstream_gene_variant,,ENST00000539594,;TRMT112,upstream_gene_variant,,ENST00000535126,;TRMT112,upstream_gene_variant,,ENST00000537918,;ESRRA,downstream_gene_variant,,ENST00000467987,;	A	ENSG00000126432	ENST00000265462	Transcript	synonymous_variant	155	27	9	L	ctG/ctA	COSM1298371	.	.	1	PRDX5	HGNC	9355	protein_coding	YES	CCDS8069.1	ENSP00000265462	PRDX5_HUMAN	.	UPI000013D62C	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTGAGACG	.	5	BLCA
NRXN2	0	.	GRCh37	11	64480980	64480980	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192G>T	p.%3D	p.A64A	ENST00000265459	2/23	24	7	17	11	11	0	NRXN2,synonymous_variant,p.%3D,ENST00000377551,;NRXN2,synonymous_variant,p.%3D,ENST00000265459,;NRXN2,synonymous_variant,p.%3D,ENST00000409571,;NRXN2,synonymous_variant,p.%3D,ENST00000377559,;NRXN2,upstream_gene_variant,,ENST00000417749,;NRXN2,upstream_gene_variant,,ENST00000442300,;NRXN2,upstream_gene_variant,,ENST00000437746,;NRXN2,non_coding_transcript_exon_variant,,ENST00000466324,;	A	ENSG00000110076	ENST00000265459	Transcript	synonymous_variant	654	192	64	A	gcG/gcT	COSM1298383	.	.	-1	NRXN2	HGNC	8009	protein_coding	YES	CCDS8077.1	ENSP00000265459	NRX2A_HUMAN	.	UPI0000130AA2	.	.	.	2/23	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF593,hmmpanther:PTHR10127,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	AGCAGCGCGCG	.	4	BLCA
AP5B1	0	.	GRCh37	11	65547232	65547232	+	Silent	SNP	T	T	A	rs369935368	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.732A>T	p.%3D	p.A244A	ENST00000532090	2/2	290	129	161	133	133	0	AP5B1,synonymous_variant,p.%3D,ENST00000532090,;AP001266.1,non_coding_transcript_exon_variant,,ENST00000316846,;	A	ENSG00000254470	ENST00000532090	Transcript	synonymous_variant	943	732	244	A	gcA/gcT	rs369935368,COSM1298431,COSM1298432	.	.	-1	AP5B1	HGNC	25104	protein_coding	YES	CCDS58146.1	ENSP00000454303	AP5B1_HUMAN	.	UPI00001FAC4D	.	.	.	2/2	.	.	.	.	.	.	.	.	.	G:0.0002	G:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGCTGCCGG	byCluster	5	BLCA
RRP8	0	.	GRCh37	11	6621449	6621449	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1298G>A	p.Gly433Glu	p.G433E	ENST00000254605	7/7	50	22	27	46	46	0	RRP8,missense_variant,p.Gly117Glu,ENST00000534343,;RRP8,missense_variant,p.Gly433Glu,ENST00000254605,;ILK,upstream_gene_variant,,ENST00000528995,;ILK,upstream_gene_variant,,ENST00000420936,;ILK,upstream_gene_variant,,ENST00000396751,;ILK,upstream_gene_variant,,ENST00000537806,;ILK,upstream_gene_variant,,ENST00000299421,;RP11-732A19.8,downstream_gene_variant,,ENST00000527191,;ILK,upstream_gene_variant,,ENST00000534565,;ILK,upstream_gene_variant,,ENST00000526318,;RRP8,3_prime_UTR_variant,,ENST00000533907,;RRP8,non_coding_transcript_exon_variant,,ENST00000526352,;ILK,upstream_gene_variant,,ENST00000526114,;ILK,upstream_gene_variant,,ENST00000527394,;ILK,upstream_gene_variant,,ENST00000527327,;ILK,upstream_gene_variant,,ENST00000532063,;ILK,upstream_gene_variant,,ENST00000527121,;RRP8,downstream_gene_variant,,ENST00000530762,;	T	ENSG00000132275	ENST00000254605	Transcript	missense_variant	1416	1298	433	G/E	gGg/gAg	COSM1298459	.	.	-1	RRP8	HGNC	29030	protein_coding	YES	CCDS31411.1	ENSP00000254605	RRP8_HUMAN	E9PPY3_HUMAN	UPI00001580F8	.	tolerated(0.15)	probably_damaging(0.921)	7/7	.	hmmpanther:PTHR12787,hmmpanther:PTHR12787:SF0,Pfam_domain:PF05148	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGCCCAGTC	.	5	BLCA
DCHS1	0	.	GRCh37	11	6652344	6652344	+	Silent	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3870A>T	p.%3D	p.T1290T	ENST00000299441	9/21	38	23	15	29	29	0	DCHS1,synonymous_variant,p.%3D,ENST00000299441,;RP11-732A19.6,intron_variant,,ENST00000526633,;	A	ENSG00000166341	ENST00000299441	Transcript	synonymous_variant	4282	3870	1290	T	acA/acT	COSM1298482	.	.	-1	DCHS1	HGNC	13681	protein_coding	YES	CCDS7771.1	ENSP00000299441	PCD16_HUMAN	.	UPI00001313B6	.	.	.	9/21	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24027:SF294,hmmpanther:PTHR24027,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCAGTGTCAG	.	5	BLCA
TCIRG1	0	.	GRCh37	11	67816717	67816717	+	Missense_Mutation	SNP	C	C	T	rs753897523	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1843C>T	p.Leu615Phe	p.L615F	ENST00000265686	15/20	268	208	60	200	200	0	TCIRG1,missense_variant,p.Leu399Phe,ENST00000532635,;TCIRG1,missense_variant,p.Leu615Phe,ENST00000265686,;TCIRG1,downstream_gene_variant,,ENST00000524598,;TCIRG1,downstream_gene_variant,,ENST00000529364,;CHKA,downstream_gene_variant,,ENST00000265689,;CHKA,downstream_gene_variant,,ENST00000356135,;TCIRG1,upstream_gene_variant,,ENST00000530063,;RP11-802E16.3,upstream_gene_variant,,ENST00000526897,;RP11-802E16.3,upstream_gene_variant,,ENST00000529934,;RP11-802E16.3,upstream_gene_variant,,ENST00000534517,;TCIRG1,upstream_gene_variant,,ENST00000530802,;CHKA,downstream_gene_variant,,ENST00000533728,;TCIRG1,non_coding_transcript_exon_variant,,ENST00000524870,;TCIRG1,non_coding_transcript_exon_variant,,ENST00000533005,;TCIRG1,non_coding_transcript_exon_variant,,ENST00000525724,;CHKA,downstream_gene_variant,,ENST00000525155,;TCIRG1,downstream_gene_variant,,ENST00000528981,;TCIRG1,downstream_gene_variant,,ENST00000525516,;TCIRG1,upstream_gene_variant,,ENST00000530449,;	T	ENSG00000110719	ENST00000265686	Transcript	missense_variant	1951	1843	615	L/F	Ctc/Ttc	rs753897523,COSM1298510	.	.	1	TCIRG1	HGNC	11647	protein_coding	YES	CCDS8177.1	ENSP00000265686	VPP3_HUMAN	Q6QBN6_HUMAN,E9PM12_HUMAN	UPI000006EC9A	.	deleterious(0)	probably_damaging(0.993)	15/20	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11629:SF21,hmmpanther:PTHR11629,Pfam_domain:PF01496,PIRSF_domain:PIRSF001293	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTCCTCTTC	byFrequency	5	BLCA
LRP5	0	.	GRCh37	11	68207303	68207303	+	Silent	SNP	G	G	T	rs763815058	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4407G>T	p.%3D	p.G1469G	ENST00000294304	21/23	72	36	35	44	44	0	LRP5,synonymous_variant,p.%3D,ENST00000294304,;LRP5,upstream_gene_variant,,ENST00000529702,;LRP5,3_prime_UTR_variant,,ENST00000529993,;LRP5,non_coding_transcript_exon_variant,,ENST00000533695,;	T	ENSG00000162337	ENST00000294304	Transcript	synonymous_variant	4513	4407	1469	G	ggG/ggT	rs763815058,COSM1298520	.	.	1	LRP5	HGNC	6697	protein_coding	YES	CCDS8181.1	ENSP00000294304	LRP5_HUMAN	E9PHY1_HUMAN	UPI0000073246	.	.	.	21/23	.	PIRSF_domain:PIRSF036314,hmmpanther:PTHR10529:SF202,hmmpanther:PTHR10529	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGGGGTGCC	.	5	BLCA
MYO7A	0	.	GRCh37	11	76915135	76915135	+	Missense_Mutation	SNP	A	A	G	rs370585017	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5341A>G	p.Met1781Val	p.M1781V	ENST00000409709	39/49	18	14	4	14	14	0	MYO7A,missense_variant,p.Met923Val,ENST00000458169,;MYO7A,missense_variant,p.Met1732Val,ENST00000409619,;MYO7A,missense_variant,p.Met1781Val,ENST00000409709,;MYO7A,missense_variant,p.Met1743Val,ENST00000458637,;MYO7A,non_coding_transcript_exon_variant,,ENST00000605744,;MYO7A,non_coding_transcript_exon_variant,,ENST00000481328,;	G	ENSG00000137474	ENST00000409709	Transcript	missense_variant	5613	5341	1781	M/V	Atg/Gtg	rs370585017,COSM1298639	.	.	1	MYO7A	HGNC	7606	protein_coding	YES	CCDS53683.1	ENSP00000386331	MYO7A_HUMAN	.	UPI00001FAFE6	.	deleterious(0)	benign(0.029)	39/49	.	PROSITE_profiles:PS51016,SMART_domains:SM00139	.	.	.	.	.	.	.	C:0.0002	C:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTACATGGGC	byCluster	5	BLCA
NAALAD2	0	.	GRCh37	11	89867894	89867894	+	5'UTR	SNP	A	A	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-33A>G	.	.	ENST00000534061	1/19	48	39	9	45	45	0	NAALAD2,5_prime_UTR_variant,,ENST00000534061,;NAALAD2,5_prime_UTR_variant,,ENST00000525497,;NAALAD2,5_prime_UTR_variant,,ENST00000321955,;NAALAD2,upstream_gene_variant,,ENST00000526637,;NAALAD2,upstream_gene_variant,,ENST00000375944,;NAALAD2,upstream_gene_variant,,ENST00000525171,;NAALAD2,5_prime_UTR_variant,,ENST00000527493,;NAALAD2,non_coding_transcript_exon_variant,,ENST00000524501,;NAALAD2,non_coding_transcript_exon_variant,,ENST00000529090,;	G	ENSG00000077616	ENST00000534061	Transcript	5_prime_UTR_variant	198	.	.	.	.	.	.	.	1	NAALAD2	HGNC	14526	protein_coding	YES	CCDS8288.1	ENSP00000432481	NALD2_HUMAN	E9PJ53_HUMAN,E9PII2_HUMAN	UPI0000031A85	.	.	.	1/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGTAGCAGG	.	5	BLCA
PAH	0	.	GRCh37	12	103246694	103246694	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.741C>T	p.%3D	p.G247G	ENST00000553106	7/13	36	22	14	63	63	0	PAH,synonymous_variant,p.%3D,ENST00000553106,;PAH,synonymous_variant,p.%3D,ENST00000307000,;PAH,downstream_gene_variant,,ENST00000551988,;PAH,non_coding_transcript_exon_variant,,ENST00000549247,;PAH,downstream_gene_variant,,ENST00000549111,;PAH,upstream_gene_variant,,ENST00000551114,;	A	ENSG00000171759	ENST00000553106	Transcript	synonymous_variant	1214	741	247	G	ggC/ggT	COSM1298834	.	.	-1	PAH	HGNC	8582	protein_coding	YES	CCDS9092.1	ENSP00000448059	PH4H_HUMAN	F8W1D4_HUMAN,F8W0A0_HUMAN	UPI00001318A0	.	.	.	7/13	.	Prints_domain:PR00372,Superfamily_domains:SSF56534,PIRSF_domain:PIRSF000336,Pfam_domain:PF00351,TIGRFAM_domain:TIGR01268,Gene3D:1.10.800.10,hmmpanther:PTHR11473,PROSITE_profiles:PS51410	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGCAGGCCAGC	.	4	BLCA
FICD	0	.	GRCh37	12	108912880	108912880	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1005A>G	p.%3D	p.V335V	ENST00000552695	3/3	86	40	46	69	69	0	FICD,synonymous_variant,p.%3D,ENST00000552695,;FICD,3_prime_UTR_variant,,ENST00000361549,;FICD,intron_variant,,ENST00000549641,;SART3,downstream_gene_variant,,ENST00000228284,;FICD,downstream_gene_variant,,ENST00000552758,;SART3,downstream_gene_variant,,ENST00000547397,;SART3,downstream_gene_variant,,ENST00000431469,;SART3,downstream_gene_variant,,ENST00000546728,;	G	ENSG00000198855	ENST00000552695	Transcript	synonymous_variant	1240	1005	335	V	gtA/gtG	COSM1298875	.	.	1	FICD	HGNC	18416	protein_coding	YES	CCDS9116.1	ENSP00000446479	FICD_HUMAN	.	UPI0000048F49	.	.	.	3/3	.	PROSITE_profiles:PS51459,hmmpanther:PTHR13504,hmmpanther:PTHR13504:SF12,Gene3D:1.10.3290.10,Pfam_domain:PF02661,Superfamily_domains:SSF140931	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTACAGTG	.	5	BLCA
CIT	0	.	GRCh37	12	120288005	120288005	+	Silent	SNP	G	G	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.489C>A	p.%3D	p.A163A	ENST00000392521	5/48	169	94	74	281	281	0	CIT,synonymous_variant,p.%3D,ENST00000261833,;CIT,synonymous_variant,p.%3D,ENST00000536325,;CIT,synonymous_variant,p.%3D,ENST00000392521,;	T	ENSG00000122966	ENST00000392521	Transcript	synonymous_variant	545	489	163	A	gcC/gcA	.	.	.	-1	CIT	HGNC	1985	protein_coding	YES	CCDS55891.1	ENSP00000376306	CTRO_HUMAN	.	UPI0000683C41	.	.	.	5/48	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF038145,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF26,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAAGGCATA	.	5	BLCA
CIT	0	.	GRCh37	12	120288006	120288006	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488C>A	p.Ala163Asp	p.A163D	ENST00000392521	5/48	169	93	75	280	280	0	CIT,missense_variant,p.Ala163Asp,ENST00000261833,;CIT,missense_variant,p.Ala80Asp,ENST00000536325,;CIT,missense_variant,p.Ala163Asp,ENST00000392521,;	T	ENSG00000122966	ENST00000392521	Transcript	missense_variant	544	488	163	A/D	gCc/gAc	.	.	.	-1	CIT	HGNC	1985	protein_coding	YES	CCDS55891.1	ENSP00000376306	CTRO_HUMAN	.	UPI0000683C41	.	deleterious(0)	probably_damaging(0.977)	5/48	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF038145,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF26,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAGGCATAC	.	5	BLCA
KDM2B	0	.	GRCh37	12	121947735	121947735	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1282G>T	p.Glu428Ter	p.E428*	ENST00000377071	11/23	51	36	15	38	37	0	KDM2B,stop_gained,p.Glu391Ter,ENST00000446152,;KDM2B,stop_gained,p.Glu311Ter,ENST00000536437,;KDM2B,stop_gained,p.Glu428Ter,ENST00000377071,;KDM2B,stop_gained,p.Glu397Ter,ENST00000377069,;KDM2B,stop_gained,p.Glu338Ter,ENST00000538046,;KDM2B,downstream_gene_variant,,ENST00000545022,;KDM2B,upstream_gene_variant,,ENST00000542973,;KDM2B,downstream_gene_variant,,ENST00000538379,;KDM2B,downstream_gene_variant,,ENST00000541318,;KDM2B,downstream_gene_variant,,ENST00000542030,;KDM2B,3_prime_UTR_variant,,ENST00000543025,;KDM2B,non_coding_transcript_exon_variant,,ENST00000538503,;	A	ENSG00000089094	ENST00000377071	Transcript	stop_gained	1355	1282	428	E/*	Gag/Tag	COSM1299023,COSM1299022	.	.	-1	KDM2B	HGNC	13610	protein_coding	YES	CCDS41850.1	ENSP00000366271	KDM2B_HUMAN	F5H7T7_HUMAN,F5H6N6_HUMAN,F5H4A7_HUMAN,F5GXC2_HUMAN	UPI000006F36E	.	.	.	11/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23123:SF10,hmmpanther:PTHR23123	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCCTCGT	.	5	BLCA
BRI3BP	0	.	GRCh37	12	125497182	125497182	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316G>A	p.Val106Ile	p.V106I	ENST00000341446	2/3	155	125	29	212	212	0	BRI3BP,missense_variant,p.Val106Ile,ENST00000341446,;	A	ENSG00000184992	ENST00000341446	Transcript	missense_variant	407	316	106	V/I	Gtc/Atc	COSM1299107	.	.	1	BRI3BP	HGNC	14251	protein_coding	YES	CCDS9262.1	ENSP00000340761	BRI3B_HUMAN	.	UPI000006D8B0	.	deleterious(0.05)	benign(0.106)	2/3	.	hmmpanther:PTHR31253,hmmpanther:PTHR31253:SF0,Pfam_domain:PF14965	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGACGGTAGG	.	5	BLCA
KIF21A	0	.	GRCh37	12	39763563	39763563	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418C>A	p.Pro140Thr	p.P140T	ENST00000361418	3/38	14	10	4	34	34	0	KIF21A,missense_variant,p.Pro140Thr,ENST00000541463,;KIF21A,missense_variant,p.Pro140Thr,ENST00000361961,;KIF21A,missense_variant,p.Pro140Thr,ENST00000361418,;KIF21A,missense_variant,p.Pro140Thr,ENST00000544797,;KIF21A,missense_variant,p.Pro140Thr,ENST00000395670,;KIF21A,upstream_gene_variant,,ENST00000552908,;	T	ENSG00000139116	ENST00000361418	Transcript	missense_variant	434	418	140	P/T	Cca/Aca	COSM1299338	.	.	-1	KIF21A	HGNC	19349	protein_coding	YES	CCDS53776.1	ENSP00000354878	KI21A_HUMAN	.	UPI0000212ED9	.	deleterious(0)	probably_damaging(0.971)	3/38	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF398,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	ATCTGGAGCAG	.	4	BLCA
NELL2	0	.	GRCh37	12	44917077	44917077	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2145T>C	p.%3D	p.C715C	ENST00000437801	18/21	112	74	37	171	171	0	NELL2,synonymous_variant,p.%3D,ENST00000551601,;NELL2,synonymous_variant,p.%3D,ENST00000333837,;NELL2,synonymous_variant,p.%3D,ENST00000549027,;NELL2,synonymous_variant,p.%3D,ENST00000429094,;NELL2,synonymous_variant,p.%3D,ENST00000550139,;NELL2,synonymous_variant,p.%3D,ENST00000437801,;NELL2,synonymous_variant,p.%3D,ENST00000452445,;NELL2,synonymous_variant,p.%3D,ENST00000395487,;NELL2,non_coding_transcript_exon_variant,,ENST00000547636,;	G	ENSG00000184613	ENST00000437801	Transcript	synonymous_variant	2517	2145	715	C	tgT/tgC	COSM1299374,COSM1299373	.	.	-1	NELL2	HGNC	7751	protein_coding	YES	CCDS44863.1	ENSP00000416341	NELL2_HUMAN	F8W1I8_HUMAN,F8W1A2_HUMAN,F8VRQ0_HUMAN	UPI000191537D	.	.	.	18/21	.	SMART_domains:SM00214,Gene3D:2.10.70.10,PROSITE_patterns:PS01186,hmmpanther:PTHR24042,hmmpanther:PTHR24042:SF0,PROSITE_profiles:PS50184	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTGACATGA	.	5	BLCA
ARID2	0	.	GRCh37	12	46287258	46287258	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5203A>T	p.Asn1735Tyr	p.N1735Y	ENST00000334344	19/21	27	24	3	36	36	0	ARID2,missense_variant,p.Asn1735Tyr,ENST00000334344,;ARID2,missense_variant,p.Asn1345Tyr,ENST00000444670,;ARID2,missense_variant,p.Asn1586Tyr,ENST00000422737,;ARID2,missense_variant,p.Asn343Tyr,ENST00000457135,;ARID2,non_coding_transcript_exon_variant,,ENST00000479608,;ARID2,non_coding_transcript_exon_variant,,ENST00000477947,;	T	ENSG00000189079	ENST00000334344	Transcript	missense_variant	5375	5203	1735	N/Y	Aat/Tat	COSM1299386	.	.	1	ARID2	HGNC	18037	protein_coding	YES	CCDS31783.1	ENSP00000335044	ARID2_HUMAN	Q96SQ4_HUMAN,F8WCU9_HUMAN	UPI00001D7973	.	tolerated(0.24)	possibly_damaging(0.639)	19/21	.	hmmpanther:PTHR22970:SF14,hmmpanther:PTHR22970	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTGAATCAT	.	4	BLCA
DHH	0	.	GRCh37	12	49488197	49488197	+	Silent	SNP	G	G	A	rs751018684	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99C>T	p.%3D	p.R33R	ENST00000266991	1/3	40	29	11	22	22	0	DHH,synonymous_variant,p.%3D,ENST00000266991,;LMBR1L,downstream_gene_variant,,ENST00000267102,;LMBR1L,downstream_gene_variant,,ENST00000547382,;LMBR1L,downstream_gene_variant,,ENST00000395141,;LMBR1L,downstream_gene_variant,,ENST00000547698,;RP11-386G11.8,downstream_gene_variant,,ENST00000548030,;RP11-386G11.8,downstream_gene_variant,,ENST00000553174,;LMBR1L,downstream_gene_variant,,ENST00000551272,;LMBR1L,downstream_gene_variant,,ENST00000552577,;LMBR1L,downstream_gene_variant,,ENST00000553040,;LMBR1L,downstream_gene_variant,,ENST00000551143,;LMBR1L,downstream_gene_variant,,ENST00000547813,;LMBR1L,downstream_gene_variant,,ENST00000547670,;LMBR1L,downstream_gene_variant,,ENST00000550867,;LMBR1L,downstream_gene_variant,,ENST00000417750,;	A	ENSG00000139549	ENST00000266991	Transcript	synonymous_variant	406	99	33	R	cgC/cgT	rs751018684,COSM1299461	.	.	-1	DHH	HGNC	2865	protein_coding	YES	CCDS8779.1	ENSP00000266991	DHH_HUMAN	F6KSZ4_HUMAN	UPI0000035884	.	.	.	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11889:SF15,hmmpanther:PTHR11889,Pfam_domain:PF01085,PIRSF_domain:PIRSF009400	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCGGCGCCG	.	5	BLCA
KRT7	0	.	GRCh37	12	52646073	52646073	+	3'Flank	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000331817	.	160	120	40	148	148	0	KRT86,intron_variant,,ENST00000544024,;KRT86,intron_variant,,ENST00000553310,;KRT7,downstream_gene_variant,,ENST00000331817,;RP3-416H24.1,upstream_gene_variant,,ENST00000546686,;KRT121P,non_coding_transcript_exon_variant,,ENST00000529785,;KRT7,downstream_gene_variant,,ENST00000550153,;KRT7,downstream_gene_variant,,ENST00000552322,;KRT7,downstream_gene_variant,,ENST00000548657,;KRT7,downstream_gene_variant,,ENST00000549127,;KRT7,downstream_gene_variant,,ENST00000549638,;KRT121P,non_coding_transcript_exon_variant,,ENST00000534226,;KRT121P,non_coding_transcript_exon_variant,,ENST00000257935,;	T	ENSG00000135480	ENST00000331817	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	3368	1	KRT7	HGNC	6445	protein_coding	YES	CCDS8822.1	ENSP00000329243	K2C7_HUMAN	.	UPI000013CF9E	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGCCTGTAG	.	5	BLCA
ZNF385A	0	.	GRCh37	12	54765302	54765302	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619A>G	p.Lys207Glu	p.K207E	ENST00000338010	5/8	197	93	104	202	201	0	ZNF385A,missense_variant,p.Lys187Glu,ENST00000546970,;ZNF385A,missense_variant,p.Lys207Glu,ENST00000338010,;ZNF385A,missense_variant,p.Lys170Glu,ENST00000549962,;ZNF385A,missense_variant,p.Lys215Glu,ENST00000549937,;ZNF385A,missense_variant,p.Lys187Glu,ENST00000546919,;ZNF385A,missense_variant,p.Lys187Glu,ENST00000551109,;ZNF385A,missense_variant,p.Lys187Glu,ENST00000394313,;ZNF385A,intron_variant,,ENST00000551771,;ZNF385A,intron_variant,,ENST00000352268,;ZNF385A,downstream_gene_variant,,ENST00000550120,;ZNF385A,downstream_gene_variant,,ENST00000550774,;ZNF385A,downstream_gene_variant,,ENST00000547210,;RP11-753H16.5,intron_variant,,ENST00000552785,;RP11-753H16.3,intron_variant,,ENST00000550474,;ZNF385A,non_coding_transcript_exon_variant,,ENST00000552382,;ZNF385A,downstream_gene_variant,,ENST00000551864,;ZNF385A,3_prime_UTR_variant,,ENST00000550779,;	C	ENSG00000161642	ENST00000338010	Transcript	missense_variant	673	619	207	K/E	Aag/Gag	COSM1299609,COSM1299610,COSM1299608	.	.	-1	ZNF385A	HGNC	17521	protein_coding	YES	CCDS44911.1	ENSP00000338927	Z385A_HUMAN	F8VWV6_HUMAN,F8VSJ1_HUMAN,F8VRY0_HUMAN	UPI00005A791C	.	deleterious(0)	probably_damaging(0.997)	5/8	.	hmmpanther:PTHR23067:SF13,hmmpanther:PTHR23067,PROSITE_patterns:PS00028,Pfam_domain:PF12874,SMART_domains:SM00355,SMART_domains:SM00451,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTTGCACA	.	5	BLCA
ZC3H10	0	.	GRCh37	12	56515604	56515604	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1258T>C	p.Tyr420His	p.Y420H	ENST00000257940	3/3	96	38	57	65	65	0	ZC3H10,missense_variant,p.Tyr420His,ENST00000257940,;ESYT1,intron_variant,,ENST00000551790,;ZC3H10,downstream_gene_variant,,ENST00000551880,;RPL41,downstream_gene_variant,,ENST00000546591,;ZC3H10,downstream_gene_variant,,ENST00000546903,;RPL41,downstream_gene_variant,,ENST00000501597,;ZC3H10,downstream_gene_variant,,ENST00000552345,;RP11-603J24.5,intron_variant,,ENST00000549438,;RP11-603J24.5,intron_variant,,ENST00000550947,;RP11-603J24.6,upstream_gene_variant,,ENST00000550840,;RPL41,downstream_gene_variant,,ENST00000546654,;ZC3H10,downstream_gene_variant,,ENST00000549973,;RPL41,downstream_gene_variant,,ENST00000546485,;RPL41,downstream_gene_variant,,ENST00000552314,;RPL41,downstream_gene_variant,,ENST00000358888,;	C	ENSG00000135482	ENST00000257940	Transcript	missense_variant	1534	1258	420	Y/H	Tac/Cac	COSM1299651	.	.	1	ZC3H10	HGNC	25893	protein_coding	YES	CCDS8903.1	ENSP00000257940	ZC3HA_HUMAN	F8VYY3_HUMAN,F8VSG0_HUMAN,F8VQT2_HUMAN	UPI0000070771	.	deleterious(0)	probably_damaging(0.916)	3/3	.	hmmpanther:PTHR12675	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTTACCCT	.	5	BLCA
LRP1	0	.	GRCh37	12	57572754	57572754	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4688G>T	p.Cys1563Phe	p.C1563F	ENST00000243077	28/89	259	151	108	203	203	0	LRP1,missense_variant,p.Cys1563Phe,ENST00000243077,;	T	ENSG00000123384	ENST00000243077	Transcript	missense_variant	5154	4688	1563	C/F	tGc/tTc	COSM1299705	.	.	1	LRP1	HGNC	6692	protein_coding	YES	CCDS8932.1	ENSP00000243077	LRP1_HUMAN	Q6LBN5_HUMAN,Q6LAF4_HUMAN	UPI00001B044F	.	.	probably_damaging(0.997)	28/89	.	hmmpanther:PTHR10529:SF100,hmmpanther:PTHR10529,Gene3D:2.10.25.10,SMART_domains:SM00181,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGCGCCT	.	5	BLCA
LRP1	0	.	GRCh37	12	57598266	57598266	+	Silent	SNP	C	C	T	rs766130397	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11025C>T	p.%3D	p.G3675G	ENST00000243077	71/89	152	119	33	103	103	0	LRP1,synonymous_variant,p.%3D,ENST00000243077,;LRP1,downstream_gene_variant,,ENST00000555124,;LRP1,non_coding_transcript_exon_variant,,ENST00000556356,;LRP1,non_coding_transcript_exon_variant,,ENST00000451724,;LRP1,downstream_gene_variant,,ENST00000555941,;LRP1,downstream_gene_variant,,ENST00000556247,;	T	ENSG00000123384	ENST00000243077	Transcript	synonymous_variant	11491	11025	3675	G	ggC/ggT	rs766130397,COSM1299708	.	.	1	LRP1	HGNC	6692	protein_coding	YES	CCDS8932.1	ENSP00000243077	LRP1_HUMAN	Q6LBN5_HUMAN,Q6LAF4_HUMAN	UPI00001B044F	.	.	.	71/89	.	PROSITE_profiles:PS50068,hmmpanther:PTHR10529:SF100,hmmpanther:PTHR10529,Gene3D:4.10.400.10,Pfam_domain:PF00057,SMART_domains:SM00192,Superfamily_domains:SSF57424	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGGCGAGGA	byFrequency	5	BLCA
MBD6	0	.	GRCh37	12	57919889	57919889	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1138G>C	p.Gly380Arg	p.G380R	ENST00000355673	6/13	177	92	85	121	121	0	MBD6,missense_variant,p.Gly380Arg,ENST00000355673,;MBD6,missense_variant,p.Gly380Arg,ENST00000431731,;MBD6,intron_variant,,ENST00000552659,;DCTN2,downstream_gene_variant,,ENST00000543672,;MBD6,downstream_gene_variant,,ENST00000546632,;DCTN2,downstream_gene_variant,,ENST00000548249,;MBD6,downstream_gene_variant,,ENST00000548887,;MBD6,downstream_gene_variant,,ENST00000552255,;MBD6,downstream_gene_variant,,ENST00000551351,;MBD6,upstream_gene_variant,,ENST00000552163,;DCTN2,downstream_gene_variant,,ENST00000537439,;DCTN2,downstream_gene_variant,,ENST00000546758,;DCTN2,downstream_gene_variant,,ENST00000434715,;MBD6,downstream_gene_variant,,ENST00000549623,;MBD6,downstream_gene_variant,,ENST00000546805,;MBD6,downstream_gene_variant,,ENST00000549231,;DCTN2,downstream_gene_variant,,ENST00000549394,;MBD6,upstream_gene_variant,,ENST00000547844,;MBD6,downstream_gene_variant,,ENST00000549042,;MBD6,upstream_gene_variant,,ENST00000548550,;DCTN2,downstream_gene_variant,,ENST00000550201,;MBD6,upstream_gene_variant,,ENST00000547545,;	C	ENSG00000166987	ENST00000355673	Transcript	missense_variant	1494	1138	380	G/R	Ggc/Cgc	COSM1299721	.	.	1	MBD6	HGNC	20445	protein_coding	YES	CCDS8944.1	ENSP00000347896	MBD6_HUMAN	F8VZD7_HUMAN,F8VVK7_HUMAN,F8VU14_HUMAN,F8VPC4_HUMAN,F8VNX1_HUMAN	UPI000012ED13	.	deleterious_low_confidence(0)	unknown(0)	6/13	.	hmmpanther:PTHR16112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGGCCCT	.	5	BLCA
USP15	0	.	GRCh37	12	62785202	62785202	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2226G>A	p.%3D	p.R742R	ENST00000280377	16/22	32	10	21	63	63	0	USP15,synonymous_variant,p.%3D,ENST00000353364,;USP15,synonymous_variant,p.%3D,ENST00000393654,;USP15,synonymous_variant,p.%3D,ENST00000280377,;USP15,upstream_gene_variant,,ENST00000549415,;USP15,upstream_gene_variant,,ENST00000552346,;USP15,upstream_gene_variant,,ENST00000548620,;USP15,downstream_gene_variant,,ENST00000549268,;	A	ENSG00000135655	ENST00000280377	Transcript	synonymous_variant	2284	2226	742	R	agG/agA	COSM1299751	.	.	1	USP15	HGNC	12613	protein_coding	YES	CCDS58251.1	ENSP00000280377	UBP15_HUMAN	F8VZG8_HUMAN,F8VVY7_HUMAN	UPI00001379F8	.	.	.	16/22	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF387,hmmpanther:PTHR24006,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTAGGCTAGA	.	5	BLCA
SCNN1A	0	.	GRCh37	12	6471317	6471317	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952A>G	p.Ile318Val	p.I318V	ENST00000360168	3/12	130	99	31	137	137	0	SCNN1A,missense_variant,p.Ile282Val,ENST00000543768,;SCNN1A,missense_variant,p.Ile259Val,ENST00000396966,;SCNN1A,missense_variant,p.Ile259Val,ENST00000228916,;SCNN1A,missense_variant,p.Ile259Val,ENST00000358945,;SCNN1A,missense_variant,p.Ile318Val,ENST00000360168,;SCNN1A,5_prime_UTR_variant,,ENST00000540037,;SCNN1A,non_coding_transcript_exon_variant,,ENST00000541249,;SCNN1A,non_coding_transcript_exon_variant,,ENST00000542966,;SCNN1A,intron_variant,,ENST00000538979,;SCNN1A,downstream_gene_variant,,ENST00000544882,;SCNN1A,downstream_gene_variant,,ENST00000536176,;SCNN1A,intron_variant,,ENST00000338748,;	C	ENSG00000111319	ENST00000360168	Transcript	missense_variant	1216	952	318	I/V	Atc/Gtc	COSM1299766	.	.	-1	SCNN1A	HGNC	10599	protein_coding	YES	CCDS53738.1	ENSP00000353292	SCNNA_HUMAN	Q6UP09_HUMAN,F5GXE6_HUMAN	UPI00001B07D7	.	tolerated(0.06)	possibly_damaging(0.714)	3/12	.	hmmpanther:PTHR11690:SF124,hmmpanther:PTHR11690,Pfam_domain:PF00858,TIGRFAM_domain:TIGR00859	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGATGTTGA	.	5	BLCA
WIF1	0	.	GRCh37	12	65514281	65514281	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204T>C	p.%3D	p.H68H	ENST00000286574	2/10	49	24	24	63	63	0	WIF1,synonymous_variant,p.%3D,ENST00000286574,;WIF1,synonymous_variant,p.%3D,ENST00000546001,;	G	ENSG00000156076	ENST00000286574	Transcript	synonymous_variant	579	204	68	H	caT/caC	COSM1299772,COSM1299773	.	.	-1	WIF1	HGNC	18081	protein_coding	YES	CCDS8971.1	ENSP00000286574	WIF1_HUMAN	F5H8A3_HUMAN,B4DX53_HUMAN	UPI0000038BEE	.	.	.	2/10	.	PROSITE_profiles:PS50814,hmmpanther:PTHR24838,hmmpanther:PTHR24838:SF30,Pfam_domain:PF02019,SMART_domains:SM00469,Prints_domain:PR01901	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATCATGTGT	.	5	BLCA
TMBIM4	0	.	GRCh37	12	66531850	66531850	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607C>T	p.His203Tyr	p.H203Y	ENST00000358230	7/7	47	38	9	61	61	0	TMBIM4,missense_variant,p.His172Tyr,ENST00000542724,;TMBIM4,missense_variant,p.His26Tyr,ENST00000544599,;TMBIM4,missense_variant,p.His203Tyr,ENST00000358230,;TMBIM4,missense_variant,p.His250Tyr,ENST00000286424,;TMBIM4,3_prime_UTR_variant,,ENST00000398033,;TMBIM4,3_prime_UTR_variant,,ENST00000556010,;RP11-745O10.2,downstream_gene_variant,,ENST00000510317,;TMBIM4,3_prime_UTR_variant,,ENST00000545407,;TMBIM4,3_prime_UTR_variant,,ENST00000539652,;TMBIM4,non_coding_transcript_exon_variant,,ENST00000538217,;TMBIM4,downstream_gene_variant,,ENST00000545504,;TMBIM4,downstream_gene_variant,,ENST00000534930,;	A	ENSG00000155957	ENST00000358230	Transcript	missense_variant	728	607	203	H/Y	Cat/Tat	COSM1299782	.	.	-1	TMBIM4	HGNC	24257	protein_coding	YES	CCDS41805.1	ENSP00000350965	LFG4_HUMAN	G3V1R8_HUMAN	UPI00001FC6E2	.	deleterious(0.02)	benign(0.111)	7/7	.	hmmpanther:PTHR23291:SF34,hmmpanther:PTHR23291,Pfam_domain:PF01027	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATGCATCA	.	5	BLCA
LAG3	0	.	GRCh37	12	6881977	6881979	+	5'UTR	DEL	CCT	CCT	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	CCT	CCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-39_-37delCCT	.	.	ENST00000203629	1/8	29	20	9	24	24	0	LAG3,5_prime_UTR_variant,,ENST00000203629,;LAG3,5_prime_UTR_variant,,ENST00000441671,;PTMS,downstream_gene_variant,,ENST00000389462,;PTMS,downstream_gene_variant,,ENST00000540874,;PTMS,downstream_gene_variant,,ENST00000309083,;PTMS,downstream_gene_variant,,ENST00000538057,;PTMS,downstream_gene_variant,,ENST00000540828,;PTMS,downstream_gene_variant,,ENST00000540667,;LAG3,non_coding_transcript_exon_variant,,ENST00000538079,;LAG3,upstream_gene_variant,,ENST00000541049,;	-	ENSG00000089692	ENST00000203629	Transcript	5_prime_UTR_variant	292-294	.	.	.	.	.	.	.	1	LAG3	HGNC	6476	protein_coding	YES	CCDS8561.1	ENSP00000203629	LAG3_HUMAN	.	UPI000013C645	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCTGACCTCCTTT	.	3	BLCA
LYZ	0	.	GRCh37	12	69746950	69746950	+	Missense_Mutation	SNP	G	G	A	rs570121782	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.398G>A	p.Arg133His	p.R133H	ENST00000261267	4/4	83	51	32	122	122	0	LYZ,missense_variant,p.Val107Ile,ENST00000549690,;LYZ,missense_variant,p.Arg133His,ENST00000261267,;LYZ,downstream_gene_variant,,ENST00000548839,;RP11-1143G9.4,downstream_gene_variant,,ENST00000548900,;	A	ENSG00000090382	ENST00000261267	Transcript	missense_variant	466	398	133	R/H	cGt/cAt	rs570121782,COSM1299829	.	.	1	LYZ	HGNC	6740	protein_coding	YES	CCDS8989.1	ENSP00000261267	LYSC_HUMAN	B2R4C5_HUMAN	UPI000012EA62	.	tolerated(1)	benign(0.001)	4/4	.	Prints_domain:PR00135,Prints_domain:PR00137,Superfamily_domains:SSF53955,SMART_domains:SM00263,Pfam_domain:PF00062,Gene3D:1.10.530.10,hmmpanther:PTHR11407:SF22,hmmpanther:PTHR11407,PROSITE_profiles:PS51348	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATCGTTGTC	by1000G	5	BLCA
KCNC2	0	.	GRCh37	12	75601613	75601613	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151G>A	p.Gly51Ser	p.G51S	ENST00000549446	2/5	65	23	42	34	34	0	KCNC2,missense_variant,p.Gly51Ser,ENST00000341669,;KCNC2,missense_variant,p.Gly51Ser,ENST00000393288,;KCNC2,missense_variant,p.Gly51Ser,ENST00000540018,;KCNC2,missense_variant,p.Gly51Ser,ENST00000548513,;KCNC2,missense_variant,p.Gly51Ser,ENST00000550433,;KCNC2,missense_variant,p.Gly51Ser,ENST00000298972,;KCNC2,missense_variant,p.Gly51Ser,ENST00000549446,;KCNC2,missense_variant,p.Gly51Ser,ENST00000350228,;	T	ENSG00000166006	ENST00000549446	Transcript	missense_variant	832	151	51	G/S	Ggc/Agc	.	.	.	-1	KCNC2	HGNC	6234	protein_coding	YES	CCDS9007.1	ENSP00000449253	KCNC2_HUMAN	.	UPI000004DB9B	.	tolerated(0.77)	benign(0.038)	2/5	.	SMART_domains:SM00225,Pfam_domain:PF02214,hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF48	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTCGCCCGCCG	.	4	BLCA
NECAP1	0	.	GRCh37	12	8245362	8245362	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474C>G	p.%3D	p.T158T	ENST00000339754	5/8	26	14	11	32	32	0	NECAP1,synonymous_variant,p.%3D,ENST00000339754,;NECAP1,synonymous_variant,p.%3D,ENST00000540083,;NECAP1,3_prime_UTR_variant,,ENST00000450991,;NECAP1,non_coding_transcript_exon_variant,,ENST00000537796,;NECAP1,non_coding_transcript_exon_variant,,ENST00000545807,;NECAP1,intron_variant,,ENST00000541948,;NECAP1,downstream_gene_variant,,ENST00000546181,;NECAP1,downstream_gene_variant,,ENST00000544891,;NECAP1,downstream_gene_variant,,ENST00000542095,;	G	ENSG00000089818	ENST00000339754	Transcript	synonymous_variant	552	474	158	T	acC/acG	COSM1299908	.	.	1	NECAP1	HGNC	24539	protein_coding	YES	CCDS8589.1	ENSP00000341737	NECP1_HUMAN	F5H2U7_HUMAN,A8K3C2_HUMAN	UPI000006EB8D	.	.	.	5/8	.	hmmpanther:PTHR12847,hmmpanther:PTHR12847:SF1,Pfam_domain:PF07933	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAACCATCAA	.	5	BLCA
ALX1	0	.	GRCh37	12	85694982	85694982	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.710C>A	p.Thr237Asn	p.T237N	ENST00000316824	4/4	82	45	37	127	127	0	ALX1,missense_variant,p.Thr237Asn,ENST00000316824,;	A	ENSG00000180318	ENST00000316824	Transcript	missense_variant	865	710	237	T/N	aCt/aAt	COSM1299926	.	.	1	ALX1	HGNC	1494	protein_coding	YES	CCDS9028.1	ENSP00000315417	ALX1_HUMAN	.	UPI000013FEBD	.	tolerated(0.05)	benign(0.122)	4/4	.	hmmpanther:PTHR24329:SF277,hmmpanther:PTHR24329	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTACTTCAT	.	5	BLCA
WNK1	0	.	GRCh37	12	989117	989117	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2752G>T	p.Ala918Ser	p.A918S	ENST00000315939	11/28	95	48	46	147	147	0	WNK1,missense_variant,p.Ala918Ser,ENST00000315939,;WNK1,missense_variant,p.Ala188Ser,ENST00000535698,;WNK1,missense_variant,p.Ala511Ser,ENST00000340908,;WNK1,missense_variant,p.Ala1416Ser,ENST00000530271,;WNK1,intron_variant,,ENST00000545285,;WNK1,intron_variant,,ENST00000544965,;WNK1,intron_variant,,ENST00000537687,;WNK1,intron_variant,,ENST00000535572,;WNK1,downstream_gene_variant,,ENST00000574679,;WNK1,upstream_gene_variant,,ENST00000534872,;WNK1,intron_variant,,ENST00000542543,;WNK1,upstream_gene_variant,,ENST00000545055,;	T	ENSG00000060237	ENST00000315939	Transcript	missense_variant	3395	2752	918	A/S	Gca/Tca	COSM1299988	.	.	1	WNK1	HGNC	14540	protein_coding	YES	CCDS8506.1	ENSP00000313059	WNK1_HUMAN	Q96CZ6_HUMAN	UPI000013CD65	.	tolerated(0.16)	benign(0.205)	11/28	.	hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF46	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCAGCAGTT	.	5	BLCA
WNK1	0	.	GRCh37	12	994164	994164	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4194C>T	p.%3D	p.L1398L	ENST00000315939	19/28	75	38	36	80	80	0	WNK1,synonymous_variant,p.%3D,ENST00000315939,;WNK1,synonymous_variant,p.%3D,ENST00000340908,;WNK1,synonymous_variant,p.%3D,ENST00000530271,;WNK1,synonymous_variant,p.%3D,ENST00000537687,;WNK1,synonymous_variant,p.%3D,ENST00000535572,;WNK1,downstream_gene_variant,,ENST00000535698,;WNK1,downstream_gene_variant,,ENST00000545285,;WNK1,downstream_gene_variant,,ENST00000544965,;WNK1,downstream_gene_variant,,ENST00000534872,;WNK1,downstream_gene_variant,,ENST00000542543,;WNK1,downstream_gene_variant,,ENST00000545055,;	T	ENSG00000060237	ENST00000315939	Transcript	synonymous_variant	4837	4194	1398	L	ctC/ctT	COSM1299993,COSM1299992	.	.	1	WNK1	HGNC	14540	protein_coding	YES	CCDS8506.1	ENSP00000313059	WNK1_HUMAN	Q96CZ6_HUMAN	UPI000013CD65	.	.	.	19/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF46	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCCCCAT	.	5	BLCA
EFNB2	0	.	GRCh37	13	107145643	107145643	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.747G>A	p.%3D	p.L249L	ENST00000245323	5/5	184	118	65	109	109	0	EFNB2,synonymous_variant,p.%3D,ENST00000245323,;	T	ENSG00000125266	ENST00000245323	Transcript	synonymous_variant	897	747	249	L	ttG/ttA	COSM1300010	.	.	-1	EFNB2	HGNC	3227	protein_coding	YES	CCDS9507.1	ENSP00000245323	EFNB2_HUMAN	Q2PDH7_HUMAN	UPI0000129C9B	.	.	.	5/5	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11304:SF18,hmmpanther:PTHR11304	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAGCAAGAG	.	5	BLCA
ATP8A2	0	.	GRCh37	13	26129158	26129158	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215C>A	p.Asp405Glu	p.D405E	ENST00000381655	13/37	36	27	8	50	50	0	ATP8A2,missense_variant,p.Asp365Glu,ENST00000255283,;ATP8A2,missense_variant,p.Asp405Glu,ENST00000381655,;ATP8A2,missense_variant,p.Asp245Glu,ENST00000281620,;	A	ENSG00000132932	ENST00000381655	Transcript	missense_variant	1357	1215	405	D/E	gaC/gaA	COSM1300101	.	.	1	ATP8A2	HGNC	13533	protein_coding	YES	CCDS41873.1	ENSP00000371070	AT8A2_HUMAN	.	UPI0000229592	.	deleterious(0)	possibly_damaging(0.854)	13/37	.	hmmpanther:PTHR24092:SF45,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGACACTCC	.	5	BLCA
POMP	0	.	GRCh37	13	29233297	29233297	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-25G>A	.	.	ENST00000380842	1/6	38	32	6	25	25	0	POMP,5_prime_UTR_variant,,ENST00000380842,;POMP,non_coding_transcript_exon_variant,,ENST00000460403,;	A	ENSG00000132963	ENST00000380842	Transcript	5_prime_UTR_variant	57	.	.	.	.	.	.	.	1	POMP	HGNC	20330	protein_coding	YES	CCDS9331.1	ENSP00000370222	POMP_HUMAN	.	UPI000006E3C4	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGAGAGGCT	.	4	BLCA
KL	0	.	GRCh37	13	33628356	33628356	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1272G>C	p.Lys424Asn	p.K424N	ENST00000380099	2/5	45	21	24	89	89	0	KL,missense_variant,p.Lys117Asn,ENST00000426690,;KL,missense_variant,p.Lys424Asn,ENST00000380099,;KL,non_coding_transcript_exon_variant,,ENST00000487852,;	C	ENSG00000133116	ENST00000380099	Transcript	missense_variant	1280	1272	424	K/N	aaG/aaC	COSM3885259,COSM1300165,COSM3885260	.	.	1	KL	HGNC	6344	protein_coding	YES	CCDS9347.1	ENSP00000369442	KLOT_HUMAN	G3XKV3_HUMAN	UPI000013CEBA	.	deleterious(0.01)	possibly_damaging(0.776)	2/5	.	hmmpanther:PTHR10353:SF10,hmmpanther:PTHR10353,Pfam_domain:PF00232,Gene3D:3.20.20.80,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCAAGAGAGA	.	5	BLCA
KIAA0226L	0	.	GRCh37	13	46917516	46917516	+	3'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4C>T	.	.	ENST00000429979	15/15	18	12	6	25	25	0	KIAA0226L,synonymous_variant,p.%3D,ENST00000378787,;KIAA0226L,synonymous_variant,p.%3D,ENST00000378797,;KIAA0226L,3_prime_UTR_variant,,ENST00000322896,;KIAA0226L,3_prime_UTR_variant,,ENST00000389908,;KIAA0226L,3_prime_UTR_variant,,ENST00000378781,;KIAA0226L,3_prime_UTR_variant,,ENST00000378784,;KIAA0226L,3_prime_UTR_variant,,ENST00000534925,;KIAA0226L,3_prime_UTR_variant,,ENST00000429979,;KIAA0226L,3_prime_UTR_variant,,ENST00000409879,;KIAA0226L,3_prime_UTR_variant,,ENST00000441284,;KIAA0226L,non_coding_transcript_exon_variant,,ENST00000487195,;PPP1R2P4,non_coding_transcript_exon_variant,,ENST00000535073,;	A	ENSG00000102445	ENST00000429979	Transcript	3_prime_UTR_variant	2598	.	.	.	.	.	.	.	-1	KIAA0226L	HGNC	20420	protein_coding	YES	CCDS31970.2	ENSP00000396935	K226L_HUMAN	Q5W050_HUMAN,A8XR14_HUMAN,A8KAG9_HUMAN	UPI00001FCD59	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCAGGGGCATC	.	4	BLCA
HTR2A	0	.	GRCh37	13	47409473	47409473	+	Silent	SNP	G	G	A	rs766775131	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915C>T	p.%3D	p.S305S	ENST00000378688	3/3	11	5	6	44	44	0	HTR2A,synonymous_variant,p.%3D,ENST00000378688,;HTR2A,synonymous_variant,p.%3D,ENST00000542664,;HTR2A,synonymous_variant,p.%3D,ENST00000543956,;	A	ENSG00000102468	ENST00000378688	Transcript	synonymous_variant	1047	915	305	S	tcC/tcT	rs766775131,COSM1300220	.	.	-1	HTR2A	HGNC	5293	protein_coding	YES	CCDS9405.1	ENSP00000367959	5HT2A_HUMAN	Q9P2Q9_HUMAN,B3VRC0_HUMAN,B3VRB5_HUMAN,B3VRB0_HUMAN	UPI000000126E	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24247:SF30,hmmpanther:PTHR24247,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00516	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGTAGGACCC	.	3	BLCA
RB1	0	.	GRCh37	13	49050846	49050846	+	Nonsense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2530A>T	p.Lys844Ter	p.K844*	ENST00000267163	25/27	11	4	6	21	21	0	RB1,stop_gained,p.Lys844Ter,ENST00000267163,;RB1,non_coding_transcript_exon_variant,,ENST00000484879,;RB1,non_coding_transcript_exon_variant,,ENST00000531171,;	T	ENSG00000139687	ENST00000267163	Transcript	stop_gained	2668	2530	844	K/*	Aag/Tag	COSM1300234,COSM1300233	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	25/27	.	hmmpanther:PTHR13742,Pfam_domain:PF08934	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGAGAAGTTC	.	3	BLCA
DCT	0	.	GRCh37	13	95117984	95117984	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.766G>A	p.Val256Met	p.V256M	ENST00000446125	4/10	71	47	24	70	70	0	DCT,missense_variant,p.Val256Met,ENST00000377028,;DCT,missense_variant,p.Val256Met,ENST00000446125,;AL139318.1,upstream_gene_variant,,ENST00000390768,;DCT,non_coding_transcript_exon_variant,,ENST00000490854,;DCT,missense_variant,p.Val66Met,ENST00000483392,;DCT,non_coding_transcript_exon_variant,,ENST00000472871,;	T	ENSG00000080166	ENST00000446125	Transcript	missense_variant	1193	766	256	V/M	Gtg/Atg	COSM1300350,COSM1300349	.	.	-1	DCT	HGNC	2709	protein_coding	YES	CCDS45060.1	ENSP00000392762	TYRP2_HUMAN	Q9NQD8_HUMAN,Q0PK43_HUMAN	UPI0000E13F02	.	deleterious(0)	probably_damaging(0.982)	4/10	.	Superfamily_domains:SSF48056,Pfam_domain:PF00264,Gene3D:1.10.1280.10,hmmpanther:PTHR11474,hmmpanther:PTHR11474:SF4	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACACATCAC	.	5	BLCA
CLDN10	0	.	GRCh37	13	96205153	96205168	+	Frame_Shift_Del	DEL	TGTGGAAGGCGTGCGT	TGTGGAAGGCGTGCGT	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	TGTGGAAGGCGTGCGT	TGTGGAAGGCGTGCGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147_162delGTGGAAGGCGTGCGTT	p.Trp50ProfsTer29	p.W50Pfs*29	ENST00000299339	1/5	219	166	53	101	101	0	CLDN10,frameshift_variant,p.Trp50ProfsTer29,ENST00000299339,;CLDN10,intron_variant,,ENST00000376873,;	-	ENSG00000134873	ENST00000299339	Transcript	frameshift_variant	175-190	146-161	49-54	LWKACV/X	cTGTGGAAGGCGTGCGTt/ct	.	.	.	1	CLDN10	HGNC	2033	protein_coding	YES	CCDS9476.1	ENSP00000299339	CLD10_HUMAN	Q6IBF9_HUMAN,Q5W075_HUMAN	UPI0000127AB3	.	.	.	1/5	.	Pfam_domain:PF00822,PROSITE_patterns:PS01346,hmmpanther:PTHR12002:SF13,hmmpanther:PTHR12002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCAACCTGTGGAAGGCGTGCGTTACCG	.	3	BLCA
IPO5	0	.	GRCh37	13	98641409	98641409	+	Missense_Mutation	SNP	A	A	G	rs765290143	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.512A>G	p.His171Arg	p.H171R	ENST00000261574	7/29	21	10	11	16	16	0	IPO5,missense_variant,p.His155Arg,ENST00000469360,;IPO5,missense_variant,p.His153Arg,ENST00000475420,;IPO5,missense_variant,p.His124Arg,ENST00000403772,;IPO5,missense_variant,p.His153Arg,ENST00000490680,;IPO5,missense_variant,p.His171Arg,ENST00000261574,;IPO5,missense_variant,p.His134Arg,ENST00000473582,;IPO5,missense_variant,p.His153Arg,ENST00000357602,;IPO5,intron_variant,,ENST00000539640,;IPO5,downstream_gene_variant,,ENST00000481689,;IPO5,downstream_gene_variant,,ENST00000481455,;IPO5,downstream_gene_variant,,ENST00000460070,;IPO5,downstream_gene_variant,,ENST00000480611,;IPO5,downstream_gene_variant,,ENST00000421861,;IPO5,downstream_gene_variant,,ENST00000496368,;IPO5,downstream_gene_variant,,ENST00000471898,;IPO5,downstream_gene_variant,,ENST00000480641,;IPO5,downstream_gene_variant,,ENST00000463157,;IPO5,downstream_gene_variant,,ENST00000497270,;IPO5,upstream_gene_variant,,ENST00000470493,;FTLP8,upstream_gene_variant,,ENST00000446770,;	G	ENSG00000065150	ENST00000261574	Transcript	missense_variant	692	512	171	H/R	cAc/cGc	rs765290143,COSM1300363	.	.	1	IPO5	HGNC	6402	protein_coding	YES	CCDS31999.1	ENSP00000261574	IPO5_HUMAN	Q9BVS9_HUMAN,E7EX05_HUMAN,E7EWK4_HUMAN,E7ETV3_HUMAN,E7ESZ1_HUMAN,E7ESA1_HUMAN,C9JZD8_HUMAN,C9JZ53_HUMAN,C9JXE0_HUMAN,C9JQT6_HUMAN,C9J875_HUMAN,B3KWG6_HUMAN	UPI0000163C1C	.	tolerated(0.63)	benign(0.39)	7/29	.	hmmpanther:PTHR10527:SF22,hmmpanther:PTHR10527,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCTTCACATTT	.	4	BLCA
RTL1	0	.	GRCh37	14	101351019	101351019	+	Missense_Mutation	SNP	G	G	A	rs558479909	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107C>T	p.Thr36Met	p.T36M	ENST00000534062	1/1	63	48	15	36	36	0	RTL1,missense_variant,p.Thr36Met,ENST00000534062,;MIR432,downstream_gene_variant,,ENST00000606207,;MIR433,downstream_gene_variant,,ENST00000384837,;MIR136,upstream_gene_variant,,ENST00000385207,;MIR127,downstream_gene_variant,,ENST00000384876,;MIR431,downstream_gene_variant,,ENST00000385266,;	A	ENSG00000254656	ENST00000534062	Transcript	missense_variant	166	107	36	T/M	aCg/aTg	rs558479909,COSM949354	.	.	-1	RTL1	HGNC	14665	protein_coding	YES	CCDS53910.1	ENSP00000435342	RTL1_HUMAN	.	UPI00001D7B9E	.	tolerated_low_confidence(0.17)	benign(0.025)	1/1	.	.	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCGACGTCGCC	by1000G	4	BLCA
HSP90AA1	0	.	GRCh37	14	102605682	102605682	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60G>A	p.%3D	p.R20R	ENST00000334701	1/12	39	14	24	11	11	0	HSP90AA1,synonymous_variant,p.%3D,ENST00000334701,;WDR20,upstream_gene_variant,,ENST00000322340,;WDR20,upstream_gene_variant,,ENST00000335263,;WDR20,upstream_gene_variant,,ENST00000499851,;WDR20,upstream_gene_variant,,ENST00000556511,;WDR20,upstream_gene_variant,,ENST00000299135,;WDR20,upstream_gene_variant,,ENST00000342702,;WDR20,upstream_gene_variant,,ENST00000424963,;WDR20,upstream_gene_variant,,ENST00000558567,;WDR20,upstream_gene_variant,,ENST00000556807,;WDR20,upstream_gene_variant,,ENST00000454394,;HSP90AA1,non_coding_transcript_exon_variant,,ENST00000558600,;WDR20,upstream_gene_variant,,ENST00000561154,;WDR20,upstream_gene_variant,,ENST00000557186,;WDR20,upstream_gene_variant,,ENST00000557485,;HSP90AA1,synonymous_variant,p.%3D,ENST00000557234,;WDR20,upstream_gene_variant,,ENST00000556094,;WDR20,upstream_gene_variant,,ENST00000555879,;	T	ENSG00000080824	ENST00000334701	Transcript	synonymous_variant	342	60	20	R	agG/agA	COSM1300400	.	.	-1	HSP90AA1	HGNC	5253	protein_coding	YES	CCDS32160.1	ENSP00000335153	HS90A_HUMAN	Q96HX7_HUMAN,Q8TBA7_HUMAN,Q86SX1_HUMAN,K9JA46_HUMAN	UPI0000408144	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTCCCTGTC	.	5	BLCA
OR4M1	0	.	GRCh37	14	20249060	20249060	+	Missense_Mutation	SNP	C	C	G	rs777577411	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579C>G	p.Phe193Leu	p.F193L	ENST00000315957	1/1	165	134	31	235	234	0	OR4M1,missense_variant,p.Phe193Leu,ENST00000315957,;OR4N2,intron_variant,,ENST00000557414,;	G	ENSG00000176299	ENST00000315957	Transcript	missense_variant	660	579	193	F/L	ttC/ttG	rs777577411,COSM2028301,COSM1300458	.	.	1	OR4M1	HGNC	14735	protein_coding	YES	CCDS32021.1	ENSP00000319654	OR4M1_HUMAN	.	UPI0000061F0F	.	deleterious(0.03)	benign(0.031)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF53,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCCCAGA	.	4	BLCA
SUPT16H	0	.	GRCh37	14	21834657	21834657	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987C>A	p.%3D	p.V329V	ENST00000216297	8/26	117	102	14	168	168	0	SUPT16H,synonymous_variant,p.%3D,ENST00000216297,;SUPT16H,downstream_gene_variant,,ENST00000556217,;SUPT16H,downstream_gene_variant,,ENST00000557652,;SUPT16H,downstream_gene_variant,,ENST00000556309,;	T	ENSG00000092201	ENST00000216297	Transcript	synonymous_variant	1326	987	329	V	gtC/gtA	COSM697544	.	.	-1	SUPT16H	HGNC	11465	protein_coding	YES	CCDS9569.1	ENSP00000216297	SP16H_HUMAN	.	UPI0000035D5C	.	.	.	8/26	.	hmmpanther:PTHR13980:SF15,hmmpanther:PTHR13980,Pfam_domain:PF00557,Gene3D:3.90.230.10,Superfamily_domains:SSF55920	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATGACAGC	.	4	BLCA
TRAV13-1	0	.	GRCh37	14	22337541	22337541	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.332C>G	p.Ala111Gly	p.A111G	ENST00000390436	2/2	48	27	20	50	50	0	TRAV13-1,missense_variant,p.Ala111Gly,ENST00000390436,;	G	ENSG00000211788	ENST00000390436	Transcript	missense_variant	355	332	111	A/G	gCa/gGa	.	.	.	1	TRAV13-1	HGNC	12108	TR_V_gene	YES	.	ENSP00000441696	.	.	UPI000011C70B	.	deleterious(0.02)	possibly_damaging(0.814)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19433:SF64,hmmpanther:PTHR19433,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGCAAGTA	.	5	BLCA
EFS	0	.	GRCh37	14	23826494	23826494	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1627A>T	p.Thr543Ser	p.T543S	ENST00000216733	6/6	152	117	35	117	117	0	EFS,missense_variant,p.Thr450Ser,ENST00000351354,;EFS,missense_variant,p.Thr543Ser,ENST00000216733,;EFS,missense_variant,p.Thr374Ser,ENST00000429593,;SLC22A17,upstream_gene_variant,,ENST00000354772,;SLC22A17,upstream_gene_variant,,ENST00000206544,;SLC22A17,upstream_gene_variant,,ENST00000397267,;SLC22A17,upstream_gene_variant,,ENST00000397260,;RP11-124D2.3,downstream_gene_variant,,ENST00000554010,;SLC22A17,upstream_gene_variant,,ENST00000474057,;SLC22A17,upstream_gene_variant,,ENST00000557699,;	A	ENSG00000100842	ENST00000216733	Transcript	missense_variant	2235	1627	543	T/S	Aca/Tca	COSM1300514	.	.	-1	EFS	HGNC	16898	protein_coding	YES	CCDS9595.1	ENSP00000216733	EFS_HUMAN	.	UPI0000129D21	.	tolerated(0.12)	benign(0.043)	6/6	.	Pfam_domain:PF12026,hmmpanther:PTHR10654:SF13,hmmpanther:PTHR10654	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTGTTACAC	.	5	BLCA
LRRC16B	0	.	GRCh37	14	24518021	24518021	+	5'Flank	SNP	G	G	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000342740	.	157	134	22	201	201	0	LRRC16B,upstream_gene_variant,,ENST00000342740,;LRRC16B,upstream_gene_variant,,ENST00000334420,;RP11-468E2.9,splice_donor_variant,,ENST00000558293,;RP11-468E2.9,splice_donor_variant,,ENST00000559270,;RP11-468E2.9,intron_variant,,ENST00000558622,;RP11-468E2.9,splice_donor_variant,,ENST00000606840,;RP11-468E2.9,splice_donor_variant,,ENST00000397065,;	C	ENSG00000186648	ENST00000342740	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	3188	1	LRRC16B	HGNC	20272	protein_coding	YES	CCDS32054.1	ENSP00000340467	LR16B_HUMAN	.	UPI0000DBEF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGATGGTGAGG	.	4	BLCA
COCH	0	.	GRCh37	14	31344055	31344055	+	Intron	SNP	G	G	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-23-67G>T	.	.	ENST00000396618	.	74	21	52	26	26	0	COCH,5_prime_UTR_variant,,ENST00000556908,;COCH,5_prime_UTR_variant,,ENST00000216361,;COCH,5_prime_UTR_variant,,ENST00000460581,;COCH,5_prime_UTR_variant,,ENST00000475087,;COCH,5_prime_UTR_variant,,ENST00000555881,;COCH,intron_variant,,ENST00000396618,;RP11-829H16.3,downstream_gene_variant,,ENST00000555108,;COCH,non_coding_transcript_exon_variant,,ENST00000555117,;COCH,intron_variant,,ENST00000553772,;COCH,upstream_gene_variant,,ENST00000553833,;COCH,upstream_gene_variant,,ENST00000557065,;	T	ENSG00000100473	ENST00000396618	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	COCH	HGNC	2180	protein_coding	YES	CCDS9640.1	ENSP00000379862	COCH_HUMAN	G3V5G6_HUMAN,G3V4C4_HUMAN	UPI0000048EBB	.	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGGGCTCTG	.	5	BLCA
RALGAPA1	0	.	GRCh37	14	36277976	36277976	+	Silent	SNP	C	C	T	rs751357424	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66G>A	p.%3D	p.K22K	ENST00000307138	1/40	63	30	33	36	36	0	RALGAPA1,synonymous_variant,p.%3D,ENST00000389698,;RALGAPA1,synonymous_variant,p.%3D,ENST00000553892,;RALGAPA1,synonymous_variant,p.%3D,ENST00000258840,;RALGAPA1,synonymous_variant,p.%3D,ENST00000382366,;RALGAPA1,synonymous_variant,p.%3D,ENST00000307138,;AL162311.1,downstream_gene_variant,,ENST00000582013,;RALGAPA1,non_coding_transcript_exon_variant,,ENST00000556192,;	T	ENSG00000174373	ENST00000307138	Transcript	synonymous_variant	535	66	22	K	aaG/aaA	rs751357424,COSM1300596,COSM1300595	.	.	-1	RALGAPA1	HGNC	17770	protein_coding	YES	CCDS32064.1	ENSP00000302647	RGPA1_HUMAN	Q9H984_HUMAN	UPI00003B5C51	.	.	.	1/40	.	hmmpanther:PTHR10063:SF3,hmmpanther:PTHR10063	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTCCTTCTT	.	5	BLCA
SSTR1	0	.	GRCh37	14	38679681	38679681	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1087T>C	p.Tyr363His	p.Y363H	ENST00000267377	3/3	205	72	132	83	83	0	SSTR1,missense_variant,p.Tyr363His,ENST00000267377,;	C	ENSG00000139874	ENST00000267377	Transcript	missense_variant	1704	1087	363	Y/H	Tac/Cac	COSM1300600	.	.	1	SSTR1	HGNC	11330	protein_coding	YES	CCDS9666.1	ENSP00000267377	SSR1_HUMAN	.	UPI0000001C3C	.	tolerated(0.53)	possibly_damaging(0.601)	3/3	.	hmmpanther:PTHR24229:SF3,hmmpanther:PTHR24229,Prints_domain:PR00587	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCCTACAGT	.	5	BLCA
SYNE2	0	.	GRCh37	14	64408416	64408416	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145A>G	p.Thr49Ala	p.T49A	ENST00000358025	4/116	55	47	7	64	64	0	SYNE2,missense_variant,p.Thr49Ala,ENST00000554584,;SYNE2,missense_variant,p.Thr49Ala,ENST00000356081,;SYNE2,missense_variant,p.Thr49Ala,ENST00000341472,;SYNE2,missense_variant,p.Thr49Ala,ENST00000358025,;SYNE2,missense_variant,p.Thr49Ala,ENST00000344113,;SYNE2,5_prime_UTR_variant,,ENST00000357395,;	G	ENSG00000054654	ENST00000358025	Transcript	missense_variant	375	145	49	T/A	Act/Gct	COSM1300732	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	benign(0.009)	4/116	.	PROSITE_profiles:PS50021,hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCACACTTCT	.	4	BLCA
PPP1R36	0	.	GRCh37	14	65031546	65031546	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.260C>T	p.Ala87Val	p.A87V	ENST00000298705	4/12	173	84	88	217	217	0	PPP1R36,missense_variant,p.Ala87Val,ENST00000298705,;PPP1R36,5_prime_UTR_variant,,ENST00000557202,;RP11-973N13.3,intron_variant,,ENST00000556634,;RP11-973N13.3,intron_variant,,ENST00000554454,;PPP1R36,3_prime_UTR_variant,,ENST00000467261,;PPP1R36,downstream_gene_variant,,ENST00000555645,;	T	ENSG00000165807	ENST00000298705	Transcript	missense_variant	356	260	87	A/V	gCt/gTt	COSM1300760	.	.	1	PPP1R36	HGNC	20097	protein_coding	YES	CCDS9767.1	ENSP00000298705	PPR36_HUMAN	G3V5S6_HUMAN,E9PLB5_HUMAN	UPI0000070446	.	deleterious(0.05)	possibly_damaging(0.638)	4/12	.	hmmpanther:PTHR21055,Pfam_domain:PF14895	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCAGCTTCAG	.	3	BLCA
PLEKHG3	0	.	GRCh37	14	65203599	65203599	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1206C>G	p.%3D	p.L402L	ENST00000247226	11/15	128	96	32	81	81	0	PLEKHG3,synonymous_variant,p.%3D,ENST00000247226,;PLEKHG3,synonymous_variant,p.%3D,ENST00000394691,;PLEKHG3,upstream_gene_variant,,ENST00000471182,;PLEKHG3,upstream_gene_variant,,ENST00000484731,;PLEKHG3,upstream_gene_variant,,ENST00000492928,;PLEKHG3,non_coding_transcript_exon_variant,,ENST00000490180,;	G	ENSG00000126822	ENST00000247226	Transcript	synonymous_variant	1514	1206	402	L	ctC/ctG	COSM1300763	.	.	1	PLEKHG3	HGNC	20364	protein_coding	YES	CCDS32098.1	ENSP00000247226	PKHG3_HUMAN	G3V311_HUMAN	UPI0000407D62	.	.	.	11/15	.	hmmpanther:PTHR22143:SF4,hmmpanther:PTHR22143	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCAACGA	.	5	BLCA
FUT8	0	.	GRCh37	14	66028339	66028339	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58A>C	p.Thr20Pro	p.T20P	ENST00000360689	3/11	148	61	86	150	150	0	FUT8,missense_variant,p.Thr20Pro,ENST00000394585,;FUT8,missense_variant,p.Thr20Pro,ENST00000557338,;FUT8,missense_variant,p.Thr20Pro,ENST00000555559,;FUT8,missense_variant,p.Thr20Pro,ENST00000554610,;FUT8,missense_variant,p.Thr20Pro,ENST00000554667,;FUT8,missense_variant,p.Thr20Pro,ENST00000360689,;FUT8,missense_variant,p.Thr20Pro,ENST00000556518,;FUT8,missense_variant,p.Thr20Pro,ENST00000394586,;FUT8,intron_variant,,ENST00000557164,;FUT8,intron_variant,,ENST00000358307,;FUT8,downstream_gene_variant,,ENST00000553924,;FUT8,missense_variant,p.Thr20Pro,ENST00000342677,;	C	ENSG00000033170	ENST00000360689	Transcript	missense_variant	1785	58	20	T/P	Acc/Ccc	COSM1300767,COSM1300768	.	.	1	FUT8	HGNC	4019	protein_coding	YES	CCDS9775.1	ENSP00000353910	FUT8_HUMAN	Q546E0_HUMAN,G3V5Z4_HUMAN,G3V5E3_HUMAN,G3V530_HUMAN,G3V509_HUMAN,G3V4A8_HUMAN	UPI000000DCC9	.	tolerated(0.21)	possibly_damaging(0.714)	3/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13132,PIRSF_domain:PIRSF000472	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGGACCTTG	.	5	BLCA
ZFYVE26	0	.	GRCh37	14	68233024	68233024	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5931C>T	p.%3D	p.D1977D	ENST00000347230	32/42	186	136	49	138	138	0	ZFYVE26,synonymous_variant,p.%3D,ENST00000555452,;ZFYVE26,synonymous_variant,p.%3D,ENST00000347230,;ZFYVE26,upstream_gene_variant,,ENST00000557306,;ZFYVE26,3_prime_UTR_variant,,ENST00000554557,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000394455,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000554523,;	A	ENSG00000072121	ENST00000347230	Transcript	synonymous_variant	6070	5931	1977	D	gaC/gaT	COSM1300775	.	.	-1	ZFYVE26	HGNC	20761	protein_coding	YES	CCDS9788.1	ENSP00000251119	ZFY26_HUMAN	.	UPI00001FD735	.	.	.	32/42	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF115	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGATGTCCGT	.	5	BLCA
HEATR4	0	.	GRCh37	14	73964942	73964942	+	Silent	SNP	G	G	T	rs747162876	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2463C>A	p.%3D	p.I821I	ENST00000553558	14/18	59	25	34	60	60	0	HEATR4,synonymous_variant,p.%3D,ENST00000553558,;HEATR4,synonymous_variant,p.%3D,ENST00000560393,;HEATR4,synonymous_variant,p.%3D,ENST00000334988,;C14orf169,downstream_gene_variant,,ENST00000531973,;AC005280.1,downstream_gene_variant,,ENST00000304061,;	T	ENSG00000187105	ENST00000553558	Transcript	synonymous_variant	2785	2463	821	I	atC/atA	rs747162876,COSM1300810,COSM1300809	.	.	-1	HEATR4	HGNC	16761	protein_coding	YES	CCDS9815.2	ENSP00000450444	HEAT4_HUMAN	H3BSP2_HUMAN,G3V5L2_HUMAN,G3V3Q5_HUMAN	UPI00001FD7FD	.	.	.	14/18	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR12697,hmmpanther:PTHR12697:SF14	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTAGGATGCT	.	5	BLCA
BATF	0	.	GRCh37	14	75989013	75989013	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-13G>A	.	.	ENST00000286639	1/3	68	30	38	61	61	0	BATF,5_prime_UTR_variant,,ENST00000286639,;BATF,5_prime_UTR_variant,,ENST00000555504,;BATF,intron_variant,,ENST00000555795,;	A	ENSG00000156127	ENST00000286639	Transcript	5_prime_UTR_variant	246	.	.	.	.	.	.	.	1	BATF	HGNC	958	protein_coding	YES	CCDS9843.1	ENSP00000286639	BATF_HUMAN	.	UPI0000073D64	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCGGAAGAT	.	5	BLCA
ATXN3	0	.	GRCh37	14	92555135	92555135	+	Silent	SNP	C	C	G	rs780604497	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414G>C	p.%3D	p.T138T	ENST00000393287	6/11	120	49	71	192	192	0	ATXN3,synonymous_variant,p.%3D,ENST00000545170,;ATXN3,synonymous_variant,p.%3D,ENST00000429774,;ATXN3,synonymous_variant,p.%3D,ENST00000556220,;ATXN3,synonymous_variant,p.%3D,ENST00000554592,;ATXN3,synonymous_variant,p.%3D,ENST00000553491,;ATXN3,synonymous_variant,p.%3D,ENST00000555381,;ATXN3,synonymous_variant,p.%3D,ENST00000506466,;ATXN3,synonymous_variant,p.%3D,ENST00000340660,;ATXN3,synonymous_variant,p.%3D,ENST00000554672,;ATXN3,synonymous_variant,p.%3D,ENST00000393287,;ATXN3,synonymous_variant,p.%3D,ENST00000503767,;ATXN3,synonymous_variant,p.%3D,ENST00000532032,;ATXN3,5_prime_UTR_variant,,ENST00000502250,;ATXN3,intron_variant,,ENST00000557311,;ATXN3,intron_variant,,ENST00000526872,;ATXN3,non_coding_transcript_exon_variant,,ENST00000553686,;ATXN3,non_coding_transcript_exon_variant,,ENST00000554040,;ATXN3,non_coding_transcript_exon_variant,,ENST00000526245,;ATXN3,non_coding_transcript_exon_variant,,ENST00000553309,;ATXN3,non_coding_transcript_exon_variant,,ENST00000555958,;ATXN3,non_coding_transcript_exon_variant,,ENST00000554214,;ATXN3,non_coding_transcript_exon_variant,,ENST00000554491,;ATXN3,non_coding_transcript_exon_variant,,ENST00000553498,;ATXN3,non_coding_transcript_exon_variant,,ENST00000553287,;ATXN3,intron_variant,,ENST00000556644,;ATXN3,intron_variant,,ENST00000556339,;ATXN3,downstream_gene_variant,,ENST00000511362,;ATXN3,downstream_gene_variant,,ENST00000504047,;ATXN3,synonymous_variant,p.%3D,ENST00000557030,;ATXN3,synonymous_variant,p.%3D,ENST00000554673,;ATXN3,synonymous_variant,p.%3D,ENST00000556898,;ATXN3,synonymous_variant,p.%3D,ENST00000556671,;ATXN3,3_prime_UTR_variant,,ENST00000556374,;ATXN3,3_prime_UTR_variant,,ENST00000556288,;ATXN3,3_prime_UTR_variant,,ENST00000359366,;ATXN3,3_prime_UTR_variant,,ENST00000555816,;ATXN3,3_prime_UTR_variant,,ENST00000556082,;ATXN3,3_prime_UTR_variant,,ENST00000553488,;ATXN3,3_prime_UTR_variant,,ENST00000556274,;ATXN3,3_prime_UTR_variant,,ENST00000556315,;ATXN3,3_prime_UTR_variant,,ENST00000554350,;ATXN3,intron_variant,,ENST00000554994,;ATXN3,intron_variant,,ENST00000515746,;ATXN3,intron_variant,,ENST00000553570,;ATXN3,intron_variant,,ENST00000556958,;ATXN3,downstream_gene_variant,,ENST00000507965,;	G	ENSG00000066427	ENST00000393287	Transcript	synonymous_variant	472	414	138	T	acG/acC	rs780604497,COSM1300907	.	.	-1	ATXN3	HGNC	7106	protein_coding	YES	CCDS9900.1	ENSP00000376965	ATX3_HUMAN	G3V4F4_HUMAN,G3V2G2_HUMAN,D3VVM7_HUMAN,D3VVL3_HUMAN,D3VVJ0_HUMAN,D3VVF1_HUMAN,D3VVD5_HUMAN,D3VVC1_HUMAN	UPI000013D23A	.	.	.	6/11	.	PROSITE_profiles:PS50957,hmmpanther:PTHR14159:SF1,hmmpanther:PTHR14159,Pfam_domain:PF02099,Prints_domain:PR01233	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACCCGTCAA	.	5	BLCA
CHGA	0	.	GRCh37	14	93401241	93401241	+	3'UTR	SNP	G	G	A	rs202023927	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12G>A	.	.	ENST00000216492	8/8	18	13	5	10	10	0	CHGA,3_prime_UTR_variant,,ENST00000216492,;CHGA,3_prime_UTR_variant,,ENST00000334654,;ITPK1,downstream_gene_variant,,ENST00000267615,;ITPK1,downstream_gene_variant,,ENST00000556603,;ITPK1,downstream_gene_variant,,ENST00000555495,;ITPK1,downstream_gene_variant,,ENST00000354313,;CHGA,downstream_gene_variant,,ENST00000553866,;CHGA,downstream_gene_variant,,ENST00000556876,;CHGA,downstream_gene_variant,,ENST00000556076,;	A	ENSG00000100604	ENST00000216492	Transcript	3_prime_UTR_variant	1666	.	.	.	.	rs202023927	.	.	1	CHGA	HGNC	1929	protein_coding	YES	CCDS9906.1	ENSP00000216492	CMGA_HUMAN	.	UPI000013C6F3	.	.	.	8/8	.	.	A:0.0008	A:0.003	A:0	.	A:0	A:0	A:0	A:0.0018	A:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GGCTGGCAGGG	byFrequency|byCluster|by1000G	2	BLCA
BCL11B	0	.	GRCh37	14	99723962	99723962	+	Silent	SNP	C	C	T	rs750180184	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.273G>A	p.%3D	p.K91K	ENST00000357195	2/4	243	94	149	92	92	0	BCL11B,synonymous_variant,p.%3D,ENST00000345514,;BCL11B,synonymous_variant,p.%3D,ENST00000357195,;BCL11B,intron_variant,,ENST00000443726,;	T	ENSG00000127152	ENST00000357195	Transcript	synonymous_variant	283	273	91	K	aaG/aaA	rs750180184,COSM1300949	.	.	-1	BCL11B	HGNC	13222	protein_coding	YES	CCDS9950.1	ENSP00000349723	BC11B_HUMAN	L8B7P7_HUMAN	UPI000006E083	.	.	.	2/4	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF45	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGCCTTGTC	.	5	BLCA
FMN1	0	.	GRCh37	15	33360066	33360066	+	Missense_Mutation	SNP	G	G	A	rs773285157	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20C>T	p.Ser7Phe	p.S7F	ENST00000334528	1/17	43	34	9	51	51	0	FMN1,missense_variant,p.Ser7Phe,ENST00000334528,;FMN1,missense_variant,p.Ser7Phe,ENST00000558197,;FMN1,intron_variant,,ENST00000559047,;FMN1,intron_variant,,ENST00000561249,;FMN1,non_coding_transcript_exon_variant,,ENST00000559150,;	A	ENSG00000248905	ENST00000334528	Transcript	missense_variant	20	20	7	S/F	tCt/tTt	rs773285157,COSM1301033	.	.	-1	FMN1	HGNC	3768	protein_coding	YES	CCDS45209.1	ENSP00000333950	FMN1_HUMAN	.	UPI00004086C3	.	deleterious_low_confidence(0)	unknown(0)	1/17	.	hmmpanther:PTHR13037,hmmpanther:PTHR13037:SF8	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGAGAATTA	byFrequency	5	BLCA
ACTC1	0	.	GRCh37	15	35084467	35084467	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632T>C	p.Val211Ala	p.V211A	ENST00000290378	5/7	22	9	13	36	36	0	ACTC1,missense_variant,p.Val211Ala,ENST00000290378,;RP11-814P5.1,intron_variant,,ENST00000503496,;RP11-814P5.1,downstream_gene_variant,,ENST00000558707,;ACTC1,non_coding_transcript_exon_variant,,ENST00000557860,;ACTC1,non_coding_transcript_exon_variant,,ENST00000560563,;	G	ENSG00000159251	ENST00000290378	Transcript	missense_variant	1288	632	211	V/A	gTc/gCc	COSM1301050	.	.	-1	ACTC1	HGNC	143	protein_coding	YES	CCDS10041.1	ENSP00000290378	ACTC_HUMAN	B3KPP5_HUMAN	UPI0000003F15	.	tolerated_low_confidence(0.1)	benign(0.105)	5/7	.	hmmpanther:PTHR11937:SF176,hmmpanther:PTHR11937,Pfam_domain:PF00022,Gene3D:3.90.640.10,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.R212C|c.634C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGGACAATT	.	5	BLCA
SPTBN5	0	.	GRCh37	15	42170716	42170738	+	Frame_Shift_Del	DEL	CTGGCGCCGGGCCCGTTGGGCCA	CTGGCGCCGGGCCCGTTGGGCCA	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	CTGGCGCCGGGCCCGTTGGGCCA	CTGGCGCCGGGCCCGTTGGGCCA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3272_3294delTGGCCCAACGGGCCCGGCGCCAG	p.Val1091GlyfsTer2	p.V1091Gfs*2	ENST00000320955	17/68	24	15	9	28	28	0	SPTBN5,frameshift_variant,p.Val1091GlyfsTer2,ENST00000320955,;	-	ENSG00000137877	ENST00000320955	Transcript	frameshift_variant	3500-3522	3272-3294	1091-1098	VAQRARRQ/X	gTGGCCCAACGGGCCCGGCGCCAG/g	.	.	.	-1	SPTBN5	HGNC	15680	protein_coding	YES	CCDS61599.1	ENSP00000317790	SPTN5_HUMAN	.	UPI0000E59BE4	.	.	.	17/68	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF249,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CTCAGCCTGGCGCCGGGCCCGTTGGGCCACTTGT	.	2	BLCA
MYO5C	0	.	GRCh37	15	52534274	52534274	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2527G>T	p.Gly843Ter	p.G843*	ENST00000261839	20/41	223	116	107	260	260	0	MYO5C,stop_gained,p.Gly843Ter,ENST00000261839,;MYO5C,intron_variant,,ENST00000443683,;MYO5C,non_coding_transcript_exon_variant,,ENST00000559434,;MYO5C,intron_variant,,ENST00000558902,;MYO5C,intron_variant,,ENST00000560809,;	A	ENSG00000128833	ENST00000261839	Transcript	stop_gained	2689	2527	843	G/*	Gga/Tga	COSM1301225	.	.	-1	MYO5C	HGNC	7604	protein_coding	YES	CCDS42036.1	ENSP00000261839	MYO5C_HUMAN	Q14783_HUMAN,H0YM93_HUMAN	UPI000013D20E	.	.	.	20/41	.	PROSITE_profiles:PS50096,hmmpanther:PTHR13140:SF313,hmmpanther:PTHR13140,Pfam_domain:PF00612,Gene3D:1wdcA00,SMART_domains:SM00015,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATCCTCGGC	.	5	BLCA
PIGB	0	.	GRCh37	15	55632964	55632964	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1001C>T	p.Ala334Val	p.A334V	ENST00000164305	8/12	9	5	4	13	13	0	PIGB,missense_variant,p.Ala334Val,ENST00000164305,;PIGB,missense_variant,p.Ala139Val,ENST00000539642,;CCPG1,intron_variant,,ENST00000564663,;CCPG1,intron_variant,,ENST00000563294,;PIGB,missense_variant,p.Ala5Val,ENST00000565502,;PIGB,3_prime_UTR_variant,,ENST00000565367,;PIGB,non_coding_transcript_exon_variant,,ENST00000565402,;PIGB,downstream_gene_variant,,ENST00000570059,;	T	ENSG00000069943	ENST00000164305	Transcript	missense_variant	1292	1001	334	A/V	gCa/gTa	COSM1301242	.	.	1	PIGB	HGNC	8959	protein_coding	YES	CCDS61641.1	ENSP00000164305	PIGB_HUMAN	F5H1S1_HUMAN	UPI0000072A05	.	deleterious(0.03)	possibly_damaging(0.772)	8/12	.	Pfam_domain:PF03901,hmmpanther:PTHR22760:SF4,hmmpanther:PTHR22760	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTAGCACCAA	.	3	BLCA
SLTM	0	.	GRCh37	15	59225797	59225797	+	5'UTR	SNP	G	G	A	rs537782051	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-33C>T	.	.	ENST00000380516	1/21	15	10	5	8	8	0	SLTM,5_prime_UTR_variant,,ENST00000380516,;SLTM,5_prime_UTR_variant,,ENST00000536328,;RNF111,intron_variant,,ENST00000559757,;SLTM,upstream_gene_variant,,ENST00000249736,;SLTM,upstream_gene_variant,,ENST00000559880,;SLTM,upstream_gene_variant,,ENST00000558486,;SLTM,upstream_gene_variant,,ENST00000560682,;SLTM,upstream_gene_variant,,ENST00000560012,;SLTM,upstream_gene_variant,,ENST00000557950,;SLTM,5_prime_UTR_variant,,ENST00000559261,;SLTM,5_prime_UTR_variant,,ENST00000557924,;SLTM,non_coding_transcript_exon_variant,,ENST00000480144,;SLTM,non_coding_transcript_exon_variant,,ENST00000474342,;SLTM,upstream_gene_variant,,ENST00000559305,;SLTM,upstream_gene_variant,,ENST00000558756,;SLTM,upstream_gene_variant,,ENST00000484498,;SLTM,upstream_gene_variant,,ENST00000492526,;	A	ENSG00000137776	ENST00000380516	Transcript	5_prime_UTR_variant	56	.	.	.	.	rs537782051	.	.	-1	SLTM	HGNC	20709	protein_coding	YES	CCDS10168.2	ENSP00000369887	SLTM_HUMAN	H0YKH2_HUMAN,A8K5V8_HUMAN	UPI0000039EA4	.	.	.	1/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCGAGTGGGC	.	2	BLCA
MYO1E	0	.	GRCh37	15	59548521	59548521	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294C>T	p.%3D	p.N98N	ENST00000288235	4/28	42	30	12	71	71	0	MYO1E,synonymous_variant,p.%3D,ENST00000288235,;MYO1E,non_coding_transcript_exon_variant,,ENST00000558814,;MYO1E,synonymous_variant,p.%3D,ENST00000558571,;	A	ENSG00000157483	ENST00000288235	Transcript	synonymous_variant	694	294	98	N	aaC/aaT	COSM1301273	.	.	-1	MYO1E	HGNC	7599	protein_coding	YES	CCDS32254.1	ENSP00000288235	MYO1E_HUMAN	Q4KMR3_HUMAN	UPI00001FE590	.	.	.	4/28	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF341,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATGTTTCT	.	5	BLCA
PPCDC	0	.	GRCh37	15	75336745	75336745	+	Missense_Mutation	SNP	G	G	A	rs745374084	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Asp84Asn	p.D84N	ENST00000342932	4/6	93	43	49	73	73	0	PPCDC,missense_variant,p.Asp52Asn,ENST00000567336,;PPCDC,missense_variant,p.Asp84Asn,ENST00000342932,;PPCDC,5_prime_UTR_variant,,ENST00000563393,;PPCDC,5_prime_UTR_variant,,ENST00000569562,;PPCDC,intron_variant,,ENST00000564923,;PPCDC,intron_variant,,ENST00000568649,;PPCDC,downstream_gene_variant,,ENST00000562095,;PPCDC,non_coding_transcript_exon_variant,,ENST00000568207,;PPCDC,non_coding_transcript_exon_variant,,ENST00000564953,;PPCDC,downstream_gene_variant,,ENST00000562192,;	A	ENSG00000138621	ENST00000342932	Transcript	missense_variant	394	250	84	D/N	Gac/Aac	rs745374084,COSM1301434	.	.	1	PPCDC	HGNC	28107	protein_coding	YES	CCDS10275.1	ENSP00000343190	COAC_HUMAN	H3BU63_HUMAN,H3BU34_HUMAN,H3BPW5_HUMAN	UPI000013D223	.	deleterious(0)	possibly_damaging(0.644)	4/6	.	hmmpanther:PTHR14359,Gene3D:3.40.50.1950,Pfam_domain:PF02441,Superfamily_domains:SSF52507	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGACCCA	.	5	BLCA
ST20-MTHFS	0	.	GRCh37	15	80137594	80137594	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498G>T	p.Met166Ile	p.M166I	ENST00000479961	4/4	68	59	9	98	98	0	ST20-MTHFS,missense_variant,p.Met166Ile,ENST00000479961,;MTHFS,missense_variant,p.Met190Ile,ENST00000258874,;RP11-38G5.4,upstream_gene_variant,,ENST00000567415,;ST20-MTHFS,downstream_gene_variant,,ENST00000494999,;MTHFS,missense_variant,p.Met26Ile,ENST00000560261,;	A	ENSG00000259332	ENST00000479961	Transcript	missense_variant	802	498	166	M/I	atG/atT	COSM1301481	.	.	-1	ST20-MTHFS	HGNC	44655	protein_coding	YES	CCDS58394.1	ENSP00000455643	.	.	UPI00001FE9DE	.	tolerated(0.38)	benign(0)	4/4	.	hmmpanther:PTHR23407:SF1,hmmpanther:PTHR23407,Pfam_domain:PF01812,TIGRFAM_domain:TIGR02727,Gene3D:3.40.50.10420,PIRSF_domain:PIRSF006806,Superfamily_domains:SSF100950	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCATGTC	.	4	BLCA
ARNT2	0	.	GRCh37	15	80872758	80872758	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1620A>G	p.%3D	p.S540S	ENST00000303329	16/19	134	107	26	182	182	0	ARNT2,synonymous_variant,p.%3D,ENST00000303329,;ARNT2,synonymous_variant,p.%3D,ENST00000533983,;ARNT2,synonymous_variant,p.%3D,ENST00000527771,;MIR5572,upstream_gene_variant,,ENST00000583188,;RP11-379K22.3,non_coding_transcript_exon_variant,,ENST00000603875,;ARNT2,non_coding_transcript_exon_variant,,ENST00000525505,;	G	ENSG00000172379	ENST00000303329	Transcript	synonymous_variant	1785	1620	540	S	tcA/tcG	COSM1301483	.	.	1	ARNT2	HGNC	16876	protein_coding	YES	CCDS32307.1	ENSP00000307479	ARNT2_HUMAN	H0YKW1_HUMAN	UPI00001FEA05	.	.	.	16/19	.	hmmpanther:PTHR23042,hmmpanther:PTHR23042:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCAGTGGT	.	5	BLCA
SV2B	0	.	GRCh37	15	91769791	91769791	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298G>T	p.Asp100Tyr	p.D100Y	ENST00000394232	2/13	52	39	13	51	51	0	SV2B,missense_variant,p.Asp100Tyr,ENST00000330276,;SV2B,missense_variant,p.Asp100Tyr,ENST00000394232,;SV2B,intron_variant,,ENST00000545111,;SV2B,intron_variant,,ENST00000557291,;SV2B,missense_variant,p.Asp100Tyr,ENST00000557410,;	T	ENSG00000185518	ENST00000394232	Transcript	missense_variant	768	298	100	D/Y	Gat/Tat	COSM1301589	.	.	1	SV2B	HGNC	16874	protein_coding	YES	CCDS10370.1	ENSP00000377779	SV2B_HUMAN	.	UPI000006FCF1	.	deleterious(0)	possibly_damaging(0.776)	2/13	.	hmmpanther:PTHR24065,hmmpanther:PTHR24065:SF1,TIGRFAM_domain:TIGR01299,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATGGATGAG	.	5	BLCA
MYH11	0	.	GRCh37	16	15818266	15818266	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4138C>G	p.Leu1380Val	p.L1380V	ENST00000396324	32/42	71	55	15	73	73	0	MYH11,missense_variant,p.Leu1373Val,ENST00000576790,;MYH11,missense_variant,p.Leu1373Val,ENST00000300036,;MYH11,missense_variant,p.Leu1380Val,ENST00000396324,;MYH11,missense_variant,p.Leu1380Val,ENST00000452625,;NDE1,3_prime_UTR_variant,,ENST00000396355,;NDE1,3_prime_UTR_variant,,ENST00000342673,;NDE1,3_prime_UTR_variant,,ENST00000396354,;NDE1,downstream_gene_variant,,ENST00000572967,;NDE1,downstream_gene_variant,,ENST00000573694,;AF001548.5,upstream_gene_variant,,ENST00000574212,;NDE1,non_coding_transcript_exon_variant,,ENST00000571896,;NDE1,downstream_gene_variant,,ENST00000572503,;MYH11,splice_region_variant,,ENST00000571275,;MYH11,upstream_gene_variant,,ENST00000576164,;	C	ENSG00000133392	ENST00000396324	Transcript	missense_variant	4226	4138	1380	L/V	Ctc/Gtc	COSM1301655,COSM1301654	.	.	-1	MYH11	HGNC	7569	protein_coding	YES	CCDS45423.1	ENSP00000379616	MYH11_HUMAN	Q68D89_HUMAN,Q66K75_HUMAN	UPI00005B7237	.	.	probably_damaging(0.999)	32/42	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF90257,Pfam_domain:PF01576,hmmpanther:PTHR13140:SF335,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGCTACA	.	5	BLCA
CRAMP1L	0	.	GRCh37	16	1717398	1717398	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3099C>A	p.Phe1033Leu	p.F1033L	ENST00000397412	17/21	87	67	20	48	48	0	CRAMP1L,missense_variant,p.Phe1030Leu,ENST00000436138,;CRAMP1L,missense_variant,p.Phe1033Leu,ENST00000293925,;CRAMP1L,missense_variant,p.Phe1033Leu,ENST00000397412,;CRAMP1L,missense_variant,p.Phe411Leu,ENST00000262317,;CRAMP1L,intron_variant,,ENST00000415022,;LA16c-431H6.6,3_prime_UTR_variant,,ENST00000454337,;CRAMP1L,non_coding_transcript_exon_variant,,ENST00000467286,;CRAMP1L,intron_variant,,ENST00000492778,;CRAMP1L,upstream_gene_variant,,ENST00000468839,;CRAMP1L,downstream_gene_variant,,ENST00000466562,;CRAMP1L,downstream_gene_variant,,ENST00000498594,;	A	ENSG00000007545	ENST00000397412	Transcript	missense_variant	3198	3099	1033	F/L	ttC/ttA	.	.	.	1	CRAMP1L	HGNC	14122	protein_coding	YES	CCDS10440.2	ENSP00000380559	CRML_HUMAN	B2RNX8_HUMAN	UPI000066D946	.	tolerated(0.12)	benign(0.155)	17/21	.	hmmpanther:PTHR21677	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCCAGGT	.	5	BLCA
ARL6IP1	0	.	GRCh37	16	18806821	18806821	+	Missense_Mutation	SNP	G	G	A	rs79644448	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.373C>T	p.Arg125Cys	p.R125C	ENST00000304414	4/6	36	28	8	31	31	0	ARL6IP1,missense_variant,p.Arg125Cys,ENST00000304414,;ARL6IP1,missense_variant,p.Arg96Cys,ENST00000546206,;RP11-1035H13.3,missense_variant,p.Arg125Cys,ENST00000567078,;ARL6IP1,missense_variant,p.Arg87Cys,ENST00000562234,;ARL6IP1,intron_variant,,ENST00000562819,;ARL6IP1,non_coding_transcript_exon_variant,,ENST00000569976,;ARL6IP1,intron_variant,,ENST00000563861,;ARL6IP1,downstream_gene_variant,,ENST00000566391,;ARL6IP1,downstream_gene_variant,,ENST00000567969,;	A	ENSG00000170540	ENST00000304414	Transcript	missense_variant	585	373	125	R/C	Cgc/Tgc	rs79644448,COSM1317718	.	.	-1	ARL6IP1	HGNC	697	protein_coding	YES	CCDS10572.1	ENSP00000306788	AR6P1_HUMAN	F5GXP4_HUMAN	UPI0000125D46	.	tolerated(0.11)	benign(0.012)	4/6	.	hmmpanther:PTHR20952,hmmpanther:PTHR20952:SF1,Pfam_domain:PF02453	.	.	.	.	.	.	.	A:0.0011	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGCGTTTCC	byFrequency|byCluster	4	BLCA
IL27	0	.	GRCh37	16	28518126	28518126	+	Frame_Shift_Ins	INS	G	G	CT	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7delCinsAG	p.Gln3ArgfsTer87	p.Q3Rfs*87	ENST00000356897	1/5	124	97	27	63	63	0	IL27,frameshift_variant,p.Gln3ArgfsTer87,ENST00000356897,;IL27,intron_variant,,ENST00000568075,;	CT	ENSG00000197272	ENST00000356897	Transcript	frameshift_variant	30	7	3	Q/RX	Cag/AGag	.	.	.	-1	IL27	HGNC	19157	protein_coding	YES	CCDS10633.1	ENSP00000349365	IL27A_HUMAN	H3BQY2_HUMAN	UPI0000141330	.	.	.	1/5	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR20879:SF0,hmmpanther:PTHR20879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	CCGTCTGGCCCA	.	5	BLCA
SEPT1	0	.	GRCh37	16	30390387	30390388	+	Frame_Shift_Ins	INS	-	-	AGCG	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.889_892dupCGCT	p.Cys298SerfsTer19	p.C298Sfs*19	ENST00000605106	9/11	140	76	64	64	64	0	SEPT1,frameshift_variant,p.Cys293SerfsTer19,ENST00000571393,;SEPT1,frameshift_variant,p.Cys265SerfsTer19,ENST00000566517,;SEPT1,frameshift_variant,p.Cys298SerfsTer19,ENST00000605106,;SEPT1,frameshift_variant,p.Cys340SerfsTer19,ENST00000321367,;ZNF48,intron_variant,,ENST00000495929,;ZNF48,intron_variant,,ENST00000528032,;MYLPF,downstream_gene_variant,,ENST00000566955,;MYLPF,downstream_gene_variant,,ENST00000322861,;MYLPF,downstream_gene_variant,,ENST00000568749,;MYLPF,downstream_gene_variant,,ENST00000563718,;SEPT1,downstream_gene_variant,,ENST00000570039,;SEPT1,downstream_gene_variant,,ENST00000567783,;SEPT1,3_prime_UTR_variant,,ENST00000572252,;SEPT1,non_coding_transcript_exon_variant,,ENST00000573615,;SEPT1,non_coding_transcript_exon_variant,,ENST00000563957,;SEPT1,downstream_gene_variant,,ENST00000568577,;MYLPF,downstream_gene_variant,,ENST00000563728,;SEPT1,downstream_gene_variant,,ENST00000563743,;SEPT1,downstream_gene_variant,,ENST00000562152,;	AGCG	ENSG00000270466	ENST00000605106	Transcript	frameshift_variant	892-893	892-893	298	C/SLX	tgc/tCGCTgc	.	.	.	-1	SEPT1	Uniprot_gn	2879	protein_coding	YES	.	ENSP00000473960	.	S4R362_HUMAN,H3BS29_HUMAN	UPI000059D361	.	.	.	9/11	.	PROSITE_profiles:PS51719,hmmpanther:PTHR18884,hmmpanther:PTHR18884:SF6,Pfam_domain:PF00735,PIRSF_domain:PIRSF006698	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTAGGCAGCGG	.	3	BLCA
IL32	0	.	GRCh37	16	3119252	3119252	+	Silent	SNP	C	C	T	rs763056959	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463C>T	p.%3D	p.L155L	ENST00000525643	7/7	76	65	11	70	70	0	IL32,synonymous_variant,p.%3D,ENST00000440815,;IL32,synonymous_variant,p.%3D,ENST00000528163,;IL32,synonymous_variant,p.%3D,ENST00000530890,;IL32,synonymous_variant,p.%3D,ENST00000533097,;IL32,synonymous_variant,p.%3D,ENST00000008180,;IL32,synonymous_variant,p.%3D,ENST00000548246,;IL32,synonymous_variant,p.%3D,ENST00000382213,;IL32,synonymous_variant,p.%3D,ENST00000548652,;IL32,synonymous_variant,p.%3D,ENST00000551513,;IL32,synonymous_variant,p.%3D,ENST00000325568,;IL32,synonymous_variant,p.%3D,ENST00000526464,;IL32,synonymous_variant,p.%3D,ENST00000525643,;IL32,synonymous_variant,p.%3D,ENST00000548476,;IL32,synonymous_variant,p.%3D,ENST00000529699,;IL32,synonymous_variant,p.%3D,ENST00000529550,;IL32,synonymous_variant,p.%3D,ENST00000396890,;IL32,synonymous_variant,p.%3D,ENST00000531965,;IL32,synonymous_variant,p.%3D,ENST00000552936,;IL32,synonymous_variant,p.%3D,ENST00000534507,;IL32,synonymous_variant,p.%3D,ENST00000552664,;IL32,synonymous_variant,p.%3D,ENST00000444393,;IL32,synonymous_variant,p.%3D,ENST00000548807,;IL32,synonymous_variant,p.%3D,ENST00000530538,;IL32,synonymous_variant,p.%3D,ENST00000525228,;IL32,synonymous_variant,p.%3D,ENST00000552356,;IL32,intron_variant,,ENST00000525377,;IL32,intron_variant,,ENST00000551122,;IL32,intron_variant,,ENST00000396887,;IL32,intron_variant,,ENST00000549213,;RNU1-125P,upstream_gene_variant,,ENST00000516752,;IL32,non_coding_transcript_exon_variant,,ENST00000525003,;IL32,intron_variant,,ENST00000528652,;IL32,downstream_gene_variant,,ENST00000534748,;IL32,downstream_gene_variant,,ENST00000532086,;IL32,downstream_gene_variant,,ENST00000532247,;	T	ENSG00000008517	ENST00000525643	Transcript	synonymous_variant	795	463	155	L	Ctg/Ttg	rs763056959,COSM1301916	.	.	1	IL32	HGNC	16830	protein_coding	YES	CCDS32377.1	ENSP00000432218	IL32_HUMAN	C6GKH2_HUMAN	UPI00000540FD	.	.	.	7/7	.	Pfam_domain:PF15225	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTCTGTCA	byFrequency	4	BLCA
CREBBP	0	.	GRCh37	16	3900861	3900861	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235G>A	p.Gly79Ser	p.G79S	ENST00000262367	2/31	93	70	22	55	55	0	CREBBP,missense_variant,p.Gly79Ser,ENST00000262367,;CREBBP,missense_variant,p.Gly79Ser,ENST00000382070,;	T	ENSG00000005339	ENST00000262367	Transcript	missense_variant	1045	235	79	G/S	Ggc/Agc	COSM1301962	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	benign(0.06)	2/31	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGCCGCTGC	.	5	BLCA
RPGRIP1L	0	.	GRCh37	16	53698905	53698905	+	Missense_Mutation	SNP	G	G	C	rs200773352	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1120C>G	p.His374Asp	p.H374D	ENST00000379925	10/27	37	20	17	34	34	0	RPGRIP1L,missense_variant,p.His374Asp,ENST00000563746,;RPGRIP1L,missense_variant,p.His374Asp,ENST00000564374,;RPGRIP1L,missense_variant,p.His374Asp,ENST00000262135,;RPGRIP1L,missense_variant,p.His374Asp,ENST00000379925,;	C	ENSG00000103494	ENST00000379925	Transcript	missense_variant	1171	1120	374	H/D	Cat/Gat	rs200773352,COSM1302025	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	deleterious(0.02)	benign(0.066)	10/27	.	hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF4	A:0.0012	A:0	A:0	.	A:0	A:0	A:0.0061	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATGGGCAG	byFrequency|byCluster|by1000G	5	BLCA
GPR56	0	.	GRCh37	16	57685350	57685350	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.303A>T	p.Leu101Phe	p.L101F	ENST00000388812	3/14	88	69	19	70	70	0	GPR56,missense_variant,p.Leu106Phe,ENST00000568234,;GPR56,missense_variant,p.Leu101Phe,ENST00000567154,;GPR56,missense_variant,p.Leu106Phe,ENST00000566271,;GPR56,missense_variant,p.Tyr87Phe,ENST00000566508,;GPR56,missense_variant,p.Leu101Phe,ENST00000561988,;GPR56,missense_variant,p.Leu101Phe,ENST00000568909,;GPR56,missense_variant,p.Leu49Phe,ENST00000568979,;GPR56,missense_variant,p.Leu101Phe,ENST00000564722,;GPR56,missense_variant,p.Leu101Phe,ENST00000563414,;GPR56,missense_variant,p.Leu101Phe,ENST00000540164,;GPR56,missense_variant,p.Leu101Phe,ENST00000566164,;GPR56,missense_variant,p.Leu101Phe,ENST00000561969,;GPR56,missense_variant,p.Leu101Phe,ENST00000569101,;GPR56,missense_variant,p.Leu101Phe,ENST00000562631,;GPR56,missense_variant,p.Leu101Phe,ENST00000569158,;GPR56,missense_variant,p.Leu101Phe,ENST00000563445,;GPR56,missense_variant,p.Leu101Phe,ENST00000456916,;GPR56,missense_variant,p.Leu101Phe,ENST00000569531,;GPR56,missense_variant,p.Leu101Phe,ENST00000569494,;GPR56,missense_variant,p.Leu106Phe,ENST00000564338,;GPR56,missense_variant,p.Leu101Phe,ENST00000567702,;GPR56,missense_variant,p.Leu101Phe,ENST00000379696,;GPR56,missense_variant,p.Leu101Phe,ENST00000568157,;GPR56,missense_variant,p.Leu106Phe,ENST00000561782,;GPR56,missense_variant,p.Leu101Phe,ENST00000538815,;GPR56,missense_variant,p.Leu106Phe,ENST00000563862,;GPR56,missense_variant,p.Leu101Phe,ENST00000388812,;GPR56,missense_variant,p.Leu101Phe,ENST00000388813,;GPR56,missense_variant,p.Leu101Phe,ENST00000566187,;GPR56,missense_variant,p.Leu101Phe,ENST00000562558,;GPR56,missense_variant,p.Leu101Phe,ENST00000565314,;GPR56,missense_variant,p.Leu106Phe,ENST00000563548,;GPR56,missense_variant,p.Leu106Phe,ENST00000562467,;GPR56,missense_variant,p.Leu101Phe,ENST00000568908,;GPR56,missense_variant,p.Leu49Phe,ENST00000568531,;GPR56,missense_variant,p.Tyr115Phe,ENST00000569154,;GPR56,missense_variant,p.Leu101Phe,ENST00000565013,;GPR56,missense_variant,p.Leu106Phe,ENST00000567915,;GPR56,missense_variant,p.Leu101Phe,ENST00000561833,;GPR56,missense_variant,p.Leu101Phe,ENST00000569372,;GPR56,missense_variant,p.Leu101Phe,ENST00000561696,;GPR56,missense_variant,p.Leu101Phe,ENST00000566169,;GPR56,missense_variant,p.Leu101Phe,ENST00000567835,;GPR56,missense_variant,p.Leu106Phe,ENST00000562003,;GPR56,5_prime_UTR_variant,,ENST00000544297,;GPR56,intron_variant,,ENST00000564103,;GPR56,intron_variant,,ENST00000379694,;GPR56,downstream_gene_variant,,ENST00000565770,;GPR56,downstream_gene_variant,,ENST00000564360,;GPR56,downstream_gene_variant,,ENST00000566778,;GPR56,downstream_gene_variant,,ENST00000565976,;GPR56,downstream_gene_variant,,ENST00000568791,;GPR56,downstream_gene_variant,,ENST00000568074,;GPR56,downstream_gene_variant,,ENST00000567397,;GPR56,downstream_gene_variant,,ENST00000565587,;GPR56,downstream_gene_variant,,ENST00000564783,;GPR56,downstream_gene_variant,,ENST00000568618,;GPR56,downstream_gene_variant,,ENST00000565338,;GPR56,downstream_gene_variant,,ENST00000563374,;GPR56,downstream_gene_variant,,ENST00000562414,;GPR56,downstream_gene_variant,,ENST00000564729,;GPR56,upstream_gene_variant,,ENST00000565391,;GPR56,downstream_gene_variant,,ENST00000566123,;GPR56,downstream_gene_variant,,ENST00000570044,;GPR56,downstream_gene_variant,,ENST00000562682,;GPR56,downstream_gene_variant,,ENST00000567553,;GPR56,non_coding_transcript_exon_variant,,ENST00000561872,;GPR56,non_coding_transcript_exon_variant,,ENST00000564912,;GPR56,non_coding_transcript_exon_variant,,ENST00000569132,;GPR56,non_coding_transcript_exon_variant,,ENST00000566888,;GPR56,non_coding_transcript_exon_variant,,ENST00000562608,;GPR56,non_coding_transcript_exon_variant,,ENST00000569992,;GPR56,non_coding_transcript_exon_variant,,ENST00000562101,;GPR56,intron_variant,,ENST00000568700,;GPR56,downstream_gene_variant,,ENST00000562673,;GPR56,missense_variant,p.Tyr87Phe,ENST00000565539,;GPR56,missense_variant,p.Tyr87Phe,ENST00000564907,;GPR56,missense_variant,p.Tyr87Phe,ENST00000568645,;GPR56,missense_variant,p.Tyr87Phe,ENST00000563007,;GPR56,upstream_gene_variant,,ENST00000565505,;	T	ENSG00000205336	ENST00000388812	Transcript	missense_variant	743	303	101	L/F	ttA/ttT	COSM1302061	.	.	1	GPR56	HGNC	4512	protein_coding	YES	CCDS32460.1	ENSP00000373464	GPR56_HUMAN	H3BVE9_HUMAN,H3BVD3_HUMAN,H3BV72_HUMAN,H3BV52_HUMAN,H3BUH2_HUMAN,H3BTK9_HUMAN,H3BTH7_HUMAN,H3BTD2_HUMAN,H3BT88_HUMAN,H3BSR1_HUMAN,H3BSN7_HUMAN,H3BSN3_HUMAN,H3BSB8_HUMAN,H3BS94_HUMAN,H3BS14_HUMAN,H3BRZ4_HUMAN,H3BRI7_HUMAN,H3BRH0_HUMAN,H3BRB4_HUMAN,H3BRA1_HUMAN,H3BQZ1_HUMAN,H3BQW4_HUMAN,H3BQ46_HUMAN,H3BNN3_HUMAN,H3BMF8_HUMAN	UPI0000047817	.	tolerated(0.32)	benign(0.032)	3/14	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF45	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTACATCT	.	5	BLCA
GPR97	0	.	GRCh37	16	57719645	57719645	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1347C>T	p.%3D	p.V449V	ENST00000333493	11/12	107	85	21	87	87	0	GPR97,synonymous_variant,p.%3D,ENST00000450388,;GPR97,synonymous_variant,p.%3D,ENST00000327655,;GPR97,synonymous_variant,p.%3D,ENST00000333493,;RP11-405F3.4,intron_variant,,ENST00000563062,;GPR97,3_prime_UTR_variant,,ENST00000567991,;GPR97,non_coding_transcript_exon_variant,,ENST00000569977,;	T	ENSG00000182885	ENST00000333493	Transcript	synonymous_variant	1508	1347	449	V	gtC/gtT	COSM971869	.	.	1	GPR97	HGNC	13728	protein_coding	YES	CCDS10786.1	ENSP00000332900	GPR97_HUMAN	H3BS78_HUMAN,F8W8F7_HUMAN	UPI000003C9E1	.	.	.	11/12	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF267,Pfam_domain:PF00002,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGTCCTGGC	.	5	BLCA
KATNB1	0	.	GRCh37	16	57786831	57786831	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846T>C	p.%3D	p.N282N	ENST00000379661	10/20	95	68	27	51	51	0	KATNB1,synonymous_variant,p.%3D,ENST00000379661,;KATNB1,downstream_gene_variant,,ENST00000562592,;KATNB1,upstream_gene_variant,,ENST00000563462,;KATNB1,downstream_gene_variant,,ENST00000569627,;KATNB1,downstream_gene_variant,,ENST00000566726,;KATNB1,non_coding_transcript_exon_variant,,ENST00000566611,;KATNB1,downstream_gene_variant,,ENST00000563127,;KATNB1,upstream_gene_variant,,ENST00000562542,;KATNB1,upstream_gene_variant,,ENST00000569018,;	C	ENSG00000140854	ENST00000379661	Transcript	synonymous_variant	1238	846	282	N	aaT/aaC	COSM1302069	.	.	1	KATNB1	HGNC	6217	protein_coding	YES	CCDS10788.1	ENSP00000368982	KTNB1_HUMAN	H3BTV8_HUMAN,H3BPK1_HUMAN	UPI000007388F	.	.	.	10/20	.	HAMAP:MF_03022,hmmpanther:PTHR19845,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAATGACCA	.	5	BLCA
NDRG4	0	.	GRCh37	16	58538110	58538110	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.336C>T	p.%3D	p.T112T	ENST00000394282	5/16	236	195	41	135	135	0	NDRG4,synonymous_variant,p.%3D,ENST00000563799,;NDRG4,synonymous_variant,p.%3D,ENST00000565304,;NDRG4,synonymous_variant,p.%3D,ENST00000566618,;NDRG4,synonymous_variant,p.%3D,ENST00000565434,;NDRG4,synonymous_variant,p.%3D,ENST00000562731,;NDRG4,synonymous_variant,p.%3D,ENST00000566192,;NDRG4,synonymous_variant,p.%3D,ENST00000564207,;NDRG4,synonymous_variant,p.%3D,ENST00000561738,;NDRG4,synonymous_variant,p.%3D,ENST00000564486,;NDRG4,synonymous_variant,p.%3D,ENST00000569923,;NDRG4,synonymous_variant,p.%3D,ENST00000570248,;NDRG4,synonymous_variant,p.%3D,ENST00000394282,;NDRG4,synonymous_variant,p.%3D,ENST00000564126,;NDRG4,synonymous_variant,p.%3D,ENST00000394279,;NDRG4,synonymous_variant,p.%3D,ENST00000567454,;NDRG4,synonymous_variant,p.%3D,ENST00000566656,;NDRG4,synonymous_variant,p.%3D,ENST00000567667,;NDRG4,synonymous_variant,p.%3D,ENST00000565088,;NDRG4,synonymous_variant,p.%3D,ENST00000563978,;NDRG4,synonymous_variant,p.%3D,ENST00000568640,;NDRG4,synonymous_variant,p.%3D,ENST00000561779,;NDRG4,synonymous_variant,p.%3D,ENST00000569404,;NDRG4,synonymous_variant,p.%3D,ENST00000565430,;NDRG4,synonymous_variant,p.%3D,ENST00000258187,;NDRG4,synonymous_variant,p.%3D,ENST00000356752,;NDRG4,synonymous_variant,p.%3D,ENST00000561724,;NDRG4,synonymous_variant,p.%3D,ENST00000567063,;NDRG4,synonymous_variant,p.%3D,ENST00000569539,;NDRG4,synonymous_variant,p.%3D,ENST00000562999,;NDRG4,synonymous_variant,p.%3D,ENST00000568999,;NDRG4,upstream_gene_variant,,ENST00000569408,;NDRG4,upstream_gene_variant,,ENST00000569026,;NDRG4,downstream_gene_variant,,ENST00000568424,;NDRG4,non_coding_transcript_exon_variant,,ENST00000563022,;NDRG4,intron_variant,,ENST00000562725,;NDRG4,downstream_gene_variant,,ENST00000569578,;NDRG4,downstream_gene_variant,,ENST00000566065,;NDRG4,3_prime_UTR_variant,,ENST00000568464,;NDRG4,3_prime_UTR_variant,,ENST00000562764,;NDRG4,3_prime_UTR_variant,,ENST00000562930,;NDRG4,3_prime_UTR_variant,,ENST00000564867,;NDRG4,non_coding_transcript_exon_variant,,ENST00000561720,;NDRG4,non_coding_transcript_exon_variant,,ENST00000566585,;NDRG4,non_coding_transcript_exon_variant,,ENST00000564960,;NDRG4,non_coding_transcript_exon_variant,,ENST00000421602,;NDRG4,intron_variant,,ENST00000566061,;NDRG4,upstream_gene_variant,,ENST00000568005,;NDRG4,upstream_gene_variant,,ENST00000561730,;NDRG4,upstream_gene_variant,,ENST00000561681,;NDRG4,downstream_gene_variant,,ENST00000563317,;NDRG4,upstream_gene_variant,,ENST00000566265,;NDRG4,upstream_gene_variant,,ENST00000562350,;NDRG4,upstream_gene_variant,,ENST00000565981,;	T	ENSG00000103034	ENST00000394282	Transcript	synonymous_variant	743	336	112	T	acC/acT	COSM1302076	.	.	1	NDRG4	HGNC	14466	protein_coding	YES	CCDS45500.1	ENSP00000377823	NDRG4_HUMAN	H3BUK1_HUMAN,H3BU25_HUMAN,H3BST8_HUMAN,H3BSC3_HUMAN,H3BRT9_HUMAN,H3BR92_HUMAN,H3BPH8_HUMAN,H3BNQ1_HUMAN,H3BNB4_HUMAN,H3BN97_HUMAN,H3BMR6_HUMAN,H3BM83_HUMAN,B7Z9X4_HUMAN	UPI00001C0CB5	.	.	.	5/16	.	Superfamily_domains:SSF53474,Pfam_domain:PF03096,Gene3D:3.40.50.1820,hmmpanther:PTHR11034,hmmpanther:PTHR11034:SF21	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCACCAAGCA	.	4	BLCA
CBFB	0	.	GRCh37	16	67116228	67116228	+	Intron	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495+17T>A	.	.	ENST00000412916	.	156	106	50	178	178	0	CBFB,missense_variant,p.Leu171Gln,ENST00000290858,;CBFB,missense_variant,p.Leu71Gln,ENST00000561924,;CBFB,intron_variant,,ENST00000565389,;CBFB,intron_variant,,ENST00000412916,;CBFB,downstream_gene_variant,,ENST00000563939,;CBFB,intron_variant,,ENST00000566281,;	A	ENSG00000067955	ENST00000412916	Transcript	intron_variant	.	.	.	.	.	COSM1302110	.	.	1	CBFB	HGNC	1539	protein_coding	YES	CCDS45508.1	ENSP00000415151	PEBB_HUMAN	J3KRT0_HUMAN	UPI0000072C72	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCTGCTGG	.	5	BLCA
VPS4A	0	.	GRCh37	16	69352762	69352762	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.380A>G	p.Asn127Ser	p.N127S	ENST00000254950	5/11	365	284	80	239	239	0	VPS4A,missense_variant,p.Asn127Ser,ENST00000254950,;RP11-343C2.11,missense_variant,p.Asn151Ser,ENST00000570054,;COG8,downstream_gene_variant,,ENST00000562595,;VPS4A,upstream_gene_variant,,ENST00000564399,;COG8,downstream_gene_variant,,ENST00000564419,;VPS4A,upstream_gene_variant,,ENST00000562754,;VPS4A,upstream_gene_variant,,ENST00000566354,;	G	ENSG00000132612	ENST00000254950	Transcript	missense_variant	536	380	127	N/S	aAc/aGc	COSM1302181	.	.	1	VPS4A	HGNC	13488	protein_coding	YES	CCDS45517.1	ENSP00000254950	VPS4A_HUMAN	Q9UF30_HUMAN	UPI000000DC7F	.	tolerated(0.86)	benign(0)	5/11	.	hmmpanther:PTHR23074,hmmpanther:PTHR23074:SF82,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGAACGACG	.	5	BLCA
ZNF23	0	.	GRCh37	16	71483261	71483261	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.667C>T	p.Pro223Ser	p.P223S	ENST00000393539	6/6	83	35	48	108	108	0	ZNF23,missense_variant,p.Pro165Ser,ENST00000428724,;ZNF23,missense_variant,p.Pro223Ser,ENST00000393539,;ZNF23,missense_variant,p.Pro223Ser,ENST00000357254,;ZNF23,missense_variant,p.Pro223Ser,ENST00000417828,;ZNF23,missense_variant,p.Pro165Ser,ENST00000564528,;ZNF23,3_prime_UTR_variant,,ENST00000358700,;ZNF23,3_prime_UTR_variant,,ENST00000497160,;ZNF23,downstream_gene_variant,,ENST00000565718,;ZNF23,downstream_gene_variant,,ENST00000567340,;ZNF23,non_coding_transcript_exon_variant,,ENST00000539742,;AC010547.9,3_prime_UTR_variant,,ENST00000561908,;ZNF23,non_coding_transcript_exon_variant,,ENST00000576258,;	A	ENSG00000167377	ENST00000393539	Transcript	missense_variant	1481	667	223	P/S	Ccc/Tcc	COSM1302226	.	.	-1	ZNF23	HGNC	13023	protein_coding	YES	CCDS10900.1	ENSP00000377171	ZNF23_HUMAN	Q8NDP5_HUMAN,H3BPE6_HUMAN	UPI000013C406	.	deleterious(0.01)	possibly_damaging(0.862)	6/6	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24377:SF180,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGGGTTTCT	.	5	BLCA
CHST4	0	.	GRCh37	16	71571354	71571354	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774G>A	p.%3D	p.K258K	ENST00000338482	3/3	81	71	10	46	46	0	CHST4,synonymous_variant,p.%3D,ENST00000539698,;CHST4,synonymous_variant,p.%3D,ENST00000572450,;CHST4,synonymous_variant,p.%3D,ENST00000338482,;ZNF19,intron_variant,,ENST00000564225,;ZNF19,intron_variant,,ENST00000566202,;RP11-510M2.5,downstream_gene_variant,,ENST00000568523,;ZNF19,intron_variant,,ENST00000568446,;CHST4,non_coding_transcript_exon_variant,,ENST00000572693,;	A	ENSG00000140835	ENST00000338482	Transcript	synonymous_variant	1117	774	258	K	aaG/aaA	COSM1302228	.	.	1	CHST4	HGNC	1972	protein_coding	YES	CCDS10902.1	ENSP00000341206	CHST4_HUMAN	.	UPI000006F41D	.	.	.	3/3	.	hmmpanther:PTHR10704:SF40,hmmpanther:PTHR10704,Pfam_domain:PF00685,Gene3D:3.40.50.300,PIRSF_domain:PIRSF005883,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACAAGACCAT	.	4	BLCA
PHLPP2	0	.	GRCh37	16	71706188	71706188	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1509G>T	p.%3D	p.L503L	ENST00000568954	10/19	47	32	15	46	46	0	PHLPP2,synonymous_variant,p.%3D,ENST00000567016,;PHLPP2,synonymous_variant,p.%3D,ENST00000356272,;PHLPP2,synonymous_variant,p.%3D,ENST00000568954,;PHLPP2,synonymous_variant,p.%3D,ENST00000393524,;PHLPP2,synonymous_variant,p.%3D,ENST00000360429,;PHLPP2,synonymous_variant,p.%3D,ENST00000568004,;PHLPP2,downstream_gene_variant,,ENST00000538126,;	A	ENSG00000040199	ENST00000568954	Transcript	synonymous_variant	1888	1509	503	L	ctG/ctT	COSM1302231	.	.	-1	PHLPP2	HGNC	29149	protein_coding	YES	CCDS32479.1	ENSP00000457991	PHLP2_HUMAN	.	UPI0000229F5A	.	.	.	10/19	.	Superfamily_domains:SSF52058,Superfamily_domains:SSF52058,SMART_domains:SM00369,SMART_domains:SM00364,Gene3D:3.80.10.10,hmmpanther:PTHR23155,hmmpanther:PTHR23155:SF16,PROSITE_profiles:PS51450	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAGCAGGCT	.	5	BLCA
RBFOX1	0	.	GRCh37	16	7743327	7743327	+	Intron	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1059-15731G>A	.	.	ENST00000311745	.	75	61	13	78	78	0	RBFOX1,missense_variant,p.Val293Ile,ENST00000535565,;RBFOX1,missense_variant,p.Val353Ile,ENST00000552089,;RBFOX1,missense_variant,p.Val357Ile,ENST00000355637,;RBFOX1,missense_variant,p.Val379Ile,ENST00000547372,;RBFOX1,intron_variant,,ENST00000553186,;RBFOX1,intron_variant,,ENST00000340209,;RBFOX1,intron_variant,,ENST00000567470,;RBFOX1,intron_variant,,ENST00000547338,;RBFOX1,intron_variant,,ENST00000311745,;RBFOX1,intron_variant,,ENST00000436368,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000550418,;RBFOX1,intron_variant,,ENST00000570188,;	A	ENSG00000078328	ENST00000311745	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RBFOX1	HGNC	18222	protein_coding	YES	CCDS10531.1	ENSP00000309117	RFOX1_HUMAN	.	UPI000006E29E	.	.	.	.	11/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTCGTCTTC	.	5	BLCA
CCDC144A	0	.	GRCh37	17	16701657	16701657	+	3'UTR	SNP	G	G	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1592G>T	.	.	ENST00000443444	24/27	103	84	18	131	131	0	CCDC144A,3_prime_UTR_variant,,ENST00000443444,;USP32P1,non_coding_transcript_exon_variant,,ENST00000437217,;USP32P1,non_coding_transcript_exon_variant,,ENST00000341745,;RP11-219A15.4,non_coding_transcript_exon_variant,,ENST00000602730,;USP32P1,non_coding_transcript_exon_variant,,ENST00000445583,;USP32P1,non_coding_transcript_exon_variant,,ENST00000582011,;USP32P1,non_coding_transcript_exon_variant,,ENST00000393005,;USP32P1,non_coding_transcript_exon_variant,,ENST00000417524,;USP32P1,non_coding_transcript_exon_variant,,ENST00000456071,;USP32P1,non_coding_transcript_exon_variant,,ENST00000444558,;USP32P1,downstream_gene_variant,,ENST00000578986,;USP32P1,downstream_gene_variant,,ENST00000577603,;RP11-219A15.1,3_prime_UTR_variant,,ENST00000448331,;USP32P1,non_coding_transcript_exon_variant,,ENST00000506594,;	T	ENSG00000170160	ENST00000443444	Transcript	3_prime_UTR_variant	6016	.	.	.	.	.	.	.	1	CCDC144A	HGNC	29072	protein_coding	YES	CCDS45621.1	ENSP00000439262	C144A_HUMAN	.	UPI0000F095D0	.	.	.	24/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTGGTACC	.	5	BLCA
ASPA	0	.	GRCh37	17	3379514	3379514	+	Missense_Mutation	SNP	C	C	G	rs773063268	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.61C>G	p.His21Asp	p.H21D	ENST00000263080	1/6	77	37	40	130	130	0	ASPA,missense_variant,p.His21Asp,ENST00000456349,;ASPA,missense_variant,p.His21Asp,ENST00000577034,;ASPA,missense_variant,p.His21Asp,ENST00000263080,;SPATA22,intron_variant,,ENST00000541913,;SPATA22,intron_variant,,ENST00000570318,;SPATA22,upstream_gene_variant,,ENST00000574797,;SPATA22,upstream_gene_variant,,ENST00000573128,;SPATA22,upstream_gene_variant,,ENST00000572582,;SPATA22,upstream_gene_variant,,ENST00000575375,;SPATA22,upstream_gene_variant,,ENST00000397168,;SPATA22,upstream_gene_variant,,ENST00000355380,;SPATA22,upstream_gene_variant,,ENST00000571553,;SPATA22,upstream_gene_variant,,ENST00000572969,;SPATA22,upstream_gene_variant,,ENST00000268981,;SPATA22,upstream_gene_variant,,ENST00000574457,;ASPA,missense_variant,p.His21Asp,ENST00000571278,;	G	ENSG00000108381	ENST00000263080	Transcript	missense_variant	219	61	21	H/D	Cat/Gat	rs773063268,COSM1302663	.	.	1	ASPA	HGNC	756	protein_coding	YES	CCDS11028.1	ENSP00000263080	ACY2_HUMAN	Q6FH48_HUMAN,I3L0T3_HUMAN	UPI00000012D1	.	deleterious(0)	probably_damaging(1)	1/6	.	HAMAP:MF_00704,hmmpanther:PTHR15162:SF4,hmmpanther:PTHR15162,Pfam_domain:PF04952,Gene3D:3.40.630.10,PIRSF_domain:PIRSF018001,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACCCATGGG	.	5	BLCA
PEX12	0	.	GRCh37	17	33905064	33905064	+	5'UTR	SNP	C	C	T	rs761359334	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-24G>A	.	.	ENST00000225873	1/3	37	25	11	53	53	0	PEX12,5_prime_UTR_variant,,ENST00000225873,;PEX12,5_prime_UTR_variant,,ENST00000585380,;AP2B1,upstream_gene_variant,,ENST00000589774,;RP11-1094M14.11,downstream_gene_variant,,ENST00000592381,;SNORD7,downstream_gene_variant,,ENST00000384567,;PEX12,5_prime_UTR_variant,,ENST00000586663,;	T	ENSG00000108733	ENST00000225873	Transcript	5_prime_UTR_variant	585	.	.	.	.	rs761359334	.	.	-1	PEX12	HGNC	8854	protein_coding	YES	CCDS11296.1	ENSP00000225873	PEX12_HUMAN	K7ELY8_HUMAN	UPI0000131703	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCACTTT	.	5	BLCA
TOP2A	0	.	GRCh37	17	38556598	38556598	+	Missense_Mutation	SNP	T	T	C	rs375158687	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2863A>G	p.Thr955Ala	p.T955A	ENST00000423485	23/35	28	16	12	46	46	0	TOP2A,missense_variant,p.Thr955Ala,ENST00000423485,;TOP2A,upstream_gene_variant,,ENST00000577706,;	C	ENSG00000131747	ENST00000423485	Transcript	missense_variant	3022	2863	955	T/A	Aca/Gca	rs375158687,COSM1302769	.	.	-1	TOP2A	HGNC	11989	protein_coding	YES	CCDS45672.1	ENSP00000411532	TOP2A_HUMAN	J3QR57_HUMAN,J3KTB7_HUMAN	UPI0000137195	.	tolerated(0.07)	benign(0.142)	23/35	.	hmmpanther:PTHR10169:SF33,hmmpanther:PTHR10169,Pfam_domain:PF00521,Gene3D:3.30.1360.40,SMART_domains:SM00434,Superfamily_domains:SSF56719	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTGTTATGA	byFrequency|byCluster	5	BLCA
TOP2A	0	.	GRCh37	17	38560701	38560701	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2089G>T	p.Asp697Tyr	p.D697Y	ENST00000423485	18/35	35	24	10	46	46	0	TOP2A,missense_variant,p.Asp697Tyr,ENST00000423485,;	A	ENSG00000131747	ENST00000423485	Transcript	missense_variant	2248	2089	697	D/Y	Gac/Tac	.	.	.	-1	TOP2A	HGNC	11989	protein_coding	YES	CCDS45672.1	ENSP00000411532	TOP2A_HUMAN	J3QR57_HUMAN,J3KTB7_HUMAN	UPI0000137195	.	deleterious(0)	probably_damaging(0.986)	18/35	.	hmmpanther:PTHR10169:SF33,hmmpanther:PTHR10169,SMART_domains:SM00434,Superfamily_domains:SSF56719	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGTCATTAT	.	5	BLCA
KRT16	0	.	GRCh37	17	39766722	39766722	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1141A>G	p.Ser381Gly	p.S381G	ENST00000301653	6/8	218	150	67	186	186	0	KRT16,missense_variant,p.Ser143Gly,ENST00000593067,;KRT16,missense_variant,p.Ser381Gly,ENST00000301653,;KRT16,downstream_gene_variant,,ENST00000590990,;KRT16,downstream_gene_variant,,ENST00000588319,;	C	ENSG00000186832	ENST00000301653	Transcript	missense_variant	1206	1141	381	S/G	Agt/Ggt	COSM1302815	.	.	-1	KRT16	HGNC	6423	protein_coding	YES	CCDS11401.1	ENSP00000301653	K1C16_HUMAN	K7ENW6_HUMAN,K7ENV3_HUMAN	UPI0000001C7B	.	tolerated(0.16)	benign(0.044)	6/8	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF105,Pfam_domain:PF00038,Gene3D:1.20.5.170,Superfamily_domains:SSF64593,Prints_domain:PR01248	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACACTGCCAA	.	5	BLCA
JUP	0	.	GRCh37	17	39923802	39923802	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.738C>T	p.%3D	p.A246A	ENST00000393931	5/14	123	98	24	88	88	0	JUP,synonymous_variant,p.%3D,ENST00000437187,;JUP,synonymous_variant,p.%3D,ENST00000393931,;JUP,synonymous_variant,p.%3D,ENST00000420370,;JUP,synonymous_variant,p.%3D,ENST00000540235,;JUP,synonymous_variant,p.%3D,ENST00000310706,;JUP,synonymous_variant,p.%3D,ENST00000449889,;JUP,synonymous_variant,p.%3D,ENST00000393930,;JUP,downstream_gene_variant,,ENST00000424457,;JUP,downstream_gene_variant,,ENST00000437369,;JUP,downstream_gene_variant,,ENST00000591690,;JUP,downstream_gene_variant,,ENST00000465293,;JUP,upstream_gene_variant,,ENST00000585793,;JUP,downstream_gene_variant,,ENST00000589036,;	A	ENSG00000173801	ENST00000393931	Transcript	synonymous_variant	857	738	246	A	gcC/gcT	COSM1302819	.	.	-1	JUP	HGNC	6207	protein_coding	YES	CCDS11407.1	ENSP00000377508	PLAK_HUMAN	Q7KZ86_HUMAN,K7ERP3_HUMAN,C9JTX4_HUMAN,C9JPI2_HUMAN,C9JKY1_HUMAN,C9JK18_HUMAN,C9J826_HUMAN	UPI0000073ED4	.	.	.	5/14	.	Superfamily_domains:SSF48371,SMART_domains:SM00185,Pfam_domain:PF00514,Gene3D:1.25.10.10,hmmpanther:PTHR23315:SF12,hmmpanther:PTHR23315,PROSITE_profiles:PS50176	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGATGGCATA	.	4	BLCA
DHX8	0	.	GRCh37	17	41598153	41598153	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2972A>G	p.Lys991Arg	p.K991R	ENST00000262415	20/23	35	15	20	58	58	0	DHX8,missense_variant,p.Lys991Arg,ENST00000540306,;DHX8,missense_variant,p.Lys991Arg,ENST00000262415,;DHX8,upstream_gene_variant,,ENST00000589898,;DHX8,upstream_gene_variant,,ENST00000587574,;DHX8,non_coding_transcript_exon_variant,,ENST00000587044,;	G	ENSG00000067596	ENST00000262415	Transcript	missense_variant	3044	2972	991	K/R	aAa/aGa	COSM1302872	.	.	1	DHX8	HGNC	2749	protein_coding	YES	CCDS11464.1	ENSP00000262415	DHX8_HUMAN	.	UPI00001290D9	.	tolerated(0.06)	probably_damaging(1)	20/23	.	hmmpanther:PTHR18934:SF85,hmmpanther:PTHR18934,Pfam_domain:PF04408,SMART_domains:SM00847,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAAAATGC	.	5	BLCA
ITGA2B	0	.	GRCh37	17	42455070	42455070	+	Missense_Mutation	SNP	G	G	T	rs756028263	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2183C>A	p.Ala728Asp	p.A728D	ENST00000262407	21/30	70	56	14	59	59	0	ITGA2B,missense_variant,p.Ala728Asp,ENST00000353281,;ITGA2B,missense_variant,p.Ala728Asp,ENST00000262407,;ITGA2B,downstream_gene_variant,,ENST00000377068,;ITGA2B,upstream_gene_variant,,ENST00000588098,;ITGA2B,upstream_gene_variant,,ENST00000587295,;ITGA2B,non_coding_transcript_exon_variant,,ENST00000592462,;ITGA2B,downstream_gene_variant,,ENST00000592226,;	T	ENSG00000005961	ENST00000262407	Transcript	missense_variant	2215	2183	728	A/D	gCc/gAc	rs756028263,COSM979951	.	.	-1	ITGA2B	HGNC	6138	protein_coding	YES	CCDS32665.1	ENSP00000262407	ITA2B_HUMAN	Q6LDK5_HUMAN,I6XCH0_HUMAN,F1C626_HUMAN	UPI00001868B8	.	tolerated(0.08)	probably_damaging(0.949)	21/30	.	hmmpanther:PTHR23220:SF73,hmmpanther:PTHR23220,Gene3D:2.60.40.1510,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGGCGTTC	byFrequency	5	BLCA
ITGA2B	0	.	GRCh37	17	42455071	42455071	+	Missense_Mutation	SNP	C	C	A	rs146445219	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2182G>T	p.Ala728Ser	p.A728S	ENST00000262407	21/30	72	58	14	58	58	0	ITGA2B,missense_variant,p.Ala728Ser,ENST00000353281,;ITGA2B,missense_variant,p.Ala728Ser,ENST00000262407,;ITGA2B,downstream_gene_variant,,ENST00000377068,;ITGA2B,upstream_gene_variant,,ENST00000588098,;ITGA2B,upstream_gene_variant,,ENST00000587295,;ITGA2B,non_coding_transcript_exon_variant,,ENST00000592462,;ITGA2B,downstream_gene_variant,,ENST00000592226,;	A	ENSG00000005961	ENST00000262407	Transcript	missense_variant	2214	2182	728	A/S	Gcc/Tcc	rs146445219	.	.	-1	ITGA2B	HGNC	6138	protein_coding	YES	CCDS32665.1	ENSP00000262407	ITA2B_HUMAN	Q6LDK5_HUMAN,I6XCH0_HUMAN,F1C626_HUMAN	UPI00001868B8	.	tolerated(0.08)	possibly_damaging(0.837)	21/30	.	hmmpanther:PTHR23220:SF73,hmmpanther:PTHR23220,Gene3D:2.60.40.1510,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGGCGTTCT	.	5	BLCA
AKAP1	0	.	GRCh37	17	55195741	55195741	+	Splice_Site	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2501-1G>T	.	p.X834_splice	ENST00000337714	.	75	37	37	75	75	0	AKAP1,splice_acceptor_variant,,ENST00000572560,;AKAP1,splice_acceptor_variant,,ENST00000571629,;AKAP1,splice_acceptor_variant,,ENST00000337714,;AKAP1,splice_acceptor_variant,,ENST00000572557,;AKAP1,splice_acceptor_variant,,ENST00000575032,;AKAP1,splice_acceptor_variant,,ENST00000539273,;AKAP1,splice_acceptor_variant,,ENST00000573326,;AKAP1,splice_acceptor_variant,,ENST00000481416,;	T	ENSG00000121057	ENST00000337714	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1303091	.	.	1	AKAP1	HGNC	367	protein_coding	YES	CCDS11594.1	ENSP00000337736	AKAP1_HUMAN	I3L3L9_HUMAN,I3L3K1_HUMAN,I3L364_HUMAN,I3L2N7_HUMAN,I3L2A2_HUMAN,I3L0K6_HUMAN	UPI0000125778	.	.	.	.	8/10	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGACGAT	.	5	BLCA
LPO	0	.	GRCh37	17	56327935	56327935	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733C>G	p.Gln245Glu	p.Q245E	ENST00000262290	7/13	72	29	42	91	91	0	LPO,missense_variant,p.Gln162Glu,ENST00000421678,;LPO,missense_variant,p.Gln245Glu,ENST00000262290,;LPO,missense_variant,p.Gln186Glu,ENST00000543544,;LPO,missense_variant,p.Gln162Glu,ENST00000582328,;LPO,downstream_gene_variant,,ENST00000581008,;LPO,non_coding_transcript_exon_variant,,ENST00000578403,;LPO,non_coding_transcript_exon_variant,,ENST00000580346,;LPO,non_coding_transcript_exon_variant,,ENST00000578643,;LPO,intron_variant,,ENST00000580890,;LPO,upstream_gene_variant,,ENST00000389576,;	G	ENSG00000167419	ENST00000262290	Transcript	missense_variant	1049	733	245	Q/E	Cag/Gag	COSM1303105	.	.	1	LPO	HGNC	6678	protein_coding	YES	CCDS32689.1	ENSP00000262290	PERL_HUMAN	J3QSD8_HUMAN,F5H386_HUMAN	UPI0000131631	.	tolerated(0.06)	benign(0.446)	7/13	.	PROSITE_profiles:PS50292,hmmpanther:PTHR11475:SF53,hmmpanther:PTHR11475,Pfam_domain:PF03098,Superfamily_domains:SSF48113	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCCCAGTGT	.	5	BLCA
RAD51C	0	.	GRCh37	17	56780655	56780655	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.670T>C	p.Tyr224His	p.Y224H	ENST00000337432	4/9	43	32	11	84	84	0	RAD51C,missense_variant,p.Tyr224His,ENST00000337432,;RAD51C,missense_variant,p.Tyr156His,ENST00000425173,;RAD51C,missense_variant,p.Tyr107His,ENST00000461271,;RAD51C,missense_variant,p.Tyr224His,ENST00000583539,;RAD51C,missense_variant,p.Tyr104His,ENST00000413590,;RAD51C,non_coding_transcript_exon_variant,,ENST00000487921,;RAD51C,3_prime_UTR_variant,,ENST00000584617,;RAD51C,3_prime_UTR_variant,,ENST00000475762,;RAD51C,3_prime_UTR_variant,,ENST00000482007,;RAD51C,3_prime_UTR_variant,,ENST00000487525,;	C	ENSG00000108384	ENST00000337432	Transcript	missense_variant	741	670	224	Y/H	Tat/Cat	COSM1303122	.	.	1	RAD51C	HGNC	9820	protein_coding	YES	CCDS11611.1	ENSP00000336701	RA51C_HUMAN	Q7KZJ0_HUMAN,J3QR58_HUMAN	UPI0000133007	.	tolerated(0.35)	benign(0.008)	4/9	.	PROSITE_profiles:PS50162,hmmpanther:PTHR22942:SF14,hmmpanther:PTHR22942,Gene3D:3.40.50.300,Pfam_domain:PF08423,PIRSF_domain:PIRSF005856,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTTATCTT	.	5	BLCA
RNFT1	0	.	GRCh37	17	58040588	58040588	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114G>A	p.Met38Ile	p.M38I	ENST00000305783	2/9	59	47	12	87	87	0	RNFT1,start_lost,p.Met1?,ENST00000442346,;RNFT1,missense_variant,p.Met38Ile,ENST00000305783,;RNFT1,missense_variant,p.Met38Ile,ENST00000589113,;RP11-178C3.1,intron_variant,,ENST00000591035,;TBC1D3P1-DHX40P1,non_coding_transcript_exon_variant,,ENST00000587125,;RP11-178C3.2,upstream_gene_variant,,ENST00000586209,;RP11-178C3.2,upstream_gene_variant,,ENST00000593015,;RNFT1,missense_variant,p.Met38Ile,ENST00000482446,;RNFT1,missense_variant,p.Met38Ile,ENST00000466544,;RNFT1,non_coding_transcript_exon_variant,,ENST00000477207,;RNFT1,non_coding_transcript_exon_variant,,ENST00000586083,;RNFT1,upstream_gene_variant,,ENST00000493737,;RNFT1,upstream_gene_variant,,ENST00000484257,;RNFT1,upstream_gene_variant,,ENST00000486103,;	T	ENSG00000189050	ENST00000305783	Transcript	missense_variant	170	114	38	M/I	atG/atA	COSM1303133,COSM1303132	.	.	-1	RNFT1	HGNC	30206	protein_coding	YES	CCDS11622.2	ENSP00000304670	RNFT1_HUMAN	.	UPI0000D4C2BF	.	deleterious(0.01)	probably_damaging(0.993)	2/9	.	hmmpanther:PTHR15860,hmmpanther:PTHR15860:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTGCATGGC	.	5	BLCA
SCN4A	0	.	GRCh37	17	62021113	62021113	+	Missense_Mutation	SNP	C	C	T	rs779953580	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4010G>A	p.Arg1337Gln	p.R1337Q	ENST00000435607	22/24	19	13	5	12	12	0	SCN4A,missense_variant,p.Arg1337Gln,ENST00000435607,;SCN4A,missense_variant,p.Arg1337Gln,ENST00000578147,;SCN4A,downstream_gene_variant,,ENST00000584310,;	T	ENSG00000007314	ENST00000435607	Transcript	missense_variant	4087	4010	1337	R/Q	cGg/cAg	rs779953580,COSM1303191	.	.	-1	SCN4A	HGNC	10591	protein_coding	YES	CCDS45761.1	ENSP00000396320	SCN4A_HUMAN	Q9H3L9_HUMAN	UPI0000201254	.	deleterious(0)	probably_damaging(0.996)	22/24	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF193	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGCCGGGGA	byFrequency	5	BLCA
DDX5	0	.	GRCh37	17	62499626	62499626	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571T>G	p.Cys191Gly	p.C191G	ENST00000225792	6/13	75	53	22	65	65	0	DDX5,missense_variant,p.Cys191Gly,ENST00000578804,;DDX5,missense_variant,p.Cys112Gly,ENST00000450599,;DDX5,missense_variant,p.Cys29Gly,ENST00000577787,;DDX5,missense_variant,p.Cys191Gly,ENST00000225792,;DDX5,missense_variant,p.Cys191Gly,ENST00000577922,;DDX5,downstream_gene_variant,,ENST00000584279,;DDX5,downstream_gene_variant,,ENST00000583212,;CEP95,upstream_gene_variant,,ENST00000553412,;DDX5,downstream_gene_variant,,ENST00000581806,;DDX5,downstream_gene_variant,,ENST00000583239,;DDX5,downstream_gene_variant,,ENST00000579091,;CEP95,upstream_gene_variant,,ENST00000556440,;DDX5,downstream_gene_variant,,ENST00000578190,;CEP95,upstream_gene_variant,,ENST00000581056,;DDX5,downstream_gene_variant,,ENST00000581697,;DDX5,downstream_gene_variant,,ENST00000585060,;CEP95,upstream_gene_variant,,ENST00000580188,;DDX5,upstream_gene_variant,,ENST00000579996,;DDX5,downstream_gene_variant,,ENST00000585111,;MIR3064,upstream_gene_variant,,ENST00000581130,;MIR5047,upstream_gene_variant,,ENST00000579212,;DDX5,upstream_gene_variant,,ENST00000580026,;DDX5,downstream_gene_variant,,ENST00000584500,;DDX5,downstream_gene_variant,,ENST00000583699,;DDX5,upstream_gene_variant,,ENST00000581237,;DDX5,upstream_gene_variant,,ENST00000578491,;DDX5,3_prime_UTR_variant,,ENST00000540698,;DDX5,3_prime_UTR_variant,,ENST00000581693,;DDX5,non_coding_transcript_exon_variant,,ENST00000584549,;DDX5,non_coding_transcript_exon_variant,,ENST00000582326,;DDX5,non_coding_transcript_exon_variant,,ENST00000583894,;DDX5,non_coding_transcript_exon_variant,,ENST00000581551,;DDX5,non_coding_transcript_exon_variant,,ENST00000581230,;DDX5,non_coding_transcript_exon_variant,,ENST00000583201,;DDX5,intron_variant,,ENST00000578400,;DDX5,downstream_gene_variant,,ENST00000585223,;CEP95,upstream_gene_variant,,ENST00000579860,;DDX5,upstream_gene_variant,,ENST00000579461,;DDX5,upstream_gene_variant,,ENST00000578758,;CEP95,upstream_gene_variant,,ENST00000553956,;DDX5,downstream_gene_variant,,ENST00000583562,;DDX5,upstream_gene_variant,,ENST00000585317,;	C	ENSG00000108654	ENST00000225792	Transcript	missense_variant	973	571	191	C/G	Tgt/Ggt	COSM1303198,COSM1303199	.	.	-1	DDX5	HGNC	2746	protein_coding	YES	CCDS11659.1	ENSP00000225792	DDX5_HUMAN	J3QS97_HUMAN,J3QRQ7_HUMAN,J3QRN5_HUMAN,J3QR62_HUMAN,J3QLG9_HUMAN,J3QKN9_HUMAN,J3KTQ4_HUMAN,J3KRZ1_HUMAN,J3KRX8_HUMAN	UPI000003B456	.	tolerated(1)	benign(0.001)	6/13	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031:SF182,hmmpanther:PTHR24031,Gene3D:3.40.50.300,Pfam_domain:PF00270,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTACAATATT	.	5	BLCA
PSMD12	0	.	GRCh37	17	65337149	65337149	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1181C>T	p.Ser394Leu	p.S394L	ENST00000356126	11/11	29	21	8	43	43	0	PSMD12,missense_variant,p.Ser374Leu,ENST00000357146,;PSMD12,missense_variant,p.Ser394Leu,ENST00000356126,;PSMD12,3_prime_UTR_variant,,ENST00000584008,;PSMD12,non_coding_transcript_exon_variant,,ENST00000577724,;PSMD12,downstream_gene_variant,,ENST00000584289,;	A	ENSG00000197170	ENST00000356126	Transcript	missense_variant	1289	1181	394	S/L	tCa/tTa	COSM1303233	.	.	-1	PSMD12	HGNC	9557	protein_coding	YES	CCDS11669.1	ENSP00000348442	PSD12_HUMAN	.	UPI0000132792	.	deleterious(0)	probably_damaging(0.964)	11/11	.	hmmpanther:PTHR10855:SF1,hmmpanther:PTHR10855,Pfam_domain:PF01399,Gene3D:1.10.10.10,SMART_domains:SM00088,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTGAGAGA	.	5	BLCA
KCTD2	0	.	GRCh37	17	73043506	73043506	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.161C>T	p.Pro54Leu	p.P54L	ENST00000322444	1/6	14	6	8	12	12	0	KCTD2,missense_variant,p.Pro54Leu,ENST00000322444,;KCTD2,intron_variant,,ENST00000581589,;ATP5H,upstream_gene_variant,,ENST00000344546,;ATP5H,upstream_gene_variant,,ENST00000301587,;KCTD2,intron_variant,,ENST00000579242,;KCTD2,intron_variant,,ENST00000582840,;KCTD2,intron_variant,,ENST00000584767,;KCTD2,upstream_gene_variant,,ENST00000577516,;KCTD2,splice_region_variant,,ENST00000375286,;ATP5H,upstream_gene_variant,,ENST00000538432,;ATP5H,upstream_gene_variant,,ENST00000582341,;	T	ENSG00000180901	ENST00000322444	Transcript	missense_variant	167	161	54	P/L	cCg/cTg	COSM1303323	.	.	1	KCTD2	HGNC	21294	protein_coding	YES	CCDS32728.1	ENSP00000312814	KCTD2_HUMAN	J3QSC8_HUMAN	UPI00001C1FDC	.	deleterious_low_confidence(0.02)	probably_damaging(0.913)	1/6	.	hmmpanther:PTHR14958,hmmpanther:PTHR14958:SF22	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGCCGCTGG	.	5	BLCA
LLGL2	0	.	GRCh37	17	73569202	73569202	+	Silent	SNP	C	C	T	rs758645564	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2568C>T	p.%3D	p.A856A	ENST00000392550	20/26	167	96	70	92	92	0	LLGL2,synonymous_variant,p.%3D,ENST00000577200,;LLGL2,synonymous_variant,p.%3D,ENST00000167462,;LLGL2,synonymous_variant,p.%3D,ENST00000392550,;LLGL2,3_prime_UTR_variant,,ENST00000578638,;LLGL2,non_coding_transcript_exon_variant,,ENST00000545227,;LLGL2,non_coding_transcript_exon_variant,,ENST00000577500,;LLGL2,non_coding_transcript_exon_variant,,ENST00000579092,;LLGL2,upstream_gene_variant,,ENST00000578034,;LLGL2,upstream_gene_variant,,ENST00000583514,;LLGL2,downstream_gene_variant,,ENST00000578719,;LLGL2,upstream_gene_variant,,ENST00000582393,;LLGL2,upstream_gene_variant,,ENST00000577211,;	T	ENSG00000073350	ENST00000392550	Transcript	synonymous_variant	2685	2568	856	A	gcC/gcT	rs758645564,COSM1303348,COSM1303349	.	.	1	LLGL2	HGNC	6629	protein_coding	YES	CCDS32733.1	ENSP00000376333	L2GL2_HUMAN	J3QSA6_HUMAN,J3QRZ8_HUMAN,J3QLV4_HUMAN,J3QL58_HUMAN,J3KRE1_HUMAN	UPI00005905A8	.	.	.	20/26	.	hmmpanther:PTHR10241:SF20,hmmpanther:PTHR10241	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAGCCGAGGA	.	5	BLCA
QRICH2	0	.	GRCh37	17	74283886	74283886	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3393C>T	p.%3D	p.V1131V	ENST00000262765	6/19	65	52	13	83	83	0	QRICH2,synonymous_variant,p.%3D,ENST00000447564,;QRICH2,synonymous_variant,p.%3D,ENST00000262765,;QRICH2,3_prime_UTR_variant,,ENST00000524722,;	A	ENSG00000129646	ENST00000262765	Transcript	synonymous_variant	3573	3393	1131	V	gtC/gtT	COSM1303375	.	.	-1	QRICH2	HGNC	25326	protein_coding	YES	CCDS32741.1	ENSP00000262765	QRIC2_HUMAN	.	UPI000006FECD	.	.	.	6/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23343,hmmpanther:PTHR23343:SF78	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGGACACC	.	5	BLCA
MFSD11	0	.	GRCh37	17	74737129	74737129	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243C>G	p.%3D	p.A81A	ENST00000588460	3/13	76	48	27	131	131	0	MFSD11,synonymous_variant,p.%3D,ENST00000336509,;MFSD11,synonymous_variant,p.%3D,ENST00000593181,;MFSD11,synonymous_variant,p.%3D,ENST00000586622,;MFSD11,synonymous_variant,p.%3D,ENST00000587661,;MFSD11,synonymous_variant,p.%3D,ENST00000588460,;MFSD11,synonymous_variant,p.%3D,ENST00000355954,;MFSD11,synonymous_variant,p.%3D,ENST00000590514,;SRSF2,upstream_gene_variant,,ENST00000392485,;SRSF2,upstream_gene_variant,,ENST00000358156,;SRSF2,upstream_gene_variant,,ENST00000583836,;MFSD11,downstream_gene_variant,,ENST00000591864,;SRSF2,upstream_gene_variant,,ENST00000508921,;RP11-318A15.7,downstream_gene_variant,,ENST00000587459,;MFSD11,downstream_gene_variant,,ENST00000586689,;MFSD11,downstream_gene_variant,,ENST00000590393,;SRSF2,upstream_gene_variant,,ENST00000359995,;MIR636,upstream_gene_variant,,ENST00000384825,;MFSD11,synonymous_variant,p.%3D,ENST00000588031,;MFSD11,synonymous_variant,p.%3D,ENST00000588768,;MFSD11,synonymous_variant,p.%3D,ENST00000588670,;SRSF2,upstream_gene_variant,,ENST00000582449,;MFSD11,upstream_gene_variant,,ENST00000585584,;SRSF2,upstream_gene_variant,,ENST00000592676,;SRSF2,upstream_gene_variant,,ENST00000452355,;SRSF2,upstream_gene_variant,,ENST00000585202,;	G	ENSG00000092931	ENST00000588460	Transcript	synonymous_variant	2285	243	81	A	gcC/gcG	COSM1303387	.	.	1	MFSD11	HGNC	25458	protein_coding	YES	CCDS11750.1	ENSP00000464932	MFS11_HUMAN	K7ESK9_HUMAN,K7ELU3_HUMAN	UPI0000073F31	.	.	.	3/13	.	hmmpanther:PTHR23294,hmmpanther:PTHR23294:SF7,Gene3D:1.20.1250.20,Pfam_domain:PF05978,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGCCAGTGG	.	5	BLCA
TP53	0	.	GRCh37	17	7578208	7578208	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.641A>G	p.His214Arg	p.H214R	ENST00000269305	6/11	61	15	46	58	58	0	TP53,missense_variant,p.His214Arg,ENST00000413465,;TP53,missense_variant,p.His214Arg,ENST00000420246,;TP53,missense_variant,p.His214Arg,ENST00000269305,;TP53,missense_variant,p.His82Arg,ENST00000509690,;TP53,missense_variant,p.His214Arg,ENST00000359597,;TP53,missense_variant,p.His121Arg,ENST00000514944,;TP53,missense_variant,p.His214Arg,ENST00000445888,;TP53,missense_variant,p.His214Arg,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,intron_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;	C	ENSG00000141510	ENST00000269305	Transcript	missense_variant	831	641	214	H/R	cAt/cGt	CM103210,TP53_g.12710A>G,TP53_g.12710A>C,TP53_g.12710del,COSM43687,COSM1640842,COSM128666,COSM307280,COSM128667,COSM1640841,COSM307279,COSM1640844,COSM128668,COSM307281,COSM128670,COSM1640846,COSM3388198,COSM1640843,COSM1640840,COSM307282,COSM128669,COSM1640845	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0.02)	probably_damaging(0.922)	6/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.H214R|c.641A>G|66,SITE|p.H214R|c.641A>G|16,SITE|p.H214R|c.641A>G|5,SITE|p.H82R|c.245A>G|18,SITE|p.H121R|c.362A>G|16,SITE|p.H214R|c.641A>G|16,SITE|p.H214R|c.641A>G|6,CODON|p.0?|c.1_1182del1182|6,CODON|p.H214Q|c.642T>G|3,BUFFER|p.V218delV|c.652_654delGTG|3,BUFFER|p.V218M|c.652G>A|7,BUFFER|p.V217A|c.650T>C|5,BUFFER|p.V217G|c.650T>G|4,BUFFER|p.V217E|c.650T>A|3,BUFFER|p.V218delV|c.646_648delGTG|8,BUFFER|p.V216G|c.647T>G|5,BUFFER|p.V216A|c.647T>C|3,BUFFER|p.V216E|c.647T>A|4,BUFFER|p.V216M|c.646G>A|20,BUFFER|p.V216M|c.646G>A|12,BUFFER|p.V123M|c.367G>A|20,BUFFER|p.V216L|c.646G>T|8,BUFFER|p.V216M|c.646G>A|20,BUFFER|p.V216M|c.646G>A|7,BUFFER|p.V216M|c.646G>A|70,BUFFER|p.V84M|c.250G>A|20,BUFFER|p.S215R|c.645T>G|3,BUFFER|p.S215R|c.645T>A|4,BUFFER|p.S122R|c.366T>A|4,BUFFER|p.S215R|c.645T>G|13,BUFFER|p.S215R|c.645T>A|4,BUFFER|p.S83R|c.249T>A|4,BUFFER|p.S122R|c.366T>G|3,BUFFER|p.S215R|c.645T>G|3,BUFFER|p.S83R|c.249T>G|3,BUFFER|p.S215R|c.645T>A|8,BUFFER|p.S215I|c.644G>T|4,BUFFER|p.S215I|c.644G>T|4,BUFFER|p.S215I|c.644G>T|19,BUFFER|p.S215T|c.644G>C|3,BUFFER|p.S83I|c.248G>T|4,BUFFER|p.S122I|c.365G>T|4,BUFFER|p.S215N|c.644G>A|8,BUFFER|p.S215C|c.643A>T|4,BUFFER|p.S215G|c.643A>G|3,BUFFER|p.S83G|c.247A>G|3,BUFFER|p.S215G|c.643A>G|10,BUFFER|p.S215G|c.643A>G|3,BUFFER|p.S122G|c.364A>G|3,BUFFER|p.H214Y|c.640C>T|5,BUFFER|p.H214D|c.640C>G|4,BUFFER|p.R213R|c.639A>G|6,BUFFER|p.R81Q|c.242G>A|9,BUFFER|p.R213L|c.638G>T|12,BUFFER|p.R213L|c.638G>T|4,BUFFER|p.R213L|c.638G>T|39,BUFFER|p.R213Q|c.638G>A|9,BUFFER|p.R213Q|c.638G>A|31,BUFFER|p.R120L|c.359G>T|12,BUFFER|p.R213P|c.638G>C|6,BUFFER|p.R120Q|c.359G>A|9,BUFFER|p.R81L|c.242G>T|12,BUFFER|p.R213L|c.638G>T|6,BUFFER|p.R213L|c.638G>T|12,BUFFER|p.R213Q|c.638G>A|4,BUFFER|p.R213Q|c.638G>A|9,BUFFER|p.R213Q|c.638G>A|3,BUFFER|p.R213fs*34|c.637delC|3,BUFFER|p.F212fs*3|c.635_636delTT|5,BUFFER|p.R213*|c.637C>T|45,BUFFER|p.R120*|c.358C>T|84,BUFFER|p.R213*|c.637C>T|84,BUFFER|p.R213*|c.637C>T|84,BUFFER|p.R81*|c.241C>T|87,BUFFER|p.R213*|c.637C>T|267,BUFFER|p.R213*|c.637C>T|33,BUFFER|p.F212fs*3|c.634_635delTT|6,BUFFER|p.R213fs*34|c.634delT|5,BUFFER|p.T211T|c.633T>C|9,BUFFER|p.T211I|c.632C>T|3,BUFFER|p.T211I|c.632C>T|11,BUFFER|p.T211N|c.632C>A|4,BUFFER|p.T118I|c.353C>T|3,BUFFER|p.T79I|c.236C>T|3,BUFFER|p.T211I|c.632C>T|3,BUFFER|p.T211fs*36|c.631delA|4,BUFFER|p.T211A|c.631A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTATGTCGA	.	5	BLCA
RBBP8	0	.	GRCh37	18	20581688	20581688	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2283A>G	p.%3D	p.L761L	ENST00000399722	15/19	25	17	8	35	35	0	RBBP8,synonymous_variant,p.%3D,ENST00000399722,;RBBP8,synonymous_variant,p.%3D,ENST00000583057,;RBBP8,synonymous_variant,p.%3D,ENST00000360790,;RBBP8,synonymous_variant,p.%3D,ENST00000399725,;RBBP8,synonymous_variant,p.%3D,ENST00000327155,;RN7SL745P,upstream_gene_variant,,ENST00000484900,;	G	ENSG00000101773	ENST00000399722	Transcript	synonymous_variant	2634	2283	761	L	ctA/ctG	COSM1303611,COSM1303612	.	.	1	RBBP8	HGNC	9891	protein_coding	YES	CCDS11875.1	ENSP00000382628	COM1_HUMAN	J3QRM0_HUMAN,J3QLW6_HUMAN,J3QLH2_HUMAN,J3QL93_HUMAN,J3KSA4_HUMAN,F6Q6H0_HUMAN	UPI000013D1A9	.	.	.	15/19	.	hmmpanther:PTHR15107,hmmpanther:PTHR15107:SF2	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACTACACAG	.	2	BLCA
LAMA3	0	.	GRCh37	18	21485588	21485588	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6718G>T	p.Glu2240Ter	p.E2240*	ENST00000313654	52/75	23	19	3	30	30	0	LAMA3,stop_gained,p.Glu500Ter,ENST00000586751,;LAMA3,stop_gained,p.Glu575Ter,ENST00000587184,;LAMA3,stop_gained,p.Glu2240Ter,ENST00000313654,;LAMA3,stop_gained,p.Glu631Ter,ENST00000269217,;LAMA3,stop_gained,p.Glu2184Ter,ENST00000399516,;LAMA3,splice_region_variant,,ENST00000588770,;	T	ENSG00000053747	ENST00000313654	Transcript	stop_gained	6959	6718	2240	E/*	Gaa/Taa	COSM1303626,COSM1303625	.	.	1	LAMA3	HGNC	6483	protein_coding	YES	CCDS42419.1	ENSP00000324532	LAMA3_HUMAN	B0YJ32_HUMAN	UPI00001C1222	.	.	.	52/75	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF259	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCAAGGTATT	.	4	BLCA
CDH2	0	.	GRCh37	18	25532201	25532201	+	Silent	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2637T>G	p.%3D	p.G879G	ENST00000269141	16/16	90	74	16	112	112	0	CDH2,synonymous_variant,p.%3D,ENST00000399380,;CDH2,synonymous_variant,p.%3D,ENST00000269141,;AC015933.2,upstream_gene_variant,,ENST00000423367,;	C	ENSG00000170558	ENST00000269141	Transcript	synonymous_variant	3061	2637	879	G	ggT/ggG	COSM1303646	.	.	-1	CDH2	HGNC	1759	protein_coding	YES	CCDS11891.1	ENSP00000269141	CADH2_HUMAN	C9JMH2_HUMAN,C9J126_HUMAN	UPI000013D7FD	.	.	.	16/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24027:SF79,hmmpanther:PTHR24027,Gene3D:4.10.900.10,Pfam_domain:PF01049	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACCACCACT	.	5	BLCA
MAPRE2	0	.	GRCh37	18	32621508	32621508	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5C>T	p.Pro2Leu	p.P2L	ENST00000300249	1/7	185	97	88	156	155	0	MAPRE2,missense_variant,p.Pro2Leu,ENST00000588910,;MAPRE2,missense_variant,p.Pro2Leu,ENST00000300249,;MAPRE2,5_prime_UTR_variant,,ENST00000538170,;MAPRE2,intron_variant,,ENST00000436190,;MAPRE2,intron_variant,,ENST00000587359,;MAPRE2,intron_variant,,ENST00000413393,;MAPRE2,intron_variant,,ENST00000591734,;MAPRE2,intron_variant,,ENST00000589180,;MAPRE2,intron_variant,,ENST00000588349,;MAPRE2,upstream_gene_variant,,ENST00000589699,;MAPRE2,non_coding_transcript_exon_variant,,ENST00000585592,;	T	ENSG00000166974	ENST00000300249	Transcript	missense_variant	185	5	2	P/L	cCt/cTt	COSM1303717	.	.	1	MAPRE2	HGNC	6891	protein_coding	YES	CCDS11910.1	ENSP00000300249	MARE2_HUMAN	M0QX52_HUMAN,K7ERD8_HUMAN,K7ENB3_HUMAN,G5E9I6_HUMAN	UPI0000072407	.	deleterious_low_confidence(0)	possibly_damaging(0.908)	1/7	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGCCTGGGC	.	5	BLCA
PIK3C3	0	.	GRCh37	18	39637870	39637870	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2287G>A	p.Gly763Arg	p.G763R	ENST00000262039	22/25	28	17	10	43	43	0	PIK3C3,missense_variant,p.Gly248Arg,ENST00000593098,;PIK3C3,missense_variant,p.Gly763Arg,ENST00000262039,;PIK3C3,missense_variant,p.Gly700Arg,ENST00000398870,;PIK3C3,5_prime_UTR_variant,,ENST00000588156,;PIK3C3,5_prime_UTR_variant,,ENST00000587261,;PIK3C3,intron_variant,,ENST00000588631,;	A	ENSG00000078142	ENST00000262039	Transcript	missense_variant	2373	2287	763	G/R	Gga/Aga	COSM1303734	.	.	1	PIK3C3	HGNC	8974	protein_coding	YES	CCDS11920.1	ENSP00000262039	PK3C3_HUMAN	M0R2C5_HUMAN,M0R0W7_HUMAN,M0R0U1_HUMAN,M0R0G8_HUMAN,M0QZG0_HUMAN	UPI00000708CE	.	deleterious(0)	probably_damaging(1)	22/25	.	Superfamily_domains:SSF56112,PIRSF_domain:PIRSF000587,SMART_domains:SM00146,Gene3D:1.10.1070.11,Pfam_domain:PF00454,hmmpanther:PTHR10048,PROSITE_profiles:PS50290	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGGATAT	.	5	BLCA
MAPK4	0	.	GRCh37	18	48255680	48255680	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1220G>A	p.Arg407His	p.R407H	ENST00000400384	6/6	26	10	16	14	14	0	MAPK4,missense_variant,p.Arg196His,ENST00000540640,;MAPK4,missense_variant,p.Arg407His,ENST00000400384,;MAPK4,3_prime_UTR_variant,,ENST00000592595,;	A	ENSG00000141639	ENST00000400384	Transcript	missense_variant	2256	1220	407	R/H	cGc/cAc	COSM1303771	.	.	1	MAPK4	HGNC	6878	protein_coding	YES	CCDS42437.1	ENSP00000383234	MK04_HUMAN	Q0VG04_HUMAN,B4E104_HUMAN,B4DEW2_HUMAN	UPI0000201D20	.	deleterious_low_confidence(0)	possibly_damaging(0.72)	6/6	.	hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF25	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAGCGCTTCC	.	5	BLCA
S1PR5	0	.	GRCh37	19	10625203	10625203	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.485C>T	p.Ser162Leu	p.S162L	ENST00000439028	2/2	23	12	10	22	22	0	S1PR5,missense_variant,p.Ser162Leu,ENST00000333430,;S1PR5,missense_variant,p.Ser162Leu,ENST00000439028,;S1PR5,downstream_gene_variant,,ENST00000590601,;	A	ENSG00000180739	ENST00000439028	Transcript	missense_variant	611	485	162	S/L	tCg/tTg	COSM1303941	.	.	-1	S1PR5	HGNC	14299	protein_coding	YES	CCDS12240.1	ENSP00000416915	S1PR5_HUMAN	.	UPI000003BC79	.	deleterious(0)	benign(0.007)	2/2	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR22750:SF20,hmmpanther:PTHR22750,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGCGACACG	.	5	BLCA
ZNF136	0	.	GRCh37	19	12298627	12298627	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1434T>C	p.%3D	p.C478C	ENST00000343979	4/4	21	10	11	23	23	0	ZNF136,synonymous_variant,p.%3D,ENST00000398616,;ZNF136,synonymous_variant,p.%3D,ENST00000343979,;ZNF136,downstream_gene_variant,,ENST00000439995,;ZNF136,downstream_gene_variant,,ENST00000425827,;ZNF136,downstream_gene_variant,,ENST00000418338,;ZNF136,non_coding_transcript_exon_variant,,ENST00000464860,;ZNF136,downstream_gene_variant,,ENST00000476676,;	C	ENSG00000196646	ENST00000343979	Transcript	synonymous_variant	1574	1434	478	C	tgT/tgC	COSM1304018	.	.	1	ZNF136	HGNC	12920	protein_coding	YES	CCDS32916.1	ENSP00000344162	ZN136_HUMAN	F8WES0_HUMAN,C9JR58_HUMAN,C9JJK8_HUMAN,C9J2Q9_HUMAN	UPI0000000C7B	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF191,hmmpanther:PTHR24402,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATGTAAGCG	.	5	BLCA
JUNB	0	.	GRCh37	19	12903008	12903008	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423A>C	p.Lys141Asn	p.K141N	ENST00000302754	1/1	20	14	6	16	16	0	JUNB,missense_variant,p.Lys141Asn,ENST00000302754,;PRDX2,downstream_gene_variant,,ENST00000301522,;PRDX2,downstream_gene_variant,,ENST00000334482,;CTD-2659N19.10,upstream_gene_variant,,ENST00000585496,;HOOK2,intron_variant,,ENST00000589765,;HOOK2,intron_variant,,ENST00000593143,;PRDX2,downstream_gene_variant,,ENST00000466174,;	C	ENSG00000171223	ENST00000302754	Transcript	missense_variant	699	423	141	K/N	aaA/aaC	COSM1304041	.	.	1	JUNB	HGNC	6205	protein_coding	YES	CCDS12280.1	ENSP00000303315	JUNB_HUMAN	Q5U079_HUMAN	UPI000012DACF	.	deleterious(0)	probably_damaging(0.996)	1/1	.	hmmpanther:PTHR11462,hmmpanther:PTHR11462:SF37,Pfam_domain:PF03957	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCAAAGCCCT	.	5	BLCA
JUNB	0	.	GRCh37	19	12903565	12903565	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.980A>G	p.Lys327Arg	p.K327R	ENST00000302754	1/1	54	29	25	45	45	0	JUNB,missense_variant,p.Lys327Arg,ENST00000302754,;PRDX2,downstream_gene_variant,,ENST00000301522,;PRDX2,downstream_gene_variant,,ENST00000334482,;CTD-2659N19.10,upstream_gene_variant,,ENST00000585496,;HOOK2,intron_variant,,ENST00000589765,;PRDX2,downstream_gene_variant,,ENST00000466174,;HOOK2,upstream_gene_variant,,ENST00000593143,;	G	ENSG00000171223	ENST00000302754	Transcript	missense_variant	1256	980	327	K/R	aAg/aGg	COSM1304043	.	.	1	JUNB	HGNC	6205	protein_coding	YES	CCDS12280.1	ENSP00000303315	JUNB_HUMAN	Q5U079_HUMAN	UPI000012DACF	.	tolerated(0.07)	possibly_damaging(0.512)	1/1	.	PROSITE_profiles:PS50217,hmmpanther:PTHR11462,hmmpanther:PTHR11462:SF37,Pfam_domain:PF00170,Gene3D:1.20.5.170,SMART_domains:SM00338,Superfamily_domains:SSF57959,Prints_domain:PR00043	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGAAGGTCA	.	5	BLCA
APC2	0	.	GRCh37	19	1462114	1462114	+	Silent	SNP	C	C	T	rs142142534	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1791C>T	p.%3D	p.I597I	ENST00000535453	13/14	208	162	45	95	95	0	APC2,synonymous_variant,p.%3D,ENST00000233607,;APC2,synonymous_variant,p.%3D,ENST00000238483,;APC2,synonymous_variant,p.%3D,ENST00000590469,;APC2,synonymous_variant,p.%3D,ENST00000535453,;C19orf25,intron_variant,,ENST00000588427,;CTB-25B13.12,intron_variant,,ENST00000588225,;APC2,non_coding_transcript_exon_variant,,ENST00000593146,;CTB-25B13.12,upstream_gene_variant,,ENST00000591252,;	T	ENSG00000115266	ENST00000535453	Transcript	synonymous_variant	3504	1791	597	I	atC/atT	rs142142534,COSM1304094	.	.	1	APC2	HGNC	24036	protein_coding	YES	CCDS12068.1	ENSP00000442954	APC2_HUMAN	K7ELQ3_HUMAN,K7EN62_HUMAN	UPI0000073D85	.	.	.	13/14	.	Superfamily_domains:SSF48371,SMART_domains:SM00185,Gene3D:1.25.10.10,hmmpanther:PTHR12607:SF3,hmmpanther:PTHR12607	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCGAGAG	byCluster	5	BLCA
NOTCH3	0	.	GRCh37	19	15290217	15290223	+	Frame_Shift_Del	DEL	GGTCAAT	GGTCAAT	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	GGTCAAT	GGTCAAT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3412_3418delATTGACC	p.Ile1138SerfsTer132	p.I1138Sfs*132	ENST00000263388	21/33	186	93	93	114	114	0	NOTCH3,frameshift_variant,p.Ile1138SerfsTer132,ENST00000263388,;NOTCH3,frameshift_variant,p.Ile1085SerfsTer132,ENST00000601011,;NOTCH3,non_coding_transcript_exon_variant,,ENST00000595045,;NOTCH3,upstream_gene_variant,,ENST00000600841,;	-	ENSG00000074181	ENST00000263388	Transcript	frameshift_variant	3488-3494	3412-3418	1138-1140	IDL/X	ATTGACCtc/tc	.	.	.	-1	NOTCH3	HGNC	7883	protein_coding	YES	CCDS12326.1	ENSP00000263388	NOTC3_HUMAN	.	UPI000013D3FA	.	.	.	21/33	.	Superfamily_domains:SSF57184,SMART_domains:SM00181,PIRSF_domain:PIRSF002279,SMART_domains:SM00179,Gene3D:2gy5A03,Pfam_domain:PF00008,PROSITE_patterns:PS00010,PROSITE_patterns:PS01187,hmmpanther:PTHR24033,hmmpanther:PTHR24033:SF47,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCACGAGGTCAATGCATG	.	3	BLCA
CPAMD8	0	.	GRCh37	19	17012070	17012070	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4864G>C	p.Glu1622Gln	p.E1622Q	ENST00000443236	36/42	55	30	25	38	38	0	CPAMD8,missense_variant,p.Glu1622Gln,ENST00000443236,;CPAMD8,missense_variant,p.Glu98Gln,ENST00000594249,;CPAMD8,upstream_gene_variant,,ENST00000599287,;CPAMD8,upstream_gene_variant,,ENST00000598547,;CPAMD8,upstream_gene_variant,,ENST00000602132,;CPAMD8,upstream_gene_variant,,ENST00000597335,;CPAMD8,upstream_gene_variant,,ENST00000595323,;CPAMD8,upstream_gene_variant,,ENST00000600235,;CPAMD8,upstream_gene_variant,,ENST00000593739,;CPAMD8,upstream_gene_variant,,ENST00000596224,;CPAMD8,upstream_gene_variant,,ENST00000596572,;CPAMD8,upstream_gene_variant,,ENST00000597709,;CPAMD8,upstream_gene_variant,,ENST00000601782,;CPAMD8,upstream_gene_variant,,ENST00000598104,;	G	ENSG00000160111	ENST00000443236	Transcript	missense_variant	4896	4864	1622	E/Q	Gag/Cag	COSM1304142	.	.	-1	CPAMD8	HGNC	23228	protein_coding	YES	CCDS42519.1	ENSP00000402505	CPMD8_HUMAN	.	UPI0000E8AC99	.	deleterious(0)	benign(0.248)	36/42	.	hmmpanther:PTHR11412:SF76,hmmpanther:PTHR11412,Gene3D:1ayoA00,Pfam_domain:PF07677,Superfamily_domains:SSF49410	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCCAGGA	.	5	BLCA
ATP8B3	0	.	GRCh37	19	1785276	1785276	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3414C>G	p.Tyr1138Ter	p.Y1138*	ENST00000310127	27/29	37	32	5	18	18	0	ATP8B3,stop_gained,p.Tyr1138Ter,ENST00000310127,;ATP8B3,stop_gained,p.Tyr1148Ter,ENST00000539485,;ATP8B3,stop_gained,p.Tyr1101Ter,ENST00000525591,;ONECUT3,downstream_gene_variant,,ENST00000382349,;ATP8B3,3_prime_UTR_variant,,ENST00000531925,;ATP8B3,downstream_gene_variant,,ENST00000526847,;	C	ENSG00000130270	ENST00000310127	Transcript	stop_gained	3653	3414	1138	Y/*	taC/taG	COSM1304172	.	.	-1	ATP8B3	HGNC	13535	protein_coding	YES	CCDS45901.1	ENSP00000311336	AT8B3_HUMAN	.	UPI0000074660	.	.	.	27/29	.	hmmpanther:PTHR24092:SF44,hmmpanther:PTHR24092,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCAGTACTT	.	5	BLCA
ELL	0	.	GRCh37	19	18555550	18555550	+	3'UTR	SNP	C	C	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12G>T	.	.	ENST00000262809	12/12	208	163	45	124	124	0	ELL,3_prime_UTR_variant,,ENST00000262809,;ELL,downstream_gene_variant,,ENST00000596124,;CTD-3137H5.1,downstream_gene_variant,,ENST00000594590,;ELL,3_prime_UTR_variant,,ENST00000594635,;ELL,non_coding_transcript_exon_variant,,ENST00000610152,;ELL,downstream_gene_variant,,ENST00000608165,;AC010335.1,upstream_gene_variant,,ENST00000541164,;	A	ENSG00000105656	ENST00000262809	Transcript	3_prime_UTR_variant	1950	.	.	.	.	.	.	.	-1	ELL	HGNC	23114	protein_coding	YES	CCDS12380.1	ENSP00000262809	ELL_HUMAN	Q75MS0_HUMAN	UPI0000062324	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATCGGGGA	.	4	BLCA
ZNF737	0	.	GRCh37	19	20728292	20728292	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.717C>G	p.Ser239Arg	p.S239R	ENST00000427401	4/4	12	7	5	17	17	0	ZNF737,missense_variant,p.Ser175Arg,ENST00000594419,;ZNF737,missense_variant,p.Ser239Arg,ENST00000427401,;ZNF737,upstream_gene_variant,,ENST00000596530,;ZNF737,downstream_gene_variant,,ENST00000597940,;	C	ENSG00000237440	ENST00000427401	Transcript	missense_variant	812	717	239	S/R	agC/agG	COSM1304255	.	.	-1	ZNF737	HGNC	32468	protein_coding	YES	CCDS54238.1	ENSP00000395733	ZN737_HUMAN	M0R1D1_HUMAN	UPI0000198506	.	tolerated(0.09)	benign(0.352)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384:SF93,hmmpanther:PTHR24384,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACCGGCTAAA	.	3	BLCA
TSHZ3	0	.	GRCh37	19	31769651	31769651	+	Missense_Mutation	SNP	C	C	T	rs760787125	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Asp350Asn	p.D350N	ENST00000240587	2/2	180	139	41	201	201	0	TSHZ3,missense_variant,p.Asp350Asn,ENST00000240587,;TSHZ3,downstream_gene_variant,,ENST00000560707,;	T	ENSG00000121297	ENST00000240587	Transcript	missense_variant	1376	1048	350	D/N	Gat/Aat	rs760787125,COSM1304386,COSM1304385	.	.	-1	TSHZ3	HGNC	30700	protein_coding	YES	CCDS12421.2	ENSP00000240587	TSH3_HUMAN	A1L0U7_HUMAN	UPI0000202000	.	tolerated(0.18)	benign(0.298)	2/2	.	hmmpanther:PTHR12487,hmmpanther:PTHR12487:SF5	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATCGTTGG	byFrequency	5	BLCA
FZR1	0	.	GRCh37	19	3534500	3534500	+	Missense_Mutation	SNP	C	C	T	rs376637192	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1429C>T	p.Arg477Cys	p.R477C	ENST00000395095	12/13	18	14	4	16	16	0	FZR1,missense_variant,p.Arg388Cys,ENST00000313639,;FZR1,missense_variant,p.Arg477Cys,ENST00000395095,;FZR1,missense_variant,p.Arg477Cys,ENST00000441788,;C19orf71,upstream_gene_variant,,ENST00000329493,;MFSD12,downstream_gene_variant,,ENST00000389395,;MFSD12,downstream_gene_variant,,ENST00000398558,;FZR1,3_prime_UTR_variant,,ENST00000591290,;FZR1,non_coding_transcript_exon_variant,,ENST00000588084,;MFSD12,downstream_gene_variant,,ENST00000585788,;FZR1,downstream_gene_variant,,ENST00000586212,;MFSD12,downstream_gene_variant,,ENST00000589157,;FZR1,downstream_gene_variant,,ENST00000592214,;	T	ENSG00000105325	ENST00000395095	Transcript	missense_variant	1429	1429	477	R/C	Cgt/Tgt	rs376637192,COSM1304426	.	.	1	FZR1	HGNC	24824	protein_coding	YES	CCDS45916.1	ENSP00000378529	FZR_HUMAN	.	UPI00001D6A23	.	deleterious(0.04)	probably_damaging(0.915)	12/13	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR19918:SF6,hmmpanther:PTHR19918,Gene3D:2.130.10.10	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACCCGTTCG	byFrequency|byCluster	2	BLCA
ZFP82	0	.	GRCh37	19	36883875	36883875	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1367G>A	p.Gly456Asp	p.G456D	ENST00000392161	5/5	23	9	13	39	38	0	ZFP82,missense_variant,p.Gly456Asp,ENST00000392171,;ZFP82,missense_variant,p.Gly456Asp,ENST00000392161,;ZFP82,intron_variant,,ENST00000445543,;ZFP82,non_coding_transcript_exon_variant,,ENST00000590993,;	T	ENSG00000181007	ENST00000392161	Transcript	missense_variant	1610	1367	456	G/D	gGc/gAc	COSM1304470	.	.	-1	ZFP82	HGNC	28682	protein_coding	YES	CCDS12493.1	ENSP00000431265	ZFP82_HUMAN	D3Y299_HUMAN	UPI0000071159	.	deleterious(0.01)	possibly_damaging(0.617)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF252,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTGCCACAT	.	5	BLCA
ZBTB7A	0	.	GRCh37	19	4047820	4047820	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1685G>A	p.Gly562Asp	p.G562D	ENST00000322357	3/3	105	86	18	63	63	0	ZBTB7A,missense_variant,p.Gly562Asp,ENST00000322357,;ZBTB7A,missense_variant,p.Gly562Asp,ENST00000601588,;AC016586.1,upstream_gene_variant,,ENST00000535853,;	T	ENSG00000178951	ENST00000322357	Transcript	missense_variant	1964	1685	562	G/D	gGt/gAt	COSM1304572	.	.	-1	ZBTB7A	HGNC	18078	protein_coding	YES	CCDS12119.1	ENSP00000323670	ZBT7A_HUMAN	.	UPI000006E9D9	.	deleterious_low_confidence(0.03)	probably_damaging(0.931)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23229,hmmpanther:PTHR23229:SF69	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCACCGGCG	.	4	BLCA
CYP2F1	0	.	GRCh37	19	41634024	41634024	+	3'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*37G>A	.	.	ENST00000331105	10/10	80	59	21	29	29	0	CYP2F1,3_prime_UTR_variant,,ENST00000439903,;CYP2F1,3_prime_UTR_variant,,ENST00000331105,;CYP2F1,3_prime_UTR_variant,,ENST00000532164,;CYP2F1,downstream_gene_variant,,ENST00000534009,;CYP2F1,downstream_gene_variant,,ENST00000531409,;CYP2F1,downstream_gene_variant,,ENST00000526093,;	A	ENSG00000197446	ENST00000331105	Transcript	3_prime_UTR_variant	1585	.	.	.	.	.	.	.	1	CYP2F1	HGNC	2632	protein_coding	YES	CCDS12572.1	ENSP00000333534	CP2F1_HUMAN	.	UPI000013C622	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGAGGCCCG	.	5	BLCA
AXL	0	.	GRCh37	19	41765721	41765721	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2597A>G	p.Tyr866Cys	p.Y866C	ENST00000301178	20/20	138	71	67	97	97	0	AXL,missense_variant,p.Tyr598Cys,ENST00000593513,;AXL,missense_variant,p.Tyr857Cys,ENST00000359092,;AXL,missense_variant,p.Tyr866Cys,ENST00000301178,;HNRNPUL1,upstream_gene_variant,,ENST00000392006,;HNRNPUL1,upstream_gene_variant,,ENST00000378215,;HNRNPUL1,upstream_gene_variant,,ENST00000597725,;HNRNPUL1,upstream_gene_variant,,ENST00000595018,;HNRNPUL1,upstream_gene_variant,,ENST00000602130,;HNRNPUL1,upstream_gene_variant,,ENST00000352456,;HNRNPUL1,upstream_gene_variant,,ENST00000599719,;HNRNPUL1,upstream_gene_variant,,ENST00000601309,;HNRNPUL1,upstream_gene_variant,,ENST00000595196,;	G	ENSG00000167601	ENST00000301178	Transcript	missense_variant	2787	2597	866	Y/C	tAt/tGt	COSM1304635	.	.	1	AXL	HGNC	905	protein_coding	YES	CCDS12575.1	ENSP00000301178	UFO_HUMAN	Q15839_HUMAN,M0R0W6_HUMAN	UPI000013E6DB	.	deleterious(0)	probably_damaging(0.999)	20/20	.	hmmpanther:PTHR24416:SF3,hmmpanther:PTHR24416	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCTATGTCC	.	5	BLCA
HNRNPUL1	0	.	GRCh37	19	41808694	41808694	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1812C>T	p.%3D	p.P604P	ENST00000392006	12/15	82	62	19	83	83	0	HNRNPUL1,synonymous_variant,p.%3D,ENST00000392006,;HNRNPUL1,synonymous_variant,p.%3D,ENST00000378215,;HNRNPUL1,synonymous_variant,p.%3D,ENST00000595018,;HNRNPUL1,synonymous_variant,p.%3D,ENST00000263367,;HNRNPUL1,synonymous_variant,p.%3D,ENST00000602130,;HNRNPUL1,synonymous_variant,p.%3D,ENST00000599614,;HNRNPUL1,synonymous_variant,p.%3D,ENST00000352456,;HNRNPUL1,synonymous_variant,p.%3D,ENST00000593587,;TGFB1,intron_variant,,ENST00000598758,;HNRNPUL1,downstream_gene_variant,,ENST00000600493,;HNRNPUL1,3_prime_UTR_variant,,ENST00000595196,;HNRNPUL1,non_coding_transcript_exon_variant,,ENST00000595806,;	T	ENSG00000105323	ENST00000392006	Transcript	synonymous_variant	1985	1812	604	P	ccC/ccT	COSM1304638	.	.	1	HNRNPUL1	HGNC	17011	protein_coding	YES	CCDS12576.1	ENSP00000375863	HNRL1_HUMAN	M0R203_HUMAN,M0R0K8_HUMAN,M0QZV6_HUMAN,M0QYZ0_HUMAN,M0QYI8_HUMAN,B3KM60_HUMAN	UPI000013D3F4	.	.	.	12/15	.	hmmpanther:PTHR12381,hmmpanther:PTHR12381:SF41	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCCCCTGA	.	5	BLCA
ARHGEF1	0	.	GRCh37	19	42402702	42402702	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1278C>G	p.%3D	p.P426P	ENST00000337665	14/29	25	18	7	15	15	0	ARHGEF1,synonymous_variant,p.%3D,ENST00000599846,;ARHGEF1,synonymous_variant,p.%3D,ENST00000594258,;ARHGEF1,synonymous_variant,p.%3D,ENST00000594521,;ARHGEF1,synonymous_variant,p.%3D,ENST00000337665,;ARHGEF1,synonymous_variant,p.%3D,ENST00000599589,;ARHGEF1,synonymous_variant,p.%3D,ENST00000347545,;ARHGEF1,synonymous_variant,p.%3D,ENST00000354532,;ARHGEF1,synonymous_variant,p.%3D,ENST00000378152,;ARHGEF1,upstream_gene_variant,,ENST00000595723,;ARHGEF1,non_coding_transcript_exon_variant,,ENST00000600274,;ARHGEF1,non_coding_transcript_exon_variant,,ENST00000594044,;ARHGEF1,non_coding_transcript_exon_variant,,ENST00000595897,;ARHGEF1,downstream_gene_variant,,ENST00000593869,;ARHGEF1,downstream_gene_variant,,ENST00000598812,;	G	ENSG00000076928	ENST00000337665	Transcript	synonymous_variant	1298	1278	426	P	ccC/ccG	COSM1304646	.	.	1	ARHGEF1	HGNC	681	protein_coding	YES	CCDS12590.1	ENSP00000337261	ARHG1_HUMAN	.	UPI0000231C94	.	.	.	14/29	.	hmmpanther:PTHR22825,hmmpanther:PTHR22825:SF6,Gene3D:1.20.900.10,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCCCAAGAG	.	5	BLCA
ZNF233	0	.	GRCh37	19	44777421	44777421	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608T>C	p.Val203Ala	p.V203A	ENST00000391958	5/5	17	10	7	18	18	0	ZNF233,missense_variant,p.Val203Ala,ENST00000391958,;ZNF233,3_prime_UTR_variant,,ENST00000592581,;ZNF233,intron_variant,,ENST00000334152,;ZNF235,intron_variant,,ENST00000589799,;ZNF235,downstream_gene_variant,,ENST00000589248,;ZNF233,downstream_gene_variant,,ENST00000590668,;ZNF235,intron_variant,,ENST00000592844,;	C	ENSG00000159915	ENST00000391958	Transcript	missense_variant	735	608	203	V/A	gTa/gCa	COSM1304736	.	.	1	ZNF233	HGNC	30946	protein_coding	YES	CCDS33047.1	ENSP00000375820	ZN233_HUMAN	K7EN46_HUMAN	UPI000049DEBE	.	tolerated(0.08)	benign(0.003)	5/5	.	hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF42	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGTAAAAA	.	5	BLCA
CEACAM16	0	.	GRCh37	19	45213839	45213839	+	3'UTR	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61C>T	.	.	ENST00000587331	7/7	117	56	61	93	93	0	CEACAM16,3_prime_UTR_variant,,ENST00000587331,;CEACAM16,3_prime_UTR_variant,,ENST00000405314,;CTB-171A8.1,intron_variant,,ENST00000590796,;CTB-171A8.1,downstream_gene_variant,,ENST00000591312,;	T	ENSG00000213892	ENST00000587331	Transcript	3_prime_UTR_variant	1554	.	.	.	.	.	.	.	1	CEACAM16	HGNC	31948	protein_coding	YES	CCDS54278.1	ENSP00000466561	CEA16_HUMAN	.	UPI00001D8176	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CTCGCCCTCTG	.	4	BLCA
ERCC2	0	.	GRCh37	19	45867687	45867687	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.713A>G	p.Asn238Ser	p.N238S	ENST00000391945	8/23	60	45	15	43	43	0	ERCC2,missense_variant,p.Asn214Ser,ENST00000391941,;ERCC2,missense_variant,p.Asn160Ser,ENST00000391944,;ERCC2,missense_variant,p.Asn214Ser,ENST00000586131,;ERCC2,missense_variant,p.Asn238Ser,ENST00000391945,;ERCC2,missense_variant,p.Asn214Ser,ENST00000391940,;ERCC2,missense_variant,p.Asn214Ser,ENST00000485403,;ERCC2,intron_variant,,ENST00000221481,;ERCC2,downstream_gene_variant,,ENST00000586856,;ERCC2,intron_variant,,ENST00000586441,;ERCC2,intron_variant,,ENST00000591309,;ERCC2,intron_variant,,ENST00000586737,;ERCC2,upstream_gene_variant,,ENST00000587376,;ERCC2,upstream_gene_variant,,ENST00000391942,;	C	ENSG00000104884	ENST00000391945	Transcript	missense_variant	791	713	238	N/S	aAc/aGc	COSM418170,COSM1750977	.	.	-1	ERCC2	HGNC	3434	protein_coding	YES	CCDS33049.1	ENSP00000375809	ERCC2_HUMAN	K7EIT8_HUMAN,A8MX75_HUMAN	UPI0000139012	.	deleterious(0)	probably_damaging(0.979)	8/23	.	PROSITE_profiles:PS51193,hmmpanther:PTHR11472:SF1,hmmpanther:PTHR11472,PROSITE_patterns:PS00690,Gene3D:3.40.50.300,Pfam_domain:PF06733,TIGRFAM_domain:TIGR00604,SMART_domains:SM00488,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.N238S|c.713A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATGTTGTGG	.	5	BLCA
DMWD	0	.	GRCh37	19	46290118	46290118	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.636C>A	p.Asp212Glu	p.D212E	ENST00000270223	3/5	48	34	14	40	40	0	DMWD,missense_variant,p.Asp212Glu,ENST00000377735,;DMWD,missense_variant,p.Asp212Glu,ENST00000270223,;DMPK,upstream_gene_variant,,ENST00000291270,;DMPK,upstream_gene_variant,,ENST00000458663,;AC011530.4,upstream_gene_variant,,ENST00000596586,;DMWD,upstream_gene_variant,,ENST00000602829,;DMWD,upstream_gene_variant,,ENST00000537879,;DMWD,downstream_gene_variant,,ENST00000597053,;DMPK,upstream_gene_variant,,ENST00000447742,;DMWD,downstream_gene_variant,,ENST00000598237,;AC011530.4,upstream_gene_variant,,ENST00000595946,;DMPK,upstream_gene_variant,,ENST00000354227,;DMWD,non_coding_transcript_exon_variant,,ENST00000601370,;DMWD,downstream_gene_variant,,ENST00000602469,;DMPK,upstream_gene_variant,,ENST00000588522,;AC011530.4,upstream_gene_variant,,ENST00000593999,;AC011530.4,upstream_gene_variant,,ENST00000597712,;	T	ENSG00000185800	ENST00000270223	Transcript	missense_variant	682	636	212	D/E	gaC/gaA	COSM1304788	.	.	-1	DMWD	HGNC	2936	protein_coding	YES	CCDS33054.1	ENSP00000270223	DMWD_HUMAN	.	UPI000040C0B4	.	deleterious(0.04)	benign(0.018)	3/5	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR14107,hmmpanther:PTHR14107:SF15	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTGTCGAT	.	5	BLCA
STRN4	0	.	GRCh37	19	47226204	47226204	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1790A>G	p.His597Arg	p.H597R	ENST00000391910	14/18	105	74	30	63	63	0	STRN4,missense_variant,p.His35Arg,ENST00000600615,;STRN4,missense_variant,p.His471Arg,ENST00000539396,;STRN4,missense_variant,p.His597Arg,ENST00000391910,;STRN4,missense_variant,p.His590Arg,ENST00000263280,;STRN4,missense_variant,p.His271Arg,ENST00000594287,;STRN4,non_coding_transcript_exon_variant,,ENST00000594357,;STRN4,downstream_gene_variant,,ENST00000602223,;STRN4,non_coding_transcript_exon_variant,,ENST00000601631,;STRN4,non_coding_transcript_exon_variant,,ENST00000595357,;STRN4,non_coding_transcript_exon_variant,,ENST00000598074,;STRN4,non_coding_transcript_exon_variant,,ENST00000594581,;STRN4,downstream_gene_variant,,ENST00000600358,;STRN4,upstream_gene_variant,,ENST00000601869,;STRN4,downstream_gene_variant,,ENST00000594847,;STRN4,downstream_gene_variant,,ENST00000599231,;STRN4,downstream_gene_variant,,ENST00000435164,;	C	ENSG00000090372	ENST00000391910	Transcript	missense_variant	2241	1790	597	H/R	cAc/cGc	COSM1304821	.	.	-1	STRN4	HGNC	15721	protein_coding	YES	CCDS42581.1	ENSP00000375777	.	M0QYS2_HUMAN,Q59GV6_HUMAN,M0R2A7_HUMAN,M0R0P4_HUMAN,M0QXN2_HUMAN,F8VYA6_HUMAN,B3KPF6_HUMAN	UPI00006CA35B	.	tolerated(0.34)	benign(0.229)	14/18	.	PROSITE_profiles:PS50294,hmmpanther:PTHR15653:SF1,hmmpanther:PTHR15653,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCGTGCTCT	.	5	BLCA
C5AR2	0	.	GRCh37	19	47844239	47844239	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.183G>T	p.%3D	p.G61G	ENST00000595464	2/2	374	286	88	226	226	0	C5AR2,synonymous_variant,p.%3D,ENST00000257267,;C5AR2,synonymous_variant,p.%3D,ENST00000600626,;C5AR2,synonymous_variant,p.%3D,ENST00000595464,;	T	ENSG00000134830	ENST00000595464	Transcript	synonymous_variant	401	183	61	G	ggG/ggT	COSM1304833	.	.	1	C5AR2	HGNC	4527	protein_coding	YES	CCDS12699.1	ENSP00000472620	C5AR2_HUMAN	.	UPI000003BCC8	.	.	.	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24225:SF1,hmmpanther:PTHR24225,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00426	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGGAAGGT	.	5	BLCA
DHX34	0	.	GRCh37	19	47879304	47879304	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2431C>T	p.Gln811Ter	p.Q811*	ENST00000328771	11/17	156	118	38	93	93	0	DHX34,stop_gained,p.Gln811Ter,ENST00000328771,;DHX34,downstream_gene_variant,,ENST00000471451,;DHX34,stop_gained,p.Gln200Ter,ENST00000460681,;DHX34,non_coding_transcript_exon_variant,,ENST00000486327,;	T	ENSG00000134815	ENST00000328771	Transcript	stop_gained	2780	2431	811	Q/*	Cag/Tag	COSM1304838	.	.	1	DHX34	HGNC	16719	protein_coding	YES	CCDS12700.1	ENSP00000331907	DHX34_HUMAN	.	UPI0000202759	.	.	.	11/17	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF110,Pfam_domain:PF07717	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCACAGCTG	.	5	BLCA
MAMSTR	0	.	GRCh37	19	49217717	49217717	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.629A>T	p.Glu210Val	p.E210V	ENST00000318083	7/10	12	4	8	11	11	0	MAMSTR,missense_variant,p.Glu107Val,ENST00000356751,;MAMSTR,missense_variant,p.Glu107Val,ENST00000419611,;MAMSTR,missense_variant,p.Glu210Val,ENST00000318083,;MAMSTR,intron_variant,,ENST00000594582,;MAMSTR,intron_variant,,ENST00000377367,;MAMSTR,downstream_gene_variant,,ENST00000595591,;MAMSTR,downstream_gene_variant,,ENST00000599703,;	A	ENSG00000176909	ENST00000318083	Transcript	missense_variant	693	629	210	E/V	gAg/gTg	COSM1304872,COSM1304871	.	.	-1	MAMSTR	HGNC	26689	protein_coding	YES	CCDS46137.1	ENSP00000324175	MASTR_HUMAN	.	UPI000035E7CB	.	tolerated(0.1)	benign(0.403)	7/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23251:SF1,hmmpanther:PTHR23251	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCGCTCGCGG	.	2	BLCA
RASIP1	0	.	GRCh37	19	49238543	49238543	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1089C>T	p.%3D	p.P363P	ENST00000222145	4/12	88	67	20	53	53	0	RASIP1,synonymous_variant,p.%3D,ENST00000599291,;RASIP1,synonymous_variant,p.%3D,ENST00000222145,;RASIP1,non_coding_transcript_exon_variant,,ENST00000594232,;	A	ENSG00000105538	ENST00000222145	Transcript	synonymous_variant	1294	1089	363	P	ccC/ccT	COSM1304876,COSM1304875	.	.	-1	RASIP1	HGNC	24716	protein_coding	YES	CCDS12731.1	ENSP00000222145	RAIN_HUMAN	Q9NX72_HUMAN,Q7L251_HUMAN,B3KVR5_HUMAN	UPI000020283D	.	.	.	4/12	.	hmmpanther:PTHR16027:SF4,hmmpanther:PTHR16027	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCCGGGGTC	.	5	BLCA
HSD17B14	0	.	GRCh37	19	49316713	49316713	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639G>A	p.%3D	p.Q213Q	ENST00000263278	8/9	10	3	7	17	17	0	HSD17B14,synonymous_variant,p.%3D,ENST00000596349,;HSD17B14,synonymous_variant,p.%3D,ENST00000263278,;HSD17B14,synonymous_variant,p.%3D,ENST00000599157,;HSD17B14,intron_variant,,ENST00000595764,;BCAT2,upstream_gene_variant,,ENST00000402551,;BCAT2,upstream_gene_variant,,ENST00000597011,;BCAT2,upstream_gene_variant,,ENST00000601681,;BCAT2,upstream_gene_variant,,ENST00000599246,;BCAT2,upstream_gene_variant,,ENST00000316273,;BCAT2,upstream_gene_variant,,ENST00000598162,;BCAT2,upstream_gene_variant,,ENST00000545387,;BCAT2,upstream_gene_variant,,ENST00000601496,;BCAT2,upstream_gene_variant,,ENST00000596981,;	T	ENSG00000087076	ENST00000263278	Transcript	synonymous_variant	906	639	213	Q	caG/caA	COSM1304880	.	.	-1	HSD17B14	HGNC	23238	protein_coding	YES	CCDS12736.1	ENSP00000263278	DHB14_HUMAN	.	UPI000004FACC	.	.	.	8/9	.	hmmpanther:PTHR24316:SF290,hmmpanther:PTHR24316,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTACCTGGGC	.	3	BLCA
PRR12	0	.	GRCh37	19	50117835	50117835	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4819C>A	p.Gln1607Lys	p.Q1607K	ENST00000418929	7/14	16	3	12	18	18	0	PRR12,missense_variant,p.Gln1607Lys,ENST00000418929,;	A	ENSG00000126464	ENST00000418929	Transcript	missense_variant	4831	4819	1607	Q/K	Cag/Aag	.	.	.	1	PRR12	HGNC	29217	protein_coding	YES	CCDS46143.1	ENSP00000394510	PRR12_HUMAN	.	UPI0001596889	.	.	unknown(0)	7/14	.	hmmpanther:PTHR14709:SF1,hmmpanther:PTHR14709	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GAGTCCAGAAG	.	4	BLCA
FUZ	0	.	GRCh37	19	50315535	50315535	+	Silent	SNP	T	T	C	rs757677956	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291A>G	p.%3D	p.R97R	ENST00000313777	3/11	26	18	8	39	39	0	FUZ,synonymous_variant,p.%3D,ENST00000445575,;FUZ,synonymous_variant,p.%3D,ENST00000313777,;FUZ,synonymous_variant,p.%3D,ENST00000533418,;FUZ,5_prime_UTR_variant,,ENST00000529302,;FUZ,intron_variant,,ENST00000526575,;FUZ,intron_variant,,ENST00000528094,;FUZ,upstream_gene_variant,,ENST00000529634,;AC006942.4,downstream_gene_variant,,ENST00000600669,;FUZ,non_coding_transcript_exon_variant,,ENST00000534008,;FUZ,upstream_gene_variant,,ENST00000527973,;FUZ,synonymous_variant,p.%3D,ENST00000528043,;FUZ,3_prime_UTR_variant,,ENST00000377092,;FUZ,3_prime_UTR_variant,,ENST00000527111,;FUZ,3_prime_UTR_variant,,ENST00000527585,;FUZ,3_prime_UTR_variant,,ENST00000525800,;FUZ,non_coding_transcript_exon_variant,,ENST00000531017,;FUZ,intron_variant,,ENST00000525370,;FUZ,intron_variant,,ENST00000525130,;FUZ,upstream_gene_variant,,ENST00000534138,;FUZ,downstream_gene_variant,,ENST00000526435,;	C	ENSG00000010361	ENST00000313777	Transcript	synonymous_variant	455	291	97	R	agA/agG	rs757677956,COSM1304929	.	.	-1	FUZ	HGNC	26219	protein_coding	YES	CCDS12781.1	ENSP00000313309	FUZZY_HUMAN	M0R1D4_HUMAN,E9PK12_HUMAN	UPI00000736B0	.	.	.	3/11	.	hmmpanther:PTHR13559	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGTAGTCTCTC	.	4	BLCA
MYH14	0	.	GRCh37	19	50735294	50735294	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1081C>T	p.Arg361Trp	p.R361W	ENST00000601313	10/43	89	69	19	55	55	0	MYH14,missense_variant,p.Arg361Trp,ENST00000440075,;MYH14,missense_variant,p.Arg361Trp,ENST00000601313,;MYH14,missense_variant,p.Arg353Trp,ENST00000376970,;MYH14,missense_variant,p.Arg353Trp,ENST00000596571,;MYH14,missense_variant,p.Arg361Trp,ENST00000425460,;MYH14,missense_variant,p.Arg361Trp,ENST00000599920,;MYH14,missense_variant,p.Arg361Trp,ENST00000598205,;MYH14,missense_variant,p.Arg361Trp,ENST00000262269,;	T	ENSG00000105357	ENST00000601313	Transcript	missense_variant	1111	1081	361	R/W	Cgg/Tgg	COSM1304946,COSM1304945	.	.	1	MYH14	HGNC	23212	protein_coding	YES	CCDS54295.1	ENSP00000470298	MYH14_HUMAN	A1L2Z2_HUMAN	UPI0001641C2F	.	deleterious(0)	possibly_damaging(0.54)	10/43	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF318,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTGCGGGTC	.	5	BLCA
FPR3	0	.	GRCh37	19	52327697	52327697	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696C>T	p.%3D	p.H232H	ENST00000339223	2/2	14	7	7	13	13	0	FPR3,synonymous_variant,p.%3D,ENST00000339223,;FPR3,synonymous_variant,p.%3D,ENST00000595991,;	T	ENSG00000187474	ENST00000339223	Transcript	synonymous_variant	875	696	232	H	caC/caT	.	.	.	1	FPR3	HGNC	3828	protein_coding	YES	CCDS12841.1	ENSP00000341821	FPR3_HUMAN	Q6L5J4_HUMAN	UPI000011DFC1	.	.	.	2/2	.	Prints_domain:PR00526,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR24225,hmmpanther:PTHR24225:SF16,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER	AACCACATGAT	.	2	BLCA
ZNF616	0	.	GRCh37	19	52619312	52619312	+	Missense_Mutation	SNP	C	C	T	rs565338621	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1105G>A	p.Val369Ile	p.V369I	ENST00000600228	4/4	125	70	55	195	195	0	ZNF616,missense_variant,p.Val369Ile,ENST00000600228,;ZNF616,3_prime_UTR_variant,,ENST00000330123,;ZNF616,downstream_gene_variant,,ENST00000596290,;	T	ENSG00000204611	ENST00000600228	Transcript	missense_variant	1367	1105	369	V/I	Gta/Ata	rs565338621,COSM1305004	.	.	-1	ZNF616	HGNC	28062	protein_coding	YES	CCDS33090.1	ENSP00000471000	ZN616_HUMAN	M0QXF0_HUMAN	UPI0000140D49	.	tolerated(0.2)	benign(0.065)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF275,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATACAAGAT	byCluster	5	BLCA
ZNF28	0	.	GRCh37	19	53311303	53311303	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99C>A	p.Tyr33Ter	p.Y33*	ENST00000457749	3/4	83	76	7	112	112	0	ZNF28,stop_gained,p.Tyr33Ter,ENST00000457749,;ZNF28,stop_gained,p.Tyr33Ter,ENST00000594602,;ZNF28,5_prime_UTR_variant,,ENST00000339844,;ZNF28,5_prime_UTR_variant,,ENST00000360272,;ZNF28,intron_variant,,ENST00000391783,;ZNF28,intron_variant,,ENST00000596559,;ZNF28,intron_variant,,ENST00000414252,;ZNF28,upstream_gene_variant,,ENST00000438150,;ZNF28,non_coding_transcript_exon_variant,,ENST00000464469,;CTD-2102P23.1,upstream_gene_variant,,ENST00000536597,;	T	ENSG00000198538	ENST00000457749	Transcript	stop_gained	219	99	33	Y/*	taC/taA	COSM1305036	.	.	-1	ZNF28	HGNC	13073	protein_coding	YES	CCDS33093.2	ENSP00000397693	ZNF28_HUMAN	C9K0H3_HUMAN	UPI00001D8190	.	.	.	3/4	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF226,Pfam_domain:PF01352,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TCCCTGTAAAG	.	2	BLCA
ZNF548	0	.	GRCh37	19	57910511	57910511	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892T>C	p.Cys298Arg	p.C298R	ENST00000336128	4/4	33	23	10	38	38	0	ZNF548,missense_variant,p.Cys298Arg,ENST00000336128,;ZNF548,missense_variant,p.Cys286Arg,ENST00000366197,;AC004076.7,intron_variant,,ENST00000597410,;AC003002.6,intron_variant,,ENST00000596400,;AC003002.6,intron_variant,,ENST00000596617,;ZNF548,downstream_gene_variant,,ENST00000598895,;ZNF548,downstream_gene_variant,,ENST00000594668,;ZNF548,downstream_gene_variant,,ENST00000594693,;ZNF548,downstream_gene_variant,,ENST00000600927,;AC003002.4,downstream_gene_variant,,ENST00000597658,;ZNF548,downstream_gene_variant,,ENST00000597400,;ZNF548,downstream_gene_variant,,ENST00000596282,;AC003002.6,intron_variant,,ENST00000600421,;ZNF548,downstream_gene_variant,,ENST00000597047,;ZNF548,downstream_gene_variant,,ENST00000600442,;ZNF548,downstream_gene_variant,,ENST00000602086,;ZNF548,downstream_gene_variant,,ENST00000597576,;	C	ENSG00000188785	ENST00000336128	Transcript	missense_variant	1095	892	298	C/R	Tgt/Cgt	COSM1305191	.	.	1	ZNF548	HGNC	26561	protein_coding	YES	CCDS54324.1	ENSP00000337555	ZN548_HUMAN	M0R354_HUMAN,M0R041_HUMAN,M0QX17_HUMAN	UPI000059D7C2	.	deleterious(0)	possibly_damaging(0.797)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24387:SF189,hmmpanther:PTHR24387,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACATGTGGG	.	5	BLCA
ZNF749	0	.	GRCh37	19	57956154	57956154	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1638C>G	p.His546Gln	p.H546Q	ENST00000334181	3/3	33	23	9	53	53	0	ZNF749,missense_variant,p.His546Gln,ENST00000334181,;AC004076.9,intron_variant,,ENST00000596831,;ZNF749,downstream_gene_variant,,ENST00000415248,;	G	ENSG00000186230	ENST00000334181	Transcript	missense_variant	1888	1638	546	H/Q	caC/caG	COSM1305194,COSM1305193	.	.	1	ZNF749	HGNC	32783	protein_coding	YES	CCDS33132.2	ENSP00000333980	ZN749_HUMAN	C9J756_HUMAN	UPI0000237933	.	deleterious(0)	unknown(0)	3/3	.	hmmpanther:PTHR24381:SF5,hmmpanther:PTHR24381,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACACAAGAG	.	5	BLCA
ZNF329	0	.	GRCh37	19	58639356	58639356	+	Missense_Mutation	SNP	A	A	T	rs764400921	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1515T>A	p.His505Gln	p.H505Q	ENST00000598312	4/4	177	99	77	198	198	0	ZNF329,missense_variant,p.His505Gln,ENST00000598312,;ZNF329,missense_variant,p.His505Gln,ENST00000358067,;ZNF329,downstream_gene_variant,,ENST00000601887,;ZNF329,missense_variant,p.His505Gln,ENST00000500161,;ZNF329,missense_variant,p.His505Gln,ENST00000597186,;	T	ENSG00000181894	ENST00000598312	Transcript	missense_variant	1749	1515	505	H/Q	caT/caA	rs764400921,COSM1305226	.	.	-1	ZNF329	HGNC	14209	protein_coding	YES	CCDS12972.1	ENSP00000470008	ZN329_HUMAN	M0R136_HUMAN	UPI0000246E79	.	deleterious(0)	probably_damaging(0.992)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF118,hmmpanther:PTHR24381,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTATGGAG	byFrequency	5	BLCA
SLC30A7	0	.	GRCh37	1	101362198	101362198	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153G>A	p.%3D	p.V51V	ENST00000370112	2/12	28	20	7	36	36	0	SLC30A7,synonymous_variant,p.%3D,ENST00000357650,;SLC30A7,synonymous_variant,p.%3D,ENST00000370112,;EXTL2,upstream_gene_variant,,ENST00000370113,;EXTL2,upstream_gene_variant,,ENST00000370114,;EXTL2,upstream_gene_variant,,ENST00000416479,;EXTL2,upstream_gene_variant,,ENST00000535414,;EXTL2,upstream_gene_variant,,ENST00000450240,;RP4-549L20.3,downstream_gene_variant,,ENST00000609247,;EXTL2,upstream_gene_variant,,ENST00000480774,;EXTL2,upstream_gene_variant,,ENST00000494907,;	A	ENSG00000162695	ENST00000370112	Transcript	synonymous_variant	340	153	51	V	gtG/gtA	COSM1294611	.	.	1	SLC30A7	HGNC	19306	protein_coding	YES	CCDS776.1	ENSP00000359130	ZNT7_HUMAN	.	UPI0000050F45	.	.	.	2/12	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11562,hmmpanther:PTHR11562:SF13,TIGRFAM_domain:TIGR01297,Gene3D:3h90A01,Pfam_domain:PF01545,Superfamily_domains:0054606	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTGGAACT	.	5	BLCA
KIAA1324	0	.	GRCh37	1	109731742	109731742	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274G>A	p.Trp425Ter	p.W425*	ENST00000369939	10/22	66	33	33	82	82	0	KIAA1324,stop_gained,p.Trp338Ter,ENST00000529753,;KIAA1324,stop_gained,p.Trp425Ter,ENST00000369939,;KIAA1324,stop_gained,p.Trp375Ter,ENST00000457623,;KIAA1324,non_coding_transcript_exon_variant,,ENST00000369938,;KIAA1324,3_prime_UTR_variant,,ENST00000527996,;KIAA1324,non_coding_transcript_exon_variant,,ENST00000369936,;KIAA1324,non_coding_transcript_exon_variant,,ENST00000490758,;KIAA1324,upstream_gene_variant,,ENST00000464345,;	A	ENSG00000116299	ENST00000369939	Transcript	stop_gained	1457	1274	425	W/*	tGg/tAg	COSM1294669	.	.	1	KIAA1324	HGNC	29618	protein_coding	YES	CCDS794.1	ENSP00000358955	K1324_HUMAN	E9PS21_HUMAN,E9PMS2_HUMAN,E9PLY8_HUMAN,E9PLQ2_HUMAN	UPI00002051E0	.	.	.	10/22	.	hmmpanther:PTHR22727,hmmpanther:PTHR22727:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATGGTGGA	.	5	BLCA
LAMTOR5	0	.	GRCh37	1	110944079	110944079	+	3'UTR	SNP	T	T	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*66A>G	.	.	ENST00000256644	4/4	21	15	6	27	27	0	LAMTOR5,3_prime_UTR_variant,,ENST00000602858,;LAMTOR5,3_prime_UTR_variant,,ENST00000483260,;LAMTOR5,3_prime_UTR_variant,,ENST00000602318,;LAMTOR5,3_prime_UTR_variant,,ENST00000256644,;LAMTOR5,3_prime_UTR_variant,,ENST00000474861,;LAMTOR5-AS1,intron_variant,,ENST00000590413,;LAMTOR5,non_coding_transcript_exon_variant,,ENST00000464240,;LAMTOR5,downstream_gene_variant,,ENST00000531779,;	C	ENSG00000134248	ENST00000256644	Transcript	3_prime_UTR_variant	664	.	.	.	.	.	.	.	-1	LAMTOR5	HGNC	17955	protein_coding	YES	CCDS824.1	ENSP00000256644	LTOR5_HUMAN	R4GMU8_HUMAN	UPI0000205288	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTCTATAAG	.	5	BLCA
PTPN22	0	.	GRCh37	1	114372323	114372323	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2141A>C	p.Gln714Pro	p.Q714P	ENST00000359785	18/21	19	16	3	34	34	0	PTPN22,missense_variant,p.Gln659Pro,ENST00000528414,;PTPN22,missense_variant,p.Gln714Pro,ENST00000420377,;PTPN22,missense_variant,p.Gln714Pro,ENST00000359785,;PTPN22,missense_variant,p.Gln587Pro,ENST00000525799,;PTPN22,missense_variant,p.Gln470Pro,ENST00000538253,;PTPN22,intron_variant,,ENST00000460620,;RP5-1073O3.2,downstream_gene_variant,,ENST00000448199,;PTPN22,3_prime_UTR_variant,,ENST00000532224,;PTPN22,downstream_gene_variant,,ENST00000484147,;	G	ENSG00000134242	ENST00000359785	Transcript	missense_variant	2277	2141	714	Q/P	cAg/cCg	COSM1294748	.	.	-1	PTPN22	HGNC	9652	protein_coding	YES	CCDS863.1	ENSP00000352833	.	F5H2S8_HUMAN	UPI000013CF18	.	deleterious(0)	probably_damaging(0.981)	18/21	.	PIRSF_domain:PIRSF000930	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCCTGCATA	.	2	BLCA
AP4B1	0	.	GRCh37	1	114442966	114442966	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674A>G	p.Tyr225Cys	p.Y225C	ENST00000369569	5/10	60	33	26	74	74	0	AP4B1,missense_variant,p.Tyr57Cys,ENST00000432415,;AP4B1,missense_variant,p.Tyr225Cys,ENST00000256658,;AP4B1,missense_variant,p.Tyr150Cys,ENST00000369564,;AP4B1,missense_variant,p.Tyr225Cys,ENST00000369569,;AP4B1,missense_variant,p.Tyr57Cys,ENST00000369567,;AP4B1,missense_variant,p.Tyr225Cys,ENST00000369571,;AP4B1,missense_variant,p.Tyr132Cys,ENST00000369566,;DCLRE1B,upstream_gene_variant,,ENST00000369563,;AP4B1-AS1,non_coding_transcript_exon_variant,,ENST00000419536,;AP4B1,non_coding_transcript_exon_variant,,ENST00000489092,;AP4B1,non_coding_transcript_exon_variant,,ENST00000489499,;AP4B1,non_coding_transcript_exon_variant,,ENST00000484201,;AP4B1,non_coding_transcript_exon_variant,,ENST00000472122,;AP4B1,upstream_gene_variant,,ENST00000479801,;AP4B1,upstream_gene_variant,,ENST00000479285,;AP4B1,upstream_gene_variant,,ENST00000460653,;AP4B1,upstream_gene_variant,,ENST00000462591,;	C	ENSG00000134262	ENST00000369569	Transcript	missense_variant	955	674	225	Y/C	tAc/tGc	COSM1294751	.	.	-1	AP4B1	HGNC	572	protein_coding	YES	CCDS865.1	ENSP00000358582	AP4B1_HUMAN	B1ALD2_HUMAN	UPI0000072F63	.	deleterious(0)	probably_damaging(1)	5/10	.	Superfamily_domains:SSF48371,PIRSF_domain:PIRSF002291,Pfam_domain:PF01602,Gene3D:1.25.10.10,hmmpanther:PTHR11134,hmmpanther:PTHR11134:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGGTAGCGT	.	5	BLCA
HIPK1	0	.	GRCh37	1	114512680	114512680	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2874G>A	p.%3D	p.L958L	ENST00000369558	14/16	169	116	53	164	164	0	HIPK1,synonymous_variant,p.%3D,ENST00000361587,;HIPK1,synonymous_variant,p.%3D,ENST00000369561,;HIPK1,synonymous_variant,p.%3D,ENST00000369554,;HIPK1,synonymous_variant,p.%3D,ENST00000406344,;HIPK1,synonymous_variant,p.%3D,ENST00000426820,;HIPK1,synonymous_variant,p.%3D,ENST00000369553,;HIPK1,synonymous_variant,p.%3D,ENST00000369559,;HIPK1,synonymous_variant,p.%3D,ENST00000369558,;HIPK1,synonymous_variant,p.%3D,ENST00000369555,;HIPK1,synonymous_variant,p.%3D,ENST00000340480,;	A	ENSG00000163349	ENST00000369558	Transcript	synonymous_variant	3106	2874	958	L	ctG/ctA	COSM1294754,COSM1294753	.	.	1	HIPK1	HGNC	19006	protein_coding	YES	CCDS867.1	ENSP00000358571	HIPK1_HUMAN	D6RF28_HUMAN,D6RC95_HUMAN	UPI000000D74E	.	.	.	14/16	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGAGTGC	.	5	BLCA
ZNF697	0	.	GRCh37	1	120166097	120166097	+	Missense_Mutation	SNP	A	A	T	rs377670902	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.869T>A	p.Leu290Gln	p.L290Q	ENST00000421812	3/3	47	22	25	32	32	0	ZNF697,missense_variant,p.Leu290Gln,ENST00000421812,;	T	ENSG00000143067	ENST00000421812	Transcript	missense_variant	989	869	290	L/Q	cTg/cAg	rs377670902,COSM1294809	.	.	-1	ZNF697	HGNC	32034	protein_coding	YES	CCDS44202.1	ENSP00000396857	ZN697_HUMAN	Q8N508_HUMAN	UPI0000DD78D7	.	tolerated(0.58)	benign(0.018)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF55,hmmpanther:PTHR24402,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	C:0.0002	C:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCACAGGTTG	.	5	BLCA
NOTCH2	0	.	GRCh37	1	120529583	120529583	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874G>A	p.Gly292Arg	p.G292R	ENST00000256646	5/34	99	54	44	130	130	0	NOTCH2,missense_variant,p.Gly292Arg,ENST00000256646,;NOTCH2,splice_region_variant,,ENST00000479412,;	T	ENSG00000134250	ENST00000256646	Transcript	missense_variant	1094	874	292	G/R	Gga/Aga	COSM1294816	.	.	-1	NOTCH2	HGNC	7882	protein_coding	YES	CCDS908.1	ENSP00000256646	NOTC2_HUMAN	Q9UFD5_HUMAN,Q13560_HUMAN	UPI000013CF1D	.	deleterious(0)	probably_damaging(1)	5/34	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24033:SF4,hmmpanther:PTHR24033,PROSITE_patterns:PS00022,Gene3D:2.10.25.10,Pfam_domain:PF00008,SMART_domains:SM00179,PIRSF_domain:PIRSF002279,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATACCTGTCC	.	5	BLCA
RP11-439A17.4	0	.	GRCh37	1	120906281	120906281	+	5'Flank	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000427872	.	431	368	62	150	150	0	RP11-439A17.4,upstream_gene_variant,,ENST00000427872,;RP11-439A17.10,upstream_gene_variant,,ENST00000426275,;HIST2H2BA,non_coding_transcript_exon_variant,,ENST00000430394,;HIST2H2BA,non_coding_transcript_exon_variant,,ENST00000412169,;HIST2H3DP1,downstream_gene_variant,,ENST00000401004,;	A	ENSG00000227193	ENST00000427872	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1122	-1	RP11-439A17.4	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCCCGCCTGG	.	4	BLCA
TNFRSF1B	0	.	GRCh37	1	12251945	12251945	+	Missense_Mutation	SNP	G	G	A	rs754560287	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.422G>A	p.Arg141His	p.R141H	ENST00000376259	4/10	157	74	83	74	74	0	TNFRSF1B,missense_variant,p.Arg141His,ENST00000536782,;TNFRSF1B,missense_variant,p.Arg141His,ENST00000376259,;MIR4632,downstream_gene_variant,,ENST00000584158,;TNFRSF1B,non_coding_transcript_exon_variant,,ENST00000492361,;TNFRSF1B,non_coding_transcript_exon_variant,,ENST00000489921,;	A	ENSG00000028137	ENST00000376259	Transcript	missense_variant	511	422	141	R/H	cGc/cAc	rs754560287,COSM1294824	.	.	1	TNFRSF1B	HGNC	11917	protein_coding	YES	CCDS145.1	ENSP00000365435	TNR1B_HUMAN	Q9UIH2_HUMAN,Q9UIG9_HUMAN,Q6LBF2_HUMAN	UPI000002FAE1	.	deleterious(0.02)	possibly_damaging(0.676)	4/10	.	PROSITE_profiles:PS50050,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF108,Gene3D:2.10.50.10,SMART_domains:SM00208,Superfamily_domains:SSF57586	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGCAAGT	byFrequency	5	BLCA
PDPN	0	.	GRCh37	1	13933692	13933692	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.320A>T	p.Asp107Val	p.D107V	ENST00000294489	2/6	103	63	39	118	118	0	PDPN,missense_variant,p.Asp26Val,ENST00000509009,;PDPN,missense_variant,p.Asp107Val,ENST00000376057,;PDPN,missense_variant,p.Asp107Val,ENST00000294489,;PDPN,missense_variant,p.Asp98Val,ENST00000510906,;PDPN,5_prime_UTR_variant,,ENST00000513143,;PDPN,5_prime_UTR_variant,,ENST00000487038,;PDPN,5_prime_UTR_variant,,ENST00000475043,;PDPN,5_prime_UTR_variant,,ENST00000376061,;PDPN,3_prime_UTR_variant,,ENST00000506205,;PDPN,5_prime_UTR_variant,,ENST00000488631,;	T	ENSG00000162493	ENST00000294489	Transcript	missense_variant	661	320	107	D/V	gAc/gTc	COSM1294867	.	.	1	PDPN	HGNC	29602	protein_coding	YES	CCDS30602.1	ENSP00000294489	PDPN_HUMAN	H0YA72_HUMAN	UPI000013E16D	.	tolerated(0.08)	benign(0.009)	2/6	.	Pfam_domain:PF05808,hmmpanther:PTHR16861	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATGACACTG	.	5	BLCA
RPRD2	0	.	GRCh37	1	150444196	150444196	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2772G>T	p.%3D	p.G924G	ENST00000369068	11/11	272	131	140	291	290	0	RPRD2,synonymous_variant,p.%3D,ENST00000369068,;RPRD2,synonymous_variant,p.%3D,ENST00000539519,;RPRD2,synonymous_variant,p.%3D,ENST00000401000,;RPRD2,non_coding_transcript_exon_variant,,ENST00000492220,;	T	ENSG00000163125	ENST00000369068	Transcript	synonymous_variant	2776	2772	924	G	ggG/ggT	COSM1294978,COSM255947,COSM255948,COSM1294977	.	.	1	RPRD2	HGNC	29039	protein_coding	YES	CCDS44216.1	ENSP00000358064	RPRD2_HUMAN	.	UPI00001D7CA8	.	.	.	11/11	.	hmmpanther:PTHR12460,hmmpanther:PTHR12460:SF0	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGGTCTGA	.	5	BLCA
PRUNE	0	.	GRCh37	1	150980992	150980992	+	5'UTR	SNP	C	C	G	rs71624517	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-117C>G	.	.	ENST00000271620	1/8	56	45	10	30	30	0	PRUNE,5_prime_UTR_variant,,ENST00000431193,;PRUNE,5_prime_UTR_variant,,ENST00000368936,;PRUNE,5_prime_UTR_variant,,ENST00000368937,;PRUNE,5_prime_UTR_variant,,ENST00000271619,;PRUNE,5_prime_UTR_variant,,ENST00000271620,;PRUNE,5_prime_UTR_variant,,ENST00000450884,;FAM63A,upstream_gene_variant,,ENST00000312210,;FAM63A,upstream_gene_variant,,ENST00000493834,;FAM63A,upstream_gene_variant,,ENST00000361738,;PRUNE,upstream_gene_variant,,ENST00000368935,;FAM63A,upstream_gene_variant,,ENST00000361936,;PRUNE,non_coding_transcript_exon_variant,,ENST00000475722,;PRUNE,non_coding_transcript_exon_variant,,ENST00000462440,;PRUNE,non_coding_transcript_exon_variant,,ENST00000467771,;FAM63A,upstream_gene_variant,,ENST00000470877,;	G	ENSG00000143363	ENST00000271620	Transcript	5_prime_UTR_variant	40	.	.	.	.	rs71624517	.	.	1	PRUNE	HGNC	13420	protein_coding	YES	CCDS977.1	ENSP00000271620	PRUNE_HUMAN	Q5SZF2_HUMAN,B7ZB72_HUMAN	UPI000004BF0B	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCCTGAC	.	5	BLCA
FLG2	0	.	GRCh37	1	152328005	152328005	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2257G>A	p.Gly753Arg	p.G753R	ENST00000388718	3/3	444	275	169	520	518	2	FLG2,missense_variant,p.Gly753Arg,ENST00000388718,;FLG-AS1,intron_variant,,ENST00000392688,;FLG-AS1,intron_variant,,ENST00000445097,;	T	ENSG00000143520	ENST00000388718	Transcript	missense_variant	2330	2257	753	G/R	Gga/Aga	COSM1295100	.	.	-1	FLG2	HGNC	33276	protein_coding	YES	CCDS30861.1	ENSP00000373370	FILA2_HUMAN	.	UPI00004E1DE5	.	.	unknown(0)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22571,hmmpanther:PTHR22571:SF24	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TTGTCCTGAGC	.	3	BLCA
SLC39A1	0	.	GRCh37	1	153933091	153933091	+	Missense_Mutation	SNP	T	T	G	rs183849692	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.458A>C	p.Asn153Thr	p.N153T	ENST00000368623	3/3	162	85	76	150	150	0	SLC39A1,missense_variant,p.Asn153Thr,ENST00000368623,;SLC39A1,missense_variant,p.Asn153Thr,ENST00000368621,;SLC39A1,missense_variant,p.Asn153Thr,ENST00000413622,;SLC39A1,missense_variant,p.Asn51Thr,ENST00000537590,;SLC39A1,missense_variant,p.Asn153Thr,ENST00000417348,;SLC39A1,missense_variant,p.Asn153Thr,ENST00000310483,;SLC39A1,missense_variant,p.Asn153Thr,ENST00000429040,;SLC39A1,missense_variant,p.Asn153Thr,ENST00000356205,;CRTC2,upstream_gene_variant,,ENST00000368633,;CRTC2,upstream_gene_variant,,ENST00000368630,;CRTC2,upstream_gene_variant,,ENST00000492073,;SLC39A1,downstream_gene_variant,,ENST00000461071,;CRTC2,upstream_gene_variant,,ENST00000476883,;CRTC2,upstream_gene_variant,,ENST00000303569,;CRTC2,upstream_gene_variant,,ENST00000487235,;	G	ENSG00000143570	ENST00000368623	Transcript	missense_variant	1218	458	153	N/T	aAt/aCt	rs183849692	.	.	-1	SLC39A1	HGNC	12876	protein_coding	YES	CCDS1055.1	ENSP00000357612	S39A1_HUMAN	Q5T4K4_HUMAN,Q5T4K3_HUMAN,Q5T4K2_HUMAN,B4DNN0_HUMAN	UPI000006DDFE	.	tolerated(0.3)	benign(0.009)	3/3	.	hmmpanther:PTHR11040,hmmpanther:PTHR11040:SF30,Pfam_domain:PF02535	G:0.0004	G:0	G:0	.	G:0.002	G:0	G:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCATTCACT	byFrequency|byCluster|by1000G	4	BLCA
GON4L	0	.	GRCh37	1	155796703	155796703	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622C>G	p.Gln208Glu	p.Q208E	ENST00000437809	3/32	75	58	17	92	92	0	GON4L,missense_variant,p.Gln208Glu,ENST00000437809,;GON4L,missense_variant,p.Gln208Glu,ENST00000361040,;GON4L,missense_variant,p.Gln208Glu,ENST00000368331,;GON4L,missense_variant,p.Gln208Glu,ENST00000271883,;GON4L,non_coding_transcript_exon_variant,,ENST00000488251,;GON4L,non_coding_transcript_exon_variant,,ENST00000471341,;GON4L,non_coding_transcript_exon_variant,,ENST00000468867,;	C	ENSG00000116580	ENST00000437809	Transcript	missense_variant	745	622	208	Q/E	Caa/Gaa	COSM1295198,COSM1295199,COSM1295197	.	.	-1	GON4L	HGNC	25973	protein_coding	YES	CCDS44242.1	ENSP00000396117	GON4L_HUMAN	Q9NXJ9_HUMAN	UPI0000603C24	.	tolerated_low_confidence(0.13)	benign(0.001)	3/32	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTGAGGAG	.	5	BLCA
OR10Z1	0	.	GRCh37	1	158576875	158576875	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.647T>C	p.Ile216Thr	p.I216T	ENST00000361284	1/1	71	39	31	107	107	0	OR10Z1,missense_variant,p.Ile216Thr,ENST00000361284,;SPTA1,downstream_gene_variant,,ENST00000368147,;SPTA1,downstream_gene_variant,,ENST00000485680,;	C	ENSG00000198967	ENST00000361284	Transcript	missense_variant	647	647	216	I/T	aTc/aCc	COSM1295290	.	.	1	OR10Z1	HGNC	14996	protein_coding	YES	CCDS30901.1	ENSP00000354707	O10Z1_HUMAN	.	UPI000004CA23	.	deleterious(0.01)	benign(0.006)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF49,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCATCTCCT	.	5	BLCA
EPHA2	0	.	GRCh37	1	16456035	16456035	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2719C>A	p.Arg907Ser	p.R907S	ENST00000358432	16/17	173	77	95	98	98	0	EPHA2,missense_variant,p.Arg907Ser,ENST00000358432,;EPHA2,downstream_gene_variant,,ENST00000462805,;	T	ENSG00000142627	ENST00000358432	Transcript	missense_variant	2874	2719	907	R/S	Cgc/Agc	COSM1295401	.	.	-1	EPHA2	HGNC	3386	protein_coding	YES	CCDS169.1	ENSP00000351209	EPHA2_HUMAN	Q96HF4_HUMAN,Q8IZL0_HUMAN	UPI00000731AB	.	tolerated(0.8)	probably_damaging(0.935)	16/17	.	PROSITE_profiles:PS50105,hmmpanther:PTHR24416:SF306,hmmpanther:PTHR24416,Pfam_domain:PF00536,Gene3D:1.10.150.50,PIRSF_domain:PIRSF000666,SMART_domains:SM00454,Superfamily_domains:SSF47769,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGCGGAAGG	.	5	BLCA
ADCY10	0	.	GRCh37	1	167814903	167814903	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2905G>A	p.Gly969Ser	p.G969S	ENST00000367851	21/33	59	41	18	47	47	0	ADCY10,missense_variant,p.Gly816Ser,ENST00000545172,;ADCY10,missense_variant,p.Gly969Ser,ENST00000367851,;ADCY10,missense_variant,p.Gly877Ser,ENST00000367848,;ADCY10,missense_variant,p.Gly200Ser,ENST00000485964,;	T	ENSG00000143199	ENST00000367851	Transcript	missense_variant	3090	2905	969	G/S	Ggc/Agc	COSM1295429	.	.	-1	ADCY10	HGNC	21285	protein_coding	YES	CCDS1265.1	ENSP00000356825	ADCYA_HUMAN	.	UPI0000204D00	.	tolerated(0.43)	benign(0.002)	21/33	.	hmmpanther:PTHR16305:SF23,hmmpanther:PTHR16305,PIRSF_domain:PIRSF011131	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGCCTCGGC	.	5	BLCA
ESPNP	0	.	GRCh37	1	17026395	17026395	+	RNA	SNP	C	C	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1291G>C	.	.	ENST00000270691	7/11	10	6	4	9	9	0	ESPNP,non_coding_transcript_exon_variant,,ENST00000492551,;ESPNP,non_coding_transcript_exon_variant,,ENST00000270691,;	G	ENSG00000268869	ENST00000270691	Transcript	non_coding_transcript_exon_variant	1291	.	.	.	.	.	.	.	-1	ESPNP	HGNC	23285	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	7/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTCTCGCCGG	.	2	BLCA
ABL2	0	.	GRCh37	1	179087760	179087782	+	Frame_Shift_Del	DEL	AGAAGAAATCTGAGTGGCCATGT	AGAAGAAATCTGAGTGGCCATGT	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	AGAAGAAATCTGAGTGGCCATGT	AGAAGAAATCTGAGTGGCCATGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1163_1185delACATGGCCACTCAGATTTCTTCT	p.Tyr388CysfsTer13	p.Y388Cfs*13	ENST00000502732	7/12	95	81	14	130	130	0	ABL2,frameshift_variant,p.Tyr367CysfsTer13,ENST00000507173,;ABL2,frameshift_variant,p.Tyr373CysfsTer13,ENST00000344730,;ABL2,frameshift_variant,p.Tyr373CysfsTer13,ENST00000512653,;ABL2,frameshift_variant,p.Tyr388CysfsTer13,ENST00000511413,;ABL2,frameshift_variant,p.Tyr352CysfsTer13,ENST00000504405,;ABL2,frameshift_variant,p.Tyr352CysfsTer13,ENST00000408940,;ABL2,frameshift_variant,p.Tyr367CysfsTer13,ENST00000392043,;ABL2,frameshift_variant,p.Tyr388CysfsTer13,ENST00000502732,;ABL2,frameshift_variant,p.Tyr367CysfsTer13,ENST00000367623,;ABL2,non_coding_transcript_exon_variant,,ENST00000504324,;ABL2,non_coding_transcript_exon_variant,,ENST00000509520,;	-	ENSG00000143322	ENST00000502732	Transcript	frameshift_variant	1367-1389	1163-1185	388-395	YMATQISS/X	tACATGGCCACTCAGATTTCTTCT/t	.	.	.	-1	ABL2	HGNC	77	protein_coding	YES	CCDS30947.1	ENSP00000427562	ABL2_HUMAN	.	UPI0000125140	.	.	.	7/12	.	Superfamily_domains:SSF56112,SMART_domains:SM00219,Gene3D:1.10.510.10,Pfam_domain:PF07714,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF87,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CATTGCAGAAGAAATCTGAGTGGCCATGTAGAGC	.	2	BLCA
PRG4	0	.	GRCh37	1	186280667	186280667	+	Silent	SNP	G	G	A	rs780627785	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3732G>A	p.%3D	p.V1244V	ENST00000445192	10/13	25	18	7	51	51	0	PRG4,synonymous_variant,p.%3D,ENST00000367486,;PRG4,synonymous_variant,p.%3D,ENST00000367483,;PRG4,synonymous_variant,p.%3D,ENST00000367485,;PRG4,synonymous_variant,p.%3D,ENST00000367484,;PRG4,synonymous_variant,p.%3D,ENST00000445192,;TPR,downstream_gene_variant,,ENST00000367478,;PRG4,downstream_gene_variant,,ENST00000367482,;RNU6-1240P,downstream_gene_variant,,ENST00000365155,;	A	ENSG00000116690	ENST00000445192	Transcript	synonymous_variant	3777	3732	1244	V	gtG/gtA	rs780627785,COSM1295601	.	.	1	PRG4	HGNC	9364	protein_coding	YES	CCDS1369.1	ENSP00000399679	PRG4_HUMAN	B3KQ20_HUMAN	UPI0000070EF9	.	.	.	10/13	.	hmmpanther:PTHR22917,hmmpanther:PTHR22917:SF1,Gene3D:2.110.10.10,Superfamily_domains:SSF50923	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGTGGCAGC	.	5	BLCA
CRB1	0	.	GRCh37	1	197390711	197390711	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1753G>C	p.Asp585His	p.D585H	ENST00000367400	6/12	48	28	20	72	72	0	CRB1,missense_variant,p.Asp585His,ENST00000538660,;CRB1,missense_variant,p.Asp66His,ENST00000544212,;CRB1,missense_variant,p.Asp473His,ENST00000367399,;CRB1,missense_variant,p.Asp516His,ENST00000535699,;CRB1,missense_variant,p.Asp585His,ENST00000367400,;CRB1,5_prime_UTR_variant,,ENST00000367397,;CRB1,intron_variant,,ENST00000543483,;CRB1,downstream_gene_variant,,ENST00000476483,;CRB1,upstream_gene_variant,,ENST00000480086,;CRB1,missense_variant,p.Asp585His,ENST00000484075,;	C	ENSG00000134376	ENST00000367400	Transcript	missense_variant	1888	1753	585	D/H	Gac/Cac	COSM1295654	.	.	1	CRB1	HGNC	2343	protein_coding	YES	CCDS1390.1	ENSP00000356370	CRUM1_HUMAN	B7Z824_HUMAN	UPI0000073345	.	tolerated(0.06)	possibly_damaging(0.777)	6/12	.	PROSITE_profiles:PS50025,hmmpanther:PTHR24049,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGACGACTCC	.	5	BLCA
SYT2	0	.	GRCh37	1	202569525	202569525	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879G>A	p.%3D	p.E293E	ENST00000367267	7/9	128	62	66	145	145	0	SYT2,synonymous_variant,p.%3D,ENST00000367267,;SYT2,synonymous_variant,p.%3D,ENST00000367268,;RP11-569A11.1,upstream_gene_variant,,ENST00000428573,;	T	ENSG00000143858	ENST00000367267	Transcript	synonymous_variant	1072	879	293	E	gaG/gaA	COSM1295709	.	.	-1	SYT2	HGNC	11510	protein_coding	YES	CCDS1427.1	ENSP00000356236	SYT2_HUMAN	.	UPI000006E8FC	.	.	.	7/9	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,Pfam_domain:PF00168,hmmpanther:PTHR10024:SF208,hmmpanther:PTHR10024,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAGCCTCCAG	.	5	BLCA
CYB5R1	0	.	GRCh37	1	202935955	202935955	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.87G>A	p.%3D	p.L29L	ENST00000367249	2/9	49	40	9	34	34	0	CYB5R1,synonymous_variant,p.%3D,ENST00000367249,;CYB5R1,upstream_gene_variant,,ENST00000446185,;CYB5R1,non_coding_transcript_exon_variant,,ENST00000473599,;CYB5R1,non_coding_transcript_exon_variant,,ENST00000478009,;CYB5R1,non_coding_transcript_exon_variant,,ENST00000482572,;CYB5R1,upstream_gene_variant,,ENST00000483915,;CYB5R1,upstream_gene_variant,,ENST00000497655,;	T	ENSG00000159348	ENST00000367249	Transcript	synonymous_variant	162	87	29	L	ttG/ttA	COSM1295715	.	.	-1	CYB5R1	HGNC	13397	protein_coding	YES	CCDS1431.1	ENSP00000356218	NB5R1_HUMAN	.	UPI0000037787	.	.	.	2/9	.	hmmpanther:PTHR19370,hmmpanther:PTHR19370:SF74,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGAACCAAGTA	.	2	BLCA
REN	0	.	GRCh37	1	204124152	204124152	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1213G>A	p.Ala405Thr	p.A405T	ENST00000272190	10/10	104	81	22	70	70	0	REN,missense_variant,p.Ala405Thr,ENST00000272190,;REN,missense_variant,p.Ala402Thr,ENST00000367195,;ETNK2,upstream_gene_variant,,ENST00000367199,;ETNK2,upstream_gene_variant,,ENST00000429525,;ETNK2,upstream_gene_variant,,ENST00000367201,;ETNK2,upstream_gene_variant,,ENST00000367202,;	T	ENSG00000143839	ENST00000272190	Transcript	missense_variant	1242	1213	405	A/T	Gcc/Acc	COSM1295733	.	.	-1	REN	HGNC	9958	protein_coding	YES	CCDS30981.1	ENSP00000272190	RENI_HUMAN	Q9UQK5_HUMAN	UPI000000091F	.	deleterious(0)	probably_damaging(0.999)	10/10	.	hmmpanther:PTHR13683:SF77,hmmpanther:PTHR13683,Superfamily_domains:SSF50630	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGGCCAAGG	.	5	BLCA
LRRN2	0	.	GRCh37	1	204587882	204587882	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239C>T	p.%3D	p.F413F	ENST00000367175	1/1	93	72	21	34	34	0	LRRN2,synonymous_variant,p.%3D,ENST00000367177,;LRRN2,synonymous_variant,p.%3D,ENST00000367176,;LRRN2,synonymous_variant,p.%3D,ENST00000367175,;RP11-430C7.4,downstream_gene_variant,,ENST00000453895,;LRRN2,downstream_gene_variant,,ENST00000496057,;	A	ENSG00000170382	ENST00000367175	Transcript	synonymous_variant	3452	1239	413	F	ttC/ttT	COSM1295742	.	.	-1	LRRN2	HGNC	16914	protein_coding	YES	CCDS1448.1	ENSP00000356143	LRRN2_HUMAN	B3KM66_HUMAN	UPI000013E8AC	.	.	.	1/1	.	hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF9,SMART_domains:SM00082	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCGGAAGGG	.	5	BLCA
CR1	0	.	GRCh37	1	207679368	207679368	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241C>G	p.Pro81Ala	p.P81A	ENST00000367049	2/47	64	55	8	110	110	0	CR1,missense_variant,p.Pro81Ala,ENST00000367051,;CR1,missense_variant,p.Pro81Ala,ENST00000400960,;CR1,missense_variant,p.Pro81Ala,ENST00000367052,;CR1,missense_variant,p.Pro81Ala,ENST00000367049,;CR1,missense_variant,p.Pro81Ala,ENST00000534202,;CR1,missense_variant,p.Pro57Ala,ENST00000529814,;CR1,missense_variant,p.Pro81Ala,ENST00000367053,;CR1,non_coding_transcript_exon_variant,,ENST00000367050,;CR1,non_coding_transcript_exon_variant,,ENST00000434033,;CR1,non_coding_transcript_exon_variant,,ENST00000436595,;CR1,non_coding_transcript_exon_variant,,ENST00000450439,;CR1,non_coding_transcript_exon_variant,,ENST00000530487,;	G	ENSG00000203710	ENST00000367049	Transcript	missense_variant	241	241	81	P/A	Ccg/Gcg	.	.	.	1	CR1	HGNC	2334	protein_coding	YES	CCDS44308.1	ENSP00000356016	.	Q9UQR7_HUMAN,Q9HB99_HUMAN,E9PDY4_HUMAN,B4DPT3_HUMAN	UPI000040E8CF	.	tolerated(0.75)	benign(0.11)	2/47	.	PROSITE_profiles:PS50923,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGACCGTTT	.	5	BLCA
CR1	0	.	GRCh37	1	207679369	207679369	+	Missense_Mutation	SNP	C	C	A	rs748011435	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.242C>A	p.Pro81Gln	p.P81Q	ENST00000367049	2/47	64	54	9	108	108	0	CR1,missense_variant,p.Pro81Gln,ENST00000367051,;CR1,missense_variant,p.Pro81Gln,ENST00000400960,;CR1,missense_variant,p.Pro81Gln,ENST00000367052,;CR1,missense_variant,p.Pro81Gln,ENST00000367049,;CR1,missense_variant,p.Pro81Gln,ENST00000534202,;CR1,missense_variant,p.Pro57Gln,ENST00000529814,;CR1,missense_variant,p.Pro81Gln,ENST00000367053,;CR1,non_coding_transcript_exon_variant,,ENST00000367050,;CR1,non_coding_transcript_exon_variant,,ENST00000434033,;CR1,non_coding_transcript_exon_variant,,ENST00000436595,;CR1,non_coding_transcript_exon_variant,,ENST00000450439,;CR1,non_coding_transcript_exon_variant,,ENST00000530487,;	A	ENSG00000203710	ENST00000367049	Transcript	missense_variant	242	242	81	P/Q	cCg/cAg	rs748011435	.	.	1	CR1	HGNC	2334	protein_coding	YES	CCDS44308.1	ENSP00000356016	.	Q9UQR7_HUMAN,Q9HB99_HUMAN,E9PDY4_HUMAN,B4DPT3_HUMAN	UPI000040E8CF	.	tolerated(0.57)	benign(0.187)	2/47	.	PROSITE_profiles:PS50923,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGACCGTTTT	byFrequency	4	BLCA
CD46	0	.	GRCh37	1	207930506	207930506	+	Missense_Mutation	SNP	G	G	A	rs761000846	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.245G>A	p.Arg82Gln	p.R82Q	ENST00000322875	2/13	82	44	38	108	108	0	CD46,missense_variant,p.Arg82Gln,ENST00000360212,;CD46,missense_variant,p.Arg82Gln,ENST00000441839,;CD46,missense_variant,p.Arg82Gln,ENST00000322918,;CD46,missense_variant,p.Arg82Gln,ENST00000358170,;CD46,missense_variant,p.Arg82Gln,ENST00000354848,;CD46,missense_variant,p.Arg82Gln,ENST00000480003,;CD46,missense_variant,p.Arg82Gln,ENST00000367042,;CD46,missense_variant,p.Arg82Gln,ENST00000357714,;CD46,missense_variant,p.Arg82Gln,ENST00000361067,;CD46,missense_variant,p.Arg82Gln,ENST00000367041,;CD46,missense_variant,p.Arg82Gln,ENST00000322875,;CD46,intron_variant,,ENST00000367047,;CD46,non_coding_transcript_exon_variant,,ENST00000493796,;CD46,non_coding_transcript_exon_variant,,ENST00000469535,;CD46,upstream_gene_variant,,ENST00000464082,;	A	ENSG00000117335	ENST00000322875	Transcript	missense_variant	401	245	82	R/Q	cGg/cAg	rs761000846,COSM1295809	.	.	1	CD46	HGNC	6953	protein_coding	YES	CCDS1482.1	ENSP00000313875	MCP_HUMAN	Q06C42_HUMAN	UPI000015FF6E	.	tolerated(0.73)	benign(0.005)	2/13	.	Superfamily_domains:SSF57535,SMART_domains:SM00032,PIRSF_domain:PIRSF037971,Gene3D:2.10.70.10,Pfam_domain:PF00084,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF50,PROSITE_profiles:PS50923	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATCGGAATC	byFrequency	5	BLCA
FLVCR1	0	.	GRCh37	1	213032442	213032442	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648C>T	p.%3D	p.F216F	ENST00000366971	1/10	118	70	47	76	75	0	FLVCR1,synonymous_variant,p.%3D,ENST00000419102,;FLVCR1,synonymous_variant,p.%3D,ENST00000366971,;FLVCR1-AS1,upstream_gene_variant,,ENST00000424044,;FLVCR1-AS1,upstream_gene_variant,,ENST00000426161,;FLVCR1-AS1,upstream_gene_variant,,ENST00000356684,;FLVCR1,upstream_gene_variant,,ENST00000579295,;RP11-348H3.5,upstream_gene_variant,,ENST00000422630,;	T	ENSG00000162769	ENST00000366971	Transcript	synonymous_variant	846	648	216	F	ttC/ttT	COSM1295849	.	.	1	FLVCR1	HGNC	24682	protein_coding	YES	CCDS1510.1	ENSP00000355938	FLVC1_HUMAN	.	UPI000006D3BB	.	.	.	1/10	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF103473,Gene3D:1.20.1250.20,Pfam_domain:PF07690,hmmpanther:PTHR10924:SF2,hmmpanther:PTHR10924,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTCATCCT	.	5	BLCA
CDC42BPA	0	.	GRCh37	1	227259910	227259910	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2826G>A	p.%3D	p.K942K	ENST00000366769	20/36	33	22	10	53	53	0	CDC42BPA,synonymous_variant,p.%3D,ENST00000441725,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366767,;CDC42BPA,synonymous_variant,p.%3D,ENST00000442054,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366769,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366765,;CDC42BPA,synonymous_variant,p.%3D,ENST00000448940,;CDC42BPA,synonymous_variant,p.%3D,ENST00000334218,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366764,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366766,;CDC42BPA,synonymous_variant,p.%3D,ENST00000535525,;CDC42BPA,splice_region_variant,,ENST00000488131,;	T	ENSG00000143776	ENST00000366769	Transcript	synonymous_variant	4118	2826	942	K	aaG/aaA	COSM1295938,COSM1295937,COSM1295936	.	.	-1	CDC42BPA	HGNC	1737	protein_coding	YES	CCDS1558.1	ENSP00000355731	MRCKA_HUMAN	Q9NYF6_HUMAN	UPI000019097D	.	.	.	20/36	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF31	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACCCTTTTC	.	5	BLCA
MLK4	0	.	GRCh37	1	233512183	233512183	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1834C>A	p.Pro612Thr	p.P612T	ENST00000366624	8/10	22	18	4	30	30	0	MLK4,missense_variant,p.Pro612Thr,ENST00000366624,;MLK4,missense_variant,p.Pro58Thr,ENST00000366622,;MLK4,downstream_gene_variant,,ENST00000366623,;	A	ENSG00000143674	ENST00000366624	Transcript	missense_variant	2095	1834	612	P/T	Cct/Act	COSM1295998	.	.	1	MLK4	Uniprot_gn	.	protein_coding	YES	CCDS1598.1	ENSP00000355583	M3KL4_HUMAN	.	UPI000013D922	.	deleterious(0.04)	probably_damaging(0.986)	8/10	.	PIRSF_domain:PIRSF000556	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGACCTCTC	.	5	BLCA
MAP3K6	0	.	GRCh37	1	27683217	27683233	+	Frame_Shift_Del	DEL	GTGAGACCGCCTCCTTC	GTGAGACCGCCTCCTTC	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	GTGAGACCGCCTCCTTC	GTGAGACCGCCTCCTTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3372_3388delGAAGGAGGCGGTCTCAC	p.Glu1124AspfsTer8	p.E1124Dfs*8	ENST00000493901	26/30	69	57	12	50	50	0	MAP3K6,frameshift_variant,p.Glu1116AspfsTer8,ENST00000374040,;MAP3K6,frameshift_variant,p.Glu1124AspfsTer8,ENST00000357582,;MAP3K6,frameshift_variant,p.Glu1124AspfsTer8,ENST00000493901,;MAP3K6,intron_variant,,ENST00000472410,;MAP3K6,upstream_gene_variant,,ENST00000486046,;SYTL1,downstream_gene_variant,,ENST00000543823,;SYTL1,downstream_gene_variant,,ENST00000318074,;SYTL1,downstream_gene_variant,,ENST00000490170,;MAP3K6,non_coding_transcript_exon_variant,,ENST00000470890,;MAP3K6,non_coding_transcript_exon_variant,,ENST00000476509,;SYTL1,downstream_gene_variant,,ENST00000475199,;SYTL1,downstream_gene_variant,,ENST00000483926,;MAP3K6,downstream_gene_variant,,ENST00000495230,;	-	ENSG00000142733	ENST00000493901	Transcript	frameshift_variant	3612-3628	3372-3388	1124-1130	EKEAVSP/DX	gaGAAGGAGGCGGTCTCACcg/gacg	.	.	.	-1	MAP3K6	HGNC	6858	protein_coding	YES	CCDS299.1	ENSP00000419591	M3K6_HUMAN	Q32MQ5_HUMAN	UPI0000205587	.	.	.	26/30	.	hmmpanther:PTHR11584,hmmpanther:PTHR11584:SF371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACCTCGGTGAGACCGCCTCCTTCTCCAC	.	3	BLCA
WASF2	0	.	GRCh37	1	27745578	27745578	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.142G>A	p.Glu48Lys	p.E48K	ENST00000430629	3/9	50	40	9	41	41	0	WASF2,missense_variant,p.Glu48Lys,ENST00000430629,;WASF2,missense_variant,p.Glu48Lys,ENST00000536657,;	T	ENSG00000158195	ENST00000430629	Transcript	missense_variant	358	142	48	E/K	Gag/Aag	COSM1296248	.	.	-1	WASF2	HGNC	12733	protein_coding	YES	CCDS304.1	ENSP00000396211	WASF2_HUMAN	Q8NBU0_HUMAN,B4E3J5_HUMAN	UPI0000000D74	.	deleterious(0)	unknown(0)	3/9	.	hmmpanther:PTHR12902:SF6,hmmpanther:PTHR12902	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCTGCAT	.	5	BLCA
STX12	0	.	GRCh37	1	28099877	28099877	+	Missense_Mutation	SNP	G	G	C	rs748201099	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59G>C	p.Arg20Pro	p.R20P	ENST00000373943	1/9	81	41	40	36	36	0	STX12,missense_variant,p.Arg20Pro,ENST00000440806,;STX12,missense_variant,p.Arg20Pro,ENST00000373943,;RP3-426I6.5,upstream_gene_variant,,ENST00000602607,;STX12,non_coding_transcript_exon_variant,,ENST00000468761,;	C	ENSG00000117758	ENST00000373943	Transcript	missense_variant	184	59	20	R/P	cGg/cCg	rs748201099,COSM1296255	.	.	1	STX12	HGNC	11430	protein_coding	YES	CCDS310.1	ENSP00000363054	STX12_HUMAN	Q6LEU0_HUMAN,B4DSZ1_HUMAN,B0AZT9_HUMAN	UPI000000DB92	.	deleterious(0.02)	possibly_damaging(0.699)	1/9	.	hmmpanther:PTHR19957,hmmpanther:PTHR19957:SF88,Gene3D:1.20.58.70,SMART_domains:SM00503,Superfamily_domains:SSF47661	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCCGGGACT	.	5	BLCA
EPB41	0	.	GRCh37	1	29314319	29314319	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370G>A	p.Glu124Lys	p.E124K	ENST00000343067	2/21	58	44	14	104	104	0	EPB41,missense_variant,p.Glu124Lys,ENST00000356093,;EPB41,missense_variant,p.Glu124Lys,ENST00000373798,;EPB41,missense_variant,p.Glu124Lys,ENST00000347529,;EPB41,missense_variant,p.Glu124Lys,ENST00000398863,;EPB41,missense_variant,p.Glu124Lys,ENST00000373797,;EPB41,missense_variant,p.Glu124Lys,ENST00000343067,;EPB41,5_prime_UTR_variant,,ENST00000373800,;EPB41,5_prime_UTR_variant,,ENST00000349460,;Y_RNA,downstream_gene_variant,,ENST00000383977,;EPB41,non_coding_transcript_exon_variant,,ENST00000482464,;	A	ENSG00000159023	ENST00000343067	Transcript	missense_variant	497	370	124	E/K	Gaa/Aaa	COSM908008,COSM1296269	.	.	1	EPB41	HGNC	3377	protein_coding	YES	CCDS53288.1	ENSP00000345259	41_HUMAN	.	UPI000014177D	.	tolerated(0.08)	benign(0.297)	2/21	.	PIRSF_domain:PIRSF002304	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATGAAGAG	.	5	BLCA
CLSPN	0	.	GRCh37	1	36235553	36235553	+	5'Flank	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000318121	.	40	31	9	24	24	0	CLSPN,5_prime_UTR_variant,,ENST00000251195,;CLSPN,upstream_gene_variant,,ENST00000318121,;CLSPN,upstream_gene_variant,,ENST00000520551,;CLSPN,upstream_gene_variant,,ENST00000373220,;	T	ENSG00000092853	ENST00000318121	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	24	-1	CLSPN	HGNC	19715	protein_coding	YES	CCDS396.1	ENSP00000312995	CLSPN_HUMAN	.	UPI0000161087	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCCAGCC	.	5	BLCA
AGO1	0	.	GRCh37	1	36367599	36367599	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1191C>A	p.%3D	p.I397I	ENST00000373204	10/19	113	72	41	92	92	0	AGO1,synonymous_variant,p.%3D,ENST00000373204,;AGO1,synonymous_variant,p.%3D,ENST00000373206,;	A	ENSG00000092847	ENST00000373204	Transcript	synonymous_variant	1404	1191	397	I	atC/atA	COSM1296357	.	.	1	AGO1	HGNC	3262	protein_coding	YES	CCDS398.1	ENSP00000362300	AGO1_HUMAN	Q5TA58_HUMAN	UPI000012D07D	.	.	.	10/19	.	hmmpanther:PTHR22891,hmmpanther:PTHR22891:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGATCAAAGT	.	5	BLCA
LRRC47	0	.	GRCh37	1	3697775	3697775	+	Silent	SNP	G	G	A	rs774557849	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1629C>T	p.%3D	p.D543D	ENST00000378251	7/7	167	118	49	125	125	0	LRRC47,synonymous_variant,p.%3D,ENST00000378251,;RP1-286D6.5,upstream_gene_variant,,ENST00000607459,;RN7SL574P,upstream_gene_variant,,ENST00000581512,;LRRC47,non_coding_transcript_exon_variant,,ENST00000462356,;LRRC47,downstream_gene_variant,,ENST00000479239,;	A	ENSG00000130764	ENST00000378251	Transcript	synonymous_variant	1657	1629	543	D	gaC/gaT	rs774557849,COSM1296369	.	.	-1	LRRC47	HGNC	29207	protein_coding	YES	CCDS51.1	ENSP00000367498	LRC47_HUMAN	.	UPI000006DEDC	.	.	.	7/7	.	hmmpanther:PTHR10947:SF2,hmmpanther:PTHR10947	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCGTCCTT	byFrequency	5	BLCA
KIAA0754	0	.	GRCh37	1	39876847	39876847	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502C>G	p.His168Asp	p.H168D	ENST00000530275	1/1	23	15	7	38	38	0	KIAA0754,missense_variant,p.His168Asp,ENST00000530275,;MACF1,intron_variant,,ENST00000372925,;MACF1,intron_variant,,ENST00000361689,;MACF1,intron_variant,,ENST00000289893,;MACF1,intron_variant,,ENST00000564288,;MACF1,intron_variant,,ENST00000539005,;MACF1,intron_variant,,ENST00000372915,;MACF1,intron_variant,,ENST00000317713,;MACF1,intron_variant,,ENST00000567887,;MACF1,intron_variant,,ENST00000545844,;MACF1,upstream_gene_variant,,ENST00000482035,;	G	ENSG00000255103	ENST00000530275	Transcript	missense_variant	697	502	168	H/D	Cat/Gat	.	.	.	1	KIAA0754	HGNC	29111	protein_coding	YES	.	ENSP00000431179	K0754_HUMAN	.	UPI0000DD78B2	.	.	benign(0.402)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTGCATGTT	.	5	BLCA
SLFNL1	0	.	GRCh37	1	41486281	41486281	+	Missense_Mutation	SNP	C	C	T	rs773424950	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52G>A	p.Glu18Lys	p.E18K	ENST00000359345	1/4	150	74	76	97	97	0	SLFNL1,missense_variant,p.Glu18Lys,ENST00000302946,;SLFNL1,missense_variant,p.Glu18Lys,ENST00000397197,;SLFNL1,missense_variant,p.Glu18Lys,ENST00000372613,;SLFNL1,missense_variant,p.Glu18Lys,ENST00000439569,;SLFNL1,missense_variant,p.Glu18Lys,ENST00000372611,;SLFNL1,missense_variant,p.Glu18Lys,ENST00000359345,;	T	ENSG00000171790	ENST00000359345	Transcript	missense_variant	2629	52	18	E/K	Gag/Aag	rs773424950,COSM1296435	.	.	-1	SLFNL1	HGNC	26313	protein_coding	YES	CCDS460.1	ENSP00000352299	SLNL1_HUMAN	.	UPI000013E83F	.	deleterious_low_confidence(0.03)	benign(0.017)	1/4	.	hmmpanther:PTHR12155:SF19,hmmpanther:PTHR12155	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCCATGA	.	5	BLCA
SLC6A9	0	.	GRCh37	1	44490005	44490005	+	5'UTR	SNP	C	C	G	rs111605558	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-56G>C	.	.	ENST00000372306	2/12	193	135	58	109	109	0	SLC6A9,5_prime_UTR_variant,,ENST00000372306,;SLC6A9,5_prime_UTR_variant,,ENST00000466926,;SLC6A9,5_prime_UTR_variant,,ENST00000475075,;SLC6A9,5_prime_UTR_variant,,ENST00000372310,;SLC6A9,5_prime_UTR_variant,,ENST00000537678,;SLC6A9,non_coding_transcript_exon_variant,,ENST00000492434,;SLC6A9,non_coding_transcript_exon_variant,,ENST00000489764,;	G	ENSG00000196517	ENST00000372306	Transcript	5_prime_UTR_variant	85	.	.	.	.	rs111605558	.	.	-1	SLC6A9	HGNC	11056	protein_coding	.	.	ENSP00000361380	.	J3KPA5_HUMAN	UPI0001F7803E	.	.	.	2/12	.	.	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0007	T:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTCCAGCGC	byFrequency|byCluster|by1000G	5	BLCA
TMEM53	0	.	GRCh37	1	45120323	45120323	+	Missense_Mutation	SNP	C	C	T	rs769914658	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742G>A	p.Val248Met	p.V248M	ENST00000372237	3/3	284	153	131	163	163	0	TMEM53,missense_variant,p.Val218Met,ENST00000372235,;TMEM53,missense_variant,p.Val248Met,ENST00000372237,;TMEM53,intron_variant,,ENST00000372244,;TMEM53,intron_variant,,ENST00000372242,;TMEM53,intron_variant,,ENST00000372243,;RNF220,downstream_gene_variant,,ENST00000440132,;RNF220,downstream_gene_variant,,ENST00000361799,;RNF220,downstream_gene_variant,,ENST00000335497,;RNF220,downstream_gene_variant,,ENST00000443020,;RNF220,downstream_gene_variant,,ENST00000355387,;RNF220,downstream_gene_variant,,ENST00000372247,;TMEM53,downstream_gene_variant,,ENST00000420706,;TMEM53,non_coding_transcript_exon_variant,,ENST00000468117,;TMEM53,non_coding_transcript_exon_variant,,ENST00000476724,;TMEM53,intron_variant,,ENST00000495630,;RNF220,downstream_gene_variant,,ENST00000474394,;RNF220,downstream_gene_variant,,ENST00000474956,;RNF220,downstream_gene_variant,,ENST00000484745,;RNF220,downstream_gene_variant,,ENST00000480686,;RNF220,downstream_gene_variant,,ENST00000475378,;RNF220,downstream_gene_variant,,ENST00000474064,;	T	ENSG00000126106	ENST00000372237	Transcript	missense_variant	906	742	248	V/M	Gtg/Atg	rs769914658,COSM426341	.	.	-1	TMEM53	HGNC	26186	protein_coding	YES	CCDS511.1	ENSP00000361311	TMM53_HUMAN	B4DI10_HUMAN	UPI000013E157	.	tolerated(0.12)	benign(0.104)	3/3	.	hmmpanther:PTHR12265:SF0,hmmpanther:PTHR12265,Gene3D:3.40.50.1820,Pfam_domain:PF05705,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACACGAAAT	byFrequency	5	BLCA
NASP	0	.	GRCh37	1	46073334	46073334	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.751C>A	p.Gln251Lys	p.Q251K	ENST00000350030	6/15	20	16	3	27	27	0	NASP,missense_variant,p.Gln253Lys,ENST00000402363,;NASP,missense_variant,p.Gln251Lys,ENST00000350030,;NASP,missense_variant,p.Gln187Lys,ENST00000537798,;NASP,missense_variant,p.Gln214Lys,ENST00000470768,;NASP,intron_variant,,ENST00000351223,;NASP,intron_variant,,ENST00000528238,;NASP,intron_variant,,ENST00000372052,;NASP,intron_variant,,ENST00000525515,;NASP,intron_variant,,ENST00000437901,;NASP,downstream_gene_variant,,ENST00000527470,;NASP,non_coding_transcript_exon_variant,,ENST00000534101,;NASP,upstream_gene_variant,,ENST00000530073,;NASP,3_prime_UTR_variant,,ENST00000453748,;NASP,intron_variant,,ENST00000437362,;NASP,intron_variant,,ENST00000527359,;NASP,downstream_gene_variant,,ENST00000529333,;NASP,downstream_gene_variant,,ENST00000531532,;NASP,downstream_gene_variant,,ENST00000528084,;NASP,upstream_gene_variant,,ENST00000481782,;NASP,downstream_gene_variant,,ENST00000464190,;	A	ENSG00000132780	ENST00000350030	Transcript	missense_variant	838	751	251	Q/K	Caa/Aaa	COSM1296499	.	.	1	NASP	HGNC	7644	protein_coding	YES	CCDS524.1	ENSP00000255120	NASP_HUMAN	Q9P1N1_HUMAN,B4DS57_HUMAN	UPI000012FDA0	.	deleterious_low_confidence(0.02)	benign(0.075)	6/15	.	hmmpanther:PTHR15081:SF1,hmmpanther:PTHR15081	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTCCAAGAA	.	4	BLCA
MAST2	0	.	GRCh37	1	46497147	46497147	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3077C>A	p.Ala1026Asp	p.A1026D	ENST00000361297	24/29	146	111	35	73	73	0	MAST2,missense_variant,p.Ala1026Asp,ENST00000361297,;MAST2,missense_variant,p.Ala956Asp,ENST00000372009,;MAST2,downstream_gene_variant,,ENST00000372008,;MAST2,upstream_gene_variant,,ENST00000492813,;MAST2,downstream_gene_variant,,ENST00000477968,;	A	ENSG00000086015	ENST00000361297	Transcript	missense_variant	3360	3077	1026	A/D	gCc/gAc	COSM1296505	.	.	1	MAST2	HGNC	19035	protein_coding	YES	CCDS41326.1	ENSP00000354671	MAST2_HUMAN	Q9NT11_HUMAN	UPI0000458AEB	.	deleterious_low_confidence(0.01)	probably_damaging(0.998)	24/29	.	hmmpanther:PTHR24356:SF136,hmmpanther:PTHR24356	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGGCCCGCC	.	5	BLCA
MAST2	0	.	GRCh37	1	46501315	46501315	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4974G>C	p.Trp1658Cys	p.W1658C	ENST00000361297	29/29	77	55	21	79	79	0	MAST2,missense_variant,p.Trp1658Cys,ENST00000361297,;MAST2,missense_variant,p.Trp1468Cys,ENST00000372009,;PIK3R3,downstream_gene_variant,,ENST00000372006,;PIK3R3,downstream_gene_variant,,ENST00000420542,;PIK3R3,downstream_gene_variant,,ENST00000262741,;PIK3R3,downstream_gene_variant,,ENST00000340332,;MAST2,downstream_gene_variant,,ENST00000372008,;PIK3R3,downstream_gene_variant,,ENST00000354242,;MAST2,downstream_gene_variant,,ENST00000492813,;	C	ENSG00000086015	ENST00000361297	Transcript	missense_variant	5257	4974	1658	W/C	tgG/tgC	COSM1296506	.	.	1	MAST2	HGNC	19035	protein_coding	YES	CCDS41326.1	ENSP00000354671	MAST2_HUMAN	Q9NT11_HUMAN	UPI0000458AEB	.	deleterious_low_confidence(0.03)	benign(0.018)	29/29	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGAAATC	.	5	BLCA
UQCRH	0	.	GRCh37	1	46769446	46769446	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8T>C	p.Leu3Pro	p.L3P	ENST00000311672	1/4	95	70	25	86	86	0	UQCRH,missense_variant,p.Leu3Pro,ENST00000311672,;LRRC41,upstream_gene_variant,,ENST00000343304,;UQCRH,non_coding_transcript_exon_variant,,ENST00000489056,;UQCRH,non_coding_transcript_exon_variant,,ENST00000496387,;UQCRH,non_coding_transcript_exon_variant,,ENST00000486951,;LRRC41,upstream_gene_variant,,ENST00000469150,;LRRC41,upstream_gene_variant,,ENST00000498402,;LRRC41,upstream_gene_variant,,ENST00000472710,;	C	ENSG00000173660	ENST00000311672	Transcript	missense_variant	144	8	3	L/P	cTg/cCg	COSM1296520	.	.	1	UQCRH	HGNC	12590	protein_coding	YES	CCDS30704.1	ENSP00000309565	QCR6_HUMAN	.	UPI0000137A5B	.	deleterious(0)	probably_damaging(0.94)	1/4	.	hmmpanther:PTHR15336	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGACTGGAGG	.	5	BLCA
ATPAF1	0	.	GRCh37	1	47110887	47110887	+	Silent	SNP	A	A	G	rs760317927	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.699T>C	p.%3D	p.F233F	ENST00000576409	7/9	76	60	16	101	101	0	ATPAF1,synonymous_variant,p.%3D,ENST00000534216,;ATPAF1,synonymous_variant,p.%3D,ENST00000542495,;ATPAF1,synonymous_variant,p.%3D,ENST00000532925,;ATPAF1,synonymous_variant,p.%3D,ENST00000371937,;ATPAF1,synonymous_variant,p.%3D,ENST00000492233,;ATPAF1,synonymous_variant,p.%3D,ENST00000576409,;ATPAF1,intron_variant,,ENST00000574428,;ATPAF1,intron_variant,,ENST00000329231,;ATPAF1,intron_variant,,ENST00000526821,;ATPAF1,3_prime_UTR_variant,,ENST00000529214,;	G	ENSG00000123472	ENST00000576409	Transcript	synonymous_variant	762	699	233	F	ttT/ttC	rs760317927,COSM1296522	.	.	-1	ATPAF1	HGNC	18803	protein_coding	YES	CCDS541.2	ENSP00000460964	.	I3L448_HUMAN	UPI000222BB4E	.	.	.	7/9	.	Pfam_domain:PF06644,hmmpanther:PTHR13126	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTACAAAAAA	.	5	BLCA
RAB3B	0	.	GRCh37	1	52442691	52442691	+	Silent	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99T>G	p.%3D	p.V33V	ENST00000371655	2/5	120	43	77	122	121	0	RAB3B,synonymous_variant,p.%3D,ENST00000371655,;RNA5SP48,downstream_gene_variant,,ENST00000363969,;RP11-91A18.1,upstream_gene_variant,,ENST00000422551,;	C	ENSG00000169213	ENST00000371655	Transcript	synonymous_variant	312	99	33	V	gtT/gtG	COSM1296561	.	.	-1	RAB3B	HGNC	9778	protein_coding	YES	CCDS560.1	ENSP00000360718	RAB3B_HUMAN	.	UPI000007097C	.	.	.	2/5	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073,hmmpanther:PTHR24073:SF396,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,Pfam_domain:PF00071,SMART_domains:SM00176,SMART_domains:SM00173,SMART_domains:SM00174,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCCAACACT	.	5	BLCA
CC2D1B	0	.	GRCh37	1	52821951	52821951	+	Missense_Mutation	SNP	C	C	G	rs759148224	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1979G>C	p.Arg660Pro	p.R660P	ENST00000371586	18/24	182	140	41	108	108	0	CC2D1B,missense_variant,p.Arg35Pro,ENST00000438831,;CC2D1B,missense_variant,p.Arg660Pro,ENST00000371586,;CC2D1B,missense_variant,p.Arg441Pro,ENST00000438021,;CC2D1B,missense_variant,p.Arg474Pro,ENST00000450942,;CC2D1B,missense_variant,p.Arg654Pro,ENST00000284376,;RP11-155O18.6,downstream_gene_variant,,ENST00000606527,;CC2D1B,non_coding_transcript_exon_variant,,ENST00000494789,;CC2D1B,non_coding_transcript_exon_variant,,ENST00000460261,;CC2D1B,upstream_gene_variant,,ENST00000470844,;CC2D1B,non_coding_transcript_exon_variant,,ENST00000485966,;CC2D1B,non_coding_transcript_exon_variant,,ENST00000491136,;CC2D1B,upstream_gene_variant,,ENST00000460370,;CC2D1B,upstream_gene_variant,,ENST00000492426,;	G	ENSG00000154222	ENST00000371586	Transcript	missense_variant	2118	1979	660	R/P	cGc/cCc	rs759148224,COSM1296568	.	.	-1	CC2D1B	HGNC	29386	protein_coding	YES	CCDS30714.1	ENSP00000360642	C2D1B_HUMAN	.	UPI00001609B7	.	deleterious(0.02)	possibly_damaging(0.774)	18/24	.	hmmpanther:PTHR13076:SF5,hmmpanther:PTHR13076	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTGCGGTCC	byFrequency	5	BLCA
PODN	0	.	GRCh37	1	53542872	53542872	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>G	p.Leu246Val	p.L246V	ENST00000312553	6/11	309	237	72	164	164	0	PODN,missense_variant,p.Leu246Val,ENST00000312553,;PODN,missense_variant,p.Leu227Val,ENST00000371500,;PODN,intron_variant,,ENST00000395871,;RP11-334A14.5,intron_variant,,ENST00000447867,;PODN,upstream_gene_variant,,ENST00000490650,;PODN,upstream_gene_variant,,ENST00000471285,;PODN,downstream_gene_variant,,ENST00000471210,;HIGD1AP11,upstream_gene_variant,,ENST00000438361,;	G	ENSG00000174348	ENST00000312553	Transcript	missense_variant	743	736	246	L/V	Ctg/Gtg	COSM1296575	.	.	1	PODN	HGNC	23174	protein_coding	YES	CCDS573.1	ENSP00000308315	PODN_HUMAN	.	UPI000034ECE9	.	deleterious(0.02)	probably_damaging(0.97)	6/11	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369:SF12,hmmpanther:PTHR24369,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTACCTGCAC	.	5	BLCA
YIPF1	0	.	GRCh37	1	54354635	54354635	+	5'UTR	SNP	T	T	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-25A>T	.	.	ENST00000072644	3/11	41	18	23	46	46	0	YIPF1,synonymous_variant,p.%3D,ENST00000539954,;YIPF1,5_prime_UTR_variant,,ENST00000072644,;YIPF1,5_prime_UTR_variant,,ENST00000412288,;YIPF1,intron_variant,,ENST00000371399,;DIO1,upstream_gene_variant,,ENST00000529589,;YIPF1,non_coding_transcript_exon_variant,,ENST00000472983,;YIPF1,non_coding_transcript_exon_variant,,ENST00000469457,;YIPF1,non_coding_transcript_exon_variant,,ENST00000465897,;YIPF1,intron_variant,,ENST00000480151,;DIO1,upstream_gene_variant,,ENST00000534069,;YIPF1,5_prime_UTR_variant,,ENST00000464950,;	A	ENSG00000058799	ENST00000072644	Transcript	5_prime_UTR_variant	313	.	.	.	.	.	.	.	-1	YIPF1	HGNC	25231	protein_coding	YES	CCDS584.1	ENSP00000072644	YIPF1_HUMAN	.	UPI000006FF6D	.	.	.	3/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATTATGAG	.	5	BLCA
L1TD1	0	.	GRCh37	1	62677049	62677049	+	3'UTR	SNP	C	C	A	rs770777715	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5C>A	.	.	ENST00000498273	4/4	59	44	15	96	96	0	L1TD1,3_prime_UTR_variant,,ENST00000498273,;Y_RNA,upstream_gene_variant,,ENST00000363304,;RP5-1155K23.4,upstream_gene_variant,,ENST00000450606,;	A	ENSG00000240563	ENST00000498273	Transcript	3_prime_UTR_variant	2898	.	.	.	.	rs770777715	.	.	1	L1TD1	HGNC	25595	protein_coding	YES	CCDS619.1	ENSP00000419901	LITD1_HUMAN	.	UPI000013E18E	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACGCCAGGG	.	5	BLCA
GPR153	0	.	GRCh37	1	6315004	6315004	+	5'UTR	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-39G>A	.	.	ENST00000377893	2/6	23	18	5	15	15	0	GPR153,5_prime_UTR_variant,,ENST00000377893,;	T	ENSG00000158292	ENST00000377893	Transcript	5_prime_UTR_variant	222	.	.	.	.	.	.	.	-1	GPR153	HGNC	23618	protein_coding	YES	CCDS64.1	ENSP00000367125	GP153_HUMAN	.	UPI000040E9D7	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTCCTTGGA	.	2	BLCA
EFCAB7	0	.	GRCh37	1	64021038	64021038	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066T>C	p.Trp356Arg	p.W356R	ENST00000371088	9/14	68	25	43	93	93	0	EFCAB7,missense_variant,p.Trp356Arg,ENST00000371088,;EFCAB7,non_coding_transcript_exon_variant,,ENST00000461039,;ITGB3BP,intron_variant,,ENST00000478138,;EFCAB7,intron_variant,,ENST00000460678,;EFCAB7,downstream_gene_variant,,ENST00000496956,;	C	ENSG00000203965	ENST00000371088	Transcript	missense_variant	1312	1066	356	W/R	Tgg/Cgg	COSM1296634	.	.	1	EFCAB7	HGNC	29379	protein_coding	YES	CCDS30737.1	ENSP00000360129	EFCB7_HUMAN	.	UPI000006EAB2	.	deleterious(0)	probably_damaging(0.99)	9/14	.	hmmpanther:PTHR23050,hmmpanther:PTHR23050:SF138	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGATGGACT	.	5	BLCA
FPGT-TNNI3K	0	.	GRCh37	1	74835181	74835181	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1921G>A	p.Ala641Thr	p.A641T	ENST00000557284	18/27	99	68	30	157	157	0	FPGT-TNNI3K,missense_variant,p.Ala628Thr,ENST00000370895,;TNNI3K,missense_variant,p.Ala51Thr,ENST00000534020,;TNNI3K,missense_variant,p.Ala74Thr,ENST00000526236,;TNNI3K,missense_variant,p.Ala527Thr,ENST00000326637,;FPGT-TNNI3K,missense_variant,p.Ala628Thr,ENST00000370899,;TNNI3K,missense_variant,p.Ala628Thr,ENST00000370891,;FPGT-TNNI3K,missense_variant,p.Ala641Thr,ENST00000557284,;TNNI3K,missense_variant,p.Ala47Thr,ENST00000525480,;FPGT-TNNI3K,downstream_gene_variant,,ENST00000534632,;RP11-439H8.4,intron_variant,,ENST00000415549,;TNNI3K,non_coding_transcript_exon_variant,,ENST00000497284,;	A	ENSG00000259030	ENST00000557284	Transcript	missense_variant	1926	1921	641	A/T	Gct/Act	COSM1296688	.	.	1	FPGT-TNNI3K	HGNC	42952	protein_coding	YES	CCDS44161.2	ENSP00000450895	.	A6NHC7_HUMAN	UPI0001EECC26	.	tolerated(0.06)	probably_damaging(0.999)	18/27	.	Superfamily_domains:SSF56112,Gene3D:1.10.510.10,Pfam_domain:PF07714,hmmpanther:PTHR23257:SF63,hmmpanther:PTHR23257,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGTGCTTGC	.	5	BLCA
ZZZ3	0	.	GRCh37	1	78050334	78050334	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1512G>A	p.%3D	p.Q504Q	ENST00000370801	6/15	25	18	7	40	40	0	ZZZ3,synonymous_variant,p.%3D,ENST00000370801,;ZZZ3,synonymous_variant,p.%3D,ENST00000370798,;ZZZ3,non_coding_transcript_exon_variant,,ENST00000476275,;ZZZ3,non_coding_transcript_exon_variant,,ENST00000474746,;ZZZ3,non_coding_transcript_exon_variant,,ENST00000476195,;ZZZ3,non_coding_transcript_exon_variant,,ENST00000481346,;	T	ENSG00000036549	ENST00000370801	Transcript	synonymous_variant	1988	1512	504	Q	caG/caA	COSM1296707	.	.	-1	ZZZ3	HGNC	24523	protein_coding	YES	CCDS677.1	ENSP00000359837	ZZZ3_HUMAN	C9JUA4_HUMAN,C9J283_HUMAN	UPI0000074256	.	.	.	6/15	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22705	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCTGATA	.	5	BLCA
COL24A1	0	.	GRCh37	1	86590911	86590911	+	Missense_Mutation	SNP	G	G	A	rs549295917	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1108C>T	p.Leu370Phe	p.L370F	ENST00000370571	3/60	50	22	28	101	101	0	COL24A1,missense_variant,p.Leu370Phe,ENST00000436319,;COL24A1,missense_variant,p.Leu370Phe,ENST00000370571,;COL24A1,downstream_gene_variant,,ENST00000496682,;COL24A1,missense_variant,p.Leu370Phe,ENST00000426639,;	A	ENSG00000171502	ENST00000370571	Transcript	missense_variant	1475	1108	370	L/F	Ctc/Ttc	rs549295917,COSM1296747	.	.	-1	COL24A1	HGNC	20821	protein_coding	YES	CCDS41353.1	ENSP00000359603	COOA1_HUMAN	E9PNK8_HUMAN	UPI000013E81F	.	tolerated(0.48)	benign(0.004)	3/60	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF360	A:0.0004	A:0	A:0	.	A:0	A:0	A:0.002	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGAGAGAGC	byFrequency|by1000G	5	BLCA
SEL1L2	0	.	GRCh37	20	13856714	13856714	+	Silent	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1074C>G	p.%3D	p.A358A	ENST00000378072	12/18	142	115	27	202	202	0	SEL1L2,synonymous_variant,p.%3D,ENST00000284951,;SEL1L2,synonymous_variant,p.%3D,ENST00000378072,;SEL1L2,non_coding_transcript_exon_variant,,ENST00000486903,;SEL1L2,3_prime_UTR_variant,,ENST00000423870,;	C	ENSG00000101251	ENST00000378072	Transcript	synonymous_variant	1156	1074	358	A	gcC/gcG	COSM1307156	.	.	-1	SEL1L2	HGNC	15897	protein_coding	YES	CCDS59443.1	ENSP00000367312	SE1L2_HUMAN	C9JNX3_HUMAN	UPI000003BCBF	.	.	.	12/18	.	hmmpanther:PTHR11102:SF53,hmmpanther:PTHR11102,Pfam_domain:PF08238,Gene3D:1.25.40.10,SMART_domains:SM00671,Superfamily_domains:SSF81901	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAGGCAGT	.	5	BLCA
BPIFB4	0	.	GRCh37	20	31688261	31688261	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1599A>G	p.%3D	p.T533T	ENST00000375483	12/16	50	37	12	66	66	0	BPIFB4,synonymous_variant,p.%3D,ENST00000375483,;BPIFB4,upstream_gene_variant,,ENST00000494121,;	G	ENSG00000186191	ENST00000375483	Transcript	synonymous_variant	1599	1599	533	T	acA/acG	COSM1307280	.	.	1	BPIFB4	HGNC	16179	protein_coding	YES	CCDS13213.2	ENSP00000364632	BPIB4_HUMAN	.	UPI0000206190	.	.	.	12/16	.	hmmpanther:PTHR10504:SF78,hmmpanther:PTHR10504,Pfam_domain:PF02886,Gene3D:1ewfA02,SMART_domains:SM00329,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCACAGAAGG	.	5	BLCA
EDEM2	0	.	GRCh37	20	33735053	33735053	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9C>T	p.%3D	p.F3F	ENST00000374492	1/11	101	42	59	71	71	0	EDEM2,synonymous_variant,p.%3D,ENST00000374491,;EDEM2,synonymous_variant,p.%3D,ENST00000374492,;EDEM2,5_prime_UTR_variant,,ENST00000542871,;EDEM2,intron_variant,,ENST00000540582,;EDEM2,upstream_gene_variant,,ENST00000541621,;	A	ENSG00000088298	ENST00000374492	Transcript	synonymous_variant	115	9	3	F	ttC/ttT	COSM1307317	.	.	-1	EDEM2	HGNC	15877	protein_coding	YES	CCDS13247.1	ENSP00000363616	EDEM2_HUMAN	B4E1F4_HUMAN	UPI00001285D9	.	.	.	1/11	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR11742,hmmpanther:PTHR11742:SF26	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCGGAAAGG	.	5	BLCA
LPIN3	0	.	GRCh37	20	39981435	39981435	+	Intron	SNP	T	T	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458-3T>C	.	.	ENST00000373257	.	88	61	27	103	103	0	LPIN3,splice_region_variant,,ENST00000373257,;LPIN3,splice_region_variant,,ENST00000445975,;LPIN3,upstream_gene_variant,,ENST00000496565,;	C	ENSG00000132793	ENST00000373257	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	LPIN3	HGNC	14451	protein_coding	YES	CCDS33469.1	ENSP00000362354	LPIN3_HUMAN	.	UPI0000470AE3	.	.	.	.	10/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTCTAGGCA	.	4	BLCA
CHD6	0	.	GRCh37	20	40049605	40049605	+	Silent	SNP	T	T	A	rs770784467	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5670A>T	p.%3D	p.V1890V	ENST00000373233	31/37	48	23	25	51	51	0	CHD6,synonymous_variant,p.%3D,ENST00000373233,;	A	ENSG00000124177	ENST00000373233	Transcript	synonymous_variant	5848	5670	1890	V	gtA/gtT	rs770784467,COSM1307403,COSM1483639	.	.	-1	CHD6	HGNC	19057	protein_coding	YES	CCDS13317.1	ENSP00000362330	CHD6_HUMAN	.	UPI0000168656	.	.	.	31/37	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAATACCTC	.	5	BLCA
KCNK15	0	.	GRCh37	20	43374640	43374640	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89A>T	p.Glu30Val	p.E30V	ENST00000372861	1/2	24	20	4	17	17	0	KCNK15,missense_variant,p.Glu30Val,ENST00000372861,;RP11-445H22.4,non_coding_transcript_exon_variant,,ENST00000427303,;RP11-445H22.4,upstream_gene_variant,,ENST00000445420,;	T	ENSG00000124249	ENST00000372861	Transcript	missense_variant	220	89	30	E/V	gAg/gTg	COSM1307438	.	.	1	KCNK15	HGNC	13814	protein_coding	YES	CCDS13337.1	ENSP00000361952	KCNKF_HUMAN	.	UPI000003EA1C	.	deleterious(0)	probably_damaging(0.978)	1/2	.	hmmpanther:PTHR11003:SF18,hmmpanther:PTHR11003,Gene3D:1.10.287.70,PIRSF_domain:PIRSF038061,Prints_domain:PR01690,Prints_domain:PR01095	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCGAGTCCG	.	4	BLCA
STK4	0	.	GRCh37	20	43607147	43607147	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180A>T	p.Gln60His	p.Q60H	ENST00000372806	3/11	43	31	12	48	48	0	STK4,missense_variant,p.Gln60His,ENST00000499879,;STK4,missense_variant,p.Gln60His,ENST00000372806,;STK4,missense_variant,p.Gln60His,ENST00000372801,;STK4,missense_variant,p.Gln60His,ENST00000396731,;STK4,non_coding_transcript_exon_variant,,ENST00000474717,;STK4,downstream_gene_variant,,ENST00000487587,;STK4,downstream_gene_variant,,ENST00000480745,;	T	ENSG00000101109	ENST00000372806	Transcript	missense_variant	275	180	60	Q/H	caA/caT	COSM1307443,COSM1307444	.	.	1	STK4	HGNC	11408	protein_coding	YES	CCDS13341.1	ENSP00000361892	STK4_HUMAN	Q9BS84_HUMAN	UPI00001360FF	.	deleterious(0.02)	probably_damaging(0.927)	3/11	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF275,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCAAGTTCC	.	5	BLCA
TAF4	0	.	GRCh37	20	60581776	60581776	+	Silent	SNP	G	G	A	rs370500200	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2013C>T	p.%3D	p.S671S	ENST00000252996	7/15	242	119	123	136	136	0	TAF4,synonymous_variant,p.%3D,ENST00000252996,;TAF4,synonymous_variant,p.%3D,ENST00000488539,;TAF4,downstream_gene_variant,,ENST00000609045,;TAF4,non_coding_transcript_exon_variant,,ENST00000609041,;TAF4,non_coding_transcript_exon_variant,,ENST00000436129,;TAF4,downstream_gene_variant,,ENST00000486599,;	A	ENSG00000130699	ENST00000252996	Transcript	synonymous_variant	2013	2013	671	S	tcC/tcT	rs370500200,COSM1307582	.	.	-1	TAF4	HGNC	11537	protein_coding	YES	CCDS33500.1	ENSP00000252996	TAF4_HUMAN	.	UPI000020630A	.	.	.	7/15	.	PROSITE_profiles:PS51119,hmmpanther:PTHR15138,hmmpanther:PTHR15138:SF13,Pfam_domain:PF07531,SMART_domains:SM00549,Superfamily_domains:SSF158553	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGCGGAGTC	byCluster|by1000G	5	BLCA
PLCB1	0	.	GRCh37	20	8862423	8862423	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3578T>G	p.Val1193Gly	p.V1193G	ENST00000338037	32/32	151	82	69	208	208	0	PLCB1,missense_variant,p.Val1193Gly,ENST00000338037,;PLCB1,3_prime_UTR_variant,,ENST00000378641,;PLCB1,intron_variant,,ENST00000487210,;	G	ENSG00000182621	ENST00000338037	Transcript	missense_variant	3605	3578	1193	V/G	gTg/gGg	COSM1307661	.	.	1	PLCB1	HGNC	15917	protein_coding	YES	CCDS13102.1	ENSP00000338185	PLCB1_HUMAN	.	UPI0000131A8F	.	tolerated_low_confidence(0.36)	benign(0)	32/32	.	hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAGTGAACC	.	5	BLCA
MRPS6	0	.	GRCh37	21	35497670	35497670	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.75G>A	p.%3D	p.T25T	ENST00000399312	2/3	112	55	57	110	110	0	MRPS6,synonymous_variant,p.%3D,ENST00000399312,;MRPS6,non_coding_transcript_exon_variant,,ENST00000482679,;MRPS6,non_coding_transcript_exon_variant,,ENST00000477091,;MRPS6,non_coding_transcript_exon_variant,,ENST00000488492,;AP000320.7,non_coding_transcript_exon_variant,,ENST00000362077,;MRPS6,non_coding_transcript_exon_variant,,ENST00000483977,;	A	ENSG00000243927	ENST00000399312	Transcript	synonymous_variant	253	75	25	T	acG/acA	COSM1307758	.	.	1	MRPS6	HGNC	14051	protein_coding	YES	CCDS33548.1	ENSP00000382250	RT06_HUMAN	.	UPI000015D3E4	.	.	.	2/3	.	Superfamily_domains:SSF54995,Pfam_domain:PF01250,TIGRFAM_domain:TIGR00166,Gene3D:3.30.70.60,hmmpanther:PTHR21011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTACGATAGA	.	5	BLCA
RIPPLY3	0	.	GRCh37	21	38390265	38390265	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331T>G	p.Phe111Val	p.F111V	ENST00000329553	4/4	48	34	13	40	40	0	RIPPLY3,missense_variant,p.Phe111Val,ENST00000329553,;RIPPLY3,non_coding_transcript_exon_variant,,ENST00000490393,;RIPPLY3,non_coding_transcript_exon_variant,,ENST00000485272,;	G	ENSG00000183145	ENST00000329553	Transcript	missense_variant	541	331	111	F/V	Ttc/Gtc	COSM1307778	.	.	1	RIPPLY3	HGNC	3047	protein_coding	YES	CCDS13648.1	ENSP00000331734	DSCR6_HUMAN	.	UPI000012990F	.	deleterious(0)	possibly_damaging(0.859)	4/4	.	Pfam_domain:PF14998,hmmpanther:PTHR16770,hmmpanther:PTHR16770:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGACTTCTAC	.	5	BLCA
TFF1	0	.	GRCh37	21	43786556	43786556	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49A>G	p.Met17Val	p.M17V	ENST00000291527	1/3	79	55	23	45	45	0	TFF1,missense_variant,p.Met17Val,ENST00000291527,;	C	ENSG00000160182	ENST00000291527	Transcript	missense_variant	148	49	17	M/V	Atg/Gtg	COSM1307836	.	.	-1	TFF1	HGNC	11755	protein_coding	YES	CCDS13685.1	ENSP00000291527	TFF1_HUMAN	.	UPI000002B788	.	tolerated(1)	benign(0)	1/3	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR13826:SF15,hmmpanther:PTHR13826	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCATGGACA	.	5	BLCA
ICOSLG	0	.	GRCh37	21	45656811	45656811	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345G>T	p.%3D	p.V115V	ENST00000407780	3/7	167	101	65	176	175	0	ICOSLG,synonymous_variant,p.%3D,ENST00000407780,;ICOSLG,synonymous_variant,p.%3D,ENST00000344330,;ICOSLG,synonymous_variant,p.%3D,ENST00000400379,;ICOSLG,intron_variant,,ENST00000400377,;	A	ENSG00000160223	ENST00000407780	Transcript	synonymous_variant	473	345	115	V	gtG/gtT	COSM1307865	.	.	-1	ICOSLG	HGNC	17087	protein_coding	YES	CCDS42952.1	ENSP00000384432	ICOSL_HUMAN	B7Z1W8_HUMAN,A0N0L8_HUMAN	UPI0000049DCB	.	.	.	3/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24100,hmmpanther:PTHR24100:SF55,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCAACACCAG	.	5	BLCA
MCM3AP	0	.	GRCh37	21	47700482	47700482	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1451C>T	p.Ala484Val	p.A484V	ENST00000397708	4/29	54	33	20	75	75	0	MCM3AP,missense_variant,p.Ala484Val,ENST00000291688,;MCM3AP,missense_variant,p.Ala484Val,ENST00000397708,;MCM3AP,downstream_gene_variant,,ENST00000426537,;MCM3AP,downstream_gene_variant,,ENST00000495475,;	A	ENSG00000160294	ENST00000397708	Transcript	missense_variant	1706	1451	484	A/V	gCa/gTa	COSM1307907	.	.	-1	MCM3AP	HGNC	6946	protein_coding	YES	CCDS13734.1	ENSP00000380820	GANP_HUMAN	N0GVG8_HUMAN,B3KWZ4_HUMAN	UPI000012ED4A	.	deleterious(0.01)	probably_damaging(0.997)	4/29	.	hmmpanther:PTHR12436:SF18,hmmpanther:PTHR12436,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGCAGAT	.	5	BLCA
DGCR8	0	.	GRCh37	22	20074109	20074109	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.623A>G	p.Asn208Ser	p.N208S	ENST00000351989	2/14	74	20	54	149	149	0	DGCR8,missense_variant,p.Asn208Ser,ENST00000351989,;DGCR8,missense_variant,p.Asn208Ser,ENST00000383024,;DGCR8,missense_variant,p.Asn208Ser,ENST00000407755,;DGCR8,downstream_gene_variant,,ENST00000457069,;MIR1306,downstream_gene_variant,,ENST00000408439,;MIR3618,downstream_gene_variant,,ENST00000580330,;DGCR8,non_coding_transcript_exon_variant,,ENST00000495826,;DGCR8,upstream_gene_variant,,ENST00000498171,;	G	ENSG00000128191	ENST00000351989	Transcript	missense_variant	1052	623	208	N/S	aAt/aGt	COSM1307965	.	.	1	DGCR8	HGNC	2847	protein_coding	YES	CCDS13773.1	ENSP00000263209	DGCR8_HUMAN	C9JSD5_HUMAN	UPI0000129225	.	tolerated(0.06)	benign(0.077)	2/14	.	hmmpanther:PTHR13482,hmmpanther:PTHR13482:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACAATTTGG	.	5	BLCA
FOXRED2	0	.	GRCh37	22	36902136	36902136	+	Missense_Mutation	SNP	T	T	C	rs754775727	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334A>G	p.Arg112Gly	p.R112G	ENST00000397224	2/9	177	64	113	115	115	0	FOXRED2,missense_variant,p.Arg112Gly,ENST00000397224,;FOXRED2,missense_variant,p.Arg112Gly,ENST00000397223,;FOXRED2,missense_variant,p.Arg112Gly,ENST00000216187,;EIF3D,downstream_gene_variant,,ENST00000216190,;EIF3D,downstream_gene_variant,,ENST00000541106,;EIF3D,downstream_gene_variant,,ENST00000405442,;FOXRED2,downstream_gene_variant,,ENST00000423980,;EIF3D,downstream_gene_variant,,ENST00000478547,;EIF3D,downstream_gene_variant,,ENST00000462641,;	C	ENSG00000100350	ENST00000397224	Transcript	missense_variant	428	334	112	R/G	Aga/Gga	rs754775727,COSM1308135	.	.	-1	FOXRED2	HGNC	26264	protein_coding	YES	CCDS13929.1	ENSP00000380401	FXRD2_HUMAN	B0QYA2_HUMAN,A8MUR8_HUMAN	UPI00000744FA	.	deleterious(0.03)	benign(0.013)	2/9	.	hmmpanther:PTHR23023,hmmpanther:PTHR23023:SF53,Pfam_domain:PF13738,Gene3D:3.50.50.60,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTCTGAAGA	byFrequency	5	BLCA
CSF2RB	0	.	GRCh37	22	37318275	37318275	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.26C>A	p.Ser9Tyr	p.S9Y	ENST00000403662	2/14	32	7	25	13	13	0	CSF2RB,missense_variant,p.Ser9Tyr,ENST00000406230,;CSF2RB,missense_variant,p.Ser9Tyr,ENST00000403662,;CSF2RB,missense_variant,p.Ser9Tyr,ENST00000262825,;CSF2RB,upstream_gene_variant,,ENST00000536485,;CSF2RB,upstream_gene_variant,,ENST00000421539,;	A	ENSG00000100368	ENST00000403662	Transcript	missense_variant	248	26	9	S/Y	tCc/tAc	COSM1308138	.	.	1	CSF2RB	HGNC	2436	protein_coding	YES	CCDS13936.1	ENSP00000384053	IL3RB_HUMAN	B0QY07_HUMAN	UPI0000128C9F	.	tolerated(1)	benign(0.001)	2/14	.	Cleavage_site_(Signalp):SignalP-noTM,PIRSF_domain:PIRSF001956,hmmpanther:PTHR23037,hmmpanther:PTHR23037:SF22	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCCATGG	.	5	BLCA
ARFGAP3	0	.	GRCh37	22	43218291	43218291	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.797C>G	p.Ser266Cys	p.S266C	ENST00000263245	9/16	34	13	21	52	52	0	ARFGAP3,missense_variant,p.Ser113Cys,ENST00000453516,;ARFGAP3,missense_variant,p.Ser222Cys,ENST00000437119,;ARFGAP3,missense_variant,p.Ser266Cys,ENST00000263245,;ARFGAP3,missense_variant,p.Ser194Cys,ENST00000429508,;ARFGAP3,downstream_gene_variant,,ENST00000454099,;	C	ENSG00000242247	ENST00000263245	Transcript	missense_variant	1017	797	266	S/C	tCt/tGt	COSM1308238	.	.	-1	ARFGAP3	HGNC	661	protein_coding	YES	CCDS14042.1	ENSP00000263245	ARFG3_HUMAN	.	UPI0000125DF8	.	deleterious(0.03)	benign(0.353)	9/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23180:SF208,hmmpanther:PTHR23180	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTAGATACC	.	5	BLCA
AFF3	0	.	GRCh37	2	100343579	100343579	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1126G>A	p.Ala376Thr	p.A376T	ENST00000356421	10/24	25	14	11	24	24	0	AFF3,missense_variant,p.Ala376Thr,ENST00000409579,;AFF3,missense_variant,p.Ala376Thr,ENST00000356421,;AFF3,missense_variant,p.Ala351Thr,ENST00000317233,;AFF3,missense_variant,p.Ala351Thr,ENST00000409236,;AFF3,missense_variant,p.Ala132Thr,ENST00000430789,;	T	ENSG00000144218	ENST00000356421	Transcript	missense_variant	1270	1126	376	A/T	Gca/Aca	COSM1305457	.	.	-1	AFF3	HGNC	6473	protein_coding	YES	CCDS33258.1	ENSP00000348793	AFF3_HUMAN	.	UPI000041098C	.	tolerated(0.33)	benign(0.007)	10/24	.	hmmpanther:PTHR10528,hmmpanther:PTHR10528:SF16,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGCATCAC	.	5	BLCA
IL18RAP	0	.	GRCh37	2	103068609	103068609	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1768A>G	p.Thr590Ala	p.T590A	ENST00000264260	12/12	50	38	12	79	79	0	IL18RAP,missense_variant,p.Thr448Ala,ENST00000409369,;IL18RAP,missense_variant,p.Thr590Ala,ENST00000264260,;	G	ENSG00000115607	ENST00000264260	Transcript	missense_variant	2357	1768	590	T/A	Act/Gct	COSM1305482	.	.	1	IL18RAP	HGNC	5989	protein_coding	YES	CCDS2061.1	ENSP00000264260	I18RA_HUMAN	Q3KPE8_HUMAN,C9JLE2_HUMAN	UPI0000071CAF	.	tolerated(0.81)	benign(0.003)	12/12	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACCACTGGG	.	5	BLCA
RGPD3	0	.	GRCh37	2	107073498	107073498	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334G>A	p.Gly112Arg	p.G112R	ENST00000409886	4/23	55	33	22	104	104	0	RGPD3,missense_variant,p.Gly112Arg,ENST00000409886,;RGPD3,missense_variant,p.Gly112Arg,ENST00000304514,;	T	ENSG00000153165	ENST00000409886	Transcript	missense_variant	422	334	112	G/R	Gga/Aga	COSM1305502,COSM1305501	.	.	-1	RGPD3	HGNC	32416	protein_coding	YES	CCDS46379.1	ENSP00000386588	RGPD3_HUMAN	I1Z9D1_HUMAN	UPI00006C049F	.	deleterious(0.05)	benign(0.063)	4/23	.	Superfamily_domains:SSF48452,Gene3D:1.25.40.10,hmmpanther:PTHR23138,hmmpanther:PTHR23138:SF86	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E115K|c.343G>A|3,BUFFER|p.E115K|c.343G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCCATCAG	.	5	BLCA
RANBP2	0	.	GRCh37	2	109380497	109380497	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3502G>T	p.Asp1168Tyr	p.D1168Y	ENST00000283195	20/29	78	69	8	112	112	0	RANBP2,missense_variant,p.Asp1168Tyr,ENST00000283195,;	T	ENSG00000153201	ENST00000283195	Transcript	missense_variant	3628	3502	1168	D/Y	Gac/Tac	.	.	.	1	RANBP2	HGNC	9848	protein_coding	YES	CCDS2079.1	ENSP00000283195	RBP2_HUMAN	I1Z9D1_HUMAN	UPI0000207FB9	.	deleterious(0)	possibly_damaging(0.756)	20/29	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23138,hmmpanther:PTHR23138:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGATGACGGT	.	3	BLCA
GREB1	0	.	GRCh37	2	11758611	11758611	+	Missense_Mutation	SNP	C	C	T	rs71446422	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3610C>T	p.Leu1204Phe	p.L1204F	ENST00000381486	22/33	42	20	21	25	25	0	GREB1,missense_variant,p.Leu1204Phe,ENST00000234142,;GREB1,missense_variant,p.Leu202Phe,ENST00000396123,;GREB1,missense_variant,p.Leu1204Phe,ENST00000381486,;GREB1,downstream_gene_variant,,ENST00000472040,;	T	ENSG00000196208	ENST00000381486	Transcript	missense_variant	3910	3610	1204	L/F	Ctc/Ttc	rs71446422,COSM1305580	.	.	1	GREB1	HGNC	24885	protein_coding	YES	CCDS42655.1	ENSP00000370896	GREB1_HUMAN	.	UPI0000163937	.	tolerated(0.2)	possibly_damaging(0.724)	22/33	.	hmmpanther:PTHR15720,hmmpanther:PTHR15720:SF13	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAGCCTCAGG	.	5	BLCA
NCKAP5	0	.	GRCh37	2	133540952	133540952	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3432T>C	p.%3D	p.T1144T	ENST00000409261	14/20	69	54	14	88	88	0	NCKAP5,synonymous_variant,p.%3D,ENST00000409261,;NCKAP5,synonymous_variant,p.%3D,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,upstream_gene_variant,,ENST00000473859,;	G	ENSG00000176771	ENST00000409261	Transcript	synonymous_variant	3806	3432	1144	T	acT/acC	COSM1305646	.	.	-1	NCKAP5	HGNC	29847	protein_coding	YES	CCDS46418.1	ENSP00000387128	NCKP5_HUMAN	C9JYL7_HUMAN	UPI0000E07A3F	.	.	.	14/20	.	hmmpanther:PTHR21740:SF0,hmmpanther:PTHR21740	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCGAGTTTT	.	5	BLCA
R3HDM1	0	.	GRCh37	2	136409597	136409597	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1918C>T	p.Pro640Ser	p.P640S	ENST00000264160	17/26	74	37	37	84	84	0	R3HDM1,missense_variant,p.Pro364Ser,ENST00000429703,;R3HDM1,missense_variant,p.Pro512Ser,ENST00000409478,;R3HDM1,missense_variant,p.Pro640Ser,ENST00000264160,;R3HDM1,missense_variant,p.Pro585Ser,ENST00000410054,;R3HDM1,missense_variant,p.Pro641Ser,ENST00000409606,;R3HDM1,missense_variant,p.Pro511Ser,ENST00000329971,;R3HDM1,downstream_gene_variant,,ENST00000425804,;R3HDM1,downstream_gene_variant,,ENST00000441871,;RNU6-512P,downstream_gene_variant,,ENST00000364438,;R3HDM1,downstream_gene_variant,,ENST00000443537,;R3HDM1,downstream_gene_variant,,ENST00000487294,;	T	ENSG00000048991	ENST00000264160	Transcript	missense_variant	2288	1918	640	P/S	Cca/Tca	COSM1305652	.	.	1	R3HDM1	HGNC	9757	protein_coding	YES	CCDS2177.1	ENSP00000264160	R3HD1_HUMAN	Q53SQ1_HUMAN,Q4ZG59_HUMAN	UPI000007456C	.	tolerated(0.09)	benign(0.002)	17/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15672,hmmpanther:PTHR15672:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCACCACAG	.	5	BLCA
FAM84A	0	.	GRCh37	2	14774804	14774804	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.701C>T	p.Ala234Val	p.A234V	ENST00000295092	2/2	19	7	12	9	9	0	FAM84A,missense_variant,p.Ala234Val,ENST00000331243,;FAM84A,missense_variant,p.Ala234Val,ENST00000295092,;AC011897.1,upstream_gene_variant,,ENST00000581929,;AC011897.2,downstream_gene_variant,,ENST00000450715,;AC011897.2,downstream_gene_variant,,ENST00000418481,;FAM84A,upstream_gene_variant,,ENST00000464947,;FAM84A,upstream_gene_variant,,ENST00000497769,;	T	ENSG00000162981	ENST00000295092	Transcript	missense_variant	989	701	234	A/V	gCa/gTa	COSM1305681	.	.	1	FAM84A	HGNC	20743	protein_coding	YES	CCDS1684.1	ENSP00000295092	FA84A_HUMAN	.	UPI000013E203	.	tolerated(0.09)	benign(0.102)	2/2	.	hmmpanther:PTHR13943,hmmpanther:PTHR13943:SF38	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCGGCAGGCA	.	4	BLCA
ARL6IP6	0	.	GRCh37	2	153575447	153575447	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309G>A	p.%3D	p.R103R	ENST00000326446	1/4	67	36	30	57	57	0	ARL6IP6,synonymous_variant,p.%3D,ENST00000326446,;PRPF40A,upstream_gene_variant,,ENST00000410080,;PRPF40A,upstream_gene_variant,,ENST00000493468,;PRPF40A,upstream_gene_variant,,ENST00000545856,;PRPF40A,upstream_gene_variant,,ENST00000448428,;ARL6IP6,intron_variant,,ENST00000495469,;ARL6IP6,upstream_gene_variant,,ENST00000463690,;PRPF40A,upstream_gene_variant,,ENST00000486100,;ARL6IP6,synonymous_variant,p.%3D,ENST00000455875,;ARL6IP6,upstream_gene_variant,,ENST00000425034,;PRPF40A,upstream_gene_variant,,ENST00000450303,;PRPF40A,upstream_gene_variant,,ENST00000489741,;PRPF40A,upstream_gene_variant,,ENST00000354363,;	A	ENSG00000177917	ENST00000326446	Transcript	synonymous_variant	1020	309	103	R	cgG/cgA	COSM1305734	.	.	1	ARL6IP6	HGNC	24048	protein_coding	YES	CCDS2197.1	ENSP00000315357	AR6P6_HUMAN	.	UPI000006EA01	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCGGTGGCC	.	5	BLCA
PLA2R1	0	.	GRCh37	2	160876633	160876633	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1436T>C	p.Val479Ala	p.V479A	ENST00000283243	8/30	40	27	13	36	36	0	PLA2R1,missense_variant,p.Val479Ala,ENST00000283243,;PLA2R1,missense_variant,p.Val479Ala,ENST00000392771,;	G	ENSG00000153246	ENST00000283243	Transcript	missense_variant	1643	1436	479	V/A	gTc/gCc	COSM1305753	.	.	-1	PLA2R1	HGNC	9042	protein_coding	YES	CCDS33309.1	ENSP00000283243	PLA2R_HUMAN	.	UPI00001AEA9D	.	tolerated(0.15)	probably_damaging(0.999)	8/30	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22803:SF71,hmmpanther:PTHR22803,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGACACAC	.	5	BLCA
SCN2A	0	.	GRCh37	2	166231239	166231239	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4017T>G	p.Asn1339Lys	p.N1339K	ENST00000357398	22/27	36	21	15	74	74	0	SCN2A,missense_variant,p.Asn1339Lys,ENST00000283256,;SCN2A,missense_variant,p.Asn1339Lys,ENST00000375437,;SCN2A,missense_variant,p.Asn1339Lys,ENST00000375427,;SCN2A,missense_variant,p.Asn1339Lys,ENST00000357398,;SCN2A,non_coding_transcript_exon_variant,,ENST00000480032,;	G	ENSG00000136531	ENST00000357398	Transcript	missense_variant	4307	4017	1339	N/K	aaT/aaG	COSM1305783,COSM1305784	.	.	1	SCN2A	HGNC	10588	protein_coding	YES	CCDS33313.1	ENSP00000349973	SCN2A_HUMAN	F8T7W7_HUMAN	UPI000002A663	.	deleterious(0.03)	probably_damaging(0.999)	22/27	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037:SF133,hmmpanther:PTHR10037,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGAATGTACT	.	5	BLCA
SCN9A	0	.	GRCh37	2	167056069	167056069	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5047A>G	p.Ile1683Val	p.I1683V	ENST00000409672	27/27	159	119	39	185	184	0	SCN9A,missense_variant,p.Ile1683Val,ENST00000409672,;SCN9A,missense_variant,p.Ile1695Val,ENST00000375387,;SCN9A,missense_variant,p.Ile1694Val,ENST00000409435,;SCN9A,missense_variant,p.Ile1695Val,ENST00000303354,;AC010127.3,intron_variant,,ENST00000447809,;	C	ENSG00000169432	ENST00000409672	Transcript	missense_variant	5394	5047	1683	I/V	Att/Gtt	COSM1305809	.	.	-1	SCN9A	HGNC	10597	protein_coding	YES	CCDS46441.1	ENSP00000386306	SCN9A_HUMAN	Q53QP0_HUMAN	UPI0000140AC7	.	tolerated(0.07)	probably_damaging(0.954)	27/27	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF28,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTAATTTGGA	.	5	BLCA
XIRP2	0	.	GRCh37	2	168100155	168100155	+	Missense_Mutation	SNP	G	G	A	rs762622713	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2253G>A	p.Met751Ile	p.M751I	ENST00000409195	9/11	32	28	4	55	55	0	XIRP2,missense_variant,p.Met529Ile,ENST00000409273,;XIRP2,missense_variant,p.Met751Ile,ENST00000409195,;XIRP2,missense_variant,p.Met751Ile,ENST00000295237,;XIRP2,intron_variant,,ENST00000409605,;XIRP2,intron_variant,,ENST00000420519,;XIRP2,intron_variant,,ENST00000409756,;XIRP2,intron_variant,,ENST00000409043,;XIRP2,intron_variant,,ENST00000409728,;	A	ENSG00000163092	ENST00000409195	Transcript	missense_variant	2342	2253	751	M/I	atG/atA	rs762622713	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	benign(0.008)	9/11	.	hmmpanther:PTHR22591,hmmpanther:PTHR22591:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S748L|c.2243C>T|3	RADIA|MUTECT|MUSE|VARSCANS	CAAATGCTGGA	.	4	BLCA
XIRP2	0	.	GRCh37	2	168100156	168100156	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2254C>T	p.%3D	p.L752L	ENST00000409195	9/11	32	28	4	55	55	0	XIRP2,synonymous_variant,p.%3D,ENST00000409273,;XIRP2,synonymous_variant,p.%3D,ENST00000409195,;XIRP2,synonymous_variant,p.%3D,ENST00000295237,;XIRP2,intron_variant,,ENST00000409605,;XIRP2,intron_variant,,ENST00000420519,;XIRP2,intron_variant,,ENST00000409756,;XIRP2,intron_variant,,ENST00000409043,;XIRP2,intron_variant,,ENST00000409728,;	T	ENSG00000163092	ENST00000409195	Transcript	synonymous_variant	2343	2254	752	L	Ctg/Ttg	.	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	.	9/11	.	hmmpanther:PTHR22591,hmmpanther:PTHR22591:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S748L|c.2243C>T|3	RADIA|MUTECT|MUSE|VARSCANS	AAATGCTGGAA	.	4	BLCA
FASTKD1	0	.	GRCh37	2	170393745	170393745	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2180A>G	p.His727Arg	p.H727R	ENST00000453153	12/15	72	40	32	83	83	0	FASTKD1,missense_variant,p.His684Arg,ENST00000453929,;FASTKD1,missense_variant,p.His727Arg,ENST00000453153,;FASTKD1,intron_variant,,ENST00000495505,;FASTKD1,intron_variant,,ENST00000490590,;FASTKD1,non_coding_transcript_exon_variant,,ENST00000488516,;	C	ENSG00000138399	ENST00000453153	Transcript	missense_variant	2527	2180	727	H/R	cAc/cGc	.	.	.	-1	FASTKD1	HGNC	26150	protein_coding	YES	CCDS33318.1	ENSP00000400513	FAKD1_HUMAN	D3DPC4_HUMAN,C9JTP4_HUMAN,C9JMM4_HUMAN	UPI000050BC4D	.	deleterious(0.01)	possibly_damaging(0.906)	12/15	.	hmmpanther:PTHR21228:SF29,hmmpanther:PTHR21228,Pfam_domain:PF08368	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTGTGGTAA	.	5	BLCA
TTN	0	.	GRCh37	2	179472309	179472309	+	Silent	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.53106T>G	p.%3D	p.P17702P	ENST00000589042	277/363	203	152	51	288	288	0	TTN,synonymous_variant,p.%3D,ENST00000359218,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000342175,;TTN,synonymous_variant,p.%3D,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589234,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000419746,;TTN-AS1,downstream_gene_variant,,ENST00000586452,;	C	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	53331	53106	17702	P	ccT/ccG	COSM1306094,COSM1306093,COSM1306090,COSM1306092,COSM1306091	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	277/363	.	hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTAGGTAC	.	5	BLCA
ZC3H15	0	.	GRCh37	2	187371546	187371546	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1073A>G	p.Tyr358Cys	p.Y358C	ENST00000337859	9/10	52	39	13	77	77	0	ZC3H15,missense_variant,p.Tyr36Cys,ENST00000445547,;ZC3H15,missense_variant,p.Tyr358Cys,ENST00000337859,;ZC3H15,downstream_gene_variant,,ENST00000544130,;AC018867.2,upstream_gene_variant,,ENST00000595956,;ZC3H15,downstream_gene_variant,,ENST00000496289,;ZC3H15,downstream_gene_variant,,ENST00000468120,;ZC3H15,downstream_gene_variant,,ENST00000481101,;ZC3H15,non_coding_transcript_exon_variant,,ENST00000498757,;ZC3H15,downstream_gene_variant,,ENST00000421536,;	G	ENSG00000065548	ENST00000337859	Transcript	missense_variant	1300	1073	358	Y/C	tAt/tGt	COSM1306214	.	.	1	ZC3H15	HGNC	29528	protein_coding	YES	CCDS42791.1	ENSP00000338788	ZC3HF_HUMAN	.	UPI00000437CE	.	tolerated(0.17)	possibly_damaging(0.662)	9/10	.	hmmpanther:PTHR12681:SF3,hmmpanther:PTHR12681	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATATACTT	.	5	BLCA
ITGAV	0	.	GRCh37	2	187533614	187533614	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2559T>C	p.%3D	p.T853T	ENST00000261023	25/30	57	34	23	80	80	0	ITGAV,synonymous_variant,p.%3D,ENST00000261023,;ITGAV,synonymous_variant,p.%3D,ENST00000433736,;ITGAV,synonymous_variant,p.%3D,ENST00000374907,;ITGAV,synonymous_variant,p.%3D,ENST00000430709,;AC017101.10,intron_variant,,ENST00000453665,;ITGAV,non_coding_transcript_exon_variant,,ENST00000474571,;ITGAV,non_coding_transcript_exon_variant,,ENST00000496854,;ITGAV,non_coding_transcript_exon_variant,,ENST00000496477,;ITGAV,downstream_gene_variant,,ENST00000460641,;	C	ENSG00000138448	ENST00000261023	Transcript	synonymous_variant	2833	2559	853	T	acT/acC	COSM1306215	.	.	1	ITGAV	HGNC	6150	protein_coding	YES	CCDS2292.1	ENSP00000261023	ITAV_HUMAN	L7RXH0_HUMAN	UPI000013D12E	.	.	.	25/30	.	hmmpanther:PTHR23220:SF4,hmmpanther:PTHR23220,Gene3D:1jv2A04,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACTTCAGA	.	5	BLCA
C2orf88	0	.	GRCh37	2	191064920	191064920	+	3'UTR	SNP	T	T	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46T>C	.	.	ENST00000340623	2/2	20	8	12	19	19	0	C2orf88,3_prime_UTR_variant,,ENST00000409870,;C2orf88,3_prime_UTR_variant,,ENST00000443551,;C2orf88,3_prime_UTR_variant,,ENST00000396974,;C2orf88,3_prime_UTR_variant,,ENST00000340623,;HIBCH,intron_variant,,ENST00000399855,;HIBCH,downstream_gene_variant,,ENST00000359678,;HIBCH,downstream_gene_variant,,ENST00000392332,;C2orf88,downstream_gene_variant,,ENST00000450357,;C2orf88,downstream_gene_variant,,ENST00000409545,;HIBCH,downstream_gene_variant,,ENST00000410045,;HIBCH,downstream_gene_variant,,ENST00000486981,;C2orf88,downstream_gene_variant,,ENST00000490033,;	C	ENSG00000187699	ENST00000340623	Transcript	3_prime_UTR_variant	745	.	.	.	.	.	.	.	1	C2orf88	HGNC	28191	protein_coding	YES	CCDS42792.1	ENSP00000345107	SMAKA_HUMAN	H7BZ15_HUMAN,C9JS57_HUMAN	UPI000013D122	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAATAAATG	.	5	BLCA
MYO1B	0	.	GRCh37	2	192194756	192194756	+	Splice_Site	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346+1G>T	.	p.X116_splice	ENST00000392318	.	46	26	19	63	63	0	MYO1B,splice_donor_variant,,ENST00000392316,;MYO1B,splice_donor_variant,,ENST00000438652,;MYO1B,splice_donor_variant,,ENST00000339514,;MYO1B,splice_donor_variant,,ENST00000418908,;MYO1B,splice_donor_variant,,ENST00000304164,;MYO1B,splice_donor_variant,,ENST00000451437,;MYO1B,splice_donor_variant,,ENST00000392318,;MYO1B,splice_donor_variant,,ENST00000471904,;	T	ENSG00000128641	ENST00000392318	Transcript	splice_donor_variant	.	.	.	.	.	COSM1306244,COSM1306243	.	.	1	MYO1B	HGNC	7596	protein_coding	YES	CCDS46477.1	ENSP00000376132	MYO1B_HUMAN	Q14777_HUMAN,E7EQD9_HUMAN,C9K0I9_HUMAN,C9JYW1_HUMAN,C9JUP5_HUMAN,B0I1S9_HUMAN	UPI00001A9466	.	.	.	.	4/30	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGGTAAGG	.	5	BLCA
SLC39A10	0	.	GRCh37	2	196581642	196581642	+	Missense_Mutation	SNP	G	G	A	rs186318919	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1978G>A	p.Asp660Asn	p.D660N	ENST00000409086	7/10	91	75	16	106	106	0	SLC39A10,missense_variant,p.Asp660Asn,ENST00000409086,;SLC39A10,missense_variant,p.Asp210Asn,ENST00000541054,;SLC39A10,missense_variant,p.Asp660Asn,ENST00000359634,;SLC39A10,3_prime_UTR_variant,,ENST00000430412,;SLC39A10,non_coding_transcript_exon_variant,,ENST00000465851,;	A	ENSG00000196950	ENST00000409086	Transcript	missense_variant	2253	1978	660	D/N	Gat/Aat	rs186318919,COSM1014260,COSM1306249	.	.	1	SLC39A10	HGNC	20861	protein_coding	YES	CCDS33353.1	ENSP00000386766	S39AA_HUMAN	Q8NC35_HUMAN,E7EV45_HUMAN,E7ENT5_HUMAN,C9J0F5_HUMAN,B4DGU0_HUMAN	UPI000004A043	.	deleterious(0.02)	possibly_damaging(0.879)	7/10	.	hmmpanther:PTHR12191:SF7,hmmpanther:PTHR12191,Pfam_domain:PF02535	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCCGATCTG	byFrequency|byCluster|by1000G	5	BLCA
ALS2	0	.	GRCh37	2	202593268	202593268	+	Silent	SNP	G	G	A	rs778057766	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2808C>T	p.%3D	p.F936F	ENST00000264276	15/34	56	50	6	92	92	0	ALS2,synonymous_variant,p.%3D,ENST00000264276,;ALS2,synonymous_variant,p.%3D,ENST00000457679,;ALS2,non_coding_transcript_exon_variant,,ENST00000494017,;ALS2,downstream_gene_variant,,ENST00000483703,;ALS2,upstream_gene_variant,,ENST00000489440,;ALS2,synonymous_variant,p.%3D,ENST00000439495,;ALS2,non_coding_transcript_exon_variant,,ENST00000482891,;	A	ENSG00000003393	ENST00000264276	Transcript	synonymous_variant	3181	2808	936	F	ttC/ttT	rs778057766,COSM1306306	.	.	-1	ALS2	HGNC	443	protein_coding	YES	CCDS42800.1	ENSP00000264276	ALS2_HUMAN	J3KQ43_HUMAN,J3KQ33_HUMAN,A8K4R4_HUMAN	UPI0000231C77	.	.	.	15/34	.	Superfamily_domains:SSF50729,Gene3D:2.30.29.30,hmmpanther:PTHR22870,hmmpanther:PTHR22870:SF12	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGAATGAACCA	.	3	BLCA
FZD7	0	.	GRCh37	2	202899544	202899544	+	Silent	SNP	G	G	C	rs556542493	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174G>C	p.%3D	p.T58T	ENST00000286201	1/1	292	221	71	171	171	0	FZD7,synonymous_variant,p.%3D,ENST00000286201,;RP11-107N15.1,upstream_gene_variant,,ENST00000608741,;	C	ENSG00000155760	ENST00000286201	Transcript	synonymous_variant	235	174	58	T	acG/acC	rs556542493,COSM1306308	.	.	1	FZD7	HGNC	4045	protein_coding	YES	CCDS2351.1	ENSP00000286201	FZD7_HUMAN	.	UPI0000051051	.	.	.	1/1	.	PROSITE_profiles:PS50038,hmmpanther:PTHR11309,hmmpanther:PTHR11309:SF31,Pfam_domain:PF01392,Gene3D:1ijyA00,SMART_domains:SM00063,Superfamily_domains:SSF63501	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACGGACAT	by1000G	5	BLCA
PTPRN	0	.	GRCh37	2	220166979	220166979	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874A>G	p.Arg292Gly	p.R292G	ENST00000295718	6/23	55	16	39	62	62	0	PTPRN,missense_variant,p.Arg292Gly,ENST00000409251,;PTPRN,missense_variant,p.Arg202Gly,ENST00000423636,;PTPRN,missense_variant,p.Arg292Gly,ENST00000295718,;PTPRN,downstream_gene_variant,,ENST00000442029,;PTPRN,downstream_gene_variant,,ENST00000412847,;PTPRN,downstream_gene_variant,,ENST00000451506,;PTPRN,downstream_gene_variant,,ENST00000440552,;PTPRN,downstream_gene_variant,,ENST00000446182,;AC114803.3,intron_variant,,ENST00000417355,;PTPRN,downstream_gene_variant,,ENST00000468454,;PTPRN,non_coding_transcript_exon_variant,,ENST00000462351,;PTPRN,downstream_gene_variant,,ENST00000606213,;PTPRN,downstream_gene_variant,,ENST00000476930,;PTPRN,upstream_gene_variant,,ENST00000486480,;PTPRN,upstream_gene_variant,,ENST00000489650,;	C	ENSG00000054356	ENST00000295718	Transcript	missense_variant	1115	874	292	R/G	Agg/Ggg	COSM1306460	.	.	-1	PTPRN	HGNC	9676	protein_coding	YES	CCDS2440.1	ENSP00000295718	PTPRN_HUMAN	Q96IA0_HUMAN,Q7KZS4_HUMAN,C9JJL7_HUMAN,C9JCQ0_HUMAN,C9J392_HUMAN	UPI0000132999	.	tolerated(0.08)	benign(0)	6/23	.	hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCCTGGCCC	.	5	BLCA
COL4A3	0	.	GRCh37	2	228113226	228113226	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.536C>T	p.Pro179Leu	p.P179L	ENST00000396578	9/52	22	8	13	50	50	0	COL4A3,missense_variant,p.Pro179Leu,ENST00000396578,;AC097662.2,intron_variant,,ENST00000437673,;AC097662.2,intron_variant,,ENST00000606119,;AC097662.2,intron_variant,,ENST00000396588,;AC097662.2,intron_variant,,ENST00000439598,;	T	ENSG00000169031	ENST00000396578	Transcript	missense_variant	698	536	179	P/L	cCa/cTa	COSM1306494,COSM1306495	.	.	1	COL4A3	HGNC	2204	protein_coding	YES	CCDS42829.1	ENSP00000379823	CO4A3_HUMAN	Q548X1_HUMAN,A9QVI3_HUMAN	UPI000013E9F3	.	.	probably_damaging(1)	9/52	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023:SF417,hmmpanther:PTHR24023,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTCCAGGAC	.	5	BLCA
USP40	0	.	GRCh37	2	234460031	234460031	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.864T>C	p.%3D	p.F288F	ENST00000450966	6/31	9	1	8	21	21	0	USP40,synonymous_variant,p.%3D,ENST00000251722,;USP40,synonymous_variant,p.%3D,ENST00000427112,;USP40,synonymous_variant,p.%3D,ENST00000450966,;USP40,downstream_gene_variant,,ENST00000427947,;RP11-289A15.1,downstream_gene_variant,,ENST00000604535,;	G	ENSG00000085982	ENST00000450966	Transcript	synonymous_variant	864	864	288	F	ttT/ttC	COSM1306559,COSM1306558	.	.	-1	USP40	HGNC	20069	protein_coding	YES	CCDS46547.1	ENSP00000415434	UBP40_HUMAN	.	UPI0000232F06	.	.	.	6/31	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF423,hmmpanther:PTHR24006,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	TCACAAAAGGG	.	2	BLCA
KLHL30	0	.	GRCh37	2	239054468	239054468	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1145T>C	p.Ile382Thr	p.I382T	ENST00000409223	5/8	39	8	30	28	28	0	KLHL30,missense_variant,p.Ile364Thr,ENST00000305959,;KLHL30,missense_variant,p.Ile382Thr,ENST00000409223,;	C	ENSG00000168427	ENST00000409223	Transcript	missense_variant	1252	1145	382	I/T	aTc/aCc	COSM1306592,COSM1306591	.	.	1	KLHL30	HGNC	24770	protein_coding	YES	CCDS46555.2	ENSP00000386389	KLH30_HUMAN	J3KND5_HUMAN	UPI00001D7DA5	.	deleterious(0.04)	possibly_damaging(0.794)	5/8	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF9,Gene3D:1zgkA00,Pfam_domain:PF01344,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTATCGGCG	.	5	BLCA
ACP1	0	.	GRCh37	2	275176	275176	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>T	p.%3D	p.L90L	ENST00000272067	4/6	24	20	3	40	40	0	ACP1,synonymous_variant,p.%3D,ENST00000272065,;ACP1,synonymous_variant,p.%3D,ENST00000272067,;ACP1,downstream_gene_variant,,ENST00000439645,;FAM150B,downstream_gene_variant,,ENST00000344414,;ACP1,downstream_gene_variant,,ENST00000407983,;ACP1,downstream_gene_variant,,ENST00000405233,;FAM150B,downstream_gene_variant,,ENST00000403610,;FAM150B,downstream_gene_variant,,ENST00000401503,;FAM150B,downstream_gene_variant,,ENST00000401489,;FAM150B,downstream_gene_variant,,ENST00000405290,;ACP1,non_coding_transcript_exon_variant,,ENST00000484464,;ACP1,3_prime_UTR_variant,,ENST00000405364,;ACP1,3_prime_UTR_variant,,ENST00000453390,;ACP1,3_prime_UTR_variant,,ENST00000442386,;ACP1,non_coding_transcript_exon_variant,,ENST00000480874,;ACP1,non_coding_transcript_exon_variant,,ENST00000463831,;ACP1,intron_variant,,ENST00000413140,;	T	ENSG00000143727	ENST00000272067	Transcript	synonymous_variant	364	268	90	L	Cta/Tta	COSM1306672,COSM1306671	.	.	1	ACP1	HGNC	122	protein_coding	YES	CCDS1640.1	ENSP00000272067	PPAC_HUMAN	.	UPI0000000C82	.	.	.	4/6	.	hmmpanther:PTHR11717:SF17,hmmpanther:PTHR11717,Pfam_domain:PF01451,Gene3D:3.40.50.270,SMART_domains:SM00226,Superfamily_domains:SSF52788,Prints_domain:PR00720,Prints_domain:PR00719	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATATACTATGT	.	3	BLCA
RPS7	0	.	GRCh37	2	3623453	3623453	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.122G>A	p.Arg41Lys	p.R41K	ENST00000304921	3/7	31	22	8	34	34	0	RPS7,missense_variant,p.Arg41Lys,ENST00000304921,;RPS7,missense_variant,p.Arg41Lys,ENST00000406376,;RPS7,missense_variant,p.Arg41Lys,ENST00000403564,;RPS7,missense_variant,p.Arg41Lys,ENST00000407445,;SNORA73,upstream_gene_variant,,ENST00000516722,;RPS7,non_coding_transcript_exon_variant,,ENST00000491937,;RPS7,non_coding_transcript_exon_variant,,ENST00000462576,;RPS7,non_coding_transcript_exon_variant,,ENST00000481006,;RPS7,non_coding_transcript_exon_variant,,ENST00000479123,;RPS7,upstream_gene_variant,,ENST00000472966,;	A	ENSG00000171863	ENST00000304921	Transcript	missense_variant	286	122	41	R/K	aGg/aAg	COSM1306765	.	.	1	RPS7	HGNC	10440	protein_coding	YES	CCDS1648.1	ENSP00000339095	RS7_HUMAN	.	UPI0000029F18	.	tolerated(0.32)	benign(0.005)	3/7	.	hmmpanther:PTHR11278:SF0,hmmpanther:PTHR11278,Pfam_domain:PF01251	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCAGGGAGC	.	5	BLCA
FBXO11	0	.	GRCh37	2	48061799	48061799	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>A	p.Asp285Asn	p.D285N	ENST00000403359	7/23	27	18	9	36	35	0	FBXO11,missense_variant,p.Asp201Asn,ENST00000316377,;FBXO11,missense_variant,p.Asp285Asn,ENST00000403359,;FBXO11,missense_variant,p.Asp201Asn,ENST00000402508,;FBXO11,missense_variant,p.Asp77Asn,ENST00000493962,;FBXO11,downstream_gene_variant,,ENST00000424163,;FBXO11,downstream_gene_variant,,ENST00000378314,;FBXO11,upstream_gene_variant,,ENST00000434523,;FBXO11,downstream_gene_variant,,ENST00000480038,;FBXO11,non_coding_transcript_exon_variant,,ENST00000492225,;	T	ENSG00000138081	ENST00000403359	Transcript	missense_variant	926	853	285	D/N	Gat/Aat	COSM1306834,COSM1306833	.	.	-1	FBXO11	HGNC	13590	protein_coding	YES	CCDS54357.1	ENSP00000384823	FBX11_HUMAN	E7EP88_HUMAN,C9IYF0_HUMAN,B5MCV6_HUMAN	UPI00005793B7	.	tolerated(0.39)	benign(0.002)	7/23	.	hmmpanther:PTHR22990:SF12,hmmpanther:PTHR22990,Gene3D:2.160.20.10,Superfamily_domains:SSF51126	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCAAAAT	.	5	BLCA
STON1-GTF2A1L	0	.	GRCh37	2	48809237	48809237	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1465A>G	p.Lys489Glu	p.K489E	ENST00000394754	2/11	30	13	17	63	63	0	STON1-GTF2A1L,missense_variant,p.Lys489Glu,ENST00000309827,;STON1-GTF2A1L,missense_variant,p.Lys489Glu,ENST00000394754,;STON1,missense_variant,p.Lys489Glu,ENST00000406226,;STON1-GTF2A1L,missense_variant,p.Lys489Glu,ENST00000402114,;STON1-GTF2A1L,missense_variant,p.Lys489Glu,ENST00000405008,;STON1-GTF2A1L,missense_variant,p.Lys489Glu,ENST00000394751,;STON1,missense_variant,p.Lys489Glu,ENST00000404752,;STON1,missense_variant,p.Lys489Glu,ENST00000309835,;STON1,upstream_gene_variant,,ENST00000444932,;	G	ENSG00000068781	ENST00000394754	Transcript	missense_variant	1579	1465	489	K/E	Aag/Gag	COSM1306838,COSM1306837	.	.	1	STON1-GTF2A1L	HGNC	30651	protein_coding	YES	CCDS1840.1	ENSP00000378236	.	Q53S48_HUMAN	UPI000013C976	.	tolerated(0.06)	benign(0.345)	2/11	.	PROSITE_profiles:PS51072,hmmpanther:PTHR11998,hmmpanther:PTHR11998:SF18,Gene3D:2.60.40.1170,Pfam_domain:PF00928,Superfamily_domains:0038852	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATAAGTGT	.	5	BLCA
GPR75	0	.	GRCh37	2	54080390	54080390	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1504C>A	p.Pro502Thr	p.P502T	ENST00000394705	2/2	139	108	31	215	215	0	GPR75,missense_variant,p.Pro502Thr,ENST00000394705,;ASB3,intron_variant,,ENST00000406625,;GPR75-ASB3,intron_variant,,ENST00000352846,;MIR3682,upstream_gene_variant,,ENST00000581338,;ASB3,intron_variant,,ENST00000498475,;ASB3,intron_variant,,ENST00000459916,;	T	ENSG00000119737	ENST00000394705	Transcript	missense_variant	1775	1504	502	P/T	Cca/Aca	COSM1306855	.	.	-1	GPR75	HGNC	4526	protein_coding	YES	CCDS1849.1	ENSP00000378195	GPR75_HUMAN	.	UPI0000050454	.	deleterious_low_confidence(0)	benign(0.016)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGGCTGTA	.	5	BLCA
SLC1A4	0	.	GRCh37	2	65248205	65248205	+	Silent	SNP	C	C	T	rs778220999	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1524C>T	p.%3D	p.P508P	ENST00000234256	8/8	148	125	22	131	131	0	SLC1A4,synonymous_variant,p.%3D,ENST00000531327,;SLC1A4,synonymous_variant,p.%3D,ENST00000234256,;SLC1A4,downstream_gene_variant,,ENST00000471551,;SLC1A4,downstream_gene_variant,,ENST00000493121,;SLC1A4,non_coding_transcript_exon_variant,,ENST00000480594,;	T	ENSG00000115902	ENST00000234256	Transcript	synonymous_variant	1767	1524	508	P	ccC/ccT	rs778220999,COSM1306936	.	.	1	SLC1A4	HGNC	10942	protein_coding	YES	CCDS1879.1	ENSP00000234256	SATT_HUMAN	.	UPI000000129F	.	.	.	8/8	.	hmmpanther:PTHR11958:SF20,hmmpanther:PTHR11958	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGCCCCTGGT	.	4	BLCA
LOXL3	0	.	GRCh37	2	74762468	74762468	+	Silent	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1530C>G	p.%3D	p.T510T	ENST00000264094	9/14	85	43	41	81	81	0	LOXL3,synonymous_variant,p.%3D,ENST00000264094,;LOXL3,synonymous_variant,p.%3D,ENST00000409986,;LOXL3,synonymous_variant,p.%3D,ENST00000409549,;LOXL3,synonymous_variant,p.%3D,ENST00000393937,;LOXL3,intron_variant,,ENST00000409249,;LOXL3,downstream_gene_variant,,ENST00000413469,;LOXL3,downstream_gene_variant,,ENST00000420535,;HTRA2,downstream_gene_variant,,ENST00000258080,;HTRA2,downstream_gene_variant,,ENST00000352222,;HTRA2,downstream_gene_variant,,ENST00000437202,;LOXL3,non_coding_transcript_exon_variant,,ENST00000481835,;HTRA2,downstream_gene_variant,,ENST00000462909,;HTRA2,downstream_gene_variant,,ENST00000484881,;LOXL3,downstream_gene_variant,,ENST00000484369,;HTRA2,downstream_gene_variant,,ENST00000467961,;LOXL3,non_coding_transcript_exon_variant,,ENST00000470907,;HTRA2,downstream_gene_variant,,ENST00000484352,;HTRA2,downstream_gene_variant,,ENST00000465521,;HTRA2,downstream_gene_variant,,ENST00000482205,;HTRA2,downstream_gene_variant,,ENST00000482331,;	C	ENSG00000115318	ENST00000264094	Transcript	synonymous_variant	1602	1530	510	T	acC/acG	COSM1307009	.	.	-1	LOXL3	HGNC	13869	protein_coding	YES	CCDS1953.1	ENSP00000264094	LOXL3_HUMAN	Q8N505_HUMAN,Q53TY1_HUMAN,Q2EHP2_HUMAN,C9J5M1_HUMAN	UPI0000044959	.	.	.	9/14	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF11,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGGTGAT	.	5	BLCA
RNF181	0	.	GRCh37	2	85823723	85823723	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168G>T	p.Lys56Asn	p.K56N	ENST00000306368	2/5	54	31	22	73	72	0	RNF181,missense_variant,p.Lys39Asn,ENST00000456023,;RNF181,missense_variant,p.Lys56Asn,ENST00000441634,;RNF181,missense_variant,p.Lys56Asn,ENST00000414390,;RNF181,missense_variant,p.Lys56Asn,ENST00000306368,;TMEM150A,downstream_gene_variant,,ENST00000334462,;TMEM150A,downstream_gene_variant,,ENST00000409668,;TMEM150A,downstream_gene_variant,,ENST00000306353,;TMEM150A,downstream_gene_variant,,ENST00000425160,;VAMP5,downstream_gene_variant,,ENST00000306384,;RNF181,missense_variant,p.Lys56Asn,ENST00000443647,;RNF181,non_coding_transcript_exon_variant,,ENST00000461845,;TMEM150A,downstream_gene_variant,,ENST00000455852,;TMEM150A,downstream_gene_variant,,ENST00000433956,;TMEM150A,downstream_gene_variant,,ENST00000444380,;VAMP5,downstream_gene_variant,,ENST00000462451,;TMEM150A,downstream_gene_variant,,ENST00000463363,;TMEM150A,downstream_gene_variant,,ENST00000451147,;TMEM150A,downstream_gene_variant,,ENST00000417791,;TMEM150A,downstream_gene_variant,,ENST00000431593,;TMEM150A,downstream_gene_variant,,ENST00000422458,;	T	ENSG00000168894	ENST00000306368	Transcript	missense_variant	198	168	56	K/N	aaG/aaT	COSM1307047	.	.	1	RNF181	HGNC	28037	protein_coding	YES	CCDS1981.1	ENSP00000306906	RN181_HUMAN	.	UPI0000073EAA	.	deleterious(0)	probably_damaging(0.938)	2/5	.	hmmpanther:PTHR22763	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGACTGT	.	5	BLCA
GRAMD1C	0	.	GRCh37	3	113563350	113563350	+	Missense_Mutation	SNP	G	G	A	rs562411629	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28G>A	p.Val10Met	p.V10M	ENST00000358160	2/18	34	25	9	69	68	0	GRAMD1C,missense_variant,p.Val10Met,ENST00000358160,;GRAMD1C,5_prime_UTR_variant,,ENST00000452134,;GRAMD1C,splice_region_variant,,ENST00000479212,;GRAMD1C,splice_region_variant,,ENST00000486457,;GRAMD1C,non_coding_transcript_exon_variant,,ENST00000467895,;GRAMD1C,intron_variant,,ENST00000463760,;GRAMD1C,missense_variant,p.Val10Met,ENST00000472384,;GRAMD1C,missense_variant,p.Val10Met,ENST00000484714,;GRAMD1C,splice_region_variant,,ENST00000498183,;	A	ENSG00000178075	ENST00000358160	Transcript	missense_variant	520	28	10	V/M	Gtg/Atg	rs562411629,COSM1308419	.	.	1	GRAMD1C	HGNC	25252	protein_coding	YES	CCDS33826.1	ENSP00000350881	GRM1C_HUMAN	C9J7B8_HUMAN,A8KA99_HUMAN	UPI00001AF15F	.	deleterious_low_confidence(0.01)	benign(0.347)	2/18	.	hmmpanther:PTHR23319:SF1,hmmpanther:PTHR23319	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGGTGATG	by1000G	5	BLCA
ITGB5	0	.	GRCh37	3	124540305	124540305	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.797G>A	p.Arg266Gln	p.R266Q	ENST00000296181	6/15	213	180	33	160	160	0	ITGB5,missense_variant,p.Arg63Gln,ENST00000496703,;ITGB5,missense_variant,p.Arg266Gln,ENST00000296181,;ITGB5,coding_sequence_variant,p.%3D,ENST00000481591,;ITGB5,intron_variant,,ENST00000488466,;ITGB5,non_coding_transcript_exon_variant,,ENST00000476988,;ITGB5,3_prime_UTR_variant,,ENST00000465464,;	T	ENSG00000082781	ENST00000296181	Transcript	missense_variant	1094	797	266	R/Q	cGa/cAa	COSM1308508	.	.	-1	ITGB5	HGNC	6160	protein_coding	YES	CCDS3030.1	ENSP00000296181	ITB5_HUMAN	L7RT22_HUMAN,D3DNA1_HUMAN	UPI000012DA10	.	deleterious(0)	probably_damaging(1)	6/15	.	hmmpanther:PTHR10082,hmmpanther:PTHR10082:SF26,Pfam_domain:PF00362,Gene3D:3.40.50.410,PIRSF_domain:PIRSF002512,SMART_domains:SM00327,SMART_domains:SM00187,Superfamily_domains:SSF53300,Prints_domain:PR01186	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCGCCAG	.	4	BLCA
UROC1	0	.	GRCh37	3	126220791	126220791	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903G>C	p.Arg301Ser	p.R301S	ENST00000383579	10/21	74	69	5	30	30	0	UROC1,missense_variant,p.Arg301Ser,ENST00000383579,;UROC1,intron_variant,,ENST00000290868,;	G	ENSG00000159650	ENST00000383579	Transcript	missense_variant	937	903	301	R/S	agG/agC	.	.	.	-1	UROC1	HGNC	26444	protein_coding	YES	CCDS54636.1	ENSP00000373073	HUTU_HUMAN	.	UPI0000480109	.	tolerated(0.08)	benign(0.001)	10/21	.	Low_complexity_(Seg):seg,HAMAP:MF_00577,hmmpanther:PTHR12216,hmmpanther:PTHR12216:SF3,Pfam_domain:PF01175,Superfamily_domains:SSF111326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGACCCTGTG	.	2	BLCA
COL6A6	0	.	GRCh37	3	130381085	130381085	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6435C>G	p.%3D	p.G2145G	ENST00000358511	34/36	164	140	24	208	208	0	COL6A6,synonymous_variant,p.%3D,ENST00000453409,;COL6A6,synonymous_variant,p.%3D,ENST00000358511,;COL6A6,3_prime_UTR_variant,,ENST00000506143,;	G	ENSG00000206384	ENST00000358511	Transcript	synonymous_variant	6466	6435	2145	G	ggC/ggG	COSM1308576,COSM1308575	.	.	1	COL6A6	HGNC	27023	protein_coding	YES	CCDS46911.1	ENSP00000351310	CO6A6_HUMAN	.	UPI00015B6548	.	.	.	34/36	.	PROSITE_profiles:PS50234,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGGCCGAAT	.	5	BLCA
NPHP3	0	.	GRCh37	3	132408036	132408036	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2765A>T	p.Tyr922Phe	p.Y922F	ENST00000337331	20/27	76	33	42	88	88	0	NPHP3,missense_variant,p.Tyr922Phe,ENST00000337331,;NPHP3,3_prime_UTR_variant,,ENST00000326682,;NPHP3,upstream_gene_variant,,ENST00000512094,;NPHP3,3_prime_UTR_variant,,ENST00000465756,;NPHP3,3_prime_UTR_variant,,ENST00000471702,;NPHP3,non_coding_transcript_exon_variant,,ENST00000474871,;NPHP3,non_coding_transcript_exon_variant,,ENST00000490993,;NPHP3,upstream_gene_variant,,ENST00000493732,;NPHP3,downstream_gene_variant,,ENST00000515289,;	A	ENSG00000113971	ENST00000337331	Transcript	missense_variant	2852	2765	922	Y/F	tAc/tTc	COSM1308595	.	.	-1	NPHP3	HGNC	7907	protein_coding	YES	CCDS3078.1	ENSP00000338766	NPHP3_HUMAN	.	UPI00001B6B30	.	tolerated(0.09)	probably_damaging(0.997)	20/27	.	Gene3D:1.25.40.10,hmmpanther:PTHR19959:SF133,hmmpanther:PTHR19959	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAAGTATTCT	.	5	BLCA
FBLN2	0	.	GRCh37	3	13659771	13659771	+	Missense_Mutation	SNP	G	G	T	rs750796686	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1925G>T	p.Arg642Leu	p.R642L	ENST00000404922	6/18	79	58	21	83	83	0	FBLN2,missense_variant,p.Arg642Leu,ENST00000295760,;FBLN2,missense_variant,p.Arg642Leu,ENST00000492059,;FBLN2,missense_variant,p.Arg642Leu,ENST00000404922,;FBLN2,missense_variant,p.Arg668Leu,ENST00000535798,;FBLN2,non_coding_transcript_exon_variant,,ENST00000477845,;	T	ENSG00000163520	ENST00000404922	Transcript	missense_variant	2044	1925	642	R/L	cGc/cTc	rs750796686,COSM1308639,COSM1308638	.	.	1	FBLN2	HGNC	3601	protein_coding	YES	CCDS46761.1	ENSP00000384169	FBLN2_HUMAN	Q9Y3V7_HUMAN,C9JQS6_HUMAN	UPI000042B0C1	.	tolerated(0.68)	benign(0.037)	6/18	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24048,hmmpanther:PTHR24048:SF72,PROSITE_patterns:PS01186,Gene3D:2.10.25.10,Pfam_domain:PF14670,SMART_domains:SM00179,SMART_domains:SM00181,Superfamily_domains:SSF57196,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGCACTT	.	5	BLCA
CLSTN2	0	.	GRCh37	3	140277676	140277676	+	Missense_Mutation	SNP	C	C	G	rs747123030	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2018C>G	p.Ala673Gly	p.A673G	ENST00000458420	12/17	51	32	19	55	55	0	CLSTN2,missense_variant,p.Ala673Gly,ENST00000458420,;CLSTN2,downstream_gene_variant,,ENST00000511524,;	G	ENSG00000158258	ENST00000458420	Transcript	missense_variant	2208	2018	673	A/G	gCc/gGc	rs747123030,COSM1308664	.	.	1	CLSTN2	HGNC	17448	protein_coding	YES	CCDS3112.1	ENSP00000402460	CSTN2_HUMAN	B3KUA5_HUMAN,B3KU27_HUMAN	UPI00001B0051	.	tolerated(0.36)	benign(0.001)	12/17	.	hmmpanther:PTHR14139,hmmpanther:PTHR14139:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D676D|c.2028C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAAGCCCCCG	byFrequency	5	BLCA
HPS3	0	.	GRCh37	3	148889891	148889891	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2897C>G	p.Ser966Ter	p.S966*	ENST00000296051	17/17	37	14	23	49	49	0	HPS3,stop_gained,p.Ser966Ter,ENST00000296051,;HPS3,stop_gained,p.Ser801Ter,ENST00000460120,;CP,intron_variant,,ENST00000479771,;CP,downstream_gene_variant,,ENST00000264613,;CP,downstream_gene_variant,,ENST00000494544,;HPS3,3_prime_UTR_variant,,ENST00000460822,;CP,intron_variant,,ENST00000481169,;HPS3,downstream_gene_variant,,ENST00000478525,;CP,downstream_gene_variant,,ENST00000460674,;CP,downstream_gene_variant,,ENST00000463556,;CP,downstream_gene_variant,,ENST00000474204,;CP,downstream_gene_variant,,ENST00000473296,;	G	ENSG00000163755	ENST00000296051	Transcript	stop_gained	3037	2897	966	S/*	tCa/tGa	COSM1308709	.	.	1	HPS3	HGNC	15597	protein_coding	YES	CCDS3140.1	ENSP00000296051	HPS3_HUMAN	Q8N3N1_HUMAN	UPI000000D989	.	.	.	17/17	.	Pfam_domain:PF14763,PIRSF_domain:PIRSF037473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTGTCAATTG	.	5	BLCA
ANKRD28	0	.	GRCh37	3	15727600	15727600	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1988A>C	p.Asn663Thr	p.N663T	ENST00000399451	20/28	19	13	5	25	25	0	ANKRD28,missense_variant,p.Asn663Thr,ENST00000399451,;ANKRD28,missense_variant,p.Asn696Thr,ENST00000383777,;ANKRD28,non_coding_transcript_exon_variant,,ENST00000497037,;ANKRD28,missense_variant,p.Asn663Thr,ENST00000412318,;ANKRD28,missense_variant,p.Asn607Thr,ENST00000451422,;ANKRD28,non_coding_transcript_exon_variant,,ENST00000498524,;ANKRD28,non_coding_transcript_exon_variant,,ENST00000463533,;ANKRD28,downstream_gene_variant,,ENST00000462657,;	G	ENSG00000206560	ENST00000399451	Transcript	missense_variant	2356	1988	663	N/T	aAc/aCc	COSM1308767,COSM1308766	.	.	-1	ANKRD28	HGNC	29024	protein_coding	YES	CCDS46769.1	ENSP00000382379	ANR28_HUMAN	.	UPI00004120FF	.	tolerated(0.07)	possibly_damaging(0.718)	20/28	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24158:SF22,hmmpanther:PTHR24158,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCGTTGAGA	.	5	BLCA
FNDC3B	0	.	GRCh37	3	172064198	172064198	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2332A>T	p.Thr778Ser	p.T778S	ENST00000336824	20/26	108	86	21	108	108	0	FNDC3B,missense_variant,p.Thr778Ser,ENST00000416957,;FNDC3B,missense_variant,p.Thr778Ser,ENST00000415807,;FNDC3B,missense_variant,p.Thr778Ser,ENST00000336824,;FNDC3B,non_coding_transcript_exon_variant,,ENST00000490832,;	T	ENSG00000075420	ENST00000336824	Transcript	missense_variant	2431	2332	778	T/S	Aca/Tca	COSM1308823	.	.	1	FNDC3B	HGNC	24670	protein_coding	YES	CCDS3217.1	ENSP00000338523	FND3B_HUMAN	.	UPI00001AE8B2	.	tolerated(0.14)	benign(0.006)	20/26	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900,hmmpanther:PTHR19900:SF54,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTACACCT	.	5	BLCA
TNFSF10	0	.	GRCh37	3	172227013	172227013	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412T>C	p.Ser138Pro	p.S138P	ENST00000241261	4/5	33	28	5	30	30	0	TNFSF10,missense_variant,p.Ser138Pro,ENST00000241261,;TNFSF10,intron_variant,,ENST00000420541,;TNFSF10,3_prime_UTR_variant,,ENST00000430881,;TNFSF10,non_coding_transcript_exon_variant,,ENST00000494851,;TNFSF10,downstream_gene_variant,,ENST00000472804,;	G	ENSG00000121858	ENST00000241261	Transcript	missense_variant	535	412	138	S/P	Tct/Cct	COSM1308826	.	.	-1	TNFSF10	HGNC	11925	protein_coding	YES	CCDS3219.1	ENSP00000241261	TNF10_HUMAN	Q6IBA9_HUMAN	UPI0000001629	.	tolerated(0.61)	benign(0)	4/5	.	Superfamily_domains:SSF49842,PIRSF_domain:PIRSF038013,Gene3D:2.60.120.40,hmmpanther:PTHR11471,hmmpanther:PTHR11471:SF27,PROSITE_profiles:PS50049	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TGGAGAAGACA	.	2	BLCA
LEPREL1	0	.	GRCh37	3	189690704	189690704	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1658A>G	p.Tyr553Cys	p.Y553C	ENST00000319332	11/15	59	24	35	55	55	0	LEPREL1,missense_variant,p.Tyr553Cys,ENST00000319332,;LEPREL1,missense_variant,p.Tyr372Cys,ENST00000427335,;LEPREL1,non_coding_transcript_exon_variant,,ENST00000467131,;LEPREL1,non_coding_transcript_exon_variant,,ENST00000482780,;LEPREL1,downstream_gene_variant,,ENST00000470925,;LEPREL1,upstream_gene_variant,,ENST00000463171,;LEPREL1,downstream_gene_variant,,ENST00000475095,;MTAPP2,upstream_gene_variant,,ENST00000437063,;	C	ENSG00000090530	ENST00000319332	Transcript	missense_variant	1856	1658	553	Y/C	tAt/tGt	COSM1308943	.	.	-1	LEPREL1	HGNC	19317	protein_coding	YES	CCDS3294.1	ENSP00000316881	P3H2_HUMAN	D3DNV8_HUMAN,C9JSL4_HUMAN,C9J313_HUMAN	UPI000007460B	.	deleterious(0)	probably_damaging(0.928)	11/15	.	hmmpanther:PTHR14049,hmmpanther:PTHR14049:SF1,SMART_domains:SM00702	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAATACAGA	.	5	BLCA
TMEM207	0	.	GRCh37	3	190167626	190167626	+	5'UTR	SNP	T	T	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28A>G	.	.	ENST00000354905	1/5	28	20	8	28	28	0	TMEM207,5_prime_UTR_variant,,ENST00000354905,;	C	ENSG00000198398	ENST00000354905	Transcript	5_prime_UTR_variant	40	.	.	.	.	.	.	.	-1	TMEM207	HGNC	33705	protein_coding	YES	CCDS3297.1	ENSP00000346981	TM207_HUMAN	.	UPI0000048F12	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATAGTGGTTT	.	2	BLCA
MUC20	0	.	GRCh37	3	195453217	195453217	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1743C>G	p.%3D	p.L581L	ENST00000447234	2/4	132	118	14	79	79	0	MUC20,synonymous_variant,p.%3D,ENST00000445522,;MUC20,synonymous_variant,p.%3D,ENST00000447234,;MUC20,synonymous_variant,p.%3D,ENST00000320736,;MUC20,synonymous_variant,p.%3D,ENST00000436408,;MUC20,upstream_gene_variant,,ENST00000423938,;LINC00969,intron_variant,,ENST00000597662,;LINC00969,intron_variant,,ENST00000595086,;LINC00969,intron_variant,,ENST00000600197,;LINC00969,intron_variant,,ENST00000594446,;LINC00969,downstream_gene_variant,,ENST00000599566,;LINC00969,downstream_gene_variant,,ENST00000455807,;LINC00969,downstream_gene_variant,,ENST00000600288,;LINC00969,downstream_gene_variant,,ENST00000432194,;LINC00969,downstream_gene_variant,,ENST00000594976,;MUC20,downstream_gene_variant,,ENST00000485430,;MUC20,downstream_gene_variant,,ENST00000480350,;MUC20,non_coding_transcript_exon_variant,,ENST00000498018,;	G	ENSG00000176945	ENST00000447234	Transcript	synonymous_variant	1869	1743	581	L	ctC/ctG	COSM1308965	.	.	1	MUC20	HGNC	23282	protein_coding	YES	CCDS63877.1	ENSP00000414350	MUC20_HUMAN	I0EZ60_HUMAN,I0EZ59_HUMAN,I0CMK3_HUMAN,I0CMJ9_HUMAN	UPI000198CC5A	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCAAGAA	.	4	BLCA
ZNF385D	0	.	GRCh37	3	21478519	21478519	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616T>A	p.Cys206Ser	p.C206S	ENST00000281523	5/8	73	56	17	95	95	0	ZNF385D,missense_variant,p.Cys206Ser,ENST00000281523,;ZNF385D,non_coding_transcript_exon_variant,,ENST00000495739,;ZNF385D,non_coding_transcript_exon_variant,,ENST00000494118,;ZNF385D,downstream_gene_variant,,ENST00000446749,;	T	ENSG00000151789	ENST00000281523	Transcript	missense_variant	1135	616	206	C/S	Tgt/Agt	COSM1309005	.	.	-1	ZNF385D	HGNC	26191	protein_coding	YES	CCDS2636.1	ENSP00000281523	Z385D_HUMAN	.	UPI00000724AC	.	deleterious(0)	probably_damaging(0.966)	5/8	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,SMART_domains:SM00451,Pfam_domain:PF12874,PROSITE_patterns:PS00028,hmmpanther:PTHR23067,hmmpanther:PTHR23067:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S207L|c.620C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAACAGTAAA	.	5	BLCA
SCAP	0	.	GRCh37	3	47484415	47484415	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69A>G	p.%3D	p.A23A	ENST00000265565	2/23	25	19	5	57	57	0	SCAP,synonymous_variant,p.%3D,ENST00000448217,;SCAP,synonymous_variant,p.%3D,ENST00000265565,;SCAP,synonymous_variant,p.%3D,ENST00000416847,;SCAP,synonymous_variant,p.%3D,ENST00000495603,;SCAP,5_prime_UTR_variant,,ENST00000545718,;SCAP,5_prime_UTR_variant,,ENST00000441517,;SCAP,non_coding_transcript_exon_variant,,ENST00000420588,;SCAP,synonymous_variant,p.%3D,ENST00000428413,;SCAP,synonymous_variant,p.%3D,ENST00000416208,;SCAP,synonymous_variant,p.%3D,ENST00000320017,;SCAP,non_coding_transcript_exon_variant,,ENST00000485967,;	C	ENSG00000114650	ENST00000265565	Transcript	synonymous_variant	482	69	23	A	gcA/gcG	COSM1309200,COSM1309201	.	.	-1	SCAP	HGNC	30634	protein_coding	YES	CCDS2755.2	ENSP00000265565	SCAP_HUMAN	D6RA39_HUMAN,C9JQ35_HUMAN	UPI0000135624	.	.	.	2/23	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10796:SF53,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGATGCACA	.	5	BLCA
RBM5	0	.	GRCh37	3	50144929	50144929	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.968C>T	p.Ser323Leu	p.S323L	ENST00000347869	12/25	36	25	10	76	76	0	RBM5,missense_variant,p.Ser323Leu,ENST00000347869,;RBM5,downstream_gene_variant,,ENST00000404526,;RBM5,non_coding_transcript_exon_variant,,ENST00000441812,;RBM5,upstream_gene_variant,,ENST00000474470,;RBM5,3_prime_UTR_variant,,ENST00000395174,;RBM5,non_coding_transcript_exon_variant,,ENST00000464087,;RBM5,non_coding_transcript_exon_variant,,ENST00000489437,;RBM5,non_coding_transcript_exon_variant,,ENST00000494360,;RBM5,non_coding_transcript_exon_variant,,ENST00000496179,;RBM5,non_coding_transcript_exon_variant,,ENST00000474818,;RBM5,downstream_gene_variant,,ENST00000471995,;RBM5,downstream_gene_variant,,ENST00000462025,;	T	ENSG00000003756	ENST00000347869	Transcript	missense_variant	1143	968	323	S/L	tCa/tTa	COSM350895	.	.	1	RBM5	HGNC	9902	protein_coding	YES	CCDS2810.1	ENSP00000343054	RBM5_HUMAN	C9JR02_HUMAN,C9JFQ5_HUMAN,C9J9P7_HUMAN	UPI000013337C	.	tolerated(0.1)	benign(0)	12/25	.	hmmpanther:PTHR13948,hmmpanther:PTHR13948:SF21	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGATG	.	5	BLCA
AC026202.1	0	.	GRCh37	3	5229970	5229970	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13G>A	p.Ala5Thr	p.A5T	ENST00000600805	1/1	57	38	19	34	34	0	AC026202.1,missense_variant,p.Ala5Thr,ENST00000600805,;EDEM1,synonymous_variant,p.%3D,ENST00000256497,;EDEM1,upstream_gene_variant,,ENST00000445686,;AC026202.3,upstream_gene_variant,,ENST00000439325,;EDEM1,synonymous_variant,p.%3D,ENST00000434243,;EDEM1,3_prime_UTR_variant,,ENST00000443790,;EDEM1,non_coding_transcript_exon_variant,,ENST00000465187,;EDEM1,non_coding_transcript_exon_variant,,ENST00000465369,;	T	ENSG00000268509	ENST00000600805	Transcript	missense_variant	13	13	5	A/T	Gca/Aca	COSM1309322	.	.	-1	AC026202.1	Clone_based_ensembl_gene	.	protein_coding	YES	.	ENSP00000471728	.	Q96EZ6_HUMAN	UPI00001BD9D3	.	.	possibly_damaging(0.691)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTGCCGCGG	.	5	BLCA
PDE5A	0	.	GRCh37	4	120446823	120446823	+	Frame_Shift_Del	DEL	G	G	-	rs771562220	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1660delC	p.Ile556LeufsTer35	p.I556Lfs*35	ENST00000354960	12/21	64	51	13	83	83	0	PDE5A,frameshift_variant,p.Ile514LeufsTer35,ENST00000264805,;PDE5A,frameshift_variant,p.Ile556LeufsTer35,ENST00000354960,;PDE5A,frameshift_variant,p.Ile504LeufsTer35,ENST00000394439,;PDE5A,non_coding_transcript_exon_variant,,ENST00000513594,;PDE5A,non_coding_transcript_exon_variant,,ENST00000512450,;PDE5A,non_coding_transcript_exon_variant,,ENST00000512739,;RP11-33B1.1,intron_variant,,ENST00000498873,;RP11-33B1.1,intron_variant,,ENST00000500559,;	-	ENSG00000138735	ENST00000354960	Transcript	frameshift_variant	1980	1660	554	L/X	Ctt/tt	rs771562220	.	.	-1	PDE5A	HGNC	8784	protein_coding	YES	CCDS3713.1	ENSP00000347046	PDE5A_HUMAN	Q9P0K6_HUMAN,Q9P0K4_HUMAN,Q4W5L4_HUMAN,G5E9C5_HUMAN,C9JGT3_HUMAN	UPI000013D571	.	.	.	12/21	.	hmmpanther:PTHR11347:SF21,hmmpanther:PTHR11347,Gene3D:1.10.1300.10,Superfamily_domains:SSF109604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTTAAGGGTCT	.	3	BLCA
ANKRD50	0	.	GRCh37	4	125590169	125590169	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4263C>G	p.Phe1421Leu	p.F1421L	ENST00000504087	4/5	8	4	4	13	13	0	ANKRD50,missense_variant,p.Phe1421Leu,ENST00000504087,;ANKRD50,missense_variant,p.Phe1242Leu,ENST00000515641,;	C	ENSG00000151458	ENST00000504087	Transcript	missense_variant	5301	4263	1421	F/L	ttC/ttG	COSM1309679	.	.	-1	ANKRD50	HGNC	29223	protein_coding	YES	CCDS34060.1	ENSP00000425658	ANR50_HUMAN	Q8TB46_HUMAN	UPI00002377E8	.	tolerated_low_confidence(0.57)	benign(0.003)	4/5	.	hmmpanther:PTHR24151:SF1,hmmpanther:PTHR24151	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGTTGAAGCT	.	2	BLCA
PCDH18	0	.	GRCh37	4	138452651	138452651	+	Missense_Mutation	SNP	G	G	A	rs771875299	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592C>T	p.Leu198Phe	p.L198F	ENST00000344876	1/4	40	32	7	54	54	0	PCDH18,missense_variant,p.Leu198Phe,ENST00000344876,;PCDH18,missense_variant,p.Leu198Phe,ENST00000412923,;PCDH18,5_prime_UTR_variant,,ENST00000507846,;PCDH18,intron_variant,,ENST00000510305,;PCDH18,intron_variant,,ENST00000511115,;	A	ENSG00000189184	ENST00000344876	Transcript	missense_variant	979	592	198	L/F	Ctc/Ttc	rs771875299,COSM1309747	.	.	-1	PCDH18	HGNC	14268	protein_coding	YES	CCDS34064.1	ENSP00000355082	PCD18_HUMAN	Q9NT87_HUMAN,B4DQ29_HUMAN	UPI0000047A88	.	deleterious(0)	probably_damaging(1)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF9,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGAGTTCTG	.	5	BLCA
FBXL5	0	.	GRCh37	4	15626988	15626988	+	Silent	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1737T>G	p.%3D	p.P579P	ENST00000341285	9/11	21	12	9	25	25	0	FBXL5,synonymous_variant,p.%3D,ENST00000382358,;FBXL5,synonymous_variant,p.%3D,ENST00000412094,;FBXL5,synonymous_variant,p.%3D,ENST00000513163,;FBXL5,synonymous_variant,p.%3D,ENST00000341285,;FBXL5,3_prime_UTR_variant,,ENST00000511441,;FBXL5,non_coding_transcript_exon_variant,,ENST00000507700,;	C	ENSG00000118564	ENST00000341285	Transcript	synonymous_variant	1862	1737	579	P	ccT/ccG	COSM1309839	.	.	-1	FBXL5	HGNC	13602	protein_coding	YES	CCDS3415.1	ENSP00000344866	FBXL5_HUMAN	D6RHC3_HUMAN,D6RCR7_HUMAN,D6RBW7_HUMAN,D6RB50_HUMAN	UPI0000035C83	.	.	.	9/11	.	hmmpanther:PTHR23125:SF211,hmmpanther:PTHR23125	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTAGGCAA	.	5	BLCA
FNIP2	0	.	GRCh37	4	159789770	159789770	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1982G>T	p.Gly661Val	p.G661V	ENST00000264433	13/17	27	13	14	28	28	0	FNIP2,missense_variant,p.Gly684Val,ENST00000379346,;FNIP2,missense_variant,p.Gly661Val,ENST00000264433,;FNIP2,downstream_gene_variant,,ENST00000512986,;FNIP2,upstream_gene_variant,,ENST00000505130,;	T	ENSG00000052795	ENST00000264433	Transcript	missense_variant	2057	1982	661	G/V	gGc/gTc	COSM291338,COSM1309854	.	.	1	FNIP2	HGNC	29280	protein_coding	YES	CCDS47155.1	ENSP00000264433	FNIP2_HUMAN	.	UPI00001C1E0A	.	tolerated(0.05)	benign(0.02)	13/17	.	hmmpanther:PTHR21634,hmmpanther:PTHR21634:SF11	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATGGCTCTT	.	5	BLCA
FSTL5	0	.	GRCh37	4	162697123	162697123	+	Silent	SNP	G	G	A	rs201353835	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513C>T	p.%3D	p.D171D	ENST00000306100	5/16	15	10	5	55	55	0	FSTL5,synonymous_variant,p.%3D,ENST00000379164,;FSTL5,synonymous_variant,p.%3D,ENST00000536695,;FSTL5,synonymous_variant,p.%3D,ENST00000427802,;FSTL5,synonymous_variant,p.%3D,ENST00000306100,;	A	ENSG00000168843	ENST00000306100	Transcript	synonymous_variant	950	513	171	D	gaC/gaT	rs201353835,COSM207542	.	.	-1	FSTL5	HGNC	21386	protein_coding	YES	CCDS3802.1	ENSP00000305334	FSTL5_HUMAN	Q4W5Q0_HUMAN,Q4W5K3_HUMAN,Q4W5F8_HUMAN	UPI000020B66B	.	.	.	5/16	.	Gene3D:1.10.238.10,hmmpanther:PTHR10913:SF44,hmmpanther:PTHR10913	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D172N|c.514G>A|3	MUTECT|SOMATICSNIPER|MUSE	ATGTCGTCGCC	byCluster|by1000G	3	BLCA
RBPJ	0	.	GRCh37	4	26322582	26322582	+	Intron	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59+145G>A	.	.	ENST00000342295	.	69	51	18	59	58	1	RBPJ,5_prime_UTR_variant,,ENST00000355476,;RBPJ,5_prime_UTR_variant,,ENST00000348160,;RBPJ,5_prime_UTR_variant,,ENST00000509158,;RBPJ,intron_variant,,ENST00000345843,;RBPJ,intron_variant,,ENST00000506956,;RBPJ,intron_variant,,ENST00000512351,;RBPJ,intron_variant,,ENST00000342295,;RBPJ,intron_variant,,ENST00000361572,;RBPJ,intron_variant,,ENST00000510778,;RBPJ,intron_variant,,ENST00000512671,;RBPJ,intron_variant,,ENST00000514807,;RBPJ,upstream_gene_variant,,ENST00000514730,;RBPJ,upstream_gene_variant,,ENST00000507561,;RBPJ,upstream_gene_variant,,ENST00000505958,;RBPJ,upstream_gene_variant,,ENST00000507574,;RBPJ,upstream_gene_variant,,ENST00000514675,;RBPJ,upstream_gene_variant,,ENST00000511401,;RBPJ,upstream_gene_variant,,ENST00000515023,;RBPJ,intron_variant,,ENST00000514380,;RBPJ,upstream_gene_variant,,ENST00000513182,;	A	ENSG00000168214	ENST00000342295	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RBPJ	HGNC	5724	protein_coding	YES	CCDS3437.1	ENSP00000345206	SUH_HUMAN	D6RBQ8_HUMAN,D6RB37_HUMAN,D6RA45_HUMAN,D6R946_HUMAN	UPI000020BDF1	.	.	.	.	2/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGGGAGAGG	.	5	BLCA
HGFAC	0	.	GRCh37	4	3449359	3449359	+	Splice_Site	SNP	G	G	A	rs754020701	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1495+1G>A	.	p.X499_splice	ENST00000382774	.	662	393	269	385	385	0	HGFAC,splice_donor_variant,,ENST00000382774,;HGFAC,splice_donor_variant,,ENST00000511533,;HGFAC,splice_donor_variant,,ENST00000506132,;HGFAC,splice_donor_variant,,ENST00000509689,;	A	ENSG00000109758	ENST00000382774	Transcript	splice_donor_variant	.	.	.	.	.	rs754020701,COSM1310024	.	.	1	HGFAC	HGNC	4894	protein_coding	YES	CCDS3369.1	ENSP00000372224	HGFA_HUMAN	.	UPI0000000826	.	.	.	.	11/13	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCGGTGAGC	.	5	BLCA
ARAP2	0	.	GRCh37	4	36231078	36231078	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.31A>G	p.Ile11Val	p.I11V	ENST00000303965	2/33	51	41	10	78	78	0	ARAP2,missense_variant,p.Ile11Val,ENST00000506189,;ARAP2,missense_variant,p.Ile11Val,ENST00000303965,;ARAP2,non_coding_transcript_exon_variant,,ENST00000508066,;	C	ENSG00000047365	ENST00000303965	Transcript	missense_variant	521	31	11	I/V	Ata/Gta	COSM1310027	.	.	-1	ARAP2	HGNC	16924	protein_coding	YES	CCDS3441.1	ENSP00000302895	ARAP2_HUMAN	D6RAD6_HUMAN	UPI000013E917	.	deleterious(0.04)	benign(0.257)	2/33	.	PROSITE_profiles:PS50105,Pfam_domain:PF00536,Gene3D:1.10.150.50,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTATATCCA	.	5	BLCA
KCTD8	0	.	GRCh37	4	44177154	44177154	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075A>G	p.Ser359Gly	p.S359G	ENST00000360029	2/2	60	41	18	81	81	0	KCTD8,missense_variant,p.Ser95Gly,ENST00000515268,;KCTD8,missense_variant,p.Ser359Gly,ENST00000360029,;	C	ENSG00000183783	ENST00000360029	Transcript	missense_variant	1359	1075	359	S/G	Agt/Ggt	COSM1310082	.	.	-1	KCTD8	HGNC	22394	protein_coding	YES	CCDS3467.1	ENSP00000353129	KCTD8_HUMAN	B4DQJ9_HUMAN	UPI00001C08D6	.	tolerated(0.23)	possibly_damaging(0.899)	2/2	.	hmmpanther:PTHR14499:SF68,hmmpanther:PTHR14499	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAACTGGAAG	.	5	BLCA
FRYL	0	.	GRCh37	4	48577219	48577219	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2761A>G	p.Ile921Val	p.I921V	ENST00000358350	25/64	37	32	5	54	54	0	FRYL,missense_variant,p.Ile921Val,ENST00000358350,;FRYL,missense_variant,p.Ile921Val,ENST00000503238,;FRYL,missense_variant,p.Ile921Val,ENST00000507711,;FRYL,missense_variant,p.Ile921Val,ENST00000537810,;FRYL,5_prime_UTR_variant,,ENST00000264319,;RNU5E-3P,upstream_gene_variant,,ENST00000515913,;FRYL,upstream_gene_variant,,ENST00000511343,;	C	ENSG00000075539	ENST00000358350	Transcript	missense_variant	3366	2761	921	I/V	Ata/Gta	COSM1310103	.	.	-1	FRYL	HGNC	29127	protein_coding	YES	CCDS43227.1	ENSP00000351113	FRYL_HUMAN	.	UPI0000EBC149	.	tolerated(0.47)	benign(0.002)	25/64	.	Superfamily_domains:SSF48371,hmmpanther:PTHR12295:SF9,hmmpanther:PTHR12295	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTATGTGCT	.	4	BLCA
OCIAD1	0	.	GRCh37	4	48859275	48859275	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.593C>G	p.Thr198Arg	p.T198R	ENST00000381473	8/9	12	6	6	31	31	0	OCIAD1,missense_variant,p.Thr198Arg,ENST00000513391,;OCIAD1,missense_variant,p.Thr198Arg,ENST00000508293,;OCIAD1,missense_variant,p.Thr198Arg,ENST00000264312,;OCIAD1,missense_variant,p.Thr144Arg,ENST00000503016,;OCIAD1,missense_variant,p.Thr198Arg,ENST00000381473,;OCIAD1,missense_variant,p.Thr171Arg,ENST00000509122,;OCIAD1,intron_variant,,ENST00000425583,;OCIAD1,intron_variant,,ENST00000506801,;OCIAD1,intron_variant,,ENST00000396448,;OCIAD1,intron_variant,,ENST00000444354,;OCIAD1,downstream_gene_variant,,ENST00000505922,;OCIAD1-AS1,intron_variant,,ENST00000513576,;OCIAD1,intron_variant,,ENST00000508329,;OCIAD1,downstream_gene_variant,,ENST00000512981,;OCIAD1,non_coding_transcript_exon_variant,,ENST00000502972,;	G	ENSG00000109180	ENST00000381473	Transcript	missense_variant	1011	593	198	T/R	aCa/aGa	COSM1310107	.	.	1	OCIAD1	HGNC	16074	protein_coding	YES	CCDS3484.1	ENSP00000370882	OCAD1_HUMAN	D6RIT9_HUMAN,D6RI08_HUMAN,D6RG39_HUMAN,D6RF07_HUMAN,D6RF01_HUMAN,D6RDK6_HUMAN,D6RDK1_HUMAN,D6RDI5_HUMAN,D6RC55_HUMAN,D6RBC5_HUMAN,D6RA54_HUMAN,D6R918_HUMAN	UPI0000073D7F	.	tolerated(0.06)	probably_damaging(0.976)	8/9	.	hmmpanther:PTHR13336:SF4,hmmpanther:PTHR13336	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	TATTACATATG	.	4	BLCA
SCFD2	0	.	GRCh37	4	54232001	54232001	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108G>T	p.%3D	p.L36L	ENST00000401642	1/9	154	77	76	79	79	0	SCFD2,synonymous_variant,p.%3D,ENST00000388940,;SCFD2,synonymous_variant,p.%3D,ENST00000401642,;SCFD2,intron_variant,,ENST00000503450,;	A	ENSG00000184178	ENST00000401642	Transcript	synonymous_variant	242	108	36	L	ctG/ctT	COSM1310122	.	.	-1	SCFD2	HGNC	30676	protein_coding	YES	CCDS33984.1	ENSP00000384182	SCFD2_HUMAN	D6RCK6_HUMAN	UPI000006FB05	.	.	.	1/9	.	hmmpanther:PTHR11679:SF29,hmmpanther:PTHR11679	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTGCAGGCT	.	5	BLCA
ODAM	0	.	GRCh37	4	71068501	71068501	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.677A>G	p.Gln226Arg	p.Q226R	ENST00000396094	9/11	22	15	7	36	36	0	ODAM,missense_variant,p.Gln163Arg,ENST00000514097,;ODAM,missense_variant,p.Gln226Arg,ENST00000396094,;ODAM,missense_variant,p.Gln212Arg,ENST00000510709,;ODAM,3_prime_UTR_variant,,ENST00000510847,;ODAM,downstream_gene_variant,,ENST00000506248,;	G	ENSG00000109205	ENST00000396094	Transcript	missense_variant	725	677	226	Q/R	cAa/cGa	COSM1310221	.	.	1	ODAM	HGNC	26043	protein_coding	YES	CCDS3536.2	ENSP00000379401	ODAM_HUMAN	.	UPI0000413A02	.	deleterious(0.02)	possibly_damaging(0.607)	9/11	.	hmmpanther:PTHR16237,hmmpanther:PTHR16237:SF2,Pfam_domain:PF15424	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTACAAAAAG	.	5	BLCA
GRSF1	0	.	GRCh37	4	71693625	71693625	+	Missense_Mutation	SNP	T	T	C	rs752414097	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1079A>G	p.His360Arg	p.H360R	ENST00000254799	6/10	83	62	21	140	140	0	GRSF1,missense_variant,p.His333Arg,ENST00000499044,;GRSF1,missense_variant,p.His198Arg,ENST00000439371,;GRSF1,missense_variant,p.His242Arg,ENST00000545193,;GRSF1,missense_variant,p.His297Arg,ENST00000514161,;GRSF1,missense_variant,p.His360Arg,ENST00000254799,;GRSF1,missense_variant,p.His198Arg,ENST00000502323,;GRSF1,intron_variant,,ENST00000508091,;GRSF1,3_prime_UTR_variant,,ENST00000506453,;GRSF1,non_coding_transcript_exon_variant,,ENST00000505068,;	C	ENSG00000132463	ENST00000254799	Transcript	missense_variant	1197	1079	360	H/R	cAt/cGt	rs752414097,COSM1310234	.	.	-1	GRSF1	HGNC	4610	protein_coding	YES	CCDS47069.1	ENSP00000254799	GRSF1_HUMAN	.	UPI0001838834	.	tolerated(0.39)	benign(0.013)	6/10	.	hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF26	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCATGTTCT	.	5	BLCA
WDFY3	0	.	GRCh37	4	85731400	85731400	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1985A>G	p.Glu662Gly	p.E662G	ENST00000295888	14/68	43	31	11	59	59	0	WDFY3,missense_variant,p.Glu662Gly,ENST00000295888,;WDFY3,missense_variant,p.Glu662Gly,ENST00000322366,;WDFY3-AS1,non_coding_transcript_exon_variant,,ENST00000510449,;WDFY3,upstream_gene_variant,,ENST00000505923,;WDFY3,non_coding_transcript_exon_variant,,ENST00000426414,;	C	ENSG00000163625	ENST00000295888	Transcript	missense_variant	2393	1985	662	E/G	gAa/gGa	COSM1310337	.	.	-1	WDFY3	HGNC	20751	protein_coding	YES	CCDS3609.1	ENSP00000295888	WDFY3_HUMAN	D6RJE4_HUMAN,A7E1Z6_HUMAN	UPI000013E2C7	.	tolerated(0.1)	probably_damaging(0.992)	14/68	.	Gene3D:1.25.10.10,hmmpanther:PTHR13743:SF55,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTTCCATA	.	5	BLCA
UNC5C	0	.	GRCh37	4	96222795	96222795	+	Missense_Mutation	SNP	C	C	T	rs748735330	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.452G>A	p.Gly151Asp	p.G151D	ENST00000453304	3/16	84	72	12	86	86	0	UNC5C,missense_variant,p.Gly151Asp,ENST00000506749,;UNC5C,missense_variant,p.Gly151Asp,ENST00000513796,;UNC5C,missense_variant,p.Gly151Asp,ENST00000453304,;UNC5C,missense_variant,p.Gly151Asp,ENST00000504962,;	T	ENSG00000182168	ENST00000453304	Transcript	missense_variant	801	452	151	G/D	gGt/gAt	rs748735330	.	.	-1	UNC5C	HGNC	12569	protein_coding	YES	CCDS3643.1	ENSP00000406022	UNC5C_HUMAN	Q4W5H4_HUMAN	UPI000004E6A5	.	deleterious(0)	probably_damaging(1)	3/16	.	Superfamily_domains:SSF48726,Gene3D:2.60.40.10,hmmpanther:PTHR12582,hmmpanther:PTHR12582:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTACCCGCG	.	4	BLCA
PJA2	0	.	GRCh37	5	108680459	108680459	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1826G>C	p.Ser609Thr	p.S609T	ENST00000361189	8/10	61	28	33	113	113	0	PJA2,missense_variant,p.Ser609Thr,ENST00000361189,;PJA2,missense_variant,p.Ser609Thr,ENST00000361557,;	G	ENSG00000198961	ENST00000361189	Transcript	missense_variant	2066	1826	609	S/T	aGt/aCt	COSM1310422	.	.	-1	PJA2	HGNC	17481	protein_coding	YES	CCDS4099.1	ENSP00000354775	PJA2_HUMAN	.	UPI000013D192	.	tolerated(1)	benign(0.109)	8/10	.	hmmpanther:PTHR15710,hmmpanther:PTHR15710:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTACTAGCT	.	5	BLCA
CHSY3	0	.	GRCh37	5	129520908	129520908	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2073G>A	p.Met691Ile	p.M691I	ENST00000305031	3/3	21	6	14	31	31	0	CHSY3,missense_variant,p.Met691Ile,ENST00000305031,;CHSY3,downstream_gene_variant,,ENST00000507545,;	A	ENSG00000198108	ENST00000305031	Transcript	missense_variant	2431	2073	691	M/I	atG/atA	COSM1310503	.	.	1	CHSY3	HGNC	24293	protein_coding	YES	CCDS34223.1	ENSP00000302629	CHSS3_HUMAN	Q1JTV1_HUMAN	UPI0000251E08	.	tolerated(0.44)	benign(0.017)	3/3	.	hmmpanther:PTHR12369,hmmpanther:PTHR12369:SF18,Pfam_domain:PF05679,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATGAAGGG	.	5	BLCA
FNIP1	0	.	GRCh37	5	131008068	131008068	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2069A>G	p.Asp690Gly	p.D690G	ENST00000510461	14/18	137	44	93	232	232	0	FNIP1,missense_variant,p.Asp662Gly,ENST00000307968,;FNIP1,missense_variant,p.Asp690Gly,ENST00000510461,;FNIP1,missense_variant,p.Asp645Gly,ENST00000307954,;CTC-432M15.3,intron_variant,,ENST00000514667,;	C	ENSG00000217128	ENST00000510461	Transcript	missense_variant	2165	2069	690	D/G	gAc/gGc	COSM1310509	.	.	-1	FNIP1	HGNC	29418	protein_coding	YES	CCDS34227.1	ENSP00000421985	FNIP1_HUMAN	B3KX44_HUMAN	UPI00001AEE81	.	tolerated_low_confidence(0.18)	benign(0.236)	14/18	.	hmmpanther:PTHR21634,hmmpanther:PTHR21634:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTGTCTACT	.	5	BLCA
PCDHB6	0	.	GRCh37	5	140531611	140531611	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1773C>T	p.%3D	p.D591D	ENST00000231136	1/1	52	24	28	51	51	0	PCDHB6,synonymous_variant,p.%3D,ENST00000543635,;PCDHB6,synonymous_variant,p.%3D,ENST00000231136,;PCDHB17,upstream_gene_variant,,ENST00000539533,;	T	ENSG00000113211	ENST00000231136	Transcript	synonymous_variant	1773	1773	591	D	gaC/gaT	.	.	.	1	PCDHB6	HGNC	8691	protein_coding	YES	CCDS4248.1	ENSP00000231136	PCDB6_HUMAN	F5H446_HUMAN	UPI00001273E2	.	.	.	1/1	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF104,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GTGGACGGCGA	.	3	BLCA
ARHGAP26	0	.	GRCh37	5	142513586	142513586	+	Missense_Mutation	SNP	C	C	G	rs762950382	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1753C>G	p.Arg585Gly	p.R585G	ENST00000274498	19/23	189	47	141	183	183	0	ARHGAP26,missense_variant,p.Arg585Gly,ENST00000274498,;ARHGAP26,missense_variant,p.Arg157Gly,ENST00000418236,;ARHGAP26,missense_variant,p.Arg204Gly,ENST00000443674,;ARHGAP26,missense_variant,p.Arg585Gly,ENST00000378004,;ARHGAP26,missense_variant,p.Arg30Gly,ENST00000424007,;ARHGAP26,missense_variant,p.Arg31Gly,ENST00000419676,;ARHGAP26,non_coding_transcript_exon_variant,,ENST00000489924,;	G	ENSG00000145819	ENST00000274498	Transcript	missense_variant	2131	1753	585	R/G	Cgg/Ggg	rs762950382,COSM1310804	.	.	1	ARHGAP26	HGNC	17073	protein_coding	YES	CCDS4277.1	ENSP00000274498	RHG26_HUMAN	Q9HBW4_HUMAN,Q8NFJ1_HUMAN,C9J6V4_HUMAN	UPI0000130D6B	.	deleterious(0.05)	benign(0.003)	19/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12552:SF4,hmmpanther:PTHR12552	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCGGAAG	byFrequency	5	BLCA
FAT2	0	.	GRCh37	5	150947267	150947267	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1226A>T	p.Asn409Ile	p.N409I	ENST00000261800	1/23	43	10	33	71	70	1	FAT2,missense_variant,p.Asn409Ile,ENST00000261800,;	A	ENSG00000086570	ENST00000261800	Transcript	missense_variant	1239	1226	409	N/I	aAt/aTt	COSM1310874	.	.	-1	FAT2	HGNC	3596	protein_coding	YES	CCDS4317.1	ENSP00000261800	FAT2_HUMAN	.	UPI0000055B22	.	.	possibly_damaging(0.714)	1/23	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF37,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R411*|c.1231C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCATTAAGT	.	5	BLCA
CNOT8	0	.	GRCh37	5	154250228	154250228	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319A>G	p.Met107Val	p.M107V	ENST00000517876	5/8	26	8	17	69	69	0	CNOT8,start_lost,p.Met1?,ENST00000521583,;CNOT8,start_lost,p.Met1?,ENST00000520671,;CNOT8,start_lost,p.Met1?,ENST00000521450,;CNOT8,start_lost,p.Met1?,ENST00000519903,;CNOT8,start_lost,p.Met1?,ENST00000523698,;CNOT8,missense_variant,p.Met107Val,ENST00000285896,;CNOT8,missense_variant,p.Met107Val,ENST00000519211,;CNOT8,missense_variant,p.Met107Val,ENST00000520472,;CNOT8,missense_variant,p.Met107Val,ENST00000517568,;CNOT8,missense_variant,p.Met107Val,ENST00000517876,;CNOT8,missense_variant,p.Met107Val,ENST00000403027,;CNOT8,intron_variant,,ENST00000519404,;CNOT8,intron_variant,,ENST00000524105,;CNOT8,intron_variant,,ENST00000522458,;CNOT8,intron_variant,,ENST00000518775,;CNOT8,downstream_gene_variant,,ENST00000521402,;CNOT8,missense_variant,p.His42Arg,ENST00000521729,;CNOT8,3_prime_UTR_variant,,ENST00000522644,;CNOT8,non_coding_transcript_exon_variant,,ENST00000522139,;	G	ENSG00000155508	ENST00000517876	Transcript	missense_variant	795	319	107	M/V	Atg/Gtg	COSM1310883	.	.	1	CNOT8	HGNC	9207	protein_coding	YES	CCDS4329.1	ENSP00000430493	CNOT8_HUMAN	E5RK92_HUMAN,E5RJC5_HUMAN,E5RIU0_HUMAN,E5RHG0_HUMAN,E5RGE4_HUMAN,E5RFJ4_HUMAN,B7Z9U0_HUMAN,B7Z5Z0_HUMAN,B0AZS3_HUMAN	UPI0000000E08	.	tolerated(0.14)	benign(0.073)	5/8	.	Superfamily_domains:SSF53098,Gene3D:3.30.420.10,Pfam_domain:PF04857,hmmpanther:PTHR10797,hmmpanther:PTHR10797:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACATGTAC	.	5	BLCA
PDZD2	0	.	GRCh37	5	32048677	32048677	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1552T>C	p.Tyr518His	p.Y518H	ENST00000438447	8/25	109	50	59	45	45	0	PDZD2,missense_variant,p.Tyr518His,ENST00000438447,;PDZD2,missense_variant,p.Tyr518His,ENST00000282493,;PDZD2,non_coding_transcript_exon_variant,,ENST00000502489,;PDZD2,upstream_gene_variant,,ENST00000509256,;	C	ENSG00000133401	ENST00000438447	Transcript	missense_variant	1940	1552	518	Y/H	Tat/Cat	COSM1311092	.	.	1	PDZD2	HGNC	18486	protein_coding	YES	CCDS34137.1	ENSP00000402033	PDZD2_HUMAN	B4DGS3_HUMAN	UPI000069648B	.	tolerated(0.18)	probably_damaging(0.999)	8/25	.	hmmpanther:PTHR11324:SF16,hmmpanther:PTHR11324	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAATATAAC	.	5	BLCA
PDZD2	0	.	GRCh37	5	32089375	32089375	+	Nonsense_Mutation	SNP	G	G	T	rs200361032	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5821G>T	p.Glu1941Ter	p.E1941*	ENST00000438447	20/25	201	96	104	98	98	0	PDZD2,stop_gained,p.Glu1941Ter,ENST00000438447,;PDZD2,stop_gained,p.Glu1941Ter,ENST00000282493,;	T	ENSG00000133401	ENST00000438447	Transcript	stop_gained	6209	5821	1941	E/*	Gag/Tag	rs200361032,COSM1311099	.	.	1	PDZD2	HGNC	18486	protein_coding	YES	CCDS34137.1	ENSP00000402033	PDZD2_HUMAN	B4DGS3_HUMAN	UPI000069648B	.	.	.	20/25	.	hmmpanther:PTHR11324:SF16,hmmpanther:PTHR11324	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCACGAGGAC	byCluster	5	BLCA
SPEF2	0	.	GRCh37	5	35779431	35779431	+	Nonsense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4430T>G	p.Leu1477Ter	p.L1477*	ENST00000356031	30/37	67	30	36	34	34	0	SPEF2,stop_gained,p.Leu1472Ter,ENST00000440995,;SPEF2,stop_gained,p.Leu1477Ter,ENST00000356031,;SPEF2,5_prime_UTR_variant,,ENST00000303129,;CTD-2113L7.1,intron_variant,,ENST00000510433,;SPEF2,stop_gained,p.Leu55Ter,ENST00000513078,;SPEF2,stop_gained,p.Leu128Ter,ENST00000506526,;	G	ENSG00000152582	ENST00000356031	Transcript	stop_gained	4584	4430	1477	L/*	tTa/tGa	COSM1311118	.	.	1	SPEF2	HGNC	26293	protein_coding	YES	CCDS43309.1	ENSP00000348314	SPEF2_HUMAN	.	UPI0001505B9F	.	.	.	30/37	.	hmmpanther:PTHR14919,hmmpanther:PTHR14919:SF0,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTTCTTAGATA	.	3	BLCA
C7	0	.	GRCh37	5	40972587	40972587	+	Silent	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1965G>C	p.%3D	p.V655V	ENST00000313164	15/18	80	73	7	54	54	0	C7,synonymous_variant,p.%3D,ENST00000313164,;C7,upstream_gene_variant,,ENST00000494960,;C7,non_coding_transcript_exon_variant,,ENST00000486779,;C7,non_coding_transcript_exon_variant,,ENST00000513922,;C7,upstream_gene_variant,,ENST00000464864,;RP11-301A5.2,upstream_gene_variant,,ENST00000504890,;	C	ENSG00000112936	ENST00000313164	Transcript	synonymous_variant	2324	1965	655	V	gtG/gtC	COSM127510,COSM1311153	.	.	1	C7	HGNC	1346	protein_coding	YES	CCDS47201.1	ENSP00000322061	CO7_HUMAN	.	UPI000020CA08	.	.	.	15/18	.	PROSITE_profiles:PS50923,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	AAGGTGACTGT	.	3	BLCA
MROH2B	0	.	GRCh37	5	41045898	41045898	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1786C>G	p.Gln596Glu	p.Q596E	ENST00000399564	18/42	257	118	139	230	230	0	MROH2B,missense_variant,p.Gln151Glu,ENST00000506092,;MROH2B,missense_variant,p.Gln596Glu,ENST00000399564,;MROH2B,non_coding_transcript_exon_variant,,ENST00000515297,;MROH2B,non_coding_transcript_exon_variant,,ENST00000503890,;MROH2B,downstream_gene_variant,,ENST00000508575,;	C	ENSG00000171495	ENST00000399564	Transcript	missense_variant	2237	1786	596	Q/E	Cag/Gag	COSM1311156,COSM1209467	.	.	-1	MROH2B	HGNC	26857	protein_coding	YES	CCDS47202.1	ENSP00000382476	MRO2B_HUMAN	F5GZ06_HUMAN	UPI000020CA04	.	tolerated(0.18)	benign(0.004)	18/42	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF15,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGAGTCA	.	5	BLCA
NIM1K	0	.	GRCh37	5	43277375	43277375	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509A>T	p.Glu170Val	p.E170V	ENST00000512796	3/4	127	90	36	78	78	0	NIM1K,missense_variant,p.Glu170Val,ENST00000512796,;NIM1K,missense_variant,p.Glu170Val,ENST00000326035,;	T	ENSG00000177453	ENST00000512796	Transcript	missense_variant	2008	509	170	E/V	gAa/gTa	COSM1311160	.	.	1	NIM1K	HGNC	28646	protein_coding	YES	CCDS3943.1	ENSP00000420849	NIM1_HUMAN	.	UPI0000035B5F	.	deleterious(0)	probably_damaging(0.988)	3/4	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343,hmmpanther:PTHR24343:SF106,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGAACCAG	.	5	BLCA
F2RL1	0	.	GRCh37	5	76129480	76129480	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>C	p.Asp350His	p.D350H	ENST00000296677	2/2	215	63	151	329	329	0	F2RL1,missense_variant,p.Asp350His,ENST00000296677,;F2RL1,downstream_gene_variant,,ENST00000514165,;RN7SL208P,downstream_gene_variant,,ENST00000577964,;	C	ENSG00000164251	ENST00000296677	Transcript	missense_variant	1254	1048	350	D/H	Gat/Cat	COSM1311325	.	.	1	F2RL1	HGNC	3538	protein_coding	YES	CCDS4033.1	ENSP00000296677	PAR2_HUMAN	D6RJH3_HUMAN	UPI000013E36E	.	deleterious(0)	benign(0.373)	2/2	.	Prints_domain:PR00237,Prints_domain:PR01152,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR24232,hmmpanther:PTHR24232:SF21	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATGATTTC	.	5	BLCA
ACOT12	0	.	GRCh37	5	80689943	80689943	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-10C>T	.	.	ENST00000307624	1/15	18	5	12	12	12	0	ACOT12,5_prime_UTR_variant,,ENST00000307624,;ACOT12,5_prime_UTR_variant,,ENST00000513751,;	A	ENSG00000172497	ENST00000307624	Transcript	5_prime_UTR_variant	20	.	.	.	.	.	.	.	-1	ACOT12	HGNC	24436	protein_coding	YES	CCDS4055.1	ENSP00000303246	ACO12_HUMAN	.	UPI0000126D7B	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGCGAGAGC	.	5	BLCA
AIM1	0	.	GRCh37	6	107011686	107011686	+	Silent	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4962T>G	p.%3D	p.S1654S	ENST00000369066	19/20	79	39	39	80	80	0	AIM1,synonymous_variant,p.%3D,ENST00000369066,;AIM1,synonymous_variant,p.%3D,ENST00000535438,;	G	ENSG00000112297	ENST00000369066	Transcript	synonymous_variant	5449	4962	1654	S	tcT/tcG	COSM1311436	.	.	1	AIM1	HGNC	356	protein_coding	YES	CCDS34506.1	ENSP00000358062	AIM1_HUMAN	B3KPT0_HUMAN	UPI000013C91D	.	.	.	19/20	.	PROSITE_profiles:PS50231,hmmpanther:PTHR11818:SF2,hmmpanther:PTHR11818,Pfam_domain:PF00652,Gene3D:2.80.10.50,SMART_domains:SM00458,Superfamily_domains:SSF50370	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATCTGGCTC	.	5	BLCA
SMPD2	0	.	GRCh37	6	109765030	109765042	+	Frame_Shift_Del	DEL	GGCCCAGGATCTG	GGCCCAGGATCTG	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	GGCCCAGGATCTG	GGCCCAGGATCTG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1201_1213delGATCTGGGCCCAG	p.Asp401SerfsTer?	p.D401Sfs*?	ENST00000258052	10/10	74	65	8	60	60	0	SMPD2,frameshift_variant,p.Asp401SerfsTer?,ENST00000258052,;PPIL6,upstream_gene_variant,,ENST00000440797,;PPIL6,upstream_gene_variant,,ENST00000521072,;PPIL6,upstream_gene_variant,,ENST00000424445,;PPIL6,upstream_gene_variant,,ENST00000520723,;MICAL1,downstream_gene_variant,,ENST00000358807,;SMPD2,downstream_gene_variant,,ENST00000458487,;PPIL6,upstream_gene_variant,,ENST00000417394,;PPIL6,upstream_gene_variant,,ENST00000518648,;MICAL1,downstream_gene_variant,,ENST00000433205,;MICAL1,downstream_gene_variant,,ENST00000358577,;MICAL1,downstream_gene_variant,,ENST00000368952,;PPIL6,upstream_gene_variant,,ENST00000447468,;MICAL1,downstream_gene_variant,,ENST00000456101,;MICAL1,downstream_gene_variant,,ENST00000465904,;SMPD2,downstream_gene_variant,,ENST00000439615,;	-	ENSG00000135587	ENST00000258052	Transcript	frameshift_variant	1553-1565	1194-1206	398-402	EAQDL/X	gaGGCCCAGGATCTG/ga	.	.	.	1	SMPD2	HGNC	11121	protein_coding	YES	CCDS5075.1	ENSP00000258052	NSMA_HUMAN	.	UPI000013CFAC	.	.	.	10/10	.	hmmpanther:PTHR12393	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	7	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	AAGGGAGGCCCAGGATCTGGGCCC	.	2	BLCA
CDK19	0	.	GRCh37	6	111136211	111136211	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.128+1G>A	.	p.X43_splice	ENST00000368911	.	147	96	50	104	104	0	CDK19,splice_donor_variant,,ENST00000457688,;CDK19,splice_donor_variant,,ENST00000368911,;CDK19,intron_variant,,ENST00000323817,;CDK19,splice_donor_variant,,ENST00000468997,;CDK19,splice_donor_variant,,ENST00000460913,;CDK19,intron_variant,,ENST00000497709,;	T	ENSG00000155111	ENST00000368911	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	CDK19	HGNC	19338	protein_coding	YES	CCDS5085.1	ENSP00000357907	CDK19_HUMAN	Q5JQZ9_HUMAN	UPI0000070643	.	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTACCCATC	.	5	BLCA
SERINC1	0	.	GRCh37	6	122775333	122775333	+	Silent	SNP	A	A	G	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414T>C	p.%3D	p.I138I	ENST00000339697	4/10	14	7	7	32	32	0	SERINC1,synonymous_variant,p.%3D,ENST00000339697,;	G	ENSG00000111897	ENST00000339697	Transcript	synonymous_variant	499	414	138	I	atT/atC	.	.	.	-1	SERINC1	HGNC	13464	protein_coding	YES	CCDS5125.1	ENSP00000342962	SERC1_HUMAN	.	UPI000004E6A2	.	.	.	4/10	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10383,hmmpanther:PTHR10383:SF15,Pfam_domain:PF03348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GCCCCAATAAT	.	4	BLCA
SASH1	0	.	GRCh37	6	148865308	148865308	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2702C>A	p.Ser901Tyr	p.S901Y	ENST00000367467	18/20	150	115	34	153	153	0	SASH1,missense_variant,p.Ser901Tyr,ENST00000367467,;	A	ENSG00000111961	ENST00000367467	Transcript	missense_variant	3177	2702	901	S/Y	tCt/tAt	COSM1311651	.	.	1	SASH1	HGNC	19182	protein_coding	YES	CCDS5212.1	ENSP00000356437	SASH1_HUMAN	.	UPI00003519AE	.	deleterious_low_confidence(0.01)	possibly_damaging(0.526)	18/20	.	hmmpanther:PTHR12301:SF3,hmmpanther:PTHR12301	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTGAAC	.	5	BLCA
AKAP12	0	.	GRCh37	6	151626879	151626879	+	Intron	SNP	T	T	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.163-3T>C	.	.	ENST00000402676	.	36	21	14	42	42	0	AKAP12,splice_region_variant,,ENST00000253332,;AKAP12,splice_region_variant,,ENST00000402676,;	C	ENSG00000131016	ENST00000402676	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	AKAP12	HGNC	370	protein_coding	YES	CCDS5229.1	ENSP00000384537	AKA12_HUMAN	.	UPI000013CDC7	.	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCATAGCTC	.	4	BLCA
CNKSR3	0	.	GRCh37	6	154762424	154762424	+	Splice_Site	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507+2T>G	.	p.X169_splice	ENST00000607772	.	36	30	6	60	60	0	CNKSR3,splice_donor_variant,,ENST00000607772,;CNKSR3,splice_donor_variant,,ENST00000479339,;	C	ENSG00000153721	ENST00000607772	Transcript	splice_donor_variant	.	.	.	.	.	COSM1311737	.	.	-1	CNKSR3	HGNC	23034	protein_coding	YES	CCDS5246.1	ENSP00000475915	CNKR3_HUMAN	C9JN62_HUMAN,C9IZX4_HUMAN	UPI000020D0EA	.	.	.	.	4/12	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGACCTTC	.	5	BLCA
EZR	0	.	GRCh37	6	159188477	159188477	+	Frame_Shift_Del	DEL	G	G	-	rs139613796	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1412delC	p.Pro471ArgfsTer11	p.P471Rfs*11	ENST00000367075	13/14	194	142	52	90	90	0	EZR,frameshift_variant,p.Pro471ArgfsTer11,ENST00000337147,;EZR,frameshift_variant,p.Pro439ArgfsTer11,ENST00000392177,;EZR,frameshift_variant,p.Pro471ArgfsTer11,ENST00000367075,;SYTL3,downstream_gene_variant,,ENST00000367081,;SYTL3,downstream_gene_variant,,ENST00000297239,;SYTL3,downstream_gene_variant,,ENST00000360448,;MIR3918,upstream_gene_variant,,ENST00000581555,;	-	ENSG00000092820	ENST00000367075	Transcript	frameshift_variant	1581	1412	471	P/X	cCg/cg	rs139613796	.	.	-1	EZR	HGNC	12691	protein_coding	YES	CCDS5258.1	ENSP00000356042	EZRI_HUMAN	B7Z9R6_HUMAN	UPI0000167BA1	.	.	.	13/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23281,hmmpanther:PTHR23281:SF19,Pfam_domain:PF00769,PIRSF_domain:PIRSF002305	A:0.0016	A:0	A:0	.	A:0.0069	A:0	A:0.001	A:0.0002	A:0.0001	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGGGGCGGGGGT	byFrequency|byCluster|by1000G	3	BLCA
HIST1H2AG	0	.	GRCh37	6	27101228	27101228	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378G>A	p.%3D	p.K126K	ENST00000359193	1/1	107	71	35	62	62	0	HIST1H2AG,synonymous_variant,p.%3D,ENST00000359193,;HIST1H2BJ,upstream_gene_variant,,ENST00000541790,;HIST1H2BJ,upstream_gene_variant,,ENST00000339812,;HIST1H2BJ,upstream_gene_variant,,ENST00000607124,;HIST1H2BK,downstream_gene_variant,,ENST00000396891,;HIST1H2BJ,upstream_gene_variant,,ENST00000606923,;	A	ENSG00000196787	ENST00000359193	Transcript	synonymous_variant	397	378	126	K	aaG/aaA	COSM1311900	.	.	1	HIST1H2AG	HGNC	4737	protein_coding	YES	CCDS4619.1	ENSP00000352119	H2A1_HUMAN	A4FTV9_HUMAN,A3KPC7_HUMAN	UPI0000000E01	.	.	.	1/1	.	hmmpanther:PTHR23430:SF24,hmmpanther:PTHR23430,Gene3D:1.10.20.10,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAAGGCGAA	.	5	BLCA
ZNRD1	0	.	GRCh37	6	30029233	30029233	+	5'UTR	SNP	G	G	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-69G>T	.	.	ENST00000332435	1/4	49	27	21	52	52	0	ZNRD1,5_prime_UTR_variant,,ENST00000332435,;ZNRD1,intron_variant,,ENST00000359374,;ZNRD1,intron_variant,,ENST00000376785,;ZNRD1,intron_variant,,ENST00000376782,;ZNRD1-AS1,non_coding_transcript_exon_variant,,ENST00000437417,;ZNRD1-AS1,upstream_gene_variant,,ENST00000420251,;ZNRD1-AS1,upstream_gene_variant,,ENST00000452229,;ZNRD1-AS1,upstream_gene_variant,,ENST00000448093,;ZNRD1-AS1,upstream_gene_variant,,ENST00000422224,;ZNRD1-AS1,upstream_gene_variant,,ENST00000421692,;ZNRD1-AS1,upstream_gene_variant,,ENST00000425604,;ZNRD1-AS1,upstream_gene_variant,,ENST00000431012,;ZNRD1-AS1,upstream_gene_variant,,ENST00000376797,;ZNRD1,intron_variant,,ENST00000463141,;ZNRD1,non_coding_transcript_exon_variant,,ENST00000471008,;	T	ENSG00000066379	ENST00000332435	Transcript	5_prime_UTR_variant	203	.	.	.	.	.	.	.	1	ZNRD1	HGNC	13182	protein_coding	YES	CCDS4670.1	ENSP00000331111	RPA12_HUMAN	Q2L6J2_HUMAN	UPI00000437B6	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTACGACCTC	.	5	BLCA
TRIM31	0	.	GRCh37	6	30071549	30071549	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1042G>A	p.Gly348Arg	p.G348R	ENST00000376734	9/9	207	157	49	184	184	0	TRIM31,missense_variant,p.Gly348Arg,ENST00000376734,;TRIM31,missense_variant,p.Gly348Arg,ENST00000540829,;TRIM31-AS1,upstream_gene_variant,,ENST00000440874,;TRIM31,downstream_gene_variant,,ENST00000485864,;TRIM31,non_coding_transcript_exon_variant,,ENST00000471695,;TRIM31,downstream_gene_variant,,ENST00000484583,;TRIM31,downstream_gene_variant,,ENST00000468264,;TRIM31,downstream_gene_variant,,ENST00000480808,;	T	ENSG00000204616	ENST00000376734	Transcript	missense_variant	1168	1042	348	G/R	Ggg/Agg	COSM1311946	.	.	-1	TRIM31	HGNC	16289	protein_coding	YES	CCDS34374.1	ENSP00000365924	TRI31_HUMAN	Q2L6J1_HUMAN	UPI00001B0109	.	tolerated(0.25)	benign(0)	9/9	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCCCGATG	.	5	BLCA
MDC1	0	.	GRCh37	6	30672554	30672554	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4406C>A	p.Pro1469His	p.P1469H	ENST00000376406	10/15	213	120	92	179	179	0	MDC1,missense_variant,p.Pro1469His,ENST00000376406,;MDC1,missense_variant,p.Pro1205His,ENST00000376405,;MDC1,downstream_gene_variant,,ENST00000417033,;MDC1-AS1,intron_variant,,ENST00000442150,;MDC1,downstream_gene_variant,,ENST00000492462,;MDC1,upstream_gene_variant,,ENST00000489540,;	T	ENSG00000137337	ENST00000376406	Transcript	missense_variant	5054	4406	1469	P/H	cCt/cAt	COSM1311963,COSM1311962	.	.	-1	MDC1	HGNC	21163	protein_coding	YES	CCDS34384.1	ENSP00000365588	MDC1_HUMAN	A2AB07_HUMAN,A2AB06_HUMAN,A2AB05_HUMAN,A1Z5I9_HUMAN,A1Z5I7_HUMAN	UPI00001AF453	.	deleterious(0)	possibly_damaging(0.832)	10/15	.	hmmpanther:PTHR23196,hmmpanther:PTHR23196:SF10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGTAGGCTCA	.	5	BLCA
HLA-C	0	.	GRCh37	6	31239079	31239079	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.390C>T	p.%3D	p.D130D	ENST00000376228	3/8	307	264	43	148	148	0	HLA-C,synonymous_variant,p.%3D,ENST00000383329,;HLA-C,synonymous_variant,p.%3D,ENST00000376228,;HLA-C,synonymous_variant,p.%3D,ENST00000415537,;HLA-C,missense_variant,p.Arg125Trp,ENST00000376237,;HLA-C,non_coding_transcript_exon_variant,,ENST00000495835,;HLA-C,non_coding_transcript_exon_variant,,ENST00000484378,;HLA-C,non_coding_transcript_exon_variant,,ENST00000487245,;HLA-C,upstream_gene_variant,,ENST00000470363,;HLA-C,upstream_gene_variant,,ENST00000466892,;USP8P1,upstream_gene_variant,,ENST00000494673,;	A	ENSG00000204525	ENST00000376228	Transcript	synonymous_variant	405	390	130	D	gaC/gaT	COSM1311983,COSM1311984	.	.	-1	HLA-C	HGNC	4933	protein_coding	YES	CCDS34393.1	ENSP00000365402	1C07_HUMAN	S5DU09_HUMAN,S5DN70_HUMAN,S5DLG2_HUMAN,S5DLF2_HUMAN,S5DI32_HUMAN,S5DI31_HUMAN,S5DHQ8_HUMAN,S5DHQ4_HUMAN,Q6R739_HUMAN,N0A4B4_HUMAN,M9XMB2_HUMAN,M9PAK8_HUMAN,M9PAK7_HUMAN,M9PAG6_HUMAN,M9PAG3_HUMAN,M9PAG2_HUMAN,M9PAF9_HUMAN,M9PAF5_HUMAN,M9PAF4_HUMAN,M9PAF2_HUMAN,M9PAC6_HUMAN,M9PA33_HUMAN,M9P9W6_HUMAN,M9P9W3_HUMAN,M9P9V5_HUMAN,M9P9U9_HUMAN,M9P9U4_HUMAN,M9P9R9_HUMAN,M9P9P5_HUMAN,M9P9N1_HUMAN,M9P9M9_HUMAN,M9P9L6_HUMAN,M9P9L0_HUMAN,M9P9H8_HUMAN,M9P9H2_HUMAN,M9P9F8_HUMAN,M9P9F2_HUMAN,M9P9D8_HUMAN,M9P9A7_HUMAN,M9P971_HUMAN,M9P965_HUMAN,M9P962_HUMAN,M9P961_HUMAN,M9P959_HUMAN,M9P955_HUMAN,M9P944_HUMAN,M9P8M1_HUMAN,M9P8L9_HUMAN,M9P8L8_HUMAN,M9P8L7_HUMAN,M9P8L4_HUMAN,M9P8L2_HUMAN,M9P8L0_HUMAN,M9P8K5_HUMAN,Q9TNT2_HUMAN,Q9MY32_HUMAN,Q95HC2_HUMAN,Q8HWM5_HUMAN,Q8HWG1_HUMAN,Q5C9P9_HUMAN,Q29752_HUMAN,Q0MT77_HUMAN,O19579_HUMAN,K9L8F4_HUMAN,K9L7Z3_HUMAN,K9L7R8_HUMAN,K9L7R5_HUMAN,K9L7E8_HUMAN,J9PVP1_HUMAN,J9PVD3_HUMAN,J9PVC3_HUMAN,J7K040_HUMAN,J7JWN4_HUMAN,J7JHR0_HUMAN,I7APJ0_HUMAN,I7A4F1_HUMAN,I6TRY5_HUMAN,I6TRX6_HUMAN,I6TN19_HUMAN,I6TF01_HUMAN,I6SJ94_HUMAN,I6NXM6_HUMAN,I6NXH6_HUMAN,I6NS49_HUMAN,I6NN86_HUMAN,I6MHJ6_HUMAN,I6M570_HUMAN,I6M569_HUMAN,I2GUK7_HUMAN,H9BQ96_HUMAN,H9BQ94_HUMAN,H6V083_HUMAN,H6A2G1_HUMAN,H2DMK4_HUMAN,H2DMJ8_HUMAN,H2BE96_HUMAN,G9I2P1_HUMAN,G9I2N8_HUMAN,G9I2N5_HUMAN,G9I2N2_HUMAN,G9HWA9_HUMAN,G9HWA8_HUMAN,G9HW96_HUMAN,G9HW51_HUMAN,G3D6H6_HUMAN,G3D6G8_HUMAN,G3D6F7_HUMAN,G3D6F5_HUMAN,G3D6E6_HUMAN,G1EQI7_HUMAN,G1EQI3_HUMAN,G1EQH0_HUMAN,G1EQD5_HUMAN,G1EQ80_HUMAN,G1EQ55_HUMAN,G1ENX7_HUMAN,G1ENX4_HUMAN,G1ENX1_HUMAN,G1ENW1_HUMAN,G1ENW0_HUMAN,G1ENV4_HUMAN,G1ENV3_HUMAN,G1ENV2_HUMAN,G1ENT9_HUMAN,G1ENT7_HUMAN,G1ENT3_HUMAN,G1ENT1_HUMAN,G1ENT0_HUMAN,G1EMU8_HUMAN,G1EMU5_HUMAN,G1EMT8_HUMAN,G1EMT7_HUMAN,G1EMT3_HUMAN,G1EMT2_HUMAN,G1EMS4_HUMAN,G1EMS2_HUMAN,G1EMR7_HUMAN,G1EMR6_HUMAN,G1EMR4_HUMAN,G1EMR0_HUMAN,G1EMQ7_HUMAN,G0ZMM1_HUMAN,G0ZMJ9_HUMAN,G0X8S7_HUMAN,G0WVC4_HUMAN,F8SY67_HUMAN,F8SL02_HUMAN,F8SL01_HUMAN,F8SKZ7_HUMAN,F8SKZ5_HUMAN,F8SKZ4_HUMAN,F8SKY8_HUMAN,F8R8K2_HUMAN,F8R1B3_HUMAN,F6KVT8_HUMAN,F6KS12_HUMAN,F6KS10_HUMAN,F6KS09_HUMAN,F6KS07_HUMAN,F6KRY5_HUMAN,F6KRY2_HUMAN,F6KRY0_HUMAN,F6KRX9_HUMAN,F6KRX3_HUMAN,F6KRW4_HUMAN,F6KRW3_HUMAN,F6IQL8_HUMAN,F6IQL6_HUMAN,F6IQL4_HUMAN,F6IQL2_HUMAN,F6IQK7_HUMAN,F6IQK5_HUMAN,F6IQK4_HUMAN,F6IQK3_HUMAN,F6IQK2_HUMAN,F6IQK1_HUMAN,F6IQJ9_HUMAN,F4YU88_HUMAN,F4YU76_HUMAN,F2VNS0_HUMAN,F2VNR5_HUMAN,F2VNQ5_HUMAN,F2VNQ1_HUMAN,F1CCL2_HUMAN,F1CCK3_HUMAN,F1CCJ3_HUMAN,E3SWK0_HUMAN,E3SGA8_HUMAN,E3SGA7_HUMAN,E3SGA4_HUMAN,E3Q1I6_HUMAN,E2GJI9_HUMAN,E2GJH5_HUMAN,E2DHB8_HUMAN,E1Y7F7_HUMAN,E1U661_HUMAN,E0YTP0_HUMAN,E0YTN9_HUMAN,E0X9L4_HUMAN,E0WBV9_HUMAN,E0WBV8_HUMAN,D9UAZ7_HUMAN,D7RJ45_HUMAN,D7NQZ6_HUMAN,D7NP34_HUMAN,D6MLE9_HUMAN,D6MLD2_HUMAN,D6ML93_HUMAN,D6MKV1_HUMAN,D6MJJ2_HUMAN,D6MJI1_HUMAN,D6MJH9_HUMAN,D6C6F9_HUMAN,D6C6D5_HUMAN,D6C6D4_HUMAN,D6C6C3_HUMAN,D5M8B1_HUMAN,D5FZR1_HUMAN,D5FZM4_HUMAN,D3U749_HUMAN,D3U748_HUMAN,D3U733_HUMAN,D3U3P8_HUMAN,D3U3P6_HUMAN,D2DKH1_HUMAN,C9WEV2_HUMAN,C9WEV1_HUMAN,C9WEU1_HUMAN,C9WES3_HUMAN,C9WER9_HUMAN,C9WER5_HUMAN,C9WER2_HUMAN,C8CHA9_HUMAN,C8CH96_HUMAN,C7FDU3_HUMAN,C7FDU2_HUMAN,C7FDT6_HUMAN,C7EDP3_HUMAN,C7C4Z5_HUMAN,C6K4P2_HUMAN,C6K4N9_HUMAN,C6K4N7_HUMAN,C6K4M5_HUMAN,C6JSX9_HUMAN,C5J031_HUMAN,C5IZU8_HUMAN,C5IZU6_HUMAN,C0KJZ4_HUMAN,B9WPN5_HUMAN,B8Y6A8_HUMAN,B5BLP2_HUMAN,B1PQ27_HUMAN,B0JF23_HUMAN	UPI000008AEBB	.	.	.	3/8	.	hmmpanther:PTHR16675:SF157,hmmpanther:PTHR16675,Gene3D:3.30.500.10,Pfam_domain:PF00129,Superfamily_domains:SSF54452,Prints_domain:PR01638	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P129P|c.387C>G|3,BUFFER|p.P166P|c.498C>G|3,BUFFER|p.P129P|c.387C>G|3	RADIA|MUTECT|MUSE	CGCCCGTCGGG	.	3	BLCA
NOTCH4	0	.	GRCh37	6	32169985	32169985	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3623C>A	p.Pro1208Gln	p.P1208Q	ENST00000375023	21/30	213	131	82	107	107	0	NOTCH4,missense_variant,p.Pro1208Gln,ENST00000375023,;NOTCH4,upstream_gene_variant,,ENST00000443903,;NOTCH4,non_coding_transcript_exon_variant,,ENST00000474612,;	T	ENSG00000204301	ENST00000375023	Transcript	missense_variant	3762	3623	1208	P/Q	cCa/cAa	COSM1312052	.	.	-1	NOTCH4	HGNC	7884	protein_coding	YES	CCDS34420.1	ENSP00000364163	NOTC4_HUMAN	.	UPI0000130571	.	tolerated(0.22)	probably_damaging(0.983)	21/30	.	PROSITE_profiles:PS50258,hmmpanther:PTHR24033,PIRSF_domain:PIRSF002279,SMART_domains:SM00004	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTGGGACT	.	5	BLCA
TUBB2B	0	.	GRCh37	6	3225883	3225883	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.440T>G	p.Met147Arg	p.M147R	ENST00000259818	4/4	100	84	16	50	50	0	TUBB2B,missense_variant,p.Met147Arg,ENST00000259818,;TUBB2B,non_coding_transcript_exon_variant,,ENST00000473006,;	C	ENSG00000137285	ENST00000259818	Transcript	missense_variant	632	440	147	M/R	aTg/aGg	.	.	.	-1	TUBB2B	HGNC	30829	protein_coding	YES	CCDS4485.1	ENSP00000259818	TBB2B_HUMAN	O43209_HUMAN,A1L195_HUMAN	UPI0000024E6E	.	deleterious_low_confidence(0)	possibly_damaging(0.808)	4/4	.	Low_complexity_(Seg):seg,Prints_domain:PR01161,Superfamily_domains:SSF52490,SMART_domains:SM00864,Pfam_domain:PF00091,Gene3D:3.40.50.1440,hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCCATCCCG	.	4	BLCA
ITPR3	0	.	GRCh37	6	33623613	33623613	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231T>C	p.%3D	p.T77T	ENST00000374316	4/59	138	80	57	92	92	0	ITPR3,synonymous_variant,p.%3D,ENST00000374316,;ITPR3,synonymous_variant,p.%3D,ENST00000605930,;	C	ENSG00000096433	ENST00000374316	Transcript	synonymous_variant	1291	231	77	T	acT/acC	COSM1312093,COSM1312094	.	.	1	ITPR3	HGNC	6182	protein_coding	YES	CCDS4783.1	ENSP00000363435	ITPR3_HUMAN	A6H8K3_HUMAN	UPI000013CB74	.	.	.	4/59	.	hmmpanther:PTHR13715:SF51,hmmpanther:PTHR13715,Pfam_domain:PF08709,Gene3D:2.80.10.50	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGACTAAGCA	.	5	BLCA
STK38	0	.	GRCh37	6	36483157	36483157	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627C>T	p.%3D	p.I209I	ENST00000229812	7/14	78	40	37	74	74	0	STK38,synonymous_variant,p.%3D,ENST00000229812,;Z85986.1,upstream_gene_variant,,ENST00000583113,;	A	ENSG00000112079	ENST00000229812	Transcript	synonymous_variant	913	627	209	I	atC/atT	COSM1312151	.	.	-1	STK38	HGNC	17847	protein_coding	YES	CCDS4822.1	ENSP00000229812	STK38_HUMAN	.	UPI0000047AC1	.	.	.	7/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24358:SF7,hmmpanther:PTHR24358,PROSITE_patterns:PS00108,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGGATGAA	.	5	BLCA
TAF8	0	.	GRCh37	6	42019188	42019188	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.139G>C	p.Glu47Gln	p.E47Q	ENST00000372977	2/9	105	82	23	105	105	0	TAF8,missense_variant,p.Glu47Gln,ENST00000456846,;TAF8,missense_variant,p.Glu47Gln,ENST00000372978,;TAF8,missense_variant,p.Glu47Gln,ENST00000472818,;TAF8,missense_variant,p.Glu47Gln,ENST00000372977,;TAF8,missense_variant,p.Glu47Gln,ENST00000494547,;TAF8,missense_variant,p.Glu47Gln,ENST00000372982,;TAF8,5_prime_UTR_variant,,ENST00000482432,;TAF8,5_prime_UTR_variant,,ENST00000465926,;CCND3,upstream_gene_variant,,ENST00000508143,;CCND3,upstream_gene_variant,,ENST00000415497,;CCND3,upstream_gene_variant,,ENST00000511642,;CCND3,upstream_gene_variant,,ENST00000510503,;CCND3,upstream_gene_variant,,ENST00000514588,;CCND3,upstream_gene_variant,,ENST00000502771,;CCND3,upstream_gene_variant,,ENST00000372988,;TAF8,non_coding_transcript_exon_variant,,ENST00000482926,;CCND3,upstream_gene_variant,,ENST00000511686,;CCND3,upstream_gene_variant,,ENST00000514382,;CCND3,upstream_gene_variant,,ENST00000512381,;CCND3,upstream_gene_variant,,ENST00000513956,;TAF8,non_coding_transcript_exon_variant,,ENST00000486070,;CCND3,upstream_gene_variant,,ENST00000511161,;CCND3,upstream_gene_variant,,ENST00000505884,;CCND3,upstream_gene_variant,,ENST00000505672,;	C	ENSG00000137413	ENST00000372977	Transcript	missense_variant	157	139	47	E/Q	Gag/Cag	COSM1312205	.	.	1	TAF8	HGNC	17300	protein_coding	YES	CCDS43462.1	ENSP00000362068	TAF8_HUMAN	.	UPI00001A36D2	.	deleterious(0.01)	probably_damaging(0.94)	2/9	.	hmmpanther:PTHR23307:SF0,hmmpanther:PTHR23307,Gene3D:1.10.20.10,Pfam_domain:PF07524,SMART_domains:SM00576,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACAGAGGCA	.	5	BLCA
CUL9	0	.	GRCh37	6	43156452	43156452	+	Silent	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2179A>C	p.%3D	p.R727R	ENST00000252050	8/41	130	87	42	81	81	0	CUL9,synonymous_variant,p.%3D,ENST00000354495,;CUL9,synonymous_variant,p.%3D,ENST00000372647,;CUL9,synonymous_variant,p.%3D,ENST00000252050,;CUL9,splice_region_variant,,ENST00000515773,;CUL9,non_coding_transcript_exon_variant,,ENST00000510282,;CUL9,non_coding_transcript_exon_variant,,ENST00000451399,;	C	ENSG00000112659	ENST00000252050	Transcript	synonymous_variant	2263	2179	727	R	Aga/Cga	COSM1312229	.	.	1	CUL9	HGNC	15982	protein_coding	YES	CCDS4890.1	ENSP00000252050	CUL9_HUMAN	.	UPI000006F22F	.	.	.	8/41	.	hmmpanther:PTHR22771:SF2,hmmpanther:PTHR22771,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTGAGGTTA	.	5	BLCA
YIPF3	0	.	GRCh37	6	43479877	43479877	+	3'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28C>T	.	.	ENST00000372422	9/9	314	259	54	181	181	0	YIPF3,3_prime_UTR_variant,,ENST00000506469,;YIPF3,3_prime_UTR_variant,,ENST00000372422,;POLR1C,intron_variant,,ENST00000428025,;POLR1C,upstream_gene_variant,,ENST00000372389,;POLR1C,upstream_gene_variant,,ENST00000372344,;LRRC73,upstream_gene_variant,,ENST00000372441,;POLR1C,upstream_gene_variant,,ENST00000304004,;YIPF3,downstream_gene_variant,,ENST00000503972,;YIPF3,downstream_gene_variant,,ENST00000500090,;POLR1C,upstream_gene_variant,,ENST00000423780,;YIPF3,downstream_gene_variant,,ENST00000511831,;YIPF3,3_prime_UTR_variant,,ENST00000510102,;YIPF3,downstream_gene_variant,,ENST00000488966,;POLR1C,upstream_gene_variant,,ENST00000455605,;YIPF3,downstream_gene_variant,,ENST00000503147,;YIPF3,downstream_gene_variant,,ENST00000460903,;YIPF3,downstream_gene_variant,,ENST00000502714,;YIPF3,downstream_gene_variant,,ENST00000512713,;YIPF3,downstream_gene_variant,,ENST00000490447,;POLR1C,upstream_gene_variant,,ENST00000488601,;POLR1C,upstream_gene_variant,,ENST00000481352,;POLR1C,upstream_gene_variant,,ENST00000512472,;YIPF3,downstream_gene_variant,,ENST00000455768,;YIPF3,downstream_gene_variant,,ENST00000514627,;YIPF3,downstream_gene_variant,,ENST00000372417,;YIPF3,downstream_gene_variant,,ENST00000416380,;YIPF3,downstream_gene_variant,,ENST00000460547,;	A	ENSG00000137207	ENST00000372422	Transcript	3_prime_UTR_variant	1264	.	.	.	.	.	.	.	-1	YIPF3	HGNC	21023	protein_coding	YES	CCDS4899.1	ENSP00000361499	YIPF3_HUMAN	Q5JTD5_HUMAN,D6RGY8_HUMAN	UPI0000037775	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAAAGAGGAC	.	4	BLCA
POLR1C	0	.	GRCh37	6	43488129	43488129	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619G>A	p.Glu207Lys	p.E207K	ENST00000372389	6/9	149	122	27	122	122	0	POLR1C,missense_variant,p.Glu207Lys,ENST00000372389,;POLR1C,missense_variant,p.Glu207Lys,ENST00000372344,;POLR1C,missense_variant,p.Glu207Lys,ENST00000304004,;XPO5,downstream_gene_variant,,ENST00000265351,;XPO5,downstream_gene_variant,,ENST00000455285,;YIPF3,upstream_gene_variant,,ENST00000506469,;YIPF3,upstream_gene_variant,,ENST00000503972,;YIPF3,upstream_gene_variant,,ENST00000372422,;YIPF3,upstream_gene_variant,,ENST00000500090,;POLR1C,downstream_gene_variant,,ENST00000423780,;POLR1C,downstream_gene_variant,,ENST00000428025,;YIPF3,upstream_gene_variant,,ENST00000511831,;RP3-337H4.9,upstream_gene_variant,,ENST00000607571,;POLR1C,non_coding_transcript_exon_variant,,ENST00000455605,;POLR1C,non_coding_transcript_exon_variant,,ENST00000488601,;POLR1C,non_coding_transcript_exon_variant,,ENST00000481352,;YIPF3,upstream_gene_variant,,ENST00000488966,;YIPF3,upstream_gene_variant,,ENST00000460903,;YIPF3,upstream_gene_variant,,ENST00000502714,;YIPF3,upstream_gene_variant,,ENST00000490447,;YIPF3,upstream_gene_variant,,ENST00000510102,;XPO5,downstream_gene_variant,,ENST00000486936,;XPO5,downstream_gene_variant,,ENST00000488195,;POLR1C,downstream_gene_variant,,ENST00000512472,;XPO5,downstream_gene_variant,,ENST00000455854,;YIPF3,upstream_gene_variant,,ENST00000455768,;YIPF3,upstream_gene_variant,,ENST00000416380,;YIPF3,upstream_gene_variant,,ENST00000460547,;	A	ENSG00000171453	ENST00000372389	Transcript	missense_variant	707	619	207	E/K	Gaa/Aaa	COSM1312239,COSM1312240	.	.	1	POLR1C	HGNC	20194	protein_coding	YES	CCDS4901.1	ENSP00000361465	RPAC1_HUMAN	Q96HT3_HUMAN,D6RDJ3_HUMAN	UPI00001345BC	.	tolerated(0.11)	possibly_damaging(0.866)	6/9	.	hmmpanther:PTHR11800:SF13,hmmpanther:PTHR11800,Pfam_domain:PF01000,Pfam_domain:PF01193,Gene3D:2.170.120.12,SMART_domains:SM00662,Superfamily_domains:SSF56553	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGAAATT	.	5	BLCA
POLH	0	.	GRCh37	6	43571701	43571701	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837C>T	p.%3D	p.T279T	ENST00000372236	7/11	43	26	17	36	36	0	POLH,synonymous_variant,p.%3D,ENST00000372226,;POLH,synonymous_variant,p.%3D,ENST00000535400,;POLH,synonymous_variant,p.%3D,ENST00000372236,;GTPBP2,downstream_gene_variant,,ENST00000496137,;	T	ENSG00000170734	ENST00000372236	Transcript	synonymous_variant	1132	837	279	T	acC/acT	COSM1312243	.	.	1	POLH	HGNC	9181	protein_coding	YES	CCDS4902.1	ENSP00000361310	POLH_HUMAN	Q5JTF2_HUMAN,B4DG64_HUMAN,B3KN75_HUMAN	UPI000006F8FD	.	.	.	7/11	.	hmmpanther:PTHR11076,hmmpanther:PTHR11076:SF11,Gene3D:1.10.150.20,PIRSF_domain:PIRSF036603,Superfamily_domains:SSF56672	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACCCAGTT	.	5	BLCA
IBTK	0	.	GRCh37	6	82936933	82936933	+	Silent	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630A>C	p.%3D	p.G210G	ENST00000306270	5/29	90	59	30	126	126	0	IBTK,synonymous_variant,p.%3D,ENST00000510291,;IBTK,synonymous_variant,p.%3D,ENST00000503631,;IBTK,synonymous_variant,p.%3D,ENST00000306270,;IBTK,synonymous_variant,p.%3D,ENST00000503400,;IBTK,non_coding_transcript_exon_variant,,ENST00000505222,;IBTK,non_coding_transcript_exon_variant,,ENST00000369751,;	G	ENSG00000005700	ENST00000306270	Transcript	synonymous_variant	1180	630	210	G	ggA/ggC	COSM1312405	.	.	-1	IBTK	HGNC	17853	protein_coding	YES	CCDS34490.1	ENSP00000305721	IBTK_HUMAN	.	UPI000041929F	.	.	.	5/29	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50012,hmmpanther:PTHR22872,hmmpanther:PTHR22872:SF2,Pfam_domain:PF00415,Gene3D:2.130.10.30,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATGTCCTAA	.	5	BLCA
MDN1	0	.	GRCh37	6	90353822	90353822	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16693T>C	p.Tyr5565His	p.Y5565H	ENST00000369393	102/102	68	54	13	93	93	0	MDN1,missense_variant,p.Tyr5565His,ENST00000369393,;MDN1,missense_variant,p.Tyr5565His,ENST00000428876,;MDN1,missense_variant,p.Tyr31His,ENST00000487831,;	G	ENSG00000112159	ENST00000369393	Transcript	missense_variant	16809	16693	5565	Y/H	Tac/Cac	COSM1312432	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	unknown(0)	102/102	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGTATGGGA	.	5	BLCA
MDN1	0	.	GRCh37	6	90422326	90422326	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7398C>T	p.%3D	p.N2466N	ENST00000369393	48/102	113	62	50	166	166	0	MDN1,synonymous_variant,p.%3D,ENST00000369393,;MDN1,synonymous_variant,p.%3D,ENST00000428876,;	A	ENSG00000112159	ENST00000369393	Transcript	synonymous_variant	7514	7398	2466	N	aaC/aaT	COSM1312436	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	.	48/102	.	hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGTTGAG	.	5	BLCA
MAP3K7	0	.	GRCh37	6	91254347	91254347	+	Nonsense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215T>G	p.Tyr405Ter	p.Y405*	ENST00000369329	12/17	48	38	9	68	68	0	MAP3K7,stop_gained,p.Tyr405Ter,ENST00000369325,;MAP3K7,stop_gained,p.Tyr405Ter,ENST00000369329,;MAP3K7,intron_variant,,ENST00000369320,;MAP3K7,intron_variant,,ENST00000369332,;MAP3K7,intron_variant,,ENST00000369327,;	C	ENSG00000135341	ENST00000369329	Transcript	stop_gained	1377	1215	405	Y/*	taT/taG	COSM1312453	.	.	-1	MAP3K7	HGNC	6859	protein_coding	YES	CCDS5028.1	ENSP00000358335	M3K7_HUMAN	.	UPI000012EAD6	.	.	.	12/17	.	hmmpanther:PTHR26392,PIRSF_domain:PIRSF038168	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGAATAGGC	.	5	BLCA
EPHB4	0	.	GRCh37	7	100417868	100417868	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859C>G	p.Pro287Ala	p.P287A	ENST00000358173	5/17	589	396	193	394	394	0	EPHB4,missense_variant,p.Pro287Ala,ENST00000358173,;EPHB4,missense_variant,p.Pro287Ala,ENST00000360620,;RN7SL750P,downstream_gene_variant,,ENST00000582814,;EPHB4,non_coding_transcript_exon_variant,,ENST00000477446,;EPHB4,intron_variant,,ENST00000489808,;EPHB4,non_coding_transcript_exon_variant,,ENST00000492878,;EPHB4,non_coding_transcript_exon_variant,,ENST00000487222,;	C	ENSG00000196411	ENST00000358173	Transcript	missense_variant	1328	859	287	P/A	Cca/Gca	COSM1312493	.	.	-1	EPHB4	HGNC	3395	protein_coding	YES	CCDS5706.1	ENSP00000350896	EPHB4_HUMAN	Q541P7_HUMAN	UPI0000000DBB	.	tolerated(0.32)	benign(0.122)	5/17	.	hmmpanther:PTHR24416:SF296,hmmpanther:PTHR24416,Pfam_domain:PF07699,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATGGCTGGC	.	5	BLCA
CUX1	0	.	GRCh37	7	101459309	101459309	+	5'UTR	SNP	A	A	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-2A>C	.	.	ENST00000360264	1/24	140	90	50	90	90	0	CUX1,5_prime_UTR_variant,,ENST00000437600,;CUX1,5_prime_UTR_variant,,ENST00000547394,;CUX1,5_prime_UTR_variant,,ENST00000292538,;CUX1,5_prime_UTR_variant,,ENST00000425244,;CUX1,5_prime_UTR_variant,,ENST00000360264,;CUX1,5_prime_UTR_variant,,ENST00000393824,;CUX1,upstream_gene_variant,,ENST00000546411,;CUX1,upstream_gene_variant,,ENST00000556210,;CUX1,upstream_gene_variant,,ENST00000549414,;CUX1,upstream_gene_variant,,ENST00000292535,;CUX1,upstream_gene_variant,,ENST00000550008,;CUX1,upstream_gene_variant,,ENST00000558469,;CUX1,non_coding_transcript_exon_variant,,ENST00000497815,;CUX1,non_coding_transcript_exon_variant,,ENST00000607092,;	C	ENSG00000257923	ENST00000360264	Transcript	5_prime_UTR_variant	19	.	.	.	.	.	.	.	1	CUX1	HGNC	2557	protein_coding	YES	CCDS56498.1	ENSP00000353401	CUX1_HUMAN	.	UPI00001AEB98	.	.	.	1/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCAAGATGG	.	5	BLCA
COG5	0	.	GRCh37	7	106921779	106921779	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1634C>T	p.Thr545Ile	p.T545I	ENST00000297135	14/22	49	31	18	91	91	0	COG5,missense_variant,p.Thr545Ile,ENST00000347053,;COG5,missense_variant,p.Thr545Ile,ENST00000393603,;COG5,missense_variant,p.Thr545Ile,ENST00000297135,;	A	ENSG00000164597	ENST00000297135	Transcript	missense_variant	2159	1634	545	T/I	aCc/aTc	COSM1312565	.	.	-1	COG5	HGNC	14857	protein_coding	YES	CCDS5742.1	ENSP00000297135	COG5_HUMAN	U3KQU7_HUMAN,B3KMW0_HUMAN	UPI0000246D05	.	deleterious(0)	possibly_damaging(0.729)	14/22	.	hmmpanther:PTHR13228:SF3,hmmpanther:PTHR13228	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATGGTCTTT	.	5	BLCA
PPP1R3A	0	.	GRCh37	7	113519130	113519130	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2017A>C	p.Thr673Pro	p.T673P	ENST00000284601	4/4	106	59	47	145	145	0	PPP1R3A,missense_variant,p.Thr673Pro,ENST00000284601,;PPP1R3A,downstream_gene_variant,,ENST00000449795,;PPP1R3A,downstream_gene_variant,,ENST00000284602,;	G	ENSG00000154415	ENST00000284601	Transcript	missense_variant	2086	2017	673	T/P	Aca/Cca	COSM1312582	.	.	-1	PPP1R3A	HGNC	9291	protein_coding	YES	CCDS5759.1	ENSP00000284601	PPR3A_HUMAN	C9JZB3_HUMAN	UPI000013DDAA	.	deleterious(0.03)	benign(0.086)	4/4	.	hmmpanther:PTHR12307,hmmpanther:PTHR12307:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGTTATGT	.	5	BLCA
KCND2	0	.	GRCh37	7	120381638	120381638	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1329T>C	p.%3D	p.A443A	ENST00000331113	3/6	49	30	18	59	59	0	KCND2,synonymous_variant,p.%3D,ENST00000425288,;KCND2,synonymous_variant,p.%3D,ENST00000331113,;KCND2,upstream_gene_variant,,ENST00000473190,;	C	ENSG00000184408	ENST00000331113	Transcript	synonymous_variant	2294	1329	443	A	gcT/gcC	COSM1312602	.	.	1	KCND2	HGNC	6238	protein_coding	YES	CCDS5776.1	ENSP00000333496	KCND2_HUMAN	A4D0V9_HUMAN,Q75LS7_HUMAN	UPI0000073D37	.	.	.	3/6	.	hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF86,Prints_domain:PR01497	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGCTTACAT	.	5	BLCA
PLXNA4	0	.	GRCh37	7	131832748	131832748	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4775G>C	p.Gly1592Ala	p.G1592A	ENST00000359827	27/32	107	94	13	100	100	0	PLXNA4,missense_variant,p.Gly1592Ala,ENST00000321063,;PLXNA4,missense_variant,p.Gly1592Ala,ENST00000359827,;PLXNA4,upstream_gene_variant,,ENST00000496550,;	G	ENSG00000221866	ENST00000359827	Transcript	missense_variant	5738	4775	1592	G/A	gGt/gCt	COSM1312687,COSM1312686	.	.	-1	PLXNA4	HGNC	9102	protein_coding	YES	CCDS43646.1	ENSP00000352882	PLXA4_HUMAN	.	UPI000004E55B	.	deleterious(0.03)	benign(0.006)	27/32	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF34,Pfam_domain:PF08337,Gene3D:3.10.20.90	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGAACCATCT	.	4	BLCA
UBN2	0	.	GRCh37	7	138978726	138978726	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3993C>A	p.His1331Gln	p.H1331Q	ENST00000473989	17/18	45	29	15	66	66	0	UBN2,missense_variant,p.His1248Gln,ENST00000288561,;UBN2,missense_variant,p.His1331Gln,ENST00000473989,;UBN2,splice_region_variant,,ENST00000609762,;	A	ENSG00000157741	ENST00000473989	Transcript	missense_variant	3993	3993	1331	H/Q	caC/caA	COSM1312730	.	.	1	UBN2	HGNC	21931	protein_coding	YES	CCDS43655.2	ENSP00000418648	UBN2_HUMAN	C9J6Y5_HUMAN	UPI00001D74DF	.	tolerated_low_confidence(0.11)	benign(0.078)	17/18	.	hmmpanther:PTHR16426,hmmpanther:PTHR16426:SF15	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCACGGTGA	.	5	BLCA
KEL	0	.	GRCh37	7	142650920	142650920	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>T	p.Val350Leu	p.V350L	ENST00000355265	9/19	357	233	124	353	353	0	KEL,missense_variant,p.Val350Leu,ENST00000355265,;KEL,downstream_gene_variant,,ENST00000476829,;KEL,downstream_gene_variant,,ENST00000460479,;KEL,downstream_gene_variant,,ENST00000467543,;KEL,non_coding_transcript_exon_variant,,ENST00000479768,;KEL,downstream_gene_variant,,ENST00000494148,;	A	ENSG00000197993	ENST00000355265	Transcript	missense_variant	1523	1048	350	V/L	Gtg/Ttg	COSM1312772	.	.	-1	KEL	HGNC	6308	protein_coding	YES	CCDS34766.1	ENSP00000347409	KELL_HUMAN	Q0KH97_HUMAN,Q0KH93_HUMAN,Q0KH89_HUMAN,Q0KH87_HUMAN,Q0KH86_HUMAN,Q0KH85_HUMAN,Q0KH84_HUMAN,Q0KH83_HUMAN,Q09GN6_HUMAN,Q06AK5_HUMAN,E7ETW3_HUMAN,A8YPS5_HUMAN,A3F6J8_HUMAN	UPI000000D923	.	tolerated(0.08)	benign(0.026)	9/19	.	hmmpanther:PTHR11733,hmmpanther:PTHR11733:SF101,Pfam_domain:PF05649,Gene3D:1r1hA02,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCACCAGTT	.	5	BLCA
ZNF786	0	.	GRCh37	7	148769267	148769267	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597C>T	p.%3D	p.N199N	ENST00000491431	4/4	36	24	12	32	32	0	ZNF786,synonymous_variant,p.%3D,ENST00000491431,;ZNF786,synonymous_variant,p.%3D,ENST00000316286,;ZNF786,synonymous_variant,p.%3D,ENST00000451334,;	A	ENSG00000197362	ENST00000491431	Transcript	synonymous_variant	662	597	199	N	aaC/aaT	COSM1312811	.	.	-1	ZNF786	HGNC	21806	protein_coding	YES	CCDS47738.1	ENSP00000417470	ZN786_HUMAN	H7BXP3_HUMAN,B4DMI1_HUMAN	UPI000013FD40	.	.	.	4/4	.	hmmpanther:PTHR24385:SF15,hmmpanther:PTHR24385,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTGTTCTC	.	5	BLCA
ZNF786	0	.	GRCh37	7	148787775	148787775	+	5'UTR	SNP	C	C	G	rs774507218	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-43G>C	.	.	ENST00000491431	1/4	42	32	10	25	25	0	ZNF786,5_prime_UTR_variant,,ENST00000491431,;ZNF786,5_prime_UTR_variant,,ENST00000316286,;ZNF786,5_prime_UTR_variant,,ENST00000451334,;	G	ENSG00000197362	ENST00000491431	Transcript	5_prime_UTR_variant	23	.	.	.	.	rs774507218	.	.	-1	ZNF786	HGNC	21806	protein_coding	YES	CCDS47738.1	ENSP00000417470	ZN786_HUMAN	H7BXP3_HUMAN,B4DMI1_HUMAN	UPI000013FD40	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCCGGCG	.	5	BLCA
LRRC61	0	.	GRCh37	7	150033872	150033872	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-79G>A	.	.	ENST00000359623	3/3	119	72	46	54	54	0	LRRC61,5_prime_UTR_variant,,ENST00000359623,;LRRC61,5_prime_UTR_variant,,ENST00000323078,;LRRC61,5_prime_UTR_variant,,ENST00000493307,;RARRES2,downstream_gene_variant,,ENST00000482669,;RARRES2,downstream_gene_variant,,ENST00000223271,;ZBED6CL,downstream_gene_variant,,ENST00000343855,;RARRES2,downstream_gene_variant,,ENST00000467793,;RARRES2,downstream_gene_variant,,ENST00000466675,;RP4-584D14.7,upstream_gene_variant,,ENST00000563946,;RARRES2,downstream_gene_variant,,ENST00000478771,;	A	ENSG00000127399	ENST00000359623	Transcript	5_prime_UTR_variant	510	.	.	.	.	.	.	.	1	LRRC61	HGNC	21704	protein_coding	YES	CCDS5901.1	ENSP00000352642	LRC61_HUMAN	.	UPI000006F2E8	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAGGGCGAG	.	5	BLCA
AGR2	0	.	GRCh37	7	16834567	16834567	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.471A>G	p.%3D	p.T157T	ENST00000419304	7/8	76	61	15	52	52	0	AGR2,synonymous_variant,p.%3D,ENST00000401412,;AGR2,synonymous_variant,p.%3D,ENST00000419304,;AGR2,synonymous_variant,p.%3D,ENST00000450569,;AGR2,synonymous_variant,p.%3D,ENST00000419572,;AGR2,downstream_gene_variant,,ENST00000412973,;AGR2,downstream_gene_variant,,ENST00000489523,;	C	ENSG00000106541	ENST00000419304	Transcript	synonymous_variant	624	471	157	T	acA/acG	COSM1312930	.	.	-1	AGR2	HGNC	328	protein_coding	YES	CCDS5364.1	ENSP00000391490	AGR2_HUMAN	Q4JM46_HUMAN,C9J3E2_HUMAN	UPI0000040D1E	.	.	.	7/8	.	Gene3D:3.40.30.10,hmmpanther:PTHR15337,hmmpanther:PTHR15337:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGCTGTATC	.	5	BLCA
C7orf25	0	.	GRCh37	7	42949751	42949751	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.923T>A	p.Leu308Gln	p.L308Q	ENST00000431882	2/2	81	60	21	104	104	0	C7orf25,missense_variant,p.Leu308Gln,ENST00000431882,;C7orf25,missense_variant,p.Leu250Gln,ENST00000438029,;C7orf25,missense_variant,p.Leu250Gln,ENST00000350427,;C7orf25,missense_variant,p.Leu250Gln,ENST00000447342,;C7orf25,downstream_gene_variant,,ENST00000425683,;C7orf25,downstream_gene_variant,,ENST00000432637,;PSMA2,3_prime_UTR_variant,,ENST00000442788,;PSMA2,downstream_gene_variant,,ENST00000433579,;	T	ENSG00000136197	ENST00000431882	Transcript	missense_variant	946	923	308	L/Q	cTg/cAg	COSM1313083	.	.	-1	C7orf25	HGNC	21703	protein_coding	YES	CCDS47576.1	ENSP00000416290	CG025_HUMAN	C9K0L6_HUMAN,C9JF90_HUMAN	UPI000159689A	.	deleterious(0)	probably_damaging(0.998)	2/2	.	Pfam_domain:PF07000,hmmpanther:PTHR13379	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCCAGATTT	.	5	BLCA
HECW1	0	.	GRCh37	7	43436489	43436489	+	Splice_Site	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631+1G>C	.	p.X211_splice	ENST00000395891	.	49	38	11	77	77	0	HECW1,splice_donor_variant,,ENST00000453890,;HECW1,splice_donor_variant,,ENST00000395891,;HECW1,splice_donor_variant,,ENST00000471043,;HECW1,splice_donor_variant,,ENST00000481031,;HECW1,splice_donor_variant,,ENST00000492310,;	C	ENSG00000002746	ENST00000395891	Transcript	splice_donor_variant	.	.	.	.	.	COSM1313088,COSM1313089	.	.	1	HECW1	HGNC	22195	protein_coding	YES	CCDS5469.2	ENSP00000379228	HECW1_HUMAN	A4D1V5_HUMAN	UPI0000D74C41	.	.	.	.	7/29	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCAGGTATGT	.	5	BLCA
PKD1L1	0	.	GRCh37	7	47892757	47892757	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4928T>C	p.Val1643Ala	p.V1643A	ENST00000289672	31/57	126	92	34	111	111	0	PKD1L1,missense_variant,p.Val1643Ala,ENST00000289672,;HUS1,intron_variant,,ENST00000436444,;	G	ENSG00000158683	ENST00000289672	Transcript	missense_variant	4979	4928	1643	V/A	gTg/gCg	COSM1313129	.	.	-1	PKD1L1	HGNC	18053	protein_coding	YES	CCDS34633.1	ENSP00000289672	PK1L1_HUMAN	.	UPI0000130FA9	.	tolerated(0.09)	benign(0.178)	31/57	.	hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF32	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGCACAATT	.	5	BLCA
EIF2AK1	0	.	GRCh37	7	6086641	6086641	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531A>G	p.%3D	p.G177G	ENST00000199389	5/15	59	18	40	39	39	0	EIF2AK1,synonymous_variant,p.%3D,ENST00000536084,;EIF2AK1,synonymous_variant,p.%3D,ENST00000199389,;EIF2AK1,downstream_gene_variant,,ENST00000446699,;RN7SL851P,downstream_gene_variant,,ENST00000480512,;EIF2AK1,upstream_gene_variant,,ENST00000474029,;EIF2AK1,upstream_gene_variant,,ENST00000495565,;EIF2AK1,3_prime_UTR_variant,,ENST00000431744,;EIF2AK1,non_coding_transcript_exon_variant,,ENST00000463213,;EIF2AK1,downstream_gene_variant,,ENST00000461493,;EIF2AK1,upstream_gene_variant,,ENST00000470168,;	C	ENSG00000086232	ENST00000199389	Transcript	synonymous_variant	678	531	177	G	ggA/ggG	COSM1313219	.	.	-1	EIF2AK1	HGNC	24921	protein_coding	YES	CCDS5345.1	ENSP00000199389	E2AK1_HUMAN	Q75MR0_HUMAN	UPI0000161BAE	.	.	.	5/15	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11042:SF88,hmmpanther:PTHR11042,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGTATCCACC	.	5	BLCA
GUSB	0	.	GRCh37	7	65439384	65439384	+	Missense_Mutation	SNP	A	A	C	rs766849255	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1289T>G	p.Met430Arg	p.M430R	ENST00000304895	8/12	354	214	140	168	168	0	GUSB,missense_variant,p.Met379Arg,ENST00000345660,;GUSB,missense_variant,p.Met430Arg,ENST00000304895,;GUSB,missense_variant,p.Met284Arg,ENST00000421103,;GUSB,non_coding_transcript_exon_variant,,ENST00000465785,;GUSB,non_coding_transcript_exon_variant,,ENST00000479038,;GUSB,downstream_gene_variant,,ENST00000476486,;GUSB,downstream_gene_variant,,ENST00000475316,;GUSB,3_prime_UTR_variant,,ENST00000430730,;GUSB,3_prime_UTR_variant,,ENST00000447929,;GUSB,non_coding_transcript_exon_variant,,ENST00000462371,;GUSB,non_coding_transcript_exon_variant,,ENST00000466883,;GUSB,downstream_gene_variant,,ENST00000446111,;GUSB,downstream_gene_variant,,ENST00000489482,;	C	ENSG00000169919	ENST00000304895	Transcript	missense_variant	1420	1289	430	M/R	aTg/aGg	rs766849255,COSM1313231	.	.	-1	GUSB	HGNC	4696	protein_coding	YES	CCDS5530.1	ENSP00000302728	BGLR_HUMAN	.	UPI000013E9E0	.	deleterious(0)	probably_damaging(0.997)	8/12	.	hmmpanther:PTHR10066:SF51,hmmpanther:PTHR10066,Pfam_domain:PF02836,Gene3D:3.20.20.80,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCCATCACC	.	5	BLCA
ZNF853	0	.	GRCh37	7	6662346	6662346	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1724G>A	p.Gly575Asp	p.G575D	ENST00000457543	3/3	29	6	22	10	10	0	ZNF853,missense_variant,p.Gly575Asp,ENST00000457543,;	A	ENSG00000236609	ENST00000457543	Transcript	missense_variant	2282	1724	575	G/D	gGc/gAc	COSM1313245,COSM1313246	.	.	1	ZNF853	HGNC	21767	protein_coding	YES	CCDS59048.1	ENSP00000455585	ZN853_HUMAN	.	UPI00018E24EF	.	deleterious_low_confidence(0)	probably_damaging(0.999)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24409,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGGCAAGC	.	5	BLCA
RHBDD2	0	.	GRCh37	7	75513098	75513100	+	In_Frame_Del	DEL	GAG	GAG	-	rs782738083	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	GAG	GAG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674_676delGGA	p.Arg225del	p.R225del	ENST00000006777	3/4	239	146	93	259	259	0	RHBDD2,inframe_deletion,p.Arg225del,ENST00000006777,;RHBDD2,inframe_deletion,p.Arg84del,ENST00000318622,;RHBDD2,inframe_deletion,p.Arg84del,ENST00000428119,;RHBDD2,non_coding_transcript_exon_variant,,ENST00000467406,;RHBDD2,intron_variant,,ENST00000468304,;RHBDD2,downstream_gene_variant,,ENST00000468644,;RHBDD2,downstream_gene_variant,,ENST00000476218,;RHBDD2,downstream_gene_variant,,ENST00000466232,;RHBDD2,3_prime_UTR_variant,,ENST00000454791,;	-	ENSG00000005486	ENST00000006777	Transcript	inframe_deletion	804-806	669-671	223-224	MR/M	atGAGg/atg	rs782738083	.	.	1	RHBDD2	HGNC	23082	protein_coding	YES	CCDS43602.1	ENSP00000006777	RHBD2_HUMAN	.	UPI0000072213	.	.	.	3/4	.	hmmpanther:PTHR22790,hmmpanther:PTHR22790:SF33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTGATGAGGAGGA	byFrequency	3	BLCA
GSAP	0	.	GRCh37	7	77006665	77006665	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619G>A	p.Glu207Lys	p.E207K	ENST00000257626	9/31	128	109	19	132	132	0	GSAP,missense_variant,p.Glu207Lys,ENST00000257626,;GSAP,non_coding_transcript_exon_variant,,ENST00000334003,;	T	ENSG00000186088	ENST00000257626	Transcript	missense_variant	698	619	207	E/K	Gag/Aag	COSM1313302	.	.	-1	GSAP	HGNC	28042	protein_coding	YES	CCDS34672.2	ENSP00000257626	GSAP_HUMAN	B7ZL33_HUMAN	UPI000015FEE3	.	deleterious(0)	possibly_damaging(0.65)	9/31	.	hmmpanther:PTHR13630:SF1,hmmpanther:PTHR13630	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F209F|c.627C>T|3	RADIA|MUTECT|MUSE|VARSCANS	ATCCTCAGCTA	.	4	BLCA
ZKSCAN5	0	.	GRCh37	7	99129564	99129564	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2212A>C	p.Thr738Pro	p.T738P	ENST00000394170	7/7	69	35	34	79	79	0	ZKSCAN5,missense_variant,p.Thr738Pro,ENST00000394170,;ZKSCAN5,missense_variant,p.Thr738Pro,ENST00000326775,;ZKSCAN5,missense_variant,p.Thr738Pro,ENST00000451158,;ZKSCAN5,3_prime_UTR_variant,,ENST00000454175,;	C	ENSG00000196652	ENST00000394170	Transcript	missense_variant	2463	2212	738	T/P	Act/Cct	COSM1313483	.	.	1	ZKSCAN5	HGNC	12867	protein_coding	YES	CCDS5667.1	ENSP00000377725	ZKSC5_HUMAN	Q75MV2_HUMAN,J7M2L3_HUMAN,J7M2K9_HUMAN	UPI000013C3AC	.	tolerated(0.1)	probably_damaging(0.95)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF214,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF00096,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGAACTCAT	.	5	BLCA
CYP3A4	0	.	GRCh37	7	99375680	99375680	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189A>C	p.Glu63Asp	p.E63D	ENST00000336411	3/13	32	21	11	42	42	0	CYP3A4,missense_variant,p.Glu76Asp,ENST00000415003,;CYP3A4,missense_variant,p.Glu63Asp,ENST00000336411,;CYP3A4,intron_variant,,ENST00000354593,;CYP3A4,non_coding_transcript_exon_variant,,ENST00000480043,;	G	ENSG00000160868	ENST00000336411	Transcript	missense_variant	373	189	63	E/D	gaA/gaC	COSM1313501	.	.	-1	CYP3A4	HGNC	2637	protein_coding	YES	CCDS5674.1	ENSP00000337915	CP3A4_HUMAN	Q9BZM0_HUMAN,Q7Z448_HUMAN,Q6GRK0_HUMAN,B4DPQ5_HUMAN	UPI000013E0B7	.	tolerated(0.11)	benign(0.003)	3/13	.	hmmpanther:PTHR24302,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACATTCCAT	.	5	BLCA
RIMS2	0	.	GRCh37	8	105263981	105263981	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3983C>T	p.Pro1328Leu	p.P1328L	ENST00000406091	24/24	85	76	8	146	146	0	RIMS2,missense_variant,p.Pro1328Leu,ENST00000406091,;RIMS2,missense_variant,p.Pro264Leu,ENST00000339750,;RIMS2,missense_variant,p.Pro1142Leu,ENST00000507740,;RIMS2,missense_variant,p.Pro1167Leu,ENST00000262231,;RIMS2,missense_variant,p.Pro1346Leu,ENST00000436393,;RIMS2,downstream_gene_variant,,ENST00000408894,;RIMS2,downstream_gene_variant,,ENST00000523362,;	T	ENSG00000176406	ENST00000406091	Transcript	missense_variant	3983	3983	1328	P/L	cCt/cTt	COSM1313582,COSM1313579,COSM1313581,COSM1313580	.	.	1	RIMS2	HGNC	17283	protein_coding	YES	CCDS55269.1	ENSP00000384892	RIMS2_HUMAN	E9PFB6_HUMAN	UPI0001597063	.	deleterious_low_confidence(0)	probably_damaging(0.996)	24/24	.	hmmpanther:PTHR12157:SF15,hmmpanther:PTHR12157	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCCCCTCTGA	.	3	BLCA
CSMD3	0	.	GRCh37	8	114290867	114290867	+	Silent	SNP	G	G	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.468C>G	p.%3D	p.T156T	ENST00000297405	3/71	67	52	14	89	89	0	CSMD3,synonymous_variant,p.%3D,ENST00000352409,;CSMD3,synonymous_variant,p.%3D,ENST00000455883,;CSMD3,synonymous_variant,p.%3D,ENST00000297405,;CSMD3,synonymous_variant,p.%3D,ENST00000343508,;CSMD3,non_coding_transcript_exon_variant,,ENST00000497026,;	C	ENSG00000164796	ENST00000297405	Transcript	synonymous_variant	713	468	156	T	acC/acG	COSM1313641,COSM1313642	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	.	.	3/71	.	PROSITE_profiles:PS01180,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGGTCAA	.	5	BLCA
ANXA13	0	.	GRCh37	8	124714886	124714886	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305G>T	p.Gly102Val	p.G102V	ENST00000262219	4/12	152	119	32	139	139	0	ANXA13,missense_variant,p.Gly32Val,ENST00000520519,;ANXA13,missense_variant,p.Gly102Val,ENST00000262219,;ANXA13,missense_variant,p.Gly61Val,ENST00000419625,;	A	ENSG00000104537	ENST00000262219	Transcript	missense_variant	373	305	102	G/V	gGc/gTc	COSM1313698	.	.	-1	ANXA13	HGNC	536	protein_coding	YES	CCDS34939.1	ENSP00000262219	ANX13_HUMAN	E5RIN3_HUMAN	UPI000016A41E	.	deleterious(0)	probably_damaging(0.949)	4/12	.	hmmpanther:PTHR10502:SF105,hmmpanther:PTHR10502,PROSITE_patterns:PS00223,Pfam_domain:PF00191,Gene3D:1.10.220.10,SMART_domains:SM00335,Superfamily_domains:SSF47874	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTGCCGTAC	.	5	BLCA
JRK	0	.	GRCh37	8	143745928	143745928	+	RNA	SNP	C	C	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1883G>A	.	.	ENST00000507178	2/2	53	34	18	23	23	0	JRK,non_coding_transcript_exon_variant,,ENST00000422119,;JRK,non_coding_transcript_exon_variant,,ENST00000507178,;JRK,non_coding_transcript_exon_variant,,ENST00000512113,;JRK,downstream_gene_variant,,ENST00000503272,;JRK,downstream_gene_variant,,ENST00000591357,;JRK,upstream_gene_variant,,ENST00000506774,;	T	ENSG00000234616	ENST00000507178	Transcript	non_coding_transcript_exon_variant	1883	.	.	.	.	.	.	.	-1	JRK	HGNC	6199	processed_transcript	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGCCCGCAG	.	5	BLCA
FBXL6	0	.	GRCh37	8	145579794	145579794	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1306C>A	p.Gln436Lys	p.Q436K	ENST00000331890	8/9	182	115	67	109	109	0	FBXL6,missense_variant,p.Gln436Lys,ENST00000331890,;FBXL6,missense_variant,p.Gln430Lys,ENST00000455319,;SLC52A2,intron_variant,,ENST00000524541,;SLC52A2,upstream_gene_variant,,ENST00000532887,;TMEM249,upstream_gene_variant,,ENST00000398633,;SLC52A2,upstream_gene_variant,,ENST00000527078,;SLC52A2,upstream_gene_variant,,ENST00000530047,;SLC52A2,upstream_gene_variant,,ENST00000540505,;SLC52A2,upstream_gene_variant,,ENST00000526338,;SLC52A2,upstream_gene_variant,,ENST00000526752,;SLC52A2,upstream_gene_variant,,ENST00000402965,;TMEM249,upstream_gene_variant,,ENST00000526263,;SLC52A2,upstream_gene_variant,,ENST00000534725,;SLC52A2,upstream_gene_variant,,ENST00000329994,;FBXL6,non_coding_transcript_exon_variant,,ENST00000527000,;SLC52A2,intron_variant,,ENST00000532815,;FBXL6,intron_variant,,ENST00000526524,;FBXL6,downstream_gene_variant,,ENST00000530687,;FBXL6,downstream_gene_variant,,ENST00000524909,;SLC52A2,upstream_gene_variant,,ENST00000526891,;FBXL6,non_coding_transcript_exon_variant,,ENST00000530142,;FBXL6,non_coding_transcript_exon_variant,,ENST00000524492,;GS1-393G12.13,upstream_gene_variant,,ENST00000531225,;SLC52A2,upstream_gene_variant,,ENST00000526779,;SLC52A2,upstream_gene_variant,,ENST00000533662,;FBXL6,downstream_gene_variant,,ENST00000529279,;TMEM249,upstream_gene_variant,,ENST00000526503,;	T	ENSG00000182325	ENST00000331890	Transcript	missense_variant	1371	1306	436	Q/K	Cag/Aag	COSM1313854	.	.	-1	FBXL6	HGNC	13603	protein_coding	YES	CCDS6422.1	ENSP00000330098	FBXL6_HUMAN	Q71RB6_HUMAN	UPI000006E3A5	.	tolerated(0.77)	benign(0.071)	8/9	.	Gene3D:3.80.10.10,hmmpanther:PTHR23125,hmmpanther:PTHR23125:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGGGTCA	.	5	BLCA
FGF20	0	.	GRCh37	8	16859521	16859521	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21C>T	p.%3D	p.V7V	ENST00000180166	1/3	10	3	7	12	12	0	FGF20,synonymous_variant,p.%3D,ENST00000180166,;FGF20,upstream_gene_variant,,ENST00000519941,;	A	ENSG00000078579	ENST00000180166	Transcript	synonymous_variant	170	21	7	V	gtC/gtT	COSM1313884	.	.	-1	FGF20	HGNC	3677	protein_coding	YES	CCDS5998.1	ENSP00000180166	FGF20_HUMAN	.	UPI00000374AE	.	.	.	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11486:SF72,hmmpanther:PTHR11486	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	CCCCCGACTTC	.	3	BLCA
DPYSL2	0	.	GRCh37	8	26509890	26509890	+	Missense_Mutation	SNP	C	C	T	rs773717246	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1399C>T	p.Arg467Cys	p.R467C	ENST00000311151	12/14	70	50	20	102	102	0	DPYSL2,missense_variant,p.Arg431Cys,ENST00000521913,;DPYSL2,missense_variant,p.Arg467Cys,ENST00000311151,;DPYSL2,missense_variant,p.Arg431Cys,ENST00000523027,;	T	ENSG00000092964	ENST00000311151	Transcript	missense_variant	1811	1399	467	R/C	Cgc/Tgc	rs773717246,COSM1313956	.	.	1	DPYSL2	HGNC	3014	protein_coding	YES	CCDS6051.1	ENSP00000309539	DPYL2_HUMAN	Q8NAN9_HUMAN,A9CQZ2_HUMAN	UPI0000129864	.	deleterious(0.01)	probably_damaging(0.998)	12/14	.	hmmpanther:PTHR11647,hmmpanther:PTHR11647:SF56,Gene3D:2.30.40.10,TIGRFAM_domain:TIGR02033,Superfamily_domains:SSF51338	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGACGCTAC	byFrequency	5	BLCA
PRKDC	0	.	GRCh37	8	48817520	48817520	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2951A>G	p.Tyr984Cys	p.Y984C	ENST00000314191	26/87	49	26	23	40	40	0	PRKDC,missense_variant,p.Tyr984Cys,ENST00000338368,;PRKDC,missense_variant,p.Tyr984Cys,ENST00000314191,;PRKDC,non_coding_transcript_exon_variant,,ENST00000518216,;PRKDC,non_coding_transcript_exon_variant,,ENST00000523565,;	C	ENSG00000253729	ENST00000314191	Transcript	missense_variant	3008	2951	984	Y/C	tAt/tGt	COSM1314091,COSM1314090	.	.	-1	PRKDC	HGNC	9413	protein_coding	YES	.	ENSP00000313420	PRKDC_HUMAN	F5GX40_HUMAN	UPI000045790C	.	.	probably_damaging(0.94)	26/87	.	hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF54,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCATACAGT	.	5	BLCA
MOS	0	.	GRCh37	8	57025641	57025641	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901G>A	p.Ala301Thr	p.A301T	ENST00000311923	1/1	115	80	34	59	59	0	MOS,missense_variant,p.Ala301Thr,ENST00000311923,;	T	ENSG00000172680	ENST00000311923	Transcript	missense_variant	901	901	301	A/T	Gct/Act	COSM1314119	.	.	-1	MOS	HGNC	7199	protein_coding	YES	CCDS6164.1	ENSP00000310722	MOS_HUMAN	.	UPI000012DF0C	.	tolerated(0.41)	benign(0.019)	1/1	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23257,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCAGCGGAGA	.	5	BLCA
MCMDC2	0	.	GRCh37	8	67803255	67803255	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1229T>C	p.Ile410Thr	p.I410T	ENST00000422365	10/15	35	14	21	50	50	0	MCMDC2,missense_variant,p.Ile347Thr,ENST00000541540,;MCMDC2,missense_variant,p.Ile410Thr,ENST00000396592,;MCMDC2,missense_variant,p.Ile410Thr,ENST00000313616,;MCMDC2,missense_variant,p.Ile410Thr,ENST00000422365,;MCMDC2,3_prime_UTR_variant,,ENST00000415737,;MCMDC2,3_prime_UTR_variant,,ENST00000428734,;	C	ENSG00000178460	ENST00000422365	Transcript	missense_variant	1400	1229	410	I/T	aTa/aCa	COSM1314157,COSM1314156,COSM1314155	.	.	1	MCMDC2	HGNC	26368	protein_coding	YES	CCDS6197.2	ENSP00000413632	MCMD2_HUMAN	.	UPI00002107AF	.	deleterious(0.03)	benign(0.004)	10/15	.	hmmpanther:PTHR11630,hmmpanther:PTHR11630:SF67,SMART_domains:SM00350	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTATAGGAG	.	5	BLCA
GRIN3A	0	.	GRCh37	9	104499615	104499615	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.647T>C	p.Leu216Pro	p.L216P	ENST00000361820	1/9	179	133	45	98	98	0	GRIN3A,missense_variant,p.Leu216Pro,ENST00000361820,;	G	ENSG00000198785	ENST00000361820	Transcript	missense_variant	1248	647	216	L/P	cTg/cCg	COSM1314327	.	.	-1	GRIN3A	HGNC	16767	protein_coding	YES	CCDS6758.1	ENSP00000355155	NMD3A_HUMAN	.	UPI0000367661	.	deleterious(0.03)	probably_damaging(0.999)	1/9	.	Superfamily_domains:SSF53822,Gene3D:3.40.50.2300,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF163	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGCAGGACT	.	5	BLCA
ABCA1	0	.	GRCh37	9	107593948	107593948	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1670G>A	p.Arg557Gln	p.R557Q	ENST00000374736	13/50	30	16	13	42	41	0	ABCA1,missense_variant,p.Arg557Gln,ENST00000374736,;ABCA1,upstream_gene_variant,,ENST00000494467,;	T	ENSG00000165029	ENST00000374736	Transcript	missense_variant	2065	1670	557	R/Q	cGa/cAa	COSM1314344	.	.	-1	ABCA1	HGNC	29	protein_coding	YES	CCDS6762.1	ENSP00000363868	ABCA1_HUMAN	Q9NS76_HUMAN,Q9NP93_HUMAN,Q9H002_HUMAN	UPI000013E441	.	deleterious(0)	probably_damaging(1)	13/50	.	hmmpanther:PTHR19229:SF34,hmmpanther:PTHR19229	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCGGATC	.	5	BLCA
ZNF462	0	.	GRCh37	9	109694734	109694734	+	Missense_Mutation	SNP	G	G	T	rs367596792	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6020G>T	p.Arg2007Leu	p.R2007L	ENST00000277225	5/13	96	74	22	109	109	0	ZNF462,missense_variant,p.Arg2007Leu,ENST00000277225,;ZNF462,missense_variant,p.Arg2067Leu,ENST00000457913,;ZNF462,missense_variant,p.Arg913Leu,ENST00000441147,;ZNF462,missense_variant,p.Arg950Leu,ENST00000374686,;ZNF462,upstream_gene_variant,,ENST00000542028,;ZNF462,downstream_gene_variant,,ENST00000472574,;ZNF462,non_coding_transcript_exon_variant,,ENST00000497489,;ZNF462,non_coding_transcript_exon_variant,,ENST00000480607,;ZNF462,upstream_gene_variant,,ENST00000479166,;ZNF462,upstream_gene_variant,,ENST00000469433,;ZNF462,upstream_gene_variant,,ENST00000471032,;	T	ENSG00000148143	ENST00000277225	Transcript	missense_variant	6309	6020	2007	R/L	cGt/cTt	rs367596792,COSM1314348	.	.	1	ZNF462	HGNC	21684	protein_coding	YES	CCDS35096.1	ENSP00000277225	ZN462_HUMAN	U3KQ68_HUMAN,F5H0Z0_HUMAN	UPI0000470106	.	.	possibly_damaging(0.519)	5/13	.	hmmpanther:PTHR24385:SF52,hmmpanther:PTHR24385	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGTTCTC	byCluster	5	BLCA
C9orf152	0	.	GRCh37	9	112963549	112963549	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>A	p.Asp133Glu	p.D133E	ENST00000400613	2/2	182	145	36	182	182	0	C9orf152,missense_variant,p.Asp133Glu,ENST00000400613,;C9orf152,intron_variant,,ENST00000473442,;	T	ENSG00000188959	ENST00000400613	Transcript	missense_variant	1009	399	133	D/E	gaC/gaA	COSM1314363	.	.	-1	C9orf152	HGNC	31455	protein_coding	YES	CCDS35102.2	ENSP00000383456	CI152_HUMAN	A8K2L3_HUMAN	UPI00016278ED	.	tolerated(1)	benign(0.001)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGTCCTG	.	5	BLCA
SLC46A2	0	.	GRCh37	9	115652137	115652137	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825delA	p.Ala276GlnfsTer28	p.A276Qfs*28	ENST00000374228	1/4	150	108	42	88	88	0	SLC46A2,frameshift_variant,p.Ala276GlnfsTer28,ENST00000374228,;RP11-408O19.5,downstream_gene_variant,,ENST00000605480,;SLC46A2,frameshift_variant,p.Ala276GlnfsTer28,ENST00000491462,;	-	ENSG00000119457	ENST00000374228	Transcript	frameshift_variant	1057	825	275	K/X	aaA/aa	.	.	.	-1	SLC46A2	HGNC	16055	protein_coding	YES	CCDS6786.1	ENSP00000363345	TSCOT_HUMAN	.	UPI0000049F9E	.	.	.	1/4	.	hmmpanther:PTHR23038,hmmpanther:PTHR23038:SF41,Pfam_domain:PF07690,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTTGCTTTTCC	.	3	BLCA
TNC	0	.	GRCh37	9	117846585	117846585	+	Silent	SNP	G	G	T	rs772076025	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2034C>A	p.%3D	p.I678I	ENST00000350763	4/28	64	48	16	62	62	0	TNC,synonymous_variant,p.%3D,ENST00000345230,;TNC,synonymous_variant,p.%3D,ENST00000542877,;TNC,synonymous_variant,p.%3D,ENST00000346706,;TNC,synonymous_variant,p.%3D,ENST00000537320,;TNC,synonymous_variant,p.%3D,ENST00000341037,;TNC,synonymous_variant,p.%3D,ENST00000350763,;TNC,synonymous_variant,p.%3D,ENST00000535648,;TNC,synonymous_variant,p.%3D,ENST00000340094,;TNC,synonymous_variant,p.%3D,ENST00000423613,;	T	ENSG00000041982	ENST00000350763	Transcript	synonymous_variant	2446	2034	678	I	atC/atA	rs772076025,COSM1314399	.	.	-1	TNC	HGNC	5318	protein_coding	YES	CCDS6811.1	ENSP00000265131	TENA_HUMAN	F5H5D6_HUMAN	UPI000013D5BD	.	.	.	4/28	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143:SF38,hmmpanther:PTHR19143,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Q680R|c.2039A>G|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGATGGT	byFrequency	5	BLCA
MEGF9	0	.	GRCh37	9	123421791	123421791	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664G>A	p.Gly222Arg	p.G222R	ENST00000373930	2/6	21	12	9	23	23	0	MEGF9,missense_variant,p.Gly259Arg,ENST00000426959,;MEGF9,missense_variant,p.Gly222Arg,ENST00000373930,;	T	ENSG00000106780	ENST00000373930	Transcript	missense_variant	776	664	222	G/R	Ggg/Agg	COSM1314408	.	.	-1	MEGF9	HGNC	3234	protein_coding	YES	CCDS48010.2	ENSP00000363040	MEGF9_HUMAN	.	UPI000045779F	.	deleterious(0)	probably_damaging(1)	2/6	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00181,SMART_domains:SM00180,Superfamily_domains:SSF57196,Prints_domain:PR00011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCCCTGTGG	.	5	BLCA
FAM129B	0	.	GRCh37	9	130280165	130280165	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645G>A	p.Met215Ile	p.M215I	ENST00000373312	6/14	59	33	25	75	75	0	FAM129B,missense_variant,p.Met202Ile,ENST00000373314,;FAM129B,missense_variant,p.Met215Ile,ENST00000373312,;FAM129B,intron_variant,,ENST00000468379,;FAM129B,intron_variant,,ENST00000478917,;FAM129B,intron_variant,,ENST00000484348,;FAM129B,upstream_gene_variant,,ENST00000465154,;	T	ENSG00000136830	ENST00000373312	Transcript	missense_variant	859	645	215	M/I	atG/atA	COSM1314470	.	.	-1	FAM129B	HGNC	25282	protein_coding	YES	CCDS35145.1	ENSP00000362409	NIBL1_HUMAN	Q9H6L6_HUMAN	UPI00001592F0	.	deleterious(0.02)	benign(0.288)	6/14	.	hmmpanther:PTHR14392:SF2,hmmpanther:PTHR14392	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTACATGCG	.	5	BLCA
CLIC3	0	.	GRCh37	9	139890163	139890163	+	Missense_Mutation	SNP	C	C	G	rs372161131	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80G>C	p.Arg27Pro	p.R27P	ENST00000494426	2/6	49	36	13	22	22	0	CLIC3,missense_variant,p.Arg27Pro,ENST00000494426,;C9orf142,downstream_gene_variant,,ENST00000371620,;CLIC3,non_coding_transcript_exon_variant,,ENST00000480181,;CLIC3,non_coding_transcript_exon_variant,,ENST00000473911,;C9orf142,downstream_gene_variant,,ENST00000492564,;C9orf142,downstream_gene_variant,,ENST00000463765,;C9orf142,downstream_gene_variant,,ENST00000481187,;C9orf142,downstream_gene_variant,,ENST00000498095,;C9orf142,downstream_gene_variant,,ENST00000483807,;C9orf142,downstream_gene_variant,,ENST00000493968,;C9orf142,downstream_gene_variant,,ENST00000467845,;C9orf142,downstream_gene_variant,,ENST00000468484,;C9orf142,downstream_gene_variant,,ENST00000488678,;	G	ENSG00000169583	ENST00000494426	Transcript	missense_variant	340	80	27	R/P	cGg/cCg	rs372161131,COSM1314650	.	.	-1	CLIC3	HGNC	2064	protein_coding	YES	CCDS7021.1	ENSP00000419378	CLIC3_HUMAN	Q6FGP1_HUMAN,Q5SQ17_HUMAN	UPI00001AE551	.	deleterious(0)	probably_damaging(1)	2/6	.	hmmpanther:PTHR11260,hmmpanther:PTHR11260:SF129,Gene3D:3.40.30.10,Pfam_domain:PF13417,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGCCGCTGG	byCluster	5	BLCA
GRIN1	0	.	GRCh37	9	140052946	140052946	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1147G>T	p.Val383Leu	p.V383L	ENST00000371553	8/21	117	89	28	104	104	0	GRIN1,missense_variant,p.Val383Leu,ENST00000371555,;GRIN1,missense_variant,p.Val362Leu,ENST00000315048,;GRIN1,missense_variant,p.Val362Leu,ENST00000371561,;GRIN1,missense_variant,p.Val362Leu,ENST00000371550,;GRIN1,missense_variant,p.Val362Leu,ENST00000350902,;GRIN1,missense_variant,p.Val383Leu,ENST00000371553,;GRIN1,missense_variant,p.Val362Leu,ENST00000371559,;GRIN1,missense_variant,p.Val383Leu,ENST00000371546,;GRIN1,missense_variant,p.Val383Leu,ENST00000371560,;GRIN1,non_coding_transcript_exon_variant,,ENST00000485413,;GRIN1,non_coding_transcript_exon_variant,,ENST00000471122,;GRIN1,upstream_gene_variant,,ENST00000460273,;	T	ENSG00000176884	ENST00000371553	Transcript	missense_variant	1153	1147	383	V/L	Gtg/Ttg	COSM1314659	.	.	1	GRIN1	HGNC	4584	protein_coding	YES	CCDS55354.1	ENSP00000360608	NMDZ1_HUMAN	.	UPI000014AF8E	.	deleterious(0.05)	benign(0.003)	8/21	.	hmmpanther:PTHR18966:SF160,hmmpanther:PTHR18966,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGGTGCAA	.	5	BLCA
SSNA1	0	.	GRCh37	9	140083594	140083594	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.129G>A	p.%3D	p.L43L	ENST00000322310	2/3	57	32	24	32	32	0	SSNA1,synonymous_variant,p.%3D,ENST00000322310,;TPRN,downstream_gene_variant,,ENST00000409012,;TPRN,downstream_gene_variant,,ENST00000321773,;TPRN,downstream_gene_variant,,ENST00000333046,;ANAPC2,upstream_gene_variant,,ENST00000323927,;SSNA1,non_coding_transcript_exon_variant,,ENST00000464553,;SSNA1,non_coding_transcript_exon_variant,,ENST00000459860,;SSNA1,non_coding_transcript_exon_variant,,ENST00000463511,;ANAPC2,upstream_gene_variant,,ENST00000495611,;TPRN,downstream_gene_variant,,ENST00000541945,;TPRN,downstream_gene_variant,,ENST00000477345,;	A	ENSG00000176101	ENST00000322310	Transcript	synonymous_variant	209	129	43	L	ctG/ctA	COSM1314660	.	.	1	SSNA1	HGNC	11321	protein_coding	YES	CCDS7034.1	ENSP00000313752	SSNA1_HUMAN	.	UPI0000140DC3	.	.	.	2/3	.	Coiled-coils_(Ncoils):Coil,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTGCAGAA	.	5	BLCA
ARRDC1	0	.	GRCh37	9	140508609	140508609	+	Silent	SNP	C	C	G	rs145510266	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561C>G	p.%3D	p.A187A	ENST00000371421	5/8	830	426	404	391	391	0	ARRDC1,synonymous_variant,p.%3D,ENST00000419386,;ARRDC1,synonymous_variant,p.%3D,ENST00000371421,;EHMT1,upstream_gene_variant,,ENST00000334856,;ARRDC1,downstream_gene_variant,,ENST00000431925,;EHMT1,upstream_gene_variant,,ENST00000462484,;C9orf37,downstream_gene_variant,,ENST00000371417,;EHMT1,upstream_gene_variant,,ENST00000460843,;ARRDC1,non_coding_transcript_exon_variant,,ENST00000471125,;ARRDC1,non_coding_transcript_exon_variant,,ENST00000491911,;ARRDC1,non_coding_transcript_exon_variant,,ENST00000466367,;ARRDC1,non_coding_transcript_exon_variant,,ENST00000495220,;ARRDC1,non_coding_transcript_exon_variant,,ENST00000483563,;ARRDC1,non_coding_transcript_exon_variant,,ENST00000497877,;EHMT1,upstream_gene_variant,,ENST00000371394,;ARRDC1,upstream_gene_variant,,ENST00000475658,;ARRDC1,downstream_gene_variant,,ENST00000468983,;C9orf37,downstream_gene_variant,,ENST00000496793,;ARRDC1,downstream_gene_variant,,ENST00000461627,;	G	ENSG00000197070	ENST00000371421	Transcript	synonymous_variant	625	561	187	A	gcC/gcG	rs145510266,COSM1314680	.	.	1	ARRDC1	HGNC	28633	protein_coding	YES	CCDS7049.1	ENSP00000360475	ARRD1_HUMAN	.	UPI0000072A1F	.	.	.	5/8	.	Superfamily_domains:SSF81296,SMART_domains:SM01017,Pfam_domain:PF02752,hmmpanther:PTHR11188,hmmpanther:PTHR11188:SF11	.	.	.	.	.	.	.	T:0.0002	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGCCGACGT	byCluster	5	BLCA
C9orf72	0	.	GRCh37	9	27548365	27548365	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1315T>G	p.Leu439Val	p.L439V	ENST00000380003	11/11	38	34	4	39	39	0	C9orf72,missense_variant,p.Leu439Val,ENST00000380003,;C9orf72,non_coding_transcript_exon_variant,,ENST00000488117,;	C	ENSG00000147894	ENST00000380003	Transcript	missense_variant	1379	1315	439	L/V	Tta/Gta	.	.	.	-1	C9orf72	HGNC	28337	protein_coding	YES	CCDS6522.1	ENSP00000369339	CI072_HUMAN	Q9NUW0_HUMAN	UPI00001D3FEF	.	deleterious(0)	probably_damaging(0.996)	11/11	.	hmmpanther:PTHR31855,hmmpanther:PTHR31855:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TGTTAAATCAA	.	2	BLCA
CNTFR	0	.	GRCh37	9	34557969	34557969	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333G>T	p.Glu111Asp	p.E111D	ENST00000378980	5/10	477	313	164	193	193	0	CNTFR,missense_variant,p.Glu111Asp,ENST00000351266,;CNTFR,missense_variant,p.Glu111Asp,ENST00000378980,;CNTFR,missense_variant,p.Glu111Asp,ENST00000417345,;	A	ENSG00000122756	ENST00000378980	Transcript	missense_variant	627	333	111	E/D	gaG/gaT	COSM1314788	.	.	-1	CNTFR	HGNC	2170	protein_coding	YES	CCDS6558.1	ENSP00000368265	CNTFR_HUMAN	Q5T8H6_HUMAN,B3KXJ2_HUMAN	UPI0000000DBD	.	tolerated(0.13)	possibly_damaging(0.625)	5/10	.	Superfamily_domains:SSF49265,Superfamily_domains:SSF48726,Gene3D:2.60.40.10,hmmpanther:PTHR23036,hmmpanther:PTHR23036:SF93,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGGCTCCCG	.	5	BLCA
INSL4	0	.	GRCh37	9	5231528	5231528	+	Missense_Mutation	SNP	C	C	T	rs779260190	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5C>T	p.Ala2Val	p.A2V	ENST00000239316	1/2	73	37	35	55	55	0	INSL4,missense_variant,p.Ala2Val,ENST00000239316,;	T	ENSG00000120211	ENST00000239316	Transcript	missense_variant	110	5	2	A/V	gCc/gTc	rs779260190,COSM1314858	.	.	1	INSL4	HGNC	6087	protein_coding	YES	CCDS6459.1	ENSP00000239316	INSL4_HUMAN	.	UPI0000032F5A	.	tolerated(0.43)	benign(0.001)	1/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR12004:SF3,hmmpanther:PTHR12004	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGGCCAGCC	.	5	BLCA
FOXD4L6	0	.	GRCh37	9	69200173	69200173	+	3'UTR	SNP	G	G	T	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*186C>A	.	.	ENST00000377473	1/1	186	133	52	70	70	0	FOXD4L6,3_prime_UTR_variant,,ENST00000377473,;CBWD6,downstream_gene_variant,,ENST00000382399,;CBWD6,downstream_gene_variant,,ENST00000377449,;CBWD6,downstream_gene_variant,,ENST00000377457,;CBWD6,downstream_gene_variant,,ENST00000416428,;CBWD6,downstream_gene_variant,,ENST00000461037,;CBWD6,downstream_gene_variant,,ENST00000495626,;CBWD6,downstream_gene_variant,,ENST00000498101,;CBWD6,downstream_gene_variant,,ENST00000477430,;CBWD6,downstream_gene_variant,,ENST00000468061,;CBWD6,downstream_gene_variant,,ENST00000466320,;CBWD6,downstream_gene_variant,,ENST00000468763,;	T	ENSG00000204793	ENST00000377473	Transcript	3_prime_UTR_variant	2032	.	.	.	.	.	.	.	-1	FOXD4L6	HGNC	31986	protein_coding	YES	CCDS43826.1	ENSP00000366693	FX4L6_HUMAN	Q8WTR0_HUMAN	UPI0000519166	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAATGGGCCG	.	5	BLCA
FOXB2	0	.	GRCh37	9	79635344	79635344	+	Silent	SNP	G	G	A	rs754512049	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774G>A	p.%3D	p.A258A	ENST00000376708	1/1	38	21	17	25	25	0	FOXB2,synonymous_variant,p.%3D,ENST00000376708,;	A	ENSG00000204612	ENST00000376708	Transcript	synonymous_variant	774	774	258	A	gcG/gcA	rs754512049,COSM1314932,COSM3908112,COSM1314931,COSM3908111	.	.	1	FOXB2	HGNC	23315	protein_coding	YES	CCDS35045.1	ENSP00000365898	FOXB2_HUMAN	.	UPI00004588EE	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11829:SF76,hmmpanther:PTHR11829	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCGCGGCCGC	.	2	BLCA
SYK	0	.	GRCh37	9	93629433	93629433	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.867A>G	p.Ile289Met	p.I289M	ENST00000375754	7/14	85	46	38	86	86	0	SYK,missense_variant,p.Ile289Met,ENST00000375754,;SYK,missense_variant,p.Ile289Met,ENST00000375746,;SYK,intron_variant,,ENST00000375747,;SYK,intron_variant,,ENST00000375751,;	G	ENSG00000165025	ENST00000375754	Transcript	missense_variant	1015	867	289	I/M	atA/atG	COSM1315013	.	.	1	SYK	HGNC	11491	protein_coding	YES	CCDS6688.1	ENSP00000364907	KSYK_HUMAN	.	UPI000012E0DD	.	tolerated(0.09)	benign(0.413)	7/14	.	hmmpanther:PTHR24418:SF79,hmmpanther:PTHR24418,PIRSF_domain:PIRSF000604	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATAATCTC	.	5	BLCA
WNK2	0	.	GRCh37	9	96051184	96051184	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4259C>G	p.Pro1420Arg	p.P1420R	ENST00000297954	20/30	36	14	21	28	28	0	WNK2,missense_variant,p.Pro1379Arg,ENST00000432730,;WNK2,missense_variant,p.Pro995Arg,ENST00000427277,;WNK2,missense_variant,p.Pro1032Arg,ENST00000349097,;WNK2,missense_variant,p.Pro987Arg,ENST00000411624,;WNK2,missense_variant,p.Pro1420Arg,ENST00000297954,;WNK2,missense_variant,p.Pro180Arg,ENST00000448251,;WNK2,missense_variant,p.Pro1383Arg,ENST00000395477,;WNK2,3_prime_UTR_variant,,ENST00000395475,;WNK2,5_prime_UTR_variant,,ENST00000356055,;WNK2,upstream_gene_variant,,ENST00000453718,;WNK2,upstream_gene_variant,,ENST00000474009,;WNK2,upstream_gene_variant,,ENST00000479696,;	G	ENSG00000165238	ENST00000297954	Transcript	missense_variant	4259	4259	1420	P/R	cCt/cGt	COSM1315029,COSM1315028	.	.	1	WNK2	HGNC	14542	protein_coding	YES	.	ENSP00000297954	WNK2_HUMAN	.	UPI0000236D76	.	.	unknown(0)	20/30	.	hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF10,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCCTTTGG	.	5	BLCA
FANCB	0	.	GRCh37	X	14863348	14863348	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1557G>T	p.%3D	p.R519R	ENST00000398334	8/10	28	7	20	30	30	0	FANCB,synonymous_variant,p.%3D,ENST00000324138,;FANCB,synonymous_variant,p.%3D,ENST00000398334,;FANCB,synonymous_variant,p.%3D,ENST00000452869,;	A	ENSG00000181544	ENST00000398334	Transcript	synonymous_variant	1825	1557	519	R	cgG/cgT	COSM1315273	.	.	-1	FANCB	HGNC	3583	protein_coding	YES	CCDS14161.1	ENSP00000381378	FANCB_HUMAN	C9J5X9_HUMAN	UPI000006E70A	.	.	.	8/10	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAGCCGAAA	.	5	BLCA
KDM6A	0	.	GRCh37	X	44922670	44922670	+	Nonsense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1531A>T	p.Arg511Ter	p.R511*	ENST00000377967	16/29	56	8	48	67	67	0	KDM6A,stop_gained,p.Arg154Ter,ENST00000433797,;KDM6A,stop_gained,p.Arg109Ter,ENST00000414389,;KDM6A,stop_gained,p.Arg141Ter,ENST00000451692,;KDM6A,stop_gained,p.Arg432Ter,ENST00000543216,;KDM6A,stop_gained,p.Arg518Ter,ENST00000382899,;KDM6A,stop_gained,p.Arg511Ter,ENST00000377967,;KDM6A,stop_gained,p.Arg466Ter,ENST00000536777,;	T	ENSG00000147050	ENST00000377967	Transcript	stop_gained	1572	1531	511	R/*	Aga/Tga	COSM1315516	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	16/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5,BUFFER|p.?|c.1528-1G>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATGAGACCA	.	5	BLCA
AKAP4	0	.	GRCh37	X	49957631	49957631	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1733T>G	p.Met578Arg	p.M578R	ENST00000358526	5/6	25	9	15	22	22	0	AKAP4,missense_variant,p.Met195Arg,ENST00000448865,;AKAP4,missense_variant,p.Met578Arg,ENST00000358526,;AKAP4,missense_variant,p.Met569Arg,ENST00000376056,;AKAP4,missense_variant,p.Met569Arg,ENST00000376064,;AKAP4,missense_variant,p.Met195Arg,ENST00000376058,;AKAP4,downstream_gene_variant,,ENST00000437370,;AKAP4,non_coding_transcript_exon_variant,,ENST00000481402,;AKAP4,downstream_gene_variant,,ENST00000480926,;	C	ENSG00000147081	ENST00000358526	Transcript	missense_variant	1857	1733	578	M/R	aTg/aGg	COSM1315568	.	.	-1	AKAP4	HGNC	374	protein_coding	YES	CCDS14329.1	ENSP00000351327	AKAP4_HUMAN	.	UPI000013DA96	.	deleterious(0.02)	possibly_damaging(0.485)	5/6	.	hmmpanther:PTHR10226:SF8,hmmpanther:PTHR10226,Pfam_domain:PF05716,SMART_domains:SM00807	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCATATAG	.	5	BLCA
TAF9B	0	.	GRCh37	X	77387128	77387139	+	In_Frame_Del	DEL	ATCATCTTCATG	ATCATCTTCATG	-	novel	.	TCGA-FD-A3N5-01A-11D-A21A-08	TCGA-FD-A3N5-10A-01D-A21A-08	ATCATCTTCATG	ATCATCTTCATG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724_735delCATGAAGATGAT	p.His242_Asp245del	p.H242_D245del	ENST00000341864	7/7	31	11	20	52	52	0	TAF9B,inframe_deletion,p.His242_Asp245del,ENST00000341864,;PGK1,downstream_gene_variant,,ENST00000373316,;TAF9B,downstream_gene_variant,,ENST00000480681,;	-	ENSG00000187325	ENST00000341864	Transcript	inframe_deletion	819-830	724-735	242-245	HEDD/-	CATGAAGATGAT/-	.	.	.	-1	TAF9B	HGNC	17306	protein_coding	YES	CCDS35340.1	ENSP00000339917	TAF9B_HUMAN	.	UPI0000071003	.	.	.	7/7	.	hmmpanther:PTHR12075:SF1,hmmpanther:PTHR12075	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTCATCATCATCTTCATGTTTTC	.	3	BLCA
SUFU	0	.	GRCh37	10	104353808	104353808	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742G>A	p.Asp248Asn	p.D248N	ENST00000369902	6/12	174	90	84	109	109	0	SUFU,missense_variant,p.Asp248Asn,ENST00000369899,;SUFU,missense_variant,p.Asp248Asn,ENST00000369902,;SUFU,missense_variant,p.Asp248Asn,ENST00000423559,;RNU6-43P,downstream_gene_variant,,ENST00000384302,;SUFU,non_coding_transcript_exon_variant,,ENST00000471000,;	A	ENSG00000107882	ENST00000369902	Transcript	missense_variant	908	742	248	D/N	Gat/Aat	COSM1296881	.	.	1	SUFU	HGNC	16466	protein_coding	YES	CCDS7537.1	ENSP00000358918	SUFU_HUMAN	.	UPI0000073C79	.	tolerated(0.28)	benign(0.056)	6/12	.	hmmpanther:PTHR10928:SF2,hmmpanther:PTHR10928,PIRSF_domain:PIRSF011844,Superfamily_domains:0040736	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATCGATCCA	.	5	BLCA
UROS	0	.	GRCh37	10	127503611	127503613	+	In_Frame_Del	DEL	TTA	TTA	-	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	TTA	TTA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234_236delTAA	p.Asn78del	p.N78del	ENST00000368797	4/10	77	44	33	44	44	0	UROS,inframe_deletion,p.Asn78del,ENST00000368797,;UROS,inframe_deletion,p.Asn78del,ENST00000368774,;UROS,inframe_deletion,p.Asn78del,ENST00000368778,;UROS,inframe_deletion,p.Asn78del,ENST00000368786,;UROS,inframe_deletion,p.Asn50del,ENST00000420761,;MIR4484,upstream_gene_variant,,ENST00000582855,;	-	ENSG00000188690	ENST00000368797	Transcript	inframe_deletion	459-461	234-236	78-79	NK/K	aaTAAa/aaa	.	.	.	-1	UROS	HGNC	12592	protein_coding	YES	CCDS7648.1	ENSP00000357787	HEM4_HUMAN	.	UPI000012C4A4	.	.	.	4/10	.	hmmpanther:PTHR12390,Pfam_domain:PF02602,Gene3D:3.40.50.10090,Superfamily_domains:SSF69618	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCAGTTTTATTGTT	.	3	BLCA
ITIH5	0	.	GRCh37	10	7658000	7658000	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.884A>T	p.Asn295Ile	p.N295I	ENST00000256861	7/14	125	118	7	67	67	0	ITIH5,missense_variant,p.Asn295Ile,ENST00000397146,;ITIH5,missense_variant,p.Asn77Ile,ENST00000446830,;ITIH5,missense_variant,p.Asn81Ile,ENST00000298441,;ITIH5,missense_variant,p.Asn295Ile,ENST00000256861,;ITIH5,missense_variant,p.Asn295Ile,ENST00000397145,;ITIH5,non_coding_transcript_exon_variant,,ENST00000434980,;ITIH5,missense_variant,p.Asn73Ile,ENST00000461751,;ITIH5,non_coding_transcript_exon_variant,,ENST00000476417,;	A	ENSG00000123243	ENST00000256861	Transcript	missense_variant	963	884	295	N/I	aAt/aTt	COSM1297441,COSM1297442	.	.	-1	ITIH5	HGNC	21449	protein_coding	YES	.	ENSP00000256861	ITIH5_HUMAN	.	UPI00001F8AF3	.	deleterious(0)	probably_damaging(0.997)	7/14	.	PROSITE_profiles:PS50234,hmmpanther:PTHR10338:SF62,hmmpanther:PTHR10338,Pfam_domain:PF00092,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACATTCTTG	.	2	BLCA
MMP12	0	.	GRCh37	11	102742561	102742561	+	RNA	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.569G>A	.	.	ENST00000532855	3/10	28	15	13	18	18	0	MMP12,non_coding_transcript_exon_variant,,ENST00000532855,;MMP12,non_coding_transcript_exon_variant,,ENST00000326227,;	T	ENSG00000110347	ENST00000532855	Transcript	non_coding_transcript_exon_variant	569	.	.	.	.	COSM1297569	.	.	-1	MMP12	HGNC	7158	processed_transcript	YES	.	.	.	.	.	.	.	.	3/10	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGTCAGCCA	.	5	BLCA
ATM	0	.	GRCh37	11	108142000	108142000	+	Missense_Mutation	SNP	C	C	T	rs587779830	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2944C>T	p.Arg982Cys	p.R982C	ENST00000278616	20/63	50	27	23	15	15	0	ATM,missense_variant,p.Arg982Cys,ENST00000278616,;ATM,missense_variant,p.Arg982Cys,ENST00000527805,;ATM,missense_variant,p.Arg982Cys,ENST00000452508,;ATM,non_coding_transcript_exon_variant,,ENST00000419286,;	T	ENSG00000149311	ENST00000278616	Transcript	missense_variant	3329	2944	982	R/C	Cgt/Tgt	rs587779830,COSM1297603,COSM1297602	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	deleterious(0)	possibly_damaging(0.893)	20/63	.	Superfamily_domains:SSF48371,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF66	.	.	.	.	.	.	.	.	.	uncertain_significance	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCGTCGTGAC	byFrequency|byCluster	5	BLCA
FOXRED1	0	.	GRCh37	11	126147596	126147596	+	3'UTR	SNP	C	C	T	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12C>T	.	.	ENST00000263578	11/11	113	61	51	63	62	0	FOXRED1,3_prime_UTR_variant,,ENST00000532125,;FOXRED1,3_prime_UTR_variant,,ENST00000442061,;FOXRED1,3_prime_UTR_variant,,ENST00000263578,;snoU13,upstream_gene_variant,,ENST00000459062,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000534011,;FOXRED1,downstream_gene_variant,,ENST00000533839,;FOXRED1,downstream_gene_variant,,ENST00000526366,;FOXRED1,3_prime_UTR_variant,,ENST00000527004,;FOXRED1,3_prime_UTR_variant,,ENST00000525770,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000532590,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000534315,;FOXRED1,non_coding_transcript_exon_variant,,ENST00000530642,;FOXRED1,downstream_gene_variant,,ENST00000533395,;FOXRED1,downstream_gene_variant,,ENST00000526525,;FOXRED1,downstream_gene_variant,,ENST00000527875,;FOXRED1,downstream_gene_variant,,ENST00000525083,;FOXRED1,downstream_gene_variant,,ENST00000532101,;FOXRED1,downstream_gene_variant,,ENST00000531257,;FOXRED1,downstream_gene_variant,,ENST00000524751,;RPL35AP26,downstream_gene_variant,,ENST00000476981,;	T	ENSG00000110074	ENST00000263578	Transcript	3_prime_UTR_variant	1547	.	.	.	.	.	.	.	1	FOXRED1	HGNC	26927	protein_coding	YES	CCDS8471.1	ENSP00000263578	FXRD1_HUMAN	B4DXM1_HUMAN,B4DQI0_HUMAN	UPI0000037C04	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTGCTCTGCAC	.	4	BLCA
MUC5B	0	.	GRCh37	11	1271029	1271029	+	Missense_Mutation	SNP	A	A	G	rs756788272	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12919A>G	p.Thr4307Ala	p.T4307A	ENST00000529681	31/49	243	152	91	187	186	0	MUC5B,missense_variant,p.Thr4307Ala,ENST00000529681,;MUC5B,missense_variant,p.Thr4310Ala,ENST00000447027,;RP11-532E4.2,upstream_gene_variant,,ENST00000532061,;	G	ENSG00000117983	ENST00000529681	Transcript	missense_variant	12977	12919	4307	T/A	Acc/Gcc	rs756788272,COSM1297805,COSM1297804	.	.	1	MUC5B	HGNC	7516	protein_coding	YES	CCDS44515.2	ENSP00000436812	MUC5B_HUMAN	Q93043_HUMAN	UPI0001DD21C7	.	.	benign(0.001)	31/49	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF237	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACCACCCTT	byFrequency	5	BLCA
NAT10	0	.	GRCh37	11	34130334	34130334	+	Missense_Mutation	SNP	C	C	T	rs552744350	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154C>T	p.Arg52Trp	p.R52W	ENST00000257829	3/29	63	33	29	50	49	1	NAT10,missense_variant,p.Arg52Trp,ENST00000529523,;NAT10,missense_variant,p.Arg52Trp,ENST00000527971,;NAT10,missense_variant,p.Arg52Trp,ENST00000257829,;NAT10,intron_variant,,ENST00000531159,;NAT10,non_coding_transcript_exon_variant,,ENST00000531723,;NAT10,downstream_gene_variant,,ENST00000532503,;	T	ENSG00000135372	ENST00000257829	Transcript	missense_variant	360	154	52	R/W	Cgg/Tgg	rs552744350,COSM1297993	.	.	1	NAT10	HGNC	29830	protein_coding	YES	CCDS7889.1	ENSP00000257829	NAT10_HUMAN	E9PJN6_HUMAN,E7ESU4_HUMAN	UPI000013CF8E	.	deleterious(0)	probably_damaging(0.991)	3/29	.	hmmpanther:PTHR10925	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGGCTCGGCCT	by1000G	4	BLCA
SLC1A2	0	.	GRCh37	11	35287050	35287050	+	Intron	SNP	G	G	A	rs746178091	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1653+24C>T	.	.	ENST00000278379	.	63	38	25	38	38	0	SLC1A2,synonymous_variant,p.%3D,ENST00000606205,;SLC1A2,intron_variant,,ENST00000395753,;SLC1A2,intron_variant,,ENST00000395750,;SLC1A2,intron_variant,,ENST00000464522,;SLC1A2,intron_variant,,ENST00000278379,;SLC1A2,downstream_gene_variant,,ENST00000531628,;SLC1A2,intron_variant,,ENST00000479543,;	A	ENSG00000110436	ENST00000278379	Transcript	intron_variant	.	.	.	.	.	rs746178091	.	.	-1	SLC1A2	HGNC	10940	protein_coding	YES	CCDS31459.1	ENSP00000278379	EAA2_HUMAN	A2A2U1_HUMAN	UPI0000129B12	.	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTCGATATC	.	5	BLCA
ART1	0	.	GRCh37	11	3681295	3681295	+	Silent	SNP	C	C	T	rs149229160	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546C>T	p.%3D	p.H182H	ENST00000250693	3/5	32	16	15	38	38	0	ART1,synonymous_variant,p.%3D,ENST00000250693,;Y_RNA,downstream_gene_variant,,ENST00000364409,;ART1,downstream_gene_variant,,ENST00000529556,;	T	ENSG00000129744	ENST00000250693	Transcript	synonymous_variant	647	546	182	H	caC/caT	rs149229160,COSM1298014	.	.	1	ART1	HGNC	723	protein_coding	YES	CCDS7744.1	ENSP00000250693	NAR1_HUMAN	.	UPI000013CCC8	.	.	.	3/5	.	hmmpanther:PTHR10339:SF19,hmmpanther:PTHR10339,Gene3D:3.90.176.10,Pfam_domain:PF01129,Superfamily_domains:SSF56399	.	.	.	.	.	.	.	T:0	T:0.0006	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	GTGCACGGCCT	byFrequency|byCluster	4	BLCA
CELF1	0	.	GRCh37	11	47510398	47510398	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250C>T	p.Gln84Ter	p.Q84*	ENST00000532048	4/16	173	94	79	81	81	0	CELF1,stop_gained,p.Gln57Ter,ENST00000395290,;CELF1,stop_gained,p.Gln57Ter,ENST00000525841,;CELF1,stop_gained,p.Gln57Ter,ENST00000310513,;CELF1,stop_gained,p.Gln57Ter,ENST00000543178,;CELF1,stop_gained,p.Gln57Ter,ENST00000530151,;CELF1,stop_gained,p.Gln84Ter,ENST00000532048,;CELF1,stop_gained,p.Gln84Ter,ENST00000528434,;CELF1,stop_gained,p.Gln57Ter,ENST00000361904,;CELF1,stop_gained,p.Gln84Ter,ENST00000531165,;CELF1,stop_gained,p.Gln84Ter,ENST00000535982,;CELF1,stop_gained,p.Gln57Ter,ENST00000395292,;CELF1,stop_gained,p.Gln57Ter,ENST00000358597,;CELF1,incomplete_terminal_codon_variant,p.%3D,ENST00000526419,;CELF1,downstream_gene_variant,,ENST00000528538,;CELF1,downstream_gene_variant,,ENST00000526277,;AC090559.1,upstream_gene_variant,,ENST00000578625,;CELF1,upstream_gene_variant,,ENST00000422993,;	A	ENSG00000149187	ENST00000532048	Transcript	stop_gained	1144	250	84	Q/*	Cag/Tag	COSM1298092	.	.	-1	CELF1	HGNC	2549	protein_coding	YES	CCDS53623.1	ENSP00000435926	CELF1_HUMAN	F5H4Y5_HUMAN,F5H3J7_HUMAN,F5H0D8_HUMAN,E9PSH0_HUMAN,E9PQK4_HUMAN,E9PKU1_HUMAN,E9PKA1_HUMAN	UPI0000D9D8B2	.	.	.	4/16	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24622:SF179,hmmpanther:PTHR24622,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTGAGGCG	.	5	BLCA
NUP160	0	.	GRCh37	11	47834457	47834457	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1929G>A	p.%3D	p.L643L	ENST00000378460	15/36	79	57	21	39	39	0	NUP160,synonymous_variant,p.%3D,ENST00000528501,;NUP160,synonymous_variant,p.%3D,ENST00000528071,;NUP160,synonymous_variant,p.%3D,ENST00000530326,;NUP160,synonymous_variant,p.%3D,ENST00000378460,;NUP160,downstream_gene_variant,,ENST00000531016,;	T	ENSG00000030066	ENST00000378460	Transcript	synonymous_variant	1976	1929	643	L	ctG/ctA	COSM1298101	.	.	-1	NUP160	HGNC	18017	protein_coding	YES	CCDS31484.1	ENSP00000367721	NU160_HUMAN	.	UPI0000185FEB	.	.	.	15/36	.	hmmpanther:PTHR21286	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTCCAGAAT	.	5	BLCA
GLYATL1	0	.	GRCh37	11	58722335	58722335	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372G>T	p.Glu124Asp	p.E124D	ENST00000300079	5/7	40	25	15	16	16	0	GLYATL1,missense_variant,p.Glu93Asp,ENST00000317391,;GLYATL1,missense_variant,p.Glu116Asp,ENST00000526351,;GLYATL1,missense_variant,p.Glu124Asp,ENST00000300079,;GLYATL1,downstream_gene_variant,,ENST00000532726,;GLYATL1,downstream_gene_variant,,ENST00000525608,;RP11-142C4.6,intron_variant,,ENST00000533954,;RP11-142C4.6,downstream_gene_variant,,ENST00000525714,;GLYATL1,non_coding_transcript_exon_variant,,ENST00000533864,;GLYATL1,non_coding_transcript_exon_variant,,ENST00000524403,;GLYATL1,intron_variant,,ENST00000534063,;GLYATL1,3_prime_UTR_variant,,ENST00000527708,;GLYATL1,3_prime_UTR_variant,,ENST00000530240,;GLYATL1,3_prime_UTR_variant,,ENST00000524881,;GLYATL1,3_prime_UTR_variant,,ENST00000530774,;GLYATL1,non_coding_transcript_exon_variant,,ENST00000534119,;	T	ENSG00000166840	ENST00000300079	Transcript	missense_variant	422	372	124	E/D	gaG/gaT	COSM1298233,COSM1298234	.	.	1	GLYATL1	HGNC	30519	protein_coding	YES	CCDS31556.1	ENSP00000300079	GLYL1_HUMAN	E9PP99_HUMAN,E9PNJ8_HUMAN,E9PK55_HUMAN	UPI000006ED98	.	tolerated(0.28)	possibly_damaging(0.475)	5/7	.	hmmpanther:PTHR15298,hmmpanther:PTHR15298:SF7,Pfam_domain:PF06021,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGAGATCGT	.	5	BLCA
SMPD1	0	.	GRCh37	11	6412803	6412803	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508T>G	p.Trp170Gly	p.W170G	ENST00000342245	2/6	22	17	5	20	20	0	SMPD1,missense_variant,p.Trp169Gly,ENST00000527275,;SMPD1,missense_variant,p.Trp170Gly,ENST00000342245,;SMPD1,missense_variant,p.Trp170Gly,ENST00000299397,;SMPD1,missense_variant,p.Trp170Gly,ENST00000356761,;SMPD1,intron_variant,,ENST00000530395,;APBB1,downstream_gene_variant,,ENST00000608704,;APBB1,downstream_gene_variant,,ENST00000608394,;APBB1,downstream_gene_variant,,ENST00000530885,;APBB1,downstream_gene_variant,,ENST00000609360,;APBB1,downstream_gene_variant,,ENST00000299402,;APBB1,downstream_gene_variant,,ENST00000389906,;SMPD1,upstream_gene_variant,,ENST00000526280,;APBB1,downstream_gene_variant,,ENST00000608645,;APBB1,downstream_gene_variant,,ENST00000609331,;APBB1,downstream_gene_variant,,ENST00000311051,;APBB1,downstream_gene_variant,,ENST00000608655,;APBB1,downstream_gene_variant,,ENST00000529519,;SMPD1,intron_variant,,ENST00000533196,;APBB1,downstream_gene_variant,,ENST00000526240,;SMPD1,missense_variant,p.Trp170Gly,ENST00000533123,;SMPD1,missense_variant,p.Trp170Gly,ENST00000534405,;SMPD1,intron_variant,,ENST00000531303,;SMPD1,upstream_gene_variant,,ENST00000532367,;APBB1,downstream_gene_variant,,ENST00000608435,;SMPD1,upstream_gene_variant,,ENST00000531336,;APBB1,downstream_gene_variant,,ENST00000524626,;	G	ENSG00000166311	ENST00000342245	Transcript	missense_variant	676	508	170	W/G	Tgg/Ggg	COSM1298373,COSM1298372	.	.	1	SMPD1	HGNC	11120	protein_coding	YES	CCDS44531.1	ENSP00000340409	ASM_HUMAN	E9PL59_HUMAN	UPI000013E592	.	deleterious(0.02)	benign(0.008)	2/6	.	PROSITE_profiles:PS50015,hmmpanther:PTHR10340,hmmpanther:PTHR10340:SF13,PIRSF_domain:PIRSF000948	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCACTGGGAC	.	5	BLCA
TUB	0	.	GRCh37	11	8111718	8111718	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358G>A	p.Glu120Lys	p.E120K	ENST00000305253	4/13	105	65	40	100	100	0	TUB,missense_variant,p.Glu71Lys,ENST00000534099,;TUB,missense_variant,p.Glu65Lys,ENST00000299506,;TUB,missense_variant,p.Glu120Lys,ENST00000305253,;	A	ENSG00000166402	ENST00000305253	Transcript	missense_variant	599	358	120	E/K	Gag/Aag	COSM1298684	.	.	1	TUB	HGNC	12406	protein_coding	YES	CCDS7786.1	ENSP00000305426	TUB_HUMAN	Q9H4D2_HUMAN	UPI000013EA27	.	deleterious(0.02)	probably_damaging(0.994)	4/13	.	hmmpanther:PTHR16517:SF20,hmmpanther:PTHR16517,Prints_domain:PR01574	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCAGAGGAA	.	5	BLCA
ANO4	0	.	GRCh37	12	101510477	101510477	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2366A>C	p.Asn789Thr	p.N789T	ENST00000392979	24/27	335	213	122	153	153	0	ANO4,missense_variant,p.Asn344Thr,ENST00000550015,;ANO4,missense_variant,p.Asn344Thr,ENST00000299222,;ANO4,missense_variant,p.Asn824Thr,ENST00000392977,;ANO4,missense_variant,p.Asn789Thr,ENST00000392979,;	C	ENSG00000151572	ENST00000392979	Transcript	missense_variant	2727	2366	789	N/T	aAt/aCt	COSM1298813	.	.	1	ANO4	HGNC	23837	protein_coding	YES	CCDS31884.1	ENSP00000376705	ANO4_HUMAN	.	UPI0000198E2E	.	deleterious(0.01)	probably_damaging(0.987)	24/27	.	hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF28,Pfam_domain:PF04547	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGAATGCCA	.	5	BLCA
GCN1L1	0	.	GRCh37	12	120582583	120582583	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5212G>C	p.Glu1738Gln	p.E1738Q	ENST00000300648	41/58	397	290	107	250	250	0	GCN1L1,missense_variant,p.Glu1738Gln,ENST00000300648,;	G	ENSG00000089154	ENST00000300648	Transcript	missense_variant	5225	5212	1738	E/Q	Gaa/Caa	COSM1298996	.	.	-1	GCN1L1	HGNC	4199	protein_coding	YES	CCDS41847.1	ENSP00000300648	GCN1L_HUMAN	B4DM32_HUMAN	UPI00001FBC69	.	.	possibly_damaging(0.608)	41/58	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR23346,hmmpanther:PTHR23346:SF7	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.I1739I|c.5217C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTTCTGGCA	.	5	BLCA
ACADS	0	.	GRCh37	12	121177198	121177198	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1186G>A	p.Glu396Lys	p.E396K	ENST00000242592	10/10	39	23	16	45	45	0	ACADS,missense_variant,p.Glu396Lys,ENST00000242592,;ACADS,missense_variant,p.Glu392Lys,ENST00000411593,;RP11-173P15.7,downstream_gene_variant,,ENST00000542620,;ACADS,downstream_gene_variant,,ENST00000539690,;	A	ENSG00000122971	ENST00000242592	Transcript	missense_variant	1337	1186	396	E/K	Gaa/Aaa	COSM1299010	.	.	1	ACADS	HGNC	90	protein_coding	YES	CCDS9207.1	ENSP00000242592	ACADS_HUMAN	E5KSD5_HUMAN	UPI000004A863	.	deleterious(0)	probably_damaging(1)	10/10	.	hmmpanther:PTHR10909,hmmpanther:PTHR10909:SF10,Pfam_domain:PF00441,Gene3D:1.20.140.10,PIRSF_domain:PIRSF016578,Superfamily_domains:SSF47203	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGCGAAATC	.	5	BLCA
RSRC2	0	.	GRCh37	12	123011447	123011447	+	5'UTR	SNP	C	C	T	rs202200440	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-47G>A	.	.	ENST00000331738	1/10	37	28	9	46	46	0	RSRC2,5_prime_UTR_variant,,ENST00000331738,;RSRC2,5_prime_UTR_variant,,ENST00000528279,;RSRC2,5_prime_UTR_variant,,ENST00000526560,;RSRC2,5_prime_UTR_variant,,ENST00000344591,;RSRC2,5_prime_UTR_variant,,ENST00000354654,;KNTC1,upstream_gene_variant,,ENST00000333479,;KNTC1,upstream_gene_variant,,ENST00000450485,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527461,;KNTC1,upstream_gene_variant,,ENST00000535410,;RSRC2,upstream_gene_variant,,ENST00000532186,;RSRC2,5_prime_UTR_variant,,ENST00000527399,;RSRC2,5_prime_UTR_variant,,ENST00000532695,;RSRC2,5_prime_UTR_variant,,ENST00000433877,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525570,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525335,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525387,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527796,;RSRC2,upstream_gene_variant,,ENST00000527173,;RSRC2,upstream_gene_variant,,ENST00000531639,;	T	ENSG00000111011	ENST00000331738	Transcript	5_prime_UTR_variant	100	.	.	.	.	rs202200440	.	.	-1	RSRC2	HGNC	30559	protein_coding	YES	CCDS31920.1	ENSP00000330188	RSRC2_HUMAN	.	UPI00001FB8BB	.	.	.	1/10	.	.	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTTCAACAG	byCluster|by1000G	2	BLCA
SLC48A1	0	.	GRCh37	12	48174214	48174214	+	3'UTR	SNP	G	G	A	rs781741715	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*150G>A	.	.	ENST00000442218	3/3	80	60	20	53	53	0	SLC48A1,3_prime_UTR_variant,,ENST00000442218,;SLC48A1,intron_variant,,ENST00000442892,;HDAC7,downstream_gene_variant,,ENST00000552960,;HDAC7,downstream_gene_variant,,ENST00000380610,;HDAC7,downstream_gene_variant,,ENST00000354334,;SLC48A1,downstream_gene_variant,,ENST00000549243,;SLC48A1,downstream_gene_variant,,ENST00000548498,;HDAC7,downstream_gene_variant,,ENST00000080059,;HDAC7,downstream_gene_variant,,ENST00000548080,;HDAC7,downstream_gene_variant,,ENST00000427332,;SLC48A1,downstream_gene_variant,,ENST00000547002,;AC004466.1,upstream_gene_variant,,ENST00000599515,;HDAC7,downstream_gene_variant,,ENST00000549883,;SLC48A1,downstream_gene_variant,,ENST00000461620,;SLC48A1,downstream_gene_variant,,ENST00000476104,;SLC48A1,3_prime_UTR_variant,,ENST00000551301,;HDAC7,downstream_gene_variant,,ENST00000477203,;HDAC7,downstream_gene_variant,,ENST00000548938,;HDAC7,downstream_gene_variant,,ENST00000459625,;HDAC7,downstream_gene_variant,,ENST00000470668,;HDAC7,downstream_gene_variant,,ENST00000547259,;	A	ENSG00000211584	ENST00000442218	Transcript	3_prime_UTR_variant	688	.	.	.	.	rs781741715	.	.	1	SLC48A1	HGNC	26035	protein_coding	YES	CCDS8755.2	ENSP00000415998	HRG1_HUMAN	F8VQX9_HUMAN	UPI00001FC0AF	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTGTCCTG	byFrequency	5	BLCA
KMT2D	0	.	GRCh37	12	49440084	49440084	+	Nonsense_Mutation	SNP	G	G	T	rs755083623	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4542C>A	p.Tyr1514Ter	p.Y1514*	ENST00000301067	16/54	70	34	35	66	66	0	KMT2D,stop_gained,p.Tyr1514Ter,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000550356,;	T	ENSG00000167548	ENST00000301067	Transcript	stop_gained	4542	4542	1514	Y/*	taC/taA	rs755083623,COSM1299446,COSM302650,COSM302651,COSM1299445	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	16/54	.	PROSITE_profiles:PS50016,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324,Gene3D:3.30.40.10,SMART_domains:SM00249,SMART_domains:SM00184,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTACGTAAGG	byFrequency	5	BLCA
NEUROD4	0	.	GRCh37	12	55420884	55420884	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.661C>G	p.Leu221Val	p.L221V	ENST00000242994	2/2	90	67	23	46	46	0	NEUROD4,missense_variant,p.Leu221Val,ENST00000242994,;	G	ENSG00000123307	ENST00000242994	Transcript	missense_variant	1039	661	221	L/V	Ctc/Gtc	COSM1299616	.	.	1	NEUROD4	HGNC	13802	protein_coding	YES	CCDS8886.1	ENSP00000242994	NDF4_HUMAN	Q8IW56_HUMAN	UPI000013CB1E	.	tolerated(0.32)	benign(0.024)	2/2	.	hmmpanther:PTHR19290,hmmpanther:PTHR19290:SF86,Pfam_domain:PF12533,PIRSF_domain:PIRSF015618	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACATCTCCTT	.	5	BLCA
CS	0	.	GRCh37	12	56667537	56667537	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1064C>T	p.Pro355Leu	p.P355L	ENST00000351328	10/11	170	104	66	100	100	0	CS,missense_variant,p.Pro289Leu,ENST00000548567,;CS,missense_variant,p.Pro28Leu,ENST00000548746,;CS,missense_variant,p.Pro355Leu,ENST00000351328,;CS,missense_variant,p.Pro342Leu,ENST00000542324,;COQ10A,downstream_gene_variant,,ENST00000308197,;CS,downstream_gene_variant,,ENST00000551253,;COQ10A,downstream_gene_variant,,ENST00000546544,;CS,downstream_gene_variant,,ENST00000551936,;COQ10A,downstream_gene_variant,,ENST00000433805,;CS,downstream_gene_variant,,ENST00000548041,;CS,downstream_gene_variant,,ENST00000550734,;COQ10A,downstream_gene_variant,,ENST00000551814,;CS,downstream_gene_variant,,ENST00000546930,;COQ10A,downstream_gene_variant,,ENST00000553234,;CS,downstream_gene_variant,,ENST00000549221,;RP11-977G19.14,upstream_gene_variant,,ENST00000546464,;CS,3_prime_UTR_variant,,ENST00000549143,;CS,3_prime_UTR_variant,,ENST00000546891,;CS,non_coding_transcript_exon_variant,,ENST00000546621,;CS,downstream_gene_variant,,ENST00000548849,;COQ10A,downstream_gene_variant,,ENST00000551911,;COQ10A,downstream_gene_variant,,ENST00000549545,;CS,downstream_gene_variant,,ENST00000552331,;COQ10A,downstream_gene_variant,,ENST00000550071,;CS,downstream_gene_variant,,ENST00000546585,;	A	ENSG00000062485	ENST00000351328	Transcript	missense_variant	1255	1064	355	P/L	cCg/cTg	COSM1299664	.	.	-1	CS	HGNC	2422	protein_coding	YES	CCDS8913.1	ENSP00000342056	CISY_HUMAN	Q0QEL2_HUMAN,F8W642_HUMAN,F8W4S1_HUMAN,F8VZK9_HUMAN,F8VX68_HUMAN,F8VX07_HUMAN,F8VRP1_HUMAN,F8VPF9_HUMAN,F8VPA1_HUMAN	UPI00000700D6	.	deleterious(0)	probably_damaging(0.999)	10/11	.	hmmpanther:PTHR11739,hmmpanther:PTHR11739:SF8,PROSITE_patterns:PS00480,Pfam_domain:PF00285,TIGRFAM_domain:TIGR01793,Superfamily_domains:SSF48256,Prints_domain:PR00143	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ATCGCGGATCA	.	4	BLCA
VWF	0	.	GRCh37	12	6078455	6078455	+	Missense_Mutation	SNP	G	G	T	rs776340794	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7651C>A	p.Gln2551Lys	p.Q2551K	ENST00000261405	45/52	46	30	15	42	42	0	VWF,missense_variant,p.Gln2551Lys,ENST00000261405,;	T	ENSG00000110799	ENST00000261405	Transcript	missense_variant	7906	7651	2551	Q/K	Cag/Aag	CD114821,rs776340794,COSM1299741	.	.	-1	VWF	HGNC	12726	protein_coding	YES	CCDS8539.1	ENSP00000261405	VWF_HUMAN	H2DLA2_HUMAN	UPI00001AE7EE	.	tolerated(0.1)	benign(0.292)	45/52	.	hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF259,PIRSF_domain:PIRSF002495	.	.	.	.	.	.	.	.	.	.	0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTGGGGGC	.	5	BLCA
VWF	0	.	GRCh37	12	6140638	6140638	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2792G>C	p.Gly931Ala	p.G931A	ENST00000261405	21/52	108	61	46	70	70	0	VWF,missense_variant,p.Gly931Ala,ENST00000261405,;VWF,intron_variant,,ENST00000538635,;	G	ENSG00000110799	ENST00000261405	Transcript	missense_variant	3047	2792	931	G/A	gGa/gCa	COSM1299745	.	.	-1	VWF	HGNC	12726	protein_coding	YES	CCDS8539.1	ENSP00000261405	VWF_HUMAN	H2DLA2_HUMAN	UPI00001AE7EE	.	tolerated(0.08)	probably_damaging(0.952)	21/52	.	PROSITE_profiles:PS51233,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF259,Pfam_domain:PF00094,PIRSF_domain:PIRSF002495,SMART_domains:SM00216	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCCTCC	.	5	BLCA
TMTC4	0	.	GRCh37	13	101277794	101277794	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1831C>T	p.Arg611Cys	p.R611C	ENST00000342624	15/19	168	109	59	92	92	0	TMTC4,missense_variant,p.Arg592Cys,ENST00000376234,;TMTC4,missense_variant,p.Arg481Cys,ENST00000328767,;TMTC4,missense_variant,p.Arg611Cys,ENST00000342624,;TMTC4,non_coding_transcript_exon_variant,,ENST00000478272,;TMTC4,non_coding_transcript_exon_variant,,ENST00000462211,;TMTC4,non_coding_transcript_exon_variant,,ENST00000489713,;COX5BP6,upstream_gene_variant,,ENST00000454311,;	A	ENSG00000125247	ENST00000342624	Transcript	missense_variant	2090	1831	611	R/C	Cgt/Tgt	COSM1229842	.	.	-1	TMTC4	HGNC	25904	protein_coding	YES	CCDS9497.2	ENSP00000343871	TMTC4_HUMAN	C9K0R2_HUMAN	UPI000004B63E	.	deleterious(0.05)	benign(0.247)	15/19	.	PROSITE_profiles:PS50293,PROSITE_profiles:PS50005,hmmpanther:PTHR23083,hmmpanther:PTHR23083:SF374,Gene3D:1.25.40.10,Pfam_domain:PF13414,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R611C|c.1831C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGACGCCCGA	.	5	BLCA
ATP11A	0	.	GRCh37	13	113514618	113514618	+	Silent	SNP	G	G	A	rs200313549	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2745G>A	p.%3D	p.A915A	ENST00000487903	24/30	277	159	118	184	184	0	ATP11A,synonymous_variant,p.%3D,ENST00000375645,;ATP11A,synonymous_variant,p.%3D,ENST00000283558,;ATP11A,synonymous_variant,p.%3D,ENST00000375630,;ATP11A,synonymous_variant,p.%3D,ENST00000418678,;ATP11A,synonymous_variant,p.%3D,ENST00000487903,;ATP11A,downstream_gene_variant,,ENST00000489577,;ATP11A,non_coding_transcript_exon_variant,,ENST00000459908,;ATP11A,intron_variant,,ENST00000471555,;	A	ENSG00000068650	ENST00000487903	Transcript	synonymous_variant	2833	2745	915	A	gcG/gcA	rs200313549,COSM1300034,COSM1300035	.	.	1	ATP11A	HGNC	13552	protein_coding	YES	CCDS32011.1	ENSP00000420387	AT11A_HUMAN	.	UPI00001FCB27	.	.	.	24/30	.	Superfamily_domains:0049473,TIGRFAM_domain:TIGR01652,hmmpanther:PTHR24092:SF33,hmmpanther:PTHR24092	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0002	A:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCGCGTATCT	byCluster|by1000G	5	BLCA
ATP4B	0	.	GRCh37	13	114312442	114312444	+	In_Frame_Del	DEL	CTC	CTC	-	rs781651629	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	CTC	CTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16_18delGAG	p.Glu6del	p.E6del	ENST00000335288	1/7	31	24	7	30	30	0	ATP4B,inframe_deletion,p.Glu6del,ENST00000335288,;	-	ENSG00000186009	ENST00000335288	Transcript	inframe_deletion	58-60	16-18	6	E/-	GAG/-	rs781651629	.	.	-1	ATP4B	HGNC	820	protein_coding	YES	CCDS9539.1	ENSP00000334216	ATP4B_HUMAN	.	UPI00000012CE	.	.	.	1/7	.	hmmpanther:PTHR11523,hmmpanther:PTHR11523:SF11,TIGRFAM_domain:TIGR01107,Pfam_domain:PF00287	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTTCTTCTCCTGCA	.	3	BLCA
SAP18	0	.	GRCh37	13	21721473	21721473	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.511C>T	p.Pro171Ser	p.P171S	ENST00000382533	4/4	158	112	46	114	114	0	SAP18,missense_variant,p.Pro152Ser,ENST00000607003,;SAP18,missense_variant,p.Pro171Ser,ENST00000382533,;SAP18,3_prime_UTR_variant,,ENST00000492245,;SAP18,3_prime_UTR_variant,,ENST00000467636,;SAP18,downstream_gene_variant,,ENST00000450573,;RN7SL80P,upstream_gene_variant,,ENST00000580631,;SAP18,non_coding_transcript_exon_variant,,ENST00000471009,;	T	ENSG00000150459	ENST00000382533	Transcript	missense_variant	550	511	171	P/S	Cca/Tca	COSM1300067	.	.	1	SAP18	HGNC	10530	protein_coding	YES	CCDS9295.2	ENSP00000371973	.	U3KPY7_HUMAN	UPI000187B6C9	.	deleterious(0.01)	probably_damaging(0.944)	4/4	.	hmmpanther:PTHR13082:SF1,hmmpanther:PTHR13082,PIRSF_domain:PIRSF037637	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGACCATAT	.	5	BLCA
MTUS2	0	.	GRCh37	13	29599292	29599292	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.487G>T	p.Glu163Ter	p.E163*	ENST00000431530	1/14	83	75	7	71	71	0	MTUS2,stop_gained,p.Glu163Ter,ENST00000431530,;	T	ENSG00000132938	ENST00000431530	Transcript	stop_gained	545	487	163	E/*	Gaa/Taa	COSM223629,COSM1300121	.	.	1	MTUS2	HGNC	20595	protein_coding	YES	CCDS45022.1	ENSP00000392057	.	J3KQA9_HUMAN,B4DWQ4_HUMAN	UPI0000F734AC	.	.	.	1/14	.	hmmpanther:PTHR24200:SF8,hmmpanther:PTHR24200	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGCTGAAATT	.	3	BLCA
NPAS3	0	.	GRCh37	14	34029385	34029385	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527A>G	p.Glu176Gly	p.E176G	ENST00000356141	5/12	63	40	22	33	33	0	NPAS3,missense_variant,p.Glu146Gly,ENST00000548645,;NPAS3,missense_variant,p.Glu181Gly,ENST00000551492,;NPAS3,missense_variant,p.Glu163Gly,ENST00000357798,;NPAS3,missense_variant,p.Glu86Gly,ENST00000546849,;NPAS3,missense_variant,p.Glu176Gly,ENST00000356141,;NPAS3,missense_variant,p.Glu74Gly,ENST00000551008,;NPAS3,missense_variant,p.Glu72Gly,ENST00000547068,;NPAS3,missense_variant,p.Glu153Gly,ENST00000551634,;NPAS3,missense_variant,p.Glu144Gly,ENST00000346562,;NPAS3,missense_variant,p.Glu176Gly,ENST00000341321,;NPAS3,non_coding_transcript_exon_variant,,ENST00000549770,;NPAS3,upstream_gene_variant,,ENST00000552696,;	G	ENSG00000151322	ENST00000356141	Transcript	missense_variant	527	527	176	E/G	gAa/gGa	COSM1300575,COSM1300573,COSM1300574	.	.	1	NPAS3	HGNC	19311	protein_coding	YES	CCDS53891.1	ENSP00000348460	NPAS3_HUMAN	.	UPI00000743C2	.	deleterious(0)	possibly_damaging(0.728)	5/12	.	PROSITE_profiles:PS50112,hmmpanther:PTHR23043:SF21,hmmpanther:PTHR23043,Pfam_domain:PF00989,Gene3D:3.30.450.20,SMART_domains:SM00091,Superfamily_domains:SSF55785	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCGAAACAG	.	5	BLCA
NPAS3	0	.	GRCh37	14	34269007	34269007	+	Silent	SNP	C	C	T	rs151099881	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1494C>T	p.%3D	p.P498P	ENST00000356141	12/12	19	12	7	9	9	0	NPAS3,synonymous_variant,p.%3D,ENST00000548645,;NPAS3,synonymous_variant,p.%3D,ENST00000551492,;NPAS3,synonymous_variant,p.%3D,ENST00000551634,;NPAS3,synonymous_variant,p.%3D,ENST00000346562,;NPAS3,synonymous_variant,p.%3D,ENST00000357798,;NPAS3,synonymous_variant,p.%3D,ENST00000356141,;	T	ENSG00000151322	ENST00000356141	Transcript	synonymous_variant	1494	1494	498	P	ccC/ccT	rs151099881	.	.	1	NPAS3	HGNC	19311	protein_coding	YES	CCDS53891.1	ENSP00000348460	NPAS3_HUMAN	.	UPI00000743C2	.	.	.	12/12	.	hmmpanther:PTHR23043:SF21,hmmpanther:PTHR23043	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE|VARSCANS	GAGCCCGACCG	byCluster	3	BLCA
FSCB	0	.	GRCh37	14	44976106	44976106	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85C>A	p.His29Asn	p.H29N	ENST00000340446	1/1	161	99	61	81	80	1	FSCB,missense_variant,p.His29Asn,ENST00000340446,;RP11-163M18.1,upstream_gene_variant,,ENST00000557465,;RP11-163M18.1,upstream_gene_variant,,ENST00000556228,;RP11-163M18.1,upstream_gene_variant,,ENST00000555433,;	T	ENSG00000189139	ENST00000340446	Transcript	missense_variant	377	85	29	H/N	Cat/Aat	COSM1300611	.	.	-1	FSCB	HGNC	20494	protein_coding	YES	CCDS9679.1	ENSP00000344579	FSCB_HUMAN	.	UPI00001FD466	.	deleterious(0.03)	possibly_damaging(0.78)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGATGGGTAG	.	5	BLCA
RPL10L	0	.	GRCh37	14	47121001	47121001	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-62C>T	.	.	ENST00000298283	1/1	24	11	13	20	20	0	RPL10L,5_prime_UTR_variant,,ENST00000298283,;	A	ENSG00000165496	ENST00000298283	Transcript	5_prime_UTR_variant	28	.	.	.	.	.	.	.	-1	RPL10L	HGNC	17976	protein_coding	YES	CCDS32071.1	ENSP00000298283	RL10L_HUMAN	.	UPI0000073CA8	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCTGCGCGCAT	.	3	BLCA
ELMSAN1	0	.	GRCh37	14	74205879	74205879	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.833C>T	p.Pro278Leu	p.P278L	ENST00000286523	2/12	50	46	3	41	41	0	ELMSAN1,missense_variant,p.Pro278Leu,ENST00000435371,;ELMSAN1,missense_variant,p.Pro278Leu,ENST00000423556,;ELMSAN1,missense_variant,p.Pro278Leu,ENST00000286523,;ELMSAN1,missense_variant,p.Pro278Leu,ENST00000394071,;ELMSAN1,downstream_gene_variant,,ENST00000421708,;ELMSAN1,downstream_gene_variant,,ENST00000486739,;ELMSAN1,missense_variant,p.Pro100Leu,ENST00000451078,;	A	ENSG00000156030	ENST00000286523	Transcript	missense_variant	1616	833	278	P/L	cCg/cTg	COSM1300814	.	.	-1	ELMSAN1	HGNC	19853	protein_coding	YES	CCDS9819.1	ENSP00000286523	EMSA1_HUMAN	F6RU81_HUMAN,C9JYU7_HUMAN	UPI00001FD815	.	deleterious(0.01)	benign(0)	2/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16089:SF24,hmmpanther:PTHR16089	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGCGGCATG	.	2	BLCA
GABRG3	0	.	GRCh37	15	27572024	27572024	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339G>A	p.Met113Ile	p.M113I	ENST00000333743	4/10	159	127	32	93	93	0	GABRG3,missense_variant,p.Met55Ile,ENST00000554696,;GABRG3,missense_variant,p.Met113Ile,ENST00000555083,;GABRG3,missense_variant,p.Met113Ile,ENST00000333743,;GABRG3,upstream_gene_variant,,ENST00000557596,;	A	ENSG00000182256	ENST00000333743	Transcript	missense_variant	593	339	113	M/I	atG/atA	COSM1301004	.	.	1	GABRG3	HGNC	4088	protein_coding	YES	CCDS45195.1	ENSP00000331912	GBRG3_HUMAN	.	UPI000012AFCB	.	tolerated(0.33)	probably_damaging(0.968)	4/10	.	hmmpanther:PTHR18945:SF195,hmmpanther:PTHR18945,TIGRFAM_domain:TIGR00860,Gene3D:2.70.170.10,Pfam_domain:PF02931,Superfamily_domains:0038932	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAATGAAAAT	.	5	BLCA
RYR3	0	.	GRCh37	15	34111989	34111989	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10739A>T	p.Tyr3580Phe	p.Y3580F	ENST00000389232	77/104	570	345	225	207	207	0	RYR3,missense_variant,p.Tyr3580Phe,ENST00000389232,;RYR3,missense_variant,p.Tyr3575Phe,ENST00000415757,;RYR3,upstream_gene_variant,,ENST00000558060,;RYR3,upstream_gene_variant,,ENST00000557931,;	T	ENSG00000198838	ENST00000389232	Transcript	missense_variant	10809	10739	3580	Y/F	tAt/tTt	COSM1301036	.	.	1	RYR3	HGNC	10485	protein_coding	YES	CCDS45210.1	ENSP00000373884	RYR3_HUMAN	.	UPI0000E5B01A	.	.	possibly_damaging(0.887)	77/104	.	hmmpanther:PTHR13715:SF16,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTATTCCA	.	5	BLCA
CEP152	0	.	GRCh37	15	49064779	49064779	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1687C>A	p.Leu563Met	p.L563M	ENST00000380950	13/27	91	55	35	57	57	0	CEP152,missense_variant,p.Leu563Met,ENST00000380950,;CEP152,missense_variant,p.Leu470Met,ENST00000325747,;CEP152,missense_variant,p.Leu563Met,ENST00000399334,;CEP152,non_coding_transcript_exon_variant,,ENST00000559398,;CEP152,missense_variant,p.Leu563Met,ENST00000560322,;	T	ENSG00000103995	ENST00000380950	Transcript	missense_variant	1875	1687	563	L/M	Ctg/Atg	COSM1301188	.	.	-1	CEP152	HGNC	29298	protein_coding	YES	CCDS58361.1	ENSP00000370337	CE152_HUMAN	H0YN91_HUMAN	UPI00002378C4	.	tolerated(0.1)	probably_damaging(1)	13/27	.	hmmpanther:PTHR10337,hmmpanther:PTHR10337:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCAGATGAC	.	5	BLCA
NTRK3	0	.	GRCh37	15	88678344	88678344	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1192G>A	p.Glu398Lys	p.E398K	ENST00000360948	9/19	164	117	47	100	100	0	NTRK3,missense_variant,p.Glu398Lys,ENST00000317501,;NTRK3,missense_variant,p.Glu398Lys,ENST00000558676,;NTRK3,missense_variant,p.Glu398Lys,ENST00000557856,;NTRK3,missense_variant,p.Glu398Lys,ENST00000540489,;NTRK3,missense_variant,p.Glu398Lys,ENST00000357724,;NTRK3,missense_variant,p.Glu398Lys,ENST00000394480,;NTRK3,missense_variant,p.Glu300Lys,ENST00000542733,;NTRK3,missense_variant,p.Glu398Lys,ENST00000355254,;NTRK3,missense_variant,p.Glu398Lys,ENST00000360948,;NTRK3,intron_variant,,ENST00000560017,;NTRK3,downstream_gene_variant,,ENST00000559188,;NTRK3,non_coding_transcript_exon_variant,,ENST00000559764,;	T	ENSG00000140538	ENST00000360948	Transcript	missense_variant	1354	1192	398	E/K	Gag/Aag	COSM1301527,COSM1517953,COSM1517954,COSM1301528,COSM1301526,COSM1517952	.	.	-1	NTRK3	HGNC	8033	protein_coding	YES	CCDS32322.1	ENSP00000354207	NTRK3_HUMAN	R4GNH5_HUMAN	UPI000006DC82	.	tolerated(0.67)	benign(0.001)	9/19	.	Gene3D:2.60.40.10,hmmpanther:PTHR24416:SF66,hmmpanther:PTHR24416	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCTTGA	.	5	BLCA
IQGAP1	0	.	GRCh37	15	90996128	90996128	+	Silent	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1284C>G	p.%3D	p.L428L	ENST00000268182	12/38	75	51	24	36	36	0	IQGAP1,synonymous_variant,p.%3D,ENST00000268182,;IQGAP1,intron_variant,,ENST00000560738,;	G	ENSG00000140575	ENST00000268182	Transcript	synonymous_variant	1408	1284	428	L	ctC/ctG	COSM1301571	.	.	1	IQGAP1	HGNC	6110	protein_coding	YES	CCDS10362.1	ENSP00000268182	IQGA1_HUMAN	H0YKA5_HUMAN	UPI000012D863	.	.	.	12/38	.	hmmpanther:PTHR14149,hmmpanther:PTHR14149:SF15	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCTATCA	.	5	BLCA
BLM	0	.	GRCh37	15	91306271	91306271	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1958A>T	p.Lys653Met	p.K653M	ENST00000355112	8/22	38	20	17	21	21	0	BLM,missense_variant,p.Lys653Met,ENST00000560509,;BLM,missense_variant,p.Lys653Met,ENST00000355112,;BLM,non_coding_transcript_exon_variant,,ENST00000559426,;BLM,non_coding_transcript_exon_variant,,ENST00000560136,;BLM,downstream_gene_variant,,ENST00000558599,;BLM,3_prime_UTR_variant,,ENST00000559724,;	T	ENSG00000197299	ENST00000355112	Transcript	missense_variant	2076	1958	653	K/M	aAg/aTg	COSM1301577	.	.	1	BLM	HGNC	1058	protein_coding	YES	CCDS10363.1	ENSP00000347232	BLM_HUMAN	.	UPI00001269FA	.	deleterious(0)	possibly_damaging(0.827)	8/22	.	hmmpanther:PTHR13710,hmmpanther:PTHR13710:SF70,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACAAAGGAAA	.	5	BLCA
NOMO2	0	.	GRCh37	16	18532200	18532200	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2160G>C	p.Glu720Asp	p.E720D	ENST00000381474	19/32	208	184	24	200	200	0	NOMO2,missense_variant,p.Glu720Asp,ENST00000330537,;NOMO2,missense_variant,p.Glu553Asp,ENST00000543392,;NOMO2,missense_variant,p.Glu720Asp,ENST00000381474,;NOMO2,3_prime_UTR_variant,,ENST00000567831,;NOMO2,3_prime_UTR_variant,,ENST00000564991,;NOMO2,downstream_gene_variant,,ENST00000569051,;	G	ENSG00000185164	ENST00000381474	Transcript	missense_variant	2226	2160	720	E/D	gaG/gaC	COSM1301673	.	.	-1	NOMO2	HGNC	22652	protein_coding	YES	CCDS32394.1	ENSP00000370883	NOMO2_HUMAN	.	UPI00001AFC79	.	tolerated(0.17)	benign(0.178)	19/32	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23303	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTCTCCTG	.	4	BLCA
TRAF7	0	.	GRCh37	16	2223291	2223291	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903G>T	p.Met301Ile	p.M301I	ENST00000326181	10/21	34	20	13	43	43	0	TRAF7,missense_variant,p.Met301Ile,ENST00000326181,;TRAF7,downstream_gene_variant,,ENST00000567645,;CASKIN1,downstream_gene_variant,,ENST00000343516,;TRAF7,upstream_gene_variant,,ENST00000570169,;TRAF7,downstream_gene_variant,,ENST00000569686,;TRAF7,downstream_gene_variant,,ENST00000564067,;TRAF7,downstream_gene_variant,,ENST00000567653,;TRAF7,downstream_gene_variant,,ENST00000565383,;	T	ENSG00000131653	ENST00000326181	Transcript	missense_variant	1035	903	301	M/I	atG/atT	.	.	.	1	TRAF7	HGNC	20456	protein_coding	YES	CCDS10461.1	ENSP00000318944	TRAF7_HUMAN	H3BR17_HUMAN,D3DU86_HUMAN	UPI000014186F	.	tolerated(0.09)	benign(0.184)	10/21	.	hmmpanther:PTHR22844:SF164,hmmpanther:PTHR22844,Superfamily_domains:SSF49599	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATGCACGT	.	4	BLCA
ITFG3	0	.	GRCh37	16	313303	313303	+	Silent	SNP	C	C	T	rs768915747	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1014C>T	p.%3D	p.A338A	ENST00000399932	9/13	151	84	67	119	119	0	ITFG3,synonymous_variant,p.%3D,ENST00000442458,;ITFG3,synonymous_variant,p.%3D,ENST00000301678,;ITFG3,synonymous_variant,p.%3D,ENST00000399932,;ITFG3,synonymous_variant,p.%3D,ENST00000600536,;ITFG3,synonymous_variant,p.%3D,ENST00000301679,;ITFG3,synonymous_variant,p.%3D,ENST00000450082,;ITFG3,synonymous_variant,p.%3D,ENST00000424016,;RGS11,downstream_gene_variant,,ENST00000397770,;ITFG3,downstream_gene_variant,,ENST00000420046,;ITFG3,downstream_gene_variant,,ENST00000421000,;ITFG3,downstream_gene_variant,,ENST00000453430,;ITFG3,downstream_gene_variant,,ENST00000449945,;ITFG3,downstream_gene_variant,,ENST00000438220,;ITFG3,downstream_gene_variant,,ENST00000419173,;ITFG3,downstream_gene_variant,,ENST00000420500,;RGS11,downstream_gene_variant,,ENST00000168869,;ITFG3,downstream_gene_variant,,ENST00000496874,;ITFG3,downstream_gene_variant,,ENST00000468354,;	T	ENSG00000167930	ENST00000399932	Transcript	synonymous_variant	1465	1014	338	A	gcC/gcT	rs768915747,COSM1301922	.	.	1	ITFG3	HGNC	14163	protein_coding	YES	CCDS10402.1	ENSP00000382814	ITFG3_HUMAN	C9JR71_HUMAN,C9JJN3_HUMAN,C9J8V3_HUMAN,C9J3Y6_HUMAN,C9J1M4_HUMAN,C9IYB9_HUMAN	UPI000006DF0D	.	.	.	9/13	.	Superfamily_domains:SSF50998,hmmpanther:PTHR21419,hmmpanther:PTHR21419:SF7	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACGCCGGTGC	byFrequency	5	BLCA
NOD2	0	.	GRCh37	16	50745145	50745145	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1323G>A	p.%3D	p.E441E	ENST00000300589	4/12	121	72	48	117	117	0	NOD2,synonymous_variant,p.%3D,ENST00000300589,;NOD2,upstream_gene_variant,,ENST00000534057,;RP11-327F22.6,upstream_gene_variant,,ENST00000602304,;NOD2,downstream_gene_variant,,ENST00000532206,;NOD2,downstream_gene_variant,,ENST00000526417,;NOD2,downstream_gene_variant,,ENST00000527070,;NOD2,upstream_gene_variant,,ENST00000524712,;NOD2,upstream_gene_variant,,ENST00000529633,;NOD2,upstream_gene_variant,,ENST00000527052,;NOD2,upstream_gene_variant,,ENST00000534067,;	A	ENSG00000167207	ENST00000300589	Transcript	synonymous_variant	1428	1323	441	E	gaG/gaA	COSM1302012	.	.	1	NOD2	HGNC	5331	protein_coding	YES	CCDS10746.1	ENSP00000300589	NOD2_HUMAN	Q7Z597_HUMAN,Q7Z596_HUMAN,Q6TDC3_HUMAN,E9PK30_HUMAN,D9N2T7_HUMAN,D6CHF9_HUMAN,B5B2Z6_HUMAN,B5B2Z5_HUMAN,B5B2Z4_HUMAN,B5A7D5_HUMAN,A7KZR0_HUMAN,A7KZQ9_HUMAN,A7J384_HUMAN,A3FA72_HUMAN	UPI000005027A	.	.	.	4/12	.	hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF64,Pfam_domain:PF05729,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCGAGTTCAA	.	5	BLCA
SALL1	0	.	GRCh37	16	51173864	51173864	+	Missense_Mutation	SNP	G	G	C	rs377342041	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2269C>G	p.Arg757Gly	p.R757G	ENST00000251020	2/3	97	69	28	67	67	0	SALL1,missense_variant,p.Arg757Gly,ENST00000251020,;SALL1,missense_variant,p.Arg660Gly,ENST00000570206,;SALL1,missense_variant,p.Arg660Gly,ENST00000440970,;SALL1,intron_variant,,ENST00000541611,;SALL1,intron_variant,,ENST00000566102,;SALL1,downstream_gene_variant,,ENST00000562674,;	C	ENSG00000103449	ENST00000251020	Transcript	missense_variant	2303	2269	757	R/G	Cgt/Ggt	rs377342041,COSM1302016	.	.	-1	SALL1	HGNC	10524	protein_coding	YES	CCDS10747.1	ENSP00000251020	SALL1_HUMAN	H3BSM9_HUMAN	UPI000013CCD8	.	deleterious(0)	probably_damaging(1)	2/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF51,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCACGATGGA	byFrequency|byCluster	5	BLCA
CDH5	0	.	GRCh37	16	66426056	66426056	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987C>T	p.%3D	p.Y329Y	ENST00000341529	7/12	256	157	99	198	197	0	CDH5,synonymous_variant,p.%3D,ENST00000563425,;CDH5,synonymous_variant,p.%3D,ENST00000341529,;CDH5,upstream_gene_variant,,ENST00000539168,;CDH5,3_prime_UTR_variant,,ENST00000565334,;	T	ENSG00000179776	ENST00000341529	Transcript	synonymous_variant	1135	987	329	Y	taC/taT	COSM1302094	.	.	1	CDH5	HGNC	1764	protein_coding	YES	CCDS10804.1	ENSP00000344115	CADH5_HUMAN	Q59EA3_HUMAN,I3L1J2_HUMAN,H3BR64_HUMAN,H3BPG1_HUMAN,B4DTR2_HUMAN	UPI000016B272	.	.	.	7/12	.	Prints_domain:PR00205,Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF89,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATACATCCA	.	5	BLCA
BCAR1	0	.	GRCh37	16	75276374	75276374	+	Silent	SNP	C	C	T	rs759346688	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>A	p.%3D	p.P255P	ENST00000418647	3/8	164	104	60	152	152	0	BCAR1,synonymous_variant,p.%3D,ENST00000542031,;BCAR1,synonymous_variant,p.%3D,ENST00000538440,;BCAR1,synonymous_variant,p.%3D,ENST00000420641,;BCAR1,synonymous_variant,p.%3D,ENST00000162330,;BCAR1,synonymous_variant,p.%3D,ENST00000393420,;BCAR1,synonymous_variant,p.%3D,ENST00000418647,;BCAR1,synonymous_variant,p.%3D,ENST00000393422,;BCAR1,synonymous_variant,p.%3D,ENST00000546196,;BCAR1,synonymous_variant,p.%3D,ENST00000569340,;BCAR1,intron_variant,,ENST00000535626,;BCAR1,downstream_gene_variant,,ENST00000564028,;BCAR1,downstream_gene_variant,,ENST00000563323,;BCAR1,downstream_gene_variant,,ENST00000561970,;BCAR1,downstream_gene_variant,,ENST00000568864,;BCAR1,downstream_gene_variant,,ENST00000567215,;BCAR1,downstream_gene_variant,,ENST00000569006,;BCAR1,downstream_gene_variant,,ENST00000566465,;BCAR1,upstream_gene_variant,,ENST00000566982,;BCAR1,downstream_gene_variant,,ENST00000563700,;BCAR1,3_prime_UTR_variant,,ENST00000562556,;	T	ENSG00000050820	ENST00000418647	Transcript	synonymous_variant	1049	765	255	P	ccG/ccA	rs759346688,COSM1302249,COSM1302248,COSM1302247	.	.	-1	BCAR1	HGNC	971	protein_coding	YES	CCDS54040.1	ENSP00000391669	BCAR1_HUMAN	Q8NC57_HUMAN,H3BVF0_HUMAN,H3BU42_HUMAN,H3BTL5_HUMAN,H3BTB0_HUMAN,H3BSY4_HUMAN,H3BSB2_HUMAN,H3BQJ7_HUMAN,F5H855_HUMAN	UPI0001AE689B	.	.	.	3/8	.	hmmpanther:PTHR10654,hmmpanther:PTHR10654:SF5	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGCCGGGGG	byFrequency	5	BLCA
ZDHHC7	0	.	GRCh37	16	85010832	85010832	+	Splice_Site	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.731-1G>C	.	p.X244_splice	ENST00000564466	.	111	70	41	72	72	0	ZDHHC7,splice_acceptor_variant,,ENST00000564466,;ZDHHC7,splice_acceptor_variant,,ENST00000566909,;ZDHHC7,splice_acceptor_variant,,ENST00000313732,;ZDHHC7,splice_acceptor_variant,,ENST00000569488,;ZDHHC7,splice_acceptor_variant,,ENST00000569377,;ZDHHC7,splice_acceptor_variant,,ENST00000344861,;ZDHHC7,non_coding_transcript_exon_variant,,ENST00000564526,;	G	ENSG00000153786	ENST00000564466	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1302312,COSM1302311	.	.	-1	ZDHHC7	HGNC	18459	protein_coding	YES	CCDS45538.1	ENSP00000456782	ZDHC7_HUMAN	H3BNQ9_HUMAN,H3BMI0_HUMAN	UPI000013EA61	.	.	.	.	7/8	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTCTGCGG	.	5	BLCA
CLUH	0	.	GRCh37	17	2600068	2600068	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2016C>T	p.%3D	p.S672S	ENST00000570628	11/26	97	53	44	101	101	0	CLUH,synonymous_variant,p.%3D,ENST00000435359,;CLUH,synonymous_variant,p.%3D,ENST00000575014,;CLUH,synonymous_variant,p.%3D,ENST00000574426,;CLUH,synonymous_variant,p.%3D,ENST00000538975,;CLUH,synonymous_variant,p.%3D,ENST00000570628,;CLUH,downstream_gene_variant,,ENST00000572129,;CLUH,upstream_gene_variant,,ENST00000574166,;CLUH,upstream_gene_variant,,ENST00000573641,;CLUH,upstream_gene_variant,,ENST00000574210,;CLUH,downstream_gene_variant,,ENST00000571539,;CLUH,upstream_gene_variant,,ENST00000572014,;CLUH,upstream_gene_variant,,ENST00000575624,;	A	ENSG00000132361	ENST00000570628	Transcript	synonymous_variant	2122	2016	672	S	agC/agT	COSM1302522,COSM1302521	.	.	-1	CLUH	HGNC	29094	protein_coding	YES	CCDS45572.1	ENSP00000458986	CLU_HUMAN	I3L3A3_HUMAN,I3L350_HUMAN,I3L318_HUMAN	UPI00004C8042	.	.	.	11/26	.	Low_complexity_(Seg):seg,HAMAP:MF_03013,hmmpanther:PTHR12601,hmmpanther:PTHR12601:SF10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCGCTGGC	.	5	BLCA
ITGA2B	0	.	GRCh37	17	42457471	42457471	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1651C>T	p.Arg551Trp	p.R551W	ENST00000262407	17/30	77	47	30	57	57	0	ITGA2B,missense_variant,p.Arg551Trp,ENST00000262407,;ITGA2B,missense_variant,p.Arg551Trp,ENST00000353281,;ITGA2B,3_prime_UTR_variant,,ENST00000377068,;ITGA2B,upstream_gene_variant,,ENST00000587295,;ITGA2B,non_coding_transcript_exon_variant,,ENST00000592462,;ITGA2B,non_coding_transcript_exon_variant,,ENST00000592226,;ITGA2B,downstream_gene_variant,,ENST00000592253,;ITGA2B,downstream_gene_variant,,ENST00000591990,;ITGA2B,downstream_gene_variant,,ENST00000592944,;ITGA2B,downstream_gene_variant,,ENST00000592075,;ITGA2B,downstream_gene_variant,,ENST00000589645,;	A	ENSG00000005961	ENST00000262407	Transcript	missense_variant	1683	1651	551	R/W	Cgg/Tgg	CM066102,COSM1302887	.	.	-1	ITGA2B	HGNC	6138	protein_coding	YES	CCDS32665.1	ENSP00000262407	ITA2B_HUMAN	Q6LDK5_HUMAN,I6XCH0_HUMAN,F1C626_HUMAN	UPI00001868B8	.	deleterious(0)	probably_damaging(1)	17/30	.	hmmpanther:PTHR23220:SF73,hmmpanther:PTHR23220,Gene3D:1jv2A02,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCCGCCGGC	.	5	BLCA
HOXB3	0	.	GRCh37	17	46628308	46628308	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684C>T	p.%3D	p.S228S	ENST00000470495	2/2	258	146	112	242	242	0	HOXB3,synonymous_variant,p.%3D,ENST00000476342,;HOXB3,synonymous_variant,p.%3D,ENST00000460160,;HOXB3,synonymous_variant,p.%3D,ENST00000498678,;HOXB3,synonymous_variant,p.%3D,ENST00000485909,;HOXB3,synonymous_variant,p.%3D,ENST00000470495,;HOXB3,synonymous_variant,p.%3D,ENST00000472863,;HOXB3,synonymous_variant,p.%3D,ENST00000489475,;HOXB3,synonymous_variant,p.%3D,ENST00000490677,;HOXB3,synonymous_variant,p.%3D,ENST00000311626,;HOXB2,upstream_gene_variant,,ENST00000330070,;HOXB3,downstream_gene_variant,,ENST00000465120,;HOXB3,downstream_gene_variant,,ENST00000471459,;HOXB-AS1,non_coding_transcript_exon_variant,,ENST00000508688,;HOXB-AS1,non_coding_transcript_exon_variant,,ENST00000502764,;HOXB-AS3,intron_variant,,ENST00000465846,;HOXB-AS1,intron_variant,,ENST00000435312,;HOXB-AS1,downstream_gene_variant,,ENST00000504972,;HOXB3,downstream_gene_variant,,ENST00000478644,;	A	ENSG00000120093	ENST00000470495	Transcript	synonymous_variant	2132	684	228	S	agC/agT	COSM1302968	.	.	-1	HOXB3	HGNC	5114	protein_coding	YES	CCDS11528.1	ENSP00000417207	HXB3_HUMAN	C9J2I3_HUMAN,B7ZAD0_HUMAN,B7Z5N8_HUMAN	UPI00001AEFBF	.	.	.	2/2	.	Prints_domain:PR00024,Superfamily_domains:SSF46689,SMART_domains:SM00389,Pfam_domain:PF00046,Gene3D:1.10.10.60,PROSITE_patterns:PS00027,hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF10,PROSITE_profiles:PS50071	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTCGCTGAG	.	5	BLCA
BZRAP1	0	.	GRCh37	17	56389469	56389469	+	Missense_Mutation	SNP	C	C	T	rs547251993	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2713G>A	p.Gly905Ser	p.G905S	ENST00000343736	17/32	126	64	62	118	118	0	BZRAP1,missense_variant,p.Gly905Ser,ENST00000355701,;BZRAP1,missense_variant,p.Gly905Ser,ENST00000343736,;BZRAP1,missense_variant,p.Gly845Ser,ENST00000268893,;BZRAP1,upstream_gene_variant,,ENST00000582679,;BZRAP1,upstream_gene_variant,,ENST00000580669,;BZRAP1,upstream_gene_variant,,ENST00000585149,;BZRAP1,upstream_gene_variant,,ENST00000578486,;	T	ENSG00000005379	ENST00000343736	Transcript	missense_variant	2877	2713	905	G/S	Ggc/Agc	rs547251993,COSM1303108,COSM1303109	.	.	-1	BZRAP1	HGNC	16831	protein_coding	YES	CCDS11605.1	ENSP00000345824	RIMB1_HUMAN	.	UPI000013D7E3	.	tolerated(1)	benign(0.004)	17/32	.	PROSITE_profiles:PS50853,hmmpanther:PTHR14234:SF20,hmmpanther:PTHR14234,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTGCCGGGCA	by1000G	5	BLCA
RAC3	0	.	GRCh37	17	79990672	79990672	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>A	p.Asp65Asn	p.D65N	ENST00000306897	3/6	151	94	57	123	123	0	RAC3,missense_variant,p.Asp65Asn,ENST00000306897,;RAC3,missense_variant,p.Asp21Asn,ENST00000580965,;RAC3,missense_variant,p.Asp21Asn,ENST00000584341,;DCXR,downstream_gene_variant,,ENST00000579004,;DCXR,downstream_gene_variant,,ENST00000582900,;DCXR,downstream_gene_variant,,ENST00000579155,;DCXR,downstream_gene_variant,,ENST00000577712,;DCXR,downstream_gene_variant,,ENST00000581584,;LRRC45,downstream_gene_variant,,ENST00000306688,;DCXR,downstream_gene_variant,,ENST00000306869,;DCXR,downstream_gene_variant,,ENST00000577532,;DCXR,downstream_gene_variant,,ENST00000584318,;DCXR,downstream_gene_variant,,ENST00000577996,;DCXR,downstream_gene_variant,,ENST00000578273,;DCXR,downstream_gene_variant,,ENST00000585164,;DCXR,downstream_gene_variant,,ENST00000577286,;LRRC45,downstream_gene_variant,,ENST00000583302,;DCXR,downstream_gene_variant,,ENST00000580320,;DCXR,downstream_gene_variant,,ENST00000585085,;LRRC45,downstream_gene_variant,,ENST00000582083,;DCXR,downstream_gene_variant,,ENST00000579334,;DCXR,downstream_gene_variant,,ENST00000580750,;DCXR,downstream_gene_variant,,ENST00000582074,;DCXR,downstream_gene_variant,,ENST00000578885,;DCXR,downstream_gene_variant,,ENST00000582613,;DCXR,downstream_gene_variant,,ENST00000579821,;DCXR,downstream_gene_variant,,ENST00000579842,;LRRC45,downstream_gene_variant,,ENST00000581227,;RAC3,upstream_gene_variant,,ENST00000585014,;	A	ENSG00000169750	ENST00000306897	Transcript	missense_variant	331	193	65	D/N	Gat/Aat	COSM1303528	.	.	1	RAC3	HGNC	9803	protein_coding	YES	CCDS11798.1	ENSP00000304283	RAC3_HUMAN	J3QLK0_HUMAN,J3KSC4_HUMAN	UPI00000041DA	.	deleterious_low_confidence(0.01)	possibly_damaging(0.613)	3/6	.	PROSITE_profiles:PS51420,hmmpanther:PTHR24072,hmmpanther:PTHR24072:SF107,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00175,SMART_domains:SM00174,SMART_domains:SM00173,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTACGATCGG	.	5	BLCA
MC2R	0	.	GRCh37	18	13884797	13884797	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.721T>C	p.%3D	p.L241L	ENST00000327606	2/2	89	44	45	55	55	0	MC2R,synonymous_variant,p.%3D,ENST00000327606,;MC2R,downstream_gene_variant,,ENST00000399821,;	G	ENSG00000185231	ENST00000327606	Transcript	synonymous_variant	902	721	241	L	Ttg/Ctg	COSM1303589	.	.	-1	MC2R	HGNC	6930	protein_coding	YES	CCDS11869.1	ENSP00000333821	ACTHR_HUMAN	R4GMM0_HUMAN	UPI00000503E5	.	.	.	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF3,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00534	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCAAGAGGA	.	5	BLCA
ABHD3	0	.	GRCh37	18	19239300	19239300	+	Missense_Mutation	SNP	G	G	C	rs192857485	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.673C>G	p.Leu225Val	p.L225V	ENST00000289119	6/9	74	53	21	33	33	0	ABHD3,missense_variant,p.Leu172Val,ENST00000580981,;ABHD3,missense_variant,p.Leu225Val,ENST00000289119,;ABHD3,missense_variant,p.Leu30Val,ENST00000578270,;ABHD3,upstream_gene_variant,,ENST00000580477,;RP11-13N13.5,downstream_gene_variant,,ENST00000584148,;ABHD3,downstream_gene_variant,,ENST00000579875,;ABHD3,3_prime_UTR_variant,,ENST00000577891,;ABHD3,non_coding_transcript_exon_variant,,ENST00000577564,;	C	ENSG00000158201	ENST00000289119	Transcript	missense_variant	813	673	225	L/V	Ctg/Gtg	rs192857485,COSM1303604	.	.	-1	ABHD3	HGNC	18718	protein_coding	YES	CCDS32802.1	ENSP00000289119	ABHD3_HUMAN	.	UPI0000163938	.	tolerated(0.06)	benign(0.125)	6/9	.	Superfamily_domains:SSF53474,PIRSF_domain:PIRSF005211,Gene3D:3.40.50.1820,Pfam_domain:PF12697,hmmpanther:PTHR10794:SF24,hmmpanther:PTHR10794	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCAGCATTC	byCluster|by1000G	5	BLCA
DSC2	0	.	GRCh37	18	28648098	28648098	+	Silent	SNP	T	T	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2589A>G	p.%3D	p.G863G	ENST00000280904	16/16	138	79	59	66	66	0	DSC2,synonymous_variant,p.%3D,ENST00000280904,;DSC2,3_prime_UTR_variant,,ENST00000251081,;snoU13,upstream_gene_variant,,ENST00000459603,;	C	ENSG00000134755	ENST00000280904	Transcript	synonymous_variant	3033	2589	863	G	ggA/ggG	COSM1303655	.	.	-1	DSC2	HGNC	3036	protein_coding	YES	CCDS11892.1	ENSP00000280904	DSC2_HUMAN	A9X9L1_HUMAN	UPI00001298F9	.	.	.	16/16	.	hmmpanther:PTHR24025,hmmpanther:PTHR24025:SF0,Pfam_domain:PF01049,Gene3D:4.10.900.10,Prints_domain:PR01818	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCGATCCTCT	.	5	BLCA
PTPRM	0	.	GRCh37	18	7906503	7906503	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.469G>C	p.Val157Leu	p.V157L	ENST00000580170	4/33	64	45	19	19	19	0	PTPRM,missense_variant,p.Val157Leu,ENST00000332175,;PTPRM,missense_variant,p.Val95Leu,ENST00000400053,;PTPRM,missense_variant,p.Val157Leu,ENST00000400060,;PTPRM,missense_variant,p.Val157Leu,ENST00000580170,;	C	ENSG00000173482	ENST00000580170	Transcript	missense_variant	1506	469	157	V/L	Gtg/Ctg	COSM1303884	.	.	1	PTPRM	HGNC	9675	protein_coding	YES	CCDS58613.1	ENSP00000463325	PTPRM_HUMAN	Q49AC9_HUMAN	UPI00015CFC03	.	tolerated(0.17)	benign(0.017)	4/33	.	Prints_domain:PR00020,Superfamily_domains:SSF49899,SMART_domains:SM00137,Pfam_domain:PF00629,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF206,PROSITE_profiles:PS50060	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGGTGATT	.	5	BLCA
EMR2	0	.	GRCh37	19	14865894	14865894	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1462G>A	p.Gly488Ser	p.G488S	ENST00000315576	14/21	175	106	68	151	151	0	EMR2,stop_gained,p.Trp152Ter,ENST00000392964,;EMR2,missense_variant,p.Gly395Ser,ENST00000594076,;EMR2,missense_variant,p.Gly439Ser,ENST00000594294,;EMR2,missense_variant,p.Gly477Ser,ENST00000601345,;EMR2,missense_variant,p.Gly439Ser,ENST00000346057,;EMR2,missense_variant,p.Gly346Ser,ENST00000595839,;EMR2,missense_variant,p.Gly346Ser,ENST00000353005,;EMR2,missense_variant,p.Gly395Ser,ENST00000353876,;EMR2,missense_variant,p.Gly488Ser,ENST00000315576,;EMR2,missense_variant,p.Gly477Ser,ENST00000392967,;EMR2,missense_variant,p.Gly477Ser,ENST00000596991,;EMR2,intron_variant,,ENST00000392965,;EMR2,stop_gained,p.Trp257Ter,ENST00000595208,;EMR2,intron_variant,,ENST00000392962,;EMR2,intron_variant,,ENST00000360222,;	T	ENSG00000127507	ENST00000315576	Transcript	missense_variant	1914	1462	488	G/S	Ggc/Agc	COSM1304099	.	.	-1	EMR2	HGNC	3337	protein_coding	YES	CCDS32935.1	ENSP00000319883	EMR2_HUMAN	.	UPI000016393A	.	tolerated(0.51)	benign(0.05)	14/21	.	PROSITE_profiles:PS50221,hmmpanther:PTHR12011:SF179,hmmpanther:PTHR12011,Pfam_domain:PF01825,SMART_domains:SM00303	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE	CTGGCCATGCT	.	3	BLCA
ZNF91	0	.	GRCh37	19	23543001	23543001	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2780C>A	p.Thr927Lys	p.T927K	ENST00000300619	4/4	94	55	38	40	40	0	ZNF91,missense_variant,p.Thr895Lys,ENST00000397082,;ZNF91,missense_variant,p.Thr927Lys,ENST00000300619,;ZNF91,intron_variant,,ENST00000599743,;ZNF91,downstream_gene_variant,,ENST00000595533,;ZNF91,intron_variant,,ENST00000596989,;ZNF91,upstream_gene_variant,,ENST00000593341,;ZNF91,upstream_gene_variant,,ENST00000599281,;ZNF91,upstream_gene_variant,,ENST00000596528,;	T	ENSG00000167232	ENST00000300619	Transcript	missense_variant	2986	2780	927	T/K	aCa/aAa	COSM1304341,COSM1304340	.	.	-1	ZNF91	HGNC	13166	protein_coding	YES	CCDS42541.1	ENSP00000300619	ZNF91_HUMAN	M0R186_HUMAN	UPI00002038F9	.	tolerated(0.96)	benign(0.029)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF100,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATGTGTAGTA	.	5	BLCA
WDR88	0	.	GRCh37	19	33623141	33623141	+	Silent	SNP	C	C	T	rs200476499	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66C>T	p.%3D	p.S22S	ENST00000355868	1/11	145	92	53	162	162	0	WDR88,synonymous_variant,p.%3D,ENST00000355868,;WDR88,synonymous_variant,p.%3D,ENST00000592765,;WDR88,synonymous_variant,p.%3D,ENST00000361680,;GPATCH1,downstream_gene_variant,,ENST00000170564,;GPATCH1,downstream_gene_variant,,ENST00000592262,;	T	ENSG00000166359	ENST00000355868	Transcript	synonymous_variant	142	66	22	S	tcC/tcT	rs200476499,COSM1304408,COSM3892238	.	.	1	WDR88	HGNC	26999	protein_coding	YES	CCDS12429.1	ENSP00000348129	WDR88_HUMAN	.	UPI0000456C8B	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	CCCTCCGCCCC	byCluster	4	BLCA
CHST8	0	.	GRCh37	19	34263626	34263626	+	Missense_Mutation	SNP	C	C	A	rs571799934	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.933C>A	p.Phe311Leu	p.F311L	ENST00000262622	4/4	81	46	35	94	94	0	CHST8,missense_variant,p.Phe311Leu,ENST00000438847,;CHST8,missense_variant,p.Phe311Leu,ENST00000262622,;CHST8,missense_variant,p.Phe311Leu,ENST00000434302,;CHST8,downstream_gene_variant,,ENST00000591231,;	A	ENSG00000124302	ENST00000262622	Transcript	missense_variant	1691	933	311	F/L	ttC/ttA	rs571799934,COSM1304412,COSM994718	.	.	1	CHST8	HGNC	15993	protein_coding	YES	CCDS12433.1	ENSP00000262622	CHST8_HUMAN	K7ENM3_HUMAN	UPI000006F966	.	deleterious(0)	probably_damaging(0.967)	4/4	.	Pfam_domain:PF03567,hmmpanther:PTHR12137:SF7,hmmpanther:PTHR12137	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	CODON|p.F311F|c.933C>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGTTCGTCCA	by1000G	5	BLCA
PIP5K1C	0	.	GRCh37	19	3644235	3644235	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1360C>G	p.Pro454Ala	p.P454A	ENST00000335312	12/18	105	99	6	121	121	0	PIP5K1C,missense_variant,p.Pro454Ala,ENST00000589578,;PIP5K1C,missense_variant,p.Pro454Ala,ENST00000539785,;PIP5K1C,missense_variant,p.Pro454Ala,ENST00000537021,;PIP5K1C,missense_variant,p.Pro454Ala,ENST00000335312,;PIP5K1C,non_coding_transcript_exon_variant,,ENST00000592530,;	C	ENSG00000186111	ENST00000335312	Transcript	missense_variant	1449	1360	454	P/A	Ccc/Gcc	COSM1304462	.	.	-1	PIP5K1C	HGNC	8996	protein_coding	YES	CCDS32872.1	ENSP00000335333	PI51C_HUMAN	Q7LE22_HUMAN	UPI000019C574	.	deleterious(0.01)	probably_damaging(0.998)	12/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23086,hmmpanther:PTHR23086:SF26	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGAGGGCGAGG	.	2	BLCA
CYP2A13	0	.	GRCh37	19	41601848	41601848	+	3'UTR	SNP	C	C	A	rs765333088	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2C>A	.	.	ENST00000330436	9/9	113	70	42	109	109	0	CYP2A13,3_prime_UTR_variant,,ENST00000330436,;	A	ENSG00000197838	ENST00000330436	Transcript	3_prime_UTR_variant	1487	.	.	.	.	rs765333088	.	.	1	CYP2A13	HGNC	2608	protein_coding	YES	CCDS12571.1	ENSP00000332679	CP2AD_HUMAN	.	UPI000013E07A	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGAGCGAGGG	.	5	BLCA
MEIS3	0	.	GRCh37	19	47920169	47920169	+	Silent	SNP	A	A	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237T>C	p.%3D	p.A79A	ENST00000561293	3/13	18	7	11	13	13	0	MEIS3,synonymous_variant,p.%3D,ENST00000441740,;MEIS3,synonymous_variant,p.%3D,ENST00000561096,;MEIS3,synonymous_variant,p.%3D,ENST00000561293,;MEIS3,synonymous_variant,p.%3D,ENST00000558555,;MEIS3,synonymous_variant,p.%3D,ENST00000557833,;MEIS3,synonymous_variant,p.%3D,ENST00000331559,;MEIS3,synonymous_variant,p.%3D,ENST00000559524,;MEIS3,upstream_gene_variant,,ENST00000559338,;MEIS3,upstream_gene_variant,,ENST00000560245,;MEIS3,non_coding_transcript_exon_variant,,ENST00000607330,;MEIS3,upstream_gene_variant,,ENST00000560253,;MEIS3,non_coding_transcript_exon_variant,,ENST00000561040,;MEIS3,non_coding_transcript_exon_variant,,ENST00000561204,;	G	ENSG00000105419	ENST00000561293	Transcript	synonymous_variant	444	237	79	A	gcT/gcC	COSM1304840	.	.	-1	MEIS3	HGNC	29537	protein_coding	YES	CCDS33064.1	ENSP00000453307	MEIS3_HUMAN	.	UPI000006FB11	.	.	.	3/13	.	hmmpanther:PTHR11850,hmmpanther:PTHR11850:SF71	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGTAGCCAG	.	5	BLCA
PLEKHA4	0	.	GRCh37	19	49357317	49357317	+	Missense_Mutation	SNP	C	C	G	rs746003163	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1123G>C	p.Asp375His	p.D375H	ENST00000263265	11/20	46	39	7	46	46	0	PLEKHA4,missense_variant,p.Asp30His,ENST00000594195,;PLEKHA4,missense_variant,p.Asp350His,ENST00000355496,;PLEKHA4,missense_variant,p.Asp375His,ENST00000263265,;PLEKHA4,5_prime_UTR_variant,,ENST00000595867,;PLEKHA4,downstream_gene_variant,,ENST00000596713,;PLEKHA4,upstream_gene_variant,,ENST00000597406,;	G	ENSG00000105559	ENST00000263265	Transcript	missense_variant	1679	1123	375	D/H	Gac/Cac	rs746003163,COSM1304884	.	.	-1	PLEKHA4	HGNC	14339	protein_coding	YES	CCDS12737.1	ENSP00000263265	PKHA4_HUMAN	M0R2K5_HUMAN,M0QXJ3_HUMAN	UPI00000721A6	.	deleterious(0)	probably_damaging(0.968)	11/20	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12752	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGGTCCTGCC	.	5	BLCA
MUC16	0	.	GRCh37	19	9070793	9070793	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16653C>T	p.%3D	p.L5551L	ENST00000397910	3/84	196	116	79	122	122	0	MUC16,synonymous_variant,p.%3D,ENST00000397910,;	A	ENSG00000181143	ENST00000397910	Transcript	synonymous_variant	16857	16653	5551	L	ctC/ctT	COSM1305378,COSM1305379,COSM1305377	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	3/84	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGAAGAGCCT	.	5	BLCA
SDF4	0	.	GRCh37	1	1153018	1153018	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.963G>C	p.Gln321His	p.Q321H	ENST00000360001	7/7	179	140	38	242	242	0	SDF4,missense_variant,p.Gln321His,ENST00000360001,;SDF4,3_prime_UTR_variant,,ENST00000263741,;SDF4,downstream_gene_variant,,ENST00000403997,;TNFRSF4,upstream_gene_variant,,ENST00000379236,;SDF4,downstream_gene_variant,,ENST00000545427,;TNFRSF4,upstream_gene_variant,,ENST00000453580,;SDF4,3_prime_UTR_variant,,ENST00000465727,;SDF4,non_coding_transcript_exon_variant,,ENST00000494748,;SDF4,non_coding_transcript_exon_variant,,ENST00000478938,;TNFRSF4,upstream_gene_variant,,ENST00000497869,;	G	ENSG00000078808	ENST00000360001	Transcript	missense_variant	1226	963	321	Q/H	caG/caC	COSM1294766	.	.	-1	SDF4	HGNC	24188	protein_coding	YES	CCDS30553.1	ENSP00000353094	CAB45_HUMAN	.	UPI0000127156	.	tolerated(0.19)	benign(0.443)	7/7	.	Superfamily_domains:SSF47473,SMART_domains:SM00054,Gene3D:1.10.238.10,hmmpanther:PTHR10827,hmmpanther:PTHR10827:SF39,PROSITE_profiles:PS50222	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCATCTGCTT	.	3	BLCA
SDF4	0	.	GRCh37	1	1153047	1153047	+	Missense_Mutation	SNP	C	C	G	rs201770843	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934G>C	p.Glu312Gln	p.E312Q	ENST00000360001	7/7	212	160	52	281	281	0	SDF4,missense_variant,p.Glu312Gln,ENST00000360001,;SDF4,3_prime_UTR_variant,,ENST00000263741,;SDF4,downstream_gene_variant,,ENST00000403997,;TNFRSF4,upstream_gene_variant,,ENST00000379236,;SDF4,downstream_gene_variant,,ENST00000545427,;TNFRSF4,upstream_gene_variant,,ENST00000453580,;SDF4,3_prime_UTR_variant,,ENST00000465727,;SDF4,non_coding_transcript_exon_variant,,ENST00000494748,;SDF4,non_coding_transcript_exon_variant,,ENST00000478938,;TNFRSF4,upstream_gene_variant,,ENST00000497869,;	G	ENSG00000078808	ENST00000360001	Transcript	missense_variant	1197	934	312	E/Q	Gag/Cag	rs201770843,COSM1294767	.	.	-1	SDF4	HGNC	24188	protein_coding	YES	CCDS30553.1	ENSP00000353094	CAB45_HUMAN	.	UPI0000127156	.	tolerated(0.07)	probably_damaging(0.954)	7/7	.	Superfamily_domains:SSF47473,Gene3D:1.10.238.10,hmmpanther:PTHR10827,hmmpanther:PTHR10827:SF39,PROSITE_profiles:PS50222	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTACTCGTTCA	byCluster	3	BLCA
ATAD3B	0	.	GRCh37	1	1420551	1420551	+	Missense_Mutation	SNP	G	G	C	rs781172015	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906G>C	p.Gln302His	p.Q302H	ENST00000308647	8/16	64	47	17	99	99	0	ATAD3B,missense_variant,p.Gln302His,ENST00000308647,;ATAD3B,downstream_gene_variant,,ENST00000378741,;ATAD3B,downstream_gene_variant,,ENST00000378736,;ATAD3B,splice_region_variant,,ENST00000472194,;ATAD3B,splice_region_variant,,ENST00000474481,;ATAD3B,splice_region_variant,,ENST00000485748,;	C	ENSG00000160072	ENST00000308647	Transcript	missense_variant	1022	906	302	Q/H	caG/caC	rs781172015,COSM1294871	.	.	1	ATAD3B	HGNC	24007	protein_coding	YES	CCDS30.1	ENSP00000311766	ATD3B_HUMAN	Q9H834_HUMAN	UPI000013E044	.	deleterious(0.05)	benign(0.014)	8/16	.	hmmpanther:PTHR23075:SF2,hmmpanther:PTHR23075	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCAGGTAGC	byFrequency	5	BLCA
PDE4DIP	0	.	GRCh37	1	144864293	144864293	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5802G>C	p.Glu1934Asp	p.E1934D	ENST00000369356	36/44	88	74	14	42	42	0	PDE4DIP,missense_variant,p.Glu1934Asp,ENST00000369354,;PDE4DIP,missense_variant,p.Glu2070Asp,ENST00000369359,;PDE4DIP,missense_variant,p.Glu91Asp,ENST00000530130,;PDE4DIP,missense_variant,p.Glu2019Asp,ENST00000530740,;PDE4DIP,missense_variant,p.Glu1828Asp,ENST00000313382,;PDE4DIP,missense_variant,p.Glu1934Asp,ENST00000369356,;RP4-791M13.4,intron_variant,,ENST00000532137,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000526664,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524974,;PDE4DIP,downstream_gene_variant,,ENST00000494734,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000479369,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000481227,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000525886,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000527901,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,upstream_gene_variant,,ENST00000534466,;	G	ENSG00000178104	ENST00000369356	Transcript	missense_variant	6093	5802	1934	E/D	gaG/gaC	COSM1294887,COSM1294886	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	deleterious(0.01)	benign(0.045)	36/44	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13895:SF2,hmmpanther:PTHR13895	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGCCTCCCT	.	5	BLCA
NDUFS2	0	.	GRCh37	1	161180099	161180099	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.786G>A	p.%3D	p.L262L	ENST00000367993	9/15	178	168	10	83	83	0	NDUFS2,synonymous_variant,p.%3D,ENST00000392179,;NDUFS2,synonymous_variant,p.%3D,ENST00000367993,;NDUFS2,synonymous_variant,p.%3D,ENST00000476409,;FCER1G,upstream_gene_variant,,ENST00000367992,;FCER1G,upstream_gene_variant,,ENST00000289902,;NDUFS2,non_coding_transcript_exon_variant,,ENST00000483804,;NDUFS2,non_coding_transcript_exon_variant,,ENST00000480762,;NDUFS2,non_coding_transcript_exon_variant,,ENST00000478866,;NDUFS2,non_coding_transcript_exon_variant,,ENST00000467295,;NDUFS2,non_coding_transcript_exon_variant,,ENST00000465923,;NDUFS2,downstream_gene_variant,,ENST00000496133,;NDUFS2,upstream_gene_variant,,ENST00000468828,;NDUFS2,upstream_gene_variant,,ENST00000492153,;FCER1G,upstream_gene_variant,,ENST00000490414,;NDUFS2,downstream_gene_variant,,ENST00000496553,;NDUFS2,upstream_gene_variant,,ENST00000493849,;NDUFS2,downstream_gene_variant,,ENST00000473321,;NDUFS2,downstream_gene_variant,,ENST00000479948,;	A	ENSG00000158864	ENST00000367993	Transcript	synonymous_variant	1234	786	262	L	ctG/ctA	COSM1295357	.	.	1	NDUFS2	HGNC	7708	protein_coding	YES	CCDS1224.1	ENSP00000356972	NDUS2_HUMAN	Q9HC12_HUMAN,Q9HC11_HUMAN,B7Z9L2_HUMAN	UPI00001308D2	.	.	.	9/15	.	HAMAP:MF_01358,hmmpanther:PTHR11993,hmmpanther:PTHR11993:SF10,TIGRFAM_domain:TIGR01962,Pfam_domain:PF00346,Gene3D:1.10.645.10,Superfamily_domains:SSF56762	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCTGACCAA	.	2	BLCA
RABGAP1L	0	.	GRCh37	1	174652675	174652675	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1840G>A	p.Asp614Asn	p.D614N	ENST00000251507	15/21	125	98	27	68	68	0	RABGAP1L,missense_variant,p.Asp614Asn,ENST00000251507,;RABGAP1L,non_coding_transcript_exon_variant,,ENST00000474375,;	A	ENSG00000152061	ENST00000251507	Transcript	missense_variant	2014	1840	614	D/N	Gat/Aat	COSM1295510	.	.	1	RABGAP1L	HGNC	24663	protein_coding	YES	CCDS1314.1	ENSP00000251507	RBG1L_HUMAN	F1LJ00_HUMAN	UPI0000458A9F	.	deleterious(0.01)	probably_damaging(0.999)	15/21	.	Superfamily_domains:SSF47923,SMART_domains:SM00164,Gene3D:2qq8A02,Pfam_domain:PF00566,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF205,PROSITE_profiles:PS50086	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTATGATGAA	.	5	BLCA
MRPS14	0	.	GRCh37	1	174983913	174983913	+	Missense_Mutation	SNP	C	C	T	rs776927395	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279G>A	p.Met93Ile	p.M93I	ENST00000476371	3/3	294	235	58	208	208	0	MRPS14,missense_variant,p.Met93Ile,ENST00000476371,;CACYBP,downstream_gene_variant,,ENST00000405362,;CACYBP,downstream_gene_variant,,ENST00000367681,;CACYBP,downstream_gene_variant,,ENST00000367679,;MRPS14,non_coding_transcript_exon_variant,,ENST00000498253,;MRPS14,3_prime_UTR_variant,,ENST00000367677,;	T	ENSG00000120333	ENST00000476371	Transcript	missense_variant	296	279	93	M/I	atG/atA	rs776927395,COSM1295511	.	.	-1	MRPS14	HGNC	14049	protein_coding	YES	CCDS1316.1	ENSP00000420714	RT14_HUMAN	Q96Q61_HUMAN	UPI00000747E5	.	tolerated(0.4)	benign(0.012)	3/3	.	Superfamily_domains:SSF57716,Gene3D:2vqeN00,Pfam_domain:PF00253,hmmpanther:PTHR19836:SF19,hmmpanther:PTHR19836	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACGTCATAAC	.	4	BLCA
RGL1	0	.	GRCh37	1	183711264	183711264	+	5'UTR	SNP	C	C	T	rs757159730	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-29C>T	.	.	ENST00000304685	2/19	47	28	18	25	25	0	RGL1,5_prime_UTR_variant,,ENST00000304685,;RGL1,5_prime_UTR_variant,,ENST00000536277,;	T	ENSG00000143344	ENST00000304685	Transcript	5_prime_UTR_variant	421	.	.	.	.	rs757159730	.	.	1	RGL1	HGNC	30281	protein_coding	YES	CCDS1359.1	ENSP00000303192	RGL1_HUMAN	.	UPI000002B24C	.	.	.	2/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATCCGTAAT	byFrequency	5	BLCA
UBR4	0	.	GRCh37	1	19432306	19432306	+	Missense_Mutation	SNP	G	G	A	rs779737220	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12424C>T	p.Arg4142Trp	p.R4142W	ENST00000375254	84/106	29	16	13	41	40	1	UBR4,missense_variant,p.Arg4142Trp,ENST00000375267,;UBR4,missense_variant,p.Arg4142Trp,ENST00000375254,;UBR4,missense_variant,p.Arg4135Trp,ENST00000375217,;UBR4,missense_variant,p.Arg4118Trp,ENST00000375226,;UBR4,upstream_gene_variant,,ENST00000543981,;UBR4,upstream_gene_variant,,ENST00000375224,;UBR4,downstream_gene_variant,,ENST00000494503,;UBR4,downstream_gene_variant,,ENST00000466969,;	A	ENSG00000127481	ENST00000375254	Transcript	missense_variant	12452	12424	4142	R/W	Cgg/Tgg	rs779737220,COSM1295622	.	.	-1	UBR4	HGNC	30313	protein_coding	YES	CCDS189.1	ENSP00000364403	UBR4_HUMAN	Q96HY5_HUMAN	UPI000021276F	.	.	probably_damaging(0.973)	84/106	.	Superfamily_domains:SSF48371,hmmpanther:PTHR21725	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTGCCGTGCGG	.	4	BLCA
FLVCR1	0	.	GRCh37	1	213058637	213058639	+	In_Frame_Del	DEL	AGA	AGA	-	rs760802982	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	AGA	AGA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1100_1102delAAG	p.Glu367del	p.E367del	ENST00000366971	5/10	131	81	50	76	76	0	FLVCR1,inframe_deletion,p.Glu166del,ENST00000419102,;FLVCR1,inframe_deletion,p.Glu367del,ENST00000366971,;FLVCR1,splice_region_variant,,ENST00000483790,;FLVCR1,splice_region_variant,,ENST00000474693,;	-	ENSG00000162769	ENST00000366971	Transcript	inframe_deletion	1293-1295	1095-1097	365-366	GE/G	ggAGAa/gga	rs760802982	.	.	1	FLVCR1	HGNC	24682	protein_coding	YES	CCDS1510.1	ENSP00000355938	FLVC1_HUMAN	.	UPI000006D3BB	.	.	.	5/10	.	Superfamily_domains:SSF103473,Gene3D:1.20.1250.20,Pfam_domain:PF07690,hmmpanther:PTHR10924:SF2,hmmpanther:PTHR10924,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	-:0.0052	-:0.0053	.	.	.	.	.	.	.	MODERATE	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCAGGGAGAAGAAG	byFrequency	3	BLCA
PCNXL2	0	.	GRCh37	1	233397829	233397829	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442G>C	p.Gly148Arg	p.G148R	ENST00000258229	3/34	130	93	36	92	92	0	PCNXL2,missense_variant,p.Gly148Arg,ENST00000258229,;PCNXL2,5_prime_UTR_variant,,ENST00000430153,;PCNXL2,upstream_gene_variant,,ENST00000475463,;	G	ENSG00000135749	ENST00000258229	Transcript	missense_variant	677	442	148	G/R	Ggg/Cgg	COSM1295997	.	.	-1	PCNXL2	HGNC	8736	protein_coding	YES	CCDS44335.1	ENSP00000258229	PCX2_HUMAN	B3KNZ5_HUMAN	UPI0000F58F23	.	tolerated(0.1)	benign(0.048)	3/34	.	hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCCCTCTGG	.	5	BLCA
BAI2	0	.	GRCh37	1	32196442	32196442	+	Missense_Mutation	SNP	G	G	A	rs768509560	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4339C>T	p.Arg1447Cys	p.R1447C	ENST00000373658	29/33	174	129	45	167	166	1	BAI2,missense_variant,p.Arg1435Cys,ENST00000398538,;BAI2,missense_variant,p.Arg1447Cys,ENST00000373658,;BAI2,missense_variant,p.Arg1380Cys,ENST00000398547,;BAI2,missense_variant,p.Arg1414Cys,ENST00000527361,;BAI2,missense_variant,p.Arg1362Cys,ENST00000398556,;BAI2,missense_variant,p.Arg1414Cys,ENST00000257070,;BAI2,missense_variant,p.Arg1347Cys,ENST00000398542,;BAI2,missense_variant,p.Arg1447Cys,ENST00000373655,;BAI2,missense_variant,p.Arg1056Cys,ENST00000440175,;BAI2,non_coding_transcript_exon_variant,,ENST00000465239,;BAI2,non_coding_transcript_exon_variant,,ENST00000465256,;BAI2,downstream_gene_variant,,ENST00000484002,;BAI2,non_coding_transcript_exon_variant,,ENST00000530999,;BAI2,non_coding_transcript_exon_variant,,ENST00000525655,;	A	ENSG00000121753	ENST00000373658	Transcript	missense_variant	4681	4339	1447	R/C	Cgc/Tgc	rs768509560,COSM1296281	.	.	-1	BAI2	HGNC	944	protein_coding	YES	CCDS346.2	ENSP00000362762	BAI2_HUMAN	.	UPI0000E2A42F	.	deleterious(0)	probably_damaging(0.998)	29/33	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGCGAGGCA	.	5	BLCA
CSMD2	0	.	GRCh37	1	34080113	34080113	+	Missense_Mutation	SNP	C	C	T	rs568684319	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6004G>A	p.Val2002Met	p.V2002M	ENST00000241312	40/70	43	26	17	40	40	0	CSMD2,missense_variant,p.Val2042Met,ENST00000373381,;CSMD2,missense_variant,p.Val915Met,ENST00000373380,;CSMD2,missense_variant,p.Val141Met,ENST00000373377,;CSMD2,missense_variant,p.Val141Met,ENST00000373388,;CSMD2,missense_variant,p.Val2002Met,ENST00000241312,;	T	ENSG00000121904	ENST00000241312	Transcript	missense_variant	6033	6004	2002	V/M	Gtg/Atg	rs568684319,COSM1296314	.	.	-1	CSMD2	HGNC	19290	nonsense_mediated_decay	YES	CCDS380.1	ENSP00000241312	CSMD2_HUMAN	.	UPI00004561AB	.	deleterious(0.02)	probably_damaging(0.976)	40/70	.	Superfamily_domains:SSF49854,SMART_domains:SM00042,Pfam_domain:PF00431,Gene3D:2.60.120.290,hmmpanther:PTHR19325:SF334,hmmpanther:PTHR19325,PROSITE_profiles:PS01180	G:0.0002	G:0.0008	G:0	.	G:0	G:0	G:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCACGGGCA	by1000G	5	BLCA
OSCP1	0	.	GRCh37	1	36898083	36898083	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375C>T	p.%3D	p.F125F	ENST00000235532	3/10	198	113	85	136	136	0	OSCP1,synonymous_variant,p.%3D,ENST00000315643,;OSCP1,synonymous_variant,p.%3D,ENST00000356637,;OSCP1,synonymous_variant,p.%3D,ENST00000235532,;OSCP1,synonymous_variant,p.%3D,ENST00000354267,;OSCP1,synonymous_variant,p.%3D,ENST00000433045,;OSCP1,synonymous_variant,p.%3D,ENST00000445843,;OSCP1,non_coding_transcript_exon_variant,,ENST00000528112,;OSCP1,downstream_gene_variant,,ENST00000524789,;	A	ENSG00000116885	ENST00000235532	Transcript	synonymous_variant	457	375	125	F	ttC/ttT	COSM1296366,COSM1296367	.	.	-1	OSCP1	HGNC	29971	protein_coding	YES	CCDS409.2	ENSP00000235532	OSCP1_HUMAN	C9JF58_HUMAN	UPI000059CFA3	.	.	.	3/10	.	Pfam_domain:PF10188,hmmpanther:PTHR21439	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGATGAATCC	.	5	BLCA
ZSWIM5	0	.	GRCh37	1	45525884	45525884	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988G>A	p.Asp330Asn	p.D330N	ENST00000359600	3/14	43	30	13	36	36	0	ZSWIM5,missense_variant,p.Asp330Asn,ENST00000359600,;	T	ENSG00000162415	ENST00000359600	Transcript	missense_variant	1194	988	330	D/N	Gat/Aat	COSM1296494	.	.	-1	ZSWIM5	HGNC	29299	protein_coding	YES	CCDS41319.1	ENSP00000352614	ZSWM5_HUMAN	.	UPI00001C1D76	.	deleterious(0)	unknown(0)	3/14	.	hmmpanther:PTHR22619,hmmpanther:PTHR22619:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCGTCAA	.	5	BLCA
DMBX1	0	.	GRCh37	1	46972828	46972828	+	Missense_Mutation	SNP	G	G	A	rs749749952	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146G>A	p.Arg49His	p.R49H	ENST00000360032	1/4	53	27	26	37	37	0	DMBX1,missense_variant,p.Arg49His,ENST00000360032,;DMBX1,missense_variant,p.Arg49His,ENST00000371956,;	A	ENSG00000197587	ENST00000360032	Transcript	missense_variant	160	146	49	R/H	cGc/cAc	rs749749952,COSM910327	.	.	1	DMBX1	HGNC	19026	protein_coding	YES	CCDS536.1	ENSP00000353132	DMBX1_HUMAN	.	UPI0000070B63	.	deleterious(0)	probably_damaging(0.999)	1/4	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGCGCCTGG	.	5	BLCA
ARHGAP29	0	.	GRCh37	1	94668041	94668041	+	Intron	SNP	A	A	T	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1143+59T>A	.	.	ENST00000260526	.	13	6	7	13	13	0	ARHGAP29,3_prime_UTR_variant,,ENST00000370217,;ARHGAP29,intron_variant,,ENST00000260526,;ARHGAP29,intron_variant,,ENST00000552844,;	T	ENSG00000137962	ENST00000260526	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ARHGAP29	HGNC	30207	protein_coding	YES	CCDS748.1	ENSP00000260526	RHG29_HUMAN	.	UPI000013D0E4	.	.	.	.	11/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACACCAAACTC	.	3	BLCA
PTPRT	0	.	GRCh37	20	41514478	41514478	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.183G>T	p.Glu61Asp	p.E61D	ENST00000373187	2/31	122	111	11	64	64	0	PTPRT,missense_variant,p.Glu61Asp,ENST00000373201,;PTPRT,missense_variant,p.Glu61Asp,ENST00000373198,;PTPRT,missense_variant,p.Glu61Asp,ENST00000373193,;PTPRT,missense_variant,p.Glu61Asp,ENST00000373187,;PTPRT,missense_variant,p.Glu61Asp,ENST00000356100,;PTPRT,missense_variant,p.Glu61Asp,ENST00000373184,;PTPRT,missense_variant,p.Glu61Asp,ENST00000373190,;PTPRT,downstream_gene_variant,,ENST00000485499,;	A	ENSG00000196090	ENST00000373187	Transcript	missense_variant	183	183	61	E/D	gaG/gaT	COSM1307410	.	.	-1	PTPRT	HGNC	9682	protein_coding	YES	CCDS42874.1	ENSP00000362283	PTPRT_HUMAN	.	UPI0000246C03	.	tolerated(0.27)	possibly_damaging(0.476)	2/31	.	PROSITE_profiles:PS50060,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF208,Pfam_domain:PF00629,SMART_domains:SM00137,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGTTTCTCCCA	.	3	BLCA
ZNF831	0	.	GRCh37	20	57829164	57829164	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4400C>T	p.Ser1467Leu	p.S1467L	ENST00000371030	5/5	81	50	30	46	46	0	ZNF831,missense_variant,p.Ser1467Leu,ENST00000371030,;	T	ENSG00000124203	ENST00000371030	Transcript	missense_variant	4400	4400	1467	S/L	tCa/tTa	COSM1307557	.	.	1	ZNF831	HGNC	16167	protein_coding	YES	CCDS42894.1	ENSP00000360069	ZN831_HUMAN	.	UPI00001D82E4	.	tolerated(0.15)	benign(0.012)	5/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF52	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTTCTCAGATG	.	4	BLCA
BIRC7	0	.	GRCh37	20	61867533	61867533	+	Missense_Mutation	SNP	C	C	A	rs775279603	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85C>A	p.Arg29Ser	p.R29S	ENST00000217169	1/7	16	12	4	14	14	0	BIRC7,missense_variant,p.Arg29Ser,ENST00000217169,;BIRC7,missense_variant,p.Arg29Ser,ENST00000342412,;NKAIN4,downstream_gene_variant,,ENST00000370316,;NKAIN4,downstream_gene_variant,,ENST00000370313,;BIRC7,upstream_gene_variant,,ENST00000395306,;MIR3196,upstream_gene_variant,,ENST00000579556,;NKAIN4,downstream_gene_variant,,ENST00000466885,;	A	ENSG00000101197	ENST00000217169	Transcript	missense_variant	299	85	29	R/S	Cgc/Agc	rs775279603	.	.	1	BIRC7	HGNC	13702	protein_coding	YES	CCDS13513.1	ENSP00000217169	BIRC7_HUMAN	.	UPI00001269A6	.	deleterious(0.01)	benign(0.016)	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE	AGGAGCGCTGT	.	2	BLCA
TANGO2	0	.	GRCh37	22	20052091	20052091	+	Missense_Mutation	SNP	C	C	T	rs760638813	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737C>T	p.Ala246Val	p.A246V	ENST00000327374	9/9	92	54	38	76	76	0	TANGO2,missense_variant,p.Ala251Val,ENST00000456048,;TANGO2,missense_variant,p.Ala246Val,ENST00000447208,;TANGO2,missense_variant,p.Ala287Val,ENST00000401833,;TANGO2,missense_variant,p.Ala148Val,ENST00000420290,;TANGO2,missense_variant,p.Ala184Val,ENST00000432883,;TANGO2,missense_variant,p.Ala184Val,ENST00000398042,;TANGO2,missense_variant,p.Ala246Val,ENST00000327374,;TANGO2,missense_variant,p.Ala184Val,ENST00000401886,;TANGO2,3_prime_UTR_variant,,ENST00000434570,;TANGO2,downstream_gene_variant,,ENST00000434168,;TANGO2,downstream_gene_variant,,ENST00000450664,;AC006547.15,non_coding_transcript_exon_variant,,ENST00000600090,;AC006547.13,intron_variant,,ENST00000600937,;AC006547.13,intron_variant,,ENST00000598339,;AC006547.13,intron_variant,,ENST00000595864,;AC006547.13,intron_variant,,ENST00000601746,;AC006547.13,intron_variant,,ENST00000415503,;AC006547.13,intron_variant,,ENST00000596334,;AC006547.13,intron_variant,,ENST00000609644,;AC006547.13,intron_variant,,ENST00000600617,;AC006547.13,intron_variant,,ENST00000608610,;AC006547.13,intron_variant,,ENST00000609191,;TANGO2,non_coding_transcript_exon_variant,,ENST00000490583,;TANGO2,non_coding_transcript_exon_variant,,ENST00000476940,;TANGO2,downstream_gene_variant,,ENST00000485715,;TANGO2,downstream_gene_variant,,ENST00000490121,;TANGO2,downstream_gene_variant,,ENST00000411907,;TANGO2,3_prime_UTR_variant,,ENST00000444651,;TANGO2,3_prime_UTR_variant,,ENST00000450019,;TANGO2,3_prime_UTR_variant,,ENST00000399807,;TANGO2,downstream_gene_variant,,ENST00000430807,;TANGO2,downstream_gene_variant,,ENST00000462579,;	T	ENSG00000183597	ENST00000327374	Transcript	missense_variant	915	737	246	A/V	gCg/gTg	rs760638813,COSM266136	.	.	1	TANGO2	HGNC	25439	protein_coding	YES	CCDS13772.1	ENSP00000332721	TNG2_HUMAN	C9JKN2_HUMAN,C9JDT9_HUMAN,C9J695_HUMAN	UPI0000050339	.	tolerated(0.16)	benign(0.02)	9/9	.	Pfam_domain:PF05742,hmmpanther:PTHR17985	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATGCGGACG	byFrequency	5	BLCA
ZNF70	0	.	GRCh37	22	24086629	24086629	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.699C>T	p.%3D	p.F233F	ENST00000341976	2/2	70	44	25	54	54	0	ZNF70,synonymous_variant,p.%3D,ENST00000341976,;	A	ENSG00000187792	ENST00000341976	Transcript	synonymous_variant	1160	699	233	F	ttC/ttT	COSM1307998	.	.	-1	ZNF70	HGNC	13140	protein_coding	YES	CCDS13812.1	ENSP00000339314	ZNF70_HUMAN	.	UPI0000001C98	.	.	.	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF82,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCTGAAATC	.	5	BLCA
EWSR1	0	.	GRCh37	22	29694812	29694812	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1522C>T	p.Arg508Trp	p.R508W	ENST00000414183	15/18	51	30	20	56	56	0	EWSR1,missense_variant,p.Arg502Trp,ENST00000406548,;EWSR1,missense_variant,p.Arg508Trp,ENST00000414183,;EWSR1,missense_variant,p.Arg430Trp,ENST00000332050,;EWSR1,missense_variant,p.Arg503Trp,ENST00000397938,;EWSR1,missense_variant,p.Arg447Trp,ENST00000332035,;EWSR1,missense_variant,p.Arg465Trp,ENST00000331029,;EWSR1,missense_variant,p.Arg159Trp,ENST00000360091,;EWSR1,non_coding_transcript_exon_variant,,ENST00000490315,;EWSR1,non_coding_transcript_exon_variant,,ENST00000483629,;EWSR1,non_coding_transcript_exon_variant,,ENST00000469669,;EWSR1,non_coding_transcript_exon_variant,,ENST00000479135,;	T	ENSG00000182944	ENST00000414183	Transcript	missense_variant	1543	1522	508	R/W	Cgg/Tgg	COSM1308036	.	.	1	EWSR1	HGNC	3508	protein_coding	YES	CCDS13852.2	ENSP00000400142	EWS_HUMAN	.	UPI000006DE88	.	tolerated(0.1)	unknown(0)	15/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23238:SF3,hmmpanther:PTHR23238	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCCCGGGGT	.	5	BLCA
RPL31	0	.	GRCh37	2	101622832	101622832	+	Intron	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346+299G>A	.	.	ENST00000409028	.	64	35	29	27	27	0	RPL31,missense_variant,p.Asp123Asn,ENST00000409733,;RPL31,missense_variant,p.Asp123Asn,ENST00000264258,;RPL31,3_prime_UTR_variant,,ENST00000409320,;RPL31,intron_variant,,ENST00000409650,;RPL31,intron_variant,,ENST00000409028,;RPL31,intron_variant,,ENST00000409038,;RPL31,intron_variant,,ENST00000441435,;RPL31,downstream_gene_variant,,ENST00000456292,;RPL31,downstream_gene_variant,,ENST00000409000,;TBC1D8,downstream_gene_variant,,ENST00000376840,;TBC1D8,downstream_gene_variant,,ENST00000409318,;RPL31,downstream_gene_variant,,ENST00000409711,;AC016738.4,upstream_gene_variant,,ENST00000452364,;RPL31,3_prime_UTR_variant,,ENST00000419276,;TBC1D8,downstream_gene_variant,,ENST00000494011,;	A	ENSG00000071082	ENST00000409028	Transcript	intron_variant	.	.	.	.	.	COSM3938433,COSM1305464	.	.	1	RPL31	HGNC	10334	protein_coding	YES	CCDS46373.1	ENSP00000386717	RL31_HUMAN	C9JU56_HUMAN	UPI0000EE6D67	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTGGATGAG	.	5	BLCA
GPR45	0	.	GRCh37	2	105859134	105859134	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.819C>T	p.%3D	p.F273F	ENST00000258456	1/1	277	169	107	243	242	0	GPR45,synonymous_variant,p.%3D,ENST00000258456,;	T	ENSG00000135973	ENST00000258456	Transcript	synonymous_variant	935	819	273	F	ttC/ttT	COSM1004749	.	.	1	GPR45	HGNC	4503	protein_coding	YES	CCDS2066.1	ENSP00000258456	GPR45_HUMAN	B5B0C1_HUMAN	UPI000013CFD3	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24245,hmmpanther:PTHR24245:SF4,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F273F|c.819C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCGTGGG	.	5	BLCA
SCN3A	0	.	GRCh37	2	165984600	165984600	+	Silent	SNP	G	G	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2934C>G	p.%3D	p.L978L	ENST00000283254	18/28	24	11	13	14	14	0	SCN3A,synonymous_variant,p.%3D,ENST00000440431,;SCN3A,synonymous_variant,p.%3D,ENST00000360093,;SCN3A,synonymous_variant,p.%3D,ENST00000283254,;SCN3A,synonymous_variant,p.%3D,ENST00000409101,;SCN3A,upstream_gene_variant,,ENST00000484898,;	C	ENSG00000153253	ENST00000283254	Transcript	synonymous_variant	3402	2934	978	L	ctC/ctG	COSM1305775,COSM1305776	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	.	.	18/28	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAGAGGTT	.	5	BLCA
NFE2L2	0	.	GRCh37	2	178098960	178098960	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85G>T	p.Asp29Tyr	p.D29Y	ENST00000397062	2/5	34	22	12	12	12	0	NFE2L2,missense_variant,p.Asp13Tyr,ENST00000449627,;NFE2L2,missense_variant,p.Asp13Tyr,ENST00000423513,;NFE2L2,missense_variant,p.Asp29Tyr,ENST00000397062,;NFE2L2,missense_variant,p.Asp13Tyr,ENST00000446151,;NFE2L2,missense_variant,p.Asp13Tyr,ENST00000588123,;NFE2L2,missense_variant,p.Asp28Tyr,ENST00000586532,;NFE2L2,missense_variant,p.Asp13Tyr,ENST00000421929,;NFE2L2,missense_variant,p.Asp13Tyr,ENST00000464747,;NFE2L2,missense_variant,p.Asp13Tyr,ENST00000448782,;NFE2L2,missense_variant,p.Asp13Tyr,ENST00000397063,;NFE2L2,intron_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	A	ENSG00000116044	ENST00000397062	Transcript	missense_variant	640	85	29	D/Y	Gat/Tat	COSM124735,COSM124736,COSM132845	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	deleterious(0)	probably_damaging(1)	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.D29Y|c.85G>T|4,CODON|p.D29G|c.86A>G|11,BUFFER|p.G31E|c.92G>A|5,BUFFER|p.G31A|c.92G>C|7,BUFFER|p.L30R|c.89T>G|7,BUFFER|p.L30F|c.88C>T|6,BUFFER|p.D29H|c.85G>C|12,BUFFER|p.D29N|c.85G>A|3,BUFFER|p.D27G|c.80A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATCTATAT	.	5	BLCA
CASP8	0	.	GRCh37	2	202150030	202150030	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1471C>T	p.Arg491Ter	p.R491*	ENST00000358485	8/9	254	174	80	107	107	0	CASP8,stop_gained,p.Arg417Ter,ENST00000323492,;CASP8,stop_gained,p.Arg449Ter,ENST00000264275,;CASP8,stop_gained,p.Arg491Ter,ENST00000358485,;CASP8,stop_gained,p.Arg211Ter,ENST00000444430,;CASP8,stop_gained,p.Arg417Ter,ENST00000392263,;CASP8,stop_gained,p.Arg432Ter,ENST00000432109,;CASP8,stop_gained,p.Arg348Ter,ENST00000264274,;CASP8,3_prime_UTR_variant,,ENST00000392266,;CASP8,3_prime_UTR_variant,,ENST00000392259,;ALS2CR12,downstream_gene_variant,,ENST00000415745,;ALS2CR12,downstream_gene_variant,,ENST00000405148,;ALS2CR12,downstream_gene_variant,,ENST00000392257,;CASP8,downstream_gene_variant,,ENST00000392258,;ALS2CR12,downstream_gene_variant,,ENST00000439709,;ALS2CR12,downstream_gene_variant,,ENST00000286190,;CASP8,downstream_gene_variant,,ENST00000424461,;CASP8,non_coding_transcript_exon_variant,,ENST00000339403,;ALS2CR12,downstream_gene_variant,,ENST00000494171,;ALS2CR12,downstream_gene_variant,,ENST00000494223,;	T	ENSG00000064012	ENST00000358485	Transcript	stop_gained	1667	1471	491	R/*	Cga/Tga	COSM209554,COSM1306296,COSM209555	.	.	1	CASP8	HGNC	1509	protein_coding	YES	CCDS42798.1	ENSP00000351273	CASP8_HUMAN	E7EVN1_HUMAN,E7ETB7_HUMAN,E7EQ01_HUMAN	UPI0000456ECD	.	.	.	8/9	.	PROSITE_profiles:PS50207,hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF141,Pfam_domain:PF00656,Gene3D:3.40.50.1460,SMART_domains:SM00115,Superfamily_domains:SSF52129	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R449*|c.1345C>T|3,SITE|p.R491*|c.1471C>T|3,BUFFER|p.R452*|c.1354C>T|3,BUFFER|p.R452*|c.1354C>T|5,BUFFER|p.R494*|c.1480C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAGCGATGT	.	5	BLCA
PARD3B	0	.	GRCh37	2	206023620	206023620	+	Intron	SNP	G	G	A	rs774201389	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1435-13315G>A	.	.	ENST00000358768	.	73	43	29	33	33	0	PARD3B,missense_variant,p.Ala537Thr,ENST00000349953,;PARD3B,missense_variant,p.Ala537Thr,ENST00000406610,;PARD3B,missense_variant,p.Ala537Thr,ENST00000351153,;PARD3B,missense_variant,p.Ala537Thr,ENST00000462231,;PARD3B,intron_variant,,ENST00000358768,;	A	ENSG00000116117	ENST00000358768	Transcript	intron_variant	.	.	.	.	.	rs774201389,COSM1219275	.	.	1	PARD3B	HGNC	14446	protein_coding	YES	CCDS42806.1	ENSP00000351618	PAR3L_HUMAN	Q587I4_HUMAN,Q53TQ6_HUMAN,Q53TP8_HUMAN,Q53TL6_HUMAN,Q53TI4_HUMAN,Q53T65_HUMAN,Q53SN0_HUMAN,Q4ZG80_HUMAN	UPI000007201E	.	.	.	.	10/21	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGCGCTGCT	byFrequency	5	BLCA
ERBB4	0	.	GRCh37	2	212578341	212578341	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.916C>T	p.Arg306Cys	p.R306C	ENST00000342788	8/28	70	41	28	28	28	0	ERBB4,missense_variant,p.Arg306Cys,ENST00000402597,;ERBB4,missense_variant,p.Arg306Cys,ENST00000436443,;ERBB4,missense_variant,p.Arg306Cys,ENST00000260943,;ERBB4,missense_variant,p.Arg306Cys,ENST00000342788,;ERBB4,non_coding_transcript_exon_variant,,ENST00000484594,;	A	ENSG00000178568	ENST00000342788	Transcript	missense_variant	1227	916	306	R/C	Cgt/Tgt	COSM1306390,COSM48366	.	.	-1	ERBB4	HGNC	3432	protein_coding	YES	CCDS2394.1	ENSP00000342235	ERBB4_HUMAN	Q580Q7_HUMAN,Q53T57_HUMAN,Q53R48_HUMAN,Q53R25_HUMAN,Q53QS8_HUMAN,Q4ZG14_HUMAN,E9PDR1_HUMAN	UPI00000499DF	.	deleterious(0)	probably_damaging(1)	8/28	.	hmmpanther:PTHR24416:SF90,hmmpanther:PTHR24416,Pfam_domain:PF00757,Gene3D:2.10.220.10,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S303F|c.908C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCACGCACAC	.	5	BLCA
UGT1A10	0	.	GRCh37	2	234676526	234676526	+	Missense_Mutation	SNP	C	C	T	rs144978321	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1019C>T	p.Ser340Leu	p.S340L	ENST00000344644	3/5	246	144	101	133	133	0	UGT1A10,missense_variant,p.Ser340Leu,ENST00000373445,;UGT1A4,missense_variant,p.Ser344Leu,ENST00000373409,;UGT1A6,missense_variant,p.Ser342Leu,ENST00000305139,;UGT1A3,missense_variant,p.Ser344Leu,ENST00000482026,;UGT1A6,missense_variant,p.Ser75Leu,ENST00000373424,;UGT1A8,missense_variant,p.Ser343Leu,ENST00000608383,;UGT1A8,missense_variant,p.Ser344Leu,ENST00000608381,;UGT1A7,missense_variant,p.Ser340Leu,ENST00000373426,;UGT1A8,missense_variant,p.Ser340Leu,ENST00000609637,;UGT1A8,missense_variant,p.Ser343Leu,ENST00000360418,;UGT1A8,missense_variant,p.Ser344Leu,ENST00000609767,;UGT1A5,missense_variant,p.Ser344Leu,ENST00000373414,;UGT1A1,missense_variant,p.Ser343Leu,ENST00000305208,;UGT1A6,missense_variant,p.Ser75Leu,ENST00000406651,;UGT1A10,missense_variant,p.Ser340Leu,ENST00000344644,;UGT1A8,missense_variant,p.Ser340Leu,ENST00000373450,;UGT1A9,missense_variant,p.Ser340Leu,ENST00000354728,;UGT1A6,missense_variant,p.Ser75Leu,ENST00000446481,;UGT1A4,missense_variant,p.Ser344Leu,ENST00000450233,;UGT1A6,downstream_gene_variant,,ENST00000484784,;	T	ENSG00000242515	ENST00000344644	Transcript	missense_variant	1088	1019	340	S/L	tCg/tTg	rs144978321,COSM1306569,COSM1306572,COSM3579353,COSM1306568,COSM1306567,COSM1306566,COSM1306570,COSM1306574,COSM1306571,COSM1306573	.	.	1	UGT1A10	HGNC	12531	protein_coding	YES	CCDS33403.1	ENSP00000343838	UD110_HUMAN	Q5DT02_HUMAN,Q13406_HUMAN	UPI000006D7E8	.	tolerated(0.16)	possibly_damaging(0.637)	3/5	.	hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF138,Gene3D:3.40.50.2000,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	T:0.0002	T:0.0002	.	0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S344L|c.1031C>T|3,SITE|p.S343L|c.1028C>T|3,SITE|p.S344L|c.1031C>T|3,SITE|p.S340L|c.1019C>T|3,SITE|p.S340L|c.1019C>T|3,SITE|p.S344L|c.1031C>T|3,SITE|p.S342L|c.1025C>T|3,SITE|p.S340L|c.1019C>T|3,SITE|p.S340L|c.1019C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATCGAATC	byCluster	5	BLCA
DNAJC5G	0	.	GRCh37	2	27499703	27499703	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107C>A	p.Ser36Tyr	p.S36Y	ENST00000296097	3/7	45	18	27	21	21	0	DNAJC5G,missense_variant,p.Ser36Tyr,ENST00000404433,;DNAJC5G,missense_variant,p.Ser36Tyr,ENST00000420191,;DNAJC5G,missense_variant,p.Ser36Tyr,ENST00000296097,;DNAJC5G,missense_variant,p.Ser36Tyr,ENST00000402462,;DNAJC5G,missense_variant,p.Ser36Tyr,ENST00000406962,;SLC30A3,upstream_gene_variant,,ENST00000424577,;SLC30A3,upstream_gene_variant,,ENST00000447008,;SLC30A3,upstream_gene_variant,,ENST00000426569,;SLC30A3,upstream_gene_variant,,ENST00000426924,;DNAJC5G,upstream_gene_variant,,ENST00000460358,;	A	ENSG00000163793	ENST00000296097	Transcript	missense_variant	525	107	36	S/Y	tCc/tAc	COSM1306670,COSM721445	.	.	1	DNAJC5G	HGNC	24844	protein_coding	YES	CCDS1744.1	ENSP00000296097	DNJ5G_HUMAN	.	UPI0000070AD2	.	deleterious(0)	possibly_damaging(0.793)	3/7	.	PROSITE_profiles:PS50076,hmmpanther:PTHR24078:SF149,hmmpanther:PTHR24078,Gene3D:1.10.287.110,SMART_domains:SM00271,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATCCTACA	.	5	BLCA
CCDC85A	0	.	GRCh37	2	56419936	56419936	+	Missense_Mutation	SNP	G	G	A	rs759751798	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>A	p.Ala201Thr	p.A201T	ENST00000407595	2/6	96	62	34	113	112	1	CCDC85A,missense_variant,p.Ala201Thr,ENST00000407595,;RP11-482H16.1,intron_variant,,ENST00000607540,;	A	ENSG00000055813	ENST00000407595	Transcript	missense_variant	1103	601	201	A/T	Gca/Aca	rs759751798,COSM1306906	.	.	1	CCDC85A	HGNC	29400	protein_coding	YES	CCDS46290.1	ENSP00000384040	CC85A_HUMAN	.	UPI00001C1DC1	.	tolerated(0.27)	benign(0.015)	2/6	.	hmmpanther:PTHR13546,hmmpanther:PTHR13546:SF13,Pfam_domain:PF10226	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCACCGCACCC	byFrequency	4	BLCA
SMYD5	0	.	GRCh37	2	73447860	73447860	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>T	p.%3D	p.P139P	ENST00000389501	4/13	99	64	35	88	88	0	SMYD5,synonymous_variant,p.%3D,ENST00000443900,;SMYD5,synonymous_variant,p.%3D,ENST00000389501,;SMYD5,non_coding_transcript_exon_variant,,ENST00000474652,;SMYD5,downstream_gene_variant,,ENST00000491204,;SMYD5,upstream_gene_variant,,ENST00000486518,;SMYD5,3_prime_UTR_variant,,ENST00000413491,;SMYD5,3_prime_UTR_variant,,ENST00000258100,;SMYD5,upstream_gene_variant,,ENST00000477038,;	T	ENSG00000135632	ENST00000389501	Transcript	synonymous_variant	462	417	139	P	ccC/ccT	COSM1306982,COSM1306981	.	.	1	SMYD5	HGNC	16258	protein_coding	YES	CCDS33221.2	ENSP00000374152	SMYD5_HUMAN	B4DUT1_HUMAN	UPI0000161654	.	.	.	4/13	.	PROSITE_profiles:PS50280,hmmpanther:PTHR12197,hmmpanther:PTHR12197:SF153,Pfam_domain:PF00856,SMART_domains:SM00317	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCCCTCCCA	.	5	BLCA
POLQ	0	.	GRCh37	3	121168259	121168259	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7167C>T	p.%3D	p.I2389I	ENST00000264233	26/30	243	141	101	92	92	0	POLQ,synonymous_variant,p.%3D,ENST00000264233,;POLQ,non_coding_transcript_exon_variant,,ENST00000474243,;	A	ENSG00000051341	ENST00000264233	Transcript	synonymous_variant	7296	7167	2389	I	atC/atT	COSM1308450	.	.	-1	POLQ	HGNC	9186	protein_coding	YES	CCDS33833.1	ENSP00000264233	DPOLQ_HUMAN	.	UPI0000D61B5F	.	.	.	26/30	.	PROSITE_patterns:PS00447,Gene3D:1.10.150.20,Pfam_domain:PF00476,SMART_domains:SM00482,Superfamily_domains:SSF56672	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAATGATCCC	.	5	BLCA
KLHL6	0	.	GRCh37	3	183225981	183225981	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775G>A	p.Glu259Lys	p.E259K	ENST00000341319	3/7	181	116	65	139	138	0	KLHL6,missense_variant,p.Glu259Lys,ENST00000341319,;KLHL6,missense_variant,p.Glu248Lys,ENST00000468734,;KLHL6,non_coding_transcript_exon_variant,,ENST00000489245,;	T	ENSG00000172578	ENST00000341319	Transcript	missense_variant	811	775	259	E/K	Gag/Aag	COSM1308875	.	.	-1	KLHL6	HGNC	18653	protein_coding	YES	CCDS3245.2	ENSP00000341342	KLHL6_HUMAN	.	UPI0000169CB9	.	tolerated(0.13)	benign(0.26)	3/7	.	hmmpanther:PTHR24411:SF4,hmmpanther:PTHR24411,Pfam_domain:PF07707,SMART_domains:SM00875,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTCGAGGA	.	5	BLCA
EIF4G1	0	.	GRCh37	3	184045027	184045027	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3473G>A	p.Gly1158Asp	p.G1158D	ENST00000424196	23/32	80	44	35	73	73	0	EIF4G1,missense_variant,p.Gly1112Asp,ENST00000411531,;EIF4G1,missense_variant,p.Gly1064Asp,ENST00000392537,;EIF4G1,missense_variant,p.Gly1151Asp,ENST00000346169,;EIF4G1,missense_variant,p.Gly1151Asp,ENST00000319274,;EIF4G1,missense_variant,p.Gly1111Asp,ENST00000414031,;EIF4G1,missense_variant,p.Gly205Asp,ENST00000448284,;EIF4G1,missense_variant,p.Gly1158Asp,ENST00000352767,;EIF4G1,missense_variant,p.Gly1158Asp,ENST00000424196,;EIF4G1,missense_variant,p.Gly956Asp,ENST00000434061,;EIF4G1,missense_variant,p.Gly1065Asp,ENST00000427845,;EIF4G1,missense_variant,p.Gly955Asp,ENST00000435046,;EIF4G1,missense_variant,p.Gly1158Asp,ENST00000382330,;EIF4G1,missense_variant,p.Gly987Asp,ENST00000350481,;EIF4G1,missense_variant,p.Gly988Asp,ENST00000441154,;EIF4G1,missense_variant,p.Gly1152Asp,ENST00000342981,;EIF2B5,intron_variant,,ENST00000444495,;EIF4G1,downstream_gene_variant,,ENST00000450424,;EIF4G1,downstream_gene_variant,,ENST00000444861,;EIF4G1,downstream_gene_variant,,ENST00000426123,;EIF4G1,downstream_gene_variant,,ENST00000421110,;SNORD66,downstream_gene_variant,,ENST00000390856,;EIF4G1,3_prime_UTR_variant,,ENST00000442406,;EIF4G1,upstream_gene_variant,,ENST00000478291,;EIF4G1,upstream_gene_variant,,ENST00000464548,;EIF4G1,upstream_gene_variant,,ENST00000460829,;EIF4G1,downstream_gene_variant,,ENST00000466311,;EIF4G1,upstream_gene_variant,,ENST00000482303,;EIF4G1,upstream_gene_variant,,ENST00000422614,;EIF4G1,upstream_gene_variant,,ENST00000475721,;EIF4G1,downstream_gene_variant,,ENST00000413967,;	A	ENSG00000114867	ENST00000424196	Transcript	missense_variant	3862	3473	1158	G/D	gGc/gAc	COSM1308894	.	.	1	EIF4G1	HGNC	3296	protein_coding	YES	CCDS54687.1	ENSP00000416255	IF4G1_HUMAN	Q96I65_HUMAN,C9JWW9_HUMAN,C9JWH7_HUMAN,C9JSU8_HUMAN,C9J987_HUMAN,C9J6B6_HUMAN,C9J556_HUMAN	UPI00015E0966	.	tolerated(0.09)	benign(0.184)	23/32	.	hmmpanther:PTHR23253,hmmpanther:PTHR23253:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGAGGCGAGA	.	5	BLCA
COL7A1	0	.	GRCh37	3	48604616	48604616	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8054G>A	p.Arg2685Gln	p.R2685Q	ENST00000328333	109/118	139	129	10	123	123	0	COL7A1,missense_variant,p.Arg2685Gln,ENST00000328333,;COL7A1,missense_variant,p.Arg2653Gln,ENST00000454817,;UCN2,upstream_gene_variant,,ENST00000273610,;COL7A1,downstream_gene_variant,,ENST00000422991,;COL7A1,upstream_gene_variant,,ENST00000470076,;COL7A1,non_coding_transcript_exon_variant,,ENST00000487017,;COL7A1,non_coding_transcript_exon_variant,,ENST00000474432,;COL7A1,downstream_gene_variant,,ENST00000467985,;COL7A1,upstream_gene_variant,,ENST00000466591,;COL7A1,downstream_gene_variant,,ENST00000462475,;COL7A1,downstream_gene_variant,,ENST00000459756,;COL7A1,upstream_gene_variant,,ENST00000465238,;	T	ENSG00000114270	ENST00000328333	Transcript	missense_variant	8162	8054	2685	R/Q	cGa/cAa	COSM1309217	.	.	-1	COL7A1	HGNC	2214	protein_coding	YES	CCDS2773.1	ENSP00000332371	CO7A1_HUMAN	.	UPI0000126D20	.	.	probably_damaging(1)	109/118	.	hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCGGTCA	.	2	BLCA
ARIH2OS	0	.	GRCh37	3	48956264	48956265	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318dupT	p.Gly107TrpfsTer28	p.G107Wfs*28	ENST00000408959	1/1	41	32	9	26	26	0	ARIH2OS,frameshift_variant,p.Gly107TrpfsTer28,ENST00000408959,;ARIH2,5_prime_UTR_variant,,ENST00000356401,;ARIH2,5_prime_UTR_variant,,ENST00000452882,;ARIH2,5_prime_UTR_variant,,ENST00000430423,;ARIH2,upstream_gene_variant,,ENST00000449729,;ARIH2,upstream_gene_variant,,ENST00000449376,;ARIH2,upstream_gene_variant,,ENST00000433170,;ARIH2,upstream_gene_variant,,ENST00000420814,;ARIH2,non_coding_transcript_exon_variant,,ENST00000478224,;ARIH2,non_coding_transcript_exon_variant,,ENST00000498314,;ARIH2,non_coding_transcript_exon_variant,,ENST00000474618,;ARIH2,upstream_gene_variant,,ENST00000482427,;ARIH2,upstream_gene_variant,,ENST00000483333,;ARIH2,upstream_gene_variant,,ENST00000486316,;ARIH2,upstream_gene_variant,,ENST00000495761,;ARIH2,upstream_gene_variant,,ENST00000484999,;ARIH2,upstream_gene_variant,,ENST00000474936,;ARIH2,upstream_gene_variant,,ENST00000490095,;ARIH2,upstream_gene_variant,,ENST00000470296,;ARIH2,upstream_gene_variant,,ENST00000488963,;ARIH2,upstream_gene_variant,,ENST00000463738,;ARIH2,upstream_gene_variant,,ENST00000492077,;ARIH2,upstream_gene_variant,,ENST00000466850,;	A	ENSG00000221883	ENST00000408959	Transcript	frameshift_variant	554-555	318-319	106-107	-/X	-/T	.	.	.	-1	ARIH2OS	HGNC	34425	protein_coding	YES	CCDS43088.1	ENSP00000386193	ARI2O_HUMAN	.	UPI00000710A2	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGCGCCAAGCA	.	3	BLCA
DNAH1	0	.	GRCh37	3	52387489	52387489	+	Missense_Mutation	SNP	G	G	A	rs768977175	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3320G>A	p.Arg1107Gln	p.R1107Q	ENST00000420323	20/78	82	43	39	82	82	0	DNAH1,missense_variant,p.Arg1107Gln,ENST00000420323,;DNAH1,non_coding_transcript_exon_variant,,ENST00000486752,;DNAH1,non_coding_transcript_exon_variant,,ENST00000497875,;	A	ENSG00000114841	ENST00000420323	Transcript	missense_variant	3581	3320	1107	R/Q	cGg/cAg	rs768977175,COSM1309328,COSM1309327	.	.	1	DNAH1	HGNC	2940	protein_coding	YES	CCDS46842.1	ENSP00000401514	DYH1_HUMAN	.	UPI0001AE79D6	.	.	benign(0.354)	20/78	.	Pfam_domain:PF08393,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF137	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGCGGATCC	.	5	BLCA
PRDM5	0	.	GRCh37	4	121675749	121675749	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1582A>C	p.Lys528Gln	p.K528Q	ENST00000264808	14/16	77	43	33	46	46	0	PRDM5,missense_variant,p.Lys497Gln,ENST00000428209,;PRDM5,missense_variant,p.Lys528Gln,ENST00000264808,;PRDM5,intron_variant,,ENST00000515109,;PRDM5,non_coding_transcript_exon_variant,,ENST00000506065,;PRDM5,non_coding_transcript_exon_variant,,ENST00000505484,;	G	ENSG00000138738	ENST00000264808	Transcript	missense_variant	1823	1582	528	K/Q	Aaa/Caa	COSM1309656	.	.	-1	PRDM5	HGNC	9349	protein_coding	YES	CCDS3716.1	ENSP00000264808	PRDM5_HUMAN	.	UPI000013D572	.	tolerated(0.59)	benign(0.091)	14/16	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24409:SF17,hmmpanther:PTHR24409,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,PIRSF_domain:PIRSF037162,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTTACTGA	.	5	BLCA
POU4F2	0	.	GRCh37	4	147561325	147561325	+	Missense_Mutation	SNP	G	G	T	rs757268615	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595G>T	p.Gly199Trp	p.G199W	ENST00000281321	2/2	11	6	4	16	16	0	POU4F2,missense_variant,p.Gly199Trp,ENST00000281321,;AC093887.1,downstream_gene_variant,,ENST00000584185,;	T	ENSG00000151615	ENST00000281321	Transcript	missense_variant	843	595	199	G/W	Ggg/Tgg	rs757268615,COSM1309786	.	.	1	POU4F2	HGNC	9219	protein_coding	YES	CCDS34074.1	ENSP00000281321	PO4F2_HUMAN	.	UPI000013DC6C	.	deleterious(0)	probably_damaging(0.998)	2/2	.	hmmpanther:PTHR11636:SF41,hmmpanther:PTHR11636	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCCGGGCTG	.	2	BLCA
NEIL3	0	.	GRCh37	4	178260984	178260984	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.675A>G	p.Ile225Met	p.I225M	ENST00000264596	5/10	43	24	18	25	25	0	NEIL3,missense_variant,p.Ile225Met,ENST00000264596,;RP11-376O6.2,downstream_gene_variant,,ENST00000506895,;NEIL3,intron_variant,,ENST00000513321,;	G	ENSG00000109674	ENST00000264596	Transcript	missense_variant	793	675	225	I/M	atA/atG	COSM1309914,COSM733003	.	.	1	NEIL3	HGNC	24573	protein_coding	YES	CCDS3828.1	ENSP00000264596	NEIL3_HUMAN	.	UPI000013D53D	.	deleterious(0.01)	benign(0.152)	5/10	.	hmmpanther:PTHR22993,hmmpanther:PTHR22993:SF10,Pfam_domain:PF06831,Gene3D:1.10.8.50,Superfamily_domains:SSF46946	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATACGTGA	.	5	BLCA
SEPSECS	0	.	GRCh37	4	25146682	25146682	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.878C>T	p.Ala293Val	p.A293V	ENST00000382103	7/11	61	41	19	18	18	0	SEPSECS,missense_variant,p.Ala214Val,ENST00000302922,;SEPSECS,missense_variant,p.Ala293Val,ENST00000382103,;SEPSECS,3_prime_UTR_variant,,ENST00000358971,;SEPSECS,3_prime_UTR_variant,,ENST00000514585,;SEPSECS,intron_variant,,ENST00000503150,;SEPSECS,intron_variant,,ENST00000505513,;	A	ENSG00000109618	ENST00000382103	Transcript	missense_variant	951	878	293	A/V	gCt/gTt	COSM1309994,COSM1309993	.	.	-1	SEPSECS	HGNC	30605	protein_coding	YES	CCDS3432.2	ENSP00000371535	SPCS_HUMAN	A1A4F3_HUMAN	UPI000020BDD0	.	deleterious(0)	probably_damaging(0.963)	7/11	.	Superfamily_domains:SSF53383,PIRSF_domain:PIRSF017689,TIGRFAM_domain:TIGR03531,Pfam_domain:PF05889,Gene3D:3.40.640.10,hmmpanther:PTHR12944	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATAGCACCA	.	5	BLCA
NOP14	0	.	GRCh37	4	2943974	2943974	+	Missense_Mutation	SNP	G	G	C	rs373966810	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1996C>G	p.Leu666Val	p.L666V	ENST00000416614	14/18	90	54	36	82	82	0	NOP14,missense_variant,p.Leu666Val,ENST00000416614,;NOP14,missense_variant,p.Leu666Val,ENST00000398071,;NOP14,missense_variant,p.Leu666Val,ENST00000502735,;NOP14,missense_variant,p.Leu666Val,ENST00000314262,;NOP14-AS1,intron_variant,,ENST00000515194,;NOP14-AS1,intron_variant,,ENST00000503709,;NOP14-AS1,intron_variant,,ENST00000507702,;NOP14-AS1,intron_variant,,ENST00000505731,;NOP14-AS1,downstream_gene_variant,,ENST00000507999,;NOP14-AS1,downstream_gene_variant,,ENST00000512712,;NOP14-AS1,downstream_gene_variant,,ENST00000512802,;NOP14,upstream_gene_variant,,ENST00000507120,;	C	ENSG00000087269	ENST00000416614	Transcript	missense_variant	2062	1996	666	L/V	Ctc/Gtc	rs373966810,COSM1310010	.	.	-1	NOP14	HGNC	16821	protein_coding	YES	CCDS33945.1	ENSP00000405068	NOP14_HUMAN	.	UPI00001A9472	.	tolerated(0.06)	probably_damaging(0.955)	14/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23183,hmmpanther:PTHR23183:SF0,Pfam_domain:PF04147	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGAGGGAGA	.	5	BLCA
ZNF721	0	.	GRCh37	4	436242	436242	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2014G>A	p.Glu672Lys	p.E672K	ENST00000511833	3/3	135	87	48	66	66	0	ZNF721,missense_variant,p.Glu660Lys,ENST00000338977,;ZNF721,missense_variant,p.Glu672Lys,ENST00000511833,;ZNF721,intron_variant,,ENST00000506646,;ZNF721,downstream_gene_variant,,ENST00000505900,;ZNF721,intron_variant,,ENST00000507078,;ABCA11P,intron_variant,,ENST00000514396,;ABCA11P,intron_variant,,ENST00000451020,;ABCA11P,intron_variant,,ENST00000507854,;ZNF721,intron_variant,,ENST00000515578,;	T	ENSG00000182903	ENST00000511833	Transcript	missense_variant	2208	2014	672	E/K	Gaa/Aaa	COSM1310075,COSM1310074	.	.	-1	ZNF721	HGNC	29425	protein_coding	YES	CCDS46991.1	ENSP00000428878	ZN721_HUMAN	.	UPI0000E9B4A9	.	tolerated(0.76)	benign(0.115)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24376,hmmpanther:PTHR24376:SF16,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCACATT	.	5	BLCA
UNC5C	0	.	GRCh37	4	96199412	96199412	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592G>A	p.Glu198Lys	p.E198K	ENST00000453304	4/16	60	41	19	45	45	0	UNC5C,missense_variant,p.Glu198Lys,ENST00000506749,;UNC5C,missense_variant,p.Glu198Lys,ENST00000513796,;UNC5C,missense_variant,p.Glu198Lys,ENST00000453304,;UNC5C,missense_variant,p.Glu198Lys,ENST00000504962,;	T	ENSG00000182168	ENST00000453304	Transcript	missense_variant	941	592	198	E/K	Gag/Aag	COSM1310395	.	.	-1	UNC5C	HGNC	12569	protein_coding	YES	CCDS3643.1	ENSP00000406022	UNC5C_HUMAN	Q4W5H4_HUMAN	UPI000004E6A5	.	deleterious(0.01)	possibly_damaging(0.791)	4/16	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR12582,hmmpanther:PTHR12582:SF7,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E198K|c.592G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCAGCCA	.	5	BLCA
PCDHGA6	0	.	GRCh37	5	140753889	140753889	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.239G>A	p.Arg80Gln	p.R80Q	ENST00000517434	1/4	103	94	9	83	83	0	PCDHGA6,missense_variant,p.Arg80Gln,ENST00000517434,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB2,intron_variant,,ENST00000522605,;	A	ENSG00000253731	ENST00000517434	Transcript	missense_variant	239	239	80	R/Q	cGa/cAa	COSM1310731	.	.	1	PCDHGA6	HGNC	8704	protein_coding	YES	CCDS54926.1	ENSP00000429601	PCDG6_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000715C8	.	deleterious_low_confidence(0.05)	benign(0.177)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF107,Gene3D:2.60.40.60,Pfam_domain:PF08266,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCCGCGAAACG	.	3	BLCA
GRIA1	0	.	GRCh37	5	153026569	153026569	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.332G>T	p.Cys111Phe	p.C111F	ENST00000518783	3/16	123	80	42	103	103	0	GRIA1,missense_variant,p.Cys32Phe,ENST00000521843,;GRIA1,missense_variant,p.Cys101Phe,ENST00000285900,;GRIA1,missense_variant,p.Cys111Phe,ENST00000518783,;GRIA1,missense_variant,p.Cys111Phe,ENST00000448073,;GRIA1,missense_variant,p.Cys101Phe,ENST00000340592,;GRIA1,intron_variant,,ENST00000518142,;GRIA1,non_coding_transcript_exon_variant,,ENST00000518862,;GRIA1,non_coding_transcript_exon_variant,,ENST00000520966,;GRIA1,non_coding_transcript_exon_variant,,ENST00000481559,;	T	ENSG00000155511	ENST00000518783	Transcript	missense_variant	359	332	111	C/F	tGt/tTt	COSM1310875,COSM1310876	.	.	1	GRIA1	HGNC	4571	protein_coding	YES	CCDS58987.1	ENSP00000428994	GRIA1_HUMAN	.	UPI0001E8F433	.	deleterious(0)	probably_damaging(1)	3/16	.	Superfamily_domains:SSF53822,Pfam_domain:PF01094,Gene3D:3.40.50.2300,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF157	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTGTGGGG	.	5	BLCA
C5orf54	0	.	GRCh37	5	159822089	159822089	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.409C>T	p.Gln137Ter	p.Q137*	ENST00000408953	2/2	77	47	30	36	35	0	C5orf54,stop_gained,p.Gln137Ter,ENST00000408953,;C5orf54,stop_gained,p.Gln137Ter,ENST00000523213,;	A	ENSG00000221886	ENST00000408953	Transcript	stop_gained	917	409	137	Q/*	Cag/Tag	COSM1310905	.	.	-1	C5orf54	HGNC	30804	protein_coding	YES	CCDS34283.1	ENSP00000386184	ZBED8_HUMAN	.	UPI00000741A3	.	.	.	2/2	.	hmmpanther:PTHR11697:SF102,hmmpanther:PTHR11697	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTGCTGAAGCT	.	4	BLCA
HRH2	0	.	GRCh37	5	175111277	175111277	+	Silent	SNP	G	G	T	rs762984086	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1041G>T	p.%3D	p.G347G	ENST00000377291	2/3	149	102	46	108	108	0	HRH2,synonymous_variant,p.%3D,ENST00000377291,;HRH2,synonymous_variant,p.%3D,ENST00000231683,;	T	ENSG00000113749	ENST00000377291	Transcript	synonymous_variant	1692	1041	347	G	ggG/ggT	rs762984086,COSM1310981,COSM1310980	.	.	1	HRH2	HGNC	5183	protein_coding	YES	CCDS47344.1	ENSP00000366506	HRH2_HUMAN	.	UPI00001B2326	.	.	.	2/3	.	Prints_domain:PR00531	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTGGGACAGA	.	5	BLCA
MGAT1	0	.	GRCh37	5	180219508	180219508	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.464A>G	p.Tyr155Cys	p.Y155C	ENST00000446023	3/3	123	76	47	181	181	0	MGAT1,missense_variant,p.Tyr155Cys,ENST00000446023,;MGAT1,missense_variant,p.Tyr155Cys,ENST00000393340,;MGAT1,missense_variant,p.Tyr155Cys,ENST00000307826,;MGAT1,missense_variant,p.Tyr155Cys,ENST00000427865,;MGAT1,missense_variant,p.Tyr155Cys,ENST00000333055,;MGAT1,missense_variant,p.Tyr155Cys,ENST00000504671,;MGAT1,downstream_gene_variant,,ENST00000514283,;MGAT1,downstream_gene_variant,,ENST00000507384,;MGAT1,downstream_gene_variant,,ENST00000514438,;MGAT1,downstream_gene_variant,,ENST00000506269,;MGAT1,downstream_gene_variant,,ENST00000512695,;MGAT1,downstream_gene_variant,,ENST00000513431,;MGAT1,downstream_gene_variant,,ENST00000506889,;MGAT1,downstream_gene_variant,,ENST00000502678,;CTC-205M6.5,upstream_gene_variant,,ENST00000562870,;MGAT1,downstream_gene_variant,,ENST00000505682,;MGAT1,downstream_gene_variant,,ENST00000504385,;MGAT1,downstream_gene_variant,,ENST00000514760,;	C	ENSG00000131446	ENST00000446023	Transcript	missense_variant	1215	464	155	Y/C	tAc/tGc	COSM1311060	.	.	-1	MGAT1	HGNC	7044	protein_coding	YES	CCDS4458.1	ENSP00000404718	MGAT1_HUMAN	Q59G70_HUMAN,D6RIS2_HUMAN,D6RHZ8_HUMAN,D6RF69_HUMAN,D6RD15_HUMAN,D6RBS3_HUMAN,D6RB69_HUMAN,D6RAK2_HUMAN,D6RA48_HUMAN,D6R9U2_HUMAN	UPI000013CDF1	.	.	probably_damaging(0.998)	3/3	.	Superfamily_domains:SSF53448,Pfam_domain:PF03071,Gene3D:3.90.550.10,hmmpanther:PTHR10468,hmmpanther:PTHR10468:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCGTAGGAG	.	5	BLCA
HCN1	0	.	GRCh37	5	45695966	45695966	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.230C>T	p.Pro77Leu	p.P77L	ENST00000303230	1/8	30	19	10	32	32	0	HCN1,missense_variant,p.Pro77Leu,ENST00000303230,;	A	ENSG00000164588	ENST00000303230	Transcript	missense_variant	288	230	77	P/L	cCg/cTg	COSM1311172	.	.	-1	HCN1	HGNC	4845	protein_coding	YES	CCDS3952.1	ENSP00000307342	HCN1_HUMAN	.	UPI00001AED69	.	tolerated_low_confidence(0.23)	benign(0.062)	1/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10217:SF373,hmmpanther:PTHR10217	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCGCCGGCTCC	.	4	BLCA
DIMT1	0	.	GRCh37	5	61688040	61688040	+	Silent	SNP	G	G	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.750C>G	p.%3D	p.L250L	ENST00000199320	10/12	142	104	38	46	46	0	DIMT1,synonymous_variant,p.%3D,ENST00000199320,;DIMT1,synonymous_variant,p.%3D,ENST00000506390,;KIF2A,intron_variant,,ENST00000509663,;DIMT1,3_prime_UTR_variant,,ENST00000514911,;DIMT1,downstream_gene_variant,,ENST00000509182,;DIMT1,upstream_gene_variant,,ENST00000514605,;	C	ENSG00000086189	ENST00000199320	Transcript	synonymous_variant	911	750	250	L	ctC/ctG	COSM1311260	.	.	-1	DIMT1	HGNC	30217	protein_coding	YES	CCDS3981.1	ENSP00000199320	DIM1_HUMAN	B4DRY2_HUMAN	UPI00001293E2	.	.	.	10/12	.	PROSITE_profiles:PS51689,hmmpanther:PTHR11727,TIGRFAM_domain:TIGR00755,Pfam_domain:PF00398,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TCCAAGAGTTG	.	4	BLCA
GPR6	0	.	GRCh37	6	110300832	110300832	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.517G>A	p.Ala173Thr	p.A173T	ENST00000275169	1/1	109	61	47	91	91	0	GPR6,missense_variant,p.Ala188Thr,ENST00000414000,;GPR6,missense_variant,p.Ala173Thr,ENST00000275169,;	A	ENSG00000146360	ENST00000275169	Transcript	missense_variant	535	517	173	A/T	Gcg/Acg	COSM1311459	.	.	1	GPR6	HGNC	4515	protein_coding	YES	CCDS5079.1	ENSP00000275169	GPR6_HUMAN	F1DAM6_HUMAN,E7EP76_HUMAN	UPI000000DA4A	.	deleterious(0.01)	probably_damaging(0.995)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF19,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00644	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAACGCGCTC	.	5	BLCA
HIVEP2	0	.	GRCh37	6	143086067	143086067	+	Missense_Mutation	SNP	C	C	T	rs750329426	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5387G>A	p.Arg1796Gln	p.R1796Q	ENST00000367603	7/10	135	82	53	57	57	0	HIVEP2,missense_variant,p.Arg1796Gln,ENST00000367603,;HIVEP2,missense_variant,p.Arg1796Gln,ENST00000012134,;HIVEP2,missense_variant,p.Arg1796Gln,ENST00000367604,;	T	ENSG00000010818	ENST00000367603	Transcript	missense_variant	6130	5387	1796	R/Q	cGg/cAg	rs750329426,COSM1311618	.	.	-1	HIVEP2	HGNC	4921	protein_coding	YES	CCDS43510.1	ENSP00000356575	ZEP2_HUMAN	B4DKE9_HUMAN	UPI00004708DD	.	deleterious(0)	probably_damaging(0.996)	7/10	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF53	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCCCGGCCA	byFrequency	5	BLCA
MUC17	0	.	GRCh37	7	100680145	100680145	+	Silent	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5448C>T	p.%3D	p.S1816S	ENST00000306151	3/13	365	227	138	211	211	0	MUC17,synonymous_variant,p.%3D,ENST00000306151,;MUC17,synonymous_variant,p.%3D,ENST00000379439,;	T	ENSG00000169876	ENST00000306151	Transcript	synonymous_variant	5512	5448	1816	S	agC/agT	COSM1312518	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCAGCCACAC	.	5	BLCA
LRRC17	0	.	GRCh37	7	102582734	102582734	+	Intron	SNP	C	C	T	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929-1923C>T	.	.	ENST00000339431	.	165	123	42	81	81	0	LRRC17,splice_region_variant,,ENST00000249377,;LRRC17,intron_variant,,ENST00000339431,;FBXL13,intron_variant,,ENST00000379306,;FBXL13,intron_variant,,ENST00000393772,;FBXL13,intron_variant,,ENST00000456695,;FBXL13,intron_variant,,ENST00000313221,;FBXL13,intron_variant,,ENST00000455112,;FBXL13,intron_variant,,ENST00000379305,;FBXL13,intron_variant,,ENST00000436908,;FBXL13,intron_variant,,ENST00000379308,;LRRC17,splice_region_variant,,ENST00000485478,;FBXL13,intron_variant,,ENST00000477915,;FBXL13,intron_variant,,ENST00000448002,;	T	ENSG00000128606	ENST00000339431	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	LRRC17	HGNC	16895	protein_coding	YES	CCDS34721.1	ENSP00000344242	LRC17_HUMAN	C9JT74_HUMAN	UPI00000719CD	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCAGGGT	.	4	BLCA
PHF14	0	.	GRCh37	7	11076172	11076172	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1730G>A	p.Arg577His	p.R577H	ENST00000403050	9/17	196	179	16	46	46	0	PHF14,missense_variant,p.Arg292His,ENST00000445996,;PHF14,missense_variant,p.Arg577His,ENST00000403050,;PHF14,3_prime_UTR_variant,,ENST00000521747,;PHF14,3_prime_UTR_variant,,ENST00000423760,;PHF14,non_coding_transcript_exon_variant,,ENST00000497851,;PHF14,non_coding_transcript_exon_variant,,ENST00000490957,;	A	ENSG00000106443	ENST00000403050	Transcript	missense_variant	2182	1730	577	R/H	cGt/cAt	COSM1312575,COSM3781243	.	.	1	PHF14	HGNC	22203	protein_coding	YES	CCDS47542.1	ENSP00000385795	PHF14_HUMAN	.	UPI000020EB41	.	deleterious(0)	probably_damaging(0.996)	9/17	.	hmmpanther:PTHR13793:SF10,hmmpanther:PTHR13793	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TATTCGTAAAC	.	3	BLCA
CFTR	0	.	GRCh37	7	117254746	117254746	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3447C>A	p.%3D	p.S1149S	ENST00000003084	21/27	63	28	35	34	34	0	CFTR,synonymous_variant,p.%3D,ENST00000426809,;CFTR,synonymous_variant,p.%3D,ENST00000454343,;CFTR,synonymous_variant,p.%3D,ENST00000003084,;CFTR,synonymous_variant,p.%3D,ENST00000468795,;AC000111.6,intron_variant,,ENST00000456270,;	A	ENSG00000001626	ENST00000003084	Transcript	synonymous_variant	3579	3447	1149	S	tcC/tcA	COSM1312597	.	.	1	CFTR	HGNC	1884	protein_coding	YES	CCDS5773.1	ENSP00000003084	CFTR_HUMAN	Q9UML7_HUMAN,Q9UJ19_HUMAN,Q99989_HUMAN,Q6KEJ7_HUMAN,Q6KEJ4_HUMAN,Q6KEJ1_HUMAN,Q6KEI8_HUMAN,Q6KEI7_HUMAN,Q6KEI2_HUMAN,Q6KEH8_HUMAN,Q6KEH6_HUMAN,Q6KEH3_HUMAN,Q6KEG9_HUMAN,Q6KEG6_HUMAN,Q6KEG3_HUMAN,Q6KEF9_HUMAN,Q6KEF5_HUMAN,Q6KEE7_HUMAN,Q6KEE3_HUMAN,Q6KED8_HUMAN,Q6KED3_HUMAN,Q6KEC8_HUMAN,Q6KEC3_HUMAN,Q6KEB8_HUMAN,Q6KEB2_HUMAN,Q6KEA5_HUMAN,Q6KEA0_HUMAN,Q6KE95_HUMAN,Q5I6N7_HUMAN,Q5I6N6_HUMAN,Q5I6N5_HUMAN,Q5I6N4_HUMAN,Q5I6F9_HUMAN,C9J6L5_HUMAN,A4L9V0_HUMAN	UPI000013C4D4	.	.	.	21/27	.	PROSITE_profiles:PS50929,hmmpanther:PTHR24223:SF19,hmmpanther:PTHR24223,TIGRFAM_domain:TIGR01271,Gene3D:2hydA01,Superfamily_domains:SSF90123,Prints_domain:PR01851	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTCCAGCAT	.	5	BLCA
KMT2C	0	.	GRCh37	7	151900066	151900066	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4045C>T	p.Arg1349Ter	p.R1349*	ENST00000262189	26/59	22	7	15	11	11	0	KMT2C,stop_gained,p.Arg1349Ter,ENST00000355193,;KMT2C,stop_gained,p.Arg1349Ter,ENST00000262189,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	4264	4045	1349	R/*	Cga/Tga	COSM1312879,COSM1312878	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	26/59	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTCGGTATC	.	5	BLCA
HERPUD2	0	.	GRCh37	7	35709832	35709832	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.332G>A	p.Ser111Asn	p.S111N	ENST00000396081	3/8	84	44	39	38	38	0	HERPUD2,missense_variant,p.Ser111Asn,ENST00000311350,;HERPUD2,missense_variant,p.Ser111Asn,ENST00000396081,;HERPUD2,missense_variant,p.Ser85Asn,ENST00000413517,;HERPUD2,intron_variant,,ENST00000427455,;HERPUD2,intron_variant,,ENST00000438224,;HERPUD2,upstream_gene_variant,,ENST00000426180,;	T	ENSG00000122557	ENST00000396081	Transcript	missense_variant	1137	332	111	S/N	aGc/aAc	COSM1313059	.	.	-1	HERPUD2	HGNC	21915	protein_coding	YES	CCDS5446.1	ENSP00000379390	HERP2_HUMAN	.	UPI000013F159	.	tolerated(0.11)	benign(0.002)	3/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12943:SF5,hmmpanther:PTHR12943	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A108T|c.322G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTGCTGCTG	.	5	BLCA
ABCB4	0	.	GRCh37	7	87031442	87031442	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3831C>T	p.%3D	p.V1277V	ENST00000265723	28/28	148	94	54	94	94	0	ABCB4,synonymous_variant,p.%3D,ENST00000453593,;ABCB4,synonymous_variant,p.%3D,ENST00000359206,;ABCB4,synonymous_variant,p.%3D,ENST00000265723,;ABCB4,synonymous_variant,p.%3D,ENST00000358400,;ABCB4,synonymous_variant,p.%3D,ENST00000545634,;ABCB4,splice_region_variant,,ENST00000440025,;CROT,downstream_gene_variant,,ENST00000442291,;CROT,downstream_gene_variant,,ENST00000419147,;CROT,downstream_gene_variant,,ENST00000331536,;ABCB4,downstream_gene_variant,,ENST00000467983,;ABCB4,downstream_gene_variant,,ENST00000467079,;	A	ENSG00000005471	ENST00000265723	Transcript	synonymous_variant	3943	3831	1277	V	gtC/gtT	COSM1313357	.	.	-1	ABCB4	HGNC	45	protein_coding	YES	CCDS5606.1	ENSP00000265723	MDR3_HUMAN	Q75MQ5_HUMAN,I7D7J8_HUMAN,I7CY13_HUMAN,I7CAJ8_HUMAN,E7EQI1_HUMAN,A8HT68_HUMAN,A7J1S3_HUMAN,A7J1S1_HUMAN,A7J1Q4_HUMAN	UPI000013D66B	.	.	.	28/28	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24221:SF172,hmmpanther:PTHR24221,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTGACCAT	.	5	BLCA
DYNC1I1	0	.	GRCh37	7	95499296	95499296	+	Missense_Mutation	SNP	C	C	T	rs369627655	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527C>T	p.Thr176Met	p.T176M	ENST00000324972	6/17	36	16	20	14	14	0	DYNC1I1,missense_variant,p.Thr139Met,ENST00000359388,;DYNC1I1,missense_variant,p.Thr159Met,ENST00000457059,;DYNC1I1,missense_variant,p.Thr156Met,ENST00000437599,;DYNC1I1,missense_variant,p.Thr159Met,ENST00000447467,;DYNC1I1,missense_variant,p.Thr139Met,ENST00000537881,;DYNC1I1,missense_variant,p.Thr176Met,ENST00000324972,;DYNC1I1,non_coding_transcript_exon_variant,,ENST00000519371,;	T	ENSG00000158560	ENST00000324972	Transcript	missense_variant	720	527	176	T/M	aCg/aTg	rs369627655,COSM1313450	.	.	1	DYNC1I1	HGNC	2963	protein_coding	YES	CCDS5644.1	ENSP00000320130	DC1I1_HUMAN	Q75MI9_HUMAN,Q75LS9_HUMAN,A4D1I7_HUMAN	UPI0000129A01	.	tolerated(0.19)	possibly_damaging(0.72)	6/17	.	hmmpanther:PTHR12442:SF34,hmmpanther:PTHR12442	T:0.0004	T:0	T:0.0014	.	T:0.001	T:0	T:0	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGCCACGCATC	byFrequency|byCluster|by1000G	4	BLCA
MCM7	0	.	GRCh37	7	99693412	99693412	+	Missense_Mutation	SNP	C	C	T	rs762150483	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1580G>A	p.Arg527Gln	p.R527Q	ENST00000303887	11/15	273	198	74	174	174	0	MCM7,missense_variant,p.Arg351Gln,ENST00000354230,;MCM7,missense_variant,p.Arg527Gln,ENST00000303887,;MCM7,intron_variant,,ENST00000343023,;MCM7,downstream_gene_variant,,ENST00000425308,;COPS6,downstream_gene_variant,,ENST00000418625,;COPS6,downstream_gene_variant,,ENST00000303904,;MIR93,upstream_gene_variant,,ENST00000385024,;MIR25,upstream_gene_variant,,ENST00000384816,;MIR106B,upstream_gene_variant,,ENST00000385301,;MCM7,3_prime_UTR_variant,,ENST00000491245,;MCM7,non_coding_transcript_exon_variant,,ENST00000485286,;MCM7,non_coding_transcript_exon_variant,,ENST00000489841,;MCM7,upstream_gene_variant,,ENST00000493352,;MCM7,downstream_gene_variant,,ENST00000467516,;COPS6,downstream_gene_variant,,ENST00000474823,;MCM7,downstream_gene_variant,,ENST00000465738,;COPS6,downstream_gene_variant,,ENST00000426712,;MCM7,downstream_gene_variant,,ENST00000463722,;MCM7,downstream_gene_variant,,ENST00000477372,;COPS6,downstream_gene_variant,,ENST00000468499,;MCM7,downstream_gene_variant,,ENST00000465688,;COPS6,downstream_gene_variant,,ENST00000483891,;	T	ENSG00000166508	ENST00000303887	Transcript	missense_variant	2226	1580	527	R/Q	cGa/cAa	rs762150483,COSM1313504,COSM1313503	.	.	-1	MCM7	HGNC	6950	protein_coding	YES	CCDS5683.1	ENSP00000307288	MCM7_HUMAN	Q9H4N9_HUMAN,C9J8M6_HUMAN	UPI000012ED9E	.	deleterious(0.05)	benign(0.073)	11/15	.	PROSITE_profiles:PS50051,hmmpanther:PTHR11630,hmmpanther:PTHR11630:SF26,Pfam_domain:PF00493,SMART_domains:SM00350,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCGGTCG	byFrequency	5	BLCA
DENND3	0	.	GRCh37	8	142146846	142146846	+	Missense_Mutation	SNP	C	C	T	rs544008138	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.101C>T	p.Pro34Leu	p.P34L	ENST00000262585	2/23	21	9	12	9	9	0	DENND3,missense_variant,p.Pro114Leu,ENST00000519811,;DENND3,missense_variant,p.Pro34Leu,ENST00000424248,;DENND3,missense_variant,p.Pro114Leu,ENST00000518347,;DENND3,missense_variant,p.Pro34Leu,ENST00000262585,;DENND3,missense_variant,p.Pro91Leu,ENST00000518668,;DENND3,missense_variant,p.Pro114Leu,ENST00000523058,;DENND3,missense_variant,p.Pro114Leu,ENST00000520986,;DENND3,missense_variant,p.Pro47Leu,ENST00000519291,;DENND3,upstream_gene_variant,,ENST00000518249,;DENND3,3_prime_UTR_variant,,ENST00000518198,;	T	ENSG00000105339	ENST00000262585	Transcript	missense_variant	379	101	34	P/L	cCg/cTg	rs544008138,COSM1313753	.	.	1	DENND3	HGNC	29134	protein_coding	YES	CCDS34947.1	ENSP00000262585	DEND3_HUMAN	B3KRG7_HUMAN	UPI00003CEFBA	.	tolerated(0.07)	possibly_damaging(0.449)	2/23	.	hmmpanther:PTHR12296,hmmpanther:PTHR12296:SF3,PROSITE_profiles:PS50946	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTCCCGGGCG	by1000G	5	BLCA
PSCA	0	.	GRCh37	8	143763436	143763436	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231C>A	p.Cys77Ter	p.C77*	ENST00000301258	3/3	95	73	21	71	71	0	PSCA,stop_gained,p.Cys77Ter,ENST00000301258,;PSCA,downstream_gene_variant,,ENST00000513264,;PSCA,non_coding_transcript_exon_variant,,ENST00000510969,;JRK,upstream_gene_variant,,ENST00000585503,;JRK,upstream_gene_variant,,ENST00000591357,;JRK,upstream_gene_variant,,ENST00000587499,;JRK,upstream_gene_variant,,ENST00000591180,;PSCA,downstream_gene_variant,,ENST00000505305,;JRK,upstream_gene_variant,,ENST00000587883,;	A	ENSG00000167653	ENST00000301258	Transcript	stop_gained	314	231	77	C/*	tgC/tgA	COSM1313767	.	.	1	PSCA	HGNC	9500	protein_coding	YES	CCDS47925.2	ENSP00000301258	PSCA_HUMAN	D3DWI6_HUMAN	UPI000015B119	.	.	.	3/3	.	hmmpanther:PTHR16983:SF1,hmmpanther:PTHR16983,Pfam_domain:PF00021,Gene3D:2.10.60.10,SMART_domains:SM00134,Superfamily_domains:SSF57302	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGTGCTGTGA	.	5	BLCA
CYP11B1	0	.	GRCh37	8	143960498	143960498	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345C>A	p.%3D	p.P115P	ENST00000292427	2/9	141	132	8	72	72	0	CYP11B1,synonymous_variant,p.%3D,ENST00000517471,;CYP11B1,synonymous_variant,p.%3D,ENST00000292427,;CYP11B1,synonymous_variant,p.%3D,ENST00000377675,;GML,intron_variant,,ENST00000522728,;CYP11B1,upstream_gene_variant,,ENST00000519285,;CYP11B1,non_coding_transcript_exon_variant,,ENST00000314111,;	T	ENSG00000160882	ENST00000292427	Transcript	synonymous_variant	378	345	115	P	ccC/ccA	COSM1313768,COSM3645961	.	.	-1	CYP11B1	HGNC	2591	protein_coding	YES	CCDS6392.1	ENSP00000292427	C11B1_HUMAN	Q8TE40_HUMAN,Q8TE38_HUMAN	UPI000013E0BA	.	.	.	2/9	.	hmmpanther:PTHR24279:SF46,hmmpanther:PTHR24279,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ACCCAGGGCTC	.	2	BLCA
GLI4	0	.	GRCh37	8	144358777	144358777	+	Missense_Mutation	SNP	G	G	A	rs147593320	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934G>A	p.Glu312Lys	p.E312K	ENST00000340042	4/4	34	24	10	30	30	0	GLI4,missense_variant,p.Glu312Lys,ENST00000340042,;GLI4,missense_variant,p.Glu312Lys,ENST00000523522,;GLI4,downstream_gene_variant,,ENST00000521682,;GLI4,downstream_gene_variant,,ENST00000517530,;GLI4,downstream_gene_variant,,ENST00000344692,;ZFP41,downstream_gene_variant,,ENST00000522452,;GLI4,downstream_gene_variant,,ENST00000517468,;GLI4,downstream_gene_variant,,ENST00000520021,;RP13-582O9.5,downstream_gene_variant,,ENST00000519852,;RP13-582O9.5,downstream_gene_variant,,ENST00000523031,;RP13-582O9.5,downstream_gene_variant,,ENST00000524335,;RP13-582O9.5,downstream_gene_variant,,ENST00000518073,;RP13-582O9.5,downstream_gene_variant,,ENST00000517411,;RP13-582O9.5,downstream_gene_variant,,ENST00000521207,;GLI4,non_coding_transcript_exon_variant,,ENST00000523812,;GLI4,downstream_gene_variant,,ENST00000522479,;GLI4,downstream_gene_variant,,ENST00000519876,;GLI4,downstream_gene_variant,,ENST00000522033,;	A	ENSG00000250571	ENST00000340042	Transcript	missense_variant	1019	934	312	E/K	Gag/Aag	rs147593320,COSM3669853,COSM1313773	.	.	1	GLI4	HGNC	4320	protein_coding	YES	CCDS6398.1	ENSP00000345024	GLI4_HUMAN	.	UPI0000070432	.	tolerated(0.12)	probably_damaging(0.999)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF122,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TCATCGAGCAC	byCluster	4	BLCA
NRBP2	0	.	GRCh37	8	144921077	144921077	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.722C>T	p.Ser241Phe	p.S241F	ENST00000442628	9/18	56	48	8	28	28	0	NRBP2,missense_variant,p.Ser193Phe,ENST00000530347,;NRBP2,missense_variant,p.Ser241Phe,ENST00000442628,;NRBP2,5_prime_UTR_variant,,ENST00000327830,;NRBP2,upstream_gene_variant,,ENST00000530123,;RP11-299M14.2,upstream_gene_variant,,ENST00000534006,;NRBP2,non_coding_transcript_exon_variant,,ENST00000533846,;NRBP2,non_coding_transcript_exon_variant,,ENST00000529747,;NRBP2,non_coding_transcript_exon_variant,,ENST00000532940,;NRBP2,non_coding_transcript_exon_variant,,ENST00000533093,;NRBP2,upstream_gene_variant,,ENST00000527545,;NRBP2,upstream_gene_variant,,ENST00000531729,;NRBP2,upstream_gene_variant,,ENST00000423469,;	A	ENSG00000185189	ENST00000442628	Transcript	missense_variant	862	722	241	S/F	tCc/tTc	COSM1313805	.	.	-1	NRBP2	HGNC	19339	protein_coding	YES	CCDS34959.2	ENSP00000414055	NRBP2_HUMAN	E9PR11_HUMAN,D3DWK9_HUMAN	UPI00017A7042	.	deleterious(0)	probably_damaging(1)	9/18	.	Superfamily_domains:SSF56112,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF53,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAAGGAGAAG	.	4	BLCA
PLEC	0	.	GRCh37	8	144993567	144993567	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10833C>T	p.%3D	p.I3611I	ENST00000322810	32/32	181	173	7	94	94	0	PLEC,synonymous_variant,p.%3D,ENST00000322810,;PLEC,synonymous_variant,p.%3D,ENST00000527096,;PLEC,synonymous_variant,p.%3D,ENST00000345136,;PLEC,synonymous_variant,p.%3D,ENST00000357649,;PLEC,synonymous_variant,p.%3D,ENST00000398774,;PLEC,synonymous_variant,p.%3D,ENST00000354589,;PLEC,synonymous_variant,p.%3D,ENST00000356346,;PLEC,synonymous_variant,p.%3D,ENST00000436759,;PLEC,synonymous_variant,p.%3D,ENST00000354958,;PLEC,downstream_gene_variant,,ENST00000527303,;	A	ENSG00000178209	ENST00000322810	Transcript	synonymous_variant	11003	10833	3611	I	atC/atT	COSM1313823,COSM1313825,COSM1313824	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	.	32/32	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Pfam_domain:PF00681,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TCGATGATGCC	.	2	BLCA
PLEC	0	.	GRCh37	8	144993569	144993569	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10831A>G	p.Ile3611Val	p.I3611V	ENST00000322810	32/32	177	169	8	96	95	0	PLEC,missense_variant,p.Ile3611Val,ENST00000322810,;PLEC,missense_variant,p.Ile3497Val,ENST00000527096,;PLEC,missense_variant,p.Ile3474Val,ENST00000345136,;PLEC,missense_variant,p.Ile3478Val,ENST00000357649,;PLEC,missense_variant,p.Ile3442Val,ENST00000398774,;PLEC,missense_variant,p.Ile3474Val,ENST00000354589,;PLEC,missense_variant,p.Ile3460Val,ENST00000356346,;PLEC,missense_variant,p.Ile3501Val,ENST00000436759,;PLEC,missense_variant,p.Ile3452Val,ENST00000354958,;PLEC,downstream_gene_variant,,ENST00000527303,;	C	ENSG00000178209	ENST00000322810	Transcript	missense_variant	11001	10831	3611	I/V	Atc/Gtc	COSM1313826,COSM1313828,COSM1313827	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	possibly_damaging(0.482)	32/32	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Pfam_domain:PF00681,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GATGATGCCGC	.	2	BLCA
EBF2	0	.	GRCh37	8	25902277	25902277	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99C>T	p.%3D	p.V33V	ENST00000520164	1/16	253	162	91	193	193	0	EBF2,synonymous_variant,p.%3D,ENST00000520164,;EBF2,upstream_gene_variant,,ENST00000408929,;EBF2,non_coding_transcript_exon_variant,,ENST00000517825,;	A	ENSG00000221818	ENST00000520164	Transcript	synonymous_variant	637	99	33	V	gtC/gtT	COSM1313952,COSM1313951	.	.	-1	EBF2	HGNC	19090	protein_coding	YES	CCDS43726.1	ENSP00000430241	COE2_HUMAN	B7Z934_HUMAN,B2RNT0_HUMAN	UPI0000DD7EC9	.	.	.	1/16	.	hmmpanther:PTHR10747	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCCGACATT	.	5	BLCA
RGS20	0	.	GRCh37	8	54791910	54791910	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.258C>A	p.Phe86Leu	p.F86L	ENST00000297313	2/6	472	390	82	151	151	0	RGS20,missense_variant,p.Phe86Leu,ENST00000297313,;RGS20,intron_variant,,ENST00000344277,;RGS20,upstream_gene_variant,,ENST00000276500,;RGS20,upstream_gene_variant,,ENST00000522225,;RP11-1070A24.2,upstream_gene_variant,,ENST00000606037,;RGS20,upstream_gene_variant,,ENST00000523064,;RGS20,upstream_gene_variant,,ENST00000523414,;RGS20,upstream_gene_variant,,ENST00000518286,;RGS20,intron_variant,,ENST00000523280,;RGS20,intron_variant,,ENST00000517659,;	A	ENSG00000147509	ENST00000297313	Transcript	missense_variant	350	258	86	F/L	ttC/ttA	COSM1314108	.	.	1	RGS20	HGNC	14600	protein_coding	YES	CCDS6155.1	ENSP00000297313	RGS20_HUMAN	B3KSW4_HUMAN	UPI000013383C	.	deleterious_low_confidence(0.04)	benign(0.396)	2/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10845:SF154,hmmpanther:PTHR10845	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTCTCA	.	4	BLCA
ALDOB	0	.	GRCh37	9	104189787	104189787	+	Missense_Mutation	SNP	G	G	A	rs778058461	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.517C>T	p.Arg173Cys	p.R173C	ENST00000374855	5/9	68	38	29	80	80	0	ALDOB,missense_variant,p.Arg173Cys,ENST00000374855,;ALDOB,intron_variant,,ENST00000468981,;	A	ENSG00000136872	ENST00000374855	Transcript	missense_variant	642	517	173	R/C	Cgc/Tgc	rs778058461,COSM1314325	.	.	-1	ALDOB	HGNC	417	protein_coding	YES	CCDS6756.1	ENSP00000363988	ALDOB_HUMAN	.	UPI000016A4A9	.	deleterious(0.02)	probably_damaging(1)	5/9	.	Superfamily_domains:SSF51569,Gene3D:3.20.20.70,Pfam_domain:PF00274,hmmpanther:PTHR11627,hmmpanther:PTHR11627:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAGCGAGCCA	byFrequency	5	BLCA
CNTRL	0	.	GRCh37	9	123857265	123857265	+	Missense_Mutation	SNP	C	C	A	rs368285291	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.448C>A	p.Arg150Ser	p.R150S	ENST00000373855	5/44	62	59	3	28	28	0	CNTRL,missense_variant,p.Arg150Ser,ENST00000373855,;CNTRL,missense_variant,p.Arg150Ser,ENST00000373865,;CNTRL,missense_variant,p.Arg150Ser,ENST00000238341,;	A	ENSG00000119397	ENST00000373855	Transcript	missense_variant	708	448	150	R/S	Cgt/Agt	rs368285291,COSM1314414	.	.	1	CNTRL	HGNC	1858	protein_coding	YES	CCDS35118.1	ENSP00000362962	CNTRL_HUMAN	Q5JVD3_HUMAN,Q5JVD6_HUMAN,Q5JVD1_HUMAN	UPI0000211718	.	.	benign(0.347)	5/44	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51450,hmmpanther:PTHR18877,hmmpanther:PTHR18877:SF1,Pfam_domain:PF14580,Gene3D:3.80.10.10,SMART_domains:SM00369,SMART_domains:SM00365,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATTACGTGAA	byCluster	2	BLCA
ENTPD8	0	.	GRCh37	9	140329491	140329491	+	Missense_Mutation	SNP	C	C	T	rs746981536	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1363G>A	p.Asp455Asn	p.D455N	ENST00000371506	10/10	60	44	16	73	73	0	ENTPD8,missense_variant,p.Asp455Asn,ENST00000371506,;ENTPD8,missense_variant,p.Asp418Asn,ENST00000344119,;ENTPD8,missense_variant,p.Asp455Asn,ENST00000472938,;NOXA1,downstream_gene_variant,,ENST00000341349,;ENTPD8,downstream_gene_variant,,ENST00000493135,;NOXA1,downstream_gene_variant,,ENST00000392815,;ENTPD8,non_coding_transcript_exon_variant,,ENST00000461823,;	T	ENSG00000188833	ENST00000371506	Transcript	missense_variant	1547	1363	455	D/N	Gat/Aat	rs746981536,COSM1314672,COSM1314671	.	.	-1	ENTPD8	HGNC	24860	protein_coding	YES	CCDS43913.1	ENSP00000360561	ENTP8_HUMAN	.	UPI0000D6195D	.	deleterious(0)	possibly_damaging(0.471)	10/10	.	hmmpanther:PTHR11782:SF31,hmmpanther:PTHR11782	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCATCGGCCG	byFrequency	5	BLCA
CACNA1B	0	.	GRCh37	9	140772647	140772647	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262G>A	p.Ala88Thr	p.A88T	ENST00000371372	1/47	51	31	19	61	61	0	CACNA1B,missense_variant,p.Ala88Thr,ENST00000371355,;CACNA1B,missense_variant,p.Ala88Thr,ENST00000371357,;CACNA1B,missense_variant,p.Ala88Thr,ENST00000371363,;CACNA1B,missense_variant,p.Ala88Thr,ENST00000277551,;CACNA1B,missense_variant,p.Ala88Thr,ENST00000371372,;CACNA1B,5_prime_UTR_variant,,ENST00000277549,;RP11-188C12.3,intron_variant,,ENST00000371390,;RP11-188C12.3,upstream_gene_variant,,ENST00000587008,;	A	ENSG00000148408	ENST00000371372	Transcript	missense_variant	407	262	88	A/T	Gcg/Acg	COSM1314683	.	.	1	CACNA1B	HGNC	1389	protein_coding	YES	CCDS59522.1	ENSP00000360423	CAC1B_HUMAN	Q9HBI3_HUMAN,Q9HBH4_HUMAN,Q9HBG3_HUMAN,Q9HBG2_HUMAN,Q9HAT5_HUMAN,Q9HAT4_HUMAN	UPI0000127267	.	deleterious(0.03)	benign(0.068)	1/47	.	Gene3D:1.20.120.350,hmmpanther:PTHR10037:SF161,hmmpanther:PTHR10037	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATACGCGAAG	.	5	BLCA
EQTN	0	.	GRCh37	9	27286302	27286302	+	Silent	SNP	G	G	T	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.540C>A	p.%3D	p.I180I	ENST00000380032	7/8	16	12	4	8	8	0	EQTN,synonymous_variant,p.%3D,ENST00000380032,;EQTN,synonymous_variant,p.%3D,ENST00000537675,;LINC00032,upstream_gene_variant,,ENST00000425633,;	T	ENSG00000120160	ENST00000380032	Transcript	synonymous_variant	624	540	180	I	atC/atA	COSM1314744	.	.	-1	EQTN	HGNC	1359	protein_coding	YES	CCDS35001.1	ENSP00000369371	EQTN_HUMAN	.	UPI000013CA7C	.	.	.	7/8	.	Pfam_domain:PF15339	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTTTGATCTT	.	2	BLCA
CA9	0	.	GRCh37	9	35674260	35674260	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304T>G	p.Ser102Ala	p.S102A	ENST00000378357	1/11	15	10	4	11	11	0	CA9,missense_variant,p.Ser102Ala,ENST00000378357,;ARHGEF39,upstream_gene_variant,,ENST00000378395,;RN7SL22P,downstream_gene_variant,,ENST00000471800,;CA9,upstream_gene_variant,,ENST00000493245,;ARHGEF39,5_prime_UTR_variant,,ENST00000490638,;	G	ENSG00000107159	ENST00000378357	Transcript	missense_variant	408	304	102	S/A	Tca/Gca	COSM1314804	.	.	1	CA9	HGNC	1383	protein_coding	YES	CCDS6585.1	ENSP00000367608	CAH9_HUMAN	.	UPI000013E02C	.	tolerated_low_confidence(0.69)	benign(0.001)	1/11	.	hmmpanther:PTHR18952,hmmpanther:PTHR18952:SF18	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAAATCAGAA	.	5	BLCA
FBP1	0	.	GRCh37	9	97365773	97365773	+	Missense_Mutation	SNP	C	C	A	rs568708589	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.907G>T	p.Val303Leu	p.V303L	ENST00000415431	8/8	61	48	13	55	55	0	FBP1,missense_variant,p.Val303Leu,ENST00000415431,;FBP1,missense_variant,p.Val303Leu,ENST00000375326,;FBP1,downstream_gene_variant,,ENST00000414122,;	A	ENSG00000165140	ENST00000415431	Transcript	missense_variant	1137	907	303	V/L	Gtg/Ttg	rs568708589,COSM1315037	.	.	-1	FBP1	HGNC	3606	protein_coding	YES	CCDS6712.1	ENSP00000408025	F16P1_HUMAN	Q5VZC3_HUMAN,A8QID0_HUMAN	UPI0000070F7C	.	tolerated(0.12)	benign(0.022)	8/8	.	Superfamily_domains:SSF56655,PIRSF_domain:PIRSF500210,PIRSF_domain:PIRSF000904,Pfam_domain:PF00316,Gene3D:3.40.190.80,hmmpanther:PTHR11556,hmmpanther:PTHR11556:SF11,HAMAP:MF_01855	G:0.0004	G:0.0015	G:0	.	G:0	G:0	G:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACACGGCCT	byFrequency|by1000G	5	BLCA
SLC25A43	0	.	GRCh37	X	118586947	118586947	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945G>C	p.Gln315His	p.Q315H	ENST00000217909	5/5	200	116	84	69	69	0	SLC25A43,missense_variant,p.Gln315His,ENST00000217909,;SLC25A43,3_prime_UTR_variant,,ENST00000336249,;Y_RNA,upstream_gene_variant,,ENST00000516338,;SLC25A43,non_coding_transcript_exon_variant,,ENST00000488158,;SLC25A43,non_coding_transcript_exon_variant,,ENST00000493093,;SLC25A43,downstream_gene_variant,,ENST00000484058,;	C	ENSG00000077713	ENST00000217909	Transcript	missense_variant	1289	945	315	Q/H	caG/caC	COSM1315141	.	.	1	SLC25A43	HGNC	30557	protein_coding	YES	CCDS14577.1	ENSP00000217909	S2543_HUMAN	.	UPI00001AE609	.	deleterious(0)	probably_damaging(0.987)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCAGAGTTT	.	5	BLCA
SEPT6	0	.	GRCh37	X	118786913	118786913	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432T>G	p.His144Gln	p.H144Q	ENST00000343984	4/10	140	83	57	111	111	0	SEPT6,missense_variant,p.His144Gln,ENST00000394610,;SEPT6,missense_variant,p.His86Gln,ENST00000394616,;SEPT6,missense_variant,p.His144Gln,ENST00000489216,;SEPT6,missense_variant,p.His174Gln,ENST00000394617,;SEPT6,missense_variant,p.His144Gln,ENST00000354228,;SEPT6,missense_variant,p.His144Gln,ENST00000343984,;SEPT6,missense_variant,p.His144Gln,ENST00000360156,;SEPT6,missense_variant,p.His144Gln,ENST00000354416,;SEPT6,missense_variant,p.His144Gln,ENST00000460411,;	C	ENSG00000125354	ENST00000343984	Transcript	missense_variant	697	432	144	H/Q	caT/caG	COSM1315144	.	.	-1	SEPT6	HGNC	15848	protein_coding	YES	CCDS14584.1	ENSP00000341524	SEPT6_HUMAN	Q541S4_HUMAN	UPI0000001C54	.	tolerated(0.08)	probably_damaging(0.998)	4/10	.	PROSITE_profiles:PS51719,hmmpanther:PTHR18884:SF55,hmmpanther:PTHR18884,Pfam_domain:PF00735,Gene3D:3.40.50.300,PIRSF_domain:PIRSF006698,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGTCATGGTA	.	5	BLCA
FRMD7	0	.	GRCh37	X	131212674	131212674	+	Missense_Mutation	SNP	C	C	T	rs781339757	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1371G>A	p.Met457Ile	p.M457I	ENST00000298542	12/12	289	210	79	151	151	0	FRMD7,missense_variant,p.Met442Ile,ENST00000464296,;FRMD7,missense_variant,p.Met337Ile,ENST00000370879,;FRMD7,missense_variant,p.Met457Ile,ENST00000298542,;MST4,downstream_gene_variant,,ENST00000394334,;MST4,downstream_gene_variant,,ENST00000496850,;MST4,downstream_gene_variant,,ENST00000481105,;MST4,downstream_gene_variant,,ENST00000394335,;MST4,downstream_gene_variant,,ENST00000354719,;	T	ENSG00000165694	ENST00000298542	Transcript	missense_variant	1547	1371	457	M/I	atG/atA	rs781339757,COSM1315219	.	.	-1	FRMD7	HGNC	8079	protein_coding	YES	CCDS35397.1	ENSP00000298542	FRMD7_HUMAN	.	UPI00001C0AED	.	tolerated(0.27)	benign(0.001)	12/12	.	hmmpanther:PTHR12673:SF66,hmmpanther:PTHR12673	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCATGTG	.	5	BLCA
OFD1	0	.	GRCh37	X	13779316	13779316	+	Silent	SNP	G	G	A	rs369277849	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2373G>A	p.%3D	p.P791P	ENST00000340096	17/23	145	74	71	126	126	0	OFD1,synonymous_variant,p.%3D,ENST00000380567,;OFD1,synonymous_variant,p.%3D,ENST00000340096,;OFD1,synonymous_variant,p.%3D,ENST00000380550,;OFD1,non_coding_transcript_exon_variant,,ENST00000490265,;OFD1,non_coding_transcript_exon_variant,,ENST00000464463,;	A	ENSG00000046651	ENST00000340096	Transcript	synonymous_variant	2700	2373	791	P	ccG/ccA	rs369277849,COSM1315246	.	.	1	OFD1	HGNC	2567	protein_coding	YES	CCDS14157.1	ENSP00000344314	OFD1_HUMAN	E9KL37_HUMAN,A8K2T9_HUMAN,A6NF31_HUMAN	UPI0000130C40	.	.	.	17/23	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCGGAGCA	byFrequency|byCluster	5	BLCA
CCDC120	0	.	GRCh37	X	48924786	48924786	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1032delC	p.Ser345ProfsTer8	p.S345Pfs*8	ENST00000422185	10/11	86	62	24	105	105	0	CCDC120,frameshift_variant,p.Ser345ProfsTer8,ENST00000496529,;CCDC120,frameshift_variant,p.Ser380ProfsTer8,ENST00000603986,;CCDC120,frameshift_variant,p.Ser333ProfsTer8,ENST00000536628,;CCDC120,frameshift_variant,p.Ser345ProfsTer8,ENST00000376396,;CCDC120,frameshift_variant,p.Ser345ProfsTer8,ENST00000597275,;CCDC120,frameshift_variant,p.Ser345ProfsTer8,ENST00000422185,;AF196779.12,downstream_gene_variant,,ENST00000376358,;PRAF2,downstream_gene_variant,,ENST00000376390,;WDR45,downstream_gene_variant,,ENST00000553851,;PRAF2,downstream_gene_variant,,ENST00000376386,;PRAF2,downstream_gene_variant,,ENST00000491199,;CCDC120,3_prime_UTR_variant,,ENST00000603906,;CCDC120,non_coding_transcript_exon_variant,,ENST00000603745,;CCDC120,downstream_gene_variant,,ENST00000482476,;	-	ENSG00000147144	ENST00000422185	Transcript	frameshift_variant	1323	1031	344	A/X	gCc/gc	.	.	.	1	CCDC120	HGNC	28910	protein_coding	YES	.	ENSP00000416445	CC120_HUMAN	.	UPI0001AFF95B	.	.	.	10/11	.	hmmpanther:PTHR16093,hmmpanther:PTHR16093:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACCCTGCCTCCG	.	3	BLCA
EFNB1	0	.	GRCh37	X	68060460	68060460	+	Missense_Mutation	SNP	C	C	T	rs370690590	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1004C>T	p.Pro335Leu	p.P335L	ENST00000204961	5/5	34	17	17	35	35	0	EFNB1,missense_variant,p.Pro335Leu,ENST00000204961,;	T	ENSG00000090776	ENST00000204961	Transcript	missense_variant	1784	1004	335	P/L	cCg/cTg	rs370690590,COSM1315643	.	.	1	EFNB1	HGNC	3226	protein_coding	YES	CCDS14391.1	ENSP00000204961	EFNB1_HUMAN	.	UPI000006222D	.	deleterious(0)	probably_damaging(0.942)	5/5	.	hmmpanther:PTHR11304:SF17,hmmpanther:PTHR11304	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGCCGCCCC	byCluster	5	BLCA
ATP7A	0	.	GRCh37	X	77254160	77254160	+	Missense_Mutation	SNP	C	C	T	rs782603364	.	TCGA-FD-A3N6-01A-11D-A21A-08	TCGA-FD-A3N6-10A-01D-A21A-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1522C>T	p.Arg508Trp	p.R508W	ENST00000341514	5/23	220	150	69	111	111	0	ATP7A,missense_variant,p.Arg508Trp,ENST00000343533,;ATP7A,missense_variant,p.Arg508Trp,ENST00000341514,;ATP7A,intron_variant,,ENST00000350425,;	T	ENSG00000165240	ENST00000341514	Transcript	missense_variant	1677	1522	508	R/W	Cgg/Tgg	rs782603364,COSM1315710,COSM1315709	.	.	1	ATP7A	HGNC	869	protein_coding	YES	CCDS35339.1	ENSP00000345728	ATP7A_HUMAN	.	UPI000013E478	.	deleterious(0)	probably_damaging(1)	5/23	.	Prints_domain:PR00942,Superfamily_domains:SSF55008,Pfam_domain:PF00403,Gene3D:3.30.70.100,TIGRFAM_domain:TIGR00003,hmmpanther:PTHR24093,PROSITE_patterns:PS01047,hmmpanther:PTHR24093:SF211,PROSITE_profiles:PS50846	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAACGGAAT	byFrequency	5	BLCA
AGAP4	0	.	GRCh37	10	46321991	46321991	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1364A>G	p.His455Arg	p.H455R	ENST00000448048	7/7	216	190	25	167	167	0	AGAP4,missense_variant,p.His455Arg,ENST00000448048,;AGAP4,downstream_gene_variant,,ENST00000492347,;AGAP4,downstream_gene_variant,,ENST00000430779,;	C	ENSG00000188234	ENST00000448048	Transcript	missense_variant	1490	1364	455	H/R	cAc/cGc	.	.	.	-1	AGAP4	HGNC	23459	protein_coding	YES	CCDS7215.1	ENSP00000392513	AGAP4_HUMAN	.	UPI000013ED67	.	tolerated(0.4)	benign(0.048)	7/7	.	Prints_domain:PR00405,Superfamily_domains:SSF57863,SMART_domains:SM00105,Pfam_domain:PF01412,hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF213,PROSITE_profiles:PS50115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CACAGTGGGCG	.	3	BLCA
SLC18A3	0	.	GRCh37	10	50819271	50819273	+	In_Frame_Del	DEL	TGT	TGT	-	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	TGT	TGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486_488delGTT	p.Met162_Phe163delinsIle	p.M162_F163delinsI	ENST00000374115	1/1	106	91	15	69	69	0	SLC18A3,inframe_deletion,p.Met162_Phe163delinsIle,ENST00000374115,;CHAT,intron_variant,,ENST00000339797,;CHAT,upstream_gene_variant,,ENST00000395562,;CHAT,upstream_gene_variant,,ENST00000395559,;CHAT,upstream_gene_variant,,ENST00000455728,;CHAT,upstream_gene_variant,,ENST00000337653,;CHAT,upstream_gene_variant,,ENST00000351556,;CHAT,upstream_gene_variant,,ENST00000481336,;CHAT,upstream_gene_variant,,ENST00000460699,;CHAT,upstream_gene_variant,,ENST00000490270,;CHAT,upstream_gene_variant,,ENST00000466590,;	-	ENSG00000187714	ENST00000374115	Transcript	inframe_deletion	925-927	485-487	162-163	MF/I	aTGTtc/atc	.	.	.	1	SLC18A3	HGNC	10936	protein_coding	YES	CCDS7231.1	ENSP00000363229	VACHT_HUMAN	.	UPI00001F98C1	.	.	.	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF103473,Pfam_domain:PF07690,Gene3D:1.20.1250.20,hmmpanther:PTHR24004,hmmpanther:PTHR24004:SF0,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCGTCATGTTCGCC	.	3	BLCA
AGAP7	0	.	GRCh37	10	51465092	51465092	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1364A>G	p.His455Arg	p.H455R	ENST00000374095	7/7	34	27	7	27	27	0	AGAP7,missense_variant,p.His455Arg,ENST00000374095,;	C	ENSG00000204169	ENST00000374095	Transcript	missense_variant	1490	1364	455	H/R	cAc/cGc	.	.	.	-1	AGAP7	HGNC	23465	protein_coding	YES	CCDS41524.1	ENSP00000363208	AGAP7_HUMAN	.	UPI000016167D	.	tolerated(0.39)	benign(0.003)	7/7	.	Prints_domain:PR00405,Superfamily_domains:SSF57863,SMART_domains:SM00105,Pfam_domain:PF01412,hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF213,PROSITE_profiles:PS50115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CACAGTGGGCG	.	2	BLCA
ATM	0	.	GRCh37	11	108119802	108119802	+	Nonsense_Mutation	SNP	C	C	G	rs747563556	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1208C>G	p.Ser403Ter	p.S403*	ENST00000278616	9/63	48	30	17	48	48	0	ATM,stop_gained,p.Ser403Ter,ENST00000278616,;ATM,stop_gained,p.Ser403Ter,ENST00000527805,;ATM,stop_gained,p.Ser403Ter,ENST00000452508,;ATM,downstream_gene_variant,,ENST00000527891,;ATM,upstream_gene_variant,,ENST00000533526,;ATM,upstream_gene_variant,,ENST00000525012,;	G	ENSG00000149311	ENST00000278616	Transcript	stop_gained	1593	1208	403	S/*	tCa/tGa	rs747563556	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	.	.	9/63	.	hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGTCACAGA	.	5	BLCA
ABCC8	0	.	GRCh37	11	17414462	17414462	+	3'UTR	SNP	G	G	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*76C>G	.	.	ENST00000389817	39/39	32	21	11	33	33	0	ABCC8,3_prime_UTR_variant,,ENST00000389817,;ABCC8,3_prime_UTR_variant,,ENST00000302539,;KCNJ11,upstream_gene_variant,,ENST00000528992,;KCNJ11,upstream_gene_variant,,ENST00000526912,;KCNJ11,upstream_gene_variant,,ENST00000528731,;ABCC8,downstream_gene_variant,,ENST00000528374,;KCNJ11,upstream_gene_variant,,ENST00000339994,;ABCC8,3_prime_UTR_variant,,ENST00000531642,;ABCC8,non_coding_transcript_exon_variant,,ENST00000526037,;ABCC8,downstream_gene_variant,,ENST00000525022,;ABCC8,downstream_gene_variant,,ENST00000531137,;ABCC8,downstream_gene_variant,,ENST00000527905,;ABCC8,downstream_gene_variant,,ENST00000526168,;ABCC8,downstream_gene_variant,,ENST00000532220,;ABCC8,downstream_gene_variant,,ENST00000531891,;	C	ENSG00000006071	ENST00000389817	Transcript	3_prime_UTR_variant	4891	.	.	.	.	.	.	.	-1	ABCC8	HGNC	59	protein_coding	YES	CCDS31437.1	ENSP00000374467	ABCC8_HUMAN	.	UPI0000DBEF32	.	.	.	39/39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TACAAGTGATT	.	4	BLCA
OR5AS1	0	.	GRCh37	11	55798563	55798563	+	Silent	SNP	C	C	A	rs371252680	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669C>A	p.%3D	p.I223I	ENST00000313555	1/1	116	98	18	80	80	0	OR5AS1,synonymous_variant,p.%3D,ENST00000313555,;	A	ENSG00000181785	ENST00000313555	Transcript	synonymous_variant	669	669	223	I	atC/atA	rs371252680	.	.	1	OR5AS1	HGNC	15261	protein_coding	YES	CCDS31516.1	ENSP00000324111	O5AS1_HUMAN	.	UPI000004B1FB	.	.	.	1/1	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF13853,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF153,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATCACTGT	byFrequency|byCluster	4	BLCA
OR5T1	0	.	GRCh37	11	56043558	56043558	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.444G>A	p.Met148Ile	p.M148I	ENST00000313033	1/1	150	108	42	127	127	0	OR5T1,missense_variant,p.Met148Ile,ENST00000313033,;	A	ENSG00000181698	ENST00000313033	Transcript	missense_variant	530	444	148	M/I	atG/atA	.	.	.	1	OR5T1	HGNC	14821	protein_coding	YES	CCDS31525.1	ENSP00000323612	OR5T1_HUMAN	.	UPI000004B22E	.	deleterious(0.01)	possibly_damaging(0.45)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24248:SF33,hmmpanther:PTHR24248,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATGTCACC	.	5	BLCA
LETMD1	0	.	GRCh37	12	51449933	51449933	+	Missense_Mutation	SNP	C	C	G	rs772519299	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.706C>G	p.Arg236Gly	p.R236G	ENST00000418425	6/9	50	34	15	49	49	0	LETMD1,missense_variant,p.Arg190Gly,ENST00000551477,;LETMD1,missense_variant,p.Arg236Gly,ENST00000418425,;LETMD1,missense_variant,p.Arg106Gly,ENST00000548251,;LETMD1,missense_variant,p.Arg167Gly,ENST00000550929,;LETMD1,missense_variant,p.Arg223Gly,ENST00000262055,;LETMD1,missense_variant,p.Arg106Gly,ENST00000552739,;LETMD1,missense_variant,p.Arg64Gly,ENST00000550814,;LETMD1,missense_variant,p.Arg122Gly,ENST00000548209,;LETMD1,missense_variant,p.Arg173Gly,ENST00000549340,;LETMD1,3_prime_UTR_variant,,ENST00000380123,;LETMD1,5_prime_UTR_variant,,ENST00000547660,;LETMD1,intron_variant,,ENST00000550442,;LETMD1,intron_variant,,ENST00000547008,;LETMD1,intron_variant,,ENST00000551931,;LETMD1,intron_variant,,ENST00000547256,;LETMD1,downstream_gene_variant,,ENST00000548401,;LETMD1,upstream_gene_variant,,ENST00000553043,;LETMD1,non_coding_transcript_exon_variant,,ENST00000553175,;LETMD1,non_coding_transcript_exon_variant,,ENST00000552430,;LETMD1,intron_variant,,ENST00000547029,;LETMD1,intron_variant,,ENST00000550446,;LETMD1,intron_variant,,ENST00000548516,;LETMD1,upstream_gene_variant,,ENST00000549395,;LETMD1,3_prime_UTR_variant,,ENST00000547318,;LETMD1,non_coding_transcript_exon_variant,,ENST00000550274,;LETMD1,non_coding_transcript_exon_variant,,ENST00000552433,;LETMD1,non_coding_transcript_exon_variant,,ENST00000546814,;LETMD1,intron_variant,,ENST00000550100,;LETMD1,intron_variant,,ENST00000547555,;LETMD1,intron_variant,,ENST00000380135,;LETMD1,intron_variant,,ENST00000550715,;LETMD1,intron_variant,,ENST00000552645,;LETMD1,intron_variant,,ENST00000547877,;LETMD1,intron_variant,,ENST00000549686,;LETMD1,downstream_gene_variant,,ENST00000546992,;LETMD1,downstream_gene_variant,,ENST00000550755,;LETMD1,downstream_gene_variant,,ENST00000551261,;	G	ENSG00000050426	ENST00000418425	Transcript	missense_variant	725	706	236	R/G	Cgt/Ggt	rs772519299	.	.	1	LETMD1	HGNC	24241	protein_coding	YES	CCDS58231.1	ENSP00000389903	LTMD1_HUMAN	F8VR35_HUMAN,F8VR33_HUMAN	UPI00001FC268	.	tolerated(0.46)	benign(0.004)	6/9	.	hmmpanther:PTHR14009:SF10,hmmpanther:PTHR14009,Pfam_domain:PF07766	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACAGCGTGGT	byFrequency	5	BLCA
RASSF3	0	.	GRCh37	12	65088719	65088719	+	3'UTR	SNP	G	G	A	rs765788681	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27G>A	.	.	ENST00000542104	5/5	38	35	3	23	23	0	RASSF3,3_prime_UTR_variant,,ENST00000542104,;RASSF3,3_prime_UTR_variant,,ENST00000336061,;AC025262.1,downstream_gene_variant,,ENST00000594966,;RASSF3,3_prime_UTR_variant,,ENST00000283172,;	A	ENSG00000153179	ENST00000542104	Transcript	3_prime_UTR_variant	864	.	.	.	.	rs765788681	.	.	1	RASSF3	HGNC	14271	protein_coding	YES	CCDS8969.1	ENSP00000443021	RASF3_HUMAN	Q496A9_HUMAN	UPI00000622AE	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCCGGTGCA	.	2	BLCA
LEMD3	0	.	GRCh37	12	65563425	65563425	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49C>T	p.Leu17Phe	p.L17F	ENST00000308330	1/13	12	8	4	11	11	0	LEMD3,missense_variant,p.Leu17Phe,ENST00000308330,;LEMD3,non_coding_transcript_exon_variant,,ENST00000541171,;	T	ENSG00000174106	ENST00000308330	Transcript	missense_variant	75	49	17	L/F	Ctt/Ttt	.	.	.	1	LEMD3	HGNC	28887	protein_coding	YES	CCDS8972.1	ENSP00000308369	MAN1_HUMAN	B4DI45_HUMAN	UPI000012EB75	.	deleterious(0)	probably_damaging(0.995)	1/13	.	PROSITE_profiles:PS50954,hmmpanther:PTHR13428:SF9,hmmpanther:PTHR13428,Gene3D:1.10.720.40,Pfam_domain:PF03020,SMART_domains:SM00540,Superfamily_domains:SSF63451	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAGCTTTTC	.	2	BLCA
ZFC3H1	0	.	GRCh37	12	72057063	72057063	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328T>C	p.Phe110Leu	p.F110L	ENST00000378743	1/35	160	132	27	148	148	0	ZFC3H1,missense_variant,p.Phe110Leu,ENST00000552037,;ZFC3H1,missense_variant,p.Phe110Leu,ENST00000378743,;ZFC3H1,missense_variant,p.Phe110Leu,ENST00000548100,;THAP2,5_prime_UTR_variant,,ENST00000308086,;THAP2,upstream_gene_variant,,ENST00000551488,;THAP2,upstream_gene_variant,,ENST00000547843,;THAP2,upstream_gene_variant,,ENST00000551238,;ZFC3H1,non_coding_transcript_exon_variant,,ENST00000549407,;ZFC3H1,intron_variant,,ENST00000550712,;ZFC3H1,missense_variant,p.Phe110Leu,ENST00000552994,;	G	ENSG00000133858	ENST00000378743	Transcript	missense_variant	687	328	110	F/L	Ttc/Ctc	.	.	.	-1	ZFC3H1	HGNC	28328	protein_coding	YES	CCDS41813.1	ENSP00000368017	ZC3H1_HUMAN	.	UPI00003668E9	.	tolerated(0.47)	benign(0.153)	1/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGAACGGTT	.	5	BLCA
CLEC4E	0	.	GRCh37	12	8688700	8688700	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>T	p.Leu158Phe	p.L158F	ENST00000299663	5/6	50	36	14	50	50	0	CLEC4E,missense_variant,p.Leu113Phe,ENST00000545274,;CLEC4E,missense_variant,p.Leu158Phe,ENST00000299663,;CLEC4E,intron_variant,,ENST00000446457,;CLEC4E,intron_variant,,ENST00000537698,;CLEC4E,3_prime_UTR_variant,,ENST00000450725,;CLEC4E,downstream_gene_variant,,ENST00000446809,;	A	ENSG00000166523	ENST00000299663	Transcript	missense_variant	640	474	158	L/F	ttG/ttT	.	.	.	-1	CLEC4E	HGNC	14555	protein_coding	YES	CCDS8594.1	ENSP00000299663	CLC4E_HUMAN	.	UPI0000037798	.	tolerated(1)	benign(0.007)	5/6	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF217,hmmpanther:PTHR22802,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTCAAAGG	.	5	BLCA
AREL1	0	.	GRCh37	14	75139595	75139595	+	Missense_Mutation	SNP	T	T	C	rs754333648	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1361A>G	p.His454Arg	p.H454R	ENST00000356357	11/20	106	76	29	74	74	0	AREL1,missense_variant,p.His454Arg,ENST00000356357,;AREL1,missense_variant,p.His293Arg,ENST00000556202,;AREL1,downstream_gene_variant,,ENST00000490805,;AREL1,non_coding_transcript_exon_variant,,ENST00000557401,;AREL1,missense_variant,p.His98Arg,ENST00000481010,;AREL1,missense_variant,p.His454Arg,ENST00000555330,;AREL1,non_coding_transcript_exon_variant,,ENST00000469797,;AREL1,non_coding_transcript_exon_variant,,ENST00000556327,;AREL1,downstream_gene_variant,,ENST00000553279,;AREL1,downstream_gene_variant,,ENST00000553411,;	C	ENSG00000119682	ENST00000356357	Transcript	missense_variant	1877	1361	454	H/R	cAt/cGt	rs754333648	.	.	-1	AREL1	HGNC	20363	protein_coding	YES	CCDS41971.1	ENSP00000348714	AREL1_HUMAN	H0YJ67_HUMAN,G3V506_HUMAN,G3V245_HUMAN	UPI0000073D44	.	tolerated(0.06)	benign(0.205)	11/20	.	hmmpanther:PTHR11254:SF284,hmmpanther:PTHR11254,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATATGTACC	byFrequency	5	BLCA
OR4M2	0	.	GRCh37	15	22368913	22368913	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338T>A	p.Phe113Tyr	p.F113Y	ENST00000332663	1/1	299	273	26	220	220	0	OR4M2,missense_variant,p.Phe113Tyr,ENST00000332663,;RP11-69H14.6,non_coding_transcript_exon_variant,,ENST00000560544,;RP11-69H14.6,intron_variant,,ENST00000560969,;RP11-69H14.6,intron_variant,,ENST00000558798,;RP11-69H14.6,intron_variant,,ENST00000559392,;RP11-69H14.6,intron_variant,,ENST00000558896,;RP11-69H14.6,intron_variant,,ENST00000558312,;	A	ENSG00000182974	ENST00000332663	Transcript	missense_variant	436	338	113	F/Y	tTc/tAc	.	.	.	1	OR4M2	HGNC	15373	protein_coding	YES	CCDS32172.1	ENSP00000329467	OR4M2_HUMAN	.	UPI0000046191	.	deleterious(0.01)	possibly_damaging(0.801)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF53,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GATGTTCTTGC	.	3	BLCA
ARPP19	0	.	GRCh37	15	52849339	52849340	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.125_126insT	p.Lys42AsnfsTer20	p.K42Nfs*20	ENST00000566423	3/4	102	85	17	84	84	0	ARPP19,frameshift_variant,p.Lys42AsnfsTer20,ENST00000569281,;ARPP19,frameshift_variant,p.Lys26AsnfsTer20,ENST00000563277,;ARPP19,frameshift_variant,p.Lys26AsnfsTer20,ENST00000567830,;ARPP19,frameshift_variant,p.Lys26AsnfsTer20,ENST00000561650,;ARPP19,frameshift_variant,p.Lys42AsnfsTer20,ENST00000566423,;ARPP19,frameshift_variant,p.Lys42AsnfsTer20,ENST00000567669,;ARPP19,frameshift_variant,p.Lys61AsnfsTer20,ENST00000564163,;ARPP19,frameshift_variant,p.Lys26AsnfsTer20,ENST00000563566,;ARPP19,frameshift_variant,p.Lys42AsnfsTer20,ENST00000249822,;ARPP19,frameshift_variant,p.Lys61AsnfsTer20,ENST00000561971,;ARPP19,frameshift_variant,p.Lys26AsnfsTer20,ENST00000568196,;ARPP19,intron_variant,,ENST00000569723,;ARPP19,upstream_gene_variant,,ENST00000565288,;	A	ENSG00000128989	ENST00000566423	Transcript	frameshift_variant	259-260	125-126	42	K/NX	aag/aaTg	.	.	.	-1	ARPP19	HGNC	16967	protein_coding	YES	CCDS32242.1	ENSP00000455625	ARP19_HUMAN	H3BTD3_HUMAN	UPI000000030A	.	.	.	3/4	.	hmmpanther:PTHR10358,hmmpanther:PTHR10358:SF4,Pfam_domain:PF04667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCAGGCTTTTG	.	3	BLCA
BCKDK	0	.	GRCh37	16	31121102	31121102	+	Missense_Mutation	SNP	G	G	T	rs141282419	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.373G>T	p.Val125Leu	p.V125L	ENST00000394951	5/13	51	46	5	34	34	0	BCKDK,missense_variant,p.Val125Leu,ENST00000287507,;BCKDK,missense_variant,p.Val125Leu,ENST00000394951,;BCKDK,missense_variant,p.Val125Leu,ENST00000484226,;BCKDK,missense_variant,p.Val125Leu,ENST00000394950,;BCKDK,missense_variant,p.Val125Leu,ENST00000219794,;BCKDK,downstream_gene_variant,,ENST00000561755,;BCKDK,downstream_gene_variant,,ENST00000567676,;BCKDK,upstream_gene_variant,,ENST00000567682,;AC135050.1,downstream_gene_variant,,ENST00000517000,;BCKDK,missense_variant,p.Val125Leu,ENST00000567530,;BCKDK,non_coding_transcript_exon_variant,,ENST00000566568,;	T	ENSG00000103507	ENST00000394951	Transcript	missense_variant	996	373	125	V/L	Gtg/Ttg	rs141282419	.	.	1	BCKDK	HGNC	16902	protein_coding	YES	CCDS10705.1	ENSP00000378405	BCKD_HUMAN	H3BQP2_HUMAN,H3BNP3_HUMAN,A8MY43_HUMAN	UPI0000126825	.	deleterious(0.02)	probably_damaging(0.947)	5/13	.	hmmpanther:PTHR11947:SF20,hmmpanther:PTHR11947,Pfam_domain:PF10436,Gene3D:1.20.140.20,Superfamily_domains:SSF69012	.	.	.	.	.	.	.	A:0	A:0.0001	uncertain_significance	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TGCACGTGGTA	byCluster	2	BLCA
ZNF423	0	.	GRCh37	16	49670989	49670989	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2074T>A	p.Tyr692Asn	p.Y692N	ENST00000561648	4/8	76	49	27	59	59	0	ZNF423,missense_variant,p.Tyr692Asn,ENST00000262383,;ZNF423,missense_variant,p.Tyr632Asn,ENST00000563137,;ZNF423,missense_variant,p.Tyr632Asn,ENST00000562520,;ZNF423,missense_variant,p.Tyr692Asn,ENST00000561648,;ZNF423,missense_variant,p.Tyr575Asn,ENST00000567169,;ZNF423,missense_variant,p.Tyr575Asn,ENST00000535559,;ZNF423,missense_variant,p.Tyr632Asn,ENST00000562871,;	T	ENSG00000102935	ENST00000561648	Transcript	missense_variant	2128	2074	692	Y/N	Tat/Aat	.	.	.	-1	ZNF423	HGNC	16762	protein_coding	YES	CCDS32445.1	ENSP00000455426	ZN423_HUMAN	F5H7S1_HUMAN,B3KNG7_HUMAN	UPI0000353ABC	.	deleterious(0)	probably_damaging(0.998)	4/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24385:SF49,hmmpanther:PTHR24385,Gene3D:3.30.40.10,Pfam_domain:PF00096,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACATAGTGGG	.	5	BLCA
PLEKHG4	0	.	GRCh37	16	67319263	67319263	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2266G>T	p.Glu756Ter	p.E756*	ENST00000360461	13/21	107	96	11	91	91	0	PLEKHG4,stop_gained,p.Glu756Ter,ENST00000360461,;PLEKHG4,stop_gained,p.Glu675Ter,ENST00000450733,;PLEKHG4,stop_gained,p.Glu756Ter,ENST00000379344,;PLEKHG4,stop_gained,p.Glu756Ter,ENST00000427155,;KCTD19,downstream_gene_variant,,ENST00000304372,;PLEKHG4,downstream_gene_variant,,ENST00000565773,;KCTD19,downstream_gene_variant,,ENST00000562841,;PLEKHG4,upstream_gene_variant,,ENST00000569875,;PLEKHG4,downstream_gene_variant,,ENST00000562744,;PLEKHG4,3_prime_UTR_variant,,ENST00000563969,;PLEKHG4,intron_variant,,ENST00000393966,;KCTD19,downstream_gene_variant,,ENST00000570049,;KCTD19,downstream_gene_variant,,ENST00000566392,;PLEKHG4,upstream_gene_variant,,ENST00000562289,;PLEKHG4,upstream_gene_variant,,ENST00000567136,;KCTD19,downstream_gene_variant,,ENST00000569333,;	T	ENSG00000196155	ENST00000360461	Transcript	stop_gained	4801	2266	756	E/*	Gag/Tag	.	.	.	1	PLEKHG4	HGNC	24501	protein_coding	YES	CCDS32466.1	ENSP00000353646	PKHG4_HUMAN	H3BSU4_HUMAN,H3BQP9_HUMAN,H3BQE6_HUMAN,H3BPQ5_HUMAN,H3BME5_HUMAN,C5IFI8_HUMAN	UPI000013C774	.	.	.	13/21	.	Superfamily_domains:SSF48065,SMART_domains:SM00325,Gene3D:1.20.900.10,Pfam_domain:PF00621,hmmpanther:PTHR22826:SF110,hmmpanther:PTHR22826,PROSITE_profiles:PS50010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTATGGAGAAC	.	4	BLCA
PRPF8	0	.	GRCh37	17	1583092	1583092	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1100G>T	p.Ser367Ile	p.S367I	ENST00000572621	8/42	129	105	24	127	127	0	PRPF8,missense_variant,p.Ser312Ile,ENST00000577001,;PRPF8,missense_variant,p.Ser367Ile,ENST00000572621,;PRPF8,missense_variant,p.Ser367Ile,ENST00000304992,;PRPF8,downstream_gene_variant,,ENST00000574728,;PRPF8,downstream_gene_variant,,ENST00000571346,;PRPF8,upstream_gene_variant,,ENST00000573716,;PRPF8,upstream_gene_variant,,ENST00000576407,;PRPF8,upstream_gene_variant,,ENST00000576958,;	A	ENSG00000174231	ENST00000572621	Transcript	missense_variant	1366	1100	367	S/I	aGc/aTc	.	.	.	-1	PRPF8	HGNC	17340	protein_coding	YES	CCDS11010.1	ENSP00000460348	PRP8_HUMAN	.	UPI000006F2DD	.	tolerated(0.1)	benign(0.001)	8/42	.	hmmpanther:PTHR11140:SF0,hmmpanther:PTHR11140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGGCTCTGA	.	4	BLCA
MYO18A	0	.	GRCh37	17	27442455	27442455	+	Silent	SNP	C	C	T	rs368144764	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2232G>A	p.%3D	p.P744P	ENST00000527372	13/42	31	27	4	19	19	0	MYO18A,synonymous_variant,p.%3D,ENST00000354329,;MYO18A,synonymous_variant,p.%3D,ENST00000527372,;MYO18A,synonymous_variant,p.%3D,ENST00000533112,;MYO18A,synonymous_variant,p.%3D,ENST00000531253,;MYO18A,3_prime_UTR_variant,,ENST00000530254,;MYO18A,3_prime_UTR_variant,,ENST00000588791,;MYO18A,upstream_gene_variant,,ENST00000533399,;	T	ENSG00000196535	ENST00000527372	Transcript	synonymous_variant	2413	2232	744	P	ccG/ccA	rs368144764	.	.	-1	MYO18A	HGNC	31104	protein_coding	YES	CCDS45642.1	ENSP00000437073	MY18A_HUMAN	.	UPI0000167F32	.	.	.	13/42	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,Pfam_domain:PF00063,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF293,PROSITE_profiles:PS51456	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTTTCGGGCC	byFrequency|byCluster	2	BLCA
MSI2	0	.	GRCh37	17	55752349	55752349	+	Silent	SNP	G	G	C	rs200631438	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807G>C	p.%3D	p.R269R	ENST00000284073	12/14	156	125	31	101	101	0	MSI2,synonymous_variant,p.%3D,ENST00000284073,;MSI2,synonymous_variant,p.%3D,ENST00000442934,;MSI2,synonymous_variant,p.%3D,ENST00000416426,;MSI2,non_coding_transcript_exon_variant,,ENST00000579466,;MSI2,non_coding_transcript_exon_variant,,ENST00000579505,;	C	ENSG00000153944	ENST00000284073	Transcript	synonymous_variant	1016	807	269	R	cgG/cgC	rs200631438	.	.	1	MSI2	HGNC	18585	protein_coding	YES	CCDS11596.1	ENSP00000284073	MSI2H_HUMAN	.	UPI0000070D73	.	.	.	12/14	.	hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCGGCCCGG	.	5	BLCA
MTMR4	0	.	GRCh37	17	56584558	56584558	+	Missense_Mutation	SNP	G	G	A	rs775203610	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.788C>T	p.Pro263Leu	p.P263L	ENST00000323456	9/19	57	44	12	45	45	0	MTMR4,missense_variant,p.Pro263Leu,ENST00000323456,;MTMR4,missense_variant,p.Pro263Leu,ENST00000579925,;MTMR4,downstream_gene_variant,,ENST00000583243,;MTMR4,downstream_gene_variant,,ENST00000583656,;MTMR4,downstream_gene_variant,,ENST00000579921,;MTMR4,downstream_gene_variant,,ENST00000582663,;MTMR4,downstream_gene_variant,,ENST00000582390,;MTMR4,downstream_gene_variant,,ENST00000583966,;MTMR4,downstream_gene_variant,,ENST00000580983,;	A	ENSG00000108389	ENST00000323456	Transcript	missense_variant	913	788	263	P/L	cCg/cTg	rs775203610	.	.	-1	MTMR4	HGNC	7452	protein_coding	YES	CCDS11608.1	ENSP00000325285	MTMR4_HUMAN	J3QRJ2_HUMAN	UPI00002010DE	.	tolerated(0.05)	probably_damaging(0.946)	9/19	.	PROSITE_profiles:PS51339,hmmpanther:PTHR10807:SF64,hmmpanther:PTHR10807,Pfam_domain:PF06602	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCCGGGTCC	byFrequency	5	BLCA
LRRC37A3	0	.	GRCh37	17	62859237	62859237	+	Intron	SNP	A	A	G	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3054-101T>C	.	.	ENST00000584306	.	37	24	13	37	37	0	LRRC37A3,5_prime_UTR_variant,,ENST00000334962,;LRRC37A3,intron_variant,,ENST00000581368,;LRRC37A3,intron_variant,,ENST00000319651,;LRRC37A3,intron_variant,,ENST00000584306,;LRRC37A3,intron_variant,,ENST00000400877,;LRRC37A3,intron_variant,,ENST00000584788,;LRRC37A3,intron_variant,,ENST00000339474,;LRRC37A3,upstream_gene_variant,,ENST00000583510,;LRRC37A3,intron_variant,,ENST00000579305,;	G	ENSG00000176809	ENST00000584306	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	LRRC37A3	HGNC	32427	protein_coding	YES	CCDS32708.1	ENSP00000464535	L37A3_HUMAN	F8W7X0_HUMAN,B4DSF2_HUMAN	UPI00005B2F0A	.	.	.	.	9/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTATCATTGAA	.	4	BLCA
TNRC6C	0	.	GRCh37	17	76089084	76089084	+	Nonsense_Mutation	SNP	C	C	G	rs375979784	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4032C>G	p.Tyr1344Ter	p.Y1344*	ENST00000335749	15/21	21	12	9	29	29	0	TNRC6C,stop_gained,p.Tyr1347Ter,ENST00000301624,;TNRC6C,stop_gained,p.Tyr1344Ter,ENST00000335749,;TNRC6C,stop_gained,p.Tyr1344Ter,ENST00000544502,;TNRC6C,stop_gained,p.Tyr1347Ter,ENST00000541771,;TNRC6C,stop_gained,p.Tyr1347Ter,ENST00000588061,;TNRC6C,stop_gained,p.Tyr1344Ter,ENST00000588847,;TNRC6C,non_coding_transcript_exon_variant,,ENST00000592251,;	G	ENSG00000078687	ENST00000335749	Transcript	stop_gained	4601	4032	1344	Y/*	taC/taG	rs375979784	.	.	1	TNRC6C	HGNC	29318	protein_coding	YES	CCDS45799.1	ENSP00000336783	.	K7ELY5_HUMAN,K7EKN9_HUMAN,G3XAB8_HUMAN	UPI0000EE5F80	.	.	.	15/21	.	hmmpanther:PTHR13020,hmmpanther:PTHR13020:SF9	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGTACGATTT	byFrequency|byCluster	5	BLCA
CXXC1	0	.	GRCh37	18	47809256	47809256	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1804C>T	p.Arg602Cys	p.R602C	ENST00000412036	14/15	46	32	13	41	41	0	CXXC1,missense_variant,p.Arg598Cys,ENST00000285106,;CXXC1,missense_variant,p.Arg602Cys,ENST00000412036,;CXXC1,synonymous_variant,p.%3D,ENST00000589940,;MBD1,upstream_gene_variant,,ENST00000585595,;MBD1,upstream_gene_variant,,ENST00000590208,;CXXC1,downstream_gene_variant,,ENST00000586837,;CXXC1,downstream_gene_variant,,ENST00000589548,;MBD1,upstream_gene_variant,,ENST00000398493,;MBD1,upstream_gene_variant,,ENST00000436910,;MBD1,upstream_gene_variant,,ENST00000353909,;MBD1,upstream_gene_variant,,ENST00000349085,;CXXC1,downstream_gene_variant,,ENST00000591474,;MBD1,upstream_gene_variant,,ENST00000398488,;MBD1,upstream_gene_variant,,ENST00000587605,;MBD1,upstream_gene_variant,,ENST00000588937,;MBD1,upstream_gene_variant,,ENST00000269471,;MBD1,upstream_gene_variant,,ENST00000347968,;MBD1,upstream_gene_variant,,ENST00000269468,;MBD1,upstream_gene_variant,,ENST00000398495,;MBD1,upstream_gene_variant,,ENST00000591535,;MBD1,upstream_gene_variant,,ENST00000339998,;MBD1,upstream_gene_variant,,ENST00000585672,;MBD1,upstream_gene_variant,,ENST00000457839,;MBD1,upstream_gene_variant,,ENST00000382948,;MBD1,upstream_gene_variant,,ENST00000591416,;MBD1,upstream_gene_variant,,ENST00000424334,;CXXC1,downstream_gene_variant,,ENST00000587396,;CXXC1,non_coding_transcript_exon_variant,,ENST00000587170,;CXXC1,non_coding_transcript_exon_variant,,ENST00000590901,;CXXC1,non_coding_transcript_exon_variant,,ENST00000587342,;CXXC1,downstream_gene_variant,,ENST00000586568,;CXXC1,downstream_gene_variant,,ENST00000586365,;MBD1,upstream_gene_variant,,ENST00000589758,;CXXC1,downstream_gene_variant,,ENST00000591190,;CXXC1,downstream_gene_variant,,ENST00000586502,;CXXC1,downstream_gene_variant,,ENST00000586144,;MBD1,upstream_gene_variant,,ENST00000586118,;CXXC1,downstream_gene_variant,,ENST00000590234,;MBD1,upstream_gene_variant,,ENST00000589867,;CXXC1,downstream_gene_variant,,ENST00000592078,;MBD1,upstream_gene_variant,,ENST00000590215,;	A	ENSG00000154832	ENST00000412036	Transcript	missense_variant	1851	1804	602	R/C	Cgt/Tgt	.	.	.	-1	CXXC1	HGNC	24343	protein_coding	YES	CCDS45866.1	ENSP00000390475	CXXC1_HUMAN	K7EJR0_HUMAN	UPI0000169F65	.	deleterious(0)	possibly_damaging(0.489)	14/15	.	hmmpanther:PTHR12321:SF33,hmmpanther:PTHR12321,Pfam_domain:PF12269	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCACGCCGCA	.	5	BLCA
ATP1A3	0	.	GRCh37	19	42474636	42474636	+	Silent	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2361C>T	p.%3D	p.I787I	ENST00000545399	17/23	91	73	18	75	75	0	ATP1A3,synonymous_variant,p.%3D,ENST00000602133,;ATP1A3,synonymous_variant,p.%3D,ENST00000545399,;ATP1A3,synonymous_variant,p.%3D,ENST00000543770,;ATP1A3,synonymous_variant,p.%3D,ENST00000302102,;ATP1A3,synonymous_variant,p.%3D,ENST00000441343,;	A	ENSG00000105409	ENST00000545399	Transcript	synonymous_variant	2515	2361	787	I	atC/atT	.	.	.	-1	ATP1A3	HGNC	801	protein_coding	YES	CCDS58664.1	ENSP00000444688	AT1A3_HUMAN	Q58I21_HUMAN,M0R116_HUMAN,M0QXF2_HUMAN	UPI0001914BDE	.	.	.	17/23	.	Superfamily_domains:0049473,Gene3D:1.20.1110.10,TIGRFAM_domain:TIGR01494,TIGRFAM_domain:TIGR01106,hmmpanther:PTHR24093:SF259,hmmpanther:PTHR24093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCGGGATATT	.	5	BLCA
PLEKHA4	0	.	GRCh37	19	49357058	49357058	+	Missense_Mutation	SNP	G	G	A	rs771437881	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1207C>T	p.Arg403Trp	p.R403W	ENST00000263265	12/20	42	31	10	22	22	0	PLEKHA4,missense_variant,p.Arg58Trp,ENST00000594195,;PLEKHA4,missense_variant,p.Arg378Trp,ENST00000355496,;PLEKHA4,missense_variant,p.Arg403Trp,ENST00000263265,;PLEKHA4,5_prime_UTR_variant,,ENST00000595867,;PLEKHA4,upstream_gene_variant,,ENST00000597406,;	A	ENSG00000105559	ENST00000263265	Transcript	missense_variant	1763	1207	403	R/W	Cgg/Tgg	rs771437881	.	.	-1	PLEKHA4	HGNC	14339	protein_coding	YES	CCDS12737.1	ENSP00000263265	PKHA4_HUMAN	M0R2K5_HUMAN,M0QXJ3_HUMAN	UPI00000721A6	.	deleterious(0.03)	probably_damaging(1)	12/20	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12752	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCCGGGTCA	byFrequency	5	BLCA
KLK13	0	.	GRCh37	19	51560021	51560021	+	Silent	SNP	C	C	T	rs754872494	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657G>A	p.%3D	p.G219G	ENST00000595793	5/5	78	68	10	64	64	0	KLK13,synonymous_variant,p.%3D,ENST00000335422,;KLK13,synonymous_variant,p.%3D,ENST00000595547,;KLK13,synonymous_variant,p.%3D,ENST00000595793,;KLK13,downstream_gene_variant,,ENST00000596955,;CTC-518B2.10,downstream_gene_variant,,ENST00000601280,;KLK13,3_prime_UTR_variant,,ENST00000156476,;KLK13,3_prime_UTR_variant,,ENST00000602090,;KLK13,3_prime_UTR_variant,,ENST00000376799,;KLK13,3_prime_UTR_variant,,ENST00000441527,;KLK13,3_prime_UTR_variant,,ENST00000601975,;	T	ENSG00000167759	ENST00000595793	Transcript	synonymous_variant	700	657	219	G	ggG/ggA	rs754872494	.	.	-1	KLK13	HGNC	6361	protein_coding	YES	CCDS12822.1	ENSP00000470555	KLK13_HUMAN	Q5BQ99_HUMAN	UPI000004CA07	.	.	.	5/5	.	Prints_domain:PR00722,Superfamily_domains:SSF50494,SMART_domains:SM00020,Gene3D:2.40.10.10,Pfam_domain:PF00089,PROSITE_patterns:PS00135,hmmpanther:PTHR24271:SF3,hmmpanther:PTHR24271,PROSITE_profiles:PS50240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCCCCCAGA	.	4	BLCA
SIGLEC10	0	.	GRCh37	19	51919207	51919207	+	Silent	SNP	G	G	A	rs766032908	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.969C>T	p.%3D	p.C323C	ENST00000356298	5/12	152	140	12	103	103	0	SIGLEC10,synonymous_variant,p.%3D,ENST00000436984,;SIGLEC10,synonymous_variant,p.%3D,ENST00000432469,;SIGLEC10,synonymous_variant,p.%3D,ENST00000339313,;SIGLEC10,synonymous_variant,p.%3D,ENST00000353836,;SIGLEC10,synonymous_variant,p.%3D,ENST00000356298,;SIGLEC10,synonymous_variant,p.%3D,ENST00000441969,;SIGLEC10,synonymous_variant,p.%3D,ENST00000439889,;SIGLEC10,synonymous_variant,p.%3D,ENST00000529627,;SIGLEC10,intron_variant,,ENST00000525998,;SIGLEC10,intron_variant,,ENST00000442846,;SIGLEC10,downstream_gene_variant,,ENST00000530476,;CTD-2616J11.2,non_coding_transcript_exon_variant,,ENST00000532688,;CTD-2616J11.2,non_coding_transcript_exon_variant,,ENST00000526996,;CTD-2616J11.3,downstream_gene_variant,,ENST00000532473,;SIGLEC10,non_coding_transcript_exon_variant,,ENST00000357375,;SIGLEC10,downstream_gene_variant,,ENST00000524527,;	A	ENSG00000142512	ENST00000356298	Transcript	synonymous_variant	1086	969	323	C	tgC/tgT	rs766032908	.	.	-1	SIGLEC10	HGNC	15620	protein_coding	YES	CCDS12832.1	ENSP00000348646	SIG10_HUMAN	.	UPI0000047E1A	.	.	.	5/12	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12035:SF13,hmmpanther:PTHR12035,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCGGCAGGT	.	2	BLCA
RPTN	0	.	GRCh37	1	152127465	152127465	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2110T>G	p.Trp704Gly	p.W704G	ENST00000316073	3/3	191	133	57	161	161	0	RPTN,missense_variant,p.Trp704Gly,ENST00000316073,;	C	ENSG00000215853	ENST00000316073	Transcript	missense_variant	2175	2110	704	W/G	Tgg/Ggg	.	.	.	-1	RPTN	HGNC	26809	protein_coding	YES	CCDS41397.1	ENSP00000317895	RPTN_HUMAN	Q8N1M7_HUMAN,Q2M1U7_HUMAN	UPI00002371E2	.	tolerated(0.09)	benign(0.093)	3/3	.	hmmpanther:PTHR22571:SF22,hmmpanther:PTHR22571	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCCAGTGGC	.	5	BLCA
S100A2	0	.	GRCh37	1	153533976	153533976	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233delT	p.Phe78SerfsTer46	p.F78Sfs*46	ENST00000368708	3/3	275	208	67	155	155	0	S100A2,frameshift_variant,p.Phe78SerfsTer46,ENST00000368709,;S100A2,frameshift_variant,p.Phe78SerfsTer46,ENST00000368708,;S100A2,frameshift_variant,p.Phe78SerfsTer46,ENST00000487430,;S100A2,frameshift_variant,p.Phe78SerfsTer46,ENST00000368710,;S100A2,frameshift_variant,p.Phe45SerfsTer46,ENST00000497140,;S100A2,3_prime_UTR_variant,,ENST00000368707,;	-	ENSG00000196754	ENST00000368708	Transcript	frameshift_variant	606	233	78	F/X	tTc/tc	.	.	.	-1	S100A2	HGNC	10492	protein_coding	YES	CCDS1044.1	ENSP00000357697	S10A2_HUMAN	R4GN49_HUMAN	UPI000003417B	.	.	.	3/3	.	PROSITE_profiles:PS50222,hmmpanther:PTHR11639,hmmpanther:PTHR11639:SF59,PROSITE_patterns:PS00303,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCCAGGAAAACA	.	3	BLCA
KIRREL	0	.	GRCh37	1	158047811	158047811	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233C>T	p.Ala78Val	p.A78V	ENST00000359209	3/15	139	122	16	108	108	0	KIRREL,missense_variant,p.Ala17Val,ENST00000360089,;KIRREL,missense_variant,p.Ala78Val,ENST00000368173,;KIRREL,missense_variant,p.Ala78Val,ENST00000359209,;KIRREL,missense_variant,p.Ala78Val,ENST00000392272,;KIRREL,intron_variant,,ENST00000416935,;	T	ENSG00000183853	ENST00000359209	Transcript	missense_variant	300	233	78	A/V	gCa/gTa	.	.	.	1	KIRREL	HGNC	15734	protein_coding	YES	CCDS1172.2	ENSP00000352138	KIRR1_HUMAN	.	UPI0000443FBD	.	tolerated(0.59)	benign(0.005)	3/15	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11640:SF14,hmmpanther:PTHR11640,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCGCAGACG	.	4	BLCA
CD1E	0	.	GRCh37	1	158324409	158324409	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.301T>G	p.Phe101Val	p.F101V	ENST00000368167	2/6	37	33	4	20	20	0	CD1E,missense_variant,p.Phe101Val,ENST00000368165,;CD1E,missense_variant,p.Phe101Val,ENST00000368163,;CD1E,missense_variant,p.Phe99Val,ENST00000434258,;CD1E,missense_variant,p.Phe101Val,ENST00000368161,;CD1E,missense_variant,p.Phe101Val,ENST00000368160,;CD1E,missense_variant,p.Phe101Val,ENST00000368167,;CD1E,missense_variant,p.Phe101Val,ENST00000368156,;CD1E,missense_variant,p.Phe101Val,ENST00000368155,;CD1E,intron_variant,,ENST00000368166,;CD1E,intron_variant,,ENST00000444681,;CD1E,intron_variant,,ENST00000368154,;CD1E,intron_variant,,ENST00000368164,;CD1E,intron_variant,,ENST00000452291,;CD1E,intron_variant,,ENST00000368157,;CD1E,upstream_gene_variant,,ENST00000368162,;CD1E,intron_variant,,ENST00000464822,;	G	ENSG00000158488	ENST00000368167	Transcript	missense_variant	540	301	101	F/V	Ttc/Gtc	COSM4023678,COSM4023679	.	.	1	CD1E	HGNC	1638	protein_coding	YES	CCDS41417.1	ENSP00000357149	CD1E_HUMAN	Q13974_HUMAN	UPI000046F8C2	.	tolerated(0.08)	benign(0.101)	2/6	.	hmmpanther:PTHR16675:SF8,hmmpanther:PTHR16675,Gene3D:3.30.500.10,Superfamily_domains:SSF54452	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATACTTCCAT	.	4	BLCA
EPHA2	0	.	GRCh37	1	16475544	16475544	+	Splice_Site	SNP	T	T	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154-2A>T	.	p.X52_splice	ENST00000358432	.	34	25	9	46	46	0	EPHA2,splice_acceptor_variant,,ENST00000358432,;EPHA2,splice_acceptor_variant,,ENST00000461614,;EPHA2,upstream_gene_variant,,ENST00000480202,;	A	ENSG00000142627	ENST00000358432	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	EPHA2	HGNC	3386	protein_coding	YES	CCDS169.1	ENSP00000351209	EPHA2_HUMAN	Q96HF4_HUMAN,Q8IZL0_HUMAN	UPI00000731AB	.	.	.	.	2/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCACTGTGGG	.	2	BLCA
SMG7	0	.	GRCh37	1	183520046	183520046	+	Silent	SNP	T	T	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3156T>C	p.%3D	p.T1052T	ENST00000507469	21/23	55	45	10	44	44	0	SMG7,synonymous_variant,p.%3D,ENST00000367537,;SMG7,synonymous_variant,p.%3D,ENST00000507469,;SMG7,synonymous_variant,p.%3D,ENST00000347615,;SMG7,synonymous_variant,p.%3D,ENST00000456731,;SMG7,synonymous_variant,p.%3D,ENST00000508461,;SMG7,synonymous_variant,p.%3D,ENST00000515829,;NCF2,downstream_gene_variant,,ENST00000413720,;SMG7,downstream_gene_variant,,ENST00000419169,;NCF2,downstream_gene_variant,,ENST00000367536,;NCF2,downstream_gene_variant,,ENST00000367535,;NCF2,downstream_gene_variant,,ENST00000418089,;SMG7,non_coding_transcript_exon_variant,,ENST00000495321,;SMG7,downstream_gene_variant,,ENST00000493045,;	C	ENSG00000116698	ENST00000507469	Transcript	synonymous_variant	3274	3156	1052	T	acT/acC	.	.	.	1	SMG7	HGNC	16792	protein_coding	YES	CCDS41445.2	ENSP00000425133	SMG7_HUMAN	Q96N31_HUMAN,B1ALB4_HUMAN	UPI0000D6205B	.	.	.	21/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAACTGATAA	.	5	BLCA
HMCN1	0	.	GRCh37	1	186022170	186022170	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6664G>T	p.Gly2222Cys	p.G2222C	ENST00000271588	43/107	39	32	7	38	38	0	HMCN1,missense_variant,p.Gly2222Cys,ENST00000367492,;HMCN1,missense_variant,p.Gly2222Cys,ENST00000271588,;	T	ENSG00000143341	ENST00000271588	Transcript	missense_variant	6893	6664	2222	G/C	Ggt/Tgt	.	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	probably_damaging(1)	43/107	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGTGGTATT	.	5	BLCA
TP53BP2	0	.	GRCh37	1	223989915	223989915	+	Silent	SNP	G	G	A	rs147856912	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1128C>T	p.%3D	p.A376A	ENST00000343537	9/18	78	74	4	64	64	0	TP53BP2,synonymous_variant,p.%3D,ENST00000391878,;TP53BP2,synonymous_variant,p.%3D,ENST00000343537,;TP53BP2,intron_variant,,ENST00000494100,;TP53BP2,upstream_gene_variant,,ENST00000391879,;TP53BP2,non_coding_transcript_exon_variant,,ENST00000489310,;TP53BP2,non_coding_transcript_exon_variant,,ENST00000481128,;TP53BP2,non_coding_transcript_exon_variant,,ENST00000498843,;TP53BP2,downstream_gene_variant,,ENST00000496282,;TP53BP2,downstream_gene_variant,,ENST00000473135,;TP53BP2,non_coding_transcript_exon_variant,,ENST00000490896,;TP53BP2,downstream_gene_variant,,ENST00000464172,;TP53BP2,upstream_gene_variant,,ENST00000483398,;TP53BP2,upstream_gene_variant,,ENST00000464656,;	A	ENSG00000143514	ENST00000343537	Transcript	synonymous_variant	1420	1128	376	A	gcC/gcT	rs147856912	.	.	-1	TP53BP2	HGNC	12000	protein_coding	YES	CCDS44319.1	ENSP00000341957	ASPP2_HUMAN	B7Z2E9_HUMAN,B4DI25_HUMAN,B4DH76_HUMAN	UPI0000D4B5F2	.	.	.	9/18	.	hmmpanther:PTHR24131:SF8,hmmpanther:PTHR24131	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCAGGGCTGG	byCluster	2	BLCA
COG2	0	.	GRCh37	1	230829111	230829111	+	Missense_Mutation	SNP	A	A	G	rs771271930	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2189A>G	p.Lys730Arg	p.K730R	ENST00000366669	18/18	29	24	5	40	40	0	COG2,missense_variant,p.Lys730Arg,ENST00000366669,;COG2,missense_variant,p.Lys614Arg,ENST00000535166,;COG2,missense_variant,p.Lys729Arg,ENST00000366668,;COG2,missense_variant,p.Lys419Arg,ENST00000546013,;COG2,missense_variant,p.Lys671Arg,ENST00000534989,;COG2,downstream_gene_variant,,ENST00000478710,;COG2,downstream_gene_variant,,ENST00000490900,;COG2,downstream_gene_variant,,ENST00000482012,;COG2,3_prime_UTR_variant,,ENST00000468893,;	G	ENSG00000135775	ENST00000366669	Transcript	missense_variant	2304	2189	730	K/R	aAg/aGg	rs771271930	.	.	1	COG2	HGNC	6546	protein_coding	YES	CCDS1584.1	ENSP00000355629	COG2_HUMAN	F5H1E5_HUMAN,B7Z2Y2_HUMAN,B1ALW7_HUMAN	UPI0000127E38	.	tolerated(0.41)	benign(0.012)	18/18	.	hmmpanther:PTHR12961	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCAAGGACC	.	2	BLCA
PCNXL2	0	.	GRCh37	1	233344278	233344278	+	Missense_Mutation	SNP	C	C	T	rs369115693	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2849G>A	p.Arg950Lys	p.R950K	ENST00000258229	13/34	39	29	10	44	44	0	PCNXL2,missense_variant,p.Arg249Lys,ENST00000430153,;PCNXL2,missense_variant,p.Arg119Lys,ENST00000518351,;PCNXL2,missense_variant,p.Arg83Lys,ENST00000488780,;PCNXL2,missense_variant,p.Arg950Lys,ENST00000258229,;PCNXL2,3_prime_UTR_variant,,ENST00000475463,;PCNXL2,3_prime_UTR_variant,,ENST00000517808,;PCNXL2,non_coding_transcript_exon_variant,,ENST00000324142,;PCNXL2,downstream_gene_variant,,ENST00000519530,;	T	ENSG00000135749	ENST00000258229	Transcript	missense_variant	3084	2849	950	R/K	aGg/aAg	rs369115693	.	.	-1	PCNXL2	HGNC	8736	protein_coding	YES	CCDS44335.1	ENSP00000258229	PCX2_HUMAN	B3KNZ5_HUMAN	UPI0000F58F23	.	deleterious(0.03)	benign(0.298)	13/34	.	hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF5	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCCCTAGCT	byFrequency|byCluster	5	BLCA
COA6	0	.	GRCh37	1	234519589	234519589	+	3'UTR	SNP	T	T	A	rs368845256	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*25T>A	.	.	ENST00000366613	3/3	10	6	4	11	11	0	COA6,3_prime_UTR_variant,,ENST00000366612,;COA6,3_prime_UTR_variant,,ENST00000366613,;COA6,3_prime_UTR_variant,,ENST00000366615,;	A	ENSG00000168275	ENST00000366613	Transcript	3_prime_UTR_variant	439	.	.	.	.	rs368845256	.	.	1	COA6	HGNC	18025	protein_coding	YES	CCDS31059.1	ENSP00000355572	COA6_HUMAN	.	UPI000015FF99	.	.	.	3/3	.	.	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGTATTCTTTC	byFrequency|byCluster	3	BLCA
GRIK3	0	.	GRCh37	1	37346238	37346238	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547A>T	p.Thr183Ser	p.T183S	ENST00000373091	3/16	596	519	77	354	354	0	GRIK3,missense_variant,p.Thr183Ser,ENST00000373093,;GRIK3,missense_variant,p.Thr183Ser,ENST00000373091,;	A	ENSG00000163873	ENST00000373091	Transcript	missense_variant	564	547	183	T/S	Aca/Tca	.	.	.	-1	GRIK3	HGNC	4581	protein_coding	YES	CCDS416.1	ENSP00000362183	GRIK3_HUMAN	Q96SC0_HUMAN	UPI000013E311	.	tolerated(0.39)	possibly_damaging(0.841)	3/16	.	Superfamily_domains:SSF53822,Gene3D:3.40.50.2300,Pfam_domain:PF01094,hmmpanther:PTHR18966:SF174,hmmpanther:PTHR18966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTGTACTGT	.	4	BLCA
PABPC4	0	.	GRCh37	1	40041631	40041631	+	5'UTR	SNP	C	C	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8G>T	.	.	ENST00000372858	1/16	32	29	3	13	13	0	PABPC4,5_prime_UTR_variant,,ENST00000372858,;PABPC4,5_prime_UTR_variant,,ENST00000531243,;PABPC4,5_prime_UTR_variant,,ENST00000372857,;PABPC4,5_prime_UTR_variant,,ENST00000372862,;PABPC4,5_prime_UTR_variant,,ENST00000451091,;PABPC4,5_prime_UTR_variant,,ENST00000372856,;PABPC4,upstream_gene_variant,,ENST00000474378,;PABPC4,upstream_gene_variant,,ENST00000421687,;RP11-69E11.8,downstream_gene_variant,,ENST00000415255,;PABPC4,upstream_gene_variant,,ENST00000529216,;PABPC4,upstream_gene_variant,,ENST00000470443,;PABPC4,upstream_gene_variant,,ENST00000525751,;	A	ENSG00000090621	ENST00000372858	Transcript	5_prime_UTR_variant	443	.	.	.	.	.	.	.	-1	PABPC4	HGNC	8557	protein_coding	YES	CCDS44115.1	ENSP00000361949	PABP4_HUMAN	B1ANR1_HUMAN	UPI00002057C5	.	.	.	1/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCCCGCCCCCC	.	3	BLCA
HPCAL4	0	.	GRCh37	1	40149671	40149671	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316G>A	p.Glu106Lys	p.E106K	ENST00000372844	3/4	213	201	12	58	58	0	HPCAL4,missense_variant,p.Glu106Lys,ENST00000372844,;	T	ENSG00000116983	ENST00000372844	Transcript	missense_variant	708	316	106	E/K	Gag/Aag	.	.	.	-1	HPCAL4	HGNC	18212	protein_coding	YES	CCDS441.1	ENSP00000361935	HPCL4_HUMAN	B4DG51_HUMAN	UPI0000073F20	.	tolerated(0.77)	benign(0.146)	3/4	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23055:SF84,hmmpanther:PTHR23055,Gene3D:1.10.238.10,Pfam_domain:PF13499,SMART_domains:SM00054,Superfamily_domains:SSF47473,Prints_domain:PR00450	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCTCAAAGG	.	2	BLCA
CRYZ	0	.	GRCh37	1	75198857	75198857	+	5'UTR	SNP	C	C	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-270G>T	.	.	ENST00000417775	1/10	44	33	10	14	14	0	CRYZ,5_prime_UTR_variant,,ENST00000417775,;TYW3,5_prime_UTR_variant,,ENST00000370867,;TYW3,5_prime_UTR_variant,,ENST00000457880,;TYW3,upstream_gene_variant,,ENST00000483990,;CRYZ,upstream_gene_variant,,ENST00000370871,;CRYZ,upstream_gene_variant,,ENST00000370872,;CRYZ,upstream_gene_variant,,ENST00000370870,;CRYZ,upstream_gene_variant,,ENST00000441120,;TYW3,upstream_gene_variant,,ENST00000421739,;CRYZ,upstream_gene_variant,,ENST00000340866,;TYW3,upstream_gene_variant,,ENST00000479111,;	A	ENSG00000116791	ENST00000417775	Transcript	5_prime_UTR_variant	236	.	.	.	.	.	.	.	-1	CRYZ	HGNC	2419	protein_coding	YES	CCDS665.1	ENSP00000399805	QOR_HUMAN	C9JH92_HUMAN,A6NP24_HUMAN	UPI0000001C81	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTTCAATAT	.	5	BLCA
NOP56	0	.	GRCh37	20	2634888	2634888	+	Intron	SNP	C	C	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209-172C>T	.	.	ENST00000329276	.	70	58	12	63	63	0	NOP56,intron_variant,,ENST00000329276,;NOP56,intron_variant,,ENST00000445139,;IDH3B,downstream_gene_variant,,ENST00000380843,;NOP56,upstream_gene_variant,,ENST00000415272,;IDH3B,downstream_gene_variant,,ENST00000380851,;SNORD110,non_coding_transcript_exon_variant,,ENST00000408189,;SNORD86,upstream_gene_variant,,ENST00000391196,;MIR1292,downstream_gene_variant,,ENST00000408135,;SNORD57,upstream_gene_variant,,ENST00000448188,;SNORD56,upstream_gene_variant,,ENST00000413522,;SNORA51,upstream_gene_variant,,ENST00000606420,;NOP56,non_coding_transcript_exon_variant,,ENST00000496775,;NOP56,non_coding_transcript_exon_variant,,ENST00000494697,;NOP56,intron_variant,,ENST00000460258,;NOP56,intron_variant,,ENST00000469588,;IDH3B,downstream_gene_variant,,ENST00000477689,;IDH3B,downstream_gene_variant,,ENST00000474315,;NOP56,upstream_gene_variant,,ENST00000462630,;NOP56,upstream_gene_variant,,ENST00000480992,;IDH3B,downstream_gene_variant,,ENST00000492240,;NOP56,upstream_gene_variant,,ENST00000490753,;NOP56,upstream_gene_variant,,ENST00000480447,;IDH3B,downstream_gene_variant,,ENST00000488299,;NOP56,upstream_gene_variant,,ENST00000467857,;IDH3B,downstream_gene_variant,,ENST00000466494,;NOP56,upstream_gene_variant,,ENST00000466447,;NOP56,upstream_gene_variant,,ENST00000471023,;NOP56,upstream_gene_variant,,ENST00000492135,;NOP56,upstream_gene_variant,,ENST00000484998,;NOP56,downstream_gene_variant,,ENST00000470143,;NOP56,upstream_gene_variant,,ENST00000467196,;	T	ENSG00000101361	ENST00000329276	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	NOP56	HGNC	15911	protein_coding	YES	CCDS13030.1	ENSP00000370589	NOP56_HUMAN	Q9BSN3_HUMAN	UPI000016A81D	.	.	.	.	3/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGTCAATCC	.	5	BLCA
PTPRT	0	.	GRCh37	20	40730923	40730923	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3555G>A	p.%3D	p.V1185V	ENST00000373187	26/31	47	36	11	38	38	0	PTPRT,synonymous_variant,p.%3D,ENST00000373201,;PTPRT,synonymous_variant,p.%3D,ENST00000356100,;PTPRT,synonymous_variant,p.%3D,ENST00000373198,;PTPRT,synonymous_variant,p.%3D,ENST00000373193,;PTPRT,synonymous_variant,p.%3D,ENST00000373184,;PTPRT,synonymous_variant,p.%3D,ENST00000373190,;PTPRT,synonymous_variant,p.%3D,ENST00000373187,;	T	ENSG00000196090	ENST00000373187	Transcript	synonymous_variant	3555	3555	1185	V	gtG/gtA	.	.	.	-1	PTPRT	HGNC	9682	protein_coding	YES	CCDS42874.1	ENSP00000362283	PTPRT_HUMAN	.	UPI0000246C03	.	.	.	26/31	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF208,Gene3D:3.90.190.10,SMART_domains:SM00194,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTCACAAT	.	5	BLCA
TPTE	0	.	GRCh37	21	10906986	10906986	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1575A>T	p.Arg525Ser	p.R525S	ENST00000361285	24/24	58	52	6	45	45	0	TPTE,missense_variant,p.Arg525Ser,ENST00000361285,;TPTE,missense_variant,p.Arg487Ser,ENST00000342420,;TPTE,missense_variant,p.Arg507Ser,ENST00000298232,;TPTE,non_coding_transcript_exon_variant,,ENST00000415664,;TPTE,non_coding_transcript_exon_variant,,ENST00000447568,;	A	ENSG00000166157	ENST00000361285	Transcript	missense_variant	1905	1575	525	R/S	agA/agT	.	.	.	-1	TPTE	HGNC	12023	protein_coding	YES	CCDS13560.2	ENSP00000355208	TPTE_HUMAN	.	UPI000016A18A	.	tolerated(0.06)	benign(0.02)	24/24	.	PROSITE_profiles:PS51182,hmmpanther:PTHR12305,Pfam_domain:PF10409,Gene3D:1d5rA02,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TAAATTCTCCG	.	3	BLCA
C21orf33	0	.	GRCh37	21	45563170	45563170	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.605G>A	p.Gly202Asp	p.G202D	ENST00000291577	6/7	44	35	9	40	40	0	C21orf33,missense_variant,p.Gly202Asp,ENST00000291577,;C21orf33,missense_variant,p.Gly191Asp,ENST00000449622,;C21orf33,missense_variant,p.Gly171Asp,ENST00000348499,;C21orf33,missense_variant,p.Gly118Asp,ENST00000419699,;C21orf33,downstream_gene_variant,,ENST00000389690,;C21orf33,downstream_gene_variant,,ENST00000427803,;C21orf33,downstream_gene_variant,,ENST00000493883,;C21orf33,non_coding_transcript_exon_variant,,ENST00000495007,;C21orf33,downstream_gene_variant,,ENST00000480786,;	A	ENSG00000160221	ENST00000291577	Transcript	missense_variant	698	605	202	G/D	gGc/gAc	.	.	.	1	C21orf33	HGNC	1273	protein_coding	YES	CCDS33580.1	ENSP00000291577	ES1_HUMAN	.	UPI0000169D5E	.	tolerated(0.11)	possibly_damaging(0.788)	6/7	.	hmmpanther:PTHR10224:SF7,hmmpanther:PTHR10224,Pfam_domain:PF01965,Gene3D:3.40.50.880,Superfamily_domains:SSF52317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTGGCAAGT	.	5	BLCA
OSBP2	0	.	GRCh37	22	31302353	31302353	+	3'UTR	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27G>A	.	.	ENST00000332585	14/14	57	28	28	45	45	0	OSBP2,3_prime_UTR_variant,,ENST00000431368,;OSBP2,3_prime_UTR_variant,,ENST00000437268,;OSBP2,3_prime_UTR_variant,,ENST00000452656,;OSBP2,3_prime_UTR_variant,,ENST00000401475,;OSBP2,3_prime_UTR_variant,,ENST00000332585,;OSBP2,3_prime_UTR_variant,,ENST00000446658,;OSBP2,3_prime_UTR_variant,,ENST00000407373,;OSBP2,3_prime_UTR_variant,,ENST00000382310,;OSBP2,3_prime_UTR_variant,,ENST00000403222,;OSBP2,3_prime_UTR_variant,,ENST00000535268,;EIF4HP2,downstream_gene_variant,,ENST00000424380,;	A	ENSG00000184792	ENST00000332585	Transcript	3_prime_UTR_variant	2882	.	.	.	.	.	.	.	1	OSBP2	HGNC	8504	protein_coding	YES	CCDS43002.1	ENSP00000332576	OSBP2_HUMAN	C9JS84_HUMAN,C9J7J0_HUMAN	UPI0000161E15	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGCGCCTGC	.	5	BLCA
PLXNB2	0	.	GRCh37	22	50721485	50721485	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2810G>T	p.Cys937Phe	p.C937F	ENST00000449103	17/37	26	15	10	24	23	1	PLXNB2,missense_variant,p.Cys937Phe,ENST00000359337,;PLXNB2,missense_variant,p.Cys937Phe,ENST00000449103,;PLXNB2,intron_variant,,ENST00000411680,;PLXNB2,upstream_gene_variant,,ENST00000427829,;PLXNB2,downstream_gene_variant,,ENST00000432455,;PLXNB2,downstream_gene_variant,,ENST00000434732,;PLXNB2,downstream_gene_variant,,ENST00000496720,;PLXNB2,upstream_gene_variant,,ENST00000479818,;PLXNB2,upstream_gene_variant,,ENST00000479701,;PLXNB2,upstream_gene_variant,,ENST00000463165,;PLXNB2,upstream_gene_variant,,ENST00000492578,;	A	ENSG00000196576	ENST00000449103	Transcript	missense_variant	2951	2810	937	C/F	tGt/tTt	.	.	.	-1	PLXNB2	HGNC	9104	protein_coding	YES	CCDS43035.1	ENSP00000409171	PLXB2_HUMAN	Q2TBE4_HUMAN,E2PU09_HUMAN,A6QRH1_HUMAN	UPI000003812D	.	deleterious(0)	probably_damaging(1)	17/37	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF9,Gene3D:2.60.40.10,Pfam_domain:PF01833,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	CTTTACACGGG	.	2	BLCA
TTC21B	0	.	GRCh37	2	166767870	166767870	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2428A>G	p.Lys810Glu	p.K810E	ENST00000243344	18/29	55	49	6	39	39	0	TTC21B,missense_variant,p.Lys810Glu,ENST00000243344,;TTC21B,upstream_gene_variant,,ENST00000484129,;	C	ENSG00000123607	ENST00000243344	Transcript	missense_variant	2566	2428	810	K/E	Aaa/Gaa	.	.	.	-1	TTC21B	HGNC	25660	protein_coding	YES	CCDS33315.1	ENSP00000243344	TT21B_HUMAN	B3KU32_HUMAN	UPI000020900A	.	deleterious(0.01)	possibly_damaging(0.597)	18/29	.	PROSITE_profiles:PS50293,hmmpanther:PTHR14699,hmmpanther:PTHR14699:SF1,Pfam_domain:PF07719,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTTTTTCTG	.	4	BLCA
NFE2L2	0	.	GRCh37	2	178098800	178098800	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.245A>T	p.Glu82Val	p.E82V	ENST00000397062	2/5	31	25	6	29	29	0	NFE2L2,missense_variant,p.Glu66Val,ENST00000423513,;NFE2L2,missense_variant,p.Glu82Val,ENST00000397062,;NFE2L2,missense_variant,p.Glu66Val,ENST00000446151,;NFE2L2,missense_variant,p.Glu66Val,ENST00000588123,;NFE2L2,missense_variant,p.Glu81Val,ENST00000586532,;NFE2L2,missense_variant,p.Glu66Val,ENST00000421929,;NFE2L2,missense_variant,p.Glu66Val,ENST00000464747,;NFE2L2,missense_variant,p.Glu66Val,ENST00000448782,;NFE2L2,missense_variant,p.Glu66Val,ENST00000397063,;NFE2L2,splice_region_variant,,ENST00000449627,;NFE2L2,intron_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	A	ENSG00000116044	ENST00000397062	Transcript	missense_variant	800	245	82	E/V	gAa/gTa	COSM132853,COSM1631471,COSM132962	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	deleterious(0)	probably_damaging(1)	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.E82D|c.246A>C|3,CODON|p.E82D|c.246A>T|6,CODON|p.E82G|c.245A>G|7,BUFFER|p.E82Q|c.244G>C|6,BUFFER|p.G81D|c.242G>A|6,BUFFER|p.G81V|c.242G>T|7,BUFFER|p.G81C|c.241G>T|3,BUFFER|p.G81S|c.241G>A|3,BUFFER|p.T80R|c.239C>G|3,BUFFER|p.T80K|c.239C>A|5,BUFFER|p.T80P|c.238A>C|6,BUFFER|p.E79K|c.235G>A|10,BUFFER|p.E79Q|c.235G>C|11	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAATTCACCT	.	5	BLCA
CCDC141	0	.	GRCh37	2	179702070	179702070	+	Silent	SNP	G	G	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3876C>A	p.%3D	p.L1292L	ENST00000420890	23/24	56	52	4	48	48	0	CCDC141,synonymous_variant,p.%3D,ENST00000420890,;CCDC141,synonymous_variant,p.%3D,ENST00000343876,;CCDC141,synonymous_variant,p.%3D,ENST00000295723,;CCDC141,non_coding_transcript_exon_variant,,ENST00000480419,;CCDC141,upstream_gene_variant,,ENST00000472828,;	T	ENSG00000163492	ENST00000420890	Transcript	synonymous_variant	3994	3876	1292	L	ctC/ctA	.	.	.	-1	CCDC141	HGNC	26821	protein_coding	YES	.	ENSP00000395995	.	H7C0P1_HUMAN,E7ERF0_HUMAN	UPI0000EE2F1C	.	.	.	23/24	.	hmmpanther:PTHR19897	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACTGGAGGTA	.	2	BLCA
IGKV3-20	0	.	GRCh37	2	89442569	89442569	+	Missense_Mutation	SNP	A	A	G	rs748811658	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23T>C	p.Leu8Pro	p.L8P	ENST00000492167	1/2	116	95	21	110	110	0	IGKV3-20,missense_variant,p.Leu8Pro,ENST00000492167,;	G	ENSG00000239951	ENST00000492167	Transcript	missense_variant	75	23	8	L/P	cTc/cCc	rs748811658	.	.	-1	IGKV3-20	HGNC	5817	IG_V_gene	YES	.	ENSP00000418649	KV313_HUMAN	.	UPI0000113B59	.	deleterious(0.01)	benign(0.024)	1/2	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23267:SF118,hmmpanther:PTHR23267,Gene3D:2.60.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAAGAGAAGC	.	5	BLCA
TNK2	0	.	GRCh37	3	195622267	195622267	+	Silent	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21C>T	p.%3D	p.P7P	ENST00000381916	1/15	16	11	4	17	17	0	TNK2,synonymous_variant,p.%3D,ENST00000381916,;TNK2,5_prime_UTR_variant,,ENST00000316664,;TNK2,5_prime_UTR_variant,,ENST00000392400,;TNK2,intron_variant,,ENST00000333602,;TNK2,intron_variant,,ENST00000427576,;TNK2,upstream_gene_variant,,ENST00000428187,;TNK2,upstream_gene_variant,,ENST00000433111,;TNK2,intron_variant,,ENST00000468819,;TNK2,intron_variant,,ENST00000486523,;TNK2,intron_variant,,ENST00000439230,;TNK2,upstream_gene_variant,,ENST00000464041,;TNK2,upstream_gene_variant,,ENST00000447060,;	A	ENSG00000061938	ENST00000381916	Transcript	synonymous_variant	166	21	7	P	ccC/ccT	.	.	.	-1	TNK2	HGNC	19297	protein_coding	YES	CCDS33927.1	ENSP00000371341	ACK1_HUMAN	C9JDG3_HUMAN	UPI00004C9B08	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTGGGGGG	.	5	BLCA
SETD5	0	.	GRCh37	3	9516217	9516217	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3582G>T	p.Lys1194Asn	p.K1194N	ENST00000402198	21/23	99	81	17	89	89	0	SETD5,missense_variant,p.Lys1096Asn,ENST00000402466,;SETD5,missense_variant,p.Lys1213Asn,ENST00000407969,;SETD5,missense_variant,p.Lys1194Asn,ENST00000402198,;SETD5,missense_variant,p.Lys862Asn,ENST00000399686,;SETD5,missense_variant,p.Lys1194Asn,ENST00000406341,;SETD5,missense_variant,p.Lys1096Asn,ENST00000302463,;SETD5,downstream_gene_variant,,ENST00000421188,;SETD5,non_coding_transcript_exon_variant,,ENST00000479538,;SETD5,3_prime_UTR_variant,,ENST00000413704,;SETD5,non_coding_transcript_exon_variant,,ENST00000486465,;SETD5,non_coding_transcript_exon_variant,,ENST00000459941,;SETD5,non_coding_transcript_exon_variant,,ENST00000492939,;SETD5,non_coding_transcript_exon_variant,,ENST00000466242,;SETD5,non_coding_transcript_exon_variant,,ENST00000493918,;SETD5,upstream_gene_variant,,ENST00000466826,;	T	ENSG00000168137	ENST00000402198	Transcript	missense_variant	4017	3582	1194	K/N	aaG/aaT	COSM1618141,COSM1618140	.	.	1	SETD5	HGNC	25566	protein_coding	YES	CCDS46741.1	ENSP00000385852	SETD5_HUMAN	C9JLM1_HUMAN,C9JLA7_HUMAN,A8K0G4_HUMAN	UPI0000411FEE	.	deleterious(0.05)	benign(0.276)	21/23	.	hmmpanther:PTHR16286:SF11,hmmpanther:PTHR16286	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAAAGGGAGA	.	5	BLCA
WDR17	0	.	GRCh37	4	177094435	177094435	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3379G>A	p.Asp1127Asn	p.D1127N	ENST00000280190	27/31	21	17	4	10	10	0	WDR17,missense_variant,p.Asp1102Asn,ENST00000507824,;WDR17,missense_variant,p.Asp1127Asn,ENST00000280190,;WDR17,missense_variant,p.Asp1088Asn,ENST00000508596,;WDR17,missense_variant,p.Asp362Asn,ENST00000443118,;WDR17,missense_variant,p.Asp1103Asn,ENST00000393643,;WDR17,non_coding_transcript_exon_variant,,ENST00000508773,;	A	ENSG00000150627	ENST00000280190	Transcript	missense_variant	3535	3379	1127	D/N	Gac/Aac	.	.	.	1	WDR17	HGNC	16661	protein_coding	YES	CCDS3825.1	ENSP00000280190	WDR17_HUMAN	Q0QD35_HUMAN,E7EP77_HUMAN	UPI000019C575	.	tolerated(0.24)	benign(0.004)	27/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCAGACTGG	.	5	BLCA
PDE6B	0	.	GRCh37	4	628544	628544	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547G>C	p.Gly183Arg	p.G183R	ENST00000496514	2/22	78	62	15	66	66	0	PDE6B,missense_variant,p.Gly183Arg,ENST00000496514,;PDE6B,missense_variant,p.Gly183Arg,ENST00000255622,;	C	ENSG00000133256	ENST00000496514	Transcript	missense_variant	568	547	183	G/R	Ggc/Cgc	.	.	.	1	PDE6B	HGNC	8786	protein_coding	YES	CCDS33932.1	ENSP00000420295	PDE6B_HUMAN	H7C4P9_HUMAN,C9J628_HUMAN	UPI0000DBEE72	.	deleterious(0.03)	probably_damaging(1)	2/22	.	Superfamily_domains:SSF55781,SMART_domains:SM00065,Gene3D:3.30.450.40,Pfam_domain:PF01590,hmmpanther:PTHR11347,hmmpanther:PTHR11347:SF73	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATGGCAAA	.	5	BLCA
UGT2B28	0	.	GRCh37	4	70146241	70146243	+	In_Frame_Del	DEL	TTC	TTC	-	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	TTC	TTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27_29delTCT	p.Leu11del	p.L11del	ENST00000335568	1/6	227	126	101	157	157	0	UGT2B28,inframe_deletion,p.Leu11del,ENST00000511240,;UGT2B28,inframe_deletion,p.Leu11del,ENST00000335568,;	-	ENSG00000135226	ENST00000335568	Transcript	inframe_deletion	25-27	23-25	8-9	VL/V	gTTCtt/gtt	.	.	.	1	UGT2B28	HGNC	13479	protein_coding	YES	CCDS3528.1	ENSP00000334276	UDB28_HUMAN	.	UPI0000137A9F	.	.	.	1/6	.	Cleavage_site_(Signalp):SignalP-noTM,PROSITE_profiles:PS51257,hmmpanther:PTHR11926:SF142,hmmpanther:PTHR11926	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K4K|c.12G>A|3	INDELOCATOR*|VARSCANI*|PINDEL	CTTCAGTTCTTCTG	.	3	BLCA
UNC5C	0	.	GRCh37	4	96256757	96256757	+	Silent	SNP	T	T	C	rs779341478	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.150A>G	p.%3D	p.P50P	ENST00000453304	2/16	24	17	7	25	25	0	UNC5C,synonymous_variant,p.%3D,ENST00000506749,;UNC5C,synonymous_variant,p.%3D,ENST00000513796,;UNC5C,synonymous_variant,p.%3D,ENST00000453304,;UNC5C,synonymous_variant,p.%3D,ENST00000504962,;	C	ENSG00000182168	ENST00000453304	Transcript	synonymous_variant	499	150	50	P	ccA/ccG	rs779341478	.	.	-1	UNC5C	HGNC	12569	protein_coding	YES	CCDS3643.1	ENSP00000406022	UNC5C_HUMAN	Q4W5H4_HUMAN	UPI000004E6A5	.	.	.	2/16	.	hmmpanther:PTHR12582,hmmpanther:PTHR12582:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTCTGGGAG	.	5	BLCA
ARHGAP26	0	.	GRCh37	5	142150344	142150344	+	Silent	SNP	C	C	G	rs752055794	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18C>G	p.%3D	p.L6L	ENST00000274498	1/23	23	18	5	18	18	0	ARHGAP26,synonymous_variant,p.%3D,ENST00000274498,;ARHGAP26,synonymous_variant,p.%3D,ENST00000378004,;ARHGAP26,upstream_gene_variant,,ENST00000378013,;	G	ENSG00000145819	ENST00000274498	Transcript	synonymous_variant	396	18	6	L	ctC/ctG	rs752055794	.	.	1	ARHGAP26	HGNC	17073	protein_coding	YES	CCDS4277.1	ENSP00000274498	RHG26_HUMAN	Q9HBW4_HUMAN,Q8NFJ1_HUMAN,C9J6V4_HUMAN	UPI0000130D6B	.	.	.	1/23	.	hmmpanther:PTHR12552:SF4,hmmpanther:PTHR12552,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCTCGAGTT	.	5	BLCA
FLT4	0	.	GRCh37	5	180037016	180037016	+	Silent	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3696C>T	p.%3D	p.N1232N	ENST00000261937	28/30	137	88	49	101	101	0	FLT4,synonymous_variant,p.%3D,ENST00000261937,;FLT4,synonymous_variant,p.%3D,ENST00000502649,;FLT4,synonymous_variant,p.%3D,ENST00000393347,;FLT4,downstream_gene_variant,,ENST00000512795,;FLT4,non_coding_transcript_exon_variant,,ENST00000502603,;FLT4,non_coding_transcript_exon_variant,,ENST00000507059,;FLT4,downstream_gene_variant,,ENST00000510000,;FLT4,downstream_gene_variant,,ENST00000514810,;	A	ENSG00000037280	ENST00000261937	Transcript	synonymous_variant	3775	3696	1232	N	aaC/aaT	.	.	.	-1	FLT4	HGNC	3767	protein_coding	YES	CCDS4457.1	ENSP00000261937	VGFR3_HUMAN	D6RFF2_HUMAN	UPI00001488E7	.	.	.	28/30	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF49	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCAGTTGTA	.	5	BLCA
MARVELD2	0	.	GRCh37	5	68716354	68716354	+	Missense_Mutation	SNP	A	A	G	rs538762858	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142A>G	p.Gln381Arg	p.Q381R	ENST00000325631	2/7	37	25	12	41	41	0	MARVELD2,missense_variant,p.Gln381Arg,ENST00000512803,;MARVELD2,missense_variant,p.Gln265Arg,ENST00000436532,;MARVELD2,missense_variant,p.Gln381Arg,ENST00000454295,;MARVELD2,missense_variant,p.Gln381Arg,ENST00000325631,;MARVELD2,missense_variant,p.Gln265Arg,ENST00000413223,;MARVELD2,downstream_gene_variant,,ENST00000515844,;	G	ENSG00000152939	ENST00000325631	Transcript	missense_variant	1216	1142	381	Q/R	cAg/cGg	rs538762858	.	.	1	MARVELD2	HGNC	26401	protein_coding	YES	CCDS34175.1	ENSP00000323264	MALD2_HUMAN	D6RAH8_HUMAN,D6RA09_HUMAN	UPI00001416EB	.	tolerated(0.15)	benign(0.005)	2/7	.	hmmpanther:PTHR23288,hmmpanther:PTHR23288:SF3	G:0.0002	G:0	G:0	.	G:0	G:0	G:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAACAGGAGG	by1000G	5	BLCA
ATG10	0	.	GRCh37	5	81548479	81548479	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.551+1G>T	.	p.X184_splice	ENST00000282185	.	20	8	12	23	23	0	ATG10,splice_donor_variant,,ENST00000282185,;ATG10,splice_donor_variant,,ENST00000458350,;ATG10,missense_variant,p.Lys184Asn,ENST00000513634,;ATG10,splice_donor_variant,,ENST00000508814,;ATG10,intron_variant,,ENST00000514253,;ATG10,splice_donor_variant,,ENST00000504770,;	T	ENSG00000152348	ENST00000282185	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	ATG10	HGNC	20315	protein_coding	YES	CCDS4057.1	ENSP00000282185	ATG10_HUMAN	D6RDX3_HUMAN,D6RC89_HUMAN	UPI0000037BF4	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATAAGTAAGA	.	5	BLCA
GPR6	0	.	GRCh37	6	110300646	110300646	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331G>A	p.Val111Ile	p.V111I	ENST00000275169	1/1	193	97	95	117	117	0	GPR6,missense_variant,p.Val126Ile,ENST00000414000,;GPR6,missense_variant,p.Val111Ile,ENST00000275169,;	A	ENSG00000146360	ENST00000275169	Transcript	missense_variant	349	331	111	V/I	Gta/Ata	.	.	.	1	GPR6	HGNC	4515	protein_coding	YES	CCDS5079.1	ENSP00000275169	GPR6_HUMAN	F1DAM6_HUMAN,E7EP76_HUMAN	UPI000000DA4A	.	tolerated(1)	benign(0.03)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF19,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTGGTAGGC	.	5	BLCA
TPMT	0	.	GRCh37	6	18134122	18134122	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495-2A>G	.	p.X165_splice	ENST00000309983	.	28	24	4	30	30	0	TPMT,splice_acceptor_variant,,ENST00000309983,;	C	ENSG00000137364	ENST00000309983	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	TPMT	HGNC	12014	protein_coding	YES	CCDS4543.1	ENSP00000312304	TPMT_HUMAN	.	UPI0000137261	.	.	.	.	6/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAGCTACAAA	.	4	BLCA
NKAPL	0	.	GRCh37	6	28227565	28227565	+	Missense_Mutation	SNP	C	C	T	rs780227860	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.416C>T	p.Pro139Leu	p.P139L	ENST00000343684	1/1	162	143	19	175	175	0	NKAPL,missense_variant,p.Pro139Leu,ENST00000343684,;ZKSCAN4,upstream_gene_variant,,ENST00000423974,;	T	ENSG00000189134	ENST00000343684	Transcript	missense_variant	468	416	139	P/L	cCg/cTg	rs780227860,COSM3948920	.	.	1	NKAPL	HGNC	21584	protein_coding	YES	CCDS34353.1	ENSP00000345716	NKAPL_HUMAN	.	UPI0000072A86	.	tolerated(1)	unknown(0)	1/1	.	hmmpanther:PTHR13087,hmmpanther:PTHR13087:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGGCCGTCTC	.	4	BLCA
ZNF76	0	.	GRCh37	6	35261626	35261626	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1428C>T	p.%3D	p.A476A	ENST00000373953	12/14	87	77	10	77	77	0	ZNF76,synonymous_variant,p.%3D,ENST00000440666,;ZNF76,synonymous_variant,p.%3D,ENST00000373953,;ZNF76,synonymous_variant,p.%3D,ENST00000498555,;ZNF76,intron_variant,,ENST00000339411,;ZNF76,downstream_gene_variant,,ENST00000469195,;DEF6,upstream_gene_variant,,ENST00000542066,;DEF6,upstream_gene_variant,,ENST00000316637,;ZNF76,3_prime_UTR_variant,,ENST00000229405,;ZNF76,non_coding_transcript_exon_variant,,ENST00000479226,;ZNF76,downstream_gene_variant,,ENST00000486891,;	T	ENSG00000065029	ENST00000373953	Transcript	synonymous_variant	1694	1428	476	A	gcC/gcT	.	.	.	1	ZNF76	HGNC	13149	protein_coding	YES	CCDS4801.1	ENSP00000363064	ZNF76_HUMAN	E7EX64_HUMAN	UPI000013C41C	.	.	.	12/14	.	hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGCCGACCT	.	4	BLCA
BACH2	0	.	GRCh37	6	90660046	90660046	+	Silent	SNP	G	G	A	rs373751160	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1779C>T	p.%3D	p.S593S	ENST00000257749	7/9	87	74	13	90	90	0	BACH2,synonymous_variant,p.%3D,ENST00000257749,;BACH2,synonymous_variant,p.%3D,ENST00000343122,;BACH2,synonymous_variant,p.%3D,ENST00000537989,;RP3-512E2.2,intron_variant,,ENST00000413986,;RP3-512E2.2,upstream_gene_variant,,ENST00000445838,;	A	ENSG00000112182	ENST00000257749	Transcript	synonymous_variant	2487	1779	593	S	tcC/tcT	rs373751160	.	.	-1	BACH2	HGNC	14078	protein_coding	YES	CCDS5026.1	ENSP00000257749	BACH2_HUMAN	S0BE05_HUMAN,S0BDZ6_HUMAN,S0BDY5_HUMAN,Q7Z6Q0_HUMAN	UPI000004F8AD	.	.	.	7/9	.	Gene3D:1.10.880.10	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCCGGATTC	byCluster	5	BLCA
PNPLA8	0	.	GRCh37	7	108142985	108142985	+	Silent	SNP	T	T	G	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1308A>C	p.%3D	p.P436P	ENST00000422087	6/12	63	48	15	60	60	0	PNPLA8,synonymous_variant,p.%3D,ENST00000453144,;PNPLA8,synonymous_variant,p.%3D,ENST00000257694,;PNPLA8,synonymous_variant,p.%3D,ENST00000422087,;PNPLA8,synonymous_variant,p.%3D,ENST00000388728,;PNPLA8,synonymous_variant,p.%3D,ENST00000426128,;PNPLA8,synonymous_variant,p.%3D,ENST00000453085,;PNPLA8,synonymous_variant,p.%3D,ENST00000436062,;PNPLA8,non_coding_transcript_exon_variant,,ENST00000483879,;PNPLA8,non_coding_transcript_exon_variant,,ENST00000476592,;PNPLA8,non_coding_transcript_exon_variant,,ENST00000489738,;PNPLA8,non_coding_transcript_exon_variant,,ENST00000462466,;	G	ENSG00000135241	ENST00000422087	Transcript	synonymous_variant	1715	1308	436	P	ccA/ccC	.	.	.	-1	PNPLA8	HGNC	28900	protein_coding	YES	CCDS34733.1	ENSP00000410804	PLPL8_HUMAN	C9JAX4_HUMAN,C9J9W9_HUMAN	UPI0000073D34	.	.	.	6/12	.	hmmpanther:PTHR24185,Gene3D:3.40.1090.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCACTGGATC	.	5	BLCA
PTPRZ1	0	.	GRCh37	7	121608102	121608102	+	Silent	SNP	T	T	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222T>C	p.%3D	p.N74N	ENST00000393386	3/30	39	34	5	39	39	0	PTPRZ1,synonymous_variant,p.%3D,ENST00000449182,;PTPRZ1,synonymous_variant,p.%3D,ENST00000393386,;PTPRZ1,downstream_gene_variant,,ENST00000471837,;	C	ENSG00000106278	ENST00000393386	Transcript	synonymous_variant	633	222	74	N	aaT/aaC	.	.	.	1	PTPRZ1	HGNC	9685	protein_coding	YES	CCDS34740.1	ENSP00000377047	PTPRZ_HUMAN	.	UPI000020F9BB	.	.	.	3/30	.	PROSITE_profiles:PS51144,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF214,Gene3D:3.10.200.10,Pfam_domain:PF00194,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTAAATGTGAA	.	2	BLCA
TMUB1	0	.	GRCh37	7	150779433	150779433	+	Frame_Shift_Del	DEL	C	C	-	rs778533202	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218delG	p.Ser73ThrfsTer2	p.S73Tfs*2	ENST00000392818	2/3	120	108	12	88	88	0	TMUB1,frameshift_variant,p.Ser73ThrfsTer2,ENST00000488752,;TMUB1,frameshift_variant,p.Ser73ThrfsTer2,ENST00000297533,;TMUB1,frameshift_variant,p.Ser73ThrfsTer2,ENST00000482202,;TMUB1,frameshift_variant,p.Ser73ThrfsTer2,ENST00000392818,;TMUB1,frameshift_variant,p.Ser73ThrfsTer2,ENST00000462940,;TMUB1,frameshift_variant,p.Ser73ThrfsTer2,ENST00000476627,;TMUB1,frameshift_variant,p.Ser73ThrfsTer2,ENST00000492838,;AGAP3,upstream_gene_variant,,ENST00000473312,;FASTK,upstream_gene_variant,,ENST00000297532,;AGAP3,upstream_gene_variant,,ENST00000479901,;FASTK,upstream_gene_variant,,ENST00000353841,;AGAP3,upstream_gene_variant,,ENST00000463381,;AGAP3,upstream_gene_variant,,ENST00000469901,;AGAP3,upstream_gene_variant,,ENST00000397238,;FASTK,upstream_gene_variant,,ENST00000540185,;FASTK,upstream_gene_variant,,ENST00000482571,;AGAP3,upstream_gene_variant,,ENST00000490097,;FASTK,upstream_gene_variant,,ENST00000478477,;FASTK,upstream_gene_variant,,ENST00000489884,;FASTK,upstream_gene_variant,,ENST00000496663,;FASTK,upstream_gene_variant,,ENST00000461979,;FASTK,upstream_gene_variant,,ENST00000460980,;FASTK,upstream_gene_variant,,ENST00000482806,;FASTK,upstream_gene_variant,,ENST00000478883,;FASTK,upstream_gene_variant,,ENST00000469237,;FASTK,upstream_gene_variant,,ENST00000459800,;FASTK,upstream_gene_variant,,ENST00000466855,;FASTK,upstream_gene_variant,,ENST00000483953,;FASTK,upstream_gene_variant,,ENST00000467237,;	-	ENSG00000164897	ENST00000392818	Transcript	frameshift_variant	576	218	73	S/X	aGc/ac	rs778533202	.	.	-1	TMUB1	HGNC	21709	protein_coding	YES	CCDS5920.1	ENSP00000376565	TMUB1_HUMAN	C9JE12_HUMAN,C9JCW7_HUMAN	UPI0000071C66	.	.	.	2/3	.	hmmpanther:PTHR14557,hmmpanther:PTHR14557:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTCAGGCTGGGG	.	2	BLCA
EEPD1	0	.	GRCh37	7	36194739	36194739	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.806A>C	p.Gln269Pro	p.Q269P	ENST00000242108	2/8	36	31	5	34	34	0	EEPD1,missense_variant,p.Gln269Pro,ENST00000242108,;EEPD1,missense_variant,p.Gln269Pro,ENST00000534978,;	C	ENSG00000122547	ENST00000242108	Transcript	missense_variant	1524	806	269	Q/P	cAg/cCg	.	.	.	1	EEPD1	HGNC	22223	protein_coding	YES	CCDS34619.1	ENSP00000242108	EEPD1_HUMAN	.	UPI000020ED9D	.	deleterious(0)	possibly_damaging(0.609)	2/8	.	Superfamily_domains:SSF56219,Gene3D:3.60.10.10,Pfam_domain:PF03372,hmmpanther:PTHR21180,hmmpanther:PTHR21180:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGCAGGGCT	.	4	BLCA
COA1	0	.	GRCh37	7	43679186	43679186	+	Missense_Mutation	SNP	C	C	T	rs138770666	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>A	p.Glu146Lys	p.E146K	ENST00000395879	5/5	94	77	16	75	75	0	COA1,missense_variant,p.Glu146Lys,ENST00000395880,;COA1,missense_variant,p.Glu146Lys,ENST00000395879,;COA1,missense_variant,p.Glu146Lys,ENST00000310564,;COA1,missense_variant,p.Glu146Lys,ENST00000223336,;COA1,downstream_gene_variant,,ENST00000415798,;COA1,non_coding_transcript_exon_variant,,ENST00000488813,;COA1,missense_variant,p.Glu146Lys,ENST00000446564,;COA1,missense_variant,p.Glu146Lys,ENST00000415076,;COA1,missense_variant,p.Glu146Lys,ENST00000446330,;COA1,missense_variant,p.Glu146Lys,ENST00000438444,;COA1,non_coding_transcript_exon_variant,,ENST00000490251,;	T	ENSG00000106603	ENST00000395879	Transcript	missense_variant	2118	436	146	E/K	Gag/Aag	rs138770666	.	.	-1	COA1	HGNC	21868	protein_coding	YES	CCDS5471.1	ENSP00000379218	COA1_HUMAN	C9JA07_HUMAN,C9J6J1_HUMAN	UPI000006E8D7	.	deleterious_low_confidence(0.01)	benign(0.339)	5/5	.	.	.	.	.	.	.	.	.	G:0.0002	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACTCCTTTT	byCluster	5	BLCA
ZNF804B	0	.	GRCh37	7	88965481	88965481	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3185T>G	p.Phe1062Cys	p.F1062C	ENST00000333190	4/4	32	21	10	36	36	0	ZNF804B,missense_variant,p.Phe1062Cys,ENST00000333190,;	G	ENSG00000182348	ENST00000333190	Transcript	missense_variant	3794	3185	1062	F/C	tTt/tGt	.	.	.	1	ZNF804B	HGNC	21958	protein_coding	YES	CCDS5613.1	ENSP00000329638	Z804B_HUMAN	.	UPI00001A92D2	.	deleterious(0.03)	benign(0.022)	4/4	.	hmmpanther:PTHR17614:SF12,hmmpanther:PTHR17614	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTTTATTC	.	5	BLCA
TG	0	.	GRCh37	8	133919036	133919036	+	Silent	SNP	A	A	G	rs147657212	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3738A>G	p.%3D	p.Q1246Q	ENST00000220616	17/48	62	50	12	47	47	0	TG,synonymous_variant,p.%3D,ENST00000220616,;TG,synonymous_variant,p.%3D,ENST00000377869,;TG,synonymous_variant,p.%3D,ENST00000518505,;TG,missense_variant,p.Asn132Ser,ENST00000523756,;	G	ENSG00000042832	ENST00000220616	Transcript	synonymous_variant	3778	3738	1246	Q	caA/caG	rs147657212	.	.	1	TG	HGNC	11764	protein_coding	YES	CCDS34944.1	ENSP00000220616	THYG_HUMAN	Q9NYM1_HUMAN,Q9NYD9_HUMAN,E5RG33_HUMAN	UPI000013C79F	.	.	.	17/48	.	PIRSF_domain:PIRSF001831	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCAATTGCT	byCluster	5	BLCA
ZNF34	0	.	GRCh37	8	145999040	145999040	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294A>T	p.Thr432Ser	p.T432S	ENST00000343459	6/6	18	15	3	16	16	0	ZNF34,missense_variant,p.Thr411Ser,ENST00000429371,;ZNF34,missense_variant,p.Thr432Ser,ENST00000343459,;ZNF34,downstream_gene_variant,,ENST00000534445,;ZNF34,downstream_gene_variant,,ENST00000534337,;ZNF34,non_coding_transcript_exon_variant,,ENST00000527740,;	A	ENSG00000196378	ENST00000343459	Transcript	missense_variant	1360	1294	432	T/S	Acc/Tcc	.	.	.	-1	ZNF34	HGNC	13098	protein_coding	YES	CCDS47945.1	ENSP00000341528	ZNF34_HUMAN	.	UPI0000374562	.	tolerated(1)	benign(0.223)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF57,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTGGTTTTTT	.	3	BLCA
CSMD1	0	.	GRCh37	8	3047543	3047543	+	Silent	SNP	G	G	A	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5289C>T	p.%3D	p.V1763V	ENST00000537824	34/70	10	7	3	12	12	0	CSMD1,synonymous_variant,p.%3D,ENST00000400186,;CSMD1,synonymous_variant,p.%3D,ENST00000542608,;CSMD1,synonymous_variant,p.%3D,ENST00000602723,;CSMD1,synonymous_variant,p.%3D,ENST00000335551,;CSMD1,synonymous_variant,p.%3D,ENST00000537824,;CSMD1,synonymous_variant,p.%3D,ENST00000520002,;CSMD1,synonymous_variant,p.%3D,ENST00000539096,;CSMD1,synonymous_variant,p.%3D,ENST00000602557,;CSMD1,non_coding_transcript_exon_variant,,ENST00000523387,;CSMD1,non_coding_transcript_exon_variant,,ENST00000523488,;	A	ENSG00000183117	ENST00000537824	Transcript	synonymous_variant	5289	5289	1763	V	gtC/gtT	.	.	.	-1	CSMD1	HGNC	14026	protein_coding	YES	CCDS55189.1	ENSP00000441462	.	F5GZ18_HUMAN	UPI0001B723C6	.	.	.	34/70	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325:SF323,hmmpanther:PTHR19325,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F1765F|c.5295C>T|3,BUFFER|p.F1494F|c.4482C>T|3	RADIA|MUTECT|MUSE	AATCGGACGAT	.	3	BLCA
MCMDC2	0	.	GRCh37	8	67786443	67786443	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.68T>G	p.Phe23Cys	p.F23C	ENST00000422365	2/15	46	36	10	46	46	0	MCMDC2,missense_variant,p.Phe23Cys,ENST00000396592,;MCMDC2,missense_variant,p.Phe23Cys,ENST00000492775,;MCMDC2,missense_variant,p.Phe23Cys,ENST00000422365,;MCMDC2,missense_variant,p.Phe23Cys,ENST00000313616,;MCMDC2,upstream_gene_variant,,ENST00000541540,;MCMDC2,non_coding_transcript_exon_variant,,ENST00000469823,;MCMDC2,missense_variant,p.Phe23Cys,ENST00000415737,;MCMDC2,missense_variant,p.Phe23Cys,ENST00000428734,;	G	ENSG00000178460	ENST00000422365	Transcript	missense_variant	239	68	23	F/C	tTt/tGt	.	.	.	1	MCMDC2	HGNC	26368	protein_coding	YES	CCDS6197.2	ENSP00000413632	MCMD2_HUMAN	.	UPI00002107AF	.	deleterious(0)	probably_damaging(0.931)	2/15	.	hmmpanther:PTHR11630,hmmpanther:PTHR11630:SF67	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGTTTATAG	.	5	BLCA
C8orf34	0	.	GRCh37	8	69688634	69688634	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1405G>T	p.Gly469Ter	p.G469*	ENST00000518698	11/14	30	23	7	22	22	0	C8orf34,stop_gained,p.Gly383Ter,ENST00000539993,;C8orf34,stop_gained,p.Gly358Ter,ENST00000337103,;C8orf34,stop_gained,p.Gly127Ter,ENST00000325233,;C8orf34,stop_gained,p.Gly469Ter,ENST00000518698,;C8orf34,intron_variant,,ENST00000518515,;C8orf34,splice_region_variant,,ENST00000521406,;	T	ENSG00000165084	ENST00000518698	Transcript	stop_gained	1696	1405	469	G/*	Gga/Tga	COSM750836,COSM750837	.	.	1	C8orf34	HGNC	30905	protein_coding	YES	CCDS6203.2	ENSP00000427820	CH034_HUMAN	.	UPI000021D12D	.	.	.	11/14	.	hmmpanther:PTHR32000,hmmpanther:PTHR32000:SF2	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTAGGGAGAA	.	5	BLCA
CA3	0	.	GRCh37	8	86354397	86354397	+	Missense_Mutation	SNP	G	G	T	rs758455392	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>T	p.Asp110Tyr	p.D110Y	ENST00000285381	3/7	81	69	12	61	61	0	CA3,missense_variant,p.Asp110Tyr,ENST00000285381,;CA3,downstream_gene_variant,,ENST00000520921,;RP11-317J10.2,non_coding_transcript_exon_variant,,ENST00000521761,;RP11-317J10.2,non_coding_transcript_exon_variant,,ENST00000517697,;CA3,non_coding_transcript_exon_variant,,ENST00000522207,;	T	ENSG00000164879	ENST00000285381	Transcript	missense_variant	411	328	110	D/Y	Gat/Tat	rs758455392	.	.	1	CA3	HGNC	1374	protein_coding	YES	CCDS6238.1	ENSP00000285381	CAH3_HUMAN	E5RHI4_HUMAN	UPI0000049C1A	.	deleterious(0)	probably_damaging(0.945)	3/7	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952:SF96,hmmpanther:PTHR18952,PROSITE_patterns:PS00162,Gene3D:3.10.200.10,Pfam_domain:PF00194,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGTGGATGGA	byFrequency	4	BLCA
C9orf78	0	.	GRCh37	9	132594236	132594236	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283G>A	p.Asp95Asn	p.D95N	ENST00000372447	5/9	50	37	12	46	46	0	C9orf78,missense_variant,p.Asp95Asn,ENST00000372447,;USP20,upstream_gene_variant,,ENST00000372429,;USP20,upstream_gene_variant,,ENST00000358355,;USP20,upstream_gene_variant,,ENST00000315480,;C9orf78,non_coding_transcript_exon_variant,,ENST00000495934,;C9orf78,non_coding_transcript_exon_variant,,ENST00000461539,;C9orf78,non_coding_transcript_exon_variant,,ENST00000492991,;C9orf78,non_coding_transcript_exon_variant,,ENST00000461762,;C9orf78,intron_variant,,ENST00000461349,;USP20,upstream_gene_variant,,ENST00000491053,;C9orf78,upstream_gene_variant,,ENST00000480023,;USP20,upstream_gene_variant,,ENST00000494971,;	T	ENSG00000136819	ENST00000372447	Transcript	missense_variant	337	283	95	D/N	Gac/Aac	.	.	.	-1	C9orf78	HGNC	24932	protein_coding	YES	CCDS6931.1	ENSP00000361524	CI078_HUMAN	.	UPI000006F0CA	.	deleterious(0)	possibly_damaging(0.698)	5/9	.	hmmpanther:PTHR13486,hmmpanther:PTHR13486:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGTCCTCCT	.	5	BLCA
RPS6	0	.	GRCh37	9	19380207	19380207	+	5'UTR	SNP	A	A	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14T>G	.	.	ENST00000380394	1/6	96	77	19	82	82	0	RPS6,5_prime_UTR_variant,,ENST00000380394,;RPS6,5_prime_UTR_variant,,ENST00000380381,;RPS6,upstream_gene_variant,,ENST00000380384,;RPS6,upstream_gene_variant,,ENST00000315377,;RP11-513M16.8,downstream_gene_variant,,ENST00000609982,;RPS6,upstream_gene_variant,,ENST00000498815,;NDUFA5P3,downstream_gene_variant,,ENST00000449348,;	C	ENSG00000137154	ENST00000380394	Transcript	5_prime_UTR_variant	46	.	.	.	.	.	.	.	-1	RPS6	HGNC	10429	protein_coding	YES	CCDS6492.1	ENSP00000369757	RS6_HUMAN	A2A3R6_HUMAN,A2A3R5_HUMAN	UPI00000018E3	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGAACGCC	.	5	BLCA
SPATA31D1	0	.	GRCh37	9	84609589	84609589	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4204G>A	p.Ala1402Thr	p.A1402T	ENST00000344803	4/4	12	8	3	15	15	0	SPATA31D1,missense_variant,p.Ala1402Thr,ENST00000344803,;SPATA31D1,downstream_gene_variant,,ENST00000603921,;	A	ENSG00000214929	ENST00000344803	Transcript	missense_variant	4251	4204	1402	A/T	Gct/Act	COSM291868,COSM291867	.	.	1	SPATA31D1	HGNC	37283	protein_coding	YES	CCDS47986.1	ENSP00000341988	S31D1_HUMAN	.	UPI00001C10A6	.	tolerated(0.08)	probably_damaging(0.988)	4/4	.	hmmpanther:PTHR21859:SF12,hmmpanther:PTHR21859	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGAAGCTCAG	.	2	BLCA
MAGEA6	0	.	GRCh37	X	151870321	151870321	+	3'UTR	SNP	C	C	G	rs138695633	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*66C>G	.	.	ENST00000329342	3/3	27	19	8	16	16	0	MAGEA6,3_prime_UTR_variant,,ENST00000329342,;MAGEA6,downstream_gene_variant,,ENST00000412733,;MAGEA6,downstream_gene_variant,,ENST00000457643,;	G	ENSG00000197172	ENST00000329342	Transcript	3_prime_UTR_variant	1236	.	.	.	.	rs138695633	.	.	1	MAGEA6	HGNC	6804	protein_coding	YES	CCDS14708.1	ENSP00000329199	MAGA6_HUMAN	E7EUF2_HUMAN,E7ETG4_HUMAN,B9A060_HUMAN	UPI000000D9B0	.	.	.	3/3	.	.	G:0.0034	G:0.0008	G:0	.	G:0.0109	G:0	G:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCCCATCC	byFrequency|byCluster|by1000G	4	BLCA
MXRA5	0	.	GRCh37	X	3242158	3242158	+	Missense_Mutation	SNP	G	G	C	rs752672636	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1568C>G	p.Ala523Gly	p.A523G	ENST00000217939	5/7	20	10	10	31	31	0	MXRA5,missense_variant,p.Ala523Gly,ENST00000217939,;	C	ENSG00000101825	ENST00000217939	Transcript	missense_variant	1723	1568	523	A/G	gCg/gGg	rs752672636	.	.	-1	MXRA5	HGNC	7539	protein_coding	YES	CCDS14124.1	ENSP00000217939	MXRA5_HUMAN	.	UPI000013C73B	.	deleterious(0)	probably_damaging(0.958)	5/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF582,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGCGCTTTC	byFrequency	5	BLCA
FAM47B	0	.	GRCh37	X	34962949	34962949	+	3'UTR	SNP	T	T	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*63T>C	.	.	ENST00000329357	1/1	14	7	7	15	15	0	FAM47B,3_prime_UTR_variant,,ENST00000329357,;	C	ENSG00000189132	ENST00000329357	Transcript	3_prime_UTR_variant	2037	.	.	.	.	.	.	.	1	FAM47B	HGNC	26659	protein_coding	YES	CCDS14236.1	ENSP00000328307	FA47B_HUMAN	.	UPI000013F47B	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAATTTATG	.	5	BLCA
USP51	0	.	GRCh37	X	55513637	55513637	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A43Y-01A-21D-A26M-08	TCGA-FD-A43Y-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1736C>G	p.Ser579Cys	p.S579C	ENST00000500968	2/2	16	11	4	17	17	0	USP51,missense_variant,p.Ser579Cys,ENST00000500968,;USP51,non_coding_transcript_exon_variant,,ENST00000586165,;	C	ENSG00000247746	ENST00000500968	Transcript	missense_variant	1819	1736	579	S/C	tCt/tGt	.	.	.	-1	USP51	HGNC	23086	protein_coding	YES	CCDS14370.1	ENSP00000423333	UBP51_HUMAN	.	UPI0000232F07	.	deleterious(0.01)	probably_damaging(0.993)	2/2	.	Superfamily_domains:SSF54001,Pfam_domain:PF00443,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF398,PROSITE_profiles:PS50235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGTAGACTCC	.	2	BLCA
NFKB2	0	.	GRCh37	10	104157342	104157342	+	Silent	SNP	G	G	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561G>C	p.%3D	p.L187L	ENST00000369966	8/23	154	120	33	265	265	0	NFKB2,synonymous_variant,p.%3D,ENST00000369966,;NFKB2,synonymous_variant,p.%3D,ENST00000428099,;NFKB2,synonymous_variant,p.%3D,ENST00000189444,;NFKB2,downstream_gene_variant,,ENST00000601386,;NFKB2,downstream_gene_variant,,ENST00000471698,;NFKB2,downstream_gene_variant,,ENST00000593908,;NFKB2,upstream_gene_variant,,ENST00000336486,;NFKB2,non_coding_transcript_exon_variant,,ENST00000467116,;NFKB2,upstream_gene_variant,,ENST00000473400,;	C	ENSG00000077150	ENST00000369966	Transcript	synonymous_variant	811	561	187	L	ctG/ctC	.	.	.	1	NFKB2	HGNC	7795	protein_coding	YES	CCDS41564.1	ENSP00000358983	NFKB2_HUMAN	M0R119_HUMAN,M0QZX1_HUMAN	UPI000016A5CD	.	.	.	8/23	.	Superfamily_domains:SSF49417,Gene3D:2.60.40.340,Pfam_domain:PF00554,hmmpanther:PTHR24169:SF19,hmmpanther:PTHR24169,PROSITE_profiles:PS50254,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTGAGTAT	.	5	BLCA
NRAP	0	.	GRCh37	10	115350589	115350589	+	Silent	SNP	G	G	A	rs141148527	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4704C>T	p.%3D	p.V1568V	ENST00000359988	40/42	75	65	10	73	73	0	NRAP,synonymous_variant,p.%3D,ENST00000369360,;NRAP,synonymous_variant,p.%3D,ENST00000369358,;NRAP,synonymous_variant,p.%3D,ENST00000360478,;NRAP,synonymous_variant,p.%3D,ENST00000359988,;HABP2,downstream_gene_variant,,ENST00000351270,;HABP2,downstream_gene_variant,,ENST00000542051,;	A	ENSG00000197893	ENST00000359988	Transcript	synonymous_variant	4949	4704	1568	V	gtC/gtT	rs141148527	.	.	-1	NRAP	HGNC	7988	protein_coding	YES	CCDS7579.1	ENSP00000353078	NRAP_HUMAN	.	UPI00001F9739	.	.	.	40/42	.	SMART_domains:SM00227,hmmpanther:PTHR11039,PROSITE_profiles:PS51216	A:0.0010	A:0.0038	A:0	.	A:0	A:0	A:0	A:0.0016	A:0.0001	not_provided	.	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGTCGACACT	byFrequency|byCluster|by1000G	4	BLCA
CUBN	0	.	GRCh37	10	16962055	16962055	+	Missense_Mutation	SNP	G	G	A	rs544059289	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6728C>T	p.Pro2243Leu	p.P2243L	ENST00000377833	44/67	37	31	6	28	28	0	CUBN,missense_variant,p.Pro2243Leu,ENST00000377833,;	A	ENSG00000107611	ENST00000377833	Transcript	missense_variant	6794	6728	2243	P/L	cCg/cTg	rs544059289,COSM1560855	.	.	-1	CUBN	HGNC	2548	protein_coding	YES	CCDS7113.1	ENSP00000367064	CUBN_HUMAN	B3KQA6_HUMAN	UPI00001AE8F4	.	tolerated(0.11)	benign(0.223)	44/67	.	PROSITE_profiles:PS01180,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGCGGGGGA	byCluster|by1000G	5	BLCA
LRRC18	0	.	GRCh37	10	50121576	50121576	+	Missense_Mutation	SNP	C	C	A	rs765969044	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.625G>T	p.Ala209Ser	p.A209S	ENST00000374160	1/2	69	56	13	86	86	0	LRRC18,missense_variant,p.Ala209Ser,ENST00000298124,;LRRC18,missense_variant,p.Ala209Ser,ENST00000374160,;WDFY4,intron_variant,,ENST00000413659,;WDFY4,intron_variant,,ENST00000325239,;WDFY4,intron_variant,,ENST00000265453,;RP11-523O18.7,intron_variant,,ENST00000430438,;	A	ENSG00000165383	ENST00000374160	Transcript	missense_variant	702	625	209	A/S	Gct/Tct	rs765969044	.	.	-1	LRRC18	HGNC	23199	protein_coding	YES	CCDS31197.1	ENSP00000363275	LRC18_HUMAN	.	UPI00001F98A9	.	tolerated(1)	benign(0.001)	1/2	.	hmmpanther:PTHR23155,hmmpanther:PTHR23155:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAGCCGCAC	.	5	BLCA
CADM1	0	.	GRCh37	11	115099960	115099960	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.594G>A	p.Met198Ile	p.M198I	ENST00000452722	5/10	40	33	7	46	46	0	CADM1,missense_variant,p.Met198Ile,ENST00000452722,;CADM1,missense_variant,p.Met198Ile,ENST00000331581,;CADM1,missense_variant,p.Met165Ile,ENST00000545094,;CADM1,missense_variant,p.Met198Ile,ENST00000536727,;CADM1,missense_variant,p.Met197Ile,ENST00000545380,;CADM1,missense_variant,p.Met51Ile,ENST00000543540,;CADM1,missense_variant,p.Met182Ile,ENST00000543249,;CADM1,missense_variant,p.Met198Ile,ENST00000542447,;CADM1,missense_variant,p.Met198Ile,ENST00000537058,;CADM1,missense_variant,p.Met51Ile,ENST00000542450,;CADM1,non_coding_transcript_exon_variant,,ENST00000537140,;CADM1,non_coding_transcript_exon_variant,,ENST00000541434,;CADM1,downstream_gene_variant,,ENST00000540951,;	T	ENSG00000182985	ENST00000452722	Transcript	missense_variant	615	594	198	M/I	atG/atA	.	.	.	-1	CADM1	HGNC	5951	protein_coding	YES	CCDS8373.1	ENSP00000395359	CADM1_HUMAN	Q6MZK6_HUMAN,F5H8J9_HUMAN,F5H0H5_HUMAN	UPI0000049C25	.	deleterious(0)	possibly_damaging(0.538)	5/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23277,hmmpanther:PTHR23277:SF53,Pfam_domain:PF08205,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTACATGTC	.	5	BLCA
KCNJ1	0	.	GRCh37	11	128709889	128709889	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307G>T	p.Ala103Ser	p.A103S	ENST00000392664	2/2	50	37	12	47	47	0	KCNJ1,missense_variant,p.Ala84Ser,ENST00000324036,;KCNJ1,missense_variant,p.Ala84Ser,ENST00000440599,;KCNJ1,missense_variant,p.Ala84Ser,ENST00000392666,;KCNJ1,missense_variant,p.Ala103Ser,ENST00000392664,;KCNJ1,missense_variant,p.Ala84Ser,ENST00000392665,;KCNJ1,missense_variant,p.Ala84Ser,ENST00000324003,;KCNJ1,downstream_gene_variant,,ENST00000531562,;	A	ENSG00000151704	ENST00000392664	Transcript	missense_variant	424	307	103	A/S	Gcg/Tcg	.	.	.	-1	KCNJ1	HGNC	6255	protein_coding	YES	CCDS8476.1	ENSP00000376432	IRK1_HUMAN	.	UPI000012D891	.	deleterious(0)	probably_damaging(0.999)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF6,Gene3D:1.10.287.70,Pfam_domain:PF01007,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81324,Prints_domain:PR01320	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACGCTACTG	.	5	BLCA
OR5AP2	0	.	GRCh37	11	56409292	56409292	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624C>G	p.Phe208Leu	p.F208L	ENST00000302981	1/1	144	126	18	116	116	0	OR5AP2,missense_variant,p.Phe208Leu,ENST00000302981,;OR5AP2,missense_variant,p.Phe209Leu,ENST00000544374,;AP002517.1,downstream_gene_variant,,ENST00000584225,;	C	ENSG00000172464	ENST00000302981	Transcript	missense_variant	624	624	208	F/L	ttC/ttG	.	.	.	-1	OR5AP2	HGNC	15258	protein_coding	YES	CCDS31534.1	ENSP00000303111	O5AP2_HUMAN	.	UPI0000061EE6	.	tolerated(0.28)	possibly_damaging(0.685)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF151,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGAGAATGC	.	4	BLCA
CD248	0	.	GRCh37	11	66083067	66083067	+	Missense_Mutation	SNP	G	G	C	rs770613673	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1432C>G	p.Arg478Gly	p.R478G	ENST00000311330	1/1	106	83	22	176	176	0	CD248,missense_variant,p.Arg478Gly,ENST00000311330,;RP11-867G23.13,intron_variant,,ENST00000534065,;	C	ENSG00000174807	ENST00000311330	Transcript	missense_variant	1449	1432	478	R/G	Cgt/Ggt	rs770613673	.	.	-1	CD248	HGNC	18219	protein_coding	YES	CCDS8134.1	ENSP00000308117	CD248_HUMAN	.	UPI0000049803	.	deleterious_low_confidence(0.01)	benign(0.017)	1/1	.	hmmpanther:PTHR24838:SF269,hmmpanther:PTHR24838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCACGGGACA	byFrequency	5	BLCA
RRP8	0	.	GRCh37	11	6623361	6623361	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.184A>G	p.Ser62Gly	p.S62G	ENST00000254605	2/7	67	52	15	74	74	0	RRP8,missense_variant,p.Ser62Gly,ENST00000254605,;RRP8,intron_variant,,ENST00000534343,;ILK,upstream_gene_variant,,ENST00000528995,;ILK,upstream_gene_variant,,ENST00000420936,;ILK,upstream_gene_variant,,ENST00000396751,;ILK,upstream_gene_variant,,ENST00000537806,;ILK,upstream_gene_variant,,ENST00000299421,;RP11-732A19.8,downstream_gene_variant,,ENST00000527191,;ILK,upstream_gene_variant,,ENST00000534565,;ILK,upstream_gene_variant,,ENST00000526318,;RRP8,missense_variant,p.Lys78Arg,ENST00000530762,;RRP8,missense_variant,p.Ser62Gly,ENST00000533907,;ILK,upstream_gene_variant,,ENST00000526114,;ILK,upstream_gene_variant,,ENST00000527394,;ILK,upstream_gene_variant,,ENST00000527327,;ILK,upstream_gene_variant,,ENST00000532063,;ILK,upstream_gene_variant,,ENST00000527121,;RRP8,upstream_gene_variant,,ENST00000526352,;TAF10,downstream_gene_variant,,ENST00000526743,;	C	ENSG00000132275	ENST00000254605	Transcript	missense_variant	302	184	62	S/G	Agt/Ggt	.	.	.	-1	RRP8	HGNC	29030	protein_coding	YES	CCDS31411.1	ENSP00000254605	RRP8_HUMAN	E9PPY3_HUMAN	UPI00001580F8	.	deleterious_low_confidence(0)	probably_damaging(0.993)	2/7	.	hmmpanther:PTHR12787,hmmpanther:PTHR12787:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCACTTATAC	.	5	BLCA
PICALM	0	.	GRCh37	11	85701307	85701307	+	Missense_Mutation	SNP	T	T	A	rs117411388	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1394A>T	p.His465Leu	p.H465L	ENST00000393346	13/20	47	39	8	55	55	0	PICALM,missense_variant,p.His465Leu,ENST00000393346,;PICALM,missense_variant,p.His465Leu,ENST00000356360,;PICALM,missense_variant,p.His74Leu,ENST00000526961,;PICALM,missense_variant,p.His168Leu,ENST00000530542,;PICALM,missense_variant,p.His458Leu,ENST00000526033,;PICALM,intron_variant,,ENST00000532317,;PICALM,intron_variant,,ENST00000528398,;PICALM,intron_variant,,ENST00000529760,;PICALM,intron_variant,,ENST00000529016,;PICALM,upstream_gene_variant,,ENST00000530692,;	A	ENSG00000073921	ENST00000393346	Transcript	missense_variant	1543	1394	465	H/L	cAt/cTt	rs117411388	.	.	-1	PICALM	HGNC	15514	protein_coding	YES	CCDS8272.1	ENSP00000377015	PICAL_HUMAN	E9PLJ8_HUMAN,E9PKP6_HUMAN,E9PI56_HUMAN	UPI00001AE879	.	tolerated(0.68)	benign(0.038)	13/20	.	hmmpanther:PTHR22951:SF16,hmmpanther:PTHR22951	C:0.0006	C:0	C:0.0014	.	C:0	C:0.002	C:0	C:0	C:0.0013	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCATGAGTA	byFrequency|byCluster|by1000G	4	BLCA
SLC5A8	0	.	GRCh37	12	101581175	101581175	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952G>A	p.Ala318Thr	p.A318T	ENST00000536262	7/15	26	21	5	28	28	0	SLC5A8,missense_variant,p.Ala318Thr,ENST00000536262,;	T	ENSG00000256870	ENST00000536262	Transcript	missense_variant	1511	952	318	A/T	Gca/Aca	.	.	.	-1	SLC5A8	HGNC	19119	protein_coding	YES	CCDS9080.1	ENSP00000445340	SC5A8_HUMAN	.	UPI000004DAF6	.	tolerated(0.07)	possibly_damaging(0.512)	7/15	.	PROSITE_profiles:PS50283,hmmpanther:PTHR11819,hmmpanther:PTHR11819:SF121,TIGRFAM_domain:TIGR00813,Pfam_domain:PF00474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGCAGACA	.	4	BLCA
C12orf40	0	.	GRCh37	12	40114710	40114710	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1616G>C	p.Arg539Thr	p.R539T	ENST00000324616	13/13	54	48	6	53	53	0	C12orf40,missense_variant,p.Arg539Thr,ENST00000324616,;C12orf40,intron_variant,,ENST00000468200,;	C	ENSG00000180116	ENST00000324616	Transcript	missense_variant	1770	1616	539	R/T	aGg/aCg	.	.	.	1	C12orf40	HGNC	26846	protein_coding	YES	CCDS41770.1	ENSP00000317671	CL040_HUMAN	.	UPI000069A925	.	tolerated(0.26)	benign(0.311)	13/13	.	Pfam_domain:PF15089	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGACAGGATTG	.	4	BLCA
DDN	0	.	GRCh37	12	49391296	49391296	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1363A>G	p.Ile455Val	p.I455V	ENST00000421952	2/2	87	77	9	94	94	0	DDN,missense_variant,p.Ile455Val,ENST00000421952,;PRKAG1,downstream_gene_variant,,ENST00000316299,;PRKAG1,downstream_gene_variant,,ENST00000548065,;PRKAG1,downstream_gene_variant,,ENST00000548362,;PRKAG1,downstream_gene_variant,,ENST00000395170,;PRKAG1,downstream_gene_variant,,ENST00000547306,;RP11-386G11.5,upstream_gene_variant,,ENST00000547395,;RP11-386G11.5,upstream_gene_variant,,ENST00000547866,;RP11-386G11.5,upstream_gene_variant,,ENST00000552933,;RP11-386G11.5,upstream_gene_variant,,ENST00000552284,;RP11-386G11.3,downstream_gene_variant,,ENST00000549516,;PRKAG1,downstream_gene_variant,,ENST00000546531,;	C	ENSG00000181418	ENST00000421952	Transcript	missense_variant	1385	1363	455	I/V	Att/Gtt	.	.	.	-1	DDN	HGNC	24458	protein_coding	YES	CCDS31791.2	ENSP00000390590	DEND_HUMAN	.	UPI000019821C	.	deleterious_low_confidence(0)	probably_damaging(0.968)	2/2	.	hmmpanther:PTHR16757,Pfam_domain:PF15498	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCAATGACAA	.	4	BLCA
KMT2D	0	.	GRCh37	12	49445636	49445637	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1829dupC	p.Pro611SerfsTer3	p.P611Sfs*3	ENST00000301067	10/54	85	77	8	103	103	0	KMT2D,frameshift_variant,p.Pro611SerfsTer3,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000547610,;	G	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	1829-1830	1829-1830	610	P/PX	cct/ccCt	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	10/54	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	PINDEL|VARSCANI*|INDELOCATOR*|MUSE*|MUTECT*|VARSCANS*	GGTGGAGGGGA	.	6	BLCA
OR6C1	0	.	GRCh37	12	55715127	55715127	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744C>T	p.%3D	p.I248I	ENST00000379668	1/1	78	59	19	67	67	0	OR6C1,synonymous_variant,p.%3D,ENST00000379668,;	T	ENSG00000205330	ENST00000379668	Transcript	synonymous_variant	782	744	248	I	atC/atT	.	.	.	1	OR6C1	HGNC	8355	protein_coding	YES	CCDS31818.1	ENSP00000368990	OR6C1_HUMAN	.	UPI000016150F	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26454,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCTCTTA	.	5	BLCA
OSBPL8	0	.	GRCh37	12	76783456	76783456	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1321G>C	p.Asp441His	p.D441H	ENST00000261183	12/24	95	84	11	108	108	0	OSBPL8,missense_variant,p.Asp441His,ENST00000261183,;OSBPL8,missense_variant,p.Asp416His,ENST00000546946,;OSBPL8,missense_variant,p.Asp399His,ENST00000393250,;OSBPL8,missense_variant,p.Asp399His,ENST00000393249,;OSBPL8,missense_variant,p.Asp441His,ENST00000547540,;OSBPL8,non_coding_transcript_exon_variant,,ENST00000548535,;OSBPL8,downstream_gene_variant,,ENST00000550865,;	G	ENSG00000091039	ENST00000261183	Transcript	missense_variant	1801	1321	441	D/H	Gat/Cat	.	.	.	-1	OSBPL8	HGNC	16396	protein_coding	YES	CCDS31862.1	ENSP00000261183	OSBL8_HUMAN	Q96E43_HUMAN,Q6ZME5_HUMAN,F8VZB8_HUMAN,F8VVE7_HUMAN,F8VVD3_HUMAN,F8VQX7_HUMAN	UPI000006ECD1	.	deleterious(0)	probably_damaging(1)	12/24	.	Superfamily_domains:0051579,Pfam_domain:PF01237,hmmpanther:PTHR10972,hmmpanther:PTHR10972:SF77	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTAATCTGAAA	.	4	BLCA
ITGBL1	0	.	GRCh37	13	102220117	102220117	+	Nonsense_Mutation	SNP	C	C	A	rs267603742	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384C>A	p.Tyr128Ter	p.Y128*	ENST00000376180	3/11	52	41	10	68	68	0	ITGBL1,stop_gained,p.Tyr35Ter,ENST00000376162,;ITGBL1,stop_gained,p.Tyr128Ter,ENST00000376180,;ITGBL1,5_prime_UTR_variant,,ENST00000545560,;	A	ENSG00000198542	ENST00000376180	Transcript	stop_gained	603	384	128	Y/*	taC/taA	rs267603742	.	.	1	ITGBL1	HGNC	6164	protein_coding	YES	CCDS9499.1	ENSP00000365351	ITGBL_HUMAN	B3KTP1_HUMAN	UPI0000073C95	.	.	.	3/11	.	hmmpanther:PTHR10082,hmmpanther:PTHR10082:SF3,Gene3D:2.10.25.10,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTACCCAAC	.	5	BLCA
CEP128	0	.	GRCh37	14	81304579	81304579	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.893C>T	p.Ser298Leu	p.S298L	ENST00000555265	11/25	28	24	4	44	44	0	CEP128,missense_variant,p.Ser298Leu,ENST00000555265,;CEP128,missense_variant,p.Ser298Leu,ENST00000281129,;CEP128,missense_variant,p.Ser298Leu,ENST00000216517,;CEP128,missense_variant,p.Ser177Leu,ENST00000554827,;CEP128,upstream_gene_variant,,ENST00000554502,;	A	ENSG00000100629	ENST00000555265	Transcript	missense_variant	1269	893	298	S/L	tCa/tTa	.	.	.	-1	CEP128	HGNC	20359	protein_coding	YES	CCDS32130.1	ENSP00000451162	CE128_HUMAN	Q9NS50_HUMAN,Q9HCB0_HUMAN,Q86TS1_HUMAN,G3V3U2_HUMAN,G3V3F4_HUMAN	UPI000022982E	.	deleterious(0.02)	probably_damaging(0.999)	11/25	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18937:SF149,hmmpanther:PTHR18937	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTGATTGA	.	4	BLCA
PTPN21	0	.	GRCh37	14	88945324	88945324	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2451G>T	p.Arg817Ser	p.R817S	ENST00000556564	13/19	82	69	12	81	81	0	PTPN21,missense_variant,p.Arg817Ser,ENST00000556564,;PTPN21,missense_variant,p.Arg817Ser,ENST00000328736,;PTPN21,3_prime_UTR_variant,,ENST00000536337,;PTPN21,non_coding_transcript_exon_variant,,ENST00000554270,;	A	ENSG00000070778	ENST00000556564	Transcript	missense_variant	2736	2451	817	R/S	agG/agT	.	.	.	-1	PTPN21	HGNC	9651	protein_coding	YES	CCDS9884.1	ENSP00000452414	PTN21_HUMAN	Q8WX29_HUMAN,G3V3S6_HUMAN	UPI000013D15F	.	deleterious(0)	possibly_damaging(0.576)	13/19	.	hmmpanther:PTHR19134:SF78,hmmpanther:PTHR19134,PIRSF_domain:PIRSF000934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCGGCCTTTT	.	4	BLCA
SEMA6D	0	.	GRCh37	15	48057216	48057216	+	Missense_Mutation	SNP	G	G	A	rs534298453	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1390G>A	p.Val464Ile	p.V464I	ENST00000316364	13/19	41	31	9	36	36	0	SEMA6D,missense_variant,p.Val464Ile,ENST00000389432,;SEMA6D,missense_variant,p.Val464Ile,ENST00000537942,;SEMA6D,missense_variant,p.Val464Ile,ENST00000358066,;SEMA6D,missense_variant,p.Val464Ile,ENST00000354744,;SEMA6D,missense_variant,p.Val464Ile,ENST00000389428,;SEMA6D,missense_variant,p.Val464Ile,ENST00000389425,;SEMA6D,missense_variant,p.Val464Ile,ENST00000355997,;SEMA6D,missense_variant,p.Val464Ile,ENST00000536845,;SEMA6D,missense_variant,p.Val464Ile,ENST00000389433,;SEMA6D,missense_variant,p.Val464Ile,ENST00000558014,;SEMA6D,missense_variant,p.Val464Ile,ENST00000558816,;SEMA6D,missense_variant,p.Val464Ile,ENST00000316364,;SEMA6D,upstream_gene_variant,,ENST00000560006,;SEMA6D,upstream_gene_variant,,ENST00000559064,;SEMA6D,downstream_gene_variant,,ENST00000559196,;SEMA6D,downstream_gene_variant,,ENST00000561133,;SEMA6D,upstream_gene_variant,,ENST00000558431,;	A	ENSG00000137872	ENST00000316364	Transcript	missense_variant	1829	1390	464	V/I	Gta/Ata	rs534298453,COSM254935,COSM1587883	.	.	1	SEMA6D	HGNC	16770	protein_coding	YES	CCDS32225.1	ENSP00000324857	SEM6D_HUMAN	Q9HAH9_HUMAN,H0YMV0_HUMAN,H0YMA6_HUMAN,H0YL82_HUMAN	UPI000006E201	.	tolerated(0.23)	benign(0.016)	13/19	.	Superfamily_domains:SSF101912,SMART_domains:SM00630,Gene3D:2.130.10.10,Pfam_domain:PF01403,hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF65,PROSITE_profiles:PS51004	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.V464I|c.1390G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGTATTA	by1000G	5	BLCA
ATP8B4	0	.	GRCh37	15	50168644	50168644	+	Missense_Mutation	SNP	C	C	T	rs139968118	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2858G>A	p.Arg953His	p.R953H	ENST00000284509	25/28	45	37	8	38	38	0	ATP8B4,missense_variant,p.Arg953His,ENST00000559829,;ATP8B4,missense_variant,p.Arg256His,ENST00000560479,;ATP8B4,missense_variant,p.Arg953His,ENST00000284509,;ATP8B4,missense_variant,p.Arg44His,ENST00000558498,;CTD-2647E9.3,upstream_gene_variant,,ENST00000558150,;CTD-2647E9.3,upstream_gene_variant,,ENST00000560375,;ATP8B4,3_prime_UTR_variant,,ENST00000557955,;ATP8B4,3_prime_UTR_variant,,ENST00000558906,;ATP8B4,3_prime_UTR_variant,,ENST00000559726,;ATP8B4,non_coding_transcript_exon_variant,,ENST00000558203,;ATP8B4,non_coding_transcript_exon_variant,,ENST00000560354,;	T	ENSG00000104043	ENST00000284509	Transcript	missense_variant	3000	2858	953	R/H	cGt/cAt	rs139968118,COSM159291	.	.	-1	ATP8B4	HGNC	13536	protein_coding	YES	CCDS32238.1	ENSP00000284509	AT8B4_HUMAN	H0YMB5_HUMAN	UPI0000055904	.	deleterious(0.02)	benign(0.003)	25/28	.	hmmpanther:PTHR24092:SF46,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Superfamily_domains:0049473	T:0.0004	T:0	T:0.0029	.	T:0	T:0	T:0	T:0.002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTACGCTTG	byFrequency|byCluster|by1000G	5	BLCA
PDCD7	0	.	GRCh37	15	65411074	65411074	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1439C>T	p.Thr480Ile	p.T480I	ENST00000204549	5/5	49	41	8	56	56	0	PDCD7,missense_variant,p.Thr480Ile,ENST00000204549,;UBAP1L,upstream_gene_variant,,ENST00000559089,;PDCD7,downstream_gene_variant,,ENST00000560313,;PDCD7,downstream_gene_variant,,ENST00000559051,;	A	ENSG00000090470	ENST00000204549	Transcript	missense_variant	1494	1439	480	T/I	aCt/aTt	.	.	.	-1	PDCD7	HGNC	8767	protein_coding	YES	CCDS10201.1	ENSP00000204549	PDCD7_HUMAN	Q6IEG3_HUMAN	UPI00000731D7	.	deleterious(0)	benign(0.104)	5/5	.	hmmpanther:PTHR24022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCAGTTGCC	.	5	BLCA
MYH8	0	.	GRCh37	17	10309470	10309470	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2320G>T	p.Gly774Cys	p.G774C	ENST00000403437	21/40	18	13	5	35	35	0	MYH8,missense_variant,p.Gly774Cys,ENST00000403437,;CTC-297N7.11,non_coding_transcript_exon_variant,,ENST00000587182,;RP11-799N11.1,non_coding_transcript_exon_variant,,ENST00000399342,;RP11-799N11.1,non_coding_transcript_exon_variant,,ENST00000581304,;	A	ENSG00000133020	ENST00000403437	Transcript	missense_variant	2415	2320	774	G/C	Ggt/Tgt	COSM4141971	.	.	-1	MYH8	HGNC	7578	protein_coding	YES	CCDS11153.1	ENSP00000384330	MYH8_HUMAN	.	UPI000012FB7D	.	deleterious(0)	probably_damaging(0.999)	21/40	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF340,hmmpanther:PTHR13140,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGACCCAGAA	.	2	BLCA
MYO15A	0	.	GRCh37	17	18022407	18022407	+	Missense_Mutation	SNP	C	C	T	rs753710398	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.293C>T	p.Ala98Val	p.A98V	ENST00000205890	2/66	9	6	3	23	23	0	MYO15A,missense_variant,p.Ala98Val,ENST00000205890,;MYO15A,upstream_gene_variant,,ENST00000583079,;	T	ENSG00000091536	ENST00000205890	Transcript	missense_variant	631	293	98	A/V	gCg/gTg	rs753710398	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	probably_damaging(0.981)	2/66	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	GCGGGCGATGA	.	2	BLCA
ERBB2	0	.	GRCh37	17	37881332	37881332	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2524G>A	p.Val842Ile	p.V842I	ENST00000269571	21/27	73	64	9	77	77	0	ERBB2,missense_variant,p.Val211Ile,ENST00000580074,;ERBB2,missense_variant,p.Val842Ile,ENST00000584450,;ERBB2,missense_variant,p.Val827Ile,ENST00000541774,;ERBB2,missense_variant,p.Val566Ile,ENST00000445658,;ERBB2,missense_variant,p.Val842Ile,ENST00000269571,;ERBB2,missense_variant,p.Val812Ile,ENST00000406381,;ERBB2,missense_variant,p.Val812Ile,ENST00000540147,;ERBB2,missense_variant,p.Val812Ile,ENST00000584601,;MIEN1,downstream_gene_variant,,ENST00000577810,;ERBB2,downstream_gene_variant,,ENST00000582818,;MIEN1,downstream_gene_variant,,ENST00000394231,;MIR4728,upstream_gene_variant,,ENST00000580969,;ERBB2,upstream_gene_variant,,ENST00000584888,;MIEN1,downstream_gene_variant,,ENST00000474210,;ERBB2,3_prime_UTR_variant,,ENST00000578373,;ERBB2,non_coding_transcript_exon_variant,,ENST00000583038,;MIEN1,downstream_gene_variant,,ENST00000582963,;ERBB2,downstream_gene_variant,,ENST00000584684,;ERBB2,downstream_gene_variant,,ENST00000578630,;MIEN1,downstream_gene_variant,,ENST00000469568,;MIEN1,downstream_gene_variant,,ENST00000498164,;	A	ENSG00000141736	ENST00000269571	Transcript	missense_variant	2683	2524	842	V/I	Gta/Ata	COSM14065	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	deleterious(0)	probably_damaging(0.998)	21/27	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF137,PROSITE_patterns:PS00109,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000619,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.V842I|c.2524G>A|12	RADIA|MUTECT|MUSE|VARSCANS	GGCTCGTACAC	.	4	BLCA
CBLN2	0	.	GRCh37	18	70205571	70205571	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515C>G	p.Ala172Gly	p.A172G	ENST00000269503	5/5	74	63	11	74	74	0	CBLN2,missense_variant,p.Ala56Gly,ENST00000584764,;CBLN2,missense_variant,p.Ala172Gly,ENST00000585159,;CBLN2,missense_variant,p.Ala172Gly,ENST00000269503,;CBLN2,missense_variant,p.Ala58Gly,ENST00000581073,;CBLN2,non_coding_transcript_exon_variant,,ENST00000583651,;CBLN2,non_coding_transcript_exon_variant,,ENST00000581425,;	C	ENSG00000141668	ENST00000269503	Transcript	missense_variant	1289	515	172	A/G	gCc/gGc	.	.	.	-1	CBLN2	HGNC	1544	protein_coding	YES	CCDS11999.1	ENSP00000269503	CBLN2_HUMAN	.	UPI0000032E73	.	deleterious(0)	probably_damaging(0.996)	5/5	.	PROSITE_profiles:PS50871,hmmpanther:PTHR22923:SF50,hmmpanther:PTHR22923,Pfam_domain:PF00386,Gene3D:2.60.120.40,SMART_domains:SM00110,Superfamily_domains:SSF49842	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAAGGCCGAG	.	4	BLCA
GALR1	0	.	GRCh37	18	74963166	74963166	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662C>T	p.Ala221Val	p.A221V	ENST00000299727	1/3	91	77	14	103	103	0	GALR1,missense_variant,p.Ala221Val,ENST00000299727,;GALR1,upstream_gene_variant,,ENST00000582943,;	T	ENSG00000166573	ENST00000299727	Transcript	missense_variant	662	662	221	A/V	gCc/gTc	.	.	.	1	GALR1	HGNC	4132	protein_coding	YES	CCDS12012.1	ENSP00000299727	GALR1_HUMAN	.	UPI000013E5DE	.	tolerated(0.16)	benign(0.1)	1/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24230:SF31,hmmpanther:PTHR24230,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTATGCCAAGG	.	4	BLCA
NDUFV2	0	.	GRCh37	18	9134187	9134188	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662dupG	p.Arg222ThrfsTer5	p.R222Tfs*5	ENST00000318388	8/8	44	36	8	44	44	0	NDUFV2,frameshift_variant,p.Arg222ThrfsTer5,ENST00000318388,;NDUFV2,frameshift_variant,p.Arg225ThrfsTer5,ENST00000400033,;ANKRD12,upstream_gene_variant,,ENST00000585234,;ANKRD12,upstream_gene_variant,,ENST00000577992,;ANKRD12,upstream_gene_variant,,ENST00000383440,;ANKRD12,upstream_gene_variant,,ENST00000262126,;ANKRD12,upstream_gene_variant,,ENST00000400020,;RP11-143J12.2,intron_variant,,ENST00000582375,;RP11-143J12.2,upstream_gene_variant,,ENST00000583081,;RP11-143J12.2,downstream_gene_variant,,ENST00000608008,;RP11-21J18.1,non_coding_transcript_exon_variant,,ENST00000579126,;NDUFV2,non_coding_transcript_exon_variant,,ENST00000474740,;NDUFV2,non_coding_transcript_exon_variant,,ENST00000465096,;RP11-21J18.1,intron_variant,,ENST00000578850,;ANKRD12,upstream_gene_variant,,ENST00000540578,;ANKRD12,upstream_gene_variant,,ENST00000581635,;	G	ENSG00000178127	ENST00000318388	Transcript	frameshift_variant	774-775	660-661	220-221	-/X	-/G	.	.	.	1	NDUFV2	HGNC	7717	protein_coding	YES	CCDS11842.1	ENSP00000327268	NDUV2_HUMAN	.	UPI0000052A59	.	.	.	8/8	.	hmmpanther:PTHR10371,hmmpanther:PTHR10371:SF3,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGGAGTGGACG	.	3	BLCA
UPF1	0	.	GRCh37	19	18976405	18976405	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3055G>A	p.Gly1019Arg	p.G1019R	ENST00000262803	22/24	120	98	22	148	148	0	UPF1,missense_variant,p.Gly1030Arg,ENST00000599848,;UPF1,missense_variant,p.Gly1019Arg,ENST00000262803,;GDF1,downstream_gene_variant,,ENST00000247005,;CERS1,downstream_gene_variant,,ENST00000427170,;UPF1,non_coding_transcript_exon_variant,,ENST00000600689,;UPF1,non_coding_transcript_exon_variant,,ENST00000596842,;	A	ENSG00000005007	ENST00000262803	Transcript	missense_variant	3327	3055	1019	G/R	Gga/Aga	.	.	.	1	UPF1	HGNC	9962	protein_coding	YES	CCDS12386.1	ENSP00000262803	RENT1_HUMAN	B3KY55_HUMAN	UPI0000001C89	.	tolerated(0.31)	benign(0.002)	22/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGGGGGACGC	.	4	BLCA
MATK	0	.	GRCh37	19	3779710	3779710	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.831G>A	p.%3D	p.E277E	ENST00000395045	9/14	68	60	8	87	87	0	MATK,synonymous_variant,p.%3D,ENST00000585778,;MATK,synonymous_variant,p.%3D,ENST00000395045,;MATK,synonymous_variant,p.%3D,ENST00000395040,;MATK,synonymous_variant,p.%3D,ENST00000310132,;MATK,synonymous_variant,p.%3D,ENST00000588983,;MATK,synonymous_variant,p.%3D,ENST00000590493,;MATK,downstream_gene_variant,,ENST00000587180,;MATK,downstream_gene_variant,,ENST00000590849,;MATK,downstream_gene_variant,,ENST00000590028,;AC005777.3,upstream_gene_variant,,ENST00000588332,;	T	ENSG00000007264	ENST00000395045	Transcript	synonymous_variant	1169	831	277	E	gaG/gaA	.	.	.	-1	MATK	HGNC	6906	protein_coding	YES	CCDS12113.1	ENSP00000378485	MATK_HUMAN	K7ERY4_HUMAN,K7EQV3_HUMAN	UPI000013FB32	.	.	.	9/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418:SF50,hmmpanther:PTHR24418,Pfam_domain:PF07714,Gene3D:3.30.200.20,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCGTCTCGTC	.	4	BLCA
CHAF1A	0	.	GRCh37	19	4432066	4432066	+	Missense_Mutation	SNP	G	G	T	rs770908974	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2065G>T	p.Val689Leu	p.V689L	ENST00000301280	12/15	102	81	20	130	130	0	CHAF1A,missense_variant,p.Val689Leu,ENST00000301280,;CHAF1A,downstream_gene_variant,,ENST00000587739,;CTB-50L17.5,upstream_gene_variant,,ENST00000590159,;CHAF1A,non_coding_transcript_exon_variant,,ENST00000587368,;CHAF1A,downstream_gene_variant,,ENST00000585371,;	T	ENSG00000167670	ENST00000301280	Transcript	missense_variant	2166	2065	689	V/L	Gtg/Ttg	rs770908974	.	.	1	CHAF1A	HGNC	1910	protein_coding	YES	CCDS32875.1	ENSP00000301280	CAF1A_HUMAN	.	UPI00002030F8	.	tolerated(0.08)	possibly_damaging(0.498)	12/15	.	hmmpanther:PTHR15272,hmmpanther:PTHR15272:SF0,Pfam_domain:PF15539	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGTGTGG	.	5	BLCA
PLA2G4C	0	.	GRCh37	19	48551636	48551636	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1620C>A	p.Tyr540Ter	p.Y540*	ENST00000599111	17/17	21	15	6	33	33	0	PLA2G4C,stop_gained,p.Tyr530Ter,ENST00000599921,;PLA2G4C,stop_gained,p.Tyr530Ter,ENST00000413144,;PLA2G4C,stop_gained,p.Tyr540Ter,ENST00000599111,;PLA2G4C,3_prime_UTR_variant,,ENST00000354276,;CABP5,upstream_gene_variant,,ENST00000293255,;AC010458.1,downstream_gene_variant,,ENST00000408668,;PLA2G4C,downstream_gene_variant,,ENST00000596510,;PLA2G4C,non_coding_transcript_exon_variant,,ENST00000594790,;CABP5,upstream_gene_variant,,ENST00000602032,;	T	ENSG00000105499	ENST00000599111	Transcript	stop_gained	1922	1620	540	Y/*	taC/taA	.	.	.	-1	PLA2G4C	HGNC	9037	protein_coding	YES	CCDS59403.1	ENSP00000472546	PA24C_HUMAN	Q76EZ0_HUMAN,Q76EY9_HUMAN,M0R1B4_HUMAN	UPI00019A89DE	.	.	.	17/17	.	PROSITE_profiles:PS51210	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCGGGTAGTA	.	5	BLCA
LIG1	0	.	GRCh37	19	48647149	48647149	+	Missense_Mutation	SNP	G	G	A	rs574879811	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.848C>T	p.Pro283Leu	p.P283L	ENST00000263274	10/28	76	62	14	93	93	0	LIG1,missense_variant,p.Pro215Leu,ENST00000536218,;LIG1,missense_variant,p.Pro252Leu,ENST00000427526,;LIG1,missense_variant,p.Pro283Leu,ENST00000263274,;CTC-453G23.4,upstream_gene_variant,,ENST00000594589,;LIG1,missense_variant,p.Pro251Leu,ENST00000542460,;LIG1,missense_variant,p.Pro283Leu,ENST00000601091,;LIG1,missense_variant,p.Pro282Leu,ENST00000594759,;LIG1,non_coding_transcript_exon_variant,,ENST00000594067,;	A	ENSG00000105486	ENST00000263274	Transcript	missense_variant	1268	848	283	P/L	cCg/cTg	rs574879811	.	.	-1	LIG1	HGNC	6598	protein_coding	YES	CCDS12711.1	ENSP00000263274	DNLI1_HUMAN	Q76GR4_HUMAN,M0R1S4_HUMAN,M0QY71_HUMAN	UPI0000129656	.	tolerated(0.29)	benign(0.003)	10/28	.	hmmpanther:PTHR10459:SF10,hmmpanther:PTHR10459,Gene3D:1x9nA01,Superfamily_domains:0050884	A:0.0006	A:0	A:0	.	A:0	A:0	A:0.0031	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCGGTTTC	byFrequency|by1000G	5	BLCA
POLRMT	0	.	GRCh37	19	621793	621793	+	Silent	SNP	C	C	A	rs543996685	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1905G>T	p.%3D	p.A635A	ENST00000588649	10/21	76	59	16	70	70	0	POLRMT,synonymous_variant,p.%3D,ENST00000588649,;HCN2,downstream_gene_variant,,ENST00000251287,;POLRMT,upstream_gene_variant,,ENST00000590336,;POLRMT,downstream_gene_variant,,ENST00000590573,;LLNLR-299G3.1,upstream_gene_variant,,ENST00000607288,;AC005559.2,upstream_gene_variant,,ENST00000591847,;POLRMT,non_coding_transcript_exon_variant,,ENST00000586384,;POLRMT,downstream_gene_variant,,ENST00000588630,;POLRMT,upstream_gene_variant,,ENST00000592633,;POLRMT,upstream_gene_variant,,ENST00000589961,;POLRMT,upstream_gene_variant,,ENST00000587057,;POLRMT,downstream_gene_variant,,ENST00000590709,;	A	ENSG00000099821	ENST00000588649	Transcript	synonymous_variant	1990	1905	635	A	gcG/gcT	rs543996685	.	.	-1	POLRMT	HGNC	9200	protein_coding	YES	CCDS12036.1	ENSP00000465759	RPOM_HUMAN	.	UPI000013C68E	.	.	.	10/21	.	hmmpanther:PTHR10102:SF0,hmmpanther:PTHR10102,Gene3D:1mswD01,Pfam_domain:PF14700,Superfamily_domains:SSF56672	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTCCGCGGC	by1000G	5	BLCA
PTGFRN	0	.	GRCh37	1	117503945	117503945	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294G>T	p.Val432Leu	p.V432L	ENST00000393203	5/9	94	70	24	108	108	0	PTGFRN,missense_variant,p.Val432Leu,ENST00000393203,;RNA5SP55,downstream_gene_variant,,ENST00000516701,;	T	ENSG00000134247	ENST00000393203	Transcript	missense_variant	1441	1294	432	V/L	Gtg/Ttg	.	.	.	1	PTGFRN	HGNC	9601	protein_coding	YES	CCDS890.1	ENSP00000376899	FPRP_HUMAN	Q9H3U3_HUMAN	UPI000012ABC4	.	tolerated(0.09)	benign(0.009)	5/9	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00406,Gene3D:2.60.40.10,Pfam_domain:PF13895,hmmpanther:PTHR12207:SF3,hmmpanther:PTHR12207,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTGGTGGAC	.	5	BLCA
ADAR	0	.	GRCh37	1	154574846	154574846	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.272G>A	p.Arg91Lys	p.R91K	ENST00000368474	2/15	85	70	14	110	110	0	ADAR,missense_variant,p.Arg134Lys,ENST00000292205,;ADAR,missense_variant,p.Arg86Lys,ENST00000529168,;ADAR,missense_variant,p.Arg91Lys,ENST00000368474,;ADAR,5_prime_UTR_variant,,ENST00000368471,;ADAR,non_coding_transcript_exon_variant,,ENST00000471068,;ADAR,non_coding_transcript_exon_variant,,ENST00000526905,;ADAR,intron_variant,,ENST00000494866,;ADAR,intron_variant,,ENST00000463920,;	T	ENSG00000160710	ENST00000368474	Transcript	missense_variant	472	272	91	R/K	aGg/aAg	.	.	.	-1	ADAR	HGNC	225	protein_coding	YES	CCDS1071.1	ENSP00000357459	DSRAD_HUMAN	.	UPI000045626B	.	tolerated(0.37)	benign(0.017)	2/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCCCTGATG	.	5	BLCA
RUSC1	0	.	GRCh37	1	155291600	155291600	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36C>T	p.%3D	p.L12L	ENST00000368352	2/10	129	120	8	157	157	0	RUSC1,synonymous_variant,p.%3D,ENST00000368352,;RUSC1,synonymous_variant,p.%3D,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000292254,;FDPS,downstream_gene_variant,,ENST00000356657,;RUSC1,upstream_gene_variant,,ENST00000368347,;FDPS,downstream_gene_variant,,ENST00000447866,;RUSC1,upstream_gene_variant,,ENST00000368349,;FDPS,downstream_gene_variant,,ENST00000368356,;RUSC1-AS1,intron_variant,,ENST00000450199,;RUSC1-AS1,intron_variant,,ENST00000443642,;RUSC1-AS1,upstream_gene_variant,,ENST00000543656,;RUSC1-AS1,upstream_gene_variant,,ENST00000446880,;FDPS,downstream_gene_variant,,ENST00000470171,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,downstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000471876,;RUSC1,upstream_gene_variant,,ENST00000479924,;RUSC1,upstream_gene_variant,,ENST00000467820,;RUSC1,upstream_gene_variant,,ENST00000489860,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000492244,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000468764,;RUSC1,upstream_gene_variant,,ENST00000484664,;RUSC1,upstream_gene_variant,,ENST00000462780,;FDPS,downstream_gene_variant,,ENST00000489324,;RUSC1,upstream_gene_variant,,ENST00000485924,;FDPS,downstream_gene_variant,,ENST00000467076,;RUSC1,upstream_gene_variant,,ENST00000490373,;FDPS,downstream_gene_variant,,ENST00000489003,;FDPS,downstream_gene_variant,,ENST00000495308,;RUSC1,upstream_gene_variant,,ENST00000473331,;FDPS,downstream_gene_variant,,ENST00000468479,;FDPS,downstream_gene_variant,,ENST00000465559,;RUSC1,upstream_gene_variant,,ENST00000492536,;FDPS,downstream_gene_variant,,ENST00000477057,;FDPS,downstream_gene_variant,,ENST00000491013,;FDPS,downstream_gene_variant,,ENST00000492887,;	T	ENSG00000160753	ENST00000368352	Transcript	synonymous_variant	187	36	12	L	ctC/ctT	.	.	.	1	RUSC1	HGNC	17153	protein_coding	YES	CCDS41410.1	ENSP00000357336	RUSC1_HUMAN	Q68CX2_HUMAN	UPI000046FDA5	.	.	.	2/10	.	hmmpanther:PTHR15591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACCTCAACCA	.	2	BLCA
RUSC1	0	.	GRCh37	1	155292044	155292044	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.480C>T	p.%3D	p.F160F	ENST00000368352	2/10	79	64	14	101	101	0	RUSC1,synonymous_variant,p.%3D,ENST00000368352,;RUSC1,synonymous_variant,p.%3D,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000292254,;FDPS,downstream_gene_variant,,ENST00000356657,;RUSC1,upstream_gene_variant,,ENST00000368347,;FDPS,downstream_gene_variant,,ENST00000447866,;RUSC1,upstream_gene_variant,,ENST00000368349,;FDPS,downstream_gene_variant,,ENST00000368356,;RUSC1-AS1,non_coding_transcript_exon_variant,,ENST00000443642,;RUSC1-AS1,intron_variant,,ENST00000450199,;RUSC1-AS1,upstream_gene_variant,,ENST00000543656,;RUSC1-AS1,upstream_gene_variant,,ENST00000446880,;FDPS,downstream_gene_variant,,ENST00000470171,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,downstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000471876,;RUSC1,upstream_gene_variant,,ENST00000479924,;RUSC1,upstream_gene_variant,,ENST00000467820,;RUSC1,upstream_gene_variant,,ENST00000489860,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000492244,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000468764,;RUSC1,upstream_gene_variant,,ENST00000484664,;RUSC1,upstream_gene_variant,,ENST00000462780,;FDPS,downstream_gene_variant,,ENST00000489324,;RUSC1,upstream_gene_variant,,ENST00000485924,;FDPS,downstream_gene_variant,,ENST00000467076,;RUSC1,upstream_gene_variant,,ENST00000490373,;FDPS,downstream_gene_variant,,ENST00000489003,;FDPS,downstream_gene_variant,,ENST00000495308,;RUSC1,upstream_gene_variant,,ENST00000473331,;FDPS,downstream_gene_variant,,ENST00000468479,;FDPS,downstream_gene_variant,,ENST00000465559,;RUSC1,upstream_gene_variant,,ENST00000492536,;FDPS,downstream_gene_variant,,ENST00000477057,;FDPS,downstream_gene_variant,,ENST00000491013,;FDPS,downstream_gene_variant,,ENST00000492887,;	T	ENSG00000160753	ENST00000368352	Transcript	synonymous_variant	631	480	160	F	ttC/ttT	.	.	.	1	RUSC1	HGNC	17153	protein_coding	YES	CCDS41410.1	ENSP00000357336	RUSC1_HUMAN	Q68CX2_HUMAN	UPI000046FDA5	.	.	.	2/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCTGCTG	.	5	BLCA
FMO4	0	.	GRCh37	1	171303598	171303598	+	Silent	SNP	C	C	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.876C>A	p.%3D	p.L292L	ENST00000367749	8/10	25	22	3	37	37	0	FMO4,synonymous_variant,p.%3D,ENST00000367749,;FMO4,intron_variant,,ENST00000475780,;FMO4,upstream_gene_variant,,ENST00000480136,;FMO4,downstream_gene_variant,,ENST00000462992,;	A	ENSG00000076258	ENST00000367749	Transcript	synonymous_variant	1206	876	292	L	ctC/ctA	.	.	.	1	FMO4	HGNC	3772	protein_coding	YES	CCDS1295.1	ENSP00000356723	FMO4_HUMAN	.	UPI000013C52B	.	.	.	8/10	.	hmmpanther:PTHR23023,hmmpanther:PTHR23023:SF74,Pfam_domain:PF00743,PIRSF_domain:PIRSF000332	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCCTCTGTGG	.	2	BLCA
MYOC	0	.	GRCh37	1	171605630	171605630	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.950T>C	p.Ile317Thr	p.I317T	ENST00000037502	3/3	90	77	12	88	88	0	MYOC,missense_variant,p.Ile317Thr,ENST00000037502,;	G	ENSG00000034971	ENST00000037502	Transcript	missense_variant	1022	950	317	I/T	aTa/aCa	.	.	.	-1	MYOC	HGNC	7610	protein_coding	YES	CCDS1297.1	ENSP00000037502	MYOC_HUMAN	B4DV60_HUMAN	UPI00000012D6	.	deleterious(0.02)	benign(0.099)	3/3	.	PROSITE_profiles:PS51132,hmmpanther:PTHR23192,hmmpanther:PTHR23192:SF11,Pfam_domain:PF02191,SMART_domains:SM00284	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGTATGTGA	.	4	BLCA
UBR4	0	.	GRCh37	1	19439171	19439171	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11648G>A	p.Cys3883Tyr	p.C3883Y	ENST00000375254	78/106	139	116	23	173	173	0	UBR4,missense_variant,p.Cys3883Tyr,ENST00000375254,;UBR4,missense_variant,p.Cys3876Tyr,ENST00000375217,;UBR4,missense_variant,p.Cys3883Tyr,ENST00000375267,;UBR4,missense_variant,p.Cys3859Tyr,ENST00000375226,;UBR4,3_prime_UTR_variant,,ENST00000375218,;UBR4,non_coding_transcript_exon_variant,,ENST00000466969,;UBR4,upstream_gene_variant,,ENST00000494503,;	T	ENSG00000127481	ENST00000375254	Transcript	missense_variant	11676	11648	3883	C/Y	tGt/tAt	.	.	.	-1	UBR4	HGNC	30313	protein_coding	YES	CCDS189.1	ENSP00000364403	UBR4_HUMAN	Q96HY5_HUMAN	UPI000021276F	.	.	probably_damaging(0.962)	78/106	.	Superfamily_domains:SSF48371,hmmpanther:PTHR21725	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGATACAATGT	.	4	BLCA
USH2A	0	.	GRCh37	1	216052315	216052315	+	Silent	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8349G>A	p.%3D	p.L2783L	ENST00000307340	42/72	111	76	34	104	104	0	USH2A,synonymous_variant,p.%3D,ENST00000366943,;USH2A,synonymous_variant,p.%3D,ENST00000307340,;	T	ENSG00000042781	ENST00000307340	Transcript	synonymous_variant	8736	8349	2783	L	ctG/ctA	.	.	.	-1	USH2A	HGNC	12601	protein_coding	YES	CCDS31025.1	ENSP00000305941	USH2A_HUMAN	.	UPI000034E5B6	.	.	.	42/72	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF170,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATCAGATG	.	5	BLCA
MAST2	0	.	GRCh37	1	46501254	46501254	+	Missense_Mutation	SNP	C	C	A	rs377756048,rs760814116	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4913C>A	p.Thr1638Asn	p.T1638N	ENST00000361297	29/29	95	79	15	81	81	0	MAST2,missense_variant,p.Thr1638Asn,ENST00000361297,;MAST2,missense_variant,p.Thr1448Asn,ENST00000372009,;PIK3R3,downstream_gene_variant,,ENST00000372006,;PIK3R3,downstream_gene_variant,,ENST00000420542,;PIK3R3,downstream_gene_variant,,ENST00000262741,;PIK3R3,downstream_gene_variant,,ENST00000340332,;MAST2,downstream_gene_variant,,ENST00000372008,;PIK3R3,downstream_gene_variant,,ENST00000354242,;MAST2,downstream_gene_variant,,ENST00000492813,;	A	ENSG00000086015	ENST00000361297	Transcript	missense_variant	5196	4913	1638	T/N	aCc/aAc	rs377756048,rs760814116	.	.	1	MAST2	HGNC	19035	protein_coding	YES	CCDS41326.1	ENSP00000354671	MAST2_HUMAN	Q9NT11_HUMAN	UPI0000458AEB	.	deleterious_low_confidence(0.03)	benign(0.105)	29/29	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCACCCCCA	byCluster	5	BLCA
SIGLEC1	0	.	GRCh37	20	3672227	3672227	+	Missense_Mutation	SNP	G	G	A	rs750416976	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4351C>T	p.Pro1451Ser	p.P1451S	ENST00000344754	17/21	54	50	4	86	86	0	SIGLEC1,missense_variant,p.Pro1451Ser,ENST00000344754,;SIGLEC1,missense_variant,p.Pro265Ser,ENST00000419548,;SIGLEC1,missense_variant,p.Pro1451Ser,ENST00000202578,;	A	ENSG00000088827	ENST00000344754	Transcript	missense_variant	4351	4351	1451	P/S	Cct/Tct	rs750416976	.	.	-1	SIGLEC1	HGNC	11127	protein_coding	YES	CCDS13060.1	ENSP00000341141	SN_HUMAN	.	UPI0000049BA6	.	deleterious(0)	probably_damaging(1)	17/21	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF46,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAGGCTCTG	byFrequency	2	BLCA
MYBL2	0	.	GRCh37	20	42311461	42311461	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214A>G	p.Arg72Gly	p.R72G	ENST00000217026	4/14	273	232	41	326	326	0	MYBL2,missense_variant,p.Arg72Gly,ENST00000217026,;MYBL2,missense_variant,p.Arg48Gly,ENST00000396863,;	G	ENSG00000101057	ENST00000217026	Transcript	missense_variant	341	214	72	R/G	Agg/Ggg	.	.	.	1	MYBL2	HGNC	7548	protein_coding	YES	CCDS13322.1	ENSP00000217026	MYBB_HUMAN	.	UPI000012FAE1	.	deleterious(0)	probably_damaging(1)	4/14	.	PROSITE_profiles:PS51294,hmmpanther:PTHR10641:SF37,hmmpanther:PTHR10641,Gene3D:1.10.10.60,Pfam_domain:PF13921,SMART_domains:SM00717,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTACAGGTGG	.	4	BLCA
ADA	0	.	GRCh37	20	43251684	43251684	+	Silent	SNP	G	G	A	rs562055008	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.642C>T	p.%3D	p.H214H	ENST00000372874	7/12	87	76	10	109	109	0	ADA,synonymous_variant,p.%3D,ENST00000372874,;ADA,intron_variant,,ENST00000537820,;PKIG,intron_variant,,ENST00000372882,;PKIG,intron_variant,,ENST00000372887,;PKIG,downstream_gene_variant,,ENST00000372891,;PKIG,downstream_gene_variant,,ENST00000372894,;Z97053.1,upstream_gene_variant,,ENST00000597250,;PKIG,downstream_gene_variant,,ENST00000372886,;PKIG,downstream_gene_variant,,ENST00000372892,;PKIG,downstream_gene_variant,,ENST00000349959,;PKIG,downstream_gene_variant,,ENST00000372889,;ADA,non_coding_transcript_exon_variant,,ENST00000492931,;ADA,non_coding_transcript_exon_variant,,ENST00000464097,;ADA,downstream_gene_variant,,ENST00000536076,;ADA,synonymous_variant,p.%3D,ENST00000536532,;ADA,3_prime_UTR_variant,,ENST00000539235,;ADA,downstream_gene_variant,,ENST00000545776,;	A	ENSG00000196839	ENST00000372874	Transcript	synonymous_variant	777	642	214	H	caC/caT	rs562055008	.	.	-1	ADA	HGNC	186	protein_coding	YES	CCDS13335.1	ENSP00000361965	ADA_HUMAN	.	UPI000000D982	.	.	.	7/12	.	HAMAP:MF_00540,hmmpanther:PTHR11409,hmmpanther:PTHR11409:SF42,TIGRFAM_domain:TIGR01430,Gene3D:3.20.20.140,Pfam_domain:PF00962,Superfamily_domains:SSF51556	A:0.0004	A:0	A:0	.	A:0	A:0	A:0.002	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGGCGTGGAC	byFrequency|by1000G	4	BLCA
KRTAP12-1	0	.	GRCh37	21	46101888	46101888	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151delC	p.Gln51SerfsTer8	p.Q51Sfs*8	ENST00000391617	1/1	148	133	15	153	153	0	KRTAP12-1,frameshift_variant,p.Gln51SerfsTer8,ENST00000391617,;TSPEAR,intron_variant,,ENST00000323084,;IMMTP1,upstream_gene_variant,,ENST00000435590,;	-	ENSG00000187175	ENST00000391617	Transcript	frameshift_variant	191	151	51	Q/X	Cag/ag	.	.	.	-1	KRTAP12-1	HGNC	20529	protein_coding	YES	CCDS42966.1	ENSP00000375475	KR121_HUMAN	.	UPI00001A95B9	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23262:SF35,hmmpanther:PTHR23262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGGACTGGCATC	.	3	BLCA
NF2	0	.	GRCh37	22	30038263	30038263	+	Missense_Mutation	SNP	G	G	T	rs771572024	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>T	p.Val146Phe	p.V146F	ENST00000338641	4/16	21	18	3	30	30	0	NF2,missense_variant,p.Val63Phe,ENST00000347330,;NF2,missense_variant,p.Val146Phe,ENST00000403435,;NF2,missense_variant,p.Val104Phe,ENST00000361676,;NF2,missense_variant,p.Val146Phe,ENST00000338641,;NF2,missense_variant,p.Val146Phe,ENST00000397789,;NF2,missense_variant,p.Val63Phe,ENST00000353887,;NF2,missense_variant,p.Val146Phe,ENST00000413209,;NF2,missense_variant,p.Val146Phe,ENST00000361166,;NF2,missense_variant,p.Val146Phe,ENST00000403999,;NF2,missense_variant,p.Val63Phe,ENST00000334961,;NF2,missense_variant,p.Val105Phe,ENST00000361452,;NF2,missense_variant,p.Val63Phe,ENST00000432151,;	T	ENSG00000186575	ENST00000338641	Transcript	missense_variant	877	436	146	V/F	Gtc/Ttc	rs771572024,COSM24562,COSM1415578	.	.	1	NF2	HGNC	7773	protein_coding	YES	CCDS13861.1	ENSP00000344666	MERL_HUMAN	Q9NRW8_HUMAN	UPI000012EF27	.	deleterious(0.01)	probably_damaging(0.975)	4/16	.	PROSITE_profiles:PS50057,hmmpanther:PTHR23281:SF17,hmmpanther:PTHR23281,Gene3D:1.20.80.10,Pfam_domain:PF00373,PIRSF_domain:PIRSF002305,SMART_domains:SM00295,Superfamily_domains:SSF47031,Prints_domain:PR00935,Prints_domain:PR00661	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.V122_K149del|c.364_447del84|5,BUFFER|p.Y144fs*1|c.430_431insA|5,BUFFER|p.Y144*|c.432C>A|4,BUFFER|p.V146I|c.436G>A|3	MUTECT|MUSE	ACGCCGTCCAG	.	2	BLCA
ZEB2	0	.	GRCh37	2	145147383	145147383	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3280G>A	p.Glu1094Lys	p.E1094K	ENST00000558170	10/10	79	65	13	91	91	0	ZEB2,missense_variant,p.Glu1070Lys,ENST00000539609,;ZEB2,missense_variant,p.Glu1094Lys,ENST00000409487,;ZEB2,missense_variant,p.Glu1094Lys,ENST00000303660,;ZEB2,missense_variant,p.Glu1094Lys,ENST00000558170,;ZEB2,intron_variant,,ENST00000419938,;	T	ENSG00000169554	ENST00000558170	Transcript	missense_variant	4465	3280	1094	E/K	Gag/Aag	COSM441196	.	.	-1	ZEB2	HGNC	14881	protein_coding	YES	CCDS2186.1	ENSP00000454157	ZEB2_HUMAN	U3KPV5_HUMAN,Q53TG0_HUMAN,Q53TD9_HUMAN,E7EUW9_HUMAN,E7ESP8_HUMAN,C9JUQ1_HUMAN,C9JU62_HUMAN,A0JP08_HUMAN	UPI00001359A2	.	deleterious(0.02)	probably_damaging(0.98)	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13919,hmmpanther:PTHR13919:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCGCGCT	.	5	BLCA
NFE2L2	0	.	GRCh37	2	178098806	178098806	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.239C>T	p.Thr80Ile	p.T80I	ENST00000397062	2/5	29	20	9	27	27	0	NFE2L2,missense_variant,p.Thr64Ile,ENST00000449627,;NFE2L2,missense_variant,p.Thr64Ile,ENST00000423513,;NFE2L2,missense_variant,p.Thr80Ile,ENST00000397062,;NFE2L2,missense_variant,p.Thr64Ile,ENST00000446151,;NFE2L2,missense_variant,p.Thr64Ile,ENST00000588123,;NFE2L2,missense_variant,p.Thr79Ile,ENST00000586532,;NFE2L2,missense_variant,p.Thr64Ile,ENST00000421929,;NFE2L2,missense_variant,p.Thr64Ile,ENST00000464747,;NFE2L2,missense_variant,p.Thr64Ile,ENST00000448782,;NFE2L2,missense_variant,p.Thr64Ile,ENST00000397063,;NFE2L2,intron_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	A	ENSG00000116044	ENST00000397062	Transcript	missense_variant	794	239	80	T/I	aCa/aTa	COSM132964,COSM132861,COSM132857	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	deleterious(0)	probably_damaging(1)	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.T80R|c.239C>G|3,CODON|p.T80K|c.239C>A|5,BUFFER|p.E82D|c.246A>C|3,BUFFER|p.E82D|c.246A>T|6,BUFFER|p.E82G|c.245A>G|7,BUFFER|p.E82Q|c.244G>C|6,BUFFER|p.G81D|c.242G>A|6,BUFFER|p.G81V|c.242G>T|7,BUFFER|p.G81C|c.241G>T|3,BUFFER|p.G81S|c.241G>A|3,BUFFER|p.T80P|c.238A>C|6,BUFFER|p.E79K|c.235G>A|10,BUFFER|p.E79Q|c.235G>C|11,BUFFER|p.D77V|c.230A>T|5,BUFFER|p.D77G|c.230A>G|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGTCTCT	.	5	BLCA
SATB2	0	.	GRCh37	2	200137210	200137210	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1926G>T	p.Gln642His	p.Q642H	ENST00000417098	11/11	52	42	10	68	68	0	SATB2,missense_variant,p.Gln642His,ENST00000260926,;SATB2,missense_variant,p.Gln524His,ENST00000428695,;SATB2,missense_variant,p.Gln583His,ENST00000443023,;SATB2,missense_variant,p.Gln642His,ENST00000417098,;SATB2,missense_variant,p.Gln642His,ENST00000457245,;	A	ENSG00000119042	ENST00000417098	Transcript	missense_variant	2743	1926	642	Q/H	caG/caT	.	.	.	-1	SATB2	HGNC	21637	protein_coding	YES	CCDS2327.1	ENSP00000401112	SATB2_HUMAN	Q59FT3_HUMAN	UPI00000336B1	.	deleterious(0)	probably_damaging(0.979)	11/11	.	PROSITE_profiles:PS50071,hmmpanther:PTHR15116,hmmpanther:PTHR15116:SF15,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTCCTGGTC	.	5	BLCA
SP140	0	.	GRCh37	2	231090589	231090589	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30G>A	p.Met10Ile	p.M10I	ENST00000392045	1/27	41	30	11	41	41	0	SP140,missense_variant,p.Met10Ile,ENST00000417495,;SP140,missense_variant,p.Met10Ile,ENST00000392045,;SP140,missense_variant,p.Met10Ile,ENST00000343805,;SP140,missense_variant,p.Met10Ile,ENST00000373645,;SP140,missense_variant,p.Met10Ile,ENST00000486687,;SP140,missense_variant,p.Met10Ile,ENST00000420434,;SP140,missense_variant,p.Met10Ile,ENST00000456542,;SP140,5_prime_UTR_variant,,ENST00000350136,;SP110,upstream_gene_variant,,ENST00000416610,;SP110,upstream_gene_variant,,ENST00000540870,;SP140,upstream_gene_variant,,ENST00000544128,;SP140,upstream_gene_variant,,ENST00000538494,;SP140,non_coding_transcript_exon_variant,,ENST00000543928,;SP140,non_coding_transcript_exon_variant,,ENST00000473711,;	A	ENSG00000079263	ENST00000392045	Transcript	missense_variant	144	30	10	M/I	atG/atA	.	.	.	1	SP140	HGNC	17133	protein_coding	YES	CCDS42831.1	ENSP00000375899	SP140_HUMAN	.	UPI0000209746	.	deleterious(0.01)	benign(0)	1/27	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATGGCAAG	.	5	BLCA
ASXL2	0	.	GRCh37	2	25978935	25978935	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988G>A	p.Glu330Lys	p.E330K	ENST00000435504	10/13	62	57	5	83	83	0	ASXL2,missense_variant,p.Glu70Lys,ENST00000272341,;ASXL2,missense_variant,p.Glu302Lys,ENST00000336112,;ASXL2,missense_variant,p.Glu70Lys,ENST00000404843,;ASXL2,missense_variant,p.Glu330Lys,ENST00000435504,;	T	ENSG00000143970	ENST00000435504	Transcript	missense_variant	1282	988	330	E/K	Gaa/Aaa	COSM418771,COSM3839192,COSM3839191,COSM418770	.	.	-1	ASXL2	HGNC	23805	protein_coding	YES	.	ENSP00000391447	ASXL2_HUMAN	.	UPI00001DFBE8	.	deleterious(0)	probably_damaging(1)	10/13	.	hmmpanther:PTHR13578:SF11,hmmpanther:PTHR13578,Pfam_domain:PF13919	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAATTCATTGT	.	2	BLCA
ASXL2	0	.	GRCh37	2	25978974	25978974	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949G>C	p.Asp317His	p.D317H	ENST00000435504	10/13	51	46	4	58	58	0	ASXL2,missense_variant,p.Asp57His,ENST00000272341,;ASXL2,missense_variant,p.Asp289His,ENST00000336112,;ASXL2,missense_variant,p.Asp57His,ENST00000404843,;ASXL2,missense_variant,p.Asp317His,ENST00000435504,;	G	ENSG00000143970	ENST00000435504	Transcript	missense_variant	1243	949	317	D/H	Gat/Cat	.	.	.	-1	ASXL2	HGNC	23805	protein_coding	YES	.	ENSP00000391447	ASXL2_HUMAN	.	UPI00001DFBE8	.	deleterious(0)	probably_damaging(1)	10/13	.	hmmpanther:PTHR13578:SF11,hmmpanther:PTHR13578,Pfam_domain:PF13919	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCATCTGGAC	.	2	BLCA
FOSL2	0	.	GRCh37	2	28634949	28634950	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616dupC	p.Leu206ProfsTer53	p.L206Pfs*53	ENST00000264716	4/4	102	87	15	83	83	0	FOSL2,frameshift_variant,p.Leu167ProfsTer?,ENST00000436647,;FOSL2,frameshift_variant,p.Leu206ProfsTer53,ENST00000264716,;FOSL2,frameshift_variant,p.Leu198ProfsTer53,ENST00000379619,;FOSL2,frameshift_variant,p.Leu167ProfsTer53,ENST00000545753,;FOSL2,downstream_gene_variant,,ENST00000460736,;	C	ENSG00000075426	ENST00000264716	Transcript	frameshift_variant	1478-1479	615-616	205-206	-/X	-/C	.	.	.	1	FOSL2	HGNC	3798	protein_coding	YES	CCDS1766.1	ENSP00000264716	FOSL2_HUMAN	C9JCN8_HUMAN	UPI000004F8AB	.	.	.	4/4	.	hmmpanther:PTHR23351:SF25,hmmpanther:PTHR23351	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTGGGCTGCA	.	3	BLCA
NDUFB4	0	.	GRCh37	3	120320143	120320143	+	Intron	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327+39G>A	.	.	ENST00000184266	.	62	49	12	83	83	0	NDUFB4,3_prime_UTR_variant,,ENST00000485064,;NDUFB4,intron_variant,,ENST00000492739,;NDUFB4,intron_variant,,ENST00000184266,;NDUFB4,3_prime_UTR_variant,,ENST00000461682,;NDUFB4,intron_variant,,ENST00000496588,;NDUFB4,intron_variant,,ENST00000491335,;	A	ENSG00000065518	ENST00000184266	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	NDUFB4	HGNC	7699	protein_coding	YES	CCDS2999.1	ENSP00000184266	NDUB4_HUMAN	.	UPI000013C5EA	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATAGGTTCA	.	5	BLCA
GRIP2	0	.	GRCh37	3	14549069	14549069	+	Intron	SNP	G	G	A	rs201795778	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2283C>T	.	.	ENST00000273083	18/24	33	27	6	59	59	0	GRIP2,splice_region_variant,,ENST00000430219,;GRIP2,splice_region_variant,,ENST00000273083,;GRIP2,splice_region_variant,,ENST00000443613,;GRIP2,splice_region_variant,,ENST00000507975,;GRIP2,splice_region_variant,,ENST00000383795,;	A	ENSG00000144596	ENST00000273083	Transcript	splice_region_variant	2283	.	.	.	.	rs201795778	.	.	-1	GRIP2	HGNC	23841	processed_transcript	YES	.	.	.	.	.	.	.	.	18/24	.	.	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	C:0.0029	C:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCACGGTCTA	byCluster|by1000G	5	BLCA
HES1	0	.	GRCh37	3	193855884	193855885	+	Frame_Shift_Ins	INS	-	-	GG	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708_709dupGG	p.Ala237GlyfsTer80	p.A237Gfs*80	ENST00000232424	4/4	27	23	4	40	40	0	HES1,frameshift_variant,p.Ala237GlyfsTer80,ENST00000232424,;HES1,downstream_gene_variant,,ENST00000476918,;	GG	ENSG00000114315	ENST00000232424	Transcript	frameshift_variant	941-942	705-706	235-236	-/X	-/GG	.	.	.	1	HES1	HGNC	5192	protein_coding	YES	CCDS3305.1	ENSP00000232424	HES1_HUMAN	Q8IXV0_HUMAN	UPI0000037B01	.	.	.	4/4	.	hmmpanther:PTHR10985,hmmpanther:PTHR10985:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCAACGGGGC	.	3	BLCA
XXYLT1	0	.	GRCh37	3	194991370	194991370	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418C>G	p.His140Asp	p.H140D	ENST00000310380	1/4	23	13	10	26	26	0	XXYLT1,missense_variant,p.His140Asp,ENST00000310380,;ACAP2,downstream_gene_variant,,ENST00000326793,;XXYLT1,missense_variant,p.His75Asp,ENST00000455281,;	C	ENSG00000173950	ENST00000310380	Transcript	missense_variant	527	418	140	H/D	Cac/Gac	.	.	.	-1	XXYLT1	HGNC	26639	protein_coding	YES	CCDS43188.1	ENSP00000309640	XXLT1_HUMAN	.	UPI000003B10F	.	deleterious(0.01)	benign(0.055)	1/4	.	hmmpanther:PTHR12270,hmmpanther:PTHR12270:SF17,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGTGAAGGT	.	5	BLCA
KIAA1109	0	.	GRCh37	4	123140664	123140664	+	Missense_Mutation	SNP	G	G	A	rs370494942	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2417G>A	p.Arg806His	p.R806H	ENST00000264501	21/86	64	54	9	72	72	0	KIAA1109,missense_variant,p.Arg639His,ENST00000424425,;KIAA1109,missense_variant,p.Arg806His,ENST00000455637,;KIAA1109,missense_variant,p.Arg806His,ENST00000264501,;KIAA1109,missense_variant,p.Arg806His,ENST00000388738,;KIAA1109,missense_variant,p.Arg14His,ENST00000449251,;KIAA1109,non_coding_transcript_exon_variant,,ENST00000495260,;KIAA1109,non_coding_transcript_exon_variant,,ENST00000482114,;	A	ENSG00000138688	ENST00000264501	Transcript	missense_variant	2790	2417	806	R/H	cGt/cAt	rs370494942,COSM217295	.	.	1	KIAA1109	HGNC	26953	protein_coding	YES	CCDS43267.1	ENSP00000264501	K1109_HUMAN	B3KN93_HUMAN	UPI0000DD87B4	.	.	probably_damaging(0.997)	21/86	.	hmmpanther:PTHR31640:SF1,hmmpanther:PTHR31640	.	.	.	.	.	.	.	A:0.0003	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGCGTCCTT	byFrequency|byCluster	5	BLCA
PROL1	0	.	GRCh37	4	71275637	71275637	+	Missense_Mutation	SNP	G	G	A	rs199851403	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592G>A	p.Ala198Thr	p.A198T	ENST00000399575	3/3	87	72	15	107	107	0	PROL1,missense_variant,p.Ala198Thr,ENST00000399575,;PROL1,downstream_gene_variant,,ENST00000514338,;PROL1,downstream_gene_variant,,ENST00000505023,;	A	ENSG00000171199	ENST00000399575	Transcript	missense_variant	766	592	198	A/T	Gca/Aca	rs199851403	.	.	1	PROL1	HGNC	17279	protein_coding	YES	CCDS43235.1	ENSP00000382485	PROL1_HUMAN	.	UPI000020BE52	.	tolerated_low_confidence(1)	unknown(0)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14179,hmmpanther:PTHR14179:SF8	A:0.0004	A:0	A:0	.	A:0.002	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCCGCAGCA	byFrequency|byCluster|by1000G	4	BLCA
DNAH5	0	.	GRCh37	5	13830162	13830162	+	Silent	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6222C>T	p.%3D	p.N2074N	ENST00000265104	37/79	42	34	8	30	30	0	DNAH5,synonymous_variant,p.%3D,ENST00000265104,;	A	ENSG00000039139	ENST00000265104	Transcript	synonymous_variant	6327	6222	2074	N	aaC/aaT	.	.	.	-1	DNAH5	HGNC	2950	protein_coding	YES	CCDS3882.1	ENSP00000265104	DYH5_HUMAN	O95496_HUMAN	UPI0000110101	.	.	.	37/79	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,Pfam_domain:PF12774,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGGGTTCAT	.	5	BLCA
PCDHGA10	0	.	GRCh37	5	140794390	140794390	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1648G>A	p.Val550Met	p.V550M	ENST00000398610	1/4	221	135	85	301	301	0	PCDHGA10,missense_variant,p.Val550Met,ENST00000398610,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB7,upstream_gene_variant,,ENST00000398594,;	A	ENSG00000253846	ENST00000398610	Transcript	missense_variant	1648	1648	550	V/M	Gtg/Atg	.	.	.	1	PCDHGA10	HGNC	8697	protein_coding	YES	CCDS47292.1	ENSP00000381611	PCDGA_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000726C3	.	tolerated_low_confidence(0.05)	possibly_damaging(0.694)	1/4	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF110,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAACGTGTCG	.	5	BLCA
DDX41	0	.	GRCh37	5	176939803	176939803	+	Silent	SNP	G	G	A	rs748765304	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1377C>T	p.%3D	p.A459A	ENST00000507955	13/17	197	133	64	273	273	0	DDX41,synonymous_variant,p.%3D,ENST00000330503,;DDX41,synonymous_variant,p.%3D,ENST00000507955,;DOK3,upstream_gene_variant,,ENST00000312943,;DOK3,upstream_gene_variant,,ENST00000502885,;DOK3,upstream_gene_variant,,ENST00000510898,;DOK3,upstream_gene_variant,,ENST00000510380,;DOK3,upstream_gene_variant,,ENST00000510389,;DOK3,upstream_gene_variant,,ENST00000377112,;DOK3,upstream_gene_variant,,ENST00000509310,;DOK3,upstream_gene_variant,,ENST00000506493,;DOK3,upstream_gene_variant,,ENST00000501403,;DOK3,upstream_gene_variant,,ENST00000357198,;DDX41,downstream_gene_variant,,ENST00000506965,;DDX41,non_coding_transcript_exon_variant,,ENST00000507900,;DDX41,non_coding_transcript_exon_variant,,ENST00000505081,;DDX41,non_coding_transcript_exon_variant,,ENST00000504807,;DDX41,non_coding_transcript_exon_variant,,ENST00000503078,;DOK3,upstream_gene_variant,,ENST00000500323,;DDX41,downstream_gene_variant,,ENST00000512027,;DDX41,upstream_gene_variant,,ENST00000512334,;DDX41,downstream_gene_variant,,ENST00000508279,;DDX41,downstream_gene_variant,,ENST00000509576,;DOK3,upstream_gene_variant,,ENST00000512660,;DDX41,downstream_gene_variant,,ENST00000511040,;DDX41,downstream_gene_variant,,ENST00000512431,;DDX41,downstream_gene_variant,,ENST00000513562,;DDX41,downstream_gene_variant,,ENST00000510171,;DOK3,upstream_gene_variant,,ENST00000502380,;DDX41,downstream_gene_variant,,ENST00000504781,;DDX41,downstream_gene_variant,,ENST00000515562,;	A	ENSG00000183258	ENST00000507955	Transcript	synonymous_variant	1901	1377	459	A	gcC/gcT	rs748765304	.	.	-1	DDX41	HGNC	18674	protein_coding	YES	CCDS4427.1	ENSP00000422753	DDX41_HUMAN	B3KRK2_HUMAN	UPI0000125164	.	.	.	13/17	.	Superfamily_domains:SSF52540,SMART_domains:SM00490,Pfam_domain:PF00271,Gene3D:3.40.50.300,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF20,PROSITE_profiles:PS51194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTACGGCCTC	byFrequency	5	BLCA
ZNF454	0	.	GRCh37	5	178369781	178369781	+	5'UTR	SNP	G	G	A	rs200585497	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-12G>A	.	.	ENST00000320129	2/5	33	21	11	63	63	0	ZNF454,5_prime_UTR_variant,,ENST00000519564,;ZNF454,5_prime_UTR_variant,,ENST00000320129,;RP11-281O15.8,upstream_gene_variant,,ENST00000606195,;ZNF454,non_coding_transcript_exon_variant,,ENST00000522827,;	A	ENSG00000178187	ENST00000320129	Transcript	5_prime_UTR_variant	292	.	.	.	.	rs200585497	.	.	1	ZNF454	HGNC	21200	protein_coding	YES	CCDS4441.1	ENSP00000326249	ZN454_HUMAN	.	UPI00001407C7	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATCGGAGAA	byCluster	5	BLCA
GRM6	0	.	GRCh37	5	178413884	178413884	+	Silent	SNP	G	G	A	rs149519053	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1455C>T	p.%3D	p.G485G	ENST00000231188	7/10	45	24	21	57	57	0	GRM6,synonymous_variant,p.%3D,ENST00000231188,;GRM6,synonymous_variant,p.%3D,ENST00000517717,;RP11-281O15.4,intron_variant,,ENST00000519491,;GRM6,non_coding_transcript_exon_variant,,ENST00000518082,;GRM6,upstream_gene_variant,,ENST00000519003,;	A	ENSG00000113262	ENST00000231188	Transcript	synonymous_variant	1634	1455	485	G	ggC/ggT	rs149519053,COSM79948	.	.	-1	GRM6	HGNC	4598	protein_coding	YES	CCDS4442.1	ENSP00000231188	GRM6_HUMAN	.	UPI000013C947	.	.	.	7/10	.	Prints_domain:PR01056,Superfamily_domains:SSF53822,hmmpanther:PTHR24060,hmmpanther:PTHR24060:SF24	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0	A:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCCGCCACT	byCluster|by1000G	5	BLCA
HIST1H2AD	0	.	GRCh37	6	26199198	26199198	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>C	p.Glu92Gln	p.E92Q	ENST00000341023	1/1	126	95	31	141	141	0	HIST1H2AD,missense_variant,p.Glu92Gln,ENST00000341023,;HIST1H3D,5_prime_UTR_variant,,ENST00000377831,;HIST1H2BF,upstream_gene_variant,,ENST00000359985,;HIST1H3D,upstream_gene_variant,,ENST00000356476,;HIST1H1PS1,downstream_gene_variant,,ENST00000404269,;RP1-34B20.4,upstream_gene_variant,,ENST00000405418,;	G	ENSG00000196866	ENST00000341023	Transcript	missense_variant	274	274	92	E/Q	Gag/Cag	.	.	.	-1	HIST1H2AD	HGNC	4729	protein_coding	YES	CCDS4591.1	ENSP00000341094	H2A1D_HUMAN	.	UPI0000001C04	.	deleterious_low_confidence(0.02)	probably_damaging(0.916)	1/1	.	hmmpanther:PTHR23430:SF24,hmmpanther:PTHR23430,Gene3D:1.10.20.10,SMART_domains:SM00414,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCGTCGT	.	5	BLCA
PRSS16	0	.	GRCh37	6	27219022	27219022	+	Silent	SNP	C	C	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696C>A	p.%3D	p.T232T	ENST00000230582	7/12	73	58	15	70	70	0	PRSS16,synonymous_variant,p.%3D,ENST00000230582,;PRSS16,intron_variant,,ENST00000485993,;PRSS16,intron_variant,,ENST00000475106,;PRSS16,intron_variant,,ENST00000421826,;PRSS16,upstream_gene_variant,,ENST00000468138,;PRSS16,upstream_gene_variant,,ENST00000459736,;PRSS16,upstream_gene_variant,,ENST00000471463,;PRSS16,upstream_gene_variant,,ENST00000484493,;PRSS16,upstream_gene_variant,,ENST00000478690,;PRSS16,upstream_gene_variant,,ENST00000377456,;PRSS16,non_coding_transcript_exon_variant,,ENST00000481125,;PRSS16,non_coding_transcript_exon_variant,,ENST00000492575,;PRSS16,non_coding_transcript_exon_variant,,ENST00000495683,;PRSS16,non_coding_transcript_exon_variant,,ENST00000488649,;PRSS16,non_coding_transcript_exon_variant,,ENST00000462664,;PRSS16,intron_variant,,ENST00000466364,;PRSS16,intron_variant,,ENST00000470870,;PRSS16,intron_variant,,ENST00000454665,;PRSS16,intron_variant,,ENST00000468930,;PRSS16,upstream_gene_variant,,ENST00000485603,;	A	ENSG00000112812	ENST00000230582	Transcript	synonymous_variant	711	696	232	T	acC/acA	.	.	.	1	PRSS16	HGNC	9480	protein_coding	YES	CCDS4623.1	ENSP00000230582	TSSP_HUMAN	Q7Z5N5_HUMAN	UPI0000137773	.	.	.	7/12	.	hmmpanther:PTHR11010,hmmpanther:PTHR11010:SF22,Gene3D:3.40.50.1820,Pfam_domain:PF05577,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCACCGCGAT	.	5	BLCA
FAM135A	0	.	GRCh37	6	71235927	71235927	+	Missense_Mutation	SNP	G	G	T	rs765770230	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3140G>T	p.Ser1047Ile	p.S1047I	ENST00000418814	15/22	43	38	5	39	39	0	FAM135A,missense_variant,p.Ser834Ile,ENST00000457062,;FAM135A,missense_variant,p.Ser1047Ile,ENST00000505868,;FAM135A,missense_variant,p.Ser851Ile,ENST00000361499,;FAM135A,missense_variant,p.Ser627Ile,ENST00000505769,;FAM135A,missense_variant,p.Ser1047Ile,ENST00000418814,;FAM135A,missense_variant,p.Ser834Ile,ENST00000370479,;FAM135A,downstream_gene_variant,,ENST00000515323,;FAM135A,3_prime_UTR_variant,,ENST00000194672,;FAM135A,downstream_gene_variant,,ENST00000393299,;	T	ENSG00000082269	ENST00000418814	Transcript	missense_variant	3754	3140	1047	S/I	aGc/aTc	rs765770230,COSM3949441,COSM3949440	.	.	1	FAM135A	HGNC	21084	protein_coding	YES	CCDS55028.1	ENSP00000410768	F135A_HUMAN	D6RFG9_HUMAN,D6REA8_HUMAN,D6RC17_HUMAN	UPI000004A0FF	.	deleterious(0)	possibly_damaging(0.797)	15/22	.	hmmpanther:PTHR12482,hmmpanther:PTHR12482:SF12	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAAAGCAGTA	.	2	BLCA
KMT2E	0	.	GRCh37	7	104714099	104714099	+	Missense_Mutation	SNP	A	A	T	rs754517302	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531A>T	p.Gln177His	p.Q177H	ENST00000311117	7/27	26	23	3	19	19	0	KMT2E,missense_variant,p.Gln177His,ENST00000495267,;KMT2E,missense_variant,p.Gln177His,ENST00000257745,;KMT2E,missense_variant,p.Gln177His,ENST00000476671,;KMT2E,missense_variant,p.Gln177His,ENST00000311117,;KMT2E,missense_variant,p.Gln35His,ENST00000478990,;KMT2E,missense_variant,p.Gln177His,ENST00000334877,;KMT2E,5_prime_UTR_variant,,ENST00000334914,;KMT2E,missense_variant,p.Gln177His,ENST00000334884,;KMT2E,3_prime_UTR_variant,,ENST00000482560,;KMT2E,upstream_gene_variant,,ENST00000496191,;	T	ENSG00000005483	ENST00000311117	Transcript	missense_variant	1076	531	177	Q/H	caA/caT	rs754517302	.	.	1	KMT2E	HGNC	18541	protein_coding	YES	CCDS34723.1	ENSP00000312379	KMT2E_HUMAN	O95038_HUMAN,C9JQ68_HUMAN,C9JNE1_HUMAN	UPI0000074133	.	tolerated(0.06)	benign(0.216)	7/27	.	hmmpanther:PTHR16286,hmmpanther:PTHR16286:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTACAACGCCG	.	3	BLCA
ZNF786	0	.	GRCh37	7	148769115	148769115	+	Missense_Mutation	SNP	C	C	T	rs765306158	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.749G>A	p.Arg250His	p.R250H	ENST00000491431	4/4	34	26	8	27	27	0	ZNF786,missense_variant,p.Arg250His,ENST00000491431,;ZNF786,missense_variant,p.Arg164His,ENST00000316286,;ZNF786,missense_variant,p.Arg213His,ENST00000451334,;	T	ENSG00000197362	ENST00000491431	Transcript	missense_variant	814	749	250	R/H	cGc/cAc	rs765306158	.	.	-1	ZNF786	HGNC	21806	protein_coding	YES	CCDS47738.1	ENSP00000417470	ZN786_HUMAN	H7BXP3_HUMAN,B4DMI1_HUMAN	UPI000013FD40	.	tolerated(0.46)	benign(0.086)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24385:SF15,hmmpanther:PTHR24385,PROSITE_patterns:PS00028,Pfam_domain:PF13894,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGGCGGAAG	.	5	BLCA
GIMAP1	0	.	GRCh37	7	150417295	150417295	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.203C>T	p.Thr68Met	p.T68M	ENST00000307194	3/3	58	49	9	61	61	0	GIMAP1,missense_variant,p.Thr68Met,ENST00000307194,;GIMAP5,upstream_gene_variant,,ENST00000498181,;GIMAP1,downstream_gene_variant,,ENST00000464461,;	T	ENSG00000213203	ENST00000307194	Transcript	missense_variant	343	203	68	T/M	aCg/aTg	.	.	.	1	GIMAP1	HGNC	23237	protein_coding	YES	CCDS5906.1	ENSP00000302833	GIMA1_HUMAN	.	UPI0000073C9B	.	tolerated(0.12)	benign(0.028)	3/3	.	PROSITE_profiles:PS51720,hmmpanther:PTHR10903,hmmpanther:PTHR10903:SF46,Gene3D:3.40.50.300,Pfam_domain:PF04548,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCACGGGCA	.	4	BLCA
COBL	0	.	GRCh37	7	51092857	51092857	+	Silent	SNP	T	T	C	rs763260495	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3717A>G	p.%3D	p.Q1239Q	ENST00000265136	12/13	155	148	7	185	185	0	COBL,synonymous_variant,p.%3D,ENST00000265136,;COBL,synonymous_variant,p.%3D,ENST00000395542,;COBL,synonymous_variant,p.%3D,ENST00000431948,;COBL,synonymous_variant,p.%3D,ENST00000445054,;COBL,downstream_gene_variant,,ENST00000452534,;RP4-724E13.2,downstream_gene_variant,,ENST00000420449,;RP4-724E13.2,downstream_gene_variant,,ENST00000582616,;COBL,non_coding_transcript_exon_variant,,ENST00000462395,;	C	ENSG00000106078	ENST00000265136	Transcript	synonymous_variant	3883	3717	1239	Q	caA/caG	rs763260495	.	.	-1	COBL	HGNC	22199	protein_coding	YES	CCDS34637.1	ENSP00000265136	COBL_HUMAN	C9J9X1_HUMAN	UPI00001A9480	.	.	.	12/13	.	SMART_domains:SM00246,Pfam_domain:PF02205,hmmpanther:PTHR21557,hmmpanther:PTHR21557:SF1,PROSITE_profiles:PS51082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGGCTTGCCT	byFrequency	2	BLCA
CDK14	0	.	GRCh37	7	90708780	90708780	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1085G>C	p.Arg362Thr	p.R362T	ENST00000265741	11/14	16	12	4	20	20	0	CDK14,missense_variant,p.Arg251Thr,ENST00000436577,;CDK14,missense_variant,p.Arg334Thr,ENST00000406263,;CDK14,missense_variant,p.Arg362Thr,ENST00000265741,;CDK14,missense_variant,p.Arg380Thr,ENST00000380050,;	C	ENSG00000058091	ENST00000265741	Transcript	missense_variant	1229	1085	362	R/T	aGa/aCa	.	.	.	1	CDK14	HGNC	8883	protein_coding	YES	CCDS5619.1	ENSP00000265741	CDK14_HUMAN	C9JWL6_HUMAN,C9IYJ9_HUMAN	UPI0000161B93	.	tolerated(0.57)	benign(0.07)	11/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24056:SF154,hmmpanther:PTHR24056,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTAGACAAG	.	5	BLCA
ST18	0	.	GRCh37	8	53077746	53077746	+	Missense_Mutation	SNP	G	G	A	rs760075725	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1244C>T	p.Pro415Leu	p.P415L	ENST00000276480	12/26	145	119	25	110	110	0	ST18,missense_variant,p.Pro415Leu,ENST00000517580,;ST18,missense_variant,p.Pro415Leu,ENST00000276480,;ST18,3_prime_UTR_variant,,ENST00000521824,;ST18,3_prime_UTR_variant,,ENST00000522251,;ST18,3_prime_UTR_variant,,ENST00000521582,;	A	ENSG00000147488	ENST00000276480	Transcript	missense_variant	1928	1244	415	P/L	cCg/cTg	rs760075725,COSM3900592	.	.	-1	ST18	HGNC	18695	protein_coding	YES	CCDS6149.1	ENSP00000276480	ST18_HUMAN	E5RHS3_HUMAN	UPI0000046C30	.	deleterious(0.02)	probably_damaging(1)	12/26	.	hmmpanther:PTHR10816:SF9,hmmpanther:PTHR10816,Pfam_domain:PF01530,Superfamily_domains:0042508	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCCGGCGTG	byFrequency|byCluster	5	BLCA
SDR16C5	0	.	GRCh37	8	57224804	57224804	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.377C>T	p.Ala126Val	p.A126V	ENST00000303749	3/7	32	28	3	35	35	0	SDR16C5,missense_variant,p.Ala126Val,ENST00000522671,;SDR16C5,missense_variant,p.Ala126Val,ENST00000303749,;SDR16C5,intron_variant,,ENST00000396721,;	A	ENSG00000170786	ENST00000303749	Transcript	missense_variant	1015	377	126	A/V	gCc/gTc	.	.	.	-1	SDR16C5	HGNC	30311	protein_coding	YES	CCDS6167.1	ENSP00000307607	RDHE2_HUMAN	.	UPI000013E8E3	.	deleterious(0.01)	probably_damaging(0.999)	3/7	.	hmmpanther:PTHR24316:SF246,hmmpanther:PTHR24316,Pfam_domain:PF00106,Gene3D:3.40.50.720,Superfamily_domains:SSF51735,Prints_domain:PR00080,Prints_domain:PR00081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCCGGCATTG	.	3	BLCA
TNC	0	.	GRCh37	9	117827169	117827169	+	Missense_Mutation	SNP	C	C	T	rs369874534	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3244G>A	p.Val1082Met	p.V1082M	ENST00000350763	11/28	47	36	11	83	83	0	TNC,missense_variant,p.Val9Met,ENST00000544972,;TNC,missense_variant,p.Val1082Met,ENST00000341037,;TNC,missense_variant,p.Val1082Met,ENST00000350763,;TNC,missense_variant,p.Val1082Met,ENST00000423613,;TNC,intron_variant,,ENST00000345230,;TNC,intron_variant,,ENST00000542877,;TNC,intron_variant,,ENST00000346706,;TNC,intron_variant,,ENST00000537320,;TNC,intron_variant,,ENST00000535648,;TNC,intron_variant,,ENST00000340094,;TNC,intron_variant,,ENST00000473855,;TNC,intron_variant,,ENST00000498724,;TNC,upstream_gene_variant,,ENST00000476680,;	T	ENSG00000041982	ENST00000350763	Transcript	missense_variant	3656	3244	1082	V/M	Gtg/Atg	rs369874534	.	.	-1	TNC	HGNC	5318	protein_coding	YES	CCDS6811.1	ENSP00000265131	TENA_HUMAN	F5H5D6_HUMAN	UPI000013D5BD	.	deleterious(0.01)	probably_damaging(1)	11/28	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143:SF38,hmmpanther:PTHR19143,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	T:0	T:0.0003	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCACGGTGA	byFrequency|byCluster	5	BLCA
TSC1	0	.	GRCh37	9	135781127	135781127	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1838C>T	p.Pro613Leu	p.P613L	ENST00000298552	15/23	36	26	10	41	41	0	TSC1,missense_variant,p.Pro613Leu,ENST00000298552,;TSC1,missense_variant,p.Pro562Leu,ENST00000545250,;TSC1,missense_variant,p.Pro613Leu,ENST00000440111,;TSC1,downstream_gene_variant,,ENST00000493467,;	A	ENSG00000165699	ENST00000298552	Transcript	missense_variant	2060	1838	613	P/L	cCa/cTa	.	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	deleterious(0.01)	probably_damaging(0.997)	15/23	.	hmmpanther:PTHR15154,Pfam_domain:PF04388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGGCAAT	.	5	BLCA
IFNA8	0	.	GRCh37	9	21409674	21409674	+	Missense_Mutation	SNP	G	G	T	rs200979516	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499G>T	p.Val167Phe	p.V167F	ENST00000380205	1/1	98	93	5	178	178	0	IFNA8,missense_variant,p.Val167Phe,ENST00000380205,;	T	ENSG00000120242	ENST00000380205	Transcript	missense_variant	529	499	167	V/F	Gtc/Ttc	rs200979516	.	.	1	IFNA8	HGNC	5429	protein_coding	YES	CCDS6507.1	ENSP00000369553	IFNA8_HUMAN	.	UPI000002C35B	.	deleterious(0)	probably_damaging(0.995)	1/1	.	hmmpanther:PTHR11691,hmmpanther:PTHR11691:SF28,Pfam_domain:PF00143,Gene3D:1.20.1250.10,SMART_domains:SM00076,Superfamily_domains:SSF47266,Prints_domain:PR00266	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGTTGTCAGA	byCluster	2	BLCA
DOCK8	0	.	GRCh37	9	325718	325718	+	Missense_Mutation	SNP	A	A	G	rs759788300	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.875A>G	p.Asp292Gly	p.D292G	ENST00000453981	8/48	105	55	49	98	98	0	DOCK8,missense_variant,p.Asp224Gly,ENST00000432829,;DOCK8,missense_variant,p.Asp292Gly,ENST00000453981,;DOCK8,missense_variant,p.Asp224Gly,ENST00000469391,;DOCK8,missense_variant,p.Asp224Gly,ENST00000483757,;DOCK8,3_prime_UTR_variant,,ENST00000524396,;DOCK8,non_coding_transcript_exon_variant,,ENST00000382341,;DOCK8,non_coding_transcript_exon_variant,,ENST00000495184,;DOCK8,non_coding_transcript_exon_variant,,ENST00000454469,;	G	ENSG00000107099	ENST00000453981	Transcript	missense_variant	987	875	292	D/G	gAt/gGt	rs759788300,COSM347682,COSM347681	.	.	1	DOCK8	HGNC	19191	protein_coding	YES	CCDS6440.2	ENSP00000408464	DOCK8_HUMAN	E2J6M5_HUMAN,C9J7A3_HUMAN,C9J613_HUMAN	UPI0000E0B9E5	.	deleterious(0)	probably_damaging(0.999)	8/48	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF74	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACGATGTTA	.	5	BLCA
NRK	0	.	GRCh37	X	105152792	105152792	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165delG	p.Glu389AsnfsTer42	p.E389Nfs*42	ENST00000428173	13/29	80	67	13	54	54	0	NRK,frameshift_variant,p.Glu389AsnfsTer42,ENST00000428173,;NRK,frameshift_variant,p.Glu388AsnfsTer42,ENST00000243300,;	-	ENSG00000123572	ENST00000428173	Transcript	frameshift_variant	1465	1162	388	G/X	Ggg/gg	.	.	.	1	NRK	HGNC	25391	protein_coding	YES	.	ENSP00000438378	.	F5H049_HUMAN,B7Z6I7_HUMAN	UPI00015E03BB	.	.	.	13/29	.	hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF216	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTGCATGGGGAA	.	3	BLCA
MAP7D3	0	.	GRCh37	X	135328280	135328280	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.197A>G	p.Asp66Gly	p.D66G	ENST00000316077	3/19	61	49	11	61	61	0	MAP7D3,missense_variant,p.Asp48Gly,ENST00000370663,;MAP7D3,missense_variant,p.Asp66Gly,ENST00000370661,;MAP7D3,missense_variant,p.Asp66Gly,ENST00000370660,;MAP7D3,missense_variant,p.Asp66Gly,ENST00000316077,;	C	ENSG00000129680	ENST00000316077	Transcript	missense_variant	418	197	66	D/G	gAc/gGc	.	.	.	-1	MAP7D3	HGNC	25742	protein_coding	YES	CCDS44004.1	ENSP00000318086	MA7D3_HUMAN	.	UPI00001C207C	.	deleterious(0.01)	probably_damaging(0.994)	3/19	.	hmmpanther:PTHR15073:SF5,hmmpanther:PTHR15073	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATGTCATTT	.	5	BLCA
GPR112	0	.	GRCh37	X	135453499	135453499	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7409A>G	p.Asp2470Gly	p.D2470G	ENST00000394143	14/26	9	6	3	9	9	0	GPR112,missense_variant,p.Asp2268Gly,ENST00000287534,;GPR112,missense_variant,p.Asp2470Gly,ENST00000370652,;GPR112,missense_variant,p.Asp2470Gly,ENST00000394143,;GPR112,missense_variant,p.Asp2265Gly,ENST00000394141,;GPR112,missense_variant,p.Asp2265Gly,ENST00000412101,;	G	ENSG00000156920	ENST00000394143	Transcript	missense_variant	7700	7409	2470	D/G	gAt/gGt	.	.	.	1	GPR112	HGNC	18992	protein_coding	YES	CCDS35409.1	ENSP00000377699	GP112_HUMAN	.	UPI00004CEC5B	.	deleterious(0.01)	benign(0.367)	14/26	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAGGATGTTG	.	2	BLCA
AFF2	0	.	GRCh37	X	148048408	148048408	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3002T>C	p.Ile1001Thr	p.I1001T	ENST00000370460	14/21	94	70	23	80	80	0	AFF2,missense_variant,p.Ile1001Thr,ENST00000370460,;AFF2,missense_variant,p.Ile968Thr,ENST00000342251,;AFF2,missense_variant,p.Ile642Thr,ENST00000286437,;AFF2,missense_variant,p.Ile966Thr,ENST00000370457,;	C	ENSG00000155966	ENST00000370460	Transcript	missense_variant	3481	3002	1001	I/T	aTt/aCt	.	.	.	1	AFF2	HGNC	3776	protein_coding	YES	CCDS14684.1	ENSP00000359489	AFF2_HUMAN	.	UPI000049E130	.	tolerated(0.65)	benign(0.001)	14/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10528:SF13,hmmpanther:PTHR10528,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCATTGTCA	.	5	BLCA
F8	0	.	GRCh37	X	154091365	154091365	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6567T>A	p.Asp2189Glu	p.D2189E	ENST00000360256	23/26	72	54	18	74	74	0	F8,missense_variant,p.Asp2189Glu,ENST00000360256,;F8,missense_variant,p.Asp54Glu,ENST00000330287,;	T	ENSG00000185010	ENST00000360256	Transcript	missense_variant	6768	6567	2189	D/E	gaT/gaA	.	.	.	-1	F8	HGNC	3546	protein_coding	YES	CCDS35457.1	ENSP00000353393	FA8_HUMAN	Q9UQQ5_HUMAN,Q71UI6_HUMAN,Q2VF45_HUMAN,Q003V9_HUMAN,Q003V5_HUMAN,A0FJ19_HUMAN,A0A2G6_HUMAN	UPI000012A416	.	deleterious(0)	probably_damaging(0.965)	23/26	.	hmmpanther:PTHR10127:SF50,hmmpanther:PTHR10127,Gene3D:2.60.120.260,PIRSF_domain:PIRSF000354,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTAAATCACA	.	5	BLCA
CD99	0	.	GRCh37	X	2609969	2609969	+	Intron	SNP	T	T	G	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67+501T>G	.	.	ENST00000381192	.	26	19	7	19	19	0	CD99,missense_variant,p.Leu70Val,ENST00000381180,;CD99,intron_variant,,ENST00000381184,;CD99,intron_variant,,ENST00000449611,;CD99,intron_variant,,ENST00000381192,;CD99,intron_variant,,ENST00000381187,;CD99,intron_variant,,ENST00000482405,;	G	ENSG00000002586	ENST00000381192	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CD99	HGNC	7082	protein_coding	YES	CCDS14119.1	ENSP00000370588	CD99_HUMAN	.	UPI0000000C42	.	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAGTTAGAA	.	5	BLCA
MAGEB1	0	.	GRCh37	X	30269207	30269207	+	Silent	SNP	G	G	T	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597G>T	p.%3D	p.G199G	ENST00000378981	4/4	16	13	3	19	19	0	MAGEB1,synonymous_variant,p.%3D,ENST00000397548,;MAGEB1,synonymous_variant,p.%3D,ENST00000397550,;MAGEB1,synonymous_variant,p.%3D,ENST00000378981,;	T	ENSG00000214107	ENST00000378981	Transcript	synonymous_variant	918	597	199	G	ggG/ggT	.	.	.	1	MAGEB1	HGNC	6808	protein_coding	YES	CCDS14222.1	ENSP00000368264	MAGB1_HUMAN	.	UPI000012F053	.	.	.	4/4	.	Pfam_domain:PF01454,hmmpanther:PTHR11736:SF52,hmmpanther:PTHR11736,PROSITE_profiles:PS50838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATGGGCTTCT	.	2	BLCA
SLC9A7	0	.	GRCh37	X	46510748	46510748	+	Intron	SNP	C	C	A	novel	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1233+3G>T	.	.	ENST00000328306	.	68	56	12	68	68	0	SLC9A7,splice_region_variant,,ENST00000328306,;SLC9A7,intron_variant,,ENST00000489574,;PGAM1P7,upstream_gene_variant,,ENST00000413837,;	A	ENSG00000065923	ENST00000328306	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SLC9A7	HGNC	17123	protein_coding	YES	CCDS14269.1	ENSP00000330320	SL9A7_HUMAN	.	UPI0000071389	.	.	.	.	9/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCTCTCACCTG	.	3	BLCA
DLG3	0	.	GRCh37	X	69715265	69715265	+	Missense_Mutation	SNP	C	C	A	rs144335681	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1781C>A	p.Pro594Gln	p.P594Q	ENST00000374360	13/19	63	52	11	67	67	0	DLG3,missense_variant,p.Pro612Gln,ENST00000194900,;DLG3,missense_variant,p.Pro594Gln,ENST00000374360,;DLG3,intron_variant,,ENST00000542398,;DLG3,intron_variant,,ENST00000374355,;DLG3,non_coding_transcript_exon_variant,,ENST00000466140,;DLG3,intron_variant,,ENST00000489733,;DLG3,downstream_gene_variant,,ENST00000494493,;DLG3,upstream_gene_variant,,ENST00000461646,;DLG3,intron_variant,,ENST00000463252,;DLG3,upstream_gene_variant,,ENST00000496931,;	A	ENSG00000082458	ENST00000374360	Transcript	missense_variant	2014	1781	594	P/Q	cCg/cAg	rs144335681	.	.	1	DLG3	HGNC	2902	protein_coding	YES	CCDS14403.1	ENSP00000363480	DLG3_HUMAN	Q59FY1_HUMAN	UPI000013C60C	.	deleterious(0.03)	benign(0.244)	13/19	.	hmmpanther:PTHR23119:SF7,hmmpanther:PTHR23119,Gene3D:2.30.30.40,PIRSF_domain:PIRSF001741	T:0.0003	T:0	T:0.0014	.	T:0	T:0	T:0	T:0.0039	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCCCGGGGT	byCluster|by1000G	5	BLCA
XIST	0	.	GRCh37	X	73065233	73065233	+	RNA	SNP	C	C	T	rs748907245	.	TCGA-FD-A5BU-01A-31D-A26M-08	TCGA-FD-A5BU-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.7356G>A	.	.	ENST00000429829	1/6	120	92	27	126	126	0	XIST,non_coding_transcript_exon_variant,,ENST00000429829,;XIST,upstream_gene_variant,,ENST00000602863,;	T	ENSG00000229807	ENST00000429829	Transcript	non_coding_transcript_exon_variant	7356	.	.	.	.	rs748907245	.	.	-1	XIST	HGNC	12810	lincRNA	YES	.	.	.	.	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATGCACATT	byFrequency	5	BLCA
TACC2	0	.	GRCh37	10	123842816	123842816	+	Silent	SNP	G	G	A	rs768595912	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.801G>A	p.%3D	p.E267E	ENST00000369005	4/23	171	138	32	148	148	0	TACC2,synonymous_variant,p.%3D,ENST00000453444,;TACC2,synonymous_variant,p.%3D,ENST00000369005,;TACC2,synonymous_variant,p.%3D,ENST00000334433,;TACC2,synonymous_variant,p.%3D,ENST00000515603,;TACC2,synonymous_variant,p.%3D,ENST00000515273,;TACC2,intron_variant,,ENST00000358010,;TACC2,intron_variant,,ENST00000513429,;TACC2,downstream_gene_variant,,ENST00000491540,;TACC2,downstream_gene_variant,,ENST00000498721,;	A	ENSG00000138162	ENST00000369005	Transcript	synonymous_variant	1141	801	267	E	gaG/gaA	rs768595912	.	.	1	TACC2	HGNC	11523	protein_coding	YES	CCDS7626.1	ENSP00000358001	TACC2_HUMAN	.	UPI0000246F6B	.	.	.	4/23	.	hmmpanther:PTHR13924,hmmpanther:PTHR13924:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGAGAAGTC	.	4	BLCA
ANKRD30A	0	.	GRCh37	10	37442566	37442566	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1606G>C	p.Asp536His	p.D536H	ENST00000361713	13/36	127	98	29	137	137	0	ANKRD30A,missense_variant,p.Asp536His,ENST00000374660,;ANKRD30A,missense_variant,p.Asp536His,ENST00000361713,;ANKRD30A,missense_variant,p.Asp536His,ENST00000602533,;	C	ENSG00000148513	ENST00000361713	Transcript	missense_variant	1705	1606	536	D/H	Gat/Cat	.	.	.	1	ANKRD30A	HGNC	17234	protein_coding	YES	CCDS7193.1	ENSP00000354432	AN30A_HUMAN	R4GNA2_HUMAN	UPI0000458879	.	tolerated(0.07)	benign(0.265)	13/36	.	hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATAGATAAA	.	5	BLCA
RBP3	0	.	GRCh37	10	48388416	48388416	+	Missense_Mutation	SNP	G	G	A	rs782069869	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2462C>T	p.Thr821Met	p.T821M	ENST00000224600	1/4	40	36	4	37	37	0	RBP3,missense_variant,p.Thr821Met,ENST00000224600,;AL731561.2,downstream_gene_variant,,ENST00000581861,;	A	ENSG00000107618	ENST00000224600	Transcript	missense_variant	2576	2462	821	T/M	aCg/aTg	rs782069869	.	.	-1	RBP3	HGNC	9921	protein_coding	YES	CCDS7218.1	ENSP00000224600	RET3_HUMAN	.	UPI000012D87A	.	tolerated(0.08)	probably_damaging(0.938)	1/4	.	hmmpanther:PTHR11261,hmmpanther:PTHR11261:SF1,Pfam_domain:PF03572,Gene3D:3.90.226.10,SMART_domains:SM00245,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCTCCGTGACT	byFrequency	2	BLCA
NUCB2	0	.	GRCh37	11	17352548	17352548	+	Intron	SNP	A	A	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1255+18A>T	.	.	ENST00000529010	.	37	22	15	14	14	0	NUCB2,3_prime_UTR_variant,,ENST00000323688,;NUCB2,intron_variant,,ENST00000529010,;NUCB2,intron_variant,,ENST00000527580,;NUCB2,intron_variant,,ENST00000458064,;NUCB2,intron_variant,,ENST00000527735,;NUCB2,upstream_gene_variant,,ENST00000532240,;NUCB2,intron_variant,,ENST00000533773,;NUCB2,intron_variant,,ENST00000531242,;	T	ENSG00000070081	ENST00000529010	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	NUCB2	HGNC	8044	protein_coding	YES	CCDS41623.1	ENSP00000436455	NUCB2_HUMAN	E9PRQ3_HUMAN,E9PM22_HUMAN,E9PLR5_HUMAN,E9PLR0_HUMAN,E9PLE9_HUMAN,E9PJP3_HUMAN	UPI000013D6B1	.	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTGATTATT	.	2	BLCA
OOSP2	0	.	GRCh37	11	59814567	59814567	+	3'UTR	SNP	T	T	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*21T>C	.	.	ENST00000278855	4/4	85	60	25	59	59	0	OOSP2,3_prime_UTR_variant,,ENST00000278855,;OOSP2,downstream_gene_variant,,ENST00000532905,;OOSP2,downstream_gene_variant,,ENST00000527395,;	C	ENSG00000149507	ENST00000278855	Transcript	3_prime_UTR_variant	683	.	.	.	.	.	.	.	1	OOSP2	HGNC	26699	protein_coding	YES	CCDS7979.1	ENSP00000278855	OOSP2_HUMAN	.	UPI000000DC90	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAACTTGAAG	.	5	BLCA
SLC6A12	0	.	GRCh37	12	306028	306028	+	Missense_Mutation	SNP	C	C	T	rs151111165	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1096G>A	p.Ala366Thr	p.A366T	ENST00000428720	11/16	117	85	32	103	103	0	SLC6A12,missense_variant,p.Ala366Thr,ENST00000536824,;SLC6A12,missense_variant,p.Ala366Thr,ENST00000359674,;SLC6A12,missense_variant,p.Ala366Thr,ENST00000397296,;SLC6A12,missense_variant,p.Ala366Thr,ENST00000428720,;SLC6A12,missense_variant,p.Ala366Thr,ENST00000424061,;RP11-283I3.1,downstream_gene_variant,,ENST00000544067,;SLC6A12,non_coding_transcript_exon_variant,,ENST00000535498,;SLC6A12,downstream_gene_variant,,ENST00000538272,;SLC6A12,non_coding_transcript_exon_variant,,ENST00000542825,;SLC6A12,non_coding_transcript_exon_variant,,ENST00000544782,;SLC6A12,intron_variant,,ENST00000545058,;SLC6A12,downstream_gene_variant,,ENST00000538580,;SLC6A12,downstream_gene_variant,,ENST00000540094,;	T	ENSG00000111181	ENST00000428720	Transcript	missense_variant	1840	1096	366	A/T	Gcc/Acc	rs151111165	.	.	-1	SLC6A12	HGNC	11045	protein_coding	YES	CCDS8501.1	ENSP00000388184	S6A12_HUMAN	F5H2T6_HUMAN,B3KTU1_HUMAN	UPI000013C8DB	.	deleterious(0.01)	probably_damaging(1)	11/16	.	PROSITE_profiles:PS50267,hmmpanther:PTHR11616,hmmpanther:PTHR11616:SF118,Pfam_domain:PF00209,Superfamily_domains:0053687	.	.	.	.	.	.	.	T:0.0009	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGGCGATGA	byFrequency|byCluster	5	BLCA
TSPAN9	0	.	GRCh37	12	3390945	3390945	+	Missense_Mutation	SNP	G	G	C	rs139909672	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610G>C	p.Val204Leu	p.V204L	ENST00000011898	8/9	75	61	13	40	40	0	TSPAN9,missense_variant,p.Val204Leu,ENST00000407263,;TSPAN9,missense_variant,p.Val204Leu,ENST00000011898,;TSPAN9,missense_variant,p.Val204Leu,ENST00000537971,;TSPAN9,downstream_gene_variant,,ENST00000431374,;TSPAN9,downstream_gene_variant,,ENST00000492305,;TSPAN9,downstream_gene_variant,,ENST00000444315,;	C	ENSG00000011105	ENST00000011898	Transcript	missense_variant	771	610	204	V/L	Gtg/Ctg	rs139909672	.	.	1	TSPAN9	HGNC	21640	protein_coding	YES	CCDS8520.1	ENSP00000011898	TSN9_HUMAN	.	UPI000004F1F1	.	tolerated(0.93)	benign(0.004)	8/9	.	Prints_domain:PR00259,PIRSF_domain:PIRSF002419,Pfam_domain:PF00335,hmmpanther:PTHR19282,hmmpanther:PTHR19282:SF41	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCACGTGCTG	byCluster	5	BLCA
SLC38A2	0	.	GRCh37	12	46754960	46754960	+	Silent	SNP	C	C	A	.	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1455G>T	p.%3D	p.V485V	ENST00000256689	16/16	61	35	26	38	38	0	SLC38A2,synonymous_variant,p.%3D,ENST00000256689,;SLC38A2,synonymous_variant,p.%3D,ENST00000551374,;SLC38A2,downstream_gene_variant,,ENST00000548870,;SLC38A2,downstream_gene_variant,,ENST00000548111,;SLC38A2,downstream_gene_variant,,ENST00000547252,;SLC38A2,3_prime_UTR_variant,,ENST00000549258,;SLC38A2,non_coding_transcript_exon_variant,,ENST00000552703,;SLC38A2,non_coding_transcript_exon_variant,,ENST00000546520,;SLC38A2,downstream_gene_variant,,ENST00000548785,;SLC38A2,downstream_gene_variant,,ENST00000552414,;SLC38A2,downstream_gene_variant,,ENST00000548236,;	A	ENSG00000134294	ENST00000256689	Transcript	synonymous_variant	1900	1455	485	V	gtG/gtT	COSM1476568	.	.	-1	SLC38A2	HGNC	13448	protein_coding	YES	CCDS8749.1	ENSP00000256689	S38A2_HUMAN	.	UPI000000121A	.	.	.	16/16	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22950,hmmpanther:PTHR22950:SF207,Pfam_domain:PF01490	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCATCACCAG	.	5	BLCA
MFSD5	0	.	GRCh37	12	53647742	53647742	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1444G>A	p.Ala482Thr	p.A482T	ENST00000534842	2/2	144	93	51	102	102	0	MFSD5,missense_variant,p.Ala375Thr,ENST00000329548,;MFSD5,missense_variant,p.Ala482Thr,ENST00000534842,;MFSD5,downstream_gene_variant,,ENST00000551660,;MFSD5,downstream_gene_variant,,ENST00000546655,;MFSD5,downstream_gene_variant,,ENST00000552097,;	A	ENSG00000182544	ENST00000534842	Transcript	missense_variant	1591	1444	482	A/T	Gct/Act	.	.	.	1	MFSD5	HGNC	28156	protein_coding	YES	CCDS53796.1	ENSP00000442688	MFSD5_HUMAN	F8VV69_HUMAN	UPI0000EE2648	.	tolerated(0.14)	benign(0.069)	2/2	.	hmmpanther:PTHR24003:SF500,hmmpanther:PTHR24003,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCAGGCTGGT	.	5	BLCA
OR4K13	0	.	GRCh37	14	20502372	20502372	+	Silent	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546C>T	p.%3D	p.P182P	ENST00000315693	1/1	130	86	44	111	111	0	OR4K13,synonymous_variant,p.%3D,ENST00000315693,;AL359218.1,downstream_gene_variant,,ENST00000580563,;	A	ENSG00000176253	ENST00000315693	Transcript	synonymous_variant	548	546	182	P	ccC/ccT	.	.	.	-1	OR4K13	HGNC	15351	protein_coding	YES	CCDS32028.1	ENSP00000319322	OR4KD_HUMAN	.	UPI0000041CEB	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF123,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAAGGGGAAG	.	5	BLCA
GOLGA8I	0	.	GRCh37	15	23261774	23261774	+	Missense_Mutation	SNP	C	C	A	rs755358074	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.886C>A	p.Pro296Thr	p.P296T	ENST00000450802	12/19	114	73	40	99	99	0	GOLGA8I,missense_variant,p.Pro296Thr,ENST00000450802,;AC091565.1,upstream_gene_variant,,ENST00000459619,;RN7SL495P,upstream_gene_variant,,ENST00000461817,;GOLGA8I,non_coding_transcript_exon_variant,,ENST00000339078,;	A	ENSG00000153666	ENST00000450802	Transcript	missense_variant	984	886	296	P/T	Ccc/Acc	rs755358074	.	.	1	GOLGA8I	HGNC	26660	protein_coding	YES	.	ENSP00000399637	GOG8I_HUMAN	.	UPI0000E59B79	.	deleterious(0.02)	benign(0.187)	12/19	.	Pfam_domain:PF15070,hmmpanther:PTHR10881,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTGCCCCCG	.	5	BLCA
TLN2	0	.	GRCh37	15	63009828	63009828	+	Silent	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2817G>A	p.%3D	p.Q939Q	ENST00000561311	23/58	16	7	9	15	15	0	TLN2,synonymous_variant,p.%3D,ENST00000561311,;TLN2,synonymous_variant,p.%3D,ENST00000306829,;	A	ENSG00000171914	ENST00000561311	Transcript	synonymous_variant	3047	2817	939	Q	caG/caA	.	.	.	1	TLN2	HGNC	15447	protein_coding	YES	CCDS32261.1	ENSP00000453508	TLN2_HUMAN	.	UPI00001FE5FC	.	.	.	23/58	.	Low_complexity_(Seg):seg,Gene3D:1.20.1490.10,hmmpanther:PTHR19981,hmmpanther:PTHR19981:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCAGAATGC	.	5	BLCA
RP11-385D13.1	0	.	GRCh37	17	15516960	15516960	+	Missense_Mutation	SNP	C	C	T	rs757777592	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1898G>A	p.Gly633Asp	p.G633D	ENST00000455584	10/17	82	61	21	57	57	0	RP11-385D13.1,missense_variant,p.Gly633Asp,ENST00000455584,;CDRT1,missense_variant,p.Gly147Asp,ENST00000261644,;CDRT1,missense_variant,p.Gly323Asp,ENST00000395906,;	T	ENSG00000251537	ENST00000455584	Transcript	missense_variant	1942	1898	633	G/D	gGc/gAc	rs757777592	.	.	-1	RP11-385D13.1	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000402644	.	H0Y626_HUMAN,J3QKY5_HUMAN	UPI000268AF94	.	tolerated_low_confidence(0.19)	benign(0.037)	10/17	.	hmmpanther:PTHR19872,hmmpanther:PTHR19872:SF7,Superfamily_domains:SSF81383	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAGCCGTGC	.	4	BLCA
RNF135	0	.	GRCh37	17	29325726	29325726	+	Silent	SNP	G	G	A	rs756758868	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.816G>A	p.%3D	p.L272L	ENST00000328381	5/5	178	114	63	116	116	0	RNF135,synonymous_variant,p.%3D,ENST00000328381,;RNF135,3_prime_UTR_variant,,ENST00000324689,;RNF135,3_prime_UTR_variant,,ENST00000443677,;RNF135,3_prime_UTR_variant,,ENST00000535306,;RNF135,downstream_gene_variant,,ENST00000434242,;RNF135,downstream_gene_variant,,ENST00000580444,;	A	ENSG00000181481	ENST00000328381	Transcript	synonymous_variant	1689	816	272	L	ctG/ctA	rs756758868	.	.	1	RNF135	HGNC	21158	protein_coding	YES	CCDS11262.1	ENSP00000328340	RN135_HUMAN	B3KV69_HUMAN	UPI00001AF795	.	.	.	5/5	.	Superfamily_domains:SSF49899,SMART_domains:SM00589,hmmpanther:PTHR25462,hmmpanther:PTHR25462:SF200,PROSITE_profiles:PS50188	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTGGAGGT	byFrequency	5	BLCA
RNF135	0	.	GRCh37	17	29325727	29325727	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.817G>A	p.Glu273Lys	p.E273K	ENST00000328381	5/5	177	115	62	112	112	0	RNF135,missense_variant,p.Glu273Lys,ENST00000328381,;RNF135,3_prime_UTR_variant,,ENST00000324689,;RNF135,3_prime_UTR_variant,,ENST00000443677,;RNF135,3_prime_UTR_variant,,ENST00000535306,;RNF135,downstream_gene_variant,,ENST00000434242,;RNF135,downstream_gene_variant,,ENST00000580444,;	A	ENSG00000181481	ENST00000328381	Transcript	missense_variant	1690	817	273	E/K	Gag/Aag	.	.	.	1	RNF135	HGNC	21158	protein_coding	YES	CCDS11262.1	ENSP00000328340	RN135_HUMAN	B3KV69_HUMAN	UPI00001AF795	.	tolerated(0.13)	benign(0.032)	5/5	.	Superfamily_domains:SSF49899,SMART_domains:SM00589,hmmpanther:PTHR25462,hmmpanther:PTHR25462:SF200,PROSITE_profiles:PS50188	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGAGGTG	.	5	BLCA
RAB37	0	.	GRCh37	17	72738392	72738392	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.220-1G>T	.	p.X74_splice	ENST00000392614	.	47	32	15	43	43	0	RAB37,splice_acceptor_variant,,ENST00000528438,;RAB37,splice_acceptor_variant,,ENST00000392615,;RAB37,splice_acceptor_variant,,ENST00000392610,;RAB37,splice_acceptor_variant,,ENST00000392613,;RAB37,splice_acceptor_variant,,ENST00000340415,;RAB37,splice_acceptor_variant,,ENST00000392612,;RAB37,splice_acceptor_variant,,ENST00000392614,;RAB37,splice_acceptor_variant,,ENST00000402449,;RAB37,splice_acceptor_variant,,ENST00000527040,;RAB37,splice_acceptor_variant,,ENST00000533530,;RAB37,splice_acceptor_variant,,ENST00000577548,;RAB37,splice_acceptor_variant,,ENST00000392617,;RAB37,splice_acceptor_variant,,ENST00000481224,;RAB37,upstream_gene_variant,,ENST00000488977,;RAB37,upstream_gene_variant,,ENST00000531420,;	T	ENSG00000172794	ENST00000392614	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	RAB37	HGNC	30268	protein_coding	YES	CCDS54161.1	ENSP00000376390	RAB37_HUMAN	B3KPZ5_HUMAN	UPI0000E5A090	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCAGAACAA	.	5	BLCA
EPB41L3	0	.	GRCh37	18	5416200	5416200	+	Missense_Mutation	SNP	C	C	G	rs539490874	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1684G>C	p.Gly562Arg	p.G562R	ENST00000341928	13/23	196	144	51	137	137	0	EPB41L3,missense_variant,p.Gly562Arg,ENST00000342933,;EPB41L3,missense_variant,p.Gly562Arg,ENST00000341928,;EPB41L3,intron_variant,,ENST00000427684,;EPB41L3,intron_variant,,ENST00000400111,;EPB41L3,intron_variant,,ENST00000544123,;EPB41L3,intron_variant,,ENST00000542146,;EPB41L3,intron_variant,,ENST00000540638,;EPB41L3,downstream_gene_variant,,ENST00000584670,;EPB41L3,intron_variant,,ENST00000578524,;EPB41L3,intron_variant,,ENST00000578196,;EPB41L3,intron_variant,,ENST00000580316,;EPB41L3,intron_variant,,ENST00000542652,;EPB41L3,intron_variant,,ENST00000581292,;EPB41L3,intron_variant,,ENST00000545076,;EPB41L3,intron_variant,,ENST00000581387,;EPB41L3,intron_variant,,ENST00000578395,;EPB41L3,intron_variant,,ENST00000580647,;EPB41L3,intron_variant,,ENST00000579271,;EPB41L3,upstream_gene_variant,,ENST00000582729,;EPB41L3,downstream_gene_variant,,ENST00000581661,;	G	ENSG00000082397	ENST00000341928	Transcript	missense_variant	2025	1684	562	G/R	Ggg/Cgg	rs539490874,COSM363785,COSM320137	.	.	-1	EPB41L3	HGNC	3380	protein_coding	YES	CCDS11838.1	ENSP00000343158	E41L3_HUMAN	J3QS55_HUMAN,J3QRQ6_HUMAN,J3QR33_HUMAN,J3QKY2_HUMAN,J3QKK4_HUMAN,J3KS70_HUMAN,J3KRD1_HUMAN	UPI0000129AFA	.	tolerated(0.31)	possibly_damaging(0.739)	13/23	.	hmmpanther:PTHR23280,hmmpanther:PTHR23280:SF20,PIRSF_domain:PIRSF002304	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCCTGGGC	by1000G	5	BLCA
ZNF675	0	.	GRCh37	19	23869927	23869927	+	5'UTR	SNP	G	G	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-92C>G	.	.	ENST00000359788	1/4	96	74	21	47	47	0	ZNF675,5_prime_UTR_variant,,ENST00000359788,;ZNF675,5_prime_UTR_variant,,ENST00000601010,;ZNF675,5_prime_UTR_variant,,ENST00000601935,;ZNF675,5_prime_UTR_variant,,ENST00000596211,;ZNF675,5_prime_UTR_variant,,ENST00000600313,;ZNF675,5_prime_UTR_variant,,ENST00000599168,;ZNF675,upstream_gene_variant,,ENST00000599535,;ZNF675,5_prime_UTR_variant,,ENST00000597074,;	C	ENSG00000197372	ENST00000359788	Transcript	5_prime_UTR_variant	78	.	.	.	.	.	.	.	-1	ZNF675	HGNC	30768	protein_coding	YES	CCDS32981.1	ENSP00000352836	ZN675_HUMAN	M0R373_HUMAN	UPI0000203902	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCAGAGGAC	.	2	BLCA
ANKRD27	0	.	GRCh37	19	33135367	33135367	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389C>G	p.Ser130Ter	p.S130*	ENST00000306065	5/29	723	535	188	406	406	0	ANKRD27,stop_gained,p.Ser129Ter,ENST00000586693,;ANKRD27,stop_gained,p.Ser130Ter,ENST00000306065,;ANKRD27,stop_gained,p.Ser130Ter,ENST00000587352,;ANKRD27,5_prime_UTR_variant,,ENST00000586463,;ANKRD27,downstream_gene_variant,,ENST00000590519,;ANKRD27,upstream_gene_variant,,ENST00000591100,;ANKRD27,missense_variant,p.Gln78Glu,ENST00000588700,;ANKRD27,upstream_gene_variant,,ENST00000593232,;	C	ENSG00000105186	ENST00000306065	Transcript	stop_gained	548	389	130	S/*	tCa/tGa	.	.	.	-1	ANKRD27	HGNC	25310	protein_coding	YES	CCDS32986.1	ENSP00000304292	ANR27_HUMAN	K7EPM2_HUMAN,K7EIN0_HUMAN,K7EIH4_HUMAN	UPI000004FDE9	.	.	.	5/29	.	hmmpanther:PTHR24170,hmmpanther:PTHR24170:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTGAGGGT	.	5	BLCA
CEACAM7	0	.	GRCh37	19	42187815	42187815	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607C>A	p.Leu203Ile	p.L203I	ENST00000006724	3/5	312	297	15	150	150	0	CEACAM7,missense_variant,p.Leu203Ile,ENST00000401731,;CEACAM7,missense_variant,p.Leu203Ile,ENST00000006724,;CEACAM7,intron_variant,,ENST00000602225,;CEACAM7,intron_variant,,ENST00000338196,;CEACAM7,downstream_gene_variant,,ENST00000599715,;	T	ENSG00000007306	ENST00000006724	Transcript	missense_variant	809	607	203	L/I	Cta/Ata	.	.	.	-1	CEACAM7	HGNC	1819	protein_coding	YES	CCDS12583.1	ENSP00000006724	CEAM7_HUMAN	.	UPI000012748E	.	tolerated(0.48)	possibly_damaging(0.78)	3/5	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Pfam_domain:PF13895,Gene3D:2.60.40.10,hmmpanther:PTHR19955,hmmpanther:PTHR19955:SF107,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A206T|c.616G>A|3	MUTECT|MUSE	GAGTAGAACGA	.	2	BLCA
RUVBL2	0	.	GRCh37	19	49510321	49510321	+	Silent	SNP	C	C	T	rs372090262	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312C>T	p.%3D	p.A104A	ENST00000595090	5/15	232	192	39	131	131	0	RUVBL2,synonymous_variant,p.%3D,ENST00000595090,;RUVBL2,synonymous_variant,p.%3D,ENST00000413176,;RUVBL2,synonymous_variant,p.%3D,ENST00000601968,;RUVBL2,synonymous_variant,p.%3D,ENST00000596837,;RUVBL2,synonymous_variant,p.%3D,ENST00000221413,;RUVBL2,3_prime_UTR_variant,,ENST00000596247,;RUVBL2,3_prime_UTR_variant,,ENST00000593570,;RUVBL2,non_coding_transcript_exon_variant,,ENST00000594017,;RUVBL2,non_coding_transcript_exon_variant,,ENST00000594338,;RUVBL2,downstream_gene_variant,,ENST00000595811,;	T	ENSG00000183207	ENST00000595090	Transcript	synonymous_variant	776	312	104	A	gcC/gcT	rs372090262	.	.	1	RUVBL2	HGNC	10475	protein_coding	YES	CCDS42588.1	ENSP00000473172	RUVB2_HUMAN	M0QXI6_HUMAN,B3KQ59_HUMAN	UPI0000044738	.	.	.	5/15	.	hmmpanther:PTHR11093,Gene3D:3.40.50.300,Pfam_domain:PF06068,SMART_domains:SM00382,Superfamily_domains:SSF52540	T:0.0006	T:0.0008	T:0	.	T:0.002	T:0	T:0	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCGCCGGCAG	byFrequency|byCluster|by1000G	4	BLCA
LILRB3	0	.	GRCh37	19	54722714	54722714	+	Intron	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1427-7C>T	.	.	ENST00000245620	.	117	92	24	78	78	0	LILRB3,splice_region_variant,,ENST00000424807,;LILRB3,splice_region_variant,,ENST00000407860,;LILRA6,splice_region_variant,,ENST00000270464,;LILRB3,splice_region_variant,,ENST00000391750,;LILRA6,splice_region_variant,,ENST00000391735,;LILRA6,splice_region_variant,,ENST00000440558,;LILRA6,splice_region_variant,,ENST00000419410,;LILRB3,splice_region_variant,,ENST00000245620,;LILRB3,splice_region_variant,,ENST00000346401,;LILRB3,downstream_gene_variant,,ENST00000445347,;LILRB3,non_coding_transcript_exon_variant,,ENST00000469273,;LILRB3,splice_region_variant,,ENST00000436504,;LILRB3,splice_region_variant,,ENST00000414379,;RPS9,intron_variant,,ENST00000448962,;LILRB3,downstream_gene_variant,,ENST00000468668,;LILRB3,upstream_gene_variant,,ENST00000460208,;	A	ENSG00000204577	ENST00000245620	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	LILRB3	HGNC	6607	protein_coding	YES	CCDS46175.1	ENSP00000245620	LIRB3_HUMAN	C9JWL8_HUMAN	UPI0000E04BFA	.	.	.	.	8/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGTGAAGAT	.	5	BLCA
KCNC4	0	.	GRCh37	1	110768679	110768679	+	Silent	SNP	G	G	A	rs371724703	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1698G>A	p.%3D	p.P566P	ENST00000369787	3/4	124	82	41	83	83	0	KCNC4,synonymous_variant,p.%3D,ENST00000413138,;KCNC4,synonymous_variant,p.%3D,ENST00000369787,;KCNC4,synonymous_variant,p.%3D,ENST00000438661,;KCNC4,intron_variant,,ENST00000412512,;KCNC4,synonymous_variant,p.%3D,ENST00000469655,;KCNC4,non_coding_transcript_exon_variant,,ENST00000459877,;KCNC4,downstream_gene_variant,,ENST00000489935,;	A	ENSG00000116396	ENST00000369787	Transcript	synonymous_variant	1725	1698	566	P	ccG/ccA	rs371724703	.	.	1	KCNC4	HGNC	6236	protein_coding	YES	CCDS821.1	ENSP00000358802	KCNC4_HUMAN	.	UPI000013CAC8	.	.	.	3/4	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCCGACCCC	byFrequency|byCluster	5	BLCA
FLG	0	.	GRCh37	1	152275409	152275409	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11953G>A	p.Asp3985Asn	p.D3985N	ENST00000368799	3/3	165	112	53	129	129	0	FLG,missense_variant,p.Asp3985Asn,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;	T	ENSG00000143631	ENST00000368799	Transcript	missense_variant	11989	11953	3985	D/N	Gat/Aat	COSM3473950,COSM675368	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	unknown(0)	3/3	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAATCATAAT	.	5	BLCA
RUSC1	0	.	GRCh37	1	155290748	155290748	+	5'UTR	SNP	A	A	G	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-121A>G	.	.	ENST00000368352	1/10	58	39	18	43	43	0	RUSC1,5_prime_UTR_variant,,ENST00000368352,;RUSC1,5_prime_UTR_variant,,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000292254,;FDPS,downstream_gene_variant,,ENST00000356657,;RUSC1,upstream_gene_variant,,ENST00000368347,;FDPS,downstream_gene_variant,,ENST00000447866,;RUSC1,upstream_gene_variant,,ENST00000368349,;FDPS,downstream_gene_variant,,ENST00000368356,;RUSC1-AS1,non_coding_transcript_exon_variant,,ENST00000450199,;RUSC1-AS1,intron_variant,,ENST00000443642,;RUSC1-AS1,intron_variant,,ENST00000543656,;RUSC1-AS1,intron_variant,,ENST00000446880,;FDPS,downstream_gene_variant,,ENST00000470171,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,downstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000471876,;RUSC1,upstream_gene_variant,,ENST00000479924,;RUSC1,upstream_gene_variant,,ENST00000467820,;RUSC1,upstream_gene_variant,,ENST00000489860,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000492244,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000468764,;RUSC1,upstream_gene_variant,,ENST00000484664,;RUSC1,upstream_gene_variant,,ENST00000462780,;FDPS,downstream_gene_variant,,ENST00000489324,;RUSC1,upstream_gene_variant,,ENST00000485924,;FDPS,downstream_gene_variant,,ENST00000467076,;RUSC1,upstream_gene_variant,,ENST00000490373,;FDPS,downstream_gene_variant,,ENST00000489003,;FDPS,downstream_gene_variant,,ENST00000495308,;RUSC1,upstream_gene_variant,,ENST00000473331,;FDPS,downstream_gene_variant,,ENST00000468479,;FDPS,downstream_gene_variant,,ENST00000465559,;RUSC1,upstream_gene_variant,,ENST00000492536,;FDPS,downstream_gene_variant,,ENST00000477057,;FDPS,downstream_gene_variant,,ENST00000491013,;FDPS,downstream_gene_variant,,ENST00000492887,;	G	ENSG00000160753	ENST00000368352	Transcript	5_prime_UTR_variant	31	.	.	.	.	.	.	.	1	RUSC1	HGNC	17153	protein_coding	YES	CCDS41410.1	ENSP00000357336	RUSC1_HUMAN	Q68CX2_HUMAN	UPI000046FDA5	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGACAAGCCC	.	5	BLCA
F5	0	.	GRCh37	1	169510997	169510997	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3331G>A	p.Ala1111Thr	p.A1111T	ENST00000367797	13/25	133	82	50	122	122	0	F5,missense_variant,p.Ala1116Thr,ENST00000367796,;F5,missense_variant,p.Ala1111Thr,ENST00000367797,;F5,downstream_gene_variant,,ENST00000546081,;	T	ENSG00000198734	ENST00000367797	Transcript	missense_variant	3533	3331	1111	A/T	Gca/Aca	.	.	.	-1	F5	HGNC	3542	protein_coding	YES	CCDS1281.1	ENSP00000356771	FA5_HUMAN	Q8TD21_HUMAN,Q2HZZ1_HUMAN,Q1L610_HUMAN	UPI0000070F01	.	tolerated_low_confidence(1)	benign(0)	13/25	.	hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF597	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTGCCTGAC	.	5	BLCA
OR2T34	0	.	GRCh37	1	248737884	248737884	+	Missense_Mutation	SNP	G	G	A	rs367796338	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175C>T	p.Arg59Cys	p.R59C	ENST00000328782	1/1	134	113	20	106	106	0	OR2T34,missense_variant,p.Arg59Cys,ENST00000328782,;	A	ENSG00000183310	ENST00000328782	Transcript	missense_variant	197	175	59	R/C	Cgc/Tgc	rs367796338	.	.	-1	OR2T34	HGNC	31256	protein_coding	YES	CCDS31120.1	ENSP00000330904	O2T34_HUMAN	.	UPI0000061ED4	.	tolerated(0.07)	benign(0.002)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF4,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	GAGGCGGGGCT	byFrequency|byCluster	2	BLCA
C1orf63	0	.	GRCh37	1	25573472	25573472	+	5'UTR	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-18C>T	.	.	ENST00000243189	2/5	122	76	46	100	100	0	C1orf63,5_prime_UTR_variant,,ENST00000561867,;C1orf63,5_prime_UTR_variant,,ENST00000431849,;C1orf63,5_prime_UTR_variant,,ENST00000243189,;C1orf63,5_prime_UTR_variant,,ENST00000417642,;C1orf63,5_prime_UTR_variant,,ENST00000568996,;C1orf63,5_prime_UTR_variant,,ENST00000568701,;RP3-465N24.6,upstream_gene_variant,,ENST00000607698,;C1orf63,upstream_gene_variant,,ENST00000564223,;C1orf63,upstream_gene_variant,,ENST00000475766,;C1orf63,upstream_gene_variant,,ENST00000569495,;C1orf63,5_prime_UTR_variant,,ENST00000568254,;C1orf63,5_prime_UTR_variant,,ENST00000473314,;C1orf63,non_coding_transcript_exon_variant,,ENST00000498238,;C1orf63,intron_variant,,ENST00000568212,;C1orf63,upstream_gene_variant,,ENST00000491378,;C1orf63,upstream_gene_variant,,ENST00000566395,;C1orf63,upstream_gene_variant,,ENST00000565733,;C1orf63,upstream_gene_variant,,ENST00000570063,;	A	ENSG00000117616	ENST00000243189	Transcript	5_prime_UTR_variant	260	.	.	.	.	.	.	.	-1	C1orf63	HGNC	25234	protein_coding	YES	CCDS260.1	ENSP00000243189	CA063_HUMAN	H3BVB7_HUMAN,H3BT33_HUMAN,H3BMX3_HUMAN	UPI000006DFA6	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTAGCCTGC	.	5	BLCA
RAB42	0	.	GRCh37	1	28920464	28920464	+	Silent	SNP	C	C	T	rs370993430	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153C>T	p.%3D	p.C51C	ENST00000373826	2/2	54	36	17	49	49	0	RAB42,synonymous_variant,p.%3D,ENST00000373826,;RAB42,non_coding_transcript_exon_variant,,ENST00000465518,;TAF12,intron_variant,,ENST00000471683,;	T	ENSG00000188060	ENST00000373826	Transcript	synonymous_variant	459	153	51	C	tgC/tgT	rs370993430	.	.	1	RAB42	HGNC	28702	protein_coding	YES	CCDS325.1	ENSP00000362932	RAB42_HUMAN	.	UPI0000071C84	.	.	.	2/2	.	Prints_domain:PR00449,Superfamily_domains:SSF52540,SMART_domains:SM00175,Pfam_domain:PF00071,Gene3D:3.40.50.300,hmmpanther:PTHR24073:SF360,hmmpanther:PTHR24073,PROSITE_profiles:PS51419	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTGCAATGT	byFrequency|byCluster|by1000G	5	BLCA
MACF1	0	.	GRCh37	1	39799728	39799729	+	Intron	DEL	GA	GA	-	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	GA	GA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4629+6710_4629+6711delAG	.	.	ENST00000545844	.	288	198	90	169	169	0	MACF1,frameshift_variant,p.Glu932GlyfsTer8,ENST00000289893,;MACF1,frameshift_variant,p.Glu2492GlyfsTer8,ENST00000564288,;MACF1,frameshift_variant,p.Glu2497GlyfsTer8,ENST00000372915,;MACF1,frameshift_variant,p.Glu2529GlyfsTer8,ENST00000567887,;MACF1,intron_variant,,ENST00000372925,;MACF1,intron_variant,,ENST00000361689,;MACF1,intron_variant,,ENST00000530262,;MACF1,intron_variant,,ENST00000539005,;MACF1,intron_variant,,ENST00000317713,;MACF1,intron_variant,,ENST00000545844,;MACF1,intron_variant,,ENST00000476350,;MACF1,downstream_gene_variant,,ENST00000528611,;	-	ENSG00000127603	ENST00000545844	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	.	.	36/93	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	7	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTTTTGGAGAGAG	.	2	BLCA
FAM83C	0	.	GRCh37	20	33874658	33874658	+	Missense_Mutation	SNP	C	C	T	rs761122449	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1924G>A	p.Gly642Ser	p.G642S	ENST00000374408	4/4	112	70	41	71	71	0	FAM83C,missense_variant,p.Gly642Ser,ENST00000374408,;EIF6,upstream_gene_variant,,ENST00000456600,;EIF6,upstream_gene_variant,,ENST00000374436,;EIF6,upstream_gene_variant,,ENST00000374450,;EIF6,upstream_gene_variant,,ENST00000374443,;FAM83C-AS1,downstream_gene_variant,,ENST00000429167,;EIF6,upstream_gene_variant,,ENST00000462894,;EIF6,upstream_gene_variant,,ENST00000447927,;EIF6,upstream_gene_variant,,ENST00000440766,;EIF6,upstream_gene_variant,,ENST00000415116,;	T	ENSG00000125998	ENST00000374408	Transcript	missense_variant	2021	1924	642	G/S	Ggc/Agc	rs761122449	.	.	-1	FAM83C	HGNC	16121	protein_coding	YES	CCDS13251.1	ENSP00000363529	FA83C_HUMAN	.	UPI0000072DC0	.	deleterious_low_confidence(0)	probably_damaging(1)	4/4	.	hmmpanther:PTHR16181,hmmpanther:PTHR16181:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGCCGAACT	.	5	BLCA
MYBL2	0	.	GRCh37	20	42344681	42344681	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2057G>A	p.Gly686Asp	p.G686D	ENST00000217026	14/14	412	275	136	304	304	0	MYBL2,missense_variant,p.Gly686Asp,ENST00000217026,;MYBL2,missense_variant,p.Gly662Asp,ENST00000396863,;	A	ENSG00000101057	ENST00000217026	Transcript	missense_variant	2184	2057	686	G/D	gGc/gAc	.	.	.	1	MYBL2	HGNC	7548	protein_coding	YES	CCDS13322.1	ENSP00000217026	MYBB_HUMAN	.	UPI000012FAE1	.	tolerated(0.22)	possibly_damaging(0.901)	14/14	.	hmmpanther:PTHR10641:SF37,hmmpanther:PTHR10641	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGGCCGCC	.	5	BLCA
U2AF1	0	.	GRCh37	21	44527640	44527640	+	5'UTR	SNP	T	T	C	rs544873723	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-36A>G	.	.	ENST00000291552	1/8	23	13	10	25	25	0	U2AF1,5_prime_UTR_variant,,ENST00000380276,;U2AF1,5_prime_UTR_variant,,ENST00000398137,;U2AF1,5_prime_UTR_variant,,ENST00000291552,;U2AF1,upstream_gene_variant,,ENST00000459639,;U2AF1,non_coding_transcript_exon_variant,,ENST00000486519,;U2AF1,upstream_gene_variant,,ENST00000475639,;U2AF1,upstream_gene_variant,,ENST00000496462,;U2AF1,upstream_gene_variant,,ENST00000464750,;U2AF1,upstream_gene_variant,,ENST00000463599,;	C	ENSG00000160201	ENST00000291552	Transcript	5_prime_UTR_variant	58	.	.	.	.	rs544873723	.	.	-1	U2AF1	HGNC	12453	protein_coding	YES	CCDS13694.1	ENSP00000291552	U2AF1_HUMAN	.	UPI0000000C26	.	.	.	1/8	.	.	C:0.0004	C:0	C:0	.	C:0.001	C:0	C:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGCTGCCGA	byFrequency|by1000G	5	BLCA
PPARA	0	.	GRCh37	22	46611198	46611198	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337C>T	p.His113Tyr	p.H113Y	ENST00000396000	4/8	57	23	33	60	60	0	PPARA,missense_variant,p.His113Tyr,ENST00000262735,;PPARA,missense_variant,p.His113Tyr,ENST00000420804,;PPARA,missense_variant,p.His113Tyr,ENST00000396000,;PPARA,missense_variant,p.His113Tyr,ENST00000434345,;PPARA,missense_variant,p.His113Tyr,ENST00000402126,;PPARA,missense_variant,p.His113Tyr,ENST00000407236,;PPARA,non_coding_transcript_exon_variant,,ENST00000493286,;	T	ENSG00000186951	ENST00000396000	Transcript	missense_variant	602	337	113	H/Y	Cat/Tat	.	.	.	1	PPARA	HGNC	9232	protein_coding	YES	CCDS33669.1	ENSP00000379322	PPARA_HUMAN	F1D8S4_HUMAN,B0QYX2_HUMAN	UPI000000D8E0	.	deleterious(0)	probably_damaging(1)	4/8	.	Prints_domain:PR00047,Superfamily_domains:SSF57716,SMART_domains:SM00399,Pfam_domain:PF00105,Gene3D:3.30.50.10,hmmpanther:PTHR24082,PROSITE_patterns:PS00031,hmmpanther:PTHR24082:SF197,PROSITE_profiles:PS51030	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATCATTAC	.	5	BLCA
PARD3B	0	.	GRCh37	2	206165371	206165371	+	Missense_Mutation	SNP	G	G	A	rs200673021	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2117G>A	p.Arg706Gln	p.R706Q	ENST00000358768	16/22	128	52	75	128	128	0	PARD3B,missense_variant,p.Arg768Gln,ENST00000349953,;PARD3B,missense_variant,p.Arg706Gln,ENST00000358768,;PARD3B,missense_variant,p.Arg768Gln,ENST00000406610,;PARD3B,missense_variant,p.Arg768Gln,ENST00000462231,;PARD3B,intron_variant,,ENST00000351153,;PARD3B,non_coding_transcript_exon_variant,,ENST00000465890,;	A	ENSG00000116117	ENST00000358768	Transcript	missense_variant	2117	2117	706	R/Q	cGg/cAg	rs200673021	.	.	1	PARD3B	HGNC	14446	protein_coding	YES	CCDS42806.1	ENSP00000351618	PAR3L_HUMAN	Q587I4_HUMAN,Q53TQ6_HUMAN,Q53TP8_HUMAN,Q53TL6_HUMAN,Q53TI4_HUMAN,Q53T65_HUMAN,Q53SN0_HUMAN,Q4ZG80_HUMAN	UPI000007201E	.	deleterious(0)	possibly_damaging(0.718)	16/22	.	hmmpanther:PTHR16484:SF9,hmmpanther:PTHR16484	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0008	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCCGGCCGC	byCluster|by1000G	5	BLCA
WDR54	0	.	GRCh37	2	74652866	74652866	+	3'UTR	SNP	A	A	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*38A>C	.	.	ENST00000348227	10/10	157	92	65	106	106	0	WDR54,3_prime_UTR_variant,,ENST00000348227,;WDR54,3_prime_UTR_variant,,ENST00000409791,;C2orf81,upstream_gene_variant,,ENST00000518863,;RTKN,downstream_gene_variant,,ENST00000305557,;RTKN,downstream_gene_variant,,ENST00000233330,;WDR54,downstream_gene_variant,,ENST00000426787,;RTKN,downstream_gene_variant,,ENST00000272430,;WDR54,downstream_gene_variant,,ENST00000461531,;RTKN,downstream_gene_variant,,ENST00000479256,;WDR54,downstream_gene_variant,,ENST00000469321,;WDR54,non_coding_transcript_exon_variant,,ENST00000465134,;WDR54,non_coding_transcript_exon_variant,,ENST00000468778,;WDR54,non_coding_transcript_exon_variant,,ENST00000482605,;WDR54,downstream_gene_variant,,ENST00000493982,;WDR54,downstream_gene_variant,,ENST00000475328,;RTKN,downstream_gene_variant,,ENST00000492013,;WDR54,downstream_gene_variant,,ENST00000469932,;RTKN,downstream_gene_variant,,ENST00000469859,;WDR54,downstream_gene_variant,,ENST00000480089,;WDR54,downstream_gene_variant,,ENST00000482880,;	C	ENSG00000005448	ENST00000348227	Transcript	3_prime_UTR_variant	1131	.	.	.	.	.	.	.	1	WDR54	HGNC	25770	protein_coding	YES	CCDS1940.1	ENSP00000006526	WDR54_HUMAN	.	UPI0000070D06	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATAAAGTACC	.	5	BLCA
LRRTM4	0	.	GRCh37	2	77746195	77746195	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.800G>A	p.Gly267Glu	p.G267E	ENST00000409093	3/4	23	14	8	13	13	0	LRRTM4,missense_variant,p.Gly267Glu,ENST00000409088,;LRRTM4,missense_variant,p.Gly267Glu,ENST00000409093,;LRRTM4,missense_variant,p.Gly268Glu,ENST00000409282,;LRRTM4,missense_variant,p.Gly267Glu,ENST00000409884,;LRRTM4,missense_variant,p.Gly268Glu,ENST00000409911,;LRRTM4,downstream_gene_variant,,ENST00000456154,;	T	ENSG00000176204	ENST00000409093	Transcript	missense_variant	1137	800	267	G/E	gGa/gAa	.	.	.	-1	LRRTM4	HGNC	19411	protein_coding	YES	CCDS46346.1	ENSP00000386357	LRRT4_HUMAN	C9JM64_HUMAN	UPI0000047808	.	tolerated(0.29)	benign(0.026)	3/4	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369:SF1,hmmpanther:PTHR24369,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P270P|c.810G>A|3,BUFFER|p.P270P|c.810G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCCTTGG	.	5	BLCA
LYG1	0	.	GRCh37	2	99907780	99907780	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253G>A	p.Val85Met	p.V85M	ENST00000409448	6/8	90	59	31	78	78	0	LYG1,missense_variant,p.Val85Met,ENST00000409448,;LYG1,missense_variant,p.Val85Met,ENST00000308528,;C2orf15,intron_variant,,ENST00000424491,;	T	ENSG00000144214	ENST00000409448	Transcript	missense_variant	570	253	85	V/M	Gtg/Atg	COSM3849603	.	.	-1	LYG1	HGNC	27014	protein_coding	YES	CCDS2043.1	ENSP00000386923	LYG1_HUMAN	.	UPI0000036A47	.	deleterious(0.03)	probably_damaging(0.98)	6/8	.	Prints_domain:PR00749,Superfamily_domains:SSF53955,PIRSF_domain:PIRSF001065,Gene3D:1.10.530.10,hmmpanther:PTHR31698,hmmpanther:PTHR31698:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCACGGCAG	.	5	BLCA
TSC22D2	0	.	GRCh37	3	150127150	150127150	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13C>T	p.Pro5Ser	p.P5S	ENST00000361875	1/4	68	62	6	49	49	0	TSC22D2,missense_variant,p.Pro5Ser,ENST00000361875,;TSC22D2,missense_variant,p.Pro5Ser,ENST00000361136,;TSC22D2,upstream_gene_variant,,ENST00000466814,;TSC22D2,upstream_gene_variant,,ENST00000480589,;TSC22D2,upstream_gene_variant,,ENST00000485421,;	T	ENSG00000196428	ENST00000361875	Transcript	missense_variant	1029	13	5	P/S	Ccg/Tcg	.	.	.	1	TSC22D2	HGNC	29095	protein_coding	YES	CCDS3149.1	ENSP00000354543	T22D2_HUMAN	.	UPI00000722E0	.	deleterious(0)	probably_damaging(0.921)	1/4	.	hmmpanther:PTHR12348:SF19,hmmpanther:PTHR12348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	AGATGCCGGCC	.	2	BLCA
LAMTOR3	0	.	GRCh37	4	100803089	100803089	+	3'UTR	SNP	T	T	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*62A>G	.	.	ENST00000499666	7/7	16	10	6	8	8	0	LAMTOR3,3_prime_UTR_variant,,ENST00000499666,;LAMTOR3,3_prime_UTR_variant,,ENST00000226522,;LAMTOR3,non_coding_transcript_exon_variant,,ENST00000515100,;	C	ENSG00000109270	ENST00000499666	Transcript	3_prime_UTR_variant	630	.	.	.	.	.	.	.	-1	LAMTOR3	HGNC	15606	protein_coding	YES	CCDS3652.1	ENSP00000424183	LTOR3_HUMAN	.	UPI000012F194	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAGATTGCTG	.	3	BLCA
SEC24D	0	.	GRCh37	4	119685991	119685991	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1262C>A	p.Ser421Tyr	p.S421Y	ENST00000280551	10/23	107	58	48	93	93	0	SEC24D,missense_variant,p.Ser422Tyr,ENST00000379735,;SEC24D,missense_variant,p.Ser421Tyr,ENST00000280551,;SEC24D,missense_variant,p.Ser52Tyr,ENST00000511481,;SEC24D,5_prime_UTR_variant,,ENST00000419654,;SEC24D,non_coding_transcript_exon_variant,,ENST00000505134,;SEC24D,3_prime_UTR_variant,,ENST00000514561,;SEC24D,3_prime_UTR_variant,,ENST00000509818,;SEC24D,non_coding_transcript_exon_variant,,ENST00000514418,;	T	ENSG00000150961	ENST00000280551	Transcript	missense_variant	1501	1262	421	S/Y	tCt/tAt	.	.	.	-1	SEC24D	HGNC	10706	protein_coding	YES	CCDS3710.1	ENSP00000280551	SC24D_HUMAN	E9PDM8_HUMAN,D6RGJ5_HUMAN	UPI00001AEA4F	.	deleterious(0)	probably_damaging(0.997)	10/23	.	hmmpanther:PTHR13803:SF6,hmmpanther:PTHR13803,Superfamily_domains:SSF81995	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATAAGATCCT	.	5	BLCA
TLR3	0	.	GRCh37	4	187005004	187005004	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2164C>G	p.Leu722Val	p.L722V	ENST00000296795	4/5	179	139	39	147	147	0	TLR3,missense_variant,p.Leu445Val,ENST00000504367,;TLR3,missense_variant,p.Leu722Val,ENST00000296795,;TLR3,downstream_gene_variant,,ENST00000513189,;TLR3,downstream_gene_variant,,ENST00000508051,;TLR3,non_coding_transcript_exon_variant,,ENST00000512264,;	G	ENSG00000164342	ENST00000296795	Transcript	missense_variant	2268	2164	722	L/V	Ctc/Gtc	.	.	.	1	TLR3	HGNC	11849	protein_coding	YES	CCDS3846.1	ENSP00000296795	TLR3_HUMAN	E6Y0F1_HUMAN,Q1KMK2_HUMAN,E9PGH4_HUMAN	UPI0000049B3E	.	tolerated(0.07)	benign(0.399)	4/5	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTTCTCATC	.	5	BLCA
STX18	0	.	GRCh37	4	4458959	4458959	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.456G>C	p.Gln152His	p.Q152H	ENST00000306200	5/11	45	18	26	43	43	0	STX18,missense_variant,p.Gln71His,ENST00000507908,;STX18,missense_variant,p.Gln71His,ENST00000512195,;STX18,missense_variant,p.Gln152His,ENST00000505286,;STX18,missense_variant,p.Gln152His,ENST00000306200,;STX18,missense_variant,p.Gln86His,ENST00000503861,;STX18,non_coding_transcript_exon_variant,,ENST00000512780,;	G	ENSG00000168818	ENST00000306200	Transcript	missense_variant	520	456	152	Q/H	caG/caC	.	.	.	-1	STX18	HGNC	15942	protein_coding	YES	CCDS3377.1	ENSP00000305810	STX18_HUMAN	D6RD65_HUMAN,D6RC71_HUMAN	UPI0000049FDD	.	deleterious(0.01)	probably_damaging(0.997)	5/11	.	hmmpanther:PTHR15959,hmmpanther:PTHR15959:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCTCTCTGTTC	.	4	BLCA
CCNI	0	.	GRCh37	4	77969538	77969538	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.968G>A	p.Arg323His	p.R323H	ENST00000237654	7/7	130	98	32	78	78	0	CCNI,missense_variant,p.Arg309His,ENST00000537948,;CCNI,missense_variant,p.Arg323His,ENST00000237654,;CCNI,missense_variant,p.Arg123His,ENST00000515468,;	T	ENSG00000118816	ENST00000237654	Transcript	missense_variant	1545	968	323	R/H	cGc/cAc	.	.	.	-1	CCNI	HGNC	1595	protein_coding	YES	CCDS3580.1	ENSP00000237654	CCNI_HUMAN	D6RH01_HUMAN,D6RG12_HUMAN	UPI000000D8E4	.	deleterious(0.02)	probably_damaging(0.996)	7/7	.	hmmpanther:PTHR10177:SF187,hmmpanther:PTHR10177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTGCGTTTA	.	5	BLCA
ZNF608	0	.	GRCh37	5	124036909	124036909	+	Silent	SNP	G	G	A	.	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.960C>T	p.%3D	p.L320L	ENST00000306315	2/9	79	35	44	131	131	0	ZNF608,synonymous_variant,p.%3D,ENST00000509799,;ZNF608,synonymous_variant,p.%3D,ENST00000306315,;ZNF608,synonymous_variant,p.%3D,ENST00000513986,;ZNF608,5_prime_UTR_variant,,ENST00000504926,;ZNF608,non_coding_transcript_exon_variant,,ENST00000503896,;ZNF608,non_coding_transcript_exon_variant,,ENST00000507508,;ZNF608,non_coding_transcript_exon_variant,,ENST00000511308,;ZNF608,synonymous_variant,p.%3D,ENST00000505686,;	A	ENSG00000168916	ENST00000306315	Transcript	synonymous_variant	1396	960	320	L	ctC/ctT	COSM1310485	.	.	-1	ZNF608	HGNC	29238	protein_coding	YES	CCDS34219.1	ENSP00000307746	ZN608_HUMAN	Q9UFL4_HUMAN,B3KPE6_HUMAN	UPI000013EB23	.	.	.	2/9	.	hmmpanther:PTHR21564,hmmpanther:PTHR21564:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCGTGAGACT	.	5	BLCA
ADAMTS19	0	.	GRCh37	5	129070763	129070763	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3433G>A	p.Glu1145Lys	p.E1145K	ENST00000274487	22/23	89	40	48	115	115	0	ADAMTS19,missense_variant,p.Glu1145Lys,ENST00000274487,;CTC-575N7.1,splice_region_variant,,ENST00000503616,;ADAMTS19,downstream_gene_variant,,ENST00000509467,;	A	ENSG00000145808	ENST00000274487	Transcript	missense_variant	3578	3433	1145	E/K	Gag/Aag	.	.	.	1	ADAMTS19	HGNC	17111	protein_coding	YES	CCDS4146.1	ENSP00000274487	ATS19_HUMAN	.	UPI000013DA0D	.	deleterious(0.02)	possibly_damaging(0.519)	22/23	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAATGAGAAA	.	5	BLCA
SPOCK1	0	.	GRCh37	5	136315105	136315105	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1045C>A	p.His349Asn	p.H349N	ENST00000394945	10/11	103	90	13	98	98	0	SPOCK1,missense_variant,p.His349Asn,ENST00000394945,;SPOCK1,missense_variant,p.His349Asn,ENST00000282223,;SPOCK1,non_coding_transcript_exon_variant,,ENST00000509978,;SPOCK1,non_coding_transcript_exon_variant,,ENST00000515091,;	T	ENSG00000152377	ENST00000394945	Transcript	missense_variant	1215	1045	349	H/N	Cac/Aac	.	.	.	-1	SPOCK1	HGNC	11251	protein_coding	YES	CCDS4191.1	ENSP00000378401	TICN1_HUMAN	D6RB21_HUMAN,D6RAM7_HUMAN,D3DQB3_HUMAN	UPI0000136F50	.	tolerated(0.08)	probably_damaging(0.997)	10/11	.	PROSITE_profiles:PS51162,hmmpanther:PTHR12036:SF18,hmmpanther:PTHR12036,PROSITE_patterns:PS00484,Pfam_domain:PF00086,Gene3D:4.10.800.10,SMART_domains:SM00211,Superfamily_domains:SSF57610	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GCCGTGGCACT	.	3	BLCA
SLC6A3	0	.	GRCh37	5	1403201	1403201	+	Missense_Mutation	SNP	C	C	T	rs553219765	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1603G>A	p.Val535Met	p.V535M	ENST00000270349	13/15	61	45	16	41	41	0	SLC6A3,missense_variant,p.Val535Met,ENST00000270349,;SLC6A3,missense_variant,p.Val535Met,ENST00000453492,;SLC6A3,upstream_gene_variant,,ENST00000512002,;	T	ENSG00000142319	ENST00000270349	Transcript	missense_variant	1731	1603	535	V/M	Gtg/Atg	rs553219765	.	.	-1	SLC6A3	HGNC	11049	protein_coding	YES	CCDS3863.1	ENSP00000270349	SC6A3_HUMAN	Q6LC27_HUMAN,H0YBA7_HUMAN	UPI000013548F	.	tolerated(0.11)	benign(0.409)	13/15	.	Transmembrane_helices:TMhelix,Prints_domain:PR00176,Superfamily_domains:0053687,Pfam_domain:PF00209,hmmpanther:PTHR11616:SF38,hmmpanther:PTHR11616,PROSITE_profiles:PS50267	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCACGAACT	by1000G	5	BLCA
PIK3R1	0	.	GRCh37	5	67591145	67591153	+	Splice_Site	DEL	TACTTGATG	TACTTGATG	-	.	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	TACTTGATG	TACTTGATG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1740_1745+3delCTTGATGTA	.	p.X580_splice	ENST00000521381	13/16	45	19	26	76	76	0	PIK3R1,splice_donor_variant,,ENST00000274335,;PIK3R1,splice_donor_variant,,ENST00000521381,;PIK3R1,splice_donor_variant,,ENST00000336483,;PIK3R1,splice_donor_variant,,ENST00000396611,;PIK3R1,splice_donor_variant,,ENST00000521657,;PIK3R1,splice_donor_variant,,ENST00000320694,;PIK3R1,splice_donor_variant,,ENST00000523872,;PIK3R1,downstream_gene_variant,,ENST00000519025,;PIK3R1,downstream_gene_variant,,ENST00000523807,;PIK3R1,downstream_gene_variant,,ENST00000521409,;PIK3R1,downstream_gene_variant,,ENST00000522084,;PIK3R1,splice_donor_variant,,ENST00000517698,;PIK3R1,splice_donor_variant,,ENST00000520550,;PIK3R1,splice_donor_variant,,ENST00000518813,;PIK3R1,downstream_gene_variant,,ENST00000518292,;	-	ENSG00000145675	ENST00000521381	Transcript	splice_donor_variant	2354-?	1738-?	580-?	.	.	COSM1069636,COSM1595601,COSM1595600	.	.	1	PIK3R1	HGNC	8979	protein_coding	YES	CCDS3993.1	ENSP00000428056	P85A_HUMAN	J7GXU7_HUMAN,J7GU64_HUMAN,E5RJY0_HUMAN,E5RHI0_HUMAN,E5RGI8_HUMAN,B3KWZ7_HUMAN	UPI000013D9FF	.	.	.	13/16	13/15	.	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	deletion	.	2	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GACCAATACTTGATGTAAGT	.	3	BLCA
SYNJ2	0	.	GRCh37	6	158485731	158485731	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1308C>A	p.His436Gln	p.H436Q	ENST00000355585	10/27	207	91	115	224	224	0	SYNJ2,missense_variant,p.His436Gln,ENST00000367121,;SYNJ2,missense_variant,p.His436Gln,ENST00000355585,;SYNJ2,missense_variant,p.His364Gln,ENST00000449859,;SYNJ2,missense_variant,p.His436Gln,ENST00000367122,;SYNJ2,downstream_gene_variant,,ENST00000485863,;	A	ENSG00000078269	ENST00000355585	Transcript	missense_variant	1383	1308	436	H/Q	caC/caA	.	.	.	1	SYNJ2	HGNC	11504	protein_coding	YES	CCDS5254.1	ENSP00000347792	SYNJ2_HUMAN	B4DLC4_HUMAN	UPI000006E2F8	.	deleterious(0.04)	benign(0.017)	10/27	.	PROSITE_profiles:PS50275,hmmpanther:PTHR11200,hmmpanther:PTHR11200:SF98	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCACAGCCT	.	5	BLCA
DEFB110	0	.	GRCh37	6	49986689	49986689	+	3'UTR	SNP	G	G	A	rs761064329	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1C>T	.	.	ENST00000371148	2/2	33	19	13	21	21	0	DEFB110,3_prime_UTR_variant,,ENST00000371148,;DEFB110,intron_variant,,ENST00000393660,;	A	ENSG00000203970	ENST00000371148	Transcript	3_prime_UTR_variant	251	.	.	.	.	rs761064329	.	.	-1	DEFB110	HGNC	18091	protein_coding	YES	CCDS34475.1	ENSP00000360190	DB110_HUMAN	.	UPI00005E4A70	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATCGTTACT	byFrequency	5	BLCA
ETV1	0	.	GRCh37	7	13949314	13949314	+	Missense_Mutation	SNP	C	C	G	rs74772438	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>C	p.Glu295Gln	p.E295Q	ENST00000430479	11/14	133	109	23	113	113	0	ETV1,missense_variant,p.Glu237Gln,ENST00000420159,;ETV1,missense_variant,p.Glu277Gln,ENST00000403685,;ETV1,missense_variant,p.Glu277Gln,ENST00000343495,;ETV1,missense_variant,p.Glu295Gln,ENST00000430479,;ETV1,missense_variant,p.Glu295Gln,ENST00000405218,;ETV1,missense_variant,p.Glu255Gln,ENST00000403527,;ETV1,missense_variant,p.Glu237Gln,ENST00000438956,;ETV1,missense_variant,p.Glu272Gln,ENST00000405192,;ETV1,missense_variant,p.Glu192Gln,ENST00000399357,;ETV1,missense_variant,p.Glu277Gln,ENST00000242066,;ETV1,missense_variant,p.Glu309Gln,ENST00000405358,;ETV1,downstream_gene_variant,,ENST00000443608,;ETV1,downstream_gene_variant,,ENST00000476720,;ETV1,missense_variant,p.Glu295Gln,ENST00000443137,;ETV1,non_coding_transcript_exon_variant,,ENST00000472931,;ETV1,upstream_gene_variant,,ENST00000493831,;	G	ENSG00000006468	ENST00000430479	Transcript	missense_variant	1551	883	295	E/Q	Gaa/Caa	rs74772438	.	.	-1	ETV1	HGNC	3490	protein_coding	YES	CCDS55088.1	ENSP00000405327	ETV1_HUMAN	C9J9L1_HUMAN,C9J4P4_HUMAN,C9J0B7_HUMAN	UPI000012A26E	.	deleterious(0.01)	possibly_damaging(0.51)	11/14	.	hmmpanther:PTHR11849:SF160,hmmpanther:PTHR11849,Pfam_domain:PF04621	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCAAACA	suspect|byCluster	5	BLCA
KCNH2	0	.	GRCh37	7	150647106	150647106	+	Intron	SNP	G	G	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2398+150C>G	.	.	ENST00000262186	.	10	6	4	13	13	0	KCNH2,missense_variant,p.Pro850Ala,ENST00000430723,;KCNH2,intron_variant,,ENST00000262186,;KCNH2,intron_variant,,ENST00000330883,;KCNH2,intron_variant,,ENST00000392968,;KCNH2,non_coding_transcript_exon_variant,,ENST00000532957,;KCNH2,non_coding_transcript_exon_variant,,ENST00000473610,;KCNH2,non_coding_transcript_exon_variant,,ENST00000461280,;	C	ENSG00000055118	ENST00000262186	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	KCNH2	HGNC	6251	protein_coding	YES	CCDS5910.1	ENSP00000262186	KCNH2_HUMAN	Q75MK9_HUMAN,Q75MK8_HUMAN,Q6U287_HUMAN,Q6U283_HUMAN,Q6U279_HUMAN,Q45QN5_HUMAN	UPI0000062255	.	.	.	.	9/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTTGGAGGGC	.	3	BLCA
LANCL2	0	.	GRCh37	7	55468945	55468945	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.757C>T	p.Gln253Ter	p.Q253*	ENST00000254770	5/9	98	60	38	102	102	0	LANCL2,stop_gained,p.Gln253Ter,ENST00000254770,;LANCL2,downstream_gene_variant,,ENST00000486376,;LANCL2,3_prime_UTR_variant,,ENST00000452107,;	T	ENSG00000132434	ENST00000254770	Transcript	stop_gained	1335	757	253	Q/*	Cag/Tag	.	.	.	1	LANCL2	HGNC	6509	protein_coding	YES	CCDS5517.1	ENSP00000254770	LANC2_HUMAN	B4DWZ7_HUMAN	UPI000006F7D0	.	.	.	5/9	.	hmmpanther:PTHR12736,hmmpanther:PTHR12736:SF11,Pfam_domain:PF05147,Superfamily_domains:0053930,Prints_domain:PR01951	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTACCAGTGG	.	5	BLCA
AUTS2	0	.	GRCh37	7	70229862	70229862	+	Missense_Mutation	SNP	A	A	C	rs762261704	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1339A>C	p.Thr447Pro	p.T447P	ENST00000342771	8/19	25	21	4	18	18	0	AUTS2,missense_variant,p.Thr447Pro,ENST00000342771,;AUTS2,missense_variant,p.Thr447Pro,ENST00000406775,;AUTS2,upstream_gene_variant,,ENST00000443672,;AUTS2,downstream_gene_variant,,ENST00000416482,;AUTS2,upstream_gene_variant,,ENST00000483297,;AUTS2,upstream_gene_variant,,ENST00000481994,;	C	ENSG00000158321	ENST00000342771	Transcript	missense_variant	1660	1339	447	T/P	Acc/Ccc	rs762261704	.	.	1	AUTS2	HGNC	14262	protein_coding	YES	CCDS5539.1	ENSP00000344087	AUTS2_HUMAN	Q75MQ7_HUMAN,Q75MQ4_HUMAN,Q75MQ3_HUMAN,Q75MD7_HUMAN	UPI0000126665	.	tolerated(0.09)	possibly_damaging(0.735)	8/19	.	hmmpanther:PTHR14429:SF5,hmmpanther:PTHR14429	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCCACCCTC	byFrequency	2	BLCA
TAF2	0	.	GRCh37	8	120843964	120843964	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91C>T	p.Gln31Ter	p.Q31*	ENST00000378164	2/26	64	33	30	39	39	0	TAF2,stop_gained,p.Gln31Ter,ENST00000378164,;DSCC1,downstream_gene_variant,,ENST00000313655,;TAF2,stop_gained,p.Gln31Ter,ENST00000521007,;	A	ENSG00000064313	ENST00000378164	Transcript	stop_gained	390	91	31	Q/*	Cag/Tag	.	.	.	-1	TAF2	HGNC	11536	protein_coding	YES	CCDS34937.1	ENSP00000367406	TAF2_HUMAN	.	UPI0000210507	.	.	.	2/26	.	Superfamily_domains:0038696,Pfam_domain:PF01433,hmmpanther:PTHR15137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTGATGGG	.	5	BLCA
ALG2	0	.	GRCh37	9	101984170	101984170	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7G>A	p.Glu3Lys	p.E3K	ENST00000476832	1/2	31	20	11	21	21	0	ALG2,missense_variant,p.Glu3Lys,ENST00000476832,;SEC61B,upstream_gene_variant,,ENST00000498603,;SEC61B,upstream_gene_variant,,ENST00000223641,;ALG2,upstream_gene_variant,,ENST00000319033,;SEC61B,upstream_gene_variant,,ENST00000481573,;ALG2,missense_variant,p.Glu3Lys,ENST00000238477,;	T	ENSG00000119523	ENST00000476832	Transcript	missense_variant	69	7	3	E/K	Gag/Aag	.	.	.	-1	ALG2	HGNC	23159	protein_coding	YES	CCDS6739.1	ENSP00000417764	ALG2_HUMAN	B3KNL8_HUMAN	UPI0000073E01	.	tolerated_low_confidence(0.28)	benign(0.001)	1/2	.	hmmpanther:PTHR12526,hmmpanther:PTHR12526:SF221	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCCTCCGCCA	.	3	BLCA
IL11RA	0	.	GRCh37	9	34655231	34655231	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>T	p.Ser6Leu	p.S6L	ENST00000555003	2/13	43	29	13	23	23	0	IL11RA,missense_variant,p.Ser6Leu,ENST00000556531,;IL11RA,missense_variant,p.Ser6Leu,ENST00000553620,;IL11RA,missense_variant,p.Ser6Leu,ENST00000378817,;IL11RA,missense_variant,p.Ser6Leu,ENST00000318041,;IL11RA,missense_variant,p.Ser6Leu,ENST00000555003,;IL11RA,missense_variant,p.Ser6Leu,ENST00000556792,;IL11RA,missense_variant,p.Ser6Leu,ENST00000602473,;IL11RA,missense_variant,p.Ser6Leu,ENST00000555981,;IL11RA,missense_variant,p.Ser6Leu,ENST00000441545,;GALT,missense_variant,p.Ser150Leu,ENST00000556278,;GALT,downstream_gene_variant,,ENST00000450095,;GALT,downstream_gene_variant,,ENST00000378842,;IL11RA,non_coding_transcript_exon_variant,,ENST00000478802,;GALT,downstream_gene_variant,,ENST00000488412,;IL11RA,missense_variant,p.Ser6Leu,ENST00000555247,;IL11RA,missense_variant,p.Ser6Leu,ENST00000557298,;IL11RA,non_coding_transcript_exon_variant,,ENST00000478308,;IL11RA,non_coding_transcript_exon_variant,,ENST00000555579,;GALT,downstream_gene_variant,,ENST00000555020,;IL11RA,upstream_gene_variant,,ENST00000466082,;GALT,downstream_gene_variant,,ENST00000554638,;GALT,downstream_gene_variant,,ENST00000557706,;GALT,downstream_gene_variant,,ENST00000555754,;IL11RA,upstream_gene_variant,,ENST00000553969,;GALT,downstream_gene_variant,,ENST00000554550,;	T	ENSG00000137070	ENST00000555003	Transcript	missense_variant	1373	17	6	S/L	tCa/tTa	.	.	.	1	IL11RA	HGNC	5967	protein_coding	YES	CCDS6567.1	ENSP00000450565	I11RA_HUMAN	Q5VZ79_HUMAN,G3V3V2_HUMAN,G3V2G0_HUMAN,G3V2A5_HUMAN	UPI00000358B9	.	deleterious(0.04)	possibly_damaging(0.628)	2/13	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23036:SF29,hmmpanther:PTHR23036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCAGGGC	.	5	BLCA
TRPM6	0	.	GRCh37	9	77407659	77407659	+	Missense_Mutation	SNP	C	C	T	rs535775554	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2419G>A	p.Asp807Asn	p.D807N	ENST00000360774	19/39	49	33	16	43	43	0	TRPM6,missense_variant,p.Asp807Asn,ENST00000451710,;TRPM6,missense_variant,p.Asp802Asn,ENST00000449912,;TRPM6,missense_variant,p.Asp802Asn,ENST00000361255,;TRPM6,missense_variant,p.Asp807Asn,ENST00000376864,;TRPM6,missense_variant,p.Asp807Asn,ENST00000360774,;TRPM6,intron_variant,,ENST00000376871,;TRPM6,intron_variant,,ENST00000376872,;	T	ENSG00000119121	ENST00000360774	Transcript	missense_variant	2657	2419	807	D/N	Gat/Aat	rs535775554	.	.	-1	TRPM6	HGNC	17995	protein_coding	YES	CCDS6647.1	ENSP00000354006	TRPM6_HUMAN	.	UPI000006E041	.	tolerated(0.15)	benign(0.008)	19/39	.	hmmpanther:PTHR13800:SF15,hmmpanther:PTHR13800	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCATGGC	by1000G	5	BLCA
RHOXF2B	0	.	GRCh37	X	119211153	119211153	+	Missense_Mutation	SNP	T	T	A	rs782062035	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180A>T	p.Leu60Phe	p.L60F	ENST00000371402	2/4	14	8	6	20	20	0	RHOXF2B,missense_variant,p.Leu60Phe,ENST00000371402,;RP4-755D9.1,intron_variant,,ENST00000553843,;	A	ENSG00000203989	ENST00000371402	Transcript	missense_variant	370	180	60	L/F	ttA/ttT	rs782062035	.	.	-1	RHOXF2B	HGNC	33519	protein_coding	YES	CCDS43985.1	ENSP00000360455	RHF2B_HUMAN	.	UPI000006D753	.	tolerated(0.46)	benign(0.368)	2/4	.	hmmpanther:PTHR24329:SF261,hmmpanther:PTHR24329	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GACTTTAACTT	byFrequency	2	BLCA
DMD	0	.	GRCh37	X	31676243	31676243	+	Missense_Mutation	SNP	G	G	A	rs769601403	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7891C>T	p.Arg2631Cys	p.R2631C	ENST00000357033	54/79	105	85	19	83	83	0	DMD,missense_variant,p.Arg2631Cys,ENST00000357033,;DMD,missense_variant,p.Arg327Cys,ENST00000358062,;DMD,missense_variant,p.Arg171Cys,ENST00000343523,;DMD,missense_variant,p.Arg171Cys,ENST00000378707,;DMD,missense_variant,p.Arg171Cys,ENST00000474231,;DMD,missense_variant,p.Arg2627Cys,ENST00000378677,;DMD,missense_variant,p.Arg171Cys,ENST00000359836,;DMD,missense_variant,p.Arg171Cys,ENST00000541735,;	A	ENSG00000198947	ENST00000357033	Transcript	missense_variant	8098	7891	2631	R/C	Cgc/Tgc	rs769601403	.	.	-1	DMD	HGNC	2928	protein_coding	YES	CCDS14233.1	ENSP00000354923	.	Q9UPB5_HUMAN,Q9UPB4_HUMAN,Q9UMK8_HUMAN,Q9UMK7_HUMAN,Q9UMG1_HUMAN,Q9UME2_HUMAN,Q9UEH4_HUMAN,Q8WYF6_HUMAN,Q8WYF5_HUMAN,Q8WYF4_HUMAN,Q8WYF3_HUMAN,Q8WYF2_HUMAN,Q8WYF1_HUMAN,Q8WYF0_HUMAN,Q8WYE9_HUMAN,Q8WYE8_HUMAN,Q8WYE7_HUMAN,Q8WYE6_HUMAN,Q8WYE5_HUMAN,Q8WYE4_HUMAN,Q8WYE3_HUMAN,Q8WYE2_HUMAN,Q8WYE1_HUMAN,Q8WYD9_HUMAN,Q8WYD8_HUMAN,Q8WYD7_HUMAN,Q8WYD6_HUMAN,Q8WYD5_HUMAN,Q8WYD4_HUMAN,Q8WYD3_HUMAN,Q8WYD2_HUMAN,Q8WYD1_HUMAN,Q8WYD0_HUMAN,Q8WYC9_HUMAN,Q8WYC8_HUMAN,Q8WYC7_HUMAN,Q8WYC6_HUMAN,Q8WYC5_HUMAN,Q8WYC4_HUMAN,Q8WYC3_HUMAN,Q8WYC2_HUMAN,Q8WYC1_HUMAN,Q8WYC0_HUMAN,Q8WYB9_HUMAN,Q8WYB8_HUMAN,Q8WTQ2_HUMAN,Q7KZ40_HUMAN,Q7KYP7_HUMAN,Q548X2_HUMAN,Q14205_HUMAN,F2WSI7_HUMAN,E7EQS5_HUMAN	UPI000049E111	.	.	possibly_damaging(0.835)	54/79	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF261,Gene3D:1.20.58.60,Pfam_domain:PF00435,SMART_domains:SM00150,PIRSF_domain:PIRSF002341,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGCGGAGGT	byFrequency	5	BLCA
MAOB	0	.	GRCh37	X	43698114	43698114	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279G>T	p.Lys93Asn	p.K93N	ENST00000378069	3/15	115	88	27	104	104	0	MAOB,missense_variant,p.Lys77Asn,ENST00000538942,;MAOB,missense_variant,p.Lys77Asn,ENST00000536181,;MAOB,missense_variant,p.Lys93Asn,ENST00000378069,;MAOB,splice_region_variant,,ENST00000487544,;MAOB,downstream_gene_variant,,ENST00000468431,;	A	ENSG00000069535	ENST00000378069	Transcript	missense_variant	427	279	93	K/N	aaG/aaT	.	.	.	-1	MAOB	HGNC	6834	protein_coding	YES	CCDS14261.1	ENSP00000367309	AOFB_HUMAN	H0YCD8_HUMAN,B7Z242_HUMAN	UPI0000049071	.	tolerated(0.28)	benign(0.003)	3/15	.	hmmpanther:PTHR10742,hmmpanther:PTHR10742:SF219,Pfam_domain:PF01593,Gene3D:3.50.50.60,Superfamily_domains:SSF51905,Prints_domain:PR00757	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTACCTTTAC	.	5	BLCA
IQSEC2	0	.	GRCh37	X	53279750	53279750	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2008A>G	p.Thr670Ala	p.T670A	ENST00000396435	5/15	102	80	22	96	96	0	IQSEC2,missense_variant,p.Thr465Ala,ENST00000375365,;IQSEC2,missense_variant,p.Thr660Ala,ENST00000375368,;IQSEC2,missense_variant,p.Thr670Ala,ENST00000396435,;	C	ENSG00000124313	ENST00000396435	Transcript	missense_variant	2209	2008	670	T/A	Act/Gct	.	.	.	-1	IQSEC2	HGNC	29059	protein_coding	YES	CCDS48130.1	ENSP00000379712	IQEC2_HUMAN	C7SDG2_HUMAN	UPI00001C207D	.	tolerated(0.73)	benign(0.11)	5/15	.	hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF61	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCAGTGCCAC	.	5	BLCA
POU3F4	0	.	GRCh37	X	82764168	82764168	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-FD-A5BY-01A-31D-A289-08	TCGA-FD-A5BY-10A-01D-A289-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.836G>A	p.Arg279His	p.R279H	ENST00000373200	1/1	58	43	14	46	46	0	POU3F4,missense_variant,p.Arg279His,ENST00000373200,;RP3-326L13.3,upstream_gene_variant,,ENST00000607789,;RP3-326L13.2,non_coding_transcript_exon_variant,,ENST00000607095,;	A	ENSG00000196767	ENST00000373200	Transcript	missense_variant	900	836	279	R/H	cGc/cAc	.	.	.	1	POU3F4	HGNC	9217	protein_coding	YES	CCDS14450.1	ENSP00000362296	PO3F4_HUMAN	.	UPI000045785D	.	deleterious(0)	probably_damaging(0.996)	1/1	.	PROSITE_profiles:PS50071,hmmpanther:PTHR11636,hmmpanther:PTHR11636:SF66,Gene3D:1.10.10.60,Pfam_domain:PF00046,SMART_domains:SM00389,PIRSF_domain:PIRSF002629,Superfamily_domains:SSF46689,Prints_domain:PR00028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R279C|c.835C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGCGCAAGA	.	5	BLCA
CPN1	0	.	GRCh37	10	101802152	101802152	+	3'UTR	SNP	C	C	T	rs770200389	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*32G>A	.	.	ENST00000370418	9/9	116	87	28	104	103	1	CPN1,3_prime_UTR_variant,,ENST00000370418,;	T	ENSG00000120054	ENST00000370418	Transcript	3_prime_UTR_variant	1661	.	.	.	.	rs770200389	.	.	-1	CPN1	HGNC	2312	protein_coding	YES	CCDS7486.1	ENSP00000359446	CBPN_HUMAN	B1AP59_HUMAN,B1AP58_HUMAN	UPI00000012AC	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAAGCCTTTC	byFrequency	5	BLCA
CHUK	0	.	GRCh37	10	101953102	101953102	+	Silent	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2061A>C	p.%3D	p.S687S	ENST00000370397	19/21	140	100	40	88	88	0	CHUK,synonymous_variant,p.%3D,ENST00000370397,;RP11-316M21.7,downstream_gene_variant,,ENST00000443919,;CHUK,non_coding_transcript_exon_variant,,ENST00000585551,;CHUK,non_coding_transcript_exon_variant,,ENST00000590930,;CHUK,intron_variant,,ENST00000588656,;	G	ENSG00000213341	ENST00000370397	Transcript	synonymous_variant	2148	2061	687	S	tcA/tcC	COSM1296841	.	.	-1	CHUK	HGNC	1974	protein_coding	YES	CCDS7488.1	ENSP00000359424	IKKA_HUMAN	.	UPI000013D6C7	.	.	.	19/21	.	hmmpanther:PTHR22969,hmmpanther:PTHR22969:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGCTGAAGT	.	5	BLCA
MGEA5	0	.	GRCh37	10	103558904	103558904	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1504G>A	p.Asp502Asn	p.D502N	ENST00000361464	9/16	390	294	96	254	254	0	MGEA5,missense_variant,p.Asp449Asn,ENST00000357797,;MGEA5,missense_variant,p.Asp449Asn,ENST00000439817,;MGEA5,missense_variant,p.Asp502Asn,ENST00000370094,;MGEA5,missense_variant,p.Asp502Asn,ENST00000361464,;MGEA5,downstream_gene_variant,,ENST00000429860,;MGEA5,non_coding_transcript_exon_variant,,ENST00000482611,;MGEA5,upstream_gene_variant,,ENST00000479811,;	T	ENSG00000198408	ENST00000361464	Transcript	missense_variant	1900	1504	502	D/N	Gat/Aat	COSM1296861	.	.	-1	MGEA5	HGNC	7056	protein_coding	YES	CCDS7520.1	ENSP00000354850	NCOAT_HUMAN	B3KMK2_HUMAN	UPI0000073533	.	tolerated(0.4)	benign(0.213)	9/16	.	hmmpanther:PTHR13170,hmmpanther:PTHR13170:SF16	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATCAGTGT	.	5	BLCA
NT5C2	0	.	GRCh37	10	104858711	104858711	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664C>A	p.Leu222Ile	p.L222I	ENST00000343289	9/18	37	26	10	30	30	0	NT5C2,missense_variant,p.Leu222Ile,ENST00000343289,;NT5C2,missense_variant,p.Leu153Ile,ENST00000458345,;NT5C2,missense_variant,p.Leu222Ile,ENST00000404739,;NT5C2,missense_variant,p.Leu193Ile,ENST00000423468,;NT5C2,upstream_gene_variant,,ENST00000421281,;NT5C2,non_coding_transcript_exon_variant,,ENST00000369857,;NT5C2,downstream_gene_variant,,ENST00000481549,;NT5C2,downstream_gene_variant,,ENST00000487810,;NT5C2,missense_variant,p.Leu230Ile,ENST00000452156,;NT5C2,3_prime_UTR_variant,,ENST00000461461,;NT5C2,non_coding_transcript_exon_variant,,ENST00000470228,;NT5C2,upstream_gene_variant,,ENST00000469228,;NT5C2,downstream_gene_variant,,ENST00000552185,;	T	ENSG00000076685	ENST00000343289	Transcript	missense_variant	752	664	222	L/I	Ctt/Att	COSM1296891	.	.	-1	NT5C2	HGNC	8022	protein_coding	YES	CCDS7544.1	ENSP00000339479	5NTC_HUMAN	.	UPI0000124F44	.	tolerated(0.13)	benign(0.143)	9/18	.	Superfamily_domains:SSF56784,PIRSF_domain:PIRSF017434,Pfam_domain:PF05761,TIGRFAM_domain:TIGR02244,hmmpanther:PTHR12103,hmmpanther:PTHR12103:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAAGATTTT	.	5	BLCA
PCGF6	0	.	GRCh37	10	105110683	105110683	+	Silent	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141T>G	p.%3D	p.P47P	ENST00000369847	1/10	14	9	5	15	15	0	PCGF6,synonymous_variant,p.%3D,ENST00000369847,;PCGF6,synonymous_variant,p.%3D,ENST00000337211,;PCGF6,non_coding_transcript_exon_variant,,ENST00000490296,;PCGF6,upstream_gene_variant,,ENST00000492755,;	C	ENSG00000156374	ENST00000369847	Transcript	synonymous_variant	209	141	47	P	ccT/ccG	COSM1296893,COSM1296894	.	.	-1	PCGF6	HGNC	21156	protein_coding	YES	CCDS31275.1	ENSP00000358862	PCGF6_HUMAN	.	UPI00001F9669	.	.	.	1/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10825:SF24,hmmpanther:PTHR10825	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACAGAGGCGC	.	2	BLCA
SLK	0	.	GRCh37	10	105727602	105727619	+	In_Frame_Del	DEL	TTGGGAGATTATAGGAGA	TTGGGAGATTATAGGAGA	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	TTGGGAGATTATAGGAGA	TTGGGAGATTATAGGAGA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99_116delTTGGGAGATTATAGGAGA	p.Phe33_Glu39delinsLeu	p.F33_E39delinsL	ENST00000369755	1/19	104	83	21	103	103	0	SLK,inframe_deletion,p.Phe33_Glu39delinsLeu,ENST00000369755,;SLK,inframe_deletion,p.Phe33_Glu39delinsLeu,ENST00000335753,;	-	ENSG00000065613	ENST00000369755	Transcript	inframe_deletion	644-661	99-116	33-39	FWEIIGE/L	ttTTGGGAGATTATAGGAGAa/tta	.	.	.	1	SLK	HGNC	11088	protein_coding	YES	CCDS7553.1	ENSP00000358770	SLK_HUMAN	.	UPI000004B6D3	.	.	.	1/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF53,hmmpanther:PTHR24361,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	AGACTTTTGGGAGATTATAGGAGAACTGG	.	2	BLCA
CCDC147	0	.	GRCh37	10	106113529	106113529	+	5'UTR	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-127G>A	.	.	ENST00000369704	1/18	14	10	4	12	12	0	CCDC147,5_prime_UTR_variant,,ENST00000369704,;CCDC147,upstream_gene_variant,,ENST00000312902,;CCDC147-AS1,upstream_gene_variant,,ENST00000435434,;	A	ENSG00000120051	ENST00000369704	Transcript	5_prime_UTR_variant	8	.	.	.	.	.	.	.	1	CCDC147	HGNC	26676	protein_coding	YES	CCDS31282.1	ENSP00000358718	CC147_HUMAN	B4DK97_HUMAN	UPI0000160405	.	.	.	1/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGAGCGCGG	.	5	BLCA
PNLIPRP3	0	.	GRCh37	10	118187433	118187433	+	5'UTR	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-92G>A	.	.	ENST00000369230	1/12	37	30	6	32	32	0	PNLIPRP3,5_prime_UTR_variant,,ENST00000369230,;	A	ENSG00000203837	ENST00000369230	Transcript	5_prime_UTR_variant	55	.	.	.	.	.	.	.	1	PNLIPRP3	HGNC	23492	protein_coding	YES	CCDS31292.1	ENSP00000358232	LIPR3_HUMAN	.	UPI000013DB40	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCATTGTGAGG	.	4	BLCA
TACC2	0	.	GRCh37	10	123844863	123844863	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2848G>A	p.Glu950Lys	p.E950K	ENST00000369005	4/23	158	116	42	164	164	0	TACC2,missense_variant,p.Glu950Lys,ENST00000369005,;TACC2,missense_variant,p.Glu950Lys,ENST00000453444,;TACC2,missense_variant,p.Glu950Lys,ENST00000334433,;TACC2,missense_variant,p.Glu950Lys,ENST00000515603,;TACC2,missense_variant,p.Glu950Lys,ENST00000515273,;TACC2,intron_variant,,ENST00000513429,;TACC2,intron_variant,,ENST00000358010,;TACC2,downstream_gene_variant,,ENST00000491540,;	A	ENSG00000138162	ENST00000369005	Transcript	missense_variant	3188	2848	950	E/K	Gag/Aag	COSM1297012	.	.	1	TACC2	HGNC	11523	protein_coding	YES	CCDS7626.1	ENSP00000358001	TACC2_HUMAN	.	UPI0000246F6B	.	.	benign(0.045)	4/23	.	hmmpanther:PTHR13924,hmmpanther:PTHR13924:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCAGAGGGA	.	5	BLCA
C1QL3	0	.	GRCh37	10	16563092	16563092	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28G>A	.	.	ENST00000298943	1/2	20	13	7	16	16	0	C1QL3,5_prime_UTR_variant,,ENST00000298943,;	T	ENSG00000165985	ENST00000298943	Transcript	5_prime_UTR_variant	913	.	.	.	.	.	.	.	-1	C1QL3	HGNC	19359	protein_coding	YES	CCDS31156.1	ENSP00000298943	C1QL3_HUMAN	.	UPI000013E53F	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGATCAGGCG	.	5	BLCA
VIM	0	.	GRCh37	10	17275816	17275816	+	Silent	SNP	C	C	T	rs377349430	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768C>T	p.%3D	p.I256I	ENST00000544301	5/10	167	98	68	81	80	1	VIM,synonymous_variant,p.%3D,ENST00000224237,;VIM,synonymous_variant,p.%3D,ENST00000421459,;VIM,synonymous_variant,p.%3D,ENST00000544301,;RP11-124N14.3,non_coding_transcript_exon_variant,,ENST00000456355,;VIM-AS1,upstream_gene_variant,,ENST00000605833,;VIM,non_coding_transcript_exon_variant,,ENST00000495528,;VIM,downstream_gene_variant,,ENST00000485947,;VIM,downstream_gene_variant,,ENST00000478746,;VIM,downstream_gene_variant,,ENST00000478317,;VIM,downstream_gene_variant,,ENST00000497849,;VIM,synonymous_variant,p.%3D,ENST00000469543,;VIM,synonymous_variant,p.%3D,ENST00000487938,;	T	ENSG00000026025	ENST00000544301	Transcript	synonymous_variant	1181	768	256	I	atC/atT	rs377349430,COSM1297149	.	.	1	VIM	HGNC	12692	protein_coding	YES	CCDS7120.1	ENSP00000446007	VIME_HUMAN	.	UPI00000012EB	.	.	.	5/10	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF27,hmmpanther:PTHR23239,Pfam_domain:PF00038	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAATCGATGT	byCluster|by1000G	5	BLCA
MRC1	0	.	GRCh37	10	18198261	18198261	+	Silent	SNP	T	T	C	rs782024524	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4105T>C	p.%3D	p.L1369L	ENST00000239761	29/30	22	12	10	10	10	0	MRC1,synonymous_variant,p.%3D,ENST00000239761,;	C	ENSG00000120586	ENST00000239761	Transcript	synonymous_variant	4208	4105	1369	L	Tta/Cta	rs782024524	.	.	1	MRC1	HGNC	7228	protein_coding	YES	CCDS7123.1	ENSP00000239761	MRC1_HUMAN	B4DLK9_HUMAN	UPI000012EB9A	.	.	.	29/30	.	hmmpanther:PTHR22803,hmmpanther:PTHR22803:SF55	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	ATGAATTACTT	.	2	BLCA
SLC39A12	0	.	GRCh37	10	18242459	18242459	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.254G>A	p.Cys85Tyr	p.C85Y	ENST00000377369	2/13	94	64	29	50	50	0	SLC39A12,missense_variant,p.Cys85Tyr,ENST00000377369,;SLC39A12,missense_variant,p.Cys85Tyr,ENST00000377371,;SLC39A12,missense_variant,p.Cys85Tyr,ENST00000377374,;SLC39A12,intron_variant,,ENST00000539911,;	A	ENSG00000148482	ENST00000377369	Transcript	missense_variant	527	254	85	C/Y	tGc/tAc	COSM1297153	.	.	1	SLC39A12	HGNC	20860	protein_coding	YES	CCDS44362.1	ENSP00000366586	S39AC_HUMAN	F5GX72_HUMAN	UPI00004044FC	.	deleterious(0)	probably_damaging(0.999)	2/13	.	hmmpanther:PTHR12191:SF4,hmmpanther:PTHR12191	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGATTGCAATC	.	4	BLCA
YME1L1	0	.	GRCh37	10	27415685	27415685	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1060G>T	p.Val354Phe	p.V354F	ENST00000326799	10/20	55	48	7	26	26	0	YME1L1,missense_variant,p.Val354Phe,ENST00000326799,;YME1L1,missense_variant,p.Val264Phe,ENST00000375972,;YME1L1,missense_variant,p.Val297Phe,ENST00000376016,;YME1L1,missense_variant,p.Val173Phe,ENST00000491542,;YME1L1,non_coding_transcript_exon_variant,,ENST00000463270,;	A	ENSG00000136758	ENST00000326799	Transcript	missense_variant	1209	1060	354	V/F	Gtt/Ttt	COSM1297191	.	.	-1	YME1L1	HGNC	12843	protein_coding	YES	CCDS7152.1	ENSP00000318480	YMEL1_HUMAN	.	UPI000013DBDD	.	deleterious(0)	possibly_damaging(0.594)	10/20	.	HAMAP:MF_01458,hmmpanther:PTHR23076,hmmpanther:PTHR23076:SF37,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR01241,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACAACTTCCT	.	2	BLCA
ALOX5	0	.	GRCh37	10	45920479	45920480	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733_734insG	p.Leu245CysfsTer44	p.L245Cfs*44	ENST00000374391	6/14	241	177	64	137	137	0	ALOX5,frameshift_variant,p.Leu245CysfsTer44,ENST00000374391,;ALOX5,frameshift_variant,p.Leu245CysfsTer44,ENST00000542434,;ALOX5,non_coding_transcript_exon_variant,,ENST00000483623,;	G	ENSG00000012779	ENST00000374391	Transcript	frameshift_variant	786-787	733-734	245	L/CX	ttg/tGtg	.	.	.	1	ALOX5	HGNC	435	protein_coding	YES	CCDS7212.1	ENSP00000363512	LOX5_HUMAN	E5FPY7_HUMAN	UPI0000043F84	.	.	.	6/14	.	PROSITE_profiles:PS51393,hmmpanther:PTHR11771:SF5,hmmpanther:PTHR11771,Pfam_domain:PF00305,Gene3D:3.10.450.60,Superfamily_domains:SSF48484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTGTGTTGATC	.	3	BLCA
GPRIN2	0	.	GRCh37	10	46999257	46999257	+	Missense_Mutation	SNP	G	G	A	rs782341832	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.377G>A	p.Arg126His	p.R126H	ENST00000374314	1/1	65	57	8	59	58	1	GPRIN2,missense_variant,p.Arg126His,ENST00000374314,;GPRIN2,missense_variant,p.Arg126His,ENST00000374317,;	A	ENSG00000204175	ENST00000374314	Transcript	missense_variant	1332	377	126	R/H	cGt/cAt	rs782341832,COSM1297275	.	.	1	GPRIN2	HGNC	23730	protein_coding	YES	CCDS31192.1	ENSP00000363433	GRIN2_HUMAN	.	UPI000013ECB4	.	tolerated(0.44)	benign(0.009)	1/1	.	hmmpanther:PTHR15718	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCCGTAGCA	byFrequency	4	BLCA
C10orf53	0	.	GRCh37	10	50916482	50916482	+	Missense_Mutation	SNP	G	G	C	rs753618197	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.293G>C	p.Cys98Ser	p.C98S	ENST00000374112	3/3	223	153	70	184	182	2	C10orf53,missense_variant,p.Cys98Ser,ENST00000374112,;C10orf53,missense_variant,p.Cys98Ser,ENST00000535836,;	C	ENSG00000178645	ENST00000374112	Transcript	missense_variant	305	293	98	C/S	tGt/tCt	rs753618197,COSM1297300	.	.	1	C10orf53	HGNC	27421	protein_coding	YES	CCDS31202.1	ENSP00000363226	CJ053_HUMAN	.	UPI00001406B3	.	deleterious_low_confidence(0)	benign(0.291)	3/3	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCCGTGTAGGA	byFrequency	3	BLCA
HK1	0	.	GRCh37	10	71129055	71129055	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666C>T	p.%3D	p.G222G	ENST00000404387	7/19	84	62	21	81	81	0	HK1,synonymous_variant,p.%3D,ENST00000436817,;HK1,synonymous_variant,p.%3D,ENST00000448642,;HK1,synonymous_variant,p.%3D,ENST00000359426,;HK1,synonymous_variant,p.%3D,ENST00000360289,;HK1,synonymous_variant,p.%3D,ENST00000298649,;HK1,synonymous_variant,p.%3D,ENST00000404387,;HK1,downstream_gene_variant,,ENST00000450646,;HK1,downstream_gene_variant,,ENST00000421088,;HK1,non_coding_transcript_exon_variant,,ENST00000493591,;HK1,non_coding_transcript_exon_variant,,ENST00000494253,;	T	ENSG00000156515	ENST00000404387	Transcript	synonymous_variant	666	666	222	G	ggC/ggT	COSM1297392,COSM1297393	.	.	1	HK1	HGNC	4922	protein_coding	YES	CCDS7289.1	ENSP00000384774	HXK1_HUMAN	P78542_HUMAN,B1AR61_HUMAN	UPI000013E945	.	.	.	7/19	.	hmmpanther:PTHR19443,hmmpanther:PTHR19443:SF10,Gene3D:3.40.367.20,Pfam_domain:PF00349,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGGCTATGA	.	5	BLCA
CAMK2G	0	.	GRCh37	10	75609037	75609037	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396C>T	p.%3D	p.I132I	ENST00000322680	6/21	55	43	11	40	40	0	CAMK2G,synonymous_variant,p.%3D,ENST00000322680,;CAMK2G,synonymous_variant,p.%3D,ENST00000322635,;CAMK2G,synonymous_variant,p.%3D,ENST00000305762,;CAMK2G,synonymous_variant,p.%3D,ENST00000372765,;CAMK2G,synonymous_variant,p.%3D,ENST00000433289,;CAMK2G,synonymous_variant,p.%3D,ENST00000394762,;CAMK2G,synonymous_variant,p.%3D,ENST00000423381,;CAMK2G,synonymous_variant,p.%3D,ENST00000351293,;CAMK2G,intron_variant,,ENST00000444854,;CAMK2G,upstream_gene_variant,,ENST00000441192,;RP11-574K11.8,downstream_gene_variant,,ENST00000446730,;CAMK2G,non_coding_transcript_exon_variant,,ENST00000477652,;CAMK2G,non_coding_transcript_exon_variant,,ENST00000472912,;CAMK2G,upstream_gene_variant,,ENST00000492020,;	A	ENSG00000148660	ENST00000322680	Transcript	synonymous_variant	520	396	132	I	atC/atT	COSM414954,COSM414953	.	.	-1	CAMK2G	HGNC	1463	protein_coding	YES	CCDS7338.1	ENSP00000319060	KCC2G_HUMAN	Q13280_HUMAN	UPI000016781F	.	.	.	6/21	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24347:SF110,hmmpanther:PTHR24347,PROSITE_patterns:PS00108,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGACGATGTC	.	5	BLCA
MYOF	0	.	GRCh37	10	95110980	95110980	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3895C>T	p.Pro1299Ser	p.P1299S	ENST00000359263	35/54	72	56	16	41	41	0	MYOF,missense_variant,p.Pro1299Ser,ENST00000371502,;MYOF,missense_variant,p.Pro1286Ser,ENST00000358334,;MYOF,missense_variant,p.Pro1299Ser,ENST00000371501,;MYOF,missense_variant,p.Pro1299Ser,ENST00000359263,;MYOF,missense_variant,p.Pro674Ser,ENST00000463743,;	A	ENSG00000138119	ENST00000359263	Transcript	missense_variant	3895	3895	1299	P/S	Cct/Tct	.	.	.	-1	MYOF	HGNC	3656	protein_coding	YES	CCDS41551.1	ENSP00000352208	MYOF_HUMAN	.	UPI000012FBA1	.	deleterious(0)	probably_damaging(0.931)	35/54	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACAGGCCTGA	.	5	BLCA
OPALIN	0	.	GRCh37	10	98118736	98118736	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-83G>A	.	.	ENST00000371172	1/6	111	80	30	69	69	0	OPALIN,5_prime_UTR_variant,,ENST00000371172,;OPALIN,5_prime_UTR_variant,,ENST00000393871,;OPALIN,5_prime_UTR_variant,,ENST00000419479,;OPALIN,5_prime_UTR_variant,,ENST00000393870,;OPALIN,upstream_gene_variant,,ENST00000536387,;	T	ENSG00000197430	ENST00000371172	Transcript	5_prime_UTR_variant	324	.	.	.	.	.	.	.	-1	OPALIN	HGNC	20707	protein_coding	YES	CCDS7448.1	ENSP00000360214	OPALI_HUMAN	.	UPI0000137063	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTCATTTG	.	4	BLCA
PIK3AP1	0	.	GRCh37	10	98380234	98380234	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1816C>T	p.Arg606Trp	p.R606W	ENST00000339364	12/17	134	80	54	111	111	0	PIK3AP1,missense_variant,p.Arg606Trp,ENST00000339364,;PIK3AP1,missense_variant,p.Arg428Trp,ENST00000371110,;PIK3AP1,missense_variant,p.Arg205Trp,ENST00000371109,;RNA5SP324,downstream_gene_variant,,ENST00000365177,;PIK3AP1,upstream_gene_variant,,ENST00000489982,;PIK3AP1,upstream_gene_variant,,ENST00000467625,;RP11-34E5.4,downstream_gene_variant,,ENST00000456516,;	A	ENSG00000155629	ENST00000339364	Transcript	missense_variant	1936	1816	606	R/W	Cgg/Tgg	COSM1297538	.	.	-1	PIK3AP1	HGNC	30034	protein_coding	YES	CCDS31259.1	ENSP00000339826	BCAP_HUMAN	.	UPI00001F947F	.	deleterious(0)	probably_damaging(0.999)	12/17	.	hmmpanther:PTHR16267,hmmpanther:PTHR16267:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCCGCTGGC	.	5	BLCA
EXPH5	0	.	GRCh37	11	108464258	108464258	+	Silent	SNP	C	C	T	rs768918751	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6G>A	p.%3D	p.T2T	ENST00000265843	1/6	61	43	17	83	83	0	EXPH5,synonymous_variant,p.%3D,ENST00000265843,;EXPH5,intron_variant,,ENST00000525344,;	T	ENSG00000110723	ENST00000265843	Transcript	synonymous_variant	117	6	2	T	acG/acA	rs768918751,COSM1297633	.	.	-1	EXPH5	HGNC	30578	protein_coding	YES	CCDS8341.1	ENSP00000265843	EXPH5_HUMAN	F5GXG5_HUMAN,E9PPH6_HUMAN,E9PIT1_HUMAN,E9PC93_HUMAN,E7ENT4_HUMAN	UPI000013D692	.	.	.	1/6	.	hmmpanther:PTHR21469	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTCGTCAT	byFrequency	5	BLCA
EXPH5	0	.	GRCh37	11	108464348	108464348	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-85G>A	.	.	ENST00000265843	1/6	17	9	8	19	19	0	EXPH5,5_prime_UTR_variant,,ENST00000265843,;EXPH5,intron_variant,,ENST00000525344,;	T	ENSG00000110723	ENST00000265843	Transcript	5_prime_UTR_variant	27	.	.	.	.	.	.	.	-1	EXPH5	HGNC	30578	protein_coding	YES	CCDS8341.1	ENSP00000265843	EXPH5_HUMAN	F5GXG5_HUMAN,E9PPH6_HUMAN,E9PIT1_HUMAN,E9PC93_HUMAN,E7ENT4_HUMAN	UPI000013D692	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCACGAA	.	5	BLCA
HTR3B	0	.	GRCh37	11	113775663	113775663	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8C>G	p.Ser3Ter	p.S3*	ENST00000260191	1/9	52	36	16	59	58	1	HTR3B,stop_gained,p.Ser3Ter,ENST00000260191,;HTR3B,upstream_gene_variant,,ENST00000537778,;	G	ENSG00000149305	ENST00000260191	Transcript	stop_gained	265	8	3	S/*	tCa/tGa	COSM1297666	.	.	1	HTR3B	HGNC	5298	protein_coding	YES	CCDS8364.1	ENSP00000260191	5HT3B_HUMAN	B3VRP0_HUMAN,B3VRN0_HUMAN,B3VRM0_HUMAN,B3VRL5_HUMAN,B3VRL0_HUMAN,B3VRK5_HUMAN	UPI0000073DA3	.	.	.	1/9	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGTCAAGTG	.	5	BLCA
POU2F3	0	.	GRCh37	11	120187935	120187935	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142-3C>T	.	.	ENST00000260264	.	98	66	32	113	113	0	POU2F3,splice_region_variant,,ENST00000532663,;POU2F3,splice_region_variant,,ENST00000260264,;POU2F3,splice_region_variant,,ENST00000543440,;POU2F3,splice_region_variant,,ENST00000532638,;POU2F3,splice_region_variant,,ENST00000533620,;POU2F3,non_coding_transcript_exon_variant,,ENST00000529039,;	T	ENSG00000137709	ENST00000260264	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	POU2F3	HGNC	19864	protein_coding	YES	CCDS58190.1	ENSP00000260264	PO2F3_HUMAN	.	UPI0002064EE0	.	.	.	.	11/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTCAGTAA	.	5	BLCA
GRIK4	0	.	GRCh37	11	120690613	120690613	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495C>T	p.%3D	p.I165I	ENST00000527524	6/21	255	160	95	263	263	0	GRIK4,synonymous_variant,p.%3D,ENST00000438375,;GRIK4,synonymous_variant,p.%3D,ENST00000527524,;GRIK4,downstream_gene_variant,,ENST00000526536,;GRIK4,non_coding_transcript_exon_variant,,ENST00000533291,;	T	ENSG00000149403	ENST00000527524	Transcript	synonymous_variant	782	495	165	I	atC/atT	COSM1297736	.	.	1	GRIK4	HGNC	4582	protein_coding	YES	CCDS8433.1	ENSP00000435648	GRIK4_HUMAN	.	UPI000013DB8D	.	.	.	6/21	.	hmmpanther:PTHR18966:SF171,hmmpanther:PTHR18966,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCTGTGC	.	5	BLCA
HSPA8	0	.	GRCh37	11	122929535	122929535	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327T>C	p.Tyr443His	p.Y443H	ENST00000534624	7/9	55	36	18	48	48	0	HSPA8,missense_variant,p.Tyr207His,ENST00000534319,;HSPA8,missense_variant,p.Tyr424His,ENST00000526110,;HSPA8,missense_variant,p.Tyr443His,ENST00000453788,;HSPA8,missense_variant,p.Tyr34His,ENST00000524552,;HSPA8,missense_variant,p.Tyr443His,ENST00000227378,;HSPA8,missense_variant,p.Tyr443His,ENST00000532636,;HSPA8,missense_variant,p.Tyr297His,ENST00000533540,;HSPA8,missense_variant,p.Tyr443His,ENST00000534624,;HSPA8,5_prime_UTR_variant,,ENST00000526686,;HSPA8,downstream_gene_variant,,ENST00000525463,;HSPA8,downstream_gene_variant,,ENST00000525624,;HSPA8,downstream_gene_variant,,ENST00000528292,;HSPA8,downstream_gene_variant,,ENST00000532182,;HSPA8,downstream_gene_variant,,ENST00000534567,;HSPA8,downstream_gene_variant,,ENST00000530391,;HSPA8,downstream_gene_variant,,ENST00000527387,;HSPA8,downstream_gene_variant,,ENST00000524590,;SNORD14D,downstream_gene_variant,,ENST00000384390,;SNORD14E,upstream_gene_variant,,ENST00000364009,;SNORD14C,downstream_gene_variant,,ENST00000365382,;HSPA8,non_coding_transcript_exon_variant,,ENST00000533238,;HSPA8,downstream_gene_variant,,ENST00000526862,;HSPA8,non_coding_transcript_exon_variant,,ENST00000532091,;HSPA8,downstream_gene_variant,,ENST00000527983,;HSPA8,downstream_gene_variant,,ENST00000532780,;HSPA8,downstream_gene_variant,,ENST00000531063,;HSPA8,downstream_gene_variant,,ENST00000532167,;	G	ENSG00000109971	ENST00000534624	Transcript	missense_variant	1604	1327	443	Y/H	Tat/Cat	COSM1297758	.	.	-1	HSPA8	HGNC	5241	protein_coding	YES	CCDS8440.1	ENSP00000432083	HSP7C_HUMAN	Q9NZ87_HUMAN,Q96IS6_HUMAN,Q96H53_HUMAN,Q96BE0_HUMAN,E9PS65_HUMAN,E9PQQ4_HUMAN,E9PQK7_HUMAN,E9PPY6_HUMAN,E9PN89_HUMAN,E9PN25_HUMAN,E9PM13_HUMAN,E9PLF4_HUMAN,E9PK54_HUMAN,A8K7Q2_HUMAN	UPI0000000801	.	deleterious_low_confidence(0)	benign(0.186)	7/9	.	hmmpanther:PTHR19375,hmmpanther:PTHR19375:SF156,Pfam_domain:PF00012,Gene3D:2.60.34.10,Superfamily_domains:SSF100920	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATAAACCT	.	5	BLCA
OR6M1	0	.	GRCh37	11	123676311	123676311	+	Silent	SNP	G	G	A	rs772141013	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.747C>T	p.%3D	p.H249H	ENST00000309154	1/1	41	29	12	53	53	0	OR6M1,synonymous_variant,p.%3D,ENST00000309154,;	A	ENSG00000196099	ENST00000309154	Transcript	synonymous_variant	785	747	249	H	caC/caT	rs772141013,COSM1297766	.	.	-1	OR6M1	HGNC	14711	protein_coding	YES	CCDS31696.1	ENSP00000311038	OR6M1_HUMAN	.	UPI000003FE18	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26454,hmmpanther:PTHR26454:SF51,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCCGTGGGC	byFrequency	5	BLCA
MUC15	0	.	GRCh37	11	26586972	26586972	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515C>T	p.Ser172Phe	p.S172F	ENST00000436318	2/4	134	97	37	115	115	0	MUC15,missense_variant,p.Ser145Phe,ENST00000455601,;MUC15,missense_variant,p.Ser172Phe,ENST00000281268,;MUC15,missense_variant,p.Ser172Phe,ENST00000527569,;MUC15,missense_variant,p.Ser172Phe,ENST00000436318,;MUC15,missense_variant,p.Ser172Phe,ENST00000529533,;ANO3,intron_variant,,ENST00000537978,;ANO3,intron_variant,,ENST00000531568,;ANO3,intron_variant,,ENST00000525139,;ANO3,intron_variant,,ENST00000256737,;ANO3,downstream_gene_variant,,ENST00000529242,;	A	ENSG00000169550	ENST00000436318	Transcript	missense_variant	649	515	172	S/F	tCt/tTt	COSM1297939,COSM3791418,COSM3791417	.	.	-1	MUC15	HGNC	14956	protein_coding	YES	CCDS44557.1	ENSP00000416753	.	E9PII6_HUMAN	UPI0000D4B9CF	.	deleterious_low_confidence(0.01)	benign(0.403)	2/4	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGAAGACAGA	.	5	BLCA
LIN7C	0	.	GRCh37	11	27523109	27523109	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.161A>G	p.Tyr54Cys	p.Y54C	ENST00000278193	3/5	94	59	34	71	70	1	LIN7C,missense_variant,p.Tyr54Cys,ENST00000278193,;LIN7C,intron_variant,,ENST00000524596,;	C	ENSG00000148943	ENST00000278193	Transcript	missense_variant	182	161	54	Y/C	tAt/tGt	COSM1297943	.	.	-1	LIN7C	HGNC	17789	protein_coding	YES	CCDS7864.1	ENSP00000278193	LIN7C_HUMAN	.	UPI000000BB45	.	deleterious(0)	probably_damaging(0.974)	3/5	.	PROSITE_profiles:PS51022,hmmpanther:PTHR14063,Pfam_domain:PF02828,SMART_domains:SM00569,Superfamily_domains:SSF101288,PIRSF_domain:PIRSF038039	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCATATACC	.	5	BLCA
TCP11L1	0	.	GRCh37	11	33083105	33083105	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.805G>C	p.Glu269Gln	p.E269Q	ENST00000334274	7/10	61	40	21	75	75	0	TCP11L1,missense_variant,p.Glu269Gln,ENST00000531632,;TCP11L1,missense_variant,p.Glu269Gln,ENST00000432887,;TCP11L1,missense_variant,p.Glu269Gln,ENST00000334274,;TCP11L1,missense_variant,p.Glu48Gln,ENST00000324357,;TCP11L1,downstream_gene_variant,,ENST00000530419,;TCP11L1,downstream_gene_variant,,ENST00000602733,;TCP11L1,downstream_gene_variant,,ENST00000530171,;TCP11L1,missense_variant,p.Glu269Gln,ENST00000527661,;TCP11L1,3_prime_UTR_variant,,ENST00000528107,;	C	ENSG00000176148	ENST00000334274	Transcript	missense_variant	1205	805	269	E/Q	Gaa/Caa	COSM1297981,COSM1297982	.	.	1	TCP11L1	HGNC	25655	protein_coding	YES	CCDS7882.1	ENSP00000335595	T11L1_HUMAN	R4GNF5_HUMAN,E9PS88_HUMAN,E9PP52_HUMAN	UPI0000071A1F	.	tolerated(0.56)	benign(0.021)	7/10	.	Pfam_domain:PF05794,hmmpanther:PTHR12832:SF15,hmmpanther:PTHR12832	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTGGAAGAA	.	5	BLCA
CAPRIN1	0	.	GRCh37	11	34110948	34110948	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1238C>G	p.Ser413Cys	p.S413C	ENST00000341394	12/19	82	53	28	56	56	0	CAPRIN1,missense_variant,p.Ser413Cys,ENST00000532820,;CAPRIN1,missense_variant,p.Ser413Cys,ENST00000389645,;CAPRIN1,missense_variant,p.Ser413Cys,ENST00000530820,;CAPRIN1,missense_variant,p.Ser413Cys,ENST00000341394,;CAPRIN1,missense_variant,p.Ser332Cys,ENST00000529307,;CAPRIN1,intron_variant,,ENST00000528856,;CAPRIN1,upstream_gene_variant,,ENST00000528948,;CAPRIN1,upstream_gene_variant,,ENST00000533657,;	G	ENSG00000135387	ENST00000341394	Transcript	missense_variant	1427	1238	413	S/C	tCt/tGt	COSM1297991,COSM1297992	.	.	1	CAPRIN1	HGNC	6743	protein_coding	YES	CCDS31453.1	ENSP00000340329	CAPR1_HUMAN	G3V153_HUMAN,E9PLA9_HUMAN	UPI0000251DB5	.	deleterious(0.01)	possibly_damaging(0.868)	12/19	.	hmmpanther:PTHR22922,hmmpanther:PTHR22922:SF3,Pfam_domain:PF12287	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTCTGAAT	.	5	BLCA
TSSC2	0	.	GRCh37	11	3430129	3430129	+	RNA	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2258C>T	.	.	ENST00000529482	9/9	32	14	18	27	27	0	TSSC2,non_coding_transcript_exon_variant,,ENST00000529482,;TSSC2,non_coding_transcript_exon_variant,,ENST00000533775,;FAM86GP,downstream_gene_variant,,ENST00000448322,;TSSC2,downstream_gene_variant,,ENST00000450217,;	T	ENSG00000223756	ENST00000529482	Transcript	non_coding_transcript_exon_variant	2258	.	.	.	.	.	.	.	1	TSSC2	HGNC	12384	processed_transcript	YES	.	.	.	.	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCGAGCA	.	5	BLCA
ALX4	0	.	GRCh37	11	44331236	44331236	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.377G>A	p.Arg126Gln	p.R126Q	ENST00000329255	1/4	21	16	5	16	16	0	ALX4,missense_variant,p.Arg126Gln,ENST00000329255,;	T	ENSG00000052850	ENST00000329255	Transcript	missense_variant	481	377	126	R/Q	cGa/cAa	COSM1298042	.	.	-1	ALX4	HGNC	450	protein_coding	YES	CCDS31468.1	ENSP00000332744	ALX4_HUMAN	.	UPI000016A402	.	deleterious_low_confidence(0.02)	benign(0.17)	1/4	.	hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF285	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCTCGCTGC	.	2	BLCA
AMBRA1	0	.	GRCh37	11	46563668	46563677	+	Frame_Shift_Del	DEL	CTCCAGCCTG	CTCCAGCCTG	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CTCCAGCCTG	CTCCAGCCTG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1620_1629delCAGGCTGGAG	p.Arg541Ter	p.R541*	ENST00000314845	8/19	69	52	17	48	48	0	AMBRA1,frameshift_variant,p.Arg631Ter,ENST00000534300,;AMBRA1,frameshift_variant,p.Arg541Ter,ENST00000533727,;AMBRA1,frameshift_variant,p.Arg631Ter,ENST00000426438,;AMBRA1,frameshift_variant,p.Arg631Ter,ENST00000298834,;AMBRA1,frameshift_variant,p.Arg541Ter,ENST00000314845,;AMBRA1,frameshift_variant,p.Arg631Ter,ENST00000528950,;AMBRA1,frameshift_variant,p.Arg631Ter,ENST00000458649,;AMBRA1,downstream_gene_variant,,ENST00000524783,;AMBRA1,downstream_gene_variant,,ENST00000531542,;	-	ENSG00000110497	ENST00000314845	Transcript	frameshift_variant	1980-1989	1620-1629	540-543	SRLE/X	agCAGGCTGGAG/ag	.	.	.	-1	AMBRA1	HGNC	25990	protein_coding	YES	CCDS31475.1	ENSP00000318313	AMRA1_HUMAN	E9PL55_HUMAN	UPI0000237851	.	.	.	8/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22874:SF1,hmmpanther:PTHR22874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCTCAACTCCAGCCTGCTGGA	.	3	BLCA
LRP4	0	.	GRCh37	11	46895138	46895138	+	Silent	SNP	T	T	C	rs775999950	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4236A>G	p.%3D	p.A1412A	ENST00000378623	29/38	148	103	44	112	111	1	LRP4,synonymous_variant,p.%3D,ENST00000378623,;LRP4-AS1,non_coding_transcript_exon_variant,,ENST00000502049,;LRP4-AS1,downstream_gene_variant,,ENST00000531719,;LRP4,non_coding_transcript_exon_variant,,ENST00000527656,;	C	ENSG00000134569	ENST00000378623	Transcript	synonymous_variant	4479	4236	1412	A	gcA/gcG	rs775999950,COSM1298079	.	.	-1	LRP4	HGNC	6696	protein_coding	YES	CCDS31478.1	ENSP00000367888	LRP4_HUMAN	.	UPI0000D625E9	.	.	.	29/38	.	PROSITE_profiles:PS51120,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF196,Gene3D:2.120.10.30,Pfam_domain:PF00058,SMART_domains:SM00135,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTCTGCTCG	byFrequency	5	BLCA
DDB2	0	.	GRCh37	11	47237917	47237917	+	Missense_Mutation	SNP	T	T	C	rs772355051	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158T>C	p.Leu53Pro	p.L53P	ENST00000256996	2/10	206	156	49	157	156	1	DDB2,missense_variant,p.Leu53Pro,ENST00000378601,;DDB2,missense_variant,p.Leu53Pro,ENST00000378600,;DDB2,missense_variant,p.Leu53Pro,ENST00000378603,;DDB2,missense_variant,p.Leu53Pro,ENST00000256996,;RP11-17G12.2,downstream_gene_variant,,ENST00000540410,;	C	ENSG00000134574	ENST00000256996	Transcript	missense_variant	353	158	53	L/P	cTc/cCc	rs772355051,COSM1298086	.	.	1	DDB2	HGNC	2718	protein_coding	YES	CCDS7927.1	ENSP00000256996	DDB2_HUMAN	.	UPI000000D90C	.	tolerated(0.22)	benign(0.006)	2/10	.	hmmpanther:PTHR15169:SF0,hmmpanther:PTHR15169	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCCTCTGGG	.	5	BLCA
OR5AS1	0	.	GRCh37	11	55798060	55798060	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166C>T	p.Gln56Ter	p.Q56*	ENST00000313555	1/1	73	57	16	46	46	0	OR5AS1,stop_gained,p.Gln56Ter,ENST00000313555,;	T	ENSG00000181785	ENST00000313555	Transcript	stop_gained	166	166	56	Q/*	Caa/Taa	COSM1298155	.	.	1	OR5AS1	HGNC	15261	protein_coding	YES	CCDS31516.1	ENSP00000324111	O5AS1_HUMAN	.	UPI000004B1FB	.	.	.	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF153,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P58S|c.172C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTCAAATT	.	5	BLCA
MS4A2	0	.	GRCh37	11	59863129	59863129	+	Nonstop_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.735A>C	p.Ter245TyrextTer21	p.*245Yext*21	ENST00000278888	7/7	42	32	10	29	29	0	MS4A2,stop_lost,p.Ter245TyrextTer21,ENST00000278888,;MS4A2,downstream_gene_variant,,ENST00000440896,;	C	ENSG00000149534	ENST00000278888	Transcript	stop_lost	837	735	245	*/Y	taA/taC	COSM1298258	.	.	1	MS4A2	HGNC	7316	protein_coding	YES	CCDS7980.1	ENSP00000278888	FCERB_HUMAN	E9PLJ1_HUMAN	UPI0000038E6F	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATAAGAATC	.	5	BLCA
ZP1	0	.	GRCh37	11	60636673	60636673	+	Silent	SNP	C	C	T	rs771847585	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252C>T	p.%3D	p.V84V	ENST00000278853	2/12	65	42	22	63	63	0	ZP1,synonymous_variant,p.%3D,ENST00000278853,;ZP1,synonymous_variant,p.%3D,ENST00000540908,;ZP1,upstream_gene_variant,,ENST00000543020,;ZP1,upstream_gene_variant,,ENST00000542971,;ZP1,upstream_gene_variant,,ENST00000537203,;	T	ENSG00000149506	ENST00000278853	Transcript	synonymous_variant	252	252	84	V	gtC/gtT	rs771847585,COSM1298262	.	.	1	ZP1	HGNC	13187	protein_coding	YES	CCDS31572.1	ENSP00000278853	ZP1_HUMAN	.	UPI0000351AA0	.	.	.	2/12	.	hmmpanther:PTHR23343:SF41,hmmpanther:PTHR23343	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGTCACCTC	.	5	BLCA
CD5	0	.	GRCh37	11	60889102	60889102	+	Silent	SNP	G	G	A	rs761591716	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825G>A	p.%3D	p.Q275Q	ENST00000347785	6/11	96	78	17	73	73	0	CD5,synonymous_variant,p.%3D,ENST00000347785,;CD5,downstream_gene_variant,,ENST00000544014,;	A	ENSG00000110448	ENST00000347785	Transcript	synonymous_variant	991	825	275	Q	caG/caA	rs761591716,COSM1298276	.	.	1	CD5	HGNC	1685	protein_coding	YES	CCDS8000.1	ENSP00000342681	CD5_HUMAN	H6D9U9_HUMAN	UPI000013D472	.	.	.	6/11	.	hmmpanther:PTHR19331:SF265,hmmpanther:PTHR19331,Gene3D:3.10.250.10,Superfamily_domains:SSF56487,Prints_domain:PR01409	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGCAGAGCCG	.	4	BLCA
RPLP0P2	0	.	GRCh37	11	61404392	61404392	+	RNA	SNP	C	C	T	rs759422535	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.996C>T	.	.	ENST00000496593	5/5	60	44	16	37	37	0	RPLP0P2,non_coding_transcript_exon_variant,,ENST00000496593,;RPLP0P2,downstream_gene_variant,,ENST00000475561,;RPLP0P2,downstream_gene_variant,,ENST00000492786,;RPLP0P2,downstream_gene_variant,,ENST00000475331,;RPLP0P2,downstream_gene_variant,,ENST00000478959,;RPLP0P2,non_coding_transcript_exon_variant,,ENST00000490750,;	T	ENSG00000243742	ENST00000496593	Transcript	non_coding_transcript_exon_variant	996	.	.	.	.	rs759422535	.	.	1	RPLP0P2	HGNC	17960	processed_transcript	YES	.	.	.	.	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCGCATC	byFrequency	5	BLCA
CAPN1	0	.	GRCh37	11	64977856	64977856	+	Silent	SNP	G	G	A	rs747653455	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1992G>A	p.%3D	p.S664S	ENST00000527323	19/21	39	25	13	30	30	0	CAPN1,synonymous_variant,p.%3D,ENST00000279247,;CAPN1,synonymous_variant,p.%3D,ENST00000524773,;CAPN1,synonymous_variant,p.%3D,ENST00000527323,;CAPN1,synonymous_variant,p.%3D,ENST00000533129,;CAPN1,synonymous_variant,p.%3D,ENST00000533820,;SLC22A20,upstream_gene_variant,,ENST00000529062,;SLC22A20,upstream_gene_variant,,ENST00000525437,;SLC22A20,upstream_gene_variant,,ENST00000525264,;CAPN1,downstream_gene_variant,,ENST00000530495,;CAPN1,non_coding_transcript_exon_variant,,ENST00000530567,;CAPN1,non_coding_transcript_exon_variant,,ENST00000533704,;CAPN1,non_coding_transcript_exon_variant,,ENST00000528165,;CAPN1,downstream_gene_variant,,ENST00000525013,;CAPN1,downstream_gene_variant,,ENST00000533079,;SLC22A20,upstream_gene_variant,,ENST00000454680,;SLC22A20,upstream_gene_variant,,ENST00000530038,;	A	ENSG00000014216	ENST00000527323	Transcript	synonymous_variant	2232	1992	664	S	tcG/tcA	rs747653455,COSM1298407	.	.	1	CAPN1	HGNC	1476	protein_coding	YES	CCDS44644.1	ENSP00000431984	CAN1_HUMAN	E9PSA6_HUMAN,E9PQB3_HUMAN,E9PMC6_HUMAN,E9PLX0_HUMAN,E9PLC9_HUMAN,E9PJJ3_HUMAN,E9PJA6_HUMAN,E9PIA9_HUMAN	UPI0000000E05	.	.	.	19/21	.	hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF284,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTCGGAGCC	.	5	BLCA
KAT5	0	.	GRCh37	11	65480123	65480123	+	Intron	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.179-114G>A	.	.	ENST00000341318	.	19	14	5	25	25	0	KAT5,5_prime_UTR_variant,,ENST00000534650,;KAT5,intron_variant,,ENST00000530446,;KAT5,intron_variant,,ENST00000531880,;KAT5,intron_variant,,ENST00000352980,;KAT5,intron_variant,,ENST00000341318,;KAT5,intron_variant,,ENST00000528198,;KAT5,intron_variant,,ENST00000377046,;KAT5,intron_variant,,ENST00000530605,;KAT5,intron_variant,,ENST00000534104,;KAT5,upstream_gene_variant,,ENST00000534681,;KAT5,non_coding_transcript_exon_variant,,ENST00000525204,;KAT5,intron_variant,,ENST00000534293,;KAT5,intron_variant,,ENST00000527544,;KAT5,intron_variant,,ENST00000532042,;KAT5,upstream_gene_variant,,ENST00000533441,;RNASEH2C,downstream_gene_variant,,ENST00000534482,;	A	ENSG00000172977	ENST00000341318	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	KAT5	HGNC	5275	protein_coding	YES	CCDS8110.1	ENSP00000340330	KAT5_HUMAN	E9PMG8_HUMAN,E9PJI1_HUMAN	UPI00001D3EFB	.	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TAGGAGAGACC	.	4	BLCA
LRP5	0	.	GRCh37	11	68115341	68115341	+	Missense_Mutation	SNP	C	C	T	rs780921829	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118C>T	p.Arg40Cys	p.R40C	ENST00000294304	2/23	235	210	25	88	87	1	LRP5,missense_variant,p.Arg40Cys,ENST00000294304,;LRP5,missense_variant,p.Arg40Cys,ENST00000529993,;	T	ENSG00000162337	ENST00000294304	Transcript	missense_variant	224	118	40	R/C	Cgc/Tgc	rs780921829,COSM1298516	.	.	1	LRP5	HGNC	6697	protein_coding	YES	CCDS8181.1	ENSP00000294304	LRP5_HUMAN	E9PHY1_HUMAN	UPI0000073246	.	deleterious(0.01)	probably_damaging(1)	2/23	.	Superfamily_domains:SSF63825,PIRSF_domain:PIRSF036314,Gene3D:2.120.10.30,hmmpanther:PTHR10529:SF202,hmmpanther:PTHR10529	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAACCGCCGG	.	4	BLCA
NUMA1	0	.	GRCh37	11	71724518	71724518	+	Missense_Mutation	SNP	G	G	A	rs762061842	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4031C>T	p.Ser1344Phe	p.S1344F	ENST00000393695	15/27	145	133	12	53	53	0	NUMA1,missense_variant,p.Ser1344Phe,ENST00000393695,;NUMA1,missense_variant,p.Ser1344Phe,ENST00000358965,;NUMA1,missense_variant,p.Ser189Phe,ENST00000541584,;NUMA1,intron_variant,,ENST00000351960,;NUMA1,downstream_gene_variant,,ENST00000537217,;NUMA1,downstream_gene_variant,,ENST00000542977,;RP11-849H4.4,upstream_gene_variant,,ENST00000502284,;NUMA1,downstream_gene_variant,,ENST00000540843,;NUMA1,downstream_gene_variant,,ENST00000534987,;NUMA1,downstream_gene_variant,,ENST00000536119,;NUMA1,upstream_gene_variant,,ENST00000545721,;NUMA1,upstream_gene_variant,,ENST00000546036,;NUMA1,upstream_gene_variant,,ENST00000540588,;	A	ENSG00000137497	ENST00000393695	Transcript	missense_variant	4363	4031	1344	S/F	tCc/tTc	rs762061842,COSM1298572	.	.	-1	NUMA1	HGNC	8059	protein_coding	YES	CCDS31633.1	ENSP00000377298	NUMA1_HUMAN	Q9UPG3_HUMAN,Q9UNL7_HUMAN,Q86XH4_HUMAN,Q4LE64_HUMAN,G1UI36_HUMAN,F8W6T3_HUMAN,F5H7R5_HUMAN,F5H763_HUMAN,F5H6Y5_HUMAN,F5H4Y4_HUMAN,F5H4J1_HUMAN,F5H3L6_HUMAN,F5H2F3_HUMAN,F5H1L0_HUMAN,F5H0Z7_HUMAN,F5H073_HUMAN,F5H068_HUMAN,F5GZW1_HUMAN,F5GWK2_HUMAN,F5GWA2_HUMAN	UPI000013DB8B	.	.	probably_damaging(0.999)	15/27	.	hmmpanther:PTHR18902,hmmpanther:PTHR18902:SF24	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTGGAGAGG	.	2	BLCA
FOLR2	0	.	GRCh37	11	71927861	71927861	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-133C>T	.	.	ENST00000298223	1/5	62	17	45	22	22	0	FOLR2,5_prime_UTR_variant,,ENST00000541003,;FOLR2,5_prime_UTR_variant,,ENST00000298223,;FOLR2,5_prime_UTR_variant,,ENST00000536778,;FOLR2,5_prime_UTR_variant,,ENST00000454954,;FOLR2,5_prime_UTR_variant,,ENST00000539412,;FOLR2,5_prime_UTR_variant,,ENST00000449475,;FOLR2,upstream_gene_variant,,ENST00000538353,;FOLR2,upstream_gene_variant,,ENST00000535625,;FOLR2,upstream_gene_variant,,ENST00000321324,;	T	ENSG00000165457	ENST00000298223	Transcript	5_prime_UTR_variant	55	.	.	.	.	.	.	.	1	FOLR2	HGNC	3793	protein_coding	YES	CCDS8212.1	ENSP00000298223	FOLR2_HUMAN	Q6GTE8_HUMAN,Q05CA5_HUMAN,F5H4Z6_HUMAN	UPI000013E4AD	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGTACCGAAGA	.	4	BLCA
INPPL1	0	.	GRCh37	11	71943351	71943351	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1683C>T	p.%3D	p.H561H	ENST00000298229	14/28	14	9	5	9	9	0	INPPL1,synonymous_variant,p.%3D,ENST00000538751,;INPPL1,synonymous_variant,p.%3D,ENST00000298229,;INPPL1,synonymous_variant,p.%3D,ENST00000541756,;INPPL1,upstream_gene_variant,,ENST00000541752,;INPPL1,downstream_gene_variant,,ENST00000540329,;INPPL1,downstream_gene_variant,,ENST00000537656,;INPPL1,non_coding_transcript_exon_variant,,ENST00000537755,;INPPL1,non_coding_transcript_exon_variant,,ENST00000544806,;INPPL1,downstream_gene_variant,,ENST00000538339,;INPPL1,downstream_gene_variant,,ENST00000541544,;INPPL1,upstream_gene_variant,,ENST00000541303,;INPPL1,upstream_gene_variant,,ENST00000545355,;INPPL1,upstream_gene_variant,,ENST00000535985,;INPPL1,upstream_gene_variant,,ENST00000542295,;	T	ENSG00000165458	ENST00000298229	Transcript	synonymous_variant	1887	1683	561	H	caC/caT	COSM1298576	.	.	1	INPPL1	HGNC	6080	protein_coding	YES	CCDS8213.1	ENSP00000298229	SHIP2_HUMAN	H0YFZ4_HUMAN,F5H588_HUMAN,F5GYK9_HUMAN	UPI000013E4AF	.	.	.	14/28	.	Superfamily_domains:SSF56219,SMART_domains:SM00128,Gene3D:3.60.10.10,Pfam_domain:PF03372,hmmpanther:PTHR11200:SF15,hmmpanther:PTHR11200	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCACCTCAC	.	2	BLCA
RSF1	0	.	GRCh37	11	77378038	77378038	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4250C>G	p.Ala1417Gly	p.A1417G	ENST00000308488	16/16	352	305	46	173	173	0	RSF1,missense_variant,p.Ala1165Gly,ENST00000480887,;RSF1,missense_variant,p.Ala1417Gly,ENST00000308488,;RSF1,missense_variant,p.Ala1386Gly,ENST00000360355,;	C	ENSG00000048649	ENST00000308488	Transcript	missense_variant	4553	4250	1417	A/G	gCa/gGa	COSM1298643	.	.	-1	RSF1	HGNC	18118	protein_coding	YES	CCDS8253.1	ENSP00000311513	RSF1_HUMAN	H0YER1_HUMAN,H0YDG9_HUMAN,H0YCN2_HUMAN	UPI00001FB001	.	tolerated_low_confidence(0.54)	possibly_damaging(0.617)	16/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10615,hmmpanther:PTHR10615:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGTGCTCCT	.	4	BLCA
TENM4	0	.	GRCh37	11	78369287	78369287	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8126G>C	p.Arg2709Thr	p.R2709T	ENST00000278550	34/34	87	67	20	62	62	0	TENM4,missense_variant,p.Arg2709Thr,ENST00000278550,;TENM4,intron_variant,,ENST00000530738,;	G	ENSG00000149256	ENST00000278550	Transcript	missense_variant	8589	8126	2709	R/T	aGa/aCa	COSM1298659,COSM1298660	.	.	-1	TENM4	HGNC	29945	protein_coding	YES	CCDS44688.1	ENSP00000278550	TEN4_HUMAN	G3CAT1_HUMAN	UPI0000DD8112	.	deleterious(0.01)	probably_damaging(0.96)	34/34	.	Low_complexity_(Seg):seg,Pfam_domain:PF15636,hmmpanther:PTHR11219:SF9,hmmpanther:PTHR11219	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTCTCTGC	.	5	BLCA
MRE11A	0	.	GRCh37	11	94201031	94201031	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1046G>T	p.Arg349Leu	p.R349L	ENST00000323929	10/20	58	29	28	102	102	0	MRE11A,missense_variant,p.Arg349Leu,ENST00000323977,;MRE11A,missense_variant,p.Arg349Leu,ENST00000323929,;MRE11A,missense_variant,p.Arg349Leu,ENST00000393241,;MRE11A,missense_variant,p.Arg352Leu,ENST00000407439,;MIR548L,upstream_gene_variant,,ENST00000408303,;	A	ENSG00000020922	ENST00000323929	Transcript	missense_variant	1269	1046	349	R/L	cGg/cTg	COSM1298775,COSM1298774	.	.	-1	MRE11A	HGNC	7230	protein_coding	YES	CCDS8299.1	ENSP00000325863	MRE11_HUMAN	Q9BS79_HUMAN,F5H742_HUMAN,F5H256_HUMAN	UPI000012F4D3	.	tolerated(0.09)	benign(0.032)	10/20	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10139,TIGRFAM_domain:TIGR00583,Pfam_domain:PF04152,PIRSF_domain:PIRSF000882,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCCCGTTCA	.	5	BLCA
ANKS1B	0	.	GRCh37	12	100377915	100377915	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.101G>A	p.Gly34Glu	p.G34E	ENST00000547776	1/26	108	84	24	93	93	0	ANKS1B,missense_variant,p.Gly34Glu,ENST00000329257,;ANKS1B,missense_variant,p.Gly34Glu,ENST00000549866,;ANKS1B,missense_variant,p.Gly34Glu,ENST00000547776,;ANKS1B,5_prime_UTR_variant,,ENST00000547010,;	T	ENSG00000185046	ENST00000547776	Transcript	missense_variant	101	101	34	G/E	gGa/gAa	COSM1298797	.	.	-1	ANKS1B	HGNC	24600	protein_coding	YES	CCDS55872.1	ENSP00000449629	ANS1B_HUMAN	R4GN73_HUMAN,R4GN70_HUMAN,R4GN07_HUMAN	UPI00003FE521	.	deleterious(0.03)	possibly_damaging(0.673)	1/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24174,hmmpanther:PTHR24174:SF3,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGATCCACCG	.	5	BLCA
ANKS1B	0	.	GRCh37	12	100378001	100378001	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15G>A	p.%3D	p.Q5Q	ENST00000547776	1/26	69	55	14	63	63	0	ANKS1B,synonymous_variant,p.%3D,ENST00000329257,;ANKS1B,synonymous_variant,p.%3D,ENST00000549866,;ANKS1B,synonymous_variant,p.%3D,ENST00000547776,;ANKS1B,5_prime_UTR_variant,,ENST00000547010,;	T	ENSG00000185046	ENST00000547776	Transcript	synonymous_variant	15	15	5	Q	caG/caA	COSM1298798	.	.	-1	ANKS1B	HGNC	24600	protein_coding	YES	CCDS55872.1	ENSP00000449629	ANS1B_HUMAN	R4GN73_HUMAN,R4GN70_HUMAN,R4GN07_HUMAN	UPI00003FE521	.	.	.	1/26	.	hmmpanther:PTHR24174,hmmpanther:PTHR24174:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTCCTGGTC	.	5	BLCA
PARPBP	0	.	GRCh37	12	102569339	102569339	+	Silent	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900A>G	p.%3D	p.K300K	ENST00000358383	7/11	111	81	29	54	54	0	PARPBP,synonymous_variant,p.%3D,ENST00000358383,;PARPBP,synonymous_variant,p.%3D,ENST00000541394,;PARPBP,synonymous_variant,p.%3D,ENST00000327680,;PARPBP,synonymous_variant,p.%3D,ENST00000392911,;PARPBP,intron_variant,,ENST00000543784,;PARPBP,intron_variant,,ENST00000378128,;PARPBP,intron_variant,,ENST00000417507,;PARPBP,intron_variant,,ENST00000412715,;PARPBP,intron_variant,,ENST00000535811,;PARPBP,3_prime_UTR_variant,,ENST00000457614,;	G	ENSG00000185480	ENST00000358383	Transcript	synonymous_variant	945	900	300	K	aaA/aaG	COSM1298832,COSM1298831	.	.	1	PARPBP	HGNC	26074	protein_coding	YES	CCDS9090.2	ENSP00000351153	PARI_HUMAN	.	UPI000004A06B	.	.	.	7/11	.	Superfamily_domains:SSF52540,hmmpanther:PTHR32121	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCAAAGCAAT	.	5	BLCA
KIAA1033	0	.	GRCh37	12	105558026	105558026	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3295G>A	p.Asp1099Asn	p.D1099N	ENST00000332180	31/33	113	79	34	104	103	0	KIAA1033,missense_variant,p.Asp1099Asn,ENST00000332180,;KIAA1033,downstream_gene_variant,,ENST00000551224,;KIAA1033,non_coding_transcript_exon_variant,,ENST00000547171,;KIAA1033,downstream_gene_variant,,ENST00000551290,;KIAA1033,3_prime_UTR_variant,,ENST00000550053,;KIAA1033,non_coding_transcript_exon_variant,,ENST00000550036,;KIAA1033,downstream_gene_variant,,ENST00000550786,;	A	ENSG00000136051	ENST00000332180	Transcript	missense_variant	3382	3295	1099	D/N	Gat/Aat	COSM1298854	.	.	1	KIAA1033	HGNC	29174	protein_coding	YES	CCDS41826.1	ENSP00000328062	WASH7_HUMAN	F8W1W1_HUMAN,F8VQX3_HUMAN,F8VNZ5_HUMAN	UPI00001C1F3B	.	deleterious(0)	probably_damaging(1)	31/33	.	hmmpanther:PTHR31409,hmmpanther:PTHR31409:SF0,Pfam_domain:PF14746	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCAAGATGAA	.	5	BLCA
TCHP	0	.	GRCh37	12	110342545	110342545	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.403G>T	p.Ala135Ser	p.A135S	ENST00000312777	4/13	68	49	18	56	56	0	TCHP,missense_variant,p.Ala135Ser,ENST00000536408,;TCHP,missense_variant,p.Ala135Ser,ENST00000312777,;TCHP,missense_variant,p.Ala135Ser,ENST00000405876,;TCHP,missense_variant,p.Ala135Ser,ENST00000544838,;TCHP,non_coding_transcript_exon_variant,,ENST00000537218,;TCHP,upstream_gene_variant,,ENST00000549550,;	T	ENSG00000139437	ENST00000312777	Transcript	missense_variant	617	403	135	A/S	Gct/Tct	COSM1298894	.	.	1	TCHP	HGNC	28135	protein_coding	YES	CCDS9137.1	ENSP00000324404	TCHP_HUMAN	F5GWH6_HUMAN	UPI000006E329	.	deleterious(0.05)	probably_damaging(0.998)	4/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31183,hmmpanther:PTHR31183:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATTGCTGAA	.	5	BLCA
TCHP	0	.	GRCh37	12	110345365	110345365	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560A>T	p.Tyr187Phe	p.Y187F	ENST00000312777	6/13	115	85	29	107	106	1	TCHP,missense_variant,p.Tyr187Phe,ENST00000312777,;TCHP,missense_variant,p.Tyr187Phe,ENST00000405876,;TCHP,downstream_gene_variant,,ENST00000536408,;TCHP,missense_variant,p.Tyr187Phe,ENST00000544838,;TCHP,upstream_gene_variant,,ENST00000549550,;TCHP,downstream_gene_variant,,ENST00000537218,;	T	ENSG00000139437	ENST00000312777	Transcript	missense_variant	774	560	187	Y/F	tAt/tTt	COSM1298895	.	.	1	TCHP	HGNC	28135	protein_coding	YES	CCDS9137.1	ENSP00000324404	TCHP_HUMAN	F5GWH6_HUMAN	UPI000006E329	.	tolerated(1)	benign(0.003)	6/13	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31183,hmmpanther:PTHR31183:SF2,Pfam_domain:PF13868	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGGTATGAAA	.	5	BLCA
IFT81	0	.	GRCh37	12	110643412	110643412	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1729C>G	p.Gln577Glu	p.Q577E	ENST00000242591	17/19	279	212	67	190	189	1	IFT81,missense_variant,p.Gln577Glu,ENST00000242591,;IFT81,missense_variant,p.Gln577Glu,ENST00000552912,;IFT81,missense_variant,p.Gln547Glu,ENST00000550156,;IFT81,non_coding_transcript_exon_variant,,ENST00000550748,;	G	ENSG00000122970	ENST00000242591	Transcript	missense_variant	2235	1729	577	Q/E	Caa/Gaa	COSM1298905	.	.	1	IFT81	HGNC	14313	protein_coding	YES	CCDS41831.1	ENSP00000242591	IFT81_HUMAN	.	UPI000000D78F	.	deleterious(0.01)	benign(0.017)	17/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15614:SF2,hmmpanther:PTHR15614	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCAACTT	.	5	BLCA
FAM216A	0	.	GRCh37	12	110927913	110927913	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.793G>A	p.Glu265Lys	p.E265K	ENST00000377673	7/7	151	112	39	120	119	0	FAM216A,missense_variant,p.Glu265Lys,ENST00000377673,;VPS29,downstream_gene_variant,,ENST00000546588,;VPS29,downstream_gene_variant,,ENST00000549578,;VPS29,downstream_gene_variant,,ENST00000552130,;VPS29,downstream_gene_variant,,ENST00000447578,;VPS29,downstream_gene_variant,,ENST00000360579,;VPS29,downstream_gene_variant,,ENST00000549970,;VPS29,downstream_gene_variant,,ENST00000548259,;FAM216A,non_coding_transcript_exon_variant,,ENST00000546396,;FAM216A,non_coding_transcript_exon_variant,,ENST00000547539,;FAM216A,downstream_gene_variant,,ENST00000548869,;FAM216A,downstream_gene_variant,,ENST00000548449,;VPS29,downstream_gene_variant,,ENST00000548539,;FAM216A,downstream_gene_variant,,ENST00000538285,;	A	ENSG00000204856	ENST00000377673	Transcript	missense_variant	1305	793	265	E/K	Gaa/Aaa	COSM1298910	.	.	1	FAM216A	HGNC	30180	protein_coding	YES	CCDS31899.1	ENSP00000366901	F216A_HUMAN	.	UPI0000073200	.	deleterious_low_confidence(0)	probably_damaging(0.997)	7/7	.	hmmpanther:PTHR16476:SF1,hmmpanther:PTHR16476	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGAACAG	.	5	BLCA
BRAP	0	.	GRCh37	12	112097074	112097074	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Glu350Lys	p.E350K	ENST00000419234	8/12	152	118	34	119	118	1	BRAP,missense_variant,p.Glu171Lys,ENST00000539060,;BRAP,missense_variant,p.Glu320Lys,ENST00000327551,;BRAP,missense_variant,p.Glu350Lys,ENST00000419234,;BRAP,non_coding_transcript_exon_variant,,ENST00000547043,;	T	ENSG00000089234	ENST00000419234	Transcript	missense_variant	1242	1048	350	E/K	Gag/Aag	COSM1298918	.	.	-1	BRAP	HGNC	1099	protein_coding	YES	CCDS9154.1	ENSP00000403524	BRAP_HUMAN	Q59H81_HUMAN,J3KNN7_HUMAN	UPI00001AF597	.	tolerated(0.24)	benign(0.194)	8/12	.	PROSITE_profiles:PS50271,hmmpanther:PTHR24007,Pfam_domain:PF02148,Gene3D:3.30.40.10,SMART_domains:SM00290,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTCCTCAAAGT	.	4	BLCA
RBM19	0	.	GRCh37	12	114358488	114358488	+	Silent	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2313C>G	p.%3D	p.L771L	ENST00000545145	19/25	376	260	116	324	324	0	RBM19,synonymous_variant,p.%3D,ENST00000545145,;RBM19,synonymous_variant,p.%3D,ENST00000392561,;RBM19,synonymous_variant,p.%3D,ENST00000261741,;RBM19,non_coding_transcript_exon_variant,,ENST00000552386,;	C	ENSG00000122965	ENST00000545145	Transcript	synonymous_variant	2392	2313	771	L	ctC/ctG	COSM1298951	.	.	-1	RBM19	HGNC	29098	protein_coding	YES	CCDS9172.1	ENSP00000442053	RBM19_HUMAN	.	UPI000013D1EC	.	.	.	19/25	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012:SF312,hmmpanther:PTHR24012,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00361,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAAGGAGCAC	.	5	BLCA
TAOK3	0	.	GRCh37	12	118693250	118693250	+	Intron	SNP	T	T	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120+3A>C	.	.	ENST00000392533	.	80	62	18	62	62	0	TAOK3,splice_region_variant,,ENST00000541878,;TAOK3,splice_region_variant,,ENST00000392533,;TAOK3,splice_region_variant,,ENST00000542902,;TAOK3,splice_region_variant,,ENST00000535570,;TAOK3,splice_region_variant,,ENST00000541186,;TAOK3,splice_region_variant,,ENST00000419821,;TAOK3,downstream_gene_variant,,ENST00000541786,;TAOK3,downstream_gene_variant,,ENST00000542532,;TAOK3,downstream_gene_variant,,ENST00000539872,;TAOK3,downstream_gene_variant,,ENST00000542692,;	G	ENSG00000135090	ENST00000392533	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	TAOK3	HGNC	18133	protein_coding	YES	CCDS9188.1	ENSP00000376317	TAOK3_HUMAN	G3V1Q8_HUMAN,F5H7G4_HUMAN,F5H5E0_HUMAN,F5H5C7_HUMAN,F5H3L7_HUMAN,F5H005_HUMAN,F5GY38_HUMAN,F5GX96_HUMAN,F5GWV8_HUMAN	UPI000007231B	.	.	.	.	3/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTTACAAA	.	4	BLCA
EP400	0	.	GRCh37	12	132547111	132547111	+	Silent	SNP	G	G	A	rs554589559	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8199G>A	p.%3D	p.Q2733Q	ENST00000389561	47/53	83	72	10	71	71	0	EP400,synonymous_variant,p.%3D,ENST00000389562,;EP400,synonymous_variant,p.%3D,ENST00000332482,;EP400,synonymous_variant,p.%3D,ENST00000389561,;EP400,synonymous_variant,p.%3D,ENST00000333577,;EP400,synonymous_variant,p.%3D,ENST00000330386,;	A	ENSG00000183495	ENST00000389561	Transcript	synonymous_variant	8308	8199	2733	Q	caG/caA	rs554589559,COSM1299143,COSM3416642	.	.	1	EP400	HGNC	11958	protein_coding	YES	CCDS31929.2	ENSP00000374212	EP400_HUMAN	.	UPI00004566BC	.	.	.	47/53	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10799:SF599,hmmpanther:PTHR10799	A:0.0006	A:0	A:0	.	A:0	A:0	A:0.0031	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCAGCAGCA	byFrequency|by1000G	4	BLCA
EP400	0	.	GRCh37	12	132547117	132547117	+	Silent	SNP	G	G	A	rs147048182	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8205G>A	p.%3D	p.Q2735Q	ENST00000389561	47/53	73	64	9	69	69	0	EP400,synonymous_variant,p.%3D,ENST00000389562,;EP400,synonymous_variant,p.%3D,ENST00000332482,;EP400,synonymous_variant,p.%3D,ENST00000389561,;EP400,synonymous_variant,p.%3D,ENST00000333577,;EP400,synonymous_variant,p.%3D,ENST00000330386,;	A	ENSG00000183495	ENST00000389561	Transcript	synonymous_variant	8314	8205	2735	Q	caG/caA	rs147048182,COSM1299144,COSM3416643	.	.	1	EP400	HGNC	11958	protein_coding	YES	CCDS31929.2	ENSP00000374212	EP400_HUMAN	.	UPI00004566BC	.	.	.	47/53	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10799:SF599,hmmpanther:PTHR10799	A:0.0014	A:0.0015	A:0.0014	.	A:0.001	A:0.001	A:0.002	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCAGCAGCA	byFrequency|by1000G	4	BLCA
EP400	0	.	GRCh37	12	132547120	132547120	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8208G>A	p.%3D	p.Q2736Q	ENST00000389561	47/53	75	64	10	73	73	0	EP400,synonymous_variant,p.%3D,ENST00000389562,;EP400,synonymous_variant,p.%3D,ENST00000332482,;EP400,synonymous_variant,p.%3D,ENST00000389561,;EP400,synonymous_variant,p.%3D,ENST00000333577,;EP400,synonymous_variant,p.%3D,ENST00000330386,;	A	ENSG00000183495	ENST00000389561	Transcript	synonymous_variant	8317	8208	2736	Q	caG/caA	COSM1299145	.	.	1	EP400	HGNC	11958	protein_coding	YES	CCDS31929.2	ENSP00000374212	EP400_HUMAN	.	UPI00004566BC	.	.	.	47/53	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10799:SF599,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCAGCAGCA	.	4	BLCA
GOLGA3	0	.	GRCh37	12	133381318	133381318	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1581C>T	p.%3D	p.L527L	ENST00000204726	7/24	103	72	30	85	85	0	GOLGA3,synonymous_variant,p.%3D,ENST00000204726,;GOLGA3,synonymous_variant,p.%3D,ENST00000537452,;GOLGA3,synonymous_variant,p.%3D,ENST00000450791,;GOLGA3,synonymous_variant,p.%3D,ENST00000456883,;GOLGA3,synonymous_variant,p.%3D,ENST00000545875,;	A	ENSG00000090615	ENST00000204726	Transcript	synonymous_variant	2140	1581	527	L	ctC/ctT	COSM1299168,COSM1299169	.	.	-1	GOLGA3	HGNC	4426	protein_coding	YES	CCDS9281.1	ENSP00000204726	GOGA3_HUMAN	.	UPI0000190979	.	.	.	7/24	.	hmmpanther:PTHR18902:SF20,hmmpanther:PTHR18902	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCTGAGCAT	.	5	BLCA
ARHGDIB	0	.	GRCh37	12	15100819	15100819	+	Silent	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330A>G	p.%3D	p.K110K	ENST00000228945	4/6	104	75	29	67	67	0	ARHGDIB,synonymous_variant,p.%3D,ENST00000541644,;ARHGDIB,synonymous_variant,p.%3D,ENST00000541380,;ARHGDIB,synonymous_variant,p.%3D,ENST00000541546,;ARHGDIB,synonymous_variant,p.%3D,ENST00000228945,;ARHGDIB,synonymous_variant,p.%3D,ENST00000545895,;ARHGDIB,synonymous_variant,p.%3D,ENST00000536592,;ARHGDIB,downstream_gene_variant,,ENST00000542276,;ARHGDIB,non_coding_transcript_exon_variant,,ENST00000539131,;ARHGDIB,non_coding_transcript_exon_variant,,ENST00000535676,;	C	ENSG00000111348	ENST00000228945	Transcript	synonymous_variant	475	330	110	K	aaA/aaG	COSM1299186	.	.	-1	ARHGDIB	HGNC	679	protein_coding	YES	CCDS8671.1	ENSP00000228945	GDIR2_HUMAN	F5H6Q0_HUMAN,F5H3P3_HUMAN,F5H2R5_HUMAN	UPI0000030441	.	.	.	4/6	.	hmmpanther:PTHR10980:SF15,hmmpanther:PTHR10980,Pfam_domain:PF02115,Gene3D:2.70.50.30,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATTTTGAC	.	5	BLCA
ITPR2	0	.	GRCh37	12	26810951	26810951	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1999C>T	p.Gln667Ter	p.Q667*	ENST00000381340	17/57	100	72	28	79	77	1	ITPR2,stop_gained,p.Gln667Ter,ENST00000381340,;	A	ENSG00000123104	ENST00000381340	Transcript	stop_gained	2416	1999	667	Q/*	Caa/Taa	COSM1299263	.	.	-1	ITPR2	HGNC	6181	protein_coding	YES	CCDS41764.1	ENSP00000370744	ITPR2_HUMAN	I1VE21_HUMAN	UPI00001FB7D2	.	.	.	17/57	.	hmmpanther:PTHR13715,Pfam_domain:PF01365	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGTTTGAATGA	.	4	BLCA
IQSEC3	0	.	GRCh37	12	278230	278230	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3023G>A	p.Gly1008Glu	p.G1008E	ENST00000538872	12/14	154	107	47	98	97	1	IQSEC3,missense_variant,p.Gly1008Glu,ENST00000538872,;IQSEC3,missense_variant,p.Gly1008Glu,ENST00000326261,;IQSEC3,missense_variant,p.Gly705Glu,ENST00000382841,;RP11-598F7.6,intron_variant,,ENST00000537961,;RP11-598F7.6,intron_variant,,ENST00000537295,;RP11-598F7.5,upstream_gene_variant,,ENST00000540136,;IQSEC3,non_coding_transcript_exon_variant,,ENST00000537151,;IQSEC3,non_coding_transcript_exon_variant,,ENST00000540907,;	A	ENSG00000120645	ENST00000538872	Transcript	missense_variant	3141	3023	1008	G/E	gGa/gAa	COSM1299279,COSM1299278	.	.	1	IQSEC3	HGNC	29193	protein_coding	YES	CCDS53728.1	ENSP00000437554	IQEC3_HUMAN	.	UPI0000DBEEF0	.	deleterious(0.01)	benign(0.009)	12/14	.	hmmpanther:PTHR10663:SF62,hmmpanther:PTHR10663	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCGGAGCCC	.	5	BLCA
LRRK2	0	.	GRCh37	12	40618867	40618867	+	5'Flank	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000298910	.	16	12	4	25	25	0	LRRK2,5_prime_UTR_variant,,ENST00000343742,;LRRK2,intron_variant,,ENST00000416796,;LRRK2,upstream_gene_variant,,ENST00000298910,;AC079630.4,upstream_gene_variant,,ENST00000412812,;LRRK2,upstream_gene_variant,,ENST00000474202,;	T	ENSG00000188906	ENST00000298910	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	9	1	LRRK2	HGNC	18618	protein_coding	YES	CCDS31774.1	ENSP00000298910	LRRK2_HUMAN	.	UPI00006C128E	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GGCGCCCCTGC	.	3	BLCA
PUS7L	0	.	GRCh37	12	44148459	44148459	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.590T>A	p.Val197Glu	p.V197E	ENST00000416848	2/9	104	74	30	72	72	0	PUS7L,missense_variant,p.Val197Glu,ENST00000416848,;PUS7L,missense_variant,p.Val197Glu,ENST00000344862,;PUS7L,missense_variant,p.Val197Glu,ENST00000553166,;PUS7L,missense_variant,p.Val197Glu,ENST00000551923,;PUS7L,intron_variant,,ENST00000431332,;PUS7L,intron_variant,,ENST00000547156,;PUS7L,intron_variant,,ENST00000550784,;IRAK4,upstream_gene_variant,,ENST00000440781,;PUS7L,downstream_gene_variant,,ENST00000549868,;IRAK4,upstream_gene_variant,,ENST00000551736,;IRAK4,upstream_gene_variant,,ENST00000448290,;IRAK4,upstream_gene_variant,,ENST00000550616,;IRAK4,upstream_gene_variant,,ENST00000431837,;IRAK4,upstream_gene_variant,,ENST00000552309,;IRAK4,upstream_gene_variant,,ENST00000546780,;IRAK4,upstream_gene_variant,,ENST00000547101,;IRAK4,upstream_gene_variant,,ENST00000550361,;IRAK4,upstream_gene_variant,,ENST00000547521,;IRAK4,upstream_gene_variant,,ENST00000550615,;IRAK4,upstream_gene_variant,,ENST00000550386,;	T	ENSG00000129317	ENST00000416848	Transcript	missense_variant	1079	590	197	V/E	gTa/gAa	COSM1299370	.	.	-1	PUS7L	HGNC	25276	protein_coding	YES	CCDS8743.1	ENSP00000415899	PUS7L_HUMAN	F8VZA0_HUMAN,F8VWC0_HUMAN,F8VW99_HUMAN,F8VP66_HUMAN,B3KUJ1_HUMAN	UPI0000037C53	.	deleterious(0)	probably_damaging(0.973)	2/9	.	PIRSF_domain:PIRSF037016,hmmpanther:PTHR13326:SF5,hmmpanther:PTHR13326	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTTACAACA	.	5	BLCA
RAD51AP1	0	.	GRCh37	12	4662181	4662181	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.640G>A	p.Glu214Lys	p.E214K	ENST00000228843	8/10	75	57	17	62	62	0	RAD51AP1,missense_variant,p.Glu214Lys,ENST00000321524,;RAD51AP1,missense_variant,p.Glu79Lys,ENST00000543041,;RAD51AP1,missense_variant,p.Glu197Lys,ENST00000544927,;RAD51AP1,missense_variant,p.Glu214Lys,ENST00000228843,;RAD51AP1,missense_variant,p.Glu197Lys,ENST00000352618,;RAD51AP1,missense_variant,p.Glu192Lys,ENST00000536117,;RAD51AP1,non_coding_transcript_exon_variant,,ENST00000544931,;RAD51AP1,3_prime_UTR_variant,,ENST00000535558,;RAD51AP1,3_prime_UTR_variant,,ENST00000544110,;RAD51AP1,3_prime_UTR_variant,,ENST00000536886,;RAD51AP1,3_prime_UTR_variant,,ENST00000398012,;RAD51AP1,3_prime_UTR_variant,,ENST00000442992,;RAD51AP1,non_coding_transcript_exon_variant,,ENST00000544029,;RAD51AP1,downstream_gene_variant,,ENST00000536346,;RAD51AP1,downstream_gene_variant,,ENST00000544173,;RAD51AP1,downstream_gene_variant,,ENST00000538817,;	A	ENSG00000111247	ENST00000228843	Transcript	missense_variant	690	640	214	E/K	Gag/Aag	COSM1299393	.	.	1	RAD51AP1	HGNC	16956	protein_coding	YES	CCDS44805.1	ENSP00000228843	R51A1_HUMAN	F5H4V6_HUMAN	UPI000006DAE6	.	deleterious(0.03)	probably_damaging(0.925)	8/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15361,hmmpanther:PTHR15361:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTGAGAGT	.	5	BLCA
CCNT1	0	.	GRCh37	12	49110507	49110507	+	5'UTR	SNP	G	G	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-49C>G	.	.	ENST00000261900	1/9	196	175	20	136	136	0	CCNT1,5_prime_UTR_variant,,ENST00000261900,;CCNT1,upstream_gene_variant,,ENST00000550457,;CCNT1,upstream_gene_variant,,ENST00000417344,;	C	ENSG00000129315	ENST00000261900	Transcript	5_prime_UTR_variant	175	.	.	.	.	.	.	.	-1	CCNT1	HGNC	1599	protein_coding	YES	CCDS8766.1	ENSP00000261900	CCNT1_HUMAN	.	UPI0000044259	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGCGTCACC	.	4	BLCA
DDN	0	.	GRCh37	12	49392962	49392962	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109G>T	p.Glu37Ter	p.E37*	ENST00000421952	1/2	46	29	16	39	39	0	DDN,stop_gained,p.Glu37Ter,ENST00000421952,;PRKAG1,downstream_gene_variant,,ENST00000551770,;PRKAG1,downstream_gene_variant,,ENST00000548950,;PRKAG1,downstream_gene_variant,,ENST00000548065,;PRKAG1,downstream_gene_variant,,ENST00000548362,;PRKAG1,downstream_gene_variant,,ENST00000552212,;PRKAG1,downstream_gene_variant,,ENST00000547306,;PRKAG1,downstream_gene_variant,,ENST00000316299,;PRKAG1,downstream_gene_variant,,ENST00000551121,;PRKAG1,downstream_gene_variant,,ENST00000395170,;PRKAG1,downstream_gene_variant,,ENST00000551696,;RP11-386G11.5,intron_variant,,ENST00000547866,;RP11-386G11.5,intron_variant,,ENST00000552933,;RP11-386G11.5,intron_variant,,ENST00000547395,;RP11-386G11.5,intron_variant,,ENST00000552284,;RP11-386G11.3,downstream_gene_variant,,ENST00000549516,;PRKAG1,downstream_gene_variant,,ENST00000552793,;PRKAG1,downstream_gene_variant,,ENST00000549726,;PRKAG1,downstream_gene_variant,,ENST00000550125,;PRKAG1,downstream_gene_variant,,ENST00000546531,;	A	ENSG00000181418	ENST00000421952	Transcript	stop_gained	131	109	37	E/*	Gaa/Taa	COSM1299418	.	.	-1	DDN	HGNC	24458	protein_coding	YES	CCDS31791.2	ENSP00000390590	DEND_HUMAN	.	UPI000019821C	.	.	.	1/2	.	hmmpanther:PTHR16757	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTCTATCA	.	5	BLCA
KRT18	0	.	GRCh37	12	53345517	53345517	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825T>G	p.Ile275Met	p.I275M	ENST00000388835	5/7	46	38	7	54	54	0	KRT18,missense_variant,p.Ile275Met,ENST00000388835,;KRT18,missense_variant,p.Ile275Met,ENST00000388837,;KRT18,missense_variant,p.Ile275Met,ENST00000550600,;KRT8,upstream_gene_variant,,ENST00000546826,;KRT8,upstream_gene_variant,,ENST00000552551,;KRT8,upstream_gene_variant,,ENST00000546897,;KRT8,upstream_gene_variant,,ENST00000548998,;AC107016.2,non_coding_transcript_exon_variant,,ENST00000581256,;KRT8,upstream_gene_variant,,ENST00000549198,;KRT8,upstream_gene_variant,,ENST00000551318,;KRT8,upstream_gene_variant,,ENST00000552877,;KRT18,splice_region_variant,,ENST00000549078,;KRT18,non_coding_transcript_exon_variant,,ENST00000546656,;KRT18,downstream_gene_variant,,ENST00000548015,;KRT8,upstream_gene_variant,,ENST00000546921,;KRT18,upstream_gene_variant,,ENST00000548496,;AC107016.1,downstream_gene_variant,,ENST00000432903,;	G	ENSG00000111057	ENST00000388835	Transcript	missense_variant	1035	825	275	I/M	atT/atG	COSM1299563	.	.	1	KRT18	HGNC	6430	protein_coding	YES	CCDS31809.1	ENSP00000373487	K1C18_HUMAN	I6L965_HUMAN	UPI000004284B	.	tolerated(0.07)	benign(0.279)	5/7	.	hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF35,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATTGAGGA	.	5	BLCA
SPRYD3	0	.	GRCh37	12	53473128	53473128	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11G>A	.	.	ENST00000301463	1/11	30	22	8	25	25	0	SPRYD3,5_prime_UTR_variant,,ENST00000547837,;SPRYD3,5_prime_UTR_variant,,ENST00000301463,;SPRYD3,5_prime_UTR_variant,,ENST00000537540,;SPRYD3,non_coding_transcript_exon_variant,,ENST00000550564,;SPRYD3,upstream_gene_variant,,ENST00000550252,;	T	ENSG00000167778	ENST00000301463	Transcript	5_prime_UTR_variant	77	.	.	.	.	.	.	.	-1	SPRYD3	HGNC	25920	protein_coding	YES	CCDS8845.1	ENSP00000301463	SPRY3_HUMAN	.	UPI0000038D00	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTCAGC	.	5	BLCA
PFDN5	0	.	GRCh37	12	53689715	53689715	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165G>A	p.%3D	p.K55K	ENST00000551018	2/6	53	32	20	60	60	0	PFDN5,synonymous_variant,p.%3D,ENST00000334478,;PFDN5,synonymous_variant,p.%3D,ENST00000551018,;PFDN5,synonymous_variant,p.%3D,ENST00000549759,;PFDN5,intron_variant,,ENST00000550846,;PFDN5,intron_variant,,ENST00000351500,;C12orf10,upstream_gene_variant,,ENST00000549488,;ESPL1,downstream_gene_variant,,ENST00000552462,;ESPL1,downstream_gene_variant,,ENST00000257934,;C12orf10,upstream_gene_variant,,ENST00000548632,;C12orf10,upstream_gene_variant,,ENST00000267103,;RP11-680A11.5,downstream_gene_variant,,ENST00000550263,;PFDN5,synonymous_variant,p.%3D,ENST00000243040,;PFDN5,non_coding_transcript_exon_variant,,ENST00000549995,;PFDN5,non_coding_transcript_exon_variant,,ENST00000547228,;PFDN5,non_coding_transcript_exon_variant,,ENST00000552341,;PFDN5,non_coding_transcript_exon_variant,,ENST00000550069,;PFDN5,non_coding_transcript_exon_variant,,ENST00000551223,;PFDN5,non_coding_transcript_exon_variant,,ENST00000550513,;PFDN5,intron_variant,,ENST00000547130,;PFDN5,intron_variant,,ENST00000552742,;PFDN5,intron_variant,,ENST00000550880,;C12orf10,upstream_gene_variant,,ENST00000551670,;PFDN5,upstream_gene_variant,,ENST00000553171,;ESPL1,downstream_gene_variant,,ENST00000549154,;C12orf10,upstream_gene_variant,,ENST00000548845,;PFDN5,upstream_gene_variant,,ENST00000550964,;C12orf10,upstream_gene_variant,,ENST00000551131,;PFDN5,upstream_gene_variant,,ENST00000552548,;ESPL1,downstream_gene_variant,,ENST00000552671,;PFDN5,upstream_gene_variant,,ENST00000548984,;	A	ENSG00000123349	ENST00000551018	Transcript	synonymous_variant	442	165	55	K	aaG/aaA	COSM1299585	.	.	1	PFDN5	HGNC	8869	protein_coding	YES	CCDS8853.1	ENSP00000447942	PFD5_HUMAN	.	UPI00000009FD	.	.	.	2/6	.	HAMAP:MF_00308,hmmpanther:PTHR12674,Pfam_domain:PF02996,Gene3D:1.10.287.370,TIGRFAM_domain:TIGR00293,Superfamily_domains:SSF46579	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAAGAGCAA	.	5	BLCA
ATP5B	0	.	GRCh37	12	57037667	57037667	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561C>T	p.%3D	p.I187I	ENST00000262030	4/10	96	73	22	71	70	1	ATP5B,synonymous_variant,p.%3D,ENST00000552959,;ATP5B,synonymous_variant,p.%3D,ENST00000552919,;ATP5B,synonymous_variant,p.%3D,ENST00000262030,;ATP5B,synonymous_variant,p.%3D,ENST00000551020,;ATP5B,intron_variant,,ENST00000552104,;ATP5B,intron_variant,,ENST00000553007,;ATP5B,upstream_gene_variant,,ENST00000551570,;SNORD59A,downstream_gene_variant,,ENST00000384304,;ATP5B,non_coding_transcript_exon_variant,,ENST00000547250,;ATP5B,non_coding_transcript_exon_variant,,ENST00000548647,;ATP5B,intron_variant,,ENST00000547808,;ATP5B,intron_variant,,ENST00000548474,;ATP5B,upstream_gene_variant,,ENST00000550162,;ATP5B,upstream_gene_variant,,ENST00000551182,;	A	ENSG00000110955	ENST00000262030	Transcript	synonymous_variant	612	561	187	I	atC/atT	COSM1299689	.	.	-1	ATP5B	HGNC	830	protein_coding	YES	CCDS8924.1	ENSP00000262030	ATPB_HUMAN	Q0QEN7_HUMAN	UPI000012644E	.	.	.	4/10	.	Superfamily_domains:SSF52540,Pfam_domain:PF00006,TIGRFAM_domain:TIGR01039,Gene3D:3.40.50.300,hmmpanther:PTHR15184:SF32,hmmpanther:PTHR15184,HAMAP:MF_01347	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTGATACC	.	5	BLCA
METTL21B	0	.	GRCh37	12	58174278	58174278	+	Missense_Mutation	SNP	A	A	G	rs375315307	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530A>G	p.Tyr177Cys	p.Y177C	ENST00000300209	3/3	64	40	23	45	45	0	METTL21B,missense_variant,p.Tyr177Cys,ENST00000300209,;METTL21B,5_prime_UTR_variant,,ENST00000551420,;METTL21B,3_prime_UTR_variant,,ENST00000333012,;RP11-571M6.15,intron_variant,,ENST00000546504,;TSFM,upstream_gene_variant,,ENST00000457189,;METTL21B,downstream_gene_variant,,ENST00000548256,;TSFM,upstream_gene_variant,,ENST00000543727,;TSFM,upstream_gene_variant,,ENST00000323833,;TSFM,upstream_gene_variant,,ENST00000540550,;TSFM,upstream_gene_variant,,ENST00000548851,;TSFM,upstream_gene_variant,,ENST00000434359,;TSFM,upstream_gene_variant,,ENST00000350762,;TSFM,upstream_gene_variant,,ENST00000550559,;TSFM,upstream_gene_variant,,ENST00000454289,;RP11-571M6.15,intron_variant,,ENST00000553083,;TSFM,upstream_gene_variant,,ENST00000497617,;RP11-571M6.15,intron_variant,,ENST00000471530,;TSFM,upstream_gene_variant,,ENST00000417094,;	G	ENSG00000123427	ENST00000300209	Transcript	missense_variant	655	530	177	Y/C	tAt/tGt	rs375315307,COSM1299736	.	.	1	METTL21B	HGNC	24936	protein_coding	YES	CCDS8957.1	ENSP00000300209	MT21B_HUMAN	F8W226_HUMAN	UPI000006CEB5	.	deleterious(0)	probably_damaging(0.979)	3/3	.	hmmpanther:PTHR14614:SF5,hmmpanther:PTHR14614,Pfam_domain:PF10294,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	G:0.0002	G:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTATCTGG	byFrequency|byCluster	5	BLCA
VWF	0	.	GRCh37	12	6128469	6128469	+	Missense_Mutation	SNP	A	A	G	rs61750070	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4115T>C	p.Ile1372Thr	p.I1372T	ENST00000261405	28/52	123	88	35	102	102	0	VWF,missense_variant,p.Ile1372Thr,ENST00000261405,;VWF,intron_variant,,ENST00000538635,;VWF,downstream_gene_variant,,ENST00000539641,;	G	ENSG00000110799	ENST00000261405	Transcript	missense_variant	4370	4115	1372	I/T	aTc/aCc	CM076587,rs61750070,VWF_c.4115T>G,COSM1299744	.	.	-1	VWF	HGNC	12726	protein_coding	YES	CCDS8539.1	ENSP00000261405	VWF_HUMAN	H2DLA2_HUMAN	UPI00001AE7EE	.	tolerated(0.3)	possibly_damaging(0.7)	28/52	.	PROSITE_profiles:PS50234,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF259,Gene3D:3.40.50.410,Pfam_domain:PF00092,PIRSF_domain:PIRSF002495,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	not_provided	0,0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCGATCTTG	byCluster	5	BLCA
PLEKHG6	0	.	GRCh37	12	6436472	6436472	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1723G>T	p.Asp575Tyr	p.D575Y	ENST00000396988	15/16	225	168	57	177	177	0	PLEKHG6,missense_variant,p.Asp575Tyr,ENST00000011684,;PLEKHG6,missense_variant,p.Asp105Tyr,ENST00000304581,;PLEKHG6,missense_variant,p.Asp575Tyr,ENST00000396988,;PLEKHG6,missense_variant,p.Asp543Tyr,ENST00000449001,;TNFRSF1A,downstream_gene_variant,,ENST00000366159,;TNFRSF1A,downstream_gene_variant,,ENST00000539372,;TNFRSF1A,downstream_gene_variant,,ENST00000540022,;TNFRSF1A,downstream_gene_variant,,ENST00000162749,;TNFRSF1A,downstream_gene_variant,,ENST00000535038,;TNFRSF1A,downstream_gene_variant,,ENST00000543359,;TNFRSF1A,downstream_gene_variant,,ENST00000537842,;TNFRSF1A,downstream_gene_variant,,ENST00000437813,;TNFRSF1A,downstream_gene_variant,,ENST00000536717,;TNFRSF1A,downstream_gene_variant,,ENST00000543995,;TNFRSF1A,downstream_gene_variant,,ENST00000534885,;	T	ENSG00000008323	ENST00000396988	Transcript	missense_variant	1953	1723	575	D/Y	Gat/Tat	COSM1299760	.	.	1	PLEKHG6	HGNC	25562	protein_coding	YES	CCDS8541.1	ENSP00000380185	PKHG6_HUMAN	.	UPI000013EFF6	.	deleterious(0)	probably_damaging(0.935)	15/16	.	hmmpanther:PTHR22825:SF13,hmmpanther:PTHR22825	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACACAGATGAA	.	4	BLCA
LTBR	0	.	GRCh37	12	6494189	6494213	+	Frame_Shift_Del	DEL	CACCTATGTCTCAGCTAAATGTAGC	CACCTATGTCTCAGCTAAATGTAGC	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CACCTATGTCTCAGCTAAATGTAGC	CACCTATGTCTCAGCTAAATGTAGC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196_220delACCTATGTCTCAGCTAAATGTAGCC	p.Thr66AlafsTer22	p.T66Afs*22	ENST00000228918	3/10	126	96	30	116	116	0	LTBR,splice_acceptor_variant,,ENST00000536876,;LTBR,frameshift_variant,p.Thr66AlafsTer22,ENST00000228918,;LTBR,frameshift_variant,p.Thr47AlafsTer22,ENST00000539925,;LTBR,splice_region_variant,,ENST00000543190,;LTBR,upstream_gene_variant,,ENST00000541102,;LTBR,splice_region_variant,,ENST00000546296,;LTBR,splice_region_variant,,ENST00000542830,;LTBR,upstream_gene_variant,,ENST00000541005,;LTBR,upstream_gene_variant,,ENST00000543542,;LTBR,splice_region_variant,,ENST00000535739,;LTBR,non_coding_transcript_exon_variant,,ENST00000545445,;LTBR,upstream_gene_variant,,ENST00000544454,;LTBR,upstream_gene_variant,,ENST00000444814,;LTBR,upstream_gene_variant,,ENST00000440421,;LTBR,upstream_gene_variant,,ENST00000441074,;	-	ENSG00000111321	ENST00000228918	Transcript	frameshift_variant	521-545	195-219	65-73	GTYVSAKCS/X	ggCACCTATGTCTCAGCTAAATGTAGC/gg	.	.	.	1	LTBR	HGNC	6718	protein_coding	YES	CCDS8544.1	ENSP00000228918	TNR3_HUMAN	Q75UT6_HUMAN,B3KTD9_HUMAN	UPI00001370E3	.	.	.	3/10	.	PROSITE_profiles:PS50050,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF28,PROSITE_patterns:PS00652,Pfam_domain:PF00020,Gene3D:2.10.50.10,SMART_domains:SM00208,PIRSF_domain:PIRSF037999,Superfamily_domains:SSF57586	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	TCTAGGCACCTATGTCTCAGCTAAATGTAGCCGCAT	.	2	BLCA
GNS	0	.	GRCh37	12	65116858	65116858	+	Silent	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1236C>A	p.%3D	p.V412V	ENST00000258145	11/14	128	91	37	99	99	0	GNS,synonymous_variant,p.%3D,ENST00000543646,;GNS,synonymous_variant,p.%3D,ENST00000258145,;GNS,synonymous_variant,p.%3D,ENST00000418919,;GNS,synonymous_variant,p.%3D,ENST00000540196,;GNS,synonymous_variant,p.%3D,ENST00000542058,;GNS,non_coding_transcript_exon_variant,,ENST00000537823,;GNS,non_coding_transcript_exon_variant,,ENST00000541781,;GNS,non_coding_transcript_exon_variant,,ENST00000540883,;	T	ENSG00000135677	ENST00000258145	Transcript	synonymous_variant	1407	1236	412	V	gtC/gtA	COSM1299771	.	.	-1	GNS	HGNC	4422	protein_coding	YES	CCDS8970.1	ENSP00000258145	GNS_HUMAN	F5H4C6_HUMAN	UPI0000000CC8	.	.	.	11/14	.	Superfamily_domains:SSF53649,PIRSF_domain:PIRSF036666,Gene3D:1uglA00,hmmpanther:PTHR10342:SF212,hmmpanther:PTHR10342	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAGGACATC	.	5	BLCA
ENO2	0	.	GRCh37	12	7024941	7024964	+	5'UTR	DEL	CTAAGCCTCTTATCTTTCTCCTTC	CTAAGCCTCTTATCTTTCTCCTTC	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CTAAGCCTCTTATCTTTCTCCTTC	CTAAGCCTCTTATCTTTCTCCTTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54_-31delAAGCCTCTTATCTTTCTCCTTCCT	.	.	ENST00000535366	1/11	219	173	46	217	217	0	ENO2,5_prime_UTR_variant,,ENST00000535366,;ENO2,intron_variant,,ENST00000541477,;ENO2,intron_variant,,ENST00000544774,;ENO2,intron_variant,,ENST00000229277,;ENO2,intron_variant,,ENST00000545045,;ENO2,intron_variant,,ENST00000537688,;ENO2,intron_variant,,ENST00000538763,;LRRC23,downstream_gene_variant,,ENST00000436789,;LRRC23,downstream_gene_variant,,ENST00000007969,;LRRC23,downstream_gene_variant,,ENST00000443597,;LRRC23,downstream_gene_variant,,ENST00000429740,;LRRC23,downstream_gene_variant,,ENST00000323702,;LRRC23,downstream_gene_variant,,ENST00000472633,;ENO2,non_coding_transcript_exon_variant,,ENST00000536199,;ENO2,intron_variant,,ENST00000542509,;ENO2,intron_variant,,ENST00000537838,;ENO2,intron_variant,,ENST00000539713,;ENO2,upstream_gene_variant,,ENST00000535275,;LRRC23,downstream_gene_variant,,ENST00000431207,;ENO2,upstream_gene_variant,,ENST00000441285,;LRRC23,downstream_gene_variant,,ENST00000451681,;LRRC23,downstream_gene_variant,,ENST00000428946,;	-	ENSG00000111674	ENST00000535366	Transcript	5_prime_UTR_variant	571-594	.	.	.	.	.	.	.	1	ENO2	HGNC	3353	protein_coding	YES	CCDS8570.1	ENSP00000437402	ENOG_HUMAN	Q6FHV6_HUMAN,F5H1C3_HUMAN	UPI000013C8F1	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACCCCTCTAAGCCTCTTATCTTTCTCCTTCCTTCC	.	3	BLCA
PPP1R12A	0	.	GRCh37	12	80202350	80202350	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1463A>G	p.Asp488Gly	p.D488G	ENST00000450142	11/25	191	146	45	128	128	0	PPP1R12A,missense_variant,p.Asp401Gly,ENST00000546369,;PPP1R12A,missense_variant,p.Asp183Gly,ENST00000547131,;PPP1R12A,missense_variant,p.Asp488Gly,ENST00000261207,;PPP1R12A,missense_variant,p.Asp488Gly,ENST00000437004,;PPP1R12A,missense_variant,p.Asp488Gly,ENST00000547330,;PPP1R12A,missense_variant,p.Asp488Gly,ENST00000450142,;PPP1R12A,missense_variant,p.Asp92Gly,ENST00000553081,;PPP1R12A,missense_variant,p.Asp488Gly,ENST00000550107,;AC073569.1,downstream_gene_variant,,ENST00000598624,;PPP1R12A,non_coding_transcript_exon_variant,,ENST00000550001,;PPP1R12A,upstream_gene_variant,,ENST00000550007,;	C	ENSG00000058272	ENST00000450142	Transcript	missense_variant	1730	1463	488	D/G	gAt/gGt	COSM1299892	.	.	-1	PPP1R12A	HGNC	7618	protein_coding	YES	CCDS44947.1	ENSP00000389168	MYPT1_HUMAN	F8VW28_HUMAN	UPI0000073E69	.	deleterious(0.01)	benign(0.379)	11/25	.	hmmpanther:PTHR24179:SF20,hmmpanther:PTHR24179,PIRSF_domain:PIRSF038141	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTATCTTTC	.	5	BLCA
APAF1	0	.	GRCh37	12	99120994	99120994	+	Missense_Mutation	SNP	C	C	T	rs761865771	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3500C>T	p.Pro1167Leu	p.P1167L	ENST00000551964	26/27	170	142	28	79	79	0	APAF1,missense_variant,p.Pro1124Leu,ENST00000357310,;APAF1,missense_variant,p.Pro1156Leu,ENST00000550527,;APAF1,missense_variant,p.Pro1082Leu,ENST00000339433,;APAF1,missense_variant,p.Pro1124Leu,ENST00000547045,;APAF1,missense_variant,p.Pro1113Leu,ENST00000359972,;APAF1,missense_variant,p.Pro1082Leu,ENST00000549007,;APAF1,missense_variant,p.Pro1167Leu,ENST00000551964,;APAF1,intron_variant,,ENST00000552268,;APAF1,intron_variant,,ENST00000333991,;APAF1,intron_variant,,ENST00000552929,;ANKS1B,intron_variant,,ENST00000555119,;	T	ENSG00000120868	ENST00000551964	Transcript	missense_variant	4236	3500	1167	P/L	cCg/cTg	rs761865771,COSM1299991	.	.	1	APAF1	HGNC	576	protein_coding	YES	CCDS9069.1	ENSP00000448165	APAF_HUMAN	.	UPI0000036328	.	tolerated(0.14)	benign(0.026)	26/27	.	PROSITE_profiles:PS50294,hmmpanther:PTHR22845:SF1,hmmpanther:PTHR22845,Gene3D:2.130.10.10,PIRSF_domain:PIRSF037646,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTCCGCTTT	byFrequency|byCluster	4	BLCA
NALCN	0	.	GRCh37	13	101759884	101759884	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2533A>T	p.Arg845Trp	p.R845W	ENST00000251127	22/44	85	57	27	83	83	0	NALCN,missense_variant,p.Arg845Trp,ENST00000251127,;	A	ENSG00000102452	ENST00000251127	Transcript	missense_variant	2615	2533	845	R/W	Agg/Tgg	COSM1299999	.	.	-1	NALCN	HGNC	19082	protein_coding	YES	CCDS9498.1	ENSP00000251127	NALCN_HUMAN	B3KX53_HUMAN,B3KMK1_HUMAN	UPI000004EBBD	.	tolerated(0.11)	benign(0.106)	22/44	.	hmmpanther:PTHR10037:SF176,hmmpanther:PTHR10037	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACCTGTGTT	.	5	BLCA
FAM155A	0	.	GRCh37	13	108518492	108518492	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453C>T	p.%3D	p.D151D	ENST00000375915	1/3	45	29	16	72	71	1	FAM155A,synonymous_variant,p.%3D,ENST00000375915,;	A	ENSG00000204442	ENST00000375915	Transcript	synonymous_variant	592	453	151	D	gaC/gaT	COSM1300012	.	.	-1	FAM155A	HGNC	33877	protein_coding	YES	CCDS32006.1	ENSP00000365080	F155A_HUMAN	.	UPI000045882C	.	.	.	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15819,hmmpanther:PTHR15819:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCCCGGTCGTC	.	4	BLCA
SMAD9	0	.	GRCh37	13	37422860	37422860	+	Missense_Mutation	SNP	G	G	C	rs769356356	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1357C>G	p.Leu453Val	p.L453V	ENST00000379826	7/7	305	201	103	316	316	0	SMAD9,missense_variant,p.Leu416Val,ENST00000350148,;SMAD9,missense_variant,p.Leu453Val,ENST00000379826,;SMAD9,missense_variant,p.Leu453Val,ENST00000399275,;SMAD9-AS1,downstream_gene_variant,,ENST00000437983,;	C	ENSG00000120693	ENST00000379826	Transcript	missense_variant	1700	1357	453	L/V	Ctg/Gtg	rs769356356,COSM1300178,COSM1300177	.	.	-1	SMAD9	HGNC	6774	protein_coding	YES	CCDS45032.1	ENSP00000369154	SMAD9_HUMAN	.	UPI0000135A85	.	deleterious(0.01)	benign(0.057)	7/7	.	Superfamily_domains:SSF49879,Gene3D:2.60.200.10,hmmpanther:PTHR13703:SF37,hmmpanther:PTHR13703,PROSITE_profiles:PS51076	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCAGAACTT	.	5	BLCA
FREM2	0	.	GRCh37	13	39263139	39263139	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1658T>C	p.Leu553Ser	p.L553S	ENST00000280481	1/24	35	22	12	42	42	0	FREM2,missense_variant,p.Leu553Ser,ENST00000280481,;	C	ENSG00000150893	ENST00000280481	Transcript	missense_variant	1874	1658	553	L/S	tTa/tCa	COSM1300186	.	.	1	FREM2	HGNC	25396	protein_coding	YES	CCDS31960.1	ENSP00000280481	FREM2_HUMAN	.	UPI00005520B9	.	deleterious(0)	possibly_damaging(0.548)	1/24	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF19	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTTAGTGC	.	5	BLCA
DIAPH3	0	.	GRCh37	13	60240843	60240843	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3457G>A	p.Glu1153Lys	p.E1153K	ENST00000400324	28/28	137	94	42	150	150	0	DIAPH3,missense_variant,p.Glu1153Lys,ENST00000400330,;DIAPH3,missense_variant,p.Glu1153Lys,ENST00000400324,;DIAPH3,missense_variant,p.Glu1142Lys,ENST00000377908,;DIAPH3,missense_variant,p.Glu1107Lys,ENST00000400320,;DIAPH3,missense_variant,p.Glu1083Lys,ENST00000400319,;DIAPH3,downstream_gene_variant,,ENST00000470420,;	T	ENSG00000139734	ENST00000400324	Transcript	missense_variant	3678	3457	1153	E/K	Gag/Aag	COSM1300264	.	.	-1	DIAPH3	HGNC	15480	protein_coding	YES	CCDS41898.1	ENSP00000383178	DIAP3_HUMAN	.	UPI0000DAC774	.	tolerated_low_confidence(0.14)	probably_damaging(0.993)	28/28	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAGCTG	.	5	BLCA
SLITRK6	0	.	GRCh37	13	86370509	86370509	+	Silent	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135A>C	p.%3D	p.L45L	ENST00000400286	2/2	83	49	34	79	78	1	SLITRK6,synonymous_variant,p.%3D,ENST00000400286,;	G	ENSG00000184564	ENST00000400286	Transcript	synonymous_variant	734	135	45	L	ctA/ctC	COSM1300337	.	.	-1	SLITRK6	HGNC	23503	protein_coding	YES	CCDS41903.1	ENSP00000383143	SLIK6_HUMAN	.	UPI000004C9D6	.	.	.	2/2	.	hmmpanther:PTHR24373:SF5,hmmpanther:PTHR24373	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATTAGCAT	.	5	BLCA
DYNC1H1	0	.	GRCh37	14	102452341	102452341	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1779C>T	p.%3D	p.V593V	ENST00000360184	8/78	88	57	31	58	58	0	DYNC1H1,synonymous_variant,p.%3D,ENST00000360184,;	T	ENSG00000197102	ENST00000360184	Transcript	synonymous_variant	1943	1779	593	V	gtC/gtT	COSM1300388	.	.	1	DYNC1H1	HGNC	2961	protein_coding	YES	CCDS9966.1	ENSP00000348965	DYHC1_HUMAN	Q92862_HUMAN,B4DSR6_HUMAN	UPI00001B515A	.	.	.	8/78	.	hmmpanther:PTHR10676:SF28,hmmpanther:PTHR10676,Pfam_domain:PF08385	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTCAGGCC	.	5	BLCA
DYNC1H1	0	.	GRCh37	14	102493553	102493553	+	Silent	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8814T>C	p.%3D	p.V2938V	ENST00000360184	45/78	468	347	121	405	404	1	DYNC1H1,synonymous_variant,p.%3D,ENST00000360184,;DYNC1H1,intron_variant,,ENST00000555204,;DYNC1H1,upstream_gene_variant,,ENST00000554854,;	C	ENSG00000197102	ENST00000360184	Transcript	synonymous_variant	8978	8814	2938	V	gtT/gtC	COSM1300391	.	.	1	DYNC1H1	HGNC	2961	protein_coding	YES	CCDS9966.1	ENSP00000348965	DYHC1_HUMAN	Q92862_HUMAN,B4DSR6_HUMAN	UPI00001B515A	.	.	.	45/78	.	hmmpanther:PTHR10676:SF28,hmmpanther:PTHR10676,Gene3D:3.40.50.300,Pfam_domain:PF12780,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTTAGTGG	.	5	BLCA
OR4N2	0	.	GRCh37	14	20296468	20296468	+	Nonsense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861T>A	p.Tyr287Ter	p.Y287*	ENST00000315947	1/1	91	70	21	77	77	0	OR4N2,stop_gained,p.Tyr287Ter,ENST00000315947,;OR4N2,3_prime_UTR_variant,,ENST00000568211,;OR4N2,downstream_gene_variant,,ENST00000557677,;OR4N2,downstream_gene_variant,,ENST00000557414,;	A	ENSG00000176294	ENST00000315947	Transcript	stop_gained	861	861	287	Y/*	taT/taA	COSM1300459	.	.	1	OR4N2	HGNC	14742	protein_coding	YES	CCDS32022.1	ENSP00000319601	OR4N2_HUMAN	H3BTD8_HUMAN,G3V4W1_HUMAN,G3V3W5_HUMAN	UPI000004A5DF	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF155,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R290H|c.869G>A|3	MUTECT|MUSE	ATTTATACCCT	.	2	BLCA
OR4K17	0	.	GRCh37	14	20586496	20586496	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931C>T	p.Pro311Ser	p.P311S	ENST00000315543	1/1	52	39	13	36	36	0	OR4K17,missense_variant,p.Pro311Ser,ENST00000315543,;	T	ENSG00000176230	ENST00000315543	Transcript	missense_variant	931	931	311	P/S	Cct/Tct	COSM1300466	.	.	1	OR4K17	HGNC	15355	protein_coding	YES	CCDS32030.1	ENSP00000319197	OR4KH_HUMAN	.	UPI000004B1EA	.	deleterious(0)	probably_damaging(1)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF322,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCCTATC	.	5	BLCA
TEP1	0	.	GRCh37	14	20848088	20848088	+	Splice_Site	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5127+1G>T	.	p.X1709_splice	ENST00000262715	.	72	56	16	76	76	0	TEP1,splice_donor_variant,,ENST00000545983,;TEP1,splice_donor_variant,,ENST00000556935,;TEP1,splice_donor_variant,,ENST00000262715,;TEP1,splice_donor_variant,,ENST00000555727,;TEP1,splice_donor_variant,,ENST00000557314,;TEP1,splice_donor_variant,,ENST00000555008,;TEP1,upstream_gene_variant,,ENST00000471684,;TEP1,upstream_gene_variant,,ENST00000556488,;	A	ENSG00000129566	ENST00000262715	Transcript	splice_donor_variant	.	.	.	.	.	COSM1300471	.	.	-1	TEP1	HGNC	11726	protein_coding	YES	CCDS9548.1	ENSP00000262715	TEP1_HUMAN	G3V591_HUMAN	UPI000013D30B	.	.	.	.	35/54	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATACCTGCC	.	5	BLCA
TRAV26-1	0	.	GRCh37	14	22592136	22592136	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221A>G	p.Asn74Ser	p.N74S	ENST00000390455	2/2	49	39	9	41	41	0	TRAV26-1,missense_variant,p.Asn74Ser,ENST00000390455,;	G	ENSG00000211807	ENST00000390455	Transcript	missense_variant	430	221	74	N/S	aAt/aGt	.	.	.	1	TRAV26-1	HGNC	12123	TR_V_gene	YES	.	ENSP00000452431	.	.	UPI000011D129	.	tolerated(0.23)	benign(0.03)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19433:SF59,hmmpanther:PTHR19433,Pfam_domain:PF07686,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCAATGAAA	.	5	BLCA
MYH7	0	.	GRCh37	14	23881984	23881984	+	3'UTR	SNP	C	C	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*79G>T	.	.	ENST00000355349	40/40	34	21	13	21	21	0	MYH7,3_prime_UTR_variant,,ENST00000355349,;MYH6,upstream_gene_variant,,ENST00000405093,;CTD-2201G16.1,upstream_gene_variant,,ENST00000557368,;	A	ENSG00000092054	ENST00000355349	Transcript	3_prime_UTR_variant	6050	.	.	.	.	.	.	.	-1	MYH7	HGNC	7577	protein_coding	YES	CCDS9601.1	ENSP00000347507	MYH7_HUMAN	Q59EV3_HUMAN,L0L5E6_HUMAN,A8CLN2_HUMAN,A8CLL2_HUMAN,A6N931_HUMAN,A6N930_HUMAN	UPI000014019B	.	.	.	40/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCCCAAG	.	5	BLCA
AP1G2	0	.	GRCh37	14	24034889	24034889	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.667A>G	p.Ile223Val	p.I223V	ENST00000308724	6/21	70	56	14	50	50	0	AP1G2,missense_variant,p.Ile223Val,ENST00000308724,;AP1G2,missense_variant,p.Ile223Val,ENST00000397120,;AP1G2,downstream_gene_variant,,ENST00000556843,;JPH4,downstream_gene_variant,,ENST00000544177,;AP1G2,upstream_gene_variant,,ENST00000554477,;JPH4,downstream_gene_variant,,ENST00000397118,;AP1G2,downstream_gene_variant,,ENST00000557189,;JPH4,downstream_gene_variant,,ENST00000356300,;RP11-66N24.3,non_coding_transcript_exon_variant,,ENST00000555968,;RP11-66N24.4,downstream_gene_variant,,ENST00000553985,;AP1G2,non_coding_transcript_exon_variant,,ENST00000556277,;AP1G2,upstream_gene_variant,,ENST00000555118,;AP1G2,upstream_gene_variant,,ENST00000555510,;AP1G2,3_prime_UTR_variant,,ENST00000556943,;AP1G2,non_coding_transcript_exon_variant,,ENST00000556743,;AP1G2,non_coding_transcript_exon_variant,,ENST00000535852,;AP1G2,non_coding_transcript_exon_variant,,ENST00000460049,;AP1G2,non_coding_transcript_exon_variant,,ENST00000557619,;AP1G2,non_coding_transcript_exon_variant,,ENST00000555896,;AP1G2,non_coding_transcript_exon_variant,,ENST00000553629,;AP1G2,non_coding_transcript_exon_variant,,ENST00000465445,;AP1G2,upstream_gene_variant,,ENST00000556741,;AP1G2,downstream_gene_variant,,ENST00000554069,;AP1G2,upstream_gene_variant,,ENST00000555789,;AP1G2,downstream_gene_variant,,ENST00000554312,;AP1G2,downstream_gene_variant,,ENST00000553685,;AP1G2,downstream_gene_variant,,ENST00000554816,;AP1G2,upstream_gene_variant,,ENST00000557132,;AP1G2,downstream_gene_variant,,ENST00000553756,;AP1G2,upstream_gene_variant,,ENST00000557162,;AP1G2,upstream_gene_variant,,ENST00000555974,;AP1G2,upstream_gene_variant,,ENST00000554977,;AP1G2,upstream_gene_variant,,ENST00000554554,;AP1G2,downstream_gene_variant,,ENST00000557482,;AP1G2,upstream_gene_variant,,ENST00000556966,;AP1G2,upstream_gene_variant,,ENST00000554982,;AP1G2,upstream_gene_variant,,ENST00000556152,;	C	ENSG00000213983	ENST00000308724	Transcript	missense_variant	1423	667	223	I/V	Atc/Gtc	COSM1300524	.	.	-1	AP1G2	HGNC	556	protein_coding	YES	CCDS9602.1	ENSP00000312442	AP1G2_HUMAN	Q86U41_HUMAN,Q86U03_HUMAN,G3V532_HUMAN,G3V3Z2_HUMAN,G3V2V9_HUMAN	UPI0000124FE8	.	tolerated(0.11)	benign(0.034)	6/21	.	hmmpanther:PTHR22780:SF22,hmmpanther:PTHR22780,Pfam_domain:PF01602,Gene3D:1.25.10.10,PIRSF_domain:PIRSF037094,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGATGTGTA	.	5	BLCA
SPTB	0	.	GRCh37	14	65233350	65233350	+	Intron	SNP	C	C	T	rs754254209	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6345+94G>A	.	.	ENST00000389722	.	80	52	27	65	65	0	SPTB,3_prime_UTR_variant,,ENST00000389721,;SPTB,3_prime_UTR_variant,,ENST00000542895,;SPTB,intron_variant,,ENST00000556626,;SPTB,intron_variant,,ENST00000553938,;SPTB,intron_variant,,ENST00000389722,;SPTB,downstream_gene_variant,,ENST00000389720,;SPTB,upstream_gene_variant,,ENST00000342835,;SPTB,downstream_gene_variant,,ENST00000542694,;	T	ENSG00000070182	ENST00000389722	Transcript	intron_variant	.	.	.	.	.	rs754254209	.	.	-1	SPTB	HGNC	11274	protein_coding	YES	CCDS32099.1	ENSP00000374372	SPTB1_HUMAN	Q71VG2_HUMAN,Q71VG1_HUMAN,Q71VG0_HUMAN,Q71VF9_HUMAN,Q71VF8_HUMAN,Q59FP5_HUMAN,O14726_HUMAN,O14725_HUMAN	UPI000053030D	.	.	.	.	31/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCATCTC	.	4	BLCA
ZFP36L1	0	.	GRCh37	14	69256333	69256333	+	Missense_Mutation	SNP	T	T	G	rs756918933	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934A>C	p.Ser312Arg	p.S312R	ENST00000439696	2/2	234	182	52	154	154	0	ZFP36L1,missense_variant,p.Ser312Arg,ENST00000336440,;ZFP36L1,missense_variant,p.Ser312Arg,ENST00000439696,;ZFP36L1,3_prime_UTR_variant,,ENST00000555997,;ZFP36L1,downstream_gene_variant,,ENST00000557022,;ZFP36L1,downstream_gene_variant,,ENST00000553375,;ZFP36L1,downstream_gene_variant,,ENST00000557086,;	G	ENSG00000185650	ENST00000439696	Transcript	missense_variant	1236	934	312	S/R	Agc/Cgc	rs756918933,COSM1300780	.	.	-1	ZFP36L1	HGNC	1107	protein_coding	YES	CCDS9791.1	ENSP00000388402	TISB_HUMAN	G3V2D5_HUMAN,B4E1N3_HUMAN,B4DG15_HUMAN	UPI0000136FBC	.	deleterious(0)	probably_damaging(0.969)	2/2	.	hmmpanther:PTHR12547,hmmpanther:PTHR12547:SF53,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGCTGCTGC	.	5	BLCA
DCAF5	0	.	GRCh37	14	69521082	69521082	+	Missense_Mutation	SNP	G	G	T	rs762843494	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2321C>A	p.Pro774His	p.P774H	ENST00000341516	9/9	139	109	30	99	98	1	DCAF5,missense_variant,p.Pro692His,ENST00000554215,;DCAF5,missense_variant,p.Pro773His,ENST00000557386,;DCAF5,missense_variant,p.Pro774His,ENST00000341516,;DCAF5,missense_variant,p.Pro692His,ENST00000556847,;DCAF5,downstream_gene_variant,,ENST00000553293,;	T	ENSG00000139990	ENST00000341516	Transcript	missense_variant	2469	2321	774	P/H	cCt/cAt	rs762843494,COSM1300784	.	.	-1	DCAF5	HGNC	20224	protein_coding	YES	CCDS32106.1	ENSP00000341351	DCAF5_HUMAN	Q8NCX5_HUMAN	UPI00001C1F66	.	deleterious_low_confidence(0.01)	benign(0.09)	9/9	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAAAGGGTGC	.	5	BLCA
SLC8A3	0	.	GRCh37	14	70512799	70512799	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2649G>A	p.%3D	p.R883R	ENST00000381269	8/8	48	38	10	48	48	0	SLC8A3,synonymous_variant,p.%3D,ENST00000534137,;SLC8A3,synonymous_variant,p.%3D,ENST00000381269,;SLC8A3,synonymous_variant,p.%3D,ENST00000357887,;SLC8A3,synonymous_variant,p.%3D,ENST00000394330,;SLC8A3,synonymous_variant,p.%3D,ENST00000528359,;SLC8A3,synonymous_variant,p.%3D,ENST00000356921,;SLC8A3,synonymous_variant,p.%3D,ENST00000216568,;SLC8A3,3_prime_UTR_variant,,ENST00000533541,;SLC8A3,3_prime_UTR_variant,,ENST00000494208,;	T	ENSG00000100678	ENST00000381269	Transcript	synonymous_variant	3403	2649	883	R	agG/agA	COSM1300786,COSM1300787	.	.	-1	SLC8A3	HGNC	11070	protein_coding	YES	CCDS35498.1	ENSP00000370669	NAC3_HUMAN	Q86TQ9_HUMAN	UPI0000073C9A	.	.	.	8/8	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF7,TIGRFAM_domain:TIGR00845,Pfam_domain:PF01699	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCGCCTTCG	.	5	BLCA
PSEN1	0	.	GRCh37	14	73659343	73659369	+	Splice_Site	DEL	TTTTTTCAGGGAAGTGTTTAAAACCTA	TTTTTTCAGGGAAGTGTTTAAAACCTA	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	TTTTTTCAGGGAAGTGTTTAAAACCTA	TTTTTTCAGGGAAGTGTTTAAAACCTA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549-8_567delTTTTTCAGGGAAGTGTTTAAAACCTAT	.	p.X183_splice	ENST00000324501	7/12	154	126	28	104	104	0	PSEN1,splice_acceptor_variant,,ENST00000394164,;PSEN1,splice_acceptor_variant,,ENST00000406768,;PSEN1,splice_acceptor_variant,,ENST00000344094,;PSEN1,splice_acceptor_variant,,ENST00000261970,;PSEN1,splice_acceptor_variant,,ENST00000557511,;PSEN1,splice_acceptor_variant,,ENST00000324501,;PSEN1,splice_acceptor_variant,,ENST00000357710,;PSEN1,splice_acceptor_variant,,ENST00000553855,;PSEN1,splice_acceptor_variant,,ENST00000555386,;RP4-687K1.2,downstream_gene_variant,,ENST00000554078,;	-	ENSG00000080815	ENST00000324501	Transcript	splice_acceptor_variant	?-838	?-566	?-189	.	.	.	.	.	1	PSEN1	HGNC	9508	protein_coding	YES	CCDS9812.1	ENSP00000326366	PSN1_HUMAN	G3V4P4_HUMAN,G3V4M0_HUMAN,G3V2G7_HUMAN,E7ES96_HUMAN	UPI000003F05F	.	.	.	7/12	6/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTAATTTTTTTTCAGGGAAGTGTTTAAAACCTATAACG	.	3	BLCA
ENTPD5	0	.	GRCh37	14	74438593	74438595	+	Frame_Shift_Del	DEL	ATA	ATA	TT	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	ATA	ATA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044_1046delTATinsAA	p.Leu350Ter	p.L350*	ENST00000334696	14/16	262	226	36	196	196	0	ENTPD5,frameshift_variant,p.Leu350Ter,ENST00000334696,;ENTPD5,frameshift_variant,p.Leu25Ter,ENST00000555829,;ENTPD5,frameshift_variant,p.Leu350Ter,ENST00000557325,;ENTPD5,downstream_gene_variant,,ENST00000553284,;	TT	ENSG00000187097	ENST00000334696	Transcript	frameshift_variant	1364-1366	1044-1046	348-349	GI/GX	ggTATt/ggAAt	.	.	.	-1	ENTPD5	HGNC	3367	protein_coding	YES	CCDS9825.1	ENSP00000335246	ENTP5_HUMAN	G3V450_HUMAN	UPI0000052B69	.	.	.	14/16	.	hmmpanther:PTHR11782,hmmpanther:PTHR11782:SF35,Pfam_domain:PF01150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	TTTAAAATACCCCC	.	5	BLCA
BATF	0	.	GRCh37	14	75989032	75989032	+	Missense_Mutation	SNP	C	C	T	rs773017225	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7C>T	p.His3Tyr	p.H3Y	ENST00000286639	1/3	90	67	23	59	57	2	BATF,missense_variant,p.His3Tyr,ENST00000286639,;BATF,missense_variant,p.His3Tyr,ENST00000555504,;BATF,intron_variant,,ENST00000555795,;	T	ENSG00000156127	ENST00000286639	Transcript	missense_variant	265	7	3	H/Y	Cac/Tac	rs773017225,COSM1300834	.	.	1	BATF	HGNC	958	protein_coding	YES	CCDS9843.1	ENSP00000286639	BATF_HUMAN	.	UPI0000073D64	.	tolerated(0.12)	unknown(0)	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23351,hmmpanther:PTHR23351:SF14	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TGCCTCACAGC	.	2	BLCA
GALC	0	.	GRCh37	14	88459416	88459416	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93G>A	p.%3D	p.L31L	ENST00000261304	1/17	14	9	4	16	16	0	GALC,synonymous_variant,p.%3D,ENST00000393568,;GALC,synonymous_variant,p.%3D,ENST00000261304,;GALC,intron_variant,,ENST00000393569,;GALC,upstream_gene_variant,,ENST00000544807,;RNU6-835P,downstream_gene_variant,,ENST00000516974,;GALC,upstream_gene_variant,,ENST00000556261,;GALC,upstream_gene_variant,,ENST00000554916,;GALC,synonymous_variant,p.%3D,ENST00000554372,;GALC,synonymous_variant,p.%3D,ENST00000556879,;GALC,synonymous_variant,p.%3D,ENST00000557316,;GALC,non_coding_transcript_exon_variant,,ENST00000474294,;GALC,upstream_gene_variant,,ENST00000555956,;	T	ENSG00000054983	ENST00000261304	Transcript	synonymous_variant	200	93	31	L	ttG/ttA	COSM1300869	.	.	-1	GALC	HGNC	4115	protein_coding	YES	CCDS9878.2	ENSP00000261304	GALC_HUMAN	.	UPI00001FD982	.	.	.	1/17	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,Prints_domain:PR00850,Pfam_domain:PF02057,hmmpanther:PTHR15172,hmmpanther:PTHR15172:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCAGCAAGGG	.	3	BLCA
CCDC88C	0	.	GRCh37	14	91792370	91792370	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1081G>A	p.Glu361Lys	p.E361K	ENST00000389857	11/30	33	25	8	18	18	0	CCDC88C,missense_variant,p.Glu361Lys,ENST00000389857,;	T	ENSG00000015133	ENST00000389857	Transcript	missense_variant	1168	1081	361	E/K	Gaa/Aaa	COSM1300903,COSM1300902	.	.	-1	CCDC88C	HGNC	19967	protein_coding	YES	CCDS45151.1	ENSP00000374507	DAPLE_HUMAN	B4DZB8_HUMAN	UPI00006C1440	.	deleterious(0.01)	probably_damaging(0.923)	11/30	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF31,Pfam_domain:PF05622	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTTCAATTA	.	5	BLCA
ITPK1	0	.	GRCh37	14	93412799	93412799	+	Missense_Mutation	SNP	C	C	T	rs767945252	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.778G>A	p.Glu260Lys	p.E260K	ENST00000267615	10/11	91	70	21	76	76	0	ITPK1,missense_variant,p.Glu260Lys,ENST00000267615,;ITPK1,missense_variant,p.Glu260Lys,ENST00000556603,;ITPK1,missense_variant,p.Glu141Lys,ENST00000555495,;ITPK1,missense_variant,p.Glu260Lys,ENST00000354313,;ITPK1,non_coding_transcript_exon_variant,,ENST00000556954,;ITPK1,downstream_gene_variant,,ENST00000553695,;	T	ENSG00000100605	ENST00000267615	Transcript	missense_variant	952	778	260	E/K	Gag/Aag	rs767945252,COSM1300911,COSM1300912	.	.	-1	ITPK1	HGNC	6177	protein_coding	YES	CCDS9907.1	ENSP00000267615	ITPK1_HUMAN	G3V588_HUMAN,G3V4M9_HUMAN	UPI000006F88A	.	tolerated(0.08)	benign(0.283)	10/11	.	PROSITE_profiles:PS50975,hmmpanther:PTHR14217:SF1,hmmpanther:PTHR14217,Pfam_domain:PF05770,Superfamily_domains:SSF56059	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTCGTCGC	.	4	BLCA
DDX24	0	.	GRCh37	14	94526714	94526714	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1643C>G	p.Pro548Arg	p.P548R	ENST00000330836	5/9	194	140	54	151	149	2	DDX24,missense_variant,p.Pro298Arg,ENST00000544005,;DDX24,missense_variant,p.Pro548Arg,ENST00000330836,;DDX24,missense_variant,p.Pro505Arg,ENST00000555054,;DDX24,upstream_gene_variant,,ENST00000553451,;DDX24,non_coding_transcript_exon_variant,,ENST00000555762,;	C	ENSG00000089737	ENST00000330836	Transcript	missense_variant	1775	1643	548	P/R	cCc/cGc	COSM1300924	.	.	-1	DDX24	HGNC	13266	protein_coding	YES	CCDS9918.1	ENSP00000328690	DDX24_HUMAN	G3V529_HUMAN,F5GYL3_HUMAN	UPI0000129082	.	deleterious(0)	probably_damaging(0.999)	5/9	.	Gene3D:3.40.50.300,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF91	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CCTTGGGCTTG	.	2	BLCA
IFI27L1	0	.	GRCh37	14	94563251	94563251	+	5'UTR	SNP	G	G	A	rs769149410	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-33G>A	.	.	ENST00000555523	2/5	34	22	11	25	25	0	IFI27L1,missense_variant,p.Arg12Gln,ENST00000553664,;IFI27L1,5_prime_UTR_variant,,ENST00000555523,;IFI27L1,5_prime_UTR_variant,,ENST00000556381,;IFI27L1,5_prime_UTR_variant,,ENST00000393115,;IFI27L1,5_prime_UTR_variant,,ENST00000557066,;IFI27L1,5_prime_UTR_variant,,ENST00000554544,;IFI27L1,5_prime_UTR_variant,,ENST00000557218,;IFI27L1,5_prime_UTR_variant,,ENST00000555341,;IFI27L1,5_prime_UTR_variant,,ENST00000554166,;IFI27L1,upstream_gene_variant,,ENST00000554562,;IFI27L1,non_coding_transcript_exon_variant,,ENST00000553350,;IFI27L1,non_coding_transcript_exon_variant,,ENST00000557600,;	A	ENSG00000165948	ENST00000555523	Transcript	5_prime_UTR_variant	187	.	.	.	.	rs769149410	.	.	1	IFI27L1	HGNC	19754	protein_coding	YES	CCDS9919.1	ENSP00000451851	I27L1_HUMAN	.	UPI000012A3C8	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCCGAGTGG	byFrequency	5	BLCA
PPP4R4	0	.	GRCh37	14	94674875	94674875	+	Missense_Mutation	SNP	C	C	T	rs745732168	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.266C>T	p.Thr89Met	p.T89M	ENST00000304338	3/25	65	48	17	43	43	0	PPP4R4,missense_variant,p.Thr89Met,ENST00000328839,;PPP4R4,missense_variant,p.Thr89Met,ENST00000304338,;PPP4R4,missense_variant,p.Thr8Met,ENST00000556884,;PPP4R4,missense_variant,p.Thr8Met,ENST00000556470,;PPP4R4,missense_variant,p.Thr8Met,ENST00000553661,;PPP4R4,non_coding_transcript_exon_variant,,ENST00000555690,;	T	ENSG00000119698	ENST00000304338	Transcript	missense_variant	420	266	89	T/M	aCg/aTg	rs745732168,COSM98083,COSM3723174	.	.	1	PPP4R4	HGNC	23788	protein_coding	YES	CCDS9921.1	ENSP00000305924	PP4R4_HUMAN	G3V431_HUMAN,G3V422_HUMAN	UPI000016223B	.	deleterious(0.01)	probably_damaging(0.978)	3/25	.	hmmpanther:PTHR21467,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.T89M|c.266C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGACGCTTC	byFrequency	5	BLCA
ADAMTS17	0	.	GRCh37	15	100821443	100821443	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.780C>T	p.%3D	p.V260V	ENST00000268070	4/22	170	137	33	137	136	0	ADAMTS17,synonymous_variant,p.%3D,ENST00000268070,;ADAMTS17,3_prime_UTR_variant,,ENST00000558960,;ADAMTS17,non_coding_transcript_exon_variant,,ENST00000378898,;	A	ENSG00000140470	ENST00000268070	Transcript	synonymous_variant	886	780	260	V	gtC/gtT	COSM1300956	.	.	-1	ADAMTS17	HGNC	17109	protein_coding	YES	CCDS10383.1	ENSP00000268070	ATS17_HUMAN	.	UPI00001AE929	.	.	.	4/22	.	Superfamily_domains:SSF55486,Gene3D:3.40.390.10,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF31,PROSITE_profiles:PS50215	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TTCATGACGGT	.	3	BLCA
PCSK6	0	.	GRCh37	15	101906500	101906500	+	Missense_Mutation	SNP	C	C	T	rs766274220	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1756G>A	p.Glu586Lys	p.E586K	ENST00000348070	14/23	70	63	7	53	53	0	PCSK6,missense_variant,p.Glu586Lys,ENST00000358417,;PCSK6,missense_variant,p.Glu421Lys,ENST00000331826,;PCSK6,missense_variant,p.Glu586Lys,ENST00000348070,;PCSK6,missense_variant,p.Glu586Lys,ENST00000398181,;PCSK6,missense_variant,p.Glu586Lys,ENST00000344273,;PCSK6,missense_variant,p.Glu415Lys,ENST00000398185,;PCSK6,intron_variant,,ENST00000559605,;PCSK6,upstream_gene_variant,,ENST00000558951,;PCSK6,non_coding_transcript_exon_variant,,ENST00000560921,;PCSK6,non_coding_transcript_exon_variant,,ENST00000561109,;PCSK6,non_coding_transcript_exon_variant,,ENST00000558716,;PCSK6,non_coding_transcript_exon_variant,,ENST00000560271,;PCSK6,non_coding_transcript_exon_variant,,ENST00000561177,;PCSK6,non_coding_transcript_exon_variant,,ENST00000559678,;PCSK6,non_coding_transcript_exon_variant,,ENST00000561444,;PCSK6,intron_variant,,ENST00000560902,;PCSK6,intron_variant,,ENST00000557794,;PCSK6,non_coding_transcript_exon_variant,,ENST00000558154,;	T	ENSG00000140479	ENST00000348070	Transcript	missense_variant	1756	1756	586	E/K	Gaa/Aaa	rs766274220,COSM1300967,COSM1300970,COSM1300969,COSM1300968	.	.	-1	PCSK6	HGNC	8569	protein_coding	YES	.	ENSP00000305056	PCSK6_HUMAN	A2RQD9_HUMAN	UPI00001AE92B	.	deleterious(0.03)	probably_damaging(0.925)	14/23	.	hmmpanther:PTHR10795:SF345,hmmpanther:PTHR10795,Pfam_domain:PF01483,Gene3D:2.60.120.260,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAATTCCCAGT	.	3	BLCA
HERC2P2	0	.	GRCh37	15	23330999	23330999	+	RNA	DEL	C	C	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1011delG	.	.	ENST00000560464	8/34	278	249	29	178	178	0	HERC2P2,non_coding_transcript_exon_variant,,ENST00000560464,;HERC2P2,non_coding_transcript_exon_variant,,ENST00000422607,;HERC2P2,non_coding_transcript_exon_variant,,ENST00000559650,;HERC2P2,upstream_gene_variant,,ENST00000454333,;	-	ENSG00000140181	ENST00000560464	Transcript	non_coding_transcript_exon_variant	1011	.	.	.	.	.	.	.	-1	HERC2P2	HGNC	4870	processed_transcript	YES	.	.	.	.	.	.	.	.	8/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGTGTGCCCCCT	.	3	BLCA
NDN	0	.	GRCh37	15	23931699	23931699	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666G>A	p.Trp222Ter	p.W222*	ENST00000331837	1/1	64	47	17	68	67	1	NDN,stop_gained,p.Trp222Ter,ENST00000331837,;	T	ENSG00000182636	ENST00000331837	Transcript	stop_gained	752	666	222	W/*	tgG/tgA	COSM1300993	.	.	-1	NDN	HGNC	7675	protein_coding	YES	CCDS10014.1	ENSP00000332643	NECD_HUMAN	.	UPI000012FEF1	.	.	.	1/1	.	Pfam_domain:PF01454,hmmpanther:PTHR11736,PROSITE_profiles:PS50838,hmmpanther:PTHR11736:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCCAGGG	.	5	BLCA
GABRG3	0	.	GRCh37	15	27765177	27765177	+	Missense_Mutation	SNP	A	A	T	rs753820210	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772A>T	p.Ile258Phe	p.I258F	ENST00000333743	7/10	15	9	6	21	21	0	GABRG3,missense_variant,p.Ile200Phe,ENST00000554696,;GABRG3,missense_variant,p.Ile258Phe,ENST00000333743,;GABRG3,missense_variant,p.Ile21Phe,ENST00000451330,;RP11-100M12.3,intron_variant,,ENST00000556642,;	T	ENSG00000182256	ENST00000333743	Transcript	missense_variant	1026	772	258	I/F	Att/Ttt	rs753820210,COSM1301005	.	.	1	GABRG3	HGNC	4088	protein_coding	YES	CCDS45195.1	ENSP00000331912	GBRG3_HUMAN	.	UPI000012AFCB	.	tolerated(0.35)	probably_damaging(0.99)	7/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR18945:SF195,hmmpanther:PTHR18945,Gene3D:1.20.58.390,TIGRFAM_domain:TIGR00860,Superfamily_domains:SSF90112,Prints_domain:PR00252,Prints_domain:PR00253	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACCATTCAG	.	5	BLCA
MTMR10	0	.	GRCh37	15	31239408	31239408	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1473G>A	p.%3D	p.L491L	ENST00000435680	14/16	163	123	40	128	126	2	MTMR10,synonymous_variant,p.%3D,ENST00000566981,;MTMR10,synonymous_variant,p.%3D,ENST00000563714,;MTMR10,synonymous_variant,p.%3D,ENST00000435680,;MTMR10,synonymous_variant,p.%3D,ENST00000314404,;MTMR10,3_prime_UTR_variant,,ENST00000425768,;FAN1,downstream_gene_variant,,ENST00000362065,;MTMR10,3_prime_UTR_variant,,ENST00000568547,;MTMR10,3_prime_UTR_variant,,ENST00000567567,;MTMR10,3_prime_UTR_variant,,ENST00000568604,;MTMR10,non_coding_transcript_exon_variant,,ENST00000565728,;MTMR10,non_coding_transcript_exon_variant,,ENST00000566338,;FAN1,downstream_gene_variant,,ENST00000565280,;	T	ENSG00000166912	ENST00000435680	Transcript	synonymous_variant	1571	1473	491	L	ttG/ttA	COSM1301019,COSM1301018	.	.	-1	MTMR10	HGNC	25999	protein_coding	YES	CCDS45204.1	ENSP00000402537	MTMRA_HUMAN	B4E157_HUMAN	UPI00001FE130	.	.	.	14/16	.	PROSITE_profiles:PS51339,hmmpanther:PTHR10807:SF39,hmmpanther:PTHR10807,Pfam_domain:PF06602,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TCATACAACAC	.	3	BLCA
AQR	0	.	GRCh37	15	35212624	35212624	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1130T>G	p.Leu377Arg	p.L377R	ENST00000156471	14/35	40	29	10	28	28	0	AQR,missense_variant,p.Leu377Arg,ENST00000156471,;AQR,missense_variant,p.Leu377Arg,ENST00000543879,;	C	ENSG00000021776	ENST00000156471	Transcript	missense_variant	1356	1130	377	L/R	cTc/cGc	COSM1301054	.	.	-1	AQR	HGNC	29513	protein_coding	YES	CCDS42013.1	ENSP00000156471	AQR_HUMAN	.	UPI00001C1F85	.	deleterious(0)	probably_damaging(0.992)	14/35	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF5,PIRSF_domain:PIRSF038901	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGGAGTGTG	.	5	BLCA
C15orf52	0	.	GRCh37	15	40627555	40627555	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1409T>C	p.Leu470Pro	p.L470P	ENST00000559313	11/11	108	72	35	92	91	1	C15orf52,missense_variant,p.Leu260Pro,ENST00000397536,;C15orf52,missense_variant,p.Leu470Pro,ENST00000559313,;C15orf52,downstream_gene_variant,,ENST00000558858,;C15orf52,downstream_gene_variant,,ENST00000560922,;RNA5SP392,upstream_gene_variant,,ENST00000516905,;C15orf52,downstream_gene_variant,,ENST00000557973,;C15orf52,non_coding_transcript_exon_variant,,ENST00000382688,;C15orf52,downstream_gene_variant,,ENST00000558912,;	G	ENSG00000188549	ENST00000559313	Transcript	missense_variant	1425	1409	470	L/P	cTg/cCg	COSM1301065	.	.	-1	C15orf52	HGNC	33488	protein_coding	YES	CCDS10055.2	ENSP00000453969	CO052_HUMAN	H0YM82_HUMAN,H0YK65_HUMAN	UPI00001C0AEA	.	tolerated(0.3)	benign(0.009)	11/11	.	hmmpanther:PTHR15635,hmmpanther:PTHR15635:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCCAGCTCA	.	5	BLCA
RMDN3	0	.	GRCh37	15	41037420	41037420	+	Missense_Mutation	SNP	C	C	T	rs372835028	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>A	p.Asp188Asn	p.D188N	ENST00000260385	4/12	205	116	89	124	124	0	RMDN3,missense_variant,p.Asp188Asn,ENST00000338376,;RMDN3,missense_variant,p.Asp188Asn,ENST00000560905,;RMDN3,missense_variant,p.Asp188Asn,ENST00000260385,;RMDN3,intron_variant,,ENST00000560460,;RMDN3,upstream_gene_variant,,ENST00000558232,;RMDN3,non_coding_transcript_exon_variant,,ENST00000558364,;RMDN3,non_coding_transcript_exon_variant,,ENST00000558560,;RMDN3,3_prime_UTR_variant,,ENST00000558777,;RMDN3,upstream_gene_variant,,ENST00000560779,;	T	ENSG00000137824	ENST00000260385	Transcript	missense_variant	1630	562	188	D/N	Gac/Aac	rs372835028,COSM1301080	.	.	-1	RMDN3	HGNC	25550	protein_coding	YES	CCDS10063.1	ENSP00000260385	RMD3_HUMAN	H0YLG5_HUMAN	UPI0000037778	.	deleterious(0.01)	possibly_damaging(0.627)	4/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16056,hmmpanther:PTHR16056:SF11	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCCCGCT	.	5	BLCA
SPTBN5	0	.	GRCh37	15	42168429	42168429	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4005G>A	p.%3D	p.L1335L	ENST00000320955	21/68	39	28	11	40	40	0	SPTBN5,synonymous_variant,p.%3D,ENST00000320955,;	T	ENSG00000137877	ENST00000320955	Transcript	synonymous_variant	4233	4005	1335	L	ctG/ctA	COSM1301121	.	.	-1	SPTBN5	HGNC	15680	protein_coding	YES	CCDS61599.1	ENSP00000317790	SPTN5_HUMAN	.	UPI0000E59BE4	.	.	.	21/68	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF249,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCCATCAGCCC	.	4	BLCA
SPTBN5	0	.	GRCh37	15	42170747	42170747	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3263A>T	p.Gln1088Leu	p.Q1088L	ENST00000320955	17/68	44	33	10	45	45	0	SPTBN5,missense_variant,p.Gln1088Leu,ENST00000320955,;	A	ENSG00000137877	ENST00000320955	Transcript	missense_variant	3491	3263	1088	Q/L	cAg/cTg	COSM1301122	.	.	-1	SPTBN5	HGNC	15680	protein_coding	YES	CCDS61599.1	ENSP00000317790	SPTN5_HUMAN	.	UPI0000E59BE4	.	.	possibly_damaging(0.804)	17/68	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF249,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCCTGTACT	.	5	BLCA
TGM5	0	.	GRCh37	15	43531079	43531079	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1281C>T	p.%3D	p.I427I	ENST00000220420	9/13	52	35	17	40	40	0	TGM5,synonymous_variant,p.%3D,ENST00000220420,;TGM5,synonymous_variant,p.%3D,ENST00000349114,;TGM5,non_coding_transcript_exon_variant,,ENST00000396996,;TGM5,downstream_gene_variant,,ENST00000563838,;	A	ENSG00000104055	ENST00000220420	Transcript	synonymous_variant	1289	1281	427	I	atC/atT	COSM1301142	.	.	-1	TGM5	HGNC	11781	protein_coding	YES	CCDS32212.1	ENSP00000220420	TGM5_HUMAN	.	UPI0000136CCF	.	.	.	9/13	.	Superfamily_domains:SSF54001,PIRSF_domain:PIRSF000459,Gene3D:1ex0A02,hmmpanther:PTHR11590:SF38,hmmpanther:PTHR11590	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTGATAAA	.	5	BLCA
SLC12A1	0	.	GRCh37	15	48559784	48559784	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2181G>T	p.Glu727Asp	p.E727D	ENST00000396577	18/27	92	65	27	78	78	0	SLC12A1,missense_variant,p.Glu727Asp,ENST00000558405,;SLC12A1,missense_variant,p.Glu727Asp,ENST00000396577,;SLC12A1,missense_variant,p.Glu540Asp,ENST00000559641,;SLC12A1,missense_variant,p.Glu727Asp,ENST00000380993,;SLC12A1,non_coding_transcript_exon_variant,,ENST00000560692,;SLC12A1,non_coding_transcript_exon_variant,,ENST00000558252,;	T	ENSG00000074803	ENST00000396577	Transcript	missense_variant	2396	2181	727	E/D	gaG/gaT	COSM1301183,COSM1301182	.	.	1	SLC12A1	HGNC	10910	protein_coding	YES	CCDS53940.1	ENSP00000379822	.	O76030_HUMAN,E9PDW4_HUMAN	UPI000013C794	.	tolerated(0.18)	probably_damaging(0.954)	18/27	.	hmmpanther:PTHR11827,hmmpanther:PTHR11827:SF45,TIGRFAM_domain:TIGR00930	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGAGATGAA	.	5	BLCA
APH1B	0	.	GRCh37	15	63579740	63579740	+	Missense_Mutation	SNP	A	A	G	rs201964174	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.473A>G	p.Tyr158Cys	p.Y158C	ENST00000261879	4/6	292	201	91	198	196	1	APH1B,missense_variant,p.Tyr104Cys,ENST00000560890,;APH1B,missense_variant,p.Tyr158Cys,ENST00000560353,;APH1B,missense_variant,p.Tyr158Cys,ENST00000261879,;APH1B,intron_variant,,ENST00000380343,;APH1B,intron_variant,,ENST00000559823,;APH1B,upstream_gene_variant,,ENST00000560716,;APH1B,3_prime_UTR_variant,,ENST00000559971,;APH1B,3_prime_UTR_variant,,ENST00000380340,;APH1B,non_coding_transcript_exon_variant,,ENST00000558631,;	G	ENSG00000138613	ENST00000261879	Transcript	missense_variant	543	473	158	Y/C	tAt/tGt	rs201964174,COSM1301292	.	.	1	APH1B	HGNC	24080	protein_coding	YES	CCDS10184.1	ENSP00000261879	APH1B_HUMAN	H0YKZ9_HUMAN	UPI000004222D	.	deleterious(0.04)	benign(0.269)	4/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12889,hmmpanther:PTHR12889:SF1,Pfam_domain:PF06105	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTATTCAG	.	5	BLCA
CSNK1G1	0	.	GRCh37	15	64592686	64592686	+	Missense_Mutation	SNP	T	T	C	rs769626787	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13A>G	p.Ser5Gly	p.S5G	ENST00000303052	2/12	214	159	54	176	176	0	CSNK1G1,missense_variant,p.Ser5Gly,ENST00000303052,;CTD-2116N17.1,missense_variant,p.Ser5Gly,ENST00000560278,;CSNK1G1,missense_variant,p.Ser5Gly,ENST00000303032,;CSNK1G1,missense_variant,p.Ser5Gly,ENST00000607537,;CTD-2116N17.1,missense_variant,p.Ser5Gly,ENST00000561349,;CTD-2116N17.1,5_prime_UTR_variant,,ENST00000606793,;CTD-2116N17.1,downstream_gene_variant,,ENST00000558783,;CSNK1G1,missense_variant,p.Ser5Gly,ENST00000606225,;	C	ENSG00000169118	ENST00000303052	Transcript	missense_variant	437	13	5	S/G	Agt/Ggt	rs769626787,COSM1301322,COSM1301321	.	.	-1	CSNK1G1	HGNC	2454	protein_coding	YES	CCDS10192.2	ENSP00000305777	KC1G1_HUMAN	U3KQP7_HUMAN	UPI000003F575	.	tolerated_low_confidence(0.27)	benign(0.007)	2/12	.	hmmpanther:PTHR11909,hmmpanther:PTHR11909:SF132	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTACTAGGAT	.	5	BLCA
HCN4	0	.	GRCh37	15	73616530	73616530	+	Silent	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2043C>A	p.%3D	p.L681L	ENST00000261917	7/8	98	71	27	106	104	2	HCN4,synonymous_variant,p.%3D,ENST00000261917,;	T	ENSG00000138622	ENST00000261917	Transcript	synonymous_variant	3037	2043	681	L	ctC/ctA	COSM1301405	.	.	-1	HCN4	HGNC	16882	protein_coding	YES	CCDS10248.1	ENSP00000261917	HCN4_HUMAN	.	UPI000003FFB5	.	.	.	7/8	.	PROSITE_profiles:PS50042,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF375,Pfam_domain:PF00027,Gene3D:2.60.120.10,SMART_domains:SM00100,Superfamily_domains:SSF51206,Prints_domain:PR01463	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GAGTAGAGGCG	.	3	BLCA
FBXO22	0	.	GRCh37	15	76222340	76222340	+	Silent	SNP	C	C	T	rs143480986	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744C>T	p.%3D	p.I248I	ENST00000308275	6/7	137	102	35	116	116	0	FBXO22,synonymous_variant,p.%3D,ENST00000540507,;FBXO22,synonymous_variant,p.%3D,ENST00000569054,;FBXO22,synonymous_variant,p.%3D,ENST00000308275,;FBXO22,synonymous_variant,p.%3D,ENST00000453211,;FBXO22,synonymous_variant,p.%3D,ENST00000565036,;FBXO22,upstream_gene_variant,,ENST00000564220,;FBXO22,synonymous_variant,p.%3D,ENST00000561885,;FBXO22,3_prime_UTR_variant,,ENST00000569749,;FBXO22,3_prime_UTR_variant,,ENST00000569022,;	T	ENSG00000167196	ENST00000308275	Transcript	synonymous_variant	849	744	248	I	atC/atT	rs143480986,COSM1301455,COSM1301456	.	.	1	FBXO22	HGNC	13593	protein_coding	YES	CCDS10287.1	ENSP00000307833	FBX22_HUMAN	H3BUC1_HUMAN,H3BTR7_HUMAN,H3BRE0_HUMAN	UPI0000049FDF	.	.	.	6/7	.	hmmpanther:PTHR14939:SF4,hmmpanther:PTHR14939	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATCATCTT	byCluster	5	BLCA
IREB2	0	.	GRCh37	15	78758655	78758655	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453G>A	p.%3D	p.Q151Q	ENST00000258886	5/22	60	38	21	48	47	1	IREB2,synonymous_variant,p.%3D,ENST00000258886,;IREB2,synonymous_variant,p.%3D,ENST00000560440,;IREB2,downstream_gene_variant,,ENST00000560840,;IREB2,non_coding_transcript_exon_variant,,ENST00000559427,;IREB2,downstream_gene_variant,,ENST00000560454,;IREB2,synonymous_variant,p.%3D,ENST00000558570,;IREB2,3_prime_UTR_variant,,ENST00000559215,;IREB2,3_prime_UTR_variant,,ENST00000558525,;	A	ENSG00000136381	ENST00000258886	Transcript	synonymous_variant	602	453	151	Q	caG/caA	COSM1301471	.	.	1	IREB2	HGNC	6115	protein_coding	YES	CCDS10302.1	ENSP00000258886	IREB2_HUMAN	H0YLE0_HUMAN	UPI00001C1F8E	.	.	.	5/22	.	hmmpanther:PTHR11670:SF31,hmmpanther:PTHR11670	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCAGAAAGC	.	5	BLCA
ADAMTS7	0	.	GRCh37	15	79090340	79090340	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.572G>C	p.Arg191Thr	p.R191T	ENST00000388820	3/24	148	117	31	103	103	0	ADAMTS7,missense_variant,p.Arg191Thr,ENST00000388820,;ADAMTS7,non_coding_transcript_exon_variant,,ENST00000566303,;ADAMTS7,non_coding_transcript_exon_variant,,ENST00000568712,;ADAMTS7,non_coding_transcript_exon_variant,,ENST00000565793,;	G	ENSG00000136378	ENST00000388820	Transcript	missense_variant	783	572	191	R/T	aGg/aCg	COSM1301477	.	.	-1	ADAMTS7	HGNC	223	protein_coding	YES	CCDS32303.1	ENSP00000373472	ATS7_HUMAN	.	UPI00002263B3	.	tolerated(0.28)	benign(0.142)	3/24	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF142	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGCCTCTCC	.	5	BLCA
ADAMTSL3	0	.	GRCh37	15	84651522	84651522	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3142G>A	p.Asp1048Asn	p.D1048N	ENST00000286744	21/30	104	79	25	79	78	1	ADAMTSL3,missense_variant,p.Asp1048Asn,ENST00000286744,;ADAMTSL3,missense_variant,p.Asp1048Asn,ENST00000567476,;ADAMTSL3,downstream_gene_variant,,ENST00000562296,;ADAMTSL3,downstream_gene_variant,,ENST00000567716,;ADAMTSL3,non_coding_transcript_exon_variant,,ENST00000561483,;	A	ENSG00000156218	ENST00000286744	Transcript	missense_variant	3366	3142	1048	D/N	Gac/Aac	COSM1301497	.	.	1	ADAMTSL3	HGNC	14633	protein_coding	YES	CCDS10326.1	ENSP00000286744	ATL3_HUMAN	.	UPI00001615A5	.	tolerated(0.4)	benign(0.017)	21/30	.	hmmpanther:PTHR13723:SF169,hmmpanther:PTHR13723	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATGACCAC	.	5	BLCA
ALPK3	0	.	GRCh37	15	85401501	85401501	+	Missense_Mutation	SNP	G	G	A	rs377179290	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4138G>A	p.Gly1380Arg	p.G1380R	ENST00000258888	6/14	15	11	4	13	13	0	ALPK3,missense_variant,p.Gly1380Arg,ENST00000258888,;	A	ENSG00000136383	ENST00000258888	Transcript	missense_variant	4305	4138	1380	G/R	Ggg/Agg	rs377179290,COSM1301506,COSM1301507	.	.	1	ALPK3	HGNC	17574	protein_coding	YES	CCDS10333.1	ENSP00000258888	ALPK3_HUMAN	.	UPI000013D013	.	deleterious(0.04)	benign(0.139)	6/14	.	hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF21	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0003	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGACGGGGAG	byCluster|by1000G	5	BLCA
AKAP13	0	.	GRCh37	15	86123759	86123759	+	Silent	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2460A>T	p.%3D	p.T820T	ENST00000361243	7/37	274	196	78	200	199	1	AKAP13,synonymous_variant,p.%3D,ENST00000394518,;AKAP13,synonymous_variant,p.%3D,ENST00000559362,;AKAP13,synonymous_variant,p.%3D,ENST00000361243,;AKAP13,downstream_gene_variant,,ENST00000558166,;AKAP13,downstream_gene_variant,,ENST00000558811,;RP11-815J21.2,upstream_gene_variant,,ENST00000561409,;AKAP13,upstream_gene_variant,,ENST00000560340,;AKAP13,upstream_gene_variant,,ENST00000561337,;	T	ENSG00000170776	ENST00000361243	Transcript	synonymous_variant	2541	2460	820	T	acA/acT	COSM1301514,COSM1301515	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	.	.	7/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATACAGCTAC	.	5	BLCA
WDR93	0	.	GRCh37	15	90245001	90245001	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24G>C	p.Gln8His	p.Q8H	ENST00000268130	2/17	199	150	49	170	170	0	WDR93,missense_variant,p.Gln8His,ENST00000558000,;WDR93,missense_variant,p.Gln8His,ENST00000560294,;WDR93,missense_variant,p.Gln8His,ENST00000268130,;RP11-300G22.2,upstream_gene_variant,,ENST00000557964,;	C	ENSG00000140527	ENST00000268130	Transcript	missense_variant	125	24	8	Q/H	caG/caC	COSM1301560	.	.	1	WDR93	HGNC	26924	protein_coding	YES	CCDS32326.1	ENSP00000268130	WDR93_HUMAN	H0YL01_HUMAN,B4DXL7_HUMAN	UPI00001D77A7	.	tolerated_low_confidence(0.44)	possibly_damaging(0.652)	2/17	.	hmmpanther:PTHR12219,hmmpanther:PTHR12219:SF14	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCAGACCCA	.	5	BLCA
CRTC3	0	.	GRCh37	15	91172733	91172733	+	Missense_Mutation	SNP	C	C	A	rs769888647	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1235C>A	p.Thr412Asn	p.T412N	ENST00000268184	11/15	158	115	43	153	153	0	CRTC3,missense_variant,p.Thr412Asn,ENST00000268184,;CRTC3,missense_variant,p.Thr412Asn,ENST00000420329,;CRTC3,downstream_gene_variant,,ENST00000558005,;RP11-387D10.2,intron_variant,,ENST00000559531,;CRTC3,downstream_gene_variant,,ENST00000560320,;CRTC3,downstream_gene_variant,,ENST00000561255,;	A	ENSG00000140577	ENST00000268184	Transcript	missense_variant	1239	1235	412	T/N	aCc/aAc	rs769888647,COSM1301576	.	.	1	CRTC3	HGNC	26148	protein_coding	YES	CCDS32331.1	ENSP00000268184	CRTC3_HUMAN	.	UPI00001FEB98	.	deleterious(0)	benign(0.424)	11/15	.	hmmpanther:PTHR13589,hmmpanther:PTHR13589:SF4	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCAACCAGCC	.	4	BLCA
IGF1R	0	.	GRCh37	15	99459355	99459355	+	Missense_Mutation	SNP	C	C	T	rs751448541	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1991C>T	p.Ser664Phe	p.S664F	ENST00000268035	9/21	90	63	27	62	62	0	IGF1R,missense_variant,p.Ser664Phe,ENST00000558762,;IGF1R,missense_variant,p.Ser664Phe,ENST00000268035,;IGF1R,downstream_gene_variant,,ENST00000558898,;IGF1R,downstream_gene_variant,,ENST00000559582,;IGF1R,synonymous_variant,p.%3D,ENST00000560144,;IGF1R,non_coding_transcript_exon_variant,,ENST00000559925,;IGF1R,upstream_gene_variant,,ENST00000561049,;	T	ENSG00000140443	ENST00000268035	Transcript	missense_variant	2602	1991	664	S/F	tCc/tTc	rs751448541	.	.	1	IGF1R	HGNC	5465	protein_coding	YES	CCDS10378.1	ENSP00000268035	IGF1R_HUMAN	H0YNR0_HUMAN,H0YMJ5_HUMAN	UPI000012D3EA	.	tolerated(0.09)	benign(0.111)	9/21	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,PIRSF_domain:PIRSF000620,Gene3D:2.60.40.10,hmmpanther:PTHR24416:SF106,hmmpanther:PTHR24416,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCCAAAG	.	5	BLCA
IGF1R	0	.	GRCh37	15	99459919	99459919	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2015A>C	p.Lys672Thr	p.K672T	ENST00000268035	10/21	70	50	20	51	51	0	IGF1R,missense_variant,p.Lys672Thr,ENST00000558762,;IGF1R,missense_variant,p.Lys672Thr,ENST00000268035,;IGF1R,downstream_gene_variant,,ENST00000559582,;IGF1R,missense_variant,p.Glu82Asp,ENST00000560144,;IGF1R,non_coding_transcript_exon_variant,,ENST00000559925,;IGF1R,non_coding_transcript_exon_variant,,ENST00000561049,;	C	ENSG00000140443	ENST00000268035	Transcript	missense_variant	2626	2015	672	K/T	aAg/aCg	COSM1301610	.	.	1	IGF1R	HGNC	5465	protein_coding	YES	CCDS10378.1	ENSP00000268035	IGF1R_HUMAN	H0YNR0_HUMAN,H0YMJ5_HUMAN	UPI000012D3EA	.	tolerated(0.71)	benign(0.007)	10/21	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,PIRSF_domain:PIRSF000620,hmmpanther:PTHR24416:SF106,hmmpanther:PTHR24416,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGAAGTATG	.	5	BLCA
BAIAP3	0	.	GRCh37	16	1395092	1395092	+	Missense_Mutation	SNP	C	C	G	rs552420271	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2037C>G	p.Ile679Met	p.I679M	ENST00000324385	21/34	166	125	41	134	134	0	BAIAP3,missense_variant,p.Ile608Met,ENST00000421665,;BAIAP3,missense_variant,p.Ile616Met,ENST00000568887,;BAIAP3,missense_variant,p.Ile661Met,ENST00000397488,;BAIAP3,missense_variant,p.Ile644Met,ENST00000426824,;BAIAP3,missense_variant,p.Ile621Met,ENST00000562208,;BAIAP3,missense_variant,p.Ile69Met,ENST00000566162,;BAIAP3,missense_variant,p.Ile679Met,ENST00000324385,;BAIAP3,missense_variant,p.Ile661Met,ENST00000397489,;TSR3,downstream_gene_variant,,ENST00000007390,;BAIAP3,upstream_gene_variant,,ENST00000561793,;BAIAP3,upstream_gene_variant,,ENST00000564213,;BAIAP3,upstream_gene_variant,,ENST00000566389,;BAIAP3,upstream_gene_variant,,ENST00000561602,;BAIAP3,upstream_gene_variant,,ENST00000567203,;TSR3,downstream_gene_variant,,ENST00000566296,;BAIAP3,downstream_gene_variant,,ENST00000567825,;BAIAP3,downstream_gene_variant,,ENST00000568198,;	G	ENSG00000007516	ENST00000324385	Transcript	missense_variant	2195	2037	679	I/M	atC/atG	rs552420271,COSM1301636	.	.	1	BAIAP3	HGNC	948	protein_coding	YES	CCDS10434.1	ENSP00000324510	BAIP3_HUMAN	.	UPI0000071E58	.	deleterious(0.01)	possibly_damaging(0.482)	21/34	.	hmmpanther:PTHR15015,hmmpanther:PTHR15015:SF19,PROSITE_profiles:PS51258	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCCCTGG	by1000G	5	BLCA
BFAR	0	.	GRCh37	16	14761813	14761813	+	3'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*129C>T	.	.	ENST00000261658	8/8	23	14	9	11	11	0	BFAR,3_prime_UTR_variant,,ENST00000563971,;BFAR,3_prime_UTR_variant,,ENST00000426842,;BFAR,3_prime_UTR_variant,,ENST00000261658,;BFAR,intron_variant,,ENST00000565478,;PLA2G10,downstream_gene_variant,,ENST00000438167,;BFAR,downstream_gene_variant,,ENST00000562545,;BFAR,downstream_gene_variant,,ENST00000564078,;BFAR,intron_variant,,ENST00000563082,;BFAR,3_prime_UTR_variant,,ENST00000566710,;BFAR,downstream_gene_variant,,ENST00000563313,;PLA2G10,downstream_gene_variant,,ENST00000567462,;	T	ENSG00000103429	ENST00000261658	Transcript	3_prime_UTR_variant	1759	.	.	.	.	.	.	.	1	BFAR	HGNC	17613	protein_coding	YES	CCDS10554.1	ENSP00000261658	BFAR_HUMAN	H3BRQ5_HUMAN,H3BMY8_HUMAN	UPI0000072F15	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATCAAAAG	.	5	BLCA
SMG1	0	.	GRCh37	16	18864945	18864945	+	Silent	SNP	C	C	T	rs767829543	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4728G>A	p.%3D	p.T1576T	ENST00000446231	31/63	34	27	7	27	27	0	SMG1,synonymous_variant,p.%3D,ENST00000389467,;SMG1,synonymous_variant,p.%3D,ENST00000565324,;SMG1,synonymous_variant,p.%3D,ENST00000446231,;SMG1,downstream_gene_variant,,ENST00000563235,;SMG1,downstream_gene_variant,,ENST00000569764,;SMG1,upstream_gene_variant,,ENST00000563448,;SMG1,upstream_gene_variant,,ENST00000562668,;	T	ENSG00000157106	ENST00000446231	Transcript	synonymous_variant	5141	4728	1576	T	acG/acA	rs767829543,COSM1301678,COSM1301677	.	.	-1	SMG1	HGNC	30045	protein_coding	YES	CCDS45430.1	ENSP00000402515	SMG1_HUMAN	H3BPS6_HUMAN	UPI00004F8E22	.	.	.	31/63	.	PROSITE_profiles:PS51189,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF59	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATCGTATT	.	4	BLCA
CCP110	0	.	GRCh37	16	19539318	19539318	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115C>T	p.His39Tyr	p.H39Y	ENST00000381396	2/15	121	87	34	81	81	0	CCP110,missense_variant,p.His39Tyr,ENST00000396212,;CCP110,missense_variant,p.His26Tyr,ENST00000561888,;CCP110,missense_variant,p.His39Tyr,ENST00000381396,;CCP110,missense_variant,p.His39Tyr,ENST00000565376,;CCP110,missense_variant,p.His39Tyr,ENST00000396208,;CCP110,downstream_gene_variant,,ENST00000573412,;CCP110,missense_variant,p.His39Tyr,ENST00000562083,;CCP110,downstream_gene_variant,,ENST00000569190,;	T	ENSG00000103540	ENST00000381396	Transcript	missense_variant	362	115	39	H/Y	Cat/Tat	COSM1301685	.	.	1	CCP110	HGNC	24342	protein_coding	YES	CCDS55992.1	ENSP00000370803	CP110_HUMAN	.	UPI0000D619A9	.	tolerated(0.2)	probably_damaging(0.969)	2/15	.	hmmpanther:PTHR13594	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTCATGGA	.	5	BLCA
C16orf62	0	.	GRCh37	16	19656273	19656273	+	Splice_Site	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2196+2T>C	.	p.X732_splice	ENST00000438132	.	73	56	16	61	61	0	C16orf62,splice_donor_variant,,ENST00000417362,;C16orf62,splice_donor_variant,,ENST00000438132,;C16orf62,splice_donor_variant,,ENST00000543152,;C16orf62,splice_donor_variant,,ENST00000542263,;C16orf62,splice_donor_variant,,ENST00000251143,;C16orf62,splice_donor_variant,,ENST00000448695,;C16orf62,upstream_gene_variant,,ENST00000544275,;	C	ENSG00000103544	ENST00000438132	Transcript	splice_donor_variant	.	.	.	.	.	COSM1301687,COSM1301686	.	.	1	C16orf62	HGNC	24641	protein_coding	YES	CCDS32397.2	ENSP00000400815	.	I3L1U5_HUMAN,H3BV68_HUMAN,E7EWW0_HUMAN	UPI0001E1129C	.	.	.	.	23/30	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGGTAAGTA	.	5	BLCA
PDILT	0	.	GRCh37	16	20410448	20410448	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175C>A	p.Gln59Lys	p.Q59K	ENST00000302451	2/12	107	78	28	64	62	2	PDILT,missense_variant,p.Gln59Lys,ENST00000575561,;PDILT,missense_variant,p.Gln59Lys,ENST00000302451,;	T	ENSG00000169340	ENST00000302451	Transcript	missense_variant	424	175	59	Q/K	Cag/Aag	COSM1301699	.	.	-1	PDILT	HGNC	27338	protein_coding	YES	CCDS10584.1	ENSP00000305465	PDILT_HUMAN	.	UPI000000DAC6	.	deleterious(0.01)	benign(0.174)	2/12	.	hmmpanther:PTHR18929:SF58,hmmpanther:PTHR18929,Pfam_domain:PF00085,Gene3D:3.40.30.10,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GGTCTGGTTCA	.	2	BLCA
DNAH3	0	.	GRCh37	16	20975839	20975839	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9367A>G	p.Thr3123Ala	p.T3123A	ENST00000261383	53/62	277	212	65	211	209	1	DNAH3,missense_variant,p.Thr3123Ala,ENST00000261383,;DNAH3,3_prime_UTR_variant,,ENST00000415178,;	C	ENSG00000158486	ENST00000261383	Transcript	missense_variant	9367	9367	3123	T/A	Acc/Gcc	COSM1301707,COSM1301708	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	deleterious(0.05)	benign(0.008)	53/62	.	Pfam_domain:PF12781,hmmpanther:PTHR10676:SF242,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGGTGCCTA	.	5	BLCA
NPIPB3	0	.	GRCh37	16	21416159	21416159	+	Silent	SNP	G	G	C	rs751113689	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549C>G	p.%3D	p.L183L	ENST00000458643	7/14	127	106	21	92	92	0	NPIPB3,synonymous_variant,p.%3D,ENST00000448012,;NPIPB3,synonymous_variant,p.%3D,ENST00000542817,;NPIPB3,synonymous_variant,p.%3D,ENST00000458643,;NPIPB3,downstream_gene_variant,,ENST00000419180,;NPIPB3,downstream_gene_variant,,ENST00000504841,;NPIPB3,downstream_gene_variant,,ENST00000542953,;	C	ENSG00000169246	ENST00000458643	Transcript	synonymous_variant	1101	549	183	L	ctC/ctG	rs751113689	.	.	-1	NPIPB3	HGNC	28989	protein_coding	YES	.	ENSP00000399107	.	C9IYD2_HUMAN	UPI0001AE67FB	.	.	.	7/14	.	hmmpanther:PTHR15438:SF1,hmmpanther:PTHR15438	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GTCTTGAGATT	byFrequency	2	BLCA
MLST8	0	.	GRCh37	16	2259011	2259011	+	3'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*133C>T	.	.	ENST00000569417	9/9	19	14	5	24	24	0	MLST8,3_prime_UTR_variant,,ENST00000301725,;MLST8,3_prime_UTR_variant,,ENST00000397124,;MLST8,3_prime_UTR_variant,,ENST00000564088,;MLST8,3_prime_UTR_variant,,ENST00000301724,;MLST8,3_prime_UTR_variant,,ENST00000569417,;MLST8,3_prime_UTR_variant,,ENST00000565250,;MLST8,3_prime_UTR_variant,,ENST00000382450,;MLST8,downstream_gene_variant,,ENST00000562479,;MLST8,downstream_gene_variant,,ENST00000569457,;BRICD5,downstream_gene_variant,,ENST00000328540,;MLST8,downstream_gene_variant,,ENST00000563179,;PGP,downstream_gene_variant,,ENST00000333503,;BRICD5,downstream_gene_variant,,ENST00000566018,;MLST8,downstream_gene_variant,,ENST00000562352,;BRICD5,downstream_gene_variant,,ENST00000562360,;AC009065.3,upstream_gene_variant,,ENST00000517149,;RP11-304L19.8,upstream_gene_variant,,ENST00000561544,;MLST8,downstream_gene_variant,,ENST00000565926,;MLST8,downstream_gene_variant,,ENST00000561651,;MLST8,downstream_gene_variant,,ENST00000562844,;MLST8,downstream_gene_variant,,ENST00000564319,;MLST8,downstream_gene_variant,,ENST00000562043,;MLST8,3_prime_UTR_variant,,ENST00000566835,;MLST8,non_coding_transcript_exon_variant,,ENST00000568194,;MLST8,non_coding_transcript_exon_variant,,ENST00000562392,;MLST8,non_coding_transcript_exon_variant,,ENST00000565330,;MLST8,non_coding_transcript_exon_variant,,ENST00000568542,;MLST8,non_coding_transcript_exon_variant,,ENST00000563067,;MLST8,downstream_gene_variant,,ENST00000563107,;BRICD5,downstream_gene_variant,,ENST00000566795,;MLST8,downstream_gene_variant,,ENST00000566653,;MLST8,downstream_gene_variant,,ENST00000569848,;MLST8,downstream_gene_variant,,ENST00000567282,;MLST8,downstream_gene_variant,,ENST00000565687,;MLST8,downstream_gene_variant,,ENST00000567623,;MLST8,downstream_gene_variant,,ENST00000562239,;MLST8,downstream_gene_variant,,ENST00000570224,;PGP,downstream_gene_variant,,ENST00000562001,;MLST8,downstream_gene_variant,,ENST00000564294,;MLST8,downstream_gene_variant,,ENST00000564679,;MLST8,downstream_gene_variant,,ENST00000562851,;MLST8,downstream_gene_variant,,ENST00000567928,;MLST8,downstream_gene_variant,,ENST00000565717,;MLST8,downstream_gene_variant,,ENST00000565269,;	T	ENSG00000167965	ENST00000569417	Transcript	3_prime_UTR_variant	1468	.	.	.	.	.	.	.	1	MLST8	HGNC	24825	protein_coding	YES	CCDS10462.2	ENSP00000456405	LST8_HUMAN	H3BQ74_HUMAN,H3BN58_HUMAN	UPI000006D8E8	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGACCTGCTG	.	5	BLCA
PRKCB	0	.	GRCh37	16	24226045	24226045	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1930G>A	p.Asp644Asn	p.D644N	ENST00000303531	17/17	109	71	38	69	68	1	PRKCB,missense_variant,p.Asp644Asn,ENST00000303531,;PRKCB,intron_variant,,ENST00000321728,;	A	ENSG00000166501	ENST00000303531	Transcript	missense_variant	2082	1930	644	D/N	Gac/Aac	.	.	.	1	PRKCB	HGNC	9395	protein_coding	YES	CCDS10619.1	ENSP00000305355	KPCB_HUMAN	I3L1Z0_HUMAN	UPI000002ACF9	.	deleterious(0.03)	possibly_damaging(0.723)	17/17	.	PROSITE_profiles:PS51285,hmmpanther:PTHR24357,hmmpanther:PTHR24357:SF63,Pfam_domain:PF00433,SMART_domains:SM00133,PIRSF_domain:PIRSF000550,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCCGACCAG	.	5	BLCA
CACNG3	0	.	GRCh37	16	24267967	24267967	+	5'UTR	SNP	G	G	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-109G>T	.	.	ENST00000005284	1/4	33	24	9	23	23	0	CACNG3,5_prime_UTR_variant,,ENST00000005284,;AC004125.3,downstream_gene_variant,,ENST00000567127,;	T	ENSG00000006116	ENST00000005284	Transcript	5_prime_UTR_variant	1094	.	.	.	.	.	.	.	1	CACNG3	HGNC	1407	protein_coding	YES	CCDS10620.1	ENSP00000005284	CCG3_HUMAN	.	UPI000000D979	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTGAATTT	.	4	BLCA
GTF3C1	0	.	GRCh37	16	27472877	27472877	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6124G>A	p.Glu2042Lys	p.E2042K	ENST00000356183	37/37	83	57	25	94	93	0	GTF3C1,missense_variant,p.Glu147Lys,ENST00000569653,;GTF3C1,missense_variant,p.Glu2017Lys,ENST00000561623,;GTF3C1,missense_variant,p.Glu2042Lys,ENST00000356183,;GTF3C1,upstream_gene_variant,,ENST00000567806,;GTF3C1,non_coding_transcript_exon_variant,,ENST00000562609,;GTF3C1,non_coding_transcript_exon_variant,,ENST00000564747,;	T	ENSG00000077235	ENST00000356183	Transcript	missense_variant	6140	6124	2042	E/K	Gag/Aag	COSM1301785	.	.	-1	GTF3C1	HGNC	4664	protein_coding	YES	CCDS32414.1	ENSP00000348510	TF3C1_HUMAN	Q7Z7H4_HUMAN,I3L1Z3_HUMAN	UPI00001FF123	.	tolerated(0.07)	benign(0.272)	37/37	.	hmmpanther:PTHR15180	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTCCAGGC	.	5	BLCA
SRRM2	0	.	GRCh37	16	2808993	2808993	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>A	p.Glu201Lys	p.E201K	ENST00000301740	6/15	55	36	18	52	52	0	SRRM2,missense_variant,p.Glu201Lys,ENST00000576924,;SRRM2,missense_variant,p.Glu105Lys,ENST00000571378,;SRRM2,missense_variant,p.Glu105Lys,ENST00000575009,;SRRM2,missense_variant,p.Glu201Lys,ENST00000301740,;SRRM2,downstream_gene_variant,,ENST00000574340,;SRRM2,downstream_gene_variant,,ENST00000576415,;SRRM2,non_coding_transcript_exon_variant,,ENST00000575870,;SRRM2,upstream_gene_variant,,ENST00000572278,;SRRM2,upstream_gene_variant,,ENST00000576674,;SRRM2,non_coding_transcript_exon_variant,,ENST00000570655,;SRRM2,non_coding_transcript_exon_variant,,ENST00000576894,;SRRM2,non_coding_transcript_exon_variant,,ENST00000573451,;SRRM2,non_coding_transcript_exon_variant,,ENST00000573498,;SRRM2,non_coding_transcript_exon_variant,,ENST00000570971,;SRRM2,non_coding_transcript_exon_variant,,ENST00000571372,;SRRM2,downstream_gene_variant,,ENST00000575701,;SRRM2,upstream_gene_variant,,ENST00000576076,;SRRM2,upstream_gene_variant,,ENST00000572952,;	A	ENSG00000167978	ENST00000301740	Transcript	missense_variant	1150	601	201	E/K	Gag/Aag	COSM1301789	.	.	1	SRRM2	HGNC	16639	protein_coding	YES	CCDS32373.1	ENSP00000301740	SRRM2_HUMAN	I3L4D8_HUMAN,I3L1I8_HUMAN,I3L1C0_HUMAN,I3L182_HUMAN,I3L0N7_HUMAN	UPI000049DDFC	.	.	unknown(0)	6/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR32093:SF13,hmmpanther:PTHR32093	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCAGAGAGC	.	5	BLCA
SH2B1	0	.	GRCh37	16	28883959	28883959	+	Silent	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1830T>A	p.%3D	p.P610P	ENST00000322610	10/11	136	92	44	85	85	0	SH2B1,synonymous_variant,p.%3D,ENST00000395532,;SH2B1,synonymous_variant,p.%3D,ENST00000545570,;SH2B1,synonymous_variant,p.%3D,ENST00000322610,;SH2B1,synonymous_variant,p.%3D,ENST00000538342,;SH2B1,synonymous_variant,p.%3D,ENST00000569651,;SH2B1,synonymous_variant,p.%3D,ENST00000359285,;SH2B1,synonymous_variant,p.%3D,ENST00000568868,;SH2B1,synonymous_variant,p.%3D,ENST00000337120,;SH2B1,downstream_gene_variant,,ENST00000566176,;SH2B1,downstream_gene_variant,,ENST00000561629,;SH2B1,downstream_gene_variant,,ENST00000567536,;SH2B1,intron_variant,,ENST00000563674,;SH2B1,downstream_gene_variant,,ENST00000569471,;	A	ENSG00000178188	ENST00000322610	Transcript	synonymous_variant	2269	1830	610	P	ccT/ccA	COSM1301820,COSM1301818,COSM1301819	.	.	1	SH2B1	HGNC	30417	protein_coding	YES	CCDS53996.1	ENSP00000321221	SH2B1_HUMAN	H3BVF6_HUMAN,H3BTK4_HUMAN	UPI00001AF36C	.	.	.	10/11	.	PROSITE_profiles:PS50001,hmmpanther:PTHR10872:SF3,hmmpanther:PTHR10872,Gene3D:3.30.505.10,SMART_domains:SM00252,Superfamily_domains:SSF55550	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCCTTTGGA	.	5	BLCA
ATP2A1	0	.	GRCh37	16	28914209	28914209	+	Silent	SNP	C	C	T	rs541644982	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2721C>T	p.%3D	p.I907I	ENST00000357084	19/22	50	34	15	36	36	0	ATP2A1,synonymous_variant,p.%3D,ENST00000536376,;ATP2A1,synonymous_variant,p.%3D,ENST00000395503,;ATP2A1,synonymous_variant,p.%3D,ENST00000357084,;RABEP2,downstream_gene_variant,,ENST00000357573,;RABEP2,downstream_gene_variant,,ENST00000544477,;ATP2A1,upstream_gene_variant,,ENST00000564112,;RABEP2,downstream_gene_variant,,ENST00000358201,;ATP2A1,downstream_gene_variant,,ENST00000564732,;	T	ENSG00000196296	ENST00000357084	Transcript	synonymous_variant	2988	2721	907	I	atC/atT	rs541644982,COSM1301824	.	.	1	ATP2A1	HGNC	811	protein_coding	YES	CCDS10643.1	ENSP00000349595	AT2A1_HUMAN	H3BUU3_HUMAN	UPI000003B461	.	.	.	19/22	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF215,Gene3D:1.20.1110.10,Pfam_domain:PF00689,Superfamily_domains:0049473	G:0.0002	G:0	G:0	.	G:0	G:0.001	G:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCGAGAT	by1000G	5	BLCA
NFATC2IP	0	.	GRCh37	16	28963486	28963486	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.421C>G	p.Leu141Val	p.L141V	ENST00000320805	2/8	168	117	50	122	122	0	NFATC2IP,missense_variant,p.Leu141Val,ENST00000320805,;NFATC2IP,5_prime_UTR_variant,,ENST00000564978,;RP11-264B17.2,downstream_gene_variant,,ENST00000569974,;RP11-264B17.2,downstream_gene_variant,,ENST00000568057,;NFATC2IP,non_coding_transcript_exon_variant,,ENST00000562977,;NFATC2IP,non_coding_transcript_exon_variant,,ENST00000565919,;NFATC2IP,non_coding_transcript_exon_variant,,ENST00000565752,;NFATC2IP,upstream_gene_variant,,ENST00000568998,;	G	ENSG00000176953	ENST00000320805	Transcript	missense_variant	496	421	141	L/V	Cta/Gta	COSM1301831	.	.	1	NFATC2IP	HGNC	25906	protein_coding	YES	CCDS10645.1	ENSP00000324792	NF2IP_HUMAN	.	UPI00000316E2	.	tolerated(0.13)	benign(0.007)	2/8	.	hmmpanther:PTHR10562,hmmpanther:PTHR10562:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATCTATCC	.	5	BLCA
TAOK2	0	.	GRCh37	16	29994162	29994162	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.939G>A	p.%3D	p.K313K	ENST00000308893	11/16	143	105	37	137	137	0	TAOK2,synonymous_variant,p.%3D,ENST00000416441,;TAOK2,synonymous_variant,p.%3D,ENST00000543033,;TAOK2,synonymous_variant,p.%3D,ENST00000279394,;TAOK2,synonymous_variant,p.%3D,ENST00000308893,;TAOK2,upstream_gene_variant,,ENST00000566552,;	A	ENSG00000149930	ENST00000308893	Transcript	synonymous_variant	1982	939	313	K	aaG/aaA	COSM1301844,COSM1301843	.	.	1	TAOK2	HGNC	16835	protein_coding	YES	CCDS10663.1	ENSP00000310094	TAOK2_HUMAN	.	UPI000013EDDA	.	.	.	11/16	.	hmmpanther:PTHR24361:SF188,hmmpanther:PTHR24361	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAAGAAGAT	.	5	BLCA
PRSS36	0	.	GRCh37	16	31157215	31157215	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.615C>T	p.%3D	p.T205T	ENST00000268281	6/15	54	40	14	51	51	0	PRSS36,synonymous_variant,p.%3D,ENST00000268281,;PRSS36,synonymous_variant,p.%3D,ENST00000569305,;PRSS36,synonymous_variant,p.%3D,ENST00000418068,;PRSS36,non_coding_transcript_exon_variant,,ENST00000562368,;PRSS36,downstream_gene_variant,,ENST00000561897,;PRSS36,upstream_gene_variant,,ENST00000563693,;PRSS36,downstream_gene_variant,,ENST00000562390,;PRSS36,downstream_gene_variant,,ENST00000569614,;	A	ENSG00000178226	ENST00000268281	Transcript	synonymous_variant	674	615	205	T	acC/acT	COSM1301915	.	.	-1	PRSS36	HGNC	26906	protein_coding	YES	CCDS32436.1	ENSP00000268281	POLS2_HUMAN	B4DNP1_HUMAN	UPI00001FFF6A	.	.	.	6/15	.	Superfamily_domains:SSF50494,PIRSF_domain:PIRSF037933,SMART_domains:SM00020,Pfam_domain:PF00089,Gene3D:2.40.10.10,hmmpanther:PTHR24276:SF4,hmmpanther:PTHR24276,PROSITE_profiles:PS50240	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACAGGTGGC	.	5	BLCA
ITGAM	0	.	GRCh37	16	31288291	31288291	+	Silent	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1134C>G	p.%3D	p.V378V	ENST00000544665	11/30	31	19	12	21	21	0	ITGAM,synonymous_variant,p.%3D,ENST00000567031,;ITGAM,synonymous_variant,p.%3D,ENST00000287497,;ITGAM,synonymous_variant,p.%3D,ENST00000544665,;ITGAM,downstream_gene_variant,,ENST00000570242,;	G	ENSG00000169896	ENST00000544665	Transcript	synonymous_variant	1205	1134	378	V	gtC/gtG	COSM1301921	.	.	1	ITGAM	HGNC	6149	protein_coding	YES	CCDS54004.1	ENSP00000441691	ITAM_HUMAN	B3KXM6_HUMAN	UPI000004B26A	.	.	.	11/30	.	PROSITE_profiles:PS51470,hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF76,Gene3D:3nigC00,Superfamily_domains:SSF69318	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GGAGTCTTTCT	.	4	BLCA
OR1F1	0	.	GRCh37	16	3254779	3254779	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.533T>C	p.Phe178Ser	p.F178S	ENST00000304646	1/1	161	120	41	128	127	1	OR1F1,missense_variant,p.Phe178Ser,ENST00000304646,;AJ003147.9,intron_variant,,ENST00000576468,;	C	ENSG00000168124	ENST00000304646	Transcript	missense_variant	533	533	178	F/S	tTc/tCc	COSM1301938	.	.	1	OR1F1	HGNC	8194	protein_coding	YES	CCDS10496.1	ENSP00000305424	OR1F1_HUMAN	.	UPI00000015B4	.	deleterious(0.01)	probably_damaging(0.956)	1/1	.	Prints_domain:PR00245,Superfamily_domains:SSF81321,Pfam_domain:PF13853,Gene3D:1.20.1070.10,hmmpanther:PTHR26451:SF304,hmmpanther:PTHR26451,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTTCTGCG	.	5	BLCA
NAGPA	0	.	GRCh37	16	5083318	5083318	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498G>A	p.%3D	p.Q166Q	ENST00000312251	2/10	38	23	15	28	28	0	NAGPA,synonymous_variant,p.%3D,ENST00000562346,;NAGPA,synonymous_variant,p.%3D,ENST00000563578,;NAGPA,synonymous_variant,p.%3D,ENST00000312251,;NAGPA,synonymous_variant,p.%3D,ENST00000381955,;ALG1,upstream_gene_variant,,ENST00000588623,;NAGPA,non_coding_transcript_exon_variant,,ENST00000591478,;NAGPA,intron_variant,,ENST00000564922,;NAGPA,upstream_gene_variant,,ENST00000569793,;NAGPA,upstream_gene_variant,,ENST00000568528,;NAGPA,synonymous_variant,p.%3D,ENST00000562746,;NAGPA,synonymous_variant,p.%3D,ENST00000565876,;NAGPA,synonymous_variant,p.%3D,ENST00000569296,;NAGPA,non_coding_transcript_exon_variant,,ENST00000568202,;NAGPA,intron_variant,,ENST00000562037,;RP11-165E7.1,intron_variant,,ENST00000588778,;NAGPA,intron_variant,,ENST00000561580,;ALG1,upstream_gene_variant,,ENST00000591961,;NAGPA,upstream_gene_variant,,ENST00000567739,;NAGPA,upstream_gene_variant,,ENST00000566137,;NAGPA,upstream_gene_variant,,ENST00000564397,;	T	ENSG00000103174	ENST00000312251	Transcript	synonymous_variant	518	498	166	Q	caG/caA	COSM1302015	.	.	-1	NAGPA	HGNC	17378	protein_coding	YES	CCDS10527.1	ENSP00000310998	NAGPA_HUMAN	.	UPI000013F295	.	.	.	2/10	.	hmmpanther:PTHR11219,Pfam_domain:PF09992	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGTTCTGCAG	.	5	BLCA
ALG1	0	.	GRCh37	16	5123184	5123184	+	Missense_Mutation	SNP	A	A	T	rs749171775	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317A>T	p.Lys106Ile	p.K106I	ENST00000262374	3/13	94	78	16	92	92	0	ALG1,missense_variant,p.Lys106Ile,ENST00000586840,;ALG1,missense_variant,p.Lys106Ile,ENST00000262374,;ALG1,5_prime_UTR_variant,,ENST00000588623,;ALG1,5_prime_UTR_variant,,ENST00000544428,;ALG1,5_prime_UTR_variant,,ENST00000591783,;ALG1,3_prime_UTR_variant,,ENST00000591822,;ALG1,non_coding_transcript_exon_variant,,ENST00000592793,;RP11-10K17.3,downstream_gene_variant,,ENST00000564330,;	T	ENSG00000033011	ENST00000262374	Transcript	missense_variant	348	317	106	K/I	aAa/aTa	rs749171775,COSM1302017	.	.	1	ALG1	HGNC	18294	protein_coding	YES	CCDS10528.1	ENSP00000262374	ALG1_HUMAN	K7EID2_HUMAN,B4DP08_HUMAN	UPI000003B09B	.	deleterious(0)	probably_damaging(0.948)	3/13	.	hmmpanther:PTHR13036,hmmpanther:PTHR13036:SF0,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCAAAGTTG	byFrequency	4	BLCA
COQ9	0	.	GRCh37	16	57492236	57492236	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685C>G	p.His229Asp	p.H229D	ENST00000262507	6/9	11	7	4	25	25	0	COQ9,missense_variant,p.His229Asp,ENST00000262507,;COQ9,missense_variant,p.His153Asp,ENST00000565964,;COQ9,missense_variant,p.His233Asp,ENST00000564655,;COQ9,missense_variant,p.His194Asp,ENST00000567072,;COQ9,intron_variant,,ENST00000567933,;COQ9,intron_variant,,ENST00000563166,;COQ9,downstream_gene_variant,,ENST00000563391,;POLR2C,upstream_gene_variant,,ENST00000219252,;POLR2C,upstream_gene_variant,,ENST00000564651,;AC009052.12,upstream_gene_variant,,ENST00000567090,;COQ9,3_prime_UTR_variant,,ENST00000564115,;COQ9,non_coding_transcript_exon_variant,,ENST00000569980,;COQ9,downstream_gene_variant,,ENST00000568790,;COQ9,downstream_gene_variant,,ENST00000562426,;COQ9,downstream_gene_variant,,ENST00000562734,;POLR2C,upstream_gene_variant,,ENST00000563115,;POLR2C,upstream_gene_variant,,ENST00000567982,;COQ9,downstream_gene_variant,,ENST00000566388,;COQ9,downstream_gene_variant,,ENST00000567576,;POLR2C,upstream_gene_variant,,ENST00000562599,;POLR2C,upstream_gene_variant,,ENST00000562953,;POLR2C,upstream_gene_variant,,ENST00000564626,;COQ9,downstream_gene_variant,,ENST00000567480,;	G	ENSG00000088682	ENST00000262507	Transcript	missense_variant	754	685	229	H/D	Cat/Gat	COSM1302056	.	.	1	COQ9	HGNC	25302	protein_coding	YES	CCDS32459.1	ENSP00000262507	COQ9_HUMAN	H3BPY0_HUMAN,B4DEE3_HUMAN	UPI0000070ECA	.	deleterious(0)	possibly_damaging(0.694)	6/9	.	hmmpanther:PTHR21427,Pfam_domain:PF08511,TIGRFAM_domain:TIGR02396	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGTGGCATTAC	.	3	BLCA
POLR2C	0	.	GRCh37	16	57496641	57496641	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5C>T	p.Pro2Leu	p.P2L	ENST00000219252	1/9	19	14	5	10	10	0	POLR2C,missense_variant,p.Pro2Leu,ENST00000219252,;COQ9,downstream_gene_variant,,ENST00000563391,;COQ9,downstream_gene_variant,,ENST00000567933,;COQ9,downstream_gene_variant,,ENST00000262507,;COQ9,downstream_gene_variant,,ENST00000565964,;COQ9,downstream_gene_variant,,ENST00000564655,;COQ9,downstream_gene_variant,,ENST00000567072,;COQ9,downstream_gene_variant,,ENST00000563166,;POLR2C,non_coding_transcript_exon_variant,,ENST00000564651,;AC009052.12,non_coding_transcript_exon_variant,,ENST00000567090,;POLR2C,missense_variant,p.Pro2Leu,ENST00000562599,;POLR2C,non_coding_transcript_exon_variant,,ENST00000563115,;POLR2C,non_coding_transcript_exon_variant,,ENST00000567982,;POLR2C,non_coding_transcript_exon_variant,,ENST00000562953,;COQ9,downstream_gene_variant,,ENST00000569980,;POLR2C,upstream_gene_variant,,ENST00000563589,;COQ9,downstream_gene_variant,,ENST00000564115,;POLR2C,upstream_gene_variant,,ENST00000564626,;	T	ENSG00000102978	ENST00000219252	Transcript	missense_variant	343	5	2	P/L	cCg/cTg	COSM1302057	.	.	1	POLR2C	HGNC	9189	protein_coding	YES	CCDS10782.1	ENSP00000219252	RPB3_HUMAN	Q6FGR6_HUMAN	UPI00000012C1	.	deleterious(0)	probably_damaging(1)	1/9	.	hmmpanther:PTHR11800	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATGCCGTACG	.	2	BLCA
GPR114	0	.	GRCh37	16	57596033	57596033	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28T>C	p.Cys10Arg	p.C10R	ENST00000340339	2/12	121	85	36	106	106	0	GPR114,missense_variant,p.Cys10Arg,ENST00000340339,;GPR114,missense_variant,p.Cys10Arg,ENST00000349457,;GPR114,non_coding_transcript_exon_variant,,ENST00000394361,;GPR114,non_coding_transcript_exon_variant,,ENST00000564607,;GPR114,non_coding_transcript_exon_variant,,ENST00000564983,;	C	ENSG00000159618	ENST00000340339	Transcript	missense_variant	551	28	10	C/R	Tgc/Cgc	COSM1302059	.	.	1	GPR114	HGNC	19010	protein_coding	YES	CCDS10785.1	ENSP00000342981	GP114_HUMAN	.	UPI0000039944	.	deleterious(0.01)	possibly_damaging(0.564)	2/12	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGTGCCTG	.	5	BLCA
CNOT1	0	.	GRCh37	16	58621689	58621689	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304C>T	p.Gln102Ter	p.Q102*	ENST00000317147	4/49	86	61	25	72	72	0	CNOT1,stop_gained,p.Gln102Ter,ENST00000317147,;CNOT1,stop_gained,p.Gln102Ter,ENST00000569240,;CNOT1,stop_gained,p.Gln102Ter,ENST00000441024,;CNOT1,downstream_gene_variant,,ENST00000564557,;CNOT1,stop_gained,p.Gln102Ter,ENST00000567188,;CNOT1,intron_variant,,ENST00000565605,;	A	ENSG00000125107	ENST00000317147	Transcript	stop_gained	637	304	102	Q/*	Cag/Tag	COSM1302084,COSM1302085	.	.	-1	CNOT1	HGNC	7877	protein_coding	YES	CCDS10799.1	ENSP00000320949	CNOT1_HUMAN	H3BUY8_HUMAN,H3BT18_HUMAN,H3BPF1_HUMAN,B7Z6X2_HUMAN,B3KS60_HUMAN	UPI00001FF2F6	.	.	.	4/49	.	hmmpanther:PTHR13162:SF8,hmmpanther:PTHR13162	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTGATAGT	.	5	BLCA
KCTD19	0	.	GRCh37	16	67323569	67323569	+	Missense_Mutation	SNP	G	G	T	rs765090605	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2684C>A	p.Ala895Asp	p.A895D	ENST00000304372	16/16	81	67	14	76	76	0	KCTD19,missense_variant,p.Ala895Asp,ENST00000304372,;KCTD19,synonymous_variant,p.%3D,ENST00000562841,;PLEKHG4,downstream_gene_variant,,ENST00000360461,;PLEKHG4,downstream_gene_variant,,ENST00000379344,;PLEKHG4,downstream_gene_variant,,ENST00000569875,;PLEKHG4,downstream_gene_variant,,ENST00000427155,;PLEKHG4,downstream_gene_variant,,ENST00000450733,;KCTD19,non_coding_transcript_exon_variant,,ENST00000570049,;KCTD19,non_coding_transcript_exon_variant,,ENST00000566392,;KCTD19,non_coding_transcript_exon_variant,,ENST00000569333,;PLEKHG4,downstream_gene_variant,,ENST00000563969,;PLEKHG4,downstream_gene_variant,,ENST00000393966,;PLEKHG4,downstream_gene_variant,,ENST00000567136,;PLEKHG4,downstream_gene_variant,,ENST00000562289,;	T	ENSG00000168676	ENST00000304372	Transcript	missense_variant	2740	2684	895	A/D	gCc/gAc	rs765090605,COSM1302124,COSM3937118	.	.	-1	KCTD19	HGNC	24753	protein_coding	YES	CCDS42179.1	ENSP00000305702	KCD19_HUMAN	J3KSZ9_HUMAN,H3BVC0_HUMAN	UPI00001D7875	.	deleterious(0)	possibly_damaging(0.859)	16/16	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTGGCGAAG	.	4	BLCA
DDX19B	0	.	GRCh37	16	70367484	70367484	+	Silent	SNP	G	G	A	rs569358193	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1439G>A	p.%3D	p.%3D	ENST00000288071	12/12	316	178	138	201	200	0	DDX19B,stop_retained_variant,p.%3D,ENST00000451014,;DDX19B,stop_retained_variant,p.%3D,ENST00000393657,;DDX19B,stop_retained_variant,p.%3D,ENST00000355992,;DDX19B,stop_retained_variant,p.%3D,ENST00000568625,;DDX19B,stop_retained_variant,p.%3D,ENST00000563206,;DDX19B,stop_retained_variant,p.%3D,ENST00000563392,;DDX19B,stop_retained_variant,p.%3D,ENST00000288071,;RP11-529K1.3,intron_variant,,ENST00000567706,;DDX19B,downstream_gene_variant,,ENST00000566216,;RP11-529K1.2,intron_variant,,ENST00000562077,;DDX19B,3_prime_UTR_variant,,ENST00000562519,;RP11-529K1.3,intron_variant,,ENST00000565116,;RP11-529K1.2,downstream_gene_variant,,ENST00000570278,;DDX19B,downstream_gene_variant,,ENST00000568408,;DDX19B,downstream_gene_variant,,ENST00000568008,;	A	ENSG00000157349	ENST00000288071	Transcript	stop_retained_variant	1684	1439	480	*	tGa/tAa	rs569358193,COSM1302201,COSM1302202	.	.	1	DDX19B	HGNC	2742	protein_coding	YES	CCDS10888.1	ENSP00000288071	DD19B_HUMAN	Q2NL95_HUMAN,H3BN59_HUMAN,B4DL69_HUMAN	UPI000012907F	.	.	.	12/12	.	.	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTGAGAAG	by1000G	5	BLCA
FUK	0	.	GRCh37	16	70506488	70506488	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1386C>T	p.%3D	p.F462F	ENST00000288078	14/24	25	19	6	32	32	0	FUK,synonymous_variant,p.%3D,ENST00000288078,;FUK,synonymous_variant,p.%3D,ENST00000378912,;FUK,5_prime_UTR_variant,,ENST00000571514,;FUK,non_coding_transcript_exon_variant,,ENST00000464499,;FUK,downstream_gene_variant,,ENST00000571487,;FUK,upstream_gene_variant,,ENST00000573832,;FUK,upstream_gene_variant,,ENST00000485034,;FUK,upstream_gene_variant,,ENST00000498702,;	T	ENSG00000157353	ENST00000288078	Transcript	synonymous_variant	1618	1386	462	F	ttC/ttT	COSM1302205,COSM3511383	.	.	1	FUK	HGNC	29500	protein_coding	YES	CCDS10891.2	ENSP00000288078	FUK_HUMAN	Q8N8I9_HUMAN,I3L3J1_HUMAN,I3L1X0_HUMAN,I3L171_HUMAN,I3L106_HUMAN,B2RDL5_HUMAN	UPI000013DEF1	.	.	.	14/24	.	hmmpanther:PTHR32463,hmmpanther:PTHR32463:SF0,Pfam_domain:PF07959	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATTCTTCAA	.	5	BLCA
COG4	0	.	GRCh37	16	70543163	70543163	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.973T>C	p.Phe325Leu	p.F325L	ENST00000323786	7/19	336	327	9	202	202	0	COG4,missense_variant,p.Phe321Leu,ENST00000393612,;COG4,missense_variant,p.Phe325Leu,ENST00000323786,;COG4,downstream_gene_variant,,ENST00000564653,;COG4,downstream_gene_variant,,ENST00000534772,;COG4,missense_variant,p.Phe321Leu,ENST00000482252,;COG4,3_prime_UTR_variant,,ENST00000564415,;COG4,non_coding_transcript_exon_variant,,ENST00000530314,;COG4,downstream_gene_variant,,ENST00000524584,;COG4,downstream_gene_variant,,ENST00000562200,;COG4,downstream_gene_variant,,ENST00000530160,;COG4,upstream_gene_variant,,ENST00000526700,;	G	ENSG00000103051	ENST00000323786	Transcript	missense_variant	995	973	325	F/L	Ttc/Ctc	COSM1302206	.	.	-1	COG4	HGNC	18620	protein_coding	YES	CCDS10892.2	ENSP00000315775	.	J3KRB5_HUMAN,J3KNI1_HUMAN,B4DDL2_HUMAN	UPI000059D3B0	.	tolerated(0.13)	benign(0.299)	7/19	.	hmmpanther:PTHR24016:SF0,hmmpanther:PTHR24016,Pfam_domain:PF08318,SMART_domains:SM00762	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATGAACTTGT	.	2	BLCA
RPUSD1	0	.	GRCh37	16	836923	836923	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415G>A	p.Glu139Lys	p.E139K	ENST00000561734	4/5	112	90	21	66	66	0	RPUSD1,missense_variant,p.Glu10Lys,ENST00000565377,;RPUSD1,missense_variant,p.Glu142Lys,ENST00000563560,;RPUSD1,missense_variant,p.Glu139Lys,ENST00000007264,;RPUSD1,missense_variant,p.Glu76Lys,ENST00000562070,;RPUSD1,missense_variant,p.Glu10Lys,ENST00000567114,;RPUSD1,missense_variant,p.Glu13Lys,ENST00000569601,;RPUSD1,missense_variant,p.Glu139Lys,ENST00000561734,;RPUSD1,synonymous_variant,p.%3D,ENST00000565809,;MSLNL,upstream_gene_variant,,ENST00000543963,;CHTF18,upstream_gene_variant,,ENST00000426047,;MSLNL,upstream_gene_variant,,ENST00000293892,;CHTF18,upstream_gene_variant,,ENST00000455171,;MSLNL,upstream_gene_variant,,ENST00000442466,;CHTF18,upstream_gene_variant,,ENST00000262315,;CHTF18,upstream_gene_variant,,ENST00000317063,;CHTF18,upstream_gene_variant,,ENST00000570058,;CHTF18,upstream_gene_variant,,ENST00000491530,;RPUSD1,stop_retained_variant,p.%3D,ENST00000567283,;RPUSD1,3_prime_UTR_variant,,ENST00000565503,;CHTF18,upstream_gene_variant,,ENST00000565787,;CHTF18,upstream_gene_variant,,ENST00000440239,;CHTF18,upstream_gene_variant,,ENST00000479976,;CHTF18,upstream_gene_variant,,ENST00000464728,;CHTF18,upstream_gene_variant,,ENST00000484349,;CHTF18,upstream_gene_variant,,ENST00000563545,;CHTF18,upstream_gene_variant,,ENST00000569270,;CHTF18,upstream_gene_variant,,ENST00000471202,;CHTF18,upstream_gene_variant,,ENST00000567620,;	T	ENSG00000007376	ENST00000561734	Transcript	missense_variant	659	415	139	E/K	Gag/Aag	COSM1302299	.	.	-1	RPUSD1	HGNC	14173	protein_coding	YES	CCDS10426.1	ENSP00000455026	RUSD1_HUMAN	H3BSG4_HUMAN,H3BQN8_HUMAN	UPI0000073C11	.	tolerated(0.16)	benign(0.129)	4/5	.	hmmpanther:PTHR10436,hmmpanther:PTHR10436:SF92,Pfam_domain:PF00849,Superfamily_domains:SSF55120	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCTCACAAC	.	4	BLCA
ATP2C2	0	.	GRCh37	16	84444355	84444355	+	Missense_Mutation	SNP	C	C	T	rs755421600	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499C>T	p.Pro167Ser	p.P167S	ENST00000262429	6/27	98	75	23	74	74	0	ATP2C2,missense_variant,p.Pro167Ser,ENST00000416219,;ATP2C2,missense_variant,p.Pro167Ser,ENST00000262429,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000565927,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000565546,;ATP2C2,intron_variant,,ENST00000420010,;ATP2C2,3_prime_UTR_variant,,ENST00000569207,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000565631,;ATP2C2,non_coding_transcript_exon_variant,,ENST00000568160,;	T	ENSG00000064270	ENST00000262429	Transcript	missense_variant	588	499	167	P/S	Cct/Tct	rs755421600,COSM1302307	.	.	1	ATP2C2	HGNC	29103	protein_coding	YES	CCDS42207.1	ENSP00000262429	AT2C2_HUMAN	.	UPI0000252110	.	deleterious(0)	probably_damaging(1)	6/27	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF220,TIGRFAM_domain:TIGR01522,Pfam_domain:PF00122,Superfamily_domains:0049471,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCCTCCA	.	5	BLCA
FOXC2	0	.	GRCh37	16	86600911	86600911	+	5'UTR	SNP	G	G	A	rs770504789	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000320354	1/1	48	41	7	43	42	1	FOXC2,5_prime_UTR_variant,,ENST00000320354,;RP11-463O9.5,intron_variant,,ENST00000563280,;	A	ENSG00000176692	ENST00000320354	Transcript	5_prime_UTR_variant	55	.	.	.	.	rs770504789	.	.	1	FOXC2	HGNC	3801	protein_coding	YES	CCDS10958.1	ENSP00000326371	FOXC2_HUMAN	I6YRR3_HUMAN	UPI000012ADC6	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCGCGAGGGC	.	2	BLCA
TCF25	0	.	GRCh37	16	89962447	89962447	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.978C>T	p.%3D	p.L326L	ENST00000263346	9/18	52	39	13	34	34	0	TCF25,synonymous_variant,p.%3D,ENST00000568412,;TCF25,synonymous_variant,p.%3D,ENST00000263347,;TCF25,synonymous_variant,p.%3D,ENST00000568409,;TCF25,synonymous_variant,p.%3D,ENST00000263346,;TCF25,synonymous_variant,p.%3D,ENST00000562256,;TCF25,upstream_gene_variant,,ENST00000562193,;TCF25,downstream_gene_variant,,ENST00000565196,;TCF25,downstream_gene_variant,,ENST00000561958,;TCF25,downstream_gene_variant,,ENST00000566751,;TCF25,non_coding_transcript_exon_variant,,ENST00000563636,;TCF25,non_coding_transcript_exon_variant,,ENST00000562184,;TCF25,non_coding_transcript_exon_variant,,ENST00000570116,;TCF25,non_coding_transcript_exon_variant,,ENST00000566158,;TCF25,downstream_gene_variant,,ENST00000568870,;TCF25,downstream_gene_variant,,ENST00000564652,;	T	ENSG00000141002	ENST00000263346	Transcript	synonymous_variant	1034	978	326	L	ctC/ctT	COSM1302374	.	.	1	TCF25	HGNC	29181	protein_coding	YES	CCDS10987.1	ENSP00000263346	TCF25_HUMAN	.	UPI000012A80B	.	.	.	9/18	.	hmmpanther:PTHR22684:SF0,hmmpanther:PTHR22684,Gene3D:1.25.40.10,Pfam_domain:PF04910,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTCACCAG	.	5	BLCA
GRIN2A	0	.	GRCh37	16	9857968	9857968	+	Missense_Mutation	SNP	C	C	T	rs779746293	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3433G>A	p.Val1145Met	p.V1145M	ENST00000396573	14/14	225	174	51	187	187	0	GRIN2A,missense_variant,p.Val988Met,ENST00000535259,;GRIN2A,missense_variant,p.Val1145Met,ENST00000330684,;GRIN2A,missense_variant,p.Val1145Met,ENST00000396573,;GRIN2A,missense_variant,p.Val1145Met,ENST00000404927,;GRIN2A,missense_variant,p.Val1145Met,ENST00000396575,;GRIN2A,missense_variant,p.Val1145Met,ENST00000562109,;GRIN2A,upstream_gene_variant,,ENST00000461292,;GRIN2A,downstream_gene_variant,,ENST00000463531,;	T	ENSG00000183454	ENST00000396573	Transcript	missense_variant	3743	3433	1145	V/M	Gtg/Atg	rs779746293,COSM1302381	.	.	-1	GRIN2A	HGNC	4585	protein_coding	YES	CCDS10539.1	ENSP00000379818	NMDE1_HUMAN	Q547U9_HUMAN	UPI000000D7AB	.	tolerated(0.13)	benign(0.136)	14/14	.	Pfam_domain:PF10565	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCCACGTTCT	.	4	BLCA
GAS7	0	.	GRCh37	17	10101629	10101629	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.79G>A	p.Glu27Lys	p.E27K	ENST00000432992	1/14	79	60	19	59	59	0	GAS7,missense_variant,p.Glu27Lys,ENST00000432992,;GAS7,5_prime_UTR_variant,,ENST00000540214,;	T	ENSG00000007237	ENST00000432992	Transcript	missense_variant	240	79	27	E/K	Gag/Aag	COSM1302387	.	.	-1	GAS7	HGNC	4169	protein_coding	YES	CCDS11152.1	ENSP00000407552	GAS7_HUMAN	J3QS26_HUMAN,J3QLH8_HUMAN,J3KTK6_HUMAN,J3KTB1_HUMAN,J3KS47_HUMAN,B7Z1Q2_HUMAN	UPI00001B4B17	.	tolerated(0.07)	possibly_damaging(0.593)	1/14	.	Superfamily_domains:SSF50044,SMART_domains:SM00326,Pfam_domain:PF14604,Gene3D:2.30.30.40,PROSITE_profiles:PS50002	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCGCCCG	.	5	BLCA
TOP3A	0	.	GRCh37	17	18217940	18217940	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153C>G	p.Asp51Glu	p.D51E	ENST00000321105	1/19	64	48	16	71	71	0	TOP3A,missense_variant,p.Asp26Glu,ENST00000580095,;TOP3A,missense_variant,p.Asp51Glu,ENST00000321105,;TOP3A,5_prime_UTR_variant,,ENST00000542570,;SMCR8,upstream_gene_variant,,ENST00000406438,;TOP3A,non_coding_transcript_exon_variant,,ENST00000584887,;TOP3A,non_coding_transcript_exon_variant,,ENST00000582230,;TOP3A,non_coding_transcript_exon_variant,,ENST00000584669,;TOP3A,missense_variant,p.Asp51Glu,ENST00000461127,;TOP3A,missense_variant,p.Asp51Glu,ENST00000582981,;TOP3A,missense_variant,p.Asp51Glu,ENST00000584582,;TOP3A,missense_variant,p.Asp51Glu,ENST00000585031,;TOP3A,non_coding_transcript_exon_variant,,ENST00000580713,;TOP3A,non_coding_transcript_exon_variant,,ENST00000583328,;TOP3A,non_coding_transcript_exon_variant,,ENST00000472959,;RPL21P121,downstream_gene_variant,,ENST00000439258,;RPL7AP65,downstream_gene_variant,,ENST00000418183,;	C	ENSG00000177302	ENST00000321105	Transcript	missense_variant	368	153	51	D/E	gaC/gaG	COSM1302478	.	.	-1	TOP3A	HGNC	11992	protein_coding	YES	CCDS11194.1	ENSP00000321636	TOP3A_HUMAN	B4DSJ0_HUMAN,A8K398_HUMAN	UPI00001371A0	.	tolerated(0.74)	benign(0.02)	1/19	.	PROSITE_profiles:PS50880,hmmpanther:PTHR11390,hmmpanther:PTHR11390:SF23,Pfam_domain:PF01751,Gene3D:3.40.50.140,SMART_domains:SM00493,Superfamily_domains:SSF56712	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCAGGTCGGC	.	5	BLCA
RNF112	0	.	GRCh37	17	19316617	19316617	+	Silent	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613A>C	p.%3D	p.R205R	ENST00000461366	5/14	73	50	23	53	52	1	RNF112,synonymous_variant,p.%3D,ENST00000461366,;RNF112,downstream_gene_variant,,ENST00000575165,;CTB-187M2.2,upstream_gene_variant,,ENST00000579897,;RNF112,non_coding_transcript_exon_variant,,ENST00000580109,;RNF112,non_coding_transcript_exon_variant,,ENST00000574149,;RNF112,upstream_gene_variant,,ENST00000574782,;	C	ENSG00000128482	ENST00000461366	Transcript	synonymous_variant	828	613	205	R	Aga/Cga	COSM1302484	.	.	1	RNF112	HGNC	12968	protein_coding	YES	CCDS58529.1	ENSP00000454919	RN112_HUMAN	J3QRB8_HUMAN	UPI00001B0607	.	.	.	5/14	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51715,hmmpanther:PTHR10751:SF1,hmmpanther:PTHR10751,Gene3D:3.40.50.300,Pfam_domain:PF02263,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCAAGAGGA	.	5	BLCA
SLC47A2	0	.	GRCh37	17	19618059	19618059	+	Missense_Mutation	SNP	G	G	A	rs766288733	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269C>T	p.Ser90Leu	p.S90L	ENST00000325411	3/17	318	249	68	257	257	0	SLC47A2,missense_variant,p.Ser90Leu,ENST00000350657,;SLC47A2,missense_variant,p.Ser90Leu,ENST00000433844,;SLC47A2,missense_variant,p.Ser90Leu,ENST00000325411,;RP11-311F12.1,upstream_gene_variant,,ENST00000577087,;SLC47A2,non_coding_transcript_exon_variant,,ENST00000463318,;SLC47A2,missense_variant,p.Ser90Leu,ENST00000574239,;SLC47A2,non_coding_transcript_exon_variant,,ENST00000467379,;SLC47A2,non_coding_transcript_exon_variant,,ENST00000574220,;SLC47A2,non_coding_transcript_exon_variant,,ENST00000467609,;SLC47A2,non_coding_transcript_exon_variant,,ENST00000483510,;SLC47A2,downstream_gene_variant,,ENST00000456947,;	A	ENSG00000180638	ENST00000325411	Transcript	missense_variant	320	269	90	S/L	tCg/tTg	rs766288733,COSM1302490,COSM1302491	.	.	-1	SLC47A2	HGNC	26439	protein_coding	YES	CCDS11211.1	ENSP00000326671	S47A2_HUMAN	.	UPI0000190813	.	tolerated(0.07)	benign(0.297)	3/17	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11206,hmmpanther:PTHR11206:SF81,Pfam_domain:PF01554	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCCGAAGAC	.	4	BLCA
SGSM2	0	.	GRCh37	17	2264993	2264993	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>C	p.Asp66His	p.D66H	ENST00000268989	3/24	79	65	14	53	53	0	SGSM2,missense_variant,p.Asp66His,ENST00000268989,;SGSM2,missense_variant,p.Asp66His,ENST00000426855,;SGSM2,missense_variant,p.Asp66His,ENST00000574563,;SGSM2,upstream_gene_variant,,ENST00000570431,;SGSM2,upstream_gene_variant,,ENST00000574650,;SGSM2,missense_variant,p.Asp66His,ENST00000573062,;SGSM2,3_prime_UTR_variant,,ENST00000572875,;SGSM2,upstream_gene_variant,,ENST00000575367,;SGSM2,upstream_gene_variant,,ENST00000574857,;	C	ENSG00000141258	ENST00000268989	Transcript	missense_variant	373	196	66	D/H	Gac/Cac	COSM1302518	.	.	1	SGSM2	HGNC	29026	protein_coding	YES	CCDS32526.1	ENSP00000268989	SGSM2_HUMAN	I3L1Y7_HUMAN	UPI0000160300	.	deleterious(0.01)	benign(0.209)	3/24	.	PROSITE_profiles:PS50826,Pfam_domain:PF02759,Superfamily_domains:0052343	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGTGACAAG	.	5	BLCA
SLC46A1	0	.	GRCh37	17	26732963	26732963	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170A>C	p.Tyr57Ser	p.Y57S	ENST00000440501	1/6	23	20	3	23	23	0	SLC46A1,missense_variant,p.Tyr57Ser,ENST00000440501,;SLC46A1,missense_variant,p.Tyr57Ser,ENST00000321666,;SLC46A1,5_prime_UTR_variant,,ENST00000581516,;SLC46A1,5_prime_UTR_variant,,ENST00000584995,;SLC46A1,intron_variant,,ENST00000584426,;SARM1,downstream_gene_variant,,ENST00000457710,;SLC46A1,upstream_gene_variant,,ENST00000582735,;CTD-2350C19.2,intron_variant,,ENST00000580714,;CTD-2350C19.1,downstream_gene_variant,,ENST00000583956,;SLC46A1,non_coding_transcript_exon_variant,,ENST00000584729,;SLC46A1,non_coding_transcript_exon_variant,,ENST00000583295,;SLC46A1,upstream_gene_variant,,ENST00000578217,;SLC46A1,non_coding_transcript_exon_variant,,ENST00000582590,;SLC46A1,upstream_gene_variant,,ENST00000582345,;	G	ENSG00000076351	ENST00000440501	Transcript	missense_variant	266	170	57	Y/S	tAc/tCc	COSM1302537	.	.	-1	SLC46A1	HGNC	30521	protein_coding	YES	.	ENSP00000395653	PCFT_HUMAN	K7EPJ7_HUMAN,J3QRF7_HUMAN,J3KTE6_HUMAN	UPI0000050394	.	deleterious(0.02)	possibly_damaging(0.745)	1/6	.	PROSITE_profiles:PS50850,hmmpanther:PTHR23038,hmmpanther:PTHR23038:SF43,Gene3D:1.20.1250.20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATTGTAGCCG	.	2	BLCA
TRAF4	0	.	GRCh37	17	27076071	27076071	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.889C>T	p.Arg297Ter	p.R297*	ENST00000262395	7/7	103	67	35	81	81	0	TRAF4,stop_gained,p.Arg297Ter,ENST00000262395,;TRAF4,stop_gained,p.Arg297Ter,ENST00000444415,;TRAF4,intron_variant,,ENST00000262396,;TRAF4,downstream_gene_variant,,ENST00000473421,;TRAF4,downstream_gene_variant,,ENST00000584944,;TRAF4,downstream_gene_variant,,ENST00000422344,;AC010761.9,upstream_gene_variant,,ENST00000577325,;AC010761.10,downstream_gene_variant,,ENST00000579468,;TRAF4,downstream_gene_variant,,ENST00000469529,;TRAF4,downstream_gene_variant,,ENST00000478021,;TRAF4,downstream_gene_variant,,ENST00000475329,;TRAF4,downstream_gene_variant,,ENST00000498540,;TRAF4,downstream_gene_variant,,ENST00000580073,;TRAF4,downstream_gene_variant,,ENST00000578917,;TRAF4,downstream_gene_variant,,ENST00000394925,;TRAF4,downstream_gene_variant,,ENST00000586813,;TRAF4,downstream_gene_variant,,ENST00000461195,;TRAF4,downstream_gene_variant,,ENST00000454852,;	T	ENSG00000076604	ENST00000262395	Transcript	stop_gained	1018	889	297	R/*	Cga/Tga	COSM1302569	.	.	1	TRAF4	HGNC	12034	protein_coding	YES	CCDS11243.1	ENSP00000262395	TRAF4_HUMAN	K7ER49_HUMAN,K7EJG7_HUMAN	UPI000006D8C8	.	.	.	7/7	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10131:SF71,hmmpanther:PTHR10131,PIRSF_domain:PIRSF015614,Superfamily_domains:SSF49599	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCGGCGAGAG	.	5	BLCA
NSRP1	0	.	GRCh37	17	28506137	28506137	+	Silent	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330A>G	p.%3D	p.A110A	ENST00000247026	5/7	31	22	8	17	17	0	NSRP1,synonymous_variant,p.%3D,ENST00000247026,;NSRP1,synonymous_variant,p.%3D,ENST00000580103,;NSRP1,synonymous_variant,p.%3D,ENST00000585881,;NSRP1,synonymous_variant,p.%3D,ENST00000588614,;NSRP1,non_coding_transcript_exon_variant,,ENST00000581048,;NSRP1,non_coding_transcript_exon_variant,,ENST00000540900,;NSRP1,non_coding_transcript_exon_variant,,ENST00000577289,;NSRP1,3_prime_UTR_variant,,ENST00000584154,;NSRP1,3_prime_UTR_variant,,ENST00000475652,;NSRP1,3_prime_UTR_variant,,ENST00000394826,;NSRP1,3_prime_UTR_variant,,ENST00000584317,;NSRP1,downstream_gene_variant,,ENST00000589608,;	G	ENSG00000126653	ENST00000247026	Transcript	synonymous_variant	393	330	110	A	gcA/gcG	COSM1302597	.	.	1	NSRP1	HGNC	25305	protein_coding	YES	CCDS11255.1	ENSP00000247026	NSRP1_HUMAN	K7ERM9_HUMAN,K7EMD8_HUMAN,K7EK40_HUMAN	UPI000006E653	.	.	.	5/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31938,Pfam_domain:PF09745	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGCAGTTGA	.	5	BLCA
ATAD5	0	.	GRCh37	17	29220513	29220513	+	Frame_Shift_Del	DEL	G	G	-	rs759289560	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4642delG	p.Ala1548LeufsTer11	p.A1548Lfs*11	ENST00000321990	21/23	133	109	24	82	82	0	ATAD5,frameshift_variant,p.Ala1548LeufsTer11,ENST00000321990,;TEFM,downstream_gene_variant,,ENST00000579183,;	-	ENSG00000176208	ENST00000321990	Transcript	frameshift_variant	5020	4642	1548	A/X	Gct/ct	rs759289560	.	.	1	ATAD5	HGNC	25752	protein_coding	YES	CCDS11260.1	ENSP00000313171	ATAD5_HUMAN	.	UPI0000071E9E	.	.	.	21/23	.	hmmpanther:PTHR15828:SF1,hmmpanther:PTHR15828	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGTCTTGCTAGG	.	3	BLCA
RHBDL3	0	.	GRCh37	17	30632423	30632423	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.845A>G	p.Tyr282Cys	p.Y282C	ENST00000269051	7/9	147	108	38	119	119	0	RHBDL3,missense_variant,p.Tyr184Cys,ENST00000536287,;RHBDL3,missense_variant,p.Tyr274Cys,ENST00000538145,;RHBDL3,missense_variant,p.Tyr282Cys,ENST00000269051,;RHBDL3,intron_variant,,ENST00000431505,;RHBDL3,3_prime_UTR_variant,,ENST00000578006,;RHBDL3,non_coding_transcript_exon_variant,,ENST00000582967,;	G	ENSG00000141314	ENST00000269051	Transcript	missense_variant	859	845	282	Y/C	tAt/tGt	COSM1302631	.	.	1	RHBDL3	HGNC	16502	protein_coding	YES	CCDS32613.1	ENSP00000269051	RHBL3_HUMAN	Q495Y4_HUMAN	UPI0000133858	.	deleterious(0)	probably_damaging(0.998)	7/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22936:SF14,hmmpanther:PTHR22936,Pfam_domain:PF01694,Gene3D:2xovA00,PIRSF_domain:PIRSF037470,Superfamily_domains:SSF144091	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTATGCTC	.	5	BLCA
MMP28	0	.	GRCh37	17	34105915	34105915	+	Missense_Mutation	SNP	C	C	A	rs368472692	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356G>T	p.Arg119Leu	p.R119L	ENST00000250144	3/3	155	116	39	128	127	1	MMP28,missense_variant,p.Arg97Leu,ENST00000593125,;MMP28,missense_variant,p.Arg119Leu,ENST00000250144,;MMP28,missense_variant,p.Arg119Leu,ENST00000587639,;MMP28,missense_variant,p.Arg119Leu,ENST00000590643,;MMP28,missense_variant,p.Arg119Leu,ENST00000589061,;MMP28,missense_variant,p.Arg119Leu,ENST00000589103,;MMP28,3_prime_UTR_variant,,ENST00000587923,;	A	ENSG00000129270	ENST00000250144	Transcript	missense_variant	686	356	119	R/L	cGt/cTt	rs368472692,COSM1302676	.	.	-1	MMP28	HGNC	14366	protein_coding	YES	CCDS45651.1	ENSP00000250144	MMP28_HUMAN	.	UPI0000071063	.	deleterious(0.04)	possibly_damaging(0.829)	3/3	.	hmmpanther:PTHR10201,hmmpanther:PTHR10201:SF16	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTACGCCTC	byFrequency|byCluster	5	BLCA
CCL14	0	.	GRCh37	17	34310878	34310878	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289A>G	p.Lys97Glu	p.K97E	ENST00000536149	8/8	148	113	34	138	137	1	CCL14,missense_variant,p.Lys103Glu,ENST00000480944,;CCL14,missense_variant,p.Lys81Glu,ENST00000394509,;CCL14,missense_variant,p.Lys97Glu,ENST00000435911,;CCL14,missense_variant,p.Lys97Glu,ENST00000536149,;CCL14,3_prime_UTR_variant,,ENST00000586216,;CCL16,upstream_gene_variant,,ENST00000293275,;CTB-186H2.3,upstream_gene_variant,,ENST00000591669,;CTB-186H2.3,intron_variant,,ENST00000593057,;CCL15-CCL14,3_prime_UTR_variant,,ENST00000481427,;CCL15-CCL14,3_prime_UTR_variant,,ENST00000495214,;CCL16,upstream_gene_variant,,ENST00000586567,;	C	ENSG00000213494	ENST00000536149	Transcript	missense_variant	1301	289	97	K/E	Aag/Gag	COSM1302679	.	.	-1	CCL14	HGNC	10612	protein_coding	YES	CCDS45652.1	ENSP00000441771	CCL14_HUMAN	.	UPI000002B47E	.	tolerated(0.64)	benign(0.002)	8/8	.	Superfamily_domains:SSF54117,SMART_domains:SM00199,Pfam_domain:PF00048,Gene3D:2.40.50.40,hmmpanther:PTHR12015:SF75,hmmpanther:PTHR12015	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTTGTCAC	.	5	BLCA
CDC6	0	.	GRCh37	17	38458227	38458227	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1657A>G	p.Asn553Asp	p.N553D	ENST00000209728	12/12	189	137	52	107	107	0	CDC6,missense_variant,p.Asn553Asp,ENST00000209728,;CTD-2267D19.6,upstream_gene_variant,,ENST00000602403,;	G	ENSG00000094804	ENST00000209728	Transcript	missense_variant	2128	1657	553	N/D	Aat/Gat	COSM1302767	.	.	1	CDC6	HGNC	1744	protein_coding	YES	CCDS11365.1	ENSP00000209728	CDC6_HUMAN	J3QR52_HUMAN,J3QLN7_HUMAN,J3KTI7_HUMAN	UPI0000073C6C	.	deleterious(0.01)	benign(0.062)	12/12	.	Superfamily_domains:SSF46785,PIRSF_domain:PIRSF001767,Gene3D:1.10.10.10,hmmpanther:PTHR10763,hmmpanther:PTHR10763:SF23	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGAAATATC	.	5	BLCA
TOP2A	0	.	GRCh37	17	38564250	38564251	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1468dupA	p.Ile490AsnfsTer10	p.I490Nfs*10	ENST00000423485	12/35	301	239	62	116	116	0	TOP2A,frameshift_variant,p.Ile490AsnfsTer10,ENST00000423485,;	T	ENSG00000131747	ENST00000423485	Transcript	frameshift_variant	1627-1628	1468-1469	490	I/NX	ata/aAta	.	.	.	-1	TOP2A	HGNC	11989	protein_coding	YES	CCDS45672.1	ENSP00000411532	TOP2A_HUMAN	J3QR57_HUMAN,J3KTB7_HUMAN	UPI0000137195	.	.	.	12/35	.	PROSITE_profiles:PS50880,hmmpanther:PTHR10169:SF33,hmmpanther:PTHR10169,Pfam_domain:PF01751,Gene3D:3.40.50.670,SMART_domains:SM00433,Superfamily_domains:SSF56719	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGAGTATTTTT	.	3	BLCA
TOP2A	0	.	GRCh37	17	38567656	38567656	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015G>A	p.Asp339Asn	p.D339N	ENST00000423485	9/35	379	315	64	195	194	1	TOP2A,missense_variant,p.Asp339Asn,ENST00000423485,;TOP2A,downstream_gene_variant,,ENST00000581055,;	T	ENSG00000131747	ENST00000423485	Transcript	missense_variant	1174	1015	339	D/N	Gat/Aat	COSM1302771	.	.	-1	TOP2A	HGNC	11989	protein_coding	YES	CCDS45672.1	ENSP00000411532	TOP2A_HUMAN	J3QR57_HUMAN,J3KTB7_HUMAN	UPI0000137195	.	tolerated(0.11)	benign(0.107)	9/35	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10169:SF33,hmmpanther:PTHR10169,Pfam_domain:PF00204,Gene3D:3.30.230.10,SMART_domains:SM00433,Superfamily_domains:SSF54211	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATCAACAA	.	4	BLCA
JUP	0	.	GRCh37	17	39925391	39925391	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537G>A	p.%3D	p.L179L	ENST00000393931	4/14	61	45	16	34	34	0	JUP,synonymous_variant,p.%3D,ENST00000437187,;JUP,synonymous_variant,p.%3D,ENST00000393931,;JUP,synonymous_variant,p.%3D,ENST00000424457,;JUP,synonymous_variant,p.%3D,ENST00000420370,;JUP,synonymous_variant,p.%3D,ENST00000540235,;JUP,synonymous_variant,p.%3D,ENST00000310706,;JUP,synonymous_variant,p.%3D,ENST00000449889,;JUP,synonymous_variant,p.%3D,ENST00000393930,;JUP,downstream_gene_variant,,ENST00000437369,;JUP,downstream_gene_variant,,ENST00000591690,;JUP,downstream_gene_variant,,ENST00000465293,;JUP,downstream_gene_variant,,ENST00000589036,;	T	ENSG00000173801	ENST00000393931	Transcript	synonymous_variant	656	537	179	L	ctG/ctA	COSM1302820	.	.	-1	JUP	HGNC	6207	protein_coding	YES	CCDS11407.1	ENSP00000377508	PLAK_HUMAN	Q7KZ86_HUMAN,K7ERP3_HUMAN,C9JTX4_HUMAN,C9JPI2_HUMAN,C9JKY1_HUMAN,C9JK18_HUMAN,C9J826_HUMAN	UPI0000073ED4	.	.	.	4/14	.	Prints_domain:PR01869,Superfamily_domains:SSF48371,SMART_domains:SM00185,Pfam_domain:PF13646,Gene3D:1.25.10.10,hmmpanther:PTHR23315:SF12,hmmpanther:PTHR23315,PROSITE_profiles:PS50176	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCAGGGC	.	5	BLCA
ACLY	0	.	GRCh37	17	40025748	40025748	+	Silent	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3030A>T	p.%3D	p.V1010V	ENST00000352035	26/29	168	118	50	115	115	0	ACLY,synonymous_variant,p.%3D,ENST00000353196,;ACLY,synonymous_variant,p.%3D,ENST00000590151,;ACLY,synonymous_variant,p.%3D,ENST00000352035,;ACLY,synonymous_variant,p.%3D,ENST00000537919,;ACLY,synonymous_variant,p.%3D,ENST00000393896,;KLHL11,upstream_gene_variant,,ENST00000319121,;ACLY,non_coding_transcript_exon_variant,,ENST00000588779,;	A	ENSG00000131473	ENST00000352035	Transcript	synonymous_variant	3161	3030	1010	V	gtA/gtT	COSM1302826	.	.	-1	ACLY	HGNC	115	protein_coding	YES	CCDS11412.1	ENSP00000253792	ACLY_HUMAN	Q4LE36_HUMAN,K7ESG8_HUMAN,K7EIE7_HUMAN	UPI000013CDF3	.	.	.	26/29	.	Superfamily_domains:SSF48256,PIRSF_domain:PIRSF036511,Pfam_domain:PF00285,Gene3D:1.10.230.10,hmmpanther:PTHR23118	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCTACTTC	.	5	BLCA
WNK4	0	.	GRCh37	17	40947024	40947024	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2585C>T	p.Pro862Leu	p.P862L	ENST00000246914	14/19	180	126	54	173	173	0	WNK4,missense_variant,p.Pro862Leu,ENST00000246914,;WNK4,intron_variant,,ENST00000587745,;CNTD1,upstream_gene_variant,,ENST00000585355,;COA3,downstream_gene_variant,,ENST00000328434,;CNTD1,upstream_gene_variant,,ENST00000588527,;CNTD1,upstream_gene_variant,,ENST00000588408,;CNTD1,upstream_gene_variant,,ENST00000591559,;WNK4,3_prime_UTR_variant,,ENST00000591448,;CNTD1,upstream_gene_variant,,ENST00000592166,;WNK4,downstream_gene_variant,,ENST00000592072,;COA3,downstream_gene_variant,,ENST00000586680,;	T	ENSG00000126562	ENST00000246914	Transcript	missense_variant	2606	2585	862	P/L	cCa/cTa	COSM1302859,COSM1302858	.	.	1	WNK4	HGNC	14544	protein_coding	YES	CCDS11439.1	ENSP00000246914	WNK4_HUMAN	B0LPI0_HUMAN	UPI000006FC0F	.	tolerated(0.13)	unknown(0)	14/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13902:SF52,hmmpanther:PTHR13902,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTCCACTTC	.	5	BLCA
EFCAB13	0	.	GRCh37	17	45455230	45455230	+	Missense_Mutation	SNP	G	G	A	rs747166897	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1471G>A	p.Glu491Lys	p.E491K	ENST00000331493	13/25	96	73	23	48	48	0	EFCAB13,missense_variant,p.Glu17Lys,ENST00000523842,;EFCAB13,missense_variant,p.Glu395Lys,ENST00000517484,;EFCAB13,missense_variant,p.Glu491Lys,ENST00000331493,;EFCAB13,downstream_gene_variant,,ENST00000517310,;EFCAB13,downstream_gene_variant,,ENST00000523978,;EFCAB13,non_coding_transcript_exon_variant,,ENST00000522326,;EFCAB13,non_coding_transcript_exon_variant,,ENST00000520776,;	A	ENSG00000178852	ENST00000331493	Transcript	missense_variant	1882	1471	491	E/K	Gaa/Aaa	rs747166897,COSM1302946	.	.	1	EFCAB13	HGNC	26864	protein_coding	YES	CCDS11512.1	ENSP00000332111	EFC13_HUMAN	E5RI18_HUMAN,E5RFW6_HUMAN	UPI00001AFEA2	.	tolerated(1)	benign(0.001)	13/25	.	hmmpanther:PTHR22656,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGATGAAGAA	.	5	BLCA
MED11	0	.	GRCh37	17	4636488	4636488	+	3'UTR	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6G>A	.	.	ENST00000293777	3/3	31	16	15	28	28	0	MED11,3_prime_UTR_variant,,ENST00000575284,;MED11,3_prime_UTR_variant,,ENST00000293777,;CXCL16,downstream_gene_variant,,ENST00000574412,;CXCL16,downstream_gene_variant,,ENST00000573123,;MED11,downstream_gene_variant,,ENST00000573708,;CXCL16,downstream_gene_variant,,ENST00000293778,;RP11-314A20.5,upstream_gene_variant,,ENST00000570493,;CXCL16,downstream_gene_variant,,ENST00000576153,;CXCL16,downstream_gene_variant,,ENST00000575168,;	A	ENSG00000161920	ENST00000293777	Transcript	3_prime_UTR_variant	416	.	.	.	.	.	.	.	1	MED11	HGNC	32687	protein_coding	YES	CCDS32533.1	ENSP00000293777	MED11_HUMAN	.	UPI00001C1FD1	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAGGGAGAT	.	5	BLCA
SPATA20	0	.	GRCh37	17	48628506	48628506	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1531C>T	p.Arg511Trp	p.R511W	ENST00000006658	12/17	30	25	5	14	14	0	SPATA20,missense_variant,p.Arg495Trp,ENST00000356488,;SPATA20,missense_variant,p.Arg511Trp,ENST00000006658,;SPATA20,missense_variant,p.Arg451Trp,ENST00000393244,;SPATA20,non_coding_transcript_exon_variant,,ENST00000511937,;SPATA20,3_prime_UTR_variant,,ENST00000504334,;SPATA20,3_prime_UTR_variant,,ENST00000503127,;SPATA20,non_coding_transcript_exon_variant,,ENST00000504271,;SPATA20,non_coding_transcript_exon_variant,,ENST00000504265,;SPATA20,non_coding_transcript_exon_variant,,ENST00000503063,;SPATA20,non_coding_transcript_exon_variant,,ENST00000515619,;SPATA20,intron_variant,,ENST00000508528,;SPATA20,downstream_gene_variant,,ENST00000512416,;SPATA20,downstream_gene_variant,,ENST00000510917,;SPATA20,downstream_gene_variant,,ENST00000508598,;SPATA20,downstream_gene_variant,,ENST00000502911,;SPATA20,downstream_gene_variant,,ENST00000505559,;SPATA20,downstream_gene_variant,,ENST00000513618,;SPATA20,downstream_gene_variant,,ENST00000511347,;SPATA20,downstream_gene_variant,,ENST00000505656,;SPATA20,downstream_gene_variant,,ENST00000511605,;SPATA20,downstream_gene_variant,,ENST00000505456,;SPATA20,downstream_gene_variant,,ENST00000515526,;SPATA20,downstream_gene_variant,,ENST00000505085,;SPATA20,downstream_gene_variant,,ENST00000505336,;SPATA20,downstream_gene_variant,,ENST00000511845,;SPATA20,downstream_gene_variant,,ENST00000512181,;	T	ENSG00000006282	ENST00000006658	Transcript	missense_variant	1651	1531	511	R/W	Cgg/Tgg	COSM1303007	.	.	1	SPATA20	HGNC	26125	protein_coding	YES	CCDS11571.1	ENSP00000006658	SPT20_HUMAN	.	UPI000006CE23	.	deleterious(0)	probably_damaging(1)	12/17	.	Superfamily_domains:SSF48208,PIRSF_domain:PIRSF006402,Gene3D:1.50.10.10,hmmpanther:PTHR12145:SF11,hmmpanther:PTHR12145	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P512P|c.1536C>A|4	RADIA|MUTECT|MUSE|VARSCANS	AGCATCGGCCC	.	4	BLCA
SRSF1	0	.	GRCh37	17	56082801	56082801	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.713C>T	p.Ser238Phe	p.S238F	ENST00000258962	4/4	258	195	62	178	177	1	SRSF1,missense_variant,p.Ser238Phe,ENST00000258962,;SRSF1,missense_variant,p.Ser238Phe,ENST00000584773,;SRSF1,3_prime_UTR_variant,,ENST00000582730,;SRSF1,intron_variant,,ENST00000585096,;RP11-159D12.5,upstream_gene_variant,,ENST00000578794,;SRSF1,upstream_gene_variant,,ENST00000581497,;SRSF1,missense_variant,p.Ser133Phe,ENST00000584668,;SRSF1,3_prime_UTR_variant,,ENST00000581979,;SRSF1,3_prime_UTR_variant,,ENST00000583741,;SRSF1,downstream_gene_variant,,ENST00000578430,;	A	ENSG00000136450	ENST00000258962	Transcript	missense_variant	922	713	238	S/F	tCt/tTt	COSM1303098	.	.	-1	SRSF1	HGNC	10780	protein_coding	YES	CCDS11600.1	ENSP00000258962	SRSF1_HUMAN	J3QQV5_HUMAN	UPI0000001220	.	tolerated(0.11)	benign(0.184)	4/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF87	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGAGAATAG	.	5	BLCA
CLTC	0	.	GRCh37	17	57763022	57763022	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4680A>C	p.Glu1560Asp	p.E1560D	ENST00000269122	30/32	157	117	40	120	120	0	CLTC,missense_variant,p.Glu497Asp,ENST00000579456,;CLTC,missense_variant,p.Glu1560Asp,ENST00000269122,;CLTC,missense_variant,p.Glu62Asp,ENST00000475458,;CLTC,missense_variant,p.Glu1560Asp,ENST00000393043,;CLTC,missense_variant,p.Glu109Asp,ENST00000472651,;PTRH2,intron_variant,,ENST00000587935,;CLTC,downstream_gene_variant,,ENST00000496076,;CLTC,upstream_gene_variant,,ENST00000498711,;	C	ENSG00000141367	ENST00000269122	Transcript	missense_variant	4954	4680	1560	E/D	gaA/gaC	COSM1303130	.	.	1	CLTC	HGNC	2092	protein_coding	YES	CCDS32696.1	ENSP00000269122	CLH1_HUMAN	Q49AL0_HUMAN	UPI0000127ABD	.	tolerated(0.6)	possibly_damaging(0.662)	30/32	.	PROSITE_profiles:PS50236,hmmpanther:PTHR10292:SF7,hmmpanther:PTHR10292,Gene3D:1.25.40.10,Pfam_domain:PF00637,PIRSF_domain:PIRSF002290,SMART_domains:SM00299	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGAAGAAAA	.	5	BLCA
INTS2	0	.	GRCh37	17	59999159	59999159	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486C>T	p.%3D	p.F162F	ENST00000444766	4/25	76	59	17	55	54	1	INTS2,synonymous_variant,p.%3D,ENST00000444766,;INTS2,synonymous_variant,p.%3D,ENST00000251334,;INTS2,downstream_gene_variant,,ENST00000583076,;	A	ENSG00000108506	ENST00000444766	Transcript	synonymous_variant	562	486	162	F	ttC/ttT	COSM3520456	.	.	-1	INTS2	HGNC	29241	protein_coding	YES	CCDS45750.1	ENSP00000414237	INT2_HUMAN	J3KRH0_HUMAN,J3KMZ7_HUMAN	UPI0000E5A03A	.	.	.	4/25	.	Low_complexity_(Seg):seg,Pfam_domain:PF14750	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTGAAAAA	.	5	BLCA
CSHL1	0	.	GRCh37	17	61987572	61987572	+	Missense_Mutation	SNP	C	C	T	rs752149521	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.421G>A	p.Asp141Asn	p.D141N	ENST00000309894	4/5	137	94	42	111	111	0	CSHL1,missense_variant,p.Asp79Asn,ENST00000259003,;CSHL1,missense_variant,p.Asp58Asn,ENST00000561003,;CSHL1,missense_variant,p.Asp47Asn,ENST00000450719,;CSHL1,missense_variant,p.Asp141Asn,ENST00000309894,;CSHL1,missense_variant,p.Asp47Asn,ENST00000346606,;CSHL1,missense_variant,p.Asp58Asn,ENST00000438387,;CSHL1,3_prime_UTR_variant,,ENST00000392824,;CSHL1,non_coding_transcript_exon_variant,,ENST00000558099,;CSHL1,non_coding_transcript_exon_variant,,ENST00000560999,;CSHL1,non_coding_transcript_exon_variant,,ENST00000558609,;	T	ENSG00000204414	ENST00000309894	Transcript	missense_variant	421	421	141	D/N	Gac/Aac	rs752149521,COSM1303185,COSM1303186	.	.	-1	CSHL1	HGNC	2442	protein_coding	YES	CCDS11652.1	ENSP00000309524	CSHL_HUMAN	I6L999_HUMAN	UPI00001602B9	.	deleterious(0.04)	probably_damaging(0.995)	4/5	.	hmmpanther:PTHR11417:SF32,hmmpanther:PTHR11417,Gene3D:1.20.1250.10,Pfam_domain:PF00103,Superfamily_domains:SSF47266	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.D141E|c.423C>A|4,CODON|p.D58E|c.174C>A|4,BUFFER|p.S56S|c.168C>T|4,BUFFER|p.S139S|c.417C>T|4	RADIA|MUTECT|MUSE	ATAGTCATCGC	.	3	BLCA
RGS9	0	.	GRCh37	17	63156668	63156668	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>A	p.Trp109Ter	p.W109*	ENST00000262406	5/19	64	47	17	64	64	0	RGS9,stop_gained,p.Trp109Ter,ENST00000262406,;RGS9,stop_gained,p.Trp109Ter,ENST00000443584,;RGS9,stop_gained,p.Trp109Ter,ENST00000449996,;RGS9,non_coding_transcript_exon_variant,,ENST00000577186,;RGS9,stop_gained,p.Trp109Ter,ENST00000584234,;RGS9,non_coding_transcript_exon_variant,,ENST00000581175,;RGS9,downstream_gene_variant,,ENST00000583473,;	A	ENSG00000108370	ENST00000262406	Transcript	stop_gained	394	327	109	W/*	tgG/tgA	COSM1303208	.	.	1	RGS9	HGNC	10004	protein_coding	YES	CCDS42373.1	ENSP00000262406	RGS9_HUMAN	.	UPI000013382A	.	.	.	5/19	.	hmmpanther:PTHR10845:SF20,hmmpanther:PTHR10845,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGGCCCAC	.	5	BLCA
C17orf58	0	.	GRCh37	17	65989269	65989269	+	5'UTR	SNP	C	C	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7G>C	.	.	ENST00000449250	2/3	55	41	13	34	34	0	C17orf58,5_prime_UTR_variant,,ENST00000449250,;C17orf58,5_prime_UTR_variant,,ENST00000334461,;C17orf58,5_prime_UTR_variant,,ENST00000536693,;RP11-855A2.5,downstream_gene_variant,,ENST00000580729,;	G	ENSG00000186665	ENST00000449250	Transcript	5_prime_UTR_variant	184	.	.	.	.	.	.	.	-1	C17orf58	HGNC	27568	protein_coding	YES	CCDS45765.1	ENSP00000402020	CQ058_HUMAN	.	UPI0000160F31	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTACAGCCC	.	5	BLCA
ABCA5	0	.	GRCh37	17	67257837	67257837	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3368C>T	p.Ala1123Val	p.A1123V	ENST00000392676	25/39	40	29	10	20	20	0	ABCA5,missense_variant,p.Ala1123Val,ENST00000392676,;ABCA5,missense_variant,p.Ala1123Val,ENST00000588877,;ABCA5,missense_variant,p.Ala1124Val,ENST00000392677,;ABCA5,missense_variant,p.Ala89Val,ENST00000586811,;ABCA5,3_prime_UTR_variant,,ENST00000591234,;ABCA5,3_prime_UTR_variant,,ENST00000586995,;	A	ENSG00000154265	ENST00000392676	Transcript	missense_variant	3433	3368	1123	A/V	gCt/gTt	TMP_ESP_17_67257837_67257837,COSM1303266	.	.	-1	ABCA5	HGNC	35	protein_coding	YES	CCDS11685.1	ENSP00000376443	ABCA5_HUMAN	K7EQ50_HUMAN,K7EPM3_HUMAN,K7EMV2_HUMAN,K7EJW6_HUMAN	UPI000013DD9E	.	tolerated(0.56)	benign(0.006)	25/39	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR19229:SF100,hmmpanther:PTHR19229,Pfam_domain:PF12698	.	.	.	.	.	.	.	-:0.0002	-:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGCAATA	.	5	BLCA
TTYH2	0	.	GRCh37	17	72249233	72249233	+	Missense_Mutation	SNP	G	G	A	rs746612010	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1273G>A	p.Asp425Asn	p.D425N	ENST00000269346	12/14	269	190	78	211	211	0	TTYH2,missense_variant,p.Asp425Asn,ENST00000269346,;TTYH2,missense_variant,p.Asp104Asn,ENST00000441391,;TTYH2,missense_variant,p.Asp404Asn,ENST00000529107,;CTD-2514K5.4,downstream_gene_variant,,ENST00000583018,;TTYH2,downstream_gene_variant,,ENST00000534346,;TTYH2,3_prime_UTR_variant,,ENST00000526858,;TTYH2,non_coding_transcript_exon_variant,,ENST00000528152,;TTYH2,downstream_gene_variant,,ENST00000534039,;TTYH2,downstream_gene_variant,,ENST00000528128,;	A	ENSG00000141540	ENST00000269346	Transcript	missense_variant	1347	1273	425	D/N	Gat/Aat	rs746612010,COSM1303290	.	.	1	TTYH2	HGNC	13877	protein_coding	YES	CCDS32717.1	ENSP00000269346	TTYH2_HUMAN	.	UPI00002001AA	.	tolerated(0.11)	benign(0.073)	12/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12424:SF6,hmmpanther:PTHR12424,Pfam_domain:PF04906	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTACGATGAC	byFrequency	5	BLCA
DNAI2	0	.	GRCh37	17	72308171	72308171	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1524G>C	p.Lys508Asn	p.K508N	ENST00000446837	11/13	75	48	27	54	54	0	DNAI2,missense_variant,p.Lys365Asn,ENST00000307504,;DNAI2,missense_variant,p.Lys508Asn,ENST00000446837,;DNAI2,missense_variant,p.Lys496Asn,ENST00000582036,;DNAI2,missense_variant,p.Lys565Asn,ENST00000579490,;DNAI2,missense_variant,p.Lys508Asn,ENST00000311014,;AC103809.1,upstream_gene_variant,,ENST00000516976,;RP11-647F2.2,upstream_gene_variant,,ENST00000585167,;DNAI2,3_prime_UTR_variant,,ENST00000579055,;DNAI2,upstream_gene_variant,,ENST00000579312,;	C	ENSG00000171595	ENST00000446837	Transcript	missense_variant	1830	1524	508	K/N	aaG/aaC	COSM1303293	.	.	1	DNAI2	HGNC	18744	protein_coding	YES	CCDS11697.1	ENSP00000400252	DNAI2_HUMAN	.	UPI000013EC1D	.	deleterious(0)	probably_damaging(0.972)	11/13	.	hmmpanther:PTHR12442	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GAGAAGATCCT	.	4	BLCA
GRIN2C	0	.	GRCh37	17	72838777	72838777	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3499C>T	p.His1167Tyr	p.H1167Y	ENST00000293190	13/13	18	12	6	14	14	0	GRIN2C,missense_variant,p.His1167Tyr,ENST00000293190,;TMEM104,downstream_gene_variant,,ENST00000582330,;TMEM104,downstream_gene_variant,,ENST00000582773,;TMEM104,downstream_gene_variant,,ENST00000335464,;GRIN2C,downstream_gene_variant,,ENST00000347612,;TMEM104,downstream_gene_variant,,ENST00000417024,;TMEM104,downstream_gene_variant,,ENST00000584171,;GRIN2C,downstream_gene_variant,,ENST00000584176,;	A	ENSG00000161509	ENST00000293190	Transcript	missense_variant	3646	3499	1167	H/Y	Cac/Tac	COSM1303310,COSM1303309	.	.	-1	GRIN2C	HGNC	4587	protein_coding	YES	CCDS32724.1	ENSP00000293190	NMDE3_HUMAN	.	UPI00001AEBA4	.	deleterious_low_confidence(0.01)	benign(0.229)	13/13	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGTGAGGAC	.	5	BLCA
KIAA0195	0	.	GRCh37	17	73489996	73489996	+	Silent	SNP	C	C	T	rs780308812	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2406C>T	p.%3D	p.D802D	ENST00000314256	18/32	44	34	10	48	48	0	KIAA0195,synonymous_variant,p.%3D,ENST00000579208,;KIAA0195,synonymous_variant,p.%3D,ENST00000314256,;KIAA0195,synonymous_variant,p.%3D,ENST00000375248,;KIAA0195,downstream_gene_variant,,ENST00000580918,;KIAA0195,downstream_gene_variant,,ENST00000578853,;KIAA0195,upstream_gene_variant,,ENST00000577245,;KIAA0195,upstream_gene_variant,,ENST00000577247,;KIAA0195,downstream_gene_variant,,ENST00000581252,;KIAA0195,upstream_gene_variant,,ENST00000584694,;AC100787.1,upstream_gene_variant,,ENST00000579379,;KIAA0195,downstream_gene_variant,,ENST00000580416,;KIAA0195,downstream_gene_variant,,ENST00000583795,;KIAA0195,splice_region_variant,,ENST00000585105,;KIAA0195,splice_region_variant,,ENST00000581085,;KIAA0195,downstream_gene_variant,,ENST00000580849,;KIAA0195,upstream_gene_variant,,ENST00000579898,;KIAA0195,downstream_gene_variant,,ENST00000583071,;KIAA0195,downstream_gene_variant,,ENST00000583296,;KIAA0195,downstream_gene_variant,,ENST00000579241,;KIAA0195,upstream_gene_variant,,ENST00000581453,;KIAA0195,upstream_gene_variant,,ENST00000581723,;KIAA0195,downstream_gene_variant,,ENST00000580441,;KIAA0195,upstream_gene_variant,,ENST00000581867,;KIAA0195,downstream_gene_variant,,ENST00000578624,;KIAA0195,upstream_gene_variant,,ENST00000577194,;KIAA0195,downstream_gene_variant,,ENST00000582843,;	T	ENSG00000177728	ENST00000314256	Transcript	synonymous_variant	2800	2406	802	D	gaC/gaT	rs780308812,COSM1303343	.	.	1	KIAA0195	HGNC	28983	protein_coding	YES	CCDS32732.1	ENSP00000313885	K0195_HUMAN	J3QS17_HUMAN,J3QRT3_HUMAN,J3QLM7_HUMAN,J3KT63_HUMAN,J3KRU7_HUMAN	UPI0000139439	.	.	.	18/32	.	hmmpanther:PTHR13219:SF6,hmmpanther:PTHR13219	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGACGGTAC	.	2	BLCA
LLGL2	0	.	GRCh37	17	73559178	73559178	+	Silent	SNP	C	C	T	rs776205394	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.612C>T	p.%3D	p.I204I	ENST00000392550	7/26	65	37	27	62	61	1	LLGL2,synonymous_variant,p.%3D,ENST00000577200,;LLGL2,synonymous_variant,p.%3D,ENST00000167462,;LLGL2,synonymous_variant,p.%3D,ENST00000375227,;LLGL2,synonymous_variant,p.%3D,ENST00000392550,;LLGL2,synonymous_variant,p.%3D,ENST00000578363,;LLGL2,downstream_gene_variant,,ENST00000581713,;LLGL2,downstream_gene_variant,,ENST00000583658,;LLGL2,downstream_gene_variant,,ENST00000580578,;LLGL2,downstream_gene_variant,,ENST00000579392,;LLGL2,downstream_gene_variant,,ENST00000578536,;LLGL2,non_coding_transcript_exon_variant,,ENST00000545227,;LLGL2,non_coding_transcript_exon_variant,,ENST00000580027,;LLGL2,non_coding_transcript_exon_variant,,ENST00000582860,;LLGL2,upstream_gene_variant,,ENST00000578638,;LLGL2,upstream_gene_variant,,ENST00000577500,;	T	ENSG00000073350	ENST00000392550	Transcript	synonymous_variant	729	612	204	I	atC/atT	rs776205394,COSM460228,COSM1134493	.	.	1	LLGL2	HGNC	6629	protein_coding	YES	CCDS32733.1	ENSP00000376333	L2GL2_HUMAN	J3QSA6_HUMAN,J3QRZ8_HUMAN,J3QLV4_HUMAN,J3QL58_HUMAN,J3KRE1_HUMAN	UPI00005905A8	.	.	.	7/26	.	hmmpanther:PTHR10241:SF20,hmmpanther:PTHR10241,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CAGATCCTGAT	.	4	BLCA
LLGL2	0	.	GRCh37	17	73559467	73559467	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.749C>G	p.Ser250Cys	p.S250C	ENST00000392550	8/26	82	64	17	58	58	0	LLGL2,missense_variant,p.Ser250Cys,ENST00000577200,;LLGL2,missense_variant,p.Ser250Cys,ENST00000167462,;LLGL2,missense_variant,p.Ser250Cys,ENST00000375227,;LLGL2,missense_variant,p.Ser250Cys,ENST00000392550,;LLGL2,missense_variant,p.Ser250Cys,ENST00000578363,;LLGL2,downstream_gene_variant,,ENST00000581713,;LLGL2,downstream_gene_variant,,ENST00000583658,;LLGL2,downstream_gene_variant,,ENST00000580578,;LLGL2,downstream_gene_variant,,ENST00000579392,;LLGL2,downstream_gene_variant,,ENST00000578536,;LLGL2,non_coding_transcript_exon_variant,,ENST00000545227,;LLGL2,non_coding_transcript_exon_variant,,ENST00000580027,;LLGL2,upstream_gene_variant,,ENST00000578638,;LLGL2,upstream_gene_variant,,ENST00000577500,;LLGL2,downstream_gene_variant,,ENST00000582860,;	G	ENSG00000073350	ENST00000392550	Transcript	missense_variant	866	749	250	S/C	tCt/tGt	COSM1303346,COSM1303347	.	.	1	LLGL2	HGNC	6629	protein_coding	YES	CCDS32733.1	ENSP00000376333	L2GL2_HUMAN	J3QSA6_HUMAN,J3QRZ8_HUMAN,J3QLV4_HUMAN,J3QL58_HUMAN,J3KRE1_HUMAN	UPI00005905A8	.	deleterious(0.03)	benign(0.031)	8/26	.	hmmpanther:PTHR10241:SF20,hmmpanther:PTHR10241,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCTGACG	.	5	BLCA
EVPL	0	.	GRCh37	17	74003727	74003727	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5559C>T	p.%3D	p.I1853I	ENST00000301607	22/22	222	163	58	180	179	1	EVPL,synonymous_variant,p.%3D,ENST00000586740,;EVPL,synonymous_variant,p.%3D,ENST00000301607,;EVPL,upstream_gene_variant,,ENST00000589231,;CDK3,downstream_gene_variant,,ENST00000448471,;CDK3,downstream_gene_variant,,ENST00000425876,;CDK3,downstream_gene_variant,,ENST00000586261,;EVPL,non_coding_transcript_exon_variant,,ENST00000587569,;TEN1-CDK3,downstream_gene_variant,,ENST00000567351,;EVPL,downstream_gene_variant,,ENST00000593037,;TEN1-CDK3,downstream_gene_variant,,ENST00000569284,;	A	ENSG00000167880	ENST00000301607	Transcript	synonymous_variant	5813	5559	1853	I	atC/atT	COSM1303366	.	.	-1	EVPL	HGNC	3503	protein_coding	YES	CCDS11737.1	ENSP00000301607	EVPL_HUMAN	K7EQ87_HUMAN	UPI000013E730	.	.	.	22/22	.	hmmpanther:PTHR23169,hmmpanther:PTHR23169:SF7,Pfam_domain:PF00681,Gene3D:3.90.1290.10,SMART_domains:SM00250,Superfamily_domains:SSF75399	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGTGATGGG	.	5	BLCA
SRP68	0	.	GRCh37	17	74068493	74068493	+	Missense_Mutation	SNP	C	C	T	rs780614140	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80G>A	p.Ser27Asn	p.S27N	ENST00000307877	1/16	87	58	29	81	81	0	SRP68,missense_variant,p.Ser27Asn,ENST00000307877,;SRP68,missense_variant,p.Ser27Asn,ENST00000539137,;SRP68,5_prime_UTR_variant,,ENST00000355113,;GALR2,upstream_gene_variant,,ENST00000329003,;SRP68,missense_variant,p.Ser27Asn,ENST00000592704,;SRP68,missense_variant,p.Ser27Asn,ENST00000591272,;ZACN,intron_variant,,ENST00000591500,;	T	ENSG00000167881	ENST00000307877	Transcript	missense_variant	242	80	27	S/N	aGc/aAc	rs780614140,COSM1303371	.	.	-1	SRP68	HGNC	11302	protein_coding	YES	CCDS11738.1	ENSP00000312066	SRP68_HUMAN	Q96K97_HUMAN,F5H5Y3_HUMAN	UPI000006EAEC	.	tolerated_low_confidence(0.57)	benign(0.035)	1/16	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF038995	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCGCTACCG	.	5	BLCA
EXOC7	0	.	GRCh37	17	74085384	74085384	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1072G>T	p.Asp358Tyr	p.D358Y	ENST00000335146	9/20	54	34	20	59	59	0	EXOC7,missense_variant,p.Asp276Tyr,ENST00000332065,;EXOC7,missense_variant,p.Asp358Tyr,ENST00000335146,;EXOC7,missense_variant,p.Asp266Tyr,ENST00000467929,;EXOC7,missense_variant,p.Asp299Tyr,ENST00000411744,;EXOC7,missense_variant,p.Asp307Tyr,ENST00000589210,;EXOC7,missense_variant,p.Asp330Tyr,ENST00000405575,;EXOC7,missense_variant,p.Asp330Tyr,ENST00000607838,;EXOC7,missense_variant,p.Asp262Tyr,ENST00000357231,;EXOC7,non_coding_transcript_exon_variant,,ENST00000467586,;EXOC7,intron_variant,,ENST00000592559,;EXOC7,upstream_gene_variant,,ENST00000486053,;EXOC7,upstream_gene_variant,,ENST00000494787,;EXOC7,upstream_gene_variant,,ENST00000465252,;EXOC7,downstream_gene_variant,,ENST00000405068,;EXOC7,upstream_gene_variant,,ENST00000460476,;	A	ENSG00000182473	ENST00000335146	Transcript	missense_variant	1126	1072	358	D/Y	Gac/Tac	COSM1303374	.	.	-1	EXOC7	HGNC	23214	protein_coding	YES	CCDS45782.1	ENSP00000334100	EXOC7_HUMAN	C9JME6_HUMAN,C9JKC2_HUMAN	UPI00001AFC78	.	deleterious(0)	possibly_damaging(0.784)	9/20	.	Superfamily_domains:SSF74788,hmmpanther:PTHR12542:SF7,hmmpanther:PTHR12542	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGTCCAGCA	.	5	BLCA
TP53	0	.	GRCh37	17	7578406	7578406	+	Missense_Mutation	SNP	C	C	T	rs28934578	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.524G>A	p.Arg175His	p.R175H	ENST00000269305	5/11	94	39	54	73	72	1	TP53,missense_variant,p.Arg175His,ENST00000413465,;TP53,missense_variant,p.Arg175His,ENST00000420246,;TP53,missense_variant,p.Arg175His,ENST00000269305,;TP53,missense_variant,p.Arg43His,ENST00000509690,;TP53,missense_variant,p.Arg175His,ENST00000359597,;TP53,missense_variant,p.Arg82His,ENST00000514944,;TP53,missense_variant,p.Arg175His,ENST00000445888,;TP53,missense_variant,p.Arg175His,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,non_coding_transcript_exon_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	714	524	175	R/H	cGc/cAc	CM951224,rs28934578,CM062017,TP53_g.12512G>T,TP53_g.12512G>C,TP53_g.12512G>A,COSM10718,COSM10648,COSM45416,COSM99914,COSM1679508,COSM99022,COSM1679510,COSM99023,COSM1679512,COSM3355994,COSM1640851,COSM1679509,COSM99024,COSM1679511	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	tolerated(0.11)	benign(0.308)	5/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	pathogenic	0,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1	25105660,21264207,24929325,25404506	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R175H|c.524G>A|181,SITE|p.R43H|c.128G>A|183,SITE|p.R82H|c.245G>A|183,SITE|p.R175H|c.524G>A|124,SITE|p.R175H|c.524G>A|180,SITE|p.R175H|c.524G>A|926,SITE|p.R175H|c.524G>A|88,CODON|p.0?|c.1_1182del1182|6,CODON|p.R175L|c.524G>T|20,CODON|p.R175P|c.524G>C|6,CODON|p.R175L|c.524G>T|3,CODON|p.R175L|c.524G>T|3,CODON|p.R175L|c.524G>T|3,CODON|p.R43L|c.128G>T|3,CODON|p.R82L|c.245G>T|3,BUFFER|p.P177_C182delPHHERC|c.529_546del18|9,BUFFER|p.P177_C182delPHHERC|c.526_543del18|3,BUFFER|p.H179Y|c.534_535CC>TT|8,BUFFER|p.H179D|c.535C>G|12,BUFFER|p.H179Y|c.535C>T|4,BUFFER|p.H47Y|c.139C>T|15,BUFFER|p.H179Y|c.535C>T|5,BUFFER|p.H179Y|c.535C>T|88,BUFFER|p.H179N|c.535C>A|15,BUFFER|p.H179Y|c.535C>T|14,BUFFER|p.H179Y|c.535C>T|14,BUFFER|p.H86Y|c.256C>T|14,BUFFER|p.H178Q|c.534C>A|5,BUFFER|p.H178fs*69|c.532delC|10,BUFFER|p.H178P|c.533A>C|7,BUFFER|p.H178D|c.532C>G|5,BUFFER|p.H178N|c.532C>A|3,BUFFER|p.H178Y|c.532C>T|7,BUFFER|p.P177P|c.531C>T|7,BUFFER|p.P177R|c.530C>G|3,BUFFER|p.P177L|c.530C>T|20,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P177R|c.530C>G|18,BUFFER|p.P177R|c.530C>G|3,BUFFER|p.P84L|c.251C>T|4,BUFFER|p.P45L|c.134C>T|4,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P177L|c.530C>T|3,BUFFER|p.P45R|c.134C>G|3,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P84R|c.251C>G|3,BUFFER|p.H178fs*69|c.528delC|3,BUFFER|p.P177S|c.529C>T|10,BUFFER|p.C176*|c.528C>A|3,BUFFER|p.C44*|c.132C>A|3,BUFFER|p.C176*|c.528C>A|11,BUFFER|p.C176W|c.528C>G|12,BUFFER|p.C83*|c.249C>A|3,BUFFER|p.C176*|c.528C>A|3,BUFFER|p.C176fs*71|c.526delT|7,BUFFER|p.C176F|c.527G>T|33,BUFFER|p.C44Y|c.131G>A|20,BUFFER|p.C176F|c.527G>T|133,BUFFER|p.C176Y|c.527G>A|73,BUFFER|p.C176F|c.527G>T|11,BUFFER|p.C176Y|c.527G>A|19,BUFFER|p.C176F|c.527G>T|33,BUFFER|p.C83Y|c.248G>A|19,BUFFER|p.C176Y|c.527G>A|19,BUFFER|p.C176S|c.527G>C|9,BUFFER|p.C83F|c.248G>T|33,BUFFER|p.C176Y|c.527G>A|11,BUFFER|p.C176Y|c.527G>A|9,BUFFER|p.C44F|c.131G>T|34,BUFFER|p.C176F|c.527G>T|17,BUFFER|p.C83S|c.247T>A|3,BUFFER|p.C44R|c.130T>C|4,BUFFER|p.C83R|c.247T>C|4,BUFFER|p.C176G|c.526T>G|4,BUFFER|p.C176S|c.526T>A|3,BUFFER|p.C44G|c.130T>G|4,BUFFER|p.C44S|c.130T>A|3,BUFFER|p.C176S|c.526T>A|12,BUFFER|p.C176R|c.526T>C|4,BUFFER|p.C176S|c.526T>A|3,BUFFER|p.C83G|c.247T>G|4,BUFFER|p.C176G|c.526T>G|7,BUFFER|p.C176R|c.526T>C|4,BUFFER|p.C176G|c.526T>G|4,BUFFER|p.C176R|c.526T>C|13,BUFFER|p.C176fs*5|c.525_526insN|3,BUFFER|p.R175C|c.523C>T|18,BUFFER|p.R175S|c.523C>A|6,BUFFER|p.R82G|c.244C>G|5,BUFFER|p.R175C|c.523C>T|4,BUFFER|p.R43G|c.127C>G|8,BUFFER|p.R175G|c.523C>G|5,BUFFER|p.R43C|c.127C>T|4,BUFFER|p.R175G|c.523C>G|5,BUFFER|p.R82C|c.244C>T|4,BUFFER|p.R175G|c.523C>G|16,BUFFER|p.R175C|c.523C>T|4,BUFFER|p.R174K|c.521G>A|5,BUFFER|p.R174W|c.520A>T|11,BUFFER|p.V173V|c.519G>A|6,BUFFER|p.V173V|c.519G>T|3,BUFFER|p.V173A|c.518T>C|14,BUFFER|p.V173G|c.518T>G|8,BUFFER|p.V173E|c.518T>A|4,BUFFER|p.V41E|c.122T>A|3,BUFFER|p.V173E|c.518T>A|3,BUFFER|p.V80E|c.239T>A|3,BUFFER|p.V173E|c.518T>A|3,BUFFER|p.V173fs*1|c.517delG|4,BUFFER|p.V41L|c.121G>T|9,BUFFER|p.V80L|c.238G>T|9,BUFFER|p.V173M|c.517G>A|10,BUFFER|p.V80L|c.238G>C|5,BUFFER|p.V41M|c.121G>A|11,BUFFER|p.V173L|c.517G>C|5,BUFFER|p.V173M|c.517G>A|11,BUFFER|p.V173L|c.517G>C|15,BUFFER|p.V173L|c.517G>T|9,BUFFER|p.V173L|c.517G>C|5,BUFFER|p.V173M|c.517G>A|4,BUFFER|p.V80M|c.238G>A|11,BUFFER|p.V173L|c.517G>T|52,BUFFER|p.V173L|c.517G>T|9,BUFFER|p.V173M|c.517G>A|50,BUFFER|p.V41L|c.121G>C|5,BUFFER|p.V173M|c.517G>A|4,BUFFER|p.V172D|c.515T>A|11,BUFFER|p.V172A|c.515T>C|4,BUFFER|p.V172G|c.515T>G|4,BUFFER|p.V172fs*2|c.514delG|3,BUFFER|p.V79F|c.235G>T|5,BUFFER|p.V172F|c.514G>T|16,BUFFER|p.V172F|c.514G>T|4,BUFFER|p.V40F|c.118G>T|6,BUFFER|p.V172F|c.514G>T|5,BUFFER|p.V172F|c.514G>T|5,BUFFER|p.V172I|c.514G>A|8,BUFFER|p.V172F|c.514G>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAGCGCCTC	byCluster	5	BLCA
USP36	0	.	GRCh37	17	76817134	76817134	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.767C>A	p.Ser256Tyr	p.S256Y	ENST00000542802	8/21	10	3	7	15	15	0	USP36,missense_variant,p.Ser256Tyr,ENST00000542802,;USP36,missense_variant,p.Ser256Tyr,ENST00000312010,;USP36,missense_variant,p.Ser46Tyr,ENST00000586066,;USP36,5_prime_UTR_variant,,ENST00000449938,;USP36,downstream_gene_variant,,ENST00000589424,;USP36,upstream_gene_variant,,ENST00000588467,;USP36,missense_variant,p.Ser256Tyr,ENST00000589225,;USP36,missense_variant,p.Ser256Tyr,ENST00000588086,;USP36,non_coding_transcript_exon_variant,,ENST00000589254,;USP36,upstream_gene_variant,,ENST00000590312,;	T	ENSG00000055483	ENST00000542802	Transcript	missense_variant	1211	767	256	S/Y	tCc/tAc	COSM1303422,COSM1303421	.	.	-1	USP36	HGNC	20062	protein_coding	YES	CCDS32755.1	ENSP00000441214	UBP36_HUMAN	K7ERC1_HUMAN,K7EQS0_HUMAN,K7EPT1_HUMAN,K7ELT3_HUMAN,K7EJI3_HUMAN	UPI00000398BB	.	tolerated(0.08)	probably_damaging(0.978)	8/21	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF409,hmmpanther:PTHR24006,Gene3D:1nbfA02,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACACGGAGCAC	.	3	BLCA
CYB5D1	0	.	GRCh37	17	7761743	7761743	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.183C>T	p.%3D	p.I61I	ENST00000332439	2/4	62	33	29	68	67	1	CYB5D1,synonymous_variant,p.%3D,ENST00000332439,;CYB5D1,synonymous_variant,p.%3D,ENST00000571846,;CYB5D1,intron_variant,,ENST00000570446,;LSMD1,intron_variant,,ENST00000576861,;LSMD1,upstream_gene_variant,,ENST00000335155,;KDM6B,downstream_gene_variant,,ENST00000448097,;LSMD1,upstream_gene_variant,,ENST00000333775,;TMEM88,downstream_gene_variant,,ENST00000301599,;LSMD1,upstream_gene_variant,,ENST00000575071,;TMEM88,downstream_gene_variant,,ENST00000574668,;LSMD1,upstream_gene_variant,,ENST00000576384,;LSMD1,upstream_gene_variant,,ENST00000575208,;LSMD1,upstream_gene_variant,,ENST00000575771,;KDM6B,downstream_gene_variant,,ENST00000254846,;LSMD1,non_coding_transcript_exon_variant,,ENST00000570555,;CYB5D1,3_prime_UTR_variant,,ENST00000574196,;CYB5D1,non_coding_transcript_exon_variant,,ENST00000574357,;CYB5D1,non_coding_transcript_exon_variant,,ENST00000573940,;	T	ENSG00000182224	ENST00000332439	Transcript	synonymous_variant	335	183	61	I	atC/atT	COSM1303432	.	.	1	CYB5D1	HGNC	26516	protein_coding	YES	CCDS11123.1	ENSP00000331479	CB5D1_HUMAN	.	UPI0000036178	.	.	.	2/4	.	PROSITE_profiles:PS50255,hmmpanther:PTHR21281,Gene3D:3.10.120.10,Pfam_domain:PF00173,Superfamily_domains:SSF55856	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCGTGGA	.	5	BLCA
CBX2	0	.	GRCh37	17	77756006	77756006	+	Intron	SNP	C	C	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288+406C>G	.	.	ENST00000310942	.	27	22	5	29	29	0	CBX2,3_prime_UTR_variant,,ENST00000269399,;CBX2,intron_variant,,ENST00000310942,;CBX2,downstream_gene_variant,,ENST00000571484,;	G	ENSG00000173894	ENST00000310942	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CBX2	HGNC	1552	protein_coding	YES	CCDS32757.1	ENSP00000308750	CBX2_HUMAN	.	UPI000004C4E1	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACTCCGGGC	.	5	BLCA
CARD14	0	.	GRCh37	17	78166356	78166356	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294G>T	p.Val432Leu	p.V432L	ENST00000573882	11/23	100	75	25	75	73	1	CARD14,missense_variant,p.Val195Leu,ENST00000392434,;CARD14,missense_variant,p.Val432Leu,ENST00000570421,;CARD14,missense_variant,p.Val432Leu,ENST00000573882,;CARD14,missense_variant,p.Val432Leu,ENST00000344227,;CARD14,non_coding_transcript_exon_variant,,ENST00000573754,;CARD14,non_coding_transcript_exon_variant,,ENST00000574148,;CARD14,missense_variant,p.Gly409Val,ENST00000575500,;CARD14,missense_variant,p.Val229Leu,ENST00000571450,;CARD14,non_coding_transcript_exon_variant,,ENST00000571861,;CARD14,non_coding_transcript_exon_variant,,ENST00000575666,;CARD14,downstream_gene_variant,,ENST00000572838,;	T	ENSG00000141527	ENST00000573882	Transcript	missense_variant	1830	1294	432	V/L	Gtg/Ttg	COSM1303460,COSM1303461	.	.	1	CARD14	HGNC	16446	protein_coding	YES	CCDS11768.1	ENSP00000458715	CAR14_HUMAN	I3L4Q8_HUMAN,I3L1Z7_HUMAN	UPI000013D81B	.	tolerated(0.13)	benign(0.098)	11/23	.	hmmpanther:PTHR14559,hmmpanther:PTHR14559:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GGCTGGTGCGG	.	4	BLCA
CHMP6	0	.	GRCh37	17	78970862	78970862	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.404A>G	p.Glu135Gly	p.E135G	ENST00000325167	5/8	61	46	15	63	63	0	CHMP6,missense_variant,p.Glu114Gly,ENST00000572778,;CHMP6,missense_variant,p.Glu93Gly,ENST00000571457,;CHMP6,missense_variant,p.Glu135Gly,ENST00000325167,;CHMP6,missense_variant,p.Glu49Gly,ENST00000572525,;CTD-2561B21.7,downstream_gene_variant,,ENST00000577061,;CTD-2561B21.7,downstream_gene_variant,,ENST00000576215,;	G	ENSG00000176108	ENST00000325167	Transcript	missense_variant	482	404	135	E/G	gAg/gGg	COSM1303486	.	.	1	CHMP6	HGNC	25675	protein_coding	YES	CCDS11774.1	ENSP00000317468	CHMP6_HUMAN	I3L3E4_HUMAN	UPI000003E7D8	.	deleterious(0.01)	possibly_damaging(0.788)	5/8	.	hmmpanther:PTHR22761,Pfam_domain:PF03357	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTGGAGTACC	.	5	BLCA
HGS	0	.	GRCh37	17	79668080	79668080	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2142C>T	p.%3D	p.L714L	ENST00000329138	21/22	99	78	20	92	91	1	HGS,synonymous_variant,p.%3D,ENST00000575078,;HGS,synonymous_variant,p.%3D,ENST00000573320,;HGS,synonymous_variant,p.%3D,ENST00000329138,;SLC25A10,upstream_gene_variant,,ENST00000541223,;MRPL12,upstream_gene_variant,,ENST00000333676,;SLC25A10,upstream_gene_variant,,ENST00000571730,;HGS,downstream_gene_variant,,ENST00000571237,;RP13-1032I1.7,downstream_gene_variant,,ENST00000575312,;HGS,non_coding_transcript_exon_variant,,ENST00000570355,;HGS,intron_variant,,ENST00000573949,;HGS,downstream_gene_variant,,ENST00000571885,;HGS,downstream_gene_variant,,ENST00000571647,;HGS,upstream_gene_variant,,ENST00000570652,;	T	ENSG00000185359	ENST00000329138	Transcript	synonymous_variant	2277	2142	714	L	ctC/ctT	COSM1303515	.	.	1	HGS	HGNC	4897	protein_coding	YES	CCDS11784.1	ENSP00000331201	HGS_HUMAN	I3L2H4_HUMAN,I3L165_HUMAN	UPI000004493D	.	.	.	21/22	.	hmmpanther:PTHR13856,hmmpanther:PTHR13856:SF79,PIRSF_domain:PIRSF036956	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCTCATGAC	.	5	BLCA
NOTUM	0	.	GRCh37	17	79916822	79916822	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522C>T	p.%3D	p.N174N	ENST00000409678	4/11	95	67	28	87	87	0	NOTUM,synonymous_variant,p.%3D,ENST00000425009,;NOTUM,synonymous_variant,p.%3D,ENST00000409678,;NOTUM,synonymous_variant,p.%3D,ENST00000477214,;NOTUM,non_coding_transcript_exon_variant,,ENST00000489218,;	A	ENSG00000185269	ENST00000409678	Transcript	synonymous_variant	906	522	174	N	aaC/aaT	COSM1303526	.	.	-1	NOTUM	HGNC	27106	protein_coding	YES	CCDS32771.2	ENSP00000387310	NOTUM_HUMAN	K7EIG3_HUMAN,C9JYG8_HUMAN	UPI000004EE80	.	.	.	4/11	.	hmmpanther:PTHR21562:SF7,hmmpanther:PTHR21562,Pfam_domain:PF03283	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGCGTTCCA	.	5	BLCA
CEP192	0	.	GRCh37	18	13059227	13059227	+	Silent	SNP	G	G	C	rs542416869	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4404G>C	p.%3D	p.S1468S	ENST00000506447	21/45	165	117	48	136	136	0	CEP192,synonymous_variant,p.%3D,ENST00000325971,;CEP192,synonymous_variant,p.%3D,ENST00000589596,;CEP192,synonymous_variant,p.%3D,ENST00000506447,;CEP192,synonymous_variant,p.%3D,ENST00000430049,;CEP192,synonymous_variant,p.%3D,ENST00000511820,;CEP192,synonymous_variant,p.%3D,ENST00000510237,;CEP192,synonymous_variant,p.%3D,ENST00000589993,;CEP192,3_prime_UTR_variant,,ENST00000513432,;CEP192,downstream_gene_variant,,ENST00000585938,;	C	ENSG00000101639	ENST00000506447	Transcript	synonymous_variant	4484	4404	1468	S	tcG/tcC	rs542416869,COSM1303585,COSM1303584	.	.	1	CEP192	HGNC	25515	protein_coding	YES	CCDS32792.2	ENSP00000427550	.	E9PF99_HUMAN	UPI0001B09235	.	.	.	21/45	.	hmmpanther:PTHR16029:SF10,hmmpanther:PTHR16029	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTCGACAGA	by1000G	5	BLCA
CEP192	0	.	GRCh37	18	13069784	13069784	+	Silent	SNP	C	C	T	rs752135718	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5103C>T	p.%3D	p.L1701L	ENST00000506447	27/45	99	68	31	81	80	1	CEP192,synonymous_variant,p.%3D,ENST00000325971,;CEP192,synonymous_variant,p.%3D,ENST00000430049,;CEP192,synonymous_variant,p.%3D,ENST00000506447,;CEP192,synonymous_variant,p.%3D,ENST00000511820,;CEP192,non_coding_transcript_exon_variant,,ENST00000507254,;CEP192,upstream_gene_variant,,ENST00000540847,;CEP192,synonymous_variant,p.%3D,ENST00000510237,;CEP192,synonymous_variant,p.%3D,ENST00000589993,;CEP192,3_prime_UTR_variant,,ENST00000513432,;	T	ENSG00000101639	ENST00000506447	Transcript	synonymous_variant	5183	5103	1701	L	ctC/ctT	rs752135718,COSM1303587,COSM1303586	.	.	1	CEP192	HGNC	25515	protein_coding	YES	CCDS32792.2	ENSP00000427550	.	E9PF99_HUMAN	UPI0001B09235	.	.	.	27/45	.	hmmpanther:PTHR16029:SF10,hmmpanther:PTHR16029	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACTCCTTAA	.	5	BLCA
DSG2	0	.	GRCh37	18	29102165	29102165	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643A>C	p.Lys215Gln	p.K215Q	ENST00000261590	6/15	69	46	23	59	59	0	DSG2,missense_variant,p.Lys215Gln,ENST00000585206,;DSG2,missense_variant,p.Lys215Gln,ENST00000261590,;	C	ENSG00000046604	ENST00000261590	Transcript	missense_variant	852	643	215	K/Q	Aaa/Caa	COSM1303667	.	.	1	DSG2	HGNC	3049	protein_coding	YES	CCDS42423.1	ENSP00000261590	DSG2_HUMAN	.	UPI0000048E38	.	deleterious(0.02)	possibly_damaging(0.658)	6/15	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24025,hmmpanther:PTHR24025:SF1,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAATAAAGAT	.	5	BLCA
MEP1B	0	.	GRCh37	18	29775413	29775413	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.215C>T	p.Pro72Leu	p.P72L	ENST00000269202	5/15	59	40	18	46	46	0	MEP1B,missense_variant,p.Pro72Leu,ENST00000269202,;MEP1B,missense_variant,p.Pro40Leu,ENST00000581184,;MEP1B,missense_variant,p.Pro72Leu,ENST00000581447,;GAREM,intron_variant,,ENST00000583696,;MEP1B,non_coding_transcript_exon_variant,,ENST00000579919,;RP11-53I6.5,downstream_gene_variant,,ENST00000580789,;	T	ENSG00000141434	ENST00000269202	Transcript	missense_variant	262	215	72	P/L	cCt/cTt	COSM1303685	.	.	1	MEP1B	HGNC	7020	protein_coding	YES	CCDS45846.1	ENSP00000269202	MEP1B_HUMAN	J3KRK1_HUMAN	UPI0000201B8B	.	deleterious(0)	probably_damaging(0.994)	5/15	.	hmmpanther:PTHR10127:SF312,hmmpanther:PTHR10127,Pfam_domain:PF01400,Gene3D:3.40.390.10,PIRSF_domain:PIRSF001196,SMART_domains:SM00235,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGCCTCATA	.	5	BLCA
MYL12A	0	.	GRCh37	18	3255845	3255845	+	Nonsense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445A>T	p.Lys149Ter	p.K149*	ENST00000217652	4/4	42	29	12	47	47	0	MYL12A,stop_gained,p.Lys149Ter,ENST00000536605,;MYL12A,stop_gained,p.Lys149Ter,ENST00000578611,;MYL12A,stop_gained,p.Lys155Ter,ENST00000580887,;MYL12A,stop_gained,p.Lys149Ter,ENST00000217652,;MYL12A,stop_gained,p.Lys149Ter,ENST00000579226,;MYL12A,downstream_gene_variant,,ENST00000578562,;MYL12A,downstream_gene_variant,,ENST00000583449,;RP13-270P17.1,intron_variant,,ENST00000581905,;RP13-270P17.1,intron_variant,,ENST00000578800,;MYL12A,non_coding_transcript_exon_variant,,ENST00000578038,;MYL12A,downstream_gene_variant,,ENST00000580353,;MYL12A,downstream_gene_variant,,ENST00000577510,;	T	ENSG00000101608	ENST00000217652	Transcript	stop_gained	840	445	149	K/*	Aaa/Taa	COSM1303716	.	.	1	MYL12A	HGNC	16701	protein_coding	YES	CCDS11830.1	ENSP00000217652	ML12A_HUMAN	Q53X45_HUMAN,Q2F834_HUMAN,J3KTJ1_HUMAN	UPI0000000DFE	.	.	.	4/4	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23049,hmmpanther:PTHR23049:SF33,Gene3D:1.10.238.10,Pfam_domain:PF13833,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGATAAAAAG	.	5	BLCA
DLGAP1	0	.	GRCh37	18	3499238	3499238	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2879C>T	p.Thr960Ile	p.T960I	ENST00000315677	13/13	36	24	11	20	20	0	DLGAP1,missense_variant,p.Thr960Ile,ENST00000315677,;DLGAP1,missense_variant,p.Thr650Ile,ENST00000400149,;DLGAP1,missense_variant,p.Thr960Ile,ENST00000584874,;DLGAP1,missense_variant,p.Thr676Ile,ENST00000400150,;DLGAP1,missense_variant,p.Thr666Ile,ENST00000400155,;DLGAP1,missense_variant,p.Thr658Ile,ENST00000400147,;DLGAP1,missense_variant,p.Thr668Ile,ENST00000539435,;DLGAP1,missense_variant,p.Thr644Ile,ENST00000534970,;DLGAP1,missense_variant,p.Thr666Ile,ENST00000581699,;DLGAP1,downstream_gene_variant,,ENST00000581527,;DLGAP1,downstream_gene_variant,,ENST00000400145,;DLGAP1,downstream_gene_variant,,ENST00000515196,;	A	ENSG00000170579	ENST00000315677	Transcript	missense_variant	3475	2879	960	T/I	aCc/aTc	COSM1303729,COSM3989548,COSM3989551,COSM1303730,COSM3989549,COSM3989550	.	.	-1	DLGAP1	HGNC	2905	protein_coding	YES	CCDS11836.1	ENSP00000316377	DLGP1_HUMAN	.	UPI0000129490	.	deleterious(0)	probably_damaging(0.999)	13/13	.	hmmpanther:PTHR12353:SF7,hmmpanther:PTHR12353,Pfam_domain:PF03359	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCGGTGGCC	.	5	BLCA
EPG5	0	.	GRCh37	18	43487976	43487976	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4276C>T	p.%3D	p.L1426L	ENST00000282041	24/44	182	133	49	132	131	1	EPG5,synonymous_variant,p.%3D,ENST00000282041,;EPG5,non_coding_transcript_exon_variant,,ENST00000585906,;EPG5,synonymous_variant,p.%3D,ENST00000587884,;EPG5,synonymous_variant,p.%3D,ENST00000592272,;EPG5,synonymous_variant,p.%3D,ENST00000590884,;EPG5,non_coding_transcript_exon_variant,,ENST00000587974,;	A	ENSG00000152223	ENST00000282041	Transcript	synonymous_variant	4311	4276	1426	L	Cta/Tta	COSM1303742,COSM1730691	.	.	-1	EPG5	HGNC	29331	protein_coding	YES	CCDS11926.2	ENSP00000282041	EPG5_HUMAN	Q9BYJ3_HUMAN,Q9BTI0_HUMAN	UPI00004F6F8A	.	.	.	24/44	.	hmmpanther:PTHR31139,hmmpanther:PTHR31139:SF4	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTAGAGAAG	.	5	BLCA
SMAD7	0	.	GRCh37	18	46447736	46447736	+	3'UTR	SNP	A	A	T	rs755317709	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6T>A	.	.	ENST00000262158	4/4	85	68	16	81	81	0	SMAD7,3_prime_UTR_variant,,ENST00000591805,;SMAD7,3_prime_UTR_variant,,ENST00000262158,;SMAD7,downstream_gene_variant,,ENST00000586093,;SMAD7,downstream_gene_variant,,ENST00000589634,;SMAD7,downstream_gene_variant,,ENST00000585986,;SMAD7,downstream_gene_variant,,ENST00000588190,;SMAD7,downstream_gene_variant,,ENST00000587336,;SMAD7,non_coding_transcript_exon_variant,,ENST00000545051,;	T	ENSG00000101665	ENST00000262158	Transcript	3_prime_UTR_variant	1574	.	.	.	.	rs755317709	.	.	-1	SMAD7	HGNC	6773	protein_coding	YES	CCDS11936.1	ENSP00000262158	SMAD7_HUMAN	K7EKF0_HUMAN	UPI0000135A83	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCGCACGCGG	.	5	BLCA
LIPG	0	.	GRCh37	18	47088757	47088757	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.79C>A	p.Pro27Thr	p.P27T	ENST00000261292	1/10	116	86	30	75	75	0	LIPG,missense_variant,p.Pro27Thr,ENST00000261292,;LIPG,missense_variant,p.Pro27Thr,ENST00000427224,;LIPG,missense_variant,p.Pro27Thr,ENST00000580036,;LIPG,intron_variant,,ENST00000583083,;LIPG,intron_variant,,ENST00000577628,;LIPG,missense_variant,p.Pro15Thr,ENST00000579750,;	A	ENSG00000101670	ENST00000261292	Transcript	missense_variant	357	79	27	P/T	Cca/Aca	.	.	.	1	LIPG	HGNC	6623	protein_coding	YES	CCDS11938.1	ENSP00000261292	LIPE_HUMAN	J3KTN7_HUMAN	UPI000012E706	.	deleterious(0.04)	possibly_damaging(0.597)	1/10	.	PIRSF_domain:PIRSF000865,hmmpanther:PTHR11610:SF13,hmmpanther:PTHR11610	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGTCCAGAG	.	4	BLCA
MBD1	0	.	GRCh37	18	47800609	47800626	+	In_Frame_Del	DEL	TGCCCCCGAATTTGGGCT	TGCCCCCGAATTTGGGCT	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	TGCCCCCGAATTTGGGCT	TGCCCCCGAATTTGGGCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1076_1093delAGCCCAAATTCGGGGGCA	p.Lys359_Gly364del	p.K359_G364del	ENST00000590208	11/16	158	108	50	103	103	0	MBD1,inframe_deletion,p.Lys336_Gly341del,ENST00000588937,;MBD1,inframe_deletion,p.Lys336_Gly341del,ENST00000269471,;MBD1,inframe_deletion,p.Lys384_Gly389del,ENST00000585595,;MBD1,inframe_deletion,p.Lys359_Gly364del,ENST00000269468,;MBD1,inframe_deletion,p.Lys336_Gly341del,ENST00000591535,;MBD1,inframe_deletion,p.Lys359_Gly364del,ENST00000590208,;MBD1,inframe_deletion,p.Lys359_Gly364del,ENST00000339998,;MBD1,inframe_deletion,p.Lys309_Gly314del,ENST00000585672,;MBD1,inframe_deletion,p.Lys384_Gly389del,ENST00000457839,;MBD1,inframe_deletion,p.Lys336_Gly341del,ENST00000436910,;MBD1,inframe_deletion,p.Lys310_Gly315del,ENST00000353909,;MBD1,inframe_deletion,p.Lys359_Gly364del,ENST00000382948,;MBD1,inframe_deletion,p.Lys359_Gly364del,ENST00000591416,;MBD1,inframe_deletion,p.Lys410_Gly415del,ENST00000424334,;MBD1,intron_variant,,ENST00000587605,;MBD1,intron_variant,,ENST00000589733,;MBD1,intron_variant,,ENST00000589541,;MBD1,intron_variant,,ENST00000347968,;MBD1,intron_variant,,ENST00000398495,;MBD1,intron_variant,,ENST00000592060,;MBD1,intron_variant,,ENST00000398493,;MBD1,intron_variant,,ENST00000349085,;MBD1,intron_variant,,ENST00000398488,;MBD1,downstream_gene_variant,,ENST00000589867,;MBD1,upstream_gene_variant,,ENST00000586884,;MBD1,downstream_gene_variant,,ENST00000586679,;MBD1,downstream_gene_variant,,ENST00000591661,;MBD1,downstream_gene_variant,,ENST00000590215,;MBD1,downstream_gene_variant,,ENST00000586118,;	-	ENSG00000141644	ENST00000590208	Transcript	inframe_deletion	1423-1440	1076-1093	359-365	KPKFGGS/S	aAGCCCAAATTCGGGGGCAgc/agc	.	.	.	-1	MBD1	HGNC	6916	protein_coding	YES	CCDS59320.1	ENSP00000468785	.	K7ESN0_HUMAN	UPI0001F995B6	.	.	.	11/16	.	PROSITE_profiles:PS51058,hmmpanther:PTHR12396,hmmpanther:PTHR12396:SF4,Pfam_domain:PF02008	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGTTGCTGCCCCCGAATTTGGGCTTGTCG	.	3	BLCA
MAPK4	0	.	GRCh37	18	48190843	48190843	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515C>T	p.Ala172Val	p.A172V	ENST00000400384	2/6	121	96	24	107	107	0	MAPK4,missense_variant,p.Ala172Val,ENST00000588540,;MAPK4,missense_variant,p.Ala172Val,ENST00000592595,;MAPK4,missense_variant,p.Ala172Val,ENST00000400384,;MAPK4,intron_variant,,ENST00000540640,;MAPK4,non_coding_transcript_exon_variant,,ENST00000587823,;MAPK4,downstream_gene_variant,,ENST00000586735,;	T	ENSG00000141639	ENST00000400384	Transcript	missense_variant	1551	515	172	A/V	gCa/gTa	COSM1303769	.	.	1	MAPK4	HGNC	6878	protein_coding	YES	CCDS42437.1	ENSP00000383234	MK04_HUMAN	Q0VG04_HUMAN,B4E104_HUMAN,B4DEW2_HUMAN	UPI0000201D20	.	deleterious(0)	probably_damaging(0.997)	2/6	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF25,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTGGCAAGGA	.	4	BLCA
DSEL	0	.	GRCh37	18	65178545	65178545	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3331C>T	p.His1111Tyr	p.H1111Y	ENST00000310045	2/2	76	59	16	47	47	0	DSEL,missense_variant,p.His1111Tyr,ENST00000310045,;CTD-2541J13.2,non_coding_transcript_exon_variant,,ENST00000583493,;CTD-2541J13.2,downstream_gene_variant,,ENST00000581951,;	A	ENSG00000171451	ENST00000310045	Transcript	missense_variant	4805	3331	1111	H/Y	Cac/Tac	COSM1303828	.	.	-1	DSEL	HGNC	18144	protein_coding	YES	CCDS11995.1	ENSP00000310565	DSEL_HUMAN	.	UPI00000740A1	.	tolerated(0.26)	benign(0.013)	2/2	.	hmmpanther:PTHR15532,hmmpanther:PTHR15532:SF2,Pfam_domain:PF00685,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAGTGAGACA	.	4	BLCA
ZADH2	0	.	GRCh37	18	72913707	72913707	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798G>A	p.%3D	p.L266L	ENST00000322342	2/2	101	74	27	97	97	0	ZADH2,synonymous_variant,p.%3D,ENST00000322342,;ZADH2,synonymous_variant,p.%3D,ENST00000537114,;ZADH2,synonymous_variant,p.%3D,ENST00000582437,;ZADH2,downstream_gene_variant,,ENST00000581620,;	T	ENSG00000180011	ENST00000322342	Transcript	synonymous_variant	1088	798	266	L	ttG/ttA	COSM1303858	.	.	-1	ZADH2	HGNC	28697	protein_coding	YES	CCDS12008.1	ENSP00000323678	ZADH2_HUMAN	J3QQQ7_HUMAN,J3KTQ8_HUMAN,B4DZ91_HUMAN	UPI00000350AF	.	.	.	2/2	.	hmmpanther:PTHR11695:SF264,hmmpanther:PTHR11695,Gene3D:3.40.50.720,Pfam_domain:PF00107,SMART_domains:SM00829,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R265C|c.793C>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTATCAAGCG	.	5	BLCA
RBFA	0	.	GRCh37	18	77794534	77794534	+	Silent	SNP	G	G	T	rs374217247	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.39G>T	p.%3D	p.A13A	ENST00000306735	1/7	51	42	9	39	39	0	RBFA,synonymous_variant,p.%3D,ENST00000306735,;RBFA,synonymous_variant,p.%3D,ENST00000262197,;TXNL4A,upstream_gene_variant,,ENST00000592957,;TXNL4A,upstream_gene_variant,,ENST00000585474,;RBFA,non_coding_transcript_exon_variant,,ENST00000586847,;TXNL4A,upstream_gene_variant,,ENST00000589926,;RP11-795F19.5,upstream_gene_variant,,ENST00000564012,;RP11-795F19.5,synonymous_variant,p.%3D,ENST00000562771,;RP11-795F19.5,synonymous_variant,p.%3D,ENST00000569722,;RBFA,non_coding_transcript_exon_variant,,ENST00000591612,;RP11-795F19.5,upstream_gene_variant,,ENST00000591514,;	T	ENSG00000101546	ENST00000306735	Transcript	synonymous_variant	177	39	13	A	gcG/gcT	rs374217247,COSM1303879	.	.	1	RBFA	HGNC	26120	protein_coding	YES	CCDS12021.1	ENSP00000305696	RBFA_HUMAN	.	UPI000013D270	.	.	.	1/7	.	hmmpanther:PTHR14725:SF0,hmmpanther:PTHR14725	.	.	.	.	.	.	.	A:0.0007	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCGCGGGTCT	byFrequency|byCluster	4	BLCA
HMHA1	0	.	GRCh37	19	1073267	1073267	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589G>T	p.Gly197Cys	p.G197C	ENST00000539243	3/23	81	60	21	89	89	0	HMHA1,missense_variant,p.Gly181Cys,ENST00000313093,;HMHA1,missense_variant,p.Gly208Cys,ENST00000590214,;HMHA1,missense_variant,p.Gly197Cys,ENST00000539243,;HMHA1,missense_variant,p.Gly185Cys,ENST00000586866,;HMHA1,missense_variant,p.Gly64Cys,ENST00000543365,;HMHA1,missense_variant,p.Gly21Cys,ENST00000536472,;HMHA1,3_prime_UTR_variant,,ENST00000592335,;HMHA1,downstream_gene_variant,,ENST00000587186,;HMHA1,upstream_gene_variant,,ENST00000590577,;HMHA1,3_prime_UTR_variant,,ENST00000587602,;HMHA1,intron_variant,,ENST00000591293,;HMHA1,upstream_gene_variant,,ENST00000586033,;	T	ENSG00000180448	ENST00000539243	Transcript	missense_variant	692	589	197	G/C	Ggc/Tgc	COSM1303948	.	.	1	HMHA1	HGNC	17102	protein_coding	YES	CCDS58637.1	ENSP00000439601	HMHA1_HUMAN	O78181_HUMAN	UPI0001AE63E1	.	deleterious(0.02)	possibly_damaging(0.651)	3/23	.	hmmpanther:PTHR15228:SF18,hmmpanther:PTHR15228	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGCCGGCACC	.	3	BLCA
SMARCA4	0	.	GRCh37	19	11094925	11094925	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98G>A	p.Gly33Asp	p.G33D	ENST00000429416	3/36	55	45	10	46	46	0	SMARCA4,missense_variant,p.Gly33Asp,ENST00000450717,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000358026,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000413806,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000590574,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000444061,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000344626,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000541122,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000429416,;SMARCA4,missense_variant,p.Gly33Asp,ENST00000589677,;SMARCA4,upstream_gene_variant,,ENST00000591545,;	A	ENSG00000127616	ENST00000429416	Transcript	missense_variant	379	98	33	G/D	gGt/gAt	COSM1303969,COSM1303968	.	.	1	SMARCA4	HGNC	11100	protein_coding	YES	CCDS12253.1	ENSP00000395654	SMCA4_HUMAN	B4DSI8_HUMAN,A7E2E1_HUMAN	UPI000006F973	.	.	unknown(0)	3/36	.	hmmpanther:PTHR10799:SF76,hmmpanther:PTHR10799,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCGGGTCCCT	.	4	BLCA
CIRBP	0	.	GRCh37	19	1270999	1270999	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67G>A	p.Glu23Lys	p.E23K	ENST00000588030	2/7	279	201	78	209	209	0	CIRBP,stop_gained,p.Trp5Ter,ENST00000444172,;CIRBP,missense_variant,p.Glu23Lys,ENST00000589660,;CIRBP,missense_variant,p.Glu23Lys,ENST00000586773,;CIRBP,missense_variant,p.Glu23Lys,ENST00000591935,;CIRBP,missense_variant,p.Glu23Lys,ENST00000586548,;CIRBP,missense_variant,p.Glu23Lys,ENST00000588344,;CIRBP,missense_variant,p.Glu23Lys,ENST00000588230,;CIRBP,missense_variant,p.Glu23Lys,ENST00000589710,;CIRBP,missense_variant,p.Glu23Lys,ENST00000592815,;CIRBP,missense_variant,p.Glu23Lys,ENST00000320936,;CIRBP,missense_variant,p.Glu23Lys,ENST00000589235,;CIRBP,missense_variant,p.Glu23Lys,ENST00000587323,;CIRBP,missense_variant,p.Glu23Lys,ENST00000587896,;CIRBP,missense_variant,p.Glu23Lys,ENST00000589686,;CIRBP,missense_variant,p.Glu23Lys,ENST00000585630,;CIRBP,missense_variant,p.Glu23Lys,ENST00000591659,;CIRBP,missense_variant,p.Glu23Lys,ENST00000413636,;CIRBP,missense_variant,p.Glu23Lys,ENST00000588090,;CIRBP,missense_variant,p.Glu23Lys,ENST00000592051,;CIRBP,missense_variant,p.Glu23Lys,ENST00000588411,;CIRBP,missense_variant,p.Glu23Lys,ENST00000589266,;CIRBP,missense_variant,p.Glu23Lys,ENST00000586472,;CIRBP,missense_variant,p.Glu23Lys,ENST00000588030,;C19orf24,upstream_gene_variant,,ENST00000409293,;C19orf24,upstream_gene_variant,,ENST00000469144,;CIRBP-AS1,upstream_gene_variant,,ENST00000585832,;CIRBP-AS1,upstream_gene_variant,,ENST00000600215,;CIRBP,upstream_gene_variant,,ENST00000590188,;CIRBP,missense_variant,p.Glu23Lys,ENST00000593048,;CIRBP,missense_variant,p.Glu23Lys,ENST00000591055,;CIRBP,missense_variant,p.Glu23Lys,ENST00000590171,;CIRBP,missense_variant,p.Glu23Lys,ENST00000590347,;CIRBP,missense_variant,p.Glu23Lys,ENST00000585914,;CIRBP,missense_variant,p.Glu23Lys,ENST00000591376,;CIRBP,missense_variant,p.Glu23Lys,ENST00000586636,;CIRBP,missense_variant,p.Glu23Lys,ENST00000585913,;CIRBP,missense_variant,p.Glu23Lys,ENST00000587169,;CIRBP,missense_variant,p.Glu23Lys,ENST00000591097,;CIRBP,missense_variant,p.Glu23Lys,ENST00000592412,;CIRBP,non_coding_transcript_exon_variant,,ENST00000593283,;CIRBP,non_coding_transcript_exon_variant,,ENST00000593093,;CIRBP,non_coding_transcript_exon_variant,,ENST00000593128,;CIRBP,non_coding_transcript_exon_variant,,ENST00000590704,;CIRBP,upstream_gene_variant,,ENST00000587812,;CIRBP,upstream_gene_variant,,ENST00000592234,;CIRBP,upstream_gene_variant,,ENST00000588917,;CIRBP,upstream_gene_variant,,ENST00000586555,;	A	ENSG00000099622	ENST00000588030	Transcript	missense_variant	327	67	23	E/K	Gag/Aag	COSM1304026	.	.	1	CIRBP	HGNC	1982	protein_coding	YES	CCDS12059.1	ENSP00000468788	CIRBP_HUMAN	Q53XX5_HUMAN,K7EQX4_HUMAN,K7EMY9_HUMAN,K7ELV6_HUMAN,K7EJV5_HUMAN	UPI00001279F8	.	deleterious(0.02)	possibly_damaging(0.842)	2/7	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,SMART_domains:SM00361,Pfam_domain:PF00076,Gene3D:3.30.70.330,hmmpanther:PTHR24012:SF269,hmmpanther:PTHR24012,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTGGAGCAG	.	5	BLCA
NANOS3	0	.	GRCh37	19	13988429	13988429	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367C>T	p.His123Tyr	p.H123Y	ENST00000339133	1/2	34	22	12	40	38	1	NANOS3,missense_variant,p.His123Tyr,ENST00000339133,;NANOS3,missense_variant,p.His104Tyr,ENST00000397555,;C19orf57,downstream_gene_variant,,ENST00000454313,;C19orf57,downstream_gene_variant,,ENST00000586783,;C19orf57,downstream_gene_variant,,ENST00000591586,;C19orf57,downstream_gene_variant,,ENST00000588115,;C19orf57,downstream_gene_variant,,ENST00000346736,;MIR181D,downstream_gene_variant,,ENST00000384853,;MIR181C,downstream_gene_variant,,ENST00000384881,;NANOS3,intron_variant,,ENST00000591727,;NANOS3,intron_variant,,ENST00000591161,;C19orf57,downstream_gene_variant,,ENST00000586500,;	T	ENSG00000187556	ENST00000339133	Transcript	missense_variant	369	367	123	H/Y	Cac/Tac	COSM1304076	.	.	1	NANOS3	HGNC	22048	protein_coding	YES	CCDS42511.1	ENSP00000341992	NANO3_HUMAN	.	UPI0000366D46	.	deleterious(0)	probably_damaging(0.996)	1/2	.	Pfam_domain:PF05741,hmmpanther:PTHR12887:SF3,hmmpanther:PTHR12887,PROSITE_profiles:PS51522	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCGCCCACACC	.	4	BLCA
AKAP8	0	.	GRCh37	19	15466028	15466028	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1777G>A	p.Gly593Arg	p.G593R	ENST00000269701	14/14	139	97	42	109	109	0	AKAP8,missense_variant,p.Gly593Arg,ENST00000269701,;AKAP8,3_prime_UTR_variant,,ENST00000598597,;	T	ENSG00000105127	ENST00000269701	Transcript	missense_variant	1838	1777	593	G/R	Gga/Aga	COSM1304109	.	.	-1	AKAP8	HGNC	378	protein_coding	YES	CCDS12329.1	ENSP00000269701	AKAP8_HUMAN	Q9UG73_HUMAN	UPI000012575C	.	deleterious(0.05)	benign(0.02)	14/14	.	hmmpanther:PTHR12190:SF5,hmmpanther:PTHR12190	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTCCTTCCC	.	5	BLCA
MAP1S	0	.	GRCh37	19	17837423	17837423	+	Silent	SNP	C	C	T	rs780581015	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1230C>T	p.%3D	p.A410A	ENST00000324096	5/7	11	7	4	12	12	0	MAP1S,synonymous_variant,p.%3D,ENST00000544059,;MAP1S,synonymous_variant,p.%3D,ENST00000324096,;MAP1S,intron_variant,,ENST00000597735,;MAP1S,downstream_gene_variant,,ENST00000594625,;MAP1S,downstream_gene_variant,,ENST00000600186,;MAP1S,upstream_gene_variant,,ENST00000597000,;CTD-3149D2.4,downstream_gene_variant,,ENST00000595363,;MAP1S,intron_variant,,ENST00000597681,;MAP1S,downstream_gene_variant,,ENST00000594340,;MAP1S,upstream_gene_variant,,ENST00000598756,;MAP1S,downstream_gene_variant,,ENST00000599494,;MAP1S,downstream_gene_variant,,ENST00000601544,;MAP1S,downstream_gene_variant,,ENST00000595338,;MAP1S,downstream_gene_variant,,ENST00000597067,;MAP1S,downstream_gene_variant,,ENST00000598916,;MAP1S,downstream_gene_variant,,ENST00000594212,;MAP1S,downstream_gene_variant,,ENST00000596637,;MAP1S,downstream_gene_variant,,ENST00000593593,;MAP1S,downstream_gene_variant,,ENST00000600608,;MAP1S,downstream_gene_variant,,ENST00000594365,;MAP1S,downstream_gene_variant,,ENST00000598769,;	T	ENSG00000130479	ENST00000324096	Transcript	synonymous_variant	1381	1230	410	A	gcC/gcT	rs780581015,COSM1304170	.	.	1	MAP1S	HGNC	15715	protein_coding	YES	CCDS32954.1	ENSP00000325313	MAP1S_HUMAN	.	UPI00002036F9	.	.	.	5/7	.	hmmpanther:PTHR13843	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S411C|c.1232C>G|7	RADIA|MUTECT|MUSE	CTGGCCTCTGT	.	3	BLCA
UPF1	0	.	GRCh37	19	18965703	18965703	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1281G>A	p.%3D	p.L427L	ENST00000262803	10/24	55	38	17	38	36	1	UPF1,synonymous_variant,p.%3D,ENST00000599848,;UPF1,synonymous_variant,p.%3D,ENST00000262803,;UPF1,downstream_gene_variant,,ENST00000598209,;UPF1,downstream_gene_variant,,ENST00000601981,;UPF1,downstream_gene_variant,,ENST00000600310,;UPF1,downstream_gene_variant,,ENST00000600868,;UPF1,downstream_gene_variant,,ENST00000594504,;UPF1,downstream_gene_variant,,ENST00000600012,;UPF1,downstream_gene_variant,,ENST00000598471,;UPF1,non_coding_transcript_exon_variant,,ENST00000601689,;UPF1,upstream_gene_variant,,ENST00000594243,;UPF1,upstream_gene_variant,,ENST00000596842,;	A	ENSG00000005007	ENST00000262803	Transcript	synonymous_variant	1553	1281	427	L	ttG/ttA	COSM1304214	.	.	1	UPF1	HGNC	9962	protein_coding	YES	CCDS12386.1	ENSP00000262803	RENT1_HUMAN	B3KY55_HUMAN	UPI0000001C89	.	.	.	10/24	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF340	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T429M|c.1286C>T|3	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCATTGAAAAC	.	4	BLCA
ZNF101	0	.	GRCh37	19	19790184	19790184	+	Missense_Mutation	SNP	G	G	T	rs375316779	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386G>T	p.Arg129Leu	p.R129L	ENST00000592502	4/4	92	64	28	100	100	0	ZNF101,missense_variant,p.Arg9Leu,ENST00000415784,;ZNF101,missense_variant,p.Arg9Leu,ENST00000541458,;ZNF101,missense_variant,p.Arg129Leu,ENST00000592502,;ZNF101,3_prime_UTR_variant,,ENST00000444249,;ZNF101,upstream_gene_variant,,ENST00000586745,;ZNF101,missense_variant,p.Arg129Leu,ENST00000318110,;ZNF101,non_coding_transcript_exon_variant,,ENST00000415440,;ZNF101,upstream_gene_variant,,ENST00000585565,;	T	ENSG00000181896	ENST00000592502	Transcript	missense_variant	496	386	129	R/L	cGa/cTa	rs375316779,COSM1304241,COSM248494	.	.	1	ZNF101	HGNC	12881	protein_coding	YES	CCDS32971.1	ENSP00000468049	ZN101_HUMAN	Q96F93_HUMAN,Q0VDG9_HUMAN,K7ENV8_HUMAN	UPI0000074138	.	tolerated(0.36)	benign(0.003)	4/4	.	Superfamily_domains:SSF57667,hmmpanther:PTHR24379,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAACGATCTG	byFrequency|byCluster	5	BLCA
ZNF708	0	.	GRCh37	19	21493399	21493399	+	Missense_Mutation	SNP	C	C	T	rs766391621	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>A	p.Glu12Lys	p.E12K	ENST00000356929	2/4	154	120	34	106	106	0	ZNF708,missense_variant,p.Glu12Lys,ENST00000356929,;ZNF708,intron_variant,,ENST00000602023,;ZNF708,intron_variant,,ENST00000601295,;ZNF708,intron_variant,,ENST00000598046,;	T	ENSG00000182141	ENST00000356929	Transcript	missense_variant	232	34	12	E/K	Gaa/Aaa	rs766391621,COSM1304270	.	.	-1	ZNF708	HGNC	12945	protein_coding	YES	CCDS32980.1	ENSP00000349401	ZN708_HUMAN	M0R1G3_HUMAN,M0QYN4_HUMAN	UPI000041F9DE	.	deleterious(0.03)	possibly_damaging(0.764)	2/4	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24384:SF113,hmmpanther:PTHR24384,Pfam_domain:PF01352,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATTCTATGG	.	5	BLCA
PDCD5	0	.	GRCh37	19	33072194	33072194	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27G>A	p.%3D	p.L9L	ENST00000590247	1/6	21	13	8	19	19	0	PDCD5,synonymous_variant,p.%3D,ENST00000419343,;PDCD5,synonymous_variant,p.%3D,ENST00000592786,;PDCD5,synonymous_variant,p.%3D,ENST00000379316,;PDCD5,synonymous_variant,p.%3D,ENST00000590247,;PDCD5,upstream_gene_variant,,ENST00000586035,;PDCD5,synonymous_variant,p.%3D,ENST00000221784,;PDCD5,upstream_gene_variant,,ENST00000586316,;	A	ENSG00000105185	ENST00000590247	Transcript	synonymous_variant	221	27	9	L	ctG/ctA	COSM1304399	.	.	1	PDCD5	HGNC	8764	protein_coding	YES	CCDS12423.1	ENSP00000466214	PDCD5_HUMAN	K7EQA1_HUMAN	UPI00001313D8	.	.	.	1/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10840,hmmpanther:PTHR10840:SF0,Pfam_domain:PF01984,PIRSF_domain:PIRSF015730,Superfamily_domains:SSF46950	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCTGAGGAG	.	5	BLCA
ANKRD27	0	.	GRCh37	19	33106574	33106574	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2165C>T	p.Pro722Leu	p.P722L	ENST00000306065	22/29	126	97	29	108	108	0	ANKRD27,missense_variant,p.Pro722Leu,ENST00000306065,;	A	ENSG00000105186	ENST00000306065	Transcript	missense_variant	2324	2165	722	P/L	cCa/cTa	COSM1304400	.	.	-1	ANKRD27	HGNC	25310	protein_coding	YES	CCDS32986.1	ENSP00000304292	ANR27_HUMAN	K7EPM2_HUMAN,K7EIN0_HUMAN,K7EIH4_HUMAN	UPI000004FDE9	.	deleterious(0.05)	possibly_damaging(0.908)	22/29	.	Superfamily_domains:SSF48403,hmmpanther:PTHR24170,hmmpanther:PTHR24170:SF1,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTGGGGCA	.	5	BLCA
UBA2	0	.	GRCh37	19	34919421	34919421	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84C>T	p.%3D	p.I28I	ENST00000246548	1/17	45	32	13	47	47	0	UBA2,synonymous_variant,p.%3D,ENST00000246548,;UBA2,synonymous_variant,p.%3D,ENST00000590048,;UBA2,upstream_gene_variant,,ENST00000439527,;PDCD2L,downstream_gene_variant,,ENST00000587065,;PDCD2L,downstream_gene_variant,,ENST00000246535,;CTD-2588C8.8,upstream_gene_variant,,ENST00000592220,;UBA2,synonymous_variant,p.%3D,ENST00000607361,;UBA2,synonymous_variant,p.%3D,ENST00000586313,;UBA2,non_coding_transcript_exon_variant,,ENST00000592841,;UBA2,upstream_gene_variant,,ENST00000592672,;PDCD2L,downstream_gene_variant,,ENST00000589589,;PDCD2L,downstream_gene_variant,,ENST00000587385,;	T	ENSG00000126261	ENST00000246548	Transcript	synonymous_variant	154	84	28	I	atC/atT	COSM1304417	.	.	1	UBA2	HGNC	30661	protein_coding	YES	CCDS12439.1	ENSP00000246548	SAE2_HUMAN	U3KQ93_HUMAN,B3KWB9_HUMAN	UPI000004F09F	.	.	.	1/17	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51257,hmmpanther:PTHR10953,Gene3D:3.40.50.720,Pfam_domain:PF00899,Superfamily_domains:SSF69572	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCATCGGCTG	.	5	BLCA
LSR	0	.	GRCh37	19	35758181	35758181	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458C>T	p.%3D	p.A486A	ENST00000361790	9/10	9	6	3	10	10	0	LSR,synonymous_variant,p.%3D,ENST00000347609,;LSR,synonymous_variant,p.%3D,ENST00000361790,;LSR,synonymous_variant,p.%3D,ENST00000605618,;LSR,synonymous_variant,p.%3D,ENST00000354900,;LSR,synonymous_variant,p.%3D,ENST00000427250,;LSR,synonymous_variant,p.%3D,ENST00000360798,;LSR,synonymous_variant,p.%3D,ENST00000602122,;USF2,upstream_gene_variant,,ENST00000222305,;USF2,upstream_gene_variant,,ENST00000379134,;USF2,upstream_gene_variant,,ENST00000343550,;USF2,upstream_gene_variant,,ENST00000596380,;LSR,downstream_gene_variant,,ENST00000599658,;USF2,upstream_gene_variant,,ENST00000595068,;USF2,upstream_gene_variant,,ENST00000594064,;USF2,upstream_gene_variant,,ENST00000599471,;USF2,upstream_gene_variant,,ENST00000599625,;USF2,upstream_gene_variant,,ENST00000598058,;AD000684.2,downstream_gene_variant,,ENST00000602262,;LSR,downstream_gene_variant,,ENST00000602044,;USF2,upstream_gene_variant,,ENST00000600341,;LSR,downstream_gene_variant,,ENST00000597933,;LSR,downstream_gene_variant,,ENST00000597446,;USF2,upstream_gene_variant,,ENST00000607959,;USF2,upstream_gene_variant,,ENST00000602164,;USF2,upstream_gene_variant,,ENST00000597671,;USF2,upstream_gene_variant,,ENST00000593708,;	T	ENSG00000105699	ENST00000361790	Transcript	synonymous_variant	1617	1458	486	A	gcC/gcT	COSM1304435	.	.	1	LSR	HGNC	29572	protein_coding	YES	CCDS12450.1	ENSP00000354575	LSR_HUMAN	.	UPI000003117A	.	.	.	9/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15923,hmmpanther:PTHR15923:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGGCCAGGCG	.	2	BLCA
CD22	0	.	GRCh37	19	35823632	35823632	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217G>A	p.Gly73Arg	p.G73R	ENST00000085219	3/14	143	102	40	88	86	2	CD22,missense_variant,p.Gly73Arg,ENST00000595780,;CD22,missense_variant,p.Gly73Arg,ENST00000598537,;CD22,missense_variant,p.Gly73Arg,ENST00000341773,;CD22,missense_variant,p.Gly71Arg,ENST00000600131,;CD22,missense_variant,p.Gly73Arg,ENST00000594250,;CD22,missense_variant,p.Gly73Arg,ENST00000593867,;CD22,missense_variant,p.Gly71Arg,ENST00000600424,;CD22,missense_variant,p.Gly73Arg,ENST00000544992,;CD22,missense_variant,p.Gly73Arg,ENST00000085219,;CD22,missense_variant,p.Gly73Arg,ENST00000599811,;CD22,missense_variant,p.Gly73Arg,ENST00000536635,;CD22,missense_variant,p.Gly71Arg,ENST00000597916,;CD22,5_prime_UTR_variant,,ENST00000270311,;CD22,5_prime_UTR_variant,,ENST00000419549,;U62631.5,downstream_gene_variant,,ENST00000597110,;CD22,non_coding_transcript_exon_variant,,ENST00000597433,;CD22,non_coding_transcript_exon_variant,,ENST00000598138,;CD22,non_coding_transcript_exon_variant,,ENST00000601732,;CD22,non_coding_transcript_exon_variant,,ENST00000595419,;CD22,non_coding_transcript_exon_variant,,ENST00000601414,;CD22,non_coding_transcript_exon_variant,,ENST00000600905,;CD22,intron_variant,,ENST00000601329,;CD22,intron_variant,,ENST00000598815,;CD22,intron_variant,,ENST00000598028,;CD22,missense_variant,p.Gly71Arg,ENST00000601769,;CD22,missense_variant,p.Gly62Arg,ENST00000594349,;CD22,3_prime_UTR_variant,,ENST00000599717,;CD22,non_coding_transcript_exon_variant,,ENST00000602224,;CD22,non_coding_transcript_exon_variant,,ENST00000596492,;CD22,intron_variant,,ENST00000600655,;CD22,downstream_gene_variant,,ENST00000599799,;CD22,downstream_gene_variant,,ENST00000594954,;	A	ENSG00000012124	ENST00000085219	Transcript	missense_variant	283	217	73	G/R	Ggg/Agg	COSM1304440	.	.	1	CD22	HGNC	1643	protein_coding	YES	CCDS12457.1	ENSP00000085219	CD22_HUMAN	Q0EAF5_HUMAN,Q9UQB2_HUMAN,Q9UQB1_HUMAN,M0R3H1_HUMAN,M0R2M0_HUMAN,M0R1M2_HUMAN,M0QYP4_HUMAN	UPI000012733D	.	deleterious(0)	probably_damaging(0.999)	3/14	.	hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF39,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TTGATGGGACA	.	2	BLCA
LGALS4	0	.	GRCh37	19	39292541	39292541	+	Missense_Mutation	SNP	G	G	C	rs577813567	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.835C>G	p.Arg279Gly	p.R279G	ENST00000307751	10/10	165	116	48	130	130	0	LGALS4,missense_variant,p.Arg174Gly,ENST00000600070,;LGALS4,missense_variant,p.Arg279Gly,ENST00000307751,;RNU6-140P,upstream_gene_variant,,ENST00000384566,;LGALS4,downstream_gene_variant,,ENST00000597803,;LGALS4,3_prime_UTR_variant,,ENST00000595291,;LGALS4,non_coding_transcript_exon_variant,,ENST00000595342,;LGALS4,downstream_gene_variant,,ENST00000595278,;LGALS4,downstream_gene_variant,,ENST00000597153,;LGALS4,downstream_gene_variant,,ENST00000596628,;	C	ENSG00000171747	ENST00000307751	Transcript	missense_variant	1313	835	279	R/G	Cgc/Ggc	rs577813567,COSM3422780,COSM1304529	.	.	-1	LGALS4	HGNC	6565	protein_coding	YES	CCDS12521.1	ENSP00000302100	LEG4_HUMAN	Q6FHZ4_HUMAN,M0R349_HUMAN	UPI0000001651	.	deleterious(0)	probably_damaging(0.985)	10/10	.	PROSITE_profiles:PS51304,hmmpanther:PTHR11346,hmmpanther:PTHR11346:SF32,Gene3D:2.60.120.200,Pfam_domain:PF00337,SMART_domains:SM00908,SMART_domains:SM00276,Superfamily_domains:SSF49899	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGCGAATGG	by1000G	5	BLCA
EID2	0	.	GRCh37	19	40030040	40030040	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.680T>G	p.Leu227Arg	p.L227R	ENST00000390658	1/1	110	84	26	94	94	0	EID2,missense_variant,p.Leu227Arg,ENST00000390658,;CTB-60E11.9,downstream_gene_variant,,ENST00000594676,;TDGF1P7,downstream_gene_variant,,ENST00000593394,;	C	ENSG00000176396	ENST00000390658	Transcript	missense_variant	831	680	227	L/R	cTt/cGt	COSM1304563	.	.	-1	EID2	HGNC	28292	protein_coding	YES	CCDS12540.2	ENSP00000375073	EID2_HUMAN	.	UPI00001E052F	.	deleterious(0)	possibly_damaging(0.883)	1/1	.	hmmpanther:PTHR15556,hmmpanther:PTHR15556:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCAAGTTCT	.	5	BLCA
PRX	0	.	GRCh37	19	40901699	40901699	+	Silent	SNP	G	G	A	rs772208597	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2560C>T	p.%3D	p.L854L	ENST00000324001	7/7	123	96	27	118	117	1	PRX,synonymous_variant,p.%3D,ENST00000324001,;PRX,3_prime_UTR_variant,,ENST00000291825,;	A	ENSG00000105227	ENST00000324001	Transcript	synonymous_variant	2831	2560	854	L	Ctg/Ttg	rs772208597,COSM1304593	.	.	-1	PRX	HGNC	13797	protein_coding	YES	CCDS33028.1	ENSP00000326018	PRAX_HUMAN	.	UPI000044CC1A	.	.	.	7/7	.	hmmpanther:PTHR23348:SF39,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCAGAGTGA	.	5	BLCA
CREB3L3	0	.	GRCh37	19	4159761	4159761	+	Silent	SNP	G	G	A	rs770643783	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.558G>A	p.%3D	p.S186S	ENST00000078445	4/10	113	82	31	104	104	0	CREB3L3,synonymous_variant,p.%3D,ENST00000078445,;CREB3L3,synonymous_variant,p.%3D,ENST00000602147,;CREB3L3,synonymous_variant,p.%3D,ENST00000602257,;CREB3L3,synonymous_variant,p.%3D,ENST00000595923,;CREB3L3,intron_variant,,ENST00000252587,;CREB3L3,upstream_gene_variant,,ENST00000598894,;	A	ENSG00000060566	ENST00000078445	Transcript	synonymous_variant	705	558	186	S	tcG/tcA	rs770643783,COSM1304628	.	.	1	CREB3L3	HGNC	18855	protein_coding	YES	CCDS12121.1	ENSP00000078445	CR3L3_HUMAN	.	UPI000006FCF0	.	.	.	4/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22952,hmmpanther:PTHR22952:SF98	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTCGGGCAG	byFrequency	5	BLCA
CCDC94	0	.	GRCh37	19	4258352	4258352	+	Silent	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519G>A	p.%3D	p.L173L	ENST00000262962	5/8	31	22	8	26	26	0	CCDC94,synonymous_variant,p.%3D,ENST00000596496,;CCDC94,synonymous_variant,p.%3D,ENST00000262962,;	A	ENSG00000105248	ENST00000262962	Transcript	synonymous_variant	587	519	173	L	ctG/ctA	.	.	.	1	CCDC94	HGNC	25518	protein_coding	YES	CCDS12124.1	ENSP00000262962	CCD94_HUMAN	Q7LE05_HUMAN,M0R2S3_HUMAN	UPI000006CF6B	.	.	.	5/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12111,hmmpanther:PTHR12111:SF1,Pfam_domain:PF04502	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTGAGGCA	.	5	BLCA
CIC	0	.	GRCh37	19	42797418	42797418	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3780G>A	p.%3D	p.K1260K	ENST00000575354	15/20	12	9	3	10	10	0	CIC,synonymous_variant,p.%3D,ENST00000575354,;CIC,synonymous_variant,p.%3D,ENST00000572681,;CIC,synonymous_variant,p.%3D,ENST00000160740,;PAFAH1B3,downstream_gene_variant,,ENST00000262890,;CIC,upstream_gene_variant,,ENST00000576505,;CIC,upstream_gene_variant,,ENST00000573349,;PAFAH1B3,downstream_gene_variant,,ENST00000538771,;PAFAH1B3,downstream_gene_variant,,ENST00000595530,;PAFAH1B3,downstream_gene_variant,,ENST00000596265,;PAFAH1B3,downstream_gene_variant,,ENST00000594989,;CIC,upstream_gene_variant,,ENST00000575287,;CIC,upstream_gene_variant,,ENST00000571033,;	A	ENSG00000079432	ENST00000575354	Transcript	synonymous_variant	3820	3780	1260	K	aaG/aaA	COSM1304661	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	.	15/20	.	hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAAGGGCCC	.	2	BLCA
TMIGD2	0	.	GRCh37	19	4292481	4292481	+	3'UTR	SNP	G	G	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*115C>A	.	.	ENST00000301272	5/5	68	45	22	65	64	1	TMIGD2,3_prime_UTR_variant,,ENST00000301272,;TMIGD2,3_prime_UTR_variant,,ENST00000595645,;SHD,downstream_gene_variant,,ENST00000543264,;TMIGD2,downstream_gene_variant,,ENST00000600349,;SHD,downstream_gene_variant,,ENST00000599689,;TMIGD2,downstream_gene_variant,,ENST00000600114,;SHD,downstream_gene_variant,,ENST00000600475,;SHD,downstream_gene_variant,,ENST00000597466,;SHD,downstream_gene_variant,,ENST00000593383,;	T	ENSG00000167664	ENST00000301272	Transcript	3_prime_UTR_variant	1010	.	.	.	.	.	.	.	-1	TMIGD2	HGNC	28324	protein_coding	YES	CCDS12126.1	ENSP00000301272	TMIG2_HUMAN	.	UPI000013E6F4	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCCGCCTCG	.	5	BLCA
UBXN6	0	.	GRCh37	19	4453498	4453498	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269A>C	p.Glu90Ala	p.E90A	ENST00000301281	3/11	50	37	12	40	40	0	UBXN6,missense_variant,p.Glu90Ala,ENST00000301281,;UBXN6,missense_variant,p.Glu63Ala,ENST00000591919,;UBXN6,missense_variant,p.Glu66Ala,ENST00000592515,;UBXN6,missense_variant,p.Glu37Ala,ENST00000394765,;CTB-50L17.16,downstream_gene_variant,,ENST00000591414,;CTB-50L17.16,downstream_gene_variant,,ENST00000590989,;CTB-50L17.9,upstream_gene_variant,,ENST00000592034,;UBXN6,upstream_gene_variant,,ENST00000588238,;UBXN6,upstream_gene_variant,,ENST00000593024,;UBXN6,upstream_gene_variant,,ENST00000592358,;	G	ENSG00000167671	ENST00000301281	Transcript	missense_variant	394	269	90	E/A	gAa/gCa	.	.	.	-1	UBXN6	HGNC	14928	protein_coding	YES	CCDS12129.1	ENSP00000301281	UBXN6_HUMAN	.	UPI000004EF28	.	deleterious(0.02)	benign(0.091)	3/11	.	hmmpanther:PTHR23153,hmmpanther:PTHR23153:SF35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTTCGGCT	.	5	BLCA
UBXN6	0	.	GRCh37	19	4453499	4453499	+	Missense_Mutation	SNP	C	C	T	rs568232630	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268G>A	p.Glu90Lys	p.E90K	ENST00000301281	3/11	50	37	12	39	38	0	UBXN6,missense_variant,p.Glu90Lys,ENST00000301281,;UBXN6,missense_variant,p.Glu63Lys,ENST00000591919,;UBXN6,missense_variant,p.Glu66Lys,ENST00000592515,;UBXN6,missense_variant,p.Glu37Lys,ENST00000394765,;CTB-50L17.16,downstream_gene_variant,,ENST00000591414,;CTB-50L17.16,downstream_gene_variant,,ENST00000590989,;CTB-50L17.9,upstream_gene_variant,,ENST00000592034,;UBXN6,upstream_gene_variant,,ENST00000588238,;UBXN6,upstream_gene_variant,,ENST00000593024,;UBXN6,upstream_gene_variant,,ENST00000592358,;	T	ENSG00000167671	ENST00000301281	Transcript	missense_variant	393	268	90	E/K	Gaa/Aaa	rs568232630	.	.	-1	UBXN6	HGNC	14928	protein_coding	YES	CCDS12129.1	ENSP00000301281	UBXN6_HUMAN	.	UPI000004EF28	.	deleterious(0)	benign(0.013)	3/11	.	hmmpanther:PTHR23153,hmmpanther:PTHR23153:SF35	T:0.0008	T:0	T:0	.	T:0	T:0.001	T:0.0031	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCGGCTT	byFrequency|byCluster|by1000G	4	BLCA
ZNF225	0	.	GRCh37	19	44635316	44635316	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549G>C	p.Lys183Asn	p.K183N	ENST00000262894	5/5	117	93	24	93	93	0	ZNF225,missense_variant,p.Lys183Asn,ENST00000262894,;ZNF225,missense_variant,p.Lys183Asn,ENST00000590612,;ZNF225,3_prime_UTR_variant,,ENST00000592780,;ZNF225,downstream_gene_variant,,ENST00000589155,;ZNF225,downstream_gene_variant,,ENST00000592360,;	C	ENSG00000256294	ENST00000262894	Transcript	missense_variant	829	549	183	K/N	aaG/aaC	COSM1304730	.	.	1	ZNF225	HGNC	13018	protein_coding	YES	CCDS46100.1	ENSP00000262894	ZN225_HUMAN	K7ERU6_HUMAN,K7ENA2_HUMAN	UPI000016960F	.	tolerated(0.06)	probably_damaging(0.996)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24388,hmmpanther:PTHR24388:SF20,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAAAGAGTTT	.	5	BLCA
ZNF180	0	.	GRCh37	19	44980836	44980836	+	Missense_Mutation	SNP	G	G	C	rs746226111	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1862C>G	p.Thr621Ser	p.T621S	ENST00000221327	5/5	136	93	42	119	119	0	ZNF180,missense_variant,p.Thr594Ser,ENST00000592529,;ZNF180,missense_variant,p.Thr596Ser,ENST00000391956,;ZNF180,missense_variant,p.Thr621Ser,ENST00000221327,;ZNF180,downstream_gene_variant,,ENST00000587047,;ZNF180,downstream_gene_variant,,ENST00000586637,;ZNF180,downstream_gene_variant,,ENST00000591064,;AC069278.4,upstream_gene_variant,,ENST00000591684,;ZNF180,downstream_gene_variant,,ENST00000585514,;ZNF180,3_prime_UTR_variant,,ENST00000592095,;ZNF180,3_prime_UTR_variant,,ENST00000590088,;ZNF285B,downstream_gene_variant,,ENST00000561698,;ZNF285B,downstream_gene_variant,,ENST00000318605,;	C	ENSG00000167384	ENST00000221327	Transcript	missense_variant	2144	1862	621	T/S	aCt/aGt	rs746226111,COSM1304744	.	.	-1	ZNF180	HGNC	12970	protein_coding	YES	CCDS12639.1	ENSP00000221327	ZN180_HUMAN	K7EQX9_HUMAN,K7EQP0_HUMAN	UPI000013C7BD	.	tolerated(0.06)	possibly_damaging(0.78)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF27,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGAGTAAGG	.	5	BLCA
PLIN5	0	.	GRCh37	19	4525642	4525642	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720+3G>A	.	.	ENST00000381848	.	76	58	18	79	79	0	PLIN5,splice_region_variant,,ENST00000381848,;PLIN5,downstream_gene_variant,,ENST00000588887,;PLIN5,splice_region_variant,,ENST00000589728,;CTB-50L17.14,downstream_gene_variant,,ENST00000586020,;PLIN5,downstream_gene_variant,,ENST00000590350,;	T	ENSG00000214456	ENST00000381848	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	PLIN5	HGNC	33196	protein_coding	YES	CCDS42473.1	ENSP00000371272	PLIN5_HUMAN	.	UPI00001D821D	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GCTCTCACCAG	.	3	BLCA
ERCC2	0	.	GRCh37	19	45871992	45871992	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256G>C	p.Glu86Gln	p.E86Q	ENST00000391945	5/23	33	26	7	22	22	0	ERCC2,missense_variant,p.Glu62Gln,ENST00000391941,;ERCC2,missense_variant,p.Glu86Gln,ENST00000391944,;ERCC2,missense_variant,p.Glu62Gln,ENST00000586131,;ERCC2,missense_variant,p.Glu86Gln,ENST00000391945,;ERCC2,missense_variant,p.Glu62Gln,ENST00000391940,;ERCC2,missense_variant,p.Glu86Gln,ENST00000221481,;ERCC2,missense_variant,p.Glu36Gln,ENST00000586856,;ERCC2,missense_variant,p.Glu62Gln,ENST00000485403,;ERCC2,missense_variant,p.Glu86Gln,ENST00000591309,;ERCC2,non_coding_transcript_exon_variant,,ENST00000586441,;ERCC2,non_coding_transcript_exon_variant,,ENST00000586737,;ERCC2,upstream_gene_variant,,ENST00000587376,;	G	ENSG00000104884	ENST00000391945	Transcript	missense_variant	334	256	86	E/Q	Gag/Cag	COSM1304773,COSM1750978	.	.	-1	ERCC2	HGNC	3434	protein_coding	YES	CCDS33049.1	ENSP00000375809	ERCC2_HUMAN	K7EIT8_HUMAN,A8MX75_HUMAN	UPI0000139012	.	deleterious(0)	probably_damaging(0.99)	5/23	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS51193,hmmpanther:PTHR11472:SF1,hmmpanther:PTHR11472,Gene3D:3.40.50.300,Pfam_domain:PF06733,TIGRFAM_domain:TIGR00604,SMART_domains:SM00488,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.E62Q|c.184G>C|5,SITE|p.E86Q|c.256G>C|6	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTTCAA	.	5	BLCA
ARHGAP35	0	.	GRCh37	19	47422461	47422461	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529C>G	p.Gln177Glu	p.Q177E	ENST00000404338	1/6	142	109	32	104	104	0	ARHGAP35,missense_variant,p.Gln177Glu,ENST00000404338,;	G	ENSG00000160007	ENST00000404338	Transcript	missense_variant	529	529	177	Q/E	Cag/Gag	COSM1304823,COSM1304824	.	.	1	ARHGAP35	HGNC	4591	protein_coding	YES	CCDS46127.1	ENSP00000385720	RHG35_HUMAN	.	UPI0000163F71	.	deleterious(0)	probably_damaging(0.992)	1/6	.	hmmpanther:PTHR23178,hmmpanther:PTHR23178:SF26,Pfam_domain:PF00071,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGACCAGCTC	.	5	BLCA
DHX34	0	.	GRCh37	19	47865850	47865850	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1493G>C	p.Gly498Ala	p.G498A	ENST00000328771	6/17	45	32	13	35	35	0	DHX34,missense_variant,p.Gly498Ala,ENST00000328771,;DHX34,intron_variant,,ENST00000471451,;DHX34,upstream_gene_variant,,ENST00000486327,;	C	ENSG00000134815	ENST00000328771	Transcript	missense_variant	1842	1493	498	G/A	gGa/gCa	COSM1304835	.	.	1	DHX34	HGNC	16719	protein_coding	YES	CCDS12700.1	ENSP00000331907	DHX34_HUMAN	.	UPI0000202759	.	deleterious(0.01)	probably_damaging(0.999)	6/17	.	PROSITE_profiles:PS51194,hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF110,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCGGAGTCT	.	5	BLCA
PPFIA3	0	.	GRCh37	19	49652416	49652416	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3276G>A	p.%3D	p.Q1092Q	ENST00000334186	26/30	58	40	18	31	31	0	PPFIA3,synonymous_variant,p.%3D,ENST00000334186,;PPFIA3,synonymous_variant,p.%3D,ENST00000602351,;PPFIA3,synonymous_variant,p.%3D,ENST00000602897,;PPFIA3,synonymous_variant,p.%3D,ENST00000602848,;HRC,downstream_gene_variant,,ENST00000598858,;HRC,downstream_gene_variant,,ENST00000595625,;HRC,downstream_gene_variant,,ENST00000252825,;PPFIA3,3_prime_UTR_variant,,ENST00000602655,;PPFIA3,non_coding_transcript_exon_variant,,ENST00000602905,;PPFIA3,upstream_gene_variant,,ENST00000602783,;HRC,downstream_gene_variant,,ENST00000595167,;PPFIA3,downstream_gene_variant,,ENST00000602800,;	A	ENSG00000177380	ENST00000334186	Transcript	synonymous_variant	3625	3276	1092	Q	caG/caA	COSM1304896	.	.	1	PPFIA3	HGNC	9247	protein_coding	YES	CCDS12758.1	ENSP00000335614	LIPA3_HUMAN	R4GNF1_HUMAN	UPI00001AE464	.	.	.	26/30	.	PROSITE_profiles:PS50105,hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF4,Pfam_domain:PF07647,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGCAGAATGC	.	5	BLCA
RCN3	0	.	GRCh37	19	50031853	50031853	+	Missense_Mutation	SNP	G	G	A	rs772158024	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124G>A	p.Asp42Asn	p.D42N	ENST00000270645	2/7	158	115	42	128	126	2	RCN3,missense_variant,p.Asp42Asn,ENST00000597801,;RCN3,missense_variant,p.Asp42Asn,ENST00000270645,;FCGRT,downstream_gene_variant,,ENST00000221466,;FCGRT,downstream_gene_variant,,ENST00000598076,;FCGRT,downstream_gene_variant,,ENST00000596975,;FCGRT,downstream_gene_variant,,ENST00000593381,;RCN3,upstream_gene_variant,,ENST00000598833,;FCGRT,downstream_gene_variant,,ENST00000599988,;FCGRT,downstream_gene_variant,,ENST00000426395,;RCN3,non_coding_transcript_exon_variant,,ENST00000593644,;FCGRT,downstream_gene_variant,,ENST00000594823,;FCGRT,downstream_gene_variant,,ENST00000593431,;FCGRT,downstream_gene_variant,,ENST00000596147,;FCGRT,downstream_gene_variant,,ENST00000598949,;FCGRT,downstream_gene_variant,,ENST00000598319,;FCGRT,downstream_gene_variant,,ENST00000598927,;FCGRT,downstream_gene_variant,,ENST00000598936,;FCGRT,downstream_gene_variant,,ENST00000452439,;FCGRT,downstream_gene_variant,,ENST00000595881,;	A	ENSG00000142552	ENST00000270645	Transcript	missense_variant	571	124	42	D/N	Gac/Aac	rs772158024,COSM1304910	.	.	1	RCN3	HGNC	21145	protein_coding	YES	CCDS12771.1	ENSP00000270645	RCN3_HUMAN	.	UPI000000D8C5	.	tolerated(0.13)	benign(0.084)	2/7	.	hmmpanther:PTHR10827:SF47,hmmpanther:PTHR10827	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TGAGCGACGCT	.	3	BLCA
PNKP	0	.	GRCh37	19	50365522	50365522	+	Missense_Mutation	SNP	G	G	A	rs758045226	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1046C>T	p.Ser349Leu	p.S349L	ENST00000322344	12/17	28	20	7	19	19	0	PNKP,missense_variant,p.Ser349Leu,ENST00000600910,;PNKP,missense_variant,p.Ser349Leu,ENST00000596014,;PNKP,missense_variant,p.Ser318Leu,ENST00000600573,;PNKP,missense_variant,p.Ser349Leu,ENST00000322344,;PTOV1,downstream_gene_variant,,ENST00000601675,;PNKP,upstream_gene_variant,,ENST00000597965,;PTOV1,downstream_gene_variant,,ENST00000599732,;PTOV1,downstream_gene_variant,,ENST00000600603,;PNKP,downstream_gene_variant,,ENST00000599543,;PTOV1,downstream_gene_variant,,ENST00000391842,;PTOV1,downstream_gene_variant,,ENST00000597730,;PTOV1,downstream_gene_variant,,ENST00000601638,;PTOV1,downstream_gene_variant,,ENST00000594151,;PNKP,downstream_gene_variant,,ENST00000596726,;PTOV1,downstream_gene_variant,,ENST00000601093,;PTOV1,downstream_gene_variant,,ENST00000221557,;AC018766.5,upstream_gene_variant,,ENST00000593654,;AC018766.5,upstream_gene_variant,,ENST00000599259,;AC018766.5,upstream_gene_variant,,ENST00000601893,;AC018766.4,upstream_gene_variant,,ENST00000596624,;PTOV1,downstream_gene_variant,,ENST00000598325,;PNKP,downstream_gene_variant,,ENST00000595792,;PTOV1,downstream_gene_variant,,ENST00000600105,;PTOV1,downstream_gene_variant,,ENST00000594165,;PNKP,3_prime_UTR_variant,,ENST00000593946,;PNKP,non_coding_transcript_exon_variant,,ENST00000593706,;PNKP,non_coding_transcript_exon_variant,,ENST00000594661,;PTOV1,downstream_gene_variant,,ENST00000597793,;PNKP,upstream_gene_variant,,ENST00000599454,;PNKP,upstream_gene_variant,,ENST00000595081,;PTOV1,downstream_gene_variant,,ENST00000601612,;PTOV1,downstream_gene_variant,,ENST00000595934,;PTOV1,downstream_gene_variant,,ENST00000596424,;PNKP,upstream_gene_variant,,ENST00000601816,;PNKP,downstream_gene_variant,,ENST00000598020,;	A	ENSG00000039650	ENST00000322344	Transcript	missense_variant	1156	1046	349	S/L	tCa/tTa	rs758045226,COSM1304931,COSM1304932	.	.	-1	PNKP	HGNC	9154	protein_coding	YES	CCDS12783.1	ENSP00000323511	PNKP_HUMAN	M0R000_HUMAN,M0QYI1_HUMAN	UPI00000705EA	.	deleterious(0.05)	benign(0.005)	12/17	.	hmmpanther:PTHR12083:SF9,hmmpanther:PTHR12083,TIGRFAM_domain:TIGR01663	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCCCTGAGCGG	.	2	BLCA
SHANK1	0	.	GRCh37	19	51169762	51169762	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5455G>C	p.Glu1819Gln	p.E1819Q	ENST00000293441	22/23	22	15	6	20	20	0	SHANK1,missense_variant,p.Glu1827Gln,ENST00000391814,;SHANK1,missense_variant,p.Glu1206Gln,ENST00000391813,;SHANK1,missense_variant,p.Glu1810Gln,ENST00000359082,;SHANK1,missense_variant,p.Glu1819Gln,ENST00000293441,;SYT3,intron_variant,,ENST00000544769,;SHANK1,upstream_gene_variant,,ENST00000483981,;SHANK1,missense_variant,p.Glu77Gln,ENST00000468654,;	G	ENSG00000161681	ENST00000293441	Transcript	missense_variant	5474	5455	1819	E/Q	Gag/Cag	COSM459875	.	.	-1	SHANK1	HGNC	15474	protein_coding	YES	CCDS12799.1	ENSP00000293441	SHAN1_HUMAN	.	UPI000013E109	.	.	unknown(0)	22/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24135:SF3,hmmpanther:PTHR24135	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTCTACAG	.	5	BLCA
LENG9	0	.	GRCh37	19	54974069	54974069	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.707C>T	p.Ala236Val	p.A236V	ENST00000333834	1/1	86	55	31	70	70	0	LENG9,missense_variant,p.Ala236Val,ENST00000333834,;LENG8,downstream_gene_variant,,ENST00000421200,;LENG8,downstream_gene_variant,,ENST00000326764,;LENG8,downstream_gene_variant,,ENST00000376526,;LENG8,downstream_gene_variant,,ENST00000376514,;CDC42EP5,downstream_gene_variant,,ENST00000301200,;LENG8,downstream_gene_variant,,ENST00000431846,;	A	ENSG00000182909	ENST00000333834	Transcript	missense_variant	826	707	236	A/V	gCc/gTc	COSM1305092	.	.	-1	LENG9	HGNC	16306	protein_coding	YES	CCDS12895.2	ENSP00000331647	LENG9_HUMAN	.	UPI000059D7A2	.	tolerated(0.15)	benign(0.004)	1/1	.	hmmpanther:PTHR21495,hmmpanther:PTHR21495:SF39	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGGGCCGCC	.	5	BLCA
EPS8L1	0	.	GRCh37	19	55593171	55593171	+	Missense_Mutation	SNP	G	G	C	rs770704955	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.805G>C	p.Glu269Gln	p.E269Q	ENST00000201647	9/20	71	50	20	78	78	0	EPS8L1,missense_variant,p.Glu251Gln,ENST00000586329,;EPS8L1,missense_variant,p.Glu142Gln,ENST00000245618,;EPS8L1,missense_variant,p.Glu269Gln,ENST00000201647,;EPS8L1,missense_variant,p.Glu205Gln,ENST00000540810,;EPS8L1,intron_variant,,ENST00000588359,;EPS8L1,non_coding_transcript_exon_variant,,ENST00000592824,;EPS8L1,upstream_gene_variant,,ENST00000587901,;EPS8L1,upstream_gene_variant,,ENST00000585347,;EPS8L1,missense_variant,p.Glu231Gln,ENST00000587786,;EPS8L1,non_coding_transcript_exon_variant,,ENST00000592102,;EPS8L1,non_coding_transcript_exon_variant,,ENST00000590610,;EPS8L1,non_coding_transcript_exon_variant,,ENST00000590232,;EPS8L1,non_coding_transcript_exon_variant,,ENST00000592284,;EPS8L1,downstream_gene_variant,,ENST00000592044,;EPS8L1,upstream_gene_variant,,ENST00000589694,;EPS8L1,downstream_gene_variant,,ENST00000592318,;EPS8L1,downstream_gene_variant,,ENST00000591219,;EPS8L1,upstream_gene_variant,,ENST00000589362,;	C	ENSG00000131037	ENST00000201647	Transcript	missense_variant	861	805	269	E/Q	Gag/Cag	rs770704955,COSM1305110,COSM1305111,COSM1305112	.	.	1	EPS8L1	HGNC	21295	protein_coding	YES	CCDS12914.1	ENSP00000201647	ES8L1_HUMAN	B4DKV7_HUMAN	UPI000013C630	.	deleterious(0)	probably_damaging(0.998)	9/20	.	hmmpanther:PTHR12287,hmmpanther:PTHR12287:SF19	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGTAGAGAGC	.	5	BLCA
NLRP4	0	.	GRCh37	19	56388434	56388434	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2598G>A	p.%3D	p.L866L	ENST00000301295	8/10	236	177	59	217	216	1	NLRP4,synonymous_variant,p.%3D,ENST00000589437,;NLRP4,synonymous_variant,p.%3D,ENST00000301295,;NLRP4,synonymous_variant,p.%3D,ENST00000346986,;NLRP4,synonymous_variant,p.%3D,ENST00000587891,;	A	ENSG00000160505	ENST00000301295	Transcript	synonymous_variant	3020	2598	866	L	ctG/ctA	COSM1305151	.	.	1	NLRP4	HGNC	22943	protein_coding	YES	CCDS12936.1	ENSP00000301295	NALP4_HUMAN	K7ES09_HUMAN	UPI000013E6FD	.	.	.	8/10	.	hmmpanther:PTHR24106:SF8,hmmpanther:PTHR24106,Pfam_domain:PF13516,Gene3D:3.80.10.10,SMART_domains:SM00368,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCTGAAGAT	.	5	BLCA
ZNF583	0	.	GRCh37	19	56935524	56935524	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1497A>T	p.Lys499Asn	p.K499N	ENST00000333201	5/5	138	98	40	118	118	0	ZNF583,missense_variant,p.Lys499Asn,ENST00000333201,;ZNF583,missense_variant,p.Lys499Asn,ENST00000291598,;ZNF583,downstream_gene_variant,,ENST00000391778,;ZNF583,downstream_gene_variant,,ENST00000537943,;ZNF583,intron_variant,,ENST00000585612,;	T	ENSG00000198440	ENST00000333201	Transcript	missense_variant	1707	1497	499	K/N	aaA/aaT	COSM1305159	.	.	1	ZNF583	HGNC	26427	protein_coding	YES	CCDS12943.1	ENSP00000388502	ZN583_HUMAN	I3L0C4_HUMAN,F5GZQ5_HUMAN	UPI000013E700	.	deleterious(0)	probably_damaging(0.999)	5/5	.	Superfamily_domains:SSF57667,Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24387:SF211,hmmpanther:PTHR24387,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGAAAGCATT	.	5	BLCA
ZNF264	0	.	GRCh37	19	57716855	57716855	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251G>A	p.Cys84Tyr	p.C84Y	ENST00000263095	3/4	35	27	7	24	24	0	ZNF264,missense_variant,p.Cys84Tyr,ENST00000263095,;ZNF264,missense_variant,p.Cys84Tyr,ENST00000536056,;ZNF264,intron_variant,,ENST00000597447,;	A	ENSG00000083844	ENST00000263095	Transcript	missense_variant	665	251	84	C/Y	tGt/tAt	COSM1305182	.	.	1	ZNF264	HGNC	13057	protein_coding	YES	CCDS33127.1	ENSP00000263095	ZN264_HUMAN	M0QXF3_HUMAN	UPI000013C33B	.	tolerated(0.4)	benign(0.002)	3/4	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24384:SF96,hmmpanther:PTHR24384	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTGTCCAG	.	4	BLCA
CAMSAP3	0	.	GRCh37	19	7676817	7676817	+	Missense_Mutation	SNP	G	G	A	rs769934188	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1519G>A	p.Asp507Asn	p.D507N	ENST00000446248	13/19	70	52	18	60	59	1	CAMSAP3,missense_variant,p.Asp480Asn,ENST00000160298,;CAMSAP3,missense_variant,p.Asp507Asn,ENST00000446248,;CAMSAP3,upstream_gene_variant,,ENST00000593434,;CAMSAP3,upstream_gene_variant,,ENST00000595692,;	A	ENSG00000076826	ENST00000446248	Transcript	missense_variant	1620	1519	507	D/N	Gac/Aac	rs769934188,COSM1305298,COSM1305299,COSM1305300	.	.	1	CAMSAP3	HGNC	29307	protein_coding	YES	CCDS45947.1	ENSP00000416797	CAMP3_HUMAN	Q8WZ12_HUMAN,D6W648_HUMAN	UPI0000161861	.	tolerated(0.37)	probably_damaging(0.995)	13/19	.	hmmpanther:PTHR21595,hmmpanther:PTHR21595:SF2	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCCGACGGC	.	5	BLCA
MED16	0	.	GRCh37	19	872058	872058	+	Silent	SNP	G	G	T	rs750429963	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1966C>A	p.%3D	p.R656R	ENST00000325464	12/16	71	56	15	57	57	0	MED16,synonymous_variant,p.%3D,ENST00000395808,;MED16,synonymous_variant,p.%3D,ENST00000325464,;MED16,synonymous_variant,p.%3D,ENST00000312090,;MED16,synonymous_variant,p.%3D,ENST00000589119,;MED16,intron_variant,,ENST00000607471,;MED16,intron_variant,,ENST00000269814,;MED16,downstream_gene_variant,,ENST00000586017,;MED16,downstream_gene_variant,,ENST00000592943,;MED16,downstream_gene_variant,,ENST00000606828,;MED16,3_prime_UTR_variant,,ENST00000606248,;	T	ENSG00000175221	ENST00000325464	Transcript	synonymous_variant	2117	1966	656	R	Cgg/Agg	rs750429963,COSM1305335	.	.	-1	MED16	HGNC	17556	protein_coding	YES	CCDS12047.1	ENSP00000325612	MED16_HUMAN	K7EKX6_HUMAN,B9TX09_HUMAN	UPI0000141671	.	.	.	12/16	.	hmmpanther:PTHR13224:SF6,hmmpanther:PTHR13224,Pfam_domain:PF11635	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCCGAAGCA	.	5	BLCA
MUC16	0	.	GRCh37	19	9064866	9064866	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22580C>A	p.Ser7527Tyr	p.S7527Y	ENST00000397910	3/84	97	67	29	85	85	0	MUC16,missense_variant,p.Ser7527Tyr,ENST00000397910,;	T	ENSG00000181143	ENST00000397910	Transcript	missense_variant	22784	22580	7527	S/Y	tCt/tAt	COSM321784,COSM321785,COSM321786	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	3/84	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S7527Y|c.22580C>A|3,SITE|p.S7527Y|c.22580C>A|3,CODON|p.S3160Y|c.9479C>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTAGATAAG	.	5	BLCA
OR7G2	0	.	GRCh37	19	9213259	9213259	+	Missense_Mutation	SNP	T	T	C	rs770212648	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724A>G	p.Ile242Val	p.I242V	ENST00000305456	1/1	127	97	30	83	83	0	OR7G2,missense_variant,p.Ile242Val,ENST00000305456,;	C	ENSG00000170923	ENST00000305456	Transcript	missense_variant	724	724	242	I/V	Atc/Gtc	rs770212648,COSM1305425	.	.	-1	OR7G2	HGNC	8466	protein_coding	YES	CCDS32897.1	ENSP00000303822	OR7G2_HUMAN	.	UPI00000472B7	.	deleterious(0.02)	benign(0.31)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF185,hmmpanther:PTHR26451,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGATCTGAG	.	5	BLCA
UBE4B	0	.	GRCh37	1	10239490	10239490	+	Silent	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3717C>G	p.%3D	p.T1239T	ENST00000343090	27/28	138	116	21	125	125	0	UBE4B,synonymous_variant,p.%3D,ENST00000377157,;UBE4B,synonymous_variant,p.%3D,ENST00000253251,;UBE4B,synonymous_variant,p.%3D,ENST00000343090,;UBE4B,non_coding_transcript_exon_variant,,ENST00000465408,;UBE4B,non_coding_transcript_exon_variant,,ENST00000487244,;	G	ENSG00000130939	ENST00000343090	Transcript	synonymous_variant	3792	3717	1239	T	acC/acG	COSM1294628,COSM1294627	.	.	1	UBE4B	HGNC	12500	protein_coding	YES	CCDS41245.1	ENSP00000343001	UBE4B_HUMAN	.	UPI0000137944	.	.	.	27/28	.	PROSITE_profiles:PS51698,hmmpanther:PTHR13931:SF13,hmmpanther:PTHR13931,Pfam_domain:PF04564,Gene3D:3.30.40.10,SMART_domains:SM00504,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACACCCTCAT	.	4	BLCA
OVGP1	0	.	GRCh37	1	111966296	111966296	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.352G>C	p.Glu118Gln	p.E118Q	ENST00000369732	5/11	98	76	22	66	66	0	OVGP1,missense_variant,p.Glu118Gln,ENST00000369732,;OVGP1,missense_variant,p.Glu58Gln,ENST00000540696,;OVGP1,upstream_gene_variant,,ENST00000481495,;	G	ENSG00000085465	ENST00000369732	Transcript	missense_variant	408	352	118	E/Q	Gaa/Caa	COSM1294723,COSM1294724	.	.	-1	OVGP1	HGNC	8524	protein_coding	YES	CCDS834.1	ENSP00000358747	OVGP1_HUMAN	Q9UJZ3_HUMAN	UPI0000130C53	.	tolerated(0.7)	benign(0.072)	5/11	.	hmmpanther:PTHR11177,hmmpanther:PTHR11177:SF114,Gene3D:3.20.20.80,Pfam_domain:PF00704,SMART_domains:SM00636,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCACGGT	.	5	BLCA
MAGI3	0	.	GRCh37	1	114196636	114196636	+	Silent	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2625A>G	p.%3D	p.P875P	ENST00000307546	15/21	266	192	73	213	213	0	MAGI3,synonymous_variant,p.%3D,ENST00000369617,;MAGI3,synonymous_variant,p.%3D,ENST00000369615,;MAGI3,synonymous_variant,p.%3D,ENST00000307546,;MAGI3,synonymous_variant,p.%3D,ENST00000369611,;	G	ENSG00000081026	ENST00000307546	Transcript	synonymous_variant	2700	2625	875	P	ccA/ccG	COSM1294745,COSM1294744	.	.	1	MAGI3	HGNC	29647	protein_coding	YES	CCDS44196.1	ENSP00000304604	MAGI3_HUMAN	.	UPI00004589AE	.	.	.	15/21	.	PROSITE_profiles:PS50106,hmmpanther:PTHR10316:SF10,hmmpanther:PTHR10316,Gene3D:2.30.42.10,Pfam_domain:PF00595,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCAGGAGG	.	5	BLCA
CD101	0	.	GRCh37	1	117559992	117559992	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1509C>G	p.Ile503Met	p.I503M	ENST00000256652	5/10	123	92	31	95	94	1	CD101,missense_variant,p.Ile503Met,ENST00000369470,;CD101,missense_variant,p.Ile503Met,ENST00000256652,;	G	ENSG00000134256	ENST00000256652	Transcript	missense_variant	1567	1509	503	I/M	atC/atG	COSM1294787	.	.	1	CD101	HGNC	5949	protein_coding	YES	CCDS891.1	ENSP00000256652	IGSF2_HUMAN	.	UPI000013CF1F	.	tolerated(0.12)	benign(0.043)	5/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12207:SF20,hmmpanther:PTHR12207,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCCATCACAGA	.	4	BLCA
SPAG17	0	.	GRCh37	1	118506543	118506543	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6551A>G	p.Asn2184Ser	p.N2184S	ENST00000336338	48/49	160	122	38	102	102	0	SPAG17,missense_variant,p.Asn2184Ser,ENST00000336338,;WDR3,3_prime_UTR_variant,,ENST00000349139,;SPAG17,downstream_gene_variant,,ENST00000437255,;SPAG17,splice_region_variant,,ENST00000469128,;SPAG17,splice_region_variant,,ENST00000466857,;SPAG17,non_coding_transcript_exon_variant,,ENST00000478697,;	C	ENSG00000155761	ENST00000336338	Transcript	missense_variant	6617	6551	2184	N/S	aAt/aGt	COSM1294797	.	.	-1	SPAG17	HGNC	26620	protein_coding	YES	CCDS899.1	ENSP00000337804	SPG17_HUMAN	A7LBF9_HUMAN	UPI00001601FD	.	tolerated(0.4)	benign(0.275)	48/49	.	hmmpanther:PTHR21963	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAATTGCTG	.	5	BLCA
NOTCH2	0	.	GRCh37	1	120462024	120462024	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5692G>A	p.Asp1898Asn	p.D1898N	ENST00000256646	31/34	114	88	25	77	77	0	NOTCH2,missense_variant,p.Asp1898Asn,ENST00000256646,;NOTCH2,downstream_gene_variant,,ENST00000493703,;	T	ENSG00000134250	ENST00000256646	Transcript	missense_variant	5912	5692	1898	D/N	Gat/Aat	COSM1294815	.	.	-1	NOTCH2	HGNC	7882	protein_coding	YES	CCDS908.1	ENSP00000256646	NOTC2_HUMAN	Q9UFD5_HUMAN,Q13560_HUMAN	UPI000013CF1D	.	tolerated(0.13)	probably_damaging(0.998)	31/34	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24033:SF4,hmmpanther:PTHR24033,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,PIRSF_domain:PIRSF002279,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCATCCAGGA	.	5	BLCA
ITGA10	0	.	GRCh37	1	145541826	145541826	+	Missense_Mutation	SNP	C	C	T	rs140404631	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3349C>T	p.Arg1117Trp	p.R1117W	ENST00000369304	29/30	161	124	37	152	152	0	ITGA10,missense_variant,p.Arg986Trp,ENST00000538811,;ITGA10,missense_variant,p.Arg974Trp,ENST00000539363,;ITGA10,missense_variant,p.Arg1117Trp,ENST00000369304,;RP11-315I20.3,non_coding_transcript_exon_variant,,ENST00000415065,;	T	ENSG00000143127	ENST00000369304	Transcript	missense_variant	3524	3349	1117	R/W	Cgg/Tgg	rs140404631,COSM1294935	.	.	1	ITGA10	HGNC	6135	protein_coding	YES	CCDS918.1	ENSP00000358310	ITA10_HUMAN	.	UPI000013D8D1	.	deleterious(0)	possibly_damaging(0.762)	29/30	.	hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF26,Gene3D:1jv2A04	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0007	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACCCGGCCT	byCluster|by1000G	5	BLCA
HIST2H3PS2	0	.	GRCh37	1	149399188	149399188	+	3'Flank	SNP	G	G	A	rs782787308	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000392948	.	91	73	18	63	63	0	HIST2H3PS2,downstream_gene_variant,,ENST00000392948,;RP5-998N21.7,upstream_gene_variant,,ENST00000444624,;HIST2H2BB,non_coding_transcript_exon_variant,,ENST00000609585,;RP5-998N21.10,intron_variant,,ENST00000609879,;HIST2H2BB,upstream_gene_variant,,ENST00000449108,;	A	ENSG00000203818	ENST00000392948	Transcript	downstream_gene_variant	.	.	.	.	.	rs782787308	.	943	-1	HIST2H3PS2	HGNC	32060	protein_coding	YES	.	ENSP00000476960	.	Q5TEC6_HUMAN	UPI0000470A88	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCGCGAAAAA	.	4	BLCA
FCGR1A	0	.	GRCh37	1	149762804	149762804	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856C>T	p.Pro286Ser	p.P286S	ENST00000369168	6/6	143	116	27	137	137	0	FCGR1A,missense_variant,p.Pro194Ser,ENST00000444948,;FCGR1A,missense_variant,p.Pro286Ser,ENST00000369168,;HIST2H2BF,intron_variant,,ENST00000545683,;HIST2H2BF,downstream_gene_variant,,ENST00000427880,;RP11-196G18.3,intron_variant,,ENST00000428289,;RP11-196G18.21,intron_variant,,ENST00000420462,;FCGR1A,non_coding_transcript_exon_variant,,ENST00000489704,;	T	ENSG00000150337	ENST00000369168	Transcript	missense_variant	910	856	286	P/S	Cca/Tca	COSM1294964,COSM1498147	.	.	1	FCGR1A	HGNC	3613	protein_coding	YES	CCDS933.1	ENSP00000358165	FCGR1_HUMAN	.	UPI000004A8BE	.	tolerated(0.53)	benign(0.018)	6/6	.	hmmpanther:PTHR11481:SF11,hmmpanther:PTHR11481	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AGTTACCAACT	.	3	BLCA
HORMAD1	0	.	GRCh37	1	150679028	150679028	+	Splice_Site	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.804+1G>T	.	p.X268_splice	ENST00000361824	.	129	115	14	65	65	0	HORMAD1,splice_donor_variant,,ENST00000361824,;HORMAD1,splice_donor_variant,,ENST00000368993,;HORMAD1,splice_donor_variant,,ENST00000322343,;HORMAD1,splice_donor_variant,,ENST00000368995,;HORMAD1,downstream_gene_variant,,ENST00000442853,;HORMAD1,downstream_gene_variant,,ENST00000368987,;RNU6-1042P,downstream_gene_variant,,ENST00000384204,;HORMAD1,splice_donor_variant,,ENST00000486497,;HORMAD1,upstream_gene_variant,,ENST00000470397,;	A	ENSG00000143452	ENST00000361824	Transcript	splice_donor_variant	.	.	.	.	.	COSM1294999	.	.	-1	HORMAD1	HGNC	25245	protein_coding	YES	CCDS967.1	ENSP00000355167	HORM1_HUMAN	.	UPI000000DBE5	.	.	.	.	10/14	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T267I|c.800C>T|3	RADIA|MUTECT|MUSE|VARSCANS	ACTTACACTTG	.	4	BLCA
PRUNE	0	.	GRCh37	1	150990968	150990968	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158T>G	p.Val53Gly	p.V53G	ENST00000271620	3/8	298	250	48	165	164	1	PRUNE,missense_variant,p.Val53Gly,ENST00000271620,;PRUNE,intron_variant,,ENST00000431193,;PRUNE,intron_variant,,ENST00000368936,;PRUNE,intron_variant,,ENST00000368935,;PRUNE,intron_variant,,ENST00000271619,;PRUNE,intron_variant,,ENST00000368937,;PRUNE,intron_variant,,ENST00000450884,;RNU6-884P,downstream_gene_variant,,ENST00000363889,;PRUNE,non_coding_transcript_exon_variant,,ENST00000475722,;PRUNE,intron_variant,,ENST00000462440,;PRUNE,intron_variant,,ENST00000467771,;	G	ENSG00000143363	ENST00000271620	Transcript	missense_variant	314	158	53	V/G	gTg/gGg	COSM1295009	.	.	1	PRUNE	HGNC	13420	protein_coding	YES	CCDS977.1	ENSP00000271620	PRUNE_HUMAN	Q5SZF2_HUMAN,B7ZB72_HUMAN	UPI000004BF0B	.	deleterious(0)	probably_damaging(0.94)	3/8	.	hmmpanther:PTHR21466,hmmpanther:PTHR21466:SF13,Gene3D:1wpnA00,Pfam_domain:PF01368,Superfamily_domains:SSF64182	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CTTTGTGCCAG	.	2	BLCA
C1orf56	0	.	GRCh37	1	151020344	151020344	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21G>A	p.%3D	p.A7A	ENST00000368926	1/2	38	30	8	28	28	0	C1orf56,synonymous_variant,p.%3D,ENST00000368926,;CDC42SE1,downstream_gene_variant,,ENST00000357235,;BNIPL,downstream_gene_variant,,ENST00000392802,;BNIPL,downstream_gene_variant,,ENST00000368931,;BNIPL,downstream_gene_variant,,ENST00000295294,;CDC42SE1,downstream_gene_variant,,ENST00000540998,;CDC42SE1,downstream_gene_variant,,ENST00000439374,;BNIPL,downstream_gene_variant,,ENST00000361277,;BNIPL,downstream_gene_variant,,ENST00000491386,;C1orf56,upstream_gene_variant,,ENST00000465135,;C1orf56,upstream_gene_variant,,ENST00000473308,;CDC42SE1,downstream_gene_variant,,ENST00000483763,;BNIPL,downstream_gene_variant,,ENST00000485855,;	A	ENSG00000143443	ENST00000368926	Transcript	synonymous_variant	129	21	7	A	gcG/gcA	COSM1295018	.	.	1	C1orf56	HGNC	26045	protein_coding	YES	CCDS980.1	ENSP00000357922	MENT_HUMAN	.	UPI0000048EEB	.	.	.	1/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR16240	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCGCGCTGCT	.	4	BLCA
LCE3A	0	.	GRCh37	1	152595580	152595580	+	5'Flank	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000335674	.	131	71	60	79	77	2	LCE3A,upstream_gene_variant,,ENST00000335674,;	T	ENSG00000185962	ENST00000335674	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1	-1	LCE3A	HGNC	29461	protein_coding	YES	CCDS1017.1	ENSP00000335006	LCE3A_HUMAN	.	UPI00001927D2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GACATCTAGGC	.	2	BLCA
RP11-201K10.3	0	.	GRCh37	1	155145217	155145217	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358C>T	p.His120Tyr	p.H120Y	ENST00000473363	3/5	47	32	14	48	48	0	RP11-201K10.3,missense_variant,p.His120Tyr,ENST00000473363,;KRTCAP2,synonymous_variant,p.%3D,ENST00000295682,;TRIM46,upstream_gene_variant,,ENST00000368382,;TRIM46,upstream_gene_variant,,ENST00000392451,;TRIM46,upstream_gene_variant,,ENST00000334634,;TRIM46,upstream_gene_variant,,ENST00000543729,;TRIM46,upstream_gene_variant,,ENST00000368383,;TRIM46,upstream_gene_variant,,ENST00000545012,;TRIM46,upstream_gene_variant,,ENST00000368385,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000492892,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000463527,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000487350,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000491084,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000490672,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000471891,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000482246,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000497317,;KRTCAP2,intron_variant,,ENST00000461136,;TRIM46,upstream_gene_variant,,ENST00000474430,;TRIM46,upstream_gene_variant,,ENST00000468878,;TRIM46,upstream_gene_variant,,ENST00000464760,;	A	ENSG00000273088	ENST00000473363	Transcript	missense_variant	358	358	120	H/Y	Cac/Tac	COSM1295162	.	.	-1	RP11-201K10.3	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000477381	.	.	UPI0003B928F7	.	.	unknown(0)	3/5	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTGAGCGA	.	5	BLCA
HCN3	0	.	GRCh37	1	155247568	155247568	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187C>T	p.Arg63Trp	p.R63W	ENST00000368358	1/8	31	20	11	14	14	0	HCN3,missense_variant,p.Arg63Trp,ENST00000368358,;CLK2,upstream_gene_variant,,ENST00000361168,;CLK2,upstream_gene_variant,,ENST00000536801,;CLK2,upstream_gene_variant,,ENST00000355560,;CLK2,upstream_gene_variant,,ENST00000368361,;HCN3,non_coding_transcript_exon_variant,,ENST00000496230,;CLK2,intron_variant,,ENST00000471047,;CLK2,upstream_gene_variant,,ENST00000476983,;HCN3,upstream_gene_variant,,ENST00000467204,;	T	ENSG00000143630	ENST00000368358	Transcript	missense_variant	195	187	63	R/W	Cgg/Tgg	COSM1295169	.	.	1	HCN3	HGNC	19183	protein_coding	YES	CCDS1108.1	ENSP00000357342	HCN3_HUMAN	.	UPI00000559A6	.	deleterious(0)	probably_damaging(0.978)	1/8	.	hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF374,Pfam_domain:PF08412	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCTTCGGGTG	.	3	BLCA
HCN3	0	.	GRCh37	1	155247576	155247576	+	Silent	SNP	C	C	T	rs756638423	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195C>T	p.%3D	p.F65F	ENST00000368358	1/8	30	18	11	16	16	0	HCN3,synonymous_variant,p.%3D,ENST00000368358,;CLK2,upstream_gene_variant,,ENST00000361168,;CLK2,upstream_gene_variant,,ENST00000536801,;CLK2,upstream_gene_variant,,ENST00000355560,;CLK2,upstream_gene_variant,,ENST00000368361,;HCN3,non_coding_transcript_exon_variant,,ENST00000496230,;CLK2,intron_variant,,ENST00000471047,;CLK2,upstream_gene_variant,,ENST00000476983,;HCN3,upstream_gene_variant,,ENST00000467204,;	T	ENSG00000143630	ENST00000368358	Transcript	synonymous_variant	203	195	65	F	ttC/ttT	rs756638423,COSM1295170	.	.	1	HCN3	HGNC	19183	protein_coding	YES	CCDS1108.1	ENSP00000357342	HCN3_HUMAN	.	UPI00000559A6	.	.	.	1/8	.	hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF374,Pfam_domain:PF08412	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGTTCGGCAG	byFrequency	3	BLCA
ASH1L	0	.	GRCh37	1	155490915	155490915	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396G>A	p.%3D	p.K132K	ENST00000392403	2/28	385	303	81	286	285	0	ASH1L,synonymous_variant,p.%3D,ENST00000368346,;ASH1L,synonymous_variant,p.%3D,ENST00000548830,;ASH1L,synonymous_variant,p.%3D,ENST00000392403,;	T	ENSG00000116539	ENST00000392403	Transcript	synonymous_variant	875	396	132	K	aaG/aaA	COSM1295178	.	.	-1	ASH1L	HGNC	19088	protein_coding	YES	CCDS1113.2	ENSP00000376204	ASH1L_HUMAN	.	UPI0000DACAC8	.	.	.	2/28	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF311	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCTTTTC	.	5	BLCA
SYT11	0	.	GRCh37	1	155838178	155838178	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457G>C	p.Glu153Gln	p.E153Q	ENST00000368324	2/4	195	147	48	158	157	1	SYT11,missense_variant,p.Glu153Gln,ENST00000368324,;SYT11,intron_variant,,ENST00000539162,;	C	ENSG00000132718	ENST00000368324	Transcript	missense_variant	710	457	153	E/Q	Gag/Cag	COSM1295206	.	.	1	SYT11	HGNC	19239	protein_coding	YES	CCDS1122.1	ENSP00000357307	SYT11_HUMAN	B4DK40_HUMAN	UPI00002049CC	.	tolerated(0.12)	benign(0.232)	2/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10024:SF115,hmmpanther:PTHR10024,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCCAGAGGAG	.	3	BLCA
SYT11	0	.	GRCh37	1	155838197	155838197	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.476G>A	p.Gly159Glu	p.G159E	ENST00000368324	2/4	169	128	41	136	135	1	SYT11,missense_variant,p.Gly159Glu,ENST00000368324,;SYT11,intron_variant,,ENST00000539162,;	A	ENSG00000132718	ENST00000368324	Transcript	missense_variant	729	476	159	G/E	gGa/gAa	COSM1295207	.	.	1	SYT11	HGNC	19239	protein_coding	YES	CCDS1122.1	ENSP00000357307	SYT11_HUMAN	B4DK40_HUMAN	UPI00002049CC	.	deleterious(0)	probably_damaging(1)	2/4	.	hmmpanther:PTHR10024:SF115,hmmpanther:PTHR10024,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTAGGATCCC	.	3	BLCA
SLC25A44	0	.	GRCh37	1	156180072	156180072	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.795G>A	p.%3D	p.L265L	ENST00000359511	4/4	110	74	35	101	101	0	SLC25A44,synonymous_variant,p.%3D,ENST00000423538,;SLC25A44,synonymous_variant,p.%3D,ENST00000359511,;PMF1,upstream_gene_variant,,ENST00000567140,;PMF1-BGLAP,upstream_gene_variant,,ENST00000368276,;PMF1,upstream_gene_variant,,ENST00000368273,;PMF1-BGLAP,upstream_gene_variant,,ENST00000490491,;PMF1,upstream_gene_variant,,ENST00000565805,;PMF1,upstream_gene_variant,,ENST00000368277,;PMF1,upstream_gene_variant,,ENST00000368279,;PMF1-BGLAP,upstream_gene_variant,,ENST00000320139,;SLC25A44,non_coding_transcript_exon_variant,,ENST00000469537,;SLC25A44,non_coding_transcript_exon_variant,,ENST00000468973,;PMF1,upstream_gene_variant,,ENST00000606952,;PMF1,upstream_gene_variant,,ENST00000497069,;PMF1,upstream_gene_variant,,ENST00000466489,;	A	ENSG00000160785	ENST00000359511	Transcript	synonymous_variant	967	795	265	L	ctG/ctA	COSM1295221	.	.	1	SLC25A44	HGNC	29036	protein_coding	YES	CCDS1133.1	ENSP00000352497	S2544_HUMAN	.	UPI0000073CAD	.	.	.	4/4	.	Superfamily_domains:0048588,Pfam_domain:PF00153,Gene3D:1okcA00,hmmpanther:PTHR24089:SF41,hmmpanther:PTHR24089,PROSITE_profiles:PS50920	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Q264R|c.791A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTGATGGC	.	5	BLCA
APOA1BP	0	.	GRCh37	1	156561602	156561602	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6C>T	p.%3D	p.S2S	ENST00000368235	1/6	18	15	3	19	19	0	APOA1BP,synonymous_variant,p.%3D,ENST00000368235,;APOA1BP,synonymous_variant,p.%3D,ENST00000368234,;APOA1BP,synonymous_variant,p.%3D,ENST00000368233,;GPATCH4,downstream_gene_variant,,ENST00000438976,;GPATCH4,downstream_gene_variant,,ENST00000368232,;GPATCH4,downstream_gene_variant,,ENST00000415314,;AL365181.1,upstream_gene_variant,,ENST00000581084,;APOA1BP,upstream_gene_variant,,ENST00000467374,;GPATCH4,downstream_gene_variant,,ENST00000497287,;APOA1BP,upstream_gene_variant,,ENST00000488840,;GPATCH4,downstream_gene_variant,,ENST00000531129,;GPATCH4,downstream_gene_variant,,ENST00000498756,;GPATCH4,downstream_gene_variant,,ENST00000498641,;GPATCH4,downstream_gene_variant,,ENST00000529520,;GPATCH4,downstream_gene_variant,,ENST00000494414,;GPATCH4,downstream_gene_variant,,ENST00000473910,;GPATCH4,downstream_gene_variant,,ENST00000474904,;GPATCH4,downstream_gene_variant,,ENST00000463513,;	T	ENSG00000163382	ENST00000368235	Transcript	synonymous_variant	49	6	2	S	tcC/tcT	COSM1295235	.	.	1	APOA1BP	HGNC	18453	protein_coding	YES	CCDS1145.1	ENSP00000357218	NNRE_HUMAN	.	UPI000013E275	.	.	.	1/6	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR13232,hmmpanther:PTHR13232:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGTCCAGGCT	.	2	BLCA
SH2D2A	0	.	GRCh37	1	156779017	156779017	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1010C>A	p.Ser337Tyr	p.S337Y	ENST00000392306	7/9	373	269	103	333	331	2	SH2D2A,missense_variant,p.Ser327Tyr,ENST00000368199,;SH2D2A,missense_variant,p.Ser309Tyr,ENST00000368198,;SH2D2A,missense_variant,p.Ser337Tyr,ENST00000392306,;SH2D2A,non_coding_transcript_exon_variant,,ENST00000468744,;SH2D2A,downstream_gene_variant,,ENST00000486350,;	T	ENSG00000027869	ENST00000392306	Transcript	missense_variant	1150	1010	337	S/Y	tCc/tAc	COSM1295249,COSM1295248	.	.	-1	SH2D2A	HGNC	10821	protein_coding	YES	CCDS53381.1	ENSP00000376123	SH22A_HUMAN	.	UPI0000F534AC	.	deleterious(0)	probably_damaging(0.997)	7/9	.	hmmpanther:PTHR14388,hmmpanther:PTHR14388:SF2	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GCCTGGACCAG	.	3	BLCA
CD1E	0	.	GRCh37	1	158326312	158326312	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929T>G	p.Leu310Arg	p.L310R	ENST00000368167	5/6	53	41	11	42	42	0	CD1E,missense_variant,p.Leu220Arg,ENST00000368165,;CD1E,missense_variant,p.Leu255Arg,ENST00000368163,;CD1E,missense_variant,p.Leu121Arg,ENST00000368166,;CD1E,missense_variant,p.Leu211Arg,ENST00000444681,;CD1E,missense_variant,p.Leu66Arg,ENST00000368154,;CD1E,missense_variant,p.Leu310Arg,ENST00000368160,;CD1E,missense_variant,p.Leu310Arg,ENST00000368167,;CD1E,missense_variant,p.Leu220Arg,ENST00000368156,;CD1E,missense_variant,p.Leu165Arg,ENST00000368155,;CD1E,missense_variant,p.Leu121Arg,ENST00000452291,;CD1E,missense_variant,p.Leu66Arg,ENST00000368157,;CD1E,synonymous_variant,p.%3D,ENST00000368162,;CD1E,synonymous_variant,p.%3D,ENST00000368161,;CD1E,synonymous_variant,p.%3D,ENST00000368164,;CD1E,3_prime_UTR_variant,,ENST00000434258,;CD1E,downstream_gene_variant,,ENST00000464822,;	G	ENSG00000158488	ENST00000368167	Transcript	missense_variant	1168	929	310	L/R	cTg/cGg	COSM1295282	.	.	1	CD1E	HGNC	1638	protein_coding	YES	CCDS41417.1	ENSP00000357149	CD1E_HUMAN	Q13974_HUMAN	UPI000046F8C2	.	deleterious(0)	probably_damaging(0.942)	5/6	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR16675:SF8,hmmpanther:PTHR16675	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCCTGATCT	.	5	BLCA
RSC1A1	0	.	GRCh37	1	15988088	15988088	+	Silent	SNP	A	A	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1725A>T	p.%3D	p.T575T	ENST00000345034	1/1	307	236	70	261	259	2	RSC1A1,synonymous_variant,p.%3D,ENST00000345034,;DDI2,3_prime_UTR_variant,,ENST00000480945,;DDI2,downstream_gene_variant,,ENST00000548451,;DDI2,downstream_gene_variant,,ENST00000320153,;	T	ENSG00000215695	ENST00000345034	Transcript	synonymous_variant	1725	1725	575	T	acA/acT	.	.	.	1	RSC1A1	HGNC	10458	protein_coding	YES	CCDS161.1	ENSP00000341963	RSCA1_HUMAN	.	UPI00000715AC	.	.	.	1/1	.	SMART_domains:SM00165,hmmpanther:PTHR15397:SF2,hmmpanther:PTHR15397,PROSITE_profiles:PS50030	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GCCACAGATAT	.	3	BLCA
PPOX	0	.	GRCh37	1	161140930	161140930	+	Silent	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1398A>C	p.%3D	p.A466A	ENST00000367999	13/13	233	189	44	179	178	0	PPOX,synonymous_variant,p.%3D,ENST00000367999,;PPOX,synonymous_variant,p.%3D,ENST00000544598,;PPOX,synonymous_variant,p.%3D,ENST00000352210,;PPOX,synonymous_variant,p.%3D,ENST00000537523,;PPOX,3_prime_UTR_variant,,ENST00000537829,;PPOX,intron_variant,,ENST00000432542,;PPOX,intron_variant,,ENST00000535223,;B4GALT3,downstream_gene_variant,,ENST00000367998,;B4GALT3,downstream_gene_variant,,ENST00000319769,;PPOX,non_coding_transcript_exon_variant,,ENST00000466452,;PPOX,non_coding_transcript_exon_variant,,ENST00000462866,;PPOX,intron_variant,,ENST00000497522,;PPOX,intron_variant,,ENST00000495483,;B4GALT3,downstream_gene_variant,,ENST00000496313,;B4GALT3,downstream_gene_variant,,ENST00000470882,;B4GALT3,downstream_gene_variant,,ENST00000482288,;B4GALT3,downstream_gene_variant,,ENST00000465740,;B4GALT3,downstream_gene_variant,,ENST00000493164,;PPOX,downstream_gene_variant,,ENST00000490768,;PPOX,downstream_gene_variant,,ENST00000470607,;B4GALT3,downstream_gene_variant,,ENST00000467863,;PPOX,downstream_gene_variant,,ENST00000494216,;B4GALT3,downstream_gene_variant,,ENST00000486938,;B4GALT3,downstream_gene_variant,,ENST00000466504,;B4GALT3,downstream_gene_variant,,ENST00000460415,;PPOX,downstream_gene_variant,,ENST00000462977,;B4GALT3,downstream_gene_variant,,ENST00000487004,;PPOX,downstream_gene_variant,,ENST00000460611,;PPOX,non_coding_transcript_exon_variant,,ENST00000541818,;PPOX,downstream_gene_variant,,ENST00000468968,;PPOX,downstream_gene_variant,,ENST00000539753,;PPOX,downstream_gene_variant,,ENST00000479246,;	C	ENSG00000143224	ENST00000367999	Transcript	synonymous_variant	1664	1398	466	A	gcA/gcC	COSM1295355	.	.	1	PPOX	HGNC	9280	protein_coding	YES	CCDS1221.1	ENSP00000356978	PPOX_HUMAN	Q96TC9_HUMAN,Q96SE3_HUMAN	UPI0000000C3C	.	.	.	13/13	.	hmmpanther:PTHR10742:SF16,hmmpanther:PTHR10742,Pfam_domain:PF01593,TIGRFAM_domain:TIGR00562,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGCAGCAGT	.	4	BLCA
TOMM40L	0	.	GRCh37	1	161196240	161196240	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-40C>T	.	.	ENST00000367988	2/10	23	14	8	30	30	0	TOMM40L,5_prime_UTR_variant,,ENST00000367987,;TOMM40L,5_prime_UTR_variant,,ENST00000545897,;TOMM40L,5_prime_UTR_variant,,ENST00000367988,;NR1I3,downstream_gene_variant,,ENST00000511676,;NR1I3,downstream_gene_variant,,ENST00000512372,;NR1I3,downstream_gene_variant,,ENST00000367985,;NR1I3,downstream_gene_variant,,ENST00000367981,;NR1I3,downstream_gene_variant,,ENST00000367984,;NR1I3,downstream_gene_variant,,ENST00000515621,;NR1I3,downstream_gene_variant,,ENST00000506209,;NR1I3,downstream_gene_variant,,ENST00000367979,;NR1I3,downstream_gene_variant,,ENST00000508740,;AL590714.1,downstream_gene_variant,,ENST00000594609,;APOA2,upstream_gene_variant,,ENST00000468465,;NR1I3,downstream_gene_variant,,ENST00000502985,;NR1I3,downstream_gene_variant,,ENST00000367983,;APOA2,upstream_gene_variant,,ENST00000463812,;NR1I3,downstream_gene_variant,,ENST00000511944,;NR1I3,downstream_gene_variant,,ENST00000442691,;APOA2,upstream_gene_variant,,ENST00000491350,;NR1I3,downstream_gene_variant,,ENST00000504010,;APOA2,upstream_gene_variant,,ENST00000470459,;NR1I3,downstream_gene_variant,,ENST00000412844,;NR1I3,downstream_gene_variant,,ENST00000428574,;NR1I3,downstream_gene_variant,,ENST00000367982,;APOA2,upstream_gene_variant,,ENST00000463273,;NR1I3,downstream_gene_variant,,ENST00000367980,;APOA2,upstream_gene_variant,,ENST00000464492,;NR1I3,downstream_gene_variant,,ENST00000511748,;APOA2,upstream_gene_variant,,ENST00000367990,;NR1I3,downstream_gene_variant,,ENST00000437437,;APOA2,upstream_gene_variant,,ENST00000469730,;NR1I3,downstream_gene_variant,,ENST00000515452,;NR1I3,downstream_gene_variant,,ENST00000508387,;NR1I3,downstream_gene_variant,,ENST00000505005,;MIR5187,upstream_gene_variant,,ENST00000583479,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000474486,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000465512,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000492482,;TOMM40L,intron_variant,,ENST00000470426,;NR1I3,downstream_gene_variant,,ENST00000464422,;NR1I3,downstream_gene_variant,,ENST00000503547,;TOMM40L,upstream_gene_variant,,ENST00000468803,;NR1I3,downstream_gene_variant,,ENST00000488651,;NR1I3,downstream_gene_variant,,ENST00000479324,;TOMM40L,upstream_gene_variant,,ENST00000475793,;NR1I3,downstream_gene_variant,,ENST00000505944,;NR1I3,downstream_gene_variant,,ENST00000510951,;NR1I3,downstream_gene_variant,,ENST00000512340,;NR1I3,downstream_gene_variant,,ENST00000506018,;NR1I3,downstream_gene_variant,,ENST00000502848,;APOA2,upstream_gene_variant,,ENST00000481511,;NR1I3,downstream_gene_variant,,ENST00000507215,;APOA2,upstream_gene_variant,,ENST00000481413,;	T	ENSG00000158882	ENST00000367988	Transcript	5_prime_UTR_variant	230	.	.	.	.	.	.	.	1	TOMM40L	HGNC	25756	protein_coding	YES	CCDS1227.1	ENSP00000356967	TM40L_HUMAN	.	UPI000006F917	.	.	.	2/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCACAGG	.	5	BLCA
NR1I3	0	.	GRCh37	1	161201118	161201118	+	Splice_Site	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694+1G>T	.	p.X232_splice	ENST00000367980	.	132	107	24	125	125	0	NR1I3,splice_donor_variant,,ENST00000511676,;NR1I3,splice_donor_variant,,ENST00000512372,;NR1I3,splice_donor_variant,,ENST00000367985,;NR1I3,splice_donor_variant,,ENST00000367981,;NR1I3,splice_donor_variant,,ENST00000367984,;NR1I3,splice_donor_variant,,ENST00000515621,;NR1I3,splice_donor_variant,,ENST00000506209,;NR1I3,splice_donor_variant,,ENST00000367979,;NR1I3,splice_donor_variant,,ENST00000508740,;NR1I3,splice_donor_variant,,ENST00000502985,;NR1I3,splice_donor_variant,,ENST00000367983,;NR1I3,splice_donor_variant,,ENST00000511944,;NR1I3,splice_donor_variant,,ENST00000442691,;NR1I3,splice_donor_variant,,ENST00000504010,;NR1I3,splice_donor_variant,,ENST00000412844,;NR1I3,splice_donor_variant,,ENST00000428574,;NR1I3,splice_donor_variant,,ENST00000367982,;NR1I3,splice_donor_variant,,ENST00000367980,;NR1I3,splice_donor_variant,,ENST00000511748,;NR1I3,splice_donor_variant,,ENST00000437437,;NR1I3,splice_donor_variant,,ENST00000505005,;NR1I3,splice_donor_variant,,ENST00000508387,;NR1I3,missense_variant,p.Gly232Val,ENST00000515452,;TOMM40L,downstream_gene_variant,,ENST00000545897,;TOMM40L,downstream_gene_variant,,ENST00000367987,;TOMM40L,downstream_gene_variant,,ENST00000367988,;MIR5187,downstream_gene_variant,,ENST00000583479,;NR1I3,splice_donor_variant,,ENST00000488651,;NR1I3,non_coding_transcript_exon_variant,,ENST00000503547,;NR1I3,non_coding_transcript_exon_variant,,ENST00000479324,;NR1I3,upstream_gene_variant,,ENST00000464422,;TOMM40L,downstream_gene_variant,,ENST00000474486,;TOMM40L,downstream_gene_variant,,ENST00000470426,;TOMM40L,downstream_gene_variant,,ENST00000468803,;TOMM40L,downstream_gene_variant,,ENST00000492482,;TOMM40L,downstream_gene_variant,,ENST00000465512,;TOMM40L,downstream_gene_variant,,ENST00000475793,;NR1I3,splice_donor_variant,,ENST00000510951,;NR1I3,splice_donor_variant,,ENST00000512340,;NR1I3,splice_donor_variant,,ENST00000506018,;NR1I3,splice_donor_variant,,ENST00000502848,;NR1I3,splice_donor_variant,,ENST00000507215,;NR1I3,non_coding_transcript_exon_variant,,ENST00000505944,;NR1I3,downstream_gene_variant,,ENST00000491193,;	A	ENSG00000143257	ENST00000367980	Transcript	splice_donor_variant	.	.	.	.	.	COSM1295360,COSM1295361	.	.	-1	NR1I3	HGNC	7969	protein_coding	YES	CCDS41429.1	ENSP00000356959	NR1I3_HUMAN	F1DAL4_HUMAN	UPI00003E7F93	.	.	.	.	6/8	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCACCACGG	.	5	BLCA
UHMK1	0	.	GRCh37	1	162467686	162467686	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-105C>T	.	.	ENST00000489294	1/8	26	19	7	15	15	0	UHMK1,5_prime_UTR_variant,,ENST00000489294,;UHMK1,5_prime_UTR_variant,,ENST00000538489,;UHMK1,intron_variant,,ENST00000545294,;UHMK1,upstream_gene_variant,,ENST00000282169,;	T	ENSG00000152332	ENST00000489294	Transcript	5_prime_UTR_variant	54	.	.	.	.	.	.	.	1	UHMK1	HGNC	19683	protein_coding	YES	CCDS1239.1	ENSP00000420270	UHMK1_HUMAN	.	UPI000000DCCA	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE	TCCCTCCCTGC	.	3	BLCA
GNB1	0	.	GRCh37	1	1721920	1721920	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Asp205Asn	p.D205N	ENST00000378609	9/12	77	51	26	85	84	1	GNB1,missense_variant,p.Asp205Asn,ENST00000378609,;GNB1,downstream_gene_variant,,ENST00000434686,;GNB1,downstream_gene_variant,,ENST00000439272,;GNB1,non_coding_transcript_exon_variant,,ENST00000471354,;GNB1,non_coding_transcript_exon_variant,,ENST00000461893,;	T	ENSG00000078369	ENST00000378609	Transcript	missense_variant	945	613	205	D/N	Gat/Aat	COSM1295488	.	.	-1	GNB1	HGNC	4396	protein_coding	YES	CCDS34.1	ENSP00000367872	GBB1_HUMAN	Q71UM7_HUMAN,Q71UM6_HUMAN,F6UT28_HUMAN,B3KVK2_HUMAN,B1AKQ8_HUMAN	UPI00000230B3	.	deleterious(0)	probably_damaging(1)	9/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR19850,Gene3D:2.130.10.10,Pfam_domain:PF00400,PIRSF_domain:PIRSF002394,SMART_domains:SM00320,Superfamily_domains:SSF50978,Prints_domain:PR00320	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCACAAG	.	5	BLCA
SUCO	0	.	GRCh37	1	172546905	172546905	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1287delT	p.Glu430SerfsTer14	p.E430Sfs*14	ENST00000263688	13/24	114	90	24	94	94	0	SUCO,frameshift_variant,p.Glu393SerfsTer14,ENST00000610051,;SUCO,frameshift_variant,p.Glu582SerfsTer14,ENST00000608151,;SUCO,frameshift_variant,p.Glu581SerfsTer14,ENST00000367723,;SUCO,frameshift_variant,p.Glu430SerfsTer14,ENST00000263688,;	-	ENSG00000094975	ENST00000263688	Transcript	frameshift_variant	1505	1286	429	V/X	gTt/gt	.	.	.	1	SUCO	HGNC	1240	protein_coding	YES	CCDS1303.1	ENSP00000263688	SUCO_HUMAN	.	UPI0000070BAC	.	.	.	13/24	.	PROSITE_profiles:PS51469,hmmpanther:PTHR12953,hmmpanther:PTHR12953:SF0,Pfam_domain:PF07738	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTAGGTTGAGT	.	3	BLCA
MRPS14	0	.	GRCh37	1	174983712	174983712	+	3'UTR	SNP	T	T	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*93A>T	.	.	ENST00000476371	3/3	16	13	3	16	16	0	MRPS14,3_prime_UTR_variant,,ENST00000476371,;CACYBP,downstream_gene_variant,,ENST00000405362,;CACYBP,downstream_gene_variant,,ENST00000367681,;CACYBP,downstream_gene_variant,,ENST00000367679,;MRPS14,intron_variant,,ENST00000498253,;MRPS14,3_prime_UTR_variant,,ENST00000367677,;	A	ENSG00000120333	ENST00000476371	Transcript	3_prime_UTR_variant	497	.	.	.	.	.	.	.	-1	MRPS14	HGNC	14049	protein_coding	YES	CCDS1316.1	ENSP00000420714	RT14_HUMAN	Q96Q61_HUMAN	UPI00000747E5	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTGTAGAGA	.	2	BLCA
TNN	0	.	GRCh37	1	175086247	175086247	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2292G>A	p.%3D	p.L764L	ENST00000239462	10/19	126	98	28	118	118	0	TNN,synonymous_variant,p.%3D,ENST00000239462,;	A	ENSG00000120332	ENST00000239462	Transcript	synonymous_variant	2405	2292	764	L	ctG/ctA	COSM1295516	.	.	1	TNN	HGNC	22942	protein_coding	YES	CCDS30943.1	ENSP00000239462	TENN_HUMAN	.	UPI00001D7DA9	.	.	.	10/19	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF167,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTGACGGG	.	5	BLCA
CEP350	0	.	GRCh37	1	179989993	179989993	+	Silent	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3084C>A	p.%3D	p.I1028I	ENST00000367607	12/38	67	47	19	58	56	2	CEP350,synonymous_variant,p.%3D,ENST00000367607,;	A	ENSG00000135837	ENST00000367607	Transcript	synonymous_variant	3502	3084	1028	I	atC/atA	COSM3803024,COSM1295557,COSM1295558,COSM3803025	.	.	1	CEP350	HGNC	24238	protein_coding	YES	CCDS1336.1	ENSP00000356579	CE350_HUMAN	Q5T2X4_HUMAN	UPI000013CFC5	.	.	.	12/38	.	hmmpanther:PTHR13958	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	CCCATCAAAGA	.	2	BLCA
DHX9	0	.	GRCh37	1	182845362	182845362	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1993A>G	p.Thr665Ala	p.T665A	ENST00000367549	17/28	183	138	45	139	138	1	DHX9,missense_variant,p.Thr665Ala,ENST00000367549,;DHX9,non_coding_transcript_exon_variant,,ENST00000490519,;DHX9,upstream_gene_variant,,ENST00000485081,;DHX9,upstream_gene_variant,,ENST00000474446,;	G	ENSG00000135829	ENST00000367549	Transcript	missense_variant	2103	1993	665	T/A	Act/Gct	COSM1295577	.	.	1	DHX9	HGNC	2750	protein_coding	YES	CCDS41444.1	ENSP00000356520	DHX9_HUMAN	.	UPI00001AEF15	.	tolerated(1)	benign(0.003)	17/28	.	PROSITE_profiles:PS51194,hmmpanther:PTHR18934:SF84,hmmpanther:PTHR18934,Gene3D:3.40.50.300,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTATACTATG	.	3	BLCA
PTGS2	0	.	GRCh37	1	186648486	186648486	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.137G>T	p.Arg46Leu	p.R46L	ENST00000367468	2/10	86	61	25	52	52	0	PTGS2,missense_variant,p.Arg46Leu,ENST00000367468,;RP5-973M2.2,upstream_gene_variant,,ENST00000608917,;PTGS2,non_coding_transcript_exon_variant,,ENST00000490885,;PTGS2,non_coding_transcript_exon_variant,,ENST00000559800,;PTGS2,upstream_gene_variant,,ENST00000466691,;PTGS2,missense_variant,p.Arg46Leu,ENST00000559627,;	A	ENSG00000073756	ENST00000367468	Transcript	missense_variant	274	137	46	R/L	cGg/cTg	COSM1295610,COSM1295611	.	.	-1	PTGS2	HGNC	9605	protein_coding	YES	CCDS1371.1	ENSP00000356438	PGH2_HUMAN	D9MWI3_HUMAN	UPI000000D926	.	tolerated(0.07)	benign(0.013)	2/10	.	PROSITE_profiles:PS50026,hmmpanther:PTHR11903:SF8,hmmpanther:PTHR11903,Gene3D:2.10.25.10,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTCCGGGTA	.	5	BLCA
UBR4	0	.	GRCh37	1	19447716	19447716	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10108A>G	p.Ser3370Gly	p.S3370G	ENST00000375254	68/106	144	110	34	112	112	0	UBR4,missense_variant,p.Ser978Gly,ENST00000425413,;UBR4,missense_variant,p.Ser3370Gly,ENST00000375267,;UBR4,missense_variant,p.Ser2056Gly,ENST00000417040,;UBR4,missense_variant,p.Ser3370Gly,ENST00000375254,;UBR4,missense_variant,p.Ser3363Gly,ENST00000375217,;UBR4,missense_variant,p.Ser3346Gly,ENST00000375226,;UBR4,upstream_gene_variant,,ENST00000375218,;UBR4,downstream_gene_variant,,ENST00000475973,;	C	ENSG00000127481	ENST00000375254	Transcript	missense_variant	10136	10108	3370	S/G	Agc/Ggc	COSM1295624	.	.	-1	UBR4	HGNC	30313	protein_coding	YES	CCDS189.1	ENSP00000364403	UBR4_HUMAN	Q96HY5_HUMAN	UPI000021276F	.	.	possibly_damaging(0.775)	68/106	.	hmmpanther:PTHR21725,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGCTCTTTT	.	5	BLCA
CFH	0	.	GRCh37	1	196712595	196712595	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3147G>A	p.%3D	p.V1049V	ENST00000367429	20/22	142	119	22	112	112	0	CFH,synonymous_variant,p.%3D,ENST00000367429,;CFH,non_coding_transcript_exon_variant,,ENST00000466229,;CFH,downstream_gene_variant,,ENST00000470918,;	A	ENSG00000000971	ENST00000367429	Transcript	synonymous_variant	3387	3147	1049	V	gtG/gtA	COSM1295640	.	.	1	CFH	HGNC	4883	protein_coding	YES	CCDS1385.1	ENSP00000356399	CFAH_HUMAN	.	UPI000013C4D1	.	.	.	20/22	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF310,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.V1049V|c.3147G>A|3	RADIA|MUTECT|MUSE|VARSCANS	TGTGTGAATCC	.	4	BLCA
BTG2	0	.	GRCh37	1	203276382	203276382	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.293G>C	p.Ser98Thr	p.S98T	ENST00000290551	2/2	99	82	16	59	59	0	BTG2,missense_variant,p.Ser98Thr,ENST00000290551,;LINC01136,upstream_gene_variant,,ENST00000425698,;LINC01136,upstream_gene_variant,,ENST00000432511,;LINC01136,upstream_gene_variant,,ENST00000457348,;BTG2,missense_variant,p.Ser98Thr,ENST00000475157,;	C	ENSG00000159388	ENST00000290551	Transcript	missense_variant	364	293	98	S/T	aGc/aCc	COSM1295723	.	.	1	BTG2	HGNC	1131	protein_coding	YES	CCDS1437.1	ENSP00000290551	BTG2_HUMAN	.	UPI000011DD3B	.	tolerated(0.07)	benign(0.014)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22978,hmmpanther:PTHR22978:SF25,PROSITE_patterns:PS01203,Pfam_domain:PF07742,SMART_domains:SM00099,Superfamily_domains:SSF160696,Prints_domain:PR00310	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAGCGAGC	.	5	BLCA
SNRPE	0	.	GRCh37	1	203839114	203839114	+	3'UTR	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*54G>A	.	.	ENST00000414487	5/5	20	15	5	16	16	0	SNRPE,3_prime_UTR_variant,,ENST00000414487,;SNRPE,3_prime_UTR_variant,,ENST00000367208,;SNRPE,non_coding_transcript_exon_variant,,ENST00000470492,;SNRPE,non_coding_transcript_exon_variant,,ENST00000475035,;SNRPE,non_coding_transcript_exon_variant,,ENST00000483099,;SNRPE,downstream_gene_variant,,ENST00000469451,;KRT8P29,downstream_gene_variant,,ENST00000420409,;	A	ENSG00000182004	ENST00000414487	Transcript	3_prime_UTR_variant	378	.	.	.	.	.	.	.	1	SNRPE	HGNC	11161	protein_coding	YES	CCDS30979.1	ENSP00000400591	RUXE_HUMAN	A6NHK2_HUMAN	UPI0000029B34	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGATGTCCTT	.	4	BLCA
KLHDC8A	0	.	GRCh37	1	205312535	205312535	+	Silent	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198C>G	p.%3D	p.P66P	ENST00000367156	5/9	139	97	41	103	103	0	KLHDC8A,synonymous_variant,p.%3D,ENST00000367155,;KLHDC8A,synonymous_variant,p.%3D,ENST00000367156,;KLHDC8A,synonymous_variant,p.%3D,ENST00000491471,;KLHDC8A,synonymous_variant,p.%3D,ENST00000539253,;KLHDC8A,synonymous_variant,p.%3D,ENST00000607173,;KLHDC8A,synonymous_variant,p.%3D,ENST00000607826,;KLHDC8A,intron_variant,,ENST00000537168,;KLHDC8A,intron_variant,,ENST00000460687,;KLHDC8A,downstream_gene_variant,,ENST00000606887,;KLHDC8A,upstream_gene_variant,,ENST00000606181,;KLHDC8A,downstream_gene_variant,,ENST00000607193,;KLHDC8A,downstream_gene_variant,,ENST00000606529,;KLHDC8A,downstream_gene_variant,,ENST00000606111,;	C	ENSG00000162873	ENST00000367156	Transcript	synonymous_variant	1015	198	66	P	ccC/ccG	COSM1295759	.	.	-1	KLHDC8A	HGNC	25573	protein_coding	YES	CCDS30985.1	ENSP00000356124	KLD8A_HUMAN	U3KQK4_HUMAN,U3KQI4_HUMAN,U3KQH1_HUMAN,U3KQC2_HUMAN,U3KPX9_HUMAN,U3KPW1_HUMAN	UPI00000728EF	.	.	.	5/9	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF123,Gene3D:1zgkA00,Pfam_domain:PF01344,SMART_domains:SM00612,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGTGGGCAG	.	5	BLCA
SRGAP2	0	.	GRCh37	1	206628299	206628299	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2176G>A	p.%3D	p.V726V	ENST00000295713	18/20	130	93	37	107	107	0	SRGAP2,synonymous_variant,p.%3D,ENST00000419187,;SRGAP2,synonymous_variant,p.%3D,ENST00000414007,;SRGAP2,synonymous_variant,p.%3D,ENST00000439126,;SRGAP2,synonymous_variant,p.%3D,ENST00000426388,;SRGAP2,synonymous_variant,p.%3D,ENST00000295713,;SRGAP2,non_coding_transcript_exon_variant,,ENST00000471256,;SRGAP2,downstream_gene_variant,,ENST00000488049,;	A	ENSG00000163486	ENST00000295713	Transcript	synonymous_variant	2176	2178	726	V	gtG/gtA	COSM1295779,COSM1295780	.	.	1	SRGAP2	HGNC	19751	protein_coding	YES	.	ENSP00000295713	.	Q5VZB5_HUMAN,Q5VZB4_HUMAN,B4DFE5_HUMAN,B3KM24_HUMAN	UPI000059D0A5	.	.	.	18/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14166:SF6,hmmpanther:PTHR14166	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGTGACAGC	.	5	BLCA
SRGAP2	0	.	GRCh37	1	206628307	206628307	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2184G>T	p.Arg729Ile	p.R729I	ENST00000295713	18/20	139	99	40	116	116	0	SRGAP2,missense_variant,p.Arg120Ile,ENST00000419187,;SRGAP2,missense_variant,p.Arg675Ile,ENST00000414007,;SRGAP2,missense_variant,p.Arg429Ile,ENST00000439126,;SRGAP2,missense_variant,p.Arg98Ile,ENST00000426388,;SRGAP2,missense_variant,p.Arg729Ile,ENST00000295713,;SRGAP2,non_coding_transcript_exon_variant,,ENST00000471256,;SRGAP2,downstream_gene_variant,,ENST00000488049,;	T	ENSG00000163486	ENST00000295713	Transcript	missense_variant	2184	2186	729	R/I	aGa/aTa	COSM1500751,COSM1295781	.	.	1	SRGAP2	HGNC	19751	protein_coding	YES	.	ENSP00000295713	.	Q5VZB5_HUMAN,Q5VZB4_HUMAN,B4DFE5_HUMAN,B3KM24_HUMAN	UPI000059D0A5	.	deleterious(0.01)	benign(0.118)	18/20	.	hmmpanther:PTHR14166:SF6,hmmpanther:PTHR14166	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCAGAGCGG	.	5	BLCA
NBPF3	0	.	GRCh37	1	21800042	21800042	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.904C>A	p.His302Asn	p.H302N	ENST00000318249	7/15	368	280	87	278	277	1	NBPF3,missense_variant,p.His246Asn,ENST00000434838,;NBPF3,missense_variant,p.His302Asn,ENST00000318249,;NBPF3,missense_variant,p.His246Asn,ENST00000318220,;NBPF3,missense_variant,p.His232Asn,ENST00000454000,;NBPF3,missense_variant,p.His302Asn,ENST00000342104,;NBPF3,non_coding_transcript_exon_variant,,ENST00000477050,;NBPF3,non_coding_transcript_exon_variant,,ENST00000469876,;NBPF3,downstream_gene_variant,,ENST00000486229,;	A	ENSG00000142794	ENST00000318249	Transcript	missense_variant	1254	904	302	H/N	Cat/Aat	COSM1295878	.	.	1	NBPF3	HGNC	25076	protein_coding	YES	CCDS216.1	ENSP00000316782	NBPF3_HUMAN	.	UPI0000037D6C	.	deleterious(0.01)	benign(0.403)	7/15	.	PROSITE_profiles:PS51316,hmmpanther:PTHR14199:SF15,hmmpanther:PTHR14199	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCATGAT	.	5	BLCA
USP48	0	.	GRCh37	1	22074634	22074634	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.905A>T	p.Asp302Val	p.D302V	ENST00000308271	7/27	65	45	20	41	41	0	USP48,missense_variant,p.Asp302Val,ENST00000421625,;USP48,missense_variant,p.Asp302Val,ENST00000529637,;USP48,missense_variant,p.Asp302Val,ENST00000308271,;USP48,missense_variant,p.Asp302Val,ENST00000400301,;USP48,downstream_gene_variant,,ENST00000532737,;USP48,downstream_gene_variant,,ENST00000527823,;USP48,missense_variant,p.Asp18Val,ENST00000374730,;	A	ENSG00000090686	ENST00000308271	Transcript	missense_variant	1554	905	302	D/V	gAc/gTc	COSM1295887	.	.	-1	USP48	HGNC	18533	protein_coding	YES	CCDS30623.1	ENSP00000309262	UBP48_HUMAN	E9PRY5_HUMAN,E9PJH5_HUMAN,E9PJ87_HUMAN	UPI0000192195	.	deleterious(0.02)	probably_damaging(0.919)	7/27	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF100,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTGTCAAAG	.	5	BLCA
HSPG2	0	.	GRCh37	1	22169324	22169324	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8849G>T	p.Gly2950Val	p.G2950V	ENST00000374695	67/97	132	101	30	123	122	1	HSPG2,missense_variant,p.Gly2950Val,ENST00000374695,;HSPG2,downstream_gene_variant,,ENST00000453796,;HSPG2,downstream_gene_variant,,ENST00000430507,;HSPG2,upstream_gene_variant,,ENST00000374676,;	A	ENSG00000142798	ENST00000374695	Transcript	missense_variant	8929	8849	2950	G/V	gGg/gTg	COSM1295895	.	.	-1	HSPG2	HGNC	5273	protein_coding	YES	CCDS30625.1	ENSP00000363827	PGBM_HUMAN	B6EU51_HUMAN	UPI0000212778	.	.	probably_damaging(0.993)	67/97	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF252,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGCCCGGGC	.	5	BLCA
TLR5	0	.	GRCh37	1	223285245	223285245	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129G>A	p.Asp377Asn	p.D377N	ENST00000540964	4/4	120	96	24	89	89	0	TLR5,missense_variant,p.Asp377Asn,ENST00000342210,;TLR5,missense_variant,p.Asp377Asn,ENST00000366881,;TLR5,missense_variant,p.Asp377Asn,ENST00000540964,;TLR5,downstream_gene_variant,,ENST00000407096,;	T	ENSG00000187554	ENST00000540964	Transcript	missense_variant	1591	1129	377	D/N	Gac/Aac	COSM1295911	.	.	-1	TLR5	HGNC	11851	protein_coding	YES	CCDS31033.1	ENSP00000440643	TLR5_HUMAN	B1AZ06_HUMAN	UPI0000205D14	.	tolerated(0.38)	benign(0.003)	4/4	.	hmmpanther:PTHR24365:SF221,hmmpanther:PTHR24365,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGTCTTGAA	.	5	BLCA
IBA57	0	.	GRCh37	1	228362831	228362831	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688G>C	p.Glu230Gln	p.E230Q	ENST00000366711	3/3	115	85	29	101	101	0	IBA57,missense_variant,p.Glu230Gln,ENST00000366711,;IBA57,missense_variant,p.Glu37Gln,ENST00000546123,;IBA57,non_coding_transcript_exon_variant,,ENST00000484749,;	C	ENSG00000181873	ENST00000366711	Transcript	missense_variant	690	688	230	E/Q	Gag/Cag	COSM2156952,COSM1295954	.	.	1	IBA57	HGNC	27302	protein_coding	YES	CCDS31046.1	ENSP00000355672	CAF17_HUMAN	G5EA38_HUMAN	UPI0000160A21	.	deleterious(0)	probably_damaging(0.998)	3/3	.	hmmpanther:PTHR22602:SF0,hmmpanther:PTHR22602,TIGRFAM_domain:TIGR03317,Pfam_domain:PF01571,Superfamily_domains:SSF103025	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTGAGGGG	.	5	BLCA
TRIM67	0	.	GRCh37	1	231342533	231342533	+	Missense_Mutation	SNP	G	G	A	rs372935882	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1816G>A	p.Asp606Asn	p.D606N	ENST00000366653	7/10	54	38	16	57	56	1	TRIM67,missense_variant,p.Asp604Asn,ENST00000444294,;TRIM67,missense_variant,p.Asp606Asn,ENST00000366652,;TRIM67,missense_variant,p.Asp544Asn,ENST00000449018,;TRIM67,missense_variant,p.Asp606Asn,ENST00000366653,;	A	ENSG00000119283	ENST00000366653	Transcript	missense_variant	1816	1816	606	D/N	Gat/Aat	rs372935882,COSM1295989,COSM1295988	.	.	1	TRIM67	HGNC	31859	protein_coding	YES	CCDS44333.1	ENSP00000355613	TRI67_HUMAN	.	UPI0000418F23	.	deleterious(0.01)	benign(0.305)	7/10	.	Superfamily_domains:SSF49899,hmmpanther:PTHR24103:SF289,hmmpanther:PTHR24103,PROSITE_profiles:PS50853,PROSITE_profiles:PS50188	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCCGATGGT	byCluster	5	BLCA
MYOM3	0	.	GRCh37	1	24401849	24401849	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2818C>A	p.Leu940Met	p.L940M	ENST00000374434	22/37	218	162	56	152	151	1	MYOM3,missense_variant,p.Leu940Met,ENST00000374434,;MYOM3,missense_variant,p.Leu940Met,ENST00000329601,;MYOM3,missense_variant,p.Leu941Met,ENST00000330966,;RP11-293P20.4,intron_variant,,ENST00000429191,;RP11-293P20.2,intron_variant,,ENST00000439239,;MYOM3,intron_variant,,ENST00000448831,;	T	ENSG00000142661	ENST00000374434	Transcript	missense_variant	2981	2818	940	L/M	Ctg/Atg	COSM1296097	.	.	-1	MYOM3	HGNC	26679	protein_coding	YES	CCDS41281.1	ENSP00000363557	MYOM3_HUMAN	.	UPI0000203A5D	.	tolerated(0.07)	benign(0.212)	22/37	.	SMART_domains:SM00409,Gene3D:2.60.40.10,hmmpanther:PTHR19900:SF35,hmmpanther:PTHR19900	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCAGTGGGC	.	5	BLCA
IL22RA1	0	.	GRCh37	1	24469527	24469527	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43+3G>A	.	.	ENST00000270800	.	25	18	6	39	39	0	IL22RA1,splice_region_variant,,ENST00000270800,;	T	ENSG00000142677	ENST00000270800	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	IL22RA1	HGNC	13700	protein_coding	YES	CCDS247.1	ENSP00000270800	I22R1_HUMAN	.	UPI0000071143	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCACCAG	.	4	BLCA
CNST	0	.	GRCh37	1	246810471	246810471	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.968G>T	p.Ser323Ile	p.S323I	ENST00000366513	9/11	121	94	27	111	110	1	CNST,missense_variant,p.Ser323Ile,ENST00000366513,;CNST,missense_variant,p.Ser323Ile,ENST00000366512,;CNST,non_coding_transcript_exon_variant,,ENST00000483271,;	T	ENSG00000162852	ENST00000366513	Transcript	missense_variant	1237	968	323	S/I	aGt/aTt	COSM1296124	.	.	1	CNST	HGNC	26486	protein_coding	YES	CCDS1628.1	ENSP00000355470	CNST_HUMAN	.	UPI000013E1DF	.	tolerated(0.08)	benign(0.33)	9/11	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCAAGTAAAG	.	5	BLCA
ZNF669	0	.	GRCh37	1	247267373	247267373	+	Silent	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.129G>A	p.%3D	p.R43R	ENST00000343381	1/4	26	18	8	10	10	0	ZNF669,synonymous_variant,p.%3D,ENST00000358785,;ZNF669,synonymous_variant,p.%3D,ENST00000343381,;ZNF669,synonymous_variant,p.%3D,ENST00000476158,;ZNF669,intron_variant,,ENST00000366501,;ZNF669,intron_variant,,ENST00000366500,;ZNF669,intron_variant,,ENST00000448299,;	T	ENSG00000188295	ENST00000343381	Transcript	synonymous_variant	302	129	43	R	cgG/cgA	.	.	.	-1	ZNF669	HGNC	25736	protein_coding	YES	CCDS31088.1	ENSP00000342818	ZN669_HUMAN	.	UPI000013E1E0	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCCCGGCT	.	4	BLCA
OR2G2	0	.	GRCh37	1	247752379	247752379	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718G>A	p.Ala240Thr	p.A240T	ENST00000320065	1/1	124	95	28	94	93	1	OR2G2,missense_variant,p.Ala240Thr,ENST00000320065,;RP11-978I15.10,intron_variant,,ENST00000446347,;RP11-978I15.10,intron_variant,,ENST00000435333,;	A	ENSG00000177489	ENST00000320065	Transcript	missense_variant	718	718	240	A/T	Gca/Aca	COSM1296144	.	.	1	OR2G2	HGNC	15007	protein_coding	YES	CCDS31092.1	ENSP00000326349	OR2G2_HUMAN	.	UPI0000061EB9	.	deleterious(0.01)	benign(0.367)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF132,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F241F|c.723C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAGCATTC	.	5	BLCA
OR2G3	0	.	GRCh37	1	247769738	247769738	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.851C>T	p.Thr284Ile	p.T284I	ENST00000320002	1/1	133	105	27	100	100	0	OR2G3,missense_variant,p.Thr284Ile,ENST00000320002,;RNU6-691P,downstream_gene_variant,,ENST00000516585,;RP11-978I15.10,intron_variant,,ENST00000446347,;RP11-978I15.10,intron_variant,,ENST00000435333,;	T	ENSG00000177476	ENST00000320002	Transcript	missense_variant	883	851	284	T/I	aCt/aTt	COSM1296148	.	.	1	OR2G3	HGNC	15008	protein_coding	YES	CCDS31093.1	ENSP00000326301	OR2G3_HUMAN	.	UPI0000041CD9	.	tolerated(0.27)	benign(0.001)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF110,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCACTTTAA	.	5	BLCA
OR11L1	0	.	GRCh37	1	248004726	248004726	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.473T>A	p.Leu158Gln	p.L158Q	ENST00000355784	1/1	145	110	34	111	111	0	OR11L1,missense_variant,p.Leu158Gln,ENST00000355784,;	T	ENSG00000197591	ENST00000355784	Transcript	missense_variant	529	473	158	L/Q	cTg/cAg	COSM1296154	.	.	-1	OR11L1	HGNC	14998	protein_coding	YES	CCDS31098.1	ENSP00000348033	O11L1_HUMAN	.	UPI0000061EBC	.	deleterious(0.01)	probably_damaging(0.961)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF12,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGCAGAAAG	.	5	BLCA
TRIM58	0	.	GRCh37	1	248020677	248020677	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.129C>T	p.%3D	p.F43F	ENST00000366481	1/6	21	14	7	23	23	0	TRIM58,synonymous_variant,p.%3D,ENST00000366481,;	T	ENSG00000162722	ENST00000366481	Transcript	synonymous_variant	177	129	43	F	ttC/ttT	COSM1296156	.	.	1	TRIM58	HGNC	24150	protein_coding	YES	CCDS1636.1	ENSP00000355437	TRI58_HUMAN	.	UPI000020590E	.	.	.	1/6	.	PROSITE_profiles:PS50089,hmmpanther:PTHR24103:SF235,hmmpanther:PTHR24103,Pfam_domain:PF15227,Gene3D:3.30.40.10,SMART_domains:SM00184,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGTTCTGCGA	.	5	BLCA
TMEM57	0	.	GRCh37	1	25810726	25810726	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274T>G	p.Met425Arg	p.M425R	ENST00000374343	7/11	118	97	21	88	87	1	TMEM57,missense_variant,p.Met67Arg,ENST00000399763,;TMEM57,missense_variant,p.Met198Arg,ENST00000399766,;TMEM57,missense_variant,p.Met425Arg,ENST00000374343,;	G	ENSG00000204178	ENST00000374343	Transcript	missense_variant	1453	1274	425	M/R	aTg/aGg	COSM1296198	.	.	1	TMEM57	HGNC	25572	protein_coding	YES	CCDS30638.1	ENSP00000363463	MACOI_HUMAN	Q9H5V1_HUMAN	UPI000004A074	.	deleterious(0)	benign(0.082)	7/11	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13289:SF4,hmmpanther:PTHR13289,Pfam_domain:PF09726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGAAATGGGCC	.	3	BLCA
DHDDS	0	.	GRCh37	1	26786621	26786621	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.751C>G	p.His251Asp	p.H251D	ENST00000360009	8/9	187	142	44	140	139	1	DHDDS,missense_variant,p.His128Asp,ENST00000416052,;DHDDS,missense_variant,p.His212Asp,ENST00000430232,;DHDDS,missense_variant,p.His251Asp,ENST00000360009,;DHDDS,missense_variant,p.His212Asp,ENST00000526219,;DHDDS,missense_variant,p.His251Asp,ENST00000236342,;DHDDS,missense_variant,p.His217Asp,ENST00000525682,;DHDDS,intron_variant,,ENST00000431933,;RP3-476K8.3,downstream_gene_variant,,ENST00000423060,;DHDDS,3_prime_UTR_variant,,ENST00000434391,;RP3-476K8.4,upstream_gene_variant,,ENST00000446498,;	G	ENSG00000117682	ENST00000360009	Transcript	missense_variant	828	751	251	H/D	Cat/Gat	COSM1296215	.	.	1	DHDDS	HGNC	20603	protein_coding	YES	CCDS281.1	ENSP00000353104	DHDDS_HUMAN	Q5T0A2_HUMAN,E9PSH7_HUMAN,E9PRS7_HUMAN,E9PR24_HUMAN,E9PL99_HUMAN,E9PKJ5_HUMAN,E9PI64_HUMAN	UPI000003587D	.	deleterious(0.02)	benign(0.009)	8/9	.	Pfam_domain:PF01255,TIGRFAM_domain:TIGR00055,Gene3D:1uehA00,hmmpanther:PTHR10291:SF0,hmmpanther:PTHR10291,HAMAP:MF_01139	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V253M|c.757G>A|3	RADIA|MUTECT|MUSE	TGAACCATAGC	.	3	BLCA
RPS6KA1	0	.	GRCh37	1	26885394	26885394	+	Missense_Mutation	SNP	G	G	T	rs774428381	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1208G>T	p.Arg403Leu	p.R403L	ENST00000531382	13/21	84	58	25	74	74	0	RPS6KA1,missense_variant,p.Arg378Leu,ENST00000530003,;RPS6KA1,missense_variant,p.Arg52Leu,ENST00000403732,;RPS6KA1,missense_variant,p.Arg302Leu,ENST00000374162,;RPS6KA1,missense_variant,p.Arg394Leu,ENST00000374168,;RPS6KA1,missense_variant,p.Arg383Leu,ENST00000374166,;RPS6KA1,missense_variant,p.Arg403Leu,ENST00000531382,;RPS6KA1,missense_variant,p.Arg302Leu,ENST00000526792,;RPS6KA1,downstream_gene_variant,,ENST00000529454,;MIR1976,downstream_gene_variant,,ENST00000459548,;RPS6KA1,downstream_gene_variant,,ENST00000488985,;RPS6KA1,3_prime_UTR_variant,,ENST00000374163,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000531113,;RPS6KA1,downstream_gene_variant,,ENST00000474934,;RPS6KA1,downstream_gene_variant,,ENST00000527264,;	T	ENSG00000117676	ENST00000531382	Transcript	missense_variant	1257	1208	403	R/L	cGt/cTt	rs774428381,COSM1296217,COSM1296216	.	.	1	RPS6KA1	HGNC	10430	protein_coding	YES	CCDS30649.1	ENSP00000435412	KS6A1_HUMAN	E9PMM7_HUMAN	UPI000046D37A	.	tolerated(0.3)	benign(0)	13/21	.	hmmpanther:PTHR24351:SF43,hmmpanther:PTHR24351,PIRSF_domain:PIRSF000606	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTCGTGCCC	byFrequency	5	BLCA
RPA2	0	.	GRCh37	1	28241008	28241008	+	5'UTR	SNP	G	G	A	rs375405240	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54C>T	.	.	ENST00000373912	1/9	81	55	26	65	65	0	RPA2,5_prime_UTR_variant,,ENST00000313433,;RPA2,5_prime_UTR_variant,,ENST00000444045,;RPA2,5_prime_UTR_variant,,ENST00000373912,;RPA2,intron_variant,,ENST00000373909,;	A	ENSG00000117748	ENST00000373912	Transcript	5_prime_UTR_variant	247	.	.	.	.	rs375405240	.	.	-1	RPA2	HGNC	10290	protein_coding	YES	CCDS314.1	ENSP00000363021	RFA2_HUMAN	Q5TEJ0_HUMAN,B4DUL2_HUMAN,B4DQD9_HUMAN,B4DL94_HUMAN	UPI000013379F	.	.	.	1/9	.	.	.	.	.	.	.	.	.	C:0.0007	C:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATAGCGGAA	.	5	BLCA
WRAP73	0	.	GRCh37	1	3548889	3548889	+	Silent	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.936T>C	p.%3D	p.S312S	ENST00000270708	10/12	121	91	29	107	107	0	WRAP73,synonymous_variant,p.%3D,ENST00000378322,;WRAP73,synonymous_variant,p.%3D,ENST00000270708,;WRAP73,synonymous_variant,p.%3D,ENST00000424367,;TPRG1L,downstream_gene_variant,,ENST00000378344,;WRAP73,downstream_gene_variant,,ENST00000419924,;WRAP73,downstream_gene_variant,,ENST00000465916,;TPRG1L,downstream_gene_variant,,ENST00000344579,;WRAP73,non_coding_transcript_exon_variant,,ENST00000471223,;WRAP73,downstream_gene_variant,,ENST00000469643,;WRAP73,downstream_gene_variant,,ENST00000494884,;WRAP73,downstream_gene_variant,,ENST00000497940,;	G	ENSG00000116213	ENST00000270708	Transcript	synonymous_variant	1010	936	312	S	tcT/tcC	COSM1296335	.	.	-1	WRAP73	HGNC	12759	protein_coding	YES	CCDS48.1	ENSP00000270708	WRP73_HUMAN	J3KTP2_HUMAN	UPI0000138EDF	.	.	.	10/12	.	hmmpanther:PTHR16220:SF0,hmmpanther:PTHR16220	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGACAGAGGC	.	5	BLCA
GRIK3	0	.	GRCh37	1	37267622	37267622	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2590G>A	p.Asp864Asn	p.D864N	ENST00000373091	16/16	47	34	12	40	40	0	GRIK3,missense_variant,p.Asp864Asn,ENST00000373091,;GRIK3,downstream_gene_variant,,ENST00000373093,;	T	ENSG00000163873	ENST00000373091	Transcript	missense_variant	2607	2590	864	D/N	Gat/Aat	COSM1296370	.	.	-1	GRIK3	HGNC	4581	protein_coding	YES	CCDS416.1	ENSP00000362183	GRIK3_HUMAN	Q96SC0_HUMAN	UPI000013E311	.	tolerated(0.15)	benign(0.21)	16/16	.	hmmpanther:PTHR18966:SF174,hmmpanther:PTHR18966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCGGCCA	.	5	BLCA
ZC3H12A	0	.	GRCh37	1	37941247	37941247	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.150G>T	p.Met50Ile	p.M50I	ENST00000373087	2/6	84	66	17	85	84	1	ZC3H12A,missense_variant,p.Met50Ile,ENST00000373087,;LINC01137,upstream_gene_variant,,ENST00000424989,;ZC3H12A,upstream_gene_variant,,ENST00000472312,;	T	ENSG00000163874	ENST00000373087	Transcript	missense_variant	266	150	50	M/I	atG/atT	COSM1296372	.	.	1	ZC3H12A	HGNC	26259	protein_coding	YES	CCDS417.1	ENSP00000362179	ZC12A_HUMAN	C0LED9_HUMAN	UPI000004D30E	.	tolerated(0.07)	benign(0.297)	2/6	.	hmmpanther:PTHR12876:SF10,hmmpanther:PTHR12876	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATGAAGGT	.	5	BLCA
GJA9	0	.	GRCh37	1	39340130	39340130	+	3'UTR	SNP	C	C	G	rs558404782	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*93G>C	.	.	ENST00000357771	2/2	29	21	7	19	19	0	GJA9,3_prime_UTR_variant,,ENST00000357771,;GJA9,3_prime_UTR_variant,,ENST00000360786,;GJA9,intron_variant,,ENST00000454994,;MYCBP,upstream_gene_variant,,ENST00000397572,;RP5-864K19.4,intron_variant,,ENST00000443161,;RP5-864K19.4,intron_variant,,ENST00000456813,;RP5-864K19.4,intron_variant,,ENST00000433671,;MYCBP,non_coding_transcript_exon_variant,,ENST00000489803,;MYCBP,non_coding_transcript_exon_variant,,ENST00000462027,;MYCBP,intron_variant,,ENST00000489575,;MYCBP,upstream_gene_variant,,ENST00000465771,;MYCBP,upstream_gene_variant,,ENST00000495043,;MYCBP,upstream_gene_variant,,ENST00000494695,;	G	ENSG00000131233	ENST00000357771	Transcript	3_prime_UTR_variant	1922	.	.	.	.	rs558404782	.	.	-1	GJA9	HGNC	19155	protein_coding	YES	CCDS432.1	ENSP00000350415	CXA9_HUMAN	.	UPI000006E09A	.	.	.	2/2	.	.	G:0.0006	G:0	G:0.0029	.	G:0	G:0.001	G:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTCTTTAG	byFrequency|by1000G	5	BLCA
HEYL	0	.	GRCh37	1	40105218	40105218	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80G>C	p.Ser27Thr	p.S27T	ENST00000372852	1/5	18	13	5	13	13	0	HEYL,missense_variant,p.Ser27Thr,ENST00000372852,;	G	ENSG00000163909	ENST00000372852	Transcript	missense_variant	400	80	27	S/T	aGc/aCc	COSM1296412	.	.	-1	HEYL	HGNC	4882	protein_coding	YES	CCDS439.1	ENSP00000361943	HEYL_HUMAN	F5H3V9_HUMAN	UPI000013E317	.	deleterious(0.03)	benign(0.011)	1/5	.	hmmpanther:PTHR10985:SF10,hmmpanther:PTHR10985	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTACCTCAGC	.	5	BLCA
CAP1	0	.	GRCh37	1	40525127	40525127	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109A>C	p.Lys37Gln	p.K37Q	ENST00000372797	2/13	71	52	19	53	53	0	CAP1,missense_variant,p.Lys37Gln,ENST00000372805,;CAP1,missense_variant,p.Lys37Gln,ENST00000427843,;CAP1,missense_variant,p.Lys37Gln,ENST00000421589,;CAP1,missense_variant,p.Lys37Gln,ENST00000449311,;CAP1,missense_variant,p.Lys37Gln,ENST00000420216,;CAP1,missense_variant,p.Lys37Gln,ENST00000340450,;CAP1,missense_variant,p.Lys37Gln,ENST00000417287,;CAP1,missense_variant,p.Lys37Gln,ENST00000372802,;CAP1,missense_variant,p.Lys37Gln,ENST00000372798,;CAP1,missense_variant,p.Lys37Gln,ENST00000372797,;CAP1,missense_variant,p.Lys37Gln,ENST00000414281,;CAP1,missense_variant,p.Lys37Gln,ENST00000424977,;CAP1,missense_variant,p.Lys37Gln,ENST00000414893,;CAP1,missense_variant,p.Lys37Gln,ENST00000372792,;CAP1,missense_variant,p.Lys37Gln,ENST00000446031,;CAP1,missense_variant,p.Lys37Gln,ENST00000435719,;	C	ENSG00000131236	ENST00000372797	Transcript	missense_variant	670	109	37	K/Q	Aaa/Caa	COSM1296417	.	.	1	CAP1	HGNC	20040	protein_coding	YES	CCDS41309.1	ENSP00000361883	CAP1_HUMAN	Q5T0R8_HUMAN,Q5T0R7_HUMAN,Q5T0R6_HUMAN,Q5T0R5_HUMAN,Q5T0R4_HUMAN,Q5T0R3_HUMAN,Q5T0R2_HUMAN,Q5T0R1_HUMAN	UPI000013CDDF	.	tolerated(0.57)	benign(0.002)	2/13	.	Pfam_domain:PF01213,hmmpanther:PTHR10652:SF1,hmmpanther:PTHR10652	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCAAAAGGT	.	2	BLCA
SCMH1	0	.	GRCh37	1	41493986	41493986	+	Silent	SNP	G	G	T	rs754894150	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1863C>A	p.%3D	p.I621I	ENST00000402904	16/16	94	70	24	88	87	1	SCMH1,synonymous_variant,p.%3D,ENST00000397174,;SCMH1,synonymous_variant,p.%3D,ENST00000326197,;SCMH1,synonymous_variant,p.%3D,ENST00000372597,;SCMH1,synonymous_variant,p.%3D,ENST00000361191,;SCMH1,synonymous_variant,p.%3D,ENST00000361705,;SCMH1,synonymous_variant,p.%3D,ENST00000372595,;SCMH1,synonymous_variant,p.%3D,ENST00000402904,;SCMH1,synonymous_variant,p.%3D,ENST00000456518,;SCMH1,synonymous_variant,p.%3D,ENST00000337495,;SCMH1,synonymous_variant,p.%3D,ENST00000372596,;SCMH1,synonymous_variant,p.%3D,ENST00000397171,;SCMH1,non_coding_transcript_exon_variant,,ENST00000472037,;SCMH1,downstream_gene_variant,,ENST00000460215,;SCMH1,downstream_gene_variant,,ENST00000498793,;	T	ENSG00000010803	ENST00000402904	Transcript	synonymous_variant	2232	1863	621	I	atC/atA	rs754894150,COSM909531,COSM1296438,COSM1296437,COSM909530,COSM1296436,COSM909529	.	.	-1	SCMH1	HGNC	19003	protein_coding	YES	CCDS30688.1	ENSP00000386079	SCMH1_HUMAN	.	UPI000006FD9B	.	.	.	16/16	.	PROSITE_profiles:PS50105,hmmpanther:PTHR12247,hmmpanther:PTHR12247:SF68,Pfam_domain:PF00536,Gene3D:1.10.150.50,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCATCGATCTC	byFrequency	4	BLCA
EBNA1BP2	0	.	GRCh37	1	43636436	43636436	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.603G>A	p.%3D	p.Q201Q	ENST00000431635	5/10	240	189	51	178	178	0	EBNA1BP2,synonymous_variant,p.%3D,ENST00000236051,;EBNA1BP2,synonymous_variant,p.%3D,ENST00000431635,;WDR65,upstream_gene_variant,,ENST00000529956,;WDR65,upstream_gene_variant,,ENST00000528956,;WDR65,upstream_gene_variant,,ENST00000372492,;EBNA1BP2,non_coding_transcript_exon_variant,,ENST00000463906,;EBNA1BP2,downstream_gene_variant,,ENST00000483082,;EBNA1BP2,downstream_gene_variant,,ENST00000461557,;EBNA1BP2,downstream_gene_variant,,ENST00000491223,;EBNA1BP2,downstream_gene_variant,,ENST00000472982,;WDR65,upstream_gene_variant,,ENST00000533339,;WDR65,upstream_gene_variant,,ENST00000525227,;	T	ENSG00000117395	ENST00000431635	Transcript	synonymous_variant	752	603	201	Q	caG/caA	COSM1296456	.	.	-1	EBNA1BP2	HGNC	15531	protein_coding	YES	CCDS53308.1	ENSP00000407323	.	Q6IB29_HUMAN,H7C2Q8_HUMAN	UPI0000204E6D	.	.	.	5/10	.	hmmpanther:PTHR13028,hmmpanther:PTHR13028:SF0,Pfam_domain:PF05890	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCATCTGCAG	.	4	BLCA
CCDC24	0	.	GRCh37	1	44461475	44461475	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648G>A	p.Met216Ile	p.M216I	ENST00000372318	8/9	213	165	48	182	181	1	CCDC24,missense_variant,p.Met216Ile,ENST00000372318,;CCDC24,missense_variant,p.Met146Ile,ENST00000466180,;SLC6A9,intron_variant,,ENST00000372306,;SLC6A9,intron_variant,,ENST00000372307,;B4GALT2,downstream_gene_variant,,ENST00000372324,;SLC6A9,downstream_gene_variant,,ENST00000357730,;SLC6A9,downstream_gene_variant,,ENST00000372310,;B4GALT2,downstream_gene_variant,,ENST00000356836,;B4GALT2,downstream_gene_variant,,ENST00000434555,;SLC6A9,downstream_gene_variant,,ENST00000475075,;SLC6A9,downstream_gene_variant,,ENST00000360584,;CCDC24,non_coding_transcript_exon_variant,,ENST00000479055,;CCDC24,non_coding_transcript_exon_variant,,ENST00000472562,;CCDC24,3_prime_UTR_variant,,ENST00000490064,;CCDC24,3_prime_UTR_variant,,ENST00000486504,;CCDC24,3_prime_UTR_variant,,ENST00000463846,;CCDC24,3_prime_UTR_variant,,ENST00000486064,;CCDC24,non_coding_transcript_exon_variant,,ENST00000490563,;CCDC24,non_coding_transcript_exon_variant,,ENST00000485811,;CCDC24,downstream_gene_variant,,ENST00000460543,;	A	ENSG00000159214	ENST00000372318	Transcript	missense_variant	819	648	216	M/I	atG/atA	COSM1296479	.	.	1	CCDC24	HGNC	28688	protein_coding	YES	CCDS507.1	ENSP00000361392	CCD24_HUMAN	.	UPI000006EE2D	.	tolerated(0.13)	benign(0.028)	8/9	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGGAGCA	.	4	BLCA
CCDC24	0	.	GRCh37	1	44461719	44461719	+	Nonsense_Mutation	SNP	C	C	T	rs376940328	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811C>T	p.Arg271Ter	p.R271*	ENST00000372318	9/9	134	89	45	104	104	0	CCDC24,stop_gained,p.Arg271Ter,ENST00000372318,;CCDC24,synonymous_variant,p.%3D,ENST00000466180,;SLC6A9,intron_variant,,ENST00000372306,;SLC6A9,intron_variant,,ENST00000372307,;B4GALT2,downstream_gene_variant,,ENST00000372324,;SLC6A9,downstream_gene_variant,,ENST00000357730,;SLC6A9,downstream_gene_variant,,ENST00000372310,;SLC6A9,downstream_gene_variant,,ENST00000537678,;B4GALT2,downstream_gene_variant,,ENST00000356836,;B4GALT2,downstream_gene_variant,,ENST00000434555,;SLC6A9,downstream_gene_variant,,ENST00000475075,;SLC6A9,downstream_gene_variant,,ENST00000360584,;CCDC24,non_coding_transcript_exon_variant,,ENST00000479055,;CCDC24,downstream_gene_variant,,ENST00000472562,;CCDC24,3_prime_UTR_variant,,ENST00000490064,;CCDC24,3_prime_UTR_variant,,ENST00000486504,;CCDC24,3_prime_UTR_variant,,ENST00000463846,;CCDC24,3_prime_UTR_variant,,ENST00000486064,;CCDC24,non_coding_transcript_exon_variant,,ENST00000490563,;CCDC24,downstream_gene_variant,,ENST00000485811,;CCDC24,downstream_gene_variant,,ENST00000460543,;	T	ENSG00000159214	ENST00000372318	Transcript	stop_gained	982	811	271	R/*	Cga/Tga	rs376940328,COSM1296480	.	.	1	CCDC24	HGNC	28688	protein_coding	YES	CCDS507.1	ENSP00000361392	CCD24_HUMAN	.	UPI000006EE2D	.	.	.	9/9	.	.	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCGACCT	byFrequency|byCluster	5	BLCA
NASP	0	.	GRCh37	1	46072194	46072194	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340C>A	p.His114Asn	p.H114N	ENST00000350030	5/15	95	71	23	79	79	0	NASP,missense_variant,p.His50Asn,ENST00000527470,;NASP,missense_variant,p.His116Asn,ENST00000402363,;NASP,missense_variant,p.His114Asn,ENST00000350030,;NASP,missense_variant,p.His50Asn,ENST00000537798,;NASP,missense_variant,p.His114Asn,ENST00000351223,;NASP,missense_variant,p.His50Asn,ENST00000528238,;NASP,missense_variant,p.His77Asn,ENST00000470768,;NASP,missense_variant,p.His87Asn,ENST00000372052,;NASP,missense_variant,p.His98Asn,ENST00000525515,;NASP,missense_variant,p.His114Asn,ENST00000437901,;NASP,non_coding_transcript_exon_variant,,ENST00000534101,;NASP,upstream_gene_variant,,ENST00000530073,;NASP,3_prime_UTR_variant,,ENST00000529333,;NASP,3_prime_UTR_variant,,ENST00000437362,;NASP,3_prime_UTR_variant,,ENST00000528084,;NASP,3_prime_UTR_variant,,ENST00000453748,;NASP,non_coding_transcript_exon_variant,,ENST00000464190,;NASP,intron_variant,,ENST00000527359,;NASP,downstream_gene_variant,,ENST00000531532,;NASP,upstream_gene_variant,,ENST00000481782,;NASP,downstream_gene_variant,,ENST00000530840,;	A	ENSG00000132780	ENST00000350030	Transcript	missense_variant	427	340	114	H/N	Cat/Aat	COSM1296498	.	.	1	NASP	HGNC	7644	protein_coding	YES	CCDS524.1	ENSP00000255120	NASP_HUMAN	Q9P1N1_HUMAN,B4DS57_HUMAN	UPI000012FDA0	.	tolerated(0.16)	possibly_damaging(0.501)	5/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15081:SF1,hmmpanther:PTHR15081	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTGCATGTG	.	5	BLCA
ELAVL4	0	.	GRCh37	1	50661283	50661283	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610G>A	p.Glu204Lys	p.E204K	ENST00000357083	5/7	155	112	43	123	122	0	ELAVL4,missense_variant,p.Glu187Lys,ENST00000371824,;ELAVL4,missense_variant,p.Glu190Lys,ENST00000448907,;ELAVL4,missense_variant,p.Glu192Lys,ENST00000371821,;ELAVL4,missense_variant,p.Glu192Lys,ENST00000371819,;ELAVL4,missense_variant,p.Glu204Lys,ENST00000357083,;ELAVL4,missense_variant,p.Glu187Lys,ENST00000371827,;ELAVL4,missense_variant,p.Glu187Lys,ENST00000371823,;ELAVL4,non_coding_transcript_exon_variant,,ENST00000474675,;	A	ENSG00000162374	ENST00000357083	Transcript	missense_variant	652	610	204	E/K	Gaa/Aaa	COSM1296545,COSM1296544	.	.	1	ELAVL4	HGNC	3315	protein_coding	YES	CCDS44139.1	ENSP00000349594	ELAV4_HUMAN	B7Z5E0_HUMAN	UPI000006F633	.	deleterious(0)	possibly_damaging(0.858)	5/7	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011,hmmpanther:PTHR24011:SF243,TIGRFAM_domain:TIGR01661,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCAGAAGAA	.	5	BLCA
PRPF38A	0	.	GRCh37	1	52874277	52874277	+	Silent	SNP	G	G	C	rs375603067	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>C	p.%3D	p.L109L	ENST00000257181	3/10	101	78	22	80	79	0	PRPF38A,synonymous_variant,p.%3D,ENST00000257181,;ZCCHC11,intron_variant,,ENST00000528457,;ORC1,upstream_gene_variant,,ENST00000371566,;ORC1,upstream_gene_variant,,ENST00000371568,;snoU13,upstream_gene_variant,,ENST00000458879,;PRPF38A,non_coding_transcript_exon_variant,,ENST00000487160,;PRPF38A,intron_variant,,ENST00000474048,;ZCCHC11,intron_variant,,ENST00000527941,;	C	ENSG00000134748	ENST00000257181	Transcript	synonymous_variant	513	327	109	L	ctG/ctC	rs375603067,COSM1296571	.	.	1	PRPF38A	HGNC	25930	protein_coding	YES	CCDS567.1	ENSP00000257181	PR38A_HUMAN	.	UPI000006D9C2	.	.	.	3/10	.	hmmpanther:PTHR23142,Pfam_domain:PF03371	.	.	.	.	.	.	.	C:0.0005	C:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTGACAGG	byCluster	5	BLCA
HOOK1	0	.	GRCh37	1	60309252	60309252	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.770T>C	p.Leu257Ser	p.L257S	ENST00000371208	9/22	65	50	15	51	51	0	HOOK1,missense_variant,p.Leu257Ser,ENST00000371208,;HOOK1,missense_variant,p.Leu215Ser,ENST00000395561,;HOOK1,non_coding_transcript_exon_variant,,ENST00000465876,;	C	ENSG00000134709	ENST00000371208	Transcript	missense_variant	1027	770	257	L/S	tTa/tCa	COSM1296618	.	.	1	HOOK1	HGNC	19884	protein_coding	YES	CCDS612.1	ENSP00000360252	HOOK1_HUMAN	B1AK95_HUMAN,A8MU44_HUMAN	UPI0000071E61	.	deleterious(0.01)	possibly_damaging(0.658)	9/22	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF33,Pfam_domain:PF05622	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAATTACAGG	.	5	BLCA
WLS	0	.	GRCh37	1	68591908	68591908	+	Intron	SNP	C	C	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1510+11555G>C	.	.	ENST00000354777	.	48	31	17	39	39	0	WLS,3_prime_UTR_variant,,ENST00000262348,;WLS,3_prime_UTR_variant,,ENST00000370976,;WLS,intron_variant,,ENST00000540432,;WLS,intron_variant,,ENST00000354777,;GNG12-AS1,intron_variant,,ENST00000413628,;GNG12-AS1,intron_variant,,ENST00000420587,;WLS,non_coding_transcript_exon_variant,,ENST00000498615,;	G	ENSG00000116729	ENST00000354777	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	WLS	HGNC	30238	protein_coding	YES	CCDS30750.1	ENSP00000346829	WLS_HUMAN	E9PQK1_HUMAN,E9PM62_HUMAN,E9PKJ0_HUMAN,E9PJW4_HUMAN	UPI00003FE524	.	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCCTACT	.	5	BLCA
LRRC7	0	.	GRCh37	1	70504742	70504742	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3121G>A	p.Glu1041Lys	p.E1041K	ENST00000035383	19/25	61	49	12	50	50	0	LRRC7,missense_variant,p.Glu325Lys,ENST00000415775,;LRRC7,missense_variant,p.Glu1041Lys,ENST00000035383,;LRRC7,missense_variant,p.Glu1046Lys,ENST00000310961,;	A	ENSG00000033122	ENST00000035383	Transcript	missense_variant	3151	3121	1041	E/K	Gaa/Aaa	COSM1296673	.	.	1	LRRC7	HGNC	18531	protein_coding	YES	CCDS645.1	ENSP00000035383	LRRC7_HUMAN	.	UPI000006F29B	.	tolerated(0.43)	benign(0.345)	19/25	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTGGAAGTG	.	5	BLCA
FPGT	0	.	GRCh37	1	74670826	74670826	+	Silent	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1095T>C	p.%3D	p.Y365Y	ENST00000609362	4/4	82	60	22	67	67	0	FPGT,synonymous_variant,p.%3D,ENST00000370898,;FPGT,synonymous_variant,p.%3D,ENST00000609362,;FPGT-TNNI3K,intron_variant,,ENST00000370895,;FPGT-TNNI3K,intron_variant,,ENST00000370893,;FPGT-TNNI3K,intron_variant,,ENST00000534632,;FPGT,intron_variant,,ENST00000534056,;FPGT-TNNI3K,intron_variant,,ENST00000370899,;TNNI3K,intron_variant,,ENST00000370891,;FPGT,intron_variant,,ENST00000370894,;FPGT-TNNI3K,intron_variant,,ENST00000557284,;FPGT,downstream_gene_variant,,ENST00000482102,;FPGT,downstream_gene_variant,,ENST00000467578,;FPGT,downstream_gene_variant,,ENST00000472069,;FPGT,intron_variant,,ENST00000524915,;FPGT-TNNI3K,intron_variant,,ENST00000533006,;FPGT,downstream_gene_variant,,ENST00000529485,;	C	ENSG00000254685	ENST00000609362	Transcript	synonymous_variant	1132	1095	365	Y	taT/taC	COSM1296686	.	.	1	FPGT	HGNC	3825	protein_coding	YES	.	ENSP00000476680	.	.	UPI000013D402	.	.	.	4/4	.	hmmpanther:PTHR15045,Pfam_domain:PF07959,Gene3D:3.90.550.10,PIRSF_domain:PIRSF036640	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATATTTGTT	.	5	BLCA
ST6GALNAC5	0	.	GRCh37	1	77509952	77509952	+	Missense_Mutation	SNP	C	C	G	rs746598078	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325C>G	p.Arg109Gly	p.R109G	ENST00000477717	3/5	89	73	16	67	67	0	ST6GALNAC5,missense_variant,p.Arg109Gly,ENST00000477717,;ST6GALNAC5,non_coding_transcript_exon_variant,,ENST00000488940,;ST6GALNAC5,missense_variant,p.Arg109Gly,ENST00000318803,;	G	ENSG00000117069	ENST00000477717	Transcript	missense_variant	560	325	109	R/G	Cgg/Ggg	rs746598078,COSM1296703,COSM3492441	.	.	1	ST6GALNAC5	HGNC	19342	protein_coding	YES	CCDS673.1	ENSP00000417583	SIA7E_HUMAN	B4DHB7_HUMAN	UPI0000001C9F	.	.	benign(0.001)	3/5	.	PIRSF_domain:PIRSF005557,Pfam_domain:PF00777,hmmpanther:PTHR13713,hmmpanther:PTHR13713:SF33	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTCGGCAA	byFrequency	5	BLCA
CAMTA1	0	.	GRCh37	1	7806147	7806147	+	Missense_Mutation	SNP	A	A	G	rs780867973	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4613A>G	p.Tyr1538Cys	p.Y1538C	ENST00000303635	18/23	92	69	22	68	67	1	CAMTA1,missense_variant,p.Tyr104Cys,ENST00000490905,;CAMTA1,missense_variant,p.Tyr1538Cys,ENST00000303635,;CAMTA1,missense_variant,p.Tyr495Cys,ENST00000495233,;CAMTA1,missense_variant,p.Tyr1524Cys,ENST00000439411,;CAMTA1,missense_variant,p.Tyr102Cys,ENST00000476864,;	G	ENSG00000171735	ENST00000303635	Transcript	missense_variant	4820	4613	1538	Y/C	tAc/tGc	rs780867973,COSM1296708	.	.	1	CAMTA1	HGNC	18806	protein_coding	YES	CCDS30576.1	ENSP00000306522	CMTA1_HUMAN	.	UPI00001C1D72	.	deleterious(0)	probably_damaging(0.998)	18/23	.	hmmpanther:PTHR23335,hmmpanther:PTHR23335:SF2,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAATACAAGG	.	5	BLCA
USP33	0	.	GRCh37	1	78177467	78177467	+	Nonsense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2464A>T	p.Lys822Ter	p.K822*	ENST00000370793	22/25	80	59	21	50	50	0	USP33,stop_gained,p.Lys814Ter,ENST00000370792,;USP33,stop_gained,p.Lys822Ter,ENST00000357428,;USP33,stop_gained,p.Lys822Ter,ENST00000370793,;USP33,stop_gained,p.Lys427Ter,ENST00000481579,;USP33,stop_gained,p.Lys791Ter,ENST00000370794,;USP33,3_prime_UTR_variant,,ENST00000527390,;USP33,non_coding_transcript_exon_variant,,ENST00000477949,;USP33,downstream_gene_variant,,ENST00000472462,;	A	ENSG00000077254	ENST00000370793	Transcript	stop_gained	2811	2464	822	K/*	Aaa/Taa	COSM1296709	.	.	-1	USP33	HGNC	20059	protein_coding	YES	CCDS678.1	ENSP00000359829	UBP33_HUMAN	Q9Y417_HUMAN,E9PQP0_HUMAN,E9PP47_HUMAN,E9PLK7_HUMAN	UPI000022ABDA	.	.	.	22/25	.	PROSITE_profiles:PS51283,hmmpanther:PTHR24006:SF369,hmmpanther:PTHR24006,Gene3D:3jyuB01,Superfamily_domains:0050384	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTTTTCAA	.	5	BLCA
DNAJB4	0	.	GRCh37	1	78470657	78470657	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-138C>T	.	.	ENST00000370763	1/3	28	22	6	15	15	0	DNAJB4,5_prime_UTR_variant,,ENST00000370763,;DNAJB4,intron_variant,,ENST00000426517,;RP11-386I14.4,upstream_gene_variant,,ENST00000608684,;DNAJB4,non_coding_transcript_exon_variant,,ENST00000476396,;GIPC2,intron_variant,,ENST00000476882,;DNAJB4,intron_variant,,ENST00000484662,;DNAJB4,intron_variant,,ENST00000487931,;DNAJB4,intron_variant,,ENST00000477671,;	T	ENSG00000162616	ENST00000370763	Transcript	5_prime_UTR_variant	120	.	.	.	.	.	.	.	1	DNAJB4	HGNC	14886	protein_coding	YES	CCDS684.1	ENSP00000359799	DNJB4_HUMAN	C9JUL4_HUMAN,B4DNN2_HUMAN	UPI000000164F	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTGCCTTAAG	.	4	BLCA
ERRFI1	0	.	GRCh37	1	8075288	8075288	+	Intron	SNP	T	T	C	rs750920915	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202+80A>G	.	.	ENST00000377482	.	20	14	6	20	20	0	ERRFI1,3_prime_UTR_variant,,ENST00000467067,;ERRFI1,intron_variant,,ENST00000469499,;ERRFI1,intron_variant,,ENST00000377482,;ERRFI1,intron_variant,,ENST00000474874,;ERRFI1,intron_variant,,ENST00000487559,;	C	ENSG00000116285	ENST00000377482	Transcript	intron_variant	.	.	.	.	.	rs750920915	.	.	-1	ERRFI1	HGNC	18185	protein_coding	YES	CCDS94.1	ENSP00000366702	ERRFI_HUMAN	I6S2Y9_HUMAN	UPI000012F0FC	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAATAATGC	byFrequency	5	BLCA
CYR61	0	.	GRCh37	1	86048789	86048789	+	3'UTR	SNP	C	C	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*64C>A	.	.	ENST00000451137	5/5	46	33	13	28	28	0	CYR61,3_prime_UTR_variant,,ENST00000451137,;DDAH1,upstream_gene_variant,,ENST00000535924,;RP11-290M5.4,upstream_gene_variant,,ENST00000609367,;CYR61,downstream_gene_variant,,ENST00000480413,;DDAH1,upstream_gene_variant,,ENST00000467530,;DDAH1,upstream_gene_variant,,ENST00000483110,;DDAH1,upstream_gene_variant,,ENST00000498304,;	A	ENSG00000142871	ENST00000451137	Transcript	3_prime_UTR_variant	1434	.	.	.	.	.	.	.	1	CYR61	HGNC	2654	protein_coding	YES	CCDS706.1	ENSP00000398736	CYR61_HUMAN	Q6FI18_HUMAN	UPI00000473C9	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCATGGA	.	5	BLCA
JAG1	0	.	GRCh37	20	10639244	10639244	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.566A>T	p.Asp189Val	p.D189V	ENST00000254958	4/26	136	97	39	129	129	0	JAG1,missense_variant,p.Asp30Val,ENST00000423891,;JAG1,missense_variant,p.Asp189Val,ENST00000254958,;	A	ENSG00000101384	ENST00000254958	Transcript	missense_variant	1082	566	189	D/V	gAc/gTc	COSM1307146,COSM1307145	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	deleterious(0)	benign(0.343)	4/26	.	PROSITE_profiles:PS51051,hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,Pfam_domain:PF01414,Gene3D:2gy5A03,SMART_domains:SM00051	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTAGTCATCA	.	5	BLCA
SNPH	0	.	GRCh37	20	1286301	1286301	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088C>G	p.Ser363Ter	p.S363*	ENST00000381873	6/6	96	76	20	67	66	1	SNPH,stop_gained,p.Ser363Ter,ENST00000381873,;SNPH,stop_gained,p.Ser407Ter,ENST00000381867,;SDCBP2,downstream_gene_variant,,ENST00000381812,;SDCBP2,downstream_gene_variant,,ENST00000381808,;SDCBP2,downstream_gene_variant,,ENST00000339987,;SDCBP2,downstream_gene_variant,,ENST00000360779,;SDCBP2,downstream_gene_variant,,ENST00000467129,;	G	ENSG00000101298	ENST00000381873	Transcript	stop_gained	1324	1088	363	S/*	tCa/tGa	COSM1307149,COSM1307150	.	.	1	SNPH	HGNC	15931	protein_coding	YES	CCDS13012.1	ENSP00000371297	SNPH_HUMAN	.	UPI000007424E	.	.	.	6/6	.	hmmpanther:PTHR16208:SF1,hmmpanther:PTHR16208	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCAGCAG	.	5	BLCA
TGM6	0	.	GRCh37	20	2413168	2413168	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2000C>A	p.Ser667Ter	p.S667*	ENST00000202625	13/13	135	99	35	96	95	1	TGM6,stop_gained,p.Ser667Ter,ENST00000202625,;TGM6,synonymous_variant,p.%3D,ENST00000381423,;	A	ENSG00000166948	ENST00000202625	Transcript	stop_gained	2061	2000	667	S/*	tCa/tAa	COSM1307220	.	.	1	TGM6	HGNC	16255	protein_coding	YES	CCDS13025.1	ENSP00000202625	TGM3L_HUMAN	.	UPI0000367011	.	.	.	13/13	.	hmmpanther:PTHR11590,hmmpanther:PTHR11590:SF39,Gene3D:2.60.40.10,Pfam_domain:PF00927,PIRSF_domain:PIRSF000459,Superfamily_domains:SSF49309	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCAGTCC	.	4	BLCA
ZCCHC3	0	.	GRCh37	20	279103	279103	+	Silent	SNP	G	G	T	rs750298634	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.876G>T	p.%3D	p.G292G	ENST00000382352	1/1	147	112	35	107	107	0	ZCCHC3,synonymous_variant,p.%3D,ENST00000382352,;AL034548.1,non_coding_transcript_exon_variant,,ENST00000500893,;	T	ENSG00000177764	ENST00000382352	Transcript	synonymous_variant	1367	876	292	G	ggG/ggT	rs750298634,COSM1307243	.	.	1	ZCCHC3	HGNC	16230	protein_coding	YES	CCDS42844.1	ENSP00000371789	ZCHC3_HUMAN	.	UPI00001285F2	.	.	.	1/1	.	hmmpanther:PTHR22639:SF2,hmmpanther:PTHR22639	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGGGATCTG	byFrequency	5	BLCA
OXT	0	.	GRCh37	20	3052881	3052881	+	Silent	SNP	G	G	A	rs781195575	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279G>A	p.%3D	p.G93G	ENST00000217386	2/3	43	30	12	40	40	0	OXT,synonymous_variant,p.%3D,ENST00000217386,;	A	ENSG00000101405	ENST00000217386	Transcript	synonymous_variant	315	279	93	G	ggG/ggA	rs781195575,COSM1307259	.	.	1	OXT	HGNC	8528	protein_coding	YES	CCDS13044.1	ENSP00000217386	NEU1_HUMAN	.	UPI00000495CA	.	.	.	2/3	.	hmmpanther:PTHR11681:SF4,hmmpanther:PTHR11681,Pfam_domain:PF00184,Gene3D:2hnuA00,PIRSF_domain:PIRSF001815,SMART_domains:SM00003,Superfamily_domains:SSF49606,Prints_domain:PR00831	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCGGGAGCGG	.	5	BLCA
CCM2L	0	.	GRCh37	20	30602794	30602794	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118C>T	p.His40Tyr	p.H40Y	ENST00000262659	2/9	201	142	58	130	129	1	CCM2L,missense_variant,p.His40Tyr,ENST00000300415,;CCM2L,missense_variant,p.His40Tyr,ENST00000262659,;CCM2L,upstream_gene_variant,,ENST00000452892,;	T	ENSG00000101331	ENST00000262659	Transcript	missense_variant	123	118	40	H/Y	Cac/Tac	COSM1307261,COSM1307262	.	.	1	CCM2L	HGNC	16153	protein_coding	YES	CCDS13195.1	ENSP00000262659	CCM2L_HUMAN	.	UPI0000070921	.	deleterious(0)	possibly_damaging(0.813)	2/9	.	hmmpanther:PTHR21642,hmmpanther:PTHR21642:SF2	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTGCACTCG	.	5	BLCA
KIF3B	0	.	GRCh37	20	30898454	30898483	+	In_Frame_Del	DEL	TATCGGGACTCAAAGCTTACCAGGCTCCTC	TATCGGGACTCAAAGCTTACCAGGCTCCTC	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	TATCGGGACTCAAAGCTTACCAGGCTCCTC	TATCGGGACTCAAAGCTTACCAGGCTCCTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874_903delTATCGGGACTCAAAGCTTACCAGGCTCCTC	p.Tyr292_Leu301del	p.Y292_L301del	ENST00000375712	2/9	76	61	15	56	56	0	KIF3B,inframe_deletion,p.Tyr292_Leu301del,ENST00000375712,;KIF3B,5_prime_UTR_variant,,ENST00000418717,;	-	ENSG00000101350	ENST00000375712	Transcript	inframe_deletion	1041-1070	874-903	292-301	YRDSKLTRLL/-	TATCGGGACTCAAAGCTTACCAGGCTCCTC/-	.	.	.	1	KIF3B	HGNC	6320	protein_coding	YES	CCDS13200.1	ENSP00000364864	KIF3B_HUMAN	.	UPI000012DDB1	.	.	.	2/9	.	Prints_domain:PR00380,Superfamily_domains:SSF52540,SMART_domains:SM00129,Pfam_domain:PF00225,Gene3D:3.40.850.10,hmmpanther:PTHR24115:SF349,hmmpanther:PTHR24115,PROSITE_profiles:PS50067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATTCCATATCGGGACTCAAAGCTTACCAGGCTCCTCCAAGA	.	3	BLCA
ITCH	0	.	GRCh37	20	33057885	33057897	+	Frame_Shift_Del	DEL	ACTTCAAAGCAAA	ACTTCAAAGCAAA	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	ACTTCAAAGCAAA	ACTTCAAAGCAAA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1580_1592delACTTCAAAGCAAA	p.Asp527GlyfsTer18	p.D527Gfs*18	ENST00000262650	16/26	335	273	62	255	255	0	ITCH,frameshift_variant,p.Asp486GlyfsTer18,ENST00000374864,;ITCH,frameshift_variant,p.Asp376GlyfsTer18,ENST00000535650,;ITCH,frameshift_variant,p.Asp527GlyfsTer18,ENST00000262650,;MIR644A,downstream_gene_variant,,ENST00000385262,;ITCH,non_coding_transcript_exon_variant,,ENST00000483727,;ITCH,upstream_gene_variant,,ENST00000461661,;	-	ENSG00000078747	ENST00000262650	Transcript	frameshift_variant	1716-1728	1580-1592	527-531	DFKAK/X	gACTTCAAAGCAAAg/gg	.	.	.	1	ITCH	HGNC	13890	protein_coding	YES	CCDS58768.1	ENSP00000262650	ITCH_HUMAN	.	UPI00000731C2	.	.	.	16/26	.	Superfamily_domains:SSF56204,PIRSF_domain:PIRSF001569,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCGGGACTTCAAAGCAAAGGTTC	.	3	BLCA
CENPB	0	.	GRCh37	20	3766484	3766484	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.647G>A	p.Gly216Glu	p.G216E	ENST00000379751	1/1	160	125	34	145	144	1	CENPB,missense_variant,p.Gly216Glu,ENST00000379751,;CDC25B,upstream_gene_variant,,ENST00000379598,;CDC25B,upstream_gene_variant,,ENST00000344256,;SPEF1,upstream_gene_variant,,ENST00000379756,;SPEF1,upstream_gene_variant,,ENST00000471499,;SPEF1,upstream_gene_variant,,ENST00000463490,;	T	ENSG00000125817	ENST00000379751	Transcript	missense_variant	854	647	216	G/E	gGa/gAa	COSM1307379	.	.	-1	CENPB	HGNC	1852	protein_coding	YES	CCDS13064.1	ENSP00000369075	CENPB_HUMAN	Q96EI4_HUMAN,Q71VN4_HUMAN,Q71VN3_HUMAN	UPI00001274F8	.	tolerated(0.19)	unknown(0)	1/1	.	Pfam_domain:PF03184,hmmpanther:PTHR19303,hmmpanther:PTHR19303:SF194	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCGTCCGTCG	.	4	BLCA
TBC1D20	0	.	GRCh37	20	419827	419827	+	Missense_Mutation	SNP	C	C	T	rs778512413	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.881G>A	p.Arg294Lys	p.R294K	ENST00000354200	7/8	55	44	11	40	40	0	TBC1D20,missense_variant,p.Arg294Lys,ENST00000354200,;TBC1D20,non_coding_transcript_exon_variant,,ENST00000494633,;TBC1D20,non_coding_transcript_exon_variant,,ENST00000461188,;TBC1D20,missense_variant,p.Arg294Lys,ENST00000461304,;	T	ENSG00000125875	ENST00000354200	Transcript	missense_variant	1029	881	294	R/K	aGa/aAa	rs778512413,COSM1307414	.	.	-1	TBC1D20	HGNC	16133	protein_coding	YES	CCDS13002.1	ENSP00000346139	TBC20_HUMAN	B9A6M1_HUMAN	UPI000006D549	.	tolerated(0.35)	benign(0.005)	7/8	.	hmmpanther:PTHR20913:SF10,hmmpanther:PTHR20913,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCTGCTG	.	5	BLCA
SLC2A10	0	.	GRCh37	20	45355551	45355551	+	Missense_Mutation	SNP	G	G	A	rs761324818	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1337G>A	p.Arg446Lys	p.R446K	ENST00000359271	3/5	189	141	48	160	159	1	SLC2A10,missense_variant,p.Arg446Lys,ENST00000359271,;	A	ENSG00000197496	ENST00000359271	Transcript	missense_variant	1587	1337	446	R/K	aGa/aAa	rs761324818,COSM1307478	.	.	1	SLC2A10	HGNC	13444	protein_coding	YES	CCDS13402.1	ENSP00000352216	GTR10_HUMAN	Q8TDC7_HUMAN	UPI000012BC8D	.	deleterious(0.03)	probably_damaging(0.983)	3/5	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24063:SF93,hmmpanther:PTHR24063,Gene3D:1.20.1250.20,Pfam_domain:PF00083,Superfamily_domains:SSF103473,Prints_domain:PR00171	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAGCCT	.	5	BLCA
GNAS	0	.	GRCh37	20	57485061	57485061	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2824G>A	p.Glu942Lys	p.E942K	ENST00000371100	11/13	232	166	66	181	179	2	GNAS,missense_variant,p.Glu299Lys,ENST00000371085,;GNAS,missense_variant,p.Glu285Lys,ENST00000306090,;GNAS,missense_variant,p.Glu300Lys,ENST00000354359,;GNAS,missense_variant,p.Glu285Lys,ENST00000371095,;GNAS,missense_variant,p.Glu928Lys,ENST00000371102,;GNAS,missense_variant,p.Glu284Lys,ENST00000265620,;GNAS,missense_variant,p.Glu942Lys,ENST00000371100,;GNAS,3_prime_UTR_variant,,ENST00000313949,;GNAS,3_prime_UTR_variant,,ENST00000371075,;GNAS,downstream_gene_variant,,ENST00000419558,;GNAS,downstream_gene_variant,,ENST00000349036,;GNAS,downstream_gene_variant,,ENST00000603546,;GNAS,downstream_gene_variant,,ENST00000450130,;GNAS,downstream_gene_variant,,ENST00000604005,;GNAS,non_coding_transcript_exon_variant,,ENST00000477931,;GNAS,non_coding_transcript_exon_variant,,ENST00000488546,;GNAS,non_coding_transcript_exon_variant,,ENST00000494081,;GNAS,non_coding_transcript_exon_variant,,ENST00000464624,;GNAS,non_coding_transcript_exon_variant,,ENST00000480975,;GNAS,downstream_gene_variant,,ENST00000481039,;GNAS,downstream_gene_variant,,ENST00000482112,;GNAS,downstream_gene_variant,,ENST00000485673,;GNAS,downstream_gene_variant,,ENST00000467321,;GNAS,downstream_gene_variant,,ENST00000469431,;GNAS,downstream_gene_variant,,ENST00000480232,;GNAS,downstream_gene_variant,,ENST00000472183,;GNAS,downstream_gene_variant,,ENST00000464788,;GNAS,downstream_gene_variant,,ENST00000488652,;GNAS,downstream_gene_variant,,ENST00000490374,;GNAS,downstream_gene_variant,,ENST00000493958,;GNAS,downstream_gene_variant,,ENST00000478585,;GNAS,downstream_gene_variant,,ENST00000470512,;GNAS,downstream_gene_variant,,ENST00000492907,;GNAS,downstream_gene_variant,,ENST00000468895,;GNAS,downstream_gene_variant,,ENST00000467227,;GNAS,downstream_gene_variant,,ENST00000476935,;GNAS,non_coding_transcript_exon_variant,,ENST00000487862,;GNAS,non_coding_transcript_exon_variant,,ENST00000476196,;GNAS,non_coding_transcript_exon_variant,,ENST00000496934,;GNAS,downstream_gene_variant,,ENST00000479025,;GNAS,downstream_gene_variant,,ENST00000487981,;GNAS,upstream_gene_variant,,ENST00000475610,;	A	ENSG00000087460	ENST00000371100	Transcript	missense_variant	3376	2824	942	E/K	Gag/Aag	COSM1307552,COSM1307551	.	.	1	GNAS	HGNC	4392	protein_coding	YES	CCDS46622.1	ENSP00000360141	GNAS1_HUMAN	S4R3W4_HUMAN,S4R3V9_HUMAN,S4R3F1_HUMAN,S4R3E3_HUMAN,S4R379_HUMAN,B0AZR9_HUMAN	UPI0000E444AE	.	deleterious(0.01)	probably_damaging(0.966)	11/13	.	hmmpanther:PTHR10218:SF36,hmmpanther:PTHR10218,Pfam_domain:PF00503,Gene3D:3.40.50.300,SMART_domains:SM00275,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TCGCTGAGAAA	.	3	BLCA
C20orf195	0	.	GRCh37	20	62187700	62187708	+	In_Frame_Del	DEL	GTTCGTCAC	GTTCGTCAC	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	GTTCGTCAC	GTTCGTCAC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684_692delGTTCGTCAC	p.Trp228_Thr231delinsCys	p.W228_T231delinsC	ENST00000370098	2/2	261	163	98	200	200	0	C20orf195,inframe_deletion,p.Trp228_Thr231delinsCys,ENST00000370097,;C20orf195,inframe_deletion,p.Trp228_Thr231delinsCys,ENST00000370098,;HELZ2,downstream_gene_variant,,ENST00000467148,;HELZ2,downstream_gene_variant,,ENST00000427522,;HELZ2,downstream_gene_variant,,ENST00000478861,;	-	ENSG00000125531	ENST00000370098	Transcript	inframe_deletion	776-784	684-692	228-231	WFVT/C	tgGTTCGTCACc/tgc	.	.	.	1	C20orf195	HGNC	28764	protein_coding	YES	CCDS13526.1	ENSP00000359116	CT195_HUMAN	.	UPI0000072CF6	.	.	.	2/2	.	PROSITE_profiles:PS50853,hmmpanther:PTHR14537:SF0,hmmpanther:PTHR14537,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	GCGCTGGTTCGTCACCATCC	.	2	BLCA
GMEB2	0	.	GRCh37	20	62229137	62229137	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.434C>T	p.Ala145Val	p.A145V	ENST00000266068	4/9	81	54	26	85	85	0	GMEB2,missense_variant,p.Ala145Val,ENST00000266068,;GMEB2,missense_variant,p.Ala94Val,ENST00000370069,;GMEB2,missense_variant,p.Ala145Val,ENST00000370077,;	A	ENSG00000101216	ENST00000266068	Transcript	missense_variant	913	434	145	A/V	gCc/gTc	COSM1307636	.	.	-1	GMEB2	HGNC	4371	protein_coding	YES	CCDS13528.1	ENSP00000266068	GMEB2_HUMAN	Q659E7_HUMAN,Q5JTV1_HUMAN	UPI000012B8AD	.	deleterious(0)	probably_damaging(1)	4/9	.	PROSITE_profiles:PS50864,hmmpanther:PTHR10417,hmmpanther:PTHR10417:SF2,Gene3D:3.10.390.10,Pfam_domain:PF01342,SMART_domains:SM00258,Superfamily_domains:SSF63763	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATGGCTCTC	.	5	BLCA
CLDN17	0	.	GRCh37	21	31538933	31538933	+	Translation_Start_Site	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000286808	1/1	74	59	15	39	39	0	CLDN17,start_lost,p.Met1?,ENST00000286808,;	T	ENSG00000156282	ENST00000286808	Transcript	start_lost	39	3	1	M/I	atG/atA	COSM1307708	.	.	-1	CLDN17	HGNC	2038	protein_coding	YES	CCDS13586.1	ENSP00000286808	CLD17_HUMAN	.	UPI000004E655	.	deleterious(0)	probably_damaging(0.999)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATGCCATTGC	.	3	BLCA
PAXBP1	0	.	GRCh37	21	34131446	34131446	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1328T>G	p.Phe443Cys	p.F443C	ENST00000331923	7/18	238	170	68	188	188	0	PAXBP1,missense_variant,p.Phe443Cys,ENST00000290178,;PAXBP1,missense_variant,p.Phe443Cys,ENST00000331923,;PAXBP1,non_coding_transcript_exon_variant,,ENST00000472588,;PAXBP1,missense_variant,p.Phe443Cys,ENST00000443785,;PAXBP1,upstream_gene_variant,,ENST00000421049,;PAXBP1,downstream_gene_variant,,ENST00000464256,;PAXBP1,upstream_gene_variant,,ENST00000466846,;	C	ENSG00000159086	ENST00000331923	Transcript	missense_variant	1518	1328	443	F/C	tTt/tGt	COSM1307735	.	.	-1	PAXBP1	HGNC	13579	protein_coding	YES	CCDS13619.1	ENSP00000328992	PAXB1_HUMAN	Q9NZD7_HUMAN,Q8N6E6_HUMAN,Q8N2J1_HUMAN,B3KY25_HUMAN	UPI000012B294	.	deleterious(0)	probably_damaging(1)	7/18	.	hmmpanther:PTHR12214:SF2,hmmpanther:PTHR12214	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAAAAATTTA	.	5	BLCA
BRWD1	0	.	GRCh37	21	40574387	40574387	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4449G>A	p.%3D	p.R1483R	ENST00000333229	38/42	78	52	26	68	68	0	BRWD1,synonymous_variant,p.%3D,ENST00000424441,;BRWD1,synonymous_variant,p.%3D,ENST00000342449,;BRWD1,synonymous_variant,p.%3D,ENST00000380800,;BRWD1,synonymous_variant,p.%3D,ENST00000333229,;BRWD1,3_prime_UTR_variant,,ENST00000446924,;BRWD1,upstream_gene_variant,,ENST00000491564,;	T	ENSG00000185658	ENST00000333229	Transcript	synonymous_variant	4777	4449	1483	R	agG/agA	COSM1307786,COSM1307785	.	.	-1	BRWD1	HGNC	12760	protein_coding	YES	CCDS13662.1	ENSP00000330753	BRWD1_HUMAN	.	UPI0000163C12	.	.	.	38/42	.	hmmpanther:PTHR16266:SF26,hmmpanther:PTHR16266	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGTCCTACT	.	5	BLCA
MX2	0	.	GRCh37	21	42780076	42780076	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2064G>A	p.%3D	p.K688K	ENST00000330714	14/14	122	68	54	64	64	0	MX2,synonymous_variant,p.%3D,ENST00000330714,;MX2,downstream_gene_variant,,ENST00000481838,;MX2,non_coding_transcript_exon_variant,,ENST00000482953,;MX2,non_coding_transcript_exon_variant,,ENST00000398632,;MX2,downstream_gene_variant,,ENST00000474368,;	A	ENSG00000183486	ENST00000330714	Transcript	synonymous_variant	2248	2064	688	K	aaG/aaA	COSM1307814	.	.	1	MX2	HGNC	7533	protein_coding	YES	CCDS13672.1	ENSP00000333657	MX2_HUMAN	Q75MY8_HUMAN,Q75MY7_HUMAN,C9JZQ9_HUMAN,C9JS04_HUMAN,C9JEL4_HUMAN	UPI0000001C2D	.	.	.	14/14	.	SMART_domains:SM00302,Pfam_domain:PF02212,hmmpanther:PTHR11566:SF46,hmmpanther:PTHR11566,PROSITE_profiles:PS51388	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAAGAGAAG	.	5	BLCA
RRP1	0	.	GRCh37	21	45217279	45217279	+	Intron	SNP	C	C	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423-24C>G	.	.	ENST00000497547	.	42	35	7	28	28	0	RRP1,intron_variant,,ENST00000497547,;RRP1,non_coding_transcript_exon_variant,,ENST00000471909,;RRP1,intron_variant,,ENST00000475534,;RRP1,intron_variant,,ENST00000467112,;RRP1,intron_variant,,ENST00000483896,;RRP1,downstream_gene_variant,,ENST00000492638,;	G	ENSG00000160214	ENST00000497547	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RRP1	HGNC	18785	protein_coding	YES	CCDS42951.1	ENSP00000417464	RRP1_HUMAN	.	UPI0000130286	.	.	.	.	5/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGTCATGTT	.	5	BLCA
KRTAP10-6	0	.	GRCh37	21	46012274	46012274	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.92C>T	p.Ser31Phe	p.S31F	ENST00000400368	1/1	116	85	30	81	81	0	KRTAP10-6,missense_variant,p.Ser31Phe,ENST00000400368,;TSPEAR,intron_variant,,ENST00000323084,;	A	ENSG00000188155	ENST00000400368	Transcript	missense_variant	113	92	31	S/F	tCc/tTc	COSM579451	.	.	-1	KRTAP10-6	HGNC	20523	protein_coding	YES	CCDS42959.1	ENSP00000383219	KR106_HUMAN	.	UPI0000E5A408	.	deleterious(0)	unknown(0)	1/1	.	hmmpanther:PTHR23262,hmmpanther:PTHR23262:SF18	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	GCCAGGAGTCG	.	2	BLCA
PCNT	0	.	GRCh37	21	47769713	47769713	+	Silent	SNP	C	C	T	rs756913706	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1323C>T	p.%3D	p.S441S	ENST00000359568	8/47	111	69	42	70	69	1	PCNT,synonymous_variant,p.%3D,ENST00000359568,;PCNT,non_coding_transcript_exon_variant,,ENST00000466474,;PCNT,non_coding_transcript_exon_variant,,ENST00000483844,;PCNT,non_coding_transcript_exon_variant,,ENST00000480896,;PCNT,non_coding_transcript_exon_variant,,ENST00000490468,;	T	ENSG00000160299	ENST00000359568	Transcript	synonymous_variant	1430	1323	441	S	agC/agT	rs756913706,COSM1307910	.	.	1	PCNT	HGNC	16068	protein_coding	YES	CCDS33592.1	ENSP00000352572	PCNT_HUMAN	.	UPI00001AEB88	.	.	.	8/47	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF11,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAGCGAGAA	byFrequency	5	BLCA
CCT8L2	0	.	GRCh37	22	17072837	17072837	+	Missense_Mutation	SNP	G	G	T	rs142343817	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.604C>A	p.Arg202Ser	p.R202S	ENST00000359963	1/1	157	127	30	103	103	0	CCT8L2,missense_variant,p.Arg202Ser,ENST00000359963,;FABP5P11,downstream_gene_variant,,ENST00000430910,;	T	ENSG00000198445	ENST00000359963	Transcript	missense_variant	864	604	202	R/S	Cgt/Agt	rs142343817,COSM1307923	.	.	-1	CCT8L2	HGNC	15553	protein_coding	YES	CCDS13738.1	ENSP00000353048	TCPQM_HUMAN	.	UPI000006CF87	.	tolerated(0.16)	benign(0.196)	1/1	.	Superfamily_domains:SSF54849,Pfam_domain:PF00118,Gene3D:3.30.260.10,hmmpanther:PTHR11353:SF70,hmmpanther:PTHR11353	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0	A:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACACGCTCAG	byCluster|by1000G	5	BLCA
BCL2L13	0	.	GRCh37	22	18185037	18185037	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.485A>C	p.Gln162Pro	p.Q162P	ENST00000317582	6/7	228	186	42	143	143	0	BCL2L13,missense_variant,p.Gln162Pro,ENST00000493680,;BCL2L13,missense_variant,p.Gln162Pro,ENST00000317582,;BCL2L13,missense_variant,p.Gln162Pro,ENST00000399782,;BCL2L13,missense_variant,p.Gln38Pro,ENST00000538149,;BCL2L13,5_prime_UTR_variant,,ENST00000337612,;BCL2L13,5_prime_UTR_variant,,ENST00000543133,;BCL2L13,intron_variant,,ENST00000418951,;BCL2L13,intron_variant,,ENST00000355028,;BCL2L13,non_coding_transcript_exon_variant,,ENST00000479296,;BCL2L13,upstream_gene_variant,,ENST00000485631,;BCL2L13,missense_variant,p.Lys34Gln,ENST00000399777,;BCL2L13,3_prime_UTR_variant,,ENST00000498133,;	C	ENSG00000099968	ENST00000317582	Transcript	missense_variant	832	485	162	Q/P	cAa/cCa	COSM1307937	.	.	1	BCL2L13	HGNC	17164	protein_coding	YES	CCDS13746.1	ENSP00000318883	B2L13_HUMAN	B2RB43_HUMAN	UPI000004F301	.	tolerated(0.07)	possibly_damaging(0.664)	6/7	.	Superfamily_domains:SSF56854,Gene3D:1.10.437.10,Pfam_domain:PF00452,hmmpanther:PTHR15758,PROSITE_profiles:PS50062,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGACAAATGC	.	5	BLCA
IGLV3-9	0	.	GRCh37	22	23162170	23162170	+	Missense_Mutation	SNP	C	C	T	rs745321295	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.263C>T	p.Thr88Met	p.T88M	ENST00000390316	2/2	93	72	20	57	57	0	IGLV3-9,missense_variant,p.Thr88Met,ENST00000390316,;IGLV2-8,upstream_gene_variant,,ENST00000390317,;MIR650,upstream_gene_variant,,ENST00000385101,;LL22NC03-84E4.11,downstream_gene_variant,,ENST00000423259,;	T	ENSG00000211670	ENST00000390316	Transcript	missense_variant	378	263	88	T/M	aCg/aTg	rs745321295	.	.	1	IGLV3-9	HGNC	5918	IG_V_gene	YES	.	ENSP00000374851	.	A2MYD5_HUMAN	UPI0000EE5A41	.	tolerated(0.09)	possibly_damaging(0.488)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF51,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACACGGCCA	byFrequency	5	BLCA
IGLV3-9	0	.	GRCh37	22	23162216	23162216	+	Missense_Mutation	SNP	C	C	G	rs533872802	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309C>G	p.Asp103Glu	p.D103E	ENST00000390316	2/2	91	71	20	68	68	0	IGLV3-9,missense_variant,p.Asp103Glu,ENST00000390316,;IGLV2-8,upstream_gene_variant,,ENST00000390317,;MIR650,upstream_gene_variant,,ENST00000385101,;LL22NC03-84E4.11,downstream_gene_variant,,ENST00000423259,;	G	ENSG00000211670	ENST00000390316	Transcript	missense_variant	424	309	103	D/E	gaC/gaG	rs533872802	.	.	1	IGLV3-9	HGNC	5918	IG_V_gene	YES	.	ENSP00000374851	.	A2MYD5_HUMAN	UPI0000EE5A41	.	deleterious(0.01)	probably_damaging(0.983)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF51,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,SMART_domains:SM00406,Superfamily_domains:SSF48726	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTGACTATTA	by1000G	3	BLCA
ZNRF3	0	.	GRCh37	22	29445244	29445244	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075C>G	p.Gln359Glu	p.Q359E	ENST00000544604	8/9	169	130	39	118	118	0	ZNRF3,missense_variant,p.Gln259Glu,ENST00000406323,;ZNRF3,missense_variant,p.Gln259Glu,ENST00000332811,;ZNRF3,missense_variant,p.Gln259Glu,ENST00000402174,;ZNRF3,missense_variant,p.Gln359Glu,ENST00000544604,;	G	ENSG00000183579	ENST00000544604	Transcript	missense_variant	1250	1075	359	Q/E	Cag/Gag	COSM1308034	.	.	1	ZNRF3	HGNC	18126	protein_coding	YES	CCDS56225.1	ENSP00000443824	ZNRF3_HUMAN	.	UPI0000EE5944	.	tolerated(0.12)	benign(0.265)	8/9	.	hmmpanther:PTHR16200:SF3,hmmpanther:PTHR16200	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCGGCAGCAG	.	5	BLCA
SLC35E4	0	.	GRCh37	22	31042720	31042720	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.755C>G	p.Ser252Cys	p.S252C	ENST00000343605	2/2	61	49	12	42	42	0	SLC35E4,missense_variant,p.Ser252Cys,ENST00000343605,;SLC35E4,intron_variant,,ENST00000451479,;SLC35E4,intron_variant,,ENST00000300385,;SLC35E4,intron_variant,,ENST00000406566,;	G	ENSG00000100036	ENST00000343605	Transcript	missense_variant	1554	755	252	S/C	tCt/tGt	COSM1308069	.	.	1	SLC35E4	HGNC	17058	protein_coding	YES	CCDS13882.1	ENSP00000339626	S35E4_HUMAN	.	UPI0000198650	.	tolerated(0.16)	benign(0.016)	2/2	.	hmmpanther:PTHR11132:SF41,hmmpanther:PTHR11132,Pfam_domain:PF03151,Superfamily_domains:0043518	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGACTCTCGCC	.	5	BLCA
PLA2G6	0	.	GRCh37	22	38536057	38536057	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729T>A	p.Asn243Lys	p.N243K	ENST00000332509	5/17	59	47	11	37	37	0	PLA2G6,missense_variant,p.Asn243Lys,ENST00000335539,;PLA2G6,missense_variant,p.Asn65Lys,ENST00000498338,;PLA2G6,missense_variant,p.Asn243Lys,ENST00000402064,;PLA2G6,missense_variant,p.Asn243Lys,ENST00000332509,;PLA2G6,missense_variant,p.Asn74Lys,ENST00000452542,;PLA2G6,intron_variant,,ENST00000427114,;PLA2G6,downstream_gene_variant,,ENST00000430886,;PLA2G6,upstream_gene_variant,,ENST00000427453,;PLA2G6,downstream_gene_variant,,ENST00000436218,;PLA2G6,downstream_gene_variant,,ENST00000452972,;PLA2G6,downstream_gene_variant,,ENST00000479641,;PLA2G6,downstream_gene_variant,,ENST00000445591,;PLA2G6,intron_variant,,ENST00000471636,;PLA2G6,upstream_gene_variant,,ENST00000448094,;	T	ENSG00000184381	ENST00000332509	Transcript	missense_variant	913	729	243	N/K	aaT/aaA	COSM1308160	.	.	-1	PLA2G6	HGNC	9039	protein_coding	YES	CCDS13967.1	ENSP00000333142	PLPL9_HUMAN	M0R3D9_HUMAN,M0R1Q9_HUMAN,F8WEQ9_HUMAN	UPI00001310F3	.	tolerated(0.06)	possibly_damaging(0.643)	5/17	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24139:SF27,hmmpanther:PTHR24139,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAGCATTGCA	.	5	BLCA
NHP2L1	0	.	GRCh37	22	42078442	42078442	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-80G>A	.	.	ENST00000401959	2/4	39	27	12	20	20	0	NHP2L1,5_prime_UTR_variant,,ENST00000401959,;NHP2L1,5_prime_UTR_variant,,ENST00000215956,;NHP2L1,intron_variant,,ENST00000402458,;NHP2L1,intron_variant,,ENST00000355257,;RNU6-476P,downstream_gene_variant,,ENST00000384726,;NHP2L1,non_coding_transcript_exon_variant,,ENST00000488571,;NHP2L1,intron_variant,,ENST00000469028,;NHP2L1,intron_variant,,ENST00000463675,;	T	ENSG00000100138	ENST00000401959	Transcript	5_prime_UTR_variant	238	.	.	.	.	.	.	.	-1	NHP2L1	HGNC	7819	protein_coding	YES	CCDS14022.1	ENSP00000383949	NH2L1_HUMAN	Q6FHM6_HUMAN	UPI0000026E49	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCACCGCAAG	.	4	BLCA
TTLL12	0	.	GRCh37	22	43570554	43570554	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.985G>A	p.Glu329Lys	p.E329K	ENST00000216129	7/14	147	112	34	110	109	1	TTLL12,missense_variant,p.Glu329Lys,ENST00000216129,;TTLL12,upstream_gene_variant,,ENST00000494035,;TTLL12,non_coding_transcript_exon_variant,,ENST00000484118,;TTLL12,upstream_gene_variant,,ENST00000484711,;	T	ENSG00000100304	ENST00000216129	Transcript	missense_variant	1049	985	329	E/K	Gag/Aag	COSM1308239	.	.	-1	TTLL12	HGNC	28974	protein_coding	YES	CCDS14047.1	ENSP00000216129	TTL12_HUMAN	.	UPI000013938D	.	tolerated(0.06)	benign(0.087)	7/14	.	PROSITE_profiles:PS51221,hmmpanther:PTHR12241,hmmpanther:PTHR12241:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CGCCTCACTCT	.	4	BLCA
SLC20A1	0	.	GRCh37	2	113404397	113404433	+	Missense_Mutation	DEL	CTCCAGAGAATGGCAACGCTGATTACCAGTACTACAG	CTCCAGAGAATGGCAACGCTGATTACCAGTACTACAG	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CTCCAGAGAATGGCAACGCTGATTACCAGTACTACAG	CTCCAGAGAATGGCAACGCTGATTACCAGTACTACAG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7_30delCCAGAGAATGGCAACGCTGATTACCAGTACTACAGCT	.	.	ENST00000272542	2/11	79	45	34	71	71	0	SLC20A1,coding_sequence_variant,,ENST00000272542,;SLC20A1,upstream_gene_variant,,ENST00000433924,;SLC20A1,upstream_gene_variant,,ENST00000423633,;AC079922.3,upstream_gene_variant,,ENST00000457336,;SLC20A1,upstream_gene_variant,,ENST00000413135,;SLC20A1,upstream_gene_variant,,ENST00000498224,;SLC20A1,upstream_gene_variant,,ENST00000456264,;	-	ENSG00000144136	ENST00000272542	Transcript	coding_sequence_variant	531-567	?-28	?-10	.	.	.	.	.	1	SLC20A1	HGNC	10946	protein_coding	YES	CCDS2099.1	ENSP00000272542	S20A1_HUMAN	A7LNJ1_HUMAN	UPI0000071362	.	.	.	2/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCACTACTCCAGAGAATGGCAACGCTGATTACCAGTACTACAGCTGCT	.	3	BLCA
PTPN18	0	.	GRCh37	2	131127379	131127379	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525C>T	p.%3D	p.T175T	ENST00000175756	7/15	64	29	35	64	64	0	PTPN18,synonymous_variant,p.%3D,ENST00000175756,;PTPN18,synonymous_variant,p.%3D,ENST00000347849,;PTPN18,upstream_gene_variant,,ENST00000409022,;PTPN18,3_prime_UTR_variant,,ENST00000428843,;PTPN18,non_coding_transcript_exon_variant,,ENST00000483617,;PTPN18,non_coding_transcript_exon_variant,,ENST00000495400,;PTPN18,non_coding_transcript_exon_variant,,ENST00000489215,;PTPN18,upstream_gene_variant,,ENST00000464576,;PTPN18,upstream_gene_variant,,ENST00000490812,;PTPN18,upstream_gene_variant,,ENST00000462321,;PTPN18,upstream_gene_variant,,ENST00000490137,;PTPN18,upstream_gene_variant,,ENST00000462996,;PTPN18,upstream_gene_variant,,ENST00000481492,;	T	ENSG00000072135	ENST00000175756	Transcript	synonymous_variant	626	525	175	T	acC/acT	COSM1305638	.	.	1	PTPN18	HGNC	9649	protein_coding	YES	CCDS2161.1	ENSP00000175756	PTN18_HUMAN	B4DNE5_HUMAN	UPI000013C5D0	.	.	.	7/15	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF223,Gene3D:3.90.190.10,Pfam_domain:PF00102,SMART_domains:SM00194,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGACCCTCAA	.	5	BLCA
STAM2	0	.	GRCh37	2	152980445	152980445	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1184A>G	p.Tyr395Cys	p.Y395C	ENST00000263904	13/14	96	40	56	59	59	0	STAM2,missense_variant,p.Tyr395Cys,ENST00000263904,;STAM2,non_coding_transcript_exon_variant,,ENST00000489389,;STAM2,downstream_gene_variant,,ENST00000482997,;	C	ENSG00000115145	ENST00000263904	Transcript	missense_variant	1534	1184	395	Y/C	tAt/tGt	COSM1305727	.	.	-1	STAM2	HGNC	11358	protein_coding	YES	CCDS2196.1	ENSP00000263904	STAM2_HUMAN	.	UPI0000071984	.	deleterious(0.01)	probably_damaging(0.966)	13/14	.	hmmpanther:PTHR13856:SF25,hmmpanther:PTHR13856	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGATATGTC	.	5	BLCA
KCNJ3	0	.	GRCh37	2	155555300	155555300	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13C>T	p.Arg5Ter	p.R5*	ENST00000295101	1/3	102	51	50	101	101	0	KCNJ3,stop_gained,p.Arg5Ter,ENST00000295101,;KCNJ3,stop_gained,p.Arg5Ter,ENST00000544049,;AC061961.2,upstream_gene_variant,,ENST00000443901,;	T	ENSG00000162989	ENST00000295101	Transcript	stop_gained	490	13	5	R/*	Cga/Tga	COSM1305737	.	.	1	KCNJ3	HGNC	6264	protein_coding	YES	CCDS2200.1	ENSP00000295101	IRK3_HUMAN	Q53R59_HUMAN	UPI000012D899	.	.	.	1/3	.	hmmpanther:PTHR11767:SF16,hmmpanther:PTHR11767,Prints_domain:PR01327	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTCCGAAGG	.	5	BLCA
BAZ2B	0	.	GRCh37	2	160245986	160245986	+	Missense_Mutation	SNP	C	C	A	rs759522889	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3086G>T	p.Arg1029Leu	p.R1029L	ENST00000392783	21/37	51	38	12	42	42	0	BAZ2B,missense_variant,p.Arg90Leu,ENST00000294905,;BAZ2B,missense_variant,p.Arg929Leu,ENST00000343439,;BAZ2B,missense_variant,p.Arg993Leu,ENST00000392782,;BAZ2B,missense_variant,p.Arg995Leu,ENST00000355831,;BAZ2B,missense_variant,p.Arg1029Leu,ENST00000392783,;AC008277.1,intron_variant,,ENST00000420020,;BAZ2B,non_coding_transcript_exon_variant,,ENST00000551504,;BAZ2B,non_coding_transcript_exon_variant,,ENST00000485917,;	A	ENSG00000123636	ENST00000392783	Transcript	missense_variant	3582	3086	1029	R/L	cGg/cTg	rs759522889,COSM570593	.	.	-1	BAZ2B	HGNC	963	protein_coding	YES	CCDS2209.2	ENSP00000376534	BAZ2B_HUMAN	Q8NC87_HUMAN,Q53TG3_HUMAN,C9JCA6_HUMAN	UPI0000D74C4A	.	.	benign(0.09)	21/37	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF144,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAACCGCTCT	.	5	BLCA
PDE11A	0	.	GRCh37	2	178936328	178936328	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837G>T	p.Gln279His	p.Q279H	ENST00000286063	1/20	187	90	97	154	154	0	PDE11A,missense_variant,p.Gln279His,ENST00000286063,;PDE11A,intron_variant,,ENST00000358450,;	A	ENSG00000128655	ENST00000286063	Transcript	missense_variant	1155	837	279	Q/H	caG/caT	COSM1305883	.	.	-1	PDE11A	HGNC	8773	protein_coding	YES	CCDS33334.1	ENSP00000286063	PDE11_HUMAN	Q53S13_HUMAN,Q53S07_HUMAN,F8WAE1_HUMAN	UPI00001402C1	.	tolerated(0.15)	possibly_damaging(0.796)	1/20	.	hmmpanther:PTHR11347,hmmpanther:PTHR11347:SF105,Pfam_domain:PF01590,Gene3D:3.30.450.40,SMART_domains:SM00065,Superfamily_domains:SSF55781	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGACCTGCAC	.	5	BLCA
RAPH1	0	.	GRCh37	2	204360028	204360028	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49A>C	p.Ser17Arg	p.S17R	ENST00000319170	2/14	142	68	74	105	104	1	RAPH1,missense_variant,p.Ser17Arg,ENST00000418114,;RAPH1,missense_variant,p.Ser17Arg,ENST00000428637,;RAPH1,missense_variant,p.Ser17Arg,ENST00000423104,;RAPH1,missense_variant,p.Ser17Arg,ENST00000419464,;RAPH1,missense_variant,p.Ser17Arg,ENST00000374488,;RAPH1,missense_variant,p.Ser17Arg,ENST00000439222,;RAPH1,missense_variant,p.Ser17Arg,ENST00000374493,;RAPH1,missense_variant,p.Ser17Arg,ENST00000374489,;RAPH1,missense_variant,p.Ser17Arg,ENST00000453034,;RAPH1,missense_variant,p.Ser17Arg,ENST00000457812,;RAPH1,missense_variant,p.Ser17Arg,ENST00000308091,;RAPH1,missense_variant,p.Ser17Arg,ENST00000420371,;RAPH1,missense_variant,p.Ser17Arg,ENST00000319170,;RAPH1,non_coding_transcript_exon_variant,,ENST00000465669,;	G	ENSG00000173166	ENST00000319170	Transcript	missense_variant	349	49	17	S/R	Agt/Cgt	COSM1306328,COSM1306329	.	.	-1	RAPH1	HGNC	14436	protein_coding	YES	CCDS2359.1	ENSP00000316543	RAPH1_HUMAN	C9JLG4_HUMAN	UPI000020940F	.	.	probably_damaging(0.997)	2/14	.	hmmpanther:PTHR11243,hmmpanther:PTHR11243:SF15	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCACTGTCTT	.	5	BLCA
GPR1	0	.	GRCh37	2	207041473	207041473	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499C>G	p.Leu167Val	p.L167V	ENST00000407325	3/3	69	36	32	67	67	0	GPR1,missense_variant,p.Leu167Val,ENST00000407325,;GPR1,missense_variant,p.Leu167Val,ENST00000442134,;GPR1,missense_variant,p.Leu167Val,ENST00000451790,;GPR1,missense_variant,p.Leu167Val,ENST00000437420,;GPR1,downstream_gene_variant,,ENST00000439932,;GPR1,downstream_gene_variant,,ENST00000458440,;GPR1,downstream_gene_variant,,ENST00000447845,;GPR1,downstream_gene_variant,,ENST00000411719,;	C	ENSG00000183671	ENST00000407325	Transcript	missense_variant	862	499	167	L/V	Cta/Gta	COSM1306345	.	.	-1	GPR1	HGNC	4463	protein_coding	YES	CCDS2368.1	ENSP00000384345	GPR1_HUMAN	C9JSU0_HUMAN,C9JQB7_HUMAN,C9JKF3_HUMAN,C9JFR8_HUMAN,C9JCK1_HUMAN,C9J456_HUMAN	UPI000013C9FB	.	tolerated(0.52)	benign(0.093)	3/3	.	Transmembrane_helices:TMhelix,Prints_domain:PR00237,Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,hmmpanther:PTHR24229:SF4,hmmpanther:PTHR24229,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTAGAGAAG	.	5	BLCA
PDE6D	0	.	GRCh37	2	232645907	232645919	+	5'UTR	DEL	GCAGCCCGGCTTG	GCAGCCCGGCTTG	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	GCAGCCCGGCTTG	GCAGCCCGGCTTG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-95_-83delCAAGCCGGGCTGC	.	.	ENST00000287600	1/5	23	12	11	14	14	0	PDE6D,5_prime_UTR_variant,,ENST00000409772,;PDE6D,5_prime_UTR_variant,,ENST00000287600,;PDE6D,intron_variant,,ENST00000428104,;COPS7B,upstream_gene_variant,,ENST00000410024,;COPS7B,upstream_gene_variant,,ENST00000409091,;COPS7B,upstream_gene_variant,,ENST00000409295,;PDE6D,non_coding_transcript_exon_variant,,ENST00000477748,;PDE6D,non_coding_transcript_exon_variant,,ENST00000486044,;COPS7B,upstream_gene_variant,,ENST00000466901,;COPS7B,upstream_gene_variant,,ENST00000479430,;COPS7B,upstream_gene_variant,,ENST00000449784,;COPS7B,upstream_gene_variant,,ENST00000452375,;	-	ENSG00000156973	ENST00000287600	Transcript	5_prime_UTR_variant	101-113	.	.	.	.	.	.	.	-1	PDE6D	HGNC	8788	protein_coding	YES	CCDS33398.1	ENSP00000287600	PDE6D_HUMAN	Q6IB24_HUMAN,C9IZ52_HUMAN	UPI0000000C8B	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	GGAGCCGCAGCCCGGCTTGGAGAC	.	2	BLCA
ZNF512	0	.	GRCh37	2	27821012	27821012	+	Silent	SNP	G	G	A	rs182439295	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168G>A	p.%3D	p.S56S	ENST00000355467	3/14	142	106	35	108	107	1	ZNF512,synonymous_variant,p.%3D,ENST00000355467,;ZNF512,synonymous_variant,p.%3D,ENST00000379717,;ZNF512,synonymous_variant,p.%3D,ENST00000416005,;ZNF512,5_prime_UTR_variant,,ENST00000413371,;ZNF512,5_prime_UTR_variant,,ENST00000556601,;RP11-158I13.2,non_coding_transcript_exon_variant,,ENST00000505973,;ZNF512,non_coding_transcript_exon_variant,,ENST00000494548,;ZNF512,non_coding_transcript_exon_variant,,ENST00000461705,;	A	ENSG00000243943	ENST00000355467	Transcript	synonymous_variant	251	168	56	S	tcG/tcA	rs182439295,COSM1306689	.	.	1	ZNF512	HGNC	29380	protein_coding	YES	CCDS1758.1	ENSP00000347648	ZN512_HUMAN	Q658M0_HUMAN	UPI0000141030	.	.	.	3/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22979:SF2,hmmpanther:PTHR22979	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATCGTCTGC	byCluster|by1000G	5	BLCA
PLB1	0	.	GRCh37	2	28824168	28824168	+	Missense_Mutation	SNP	G	G	T	rs146498076	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2576G>T	p.Gly859Val	p.G859V	ENST00000327757	37/58	49	26	23	31	31	0	PLB1,missense_variant,p.Gly859Val,ENST00000327757,;PLB1,missense_variant,p.Gly848Val,ENST00000422425,;PLB1,missense_variant,p.Gly847Val,ENST00000404858,;PLB1,upstream_gene_variant,,ENST00000541605,;PLB1,upstream_gene_variant,,ENST00000411743,;PLB1,upstream_gene_variant,,ENST00000479065,;PLB1,upstream_gene_variant,,ENST00000444257,;	T	ENSG00000163803	ENST00000327757	Transcript	missense_variant	2620	2576	859	G/V	gGc/gTc	rs146498076,COSM1306707,COSM1306708	.	.	1	PLB1	HGNC	30041	protein_coding	YES	CCDS33168.1	ENSP00000330442	PLB1_HUMAN	.	UPI0000D6117C	.	tolerated(0.1)	benign(0.363)	37/58	.	hmmpanther:PTHR21325,hmmpanther:PTHR21325:SF1,Gene3D:3.40.50.1110,Pfam_domain:PF00657,Superfamily_domains:SSF52266	A:0.0008	A:0.0023	A:0.0014	.	A:0	A:0	A:0	A:0.0045	A:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGAGGCAGCG	byFrequency|byCluster|by1000G	5	BLCA
BIRC6	0	.	GRCh37	2	32626450	32626450	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1254G>A	p.Met418Ile	p.M418I	ENST00000421745	7/74	288	137	151	203	203	0	BIRC6,missense_variant,p.Met418Ile,ENST00000421745,;BIRC6,non_coding_transcript_exon_variant,,ENST00000466527,;	A	ENSG00000115760	ENST00000421745	Transcript	missense_variant	1388	1254	418	M/I	atG/atA	COSM1306726,COSM1306725	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	possibly_damaging(0.885)	7/74	.	Gene3D:2.130.10.10,hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTATGAAGGT	.	5	BLCA
BIRC6	0	.	GRCh37	2	32738069	32738069	+	Missense_Mutation	SNP	G	G	T	rs755688797	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10416G>T	p.Met3472Ile	p.M3472I	ENST00000421745	54/74	107	51	56	109	109	0	BIRC6,missense_variant,p.Met3472Ile,ENST00000421745,;BIRC6,non_coding_transcript_exon_variant,,ENST00000496555,;BIRC6,upstream_gene_variant,,ENST00000461788,;	T	ENSG00000115760	ENST00000421745	Transcript	missense_variant	10550	10416	3472	M/I	atG/atT	rs755688797,COSM1306744,COSM1306743	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	benign(0.001)	54/74	.	Pfam_domain:PF12356,hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATGAACTA	byFrequency	5	BLCA
BIRC6	0	.	GRCh37	2	32832589	32832589	+	Missense_Mutation	SNP	G	G	T	rs757781007	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14138G>T	p.Arg4713Leu	p.R4713L	ENST00000421745	72/74	213	93	120	193	193	0	BIRC6,missense_variant,p.Arg4713Leu,ENST00000421745,;BIRC6,non_coding_transcript_exon_variant,,ENST00000471232,;BIRC6,non_coding_transcript_exon_variant,,ENST00000465130,;	T	ENSG00000115760	ENST00000421745	Transcript	missense_variant	14272	14138	4713	R/L	cGg/cTg	rs757781007,COSM1306760,COSM1306759	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	possibly_damaging(0.89)	72/74	.	Superfamily_domains:SSF54495,SMART_domains:SM00212,Pfam_domain:PF00179,Gene3D:3.10.110.10,hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAACGGTCTA	.	5	BLCA
PLEKHH2	0	.	GRCh37	2	43989514	43989514	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4143A>C	p.Leu1381Phe	p.L1381F	ENST00000282406	28/30	100	39	61	97	96	1	PLEKHH2,missense_variant,p.Leu1381Phe,ENST00000282406,;PLEKHH2,3_prime_UTR_variant,,ENST00000490038,;PLEKHH2,non_coding_transcript_exon_variant,,ENST00000405000,;	C	ENSG00000152527	ENST00000282406	Transcript	missense_variant	4253	4143	1381	L/F	ttA/ttC	COSM1306809	.	.	1	PLEKHH2	HGNC	30506	protein_coding	YES	CCDS1812.1	ENSP00000282406	PKHH2_HUMAN	.	UPI000016021B	.	deleterious(0.01)	probably_damaging(0.985)	28/30	.	PROSITE_profiles:PS50057,hmmpanther:PTHR22903,hmmpanther:PTHR22903:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTAGAATA	.	5	BLCA
XPO1	0	.	GRCh37	2	61724137	61724137	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>A	p.%3D	p.L255L	ENST00000401558	10/25	75	26	49	76	76	0	XPO1,synonymous_variant,p.%3D,ENST00000404992,;XPO1,synonymous_variant,p.%3D,ENST00000401558,;XPO1,synonymous_variant,p.%3D,ENST00000406957,;XPO1,downstream_gene_variant,,ENST00000451765,;XPO1,3_prime_UTR_variant,,ENST00000437159,;XPO1,3_prime_UTR_variant,,ENST00000428210,;XPO1,non_coding_transcript_exon_variant,,ENST00000475744,;XPO1,downstream_gene_variant,,ENST00000489954,;XPO1,upstream_gene_variant,,ENST00000469337,;XPO1,upstream_gene_variant,,ENST00000460037,;XPO1,upstream_gene_variant,,ENST00000481073,;	T	ENSG00000082898	ENST00000401558	Transcript	synonymous_variant	1493	765	255	L	ctG/ctA	COSM1306918	.	.	-1	XPO1	HGNC	12825	protein_coding	YES	CCDS33205.1	ENSP00000384863	XPO1_HUMAN	C9JV99_HUMAN,C9JQ02_HUMAN,C9JKM9_HUMAN,C9JF49_HUMAN,C9J673_HUMAN,C9IZS4_HUMAN,C9IYM2_HUMAN,B7ZB16_HUMAN,B3KWD0_HUMAN	UPI0000001C23	.	.	.	10/25	.	hmmpanther:PTHR11223,Pfam_domain:PF08389,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCAGGAA	.	5	BLCA
POLR1A	0	.	GRCh37	2	86325857	86325857	+	Silent	SNP	A	A	C	rs36023304	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309T>G	p.%3D	p.S103S	ENST00000263857	3/34	132	49	82	115	115	0	POLR1A,synonymous_variant,p.%3D,ENST00000409681,;POLR1A,synonymous_variant,p.%3D,ENST00000263857,;POLR1A,non_coding_transcript_exon_variant,,ENST00000486964,;POLR1A,intron_variant,,ENST00000409024,;POLR1A,intron_variant,,ENST00000424089,;	C	ENSG00000068654	ENST00000263857	Transcript	synonymous_variant	688	309	103	S	tcT/tcG	rs36023304,COSM1307059	.	.	-1	POLR1A	HGNC	17264	protein_coding	YES	CCDS42706.1	ENSP00000263857	RPA1_HUMAN	Q96AG9_HUMAN,Q53T12_HUMAN,B7Z8X7_HUMAN	UPI0000D7DB86	.	.	.	3/34	.	hmmpanther:PTHR19376,hmmpanther:PTHR19376:SF11,Pfam_domain:PF04997,Superfamily_domains:SSF64484	G:0.0006	G:0.0023	G:0	.	G:0	G:0	G:0	G:0.0084	G:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACAAGAGCC	byFrequency|byCluster|by1000G	5	BLCA
CNNM3	0	.	GRCh37	2	97483118	97483118	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1104G>A	p.%3D	p.L368L	ENST00000305510	1/8	116	54	62	86	86	0	CNNM3,synonymous_variant,p.%3D,ENST00000305510,;CNNM3,synonymous_variant,p.%3D,ENST00000377060,;RP11-353K11.1,upstream_gene_variant,,ENST00000608609,;	A	ENSG00000168763	ENST00000305510	Transcript	synonymous_variant	1132	1104	368	L	ttG/ttA	COSM1307114	.	.	1	CNNM3	HGNC	104	protein_coding	YES	CCDS2025.1	ENSP00000305449	CNNM3_HUMAN	.	UPI000006CEA7	.	.	.	1/8	.	PROSITE_profiles:PS51371,hmmpanther:PTHR12064,hmmpanther:PTHR12064:SF27,Gene3D:3.10.580.10,Superfamily_domains:SSF54631	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTGGCCTT	.	5	BLCA
TOMM70A	0	.	GRCh37	3	100103344	100103344	+	Silent	SNP	C	C	T	rs570670915	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.714G>A	p.%3D	p.E238E	ENST00000284320	4/12	124	89	34	110	110	0	TOMM70A,synonymous_variant,p.%3D,ENST00000284320,;TOMM70A,upstream_gene_variant,,ENST00000492171,;	T	ENSG00000154174	ENST00000284320	Transcript	synonymous_variant	1163	714	238	E	gaG/gaA	rs570670915,COSM1308300	.	.	-1	TOMM70A	HGNC	11985	protein_coding	YES	CCDS33807.1	ENSP00000284320	TOM70_HUMAN	B4DZ87_HUMAN,B3KQK5_HUMAN,B3KQK0_HUMAN	UPI0000000C55	.	.	.	4/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22904:SF178,hmmpanther:PTHR22904,PROSITE_profiles:PS50293	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTCTCTTT	byFrequency|byCluster	5	BLCA
IMPG2	0	.	GRCh37	3	100961559	100961559	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2995G>A	p.Asp999Asn	p.D999N	ENST00000193391	14/19	110	76	33	87	87	0	IMPG2,missense_variant,p.Asp999Asn,ENST00000193391,;	T	ENSG00000081148	ENST00000193391	Transcript	missense_variant	3183	2995	999	D/N	Gat/Aat	COSM1308315	.	.	-1	IMPG2	HGNC	18362	protein_coding	YES	CCDS2940.1	ENSP00000193391	IMPG2_HUMAN	F1T0J3_HUMAN	UPI000013C605	.	deleterious(0)	probably_damaging(1)	14/19	.	PROSITE_profiles:PS50024,hmmpanther:PTHR12199:SF4,hmmpanther:PTHR12199,Pfam_domain:PF01390,Gene3D:1ivzA00,SMART_domains:SM00200,Superfamily_domains:0047452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATCAATAG	.	5	BLCA
ZBTB11	0	.	GRCh37	3	101395446	101395446	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310+3G>A	.	.	ENST00000312938	.	21	16	5	17	17	0	ZBTB11,splice_region_variant,,ENST00000461821,;ZBTB11,splice_region_variant,,ENST00000312938,;RPL24,downstream_gene_variant,,ENST00000495401,;RPL24,downstream_gene_variant,,ENST00000394077,;ZBTB11-AS1,non_coding_transcript_exon_variant,,ENST00000536865,;ZBTB11-AS1,non_coding_transcript_exon_variant,,ENST00000609682,;RPL24,downstream_gene_variant,,ENST00000464595,;RPL24,downstream_gene_variant,,ENST00000488288,;	T	ENSG00000066422	ENST00000312938	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	ZBTB11	HGNC	16740	protein_coding	YES	CCDS2943.1	ENSP00000326200	ZBT11_HUMAN	Q59H97_HUMAN,B3KN38_HUMAN	UPI000013D5E3	.	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTCACCTC	.	5	BLCA
ABHD10	0	.	GRCh37	3	111697910	111697910	+	Translation_Start_Site	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2T>G	p.Met1?	p.M1?	ENST00000273359	1/5	70	56	13	66	65	1	ABHD10,start_lost,p.Met1?,ENST00000494817,;ABHD10,start_lost,p.Met1?,ENST00000273359,;ABHD10,5_prime_UTR_variant,,ENST00000534857,;PHLDB2,downstream_gene_variant,,ENST00000393923,;PHLDB2,downstream_gene_variant,,ENST00000412622,;PHLDB2,downstream_gene_variant,,ENST00000481953,;PHLDB2,downstream_gene_variant,,ENST00000495180,;PHLDB2,downstream_gene_variant,,ENST00000431670,;PHLDB2,downstream_gene_variant,,ENST00000393925,;ABHD10,start_lost,p.Met1?,ENST00000491580,;ABHD10,start_lost,p.Met1?,ENST00000493784,;ABHD10,non_coding_transcript_exon_variant,,ENST00000497293,;PHLDB2,downstream_gene_variant,,ENST00000486886,;	G	ENSG00000144827	ENST00000273359	Transcript	start_lost	29	2	1	M/R	aTg/aGg	COSM1308389	.	.	1	ABHD10	HGNC	25656	protein_coding	YES	CCDS2963.1	ENSP00000273359	ABHDA_HUMAN	B7Z6A8_HUMAN	UPI0000042225	.	deleterious_low_confidence(0)	unknown(0)	1/5	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	GAAGATGGCGG	.	4	BLCA
PARP14	0	.	GRCh37	3	122437771	122437771	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4773C>T	p.%3D	p.H1591H	ENST00000474629	14/17	47	39	8	24	24	0	PARP14,synonymous_variant,p.%3D,ENST00000474629,;PARP14,non_coding_transcript_exon_variant,,ENST00000475640,;PARP14,synonymous_variant,p.%3D,ENST00000460683,;PARP14,non_coding_transcript_exon_variant,,ENST00000474669,;	T	ENSG00000173193	ENST00000474629	Transcript	synonymous_variant	5039	4773	1591	H	caC/caT	COSM1308474,COSM1308473	.	.	1	PARP14	HGNC	29232	protein_coding	YES	CCDS46894.1	ENSP00000418194	PAR14_HUMAN	.	UPI00015A20AB	.	.	.	14/17	.	PROSITE_profiles:PS50918,hmmpanther:PTHR14453:SF53,hmmpanther:PTHR14453,Superfamily_domains:SSF117839	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCACAGTTT	.	2	BLCA
MYLK	0	.	GRCh37	3	123367843	123367843	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4390T>A	p.Tyr1464Asn	p.Y1464N	ENST00000360304	26/34	147	119	28	112	111	1	MYLK,missense_variant,p.Tyr1464Asn,ENST00000360304,;MYLK,missense_variant,p.Tyr1464Asn,ENST00000360772,;MYLK,missense_variant,p.Tyr1395Asn,ENST00000346322,;MYLK,missense_variant,p.Tyr1464Asn,ENST00000359169,;MYLK,missense_variant,p.Tyr1464Asn,ENST00000475616,;MYLK,missense_variant,p.Tyr264Asn,ENST00000354792,;MYLK-AS1,downstream_gene_variant,,ENST00000485162,;MYLK,non_coding_transcript_exon_variant,,ENST00000514895,;MYLK,3_prime_UTR_variant,,ENST00000464489,;MYLK,non_coding_transcript_exon_variant,,ENST00000513111,;	T	ENSG00000065534	ENST00000360304	Transcript	missense_variant	4672	4390	1464	Y/N	Tac/Aac	COSM1308493	.	.	-1	MYLK	HGNC	7590	protein_coding	YES	CCDS46896.1	ENSP00000353452	MYLK_HUMAN	Q06S79_HUMAN,Q05B98_HUMAN,Q05B97_HUMAN,D6R9C2_HUMAN,B4DUE3_HUMAN	UPI000020A0AE	.	deleterious(0)	probably_damaging(1)	26/34	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22964,hmmpanther:PTHR22964:SF44,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCGTAGAAGT	.	4	BLCA
PPP2R3A	0	.	GRCh37	3	135721464	135721464	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1124A>T	p.Asn375Ile	p.N375I	ENST00000264977	2/14	93	68	24	58	58	0	PPP2R3A,missense_variant,p.Asn375Ile,ENST00000264977,;PPP2R3A,intron_variant,,ENST00000490467,;	T	ENSG00000073711	ENST00000264977	Transcript	missense_variant	1741	1124	375	N/I	aAt/aTt	COSM1308630	.	.	1	PPP2R3A	HGNC	9307	protein_coding	YES	CCDS3087.1	ENSP00000264977	P2R3A_HUMAN	.	UPI0000124EAC	.	tolerated_low_confidence(0.07)	benign(0.281)	2/14	.	hmmpanther:PTHR14095,hmmpanther:PTHR14095:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACAAATTCCT	.	5	BLCA
NME9	0	.	GRCh37	3	138024902	138024902	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>C	p.Glu133Gln	p.E133Q	ENST00000383180	9/12	180	136	44	126	126	0	NME9,missense_variant,p.Glu133Gln,ENST00000536478,;NME9,missense_variant,p.Glu133Gln,ENST00000317876,;NME9,missense_variant,p.Glu133Gln,ENST00000383180,;NME9,missense_variant,p.Glu131Gln,ENST00000341790,;NME9,missense_variant,p.Glu194Gln,ENST00000475751,;NME9,missense_variant,p.Glu125Gln,ENST00000474690,;NME9,missense_variant,p.Glu131Gln,ENST00000484930,;NME9,missense_variant,p.Glu194Gln,ENST00000333911,;NME9,missense_variant,p.Glu133Gln,ENST00000492993,;NME9,non_coding_transcript_exon_variant,,ENST00000478220,;	G	ENSG00000181322	ENST00000383180	Transcript	missense_variant	635	397	133	E/Q	Gag/Cag	COSM1308642	.	.	-1	NME9	HGNC	21343	protein_coding	YES	CCDS3099.1	ENSP00000372667	TXND6_HUMAN	.	UPI0000073EC5	.	deleterious(0)	probably_damaging(0.94)	9/12	.	hmmpanther:PTHR11349:SF48,hmmpanther:PTHR11349,Gene3D:3.30.70.141,Pfam_domain:PF00334,SMART_domains:SM00562,Superfamily_domains:SSF54919	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTCTTCAT	.	5	BLCA
TRIM42	0	.	GRCh37	3	140397361	140397361	+	Missense_Mutation	SNP	G	G	A	rs144112519	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.290G>A	p.Arg97His	p.R97H	ENST00000286349	1/5	67	43	23	69	69	0	TRIM42,missense_variant,p.Arg97His,ENST00000286349,;	A	ENSG00000155890	ENST00000286349	Transcript	missense_variant	481	290	97	R/H	cGc/cAc	rs144112519,COSM1308665	.	.	1	TRIM42	HGNC	19014	protein_coding	YES	CCDS3113.1	ENSP00000286349	TRI42_HUMAN	.	UPI00001AEAE0	.	deleterious(0.01)	benign(0.035)	1/5	.	.	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCCGCAATA	byCluster|by1000G	5	BLCA
XRN1	0	.	GRCh37	3	142140317	142140317	+	Splice_Site	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1035+1G>A	.	p.X345_splice	ENST00000264951	.	48	42	6	38	38	0	XRN1,splice_donor_variant,,ENST00000544157,;XRN1,splice_donor_variant,,ENST00000463916,;XRN1,splice_donor_variant,,ENST00000392981,;XRN1,splice_donor_variant,,ENST00000264951,;XRN1,downstream_gene_variant,,ENST00000477237,;RNU1-100P,upstream_gene_variant,,ENST00000365255,;XRN1,splice_donor_variant,,ENST00000486211,;XRN1,splice_donor_variant,,ENST00000472697,;	T	ENSG00000114127	ENST00000264951	Transcript	splice_donor_variant	.	.	.	.	.	COSM1308677	.	.	-1	XRN1	HGNC	30654	protein_coding	YES	CCDS3123.1	ENSP00000264951	XRN1_HUMAN	C9JCZ8_HUMAN	UPI0000074113	.	.	.	.	9/41	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTTACATCTG	.	4	BLCA
PLOD2	0	.	GRCh37	3	145796998	145796998	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1405G>A	p.Gly469Arg	p.G469R	ENST00000282903	13/20	81	52	28	64	64	0	PLOD2,missense_variant,p.Gly469Arg,ENST00000360060,;PLOD2,missense_variant,p.Gly129Arg,ENST00000461497,;PLOD2,missense_variant,p.Gly414Arg,ENST00000494950,;PLOD2,missense_variant,p.Gly469Arg,ENST00000282903,;RP11-274H2.2,intron_variant,,ENST00000480247,;PLOD2,non_coding_transcript_exon_variant,,ENST00000478436,;PLOD2,downstream_gene_variant,,ENST00000460520,;	T	ENSG00000152952	ENST00000282903	Transcript	missense_variant	1583	1405	469	G/R	Gga/Aga	COSM1308691	.	.	-1	PLOD2	HGNC	9082	protein_coding	YES	CCDS3132.1	ENSP00000282903	PLOD2_HUMAN	Q9Y6D3_HUMAN,Q96QU5_HUMAN,Q96AR9_HUMAN,E7ETU9_HUMAN	UPI0000049C44	.	deleterious(0.01)	probably_damaging(0.967)	13/20	.	hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF6,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTCCTTTAA	.	5	BLCA
AGTR1	0	.	GRCh37	3	148460024	148460024	+	3'UTR	SNP	T	T	C	rs543784881	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*122T>C	.	.	ENST00000542281	4/4	38	22	16	29	29	0	AGTR1,3_prime_UTR_variant,,ENST00000404754,;AGTR1,3_prime_UTR_variant,,ENST00000461609,;AGTR1,3_prime_UTR_variant,,ENST00000542281,;AGTR1,3_prime_UTR_variant,,ENST00000418473,;AGTR1,3_prime_UTR_variant,,ENST00000474935,;AGTR1,3_prime_UTR_variant,,ENST00000402260,;AGTR1,3_prime_UTR_variant,,ENST00000475347,;AGTR1,3_prime_UTR_variant,,ENST00000497524,;AGTR1,3_prime_UTR_variant,,ENST00000349243,;	C	ENSG00000144891	ENST00000542281	Transcript	3_prime_UTR_variant	1648	.	.	.	.	rs543784881	.	.	1	AGTR1	HGNC	336	protein_coding	YES	CCDS3137.1	ENSP00000443186	AGTR1_HUMAN	Q53YY0_HUMAN,D3DNG8_HUMAN	UPI0000039D66	.	.	.	4/4	.	.	G:0.0004	G:0.0015	G:0	.	G:0	G:0	G:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATTATGTG	byFrequency|by1000G	5	BLCA
HPS3	0	.	GRCh37	3	148863304	148863304	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1134C>T	p.%3D	p.L378L	ENST00000296051	5/17	175	119	56	157	156	1	HPS3,synonymous_variant,p.%3D,ENST00000296051,;HPS3,synonymous_variant,p.%3D,ENST00000460120,;HPS3,non_coding_transcript_exon_variant,,ENST00000462030,;HPS3,non_coding_transcript_exon_variant,,ENST00000486530,;	T	ENSG00000163755	ENST00000296051	Transcript	synonymous_variant	1274	1134	378	L	ctC/ctT	COSM1308706	.	.	1	HPS3	HGNC	15597	protein_coding	YES	CCDS3140.1	ENSP00000296051	HPS3_HUMAN	Q8N3N1_HUMAN	UPI000000D989	.	.	.	5/17	.	Pfam_domain:PF14762,PIRSF_domain:PIRSF037473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GTACTCACGCC	.	3	BLCA
MED12L	0	.	GRCh37	3	151102873	151102873	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4877C>T	p.Pro1626Leu	p.P1626L	ENST00000474524	34/43	234	178	56	142	141	1	MED12L,missense_variant,p.Pro1626Leu,ENST00000474524,;MED12L,missense_variant,p.Pro1486Leu,ENST00000273432,;P2RY12,upstream_gene_variant,,ENST00000302632,;	T	ENSG00000144893	ENST00000474524	Transcript	missense_variant	4915	4877	1626	P/L	cCt/cTt	COSM1308724	.	.	1	MED12L	HGNC	16050	protein_coding	YES	CCDS33876.1	ENSP00000417235	MD12L_HUMAN	.	UPI000020A46B	.	deleterious(0)	probably_damaging(0.998)	34/43	.	hmmpanther:PTHR12796,hmmpanther:PTHR12796:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTACCTTTGC	.	5	BLCA
ARHGEF26	0	.	GRCh37	3	153847391	153847391	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152G>A	p.%3D	p.K384K	ENST00000356448	4/15	23	16	7	20	20	0	ARHGEF26,synonymous_variant,p.%3D,ENST00000465817,;ARHGEF26,synonymous_variant,p.%3D,ENST00000465093,;ARHGEF26,synonymous_variant,p.%3D,ENST00000356448,;ARHGEF26,synonymous_variant,p.%3D,ENST00000496710,;	A	ENSG00000114790	ENST00000356448	Transcript	synonymous_variant	1436	1152	384	K	aaG/aaA	COSM1308737,COSM1308738,COSM1308739	.	.	1	ARHGEF26	HGNC	24490	protein_coding	YES	CCDS46938.1	ENSP00000348828	ARHGQ_HUMAN	.	UPI00001410D0	.	.	.	4/15	.	hmmpanther:PTHR12845,hmmpanther:PTHR12845:SF4	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	TACAAGGAAAA	.	4	BLCA
PTX3	0	.	GRCh37	3	157154611	157154611	+	5'UTR	SNP	T	T	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-112T>C	.	.	ENST00000295927	1/3	30	22	8	26	26	0	PTX3,5_prime_UTR_variant,,ENST00000295927,;VEPH1,intron_variant,,ENST00000362010,;VEPH1,intron_variant,,ENST00000392833,;VEPH1,intron_variant,,ENST00000392832,;VEPH1,intron_variant,,ENST00000543418,;VEPH1,intron_variant,,ENST00000479987,;VEPH1,intron_variant,,ENST00000482685,;	C	ENSG00000163661	ENST00000295927	Transcript	5_prime_UTR_variant	34	.	.	.	.	.	.	.	1	PTX3	HGNC	9692	protein_coding	YES	CCDS3180.1	ENSP00000295927	PTX3_HUMAN	.	UPI000013E2D6	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTTATTAA	.	5	BLCA
SLITRK3	0	.	GRCh37	3	164907052	164907052	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1567G>C	p.Ala523Pro	p.A523P	ENST00000475390	2/2	72	53	19	63	62	1	SLITRK3,missense_variant,p.Ala523Pro,ENST00000475390,;SLITRK3,missense_variant,p.Ala523Pro,ENST00000241274,;SLITRK3,downstream_gene_variant,,ENST00000497724,;	G	ENSG00000121871	ENST00000475390	Transcript	missense_variant	2011	1567	523	A/P	Gcc/Ccc	COSM1308789	.	.	-1	SLITRK3	HGNC	23501	protein_coding	YES	CCDS3197.1	ENSP00000420091	SLIK3_HUMAN	C9K0R4_HUMAN	UPI000004F259	.	deleterious(0.01)	probably_damaging(0.98)	2/2	.	hmmpanther:PTHR24373:SF14,hmmpanther:PTHR24373,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGGCGTCTG	.	5	BLCA
CCDC39	0	.	GRCh37	3	180372711	180372711	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769G>C	p.Glu257Gln	p.E257Q	ENST00000442201	7/20	40	32	8	16	16	0	CCDC39,missense_variant,p.Glu341Gln,ENST00000273654,;CCDC39,missense_variant,p.Glu257Gln,ENST00000442201,;CCDC39,missense_variant,p.Glu257Gln,ENST00000476379,;	G	ENSG00000145075	ENST00000442201	Transcript	missense_variant	889	769	257	E/Q	Gaa/Caa	COSM1308856,COSM1308855	.	.	-1	CCDC39	HGNC	25244	protein_coding	YES	CCDS46964.1	ENSP00000405708	CCD39_HUMAN	.	UPI00015D7298	.	deleterious(0.04)	possibly_damaging(0.688)	7/20	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18962:SF0,hmmpanther:PTHR18962	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTTCTCTCG	.	2	BLCA
CCDC39	0	.	GRCh37	3	180397161	180397161	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8G>T	p.Ser3Ile	p.S3I	ENST00000442201	1/20	289	212	76	222	221	1	CCDC39,missense_variant,p.Ser87Ile,ENST00000273654,;CCDC39,missense_variant,p.Ser3Ile,ENST00000442201,;CCDC39,intron_variant,,ENST00000471307,;CCDC39-AS1,upstream_gene_variant,,ENST00000495357,;CCDC39,missense_variant,p.Ser3Ile,ENST00000476379,;	A	ENSG00000145075	ENST00000442201	Transcript	missense_variant	128	8	3	S/I	aGc/aTc	COSM1308858,COSM1308857	.	.	-1	CCDC39	HGNC	25244	protein_coding	YES	CCDS46964.1	ENSP00000405708	CCD39_HUMAN	.	UPI00015D7298	.	deleterious(0.02)	benign(0.209)	1/20	.	hmmpanther:PTHR18962:SF0,hmmpanther:PTHR18962	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCGCTACTC	.	5	BLCA
CCDC50	0	.	GRCh37	3	191098675	191098675	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1196G>A	p.Arg399Gln	p.R399Q	ENST00000392456	9/12	35	21	13	15	15	0	CCDC50,missense_variant,p.Arg399Gln,ENST00000392456,;CCDC50,missense_variant,p.Arg223Gln,ENST00000392455,;	A	ENSG00000152492	ENST00000392456	Transcript	missense_variant	1786	1196	399	R/Q	cGg/cAg	COSM1308948	.	.	1	CCDC50	HGNC	18111	protein_coding	YES	CCDS33912.1	ENSP00000376250	CCD50_HUMAN	.	UPI000018F5EF	.	deleterious(0)	possibly_damaging(0.754)	9/12	.	hmmpanther:PTHR22115:SF1,hmmpanther:PTHR22115,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGCGGGAGA	.	5	BLCA
ZDHHC19	0	.	GRCh37	3	195935333	195935355	+	Frame_Shift_Del	DEL	GCCCGAGTAGAGGCACAGGGACA	GCCCGAGTAGAGGCACAGGGACA	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	GCCCGAGTAGAGGCACAGGGACA	GCCCGAGTAGAGGCACAGGGACA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.485_507delTGTCCCTGTGCCTCTACTCGGGC	p.Leu162ArgfsTer93	p.L162Rfs*93	ENST00000296326	4/8	78	28	50	64	64	0	ZDHHC19,frameshift_variant,p.Leu162ArgfsTer93,ENST00000296326,;SLC51A,upstream_gene_variant,,ENST00000416660,;ZDHHC19,non_coding_transcript_exon_variant,,ENST00000488508,;ZDHHC19,frameshift_variant,p.Leu162ArgfsTer112,ENST00000438232,;ZDHHC19,frameshift_variant,p.Leu162ArgfsTer105,ENST00000397544,;ZDHHC19,non_coding_transcript_exon_variant,,ENST00000465519,;	-	ENSG00000163958	ENST00000296326	Transcript	frameshift_variant	565-587	485-507	162-169	LSLCLYSG/X	cTGTCCCTGTGCCTCTACTCGGGC/c	.	.	.	-1	ZDHHC19	HGNC	20713	protein_coding	YES	CCDS43190.1	ENSP00000296326	ZDH19_HUMAN	B3KVI1_HUMAN	UPI00006BFF56	.	.	.	4/8	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50216,hmmpanther:PTHR22883:SF7,hmmpanther:PTHR22883,Pfam_domain:PF01529	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CATGGCGCCCGAGTAGAGGCACAGGGACAGGACA	.	3	BLCA
FYTTD1	0	.	GRCh37	3	197476889	197476889	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.47C>T	p.Ser16Leu	p.S16L	ENST00000241502	1/9	44	20	24	34	33	1	FYTTD1,missense_variant,p.Ser16Leu,ENST00000241502,;FYTTD1,intron_variant,,ENST00000428738,;FYTTD1,intron_variant,,ENST00000415708,;FYTTD1,intron_variant,,ENST00000428395,;FYTTD1,upstream_gene_variant,,ENST00000426031,;KIAA0226,upstream_gene_variant,,ENST00000273582,;FYTTD1,upstream_gene_variant,,ENST00000424384,;KIAA0226,upstream_gene_variant,,ENST00000467303,;KIAA0226,upstream_gene_variant,,ENST00000472149,;FYTTD1,missense_variant,p.Ser16Leu,ENST00000418169,;FYTTD1,missense_variant,p.Ser16Leu,ENST00000412924,;FYTTD1,intron_variant,,ENST00000494309,;	T	ENSG00000122068	ENST00000241502	Transcript	missense_variant	269	47	16	S/L	tCg/tTg	COSM1308994	.	.	1	FYTTD1	HGNC	25407	protein_coding	YES	CCDS3329.1	ENSP00000241502	UIF_HUMAN	H9KVC6_HUMAN,H9KVC1_HUMAN,F6VVD0_HUMAN	UPI0000073CEC	.	tolerated_low_confidence(0.06)	benign(0.058)	1/9	.	Pfam_domain:PF07078,hmmpanther:PTHR21038	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TTCTTCGCCGC	.	2	BLCA
NR1D2	0	.	GRCh37	3	24018855	24018855	+	Missense_Mutation	SNP	G	G	T	rs775931055	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1685G>T	p.Arg562Leu	p.R562L	ENST00000312521	8/8	170	117	52	101	101	0	NR1D2,missense_variant,p.Arg562Leu,ENST00000312521,;NR1D2,non_coding_transcript_exon_variant,,ENST00000492552,;NR1D2,3_prime_UTR_variant,,ENST00000383773,;	T	ENSG00000174738	ENST00000312521	Transcript	missense_variant	2004	1685	562	R/L	cGa/cTa	rs775931055,COSM1309010	.	.	1	NR1D2	HGNC	7963	protein_coding	YES	CCDS33718.1	ENSP00000310006	NR1D2_HUMAN	.	UPI0000209A6C	.	deleterious(0)	benign(0.169)	8/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24082,hmmpanther:PTHR24082:SF112,Pfam_domain:PF00104,Gene3D:1.10.565.10,SMART_domains:SM00430,Superfamily_domains:SSF48508,Prints_domain:PR00398	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTCGATCTT	byFrequency	5	BLCA
TGFBR2	0	.	GRCh37	3	30713456	30713457	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858dupC	p.Lys287GlnfsTer11	p.K287Qfs*11	ENST00000359013	5/8	146	94	52	108	108	0	TGFBR2,frameshift_variant,p.Lys262GlnfsTer11,ENST00000295754,;TGFBR2,frameshift_variant,p.Lys287GlnfsTer11,ENST00000359013,;	C	ENSG00000163513	ENST00000359013	Transcript	frameshift_variant	1139-1140	856-857	286	A/AX	gcc/gCcc	.	.	.	1	TGFBR2	HGNC	11773	protein_coding	YES	CCDS33727.1	ENSP00000351905	TGFR2_HUMAN	D2JYI1_HUMAN	UPI000053030E	.	.	.	5/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255,hmmpanther:PTHR23255:SF55,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF00069,PIRSF_domain:PIRSF037393,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATAAGGCCAAG	.	3	BLCA
CHL1	0	.	GRCh37	3	367669	367669	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.119A>T	p.Gln40Leu	p.Q40L	ENST00000256509	4/28	54	42	12	40	40	0	CHL1,missense_variant,p.Gln40Leu,ENST00000449294,;CHL1,missense_variant,p.Gln40Leu,ENST00000397491,;CHL1,missense_variant,p.Gln40Leu,ENST00000421198,;CHL1,missense_variant,p.Gln40Leu,ENST00000427688,;CHL1,missense_variant,p.Gln40Leu,ENST00000435603,;CHL1,missense_variant,p.Gln40Leu,ENST00000256509,;CHL1,non_coding_transcript_exon_variant,,ENST00000461289,;CHL1,3_prime_UTR_variant,,ENST00000453040,;	T	ENSG00000134121	ENST00000256509	Transcript	missense_variant	761	119	40	Q/L	cAg/cTg	COSM1309043	.	.	1	CHL1	HGNC	1939	protein_coding	YES	CCDS2556.1	ENSP00000256509	CHL1_HUMAN	C9JW79_HUMAN,C9JH37_HUMAN,C9JEY3_HUMAN,C9J905_HUMAN	UPI000013CF0F	.	deleterious(0.01)	probably_damaging(0.999)	4/28	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF122,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAACAGTCAA	.	5	BLCA
LRRN1	0	.	GRCh37	3	3886380	3886380	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.55A>T	p.Met19Leu	p.M19L	ENST00000319331	2/2	96	65	30	79	79	0	LRRN1,missense_variant,p.Met19Leu,ENST00000319331,;SUMF1,intron_variant,,ENST00000534863,;LRRN1,downstream_gene_variant,,ENST00000496115,;SUMF1,intron_variant,,ENST00000448413,;	T	ENSG00000175928	ENST00000319331	Transcript	missense_variant	816	55	19	M/L	Atg/Ttg	COSM1309091	.	.	1	LRRN1	HGNC	20980	protein_coding	YES	CCDS33685.1	ENSP00000314901	LRRN1_HUMAN	.	UPI0000034CB8	.	tolerated(0.75)	benign(0)	2/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF97	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACTAATGACT	.	3	BLCA
LRRN1	0	.	GRCh37	3	3886395	3886395	+	Missense_Mutation	SNP	G	G	A	rs140162397	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.70G>A	p.Glu24Lys	p.E24K	ENST00000319331	2/2	110	72	37	89	89	0	LRRN1,missense_variant,p.Glu24Lys,ENST00000319331,;SUMF1,intron_variant,,ENST00000534863,;LRRN1,downstream_gene_variant,,ENST00000496115,;SUMF1,intron_variant,,ENST00000448413,;	A	ENSG00000175928	ENST00000319331	Transcript	missense_variant	831	70	24	E/K	Gag/Aag	rs140162397,COSM1309092	.	.	1	LRRN1	HGNC	20980	protein_coding	YES	CCDS33685.1	ENSP00000314901	LRRN1_HUMAN	.	UPI0000034CB8	.	tolerated(0.92)	benign(0.011)	2/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF97	A:0.0004	A:0	A:0	.	A:0	A:0.001	A:0.001	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACCGAGTCT	byFrequency|byCluster|by1000G	5	BLCA
SCN11A	0	.	GRCh37	3	38962614	38962614	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.845A>C	p.Lys282Thr	p.K282T	ENST00000302328	6/26	303	186	117	342	340	2	SCN11A,missense_variant,p.Lys282Thr,ENST00000450244,;SCN11A,missense_variant,p.Lys282Thr,ENST00000302328,;SCN11A,missense_variant,p.Lys282Thr,ENST00000444237,;SCN11A,missense_variant,p.Lys282Thr,ENST00000456224,;	G	ENSG00000168356	ENST00000302328	Transcript	missense_variant	1044	845	282	K/T	aAa/aCa	COSM1309093	.	.	-1	SCN11A	HGNC	10583	protein_coding	YES	CCDS33737.1	ENSP00000307599	SCNBA_HUMAN	.	UPI000006CCD7	.	deleterious(0)	possibly_damaging(0.568)	6/26	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF22,Pfam_domain:PF00520	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TGCATTTCAGG	.	3	BLCA
KIF9	0	.	GRCh37	3	47324425	47324425	+	5'Flank	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000335044	.	13	5	7	13	13	0	KIF9,5_prime_UTR_variant,,ENST00000265529,;KIF9,upstream_gene_variant,,ENST00000425452,;KIF9,upstream_gene_variant,,ENST00000425853,;KIF9,upstream_gene_variant,,ENST00000352910,;KLHL18,upstream_gene_variant,,ENST00000455924,;KIF9,upstream_gene_variant,,ENST00000335044,;KLHL18,upstream_gene_variant,,ENST00000232766,;KIF9,upstream_gene_variant,,ENST00000456548,;KLHL18,upstream_gene_variant,,ENST00000437353,;KIF9,upstream_gene_variant,,ENST00000452770,;KIF9,upstream_gene_variant,,ENST00000432493,;KIF9,upstream_gene_variant,,ENST00000444589,;KLHL18,upstream_gene_variant,,ENST00000483201,;KIF9,upstream_gene_variant,,ENST00000487440,;KLHL18,5_prime_UTR_variant,,ENST00000433449,;KIF9,upstream_gene_variant,,ENST00000498584,;KIF9,upstream_gene_variant,,ENST00000443784,;KLHL18,upstream_gene_variant,,ENST00000461084,;KLHL18,upstream_gene_variant,,ENST00000442272,;	A	ENSG00000088727	ENST00000335044	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	88	-1	KIF9	HGNC	16666	protein_coding	YES	CCDS2752.1	ENSP00000333942	KIF9_HUMAN	.	UPI000012DE55	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	CCGGCGAGGCC	.	4	BLCA
COL7A1	0	.	GRCh37	3	48618755	48618755	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4837G>A	p.Gly1613Arg	p.G1613R	ENST00000328333	51/118	49	32	17	76	75	1	COL7A1,missense_variant,p.Gly1613Arg,ENST00000328333,;COL7A1,missense_variant,p.Gly1613Arg,ENST00000454817,;MIR711,upstream_gene_variant,,ENST00000390201,;COL7A1,non_coding_transcript_exon_variant,,ENST00000487017,;	T	ENSG00000114270	ENST00000328333	Transcript	missense_variant	4945	4837	1613	G/R	Gga/Aga	COSM1309220	.	.	-1	COL7A1	HGNC	2214	protein_coding	YES	CCDS2773.1	ENSP00000332371	CO7A1_HUMAN	.	UPI0000126D20	.	.	unknown(0)	51/118	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTCCAGGAG	.	5	BLCA
DNAH1	0	.	GRCh37	3	52433606	52433607	+	Frame_Shift_Ins	INS	-	-	GGTGC	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12488_12492dupGGTGC	p.Tyr4165GlyfsTer60	p.Y4165Gfs*60	ENST00000420323	77/78	46	25	21	38	38	0	DNAH1,frameshift_variant,p.Tyr4165GlyfsTer60,ENST00000420323,;BAP1,downstream_gene_variant,,ENST00000469613,;BAP1,downstream_gene_variant,,ENST00000478368,;BAP1,downstream_gene_variant,,ENST00000296288,;BAP1,downstream_gene_variant,,ENST00000460680,;DNAH1,3_prime_UTR_variant,,ENST00000490713,;DNAH1,non_coding_transcript_exon_variant,,ENST00000486752,;DNAH1,intron_variant,,ENST00000488988,;BAP1,downstream_gene_variant,,ENST00000490804,;BAP1,downstream_gene_variant,,ENST00000466093,;DNAH1,downstream_gene_variant,,ENST00000487254,;	GGTGC	ENSG00000114841	ENST00000420323	Transcript	frameshift_variant	12748-12749	12487-12488	4163	G/GCX	ggg/gGGTGCgg	.	.	.	1	DNAH1	HGNC	2940	protein_coding	YES	CCDS46842.1	ENSP00000401514	DYH1_HUMAN	.	UPI0001AE79D6	.	.	.	77/78	.	Pfam_domain:PF03028,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAGTAGGGTGC	.	3	BLCA
SPATA12	0	.	GRCh37	3	57107939	57107939	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217C>T	p.Gln73Ter	p.Q73*	ENST00000334325	2/2	75	43	32	75	75	0	SPATA12,stop_gained,p.Gln73Ter,ENST00000334325,;ARHGEF3,intron_variant,,ENST00000468466,;ARHGEF3,intron_variant,,ENST00000338458,;ARHGEF3,intron_variant,,ENST00000468727,;ARHGEF3,intron_variant,,ENST00000477440,;ARHGEF3,intron_variant,,ENST00000477833,;	T	ENSG00000186451	ENST00000334325	Transcript	stop_gained	892	217	73	Q/*	Cag/Tag	COSM1309394	.	.	1	SPATA12	HGNC	23221	protein_coding	YES	CCDS2879.1	ENSP00000335392	SPT12_HUMAN	.	UPI00001A9456	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTCAGGGG	.	5	BLCA
ABHD6	0	.	GRCh37	3	58255096	58255096	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325G>A	p.Glu109Lys	p.E109K	ENST00000478253	5/10	53	36	17	53	53	0	ABHD6,missense_variant,p.Glu109Lys,ENST00000295962,;ABHD6,missense_variant,p.Glu109Lys,ENST00000463756,;ABHD6,missense_variant,p.Glu109Lys,ENST00000478253,;ABHD6,missense_variant,p.Glu109Lys,ENST00000485900,;ABHD6,downstream_gene_variant,,ENST00000475982,;	A	ENSG00000163686	ENST00000478253	Transcript	missense_variant	826	325	109	E/K	Gag/Aag	COSM1309415	.	.	1	ABHD6	HGNC	21398	protein_coding	YES	CCDS2887.1	ENSP00000420315	ABHD6_HUMAN	C9JNE7_HUMAN,C9J010_HUMAN	UPI000003AF8F	.	tolerated(0.11)	probably_damaging(0.935)	5/10	.	hmmpanther:PTHR10992,hmmpanther:PTHR10992:SF21,Gene3D:3.40.50.1820,Pfam_domain:PF12697,Superfamily_domains:SSF53474,Prints_domain:PR00111	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATGAGGGC	.	5	BLCA
C3orf67	0	.	GRCh37	3	58856020	58856020	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356G>A	p.Arg119Lys	p.R119K	ENST00000295966	8/16	46	26	19	61	61	0	C3orf67,missense_variant,p.Arg39Lys,ENST00000472469,;C3orf67,missense_variant,p.Arg119Lys,ENST00000482387,;C3orf67,missense_variant,p.Arg119Lys,ENST00000295966,;RP11-147N17.1,intron_variant,,ENST00000493123,;RP11-147N17.1,intron_variant,,ENST00000463703,;RP11-147N17.1,intron_variant,,ENST00000492031,;RP11-147N17.1,intron_variant,,ENST00000482372,;C3orf67,3_prime_UTR_variant,,ENST00000468415,;	T	ENSG00000163689	ENST00000295966	Transcript	missense_variant	860	356	119	R/K	aGa/aAa	COSM1309420	.	.	-1	C3orf67	HGNC	24763	protein_coding	YES	CCDS33776.1	ENSP00000295966	CC067_HUMAN	.	UPI00001C098C	.	tolerated(0.07)	benign(0.019)	8/16	.	hmmpanther:PTHR12458:SF7,hmmpanther:PTHR12458	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTGTTA	.	5	BLCA
LMOD3	0	.	GRCh37	3	69158223	69158223	+	3'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23G>A	.	.	ENST00000420581	3/3	16	13	3	11	11	0	LMOD3,3_prime_UTR_variant,,ENST00000489031,;LMOD3,3_prime_UTR_variant,,ENST00000475434,;LMOD3,3_prime_UTR_variant,,ENST00000420581,;ARL6IP5,downstream_gene_variant,,ENST00000478935,;ARL6IP5,downstream_gene_variant,,ENST00000273258,;ARL6IP5,downstream_gene_variant,,ENST00000484921,;	T	ENSG00000163380	ENST00000420581	Transcript	3_prime_UTR_variant	1886	.	.	.	.	.	.	.	-1	LMOD3	HGNC	6649	protein_coding	YES	CCDS46862.1	ENSP00000414670	LMOD3_HUMAN	.	UPI00001612AC	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGTTCTTCTA	.	2	BLCA
OR5AC2	0	.	GRCh37	3	97806060	97806060	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44T>G	p.Val15Gly	p.V15G	ENST00000358642	1/1	230	164	65	203	201	1	OR5AC2,missense_variant,p.Val15Gly,ENST00000358642,;	G	ENSG00000196578	ENST00000358642	Transcript	missense_variant	44	44	15	V/G	gTt/gGt	COSM1309524	.	.	1	OR5AC2	HGNC	15431	protein_coding	YES	CCDS33796.1	ENSP00000351466	O5AC2_HUMAN	.	UPI0000441EFD	.	deleterious(0)	benign(0.008)	1/1	.	hmmpanther:PTHR26452:SF96,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTGTTCTCA	.	5	BLCA
PPP3CA	0	.	GRCh37	4	102267947	102267947	+	Missense_Mutation	SNP	C	C	T	rs774503546	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7G>A	p.Glu3Lys	p.E3K	ENST00000394854	1/14	45	35	10	43	43	0	PPP3CA,missense_variant,p.Glu3Lys,ENST00000512215,;PPP3CA,missense_variant,p.Glu3Lys,ENST00000394853,;PPP3CA,missense_variant,p.Glu3Lys,ENST00000323055,;PPP3CA,missense_variant,p.Glu3Lys,ENST00000394854,;PPP3CA,missense_variant,p.Glu3Lys,ENST00000523694,;PPP3CA,5_prime_UTR_variant,,ENST00000507176,;PPP3CA,intron_variant,,ENST00000529324,;PPP3CA,intron_variant,,ENST00000525819,;AP001816.1,upstream_gene_variant,,ENST00000529296,;AP001816.1,upstream_gene_variant,,ENST00000527564,;	T	ENSG00000138814	ENST00000394854	Transcript	missense_variant	691	7	3	E/K	Gag/Aag	rs774503546,COSM1309570	.	.	-1	PPP3CA	HGNC	9314	protein_coding	YES	CCDS34037.1	ENSP00000378323	PP2BA_HUMAN	Q9UMM5_HUMAN,Q9UMB2_HUMAN,E9PPC8_HUMAN,E9PK68_HUMAN,E7ETC2_HUMAN	UPI0000110660	.	tolerated_low_confidence(0.19)	benign(0.169)	1/14	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF192	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCGGACA	.	5	BLCA
CENPE	0	.	GRCh37	4	104066984	104066984	+	Splice_Site	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4413+2T>A	.	p.X1471_splice	ENST00000265148	.	73	55	18	54	53	1	CENPE,splice_donor_variant,,ENST00000380026,;CENPE,splice_donor_variant,,ENST00000265148,;CENPE,upstream_gene_variant,,ENST00000515478,;	T	ENSG00000138778	ENST00000265148	Transcript	splice_donor_variant	.	.	.	.	.	COSM1309578	.	.	-1	CENPE	HGNC	1856	protein_coding	YES	CCDS34042.1	ENSP00000265148	CENPE_HUMAN	D6RBW0_HUMAN	UPI000020B28A	.	.	.	.	30/48	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCTACTTTA	.	5	BLCA
PITX2	0	.	GRCh37	4	111539518	111539518	+	Silent	SNP	G	G	A	rs756926743	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.738C>T	p.%3D	p.L246L	ENST00000306732	3/3	92	67	25	57	56	0	PITX2,stop_gained,p.Gln171Ter,ENST00000394595,;PITX2,synonymous_variant,p.%3D,ENST00000394598,;PITX2,synonymous_variant,p.%3D,ENST00000354925,;PITX2,synonymous_variant,p.%3D,ENST00000355080,;PITX2,synonymous_variant,p.%3D,ENST00000511837,;PITX2,synonymous_variant,p.%3D,ENST00000306732,;PITX2,downstream_gene_variant,,ENST00000557119,;PITX2,downstream_gene_variant,,ENST00000511990,;RP11-380D23.2,upstream_gene_variant,,ENST00000513690,;RP11-380D23.2,upstream_gene_variant,,ENST00000503456,;PITX2,downstream_gene_variant,,ENST00000556049,;PITX2,non_coding_transcript_exon_variant,,ENST00000607868,;	A	ENSG00000164093	ENST00000306732	Transcript	synonymous_variant	1381	738	246	L	ctC/ctT	rs756926743,COSM1309629,COSM1309630	.	.	-1	PITX2	HGNC	9005	protein_coding	YES	CCDS3694.1	ENSP00000304169	PITX2_HUMAN	.	UPI000002B122	.	.	.	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24329:SF287,hmmpanther:PTHR24329,PIRSF_domain:PIRSF000563	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTGAGACT	.	5	BLCA
ARSJ	0	.	GRCh37	4	114900044	114900070	+	5'UTR	DEL	TGCGGGCGCACACATGCACCCAACAGA	TGCGGGCGCACACATGCACCCAACAGA	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	TGCGGGCGCACACATGCACCCAACAGA	TGCGGGCGCACACATGCACCCAACAGA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-80_-54delTCTGTTGGGTGCATGTGTGCGCCCGCA	.	.	ENST00000315366	1/2	90	55	35	76	76	0	ARSJ,5_prime_UTR_variant,,ENST00000541197,;ARSJ,5_prime_UTR_variant,,ENST00000315366,;ARSJ,non_coding_transcript_exon_variant,,ENST00000503013,;ARSJ,5_prime_UTR_variant,,ENST00000509829,;	-	ENSG00000180801	ENST00000315366	Transcript	5_prime_UTR_variant	788-814	.	.	.	.	.	.	.	-1	ARSJ	HGNC	26286	protein_coding	YES	CCDS43264.1	ENSP00000320219	ARSJ_HUMAN	D6RGC1_HUMAN	UPI000003FD84	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CGCCGCTGCGGGCGCACACATGCACCCAACAGACGGTG	.	3	BLCA
TRAM1L1	0	.	GRCh37	4	118006550	118006550	+	5'UTR	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1C>T	.	.	ENST00000310754	1/1	65	47	18	63	63	0	TRAM1L1,5_prime_UTR_variant,,ENST00000310754,;	A	ENSG00000174599	ENST00000310754	Transcript	5_prime_UTR_variant	187	.	.	.	.	.	.	.	-1	TRAM1L1	HGNC	28371	protein_coding	YES	CCDS3707.1	ENSP00000309402	TR1L1_HUMAN	.	UPI000013F075	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATGGTGGC	.	5	BLCA
PRDM5	0	.	GRCh37	4	121843681	121843681	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83G>A	p.Arg28Lys	p.R28K	ENST00000264808	1/16	49	35	14	40	40	0	PRDM5,missense_variant,p.Arg28Lys,ENST00000428209,;PRDM5,missense_variant,p.Arg28Lys,ENST00000394435,;PRDM5,missense_variant,p.Arg28Lys,ENST00000264808,;PRDM5,missense_variant,p.Arg28Lys,ENST00000515109,;PRDM5,non_coding_transcript_exon_variant,,ENST00000505033,;PRDM5,non_coding_transcript_exon_variant,,ENST00000512845,;PRDM5,non_coding_transcript_exon_variant,,ENST00000505484,;	T	ENSG00000138738	ENST00000264808	Transcript	missense_variant	324	83	28	R/K	aGa/aAa	COSM1309657	.	.	-1	PRDM5	HGNC	9349	protein_coding	YES	CCDS3716.1	ENSP00000264808	PRDM5_HUMAN	.	UPI000013D572	.	tolerated(0.14)	benign(0.118)	1/16	.	PROSITE_profiles:PS50280,hmmpanther:PTHR24409:SF17,hmmpanther:PTHR24409,Gene3D:2.170.270.10,SMART_domains:SM00317,PIRSF_domain:PIRSF037162,Superfamily_domains:SSF82199	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCTGCGG	.	5	BLCA
QRFPR	0	.	GRCh37	4	122250851	122250851	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.914A>T	p.Tyr305Phe	p.Y305F	ENST00000394427	6/6	19	11	7	28	28	0	QRFPR,missense_variant,p.Tyr305Phe,ENST00000394427,;QRFPR,3_prime_UTR_variant,,ENST00000334383,;Y_RNA,upstream_gene_variant,,ENST00000384419,;QRFPR,3_prime_UTR_variant,,ENST00000507331,;	A	ENSG00000186867	ENST00000394427	Transcript	missense_variant	1326	914	305	Y/F	tAt/tTt	COSM1309658	.	.	-1	QRFPR	HGNC	15565	protein_coding	YES	CCDS3719.1	ENSP00000377948	QRFPR_HUMAN	.	UPI0000047B23	.	tolerated(0.06)	benign(0.088)	6/6	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24241,hmmpanther:PTHR24241:SF65,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCATATTCC	.	5	BLCA
FAT4	0	.	GRCh37	4	126370445	126370445	+	Missense_Mutation	SNP	A	A	C	rs750907829	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8274A>C	p.Lys2758Asn	p.K2758N	ENST00000394329	9/17	143	114	29	130	130	0	FAT4,missense_variant,p.Lys2758Asn,ENST00000394329,;FAT4,missense_variant,p.Lys1056Asn,ENST00000335110,;FAT4,downstream_gene_variant,,ENST00000509444,;	C	ENSG00000196159	ENST00000394329	Transcript	missense_variant	8287	8274	2758	K/N	aaA/aaC	rs750907829,COSM1309723,COSM1309722	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	benign(0.008)	9/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAAAAGTCAT	byFrequency	5	BLCA
HSPA4L	0	.	GRCh37	4	128751844	128751844	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2218T>C	p.Cys740Arg	p.C740R	ENST00000296464	18/19	52	33	18	38	38	0	HSPA4L,missense_variant,p.Cys740Arg,ENST00000296464,;HSPA4L,missense_variant,p.Cys771Arg,ENST00000439123,;HSPA4L,missense_variant,p.Cys714Arg,ENST00000505726,;HSPA4L,missense_variant,p.Cys740Arg,ENST00000508776,;	C	ENSG00000164070	ENST00000296464	Transcript	missense_variant	2629	2218	740	C/R	Tgt/Cgt	COSM1309730	.	.	1	HSPA4L	HGNC	17041	protein_coding	YES	CCDS3734.1	ENSP00000296464	HS74L_HUMAN	.	UPI000007452A	.	tolerated(0.2)	benign(0.003)	18/19	.	Superfamily_domains:SSF100934	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAAATGTATC	.	5	BLCA
ABCE1	0	.	GRCh37	4	146046206	146046206	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1705G>A	p.Asp569Asn	p.D569N	ENST00000296577	17/18	115	95	20	86	86	0	ABCE1,missense_variant,p.Asp569Asn,ENST00000296577,;OTUD4,intron_variant,,ENST00000455611,;ABCE1,downstream_gene_variant,,ENST00000506506,;ABCE1,downstream_gene_variant,,ENST00000502803,;ABCE1,3_prime_UTR_variant,,ENST00000507193,;ABCE1,non_coding_transcript_exon_variant,,ENST00000504683,;ABCE1,downstream_gene_variant,,ENST00000515678,;ABCE1,downstream_gene_variant,,ENST00000510321,;ABCE1,downstream_gene_variant,,ENST00000509593,;	A	ENSG00000164163	ENST00000296577	Transcript	missense_variant	2220	1705	569	D/N	Gat/Aat	COSM1309773	.	.	1	ABCE1	HGNC	69	protein_coding	YES	CCDS34071.1	ENSP00000296577	ABCE1_HUMAN	D6RGF4_HUMAN,D6R9I9_HUMAN	UPI0000001226	.	deleterious(0)	probably_damaging(0.961)	17/18	.	hmmpanther:PTHR19248	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGAGATCCA	.	5	BLCA
LRBA	0	.	GRCh37	4	151223937	151223937	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7890G>A	p.%3D	p.L2630L	ENST00000357115	54/58	90	72	18	82	81	0	LRBA,synonymous_variant,p.%3D,ENST00000535741,;LRBA,synonymous_variant,p.%3D,ENST00000357115,;LRBA,synonymous_variant,p.%3D,ENST00000510413,;LRBA,synonymous_variant,p.%3D,ENST00000509835,;LRBA,upstream_gene_variant,,ENST00000508606,;LRBA,non_coding_transcript_exon_variant,,ENST00000503716,;LRBA,non_coding_transcript_exon_variant,,ENST00000510157,;LRBA,non_coding_transcript_exon_variant,,ENST00000515096,;	T	ENSG00000198589	ENST00000357115	Transcript	synonymous_variant	8134	7890	2630	L	ttG/ttA	COSM1309801	.	.	-1	LRBA	HGNC	1742	protein_coding	YES	CCDS3773.1	ENSP00000349629	LRBA_HUMAN	Q7KZN3_HUMAN	UPI000013E35C	.	.	.	54/58	.	hmmpanther:PTHR13743,hmmpanther:PTHR13743:SF64,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCAATCT	.	4	BLCA
SH3D19	0	.	GRCh37	4	152043166	152043166	+	3'UTR	SNP	G	G	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*77C>G	.	.	ENST00000304527	21/21	69	55	14	48	47	1	SH3D19,3_prime_UTR_variant,,ENST00000424281,;SH3D19,3_prime_UTR_variant,,ENST00000304527,;SH3D19,3_prime_UTR_variant,,ENST00000455740,;SH3D19,3_prime_UTR_variant,,ENST00000409598,;SH3D19,3_prime_UTR_variant,,ENST00000409252,;SH3D19,3_prime_UTR_variant,,ENST00000514152,;SH3D19,3_prime_UTR_variant,,ENST00000427414,;SH3D19,upstream_gene_variant,,ENST00000604922,;SH3D19,non_coding_transcript_exon_variant,,ENST00000478503,;	C	ENSG00000109686	ENST00000304527	Transcript	3_prime_UTR_variant	3540	.	.	.	.	.	.	.	-1	SH3D19	HGNC	30418	protein_coding	YES	CCDS34077.2	ENSP00000302913	SH319_HUMAN	.	UPI0000251D9A	.	.	.	21/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|VARSCANS	AAATAGTGCAA	.	3	BLCA
FBXW7	0	.	GRCh37	4	153245449	153245450	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1741dupC	p.Gln581ProfsTer24	p.Q581Pfs*24	ENST00000281708	11/12	80	60	20	43	43	0	FBXW7,frameshift_variant,p.Gln581ProfsTer24,ENST00000603548,;FBXW7,frameshift_variant,p.Gln501ProfsTer24,ENST00000263981,;FBXW7,frameshift_variant,p.Gln463ProfsTer24,ENST00000296555,;FBXW7,frameshift_variant,p.Gln405ProfsTer24,ENST00000393956,;FBXW7,frameshift_variant,p.Gln581ProfsTer24,ENST00000281708,;FBXW7,frameshift_variant,p.Gln581ProfsTer24,ENST00000603841,;RP11-461L13.3,upstream_gene_variant,,ENST00000603766,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604316,;FBXW7,non_coding_transcript_exon_variant,,ENST00000603821,;FBXW7,downstream_gene_variant,,ENST00000604069,;	G	ENSG00000109670	ENST00000281708	Transcript	frameshift_variant	2971-2972	1741-1742	581	Q/PX	cag/cCag	.	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	.	.	11/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116,PROSITE_profiles:PS50082,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S343L|c.1028C>T|6,BUFFER|p.S502L|c.1505C>T|6,BUFFER|p.S582L|c.1745C>T|6,BUFFER|p.S582L|c.1745C>T|17,BUFFER|p.S464L|c.1391C>T|4	INDELOCATOR*|VARSCANI*|PINDEL	ACGACTGGTGC	.	3	BLCA
FBXW7	0	.	GRCh37	4	153250906	153250906	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1154C>A	p.Thr385Lys	p.T385K	ENST00000281708	8/12	120	100	20	83	83	0	FBXW7,missense_variant,p.Thr385Lys,ENST00000603548,;FBXW7,missense_variant,p.Thr305Lys,ENST00000263981,;FBXW7,missense_variant,p.Thr267Lys,ENST00000296555,;FBXW7,missense_variant,p.Thr209Lys,ENST00000393956,;FBXW7,missense_variant,p.Thr385Lys,ENST00000281708,;FBXW7,missense_variant,p.Thr385Lys,ENST00000603841,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604069,;FBXW7,upstream_gene_variant,,ENST00000603821,;	T	ENSG00000109670	ENST00000281708	Transcript	missense_variant	2384	1154	385	T/K	aCa/aAa	COSM1309812,COSM1309813,COSM1309815,COSM1309816,COSM1309814	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	deleterious(0)	probably_damaging(1)	8/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATGTGATC	.	4	BLCA
FBXW7	0	.	GRCh37	4	153273634	153273634	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502-2358G>A	.	.	ENST00000281708	.	69	57	12	74	74	0	FBXW7,missense_variant,p.Met83Ile,ENST00000263981,;FBXW7,intron_variant,,ENST00000603548,;FBXW7,intron_variant,,ENST00000281708,;FBXW7,intron_variant,,ENST00000603841,;FBXW7,intron_variant,,ENST00000296555,;FBXW7,upstream_gene_variant,,ENST00000393956,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604822,;	T	ENSG00000109670	ENST00000281708	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	.	.	.	2/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATCATTTT	.	4	BLCA
TRIM2	0	.	GRCh37	4	154243942	154243942	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1925G>A	p.Arg642Gln	p.R642Q	ENST00000338700	9/12	77	54	23	81	81	0	TRIM2,missense_variant,p.Arg642Gln,ENST00000338700,;TRIM2,missense_variant,p.Arg615Gln,ENST00000437508,;TRIM2,non_coding_transcript_exon_variant,,ENST00000460908,;	A	ENSG00000109654	ENST00000338700	Transcript	missense_variant	1990	1925	642	R/Q	cGa/cAa	COSM1309822,COSM1309821	.	.	1	TRIM2	HGNC	15974	protein_coding	YES	CCDS3781.2	ENSP00000339659	TRIM2_HUMAN	C9JVI3_HUMAN,C9J084_HUMAN	UPI00005A60C0	.	deleterious(0.02)	benign(0.408)	9/12	.	PROSITE_profiles:PS51125,hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF2,Gene3D:2.120.10.30,Superfamily_domains:SSF101898	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGCCGAGGAA	.	5	BLCA
TRIM2	0	.	GRCh37	4	154243969	154243969	+	Splice_Site	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1951+1G>A	.	p.X651_splice	ENST00000338700	.	64	37	27	67	67	0	TRIM2,splice_donor_variant,,ENST00000338700,;TRIM2,splice_donor_variant,,ENST00000437508,;TRIM2,splice_donor_variant,,ENST00000460908,;	A	ENSG00000109654	ENST00000338700	Transcript	splice_donor_variant	.	.	.	.	.	COSM1309824,COSM1309823	.	.	1	TRIM2	HGNC	15974	protein_coding	YES	CCDS3781.2	ENSP00000339659	TRIM2_HUMAN	C9JVI3_HUMAN,C9J084_HUMAN	UPI00005A60C0	.	.	.	.	9/11	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGTACAC	.	5	BLCA
RBM46	0	.	GRCh37	4	155749131	155749131	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1514G>A	p.Gly505Asp	p.G505D	ENST00000281722	5/5	246	186	60	202	202	0	RBM46,missense_variant,p.Gly505Asp,ENST00000281722,;RBM46,3_prime_UTR_variant,,ENST00000510397,;RBM46,downstream_gene_variant,,ENST00000514866,;	A	ENSG00000151962	ENST00000281722	Transcript	missense_variant	1749	1514	505	G/D	gGc/gAc	COSM1309837	.	.	1	RBM46	HGNC	28401	protein_coding	YES	CCDS3790.1	ENSP00000281722	RBM46_HUMAN	D6RF41_HUMAN	UPI000007173F	.	tolerated_low_confidence(0.25)	benign(0.004)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGGCTATC	.	5	BLCA
BST1	0	.	GRCh37	4	15720599	15720599	+	Silent	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774C>T	p.%3D	p.S258S	ENST00000265016	7/9	42	31	10	39	39	0	BST1,synonymous_variant,p.%3D,ENST00000514445,;BST1,synonymous_variant,p.%3D,ENST00000382346,;BST1,synonymous_variant,p.%3D,ENST00000514989,;BST1,synonymous_variant,p.%3D,ENST00000265016,;BST1,synonymous_variant,p.%3D,ENST00000505785,;	T	ENSG00000109743	ENST00000265016	Transcript	synonymous_variant	969	774	258	S	agC/agT	.	.	.	1	BST1	HGNC	1118	protein_coding	YES	CCDS3416.1	ENSP00000265016	BST1_HUMAN	.	UPI0000072318	.	.	.	7/9	.	hmmpanther:PTHR10912:SF4,hmmpanther:PTHR10912,Pfam_domain:PF02267,Gene3D:3.40.50.720,Superfamily_domains:SSF52309	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACAGCTGTAT	.	5	BLCA
NPY5R	0	.	GRCh37	4	164272420	164272420	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.995G>A	p.Gly332Glu	p.G332E	ENST00000515560	4/4	73	60	13	39	39	0	NPY5R,missense_variant,p.Gly332Glu,ENST00000506953,;NPY5R,missense_variant,p.Gly332Glu,ENST00000515560,;NPY5R,missense_variant,p.Gly332Glu,ENST00000338566,;	A	ENSG00000164129	ENST00000515560	Transcript	missense_variant	2517	995	332	G/E	gGg/gAg	COSM1309865	.	.	1	NPY5R	HGNC	7958	protein_coding	YES	CCDS3804.1	ENSP00000423917	NPY5R_HUMAN	.	UPI000000D9D7	.	deleterious(0.03)	possibly_damaging(0.908)	4/4	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24242:SF167,hmmpanther:PTHR24242,Pfam_domain:PF00001,Prints_domain:PR01016	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAGGGGTCC	.	5	BLCA
PALLD	0	.	GRCh37	4	169819719	169819719	+	Missense_Mutation	SNP	G	G	A	rs559000839	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2326G>A	p.Glu776Lys	p.E776K	ENST00000505667	14/22	70	58	12	47	47	0	PALLD,missense_variant,p.Glu52Lys,ENST00000510998,;PALLD,missense_variant,p.Glu272Lys,ENST00000507735,;PALLD,missense_variant,p.Glu52Lys,ENST00000393726,;PALLD,missense_variant,p.Glu601Lys,ENST00000335742,;PALLD,missense_variant,p.Glu759Lys,ENST00000261509,;PALLD,missense_variant,p.Glu776Lys,ENST00000505667,;PALLD,missense_variant,p.Glu377Lys,ENST00000512127,;CBR4,intron_variant,,ENST00000509108,;PALLD,non_coding_transcript_exon_variant,,ENST00000513187,;PALLD,non_coding_transcript_exon_variant,,ENST00000511682,;PALLD,non_coding_transcript_exon_variant,,ENST00000507699,;PALLD,non_coding_transcript_exon_variant,,ENST00000507325,;CBR4,intron_variant,,ENST00000510042,;PALLD,downstream_gene_variant,,ENST00000511611,;	A	ENSG00000129116	ENST00000505667	Transcript	missense_variant	2499	2326	776	E/K	Gaa/Aaa	rs559000839,COSM1309890,COSM1309891	.	.	1	PALLD	HGNC	17068	protein_coding	YES	CCDS54818.1	ENSP00000425556	PALLD_HUMAN	Q4W5A6_HUMAN,D6RBH5_HUMAN,D6RBB1_HUMAN,D6R9Z5_HUMAN,D6R948_HUMAN	UPI000189A85C	.	deleterious(0)	benign(0.223)	14/22	.	hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF152	.	.	.	.	.	.	.	.	.	uncertain_significance	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATGAATCA	byFrequency|byCluster	4	BLCA
ENPP6	0	.	GRCh37	4	185012225	185012225	+	3'UTR	SNP	G	G	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*105C>G	.	.	ENST00000296741	8/8	24	16	7	15	15	0	ENPP6,3_prime_UTR_variant,,ENST00000296741,;	C	ENSG00000164303	ENST00000296741	Transcript	3_prime_UTR_variant	1570	.	.	.	.	.	.	.	-1	ENPP6	HGNC	23409	protein_coding	YES	CCDS3834.1	ENSP00000296741	ENPP6_HUMAN	D6R9P1_HUMAN	UPI0000073C89	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTGATTGT	.	5	BLCA
UFSP2	0	.	GRCh37	4	186324770	186324770	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1201G>A	p.Gly401Arg	p.G401R	ENST00000264689	11/12	87	68	19	84	84	0	UFSP2,missense_variant,p.Gly401Arg,ENST00000264689,;UFSP2,missense_variant,p.Gly300Arg,ENST00000511485,;UFSP2,missense_variant,p.Gly130Arg,ENST00000509180,;ANKRD37,downstream_gene_variant,,ENST00000335174,;ANKRD37,downstream_gene_variant,,ENST00000507479,;UFSP2,splice_region_variant,,ENST00000514247,;UFSP2,splice_region_variant,,ENST00000510206,;UFSP2,splice_region_variant,,ENST00000510755,;ANKRD37,downstream_gene_variant,,ENST00000511393,;ANKRD37,downstream_gene_variant,,ENST00000506424,;	T	ENSG00000109775	ENST00000264689	Transcript	missense_variant	1318	1201	401	G/R	Gga/Aga	COSM1309932	.	.	-1	UFSP2	HGNC	25640	protein_coding	YES	CCDS3842.1	ENSP00000264689	UFSP2_HUMAN	D6RA67_HUMAN	UPI000020B7C0	.	deleterious(0)	probably_damaging(1)	11/12	.	hmmpanther:PTHR13226:SF9,hmmpanther:PTHR13226,Pfam_domain:PF07910	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTCCCCCTA	.	5	BLCA
WHSC1	0	.	GRCh37	4	1957573	1957573	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2672A>G	p.Tyr891Cys	p.Y891C	ENST00000382895	16/24	83	53	30	48	48	0	WHSC1,missense_variant,p.Tyr891Cys,ENST00000508803,;WHSC1,missense_variant,p.Tyr239Cys,ENST00000382888,;WHSC1,missense_variant,p.Tyr891Cys,ENST00000382892,;WHSC1,missense_variant,p.Tyr891Cys,ENST00000382895,;WHSC1,missense_variant,p.Tyr891Cys,ENST00000382891,;WHSC1,missense_variant,p.Tyr215Cys,ENST00000514329,;WHSC1,non_coding_transcript_exon_variant,,ENST00000503207,;WHSC1,non_coding_transcript_exon_variant,,ENST00000482415,;WHSC1,non_coding_transcript_exon_variant,,ENST00000505643,;WHSC1,downstream_gene_variant,,ENST00000513726,;WHSC1,downstream_gene_variant,,ENST00000502425,;WHSC1,3_prime_UTR_variant,,ENST00000312087,;WHSC1,3_prime_UTR_variant,,ENST00000353275,;WHSC1,non_coding_transcript_exon_variant,,ENST00000507094,;WHSC1,downstream_gene_variant,,ENST00000511904,;AL132868.1,downstream_gene_variant,,ENST00000327785,;	G	ENSG00000109685	ENST00000382895	Transcript	missense_variant	3103	2672	891	Y/C	tAc/tGc	COSM1309968	.	.	1	WHSC1	HGNC	12766	protein_coding	YES	CCDS33940.1	ENSP00000372351	NSD2_HUMAN	D6RIS1_HUMAN,D6RFE7_HUMAN,D6R9V2_HUMAN	UPI0000073F57	.	deleterious(0)	probably_damaging(1)	16/24	.	PROSITE_profiles:PS50812,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF293,Pfam_domain:PF00855,Gene3D:2.30.30.160,SMART_domains:SM00293,Superfamily_domains:SSF63748	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACTACAGGT	.	5	BLCA
DOK7	0	.	GRCh37	4	3475151	3475151	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.119T>C	p.Val40Ala	p.V40A	ENST00000340083	3/7	114	99	15	58	57	1	DOK7,missense_variant,p.Val40Ala,ENST00000507039,;DOK7,missense_variant,p.Val40Ala,ENST00000389653,;DOK7,missense_variant,p.Val40Ala,ENST00000340083,;DOK7,intron_variant,,ENST00000503688,;DOK7,non_coding_transcript_exon_variant,,ENST00000511267,;	C	ENSG00000175920	ENST00000340083	Transcript	missense_variant	184	119	40	V/A	gTc/gCc	COSM1310025	.	.	1	DOK7	HGNC	26594	protein_coding	YES	CCDS3370.2	ENSP00000344432	DOK7_HUMAN	.	UPI0000DA4A17	.	tolerated(0.26)	benign(0.001)	3/7	.	PROSITE_profiles:PS50003,hmmpanther:PTHR21636,hmmpanther:PTHR21636:SF2,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|VARSCANS	GCTGGTCTACA	.	3	BLCA
PDS5A	0	.	GRCh37	4	39850583	39850583	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3227A>G	p.Tyr1076Cys	p.Y1076C	ENST00000303538	28/33	31	25	6	13	13	0	PDS5A,missense_variant,p.Tyr1076Cys,ENST00000303538,;PDS5A,upstream_gene_variant,,ENST00000507766,;	C	ENSG00000121892	ENST00000303538	Transcript	missense_variant	3767	3227	1076	Y/C	tAt/tGt	COSM1310045	.	.	-1	PDS5A	HGNC	29088	protein_coding	YES	CCDS47045.1	ENSP00000303427	PDS5A_HUMAN	Q96DB6_HUMAN,G1UI16_HUMAN,B3KMN2_HUMAN	UPI00006C6A7E	.	deleterious(0)	probably_damaging(0.967)	28/33	.	hmmpanther:PTHR12663,hmmpanther:PTHR12663:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTATACAGT	.	2	BLCA
GNPDA2	0	.	GRCh37	4	44709782	44709782	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>A	p.%3D	p.V252V	ENST00000295448	6/7	33	22	11	33	33	0	GNPDA2,synonymous_variant,p.%3D,ENST00000507534,;GNPDA2,synonymous_variant,p.%3D,ENST00000507917,;GNPDA2,synonymous_variant,p.%3D,ENST00000295448,;GNPDA2,synonymous_variant,p.%3D,ENST00000609092,;GNPDA2,synonymous_variant,p.%3D,ENST00000608855,;GNPDA2,synonymous_variant,p.%3D,ENST00000509756,;RP11-700J17.2,downstream_gene_variant,,ENST00000610267,;GNPDA2,non_coding_transcript_exon_variant,,ENST00000511187,;	T	ENSG00000163281	ENST00000295448	Transcript	synonymous_variant	913	756	252	V	gtG/gtA	COSM1310085	.	.	-1	GNPDA2	HGNC	21526	protein_coding	YES	CCDS3469.1	ENSP00000295448	GNPI2_HUMAN	.	UPI000004D013	.	.	.	6/7	.	hmmpanther:PTHR11280:SF4,hmmpanther:PTHR11280,TIGRFAM_domain:TIGR00502,Gene3D:3.40.50.1360,Superfamily_domains:SSF100950	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTTCACAGT	.	5	BLCA
FRYL	0	.	GRCh37	4	48578237	48578237	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2531G>A	p.Ser844Asn	p.S844N	ENST00000358350	24/64	92	69	22	69	69	0	FRYL,missense_variant,p.Ser844Asn,ENST00000358350,;FRYL,missense_variant,p.Ser844Asn,ENST00000503238,;FRYL,missense_variant,p.Ser844Asn,ENST00000507711,;FRYL,missense_variant,p.Ser844Asn,ENST00000537810,;FRYL,splice_region_variant,,ENST00000264319,;FRYL,downstream_gene_variant,,ENST00000506685,;RNU5E-3P,upstream_gene_variant,,ENST00000515913,;FRYL,upstream_gene_variant,,ENST00000511343,;	T	ENSG00000075539	ENST00000358350	Transcript	missense_variant	3136	2531	844	S/N	aGc/aAc	COSM1310104	.	.	-1	FRYL	HGNC	29127	protein_coding	YES	CCDS43227.1	ENSP00000351113	FRYL_HUMAN	.	UPI0000EBC149	.	tolerated(0.29)	possibly_damaging(0.464)	24/64	.	hmmpanther:PTHR12295:SF9,hmmpanther:PTHR12295	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGGCTACTA	.	5	BLCA
AASDH	0	.	GRCh37	4	57215543	57215543	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2374C>A	p.His792Asn	p.H792N	ENST00000205214	11/15	146	115	31	94	93	1	AASDH,missense_variant,p.His307Asn,ENST00000434343,;AASDH,missense_variant,p.His639Asn,ENST00000602986,;AASDH,missense_variant,p.His792Asn,ENST00000451613,;AASDH,missense_variant,p.His792Asn,ENST00000205214,;AASDH,missense_variant,p.His792Asn,ENST00000502617,;AASDH,missense_variant,p.His692Asn,ENST00000513376,;AASDH,3_prime_UTR_variant,,ENST00000503808,;AASDH,3_prime_UTR_variant,,ENST00000514745,;	T	ENSG00000157426	ENST00000205214	Transcript	missense_variant	2555	2374	792	H/N	Cat/Aat	COSM1310156	.	.	-1	AASDH	HGNC	23993	protein_coding	YES	CCDS3504.1	ENSP00000205214	ACSF4_HUMAN	G3V0G4_HUMAN	UPI000020B8EF	.	deleterious(0.04)	benign(0.078)	11/15	.	Superfamily_domains:SSF50998,SMART_domains:SM00564,Pfam_domain:PF13360,Gene3D:2.140.10.10,hmmpanther:PTHR24095:SF43,hmmpanther:PTHR24095	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTATGAGAAT	.	4	BLCA
NOA1	0	.	GRCh37	4	57842717	57842743	+	In_Frame_Del	DEL	GCCCACTAAGTAGACGTCCCCACGGTA	GCCCACTAAGTAGACGTCCCCACGGTA	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	GCCCACTAAGTAGACGTCCCCACGGTA	GCCCACTAAGTAGACGTCCCCACGGTA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009_1035delTACCGTGGGGACGTCTACTTAGTGGGC	p.Tyr337_Gly345del	p.Y337_G345del	ENST00000264230	1/7	105	84	21	106	106	0	NOA1,inframe_deletion,p.Tyr337_Gly345del,ENST00000264230,;POLR2B,upstream_gene_variant,,ENST00000433463,;POLR2B,upstream_gene_variant,,ENST00000450656,;POLR2B,upstream_gene_variant,,ENST00000441246,;POLR2B,upstream_gene_variant,,ENST00000431623,;POLR2B,upstream_gene_variant,,ENST00000381227,;POLR2B,upstream_gene_variant,,ENST00000314595,;POLR2B,upstream_gene_variant,,ENST00000495311,;POLR2B,upstream_gene_variant,,ENST00000497845,;	-	ENSG00000084092	ENST00000264230	Transcript	inframe_deletion	2247-2273	1009-1035	337-345	YRGDVYLVG/-	TACCGTGGGGACGTCTACTTAGTGGGC/-	.	.	.	-1	NOA1	HGNC	28473	protein_coding	YES	CCDS3510.1	ENSP00000264230	NOA1_HUMAN	.	UPI000006DAEE	.	.	.	1/7	.	PROSITE_profiles:PS51721,hmmpanther:PTHR11089,hmmpanther:PTHR11089:SF33,Pfam_domain:PF01926,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGTGGCGCCCACTAAGTAGACGTCCCCACGGTAGCGCC	.	3	BLCA
MFSD7	0	.	GRCh37	4	682809	682809	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108C>T	p.%3D	p.I36I	ENST00000322224	1/10	35	20	14	32	32	0	MFSD7,synonymous_variant,p.%3D,ENST00000322224,;MFSD7,synonymous_variant,p.%3D,ENST00000515118,;MFSD7,synonymous_variant,p.%3D,ENST00000404286,;MFSD7,synonymous_variant,p.%3D,ENST00000512249,;MFSD7,synonymous_variant,p.%3D,ENST00000347950,;MFSD7,upstream_gene_variant,,ENST00000507165,;MFSD7,upstream_gene_variant,,ENST00000503156,;MFSD7,non_coding_transcript_exon_variant,,ENST00000513740,;MFSD7,upstream_gene_variant,,ENST00000512400,;	A	ENSG00000169026	ENST00000322224	Transcript	synonymous_variant	422	108	36	I	atC/atT	COSM1310202	.	.	-1	MFSD7	HGNC	26177	protein_coding	YES	CCDS3338.1	ENSP00000320234	MFSD7_HUMAN	.	UPI000006CE80	.	.	.	1/10	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR10924:SF6,hmmpanther:PTHR10924,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTGATCGC	.	5	BLCA
YTHDC1	0	.	GRCh37	4	69196015	69196015	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1136C>T	p.Thr379Met	p.T379M	ENST00000344157	8/17	44	29	14	28	28	0	YTHDC1,missense_variant,p.Thr361Met,ENST00000355665,;YTHDC1,missense_variant,p.Thr379Met,ENST00000579690,;YTHDC1,missense_variant,p.Thr379Met,ENST00000344157,;YTHDC1,upstream_gene_variant,,ENST00000506175,;	A	ENSG00000083896	ENST00000344157	Transcript	missense_variant	1472	1136	379	T/M	aCg/aTg	COSM1310205	.	.	-1	YTHDC1	HGNC	30626	protein_coding	YES	CCDS33992.1	ENSP00000339245	YTDC1_HUMAN	J3KS01_HUMAN	UPI000020B86D	.	deleterious(0)	probably_damaging(1)	8/17	.	Pfam_domain:PF04146,hmmpanther:PTHR12357,PROSITE_profiles:PS50882	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGCGTGGAC	.	5	BLCA
AMBN	0	.	GRCh37	4	71459051	71459051	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23T>C	p.Leu8Pro	p.L8P	ENST00000322937	2/13	99	86	13	106	105	1	AMBN,missense_variant,p.Leu8Pro,ENST00000449493,;AMBN,missense_variant,p.Leu8Pro,ENST00000322937,;	C	ENSG00000178522	ENST00000322937	Transcript	missense_variant	126	23	8	L/P	cTt/cCt	COSM1310227	.	.	1	AMBN	HGNC	452	protein_coding	YES	CCDS3543.1	ENSP00000313809	AMBN_HUMAN	Q546D7_HUMAN	UPI000000DCCB	.	deleterious_low_confidence(0.02)	probably_damaging(0.952)	2/13	.	Cleavage_site_(Signalp):SignalP-noTM,Pfam_domain:PF05111,hmmpanther:PTHR14115:SF0,hmmpanther:PTHR14115	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT	TCCACTTTTCA	.	2	BLCA
AMBN	0	.	GRCh37	4	71459067	71459067	+	Silent	SNP	C	C	T	rs751339307	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.39C>T	p.%3D	p.D13D	ENST00000322937	2/13	124	104	20	123	122	1	AMBN,synonymous_variant,p.%3D,ENST00000449493,;AMBN,synonymous_variant,p.%3D,ENST00000322937,;	T	ENSG00000178522	ENST00000322937	Transcript	synonymous_variant	142	39	13	D	gaC/gaT	rs751339307,COSM1310228	.	.	1	AMBN	HGNC	452	protein_coding	YES	CCDS3543.1	ENSP00000313809	AMBN_HUMAN	Q546D7_HUMAN	UPI000000DCCB	.	.	.	2/13	.	Cleavage_site_(Signalp):SignalP-noTM,SMART_domains:SM00817,Pfam_domain:PF05111,hmmpanther:PTHR14115:SF0,hmmpanther:PTHR14115	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AAGGACCTGAT	byFrequency	3	BLCA
FRAS1	0	.	GRCh37	4	79367924	79367924	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5900G>A	p.Arg1967Lys	p.R1967K	ENST00000264895	43/74	41	28	13	28	28	0	FRAS1,missense_variant,p.Arg196Lys,ENST00000512123,;FRAS1,missense_variant,p.Arg1967Lys,ENST00000264895,;FRAS1,downstream_gene_variant,,ENST00000510944,;FRAS1,downstream_gene_variant,,ENST00000325942,;FRAS1,upstream_gene_variant,,ENST00000509802,;	A	ENSG00000138759	ENST00000264895	Transcript	missense_variant	6340	5900	1967	R/K	aGa/aAa	COSM1310281,COSM1310280	.	.	1	FRAS1	HGNC	19185	protein_coding	YES	CCDS54771.1	ENSP00000264895	FRAS1_HUMAN	Q69YV4_HUMAN,Q4W596_HUMAN	UPI000021D4C2	.	.	benign(0.002)	43/74	.	hmmpanther:PTHR11878:SF29,hmmpanther:PTHR11878	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCAGAGTGC	.	5	BLCA
PRDM8	0	.	GRCh37	4	81123531	81123531	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915C>T	p.%3D	p.I305I	ENST00000339711	10/10	25	17	8	15	15	0	PRDM8,synonymous_variant,p.%3D,ENST00000504452,;PRDM8,synonymous_variant,p.%3D,ENST00000515013,;PRDM8,synonymous_variant,p.%3D,ENST00000339711,;PRDM8,synonymous_variant,p.%3D,ENST00000415738,;	T	ENSG00000152784	ENST00000339711	Transcript	synonymous_variant	2146	915	305	I	atC/atT	COSM3674228,COSM1310294	.	.	1	PRDM8	HGNC	13993	protein_coding	YES	CCDS43243.1	ENSP00000339764	PRDM8_HUMAN	Q05CA1_HUMAN,E9PEH0_HUMAN	UPI0000422A1D	.	.	.	10/10	.	hmmpanther:PTHR16516,hmmpanther:PTHR16516:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCATCGCCAC	.	4	BLCA
HNRNPD	0	.	GRCh37	4	83280703	83280703	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.380C>T	p.Thr127Ile	p.T127I	ENST00000313899	3/9	116	87	28	86	85	1	HNRNPD,missense_variant,p.Thr29Ile,ENST00000515432,;HNRNPD,missense_variant,p.Thr31Ile,ENST00000514671,;HNRNPD,missense_variant,p.Thr75Ile,ENST00000543098,;HNRNPD,missense_variant,p.Thr60Ile,ENST00000509263,;HNRNPD,missense_variant,p.Thr108Ile,ENST00000503822,;HNRNPD,missense_variant,p.Thr81Ile,ENST00000509107,;HNRNPD,missense_variant,p.Thr127Ile,ENST00000313899,;HNRNPD,missense_variant,p.Thr127Ile,ENST00000507010,;HNRNPD,missense_variant,p.Thr127Ile,ENST00000353341,;HNRNPD,missense_variant,p.Thr108Ile,ENST00000352301,;HNRNPD,intron_variant,,ENST00000541060,;HNRNPD,upstream_gene_variant,,ENST00000508119,;HNRNPD,intron_variant,,ENST00000513584,;HNRNPD,upstream_gene_variant,,ENST00000514325,;	A	ENSG00000138668	ENST00000313899	Transcript	missense_variant	658	380	127	T/I	aCt/aTt	COSM1310310,COSM1310311	.	.	-1	HNRNPD	HGNC	5036	protein_coding	YES	CCDS3592.1	ENSP00000313199	HNRPD_HUMAN	F5H6R6_HUMAN,D6RF44_HUMAN,D6RAF8_HUMAN	UPI0000000C3F	.	tolerated(0.14)	possibly_damaging(0.739)	3/9	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012:SF263,hmmpanther:PTHR24012,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGAGTGCAG	.	5	BLCA
SEC31A	0	.	GRCh37	4	83778203	83778203	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1783A>G	p.Met595Val	p.M595V	ENST00000395310	16/27	85	63	22	58	58	0	SEC31A,missense_variant,p.Met595Val,ENST00000448323,;SEC31A,missense_variant,p.Met556Val,ENST00000505984,;SEC31A,missense_variant,p.Met328Val,ENST00000264405,;SEC31A,missense_variant,p.Met110Val,ENST00000512664,;SEC31A,missense_variant,p.Met595Val,ENST00000311785,;SEC31A,missense_variant,p.Met556Val,ENST00000500777,;SEC31A,missense_variant,p.Met183Val,ENST00000510167,;SEC31A,missense_variant,p.Met595Val,ENST00000395310,;SEC31A,missense_variant,p.Met595Val,ENST00000509142,;SEC31A,missense_variant,p.Met595Val,ENST00000508502,;SEC31A,missense_variant,p.Met595Val,ENST00000505472,;SEC31A,missense_variant,p.Met595Val,ENST00000432794,;SEC31A,missense_variant,p.Met212Val,ENST00000507828,;SEC31A,missense_variant,p.Met556Val,ENST00000513858,;SEC31A,missense_variant,p.Met595Val,ENST00000355196,;SEC31A,missense_variant,p.Met590Val,ENST00000443462,;SEC31A,missense_variant,p.Met595Val,ENST00000508479,;SEC31A,missense_variant,p.Met556Val,ENST00000326950,;SEC31A,missense_variant,p.Met556Val,ENST00000348405,;SEC31A,non_coding_transcript_exon_variant,,ENST00000503226,;SEC31A,non_coding_transcript_exon_variant,,ENST00000512732,;	C	ENSG00000138674	ENST00000395310	Transcript	missense_variant	1966	1783	595	M/V	Atg/Gtg	COSM1310316,COSM1310317	.	.	-1	SEC31A	HGNC	17052	protein_coding	YES	CCDS3596.1	ENSP00000378721	SC31A_HUMAN	U3KQC9_HUMAN,D6REC0_HUMAN,D6REA9_HUMAN,D6RE64_HUMAN,D6RCQ9_HUMAN,D6RBT0_HUMAN	UPI000003E7E1	.	deleterious(0.01)	benign(0.349)	16/27	.	Pfam_domain:PF12931,hmmpanther:PTHR13923:SF23,hmmpanther:PTHR13923	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R594C|c.1780C>T|3,BUFFER|p.R594C|c.1780C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCATGCGGT	.	5	BLCA
HELQ	0	.	GRCh37	4	84364763	84364763	+	Silent	SNP	C	C	T	rs181780148	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1470G>A	p.%3D	p.T490T	ENST00000295488	6/18	47	32	15	25	25	0	HELQ,synonymous_variant,p.%3D,ENST00000510985,;HELQ,synonymous_variant,p.%3D,ENST00000295488,;HELQ,intron_variant,,ENST00000508591,;	T	ENSG00000163312	ENST00000295488	Transcript	synonymous_variant	1633	1470	490	T	acG/acA	rs181780148,COSM1310324	.	.	-1	HELQ	HGNC	18536	protein_coding	YES	CCDS3603.1	ENSP00000295488	HELQ_HUMAN	.	UPI000013E25F	.	.	.	6/18	.	PROSITE_profiles:PS51192,hmmpanther:PTHR11752:SF57,hmmpanther:PTHR11752,Pfam_domain:PF00270,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAGTCGTTTC	byFrequency|byCluster|by1000G	2	BLCA
WDFY3	0	.	GRCh37	4	85687004	85687004	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5147A>T	p.Gln1716Leu	p.Q1716L	ENST00000295888	32/68	108	85	23	94	94	0	WDFY3,missense_variant,p.Gln1716Leu,ENST00000295888,;WDFY3,missense_variant,p.Gln1716Leu,ENST00000322366,;	A	ENSG00000163625	ENST00000295888	Transcript	missense_variant	5555	5147	1716	Q/L	cAg/cTg	COSM1310336	.	.	-1	WDFY3	HGNC	20751	protein_coding	YES	CCDS3609.1	ENSP00000295888	WDFY3_HUMAN	D6RJE4_HUMAN,A7E1Z6_HUMAN	UPI000013E2C7	.	tolerated(0.18)	benign(0.01)	32/68	.	hmmpanther:PTHR13743:SF55,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTCTGTTCA	.	5	BLCA
SLC10A6	0	.	GRCh37	4	87770173	87770173	+	Silent	SNP	G	G	A	rs556189080	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96C>T	p.%3D	p.L32L	ENST00000273905	1/6	86	62	23	79	78	0	SLC10A6,synonymous_variant,p.%3D,ENST00000273905,;SLC10A6,non_coding_transcript_exon_variant,,ENST00000505535,;	A	ENSG00000145283	ENST00000273905	Transcript	synonymous_variant	244	96	32	L	ctC/ctT	rs556189080,COSM1310349	.	.	-1	SLC10A6	HGNC	30603	protein_coding	YES	CCDS3614.1	ENSP00000273905	SOAT_HUMAN	.	UPI00001977FD	.	.	.	1/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10361:SF4,hmmpanther:PTHR10361,TIGRFAM_domain:TIGR00841	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAACGAGCTC	by1000G	5	BLCA
FAM13A	0	.	GRCh37	4	89649913	89649913	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2946-103G>A	.	.	ENST00000264344	.	25	19	6	18	18	0	FAM13A,intron_variant,,ENST00000264344,;FAM13A,intron_variant,,ENST00000395002,;FAM13A,intron_variant,,ENST00000503556,;FAM13A,intron_variant,,ENST00000508369,;FAM13A,intron_variant,,ENST00000513837,;FAM13A,intron_variant,,ENST00000511976,;FAM13A-AS1,non_coding_transcript_exon_variant,,ENST00000500765,;FAM13A-AS1,downstream_gene_variant,,ENST00000511543,;FAM13A,downstream_gene_variant,,ENST00000506433,;FAM13A,intron_variant,,ENST00000511573,;FAM13A,intron_variant,,ENST00000509478,;FAM13A,downstream_gene_variant,,ENST00000502811,;FAM13A,downstream_gene_variant,,ENST00000511623,;FAM13A,downstream_gene_variant,,ENST00000508360,;FAM13A,downstream_gene_variant,,ENST00000504229,;FAM13A,downstream_gene_variant,,ENST00000504836,;	T	ENSG00000138640	ENST00000264344	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FAM13A	HGNC	19367	protein_coding	YES	CCDS34029.1	ENSP00000264344	FA13A_HUMAN	B4DPB4_HUMAN	UPI0000481AF3	.	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTATCAACTT	.	4	BLCA
SLC25A46	0	.	GRCh37	5	110097170	110097170	+	Silent	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945A>T	p.%3D	p.P315P	ENST00000355943	8/8	322	231	91	249	248	0	SLC25A46,synonymous_variant,p.%3D,ENST00000509442,;SLC25A46,synonymous_variant,p.%3D,ENST00000504098,;SLC25A46,synonymous_variant,p.%3D,ENST00000355943,;SLC25A46,synonymous_variant,p.%3D,ENST00000509432,;SLC25A46,synonymous_variant,p.%3D,ENST00000513807,;SLC25A46,synonymous_variant,p.%3D,ENST00000447245,;SLC25A46,non_coding_transcript_exon_variant,,ENST00000513706,;SLC25A46,downstream_gene_variant,,ENST00000508781,;SLC25A46,non_coding_transcript_exon_variant,,ENST00000502462,;	T	ENSG00000164209	ENST00000355943	Transcript	synonymous_variant	1071	945	315	P	ccA/ccT	COSM1310428	.	.	1	SLC25A46	HGNC	25198	protein_coding	YES	CCDS4100.1	ENSP00000348211	S2546_HUMAN	E7EVY2_HUMAN,B7Z6C8_HUMAN,B3KRE6_HUMAN	UPI00000711AA	.	.	.	8/8	.	PROSITE_profiles:PS50920,hmmpanther:PTHR21252,Pfam_domain:PF00153,Gene3D:1okcA00,Superfamily_domains:0048588	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCCAGAACT	.	5	BLCA
EPB41L4A	0	.	GRCh37	5	111506035	111506035	+	Missense_Mutation	SNP	C	C	T	rs761599799	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1702G>A	p.Glu568Lys	p.E568K	ENST00000261486	20/23	56	44	12	57	57	0	EPB41L4A,missense_variant,p.Glu568Lys,ENST00000261486,;CTC-459M5.1,upstream_gene_variant,,ENST00000514411,;EPB41L4A,non_coding_transcript_exon_variant,,ENST00000509342,;EPB41L4A,non_coding_transcript_exon_variant,,ENST00000507810,;EPB41L4A,non_coding_transcript_exon_variant,,ENST00000515047,;	T	ENSG00000129595	ENST00000261486	Transcript	missense_variant	1979	1702	568	E/K	Gaa/Aaa	rs761599799,COSM1310437,COSM1310438	.	.	-1	EPB41L4A	HGNC	13278	protein_coding	YES	CCDS43350.1	ENSP00000261486	E41LA_HUMAN	Q8NEH8_HUMAN	UPI000020C3F8	.	deleterious(0.01)	benign(0.273)	20/23	.	hmmpanther:PTHR23280,hmmpanther:PTHR23280:SF11	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCGGACA	.	5	BLCA
ZRSR1	0	.	GRCh37	5	112227775	112227775	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>T	p.Gln147Ter	p.Q147*	ENST00000391338	1/1	65	52	13	58	58	0	ZRSR1,stop_gained,p.Gln147Ter,ENST00000391338,;REEP5,intron_variant,,ENST00000504247,;REEP5,intron_variant,,ENST00000545426,;REEP5,intron_variant,,ENST00000261482,;REEP5,intron_variant,,ENST00000379638,;REEP5,intron_variant,,ENST00000513339,;CTC-487M23.5,upstream_gene_variant,,ENST00000602872,;CTC-487M23.8,non_coding_transcript_exon_variant,,ENST00000512790,;REEP5,intron_variant,,ENST00000474542,;CTC-487M23.8,downstream_gene_variant,,ENST00000503445,;CTC-487M23.8,3_prime_UTR_variant,,ENST00000506997,;REEP5,intron_variant,,ENST00000511865,;REEP5,intron_variant,,ENST00000497856,;CTC-487M23.8,downstream_gene_variant,,ENST00000509024,;	T	ENSG00000212643	ENST00000391338	Transcript	stop_gained	463	439	147	Q/*	Cag/Tag	.	.	.	1	ZRSR1	HGNC	12456	protein_coding	YES	.	ENSP00000375133	U2AFL_HUMAN	.	UPI0000137928	.	.	.	1/1	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12620,hmmpanther:PTHR12620:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	TGGATCAGGCT	.	2	BLCA
YTHDC2	0	.	GRCh37	5	112903525	112903525	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3223C>T	p.Gln1075Ter	p.Q1075*	ENST00000161863	23/30	131	84	46	85	83	1	YTHDC2,stop_gained,p.Gln1075Ter,ENST00000161863,;YTHDC2,non_coding_transcript_exon_variant,,ENST00000506333,;	T	ENSG00000047188	ENST00000161863	Transcript	stop_gained	3436	3223	1075	Q/*	Cag/Tag	COSM1310448	.	.	1	YTHDC2	HGNC	24721	protein_coding	YES	CCDS4113.1	ENSP00000161863	YTDC2_HUMAN	D6RA70_HUMAN	UPI0000367311	.	.	.	23/30	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF86	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTCTTCAGGAA	.	4	BLCA
FNIP1	0	.	GRCh37	5	130980457	130980457	+	Splice_Site	SNP	C	C	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3423-1G>T	.	p.X1141_splice	ENST00000510461	.	145	109	36	101	101	0	FNIP1,splice_acceptor_variant,,ENST00000307968,;FNIP1,splice_acceptor_variant,,ENST00000510461,;FNIP1,splice_acceptor_variant,,ENST00000307954,;CTC-432M15.3,intron_variant,,ENST00000514667,;	A	ENSG00000217128	ENST00000510461	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	FNIP1	HGNC	29418	protein_coding	YES	CCDS34227.1	ENSP00000421985	FNIP1_HUMAN	B3KX44_HUMAN	UPI00001AEE81	.	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATCCTGAAA	.	5	BLCA
ACSL6	0	.	GRCh37	5	131310491	131310491	+	Intron	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068+95C>A	.	.	ENST00000379264	.	34	24	10	24	24	0	ACSL6,missense_variant,p.Ser318Tyr,ENST00000543479,;ACSL6,missense_variant,p.Ser343Tyr,ENST00000296869,;ACSL6,missense_variant,p.Ser318Tyr,ENST00000379244,;ACSL6,missense_variant,p.Ser318Tyr,ENST00000379249,;ACSL6,missense_variant,p.Ser283Tyr,ENST00000434099,;ACSL6,intron_variant,,ENST00000379272,;ACSL6,intron_variant,,ENST00000379240,;ACSL6,intron_variant,,ENST00000544770,;ACSL6,intron_variant,,ENST00000379246,;ACSL6,intron_variant,,ENST00000379264,;ACSL6,intron_variant,,ENST00000431707,;ACSL6,intron_variant,,ENST00000357096,;ACSL6,intron_variant,,ENST00000379255,;ACSL6,missense_variant,p.Ser318Tyr,ENST00000413683,;ACSL6,intron_variant,,ENST00000484870,;ACSL6,upstream_gene_variant,,ENST00000493861,;	T	ENSG00000164398	ENST00000379264	Transcript	intron_variant	.	.	.	.	.	COSM1310514	.	.	-1	ACSL6	HGNC	16496	protein_coding	YES	CCDS34229.1	ENSP00000368566	ACSL6_HUMAN	G3V1S9_HUMAN,C9JPA5_HUMAN,C9JK59_HUMAN,C9J4I1_HUMAN,C9J3Z0_HUMAN,B3KV64_HUMAN	UPI00004BA928	.	.	.	.	11/20	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATAGGAAATG	.	5	BLCA
SLC22A4	0	.	GRCh37	5	131630518	131630518	+	Missense_Mutation	SNP	G	G	A	rs749095440	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209G>A	p.Arg70Gln	p.R70Q	ENST00000200652	1/10	36	23	13	49	49	0	SLC22A4,missense_variant,p.Arg70Gln,ENST00000200652,;P4HA2,intron_variant,,ENST00000431054,;P4HA2,intron_variant,,ENST00000471826,;SLC22A4,upstream_gene_variant,,ENST00000491257,;	A	ENSG00000197208	ENST00000200652	Transcript	missense_variant	383	209	70	R/Q	cGg/cAg	rs749095440,COSM1310515,COSM4169800	.	.	1	SLC22A4	HGNC	10968	protein_coding	YES	CCDS4153.1	ENSP00000200652	S22A4_HUMAN	D9N2T6_HUMAN	UPI000006DAB7	.	tolerated(0.23)	benign(0.001)	1/10	.	hmmpanther:PTHR24064:SF5,hmmpanther:PTHR24064,TIGRFAM_domain:TIGR00898	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCTGCGGCTGC	byFrequency	2	BLCA
GDF9	0	.	GRCh37	5	132197956	132197956	+	Silent	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.690T>C	p.%3D	p.S230S	ENST00000378673	3/3	94	63	31	89	88	1	GDF9,synonymous_variant,p.%3D,ENST00000296875,;GDF9,synonymous_variant,p.%3D,ENST00000378673,;UQCRQ,upstream_gene_variant,,ENST00000378667,;UQCRQ,upstream_gene_variant,,ENST00000378670,;UQCRQ,upstream_gene_variant,,ENST00000378665,;GDF9,downstream_gene_variant,,ENST00000472320,;UQCRQ,upstream_gene_variant,,ENST00000496429,;GDF9,downstream_gene_variant,,ENST00000464378,;UQCRQ,upstream_gene_variant,,ENST00000480372,;UQCRQ,upstream_gene_variant,,ENST00000498309,;	G	ENSG00000164404	ENST00000378673	Transcript	synonymous_variant	1557	690	230	S	agT/agC	COSM1310532	.	.	-1	GDF9	HGNC	4224	protein_coding	YES	CCDS4162.1	ENSP00000367942	GDF9_HUMAN	B4DXG3_HUMAN	UPI000012B396	.	.	.	3/3	.	hmmpanther:PTHR11848,hmmpanther:PTHR11848:SF19	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGAATACTTCT	.	4	BLCA
AFF4	0	.	GRCh37	5	132223808	132223808	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2777A>T	p.Lys926Met	p.K926M	ENST00000265343	15/21	56	42	14	36	36	0	AFF4,missense_variant,p.Lys926Met,ENST00000265343,;AFF4,downstream_gene_variant,,ENST00000378595,;	A	ENSG00000072364	ENST00000265343	Transcript	missense_variant	3157	2777	926	K/M	aAg/aTg	COSM1310537	.	.	-1	AFF4	HGNC	17869	protein_coding	YES	CCDS4164.1	ENSP00000265343	AFF4_HUMAN	C9JCE0_HUMAN	UPI000006F558	.	deleterious(0)	probably_damaging(0.997)	15/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10528:SF15,hmmpanther:PTHR10528,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGCTTTAGC	.	5	BLCA
C5orf15	0	.	GRCh37	5	133295523	133295523	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328C>T	p.Pro110Ser	p.P110S	ENST00000231512	2/3	44	35	9	52	51	1	C5orf15,missense_variant,p.Pro110Ser,ENST00000231512,;C5orf15,non_coding_transcript_exon_variant,,ENST00000507191,;C5orf15,non_coding_transcript_exon_variant,,ENST00000509913,;	A	ENSG00000113583	ENST00000231512	Transcript	missense_variant	531	328	110	P/S	Cct/Tct	COSM1310542	.	.	-1	C5orf15	HGNC	20656	protein_coding	YES	CCDS4167.1	ENSP00000231512	KCT2_HUMAN	.	UPI000003778A	.	tolerated(0.67)	benign(0.001)	2/3	.	hmmpanther:PTHR16502,hmmpanther:PTHR16502:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CAGAGGAGTAG	.	4	BLCA
CDC25C	0	.	GRCh37	5	137622194	137622194	+	Silent	SNP	G	G	A	rs763697905	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152C>T	p.%3D	p.G384G	ENST00000323760	12/14	154	110	43	143	143	0	CDC25C,synonymous_variant,p.%3D,ENST00000513970,;CDC25C,synonymous_variant,p.%3D,ENST00000356505,;CDC25C,synonymous_variant,p.%3D,ENST00000323760,;CDC25C,synonymous_variant,p.%3D,ENST00000357274,;CDC25C,synonymous_variant,p.%3D,ENST00000415130,;CDC25C,synonymous_variant,p.%3D,ENST00000348983,;CDC25C,synonymous_variant,p.%3D,ENST00000514555,;CDC25C,synonymous_variant,p.%3D,ENST00000514017,;	A	ENSG00000158402	ENST00000323760	Transcript	synonymous_variant	1431	1152	384	G	ggC/ggT	rs763697905,COSM1310572	.	.	-1	CDC25C	HGNC	1727	protein_coding	YES	CCDS4202.1	ENSP00000321656	MPIP3_HUMAN	D6RJC2_HUMAN	UPI000013E3D2	.	.	.	12/14	.	PROSITE_profiles:PS50206,hmmpanther:PTHR10828,hmmpanther:PTHR10828:SF28,Pfam_domain:PF00581,Gene3D:3.40.250.10,SMART_domains:SM00450,Superfamily_domains:SSF52821,Prints_domain:PR00716	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGGGGCCCCT	.	5	BLCA
PCDHA6	0	.	GRCh37	5	140209996	140209996	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2320C>T	p.Pro774Ser	p.P774S	ENST00000529310	1/4	121	82	39	93	92	1	PCDHA6,missense_variant,p.Pro774Ser,ENST00000529310,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA7,upstream_gene_variant,,ENST00000378125,;PCDHA7,upstream_gene_variant,,ENST00000525929,;	T	ENSG00000081842	ENST00000529310	Transcript	missense_variant	2434	2320	774	P/S	Ccc/Tcc	COSM1310637,COSM1310636	.	.	1	PCDHA6	HGNC	8672	protein_coding	YES	CCDS47281.1	ENSP00000433378	PCDA6_HUMAN	.	UPI00001273CE	.	deleterious_low_confidence(0)	probably_damaging(0.998)	1/4	.	hmmpanther:PTHR24028:SF83,hmmpanther:PTHR24028	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTAGCCCCAGC	.	5	BLCA
SLC36A2	0	.	GRCh37	5	150701700	150701700	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1087G>A	p.Glu363Lys	p.E363K	ENST00000335244	9/10	93	68	25	68	68	0	SLC36A2,missense_variant,p.Glu87Lys,ENST00000450886,;SLC36A2,missense_variant,p.Glu363Lys,ENST00000521967,;SLC36A2,missense_variant,p.Glu363Lys,ENST00000335244,;SLC36A2,downstream_gene_variant,,ENST00000523044,;SLC36A2,3_prime_UTR_variant,,ENST00000518280,;SLC36A2,3_prime_UTR_variant,,ENST00000518617,;CTC-224D3.1,downstream_gene_variant,,ENST00000604421,;	T	ENSG00000186335	ENST00000335244	Transcript	missense_variant	1217	1087	363	E/K	Gaa/Aaa	COSM1310865	.	.	-1	SLC36A2	HGNC	18762	protein_coding	YES	CCDS4315.1	ENSP00000334223	S36A2_HUMAN	E5RGH8_HUMAN	UPI000020D008	.	deleterious(0.04)	possibly_damaging(0.517)	9/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22950:SF185,hmmpanther:PTHR22950,Pfam_domain:PF01490	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTTCTGCAG	.	5	BLCA
FAT2	0	.	GRCh37	5	150931089	150931089	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4235G>A	p.Arg1412Lys	p.R1412K	ENST00000261800	6/23	99	65	33	81	81	0	FAT2,missense_variant,p.Arg1412Lys,ENST00000261800,;	T	ENSG00000086570	ENST00000261800	Transcript	missense_variant	4248	4235	1412	R/K	aGa/aAa	COSM1310871	.	.	-1	FAT2	HGNC	3596	protein_coding	YES	CCDS4317.1	ENSP00000261800	FAT2_HUMAN	.	UPI0000055B22	.	.	benign(0.009)	6/23	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF37,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTCCTG	.	5	BLCA
PTTG1	0	.	GRCh37	5	159849713	159849715	+	Splice_Site	DEL	CAG	CAG	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CAG	CAG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.92-1_93delGCA	.	p.X31_splice	ENST00000393964	.	104	81	23	85	85	0	PTTG1,splice_acceptor_variant,,ENST00000520452,;PTTG1,splice_acceptor_variant,,ENST00000352433,;PTTG1,splice_acceptor_variant,,ENST00000393964,;PTTG1,inframe_deletion,p.Ala41del,ENST00000517480,;SLU7,upstream_gene_variant,,ENST00000520664,;SLU7,upstream_gene_variant,,ENST00000519349,;SLU7,upstream_gene_variant,,ENST00000521826,;SLU7,upstream_gene_variant,,ENST00000297151,;PTTG1,splice_acceptor_variant,,ENST00000519287,;PTTG1,splice_acceptor_variant,,ENST00000523659,;PTTG1,splice_acceptor_variant,,ENST00000524244,;SLU7,upstream_gene_variant,,ENST00000518268,;SLU7,upstream_gene_variant,,ENST00000521190,;	-	ENSG00000164611	ENST00000393964	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	PTTG1	HGNC	9690	protein_coding	YES	CCDS4353.1	ENSP00000377536	PTTG1_HUMAN	Q6IAL9_HUMAN,Q2VPE7_HUMAN,C4TNW4_HUMAN	UPI0000044DCB	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTCTTCAGCAATC	.	3	BLCA
CREBRF	0	.	GRCh37	5	172518250	172518250	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068A>T	p.Glu356Asp	p.E356D	ENST00000296953	4/9	34	24	10	34	34	0	CREBRF,missense_variant,p.Glu356Asp,ENST00000520420,;CREBRF,missense_variant,p.Glu356Asp,ENST00000540014,;CREBRF,missense_variant,p.Glu356Asp,ENST00000522692,;CREBRF,missense_variant,p.Glu356Asp,ENST00000296953,;CREBRF,downstream_gene_variant,,ENST00000523161,;CREBRF,non_coding_transcript_exon_variant,,ENST00000520464,;	T	ENSG00000164463	ENST00000296953	Transcript	missense_variant	1387	1068	356	E/D	gaA/gaT	COSM1310971	.	.	1	CREBRF	HGNC	24050	protein_coding	YES	CCDS34293.1	ENSP00000296953	CRERF_HUMAN	E5RI19_HUMAN,B3KV47_HUMAN	UPI000049E01D	.	tolerated(0.11)	benign(0.001)	4/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21552	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGAAGATGA	.	5	BLCA
PDZD2	0	.	GRCh37	5	32059441	32059441	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2297C>A	p.Ala766Asp	p.A766D	ENST00000438447	13/25	65	47	18	60	60	0	PDZD2,missense_variant,p.Ala766Asp,ENST00000438447,;PDZD2,missense_variant,p.Ala766Asp,ENST00000282493,;PDZD2,non_coding_transcript_exon_variant,,ENST00000513184,;PDZD2,non_coding_transcript_exon_variant,,ENST00000502489,;PDZD2,downstream_gene_variant,,ENST00000509256,;	A	ENSG00000133401	ENST00000438447	Transcript	missense_variant	2685	2297	766	A/D	gCc/gAc	COSM1311095	.	.	1	PDZD2	HGNC	18486	protein_coding	YES	CCDS34137.1	ENSP00000402033	PDZD2_HUMAN	B4DGS3_HUMAN	UPI000069648B	.	deleterious(0)	probably_damaging(1)	13/25	.	PROSITE_profiles:PS50106,hmmpanther:PTHR11324:SF16,hmmpanther:PTHR11324,Gene3D:2.30.42.10,Pfam_domain:PF00595,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTGGCCAAGA	.	5	BLCA
MTMR12	0	.	GRCh37	5	32276767	32276787	+	Splice_Site	DEL	CTATGCTAACATGACAGTTAC	CTATGCTAACATGACAGTTAC	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CTATGCTAACATGACAGTTAC	CTATGCTAACATGACAGTTAC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.142+1_142+21delGTAACTGTCATGTTAGCATAG	.	p.X48_splice	ENST00000382142	.	58	49	9	48	48	0	MTMR12,splice_donor_variant,,ENST00000382142,;MTMR12,splice_donor_variant,,ENST00000264934,;MTMR12,splice_donor_variant,,ENST00000280285,;MTMR12,splice_donor_variant,,ENST00000513622,;MTMR12,intron_variant,,ENST00000505419,;	-	ENSG00000150712	ENST00000382142	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	MTMR12	HGNC	18191	protein_coding	YES	CCDS34138.1	ENSP00000371577	MTMRC_HUMAN	.	UPI00001678D2	.	.	.	.	2/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GAGTTACTATGCTAACATGACAGTTACCTGGC	.	2	BLCA
RAI14	0	.	GRCh37	5	34821857	34821857	+	Missense_Mutation	SNP	A	A	G	rs755427930	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1024A>G	p.Ile342Val	p.I342V	ENST00000515799	16/20	132	109	23	116	115	1	RAI14,missense_variant,p.Ile331Val,ENST00000506376,;RAI14,missense_variant,p.Ile339Val,ENST00000265109,;RAI14,missense_variant,p.Ile332Val,ENST00000397449,;RAI14,missense_variant,p.Ile342Val,ENST00000515799,;RAI14,missense_variant,p.Ile339Val,ENST00000428746,;RAI14,missense_variant,p.Ile310Val,ENST00000512629,;RAI14,missense_variant,p.Ile339Val,ENST00000503673,;RAI14,3_prime_UTR_variant,,ENST00000508777,;RAI14,upstream_gene_variant,,ENST00000513772,;RAI14,upstream_gene_variant,,ENST00000507883,;	G	ENSG00000039560	ENST00000515799	Transcript	missense_variant	1516	1024	342	I/V	Ata/Gta	rs755427930,COSM1311114	.	.	1	RAI14	HGNC	14873	protein_coding	YES	CCDS54839.1	ENSP00000427123	RAI14_HUMAN	B3KMZ9_HUMAN	UPI00001B296B	.	tolerated(1)	benign(0.002)	16/20	.	hmmpanther:PTHR24129	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATATAAGT	.	5	BLCA
NIPBL	0	.	GRCh37	5	37059268	37059268	+	Splice_Site	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7685+1G>A	.	p.X2562_splice	ENST00000282516	.	99	81	18	83	83	0	NIPBL,splice_donor_variant,,ENST00000448238,;NIPBL,splice_donor_variant,,ENST00000282516,;NIPBL,splice_donor_variant,,ENST00000513819,;NIPBL,splice_donor_variant,,ENST00000514335,;	A	ENSG00000164190	ENST00000282516	Transcript	splice_donor_variant	.	.	.	.	.	COSM1311128,COSM1311129	.	.	1	NIPBL	HGNC	28862	protein_coding	YES	CCDS3920.1	ENSP00000282516	NIPBL_HUMAN	A2RRA7_HUMAN	UPI00003761B5	.	.	.	.	44/46	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATAGGTAAGG	.	4	BLCA
C9	0	.	GRCh37	5	39341658	39341658	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>A	p.Gly110Ser	p.G110S	ENST00000263408	3/11	117	94	23	95	95	0	C9,missense_variant,p.Gly110Ser,ENST00000263408,;C9,splice_region_variant,,ENST00000509186,;C9,splice_region_variant,,ENST00000483232,;C9,splice_region_variant,,ENST00000467285,;	T	ENSG00000113600	ENST00000263408	Transcript	missense_variant	424	328	110	G/S	Ggc/Agc	COSM1311145	.	.	-1	C9	HGNC	1358	protein_coding	YES	CCDS3929.1	ENSP00000263408	CO9_HUMAN	Q9UGI4_HUMAN	UPI0000001065	.	deleterious(0)	probably_damaging(0.999)	3/11	.	Prints_domain:PR00764,Superfamily_domains:SSF57424,Superfamily_domains:SSF57184,SMART_domains:SM00192,Pfam_domain:PF00057,Gene3D:4.10.400.10,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF333,PROSITE_profiles:PS50068	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTACCTGTAC	.	5	BLCA
MROH2B	0	.	GRCh37	5	41009477	41009477	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3325G>A	p.Glu1109Lys	p.E1109K	ENST00000399564	32/42	177	127	50	143	142	1	MROH2B,missense_variant,p.Glu664Lys,ENST00000506092,;MROH2B,missense_variant,p.Glu1109Lys,ENST00000399564,;MROH2B,non_coding_transcript_exon_variant,,ENST00000515297,;MROH2B,non_coding_transcript_exon_variant,,ENST00000503890,;	T	ENSG00000171495	ENST00000399564	Transcript	missense_variant	3776	3325	1109	E/K	Gaa/Aaa	COSM1311154,COSM3828078	.	.	-1	MROH2B	HGNC	26857	protein_coding	YES	CCDS47202.1	ENSP00000382476	MRO2B_HUMAN	F5GZ06_HUMAN	UPI000020CA04	.	tolerated(0.25)	benign(0.064)	32/42	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF15,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTTCAGCCA	.	4	BLCA
PARP8	0	.	GRCh37	5	50090057	50090057	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.754G>A	p.Val252Ile	p.V252I	ENST00000281631	11/26	62	49	13	59	59	0	PARP8,missense_variant,p.Val252Ile,ENST00000503750,;PARP8,missense_variant,p.Val252Ile,ENST00000514067,;PARP8,missense_variant,p.Val5Ile,ENST00000514342,;PARP8,missense_variant,p.Val252Ile,ENST00000505697,;PARP8,missense_variant,p.Val252Ile,ENST00000281631,;PARP8,missense_variant,p.Val231Ile,ENST00000505554,;PARP8,non_coding_transcript_exon_variant,,ENST00000511363,;PARP8,non_coding_transcript_exon_variant,,ENST00000503561,;PARP8,synonymous_variant,p.%3D,ENST00000515166,;	A	ENSG00000151883	ENST00000281631	Transcript	missense_variant	912	754	252	V/I	Gtt/Att	COSM1311179	.	.	1	PARP8	HGNC	26124	protein_coding	YES	CCDS3954.1	ENSP00000281631	PARP8_HUMAN	D6RGZ9_HUMAN	UPI0000073D19	.	tolerated(0.62)	benign(0.016)	11/26	.	hmmpanther:PTHR21328,hmmpanther:PTHR21328:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTGTTACA	.	5	BLCA
PELO	0	.	GRCh37	5	52096179	52096179	+	5'UTR	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-50G>A	.	.	ENST00000274311	2/3	36	27	8	37	37	0	PELO,5_prime_UTR_variant,,ENST00000274311,;ITGA1,intron_variant,,ENST00000282588,;PELO,intron_variant,,ENST00000506949,;ITGA1,intron_variant,,ENST00000504086,;	A	ENSG00000152684	ENST00000274311	Transcript	5_prime_UTR_variant	936	.	.	.	.	.	.	.	1	PELO	HGNC	8829	protein_coding	YES	CCDS3956.1	ENSP00000274311	PELO_HUMAN	.	UPI000013D9FE	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGTGAGGAC	.	2	BLCA
MOCS2	0	.	GRCh37	5	52394348	52394348	+	3'UTR	SNP	T	T	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*84A>G	.	.	ENST00000396954	7/7	19	13	6	10	10	0	MOCS2,3_prime_UTR_variant,,ENST00000450852,;MOCS2,3_prime_UTR_variant,,ENST00000510818,;MOCS2,3_prime_UTR_variant,,ENST00000361377,;MOCS2,3_prime_UTR_variant,,ENST00000508922,;MOCS2,3_prime_UTR_variant,,ENST00000396954,;MOCS2,3_prime_UTR_variant,,ENST00000582677,;ITGA2,downstream_gene_variant,,ENST00000296585,;MOCS2,downstream_gene_variant,,ENST00000584946,;MOCS2,downstream_gene_variant,,ENST00000527216,;MOCS2,non_coding_transcript_exon_variant,,ENST00000502402,;MOCS2,downstream_gene_variant,,ENST00000514553,;	C	ENSG00000164172	ENST00000396954	Transcript	3_prime_UTR_variant	1329	.	.	.	.	.	.	.	-1	MOCS2	HGNC	7193	protein_coding	YES	CCDS3958.1	ENSP00000380157	MOC2B_HUMAN	.	UPI000000DB29	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TATCCTGATGT	.	4	BLCA
MOCS2	0	.	GRCh37	5	52394398	52394398	+	3'UTR	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*34T>C	.	.	ENST00000396954	7/7	43	28	15	30	30	0	MOCS2,3_prime_UTR_variant,,ENST00000450852,;MOCS2,3_prime_UTR_variant,,ENST00000510818,;MOCS2,3_prime_UTR_variant,,ENST00000361377,;MOCS2,3_prime_UTR_variant,,ENST00000584946,;MOCS2,3_prime_UTR_variant,,ENST00000508922,;MOCS2,3_prime_UTR_variant,,ENST00000396954,;MOCS2,3_prime_UTR_variant,,ENST00000582677,;ITGA2,downstream_gene_variant,,ENST00000296585,;MOCS2,downstream_gene_variant,,ENST00000527216,;MOCS2,non_coding_transcript_exon_variant,,ENST00000502402,;MOCS2,downstream_gene_variant,,ENST00000514553,;	G	ENSG00000164172	ENST00000396954	Transcript	3_prime_UTR_variant	1279	.	.	.	.	.	.	.	-1	MOCS2	HGNC	7193	protein_coding	YES	CCDS3958.1	ENSP00000380157	MOC2B_HUMAN	.	UPI000000DB29	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACAAAGTTA	.	5	BLCA
CDC20B	0	.	GRCh37	5	54436170	54436170	+	Silent	SNP	G	G	C	rs750071702	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>G	p.%3D	p.L184L	ENST00000381375	5/12	60	41	19	50	50	0	CDC20B,synonymous_variant,p.%3D,ENST00000296733,;CDC20B,synonymous_variant,p.%3D,ENST00000331730,;CDC20B,synonymous_variant,p.%3D,ENST00000322374,;CDC20B,synonymous_variant,p.%3D,ENST00000334206,;CDC20B,synonymous_variant,p.%3D,ENST00000381375,;CDC20B,synonymous_variant,p.%3D,ENST00000513180,;CDC20B,synonymous_variant,p.%3D,ENST00000507931,;	C	ENSG00000164287	ENST00000381375	Transcript	synonymous_variant	698	552	184	L	ctC/ctG	rs750071702,COSM449758	.	.	-1	CDC20B	HGNC	24222	protein_coding	YES	CCDS54852.1	ENSP00000370781	CD20B_HUMAN	.	UPI0000D61625	.	.	.	5/12	.	hmmpanther:PTHR19918:SF4,hmmpanther:PTHR19918	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACAGAGCTG	.	5	BLCA
ARSB	0	.	GRCh37	5	78280775	78280775	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297C>T	p.%3D	p.L99L	ENST00000264914	1/8	15	10	5	17	17	0	ARSB,synonymous_variant,p.%3D,ENST00000264914,;ARSB,synonymous_variant,p.%3D,ENST00000396151,;ARSB,synonymous_variant,p.%3D,ENST00000565165,;ARSB,downstream_gene_variant,,ENST00000521117,;	A	ENSG00000113273	ENST00000264914	Transcript	synonymous_variant	834	297	99	L	ctC/ctT	COSM1311336	.	.	-1	ARSB	HGNC	714	protein_coding	YES	CCDS4043.1	ENSP00000264914	ARSB_HUMAN	E5RHC4_HUMAN	UPI00001260A3	.	.	.	1/8	.	hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF206,PROSITE_patterns:PS00523,Gene3D:3.40.720.10,Pfam_domain:PF00884,Superfamily_domains:SSF53649	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|VARSCANS	CCAGTGAGCAG	.	3	BLCA
BHMT	0	.	GRCh37	5	78407658	78407658	+	5'UTR	SNP	T	T	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-51T>C	.	.	ENST00000274353	1/8	22	15	6	18	18	0	BHMT,5_prime_UTR_variant,,ENST00000274353,;BHMT,5_prime_UTR_variant,,ENST00000524080,;DMGDH,intron_variant,,ENST00000520388,;BHMT,non_coding_transcript_exon_variant,,ENST00000520703,;BHMT,non_coding_transcript_exon_variant,,ENST00000520335,;	C	ENSG00000145692	ENST00000274353	Transcript	5_prime_UTR_variant	57	.	.	.	.	.	.	.	1	BHMT	HGNC	1047	protein_coding	YES	CCDS4046.1	ENSP00000274353	BHMT1_HUMAN	.	UPI000006D864	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGCTCGCCT	.	5	BLCA
FASTKD3	0	.	GRCh37	5	7867567	7867567	+	Silent	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630A>G	p.%3D	p.K210K	ENST00000264669	2/7	148	102	45	129	129	0	FASTKD3,synonymous_variant,p.%3D,ENST00000504695,;FASTKD3,synonymous_variant,p.%3D,ENST00000264669,;MTRR,upstream_gene_variant,,ENST00000514220,;MTRR,upstream_gene_variant,,ENST00000440940,;MTRR,upstream_gene_variant,,ENST00000341013,;MTRR,upstream_gene_variant,,ENST00000502550,;FASTKD3,downstream_gene_variant,,ENST00000507572,;MTRR,upstream_gene_variant,,ENST00000506877,;MTRR,upstream_gene_variant,,ENST00000512217,;MTRR,upstream_gene_variant,,ENST00000264668,;FASTKD3,intron_variant,,ENST00000513658,;FASTKD3,intron_variant,,ENST00000282110,;MTRR,intron_variant,,ENST00000502509,;FASTKD3,synonymous_variant,p.%3D,ENST00000507036,;FASTKD3,intron_variant,,ENST00000511261,;MTRR,upstream_gene_variant,,ENST00000514369,;MTRR,upstream_gene_variant,,ENST00000510525,;MTRR,upstream_gene_variant,,ENST00000503550,;MTRR,upstream_gene_variant,,ENST00000508047,;MTRR,upstream_gene_variant,,ENST00000510279,;MTRR,upstream_gene_variant,,ENST00000513439,;FASTKD3,upstream_gene_variant,,ENST00000513577,;MTRR,upstream_gene_variant,,ENST00000511461,;	C	ENSG00000124279	ENST00000264669	Transcript	synonymous_variant	767	630	210	K	aaA/aaG	COSM1311341	.	.	-1	FASTKD3	HGNC	28758	protein_coding	YES	CCDS3873.1	ENSP00000264669	FAKD3_HUMAN	D6RHY4_HUMAN,D6RC07_HUMAN	UPI000020BF43	.	.	.	2/7	.	hmmpanther:PTHR21228,hmmpanther:PTHR21228:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACCTTTTCT	.	5	BLCA
ZFYVE16	0	.	GRCh37	5	79733327	79733327	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.823G>T	p.Val275Phe	p.V275F	ENST00000338008	3/18	120	88	32	111	111	0	ZFYVE16,missense_variant,p.Val275Phe,ENST00000338008,;ZFYVE16,missense_variant,p.Val275Phe,ENST00000505560,;ZFYVE16,missense_variant,p.Val275Phe,ENST00000510158,;ZFYVE16,upstream_gene_variant,,ENST00000511050,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000510995,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000512558,;ZFYVE16,downstream_gene_variant,,ENST00000509562,;	T	ENSG00000039319	ENST00000338008	Transcript	missense_variant	1003	823	275	V/F	Gtt/Ttt	COSM1311350	.	.	1	ZFYVE16	HGNC	20756	protein_coding	YES	CCDS4050.1	ENSP00000337159	ZFY16_HUMAN	B3KXA7_HUMAN	UPI000013F4A0	.	deleterious(0.05)	benign(0.05)	3/18	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF43,PIRSF_domain:PIRSF037289	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATGTTGGC	.	5	BLCA
GPR98	0	.	GRCh37	5	90086879	90086879	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14233C>A	p.Leu4745Met	p.L4745M	ENST00000405460	70/90	86	61	25	65	65	0	GPR98,missense_variant,p.Leu4745Met,ENST00000405460,;GPR98,missense_variant,p.Leu406Met,ENST00000425867,;GPR98,upstream_gene_variant,,ENST00000507314,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	14329	14233	4745	L/M	Ctg/Atg	COSM1311382	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	benign(0.084)	70/90	.	Superfamily_domains:SSF141072,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATCTGGAG	.	5	BLCA
MCTP1	0	.	GRCh37	5	94245027	94245027	+	Silent	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1581A>G	p.%3D	p.E527E	ENST00000515393	10/23	93	74	18	56	56	0	MCTP1,synonymous_variant,p.%3D,ENST00000505208,;MCTP1,synonymous_variant,p.%3D,ENST00000515393,;MCTP1,synonymous_variant,p.%3D,ENST00000512425,;MCTP1,synonymous_variant,p.%3D,ENST00000506568,;MCTP1,synonymous_variant,p.%3D,ENST00000503301,;MCTP1,synonymous_variant,p.%3D,ENST00000429576,;MCTP1,synonymous_variant,p.%3D,ENST00000312216,;MCTP1,synonymous_variant,p.%3D,ENST00000508509,;MCTP1,synonymous_variant,p.%3D,ENST00000505078,;MCTP1,downstream_gene_variant,,ENST00000507214,;	C	ENSG00000175471	ENST00000515393	Transcript	synonymous_variant	1581	1581	527	E	gaA/gaG	COSM1311399	.	.	-1	MCTP1	HGNC	26183	protein_coding	YES	CCDS34203.1	ENSP00000424126	MCTP1_HUMAN	E5RJR1_HUMAN	UPI0000D6165C	.	.	.	10/23	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,Pfam_domain:PF00168,hmmpanther:PTHR16122:SF19,hmmpanther:PTHR16122,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTCTTCATA	.	5	BLCA
CHD1	0	.	GRCh37	5	98240643	98240643	+	Missense_Mutation	SNP	T	T	G	rs780200337	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213A>C	p.Glu71Asp	p.E71D	ENST00000284049	2/35	174	105	69	149	149	0	CHD1,missense_variant,p.Glu71Asp,ENST00000284049,;	G	ENSG00000153922	ENST00000284049	Transcript	missense_variant	363	213	71	E/D	gaA/gaC	rs780200337,COSM1311414	.	.	-1	CHD1	HGNC	1915	protein_coding	YES	CCDS34204.1	ENSP00000284049	CHD1_HUMAN	.	UPI000013DD75	.	tolerated_low_confidence(0.16)	benign(0.018)	2/35	.	hmmpanther:PTHR10799:SF535,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTTTCTCG	.	5	BLCA
AK9	0	.	GRCh37	6	109850208	109850208	+	Intron	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3633+6T>C	.	.	ENST00000424296	.	50	26	23	43	43	0	AK9,synonymous_variant,p.%3D,ENST00000355283,;AK9,splice_region_variant,,ENST00000341338,;AK9,splice_region_variant,,ENST00000424296,;AK9,splice_region_variant,,ENST00000470564,;AK9,splice_region_variant,,ENST00000491875,;	G	ENSG00000155085	ENST00000424296	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	AK9	HGNC	33814	protein_coding	YES	CCDS55048.1	ENSP00000410186	KAD9_HUMAN	E9PPU7_HUMAN,E9PPM3_HUMAN	UPI0001A48FC8	.	.	.	.	29/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V295delV|c.883_885delGTT|10	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACTACTTAC	.	5	BLCA
OR2A4	0	.	GRCh37	6	132021851	132021851	+	Missense_Mutation	SNP	C	C	T	rs768638353	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.691G>A	p.Glu231Lys	p.E231K	ENST00000315453	1/1	140	102	38	144	143	1	OR2A4,missense_variant,p.Glu231Lys,ENST00000315453,;ENPP3,intron_variant,,ENST00000358229,;ENPP3,intron_variant,,ENST00000357639,;ENPP3,intron_variant,,ENST00000414305,;	T	ENSG00000180658	ENST00000315453	Transcript	missense_variant	785	691	231	E/K	Gaa/Aaa	rs768638353,COSM1311562	.	.	-1	OR2A4	HGNC	14729	protein_coding	YES	CCDS5149.1	ENSP00000319546	OR2A4_HUMAN	.	UPI000003F21F	.	deleterious(0.04)	benign(0.289)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF135,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTTCCCTTG	.	5	BLCA
ECT2L	0	.	GRCh37	6	139164270	139164270	+	Missense_Mutation	SNP	C	C	T	rs568016767	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.497C>T	p.Thr166Met	p.T166M	ENST00000423192	5/21	96	55	41	114	113	1	ECT2L,missense_variant,p.Thr166Met,ENST00000367682,;ECT2L,missense_variant,p.Thr97Met,ENST00000541398,;ECT2L,missense_variant,p.Thr166Met,ENST00000423192,;ECT2L,downstream_gene_variant,,ENST00000401414,;	T	ENSG00000203734	ENST00000423192	Transcript	missense_variant	658	497	166	T/M	aCg/aTg	rs568016767,COSM1311613	.	.	1	ECT2L	HGNC	21118	protein_coding	YES	CCDS43508.1	ENSP00000387388	ECT2L_HUMAN	B7ZBI6_HUMAN	UPI0000E86804	.	deleterious(0)	probably_damaging(0.983)	5/21	.	hmmpanther:PTHR12673:SF70,hmmpanther:PTHR12673	T:0.0006	T:0	T:0	.	T:0.002	T:0	T:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGACGCTGA	byFrequency|by1000G	5	BLCA
CCDC170	0	.	GRCh37	6	151857488	151857488	+	Silent	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93G>T	p.%3D	p.T31T	ENST00000239374	2/11	60	35	25	72	72	0	CCDC170,synonymous_variant,p.%3D,ENST00000239374,;CCDC170,synonymous_variant,p.%3D,ENST00000367290,;CCDC170,non_coding_transcript_exon_variant,,ENST00000544131,;	T	ENSG00000120262	ENST00000239374	Transcript	synonymous_variant	192	93	31	T	acG/acT	COSM1311673	.	.	1	CCDC170	HGNC	21177	protein_coding	YES	CCDS43515.1	ENSP00000239374	CC170_HUMAN	.	UPI000020D0BA	.	.	.	2/11	.	hmmpanther:PTHR18863,hmmpanther:PTHR18863:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCACGCGGGA	.	5	BLCA
DTNBP1	0	.	GRCh37	6	15524685	15524685	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811+72G>A	.	.	ENST00000344537	.	303	216	86	261	259	2	DTNBP1,missense_variant,p.Glu295Lys,ENST00000338950,;DTNBP1,intron_variant,,ENST00000462989,;DTNBP1,intron_variant,,ENST00000344537,;DTNBP1,intron_variant,,ENST00000355917,;DTNBP1,intron_variant,,ENST00000509674,;JARID2,downstream_gene_variant,,ENST00000397311,;DTNBP1,downstream_gene_variant,,ENST00000511762,;JARID2,downstream_gene_variant,,ENST00000341776,;DTNBP1,3_prime_UTR_variant,,ENST00000506844,;DTNBP1,non_coding_transcript_exon_variant,,ENST00000514651,;DTNBP1,intron_variant,,ENST00000515875,;DTNBP1,intron_variant,,ENST00000510395,;DTNBP1,intron_variant,,ENST00000513680,;	T	ENSG00000047579	ENST00000344537	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DTNBP1	HGNC	17328	protein_coding	YES	CCDS4534.1	ENSP00000341680	DTBP1_HUMAN	D6RAR7_HUMAN	UPI000006F968	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GTTCTCACGTC	.	3	BLCA
LPA	0	.	GRCh37	6	160953592	160953592	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5932C>G	p.His1978Asp	p.H1978D	ENST00000447678	39/40	68	46	22	61	61	0	LPA,missense_variant,p.His1978Asp,ENST00000316300,;LPA,missense_variant,p.His1978Asp,ENST00000447678,;	C	ENSG00000198670	ENST00000447678	Transcript	missense_variant	6053	5932	1978	H/D	Cat/Gat	COSM1311791,COSM3860154	.	.	-1	LPA	HGNC	6667	protein_coding	YES	CCDS43523.1	ENSP00000395608	APOA_HUMAN	Q9UKJ7_HUMAN,Q9UIR8_HUMAN,Q9UIR6_HUMAN,Q9UIR5_HUMAN	UPI0000458AC9	.	tolerated(0.24)	benign(0.107)	39/40	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24261,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAATGCTCAG	.	5	BLCA
HIST1H4C	0	.	GRCh37	6	26104492	26104492	+	3'UTR	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5A>G	.	.	ENST00000377803	1/1	68	26	41	55	55	0	HIST1H4C,3_prime_UTR_variant,,ENST00000377803,;HIST1H1T,downstream_gene_variant,,ENST00000338379,;	G	ENSG00000197061	ENST00000377803	Transcript	3_prime_UTR_variant	389	.	.	.	.	.	.	.	1	HIST1H4C	HGNC	4787	protein_coding	YES	CCDS4583.1	ENSP00000367034	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AATCTAAGAAT	.	4	BLCA
OR2J3	0	.	GRCh37	6	29080151	29080151	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484C>A	p.His162Asn	p.H162N	ENST00000377169	1/1	303	147	156	232	230	1	OR2J3,missense_variant,p.His162Asn,ENST00000377169,;	A	ENSG00000204701	ENST00000377169	Transcript	missense_variant	484	484	162	H/N	Cat/Aat	COSM1311929	.	.	1	OR2J3	HGNC	8261	protein_coding	YES	CCDS43433.1	ENSP00000366374	OR2J3_HUMAN	.	UPI000014073A	.	deleterious(0.01)	possibly_damaging(0.465)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF209,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CACTTCATTCC	.	3	BLCA
RPL10A	0	.	GRCh37	6	35436849	35436849	+	Intron	SNP	T	T	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.161+45T>G	.	.	ENST00000322203	.	18	7	10	13	13	0	RPL10A,intron_variant,,ENST00000322203,;TEAD3,downstream_gene_variant,,ENST00000402886,;TEAD3,downstream_gene_variant,,ENST00000338863,;FANCE,downstream_gene_variant,,ENST00000229769,;RPL10A,non_coding_transcript_exon_variant,,ENST00000478340,;RPL10A,non_coding_transcript_exon_variant,,ENST00000467020,;RPL10A,intron_variant,,ENST00000464112,;RPL10A,intron_variant,,ENST00000490335,;	G	ENSG00000198755	ENST00000322203	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RPL10A	HGNC	10299	protein_coding	YES	CCDS4806.1	ENSP00000363018	RL10A_HUMAN	.	UPI0000025FC8	.	.	.	.	3/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTGCTTGCCC	.	5	BLCA
RPL10A	0	.	GRCh37	6	35438423	35438423	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550C>T	p.His184Tyr	p.H184Y	ENST00000322203	6/6	101	56	45	102	101	1	RPL10A,missense_variant,p.His184Tyr,ENST00000322203,;TEAD3,downstream_gene_variant,,ENST00000402886,;TEAD3,downstream_gene_variant,,ENST00000338863,;FANCE,downstream_gene_variant,,ENST00000229769,;RPL10A,non_coding_transcript_exon_variant,,ENST00000464112,;RPL10A,non_coding_transcript_exon_variant,,ENST00000478340,;RPL10A,non_coding_transcript_exon_variant,,ENST00000467020,;RPL10A,downstream_gene_variant,,ENST00000490335,;	T	ENSG00000198755	ENST00000322203	Transcript	missense_variant	577	550	184	H/Y	Cac/Tac	COSM1312129	.	.	1	RPL10A	HGNC	10299	protein_coding	YES	CCDS4806.1	ENSP00000363018	RL10A_HUMAN	.	UPI0000025FC8	.	tolerated(0.57)	benign(0.008)	6/6	.	hmmpanther:PTHR23105,hmmpanther:PTHR23105:SF36,Pfam_domain:PF00687,Gene3D:3.30.190.20,PIRSF_domain:PIRSF002155,Superfamily_domains:SSF56808	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCACCTG	.	5	BLCA
DNAH8	0	.	GRCh37	6	38942237	38942237	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12115G>C	p.Asp4039His	p.D4039H	ENST00000359357	83/91	114	80	33	101	100	1	DNAH8,missense_variant,p.Asp4039His,ENST00000359357,;DNAH8,missense_variant,p.Asp4244His,ENST00000327475,;DNAH8,missense_variant,p.Asp4003His,ENST00000441566,;DNAH8,downstream_gene_variant,,ENST00000449981,;	C	ENSG00000124721	ENST00000359357	Transcript	missense_variant	12369	12115	4039	D/H	Gac/Cac	COSM1312172,COSM1312171	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	probably_damaging(0.951)	83/91	.	Pfam_domain:PF03028,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGGACATC	.	5	BLCA
KIF6	0	.	GRCh37	6	39507798	39507798	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1626T>A	p.Ser542Arg	p.S542R	ENST00000287152	13/23	263	129	134	238	237	1	KIF6,missense_variant,p.Ser542Arg,ENST00000287152,;KIF6,missense_variant,p.Ser381Arg,ENST00000373213,;KIF6,missense_variant,p.Ser542Arg,ENST00000373215,;KIF6,missense_variant,p.Ser542Arg,ENST00000373216,;KIF6,missense_variant,p.Ser434Arg,ENST00000458470,;KIF6,intron_variant,,ENST00000538893,;	T	ENSG00000164627	ENST00000287152	Transcript	missense_variant	1721	1626	542	S/R	agT/agA	COSM1312174,COSM1312173	.	.	-1	KIF6	HGNC	21202	protein_coding	YES	CCDS4844.1	ENSP00000287152	KIF6_HUMAN	.	UPI0000457436	.	tolerated(0.23)	benign(0.14)	13/23	.	hmmpanther:PTHR24115:SF194,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCAAACTGGA	.	5	BLCA
TTBK1	0	.	GRCh37	6	43237400	43237400	+	Intron	SNP	C	C	T	rs765980032	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1986+6312C>T	.	.	ENST00000259750	.	64	26	38	67	67	0	TTBK1,missense_variant,p.Ser618Leu,ENST00000304139,;TTBK1,intron_variant,,ENST00000259750,;	T	ENSG00000146216	ENST00000259750	Transcript	intron_variant	.	.	.	.	.	rs765980032	.	.	1	TTBK1	HGNC	19140	protein_coding	YES	CCDS34455.1	ENSP00000259750	TTBK1_HUMAN	.	UPI000041512B	.	.	.	.	13/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ACTCTCGGGGC	byCluster	4	BLCA
DST	0	.	GRCh37	6	56471201	56471201	+	Intron	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3672+4024C>T	.	.	ENST00000244364	.	80	32	47	65	65	0	DST,missense_variant,p.Thr2205Ile,ENST00000439203,;DST,missense_variant,p.Thr2205Ile,ENST00000446842,;DST,missense_variant,p.Thr2709Ile,ENST00000370754,;DST,missense_variant,p.Thr2531Ile,ENST00000361203,;DST,missense_variant,p.Thr2531Ile,ENST00000370769,;DST,missense_variant,p.Thr2531Ile,ENST00000312431,;DST,intron_variant,,ENST00000370788,;DST,intron_variant,,ENST00000244364,;DST,intron_variant,,ENST00000421834,;	A	ENSG00000151914	ENST00000244364	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DST	HGNC	1090	protein_coding	YES	CCDS47443.1	ENSP00000244364	DYST_HUMAN	Q86T18_HUMAN	UPI00001C1577	.	.	.	.	25/83	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCAGTCAAT	.	5	BLCA
LMBRD1	0	.	GRCh37	6	70386122	70386122	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1551G>A	p.%3D	p.K517K	ENST00000370577	16/16	44	31	12	41	41	0	LMBRD1,synonymous_variant,p.%3D,ENST00000370570,;LMBRD1,synonymous_variant,p.%3D,ENST00000370577,;LMBRD1,3_prime_UTR_variant,,ENST00000472827,;	T	ENSG00000168216	ENST00000370577	Transcript	synonymous_variant	1781	1551	517	K	aaG/aaA	COSM1312349	.	.	-1	LMBRD1	HGNC	23038	protein_coding	YES	CCDS4969.1	ENSP00000359609	LMBD1_HUMAN	.	UPI000003ED25	.	.	.	16/16	.	hmmpanther:PTHR16130:SF2,hmmpanther:PTHR16130	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTTCTTCCC	.	5	BLCA
MUC3A	0	.	GRCh37	7	100606746	100606746	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1836G>T	p.Lys612Asn	p.K612N	ENST00000319509	4/11	29	18	11	25	25	0	MUC3A,missense_variant,p.Lys102Asn,ENST00000422757,;MUC3A,missense_variant,p.Lys612Asn,ENST00000319509,;RP11-395B7.2,downstream_gene_variant,,ENST00000420080,;RP11-395B7.2,downstream_gene_variant,,ENST00000434775,;MUC3A,missense_variant,p.Asp64Tyr,ENST00000414964,;MUC3A,non_coding_transcript_exon_variant,,ENST00000483133,;RP11-395B7.2,downstream_gene_variant,,ENST00000438198,;MUC3A,upstream_gene_variant,,ENST00000480291,;	T	ENSG00000169894	ENST00000319509	Transcript	missense_variant	1836	1836	612	K/N	aaG/aaT	COSM1083210,COSM1083209	.	.	1	MUC3A	HGNC	7513	protein_coding	YES	.	ENSP00000324834	.	J3QST7_HUMAN,I0CMK2_HUMAN,H9XFA8_HUMAN	UPI000198CE7F	.	deleterious(0.04)	probably_damaging(0.923)	4/11	.	PROSITE_profiles:PS50024,hmmpanther:PTHR24041,hmmpanther:PTHR24041:SF22,Gene3D:1ivzA00,Pfam_domain:PF01390,SMART_domains:SM00200,Superfamily_domains:0047452	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAAGATTTT	.	5	BLCA
MUC17	0	.	GRCh37	7	100678716	100678716	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4019C>G	p.Thr1340Arg	p.T1340R	ENST00000306151	3/13	442	324	118	359	358	1	MUC17,missense_variant,p.Thr1340Arg,ENST00000306151,;MUC17,missense_variant,p.Thr1340Arg,ENST00000379439,;	G	ENSG00000169876	ENST00000306151	Transcript	missense_variant	4083	4019	1340	T/R	aCa/aGa	COSM1312512	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	unknown(0)	3/13	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTAACAAGTA	.	5	BLCA
RINT1	0	.	GRCh37	7	105189056	105189056	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895T>A	p.Ser299Thr	p.S299T	ENST00000257700	7/15	235	164	70	174	174	0	RINT1,missense_variant,p.Ser299Thr,ENST00000257700,;RINT1,downstream_gene_variant,,ENST00000493041,;RINT1,3_prime_UTR_variant,,ENST00000497979,;RINT1,downstream_gene_variant,,ENST00000467392,;RINT1,upstream_gene_variant,,ENST00000474123,;RINT1,downstream_gene_variant,,ENST00000493258,;	A	ENSG00000135249	ENST00000257700	Transcript	missense_variant	1126	895	299	S/T	Tcc/Acc	COSM1312559	.	.	1	RINT1	HGNC	21876	protein_coding	YES	CCDS34726.1	ENSP00000257700	RINT1_HUMAN	.	UPI000020F898	.	tolerated(0.55)	benign(0.004)	7/15	.	PROSITE_profiles:PS51386,hmmpanther:PTHR13520:SF0,hmmpanther:PTHR13520	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCCTCCCCT	.	5	BLCA
PIK3CG	0	.	GRCh37	7	106508023	106508023	+	Missense_Mutation	SNP	A	A	G	rs757808746	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17A>G	p.Tyr6Cys	p.Y6C	ENST00000359195	2/11	103	77	26	101	101	0	PIK3CG,missense_variant,p.Tyr6Cys,ENST00000496166,;PIK3CG,missense_variant,p.Tyr6Cys,ENST00000359195,;PIK3CG,missense_variant,p.Tyr6Cys,ENST00000440650,;PIK3CG,intron_variant,,ENST00000473541,;	G	ENSG00000105851	ENST00000359195	Transcript	missense_variant	327	17	6	Y/C	tAt/tGt	rs757808746,COSM1312563	.	.	1	PIK3CG	HGNC	8978	protein_coding	YES	CCDS5739.1	ENSP00000352121	PK3CG_HUMAN	Q24M88_HUMAN,E9PDN7_HUMAN	UPI00000746B8	.	tolerated_low_confidence(0.17)	benign(0.078)	2/11	.	hmmpanther:PTHR10048,hmmpanther:PTHR10048:SF34	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTATAAAC	.	5	BLCA
LRRN3	0	.	GRCh37	7	110763553	110763553	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725C>G	p.Ser242Cys	p.S242C	ENST00000451085	4/4	95	66	28	77	77	0	LRRN3,missense_variant,p.Ser242Cys,ENST00000422987,;LRRN3,missense_variant,p.Ser242Cys,ENST00000421101,;LRRN3,missense_variant,p.Ser242Cys,ENST00000308478,;LRRN3,missense_variant,p.Ser242Cys,ENST00000451085,;IMMP2L,intron_variant,,ENST00000450877,;IMMP2L,intron_variant,,ENST00000437687,;IMMP2L,intron_variant,,ENST00000415362,;IMMP2L,intron_variant,,ENST00000452895,;IMMP2L,intron_variant,,ENST00000405709,;IMMP2L,intron_variant,,ENST00000447215,;IMMP2L,intron_variant,,ENST00000331762,;IMMP2L,intron_variant,,ENST00000489381,;	G	ENSG00000173114	ENST00000451085	Transcript	missense_variant	1771	725	242	S/C	tCt/tGt	COSM321496	.	.	1	LRRN3	HGNC	17200	protein_coding	YES	CCDS5754.1	ENSP00000397312	LRRN3_HUMAN	A4D0T1_HUMAN,E7EW58_HUMAN	UPI0000037517	.	deleterious(0)	probably_damaging(1)	4/4	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF7,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,SMART_domains:SM00365,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.I241T|c.722T>C|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCTTTTT	.	5	BLCA
ING3	0	.	GRCh37	7	120610799	120610799	+	Missense_Mutation	SNP	A	A	T	rs752903008	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966A>T	p.Leu322Phe	p.L322F	ENST00000315870	10/12	68	50	18	49	48	1	ING3,missense_variant,p.Leu307Phe,ENST00000431467,;ING3,missense_variant,p.Leu322Phe,ENST00000315870,;ING3,3_prime_UTR_variant,,ENST00000427726,;ING3,non_coding_transcript_exon_variant,,ENST00000497502,;	T	ENSG00000071243	ENST00000315870	Transcript	missense_variant	1114	966	322	L/F	ttA/ttT	rs752903008,COSM1312605	.	.	1	ING3	HGNC	14587	protein_coding	YES	CCDS5778.1	ENSP00000320566	ING3_HUMAN	E7ET07_HUMAN	UPI00000373B3	.	tolerated(0.07)	benign(0.444)	10/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10333	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TCCTTATCATC	.	4	BLCA
ARL4A	0	.	GRCh37	7	12728009	12728009	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130G>C	p.Glu44Gln	p.E44Q	ENST00000396663	2/2	76	59	16	77	76	0	ARL4A,missense_variant,p.Glu44Gln,ENST00000404894,;ARL4A,missense_variant,p.Glu44Gln,ENST00000396664,;ARL4A,missense_variant,p.Glu44Gln,ENST00000396662,;ARL4A,missense_variant,p.Glu44Gln,ENST00000396663,;ARL4A,missense_variant,p.Glu44Gln,ENST00000439721,;ARL4A,missense_variant,p.Glu44Gln,ENST00000356797,;CTD-2320J21.1,downstream_gene_variant,,ENST00000604949,;	C	ENSG00000122644	ENST00000396663	Transcript	missense_variant	612	130	44	E/Q	Gaa/Caa	COSM1312651	.	.	1	ARL4A	HGNC	695	protein_coding	YES	CCDS5359.1	ENSP00000379898	ARL4A_HUMAN	C9J7Q9_HUMAN	UPI000005273E	.	tolerated(0.31)	probably_damaging(0.998)	2/2	.	PROSITE_profiles:PS51417,hmmpanther:PTHR11711:SF139,hmmpanther:PTHR11711,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,Pfam_domain:PF00025,SMART_domains:SM00177,SMART_domains:SM00178,SMART_domains:SM00175,SMART_domains:SM00173,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAATGAATTT	.	5	BLCA
PLXNA4	0	.	GRCh37	7	132069999	132069999	+	Intron	SNP	T	T	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1372-87018A>G	.	.	ENST00000359827	.	118	89	29	101	101	0	PLXNA4,missense_variant,p.His476Arg,ENST00000423507,;PLXNA4,intron_variant,,ENST00000321063,;PLXNA4,intron_variant,,ENST00000359827,;	C	ENSG00000221866	ENST00000359827	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PLXNA4	HGNC	9102	protein_coding	YES	CCDS43646.1	ENSP00000352882	PLXA4_HUMAN	.	UPI000004E55B	.	.	.	.	3/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTGTGGGAT	.	5	BLCA
SVOPL	0	.	GRCh37	7	138312175	138312175	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1101C>T	p.%3D	p.F367F	ENST00000419765	11/15	30	24	6	26	26	0	SVOPL,synonymous_variant,p.%3D,ENST00000421622,;SVOPL,synonymous_variant,p.%3D,ENST00000288513,;SVOPL,synonymous_variant,p.%3D,ENST00000419765,;SVOPL,synonymous_variant,p.%3D,ENST00000436657,;SNORA40,upstream_gene_variant,,ENST00000516379,;SVOPL,non_coding_transcript_exon_variant,,ENST00000463557,;SVOPL,synonymous_variant,p.%3D,ENST00000441685,;SVOPL,upstream_gene_variant,,ENST00000478865,;	A	ENSG00000157703	ENST00000419765	Transcript	synonymous_variant	1135	1101	367	F	ttC/ttT	COSM1312720,COSM1312719	.	.	-1	SVOPL	HGNC	27034	protein_coding	YES	CCDS47721.1	ENSP00000405482	SVOPL_HUMAN	.	UPI0001565476	.	.	.	11/15	.	Superfamily_domains:SSF103473,Pfam_domain:PF00083,Gene3D:1.20.1250.20,hmmpanther:PTHR24064,hmmpanther:PTHR24064:SF175,PROSITE_profiles:PS50850,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCCAGGAAATT	.	3	BLCA
C7orf55	0	.	GRCh37	7	139025978	139025978	+	5'UTR	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-153C>T	.	.	ENST00000297534	1/2	10	6	4	10	10	0	C7orf55,5_prime_UTR_variant,,ENST00000297534,;C7orf55-LUC7L2,intron_variant,,ENST00000541170,;LUC7L2,upstream_gene_variant,,ENST00000541515,;C7orf55,intron_variant,,ENST00000481123,;C7orf55,intron_variant,,ENST00000468383,;C7orf55,intron_variant,,ENST00000488886,;C7orf55,intron_variant,,ENST00000482181,;	T	ENSG00000164898	ENST00000297534	Transcript	5_prime_UTR_variant	101	.	.	.	.	.	.	.	1	C7orf55	HGNC	26946	protein_coding	YES	CCDS5853.1	ENSP00000297534	CG055_HUMAN	.	UPI000013FC4B	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGTTCGGTCA	.	3	BLCA
WEE2	0	.	GRCh37	7	141427156	141427156	+	Missense_Mutation	SNP	G	G	A	rs772438534	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1445G>A	p.Arg482Lys	p.R482K	ENST00000397541	10/12	237	180	57	178	178	0	WEE2,missense_variant,p.Arg200Lys,ENST00000493845,;WEE2,missense_variant,p.Arg482Lys,ENST00000397541,;RNU1-82P,upstream_gene_variant,,ENST00000390851,;WEE2-AS1,non_coding_transcript_exon_variant,,ENST00000488785,;WEE2-AS1,non_coding_transcript_exon_variant,,ENST00000478332,;WEE2-AS1,intron_variant,,ENST00000484172,;WEE2-AS1,intron_variant,,ENST00000486906,;WEE2-AS1,intron_variant,,ENST00000495800,;WEE2-AS1,intron_variant,,ENST00000459753,;WEE2-AS1,intron_variant,,ENST00000471512,;WEE2-AS1,intron_variant,,ENST00000465110,;WEE2-AS1,intron_variant,,ENST00000462383,;WEE2-AS1,downstream_gene_variant,,ENST00000473776,;	A	ENSG00000214102	ENST00000397541	Transcript	missense_variant	1851	1445	482	R/K	aGa/aAa	rs772438534,COSM1312760	.	.	1	WEE2	HGNC	19684	protein_coding	YES	CCDS43660.1	ENSP00000380675	WEE2_HUMAN	.	UPI000004E9D3	.	tolerated(1)	benign(0.012)	10/12	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF037281,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR11042,hmmpanther:PTHR11042:SF75,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCAGAAATA	byFrequency	5	BLCA
OR2A12	0	.	GRCh37	7	143793100	143793100	+	Silent	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900A>G	p.%3D	p.L300L	ENST00000408949	1/1	367	280	86	281	281	0	OR2A12,synonymous_variant,p.%3D,ENST00000408949,;	G	ENSG00000221858	ENST00000408949	Transcript	synonymous_variant	960	900	300	L	ctA/ctG	COSM1312789	.	.	1	OR2A12	HGNC	15082	protein_coding	YES	CCDS43670.1	ENSP00000386174	O2A12_HUMAN	A4D2G4_HUMAN	UPI0000061E6F	.	.	.	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF50	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTAAAGAG	.	5	BLCA
KMT2C	0	.	GRCh37	7	151864230	151864230	+	Splice_Site	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9750+1G>A	.	p.X3250_splice	ENST00000262189	.	76	58	18	65	65	0	KMT2C,splice_donor_variant,,ENST00000355193,;KMT2C,splice_donor_variant,,ENST00000360104,;KMT2C,splice_donor_variant,,ENST00000262189,;KMT2C,upstream_gene_variant,,ENST00000424877,;KMT2C,upstream_gene_variant,,ENST00000418061,;KMT2C,splice_donor_variant,,ENST00000473186,;KMT2C,splice_donor_variant,,ENST00000558084,;	T	ENSG00000055609	ENST00000262189	Transcript	splice_donor_variant	.	.	.	.	.	COSM1312865,COSM1312864	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	.	42/58	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATTACCTGTT	.	2	BLCA
PAXIP1	0	.	GRCh37	7	154739621	154739621	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2914C>A	p.Leu972Ile	p.L972I	ENST00000404141	17/21	274	210	64	241	240	0	PAXIP1,missense_variant,p.Leu972Ile,ENST00000404141,;PAXIP1,missense_variant,p.Leu972Ile,ENST00000397192,;PAXIP1-AS2,downstream_gene_variant,,ENST00000397551,;RP11-5C23.1,upstream_gene_variant,,ENST00000608064,;PAXIP1,non_coding_transcript_exon_variant,,ENST00000473219,;PAXIP1,3_prime_UTR_variant,,ENST00000457196,;PAXIP1-AS2,3_prime_UTR_variant,,ENST00000449486,;PAXIP1,non_coding_transcript_exon_variant,,ENST00000464717,;PAXIP1-AS2,downstream_gene_variant,,ENST00000411526,;	T	ENSG00000157212	ENST00000404141	Transcript	missense_variant	3069	2914	972	L/I	Ctc/Atc	COSM1312903,COSM1312902	.	.	-1	PAXIP1	HGNC	8624	protein_coding	YES	CCDS47753.1	ENSP00000384048	PAXI1_HUMAN	.	UPI00004166F9	.	deleterious(0.01)	unknown(0)	17/21	.	hmmpanther:PTHR23196:SF1,hmmpanther:PTHR23196,SMART_domains:SM00292	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGAGTGGAG	.	5	BLCA
NOM1	0	.	GRCh37	7	156745289	156745289	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1109A>G	p.Asn370Ser	p.N370S	ENST00000275820	2/11	47	35	12	43	43	0	NOM1,missense_variant,p.Asn370Ser,ENST00000275820,;NOM1,upstream_gene_variant,,ENST00000460332,;	G	ENSG00000146909	ENST00000275820	Transcript	missense_variant	1124	1109	370	N/S	aAc/aGc	COSM1312914	.	.	1	NOM1	HGNC	13244	protein_coding	YES	CCDS34787.1	ENSP00000275820	NOM1_HUMAN	.	UPI000020E71F	.	deleterious(0)	probably_damaging(0.988)	2/11	.	Superfamily_domains:SSF48371,SMART_domains:SM00543,Gene3D:1.25.40.180,Pfam_domain:PF02854,hmmpanther:PTHR18034:SF4,hmmpanther:PTHR18034	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTAACAGGT	.	5	BLCA
FERD3L	0	.	GRCh37	7	19184952	19184952	+	Missense_Mutation	SNP	T	T	C	rs757836312	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34A>G	p.Thr12Ala	p.T12A	ENST00000275461	1/1	51	37	14	52	52	0	FERD3L,missense_variant,p.Thr12Ala,ENST00000275461,;AC003986.5,non_coding_transcript_exon_variant,,ENST00000452700,;	C	ENSG00000146618	ENST00000275461	Transcript	missense_variant	93	34	12	T/A	Acg/Gcg	rs757836312,COSM1312941	.	.	-1	FERD3L	HGNC	16660	protein_coding	YES	CCDS5368.1	ENSP00000275461	FER3L_HUMAN	.	UPI0000073BBA	.	tolerated(0.31)	benign(0.004)	1/1	.	hmmpanther:PTHR23349,hmmpanther:PTHR23349:SF46	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCGTAGTGT	.	5	BLCA
GPNMB	0	.	GRCh37	7	23286429	23286429	+	5'UTR	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-48A>G	.	.	ENST00000381990	1/11	73	56	17	73	73	0	GPNMB,5_prime_UTR_variant,,ENST00000381990,;GPNMB,5_prime_UTR_variant,,ENST00000409458,;GPNMB,5_prime_UTR_variant,,ENST00000453162,;GPNMB,5_prime_UTR_variant,,ENST00000539136,;GPNMB,5_prime_UTR_variant,,ENST00000258733,;GPNMB,non_coding_transcript_exon_variant,,ENST00000474157,;GPNMB,non_coding_transcript_exon_variant,,ENST00000487890,;GPNMB,non_coding_transcript_exon_variant,,ENST00000459927,;GPNMB,intron_variant,,ENST00000492858,;GPNMB,intron_variant,,ENST00000465673,;GPNMB,upstream_gene_variant,,ENST00000492512,;	G	ENSG00000136235	ENST00000381990	Transcript	5_prime_UTR_variant	114	.	.	.	.	.	.	.	1	GPNMB	HGNC	4462	protein_coding	YES	CCDS34610.1	ENSP00000371420	GPNMB_HUMAN	.	UPI000007158E	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCAGAGGAAT	.	2	BLCA
GPNMB	0	.	GRCh37	7	23296615	23296615	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.472G>A	p.Asp158Asn	p.D158N	ENST00000381990	4/11	162	128	34	119	119	0	GPNMB,missense_variant,p.Asp158Asn,ENST00000381990,;GPNMB,missense_variant,p.Asp158Asn,ENST00000409458,;GPNMB,missense_variant,p.Asp59Asn,ENST00000539136,;GPNMB,missense_variant,p.Asp158Asn,ENST00000258733,;GPNMB,intron_variant,,ENST00000453162,;GPNMB,non_coding_transcript_exon_variant,,ENST00000492858,;GPNMB,non_coding_transcript_exon_variant,,ENST00000465673,;GPNMB,downstream_gene_variant,,ENST00000487890,;GPNMB,downstream_gene_variant,,ENST00000459927,;GPNMB,downstream_gene_variant,,ENST00000492512,;	A	ENSG00000136235	ENST00000381990	Transcript	missense_variant	633	472	158	D/N	Gat/Aat	COSM1312973,COSM746402	.	.	1	GPNMB	HGNC	4462	protein_coding	YES	CCDS34610.1	ENSP00000371420	GPNMB_HUMAN	.	UPI000007158E	.	deleterious(0.02)	probably_damaging(0.982)	4/11	.	hmmpanther:PTHR11861,hmmpanther:PTHR11861:SF11	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTGATGGG	.	4	BLCA
GPNMB	0	.	GRCh37	7	23313138	23313138	+	Splice_Site	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1466-2A>G	.	p.X489_splice	ENST00000381990	.	137	92	44	102	102	0	GPNMB,splice_acceptor_variant,,ENST00000381990,;GPNMB,splice_acceptor_variant,,ENST00000453162,;GPNMB,splice_acceptor_variant,,ENST00000539136,;GPNMB,splice_acceptor_variant,,ENST00000258733,;GPNMB,splice_acceptor_variant,,ENST00000478451,;GPNMB,splice_acceptor_variant,,ENST00000470994,;GPNMB,splice_acceptor_variant,,ENST00000463011,;GPNMB,non_coding_transcript_exon_variant,,ENST00000468723,;GPNMB,downstream_gene_variant,,ENST00000479625,;	G	ENSG00000136235	ENST00000381990	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1312974	.	.	1	GPNMB	HGNC	4462	protein_coding	YES	CCDS34610.1	ENSP00000371420	GPNMB_HUMAN	.	UPI000007158E	.	.	.	.	9/10	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTTAAGACCC	.	3	BLCA
TRA2A	0	.	GRCh37	7	23547040	23547040	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.640C>T	p.His214Tyr	p.H214Y	ENST00000297071	5/8	242	173	69	197	196	1	TRA2A,missense_variant,p.His113Tyr,ENST00000392502,;TRA2A,missense_variant,p.His113Tyr,ENST00000538367,;TRA2A,missense_variant,p.His214Tyr,ENST00000297071,;TRA2A,non_coding_transcript_exon_variant,,ENST00000474586,;TRA2A,upstream_gene_variant,,ENST00000497730,;TRA2A,non_coding_transcript_exon_variant,,ENST00000494255,;TRA2A,upstream_gene_variant,,ENST00000486934,;TRA2A,upstream_gene_variant,,ENST00000475970,;TRA2A,upstream_gene_variant,,ENST00000482395,;	A	ENSG00000164548	ENST00000297071	Transcript	missense_variant	857	640	214	H/Y	Cat/Tat	COSM1312980	.	.	-1	TRA2A	HGNC	16645	protein_coding	YES	CCDS5383.1	ENSP00000297071	TRA2A_HUMAN	Q549U1_HUMAN,B4DUA9_HUMAN	UPI00001372AB	.	tolerated(0.84)	benign(0.006)	5/8	.	hmmpanther:PTHR15241,hmmpanther:PTHR15241:SF3,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTACTGAGTTG	.	4	BLCA
RP1-170O19.20	0	.	GRCh37	7	27209216	27209230	+	Intron	DEL	CCGCCGCCGCCGCCT	CCGCCGCCGCCGCCT	-	rs750068312	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CCGCCGCCGCCGCCT	CCGCCGCCGCCGCCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11-4644_11-4630delAGGCGGCGGCGGCGG	.	.	ENST00000470747	.	35	22	12	43	43	0	RP1-170O19.20,intron_variant,,ENST00000470747,;HOXA9,upstream_gene_variant,,ENST00000396345,;HOXA10,downstream_gene_variant,,ENST00000283921,;HOXA10,downstream_gene_variant,,ENST00000396344,;HOXA9,upstream_gene_variant,,ENST00000343483,;MIR196B,upstream_gene_variant,,ENST00000384852,;HOXA10-AS,non_coding_transcript_exon_variant,,ENST00000523790,;HOXA10-AS,non_coding_transcript_exon_variant,,ENST00000519935,;HOXA10-AS,intron_variant,,ENST00000519694,;HOXA9,non_coding_transcript_exon_variant,,ENST00000489695,;HOXA9,intron_variant,,ENST00000487384,;RP1-170O19.20,intron_variant,,ENST00000465941,;HOXA10,downstream_gene_variant,,ENST00000519593,;HOXA10,downstream_gene_variant,,ENST00000521421,;HOXA10,downstream_gene_variant,,ENST00000524368,;HOXA9,upstream_gene_variant,,ENST00000497089,;	-	ENSG00000257184	ENST00000470747	Transcript	intron_variant	.	.	.	.	.	rs750068312	.	.	-1	RP1-170O19.20	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000421799	.	D6RAR5_HUMAN	UPI000020EC92	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CGCCCGCCGCCGCCGCCGCCTCCGCC	.	2	BLCA
HOXA11	0	.	GRCh37	7	27222475	27222475	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882G>A	p.Met294Ile	p.M294I	ENST00000006015	2/2	130	96	34	90	90	0	HOXA11,missense_variant,p.Met264Ile,ENST00000517402,;HOXA11,missense_variant,p.Met294Ile,ENST00000006015,;HOXA10,upstream_gene_variant,,ENST00000396344,;RP1-170O19.20,upstream_gene_variant,,ENST00000470747,;RP1-170O19.14,downstream_gene_variant,,ENST00000523331,;HOXA11-AS,upstream_gene_variant,,ENST00000522674,;HOXA11-AS,upstream_gene_variant,,ENST00000520395,;HOXA11-AS,upstream_gene_variant,,ENST00000520360,;HOXA11-AS,upstream_gene_variant,,ENST00000479766,;HOXA11-AS,upstream_gene_variant,,ENST00000522863,;	T	ENSG00000005073	ENST00000006015	Transcript	missense_variant	954	882	294	M/I	atG/atA	COSM1673077,COSM1313002	.	.	-1	HOXA11	HGNC	5101	protein_coding	YES	CCDS5411.1	ENSP00000006015	HXA11_HUMAN	.	UPI000000D992	.	deleterious(0)	probably_damaging(0.979)	2/2	.	Prints_domain:PR00024,Superfamily_domains:SSF46689,SMART_domains:SM00389,Gene3D:1.10.10.60,Pfam_domain:PF00046,PROSITE_patterns:PS00027,hmmpanther:PTHR24326:SF50,hmmpanther:PTHR24326,PROSITE_profiles:PS50071	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCATTCT	.	5	BLCA
CREB5	0	.	GRCh37	7	28725735	28725735	+	Intron	SNP	T	T	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.465-32635T>G	.	.	ENST00000357727	.	114	90	23	80	79	1	CREB5,5_prime_UTR_variant,,ENST00000396298,;CREB5,intron_variant,,ENST00000426500,;CREB5,intron_variant,,ENST00000357727,;CREB5,intron_variant,,ENST00000396300,;CREB5,intron_variant,,ENST00000409603,;CREB5,intron_variant,,ENST00000396299,;CREB5,intron_variant,,ENST00000461921,;CREB5,upstream_gene_variant,,ENST00000484383,;CREB5,upstream_gene_variant,,ENST00000468391,;	G	ENSG00000146592	ENST00000357727	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CREB5	HGNC	16844	protein_coding	YES	CCDS5417.1	ENSP00000350359	CREB5_HUMAN	H9KVC5_HUMAN,C9JN33_HUMAN	UPI0000457534	.	.	.	.	5/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGCTCAAAT	.	4	BLCA
MTURN	0	.	GRCh37	7	30197062	30197062	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294G>A	p.%3D	p.G98G	ENST00000324453	3/3	305	230	74	245	245	0	MTURN,synonymous_variant,p.%3D,ENST00000455738,;MTURN,synonymous_variant,p.%3D,ENST00000324453,;MTURN,synonymous_variant,p.%3D,ENST00000324489,;MTURN,synonymous_variant,p.%3D,ENST00000415604,;MTURN,synonymous_variant,p.%3D,ENST00000409688,;AC007036.5,upstream_gene_variant,,ENST00000511893,;	A	ENSG00000180354	ENST00000324453	Transcript	synonymous_variant	621	294	98	G	ggG/ggA	COSM1313026	.	.	1	MTURN	HGNC	25457	protein_coding	YES	CCDS5425.2	ENSP00000324204	CG041_HUMAN	B4DH90_HUMAN	UPI0000073903	.	.	.	3/3	.	Pfam_domain:PF15167,hmmpanther:PTHR32008	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGGGCTTCC	.	5	BLCA
ELMO1	0	.	GRCh37	7	37272761	37272761	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488T>A	p.Val163Asp	p.V163D	ENST00000310758	8/22	74	50	24	56	56	0	ELMO1,missense_variant,p.Val163Asp,ENST00000442504,;ELMO1,missense_variant,p.Val163Asp,ENST00000310758,;ELMO1,missense_variant,p.Val163Asp,ENST00000448602,;ELMO1,missense_variant,p.Val151Asp,ENST00000455119,;	T	ENSG00000155849	ENST00000310758	Transcript	missense_variant	1136	488	163	V/D	gTt/gAt	COSM1313065	.	.	-1	ELMO1	HGNC	16286	protein_coding	YES	CCDS5449.1	ENSP00000312185	ELMO1_HUMAN	C9JIW2_HUMAN,C9JB20_HUMAN,C9J5X3_HUMAN,B4DJV6_HUMAN,A4D1X5_HUMAN	UPI000006F687	.	deleterious(0)	possibly_damaging(0.529)	8/22	.	hmmpanther:PTHR12771:SF23,hmmpanther:PTHR12771,Pfam_domain:PF11841	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCAACGAAG	.	5	BLCA
PSMA2	0	.	GRCh37	7	42964312	42964312	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.336G>A	p.%3D	p.Q112Q	ENST00000223321	4/8	142	101	40	104	104	0	PSMA2,synonymous_variant,p.%3D,ENST00000538645,;PSMA2,synonymous_variant,p.%3D,ENST00000445517,;PSMA2,synonymous_variant,p.%3D,ENST00000223321,;PSMA2,synonymous_variant,p.%3D,ENST00000442788,;PSMA2,3_prime_UTR_variant,,ENST00000433579,;PSMA2,3_prime_UTR_variant,,ENST00000457444,;PSMA2,3_prime_UTR_variant,,ENST00000411875,;PSMA2,3_prime_UTR_variant,,ENST00000436986,;AC010132.11,downstream_gene_variant,,ENST00000295493,;	T	ENSG00000106588	ENST00000223321	Transcript	synonymous_variant	401	336	112	Q	caG/caA	COSM1313087	.	.	-1	PSMA2	HGNC	9531	protein_coding	YES	CCDS5467.1	ENSP00000223321	PSA2_HUMAN	Q6MZI6_HUMAN	UPI000004D00F	.	.	.	4/8	.	PROSITE_profiles:PS51475,hmmpanther:PTHR11599,hmmpanther:PTHR11599:SF16,Pfam_domain:PF00227,Gene3D:3.60.20.10,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCTCTGTAC	.	5	BLCA
TNRC18	0	.	GRCh37	7	5354756	5354756	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6886C>G	p.Leu2296Val	p.L2296V	ENST00000430969	26/30	31	21	9	40	39	1	TNRC18,missense_variant,p.Leu110Val,ENST00000328270,;TNRC18,missense_variant,p.Leu2296Val,ENST00000430969,;TNRC18,missense_variant,p.Leu2296Val,ENST00000399537,;	C	ENSG00000182095	ENST00000430969	Transcript	missense_variant	7235	6886	2296	L/V	Ctg/Gtg	COSM1313178,COSM1313177,COSM1313176	.	.	-1	TNRC18	HGNC	11962	protein_coding	YES	CCDS47534.1	ENSP00000395538	TNC18_HUMAN	H7C3U5_HUMAN,C9J9K1_HUMAN	UPI00016632FD	.	.	benign(0.364)	26/30	.	hmmpanther:PTHR12505:SF21,hmmpanther:PTHR12505	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CACCAGAAGGG	.	4	BLCA
C7orf26	0	.	GRCh37	7	6630079	6630079	+	Silent	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165G>A	p.%3D	p.V55V	ENST00000344417	1/6	18	12	6	13	13	0	C7orf26,synonymous_variant,p.%3D,ENST00000344417,;C7orf26,synonymous_variant,p.%3D,ENST00000359073,;ZDHHC4,downstream_gene_variant,,ENST00000396707,;ZDHHC4,downstream_gene_variant,,ENST00000396709,;ZDHHC4,downstream_gene_variant,,ENST00000396706,;ZDHHC4,downstream_gene_variant,,ENST00000335965,;ZDHHC4,downstream_gene_variant,,ENST00000396713,;ZDHHC4,downstream_gene_variant,,ENST00000405731,;AC079742.4,upstream_gene_variant,,ENST00000434951,;C7orf26,upstream_gene_variant,,ENST00000472693,;ZDHHC4,downstream_gene_variant,,ENST00000474738,;	A	ENSG00000146576	ENST00000344417	Transcript	synonymous_variant	432	165	55	V	gtG/gtA	.	.	.	1	C7orf26	HGNC	21702	protein_coding	YES	CCDS5353.1	ENSP00000340220	CG026_HUMAN	.	UPI000003ED42	.	.	.	1/6	.	hmmpanther:PTHR14540,Pfam_domain:PF14964	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGTGCCCAA	.	5	BLCA
WBSCR22	0	.	GRCh37	7	73112020	73112020	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.838G>A	p.Gly280Ser	p.G280S	ENST00000423497	12/13	54	38	16	32	32	0	WBSCR22,missense_variant,p.Gly263Ser,ENST00000265758,;WBSCR22,missense_variant,p.Gly47Ser,ENST00000453316,;WBSCR22,missense_variant,p.Gly123Glu,ENST00000442099,;WBSCR22,missense_variant,p.Gly280Ser,ENST00000423497,;WBSCR22,3_prime_UTR_variant,,ENST00000423166,;STX1A,downstream_gene_variant,,ENST00000395156,;STX1A,downstream_gene_variant,,ENST00000395155,;STX1A,downstream_gene_variant,,ENST00000222812,;STX1A,downstream_gene_variant,,ENST00000395154,;STX1A,downstream_gene_variant,,ENST00000496216,;STX1A,downstream_gene_variant,,ENST00000480126,;STX1A,downstream_gene_variant,,ENST00000491645,;STX1A,downstream_gene_variant,,ENST00000484736,;WBSCR22,3_prime_UTR_variant,,ENST00000430270,;WBSCR22,3_prime_UTR_variant,,ENST00000430446,;WBSCR22,3_prime_UTR_variant,,ENST00000436944,;WBSCR22,non_coding_transcript_exon_variant,,ENST00000471215,;WBSCR22,non_coding_transcript_exon_variant,,ENST00000463307,;STX1A,downstream_gene_variant,,ENST00000491427,;STX1A,downstream_gene_variant,,ENST00000497980,;STX1A,downstream_gene_variant,,ENST00000461441,;WBSCR22,downstream_gene_variant,,ENST00000487006,;WBSCR22,downstream_gene_variant,,ENST00000496153,;WBSCR22,downstream_gene_variant,,ENST00000478670,;WBSCR22,downstream_gene_variant,,ENST00000428163,;WBSCR22,downstream_gene_variant,,ENST00000421744,;WBSCR22,downstream_gene_variant,,ENST00000432522,;	A	ENSG00000071462	ENST00000423497	Transcript	missense_variant	838	838	280	G/S	Ggc/Agc	COSM1313273	.	.	1	WBSCR22	HGNC	16405	protein_coding	YES	CCDS56490.1	ENSP00000401191	.	C9K060_HUMAN	UPI0000423E27	.	deleterious(0)	probably_damaging(0.974)	12/13	.	hmmpanther:PTHR12734:SF0,hmmpanther:PTHR12734,Pfam_domain:PF12589	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAGGGCAGG	.	5	BLCA
CLDN12	0	.	GRCh37	7	90042400	90042400	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.410G>A	p.Gly137Glu	p.G137E	ENST00000535571	2/2	170	131	38	148	147	1	CLDN12,missense_variant,p.Gly137Glu,ENST00000287916,;CLDN12,missense_variant,p.Gly137Glu,ENST00000496677,;CLDN12,missense_variant,p.Gly137Glu,ENST00000394604,;CLDN12,missense_variant,p.Gly137Glu,ENST00000535571,;CLDN12,missense_variant,p.Gly137Glu,ENST00000416322,;CLDN12,missense_variant,p.Gly137Glu,ENST00000394605,;CLDN12,downstream_gene_variant,,ENST00000427904,;CLDN12,intron_variant,,ENST00000483862,;CLDN12,intron_variant,,ENST00000498033,;CLDN12,intron_variant,,ENST00000451941,;CTB-13L3.1,intron_variant,,ENST00000480135,;CLDN12,downstream_gene_variant,,ENST00000498326,;CLDN12,downstream_gene_variant,,ENST00000462636,;	A	ENSG00000157224	ENST00000535571	Transcript	missense_variant	719	410	137	G/E	gGg/gAg	COSM1313389	.	.	1	CLDN12	HGNC	2034	protein_coding	YES	CCDS5618.1	ENSP00000443476	CLD12_HUMAN	C9J841_HUMAN,C9J4P0_HUMAN,A8MX62_HUMAN	UPI000000165A	.	deleterious(0)	probably_damaging(0.955)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR16703:SF3,hmmpanther:PTHR16703	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTGGGCTGC	.	5	BLCA
FZD1	0	.	GRCh37	7	90895380	90895380	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1185G>A	p.%3D	p.Q395Q	ENST00000287934	1/1	130	97	33	97	97	0	FZD1,synonymous_variant,p.%3D,ENST00000287934,;	A	ENSG00000157240	ENST00000287934	Transcript	synonymous_variant	1598	1185	395	Q	caG/caA	COSM1313398	.	.	1	FZD1	HGNC	4038	protein_coding	YES	CCDS5620.1	ENSP00000287934	FZD1_HUMAN	.	UPI000005104D	.	.	.	1/1	.	PROSITE_profiles:PS50261,hmmpanther:PTHR11309:SF81,hmmpanther:PTHR11309,Pfam_domain:PF01534	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCAGGGCAC	.	5	BLCA
AKAP9	0	.	GRCh37	7	91694694	91694694	+	Missense_Mutation	SNP	G	G	C	rs769680096	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6127G>C	p.Glu2043Gln	p.E2043Q	ENST00000356239	25/50	70	56	14	41	41	0	AKAP9,missense_variant,p.Glu2043Gln,ENST00000356239,;AKAP9,missense_variant,p.Glu2055Gln,ENST00000359028,;AKAP9,missense_variant,p.Glu2055Gln,ENST00000358100,;AKAP9,upstream_gene_variant,,ENST00000394534,;AKAP9,non_coding_transcript_exon_variant,,ENST00000491695,;	C	ENSG00000127914	ENST00000356239	Transcript	missense_variant	6360	6127	2043	E/Q	Gaa/Caa	rs769680096,COSM1313407,COSM1313406	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.998)	25/50	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACAAGAAAAA	.	3	BLCA
AKAP9	0	.	GRCh37	7	91695741	91695741	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6211G>A	p.Glu2071Lys	p.E2071K	ENST00000356239	26/50	84	65	18	52	52	0	AKAP9,missense_variant,p.Glu2071Lys,ENST00000356239,;AKAP9,missense_variant,p.Glu2083Lys,ENST00000359028,;AKAP9,missense_variant,p.Glu2083Lys,ENST00000358100,;AKAP9,upstream_gene_variant,,ENST00000394534,;AKAP9,downstream_gene_variant,,ENST00000491695,;	A	ENSG00000127914	ENST00000356239	Transcript	missense_variant	6444	6211	2071	E/K	Gag/Aag	COSM1313409,COSM1313408	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.999)	26/50	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTAGGAGCAA	.	5	BLCA
ANKIB1	0	.	GRCh37	7	91981884	91981884	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1325G>T	p.Gly442Val	p.G442V	ENST00000265742	9/20	328	238	90	259	259	0	ANKIB1,missense_variant,p.Gly442Val,ENST00000265742,;ANKIB1,3_prime_UTR_variant,,ENST00000413588,;	T	ENSG00000001629	ENST00000265742	Transcript	missense_variant	1701	1325	442	G/V	gGa/gTa	COSM1313417	.	.	1	ANKIB1	HGNC	22215	protein_coding	YES	CCDS47639.1	ENSP00000265742	AKIB1_HUMAN	Q4VBX8_HUMAN,C9JZ63_HUMAN	UPI00001C1E7C	.	deleterious(0.03)	benign(0.405)	9/20	.	hmmpanther:PTHR11685:SF95,hmmpanther:PTHR11685,Pfam_domain:PF01485,SMART_domains:SM00647,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTGGATCTG	.	5	BLCA
ANKIB1	0	.	GRCh37	7	92027739	92027739	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2746T>G	p.Leu916Val	p.L916V	ENST00000265742	20/20	38	22	16	43	42	0	ANKIB1,missense_variant,p.Leu916Val,ENST00000265742,;ANKIB1,3_prime_UTR_variant,,ENST00000422095,;ANKIB1,downstream_gene_variant,,ENST00000465883,;	G	ENSG00000001629	ENST00000265742	Transcript	missense_variant	3122	2746	916	L/V	Ttg/Gtg	COSM1313418	.	.	1	ANKIB1	HGNC	22215	protein_coding	YES	CCDS47639.1	ENSP00000265742	AKIB1_HUMAN	Q4VBX8_HUMAN,C9JZ63_HUMAN	UPI00001C1E7C	.	deleterious_low_confidence(0)	benign(0.414)	20/20	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGCTTTTGGAA	.	4	BLCA
PEX1	0	.	GRCh37	7	92143223	92143223	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1298C>T	p.Thr433Ile	p.T433I	ENST00000248633	6/24	207	146	60	133	133	0	PEX1,missense_variant,p.Thr433Ile,ENST00000248633,;PEX1,missense_variant,p.Thr111Ile,ENST00000438045,;PEX1,missense_variant,p.Thr433Ile,ENST00000428214,;PEX1,5_prime_UTR_variant,,ENST00000541751,;PEX1,missense_variant,p.Thr67Ile,ENST00000422866,;PEX1,non_coding_transcript_exon_variant,,ENST00000476923,;PEX1,non_coding_transcript_exon_variant,,ENST00000484913,;	A	ENSG00000127980	ENST00000248633	Transcript	missense_variant	1394	1298	433	T/I	aCt/aTt	COSM1313420	.	.	-1	PEX1	HGNC	8850	protein_coding	YES	CCDS5627.1	ENSP00000248633	PEX1_HUMAN	Q96S70_HUMAN,Q96S69_HUMAN,B4DER6_HUMAN	UPI0000001C39	.	deleterious(0.04)	benign(0.14)	6/24	.	hmmpanther:PTHR23077:SF12,hmmpanther:PTHR23077	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGAGTTATC	.	5	BLCA
ACN9	0	.	GRCh37	7	96746924	96746924	+	5'UTR	SNP	G	G	A	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-112G>A	.	.	ENST00000432641	1/2	32	27	4	25	25	0	ACN9,5_prime_UTR_variant,,ENST00000432641,;ACN9,upstream_gene_variant,,ENST00000360382,;ACN9,upstream_gene_variant,,ENST00000489852,;	A	ENSG00000196636	ENST00000432641	Transcript	5_prime_UTR_variant	1023	.	.	.	.	.	.	.	1	ACN9	HGNC	21752	protein_coding	YES	CCDS5648.1	ENSP00000414066	ACN9_HUMAN	.	UPI000007346E	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGAGGTCGCG	.	4	BLCA
ZNF655	0	.	GRCh37	7	99169382	99169382	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.208A>G	p.Lys70Glu	p.K70E	ENST00000424881	3/4	24	18	5	19	19	0	ZNF655,missense_variant,p.Lys70Glu,ENST00000422647,;ZNF655,missense_variant,p.Lys70Glu,ENST00000493277,;ZNF655,missense_variant,p.Lys70Glu,ENST00000424881,;ZNF655,missense_variant,p.Lys70Glu,ENST00000422164,;ZNF655,missense_variant,p.Lys70Glu,ENST00000427931,;ZNF655,synonymous_variant,p.%3D,ENST00000454654,;ZNF655,synonymous_variant,p.%3D,ENST00000425063,;ZNF655,intron_variant,,ENST00000252713,;ZNF655,intron_variant,,ENST00000394163,;ZNF655,downstream_gene_variant,,ENST00000449244,;ZNF655,non_coding_transcript_exon_variant,,ENST00000419215,;GS1-259H13.10,intron_variant,,ENST00000486324,;ZNF655,3_prime_UTR_variant,,ENST00000412636,;ZNF655,non_coding_transcript_exon_variant,,ENST00000494357,;GS1-259H13.10,intron_variant,,ENST00000455905,;ZNF655,downstream_gene_variant,,ENST00000493947,;	G	ENSG00000197343	ENST00000424881	Transcript	missense_variant	428	208	70	K/E	Aag/Gag	.	.	.	1	ZNF655	HGNC	30899	protein_coding	YES	CCDS47655.1	ENSP00000393876	ZN655_HUMAN	Q68DU4_HUMAN,F8WEB1_HUMAN,C9JUB9_HUMAN,C9JS03_HUMAN,C9IYG2_HUMAN	UPI000020F66D	.	tolerated(0.49)	unknown(0)	3/4	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF284	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTAAGACT	.	5	BLCA
RGS22	0	.	GRCh37	8	101076156	101076156	+	Silent	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.840A>G	p.%3D	p.V280V	ENST00000360863	8/28	263	249	14	168	168	0	RGS22,synonymous_variant,p.%3D,ENST00000523287,;RGS22,synonymous_variant,p.%3D,ENST00000523437,;RGS22,synonymous_variant,p.%3D,ENST00000360863,;RGS22,intron_variant,,ENST00000517828,;RGS22,downstream_gene_variant,,ENST00000520117,;RGS22,synonymous_variant,p.%3D,ENST00000519725,;RGS22,non_coding_transcript_exon_variant,,ENST00000520923,;	C	ENSG00000132554	ENST00000360863	Transcript	synonymous_variant	1035	840	280	V	gtA/gtG	COSM1313528,COSM1313527	.	.	-1	RGS22	HGNC	24499	protein_coding	YES	CCDS43758.1	ENSP00000354109	RGS22_HUMAN	E5RHE4_HUMAN,E5RFV6_HUMAN	UPI0000E5AF25	.	.	.	8/28	.	hmmpanther:PTHR10845:SF132,hmmpanther:PTHR10845	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAGATACAGA	.	2	BLCA
PKHD1L1	0	.	GRCh37	8	110460573	110460573	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5978T>C	p.Val1993Ala	p.V1993A	ENST00000378402	39/78	54	47	7	39	39	0	PKHD1L1,missense_variant,p.Val1993Ala,ENST00000378402,;	C	ENSG00000205038	ENST00000378402	Transcript	missense_variant	6082	5978	1993	V/A	gTt/gCt	COSM1313606	.	.	1	PKHD1L1	HGNC	20313	protein_coding	YES	CCDS47911.1	ENSP00000367655	PKHL1_HUMAN	.	UPI0000E5B020	.	tolerated(0.18)	benign(0.012)	39/78	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF213,Pfam_domain:PF01833,Gene3D:2.60.40.10,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACAGTTGTAT	.	5	BLCA
NDUFB9	0	.	GRCh37	8	125555358	125555358	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132G>A	p.Met44Ile	p.M44I	ENST00000276689	2/4	100	86	14	75	75	0	NDUFB9,missense_variant,p.Met44Ile,ENST00000522532,;NDUFB9,missense_variant,p.Met44Ile,ENST00000518008,;NDUFB9,missense_variant,p.Met44Ile,ENST00000276689,;NDUFB9,splice_region_variant,,ENST00000517367,;TATDN1,upstream_gene_variant,,ENST00000517678,;TATDN1,upstream_gene_variant,,ENST00000605953,;TATDN1,upstream_gene_variant,,ENST00000522810,;TATDN1,upstream_gene_variant,,ENST00000519232,;TATDN1,upstream_gene_variant,,ENST00000276692,;TATDN1,upstream_gene_variant,,ENST00000519548,;TATDN1,upstream_gene_variant,,ENST00000523888,;TATDN1,upstream_gene_variant,,ENST00000523152,;TATDN1,upstream_gene_variant,,ENST00000521546,;NDUFB9,non_coding_transcript_exon_variant,,ENST00000518657,;TATDN1,upstream_gene_variant,,ENST00000522280,;TATDN1,upstream_gene_variant,,ENST00000523214,;NDUFB9,upstream_gene_variant,,ENST00000524241,;TATDN1,upstream_gene_variant,,ENST00000520938,;TATDN1,upstream_gene_variant,,ENST00000522927,;TATDN1,upstream_gene_variant,,ENST00000519776,;TATDN1,upstream_gene_variant,,ENST00000520321,;TATDN1,upstream_gene_variant,,ENST00000522310,;	A	ENSG00000147684	ENST00000276689	Transcript	missense_variant	216	132	44	M/I	atG/atA	COSM1313706	.	.	1	NDUFB9	HGNC	7704	protein_coding	YES	CCDS6352.1	ENSP00000276689	NDUB9_HUMAN	Q5JVG7_HUMAN	UPI000013DADB	.	deleterious(0.02)	benign(0.001)	2/4	.	hmmpanther:PTHR12868,hmmpanther:PTHR12868:SF0,Pfam_domain:PF05347	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGATGAGAGC	.	4	BLCA
DLC1	0	.	GRCh37	8	13357474	13357474	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107T>C	p.Val36Ala	p.V36A	ENST00000276297	2/18	262	165	97	166	164	2	DLC1,missense_variant,p.Val36Ala,ENST00000511869,;DLC1,missense_variant,p.Val36Ala,ENST00000276297,;DLC1,missense_variant,p.Val36Ala,ENST00000316609,;DLC1,upstream_gene_variant,,ENST00000517868,;DLC1,non_coding_transcript_exon_variant,,ENST00000517333,;	G	ENSG00000164741	ENST00000276297	Transcript	missense_variant	517	107	36	V/A	gTa/gCa	COSM388175,COSM388176,COSM1313722	.	.	-1	DLC1	HGNC	2897	protein_coding	YES	CCDS5989.1	ENSP00000276297	RHG07_HUMAN	.	UPI0000210275	.	tolerated_low_confidence(0.72)	benign(0.001)	2/18	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CAGCTACTAGT	.	3	BLCA
DENND3	0	.	GRCh37	8	142148141	142148141	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>A	p.Glu56Lys	p.E56K	ENST00000262585	3/23	26	20	5	15	15	0	DENND3,missense_variant,p.Glu136Lys,ENST00000519811,;DENND3,missense_variant,p.Glu56Lys,ENST00000424248,;DENND3,missense_variant,p.Glu136Lys,ENST00000518347,;DENND3,missense_variant,p.Glu56Lys,ENST00000262585,;DENND3,missense_variant,p.Glu113Lys,ENST00000518668,;DENND3,missense_variant,p.Glu136Lys,ENST00000523058,;DENND3,missense_variant,p.Glu136Lys,ENST00000520986,;DENND3,missense_variant,p.Glu69Lys,ENST00000519291,;DENND3,upstream_gene_variant,,ENST00000518249,;DENND3,3_prime_UTR_variant,,ENST00000518198,;	A	ENSG00000105339	ENST00000262585	Transcript	missense_variant	444	166	56	E/K	Gaa/Aaa	COSM1313754	.	.	1	DENND3	HGNC	29134	protein_coding	YES	CCDS34947.1	ENSP00000262585	DEND3_HUMAN	B3KRG7_HUMAN	UPI00003CEFBA	.	tolerated(0.07)	possibly_damaging(0.685)	3/23	.	Pfam_domain:PF03456,hmmpanther:PTHR12296,hmmpanther:PTHR12296:SF3,PROSITE_profiles:PS50946	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTGAACCT	.	5	BLCA
RHPN1	0	.	GRCh37	8	144462009	144462009	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.956A>G	p.Glu319Gly	p.E319G	ENST00000289013	9/15	41	32	8	19	19	0	RHPN1,missense_variant,p.Glu319Gly,ENST00000289013,;RHPN1,non_coding_transcript_exon_variant,,ENST00000522335,;RHPN1,non_coding_transcript_exon_variant,,ENST00000522899,;	G	ENSG00000158106	ENST00000289013	Transcript	missense_variant	1057	956	319	E/G	gAg/gGg	COSM1313781,COSM1313780	.	.	1	RHPN1	HGNC	19973	protein_coding	YES	CCDS47927.1	ENSP00000289013	RHPN1_HUMAN	.	UPI0000071870	.	tolerated(0.23)	benign(0.311)	9/15	.	PROSITE_profiles:PS51180,hmmpanther:PTHR23031:SF6,hmmpanther:PTHR23031,Gene3D:2xs1A01,Pfam_domain:PF03097,SMART_domains:SM01041	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCGAGTACA	.	5	BLCA
EEF1D	0	.	GRCh37	8	144668447	144668447	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1229G>A	p.Ser410Asn	p.S410N	ENST00000423316	5/10	33	19	14	14	14	0	EEF1D,missense_variant,p.Ser410Asn,ENST00000423316,;EEF1D,missense_variant,p.Ser60Asn,ENST00000533749,;EEF1D,missense_variant,p.Ser44Asn,ENST00000530445,;EEF1D,missense_variant,p.Ser44Asn,ENST00000533494,;EEF1D,missense_variant,p.Ser44Asn,ENST00000530191,;EEF1D,missense_variant,p.Ser44Asn,ENST00000529272,;EEF1D,missense_variant,p.Ser44Asn,ENST00000534380,;EEF1D,missense_variant,p.Ser44Asn,ENST00000419152,;EEF1D,missense_variant,p.Ser44Asn,ENST00000526838,;EEF1D,missense_variant,p.Ser124Asn,ENST00000530616,;EEF1D,missense_variant,p.Ser44Asn,ENST00000531218,;EEF1D,missense_variant,p.Ser460Asn,ENST00000532741,;EEF1D,missense_variant,p.Ser44Asn,ENST00000395119,;EEF1D,missense_variant,p.Ser44Asn,ENST00000526340,;EEF1D,missense_variant,p.Ser44Asn,ENST00000317198,;EEF1D,missense_variant,p.Ser44Asn,ENST00000529516,;EEF1D,missense_variant,p.Ser44Asn,ENST00000533204,;EEF1D,missense_variant,p.Ser410Asn,ENST00000442189,;EEF1D,intron_variant,,ENST00000528610,;EEF1D,intron_variant,,ENST00000532400,;EEF1D,intron_variant,,ENST00000524624,;EEF1D,intron_variant,,ENST00000528382,;EEF1D,intron_variant,,ENST00000531621,;EEF1D,intron_variant,,ENST00000534377,;EEF1D,downstream_gene_variant,,ENST00000531670,;EEF1D,downstream_gene_variant,,ENST00000526135,;EEF1D,downstream_gene_variant,,ENST00000534804,;EEF1D,downstream_gene_variant,,ENST00000528303,;EEF1D,downstream_gene_variant,,ENST00000529832,;EEF1D,downstream_gene_variant,,ENST00000525261,;EEF1D,downstream_gene_variant,,ENST00000524883,;EEF1D,downstream_gene_variant,,ENST00000525223,;EEF1D,downstream_gene_variant,,ENST00000526133,;EEF1D,downstream_gene_variant,,ENST00000528519,;EEF1D,downstream_gene_variant,,ENST00000534475,;EEF1D,downstream_gene_variant,,ENST00000530545,;EEF1D,downstream_gene_variant,,ENST00000532596,;EEF1D,downstream_gene_variant,,ENST00000532543,;EEF1D,downstream_gene_variant,,ENST00000530306,;EEF1D,downstream_gene_variant,,ENST00000531281,;EEF1D,downstream_gene_variant,,ENST00000531931,;EEF1D,downstream_gene_variant,,ENST00000531953,;EEF1D,downstream_gene_variant,,ENST00000524900,;EEF1D,downstream_gene_variant,,ENST00000526710,;EEF1D,missense_variant,p.Ser44Asn,ENST00000529007,;EEF1D,missense_variant,p.Ser44Asn,ENST00000524397,;EEF1D,non_coding_transcript_exon_variant,,ENST00000526786,;EEF1D,non_coding_transcript_exon_variant,,ENST00000525695,;EEF1D,non_coding_transcript_exon_variant,,ENST00000530848,;EEF1D,non_coding_transcript_exon_variant,,ENST00000534232,;EEF1D,intron_variant,,ENST00000533833,;EEF1D,upstream_gene_variant,,ENST00000527741,;	T	ENSG00000104529	ENST00000423316	Transcript	missense_variant	1571	1229	410	S/N	aGc/aAc	COSM1313786	.	.	-1	EEF1D	HGNC	3211	protein_coding	YES	CCDS6404.1	ENSP00000410059	EF1D_HUMAN	E9PRL0_HUMAN,E9PQR8_HUMAN,E9PQC9_HUMAN,E9PQ49_HUMAN,E9PPY1_HUMAN,E9PPR1_HUMAN,E9PNW6_HUMAN,E9PNC8_HUMAN,E9PN71_HUMAN,E9PN56_HUMAN,E9PMW7_HUMAN,E9PM66_HUMAN,E9PLT8_HUMAN,E9PLS6_HUMAN,E9PLL8_HUMAN,E9PLA1_HUMAN,E9PL21_HUMAN,E9PL12_HUMAN,E9PKK3_HUMAN,E9PKH7_HUMAN,E9PK72_HUMAN,E9PK01_HUMAN,E9PJV8_HUMAN,E9PJ84_HUMAN,E9PIP5_HUMAN,E9PI93_HUMAN,E9PI39_HUMAN	UPI000013C7A6	.	tolerated(0.33)	benign(0.285)	5/10	.	hmmpanther:PTHR11595,hmmpanther:PTHR11595:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACGCTGGCG	.	5	BLCA
TIGD5	0	.	GRCh37	8	144680461	144680461	+	Missense_Mutation	SNP	G	G	A	rs774881270	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.388G>A	p.Ala130Thr	p.A130T	ENST00000504548	1/1	37	21	16	18	17	1	TIGD5,missense_variant,p.Ala130Thr,ENST00000504548,;TIGD5,missense_variant,p.Ala81Thr,ENST00000321385,;EEF1D,intron_variant,,ENST00000533749,;EEF1D,upstream_gene_variant,,ENST00000423316,;EEF1D,upstream_gene_variant,,ENST00000528610,;EEF1D,upstream_gene_variant,,ENST00000531670,;EEF1D,upstream_gene_variant,,ENST00000534804,;EEF1D,upstream_gene_variant,,ENST00000528303,;EEF1D,upstream_gene_variant,,ENST00000529832,;EEF1D,upstream_gene_variant,,ENST00000525261,;EEF1D,upstream_gene_variant,,ENST00000533494,;EEF1D,upstream_gene_variant,,ENST00000530191,;EEF1D,upstream_gene_variant,,ENST00000529272,;EEF1D,upstream_gene_variant,,ENST00000534380,;EEF1D,upstream_gene_variant,,ENST00000526133,;EEF1D,upstream_gene_variant,,ENST00000419152,;EEF1D,upstream_gene_variant,,ENST00000526838,;EEF1D,upstream_gene_variant,,ENST00000534475,;EEF1D,upstream_gene_variant,,ENST00000532400,;EEF1D,upstream_gene_variant,,ENST00000524624,;EEF1D,upstream_gene_variant,,ENST00000530545,;EEF1D,upstream_gene_variant,,ENST00000531218,;EEF1D,upstream_gene_variant,,ENST00000532596,;EEF1D,upstream_gene_variant,,ENST00000532543,;EEF1D,upstream_gene_variant,,ENST00000530306,;EEF1D,upstream_gene_variant,,ENST00000395119,;EEF1D,upstream_gene_variant,,ENST00000526340,;EEF1D,upstream_gene_variant,,ENST00000317198,;EEF1D,upstream_gene_variant,,ENST00000531931,;EEF1D,upstream_gene_variant,,ENST00000531281,;EEF1D,upstream_gene_variant,,ENST00000529516,;EEF1D,upstream_gene_variant,,ENST00000531953,;EEF1D,upstream_gene_variant,,ENST00000533204,;EEF1D,upstream_gene_variant,,ENST00000534377,;EEF1D,upstream_gene_variant,,ENST00000531621,;EEF1D,upstream_gene_variant,,ENST00000524900,;EEF1D,upstream_gene_variant,,ENST00000526710,;EEF1D,upstream_gene_variant,,ENST00000442189,;RP11-661A12.14,upstream_gene_variant,,ENST00000606452,;EEF1D,upstream_gene_variant,,ENST00000531770,;EEF1D,upstream_gene_variant,,ENST00000526786,;EEF1D,upstream_gene_variant,,ENST00000525695,;EEF1D,upstream_gene_variant,,ENST00000530848,;EEF1D,upstream_gene_variant,,ENST00000529007,;EEF1D,upstream_gene_variant,,ENST00000524397,;EEF1D,upstream_gene_variant,,ENST00000533833,;EEF1D,upstream_gene_variant,,ENST00000534232,;	A	ENSG00000179886	ENST00000504548	Transcript	missense_variant	388	388	130	A/T	Gcc/Acc	rs774881270,COSM1313787	.	.	1	TIGD5	HGNC	18336	protein_coding	YES	CCDS6406.2	ENSP00000421489	TIGD5_HUMAN	.	UPI0001BAE24C	.	tolerated(0.67)	benign(0.019)	1/1	.	PROSITE_profiles:PS51253,hmmpanther:PTHR19303:SF210,hmmpanther:PTHR19303,Gene3D:1.10.10.60,Pfam_domain:PF03221,SMART_domains:SM00674,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TGTACGCCTGG	.	2	BLCA
TONSL	0	.	GRCh37	8	145660258	145660258	+	Silent	SNP	C	C	T	rs760452559	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3021G>A	p.%3D	p.V1007V	ENST00000409379	20/26	75	63	12	41	40	1	TONSL,synonymous_variant,p.%3D,ENST00000409379,;AC084125.4,upstream_gene_variant,,ENST00000544423,;AC084125.4,upstream_gene_variant,,ENST00000442850,;TONSL,non_coding_transcript_exon_variant,,ENST00000497613,;	T	ENSG00000160949	ENST00000409379	Transcript	synonymous_variant	3051	3021	1007	V	gtG/gtA	rs760452559,COSM1313860,COSM1313859	.	.	-1	TONSL	HGNC	7801	protein_coding	YES	CCDS34968.2	ENSP00000386239	TONSL_HUMAN	.	UPI0000424A3B	.	.	.	20/26	.	hmmpanther:PTHR24139:SF31,hmmpanther:PTHR24139	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAAGTCACCTC	byFrequency	3	BLCA
KIFC2	0	.	GRCh37	8	145697774	145697774	+	Silent	SNP	C	C	T	rs370114230	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1638C>T	p.%3D	p.R546R	ENST00000301332	15/17	63	45	18	42	41	1	KIFC2,synonymous_variant,p.%3D,ENST00000301332,;KIFC2,intron_variant,,ENST00000301331,;FOXH1,downstream_gene_variant,,ENST00000377317,;KIFC2,non_coding_transcript_exon_variant,,ENST00000531423,;FOXH1,downstream_gene_variant,,ENST00000525197,;KIFC2,non_coding_transcript_exon_variant,,ENST00000531425,;KIFC2,downstream_gene_variant,,ENST00000529864,;KIFC2,downstream_gene_variant,,ENST00000529644,;KIFC2,downstream_gene_variant,,ENST00000533114,;	T	ENSG00000167702	ENST00000301332	Transcript	synonymous_variant	2015	1638	546	R	cgC/cgT	rs370114230,COSM1313863	.	.	1	KIFC2	HGNC	29530	protein_coding	YES	CCDS6427.1	ENSP00000301332	KIFC2_HUMAN	.	UPI000006D3B2	.	.	.	15/17	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF337,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GAGCGCCTGGC	byCluster	4	BLCA
RECQL4	0	.	GRCh37	8	145738372	145738372	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2613G>A	p.%3D	p.E871E	ENST00000428558	16/22	12	7	4	10	10	0	RECQL4,synonymous_variant,p.%3D,ENST00000534626,;RECQL4,synonymous_variant,p.%3D,ENST00000428558,;MFSD3,downstream_gene_variant,,ENST00000301327,;RECQL4,downstream_gene_variant,,ENST00000524998,;RECQL4,downstream_gene_variant,,ENST00000532846,;CTD-2517M22.17,intron_variant,,ENST00000580385,;RECQL4,non_coding_transcript_exon_variant,,ENST00000532237,;RECQL4,non_coding_transcript_exon_variant,,ENST00000532269,;RECQL4,upstream_gene_variant,,ENST00000531875,;RECQL4,upstream_gene_variant,,ENST00000529424,;RECQL4,upstream_gene_variant,,ENST00000301323,;MFSD3,downstream_gene_variant,,ENST00000534427,;MFSD3,downstream_gene_variant,,ENST00000528047,;RECQL4,downstream_gene_variant,,ENST00000534538,;RECQL4,downstream_gene_variant,,ENST00000534270,;MFSD3,downstream_gene_variant,,ENST00000526749,;	T	ENSG00000160957	ENST00000428558	Transcript	synonymous_variant	2655	2613	871	E	gaG/gaA	COSM1313871	.	.	-1	RECQL4	HGNC	9949	protein_coding	YES	.	ENSP00000475456	.	U3KQ17_HUMAN	UPI0000E5E124	.	.	.	16/22	.	hmmpanther:PTHR13710,hmmpanther:PTHR13710:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	GGCCTCTCCCC	.	3	BLCA
SLC7A2	0	.	GRCh37	8	17396424	17396424	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91T>G	p.Phe31Val	p.F31V	ENST00000004531	1/12	119	102	17	66	65	0	SLC7A2,missense_variant,p.Phe31Val,ENST00000470360,;SLC7A2,missense_variant,p.Phe31Val,ENST00000398090,;SLC7A2,missense_variant,p.Phe31Val,ENST00000004531,;SLC7A2,intron_variant,,ENST00000522656,;SLC7A2,intron_variant,,ENST00000494857,;	G	ENSG00000003989	ENST00000004531	Transcript	missense_variant	139	91	31	F/V	Ttt/Gtt	.	.	.	1	SLC7A2	HGNC	11060	protein_coding	YES	CCDS55203.1	ENSP00000004531	CTR2_HUMAN	.	UPI0001A336A4	.	tolerated_low_confidence(0.22)	benign(0)	1/12	.	hmmpanther:PTHR11785:SF242,hmmpanther:PTHR11785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCAAGTTTCTC	.	3	BLCA
PSD3	0	.	GRCh37	8	18662314	18662314	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1729G>T	p.Gly577Cys	p.G577C	ENST00000327040	5/16	372	296	76	228	227	1	PSD3,missense_variant,p.Gly512Cys,ENST00000523619,;PSD3,missense_variant,p.Gly577Cys,ENST00000327040,;PSD3,missense_variant,p.Gly18Cys,ENST00000519851,;PSD3,missense_variant,p.Gly43Cys,ENST00000286485,;PSD3,missense_variant,p.Gly25Cys,ENST00000521027,;PSD3,missense_variant,p.Gly10Cys,ENST00000520858,;PSD3,missense_variant,p.Gly577Cys,ENST00000440756,;AC090420.1,downstream_gene_variant,,ENST00000516154,;PSD3,non_coding_transcript_exon_variant,,ENST00000519653,;PSD3,missense_variant,p.Gly43Cys,ENST00000518315,;PSD3,missense_variant,p.Gly43Cys,ENST00000517971,;PSD3,non_coding_transcript_exon_variant,,ENST00000518303,;PSD3,non_coding_transcript_exon_variant,,ENST00000518963,;PSD3,non_coding_transcript_exon_variant,,ENST00000519633,;	A	ENSG00000156011	ENST00000327040	Transcript	missense_variant	1832	1729	577	G/C	Ggt/Tgt	COSM1313907,COSM1313908	.	.	-1	PSD3	HGNC	19093	protein_coding	YES	CCDS43720.1	ENSP00000324127	PSD3_HUMAN	E5RJE4_HUMAN,E5RJ29_HUMAN	UPI0000210A46	.	deleterious(0.01)	benign(0.424)	5/16	.	PROSITE_profiles:PS50190,hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF106,Pfam_domain:PF01369,SMART_domains:SM00222,Superfamily_domains:SSF48425	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTACCATTAC	.	4	BLCA
SH2D4A	0	.	GRCh37	8	19190582	19190582	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298G>A	p.Glu100Lys	p.E100K	ENST00000265807	3/10	141	108	32	95	94	1	SH2D4A,missense_variant,p.Glu86Lys,ENST00000523736,;SH2D4A,missense_variant,p.Glu100Lys,ENST00000265807,;SH2D4A,missense_variant,p.Glu100Lys,ENST00000519207,;SH2D4A,missense_variant,p.Glu55Lys,ENST00000518040,;	A	ENSG00000104611	ENST00000265807	Transcript	missense_variant	709	298	100	E/K	Gag/Aag	COSM1313910	.	.	1	SH2D4A	HGNC	26102	protein_coding	YES	CCDS6009.1	ENSP00000265807	SH24A_HUMAN	.	UPI000007372B	.	deleterious(0.01)	benign(0.21)	3/10	.	hmmpanther:PTHR14388:SF5,hmmpanther:PTHR14388	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCTGAGAGG	.	5	BLCA
PDLIM2	0	.	GRCh37	8	22442884	22442884	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1262C>G	p.Ser421Cys	p.S421C	ENST00000308354	6/10	40	34	5	23	23	0	PDLIM2,missense_variant,p.Ser171Cys,ENST00000265810,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000426493,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000429812,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000456545,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000397760,;PDLIM2,missense_variant,p.Ser421Cys,ENST00000308354,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000339162,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000409141,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000409417,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000397761,;PDLIM2,missense_variant,p.Ser171Cys,ENST00000452226,;AC037459.4,upstream_gene_variant,,ENST00000430850,;PDLIM2,downstream_gene_variant,,ENST00000436754,;AC037459.4,upstream_gene_variant,,ENST00000450780,;AC037459.4,upstream_gene_variant,,ENST00000447849,;PDLIM2,non_coding_transcript_exon_variant,,ENST00000448520,;PDLIM2,upstream_gene_variant,,ENST00000443561,;PDLIM2,3_prime_UTR_variant,,ENST00000416159,;PDLIM2,non_coding_transcript_exon_variant,,ENST00000491330,;PDLIM2,upstream_gene_variant,,ENST00000464275,;	G	ENSG00000120913	ENST00000308354	Transcript	missense_variant	1301	1262	421	S/C	tCc/tGc	COSM1313930,COSM1313929	.	.	1	PDLIM2	HGNC	13992	protein_coding	YES	CCDS6032.2	ENSP00000312634	PDLI2_HUMAN	C9K0F0_HUMAN,C9JSR2_HUMAN,C9JS55_HUMAN,C9J760_HUMAN,C9J0X3_HUMAN,B3KPU0_HUMAN	UPI0000E5AE4E	.	deleterious(0.01)	probably_damaging(0.965)	6/10	.	hmmpanther:PTHR24214,hmmpanther:PTHR24214:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGTCCTACT	.	4	BLCA
TNFRSF10A	0	.	GRCh37	8	23056919	23056919	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874G>A	p.Glu292Lys	p.E292K	ENST00000221132	8/10	104	63	41	81	80	1	TNFRSF10A,missense_variant,p.Glu292Lys,ENST00000221132,;TNFRSF10A,downstream_gene_variant,,ENST00000524158,;TNFRSF10A,upstream_gene_variant,,ENST00000519862,;	T	ENSG00000104689	ENST00000221132	Transcript	missense_variant	939	874	292	E/K	Gag/Aag	COSM1313938	.	.	-1	TNFRSF10A	HGNC	11904	protein_coding	YES	CCDS6039.1	ENSP00000221132	TR10A_HUMAN	E5RFH1_HUMAN	UPI000013C7A8	.	tolerated(1)	benign(0.024)	8/10	.	hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF41,PIRSF_domain:PIRSF037867	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCAGCCC	.	5	BLCA
CHMP7	0	.	GRCh37	8	23112797	23112797	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509C>T	p.Ser170Leu	p.S170L	ENST00000397677	4/11	75	59	16	63	63	0	CHMP7,missense_variant,p.Ser170Leu,ENST00000397677,;CHMP7,missense_variant,p.Ser183Leu,ENST00000519984,;CHMP7,missense_variant,p.Ser170Leu,ENST00000313219,;CHMP7,upstream_gene_variant,,ENST00000520102,;CHMP7,missense_variant,p.Arg113Cys,ENST00000519503,;CHMP7,3_prime_UTR_variant,,ENST00000517325,;CHMP7,3_prime_UTR_variant,,ENST00000519414,;CHMP7,non_coding_transcript_exon_variant,,ENST00000523091,;CHMP7,non_coding_transcript_exon_variant,,ENST00000519529,;CHMP7,upstream_gene_variant,,ENST00000521656,;	T	ENSG00000147457	ENST00000397677	Transcript	missense_variant	1157	509	170	S/L	tCg/tTg	COSM1313940	.	.	1	CHMP7	HGNC	28439	protein_coding	YES	CCDS6040.1	ENSP00000380794	CHMP7_HUMAN	E5RJI3_HUMAN,B3KRZ9_HUMAN,B3KMN6_HUMAN	UPI0000049FB7	.	deleterious(0.03)	benign(0.063)	4/11	.	hmmpanther:PTHR22761:SF6,hmmpanther:PTHR22761	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACTCGCCCC	.	5	BLCA
NEFM	0	.	GRCh37	8	24775841	24775841	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2473G>A	p.Glu825Lys	p.E825K	ENST00000221166	3/3	46	23	23	33	32	1	NEFM,missense_variant,p.Glu449Lys,ENST00000433454,;NEFM,missense_variant,p.Glu607Lys,ENST00000518131,;NEFM,missense_variant,p.Glu825Lys,ENST00000221166,;NEFM,missense_variant,p.Glu786Lys,ENST00000437366,;GS1-72M22.1,upstream_gene_variant,,ENST00000607058,;NEFM,non_coding_transcript_exon_variant,,ENST00000521540,;NEFM,downstream_gene_variant,,ENST00000523467,;	A	ENSG00000104722	ENST00000221166	Transcript	missense_variant	3255	2473	825	E/K	Gag/Aag	COSM1313945	.	.	1	NEFM	HGNC	7734	protein_coding	YES	CCDS6046.1	ENSP00000221166	NFM_HUMAN	.	UPI000013C7A9	.	tolerated_low_confidence(0.21)	possibly_damaging(0.874)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23239:SF19,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GGGAAGAGGAG	.	2	BLCA
EPHX2	0	.	GRCh37	8	27361273	27361273	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339G>T	p.Arg113Ser	p.R113S	ENST00000521400	3/19	131	105	26	85	84	1	EPHX2,missense_variant,p.Arg113Ser,ENST00000518379,;EPHX2,missense_variant,p.Arg47Ser,ENST00000521780,;EPHX2,missense_variant,p.Arg60Ser,ENST00000380476,;EPHX2,missense_variant,p.Arg113Ser,ENST00000518328,;EPHX2,missense_variant,p.Arg113Ser,ENST00000521400,;EPHX2,missense_variant,p.Arg113Ser,ENST00000521684,;EPHX2,intron_variant,,ENST00000517536,;EPHX2,non_coding_transcript_exon_variant,,ENST00000523827,;EPHX2,non_coding_transcript_exon_variant,,ENST00000520666,;EPHX2,non_coding_transcript_exon_variant,,ENST00000520623,;EPHX2,upstream_gene_variant,,ENST00000521924,;	T	ENSG00000120915	ENST00000521400	Transcript	missense_variant	769	339	113	R/S	agG/agT	COSM1313973	.	.	1	EPHX2	HGNC	3402	protein_coding	YES	CCDS6060.1	ENSP00000430269	HYES_HUMAN	E5RI53_HUMAN	UPI0000073FE5	.	deleterious(0.02)	possibly_damaging(0.625)	3/19	.	TIGRFAM_domain:TIGR02247,Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR01509,Pfam_domain:PF13419,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCAGGAAGAA	.	4	BLCA
TTI2	0	.	GRCh37	8	33370001	33370001	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131G>A	p.Arg44Gln	p.R44Q	ENST00000431156	2/8	200	164	35	127	127	0	TTI2,missense_variant,p.Arg44Gln,ENST00000431156,;TTI2,missense_variant,p.Arg44Gln,ENST00000520636,;TTI2,missense_variant,p.Arg44Gln,ENST00000360742,;TTI2,missense_variant,p.Arg44Gln,ENST00000523305,;SNORD13,upstream_gene_variant,,ENST00000459299,;TTI2,upstream_gene_variant,,ENST00000519356,;	T	ENSG00000129696	ENST00000431156	Transcript	missense_variant	750	131	44	R/Q	cGa/cAa	COSM1314004	.	.	-1	TTI2	HGNC	26262	protein_coding	YES	CCDS6090.1	ENSP00000411169	TTI2_HUMAN	E5RHM7_HUMAN	UPI000013D26B	.	tolerated(0.36)	benign(0.007)	2/8	.	hmmpanther:PTHR32226,hmmpanther:PTHR32226:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TGCCTCGTCGT	.	3	BLCA
TTI2	0	.	GRCh37	8	33371063	33371063	+	5'UTR	SNP	C	C	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-563G>C	.	.	ENST00000431156	1/8	240	146	94	134	133	1	TTI2,5_prime_UTR_variant,,ENST00000431156,;TTI2,upstream_gene_variant,,ENST00000520636,;TTI2,upstream_gene_variant,,ENST00000360742,;TTI2,upstream_gene_variant,,ENST00000523305,;SNORD13,non_coding_transcript_exon_variant,,ENST00000459299,;TTI2,upstream_gene_variant,,ENST00000519356,;	G	ENSG00000129696	ENST00000431156	Transcript	5_prime_UTR_variant	57	.	.	.	.	.	.	.	-1	TTI2	HGNC	26262	protein_coding	YES	CCDS6090.1	ENSP00000411169	TTI2_HUMAN	E5RHM7_HUMAN	UPI000013D26B	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAACCTTGTT	.	5	BLCA
WHSC1L1	0	.	GRCh37	8	38205724	38205724	+	5'UTR	SNP	C	C	G	rs780720930	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-35G>C	.	.	ENST00000317025	2/24	122	97	25	82	80	2	WHSC1L1,5_prime_UTR_variant,,ENST00000316985,;WHSC1L1,5_prime_UTR_variant,,ENST00000529223,;WHSC1L1,5_prime_UTR_variant,,ENST00000433384,;WHSC1L1,5_prime_UTR_variant,,ENST00000317025,;WHSC1L1,5_prime_UTR_variant,,ENST00000534155,;WHSC1L1,5_prime_UTR_variant,,ENST00000534539,;WHSC1L1,5_prime_UTR_variant,,ENST00000527502,;	G	ENSG00000147548	ENST00000317025	Transcript	5_prime_UTR_variant	484	.	.	.	.	rs780720930	.	.	-1	WHSC1L1	HGNC	12767	protein_coding	YES	CCDS43729.1	ENSP00000313983	NSD3_HUMAN	E9PQ95_HUMAN,E9PKA2_HUMAN	UPI000006F297	.	.	.	2/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TTTCTCTCATC	.	2	BLCA
ADAM2	0	.	GRCh37	8	39645638	39645638	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775G>T	p.Val259Phe	p.V259F	ENST00000265708	9/21	123	103	20	65	64	1	ADAM2,missense_variant,p.Val259Phe,ENST00000521880,;ADAM2,missense_variant,p.Val259Phe,ENST00000265708,;ADAM2,missense_variant,p.Val240Phe,ENST00000347580,;ADAM2,intron_variant,,ENST00000379853,;	A	ENSG00000104755	ENST00000265708	Transcript	missense_variant	879	775	259	V/F	Gtt/Ttt	COSM1314043	.	.	-1	ADAM2	HGNC	198	protein_coding	YES	CCDS34884.1	ENSP00000265708	ADAM2_HUMAN	.	UPI00001254C2	.	deleterious(0.03)	benign(0.159)	9/21	.	PROSITE_profiles:PS50215,hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF108,Gene3D:3.40.390.10,Pfam_domain:PF01421,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAAACAAGAT	.	4	BLCA
RB1CC1	0	.	GRCh37	8	53568671	53568671	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3718G>A	p.Glu1240Lys	p.E1240K	ENST00000025008	15/24	187	105	81	131	131	0	RB1CC1,missense_variant,p.Glu1240Lys,ENST00000025008,;RB1CC1,missense_variant,p.Glu1240Lys,ENST00000539297,;RB1CC1,missense_variant,p.Glu1240Lys,ENST00000435644,;RB1CC1,intron_variant,,ENST00000521611,;RB1CC1,downstream_gene_variant,,ENST00000523594,;	T	ENSG00000023287	ENST00000025008	Transcript	missense_variant	4242	3718	1240	E/K	Gaa/Aaa	COSM1314099	.	.	-1	RB1CC1	HGNC	15574	protein_coding	YES	CCDS34892.1	ENSP00000025008	RBCC1_HUMAN	E5RH63_HUMAN,B4DGF9_HUMAN	UPI0000DBEF23	.	tolerated(0.15)	benign(0.001)	15/24	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13222:SF1,hmmpanther:PTHR13222	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTCATCTT	.	5	BLCA
PENK	0	.	GRCh37	8	57353869	57353869	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.766G>A	p.Glu256Lys	p.E256K	ENST00000314922	2/2	289	182	106	177	176	1	PENK,missense_variant,p.Glu256Lys,ENST00000314922,;PENK,missense_variant,p.Glu256Lys,ENST00000451791,;PENK,intron_variant,,ENST00000517415,;PENK,downstream_gene_variant,,ENST00000518974,;PENK,downstream_gene_variant,,ENST00000523051,;PENK,downstream_gene_variant,,ENST00000518770,;RP11-17A4.2,upstream_gene_variant,,ENST00000518662,;PENK,upstream_gene_variant,,ENST00000520589,;PENK,downstream_gene_variant,,ENST00000523274,;PENK,downstream_gene_variant,,ENST00000521153,;	T	ENSG00000181195	ENST00000314922	Transcript	missense_variant	843	766	256	E/K	Gaa/Aaa	COSM1314122	.	.	-1	PENK	HGNC	8831	protein_coding	YES	CCDS6168.1	ENSP00000324248	PENK_HUMAN	E5RFR1_HUMAN	UPI00001315A9	.	deleterious(0.04)	benign(0.072)	2/2	.	Prints_domain:PR01029,hmmpanther:PTHR11438:SF3,hmmpanther:PTHR11438	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCAGGAA	.	5	BLCA
TOX	0	.	GRCh37	8	59728257	59728257	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1032G>C	p.Lys344Asn	p.K344N	ENST00000361421	7/9	106	78	28	80	80	0	TOX,missense_variant,p.Lys344Asn,ENST00000361421,;RNU4-50P,upstream_gene_variant,,ENST00000364361,;	G	ENSG00000198846	ENST00000361421	Transcript	missense_variant	1253	1032	344	K/N	aaG/aaC	COSM1314128	.	.	-1	TOX	HGNC	18988	protein_coding	YES	CCDS34897.1	ENSP00000354842	TOX_HUMAN	B4DYA1_HUMAN	UPI0000070A73	.	deleterious(0)	benign(0.395)	7/9	.	hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF155	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGTCTTCAC	.	5	BLCA
CHMP4C	0	.	GRCh37	8	82670747	82670747	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.670G>A	p.Asp224Asn	p.D224N	ENST00000297265	5/5	127	105	21	81	81	0	CHMP4C,missense_variant,p.Asp224Asn,ENST00000297265,;	A	ENSG00000164695	ENST00000297265	Transcript	missense_variant	863	670	224	D/N	Gat/Aat	COSM1314232	.	.	1	CHMP4C	HGNC	30599	protein_coding	YES	CCDS6233.1	ENSP00000297265	CHM4C_HUMAN	.	UPI000005032A	.	deleterious(0.02)	benign(0.128)	5/5	.	hmmpanther:PTHR22761,hmmpanther:PTHR22761:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.D224N|c.670G>A|3	RADIA|MUTECT|MUSE|VARSCANS	ATGATGATATC	.	4	BLCA
CNGB3	0	.	GRCh37	8	87587971	87587971	+	3'UTR	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61T>C	.	.	ENST00000320005	18/18	35	25	10	17	17	0	CNGB3,3_prime_UTR_variant,,ENST00000320005,;CNGB3,intron_variant,,ENST00000517327,;	G	ENSG00000170289	ENST00000320005	Transcript	3_prime_UTR_variant	2539	.	.	.	.	.	.	.	-1	CNGB3	HGNC	2153	protein_coding	YES	CCDS6244.1	ENSP00000316605	CNGB3_HUMAN	.	UPI000014076F	.	.	.	18/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTACAATC	.	5	BLCA
NBN	0	.	GRCh37	8	90995014	90995014	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107A>C	p.Glu36Ala	p.E36A	ENST00000265433	2/16	161	126	35	99	99	0	NBN,missense_variant,p.Glu36Ala,ENST00000265433,;NBN,missense_variant,p.Glu36Ala,ENST00000519426,;NBN,5_prime_UTR_variant,,ENST00000517337,;NBN,5_prime_UTR_variant,,ENST00000409330,;NBN,upstream_gene_variant,,ENST00000517772,;NBN,missense_variant,p.Glu36Ala,ENST00000523444,;NBN,missense_variant,p.Glu36Ala,ENST00000396252,;NBN,non_coding_transcript_exon_variant,,ENST00000494804,;	G	ENSG00000104320	ENST00000265433	Transcript	missense_variant	262	107	36	E/A	gAa/gCa	COSM1314258	.	.	-1	NBN	HGNC	7652	protein_coding	YES	CCDS6249.1	ENSP00000265433	NBN_HUMAN	E5RGR7_HUMAN,E5RGN7_HUMAN	UPI0000073BF4	.	deleterious(0.03)	benign(0.069)	2/16	.	PROSITE_profiles:PS50006,hmmpanther:PTHR12162,Pfam_domain:PF00498,Gene3D:2.60.200.20,PIRSF_domain:PIRSF011869,SMART_domains:SM00240,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTTCAATC	.	5	BLCA
EPB41L4B	0	.	GRCh37	9	112018495	112018495	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.850G>A	p.Gly284Ser	p.G284S	ENST00000374566	9/26	135	52	83	115	115	0	EPB41L4B,missense_variant,p.Gly284Ser,ENST00000374566,;EPB41L4B,missense_variant,p.Gly284Ser,ENST00000374557,;	T	ENSG00000095203	ENST00000374566	Transcript	missense_variant	1368	850	284	G/S	Ggc/Agc	COSM1314355,COSM1314356	.	.	-1	EPB41L4B	HGNC	19818	protein_coding	YES	CCDS43859.1	ENSP00000363694	E41LB_HUMAN	.	UPI0000458994	.	deleterious(0.04)	probably_damaging(1)	9/26	.	PROSITE_profiles:PS50057,hmmpanther:PTHR23280:SF18,hmmpanther:PTHR23280,Gene3D:2.30.29.30,Pfam_domain:PF09380,Superfamily_domains:SSF50729,Prints_domain:PR00661	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGCCATCTC	.	5	BLCA
TLR4	0	.	GRCh37	9	120470999	120471017	+	Splice_Site	DEL	TTTATCCAGGTAATGAATC	TTTATCCAGGTAATGAATC	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	TTTATCCAGGTAATGAATC	TTTATCCAGGTAATGAATC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252_260+10delTTTATCCAGGTAATGAATC	.	p.X84_splice	ENST00000355622	2/3	209	111	98	211	211	0	TLR4,splice_donor_variant,,ENST00000355622,;TLR4,splice_donor_variant,,ENST00000394487,;RNU6-1082P,upstream_gene_variant,,ENST00000364574,;TLR4,non_coding_transcript_exon_variant,,ENST00000490685,;TLR4,intron_variant,,ENST00000472304,;	-	ENSG00000136869	ENST00000355622	Transcript	splice_donor_variant	353-?	252-?	84-?	.	.	.	.	.	1	TLR4	HGNC	11850	protein_coding	YES	CCDS6818.1	ENSP00000363089	TLR4_HUMAN	K9MSZ3_HUMAN,D0EWT7_HUMAN	UPI0000137057	.	.	.	2/3	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCTGGATTTATCCAGGTAATGAATCCACTT	.	3	BLCA
CNTRL	0	.	GRCh37	9	123852674	123852674	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339G>A	p.%3D	p.K113K	ENST00000373855	4/44	111	51	59	111	110	1	CNTRL,synonymous_variant,p.%3D,ENST00000373855,;CNTRL,synonymous_variant,p.%3D,ENST00000373865,;CNTRL,synonymous_variant,p.%3D,ENST00000238341,;	A	ENSG00000119397	ENST00000373855	Transcript	synonymous_variant	599	339	113	K	aaG/aaA	COSM1314413	.	.	1	CNTRL	HGNC	1858	protein_coding	YES	CCDS35118.1	ENSP00000362962	CNTRL_HUMAN	Q5JVD3_HUMAN,Q5JVD6_HUMAN,Q5JVD1_HUMAN	UPI0000211718	.	.	.	4/44	.	hmmpanther:PTHR18877,hmmpanther:PTHR18877:SF1,Gene3D:3.80.10.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAAGAAATT	.	5	BLCA
GTF3C4	0	.	GRCh37	9	135564352	135564352	+	3'UTR	SNP	T	T	C	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*20T>C	.	.	ENST00000372146	5/5	71	33	38	64	64	0	GTF3C4,3_prime_UTR_variant,,ENST00000372146,;	C	ENSG00000125484	ENST00000372146	Transcript	3_prime_UTR_variant	3053	.	.	.	.	.	.	.	1	GTF3C4	HGNC	4667	protein_coding	YES	CCDS6953.1	ENSP00000361219	TF3C4_HUMAN	B3KNH2_HUMAN	UPI000013CBAB	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAGATGGAAG	.	2	BLCA
C9orf96	0	.	GRCh37	9	136269137	136269137	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1697C>T	p.Ala566Val	p.A566V	ENST00000371957	16/18	91	42	48	78	77	1	C9orf96,missense_variant,p.Ala99Val,ENST00000371955,;C9orf96,missense_variant,p.Ala566Val,ENST00000371957,;REXO4,downstream_gene_variant,,ENST00000371935,;REXO4,downstream_gene_variant,,ENST00000454825,;REXO4,downstream_gene_variant,,ENST00000371942,;	T	ENSG00000198870	ENST00000371957	Transcript	missense_variant	1804	1697	566	A/V	gCc/gTc	COSM1314598,COSM1314597	.	.	1	C9orf96	HGNC	28669	protein_coding	YES	CCDS35169.1	ENSP00000361025	SGK71_HUMAN	.	UPI00001D763E	.	tolerated(0.08)	possibly_damaging(0.742)	16/18	.	hmmpanther:PTHR24363:SF3,hmmpanther:PTHR24363,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATGCCTACC	.	5	BLCA
PHPT1	0	.	GRCh37	9	139745408	139745408	+	3'UTR	SNP	G	G	A	rs767948348	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*109G>A	.	.	ENST00000247665	3/3	88	67	20	85	84	1	PHPT1,3_prime_UTR_variant,,ENST00000545326,;PHPT1,3_prime_UTR_variant,,ENST00000371661,;PHPT1,3_prime_UTR_variant,,ENST00000247665,;C9orf172,downstream_gene_variant,,ENST00000436881,;MAMDC4,upstream_gene_variant,,ENST00000445819,;MAMDC4,upstream_gene_variant,,ENST00000317446,;PHPT1,non_coding_transcript_exon_variant,,ENST00000497413,;MAMDC4,non_coding_transcript_exon_variant,,ENST00000485732,;PHPT1,non_coding_transcript_exon_variant,,ENST00000462205,;PHPT1,non_coding_transcript_exon_variant,,ENST00000463215,;PHPT1,non_coding_transcript_exon_variant,,ENST00000492540,;MAMDC4,upstream_gene_variant,,ENST00000481327,;	A	ENSG00000054148	ENST00000247665	Transcript	3_prime_UTR_variant	824	.	.	.	.	rs767948348	.	.	1	PHPT1	HGNC	30033	protein_coding	YES	CCDS7009.1	ENSP00000247665	PHP14_HUMAN	.	UPI0000034027	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTGGTGACG	byFrequency	5	BLCA
CDKN2A	0	.	GRCh37	9	21971209	21971209	+	Splice_Site	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151-2A>T	.	p.X51_splice	ENST00000498124	.	27	13	14	18	18	0	CDKN2A,splice_acceptor_variant,,ENST00000579755,;CDKN2A,splice_acceptor_variant,,ENST00000494262,;CDKN2A,splice_acceptor_variant,,ENST00000498628,;CDKN2A,splice_acceptor_variant,,ENST00000530628,;CDKN2A,splice_acceptor_variant,,ENST00000446177,;CDKN2A,splice_acceptor_variant,,ENST00000304494,;CDKN2A,splice_acceptor_variant,,ENST00000361570,;CDKN2A,splice_acceptor_variant,,ENST00000498124,;CDKN2A,splice_acceptor_variant,,ENST00000479692,;CDKN2A,splice_acceptor_variant,,ENST00000579122,;CDKN2A,splice_acceptor_variant,,ENST00000497750,;CDKN2A,5_prime_UTR_variant,,ENST00000578845,;C9orf53,downstream_gene_variant,,ENST00000441769,;CDKN2A,non_coding_transcript_exon_variant,,ENST00000380150,;CDKN2A,upstream_gene_variant,,ENST00000577854,;CDKN2A,splice_acceptor_variant,,ENST00000380151,;RP11-145E5.5,intron_variant,,ENST00000404796,;	A	ENSG00000147889	ENST00000498124	Transcript	splice_acceptor_variant	.	.	.	.	.	CS014762,COSM13222,COSM12539,COSM133833,COSM608433,COSM3656627,COSM3656629,COSM608434,COSM1314730,COSM3656628	.	.	-1	CDKN2A	HGNC	1787	protein_coding	YES	CCDS56565.1	ENSP00000418915	CD2A1_HUMAN	Q9UPB7_HUMAN	UPI0001565711	.	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1,1,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.?|c.151-2A>T|3,SITE|p.?|c.151-2A>T|3,SITE|p.?|c.151-2A>T|5,SITE|p.?|c.317-2A>T|3,BUFFER|p.0?|c.1_471del471|15,BUFFER|p.M53_R58del|c.157_174del18|3,BUFFER|p.M52K|c.155T>A|4,BUFFER|p.V51A|c.152T>C|3,BUFFER|p.?|c.317-1G>T|3,BUFFER|p.?|c.151-1G>T|8,BUFFER|p.?|c.151-1G>T|3,BUFFER|p.?|c.317-1G>A|3,BUFFER|p.?|c.151-1G>A|3,BUFFER|p.?|c.151-1G>A|17,BUFFER|p.?|c.151-2A>C|6,BUFFER|p.?|c.151-4G>C|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACCTGCCAG	.	5	BLCA
IFT74	0	.	GRCh37	9	26947048	26947048	+	5'Flank	SNP	A	A	G	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000443698	.	15	10	5	18	18	0	IFT74,5_prime_UTR_variant,,ENST00000519968,;IFT74,5_prime_UTR_variant,,ENST00000433700,;PLAA,5_prime_UTR_variant,,ENST00000520884,;PLAA,5_prime_UTR_variant,,ENST00000397292,;IFT74,upstream_gene_variant,,ENST00000517444,;IFT74,upstream_gene_variant,,ENST00000443698,;PLAA,upstream_gene_variant,,ENST00000523212,;	G	ENSG00000096872	ENST00000443698	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	262	1	IFT74	HGNC	21424	protein_coding	YES	CCDS43793.1	ENSP00000404122	IFT74_HUMAN	E5RH29_HUMAN,E5RGX6_HUMAN,A0PJM7_HUMAN	UPI000004B286	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCCAGTGTC	.	5	BLCA
DCAF12	0	.	GRCh37	9	34125208	34125208	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146A>T	p.Tyr49Phe	p.Y49F	ENST00000361264	2/9	101	48	53	98	98	0	DCAF12,missense_variant,p.Tyr31Phe,ENST00000396990,;DCAF12,missense_variant,p.Tyr28Phe,ENST00000450964,;DCAF12,missense_variant,p.Tyr49Phe,ENST00000361264,;DCAF12,non_coding_transcript_exon_variant,,ENST00000463286,;	A	ENSG00000198876	ENST00000361264	Transcript	missense_variant	488	146	49	Y/F	tAc/tTc	COSM1314785	.	.	-1	DCAF12	HGNC	19911	protein_coding	YES	CCDS6549.1	ENSP00000355114	DCA12_HUMAN	.	UPI00000372E8	.	deleterious(0.03)	benign(0.003)	2/9	.	hmmpanther:PTHR19860:SF10,hmmpanther:PTHR19860	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAAGTAGTAT	.	5	BLCA
GNE	0	.	GRCh37	9	36276896	36276896	+	Missense_Mutation	SNP	G	G	A	rs777071346	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46C>T	p.Pro16Ser	p.P16S	ENST00000396594	1/12	162	79	83	127	127	0	GNE,missense_variant,p.Pro16Ser,ENST00000396594,;GNE,synonymous_variant,p.%3D,ENST00000543356,;CLTA,intron_variant,,ENST00000464497,;	A	ENSG00000159921	ENST00000396594	Transcript	missense_variant	158	46	16	P/S	Cct/Tct	rs777071346,COSM1314832,COSM1314831	.	.	-1	GNE	HGNC	23657	protein_coding	YES	CCDS47965.1	ENSP00000379839	GLCNE_HUMAN	.	UPI00002113D6	.	tolerated_low_confidence(0.07)	benign(0.006)	1/12	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAGGTCCTT	.	5	BLCA
SHB	0	.	GRCh37	9	38016031	38016031	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.815A>G	p.Tyr272Cys	p.Y272C	ENST00000377707	2/6	332	159	172	288	286	2	SHB,missense_variant,p.Tyr272Cys,ENST00000377700,;SHB,missense_variant,p.Tyr272Cys,ENST00000377707,;RP11-613M10.9,missense_variant,p.Tyr272Cys,ENST00000540557,;	C	ENSG00000107338	ENST00000377707	Transcript	missense_variant	1381	815	272	Y/C	tAt/tGt	COSM1314841	.	.	-1	SHB	HGNC	10838	protein_coding	YES	CCDS43806.1	ENSP00000366936	SHB_HUMAN	.	UPI000021143B	.	deleterious(0)	probably_damaging(0.99)	2/6	.	hmmpanther:PTHR15127,hmmpanther:PTHR15127:SF31	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCTCATAGGGC	.	3	BLCA
KIAA2026	0	.	GRCh37	9	6007547	6007547	+	Nonsense_Mutation	SNP	G	G	A	rs764540627	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241C>T	p.Gln81Ter	p.Q81*	ENST00000399933	1/8	73	30	43	57	57	0	KIAA2026,stop_gained,p.Gln81Ter,ENST00000513355,;KIAA2026,stop_gained,p.Gln81Ter,ENST00000381461,;KIAA2026,stop_gained,p.Gln81Ter,ENST00000399933,;RANBP6,downstream_gene_variant,,ENST00000259569,;MIR4665,upstream_gene_variant,,ENST00000581132,;	A	ENSG00000183354	ENST00000399933	Transcript	stop_gained	241	241	81	Q/*	Cag/Tag	rs764540627,COSM1314866	.	.	-1	KIAA2026	HGNC	23378	protein_coding	YES	.	ENSP00000382815	K2026_HUMAN	.	UPI0001533DB0	.	.	.	1/8	.	Gene3D:1.20.920.10,hmmpanther:PTHR31095:SF2,hmmpanther:PTHR31095	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTGCTGTA	.	5	BLCA
C9orf3	0	.	GRCh37	9	97522147	97522147	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82C>A	p.Leu28Met	p.L28M	ENST00000375315	1/16	95	67	28	67	67	0	C9orf3,missense_variant,p.Leu28Met,ENST00000297979,;C9orf3,missense_variant,p.Leu28Met,ENST00000277198,;C9orf3,missense_variant,p.Leu28Met,ENST00000375315,;C9orf3,upstream_gene_variant,,ENST00000424143,;C9orf3,upstream_gene_variant,,ENST00000427193,;C9orf3,upstream_gene_variant,,ENST00000428313,;C9orf3,upstream_gene_variant,,ENST00000489318,;	A	ENSG00000148120	ENST00000375315	Transcript	missense_variant	82	82	28	L/M	Ctg/Atg	COSM1315039,COSM1315038	.	.	1	C9orf3	HGNC	1361	protein_coding	YES	CCDS55328.1	ENSP00000364464	AMPO_HUMAN	B4DKZ8_HUMAN	UPI0000211ACC	.	deleterious(0)	probably_damaging(0.997)	1/16	.	Superfamily_domains:0038696,hmmpanther:PTHR11533:SF151,hmmpanther:PTHR11533	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTACTGGAT	.	5	BLCA
MID2	0	.	GRCh37	X	107169341	107169341	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1615G>A	p.Asp539Asn	p.D539N	ENST00000262843	9/10	75	37	37	63	62	1	MID2,missense_variant,p.Asp539Asn,ENST00000262843,;MID2,missense_variant,p.Asp509Asn,ENST00000443968,;RP6-191P20.4,intron_variant,,ENST00000430140,;MID2,non_coding_transcript_exon_variant,,ENST00000474517,;	A	ENSG00000080561	ENST00000262843	Transcript	missense_variant	2163	1615	539	D/N	Gat/Aat	COSM1315101,COSM1315100	.	.	1	MID2	HGNC	7096	protein_coding	YES	CCDS14532.2	ENSP00000262843	TRIM1_HUMAN	A6PVI4_HUMAN	UPI0000D4F411	.	deleterious(0.02)	benign(0.016)	9/10	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF319,hmmpanther:PTHR24103,Superfamily_domains:SSF49899,Prints_domain:PR01407	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTGGATCCC	.	5	BLCA
AMMECR1	0	.	GRCh37	X	109459809	109459823	+	In_Frame_Del	DEL	CCGTGGCAGCTCATC	CCGTGGCAGCTCATC	-	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	CCGTGGCAGCTCATC	CCGTGGCAGCTCATC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622_636delGATGAGCTGCCACGG	p.Asp208_Arg212del	p.D208_R212del	ENST00000262844	3/6	88	53	35	73	73	0	AMMECR1,inframe_deletion,p.Asp208_Arg212del,ENST00000262844,;AMMECR1,inframe_deletion,p.Asp85_Arg89del,ENST00000372057,;AMMECR1,inframe_deletion,p.Asp171_Arg175del,ENST00000372059,;AMMECR1,downstream_gene_variant,,ENST00000473662,;	-	ENSG00000101935	ENST00000262844	Transcript	inframe_deletion	790-804	622-636	208-212	DELPR/-	GATGAGCTGCCACGG/-	.	.	.	-1	AMMECR1	HGNC	467	protein_coding	YES	CCDS14551.1	ENSP00000262844	AMMR1_HUMAN	.	UPI000006E66F	.	.	.	3/6	.	PROSITE_profiles:PS51112,hmmpanther:PTHR13016:SF2,hmmpanther:PTHR13016,Gene3D:1vajA01,Pfam_domain:PF01871,TIGRFAM_domain:TIGR00296,Superfamily_domains:SSF143447	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAAAAGCCGTGGCAGCTCATCCCTTG	.	3	BLCA
ZCCHC12	0	.	GRCh37	X	117959285	117959285	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78G>A	p.%3D	p.L26L	ENST00000310164	4/4	74	29	44	47	47	0	ZCCHC12,synonymous_variant,p.%3D,ENST00000310164,;	A	ENSG00000174460	ENST00000310164	Transcript	synonymous_variant	585	78	26	L	ctG/ctA	COSM1315135	.	.	1	ZCCHC12	HGNC	27273	protein_coding	YES	CCDS14574.1	ENSP00000308921	ZCH12_HUMAN	.	UPI00000373C7	.	.	.	4/4	.	hmmpanther:PTHR23095,hmmpanther:PTHR23095:SF18,Pfam_domain:PF14893	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTGAGGTC	.	5	BLCA
PHF6	0	.	GRCh37	X	133511786	133511786	+	Splice_Site	SNP	G	G	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138+1G>A	.	p.X46_splice	ENST00000332070	.	74	36	37	56	55	1	PHF6,splice_donor_variant,,ENST00000394292,;PHF6,splice_donor_variant,,ENST00000370799,;PHF6,splice_donor_variant,,ENST00000332070,;PHF6,splice_donor_variant,,ENST00000416404,;PHF6,splice_donor_variant,,ENST00000370800,;PHF6,splice_donor_variant,,ENST00000370803,;	A	ENSG00000156531	ENST00000332070	Transcript	splice_donor_variant	.	.	.	.	.	COSM1315227,COSM1315226	.	.	1	PHF6	HGNC	18145	protein_coding	YES	CCDS14639.1	ENSP00000329097	PHF6_HUMAN	B4E138_HUMAN	UPI0000074487	.	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATGGTAAGT	.	5	BLCA
ZNF185	0	.	GRCh37	X	152128422	152128422	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1682G>T	p.Arg561Leu	p.R561L	ENST00000535861	18/24	15	9	6	21	21	0	ZNF185,missense_variant,p.Arg167Leu,ENST00000454925,;ZNF185,missense_variant,p.Arg470Leu,ENST00000318504,;ZNF185,missense_variant,p.Arg561Leu,ENST00000370270,;ZNF185,missense_variant,p.Arg297Leu,ENST00000324823,;ZNF185,missense_variant,p.Arg530Leu,ENST00000449285,;ZNF185,missense_variant,p.Arg529Leu,ENST00000370268,;ZNF185,missense_variant,p.Arg308Leu,ENST00000318529,;ZNF185,missense_variant,p.Arg532Leu,ENST00000539731,;ZNF185,missense_variant,p.Arg561Leu,ENST00000535861,;ZNF185,missense_variant,p.Arg288Leu,ENST00000426821,;ZNF185,downstream_gene_variant,,ENST00000447792,;ZNF185,missense_variant,p.Arg532Leu,ENST00000436731,;	T	ENSG00000147394	ENST00000535861	Transcript	missense_variant	1730	1682	561	R/L	cGa/cTa	COSM1315299,COSM1315298	.	.	1	ZNF185	HGNC	12976	protein_coding	YES	CCDS55529.1	ENSP00000440847	ZN185_HUMAN	H7BZT5_HUMAN,B3KPM4_HUMAN	UPI0001D27F7E	.	tolerated(0.64)	benign(0.002)	18/24	.	hmmpanther:PTHR15468:SF2,hmmpanther:PTHR15468	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGACGAGAGA	.	5	BLCA
ACOT9	0	.	GRCh37	X	23748661	23748661	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.383A>T	p.Asp128Val	p.D128V	ENST00000379303	6/16	108	45	63	61	61	0	ACOT9,missense_variant,p.Asp128Val,ENST00000379303,;ACOT9,missense_variant,p.Asp73Val,ENST00000473710,;ACOT9,missense_variant,p.Asp59Val,ENST00000379295,;ACOT9,missense_variant,p.Asp119Val,ENST00000336430,;ACOT9,missense_variant,p.Asp59Val,ENST00000492081,;ACOT9,3_prime_UTR_variant,,ENST00000494361,;	A	ENSG00000123130	ENST00000379303	Transcript	missense_variant	512	383	128	D/V	gAt/gTt	COSM1315432	.	.	-1	ACOT9	HGNC	17152	protein_coding	YES	CCDS43924.1	ENSP00000368605	ACOT9_HUMAN	Q9H2R8_HUMAN	UPI00003D7D31	.	deleterious(0)	probably_damaging(0.999)	6/16	.	hmmpanther:PTHR12655,hmmpanther:PTHR12655:SF0,Gene3D:3.10.129.10,Superfamily_domains:SSF54637	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGATCCTCA	.	5	BLCA
KDM6A	0	.	GRCh37	X	44922802	44922802	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1663C>T	p.Gln555Ter	p.Q555*	ENST00000377967	16/29	36	20	16	34	34	0	KDM6A,stop_gained,p.Gln198Ter,ENST00000433797,;KDM6A,stop_gained,p.Gln153Ter,ENST00000414389,;KDM6A,stop_gained,p.Gln185Ter,ENST00000451692,;KDM6A,stop_gained,p.Gln476Ter,ENST00000543216,;KDM6A,stop_gained,p.Gln562Ter,ENST00000382899,;KDM6A,stop_gained,p.Gln555Ter,ENST00000377967,;KDM6A,stop_gained,p.Gln510Ter,ENST00000536777,;	T	ENSG00000147050	ENST00000377967	Transcript	stop_gained	1704	1663	555	Q/*	Cag/Tag	COSM255017,COSM4005103,COSM4005104	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	16/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q555*|c.1663C>T|6,CODON|p.0?|c.1_4206del4206|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTCAGCCT	.	5	BLCA
CLCN5	0	.	GRCh37	X	49767798	49767798	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17-39127C>T	.	.	ENST00000376088	.	25	12	13	30	30	0	CLCN5,intron_variant,,ENST00000482218,;CLCN5,intron_variant,,ENST00000376091,;CLCN5,intron_variant,,ENST00000376088,;MIR532,non_coding_transcript_exon_variant,,ENST00000385025,;AF222686.1,upstream_gene_variant,,ENST00000582167,;MIR188,upstream_gene_variant,,ENST00000385034,;	T	ENSG00000171365	ENST00000376088	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CLCN5	HGNC	2023	protein_coding	YES	CCDS48115.1	ENSP00000365256	CLCN5_HUMAN	.	UPI0000212052	.	.	.	.	3/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGGCATCTT	.	5	BLCA
ATRX	0	.	GRCh37	X	76919036	76919036	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A2ES-01A-11D-A17V-08	TCGA-G2-A2ES-11A-31D-A17V-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3955C>G	p.Gln1319Glu	p.Q1319E	ENST00000373344	12/35	26	11	14	17	17	0	ATRX,missense_variant,p.Gln1281Glu,ENST00000395603,;ATRX,missense_variant,p.Gln1319Glu,ENST00000373344,;ATRX,non_coding_transcript_exon_variant,,ENST00000480283,;	C	ENSG00000085224	ENST00000373344	Transcript	missense_variant	4170	3955	1319	Q/E	Caa/Gaa	COSM1315701,COSM1315700	.	.	-1	ATRX	HGNC	886	protein_coding	YES	CCDS14434.1	ENSP00000362441	ATRX_HUMAN	B4DLE1_HUMAN	UPI0000161F78	.	.	benign(0)	12/35	.	hmmpanther:PTHR10799:SF566,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTGATTTT	.	5	BLCA
PNLIPRP3	0	.	GRCh37	10	118228730	118228730	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.961C>A	p.Pro321Thr	p.P321T	ENST00000369230	9/12	43	22	21	55	55	0	PNLIPRP3,missense_variant,p.Pro321Thr,ENST00000369230,;	A	ENSG00000203837	ENST00000369230	Transcript	missense_variant	1107	961	321	P/T	Cca/Aca	COSM1296967	.	.	1	PNLIPRP3	HGNC	23492	protein_coding	YES	CCDS31292.1	ENSP00000358232	LIPR3_HUMAN	.	UPI000013DB40	.	deleterious(0)	possibly_damaging(0.858)	9/12	.	Prints_domain:PR00821,Superfamily_domains:SSF53474,PIRSF_domain:PIRSF000865,Pfam_domain:PF00151,Gene3D:3.40.50.1820,hmmpanther:PTHR11610:SF96,hmmpanther:PTHR11610	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGCCCAACA	.	5	BLCA
GPRIN2	0	.	GRCh37	10	46999113	46999113	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233C>T	p.Ser78Phe	p.S78F	ENST00000374314	1/1	66	56	9	44	44	0	GPRIN2,missense_variant,p.Ser78Phe,ENST00000374314,;GPRIN2,missense_variant,p.Ser78Phe,ENST00000374317,;	T	ENSG00000204175	ENST00000374314	Transcript	missense_variant	1188	233	78	S/F	tCt/tTt	COSM1297274	.	.	1	GPRIN2	HGNC	23730	protein_coding	YES	CCDS31192.1	ENSP00000363433	GRIN2_HUMAN	.	UPI000013ECB4	.	deleterious(0.03)	possibly_damaging(0.606)	1/1	.	hmmpanther:PTHR15718	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTGGCC	.	4	BLCA
KAT6B	0	.	GRCh37	10	76603021	76603021	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406C>G	p.Gln136Glu	p.Q136E	ENST00000287239	3/18	54	25	29	66	66	0	KAT6B,missense_variant,p.Gln136Glu,ENST00000372711,;KAT6B,missense_variant,p.Gln136Glu,ENST00000372714,;KAT6B,missense_variant,p.Gln136Glu,ENST00000372725,;KAT6B,missense_variant,p.Gln136Glu,ENST00000372724,;KAT6B,missense_variant,p.Gln136Glu,ENST00000287239,;KAT6B,downstream_gene_variant,,ENST00000604130,;	G	ENSG00000156650	ENST00000287239	Transcript	missense_variant	895	406	136	Q/E	Caa/Gaa	COSM1297443	.	.	1	KAT6B	HGNC	17582	protein_coding	YES	CCDS7345.1	ENSP00000287239	KAT6B_HUMAN	.	UPI000013DEA0	.	.	probably_damaging(0.956)	3/18	.	PROSITE_profiles:PS51504,hmmpanther:PTHR10615:SF73,hmmpanther:PTHR10615,Pfam_domain:PF00538,Gene3D:1.10.10.10,SMART_domains:SM00526,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGTCAAAGT	.	5	BLCA
BTAF1	0	.	GRCh37	10	93751881	93751881	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2860A>G	p.Thr954Ala	p.T954A	ENST00000265990	21/38	47	32	14	52	52	0	BTAF1,missense_variant,p.Thr954Ala,ENST00000265990,;BTAF1,upstream_gene_variant,,ENST00000544642,;BTAF1,downstream_gene_variant,,ENST00000471217,;	G	ENSG00000095564	ENST00000265990	Transcript	missense_variant	3168	2860	954	T/A	Acc/Gcc	COSM1297499	.	.	1	BTAF1	HGNC	17307	protein_coding	YES	CCDS7419.1	ENSP00000265990	BTAF1_HUMAN	Q8N6J1_HUMAN,Q2M1V9_HUMAN,B4E0W6_HUMAN	UPI0000136782	.	tolerated(1)	benign(0.001)	21/38	.	Pfam_domain:PF12054,hmmpanther:PTHR10799:SF225,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCCACCTCA	.	5	BLCA
NLRP6	0	.	GRCh37	11	281667	281667	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1933G>A	p.Ala645Thr	p.A645T	ENST00000312165	4/8	209	110	99	88	88	0	NLRP6,missense_variant,p.Ala645Thr,ENST00000534750,;NLRP6,missense_variant,p.Ala645Thr,ENST00000312165,;NLRP6,downstream_gene_variant,,ENST00000527946,;	A	ENSG00000174885	ENST00000312165	Transcript	missense_variant	1933	1933	645	A/T	Gcg/Acg	COSM1297944	.	.	1	NLRP6	HGNC	22944	protein_coding	YES	CCDS7693.1	ENSP00000309767	NALP6_HUMAN	.	UPI00001AEFE1	.	tolerated(0.64)	benign(0.003)	4/8	.	Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGGCGCTG	.	5	BLCA
NUP98	0	.	GRCh37	11	3744407	3744407	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2126C>G	p.Ser709Cys	p.S709C	ENST00000324932	16/33	96	60	36	79	79	0	NUP98,missense_variant,p.Ser709Cys,ENST00000324932,;NUP98,missense_variant,p.Ser709Cys,ENST00000359171,;NUP98,missense_variant,p.Ser726Cys,ENST00000397007,;NUP98,missense_variant,p.Ser709Cys,ENST00000355260,;NUP98,missense_variant,p.Ser709Cys,ENST00000397004,;NUP98,downstream_gene_variant,,ENST00000527104,;NUP98,upstream_gene_variant,,ENST00000530516,;	C	ENSG00000110713	ENST00000324932	Transcript	missense_variant	2547	2126	709	S/C	tCt/tGt	COSM1298019	.	.	-1	NUP98	HGNC	8068	protein_coding	YES	CCDS7746.1	ENSP00000316032	NUP98_HUMAN	Q9HDC8_HUMAN	UPI000013CD36	.	tolerated(0.06)	benign(0.413)	16/33	.	hmmpanther:PTHR23198,hmmpanther:PTHR23198:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GGTAAGAATTA	.	4	BLCA
OR4A5	0	.	GRCh37	11	51411647	51411647	+	Missense_Mutation	SNP	G	G	T	rs766357913	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.749C>A	p.Pro250His	p.P250H	ENST00000319760	1/1	57	36	21	41	41	0	OR4A5,missense_variant,p.Pro250His,ENST00000319760,;	T	ENSG00000221840	ENST00000319760	Transcript	missense_variant	802	749	250	P/H	cCc/cAc	rs766357913,COSM1298120	.	.	-1	OR4A5	HGNC	15162	protein_coding	YES	CCDS31497.1	ENSP00000367664	OR4A5_HUMAN	.	UPI0000041D58	.	deleterious_low_confidence(0)	probably_damaging(0.996)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF299,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F253F|c.759C>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACAGGGTACA	.	5	BLCA
OR4C15	0	.	GRCh37	11	55322491	55322491	+	Silent	SNP	T	T	C	rs754923844	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.709T>C	p.%3D	p.L237L	ENST00000314644	1/1	25	11	14	19	19	0	OR4C15,synonymous_variant,p.%3D,ENST00000314644,;	C	ENSG00000181939	ENST00000314644	Transcript	synonymous_variant	709	709	237	L	Tta/Cta	rs754923844,COSM1298136	.	.	1	OR4C15	HGNC	15171	protein_coding	YES	CCDS31501.1	ENSP00000324958	OR4CF_HUMAN	.	UPI00003B288E	.	.	.	1/1	.	Prints_domain:PR00245,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF13853,hmmpanther:PTHR26451:SF14,hmmpanther:PTHR26451,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCGTTACTG	.	5	BLCA
OR10Q1	0	.	GRCh37	11	57996150	57996150	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198C>T	p.%3D	p.F66F	ENST00000316770	1/1	119	81	38	59	59	0	OR10Q1,synonymous_variant,p.%3D,ENST00000316770,;	A	ENSG00000180475	ENST00000316770	Transcript	synonymous_variant	241	198	66	F	ttC/ttT	COSM1298225	.	.	-1	OR10Q1	HGNC	15134	protein_coding	YES	CCDS31547.1	ENSP00000314324	O10Q1_HUMAN	.	UPI0000041C4C	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF253,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACAGGAAGAA	.	5	BLCA
MS4A1	0	.	GRCh37	11	60229778	60229778	+	5'UTR	SNP	C	C	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-70C>A	.	.	ENST00000534668	2/7	14	11	3	22	22	0	MS4A1,splice_region_variant,,ENST00000533306,;MS4A1,5_prime_UTR_variant,,ENST00000524807,;MS4A1,5_prime_UTR_variant,,ENST00000534668,;MS4A1,5_prime_UTR_variant,,ENST00000389939,;MS4A1,5_prime_UTR_variant,,ENST00000532491,;MS4A1,intron_variant,,ENST00000345732,;MS4A1,intron_variant,,ENST00000532073,;MS4A1,intron_variant,,ENST00000528313,;MS4A1,splice_region_variant,,ENST00000527101,;MS4A1,intron_variant,,ENST00000534503,;MS4A1,upstream_gene_variant,,ENST00000532418,;MS4A1,upstream_gene_variant,,ENST00000530482,;	A	ENSG00000156738	ENST00000534668	Transcript	5_prime_UTR_variant	220	.	.	.	.	.	.	.	1	MS4A1	HGNC	7315	protein_coding	YES	CCDS31570.1	ENSP00000433277	CD20_HUMAN	.	UPI000012733B	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAGACTGCCA	.	2	BLCA
SBF2	0	.	GRCh37	11	9812207	9812207	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4594G>C	p.Glu1532Gln	p.E1532Q	ENST00000256190	34/40	106	65	40	108	107	0	SBF2,missense_variant,p.Glu1532Gln,ENST00000256190,;SBF2,upstream_gene_variant,,ENST00000532095,;SBF2-AS1,intron_variant,,ENST00000534671,;SBF2-AS1,intron_variant,,ENST00000499953,;SBF2-AS1,intron_variant,,ENST00000526617,;SBF2-AS1,intron_variant,,ENST00000498905,;SBF2-AS1,intron_variant,,ENST00000525636,;SBF2,upstream_gene_variant,,ENST00000525040,;	G	ENSG00000133812	ENST00000256190	Transcript	missense_variant	4732	4594	1532	E/Q	Gaa/Caa	COSM1298792	.	.	-1	SBF2	HGNC	2135	protein_coding	YES	CCDS31427.1	ENSP00000256190	MTMRD_HUMAN	H0YDZ1_HUMAN	UPI00000622D5	.	tolerated(0.38)	benign(0.007)	34/40	.	Superfamily_domains:SSF52799,hmmpanther:PTHR10807,hmmpanther:PTHR10807:SF4,PROSITE_profiles:PS51339	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCTCCTT	.	5	BLCA
LHX5	0	.	GRCh37	12	113906970	113906970	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.354C>A	p.Asp118Glu	p.D118E	ENST00000261731	2/5	24	13	11	19	19	0	LHX5,missense_variant,p.Asp118Glu,ENST00000261731,;RP11-82C23.2,upstream_gene_variant,,ENST00000551357,;LHX5,downstream_gene_variant,,ENST00000557836,;	T	ENSG00000089116	ENST00000261731	Transcript	missense_variant	928	354	118	D/E	gaC/gaA	COSM1298948	.	.	-1	LHX5	HGNC	14216	protein_coding	YES	CCDS9171.1	ENSP00000261731	LHX5_HUMAN	.	UPI000012E662	.	deleterious(0.03)	probably_damaging(0.95)	2/5	.	PROSITE_profiles:PS50023,hmmpanther:PTHR24208:SF83,hmmpanther:PTHR24208,Pfam_domain:PF00412,Gene3D:2.10.110.10,SMART_domains:SM00132	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTAGTCGTC	.	5	BLCA
LINC00477	0	.	GRCh37	12	24736473	24736473	+	RNA	SNP	C	C	T	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.630G>A	.	.	ENST00000483544	1/4	51	27	23	28	28	0	LINC00477,non_coding_transcript_exon_variant,,ENST00000483544,;KNOP1P1,upstream_gene_variant,,ENST00000542108,;	T	ENSG00000197503	ENST00000483544	Transcript	non_coding_transcript_exon_variant	630	.	.	.	.	.	.	.	-1	LINC00477	HGNC	26557	lincRNA	YES	.	.	.	.	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTCCCATGC	.	5	BLCA
KMT2D	0	.	GRCh37	12	49420342	49420343	+	Frame_Shift_Ins	INS	-	-	GC	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15405_15406dupGC	p.His5136ArgfsTer12	p.H5136Rfs*12	ENST00000301067	48/54	157	112	45	83	83	0	KMT2D,frameshift_variant,p.His5136ArgfsTer12,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000526209,;KMT2D,downstream_gene_variant,,ENST00000552391,;	GC	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	15406-15407	15406-15407	5136	H/RX	cat/cGCat	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	48/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324,Pfam_domain:PF13771,SMART_domains:SM00249,SMART_domains:SM00184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCTTATGCATT	.	3	BLCA
KMT2D	0	.	GRCh37	12	49447042	49447042	+	Frame_Shift_Del	DEL	A	A	-	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.902delT	p.Phe301SerfsTer3	p.F301Sfs*3	ENST00000301067	7/54	260	178	82	85	85	0	KMT2D,frameshift_variant,p.Phe301SerfsTer3,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000547610,;	-	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	902	902	301	F/X	tTc/tc	COSM3998825,COSM3998824	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	7/54	.	PROSITE_profiles:PS50016,Pfam_domain:PF00628,Gene3D:3.30.40.10,SMART_domains:SM00249,SMART_domains:SM00184,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	deletion	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGGCAGAAAGTA	.	3	BLCA
CLEC4A	0	.	GRCh37	12	8289381	8289381	+	Intron	SNP	C	C	T	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451-3C>T	.	.	ENST00000229332	.	39	19	19	43	43	0	CLEC4A,splice_region_variant,,ENST00000546339,;CLEC4A,splice_region_variant,,ENST00000352620,;CLEC4A,splice_region_variant,,ENST00000229332,;CLEC4A,splice_region_variant,,ENST00000345999,;CLEC4A,splice_region_variant,,ENST00000360500,;ZNF705A,upstream_gene_variant,,ENST00000402465,;POU5F1P3,upstream_gene_variant,,ENST00000428824,;POU5F1P3,upstream_gene_variant,,ENST00000451845,;GCSHP4,downstream_gene_variant,,ENST00000538792,;	T	ENSG00000111729	ENST00000229332	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CLEC4A	HGNC	13257	protein_coding	YES	CCDS8590.1	ENSP00000229332	CLC4A_HUMAN	.	UPI000003C38E	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGGAT	.	4	BLCA
A2M	0	.	GRCh37	12	9262584	9262584	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552G>T	p.Glu184Asp	p.E184D	ENST00000318602	6/36	106	63	42	92	92	0	A2M,missense_variant,p.Glu184Asp,ENST00000318602,;A2M,downstream_gene_variant,,ENST00000404455,;A2M,upstream_gene_variant,,ENST00000545828,;A2M,downstream_gene_variant,,ENST00000467091,;A2M,3_prime_UTR_variant,,ENST00000539638,;	A	ENSG00000175899	ENST00000318602	Transcript	missense_variant	860	552	184	E/D	gaG/gaT	COSM1299956	.	.	-1	A2M	HGNC	7	protein_coding	YES	CCDS44827.1	ENSP00000323929	A2MG_HUMAN	Q9BQ22_HUMAN,F8W7L3_HUMAN,F5H1E8_HUMAN	UPI000014038F	.	deleterious(0.04)	benign(0.008)	6/36	.	hmmpanther:PTHR11412:SF75,hmmpanther:PTHR11412,Pfam_domain:PF01835	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACCCTCTAA	.	5	BLCA
EFNB2	0	.	GRCh37	13	107187316	107187316	+	5'UTR	SNP	G	G	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4C>T	.	.	ENST00000245323	1/5	97	50	46	37	37	0	EFNB2,5_prime_UTR_variant,,ENST00000245323,;	A	ENSG00000125266	ENST00000245323	Transcript	5_prime_UTR_variant	147	.	.	.	.	.	.	.	-1	EFNB2	HGNC	3227	protein_coding	YES	CCDS9507.1	ENSP00000245323	EFNB2_HUMAN	Q2PDH7_HUMAN	UPI0000129C9B	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGCGAAGCC	.	5	BLCA
C1QTNF9	0	.	GRCh37	13	24895231	24895231	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>T	p.Met109Ile	p.M109I	ENST00000382071	4/4	41	21	20	29	29	0	C1QTNF9,missense_variant,p.Met109Ile,ENST00000332018,;C1QTNF9,missense_variant,p.Met109Ile,ENST00000382071,;AL359736.1,downstream_gene_variant,,ENST00000422229,;C1QTNF9-AS1,intron_variant,,ENST00000449656,;RP11-307N16.6,downstream_gene_variant,,ENST00000382141,;	T	ENSG00000240654	ENST00000382071	Transcript	missense_variant	412	327	109	M/I	atG/atT	COSM1300084	.	.	1	C1QTNF9	HGNC	28732	protein_coding	YES	CCDS9306.1	ENSP00000371503	C1T9A_HUMAN	.	UPI000004F06F	.	tolerated(0.35)	benign(0.002)	4/4	.	Pfam_domain:PF01391,hmmpanther:PTHR24022:SF73,hmmpanther:PTHR24022	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATGGGAGA	.	5	BLCA
PCDH20	0	.	GRCh37	13	61986716	61986716	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1516G>T	p.Ala506Ser	p.A506S	ENST00000409186	5/5	172	94	78	113	113	0	PCDH20,missense_variant,p.Ala506Ser,ENST00000409204,;PCDH20,missense_variant,p.Ala506Ser,ENST00000409186,;	A	ENSG00000197991	ENST00000409186	Transcript	missense_variant	3622	1516	506	A/S	Gct/Tct	COSM1300269,COSM1300268	.	.	-1	PCDH20	HGNC	14257	protein_coding	YES	CCDS9442.2	ENSP00000386653	PCD20_HUMAN	B3KSZ7_HUMAN	UPI000007371F	.	tolerated(0.52)	benign(0.001)	5/5	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF24,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACAGCTACTT	.	5	BLCA
UGGT2	0	.	GRCh37	13	96579318	96579318	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2164G>T	p.Val722Leu	p.V722L	ENST00000376747	19/39	21	16	5	26	26	0	UGGT2,missense_variant,p.Val722Leu,ENST00000376747,;	A	ENSG00000102595	ENST00000376747	Transcript	missense_variant	2235	2164	722	V/L	Gta/Tta	.	.	.	-1	UGGT2	HGNC	15664	protein_coding	YES	CCDS9480.1	ENSP00000365938	UGGG2_HUMAN	.	UPI00001FC9AA	.	tolerated(0.22)	benign(0.069)	19/39	.	hmmpanther:PTHR11226:SF1,hmmpanther:PTHR11226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTACAGCAC	.	5	BLCA
DIO3	0	.	GRCh37	14	102028171	102028171	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338C>T	p.Ser113Leu	p.S113L	ENST00000510508	1/1	91	84	6	47	47	0	DIO3,missense_variant,p.Ser113Leu,ENST00000510508,;DIO3,missense_variant,p.Ser87Leu,ENST00000359323,;DIO3OS,upstream_gene_variant,,ENST00000553729,;DIO3OS,upstream_gene_variant,,ENST00000555174,;DIO3OS,upstream_gene_variant,,ENST00000554735,;DIO3OS,upstream_gene_variant,,ENST00000555882,;DIO3OS,upstream_gene_variant,,ENST00000557532,;DIO3OS,upstream_gene_variant,,ENST00000554441,;DIO3OS,upstream_gene_variant,,ENST00000557109,;DIO3OS,upstream_gene_variant,,ENST00000556266,;DIO3OS,upstream_gene_variant,,ENST00000554694,;DIO3OS,upstream_gene_variant,,ENST00000557661,;DIO3OS,upstream_gene_variant,,ENST00000408206,;	T	ENSG00000197406	ENST00000510508	Transcript	missense_variant	484	338	113	S/L	tCg/tTg	COSM1300387,COSM1300386	.	.	1	DIO3	HGNC	2885	protein_coding	YES	CCDS41992.2	ENSP00000427336	.	Q86TU3_HUMAN	UPI0001B1A4B2	.	deleterious(0.01)	probably_damaging(0.99)	1/1	.	hmmpanther:PTHR11781,hmmpanther:PTHR11781:SF4,Pfam_domain:PF00837,PIRSF_domain:PIRSF500144,PIRSF_domain:PIRSF001330	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCGTCGCTCA	.	2	BLCA
PPP1R13B	0	.	GRCh37	14	104206397	104206397	+	Missense_Mutation	SNP	C	C	A	rs753315793	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2356G>T	p.Ala786Ser	p.A786S	ENST00000202556	12/17	153	98	54	82	81	0	PPP1R13B,missense_variant,p.Ala205Ser,ENST00000423488,;PPP1R13B,missense_variant,p.Ala786Ser,ENST00000202556,;PPP1R13B,non_coding_transcript_exon_variant,,ENST00000555391,;PPP1R13B,non_coding_transcript_exon_variant,,ENST00000556325,;PPP1R13B,downstream_gene_variant,,ENST00000555991,;PPP1R13B,missense_variant,p.Ala442Ser,ENST00000556597,;PPP1R13B,3_prime_UTR_variant,,ENST00000557082,;PPP1R13B,downstream_gene_variant,,ENST00000557744,;PPP1R13B,upstream_gene_variant,,ENST00000556334,;PPP1R13B,upstream_gene_variant,,ENST00000557587,;PPP1R13B,upstream_gene_variant,,ENST00000554432,;PPP1R13B,upstream_gene_variant,,ENST00000555825,;	A	ENSG00000088808	ENST00000202556	Transcript	missense_variant	2639	2356	786	A/S	Gcc/Tcc	rs753315793,COSM1300413	.	.	-1	PPP1R13B	HGNC	14950	protein_coding	YES	CCDS41997.1	ENSP00000202556	ASPP1_HUMAN	G3V5J1_HUMAN	UPI000049DDC7	.	tolerated(0.67)	benign(0.004)	12/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24131,hmmpanther:PTHR24131:SF5	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S789S|c.2367A>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGGCAGGCT	.	5	BLCA
RNASE2	0	.	GRCh37	14	21424500	21424500	+	3'UTR	SNP	G	G	T	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*84G>T	.	.	ENST00000304625	2/2	49	26	23	38	38	0	RNASE2,3_prime_UTR_variant,,ENST00000304625,;	T	ENSG00000169385	ENST00000304625	Transcript	3_prime_UTR_variant	660	.	.	.	.	.	.	.	1	RNASE2	HGNC	10045	protein_coding	YES	CCDS9561.1	ENSP00000303276	RNAS2_HUMAN	.	UPI000004D2F8	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTTTGGGTATC	.	4	BLCA
TRAV26-2	0	.	GRCh37	14	22671170	22671170	+	Silent	SNP	C	C	T	rs201179406	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235C>T	p.%3D	p.L79L	ENST00000390460	2/2	57	32	25	24	24	0	TRAV26-2,synonymous_variant,p.%3D,ENST00000390460,;TRAV34,upstream_gene_variant,,ENST00000390461,;	T	ENSG00000211812	ENST00000390460	Transcript	synonymous_variant	235	235	79	L	Ctg/Ttg	rs201179406	.	.	1	TRAV26-2	HGNC	12124	TR_V_gene	YES	.	ENSP00000450970	.	.	UPI000011D12D	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19433,hmmpanther:PTHR19433:SF61,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	A:0	A:0.0007	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCTGGCA	byCluster	5	BLCA
COCH	0	.	GRCh37	14	31349663	31349663	+	Nonsense_Mutation	SNP	C	C	T	rs755252656	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442C>T	p.Arg148Ter	p.R148*	ENST00000396618	7/12	25	15	10	31	31	0	COCH,stop_gained,p.Arg132Ter,ENST00000556908,;COCH,stop_gained,p.Arg148Ter,ENST00000216361,;COCH,stop_gained,p.Arg36Ter,ENST00000460581,;COCH,stop_gained,p.Arg148Ter,ENST00000475087,;COCH,stop_gained,p.Arg30Ter,ENST00000555881,;COCH,stop_gained,p.Arg148Ter,ENST00000396618,;COCH,upstream_gene_variant,,ENST00000382493,;COCH,upstream_gene_variant,,ENST00000468826,;RP11-829H16.3,intron_variant,,ENST00000555108,;RP11-829H16.3,downstream_gene_variant,,ENST00000555421,;COCH,3_prime_UTR_variant,,ENST00000557065,;COCH,3_prime_UTR_variant,,ENST00000553772,;COCH,non_coding_transcript_exon_variant,,ENST00000553833,;	T	ENSG00000100473	ENST00000396618	Transcript	stop_gained	498	442	148	R/*	Cga/Tga	rs755252656,COSM1201740	.	.	1	COCH	HGNC	2180	protein_coding	YES	CCDS9640.1	ENSP00000379862	COCH_HUMAN	G3V5G6_HUMAN,G3V4C4_HUMAN	UPI0000048EBB	.	.	.	7/12	.	hmmpanther:PTHR22992:SF84,hmmpanther:PTHR22992	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAAACGACTA	.	5	BLCA
FAM71D	0	.	GRCh37	14	67671305	67671305	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.411G>A	p.Met137Ile	p.M137I	ENST00000311864	5/9	26	21	5	18	18	0	FAM71D,upstream_gene_variant,,ENST00000556117,;FAM71D,downstream_gene_variant,,ENST00000530728,;FAM71D,upstream_gene_variant,,ENST00000557671,;FAM71D,downstream_gene_variant,,ENST00000524532,;FAM71D,downstream_gene_variant,,ENST00000531566,;FAM71D,missense_variant,p.Met137Ile,ENST00000534174,;FAM71D,missense_variant,p.Met137Ile,ENST00000311864,;FAM71D,3_prime_UTR_variant,,ENST00000556046,;FAM71D,downstream_gene_variant,,ENST00000524914,;RP11-125H8.1,downstream_gene_variant,,ENST00000553618,;	A	ENSG00000172717	ENST00000311864	Transcript	missense_variant	665	411	137	M/I	atG/atA	COSM1300771	.	.	1	FAM71D	HGNC	20101	nonsense_mediated_decay	YES	CCDS9778.1	ENSP00000431905	FA71D_HUMAN	E9PPX0_HUMAN,E9PM27_HUMAN	UPI000013F210	.	deleterious(0.02)	possibly_damaging(0.673)	5/9	.	hmmpanther:PTHR22574,hmmpanther:PTHR22574:SF6,Pfam_domain:PF12480	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACATGAGCCT	.	5	BLCA
ZFYVE1	0	.	GRCh37	14	73459948	73459948	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1106C>T	p.Thr369Met	p.T369M	ENST00000556143	4/12	114	58	56	73	73	0	ZFYVE1,missense_variant,p.Thr369Met,ENST00000553891,;ZFYVE1,missense_variant,p.Thr369Met,ENST00000318876,;ZFYVE1,missense_variant,p.Thr369Met,ENST00000556143,;	A	ENSG00000165861	ENST00000556143	Transcript	missense_variant	1827	1106	369	T/M	aCg/aTg	COSM1300802	.	.	-1	ZFYVE1	HGNC	13180	protein_coding	YES	CCDS9811.1	ENSP00000450742	ZFYV1_HUMAN	.	UPI0000049888	.	deleterious(0)	probably_damaging(0.915)	4/12	.	hmmpanther:PTHR22835:SF151,hmmpanther:PTHR22835	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCCGTGGGA	.	5	BLCA
PTPN21	0	.	GRCh37	14	88983603	88983603	+	Silent	SNP	G	G	A	rs1135152	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.183C>T	p.%3D	p.V61V	ENST00000556564	3/19	80	64	16	37	37	0	PTPN21,synonymous_variant,p.%3D,ENST00000556564,;PTPN21,synonymous_variant,p.%3D,ENST00000555243,;PTPN21,synonymous_variant,p.%3D,ENST00000328736,;RNU4-22P,downstream_gene_variant,,ENST00000411058,;RP11-507K2.2,downstream_gene_variant,,ENST00000555444,;PTPN21,splice_region_variant,,ENST00000554178,;PTPN21,splice_region_variant,,ENST00000554628,;PTPN21,splice_region_variant,,ENST00000536337,;PTPN21,splice_region_variant,,ENST00000554270,;	A	ENSG00000070778	ENST00000556564	Transcript	synonymous_variant	468	183	61	V	gtC/gtT	rs1135152,COSM1300875	.	.	-1	PTPN21	HGNC	9651	protein_coding	YES	CCDS9884.1	ENSP00000452414	PTN21_HUMAN	Q8WX29_HUMAN,G3V3S6_HUMAN	UPI000013D15F	.	.	.	3/19	.	PROSITE_profiles:PS50057,hmmpanther:PTHR19134:SF78,hmmpanther:PTHR19134,Pfam_domain:PF09379,Gene3D:3.10.20.90,PIRSF_domain:PIRSF000934,SMART_domains:SM00295,Superfamily_domains:SSF54236,Prints_domain:PR00935	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAAGTGACCTG	.	5	BLCA
HERC2P3	0	.	GRCh37	15	20644287	20644287	+	RNA	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3277C>A	.	.	ENST00000428453	22/27	219	177	42	99	99	0	HERC2P3,non_coding_transcript_exon_variant,,ENST00000437318,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000428453,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000430598,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000426501,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000424611,;HERC2P3,downstream_gene_variant,,ENST00000436934,;HERC2P3,downstream_gene_variant,,ENST00000454045,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000429257,;HERC2P3,downstream_gene_variant,,ENST00000545640,;	T	ENSG00000180229	ENST00000428453	Transcript	non_coding_transcript_exon_variant	3277	.	.	.	.	COSM1300975	.	.	-1	HERC2P3	HGNC	4871	processed_transcript	YES	.	.	.	.	.	.	.	.	22/27	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGCAGCAGTG	.	4	BLCA
VPS39	0	.	GRCh37	15	42454656	42454656	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2199G>A	p.Met733Ile	p.M733I	ENST00000318006	22/25	68	55	13	40	40	0	VPS39,missense_variant,p.Met744Ile,ENST00000348544,;VPS39,missense_variant,p.Met733Ile,ENST00000318006,;VPS39,downstream_gene_variant,,ENST00000563692,;VPS39,non_coding_transcript_exon_variant,,ENST00000562662,;VPS39,non_coding_transcript_exon_variant,,ENST00000562258,;VPS39,non_coding_transcript_exon_variant,,ENST00000568755,;VPS39,upstream_gene_variant,,ENST00000564994,;VPS39,downstream_gene_variant,,ENST00000561797,;VPS39,downstream_gene_variant,,ENST00000561818,;	T	ENSG00000166887	ENST00000318006	Transcript	missense_variant	2362	2199	733	M/I	atG/atA	COSM1301125	.	.	-1	VPS39	HGNC	20593	protein_coding	YES	CCDS10083.1	ENSP00000326534	VPS39_HUMAN	.	UPI0000169BB1	.	tolerated(0.06)	benign(0.108)	22/25	.	PROSITE_profiles:PS50236,hmmpanther:PTHR12894:SF10,hmmpanther:PTHR12894	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTACATCCG	.	5	BLCA
DMXL2	0	.	GRCh37	15	51741202	51741202	+	Missense_Mutation	SNP	G	G	T	rs758114458	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9093C>A	p.Asn3031Lys	p.N3031K	ENST00000543779	43/43	34	25	9	27	27	0	DMXL2,missense_variant,p.Asn2394Lys,ENST00000449909,;DMXL2,missense_variant,p.Asn3031Lys,ENST00000543779,;DMXL2,missense_variant,p.Asn1177Lys,ENST00000560891,;DMXL2,missense_variant,p.Asn3030Lys,ENST00000251076,;DMXL2,downstream_gene_variant,,ENST00000559059,;RP11-707P17.1,intron_variant,,ENST00000561007,;DMXL2,non_coding_transcript_exon_variant,,ENST00000559769,;DMXL2,downstream_gene_variant,,ENST00000559868,;	T	ENSG00000104093	ENST00000543779	Transcript	missense_variant	9183	9093	3031	N/K	aaC/aaA	rs758114458,COSM1301210	.	.	-1	DMXL2	HGNC	2938	protein_coding	YES	CCDS53946.1	ENSP00000441858	DMXL2_HUMAN	.	UPI00001FE4C2	.	deleterious(0.03)	benign(0.046)	43/43	.	hmmpanther:PTHR13950:SF11,hmmpanther:PTHR13950	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTGTTAGG	.	5	BLCA
SLC24A1	0	.	GRCh37	15	65918083	65918083	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1665G>T	p.Trp555Cys	p.W555C	ENST00000261892	2/10	125	74	50	73	73	0	SLC24A1,missense_variant,p.Trp555Cys,ENST00000546330,;SLC24A1,missense_variant,p.Trp555Cys,ENST00000399033,;SLC24A1,missense_variant,p.Trp555Cys,ENST00000544319,;SLC24A1,missense_variant,p.Trp555Cys,ENST00000339868,;SLC24A1,missense_variant,p.Trp555Cys,ENST00000537259,;SLC24A1,missense_variant,p.Trp555Cys,ENST00000261892,;SLC24A1,intron_variant,,ENST00000425561,;SLC24A1,downstream_gene_variant,,ENST00000535950,;SLC24A1,non_coding_transcript_exon_variant,,ENST00000434116,;	T	ENSG00000074621	ENST00000261892	Transcript	missense_variant	1952	1665	555	W/C	tgG/tgT	COSM1301348	.	.	1	SLC24A1	HGNC	10975	protein_coding	YES	CCDS45284.1	ENSP00000261892	NCKX1_HUMAN	.	UPI000013020C	.	.	probably_damaging(0.971)	2/10	.	hmmpanther:PTHR10846,hmmpanther:PTHR10846:SF6,TIGRFAM_domain:TIGR00927,Pfam_domain:PF01699,TIGRFAM_domain:TIGR00367	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTGGTGGCC	.	5	BLCA
CHRNB4	0	.	GRCh37	15	78922018	78922018	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.629G>T	p.Arg210Met	p.R210M	ENST00000261751	5/6	199	121	78	85	85	0	CHRNB4,missense_variant,p.Arg210Met,ENST00000261751,;CHRNB4,intron_variant,,ENST00000412074,;RP11-335K5.2,downstream_gene_variant,,ENST00000559120,;CHRNB4,downstream_gene_variant,,ENST00000560511,;CHRNB4,3_prime_UTR_variant,,ENST00000559849,;	A	ENSG00000117971	ENST00000261751	Transcript	missense_variant	741	629	210	R/M	aGg/aTg	COSM1301475	.	.	-1	CHRNB4	HGNC	1964	protein_coding	YES	CCDS10306.1	ENSP00000261751	ACHB4_HUMAN	.	UPI0000125276	.	deleterious(0.02)	probably_damaging(1)	5/6	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF385,TIGRFAM_domain:TIGR00860,Gene3D:2.70.170.10,Pfam_domain:PF02931,Superfamily_domains:0038932	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTCCTTCTC	.	5	BLCA
GP2	0	.	GRCh37	16	20322574	20322574	+	Missense_Mutation	SNP	G	G	T	rs746645870	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1585C>A	p.Leu529Met	p.L529M	ENST00000381362	12/12	106	60	46	67	67	0	GP2,missense_variant,p.Leu379Met,ENST00000341642,;GP2,missense_variant,p.Leu526Met,ENST00000302555,;GP2,missense_variant,p.Leu529Met,ENST00000381362,;GP2,missense_variant,p.Leu382Met,ENST00000381360,;	T	ENSG00000169347	ENST00000381362	Transcript	missense_variant	1662	1585	529	L/M	Ctg/Atg	rs746645870,COSM1301694	.	.	-1	GP2	HGNC	4441	protein_coding	YES	CCDS42128.1	ENSP00000370767	GP2_HUMAN	I3L2Z7_HUMAN	UPI000059D333	.	tolerated(0.17)	benign(0.104)	12/12	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22962:SF129,hmmpanther:PTHR22962	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCAGGAGGA	.	5	BLCA
RPGRIP1L	0	.	GRCh37	16	53730066	53730066	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227A>T	p.Lys76Ile	p.K76I	ENST00000379925	3/27	86	50	35	91	91	0	RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000562230,;RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000563746,;RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000379925,;RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000562588,;RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000568653,;RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000262135,;RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000564374,;RPGRIP1L,missense_variant,p.Lys76Ile,ENST00000566096,;RPGRIP1L,downstream_gene_variant,,ENST00000569716,;	A	ENSG00000103494	ENST00000379925	Transcript	missense_variant	278	227	76	K/I	aAa/aTa	COSM1302026	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	deleterious(0)	probably_damaging(0.996)	3/27	.	hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTTTAATT	.	5	BLCA
CDYL2	0	.	GRCh37	16	80646693	80646693	+	Missense_Mutation	SNP	C	C	T	rs200689533	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Val350Met	p.V350M	ENST00000570137	5/7	97	66	31	50	50	0	CDYL2,missense_variant,p.Val351Met,ENST00000563890,;CDYL2,missense_variant,p.Val167Met,ENST00000561616,;CDYL2,missense_variant,p.Val350Met,ENST00000570137,;CDYL2,missense_variant,p.Val351Met,ENST00000566173,;CDYL2,missense_variant,p.Val351Met,ENST00000562812,;	T	ENSG00000166446	ENST00000570137	Transcript	missense_variant	1204	1048	350	V/M	Gtg/Atg	rs200689533,COSM1302270	.	.	-1	CDYL2	HGNC	23030	protein_coding	YES	CCDS32493.1	ENSP00000476295	CDYL2_HUMAN	.	UPI00001B2954	.	deleterious(0)	probably_damaging(1)	5/7	.	hmmpanther:PTHR11941,hmmpanther:PTHR11941:SF52,Pfam_domain:PF00378,Gene3D:3.90.226.10,Superfamily_domains:SSF52096	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCACGATAG	byCluster|by1000G	5	BLCA
DNAH9	0	.	GRCh37	17	11584169	11584169	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3706C>A	p.Gln1236Lys	p.Q1236K	ENST00000262442	19/69	32	20	11	13	13	0	DNAH9,missense_variant,p.Gln1236Lys,ENST00000454412,;DNAH9,missense_variant,p.Gln1236Lys,ENST00000262442,;	A	ENSG00000007174	ENST00000262442	Transcript	missense_variant	3774	3706	1236	Q/K	Caa/Aaa	COSM1302414	.	.	1	DNAH9	HGNC	2953	protein_coding	YES	CCDS11160.1	ENSP00000262442	DYH9_HUMAN	Q92865_HUMAN	UPI0000141BA2	.	.	benign(0.001)	19/69	.	hmmpanther:PTHR10676:SF36,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCAGCAATTC	.	5	BLCA
TOP2A	0	.	GRCh37	17	38564286	38564286	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1433G>C	p.Arg478Thr	p.R478T	ENST00000423485	12/35	63	42	21	69	69	0	TOP2A,missense_variant,p.Arg478Thr,ENST00000423485,;	G	ENSG00000131747	ENST00000423485	Transcript	missense_variant	1592	1433	478	R/T	aGa/aCa	COSM1302770	.	.	-1	TOP2A	HGNC	11989	protein_coding	YES	CCDS45672.1	ENSP00000411532	TOP2A_HUMAN	J3QR57_HUMAN,J3KTB7_HUMAN	UPI0000137195	.	deleterious(0)	probably_damaging(0.983)	12/35	.	PROSITE_profiles:PS50880,hmmpanther:PTHR10169:SF33,hmmpanther:PTHR10169,Pfam_domain:PF01751,Gene3D:3.40.50.670,SMART_domains:SM00433,Superfamily_domains:SSF56719	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCTCCCA	.	5	BLCA
EME1	0	.	GRCh37	17	48452831	48452831	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262G>T	p.Glu88Ter	p.E88*	ENST00000393271	2/9	109	63	45	91	91	0	EME1,stop_gained,p.Glu88Ter,ENST00000393271,;EME1,stop_gained,p.Glu88Ter,ENST00000338165,;EME1,stop_gained,p.Glu88Ter,ENST00000511648,;EME1,stop_gained,p.Glu88Ter,ENST00000511519,;LRRC59,intron_variant,,ENST00000503118,;MRPL27,upstream_gene_variant,,ENST00000225969,;MRPL27,upstream_gene_variant,,ENST00000508200,;MRPL27,upstream_gene_variant,,ENST00000507088,;MRPL27,upstream_gene_variant,,ENST00000511860,;MRPL27,upstream_gene_variant,,ENST00000503633,;MRPL27,upstream_gene_variant,,ENST00000442592,;EME1,upstream_gene_variant,,ENST00000510246,;EME1,stop_gained,p.Glu88Ter,ENST00000511711,;EME1,non_coding_transcript_exon_variant,,ENST00000510007,;MRPL27,upstream_gene_variant,,ENST00000514928,;EME1,upstream_gene_variant,,ENST00000514211,;EME1,upstream_gene_variant,,ENST00000507616,;EME1,upstream_gene_variant,,ENST00000513077,;	T	ENSG00000154920	ENST00000393271	Transcript	stop_gained	344	262	88	E/*	Gaa/Taa	COSM1302998	.	.	1	EME1	HGNC	24965	protein_coding	YES	CCDS54141.1	ENSP00000376952	EME1_HUMAN	D6RIT8_HUMAN	UPI00001AEAC6	.	.	.	2/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21077:SF3,hmmpanther:PTHR21077	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGTGAAGAT	.	5	BLCA
USP32	0	.	GRCh37	17	58268030	58268030	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3536G>T	p.Cys1179Phe	p.C1179F	ENST00000300896	29/34	111	66	45	94	94	0	USP32,missense_variant,p.Cys849Phe,ENST00000592339,;USP32,missense_variant,p.Cys1179Phe,ENST00000300896,;USP32,upstream_gene_variant,,ENST00000586238,;	A	ENSG00000170832	ENST00000300896	Transcript	missense_variant	3731	3536	1179	C/F	tGt/tTt	COSM1303138	.	.	-1	USP32	HGNC	19143	protein_coding	YES	CCDS32697.1	ENSP00000300896	UBP32_HUMAN	Q86WP5_HUMAN,Q6IRT0_HUMAN,Q4VC15_HUMAN,K7EQL6_HUMAN	UPI0000047AF8	.	deleterious(0)	probably_damaging(0.993)	29/34	.	Pfam_domain:PF00443,hmmpanther:PTHR24006:SF392,hmmpanther:PTHR24006,PROSITE_profiles:PS50235	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTACAGCCT	.	5	BLCA
SDK2	0	.	GRCh37	17	71390398	71390398	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3658T>C	p.Trp1220Arg	p.W1220R	ENST00000392650	26/45	39	19	19	15	15	0	SDK2,missense_variant,p.Trp396Arg,ENST00000424778,;SDK2,missense_variant,p.Trp1220Arg,ENST00000388726,;SDK2,missense_variant,p.Trp1220Arg,ENST00000392650,;SDK2,non_coding_transcript_exon_variant,,ENST00000479356,;	G	ENSG00000069188	ENST00000392650	Transcript	missense_variant	3659	3658	1220	W/R	Tgg/Cgg	COSM1303284	.	.	-1	SDK2	HGNC	19308	protein_coding	YES	CCDS45769.1	ENSP00000376421	SDK2_HUMAN	.	UPI0000E5A088	.	deleterious(0)	probably_damaging(1)	26/45	.	PROSITE_profiles:PS50853,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF37,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCCAGCGCA	.	5	BLCA
TP53	0	.	GRCh37	17	7576855	7576855	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.991C>T	p.Gln331Ter	p.Q331*	ENST00000269305	9/11	81	51	29	52	52	0	TP53,stop_gained,p.Gln331Ter,ENST00000420246,;TP53,stop_gained,p.Gln331Ter,ENST00000269305,;TP53,stop_gained,p.Gln18Ter,ENST00000576024,;TP53,stop_gained,p.Gln199Ter,ENST00000509690,;TP53,stop_gained,p.Gln331Ter,ENST00000359597,;TP53,stop_gained,p.Gln331Ter,ENST00000445888,;TP53,stop_gained,p.Gln331Ter,ENST00000455263,;TP53,intron_variant,,ENST00000413465,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,downstream_gene_variant,,ENST00000514944,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,splice_region_variant,,ENST00000504937,;TP53,splice_region_variant,,ENST00000504290,;TP53,splice_region_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	A	ENSG00000141510	ENST00000269305	Transcript	stop_gained	1181	991	331	Q/*	Cag/Tag	TP53_g.14063C>G,TP53_g.14063C>T,TP53_g.14063del,COSM11354,COSM289612,COSM3522688,COSM1649348	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	9/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF07710,Gene3D:1olgA00,Superfamily_domains:SSF47719,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	0,0,0,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,0,0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q331*|c.991C>T|3,SITE|p.Q331*|c.991C>T|13,SITE|p.Q331*|c.991C>T|6,SITE|p.Q331*|c.991C>T|33,CODON|p.0?|c.1_1182del1182|6,CODON|p.Q331Q|c.993G>A|4,CODON|p.Q331H|c.993G>T|5,CODON|p.Q331Q|c.993G>A|3,CODON|p.Q331H|c.993G>T|3,CODON|p.Q331H|c.993G>C|3,BUFFER|p.?|c.993+2T>G|3,BUFFER|p.?|c.993+2T>C|6,BUFFER|p.?|c.993+2T>G|3,BUFFER|p.?|c.993+1G>T|5,BUFFER|p.?|c.993+1G>A|15,BUFFER|p.?|c.993+1G>T|9,BUFFER|p.?|c.993+1G>C|3,BUFFER|p.?|c.993+1G>A|6,BUFFER|p.?|c.993+1G>C|3,BUFFER|p.L330R|c.989T>G|4,BUFFER|p.L330R|c.989T>G|3,BUFFER|p.L330R|c.989T>G|5,BUFFER|p.L330H|c.989T>A|3,BUFFER|p.L330R|c.989T>G|3,BUFFER|p.Y327*|c.981T>G|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTGAAGGG	.	5	BLCA
TP53	0	.	GRCh37	17	7578403	7578403	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527G>T	p.Cys176Phe	p.C176F	ENST00000269305	5/11	81	42	39	45	45	0	TP53,missense_variant,p.Cys176Phe,ENST00000413465,;TP53,missense_variant,p.Cys176Phe,ENST00000420246,;TP53,missense_variant,p.Cys176Phe,ENST00000269305,;TP53,missense_variant,p.Cys44Phe,ENST00000509690,;TP53,missense_variant,p.Cys176Phe,ENST00000359597,;TP53,missense_variant,p.Cys83Phe,ENST00000514944,;TP53,missense_variant,p.Cys176Phe,ENST00000445888,;TP53,missense_variant,p.Cys176Phe,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,non_coding_transcript_exon_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;	A	ENSG00000141510	ENST00000269305	Transcript	missense_variant	717	527	176	C/F	tGc/tTc	TP53_g.12515G>A,TP53_g.12515del,TP53_g.12515G>T,TP53_g.12515G>C,COSM10645,COSM44645,COSM10687,COSM117398,COSM99672,COSM3773309,COSM99669,COSM117395,COSM3773312,COSM117396,COSM99670,COSM3773314,COSM3388204,COSM3378352,COSM3773311,COSM1640850,COSM1649384,COSM3773310,COSM99671,COSM117397,COSM3773313	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(0.993)	5/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.C176F|c.527G>T|33,SITE|p.C176F|c.527G>T|133,SITE|p.C176F|c.527G>T|11,SITE|p.C176F|c.527G>T|33,SITE|p.C83F|c.248G>T|33,SITE|p.C44F|c.131G>T|34,SITE|p.C176F|c.527G>T|17,CODON|p.0?|c.1_1182del1182|6,CODON|p.P177_C182delPHHERC|c.526_543del18|3,CODON|p.H178fs*69|c.528delC|3,CODON|p.C176*|c.528C>A|3,CODON|p.C44*|c.132C>A|3,CODON|p.C176*|c.528C>A|11,CODON|p.C176W|c.528C>G|12,CODON|p.C83*|c.249C>A|3,CODON|p.C176*|c.528C>A|3,CODON|p.C176fs*71|c.526delT|7,CODON|p.C44Y|c.131G>A|20,CODON|p.C176Y|c.527G>A|73,CODON|p.C176Y|c.527G>A|19,CODON|p.C83Y|c.248G>A|19,CODON|p.C176Y|c.527G>A|19,CODON|p.C176S|c.527G>C|9,CODON|p.C176Y|c.527G>A|11,CODON|p.C176Y|c.527G>A|9,BUFFER|p.P177_C182delPHHERC|c.529_546del18|9,BUFFER|p.E180K|c.538G>A|6,BUFFER|p.E180*|c.538G>T|14,BUFFER|p.H179Q|c.537T>A|7,BUFFER|p.H179Q|c.537T>A|16,BUFFER|p.H179Q|c.537T>A|7,BUFFER|p.H179Q|c.537T>A|5,BUFFER|p.H86Q|c.258T>A|7,BUFFER|p.H47Q|c.141T>A|7,BUFFER|p.H179Q|c.537T>G|9,BUFFER|p.H179R|c.536A>G|17,BUFFER|p.H179L|c.536A>T|40,BUFFER|p.H47R|c.140A>G|31,BUFFER|p.H86R|c.257A>G|30,BUFFER|p.H179L|c.536A>T|4,BUFFER|p.H179R|c.536A>G|136,BUFFER|p.H179L|c.536A>T|7,BUFFER|p.H179R|c.536A>G|30,BUFFER|p.H179L|c.536A>T|7,BUFFER|p.H47L|c.140A>T|9,BUFFER|p.H179P|c.536A>C|5,BUFFER|p.H179R|c.536A>G|21,BUFFER|p.H86L|c.257A>T|7,BUFFER|p.H179R|c.536A>G|30,BUFFER|p.H179Y|c.534_535CC>TT|8,BUFFER|p.H179D|c.535C>G|12,BUFFER|p.H179Y|c.535C>T|4,BUFFER|p.H47Y|c.139C>T|15,BUFFER|p.H179Y|c.535C>T|5,BUFFER|p.H179Y|c.535C>T|88,BUFFER|p.H179N|c.535C>A|15,BUFFER|p.H179Y|c.535C>T|14,BUFFER|p.H179Y|c.535C>T|14,BUFFER|p.H86Y|c.256C>T|14,BUFFER|p.H178Q|c.534C>A|5,BUFFER|p.H178fs*69|c.532delC|10,BUFFER|p.H178P|c.533A>C|7,BUFFER|p.H178D|c.532C>G|5,BUFFER|p.H178N|c.532C>A|3,BUFFER|p.H178Y|c.532C>T|7,BUFFER|p.P177P|c.531C>T|7,BUFFER|p.P177R|c.530C>G|3,BUFFER|p.P177L|c.530C>T|20,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P177R|c.530C>G|18,BUFFER|p.P177R|c.530C>G|3,BUFFER|p.P84L|c.251C>T|4,BUFFER|p.P45L|c.134C>T|4,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P177L|c.530C>T|3,BUFFER|p.P45R|c.134C>G|3,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P84R|c.251C>G|3,BUFFER|p.P177S|c.529C>T|10,BUFFER|p.C83S|c.247T>A|3,BUFFER|p.C44R|c.130T>C|4,BUFFER|p.C83R|c.247T>C|4,BUFFER|p.C176G|c.526T>G|4,BUFFER|p.C176S|c.526T>A|3,BUFFER|p.C44G|c.130T>G|4,BUFFER|p.C44S|c.130T>A|3,BUFFER|p.C176S|c.526T>A|12,BUFFER|p.C176R|c.526T>C|4,BUFFER|p.C176S|c.526T>A|3,BUFFER|p.C83G|c.247T>G|4,BUFFER|p.C176G|c.526T>G|7,BUFFER|p.C176R|c.526T>C|4,BUFFER|p.C176G|c.526T>G|4,BUFFER|p.C176R|c.526T>C|13,BUFFER|p.C176fs*5|c.525_526insN|3,BUFFER|p.R175L|c.524G>T|20,BUFFER|p.R175H|c.524G>A|181,BUFFER|p.R175P|c.524G>C|6,BUFFER|p.R43H|c.128G>A|183,BUFFER|p.R82H|c.245G>A|183,BUFFER|p.R175H|c.524G>A|124,BUFFER|p.R175L|c.524G>T|3,BUFFER|p.R175L|c.524G>T|3,BUFFER|p.R175H|c.524G>A|180,BUFFER|p.R175H|c.524G>A|926,BUFFER|p.R175L|c.524G>T|3,BUFFER|p.R175H|c.524G>A|88,BUFFER|p.R43L|c.128G>T|3,BUFFER|p.R82L|c.245G>T|3,BUFFER|p.R175C|c.523C>T|18,BUFFER|p.R175S|c.523C>A|6,BUFFER|p.R82G|c.244C>G|5,BUFFER|p.R175C|c.523C>T|4,BUFFER|p.R43G|c.127C>G|8,BUFFER|p.R175G|c.523C>G|5,BUFFER|p.R43C|c.127C>T|4,BUFFER|p.R175G|c.523C>G|5,BUFFER|p.R82C|c.244C>T|4,BUFFER|p.R175G|c.523C>G|16,BUFFER|p.R175C|c.523C>T|4,BUFFER|p.R174K|c.521G>A|5,BUFFER|p.R174W|c.520A>T|11,BUFFER|p.V173V|c.519G>A|6,BUFFER|p.V173V|c.519G>T|3,BUFFER|p.V173A|c.518T>C|14,BUFFER|p.V173G|c.518T>G|8,BUFFER|p.V173E|c.518T>A|4,BUFFER|p.V41E|c.122T>A|3,BUFFER|p.V173E|c.518T>A|3,BUFFER|p.V80E|c.239T>A|3,BUFFER|p.V173E|c.518T>A|3,BUFFER|p.V173fs*1|c.517delG|4,BUFFER|p.V41L|c.121G>T|9,BUFFER|p.V80L|c.238G>T|9,BUFFER|p.V173M|c.517G>A|10,BUFFER|p.V80L|c.238G>C|5,BUFFER|p.V41M|c.121G>A|11,BUFFER|p.V173L|c.517G>C|5,BUFFER|p.V173M|c.517G>A|11,BUFFER|p.V173L|c.517G>C|15,BUFFER|p.V173L|c.517G>T|9,BUFFER|p.V173L|c.517G>C|5,BUFFER|p.V173M|c.517G>A|4,BUFFER|p.V80M|c.238G>A|11,BUFFER|p.V173L|c.517G>T|52,BUFFER|p.V173L|c.517G>T|9,BUFFER|p.V173M|c.517G>A|50,BUFFER|p.V41L|c.121G>C|5,BUFFER|p.V173M|c.517G>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGGCAGCGC	.	5	BLCA
ARHGDIA	0	.	GRCh37	17	79826899	79826899	+	Silent	SNP	G	G	A	rs779427124	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.468C>T	p.%3D	p.Y156Y	ENST00000269321	6/6	50	25	24	31	31	0	ARHGDIA,synonymous_variant,p.%3D,ENST00000541078,;ARHGDIA,synonymous_variant,p.%3D,ENST00000579121,;ARHGDIA,synonymous_variant,p.%3D,ENST00000580685,;ARHGDIA,synonymous_variant,p.%3D,ENST00000584461,;ARHGDIA,synonymous_variant,p.%3D,ENST00000581876,;ARHGDIA,synonymous_variant,p.%3D,ENST00000269321,;ARHGDIA,intron_variant,,ENST00000400721,;ARHGDIA,intron_variant,,ENST00000583868,;RP11-498C9.3,downstream_gene_variant,,ENST00000576021,;RP11-498C9.3,downstream_gene_variant,,ENST00000576554,;ARHGDIA,upstream_gene_variant,,ENST00000582520,;ARHGDIA,3_prime_UTR_variant,,ENST00000580033,;ARHGDIA,non_coding_transcript_exon_variant,,ENST00000582984,;ARHGDIA,non_coding_transcript_exon_variant,,ENST00000583791,;ARHGDIA,downstream_gene_variant,,ENST00000582309,;ARHGDIA,downstream_gene_variant,,ENST00000578351,;ARHGDIA,downstream_gene_variant,,ENST00000583499,;ARHGDIA,downstream_gene_variant,,ENST00000583111,;ARHGDIA,downstream_gene_variant,,ENST00000584397,;	A	ENSG00000141522	ENST00000269321	Transcript	synonymous_variant	604	468	156	Y	taC/taT	rs779427124,COSM1303519	.	.	-1	ARHGDIA	HGNC	678	protein_coding	YES	CCDS11788.1	ENSP00000269321	GDIR1_HUMAN	J3KS60_HUMAN	UPI0000110BD8	.	.	.	6/6	.	hmmpanther:PTHR10980:SF9,hmmpanther:PTHR10980,Pfam_domain:PF02115,Gene3D:2.70.50.30,Superfamily_domains:SSF81296,Prints_domain:PR00492	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTCGTACTC	byFrequency	5	BLCA
NPC1	0	.	GRCh37	18	21119389	21119389	+	Silent	SNP	G	G	A	rs755936884	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2841C>T	p.%3D	p.F947F	ENST00000269228	19/25	64	38	26	32	32	0	NPC1,synonymous_variant,p.%3D,ENST00000269228,;NPC1,synonymous_variant,p.%3D,ENST00000412552,;NPC1,synonymous_variant,p.%3D,ENST00000591051,;NPC1,upstream_gene_variant,,ENST00000591107,;NPC1,upstream_gene_variant,,ENST00000586150,;NPC1,downstream_gene_variant,,ENST00000540608,;NPC1,non_coding_transcript_exon_variant,,ENST00000591075,;NPC1,downstream_gene_variant,,ENST00000586718,;NPC1,upstream_gene_variant,,ENST00000591955,;NPC1,upstream_gene_variant,,ENST00000587163,;NPC1,upstream_gene_variant,,ENST00000588867,;	A	ENSG00000141458	ENST00000269228	Transcript	synonymous_variant	3396	2841	947	F	ttC/ttT	rs755936884,COSM1303617	.	.	-1	NPC1	HGNC	7897	protein_coding	YES	CCDS11878.1	ENSP00000269228	NPC1_HUMAN	.	UPI000013D80F	.	.	.	19/25	.	hmmpanther:PTHR10796:SF35,hmmpanther:PTHR10796,TIGRFAM_domain:TIGR00917	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTCGAAATA	byFrequency	5	BLCA
ANGPTL6	0	.	GRCh37	19	10206748	10206748	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492C>T	p.%3D	p.F164F	ENST00000253109	2/6	32	15	17	17	17	0	ANGPTL6,synonymous_variant,p.%3D,ENST00000253109,;ANGPTL6,synonymous_variant,p.%3D,ENST00000589181,;ANGPTL6,synonymous_variant,p.%3D,ENST00000592641,;C19orf66,downstream_gene_variant,,ENST00000593131,;C19orf66,downstream_gene_variant,,ENST00000591813,;C19orf66,downstream_gene_variant,,ENST00000397881,;C19orf66,downstream_gene_variant,,ENST00000253110,;ANGPTL6,non_coding_transcript_exon_variant,,ENST00000586910,;C19orf66,downstream_gene_variant,,ENST00000585919,;C19orf66,downstream_gene_variant,,ENST00000586730,;C19orf66,downstream_gene_variant,,ENST00000587710,;	A	ENSG00000130812	ENST00000253109	Transcript	synonymous_variant	731	492	164	F	ttC/ttT	COSM1303905	.	.	-1	ANGPTL6	HGNC	23140	protein_coding	YES	CCDS12224.1	ENSP00000253109	ANGL6_HUMAN	.	UPI000004BA54	.	.	.	2/6	.	hmmpanther:PTHR19143:SF169,hmmpanther:PTHR19143	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCGGAACTT	.	5	BLCA
RPL18A	0	.	GRCh37	19	17972200	17972200	+	Silent	SNP	C	C	A	rs372248330	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.117C>A	p.%3D	p.V39V	ENST00000222247	2/5	24	12	12	12	12	0	RPL18A,synonymous_variant,p.%3D,ENST00000597648,;RPL18A,synonymous_variant,p.%3D,ENST00000599870,;RPL18A,synonymous_variant,p.%3D,ENST00000600147,;RPL18A,synonymous_variant,p.%3D,ENST00000222247,;RPL18A,intron_variant,,ENST00000599898,;SNORA68,upstream_gene_variant,,ENST00000384437,;RPL18A,non_coding_transcript_exon_variant,,ENST00000600238,;RPL18A,non_coding_transcript_exon_variant,,ENST00000602216,;	A	ENSG00000105640	ENST00000222247	Transcript	synonymous_variant	198	117	39	V	gtC/gtA	rs372248330,COSM1304187	.	.	1	RPL18A	HGNC	10311	protein_coding	YES	CCDS12367.1	ENSP00000222247	RL18A_HUMAN	Q76N54_HUMAN,M0R3D6_HUMAN,M0R1A7_HUMAN,B4DUV3_HUMAN	UPI0000133CD9	.	.	.	2/5	.	HAMAP:MF_00273,hmmpanther:PTHR10052:SF6,hmmpanther:PTHR10052,Pfam_domain:PF01775,PIRSF_domain:PIRSF002190	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCGTCGCCAA	byCluster	5	BLCA
ZNF536	0	.	GRCh37	19	31040189	31040189	+	Silent	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3663G>T	p.%3D	p.L1221L	ENST00000355537	4/5	64	31	33	31	31	0	ZNF536,synonymous_variant,p.%3D,ENST00000355537,;ZNF536,upstream_gene_variant,,ENST00000592773,;ZNF536,downstream_gene_variant,,ENST00000585628,;	T	ENSG00000198597	ENST00000355537	Transcript	synonymous_variant	3810	3663	1221	L	ctG/ctT	COSM1304380	.	.	1	ZNF536	HGNC	29025	protein_coding	YES	CCDS32984.1	ENSP00000347730	ZN536_HUMAN	K7EKT4_HUMAN,K7EJP8_HUMAN	UPI000006ED3E	.	.	.	4/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTGGTCTC	.	5	BLCA
ZNF573	0	.	GRCh37	19	38262256	38262256	+	Silent	SNP	C	C	T	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.150G>A	p.%3D	p.R50R	ENST00000590414	2/4	44	27	17	29	29	0	ZNF573,synonymous_variant,p.%3D,ENST00000588218,;ZNF573,synonymous_variant,p.%3D,ENST00000378445,;ZNF573,synonymous_variant,p.%3D,ENST00000590414,;ZNF573,5_prime_UTR_variant,,ENST00000392138,;ZNF573,5_prime_UTR_variant,,ENST00000339503,;ZNF573,5_prime_UTR_variant,,ENST00000536220,;ZNF573,intron_variant,,ENST00000357309,;ZNF573,intron_variant,,ENST00000585724,;ZNF573,non_coding_transcript_exon_variant,,ENST00000494605,;ZNF573,synonymous_variant,p.%3D,ENST00000591516,;ZNF573,synonymous_variant,p.%3D,ENST00000489148,;ZNF573,synonymous_variant,p.%3D,ENST00000589632,;ZNF573,synonymous_variant,p.%3D,ENST00000586155,;	T	ENSG00000189144	ENST00000590414	Transcript	synonymous_variant	172	150	50	R	agG/agA	.	.	.	-1	ZNF573	HGNC	26420	protein_coding	YES	CCDS59381.1	ENSP00000465020	.	K7EJ45_HUMAN	UPI000059D70C	.	.	.	2/4	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24377:SF159,hmmpanther:PTHR24377,Pfam_domain:PF01352,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTCCCTCTG	.	5	BLCA
RYR1	0	.	GRCh37	19	38966040	38966040	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4243G>A	p.Val1415Met	p.V1415M	ENST00000359596	29/106	58	36	22	30	30	0	RYR1,missense_variant,p.Val1415Met,ENST00000355481,;RYR1,missense_variant,p.Val1415Met,ENST00000360985,;RYR1,missense_variant,p.Val1415Met,ENST00000359596,;	A	ENSG00000196218	ENST00000359596	Transcript	missense_variant	4243	4243	1415	V/M	Gtg/Atg	COSM1304516	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	probably_damaging(0.964)	29/106	.	PROSITE_profiles:PS50188,hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGTGGTGCCT	.	5	BLCA
GRIK5	0	.	GRCh37	19	42526200	42526200	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1596G>T	p.Lys532Asn	p.K532N	ENST00000262895	13/19	34	19	14	18	18	0	GRIK5,missense_variant,p.Lys532Asn,ENST00000301218,;GRIK5,missense_variant,p.Lys532Asn,ENST00000593562,;GRIK5,missense_variant,p.Lys532Asn,ENST00000262895,;GRIK5,3_prime_UTR_variant,,ENST00000594528,;GRIK5,non_coding_transcript_exon_variant,,ENST00000454993,;	A	ENSG00000105737	ENST00000262895	Transcript	missense_variant	1596	1596	532	K/N	aaG/aaT	COSM1304650,COSM1304651	.	.	-1	GRIK5	HGNC	4583	protein_coding	YES	CCDS12595.1	ENSP00000262895	GRIK5_HUMAN	.	UPI000013D353	.	tolerated(0.69)	benign(0.287)	13/19	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF34,Gene3D:3.40.190.10,SMART_domains:SM00079	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGGCTTGCG	.	5	BLCA
NOVA2	0	.	GRCh37	19	46443268	46443268	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332G>A	p.%3D	p.K444K	ENST00000263257	4/4	218	141	77	132	132	0	NOVA2,synonymous_variant,p.%3D,ENST00000263257,;NOVA2,downstream_gene_variant,,ENST00000596784,;	T	ENSG00000104967	ENST00000263257	Transcript	synonymous_variant	1527	1332	444	K	aaG/aaA	COSM1304798	.	.	-1	NOVA2	HGNC	7887	protein_coding	YES	CCDS12679.1	ENSP00000263257	NOVA2_HUMAN	Q9HDB7_HUMAN,M0R1A0_HUMAN	UPI000006EBE8	.	.	.	4/4	.	PROSITE_profiles:PS50084,hmmpanther:PTHR10288,hmmpanther:PTHR10288:SF141,Gene3D:3.30.1370.10,Pfam_domain:PF00013,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G446G|c.1338C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCTTGGA	.	5	BLCA
NLRP11	0	.	GRCh37	19	56297208	56297208	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2885C>A	p.Thr962Asn	p.T962N	ENST00000443188	12/12	50	32	18	56	56	0	NLRP11,missense_variant,p.Thr962Asn,ENST00000589093,;NLRP11,missense_variant,p.Thr863Asn,ENST00000592953,;NLRP11,missense_variant,p.Thr908Asn,ENST00000589824,;NLRP11,missense_variant,p.Thr908Asn,ENST00000360133,;NLRP11,missense_variant,p.Thr962Asn,ENST00000443188,;NLRP11,3_prime_UTR_variant,,ENST00000590409,;	T	ENSG00000179873	ENST00000443188	Transcript	missense_variant	3596	2885	962	T/N	aCc/aAc	COSM1305147	.	.	-1	NLRP11	HGNC	22945	protein_coding	YES	CCDS12935.1	ENSP00000409898	NAL11_HUMAN	K7ESF9_HUMAN	UPI000013ED9D	.	deleterious(0.01)	possibly_damaging(0.881)	12/12	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF62	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGGGTTTGT	.	5	BLCA
MISP	0	.	GRCh37	19	758421	758421	+	Missense_Mutation	SNP	C	C	T	rs112598403	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1475C>T	p.Pro492Leu	p.P492L	ENST00000215582	2/5	36	4	31	33	33	0	MISP,missense_variant,p.Pro492Leu,ENST00000215582,;	T	ENSG00000099812	ENST00000215582	Transcript	missense_variant	1578	1475	492	P/L	cCg/cTg	rs112598403,COSM1305291	.	.	1	MISP	HGNC	27000	protein_coding	YES	CCDS12042.1	ENSP00000215582	MISP_HUMAN	.	UPI00000745CD	.	tolerated(0.15)	benign(0.002)	2/5	.	hmmpanther:PTHR18839:SF2,hmmpanther:PTHR18839,Pfam_domain:PF15304	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCCCGCAAG	byCluster	5	BLCA
MUC16	0	.	GRCh37	19	9085867	9085867	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5948C>T	p.Ser1983Phe	p.S1983F	ENST00000397910	1/84	112	45	67	51	51	0	MUC16,missense_variant,p.Ser1983Phe,ENST00000397910,;	A	ENSG00000181143	ENST00000397910	Transcript	missense_variant	6152	5948	1983	S/F	tCc/tTc	COSM1305408,COSM1305407	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	1/84	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGTGGACTGT	.	5	BLCA
COL11A1	0	.	GRCh37	1	103461428	103461428	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2332G>T	p.Gly778Cys	p.G778C	ENST00000370096	28/67	107	46	60	71	71	0	COL11A1,missense_variant,p.Gly662Cys,ENST00000512756,;COL11A1,missense_variant,p.Gly739Cys,ENST00000353414,;COL11A1,missense_variant,p.Gly778Cys,ENST00000370096,;COL11A1,missense_variant,p.Gly790Cys,ENST00000358392,;	A	ENSG00000060718	ENST00000370096	Transcript	missense_variant	2645	2332	778	G/C	Ggt/Tgt	COSM1294633,COSM1294634	.	.	-1	COL11A1	HGNC	2186	protein_coding	YES	CCDS778.1	ENSP00000359114	COBA1_HUMAN	Q4FAC4_HUMAN,B4DQZ0_HUMAN	UPI00002053EF	.	.	unknown(0)	28/67	.	hmmpanther:PTHR24023:SF42,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCACCTTTAG	.	5	BLCA
KCNC4	0	.	GRCh37	1	110754241	110754241	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120C>T	p.%3D	p.I40I	ENST00000369787	1/4	68	44	24	41	41	0	KCNC4,synonymous_variant,p.%3D,ENST00000413138,;KCNC4,synonymous_variant,p.%3D,ENST00000369787,;KCNC4,synonymous_variant,p.%3D,ENST00000438661,;KCNC4-AS1,upstream_gene_variant,,ENST00000455967,;KCNC4,upstream_gene_variant,,ENST00000412512,;KCNC4,synonymous_variant,p.%3D,ENST00000469655,;KCNC4,non_coding_transcript_exon_variant,,ENST00000489935,;	T	ENSG00000116396	ENST00000369787	Transcript	synonymous_variant	147	120	40	I	atC/atT	COSM1294702,COSM1294703	.	.	1	KCNC4	HGNC	6236	protein_coding	YES	CCDS821.1	ENSP00000358802	KCNC4_HUMAN	.	UPI000013CAC8	.	.	.	1/4	.	hmmpanther:PTHR11537:SF126,hmmpanther:PTHR11537,Gene3D:3.30.710.10,Pfam_domain:PF02214,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCAACGT	.	5	BLCA
SPAG17	0	.	GRCh37	1	118537064	118537064	+	Silent	SNP	G	G	T	rs754534447	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5143C>A	p.%3D	p.R1715R	ENST00000336338	35/49	96	62	34	77	77	0	SPAG17,synonymous_variant,p.%3D,ENST00000437255,;SPAG17,synonymous_variant,p.%3D,ENST00000336338,;	T	ENSG00000155761	ENST00000336338	Transcript	synonymous_variant	5209	5143	1715	R	Cgg/Agg	rs754534447,COSM202194,COSM1294798	.	.	-1	SPAG17	HGNC	26620	protein_coding	YES	CCDS899.1	ENSP00000337804	SPG17_HUMAN	A7LBF9_HUMAN	UPI00001601FD	.	.	.	35/49	.	hmmpanther:PTHR21963	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACCGGAGAT	.	5	BLCA
OR6Y1	0	.	GRCh37	1	158517011	158517011	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.885C>A	p.Tyr295Ter	p.Y295*	ENST00000302617	1/1	124	77	47	84	84	0	OR6Y1,stop_gained,p.Tyr295Ter,ENST00000302617,;	T	ENSG00000197532	ENST00000302617	Transcript	stop_gained	885	885	295	Y/*	taC/taA	COSM1295286	.	.	-1	OR6Y1	HGNC	14823	protein_coding	YES	CCDS30899.1	ENSP00000304807	OR6Y1_HUMAN	.	UPI000004B1E2	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF109,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACAGTAAAT	.	5	BLCA
KIFAP3	0	.	GRCh37	1	169951164	169951164	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1747G>T	p.Ala583Ser	p.A583S	ENST00000361580	15/20	65	36	28	54	54	0	KIFAP3,missense_variant,p.Ala583Ser,ENST00000361580,;KIFAP3,missense_variant,p.Ala505Ser,ENST00000538366,;KIFAP3,missense_variant,p.Ala543Ser,ENST00000367765,;KIFAP3,missense_variant,p.Ala285Ser,ENST00000540905,;KIFAP3,missense_variant,p.Ala539Ser,ENST00000367767,;	A	ENSG00000075945	ENST00000361580	Transcript	missense_variant	1975	1747	583	A/S	Gca/Tca	COSM1295460	.	.	-1	KIFAP3	HGNC	17060	protein_coding	YES	CCDS1288.1	ENSP00000354560	KIFA3_HUMAN	B7Z7E7_HUMAN	UPI000006CD6C	.	tolerated(0.67)	benign(0.077)	15/20	.	hmmpanther:PTHR15605,Pfam_domain:PF05804,Gene3D:1.25.10.10,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATGCAGCAC	.	5	BLCA
CDC42BPA	0	.	GRCh37	1	227198689	227198689	+	Intron	SNP	G	G	T	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4752+5092C>A	.	.	ENST00000366769	.	15	8	6	13	13	0	CDC42BPA,missense_variant,p.His813Asn,ENST00000448940,;CDC42BPA,missense_variant,p.His1610Asn,ENST00000334218,;CDC42BPA,intron_variant,,ENST00000366767,;CDC42BPA,intron_variant,,ENST00000429440,;CDC42BPA,intron_variant,,ENST00000442054,;CDC42BPA,intron_variant,,ENST00000366769,;CDC42BPA,intron_variant,,ENST00000366765,;CDC42BPA,intron_variant,,ENST00000366764,;CDC42BPA,intron_variant,,ENST00000366766,;CDC42BPA,intron_variant,,ENST00000535525,;	T	ENSG00000143776	ENST00000366769	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	CDC42BPA	HGNC	1737	protein_coding	YES	CCDS1558.1	ENSP00000355731	MRCKA_HUMAN	Q9NYF6_HUMAN	UPI000019097D	.	.	.	.	33/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	CATGTGATAGA	.	4	BLCA
HTR1D	0	.	GRCh37	1	23519904	23519904	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.809C>T	p.Ser270Phe	p.S270F	ENST00000374619	1/1	89	51	37	50	50	0	HTR1D,missense_variant,p.Ser270Phe,ENST00000314113,;HTR1D,missense_variant,p.Ser270Phe,ENST00000374619,;	A	ENSG00000179546	ENST00000374619	Transcript	missense_variant	1319	809	270	S/F	tCc/tTc	COSM1296013,COSM3804414	.	.	-1	HTR1D	HGNC	5289	protein_coding	YES	CCDS231.1	ENSP00000363748	5HT1D_HUMAN	.	UPI00000503DE	.	deleterious(0.01)	possibly_damaging(0.887)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24247:SF17,hmmpanther:PTHR24247,Pfam_domain:PF00001	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGGGAGCCA	.	5	BLCA
CHRM3	0	.	GRCh37	1	240071577	240071577	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.826G>A	p.Glu276Lys	p.E276K	ENST00000255380	5/5	47	27	19	28	28	0	CHRM3,missense_variant,p.Glu276Lys,ENST00000255380,;CHRM3,downstream_gene_variant,,ENST00000448020,;	A	ENSG00000133019	ENST00000255380	Transcript	missense_variant	1605	826	276	E/K	Gag/Aag	COSM1296068	.	.	1	CHRM3	HGNC	1952	protein_coding	YES	CCDS1616.1	ENSP00000255380	ACM3_HUMAN	Q8NG01_HUMAN,B1AN12_HUMAN	UPI0000050453	.	tolerated(0.17)	benign(0.065)	5/5	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249:SF61,hmmpanther:PTHR24249,Pfam_domain:PF00001,Prints_domain:PR00540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCAGAGACA	.	5	BLCA
CYP4A22	0	.	GRCh37	1	47603170	47603170	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13G>T	p.Val5Phe	p.V5F	ENST00000371891	1/12	139	89	50	106	106	0	CYP4A22,missense_variant,p.Val5Phe,ENST00000371890,;CYP4A22,missense_variant,p.Val5Phe,ENST00000294337,;CYP4A22,missense_variant,p.Val5Phe,ENST00000371891,;CYP4A22-AS1,intron_variant,,ENST00000444042,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000485117,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000490948,;	T	ENSG00000162365	ENST00000371891	Transcript	missense_variant	44	13	5	V/F	Gtc/Ttc	COSM1296530	.	.	1	CYP4A22	HGNC	20575	protein_coding	YES	CCDS30707.1	ENSP00000360958	CP4AM_HUMAN	.	UPI00002371F0	.	tolerated_low_confidence(0.3)	benign(0.379)	1/12	.	hmmpanther:PTHR24290:SF67,hmmpanther:PTHR24290	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGTCCTG	.	5	BLCA
ELAVL4	0	.	GRCh37	1	50610812	50610812	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244C>T	p.Leu82Phe	p.L82F	ENST00000357083	2/7	104	89	14	58	58	0	ELAVL4,missense_variant,p.Leu70Phe,ENST00000371819,;ELAVL4,missense_variant,p.Leu82Phe,ENST00000357083,;ELAVL4,missense_variant,p.Leu65Phe,ENST00000371824,;ELAVL4,missense_variant,p.Leu68Phe,ENST00000448907,;ELAVL4,missense_variant,p.Leu70Phe,ENST00000371821,;ELAVL4,missense_variant,p.Leu65Phe,ENST00000371827,;ELAVL4,missense_variant,p.Leu65Phe,ENST00000371823,;ELAVL4,non_coding_transcript_exon_variant,,ENST00000463650,;ELAVL4,non_coding_transcript_exon_variant,,ENST00000494555,;ELAVL4,non_coding_transcript_exon_variant,,ENST00000492299,;	T	ENSG00000162374	ENST00000357083	Transcript	missense_variant	286	244	82	L/F	Ctc/Ttc	COSM1296539,COSM1296538	.	.	1	ELAVL4	HGNC	3315	protein_coding	YES	CCDS44139.1	ENSP00000349594	ELAV4_HUMAN	B7Z5E0_HUMAN	UPI000006F633	.	deleterious(0)	probably_damaging(0.997)	2/7	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011,hmmpanther:PTHR24011:SF243,Gene3D:3.30.70.330,TIGRFAM_domain:TIGR01661,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGTCTCTTC	.	4	BLCA
PCNT	0	.	GRCh37	21	47769714	47769714	+	Missense_Mutation	SNP	G	G	A	rs780769402	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1324G>A	p.Glu442Lys	p.E442K	ENST00000359568	8/47	67	40	26	58	58	0	PCNT,missense_variant,p.Glu442Lys,ENST00000359568,;PCNT,non_coding_transcript_exon_variant,,ENST00000466474,;PCNT,non_coding_transcript_exon_variant,,ENST00000483844,;PCNT,non_coding_transcript_exon_variant,,ENST00000480896,;PCNT,non_coding_transcript_exon_variant,,ENST00000490468,;	A	ENSG00000160299	ENST00000359568	Transcript	missense_variant	1431	1324	442	E/K	Gag/Aag	rs780769402,COSM1307911	.	.	1	PCNT	HGNC	16068	protein_coding	YES	CCDS33592.1	ENSP00000352572	PCNT_HUMAN	.	UPI00001AEB88	.	.	benign(0.066)	8/47	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF11,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGCGAGAAA	byFrequency	5	BLCA
HIRA	0	.	GRCh37	22	19393309	19393309	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>A	p.Asp133Asn	p.D133N	ENST00000263208	5/25	70	46	24	59	59	0	HIRA,missense_variant,p.Asp89Asn,ENST00000541063,;HIRA,missense_variant,p.Asp133Asn,ENST00000340170,;HIRA,missense_variant,p.Asp133Asn,ENST00000263208,;HIRA,missense_variant,p.Asp89Asn,ENST00000546308,;HIRA,splice_region_variant,,ENST00000464189,;HIRA,splice_region_variant,,ENST00000452818,;C22orf39,splice_region_variant,,ENST00000509549,;	T	ENSG00000100084	ENST00000263208	Transcript	missense_variant	654	397	133	D/N	Gat/Aat	COSM1307946	.	.	-1	HIRA	HGNC	4916	protein_coding	YES	CCDS13759.1	ENSP00000263208	HIRA_HUMAN	F5H4M2_HUMAN	UPI0000074373	.	deleterious(0)	probably_damaging(1)	5/25	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR13831:SF0,hmmpanther:PTHR13831,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCACCGCCTG	.	5	BLCA
PIWIL3	0	.	GRCh37	22	25131817	25131817	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1492G>A	p.Glu498Lys	p.E498K	ENST00000332271	13/21	147	103	44	127	127	0	PIWIL3,missense_variant,p.Glu498Lys,ENST00000332271,;PIWIL3,missense_variant,p.Glu389Lys,ENST00000527701,;PIWIL3,missense_variant,p.Glu389Lys,ENST00000533313,;PIWIL3,non_coding_transcript_exon_variant,,ENST00000532537,;	T	ENSG00000184571	ENST00000332271	Transcript	missense_variant	1909	1492	498	E/K	Gaa/Aaa	COSM1308019,COSM1177251	.	.	-1	PIWIL3	HGNC	18443	protein_coding	YES	CCDS33623.1	ENSP00000330031	PIWL3_HUMAN	.	UPI00002073D6	.	tolerated(0.19)	benign(0.001)	13/21	.	hmmpanther:PTHR22892:SF28,hmmpanther:PTHR22892,Gene3D:3.40.50.2300,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAATTCTCTTA	.	5	BLCA
ISX	0	.	GRCh37	22	35463109	35463109	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.29G>A	p.Cys10Tyr	p.C10Y	ENST00000308700	1/4	55	29	26	38	38	0	ISX,missense_variant,p.Cys10Tyr,ENST00000308700,;ISX,missense_variant,p.Cys10Tyr,ENST00000404699,;RP1-272J12.1,intron_variant,,ENST00000448318,;	A	ENSG00000175329	ENST00000308700	Transcript	missense_variant	981	29	10	C/Y	tGc/tAc	COSM1308113	.	.	1	ISX	HGNC	28084	protein_coding	YES	CCDS33640.1	ENSP00000311492	ISX_HUMAN	.	UPI00001BE8E5	.	tolerated_low_confidence(1)	benign(0)	1/4	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGCAGGG	.	5	BLCA
PDXP	0	.	GRCh37	22	38061710	38061710	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.723G>T	p.Glu241Asp	p.E241D	ENST00000215904	2/2	276	189	86	170	170	0	SH3BP1,missense_variant,p.Glu550Asp,ENST00000599616,;PDXP,missense_variant,p.Glu24Asp,ENST00000403251,;PDXP,missense_variant,p.Glu241Asp,ENST00000215904,;RN7SL385P,downstream_gene_variant,,ENST00000468873,;SH3BP1,3_prime_UTR_variant,,ENST00000451997,;	T	ENSG00000241360	ENST00000215904	Transcript	missense_variant	779	723	241	E/D	gaG/gaT	COSM1308149	.	.	1	PDXP	HGNC	30259	protein_coding	YES	CCDS13953.1	ENSP00000215904	PLPP_HUMAN	B1AHD3_HUMAN	UPI000006D362	.	tolerated(1)	benign(0.006)	2/2	.	hmmpanther:PTHR19288,hmmpanther:PTHR19288:SF32,TIGRFAM_domain:TIGR01452,Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR01460,Pfam_domain:PF13242,PIRSF_domain:PIRSF000915,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGAGACCGA	.	5	BLCA
PPP6R2	0	.	GRCh37	22	50869805	50869805	+	Silent	SNP	G	G	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332G>A	p.%3D	p.V444V	ENST00000395741	11/23	28	24	4	27	27	0	PPP6R2,synonymous_variant,p.%3D,ENST00000395741,;PPP6R2,synonymous_variant,p.%3D,ENST00000427222,;PPP6R2,synonymous_variant,p.%3D,ENST00000395744,;PPP6R2,synonymous_variant,p.%3D,ENST00000359139,;PPP6R2,synonymous_variant,p.%3D,ENST00000401672,;PPP6R2,synonymous_variant,p.%3D,ENST00000216061,;	A	ENSG00000100239	ENST00000395741	Transcript	synonymous_variant	1707	1332	444	V	gtG/gtA	.	.	.	1	PPP6R2	HGNC	19253	protein_coding	YES	CCDS56235.1	ENSP00000379090	PP6R2_HUMAN	.	UPI0000453B02	.	.	.	11/23	.	hmmpanther:PTHR12634:SF15,Pfam_domain:PF04499,hmmpanther:PTHR12634	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	ATGGTGACCCA	.	2	BLCA
MFSD9	0	.	GRCh37	2	103353184	103353184	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86G>A	p.Gly29Glu	p.G29E	ENST00000258436	1/6	52	30	22	31	30	0	MFSD9,missense_variant,p.Gly29Glu,ENST00000258436,;TMEM182,upstream_gene_variant,,ENST00000409528,;TMEM182,upstream_gene_variant,,ENST00000409173,;TMEM182,upstream_gene_variant,,ENST00000454536,;TMEM182,upstream_gene_variant,,ENST00000469971,;TMEM182,upstream_gene_variant,,ENST00000488134,;MFSD9,missense_variant,p.Gly29Glu,ENST00000438943,;MFSD9,missense_variant,p.Gly29Glu,ENST00000421966,;MFSD9,missense_variant,p.Gly29Glu,ENST00000411991,;MFSD9,missense_variant,p.Gly29Glu,ENST00000437075,;MFSD9,non_coding_transcript_exon_variant,,ENST00000462099,;MFSD9,upstream_gene_variant,,ENST00000428085,;	T	ENSG00000135953	ENST00000258436	Transcript	missense_variant	130	86	29	G/E	gGa/gAa	COSM1305488	.	.	-1	MFSD9	HGNC	28158	protein_coding	YES	CCDS2063.1	ENSP00000258436	MFSD9_HUMAN	B4DKY6_HUMAN	UPI0000070215	.	tolerated_low_confidence(0.17)	benign(0.005)	1/6	.	hmmpanther:PTHR24003:SF492,hmmpanther:PTHR24003	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGTTCCTGTC	.	5	BLCA
TFCP2L1	0	.	GRCh37	2	122038802	122038802	+	Silent	SNP	C	C	A	rs763242950	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108G>T	p.%3D	p.L36L	ENST00000263707	2/15	214	141	72	117	117	0	TFCP2L1,synonymous_variant,p.%3D,ENST00000263707,;	A	ENSG00000115112	ENST00000263707	Transcript	synonymous_variant	206	108	36	L	ctG/ctT	rs763242950,COSM1305599	.	.	-1	TFCP2L1	HGNC	17925	protein_coding	YES	CCDS2134.1	ENSP00000263707	TF2L1_HUMAN	Q5JV87_HUMAN,Q53RS7_HUMAN	UPI0000072817	.	.	.	2/15	.	hmmpanther:PTHR11037:SF15,hmmpanther:PTHR11037	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGACAGCTG	byFrequency	5	BLCA
SCN1A	0	.	GRCh37	2	166848518	166848518	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5267G>T	p.Cys1756Phe	p.C1756F	ENST00000303395	26/26	191	120	71	161	161	0	SCN1A,missense_variant,p.Cys1728Phe,ENST00000409050,;SCN1A,missense_variant,p.Cys1756Phe,ENST00000423058,;SCN1A,missense_variant,p.Cys1756Phe,ENST00000303395,;SCN1A,missense_variant,p.Cys1745Phe,ENST00000375405,;AC010127.3,intron_variant,,ENST00000595647,;AC010127.3,intron_variant,,ENST00000597623,;SCN1A,downstream_gene_variant,,ENST00000473295,;	A	ENSG00000144285	ENST00000303395	Transcript	missense_variant	5267	5267	1756	C/F	tGt/tTt	COSM1305798,COSM1305797	.	.	-1	SCN1A	HGNC	10585	protein_coding	YES	CCDS54413.1	ENSP00000303540	SCN1A_HUMAN	F8T7W7_HUMAN	UPI000003C71D	.	deleterious(0)	probably_damaging(0.996)	26/26	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF133,Pfam_domain:PF00520	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCACAGTCT	.	5	BLCA
XIRP2	0	.	GRCh37	2	168105238	168105238	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7336C>A	p.Leu2446Met	p.L2446M	ENST00000409195	9/11	118	72	46	89	89	0	XIRP2,missense_variant,p.Leu2224Met,ENST00000409273,;XIRP2,missense_variant,p.Leu2446Met,ENST00000409195,;XIRP2,missense_variant,p.Leu2446Met,ENST00000295237,;XIRP2,intron_variant,,ENST00000409605,;XIRP2,intron_variant,,ENST00000420519,;XIRP2,intron_variant,,ENST00000409756,;XIRP2,intron_variant,,ENST00000409043,;XIRP2,intron_variant,,ENST00000409728,;	A	ENSG00000163092	ENST00000409195	Transcript	missense_variant	7425	7336	2446	L/M	Ctg/Atg	COSM1305819	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	benign(0.21)	9/11	.	hmmpanther:PTHR22591,hmmpanther:PTHR22591:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAACTGGCA	.	5	BLCA
NFE2L2	0	.	GRCh37	2	178098945	178098945	+	Missense_Mutation	SNP	G	G	C	rs748696421	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100C>G	p.Arg34Gly	p.R34G	ENST00000397062	2/5	28	9	19	32	32	0	NFE2L2,missense_variant,p.Arg18Gly,ENST00000449627,;NFE2L2,missense_variant,p.Arg18Gly,ENST00000423513,;NFE2L2,missense_variant,p.Arg34Gly,ENST00000397062,;NFE2L2,missense_variant,p.Arg18Gly,ENST00000446151,;NFE2L2,missense_variant,p.Arg18Gly,ENST00000588123,;NFE2L2,missense_variant,p.Arg33Gly,ENST00000586532,;NFE2L2,missense_variant,p.Arg18Gly,ENST00000421929,;NFE2L2,missense_variant,p.Arg18Gly,ENST00000464747,;NFE2L2,missense_variant,p.Arg18Gly,ENST00000448782,;NFE2L2,missense_variant,p.Arg18Gly,ENST00000397063,;NFE2L2,intron_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	C	ENSG00000116044	ENST00000397062	Transcript	missense_variant	655	100	34	R/G	Cga/Gga	rs748696421,COSM132847,COSM3961575	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	deleterious(0)	probably_damaging(1)	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R34G|c.100C>G|11,CODON|p.R34P|c.101G>C|3,CODON|p.R34Q|c.101G>A|11,BUFFER|p.G31E|c.92G>A|5,BUFFER|p.G31A|c.92G>C|7,BUFFER|p.L30R|c.89T>G|7	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCGACTTA	byFrequency	5	BLCA
EEF1B2	0	.	GRCh37	2	207026135	207026135	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269G>C	p.Ser90Thr	p.S90T	ENST00000392222	3/6	171	99	72	113	113	0	EEF1B2,missense_variant,p.Ser90Thr,ENST00000445505,;EEF1B2,missense_variant,p.Ser90Thr,ENST00000392221,;EEF1B2,missense_variant,p.Ser90Thr,ENST00000236957,;EEF1B2,missense_variant,p.Ser90Thr,ENST00000392222,;NDUFS1,upstream_gene_variant,,ENST00000440274,;NDUFS1,upstream_gene_variant,,ENST00000449699,;NDUFS1,upstream_gene_variant,,ENST00000423725,;NDUFS1,upstream_gene_variant,,ENST00000455934,;NDUFS1,upstream_gene_variant,,ENST00000457011,;NDUFS1,upstream_gene_variant,,ENST00000432169,;NDUFS1,upstream_gene_variant,,ENST00000233190,;NDUFS1,upstream_gene_variant,,ENST00000454195,;SNORD51,upstream_gene_variant,,ENST00000384320,;SNORA41,upstream_gene_variant,,ENST00000384675,;EEF1B2,3_prime_UTR_variant,,ENST00000455150,;EEF1B2,3_prime_UTR_variant,,ENST00000435123,;EEF1B2,3_prime_UTR_variant,,ENST00000415904,;EEF1B2,3_prime_UTR_variant,,ENST00000429769,;EEF1B2,upstream_gene_variant,,ENST00000482103,;EEF1B2,downstream_gene_variant,,ENST00000479587,;EEF1B2,downstream_gene_variant,,ENST00000460760,;NDUFS1,upstream_gene_variant,,ENST00000456284,;	C	ENSG00000114942	ENST00000392222	Transcript	missense_variant	644	269	90	S/T	aGt/aCt	COSM1306344	.	.	1	EEF1B2	HGNC	3208	protein_coding	YES	CCDS2367.1	ENSP00000376056	EF1B_HUMAN	C9JZW3_HUMAN	UPI0000000C68	.	tolerated(0.18)	benign(0.002)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11595:SF23,hmmpanther:PTHR11595	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAAGTGGAG	.	5	BLCA
TNP1	0	.	GRCh37	2	217724316	217724316	+	3'UTR	SNP	G	G	T	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*74C>A	.	.	ENST00000236979	2/2	84	42	41	41	41	0	TNP1,3_prime_UTR_variant,,ENST00000236979,;AC007563.5,intron_variant,,ENST00000447289,;AC007557.4,upstream_gene_variant,,ENST00000440900,;AC007563.5,upstream_gene_variant,,ENST00000607591,;	T	ENSG00000118245	ENST00000236979	Transcript	3_prime_UTR_variant	272	.	.	.	.	.	.	.	-1	TNP1	HGNC	11951	protein_coding	YES	CCDS2406.1	ENSP00000236979	STP1_HUMAN	Q4ZG82_HUMAN	UPI00000012DC	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTGGCAGTT	.	5	BLCA
C2orf42	0	.	GRCh37	2	70392226	70392226	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1351G>A	p.Glu451Lys	p.E451K	ENST00000264434	8/10	116	65	51	92	92	0	C2orf42,missense_variant,p.Glu451Lys,ENST00000420306,;C2orf42,missense_variant,p.Glu451Lys,ENST00000264434,;	T	ENSG00000115998	ENST00000264434	Transcript	missense_variant	1731	1351	451	E/K	Gag/Aag	COSM1306954	.	.	-1	C2orf42	HGNC	26056	protein_coding	YES	CCDS1899.1	ENSP00000264434	CB042_HUMAN	C9JZF3_HUMAN,C9JV10_HUMAN,C9JS43_HUMAN,C9JKD5_HUMAN,C9JK51_HUMAN,C9JJF4_HUMAN,C9J5U1_HUMAN,C9J4L7_HUMAN	UPI0000037CF2	.	tolerated(0.05)	benign(0.121)	8/10	.	hmmpanther:PTHR13518	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCTGGGG	.	5	BLCA
C2orf42	0	.	GRCh37	2	70392294	70392294	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1283G>C	p.Gly428Ala	p.G428A	ENST00000264434	8/10	66	35	30	70	70	0	C2orf42,missense_variant,p.Gly428Ala,ENST00000420306,;C2orf42,missense_variant,p.Gly428Ala,ENST00000264434,;	G	ENSG00000115998	ENST00000264434	Transcript	missense_variant	1663	1283	428	G/A	gGa/gCa	COSM1306955	.	.	-1	C2orf42	HGNC	26056	protein_coding	YES	CCDS1899.1	ENSP00000264434	CB042_HUMAN	C9JZF3_HUMAN,C9JV10_HUMAN,C9JS43_HUMAN,C9JKD5_HUMAN,C9JK51_HUMAN,C9JJF4_HUMAN,C9J5U1_HUMAN,C9J4L7_HUMAN	UPI0000037CF2	.	deleterious(0.01)	probably_damaging(0.976)	8/10	.	hmmpanther:PTHR13518	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTTCCCAGT	.	5	BLCA
ZNF638	0	.	GRCh37	2	71651159	71651159	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4515C>A	p.Ser1505Arg	p.S1505R	ENST00000409544	22/28	54	36	17	49	49	0	ZNF638,missense_variant,p.Ser445Arg,ENST00000409407,;ZNF638,missense_variant,p.Ser1505Arg,ENST00000409544,;ZNF638,missense_variant,p.Ser1505Arg,ENST00000264447,;ZNF638,intron_variant,,ENST00000355812,;ZNF638,intron_variant,,ENST00000483421,;ZNF638,upstream_gene_variant,,ENST00000493576,;ZNF638,upstream_gene_variant,,ENST00000472758,;ZNF638,upstream_gene_variant,,ENST00000492262,;ZNF638,upstream_gene_variant,,ENST00000461991,;ZNF638,non_coding_transcript_exon_variant,,ENST00000487638,;ZNF638,intron_variant,,ENST00000494241,;	A	ENSG00000075292	ENST00000409544	Transcript	missense_variant	5145	4515	1505	S/R	agC/agA	COSM1306967	.	.	1	ZNF638	HGNC	17894	protein_coding	YES	CCDS1917.1	ENSP00000386433	ZN638_HUMAN	Q57Z90_HUMAN,C9JWN0_HUMAN,C9JSD0_HUMAN,C9JMR2_HUMAN,C9JHV0_HUMAN,A8K583_HUMAN	UPI000013D51B	.	deleterious(0)	possibly_damaging(0.779)	22/28	.	hmmpanther:PTHR15592:SF1,hmmpanther:PTHR15592	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACAGCAACAA	.	5	BLCA
GCFC2	0	.	GRCh37	2	75915023	75915023	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1620G>A	p.%3D	p.K540K	ENST00000321027	11/17	54	37	16	44	44	0	GCFC2,synonymous_variant,p.%3D,ENST00000321027,;GCFC2,synonymous_variant,p.%3D,ENST00000409857,;GCFC2,3_prime_UTR_variant,,ENST00000541687,;MRPL19,intron_variant,,ENST00000453233,;MRPL19,intron_variant,,ENST00000358788,;GCFC2,upstream_gene_variant,,ENST00000427862,;GCFC2,3_prime_UTR_variant,,ENST00000472230,;GCFC2,non_coding_transcript_exon_variant,,ENST00000470197,;GCFC2,downstream_gene_variant,,ENST00000486016,;	T	ENSG00000005436	ENST00000321027	Transcript	synonymous_variant	1754	1620	540	K	aaG/aaA	COSM1307019	.	.	-1	GCFC2	HGNC	1317	protein_coding	YES	CCDS1961.1	ENSP00000318690	GCFC2_HUMAN	B3KUM5_HUMAN,A4UHR0_HUMAN	UPI000013C96B	.	.	.	11/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12214:SF1,hmmpanther:PTHR12214,Pfam_domain:PF07842	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCTTCTTTGA	.	3	BLCA
REG1A	0	.	GRCh37	2	79350356	79350356	+	3'UTR	SNP	T	T	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15T>A	.	.	ENST00000233735	6/6	16	8	8	14	14	0	REG1A,3_prime_UTR_variant,,ENST00000233735,;REG1A,downstream_gene_variant,,ENST00000488524,;REG1A,downstream_gene_variant,,ENST00000485184,;REG1A,downstream_gene_variant,,ENST00000461579,;	A	ENSG00000115386	ENST00000233735	Transcript	3_prime_UTR_variant	619	.	.	.	.	.	.	.	1	REG1A	HGNC	9951	protein_coding	YES	CCDS1964.1	ENSP00000233735	REG1A_HUMAN	Q2TBE1_HUMAN	UPI000012E72D	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAAATACATG	.	5	BLCA
CTNNA2	0	.	GRCh37	2	80101255	80101255	+	Silent	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639G>A	p.%3D	p.L213L	ENST00000466387	10/22	53	24	28	39	39	0	CTNNA2,synonymous_variant,p.%3D,ENST00000496558,;CTNNA2,synonymous_variant,p.%3D,ENST00000540488,;CTNNA2,synonymous_variant,p.%3D,ENST00000361291,;CTNNA2,synonymous_variant,p.%3D,ENST00000466387,;CTNNA2,synonymous_variant,p.%3D,ENST00000541047,;CTNNA2,synonymous_variant,p.%3D,ENST00000402739,;	A	ENSG00000066032	ENST00000466387	Transcript	synonymous_variant	1363	639	213	L	ctG/ctA	COSM1307025,COSM1307024	.	.	1	CTNNA2	HGNC	2510	protein_coding	YES	CCDS42703.2	ENSP00000418191	CTNA2_HUMAN	F6KRI5_HUMAN,C9J144_HUMAN,C9IZ88_HUMAN	UPI00001A3E86	.	.	.	10/22	.	hmmpanther:PTHR18914,hmmpanther:PTHR18914:SF23,Pfam_domain:PF01044,Gene3D:1.20.120.230,Superfamily_domains:SSF47220	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCTCTGAAGAA	.	4	BLCA
TOPBP1	0	.	GRCh37	3	133341937	133341937	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3176G>C	p.Gly1059Ala	p.G1059A	ENST00000260810	19/28	10	0	10	17	17	0	TOPBP1,missense_variant,p.Gly1059Ala,ENST00000260810,;TOPBP1,splice_region_variant,,ENST00000513818,;	G	ENSG00000163781	ENST00000260810	Transcript	missense_variant	3308	3176	1059	G/A	gGa/gCa	COSM1308602,COSM1308601	.	.	-1	TOPBP1	HGNC	17008	protein_coding	YES	CCDS46919.1	ENSP00000260810	TOPB1_HUMAN	A0AV47_HUMAN	UPI000020A292	.	tolerated(0.22)	benign(0.297)	19/28	.	hmmpanther:PTHR13561:SF25,hmmpanther:PTHR13561	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACCTCCTTTA	.	3	BLCA
KPNA4	0	.	GRCh37	3	160285923	160285923	+	5'Flank	SNP	G	G	C	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000334256	.	106	74	31	48	48	0	KPNA4,upstream_gene_variant,,ENST00000334256,;KRT8P12,non_coding_transcript_exon_variant,,ENST00000468527,;KPNA4,upstream_gene_variant,,ENST00000469804,;KRT8P12,non_coding_transcript_exon_variant,,ENST00000472924,;	C	ENSG00000186432	ENST00000334256	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2547	-1	KPNA4	HGNC	6397	protein_coding	YES	CCDS3191.1	ENSP00000334373	IMA3_HUMAN	.	UPI0000001648	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAGGAGCAG	.	5	BLCA
HRG	0	.	GRCh37	3	186389456	186389456	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>T	p.Asp146Tyr	p.D146Y	ENST00000232003	4/7	57	27	30	43	43	0	HRG,missense_variant,p.Asp146Tyr,ENST00000232003,;HRG,non_coding_transcript_exon_variant,,ENST00000495413,;	T	ENSG00000113905	ENST00000232003	Transcript	missense_variant	516	436	146	D/Y	Gat/Tat	COSM1308927	.	.	1	HRG	HGNC	5181	protein_coding	YES	CCDS3280.1	ENSP00000232003	HRG_HUMAN	.	UPI000012CBC3	.	deleterious(0.01)	possibly_damaging(0.861)	4/7	.	hmmpanther:PTHR13814,hmmpanther:PTHR13814:SF3,SMART_domains:SM00043	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATAGATTTC	.	5	BLCA
TGFBR2	0	.	GRCh37	3	30715617	30715617	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1350G>T	p.Met450Ile	p.M450I	ENST00000359013	6/8	40	7	33	47	47	0	TGFBR2,missense_variant,p.Met425Ile,ENST00000295754,;TGFBR2,missense_variant,p.Met450Ile,ENST00000359013,;	T	ENSG00000163513	ENST00000359013	Transcript	missense_variant	1633	1350	450	M/I	atG/atT	COSM1309023	.	.	1	TGFBR2	HGNC	11773	protein_coding	YES	CCDS33727.1	ENSP00000351905	TGFR2_HUMAN	D2JYI1_HUMAN	UPI000053030E	.	deleterious(0)	probably_damaging(1)	6/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255,hmmpanther:PTHR23255:SF55,Gene3D:1.10.510.10,Pfam_domain:PF00069,PIRSF_domain:PIRSF037393,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACATGGCTCC	.	5	BLCA
C3orf67	0	.	GRCh37	3	58849547	58849547	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.955G>A	p.Gly319Ser	p.G319S	ENST00000295966	12/16	45	4	41	56	56	0	C3orf67,missense_variant,p.Gly226Ser,ENST00000472469,;C3orf67,missense_variant,p.Gly319Ser,ENST00000482387,;C3orf67,missense_variant,p.Gly319Ser,ENST00000295966,;RP11-147N17.1,intron_variant,,ENST00000493123,;RP11-147N17.1,intron_variant,,ENST00000463703,;RP11-147N17.1,intron_variant,,ENST00000492031,;RP11-147N17.1,intron_variant,,ENST00000482372,;C3orf67,3_prime_UTR_variant,,ENST00000468415,;	T	ENSG00000163689	ENST00000295966	Transcript	missense_variant	1459	955	319	G/S	Ggt/Agt	COSM1309419	.	.	-1	C3orf67	HGNC	24763	protein_coding	YES	CCDS33776.1	ENSP00000295966	CC067_HUMAN	.	UPI00001C098C	.	tolerated(0.26)	benign(0.032)	12/16	.	hmmpanther:PTHR12458:SF7,hmmpanther:PTHR12458	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCACCCAGAA	.	5	BLCA
EGF	0	.	GRCh37	4	110884383	110884383	+	Missense_Mutation	SNP	C	C	A	rs150311153	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1367C>A	p.Pro456Gln	p.P456Q	ENST00000265171	9/24	116	21	94	114	114	0	EGF,missense_variant,p.Pro456Gln,ENST00000503392,;EGF,missense_variant,p.Pro456Gln,ENST00000265171,;EGF,missense_variant,p.Pro414Gln,ENST00000509793,;EGF,downstream_gene_variant,,ENST00000504633,;	A	ENSG00000138798	ENST00000265171	Transcript	missense_variant	1812	1367	456	P/Q	cCa/cAa	rs150311153,COSM1309627	.	.	1	EGF	HGNC	3229	protein_coding	YES	CCDS3689.1	ENSP00000265171	EGF_HUMAN	Q6QBS2_HUMAN	UPI000013D5C8	.	deleterious(0.02)	probably_damaging(0.962)	9/24	.	Superfamily_domains:SSF57184,SMART_domains:SM00181,PIRSF_domain:PIRSF001778,Gene3D:2.10.25.10,Pfam_domain:PF14670,hmmpanther:PTHR10529	A:0.0014	A:0.0053	A:0	.	A:0	A:0	A:0	A:0.0043	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGCCCAGTAT	byFrequency|byCluster|by1000G	5	BLCA
DCLK2	0	.	GRCh37	4	151023702	151023702	+	Missense_Mutation	SNP	G	G	T	rs779527956	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.494G>T	p.Trp165Leu	p.W165L	ENST00000302176	2/17	39	3	36	72	72	0	DCLK2,missense_variant,p.Trp165Leu,ENST00000302176,;DCLK2,missense_variant,p.Trp165Leu,ENST00000296550,;DCLK2,missense_variant,p.Trp165Leu,ENST00000506325,;DCLK2,missense_variant,p.Trp165Leu,ENST00000411937,;	T	ENSG00000170390	ENST00000302176	Transcript	missense_variant	494	494	165	W/L	tGg/tTg	rs779527956,COSM1309792,COSM1309791	.	.	1	DCLK2	HGNC	19002	protein_coding	YES	CCDS47142.2	ENSP00000303887	DCLK2_HUMAN	.	UPI0000D615C9	.	deleterious(0)	probably_damaging(1)	2/17	.	hmmpanther:PTHR24347,hmmpanther:PTHR24347:SF122,Gene3D:1mfwA00,Superfamily_domains:SSF89837	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACTGGTCTG	.	5	BLCA
UGT2B4	0	.	GRCh37	4	70355258	70355258	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901G>A	p.Glu301Lys	p.E301K	ENST00000305107	3/6	101	21	80	148	148	0	UGT2B4,missense_variant,p.Glu301Lys,ENST00000305107,;UGT2B4,missense_variant,p.Glu301Lys,ENST00000512583,;UGT2B4,missense_variant,p.Glu165Lys,ENST00000381096,;UGT2B4,non_coding_transcript_exon_variant,,ENST00000506580,;UGT2B4,non_coding_transcript_exon_variant,,ENST00000503836,;UGT2B4,non_coding_transcript_exon_variant,,ENST00000502655,;	T	ENSG00000156096	ENST00000305107	Transcript	missense_variant	948	901	301	E/K	Gaa/Aaa	COSM1310215	.	.	-1	UGT2B4	HGNC	12553	protein_coding	YES	CCDS43234.1	ENSP00000305221	UD2B4_HUMAN	D6RGY0_HUMAN	UPI000000087F	.	tolerated(0.15)	benign(0.018)	3/6	.	hmmpanther:PTHR11926:SF123,hmmpanther:PTHR11926,Gene3D:3.40.50.2000,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTCTCCAG	.	5	BLCA
MAPK10	0	.	GRCh37	4	87022213	87022213	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.722A>C	p.Lys241Thr	p.K241T	ENST00000359221	8/14	64	13	51	58	58	0	MAPK10,missense_variant,p.Lys96Thr,ENST00000395160,;MAPK10,missense_variant,p.Lys203Thr,ENST00000395169,;MAPK10,missense_variant,p.Lys154Thr,ENST00000515400,;MAPK10,missense_variant,p.Lys203Thr,ENST00000395166,;MAPK10,missense_variant,p.Lys241Thr,ENST00000395161,;MAPK10,missense_variant,p.Lys96Thr,ENST00000449047,;MAPK10,missense_variant,p.Lys241Thr,ENST00000361569,;MAPK10,missense_variant,p.Lys241Thr,ENST00000359221,;MAPK10,missense_variant,p.Lys96Thr,ENST00000395157,;MAPK10,downstream_gene_variant,,ENST00000512017,;MAPK10,non_coding_transcript_exon_variant,,ENST00000468020,;MAPK10,non_coding_transcript_exon_variant,,ENST00000479377,;MAPK10,non_coding_transcript_exon_variant,,ENST00000472236,;MAPK10,downstream_gene_variant,,ENST00000486985,;MAPK10,downstream_gene_variant,,ENST00000513839,;MAPK10,3_prime_UTR_variant,,ENST00000310816,;MAPK10,downstream_gene_variant,,ENST00000430389,;MAPK10,upstream_gene_variant,,ENST00000508262,;	G	ENSG00000109339	ENST00000359221	Transcript	missense_variant	1249	722	241	K/T	aAg/aCg	COSM1310343,COSM1310344	.	.	-1	MAPK10	HGNC	6872	protein_coding	YES	CCDS34026.1	ENSP00000352157	MK10_HUMAN	D6RJF9_HUMAN,D6RFZ7_HUMAN,D6RFX8_HUMAN,D6RDG1_HUMAN,D6RCB1_HUMAN,D6RC26_HUMAN,D6RBH2_HUMAN,D6RAU3_HUMAN,D6RAJ0_HUMAN,D6R9C1_HUMAN,B3KR72_HUMAN,A8MWW6_HUMAN	UPI0000049042	.	tolerated(0.51)	benign(0.094)	8/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF162,hmmpanther:PTHR24055,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112,Prints_domain:PR01772	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCCTTGTAG	.	5	BLCA
EPB41L4A	0	.	GRCh37	5	111576460	111576460	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.843C>A	p.Cys281Ter	p.C281*	ENST00000261486	10/23	40	8	32	54	54	0	EPB41L4A,stop_gained,p.Cys281Ter,ENST00000261486,;RP11-526F3.1,intron_variant,,ENST00000504004,;EPB41L4A,non_coding_transcript_exon_variant,,ENST00000511790,;EPB41L4A,non_coding_transcript_exon_variant,,ENST00000511405,;	T	ENSG00000129595	ENST00000261486	Transcript	stop_gained	1120	843	281	C/*	tgC/tgA	COSM1310439	.	.	-1	EPB41L4A	HGNC	13278	protein_coding	YES	CCDS43350.1	ENSP00000261486	E41LA_HUMAN	Q8NEH8_HUMAN	UPI000020C3F8	.	.	.	10/23	.	PROSITE_profiles:PS50057,hmmpanther:PTHR23280,hmmpanther:PTHR23280:SF11,Gene3D:2.30.29.30,Pfam_domain:PF09380,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTGCAAGC	.	5	BLCA
SLC6A19	0	.	GRCh37	5	1219713	1219713	+	Missense_Mutation	SNP	C	C	T	rs763527431	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1472C>T	p.Ser491Phe	p.S491F	ENST00000304460	10/12	124	93	31	45	45	0	SLC6A19,missense_variant,p.Ser491Phe,ENST00000304460,;SLC6A19,3_prime_UTR_variant,,ENST00000515652,;	T	ENSG00000174358	ENST00000304460	Transcript	missense_variant	1528	1472	491	S/F	tCc/tTc	rs763527431,COSM1660184,COSM1310478	.	.	1	SLC6A19	HGNC	27960	protein_coding	YES	CCDS34130.1	ENSP00000305302	S6A19_HUMAN	B3KVZ8_HUMAN	UPI0000401AF8	.	deleterious(0)	probably_damaging(0.994)	10/12	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50267,hmmpanther:PTHR11616,hmmpanther:PTHR11616:SF125,Pfam_domain:PF00209,Superfamily_domains:0053687,Prints_domain:PR00176	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCTCCATTC	.	5	BLCA
KCNIP1	0	.	GRCh37	5	170162862	170162862	+	3'Flank	SNP	C	C	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000411494	.	20	6	14	25	25	0	KCNIP1,3_prime_UTR_variant,,ENST00000390656,;KCNIP1,3_prime_UTR_variant,,ENST00000328939,;KCNIP1,3_prime_UTR_variant,,ENST00000377360,;KCNIP1,3_prime_UTR_variant,,ENST00000520740,;KCNIP1,downstream_gene_variant,,ENST00000411494,;KCNIP1,downstream_gene_variant,,ENST00000434108,;	A	ENSG00000182132	ENST00000411494	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	52	1	KCNIP1	HGNC	15521	protein_coding	YES	CCDS34286.1	ENSP00000395323	KCIP1_HUMAN	.	UPI000004A27F	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCACCTTAAC	.	5	BLCA
ADAMTS12	0	.	GRCh37	5	33614431	33614431	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2439G>T	p.Gln813His	p.Q813H	ENST00000504830	16/24	113	85	27	45	45	0	ADAMTS12,missense_variant,p.Gln813His,ENST00000504830,;ADAMTS12,missense_variant,p.Gln728His,ENST00000352040,;ADAMTS12,non_coding_transcript_exon_variant,,ENST00000504582,;ADAMTS12,non_coding_transcript_exon_variant,,ENST00000506952,;	A	ENSG00000151388	ENST00000504830	Transcript	missense_variant	2775	2439	813	Q/H	caG/caT	COSM1311107	.	.	-1	ADAMTS12	HGNC	14605	protein_coding	YES	CCDS34140.1	ENSP00000422554	ATS12_HUMAN	.	UPI000013DC51	.	tolerated(0.25)	benign(0.038)	16/24	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF150,Pfam_domain:PF05986	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCTGGAT	.	5	BLCA
CMYA5	0	.	GRCh37	5	79027444	79027444	+	Silent	SNP	G	G	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2856G>T	p.%3D	p.V952V	ENST00000446378	2/13	25	2	23	47	47	0	CMYA5,synonymous_variant,p.%3D,ENST00000446378,;	T	ENSG00000164309	ENST00000446378	Transcript	synonymous_variant	2887	2856	952	V	gtG/gtT	COSM1311345,COSM1311344	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	.	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTGTCAGA	.	5	BLCA
NMBR	0	.	GRCh37	6	142409788	142409788	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8C>G	p.Ser3Cys	p.S3C	ENST00000258042	1/3	52	34	18	24	24	0	NMBR,missense_variant,p.Ser3Cys,ENST00000258042,;RP11-137J7.2,intron_variant,,ENST00000454401,;	C	ENSG00000135577	ENST00000258042	Transcript	missense_variant	149	8	3	S/C	tCt/tGt	.	.	.	-1	NMBR	HGNC	7843	protein_coding	YES	CCDS5196.1	ENSP00000258042	NMBR_HUMAN	.	UPI000013CFAB	.	deleterious_low_confidence(0.02)	benign(0.005)	1/3	.	hmmpanther:PTHR24243,hmmpanther:PTHR24243:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTAGAGGGC	.	5	BLCA
TNXB	0	.	GRCh37	6	32029938	32029938	+	Silent	SNP	C	C	A	rs768286801	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7164G>T	p.%3D	p.V2388V	ENST00000375247	20/44	34	18	15	28	28	0	TNXB,synonymous_variant,p.%3D,ENST00000375247,;TNXB,synonymous_variant,p.%3D,ENST00000375244,;	A	ENSG00000168477	ENST00000375247	Transcript	synonymous_variant	7366	7164	2388	V	gtG/gtT	rs768286801,COSM1312046,COSM1312045	.	.	-1	TNXB	HGNC	11976	protein_coding	.	.	ENSP00000364396	TENX_HUMAN	Q9NPK8_HUMAN,Q9NPK7_HUMAN,B6RHJ5_HUMAN	UPI000174F11D	.	.	.	20/44	.	Superfamily_domains:SSF49265,Gene3D:2.60.40.10,hmmpanther:PTHR19143:SF190,hmmpanther:PTHR19143,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGTCACCCC	byFrequency	5	BLCA
CDKN1A	0	.	GRCh37	6	36652020	36652020	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.142C>T	p.Arg48Ter	p.R48*	ENST00000405375	2/3	103	71	32	43	42	0	CDKN1A,stop_gained,p.Arg48Ter,ENST00000244741,;CDKN1A,stop_gained,p.Arg48Ter,ENST00000373711,;CDKN1A,stop_gained,p.Arg82Ter,ENST00000448526,;CDKN1A,stop_gained,p.Arg48Ter,ENST00000405375,;CDKN1A,non_coding_transcript_exon_variant,,ENST00000459970,;CDKN1A,non_coding_transcript_exon_variant,,ENST00000478800,;CDKN1A,downstream_gene_variant,,ENST00000462537,;	T	ENSG00000124762	ENST00000405375	Transcript	stop_gained	377	142	48	R/*	Cga/Tga	COSM1312152	.	.	1	CDKN1A	HGNC	1784	protein_coding	YES	CCDS4824.1	ENSP00000384849	CDN1A_HUMAN	.	UPI0000048F7B	.	.	.	2/3	.	hmmpanther:PTHR10265,hmmpanther:PTHR10265:SF16,Pfam_domain:PF02234,Gene3D:1jsuC00	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.W49*|c.146G>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGAGCGATGG	.	5	BLCA
CCND3	0	.	GRCh37	6	41908692	41908692	+	Intron	SNP	G	G	A	rs771632649	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199-369C>T	.	.	ENST00000372991	.	184	100	84	100	100	0	CCND3,missense_variant,p.Arg16Trp,ENST00000514588,;CCND3,missense_variant,p.Arg16Trp,ENST00000372987,;CCND3,intron_variant,,ENST00000508143,;CCND3,intron_variant,,ENST00000414200,;CCND3,intron_variant,,ENST00000415497,;CCND3,intron_variant,,ENST00000511642,;CCND3,intron_variant,,ENST00000372991,;CCND3,intron_variant,,ENST00000510503,;CCND3,intron_variant,,ENST00000512426,;CCND3,intron_variant,,ENST00000502771,;CCND3,intron_variant,,ENST00000372988,;CCND3,upstream_gene_variant,,ENST00000505064,;CCND3,intron_variant,,ENST00000511686,;CCND3,intron_variant,,ENST00000514382,;CCND3,intron_variant,,ENST00000513956,;CCND3,upstream_gene_variant,,ENST00000506555,;CCND3,intron_variant,,ENST00000510058,;CCND3,intron_variant,,ENST00000511161,;CCND3,intron_variant,,ENST00000505884,;CCND3,intron_variant,,ENST00000505672,;	A	ENSG00000112576	ENST00000372991	Transcript	intron_variant	.	.	.	.	.	rs771632649	.	.	-1	CCND3	HGNC	1585	protein_coding	YES	CCDS4863.1	ENSP00000362082	CCND3_HUMAN	D6RIX2_HUMAN,D6RDL3_HUMAN	UPI00001275C9	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCCGAGGGG	byFrequency	5	BLCA
GPR37	0	.	GRCh37	7	124404911	124404911	+	Silent	SNP	C	C	A	rs199529926	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120G>T	p.%3D	p.L40L	ENST00000303921	1/2	39	35	4	24	24	0	GPR37,synonymous_variant,p.%3D,ENST00000303921,;	A	ENSG00000170775	ENST00000303921	Transcript	synonymous_variant	771	120	40	L	ctG/ctT	rs199529926	.	.	-1	GPR37	HGNC	4494	protein_coding	YES	CCDS5792.1	ENSP00000306449	GPR37_HUMAN	.	UPI0000001C92	.	.	.	1/2	.	.	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCCCCCAGACA	byCluster|by1000G	3	BLCA
EZH2	0	.	GRCh37	7	148511213	148511213	+	Silent	SNP	C	C	A	rs144723981	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1689G>T	p.%3D	p.P563P	ENST00000320356	15/20	202	124	78	120	120	0	EZH2,synonymous_variant,p.%3D,ENST00000541220,;EZH2,synonymous_variant,p.%3D,ENST00000350995,;EZH2,synonymous_variant,p.%3D,ENST00000476773,;EZH2,synonymous_variant,p.%3D,ENST00000483967,;EZH2,synonymous_variant,p.%3D,ENST00000478654,;EZH2,synonymous_variant,p.%3D,ENST00000320356,;EZH2,synonymous_variant,p.%3D,ENST00000460911,;EZH2,downstream_gene_variant,,ENST00000536783,;EZH2,3_prime_UTR_variant,,ENST00000492143,;EZH2,downstream_gene_variant,,ENST00000498186,;EZH2,downstream_gene_variant,,ENST00000483012,;EZH2,upstream_gene_variant,,ENST00000469631,;	A	ENSG00000106462	ENST00000320356	Transcript	synonymous_variant	1811	1689	563	P	ccG/ccT	rs144723981,COSM600057,COSM600058	.	.	-1	EZH2	HGNC	3527	protein_coding	YES	CCDS5891.1	ENSP00000320147	EZH2_HUMAN	Q75MQ0_HUMAN,Q6R125_HUMAN	UPI000006D77C	.	.	.	15/20	.	Superfamily_domains:SSF82199,Gene3D:2.170.270.10,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF287,PROSITE_profiles:PS51633	.	.	.	.	.	.	.	G:0	G:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCCCGGAAA	byCluster	5	BLCA
AMPH	0	.	GRCh37	7	38500927	38500927	+	Missense_Mutation	SNP	C	C	T	rs202128772	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.973G>A	p.Glu325Lys	p.E325K	ENST00000356264	11/21	147	89	58	120	120	0	AMPH,missense_variant,p.Glu325Lys,ENST00000356264,;AMPH,missense_variant,p.Glu325Lys,ENST00000428293,;AMPH,missense_variant,p.Glu76Lys,ENST00000441628,;AMPH,missense_variant,p.Glu325Lys,ENST00000325590,;	T	ENSG00000078053	ENST00000356264	Transcript	missense_variant	1189	973	325	E/K	Gag/Aag	rs202128772,COSM1313070	.	.	-1	AMPH	HGNC	471	protein_coding	YES	CCDS5456.1	ENSP00000348602	AMPH_HUMAN	Q9UQI5_HUMAN,Q9UQI4_HUMAN,Q9UQI3_HUMAN,Q9UQI2_HUMAN	UPI00001259EA	.	deleterious(0.01)	possibly_damaging(0.766)	11/21	.	hmmpanther:PTHR10321,hmmpanther:PTHR10321:SF23	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCAAAGA	byCluster|by1000G	5	BLCA
SNORA22	0	.	GRCh37	7	64530765	64530765	+	3'Flank	SNP	C	C	G	rs561765870	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000384614	.	8	5	3	15	15	0	SNORA22,downstream_gene_variant,,ENST00000384614,;SNORA15,upstream_gene_variant,,ENST00000384334,;CCT6P3,non_coding_transcript_exon_variant,,ENST00000426828,;CCT6P3,non_coding_transcript_exon_variant,,ENST00000419314,;CCT6P3,non_coding_transcript_exon_variant,,ENST00000452026,;RP11-460N20.4,upstream_gene_variant,,ENST00000414799,;	G	ENSG00000207344	ENST00000384614	Transcript	downstream_gene_variant	.	.	.	.	.	rs561765870	.	4255	1	SNORA22	RFAM	.	snoRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	TCGTTCTATCA	.	2	BLCA
RRM2B	0	.	GRCh37	8	103251109	103251109	+	5'UTR	SNP	G	G	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7C>T	.	.	ENST00000251810	1/9	44	26	17	37	37	0	RRM2B,5_prime_UTR_variant,,ENST00000251810,;RRM2B,upstream_gene_variant,,ENST00000395912,;RRM2B,upstream_gene_variant,,ENST00000519317,;RRM2B,upstream_gene_variant,,ENST00000522368,;RRM2B,upstream_gene_variant,,ENST00000519962,;KB-431C1.4,upstream_gene_variant,,ENST00000499653,;KB-431C1.4,upstream_gene_variant,,ENST00000520820,;RRM2B,5_prime_UTR_variant,,ENST00000523957,;RRM2B,upstream_gene_variant,,ENST00000522394,;RRM2B,upstream_gene_variant,,ENST00000517517,;SUMO2P19,downstream_gene_variant,,ENST00000518920,;	A	ENSG00000048392	ENST00000251810	Transcript	5_prime_UTR_variant	238	.	.	.	.	.	.	.	-1	RRM2B	HGNC	17296	protein_coding	YES	CCDS34932.1	ENSP00000251810	RIR2B_HUMAN	B4E2N4_HUMAN	UPI000015AB89	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCAGACTCC	.	5	BLCA
MTMR9	0	.	GRCh37	8	11180311	11180311	+	3'UTR	SNP	A	A	G	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14A>G	.	.	ENST00000221086	10/10	68	41	27	31	31	0	MTMR9,3_prime_UTR_variant,,ENST00000526292,;MTMR9,3_prime_UTR_variant,,ENST00000221086,;AF131216.6,intron_variant,,ENST00000498997,;MTMR9,3_prime_UTR_variant,,ENST00000530200,;	G	ENSG00000104643	ENST00000221086	Transcript	3_prime_UTR_variant	2137	.	.	.	.	.	.	.	1	MTMR9	HGNC	14596	protein_coding	YES	CCDS5979.1	ENSP00000221086	MTMR9_HUMAN	Q9Y4N6_HUMAN,B7Z291_HUMAN	UPI0000073CA7	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCGCACCCTT	.	5	BLCA
FAM91A1	0	.	GRCh37	8	124787454	124787454	+	Silent	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225C>T	p.%3D	p.L75L	ENST00000334705	3/24	80	42	38	33	33	0	FAM91A1,synonymous_variant,p.%3D,ENST00000334705,;FAM91A1,synonymous_variant,p.%3D,ENST00000521166,;FAM91A1,synonymous_variant,p.%3D,ENST00000519721,;FAM91A1,upstream_gene_variant,,ENST00000521704,;	T	ENSG00000176853	ENST00000334705	Transcript	synonymous_variant	471	225	75	L	ctC/ctT	COSM1313699	.	.	1	FAM91A1	HGNC	26306	protein_coding	YES	CCDS6346.2	ENSP00000335082	F91A1_HUMAN	H0YC80_HUMAN	UPI0000E5AF4E	.	.	.	3/24	.	Pfam_domain:PF14647	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCATGCT	.	5	BLCA
PCM1	0	.	GRCh37	8	17868136	17868137	+	Frame_Shift_Ins	INS	-	-	TC	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5179_5180insTC	p.Asp1727ValfsTer38	p.D1727Vfs*38	ENST00000325083	32/39	22	12	10	15	15	0	PCM1,frameshift_variant,p.Asp1727ValfsTer38,ENST00000325083,;PCM1,frameshift_variant,p.Asp426ValfsTer38,ENST00000327578,;PCM1,frameshift_variant,p.Asp1719ValfsTer38,ENST00000519253,;PCM1,frameshift_variant,p.Asp1673ValfsTer38,ENST00000524226,;PCM1,frameshift_variant,p.Asp467ValfsTer38,ENST00000522275,;PCM1,upstream_gene_variant,,ENST00000524203,;PCM1,upstream_gene_variant,,ENST00000519802,;PCM1,downstream_gene_variant,,ENST00000521338,;PCM1,upstream_gene_variant,,ENST00000518877,;	TC	ENSG00000078674	ENST00000325083	Transcript	frameshift_variant	5618-5619	5179-5180	1727	D/VX	gat/gTCat	.	.	.	1	PCM1	HGNC	8727	protein_coding	YES	CCDS47812.1	ENSP00000327077	PCM1_HUMAN	E5RGQ4_HUMAN	UPI0000210A25	.	.	.	32/39	.	hmmpanther:PTHR14164,hmmpanther:PTHR14164:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR|VARSCANI	TTGAAGATCAT	.	2	BLCA
MYOM2	0	.	GRCh37	8	2040194	2040194	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1849C>T	p.Arg617Trp	p.R617W	ENST00000262113	16/37	286	162	123	166	166	0	MYOM2,missense_variant,p.Arg42Trp,ENST00000523438,;MYOM2,missense_variant,p.Arg617Trp,ENST00000262113,;MYOM2,non_coding_transcript_exon_variant,,ENST00000518803,;MYOM2,downstream_gene_variant,,ENST00000519518,;	T	ENSG00000036448	ENST00000262113	Transcript	missense_variant	1990	1849	617	R/W	Cgg/Tgg	COSM1313914	.	.	1	MYOM2	HGNC	7614	protein_coding	YES	CCDS5957.1	ENSP00000262113	MYOM2_HUMAN	E7EWH9_HUMAN	UPI000013D260	.	deleterious(0)	probably_damaging(0.988)	16/37	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900:SF48,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P615P|c.1845G>A|3	RADIA|MUTECT|MUSE	CGGGTCGGGTT	.	3	BLCA
RP1	0	.	GRCh37	8	55542115	55542115	+	Missense_Mutation	SNP	G	G	T	rs139088785	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5673G>T	p.Leu1891Phe	p.L1891F	ENST00000220676	4/4	91	58	32	78	78	0	RP1,missense_variant,p.Leu1891Phe,ENST00000220676,;	T	ENSG00000104237	ENST00000220676	Transcript	missense_variant	5821	5673	1891	L/F	ttG/ttT	rs139088785,COSM1314114	.	.	1	RP1	HGNC	10263	protein_coding	YES	CCDS6160.1	ENSP00000220676	RP1_HUMAN	A0FDN2_HUMAN	UPI000013455B	.	deleterious(0.01)	probably_damaging(0.949)	4/4	.	hmmpanther:PTHR23005:SF4,hmmpanther:PTHR23005	.	.	.	.	.	.	.	T:0	T:0.0006	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATTGCCTGG	byFrequency|byCluster	5	BLCA
PRDM14	0	.	GRCh37	8	70970924	70970924	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1337G>A	p.Arg446Gln	p.R446Q	ENST00000276594	6/8	83	50	32	51	51	0	PRDM14,missense_variant,p.Arg446Gln,ENST00000276594,;	T	ENSG00000147596	ENST00000276594	Transcript	missense_variant	1539	1337	446	R/Q	cGg/cAg	COSM1314176	.	.	-1	PRDM14	HGNC	14001	protein_coding	YES	CCDS6206.1	ENSP00000276594	PRD14_HUMAN	C9JMM8_HUMAN	UPI0000132186	.	deleterious(0.03)	benign(0.298)	6/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF354,PROSITE_patterns:PS00028,Pfam_domain:PF13894,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGCCGGTCC	.	5	BLCA
OR1Q1	0	.	GRCh37	9	125377931	125377931	+	Missense_Mutation	SNP	G	G	A	rs112809062	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915G>A	p.Met305Ile	p.M305I	ENST00000297913	1/1	62	26	36	54	54	0	OR1Q1,missense_variant,p.Met305Ile,ENST00000297913,;RP11-64P14.7,intron_variant,,ENST00000431442,;RP11-64P14.7,upstream_gene_variant,,ENST00000419604,;	A	ENSG00000165202	ENST00000297913	Transcript	missense_variant	984	915	305	M/I	atG/atA	rs112809062,COSM1314425	.	.	1	OR1Q1	HGNC	8223	protein_coding	YES	CCDS35125.1	ENSP00000297913	OR1Q1_HUMAN	.	UPI000003CACD	.	tolerated(1)	benign(0)	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26451:SF92,hmmpanther:PTHR26451	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATGAGCAG	byCluster|by1000G	5	BLCA
ZBTB43	0	.	GRCh37	9	129595162	129595162	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374G>A	p.Gly125Glu	p.G125E	ENST00000373464	3/3	44	27	16	41	41	0	ZBTB43,missense_variant,p.Gly125Glu,ENST00000373457,;ZBTB43,missense_variant,p.Gly125Glu,ENST00000450858,;ZBTB43,missense_variant,p.Gly125Glu,ENST00000373464,;ZBTB43,missense_variant,p.Gly125Glu,ENST00000449886,;ZBTB43,upstream_gene_variant,,ENST00000497064,;	A	ENSG00000169155	ENST00000373464	Transcript	missense_variant	638	374	125	G/E	gGa/gAa	COSM1314457	.	.	1	ZBTB43	HGNC	17908	protein_coding	YES	CCDS6867.1	ENSP00000362563	ZBT43_HUMAN	Q5JU97_HUMAN	UPI000013C34F	.	deleterious(0.02)	probably_damaging(0.999)	3/3	.	SMART_domains:SM00225,Pfam_domain:PF00651,hmmpanther:PTHR23229,hmmpanther:PTHR23229:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGGGAAACC	.	5	BLCA
MPDZ	0	.	GRCh37	9	13121876	13121876	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5093G>C	p.Arg1698Thr	p.R1698T	ENST00000541718	38/46	14	2	11	15	15	0	MPDZ,missense_variant,p.Arg239Thr,ENST00000438511,;MPDZ,missense_variant,p.Arg1698Thr,ENST00000381022,;MPDZ,missense_variant,p.Arg1665Thr,ENST00000447879,;MPDZ,missense_variant,p.Arg634Thr,ENST00000545857,;MPDZ,missense_variant,p.Arg1698Thr,ENST00000319217,;MPDZ,missense_variant,p.Arg1712Thr,ENST00000546205,;MPDZ,missense_variant,p.Arg1698Thr,ENST00000381015,;MPDZ,missense_variant,p.Arg1665Thr,ENST00000536827,;MPDZ,missense_variant,p.Arg557Thr,ENST00000538841,;MPDZ,missense_variant,p.Arg1698Thr,ENST00000541718,;MPDZ,5_prime_UTR_variant,,ENST00000541093,;MPDZ,3_prime_UTR_variant,,ENST00000437441,;MPDZ,3_prime_UTR_variant,,ENST00000542806,;MPDZ,non_coding_transcript_exon_variant,,ENST00000319198,;MPDZ,non_coding_transcript_exon_variant,,ENST00000539508,;MPDZ,downstream_gene_variant,,ENST00000535169,;MPDZ,upstream_gene_variant,,ENST00000381017,;	G	ENSG00000107186	ENST00000541718	Transcript	missense_variant	5315	5093	1698	R/T	aGa/aCa	COSM1314510,COSM1314509	.	.	-1	MPDZ	HGNC	7208	protein_coding	YES	CCDS47951.1	ENSP00000439807	MPDZ_HUMAN	.	UPI00015367D3	.	deleterious(0)	probably_damaging(0.999)	38/46	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19964:SF10,hmmpanther:PTHR19964,Pfam_domain:PF00595,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	TCTGTCTCAGG	.	4	BLCA
NTRK2	0	.	GRCh37	9	87366903	87366903	+	Silent	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1299C>A	p.%3D	p.V433V	ENST00000376214	14/21	81	46	34	55	55	0	NTRK2,synonymous_variant,p.%3D,ENST00000323115,;NTRK2,synonymous_variant,p.%3D,ENST00000395866,;NTRK2,synonymous_variant,p.%3D,ENST00000395882,;NTRK2,synonymous_variant,p.%3D,ENST00000376213,;NTRK2,synonymous_variant,p.%3D,ENST00000376208,;NTRK2,synonymous_variant,p.%3D,ENST00000277120,;NTRK2,synonymous_variant,p.%3D,ENST00000376214,;NTRK2,synonymous_variant,p.%3D,ENST00000359847,;NTRK2,synonymous_variant,p.%3D,ENST00000304053,;	A	ENSG00000148053	ENST00000376214	Transcript	synonymous_variant	2237	1299	433	V	gtC/gtA	COSM1314992,COSM1314994,COSM1314993	.	.	1	NTRK2	HGNC	8032	protein_coding	YES	CCDS6671.1	ENSP00000365387	NTRK2_HUMAN	S5MD53_HUMAN,Q8WXJ4_HUMAN	UPI000006FA0D	.	.	.	14/21	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24416:SF136,hmmpanther:PTHR24416	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGGTCTATGC	.	5	BLCA
PTCH1	0	.	GRCh37	9	98209683	98209683	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3855G>T	p.Gln1285His	p.Q1285H	ENST00000331920	23/24	205	110	94	90	90	0	PTCH1,missense_variant,p.Gln1284His,ENST00000375274,;PTCH1,missense_variant,p.Gln1285His,ENST00000331920,;PTCH1,missense_variant,p.Gln1219His,ENST00000430669,;PTCH1,missense_variant,p.Gln1134His,ENST00000418258,;PTCH1,missense_variant,p.Gln1134His,ENST00000429896,;PTCH1,missense_variant,p.Gln1134His,ENST00000421141,;PTCH1,missense_variant,p.Gln1219His,ENST00000437951,;PTCH1,3_prime_UTR_variant,,ENST00000375290,;PTCH1,non_coding_transcript_exon_variant,,ENST00000546744,;	A	ENSG00000185920	ENST00000331920	Transcript	missense_variant	4155	3855	1285	Q/H	caG/caT	COSM1315043,COSM1315042,COSM1315045,COSM1315044	.	.	-1	PTCH1	HGNC	9585	protein_coding	YES	CCDS6714.1	ENSP00000332353	PTC1_HUMAN	Q6TKQ0_HUMAN,F8VXL8_HUMAN,F8VQS6_HUMAN	UPI00001AFF9C	.	deleterious_low_confidence(0.05)	benign(0.275)	23/24	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGGCTGCTG	.	5	BLCA
GUCY2F	0	.	GRCh37	X	108708376	108708376	+	Missense_Mutation	SNP	C	C	A	rs149453194	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1027G>T	p.Asp343Tyr	p.D343Y	ENST00000218006	3/20	89	8	81	68	68	0	GUCY2F,missense_variant,p.Asp343Tyr,ENST00000218006,;	A	ENSG00000101890	ENST00000218006	Transcript	missense_variant	1319	1027	343	D/Y	Gat/Tat	rs149453194,COSM1315115	.	.	-1	GUCY2F	HGNC	4691	protein_coding	YES	CCDS14545.1	ENSP00000218006	GUC2F_HUMAN	.	UPI000013C740	.	tolerated(0.07)	benign(0.389)	3/20	.	hmmpanther:PTHR11920:SF278,hmmpanther:PTHR11920,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	T:0.0008	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGATCGAACT	byFrequency|byCluster	5	BLCA
AFF2	0	.	GRCh37	X	148055007	148055007	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3274A>C	p.Lys1092Gln	p.K1092Q	ENST00000370460	16/21	97	6	91	62	62	0	AFF2,missense_variant,p.Lys1092Gln,ENST00000370460,;AFF2,missense_variant,p.Lys1059Gln,ENST00000342251,;AFF2,missense_variant,p.Lys733Gln,ENST00000286437,;AFF2,missense_variant,p.Lys1057Gln,ENST00000370457,;	C	ENSG00000155966	ENST00000370460	Transcript	missense_variant	3753	3274	1092	K/Q	Aaa/Caa	COSM1315268,COSM1315267,COSM1315266	.	.	1	AFF2	HGNC	3776	protein_coding	YES	CCDS14684.1	ENSP00000359489	AFF2_HUMAN	.	UPI000049E130	.	deleterious(0.01)	probably_damaging(0.999)	16/21	.	hmmpanther:PTHR10528:SF13,hmmpanther:PTHR10528,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGAGAAATTT	.	5	BLCA
NLGN4X	0	.	GRCh37	X	5810853	5810853	+	3'UTR	SNP	C	C	A	novel	.	TCGA-G2-A3IB-01A-11D-A20D-08	TCGA-G2-A3IB-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5G>T	.	.	ENST00000381095	6/6	24	2	21	27	27	0	NLGN4X,3_prime_UTR_variant,,ENST00000381092,;NLGN4X,3_prime_UTR_variant,,ENST00000381095,;NLGN4X,3_prime_UTR_variant,,ENST00000381093,;NLGN4X,3_prime_UTR_variant,,ENST00000538097,;NLGN4X,3_prime_UTR_variant,,ENST00000275857,;NLGN4X,intron_variant,,ENST00000477079,;	A	ENSG00000146938	ENST00000381095	Transcript	3_prime_UTR_variant	3084	.	.	.	.	.	.	.	-1	NLGN4X	HGNC	14287	protein_coding	YES	CCDS14126.1	ENSP00000370485	NLGNX_HUMAN	B3KMT6_HUMAN	UPI0000072EC5	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGGGCAAAGC	.	5	BLCA
TLX1	0	.	GRCh37	10	102896708	102896708	+	3'UTR	SNP	C	C	G	rs770379996	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*38C>G	.	.	ENST00000370196	3/3	10	4	6	15	15	0	TLX1,3_prime_UTR_variant,,ENST00000467928,;TLX1,3_prime_UTR_variant,,ENST00000370196,;TLX1,downstream_gene_variant,,ENST00000463716,;RP11-31L23.3,intron_variant,,ENST00000411459,;TLX1,downstream_gene_variant,,ENST00000533319,;TLX1,downstream_gene_variant,,ENST00000525019,;	G	ENSG00000107807	ENST00000370196	Transcript	3_prime_UTR_variant	3073	.	.	.	.	rs770379996	.	.	1	TLX1	HGNC	5056	protein_coding	YES	CCDS7510.1	ENSP00000359215	TLX1_HUMAN	.	UPI000013705F	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCACTCAGGGG	.	2	BLCA
FGF8	0	.	GRCh37	10	103534601	103534601	+	Silent	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225C>G	p.%3D	p.L75L	ENST00000320185	4/6	33	22	10	68	68	0	FGF8,synonymous_variant,p.%3D,ENST00000344255,;FGF8,synonymous_variant,p.%3D,ENST00000346714,;FGF8,synonymous_variant,p.%3D,ENST00000347978,;FGF8,synonymous_variant,p.%3D,ENST00000320185,;FGF8,non_coding_transcript_exon_variant,,ENST00000485728,;FGF8,3_prime_UTR_variant,,ENST00000469792,;	C	ENSG00000107831	ENST00000320185	Transcript	synonymous_variant	284	225	75	L	ctC/ctG	COSM1296860	.	.	-1	FGF8	HGNC	3686	protein_coding	YES	CCDS7516.1	ENSP00000321797	FGF8_HUMAN	.	UPI000002A991	.	.	.	4/6	.	Superfamily_domains:SSF50353,Gene3D:2.80.10.50,hmmpanther:PTHR11486:SF3,hmmpanther:PTHR11486	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTGAGCTG	.	5	BLCA
WDR96	0	.	GRCh37	10	105903255	105903255	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4087G>A	p.Glu1363Lys	p.E1363K	ENST00000357060	32/38	91	65	26	83	83	0	WDR96,missense_variant,p.Glu212Lys,ENST00000457071,;WDR96,missense_variant,p.Glu1335Lys,ENST00000428666,;WDR96,missense_variant,p.Glu1363Lys,ENST00000357060,;WDR96,missense_variant,p.Glu695Lys,ENST00000434629,;WDR96,upstream_gene_variant,,ENST00000479392,;	T	ENSG00000197748	ENST00000357060	Transcript	missense_variant	4203	4087	1363	E/K	Gaa/Aaa	COSM1296904	.	.	-1	WDR96	HGNC	26684	protein_coding	YES	CCDS31281.1	ENSP00000349568	WDR96_HUMAN	.	UPI0000D60FC7	.	deleterious(0.01)	benign(0.358)	32/38	.	hmmpanther:PTHR14885	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCTGGCA	.	5	BLCA
SORCS3	0	.	GRCh37	10	106960946	106960946	+	Silent	SNP	G	G	A	rs369535493	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2196G>A	p.%3D	p.L732L	ENST00000369701	16/27	72	48	24	80	80	0	SORCS3,synonymous_variant,p.%3D,ENST00000369701,;SORCS3,synonymous_variant,p.%3D,ENST00000369699,;SORCS3,intron_variant,,ENST00000393176,;	A	ENSG00000156395	ENST00000369701	Transcript	synonymous_variant	2423	2196	732	L	ctG/ctA	rs369535493,COSM1296913	.	.	1	SORCS3	HGNC	16699	protein_coding	YES	CCDS7558.1	ENSP00000358715	SORC3_HUMAN	B7Z891_HUMAN	UPI0000135CE1	.	.	.	16/27	.	hmmpanther:PTHR12106:SF10,hmmpanther:PTHR12106,SMART_domains:SM00602	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R734Q|c.2201G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTGGGCCG	byCluster	5	BLCA
SORCS1	0	.	GRCh37	10	108371675	108371675	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3027G>A	p.%3D	p.L1009L	ENST00000344440	22/27	32	26	6	62	62	0	SORCS1,synonymous_variant,p.%3D,ENST00000263054,;SORCS1,synonymous_variant,p.%3D,ENST00000369698,;SORCS1,synonymous_variant,p.%3D,ENST00000452214,;SORCS1,synonymous_variant,p.%3D,ENST00000344440,;SORCS1,non_coding_transcript_exon_variant,,ENST00000478809,;SORCS1,upstream_gene_variant,,ENST00000473866,;	T	ENSG00000108018	ENST00000344440	Transcript	synonymous_variant	3027	3027	1009	L	ctG/ctA	COSM1296918,COSM1296917	.	.	-1	SORCS1	HGNC	16697	protein_coding	YES	CCDS31283.1	ENSP00000345964	SORC1_HUMAN	B3KVZ0_HUMAN	UPI000036671B	.	.	.	22/27	.	hmmpanther:PTHR12106:SF8,hmmpanther:PTHR12106	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCACCAGGGA	.	5	BLCA
SORCS1	0	.	GRCh37	10	108923757	108923757	+	Silent	SNP	G	G	T	rs199912850	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.528C>A	p.%3D	p.A176A	ENST00000344440	1/27	66	44	22	108	108	0	SORCS1,synonymous_variant,p.%3D,ENST00000263054,;SORCS1,synonymous_variant,p.%3D,ENST00000344440,;	T	ENSG00000108018	ENST00000344440	Transcript	synonymous_variant	528	528	176	A	gcC/gcA	rs199912850,COSM1296928,COSM1296927	.	.	-1	SORCS1	HGNC	16697	protein_coding	YES	CCDS31283.1	ENSP00000345964	SORC1_HUMAN	B3KVZ0_HUMAN	UPI000036671B	.	.	.	1/27	.	hmmpanther:PTHR12106:SF8,hmmpanther:PTHR12106,Superfamily_domains:SSF110296	C:0.0002	C:0	C:0	.	C:0	C:0.001	C:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATGGCTTG	byCluster|by1000G	5	BLCA
SMC3	0	.	GRCh37	10	112349666	112349666	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1426G>A	p.Glu476Lys	p.E476K	ENST00000361804	15/29	77	49	28	98	98	0	SMC3,missense_variant,p.Glu476Lys,ENST00000361804,;	A	ENSG00000108055	ENST00000361804	Transcript	missense_variant	1552	1426	476	E/K	Gag/Aag	COSM1296933	.	.	1	SMC3	HGNC	2468	protein_coding	YES	CCDS31285.1	ENSP00000354720	SMC3_HUMAN	.	UPI0000135A8D	.	deleterious(0)	possibly_damaging(0.823)	15/29	.	Pfam_domain:PF02463,hmmpanther:PTHR18937:SF164,hmmpanther:PTHR18937	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAGAAT	.	5	BLCA
WDR11	0	.	GRCh37	10	122648591	122648591	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2123G>A	p.Gly708Glu	p.G708E	ENST00000263461	17/29	101	66	35	113	113	0	WDR11,missense_variant,p.Gly708Glu,ENST00000263461,;WDR11,splice_region_variant,,ENST00000478567,;WDR11,splice_region_variant,,ENST00000604509,;WDR11,splice_region_variant,,ENST00000605376,;WDR11,splice_region_variant,,ENST00000605543,;WDR11,splice_region_variant,,ENST00000497136,;	A	ENSG00000120008	ENST00000263461	Transcript	missense_variant	2369	2123	708	G/E	gGa/gAa	COSM1297000	.	.	1	WDR11	HGNC	13831	protein_coding	YES	CCDS7619.1	ENSP00000263461	WDR11_HUMAN	S4R3Z0_HUMAN,Q9NWV7_HUMAN,Q659C9_HUMAN	UPI0000138ED1	.	deleterious(0.01)	possibly_damaging(0.603)	17/29	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR14593	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGGGAAGTA	.	5	BLCA
TTC40	0	.	GRCh37	10	134750515	134750515	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705G>C	p.Lys235Asn	p.K235N	ENST00000368586	7/58	20	16	4	27	27	0	TTC40,missense_variant,p.Lys235Asn,ENST00000368582,;TTC40,missense_variant,p.Lys235Asn,ENST00000368585,;TTC40,missense_variant,p.Lys235Asn,ENST00000368586,;TTC40,downstream_gene_variant,,ENST00000475340,;	G	ENSG00000171811	ENST00000368586	Transcript	missense_variant	806	705	235	K/N	aaG/aaC	COSM1297099,COSM1297101,COSM1297100	.	.	-1	TTC40	HGNC	25247	protein_coding	YES	CCDS58101.1	ENSP00000357575	TTC40_HUMAN	.	UPI0001B79116	.	tolerated(0.49)	benign(0.29)	7/58	.	hmmpanther:PTHR15977:SF13,hmmpanther:PTHR15977	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCTTTTC	.	5	BLCA
KNDC1	0	.	GRCh37	10	135032565	135032565	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4831G>C	p.Glu1611Gln	p.E1611Q	ENST00000304613	28/30	27	21	6	21	21	0	KNDC1,missense_variant,p.Glu1611Gln,ENST00000304613,;KNDC1,missense_variant,p.Glu1613Gln,ENST00000368572,;	C	ENSG00000171798	ENST00000304613	Transcript	missense_variant	4852	4831	1611	E/Q	Gag/Cag	.	.	.	1	KNDC1	HGNC	29374	protein_coding	YES	CCDS7674.1	ENSP00000304437	VKIND_HUMAN	B4DFN0_HUMAN	UPI00003529F7	.	deleterious(0)	possibly_damaging(0.469)	28/30	.	Superfamily_domains:0041591,SMART_domains:SM00147,Pfam_domain:PF00617,Gene3D:2ii0A02,hmmpanther:PTHR21560:SF0,hmmpanther:PTHR21560,PROSITE_profiles:PS50009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE	TAGCAGAGGTC	.	2	BLCA
GDF2	0	.	GRCh37	10	48414156	48414156	+	Missense_Mutation	SNP	C	C	T	rs137873272	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.712G>A	p.Asp238Asn	p.D238N	ENST00000249598	2/2	38	22	15	52	52	0	GDF2,missense_variant,p.Asp238Asn,ENST00000249598,;	T	ENSG00000128802	ENST00000249598	Transcript	missense_variant	872	712	238	D/N	Gac/Aac	rs137873272,COSM1297280	.	.	-1	GDF2	HGNC	4217	protein_coding	YES	CCDS7219.1	ENSP00000249598	GDF2_HUMAN	.	UPI000012B394	.	tolerated(0.26)	benign(0.36)	2/2	.	hmmpanther:PTHR11848,hmmpanther:PTHR11848:SF127,Pfam_domain:PF00688	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGTCGCAGC	byCluster	5	BLCA
OGDHL	0	.	GRCh37	10	50952768	50952768	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1660G>A	p.Glu554Lys	p.E554K	ENST00000374103	13/23	74	49	24	111	111	0	OGDHL,missense_variant,p.Glu345Lys,ENST00000432695,;OGDHL,missense_variant,p.Glu497Lys,ENST00000419399,;OGDHL,missense_variant,p.Glu554Lys,ENST00000374103,;OGDHL,non_coding_transcript_exon_variant,,ENST00000496884,;	T	ENSG00000197444	ENST00000374103	Transcript	missense_variant	1746	1660	554	E/K	Gag/Aag	COSM1297302	.	.	-1	OGDHL	HGNC	25590	protein_coding	YES	CCDS7234.1	ENSP00000363216	OGDHL_HUMAN	.	UPI000013D6A4	.	deleterious(0.04)	possibly_damaging(0.6)	13/23	.	Superfamily_domains:SSF52518,PIRSF_domain:PIRSF000157,Gene3D:3.40.50.970,Pfam_domain:PF00676,TIGRFAM_domain:TIGR00239,hmmpanther:PTHR23152:SF5,hmmpanther:PTHR23152,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCACAGA	.	5	BLCA
TET1	0	.	GRCh37	10	70446167	70446167	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5107G>A	p.Glu1703Lys	p.E1703K	ENST00000373644	11/12	90	65	25	113	113	0	TET1,missense_variant,p.Glu1703Lys,ENST00000373644,;	A	ENSG00000138336	ENST00000373644	Transcript	missense_variant	5316	5107	1703	E/K	Gag/Aag	COSM1297385	.	.	1	TET1	HGNC	29484	protein_coding	YES	CCDS7281.1	ENSP00000362748	TET1_HUMAN	.	UPI000013D114	.	deleterious(0.03)	benign(0.399)	11/12	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF2,Pfam_domain:PF12851	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAGCAG	.	5	BLCA
HKDC1	0	.	GRCh37	10	71008378	71008378	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1464G>A	p.%3D	p.Q488Q	ENST00000354624	10/18	28	18	9	39	39	0	HKDC1,synonymous_variant,p.%3D,ENST00000354624,;HKDC1,synonymous_variant,p.%3D,ENST00000395086,;HKDC1,non_coding_transcript_exon_variant,,ENST00000488706,;	A	ENSG00000156510	ENST00000354624	Transcript	synonymous_variant	1597	1464	488	Q	caG/caA	COSM1297390	.	.	1	HKDC1	HGNC	23302	protein_coding	YES	CCDS7288.1	ENSP00000346643	HKDC1_HUMAN	.	UPI00003666D2	.	.	.	10/18	.	Superfamily_domains:SSF53067,Pfam_domain:PF00349,hmmpanther:PTHR19443,hmmpanther:PTHR19443:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCAGGCCAA	.	5	BLCA
IDE	0	.	GRCh37	10	94214104	94214104	+	3'UTR	SNP	G	G	A	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*97C>T	.	.	ENST00000265986	25/25	22	13	9	27	27	0	IDE,3_prime_UTR_variant,,ENST00000371581,;IDE,3_prime_UTR_variant,,ENST00000265986,;IDE,non_coding_transcript_exon_variant,,ENST00000496903,;	A	ENSG00000119912	ENST00000265986	Transcript	3_prime_UTR_variant	3214	.	.	.	.	.	.	.	-1	IDE	HGNC	5381	protein_coding	YES	CCDS7421.1	ENSP00000265986	IDE_HUMAN	.	UPI000013D6B6	.	.	.	25/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAATAGTGAAT	.	2	BLCA
UBE4A	0	.	GRCh37	11	118257262	118257262	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2543A>G	p.Gln848Arg	p.Q848R	ENST00000431736	16/20	251	193	57	227	227	0	UBE4A,missense_variant,p.Gln841Arg,ENST00000252108,;UBE4A,missense_variant,p.Gln848Arg,ENST00000431736,;UBE4A,missense_variant,p.Gln313Arg,ENST00000545354,;	G	ENSG00000110344	ENST00000431736	Transcript	missense_variant	2615	2543	848	Q/R	cAg/cGg	COSM1297688	.	.	1	UBE4A	HGNC	12499	protein_coding	YES	CCDS8396.1	ENSP00000387362	UBE4A_HUMAN	B7Z7P0_HUMAN	UPI000013CD3F	.	tolerated(0.38)	benign(0.007)	16/20	.	hmmpanther:PTHR13931,hmmpanther:PTHR13931:SF2,Pfam_domain:PF10408	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGACAGCTGG	.	5	BLCA
DKK3	0	.	GRCh37	11	11986170	11986170	+	Silent	SNP	G	G	A	rs369574898	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894C>T	p.%3D	p.I298I	ENST00000396505	8/8	35	14	20	46	46	0	DKK3,synonymous_variant,p.%3D,ENST00000396505,;DKK3,synonymous_variant,p.%3D,ENST00000450094,;DKK3,synonymous_variant,p.%3D,ENST00000525493,;DKK3,synonymous_variant,p.%3D,ENST00000326932,;DKK3,downstream_gene_variant,,ENST00000534511,;DKK3,downstream_gene_variant,,ENST00000529338,;DKK3,downstream_gene_variant,,ENST00000533813,;DKK3,non_coding_transcript_exon_variant,,ENST00000528188,;DKK3,intron_variant,,ENST00000527132,;DKK3,downstream_gene_variant,,ENST00000532873,;DKK3,downstream_gene_variant,,ENST00000525927,;DKK3,downstream_gene_variant,,ENST00000532372,;	A	ENSG00000050165	ENST00000396505	Transcript	synonymous_variant	1133	894	298	I	atC/atT	rs369574898,COSM1297730	.	.	-1	DKK3	HGNC	2893	protein_coding	YES	CCDS7808.1	ENSP00000379762	DKK3_HUMAN	E9PKW6_HUMAN	UPI00001694CA	.	.	.	8/8	.	hmmpanther:PTHR12113	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGGATCTC	byCluster	5	BLCA
CDON	0	.	GRCh37	11	125889642	125889642	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368C>T	p.Ser123Leu	p.S123L	ENST00000392693	4/20	47	33	14	61	61	0	CDON,missense_variant,p.Ser99Leu,ENST00000534661,;CDON,missense_variant,p.Ser123Leu,ENST00000527967,;CDON,missense_variant,p.Ser123Leu,ENST00000263577,;CDON,missense_variant,p.Ser123Leu,ENST00000392693,;CDON,missense_variant,p.Ser123Leu,ENST00000531586,;CDON,downstream_gene_variant,,ENST00000534818,;CDON,non_coding_transcript_exon_variant,,ENST00000525625,;CDON,upstream_gene_variant,,ENST00000531830,;	A	ENSG00000064309	ENST00000392693	Transcript	missense_variant	496	368	123	S/L	tCa/tTa	COSM1297792	.	.	-1	CDON	HGNC	17104	protein_coding	YES	CCDS58192.1	ENSP00000376458	CDON_HUMAN	E9PRD8_HUMAN,E9PPQ7_HUMAN,E9PNF2_HUMAN	UPI0000E0013A	.	tolerated(0.18)	benign(0.013)	4/20	.	hmmpanther:PTHR10489:SF12,hmmpanther:PTHR10489	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGAACCA	.	5	BLCA
P2RX3	0	.	GRCh37	11	57135555	57135555	+	Silent	SNP	C	C	T	rs150261482	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915C>T	p.%3D	p.F305F	ENST00000263314	9/12	102	88	14	112	112	0	P2RX3,synonymous_variant,p.%3D,ENST00000263314,;	T	ENSG00000109991	ENST00000263314	Transcript	synonymous_variant	949	915	305	F	ttC/ttT	rs150261482,COSM1298205	.	.	1	P2RX3	HGNC	8534	protein_coding	YES	CCDS7953.1	ENSP00000263314	P2RX3_HUMAN	H0YDR6_HUMAN	UPI00000342EB	.	.	.	9/12	.	hmmpanther:PTHR10125,hmmpanther:PTHR10125:SF8,Gene3D:3h9vA02,TIGRFAM_domain:TIGR00863,Pfam_domain:PF00864,Prints_domain:PR01307	.	.	.	.	.	.	.	T:0.0005	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTTCGACGT	byCluster	4	BLCA
SLC43A3	0	.	GRCh37	11	57188794	57188794	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414C>T	p.%3D	p.I138I	ENST00000395123	6/14	47	30	17	48	48	0	SLC43A3,synonymous_variant,p.%3D,ENST00000395124,;SLC43A3,synonymous_variant,p.%3D,ENST00000352187,;SLC43A3,synonymous_variant,p.%3D,ENST00000525474,;SLC43A3,synonymous_variant,p.%3D,ENST00000529112,;SLC43A3,synonymous_variant,p.%3D,ENST00000395123,;SLC43A3,synonymous_variant,p.%3D,ENST00000529113,;SLC43A3,synonymous_variant,p.%3D,ENST00000529554,;SLC43A3,synonymous_variant,p.%3D,ENST00000533524,;SLC43A3,synonymous_variant,p.%3D,ENST00000530005,;SLC43A3,downstream_gene_variant,,ENST00000532795,;SLC43A3,downstream_gene_variant,,ENST00000533245,;SLC43A3,downstream_gene_variant,,ENST00000529748,;SLC43A3,downstream_gene_variant,,ENST00000530316,;SLC43A3,downstream_gene_variant,,ENST00000532278,;SLC43A3,downstream_gene_variant,,ENST00000524863,;SLC43A3,downstream_gene_variant,,ENST00000529494,;SLC43A3,downstream_gene_variant,,ENST00000528187,;SLC43A3,downstream_gene_variant,,ENST00000533051,;SLC43A3,downstream_gene_variant,,ENST00000526621,;SLC43A3,downstream_gene_variant,,ENST00000533235,;SLC43A3,downstream_gene_variant,,ENST00000529896,;SLC43A3,non_coding_transcript_exon_variant,,ENST00000528098,;SLC43A3,downstream_gene_variant,,ENST00000530232,;SLC43A3,downstream_gene_variant,,ENST00000526125,;RP11-872D17.8,non_coding_transcript_exon_variant,,ENST00000534081,;SLC43A3,upstream_gene_variant,,ENST00000525205,;	A	ENSG00000134802	ENST00000395123	Transcript	synonymous_variant	719	414	138	I	atC/atT	COSM295404,COSM1298206	.	.	-1	SLC43A3	HGNC	17466	protein_coding	YES	CCDS7956.1	ENSP00000378555	S43A3_HUMAN	E9PSH9_HUMAN,E9PS74_HUMAN,E9PR64_HUMAN,E9PPE4_HUMAN,E9PMZ1_HUMAN,E9PLW1_HUMAN,E9PLF2_HUMAN,E9PL23_HUMAN,E9PJT6_HUMAN,E9PJL3_HUMAN,E9PJL1_HUMAN	UPI00000377A1	.	.	.	6/14	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20765,hmmpanther:PTHR20765:SF1,Gene3D:1.20.1250.20,Pfam_domain:PF07690,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGGATTCC	.	5	BLCA
AHNAK	0	.	GRCh37	11	62297946	62297946	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3943G>A	p.Glu1315Lys	p.E1315K	ENST00000378024	5/5	223	215	8	210	210	0	AHNAK,missense_variant,p.Glu1315Lys,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,downstream_gene_variant,,ENST00000531324,;AHNAK,downstream_gene_variant,,ENST00000530285,;AHNAK,downstream_gene_variant,,ENST00000528508,;	T	ENSG00000124942	ENST00000378024	Transcript	missense_variant	4218	3943	1315	E/K	Gag/Aag	COSM1298307,COSM158974	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	possibly_damaging(0.889)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCTCAGGCA	.	2	BLCA
TIGD3	0	.	GRCh37	11	65124162	65124162	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.886delC	p.Leu296CysfsTer92	p.L296Cfs*92	ENST00000309880	2/2	86	66	20	46	46	0	TIGD3,frameshift_variant,p.Leu296CysfsTer92,ENST00000309880,;DPF2,downstream_gene_variant,,ENST00000531989,;DPF2,downstream_gene_variant,,ENST00000252268,;DPF2,downstream_gene_variant,,ENST00000415073,;DPF2,downstream_gene_variant,,ENST00000528416,;DPF2,downstream_gene_variant,,ENST00000524666,;DPF2,downstream_gene_variant,,ENST00000532052,;	-	ENSG00000173825	ENST00000309880	Transcript	frameshift_variant	1090	883	295	P/X	Ccc/cc	.	.	.	1	TIGD3	HGNC	18334	protein_coding	YES	CCDS8101.1	ENSP00000308354	TIGD3_HUMAN	.	UPI000013EF51	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19303:SF163,hmmpanther:PTHR19303,Pfam_domain:PF03184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACGCCTCCCCTG	.	3	BLCA
IL18BP	0	.	GRCh37	11	71714661	71714661	+	3'Flank	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000404792	.	33	17	15	33	33	0	IL18BP,3_prime_UTR_variant,,ENST00000497194,;NUMA1,intron_variant,,ENST00000393695,;NUMA1,intron_variant,,ENST00000541584,;NUMA1,intron_variant,,ENST00000351960,;NUMA1,intron_variant,,ENST00000358965,;IL18BP,downstream_gene_variant,,ENST00000393705,;IL18BP,downstream_gene_variant,,ENST00000393707,;IL18BP,downstream_gene_variant,,ENST00000404792,;IL18BP,downstream_gene_variant,,ENST00000260049,;IL18BP,downstream_gene_variant,,ENST00000531053,;IL18BP,downstream_gene_variant,,ENST00000393703,;IL18BP,downstream_gene_variant,,ENST00000337131,;IL18BP,downstream_gene_variant,,ENST00000531777,;NUMA1,downstream_gene_variant,,ENST00000541262,;IL18BP,downstream_gene_variant,,ENST00000414358,;IL18BP,downstream_gene_variant,,ENST00000525932,;NUMA1,intron_variant,,ENST00000540626,;IL18BP,intron_variant,,ENST00000343898,;NUMA1,downstream_gene_variant,,ENST00000545721,;NUMA1,downstream_gene_variant,,ENST00000546036,;IL18BP,downstream_gene_variant,,ENST00000534583,;	T	ENSG00000137496	ENST00000404792	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1089	1	IL18BP	HGNC	5987	protein_coding	YES	CCDS8206.2	ENSP00000384212	I18BP_HUMAN	Q9UNH2_HUMAN	UPI000000DA78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCCTGCT	.	5	BLCA
POLD3	0	.	GRCh37	11	74340342	74340342	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.980C>G	p.Pro327Arg	p.P327R	ENST00000263681	9/12	82	77	4	82	82	0	POLD3,missense_variant,p.Pro51Arg,ENST00000524752,;POLD3,missense_variant,p.Pro221Arg,ENST00000532497,;POLD3,missense_variant,p.Pro288Arg,ENST00000527458,;POLD3,missense_variant,p.Pro327Arg,ENST00000263681,;POLD3,non_coding_transcript_exon_variant,,ENST00000530163,;	G	ENSG00000077514	ENST00000263681	Transcript	missense_variant	1109	980	327	P/R	cCt/cGt	COSM1298611,COSM1298610	.	.	1	POLD3	HGNC	20932	protein_coding	YES	CCDS8233.1	ENSP00000263681	DPOD3_HUMAN	Q32N00_HUMAN,Q32MZ9_HUMAN,E9PRK3_HUMAN,E9PNC0_HUMAN,E9PM91_HUMAN,B4DMA6_HUMAN	UPI000012973E	.	deleterious(0.04)	probably_damaging(1)	9/12	.	hmmpanther:PTHR17598,Pfam_domain:PF09507	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTTCCTGAAT	.	2	BLCA
DLG2	0	.	GRCh37	11	84028123	84028123	+	Intron	SNP	C	C	G	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.520-65789G>C	.	.	ENST00000376104	.	257	148	109	258	258	0	DLG2,missense_variant,p.Arg22Ser,ENST00000398301,;DLG2,missense_variant,p.Arg22Ser,ENST00000280241,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000398309,;DLG2,intron_variant,,ENST00000376104,;DLG2,intron_variant,,ENST00000527466,;DLG2,intron_variant,,ENST00000529111,;	G	ENSG00000150672	ENST00000376104	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DLG2	HGNC	2901	protein_coding	YES	CCDS44690.1	ENSP00000365272	DLG2_HUMAN	F8W750_HUMAN,E9PQT9_HUMAN	UPI0000E59399	.	.	.	.	7/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCCTGAC	.	5	BLCA
FOLH1B	0	.	GRCh37	11	89405073	89405073	+	RNA	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.726G>A	.	.	ENST00000525540	5/14	101	81	20	87	87	0	FOLH1B,non_coding_transcript_exon_variant,,ENST00000526379,;FOLH1B,non_coding_transcript_exon_variant,,ENST00000531315,;FOLH1B,non_coding_transcript_exon_variant,,ENST00000525540,;FOLH1B,non_coding_transcript_exon_variant,,ENST00000532352,;FOLH1B,non_coding_transcript_exon_variant,,ENST00000529567,;	A	ENSG00000134612	ENST00000525540	Transcript	non_coding_transcript_exon_variant	726	.	.	.	.	COSM1298733	.	.	1	FOLH1B	HGNC	13636	processed_transcript	YES	.	.	.	.	.	.	.	.	5/14	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGGGAGGTC	.	5	BLCA
ANO4	0	.	GRCh37	12	101442180	101442180	+	Splice_Site	SNP	G	G	A	rs748776312	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1207+1G>A	.	p.X403_splice	ENST00000392979	.	62	45	16	60	60	0	ANO4,splice_donor_variant,,ENST00000550015,;ANO4,splice_donor_variant,,ENST00000299222,;ANO4,splice_donor_variant,,ENST00000392977,;ANO4,splice_donor_variant,,ENST00000392979,;ANO4,splice_donor_variant,,ENST00000548940,;	A	ENSG00000151572	ENST00000392979	Transcript	splice_donor_variant	.	.	.	.	.	rs748776312,COSM1298812	.	.	1	ANO4	HGNC	23837	protein_coding	YES	CCDS31884.1	ENSP00000376705	ANO4_HUMAN	.	UPI0000198E2E	.	.	.	.	13/26	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CTGGGGTAAGT	.	4	BLCA
MYBPC1	0	.	GRCh37	12	102069129	102069129	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2848C>G	p.Leu950Val	p.L950V	ENST00000452455	25/30	57	40	16	58	58	0	MYBPC1,missense_variant,p.Leu913Val,ENST00000536007,;MYBPC1,missense_variant,p.Leu906Val,ENST00000547405,;MYBPC1,missense_variant,p.Leu950Val,ENST00000550270,;MYBPC1,missense_variant,p.Leu957Val,ENST00000361685,;MYBPC1,missense_variant,p.Leu833Val,ENST00000551300,;MYBPC1,missense_variant,p.Leu957Val,ENST00000361466,;MYBPC1,missense_variant,p.Leu950Val,ENST00000452455,;MYBPC1,missense_variant,p.Leu963Val,ENST00000549145,;MYBPC1,missense_variant,p.Leu919Val,ENST00000392934,;MYBPC1,missense_variant,p.Leu932Val,ENST00000553190,;MYBPC1,missense_variant,p.Leu932Val,ENST00000545503,;MYBPC1,missense_variant,p.Leu950Val,ENST00000441232,;MYBPC1,missense_variant,p.Leu950Val,ENST00000360610,;MYBPC1,missense_variant,p.Leu918Val,ENST00000547509,;MYBPC1,missense_variant,p.Leu920Val,ENST00000541119,;MYBPC1,intron_variant,,ENST00000550501,;MYBPC1,downstream_gene_variant,,ENST00000548532,;MYBPC1,downstream_gene_variant,,ENST00000548298,;MYBPC1,non_coding_transcript_exon_variant,,ENST00000549608,;	G	ENSG00000196091	ENST00000452455	Transcript	missense_variant	2950	2848	950	L/V	Ctc/Gtc	COSM1298825,COSM1298826	.	.	1	MYBPC1	HGNC	7549	protein_coding	YES	CCDS58268.1	ENSP00000400908	MYPC1_HUMAN	F8W1Z9_HUMAN	UPI0001AE6B26	.	tolerated(0.25)	probably_damaging(0.999)	25/30	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900:SF43,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265,Prints_domain:PR00014	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCTCTCACA	.	5	BLCA
ATF7IP	0	.	GRCh37	12	14649244	14649244	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3360C>T	p.%3D	p.L1120L	ENST00000261168	14/15	74	49	24	71	71	0	ATF7IP,synonymous_variant,p.%3D,ENST00000261168,;ATF7IP,synonymous_variant,p.%3D,ENST00000540793,;ATF7IP,synonymous_variant,p.%3D,ENST00000544627,;ATF7IP,synonymous_variant,p.%3D,ENST00000536444,;	T	ENSG00000171681	ENST00000261168	Transcript	synonymous_variant	3513	3360	1120	L	ctC/ctT	COSM1299180	.	.	1	ATF7IP	HGNC	20092	protein_coding	YES	CCDS8663.1	ENSP00000261168	MCAF1_HUMAN	F8WE35_HUMAN,F5H8I0_HUMAN,F5H6X8_HUMAN,F5H502_HUMAN,F5H3C4_HUMAN,F5H2W9_HUMAN,F5H2H9_HUMAN,F5H221_HUMAN,F5H1K9_HUMAN,F5GZ98_HUMAN,F5GZ10_HUMAN,F5GYR7_HUMAN,A8MV73_HUMAN	UPI00001FB6B1	.	.	.	14/15	.	hmmpanther:PTHR23210:SF20,hmmpanther:PTHR23210	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCACAGT	.	5	BLCA
HIST4H4	0	.	GRCh37	12	14923749	14923749	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>A	p.%3D	p.A90A	ENST00000539745	1/1	125	60	65	111	111	0	HIST4H4,synonymous_variant,p.%3D,ENST00000539745,;H2AFJ,upstream_gene_variant,,ENST00000544848,;RP11-174G6.5,upstream_gene_variant,,ENST00000562691,;HIST4H4,upstream_gene_variant,,ENST00000537853,;HIST4H4,upstream_gene_variant,,ENST00000537096,;HIST4H4,upstream_gene_variant,,ENST00000541592,;HIST4H4,upstream_gene_variant,,ENST00000540565,;HIST4H4,synonymous_variant,p.%3D,ENST00000358064,;H2AFJ,upstream_gene_variant,,ENST00000389078,;H2AFJ,upstream_gene_variant,,ENST00000501744,;	T	ENSG00000197837	ENST00000539745	Transcript	synonymous_variant	317	270	90	A	gcG/gcA	COSM1299182	.	.	-1	HIST4H4	HGNC	20510	protein_coding	YES	CCDS8665.1	ENSP00000443017	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	.	.	1/1	.	hmmpanther:PTHR10484,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00803,SMART_domains:SM00417,Superfamily_domains:SSF47113,Prints_domain:PR00623	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAGCGCGTA	.	5	BLCA
PKP2	0	.	GRCh37	12	33021978	33021978	+	Missense_Mutation	SNP	C	C	T	rs765200197	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1053G>A	p.Met351Ile	p.M351I	ENST00000070846	4/14	135	67	68	121	121	0	PKP2,missense_variant,p.Met351Ile,ENST00000340811,;PKP2,missense_variant,p.Met351Ile,ENST00000070846,;	T	ENSG00000057294	ENST00000070846	Transcript	missense_variant	1078	1053	351	M/I	atG/atA	rs765200197,COSM1299327	.	.	-1	PKP2	HGNC	9024	protein_coding	YES	CCDS8731.1	ENSP00000070846	PKP2_HUMAN	.	UPI000013C576	.	deleterious(0.01)	benign(0.297)	4/14	.	hmmpanther:PTHR10372,hmmpanther:PTHR10372:SF25	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCATCTC	.	5	BLCA
KMT2D	0	.	GRCh37	12	49435941	49435941	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6040C>T	p.Gln2014Ter	p.Q2014*	ENST00000301067	28/54	25	13	12	28	28	0	KMT2D,stop_gained,p.Gln2014Ter,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	6040	6040	2014	Q/*	Cag/Tag	COSM1299442,COSM1299441	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	28/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324,SMART_domains:SM00398	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGGCCCA	.	5	BLCA
SPRYD3	0	.	GRCh37	12	53460407	53460407	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.971T>A	p.Ile324Asn	p.I324N	ENST00000301463	9/11	31	20	10	28	28	0	SPRYD3,missense_variant,p.Ile324Asn,ENST00000301463,;SPRYD3,missense_variant,p.Ile361Asn,ENST00000547837,;TENC1,downstream_gene_variant,,ENST00000379902,;TENC1,downstream_gene_variant,,ENST00000546602,;TENC1,downstream_gene_variant,,ENST00000549700,;TENC1,downstream_gene_variant,,ENST00000314276,;TENC1,downstream_gene_variant,,ENST00000451358,;TENC1,downstream_gene_variant,,ENST00000314250,;TENC1,downstream_gene_variant,,ENST00000552570,;SPRYD3,3_prime_UTR_variant,,ENST00000537540,;SPRYD3,downstream_gene_variant,,ENST00000550564,;TENC1,downstream_gene_variant,,ENST00000550660,;TENC1,downstream_gene_variant,,ENST00000552168,;TENC1,downstream_gene_variant,,ENST00000550048,;TENC1,downstream_gene_variant,,ENST00000546772,;SPRYD3,upstream_gene_variant,,ENST00000547257,;TENC1,downstream_gene_variant,,ENST00000549311,;	T	ENSG00000167778	ENST00000301463	Transcript	missense_variant	1058	971	324	I/N	aTc/aAc	COSM1299567	.	.	-1	SPRYD3	HGNC	25920	protein_coding	YES	CCDS8845.1	ENSP00000301463	SPRY3_HUMAN	.	UPI0000038D00	.	deleterious(0)	possibly_damaging(0.678)	9/11	.	Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATGATGTCC	.	5	BLCA
PAN2	0	.	GRCh37	12	56720165	56720165	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1291C>G	p.Leu431Val	p.L431V	ENST00000425394	8/26	25	20	5	17	17	0	PAN2,missense_variant,p.Leu431Val,ENST00000425394,;PAN2,missense_variant,p.Leu431Val,ENST00000440411,;PAN2,missense_variant,p.Leu431Val,ENST00000257931,;PAN2,missense_variant,p.Leu431Val,ENST00000548043,;PAN2,downstream_gene_variant,,ENST00000547572,;PAN2,non_coding_transcript_exon_variant,,ENST00000550555,;PAN2,non_coding_transcript_exon_variant,,ENST00000549073,;PAN2,non_coding_transcript_exon_variant,,ENST00000551359,;PAN2,non_coding_transcript_exon_variant,,ENST00000547994,;PAN2,upstream_gene_variant,,ENST00000547226,;PAN2,upstream_gene_variant,,ENST00000548982,;PAN2,upstream_gene_variant,,ENST00000552630,;PAN2,upstream_gene_variant,,ENST00000552868,;PAN2,upstream_gene_variant,,ENST00000550028,;PAN2,upstream_gene_variant,,ENST00000549348,;PAN2,downstream_gene_variant,,ENST00000547518,;	C	ENSG00000135473	ENST00000425394	Transcript	missense_variant	1668	1291	431	L/V	Ctg/Gtg	COSM1299670	.	.	-1	PAN2	HGNC	20074	protein_coding	YES	CCDS44922.1	ENSP00000401721	PAN2_HUMAN	F8VXK8_HUMAN	UPI0000577D0A	.	deleterious(0)	probably_damaging(0.996)	8/26	.	hmmpanther:PTHR15728,hmmpanther:PTHR15728:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCAGAATCT	.	5	BLCA
PLXNC1	0	.	GRCh37	12	94658921	94658921	+	Missense_Mutation	SNP	G	G	A	rs541936661	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3517G>A	p.Val1173Met	p.V1173M	ENST00000258526	21/31	284	159	125	266	266	0	PLXNC1,missense_variant,p.Val220Met,ENST00000547057,;PLXNC1,missense_variant,p.Val1173Met,ENST00000258526,;PLXNC1,5_prime_UTR_variant,,ENST00000545312,;PLXNC1,downstream_gene_variant,,ENST00000551495,;PLXNC1,missense_variant,p.Val214Met,ENST00000549217,;PLXNC1,non_coding_transcript_exon_variant,,ENST00000549187,;	A	ENSG00000136040	ENST00000258526	Transcript	missense_variant	3766	3517	1173	V/M	Gtg/Atg	rs541936661,COSM1299974	.	.	1	PLXNC1	HGNC	9106	protein_coding	YES	CCDS9049.1	ENSP00000258526	PLXC1_HUMAN	F8VUW4_HUMAN,F5H3A2_HUMAN	UPI0000038AF4	.	deleterious(0)	probably_damaging(0.999)	21/31	.	hmmpanther:PTHR22625:SF4,hmmpanther:PTHR22625,Pfam_domain:PF08337,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCCGTGGAT	byFrequency|byCluster	5	BLCA
RASA3	0	.	GRCh37	13	114758015	114758015	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2191G>A	p.Glu731Lys	p.E731K	ENST00000334062	22/24	63	45	18	74	74	0	RASA3,missense_variant,p.Glu699Lys,ENST00000389544,;RASA3,missense_variant,p.Glu731Lys,ENST00000334062,;	T	ENSG00000185989	ENST00000334062	Transcript	missense_variant	2313	2191	731	E/K	Gag/Aag	COSM1300048	.	.	-1	RASA3	HGNC	20331	protein_coding	YES	CCDS32016.1	ENSP00000335029	RASA3_HUMAN	F8W6X8_HUMAN	UPI000000DBC1	.	deleterious(0.01)	probably_damaging(0.991)	22/24	.	hmmpanther:PTHR10194:SF53,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACGCTCCGTCT	.	3	BLCA
FREM2	0	.	GRCh37	13	39266378	39266378	+	Missense_Mutation	SNP	G	G	A	rs776357642	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4897G>A	p.Asp1633Asn	p.D1633N	ENST00000280481	1/24	63	46	17	82	82	0	FREM2,missense_variant,p.Asp1633Asn,ENST00000280481,;	A	ENSG00000150893	ENST00000280481	Transcript	missense_variant	5113	4897	1633	D/N	Gat/Aat	rs776357642,COSM1300189	.	.	1	FREM2	HGNC	25396	protein_coding	YES	CCDS31960.1	ENSP00000280481	FREM2_HUMAN	.	UPI00005520B9	.	tolerated(0.19)	benign(0.002)	1/24	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF19	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTGATACG	.	5	BLCA
GPALPP1	0	.	GRCh37	13	45580434	45580434	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319C>G	p.Pro107Ala	p.P107A	ENST00000361121	3/12	192	146	45	207	207	0	GPALPP1,missense_variant,p.Pro107Ala,ENST00000379151,;GPALPP1,missense_variant,p.Pro107Ala,ENST00000361121,;GPALPP1,5_prime_UTR_variant,,ENST00000357537,;RP11-321C24.1,intron_variant,,ENST00000437748,;RN7SL49P,downstream_gene_variant,,ENST00000581392,;GPALPP1,downstream_gene_variant,,ENST00000479068,;GPALPP1,missense_variant,p.Pro107Ala,ENST00000497558,;	G	ENSG00000133114	ENST00000361121	Transcript	missense_variant	354	319	107	P/A	Cca/Gca	COSM1300212	.	.	1	GPALPP1	HGNC	20298	protein_coding	YES	CCDS9394.1	ENSP00000355211	GPAM1_HUMAN	.	UPI000007435F	.	tolerated(0.44)	benign(0.071)	3/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15606	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCCAAGG	.	5	BLCA
ATP7B	0	.	GRCh37	13	52544680	52544680	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1491G>A	p.Met497Ile	p.M497I	ENST00000242839	3/21	190	120	69	215	215	0	ATP7B,missense_variant,p.Met497Ile,ENST00000418097,;ATP7B,missense_variant,p.Met497Ile,ENST00000344297,;ATP7B,missense_variant,p.Met465Ile,ENST00000542656,;ATP7B,missense_variant,p.Met497Ile,ENST00000242839,;ATP7B,missense_variant,p.Met386Ile,ENST00000400366,;ATP7B,missense_variant,p.Met497Ile,ENST00000448424,;ATP7B,intron_variant,,ENST00000400370,;ATP7B,non_coding_transcript_exon_variant,,ENST00000482841,;ATP7B,non_coding_transcript_exon_variant,,ENST00000483772,;FABP5P2,downstream_gene_variant,,ENST00000439042,;	T	ENSG00000123191	ENST00000242839	Transcript	missense_variant	1648	1491	497	M/I	atG/atA	COSM1300245	.	.	-1	ATP7B	HGNC	870	protein_coding	YES	CCDS41892.1	ENSP00000242839	ATP7B_HUMAN	G1FFF2_HUMAN,D3KCZ0_HUMAN,C8BMD5_HUMAN,A6YQZ1_HUMAN	UPI00001FCE15	.	deleterious(0.01)	possibly_damaging(0.681)	3/21	.	PROSITE_profiles:PS50846,hmmpanther:PTHR24093:SF239,hmmpanther:PTHR24093,PROSITE_patterns:PS01047,Pfam_domain:PF00403,Gene3D:3.30.70.100,TIGRFAM_domain:TIGR00003,Superfamily_domains:SSF55008,Prints_domain:PR00942	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTCATGCC	.	5	BLCA
MYCBP2	0	.	GRCh37	13	77656085	77656085	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10966C>T	p.His3656Tyr	p.H3656Y	ENST00000544440	64/83	57	33	24	77	77	0	MYCBP2,missense_variant,p.His80Tyr,ENST00000429715,;MYCBP2,missense_variant,p.His3656Tyr,ENST00000544440,;MYCBP2,missense_variant,p.His3656Tyr,ENST00000357337,;MYCBP2,missense_variant,p.His3694Tyr,ENST00000407578,;MYCBP2-AS1,intron_variant,,ENST00000422231,;MYCBP2-AS1,intron_variant,,ENST00000450627,;MYCBP2-AS1,intron_variant,,ENST00000593933,;MYCBP2-AS1,intron_variant,,ENST00000448470,;MYCBP2-AS2,upstream_gene_variant,,ENST00000428716,;MYCBP2-AS1,downstream_gene_variant,,ENST00000596342,;	A	ENSG00000005810	ENST00000544440	Transcript	missense_variant	10984	10966	3656	H/Y	Cat/Tat	COSM1300301,COSM1300299,COSM1300300	.	.	-1	MYCBP2	HGNC	23386	protein_coding	YES	.	ENSP00000444596	MYCB2_HUMAN	.	UPI0000212757	.	.	probably_damaging(0.921)	64/83	.	hmmpanther:PTHR12846:SF14,hmmpanther:PTHR12846,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGATGAAGGA	.	5	BLCA
GPC6	0	.	GRCh37	13	94958333	94958333	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1108G>C	p.Glu370Gln	p.E370Q	ENST00000377047	6/9	59	36	22	94	94	0	GPC6,missense_variant,p.Glu370Gln,ENST00000377047,;	C	ENSG00000183098	ENST00000377047	Transcript	missense_variant	1723	1108	370	E/Q	Gag/Cag	COSM1300346	.	.	1	GPC6	HGNC	4454	protein_coding	YES	CCDS9469.1	ENSP00000366246	GPC6_HUMAN	.	UPI0000032F5B	.	tolerated(0.11)	probably_damaging(0.917)	6/9	.	hmmpanther:PTHR10822:SF26,hmmpanther:PTHR10822,Pfam_domain:PF01153	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGAGGAA	.	5	BLCA
CYP46A1	0	.	GRCh37	14	100166436	100166436	+	Silent	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441G>C	p.%3D	p.R147R	ENST00000261835	5/15	30	24	5	60	60	0	CYP46A1,synonymous_variant,p.%3D,ENST00000380228,;CYP46A1,synonymous_variant,p.%3D,ENST00000423126,;CYP46A1,synonymous_variant,p.%3D,ENST00000261835,;CYP46A1,splice_region_variant,,ENST00000554611,;	C	ENSG00000036530	ENST00000261835	Transcript	synonymous_variant	545	441	147	R	cgG/cgC	COSM1300377	.	.	1	CYP46A1	HGNC	2641	protein_coding	YES	CCDS9954.1	ENSP00000261835	CP46A_HUMAN	B4DHP8_HUMAN	UPI00001281DC	.	.	.	5/15	.	hmmpanther:PTHR24293,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCGGAGGTG	.	5	BLCA
DLK1	0	.	GRCh37	14	101193373	101193373	+	5'UTR	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-33C>T	.	.	ENST00000341267	1/5	8	5	3	22	22	0	DLK1,5_prime_UTR_variant,,ENST00000331224,;DLK1,5_prime_UTR_variant,,ENST00000392848,;DLK1,5_prime_UTR_variant,,ENST00000556051,;DLK1,5_prime_UTR_variant,,ENST00000341267,;DLK1,non_coding_transcript_exon_variant,,ENST00000555747,;	T	ENSG00000185559	ENST00000341267	Transcript	5_prime_UTR_variant	210	.	.	.	.	.	.	.	1	DLK1	HGNC	2907	protein_coding	YES	CCDS9963.1	ENSP00000340292	DLK1_HUMAN	G3XAH5_HUMAN	UPI00001AFE16	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT	CGCACCGCTCC	.	2	BLCA
MOK	0	.	GRCh37	14	102729905	102729905	+	Missense_Mutation	SNP	C	C	T	rs374179019	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261G>A	p.Met87Ile	p.M87I	ENST00000361847	4/12	55	42	13	36	36	0	MOK,missense_variant,p.Met87Ile,ENST00000522874,;MOK,missense_variant,p.Met57Ile,ENST00000524214,;MOK,missense_variant,p.Met87Ile,ENST00000361847,;MOK,5_prime_UTR_variant,,ENST00000193029,;MOK,non_coding_transcript_exon_variant,,ENST00000524019,;MOK,non_coding_transcript_exon_variant,,ENST00000521966,;MOK,intron_variant,,ENST00000521493,;MOK,missense_variant,p.Met87Ile,ENST00000517537,;MOK,3_prime_UTR_variant,,ENST00000524207,;MOK,3_prime_UTR_variant,,ENST00000520238,;MOK,non_coding_transcript_exon_variant,,ENST00000523485,;MOK,non_coding_transcript_exon_variant,,ENST00000519569,;MOK,non_coding_transcript_exon_variant,,ENST00000518686,;MOK,intron_variant,,ENST00000562292,;MOK,intron_variant,,ENST00000521766,;MOK,intron_variant,,ENST00000518399,;MOK,intron_variant,,ENST00000519877,;MOK,intron_variant,,ENST00000522093,;MOK,intron_variant,,ENST00000521388,;MOK,intron_variant,,ENST00000518482,;	T	ENSG00000080823	ENST00000361847	Transcript	missense_variant	493	261	87	M/I	atG/atA	rs374179019,COSM1300404	.	.	-1	MOK	HGNC	9833	protein_coding	YES	CCDS9971.1	ENSP00000355304	MOK_HUMAN	Q49A77_HUMAN	UPI0000035B77	.	deleterious(0.03)	benign(0.445)	4/12	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR24055:SF72,hmmpanther:PTHR24055,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTCATGTC	byCluster	5	BLCA
TRAF3	0	.	GRCh37	14	103369714	103369714	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1083G>A	p.%3D	p.V361V	ENST00000560371	10/11	97	55	42	126	126	0	TRAF3,synonymous_variant,p.%3D,ENST00000392745,;TRAF3,synonymous_variant,p.%3D,ENST00000560371,;TRAF3,synonymous_variant,p.%3D,ENST00000351691,;TRAF3,synonymous_variant,p.%3D,ENST00000559734,;TRAF3,synonymous_variant,p.%3D,ENST00000539721,;TRAF3,synonymous_variant,p.%3D,ENST00000347662,;	A	ENSG00000131323	ENST00000560371	Transcript	synonymous_variant	1300	1083	361	V	gtG/gtA	COSM1300408	.	.	1	TRAF3	HGNC	12033	protein_coding	YES	CCDS9975.1	ENSP00000454207	TRAF3_HUMAN	H0YMI8_HUMAN	UPI000000CBF9	.	.	.	10/11	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10131,hmmpanther:PTHR10131:SF72,PIRSF_domain:PIRSF015614	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCGTGACCGA	.	5	BLCA
KIF26A	0	.	GRCh37	14	104640516	104640516	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2062T>A	p.Ser688Thr	p.S688T	ENST00000423312	11/15	14	9	5	16	16	0	KIF26A,missense_variant,p.Ser549Thr,ENST00000315264,;KIF26A,missense_variant,p.Ser688Thr,ENST00000423312,;	A	ENSG00000066735	ENST00000423312	Transcript	missense_variant	2062	2062	688	S/T	Tcc/Acc	COSM1300420	.	.	1	KIF26A	HGNC	20226	protein_coding	YES	CCDS45171.1	ENSP00000388241	KI26A_HUMAN	C9JFF0_HUMAN	UPI00006C145D	.	deleterious(0.04)	benign(0.052)	11/15	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF407,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540,Prints_domain:PR00380	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGAATCCCTG	.	3	BLCA
AHNAK2	0	.	GRCh37	14	105409457	105409457	+	Missense_Mutation	SNP	C	C	T	rs768643650	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12331G>A	p.Asp4111Asn	p.D4111N	ENST00000333244	7/7	387	368	19	420	419	1	AHNAK2,missense_variant,p.Asp4111Asn,ENST00000333244,;AHNAK2,intron_variant,,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	T	ENSG00000185567	ENST00000333244	Transcript	missense_variant	12451	12331	4111	D/N	Gat/Aat	rs768643650,COSM1300435	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	possibly_damaging(0.77)	7/7	.	hmmpanther:PTHR23348:SF37,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCATCCAGCT	.	2	BLCA
IGHV3-30	0	.	GRCh37	14	106791041	106791041	+	Frame_Shift_Ins	INS	C	C	TA	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315delGinsTA	p.Arg106LysfsTer3	p.R106Kfs*3	ENST00000390613	2/2	614	548	66	604	604	0	IGHV3-30,frameshift_variant,p.Arg106LysfsTer3,ENST00000390613,;IGHV3-29,upstream_gene_variant,,ENST00000520707,;	TA	ENSG00000211953	ENST00000390613	Transcript	frameshift_variant	395	315	105	L/LX	ctG/ctTA	.	.	.	-1	IGHV3-30	HGNC	5591	IG_V_gene	YES	.	ENSP00000375022	.	.	UPI000011AAD3	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23266:SF91,hmmpanther:PTHR23266,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*	AGCTCTCAGGCT	.	4	BLCA
IGHV3-73	0	.	GRCh37	14	107211238	107211238	+	Silent	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51C>G	p.%3D	p.V17V	ENST00000390636	2/2	194	93	101	192	192	0	IGHV3-73,synonymous_variant,p.%3D,ENST00000390636,;	C	ENSG00000211976	ENST00000390636	Transcript	synonymous_variant	131	51	17	V	gtC/gtG	.	.	.	-1	IGHV3-73	HGNC	5623	IG_V_gene	YES	.	ENSP00000375045	.	.	UPI0000113A21	.	.	.	2/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23266,hmmpanther:PTHR23266:SF91,Gene3D:2.60.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTGGACACC	.	5	BLCA
RNASE13	0	.	GRCh37	14	21502251	21502251	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.197C>T	p.Ser66Leu	p.S66L	ENST00000382951	2/2	91	41	50	64	64	0	RNASE13,missense_variant,p.Ser66Leu,ENST00000382951,;NDRG2,intron_variant,,ENST00000555026,;NDRG2,intron_variant,,ENST00000403829,;TPPP2,intron_variant,,ENST00000472458,;TPPP2,intron_variant,,ENST00000555751,;TPPP2,intron_variant,,ENST00000481535,;TPPP2,downstream_gene_variant,,ENST00000530140,;TPPP2,downstream_gene_variant,,ENST00000321760,;TPPP2,downstream_gene_variant,,ENST00000460647,;RP11-998D10.1,downstream_gene_variant,,ENST00000531638,;AL161668.5,downstream_gene_variant,,ENST00000532213,;AL161668.5,downstream_gene_variant,,ENST00000533984,;TPPP2,intron_variant,,ENST00000529496,;TPPP2,intron_variant,,ENST00000495665,;TPPP2,downstream_gene_variant,,ENST00000533755,;TPPP2,downstream_gene_variant,,ENST00000532060,;TPPP2,downstream_gene_variant,,ENST00000534434,;TPPP2,downstream_gene_variant,,ENST00000525425,;	A	ENSG00000206150	ENST00000382951	Transcript	missense_variant	335	197	66	S/L	tCa/tTa	COSM1300477	.	.	-1	RNASE13	HGNC	25285	protein_coding	YES	CCDS32039.1	ENSP00000372410	RNS13_HUMAN	.	UPI00001FCFB5	.	tolerated(0.08)	benign(0.056)	2/2	.	hmmpanther:PTHR11437:SF11,hmmpanther:PTHR11437,Gene3D:3.10.130.10,Pfam_domain:PF00074,Superfamily_domains:SSF54076	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTGAATTT	.	5	BLCA
CHD8	0	.	GRCh37	14	21859165	21859165	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7123G>A	p.Glu2375Lys	p.E2375K	ENST00000399982	36/37	23	19	4	20	20	0	CHD8,missense_variant,p.Glu2375Lys,ENST00000557364,;CHD8,missense_variant,p.Glu152Lys,ENST00000553870,;CHD8,missense_variant,p.Glu2096Lys,ENST00000430710,;CHD8,missense_variant,p.Glu2375Lys,ENST00000399982,;SNORD9,downstream_gene_variant,,ENST00000362566,;CHD8,downstream_gene_variant,,ENST00000555962,;CHD8,downstream_gene_variant,,ENST00000557329,;CHD8,downstream_gene_variant,,ENST00000555301,;CHD8,upstream_gene_variant,,ENST00000557727,;	T	ENSG00000100888	ENST00000399982	Transcript	missense_variant	7188	7123	2375	E/K	Gaa/Aaa	.	.	.	-1	CHD8	HGNC	20153	protein_coding	YES	CCDS53885.1	ENSP00000382863	CHD8_HUMAN	.	UPI00002375B9	.	deleterious(0)	benign(0.008)	36/37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE	CAATTCTGCCT	.	3	BLCA
TRIM9	0	.	GRCh37	14	51561204	51561204	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454G>A	p.Glu152Lys	p.E152K	ENST00000298355	1/10	19	14	5	26	26	0	TRIM9,missense_variant,p.Glu152Lys,ENST00000298355,;TRIM9,missense_variant,p.Glu152Lys,ENST00000360392,;TRIM9,missense_variant,p.Glu152Lys,ENST00000338969,;RP11-1140I5.1,downstream_gene_variant,,ENST00000554475,;	T	ENSG00000100505	ENST00000298355	Transcript	missense_variant	1576	454	152	E/K	Gaa/Aaa	COSM1300653,COSM1300654	.	.	-1	TRIM9	HGNC	16288	protein_coding	YES	CCDS9703.1	ENSP00000298355	TRIM9_HUMAN	.	UPI000006D630	.	tolerated(0.09)	possibly_damaging(0.566)	1/10	.	hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF289,Gene3D:3.30.40.10,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCCAGTA	.	5	BLCA
DHRS7	0	.	GRCh37	14	60622822	60622822	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.182G>C	p.Gly61Ala	p.G61A	ENST00000216500	3/8	85	52	32	53	53	0	DHRS7,missense_variant,p.Gly61Ala,ENST00000557137,;DHRS7,missense_variant,p.Gly61Ala,ENST00000557185,;DHRS7,missense_variant,p.Gly11Ala,ENST00000536410,;DHRS7,missense_variant,p.Gly61Ala,ENST00000557326,;DHRS7,missense_variant,p.Gly61Ala,ENST00000216500,;DHRS7,missense_variant,p.Gly56Ala,ENST00000554101,;PCNXL4,intron_variant,,ENST00000406949,;DHRS7,upstream_gene_variant,,ENST00000557751,;PCNXL4,intron_variant,,ENST00000553898,;DHRS7,upstream_gene_variant,,ENST00000553986,;DHRS7,non_coding_transcript_exon_variant,,ENST00000555171,;DHRS7,non_coding_transcript_exon_variant,,ENST00000556502,;SCOCP1,upstream_gene_variant,,ENST00000554676,;	G	ENSG00000100612	ENST00000216500	Transcript	missense_variant	638	182	61	G/A	gGa/gCa	COSM1300715	.	.	-1	DHRS7	HGNC	21524	protein_coding	YES	CCDS9743.1	ENSP00000216500	DHRS7_HUMAN	G3V5J0_HUMAN	UPI000004C78C	.	deleterious(0.01)	probably_damaging(0.996)	3/8	.	Prints_domain:PR00081,Superfamily_domains:SSF51735,PIRSF_domain:PIRSF000126,Pfam_domain:PF00106,Gene3D:3.40.50.720,hmmpanther:PTHR24322,hmmpanther:PTHR24322:SF31	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCCACTC	.	5	BLCA
PCNX	0	.	GRCh37	14	71445358	71445358	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2304C>T	p.%3D	p.V768V	ENST00000304743	6/36	99	57	42	125	125	0	PCNX,synonymous_variant,p.%3D,ENST00000238570,;PCNX,synonymous_variant,p.%3D,ENST00000439984,;PCNX,synonymous_variant,p.%3D,ENST00000304743,;PCNX,downstream_gene_variant,,ENST00000553428,;PCNX,downstream_gene_variant,,ENST00000553272,;PCNX,non_coding_transcript_exon_variant,,ENST00000556846,;PCNX,non_coding_transcript_exon_variant,,ENST00000554879,;	T	ENSG00000100731	ENST00000304743	Transcript	synonymous_variant	2750	2304	768	V	gtC/gtT	COSM1300795	.	.	1	PCNX	HGNC	19740	protein_coding	YES	CCDS9806.1	ENSP00000304192	PCX1_HUMAN	Q05BT4_HUMAN	UPI000013E9BB	.	.	.	6/36	.	hmmpanther:PTHR12372:SF2,hmmpanther:PTHR12372	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTCAGTGG	.	5	BLCA
NRDE2	0	.	GRCh37	14	90778760	90778760	+	Missense_Mutation	SNP	G	G	C	rs767093845	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535C>G	p.Leu179Val	p.L179V	ENST00000354366	4/14	139	101	37	97	97	0	NRDE2,missense_variant,p.Leu179Val,ENST00000354366,;NRDE2,5_prime_UTR_variant,,ENST00000357904,;NRDE2,downstream_gene_variant,,ENST00000557106,;NRDE2,missense_variant,p.Leu35Val,ENST00000556189,;NRDE2,3_prime_UTR_variant,,ENST00000553409,;	C	ENSG00000119720	ENST00000354366	Transcript	missense_variant	768	535	179	L/V	Ctc/Gtc	rs767093845,COSM1300889	.	.	-1	NRDE2	HGNC	20186	protein_coding	YES	CCDS9890.1	ENSP00000346335	NRDE2_HUMAN	Q658X2_HUMAN,E9PBK4_HUMAN	UPI00001FD9DB	.	deleterious(0)	probably_damaging(0.925)	4/14	.	hmmpanther:PTHR13471	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAGAGAGACT	.	5	BLCA
GSKIP	0	.	GRCh37	14	96852000	96852000	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399G>C	p.Leu133Phe	p.L133F	ENST00000556095	4/4	147	71	76	121	121	0	GSKIP,missense_variant,p.Leu133Phe,ENST00000438650,;GSKIP,missense_variant,p.Leu133Phe,ENST00000556095,;GSKIP,missense_variant,p.Leu133Phe,ENST00000554182,;GSKIP,missense_variant,p.Leu133Phe,ENST00000555181,;GSKIP,downstream_gene_variant,,ENST00000553699,;GSKIP,downstream_gene_variant,,ENST00000555757,;RNU2-33P,downstream_gene_variant,,ENST00000410344,;	C	ENSG00000100744	ENST00000556095	Transcript	missense_variant	2211	399	133	L/F	ttG/ttC	COSM1300941	.	.	1	GSKIP	HGNC	20343	protein_coding	YES	CCDS32153.1	ENSP00000451188	GSKIP_HUMAN	G3V4I5_HUMAN,G3V368_HUMAN	UPI0000034E26	.	tolerated(0.08)	probably_damaging(0.998)	4/4	.	hmmpanther:PTHR12490,Pfam_domain:PF05303,Superfamily_domains:0049393	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTGAAAAG	.	5	BLCA
ATP10A	0	.	GRCh37	15	25959383	25959383	+	Silent	SNP	C	C	T	rs572968049	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1782G>A	p.%3D	p.R594R	ENST00000356865	10/21	52	30	22	42	42	0	ATP10A,synonymous_variant,p.%3D,ENST00000356865,;ATP10A,missense_variant,p.Arg594Lys,ENST00000555815,;	T	ENSG00000206190	ENST00000356865	Transcript	synonymous_variant	1894	1782	594	R	agG/agA	rs572968049,COSM1300998	.	.	-1	ATP10A	HGNC	13542	protein_coding	YES	CCDS32178.1	ENSP00000349325	AT10A_HUMAN	.	UPI0000124FAB	.	.	.	10/21	.	hmmpanther:PTHR24092,hmmpanther:PTHR24092:SF43,Pfam_domain:PF12710,TIGRFAM_domain:TIGR01652	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCACCCTCAC	byCluster	5	BLCA
DUT	0	.	GRCh37	15	48624423	48624423	+	Intron	SNP	C	C	T	rs752334505	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.281-42C>T	.	.	ENST00000331200	.	39	23	16	18	18	0	DUT,5_prime_UTR_variant,,ENST00000455976,;DUT,5_prime_UTR_variant,,ENST00000559540,;DUT,intron_variant,,ENST00000558813,;DUT,intron_variant,,ENST00000559935,;DUT,intron_variant,,ENST00000331200,;DUT,intron_variant,,ENST00000558472,;DUT,intron_variant,,ENST00000559416,;DUT,upstream_gene_variant,,ENST00000558367,;RP11-154J22.1,upstream_gene_variant,,ENST00000559134,;RP11-154J22.1,upstream_gene_variant,,ENST00000560323,;DUT,upstream_gene_variant,,ENST00000561350,;DUT,intron_variant,,ENST00000558978,;	T	ENSG00000128951	ENST00000331200	Transcript	intron_variant	.	.	.	.	.	rs752334505	.	.	1	DUT	HGNC	3078	protein_coding	YES	CCDS32231.1	ENSP00000370376	DUT_HUMAN	.	UPI000035ECE0	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGTCTCCTC	.	5	BLCA
WDR72	0	.	GRCh37	15	54003115	54003115	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.893G>A	p.Arg298Lys	p.R298K	ENST00000396328	9/20	64	34	30	36	36	0	WDR72,missense_variant,p.Arg298Lys,ENST00000560036,;WDR72,missense_variant,p.Arg310Lys,ENST00000559418,;WDR72,missense_variant,p.Arg297Lys,ENST00000557913,;WDR72,missense_variant,p.Arg298Lys,ENST00000396328,;WDR72,missense_variant,p.Arg298Lys,ENST00000360509,;	T	ENSG00000166415	ENST00000396328	Transcript	missense_variant	1133	893	298	R/K	aGa/aAa	COSM3816349,COSM1301232	.	.	-1	WDR72	HGNC	26790	protein_coding	YES	CCDS10151.1	ENSP00000379619	WDR72_HUMAN	H0YN02_HUMAN	UPI00001D777D	.	tolerated(1)	benign(0.002)	9/20	.	Superfamily_domains:SSF50978,Gene3D:2.130.10.10,hmmpanther:PTHR12816:SF18,hmmpanther:PTHR12816	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCTTCCA	.	5	BLCA
CLEC16A	0	.	GRCh37	16	11076791	11076791	+	Silent	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1014G>T	p.%3D	p.L338L	ENST00000409790	10/24	63	51	12	50	50	0	CLEC16A,synonymous_variant,p.%3D,ENST00000409790,;CLEC16A,synonymous_variant,p.%3D,ENST00000409552,;CLEC16A,non_coding_transcript_exon_variant,,ENST00000494853,;	T	ENSG00000038532	ENST00000409790	Transcript	synonymous_variant	1244	1014	338	L	ctG/ctT	COSM1301618	.	.	1	CLEC16A	HGNC	29013	protein_coding	YES	CCDS45409.1	ENSP00000387122	CL16A_HUMAN	.	UPI0000253BAD	.	.	.	10/24	.	hmmpanther:PTHR21481	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGAATGG	.	5	BLCA
ABCC1	0	.	GRCh37	16	16180769	16180769	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2381C>T	p.Pro794Leu	p.P794L	ENST00000399410	18/31	87	68	19	90	90	0	ABCC1,missense_variant,p.Pro794Leu,ENST00000399408,;ABCC1,missense_variant,p.Pro794Leu,ENST00000345148,;ABCC1,missense_variant,p.Pro735Leu,ENST00000351154,;ABCC1,missense_variant,p.Pro693Leu,ENST00000572882,;ABCC1,missense_variant,p.Pro794Leu,ENST00000399410,;ABCC1,intron_variant,,ENST00000349029,;ABCC1,intron_variant,,ENST00000346370,;ABCC1,non_coding_transcript_exon_variant,,ENST00000575422,;	T	ENSG00000103222	ENST00000399410	Transcript	missense_variant	2556	2381	794	P/L	cCc/cTc	COSM1301658	.	.	1	ABCC1	HGNC	51	protein_coding	YES	CCDS42122.1	ENSP00000382342	MRP1_HUMAN	Q9BV39_HUMAN	UPI00001FEEFC	.	deleterious(0)	probably_damaging(1)	18/31	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24223:SF203,hmmpanther:PTHR24223,TIGRFAM_domain:TIGR00957,Pfam_domain:PF00005,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATCCCCTCT	.	5	BLCA
UMOD	0	.	GRCh37	16	20344666	20344666	+	Silent	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1893C>A	p.%3D	p.L631L	ENST00000570689	11/11	42	34	7	34	34	0	UMOD,synonymous_variant,p.%3D,ENST00000570689,;UMOD,synonymous_variant,p.%3D,ENST00000396142,;UMOD,synonymous_variant,p.%3D,ENST00000396134,;UMOD,synonymous_variant,p.%3D,ENST00000302509,;UMOD,synonymous_variant,p.%3D,ENST00000424589,;UMOD,synonymous_variant,p.%3D,ENST00000396138,;UMOD,non_coding_transcript_exon_variant,,ENST00000570331,;	T	ENSG00000169344	ENST00000570689	Transcript	synonymous_variant	2040	1893	631	L	ctC/ctA	COSM1301696	.	.	-1	UMOD	HGNC	12559	protein_coding	YES	CCDS10583.1	ENSP00000460548	UROM_HUMAN	Q8NHW8_HUMAN,I3L4Y6_HUMAN,I3L4B0_HUMAN,I3L2J2_HUMAN,I3L1M3_HUMAN,I3L1A9_HUMAN,B3KXM9_HUMAN	UPI0000137E1A	.	.	.	11/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22962,hmmpanther:PTHR22962:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGAGAGAAG	.	5	BLCA
RRN3P3	0	.	GRCh37	16	22441186	22441186	+	RNA	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1220G>A	.	.	ENST00000551766	5/7	81	62	18	97	97	0	CDR2,5_prime_UTR_variant,,ENST00000563573,;CDR2,5_prime_UTR_variant,,ENST00000564542,;CDR2,non_coding_transcript_exon_variant,,ENST00000569045,;RRN3P3,non_coding_transcript_exon_variant,,ENST00000551766,;RRN3P3,non_coding_transcript_exon_variant,,ENST00000549207,;	T	ENSG00000257122	ENST00000551766	Transcript	non_coding_transcript_exon_variant	1220	.	.	.	.	.	.	.	-1	RRN3P3	HGNC	37620	processed_transcript	YES	.	.	.	.	.	.	.	.	5/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCCTCCA	.	5	BLCA
FLYWCH2	0	.	GRCh37	16	2946429	2946429	+	5'UTR	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-22G>C	.	.	ENST00000396958	3/4	12	8	4	19	19	0	FLYWCH2,5_prime_UTR_variant,,ENST00000573965,;FLYWCH2,5_prime_UTR_variant,,ENST00000572006,;FLYWCH2,5_prime_UTR_variant,,ENST00000293981,;FLYWCH2,5_prime_UTR_variant,,ENST00000396958,;FLYWCH2,upstream_gene_variant,,ENST00000572786,;	C	ENSG00000162076	ENST00000396958	Transcript	5_prime_UTR_variant	359	.	.	.	.	.	.	.	1	FLYWCH2	HGNC	25178	protein_coding	YES	CCDS10482.1	ENSP00000380159	FWCH2_HUMAN	I3L4I0_HUMAN	UPI000006F797	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTGAGGGACA	.	3	BLCA
MEFV	0	.	GRCh37	16	3294272	3294272	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1741G>A	p.Glu581Lys	p.E581K	ENST00000219596	8/10	63	35	27	44	44	0	MEFV,missense_variant,p.Glu581Lys,ENST00000219596,;MEFV,missense_variant,p.Glu370Lys,ENST00000536379,;MEFV,missense_variant,p.Glu401Lys,ENST00000339854,;MEFV,missense_variant,p.Glu370Lys,ENST00000541159,;MEFV,missense_variant,p.Glu370Lys,ENST00000536980,;MEFV,missense_variant,p.Glu612Lys,ENST00000542898,;MEFV,missense_variant,p.Glu581Lys,ENST00000537682,;MEFV,3_prime_UTR_variant,,ENST00000538326,;MEFV,3_prime_UTR_variant,,ENST00000576315,;MEFV,3_prime_UTR_variant,,ENST00000572244,;MEFV,3_prime_UTR_variant,,ENST00000539145,;MEFV,intron_variant,,ENST00000570511,;MEFV,intron_variant,,ENST00000574583,;MEFV,downstream_gene_variant,,ENST00000539154,;	T	ENSG00000103313	ENST00000219596	Transcript	missense_variant	1781	1741	581	E/K	Gaa/Aaa	COSM1301941,COSM1301942	.	.	-1	MEFV	HGNC	6998	protein_coding	YES	CCDS10498.1	ENSP00000219596	MEFV_HUMAN	.	UPI000004C0CA	.	deleterious(0.03)	probably_damaging(0.931)	8/10	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF264,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTGAAC	.	5	BLCA
CDH1	0	.	GRCh37	16	68863653	68863653	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2392C>G	p.Leu798Val	p.L798V	ENST00000261769	15/16	125	100	24	89	89	0	CDH1,missense_variant,p.Leu737Val,ENST00000422392,;CDH1,missense_variant,p.Leu798Val,ENST00000261769,;CDH1,non_coding_transcript_exon_variant,,ENST00000562836,;CDH1,3_prime_UTR_variant,,ENST00000566612,;CDH1,3_prime_UTR_variant,,ENST00000566510,;CDH1,non_coding_transcript_exon_variant,,ENST00000562118,;	G	ENSG00000039068	ENST00000261769	Transcript	missense_variant	2583	2392	798	L/V	Ctt/Gtt	COSM1302179	.	.	1	CDH1	HGNC	1748	protein_coding	YES	CCDS10869.1	ENSP00000261769	CADH1_HUMAN	B3GN61_HUMAN	UPI00000341EF	.	deleterious(0.01)	benign(0.369)	15/16	.	hmmpanther:PTHR24027:SF252,hmmpanther:PTHR24027,Gene3D:4.10.900.10,Pfam_domain:PF01049	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATCTTCCC	.	5	BLCA
MPHOSPH6	0	.	GRCh37	16	82183009	82183009	+	Splice_Site	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256-1G>T	.	p.X86_splice	ENST00000258169	.	73	37	36	106	106	0	MPHOSPH6,splice_acceptor_variant,,ENST00000258169,;MPHOSPH6,splice_acceptor_variant,,ENST00000563504,;MPHOSPH6,splice_acceptor_variant,,ENST00000568016,;MPHOSPH6,splice_acceptor_variant,,ENST00000563100,;MPHOSPH6,downstream_gene_variant,,ENST00000566748,;MPHOSPH6,downstream_gene_variant,,ENST00000569599,;	A	ENSG00000135698	ENST00000258169	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1302293	.	.	-1	MPHOSPH6	HGNC	7214	protein_coding	YES	CCDS10937.1	ENSP00000258169	MPH6_HUMAN	H3BNT4_HUMAN,H3BNK8_HUMAN	UPI00001AE7AB	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTCTGAAA	.	5	BLCA
KLHDC4	0	.	GRCh37	16	87760397	87760397	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733G>A	p.Val245Ile	p.V245I	ENST00000270583	7/12	58	39	18	60	60	0	KLHDC4,missense_variant,p.Val245Ile,ENST00000270583,;KLHDC4,missense_variant,p.Val214Ile,ENST00000347925,;KLHDC4,missense_variant,p.Val188Ile,ENST00000353170,;KLHDC4,missense_variant,p.Val155Ile,ENST00000562261,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000316853,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000567513,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000566349,;KLHDC4,downstream_gene_variant,,ENST00000565328,;KLHDC4,downstream_gene_variant,,ENST00000564484,;KLHDC4,missense_variant,p.Val245Ile,ENST00000567298,;KLHDC4,3_prime_UTR_variant,,ENST00000562155,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000562913,;KLHDC4,non_coding_transcript_exon_variant,,ENST00000566661,;KLHDC4,downstream_gene_variant,,ENST00000562872,;KLHDC4,downstream_gene_variant,,ENST00000564396,;KLHDC4,downstream_gene_variant,,ENST00000569747,;	T	ENSG00000104731	ENST00000270583	Transcript	missense_variant	792	733	245	V/I	Gtc/Atc	COSM1302327	.	.	-1	KLHDC4	HGNC	25272	protein_coding	YES	CCDS10963.1	ENSP00000270583	KLDC4_HUMAN	.	UPI00000705D4	.	tolerated(0.76)	benign(0.009)	7/12	.	hmmpanther:PTHR23244:SF283,hmmpanther:PTHR23244,Pfam_domain:PF07646,Gene3D:1zgkA00,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGACGATGC	.	5	BLCA
ANKRD11	0	.	GRCh37	16	89351818	89351818	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1132A>G	p.Asn378Asp	p.N378D	ENST00000301030	9/13	91	59	31	129	129	0	ANKRD11,missense_variant,p.Asn378Asp,ENST00000378330,;ANKRD11,missense_variant,p.Asn378Asp,ENST00000301030,;ANKRD11,intron_variant,,ENST00000562194,;ANKRD11,3_prime_UTR_variant,,ENST00000330736,;ANKRD11,non_coding_transcript_exon_variant,,ENST00000568100,;ANKRD11,downstream_gene_variant,,ENST00000562275,;ANKRD11,downstream_gene_variant,,ENST00000378332,;	C	ENSG00000167522	ENST00000301030	Transcript	missense_variant	1593	1132	378	N/D	Aat/Gat	COSM1302355	.	.	-1	ANKRD11	HGNC	21316	protein_coding	YES	CCDS32513.1	ENSP00000301030	ANR11_HUMAN	.	UPI00004569E1	.	.	benign(0)	9/13	.	hmmpanther:PTHR24145	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATTGGATT	.	5	BLCA
WDR81	0	.	GRCh37	17	1631646	1631647	+	Frame_Shift_Del	DEL	CG	CG	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	CG	CG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3393_3394delCGinsT	p.Val1132TrpfsTer15	p.V1132Wfs*15	ENST00000409644	1/10	108	78	30	92	92	0	WDR81,frameshift_variant,p.Val49TrpfsTer15,ENST00000575206,;WDR81,frameshift_variant,p.Val81TrpfsTer15,ENST00000309182,;WDR81,frameshift_variant,p.Val1132TrpfsTer15,ENST00000409644,;WDR81,intron_variant,,ENST00000468539,;WDR81,intron_variant,,ENST00000419248,;WDR81,intron_variant,,ENST00000446363,;WDR81,intron_variant,,ENST00000455636,;WDR81,intron_variant,,ENST00000437219,;WDR81,intron_variant,,ENST00000418841,;WDR81,upstream_gene_variant,,ENST00000545662,;RP11-961A15.1,intron_variant,,ENST00000576540,;WDR81,non_coding_transcript_exon_variant,,ENST00000464528,;WDR81,intron_variant,,ENST00000492901,;WDR81,upstream_gene_variant,,ENST00000495411,;WDR81,upstream_gene_variant,,ENST00000479966,;WDR81,upstream_gene_variant,,ENST00000474958,;	T	ENSG00000167716	ENST00000409644	Transcript	frameshift_variant	3393-3394	3393-3394	1131-1132	PV/PX	ccCGtg/ccTtg	.	.	.	1	WDR81	HGNC	26600	protein_coding	YES	CCDS54062.1	ENSP00000386609	WDR81_HUMAN	E9PDG3_HUMAN,C9JD20_HUMAN	UPI0001881A85	.	.	.	1/10	.	hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	TGCCCCCGTGGAC	.	5	BLCA
KRT16P2	0	.	GRCh37	17	16735627	16735627	+	RNA	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.521G>A	.	.	ENST00000399048	1/5	198	161	37	305	305	0	KRT16P2,non_coding_transcript_exon_variant,,ENST00000579062,;KRT16P2,non_coding_transcript_exon_variant,,ENST00000399048,;KRT16P2,non_coding_transcript_exon_variant,,ENST00000414673,;	T	ENSG00000227300	ENST00000399048	Transcript	non_coding_transcript_exon_variant	521	.	.	.	.	COSM1302456	.	.	-1	KRT16P2	HGNC	37807	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCACTTCCA	.	4	BLCA
SERPINF1	0	.	GRCh37	17	1675193	1675193	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.467C>T	p.Ala156Val	p.A156V	ENST00000254722	5/8	36	22	14	35	35	0	SERPINF1,missense_variant,p.Ala156Val,ENST00000254722,;SERPINF1,5_prime_UTR_variant,,ENST00000572048,;SERPINF1,5_prime_UTR_variant,,ENST00000576406,;SERPINF1,5_prime_UTR_variant,,ENST00000573763,;SERPINF1,downstream_gene_variant,,ENST00000571149,;SERPINF1,downstream_gene_variant,,ENST00000571360,;SERPINF1,downstream_gene_variant,,ENST00000570731,;SERPINF1,downstream_gene_variant,,ENST00000577053,;SERPINF1,non_coding_transcript_exon_variant,,ENST00000571870,;SERPINF1,3_prime_UTR_variant,,ENST00000573770,;SERPINF1,non_coding_transcript_exon_variant,,ENST00000570820,;SERPINF1,upstream_gene_variant,,ENST00000572517,;	T	ENSG00000132386	ENST00000254722	Transcript	missense_variant	630	467	156	A/V	gCa/gTa	.	.	.	1	SERPINF1	HGNC	8824	protein_coding	YES	CCDS11012.1	ENSP00000254722	PEDF_HUMAN	I3L4F9_HUMAN,I3L425_HUMAN,I3L3Z3_HUMAN,I3L2R7_HUMAN,I3L107_HUMAN	UPI000013CE56	.	tolerated(0.16)	benign(0.158)	5/8	.	hmmpanther:PTHR11461:SF84,hmmpanther:PTHR11461,Pfam_domain:PF00079,Gene3D:3.30.497.10,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGGCACCTC	.	5	BLCA
FAM83G	0	.	GRCh37	17	18907093	18907093	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262C>T	p.Gln88Ter	p.Q88*	ENST00000388995	2/6	8	4	4	10	10	0	FAM83G,stop_gained,p.Gln88Ter,ENST00000585154,;FAM83G,stop_gained,p.Gln88Ter,ENST00000388995,;FAM83G,stop_gained,p.Gln88Ter,ENST00000345041,;SLC5A10,intron_variant,,ENST00000417251,;SLC5A10,intron_variant,,ENST00000395647,;SLC5A10,intron_variant,,ENST00000395643,;SLC5A10,intron_variant,,ENST00000395642,;SLC5A10,intron_variant,,ENST00000395645,;SLC5A10,intron_variant,,ENST00000317977,;FAM83G,non_coding_transcript_exon_variant,,ENST00000399096,;	A	ENSG00000188522	ENST00000388995	Transcript	stop_gained	486	262	88	Q/*	Cag/Tag	COSM1302480	.	.	-1	FAM83G	HGNC	32554	protein_coding	YES	CCDS42276.1	ENSP00000373647	FA83G_HUMAN	.	UPI0000E03260	.	.	.	2/6	.	hmmpanther:PTHR16181:SF5,hmmpanther:PTHR16181,Pfam_domain:PF07894	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTGAGAGG	.	2	BLCA
PIGS	0	.	GRCh37	17	26890869	26890869	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.343G>A	p.Glu115Lys	p.E115K	ENST00000308360	4/12	220	167	53	227	227	0	PIGS,missense_variant,p.Glu107Lys,ENST00000395346,;PIGS,missense_variant,p.Glu115Lys,ENST00000308360,;PIGS,missense_variant,p.Glu54Lys,ENST00000543734,;PIGS,non_coding_transcript_exon_variant,,ENST00000584413,;PIGS,upstream_gene_variant,,ENST00000465444,;PIGS,upstream_gene_variant,,ENST00000580968,;PIGS,3_prime_UTR_variant,,ENST00000582721,;PIGS,3_prime_UTR_variant,,ENST00000268758,;PIGS,3_prime_UTR_variant,,ENST00000584080,;PIGS,non_coding_transcript_exon_variant,,ENST00000577594,;PIGS,non_coding_transcript_exon_variant,,ENST00000583631,;RP11-192H23.4,intron_variant,,ENST00000481916,;PIGS,upstream_gene_variant,,ENST00000577620,;PIGS,upstream_gene_variant,,ENST00000484580,;PIGS,upstream_gene_variant,,ENST00000582615,;	T	ENSG00000087111	ENST00000308360	Transcript	missense_variant	719	343	115	E/K	Gag/Aag	COSM1302542	.	.	-1	PIGS	HGNC	14937	protein_coding	YES	CCDS11235.1	ENSP00000309430	PIGS_HUMAN	Q9BVC1_HUMAN,Q96IR5_HUMAN,F5H019_HUMAN	UPI000013D7D9	.	deleterious(0.03)	possibly_damaging(0.558)	4/12	.	Pfam_domain:PF10510,hmmpanther:PTHR21072	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCATGGT	.	5	BLCA
ANKRD13B	0	.	GRCh37	17	27935029	27935029	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276G>A	p.%3D	p.R92R	ENST00000394859	3/15	43	31	12	73	73	0	ANKRD13B,synonymous_variant,p.%3D,ENST00000394859,;ANKRD13B,5_prime_UTR_variant,,ENST00000583728,;ANKRD13B,upstream_gene_variant,,ENST00000579719,;RP11-68I3.2,intron_variant,,ENST00000581474,;ANKRD13B,synonymous_variant,p.%3D,ENST00000488766,;ANKRD13B,non_coding_transcript_exon_variant,,ENST00000578811,;ANKRD13B,intron_variant,,ENST00000487527,;ANKRD13B,intron_variant,,ENST00000493506,;ANKRD13B,upstream_gene_variant,,ENST00000578943,;	A	ENSG00000198720	ENST00000394859	Transcript	synonymous_variant	430	276	92	R	cgG/cgA	COSM1302587	.	.	1	ANKRD13B	HGNC	26363	protein_coding	YES	CCDS11251.1	ENSP00000378328	AN13B_HUMAN	K7ENT0_HUMAN	UPI0000246D82	.	.	.	3/15	.	PROSITE_profiles:PS50297,hmmpanther:PTHR12447:SF3,hmmpanther:PTHR12447,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCGGGACCT	.	5	BLCA
ATAD5	0	.	GRCh37	17	29162311	29162311	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1212G>A	p.Met404Ile	p.M404I	ENST00000321990	2/23	61	49	12	85	85	0	ATAD5,missense_variant,p.Met404Ile,ENST00000321990,;CTD-2349P21.11,intron_variant,,ENST00000580873,;ATAD5,missense_variant,p.Met404Ile,ENST00000578295,;ATAD5,non_coding_transcript_exon_variant,,ENST00000585133,;CTD-2349P21.1,downstream_gene_variant,,ENST00000490847,;	A	ENSG00000176208	ENST00000321990	Transcript	missense_variant	1590	1212	404	M/I	atG/atA	COSM1749943,COSM1302606	.	.	1	ATAD5	HGNC	25752	protein_coding	YES	CCDS11260.1	ENSP00000313171	ATAD5_HUMAN	.	UPI0000071E9E	.	deleterious(0)	benign(0.371)	2/23	.	hmmpanther:PTHR15828:SF1,hmmpanther:PTHR15828	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATGAAAGC	.	5	BLCA
ATAD5	0	.	GRCh37	17	29162605	29162605	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1506G>C	p.Lys502Asn	p.K502N	ENST00000321990	2/23	50	37	12	71	71	0	ATAD5,missense_variant,p.Lys502Asn,ENST00000321990,;CTD-2349P21.11,intron_variant,,ENST00000580873,;ATAD5,missense_variant,p.Lys502Asn,ENST00000578295,;ATAD5,non_coding_transcript_exon_variant,,ENST00000585133,;CTD-2349P21.1,downstream_gene_variant,,ENST00000490847,;	C	ENSG00000176208	ENST00000321990	Transcript	missense_variant	1884	1506	502	K/N	aaG/aaC	COSM1302607	.	.	1	ATAD5	HGNC	25752	protein_coding	YES	CCDS11260.1	ENSP00000313171	ATAD5_HUMAN	.	UPI0000071E9E	.	tolerated(0.06)	benign(0.046)	2/23	.	hmmpanther:PTHR15828:SF1,hmmpanther:PTHR15828	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAAGAAAGA	.	5	BLCA
ATAD5	0	.	GRCh37	17	29162843	29162843	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1744G>A	p.Glu582Lys	p.E582K	ENST00000321990	2/23	79	63	16	76	76	0	ATAD5,missense_variant,p.Glu582Lys,ENST00000321990,;CTD-2349P21.11,intron_variant,,ENST00000580873,;ATAD5,missense_variant,p.Glu582Lys,ENST00000578295,;ATAD5,non_coding_transcript_exon_variant,,ENST00000585133,;CTD-2349P21.1,downstream_gene_variant,,ENST00000490847,;	A	ENSG00000176208	ENST00000321990	Transcript	missense_variant	2122	1744	582	E/K	Gaa/Aaa	COSM1302608	.	.	1	ATAD5	HGNC	25752	protein_coding	YES	CCDS11260.1	ENSP00000313171	ATAD5_HUMAN	.	UPI0000071E9E	.	tolerated(0.09)	benign(0.018)	2/23	.	hmmpanther:PTHR15828:SF1,hmmpanther:PTHR15828	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTGAAGCC	.	5	BLCA
NF1	0	.	GRCh37	17	29533336	29533336	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1339C>T	p.Leu447Phe	p.L447F	ENST00000358273	12/58	147	101	45	161	161	0	NF1,missense_variant,p.Leu113Phe,ENST00000456735,;NF1,missense_variant,p.Leu447Phe,ENST00000431387,;NF1,missense_variant,p.Leu447Phe,ENST00000358273,;NF1,missense_variant,p.Leu447Phe,ENST00000356175,;NF1,missense_variant,p.Leu481Phe,ENST00000579081,;NF1,3_prime_UTR_variant,,ENST00000495910,;NF1,non_coding_transcript_exon_variant,,ENST00000487476,;	T	ENSG00000196712	ENST00000358273	Transcript	missense_variant	1722	1339	447	L/F	Ctt/Ttt	COSM1302612,COSM1302611	.	.	1	NF1	HGNC	7765	protein_coding	YES	CCDS42292.1	ENSP00000351015	NF1_HUMAN	Q9UMU3_HUMAN,Q4W6X4_HUMAN,K7EP94_HUMAN	UPI000012FFAE	.	deleterious(0.01)	possibly_damaging(0.543)	12/58	.	hmmpanther:PTHR10194:SF60,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACACTTCAT	.	5	BLCA
NF1	0	.	GRCh37	17	29557904	29557904	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3158C>G	p.Ser1053Ter	p.S1053*	ENST00000358273	24/58	29	24	5	42	42	0	NF1,stop_gained,p.Ser1053Ter,ENST00000358273,;NF1,stop_gained,p.Ser719Ter,ENST00000456735,;NF1,stop_gained,p.Ser1053Ter,ENST00000356175,;NF1,stop_gained,p.Ser1087Ter,ENST00000579081,;NF1,3_prime_UTR_variant,,ENST00000495910,;NF1,non_coding_transcript_exon_variant,,ENST00000493220,;NF1,upstream_gene_variant,,ENST00000466819,;NF1,upstream_gene_variant,,ENST00000479614,;	G	ENSG00000196712	ENST00000358273	Transcript	stop_gained	3541	3158	1053	S/*	tCa/tGa	COSM1302617,COSM327926,COSM1302616	.	.	1	NF1	HGNC	7765	protein_coding	YES	CCDS42292.1	ENSP00000351015	NF1_HUMAN	Q9UMU3_HUMAN,Q4W6X4_HUMAN,K7EP94_HUMAN	UPI000012FFAE	.	.	.	24/58	.	hmmpanther:PTHR10194:SF60,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCAAACC	.	5	BLCA
SPACA3	0	.	GRCh37	17	31322626	31322626	+	Silent	SNP	C	C	T	rs777105777	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234C>T	p.%3D	p.L78L	ENST00000269053	2/5	73	54	18	56	56	0	SPACA3,synonymous_variant,p.%3D,ENST00000269053,;SPACA3,synonymous_variant,p.%3D,ENST00000580599,;SPACA3,intron_variant,,ENST00000394638,;SPACA3,non_coding_transcript_exon_variant,,ENST00000485015,;SPACA3,non_coding_transcript_exon_variant,,ENST00000394637,;	T	ENSG00000141316	ENST00000269053	Transcript	synonymous_variant	304	234	78	L	ctC/ctT	rs777105777,COSM1302639	.	.	1	SPACA3	HGNC	16260	protein_coding	YES	CCDS11275.1	ENSP00000269053	SACA3_HUMAN	.	UPI00000361ED	.	.	.	2/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11407:SF25,hmmpanther:PTHR11407	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAGCTG	.	5	BLCA
SPATA22	0	.	GRCh37	17	3352316	3352316	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457C>G	p.Gln153Glu	p.Q153E	ENST00000573128	6/9	133	93	39	177	177	0	SPATA22,missense_variant,p.Gln82Glu,ENST00000574797,;SPATA22,missense_variant,p.Gln153Glu,ENST00000573128,;SPATA22,missense_variant,p.Gln82Glu,ENST00000571553,;SPATA22,missense_variant,p.Gln137Glu,ENST00000541913,;SPATA22,missense_variant,p.Gln153Glu,ENST00000572582,;SPATA22,missense_variant,p.Gln82Glu,ENST00000571607,;SPATA22,missense_variant,p.Gln153Glu,ENST00000572969,;SPATA22,missense_variant,p.Gln153Glu,ENST00000575375,;SPATA22,missense_variant,p.Gln140Glu,ENST00000574051,;SPATA22,missense_variant,p.Gln153Glu,ENST00000268981,;SPATA22,missense_variant,p.Gln153Glu,ENST00000397168,;SPATA22,missense_variant,p.Gln110Glu,ENST00000355380,;	C	ENSG00000141255	ENST00000573128	Transcript	missense_variant	941	457	153	Q/E	Caa/Gaa	COSM1302657	.	.	-1	SPATA22	HGNC	30705	protein_coding	YES	CCDS11027.1	ENSP00000459580	SPT22_HUMAN	I3L517_HUMAN,I3L4D7_HUMAN,I3L2B9_HUMAN,I3L1L5_HUMAN	UPI0000140D16	.	deleterious(0.04)	possibly_damaging(0.694)	6/9	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGTTGAGCTC	.	3	BLCA
TUBG1	0	.	GRCh37	17	40762134	40762134	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58G>C	p.Glu20Gln	p.E20Q	ENST00000251413	2/11	99	66	33	113	113	0	TUBG1,missense_variant,p.Glu20Gln,ENST00000251413,;TUBG1,missense_variant,p.Glu20Gln,ENST00000591509,;FAM134C,intron_variant,,ENST00000591547,;FAM134C,intron_variant,,ENST00000585894,;FAM134C,intron_variant,,ENST00000588423,;FAM134C,upstream_gene_variant,,ENST00000309428,;FAM134C,upstream_gene_variant,,ENST00000543197,;TUBG1,missense_variant,p.Glu20Gln,ENST00000589688,;TUBG1,non_coding_transcript_exon_variant,,ENST00000588056,;TUBG1,intron_variant,,ENST00000589613,;FAM134C,upstream_gene_variant,,ENST00000585726,;FAM134C,upstream_gene_variant,,ENST00000589797,;FAM134C,upstream_gene_variant,,ENST00000586796,;FAM134C,upstream_gene_variant,,ENST00000586870,;FAM134C,upstream_gene_variant,,ENST00000590541,;FAM134C,upstream_gene_variant,,ENST00000593251,;	C	ENSG00000131462	ENST00000251413	Transcript	missense_variant	120	58	20	E/Q	Gag/Cag	COSM1302850	.	.	1	TUBG1	HGNC	12417	protein_coding	YES	CCDS11433.1	ENSP00000251413	TBG1_HUMAN	.	UPI0000136A56	.	tolerated(0.34)	possibly_damaging(0.63)	2/11	.	Prints_domain:PR01161,Superfamily_domains:SSF52490,Pfam_domain:PF00091,Gene3D:3.40.50.1440,hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF62	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTCGAGTTC	.	5	BLCA
BECN1	0	.	GRCh37	17	40963765	40963765	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1092G>C	p.Lys364Asn	p.K364N	ENST00000361523	11/12	105	71	33	147	147	0	BECN1,missense_variant,p.Ser41Thr,ENST00000590764,;BECN1,missense_variant,p.Lys364Asn,ENST00000590099,;BECN1,missense_variant,p.Lys151Asn,ENST00000586754,;BECN1,missense_variant,p.Lys364Asn,ENST00000361523,;BECN1,intron_variant,,ENST00000586589,;BECN1,intron_variant,,ENST00000589663,;BECN1,intron_variant,,ENST00000588276,;BECN1,intron_variant,,ENST00000438274,;CNTD1,downstream_gene_variant,,ENST00000586652,;CNTD1,downstream_gene_variant,,ENST00000585355,;CNTD1,downstream_gene_variant,,ENST00000588527,;BECN1,downstream_gene_variant,,ENST00000593205,;CNTD1,downstream_gene_variant,,ENST00000588408,;BECN1,downstream_gene_variant,,ENST00000590852,;CNTD1,downstream_gene_variant,,ENST00000315066,;BECN1,3_prime_UTR_variant,,ENST00000587880,;BECN1,non_coding_transcript_exon_variant,,ENST00000590185,;BECN1,non_coding_transcript_exon_variant,,ENST00000543382,;BECN1,downstream_gene_variant,,ENST00000589492,;BECN1,downstream_gene_variant,,ENST00000589493,;CNTD1,downstream_gene_variant,,ENST00000592166,;	G	ENSG00000126581	ENST00000361523	Transcript	missense_variant	1225	1092	364	K/N	aaG/aaC	COSM1302860	.	.	-1	BECN1	HGNC	1034	protein_coding	YES	CCDS11441.1	ENSP00000355231	BECN1_HUMAN	K7EQQ7_HUMAN,K7EPZ0_HUMAN,B4DS82_HUMAN	UPI0000126837	.	deleterious(0)	probably_damaging(1)	11/12	.	Pfam_domain:PF04111,hmmpanther:PTHR12768:SF6,hmmpanther:PTHR12768	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAACTTGTT	.	5	BLCA
MPP2	0	.	GRCh37	17	41958843	41958843	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.796G>T	p.Asp266Tyr	p.D266Y	ENST00000269095	7/13	136	90	45	161	161	0	MPP2,missense_variant,p.Asp311Tyr,ENST00000518766,;MPP2,missense_variant,p.Asp266Tyr,ENST00000269095,;MPP2,missense_variant,p.Asp255Tyr,ENST00000536246,;MPP2,missense_variant,p.Asp127Tyr,ENST00000520305,;MPP2,missense_variant,p.Asp290Tyr,ENST00000461854,;MPP2,missense_variant,p.Asp283Tyr,ENST00000377184,;MPP2,missense_variant,p.Asp255Tyr,ENST00000523501,;MPP2,downstream_gene_variant,,ENST00000520406,;MPP2,downstream_gene_variant,,ENST00000521178,;MPP2,downstream_gene_variant,,ENST00000523762,;MPP2,downstream_gene_variant,,ENST00000522172,;MPP2,downstream_gene_variant,,ENST00000523934,;MPP2,downstream_gene_variant,,ENST00000520241,;MPP2,downstream_gene_variant,,ENST00000523220,;MPP2,downstream_gene_variant,,ENST00000473246,;MPP2,downstream_gene_variant,,ENST00000524294,;MPP2,downstream_gene_variant,,ENST00000520319,;	A	ENSG00000108852	ENST00000269095	Transcript	missense_variant	1101	796	266	D/Y	Gat/Tat	COSM1302876	.	.	-1	MPP2	HGNC	7220	protein_coding	YES	CCDS11471.1	ENSP00000269095	MPP2_HUMAN	E7EX01_HUMAN,E7EV91_HUMAN,E5RK50_HUMAN,E5RJK0_HUMAN,E5RIU3_HUMAN,E5RIM9_HUMAN,E5RI32_HUMAN,E5RFN8_HUMAN	UPI000013D7F7	.	deleterious(0)	probably_damaging(0.998)	7/13	.	PROSITE_profiles:PS50002,hmmpanther:PTHR23122,hmmpanther:PTHR23122:SF38,Pfam_domain:PF07653,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCATCCT	.	5	BLCA
KIF1C	0	.	GRCh37	17	4905368	4905368	+	Silent	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378C>G	p.%3D	p.L126L	ENST00000320785	6/23	100	59	41	122	122	0	KIF1C,synonymous_variant,p.%3D,ENST00000574165,;KIF1C,synonymous_variant,p.%3D,ENST00000320785,;INCA1,upstream_gene_variant,,ENST00000396829,;INCA1,upstream_gene_variant,,ENST00000355025,;INCA1,upstream_gene_variant,,ENST00000575780,;	G	ENSG00000129250	ENST00000320785	Transcript	synonymous_variant	735	378	126	L	ctC/ctG	COSM1303050	.	.	1	KIF1C	HGNC	6317	protein_coding	YES	CCDS11065.1	ENSP00000320821	KIF1C_HUMAN	I3L1B1_HUMAN	UPI0000001C26	.	.	.	6/23	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF322,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCTTCTC	.	5	BLCA
MPO	0	.	GRCh37	17	56349013	56349013	+	Intron	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2030+3G>A	.	.	ENST00000225275	.	33	17	15	39	39	0	MPO,splice_region_variant,,ENST00000340482,;MPO,splice_region_variant,,ENST00000225275,;MPO,intron_variant,,ENST00000577220,;LPO,downstream_gene_variant,,ENST00000421678,;LPO,downstream_gene_variant,,ENST00000262290,;LPO,downstream_gene_variant,,ENST00000543544,;LPO,downstream_gene_variant,,ENST00000582328,;MPO,downstream_gene_variant,,ENST00000578493,;LPO,downstream_gene_variant,,ENST00000580890,;LPO,downstream_gene_variant,,ENST00000389576,;	T	ENSG00000005381	ENST00000225275	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	MPO	HGNC	7218	protein_coding	YES	CCDS11604.1	ENSP00000225275	PERM_HUMAN	.	UPI0000131634	.	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCACCGA	.	4	BLCA
ACE	0	.	GRCh37	17	61566090	61566090	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2387G>C	p.Arg796Thr	p.R796T	ENST00000290866	16/25	89	55	34	120	120	0	ACE,missense_variant,p.Arg222Thr,ENST00000490216,;ACE,missense_variant,p.Arg796Thr,ENST00000428043,;ACE,missense_variant,p.Arg796Thr,ENST00000290866,;ACE,missense_variant,p.Arg52Thr,ENST00000582761,;ACE,missense_variant,p.Arg222Thr,ENST00000290863,;ACE,missense_variant,p.Arg222Thr,ENST00000413513,;ACE,missense_variant,p.Arg106Thr,ENST00000421982,;ACE,upstream_gene_variant,,ENST00000577418,;ACE,downstream_gene_variant,,ENST00000584529,;ACE,missense_variant,p.Arg222Thr,ENST00000577647,;ACE,3_prime_UTR_variant,,ENST00000582005,;ACE,3_prime_UTR_variant,,ENST00000578839,;ACE,3_prime_UTR_variant,,ENST00000579314,;ACE,3_prime_UTR_variant,,ENST00000579204,;ACE,non_coding_transcript_exon_variant,,ENST00000584865,;ACE,downstream_gene_variant,,ENST00000582678,;ACE,upstream_gene_variant,,ENST00000583645,;ACE,downstream_gene_variant,,ENST00000579726,;	C	ENSG00000159640	ENST00000290866	Transcript	missense_variant	2411	2387	796	R/T	aGa/aCa	COSM1303172,COSM1303173	.	.	1	ACE	HGNC	2707	protein_coding	YES	CCDS11637.1	ENSP00000290866	ACE_HUMAN	Q3KRI5_HUMAN,D3DU13_HUMAN	UPI000002B8AD	.	tolerated(0.06)	benign(0.048)	16/25	.	hmmpanther:PTHR10514:SF19,hmmpanther:PTHR10514,Pfam_domain:PF01401,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGAGAGCCA	.	5	BLCA
HELZ	0	.	GRCh37	17	65141908	65141908	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2720G>A	p.Gly907Glu	p.G907E	ENST00000358691	21/33	53	44	8	73	73	0	HELZ,missense_variant,p.Gly908Glu,ENST00000580168,;HELZ,missense_variant,p.Gly907Glu,ENST00000358691,;HELZ,missense_variant,p.Gly908Glu,ENST00000579953,;	T	ENSG00000198265	ENST00000358691	Transcript	missense_variant	2887	2720	907	G/E	gGa/gAa	COSM1303228	.	.	-1	HELZ	HGNC	16878	protein_coding	YES	CCDS42374.1	ENSP00000351524	HELZ_HUMAN	J3KT20_HUMAN,J3KS59_HUMAN	UPI000013D7F5	.	deleterious(0)	probably_damaging(1)	21/33	.	hmmpanther:PTHR10887:SF9,hmmpanther:PTHR10887,Pfam_domain:PF13087,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCTCGT	.	5	BLCA
KCNJ2	0	.	GRCh37	17	68171221	68171221	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.41C>T	p.Ser14Leu	p.S14L	ENST00000243457	2/2	50	26	23	59	59	0	KCNJ2,missense_variant,p.Ser14Leu,ENST00000535240,;KCNJ2,missense_variant,p.Ser14Leu,ENST00000243457,;	T	ENSG00000123700	ENST00000243457	Transcript	missense_variant	424	41	14	S/L	tCa/tTa	COSM1303267	.	.	1	KCNJ2	HGNC	6263	protein_coding	YES	CCDS11688.1	ENSP00000243457	IRK2_HUMAN	.	UPI000004F21A	.	tolerated(0.06)	benign(0.197)	2/2	.	hmmpanther:PTHR11767:SF43,hmmpanther:PTHR11767,Pfam_domain:PF08466	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAGAAG	.	5	BLCA
LGALS3BP	0	.	GRCh37	17	76967650	76967650	+	3'UTR	SNP	C	C	A	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8G>T	.	.	ENST00000262776	6/6	12	7	5	27	27	0	LGALS3BP,3_prime_UTR_variant,,ENST00000591778,;LGALS3BP,3_prime_UTR_variant,,ENST00000262776,;LGALS3BP,downstream_gene_variant,,ENST00000589906,;LGALS3BP,downstream_gene_variant,,ENST00000585407,;LGALS3BP,downstream_gene_variant,,ENST00000589775,;LGALS3BP,downstream_gene_variant,,ENST00000591274,;LGALS3BP,downstream_gene_variant,,ENST00000589527,;LGALS3BP,3_prime_UTR_variant,,ENST00000587311,;LGALS3BP,3_prime_UTR_variant,,ENST00000587251,;LGALS3BP,3_prime_UTR_variant,,ENST00000586720,;LGALS3BP,downstream_gene_variant,,ENST00000588205,;LGALS3BP,downstream_gene_variant,,ENST00000588899,;LGALS3BP,downstream_gene_variant,,ENST00000588508,;LGALS3BP,downstream_gene_variant,,ENST00000592255,;LGALS3BP,downstream_gene_variant,,ENST00000588198,;LGALS3BP,downstream_gene_variant,,ENST00000587310,;LGALS3BP,downstream_gene_variant,,ENST00000588990,;LGALS3BP,downstream_gene_variant,,ENST00000588587,;	A	ENSG00000108679	ENST00000262776	Transcript	3_prime_UTR_variant	2075	.	.	.	.	.	.	.	-1	LGALS3BP	HGNC	6564	protein_coding	YES	CCDS11759.1	ENSP00000262776	LG3BP_HUMAN	K7ESM3_HUMAN,K7ES75_HUMAN,K7EP36_HUMAN,K7EKQ5_HUMAN,B4DVE1_HUMAN	UPI000006E64A	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGGCCACGCC	.	3	BLCA
DNAH2	0	.	GRCh37	17	7722612	7722612	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10901C>T	p.Ser3634Leu	p.S3634L	ENST00000572933	72/86	67	51	15	105	105	0	DNAH2,missense_variant,p.Ser3634Leu,ENST00000389173,;DNAH2,missense_variant,p.Ser3634Leu,ENST00000572933,;DNAH2,missense_variant,p.Ser583Leu,ENST00000575105,;	T	ENSG00000183914	ENST00000572933	Transcript	missense_variant	12361	10901	3634	S/L	tCa/tTa	COSM1303428	.	.	1	DNAH2	HGNC	2948	protein_coding	YES	CCDS32551.1	ENSP00000458355	DYH2_HUMAN	.	UPI00005B2F0D	.	.	probably_damaging(0.971)	72/86	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF183	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCACTGG	.	5	BLCA
SYT4	0	.	GRCh37	18	40854029	40854029	+	Missense_Mutation	SNP	G	G	T	rs373100677	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.365C>A	p.Thr122Asn	p.T122N	ENST00000255224	2/4	87	59	27	88	88	0	SYT4,missense_variant,p.Thr122Asn,ENST00000255224,;SYT4,missense_variant,p.Thr104Asn,ENST00000590752,;SYT4,intron_variant,,ENST00000596867,;SYT4,intron_variant,,ENST00000593720,;SYT4,non_coding_transcript_exon_variant,,ENST00000591820,;SYT4,intron_variant,,ENST00000586678,;SYT4,intron_variant,,ENST00000585604,;SYT4,upstream_gene_variant,,ENST00000589479,;	T	ENSG00000132872	ENST00000255224	Transcript	missense_variant	734	365	122	T/N	aCc/aAc	rs373100677,COSM1303736,COSM1303737	.	.	-1	SYT4	HGNC	11512	protein_coding	YES	CCDS11922.1	ENSP00000255224	SYT4_HUMAN	M0QZF3_HUMAN,B4DMA9_HUMAN	UPI000013669E	.	tolerated(0.59)	benign(0.031)	2/4	.	hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF114	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGGGGTTGCA	byFrequency|byCluster	5	BLCA
EPB41L3	0	.	GRCh37	18	5394743	5394743	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3203C>T	p.Ser1068Leu	p.S1068L	ENST00000341928	22/23	116	90	26	121	121	0	EPB41L3,missense_variant,p.Ser1068Leu,ENST00000342933,;EPB41L3,missense_variant,p.Ser1068Leu,ENST00000341928,;EPB41L3,missense_variant,p.Ser365Leu,ENST00000427684,;EPB41L3,missense_variant,p.Ser846Leu,ENST00000400111,;EPB41L3,missense_variant,p.Ser373Leu,ENST00000542146,;EPB41L3,missense_variant,p.Ser846Leu,ENST00000540638,;EPB41L3,intron_variant,,ENST00000544123,;EPB41L3,downstream_gene_variant,,ENST00000579951,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000542652,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000545076,;EPB41L3,downstream_gene_variant,,ENST00000578524,;EPB41L3,downstream_gene_variant,,ENST00000580316,;EPB41L3,downstream_gene_variant,,ENST00000581292,;EPB41L3,downstream_gene_variant,,ENST00000581387,;EPB41L3,downstream_gene_variant,,ENST00000580647,;EPB41L3,downstream_gene_variant,,ENST00000579271,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000578618,;EPB41L3,downstream_gene_variant,,ENST00000584055,;	A	ENSG00000082397	ENST00000341928	Transcript	missense_variant	3544	3203	1068	S/L	tCa/tTa	COSM1303779	.	.	-1	EPB41L3	HGNC	3380	protein_coding	YES	CCDS11838.1	ENSP00000343158	E41L3_HUMAN	J3QS55_HUMAN,J3QRQ6_HUMAN,J3QR33_HUMAN,J3QKY2_HUMAN,J3QKK4_HUMAN,J3KS70_HUMAN,J3KRD1_HUMAN	UPI0000129AFA	.	tolerated(0.46)	possibly_damaging(0.872)	22/23	.	hmmpanther:PTHR23280,hmmpanther:PTHR23280:SF20,Pfam_domain:PF05902,PIRSF_domain:PIRSF002304	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGACATG	.	5	BLCA
CCDC102B	0	.	GRCh37	18	66504371	66504371	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.371G>A	p.Arg124Lys	p.R124K	ENST00000360242	2/8	55	33	21	57	57	0	CCDC102B,missense_variant,p.Arg124Lys,ENST00000584156,;CCDC102B,missense_variant,p.Arg124Lys,ENST00000319445,;CCDC102B,missense_variant,p.Arg124Lys,ENST00000358653,;CCDC102B,missense_variant,p.Arg124Lys,ENST00000584775,;CCDC102B,missense_variant,p.Arg124Lys,ENST00000360242,;CCDC102B,missense_variant,p.Arg124Lys,ENST00000582371,;CCDC102B,missense_variant,p.Arg124Lys,ENST00000581520,;CCDC102B,downstream_gene_variant,,ENST00000578970,;CCDC102B,non_coding_transcript_exon_variant,,ENST00000577772,;	A	ENSG00000150636	ENST00000360242	Transcript	missense_variant	488	371	124	R/K	aGa/aAa	COSM1303830	.	.	1	CCDC102B	HGNC	26295	protein_coding	YES	CCDS11996.2	ENSP00000353377	C102B_HUMAN	J3QLG6_HUMAN,J3QL62_HUMAN,J3KRT2_HUMAN,J3KRG3_HUMAN,A1A4H1_HUMAN	UPI0000201E87	.	deleterious(0.04)	possibly_damaging(0.837)	2/8	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF295,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCAGAATAA	.	5	BLCA
ZNF236	0	.	GRCh37	18	74536229	74536229	+	5'UTR	SNP	G	G	A	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-85G>A	.	.	ENST00000253159	1/31	19	12	6	28	28	0	ZNF236,5_prime_UTR_variant,,ENST00000253159,;ZNF236,intron_variant,,ENST00000320610,;RP11-162A12.2,upstream_gene_variant,,ENST00000585258,;ZNF236,5_prime_UTR_variant,,ENST00000543926,;	A	ENSG00000130856	ENST00000253159	Transcript	5_prime_UTR_variant	114	.	.	.	.	.	.	.	1	ZNF236	HGNC	13028	protein_coding	YES	CCDS42447.1	ENSP00000253159	ZN236_HUMAN	.	UPI0000F6DCCB	.	.	.	1/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCGTGATTGC	.	5	BLCA
DNMT1	0	.	GRCh37	19	10270402	10270402	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1212C>G	p.Ile404Met	p.I404M	ENST00000359526	17/41	89	70	19	101	101	0	DNMT1,missense_variant,p.Ile388Met,ENST00000340748,;DNMT1,missense_variant,p.Ile388Met,ENST00000540357,;DNMT1,missense_variant,p.Ile404Met,ENST00000359526,;DNMT1,3_prime_UTR_variant,,ENST00000592705,;DNMT1,non_coding_transcript_exon_variant,,ENST00000585843,;DNMT1,downstream_gene_variant,,ENST00000585920,;DNMT1,downstream_gene_variant,,ENST00000591764,;DNMT1,downstream_gene_variant,,ENST00000589349,;DNMT1,upstream_gene_variant,,ENST00000586799,;	C	ENSG00000130816	ENST00000359526	Transcript	missense_variant	1392	1212	404	I/M	atC/atG	COSM1303912	.	.	-1	DNMT1	HGNC	2976	protein_coding	YES	CCDS45958.1	ENSP00000352516	DNMT1_HUMAN	K7ELB1_HUMAN,K7EKC3_HUMAN,I6L9H2_HUMAN,B3KVA0_HUMAN	UPI000002A823	.	deleterious(0)	benign(0.346)	17/41	.	hmmpanther:PTHR10629:SF11,hmmpanther:PTHR10629,PIRSF_domain:PIRSF037404	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAAGATGGA	.	5	BLCA
ZNF491	0	.	GRCh37	19	11916930	11916930	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162G>C	p.Arg54Ser	p.R54S	ENST00000323169	3/3	58	40	18	82	82	0	ZNF491,missense_variant,p.Arg54Ser,ENST00000450087,;ZNF491,missense_variant,p.Arg54Ser,ENST00000323169,;ZNF491,intron_variant,,ENST00000492230,;	C	ENSG00000177599	ENST00000323169	Transcript	missense_variant	493	162	54	R/S	agG/agC	COSM1304006	.	.	1	ZNF491	HGNC	23706	protein_coding	YES	CCDS12267.1	ENSP00000313443	ZN491_HUMAN	C9IYV0_HUMAN	UPI000006D12C	.	tolerated(0.24)	benign(0.125)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF35,hmmpanther:PTHR24381	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATAGGAACAT	.	5	BLCA
ZNF625	0	.	GRCh37	19	12256076	12256076	+	3'Flank	SNP	G	G	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000439556	.	79	64	15	102	102	0	ZNF625,3_prime_UTR_variant,,ENST00000542938,;ZNF625,3_prime_UTR_variant,,ENST00000455799,;ZNF625,3_prime_UTR_variant,,ENST00000355738,;ZNF625,intron_variant,,ENST00000414892,;ZNF20,upstream_gene_variant,,ENST00000600335,;ZNF20,upstream_gene_variant,,ENST00000418866,;ZNF625,downstream_gene_variant,,ENST00000439556,;ZNF20,upstream_gene_variant,,ENST00000334213,;ZNF20,upstream_gene_variant,,ENST00000480477,;CTC-359D24.3,upstream_gene_variant,,ENST00000472362,;ZNF625-ZNF20,3_prime_UTR_variant,,ENST00000434822,;ZNF625-ZNF20,intron_variant,,ENST00000430024,;ZNF20,upstream_gene_variant,,ENST00000454949,;ZNF20,upstream_gene_variant,,ENST00000478942,;CTC-359D24.3,upstream_gene_variant,,ENST00000486612,;	T	ENSG00000257591	ENST00000439556	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	4	-1	ZNF625	HGNC	30571	protein_coding	YES	CCDS12269.2	ENSP00000394380	ZN625_HUMAN	.	UPI0000EE608F	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCATGATTGG	.	3	BLCA
ZNF625	0	.	GRCh37	19	12256085	12256085	+	3'UTR	SNP	C	C	A	rs774248305	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27G>T	.	.	ENST00000439556	4/4	73	59	13	104	104	0	ZNF625,3_prime_UTR_variant,,ENST00000542938,;ZNF625,3_prime_UTR_variant,,ENST00000455799,;ZNF625,3_prime_UTR_variant,,ENST00000439556,;ZNF625,3_prime_UTR_variant,,ENST00000355738,;ZNF625,intron_variant,,ENST00000414892,;ZNF20,upstream_gene_variant,,ENST00000600335,;ZNF20,upstream_gene_variant,,ENST00000418866,;ZNF20,upstream_gene_variant,,ENST00000334213,;ZNF20,upstream_gene_variant,,ENST00000480477,;CTC-359D24.3,upstream_gene_variant,,ENST00000472362,;ZNF625-ZNF20,3_prime_UTR_variant,,ENST00000434822,;ZNF625-ZNF20,intron_variant,,ENST00000430024,;ZNF20,upstream_gene_variant,,ENST00000454949,;ZNF20,upstream_gene_variant,,ENST00000478942,;CTC-359D24.3,upstream_gene_variant,,ENST00000486612,;	A	ENSG00000257591	ENST00000439556	Transcript	3_prime_UTR_variant	1317	.	.	.	.	rs774248305	.	.	-1	ZNF625	HGNC	30571	protein_coding	YES	CCDS12269.2	ENSP00000394380	ZN625_HUMAN	.	UPI0000EE608F	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGATTCGGTGG	byFrequency	3	BLCA
ZNF737	0	.	GRCh37	19	20727612	20727612	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1397C>G	p.Ser466Ter	p.S466*	ENST00000427401	4/4	102	67	34	89	89	0	ZNF737,stop_gained,p.Ser466Ter,ENST00000427401,;ZNF737,downstream_gene_variant,,ENST00000594419,;ZNF737,upstream_gene_variant,,ENST00000596530,;ZNF737,downstream_gene_variant,,ENST00000597940,;	C	ENSG00000237440	ENST00000427401	Transcript	stop_gained	1492	1397	466	S/*	tCa/tGa	COSM1304251	.	.	-1	ZNF737	HGNC	32468	protein_coding	YES	CCDS54238.1	ENSP00000395733	ZN737_HUMAN	M0R1D1_HUMAN	UPI0000198506	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384:SF93,hmmpanther:PTHR24384,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGTGAGGAC	.	5	BLCA
C19orf55	0	.	GRCh37	19	36259446	36259446	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*165G>C	.	.	ENST00000544099	11/11	83	48	35	93	93	0	C19orf55,stop_lost,p.Ter480SerextTer136,ENST00000396908,;C19orf55,3_prime_UTR_variant,,ENST00000544099,;C19orf55,downstream_gene_variant,,ENST00000301165,;AC002398.13,downstream_gene_variant,,ENST00000589397,;C19orf55,non_coding_transcript_exon_variant,,ENST00000536037,;C19orf55,downstream_gene_variant,,ENST00000542591,;C19orf55,downstream_gene_variant,,ENST00000544876,;C19orf55,3_prime_UTR_variant,,ENST00000535581,;C19orf55,non_coding_transcript_exon_variant,,ENST00000544158,;C19orf55,downstream_gene_variant,,ENST00000601095,;	C	ENSG00000167595	ENST00000544099	Transcript	3_prime_UTR_variant	1506	.	.	.	.	.	.	.	1	C19orf55	HGNC	25204	protein_coding	YES	.	ENSP00000467267	.	K7EP81_HUMAN	UPI00006CA356	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGAATTG	.	5	BLCA
TJP3	0	.	GRCh37	19	3735874	3735874	+	Silent	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1095C>G	p.%3D	p.P365P	ENST00000589378	10/21	164	113	51	242	242	0	TJP3,synonymous_variant,p.%3D,ENST00000589378,;TJP3,synonymous_variant,p.%3D,ENST00000539908,;TJP3,synonymous_variant,p.%3D,ENST00000382008,;TJP3,synonymous_variant,p.%3D,ENST00000587686,;TJP3,synonymous_variant,p.%3D,ENST00000262968,;TJP3,synonymous_variant,p.%3D,ENST00000541714,;	G	ENSG00000105289	ENST00000589378	Transcript	synonymous_variant	1251	1095	365	P	ccC/ccG	COSM1304480	.	.	1	TJP3	HGNC	11829	protein_coding	YES	CCDS59332.1	ENSP00000465419	ZO3_HUMAN	F5H4S9_HUMAN,F5H2X0_HUMAN	UPI00003E3015	.	.	.	10/21	.	hmmpanther:PTHR13865,hmmpanther:PTHR13865:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCCCAGGGA	.	5	BLCA
SPRED3	0	.	GRCh37	19	38881044	38881044	+	Silent	SNP	C	C	T	rs760216720	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.102C>T	p.%3D	p.V34V	ENST00000338502	1/5	12	8	4	16	16	0	SPRED3,synonymous_variant,p.%3D,ENST00000587947,;SPRED3,synonymous_variant,p.%3D,ENST00000338502,;SPRED3,synonymous_variant,p.%3D,ENST00000586301,;SPRED3,intron_variant,,ENST00000587013,;GGN,upstream_gene_variant,,ENST00000334928,;GGN,upstream_gene_variant,,ENST00000586599,;GGN,upstream_gene_variant,,ENST00000587676,;AC005789.9,downstream_gene_variant,,ENST00000585411,;SPRED3,non_coding_transcript_exon_variant,,ENST00000587564,;GGN,upstream_gene_variant,,ENST00000591809,;SPRED3,intron_variant,,ENST00000586958,;SPRED3,upstream_gene_variant,,ENST00000590962,;GGN,upstream_gene_variant,,ENST00000585737,;	T	ENSG00000188766	ENST00000338502	Transcript	synonymous_variant	205	102	34	V	gtC/gtT	rs760216720,COSM1304512,COSM1304511	.	.	1	SPRED3	HGNC	31041	protein_coding	YES	CCDS42560.1	ENSP00000345405	SPRE3_HUMAN	K7EPT9_HUMAN	UPI000040BCE3	.	.	.	1/5	.	PROSITE_profiles:PS50229,hmmpanther:PTHR11202,hmmpanther:PTHR11202:SF19,Gene3D:2.30.29.30,SMART_domains:SM00461,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGGTCCGAGG	byFrequency	2	BLCA
SERTAD1	0	.	GRCh37	19	40928872	40928872	+	Silent	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.582C>G	p.%3D	p.L194L	ENST00000357949	2/2	11	7	4	11	11	0	SERTAD1,synonymous_variant,p.%3D,ENST00000357949,;	C	ENSG00000197019	ENST00000357949	Transcript	synonymous_variant	741	582	194	L	ctC/ctG	COSM1304600	.	.	-1	SERTAD1	HGNC	17932	protein_coding	YES	CCDS12557.1	ENSP00000350633	SRTD1_HUMAN	Q53GC0_HUMAN	UPI000006F397	.	.	.	2/2	.	hmmpanther:PTHR16277,hmmpanther:PTHR16277:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTTTGAGGCC	.	2	BLCA
CYP2B6	0	.	GRCh37	19	41518309	41518309	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1071G>C	p.Gln357His	p.Q357H	ENST00000324071	7/9	83	52	30	83	83	0	CYP2B6,missense_variant,p.Gln121His,ENST00000593831,;CYP2B6,missense_variant,p.Gln157His,ENST00000330446,;CYP2B6,missense_variant,p.Gln357His,ENST00000324071,;CYP2B6,downstream_gene_variant,,ENST00000598834,;CYP2B6,non_coding_transcript_exon_variant,,ENST00000597612,;	C	ENSG00000197408	ENST00000324071	Transcript	missense_variant	1078	1071	357	Q/H	caG/caC	COSM1304623	.	.	1	CYP2B6	HGNC	2615	protein_coding	YES	CCDS12570.1	ENSP00000324648	CP2B6_HUMAN	Q9UNX8_HUMAN,F2X1B0_HUMAN	UPI000012823F	.	deleterious(0)	probably_damaging(0.996)	7/9	.	hmmpanther:PTHR24300:SF146,hmmpanther:PTHR24300,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264,Prints_domain:PR00385,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCAGAGATT	.	5	BLCA
KLK6	0	.	GRCh37	19	51470539	51470539	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83G>A	p.Cys28Tyr	p.C28Y	ENST00000376851	3/6	42	29	12	66	66	0	KLK6,missense_variant,p.Cys28Tyr,ENST00000310157,;KLK6,missense_variant,p.Cys28Tyr,ENST00000376851,;KLK6,missense_variant,p.Cys28Tyr,ENST00000594641,;KLK6,missense_variant,p.Cys28Tyr,ENST00000376853,;KLK6,5_prime_UTR_variant,,ENST00000391808,;KLK6,intron_variant,,ENST00000424910,;KLK6,upstream_gene_variant,,ENST00000456750,;CTB-147C22.8,downstream_gene_variant,,ENST00000601506,;CTB-147C22.9,upstream_gene_variant,,ENST00000594512,;KLK6,missense_variant,p.Ala5Thr,ENST00000599690,;KLK6,intron_variant,,ENST00000597379,;KLK6,intron_variant,,ENST00000599881,;	T	ENSG00000167755	ENST00000376851	Transcript	missense_variant	523	83	28	C/Y	tGc/tAc	COSM1304967	.	.	-1	KLK6	HGNC	6367	protein_coding	YES	CCDS12811.1	ENSP00000366047	KLK6_HUMAN	.	UPI000004CA06	.	deleterious(0)	probably_damaging(1)	3/6	.	Superfamily_domains:SSF50494,SMART_domains:SM00020,Pfam_domain:PF00089,Gene3D:2.40.10.10,hmmpanther:PTHR24271:SF19,hmmpanther:PTHR24271,PROSITE_profiles:PS50240	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCGCAGGGT	.	5	BLCA
ZNF600	0	.	GRCh37	19	53282081	53282081	+	Intron	SNP	G	G	A	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-20C>T	.	.	ENST00000338230	2/3	181	128	52	170	170	0	ZNF600,splice_region_variant,,ENST00000338230,;ZNF600,downstream_gene_variant,,ENST00000598369,;ZNF600,downstream_gene_variant,,ENST00000594028,;ZNF600,downstream_gene_variant,,ENST00000597124,;ZNF600,downstream_gene_variant,,ENST00000599893,;	A	ENSG00000189190	ENST00000338230	Transcript	splice_region_variant	249	.	.	.	.	.	.	.	-1	ZNF600	HGNC	30951	protein_coding	YES	CCDS12856.1	ENSP00000344791	ZN600_HUMAN	.	UPI0000366E5E	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAGGAA	.	5	BLCA
ZNF761	0	.	GRCh37	19	53958360	53958360	+	RNA	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1052C>A	.	.	ENST00000454407	5/5	103	70	32	110	110	0	ZNF761,non_coding_transcript_exon_variant,,ENST00000429310,;ZNF761,non_coding_transcript_exon_variant,,ENST00000454407,;ZNF761,non_coding_transcript_exon_variant,,ENST00000334095,;ZNF761,non_coding_transcript_exon_variant,,ENST00000432094,;ZNF761,downstream_gene_variant,,ENST00000396407,;ZNF761,downstream_gene_variant,,ENST00000366293,;ZNF761,downstream_gene_variant,,ENST00000447129,;	A	ENSG00000160336	ENST00000454407	Transcript	non_coding_transcript_exon_variant	1052	.	.	.	.	COSM79117,COSM1396105	.	.	1	ZNF761	HGNC	23179	processed_transcript	YES	.	.	.	.	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S146S|c.438A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCATTAC	.	5	BLCA
LILRA3	0	.	GRCh37	19	54803053	54803053	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624G>A	p.Trp208Ter	p.W208*	ENST00000251390	4/7	68	34	34	79	79	0	LILRA3,stop_gained,p.Trp225Ter,ENST00000391745,;LILRA3,stop_gained,p.Trp208Ter,ENST00000251390,;LILRA3,intron_variant,,ENST00000391744,;AC010518.3,upstream_gene_variant,,ENST00000417373,;	T	ENSG00000170866	ENST00000251390	Transcript	stop_gained	716	624	208	W/*	tgG/tgA	COSM1305083	.	.	-1	LILRA3	HGNC	6604	protein_coding	YES	CCDS12887.1	ENSP00000251390	LIRA3_HUMAN	.	UPI0000116F1D	.	.	.	4/7	.	hmmpanther:PTHR11738,hmmpanther:PTHR11738:SF89,Gene3D:2.60.40.10,PIRSF_domain:PIRSF001979,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGACCACAC	.	5	BLCA
NLRP2	0	.	GRCh37	19	55494608	55494608	+	Missense_Mutation	SNP	C	C	G	rs553038879	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1542C>G	p.Phe514Leu	p.F514L	ENST00000543010	6/13	93	57	36	93	93	0	NLRP2,missense_variant,p.Phe492Leu,ENST00000537859,;NLRP2,missense_variant,p.Phe511Leu,ENST00000263437,;NLRP2,missense_variant,p.Phe490Leu,ENST00000391721,;NLRP2,missense_variant,p.Phe492Leu,ENST00000339757,;NLRP2,missense_variant,p.Phe514Leu,ENST00000543010,;NLRP2,missense_variant,p.Phe490Leu,ENST00000538819,;NLRP2,missense_variant,p.Phe514Leu,ENST00000448584,;NLRP2,missense_variant,p.Phe491Leu,ENST00000427260,;NLRP2,downstream_gene_variant,,ENST00000397169,;NLRP2,downstream_gene_variant,,ENST00000585500,;NLRP2,downstream_gene_variant,,ENST00000433772,;NLRP2,downstream_gene_variant,,ENST00000588619,;NLRP2,upstream_gene_variant,,ENST00000540005,;NLRP2,non_coding_transcript_exon_variant,,ENST00000540597,;NLRP2,upstream_gene_variant,,ENST00000543277,;NLRP2,downstream_gene_variant,,ENST00000539848,;NLRP2,upstream_gene_variant,,ENST00000381637,;	G	ENSG00000022556	ENST00000543010	Transcript	missense_variant	1685	1542	514	F/L	ttC/ttG	rs553038879,COSM1305107	.	.	1	NLRP2	HGNC	22948	protein_coding	YES	CCDS12913.1	ENSP00000445135	NALP2_HUMAN	K7EPE6_HUMAN,K7ELX1_HUMAN,K7EJ90_HUMAN,F5H7Q5_HUMAN,F5H5B1_HUMAN	UPI000004C0CC	.	tolerated(0.14)	benign(0.039)	6/13	.	hmmpanther:PTHR24106:SF14,hmmpanther:PTHR24106	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCTACAC	.	5	BLCA
A1BG	0	.	GRCh37	19	58863655	58863655	+	Missense_Mutation	SNP	C	C	G	rs748152096	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>C	p.Glu203Gln	p.E203Q	ENST00000263100	4/8	66	44	22	102	102	0	A1BG,missense_variant,p.Glu157Gln,ENST00000600966,;A1BG,missense_variant,p.Glu203Gln,ENST00000263100,;ZNF497,downstream_gene_variant,,ENST00000425453,;ZNF497,downstream_gene_variant,,ENST00000311044,;A1BG-AS1,non_coding_transcript_exon_variant,,ENST00000595302,;A1BG-AS1,intron_variant,,ENST00000600686,;A1BG-AS1,intron_variant,,ENST00000593374,;A1BG-AS1,intron_variant,,ENST00000594950,;A1BG-AS1,intron_variant,,ENST00000593960,;A1BG-AS1,intron_variant,,ENST00000600379,;A1BG-AS1,intron_variant,,ENST00000599728,;CTD-2619J13.8,non_coding_transcript_exon_variant,,ENST00000599109,;CTD-2619J13.8,non_coding_transcript_exon_variant,,ENST00000600123,;A1BG,upstream_gene_variant,,ENST00000596924,;CTD-2619J13.8,downstream_gene_variant,,ENST00000596636,;A1BG,non_coding_transcript_exon_variant,,ENST00000595014,;A1BG,upstream_gene_variant,,ENST00000598345,;	G	ENSG00000121410	ENST00000263100	Transcript	missense_variant	669	607	203	E/Q	Gag/Cag	rs748152096,COSM1305236	.	.	-1	A1BG	HGNC	5	protein_coding	YES	CCDS12976.1	ENSP00000263100	A1BG_HUMAN	Q7Z3U3_HUMAN	UPI0000167B10	.	deleterious(0.03)	probably_damaging(0.943)	4/8	.	hmmpanther:PTHR11738:SF3,hmmpanther:PTHR11738,PIRSF_domain:PIRSF001979	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCCTCAA	.	5	BLCA
PDE4DIP	0	.	GRCh37	1	144879256	144879256	+	Silent	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4194G>T	p.%3D	p.L1398L	ENST00000369356	27/44	131	112	19	163	163	0	PDE4DIP,synonymous_variant,p.%3D,ENST00000369354,;PDE4DIP,synonymous_variant,p.%3D,ENST00000369359,;PDE4DIP,synonymous_variant,p.%3D,ENST00000530740,;PDE4DIP,synonymous_variant,p.%3D,ENST00000313382,;PDE4DIP,synonymous_variant,p.%3D,ENST00000369356,;PDE4DIP,downstream_gene_variant,,ENST00000530592,;AL138796.1,downstream_gene_variant,,ENST00000582173,;RP4-791M13.5,downstream_gene_variant,,ENST00000531288,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524974,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,intron_variant,,ENST00000525886,;PDE4DIP,upstream_gene_variant,,ENST00000479369,;	A	ENSG00000178104	ENST00000369356	Transcript	synonymous_variant	4485	4194	1398	L	ctG/ctT	COSM1294897,COSM1294896	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	.	.	27/44	.	hmmpanther:PTHR13895:SF2,hmmpanther:PTHR13895	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTCAGCTT	.	4	BLCA
PDE4DIP	0	.	GRCh37	1	144882724	144882724	+	Nonsense_Mutation	SNP	G	G	A	rs782502294	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3295C>T	p.Gln1099Ter	p.Q1099*	ENST00000369356	24/44	276	232	43	323	323	0	PDE4DIP,stop_gained,p.Gln1099Ter,ENST00000369354,;PDE4DIP,stop_gained,p.Gln1236Ter,ENST00000369359,;PDE4DIP,stop_gained,p.Gln1236Ter,ENST00000530740,;PDE4DIP,stop_gained,p.Gln1099Ter,ENST00000369356,;PDE4DIP,intron_variant,,ENST00000313382,;PDE4DIP,upstream_gene_variant,,ENST00000530592,;RP4-791M13.5,downstream_gene_variant,,ENST00000531288,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524974,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,intron_variant,,ENST00000525886,;	A	ENSG00000178104	ENST00000369356	Transcript	stop_gained	3586	3295	1099	Q/*	Cag/Tag	rs782502294,COSM1294901,COSM1294900	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	.	.	24/44	.	hmmpanther:PTHR13895:SF2,hmmpanther:PTHR13895	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTGAAGGC	.	4	BLCA
RPRD2	0	.	GRCh37	1	150444774	150444774	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3350G>A	p.Arg1117Lys	p.R1117K	ENST00000369068	11/11	29	22	7	21	21	0	RPRD2,missense_variant,p.Arg1117Lys,ENST00000369068,;RPRD2,missense_variant,p.Arg1091Lys,ENST00000401000,;RPRD2,downstream_gene_variant,,ENST00000539519,;RPRD2,non_coding_transcript_exon_variant,,ENST00000492220,;	A	ENSG00000163125	ENST00000369068	Transcript	missense_variant	3354	3350	1117	R/K	aGa/aAa	COSM1294980,COSM1294979	.	.	1	RPRD2	HGNC	29039	protein_coding	YES	CCDS44216.1	ENSP00000358064	RPRD2_HUMAN	.	UPI00001D7CA8	.	deleterious_low_confidence(0)	probably_damaging(0.986)	11/11	.	hmmpanther:PTHR12460,hmmpanther:PTHR12460:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATAGAGGAC	.	5	BLCA
HORMAD1	0	.	GRCh37	1	150679139	150679139	+	Nonsense_Mutation	SNP	G	G	A	rs150156011	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694C>T	p.Arg232Ter	p.R232*	ENST00000361824	10/15	98	76	22	113	112	1	HORMAD1,stop_gained,p.Arg232Ter,ENST00000361824,;HORMAD1,stop_gained,p.Arg232Ter,ENST00000368993,;HORMAD1,stop_gained,p.Arg154Ter,ENST00000442853,;HORMAD1,stop_gained,p.Arg161Ter,ENST00000368987,;HORMAD1,stop_gained,p.Arg225Ter,ENST00000322343,;HORMAD1,stop_gained,p.Arg152Ter,ENST00000368995,;RNU6-1042P,downstream_gene_variant,,ENST00000384204,;HORMAD1,non_coding_transcript_exon_variant,,ENST00000486497,;HORMAD1,upstream_gene_variant,,ENST00000470397,;	A	ENSG00000143452	ENST00000361824	Transcript	stop_gained	800	694	232	R/*	Cga/Tga	rs150156011,COSM1295000	.	.	-1	HORMAD1	HGNC	25245	protein_coding	YES	CCDS967.1	ENSP00000355167	HORM1_HUMAN	.	UPI000000DBE5	.	.	.	10/15	.	Superfamily_domains:0040144,hmmpanther:PTHR21518:SF4,hmmpanther:PTHR21518	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCGTTCTC	byCluster	5	BLCA
CELF3	0	.	GRCh37	1	151678328	151678328	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1240G>A	p.Asp414Asn	p.D414N	ENST00000290583	11/13	49	34	14	67	67	0	CELF3,missense_variant,p.Asp414Asn,ENST00000290583,;CELF3,missense_variant,p.Asp415Asn,ENST00000420342,;CELF3,missense_variant,p.Asp364Asn,ENST00000290585,;CELF3,missense_variant,p.Asp209Asn,ENST00000392706,;RIIAD1,upstream_gene_variant,,ENST00000326413,;AL589765.1,upstream_gene_variant,,ENST00000442233,;RP11-98D18.1,intron_variant,,ENST00000457548,;CELF3,non_coding_transcript_exon_variant,,ENST00000470688,;CELF3,downstream_gene_variant,,ENST00000479893,;CELF3,downstream_gene_variant,,ENST00000478829,;CELF3,downstream_gene_variant,,ENST00000419910,;	T	ENSG00000159409	ENST00000290583	Transcript	missense_variant	2034	1240	414	D/N	Gac/Aac	COSM1295056	.	.	-1	CELF3	HGNC	11967	protein_coding	YES	CCDS1002.1	ENSP00000290583	CELF3_HUMAN	Q8IZ97_HUMAN	UPI000013F059	.	deleterious(0)	probably_damaging(1)	11/13	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24622:SF169,hmmpanther:PTHR24622,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGGTCAACAA	.	5	BLCA
IL6R	0	.	GRCh37	1	154420627	154420627	+	Missense_Mutation	SNP	G	G	A	rs777927714	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.976G>A	p.Glu326Lys	p.E326K	ENST00000368485	7/10	125	77	48	112	112	0	IL6R,missense_variant,p.Glu326Lys,ENST00000368485,;IL6R,missense_variant,p.Glu326Lys,ENST00000344086,;IL6R,missense_variant,p.Glu129Lys,ENST00000515190,;IL6R,missense_variant,p.Glu265Lys,ENST00000476006,;IL6R,non_coding_transcript_exon_variant,,ENST00000507256,;	A	ENSG00000160712	ENST00000368485	Transcript	missense_variant	1413	976	326	E/K	Gag/Aag	rs777927714,COSM1295141	.	.	1	IL6R	HGNC	6019	protein_coding	YES	CCDS1067.1	ENSP00000357470	IL6RA_HUMAN	A0N0L5_HUMAN	UPI00000358BA	.	tolerated(0.38)	benign(0.007)	7/10	.	hmmpanther:PTHR23036:SF81,hmmpanther:PTHR23036	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAACGAGGTG	byFrequency	5	BLCA
CLCNKB	0	.	GRCh37	1	16375654	16375654	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.695C>G	p.Ser232Cys	p.S232C	ENST00000375679	8/20	107	77	29	116	116	0	CLCNKB,missense_variant,p.Ser232Cys,ENST00000375679,;CLCNKB,missense_variant,p.Ser63Cys,ENST00000375667,;CLCNKB,upstream_gene_variant,,ENST00000431772,;	G	ENSG00000184908	ENST00000375679	Transcript	missense_variant	806	695	232	S/C	tCt/tGt	COSM1295400	.	.	1	CLCNKB	HGNC	2027	protein_coding	YES	CCDS168.1	ENSP00000364831	CLCKB_HUMAN	.	UPI000040E261	.	deleterious(0)	probably_damaging(0.964)	8/20	.	Superfamily_domains:SSF81340,Pfam_domain:PF00654,Gene3D:1otsB00,hmmpanther:PTHR11689:SF78,hmmpanther:PTHR11689	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCTGTCT	.	5	BLCA
RXRG	0	.	GRCh37	1	165398029	165398029	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.224C>A	p.Ser75Tyr	p.S75Y	ENST00000359842	2/10	51	31	19	65	65	0	RXRG,missense_variant,p.Ser75Tyr,ENST00000359842,;RXRG,upstream_gene_variant,,ENST00000470566,;	T	ENSG00000143171	ENST00000359842	Transcript	missense_variant	527	224	75	S/Y	tCt/tAt	COSM1295410	.	.	-1	RXRG	HGNC	10479	protein_coding	YES	CCDS1248.1	ENSP00000352900	RXRG_HUMAN	F1D8Q7_HUMAN	UPI000004989F	.	deleterious(0.03)	probably_damaging(0.99)	2/10	.	hmmpanther:PTHR24083:SF83,hmmpanther:PTHR24083,Pfam_domain:PF11825	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGAGGTG	.	5	BLCA
ALDH4A1	0	.	GRCh37	1	19204070	19204070	+	Missense_Mutation	SNP	G	G	A	rs139430775	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.977C>T	p.Ser326Leu	p.S326L	ENST00000375341	10/15	27	23	3	35	35	0	ALDH4A1,missense_variant,p.Ser266Leu,ENST00000538309,;ALDH4A1,missense_variant,p.Ser326Leu,ENST00000538839,;ALDH4A1,missense_variant,p.Ser326Leu,ENST00000290597,;ALDH4A1,missense_variant,p.Ser326Leu,ENST00000375341,;ALDH4A1,downstream_gene_variant,,ENST00000454547,;RP13-279N23.2,3_prime_UTR_variant,,ENST00000494072,;	A	ENSG00000159423	ENST00000375341	Transcript	missense_variant	1235	977	326	S/L	tCg/tTg	rs139430775,COSM1295617,COSM1295616	.	.	-1	ALDH4A1	HGNC	406	protein_coding	YES	CCDS188.1	ENSP00000364490	AL4A1_HUMAN	.	UPI000007418C	.	deleterious(0)	probably_damaging(0.961)	10/15	.	hmmpanther:PTHR11699,hmmpanther:PTHR11699:SF18,TIGRFAM_domain:TIGR01236,Pfam_domain:PF00171,Gene3D:3.40.605.10,Superfamily_domains:SSF53720	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F322F|c.966C>T|4,BUFFER|p.F322F|c.966C>T|4	RADIA|MUTECT|MUSE|VARSCANS	CGGCCGAGCGG	byCluster	4	BLCA
C1orf116	0	.	GRCh37	1	207196604	207196604	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.505G>A	p.Glu169Lys	p.E169K	ENST00000359470	4/4	61	35	25	81	81	0	C1orf116,missense_variant,p.Glu169Lys,ENST00000359470,;C1orf116,5_prime_UTR_variant,,ENST00000461135,;	T	ENSG00000182795	ENST00000359470	Transcript	missense_variant	755	505	169	E/K	Gag/Aag	COSM1295795	.	.	-1	C1orf116	HGNC	28667	protein_coding	YES	CCDS1475.1	ENSP00000352447	SARG_HUMAN	.	UPI000013E1EF	.	tolerated(0.53)	benign(0.013)	4/4	.	Pfam_domain:PF15385,hmmpanther:PTHR21555:SF0,hmmpanther:PTHR21555	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAGGCT	.	5	BLCA
ARID4B	0	.	GRCh37	1	235331917	235331917	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3862G>A	p.Ala1288Thr	p.A1288T	ENST00000264183	24/24	46	30	15	37	37	0	ARID4B,missense_variant,p.Ala1202Thr,ENST00000349213,;ARID4B,missense_variant,p.Ala1288Thr,ENST00000366603,;ARID4B,missense_variant,p.Ala1288Thr,ENST00000264183,;ARID4B-IT1,downstream_gene_variant,,ENST00000357671,;ARID4B,missense_variant,p.Ala602Thr,ENST00000474953,;ARID4B,3_prime_UTR_variant,,ENST00000421364,;ARID4B,downstream_gene_variant,,ENST00000474401,;	T	ENSG00000054267	ENST00000264183	Transcript	missense_variant	4360	3862	1288	A/T	Gct/Act	COSM1296014	.	.	-1	ARID4B	HGNC	15550	protein_coding	YES	CCDS31061.1	ENSP00000264183	ARI4B_HUMAN	.	UPI00000437FE	.	deleterious_low_confidence(0)	probably_damaging(0.995)	24/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13964:SF21,hmmpanther:PTHR13964	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGCTGTTA	.	5	BLCA
GRHL3	0	.	GRCh37	1	24664503	24664503	+	Missense_Mutation	SNP	G	G	A	rs141594535	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.862G>A	p.Asp288Asn	p.D288N	ENST00000350501	7/16	125	84	41	131	131	0	GRHL3,missense_variant,p.Asp195Asn,ENST00000342072,;GRHL3,missense_variant,p.Asp288Asn,ENST00000350501,;GRHL3,missense_variant,p.Asp288Asn,ENST00000361548,;GRHL3,missense_variant,p.Asp293Asn,ENST00000236255,;GRHL3,missense_variant,p.Asp242Asn,ENST00000356046,;GRHL3,downstream_gene_variant,,ENST00000524724,;GRHL3,downstream_gene_variant,,ENST00000530984,;GRHL3,3_prime_UTR_variant,,ENST00000528064,;GRHL3,non_coding_transcript_exon_variant,,ENST00000528181,;GRHL3,upstream_gene_variant,,ENST00000461318,;	A	ENSG00000158055	ENST00000350501	Transcript	missense_variant	989	862	288	D/N	Gac/Aac	rs141594535,COSM1296120	.	.	1	GRHL3	HGNC	25839	protein_coding	YES	CCDS252.2	ENSP00000288955	GRHL3_HUMAN	E9PLT6_HUMAN	UPI000049DC7B	.	tolerated(0.16)	possibly_damaging(0.869)	7/16	.	hmmpanther:PTHR11037:SF6,hmmpanther:PTHR11037,Pfam_domain:PF04516	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCGACAAT	byCluster	5	BLCA
ZNF695	0	.	GRCh37	1	247151490	247151490	+	Silent	SNP	C	C	T	rs771141306	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>A	p.%3D	p.V109V	ENST00000339986	4/4	84	56	27	93	93	0	ZNF695,synonymous_variant,p.%3D,ENST00000339986,;ZNF695,synonymous_variant,p.%3D,ENST00000487338,;ZNF695,non_coding_transcript_exon_variant,,ENST00000498046,;ZNF695,synonymous_variant,p.%3D,ENST00000366504,;ZNF695,synonymous_variant,p.%3D,ENST00000479214,;ZNF670,synonymous_variant,p.%3D,ENST00000465049,;ZNF670,3_prime_UTR_variant,,ENST00000474541,;ZNF695,intron_variant,,ENST00000491337,;	T	ENSG00000197472	ENST00000339986	Transcript	synonymous_variant	475	327	109	V	gtG/gtA	rs771141306,COSM1296132	.	.	-1	ZNF695	HGNC	30954	protein_coding	YES	CCDS44344.1	ENSP00000341236	ZN695_HUMAN	.	UPI0000F734A8	.	.	.	4/4	.	hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF119	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCACTTT	.	5	BLCA
GPN2	0	.	GRCh37	1	27216470	27216470	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118G>A	p.Val40Met	p.V40M	ENST00000374135	1/5	16	13	3	13	13	0	GPN2,missense_variant,p.Val40Met,ENST00000431781,;GPN2,missense_variant,p.Val40Met,ENST00000374135,;GPATCH3,downstream_gene_variant,,ENST00000361720,;GPATCH3,downstream_gene_variant,,ENST00000450844,;GPATCH3,downstream_gene_variant,,ENST00000445019,;GPN2,upstream_gene_variant,,ENST00000374133,;GPN2,upstream_gene_variant,,ENST00000461282,;GPN2,upstream_gene_variant,,ENST00000477418,;	T	ENSG00000142751	ENST00000374135	Transcript	missense_variant	319	118	40	V/M	Gtg/Atg	COSM1296238	.	.	-1	GPN2	HGNC	25513	protein_coding	YES	CCDS289.1	ENSP00000363250	GPN2_HUMAN	.	UPI0000071F43	.	deleterious(0)	probably_damaging(0.989)	1/5	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,Pfam_domain:PF03029,hmmpanther:PTHR21231:SF3,hmmpanther:PTHR21231	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCACGCGCC	.	2	BLCA
CSMD2	0	.	GRCh37	1	34208906	34208906	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2028G>A	p.%3D	p.K676K	ENST00000241312	14/70	29	22	6	45	45	0	CSMD2,synonymous_variant,p.%3D,ENST00000373381,;CSMD2,synonymous_variant,p.%3D,ENST00000241312,;	T	ENSG00000121904	ENST00000241312	Transcript	synonymous_variant	2057	2028	676	K	aaG/aaA	COSM1296319	.	.	-1	CSMD2	HGNC	19290	nonsense_mediated_decay	YES	CCDS380.1	ENSP00000241312	CSMD2_HUMAN	.	UPI00004561AB	.	.	.	14/70	.	Superfamily_domains:SSF49854,SMART_domains:SM00042,Pfam_domain:PF00431,Gene3D:2.60.120.290,PROSITE_profiles:PS01180	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCTTCCC	.	5	BLCA
MTF1	0	.	GRCh37	1	38289456	38289456	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1097C>T	p.Ser366Leu	p.S366L	ENST00000373036	8/11	62	40	21	79	79	0	MTF1,missense_variant,p.Ser366Leu,ENST00000373036,;AL929472.1,downstream_gene_variant,,ENST00000448796,;	A	ENSG00000188786	ENST00000373036	Transcript	missense_variant	1238	1097	366	S/L	tCa/tTa	COSM1296383	.	.	-1	MTF1	HGNC	7428	protein_coding	YES	CCDS30676.1	ENSP00000362127	MTF1_HUMAN	O14945_HUMAN	UPI000006E9B3	.	tolerated(0.12)	possibly_damaging(0.504)	8/11	.	hmmpanther:PTHR11389:SF347,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGAAATT	.	5	BLCA
RHBDL2	0	.	GRCh37	1	39384795	39384795	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.90G>A	p.Met30Ile	p.M30I	ENST00000289248	2/8	136	106	30	159	159	0	RHBDL2,missense_variant,p.Met110Ile,ENST00000372985,;RHBDL2,missense_variant,p.Met97Ile,ENST00000538156,;RHBDL2,missense_variant,p.Met30Ile,ENST00000289248,;RHBDL2,missense_variant,p.Met30Ile,ENST00000540558,;RHBDL2,missense_variant,p.Met30Ile,ENST00000372990,;RP5-864K19.4,intron_variant,,ENST00000433671,;	T	ENSG00000158315	ENST00000289248	Transcript	missense_variant	1099	90	30	M/I	atG/atA	COSM1296392	.	.	-1	RHBDL2	HGNC	16083	protein_coding	YES	CCDS30680.1	ENSP00000289248	RHBL2_HUMAN	.	UPI0000048DB4	.	tolerated(0.19)	benign(0.001)	2/8	.	PIRSF_domain:PIRSF037470,hmmpanther:PTHR22936,hmmpanther:PTHR22936:SF3,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCATTTT	.	5	BLCA
CYP4A22	0	.	GRCh37	1	47603168	47603168	+	Missense_Mutation	SNP	C	C	G	rs764185261	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11C>G	p.Ser4Cys	p.S4C	ENST00000371891	1/12	112	82	29	134	134	0	CYP4A22,missense_variant,p.Ser4Cys,ENST00000371890,;CYP4A22,missense_variant,p.Ser4Cys,ENST00000294337,;CYP4A22,missense_variant,p.Ser4Cys,ENST00000371891,;CYP4A22-AS1,intron_variant,,ENST00000444042,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000485117,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000490948,;	G	ENSG00000162365	ENST00000371891	Transcript	missense_variant	42	11	4	S/C	tCt/tGt	rs764185261,COSM1296529	.	.	1	CYP4A22	HGNC	20575	protein_coding	YES	CCDS30707.1	ENSP00000360958	CP4AM_HUMAN	.	UPI00002371F0	.	deleterious_low_confidence(0)	probably_damaging(0.966)	1/12	.	hmmpanther:PTHR24290:SF67,hmmpanther:PTHR24290	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTGTCC	.	5	BLCA
LRRC7	0	.	GRCh37	1	70504238	70504238	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2617G>A	p.Glu873Lys	p.E873K	ENST00000035383	19/25	123	78	44	116	116	0	LRRC7,missense_variant,p.Glu157Lys,ENST00000415775,;LRRC7,missense_variant,p.Glu873Lys,ENST00000035383,;LRRC7,missense_variant,p.Glu878Lys,ENST00000310961,;	A	ENSG00000033122	ENST00000035383	Transcript	missense_variant	2647	2617	873	E/K	Gaa/Aaa	COSM1296672	.	.	1	LRRC7	HGNC	18531	protein_coding	YES	CCDS645.1	ENSP00000035383	LRRC7_HUMAN	.	UPI000006F29B	.	deleterious_low_confidence(0.01)	benign(0.345)	19/25	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGAAAGG	.	5	BLCA
CCDC18	0	.	GRCh37	1	93680450	93680450	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1804G>C	p.Arg602Thr	p.R602T	ENST00000370276	12/29	24	15	9	30	30	0	CCDC18,missense_variant,p.Arg268Thr,ENST00000455267,;CCDC18,missense_variant,p.Arg667Thr,ENST00000557479,;CCDC18,missense_variant,p.Arg549Thr,ENST00000401026,;CCDC18,missense_variant,p.Arg548Thr,ENST00000343253,;CCDC18,missense_variant,p.Arg348Thr,ENST00000338949,;CCDC18,missense_variant,p.Arg602Thr,ENST00000370276,;CCDC18,5_prime_UTR_variant,,ENST00000334652,;CCDC18,3_prime_UTR_variant,,ENST00000481180,;	C	ENSG00000122483	ENST00000370276	Transcript	missense_variant	1804	1805	602	R/T	aGa/aCa	COSM913382,COSM1296804	.	.	1	CCDC18	HGNC	30370	protein_coding	YES	.	ENSP00000359299	.	.	UPI0001F78148	.	deleterious(0)	probably_damaging(0.982)	12/29	.	hmmpanther:PTHR18875:SF4,hmmpanther:PTHR18875	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGAACTA	.	5	BLCA
JAG1	0	.	GRCh37	20	10621880	10621880	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2929G>C	p.Glu977Gln	p.E977Q	ENST00000254958	24/26	74	69	4	68	68	0	JAG1,missense_variant,p.Glu818Gln,ENST00000423891,;JAG1,missense_variant,p.Glu977Gln,ENST00000254958,;JAG1,downstream_gene_variant,,ENST00000488480,;SLX4IP,downstream_gene_variant,,ENST00000488816,;	G	ENSG00000101384	ENST00000254958	Transcript	missense_variant	3445	2929	977	E/Q	Gag/Cag	COSM1307142,COSM1307141	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	tolerated(0.1)	probably_damaging(0.997)	24/26	.	hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,Prints_domain:PR02059	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GTGCTCCGTAG	.	2	BLCA
CST11	0	.	GRCh37	20	23433219	23433219	+	Splice_Site	SNP	A	A	G	rs763807544	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228+2T>C	.	p.X76_splice	ENST00000377009	.	140	93	47	108	108	0	CST11,splice_donor_variant,,ENST00000377009,;CST11,splice_donor_variant,,ENST00000377007,;	G	ENSG00000125831	ENST00000377009	Transcript	splice_donor_variant	.	.	.	.	.	rs763807544,COSM3840591	.	.	-1	CST11	HGNC	15959	protein_coding	YES	CCDS13155.1	ENSP00000366208	CST11_HUMAN	.	UPI00000714F3	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTCACCTGC	byFrequency	5	BLCA
GDF5OS	0	.	GRCh37	20	34022585	34022585	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.629G>C	p.Arg210Thr	p.R210T	ENST00000374375	2/2	219	141	78	201	201	0	GDF5OS,missense_variant,p.Arg210Thr,ENST00000374375,;GDF5,splice_region_variant,,ENST00000374372,;GDF5,splice_region_variant,,ENST00000374369,;	C	ENSG00000204183	ENST00000374375	Transcript	missense_variant	1071	629	210	R/T	aGa/aCa	.	.	.	1	GDF5OS	HGNC	33435	protein_coding	YES	.	ENSP00000363495	GDF5O_HUMAN	.	UPI0000D61077	.	deleterious_low_confidence(0)	benign(0.412)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTAGAGAGA	.	5	BLCA
CHD6	0	.	GRCh37	20	40050336	40050336	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4939C>G	p.Gln1647Glu	p.Q1647E	ENST00000373233	31/37	42	29	13	40	40	0	CHD6,missense_variant,p.Gln1647Glu,ENST00000373233,;CHD6,downstream_gene_variant,,ENST00000440697,;	C	ENSG00000124177	ENST00000373233	Transcript	missense_variant	5117	4939	1647	Q/E	Caa/Gaa	COSM1307404	.	.	-1	CHD6	HGNC	19057	protein_coding	YES	CCDS13317.1	ENSP00000362330	CHD6_HUMAN	.	UPI0000168656	.	tolerated_low_confidence(0.09)	benign(0.028)	31/37	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTGAGAAT	.	5	BLCA
BTG3	0	.	GRCh37	21	18977218	18977218	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>T	p.Glu91Ter	p.E91*	ENST00000339775	3/6	48	28	19	63	63	0	BTG3,stop_gained,p.Glu91Ter,ENST00000348354,;BTG3,stop_gained,p.Glu91Ter,ENST00000339775,;BTG3,downstream_gene_variant,,ENST00000457956,;BTG3,non_coding_transcript_exon_variant,,ENST00000496601,;BTG3,downstream_gene_variant,,ENST00000464058,;	A	ENSG00000154640	ENST00000339775	Transcript	stop_gained	425	271	91	E/*	Gag/Tag	COSM1307684	.	.	-1	BTG3	HGNC	1132	protein_coding	YES	CCDS46636.1	ENSP00000344609	BTG3_HUMAN	Q9UHB2_HUMAN,C9JLA2_HUMAN	UPI000002A504	.	.	.	3/6	.	hmmpanther:PTHR22978,hmmpanther:PTHR22978:SF24,Pfam_domain:PF07742,SMART_domains:SM00099,Superfamily_domains:SSF160696,Prints_domain:PR00310	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCCTTTG	.	5	BLCA
GABPA	0	.	GRCh37	21	27130452	27130452	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685G>T	p.Asp229Tyr	p.D229Y	ENST00000354828	6/10	71	52	19	79	79	0	GABPA,missense_variant,p.Asp229Tyr,ENST00000400075,;GABPA,missense_variant,p.Asp229Tyr,ENST00000354828,;AP000226.9,downstream_gene_variant,,ENST00000436405,;	T	ENSG00000154727	ENST00000354828	Transcript	missense_variant	1212	685	229	D/Y	Gat/Tat	COSM356957,COSM1307689	.	.	1	GABPA	HGNC	4071	protein_coding	YES	CCDS13575.1	ENSP00000346886	GABPA_HUMAN	A8IE48_HUMAN	UPI000012AFB2	.	deleterious(0)	possibly_damaging(0.521)	6/10	.	PROSITE_profiles:PS51433,hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF28,Pfam_domain:PF02198,Gene3D:1.10.150.50,SMART_domains:SM00251,PIRSF_domain:PIRSF001703,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGATTTT	.	5	BLCA
PDXK	0	.	GRCh37	21	45152403	45152403	+	Intron	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.88-1547C>T	.	.	ENST00000291565	.	110	69	41	122	122	0	PDXK,missense_variant,p.Leu49Phe,ENST00000327574,;PDXK,intron_variant,,ENST00000398081,;PDXK,intron_variant,,ENST00000468090,;PDXK,intron_variant,,ENST00000291565,;PDXK,intron_variant,,ENST00000476313,;PDXK,intron_variant,,ENST00000498040,;PDXK,intron_variant,,ENST00000398085,;PDXK,intron_variant,,ENST00000470029,;PDXK,intron_variant,,ENST00000472777,;PDXK,upstream_gene_variant,,ENST00000481512,;PDXK,downstream_gene_variant,,ENST00000438837,;	T	ENSG00000160209	ENST00000291565	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	PDXK	HGNC	8819	protein_coding	YES	CCDS13699.1	ENSP00000291565	PDXK_HUMAN	G1UI32_HUMAN	UPI0000131524	.	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCTCGGA	.	5	BLCA
AGPAT3	0	.	GRCh37	21	45387862	45387862	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>C	p.Glu72Gln	p.E72Q	ENST00000398063	3/9	38	30	8	61	61	0	AGPAT3,missense_variant,p.Glu72Gln,ENST00000398061,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000422850,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000546158,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000457068,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000398063,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000448287,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000327505,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000445582,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000398058,;AGPAT3,missense_variant,p.Glu72Gln,ENST00000291572,;AGPAT3,non_coding_transcript_exon_variant,,ENST00000479117,;AGPAT3,non_coding_transcript_exon_variant,,ENST00000481319,;AGPAT3,non_coding_transcript_exon_variant,,ENST00000467358,;AGPAT3,upstream_gene_variant,,ENST00000484865,;	C	ENSG00000160216	ENST00000398063	Transcript	missense_variant	706	214	72	E/Q	Gag/Cag	COSM1307856	.	.	1	AGPAT3	HGNC	326	protein_coding	YES	CCDS13703.1	ENSP00000381140	PLCC_HUMAN	C9JQX8_HUMAN,C9JL26_HUMAN,C9JK35_HUMAN,C9J184_HUMAN	UPI000004616E	.	tolerated(0.09)	benign(0.014)	3/9	.	hmmpanther:PTHR10983,hmmpanther:PTHR10983:SF9,Superfamily_domains:0039877	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACGGAGTGT	.	5	BLCA
KRTAP10-3	0	.	GRCh37	21	45978005	45978005	+	Silent	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.594C>G	p.%3D	p.L198L	ENST00000391620	1/1	41	34	7	62	62	0	KRTAP10-3,synonymous_variant,p.%3D,ENST00000391620,;TSPEAR,intron_variant,,ENST00000397916,;TSPEAR,intron_variant,,ENST00000323084,;	C	ENSG00000212935	ENST00000391620	Transcript	synonymous_variant	639	594	198	L	ctC/ctG	COSM1307880	.	.	-1	KRTAP10-3	HGNC	22968	protein_coding	YES	CCDS42956.1	ENSP00000375478	KR103_HUMAN	.	UPI00003D4D6D	.	.	.	1/1	.	hmmpanther:PTHR23262:SF30,hmmpanther:PTHR23262	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCAGAGGAG	.	5	BLCA
MED15	0	.	GRCh37	22	20909408	20909408	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424G>T	p.Ala142Ser	p.A142S	ENST00000263205	5/18	11	8	3	12	12	0	MED15,missense_variant,p.Ala116Ser,ENST00000414658,;MED15,missense_variant,p.Ala95Ser,ENST00000424287,;MED15,missense_variant,p.Ala142Ser,ENST00000263205,;MED15,missense_variant,p.Ala142Ser,ENST00000292733,;MED15,missense_variant,p.Ala116Ser,ENST00000406969,;MED15,missense_variant,p.Ala116Ser,ENST00000445987,;MED15,missense_variant,p.Ala83Ser,ENST00000423862,;MED15,missense_variant,p.Ala116Ser,ENST00000445189,;MED15,missense_variant,p.Ala103Ser,ENST00000457322,;MED15,missense_variant,p.Ala116Ser,ENST00000541476,;MED15,intron_variant,,ENST00000542773,;MED15,intron_variant,,ENST00000432052,;MED15,intron_variant,,ENST00000382974,;MED15,intron_variant,,ENST00000428629,;MED15,intron_variant,,ENST00000425759,;MED15,downstream_gene_variant,,ENST00000451058,;MED15,non_coding_transcript_exon_variant,,ENST00000473028,;MED15,non_coding_transcript_exon_variant,,ENST00000477824,;MED15,non_coding_transcript_exon_variant,,ENST00000487550,;MED15,3_prime_UTR_variant,,ENST00000444094,;MED15,3_prime_UTR_variant,,ENST00000433831,;MED15,3_prime_UTR_variant,,ENST00000441501,;MED15,non_coding_transcript_exon_variant,,ENST00000476767,;MED15,non_coding_transcript_exon_variant,,ENST00000492381,;MED15,downstream_gene_variant,,ENST00000420849,;MED15,downstream_gene_variant,,ENST00000486656,;	T	ENSG00000099917	ENST00000263205	Transcript	missense_variant	493	424	142	A/S	Gct/Tct	COSM1307974,COSM1307975	.	.	1	MED15	HGNC	14248	protein_coding	YES	CCDS33602.1	ENSP00000263205	MED15_HUMAN	Q69YK5_HUMAN,C9JZV5_HUMAN,C9JM58_HUMAN,C9JGN2_HUMAN,C9J1I1_HUMAN,B4DM43_HUMAN,B3KWF1_HUMAN	UPI00001313C4	.	tolerated_low_confidence(0.56)	unknown(0)	5/18	.	hmmpanther:PTHR31804,Pfam_domain:PF09606	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCATGGCTGTC	.	3	BLCA
SLC7A4	0	.	GRCh37	22	21384120	21384120	+	Silent	SNP	C	C	T	rs761948595	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1503G>A	p.%3D	p.S501S	ENST00000382932	3/5	32	26	6	30	30	0	SLC7A4,synonymous_variant,p.%3D,ENST00000403586,;SLC7A4,synonymous_variant,p.%3D,ENST00000382932,;P2RX6,downstream_gene_variant,,ENST00000401443,;P2RX6,downstream_gene_variant,,ENST00000413302,;P2RX6,downstream_gene_variant,,ENST00000402329,;SLC7A4,downstream_gene_variant,,ENST00000426145,;P2RX6,downstream_gene_variant,,ENST00000336296,;P2RX6,downstream_gene_variant,,ENST00000443995,;MIR649,downstream_gene_variant,,ENST00000384843,;AC002472.11,upstream_gene_variant,,ENST00000450652,;P2RX6,downstream_gene_variant,,ENST00000442475,;P2RX6,downstream_gene_variant,,ENST00000487342,;P2RX6,downstream_gene_variant,,ENST00000432930,;P2RX6,downstream_gene_variant,,ENST00000422210,;	T	ENSG00000099960	ENST00000382932	Transcript	synonymous_variant	1571	1503	501	S	tcG/tcA	rs761948595,COSM1307989	.	.	-1	SLC7A4	HGNC	11062	protein_coding	YES	CCDS33608.1	ENSP00000372390	CTR4_HUMAN	C9JM63_HUMAN	UPI0000169EC7	.	.	.	3/5	.	hmmpanther:PTHR11785:SF196,hmmpanther:PTHR11785,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGTCGAGTT	.	2	BLCA
HPS4	0	.	GRCh37	22	26860275	26860275	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1321G>C	p.Glu441Gln	p.E441Q	ENST00000398145	11/14	125	95	30	115	115	0	HPS4,missense_variant,p.Glu459Gln,ENST00000422379,;HPS4,missense_variant,p.Glu441Gln,ENST00000336873,;HPS4,missense_variant,p.Glu454Gln,ENST00000398141,;HPS4,missense_variant,p.Glu436Gln,ENST00000402105,;HPS4,missense_variant,p.Glu441Gln,ENST00000398145,;HPS4,upstream_gene_variant,,ENST00000493455,;HPS4,upstream_gene_variant,,ENST00000519774,;HPS4,downstream_gene_variant,,ENST00000459918,;HPS4,3_prime_UTR_variant,,ENST00000439453,;HPS4,3_prime_UTR_variant,,ENST00000429411,;HPS4,3_prime_UTR_variant,,ENST00000464362,;HPS4,non_coding_transcript_exon_variant,,ENST00000496385,;HPS4,non_coding_transcript_exon_variant,,ENST00000466781,;HPS4,intron_variant,,ENST00000485842,;	G	ENSG00000100099	ENST00000398145	Transcript	missense_variant	1938	1321	441	E/Q	Gag/Cag	COSM1308027,COSM1308028	.	.	-1	HPS4	HGNC	15844	protein_coding	YES	CCDS13835.1	ENSP00000381213	HPS4_HUMAN	.	UPI000012CB6F	.	deleterious(0.05)	benign(0.167)	11/14	.	hmmpanther:PTHR14407:SF9,hmmpanther:PTHR14407	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L443V|c.1327C>G|3,BUFFER|p.L456V|c.1366C>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCTTGGG	.	5	BLCA
MORC2	0	.	GRCh37	22	31332626	31332626	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1423G>C	p.Glu475Gln	p.E475Q	ENST00000215862	18/27	99	52	47	69	69	0	MORC2,missense_variant,p.Glu475Gln,ENST00000215862,;MORC2,missense_variant,p.Glu537Gln,ENST00000397641,;MORC2,upstream_gene_variant,,ENST00000445980,;MORC2-AS1,downstream_gene_variant,,ENST00000441558,;MORC2,non_coding_transcript_exon_variant,,ENST00000469915,;	G	ENSG00000133422	ENST00000215862	Transcript	missense_variant	2787	1423	475	E/Q	Gag/Cag	COSM1308071	.	.	-1	MORC2	HGNC	23573	protein_coding	YES	CCDS33636.1	ENSP00000215862	MORC2_HUMAN	.	UPI000012DB74	.	deleterious(0.03)	possibly_damaging(0.799)	18/27	.	PROSITE_profiles:PS51050,hmmpanther:PTHR23337:SF7,hmmpanther:PTHR23337,Pfam_domain:PF07496	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCACACC	.	5	BLCA
CELSR1	0	.	GRCh37	22	46787591	46787591	+	Silent	SNP	G	G	A	rs748244719	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6087C>T	p.%3D	p.I2029I	ENST00000262738	15/35	28	23	5	28	28	0	CELSR1,synonymous_variant,p.%3D,ENST00000262738,;	A	ENSG00000075275	ENST00000262738	Transcript	synonymous_variant	6087	6087	2029	I	atC/atT	rs748244719,COSM1308262	.	.	-1	CELSR1	HGNC	1850	protein_coding	YES	CCDS14076.1	ENSP00000262738	CELR1_HUMAN	Q8NDT0_HUMAN	UPI0000040648	.	.	.	15/35	.	Superfamily_domains:SSF57196,SMART_domains:SM00180,Pfam_domain:PF00053,Gene3D:2.10.25.10,PROSITE_patterns:PS00022,PROSITE_patterns:PS01248,hmmpanther:PTHR24026,PROSITE_profiles:PS50027	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCCGATGAC	.	5	BLCA
NTSR2	0	.	GRCh37	2	11802346	11802346	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645C>T	p.%3D	p.F215F	ENST00000306928	2/4	178	169	9	240	240	0	NTSR2,synonymous_variant,p.%3D,ENST00000306928,;AC110754.3,downstream_gene_variant,,ENST00000399740,;	A	ENSG00000169006	ENST00000306928	Transcript	synonymous_variant	680	645	215	F	ttC/ttT	COSM1305582	.	.	-1	NTSR2	HGNC	8040	protein_coding	YES	CCDS1681.1	ENSP00000303686	NTR2_HUMAN	.	UPI000013EBAA	.	.	.	2/4	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24243,hmmpanther:PTHR24243:SF10,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCACGAAGGA	.	2	BLCA
WDR33	0	.	GRCh37	2	128477268	128477268	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2331G>T	p.Met777Ile	p.M777I	ENST00000322313	16/22	13	9	4	14	14	0	WDR33,missense_variant,p.Met777Ile,ENST00000322313,;	A	ENSG00000136709	ENST00000322313	Transcript	missense_variant	2490	2331	777	M/I	atG/atT	COSM1305623	.	.	-1	WDR33	HGNC	25651	protein_coding	YES	CCDS2150.1	ENSP00000325377	WDR33_HUMAN	C9J8B4_HUMAN,B9A053_HUMAN	UPI000013D032	.	deleterious_low_confidence(0.04)	benign(0.064)	16/22	.	hmmpanther:PTHR22836	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AATCCCATCAG	.	3	BLCA
TTN	0	.	GRCh37	2	179432361	179432361	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78498G>C	p.Lys26166Asn	p.K26166N	ENST00000589042	326/363	72	51	21	69	69	0	TTN,missense_variant,p.Lys17226Asn,ENST00000359218,;TTN,missense_variant,p.Lys24525Asn,ENST00000591111,;TTN,missense_variant,p.Lys26166Asn,ENST00000589042,;TTN,missense_variant,p.Lys17293Asn,ENST00000342175,;TTN,missense_variant,p.Lys23598Asn,ENST00000342992,;TTN,missense_variant,p.Lys17101Asn,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	78723	78498	26166	K/N	aaG/aaC	COSM1306019,COSM1306018,COSM1306015,COSM1306017,COSM1306016	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTCTTTGC	.	5	BLCA
TTN	0	.	GRCh37	2	179497730	179497730	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43128C>T	p.%3D	p.I14376I	ENST00000589042	234/363	43	20	22	84	84	0	TTN,synonymous_variant,p.%3D,ENST00000359218,;TTN,synonymous_variant,p.%3D,ENST00000342175,;TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000460472,;TTN,downstream_gene_variant,,ENST00000414766,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,upstream_gene_variant,,ENST00000418062,;TTN-AS1,upstream_gene_variant,,ENST00000431752,;TTN-AS1,downstream_gene_variant,,ENST00000589907,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	43353	43128	14376	I	atC/atT	COSM1306124,COSM1306123,COSM1306120,COSM1306122,COSM1306121	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	234/363	.	hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAGGATCAG	.	5	BLCA
TRAK2	0	.	GRCh37	2	202264201	202264201	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379G>A	p.Glu127Lys	p.E127K	ENST00000332624	5/16	76	61	15	92	92	0	TRAK2,missense_variant,p.Glu127Lys,ENST00000332624,;TRAK2,missense_variant,p.Glu127Lys,ENST00000430254,;STRADB,intron_variant,,ENST00000458269,;TRAK2,non_coding_transcript_exon_variant,,ENST00000486291,;	T	ENSG00000115993	ENST00000332624	Transcript	missense_variant	808	379	127	E/K	Gaa/Aaa	COSM1306298	.	.	-1	TRAK2	HGNC	13206	protein_coding	YES	CCDS2347.1	ENSP00000328875	TRAK2_HUMAN	Q53TT7_HUMAN,Q53RS6_HUMAN	UPI0000125022	.	deleterious(0.01)	probably_damaging(1)	5/16	.	hmmpanther:PTHR15751:SF13,hmmpanther:PTHR15751,Pfam_domain:PF04849	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCCAGAT	.	5	BLCA
COL4A4	0	.	GRCh37	2	227924258	227924258	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2246C>A	p.Ser749Ter	p.S749*	ENST00000396625	28/48	88	68	20	105	105	0	COL4A4,stop_gained,p.Ser749Ter,ENST00000329662,;COL4A4,stop_gained,p.Ser749Ter,ENST00000396625,;	T	ENSG00000081052	ENST00000396625	Transcript	stop_gained	2454	2246	749	S/*	tCa/tAa	COSM3798693,COSM418843	.	.	-1	COL4A4	HGNC	2206	protein_coding	YES	CCDS42828.1	ENSP00000379866	CO4A4_HUMAN	.	UPI000013D987	.	.	.	28/48	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24021:SF5,hmmpanther:PTHR24021	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGAGCCG	.	5	BLCA
TRIP12	0	.	GRCh37	2	230723895	230723895	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.494C>G	p.Ser165Ter	p.S165*	ENST00000283943	3/41	33	12	20	63	63	0	TRIP12,stop_gained,p.Ser207Ter,ENST00000543084,;TRIP12,stop_gained,p.Ser207Ter,ENST00000409677,;TRIP12,stop_gained,p.Ser207Ter,ENST00000389044,;TRIP12,stop_gained,p.Ser35Ter,ENST00000453485,;TRIP12,stop_gained,p.Ser165Ter,ENST00000283943,;TRIP12,intron_variant,,ENST00000389045,;TRIP12,downstream_gene_variant,,ENST00000343290,;TRIP12,downstream_gene_variant,,ENST00000430954,;TRIP12,downstream_gene_variant,,ENST00000428959,;TRIP12,downstream_gene_variant,,ENST00000435716,;TRIP12,non_coding_transcript_exon_variant,,ENST00000479037,;	C	ENSG00000153827	ENST00000283943	Transcript	stop_gained	673	494	165	S/*	tCa/tGa	COSM1306519	.	.	-1	TRIP12	HGNC	12306	protein_coding	YES	CCDS33391.1	ENSP00000283943	TRIPC_HUMAN	Q57Z94_HUMAN,F8W9P3_HUMAN,C9JSX9_HUMAN,C9JLJ5_HUMAN	UPI000013739D	.	.	.	3/41	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF73,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTGATTCA	.	5	BLCA
SP100	0	.	GRCh37	2	231308897	231308897	+	Missense_Mutation	SNP	C	C	T	rs757596514	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.275C>T	p.Ser92Phe	p.S92F	ENST00000340126	4/29	44	29	15	55	55	0	SP100,missense_variant,p.Ser92Phe,ENST00000409341,;SP100,missense_variant,p.Ser67Phe,ENST00000409824,;SP100,missense_variant,p.Ser57Phe,ENST00000409897,;SP100,missense_variant,p.Ser92Phe,ENST00000340126,;SP100,missense_variant,p.Ser67Phe,ENST00000432979,;SP100,missense_variant,p.Ser92Phe,ENST00000409112,;SP100,missense_variant,p.Ser92Phe,ENST00000264052,;SP100,missense_variant,p.Ser92Phe,ENST00000341950,;SP100,missense_variant,p.Ser67Phe,ENST00000427101,;	T	ENSG00000067066	ENST00000340126	Transcript	missense_variant	306	275	92	S/F	tCt/tTt	rs757596514,COSM1306528,COSM1406126,COSM1406125,COSM1306527	.	.	1	SP100	HGNC	11206	protein_coding	YES	CCDS42832.1	ENSP00000343023	SP100_HUMAN	Q4ZG64_HUMAN	UPI000013DD6A	.	tolerated(1)	possibly_damaging(0.683)	4/29	.	PROSITE_profiles:PS51414,hmmpanther:PTHR13711:SF45,hmmpanther:PTHR13711,Pfam_domain:PF03172	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCTCAAG	.	5	BLCA
KIF1A	0	.	GRCh37	2	241710491	241710491	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1238C>G	p.Ser413Ter	p.S413*	ENST00000498729	15/50	63	49	14	76	76	0	KIF1A,stop_gained,p.Ser413Ter,ENST00000498729,;KIF1A,stop_gained,p.Ser404Ter,ENST00000320389,;KIF1A,stop_gained,p.Ser413Ter,ENST00000404283,;KIF1A,downstream_gene_variant,,ENST00000428768,;KIF1A,non_coding_transcript_exon_variant,,ENST00000463388,;	C	ENSG00000130294	ENST00000498729	Transcript	stop_gained	1485	1238	413	S/*	tCa/tGa	COSM1306598	.	.	-1	KIF1A	HGNC	888	protein_coding	YES	CCDS58757.1	ENSP00000438388	KIF1A_HUMAN	G1UI30_HUMAN,C9JBH1_HUMAN	UPI0002065B81	.	.	.	15/50	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24115:SF361,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATGAGGGG	.	5	BLCA
NEU4	0	.	GRCh37	2	242757402	242757402	+	Silent	SNP	C	C	T	rs372998493	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522C>T	p.%3D	p.P174P	ENST00000325935	4/4	16	7	9	21	21	0	NEU4,missense_variant,p.Pro76Leu,ENST00000415936,;NEU4,missense_variant,p.Pro88Leu,ENST00000426032,;NEU4,synonymous_variant,p.%3D,ENST00000407683,;NEU4,synonymous_variant,p.%3D,ENST00000325935,;NEU4,synonymous_variant,p.%3D,ENST00000391969,;NEU4,synonymous_variant,p.%3D,ENST00000405370,;NEU4,synonymous_variant,p.%3D,ENST00000420288,;NEU4,synonymous_variant,p.%3D,ENST00000404257,;NEU4,synonymous_variant,p.%3D,ENST00000423583,;NEU4,downstream_gene_variant,,ENST00000435934,;NEU4,downstream_gene_variant,,ENST00000435894,;NEU4,downstream_gene_variant,,ENST00000428592,;AC114730.3,upstream_gene_variant,,ENST00000420272,;NEU4,3_prime_UTR_variant,,ENST00000435855,;NEU4,non_coding_transcript_exon_variant,,ENST00000406147,;NEU4,downstream_gene_variant,,ENST00000488997,;NEU4,downstream_gene_variant,,ENST00000494678,;NEU4,downstream_gene_variant,,ENST00000476542,;	T	ENSG00000204099	ENST00000325935	Transcript	synonymous_variant	951	522	174	P	ccC/ccT	rs372998493,COSM1306620	.	.	1	NEU4	HGNC	21328	protein_coding	YES	CCDS54441.1	ENSP00000320318	NEUR4_HUMAN	C9JRN9_HUMAN,C9J5X2_HUMAN,C9J2V4_HUMAN,B3KR54_HUMAN	UPI0000EE378E	.	.	.	4/4	.	Superfamily_domains:SSF50939,Pfam_domain:PF13088,Gene3D:2.120.10.10,hmmpanther:PTHR10628:SF8,hmmpanther:PTHR10628	.	.	.	.	.	.	.	T:0.0005	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G177G|c.531C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCCCGGCCA	byFrequency|byCluster	5	BLCA
CAPN13	0	.	GRCh37	2	30976054	30976054	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952C>G	p.Gln318Glu	p.Q318E	ENST00000295055	10/23	75	51	24	95	95	0	CAPN13,missense_variant,p.Gln318Glu,ENST00000534090,;CAPN13,missense_variant,p.Gln318Glu,ENST00000295055,;CAPN13,downstream_gene_variant,,ENST00000465960,;CAPN13,missense_variant,p.Gln318Glu,ENST00000458085,;CAPN13,upstream_gene_variant,,ENST00000465450,;	C	ENSG00000162949	ENST00000295055	Transcript	missense_variant	1129	952	318	Q/E	Caa/Gaa	COSM1306714	.	.	-1	CAPN13	HGNC	16663	protein_coding	YES	CCDS46252.1	ENSP00000295055	CAN13_HUMAN	.	UPI00000463E5	.	tolerated(0.23)	benign(0.219)	10/23	.	PROSITE_profiles:PS50203,hmmpanther:PTHR10183:SF37,hmmpanther:PTHR10183,Gene3D:3.90.70.10,Pfam_domain:PF00648,SMART_domains:SM00230,Superfamily_domains:SSF54001,Prints_domain:PR00704	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGACACG	.	5	BLCA
PRKD3	0	.	GRCh37	2	37481367	37481367	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2479C>T	p.Leu827Phe	p.L827F	ENST00000379066	18/19	63	37	26	74	74	0	PRKD3,missense_variant,p.Leu827Phe,ENST00000234179,;PRKD3,missense_variant,p.Leu827Phe,ENST00000379066,;PRKD3,downstream_gene_variant,,ENST00000452104,;NDUFAF7,downstream_gene_variant,,ENST00000441905,;PRKD3,downstream_gene_variant,,ENST00000469275,;	A	ENSG00000115825	ENST00000379066	Transcript	missense_variant	3242	2479	827	L/F	Ctt/Ttt	COSM1306776,COSM1306775	.	.	-1	PRKD3	HGNC	9408	protein_coding	YES	CCDS1789.1	ENSP00000368356	KPCD3_HUMAN	C9JKP8_HUMAN	UPI0000035B4D	.	deleterious(0)	probably_damaging(0.964)	18/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22968,hmmpanther:PTHR22968:SF11,Pfam_domain:PF00069,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000552,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTAAGAGATT	.	5	BLCA
THUMPD2	0	.	GRCh37	2	39964112	39964112	+	Silent	SNP	A	A	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1275T>A	p.%3D	p.P425P	ENST00000505747	10/10	101	65	36	122	122	0	THUMPD2,synonymous_variant,p.%3D,ENST00000505747,;THUMPD2,synonymous_variant,p.%3D,ENST00000260619,;THUMPD2,3_prime_UTR_variant,,ENST00000530522,;THUMPD2,3_prime_UTR_variant,,ENST00000378727,;THUMPD2,non_coding_transcript_exon_variant,,ENST00000530095,;THUMPD2,non_coding_transcript_exon_variant,,ENST00000460072,;	T	ENSG00000138050	ENST00000505747	Transcript	synonymous_variant	1303	1275	425	P	ccT/ccA	COSM1306793	.	.	-1	THUMPD2	HGNC	14890	protein_coding	YES	CCDS1805.2	ENSP00000423933	THUM2_HUMAN	D6W593_HUMAN	UPI0000D6DA73	.	.	.	10/10	.	hmmpanther:PTHR14911:SF1,hmmpanther:PTHR14911	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAAGGGAT	.	5	BLCA
SPTBN1	0	.	GRCh37	2	54895611	54895611	+	Missense_Mutation	SNP	G	G	C	rs150630405	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7000G>C	p.Val2334Leu	p.V2334L	ENST00000356805	36/36	68	37	31	92	92	0	SPTBN1,missense_variant,p.Val2334Leu,ENST00000356805,;SPTBN1,non_coding_transcript_exon_variant,,ENST00000467371,;	C	ENSG00000115306	ENST00000356805	Transcript	missense_variant	7281	7000	2334	V/L	Gtc/Ctc	rs150630405,COSM1306883	.	.	1	SPTBN1	HGNC	11275	protein_coding	YES	CCDS33198.1	ENSP00000349259	SPTB2_HUMAN	Q53RC4_HUMAN,F8W6C1_HUMAN,D6W5C0_HUMAN,B2ZZ89_HUMAN	UPI0000DBEE4B	.	tolerated(0.69)	benign(0.051)	36/36	.	PIRSF_domain:PIRSF002297,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF226	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0.0007	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTCGTCACC	byCluster|by1000G	5	BLCA
CD207	0	.	GRCh37	2	71060100	71060100	+	Nonsense_Mutation	SNP	C	C	T	rs782816989	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648G>A	p.Trp216Ter	p.W216*	ENST00000410009	4/6	55	39	16	61	61	0	CD207,stop_gained,p.Trp216Ter,ENST00000410009,;	T	ENSG00000116031	ENST00000410009	Transcript	stop_gained	694	648	216	W/*	tgG/tgA	rs782816989,COSM1306956	.	.	-1	CD207	HGNC	17935	protein_coding	YES	.	ENSP00000386378	CLC4K_HUMAN	.	UPI0000410F0C	.	.	.	4/6	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF14,hmmpanther:PTHR22802,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATACCAGGT	byFrequency	5	BLCA
MOGS	0	.	GRCh37	2	74691751	74691751	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451C>T	p.His151Tyr	p.H151Y	ENST00000233616	2/4	107	69	38	127	127	0	MOGS,missense_variant,p.His151Tyr,ENST00000233616,;MOGS,missense_variant,p.His45Tyr,ENST00000452063,;MOGS,missense_variant,p.His32Tyr,ENST00000414701,;MOGS,missense_variant,p.His151Tyr,ENST00000409065,;MOGS,missense_variant,p.His45Tyr,ENST00000448666,;MOGS,intron_variant,,ENST00000535045,;WBP1,downstream_gene_variant,,ENST00000393972,;WBP1,downstream_gene_variant,,ENST00000428943,;WBP1,downstream_gene_variant,,ENST00000409737,;WBP1,downstream_gene_variant,,ENST00000233615,;MOGS,intron_variant,,ENST00000462443,;WBP1,downstream_gene_variant,,ENST00000474185,;MOGS,upstream_gene_variant,,ENST00000489655,;WBP1,downstream_gene_variant,,ENST00000494741,;WBP1,downstream_gene_variant,,ENST00000466835,;WBP1,downstream_gene_variant,,ENST00000464774,;WBP1,downstream_gene_variant,,ENST00000470536,;MOGS,non_coding_transcript_exon_variant,,ENST00000486036,;WBP1,downstream_gene_variant,,ENST00000490120,;INO80B,downstream_gene_variant,,ENST00000452361,;WBP1,downstream_gene_variant,,ENST00000492047,;INO80B,downstream_gene_variant,,ENST00000441673,;WBP1,downstream_gene_variant,,ENST00000484744,;WBP1,downstream_gene_variant,,ENST00000473467,;MOGS,upstream_gene_variant,,ENST00000462189,;WBP1,downstream_gene_variant,,ENST00000466303,;	A	ENSG00000115275	ENST00000233616	Transcript	missense_variant	614	451	151	H/Y	Cac/Tac	COSM1307004	.	.	-1	MOGS	HGNC	24862	protein_coding	YES	CCDS42700.1	ENSP00000233616	MOGS_HUMAN	C9JDQ1_HUMAN,C9J8D4_HUMAN	UPI000006FEFF	.	deleterious(0)	probably_damaging(0.967)	2/4	.	hmmpanther:PTHR10412:SF1,hmmpanther:PTHR10412,Pfam_domain:PF03200	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCGTGGAACT	.	5	BLCA
M1AP	0	.	GRCh37	2	74842183	74842183	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334C>T	p.%3D	p.L112L	ENST00000290536	3/11	142	102	40	151	151	0	M1AP,synonymous_variant,p.%3D,ENST00000409585,;M1AP,synonymous_variant,p.%3D,ENST00000290536,;M1AP,synonymous_variant,p.%3D,ENST00000536235,;M1AP,synonymous_variant,p.%3D,ENST00000421985,;M1AP,5_prime_UTR_variant,,ENST00000358434,;M1AP,non_coding_transcript_exon_variant,,ENST00000478437,;M1AP,synonymous_variant,p.%3D,ENST00000422394,;M1AP,intron_variant,,ENST00000438226,;AC005033.6,downstream_gene_variant,,ENST00000428904,;	A	ENSG00000159374	ENST00000290536	Transcript	synonymous_variant	451	334	112	L	Ctg/Ttg	COSM1307011	.	.	-1	M1AP	HGNC	25183	protein_coding	YES	CCDS33229.1	ENSP00000290536	M1AP_HUMAN	C9JPR9_HUMAN	UPI0000072570	.	.	.	3/11	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCAGAGAAG	.	5	BLCA
LYG2	0	.	GRCh37	2	99861855	99861855	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251T>A	p.Ile84Asn	p.I84N	ENST00000333017	4/6	71	55	15	105	105	0	LYG2,missense_variant,p.Ile84Asn,ENST00000409679,;LYG2,missense_variant,p.Ile84Asn,ENST00000423306,;LYG2,missense_variant,p.Ile84Asn,ENST00000423800,;LYG2,missense_variant,p.Ile84Asn,ENST00000409238,;LYG2,missense_variant,p.Ile84Asn,ENST00000333017,;C2orf15,intron_variant,,ENST00000424491,;	T	ENSG00000185674	ENST00000333017	Transcript	missense_variant	364	251	84	I/N	aTc/aAc	COSM1307134,COSM293647	.	.	-1	LYG2	HGNC	29615	protein_coding	YES	CCDS2042.1	ENSP00000327533	LYG2_HUMAN	C9JBA4_HUMAN	UPI0000049D92	.	deleterious(0)	probably_damaging(1)	4/6	.	hmmpanther:PTHR31698:SF4,hmmpanther:PTHR31698,Pfam_domain:PF01464,Gene3D:1.10.530.10,PIRSF_domain:PIRSF001065,Superfamily_domains:SSF53955	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTGATCAGA	.	5	BLCA
CBLB	0	.	GRCh37	3	105377858	105377858	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2905G>A	p.Glu969Lys	p.E969K	ENST00000264122	19/19	78	48	29	105	105	0	CBLB,missense_variant,p.Glu184Lys,ENST00000407712,;CBLB,missense_variant,p.Glu308Lys,ENST00000394030,;CBLB,missense_variant,p.Glu947Lys,ENST00000394027,;CBLB,missense_variant,p.Glu969Lys,ENST00000264122,;CBLB,non_coding_transcript_exon_variant,,ENST00000476370,;	T	ENSG00000114423	ENST00000264122	Transcript	missense_variant	3227	2905	969	E/K	Gaa/Aaa	COSM1308346	.	.	-1	CBLB	HGNC	1542	protein_coding	YES	CCDS2948.1	ENSP00000264122	CBLB_HUMAN	C9JU85_HUMAN,B5MC15_HUMAN	UPI00001AE89F	.	deleterious_low_confidence(0)	probably_damaging(0.989)	19/19	.	PROSITE_profiles:PS50030,hmmpanther:PTHR23007,hmmpanther:PTHR23007:SF3,SMART_domains:SM00165	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTCTCGGA	.	5	BLCA
VEPH1	0	.	GRCh37	3	157082155	157082155	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274C>G	p.Ser425Cys	p.S425C	ENST00000362010	8/14	62	52	10	39	39	0	VEPH1,missense_variant,p.Ser425Cys,ENST00000362010,;VEPH1,missense_variant,p.Ser425Cys,ENST00000392833,;VEPH1,missense_variant,p.Ser425Cys,ENST00000392832,;VEPH1,missense_variant,p.Ser425Cys,ENST00000543418,;RP11-550I24.2,intron_variant,,ENST00000487238,;VEPH1,non_coding_transcript_exon_variant,,ENST00000488772,;VEPH1,non_coding_transcript_exon_variant,,ENST00000472419,;	C	ENSG00000197415	ENST00000362010	Transcript	missense_variant	1582	1274	425	S/C	tCt/tGt	COSM1308761	.	.	-1	VEPH1	HGNC	25735	protein_coding	YES	CCDS3179.1	ENSP00000354919	MELT_HUMAN	C9JRT0_HUMAN,C9J4U8_HUMAN,C9J379_HUMAN,C9IZY4_HUMAN	UPI000013F6EE	.	deleterious(0)	probably_damaging(0.947)	8/14	.	hmmpanther:PTHR21630,hmmpanther:PTHR21630:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATAGAGCCA	.	5	BLCA
MFSD1	0	.	GRCh37	3	158538031	158538031	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.926A>C	p.Lys309Thr	p.K309T	ENST00000415822	9/16	136	89	47	87	87	0	MFSD1,missense_variant,p.Lys270Thr,ENST00000392813,;MFSD1,missense_variant,p.Lys94Thr,ENST00000477743,;MFSD1,missense_variant,p.Lys309Thr,ENST00000415822,;MFSD1,missense_variant,p.Lys260Thr,ENST00000264266,;MFSD1,3_prime_UTR_variant,,ENST00000484166,;MFSD1,3_prime_UTR_variant,,ENST00000480292,;MFSD1,3_prime_UTR_variant,,ENST00000471500,;MFSD1,non_coding_transcript_exon_variant,,ENST00000465624,;MFSD1,upstream_gene_variant,,ENST00000468409,;MFSD1,upstream_gene_variant,,ENST00000465235,;MFSD1,downstream_gene_variant,,ENST00000489639,;	C	ENSG00000118855	ENST00000415822	Transcript	missense_variant	1067	926	309	K/T	aAg/aCg	COSM1136969,COSM1136968	.	.	1	MFSD1	HGNC	25874	protein_coding	YES	CCDS3185.2	ENSP00000403117	MFSD1_HUMAN	C9JAC3_HUMAN	UPI0001AE7604	.	tolerated(0.21)	benign(0.333)	9/16	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24003:SF84,hmmpanther:PTHR24003,Pfam_domain:PF07690,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGTAAAGGACT	.	3	BLCA
PIK3CA	0	.	GRCh37	3	178922324	178922324	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1093G>A	p.Glu365Lys	p.E365K	ENST00000263967	6/21	159	83	76	136	136	0	PIK3CA,missense_variant,p.Glu365Lys,ENST00000263967,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1250	1093	365	E/K	Gaa/Aaa	COSM86044,COSM673906	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.05)	possibly_damaging(0.705)	6/21	.	PROSITE_profiles:PS51547,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00792,Gene3D:2.60.40.150,SMART_domains:SM00142,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E365K|c.1093G>A|6,SITE|p.E365K|c.1093G>A|4,BUFFER|p.G364R|c.1090G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGAGAACCC	.	5	BLCA
PSMD2	0	.	GRCh37	3	184018065	184018065	+	Intron	SNP	C	C	A	rs377401512	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193-3C>A	.	.	ENST00000310118	.	66	50	15	62	62	0	PSMD2,splice_region_variant,,ENST00000417952,;PSMD2,splice_region_variant,,ENST00000310118,;EIF2B5,intron_variant,,ENST00000444495,;PSMD2,upstream_gene_variant,,ENST00000435761,;PSMD2,upstream_gene_variant,,ENST00000439383,;PSMD2,splice_region_variant,,ENST00000459910,;PSMD2,upstream_gene_variant,,ENST00000463602,;PSMD2,splice_region_variant,,ENST00000433010,;PSMD2,splice_region_variant,,ENST00000445558,;PSMD2,splice_region_variant,,ENST00000476461,;PSMD2,splice_region_variant,,ENST00000492191,;PSMD2,splice_region_variant,,ENST00000487475,;PSMD2,upstream_gene_variant,,ENST00000466987,;PSMD2,upstream_gene_variant,,ENST00000491149,;PSMD2,upstream_gene_variant,,ENST00000488085,;PSMD2,upstream_gene_variant,,ENST00000485937,;PSMD2,upstream_gene_variant,,ENST00000460628,;	A	ENSG00000175166	ENST00000310118	Transcript	splice_region_variant	.	.	.	.	.	rs377401512	.	.	1	PSMD2	HGNC	9559	protein_coding	YES	CCDS3258.1	ENSP00000310129	PSMD2_HUMAN	Q9NSM5_HUMAN,E7EW34_HUMAN	UPI000013277E	.	.	.	.	2/20	.	.	.	.	.	.	.	.	T:0.0009	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATCAGGAG	byFrequency|byCluster	4	BLCA
TGFBR2	0	.	GRCh37	3	30713543	30713543	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.943G>A	p.Glu315Lys	p.E315K	ENST00000359013	5/8	87	17	70	118	118	0	TGFBR2,missense_variant,p.Glu290Lys,ENST00000295754,;TGFBR2,missense_variant,p.Glu315Lys,ENST00000359013,;	A	ENSG00000163513	ENST00000359013	Transcript	missense_variant	1226	943	315	E/K	Gag/Aag	COSM1309022,COSM4116802	.	.	1	TGFBR2	HGNC	11773	protein_coding	YES	CCDS33727.1	ENSP00000351905	TGFR2_HUMAN	D2JYI1_HUMAN	UPI000053030E	.	deleterious(0)	probably_damaging(0.999)	5/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255,hmmpanther:PTHR23255:SF55,Gene3D:3.30.200.20,Pfam_domain:PF00069,PIRSF_domain:PIRSF037393,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACAGAGAAG	.	5	BLCA
ULK4	0	.	GRCh37	3	41746766	41746766	+	Missense_Mutation	SNP	G	G	A	rs565139607	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2666C>T	p.Thr889Met	p.T889M	ENST00000301831	26/37	64	11	52	56	56	0	ULK4,missense_variant,p.Thr889Met,ENST00000301831,;	A	ENSG00000168038	ENST00000301831	Transcript	missense_variant	3129	2666	889	T/M	aCg/aTg	rs565139607,COSM1309109,COSM1309108	.	.	-1	ULK4	HGNC	15784	protein_coding	YES	CCDS43071.1	ENSP00000301831	ULK4_HUMAN	B3KSE5_HUMAN	UPI0000E8267C	.	deleterious(0)	probably_damaging(0.932)	26/37	.	hmmpanther:PTHR22983,hmmpanther:PTHR22983:SF14,Superfamily_domains:SSF48371	A:0.0004	A:0	A:0	.	A:0	A:0.001	A:0.001	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTCGTTTCT	byFrequency|by1000G	5	BLCA
LRRC2	0	.	GRCh37	3	46592976	46592976	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.106G>C	p.Glu36Gln	p.E36Q	ENST00000395905	2/9	92	27	64	88	88	0	LRRC2,missense_variant,p.Glu36Gln,ENST00000296144,;LRRC2,missense_variant,p.Glu36Gln,ENST00000395905,;AC104304.2,upstream_gene_variant,,ENST00000583198,;LRRC2,intron_variant,,ENST00000496388,;LRRC2,non_coding_transcript_exon_variant,,ENST00000469912,;	G	ENSG00000163827	ENST00000395905	Transcript	missense_variant	499	106	36	E/Q	Gag/Cag	COSM1309172	.	.	-1	LRRC2	HGNC	14676	protein_coding	YES	CCDS2741.1	ENSP00000379241	LRRC2_HUMAN	.	UPI00000362F5	.	deleterious(0.05)	benign(0.043)	2/9	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAAGCC	.	5	BLCA
ARIH2	0	.	GRCh37	3	49012253	49012253	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892C>T	p.Pro298Ser	p.P298S	ENST00000356401	10/16	63	10	53	83	83	0	ARIH2,missense_variant,p.Pro298Ser,ENST00000449376,;ARIH2,missense_variant,p.Pro298Ser,ENST00000356401,;ARIH2,non_coding_transcript_exon_variant,,ENST00000495761,;ARIH2,non_coding_transcript_exon_variant,,ENST00000490095,;ARIH2,downstream_gene_variant,,ENST00000483333,;ARIH2,downstream_gene_variant,,ENST00000465217,;ARIH2,downstream_gene_variant,,ENST00000498314,;ARIH2,3_prime_UTR_variant,,ENST00000452385,;ARIH2,non_coding_transcript_exon_variant,,ENST00000469038,;ARIH2,downstream_gene_variant,,ENST00000482342,;	T	ENSG00000177479	ENST00000356401	Transcript	missense_variant	1231	892	298	P/S	Ccc/Tcc	COSM1309242	.	.	1	ARIH2	HGNC	690	protein_coding	YES	CCDS2780.1	ENSP00000348769	ARI2_HUMAN	Q6IBL8_HUMAN,C9JZ71_HUMAN,C9JCL4_HUMAN,C9JBC5_HUMAN,C9JAU2_HUMAN	UPI0000125EDA	.	deleterious(0)	probably_damaging(0.999)	10/16	.	hmmpanther:PTHR11685,hmmpanther:PTHR11685:SF117,Gene3D:3.30.40.10,Pfam_domain:PF01485,SMART_domains:SM00647,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGTCCCAAG	.	5	BLCA
ZNF518B	0	.	GRCh37	4	10446215	10446215	+	Missense_Mutation	SNP	G	G	A	rs772363436	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1738C>T	p.His580Tyr	p.H580Y	ENST00000326756	3/3	88	54	34	89	89	0	ZNF518B,missense_variant,p.His580Tyr,ENST00000326756,;ZNF518B,downstream_gene_variant,,ENST00000507515,;	A	ENSG00000178163	ENST00000326756	Transcript	missense_variant	2177	1738	580	H/Y	Cac/Tac	rs772363436,COSM1309584	.	.	-1	ZNF518B	HGNC	29365	protein_coding	YES	CCDS33960.1	ENSP00000317614	Z518B_HUMAN	D6RDM9_HUMAN	UPI0000160B97	.	tolerated(1)	benign(0)	3/3	.	hmmpanther:PTHR10032:SF188,hmmpanther:PTHR10032	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTGTTCCT	.	5	BLCA
AIMP1	0	.	GRCh37	4	107268795	107268795	+	Silent	SNP	G	G	A	rs757678054	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.957G>A	p.%3D	p.V319V	ENST00000394701	7/7	55	51	4	58	58	0	AIMP1,synonymous_variant,p.%3D,ENST00000358008,;AIMP1,synonymous_variant,p.%3D,ENST00000442366,;AIMP1,synonymous_variant,p.%3D,ENST00000394701,;	A	ENSG00000164022	ENST00000394701	Transcript	synonymous_variant	998	957	319	V	gtG/gtA	rs757678054,COSM1309602	.	.	1	AIMP1	HGNC	10648	protein_coding	YES	CCDS47121.1	ENSP00000378191	AIMP1_HUMAN	D6R937_HUMAN	UPI00005A76B9	.	.	.	7/7	.	Superfamily_domains:SSF50249,Gene3D:2.40.50.140,hmmpanther:PTHR11586,hmmpanther:PTHR11586:SF1	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGGTGAAAGG	byFrequency	3	BLCA
KIAA1109	0	.	GRCh37	4	123161005	123161005	+	Missense_Mutation	SNP	G	G	A	rs760947422	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4168G>A	p.Asp1390Asn	p.D1390N	ENST00000264501	29/86	64	42	21	70	70	0	KIAA1109,missense_variant,p.Asp1222Asn,ENST00000424425,;KIAA1109,missense_variant,p.Asp1390Asn,ENST00000455637,;KIAA1109,missense_variant,p.Asp1390Asn,ENST00000264501,;KIAA1109,missense_variant,p.Asp1390Asn,ENST00000388738,;KIAA1109,upstream_gene_variant,,ENST00000446180,;KIAA1109,non_coding_transcript_exon_variant,,ENST00000495260,;	A	ENSG00000138688	ENST00000264501	Transcript	missense_variant	4541	4168	1390	D/N	Gat/Aat	rs760947422,COSM1309670	.	.	1	KIAA1109	HGNC	26953	protein_coding	YES	CCDS43267.1	ENSP00000264501	K1109_HUMAN	B3KN93_HUMAN	UPI0000DD87B4	.	.	probably_damaging(0.958)	29/86	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31640:SF1,hmmpanther:PTHR31640	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGATAGT	.	5	BLCA
NPY2R	0	.	GRCh37	4	156135697	156135697	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.606C>T	p.%3D	p.A202A	ENST00000329476	2/2	167	158	9	150	150	0	NPY2R,synonymous_variant,p.%3D,ENST00000506608,;NPY2R,synonymous_variant,p.%3D,ENST00000329476,;	T	ENSG00000185149	ENST00000329476	Transcript	synonymous_variant	1095	606	202	A	gcC/gcT	COSM1309838	.	.	1	NPY2R	HGNC	7957	protein_coding	YES	CCDS3791.1	ENSP00000332591	NPY2R_HUMAN	.	UPI000003B342	.	.	.	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24242:SF42,hmmpanther:PTHR24242,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01014	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGCCTGTAC	.	2	BLCA
ZFP42	0	.	GRCh37	4	188924685	188924685	+	Missense_Mutation	SNP	G	G	A	rs768940631	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724G>A	p.Glu242Lys	p.E242K	ENST00000326866	4/4	44	28	16	45	45	0	ZFP42,missense_variant,p.Glu242Lys,ENST00000326866,;ZFP42,missense_variant,p.Glu242Lys,ENST00000509524,;	A	ENSG00000179059	ENST00000326866	Transcript	missense_variant	1132	724	242	E/K	Gag/Aag	rs768940631,COSM1309962	.	.	1	ZFP42	HGNC	30949	protein_coding	YES	CCDS3849.1	ENSP00000317686	ZFP42_HUMAN	.	UPI0000049CA7	.	deleterious(0)	probably_damaging(0.999)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR14003:SF8,hmmpanther:PTHR14003,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGAGAAG	.	5	BLCA
N4BP2	0	.	GRCh37	4	40104376	40104376	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.911G>A	p.Gly304Asp	p.G304D	ENST00000261435	4/18	83	57	26	54	54	0	N4BP2,missense_variant,p.Gly304Asp,ENST00000261435,;N4BP2,downstream_gene_variant,,ENST00000515550,;N4BP2,upstream_gene_variant,,ENST00000513269,;N4BP2,3_prime_UTR_variant,,ENST00000511480,;	A	ENSG00000078177	ENST00000261435	Transcript	missense_variant	1327	911	304	G/D	gGt/gAt	COSM1310049	.	.	1	N4BP2	HGNC	29851	protein_coding	YES	CCDS3457.1	ENSP00000261435	N4BP2_HUMAN	D6R9J2_HUMAN	UPI00001A962C	.	tolerated(0.27)	benign(0.025)	4/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13308:SF16,hmmpanther:PTHR13308	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCAGGTACAG	.	5	BLCA
CLOCK	0	.	GRCh37	4	56301522	56301522	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*60C>G	.	.	ENST00000309964	22/22	29	22	7	40	40	0	CLOCK,3_prime_UTR_variant,,ENST00000513440,;CLOCK,3_prime_UTR_variant,,ENST00000381322,;CLOCK,3_prime_UTR_variant,,ENST00000309964,;TMEM165,intron_variant,,ENST00000608091,;CLOCK,non_coding_transcript_exon_variant,,ENST00000511124,;TMEM165,intron_variant,,ENST00000506103,;	C	ENSG00000134852	ENST00000309964	Transcript	3_prime_UTR_variant	2852	.	.	.	.	.	.	.	-1	CLOCK	HGNC	2082	protein_coding	YES	CCDS3500.1	ENSP00000308741	CLOCK_HUMAN	C9JK03_HUMAN	UPI0000031303	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCTGAGTAA	.	2	BLCA
WFS1	0	.	GRCh37	4	6302887	6302887	+	Silent	SNP	G	G	A	rs769749907	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1365G>A	p.%3D	p.T455T	ENST00000226760	8/8	92	65	26	99	99	0	WFS1,synonymous_variant,p.%3D,ENST00000503569,;WFS1,synonymous_variant,p.%3D,ENST00000226760,;WFS1,downstream_gene_variant,,ENST00000506362,;WFS1,non_coding_transcript_exon_variant,,ENST00000507765,;WFS1,downstream_gene_variant,,ENST00000513395,;	A	ENSG00000109501	ENST00000226760	Transcript	synonymous_variant	1535	1365	455	T	acG/acA	rs769749907,COSM1310194	.	.	1	WFS1	HGNC	12762	protein_coding	YES	CCDS3386.1	ENSP00000226760	WFS1_HUMAN	B4DJ99_HUMAN	UPI00000715C3	.	.	.	8/8	.	hmmpanther:PTHR13098,Prints_domain:PR02061	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACACGCGCAG	byFrequency	5	BLCA
ENAM	0	.	GRCh37	4	71510603	71510603	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*31G>C	.	.	ENST00000396073	9/9	31	22	9	20	20	0	ENAM,3_prime_UTR_variant,,ENST00000396073,;ENAM,intron_variant,,ENST00000472903,;ENAM,downstream_gene_variant,,ENST00000472597,;	C	ENSG00000132464	ENST00000396073	Transcript	3_prime_UTR_variant	3741	.	.	.	.	.	.	.	1	ENAM	HGNC	3344	protein_coding	YES	CCDS3544.2	ENSP00000379383	ENAM_HUMAN	Q8NFB4_HUMAN	UPI000013CE60	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAAAGAGAAA	.	5	BLCA
CNOT6L	0	.	GRCh37	4	78650191	78650191	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1069G>A	p.Ala357Thr	p.A357T	ENST00000264903	10/12	120	90	30	124	124	0	CNOT6L,missense_variant,p.Ala132Thr,ENST00000505983,;CNOT6L,missense_variant,p.Ala357Thr,ENST00000504123,;CNOT6L,missense_variant,p.Ala357Thr,ENST00000264903,;CNOT6L,missense_variant,p.Ala386Thr,ENST00000515506,;CNOT6L,missense_variant,p.Ala364Thr,ENST00000512485,;CNOT6L,3_prime_UTR_variant,,ENST00000504804,;CNOT6L,non_coding_transcript_exon_variant,,ENST00000508371,;	T	ENSG00000138767	ENST00000264903	Transcript	missense_variant	1151	1069	357	A/T	Gca/Aca	COSM734611,COSM734610	.	.	-1	CNOT6L	HGNC	18042	protein_coding	YES	CCDS47082.1	ENSP00000264903	CNO6L_HUMAN	D6RGK9_HUMAN	UPI0000E445DF	.	tolerated(0.09)	probably_damaging(0.997)	10/12	.	hmmpanther:PTHR12121,hmmpanther:PTHR12121:SF35,Pfam_domain:PF03372,Gene3D:3.60.10.10,Superfamily_domains:SSF56219	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATTTGCCACTA	.	3	BLCA
CNOT6L	0	.	GRCh37	4	78650194	78650194	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066G>C	p.Val356Leu	p.V356L	ENST00000264903	10/12	117	88	29	117	117	0	CNOT6L,missense_variant,p.Val131Leu,ENST00000505983,;CNOT6L,missense_variant,p.Val356Leu,ENST00000504123,;CNOT6L,missense_variant,p.Val356Leu,ENST00000264903,;CNOT6L,missense_variant,p.Val385Leu,ENST00000515506,;CNOT6L,missense_variant,p.Val363Leu,ENST00000512485,;CNOT6L,3_prime_UTR_variant,,ENST00000504804,;CNOT6L,non_coding_transcript_exon_variant,,ENST00000508371,;	G	ENSG00000138767	ENST00000264903	Transcript	missense_variant	1148	1066	356	V/L	Gtg/Ctg	COSM1310272,COSM1201627,COSM1201626,COSM1310271	.	.	-1	CNOT6L	HGNC	18042	protein_coding	YES	CCDS47082.1	ENSP00000264903	CNO6L_HUMAN	D6RGK9_HUMAN	UPI0000E445DF	.	deleterious(0.01)	possibly_damaging(0.718)	10/12	.	hmmpanther:PTHR12121,hmmpanther:PTHR12121:SF35,Pfam_domain:PF03372,Gene3D:3.60.10.10,Superfamily_domains:SSF56219	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCACTATAA	.	3	BLCA
MRPL1	0	.	GRCh37	4	78815330	78815330	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.596C>G	p.Ala199Gly	p.A199G	ENST00000315567	6/9	138	90	48	105	105	0	MRPL1,missense_variant,p.Ala153Gly,ENST00000502384,;MRPL1,missense_variant,p.Ala199Gly,ENST00000315567,;MRPL1,non_coding_transcript_exon_variant,,ENST00000506674,;	G	ENSG00000169288	ENST00000315567	Transcript	missense_variant	925	596	199	A/G	gCt/gGt	COSM1310273	.	.	1	MRPL1	HGNC	14275	protein_coding	YES	CCDS3583.2	ENSP00000315017	RM01_HUMAN	.	UPI000020B07E	.	deleterious(0)	probably_damaging(0.911)	6/9	.	TIGRFAM_domain:TIGR01170,Gene3D:3.40.50.790,Superfamily_domains:SSF56808	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTAGCTGTTC	.	5	BLCA
SNCAIP	0	.	GRCh37	5	121767723	121767723	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1242G>A	p.%3D	p.L414L	ENST00000261368	6/11	59	22	37	62	62	0	SNCAIP,synonymous_variant,p.%3D,ENST00000503116,;SNCAIP,synonymous_variant,p.%3D,ENST00000379536,;SNCAIP,synonymous_variant,p.%3D,ENST00000509154,;SNCAIP,synonymous_variant,p.%3D,ENST00000261368,;SNCAIP,synonymous_variant,p.%3D,ENST00000379538,;SNCAIP,synonymous_variant,p.%3D,ENST00000379533,;SNCAIP,synonymous_variant,p.%3D,ENST00000261367,;SNCAIP,3_prime_UTR_variant,,ENST00000504884,;SNCAIP,5_prime_UTR_variant,,ENST00000542191,;SNCAIP,intron_variant,,ENST00000414317,;CTC-210G5.1,downstream_gene_variant,,ENST00000510972,;CTC-210G5.1,downstream_gene_variant,,ENST00000506053,;CTC-210G5.1,downstream_gene_variant,,ENST00000509993,;SNCAIP,missense_variant,p.Glu64Lys,ENST00000508017,;SNCAIP,missense_variant,p.Glu111Lys,ENST00000512146,;SNCAIP,missense_variant,p.Glu64Lys,ENST00000512385,;SNCAIP,missense_variant,p.Glu64Lys,ENST00000510658,;SNCAIP,missense_variant,p.Glu64Lys,ENST00000515215,;SNCAIP,synonymous_variant,p.%3D,ENST00000395469,;SNCAIP,3_prime_UTR_variant,,ENST00000395466,;SNCAIP,non_coding_transcript_exon_variant,,ENST00000510003,;SNCAIP,intron_variant,,ENST00000509023,;	A	ENSG00000064692	ENST00000261368	Transcript	synonymous_variant	1504	1242	414	L	ctG/ctA	COSM1310474,COSM1310475,COSM1310476	.	.	1	SNCAIP	HGNC	11139	protein_coding	YES	CCDS4131.1	ENSP00000261368	SNCAP_HUMAN	D6RD29_HUMAN,D6RBR2_HUMAN,B7Z616_HUMAN	UPI000006D872	.	.	.	6/11	.	Superfamily_domains:SSF48403,Gene3D:1.25.40.20,hmmpanther:PTHR22882,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGAGTTG	.	5	BLCA
PCDHB8	0	.	GRCh37	5	140558309	140558309	+	Missense_Mutation	SNP	G	G	A	rs782252678	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694G>A	p.Glu232Lys	p.E232K	ENST00000239444	1/1	80	37	42	124	123	0	PCDHB8,missense_variant,p.Glu232Lys,ENST00000239444,;PCDHB7,downstream_gene_variant,,ENST00000231137,;PCDHB16,upstream_gene_variant,,ENST00000361016,;	A	ENSG00000120322	ENST00000239444	Transcript	missense_variant	939	694	232	E/K	Gaa/Aaa	rs782252678,COSM1310691	.	.	1	PCDHB8	HGNC	8693	protein_coding	YES	CCDS4250.1	ENSP00000239444	PCDB8_HUMAN	.	UPI000013CA80	.	tolerated_low_confidence(0.59)	benign(0.005)	1/1	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF89,hmmpanther:PTHR24028,PROSITE_patterns:PS00232,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTGAAGTT	byFrequency	5	BLCA
PCDHB11	0	.	GRCh37	5	140581588	140581588	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2241G>T	p.Gln747His	p.Q747H	ENST00000354757	1/1	198	116	82	197	197	0	PCDHB11,missense_variant,p.Gln382His,ENST00000536699,;PCDHB11,missense_variant,p.Gln747His,ENST00000354757,;	T	ENSG00000197479	ENST00000354757	Transcript	missense_variant	2241	2241	747	Q/H	caG/caT	COSM1310700	.	.	1	PCDHB11	HGNC	8682	protein_coding	YES	CCDS4253.1	ENSP00000346802	PCDBB_HUMAN	B4DSF7_HUMAN	UPI00001273E6	.	tolerated_low_confidence(0.43)	benign(0.004)	1/1	.	hmmpanther:PTHR24028:SF91,hmmpanther:PTHR24028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGAGCTA	.	5	BLCA
PCDHGA10	0	.	GRCh37	5	140793016	140793016	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>T	p.Gly92Cys	p.G92C	ENST00000398610	1/4	143	70	73	128	128	0	PCDHGA10,missense_variant,p.Gly92Cys,ENST00000398610,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB7,upstream_gene_variant,,ENST00000398594,;	T	ENSG00000253846	ENST00000398610	Transcript	missense_variant	274	274	92	G/C	Ggc/Tgc	COSM1310742	.	.	1	PCDHGA10	HGNC	8697	protein_coding	YES	CCDS47292.1	ENSP00000381611	PCDGA_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000726C3	.	deleterious_low_confidence(0)	probably_damaging(0.991)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF110,Pfam_domain:PF08266,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCGGGCAGG	.	5	BLCA
RBM27	0	.	GRCh37	5	145609388	145609388	+	Missense_Mutation	SNP	G	G	C	rs780834078	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.504G>C	p.Lys168Asn	p.K168N	ENST00000265271	5/21	109	65	43	126	126	0	RBM27,missense_variant,p.Lys168Asn,ENST00000265271,;RBM27,missense_variant,p.Lys168Asn,ENST00000506502,;	C	ENSG00000091009	ENST00000265271	Transcript	missense_variant	670	504	168	K/N	aaG/aaC	rs780834078,COSM1310817	.	.	1	RBM27	HGNC	29243	protein_coding	YES	CCDS43378.1	ENSP00000265271	RBM27_HUMAN	.	UPI00001D7F03	.	deleterious(0.01)	possibly_damaging(0.797)	5/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14398:SF1,hmmpanther:PTHR14398	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTAAGAGTCG	.	5	BLCA
SPINK5	0	.	GRCh37	5	147475436	147475436	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.850G>A	p.Glu284Lys	p.E284K	ENST00000359874	10/34	78	36	42	52	52	0	SPINK5,missense_variant,p.Glu284Lys,ENST00000398454,;SPINK5,missense_variant,p.Glu284Lys,ENST00000256084,;SPINK5,missense_variant,p.Glu265Lys,ENST00000508733,;SPINK5,missense_variant,p.Glu284Lys,ENST00000359874,;SPINK5,non_coding_transcript_exon_variant,,ENST00000481286,;SPINK5,non_coding_transcript_exon_variant,,ENST00000476608,;SPINK5,3_prime_UTR_variant,,ENST00000476697,;SPINK5,non_coding_transcript_exon_variant,,ENST00000507988,;	A	ENSG00000133710	ENST00000359874	Transcript	missense_variant	923	850	284	E/K	Gaa/Aaa	COSM1310827,COSM1310826	.	.	1	SPINK5	HGNC	15464	protein_coding	YES	CCDS47300.1	ENSP00000352936	ISK5_HUMAN	.	UPI000020CF25	.	tolerated(0.4)	benign(0.007)	10/34	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS51465,hmmpanther:PTHR10913,hmmpanther:PTHR10913:SF10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAAGAA	.	5	BLCA
SDHAP3	0	.	GRCh37	5	1589406	1589406	+	RNA	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.473G>A	.	.	ENST00000436493	3/3	50	39	10	55	55	0	SDHAP3,non_coding_transcript_exon_variant,,ENST00000436493,;SDHAP3,non_coding_transcript_exon_variant,,ENST00000515467,;	T	ENSG00000185986	ENST00000436493	Transcript	non_coding_transcript_exon_variant	473	.	.	.	.	.	.	.	-1	SDHAP3	HGNC	18781	processed_transcript	.	.	.	.	.	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCAGCAA	.	5	BLCA
DOCK2	0	.	GRCh37	5	169461533	169461533	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3598C>T	p.Arg1200Cys	p.R1200C	ENST00000256935	35/52	79	56	22	99	99	0	DOCK2,missense_variant,p.Arg261Cys,ENST00000540750,;DOCK2,missense_variant,p.Arg1200Cys,ENST00000256935,;DOCK2,missense_variant,p.Arg692Cys,ENST00000520908,;DOCK2,non_coding_transcript_exon_variant,,ENST00000523351,;DOCK2,3_prime_UTR_variant,,ENST00000524185,;DOCK2,downstream_gene_variant,,ENST00000433448,;	T	ENSG00000134516	ENST00000256935	Transcript	missense_variant	3678	3598	1200	R/C	Cgc/Tgc	COSM1065723	.	.	1	DOCK2	HGNC	2988	protein_coding	YES	CCDS4371.1	ENSP00000256935	DOCK2_HUMAN	Q5XG91_HUMAN,B3KXW9_HUMAN	UPI00001A38CC	.	deleterious(0)	possibly_damaging(0.712)	35/52	.	hmmpanther:PTHR23317:SF73,hmmpanther:PTHR23317,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAACCGCATG	.	5	BLCA
KCNIP1	0	.	GRCh37	5	170145787	170145787	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120G>A	p.Met40Ile	p.M40I	ENST00000411494	3/9	41	26	15	35	35	0	KCNIP1,start_lost,p.Met1?,ENST00000520740,;KCNIP1,missense_variant,p.Met40Ile,ENST00000411494,;KCNIP1,missense_variant,p.Met29Ile,ENST00000390656,;KCNIP1,missense_variant,p.Met29Ile,ENST00000328939,;KCNIP1,missense_variant,p.Met38Ile,ENST00000377360,;KCNIP1,missense_variant,p.Met29Ile,ENST00000434108,;	A	ENSG00000182132	ENST00000411494	Transcript	missense_variant	120	120	40	M/I	atG/atA	COSM1310955,COSM1310956	.	.	1	KCNIP1	HGNC	15521	protein_coding	YES	CCDS34286.1	ENSP00000395323	KCIP1_HUMAN	.	UPI000004A27F	.	deleterious(0.05)	benign(0.12)	3/9	.	hmmpanther:PTHR23055,hmmpanther:PTHR23055:SF27	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATGACCAT	.	5	BLCA
RGS14	0	.	GRCh37	5	176794807	176794807	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720C>T	p.%3D	p.L240L	ENST00000408923	7/15	23	10	13	13	13	0	RGS14,synonymous_variant,p.%3D,ENST00000511890,;RGS14,synonymous_variant,p.%3D,ENST00000408923,;RGS14,non_coding_transcript_exon_variant,,ENST00000503110,;RGS14,upstream_gene_variant,,ENST00000506944,;RGS14,non_coding_transcript_exon_variant,,ENST00000512490,;RGS14,non_coding_transcript_exon_variant,,ENST00000512000,;RGS14,non_coding_transcript_exon_variant,,ENST00000514713,;RGS14,non_coding_transcript_exon_variant,,ENST00000425155,;RGS14,upstream_gene_variant,,ENST00000514102,;RGS14,downstream_gene_variant,,ENST00000504631,;RGS14,upstream_gene_variant,,ENST00000509289,;RGS14,upstream_gene_variant,,ENST00000503044,;RGS14,upstream_gene_variant,,ENST00000502731,;	T	ENSG00000169220	ENST00000408923	Transcript	synonymous_variant	908	720	240	L	ctC/ctT	COSM1311017	.	.	1	RGS14	HGNC	9996	protein_coding	YES	CCDS43405.1	ENSP00000386229	RGS14_HUMAN	.	UPI0000163BE6	.	.	.	7/15	.	hmmpanther:PTHR10845,hmmpanther:PTHR10845:SF136	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCCGCAA	.	5	BLCA
DBN1	0	.	GRCh37	5	176895189	176895189	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.181G>C	p.Glu61Gln	p.E61Q	ENST00000292385	4/15	251	132	118	260	260	0	DBN1,missense_variant,p.Glu59Gln,ENST00000309007,;DBN1,missense_variant,p.Glu61Gln,ENST00000292385,;DBN1,missense_variant,p.Glu58Gln,ENST00000477391,;DBN1,missense_variant,p.Glu59Gln,ENST00000393565,;DBN1,missense_variant,p.Glu59Gln,ENST00000514833,;DBN1,5_prime_UTR_variant,,ENST00000506117,;DBN1,non_coding_transcript_exon_variant,,ENST00000472831,;DBN1,upstream_gene_variant,,ENST00000471767,;DBN1,downstream_gene_variant,,ENST00000505550,;	G	ENSG00000113758	ENST00000292385	Transcript	missense_variant	791	181	61	E/Q	Gag/Cag	COSM1311025,COSM1311024	.	.	-1	DBN1	HGNC	2695	protein_coding	YES	CCDS4421.1	ENSP00000292385	DREB_HUMAN	F8W9Z3_HUMAN,D6RCR4_HUMAN	UPI0000457395	.	deleterious(0.02)	probably_damaging(0.979)	4/15	.	Superfamily_domains:SSF55753,SMART_domains:SM00102,Gene3D:3.40.20.10,Pfam_domain:PF00241,hmmpanther:PTHR10829:SF1,hmmpanther:PTHR10829,PROSITE_profiles:PS51263	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCAAAGT	.	5	BLCA
TRIM23	0	.	GRCh37	5	64892995	64892995	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1192C>G	p.His398Asp	p.H398D	ENST00000231524	8/11	120	65	55	111	111	0	TRIM23,missense_variant,p.His398Asp,ENST00000381018,;TRIM23,missense_variant,p.His398Asp,ENST00000231524,;TRIM23,missense_variant,p.His398Asp,ENST00000274327,;	C	ENSG00000113595	ENST00000231524	Transcript	missense_variant	1564	1192	398	H/D	Cac/Gac	COSM1311266	.	.	-1	TRIM23	HGNC	660	protein_coding	YES	CCDS3987.1	ENSP00000231524	TRI23_HUMAN	D6R9E9_HUMAN	UPI0000125DB3	.	deleterious(0)	possibly_damaging(0.784)	8/11	.	SMART_domains:SM00178,SMART_domains:SM00177,Gene3D:3.40.50.300,hmmpanther:PTHR11711,hmmpanther:PTHR11711:SF131,PROSITE_profiles:PS51417	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGTGAACTC	.	5	BLCA
MSH3	0	.	GRCh37	5	79950579	79950579	+	Silent	SNP	C	C	T	rs564921007	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33C>T	p.%3D	p.L11L	ENST00000265081	1/24	48	36	12	33	33	0	MSH3,synonymous_variant,p.%3D,ENST00000265081,;DHFR,5_prime_UTR_variant,,ENST00000439211,;DHFR,upstream_gene_variant,,ENST00000504396,;DHFR,upstream_gene_variant,,ENST00000511032,;MTRNR2L2,upstream_gene_variant,,ENST00000604882,;DHFR,upstream_gene_variant,,ENST00000505337,;MSH3,upstream_gene_variant,,ENST00000512531,;DHFR,upstream_gene_variant,,ENST00000513048,;DHFR,upstream_gene_variant,,ENST00000508282,;DHFR,upstream_gene_variant,,ENST00000513314,;	T	ENSG00000113318	ENST00000265081	Transcript	synonymous_variant	113	33	11	L	ctC/ctT	rs564921007,COSM1311352,COSM3828533	.	.	1	MSH3	HGNC	7326	protein_coding	YES	CCDS34195.1	ENSP00000265081	MSH3_HUMAN	.	UPI0000DBEE85	.	.	.	1/24	.	Low_complexity_(Seg):seg	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCGCTGC	byFrequency|byCluster|by1000G	5	BLCA
ZBTB24	0	.	GRCh37	6	109803198	109803198	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.32A>G	p.Gln11Arg	p.Q11R	ENST00000230122	2/7	53	17	36	46	46	0	ZBTB24,missense_variant,p.Gln11Arg,ENST00000230122,;	C	ENSG00000112365	ENST00000230122	Transcript	missense_variant	200	32	11	Q/R	cAg/cGg	COSM1311454	.	.	-1	ZBTB24	HGNC	21143	protein_coding	YES	CCDS34509.1	ENSP00000230122	ZBT24_HUMAN	.	UPI000013C924	.	tolerated(0.37)	benign(0.002)	2/7	.	hmmpanther:PTHR24375:SF3,hmmpanther:PTHR24375,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGCTGCCCA	.	5	BLCA
FYN	0	.	GRCh37	6	111983077	111983077	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479C>T	p.%3D	p.I493I	ENST00000354650	14/14	161	62	99	233	233	0	FYN,synonymous_variant,p.%3D,ENST00000368667,;FYN,synonymous_variant,p.%3D,ENST00000229471,;FYN,synonymous_variant,p.%3D,ENST00000368678,;FYN,synonymous_variant,p.%3D,ENST00000368682,;FYN,synonymous_variant,p.%3D,ENST00000229470,;FYN,synonymous_variant,p.%3D,ENST00000538466,;FYN,synonymous_variant,p.%3D,ENST00000354650,;FYN,synonymous_variant,p.%3D,ENST00000356013,;FYN,non_coding_transcript_exon_variant,,ENST00000491885,;FYN,non_coding_transcript_exon_variant,,ENST00000467921,;	A	ENSG00000010810	ENST00000354650	Transcript	synonymous_variant	2086	1479	493	I	atC/atT	COSM1311477,COSM1311478	.	.	-1	FYN	HGNC	4037	protein_coding	YES	CCDS5094.1	ENSP00000346671	FYN_HUMAN	E5RK23_HUMAN,E5RJX7_HUMAN,E5RIX5_HUMAN,E5RI25_HUMAN,E5RHX7_HUMAN,E5RHF7_HUMAN,E5RH71_HUMAN,E5RGT0_HUMAN,E5RGM6_HUMAN,E5RFS5_HUMAN,E5RFM6_HUMAN,E5RFM4_HUMAN,E5RFM0_HUMAN	UPI0000141141	.	.	.	14/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF44,Pfam_domain:PF07714,Gene3D:1.10.510.10,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAGATGGG	.	5	BLCA
ADGB	0	.	GRCh37	6	147124289	147124289	+	Intron	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4818+1142C>T	.	.	ENST00000397944	.	24	14	9	42	42	0	ADGB,intron_variant,,ENST00000367493,;ADGB,intron_variant,,ENST00000367490,;ADGB,intron_variant,,ENST00000367489,;ADGB,intron_variant,,ENST00000397944,;ADGB,intron_variant,,ENST00000367488,;ADGB,downstream_gene_variant,,ENST00000326916,;KATNBL1P6,non_coding_transcript_exon_variant,,ENST00000562413,;ADGB,intron_variant,,ENST00000493950,;ADGB,intron_variant,,ENST00000480328,;KATNBL1P6,non_coding_transcript_exon_variant,,ENST00000453433,;	T	ENSG00000118492	ENST00000397944	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ADGB	HGNC	21212	protein_coding	YES	.	ENSP00000381036	ADGB_HUMAN	.	UPI000020E382	.	.	.	.	35/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCAACAA	.	5	BLCA
SYNE1	0	.	GRCh37	6	152737694	152737694	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5878G>C	p.Glu1960Gln	p.E1960Q	ENST00000367255	41/146	111	105	6	155	155	0	SYNE1,missense_variant,p.Glu1967Gln,ENST00000448038,;SYNE1,missense_variant,p.Glu1960Gln,ENST00000367255,;SYNE1,missense_variant,p.Glu1967Gln,ENST00000423061,;SYNE1,missense_variant,p.Glu1997Gln,ENST00000341594,;SYNE1,missense_variant,p.Glu1960Gln,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000461872,;	G	ENSG00000131018	ENST00000367255	Transcript	missense_variant	6480	5878	1960	E/Q	Gag/Cag	COSM1311705,COSM1311704,COSM1311706	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	possibly_damaging(0.529)	41/146	.	Superfamily_domains:SSF46966,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTCTACCT	.	2	BLCA
SCAF8	0	.	GRCh37	6	155154524	155154524	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3811A>G	p.Thr1271Ala	p.T1271A	ENST00000367178	20/20	65	26	39	67	67	0	SCAF8,missense_variant,p.Thr1337Ala,ENST00000367186,;SCAF8,missense_variant,p.Thr1271Ala,ENST00000367178,;SCAF8,missense_variant,p.Thr1271Ala,ENST00000417268,;TIAM2,5_prime_UTR_variant,,ENST00000461783,;TIAM2,non_coding_transcript_exon_variant,,ENST00000460692,;TIAM2,non_coding_transcript_exon_variant,,ENST00000535064,;	G	ENSG00000213079	ENST00000367178	Transcript	missense_variant	4387	3811	1271	T/A	Aca/Gca	COSM1311744	.	.	1	SCAF8	HGNC	20959	protein_coding	YES	CCDS5247.1	ENSP00000356146	SCAF8_HUMAN	Q9H8B2_HUMAN,Q8NDE9_HUMAN	UPI0000070A1C	.	deleterious_low_confidence(0)	probably_damaging(0.97)	20/20	.	hmmpanther:PTHR14124:SF4,hmmpanther:PTHR14124	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGGACATAA	.	5	BLCA
TULP4	0	.	GRCh37	6	158922867	158922867	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2172G>A	p.%3D	p.L724L	ENST00000367097	13/14	124	34	89	189	189	0	TULP4,synonymous_variant,p.%3D,ENST00000367097,;TULP4,intron_variant,,ENST00000367094,;	A	ENSG00000130338	ENST00000367097	Transcript	synonymous_variant	3529	2172	724	L	ctG/ctA	COSM1311755	.	.	1	TULP4	HGNC	15530	protein_coding	YES	CCDS34561.1	ENSP00000356064	TULP4_HUMAN	.	UPI000013CD76	.	.	.	13/14	.	hmmpanther:PTHR16517,hmmpanther:PTHR16517:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGACCAA	.	5	BLCA
IGF2R	0	.	GRCh37	6	160500774	160500774	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5641G>C	p.Glu1881Gln	p.E1881Q	ENST00000356956	38/48	56	21	35	92	92	0	IGF2R,missense_variant,p.Glu1881Gln,ENST00000356956,;	C	ENSG00000197081	ENST00000356956	Transcript	missense_variant	5789	5641	1881	E/Q	Gaa/Caa	COSM1311787	.	.	1	IGF2R	HGNC	5467	protein_coding	YES	CCDS5273.1	ENSP00000349437	MPRI_HUMAN	A0N9R7_HUMAN,A0N9R6_HUMAN	UPI0000072478	.	tolerated(0.37)	possibly_damaging(0.591)	38/48	.	hmmpanther:PTHR10439:SF4,hmmpanther:PTHR10439,Gene3D:2.70.130.10,Pfam_domain:PF00878,Superfamily_domains:SSF50911	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATGAAGCG	.	5	BLCA
DEK	0	.	GRCh37	6	18264194	18264194	+	Missense_Mutation	SNP	C	C	T	rs755415804	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25G>A	p.Glu9Lys	p.E9K	ENST00000397239	2/11	60	39	21	57	57	0	DEK,missense_variant,p.Glu14Lys,ENST00000515742,;DEK,missense_variant,p.Glu9Lys,ENST00000397239,;DEK,missense_variant,p.Glu9Lys,ENST00000244776,;DEK,intron_variant,,ENST00000503715,;DEK,missense_variant,p.Glu9Lys,ENST00000505224,;	T	ENSG00000124795	ENST00000397239	Transcript	missense_variant	473	25	9	E/K	Gag/Aag	rs755415804,COSM1311841	.	.	-1	DEK	HGNC	2768	protein_coding	YES	CCDS34344.1	ENSP00000380414	DEK_HUMAN	D6RDA2_HUMAN	UPI0000001C2C	.	deleterious_low_confidence(0.03)	benign(0.049)	2/11	.	hmmpanther:PTHR13468	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCCGCAG	byFrequency	5	BLCA
PRSS16	0	.	GRCh37	6	27219016	27219016	+	Missense_Mutation	SNP	G	G	A	rs200343894	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.690G>A	p.Met230Ile	p.M230I	ENST00000230582	7/12	80	41	38	73	73	0	PRSS16,missense_variant,p.Met230Ile,ENST00000230582,;PRSS16,intron_variant,,ENST00000485993,;PRSS16,intron_variant,,ENST00000475106,;PRSS16,intron_variant,,ENST00000421826,;PRSS16,upstream_gene_variant,,ENST00000468138,;PRSS16,upstream_gene_variant,,ENST00000459736,;PRSS16,upstream_gene_variant,,ENST00000471463,;PRSS16,upstream_gene_variant,,ENST00000484493,;PRSS16,upstream_gene_variant,,ENST00000478690,;PRSS16,upstream_gene_variant,,ENST00000377456,;PRSS16,non_coding_transcript_exon_variant,,ENST00000481125,;PRSS16,non_coding_transcript_exon_variant,,ENST00000492575,;PRSS16,non_coding_transcript_exon_variant,,ENST00000495683,;PRSS16,non_coding_transcript_exon_variant,,ENST00000488649,;PRSS16,non_coding_transcript_exon_variant,,ENST00000462664,;PRSS16,intron_variant,,ENST00000466364,;PRSS16,intron_variant,,ENST00000470870,;PRSS16,intron_variant,,ENST00000454665,;PRSS16,intron_variant,,ENST00000468930,;PRSS16,upstream_gene_variant,,ENST00000485603,;	A	ENSG00000112812	ENST00000230582	Transcript	missense_variant	705	690	230	M/I	atG/atA	rs200343894,COSM1311902	.	.	1	PRSS16	HGNC	9480	protein_coding	YES	CCDS4623.1	ENSP00000230582	TSSP_HUMAN	Q7Z5N5_HUMAN	UPI0000137773	.	tolerated(0.25)	benign(0.002)	7/12	.	hmmpanther:PTHR11010,hmmpanther:PTHR11010:SF22,Gene3D:3.40.50.1820,Pfam_domain:PF05577,Superfamily_domains:SSF53474	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAATGAGCAC	byCluster|by1000G	5	BLCA
HIST1H2BL	0	.	GRCh37	6	27775577	27775577	+	Silent	SNP	C	C	T	rs772348767	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108G>A	p.%3D	p.E36E	ENST00000377401	1/1	322	231	91	298	298	0	HIST1H2BL,synonymous_variant,p.%3D,ENST00000377401,;HIST1H2AI,upstream_gene_variant,,ENST00000358739,;HIST1H3H,upstream_gene_variant,,ENST00000369163,;HIST1H4PS1,downstream_gene_variant,,ENST00000406085,;	T	ENSG00000185130	ENST00000377401	Transcript	synonymous_variant	133	108	36	E	gaG/gaA	rs772348767,COSM1311903	.	.	-1	HIST1H2BL	HGNC	4748	protein_coding	YES	CCDS4625.1	ENSP00000366618	H2B1L_HUMAN	.	UPI0000001BD6	.	.	.	1/1	.	hmmpanther:PTHR23428,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00427,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCTCTCCTT	.	5	BLCA
OR14J1	0	.	GRCh37	6	29274779	29274779	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313C>T	p.%3D	p.L105L	ENST00000377160	1/1	93	44	49	133	133	0	OR14J1,synonymous_variant,p.%3D,ENST00000377160,;	T	ENSG00000204695	ENST00000377160	Transcript	synonymous_variant	377	313	105	L	Ctg/Ttg	COSM1311931	.	.	1	OR14J1	HGNC	13971	protein_coding	YES	CCDS34362.1	ENSP00000366365	O14J1_HUMAN	.	UPI0000041CEC	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF42,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCTCTGGCC	.	5	BLCA
ZFP57	0	.	GRCh37	6	29640988	29640988	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900C>T	p.%3D	p.T300T	ENST00000488757	4/4	140	26	114	148	148	0	ZFP57,synonymous_variant,p.%3D,ENST00000376883,;ZFP57,synonymous_variant,p.%3D,ENST00000488757,;ZFP57,synonymous_variant,p.%3D,ENST00000376881,;MOG,downstream_gene_variant,,ENST00000533330,;MOG,downstream_gene_variant,,ENST00000490427,;MOG,downstream_gene_variant,,ENST00000396704,;MOG,downstream_gene_variant,,ENST00000483013,;MOG,downstream_gene_variant,,ENST00000376891,;MOG,downstream_gene_variant,,ENST00000376898,;MOG,downstream_gene_variant,,ENST00000494692,;MOG,downstream_gene_variant,,ENST00000376917,;MOG,downstream_gene_variant,,ENST00000376888,;MOG,downstream_gene_variant,,ENST00000376902,;MOG,downstream_gene_variant,,ENST00000416766,;MOG,downstream_gene_variant,,ENST00000431798,;MOG,downstream_gene_variant,,ENST00000376894,;MOG,downstream_gene_variant,,ENST00000396701,;MOG,downstream_gene_variant,,ENST00000376889,;MOG,downstream_gene_variant,,ENST00000485211,;MOG,downstream_gene_variant,,ENST00000485885,;	A	ENSG00000204644	ENST00000488757	Transcript	synonymous_variant	1051	900	300	T	acC/acT	COSM1311936,COSM1546092	.	.	-1	ZFP57	HGNC	18791	protein_coding	YES	CCDS43436.2	ENSP00000418259	ZFP57_HUMAN	.	UPI0001951170	.	.	.	4/4	.	hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF179	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGGTGCC	.	5	BLCA
AL645922.1	0	.	GRCh37	6	31975500	31975500	+	5'Flank	SNP	C	C	A	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000594256	.	34	20	13	8	8	0	AL645922.1,upstream_gene_variant,,ENST00000594256,;C4A-AS1,upstream_gene_variant,,ENST00000458633,;CYP21A1P,non_coding_transcript_exon_variant,,ENST00000342991,;CYP21A1P,non_coding_transcript_exon_variant,,ENST00000354927,;TNXA,downstream_gene_variant,,ENST00000507684,;	A	ENSG00000268923	ENST00000594256	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	619	-1	AL645922.1	Clone_based_ensembl_gene	.	protein_coding	YES	.	ENSP00000472615	.	M0R2J5_HUMAN	UPI0001AE71FD	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCCAGCT	.	2	BLCA
BACH2	0	.	GRCh37	6	90647890	90647890	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2016G>A	p.%3D	p.Q672Q	ENST00000257749	8/9	95	26	69	142	142	0	BACH2,synonymous_variant,p.%3D,ENST00000257749,;BACH2,synonymous_variant,p.%3D,ENST00000343122,;BACH2,synonymous_variant,p.%3D,ENST00000537989,;	T	ENSG00000112182	ENST00000257749	Transcript	synonymous_variant	2724	2016	672	Q	caG/caA	COSM1312450,COSM1312449	.	.	-1	BACH2	HGNC	14078	protein_coding	YES	CCDS5026.1	ENSP00000257749	BACH2_HUMAN	S0BE05_HUMAN,S0BDZ6_HUMAN,S0BDY5_HUMAN,Q7Z6Q0_HUMAN	UPI000004F8AD	.	.	.	8/9	.	Superfamily_domains:SSF57959,SMART_domains:SM00338,Gene3D:1.10.880.10,Pfam_domain:PF03131,PROSITE_profiles:PS50217,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTCTGAAT	.	5	BLCA
SRPK2	0	.	GRCh37	7	104758350	104758350	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2035G>C	p.Glu679Gln	p.E679Q	ENST00000393651	16/16	51	36	15	67	67	0	SRPK2,missense_variant,p.Glu184Gln,ENST00000474770,;SRPK2,missense_variant,p.Glu679Gln,ENST00000393651,;SRPK2,missense_variant,p.Glu668Gln,ENST00000489828,;SRPK2,missense_variant,p.Glu275Gln,ENST00000477925,;SRPK2,missense_variant,p.Glu668Gln,ENST00000357311,;KMT2E,downstream_gene_variant,,ENST00000257745,;KMT2E,downstream_gene_variant,,ENST00000311117,;KMT2E,downstream_gene_variant,,ENST00000334877,;SRPK2,intron_variant,,ENST00000485455,;SRPK2,upstream_gene_variant,,ENST00000493638,;SRPK2,missense_variant,p.Glu127Gln,ENST00000465072,;SRPK2,non_coding_transcript_exon_variant,,ENST00000466917,;KMT2E,downstream_gene_variant,,ENST00000334884,;	G	ENSG00000135250	ENST00000393651	Transcript	missense_variant	2123	2035	679	E/Q	Gaa/Caa	COSM1312556	.	.	-1	SRPK2	HGNC	11306	protein_coding	YES	CCDS34724.1	ENSP00000377262	SRPK2_HUMAN	.	UPI00001A4785	.	deleterious(0)	probably_damaging(0.923)	16/16	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF102,hmmpanther:PTHR24055,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTAACA	.	4	BLCA
COG5	0	.	GRCh37	7	106938761	106938761	+	Missense_Mutation	SNP	C	C	T	rs772314269	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1232G>A	p.Gly411Glu	p.G411E	ENST00000297135	12/22	43	30	12	35	35	0	COG5,missense_variant,p.Gly411Glu,ENST00000347053,;COG5,missense_variant,p.Gly411Glu,ENST00000393603,;COG5,missense_variant,p.Gly411Glu,ENST00000297135,;AC004492.1,downstream_gene_variant,,ENST00000408429,;	T	ENSG00000164597	ENST00000297135	Transcript	missense_variant	1757	1232	411	G/E	gGa/gAa	rs772314269,COSM1312566	.	.	-1	COG5	HGNC	14857	protein_coding	YES	CCDS5742.1	ENSP00000297135	COG5_HUMAN	U3KQU7_HUMAN,B3KMW0_HUMAN	UPI0000246D05	.	deleterious(0)	probably_damaging(0.974)	12/22	.	hmmpanther:PTHR13228:SF3,hmmpanther:PTHR13228	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCCTTCA	.	5	BLCA
MKRN1	0	.	GRCh37	7	140158900	140158900	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678G>A	p.%3D	p.E226E	ENST00000255977	4/8	165	115	50	219	219	0	MKRN1,synonymous_variant,p.%3D,ENST00000443720,;MKRN1,synonymous_variant,p.%3D,ENST00000255977,;MKRN1,synonymous_variant,p.%3D,ENST00000474576,;MKRN1,synonymous_variant,p.%3D,ENST00000471104,;MKRN1,synonymous_variant,p.%3D,ENST00000467513,;MKRN1,intron_variant,,ENST00000437223,;MKRN1,intron_variant,,ENST00000480552,;MKRN1,downstream_gene_variant,,ENST00000473444,;MKRN1,downstream_gene_variant,,ENST00000494939,;MKRN1,upstream_gene_variant,,ENST00000463142,;MKRN1,downstream_gene_variant,,ENST00000481705,;MKRN1,3_prime_UTR_variant,,ENST00000496169,;MKRN1,non_coding_transcript_exon_variant,,ENST00000475010,;MKRN1,intron_variant,,ENST00000495305,;MKRN1,upstream_gene_variant,,ENST00000468447,;MKRN1,downstream_gene_variant,,ENST00000475180,;MKRN1,downstream_gene_variant,,ENST00000498535,;	T	ENSG00000133606	ENST00000255977	Transcript	synonymous_variant	903	678	226	E	gaG/gaA	COSM1312750	.	.	-1	MKRN1	HGNC	7112	protein_coding	YES	CCDS5860.1	ENSP00000255977	MKRN1_HUMAN	F5H0I9_HUMAN,C9JYX8_HUMAN,C9J031_HUMAN,C9IY57_HUMAN	UPI0000001C5F	.	.	.	4/8	.	Superfamily_domains:SSF90229,SMART_domains:SM00356,Gene3D:1m9oA00,Pfam_domain:PF00642,hmmpanther:PTHR11224,hmmpanther:PTHR11224:SF37,PROSITE_profiles:PS50103	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTCTCCCC	.	5	BLCA
DENND2A	0	.	GRCh37	7	140273705	140273705	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1349C>T	p.Ser450Phe	p.S450F	ENST00000275884	5/19	180	130	49	245	245	0	DENND2A,missense_variant,p.Ser73Phe,ENST00000475837,;DENND2A,missense_variant,p.Ser450Phe,ENST00000496613,;DENND2A,missense_variant,p.Ser450Phe,ENST00000492720,;DENND2A,missense_variant,p.Ser450Phe,ENST00000537639,;DENND2A,missense_variant,p.Ser450Phe,ENST00000275884,;DENND2A,missense_variant,p.Ser450Phe,ENST00000461883,;	A	ENSG00000146966	ENST00000275884	Transcript	missense_variant	1767	1349	450	S/F	tCc/tTc	COSM1312754	.	.	-1	DENND2A	HGNC	22212	protein_coding	YES	CCDS43659.1	ENSP00000275884	DEN2A_HUMAN	C9JD15_HUMAN,C9JAA0_HUMAN,C9IYZ8_HUMAN,C9IY76_HUMAN	UPI00001C1E63	.	deleterious(0.02)	benign(0.25)	5/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15288:SF3,hmmpanther:PTHR15288	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTGGAAGGG	.	5	BLCA
CASP2	0	.	GRCh37	7	142985599	142985599	+	Silent	SNP	G	G	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51G>T	p.%3D	p.L17L	ENST00000310447	1/11	24	18	5	39	39	0	CASP2,synonymous_variant,p.%3D,ENST00000392925,;CASP2,synonymous_variant,p.%3D,ENST00000310447,;TMEM139,downstream_gene_variant,,ENST00000359333,;TMEM139,downstream_gene_variant,,ENST00000409244,;TMEM139,downstream_gene_variant,,ENST00000410004,;TMEM139,downstream_gene_variant,,ENST00000409102,;TMEM139,downstream_gene_variant,,ENST00000409541,;AC073342.12,upstream_gene_variant,,ENST00000427392,;AC073342.12,upstream_gene_variant,,ENST00000446192,;RN7SL535P,upstream_gene_variant,,ENST00000479087,;CASP2,upstream_gene_variant,,ENST00000493642,;TMEM139,downstream_gene_variant,,ENST00000487419,;TMEM139,downstream_gene_variant,,ENST00000482420,;TMEM139,downstream_gene_variant,,ENST00000480421,;TMEM139,downstream_gene_variant,,ENST00000471161,;CASP2,synonymous_variant,p.%3D,ENST00000350623,;CASP2,upstream_gene_variant,,ENST00000481483,;	T	ENSG00000106144	ENST00000310447	Transcript	synonymous_variant	292	51	17	L	ctG/ctT	COSM1312777	.	.	1	CASP2	HGNC	1503	protein_coding	YES	CCDS5879.1	ENSP00000312664	CASP2_HUMAN	B4E0I5_HUMAN	UPI000020F1E8	.	.	.	1/11	.	hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF129	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGATGGC	.	5	BLCA
MICALL2	0	.	GRCh37	7	1481960	1481960	+	Missense_Mutation	SNP	G	G	C	rs762258467	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1579C>G	p.Gln527Glu	p.Q527E	ENST00000297508	7/17	158	102	55	95	95	0	MICALL2,missense_variant,p.Gln527Glu,ENST00000297508,;MICALL2,missense_variant,p.Gln315Glu,ENST00000405088,;MICALL2,upstream_gene_variant,,ENST00000471899,;MICALL2,missense_variant,p.Gln485Glu,ENST00000413446,;MICALL2,non_coding_transcript_exon_variant,,ENST00000472100,;MICALL2,upstream_gene_variant,,ENST00000460198,;MICALL2,upstream_gene_variant,,ENST00000496184,;MICALL2,upstream_gene_variant,,ENST00000493998,;MICALL2,upstream_gene_variant,,ENST00000487187,;MICALL2,upstream_gene_variant,,ENST00000467394,;MICALL2,upstream_gene_variant,,ENST00000470807,;MICALL2,upstream_gene_variant,,ENST00000479007,;MICALL2,downstream_gene_variant,,ENST00000490608,;MICALL2,upstream_gene_variant,,ENST00000487156,;MICALL2,upstream_gene_variant,,ENST00000467783,;MICALL2,downstream_gene_variant,,ENST00000482839,;	C	ENSG00000164877	ENST00000297508	Transcript	missense_variant	1755	1579	527	Q/E	Cag/Gag	rs762258467,COSM745007	.	.	-1	MICALL2	HGNC	29672	protein_coding	YES	CCDS5324.1	ENSP00000297508	MILK2_HUMAN	.	UPI00000742E0	.	tolerated(0.48)	benign(0.036)	7/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR25069:SF96,hmmpanther:PTHR25069	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGAGAGG	.	5	BLCA
KMT2C	0	.	GRCh37	7	151949045	151949045	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1600G>T	p.Glu534Ter	p.E534*	ENST00000262189	11/59	29	17	11	51	51	0	KMT2C,stop_gained,p.Glu534Ter,ENST00000355193,;KMT2C,stop_gained,p.Glu534Ter,ENST00000262189,;KMT2C,upstream_gene_variant,,ENST00000418673,;KMT2C,stop_gained,p.Glu534Ter,ENST00000558084,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	1819	1600	534	E/*	Gag/Tag	COSM1312891,COSM1312890	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	11/59	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCCACTT	.	5	BLCA
EN2	0	.	GRCh37	7	155251266	155251266	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.194G>T	p.Arg65Leu	p.R65L	ENST00000297375	1/2	15	11	4	16	16	0	EN2,missense_variant,p.Arg65Leu,ENST00000297375,;AC008060.8,upstream_gene_variant,,ENST00000419225,;	T	ENSG00000164778	ENST00000297375	Transcript	missense_variant	443	194	65	R/L	cGc/cTc	.	.	.	1	EN2	HGNC	3343	protein_coding	YES	CCDS5940.1	ENSP00000297375	HME2_HUMAN	.	UPI000012CA05	.	deleterious(0)	benign(0.002)	1/2	.	hmmpanther:PTHR24341:SF5,hmmpanther:PTHR24341	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GCACCGCATCA	.	2	BLCA
VIPR2	0	.	GRCh37	7	158827298	158827298	+	Nonsense_Mutation	SNP	G	G	A	rs767254624	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853C>T	p.Arg285Ter	p.R285*	ENST00000262178	9/13	78	58	20	82	82	0	VIPR2,stop_gained,p.Arg285Ter,ENST00000262178,;VIPR2,stop_gained,p.Arg269Ter,ENST00000377633,;VIPR2,stop_gained,p.Arg426Ter,ENST00000402066,;LINC00689,downstream_gene_variant,,ENST00000413238,;	A	ENSG00000106018	ENST00000262178	Transcript	stop_gained	1039	853	285	R/*	Cga/Tga	rs767254624,COSM1312926	.	.	-1	VIPR2	HGNC	12695	protein_coding	YES	CCDS5950.1	ENSP00000262178	VIPR2_HUMAN	Q71V81_HUMAN	UPI0000055A9A	.	.	.	9/13	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF27,Pfam_domain:PF00002,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTCGTATGA	byFrequency	5	BLCA
IL6	0	.	GRCh37	7	22768323	22768323	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222G>C	p.Lys74Asn	p.K74N	ENST00000404625	4/6	71	66	5	64	64	0	IL6,missense_variant,p.Lys51Asn,ENST00000401630,;IL6,missense_variant,p.Lys128Asn,ENST00000420258,;IL6,missense_variant,p.Lys74Asn,ENST00000258743,;IL6,missense_variant,p.Lys74Asn,ENST00000426291,;IL6,missense_variant,p.Lys74Asn,ENST00000406575,;IL6,missense_variant,p.Lys74Asn,ENST00000404625,;IL6,5_prime_UTR_variant,,ENST00000401651,;IL6,5_prime_UTR_variant,,ENST00000407492,;AC073072.5,upstream_gene_variant,,ENST00000325042,;IL6,non_coding_transcript_exon_variant,,ENST00000485300,;IL6,non_coding_transcript_exon_variant,,ENST00000464710,;	C	ENSG00000136244	ENST00000404625	Transcript	missense_variant	681	222	74	K/N	aaG/aaC	COSM1312967	.	.	1	IL6	HGNC	6018	protein_coding	YES	CCDS5375.1	ENSP00000385675	IL6_HUMAN	Q75MH2_HUMAN,H9C875_HUMAN,C9J5B0_HUMAN,B5MC21_HUMAN	UPI000002C4A6	.	tolerated(0.76)	benign(0.013)	4/6	.	Prints_domain:PR00433,Superfamily_domains:SSF47266,SMART_domains:SM00126,PIRSF_domain:PIRSF001935,Pfam_domain:PF00489,Gene3D:1.20.1250.10,hmmpanther:PTHR11457:SF0,hmmpanther:PTHR11457	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACAAGAGTAA	.	2	BLCA
NUPL2	0	.	GRCh37	7	23239972	23239972	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880G>A	p.Glu294Lys	p.E294K	ENST00000258742	7/7	19	10	9	17	17	0	NUPL2,missense_variant,p.Glu319Lys,ENST00000413919,;NUPL2,missense_variant,p.Glu294Lys,ENST00000258742,;NUPL2,downstream_gene_variant,,ENST00000487595,;NUPL2,3_prime_UTR_variant,,ENST00000437140,;NUPL2,3_prime_UTR_variant,,ENST00000438012,;NUPL2,non_coding_transcript_exon_variant,,ENST00000489145,;NUPL2,non_coding_transcript_exon_variant,,ENST00000485250,;NUPL2,non_coding_transcript_exon_variant,,ENST00000477844,;NUPL2,downstream_gene_variant,,ENST00000486136,;	A	ENSG00000136243	ENST00000258742	Transcript	missense_variant	1139	880	294	E/K	Gaa/Aaa	COSM1312971	.	.	1	NUPL2	HGNC	17010	protein_coding	YES	CCDS5379.1	ENSP00000258742	NUPL2_HUMAN	.	UPI0000072A3C	.	tolerated(0.6)	benign(0.009)	7/7	.	hmmpanther:PTHR21495,hmmpanther:PTHR21495:SF42	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	AGCCTGAAGTC	.	4	BLCA
BLVRA	0	.	GRCh37	7	43810749	43810749	+	5'UTR	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-9G>C	.	.	ENST00000402924	3/9	80	34	46	51	51	0	BLVRA,5_prime_UTR_variant,,ENST00000424330,;BLVRA,5_prime_UTR_variant,,ENST00000265523,;BLVRA,5_prime_UTR_variant,,ENST00000402924,;BLVRA,non_coding_transcript_exon_variant,,ENST00000453612,;AC005189.6,downstream_gene_variant,,ENST00000431286,;	C	ENSG00000106605	ENST00000402924	Transcript	5_prime_UTR_variant	155	.	.	.	.	.	.	.	1	BLVRA	HGNC	1062	protein_coding	YES	CCDS5472.1	ENSP00000385757	BIEA_HUMAN	C9J1E1_HUMAN	UPI0000126937	.	.	.	3/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAGACC	.	5	BLCA
Y_RNA	0	.	GRCh37	7	75144016	75144016	+	5'Flank	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000364004	.	20	12	7	20	20	0	Y_RNA,upstream_gene_variant,,ENST00000364004,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000430602,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000422064,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000437568,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000418756,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000394921,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000533167,;PMS2P3,downstream_gene_variant,,ENST00000438326,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000301956,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000275580,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000434405,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000529061,;	T	ENSG00000200874	ENST00000364004	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1566	-1	Y_RNA	RFAM	.	misc_RNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TCCTTCACTGC	.	2	BLCA
ASB4	0	.	GRCh37	7	95165794	95165794	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1024G>A	p.Val342Ile	p.V342I	ENST00000325885	4/5	69	54	15	57	57	0	ASB4,missense_variant,p.Val342Ile,ENST00000325885,;	A	ENSG00000005981	ENST00000325885	Transcript	missense_variant	1095	1024	342	V/I	Gtc/Atc	COSM1313449	.	.	1	ASB4	HGNC	16009	protein_coding	YES	CCDS5641.1	ENSP00000321388	ASB4_HUMAN	.	UPI00001260E8	.	tolerated(0.47)	benign(0.039)	4/5	.	hmmpanther:PTHR24188:SF26,hmmpanther:PTHR24188	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTAGTCAAT	.	5	BLCA
SNX31	0	.	GRCh37	8	101629926	101629926	+	Silent	SNP	A	A	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.354T>C	p.%3D	p.Y118Y	ENST00000311812	5/14	169	131	37	116	116	0	SNX31,synonymous_variant,p.%3D,ENST00000428383,;SNX31,synonymous_variant,p.%3D,ENST00000520661,;SNX31,synonymous_variant,p.%3D,ENST00000520352,;SNX31,synonymous_variant,p.%3D,ENST00000311812,;KB-1083B1.1,upstream_gene_variant,,ENST00000521535,;KB-1083B1.1,upstream_gene_variant,,ENST00000521625,;	G	ENSG00000174226	ENST00000311812	Transcript	synonymous_variant	505	354	118	Y	taT/taC	COSM1313541	.	.	-1	SNX31	HGNC	28605	protein_coding	YES	CCDS6288.1	ENSP00000312368	SNX31_HUMAN	E5RJK2_HUMAN	UPI000004A790	.	.	.	5/14	.	hmmpanther:PTHR12431:SF15,hmmpanther:PTHR12431	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGATAAGC	.	5	BLCA
CSMD3	0	.	GRCh37	8	114185980	114185980	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.680C>T	p.Ser227Leu	p.S227L	ENST00000297405	4/71	226	172	53	158	158	0	CSMD3,missense_variant,p.Ser227Leu,ENST00000352409,;CSMD3,missense_variant,p.Ser227Leu,ENST00000455883,;CSMD3,missense_variant,p.Ser227Leu,ENST00000297405,;CSMD3,missense_variant,p.Ser187Leu,ENST00000343508,;CSMD3,non_coding_transcript_exon_variant,,ENST00000519485,;CSMD3,non_coding_transcript_exon_variant,,ENST00000462254,;CSMD3,non_coding_transcript_exon_variant,,ENST00000497026,;	A	ENSG00000164796	ENST00000297405	Transcript	missense_variant	925	680	227	S/L	tCg/tTg	COSM3924529,COSM3924530	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	tolerated(0.37)	benign(0.034)	4/71	.	PROSITE_profiles:PS50923,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACGAAGCT	.	5	BLCA
CSMD3	0	.	GRCh37	8	114185981	114185981	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.679T>A	p.Ser227Thr	p.S227T	ENST00000297405	4/71	227	174	52	159	159	0	CSMD3,missense_variant,p.Ser227Thr,ENST00000352409,;CSMD3,missense_variant,p.Ser227Thr,ENST00000455883,;CSMD3,missense_variant,p.Ser227Thr,ENST00000297405,;CSMD3,missense_variant,p.Ser187Thr,ENST00000343508,;CSMD3,non_coding_transcript_exon_variant,,ENST00000519485,;CSMD3,non_coding_transcript_exon_variant,,ENST00000462254,;CSMD3,non_coding_transcript_exon_variant,,ENST00000497026,;	T	ENSG00000164796	ENST00000297405	Transcript	missense_variant	924	679	227	S/T	Tcg/Acg	.	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	tolerated(0.53)	benign(0.125)	4/71	.	PROSITE_profiles:PS50923,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACGAAGCTG	.	5	BLCA
ATAD2	0	.	GRCh37	8	124382256	124382256	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736G>A	p.Glu246Lys	p.E246K	ENST00000287394	7/28	115	53	61	67	67	0	ATAD2,missense_variant,p.Glu246Lys,ENST00000287394,;ATAD2,5_prime_UTR_variant,,ENST00000521903,;ATAD2,upstream_gene_variant,,ENST00000534257,;ATAD2,3_prime_UTR_variant,,ENST00000517666,;ATAD2,3_prime_UTR_variant,,ENST00000519124,;ATAD2,non_coding_transcript_exon_variant,,ENST00000521496,;ATAD2,downstream_gene_variant,,ENST00000530065,;	T	ENSG00000156802	ENST00000287394	Transcript	missense_variant	844	736	246	E/K	Gaa/Aaa	COSM1313693	.	.	-1	ATAD2	HGNC	30123	protein_coding	YES	CCDS6343.1	ENSP00000287394	ATAD2_HUMAN	.	UPI0000052A8C	.	tolerated(0.18)	benign(0.007)	7/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23069,hmmpanther:PTHR23069:SF1,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAGATG	.	5	BLCA
RHPN1	0	.	GRCh37	8	144457813	144457813	+	Missense_Mutation	SNP	C	C	T	rs373261318	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151C>T	p.Arg51Trp	p.R51W	ENST00000289013	2/15	54	24	29	56	56	0	RHPN1,missense_variant,p.Arg51Trp,ENST00000289013,;RHPN1,non_coding_transcript_exon_variant,,ENST00000522335,;RHPN1,upstream_gene_variant,,ENST00000522899,;	T	ENSG00000158106	ENST00000289013	Transcript	missense_variant	252	151	51	R/W	Cgg/Tgg	rs373261318,COSM1313779,COSM1313778	.	.	1	RHPN1	HGNC	19973	protein_coding	YES	CCDS47927.1	ENSP00000289013	RHPN1_HUMAN	.	UPI0000071870	.	deleterious(0)	probably_damaging(1)	2/15	.	hmmpanther:PTHR23031:SF6,hmmpanther:PTHR23031,Gene3D:1.10.287.160,Pfam_domain:PF02185,SMART_domains:SM00742,Superfamily_domains:SSF46585	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATGCGGACG	byFrequency|byCluster	5	BLCA
UBXN8	0	.	GRCh37	8	30620854	30620854	+	RNA	SNP	C	C	T	rs770362555	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.834C>T	.	.	ENST00000519246	7/8	77	33	43	45	45	0	UBXN8,non_coding_transcript_exon_variant,,ENST00000521598,;UBXN8,non_coding_transcript_exon_variant,,ENST00000341403,;UBXN8,non_coding_transcript_exon_variant,,ENST00000522735,;UBXN8,non_coding_transcript_exon_variant,,ENST00000517341,;UBXN8,non_coding_transcript_exon_variant,,ENST00000518239,;UBXN8,non_coding_transcript_exon_variant,,ENST00000523607,;UBXN8,non_coding_transcript_exon_variant,,ENST00000265616,;UBXN8,non_coding_transcript_exon_variant,,ENST00000380154,;UBXN8,non_coding_transcript_exon_variant,,ENST00000519246,;UBXN8,downstream_gene_variant,,ENST00000518059,;UBXN8,non_coding_transcript_exon_variant,,ENST00000520436,;	T	ENSG00000104691	ENST00000519246	Transcript	non_coding_transcript_exon_variant	834	.	.	.	.	rs770362555,COSM1313989	.	.	1	UBXN8	HGNC	30307	processed_transcript	YES	.	.	.	.	.	.	.	.	7/8	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCCTACAGCTC	.	4	BLCA
KCNU1	0	.	GRCh37	8	36642052	36642052	+	Silent	SNP	C	C	T	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124C>T	p.%3D	p.L42L	ENST00000399881	1/27	28	19	9	48	48	0	KCNU1,synonymous_variant,p.%3D,ENST00000523973,;KCNU1,synonymous_variant,p.%3D,ENST00000399881,;KCNU1,synonymous_variant,p.%3D,ENST00000522372,;KCNU1,synonymous_variant,p.%3D,ENST00000522417,;	T	ENSG00000215262	ENST00000399881	Transcript	synonymous_variant	161	124	42	L	Ctg/Ttg	COSM1314012,COSM1314011	.	.	1	KCNU1	HGNC	18867	protein_coding	YES	CCDS55220.1	ENSP00000382770	KCNU1_HUMAN	.	UPI0000F079EF	.	.	.	1/27	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10027:SF23,hmmpanther:PTHR10027	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATCCTGTTG	.	5	BLCA
GGH	0	.	GRCh37	8	63939794	63939794	+	Silent	SNP	G	G	C	rs770885990	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306C>G	p.%3D	p.L102L	ENST00000260118	4/9	182	139	42	169	169	0	GGH,synonymous_variant,p.%3D,ENST00000260118,;RP11-659E9.4,downstream_gene_variant,,ENST00000521556,;GGH,non_coding_transcript_exon_variant,,ENST00000518113,;GGH,non_coding_transcript_exon_variant,,ENST00000523479,;GGH,upstream_gene_variant,,ENST00000518466,;GGH,non_coding_transcript_exon_variant,,ENST00000520609,;GGH,non_coding_transcript_exon_variant,,ENST00000518966,;GGH,downstream_gene_variant,,ENST00000523788,;	C	ENSG00000137563	ENST00000260118	Transcript	synonymous_variant	709	306	102	L	ctC/ctG	rs770885990,COSM1314142	.	.	-1	GGH	HGNC	4248	protein_coding	YES	CCDS6177.1	ENSP00000260118	GGH_HUMAN	.	UPI000000127C	.	.	.	4/9	.	PROSITE_profiles:PS51275,hmmpanther:PTHR11315:SF2,hmmpanther:PTHR11315,Pfam_domain:PF07722,Gene3D:3.40.50.880,Superfamily_domains:SSF52317	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTGAGGTC	.	5	BLCA
MSRA	0	.	GRCh37	8	9912011	9912011	+	5'UTR	SNP	C	C	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-16C>T	.	.	ENST00000317173	1/6	38	28	9	27	27	0	MSRA,5_prime_UTR_variant,,ENST00000317173,;MSRA,5_prime_UTR_variant,,ENST00000441698,;MSRA,5_prime_UTR_variant,,ENST00000518255,;MSRA,upstream_gene_variant,,ENST00000521209,;RP11-1E4.1,upstream_gene_variant,,ENST00000562143,;	T	ENSG00000175806	ENST00000317173	Transcript	5_prime_UTR_variant	234	.	.	.	.	.	.	.	1	MSRA	HGNC	7377	protein_coding	YES	CCDS5975.1	ENSP00000313921	MSRA_HUMAN	E5RJK1_HUMAN	UPI0000039C0C	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCGGCTG	.	5	BLCA
ZNF462	0	.	GRCh37	9	109688322	109688322	+	Missense_Mutation	SNP	C	C	G	rs563504428	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2129C>G	p.Thr710Ser	p.T710S	ENST00000277225	3/13	115	76	39	114	114	0	ZNF462,missense_variant,p.Thr710Ser,ENST00000277225,;ZNF462,missense_variant,p.Thr710Ser,ENST00000457913,;ZNF462,intron_variant,,ENST00000472574,;ZNF462,upstream_gene_variant,,ENST00000441147,;RP11-508N12.4,downstream_gene_variant,,ENST00000451160,;ZNF462,upstream_gene_variant,,ENST00000374686,;ZNF462,upstream_gene_variant,,ENST00000497489,;ZNF462,upstream_gene_variant,,ENST00000480607,;	G	ENSG00000148143	ENST00000277225	Transcript	missense_variant	2418	2129	710	T/S	aCc/aGc	rs563504428,COSM1314347	.	.	1	ZNF462	HGNC	21684	protein_coding	YES	CCDS35096.1	ENSP00000277225	ZN462_HUMAN	U3KQ68_HUMAN,F5H0Z0_HUMAN	UPI0000470106	.	.	benign(0.003)	3/13	.	hmmpanther:PTHR24385:SF52,hmmpanther:PTHR24385	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAAACCAAAC	by1000G	5	BLCA
DENND1A	0	.	GRCh37	9	126143682	126143682	+	3'UTR	SNP	C	C	T	rs772031561	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29G>A	.	.	ENST00000373624	22/22	30	27	3	25	25	0	DENND1A,3_prime_UTR_variant,,ENST00000394219,;DENND1A,3_prime_UTR_variant,,ENST00000542603,;DENND1A,3_prime_UTR_variant,,ENST00000373624,;CRB2,downstream_gene_variant,,ENST00000373629,;CRB2,downstream_gene_variant,,ENST00000373631,;DENND1A,non_coding_transcript_exon_variant,,ENST00000473039,;CRB2,downstream_gene_variant,,ENST00000460253,;	T	ENSG00000119522	ENST00000373624	Transcript	3_prime_UTR_variant	3261	.	.	.	.	rs772031561	.	.	-1	DENND1A	HGNC	29324	protein_coding	YES	CCDS35133.1	ENSP00000362727	DEN1A_HUMAN	.	UPI00004589D2	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCGGTGC	byFrequency	2	BLCA
AK1	0	.	GRCh37	9	130630261	130630261	+	3'UTR	SNP	G	G	A	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*26C>T	.	.	ENST00000373176	7/7	55	44	10	71	71	0	AK1,3_prime_UTR_variant,,ENST00000373176,;AK1,3_prime_UTR_variant,,ENST00000413016,;AK1,downstream_gene_variant,,ENST00000373156,;AK1,downstream_gene_variant,,ENST00000223836,;MIR4672,downstream_gene_variant,,ENST00000583126,;RP11-203J24.9,non_coding_transcript_exon_variant,,ENST00000476274,;RP11-203J24.9,downstream_gene_variant,,ENST00000548587,;AK1,3_prime_UTR_variant,,ENST00000550143,;AK1,downstream_gene_variant,,ENST00000550992,;	A	ENSG00000106992	ENST00000373176	Transcript	3_prime_UTR_variant	764	.	.	.	.	.	.	.	-1	AK1	HGNC	361	protein_coding	YES	CCDS6881.1	ENSP00000362271	KAD1_HUMAN	Q6FGX9_HUMAN	UPI000012DB89	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGAGCTG	.	5	BLCA
AK1	0	.	GRCh37	9	130630320	130630320	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>T	p.%3D	p.S184S	ENST00000373176	7/7	74	51	22	91	91	0	AK1,synonymous_variant,p.%3D,ENST00000373156,;AK1,synonymous_variant,p.%3D,ENST00000373176,;AK1,synonymous_variant,p.%3D,ENST00000413016,;AK1,synonymous_variant,p.%3D,ENST00000223836,;MIR4672,downstream_gene_variant,,ENST00000583126,;RP11-203J24.9,non_coding_transcript_exon_variant,,ENST00000476274,;RP11-203J24.9,downstream_gene_variant,,ENST00000548587,;AK1,3_prime_UTR_variant,,ENST00000550143,;AK1,downstream_gene_variant,,ENST00000550992,;	A	ENSG00000106992	ENST00000373176	Transcript	synonymous_variant	705	552	184	S	tcC/tcT	COSM1314483	.	.	-1	AK1	HGNC	361	protein_coding	YES	CCDS6881.1	ENSP00000362271	KAD1_HUMAN	Q6FGX9_HUMAN	UPI000012DB89	.	.	.	7/7	.	HAMAP:MF_00235,HAMAP:MF_03171,hmmpanther:PTHR23359,hmmpanther:PTHR23359:SF59,TIGRFAM_domain:TIGR01360,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTGGGAGAA	.	5	BLCA
ST6GALNAC4	0	.	GRCh37	9	130670821	130670821	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.759G>C	p.Glu253Asp	p.E253D	ENST00000335791	6/6	114	61	53	104	104	0	ST6GALNAC4,missense_variant,p.Glu253Asp,ENST00000335791,;ST6GALNAC4,missense_variant,p.Glu169Asp,ENST00000343609,;ST6GALNAC4,missense_variant,p.Glu169Asp,ENST00000361444,;ST6GALNAC6,upstream_gene_variant,,ENST00000447681,;ST6GALNAC4,non_coding_transcript_exon_variant,,ENST00000495983,;ST6GALNAC4,non_coding_transcript_exon_variant,,ENST00000467674,;ST6GALNAC4,non_coding_transcript_exon_variant,,ENST00000474282,;ST6GALNAC6,upstream_gene_variant,,ENST00000494611,;ST6GALNAC4,downstream_gene_variant,,ENST00000483438,;ST6GALNAC6,upstream_gene_variant,,ENST00000483353,;	G	ENSG00000136840	ENST00000335791	Transcript	missense_variant	1035	759	253	E/D	gaG/gaC	COSM1314484	.	.	-1	ST6GALNAC4	HGNC	17846	protein_coding	YES	CCDS6883.1	ENSP00000336733	SIA7D_HUMAN	A8K7N4_HUMAN,A6NJX0_HUMAN	UPI0000001658	.	.	probably_damaging(0.988)	6/6	.	hmmpanther:PTHR13713:SF35,hmmpanther:PTHR13713,Pfam_domain:PF00777	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCTCAAA	.	5	BLCA
FAM102A	0	.	GRCh37	9	130742369	130742369	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48C>T	p.%3D	p.F16F	ENST00000373095	1/11	196	134	62	170	170	0	FAM102A,synonymous_variant,p.%3D,ENST00000373095,;FAM102A,non_coding_transcript_exon_variant,,ENST00000494606,;FAM102A,upstream_gene_variant,,ENST00000493175,;	A	ENSG00000167106	ENST00000373095	Transcript	synonymous_variant	424	48	16	F	ttC/ttT	COSM1314485	.	.	-1	FAM102A	HGNC	31419	protein_coding	YES	CCDS35150.1	ENSP00000362187	F102A_HUMAN	.	UPI00005D3C96	.	.	.	1/11	.	Low_complexity_(Seg):seg,Pfam_domain:PF10358,hmmpanther:PTHR21456,hmmpanther:PTHR21456:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGTGAAAGT	.	5	BLCA
FAM102A	0	.	GRCh37	9	130742417	130742417	+	5'UTR	SNP	G	G	C	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1C>G	.	.	ENST00000373095	1/11	112	78	34	135	135	0	FAM102A,5_prime_UTR_variant,,ENST00000373095,;FAM102A,non_coding_transcript_exon_variant,,ENST00000494606,;FAM102A,upstream_gene_variant,,ENST00000493175,;	C	ENSG00000167106	ENST00000373095	Transcript	5_prime_UTR_variant	376	.	.	.	.	.	.	.	-1	FAM102A	HGNC	31419	protein_coding	YES	CCDS35150.1	ENSP00000362187	F102A_HUMAN	.	UPI00005D3C96	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCATGAGCGA	.	3	BLCA
AGPAT2	0	.	GRCh37	9	139571568	139571568	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>T	p.Glu113Ter	p.E113*	ENST00000371696	3/6	32	23	9	54	54	0	AGPAT2,stop_gained,p.Glu113Ter,ENST00000371696,;AGPAT2,stop_gained,p.Glu113Ter,ENST00000538402,;AGPAT2,stop_gained,p.Glu113Ter,ENST00000371694,;EGFL7,downstream_gene_variant,,ENST00000308874,;EGFL7,downstream_gene_variant,,ENST00000371698,;EGFL7,downstream_gene_variant,,ENST00000371699,;EGFL7,downstream_gene_variant,,ENST00000406555,;AGPAT2,non_coding_transcript_exon_variant,,ENST00000472820,;AGPAT2,non_coding_transcript_exon_variant,,ENST00000470861,;	A	ENSG00000169692	ENST00000371696	Transcript	stop_gained	403	337	113	E/*	Gag/Tag	COSM1314642	.	.	-1	AGPAT2	HGNC	325	protein_coding	YES	CCDS7003.1	ENSP00000360761	PLCB_HUMAN	Q8WUW2_HUMAN	UPI0000131BD3	.	.	.	3/6	.	hmmpanther:PTHR10434,hmmpanther:PTHR10434:SF2,TIGRFAM_domain:TIGR00530,Pfam_domain:PF01553,Gene3D:1iuqA02,SMART_domains:SM00563,Superfamily_domains:0039877	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCCGGAA	.	5	BLCA
NELFB	0	.	GRCh37	9	140151344	140151344	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435G>A	p.%3D	p.V145V	ENST00000343053	4/13	50	41	8	46	46	0	NELFB,synonymous_variant,p.%3D,ENST00000343053,;C9orf173,downstream_gene_variant,,ENST00000412566,;C9orf173,downstream_gene_variant,,ENST00000388931,;	A	ENSG00000188986	ENST00000343053	Transcript	synonymous_variant	772	435	145	V	gtG/gtA	COSM1314666	.	.	1	NELFB	HGNC	24324	protein_coding	YES	CCDS7040.1	ENSP00000339495	NELFB_HUMAN	.	UPI0000070699	.	.	.	4/13	.	hmmpanther:PTHR13503,Pfam_domain:PF06209	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTGAAGCG	.	5	BLCA
TLE1	0	.	GRCh37	9	84235445	84235445	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622C>T	p.%3D	p.L208L	ENST00000376499	9/20	79	61	18	59	59	0	TLE1,synonymous_variant,p.%3D,ENST00000376499,;TLE1,synonymous_variant,p.%3D,ENST00000418319,;TLE1,5_prime_UTR_variant,,ENST00000376472,;TLE1,non_coding_transcript_exon_variant,,ENST00000464999,;TLE1,non_coding_transcript_exon_variant,,ENST00000491534,;	A	ENSG00000196781	ENST00000376499	Transcript	synonymous_variant	1687	622	208	L	Cta/Tta	COSM1314951	.	.	-1	TLE1	HGNC	11837	protein_coding	YES	CCDS6661.1	ENSP00000365682	TLE1_HUMAN	.	UPI0000137034	.	.	.	9/20	.	hmmpanther:PTHR10814	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTAGACTGT	.	5	BLCA
SUSD3	0	.	GRCh37	9	95840160	95840160	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310G>A	p.Val104Met	p.V104M	ENST00000375472	3/5	70	37	32	105	105	0	SUSD3,missense_variant,p.Val104Met,ENST00000375472,;SUSD3,missense_variant,p.Val91Met,ENST00000375469,;SUSD3,missense_variant,p.Val29Met,ENST00000465709,;SUSD3,missense_variant,p.Val12Met,ENST00000471462,;	A	ENSG00000157303	ENST00000375472	Transcript	missense_variant	346	310	104	V/M	Gtg/Atg	COSM1315025	.	.	1	SUSD3	HGNC	28391	protein_coding	YES	CCDS6701.1	ENSP00000364621	SUSD3_HUMAN	.	UPI0000070B4A	.	deleterious(0)	probably_damaging(0.999)	3/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19325:SF316,hmmpanther:PTHR19325	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAGGTGGCC	.	5	BLCA
TAF7L	0	.	GRCh37	X	100524223	100524223	+	Silent	SNP	G	G	A	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1347C>T	p.%3D	p.L449L	ENST00000372907	13/13	89	73	16	47	47	0	TAF7L,synonymous_variant,p.%3D,ENST00000372905,;TAF7L,synonymous_variant,p.%3D,ENST00000356784,;TAF7L,synonymous_variant,p.%3D,ENST00000324762,;TAF7L,synonymous_variant,p.%3D,ENST00000372907,;DRP2,downstream_gene_variant,,ENST00000538510,;DRP2,downstream_gene_variant,,ENST00000402866,;DRP2,downstream_gene_variant,,ENST00000541709,;DRP2,downstream_gene_variant,,ENST00000395209,;	A	ENSG00000102387	ENST00000372907	Transcript	synonymous_variant	1359	1347	449	L	ctC/ctT	.	.	.	-1	TAF7L	HGNC	11548	protein_coding	YES	CCDS35347.1	ENSP00000361998	TAF7L_HUMAN	.	UPI0000212176	.	.	.	13/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12228,hmmpanther:PTHR12228:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATGAGCTG	.	5	BLCA
PAK3	0	.	GRCh37	X	110439755	110439755	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1402G>A	p.Glu468Lys	p.E468K	ENST00000360648	14/16	121	64	57	66	66	0	PAK3,missense_variant,p.Glu447Lys,ENST00000372010,;PAK3,missense_variant,p.Glu468Lys,ENST00000360648,;PAK3,missense_variant,p.Glu432Lys,ENST00000446737,;PAK3,missense_variant,p.Glu432Lys,ENST00000425146,;PAK3,missense_variant,p.Glu453Lys,ENST00000417227,;PAK3,missense_variant,p.Glu468Lys,ENST00000518291,;PAK3,missense_variant,p.Glu447Lys,ENST00000262836,;PAK3,missense_variant,p.Glu432Lys,ENST00000372007,;PAK3,missense_variant,p.Glu453Lys,ENST00000519681,;	A	ENSG00000077264	ENST00000360648	Transcript	missense_variant	1429	1402	468	E/K	Gag/Aag	COSM1315120,COSM1315119	.	.	1	PAK3	HGNC	8592	protein_coding	YES	CCDS48151.1	ENSP00000353864	PAK3_HUMAN	B1AKS5_HUMAN	UPI0000D61DBC	.	deleterious(0)	probably_damaging(1)	14/16	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF250,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAGGTG	.	5	BLCA
KLHL13	0	.	GRCh37	X	117053581	117053581	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.482C>G	p.Ser161Cys	p.S161C	ENST00000539496	5/8	73	47	25	36	36	0	KLHL13,missense_variant,p.Ser142Cys,ENST00000540167,;KLHL13,missense_variant,p.Ser107Cys,ENST00000469946,;KLHL13,missense_variant,p.Ser107Cys,ENST00000371876,;KLHL13,missense_variant,p.Ser161Cys,ENST00000539496,;KLHL13,missense_variant,p.Ser107Cys,ENST00000371878,;KLHL13,missense_variant,p.Ser116Cys,ENST00000545703,;KLHL13,missense_variant,p.Ser107Cys,ENST00000371882,;KLHL13,missense_variant,p.Ser142Cys,ENST00000541812,;KLHL13,missense_variant,p.Ser107Cys,ENST00000447671,;KLHL13,missense_variant,p.Ser158Cys,ENST00000262820,;KLHL13,downstream_gene_variant,,ENST00000453826,;	C	ENSG00000003096	ENST00000539496	Transcript	missense_variant	482	482	161	S/C	tCt/tGt	COSM1315129	.	.	-1	KLHL13	HGNC	22931	protein_coding	YES	CCDS55480.1	ENSP00000443191	KLH13_HUMAN	Q96HC9_HUMAN,C9JTS9_HUMAN	UPI0001914B0F	.	tolerated(0.19)	benign(0.021)	5/8	.	Superfamily_domains:SSF54695,SMART_domains:SM00225,PIRSF_domain:PIRSF037037,Pfam_domain:PF00651,Gene3D:3.30.710.10,hmmpanther:PTHR24412:SF68,hmmpanther:PTHR24412,PROSITE_profiles:PS50097	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGAGAAAGC	.	5	BLCA
CDR1	0	.	GRCh37	X	139866322	139866322	+	Silent	SNP	C	C	T	rs191541717	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210G>A	p.%3D	p.S70S	ENST00000370532	1/1	56	53	3	55	55	0	CDR1,synonymous_variant,p.%3D,ENST00000370532,;	T	ENSG00000184258	ENST00000370532	Transcript	synonymous_variant	402	210	70	S	tcG/tcA	rs191541717,COSM1116174	.	.	-1	CDR1	HGNC	1798	protein_coding	YES	CCDS14670.1	ENSP00000359563	CDR1_HUMAN	.	UPI000034ECCD	.	.	.	1/1	.	hmmpanther:PTHR15194	T:0.0003	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S70S|c.210G>A|4	MUTECT|MUSE	GCTTCCGAAAA	byCluster|by1000G	2	BLCA
HCFC1	0	.	GRCh37	X	153224926	153224926	+	Silent	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1461C>T	p.%3D	p.L487L	ENST00000310441	9/26	48	29	19	39	39	0	HCFC1,synonymous_variant,p.%3D,ENST00000369984,;HCFC1,synonymous_variant,p.%3D,ENST00000310441,;HCFC1,synonymous_variant,p.%3D,ENST00000354233,;HCFC1,downstream_gene_variant,,ENST00000461098,;	A	ENSG00000172534	ENST00000310441	Transcript	synonymous_variant	2428	1461	487	L	ctC/ctT	COSM1315343,COSM1315342	.	.	-1	HCFC1	HGNC	4839	protein_coding	YES	CCDS44020.1	ENSP00000309555	HCFC1_HUMAN	Q05C05_HUMAN	UPI0000142F1F	.	.	.	9/26	.	hmmpanther:PTHR23244,hmmpanther:PTHR23244:SF266,SMART_domains:SM00060	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGAGAAC	.	5	BLCA
MSN	0	.	GRCh37	X	64959692	64959692	+	Silent	SNP	G	G	A	rs763920638	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1671G>A	p.%3D	p.K557K	ENST00000360270	13/13	115	68	47	97	97	0	MSN,synonymous_variant,p.%3D,ENST00000360270,;	A	ENSG00000147065	ENST00000360270	Transcript	synonymous_variant	1843	1671	557	K	aaG/aaA	rs763920638,COSM1315635	.	.	1	MSN	HGNC	7373	protein_coding	YES	CCDS14382.1	ENSP00000353408	MOES_HUMAN	.	UPI000013DA94	.	.	.	13/13	.	hmmpanther:PTHR23281:SF14,hmmpanther:PTHR23281,Pfam_domain:PF00769,PIRSF_domain:PIRSF002305,Superfamily_domains:0036951,Prints_domain:PR00661	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACAAGACCCT	byFrequency	5	BLCA
SLC7A3	0	.	GRCh37	X	70148356	70148356	+	Silent	SNP	G	G	T	novel	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657C>A	p.%3D	p.L219L	ENST00000374299	4/12	12	7	4	11	11	0	SLC7A3,synonymous_variant,p.%3D,ENST00000374299,;SLC7A3,synonymous_variant,p.%3D,ENST00000298085,;	T	ENSG00000165349	ENST00000374299	Transcript	synonymous_variant	802	657	219	L	ctC/ctA	.	.	.	-1	SLC7A3	HGNC	11061	protein_coding	YES	CCDS14404.1	ENSP00000363417	CTR3_HUMAN	.	UPI0000049F96	.	.	.	4/12	.	hmmpanther:PTHR11785:SF209,hmmpanther:PTHR11785,TIGRFAM_domain:TIGR00906,Pfam_domain:PF13520,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTGTGAGCTT	.	3	BLCA
ACRC	0	.	GRCh37	X	70823836	70823836	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GC-A3I6-01A-11D-A20D-08	TCGA-GC-A3I6-10A-01D-A20D-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.709G>A	p.Asp237Asn	p.D237N	ENST00000373695	7/12	342	55	287	243	242	1	ACRC,missense_variant,p.Asp237Asn,ENST00000373695,;ACRC,missense_variant,p.Asp237Asn,ENST00000373696,;	A	ENSG00000147174	ENST00000373695	Transcript	missense_variant	1246	709	237	D/N	Gac/Aac	COSM1315679	.	.	1	ACRC	HGNC	15805	protein_coding	YES	CCDS35326.1	ENSP00000362799	ACRC_HUMAN	.	UPI0000072023	.	.	unknown(0)	7/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23099,hmmpanther:PTHR23099:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGACGACAGC	.	5	BLCA
MGEA5	0	.	GRCh37	10	103560119	103560119	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075T>A	p.Leu359Ile	p.L359I	ENST00000361464	8/16	67	47	20	38	38	0	MGEA5,missense_variant,p.Leu359Ile,ENST00000370094,;MGEA5,missense_variant,p.Leu359Ile,ENST00000361464,;MGEA5,intron_variant,,ENST00000357797,;MGEA5,intron_variant,,ENST00000439817,;MGEA5,downstream_gene_variant,,ENST00000429860,;MGEA5,upstream_gene_variant,,ENST00000479811,;MGEA5,upstream_gene_variant,,ENST00000482611,;	T	ENSG00000198408	ENST00000361464	Transcript	missense_variant	1471	1075	359	L/I	Tta/Ata	COSM1296862	.	.	-1	MGEA5	HGNC	7056	protein_coding	YES	CCDS7520.1	ENSP00000354850	NCOAT_HUMAN	B3KMK2_HUMAN	UPI0000073533	.	deleterious(0.02)	possibly_damaging(0.87)	8/16	.	hmmpanther:PTHR13170,hmmpanther:PTHR13170:SF16	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTAATTTTA	.	5	BLCA
DOCK1	0	.	GRCh37	10	128925983	128925983	+	Silent	SNP	C	C	T	rs771458330	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2739C>T	p.%3D	p.T913T	ENST00000280333	27/52	82	77	5	143	143	0	DOCK1,synonymous_variant,p.%3D,ENST00000280333,;DOCK1,non_coding_transcript_exon_variant,,ENST00000473861,;	T	ENSG00000150760	ENST00000280333	Transcript	synonymous_variant	2848	2739	913	T	acC/acT	rs771458330,COSM1297058	.	.	1	DOCK1	HGNC	2987	protein_coding	YES	.	ENSP00000280333	DOCK1_HUMAN	.	UPI0000246CA1	.	.	.	27/52	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF79,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGACCGTGAA	.	2	BLCA
HSPA14	0	.	GRCh37	10	14891755	14891755	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>A	p.Asp138Asn	p.D138N	ENST00000378372	6/14	120	103	17	54	54	0	HSPA14,missense_variant,p.Asp138Asn,ENST00000378372,;HSPA14,downstream_gene_variant,,ENST00000441647,;HSPA14,upstream_gene_variant,,ENST00000470430,;	A	ENSG00000187522	ENST00000378372	Transcript	missense_variant	651	412	138	D/N	Gat/Aat	COSM1297122	.	.	1	HSPA14	HGNC	29526	protein_coding	YES	CCDS7103.1	ENSP00000367623	HSP7E_HUMAN	B4DYI5_HUMAN	UPI000013D6A8	.	tolerated(0.31)	benign(0.036)	6/14	.	hmmpanther:PTHR19375,hmmpanther:PTHR19375:SF158,Pfam_domain:PF00012,Gene3D:3.30.420.40,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATGATGTA	.	5	BLCA
OIT3	0	.	GRCh37	10	74690368	74690368	+	Silent	SNP	C	C	T	rs763730336	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440C>T	p.%3D	p.V480V	ENST00000334011	8/9	209	142	67	330	330	0	OIT3,synonymous_variant,p.%3D,ENST00000334011,;PLA2G12B,downstream_gene_variant,,ENST00000373032,;	T	ENSG00000138315	ENST00000334011	Transcript	synonymous_variant	1658	1440	480	V	gtC/gtT	rs763730336,COSM1297412	.	.	1	OIT3	HGNC	29953	protein_coding	YES	CCDS7318.1	ENSP00000333900	OIT3_HUMAN	.	UPI00000389F9	.	.	.	8/9	.	PROSITE_profiles:PS51034,hmmpanther:PTHR22962,hmmpanther:PTHR22962:SF131,Pfam_domain:PF00100,SMART_domains:SM00241	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGTCTTCAA	.	5	BLCA
EXT2	0	.	GRCh37	11	44146519	44146519	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023C>G	p.Tyr341Ter	p.Y341*	ENST00000395673	5/14	61	43	18	108	108	0	EXT2,stop_gained,p.Tyr308Ter,ENST00000358681,;EXT2,stop_gained,p.Tyr308Ter,ENST00000533608,;EXT2,stop_gained,p.Tyr341Ter,ENST00000395673,;EXT2,stop_gained,p.Tyr308Ter,ENST00000343631,;EXT2,non_coding_transcript_exon_variant,,ENST00000531161,;EXT2,upstream_gene_variant,,ENST00000525559,;	G	ENSG00000151348	ENST00000395673	Transcript	stop_gained	1079	1023	341	Y/*	taC/taG	COSM1298039,COSM1298038	.	.	1	EXT2	HGNC	3513	protein_coding	YES	CCDS53618.1	ENSP00000379032	EXT2_HUMAN	E9PNL9_HUMAN,E9PJA5_HUMAN	UPI0000EE3A5C	.	.	.	5/14	.	Pfam_domain:PF03016,hmmpanther:PTHR11062,hmmpanther:PTHR11062:SF6	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTACCCACA	.	5	BLCA
OR4C46	0	.	GRCh37	11	51516060	51516060	+	Missense_Mutation	SNP	C	C	A	rs749744998	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.779C>A	p.Ala260Glu	p.A260E	ENST00000328188	1/1	84	59	25	85	85	0	OR4C46,missense_variant,p.Ala260Glu,ENST00000328188,;	A	ENSG00000185926	ENST00000328188	Transcript	missense_variant	779	779	260	A/E	gCa/gAa	rs749744998,COSM1298124	.	.	1	OR4C46	HGNC	31271	protein_coding	YES	CCDS31498.1	ENSP00000329056	O4C46_HUMAN	.	UPI000013F6F8	.	tolerated_low_confidence(0.07)	possibly_damaging(0.598)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF284,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTGCAGCTA	.	5	BLCA
PLCB3	0	.	GRCh37	11	64029989	64029989	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2149G>A	p.Glu717Lys	p.E717K	ENST00000540288	18/32	57	40	17	141	141	0	PLCB3,missense_variant,p.Glu650Lys,ENST00000325234,;PLCB3,missense_variant,p.Glu717Lys,ENST00000540288,;PLCB3,missense_variant,p.Glu717Lys,ENST00000279230,;PLCB3,upstream_gene_variant,,ENST00000536243,;	A	ENSG00000149782	ENST00000540288	Transcript	missense_variant	2252	2149	717	E/K	Gag/Aag	COSM1298362	.	.	1	PLCB3	HGNC	9056	protein_coding	YES	CCDS8064.1	ENSP00000443631	PLCB3_HUMAN	.	UPI0000131AFF	.	deleterious(0.05)	possibly_damaging(0.814)	18/32	.	PIRSF_domain:PIRSF000956,Gene3D:3.20.20.190,hmmpanther:PTHR10336:SF11,hmmpanther:PTHR10336,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAGGTC	.	5	BLCA
SSH1	0	.	GRCh37	12	109194663	109194664	+	Frame_Shift_Del	DEL	AT	AT	-	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	AT	AT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1040_1041delAT	p.Asn347IlefsTer10	p.N347Ifs*10	ENST00000326495	12/15	149	120	29	91	91	0	SSH1,frameshift_variant,p.Asn358IlefsTer10,ENST00000326470,;SSH1,frameshift_variant,p.Asn347IlefsTer10,ENST00000551165,;SSH1,frameshift_variant,p.Asn347IlefsTer10,ENST00000326495,;SSH1,frameshift_variant,p.Asn35IlefsTer10,ENST00000360239,;SSH1,3_prime_UTR_variant,,ENST00000546433,;	-	ENSG00000084112	ENST00000326495	Transcript	frameshift_variant	1134-1135	1040-1041	347	N/X	aAT/a	.	.	.	-1	SSH1	HGNC	30579	protein_coding	YES	CCDS9121.1	ENSP00000315713	SSH1_HUMAN	.	UPI000003E894	.	.	.	12/15	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159,hmmpanther:PTHR10159:SF138,Gene3D:3.90.190.10,Pfam_domain:PF00782,SMART_domains:SM00195,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAAAAAATTATCG	.	3	BLCA
DDX55	0	.	GRCh37	12	124104079	124104079	+	Silent	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1434C>T	p.%3D	p.D478D	ENST00000238146	13/14	92	70	22	106	106	0	DDX55,synonymous_variant,p.%3D,ENST00000538744,;DDX55,synonymous_variant,p.%3D,ENST00000238146,;DDX55,synonymous_variant,p.%3D,ENST00000421670,;EIF2B1,downstream_gene_variant,,ENST00000539951,;EIF2B1,downstream_gene_variant,,ENST00000534960,;EIF2B1,downstream_gene_variant,,ENST00000424014,;SNORA9,downstream_gene_variant,,ENST00000384170,;DDX55,non_coding_transcript_exon_variant,,ENST00000541259,;DDX55,non_coding_transcript_exon_variant,,ENST00000542286,;DDX55,downstream_gene_variant,,ENST00000544738,;DDX55,downstream_gene_variant,,ENST00000354291,;DDX55,downstream_gene_variant,,ENST00000539934,;DDX55,downstream_gene_variant,,ENST00000543016,;	T	ENSG00000111364	ENST00000238146	Transcript	synonymous_variant	1484	1434	478	D	gaC/gaT	COSM1299059	.	.	1	DDX55	HGNC	20085	protein_coding	YES	CCDS9251.1	ENSP00000238146	DDX55_HUMAN	Q8IYH0_HUMAN	UPI000004F594	.	.	.	13/14	.	hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGACGTTAA	.	5	BLCA
SLCO1C1	0	.	GRCh37	12	20859006	20859006	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395T>C	p.Phe132Ser	p.F132S	ENST00000381552	4/15	146	89	57	296	296	0	SLCO1C1,missense_variant,p.Phe132Ser,ENST00000381552,;SLCO1C1,missense_variant,p.Phe132Ser,ENST00000545604,;SLCO1C1,missense_variant,p.Phe14Ser,ENST00000545102,;SLCO1C1,missense_variant,p.Phe132Ser,ENST00000266509,;SLCO1C1,missense_variant,p.Phe132Ser,ENST00000540354,;SLCO1C1,intron_variant,,ENST00000539415,;	C	ENSG00000139155	ENST00000381552	Transcript	missense_variant	763	395	132	F/S	tTc/tCc	COSM1299212,COSM1299211	.	.	1	SLCO1C1	HGNC	13819	protein_coding	YES	CCDS53757.1	ENSP00000370964	SO1C1_HUMAN	.	UPI00004C3E1B	.	deleterious(0)	possibly_damaging(0.756)	4/15	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11388,hmmpanther:PTHR11388:SF18,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTTCATGG	.	5	BLCA
KIF21A	0	.	GRCh37	12	39730925	39730925	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2391G>T	p.Gln797His	p.Q797H	ENST00000361418	17/38	170	48	121	73	73	0	KIF21A,missense_variant,p.Gln145His,ENST00000552961,;KIF21A,missense_variant,p.Gln797His,ENST00000361418,;KIF21A,missense_variant,p.Gln784His,ENST00000544797,;KIF21A,missense_variant,p.Gln797His,ENST00000395670,;KIF21A,missense_variant,p.Gln784His,ENST00000541463,;KIF21A,missense_variant,p.Gln784His,ENST00000361961,;KIF21A,upstream_gene_variant,,ENST00000551264,;KIF21A,upstream_gene_variant,,ENST00000551066,;KIF21A,missense_variant,p.Gln55His,ENST00000547108,;KIF21A,non_coding_transcript_exon_variant,,ENST00000546817,;	A	ENSG00000139116	ENST00000361418	Transcript	missense_variant	2407	2391	797	Q/H	caG/caT	COSM1299336	.	.	-1	KIF21A	HGNC	19349	protein_coding	YES	CCDS53776.1	ENSP00000354878	KI21A_HUMAN	.	UPI0000212ED9	.	deleterious(0)	probably_damaging(0.947)	17/38	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF398	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAACTGAGC	.	5	BLCA
SCAF11	0	.	GRCh37	12	46318787	46318787	+	Silent	SNP	C	C	T	rs773339022	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3630G>A	p.%3D	p.P1210P	ENST00000369367	12/15	81	60	21	80	80	0	SCAF11,synonymous_variant,p.%3D,ENST00000465950,;SCAF11,synonymous_variant,p.%3D,ENST00000369367,;SCAF11,synonymous_variant,p.%3D,ENST00000419565,;SCAF11,synonymous_variant,p.%3D,ENST00000549162,;SCAF11,downstream_gene_variant,,ENST00000484275,;SCAF11,upstream_gene_variant,,ENST00000547654,;SCAF11,upstream_gene_variant,,ENST00000550629,;SCAF11,non_coding_transcript_exon_variant,,ENST00000547950,;SCAF11,downstream_gene_variant,,ENST00000547018,;SCAF11,upstream_gene_variant,,ENST00000550893,;	T	ENSG00000139218	ENST00000369367	Transcript	synonymous_variant	3864	3630	1210	P	ccG/ccA	rs773339022,COSM1299388	.	.	-1	SCAF11	HGNC	10784	protein_coding	YES	CCDS8748.2	ENSP00000358374	SCAFB_HUMAN	F8VXG7_HUMAN	UPI0000D481F2	.	.	.	12/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15242:SF3,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTGCGGTTG	byFrequency	5	BLCA
CPSF6	0	.	GRCh37	12	69652373	69652373	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.698G>C	p.Gly233Ala	p.G233A	ENST00000435070	6/10	62	37	25	92	92	0	CPSF6,missense_variant,p.Gly270Ala,ENST00000266679,;CPSF6,missense_variant,p.Gly233Ala,ENST00000435070,;CPSF6,intron_variant,,ENST00000551516,;CPSF6,intron_variant,,ENST00000456847,;CPSF6,downstream_gene_variant,,ENST00000550987,;CPSF6,downstream_gene_variant,,ENST00000547486,;	C	ENSG00000111605	ENST00000435070	Transcript	missense_variant	808	698	233	G/A	gGa/gCa	COSM1299827,COSM1299828	.	.	1	CPSF6	HGNC	13871	protein_coding	YES	CCDS8988.1	ENSP00000391774	CPSF6_HUMAN	.	UPI00001FC746	.	tolerated(0.92)	unknown(0)	6/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23204,hmmpanther:PTHR23204:SF3	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGGACAGA	.	5	BLCA
PCDH17	0	.	GRCh37	13	58207677	58207677	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.997G>T	p.Ala333Ser	p.A333S	ENST00000377918	1/4	81	57	24	165	165	0	PCDH17,missense_variant,p.Ala333Ser,ENST00000377918,;PCDH17,missense_variant,p.Ala333Ser,ENST00000484979,;	T	ENSG00000118946	ENST00000377918	Transcript	missense_variant	1023	997	333	A/S	Gcc/Tcc	COSM1300263	.	.	1	PCDH17	HGNC	14267	protein_coding	YES	CCDS31986.1	ENSP00000367151	PCD17_HUMAN	.	UPI00001FCE5B	.	deleterious(0.05)	possibly_damaging(0.648)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF41,hmmpanther:PTHR24028,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGCCCAC	.	5	BLCA
GPC5	0	.	GRCh37	13	92345804	92345804	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.689A>T	p.Asn230Ile	p.N230I	ENST00000377067	3/8	33	7	26	43	43	0	GPC5,missense_variant,p.Asn230Ile,ENST00000377067,;	T	ENSG00000179399	ENST00000377067	Transcript	missense_variant	1061	689	230	N/I	aAt/aTt	COSM1300340	.	.	1	GPC5	HGNC	4453	protein_coding	YES	CCDS9468.1	ENSP00000366267	GPC5_HUMAN	.	UPI0000001C85	.	deleterious(0)	probably_damaging(0.995)	3/8	.	hmmpanther:PTHR10822,hmmpanther:PTHR10822:SF12,Pfam_domain:PF01153	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCAATCTGG	.	5	BLCA
AKAP6	0	.	GRCh37	14	33291375	33291375	+	Silent	SNP	C	C	T	rs751645690	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4356C>T	p.%3D	p.D1452D	ENST00000280979	13/14	46	20	25	25	25	0	AKAP6,synonymous_variant,p.%3D,ENST00000280979,;AKAP6,intron_variant,,ENST00000557272,;	T	ENSG00000151320	ENST00000280979	Transcript	synonymous_variant	4526	4356	1452	D	gaC/gaT	rs751645690,COSM1300571	.	.	1	AKAP6	HGNC	376	protein_coding	YES	CCDS9644.1	ENSP00000280979	AKAP6_HUMAN	G3V569_HUMAN,G3V3H6_HUMAN,G3V3H2_HUMAN,G3V3B5_HUMAN,D3DS91_HUMAN	UPI000013DC48	.	.	.	13/14	.	hmmpanther:PTHR14514,hmmpanther:PTHR14514:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGACTGTTT	.	5	BLCA
DACT1	0	.	GRCh37	14	59113073	59113073	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1732G>A	p.Val578Ile	p.V578I	ENST00000335867	4/4	27	20	7	31	31	0	DACT1,missense_variant,p.Val578Ile,ENST00000335867,;DACT1,missense_variant,p.Val541Ile,ENST00000395153,;DACT1,missense_variant,p.Val297Ile,ENST00000556859,;DACT1,missense_variant,p.Val297Ile,ENST00000541264,;DACT1,downstream_gene_variant,,ENST00000421793,;DACT1,downstream_gene_variant,,ENST00000555845,;	A	ENSG00000165617	ENST00000335867	Transcript	missense_variant	1756	1732	578	V/I	Gtc/Atc	COSM310464	.	.	1	DACT1	HGNC	17748	protein_coding	YES	CCDS9736.1	ENSP00000337439	DACT1_HUMAN	Q5DM88_HUMAN,C9JGV7_HUMAN,B7Z673_HUMAN	UPI000013E4D3	.	tolerated(1)	benign(0.004)	4/4	.	hmmpanther:PTHR15919,hmmpanther:PTHR15919:SF12,Pfam_domain:PF15268	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGCGTCGTG	.	5	BLCA
FMN1	0	.	GRCh37	15	33091032	33091032	+	Missense_Mutation	SNP	C	C	T	rs375921747	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3434G>A	p.Arg1145Gln	p.R1145Q	ENST00000334528	15/17	26	14	12	24	24	0	FMN1,missense_variant,p.Arg1368Gln,ENST00000559047,;FMN1,missense_variant,p.Arg1270Gln,ENST00000561249,;FMN1,missense_variant,p.Arg1145Gln,ENST00000334528,;FMN1,non_coding_transcript_exon_variant,,ENST00000558882,;	T	ENSG00000248905	ENST00000334528	Transcript	missense_variant	3434	3434	1145	R/Q	cGg/cAg	rs375921747,COSM1301027,COSM1301026	.	.	-1	FMN1	HGNC	3768	protein_coding	YES	CCDS45209.1	ENSP00000333950	FMN1_HUMAN	.	UPI00004086C3	.	deleterious(0)	probably_damaging(0.999)	15/17	.	PROSITE_profiles:PS51444,hmmpanther:PTHR13037,hmmpanther:PTHR13037:SF8,SMART_domains:SM00498,Superfamily_domains:SSF101447,Prints_domain:PR00828	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCCCGTTTC	byCluster|by1000G	5	BLCA
COX5A	0	.	GRCh37	15	75221462	75221462	+	Missense_Mutation	SNP	C	C	T	rs150174803	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.212G>A	p.Arg71His	p.R71H	ENST00000322347	2/5	137	82	55	141	141	0	COX5A,missense_variant,p.Arg71His,ENST00000562233,;COX5A,missense_variant,p.Arg71His,ENST00000322347,;COX5A,missense_variant,p.Arg71His,ENST00000568783,;COX5A,missense_variant,p.Arg71His,ENST00000564811,;COX5A,5_prime_UTR_variant,,ENST00000568517,;COX5A,intron_variant,,ENST00000567270,;	T	ENSG00000178741	ENST00000322347	Transcript	missense_variant	366	212	71	R/H	cGt/cAt	rs150174803,COSM1301428	.	.	-1	COX5A	HGNC	2267	protein_coding	YES	CCDS10273.1	ENSP00000317780	COX5A_HUMAN	Q71UP1_HUMAN,H3BRM5_HUMAN	UPI000007112F	.	deleterious(0.03)	benign(0.33)	2/5	.	hmmpanther:PTHR14200,hmmpanther:PTHR14200:SF11,Gene3D:1v54E00,Pfam_domain:PF02284,Superfamily_domains:0053246	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTACGCAAT	byCluster|by1000G	5	BLCA
CRAMP1L	0	.	GRCh37	16	1706030	1706030	+	Silent	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1272G>T	p.%3D	p.V424V	ENST00000397412	10/21	18	6	11	33	33	0	CRAMP1L,synonymous_variant,p.%3D,ENST00000436138,;CRAMP1L,synonymous_variant,p.%3D,ENST00000293925,;CRAMP1L,synonymous_variant,p.%3D,ENST00000397412,;CRAMP1L,intron_variant,,ENST00000262317,;LA16c-431H6.6,intron_variant,,ENST00000454337,;	T	ENSG00000007545	ENST00000397412	Transcript	synonymous_variant	1371	1272	424	V	gtG/gtT	COSM1301665	.	.	1	CRAMP1L	HGNC	14122	protein_coding	YES	CCDS10440.2	ENSP00000380559	CRML_HUMAN	B2RNX8_HUMAN	UPI000066D946	.	.	.	10/21	.	hmmpanther:PTHR21677	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTGCACTG	.	5	BLCA
PRSS36	0	.	GRCh37	16	31150574	31150574	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2453C>T	p.Ser818Phe	p.S818F	ENST00000268281	15/15	78	66	11	65	65	0	PRSS36,missense_variant,p.Ser715Phe,ENST00000418068,;PRSS36,missense_variant,p.Ser818Phe,ENST00000268281,;PRSS36,missense_variant,p.Ser813Phe,ENST00000569305,;PRSS8,upstream_gene_variant,,ENST00000568261,;PRSS8,upstream_gene_variant,,ENST00000567797,;PRSS8,upstream_gene_variant,,ENST00000317508,;PRSS8,upstream_gene_variant,,ENST00000567531,;PRSS36,3_prime_UTR_variant,,ENST00000571878,;PRSS36,non_coding_transcript_exon_variant,,ENST00000562368,;PRSS36,downstream_gene_variant,,ENST00000563693,;PRSS8,upstream_gene_variant,,ENST00000567833,;PRSS8,upstream_gene_variant,,ENST00000564025,;	A	ENSG00000178226	ENST00000268281	Transcript	missense_variant	2512	2453	818	S/F	tCc/tTc	COSM1301914	.	.	-1	PRSS36	HGNC	26906	protein_coding	YES	CCDS32436.1	ENSP00000268281	POLS2_HUMAN	B4DNP1_HUMAN	UPI00001FFF6A	.	tolerated(0.73)	benign(0.002)	15/15	.	PIRSF_domain:PIRSF037933	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGGGAGCCA	.	5	BLCA
CDH16	0	.	GRCh37	16	66948291	66948291	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608T>C	p.Leu203Pro	p.L203P	ENST00000299752	7/18	32	8	24	50	50	0	CDH16,missense_variant,p.Leu123Pro,ENST00000570262,;CDH16,missense_variant,p.Leu203Pro,ENST00000565796,;CDH16,missense_variant,p.Leu149Pro,ENST00000567009,;CDH16,missense_variant,p.Leu203Pro,ENST00000394055,;CDH16,missense_variant,p.Leu203Pro,ENST00000299752,;CDH16,intron_variant,,ENST00000568632,;CDH16,downstream_gene_variant,,ENST00000565235,;CDH16,missense_variant,p.Leu203Pro,ENST00000568698,;CDH16,3_prime_UTR_variant,,ENST00000567269,;	G	ENSG00000166589	ENST00000299752	Transcript	missense_variant	802	608	203	L/P	cTg/cCg	COSM1302107	.	.	-1	CDH16	HGNC	1755	protein_coding	YES	CCDS10823.1	ENSP00000299752	CAD16_HUMAN	J3QLA1_HUMAN	UPI0000126DB1	.	tolerated(0.19)	benign(0.033)	7/18	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF1,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCCAGGGCG	.	5	BLCA
LHX1	0	.	GRCh37	17	35300098	35300098	+	Silent	SNP	G	G	A	rs375453089	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891G>A	p.%3D	p.P297P	ENST00000254457	5/5	13	6	6	18	18	0	LHX1,synonymous_variant,p.%3D,ENST00000254457,;RP11-445F12.2,intron_variant,,ENST00000607336,;LHX1,intron_variant,,ENST00000589584,;LHX1,downstream_gene_variant,,ENST00000559335,;LHX1,downstream_gene_variant,,ENST00000557970,;LHX1,downstream_gene_variant,,ENST00000559572,;	A	ENSG00000132130	ENST00000254457	Transcript	synonymous_variant	2302	891	297	P	ccG/ccA	rs375453089,COSM1302693	.	.	1	LHX1	HGNC	6593	protein_coding	YES	CCDS11316.1	ENSP00000254457	LHX1_HUMAN	Q58F18_HUMAN	UPI000013CE37	.	.	.	5/5	.	hmmpanther:PTHR24208,hmmpanther:PTHR24208:SF94	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	TTCCCGCAAGG	byCluster|by1000G	4	BLCA
YBX2	0	.	GRCh37	17	7193038	7193038	+	Silent	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.855C>T	p.%3D	p.F285F	ENST00000007699	7/9	96	31	64	153	153	0	YBX2,synonymous_variant,p.%3D,ENST00000571464,;YBX2,synonymous_variant,p.%3D,ENST00000007699,;SLC2A4,downstream_gene_variant,,ENST00000317370,;SLC2A4,downstream_gene_variant,,ENST00000424875,;SLC2A4,downstream_gene_variant,,ENST00000571308,;YBX2,downstream_gene_variant,,ENST00000570627,;YBX2,non_coding_transcript_exon_variant,,ENST00000571485,;YBX2,non_coding_transcript_exon_variant,,ENST00000570720,;YBX2,non_coding_transcript_exon_variant,,ENST00000571834,;YBX2,downstream_gene_variant,,ENST00000571127,;SLC2A4,downstream_gene_variant,,ENST00000570783,;SLC2A4,downstream_gene_variant,,ENST00000572485,;	A	ENSG00000006047	ENST00000007699	Transcript	synonymous_variant	919	855	285	F	ttC/ttT	COSM1303288	.	.	-1	YBX2	HGNC	17948	protein_coding	YES	CCDS11098.1	ENSP00000007699	YBOX2_HUMAN	.	UPI000006E761	.	.	.	7/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11544:SF41,hmmpanther:PTHR11544	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCGGAAAGG	.	5	BLCA
KCTD2	0	.	GRCh37	17	73055695	73055695	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631G>T	p.Glu211Ter	p.E211*	ENST00000322444	4/6	33	19	14	67	67	0	KCTD2,stop_gained,p.Glu211Ter,ENST00000322444,;KCTD2,stop_gained,p.Glu12Ter,ENST00000581589,;KCTD2,non_coding_transcript_exon_variant,,ENST00000577516,;KCTD2,3_prime_UTR_variant,,ENST00000375286,;KCTD2,non_coding_transcript_exon_variant,,ENST00000579230,;RP11-1112G13.3,downstream_gene_variant,,ENST00000604684,;	T	ENSG00000180901	ENST00000322444	Transcript	stop_gained	637	631	211	E/*	Gaa/Taa	COSM1303325	.	.	1	KCTD2	HGNC	21294	protein_coding	YES	CCDS32728.1	ENSP00000312814	KCTD2_HUMAN	J3QSC8_HUMAN	UPI00001C1FDC	.	.	.	4/6	.	hmmpanther:PTHR14958,hmmpanther:PTHR14958:SF22	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AATTCGAACAG	.	4	BLCA
TP53	0	.	GRCh37	17	7577538	7577538	+	Missense_Mutation	SNP	C	C	T	rs11540652	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743G>A	p.Arg248Gln	p.R248Q	ENST00000269305	7/11	78	21	57	99	99	0	TP53,missense_variant,p.Arg248Gln,ENST00000413465,;TP53,missense_variant,p.Arg248Gln,ENST00000420246,;TP53,missense_variant,p.Arg248Gln,ENST00000269305,;TP53,missense_variant,p.Arg116Gln,ENST00000509690,;TP53,missense_variant,p.Arg248Gln,ENST00000359597,;TP53,missense_variant,p.Arg155Gln,ENST00000514944,;TP53,missense_variant,p.Arg248Gln,ENST00000445888,;TP53,missense_variant,p.Arg248Gln,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	933	743	248	R/Q	cGg/cAg	rs11540652,CM920675,TP53_g.13380G>A,TP53_g.13380G>C,TP53_g.13380G>T,TP53_g.13380del,COSM10662,COSM11491,COSM6549,COSM46135,COSM340105,COSM99602,COSM241995,COSM99020,COSM241994,COSM340106,COSM3356964,COSM3378346,COSM1640830,COSM1646857,COSM1646858,COSM99021,COSM241996,COSM340107	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,PROSITE_patterns:PS00348,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	25032700,20377871,18798306,15450681,25105660,21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R248Q|c.743G>A|113,SITE|p.R248Q|c.743G>A|633,SITE|p.R248Q|c.743G>A|64,SITE|p.R248Q|c.743G>A|42,SITE|p.R155Q|c.464G>A|114,SITE|p.R248Q|c.743G>A|110,CODON|p.0?|c.1_1182del1182|6,CODON|p.R248Q|c.743_744GG>AA|5,CODON|p.R248R|c.744G>A|5,CODON|p.R248W|c.741_742CC>TT|15,CODON|p.R248L|c.743G>T|7,CODON|p.R248L|c.743G>T|12,CODON|p.R155L|c.464G>T|12,CODON|p.R155P|c.464G>C|5,CODON|p.R248P|c.743G>C|17,CODON|p.R248L|c.743G>T|12,CODON|p.R248P|c.743G>C|5,CODON|p.R248L|c.743G>T|74,CODON|p.R248P|c.743G>C|5,BUFFER|p.L252_I254delLTI|c.754_762delCTCACCATC|4,BUFFER|p.L252_I254delLTI|c.751_759delATCCTCACC|4,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252delL|c.754_756delCTC|9,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252fs*93|c.754delC|5,BUFFER|p.L252F|c.754C>T|10,BUFFER|p.I251I|c.753C>A|3,BUFFER|p.I251N|c.752T>A|9,BUFFER|p.I251T|c.752T>C|6,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251S|c.752T>G|12,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251fs*94|c.751delA|6,BUFFER|p.I251L|c.751A>C|3,BUFFER|p.I251F|c.751A>T|8,BUFFER|p.P250P|c.750C>T|4,BUFFER|p.P250F|c.748_749CC>TT|3,BUFFER|p.I251fs*94|c.748delC|4,BUFFER|p.P250L|c.749C>T|49,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250L|c.749C>T|8,BUFFER|p.P250L|c.749C>T|6,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250S|c.748C>T|12,BUFFER|p.R249fs*96|c.746delG|4,BUFFER|p.R249S|c.747G>T|31,BUFFER|p.R249S|c.747G>C|22,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|15,BUFFER|p.R249R|c.747G>A|6,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|314,BUFFER|p.R249S|c.747G>T|30,BUFFER|p.R249T|c.746G>C|3,BUFFER|p.R249M|c.746G>T|8,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249K|c.746G>A|17,BUFFER|p.R249M|c.746G>T|4,BUFFER|p.R249T|c.746G>C|20,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249M|c.746G>T|35,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249W|c.745A>T|36,BUFFER|p.R249W|c.745A>T|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249W|c.745A>T|4,BUFFER|p.R249G|c.745A>G|4,BUFFER|p.R249W|c.745A>T|8,BUFFER|p.R249G|c.745A>G|30,BUFFER|p.R248W|c.742C>T|46,BUFFER|p.R248W|c.742C>T|92,BUFFER|p.R248W|c.742C>T|537,BUFFER|p.R155W|c.463C>T|92,BUFFER|p.R248G|c.742C>G|14,BUFFER|p.R248W|c.742C>T|31,BUFFER|p.R248W|c.742C>T|87,BUFFER|p.N247N|c.741C>T|10,BUFFER|p.N247I|c.740A>T|7,BUFFER|p.N154I|c.461A>T|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247T|c.740A>C|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247S|c.740A>G|7,BUFFER|p.N247D|c.739A>G|5,BUFFER|p.N247Y|c.739A>T|3,BUFFER|p.M153I|c.459G>C|3,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>A|21,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>C|4,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246R|c.737T>G|12,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246T|c.737T>C|8,BUFFER|p.M153R|c.458T>G|3,BUFFER|p.M246K|c.737T>A|7,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246L|c.736A>T|3,BUFFER|p.M153V|c.457A>G|7,BUFFER|p.M246V|c.736A>G|3,BUFFER|p.M246V|c.736A>G|35,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246V|c.736A>G|4,BUFFER|p.G245G|c.735C>T|5,BUFFER|p.G245D|c.734G>A|10,BUFFER|p.G245V|c.734G>T|3,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245A|c.734G>C|8,BUFFER|p.G152D|c.455G>A|23,BUFFER|p.G152V|c.455G>T|15,BUFFER|p.G245V|c.734G>T|10,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245D|c.734G>A|119,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245D|c.734G>A|7,BUFFER|p.G245V|c.734G>T|69,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245R|c.733G>C|14,BUFFER|p.G245S|c.733G>A|22,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152S|c.454G>A|56,BUFFER|p.G245C|c.733G>T|4,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245S|c.733G>A|340,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245C|c.733G>T|50,BUFFER|p.G245S|c.733G>A|39,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152C|c.454G>T|6,BUFFER|p.G152R|c.454G>C|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G151G|c.453C>T|3,BUFFER|p.G244G|c.732C>T|8,BUFFER|p.G244G|c.732C>A|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTCCGGTTC	byFrequency|byCluster	5	BLCA
NPTX1	0	.	GRCh37	17	78444649	78444649	+	Silent	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1263C>A	p.%3D	p.T421T	ENST00000306773	5/5	62	22	40	152	152	0	NPTX1,synonymous_variant,p.%3D,ENST00000306773,;NPTX1,downstream_gene_variant,,ENST00000575212,;NPTX1,non_coding_transcript_exon_variant,,ENST00000535681,;NPTX1,downstream_gene_variant,,ENST00000571100,;	T	ENSG00000171246	ENST00000306773	Transcript	synonymous_variant	1421	1263	421	T	acC/acA	COSM1303484	.	.	-1	NPTX1	HGNC	7952	protein_coding	YES	CCDS32762.1	ENSP00000307549	NPTX1_HUMAN	.	UPI000013EB88	.	.	.	5/5	.	hmmpanther:PTHR19277,hmmpanther:PTHR19277:SF24,Gene3D:2.60.120.200,SMART_domains:SM00159,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTGGTGGC	.	5	BLCA
PIK3C3	0	.	GRCh37	18	39584376	39584376	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1041G>T	p.Gln347His	p.Q347H	ENST00000262039	10/25	23	10	13	34	34	0	PIK3C3,missense_variant,p.Gln347His,ENST00000262039,;PIK3C3,missense_variant,p.Gln284His,ENST00000398870,;	T	ENSG00000078142	ENST00000262039	Transcript	missense_variant	1127	1041	347	Q/H	caG/caT	.	.	.	1	PIK3C3	HGNC	8974	protein_coding	YES	CCDS11920.1	ENSP00000262039	PK3C3_HUMAN	M0R2C5_HUMAN,M0R0W7_HUMAN,M0R0U1_HUMAN,M0R0G8_HUMAN,M0QZG0_HUMAN	UPI00000708CE	.	deleterious(0)	probably_damaging(0.968)	10/25	.	Superfamily_domains:SSF48371,PIRSF_domain:PIRSF000587,SMART_domains:SM00145,Gene3D:1.25.40.70,Pfam_domain:PF00613,hmmpanther:PTHR10048,PROSITE_profiles:PS51545	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACAGGCCTT	.	5	BLCA
ZNF431	0	.	GRCh37	19	21365524	21365524	+	Missense_Mutation	SNP	G	G	C	rs181764553	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418G>C	p.Glu140Gln	p.E140Q	ENST00000311048	5/5	49	35	13	49	49	0	ZNF431,missense_variant,p.Glu180Gln,ENST00000598331,;ZNF431,missense_variant,p.Glu140Gln,ENST00000311048,;ZNF431,3_prime_UTR_variant,,ENST00000600692,;ZNF431,intron_variant,,ENST00000594425,;ZNF431,downstream_gene_variant,,ENST00000599296,;ZNF431,upstream_gene_variant,,ENST00000594821,;ZNF431,upstream_gene_variant,,ENST00000593426,;	C	ENSG00000196705	ENST00000311048	Transcript	missense_variant	562	418	140	E/Q	Gag/Cag	rs181764553,COSM1304269	.	.	1	ZNF431	HGNC	20809	protein_coding	YES	CCDS32979.1	ENSP00000308578	ZN431_HUMAN	.	UPI0000191EAC	.	deleterious(0.05)	possibly_damaging(0.673)	5/5	.	hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF118	C:0.0002	C:0	C:0	.	C:0	C:0.001	C:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATGAGAAT	byCluster|by1000G	5	BLCA
GNA15	0	.	GRCh37	19	3151744	3151744	+	Silent	SNP	C	C	T	rs372177672	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525C>T	p.%3D	p.Y175Y	ENST00000262958	4/7	133	87	46	295	295	0	GNA15,synonymous_variant,p.%3D,ENST00000262958,;AC005264.2,intron_variant,,ENST00000587587,;GNA15,3_prime_UTR_variant,,ENST00000592455,;GNA15,non_coding_transcript_exon_variant,,ENST00000586082,;	T	ENSG00000060558	ENST00000262958	Transcript	synonymous_variant	783	525	175	Y	taC/taT	rs372177672,COSM1304382	.	.	1	GNA15	HGNC	4383	protein_coding	YES	CCDS12104.1	ENSP00000262958	GNA15_HUMAN	.	UPI000013D36D	.	.	.	4/7	.	hmmpanther:PTHR10218,hmmpanther:PTHR10218:SF50,Pfam_domain:PF00503,Gene3D:1.10.400.10,SMART_domains:SM00275,Superfamily_domains:SSF47895,Prints_domain:PR00318	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTACGTCCC	byFrequency|byCluster	5	BLCA
ZNF607	0	.	GRCh37	19	38189554	38189554	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1478C>G	p.Thr493Ser	p.T493S	ENST00000355202	5/5	143	112	30	123	123	0	ZNF607,missense_variant,p.Thr492Ser,ENST00000395835,;ZNF607,missense_variant,p.Thr493Ser,ENST00000355202,;ZNF607,downstream_gene_variant,,ENST00000591664,;ZNF607,downstream_gene_variant,,ENST00000590670,;CTD-2528L19.4,intron_variant,,ENST00000586606,;CTD-2528L19.4,intron_variant,,ENST00000585547,;CTD-2528L19.4,intron_variant,,ENST00000591114,;ZNF607,downstream_gene_variant,,ENST00000586559,;	C	ENSG00000198182	ENST00000355202	Transcript	missense_variant	2074	1478	493	T/S	aCt/aGt	COSM1304494	.	.	-1	ZNF607	HGNC	28192	protein_coding	YES	CCDS33006.1	ENSP00000347338	ZN607_HUMAN	Q59G67_HUMAN,K7EN48_HUMAN	UPI000040BC07	.	tolerated(0.15)	benign(0.118)	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF249,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATAGTGAGT	.	5	BLCA
ZNF780A	0	.	GRCh37	19	40580998	40580998	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1354G>A	p.Glu452Lys	p.E452K	ENST00000455521	6/6	227	181	46	186	186	0	ZNF780A,missense_variant,p.Glu452Lys,ENST00000594395,;ZNF780A,missense_variant,p.Glu451Lys,ENST00000340963,;ZNF780A,missense_variant,p.Glu417Lys,ENST00000450241,;ZNF780A,missense_variant,p.Glu451Lys,ENST00000595687,;ZNF780A,missense_variant,p.Glu452Lys,ENST00000455521,;ZNF780A,intron_variant,,ENST00000414720,;ZNF780A,downstream_gene_variant,,ENST00000595773,;ZNF780A,downstream_gene_variant,,ENST00000599972,;AC005614.5,intron_variant,,ENST00000595508,;ZNF780A,downstream_gene_variant,,ENST00000601688,;ZNF780A,downstream_gene_variant,,ENST00000601715,;ZNF780A,downstream_gene_variant,,ENST00000599368,;	T	ENSG00000197782	ENST00000455521	Transcript	missense_variant	1502	1354	452	E/K	Gag/Aag	COSM1304584,COSM1304583	.	.	-1	ZNF780A	HGNC	27603	protein_coding	YES	CCDS46079.1	ENSP00000400997	Z780A_HUMAN	.	UPI0001881B53	.	deleterious(0.04)	benign(0.003)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF124,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCTCACATT	.	4	BLCA
C19orf48	0	.	GRCh37	19	51301486	51301486	+	Missense_Mutation	SNP	C	C	T	rs766925319	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.220G>A	p.Asp74Asn	p.D74N	ENST00000598463	5/5	163	140	23	166	166	0	C19orf48,missense_variant,p.Asp74Asn,ENST00000345523,;C19orf48,missense_variant,p.Asp74Asn,ENST00000391812,;C19orf48,missense_variant,p.Asp74Asn,ENST00000596287,;C19orf48,missense_variant,p.Asp74Asn,ENST00000597705,;C19orf48,missense_variant,p.Asp74Asn,ENST00000596655,;C19orf48,missense_variant,p.Asp74Asn,ENST00000598463,;C19orf48,downstream_gene_variant,,ENST00000601267,;ACPT,downstream_gene_variant,,ENST00000270594,;C19orf48,downstream_gene_variant,,ENST00000600373,;C19orf48,downstream_gene_variant,,ENST00000597493,;C19orf48,downstream_gene_variant,,ENST00000593287,;ACPT,downstream_gene_variant,,ENST00000270593,;SNORD88A,downstream_gene_variant,,ENST00000408314,;SNORD88C,downstream_gene_variant,,ENST00000408061,;SNORD88B,downstream_gene_variant,,ENST00000408454,;CTD-2568A17.8,upstream_gene_variant,,ENST00000594114,;C19orf48,downstream_gene_variant,,ENST00000596554,;C19orf48,downstream_gene_variant,,ENST00000595794,;C19orf48,downstream_gene_variant,,ENST00000599004,;C19orf48,downstream_gene_variant,,ENST00000602125,;	T	ENSG00000167747	ENST00000598463	Transcript	missense_variant	1319	220	74	D/N	Gac/Aac	rs766925319,COSM1304963	.	.	-1	C19orf48	HGNC	29667	protein_coding	YES	CCDS12803.1	ENSP00000471463	CS048_HUMAN	M0R3D1_HUMAN,M0R1Y9_HUMAN,M0R1J5_HUMAN,M0QZC8_HUMAN,M0QXL0_HUMAN	UPI000006ECB0	.	deleterious_low_confidence(0)	unknown(0)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGTCACAAT	.	4	BLCA
KLK12	0	.	GRCh37	19	51537941	51537941	+	Intron	SNP	C	C	G	rs188747681	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-19-45G>C	.	.	ENST00000250351	.	13	4	9	8	8	0	KLK12,5_prime_UTR_variant,,ENST00000525263,;KLK12,intron_variant,,ENST00000250352,;KLK12,intron_variant,,ENST00000529888,;KLK12,intron_variant,,ENST00000250351,;KLK12,intron_variant,,ENST00000319590,;CTC-518B2.9,downstream_gene_variant,,ENST00000594910,;KLK12,intron_variant,,ENST00000530943,;KLK12,intron_variant,,ENST00000531374,;KLK12,intron_variant,,ENST00000526824,;	G	ENSG00000186474	ENST00000250351	Transcript	intron_variant	.	.	.	.	.	rs188747681	.	.	-1	KLK12	HGNC	6360	protein_coding	YES	CCDS12820.1	ENSP00000250351	KLK12_HUMAN	.	UPI000002ACDD	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCCCCCCAC	by1000G	2	BLCA
ZNF528	0	.	GRCh37	19	52909178	52909178	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>A	p.Asp12Asn	p.D12N	ENST00000360465	5/7	309	267	42	233	233	0	ZNF528,missense_variant,p.Asp12Asn,ENST00000594530,;ZNF528,missense_variant,p.Asp2Asn,ENST00000391788,;ZNF528,missense_variant,p.Asp2Asn,ENST00000494167,;ZNF528,missense_variant,p.Asp12Asn,ENST00000598192,;ZNF528,missense_variant,p.Asp12Asn,ENST00000436397,;ZNF528,missense_variant,p.Asp12Asn,ENST00000360465,;ZNF528,missense_variant,p.Asp12Asn,ENST00000391787,;ZNF528,missense_variant,p.Asp2Asn,ENST00000493272,;ZNF528,upstream_gene_variant,,ENST00000448954,;ZNF528,downstream_gene_variant,,ENST00000531472,;	A	ENSG00000167555	ENST00000360465	Transcript	missense_variant	460	34	12	D/N	Gat/Aat	COSM1305017,COSM3371460	.	.	1	ZNF528	HGNC	29384	protein_coding	YES	CCDS33091.1	ENSP00000353652	ZN528_HUMAN	C9K0H2_HUMAN	UPI00001B6535	.	deleterious(0)	probably_damaging(1)	5/7	.	Superfamily_domains:0044637,SMART_domains:SM00349,Pfam_domain:PF01352,hmmpanther:PTHR24377:SF143,hmmpanther:PTHR24377,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCATGGATGTG	.	4	BLCA
ZNF534	0	.	GRCh37	19	52942185	52942185	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1511A>G	p.Glu504Gly	p.E504G	ENST00000332323	4/4	33	28	5	13	13	0	ZNF534,missense_variant,p.Glu504Gly,ENST00000332323,;ZNF534,missense_variant,p.Glu491Gly,ENST00000433050,;ZNF534,intron_variant,,ENST00000301085,;ZNF534,intron_variant,,ENST00000432303,;	G	ENSG00000198633	ENST00000332323	Transcript	missense_variant	1572	1511	504	E/G	gAg/gGg	COSM1305021	.	.	1	ZNF534	HGNC	26337	protein_coding	YES	CCDS46165.1	ENSP00000327538	ZN534_HUMAN	.	UPI0000351984	.	deleterious(0.03)	probably_damaging(0.965)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF187,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAGAGAAGC	.	5	BLCA
NLRP9	0	.	GRCh37	19	56243996	56243996	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1201G>C	p.Glu401Gln	p.E401Q	ENST00000332836	2/9	174	151	22	114	114	0	NLRP9,missense_variant,p.Glu401Gln,ENST00000332836,;NLRP9,missense_variant,p.Glu401Gln,ENST00000590200,;RN7SKP109,upstream_gene_variant,,ENST00000410592,;	G	ENSG00000185792	ENST00000332836	Transcript	missense_variant	1229	1201	401	E/Q	Gag/Cag	COSM1751174,COSM1305145,COSM3933200	.	.	-1	NLRP9	HGNC	22941	protein_coding	YES	CCDS12934.1	ENSP00000331857	NALP9_HUMAN	.	UPI00001B6B39	.	deleterious(0.01)	possibly_damaging(0.886)	2/9	.	hmmpanther:PTHR24106:SF72,hmmpanther:PTHR24106	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTCTGCAG	.	4	BLCA
ZNF71	0	.	GRCh37	19	57133733	57133733	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1078G>A	p.Gly360Ser	p.G360S	ENST00000328070	3/3	133	111	22	150	150	0	ZNF71,missense_variant,p.Gly360Ser,ENST00000328070,;ZNF71,downstream_gene_variant,,ENST00000599599,;	A	ENSG00000197951	ENST00000328070	Transcript	missense_variant	1312	1078	360	G/S	Ggc/Agc	COSM1305171	.	.	1	ZNF71	HGNC	13141	protein_coding	YES	CCDS12947.1	ENSP00000328245	ZNF71_HUMAN	M0R0C0_HUMAN	UPI00000437FA	.	deleterious(0.03)	probably_damaging(0.998)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF115,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGCGGCAAG	.	5	BLCA
BSG	0	.	GRCh37	19	571550	571550	+	5'Flank	SNP	G	G	A	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000333511	.	77	58	19	89	89	0	BSG,start_lost,p.Met1?,ENST00000346916,;BSG,5_prime_UTR_variant,,ENST00000545507,;BSG,upstream_gene_variant,,ENST00000353555,;BSG,upstream_gene_variant,,ENST00000573784,;BSG,upstream_gene_variant,,ENST00000576984,;BSG,upstream_gene_variant,,ENST00000573216,;BSG,upstream_gene_variant,,ENST00000333511,;AC009005.2,non_coding_transcript_exon_variant,,ENST00000590292,;AC009005.2,non_coding_transcript_exon_variant,,ENST00000588290,;AC009005.2,non_coding_transcript_exon_variant,,ENST00000589457,;AC009005.2,non_coding_transcript_exon_variant,,ENST00000588908,;BSG,upstream_gene_variant,,ENST00000574970,;BSG,upstream_gene_variant,,ENST00000572899,;BSG,upstream_gene_variant,,ENST00000590218,;BSG,upstream_gene_variant,,ENST00000576925,;	A	ENSG00000172270	ENST00000333511	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1015	1	BSG	HGNC	1116	protein_coding	YES	CCDS12033.1	ENSP00000333769	BASI_HUMAN	R4GN83_HUMAN,R4GMX5_HUMAN	UPI0000051E38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATGAAGCA	.	5	BLCA
PRAM1	0	.	GRCh37	19	8563950	8563950	+	Missense_Mutation	SNP	C	C	T	rs768282181	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742G>A	p.Glu248Lys	p.E248K	ENST00000423345	2/10	34	21	13	60	60	0	PRAM1,missense_variant,p.Glu248Lys,ENST00000255612,;PRAM1,missense_variant,p.Glu248Lys,ENST00000423345,;PRAM1,downstream_gene_variant,,ENST00000600262,;	T	ENSG00000133246	ENST00000423345	Transcript	missense_variant	1263	742	248	E/K	Gag/Aag	rs768282181,COSM1305327	.	.	-1	PRAM1	HGNC	30091	protein_coding	YES	CCDS45954.2	ENSP00000408342	PRAM_HUMAN	.	UPI00001AE786	.	tolerated(0.06)	probably_damaging(0.977)	2/10	.	hmmpanther:PTHR16830:SF6,hmmpanther:PTHR16830,Prints_domain:PR01217	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCGCTGA	byFrequency	5	BLCA
DPH5	0	.	GRCh37	1	101490988	101490988	+	Silent	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12C>T	p.%3D	p.L4L	ENST00000370109	2/8	65	49	16	60	60	0	DPH5,synonymous_variant,p.%3D,ENST00000488176,;DPH5,synonymous_variant,p.%3D,ENST00000342173,;DPH5,synonymous_variant,p.%3D,ENST00000370109,;RP11-421L21.3,upstream_gene_variant,,ENST00000453011,;RP11-421L21.3,upstream_gene_variant,,ENST00000446527,;DPH5,non_coding_transcript_exon_variant,,ENST00000488789,;DPH5,non_coding_transcript_exon_variant,,ENST00000481982,;DPH5,non_coding_transcript_exon_variant,,ENST00000476507,;DPH5,non_coding_transcript_exon_variant,,ENST00000498372,;DPH5,non_coding_transcript_exon_variant,,ENST00000370105,;DPH5,non_coding_transcript_exon_variant,,ENST00000477293,;DPH5,non_coding_transcript_exon_variant,,ENST00000464270,;DPH5,intron_variant,,ENST00000490732,;DPH5,intron_variant,,ENST00000466807,;DPH5,upstream_gene_variant,,ENST00000481871,;DPH5,upstream_gene_variant,,ENST00000492067,;	A	ENSG00000117543	ENST00000370109	Transcript	synonymous_variant	125	12	4	L	ctC/ctT	COSM1294613	.	.	-1	DPH5	HGNC	24270	protein_coding	YES	CCDS41358.1	ENSP00000359127	DPH5_HUMAN	Q96DC6_HUMAN,B3KWP1_HUMAN	UPI000003B000	.	.	.	2/8	.	HAMAP:MF_01084,hmmpanther:PTHR10882,hmmpanther:PTHR10882:SF0,Pfam_domain:PF00590,Gene3D:3.40.1010.10,TIGRFAM_domain:TIGR00522,PIRSF_domain:PIRSF036432,Superfamily_domains:SSF53790	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGATGAGATA	.	5	BLCA
POLR3C	0	.	GRCh37	1	145601614	145601614	+	Silent	SNP	G	G	A	rs782078317	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.792C>T	p.%3D	p.S264S	ENST00000334163	7/15	43	36	6	50	50	0	POLR3C,synonymous_variant,p.%3D,ENST00000369294,;POLR3C,synonymous_variant,p.%3D,ENST00000334163,;POLR3C,non_coding_transcript_exon_variant,,ENST00000471254,;POLR3C,downstream_gene_variant,,ENST00000466003,;POLR3C,upstream_gene_variant,,ENST00000489436,;	A	ENSG00000186141	ENST00000334163	Transcript	synonymous_variant	953	792	264	S	agC/agT	rs782078317,COSM895236	.	.	-1	POLR3C	HGNC	30076	protein_coding	YES	CCDS921.1	ENSP00000334564	RPC3_HUMAN	.	UPI0000071E0F	.	.	.	7/15	.	hmmpanther:PTHR12949,Pfam_domain:PF05645	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTCGCTGCT	byFrequency|byCluster	4	BLCA
RPRD2	0	.	GRCh37	1	150444932	150444932	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3508C>T	p.Arg1170Trp	p.R1170W	ENST00000369068	11/11	82	65	16	88	88	0	RPRD2,missense_variant,p.Arg1170Trp,ENST00000369068,;RPRD2,missense_variant,p.Arg1144Trp,ENST00000401000,;RPRD2,downstream_gene_variant,,ENST00000539519,;RPRD2,non_coding_transcript_exon_variant,,ENST00000492220,;	T	ENSG00000163125	ENST00000369068	Transcript	missense_variant	3512	3508	1170	R/W	Cgg/Tgg	COSM1294982,COSM1294981	.	.	1	RPRD2	HGNC	29039	protein_coding	YES	CCDS44216.1	ENSP00000358064	RPRD2_HUMAN	.	UPI00001D7CA8	.	deleterious_low_confidence(0)	probably_damaging(0.947)	11/11	.	hmmpanther:PTHR12460,hmmpanther:PTHR12460:SF0	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAACGGGCA	.	5	BLCA
SPTA1	0	.	GRCh37	1	158650498	158650498	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553G>C	p.Glu185Gln	p.E185Q	ENST00000368147	5/52	102	64	37	107	107	0	SPTA1,missense_variant,p.Glu185Gln,ENST00000368147,;SPTA1,intron_variant,,ENST00000467387,;	G	ENSG00000163554	ENST00000368147	Transcript	missense_variant	734	553	185	E/Q	Gag/Cag	COSM1295295	.	.	-1	SPTA1	HGNC	11272	protein_coding	YES	CCDS41423.1	ENSP00000357129	SPTA1_HUMAN	O60686_HUMAN	UPI0000458906	.	deleterious(0)	probably_damaging(0.954)	5/52	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF240,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E185Q|c.553G>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCTCCACTG	.	5	BLCA
DCAF6	0	.	GRCh37	1	167992243	167992243	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1567G>C	p.Val523Leu	p.V523L	ENST00000367840	12/22	41	34	7	77	77	0	DCAF6,missense_variant,p.Val492Leu,ENST00000432587,;DCAF6,missense_variant,p.Val523Leu,ENST00000367840,;DCAF6,missense_variant,p.Val466Leu,ENST00000367843,;DCAF6,intron_variant,,ENST00000312263,;DCAF6,downstream_gene_variant,,ENST00000460432,;DCAF6,3_prime_UTR_variant,,ENST00000470721,;	C	ENSG00000143164	ENST00000367840	Transcript	missense_variant	1661	1567	523	V/L	Gtt/Ctt	.	.	.	1	DCAF6	HGNC	30002	protein_coding	YES	CCDS55657.1	ENSP00000356814	DCAF6_HUMAN	.	UPI00000743AB	.	deleterious_low_confidence(0.05)	probably_damaging(0.994)	12/22	.	hmmpanther:PTHR15574,hmmpanther:PTHR15574:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGGTTAAC	.	5	BLCA
KIFAP3	0	.	GRCh37	1	169923248	169923248	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2177G>A	p.Gly726Glu	p.G726E	ENST00000361580	19/20	129	98	30	113	113	0	KIFAP3,missense_variant,p.Gly726Glu,ENST00000361580,;KIFAP3,missense_variant,p.Gly648Glu,ENST00000538366,;KIFAP3,missense_variant,p.Gly686Glu,ENST00000367765,;KIFAP3,missense_variant,p.Gly428Glu,ENST00000540905,;KIFAP3,missense_variant,p.Gly682Glu,ENST00000367767,;RN7SL269P,downstream_gene_variant,,ENST00000467795,;	T	ENSG00000075945	ENST00000361580	Transcript	missense_variant	2405	2177	726	G/E	gGa/gAa	COSM1295458	.	.	-1	KIFAP3	HGNC	17060	protein_coding	YES	CCDS1288.1	ENSP00000354560	KIFA3_HUMAN	B7Z7E7_HUMAN	UPI000006CD6C	.	tolerated(0.08)	possibly_damaging(0.743)	19/20	.	hmmpanther:PTHR15605	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATCCATCT	.	5	BLCA
CFHR4	0	.	GRCh37	1	196887480	196887480	+	Missense_Mutation	SNP	C	C	G	rs80010185	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1678C>G	p.Leu560Val	p.L560V	ENST00000367416	10/10	311	273	38	262	262	0	CFHR4,missense_variant,p.Leu560Val,ENST00000367416,;CFHR4,missense_variant,p.Leu314Val,ENST00000367418,;CFHR4,missense_variant,p.Leu314Val,ENST00000251424,;CFHR4,missense_variant,p.Leu184Val,ENST00000608469,;CFHR2,intron_variant,,ENST00000367421,;	G	ENSG00000134365	ENST00000367416	Transcript	missense_variant	1815	1678	560	L/V	Cta/Gta	rs80010185,COSM1295644,COSM1295643	.	.	1	CFHR4	HGNC	16979	protein_coding	YES	CCDS55671.1	ENSP00000356386	FHR4_HUMAN	.	UPI0001F6C576	.	tolerated(0.21)	possibly_damaging(0.535)	10/10	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF328,Superfamily_domains:SSF57535	A:0.0010	A:0.0038	A:0	.	A:0	A:0	A:0	A:0.0077	A:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGTTCTATCA	byFrequency|byCluster|by1000G	4	BLCA
CFHR2	0	.	GRCh37	1	196918666	196918666	+	Missense_Mutation	SNP	C	C	T	rs777460690	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140C>T	p.Thr47Ile	p.T47I	ENST00000367415	2/5	84	74	10	44	44	0	CFHR2,missense_variant,p.Thr47Ile,ENST00000367421,;CFHR2,missense_variant,p.Thr47Ile,ENST00000367415,;CFHR2,missense_variant,p.Thr47Ile,ENST00000476712,;CFHR2,non_coding_transcript_exon_variant,,ENST00000489703,;CFHR2,intron_variant,,ENST00000473386,;CFHR2,intron_variant,,ENST00000485647,;CFHR2,intron_variant,,ENST00000496448,;	T	ENSG00000080910	ENST00000367415	Transcript	missense_variant	240	140	47	T/I	aCa/aTa	rs777460690,COSM1295645	.	.	1	CFHR2	HGNC	4890	protein_coding	YES	CCDS30959.1	ENSP00000356385	FHR2_HUMAN	.	UPI000012A73B	.	tolerated(1)	benign(0.027)	2/5	.	hmmpanther:PTHR19325:SF325,hmmpanther:PTHR19325,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTACAGGGG	.	4	BLCA
MYBPH	0	.	GRCh37	1	203139428	203139434	+	Frame_Shift_Del	DEL	GGATGTG	GGATGTG	-	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	GGATGTG	GGATGTG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1078_1084delCACATCC	p.His360ArgfsTer55	p.H360Rfs*55	ENST00000255416	7/11	55	47	8	94	94	0	MYBPH,frameshift_variant,p.His360ArgfsTer55,ENST00000255416,;ADORA1,downstream_gene_variant,,ENST00000367236,;ADORA1,downstream_gene_variant,,ENST00000309502,;ADORA1,downstream_gene_variant,,ENST00000337894,;ADORA1,downstream_gene_variant,,ENST00000367235,;ADORA1,downstream_gene_variant,,ENST00000467253,;ADORA1,downstream_gene_variant,,ENST00000472535,;ADORA1,downstream_gene_variant,,ENST00000464019,;	-	ENSG00000133055	ENST00000255416	Transcript	frameshift_variant	1136-1142	1078-1084	360-362	HIQ/X	CACATCCag/ag	.	.	.	-1	MYBPH	HGNC	7552	protein_coding	YES	CCDS30975.1	ENSP00000255416	MYBPH_HUMAN	.	UPI000000DA7B	.	.	.	7/11	.	hmmpanther:PTHR19900:SF55,hmmpanther:PTHR19900,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CCTTCTGGATGTGGGCGA	.	2	BLCA
TMEM206	0	.	GRCh37	1	212553312	212553312	+	Missense_Mutation	SNP	C	C	T	rs141387916	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.746G>A	p.Arg249His	p.R249H	ENST00000535273	6/9	123	100	23	149	149	0	TMEM206,missense_variant,p.Arg188His,ENST00000261455,;TMEM206,missense_variant,p.Arg249His,ENST00000535273,;TMEM206,non_coding_transcript_exon_variant,,ENST00000467822,;TMEM206,upstream_gene_variant,,ENST00000478166,;	T	ENSG00000065600	ENST00000535273	Transcript	missense_variant	890	746	249	R/H	cGc/cAc	rs141387916,COSM1295845	.	.	-1	TMEM206	HGNC	25593	protein_coding	YES	CCDS55687.1	ENSP00000438863	TM206_HUMAN	B4DHQ5_HUMAN	UPI0001914DBE	.	tolerated(0.2)	benign(0.04)	6/9	.	hmmpanther:PTHR16087:SF0,hmmpanther:PTHR16087,Pfam_domain:PF15122	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGGCGGAAC	byCluster	5	BLCA
ZBTB40	0	.	GRCh37	1	22838486	22838486	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2320A>T	p.Thr774Ser	p.T774S	ENST00000404138	12/19	48	24	24	75	75	0	ZBTB40,missense_variant,p.Thr774Ser,ENST00000404138,;ZBTB40,missense_variant,p.Thr774Ser,ENST00000375647,;ZBTB40,missense_variant,p.Thr662Ser,ENST00000374651,;	T	ENSG00000184677	ENST00000404138	Transcript	missense_variant	2831	2320	774	T/S	Acc/Tcc	COSM1295955	.	.	1	ZBTB40	HGNC	29045	protein_coding	YES	CCDS224.1	ENSP00000384527	ZBT40_HUMAN	B1AKC8_HUMAN	UPI0000204652	.	deleterious(0.02)	benign(0.003)	12/19	.	hmmpanther:PTHR24394:SF0,hmmpanther:PTHR24394,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAGACCAAG	.	5	BLCA
GNG4	0	.	GRCh37	1	235715501	235715501	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136G>A	p.Glu46Lys	p.E46K	ENST00000391854	4/4	173	78	95	216	216	0	GNG4,missense_variant,p.Glu46Lys,ENST00000366598,;GNG4,missense_variant,p.Glu46Lys,ENST00000366597,;GNG4,missense_variant,p.Glu46Lys,ENST00000391854,;GNG4,missense_variant,p.Glu46Lys,ENST00000450593,;GNG4,non_coding_transcript_exon_variant,,ENST00000484517,;	T	ENSG00000168243	ENST00000391854	Transcript	missense_variant	590	136	46	E/K	Gaa/Aaa	COSM1296019	.	.	-1	GNG4	HGNC	4407	protein_coding	YES	CCDS1607.1	ENSP00000375727	GBG4_HUMAN	B1APZ0_HUMAN	UPI000012B22C	.	tolerated(0.61)	benign(0.053)	4/4	.	PROSITE_profiles:PS50058,hmmpanther:PTHR13809,hmmpanther:PTHR13809:SF21,Gene3D:4.10.260.10,Pfam_domain:PF00631,SMART_domains:SM00224,Superfamily_domains:SSF48670,Prints_domain:PR00321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCACAGT	.	5	BLCA
CHML	0	.	GRCh37	1	241798859	241798859	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210A>C	p.Glu70Asp	p.E70D	ENST00000366553	1/1	287	219	67	237	237	0	CHML,missense_variant,p.Glu70Asp,ENST00000366553,;OPN3,intron_variant,,ENST00000331838,;OPN3,intron_variant,,ENST00000366554,;OPN3,intron_variant,,ENST00000469376,;OPN3,intron_variant,,ENST00000490673,;OPN3,intron_variant,,ENST00000478849,;OPN3,intron_variant,,ENST00000463155,;	G	ENSG00000203668	ENST00000366553	Transcript	missense_variant	374	210	70	E/D	gaA/gaC	COSM1296083	.	.	-1	CHML	HGNC	1941	protein_coding	YES	CCDS31073.1	ENSP00000355511	RAE2_HUMAN	.	UPI0000073C74	.	tolerated(0.27)	benign(0.02)	1/1	.	hmmpanther:PTHR11787,hmmpanther:PTHR11787:SF6,PIRSF_domain:PIRSF016550,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTCTTCCCC	.	5	BLCA
TRIM58	0	.	GRCh37	1	248023982	248023982	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484G>A	p.Ala162Thr	p.A162T	ENST00000366481	2/6	66	56	10	79	79	0	TRIM58,missense_variant,p.Ala162Thr,ENST00000366481,;	A	ENSG00000162722	ENST00000366481	Transcript	missense_variant	532	484	162	A/T	Gcc/Acc	COSM1296157	.	.	1	TRIM58	HGNC	24150	protein_coding	YES	CCDS1636.1	ENSP00000355437	TRI58_HUMAN	.	UPI000020590E	.	tolerated(0.25)	benign(0.005)	2/6	.	hmmpanther:PTHR24103:SF235,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N163N|c.489C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGGCCAAC	.	5	BLCA
OR2T34	0	.	GRCh37	1	248737333	248737333	+	Silent	SNP	G	G	C	rs751818126	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726C>G	p.%3D	p.A242A	ENST00000328782	1/1	195	166	28	235	235	0	OR2T34,synonymous_variant,p.%3D,ENST00000328782,;	C	ENSG00000183310	ENST00000328782	Transcript	synonymous_variant	748	726	242	A	gcC/gcG	rs751818126,COSM3487255,COSM1296183	.	.	-1	OR2T34	HGNC	31256	protein_coding	YES	CCDS31120.1	ENSP00000330904	O2T34_HUMAN	.	UPI0000061ED4	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF4,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCAAGGCCTT	.	4	BLCA
OSCP1	0	.	GRCh37	1	36886081	36886081	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.955G>C	p.Glu319Gln	p.E319Q	ENST00000235532	8/10	282	225	57	317	317	0	OSCP1,missense_variant,p.Gly329Arg,ENST00000315643,;OSCP1,missense_variant,p.Glu329Gln,ENST00000356637,;OSCP1,missense_variant,p.Glu57Gln,ENST00000468441,;OSCP1,missense_variant,p.Glu319Gln,ENST00000235532,;OSCP1,missense_variant,p.Glu274Gln,ENST00000433045,;OSCP1,intron_variant,,ENST00000445843,;SNORA63,upstream_gene_variant,,ENST00000364578,;OSCP1,non_coding_transcript_exon_variant,,ENST00000475160,;OSCP1,intron_variant,,ENST00000495222,;OSCP1,upstream_gene_variant,,ENST00000471369,;OSCP1,downstream_gene_variant,,ENST00000528112,;OSCP1,downstream_gene_variant,,ENST00000525869,;	G	ENSG00000116885	ENST00000235532	Transcript	missense_variant	1037	955	319	E/Q	Gag/Cag	COSM1296365	.	.	-1	OSCP1	HGNC	29971	protein_coding	YES	CCDS409.2	ENSP00000235532	OSCP1_HUMAN	C9JF58_HUMAN	UPI000059CFA3	.	deleterious(0.02)	probably_damaging(0.994)	8/10	.	hmmpanther:PTHR21439	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTTCTT	.	5	BLCA
ST6GALNAC3	0	.	GRCh37	1	76877711	76877711	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.232G>A	p.Asp78Asn	p.D78N	ENST00000328299	3/5	114	59	55	82	82	0	ST6GALNAC3,missense_variant,p.Asp78Asn,ENST00000328299,;ST6GALNAC3,non_coding_transcript_exon_variant,,ENST00000464140,;	A	ENSG00000184005	ENST00000328299	Transcript	missense_variant	380	232	78	D/N	Gac/Aac	COSM1296700	.	.	1	ST6GALNAC3	HGNC	19343	protein_coding	YES	CCDS672.1	ENSP00000329214	SIA7C_HUMAN	.	UPI000006F75A	.	.	benign(0.015)	3/5	.	hmmpanther:PTHR13713,hmmpanther:PTHR13713:SF49,Pfam_domain:PF00777	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTGACCTT	.	5	BLCA
PCSK2	0	.	GRCh37	20	17339006	17339006	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317G>A	p.Arg106Gln	p.R106Q	ENST00000262545	3/12	88	62	26	74	74	0	PCSK2,missense_variant,p.Arg106Gln,ENST00000262545,;PCSK2,missense_variant,p.Arg87Gln,ENST00000377899,;PCSK2,missense_variant,p.Arg71Gln,ENST00000536609,;PCSK2,non_coding_transcript_exon_variant,,ENST00000470007,;	A	ENSG00000125851	ENST00000262545	Transcript	missense_variant	632	317	106	R/Q	cGa/cAa	COSM1307172	.	.	1	PCSK2	HGNC	8744	protein_coding	YES	CCDS13125.1	ENSP00000262545	NEC2_HUMAN	Q9UM69_HUMAN	UPI0000000C6E	.	deleterious(0.01)	probably_damaging(0.996)	3/12	.	hmmpanther:PTHR10795,hmmpanther:PTHR10795:SF11,Gene3D:1kn6A00	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACCGAAAAA	.	5	BLCA
ADAMTS5	0	.	GRCh37	21	28302365	28302365	+	Missense_Mutation	SNP	C	C	T	rs757921094	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2065G>A	p.Glu689Lys	p.E689K	ENST00000284987	7/8	150	108	41	344	344	0	ADAMTS5,missense_variant,p.Glu689Lys,ENST00000284987,;AP001601.2,intron_variant,,ENST00000426771,;	T	ENSG00000154736	ENST00000284987	Transcript	missense_variant	2187	2065	689	E/K	Gaa/Aaa	rs757921094,COSM1307694	.	.	-1	ADAMTS5	HGNC	221	protein_coding	YES	CCDS13579.1	ENSP00000284987	ATS5_HUMAN	.	UPI00001AEAC2	.	tolerated(0.55)	benign(0.092)	7/8	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF37	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCAGTGC	.	5	BLCA
COMT	0	.	GRCh37	22	19951164	19951164	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.365C>T	p.Ser122Leu	p.S122L	ENST00000361682	4/6	78	42	35	97	97	0	COMT,missense_variant,p.Ser122Leu,ENST00000403184,;COMT,missense_variant,p.Ser72Leu,ENST00000407537,;COMT,missense_variant,p.Ser122Leu,ENST00000361682,;COMT,missense_variant,p.Ser72Leu,ENST00000449653,;COMT,missense_variant,p.Ser122Leu,ENST00000412786,;COMT,missense_variant,p.Ser122Leu,ENST00000406520,;COMT,missense_variant,p.Ser122Leu,ENST00000403710,;COMT,upstream_gene_variant,,ENST00000428707,;MIR4761,upstream_gene_variant,,ENST00000585066,;COMT,non_coding_transcript_exon_variant,,ENST00000493893,;COMT,missense_variant,p.Ser122Leu,ENST00000207636,;COMT,downstream_gene_variant,,ENST00000467943,;	T	ENSG00000093010	ENST00000361682	Transcript	missense_variant	747	365	122	S/L	tCa/tTa	COSM1307958	.	.	1	COMT	HGNC	2228	protein_coding	YES	CCDS13770.1	ENSP00000354511	COMT_HUMAN	Q7KZP0_HUMAN,F2WW53_HUMAN,E7EMS6_HUMAN	UPI0000000CBF	.	deleterious(0)	probably_damaging(0.99)	4/6	.	PROSITE_profiles:PS51682,hmmpanther:PTHR10509,hmmpanther:PTHR10509:SF2,Pfam_domain:PF01596,Gene3D:3.40.50.150,PIRSF_domain:PIRSF037177,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACTCAGCTG	.	5	BLCA
MTMR3	0	.	GRCh37	22	30415660	30415660	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2012G>A	p.Arg671Lys	p.R671K	ENST00000401950	17/20	99	42	57	207	207	0	MTMR3,missense_variant,p.Arg671Lys,ENST00000406629,;MTMR3,missense_variant,p.Arg671Lys,ENST00000333027,;MTMR3,missense_variant,p.Arg671Lys,ENST00000351488,;MTMR3,missense_variant,p.Arg671Lys,ENST00000401950,;MTMR3,missense_variant,p.Arg535Lys,ENST00000323630,;CTA-85E5.10,intron_variant,,ENST00000453743,;CTA-85E5.10,intron_variant,,ENST00000429350,;MTMR3,upstream_gene_variant,,ENST00000491251,;MTMR3,downstream_gene_variant,,ENST00000492087,;	A	ENSG00000100330	ENST00000401950	Transcript	missense_variant	2354	2012	671	R/K	aGa/aAa	COSM1308055,COSM1535299	.	.	1	MTMR3	HGNC	7451	protein_coding	YES	CCDS13870.1	ENSP00000384651	MTMR3_HUMAN	Q9UPM2_HUMAN,G5E953_HUMAN,C9JLU3_HUMAN	UPI0000073EF2	.	tolerated(0.55)	benign(0.001)	17/20	.	hmmpanther:PTHR10807:SF66,hmmpanther:PTHR10807	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCAGAGTGC	.	5	BLCA
ELFN2	0	.	GRCh37	22	37769638	37769638	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1937A>T	p.Asp646Val	p.D646V	ENST00000402918	3/3	15	10	5	16	16	0	ELFN2,missense_variant,p.Asp646Val,ENST00000402918,;RP1-63G5.5,intron_variant,,ENST00000430883,;RP1-63G5.5,intron_variant,,ENST00000452946,;RP1-63G5.8,downstream_gene_variant,,ENST00000609322,;ELFN2,downstream_gene_variant,,ENST00000424973,;ELFN2,downstream_gene_variant,,ENST00000415408,;ELFN2,downstream_gene_variant,,ENST00000414347,;ELFN2,downstream_gene_variant,,ENST00000435824,;ELFN2,downstream_gene_variant,,ENST00000451509,;	A	ENSG00000166897	ENST00000402918	Transcript	missense_variant	2723	1937	646	D/V	gAc/gTc	COSM1308144	.	.	-1	ELFN2	HGNC	29396	protein_coding	YES	CCDS33642.1	ENSP00000385277	PPR29_HUMAN	.	UPI000004E87D	.	deleterious(0)	probably_damaging(0.918)	3/3	.	hmmpanther:PTHR24367:SF248,hmmpanther:PTHR24367	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACGTCCAGG	.	5	BLCA
ANAPC1	0	.	GRCh37	2	112541911	112541911	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4984C>A	p.Leu1662Ile	p.L1662I	ENST00000341068	41/48	207	181	26	142	141	1	ANAPC1,missense_variant,p.Leu1662Ile,ENST00000341068,;ANAPC1,missense_variant,p.Leu1197Ile,ENST00000427997,;ANAPC1,upstream_gene_variant,,ENST00000462785,;	T	ENSG00000153107	ENST00000341068	Transcript	missense_variant	5757	4984	1662	L/I	Ctt/Att	COSM1305546	.	.	-1	ANAPC1	HGNC	19988	protein_coding	YES	CCDS2093.1	ENSP00000339109	APC1_HUMAN	.	UPI000006EC6E	.	tolerated(0.18)	benign(0.242)	41/48	.	hmmpanther:PTHR12827	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAAAGATGGA	.	4	BLCA
MARCO	0	.	GRCh37	2	119752005	119752005	+	Missense_Mutation	SNP	C	C	T	rs772912755	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1472C>T	p.Thr491Met	p.T491M	ENST00000327097	17/17	84	65	18	61	61	0	MARCO,missense_variant,p.Thr491Met,ENST00000327097,;MARCO,missense_variant,p.Thr413Met,ENST00000541757,;MARCO,non_coding_transcript_exon_variant,,ENST00000494979,;	T	ENSG00000019169	ENST00000327097	Transcript	missense_variant	1607	1472	491	T/M	aCg/aTg	rs772912755,COSM1305589	.	.	1	MARCO	HGNC	6895	protein_coding	YES	CCDS2124.1	ENSP00000318916	MARCO_HUMAN	Q4ZG40_HUMAN,C9JKT8_HUMAN,B4DW79_HUMAN,B4DLJ6_HUMAN	UPI0000000DF8	.	deleterious(0.03)	unknown(0)	17/17	.	PROSITE_profiles:PS50287,hmmpanther:PTHR24021:SF16,hmmpanther:PTHR24021,Pfam_domain:PF00530,Gene3D:3.10.250.10,SMART_domains:SM00202,Superfamily_domains:SSF56487,Prints_domain:PR00258	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCACGGAGA	byFrequency	5	BLCA
TTN	0	.	GRCh37	2	179404371	179404371	+	Silent	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98421C>T	p.%3D	p.D32807D	ENST00000589042	352/363	98	57	40	131	131	0	TTN,synonymous_variant,p.%3D,ENST00000359218,;TTN,synonymous_variant,p.%3D,ENST00000460472,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000342175,;TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000590040,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,downstream_gene_variant,,ENST00000589434,;TTN-AS1,upstream_gene_variant,,ENST00000438095,;TTN-AS1,downstream_gene_variant,,ENST00000588716,;TTN-AS1,downstream_gene_variant,,ENST00000589391,;RP11-65L3.4,upstream_gene_variant,,ENST00000604692,;TTN-AS1,downstream_gene_variant,,ENST00000592182,;TTN-AS1,downstream_gene_variant,,ENST00000592836,;TTN-AS1,downstream_gene_variant,,ENST00000591466,;TTN-AS1,downstream_gene_variant,,ENST00000591867,;TTN-AS1,downstream_gene_variant,,ENST00000415561,;TTN-AS1,downstream_gene_variant,,ENST00000585358,;TTN-AS1,downstream_gene_variant,,ENST00000589842,;TTN-AS1,downstream_gene_variant,,ENST00000450692,;TTN-AS1,downstream_gene_variant,,ENST00000442329,;TTN-AS1,downstream_gene_variant,,ENST00000431259,;TTN-AS1,downstream_gene_variant,,ENST00000588257,;TTN-AS1,downstream_gene_variant,,ENST00000588244,;TTN-AS1,downstream_gene_variant,,ENST00000588804,;TTN-AS1,upstream_gene_variant,,ENST00000590932,;TTN-AS1,downstream_gene_variant,,ENST00000585487,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	98646	98421	32807	D	gaC/gaT	COSM1305913,COSM1305912,COSM1305909,COSM1305911,COSM1305910	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	352/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGTCATC	.	5	BLCA
TTN	0	.	GRCh37	2	179528611	179528611	+	Missense_Mutation	SNP	T	T	G	rs780761095	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36383A>C	p.Glu12128Ala	p.E12128A	ENST00000589042	170/363	170	136	33	220	220	0	TTN,missense_variant,p.Glu192Ala,ENST00000425332,;TTN,missense_variant,p.Glu12128Ala,ENST00000589042,;TTN,intron_variant,,ENST00000414766,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000342992,;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000431752,;TTN-AS1,intron_variant,,ENST00000589830,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	36608	36383	12128	E/A	gAg/gCg	rs780761095	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	170/363	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACCTCTTTG	.	5	BLCA
ZDBF2	0	.	GRCh37	2	207169716	207169716	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.464T>C	p.Ile155Thr	p.I155T	ENST00000374423	5/5	24	10	14	25	25	0	ZDBF2,missense_variant,p.Ile155Thr,ENST00000374423,;	C	ENSG00000204186	ENST00000374423	Transcript	missense_variant	850	464	155	I/T	aTt/aCt	COSM1306348,COSM1306347	.	.	1	ZDBF2	HGNC	29313	protein_coding	YES	CCDS46501.1	ENSP00000363545	ZDBF2_HUMAN	N0DVB2_HUMAN	UPI000022BDE3	.	deleterious(0.04)	benign(0.152)	5/5	.	hmmpanther:PTHR21639:SF2,hmmpanther:PTHR21639	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAAATTGGGG	.	5	BLCA
BIRC6	0	.	GRCh37	2	32640936	32640936	+	Silent	SNP	C	C	G	rs371105102	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2577C>G	p.%3D	p.L859L	ENST00000421745	10/74	55	31	24	55	55	0	BIRC6,synonymous_variant,p.%3D,ENST00000421745,;	G	ENSG00000115760	ENST00000421745	Transcript	synonymous_variant	2711	2577	859	L	ctC/ctG	rs371105102,COSM1306732,COSM1306731	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	.	10/74	.	Gene3D:2.130.10.10,hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGCTCATTTT	byCluster|by1000G	5	BLCA
TAGLN3	0	.	GRCh37	3	111719695	111719695	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.257C>T	p.Ala86Val	p.A86V	ENST00000393917	3/5	310	248	61	211	210	0	TAGLN3,missense_variant,p.Ala86Val,ENST00000478951,;TAGLN3,missense_variant,p.Ala26Val,ENST00000469385,;TAGLN3,missense_variant,p.Ala2Val,ENST00000486460,;TAGLN3,missense_variant,p.Ala86Val,ENST00000455401,;TAGLN3,missense_variant,p.Ala86Val,ENST00000273368,;TAGLN3,missense_variant,p.Ala86Val,ENST00000393917,;TAGLN3,intron_variant,,ENST00000494932,;	T	ENSG00000144834	ENST00000393917	Transcript	missense_variant	809	257	86	A/V	gCt/gTt	COSM1308390,COSM1308391	.	.	1	TAGLN3	HGNC	29868	protein_coding	YES	CCDS33816.1	ENSP00000377494	TAGL3_HUMAN	C9J5W6_HUMAN	UPI00000738C2	.	tolerated(0.28)	benign(0.033)	3/5	.	Prints_domain:PR00890,Superfamily_domains:SSF47576,SMART_domains:SM00033,Gene3D:1.10.418.10,Pfam_domain:PF00307,hmmpanther:PTHR18959:SF41,hmmpanther:PTHR18959,PROSITE_profiles:PS50021	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGGCTTTTA	.	5	BLCA
GRAMD1C	0	.	GRCh37	3	113627845	113627845	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.830A>C	p.Lys277Thr	p.K277T	ENST00000358160	9/18	105	21	83	47	47	0	GRAMD1C,missense_variant,p.Lys72Thr,ENST00000440446,;GRAMD1C,missense_variant,p.Lys277Thr,ENST00000358160,;GRAMD1C,missense_variant,p.Lys110Thr,ENST00000472026,;GRAMD1C,missense_variant,p.Lys72Thr,ENST00000462838,;GRAMD1C,5_prime_UTR_variant,,ENST00000488680,;GRAMD1C,5_prime_UTR_variant,,ENST00000452134,;GRAMD1C,non_coding_transcript_exon_variant,,ENST00000479212,;GRAMD1C,missense_variant,p.Lys196Gln,ENST00000472384,;GRAMD1C,3_prime_UTR_variant,,ENST00000484714,;	C	ENSG00000178075	ENST00000358160	Transcript	missense_variant	1322	830	277	K/T	aAa/aCa	COSM1308421	.	.	1	GRAMD1C	HGNC	25252	protein_coding	YES	CCDS33826.1	ENSP00000350881	GRM1C_HUMAN	C9J7B8_HUMAN,A8KA99_HUMAN	UPI00001AF15F	.	tolerated(0.18)	benign(0.193)	9/18	.	hmmpanther:PTHR23319:SF1,hmmpanther:PTHR23319	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCAAAAAGA	.	5	BLCA
POPDC2	0	.	GRCh37	3	119361269	119361269	+	3'UTR	SNP	C	C	G	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*54G>C	.	.	ENST00000264231	4/4	50	11	38	59	59	0	POPDC2,3_prime_UTR_variant,,ENST00000493094,;POPDC2,3_prime_UTR_variant,,ENST00000264231,;POPDC2,downstream_gene_variant,,ENST00000538678,;POPDC2,downstream_gene_variant,,ENST00000468801,;POPDC2,non_coding_transcript_exon_variant,,ENST00000474523,;POPDC2,3_prime_UTR_variant,,ENST00000341124,;POPDC2,3_prime_UTR_variant,,ENST00000495362,;	G	ENSG00000121577	ENST00000264231	Transcript	3_prime_UTR_variant	1316	.	.	.	.	.	.	.	-1	POPDC2	HGNC	17648	protein_coding	YES	CCDS2992.1	ENSP00000264231	POPD2_HUMAN	.	UPI000000DAC2	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCTGTGA	.	5	BLCA
PARP15	0	.	GRCh37	3	122354758	122354758	+	Nonsense_Mutation	SNP	C	C	A	rs761080493	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1848C>A	p.Tyr616Ter	p.Y616*	ENST00000464300	12/12	92	73	19	58	58	0	PARP15,stop_gained,p.Tyr313Ter,ENST00000493645,;PARP15,stop_gained,p.Tyr616Ter,ENST00000464300,;PARP15,stop_gained,p.Tyr382Ter,ENST00000310366,;PARP15,stop_gained,p.Tyr421Ter,ENST00000483793,;PARP15,non_coding_transcript_exon_variant,,ENST00000465304,;PARP15,downstream_gene_variant,,ENST00000473627,;	A	ENSG00000173200	ENST00000464300	Transcript	stop_gained	1914	1848	616	Y/*	taC/taA	rs761080493,COSM1308472,COSM1308471	.	.	1	PARP15	HGNC	26876	protein_coding	YES	CCDS46893.1	ENSP00000417214	.	J3KR47_HUMAN	UPI000163A140	.	.	.	12/12	.	Superfamily_domains:SSF56399,Gene3D:3.90.228.10,Pfam_domain:PF00644,hmmpanther:PTHR14453,hmmpanther:PTHR14453:SF54,PROSITE_profiles:PS51059	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTACGTTGT	.	5	BLCA
PPARG	0	.	GRCh37	3	12475606	12475606	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1480C>T	p.His494Tyr	p.H494Y	ENST00000287820	7/7	51	19	32	75	75	0	PPARG,missense_variant,p.His494Tyr,ENST00000287820,;PPARG,missense_variant,p.His472Tyr,ENST00000397026,;PPARG,missense_variant,p.His466Tyr,ENST00000397010,;PPARG,missense_variant,p.His466Tyr,ENST00000397012,;PPARG,missense_variant,p.His466Tyr,ENST00000309576,;PPARG,missense_variant,p.His466Tyr,ENST00000397015,;PPARG,3_prime_UTR_variant,,ENST00000397000,;PPARG,3_prime_UTR_variant,,ENST00000539812,;PPARG,3_prime_UTR_variant,,ENST00000397023,;	T	ENSG00000132170	ENST00000287820	Transcript	missense_variant	1601	1480	494	H/Y	Cac/Tac	COSM1308513	.	.	1	PPARG	HGNC	9236	protein_coding	YES	CCDS2609.1	ENSP00000287820	PPARG_HUMAN	Q9UEF6_HUMAN,Q6L9M1_HUMAN,E9PFJ1_HUMAN,E7EUD1_HUMAN,E7EU07_HUMAN,D2KUA6_HUMAN	UPI0000055911	.	deleterious(0)	probably_damaging(0.983)	7/7	.	hmmpanther:PTHR24082:SF14,hmmpanther:PTHR24082,Gene3D:1.10.565.10,Superfamily_domains:SSF48508,Prints_domain:PR01288	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCACCCG	.	5	BLCA
CEP63	0	.	GRCh37	3	134278206	134278206	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1888A>G	p.Asn630Asp	p.N630D	ENST00000337090	14/15	85	64	21	73	73	0	CEP63,missense_variant,p.Asn630Asp,ENST00000337090,;CEP63,missense_variant,p.Asn630Asp,ENST00000513612,;CEP63,missense_variant,p.Asn630Asp,ENST00000606977,;CEP63,intron_variant,,ENST00000383229,;CEP63,intron_variant,,ENST00000514678,;CEP63,intron_variant,,ENST00000354446,;CEP63,intron_variant,,ENST00000332047,;CEP63,downstream_gene_variant,,ENST00000504929,;CEP63,intron_variant,,ENST00000510625,;	G	ENSG00000182923	ENST00000337090	Transcript	missense_variant	2061	1888	630	N/D	Aat/Gat	COSM1308623	.	.	1	CEP63	HGNC	25815	protein_coding	YES	CCDS3086.1	ENSP00000336524	CEP63_HUMAN	D6RAY6_HUMAN,D6R9Q4_HUMAN	UPI000006D2FD	.	tolerated(0.05)	benign(0.058)	14/15	.	hmmpanther:PTHR18875,hmmpanther:PTHR18875:SF6	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACAAATGAA	.	5	BLCA
SI	0	.	GRCh37	3	164697153	164697153	+	Silent	SNP	T	T	A	rs778635843	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5481A>T	p.%3D	p.S1827S	ENST00000264382	48/48	168	138	29	107	107	0	SI,synonymous_variant,p.%3D,ENST00000264382,;	A	ENSG00000090402	ENST00000264382	Transcript	synonymous_variant	5544	5481	1827	S	tcA/tcT	rs778635843,COSM1308784	.	.	-1	SI	HGNC	10856	protein_coding	YES	CCDS3196.1	ENSP00000264382	SUIS_HUMAN	.	UPI000022C287	.	.	.	48/48	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCATGACCA	byFrequency	4	BLCA
GLYCTK	0	.	GRCh37	3	52326880	52326880	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1310G>T	p.Trp437Leu	p.W437L	ENST00000436784	5/5	88	39	49	172	172	0	GLYCTK,missense_variant,p.Trp437Leu,ENST00000436784,;GLYCTK,3_prime_UTR_variant,,ENST00000354773,;GLYCTK,3_prime_UTR_variant,,ENST00000477382,;GLYCTK,intron_variant,,ENST00000473032,;GLYCTK,intron_variant,,ENST00000471180,;GLYCTK,intron_variant,,ENST00000461183,;GLYCTK,intron_variant,,ENST00000305690,;WDR82,upstream_gene_variant,,ENST00000463624,;MIR135A1,downstream_gene_variant,,ENST00000385191,;GLYCTK-AS1,intron_variant,,ENST00000493616,;GLYCTK-AS1,downstream_gene_variant,,ENST00000472761,;GLYCTK,3_prime_UTR_variant,,ENST00000486393,;GLYCTK,non_coding_transcript_exon_variant,,ENST00000489173,;GLYCTK-AS1,non_coding_transcript_exon_variant,,ENST00000467187,;GLYCTK,downstream_gene_variant,,ENST00000473583,;	T	ENSG00000168237	ENST00000436784	Transcript	missense_variant	1370	1310	437	W/L	tGg/tTg	COSM1309324	.	.	1	GLYCTK	HGNC	24247	protein_coding	YES	CCDS2852.1	ENSP00000389175	GLCTK_HUMAN	.	UPI000004FD5A	.	tolerated(0.65)	benign(0)	5/5	.	Superfamily_domains:0051940,Pfam_domain:PF05161,Gene3D:1x3lA01,hmmpanther:PTHR12227,hmmpanther:PTHR12227:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTGGCCGC	.	5	BLCA
OGG1	0	.	GRCh37	3	9798767	9798767	+	Intron	SNP	G	G	A	rs541588028	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.948+267G>A	.	.	ENST00000302036	.	175	141	33	299	299	0	OGG1,missense_variant,p.Ala97Thr,ENST00000416333,;OGG1,missense_variant,p.Arg324His,ENST00000344629,;OGG1,missense_variant,p.Ala330Thr,ENST00000302003,;OGG1,3_prime_UTR_variant,,ENST00000339511,;OGG1,intron_variant,,ENST00000349503,;OGG1,intron_variant,,ENST00000302036,;OGG1,intron_variant,,ENST00000426518,;OGG1,intron_variant,,ENST00000449570,;OGG1,intron_variant,,ENST00000352937,;OGG1,intron_variant,,ENST00000302008,;OGG1,intron_variant,,ENST00000383826,;CAMK1,downstream_gene_variant,,ENST00000411972,;CAMK1,downstream_gene_variant,,ENST00000421120,;OGG1,downstream_gene_variant,,ENST00000441094,;CAMK1,downstream_gene_variant,,ENST00000256460,;OGG1,non_coding_transcript_exon_variant,,ENST00000383825,;OGG1,3_prime_UTR_variant,,ENST00000425665,;OGG1,upstream_gene_variant,,ENST00000602976,;CAMK1,downstream_gene_variant,,ENST00000397277,;OGG1,downstream_gene_variant,,ENST00000429146,;CAMK1,downstream_gene_variant,,ENST00000482803,;CAMK1,downstream_gene_variant,,ENST00000496534,;OGG1,downstream_gene_variant,,ENST00000432857,;	A	ENSG00000114026	ENST00000302036	Transcript	intron_variant	.	.	.	.	.	rs541588028,COSM1309531	.	.	1	OGG1	HGNC	8125	protein_coding	YES	CCDS2576.1	ENSP00000306561	OGG1_HUMAN	E5KPM5_HUMAN	UPI000002B01B	.	.	.	.	6/6	.	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODIFIER	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGCGCCAAT	by1000G	5	BLCA
OR5K1	0	.	GRCh37	3	98188871	98188871	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>T	p.Ala151Ser	p.A151S	ENST00000332650	1/1	119	79	40	116	116	0	OR5K1,missense_variant,p.Ala151Ser,ENST00000332650,;	T	ENSG00000232382	ENST00000332650	Transcript	missense_variant	548	451	151	A/S	Gct/Tct	COSM1309535	.	.	1	OR5K1	HGNC	8349	protein_coding	YES	CCDS43115.1	ENSP00000373193	OR5K1_HUMAN	.	UPI000013F5A3	.	tolerated(0.09)	possibly_damaging(0.822)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF38,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATAGCTGGA	.	5	BLCA
WDR1	0	.	GRCh37	4	10079467	10079467	+	Silent	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479C>T	p.%3D	p.T493T	ENST00000499869	13/15	15	10	5	24	24	0	WDR1,synonymous_variant,p.%3D,ENST00000382452,;WDR1,synonymous_variant,p.%3D,ENST00000499869,;WDR1,synonymous_variant,p.%3D,ENST00000502702,;WDR1,synonymous_variant,p.%3D,ENST00000382451,;MIR3138,downstream_gene_variant,,ENST00000585238,;RP11-448G15.3,upstream_gene_variant,,ENST00000561486,;WDR1,non_coding_transcript_exon_variant,,ENST00000515743,;WDR1,non_coding_transcript_exon_variant,,ENST00000502962,;	A	ENSG00000071127	ENST00000499869	Transcript	synonymous_variant	1673	1479	493	T	acC/acT	COSM1309566,COSM1309565	.	.	-1	WDR1	HGNC	12754	protein_coding	YES	CCDS54740.1	ENSP00000427687	WDR1_HUMAN	.	UPI0000138EDA	.	.	.	13/15	.	PROSITE_profiles:PS50294,hmmpanther:PTHR19856,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	ACGTCGGTCAC	.	4	BLCA
PCDH7	0	.	GRCh37	4	30726012	30726012	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2968C>T	p.Pro990Ser	p.P990S	ENST00000543491	1/3	60	42	18	92	92	0	PCDH7,missense_variant,p.Pro680Ser,ENST00000511884,;PCDH7,missense_variant,p.Pro990Ser,ENST00000543491,;PCDH7,missense_variant,p.Pro990Ser,ENST00000361762,;PCDH7,intron_variant,,ENST00000507864,;	T	ENSG00000169851	ENST00000543491	Transcript	missense_variant	2968	2968	990	P/S	Cct/Tct	COSM1310012,COSM1310011	.	.	1	PCDH7	HGNC	8659	protein_coding	YES	CCDS54753.1	ENSP00000441802	.	F5GWJ1_HUMAN	UPI0001CB27C3	.	deleterious(0)	probably_damaging(0.987)	1/3	.	hmmpanther:PTHR24027:SF14,hmmpanther:PTHR24027,Pfam_domain:PF08374	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTCCTGAC	.	5	BLCA
PRKG2	0	.	GRCh37	4	82058586	82058586	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1595C>A	p.Ala532Asp	p.A532D	ENST00000395578	13/19	101	74	26	161	161	0	PRKG2,missense_variant,p.Ala503Asp,ENST00000418486,;PRKG2,missense_variant,p.Ala532Asp,ENST00000395578,;PRKG2,missense_variant,p.Ala532Asp,ENST00000264399,;PRKG2,missense_variant,p.Ala112Asp,ENST00000545647,;PRKG2,non_coding_transcript_exon_variant,,ENST00000509474,;PRKG2,non_coding_transcript_exon_variant,,ENST00000509169,;PRKG2,downstream_gene_variant,,ENST00000456882,;	T	ENSG00000138669	ENST00000395578	Transcript	missense_variant	1712	1595	532	A/D	gCc/gAc	COSM1310298,COSM1310299	.	.	-1	PRKG2	HGNC	9416	protein_coding	YES	CCDS3589.1	ENSP00000378945	KGP2_HUMAN	B7ZA25_HUMAN	UPI000012DDC6	.	deleterious(0)	probably_damaging(0.987)	13/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24353:SF24,hmmpanther:PTHR24353,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,PIRSF_domain:PIRSF000559,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGGCCTCC	.	5	BLCA
CAMK4	0	.	GRCh37	5	110784840	110784840	+	Silent	SNP	C	C	G	rs763176651	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.564C>G	p.%3D	p.L188L	ENST00000282356	7/11	42	33	9	61	61	0	CAMK4,synonymous_variant,p.%3D,ENST00000282356,;CAMK4,synonymous_variant,p.%3D,ENST00000512453,;CAMK4,non_coding_transcript_exon_variant,,ENST00000505763,;CAMK4,non_coding_transcript_exon_variant,,ENST00000502916,;CAMK4,3_prime_UTR_variant,,ENST00000514007,;CAMK4,3_prime_UTR_variant,,ENST00000515231,;CAMK4,3_prime_UTR_variant,,ENST00000504544,;	G	ENSG00000152495	ENST00000282356	Transcript	synonymous_variant	962	564	188	L	ctC/ctG	rs763176651,COSM1310434	.	.	1	CAMK4	HGNC	1464	protein_coding	YES	CCDS4103.1	ENSP00000282356	KCC4_HUMAN	D6RE65_HUMAN	UPI000000128E	.	.	.	7/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24349,hmmpanther:PTHR24349:SF77,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTCTCTAA	.	5	BLCA
FAM170A	0	.	GRCh37	5	118969677	118969677	+	Missense_Mutation	SNP	C	C	A	rs749246035	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234C>A	p.Asp78Glu	p.D78E	ENST00000335286	3/5	46	40	6	116	116	0	FAM170A,missense_variant,p.Asp78Glu,ENST00000509264,;FAM170A,missense_variant,p.Asp78Glu,ENST00000515256,;FAM170A,missense_variant,p.Asp78Glu,ENST00000335286,;FAM170A,missense_variant,p.Asp31Glu,ENST00000379555,;FAM170A,missense_variant,p.Asp31Glu,ENST00000504819,;HSD17B4,intron_variant,,ENST00000515235,;	A	ENSG00000164334	ENST00000335286	Transcript	missense_variant	405	234	78	D/E	gaC/gaA	rs749246035,COSM1310464,COSM1310465	.	.	1	FAM170A	HGNC	27963	nonsense_mediated_decay	YES	CCDS43353.1	ENSP00000334285	F170A_HUMAN	.	UPI00001C1E37	.	deleterious(0.04)	benign(0.117)	3/5	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGAGACAGCCC	.	4	BLCA
RAPGEF6	0	.	GRCh37	5	130834176	130834176	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1379A>G	p.Lys460Arg	p.K460R	ENST00000296859	12/29	98	25	73	76	76	0	RAPGEF6,missense_variant,p.Lys175Arg,ENST00000512052,;RAPGEF6,missense_variant,p.Lys460Arg,ENST00000307984,;RAPGEF6,missense_variant,p.Lys460Arg,ENST00000507093,;CTC-432M15.3,missense_variant,p.Lys510Arg,ENST00000514667,;RAPGEF6,missense_variant,p.Lys460Arg,ENST00000296859,;RAPGEF6,missense_variant,p.Lys460Arg,ENST00000509018,;RAPGEF6,missense_variant,p.Lys460Arg,ENST00000308008,;RAPGEF6,missense_variant,p.Lys460Arg,ENST00000510071,;RAPGEF6,missense_variant,p.Lys460Arg,ENST00000515170,;RAPGEF6,non_coding_transcript_exon_variant,,ENST00000514179,;	C	ENSG00000158987	ENST00000296859	Transcript	missense_variant	1460	1379	460	K/R	aAa/aGa	COSM1310507,COSM1310505,COSM1310506,COSM1310504	.	.	-1	RAPGEF6	HGNC	20655	protein_coding	YES	CCDS54900.1	ENSP00000296859	RPGF6_HUMAN	D6RB02_HUMAN	UPI000189A836	.	tolerated(0.14)	probably_damaging(0.999)	12/29	.	PROSITE_profiles:PS50212,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF171,Pfam_domain:PF00618,Gene3D:2ii0A01,SMART_domains:SM00229,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGTTTGATC	.	5	BLCA
PCDHGB3	0	.	GRCh37	5	140750610	140750610	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649G>T	p.Gly217Trp	p.G217W	ENST00000576222	1/4	43	30	12	81	81	0	PCDHGB3,missense_variant,p.Gly217Trp,ENST00000576222,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGA6,upstream_gene_variant,,ENST00000517434,;	T	ENSG00000262209	ENST00000576222	Transcript	missense_variant	780	649	217	G/W	Ggg/Tgg	.	.	.	1	PCDHGB3	HGNC	8710	protein_coding	YES	CCDS58980.1	ENSP00000461862	PCDGF_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000006FA6F	.	deleterious(0)	probably_damaging(0.999)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF106,hmmpanther:PTHR24028,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGGGGGC	.	5	BLCA
CSF1R	0	.	GRCh37	5	149449851	149449851	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1213A>C	p.Ser405Arg	p.S405R	ENST00000286301	9/22	65	26	39	95	95	0	CSF1R,missense_variant,p.Ser405Arg,ENST00000286301,;CSF1R,downstream_gene_variant,,ENST00000543093,;CSF1R,upstream_gene_variant,,ENST00000515239,;CSF1R,missense_variant,p.Ser405Arg,ENST00000504875,;CSF1R,upstream_gene_variant,,ENST00000513609,;	G	ENSG00000182578	ENST00000286301	Transcript	missense_variant	1505	1213	405	S/R	Agc/Cgc	COSM1310842,COSM1310841	.	.	-1	CSF1R	HGNC	2433	protein_coding	YES	CCDS4302.1	ENSP00000286301	CSF1R_HUMAN	Q6LEI2_HUMAN,D6RGW1_HUMAN	UPI000004984A	.	tolerated(0.54)	benign(0.007)	9/22	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24416:SF47,hmmpanther:PTHR24416,Gene3D:2.60.40.10,SMART_domains:SM00409,PIRSF_domain:PIRSF500947,PIRSF_domain:PIRSF000615,Superfamily_domains:SSF48726,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGCTTACCT	.	5	BLCA
ANXA6	0	.	GRCh37	5	150489362	150489362	+	Missense_Mutation	SNP	G	G	A	rs542124145	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1636C>T	p.Arg546Cys	p.R546C	ENST00000354546	22/26	19	15	4	24	24	0	ANXA6,missense_variant,p.Arg546Cys,ENST00000354546,;ANXA6,missense_variant,p.Arg540Cys,ENST00000356496,;ANXA6,missense_variant,p.Arg203Cys,ENST00000377751,;ANXA6,missense_variant,p.Arg333Cys,ENST00000521512,;ANXA6,missense_variant,p.Arg514Cys,ENST00000523714,;ANXA6,intron_variant,,ENST00000517486,;ANXA6,upstream_gene_variant,,ENST00000522664,;	A	ENSG00000197043	ENST00000354546	Transcript	missense_variant	1864	1636	546	R/C	Cgt/Tgt	rs542124145	.	.	-1	ANXA6	HGNC	544	protein_coding	YES	CCDS47315.1	ENSP00000346550	ANXA6_HUMAN	E5RK63_HUMAN,E5RJR0_HUMAN,E5RJF5_HUMAN,B7Z582_HUMAN	UPI000013CB37	.	tolerated(0.08)	probably_damaging(0.968)	22/26	.	Superfamily_domains:SSF47874,SMART_domains:SM00335,Pfam_domain:PF00191,Gene3D:1.10.220.10,PROSITE_patterns:PS00223	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GAAACGTGTCT	.	2	BLCA
MAP1B	0	.	GRCh37	5	71492471	71492471	+	Missense_Mutation	SNP	G	G	A	rs774101263	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3289G>A	p.Glu1097Lys	p.E1097K	ENST00000296755	5/7	23	15	8	56	56	0	MAP1B,missense_variant,p.Glu1097Lys,ENST00000296755,;MAP1B,downstream_gene_variant,,ENST00000511641,;MAP1B,downstream_gene_variant,,ENST00000504492,;MAP1B,downstream_gene_variant,,ENST00000513526,;	A	ENSG00000131711	ENST00000296755	Transcript	missense_variant	3587	3289	1097	E/K	Gag/Aag	rs774101263,COSM1311299	.	.	1	MAP1B	HGNC	6836	protein_coding	YES	CCDS4012.1	ENSP00000296755	MAP1B_HUMAN	D6RGJ3_HUMAN,D6RA40_HUMAN	UPI000013E382	.	.	probably_damaging(0.991)	5/7	.	hmmpanther:PTHR13843,hmmpanther:PTHR13843:SF5	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGCGAGGCC	.	5	BLCA
HIVEP1	0	.	GRCh37	6	12120592	12120592	+	Silent	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.564C>T	p.%3D	p.S188S	ENST00000379388	4/9	82	47	34	87	87	0	HIVEP1,synonymous_variant,p.%3D,ENST00000379388,;HIVEP1,intron_variant,,ENST00000442081,;HIVEP1,downstream_gene_variant,,ENST00000487103,;HIVEP1,downstream_gene_variant,,ENST00000491710,;HIVEP1,downstream_gene_variant,,ENST00000478545,;	T	ENSG00000095951	ENST00000379388	Transcript	synonymous_variant	896	564	188	S	tcC/tcT	COSM1311515	.	.	1	HIVEP1	HGNC	4920	protein_coding	YES	CCDS43426.1	ENSP00000368698	ZEP1_HUMAN	C9JZF8_HUMAN,C9JAW2_HUMAN,C9J2N3_HUMAN	UPI000020D52B	.	.	.	4/9	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGTCCCCCTC	.	5	BLCA
BCLAF1	0	.	GRCh37	6	136582545	136582545	+	Frame_Shift_Del	DEL	C	C	-	rs773135981	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2615delG	p.Gly872AlafsTer75	p.G872Afs*75	ENST00000531224	12/13	383	308	75	316	316	0	BCLAF1,frameshift_variant,p.Gly821AlafsTer?,ENST00000392348,;BCLAF1,frameshift_variant,p.Gly139AlafsTer75,ENST00000534762,;BCLAF1,frameshift_variant,p.Gly821AlafsTer75,ENST00000353331,;BCLAF1,frameshift_variant,p.Gly872AlafsTer75,ENST00000531224,;BCLAF1,frameshift_variant,p.Gly699AlafsTer75,ENST00000530767,;BCLAF1,frameshift_variant,p.Gly823AlafsTer75,ENST00000527536,;BCLAF1,frameshift_variant,p.Gly870AlafsTer75,ENST00000527759,;BCLAF1,frameshift_variant,p.Gly90AlafsTer75,ENST00000031135,;BCLAF1,non_coding_transcript_exon_variant,,ENST00000529917,;BCLAF1,frameshift_variant,p.Gly78AlafsTer75,ENST00000533422,;BCLAF1,3_prime_UTR_variant,,ENST00000534269,;BCLAF1,3_prime_UTR_variant,,ENST00000527613,;BCLAF1,3_prime_UTR_variant,,ENST00000530429,;BCLAF1,3_prime_UTR_variant,,ENST00000532384,;BCLAF1,non_coding_transcript_exon_variant,,ENST00000526228,;BCLAF1,non_coding_transcript_exon_variant,,ENST00000529522,;	-	ENSG00000029363	ENST00000531224	Transcript	frameshift_variant	2868	2615	872	G/X	gGc/gc	rs773135981	.	.	-1	BCLAF1	HGNC	16863	protein_coding	YES	CCDS5177.1	ENSP00000435210	BCLF1_HUMAN	B0AZU3_HUMAN	UPI000006FCE7	.	.	.	12/13	.	hmmpanther:PTHR15268,hmmpanther:PTHR15268:SF4,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTCTGCCACGT	byFrequency	3	BLCA
NMBR	0	.	GRCh37	6	142397093	142397093	+	Missense_Mutation	SNP	G	G	A	rs376623534	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865C>T	p.Arg289Trp	p.R289W	ENST00000258042	3/3	51	28	23	67	67	0	NMBR,missense_variant,p.Arg289Trp,ENST00000258042,;NMBR,upstream_gene_variant,,ENST00000480652,;	A	ENSG00000135577	ENST00000258042	Transcript	missense_variant	1006	865	289	R/W	Cgg/Tgg	rs376623534,COSM1311617	.	.	-1	NMBR	HGNC	7843	protein_coding	YES	CCDS5196.1	ENSP00000258042	NMBR_HUMAN	.	UPI000013CFAB	.	deleterious(0)	probably_damaging(1)	3/3	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR24243,hmmpanther:PTHR24243:SF53,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	A:0.0005	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACCGATACA	byFrequency|byCluster	5	BLCA
STXBP5	0	.	GRCh37	6	147648378	147648378	+	Silent	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2046C>T	p.%3D	p.P682P	ENST00000321680	18/28	61	28	33	58	58	0	STXBP5,synonymous_variant,p.%3D,ENST00000321680,;STXBP5,synonymous_variant,p.%3D,ENST00000367475,;STXBP5,synonymous_variant,p.%3D,ENST00000367480,;STXBP5,synonymous_variant,p.%3D,ENST00000392291,;STXBP5,synonymous_variant,p.%3D,ENST00000179882,;STXBP5,synonymous_variant,p.%3D,ENST00000367481,;	T	ENSG00000164506	ENST00000321680	Transcript	synonymous_variant	2046	2046	682	P	ccC/ccT	COSM1311648,COSM1311647	.	.	1	STXBP5	HGNC	19665	protein_coding	YES	CCDS47499.1	ENSP00000321826	STXB5_HUMAN	.	UPI0000199FE0	.	.	.	18/28	.	hmmpanther:PTHR10241,hmmpanther:PTHR10241:SF22	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACCCCGATC	.	5	BLCA
LRRC16A	0	.	GRCh37	6	25551263	25551264	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2459dupA	p.Asn820LysfsTer10	p.N820Kfs*10	ENST00000329474	27/37	157	120	37	103	103	0	LRRC16A,frameshift_variant,p.Asn820LysfsTer10,ENST00000329474,;	A	ENSG00000079691	ENST00000329474	Transcript	frameshift_variant	2822-2823	2454-2455	818-819	-/X	-/A	.	.	.	1	LRRC16A	HGNC	21581	protein_coding	YES	CCDS54973.1	ENSP00000331983	LR16A_HUMAN	.	UPI00004588AB	.	.	.	27/37	.	hmmpanther:PTHR24112,hmmpanther:PTHR24112:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTGTTAAAAA	.	3	BLCA
ECI2	0	.	GRCh37	6	4133898	4133898	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98G>A	p.Arg33Lys	p.R33K	ENST00000380118	2/10	94	38	55	82	82	0	ECI2,missense_variant,p.Arg33Lys,ENST00000380118,;ECI2,missense_variant,p.Arg3Lys,ENST00000380125,;ECI2,missense_variant,p.Arg3Lys,ENST00000465828,;ECI2,missense_variant,p.Arg80Lys,ENST00000495548,;ECI2,missense_variant,p.Arg3Lys,ENST00000361538,;ECI2,5_prime_UTR_variant,,ENST00000413766,;C6orf201,downstream_gene_variant,,ENST00000333388,;C6orf201,downstream_gene_variant,,ENST00000380175,;RP3-400B16.1,upstream_gene_variant,,ENST00000427049,;RP3-400B16.4,upstream_gene_variant,,ENST00000527831,;C6orf201,downstream_gene_variant,,ENST00000496987,;ECI2,missense_variant,p.Arg33Lys,ENST00000380120,;ECI2,missense_variant,p.Arg33Lys,ENST00000478266,;ECI2,missense_variant,p.Arg3Lys,ENST00000496241,;ECI2,non_coding_transcript_exon_variant,,ENST00000464583,;ECI2,non_coding_transcript_exon_variant,,ENST00000464057,;ECI2,non_coding_transcript_exon_variant,,ENST00000489086,;C6orf201,downstream_gene_variant,,ENST00000436110,;C6orf201,downstream_gene_variant,,ENST00000451679,;C6orf201,downstream_gene_variant,,ENST00000427996,;	T	ENSG00000198721	ENST00000380118	Transcript	missense_variant	135	98	33	R/K	aGa/aAa	COSM1312198,COSM1312197	.	.	-1	ECI2	HGNC	14601	protein_coding	YES	CCDS43420.2	ENSP00000369461	ECI2_HUMAN	C9J000_HUMAN,B4DLL3_HUMAN	UPI000004ECA9	.	tolerated(0.99)	benign(0.001)	2/10	.	hmmpanther:PTHR23310,hmmpanther:PTHR23310:SF55	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCTATTC	.	5	BLCA
CLIC5	0	.	GRCh37	6	45917028	45917028	+	Silent	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.741C>A	p.%3D	p.I247I	ENST00000185206	3/6	116	84	32	137	137	0	CLIC5,synonymous_variant,p.%3D,ENST00000185206,;CLIC5,synonymous_variant,p.%3D,ENST00000339561,;CLIC5,synonymous_variant,p.%3D,ENST00000544153,;	T	ENSG00000112782	ENST00000185206	Transcript	synonymous_variant	894	741	247	I	atC/atA	COSM1312259,COSM1312258	.	.	-1	CLIC5	HGNC	13517	protein_coding	YES	CCDS47438.1	ENSP00000185206	CLIC5_HUMAN	.	UPI000013C5ED	.	.	.	3/6	.	hmmpanther:PTHR11260:SF152,hmmpanther:PTHR11260,TIGRFAM_domain:TIGR00862,Pfam_domain:PF13417,Gene3D:3.40.30.10,Superfamily_domains:SSF52833,Prints_domain:PR01263	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTCGATCTT	.	5	BLCA
KCND2	0	.	GRCh37	7	120387914	120387914	+	3'UTR	SNP	A	A	G	rs781252937	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2A>G	.	.	ENST00000331113	6/6	37	30	7	12	12	0	KCND2,3_prime_UTR_variant,,ENST00000331113,;KCND2,downstream_gene_variant,,ENST00000425288,;RP4-797C5.2,intron_variant,,ENST00000450480,;KCND2,downstream_gene_variant,,ENST00000473190,;	G	ENSG00000184408	ENST00000331113	Transcript	3_prime_UTR_variant	2860	.	.	.	.	rs781252937	.	.	1	KCND2	HGNC	6238	protein_coding	YES	CCDS5776.1	ENSP00000333496	KCND2_HUMAN	A4D0V9_HUMAN,Q75LS7_HUMAN	UPI0000073D37	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAAGACAATT	byFrequency	5	BLCA
EXOC4	0	.	GRCh37	7	133314839	133314839	+	Missense_Mutation	SNP	T	T	C	rs774798213	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1459T>C	p.Phe487Leu	p.F487L	ENST00000253861	10/18	194	75	119	132	132	0	EXOC4,missense_variant,p.Phe386Leu,ENST00000539845,;EXOC4,missense_variant,p.Phe487Leu,ENST00000253861,;EXOC4,missense_variant,p.Phe97Leu,ENST00000545148,;EXOC4,non_coding_transcript_exon_variant,,ENST00000469115,;EXOC4,non_coding_transcript_exon_variant,,ENST00000486409,;EXOC4,non_coding_transcript_exon_variant,,ENST00000483800,;EXOC4,non_coding_transcript_exon_variant,,ENST00000479839,;EXOC4,non_coding_transcript_exon_variant,,ENST00000460346,;EXOC4,non_coding_transcript_exon_variant,,ENST00000482089,;EXOC4,non_coding_transcript_exon_variant,,ENST00000489931,;EXOC4,non_coding_transcript_exon_variant,,ENST00000486013,;	C	ENSG00000131558	ENST00000253861	Transcript	missense_variant	1488	1459	487	F/L	Ttt/Ctt	rs774798213,COSM1312689	.	.	1	EXOC4	HGNC	30389	protein_coding	YES	CCDS5829.1	ENSP00000253861	EXOC4_HUMAN	B7Z4J9_HUMAN,B7Z321_HUMAN	UPI0000135758	.	tolerated(0.72)	benign(0.01)	10/18	.	hmmpanther:PTHR14146	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAATTTGTC	.	5	BLCA
CNTNAP2	0	.	GRCh37	7	147869367	147869367	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2807G>A	p.Cys936Tyr	p.C936Y	ENST00000361727	18/24	79	70	8	72	72	0	CNTNAP2,missense_variant,p.Cys936Tyr,ENST00000361727,;CNTNAP2,5_prime_UTR_variant,,ENST00000538075,;	A	ENSG00000174469	ENST00000361727	Transcript	missense_variant	3323	2807	936	C/Y	tGc/tAc	COSM1312802	.	.	1	CNTNAP2	HGNC	13830	protein_coding	YES	CCDS5889.1	ENSP00000354778	CNTP2_HUMAN	Q9UDV4_HUMAN,Q96T77_HUMAN,Q86UL9_HUMAN,Q86UL6_HUMAN,Q86UL4_HUMAN,Q86UJ1_HUMAN,Q86UI8_HUMAN,Q75MQ9_HUMAN,Q75MF8_HUMAN,Q75MF6_HUMAN,Q75MD4_HUMAN,Q75MA1_HUMAN,Q75M92_HUMAN,Q75LG9_HUMAN,O75852_HUMAN,B7Z1Y6_HUMAN	UPI00001285FA	.	deleterious(0)	probably_damaging(1)	18/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF4,hmmpanther:PTHR10127,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTGCATCC	.	4	BLCA
UPK3B	0	.	GRCh37	7	76140331	76140331	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362C>T	p.Ala121Val	p.A121V	ENST00000419923	1/6	28	23	5	33	33	0	UPK3B,missense_variant,p.Ala121Val,ENST00000419923,;UPK3B,missense_variant,p.Ala121Val,ENST00000257632,;UPK3B,missense_variant,p.Ala121Val,ENST00000448265,;UPK3B,missense_variant,p.Ala66Val,ENST00000334348,;UPK3B,missense_variant,p.Ala66Val,ENST00000394849,;UPK3B,missense_variant,p.Ala66Val,ENST00000443097,;UPK3B,non_coding_transcript_exon_variant,,ENST00000490360,;UPK3B,upstream_gene_variant,,ENST00000469114,;	T	ENSG00000243566	ENST00000419923	Transcript	missense_variant	587	362	121	A/V	gCc/gTc	COSM1313292	.	.	1	UPK3B	HGNC	21444	protein_coding	YES	CCDS5588.1	ENSP00000441602	UPK3B_HUMAN	.	UPI00001AE7A4	.	tolerated_low_confidence(0.2)	benign(0.047)	1/6	.	hmmpanther:PTHR15446,hmmpanther:PTHR15446:SF16	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCGCCAGCG	.	4	BLCA
GLCCI1	0	.	GRCh37	7	8110599	8110599	+	Silent	SNP	C	C	A	rs751659031	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015C>A	p.%3D	p.R339R	ENST00000223145	6/8	88	65	22	93	93	0	GLCCI1,synonymous_variant,p.%3D,ENST00000430798,;GLCCI1,synonymous_variant,p.%3D,ENST00000223145,;GLCCI1,downstream_gene_variant,,ENST00000414914,;GLCCI1,non_coding_transcript_exon_variant,,ENST00000496617,;GLCCI1,downstream_gene_variant,,ENST00000474269,;GLCCI1,synonymous_variant,p.%3D,ENST00000438949,;GLCCI1,non_coding_transcript_exon_variant,,ENST00000482540,;GLCCI1,non_coding_transcript_exon_variant,,ENST00000489405,;	A	ENSG00000106415	ENST00000223145	Transcript	synonymous_variant	1572	1015	339	R	Cgg/Agg	rs751659031,COSM1313314	.	.	1	GLCCI1	HGNC	18713	protein_coding	YES	CCDS34601.1	ENSP00000223145	GLCI1_HUMAN	.	UPI00001907F7	.	.	.	6/8	.	hmmpanther:PTHR14972,hmmpanther:PTHR14972:SF3,Pfam_domain:PF15388	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTACCGGAGC	byFrequency	5	BLCA
SLC25A40	0	.	GRCh37	7	87476434	87476434	+	Missense_Mutation	SNP	C	C	A	rs767977602	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.461G>T	p.Gly154Val	p.G154V	ENST00000341119	8/12	238	115	123	177	177	0	SLC25A40,missense_variant,p.Gly154Val,ENST00000341119,;SLC25A40,3_prime_UTR_variant,,ENST00000429674,;SLC25A40,upstream_gene_variant,,ENST00000470328,;SLC25A40,upstream_gene_variant,,ENST00000446236,;	A	ENSG00000075303	ENST00000341119	Transcript	missense_variant	808	461	154	G/V	gGt/gTt	rs767977602,COSM1313367	.	.	-1	SLC25A40	HGNC	29680	protein_coding	YES	CCDS5610.1	ENSP00000344831	S2540_HUMAN	.	UPI0000071FF6	.	tolerated(0.54)	possibly_damaging(0.532)	8/12	.	PROSITE_profiles:PS50920,hmmpanther:PTHR24089:SF225,hmmpanther:PTHR24089,Pfam_domain:PF00153,Gene3D:1okcA00,Superfamily_domains:0048588,Prints_domain:PR00926	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCACCAACT	.	5	BLCA
TECPR1	0	.	GRCh37	7	97862830	97862830	+	Silent	SNP	C	C	G	rs371532016	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1575G>C	p.%3D	p.P525P	ENST00000447648	11/26	17	12	5	25	25	0	TECPR1,synonymous_variant,p.%3D,ENST00000447648,;TECPR1,synonymous_variant,p.%3D,ENST00000542604,;TECPR1,synonymous_variant,p.%3D,ENST00000379795,;TECPR1,non_coding_transcript_exon_variant,,ENST00000471397,;TECPR1,upstream_gene_variant,,ENST00000479975,;TECPR1,upstream_gene_variant,,ENST00000479911,;TECPR1,upstream_gene_variant,,ENST00000476659,;TECPR1,non_coding_transcript_exon_variant,,ENST00000490842,;TECPR1,downstream_gene_variant,,ENST00000463648,;TECPR1,upstream_gene_variant,,ENST00000483740,;	G	ENSG00000205356	ENST00000447648	Transcript	synonymous_variant	1875	1575	525	P	ccG/ccC	rs371532016,COSM1313456	.	.	-1	TECPR1	HGNC	22214	protein_coding	YES	CCDS47648.1	ENSP00000404923	TCPR1_HUMAN	C9JUV4_HUMAN	UPI0000161940	.	.	.	11/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23250,hmmpanther:PTHR23250:SF1	.	.	.	.	.	.	.	T:0.0003	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATACGGCTC	byFrequency|byCluster	5	BLCA
BAIAP2L1	0	.	GRCh37	7	97922840	97922840	+	Missense_Mutation	SNP	A	A	G	rs772784086	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1529T>C	p.Ile510Thr	p.I510T	ENST00000005260	14/14	307	113	194	349	349	0	BAIAP2L1,missense_variant,p.Ile510Thr,ENST00000005260,;BRI3,downstream_gene_variant,,ENST00000297290,;BRI3,downstream_gene_variant,,ENST00000539286,;BRI3,downstream_gene_variant,,ENST00000456357,;BRI3,downstream_gene_variant,,ENST00000473967,;BRI3,intron_variant,,ENST00000491463,;	G	ENSG00000006453	ENST00000005260	Transcript	missense_variant	1745	1529	510	I/T	aTt/aCt	rs772784086,COSM1313457	.	.	-1	BAIAP2L1	HGNC	21649	protein_coding	YES	CCDS34687.1	ENSP00000005260	BI2L1_HUMAN	.	UPI0000035DA9	.	deleterious(0)	possibly_damaging(0.848)	14/14	.	hmmpanther:PTHR14206,hmmpanther:PTHR14206:SF4	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCGAATGATG	.	5	BLCA
RSPO2	0	.	GRCh37	8	108972969	108972969	+	Silent	SNP	A	A	G	rs113070894	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.360T>C	p.%3D	p.H120H	ENST00000276659	4/6	87	52	34	50	50	0	RSPO2,synonymous_variant,p.%3D,ENST00000521757,;RSPO2,synonymous_variant,p.%3D,ENST00000276659,;RSPO2,synonymous_variant,p.%3D,ENST00000521502,;RSPO2,synonymous_variant,p.%3D,ENST00000517939,;RSPO2,synonymous_variant,p.%3D,ENST00000378439,;RSPO2,synonymous_variant,p.%3D,ENST00000521956,;RSPO2,synonymous_variant,p.%3D,ENST00000517781,;RSPO2,downstream_gene_variant,,ENST00000520026,;	G	ENSG00000147655	ENST00000276659	Transcript	synonymous_variant	981	360	120	H	caT/caC	rs113070894,COSM1313601	.	.	-1	RSPO2	HGNC	28583	protein_coding	YES	CCDS6307.1	ENSP00000276659	RSPO2_HUMAN	E5RJU7_HUMAN,E5RHC3_HUMAN,E5RH25_HUMAN,E5RGU9_HUMAN,B3KVP3_HUMAN	UPI000021046F	.	.	.	4/6	.	hmmpanther:PTHR23275,hmmpanther:PTHR23275:SF2,Gene3D:2.10.220.10,SMART_domains:SM00261,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTATGCAA	byCluster	5	BLCA
SLC30A8	0	.	GRCh37	8	118159254	118159254	+	Missense_Mutation	SNP	C	C	A	rs148043363	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133C>A	p.Leu45Met	p.L45M	ENST00000456015	2/8	146	102	43	134	134	0	SLC30A8,missense_variant,p.Leu45Met,ENST00000456015,;SLC30A8,5_prime_UTR_variant,,ENST00000427715,;SLC30A8,5_prime_UTR_variant,,ENST00000519688,;SLC30A8,5_prime_UTR_variant,,ENST00000521243,;SLC30A8,5_prime_UTR_variant,,ENST00000524274,;SLC30A8,downstream_gene_variant,,ENST00000521035,;SLC30A8,non_coding_transcript_exon_variant,,ENST00000520469,;SLC30A8,non_coding_transcript_exon_variant,,ENST00000518396,;SLC30A8,non_coding_transcript_exon_variant,,ENST00000518521,;	A	ENSG00000164756	ENST00000456015	Transcript	missense_variant	133	133	45	L/M	Ctg/Atg	rs148043363,COSM1313664	.	.	1	SLC30A8	HGNC	20303	protein_coding	YES	CCDS6322.1	ENSP00000415011	ZNT8_HUMAN	E5RG87_HUMAN	UPI00001B00D6	.	tolerated(0.09)	benign(0.352)	2/8	.	hmmpanther:PTHR11562:SF37,hmmpanther:PTHR11562	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0008	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGCTGGAG	byCluster|by1000G	5	BLCA
PARP10	0	.	GRCh37	8	145057980	145057980	+	Splice_Site	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1778-1G>A	.	p.X593_splice	ENST00000313028	.	51	41	10	37	37	0	PARP10,splice_acceptor_variant,,ENST00000313028,;PARP10,splice_acceptor_variant,,ENST00000524918,;PARP10,splice_acceptor_variant,,ENST00000525773,;PARP10,downstream_gene_variant,,ENST00000528914,;PARP10,downstream_gene_variant,,ENST00000525879,;PARP10,downstream_gene_variant,,ENST00000529842,;PARP10,downstream_gene_variant,,ENST00000529311,;PARP10,downstream_gene_variant,,ENST00000528625,;PARP10,downstream_gene_variant,,ENST00000532311,;PARP10,downstream_gene_variant,,ENST00000531537,;PARP10,downstream_gene_variant,,ENST00000313059,;PARP10,downstream_gene_variant,,ENST00000528136,;PARP10,downstream_gene_variant,,ENST00000531707,;PARP10,downstream_gene_variant,,ENST00000525486,;PARP10,downstream_gene_variant,,ENST00000530478,;PARP10,downstream_gene_variant,,ENST00000534737,;PARP10,downstream_gene_variant,,ENST00000532660,;PARP10,downstream_gene_variant,,ENST00000533665,;PARP10,splice_acceptor_variant,,ENST00000527262,;PARP10,non_coding_transcript_exon_variant,,ENST00000526007,;PARP10,downstream_gene_variant,,ENST00000526985,;PARP10,downstream_gene_variant,,ENST00000528580,;PARP10,downstream_gene_variant,,ENST00000528963,;	T	ENSG00000178685	ENST00000313028	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1313845	.	.	-1	PARP10	HGNC	25895	protein_coding	YES	CCDS34960.1	ENSP00000325618	PAR10_HUMAN	E9PSG8_HUMAN,E9PSE7_HUMAN,E9PQQ6_HUMAN,E9PPV8_HUMAN,E9PPU2_HUMAN,E9PM86_HUMAN,E9PLE8_HUMAN,E9PJI2_HUMAN,E9PIA6_HUMAN	UPI0000251FAB	.	.	.	.	7/10	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTGGGG	.	5	BLCA
SORBS3	0	.	GRCh37	8	22412401	22412401	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.128C>T	p.Ser43Phe	p.S43F	ENST00000240123	3/21	106	63	42	217	216	1	SORBS3,missense_variant,p.Ser43Phe,ENST00000240123,;SORBS3,missense_variant,p.Ser43Phe,ENST00000523402,;SORBS3,upstream_gene_variant,,ENST00000520563,;SORBS3,upstream_gene_variant,,ENST00000524057,;SORBS3,non_coding_transcript_exon_variant,,ENST00000523941,;SORBS3,intron_variant,,ENST00000522037,;SORBS3,missense_variant,p.Ser43Phe,ENST00000517500,;SORBS3,non_coding_transcript_exon_variant,,ENST00000517535,;	T	ENSG00000120896	ENST00000240123	Transcript	missense_variant	511	128	43	S/F	tCc/tTc	COSM1313926	.	.	1	SORBS3	HGNC	30907	protein_coding	YES	CCDS6031.1	ENSP00000240123	VINEX_HUMAN	E5RJP2_HUMAN,E5RIA0_HUMAN,E5RHI2_HUMAN,E5RH58_HUMAN	UPI00001AE6B5	.	deleterious(0)	probably_damaging(0.999)	3/21	.	hmmpanther:PTHR10661:SF68,hmmpanther:PTHR10661	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCCAACA	.	5	BLCA
SDCBP	0	.	GRCh37	8	59494365	59494365	+	3'UTR	SNP	A	A	G	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*66A>G	.	.	ENST00000260130	9/9	64	37	27	30	30	0	SDCBP,3_prime_UTR_variant,,ENST00000413219,;SDCBP,3_prime_UTR_variant,,ENST00000260130,;SDCBP,3_prime_UTR_variant,,ENST00000422546,;SDCBP,3_prime_UTR_variant,,ENST00000447182,;SDCBP,3_prime_UTR_variant,,ENST00000520168,;SDCBP,3_prime_UTR_variant,,ENST00000523483,;SDCBP,3_prime_UTR_variant,,ENST00000424270,;NSMAF,downstream_gene_variant,,ENST00000038176,;SDCBP,downstream_gene_variant,,ENST00000447267,;NSMAF,downstream_gene_variant,,ENST00000427130,;SDCBP,downstream_gene_variant,,ENST00000519115,;SDCBP,downstream_gene_variant,,ENST00000520228,;SDCBP,downstream_gene_variant,,ENST00000523441,;NSMAF,downstream_gene_variant,,ENST00000521972,;NSMAF,downstream_gene_variant,,ENST00000517612,;NSMAF,downstream_gene_variant,,ENST00000521712,;	G	ENSG00000137575	ENST00000260130	Transcript	3_prime_UTR_variant	1113	.	.	.	.	.	.	.	1	SDCBP	HGNC	10662	protein_coding	YES	CCDS6172.1	ENSP00000260130	SDCB1_HUMAN	.	UPI000013570E	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTATGCAC	.	5	BLCA
ZFHX4	0	.	GRCh37	8	77766952	77766952	+	Missense_Mutation	SNP	G	G	A	rs373737718	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7795G>A	p.Gly2599Ser	p.G2599S	ENST00000521891	10/11	43	31	12	32	32	0	ZFHX4,missense_variant,p.Gly2554Ser,ENST00000455469,;ZFHX4,missense_variant,p.Gly2573Ser,ENST00000518282,;ZFHX4,missense_variant,p.Gly2554Ser,ENST00000050961,;ZFHX4,missense_variant,p.Gly2599Ser,ENST00000521891,;ZFHX4,downstream_gene_variant,,ENST00000522409,;	A	ENSG00000091656	ENST00000521891	Transcript	missense_variant	8243	7795	2599	G/S	Ggt/Agt	rs373737718,COSM1314210	.	.	1	ZFHX4	HGNC	30939	protein_coding	YES	CCDS47878.2	ENSP00000430497	.	Q9H7F3_HUMAN,Q86WW5_HUMAN,Q6DK57_HUMAN,G3V138_HUMAN,E5RI93_HUMAN,E5RHS1_HUMAN,E5RGK3_HUMAN,E5RG79_HUMAN	UPI0000424CC7	.	.	probably_damaging(0.997)	10/11	.	hmmpanther:PTHR24208:SF40,hmmpanther:PTHR24208,Gene3D:1.10.10.60,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGCGGTGAA	byCluster	5	BLCA
STK3	0	.	GRCh37	8	99468111	99468111	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1519G>C	p.Asp507His	p.D507H	ENST00000523601	13/13	51	28	22	23	23	0	STK3,missense_variant,p.Asp507His,ENST00000523601,;STK3,missense_variant,p.Asp479His,ENST00000419617,;STK3,intron_variant,,ENST00000517832,;	G	ENSG00000104375	ENST00000523601	Transcript	missense_variant	1919	1519	507	D/H	Gat/Cat	COSM1314297	.	.	-1	STK3	HGNC	11406	protein_coding	YES	CCDS59108.1	ENSP00000429744	.	B3KYA7_HUMAN	UPI00004FB517	.	deleterious(0)	probably_damaging(0.979)	13/13	.	Pfam_domain:PF11629,hmmpanther:PTHR24361:SF247,hmmpanther:PTHR24361,PROSITE_profiles:PS50951	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCATCCAGAA	.	5	BLCA
ABL1	0	.	GRCh37	9	133729585	133729585	+	Missense_Mutation	SNP	T	T	G	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271T>G	p.Phe91Val	p.F91V	ENST00000372348	2/11	100	96	4	216	216	0	ABL1,missense_variant,p.Phe72Val,ENST00000318560,;ABL1,missense_variant,p.Phe91Val,ENST00000372348,;ABL1,downstream_gene_variant,,ENST00000393293,;	G	ENSG00000097007	ENST00000372348	Transcript	missense_variant	645	271	91	F/V	Ttt/Gtt	COSM1105995,COSM1598096,COSM1598095	.	.	1	ABL1	HGNC	76	protein_coding	YES	CCDS35165.1	ENSP00000361423	ABL1_HUMAN	Q59FK4_HUMAN	UPI000013E4DE	.	deleterious(0)	probably_damaging(0.999)	2/11	.	PROSITE_profiles:PS50002,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF87,Gene3D:2.30.30.40,Pfam_domain:PF00018,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F72V|c.214T>G|3	MUTECT|MUSE	ATGATTTTGTG	.	2	BLCA
CDKN2A	0	.	GRCh37	9	21971120	21971120	+	Nonsense_Mutation	SNP	G	G	A	rs121913388	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238C>T	p.Arg80Ter	p.R80*	ENST00000498124	2/4	16	2	13	55	55	0	CDKN2A,stop_gained,p.Arg29Ter,ENST00000578845,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000494262,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000498628,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000446177,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000304494,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000498124,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000479692,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000579122,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000497750,;CDKN2A,missense_variant,p.Pro94Leu,ENST00000579755,;CDKN2A,missense_variant,p.Pro94Leu,ENST00000530628,;CDKN2A,missense_variant,p.Pro135Leu,ENST00000361570,;C9orf53,downstream_gene_variant,,ENST00000441769,;CDKN2A,non_coding_transcript_exon_variant,,ENST00000380150,;CDKN2A,upstream_gene_variant,,ENST00000577854,;CDKN2A,3_prime_UTR_variant,,ENST00000380151,;RP11-145E5.5,intron_variant,,ENST00000404796,;	A	ENSG00000147889	ENST00000498124	Transcript	stop_gained	277	238	80	R/*	Cga/Tga	CM014695,rs121913388,COSM12475,COSM99935,COSM99191,COSM1314729	.	.	-1	CDKN2A	HGNC	1787	protein_coding	YES	CCDS56565.1	ENSP00000418915	CD2A1_HUMAN	Q9UPB7_HUMAN	UPI0001565711	.	.	.	2/4	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24144:SF30,hmmpanther:PTHR24144,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	not_provided,risk_factor	0,1,1,1,1,1	21499247	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R80*|c.238C>T|116,SITE|p.P135L|c.404C>T|29,SITE|p.R80*|c.238C>T|14,SITE|p.R80*|c.238C>T|31,CODON|p.0?|c.1_471del471|15,CODON|p.R80*|c.237_238CC>TT|10,CODON|p.R80Q|c.239G>A|3,BUFFER|p.H83R|c.248A>G|3,BUFFER|p.H83Y|c.247C>T|5,BUFFER|p.H83Y|c.247C>T|6,BUFFER|p.A138V|c.413C>T|6,BUFFER|p.H83Y|c.247C>T|39,BUFFER|p.V82M|c.244G>A|3,BUFFER|p.P81L|c.242C>T|9,BUFFER|p.L78fs*41|c.233_234delTC|6,BUFFER|p.L78fs*41|c.231_232delTC|5,BUFFER|p.A76V|c.227C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTCGGGTGA	byCluster	5	BLCA
ZCCHC6	0	.	GRCh37	9	88937354	88937354	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2914G>T	p.Gly972Cys	p.G972C	ENST00000375963	14/27	58	42	16	62	62	0	ZCCHC6,missense_variant,p.Gly972Cys,ENST00000375961,;ZCCHC6,missense_variant,p.Gly261Cys,ENST00000277141,;ZCCHC6,missense_variant,p.Gly972Cys,ENST00000375963,;ZCCHC6,intron_variant,,ENST00000375960,;ZCCHC6,upstream_gene_variant,,ENST00000375957,;ZCCHC6,downstream_gene_variant,,ENST00000469004,;	A	ENSG00000083223	ENST00000375963	Transcript	missense_variant	3087	2914	972	G/C	Ggt/Tgt	COSM1314997	.	.	-1	ZCCHC6	HGNC	25817	protein_coding	YES	CCDS35057.1	ENSP00000365130	TUT7_HUMAN	.	UPI00004588F6	.	deleterious(0)	probably_damaging(1)	14/27	.	PROSITE_profiles:PS50158,hmmpanther:PTHR12271:SF34,hmmpanther:PTHR12271,Gene3D:4.10.60.10,Pfam_domain:PF00098,SMART_domains:SM00343,Superfamily_domains:SSF57756	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACCCTCTC	.	5	BLCA
DAPK1	0	.	GRCh37	9	90262309	90262309	+	Silent	SNP	G	G	T	.	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1320G>T	p.%3D	p.V440V	ENST00000408954	14/26	64	47	16	111	111	0	DAPK1,synonymous_variant,p.%3D,ENST00000358077,;DAPK1,synonymous_variant,p.%3D,ENST00000491893,;DAPK1,synonymous_variant,p.%3D,ENST00000408954,;DAPK1,synonymous_variant,p.%3D,ENST00000469640,;DAPK1,synonymous_variant,p.%3D,ENST00000472284,;DAPK1,upstream_gene_variant,,ENST00000494010,;DAPK1,upstream_gene_variant,,ENST00000495281,;DAPK1,3_prime_UTR_variant,,ENST00000489291,;DAPK1,non_coding_transcript_exon_variant,,ENST00000469067,;DAPK1,upstream_gene_variant,,ENST00000475804,;	T	ENSG00000196730	ENST00000408954	Transcript	synonymous_variant	1655	1320	440	V	gtG/gtT	COSM1315002,COSM1315001	.	.	1	DAPK1	HGNC	2674	protein_coding	YES	CCDS43842.1	ENSP00000386135	DAPK1_HUMAN	.	UPI0000210C2F	.	.	.	14/26	.	Superfamily_domains:SSF48403,SMART_domains:SM00248,Gene3D:1.25.40.20,Pfam_domain:PF12796,hmmpanther:PTHR22964:SF54,hmmpanther:PTHR22964,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGTGAAAGA	.	5	BLCA
CKS2	0	.	GRCh37	9	91926143	91926143	+	5'UTR	SNP	C	C	T	rs563127195	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-65C>T	.	.	ENST00000314355	1/3	29	22	7	25	25	0	CKS2,5_prime_UTR_variant,,ENST00000314355,;MIR3153,upstream_gene_variant,,ENST00000580744,;	T	ENSG00000123975	ENST00000314355	Transcript	5_prime_UTR_variant	31	.	.	.	.	rs563127195	.	.	1	CKS2	HGNC	2000	protein_coding	YES	CCDS6682.1	ENSP00000364976	CKS2_HUMAN	.	UPI0000048D60	.	.	.	1/3	.	.	G:0.0010	G:0	G:0	.	G:0.003	G:0	G:0.002	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGACGTGGT	byFrequency|by1000G	5	BLCA
ZCCHC18	0	.	GRCh37	X	103359015	103359015	+	Silent	SNP	C	C	T	novel	.	TCGA-GD-A3OS-01A-12D-A21Z-08	TCGA-GD-A3OS-10A-01D-A21Z-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>T	p.%3D	p.V71V	ENST00000537356	2/2	33	7	25	29	29	0	ZCCHC18,synonymous_variant,p.%3D,ENST00000537356,;SLC25A53,intron_variant,,ENST00000357421,;ZCCHC18,intron_variant,,ENST00000422784,;ZCCHC18,downstream_gene_variant,,ENST00000603049,;ZCCHC18,downstream_gene_variant,,ENST00000605784,;ZCCHC18,downstream_gene_variant,,ENST00000423478,;	T	ENSG00000166707	ENST00000537356	Transcript	synonymous_variant	1627	213	71	V	gtC/gtT	.	.	.	1	ZCCHC18	HGNC	32459	protein_coding	YES	CCDS65304.1	ENSP00000473824	ZCC18_HUMAN	.	UPI0000072244	.	.	.	2/2	.	hmmpanther:PTHR23095:SF18,hmmpanther:PTHR23095,Pfam_domain:PF14893	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTCCTGCC	.	5	BLCA
DNMBP	0	.	GRCh37	10	101715193	101715193	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2038C>G	p.His680Asp	p.H680D	ENST00000324109	4/17	33	23	10	33	33	0	DNMBP,missense_variant,p.His680Asp,ENST00000324109,;DNMBP,missense_variant,p.His680Asp,ENST00000342239,;DNMBP-AS1,intron_variant,,ENST00000434409,;	C	ENSG00000107554	ENST00000324109	Transcript	missense_variant	2130	2038	680	H/D	Cat/Gat	.	.	.	-1	DNMBP	HGNC	30373	protein_coding	YES	CCDS7485.1	ENSP00000315659	DNMBP_HUMAN	B4E0Q3_HUMAN	UPI000013D6C9	.	tolerated_low_confidence(0.45)	benign(0.001)	4/17	.	hmmpanther:PTHR22834:SF19,hmmpanther:PTHR22834	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATATGACCAG	.	5	BLCA
CPN1	0	.	GRCh37	10	101823405	101823405	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837C>T	p.%3D	p.I279I	ENST00000370418	5/9	53	47	6	65	65	0	CPN1,synonymous_variant,p.%3D,ENST00000370418,;CPN1,synonymous_variant,p.%3D,ENST00000441382,;	A	ENSG00000120054	ENST00000370418	Transcript	synonymous_variant	1089	837	279	I	atC/atT	.	.	.	-1	CPN1	HGNC	2312	protein_coding	YES	CCDS7486.1	ENSP00000359446	CBPN_HUMAN	B1AP59_HUMAN,B1AP58_HUMAN	UPI00000012AC	.	.	.	5/9	.	hmmpanther:PTHR11532:SF7,hmmpanther:PTHR11532,Pfam_domain:PF00246,Gene3D:3.40.630.10,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGTGATGCC	.	4	BLCA
FGF8	0	.	GRCh37	10	103530308	103530308	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513G>A	p.%3D	p.Q171Q	ENST00000320185	6/6	45	32	13	29	29	0	FGF8,synonymous_variant,p.%3D,ENST00000344255,;FGF8,synonymous_variant,p.%3D,ENST00000346714,;FGF8,synonymous_variant,p.%3D,ENST00000347978,;FGF8,synonymous_variant,p.%3D,ENST00000320185,;FGF8,non_coding_transcript_exon_variant,,ENST00000485728,;FGF8,3_prime_UTR_variant,,ENST00000469792,;	T	ENSG00000107831	ENST00000320185	Transcript	synonymous_variant	572	513	171	Q	caG/caA	.	.	.	-1	FGF8	HGNC	3686	protein_coding	YES	CCDS7516.1	ENSP00000321797	FGF8_HUMAN	.	UPI000002A991	.	.	.	6/6	.	Prints_domain:PR00262,Superfamily_domains:SSF50353,SMART_domains:SM00442,Pfam_domain:PF00167,Gene3D:2.80.10.50,hmmpanther:PTHR11486:SF3,hmmpanther:PTHR11486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTCTGCAG	.	5	BLCA
NPM3	0	.	GRCh37	10	103543112	103543112	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36G>C	p.Leu12Phe	p.L12F	ENST00000370110	1/6	26	22	4	21	21	0	NPM3,missense_variant,p.Leu12Phe,ENST00000370110,;MGEA5,downstream_gene_variant,,ENST00000439817,;MGEA5,downstream_gene_variant,,ENST00000357797,;MGEA5,downstream_gene_variant,,ENST00000361464,;NPM3,non_coding_transcript_exon_variant,,ENST00000474993,;NPM3,non_coding_transcript_exon_variant,,ENST00000462391,;MGEA5,downstream_gene_variant,,ENST00000462994,;NPM3,upstream_gene_variant,,ENST00000468544,;MGEA5,downstream_gene_variant,,ENST00000461645,;MGEA5,downstream_gene_variant,,ENST00000479811,;MGEA5,downstream_gene_variant,,ENST00000494347,;MGEA5,downstream_gene_variant,,ENST00000482611,;	G	ENSG00000107833	ENST00000370110	Transcript	missense_variant	59	36	12	L/F	ttG/ttC	.	.	.	-1	NPM3	HGNC	7931	protein_coding	YES	CCDS7519.1	ENSP00000359128	NPM3_HUMAN	.	UPI00001303EB	.	tolerated_low_confidence(0.1)	benign(0.003)	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGACTCAAAAA	.	2	BLCA
ACBD5	0	.	GRCh37	10	27508685	27508685	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592G>A	p.Glu198Lys	p.E198K	ENST00000396271	6/13	85	78	7	71	71	0	ACBD5,missense_variant,p.Glu163Lys,ENST00000375905,;ACBD5,missense_variant,p.Glu89Lys,ENST00000375897,;ACBD5,missense_variant,p.Glu89Lys,ENST00000375901,;ACBD5,missense_variant,p.Glu174Lys,ENST00000412279,;ACBD5,missense_variant,p.Glu216Lys,ENST00000426079,;ACBD5,missense_variant,p.Glu207Lys,ENST00000375888,;ACBD5,missense_variant,p.Glu198Lys,ENST00000396271,;ACBD5,non_coding_transcript_exon_variant,,ENST00000476758,;	T	ENSG00000107897	ENST00000396271	Transcript	missense_variant	719	592	198	E/K	Gaa/Aaa	.	.	.	-1	ACBD5	HGNC	23338	protein_coding	YES	CCDS44368.1	ENSP00000379568	ACBD5_HUMAN	.	UPI000046FE2B	.	tolerated(0.06)	possibly_damaging(0.894)	6/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23310,hmmpanther:PTHR23310:SF6,PIRSF_domain:PIRSF002412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCTTCTTGGG	.	3	BLCA
PARD3	0	.	GRCh37	10	34671617	34671617	+	Missense_Mutation	SNP	G	G	C	rs115076370	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1250C>G	p.Ser417Cys	p.S417C	ENST00000374789	9/25	85	69	15	60	60	0	PARD3,missense_variant,p.Ser373Cys,ENST00000545260,;PARD3,missense_variant,p.Ser417Cys,ENST00000545693,;PARD3,missense_variant,p.Ser417Cys,ENST00000374788,;PARD3,missense_variant,p.Ser147Cys,ENST00000544292,;PARD3,missense_variant,p.Ser417Cys,ENST00000340077,;PARD3,missense_variant,p.Ser373Cys,ENST00000374790,;PARD3,missense_variant,p.Ser417Cys,ENST00000374776,;PARD3,missense_variant,p.Ser417Cys,ENST00000374773,;PARD3,missense_variant,p.Ser373Cys,ENST00000374794,;PARD3,missense_variant,p.Ser417Cys,ENST00000350537,;PARD3,missense_variant,p.Ser417Cys,ENST00000374789,;PARD3,missense_variant,p.Ser417Cys,ENST00000346874,;	C	ENSG00000148498	ENST00000374789	Transcript	missense_variant	1576	1250	417	S/C	tCt/tGt	rs115076370	.	.	-1	PARD3	HGNC	16051	protein_coding	YES	CCDS7178.1	ENSP00000363921	PARD3_HUMAN	.	UPI0000073A9F	.	deleterious(0.01)	benign(0.246)	9/25	.	hmmpanther:PTHR16484:SF10,hmmpanther:PTHR16484	A:0.0016	A:0.0061	A:0	.	A:0	A:0	A:0	A:0.005	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTGAGAGTCT	byFrequency|byCluster|by1000G	5	BLCA
MYPN	0	.	GRCh37	10	69954213	69954213	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3019G>C	p.Glu1007Gln	p.E1007Q	ENST00000358913	14/20	29	26	3	23	23	0	MYPN,missense_variant,p.Glu1007Gln,ENST00000358913,;MYPN,missense_variant,p.Glu1007Gln,ENST00000540630,;MYPN,missense_variant,p.Glu732Gln,ENST00000354393,;	C	ENSG00000138347	ENST00000358913	Transcript	missense_variant	3507	3019	1007	E/Q	Gaa/Caa	.	.	.	1	MYPN	HGNC	23246	protein_coding	YES	CCDS7275.1	ENSP00000351790	MYPN_HUMAN	A5PKT7_HUMAN	UPI00002288CF	.	tolerated(0.25)	possibly_damaging(0.799)	14/20	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00408,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR19897,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ACATTGAATCC	.	2	BLCA
MUC5B	0	.	GRCh37	11	1264097	1264097	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5987C>T	p.Ser1996Leu	p.S1996L	ENST00000529681	31/49	125	77	48	169	169	0	MUC5B,missense_variant,p.Ser1996Leu,ENST00000529681,;MUC5B,missense_variant,p.Ser1999Leu,ENST00000447027,;RP11-532E4.2,intron_variant,,ENST00000532061,;MUC5B,downstream_gene_variant,,ENST00000525715,;	T	ENSG00000117983	ENST00000529681	Transcript	missense_variant	6045	5987	1996	S/L	tCa/tTa	.	.	.	1	MUC5B	HGNC	7516	protein_coding	YES	CCDS44515.2	ENSP00000436812	MUC5B_HUMAN	Q93043_HUMAN	UPI0001DD21C7	.	.	unknown(0)	31/49	.	hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTATCACAGA	.	5	BLCA
MYOD1	0	.	GRCh37	11	17741293	17741293	+	5'UTR	SNP	G	G	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-37G>T	.	.	ENST00000250003	1/3	43	39	4	39	39	0	MYOD1,5_prime_UTR_variant,,ENST00000250003,;	T	ENSG00000129152	ENST00000250003	Transcript	5_prime_UTR_variant	179	.	.	.	.	.	.	.	1	MYOD1	HGNC	7611	protein_coding	YES	CCDS7826.1	ENSP00000250003	MYOD1_HUMAN	.	UPI000007280C	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGTTGGGCGA	.	3	BLCA
ANO5	0	.	GRCh37	11	22242730	22242730	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268G>A	p.Val90Ile	p.V90I	ENST00000324559	5/22	21	12	9	24	24	0	ANO5,missense_variant,p.Val90Ile,ENST00000324559,;	A	ENSG00000171714	ENST00000324559	Transcript	missense_variant	585	268	90	V/I	Gta/Ata	.	.	.	1	ANO5	HGNC	27337	protein_coding	YES	CCDS31444.1	ENSP00000315371	ANO5_HUMAN	.	UPI000035B19B	.	tolerated(0.2)	benign(0.001)	5/22	.	hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATGTAAAG	.	5	BLCA
TTC17	0	.	GRCh37	11	43429035	43429035	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1972C>G	p.Leu658Val	p.L658V	ENST00000039989	15/24	32	19	13	30	30	0	TTC17,missense_variant,p.Leu658Val,ENST00000039989,;TTC17,missense_variant,p.Leu658Val,ENST00000299240,;TTC17,non_coding_transcript_exon_variant,,ENST00000526774,;TTC17,downstream_gene_variant,,ENST00000530483,;	G	ENSG00000052841	ENST00000039989	Transcript	missense_variant	1986	1972	658	L/V	Ctt/Gtt	.	.	.	1	TTC17	HGNC	25596	protein_coding	YES	CCDS31466.1	ENSP00000039989	TTC17_HUMAN	.	UPI000006E6C7	.	deleterious(0)	probably_damaging(0.993)	15/24	.	PROSITE_profiles:PS50293,hmmpanther:PTHR16091,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTTGTC	.	5	BLCA
OR52B6	0	.	GRCh37	11	5602241	5602241	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135C>G	p.Ile45Met	p.I45M	ENST00000345043	1/1	43	24	19	45	45	0	OR52B6,missense_variant,p.Ile45Met,ENST00000345043,;HBG2,intron_variant,,ENST00000380259,;AC015691.13,intron_variant,,ENST00000394793,;	G	ENSG00000187747	ENST00000345043	Transcript	missense_variant	135	135	45	I/M	atC/atG	.	.	.	1	OR52B6	HGNC	15211	protein_coding	YES	CCDS41611.1	ENSP00000341581	O52B6_HUMAN	.	UPI0000140EA9	.	tolerated(0.19)	benign(0.009)	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26450,hmmpanther:PTHR26450:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATATCTGGCT	.	5	BLCA
MRPL17	0	.	GRCh37	11	6704519	6704519	+	Silent	SNP	C	C	T	rs766093779	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9G>A	p.%3D	p.L3L	ENST00000288937	1/3	13	4	9	20	20	0	MRPL17,synonymous_variant,p.%3D,ENST00000532203,;MRPL17,synonymous_variant,p.%3D,ENST00000288937,;MRPL17,upstream_gene_variant,,ENST00000532676,;MRPL17,non_coding_transcript_exon_variant,,ENST00000529958,;RP11-732A19.1,downstream_gene_variant,,ENST00000464563,;	T	ENSG00000158042	ENST00000288937	Transcript	synonymous_variant	114	9	3	L	ctG/ctA	rs766093779	.	.	-1	MRPL17	HGNC	14053	protein_coding	YES	CCDS31412.1	ENSP00000288937	RM17_HUMAN	.	UPI0000070867	.	.	.	1/3	.	hmmpanther:PTHR14413	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	ACCGACAGCCG	.	4	BLCA
SUV420H1	0	.	GRCh37	11	67957391	67957391	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153G>A	p.%3D	p.S51S	ENST00000304363	2/11	172	106	66	220	220	0	SUV420H1,synonymous_variant,p.%3D,ENST00000434573,;SUV420H1,synonymous_variant,p.%3D,ENST00000402789,;SUV420H1,synonymous_variant,p.%3D,ENST00000405515,;SUV420H1,synonymous_variant,p.%3D,ENST00000304363,;SUV420H1,synonymous_variant,p.%3D,ENST00000402185,;SUV420H1,synonymous_variant,p.%3D,ENST00000401547,;SUV420H1,intron_variant,,ENST00000458496,;SUV420H1,intron_variant,,ENST00000453170,;SUV420H1,synonymous_variant,p.%3D,ENST00000427752,;SUV420H1,synonymous_variant,p.%3D,ENST00000441488,;SUV420H1,non_coding_transcript_exon_variant,,ENST00000466295,;	T	ENSG00000110066	ENST00000304363	Transcript	synonymous_variant	507	153	51	S	tcG/tcA	.	.	.	-1	SUV420H1	HGNC	24283	protein_coding	YES	CCDS31623.1	ENSP00000305899	SV421_HUMAN	E9PKD9_HUMAN,C9JP58_HUMAN,C9JFG1_HUMAN,C9J6S5_HUMAN	UPI00001FADE7	.	.	.	2/11	.	PROSITE_profiles:PS51570,hmmpanther:PTHR12977,hmmpanther:PTHR12977:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTCGACCT	.	5	BLCA
SYT9	0	.	GRCh37	11	7437293	7437293	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1065G>C	p.Glu355Asp	p.E355D	ENST00000318881	4/7	66	49	16	77	77	0	SYT9,missense_variant,p.Glu355Asp,ENST00000318881,;SYT9,missense_variant,p.Ser173Thr,ENST00000532592,;SYT9,3_prime_UTR_variant,,ENST00000524820,;	C	ENSG00000170743	ENST00000318881	Transcript	missense_variant	1302	1065	355	E/D	gaG/gaC	.	.	.	1	SYT9	HGNC	19265	protein_coding	YES	CCDS7778.1	ENSP00000324419	SYT9_HUMAN	.	UPI000000DB7B	.	tolerated(0.15)	benign(0.001)	4/7	.	Superfamily_domains:SSF49562,Gene3D:2.60.40.150,hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF174	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGCTGAT	.	5	BLCA
RPH3A	0	.	GRCh37	12	113266187	113266187	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.64C>T	p.Gln22Ter	p.Q22*	ENST00000389385	3/22	70	54	16	65	65	0	RPH3A,stop_gained,p.Gln22Ter,ENST00000547686,;RPH3A,stop_gained,p.Gln22Ter,ENST00000546703,;RPH3A,stop_gained,p.Gln22Ter,ENST00000552667,;RPH3A,stop_gained,p.Gln22Ter,ENST00000415485,;RPH3A,stop_gained,p.Gln22Ter,ENST00000551052,;RPH3A,stop_gained,p.Gln22Ter,ENST00000548197,;RPH3A,stop_gained,p.Gln22Ter,ENST00000543106,;RPH3A,stop_gained,p.Gln22Ter,ENST00000551593,;RPH3A,stop_gained,p.Gln22Ter,ENST00000549736,;RPH3A,stop_gained,p.Gln22Ter,ENST00000447659,;RPH3A,stop_gained,p.Gln22Ter,ENST00000547840,;RPH3A,stop_gained,p.Gln22Ter,ENST00000548866,;RPH3A,stop_gained,p.Gln22Ter,ENST00000549769,;RPH3A,stop_gained,p.Gln22Ter,ENST00000420983,;RPH3A,stop_gained,p.Gln22Ter,ENST00000551748,;RPH3A,stop_gained,p.Gln22Ter,ENST00000551198,;RPH3A,stop_gained,p.Gln22Ter,ENST00000547728,;RPH3A,stop_gained,p.Gln22Ter,ENST00000553114,;RPH3A,stop_gained,p.Gln22Ter,ENST00000389385,;RPH3A,intron_variant,,ENST00000550901,;RPH3A,downstream_gene_variant,,ENST00000546426,;RPH3A,non_coding_transcript_exon_variant,,ENST00000552679,;RPH3A,stop_gained,p.Gln22Ter,ENST00000547099,;	T	ENSG00000089169	ENST00000389385	Transcript	stop_gained	561	64	22	Q/*	Caa/Taa	.	.	.	1	RPH3A	HGNC	17056	protein_coding	YES	CCDS44979.1	ENSP00000374036	RP3A_HUMAN	F8W1K7_HUMAN,F8W1A3_HUMAN,F8W131_HUMAN,F8W116_HUMAN,F8VZS2_HUMAN,F8VVK8_HUMAN,F8VV58_HUMAN,F8VTR7_HUMAN,F8VR41_HUMAN,F8VNW3_HUMAN,F8VNU2_HUMAN,F8VNP7_HUMAN	UPI000013456D	.	.	.	3/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCAATCA	.	5	BLCA
PITPNM2	0	.	GRCh37	12	123479416	123479417	+	In_Frame_Ins	INS	-	-	GGG	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2164_2165insCCC	p.Asp721_Leu722insPro	p.D721_L722insP	ENST00000320201	14/25	35	29	6	25	25	0	PITPNM2,inframe_insertion,p.Asp721_Leu722insPro,ENST00000542749,;PITPNM2,inframe_insertion,p.Asp721_Leu722insPro,ENST00000280562,;PITPNM2,inframe_insertion,p.Asp442_Leu443insPro,ENST00000392428,;PITPNM2,inframe_insertion,p.Asp721_Leu722insPro,ENST00000320201,;PITPNM2,downstream_gene_variant,,ENST00000436074,;	GGG	ENSG00000090975	ENST00000320201	Transcript	inframe_insertion	2303-2304	2164-2165	722	L/PL	ctc/cCCCtc	.	.	.	-1	PITPNM2	HGNC	21044	protein_coding	YES	CCDS9242.1	ENSP00000322218	PITM2_HUMAN	Q9UF51_HUMAN,F5H664_HUMAN	UPI0000070D27	.	.	.	14/25	.	Pfam_domain:PF02862,hmmpanther:PTHR10658,hmmpanther:PTHR10658:SF41,PROSITE_profiles:PS51043	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T720A|c.2158A>G|3	VARSCANI*|PINDEL	GGAAGAGGTCG	.	2	BLCA
LRTM2	0	.	GRCh37	12	1943874	1943874	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1100C>G	p.Ser367Cys	p.S367C	ENST00000543818	5/5	36	27	8	30	30	0	LRTM2,missense_variant,p.Ser367Cys,ENST00000535041,;LRTM2,missense_variant,p.Ser367Cys,ENST00000543818,;LRTM2,missense_variant,p.Ser367Cys,ENST00000299194,;CACNA2D4,intron_variant,,ENST00000585732,;CACNA2D4,intron_variant,,ENST00000587995,;CACNA2D4,intron_variant,,ENST00000586184,;CACNA2D4,intron_variant,,ENST00000382722,;CACNA2D4,intron_variant,,ENST00000588077,;CACNA2D4,intron_variant,,ENST00000585708,;LRTM2,downstream_gene_variant,,ENST00000546167,;LRTM2,downstream_gene_variant,,ENST00000543694,;LRTM2,non_coding_transcript_exon_variant,,ENST00000543730,;LRTM2,downstream_gene_variant,,ENST00000546157,;LRTM2,downstream_gene_variant,,ENST00000540378,;LRTM2,downstream_gene_variant,,ENST00000544489,;CACNA2D4,intron_variant,,ENST00000444595,;CACNA2D4,intron_variant,,ENST00000280663,;CACNA2D4,intron_variant,,ENST00000537784,;	G	ENSG00000166159	ENST00000543818	Transcript	missense_variant	1942	1100	367	S/C	tCt/tGt	.	.	.	1	LRTM2	HGNC	32443	protein_coding	YES	CCDS31726.1	ENSP00000446278	LRTM2_HUMAN	F5H2B4_HUMAN,F5GZY9_HUMAN	UPI00000714D3	.	deleterious(0)	benign(0.079)	5/5	.	hmmpanther:PTHR24373:SF103,hmmpanther:PTHR24373	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCTTCTG	.	5	BLCA
ETNK1	0	.	GRCh37	12	22826480	22826480	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1098G>A	p.%3D	p.Q366Q	ENST00000266517	6/8	66	47	19	45	45	0	ETNK1,synonymous_variant,p.%3D,ENST00000538218,;ETNK1,synonymous_variant,p.%3D,ENST00000266517,;ETNK1,non_coding_transcript_exon_variant,,ENST00000544191,;	A	ENSG00000139163	ENST00000266517	Transcript	synonymous_variant	1187	1098	366	Q	caG/caA	.	.	.	1	ETNK1	HGNC	24649	protein_coding	YES	CCDS8698.1	ENSP00000266517	EKI1_HUMAN	.	UPI0000129E2F	.	.	.	6/8	.	hmmpanther:PTHR22603:SF22,hmmpanther:PTHR22603,Gene3D:3.90.1200.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACAGAGTCA	.	5	BLCA
C12orf71	0	.	GRCh37	12	27234163	27234163	+	Missense_Mutation	SNP	G	G	A	rs566039967	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.754C>T	p.His252Tyr	p.H252Y	ENST00000429849	2/2	45	42	3	44	44	0	C12orf71,missense_variant,p.His252Tyr,ENST00000429849,;	A	ENSG00000214700	ENST00000429849	Transcript	missense_variant	785	754	252	H/Y	Cac/Tac	rs566039967	.	.	-1	C12orf71	HGNC	34452	protein_coding	YES	CCDS44851.1	ENSP00000413728	CL071_HUMAN	.	UPI00001D79FA	.	tolerated(1)	benign(0.056)	2/2	.	Pfam_domain:PF15480	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGTGAAAGA	byCluster|by1000G	2	BLCA
PRICKLE1	0	.	GRCh37	12	42866199	42866199	+	Silent	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120G>C	p.%3D	p.L40L	ENST00000455697	2/8	22	9	13	35	35	0	PRICKLE1,synonymous_variant,p.%3D,ENST00000547113,;PRICKLE1,synonymous_variant,p.%3D,ENST00000345127,;PRICKLE1,synonymous_variant,p.%3D,ENST00000551050,;PRICKLE1,synonymous_variant,p.%3D,ENST00000455697,;PRICKLE1,synonymous_variant,p.%3D,ENST00000445766,;PRICKLE1,synonymous_variant,p.%3D,ENST00000552240,;PRICKLE1,synonymous_variant,p.%3D,ENST00000552108,;PRICKLE1,synonymous_variant,p.%3D,ENST00000548696,;	G	ENSG00000139174	ENST00000455697	Transcript	synonymous_variant	406	120	40	L	ctG/ctC	.	.	.	-1	PRICKLE1	HGNC	17019	protein_coding	YES	CCDS8742.1	ENSP00000401060	PRIC1_HUMAN	Q687H4_HUMAN,Q687H3_HUMAN,F8W1Q8_HUMAN,F8W1J1_HUMAN,F8VUG8_HUMAN	UPI000013D6F5	.	.	.	2/8	.	PROSITE_profiles:PS51303,hmmpanther:PTHR24211,hmmpanther:PTHR24211:SF14,Pfam_domain:PF06297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTCAGGCC	.	5	BLCA
DDX23	0	.	GRCh37	12	49227194	49227194	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1669A>G	p.Met557Val	p.M557V	ENST00000308025	13/17	83	68	15	52	52	0	DDX23,missense_variant,p.Met557Val,ENST00000308025,;DDX23,intron_variant,,ENST00000550834,;DDX23,downstream_gene_variant,,ENST00000552512,;CACNB3,downstream_gene_variant,,ENST00000301050,;CACNB3,downstream_gene_variant,,ENST00000550190,;CACNB3,downstream_gene_variant,,ENST00000547230,;DDX23,downstream_gene_variant,,ENST00000553182,;DDX23,3_prime_UTR_variant,,ENST00000552802,;DDX23,non_coding_transcript_exon_variant,,ENST00000547290,;DDX23,non_coding_transcript_exon_variant,,ENST00000553065,;DDX23,upstream_gene_variant,,ENST00000551331,;DDX23,downstream_gene_variant,,ENST00000551098,;DDX23,downstream_gene_variant,,ENST00000551189,;DDX23,upstream_gene_variant,,ENST00000547842,;DDX23,downstream_gene_variant,,ENST00000552069,;DDX23,downstream_gene_variant,,ENST00000547135,;CACNB3,downstream_gene_variant,,ENST00000548860,;DDX23,downstream_gene_variant,,ENST00000547165,;CACNB3,downstream_gene_variant,,ENST00000551544,;DDX23,upstream_gene_variant,,ENST00000549795,;	C	ENSG00000174243	ENST00000308025	Transcript	missense_variant	1749	1669	557	M/V	Atg/Gtg	.	.	.	-1	DDX23	HGNC	17347	protein_coding	YES	CCDS8770.1	ENSP00000310723	DDX23_HUMAN	F8W1J5_HUMAN,F8VVA2_HUMAN,B3KY11_HUMAN	UPI0000073875	.	deleterious(0.03)	possibly_damaging(0.458)	13/17	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF23,Pfam_domain:PF00270,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCATGTCAA	.	5	BLCA
PIP4K2C	0	.	GRCh37	12	57995323	57995323	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1200C>G	p.Ile400Met	p.I400M	ENST00000354947	10/10	91	58	32	100	100	0	PIP4K2C,missense_variant,p.Ile400Met,ENST00000354947,;PIP4K2C,missense_variant,p.Ile352Met,ENST00000422156,;PIP4K2C,missense_variant,p.Ile382Met,ENST00000550465,;PIP4K2C,missense_variant,p.Ile400Met,ENST00000540759,;DTX3,upstream_gene_variant,,ENST00000337737,;DTX3,upstream_gene_variant,,ENST00000548478,;DTX3,upstream_gene_variant,,ENST00000550596,;DTX3,upstream_gene_variant,,ENST00000551835,;PIP4K2C,downstream_gene_variant,,ENST00000551772,;PIP4K2C,downstream_gene_variant,,ENST00000548264,;DTX3,upstream_gene_variant,,ENST00000551632,;DTX3,upstream_gene_variant,,ENST00000548804,;DTX3,upstream_gene_variant,,ENST00000548198,;DTX3,upstream_gene_variant,,ENST00000549583,;PIP4K2C,downstream_gene_variant,,ENST00000550360,;PIP4K2C,downstream_gene_variant,,ENST00000550095,;	G	ENSG00000166908	ENST00000354947	Transcript	missense_variant	1216	1200	400	I/M	atC/atG	.	.	.	1	PIP4K2C	HGNC	23786	protein_coding	YES	CCDS8946.1	ENSP00000347032	PI42C_HUMAN	F8VU68_HUMAN	UPI000003F553	.	deleterious(0)	probably_damaging(0.992)	10/10	.	PROSITE_profiles:PS51455,hmmpanther:PTHR23086,hmmpanther:PTHR23086:SF35,Gene3D:1bo1A02,Pfam_domain:PF01504,SMART_domains:SM00330,Superfamily_domains:SSF56104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGATCTCTAC	.	5	BLCA
ARHGEF25	0	.	GRCh37	12	58007841	58007841	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.712C>G	p.Leu238Val	p.L238V	ENST00000333972	7/16	68	35	33	71	71	0	ARHGEF25,missense_variant,p.Leu199Val,ENST00000286494,;ARHGEF25,missense_variant,p.Leu238Val,ENST00000333972,;DTX3,downstream_gene_variant,,ENST00000337737,;DTX3,downstream_gene_variant,,ENST00000551632,;DTX3,downstream_gene_variant,,ENST00000548804,;DTX3,downstream_gene_variant,,ENST00000548198,;DTX3,downstream_gene_variant,,ENST00000550300,;AC025165.8,intron_variant,,ENST00000356672,;AC025165.8,intron_variant,,ENST00000444467,;AC025165.8,downstream_gene_variant,,ENST00000610219,;AC025165.8,downstream_gene_variant,,ENST00000593846,;ARHGEF25,upstream_gene_variant,,ENST00000477314,;ARHGEF25,non_coding_transcript_exon_variant,,ENST00000471370,;ARHGEF25,upstream_gene_variant,,ENST00000466399,;ARHGEF25,upstream_gene_variant,,ENST00000469072,;ARHGEF25,upstream_gene_variant,,ENST00000484357,;	G	ENSG00000240771	ENST00000333972	Transcript	missense_variant	749	712	238	L/V	Ctt/Gtt	.	.	.	1	ARHGEF25	HGNC	30275	protein_coding	YES	CCDS44931.1	ENSP00000335560	ARHGP_HUMAN	.	UPI000173A6BB	.	deleterious(0)	possibly_damaging(0.721)	7/16	.	PROSITE_profiles:PS50010,hmmpanther:PTHR22826:SF117,hmmpanther:PTHR22826,Gene3D:1.20.900.10,Pfam_domain:PF00621,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGTCTTCGA	.	5	BLCA
CAND1	0	.	GRCh37	12	67699550	67699550	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2102T>C	p.Ile701Thr	p.I701T	ENST00000545606	10/15	110	89	21	99	99	0	CAND1,missense_variant,p.Ile701Thr,ENST00000545606,;CAND1,missense_variant,p.Ile241Thr,ENST00000544619,;CAND1,intron_variant,,ENST00000540319,;	C	ENSG00000111530	ENST00000545606	Transcript	missense_variant	2539	2102	701	I/T	aTc/aCc	.	.	.	1	CAND1	HGNC	30688	protein_coding	YES	CCDS8977.1	ENSP00000442318	CAND1_HUMAN	F5H6I6_HUMAN,B3KMG3_HUMAN	UPI0000037CC5	.	deleterious(0.02)	possibly_damaging(0.698)	10/15	.	hmmpanther:PTHR12696:SF1,hmmpanther:PTHR12696,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTATCAGCG	.	5	BLCA
BEST3	0	.	GRCh37	12	70049034	70049034	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1660G>A	p.Glu554Lys	p.E554K	ENST00000330891	10/10	64	44	20	60	60	0	BEST3,missense_variant,p.Glu554Lys,ENST00000330891,;BEST3,missense_variant,p.Glu448Lys,ENST00000553096,;BEST3,missense_variant,p.Glu341Lys,ENST00000488961,;BEST3,intron_variant,,ENST00000331471,;BEST3,intron_variant,,ENST00000547208,;	T	ENSG00000127325	ENST00000330891	Transcript	missense_variant	1887	1660	554	E/K	Gag/Aag	.	.	.	-1	BEST3	HGNC	17105	protein_coding	YES	CCDS8992.2	ENSP00000332413	BEST3_HUMAN	F8VVZ2_HUMAN	UPI000006E397	.	tolerated_low_confidence(0.08)	benign(0.002)	10/10	.	hmmpanther:PTHR10736,hmmpanther:PTHR10736:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCTGAGG	.	5	BLCA
TBC1D4	0	.	GRCh37	13	75933907	75933907	+	Missense_Mutation	SNP	G	G	C	rs771093387	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168C>G	p.Gln390Glu	p.Q390E	ENST00000377636	3/21	28	15	12	43	43	0	TBC1D4,missense_variant,p.Gln390Glu,ENST00000377625,;TBC1D4,missense_variant,p.Gln390Glu,ENST00000431480,;TBC1D4,missense_variant,p.Gln390Glu,ENST00000377636,;TBC1D4,splice_region_variant,,ENST00000425511,;	C	ENSG00000136111	ENST00000377636	Transcript	missense_variant	1515	1168	390	Q/E	Cag/Gag	rs771093387	.	.	-1	TBC1D4	HGNC	19165	protein_coding	YES	CCDS41901.1	ENSP00000366863	TBCD4_HUMAN	.	UPI00001AE7B3	.	deleterious(0)	possibly_damaging(0.824)	3/21	.	PROSITE_profiles:PS01179,Pfam_domain:PF00640,Gene3D:2.30.29.30,SMART_domains:SM00462,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGAGAAC	.	5	BLCA
ZNF219	0	.	GRCh37	14	21560084	21560084	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1372G>A	p.Glu458Lys	p.E458K	ENST00000360947	3/5	18	13	4	10	10	0	ZNF219,missense_variant,p.Glu458Lys,ENST00000360947,;ZNF219,missense_variant,p.Glu458Lys,ENST00000451119,;ZNF219,missense_variant,p.Glu458Lys,ENST00000421093,;ARHGEF40,downstream_gene_variant,,ENST00000298694,;ZNF219,downstream_gene_variant,,ENST00000553296,;ZNF219,downstream_gene_variant,,ENST00000554923,;ARHGEF40,downstream_gene_variant,,ENST00000298693,;ZNF219,downstream_gene_variant,,ENST00000556174,;ZNF219,downstream_gene_variant,,ENST00000555697,;ZNF219,downstream_gene_variant,,ENST00000555270,;ZNF219,downstream_gene_variant,,ENST00000554478,;ZNF219,downstream_gene_variant,,ENST00000553980,;RP11-998D10.7,intron_variant,,ENST00000554733,;ZNF219,downstream_gene_variant,,ENST00000556101,;ARHGEF40,downstream_gene_variant,,ENST00000557498,;ZNF219,downstream_gene_variant,,ENST00000556944,;ARHGEF40,downstream_gene_variant,,ENST00000556399,;ARHGEF40,downstream_gene_variant,,ENST00000553709,;ARHGEF40,downstream_gene_variant,,ENST00000554514,;	T	ENSG00000165804	ENST00000360947	Transcript	missense_variant	1784	1372	458	E/K	Gag/Aag	.	.	.	-1	ZNF219	HGNC	13011	protein_coding	YES	CCDS9568.1	ENSP00000354206	ZN219_HUMAN	G3V4T1_HUMAN,G3V452_HUMAN,G3V2W3_HUMAN,G3V2Q8_HUMAN,G3V2E3_HUMAN	UPI000013E507	.	tolerated(0.53)	benign(0.3)	3/5	.	hmmpanther:PTHR23233	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCACCCG	.	5	BLCA
MYH6	0	.	GRCh37	14	23863422	23863422	+	Missense_Mutation	SNP	G	G	A	rs759408374	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2540C>T	p.Thr847Met	p.T847M	ENST00000405093	21/39	97	85	12	81	81	0	MYH6,missense_variant,p.Thr847Met,ENST00000405093,;MYH6,missense_variant,p.Thr847Met,ENST00000356287,;	A	ENSG00000197616	ENST00000405093	Transcript	missense_variant	2611	2540	847	T/M	aCg/aTg	rs759408374,COSM432895	.	.	-1	MYH6	HGNC	7576	protein_coding	YES	CCDS9600.1	ENSP00000386041	MYH6_HUMAN	Q9UQV1_HUMAN,A8CLL2_HUMAN	UPI0000160969	.	tolerated(0.11)	possibly_damaging(0.556)	21/39	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13140:SF260,hmmpanther:PTHR13140,Gene3D:1.20.5.340,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.T847M|c.2540C>T|3	RADIA|MUTECT|MUSE|VARSCANS	TCTCCGTCTCT	byFrequency	4	BLCA
FSCB	0	.	GRCh37	14	44975863	44975863	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>T	p.Glu110Ter	p.E110*	ENST00000340446	1/1	158	97	60	142	142	0	FSCB,stop_gained,p.Glu110Ter,ENST00000340446,;RP11-163M18.1,upstream_gene_variant,,ENST00000557465,;RP11-163M18.1,upstream_gene_variant,,ENST00000556228,;RP11-163M18.1,upstream_gene_variant,,ENST00000555433,;	A	ENSG00000189139	ENST00000340446	Transcript	stop_gained	620	328	110	E/*	Gag/Tag	.	.	.	-1	FSCB	HGNC	20494	protein_coding	YES	CCDS9679.1	ENSP00000344579	FSCB_HUMAN	.	UPI00001FD466	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCTCTGGCA	.	5	BLCA
KLHDC2	0	.	GRCh37	14	50244636	50244636	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.431C>G	p.Ser144Ter	p.S144*	ENST00000298307	4/13	61	50	10	45	45	0	KLHDC2,stop_gained,p.Ser144Ter,ENST00000298307,;KLHDC2,stop_gained,p.Ser144Ter,ENST00000554589,;KLHDC2,stop_gained,p.Ser144Ter,ENST00000557247,;KLHDC2,non_coding_transcript_exon_variant,,ENST00000553538,;KLHDC2,stop_gained,p.Ser144Ter,ENST00000555443,;KLHDC2,stop_gained,p.Ser144Ter,ENST00000555739,;KLHDC2,non_coding_transcript_exon_variant,,ENST00000556559,;KLHDC2,non_coding_transcript_exon_variant,,ENST00000557063,;KLHDC2,upstream_gene_variant,,ENST00000553579,;KLHDC2,upstream_gene_variant,,ENST00000554115,;KLHDC2,downstream_gene_variant,,ENST00000553703,;	G	ENSG00000165516	ENST00000298307	Transcript	stop_gained	1292	431	144	S/*	tCa/tGa	.	.	.	1	KLHDC2	HGNC	20231	protein_coding	YES	CCDS9693.1	ENSP00000298307	KLDC2_HUMAN	.	UPI00000372DF	.	.	.	4/13	.	hmmpanther:PTHR23244:SF261,hmmpanther:PTHR23244,Gene3D:1zgkA00,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCAAAGG	.	5	BLCA
SYNE2	0	.	GRCh37	14	64457759	64457759	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2572G>C	p.Glu858Gln	p.E858Q	ENST00000358025	21/116	38	21	16	41	41	0	SYNE2,missense_variant,p.Glu858Gln,ENST00000554584,;SYNE2,missense_variant,p.Glu858Gln,ENST00000358025,;SYNE2,missense_variant,p.Glu858Gln,ENST00000344113,;SYNE2,5_prime_UTR_variant,,ENST00000357395,;	C	ENSG00000054654	ENST00000358025	Transcript	missense_variant	2802	2572	858	E/Q	Gaa/Caa	.	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	possibly_damaging(0.897)	21/116	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACTTGAATCA	.	3	BLCA
SYNE2	0	.	GRCh37	14	64457801	64457801	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2614G>C	p.Glu872Gln	p.E872Q	ENST00000358025	21/116	33	20	12	34	34	0	SYNE2,missense_variant,p.Glu872Gln,ENST00000554584,;SYNE2,missense_variant,p.Glu872Gln,ENST00000358025,;SYNE2,missense_variant,p.Glu872Gln,ENST00000344113,;SYNE2,5_prime_UTR_variant,,ENST00000357395,;	C	ENSG00000054654	ENST00000358025	Transcript	missense_variant	2844	2614	872	E/Q	Gag/Cag	.	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	benign(0.27)	21/116	.	hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAAGAGAGAGC	.	3	BLCA
SNORD116-6	0	.	GRCh37	15	25310189	25310189	+	RNA	SNP	C	C	G	rs746413229	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.17C>G	.	.	ENST00000384711	1/1	100	91	9	83	83	0	SNORD116-6,non_coding_transcript_exon_variant,,ENST00000384711,;SNORD116-5,downstream_gene_variant,,ENST00000384462,;SNORD116-7,upstream_gene_variant,,ENST00000384404,;SNHG14,intron_variant,,ENST00000549804,;SNHG14,intron_variant,,ENST00000551077,;	G	ENSG00000207442	ENST00000384711	Transcript	non_coding_transcript_exon_variant	17	.	.	.	.	rs746413229	.	.	1	SNORD116-6	HGNC	33072	snoRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGTCCTCCAA	.	3	BLCA
RYR3	0	.	GRCh37	15	33954872	33954872	+	Missense_Mutation	SNP	T	T	C	rs374176908	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5141T>C	p.Val1714Ala	p.V1714A	ENST00000389232	35/104	51	38	13	44	44	0	RYR3,missense_variant,p.Val1714Ala,ENST00000389232,;RYR3,missense_variant,p.Val1714Ala,ENST00000415757,;	C	ENSG00000198838	ENST00000389232	Transcript	missense_variant	5211	5141	1714	V/A	gTa/gCa	rs374176908	.	.	1	RYR3	HGNC	10485	protein_coding	YES	CCDS45210.1	ENSP00000373884	RYR3_HUMAN	.	UPI0000E5B01A	.	.	benign(0.047)	35/104	.	hmmpanther:PTHR13715:SF16,hmmpanther:PTHR13715	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTGTAGGGG	byFrequency|byCluster	5	BLCA
ZNF106	0	.	GRCh37	15	42740304	42740305	+	In_Frame_Ins	INS	-	-	CAT	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3029_3031dupATG	p.Asp1010dup	p.D1010dup	ENST00000263805	3/19	165	137	28	151	151	0	ZNF106,inframe_insertion,p.Asp1010dup,ENST00000263805,;ZNF106,inframe_insertion,p.Asp195dup,ENST00000565611,;ZNF106,inframe_insertion,p.Asp238dup,ENST00000565380,;ZNF106,inframe_insertion,p.Asp793dup,ENST00000565948,;ZNF106,inframe_insertion,p.Asp64dup,ENST00000565500,;ZNF106,downstream_gene_variant,,ENST00000567041,;ZNF106,downstream_gene_variant,,ENST00000564754,;ZNF106,upstream_gene_variant,,ENST00000567772,;	CAT	ENSG00000103994	ENST00000263805	Transcript	inframe_insertion	3358-3359	3031-3032	1011	G/DG	ggc/gATGgc	.	.	.	-1	ZNF106	HGNC	12886	protein_coding	YES	CCDS32208.1	ENSP00000263805	ZN106_HUMAN	H3BNX5_HUMAN	UPI000006D6CC	.	.	.	3/19	.	hmmpanther:PTHR14435	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTGGCCATCA	.	3	BLCA
EPB42	0	.	GRCh37	15	43500925	43500925	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.971C>T	p.Ser324Leu	p.S324L	ENST00000300215	7/13	76	41	35	70	70	0	EPB42,missense_variant,p.Ser247Leu,ENST00000568508,;EPB42,missense_variant,p.Ser147Leu,ENST00000569204,;EPB42,missense_variant,p.Ser324Leu,ENST00000300215,;EPB42,missense_variant,p.Ser216Leu,ENST00000540029,;EPB42,missense_variant,p.Ser294Leu,ENST00000441366,;EPB42,upstream_gene_variant,,ENST00000565459,;EPB42,upstream_gene_variant,,ENST00000563128,;EPB42,non_coding_transcript_exon_variant,,ENST00000567019,;	A	ENSG00000166947	ENST00000300215	Transcript	missense_variant	1429	971	324	S/L	tCa/tTa	.	.	.	-1	EPB42	HGNC	3381	protein_coding	YES	CCDS10093.1	ENSP00000300215	EPB42_HUMAN	Q4VB96_HUMAN	UPI000013E639	.	tolerated(0.24)	probably_damaging(0.982)	7/13	.	hmmpanther:PTHR11590:SF37,hmmpanther:PTHR11590,Gene3D:1ex0A02,Pfam_domain:PF01841,PIRSF_domain:PIRSF000459,SMART_domains:SM00460,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTGAGGCA	.	5	BLCA
LCMT2	0	.	GRCh37	15	43621512	43621512	+	Silent	SNP	G	G	C	rs751121071	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1176C>G	p.%3D	p.L392L	ENST00000305641	1/1	69	52	17	65	65	0	LCMT2,synonymous_variant,p.%3D,ENST00000305641,;LCMT2,5_prime_UTR_variant,,ENST00000544735,;LCMT2,3_prime_UTR_variant,,ENST00000567039,;ADAL,upstream_gene_variant,,ENST00000428046,;ADAL,upstream_gene_variant,,ENST00000389651,;ADAL,upstream_gene_variant,,ENST00000422466,;ADAL,upstream_gene_variant,,ENST00000563551,;ADAL,upstream_gene_variant,,ENST00000565555,;	C	ENSG00000168806	ENST00000305641	Transcript	synonymous_variant	1292	1176	392	L	ctC/ctG	rs751121071	.	.	-1	LCMT2	HGNC	17558	protein_coding	YES	CCDS10094.1	ENSP00000307214	LCMT2_HUMAN	B4DUW3_HUMAN	UPI00000727F6	.	.	.	1/1	.	hmmpanther:PTHR13600,hmmpanther:PTHR13600:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGAGAGCAA	byFrequency	5	BLCA
SPG11	0	.	GRCh37	15	44887641	44887641	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4451C>G	p.Ser1484Cys	p.S1484C	ENST00000261866	26/40	48	33	14	31	31	0	SPG11,missense_variant,p.Ser1484Cys,ENST00000535302,;SPG11,missense_variant,p.Ser1484Cys,ENST00000558319,;SPG11,missense_variant,p.Ser1484Cys,ENST00000261866,;SPG11,missense_variant,p.Ser1484Cys,ENST00000427534,;SPG11,downstream_gene_variant,,ENST00000558988,;SPG11,upstream_gene_variant,,ENST00000558253,;SPG11,upstream_gene_variant,,ENST00000558790,;SPG11,intron_variant,,ENST00000558155,;SPG11,downstream_gene_variant,,ENST00000558093,;SPG11,downstream_gene_variant,,ENST00000561391,;SPG11,upstream_gene_variant,,ENST00000560858,;SPG11,downstream_gene_variant,,ENST00000558561,;	C	ENSG00000104133	ENST00000261866	Transcript	missense_variant	4468	4451	1484	S/C	tCt/tGt	.	.	.	-1	SPG11	HGNC	11226	protein_coding	YES	CCDS10112.1	ENSP00000261866	SPTCS_HUMAN	H0YN96_HUMAN,C4B7M3_HUMAN	UPI0000456840	.	deleterious(0.02)	benign(0.192)	26/40	.	hmmpanther:PTHR13650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACAAGAAATG	.	5	BLCA
CYP19A1	0	.	GRCh37	15	51507277	51507277	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011G>C	p.Gln337His	p.Q337H	ENST00000396402	8/10	24	18	6	20	20	0	CYP19A1,missense_variant,p.Gln337His,ENST00000559878,;CYP19A1,missense_variant,p.Gln337His,ENST00000396404,;CYP19A1,missense_variant,p.Gln49His,ENST00000559653,;CYP19A1,missense_variant,p.Gln337His,ENST00000396402,;CYP19A1,missense_variant,p.Gln337His,ENST00000260433,;CYP19A1,downstream_gene_variant,,ENST00000453807,;CYP19A1,downstream_gene_variant,,ENST00000558328,;CYP19A1,downstream_gene_variant,,ENST00000561075,;RP11-108K3.1,intron_variant,,ENST00000559909,;CYP19A1,downstream_gene_variant,,ENST00000478421,;CYP19A1,missense_variant,p.Gln337His,ENST00000439712,;CYP19A1,missense_variant,p.Gln337His,ENST00000557934,;CYP19A1,non_coding_transcript_exon_variant,,ENST00000558066,;CYP19A1,non_coding_transcript_exon_variant,,ENST00000490076,;	G	ENSG00000137869	ENST00000396402	Transcript	missense_variant	1165	1011	337	Q/H	caG/caC	.	.	.	-1	CYP19A1	HGNC	2594	protein_coding	YES	CCDS10139.1	ENSP00000379683	CP19A_HUMAN	Q16449_HUMAN,H0YLS2_HUMAN,H0YLP1_HUMAN,H0YKN1_HUMAN,E9PGZ6_HUMAN,E7EQ08_HUMAN,E7EPL6_HUMAN	UPI000013D0D7	.	tolerated(0.42)	benign(0.003)	8/10	.	hmmpanther:PTHR24290,hmmpanther:PTHR24290:SF57,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTCTGGAT	.	5	BLCA
NOX5	0	.	GRCh37	15	69328165	69328165	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1077C>T	p.%3D	p.G359G	ENST00000388866	7/16	95	66	29	96	96	0	NOX5,synonymous_variant,p.%3D,ENST00000530406,;NOX5,synonymous_variant,p.%3D,ENST00000388866,;NOX5,synonymous_variant,p.%3D,ENST00000448182,;NOX5,synonymous_variant,p.%3D,ENST00000455873,;NOX5,synonymous_variant,p.%3D,ENST00000260364,;RP11-809H16.4,downstream_gene_variant,,ENST00000559495,;NOX5,synonymous_variant,p.%3D,ENST00000525143,;NOX5,non_coding_transcript_exon_variant,,ENST00000527315,;	T	ENSG00000255346	ENST00000388866	Transcript	synonymous_variant	1118	1077	359	G	ggC/ggT	.	.	.	1	NOX5	HGNC	14874	protein_coding	YES	CCDS32276.2	ENSP00000373518	NOX5_HUMAN	.	UPI000006DDBD	.	.	.	7/16	.	hmmpanther:PTHR11972:SF36,hmmpanther:PTHR11972,Pfam_domain:PF01794	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGGCATTGG	.	5	BLCA
CYP1A2	0	.	GRCh37	15	75042616	75042616	+	Silent	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537G>C	p.%3D	p.L179L	ENST00000343932	2/7	106	93	12	133	133	0	CYP1A2,synonymous_variant,p.%3D,ENST00000343932,;	C	ENSG00000140505	ENST00000343932	Transcript	synonymous_variant	600	537	179	L	ctG/ctC	.	.	.	1	CYP1A2	HGNC	2596	protein_coding	YES	CCDS32293.1	ENSP00000342007	CP1A2_HUMAN	.	UPI0000073775	.	.	.	2/7	.	hmmpanther:PTHR24299:SF7,hmmpanther:PTHR24299,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTGATGGC	.	4	BLCA
HAPLN3	0	.	GRCh37	15	89422195	89422195	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.796+3G>A	.	.	ENST00000359595	.	15	11	4	15	15	0	HAPLN3,splice_region_variant,,ENST00000359595,;HAPLN3,splice_region_variant,,ENST00000562889,;HAPLN3,downstream_gene_variant,,ENST00000562281,;ACAN,downstream_gene_variant,,ENST00000439576,;ACAN,downstream_gene_variant,,ENST00000559004,;ACAN,downstream_gene_variant,,ENST00000558704,;ACAN,downstream_gene_variant,,ENST00000352105,;ACAN,downstream_gene_variant,,ENST00000561243,;HAPLN3,splice_region_variant,,ENST00000558770,;HAPLN3,downstream_gene_variant,,ENST00000563808,;ACAN,downstream_gene_variant,,ENST00000558604,;	T	ENSG00000140511	ENST00000359595	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	HAPLN3	HGNC	21446	protein_coding	YES	CCDS10346.1	ENSP00000352606	HPLN3_HUMAN	.	UPI0000048EB3	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE	CCACTCACCCT	.	3	BLCA
UNC45A	0	.	GRCh37	15	91496789	91496789	+	Missense_Mutation	SNP	C	C	T	rs376117199	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2678C>T	p.Ser893Leu	p.S893L	ENST00000418476	20/20	112	79	32	109	109	0	UNC45A,missense_variant,p.Ser893Leu,ENST00000418476,;UNC45A,missense_variant,p.Ser878Leu,ENST00000394275,;RCCD1,upstream_gene_variant,,ENST00000555155,;RCCD1,upstream_gene_variant,,ENST00000394258,;RCCD1,upstream_gene_variant,,ENST00000556618,;AC068831.6,intron_variant,,ENST00000553321,;RCCD1,upstream_gene_variant,,ENST00000556774,;UNC45A,non_coding_transcript_exon_variant,,ENST00000471780,;UNC45A,non_coding_transcript_exon_variant,,ENST00000487875,;RCCD1,upstream_gene_variant,,ENST00000557266,;RCCD1,upstream_gene_variant,,ENST00000555737,;RCCD1,upstream_gene_variant,,ENST00000554302,;RCCD1,upstream_gene_variant,,ENST00000556333,;	T	ENSG00000140553	ENST00000418476	Transcript	missense_variant	2718	2678	893	S/L	tCg/tTg	rs376117199	.	.	1	UNC45A	HGNC	30594	protein_coding	YES	CCDS10367.1	ENSP00000407487	UN45A_HUMAN	.	UPI000000D953	.	deleterious(0)	benign(0.155)	20/20	.	hmmpanther:PTHR22904,hmmpanther:PTHR22904:SF275,Gene3D:1.25.10.10	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGAGGG	byFrequency|byCluster	5	BLCA
CHD2	0	.	GRCh37	15	93563473	93563473	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5138G>C	p.Arg1713Thr	p.R1713T	ENST00000394196	38/39	43	31	12	38	38	0	CHD2,missense_variant,p.Arg1713Thr,ENST00000557381,;CHD2,missense_variant,p.Arg1713Thr,ENST00000394196,;CHD2,downstream_gene_variant,,ENST00000557759,;	C	ENSG00000173575	ENST00000394196	Transcript	missense_variant	6206	5138	1713	R/T	aGa/aCa	.	.	.	1	CHD2	HGNC	1917	protein_coding	YES	CCDS10374.2	ENSP00000377747	CHD2_HUMAN	Q6AI05_HUMAN,Q3YLD6_HUMAN,Q3YLD5_HUMAN,G3V4S8_HUMAN,G3V418_HUMAN	UPI0000E8A85C	.	tolerated_low_confidence(0.14)	probably_damaging(0.977)	38/39	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACAGAGATT	.	5	BLCA
PRM1	0	.	GRCh37	16	11374788	11374788	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61C>G	.	.	ENST00000312511	2/2	131	87	44	149	149	0	PRM1,3_prime_UTR_variant,,ENST00000312511,;RMI2,intron_variant,,ENST00000572173,;PRM2,upstream_gene_variant,,ENST00000435245,;PRM2,upstream_gene_variant,,ENST00000241808,;RMI2,intron_variant,,ENST00000573910,;	C	ENSG00000175646	ENST00000312511	Transcript	3_prime_UTR_variant	329	.	.	.	.	.	.	.	-1	PRM1	HGNC	9447	protein_coding	YES	CCDS10547.1	ENSP00000310515	HSP1_HUMAN	Q3MN80_HUMAN	UPI000013F2EE	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGAGGATCT	.	5	BLCA
BFAR	0	.	GRCh37	16	14761496	14761496	+	Missense_Mutation	SNP	G	G	A	rs574985188	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165G>A	p.Val389Met	p.V389M	ENST00000261658	8/8	84	75	9	99	99	0	BFAR,missense_variant,p.Val264Met,ENST00000563971,;BFAR,missense_variant,p.Val145Met,ENST00000562545,;BFAR,missense_variant,p.Val261Met,ENST00000426842,;BFAR,missense_variant,p.Val389Met,ENST00000261658,;BFAR,intron_variant,,ENST00000565478,;PLA2G10,downstream_gene_variant,,ENST00000438167,;BFAR,downstream_gene_variant,,ENST00000564078,;BFAR,non_coding_transcript_exon_variant,,ENST00000563082,;BFAR,3_prime_UTR_variant,,ENST00000566710,;BFAR,downstream_gene_variant,,ENST00000563313,;	A	ENSG00000103429	ENST00000261658	Transcript	missense_variant	1442	1165	389	V/M	Gtg/Atg	rs574985188	.	.	1	BFAR	HGNC	17613	protein_coding	YES	CCDS10554.1	ENSP00000261658	BFAR_HUMAN	H3BRQ5_HUMAN,H3BMY8_HUMAN	UPI0000072F15	.	tolerated(0.08)	possibly_damaging(0.66)	8/8	.	hmmpanther:PTHR15898	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGACCGTGCCT	byFrequency|byCluster	4	BLCA
HAGH	0	.	GRCh37	16	1867236	1867236	+	Missense_Mutation	SNP	T	T	C	rs144037672	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.578A>G	p.Tyr193Cys	p.Y193C	ENST00000397356	6/9	37	21	16	43	43	0	HAGH,missense_variant,p.Tyr193Cys,ENST00000397356,;HAGH,missense_variant,p.Tyr145Cys,ENST00000397353,;HAGH,missense_variant,p.Tyr145Cys,ENST00000569339,;HAGH,missense_variant,p.Met157Val,ENST00000455446,;HAGH,missense_variant,p.Tyr145Cys,ENST00000566709,;HAGH,missense_variant,p.Tyr124Cys,ENST00000564445,;HAGH,upstream_gene_variant,,ENST00000566644,;HAGH,upstream_gene_variant,,ENST00000567398,;HAGH,downstream_gene_variant,,ENST00000564518,;HAGH,downstream_gene_variant,,ENST00000567190,;HAGH,downstream_gene_variant,,ENST00000569700,;HAGH,downstream_gene_variant,,ENST00000565097,;	C	ENSG00000063854	ENST00000397356	Transcript	missense_variant	985	578	193	Y/C	tAt/tGt	rs144037672	.	.	-1	HAGH	HGNC	4805	protein_coding	YES	CCDS10447.2	ENSP00000380514	GLO2_HUMAN	H3BV79_HUMAN,H3BQW8_HUMAN,B4DT01_HUMAN	UPI00001FFAD0	.	deleterious(0)	probably_damaging(0.938)	6/9	.	HAMAP:MF_01374,hmmpanther:PTHR11935,hmmpanther:PTHR11935:SF80,Pfam_domain:PF00753,Gene3D:3.60.15.10,TIGRFAM_domain:TIGR03413,PIRSF_domain:PIRSF005457,SMART_domains:SM00849,Superfamily_domains:SSF56281	C:0.0008	C:0	C:0.0014	.	C:0	C:0.001	C:0.002	C:0	C:0.0005	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCATAGAAC	byFrequency|byCluster|by1000G	5	BLCA
SRRM2	0	.	GRCh37	16	2817462	2817462	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6933C>T	p.%3D	p.L2311L	ENST00000301740	11/15	250	179	70	254	253	1	SRRM2,synonymous_variant,p.%3D,ENST00000301740,;TCEB2,downstream_gene_variant,,ENST00000494946,;SRRM2,downstream_gene_variant,,ENST00000576924,;SRRM2,downstream_gene_variant,,ENST00000571378,;SRRM2,upstream_gene_variant,,ENST00000570539,;TCEB2,downstream_gene_variant,,ENST00000409477,;TCEB2,downstream_gene_variant,,ENST00000572954,;TCEB2,downstream_gene_variant,,ENST00000262306,;TCEB2,downstream_gene_variant,,ENST00000409906,;AC092117.2,upstream_gene_variant,,ENST00000581119,;SRRM2,upstream_gene_variant,,ENST00000573583,;SRRM2,upstream_gene_variant,,ENST00000572721,;SRRM2,upstream_gene_variant,,ENST00000574866,;SRRM2,upstream_gene_variant,,ENST00000574593,;SRRM2,downstream_gene_variant,,ENST00000576674,;SRRM2,upstream_gene_variant,,ENST00000572883,;SRRM2,upstream_gene_variant,,ENST00000573692,;SRRM2,upstream_gene_variant,,ENST00000576878,;SRRM2,upstream_gene_variant,,ENST00000571041,;SRRM2,upstream_gene_variant,,ENST00000573311,;SRRM2,upstream_gene_variant,,ENST00000574331,;SRRM2,upstream_gene_variant,,ENST00000570705,;	T	ENSG00000167978	ENST00000301740	Transcript	synonymous_variant	7482	6933	2311	L	ctC/ctT	.	.	.	1	SRRM2	HGNC	16639	protein_coding	YES	CCDS32373.1	ENSP00000301740	SRRM2_HUMAN	I3L4D8_HUMAN,I3L1I8_HUMAN,I3L1C0_HUMAN,I3L182_HUMAN,I3L0N7_HUMAN	UPI000049DDFC	.	.	.	11/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR32093:SF13,hmmpanther:PTHR32093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCACAGG	.	5	BLCA
NUDT16L1	0	.	GRCh37	16	4745075	4745075	+	Silent	SNP	C	C	G	rs761186574	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>G	p.%3D	p.L177L	ENST00000304301	3/3	65	39	26	65	65	0	NUDT16L1,synonymous_variant,p.%3D,ENST00000590460,;NUDT16L1,synonymous_variant,p.%3D,ENST00000304301,;NUDT16L1,splice_region_variant,,ENST00000586252,;NUDT16L1,3_prime_UTR_variant,,ENST00000586536,;NUDT16L1,3_prime_UTR_variant,,ENST00000405142,;ANKS3,downstream_gene_variant,,ENST00000304283,;MGRN1,downstream_gene_variant,,ENST00000415496,;MGRN1,downstream_gene_variant,,ENST00000399577,;ANKS3,downstream_gene_variant,,ENST00000446014,;ANKS3,downstream_gene_variant,,ENST00000588513,;ANKS3,downstream_gene_variant,,ENST00000450067,;ANKS3,downstream_gene_variant,,ENST00000585773,;MGRN1,downstream_gene_variant,,ENST00000262370,;ANKS3,downstream_gene_variant,,ENST00000591653,;ANKS3,downstream_gene_variant,,ENST00000592077,;ANKS3,downstream_gene_variant,,ENST00000590193,;ANKS3,downstream_gene_variant,,ENST00000591185,;ANKS3,downstream_gene_variant,,ENST00000589035,;ANKS3,downstream_gene_variant,,ENST00000588398,;ANKS3,downstream_gene_variant,,ENST00000590730,;ANKS3,downstream_gene_variant,,ENST00000592840,;ANKS3,downstream_gene_variant,,ENST00000590803,;	G	ENSG00000168101	ENST00000304301	Transcript	synonymous_variant	564	531	177	L	ctC/ctG	rs761186574	.	.	1	NUDT16L1	HGNC	28154	protein_coding	YES	CCDS10519.1	ENSP00000306670	SDOS_HUMAN	.	UPI0000071EB2	.	.	.	3/3	.	hmmpanther:PTHR31699,hmmpanther:PTHR31699:SF3,Gene3D:3.90.79.10,Superfamily_domains:SSF55811	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCAAGGT	byFrequency	5	BLCA
SALL1	0	.	GRCh37	16	51174261	51174261	+	Silent	SNP	G	G	A	rs143548629	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1872C>T	p.%3D	p.S624S	ENST00000251020	2/3	38	28	10	38	38	0	SALL1,synonymous_variant,p.%3D,ENST00000251020,;SALL1,synonymous_variant,p.%3D,ENST00000570206,;SALL1,synonymous_variant,p.%3D,ENST00000440970,;SALL1,intron_variant,,ENST00000541611,;SALL1,intron_variant,,ENST00000566102,;SALL1,downstream_gene_variant,,ENST00000562674,;	A	ENSG00000103449	ENST00000251020	Transcript	synonymous_variant	1906	1872	624	S	agC/agT	rs143548629	.	.	-1	SALL1	HGNC	10524	protein_coding	YES	CCDS10747.1	ENSP00000251020	SALL1_HUMAN	H3BSM9_HUMAN	UPI000013CCD8	.	.	.	2/3	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF51	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTCGCTTTT	byCluster	5	BLCA
MT1G	0	.	GRCh37	16	56701966	56701966	+	5'UTR	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-61C>T	.	.	ENST00000444837	1/3	52	46	6	46	46	0	MT1G,5_prime_UTR_variant,,ENST00000379811,;MT1G,5_prime_UTR_variant,,ENST00000444837,;MT1H,upstream_gene_variant,,ENST00000332374,;MT1H,upstream_gene_variant,,ENST00000569155,;MT1G,upstream_gene_variant,,ENST00000568675,;MT1G,upstream_gene_variant,,ENST00000569500,;	A	ENSG00000125144	ENST00000444837	Transcript	5_prime_UTR_variant	12	.	.	.	.	.	.	.	-1	MT1G	HGNC	7399	protein_coding	YES	CCDS10766.1	ENSP00000391397	MT1G_HUMAN	.	UPI000012F6DA	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACGTGGAAGG	.	2	BLCA
ZNF23	0	.	GRCh37	16	71482809	71482809	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1119C>T	p.%3D	p.F373F	ENST00000393539	6/6	29	24	5	32	32	0	ZNF23,synonymous_variant,p.%3D,ENST00000428724,;ZNF23,synonymous_variant,p.%3D,ENST00000393539,;ZNF23,synonymous_variant,p.%3D,ENST00000357254,;ZNF23,synonymous_variant,p.%3D,ENST00000417828,;ZNF23,synonymous_variant,p.%3D,ENST00000564528,;ZNF23,3_prime_UTR_variant,,ENST00000358700,;ZNF23,3_prime_UTR_variant,,ENST00000497160,;ZNF23,downstream_gene_variant,,ENST00000565718,;ZNF23,downstream_gene_variant,,ENST00000567340,;ZNF23,non_coding_transcript_exon_variant,,ENST00000539742,;AC010547.9,3_prime_UTR_variant,,ENST00000561908,;ZNF23,non_coding_transcript_exon_variant,,ENST00000576258,;	A	ENSG00000167377	ENST00000393539	Transcript	synonymous_variant	1933	1119	373	F	ttC/ttT	.	.	.	-1	ZNF23	HGNC	13023	protein_coding	YES	CCDS10900.1	ENSP00000377171	ZNF23_HUMAN	Q8NDP5_HUMAN,H3BPE6_HUMAN	UPI000013C406	.	.	.	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24377:SF180,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTGAAGCC	.	5	BLCA
ZNF821	0	.	GRCh37	16	71898823	71898823	+	Missense_Mutation	SNP	C	C	T	rs368720139	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.295G>A	p.Glu99Lys	p.E99K	ENST00000425432	5/8	71	59	12	52	52	0	ZNF821,missense_variant,p.Glu99Lys,ENST00000568322,;ZNF821,missense_variant,p.Glu57Lys,ENST00000562797,;ZNF821,missense_variant,p.Glu99Lys,ENST00000425432,;ZNF821,missense_variant,p.Glu57Lys,ENST00000565516,;ZNF821,missense_variant,p.Glu57Lys,ENST00000313565,;ZNF821,missense_variant,p.Glu99Lys,ENST00000568666,;ZNF821,missense_variant,p.Glu99Lys,ENST00000565601,;ZNF821,missense_variant,p.Glu57Lys,ENST00000446827,;ZNF821,missense_variant,p.Glu99Lys,ENST00000564134,;ZNF821,missense_variant,p.Glu99Lys,ENST00000565843,;IST1,intron_variant,,ENST00000568581,;ZNF821,intron_variant,,ENST00000564943,;ATXN1L,intron_variant,,ENST00000569119,;ZNF821,3_prime_UTR_variant,,ENST00000563878,;ZNF821,3_prime_UTR_variant,,ENST00000562808,;ZNF821,3_prime_UTR_variant,,ENST00000566987,;ZNF821,3_prime_UTR_variant,,ENST00000562985,;ZNF821,non_coding_transcript_exon_variant,,ENST00000569186,;ZNF821,intron_variant,,ENST00000568961,;ZNF821,intron_variant,,ENST00000563827,;	T	ENSG00000102984	ENST00000425432	Transcript	missense_variant	675	295	99	E/K	Gaa/Aaa	rs368720139	.	.	-1	ZNF821	HGNC	28043	protein_coding	YES	CCDS56006.1	ENSP00000398089	ZN821_HUMAN	H3BS68_HUMAN	UPI0000EE78C4	.	tolerated(0.83)	benign(0)	5/8	.	hmmpanther:PTHR24404:SF1,hmmpanther:PTHR24404	.	.	.	.	.	.	.	G:0.0002	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCGTTCC	byFrequency|byCluster	4	BLCA
CENPBD1	0	.	GRCh37	16	90038223	90038223	+	Silent	SNP	C	C	T	rs377274836	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108G>A	p.%3D	p.A36A	ENST00000314994	1/1	30	24	5	23	23	0	CENPBD1,synonymous_variant,p.%3D,ENST00000314994,;DEF8,downstream_gene_variant,,ENST00000563594,;DEF8,downstream_gene_variant,,ENST00000268676,;DEF8,downstream_gene_variant,,ENST00000570182,;RP11-566K11.5,non_coding_transcript_exon_variant,,ENST00000565150,;CENPBD1,intron_variant,,ENST00000567035,;AFG3L1P,upstream_gene_variant,,ENST00000418696,;AFG3L1P,upstream_gene_variant,,ENST00000429663,;AFG3L1P,upstream_gene_variant,,ENST00000457926,;AFG3L1P,upstream_gene_variant,,ENST00000431757,;AFG3L1P,upstream_gene_variant,,ENST00000437774,;AFG3L1P,upstream_gene_variant,,ENST00000436447,;DEF8,downstream_gene_variant,,ENST00000564379,;AFG3L1P,upstream_gene_variant,,ENST00000423742,;AFG3L1P,upstream_gene_variant,,ENST00000421164,;AFG3L1P,upstream_gene_variant,,ENST00000450026,;AFG3L1P,upstream_gene_variant,,ENST00000557444,;	T	ENSG00000177946	ENST00000314994	Transcript	synonymous_variant	720	108	36	A	gcG/gcA	rs377274836	.	.	-1	CENPBD1	HGNC	28272	protein_coding	YES	CCDS45556.1	ENSP00000393854	CENP1_HUMAN	.	UPI00001FF7AC	.	.	.	1/1	.	Superfamily_domains:SSF46689,Gene3D:1.10.10.60,Pfam_domain:PF04218,hmmpanther:PTHR19303,hmmpanther:PTHR19303:SF14,PROSITE_profiles:PS50960	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACCCGCTTC	byFrequency|byCluster	5	BLCA
C17orf104	0	.	GRCh37	17	42744939	42744939	+	Missense_Mutation	SNP	G	G	C	rs764520453	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1660G>C	p.Glu554Gln	p.E554Q	ENST00000409122	5/8	22	18	4	26	26	0	C17orf104,missense_variant,p.Glu388Gln,ENST00000409464,;C17orf104,missense_variant,p.Glu554Gln,ENST00000409122,;C17orf104,missense_variant,p.Glu554Gln,ENST00000359945,;C17orf104,downstream_gene_variant,,ENST00000432494,;C17orf104,downstream_gene_variant,,ENST00000456912,;C17orf104,upstream_gene_variant,,ENST00000472403,;	C	ENSG00000180336	ENST00000409122	Transcript	missense_variant	1802	1660	554	E/Q	Gaa/Caa	rs764520453	.	.	1	C17orf104	HGNC	26670	protein_coding	YES	CCDS45703.2	ENSP00000386452	CQ104_HUMAN	C9JYK8_HUMAN,C9J4A2_HUMAN	UPI0001881A86	.	deleterious(0.03)	probably_damaging(0.917)	5/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCAGAAAGA	byFrequency	5	BLCA
PLCD3	0	.	GRCh37	17	43195727	43195727	+	Missense_Mutation	SNP	G	G	C	rs760064067	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1046C>G	p.Ser349Cys	p.S349C	ENST00000322765	6/16	43	25	17	46	45	1	PLCD3,missense_variant,p.Ser349Cys,ENST00000322765,;PLCD3,upstream_gene_variant,,ENST00000539433,;PLCD3,downstream_gene_variant,,ENST00000538093,;PLCD3,downstream_gene_variant,,ENST00000590644,;PLCD3,downstream_gene_variant,,ENST00000538988,;PLCD3,non_coding_transcript_exon_variant,,ENST00000540511,;PLCD3,downstream_gene_variant,,ENST00000544446,;PLCD3,upstream_gene_variant,,ENST00000543623,;PLCD3,upstream_gene_variant,,ENST00000545702,;PLCD3,non_coding_transcript_exon_variant,,ENST00000546350,;PLCD3,non_coding_transcript_exon_variant,,ENST00000542173,;PLCD3,upstream_gene_variant,,ENST00000544333,;PLCD3,upstream_gene_variant,,ENST00000412978,;	C	ENSG00000161714	ENST00000322765	Transcript	missense_variant	1160	1046	349	S/C	tCt/tGt	rs760064067	.	.	-1	PLCD3	HGNC	9061	protein_coding	YES	.	ENSP00000313731	PLCD3_HUMAN	.	UPI00015DFB4E	.	deleterious(0.03)	probably_damaging(0.99)	6/16	.	Prints_domain:PR00390,Superfamily_domains:SSF51695,SMART_domains:SM00148,Pfam_domain:PF00388,Gene3D:3.20.20.190,hmmpanther:PTHR10336:SF33,hmmpanther:PTHR10336,PROSITE_profiles:PS50007	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGGAAGAGATG	.	4	BLCA
MAP3K14-AS1	0	.	GRCh37	17	43344950	43344950	+	RNA	SNP	G	G	C	rs766570512	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1999G>C	.	.	ENST00000585780	3/3	35	30	4	29	29	0	MAP3K14-AS1,non_coding_transcript_exon_variant,,ENST00000588504,;MAP3K14-AS1,non_coding_transcript_exon_variant,,ENST00000585780,;MAP3K14-AS1,intron_variant,,ENST00000590100,;MAP3K14-AS1,intron_variant,,ENST00000585351,;MAP3K14-AS1,intron_variant,,ENST00000586450,;MAP3K14-AS1,intron_variant,,ENST00000592422,;MAP3K14-AS1,intron_variant,,ENST00000588698,;MAP3K14-AS1,downstream_gene_variant,,ENST00000591263,;MAP3K14-AS1,downstream_gene_variant,,ENST00000588160,;MAP3K14-AS1,downstream_gene_variant,,ENST00000585346,;MAP3K14,non_coding_transcript_exon_variant,,ENST00000587332,;MAP3K14,non_coding_transcript_exon_variant,,ENST00000344686,;MAP3K14,downstream_gene_variant,,ENST00000376926,;MAP3K14,non_coding_transcript_exon_variant,,ENST00000592267,;MAP3K14,downstream_gene_variant,,ENST00000586644,;	C	ENSG00000267278	ENST00000585780	Transcript	non_coding_transcript_exon_variant	1999	.	.	.	.	rs766570512	.	.	1	MAP3K14-AS1	HGNC	44359	antisense	YES	.	.	.	.	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGGAGAGGAG	.	3	BLCA
KANSL1	0	.	GRCh37	17	44144948	44144948	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1619G>T	p.Gly540Val	p.G540V	ENST00000262419	5/15	51	41	10	57	57	0	KANSL1,missense_variant,p.Gly540Val,ENST00000432791,;KANSL1,missense_variant,p.Gly540Val,ENST00000262419,;KANSL1,missense_variant,p.Gly540Val,ENST00000572904,;KANSL1,missense_variant,p.Gly540Val,ENST00000575318,;KANSL1,missense_variant,p.Gly540Val,ENST00000574590,;KANSL1,5_prime_UTR_variant,,ENST00000393476,;KANSL1,non_coding_transcript_exon_variant,,ENST00000577114,;	A	ENSG00000120071	ENST00000262419	Transcript	missense_variant	2090	1619	540	G/V	gGa/gTa	.	.	.	-1	KANSL1	HGNC	24565	protein_coding	YES	CCDS11503.1	ENSP00000262419	KANL1_HUMAN	I3L243_HUMAN,I3L233_HUMAN	UPI0001AE66EA	.	deleterious(0.01)	possibly_damaging(0.878)	5/15	.	hmmpanther:PTHR22443:SF14,hmmpanther:PTHR22443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTCCACAT	.	5	BLCA
FBXO39	0	.	GRCh37	17	6683478	6683478	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291G>T	p.Met97Ile	p.M97I	ENST00000321535	2/4	111	44	67	133	133	0	FBXO39,missense_variant,p.Met97Ile,ENST00000321535,;XAF1,downstream_gene_variant,,ENST00000361842,;XAF1,downstream_gene_variant,,ENST00000441631,;	T	ENSG00000177294	ENST00000321535	Transcript	missense_variant	421	291	97	M/I	atG/atT	.	.	.	1	FBXO39	HGNC	28565	protein_coding	YES	CCDS11082.1	ENSP00000321386	FBX39_HUMAN	.	UPI000006D9B1	.	tolerated(0.39)	benign(0.002)	2/4	.	Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR10706:SF125,hmmpanther:PTHR10706	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATGAATCC	.	5	BLCA
SAP30BP	0	.	GRCh37	17	73663532	73663532	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80G>C	p.Gly27Ala	p.G27A	ENST00000584667	1/11	42	34	7	25	25	0	SAP30BP,missense_variant,p.Gly27Ala,ENST00000355423,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000584667,;SAP30BP,missense_variant,p.Gly10Ala,ENST00000583536,;RECQL5,upstream_gene_variant,,ENST00000578201,;RECQL5,upstream_gene_variant,,ENST00000584999,;RECQL5,upstream_gene_variant,,ENST00000420326,;RECQL5,upstream_gene_variant,,ENST00000423245,;RECQL5,upstream_gene_variant,,ENST00000317905,;RECQL5,upstream_gene_variant,,ENST00000580078,;SAP30BP,upstream_gene_variant,,ENST00000578909,;RECQL5,upstream_gene_variant,,ENST00000340830,;SAP30BP,non_coding_transcript_exon_variant,,ENST00000578354,;SAP30BP,non_coding_transcript_exon_variant,,ENST00000579864,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000583737,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000579877,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000542343,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000580322,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000582022,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000293208,;SAP30BP,missense_variant,p.Gly27Ala,ENST00000583170,;SAP30BP,non_coding_transcript_exon_variant,,ENST00000580484,;SAP30BP,non_coding_transcript_exon_variant,,ENST00000584861,;SAP30BP,non_coding_transcript_exon_variant,,ENST00000577292,;SAP30BP,non_coding_transcript_exon_variant,,ENST00000578288,;	C	ENSG00000161526	ENST00000584667	Transcript	missense_variant	337	80	27	G/A	gGa/gCa	.	.	.	1	SAP30BP	HGNC	30785	protein_coding	YES	CCDS11726.1	ENSP00000462116	S30BP_HUMAN	Q659G6_HUMAN,J3QLM2_HUMAN,J3KRR6_HUMAN	UPI0000072715	.	deleterious_low_confidence(0.04)	benign(0.012)	1/11	.	hmmpanther:PTHR13464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTGGAATCG	.	5	BLCA
TP53	0	.	GRCh37	17	7576852	7576852	+	Splice_Site	SNP	C	C	T	rs11575997	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993+1G>A	.	p.X331_splice	ENST00000269305	.	32	19	13	51	51	0	TP53,splice_donor_variant,,ENST00000420246,;TP53,splice_donor_variant,,ENST00000269305,;TP53,splice_donor_variant,,ENST00000576024,;TP53,splice_donor_variant,,ENST00000359597,;TP53,splice_donor_variant,,ENST00000445888,;TP53,splice_donor_variant,,ENST00000455263,;TP53,intron_variant,,ENST00000413465,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,downstream_gene_variant,,ENST00000509690,;TP53,downstream_gene_variant,,ENST00000514944,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,splice_donor_variant,,ENST00000504937,;TP53,splice_donor_variant,,ENST00000504290,;TP53,splice_donor_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	T	ENSG00000141510	ENST00000269305	Transcript	splice_donor_variant	.	.	.	.	.	rs11575997,CD002536,TP53_g.14066del,TP53_g.14066G>C,TP53_g.14066G>A,TP53_g.14066G>T,COSM44295,COSM119021,COSM6918,COSM323936,COSM165065,COSM119022,COSM4151771,COSM3717623,COSM4151770,COSM3717622	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	.	9/10	.	.	.	.	.	.	.	.	.	.	.	0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1	22291954	.	.	.	.	HIGH	.	SNV	.	.	0,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.?|c.993+1G>A|15,SITE|p.?|c.993+1G>A|6,BUFFER|p.0?|c.1_1182del1182|6,BUFFER|p.?|c.993+2T>G|3,BUFFER|p.?|c.993+2T>C|6,BUFFER|p.?|c.993+2T>G|3,BUFFER|p.?|c.993+1G>T|5,BUFFER|p.?|c.993+1G>T|9,BUFFER|p.?|c.993+1G>C|3,BUFFER|p.?|c.993+1G>C|3,BUFFER|p.Q331Q|c.993G>A|4,BUFFER|p.Q331H|c.993G>T|5,BUFFER|p.Q331Q|c.993G>A|3,BUFFER|p.Q331H|c.993G>T|3,BUFFER|p.Q331H|c.993G>C|3,BUFFER|p.Q331*|c.991C>T|3,BUFFER|p.Q331*|c.991C>T|13,BUFFER|p.Q331*|c.991C>T|6,BUFFER|p.Q331*|c.991C>T|33,BUFFER|p.L330R|c.989T>G|4,BUFFER|p.L330R|c.989T>G|3,BUFFER|p.L330R|c.989T>G|5,BUFFER|p.L330H|c.989T>A|3,BUFFER|p.L330R|c.989T>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGTACCTGAA	.	5	BLCA
OGFOD3	0	.	GRCh37	17	80367279	80367279	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.388G>C	p.Glu130Gln	p.E130Q	ENST00000329197	4/10	29	25	4	52	52	0	OGFOD3,missense_variant,p.Glu130Gln,ENST00000329197,;OGFOD3,missense_variant,p.Glu130Gln,ENST00000313056,;OGFOD3,5_prime_UTR_variant,,ENST00000577495,;OGFOD3,intron_variant,,ENST00000583897,;OGFOD3,upstream_gene_variant,,ENST00000583445,;OGFOD3,non_coding_transcript_exon_variant,,ENST00000577606,;OGFOD3,stop_lost,p.Ter127SerextTer9,ENST00000580445,;OGFOD3,non_coding_transcript_exon_variant,,ENST00000579407,;	G	ENSG00000181396	ENST00000329197	Transcript	missense_variant	479	388	130	E/Q	Gaa/Caa	.	.	.	-1	OGFOD3	HGNC	26174	protein_coding	YES	CCDS11812.1	ENSP00000330075	OGFD3_HUMAN	.	UPI00001AF029	.	tolerated(0.11)	benign(0.112)	4/10	.	hmmpanther:PTHR14650,hmmpanther:PTHR14650:SF1,SMART_domains:SM00702	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTTCAGCTA	.	2	BLCA
PIK3R5	0	.	GRCh37	17	8789561	8789561	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113G>T	p.Ala705Ser	p.A705S	ENST00000447110	14/19	24	17	6	29	29	0	PIK3R5,missense_variant,p.Ala704Ser,ENST00000584803,;PIK3R5,missense_variant,p.Ala705Ser,ENST00000581552,;PIK3R5,missense_variant,p.Ala705Ser,ENST00000447110,;PIK3R5,upstream_gene_variant,,ENST00000585260,;PIK3R5,upstream_gene_variant,,ENST00000578743,;PIK3R5,downstream_gene_variant,,ENST00000583812,;PIK3R5,downstream_gene_variant,,ENST00000580959,;PIK3R5,downstream_gene_variant,,ENST00000577981,;PIK3R5,downstream_gene_variant,,ENST00000578457,;PIK3R5,downstream_gene_variant,,ENST00000584456,;PIK3R5,3_prime_UTR_variant,,ENST00000269300,;PIK3R5,non_coding_transcript_exon_variant,,ENST00000577214,;PIK3R5,non_coding_transcript_exon_variant,,ENST00000578515,;PIK3R5,downstream_gene_variant,,ENST00000583039,;PIK3R5,upstream_gene_variant,,ENST00000583810,;	A	ENSG00000141506	ENST00000447110	Transcript	missense_variant	2238	2113	705	A/S	Gcc/Tcc	.	.	.	-1	PIK3R5	HGNC	30035	protein_coding	YES	CCDS11147.1	ENSP00000392812	PI3R5_HUMAN	L7RT34_HUMAN,J3KT66_HUMAN,J3KRE9_HUMAN	UPI0000071DB4	.	deleterious(0.01)	possibly_damaging(0.843)	14/19	.	Pfam_domain:PF10486,hmmpanther:PTHR15593:SF2,hmmpanther:PTHR15593	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGGCACGTG	.	5	BLCA
IMPA2	0	.	GRCh37	18	12028068	12028068	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.517G>A	p.Glu173Lys	p.E173K	ENST00000269159	6/8	63	44	19	45	45	0	IMPA2,missense_variant,p.Glu173Lys,ENST00000269159,;IMPA2,5_prime_UTR_variant,,ENST00000588927,;IMPA2,5_prime_UTR_variant,,ENST00000589238,;RP11-703I16.1,downstream_gene_variant,,ENST00000587619,;IMPA2,non_coding_transcript_exon_variant,,ENST00000588752,;IMPA2,missense_variant,p.Arg121Lys,ENST00000586230,;IMPA2,3_prime_UTR_variant,,ENST00000590107,;IMPA2,3_prime_UTR_variant,,ENST00000590138,;IMPA2,non_coding_transcript_exon_variant,,ENST00000588167,;IMPA2,upstream_gene_variant,,ENST00000589374,;	A	ENSG00000141401	ENST00000269159	Transcript	missense_variant	759	517	173	E/K	Gaa/Aaa	.	.	.	1	IMPA2	HGNC	6051	protein_coding	YES	CCDS11855.1	ENSP00000269159	IMPA2_HUMAN	K7EII9_HUMAN	UPI000012FB90	.	deleterious(0)	probably_damaging(0.999)	6/8	.	hmmpanther:PTHR20854,hmmpanther:PTHR20854:SF29,Pfam_domain:PF00459,Gene3D:3.40.190.80,Superfamily_domains:SSF56655,Prints_domain:PR00378	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACAGAAATT	.	5	BLCA
TUBB6	0	.	GRCh37	18	12325598	12325598	+	Silent	SNP	C	C	T	rs776288663	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.810C>T	p.%3D	p.F270F	ENST00000317702	4/4	50	31	19	41	41	0	TUBB6,synonymous_variant,p.%3D,ENST00000590103,;TUBB6,synonymous_variant,p.%3D,ENST00000317702,;TUBB6,3_prime_UTR_variant,,ENST00000591208,;TUBB6,intron_variant,,ENST00000590967,;TUBB6,intron_variant,,ENST00000591909,;TUBB6,intron_variant,,ENST00000586691,;TUBB6,downstream_gene_variant,,ENST00000592683,;TUBB6,downstream_gene_variant,,ENST00000586653,;TUBB6,downstream_gene_variant,,ENST00000591463,;TUBB6,downstream_gene_variant,,ENST00000590693,;AFG3L2,downstream_gene_variant,,ENST00000269143,;TUBB6,3_prime_UTR_variant,,ENST00000586810,;TUBB6,non_coding_transcript_exon_variant,,ENST00000417736,;TUBB6,downstream_gene_variant,,ENST00000590388,;	T	ENSG00000176014	ENST00000317702	Transcript	synonymous_variant	1044	810	270	F	ttC/ttT	rs776288663,COSM986598	.	.	1	TUBB6	HGNC	20776	protein_coding	YES	CCDS11858.1	ENSP00000318697	TBB6_HUMAN	K7ES63_HUMAN,K7EL29_HUMAN,B4E386_HUMAN,B3KS31_HUMAN	UPI0000072BFF	.	.	.	4/4	.	Prints_domain:PR01163,Superfamily_domains:SSF55307,SMART_domains:SM00865,Pfam_domain:PF03953,Gene3D:3.30.1330.20,hmmpanther:PTHR11588:SF88,hmmpanther:PTHR11588	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCGCGCC	.	5	BLCA
SMCHD1	0	.	GRCh37	18	2673303	2673303	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.448G>A	p.Asp150Asn	p.D150N	ENST00000320876	4/48	22	17	5	18	18	0	SMCHD1,missense_variant,p.Asp150Asn,ENST00000320876,;SMCHD1,missense_variant,p.Asp150Asn,ENST00000261598,;	A	ENSG00000101596	ENST00000320876	Transcript	missense_variant	786	448	150	D/N	Gac/Aac	.	.	.	1	SMCHD1	HGNC	29090	protein_coding	YES	CCDS45822.1	ENSP00000326603	SMHD1_HUMAN	.	UPI00001D7AAD	.	deleterious(0)	probably_damaging(1)	4/48	.	hmmpanther:PTHR22640:SF2,hmmpanther:PTHR22640,Pfam_domain:PF13589,Gene3D:3.30.565.10,Superfamily_domains:SSF55874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAATTGACAAT	.	5	BLCA
DSG2	0	.	GRCh37	18	29116271	29116271	+	Silent	SNP	A	A	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1530A>G	p.%3D	p.A510A	ENST00000261590	11/15	58	46	11	35	35	0	DSG2,synonymous_variant,p.%3D,ENST00000261590,;	G	ENSG00000046604	ENST00000261590	Transcript	synonymous_variant	1739	1530	510	A	gcA/gcG	.	.	.	1	DSG2	HGNC	3049	protein_coding	YES	CCDS42423.1	ENSP00000261590	DSG2_HUMAN	.	UPI0000048E38	.	.	.	11/15	.	hmmpanther:PTHR24025,hmmpanther:PTHR24025:SF1,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGCAGAGTA	.	5	BLCA
POLI	0	.	GRCh37	18	51813712	51813712	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129G>C	p.Glu377Gln	p.E377Q	ENST00000579534	8/10	14	10	4	8	8	0	POLI,missense_variant,p.Glu89Gln,ENST00000579823,;POLI,missense_variant,p.Glu274Gln,ENST00000579434,;POLI,missense_variant,p.Glu298Gln,ENST00000406285,;POLI,missense_variant,p.Glu377Gln,ENST00000579534,;POLI,missense_variant,p.Glu251Gln,ENST00000217800,;POLI,downstream_gene_variant,,ENST00000583136,;POLI,non_coding_transcript_exon_variant,,ENST00000582366,;POLI,3_prime_UTR_variant,,ENST00000581950,;POLI,3_prime_UTR_variant,,ENST00000585023,;POLI,non_coding_transcript_exon_variant,,ENST00000583576,;POLI,non_coding_transcript_exon_variant,,ENST00000577361,;POLI,downstream_gene_variant,,ENST00000577971,;POLI,upstream_gene_variant,,ENST00000577727,;	C	ENSG00000101751	ENST00000579534	Transcript	missense_variant	1272	1129	377	E/Q	Gag/Cag	.	.	.	1	POLI	HGNC	9182	protein_coding	YES	CCDS11954.2	ENSP00000462664	POLI_HUMAN	J3QQZ8_HUMAN,J3KTN3_HUMAN,J3KSW2_HUMAN,J3KRS8_HUMAN,J3KRG0_HUMAN	UPI00004DDD95	.	tolerated(0.07)	benign(0.098)	8/10	.	hmmpanther:PTHR11076:SF10,hmmpanther:PTHR11076,Pfam_domain:PF11799,Gene3D:3.30.1490.100,Superfamily_domains:SSF100879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTGAGAAG	.	2	BLCA
TCF4	0	.	GRCh37	18	52937170	52937170	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1120G>T	p.Asp374Tyr	p.D374Y	ENST00000398339	12/21	90	68	22	62	62	0	TCF4,missense_variant,p.Asp142Tyr,ENST00000570177,;TCF4,missense_variant,p.Asp247Tyr,ENST00000568740,;TCF4,missense_variant,p.Asp272Tyr,ENST00000565018,;TCF4,missense_variant,p.Asp212Tyr,ENST00000566279,;TCF4,missense_variant,p.Asp248Tyr,ENST00000568673,;TCF4,missense_variant,p.Asp248Tyr,ENST00000537578,;TCF4,missense_variant,p.Asp201Tyr,ENST00000544241,;TCF4,missense_variant,p.Asp374Tyr,ENST00000398339,;TCF4,missense_variant,p.Asp278Tyr,ENST00000564403,;TCF4,missense_variant,p.Asp112Tyr,ENST00000570287,;TCF4,missense_variant,p.Asp230Tyr,ENST00000543082,;TCF4,missense_variant,p.Asp270Tyr,ENST00000566286,;TCF4,missense_variant,p.Asp212Tyr,ENST00000567880,;TCF4,missense_variant,p.Asp201Tyr,ENST00000564228,;TCF4,missense_variant,p.Asp142Tyr,ENST00000537856,;TCF4,missense_variant,p.Asp272Tyr,ENST00000354452,;TCF4,missense_variant,p.Asp248Tyr,ENST00000540999,;TCF4,missense_variant,p.Asp142Tyr,ENST00000569012,;TCF4,missense_variant,p.Asp112Tyr,ENST00000561831,;TCF4,missense_variant,p.Asp27Tyr,ENST00000570146,;TCF4,missense_variant,p.Asp276Tyr,ENST00000568169,;TCF4,missense_variant,p.Asp272Tyr,ENST00000564999,;TCF4,missense_variant,p.Asp248Tyr,ENST00000566514,;TCF4,missense_variant,p.Asp112Tyr,ENST00000457482,;TCF4,missense_variant,p.Asp272Tyr,ENST00000356073,;TCF4,missense_variant,p.Asp142Tyr,ENST00000561992,;TCF4,non_coding_transcript_exon_variant,,ENST00000563760,;TCF4,non_coding_transcript_exon_variant,,ENST00000562680,;TCF4,non_coding_transcript_exon_variant,,ENST00000563686,;	A	ENSG00000196628	ENST00000398339	Transcript	missense_variant	1177	1120	374	D/Y	Gac/Tac	.	.	.	-1	TCF4	HGNC	11634	protein_coding	YES	CCDS58631.1	ENSP00000381382	.	K7ERJ0_HUMAN,H3BUQ3_HUMAN,H3BTM9_HUMAN,H3BTC3_HUMAN,H3BT24_HUMAN,H3BSX3_HUMAN,H3BRF7_HUMAN,H3BPG3_HUMAN,H3BP59_HUMAN,H3BNZ2_HUMAN,H3BNI2_HUMAN,H3BME8_HUMAN,H3BMC8_HUMAN,G0LNT8_HUMAN,G0LNT7_HUMAN,G0LNT4_HUMAN,G0LNT3_HUMAN,E9PH57_HUMAN	UPI000059D58C	.	deleterious(0)	probably_damaging(0.989)	12/21	.	hmmpanther:PTHR11793,hmmpanther:PTHR11793:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGTCTGCTG	.	5	BLCA
VPS4B	0	.	GRCh37	18	61078764	61078764	+	Silent	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.75G>C	p.%3D	p.G25G	ENST00000238497	2/11	59	49	9	35	35	0	VPS4B,synonymous_variant,p.%3D,ENST00000591519,;VPS4B,synonymous_variant,p.%3D,ENST00000238497,;VPS4B,synonymous_variant,p.%3D,ENST00000588059,;VPS4B,non_coding_transcript_exon_variant,,ENST00000589604,;VPS4B,non_coding_transcript_exon_variant,,ENST00000591475,;RP11-635N19.2,downstream_gene_variant,,ENST00000589763,;	G	ENSG00000119541	ENST00000238497	Transcript	synonymous_variant	279	75	25	G	ggG/ggC	.	.	.	-1	VPS4B	HGNC	10895	protein_coding	YES	CCDS11983.1	ENSP00000238497	VPS4B_HUMAN	.	UPI0000073CAF	.	.	.	2/11	.	hmmpanther:PTHR23074:SF72,hmmpanther:PTHR23074,Pfam_domain:PF04212,Gene3D:1.20.58.280,SMART_domains:SM00745,Superfamily_domains:SSF116846	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTCCCAGC	.	5	BLCA
ZNF516	0	.	GRCh37	18	74090955	74090955	+	Silent	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3114C>G	p.%3D	p.V1038V	ENST00000443185	5/8	83	71	12	58	58	0	ZNF516,synonymous_variant,p.%3D,ENST00000443185,;ZNF516,upstream_gene_variant,,ENST00000542818,;RP11-504I13.3,downstream_gene_variant,,ENST00000583287,;ZNF516,non_coding_transcript_exon_variant,,ENST00000529449,;ZNF516,non_coding_transcript_exon_variant,,ENST00000524431,;	C	ENSG00000101493	ENST00000443185	Transcript	synonymous_variant	3432	3114	1038	V	gtC/gtG	.	.	.	-1	ZNF516	HGNC	28990	protein_coding	YES	.	ENSP00000394757	ZN516_HUMAN	F5H2K2_HUMAN	UPI00001394A1	.	.	.	5/8	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V1037fs*122|c.3108delC|28	SOMATICSNIPER|VARSCANS	TGTAGGACGGG	.	2	BLCA
ZNF516	0	.	GRCh37	18	74091033	74091033	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3037C>G	p.Leu1013Val	p.L1013V	ENST00000443185	4/8	33	27	5	35	35	0	ZNF516,missense_variant,p.Leu1013Val,ENST00000443185,;ZNF516,upstream_gene_variant,,ENST00000542818,;RP11-504I13.3,downstream_gene_variant,,ENST00000583287,;ZNF516,non_coding_transcript_exon_variant,,ENST00000529449,;ZNF516,non_coding_transcript_exon_variant,,ENST00000524431,;	C	ENSG00000101493	ENST00000443185	Transcript	missense_variant	3355	3037	1013	L/V	Ctg/Gtg	.	.	.	-1	ZNF516	HGNC	28990	protein_coding	YES	.	ENSP00000394757	ZN516_HUMAN	F5H2K2_HUMAN	UPI00001394A1	.	tolerated(0.52)	possibly_damaging(0.53)	4/8	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCCAGAGTCC	.	3	BLCA
ZNF516	0	.	GRCh37	18	74091081	74091081	+	Missense_Mutation	SNP	G	G	C	rs780700103	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2989C>G	p.Leu997Val	p.L997V	ENST00000443185	4/8	32	21	10	30	30	0	ZNF516,missense_variant,p.Leu997Val,ENST00000443185,;ZNF516,upstream_gene_variant,,ENST00000542818,;RP11-504I13.3,downstream_gene_variant,,ENST00000583287,;ZNF516,non_coding_transcript_exon_variant,,ENST00000529449,;ZNF516,non_coding_transcript_exon_variant,,ENST00000524431,;	C	ENSG00000101493	ENST00000443185	Transcript	missense_variant	3307	2989	997	L/V	Cta/Gta	rs780700103	.	.	-1	ZNF516	HGNC	28990	protein_coding	YES	.	ENSP00000394757	ZN516_HUMAN	F5H2K2_HUMAN	UPI00001394A1	.	tolerated(0.53)	benign(0.184)	4/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGTAGAGGAG	.	3	BLCA
ZNF516	0	.	GRCh37	18	74091111	74091111	+	Missense_Mutation	SNP	G	G	T	rs752319643	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2959C>A	p.Pro987Thr	p.P987T	ENST00000443185	4/8	43	36	6	25	25	0	ZNF516,missense_variant,p.Pro987Thr,ENST00000443185,;ZNF516,upstream_gene_variant,,ENST00000542818,;RP11-504I13.3,downstream_gene_variant,,ENST00000583287,;ZNF516,non_coding_transcript_exon_variant,,ENST00000529449,;ZNF516,non_coding_transcript_exon_variant,,ENST00000524431,;	T	ENSG00000101493	ENST00000443185	Transcript	missense_variant	3277	2959	987	P/T	Cct/Act	rs752319643	.	.	-1	ZNF516	HGNC	28990	protein_coding	YES	.	ENSP00000394757	ZN516_HUMAN	F5H2K2_HUMAN	UPI00001394A1	.	tolerated(0.51)	benign(0.001)	4/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCAGGAGGTG	.	3	BLCA
ZNF516	0	.	GRCh37	18	74091117	74091117	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2953C>T	p.Pro985Ser	p.P985S	ENST00000443185	4/8	45	36	8	24	24	0	ZNF516,missense_variant,p.Pro985Ser,ENST00000443185,;ZNF516,upstream_gene_variant,,ENST00000542818,;RP11-504I13.3,downstream_gene_variant,,ENST00000583287,;ZNF516,non_coding_transcript_exon_variant,,ENST00000529449,;ZNF516,non_coding_transcript_exon_variant,,ENST00000524431,;	A	ENSG00000101493	ENST00000443185	Transcript	missense_variant	3271	2953	985	P/S	Cca/Tca	.	.	.	-1	ZNF516	HGNC	28990	protein_coding	YES	.	ENSP00000394757	ZN516_HUMAN	F5H2K2_HUMAN	UPI00001394A1	.	tolerated(0.17)	benign(0.002)	4/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGTGGACCCT	.	3	BLCA
ZNF516	0	.	GRCh37	18	74091295	74091295	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2775C>T	p.%3D	p.F925F	ENST00000443185	4/8	47	41	6	23	23	0	ZNF516,synonymous_variant,p.%3D,ENST00000443185,;ZNF516,upstream_gene_variant,,ENST00000542818,;RP11-504I13.3,downstream_gene_variant,,ENST00000583287,;ZNF516,non_coding_transcript_exon_variant,,ENST00000529449,;ZNF516,non_coding_transcript_exon_variant,,ENST00000524431,;	A	ENSG00000101493	ENST00000443185	Transcript	synonymous_variant	3093	2775	925	F	ttC/ttT	.	.	.	-1	ZNF516	HGNC	28990	protein_coding	YES	.	ENSP00000394757	ZN516_HUMAN	F5H2K2_HUMAN	UPI00001394A1	.	.	.	4/8	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTGAAGCC	.	4	BLCA
ZNF516	0	.	GRCh37	18	74091357	74091357	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2713C>T	p.%3D	p.L905L	ENST00000443185	4/8	50	35	14	37	37	0	ZNF516,synonymous_variant,p.%3D,ENST00000443185,;ZNF516,upstream_gene_variant,,ENST00000542818,;RP11-504I13.3,downstream_gene_variant,,ENST00000583287,;ZNF516,non_coding_transcript_exon_variant,,ENST00000529449,;ZNF516,non_coding_transcript_exon_variant,,ENST00000524431,;	A	ENSG00000101493	ENST00000443185	Transcript	synonymous_variant	3031	2713	905	L	Ctg/Ttg	.	.	.	-1	ZNF516	HGNC	28990	protein_coding	YES	.	ENSP00000394757	ZN516_HUMAN	F5H2K2_HUMAN	UPI00001394A1	.	.	.	4/8	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCAGGGGCC	.	5	BLCA
KEAP1	0	.	GRCh37	19	10610576	10610576	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.134C>T	p.Ser45Phe	p.S45F	ENST00000171111	2/6	78	49	28	86	86	0	KEAP1,missense_variant,p.Ser45Phe,ENST00000591419,;KEAP1,missense_variant,p.Ser45Phe,ENST00000591039,;KEAP1,missense_variant,p.Ser45Phe,ENST00000393623,;KEAP1,missense_variant,p.Ser45Phe,ENST00000171111,;KEAP1,missense_variant,p.Ser45Phe,ENST00000592055,;KEAP1,upstream_gene_variant,,ENST00000588024,;KEAP1,intron_variant,,ENST00000585845,;	A	ENSG00000079999	ENST00000171111	Transcript	missense_variant	682	134	45	S/F	tCc/tTc	COSM3959488,COSM4073873	.	.	-1	KEAP1	HGNC	23177	protein_coding	YES	CCDS12239.1	ENSP00000171111	KEAP1_HUMAN	K7ESE0_HUMAN,K7EJD8_HUMAN,K7EJ49_HUMAN	UPI000007139C	.	deleterious(0)	probably_damaging(0.998)	2/6	.	hmmpanther:PTHR24412:SF162,hmmpanther:PTHR24412,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGGGAGGGC	.	5	BLCA
AP1M2	0	.	GRCh37	19	10687928	10687928	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993C>T	p.%3D	p.S331S	ENST00000250244	9/12	20	11	9	16	16	0	AP1M2,synonymous_variant,p.%3D,ENST00000592285,;AP1M2,synonymous_variant,p.%3D,ENST00000250244,;AP1M2,synonymous_variant,p.%3D,ENST00000590923,;AP1M2,synonymous_variant,p.%3D,ENST00000587069,;AP1M2,downstream_gene_variant,,ENST00000591676,;AP1M2,upstream_gene_variant,,ENST00000589348,;AP1M2,downstream_gene_variant,,ENST00000591240,;AP1M2,downstream_gene_variant,,ENST00000589684,;AP1M2,downstream_gene_variant,,ENST00000589571,;	A	ENSG00000129354	ENST00000250244	Transcript	synonymous_variant	1076	993	331	S	agC/agT	.	.	.	-1	AP1M2	HGNC	558	protein_coding	YES	CCDS45964.1	ENSP00000250244	AP1M2_HUMAN	K7EPR4_HUMAN	UPI0000124FEB	.	.	.	9/12	.	PROSITE_profiles:PS51072,hmmpanther:PTHR11998:SF26,hmmpanther:PTHR11998,Pfam_domain:PF00928,PIRSF_domain:PIRSF005992,Superfamily_domains:0038852	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGCGCTGCC	.	5	BLCA
DKFZP761J1410	0	.	GRCh37	19	11472107	11472107	+	Silent	SNP	C	C	T	rs778658442	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>T	p.%3D	p.R177R	ENST00000591608	6/10	30	21	9	45	45	0	DKFZP761J1410,synonymous_variant,p.%3D,ENST00000251473,;DKFZP761J1410,synonymous_variant,p.%3D,ENST00000591608,;DKFZP761J1410,downstream_gene_variant,,ENST00000591329,;DKFZP761J1410,downstream_gene_variant,,ENST00000586380,;DKFZP761J1410,downstream_gene_variant,,ENST00000586431,;DKFZP761J1410,non_coding_transcript_exon_variant,,ENST00000588360,;DKFZP761J1410,non_coding_transcript_exon_variant,,ENST00000587801,;DKFZP761J1410,downstream_gene_variant,,ENST00000588196,;	T	ENSG00000105520	ENST00000591608	Transcript	synonymous_variant	795	531	177	R	cgC/cgT	rs778658442	.	.	1	DKFZP761J1410	Uniprot_gn	.	protein_coding	YES	CCDS59352.1	ENSP00000466898	.	Q69YU8_HUMAN,K7EMX8_HUMAN	UPI00001AE726	.	.	.	6/10	.	hmmpanther:PTHR10165:SF15,hmmpanther:PTHR10165,Gene3D:1.20.144.10,Pfam_domain:PF01569,SMART_domains:SM00014,Superfamily_domains:SSF48317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCGCCGCGC	byFrequency	5	BLCA
MED26	0	.	GRCh37	19	16687484	16687484	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1157C>T	p.Ser386Leu	p.S386L	ENST00000263390	3/3	27	17	10	24	24	0	MED26,missense_variant,p.Ser386Leu,ENST00000263390,;CTC-429P9.4,downstream_gene_variant,,ENST00000593459,;SLC35E1,upstream_gene_variant,,ENST00000436553,;SLC35E1,upstream_gene_variant,,ENST00000431408,;MED26,downstream_gene_variant,,ENST00000598608,;MED26,downstream_gene_variant,,ENST00000601478,;SLC35E1,upstream_gene_variant,,ENST00000595753,;MED26,downstream_gene_variant,,ENST00000600060,;MED26,downstream_gene_variant,,ENST00000598492,;CTC-429P9.4,downstream_gene_variant,,ENST00000593962,;CTD-3222D19.2,missense_variant,p.Ser394Leu,ENST00000409035,;MED26,non_coding_transcript_exon_variant,,ENST00000597244,;CTC-429P9.4,downstream_gene_variant,,ENST00000601636,;CTC-429P9.4,downstream_gene_variant,,ENST00000593991,;CTC-429P9.4,downstream_gene_variant,,ENST00000600705,;CTC-429P9.4,downstream_gene_variant,,ENST00000595505,;CTC-429P9.4,downstream_gene_variant,,ENST00000594509,;SLC35E1,upstream_gene_variant,,ENST00000488894,;	A	ENSG00000105085	ENST00000263390	Transcript	missense_variant	1420	1157	386	S/L	tCa/tTa	.	.	.	-1	MED26	HGNC	2376	protein_coding	YES	CCDS12347.1	ENSP00000263390	MED26_HUMAN	M0R2P1_HUMAN,M0QXW8_HUMAN	UPI000013D3FC	.	deleterious(0.01)	benign(0.424)	3/3	.	hmmpanther:PTHR15201,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTGAGGAG	.	5	BLCA
PDE4C	0	.	GRCh37	19	18333084	18333084	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292C>G	p.Gln98Glu	p.Q98E	ENST00000355502	6/19	28	15	12	54	54	0	PDE4C,missense_variant,p.Gln98Glu,ENST00000594465,;PDE4C,missense_variant,p.Gln98Glu,ENST00000594617,;PDE4C,missense_variant,p.Gln66Glu,ENST00000262805,;PDE4C,missense_variant,p.Gln98Glu,ENST00000355502,;PDE4C,5_prime_UTR_variant,,ENST00000447275,;PDE4C,5_prime_UTR_variant,,ENST00000610023,;PDE4C,upstream_gene_variant,,ENST00000597297,;PDE4C,downstream_gene_variant,,ENST00000599754,;PDE4C,upstream_gene_variant,,ENST00000598111,;PDE4C,upstream_gene_variant,,ENST00000539010,;AC068499.10,downstream_gene_variant,,ENST00000594805,;PDE4C,missense_variant,p.Gln66Glu,ENST00000599188,;PDE4C,non_coding_transcript_exon_variant,,ENST00000597360,;PDE4C,upstream_gene_variant,,ENST00000597573,;PDE4C,upstream_gene_variant,,ENST00000593594,;PDE4C,upstream_gene_variant,,ENST00000595343,;	C	ENSG00000105650	ENST00000355502	Transcript	missense_variant	1164	292	98	Q/E	Cag/Gag	.	.	.	-1	PDE4C	HGNC	8782	protein_coding	YES	CCDS12373.1	ENSP00000347689	PDE4C_HUMAN	Q9UPJ5_HUMAN,Q9P1U3_HUMAN,Q32MM7_HUMAN,O76105_HUMAN,M0R1P5_HUMAN,B7Z2S3_HUMAN	UPI0000127BF8	.	deleterious_low_confidence(0.02)	benign(0.002)	6/19	.	hmmpanther:PTHR11347:SF94,hmmpanther:PTHR11347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTGAGGGT	.	5	BLCA
ZNF626	0	.	GRCh37	19	20808062	20808062	+	Silent	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.621C>G	p.%3D	p.G207G	ENST00000601440	4/4	42	19	23	36	36	0	ZNF626,synonymous_variant,p.%3D,ENST00000601440,;ZNF626,synonymous_variant,p.%3D,ENST00000595405,;CTC-513N18.7,intron_variant,,ENST00000595094,;	C	ENSG00000188171	ENST00000601440	Transcript	synonymous_variant	768	621	207	G	ggC/ggG	.	.	.	-1	ZNF626	HGNC	30461	protein_coding	YES	CCDS42535.1	ENSP00000469958	ZN626_HUMAN	M0QY39_HUMAN,I0CMK8_HUMAN	UPI000035E843	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384:SF105,hmmpanther:PTHR24384,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTGCCACA	.	5	BLCA
ZNF714	0	.	GRCh37	19	21299711	21299711	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241G>C	p.Glu81Gln	p.E81Q	ENST00000596143	5/5	28	20	8	44	44	0	ZNF714,missense_variant,p.Glu81Gln,ENST00000596143,;ZNF714,missense_variant,p.Glu109Gln,ENST00000596367,;ZNF714,3_prime_UTR_variant,,ENST00000601416,;ZNF714,3_prime_UTR_variant,,ENST00000291770,;ZNF714,5_prime_UTR_variant,,ENST00000597424,;ZNF714,5_prime_UTR_variant,,ENST00000597086,;ZNF714,intron_variant,,ENST00000596053,;RNA5SP469,upstream_gene_variant,,ENST00000364165,;ZNF714,missense_variant,p.Glu81Gln,ENST00000600435,;ZNF714,3_prime_UTR_variant,,ENST00000600770,;AC010620.1,upstream_gene_variant,,ENST00000456283,;	C	ENSG00000160352	ENST00000596143	Transcript	missense_variant	566	241	81	E/Q	Gag/Cag	.	.	.	1	ZNF714	HGNC	27124	protein_coding	YES	CCDS54239.1	ENSP00000472368	ZN714_HUMAN	M0R2G4_HUMAN,M0QYV9_HUMAN	UPI000059D6C5	.	deleterious(0.04)	benign(0.372)	5/5	.	hmmpanther:PTHR24384:SF104,hmmpanther:PTHR24384	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATGAGAAT	.	5	BLCA
CEP89	0	.	GRCh37	19	33439190	33439190	+	Nonsense_Mutation	SNP	G	G	A	rs760910898	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.577C>T	p.Gln193Ter	p.Q193*	ENST00000305768	5/19	22	15	7	15	15	0	CEP89,stop_gained,p.Gln193Ter,ENST00000590597,;CEP89,stop_gained,p.Gln165Ter,ENST00000593276,;CEP89,stop_gained,p.Gln193Ter,ENST00000305768,;CEP89,stop_gained,p.Gln109Ter,ENST00000591698,;CEP89,stop_gained,p.Gln193Ter,ENST00000586984,;	A	ENSG00000121289	ENST00000305768	Transcript	stop_gained	666	577	193	Q/*	Cag/Tag	rs760910898	.	.	-1	CEP89	HGNC	25907	protein_coding	YES	CCDS32987.1	ENSP00000306105	CEP89_HUMAN	.	UPI000020202C	.	.	.	5/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCTGTGGTG	.	5	BLCA
ZNF181	0	.	GRCh37	19	35231800	35231800	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.514G>A	p.Glu172Lys	p.E172K	ENST00000492450	4/4	61	29	32	44	44	0	ZNF181,missense_variant,p.Glu172Lys,ENST00000492450,;ZNF181,missense_variant,p.Glu171Lys,ENST00000459757,;ZNF181,missense_variant,p.Glu216Lys,ENST00000392232,;ZNF181,downstream_gene_variant,,ENST00000599244,;ZNF181,downstream_gene_variant,,ENST00000595708,;ZNF181,downstream_gene_variant,,ENST00000593781,;ZNF181,non_coding_transcript_exon_variant,,ENST00000448715,;	A	ENSG00000197841	ENST00000492450	Transcript	missense_variant	603	514	172	E/K	Gaa/Aaa	.	.	.	1	ZNF181	HGNC	12971	protein_coding	YES	CCDS32990.2	ENSP00000420727	ZN181_HUMAN	B4DM69_HUMAN	UPI000020207A	.	tolerated(0.83)	benign(0.142)	4/4	.	hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAACCA	.	5	BLCA
KIRREL2	0	.	GRCh37	19	36349363	36349363	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265C>A	p.His89Asn	p.H89N	ENST00000360202	3/15	54	27	26	62	62	0	KIRREL2,missense_variant,p.His89Asn,ENST00000592409,;KIRREL2,missense_variant,p.His89Asn,ENST00000262625,;KIRREL2,missense_variant,p.His89Asn,ENST00000360202,;KIRREL2,missense_variant,p.His89Asn,ENST00000586102,;KIRREL2,missense_variant,p.His39Asn,ENST00000347900,;NPHS1,intron_variant,,ENST00000591817,;	A	ENSG00000126259	ENST00000360202	Transcript	missense_variant	463	265	89	H/N	Cac/Aac	.	.	.	1	KIRREL2	HGNC	18816	protein_coding	YES	CCDS12481.1	ENSP00000353331	KIRR2_HUMAN	.	UPI0000366DD8	.	tolerated(0.13)	possibly_damaging(0.711)	3/15	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11640,hmmpanther:PTHR11640:SF51,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTCCACATT	.	5	BLCA
MATK	0	.	GRCh37	19	3781620	3781620	+	Missense_Mutation	SNP	C	C	G	rs771185238	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.730G>C	p.Glu244Gln	p.E244Q	ENST00000395045	8/14	51	38	13	46	46	0	MATK,missense_variant,p.Glu124Gln,ENST00000587180,;MATK,missense_variant,p.Glu243Gln,ENST00000585778,;MATK,missense_variant,p.Glu244Gln,ENST00000395045,;MATK,missense_variant,p.Glu202Gln,ENST00000395040,;MATK,missense_variant,p.Glu243Gln,ENST00000310132,;MATK,missense_variant,p.Glu150Gln,ENST00000588983,;MATK,missense_variant,p.Glu158Gln,ENST00000590493,;MATK,downstream_gene_variant,,ENST00000590849,;MATK,downstream_gene_variant,,ENST00000590980,;MATK,downstream_gene_variant,,ENST00000591059,;MATK,downstream_gene_variant,,ENST00000590028,;	G	ENSG00000007264	ENST00000395045	Transcript	missense_variant	1068	730	244	E/Q	Gag/Cag	rs771185238	.	.	-1	MATK	HGNC	6906	protein_coding	YES	CCDS12113.1	ENSP00000378485	MATK_HUMAN	K7ERY4_HUMAN,K7EQV3_HUMAN	UPI000013FB32	.	tolerated(0.15)	benign(0.34)	8/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418:SF50,hmmpanther:PTHR24418,PROSITE_patterns:PS00107,Pfam_domain:PF07714,Gene3D:3.30.200.20,SMART_domains:SM00219,Superfamily_domains:SSF55550,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCTCCGA	.	5	BLCA
ZNF573	0	.	GRCh37	19	38230505	38230505	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.886C>T	p.His296Tyr	p.H296Y	ENST00000590414	4/4	84	36	47	95	95	0	ZNF573,missense_variant,p.His208Tyr,ENST00000357309,;ZNF573,missense_variant,p.His209Tyr,ENST00000392138,;ZNF573,missense_variant,p.His238Tyr,ENST00000339503,;ZNF573,missense_variant,p.His296Tyr,ENST00000590414,;ZNF573,missense_variant,p.His208Tyr,ENST00000536220,;ZNF573,downstream_gene_variant,,ENST00000585724,;ZNF573,downstream_gene_variant,,ENST00000378445,;ZNF573,intron_variant,,ENST00000590674,;ZNF573,3_prime_UTR_variant,,ENST00000589632,;ZNF573,3_prime_UTR_variant,,ENST00000586155,;ZNF573,downstream_gene_variant,,ENST00000591516,;ZNF573,downstream_gene_variant,,ENST00000489148,;	A	ENSG00000189144	ENST00000590414	Transcript	missense_variant	908	886	296	H/Y	Cat/Tat	.	.	.	-1	ZNF573	HGNC	26420	protein_coding	YES	CCDS59381.1	ENSP00000465020	.	K7EJ45_HUMAN	UPI000059D70C	.	deleterious(0.01)	probably_damaging(0.988)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF159,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTATGAAACT	.	5	BLCA
AC104534.3	0	.	GRCh37	19	39328285	39328285	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414G>A	p.Asp139Asn	p.D139N	ENST00000594769	4/8	20	14	6	24	24	0	AC104534.3,missense_variant,p.Asp31Asn,ENST00000602021,;HNRNPL,missense_variant,p.Asp389Asn,ENST00000600873,;HNRNPL,missense_variant,p.Asp463Asn,ENST00000601449,;HNRNPL,missense_variant,p.Asp522Asn,ENST00000221419,;AC104534.3,missense_variant,p.Asp139Asn,ENST00000594769,;HNRNPL,3_prime_UTR_variant,,ENST00000388749,;HNRNPL,non_coding_transcript_exon_variant,,ENST00000595443,;HNRNPL,non_coding_transcript_exon_variant,,ENST00000595164,;HNRNPL,non_coding_transcript_exon_variant,,ENST00000597731,;HNRNPL,downstream_gene_variant,,ENST00000598985,;HNRNPL,downstream_gene_variant,,ENST00000601664,;HNRNPL,upstream_gene_variant,,ENST00000595804,;	T	ENSG00000268083	ENST00000594769	Transcript	missense_variant	414	415	139	D/N	Gat/Aat	.	.	.	-1	AC104534.3	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000470059	.	M0QXS7_HUMAN	UPI0002A47614	.	tolerated(0.28)	unknown(0)	4/8	.	hmmpanther:PTHR11546:SF19,hmmpanther:PTHR11546,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCGCAGA	.	5	BLCA
CHAF1A	0	.	GRCh37	19	4409115	4409115	+	Missense_Mutation	SNP	G	G	A	rs775109223	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319G>A	p.Glu107Lys	p.E107K	ENST00000301280	3/15	109	92	17	110	110	0	CHAF1A,missense_variant,p.Glu107Lys,ENST00000301280,;CHAF1A,missense_variant,p.Glu90Lys,ENST00000585854,;CHAF1A,upstream_gene_variant,,ENST00000587739,;CHAF1A,non_coding_transcript_exon_variant,,ENST00000587580,;	A	ENSG00000167670	ENST00000301280	Transcript	missense_variant	420	319	107	E/K	Gaa/Aaa	rs775109223,COSM177330	.	.	1	CHAF1A	HGNC	1910	protein_coding	YES	CCDS32875.1	ENSP00000301280	CAF1A_HUMAN	.	UPI00002030F8	.	tolerated(1)	benign(0.305)	3/15	.	hmmpanther:PTHR15272,hmmpanther:PTHR15272:SF0,Pfam_domain:PF15557	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATCGAAACC	byFrequency	4	BLCA
ZNF180	0	.	GRCh37	19	44980579	44980579	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*40C>G	.	.	ENST00000221327	5/5	33	15	18	36	36	0	ZNF180,3_prime_UTR_variant,,ENST00000592529,;ZNF180,3_prime_UTR_variant,,ENST00000391956,;ZNF180,3_prime_UTR_variant,,ENST00000221327,;ZNF180,downstream_gene_variant,,ENST00000587047,;ZNF180,downstream_gene_variant,,ENST00000586637,;ZNF180,downstream_gene_variant,,ENST00000591064,;AC069278.4,upstream_gene_variant,,ENST00000591684,;ZNF180,downstream_gene_variant,,ENST00000585514,;ZNF180,3_prime_UTR_variant,,ENST00000592095,;ZNF180,3_prime_UTR_variant,,ENST00000590088,;ZNF285B,downstream_gene_variant,,ENST00000561698,;ZNF285B,downstream_gene_variant,,ENST00000318605,;	C	ENSG00000167384	ENST00000221327	Transcript	3_prime_UTR_variant	2401	.	.	.	.	.	.	.	-1	ZNF180	HGNC	12970	protein_coding	YES	CCDS12639.1	ENSP00000221327	ZN180_HUMAN	K7EQX9_HUMAN,K7EQP0_HUMAN	UPI000013C7BD	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TAAAAGAATGA	.	4	BLCA
SLC1A5	0	.	GRCh37	19	47290956	47290956	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267C>T	p.%3D	p.F89F	ENST00000542575	1/8	9	4	5	9	9	0	SLC1A5,synonymous_variant,p.%3D,ENST00000542575,;SLC1A5,upstream_gene_variant,,ENST00000412532,;SLC1A5,upstream_gene_variant,,ENST00000434726,;SLC1A5,upstream_gene_variant,,ENST00000594991,;SLC1A5,upstream_gene_variant,,ENST00000598022,;SLC1A5,upstream_gene_variant,,ENST00000593713,;	A	ENSG00000105281	ENST00000542575	Transcript	synonymous_variant	896	267	89	F	ttC/ttT	.	.	.	-1	SLC1A5	HGNC	10943	protein_coding	YES	CCDS12692.1	ENSP00000444408	AAAT_HUMAN	M0R144_HUMAN	UPI000012507D	.	.	.	1/8	.	hmmpanther:PTHR11958,hmmpanther:PTHR11958:SF19,Gene3D:2nwlC00,Pfam_domain:PF00375,Superfamily_domains:0053221	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGACGAAGGC	.	3	BLCA
CCDC114	0	.	GRCh37	19	48807360	48807360	+	Missense_Mutation	SNP	G	G	A	rs113520498	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592C>T	p.Arg198Cys	p.R198C	ENST00000315396	7/14	57	31	25	67	67	0	CCDC114,missense_variant,p.Arg198Cys,ENST00000315396,;CCDC114,downstream_gene_variant,,ENST00000504608,;CCDC114,non_coding_transcript_exon_variant,,ENST00000474199,;CCDC114,upstream_gene_variant,,ENST00000497273,;	A	ENSG00000105479	ENST00000315396	Transcript	missense_variant	1275	592	198	R/C	Cgc/Tgc	rs113520498	.	.	-1	CCDC114	HGNC	26560	protein_coding	YES	CCDS12714.2	ENSP00000318429	CC114_HUMAN	.	UPI0000EE7B5F	.	deleterious(0)	probably_damaging(1)	7/14	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21694:SF18,hmmpanther:PTHR21694	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCGCGCTCCC	byCluster	5	BLCA
PTH2	0	.	GRCh37	19	49925824	49925824	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204C>T	p.%3D	p.D68D	ENST00000270631	2/2	22	16	6	16	16	0	PTH2,synonymous_variant,p.%3D,ENST00000270631,;CCDC155,downstream_gene_variant,,ENST00000447857,;GFY,upstream_gene_variant,,ENST00000576655,;CCDC155,downstream_gene_variant,,ENST00000600570,;	A	ENSG00000142538	ENST00000270631	Transcript	synonymous_variant	306	204	68	D	gaC/gaT	.	.	.	-1	PTH2	HGNC	30828	protein_coding	YES	CCDS12763.1	ENSP00000270631	TIP39_HUMAN	.	UPI000006DF4C	.	.	.	2/2	.	Low_complexity_(Seg):seg,Pfam_domain:PF14980	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGCGTCGTC	.	5	BLCA
CELSR2	0	.	GRCh37	1	109793200	109793200	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499C>G	p.Leu167Val	p.L167V	ENST00000271332	1/34	36	19	17	41	41	0	CELSR2,missense_variant,p.Leu167Val,ENST00000271332,;	G	ENSG00000143126	ENST00000271332	Transcript	missense_variant	560	499	167	L/V	Ctg/Gtg	.	.	.	1	CELSR2	HGNC	3231	protein_coding	YES	CCDS796.1	ENSP00000271332	CELR2_HUMAN	.	UPI00000015B6	.	tolerated(0.39)	benign(0)	1/34	.	hmmpanther:PTHR24026:SF32,hmmpanther:PTHR24026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCCCTGGGT	.	5	BLCA
VPS13D	0	.	GRCh37	1	12476781	12476781	+	Silent	SNP	G	G	A	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12234G>A	p.%3D	p.L4078L	ENST00000358136	65/70	78	63	15	64	64	0	VPS13D,synonymous_variant,p.%3D,ENST00000358136,;VPS13D,synonymous_variant,p.%3D,ENST00000011700,;VPS13D,synonymous_variant,p.%3D,ENST00000356315,;VPS13D,synonymous_variant,p.%3D,ENST00000543766,;VPS13D,non_coding_transcript_exon_variant,,ENST00000476045,;VPS13D,non_coding_transcript_exon_variant,,ENST00000481484,;VPS13D,non_coding_transcript_exon_variant,,ENST00000496628,;	A	ENSG00000048707	ENST00000358136	Transcript	synonymous_variant	12364	12234	4078	L	ttG/ttA	COSM3385101	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	.	65/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTGAATGA	.	5	BLCA
PRAMEF11	0	.	GRCh37	1	12888368	12888368	+	Silent	SNP	C	C	A	rs764000876	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156G>T	p.%3D	p.G52G	ENST00000535591	2/4	45	40	4	54	54	0	PRAMEF11,synonymous_variant,p.%3D,ENST00000535591,;PRAMEF11,synonymous_variant,p.%3D,ENST00000437584,;	A	ENSG00000204513	ENST00000535591	Transcript	synonymous_variant	352	156	52	G	ggG/ggT	rs764000876,COSM4142330	.	.	-1	PRAMEF11	HGNC	14086	protein_coding	YES	CCDS53268.1	ENSP00000439551	PRA11_HUMAN	.	UPI00001D7634	.	.	.	2/4	.	hmmpanther:PTHR14224:SF19,hmmpanther:PTHR14224,PIRSF_domain:PIRSF038286	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	CGAACCCCTTG	byFrequency	2	BLCA
GABPB2	0	.	GRCh37	1	151079548	151079548	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772G>C	p.Asp258His	p.D258H	ENST00000368918	7/9	47	32	15	45	45	0	GABPB2,missense_variant,p.Asp220His,ENST00000368916,;GABPB2,missense_variant,p.Asp220His,ENST00000368917,;GABPB2,missense_variant,p.Asp258His,ENST00000368918,;GABPB2,non_coding_transcript_exon_variant,,ENST00000467551,;GABPB2,non_coding_transcript_exon_variant,,ENST00000489549,;RP11-68I18.2,downstream_gene_variant,,ENST00000456396,;	C	ENSG00000143458	ENST00000368918	Transcript	missense_variant	1103	772	258	D/H	Gac/Cac	.	.	.	1	GABPB2	HGNC	28441	protein_coding	YES	CCDS983.1	ENSP00000357914	GABP2_HUMAN	.	UPI000004C094	.	deleterious(0)	possibly_damaging(0.895)	7/9	.	hmmpanther:PTHR24193,hmmpanther:PTHR24193:SF72	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTTGACTCA	.	5	BLCA
TCHH	0	.	GRCh37	1	152080026	152080026	+	Silent	SNP	C	C	T	rs374186199	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5667G>A	p.%3D	p.Q1889Q	ENST00000368804	2/2	102	88	14	88	88	0	TCHH,synonymous_variant,p.%3D,ENST00000368804,;	T	ENSG00000159450	ENST00000368804	Transcript	synonymous_variant	5667	5667	1889	Q	caG/caA	rs374186199	.	.	-1	TCHH	HGNC	11791	protein_coding	YES	CCDS41396.1	ENSP00000357794	TRHY_HUMAN	Q5D861_HUMAN,A2RRS3_HUMAN	UPI0000458A5E	.	.	.	2/2	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGCTG	.	4	BLCA
KPRP	0	.	GRCh37	1	152733513	152733513	+	Silent	SNP	G	G	T	rs746228067	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1449G>T	p.%3D	p.A483A	ENST00000368773	2/2	76	63	13	72	72	0	KPRP,synonymous_variant,p.%3D,ENST00000368773,;KPRP,synonymous_variant,p.%3D,ENST00000606109,;	T	ENSG00000203786	ENST00000368773	Transcript	synonymous_variant	1507	1449	483	A	gcG/gcT	rs746228067,COSM237636	.	.	1	KPRP	HGNC	31823	protein_coding	YES	CCDS30862.1	ENSP00000357762	KPRP_HUMAN	.	UPI0000199942	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12241,hmmpanther:PTHR12241:SF98	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGCGCCCTG	.	5	BLCA
RXFP4	0	.	GRCh37	1	155912557	155912557	+	Missense_Mutation	SNP	G	G	A	rs761985012	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057G>A	p.Ala353Thr	p.A353T	ENST00000368318	1/1	46	31	15	40	40	0	RXFP4,missense_variant,p.Ala353Thr,ENST00000368318,;ARHGEF2,downstream_gene_variant,,ENST00000361247,;ARHGEF2,downstream_gene_variant,,ENST00000368315,;ARHGEF2,downstream_gene_variant,,ENST00000313695,;ARHGEF2,downstream_gene_variant,,ENST00000368316,;ARHGEF2,downstream_gene_variant,,ENST00000462460,;ARHGEF2,downstream_gene_variant,,ENST00000470541,;ARHGEF2,downstream_gene_variant,,ENST00000477754,;	A	ENSG00000173080	ENST00000368318	Transcript	missense_variant	1078	1057	353	A/T	Gca/Aca	rs761985012	.	.	1	RXFP4	HGNC	14666	protein_coding	YES	CCDS1124.1	ENSP00000357301	RL3R2_HUMAN	.	UPI0000048F6E	.	tolerated(0.18)	benign(0.026)	1/1	.	hmmpanther:PTHR24230:SF32,hmmpanther:PTHR24230	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTCGCAAGC	.	5	BLCA
RNASEL	0	.	GRCh37	1	182554975	182554975	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967C>T	p.His323Tyr	p.H323Y	ENST00000367559	2/7	56	45	11	54	54	0	RNASEL,missense_variant,p.His323Tyr,ENST00000444138,;RNASEL,missense_variant,p.His323Tyr,ENST00000539397,;RNASEL,missense_variant,p.His323Tyr,ENST00000367559,;	A	ENSG00000135828	ENST00000367559	Transcript	missense_variant	1221	967	323	H/Y	Cat/Tat	.	.	.	-1	RNASEL	HGNC	10050	protein_coding	YES	CCDS1347.1	ENSP00000356530	RN5A_HUMAN	.	UPI000005339F	.	tolerated(1)	benign(0.001)	2/7	.	Gene3D:1.25.40.20,hmmpanther:PTHR24141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATGAGAGA	.	5	BLCA
MINOS1-NBL1	0	.	GRCh37	1	19952928	19952928	+	Intron	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-19-28577G>A	.	.	ENST00000602662	.	21	14	7	23	23	0	MINOS1-NBL1,5_prime_UTR_variant,,ENST00000602293,;MINOS1,3_prime_UTR_variant,,ENST00000322753,;MINOS1-NBL1,intron_variant,,ENST00000602662,;MINOS1,non_coding_transcript_exon_variant,,ENST00000498642,;MINOS1,non_coding_transcript_exon_variant,,ENST00000481464,;MINOS1,non_coding_transcript_exon_variant,,ENST00000467029,;MINOS1,non_coding_transcript_exon_variant,,ENST00000485362,;MINOS1,downstream_gene_variant,,ENST00000462646,;MINOS1,downstream_gene_variant,,ENST00000486890,;MINOS1-NBL1,3_prime_UTR_variant,,ENST00000602384,;MINOS1-NBL1,intron_variant,,ENST00000602450,;	A	ENSG00000270136	ENST00000602662	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MINOS1-NBL1	HGNC	48338	protein_coding	YES	CCDS196.2	ENSP00000473411	.	R4GMY4_HUMAN,E5RFZ1_HUMAN,A3KFI5_HUMAN,A3KFI4_HUMAN,A3KFI3_HUMAN,A3KFI2_HUMAN	UPI0000071C54	.	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACAAGAGAAA	.	5	BLCA
RP11-134G8.2	0	.	GRCh37	1	201398306	201398306	+	RNA	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.204C>G	.	.	ENST00000413162	1/1	11	8	3	18	18	0	TNNI1,5_prime_UTR_variant,,ENST00000336092,;RP11-134G8.2,non_coding_transcript_exon_variant,,ENST00000413162,;	G	ENSG00000227048	ENST00000413162	Transcript	non_coding_transcript_exon_variant	204	.	.	.	.	.	.	.	1	RP11-134G8.2	Clone_based_vega_gene	.	processed_pseudogene	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCACAAT	.	2	BLCA
PPP1R12B	0	.	GRCh37	1	202531973	202531973	+	Missense_Mutation	SNP	C	C	T	rs769365526	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2575C>T	p.Arg859Cys	p.R859C	ENST00000608999	20/24	112	68	44	86	86	0	PPP1R12B,missense_variant,p.Arg85Cys,ENST00000391959,;PPP1R12B,missense_variant,p.Arg85Cys,ENST00000367270,;PPP1R12B,missense_variant,p.Arg859Cys,ENST00000608999,;PPP1R12B,missense_variant,p.Arg859Cys,ENST00000336894,;PPP1R12B,non_coding_transcript_exon_variant,,ENST00000491336,;PPP1R12B,non_coding_transcript_exon_variant,,ENST00000290419,;PPP1R12B,non_coding_transcript_exon_variant,,ENST00000466273,;PPP1R12B,upstream_gene_variant,,ENST00000462074,;PPP1R12B,upstream_gene_variant,,ENST00000465284,;PPP1R12B,non_coding_transcript_exon_variant,,ENST00000367269,;	T	ENSG00000077157	ENST00000608999	Transcript	missense_variant	2728	2575	859	R/C	Cgt/Tgt	rs769365526	.	.	1	PPP1R12B	HGNC	7619	protein_coding	YES	CCDS1426.1	ENSP00000476755	.	.	UPI0000458A57	.	deleterious(0.05)	possibly_damaging(0.856)	20/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24179,hmmpanther:PTHR24179:SF18,PIRSF_domain:PIRSF038141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCCCGTCGG	byFrequency	5	BLCA
SPATA17	0	.	GRCh37	1	217915359	217915359	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438G>A	p.%3D	p.E146E	ENST00000366933	6/11	32	26	6	45	45	0	SPATA17,synonymous_variant,p.%3D,ENST00000366933,;SPATA17,non_coding_transcript_exon_variant,,ENST00000492747,;SPATA17,3_prime_UTR_variant,,ENST00000470448,;	A	ENSG00000162814	ENST00000366933	Transcript	synonymous_variant	493	438	146	E	gaG/gaA	.	.	.	1	SPATA17	HGNC	25184	protein_coding	YES	CCDS1519.1	ENSP00000355900	SPT17_HUMAN	R4GN71_HUMAN	UPI00000717C2	.	.	.	6/11	.	hmmpanther:PTHR22706,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGAGAAGAA	.	5	BLCA
HSPG2	0	.	GRCh37	1	22183799	22183799	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5373C>T	p.%3D	p.F1791F	ENST00000374695	43/97	103	71	32	86	86	0	HSPG2,synonymous_variant,p.%3D,ENST00000374695,;HSPG2,upstream_gene_variant,,ENST00000430507,;HSPG2,upstream_gene_variant,,ENST00000493940,;	A	ENSG00000142798	ENST00000374695	Transcript	synonymous_variant	5453	5373	1791	F	ttC/ttT	.	.	.	-1	HSPG2	HGNC	5273	protein_coding	YES	CCDS30625.1	ENSP00000363827	PGBM_HUMAN	B6EU51_HUMAN	UPI0000212778	.	.	.	43/97	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF252,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATGAAGGT	.	5	BLCA
GUK1	0	.	GRCh37	1	228335209	228335209	+	Missense_Mutation	SNP	C	C	G	rs769723838	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>G	p.Ile139Met	p.I139M	ENST00000366728	5/7	82	66	16	88	88	0	GUK1,missense_variant,p.Ile139Met,ENST00000453943,;GUK1,missense_variant,p.Ile184Met,ENST00000435153,;GUK1,missense_variant,p.Ile184Met,ENST00000412265,;GUK1,missense_variant,p.Ile139Met,ENST00000391865,;GUK1,missense_variant,p.Ile118Met,ENST00000366722,;GUK1,missense_variant,p.Ile118Met,ENST00000366726,;GUK1,missense_variant,p.Ile118Met,ENST00000366718,;GUK1,missense_variant,p.Ile118Met,ENST00000366716,;GUK1,missense_variant,p.Ile139Met,ENST00000366728,;GUK1,missense_variant,p.Ile118Met,ENST00000312726,;GUK1,missense_variant,p.Ile120Met,ENST00000366721,;GUK1,missense_variant,p.Ile118Met,ENST00000366730,;GUK1,missense_variant,p.Ile139Met,ENST00000366723,;GJC2,upstream_gene_variant,,ENST00000366714,;GUK1,non_coding_transcript_exon_variant,,ENST00000470155,;GUK1,non_coding_transcript_exon_variant,,ENST00000498092,;GUK1,non_coding_transcript_exon_variant,,ENST00000465025,;GUK1,non_coding_transcript_exon_variant,,ENST00000464858,;GUK1,non_coding_transcript_exon_variant,,ENST00000460224,;GUK1,non_coding_transcript_exon_variant,,ENST00000498115,;GUK1,non_coding_transcript_exon_variant,,ENST00000478725,;GUK1,non_coding_transcript_exon_variant,,ENST00000485838,;GUK1,non_coding_transcript_exon_variant,,ENST00000462807,;GUK1,non_coding_transcript_exon_variant,,ENST00000481341,;GUK1,non_coding_transcript_exon_variant,,ENST00000486668,;GUK1,non_coding_transcript_exon_variant,,ENST00000477206,;GUK1,non_coding_transcript_exon_variant,,ENST00000492871,;GUK1,non_coding_transcript_exon_variant,,ENST00000470040,;GUK1,non_coding_transcript_exon_variant,,ENST00000495999,;GUK1,intron_variant,,ENST00000493138,;GUK1,downstream_gene_variant,,ENST00000491613,;GUK1,downstream_gene_variant,,ENST00000485859,;GUK1,downstream_gene_variant,,ENST00000472939,;GUK1,upstream_gene_variant,,ENST00000480056,;GUK1,downstream_gene_variant,,ENST00000485168,;GUK1,downstream_gene_variant,,ENST00000485083,;GUK1,downstream_gene_variant,,ENST00000485733,;GUK1,downstream_gene_variant,,ENST00000493209,;GUK1,upstream_gene_variant,,ENST00000471270,;GUK1,downstream_gene_variant,,ENST00000484953,;	G	ENSG00000143774	ENST00000366728	Transcript	missense_variant	430	417	139	I/M	atC/atG	rs769723838,COSM3804157,COSM3804158,COSM3804160,COSM3804159	.	.	1	GUK1	HGNC	4693	protein_coding	YES	CCDS55689.1	ENSP00000355689	KGUA_HUMAN	.	UPI000046FFA0	.	deleterious(0.04)	possibly_damaging(0.577)	5/7	.	PROSITE_profiles:PS50052,hmmpanther:PTHR23117,hmmpanther:PTHR23117:SF13,Pfam_domain:PF00625,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR03263,SMART_domains:SM00072,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCTACAT	.	5	BLCA
ABCB10	0	.	GRCh37	1	229661685	229661685	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1904C>T	p.Ser635Leu	p.S635L	ENST00000344517	10/13	195	115	80	163	163	0	ABCB10,missense_variant,p.Ser635Leu,ENST00000344517,;ABCB10,downstream_gene_variant,,ENST00000486755,;	A	ENSG00000135776	ENST00000344517	Transcript	missense_variant	1947	1904	635	S/L	tCa/tTa	COSM344997,COSM373954	.	.	-1	ABCB10	HGNC	41	protein_coding	YES	CCDS1580.1	ENSP00000355637	ABCBA_HUMAN	Q6ZMF8_HUMAN	UPI000013CFBF	.	deleterious(0)	probably_damaging(1)	10/13	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24221:SF121,hmmpanther:PTHR24221,PROSITE_patterns:PS00211,Pfam_domain:PF00005,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTGAGAGG	.	5	BLCA
PHC2	0	.	GRCh37	1	33795721	33795721	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2096G>A	p.Arg699Gln	p.R699Q	ENST00000257118	12/14	22	18	4	19	19	0	PHC2,missense_variant,p.Arg700Gln,ENST00000419414,;PHC2,missense_variant,p.Arg164Gln,ENST00000373418,;PHC2,missense_variant,p.Arg670Gln,ENST00000431992,;PHC2,missense_variant,p.Arg164Gln,ENST00000373416,;PHC2,missense_variant,p.Arg305Gln,ENST00000373422,;PHC2,missense_variant,p.Arg699Gln,ENST00000257118,;MIR3605,downstream_gene_variant,,ENST00000583214,;RP11-415J8.3,downstream_gene_variant,,ENST00000588828,;RP11-415J8.3,downstream_gene_variant,,ENST00000587696,;RP11-415J8.3,downstream_gene_variant,,ENST00000457957,;PHC2,non_coding_transcript_exon_variant,,ENST00000486897,;PHC2,non_coding_transcript_exon_variant,,ENST00000493483,;PHC2,non_coding_transcript_exon_variant,,ENST00000485928,;PHC2,non_coding_transcript_exon_variant,,ENST00000467894,;PHC2,downstream_gene_variant,,ENST00000473158,;	T	ENSG00000134686	ENST00000257118	Transcript	missense_variant	2150	2096	699	R/Q	cGg/cAg	.	.	.	-1	PHC2	HGNC	3183	protein_coding	YES	CCDS378.1	ENSP00000257118	PHC2_HUMAN	.	UPI0000074391	.	deleterious(0.05)	probably_damaging(0.946)	12/14	.	hmmpanther:PTHR12247:SF71,hmmpanther:PTHR12247	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCCCGACGG	.	5	BLCA
MACF1	0	.	GRCh37	1	39914374	39914374	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14020G>C	p.Asp4674His	p.D4674H	ENST00000545844	80/94	75	58	17	55	55	0	MACF1,missense_variant,p.Asp3678His,ENST00000372925,;MACF1,missense_variant,p.Asp4674His,ENST00000361689,;MACF1,missense_variant,p.Asp5176His,ENST00000289893,;MACF1,missense_variant,p.Asp6733His,ENST00000564288,;MACF1,missense_variant,p.Asp4544His,ENST00000539005,;MACF1,missense_variant,p.Asp6632His,ENST00000372915,;MACF1,missense_variant,p.Asp4674His,ENST00000317713,;MACF1,missense_variant,p.Asp6770His,ENST00000567887,;MACF1,missense_variant,p.Asp4674His,ENST00000545844,;MACF1,upstream_gene_variant,,ENST00000487656,;	C	ENSG00000127603	ENST00000545844	Transcript	missense_variant	14128	14020	4674	D/H	Gac/Cac	COSM3689672,COSM3689674,COSM3689673	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	probably_damaging(1)	80/94	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Gene3D:1.20.58.60,Pfam_domain:PF00435	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTTGACAAT	.	5	BLCA
ELOVL1	0	.	GRCh37	1	43830026	43830026	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.587G>A	p.Trp196Ter	p.W196*	ENST00000372458	7/8	152	132	20	154	154	0	ELOVL1,stop_gained,p.Trp169Ter,ENST00000413844,;ELOVL1,stop_gained,p.Trp196Ter,ENST00000372458,;CDC20,downstream_gene_variant,,ENST00000310955,;CDC20,downstream_gene_variant,,ENST00000372462,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000468865,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000482302,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000478481,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000497050,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000487209,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000470769,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000464204,;ELOVL1,non_coding_transcript_exon_variant,,ENST00000497569,;ELOVL1,intron_variant,,ENST00000470968,;CDC20,downstream_gene_variant,,ENST00000482046,;ELOVL1,downstream_gene_variant,,ENST00000465321,;ELOVL1,downstream_gene_variant,,ENST00000496932,;ELOVL1,downstream_gene_variant,,ENST00000479439,;ELOVL1,downstream_gene_variant,,ENST00000479686,;CDC20,downstream_gene_variant,,ENST00000478882,;	T	ENSG00000066322	ENST00000372458	Transcript	stop_gained	705	587	196	W/*	tGg/tAg	.	.	.	-1	ELOVL1	HGNC	14418	protein_coding	YES	CCDS485.1	ENSP00000361536	ELOV1_HUMAN	.	UPI00001196CE	.	.	.	7/8	.	Transmembrane_helices:TMhelix,Pfam_domain:PF01151,hmmpanther:PTHR11157,hmmpanther:PTHR11157:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCACCAAAGG	.	4	BLCA
PTPRF	0	.	GRCh37	1	44086185	44086185	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5299G>C	p.Asp1767His	p.D1767H	ENST00000359947	31/34	51	33	17	65	65	0	PTPRF,missense_variant,p.Asp839His,ENST00000372407,;PTPRF,missense_variant,p.Asp1151His,ENST00000412568,;PTPRF,missense_variant,p.Asp1192His,ENST00000414879,;PTPRF,missense_variant,p.Asp1758His,ENST00000438120,;PTPRF,missense_variant,p.Asp1767His,ENST00000359947,;PTPRF,missense_variant,p.Asp1413His,ENST00000429895,;PTPRF,missense_variant,p.Asp1758His,ENST00000372413,;PTPRF,missense_variant,p.Asp1126His,ENST00000422171,;PTPRF,missense_variant,p.Asp1767His,ENST00000372414,;PTPRF,non_coding_transcript_exon_variant,,ENST00000477970,;PTPRF,non_coding_transcript_exon_variant,,ENST00000496447,;	C	ENSG00000142949	ENST00000359947	Transcript	missense_variant	5639	5299	1767	D/H	Gac/Cac	.	.	.	1	PTPRF	HGNC	9670	protein_coding	YES	CCDS489.2	ENSP00000353030	PTPRF_HUMAN	G1UI20_HUMAN	UPI0000470154	.	deleterious(0)	probably_damaging(1)	31/34	.	Superfamily_domains:SSF52799,SMART_domains:SM00194,Gene3D:3.90.190.10,Pfam_domain:PF00102,PROSITE_profiles:PS50055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGTTGACCCG	.	3	BLCA
PTPRF	0	.	GRCh37	1	44086232	44086232	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5346C>T	p.%3D	p.F1782F	ENST00000359947	31/34	76	54	22	82	82	0	PTPRF,synonymous_variant,p.%3D,ENST00000372407,;PTPRF,synonymous_variant,p.%3D,ENST00000412568,;PTPRF,synonymous_variant,p.%3D,ENST00000414879,;PTPRF,synonymous_variant,p.%3D,ENST00000438120,;PTPRF,synonymous_variant,p.%3D,ENST00000359947,;PTPRF,synonymous_variant,p.%3D,ENST00000429895,;PTPRF,synonymous_variant,p.%3D,ENST00000372413,;PTPRF,synonymous_variant,p.%3D,ENST00000422171,;PTPRF,synonymous_variant,p.%3D,ENST00000372414,;PTPRF,non_coding_transcript_exon_variant,,ENST00000477970,;PTPRF,non_coding_transcript_exon_variant,,ENST00000496447,;	T	ENSG00000142949	ENST00000359947	Transcript	synonymous_variant	5686	5346	1782	F	ttC/ttT	.	.	.	1	PTPRF	HGNC	9670	protein_coding	YES	CCDS489.2	ENSP00000353030	PTPRF_HUMAN	G1UI20_HUMAN	UPI0000470154	.	.	.	31/34	.	Superfamily_domains:SSF52799,SMART_domains:SM00194,Gene3D:3.90.190.10,Pfam_domain:PF00102,PROSITE_profiles:PS50055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCAAGGT	.	5	BLCA
KCNAB2	0	.	GRCh37	1	6150528	6150528	+	Silent	SNP	G	G	A	rs750883348	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.594G>A	p.%3D	p.P198P	ENST00000378083	9/16	17	13	4	25	25	0	KCNAB2,synonymous_variant,p.%3D,ENST00000389632,;KCNAB2,synonymous_variant,p.%3D,ENST00000378083,;KCNAB2,synonymous_variant,p.%3D,ENST00000602612,;KCNAB2,synonymous_variant,p.%3D,ENST00000164247,;KCNAB2,synonymous_variant,p.%3D,ENST00000378097,;KCNAB2,synonymous_variant,p.%3D,ENST00000428161,;KCNAB2,synonymous_variant,p.%3D,ENST00000341524,;KCNAB2,synonymous_variant,p.%3D,ENST00000352527,;KCNAB2,synonymous_variant,p.%3D,ENST00000458166,;KCNAB2,synonymous_variant,p.%3D,ENST00000378092,;KCNAB2,intron_variant,,ENST00000378087,;KCNAB2,intron_variant,,ENST00000378111,;KCNAB2,downstream_gene_variant,,ENST00000472700,;KCNAB2,downstream_gene_variant,,ENST00000462676,;	A	ENSG00000069424	ENST00000378083	Transcript	synonymous_variant	883	594	198	P	ccG/ccA	rs750883348	.	.	1	KCNAB2	HGNC	6229	protein_coding	YES	CCDS55570.1	ENSP00000367323	KCAB2_HUMAN	.	UPI000035E741	.	.	.	9/16	.	hmmpanther:PTHR11732:SF196,hmmpanther:PTHR11732,Pfam_domain:PF00248,Gene3D:3.20.20.100,TIGRFAM_domain:TIGR01293,Superfamily_domains:SSF51430	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCCGATGGA	byFrequency	4	BLCA
KLHL21	0	.	GRCh37	1	6659498	6659498	+	Missense_Mutation	SNP	A	A	T	rs369651794	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1036T>A	p.Ser346Thr	p.S346T	ENST00000377658	2/4	20	14	6	22	22	0	KLHL21,missense_variant,p.Ser346Thr,ENST00000377663,;KLHL21,missense_variant,p.Ser346Thr,ENST00000377658,;KLHL21,5_prime_UTR_variant,,ENST00000496707,;KLHL21,5_prime_UTR_variant,,ENST00000463043,;KLHL21,5_prime_UTR_variant,,ENST00000467612,;	T	ENSG00000162413	ENST00000377658	Transcript	missense_variant	1088	1036	346	S/T	Tcc/Acc	rs369651794	.	.	-1	KLHL21	HGNC	29041	protein_coding	YES	CCDS30575.1	ENSP00000366886	KLH21_HUMAN	Q2NKK7_HUMAN,K7ESH2_HUMAN,K7EMF2_HUMAN,K7ELI0_HUMAN	UPI0000070D85	.	tolerated(0.36)	benign(0.047)	2/4	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF7,Pfam_domain:PF01344,Gene3D:1k3iA02,PIRSF_domain:PIRSF037037,SMART_domains:SM00612,Superfamily_domains:0052715	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGGAGCCAT	byCluster	5	BLCA
PER3	0	.	GRCh37	1	7858656	7858656	+	Missense_Mutation	SNP	A	A	T	rs202213269	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.713A>T	p.His238Leu	p.H238L	ENST00000361923	6/21	63	56	7	62	62	0	PER3,missense_variant,p.His238Leu,ENST00000377541,;PER3,missense_variant,p.His239Leu,ENST00000377532,;PER3,missense_variant,p.His238Leu,ENST00000361923,;PER3,upstream_gene_variant,,ENST00000463106,;	T	ENSG00000049246	ENST00000361923	Transcript	missense_variant	888	713	238	H/L	cAt/cTt	rs202213269	.	.	1	PER3	HGNC	8847	protein_coding	YES	CCDS89.1	ENSP00000355031	PER3_HUMAN	Q8TAR6_HUMAN,B4DR65_HUMAN,A2I2N5_HUMAN	UPI0000167B1D	.	tolerated(0.15)	possibly_damaging(0.507)	6/21	.	hmmpanther:PTHR11269,hmmpanther:PTHR11269:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTACATCACC	byCluster	4	BLCA
TNFRSF9	0	.	GRCh37	1	7980818	7980818	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*77C>G	.	.	ENST00000377507	8/8	34	24	10	27	27	0	TNFRSF9,3_prime_UTR_variant,,ENST00000377507,;TNFRSF9,downstream_gene_variant,,ENST00000474475,;	C	ENSG00000049249	ENST00000377507	Transcript	3_prime_UTR_variant	1012	.	.	.	.	.	.	.	-1	TNFRSF9	HGNC	11924	protein_coding	YES	CCDS92.1	ENSP00000366729	TNR9_HUMAN	.	UPI00001370F1	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTGAAAGC	.	5	BLCA
ARHGAP29	0	.	GRCh37	1	94645405	94645405	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2356G>T	p.Asp786Tyr	p.D786Y	ENST00000260526	20/23	67	45	21	57	57	0	ARHGAP29,missense_variant,p.Asp786Tyr,ENST00000260526,;ARHGAP29,non_coding_transcript_exon_variant,,ENST00000482481,;ARHGAP29,missense_variant,p.Asp786Tyr,ENST00000552844,;	A	ENSG00000137962	ENST00000260526	Transcript	missense_variant	2539	2356	786	D/Y	Gac/Tac	.	.	.	-1	ARHGAP29	HGNC	30207	protein_coding	YES	CCDS748.1	ENSP00000260526	RHG29_HUMAN	.	UPI000013D0E4	.	deleterious(0.02)	probably_damaging(0.984)	20/23	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50238,hmmpanther:PTHR15228:SF7,hmmpanther:PTHR15228,Pfam_domain:PF00620,Gene3D:1.10.555.10,SMART_domains:SM00324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTCTTCAA	.	5	BLCA
ESF1	0	.	GRCh37	20	13756853	13756853	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.701G>A	p.Cys234Tyr	p.C234Y	ENST00000202816	3/14	125	82	43	103	103	0	ESF1,missense_variant,p.Cys234Tyr,ENST00000202816,;	T	ENSG00000089048	ENST00000202816	Transcript	missense_variant	809	701	234	C/Y	tGt/tAt	.	.	.	-1	ESF1	HGNC	15898	protein_coding	YES	CCDS13117.1	ENSP00000202816	ESF1_HUMAN	.	UPI00001285C8	.	tolerated_low_confidence(1)	benign(0)	3/14	.	hmmpanther:PTHR12202	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCACACATT	.	5	BLCA
SLC4A11	0	.	GRCh37	20	3214831	3214831	+	Missense_Mutation	SNP	G	G	A	rs755108289	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550C>T	p.Arg184Cys	p.R184C	ENST00000380059	5/20	70	56	14	64	64	0	SLC4A11,missense_variant,p.Arg141Cys,ENST00000539553,;SLC4A11,missense_variant,p.Arg157Cys,ENST00000380056,;SLC4A11,missense_variant,p.Arg184Cys,ENST00000380059,;SLC4A11,downstream_gene_variant,,ENST00000437836,;SLC4A11,upstream_gene_variant,,ENST00000470631,;SLC4A11,upstream_gene_variant,,ENST00000488544,;SLC4A11,missense_variant,p.Arg122Cys,ENST00000474451,;	A	ENSG00000088836	ENST00000380059	Transcript	missense_variant	652	550	184	R/C	Cgc/Tgc	rs755108289,COSM4134459,COSM4134458	.	.	-1	SLC4A11	HGNC	16438	protein_coding	YES	CCDS54445.1	ENSP00000369399	.	R9UQR4_HUMAN,R9UQ67_HUMAN,R9UQ64_HUMAN,R9UQ62_HUMAN,R9UQ58_HUMAN,R9UNY3_HUMAN	UPI00000738A5	.	tolerated(0.13)	benign(0.003)	5/20	.	hmmpanther:PTHR11453:SF35,hmmpanther:PTHR11453,Superfamily_domains:SSF55804	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	GCGGCGAAGCA	byFrequency	3	BLCA
CHMP4B	0	.	GRCh37	20	32438816	32438816	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>A	p.Glu143Lys	p.E143K	ENST00000217402	3/5	79	58	21	87	87	0	CHMP4B,missense_variant,p.Glu143Lys,ENST00000217402,;	A	ENSG00000101421	ENST00000217402	Transcript	missense_variant	592	427	143	E/K	Gag/Aag	COSM1713372	.	.	1	CHMP4B	HGNC	16171	protein_coding	YES	CCDS13228.1	ENSP00000217402	CHM4B_HUMAN	.	UPI0000128625	.	tolerated(0.25)	benign(0.004)	3/5	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22761:SF4,hmmpanther:PTHR22761,Pfam_domain:PF03357	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCAGAGGAG	.	5	BLCA
CNBD2	0	.	GRCh37	20	34583058	34583058	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954G>A	p.%3D	p.L318L	ENST00000349339	8/12	45	30	15	31	31	0	CNBD2,synonymous_variant,p.%3D,ENST00000373973,;CNBD2,synonymous_variant,p.%3D,ENST00000538900,;CNBD2,synonymous_variant,p.%3D,ENST00000349339,;CNBD2,3_prime_UTR_variant,,ENST00000463258,;	A	ENSG00000149646	ENST00000349339	Transcript	synonymous_variant	1110	954	318	L	ctG/ctA	.	.	.	1	CNBD2	HGNC	16145	protein_coding	YES	CCDS13270.1	ENSP00000340954	CNBD2_HUMAN	.	UPI0000367038	.	.	.	8/12	.	hmmpanther:PTHR23011:SF1,hmmpanther:PTHR23011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTGAAGAC	.	5	BLCA
C20orf166	0	.	GRCh37	20	61143846	61143846	+	5'Flank	SNP	A	A	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000370527	.	123	89	33	72	72	0	C20orf166,upstream_gene_variant,,ENST00000370524,;C20orf166,upstream_gene_variant,,ENST00000370527,;C20orf166-AS1,non_coding_transcript_exon_variant,,ENST00000412495,;C20orf166-AS1,non_coding_transcript_exon_variant,,ENST00000475015,;C20orf166-AS1,downstream_gene_variant,,ENST00000436101,;	G	ENSG00000174407	ENST00000370527	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	3814	1	C20orf166	HGNC	16159	protein_coding	YES	CCDS46627.1	ENSP00000359558	CT166_HUMAN	.	UPI000012861B	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGCATGTGC	.	5	BLCA
RIPK4	0	.	GRCh37	21	43176870	43176870	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289G>C	p.Glu97Gln	p.E97Q	ENST00000332512	2/8	47	26	21	42	42	0	RIPK4,missense_variant,p.Glu97Gln,ENST00000352483,;RIPK4,missense_variant,p.Glu34Gln,ENST00000542057,;RIPK4,missense_variant,p.Glu34Gln,ENST00000544709,;RIPK4,missense_variant,p.Glu97Gln,ENST00000332512,;	G	ENSG00000183421	ENST00000332512	Transcript	missense_variant	354	289	97	E/Q	Gag/Cag	.	.	.	-1	RIPK4	HGNC	496	protein_coding	YES	CCDS13675.1	ENSP00000332454	RIPK4_HUMAN	B7ZAU7_HUMAN	UPI000002A3C9	.	deleterious(0)	probably_damaging(0.999)	2/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24198,hmmpanther:PTHR24198:SF18,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTACTCCATGA	.	5	BLCA
UBASH3A	0	.	GRCh37	21	43829601	43829601	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238C>T	p.Pro80Ser	p.P80S	ENST00000319294	3/15	82	70	12	90	90	0	UBASH3A,missense_variant,p.Pro80Ser,ENST00000450356,;UBASH3A,missense_variant,p.Pro80Ser,ENST00000319294,;UBASH3A,missense_variant,p.Pro80Ser,ENST00000398367,;UBASH3A,missense_variant,p.Pro80Ser,ENST00000291535,;UBASH3A,non_coding_transcript_exon_variant,,ENST00000473381,;	T	ENSG00000160185	ENST00000319294	Transcript	missense_variant	269	238	80	P/S	Cca/Tca	.	.	.	1	UBASH3A	HGNC	12462	protein_coding	YES	CCDS13687.1	ENSP00000317327	UBS3A_HUMAN	.	UPI0000137941	.	deleterious(0)	probably_damaging(1)	3/15	.	hmmpanther:PTHR16469,hmmpanther:PTHR16469:SF7,Gene3D:3.90.1140.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTCCAACG	.	5	BLCA
TXNRD2	0	.	GRCh37	22	19864727	19864727	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1476G>A	p.%3D	p.R492R	ENST00000400521	17/18	53	31	21	39	39	0	TXNRD2,synonymous_variant,p.%3D,ENST00000400518,;TXNRD2,synonymous_variant,p.%3D,ENST00000400519,;TXNRD2,synonymous_variant,p.%3D,ENST00000400521,;TXNRD2,synonymous_variant,p.%3D,ENST00000542719,;TXNRD2,synonymous_variant,p.%3D,ENST00000535882,;TXNRD2,non_coding_transcript_exon_variant,,ENST00000462843,;TXNRD2,non_coding_transcript_exon_variant,,ENST00000474308,;TXNRD2,non_coding_transcript_exon_variant,,ENST00000485358,;TXNRD2,non_coding_transcript_exon_variant,,ENST00000462330,;TXNRD2,synonymous_variant,p.%3D,ENST00000400525,;TXNRD2,non_coding_transcript_exon_variant,,ENST00000495655,;TXNRD2,non_coding_transcript_exon_variant,,ENST00000487165,;TXNRD2,non_coding_transcript_exon_variant,,ENST00000494454,;	T	ENSG00000184470	ENST00000400521	Transcript	synonymous_variant	1483	1476	492	R	cgG/cgA	.	.	.	-1	TXNRD2	HGNC	18155	protein_coding	YES	CCDS42981.1	ENSP00000383365	TRXR2_HUMAN	.	UPI0000167BDD	.	.	.	17/18	.	hmmpanther:PTHR22912,hmmpanther:PTHR22912:SF101,Gene3D:3.30.390.30,Pfam_domain:PF02852,TIGRFAM_domain:TIGR01438,Superfamily_domains:SSF55424,Prints_domain:PR00411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGGTCCGCAT	.	5	BLCA
YPEL1	0	.	GRCh37	22	22064977	22064977	+	Silent	SNP	T	T	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57A>G	p.%3D	p.R19R	ENST00000339468	2/5	278	208	70	148	148	0	YPEL1,synonymous_variant,p.%3D,ENST00000403503,;YPEL1,synonymous_variant,p.%3D,ENST00000339468,;YPEL1,non_coding_transcript_exon_variant,,ENST00000477675,;	C	ENSG00000100027	ENST00000339468	Transcript	synonymous_variant	441	57	19	R	cgA/cgG	.	.	.	-1	YPEL1	HGNC	12845	protein_coding	YES	CCDS13794.1	ENSP00000342832	YPEL1_HUMAN	.	UPI000013BE05	.	.	.	2/5	.	hmmpanther:PTHR13847:SF151,hmmpanther:PTHR13847	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACGTTCGGTG	.	5	BLCA
BPIFC	0	.	GRCh37	22	32815351	32815351	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1258G>C	p.Glu420Gln	p.E420Q	ENST00000397452	13/16	98	56	42	91	91	0	BPIFC,missense_variant,p.Glu144Gln,ENST00000534972,;BPIFC,missense_variant,p.Glu177Gln,ENST00000432451,;BPIFC,missense_variant,p.Glu420Gln,ENST00000397452,;BPIFC,missense_variant,p.Glu420Gln,ENST00000300399,;	G	ENSG00000184459	ENST00000397452	Transcript	missense_variant	1369	1258	420	E/Q	Gag/Cag	.	.	.	-1	BPIFC	HGNC	16503	protein_coding	YES	CCDS13906.1	ENSP00000380594	BPIFC_HUMAN	F5H3G0_HUMAN	UPI0000071B53	.	tolerated(0.09)	possibly_damaging(0.828)	13/16	.	hmmpanther:PTHR10504,hmmpanther:PTHR10504:SF17,Pfam_domain:PF02886,Gene3D:1ewfA02,SMART_domains:SM00329,Superfamily_domains:SSF55394	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCAATGT	.	5	BLCA
NCKAP5	0	.	GRCh37	2	133542370	133542370	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2014G>C	p.Asp672His	p.D672H	ENST00000409261	14/20	74	48	26	82	82	0	NCKAP5,missense_variant,p.Asp672His,ENST00000409261,;NCKAP5,missense_variant,p.Asp672His,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,upstream_gene_variant,,ENST00000473859,;	G	ENSG00000176771	ENST00000409261	Transcript	missense_variant	2388	2014	672	D/H	Gat/Cat	COSM715718	.	.	-1	NCKAP5	HGNC	29847	protein_coding	YES	CCDS46418.1	ENSP00000387128	NCKP5_HUMAN	C9JYL7_HUMAN	UPI0000E07A3F	.	deleterious(0)	probably_damaging(1)	14/20	.	hmmpanther:PTHR21740:SF0,hmmpanther:PTHR21740	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCATCAAATA	.	5	BLCA
GALNT13	0	.	GRCh37	2	154996912	154996912	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205G>C	p.Asp69His	p.D69H	ENST00000392825	4/13	36	23	13	44	44	0	GALNT13,missense_variant,p.Asp69His,ENST00000392825,;GALNT13,missense_variant,p.Asp69His,ENST00000409237,;GALNT13,missense_variant,p.Asp21His,ENST00000431076,;	C	ENSG00000144278	ENST00000392825	Transcript	missense_variant	772	205	69	D/H	Gat/Cat	.	.	.	1	GALNT13	HGNC	23242	protein_coding	YES	CCDS2199.1	ENSP00000376570	GLT13_HUMAN	Q68VI8_HUMAN	UPI0000051E22	.	deleterious(0.03)	benign(0.027)	4/13	.	hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAAAGATGAC	.	5	BLCA
GALNT3	0	.	GRCh37	2	166616039	166616039	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880A>G	p.Ile294Val	p.I294V	ENST00000392701	5/11	32	26	6	42	42	0	GALNT3,missense_variant,p.Ile32Val,ENST00000409882,;GALNT3,missense_variant,p.Ile294Val,ENST00000412248,;GALNT3,missense_variant,p.Ile294Val,ENST00000392701,;GALNT3,3_prime_UTR_variant,,ENST00000437849,;GALNT3,non_coding_transcript_exon_variant,,ENST00000463254,;	C	ENSG00000115339	ENST00000392701	Transcript	missense_variant	1656	880	294	I/V	Ata/Gta	.	.	.	-1	GALNT3	HGNC	4125	protein_coding	YES	CCDS2226.1	ENSP00000376465	GALT3_HUMAN	C9JXX2_HUMAN,C9JW45_HUMAN,C9J388_HUMAN,C9J2C3_HUMAN	UPI000013C989	.	deleterious(0.03)	probably_damaging(0.994)	5/11	.	hmmpanther:PTHR11675:SF33,hmmpanther:PTHR11675,Gene3D:3.90.550.10,Pfam_domain:PF00535,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTATTCTGG	.	5	BLCA
XIRP2	0	.	GRCh37	2	167759981	167759981	+	5'UTR	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-12C>A	.	.	ENST00000409195	2/11	40	35	5	44	44	0	XIRP2,5_prime_UTR_variant,,ENST00000409195,;XIRP2,5_prime_UTR_variant,,ENST00000409756,;XIRP2,5_prime_UTR_variant,,ENST00000409043,;XIRP2,5_prime_UTR_variant,,ENST00000409728,;XIRP2,upstream_gene_variant,,ENST00000420519,;XIRP2,upstream_gene_variant,,ENST00000295237,;	A	ENSG00000163092	ENST00000409195	Transcript	5_prime_UTR_variant	78	.	.	.	.	.	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	.	2/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAACCTGGAC	.	4	BLCA
LRP2	0	.	GRCh37	2	169999206	169999206	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13086G>A	p.%3D	p.G4362G	ENST00000263816	71/79	52	43	9	50	50	0	LRP2,synonymous_variant,p.%3D,ENST00000263816,;LRP2,upstream_gene_variant,,ENST00000491228,;	T	ENSG00000081479	ENST00000263816	Transcript	synonymous_variant	13372	13086	4362	G	ggG/ggA	.	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	.	71/79	.	Gene3D:2gy5A03,SMART_domains:SM00179,SMART_domains:SM00181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTCCCCTC	.	5	BLCA
SLC25A12	0	.	GRCh37	2	172641748	172641748	+	3'UTR	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*36G>C	.	.	ENST00000422440	18/18	29	23	6	29	29	0	SLC25A12,3_prime_UTR_variant,,ENST00000422440,;SLC25A12,3_prime_UTR_variant,,ENST00000392592,;SLC25A12,3_prime_UTR_variant,,ENST00000263812,;SLC25A12,non_coding_transcript_exon_variant,,ENST00000472070,;	G	ENSG00000115840	ENST00000422440	Transcript	3_prime_UTR_variant	2111	.	.	.	.	.	.	.	-1	SLC25A12	HGNC	10982	protein_coding	YES	CCDS33327.1	ENSP00000388658	CMC1_HUMAN	.	UPI0000070D4E	.	.	.	18/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCTTCAAGGC	.	3	BLCA
SLC25A12	0	.	GRCh37	2	172641770	172641770	+	3'UTR	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14G>C	.	.	ENST00000422440	18/18	39	28	10	35	35	0	SLC25A12,3_prime_UTR_variant,,ENST00000422440,;SLC25A12,3_prime_UTR_variant,,ENST00000392592,;SLC25A12,3_prime_UTR_variant,,ENST00000263812,;SLC25A12,non_coding_transcript_exon_variant,,ENST00000472070,;	G	ENSG00000115840	ENST00000422440	Transcript	3_prime_UTR_variant	2089	.	.	.	.	.	.	.	-1	SLC25A12	HGNC	10982	protein_coding	YES	CCDS33327.1	ENSP00000388658	CMC1_HUMAN	.	UPI0000070D4E	.	.	.	18/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACACTCAACAG	.	3	BLCA
CASP8	0	.	GRCh37	2	202141669	202141669	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.957G>C	p.Arg319Ser	p.R319S	ENST00000358485	7/9	40	36	4	33	33	0	CASP8,missense_variant,p.Arg142Ser,ENST00000450491,;CASP8,missense_variant,p.Arg245Ser,ENST00000323492,;CASP8,missense_variant,p.Arg277Ser,ENST00000264275,;CASP8,missense_variant,p.Arg319Ser,ENST00000358485,;CASP8,missense_variant,p.Arg245Ser,ENST00000392263,;CASP8,missense_variant,p.Arg260Ser,ENST00000432109,;CASP8,3_prime_UTR_variant,,ENST00000392266,;CASP8,3_prime_UTR_variant,,ENST00000392259,;CASP8,3_prime_UTR_variant,,ENST00000392258,;CASP8,3_prime_UTR_variant,,ENST00000424461,;CASP8,intron_variant,,ENST00000444430,;CASP8,intron_variant,,ENST00000264274,;CASP8,downstream_gene_variant,,ENST00000447616,;CASP8,downstream_gene_variant,,ENST00000413726,;CASP8,downstream_gene_variant,,ENST00000490412,;CASP8,non_coding_transcript_exon_variant,,ENST00000339403,;CASP8,downstream_gene_variant,,ENST00000471383,;CASP8,downstream_gene_variant,,ENST00000437283,;	C	ENSG00000064012	ENST00000358485	Transcript	missense_variant	1153	957	319	R/S	agG/agC	.	.	.	1	CASP8	HGNC	1509	protein_coding	YES	CCDS42798.1	ENSP00000351273	CASP8_HUMAN	E7EVN1_HUMAN,E7ETB7_HUMAN,E7EQ01_HUMAN	UPI0000456ECD	.	deleterious(0)	probably_damaging(0.999)	7/9	.	PROSITE_profiles:PS50208,hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF141,Pfam_domain:PF00656,Gene3D:3.40.50.1460,SMART_domains:SM00115,Superfamily_domains:SSF52129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACAGGAATGG	.	2	BLCA
SLC19A3	0	.	GRCh37	2	228552263	228552263	+	Silent	SNP	T	T	A	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1341A>T	p.%3D	p.A447A	ENST00000258403	6/6	49	41	8	44	44	0	SLC19A3,synonymous_variant,p.%3D,ENST00000258403,;SLC19A3,synonymous_variant,p.%3D,ENST00000541617,;SLC19A3,intron_variant,,ENST00000409287,;SLC19A3,synonymous_variant,p.%3D,ENST00000425817,;	A	ENSG00000135917	ENST00000258403	Transcript	synonymous_variant	1413	1341	447	A	gcA/gcT	COSM210278,COSM1531056	.	.	-1	SLC19A3	HGNC	16266	protein_coding	YES	CCDS2468.1	ENSP00000258403	S19A3_HUMAN	C9J4J5_HUMAN,C9IZI1_HUMAN,B8ZZ39_HUMAN	UPI000004DAE9	.	.	.	6/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10686,hmmpanther:PTHR10686:SF17,TIGRFAM_domain:TIGR00806,PIRSF_domain:PIRSF028739,PIRSF_domain:PIRSF500795,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTACTGCAAA	.	2	BLCA
SAG	0	.	GRCh37	2	234235785	234235785	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454G>C	p.Glu152Gln	p.E152Q	ENST00000409110	7/16	79	64	15	67	67	0	SAG,missense_variant,p.Glu152Gln,ENST00000447536,;SAG,missense_variant,p.Glu152Gln,ENST00000409110,;SAG,missense_variant,p.Glu18Gln,ENST00000449594,;SAG,non_coding_transcript_exon_variant,,ENST00000474206,;SAG,downstream_gene_variant,,ENST00000462487,;SAG,downstream_gene_variant,,ENST00000479450,;SAG,3_prime_UTR_variant,,ENST00000453143,;SAG,non_coding_transcript_exon_variant,,ENST00000412969,;SAG,non_coding_transcript_exon_variant,,ENST00000476500,;SAG,non_coding_transcript_exon_variant,,ENST00000471884,;SAG,upstream_gene_variant,,ENST00000483231,;SAG,upstream_gene_variant,,ENST00000469222,;	C	ENSG00000130561	ENST00000409110	Transcript	missense_variant	684	454	152	E/Q	Gag/Cag	.	.	.	1	SAG	HGNC	10521	protein_coding	YES	CCDS46545.1	ENSP00000386444	ARRS_HUMAN	E7ESX4_HUMAN,A0FDN6_HUMAN	UPI000013CD8D	.	deleterious(0.01)	probably_damaging(0.999)	7/16	.	hmmpanther:PTHR11792:SF15,hmmpanther:PTHR11792,Gene3D:1g4mA01,Pfam_domain:PF00339,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGAGGTC	.	5	BLCA
SLC30A6	0	.	GRCh37	2	32409378	32409378	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375G>C	p.Leu125Phe	p.L125F	ENST00000379343	6/15	32	22	9	25	25	0	SLC30A6,missense_variant,p.Leu56Phe,ENST00000538303,;SLC30A6,missense_variant,p.Leu125Phe,ENST00000379343,;SLC30A6,missense_variant,p.Leu85Phe,ENST00000435660,;SLC30A6,missense_variant,p.Leu56Phe,ENST00000440718,;SLC30A6,missense_variant,p.Leu11Phe,ENST00000406369,;SLC30A6,missense_variant,p.Leu85Phe,ENST00000282587,;SLC30A6,5_prime_UTR_variant,,ENST00000357055,;SLC30A6,missense_variant,p.Leu85Phe,ENST00000457724,;SLC30A6,3_prime_UTR_variant,,ENST00000454324,;SLC30A6,intron_variant,,ENST00000449777,;	C	ENSG00000152683	ENST00000379343	Transcript	missense_variant	412	375	125	L/F	ttG/ttC	.	.	.	1	SLC30A6	HGNC	19305	protein_coding	YES	CCDS54341.1	ENSP00000368648	ZNT6_HUMAN	B5MCR8_HUMAN,B3KU87_HUMAN	UPI0000D61182	.	tolerated(0.16)	benign(0.002)	6/15	.	Superfamily_domains:0054606,Gene3D:3h90A01,TIGRFAM_domain:TIGR01297,Pfam_domain:PF01545,hmmpanther:PTHR11562:SF27,hmmpanther:PTHR11562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTGAGGAA	.	5	BLCA
PKDCC	0	.	GRCh37	2	42282494	42282494	+	Missense_Mutation	SNP	G	G	A	rs753432784	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1183G>A	p.Gly395Arg	p.G395R	ENST00000294964	5/7	30	24	6	17	17	0	PKDCC,missense_variant,p.Gly395Arg,ENST00000294964,;PKDCC,intron_variant,,ENST00000480099,;PKDCC,3_prime_UTR_variant,,ENST00000401498,;PKDCC,non_coding_transcript_exon_variant,,ENST00000470578,;PKDCC,non_coding_transcript_exon_variant,,ENST00000475241,;PKDCC,non_coding_transcript_exon_variant,,ENST00000475868,;PKDCC,non_coding_transcript_exon_variant,,ENST00000490302,;PKDCC,downstream_gene_variant,,ENST00000485578,;PKDCC,downstream_gene_variant,,ENST00000492861,;	A	ENSG00000162878	ENST00000294964	Transcript	missense_variant	1363	1183	395	G/R	Ggg/Agg	rs753432784	.	.	1	PKDCC	HGNC	25123	protein_coding	YES	CCDS33186.2	ENSP00000294964	PKDCC_HUMAN	.	UPI0000EE25C6	.	deleterious(0)	probably_damaging(0.998)	5/7	.	PROSITE_profiles:PS50011,hmmpanther:PTHR26392,hmmpanther:PTHR26392:SF71	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGCGGGCAG	byFrequency	5	BLCA
NRXN1	0	.	GRCh37	2	50463995	50463995	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3598C>T	p.Gln1200Ter	p.Q1200*	ENST00000404971	19/24	48	32	16	53	53	0	NRXN1,stop_gained,p.Gln1152Ter,ENST00000405472,;NRXN1,stop_gained,p.Gln178Ter,ENST00000401710,;NRXN1,stop_gained,p.Gln1200Ter,ENST00000404971,;NRXN1,stop_gained,p.Gln1160Ter,ENST00000406316,;NRXN1,stop_gained,p.Gln1160Ter,ENST00000401669,;NRXN1,stop_gained,p.Gln1160Ter,ENST00000406859,;NRXN1,stop_gained,p.Gln125Ter,ENST00000342183,;NRXN1,stop_gained,p.Gln1152Ter,ENST00000402717,;NRXN1,non_coding_transcript_exon_variant,,ENST00000331040,;	A	ENSG00000179915	ENST00000404971	Transcript	stop_gained	4938	3598	1200	Q/*	Cag/Tag	COSM1259545,COSM1259544,COSM1259547,COSM1259546	.	.	-1	NRXN1	HGNC	8008	protein_coding	YES	CCDS46282.1	ENSP00000385142	NRX1A_HUMAN	Q08AH0_HUMAN	UPI00015A218A	.	.	.	19/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF565,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTGAACAG	.	5	BLCA
SNRNP27	0	.	GRCh37	2	70123608	70123608	+	Nonsense_Mutation	SNP	C	C	T	rs760270782	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196C>T	p.Arg66Ter	p.R66*	ENST00000244227	3/6	63	48	15	58	58	0	SNRNP27,stop_gained,p.Arg66Ter,ENST00000409116,;SNRNP27,stop_gained,p.Arg66Ter,ENST00000244227,;MXD1,upstream_gene_variant,,ENST00000435990,;SNRNP27,upstream_gene_variant,,ENST00000488986,;SNRNP27,stop_gained,p.Arg66Ter,ENST00000450162,;	T	ENSG00000124380	ENST00000244227	Transcript	stop_gained	621	196	66	R/*	Cga/Tga	rs760270782	.	.	1	SNRNP27	HGNC	30240	protein_coding	YES	CCDS33219.1	ENSP00000244227	SNR27_HUMAN	A8K513_HUMAN	UPI000006D312	.	.	.	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31077,Pfam_domain:PF08648	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCGACTG	byFrequency	5	BLCA
LRRTM4	0	.	GRCh37	2	77748874	77748874	+	Intron	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-77G>T	.	.	ENST00000409093	2/4	84	69	15	70	70	0	LRRTM4,splice_region_variant,,ENST00000409093,;LRRTM4,5_prime_UTR_variant,,ENST00000409088,;LRRTM4,5_prime_UTR_variant,,ENST00000409884,;LRRTM4,intron_variant,,ENST00000456154,;LRRTM4,intron_variant,,ENST00000409282,;LRRTM4,intron_variant,,ENST00000409911,;	A	ENSG00000176204	ENST00000409093	Transcript	splice_region_variant	261	.	.	.	.	.	.	.	-1	LRRTM4	HGNC	19411	protein_coding	YES	CCDS46346.1	ENSP00000386357	LRRT4_HUMAN	C9JM64_HUMAN	UPI0000047808	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCACCTTCA	.	2	BLCA
CTNNA2	0	.	GRCh37	2	80772104	80772104	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1291-3C>T	.	.	ENST00000466387	.	32	19	12	28	28	0	CTNNA2,splice_region_variant,,ENST00000496558,;CTNNA2,splice_region_variant,,ENST00000361291,;CTNNA2,splice_region_variant,,ENST00000541047,;CTNNA2,splice_region_variant,,ENST00000343114,;CTNNA2,splice_region_variant,,ENST00000540488,;CTNNA2,splice_region_variant,,ENST00000409550,;CTNNA2,splice_region_variant,,ENST00000466387,;CTNNA2,splice_region_variant,,ENST00000402739,;CTNNA2,splice_region_variant,,ENST00000465616,;CTNNA2,splice_region_variant,,ENST00000493024,;	T	ENSG00000066032	ENST00000466387	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CTNNA2	HGNC	2510	protein_coding	YES	CCDS42703.2	ENSP00000418191	CTNA2_HUMAN	F6KRI5_HUMAN,C9J144_HUMAN,C9IZ88_HUMAN	UPI00001A3E86	.	.	.	.	13/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATACAGGTT	.	4	BLCA
KIDINS220	0	.	GRCh37	2	8871724	8871724	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4442A>C	p.Glu1481Ala	p.E1481A	ENST00000256707	30/30	50	34	16	54	54	0	KIDINS220,missense_variant,p.Glu1462Ala,ENST00000427284,;KIDINS220,missense_variant,p.Glu1382Ala,ENST00000418530,;KIDINS220,missense_variant,p.Glu1481Ala,ENST00000256707,;KIDINS220,missense_variant,p.Glu1462Ala,ENST00000473731,;KIDINS220,intron_variant,,ENST00000496383,;KIDINS220,downstream_gene_variant,,ENST00000489024,;KIDINS220,upstream_gene_variant,,ENST00000436566,;KIDINS220,3_prime_UTR_variant,,ENST00000488729,;KIDINS220,downstream_gene_variant,,ENST00000471685,;	G	ENSG00000134313	ENST00000256707	Transcript	missense_variant	4624	4442	1481	E/A	gAa/gCa	.	.	.	-1	KIDINS220	HGNC	29508	protein_coding	YES	CCDS42650.1	ENSP00000256707	KDIS_HUMAN	F8WAY8_HUMAN	UPI0000208E08	.	deleterious_low_confidence(0)	probably_damaging(0.998)	30/30	.	hmmpanther:PTHR24116,hmmpanther:PTHR24116:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTTCATCT	.	5	BLCA
CEP97	0	.	GRCh37	3	101484366	101484366	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2569C>T	p.Gln857Ter	p.Q857*	ENST00000341893	11/11	116	77	39	89	89	0	CEP97,stop_gained,p.Gln798Ter,ENST00000494050,;CEP97,stop_gained,p.Gln883Ter,ENST00000327230,;CEP97,stop_gained,p.Gln857Ter,ENST00000341893,;CEP97,downstream_gene_variant,,ENST00000467655,;	T	ENSG00000182504	ENST00000341893	Transcript	stop_gained	3321	2569	857	Q/*	Cag/Tag	.	.	.	1	CEP97	HGNC	26244	protein_coding	YES	CCDS2944.1	ENSP00000342510	CEP97_HUMAN	.	UPI0000074569	.	.	.	11/11	.	hmmpanther:PTHR10588,hmmpanther:PTHR10588:SF232	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTCAGCTA	.	5	BLCA
GOLGB1	0	.	GRCh37	3	121414880	121414880	+	Missense_Mutation	SNP	C	C	T	rs779641750	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4490G>A	p.Arg1497Gln	p.R1497Q	ENST00000393667	13/22	251	219	31	164	164	0	GOLGB1,missense_variant,p.Arg1497Gln,ENST00000393667,;GOLGB1,missense_variant,p.Arg1492Gln,ENST00000340645,;GOLGB1,missense_variant,p.Arg1456Gln,ENST00000494517,;GOLGB1,downstream_gene_variant,,ENST00000489400,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;	T	ENSG00000173230	ENST00000393667	Transcript	missense_variant	4601	4490	1497	R/Q	cGa/cAa	rs779641750,COSM727940,COSM174202	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	probably_damaging(1)	13/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTTCGGGAA	byFrequency	4	BLCA
EAF2	0	.	GRCh37	3	121591444	121591444	+	Missense_Mutation	SNP	C	C	G	rs766289522	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.545C>G	p.Ser182Cys	p.S182C	ENST00000273668	5/6	140	104	35	102	102	0	EAF2,missense_variant,p.Ser182Cys,ENST00000451944,;EAF2,missense_variant,p.Ser182Cys,ENST00000273668,;EAF2,3_prime_UTR_variant,,ENST00000490434,;	G	ENSG00000145088	ENST00000273668	Transcript	missense_variant	616	545	182	S/C	tCc/tGc	rs766289522	.	.	1	EAF2	HGNC	23115	protein_coding	YES	CCDS3006.1	ENSP00000273668	EAF2_HUMAN	F8WF04_HUMAN	UPI000000D7DA	.	deleterious(0.04)	probably_damaging(0.997)	5/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15970,hmmpanther:PTHR15970:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCCAAAA	byFrequency	5	BLCA
MCM2	0	.	GRCh37	3	127335797	127335797	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1609G>T	p.Glu537Ter	p.E537*	ENST00000265056	10/16	117	76	40	92	92	0	MCM2,stop_gained,p.Glu537Ter,ENST00000265056,;MCM2,stop_gained,p.Glu469Ter,ENST00000491422,;MCM2,upstream_gene_variant,,ENST00000468414,;MCM2,3_prime_UTR_variant,,ENST00000477668,;MCM2,3_prime_UTR_variant,,ENST00000474964,;MCM2,upstream_gene_variant,,ENST00000473785,;	T	ENSG00000073111	ENST00000265056	Transcript	stop_gained	1853	1609	537	E/*	Gag/Tag	.	.	.	1	MCM2	HGNC	6944	protein_coding	YES	CCDS3043.1	ENSP00000265056	MCM2_HUMAN	Q9BWF4_HUMAN,C9JZ21_HUMAN,C9J013_HUMAN	UPI00001A3E4E	.	.	.	10/16	.	Superfamily_domains:SSF52540,SMART_domains:SM00350,Pfam_domain:PF00493,Gene3D:3.40.50.300,hmmpanther:PTHR11630:SF44,hmmpanther:PTHR11630,PROSITE_profiles:PS50051	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTGAGAAA	.	5	BLCA
RHO	0	.	GRCh37	3	129247849	129247849	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.273C>T	p.%3D	p.F91F	ENST00000296271	1/5	104	71	33	98	98	0	RHO,synonymous_variant,p.%3D,ENST00000296271,;	T	ENSG00000163914	ENST00000296271	Transcript	synonymous_variant	367	273	91	F	ttC/ttT	.	.	.	1	RHO	HGNC	10012	protein_coding	YES	CCDS3063.1	ENSP00000296271	OPSD_HUMAN	.	UPI0000046CE6	.	.	.	1/5	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24240:SF15,hmmpanther:PTHR24240,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00579	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTTCACCAG	.	5	BLCA
KY	0	.	GRCh37	3	134369698	134369698	+	Silent	SNP	C	C	G	rs376148670	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105G>C	p.%3D	p.A35A	ENST00000423778	1/11	22	13	9	16	16	0	KY,synonymous_variant,p.%3D,ENST00000503669,;KY,synonymous_variant,p.%3D,ENST00000423778,;KY,synonymous_variant,p.%3D,ENST00000508956,;EPHB1,intron_variant,,ENST00000460895,;EPHB1,intron_variant,,ENST00000467708,;KY,intron_variant,,ENST00000506319,;	G	ENSG00000174611	ENST00000423778	Transcript	synonymous_variant	167	105	35	A	gcG/gcC	rs376148670,COSM3914986,COSM3914987	.	.	-1	KY	HGNC	26576	protein_coding	YES	CCDS46920.1	ENSP00000397598	KY_HUMAN	.	UPI0000EE2109	.	.	.	1/11	.	hmmpanther:PTHR11039,hmmpanther:PTHR11039:SF31	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGTTCGCCTG	byFrequency|byCluster	3	BLCA
ZIC4	0	.	GRCh37	3	147108799	147108799	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1073C>G	p.Ser358Trp	p.S358W	ENST00000525172	4/5	44	36	8	36	36	0	ZIC4,missense_variant,p.Ser346Trp,ENST00000425731,;ZIC4,missense_variant,p.Ser308Trp,ENST00000473123,;ZIC4,missense_variant,p.Ser308Trp,ENST00000383075,;ZIC4,missense_variant,p.Ser102Trp,ENST00000491672,;ZIC4,missense_variant,p.Ser358Trp,ENST00000525172,;ZIC4,missense_variant,p.Ser308Trp,ENST00000484399,;ZIC1,upstream_gene_variant,,ENST00000488404,;ZIC4,downstream_gene_variant,,ENST00000462748,;ZIC4-AS1,downstream_gene_variant,,ENST00000462168,;ZIC4,non_coding_transcript_exon_variant,,ENST00000463850,;ZIC4,non_coding_transcript_exon_variant,,ENST00000475502,;ZIC4,non_coding_transcript_exon_variant,,ENST00000464502,;ZIC4,non_coding_transcript_exon_variant,,ENST00000472749,;ZIC1,upstream_gene_variant,,ENST00000472523,;ZIC4,upstream_gene_variant,,ENST00000480015,;ZIC4,non_coding_transcript_exon_variant,,ENST00000493664,;ZIC4,non_coding_transcript_exon_variant,,ENST00000494569,;	C	ENSG00000174963	ENST00000525172	Transcript	missense_variant	1259	1073	358	S/W	tCg/tGg	.	.	.	-1	ZIC4	HGNC	20393	protein_coding	YES	CCDS54652.1	ENSP00000435509	ZIC4_HUMAN	C9JZU7_HUMAN,C9JD04_HUMAN,C9J6T3_HUMAN,B3KPI4_HUMAN	UPI0001914D88	.	deleterious(0)	probably_damaging(0.99)	4/5	.	hmmpanther:PTHR19818	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGCGACACG	.	5	BLCA
IGSF10	0	.	GRCh37	3	151162973	151162973	+	Missense_Mutation	SNP	C	C	T	rs374980131	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4796G>A	p.Gly1599Asp	p.G1599D	ENST00000282466	4/6	142	102	39	83	83	0	IGSF10,missense_variant,p.Gly1599Asp,ENST00000282466,;IGSF10,upstream_gene_variant,,ENST00000489791,;IGSF10,upstream_gene_variant,,ENST00000495443,;IGSF10,upstream_gene_variant,,ENST00000493841,;	T	ENSG00000152580	ENST00000282466	Transcript	missense_variant	4796	4796	1599	G/D	gGc/gAc	rs374980131	.	.	-1	IGSF10	HGNC	26384	protein_coding	YES	CCDS3160.1	ENSP00000282466	IGS10_HUMAN	.	UPI00001D629A	.	tolerated(0.35)	benign(0.003)	4/6	.	hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF29	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGGCCTGTA	byFrequency|byCluster	5	BLCA
NAALADL2	0	.	GRCh37	3	175293868	175293868	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1693G>C	p.Glu565Gln	p.E565Q	ENST00000454872	10/14	91	72	19	50	50	0	NAALADL2,missense_variant,p.Glu565Gln,ENST00000454872,;NAALADL2,non_coding_transcript_exon_variant,,ENST00000473253,;NAALADL2,non_coding_transcript_exon_variant,,ENST00000489299,;	C	ENSG00000177694	ENST00000454872	Transcript	missense_variant	1821	1693	565	E/Q	Gaa/Caa	.	.	.	1	NAALADL2	HGNC	23219	protein_coding	YES	CCDS46960.1	ENSP00000404705	NADL2_HUMAN	C9JQ86_HUMAN	UPI0000161608	.	tolerated(0.36)	benign(0.328)	10/14	.	hmmpanther:PTHR10404:SF32,hmmpanther:PTHR10404,Gene3D:3.40.630.10,Pfam_domain:PF04389,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCAGAAACC	.	2	BLCA
PSMD2	0	.	GRCh37	3	184026668	184026668	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2717A>G	p.Tyr906Cys	p.Y906C	ENST00000310118	21/21	101	76	25	90	90	0	PSMD2,missense_variant,p.Tyr906Cys,ENST00000310118,;PSMD2,missense_variant,p.Tyr776Cys,ENST00000439383,;PSMD2,missense_variant,p.Tyr747Cys,ENST00000435761,;EIF2B5,intron_variant,,ENST00000444495,;PSMD2,downstream_gene_variant,,ENST00000432855,;PSMD2,downstream_gene_variant,,ENST00000473991,;PSMD2,downstream_gene_variant,,ENST00000488085,;PSMD2,downstream_gene_variant,,ENST00000466987,;PSMD2,downstream_gene_variant,,ENST00000491494,;PSMD2,downstream_gene_variant,,ENST00000496925,;PSMD2,downstream_gene_variant,,ENST00000460628,;	G	ENSG00000175166	ENST00000310118	Transcript	missense_variant	3275	2717	906	Y/C	tAt/tGt	.	.	.	1	PSMD2	HGNC	9559	protein_coding	YES	CCDS3258.1	ENSP00000310129	PSMD2_HUMAN	Q9NSM5_HUMAN,E7EW34_HUMAN	UPI000013277E	.	deleterious(0)	possibly_damaging(0.759)	21/21	.	hmmpanther:PTHR10943,PIRSF_domain:PIRSF015965	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTATGATC	.	5	BLCA
C3orf70	0	.	GRCh37	3	184870586	184870586	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.26C>T	p.Ser9Leu	p.S9L	ENST00000335012	1/2	23	18	5	29	29	0	C3orf70,missense_variant,p.Ser9Leu,ENST00000335012,;	A	ENSG00000187068	ENST00000335012	Transcript	missense_variant	217	26	9	S/L	tCg/tTg	.	.	.	-1	C3orf70	HGNC	33731	protein_coding	YES	CCDS33900.1	ENSP00000334974	CC070_HUMAN	.	UPI000016128B	.	deleterious_low_confidence(0.02)	benign(0.011)	1/2	.	hmmpanther:PTHR31785:SF2,hmmpanther:PTHR31785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S6L|c.17C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCCGACGCC	.	5	BLCA
TFRC	0	.	GRCh37	3	195791225	195791225	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1273C>G	p.Leu425Val	p.L425V	ENST00000360110	11/19	86	60	26	35	35	0	TFRC,missense_variant,p.Leu425Val,ENST00000360110,;TFRC,missense_variant,p.Leu425Val,ENST00000392396,;TFRC,missense_variant,p.Leu344Val,ENST00000420415,;TFRC,missense_variant,p.Leu143Val,ENST00000535031,;TFRC,3_prime_UTR_variant,,ENST00000540528,;TFRC,upstream_gene_variant,,ENST00000463356,;TFRC,upstream_gene_variant,,ENST00000465288,;TFRC,non_coding_transcript_exon_variant,,ENST00000464368,;TFRC,upstream_gene_variant,,ENST00000477148,;TFRC,downstream_gene_variant,,ENST00000491658,;TFRC,upstream_gene_variant,,ENST00000475593,;TFRC,upstream_gene_variant,,ENST00000483983,;	C	ENSG00000072274	ENST00000360110	Transcript	missense_variant	1443	1273	425	L/V	Ctc/Gtc	.	.	.	-1	TFRC	HGNC	11763	protein_coding	YES	CCDS3312.1	ENSP00000353224	TFR1_HUMAN	G3V0E5_HUMAN,F5H6B1_HUMAN	UPI0000049ADE	.	tolerated(0.32)	possibly_damaging(0.757)	11/19	.	hmmpanther:PTHR10404,hmmpanther:PTHR10404:SF26,Gene3D:3.40.630.10,Pfam_domain:PF04389,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGGAGAGCTG	.	5	BLCA
RNF168	0	.	GRCh37	3	196198834	196198834	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1572G>C	p.Lys524Asn	p.K524N	ENST00000318037	6/6	324	170	154	191	191	0	RNF168,missense_variant,p.Lys524Asn,ENST00000318037,;CTD-2002J20.1,upstream_gene_variant,,ENST00000610042,;RNF168,3_prime_UTR_variant,,ENST00000437070,;	G	ENSG00000163961	ENST00000318037	Transcript	missense_variant	2167	1572	524	K/N	aaG/aaC	.	.	.	-1	RNF168	HGNC	26661	protein_coding	YES	CCDS3317.1	ENSP00000320898	RN168_HUMAN	.	UPI00000741D1	.	deleterious(0.04)	benign(0.007)	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATCTTTAA	.	5	BLCA
DYNC1LI1	0	.	GRCh37	3	32587344	32587344	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334G>C	p.Asp112His	p.D112H	ENST00000273130	3/13	50	46	4	68	68	0	DYNC1LI1,missense_variant,p.Asp112His,ENST00000273130,;DYNC1LI1,missense_variant,p.Asp153His,ENST00000424991,;DYNC1LI1,missense_variant,p.Asp61His,ENST00000413350,;DYNC1LI1,intron_variant,,ENST00000432458,;DYNC1LI1,non_coding_transcript_exon_variant,,ENST00000481915,;DYNC1LI1,non_coding_transcript_exon_variant,,ENST00000475193,;DYNC1LI1,downstream_gene_variant,,ENST00000474077,;	G	ENSG00000144635	ENST00000273130	Transcript	missense_variant	438	334	112	D/H	Gat/Cat	.	.	.	-1	DYNC1LI1	HGNC	18745	protein_coding	YES	CCDS2654.1	ENSP00000273130	DC1L1_HUMAN	B3KM42_HUMAN	UPI000013D99D	.	deleterious(0)	probably_damaging(0.998)	3/13	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,Pfam_domain:PF05783,hmmpanther:PTHR12688:SF2,hmmpanther:PTHR12688	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCATCCCTGT	.	3	BLCA
CYP8B1	0	.	GRCh37	3	42917105	42917105	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204C>T	p.%3D	p.F68F	ENST00000316161	1/1	44	35	9	52	52	0	CYP8B1,synonymous_variant,p.%3D,ENST00000437102,;CYP8B1,synonymous_variant,p.%3D,ENST00000316161,;KRBOX1,intron_variant,,ENST00000426937,;KRBOX1,intron_variant,,ENST00000451200,;ACKR2,intron_variant,,ENST00000460855,;RP11-141M3.5,intron_variant,,ENST00000471537,;RP11-141M3.5,intron_variant,,ENST00000487368,;ACKR2,intron_variant,,ENST00000498111,;RP11-141M3.5,intron_variant,,ENST00000496604,;	A	ENSG00000180432	ENST00000316161	Transcript	synonymous_variant	529	204	68	F	ttC/ttT	.	.	.	-1	CYP8B1	HGNC	2653	protein_coding	YES	CCDS2707.1	ENSP00000318867	CP8B1_HUMAN	.	UPI000013FCE2	.	.	.	1/1	.	Prints_domain:PR00465,Superfamily_domains:SSF48264,PIRSF_domain:PIRSF500627,PIRSF_domain:PIRSF000047,Gene3D:1.10.630.10,Pfam_domain:PF00067,hmmpanther:PTHR24306,hmmpanther:PTHR24306:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGTGAACAC	.	5	BLCA
MST1	0	.	GRCh37	3	49724213	49724213	+	Missense_Mutation	SNP	C	C	T	rs751749433	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.751G>A	p.Asp251Asn	p.D251N	ENST00000449682	7/18	13	9	4	20	20	0	MST1,missense_variant,p.Asp251Asn,ENST00000449682,;MST1,missense_variant,p.Asp176Asn,ENST00000383728,;MST1,3_prime_UTR_variant,,ENST00000545762,;APEH,downstream_gene_variant,,ENST00000296456,;APEH,downstream_gene_variant,,ENST00000438011,;RNF123,upstream_gene_variant,,ENST00000454491,;MST1,upstream_gene_variant,,ENST00000448220,;RNF123,upstream_gene_variant,,ENST00000327697,;RNF123,upstream_gene_variant,,ENST00000432042,;MST1,non_coding_transcript_exon_variant,,ENST00000494828,;MST1,downstream_gene_variant,,ENST00000491943,;MST1,non_coding_transcript_exon_variant,,ENST00000494809,;MST1,non_coding_transcript_exon_variant,,ENST00000488350,;MST1,non_coding_transcript_exon_variant,,ENST00000492370,;MST1,non_coding_transcript_exon_variant,,ENST00000479115,;MST1,non_coding_transcript_exon_variant,,ENST00000484269,;MST1,non_coding_transcript_exon_variant,,ENST00000489007,;MST1,non_coding_transcript_exon_variant,,ENST00000497359,;MST1,non_coding_transcript_exon_variant,,ENST00000484673,;MST1,non_coding_transcript_exon_variant,,ENST00000492329,;APEH,downstream_gene_variant,,ENST00000480772,;APEH,downstream_gene_variant,,ENST00000469362,;RNF123,upstream_gene_variant,,ENST00000443204,;MST1,upstream_gene_variant,,ENST00000484144,;RNF123,upstream_gene_variant,,ENST00000486102,;RNF123,upstream_gene_variant,,ENST00000487805,;AC099668.5,upstream_gene_variant,,ENST00000563780,;MST1,downstream_gene_variant,,ENST00000481055,;MST1,upstream_gene_variant,,ENST00000498021,;MST1,upstream_gene_variant,,ENST00000481930,;MST1,upstream_gene_variant,,ENST00000468847,;MST1,downstream_gene_variant,,ENST00000490966,;MST1,upstream_gene_variant,,ENST00000493836,;MST1,upstream_gene_variant,,ENST00000480268,;RNF123,upstream_gene_variant,,ENST00000457726,;	T	ENSG00000173531	ENST00000449682	Transcript	missense_variant	1113	751	251	D/N	Gac/Aac	rs751749433	.	.	-1	MST1	HGNC	7380	protein_coding	YES	CCDS33757.2	ENSP00000414287	.	G3XAK1_HUMAN	UPI0000EE2A31	.	deleterious(0.03)	benign(0.09)	7/18	.	PROSITE_profiles:PS50070,hmmpanther:PTHR24272,hmmpanther:PTHR24272:SF43,Gene3D:2.40.20.10,Pfam_domain:PF00051,PIRSF_domain:PIRSF001152,SMART_domains:SM00130,PIRSF_domain:PIRSF500185,Superfamily_domains:SSF57440,Prints_domain:PR00018	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTGTCGTCCA	.	2	BLCA
MST1	0	.	GRCh37	3	49724228	49724228	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736G>C	p.Asp246His	p.D246H	ENST00000449682	7/18	12	7	4	19	19	0	MST1,missense_variant,p.Asp246His,ENST00000449682,;MST1,missense_variant,p.Asp171His,ENST00000383728,;MST1,3_prime_UTR_variant,,ENST00000545762,;APEH,downstream_gene_variant,,ENST00000296456,;APEH,downstream_gene_variant,,ENST00000438011,;RNF123,upstream_gene_variant,,ENST00000454491,;MST1,upstream_gene_variant,,ENST00000448220,;RNF123,upstream_gene_variant,,ENST00000327697,;RNF123,upstream_gene_variant,,ENST00000432042,;MST1,non_coding_transcript_exon_variant,,ENST00000494828,;MST1,downstream_gene_variant,,ENST00000491943,;MST1,non_coding_transcript_exon_variant,,ENST00000494809,;MST1,non_coding_transcript_exon_variant,,ENST00000488350,;MST1,non_coding_transcript_exon_variant,,ENST00000492370,;MST1,non_coding_transcript_exon_variant,,ENST00000479115,;MST1,non_coding_transcript_exon_variant,,ENST00000484269,;MST1,non_coding_transcript_exon_variant,,ENST00000489007,;MST1,non_coding_transcript_exon_variant,,ENST00000497359,;MST1,non_coding_transcript_exon_variant,,ENST00000484673,;MST1,non_coding_transcript_exon_variant,,ENST00000492329,;APEH,downstream_gene_variant,,ENST00000480772,;APEH,downstream_gene_variant,,ENST00000469362,;RNF123,upstream_gene_variant,,ENST00000443204,;MST1,upstream_gene_variant,,ENST00000484144,;RNF123,upstream_gene_variant,,ENST00000486102,;RNF123,upstream_gene_variant,,ENST00000487805,;AC099668.5,upstream_gene_variant,,ENST00000563780,;MST1,downstream_gene_variant,,ENST00000481055,;MST1,upstream_gene_variant,,ENST00000498021,;MST1,upstream_gene_variant,,ENST00000481930,;MST1,upstream_gene_variant,,ENST00000468847,;MST1,downstream_gene_variant,,ENST00000490966,;MST1,upstream_gene_variant,,ENST00000493836,;MST1,upstream_gene_variant,,ENST00000480268,;RNF123,upstream_gene_variant,,ENST00000457726,;	G	ENSG00000173531	ENST00000449682	Transcript	missense_variant	1098	736	246	D/H	Gac/Cac	.	.	.	-1	MST1	HGNC	7380	protein_coding	YES	CCDS33757.2	ENSP00000414287	.	G3XAK1_HUMAN	UPI0000EE2A31	.	deleterious(0.01)	probably_damaging(0.967)	7/18	.	PROSITE_profiles:PS50070,hmmpanther:PTHR24272,hmmpanther:PTHR24272:SF43,Gene3D:2.40.20.10,Pfam_domain:PF00051,PIRSF_domain:PIRSF001152,SMART_domains:SM00130,PIRSF_domain:PIRSF500185,Superfamily_domains:SSF57440	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGGTCGAGGA	.	2	BLCA
ALAS1	0	.	GRCh37	3	52248087	52248087	+	Missense_Mutation	SNP	C	C	T	rs749651370	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1814C>T	p.Ser605Phe	p.S605F	ENST00000394965	12/12	39	32	7	61	61	0	ALAS1,missense_variant,p.Ser605Phe,ENST00000484952,;ALAS1,missense_variant,p.Ser202Phe,ENST00000493402,;ALAS1,missense_variant,p.Ser605Phe,ENST00000469224,;ALAS1,missense_variant,p.Ser605Phe,ENST00000394965,;ALAS1,missense_variant,p.Ser605Phe,ENST00000310271,;ALAS1,downstream_gene_variant,,ENST00000459884,;	T	ENSG00000023330	ENST00000394965	Transcript	missense_variant	2174	1814	605	S/F	tCc/tTc	rs749651370	.	.	1	ALAS1	HGNC	396	protein_coding	YES	CCDS2847.1	ENSP00000378416	HEM1_HUMAN	Q5JAM2_HUMAN	UPI0000001230	.	deleterious(0.02)	probably_damaging(0.95)	12/12	.	hmmpanther:PTHR13693,hmmpanther:PTHR13693:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTCCTCAG	.	5	BLCA
PLA2G12A	0	.	GRCh37	4	110635409	110635409	+	3'UTR	SNP	T	T	A	rs143438357	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*124A>T	.	.	ENST00000243501	4/4	24	19	5	28	28	0	PLA2G12A,3_prime_UTR_variant,,ENST00000243501,;PLA2G12A,3_prime_UTR_variant,,ENST00000502283,;PLA2G12A,downstream_gene_variant,,ENST00000502772,;PLA2G12A,downstream_gene_variant,,ENST00000507961,;	A	ENSG00000123739	ENST00000243501	Transcript	3_prime_UTR_variant	962	.	.	.	.	rs143438357	.	.	-1	PLA2G12A	HGNC	18554	protein_coding	YES	CCDS3686.1	ENSP00000243501	PG12A_HUMAN	Q542Y6_HUMAN	UPI0000001BF6	.	.	.	4/4	.	.	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAAATTATTT	byCluster|by1000G	5	BLCA
NDST4	0	.	GRCh37	4	115997247	115997247	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.946G>T	p.Glu316Ter	p.E316*	ENST00000264363	2/14	50	41	9	63	63	0	NDST4,stop_gained,p.Glu316Ter,ENST00000264363,;NDST4,intron_variant,,ENST00000504854,;NDST4,intron_variant,,ENST00000514570,;	A	ENSG00000138653	ENST00000264363	Transcript	stop_gained	1625	946	316	E/*	Gag/Tag	.	.	.	-1	NDST4	HGNC	20779	protein_coding	YES	CCDS3706.1	ENSP00000264363	NDST4_HUMAN	.	UPI000006CED7	.	.	.	2/14	.	Pfam_domain:PF12062,hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G317G|c.951A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCTTTCC	.	5	BLCA
FBXW7	0	.	GRCh37	4	153332577	153332577	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379C>T	p.Gln127Ter	p.Q127*	ENST00000281708	2/12	32	17	15	35	35	0	FBXW7,stop_gained,p.Gln127Ter,ENST00000604872,;FBXW7,stop_gained,p.Gln127Ter,ENST00000603548,;FBXW7,stop_gained,p.Gln127Ter,ENST00000281708,;FBXW7,stop_gained,p.Gln127Ter,ENST00000605042,;FBXW7,stop_gained,p.Gln127Ter,ENST00000603841,;	A	ENSG00000109670	ENST00000281708	Transcript	stop_gained	1609	379	127	Q/*	Cag/Tag	.	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	.	.	2/12	.	Low_complexity_(Seg):seg,Gene3D:2.130.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTGATCAA	.	5	BLCA
GUCY1A3	0	.	GRCh37	4	156625114	156625114	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286A>G	p.Thr96Ala	p.T96A	ENST00000296518	4/10	51	28	22	79	79	0	GUCY1A3,missense_variant,p.Thr96Ala,ENST00000506455,;GUCY1A3,missense_variant,p.Thr96Ala,ENST00000455639,;GUCY1A3,missense_variant,p.Thr96Ala,ENST00000513574,;GUCY1A3,missense_variant,p.Thr96Ala,ENST00000296518,;GUCY1A3,missense_variant,p.Thr96Ala,ENST00000511507,;GUCY1A3,missense_variant,p.Thr96Ala,ENST00000511108,;GUCY1A3,5_prime_UTR_variant,,ENST00000393832,;GUCY1A3,non_coding_transcript_exon_variant,,ENST00000515602,;GUCY1A3,missense_variant,p.Thr96Ala,ENST00000515201,;GUCY1A3,missense_variant,p.Thr96Ala,ENST00000443668,;GUCY1A3,non_coding_transcript_exon_variant,,ENST00000512983,;GUCY1A3,intron_variant,,ENST00000509901,;	G	ENSG00000164116	ENST00000296518	Transcript	missense_variant	495	286	96	T/A	Aca/Gca	.	.	.	1	GUCY1A3	HGNC	4685	protein_coding	YES	CCDS34085.1	ENSP00000296518	GCYA3_HUMAN	Q9NNW8_HUMAN,J3KPQ8_HUMAN	UPI0000033343	.	tolerated(0.07)	possibly_damaging(0.728)	4/10	.	hmmpanther:PTHR11920:SF226,hmmpanther:PTHR11920,Pfam_domain:PF07700	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAACATTG	.	5	BLCA
ANXA10	0	.	GRCh37	4	169013778	169013778	+	5'UTR	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-74C>T	.	.	ENST00000359299	1/12	26	14	12	21	21	0	ANXA10,5_prime_UTR_variant,,ENST00000359299,;RP11-310I9.1,intron_variant,,ENST00000506926,;	T	ENSG00000109511	ENST00000359299	Transcript	5_prime_UTR_variant	113	.	.	.	.	.	.	.	1	ANXA10	HGNC	534	protein_coding	YES	CCDS34096.1	ENSP00000352248	ANX10_HUMAN	.	UPI0000169E98	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTTCTGGCT	.	2	BLCA
KLB	0	.	GRCh37	4	39448278	39448278	+	Silent	SNP	G	G	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1932G>T	p.%3D	p.P644P	ENST00000257408	4/5	56	31	24	70	70	0	KLB,synonymous_variant,p.%3D,ENST00000257408,;Y_RNA,downstream_gene_variant,,ENST00000459360,;	T	ENSG00000134962	ENST00000257408	Transcript	synonymous_variant	2029	1932	644	P	ccG/ccT	.	.	.	1	KLB	HGNC	15527	protein_coding	YES	CCDS3451.1	ENSP00000257408	KLOTB_HUMAN	.	UPI000000D726	.	.	.	4/5	.	hmmpanther:PTHR10353:SF7,hmmpanther:PTHR10353,Pfam_domain:PF00232,Gene3D:3.20.20.80,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCCGACCCA	.	5	BLCA
PIGG	0	.	GRCh37	4	515727	515727	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1611G>A	p.%3D	p.R537R	ENST00000453061	8/13	19	15	4	42	42	0	PIGG,synonymous_variant,p.%3D,ENST00000310340,;PIGG,synonymous_variant,p.%3D,ENST00000383028,;PIGG,synonymous_variant,p.%3D,ENST00000504346,;PIGG,synonymous_variant,p.%3D,ENST00000453061,;PIGG,synonymous_variant,p.%3D,ENST00000509768,;PIGG,3_prime_UTR_variant,,ENST00000296306,;PIGG,3_prime_UTR_variant,,ENST00000536264,;PIGG,3_prime_UTR_variant,,ENST00000503111,;PIGG,upstream_gene_variant,,ENST00000510235,;PIGG,non_coding_transcript_exon_variant,,ENST00000507493,;PIGG,non_coding_transcript_exon_variant,,ENST00000513679,;PIGG,non_coding_transcript_exon_variant,,ENST00000506898,;PIGG,non_coding_transcript_exon_variant,,ENST00000508562,;PIGG,upstream_gene_variant,,ENST00000503261,;PIGG,upstream_gene_variant,,ENST00000511247,;PIGG,3_prime_UTR_variant,,ENST00000504187,;PIGG,intron_variant,,ENST00000506402,;PIGG,upstream_gene_variant,,ENST00000508669,;	A	ENSG00000174227	ENST00000453061	Transcript	synonymous_variant	1717	1611	537	R	agG/agA	.	.	.	1	PIGG	HGNC	25985	protein_coding	YES	CCDS46992.1	ENSP00000415203	PIGG_HUMAN	E7EWV1_HUMAN,D6RC16_HUMAN	UPI00004C7A82	.	.	.	8/13	.	hmmpanther:PTHR23072:SF0,hmmpanther:PTHR23072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAAGGAAGGT	.	5	BLCA
PTPN13	0	.	GRCh37	4	87696775	87696775	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5876C>A	p.Ser1959Ter	p.S1959*	ENST00000436978	35/48	19	12	6	15	15	0	PTPN13,stop_gained,p.Ser1954Ter,ENST00000411767,;PTPN13,stop_gained,p.Ser1959Ter,ENST00000436978,;PTPN13,stop_gained,p.Ser1763Ter,ENST00000316707,;PTPN13,stop_gained,p.Ser1959Ter,ENST00000511467,;PTPN13,stop_gained,p.Ser1935Ter,ENST00000427191,;	A	ENSG00000163629	ENST00000436978	Transcript	stop_gained	6356	5876	1959	S/*	tCa/tAa	.	.	.	1	PTPN13	HGNC	9646	protein_coding	YES	CCDS47093.1	ENSP00000394794	PTN13_HUMAN	Q4W5F5_HUMAN,D6R9X4_HUMAN	UPI000016075D	.	.	.	35/48	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF197,Gene3D:2.30.42.10,Pfam_domain:PF00595,PIRSF_domain:PIRSF000933,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGTCACTTC	.	5	BLCA
HSPA9	0	.	GRCh37	5	137902694	137902694	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.875G>C	p.Arg292Thr	p.R292T	ENST00000297185	8/17	140	115	25	135	135	0	HSPA9,missense_variant,p.Arg292Thr,ENST00000297185,;HSPA9,downstream_gene_variant,,ENST00000507886,;HSPA9,downstream_gene_variant,,ENST00000504810,;HSPA9,upstream_gene_variant,,ENST00000501917,;HSPA9,3_prime_UTR_variant,,ENST00000504902,;HSPA9,non_coding_transcript_exon_variant,,ENST00000507097,;HSPA9,downstream_gene_variant,,ENST00000506477,;HSPA9,downstream_gene_variant,,ENST00000505110,;HSPA9,upstream_gene_variant,,ENST00000523929,;HSPA9,downstream_gene_variant,,ENST00000507115,;	G	ENSG00000113013	ENST00000297185	Transcript	missense_variant	1001	875	292	R/T	aGa/aCa	.	.	.	-1	HSPA9	HGNC	5244	protein_coding	YES	CCDS4208.1	ENSP00000297185	GRP75_HUMAN	D6RJI2_HUMAN,D6RA73_HUMAN	UPI000012BA4E	.	deleterious_low_confidence(0.01)	possibly_damaging(0.764)	8/17	.	HAMAP:MF_00332,hmmpanther:PTHR19375:SF173,hmmpanther:PTHR19375,TIGRFAM_domain:TIGR02350,Pfam_domain:PF00012,Gene3D:3.90.640.10,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCTCTTG	.	5	BLCA
SLC4A9	0	.	GRCh37	5	139751849	139751849	+	Missense_Mutation	SNP	G	G	A	rs762998447	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2765G>A	p.Arg922Gln	p.R922Q	ENST00000230993	20/22	20	9	11	14	14	0	SLC4A9,missense_variant,p.Arg922Gln,ENST00000230993,;SLC4A9,missense_variant,p.Arg835Gln,ENST00000506545,;SLC4A9,missense_variant,p.Arg884Gln,ENST00000432095,;SLC4A9,missense_variant,p.Arg922Gln,ENST00000507527,;SLC4A9,missense_variant,p.Arg898Gln,ENST00000506757,;CTC-329D1.2,intron_variant,,ENST00000507521,;SLC4A9,non_coding_transcript_exon_variant,,ENST00000504742,;SLC4A9,downstream_gene_variant,,ENST00000514849,;	A	ENSG00000113073	ENST00000230993	Transcript	missense_variant	2800	2765	922	R/Q	cGa/cAa	rs762998447,COSM4155479,COSM4155478,COSM4155480	.	.	1	SLC4A9	HGNC	11035	protein_coding	YES	CCDS58973.1	ENSP00000230993	B3A4_HUMAN	.	UPI000018336F	.	deleterious(0.01)	probably_damaging(0.999)	20/22	.	TIGRFAM_domain:TIGR00834,hmmpanther:PTHR11453:SF33,hmmpanther:PTHR11453	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCCGAAAGG	byFrequency	5	BLCA
PCDHGA11	0	.	GRCh37	5	140801003	140801003	+	Missense_Mutation	SNP	G	G	A	rs373015809	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209G>A	p.Arg70Lys	p.R70K	ENST00000398587	1/4	68	49	18	49	49	0	PCDHGA11,missense_variant,p.Arg70Lys,ENST00000398587,;PCDHGA11,missense_variant,p.Arg70Lys,ENST00000518882,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGA10,intron_variant,,ENST00000398610,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGB7,intron_variant,,ENST00000398594,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB8P,upstream_gene_variant,,ENST00000502926,;PCDHGB8P,upstream_gene_variant,,ENST00000507007,;	A	ENSG00000253873	ENST00000398587	Transcript	missense_variant	242	209	70	R/K	aGa/aAa	rs373015809	.	.	1	PCDHGA11	HGNC	8698	protein_coding	YES	CCDS47294.1	ENSP00000381589	PCDGB_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000739DC	.	tolerated_low_confidence(0.09)	benign(0.271)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF84,Gene3D:2.60.40.60,Pfam_domain:PF08266,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	C:0.0002	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCAGAGGGA	byCluster	5	BLCA
HTR4	0	.	GRCh37	5	147889125	147889125	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.970C>T	p.Leu324Phe	p.L324F	ENST00000360693	6/8	37	26	10	42	42	0	HTR4,missense_variant,p.Leu324Phe,ENST00000521530,;HTR4,missense_variant,p.Leu324Phe,ENST00000520514,;HTR4,missense_variant,p.Leu324Phe,ENST00000517929,;HTR4,missense_variant,p.Leu338Phe,ENST00000362016,;HTR4,missense_variant,p.Leu324Phe,ENST00000354217,;HTR4,missense_variant,p.Leu324Phe,ENST00000314512,;HTR4,missense_variant,p.Leu324Phe,ENST00000521735,;HTR4,missense_variant,p.Leu324Phe,ENST00000360693,;HTR4,missense_variant,p.Leu324Phe,ENST00000377888,;HTR4,missense_variant,p.Leu324Phe,ENST00000522588,;HTR4,missense_variant,p.Leu324Phe,ENST00000524063,;HTR4,non_coding_transcript_exon_variant,,ENST00000521124,;	A	ENSG00000164270	ENST00000360693	Transcript	missense_variant	1109	970	324	L/F	Ctc/Ttc	.	.	.	-1	HTR4	HGNC	5299	protein_coding	YES	CCDS34272.1	ENSP00000353915	5HT4R_HUMAN	.	UPI00002323B1	.	tolerated(0.26)	probably_damaging(0.954)	6/8	.	hmmpanther:PTHR24249:SF33,hmmpanther:PTHR24249,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGAGGAAGG	.	5	BLCA
PCYOX1L	0	.	GRCh37	5	148745677	148745677	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643G>A	p.Ala215Thr	p.A215T	ENST00000274569	4/6	27	14	12	28	28	0	PCYOX1L,missense_variant,p.Ala215Thr,ENST00000274569,;PCYOX1L,missense_variant,p.Ala125Thr,ENST00000514349,;PCYOX1L,splice_region_variant,,ENST00000505669,;PCYOX1L,3_prime_UTR_variant,,ENST00000511945,;PCYOX1L,non_coding_transcript_exon_variant,,ENST00000503240,;PCYOX1L,non_coding_transcript_exon_variant,,ENST00000507621,;PCYOX1L,downstream_gene_variant,,ENST00000510990,;	A	ENSG00000145882	ENST00000274569	Transcript	missense_variant	705	643	215	A/T	Gcc/Acc	.	.	.	1	PCYOX1L	HGNC	28477	protein_coding	YES	CCDS4296.1	ENSP00000274569	PCYXL_HUMAN	E7EVZ5_HUMAN	UPI0000049E12	.	tolerated(0.1)	benign(0.068)	4/6	.	hmmpanther:PTHR15944:SF2,hmmpanther:PTHR15944,Pfam_domain:PF07156,PIRSF_domain:PIRSF036292,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGGGCCAGC	.	5	BLCA
PPARGC1B	0	.	GRCh37	5	149215838	149215838	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1820C>T	p.Pro607Leu	p.P607L	ENST00000309241	8/12	110	82	28	127	127	0	PPARGC1B,missense_variant,p.Pro568Leu,ENST00000360453,;PPARGC1B,missense_variant,p.Pro543Leu,ENST00000403750,;PPARGC1B,missense_variant,p.Pro607Leu,ENST00000309241,;PPARGC1B,missense_variant,p.Pro607Leu,ENST00000394320,;PPARGC1B,missense_variant,p.Pro294Leu,ENST00000434684,;	T	ENSG00000155846	ENST00000309241	Transcript	missense_variant	1852	1820	607	P/L	cCc/cTc	.	.	.	1	PPARGC1B	HGNC	30022	protein_coding	YES	CCDS4298.1	ENSP00000312649	PRGC2_HUMAN	.	UPI000006F49D	.	deleterious(0)	possibly_damaging(0.907)	8/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15528:SF12,hmmpanther:PTHR15528	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCACCCACCA	.	5	BLCA
GEMIN5	0	.	GRCh37	5	154284173	154284173	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2526G>T	p.Lys842Asn	p.K842N	ENST00000285873	18/28	54	42	11	50	50	0	GEMIN5,missense_variant,p.Lys842Asn,ENST00000285873,;	A	ENSG00000082516	ENST00000285873	Transcript	missense_variant	2602	2526	842	K/N	aaG/aaT	.	.	.	-1	GEMIN5	HGNC	20043	protein_coding	YES	CCDS4330.1	ENSP00000285873	GEMI5_HUMAN	Q58EZ8_HUMAN	UPI000020D072	.	deleterious(0)	possibly_damaging(0.786)	18/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22850:SF89,hmmpanther:PTHR22850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCTTCTT	.	5	BLCA
PFN3	0	.	GRCh37	5	176827232	176827232	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346G>A	p.Val116Ile	p.V116I	ENST00000358571	1/1	24	20	4	25	25	0	PFN3,missense_variant,p.Val116Ile,ENST00000358571,;GRK6,upstream_gene_variant,,ENST00000502598,;GRK6,upstream_gene_variant,,ENST00000506296,;SLC34A1,downstream_gene_variant,,ENST00000324417,;F12,downstream_gene_variant,,ENST00000253496,;F12,downstream_gene_variant,,ENST00000514943,;SLC34A1,downstream_gene_variant,,ENST00000513614,;F12,downstream_gene_variant,,ENST00000504406,;F12,downstream_gene_variant,,ENST00000502854,;F12,downstream_gene_variant,,ENST00000503736,;SLC34A1,downstream_gene_variant,,ENST00000507685,;F12,downstream_gene_variant,,ENST00000510358,;	T	ENSG00000196570	ENST00000358571	Transcript	missense_variant	406	346	116	V/I	Gta/Ata	.	.	.	-1	PFN3	HGNC	18627	protein_coding	YES	CCDS34301.1	ENSP00000351379	PROF3_HUMAN	.	UPI000019788D	.	tolerated(0.08)	benign(0.364)	1/1	.	hmmpanther:PTHR13936,hmmpanther:PTHR13936:SF2,Gene3D:3.30.450.30,Pfam_domain:PF00235,SMART_domains:SM00392,Superfamily_domains:SSF55770,Prints_domain:PR01639	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGTACGCCGC	.	2	BLCA
AMACR	0	.	GRCh37	5	33997453	33997453	+	Intron	SNP	T	T	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739+1293A>G	.	.	ENST00000382085	.	74	62	12	96	96	0	AMACR,missense_variant,p.Lys250Arg,ENST00000382068,;AMACR,3_prime_UTR_variant,,ENST00000426255,;AMACR,intron_variant,,ENST00000441713,;AMACR,intron_variant,,ENST00000502637,;AMACR,intron_variant,,ENST00000382085,;AMACR,intron_variant,,ENST00000382072,;AMACR,intron_variant,,ENST00000512079,;AMACR,intron_variant,,ENST00000335606,;AMACR,intron_variant,,ENST00000514195,;AMACR,intron_variant,,ENST00000506639,;RP11-1084J3.4,intron_variant,,ENST00000382079,;RP11-1084J3.3,non_coding_transcript_exon_variant,,ENST00000515618,;	C	ENSG00000242110	ENST00000382085	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	AMACR	HGNC	451	protein_coding	YES	CCDS54836.1	ENSP00000371517	AMACR_HUMAN	.	UPI000020C93C	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGCTTGAAA	.	5	BLCA
ZFYVE16	0	.	GRCh37	5	79734607	79734607	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2103C>G	p.Phe701Leu	p.F701L	ENST00000338008	3/18	64	53	11	58	58	0	ZFYVE16,missense_variant,p.Phe701Leu,ENST00000338008,;ZFYVE16,missense_variant,p.Phe701Leu,ENST00000505560,;ZFYVE16,missense_variant,p.Phe701Leu,ENST00000510158,;ZFYVE16,upstream_gene_variant,,ENST00000511050,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000510995,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000512558,;ZFYVE16,upstream_gene_variant,,ENST00000511829,;ZFYVE16,downstream_gene_variant,,ENST00000509562,;ZFYVE16,upstream_gene_variant,,ENST00000509558,;	G	ENSG00000039319	ENST00000338008	Transcript	missense_variant	2283	2103	701	F/L	ttC/ttG	.	.	.	1	ZFYVE16	HGNC	20756	protein_coding	YES	CCDS4050.1	ENSP00000337159	ZFY16_HUMAN	B3KXA7_HUMAN	UPI000013F4A0	.	tolerated(0.47)	possibly_damaging(0.577)	3/18	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF43,PIRSF_domain:PIRSF037289	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTCAACTC	.	5	BLCA
TTC37	0	.	GRCh37	5	94872765	94872765	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624C>G	p.Phe208Leu	p.F208L	ENST00000358746	9/43	57	34	23	46	46	0	TTC37,missense_variant,p.Phe160Leu,ENST00000514952,;TTC37,missense_variant,p.Phe208Leu,ENST00000358746,;TTC37,downstream_gene_variant,,ENST00000513823,;TTC37,missense_variant,p.Phe64Leu,ENST00000505578,;TTC37,non_coding_transcript_exon_variant,,ENST00000515207,;TTC37,non_coding_transcript_exon_variant,,ENST00000503279,;	C	ENSG00000198677	ENST00000358746	Transcript	missense_variant	923	624	208	F/L	ttC/ttG	.	.	.	-1	TTC37	HGNC	23639	protein_coding	YES	CCDS4072.1	ENSP00000351596	TTC37_HUMAN	D6RDA0_HUMAN	UPI00000709BD	.	deleterious(0.05)	benign(0.005)	9/43	.	hmmpanther:PTHR15704	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATGAAATG	.	5	BLCA
ERAP2	0	.	GRCh37	5	96215596	96215596	+	Silent	SNP	C	C	T	rs544718303	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207C>T	p.%3D	p.L69L	ENST00000437043	2/19	40	35	5	30	30	0	ERAP2,synonymous_variant,p.%3D,ENST00000510373,;ERAP2,synonymous_variant,p.%3D,ENST00000379904,;ERAP2,synonymous_variant,p.%3D,ENST00000510309,;ERAP2,synonymous_variant,p.%3D,ENST00000437043,;ERAP2,upstream_gene_variant,,ENST00000507346,;CTD-2260A17.2,intron_variant,,ENST00000501338,;ERAP2,synonymous_variant,p.%3D,ENST00000513084,;	T	ENSG00000164308	ENST00000437043	Transcript	synonymous_variant	918	207	69	L	ctC/ctT	rs544718303	.	.	1	ERAP2	HGNC	29499	protein_coding	YES	CCDS4086.1	ENSP00000400376	ERAP2_HUMAN	D6RGW0_HUMAN	UPI0000036336	.	.	.	2/19	.	hmmpanther:PTHR11533:SF166,hmmpanther:PTHR11533,Pfam_domain:PF01433,Superfamily_domains:0038696	G:0.0002	G:0	G:0	.	G:0	G:0	G:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCCCCAG	by1000G	4	BLCA
SESN1	0	.	GRCh37	6	109311973	109311973	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1299G>C	p.Leu433Phe	p.L433F	ENST00000436639	8/10	61	39	22	57	57	0	SESN1,missense_variant,p.Leu308Phe,ENST00000302071,;SESN1,missense_variant,p.Leu433Phe,ENST00000436639,;SESN1,missense_variant,p.Leu374Phe,ENST00000356644,;SESN1,non_coding_transcript_exon_variant,,ENST00000520364,;SESN1,downstream_gene_variant,,ENST00000368971,;	G	ENSG00000080546	ENST00000436639	Transcript	missense_variant	2045	1299	433	L/F	ttG/ttC	.	.	.	-1	SESN1	HGNC	21595	protein_coding	YES	CCDS5070.1	ENSP00000393762	SESN1_HUMAN	.	UPI000002B36B	.	tolerated(0.07)	possibly_damaging(0.687)	8/10	.	hmmpanther:PTHR12474,hmmpanther:PTHR12474:SF3,Pfam_domain:PF04636	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAATCAACTG	.	5	BLCA
SLC35F1	0	.	GRCh37	6	118635189	118635189	+	Splice_Site	SNP	A	A	G	rs776443624	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1003-2A>G	.	p.X335_splice	ENST00000360388	.	64	55	8	51	51	0	SLC35F1,splice_acceptor_variant,,ENST00000360388,;	G	ENSG00000196376	ENST00000360388	Transcript	splice_acceptor_variant	.	.	.	.	.	rs776443624,COSM1496214	.	.	1	SLC35F1	HGNC	21483	protein_coding	YES	CCDS34524.1	ENSP00000353557	S35F1_HUMAN	B4DJ02_HUMAN,B3KY53_HUMAN	UPI00001609C1	.	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTTTAGTTTT	byFrequency	3	BLCA
CD83	0	.	GRCh37	6	14131771	14131771	+	Missense_Mutation	SNP	G	G	C	rs753290670	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174G>C	p.Glu58Asp	p.E58D	ENST00000379153	3/5	44	32	11	50	50	0	CD83,missense_variant,p.Glu58Asp,ENST00000379153,;	C	ENSG00000112149	ENST00000379153	Transcript	missense_variant	345	174	58	E/D	gaG/gaC	rs753290670	.	.	1	CD83	HGNC	1703	protein_coding	YES	CCDS4532.1	ENSP00000368450	CD83_HUMAN	.	UPI000004C561	.	deleterious(0.05)	possibly_damaging(0.814)	3/5	.	PROSITE_profiles:PS50835,hmmpanther:PTHR15193,hmmpanther:PTHR15193:SF0,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGAGAGGAT	.	5	BLCA
TIAM2	0	.	GRCh37	6	155451167	155451167	+	Silent	SNP	C	C	T	rs140507023	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.810C>T	p.%3D	p.P270P	ENST00000461783	6/29	60	37	23	56	56	0	TIAM2,synonymous_variant,p.%3D,ENST00000461783,;TIAM2,synonymous_variant,p.%3D,ENST00000318981,;TIAM2,synonymous_variant,p.%3D,ENST00000528535,;TIAM2,synonymous_variant,p.%3D,ENST00000456144,;TIAM2,synonymous_variant,p.%3D,ENST00000529824,;TIAM2,synonymous_variant,p.%3D,ENST00000360366,;TIAM2,5_prime_UTR_variant,,ENST00000367174,;TIAM2,downstream_gene_variant,,ENST00000535231,;TIAM2,downstream_gene_variant,,ENST00000538270,;TIAM2,downstream_gene_variant,,ENST00000545347,;TIAM2,downstream_gene_variant,,ENST00000535583,;	T	ENSG00000146426	ENST00000461783	Transcript	synonymous_variant	2083	810	270	P	ccC/ccT	rs140507023	.	.	1	TIAM2	HGNC	11806	protein_coding	YES	CCDS34558.1	ENSP00000437188	TIAM2_HUMAN	F5H8H5_HUMAN,F5H6W6_HUMAN,F5H6R0_HUMAN,F5H1M3_HUMAN,E9PMZ8_HUMAN	UPI00004DF8BE	.	.	.	6/29	.	hmmpanther:PTHR22826:SF118,hmmpanther:PTHR22826	.	.	.	.	.	.	.	T:0.0005	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCCCGGCAT	byFrequency|byCluster	5	BLCA
TAGAP	0	.	GRCh37	6	159457377	159457377	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1678G>A	p.Glu560Lys	p.E560K	ENST00000367066	10/10	93	77	15	97	97	0	TAGAP,missense_variant,p.Glu382Lys,ENST00000326965,;TAGAP,missense_variant,p.Glu560Lys,ENST00000367066,;TAGAP,downstream_gene_variant,,ENST00000338313,;RP1-111C20.4,intron_variant,,ENST00000606470,;RP1-111C20.4,intron_variant,,ENST00000606466,;RP1-111C20.4,intron_variant,,ENST00000607796,;RP1-111C20.4,intron_variant,,ENST00000607391,;	T	ENSG00000164691	ENST00000367066	Transcript	missense_variant	2010	1678	560	E/K	Gaa/Aaa	COSM3777280	.	.	-1	TAGAP	HGNC	15669	protein_coding	YES	CCDS5261.1	ENSP00000356033	TAGAP_HUMAN	.	UPI0000071CD5	.	tolerated(0.36)	benign(0.017)	10/10	.	hmmpanther:PTHR23179,hmmpanther:PTHR23179:SF26	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCACACC	.	5	BLCA
SMOC2	0	.	GRCh37	6	169064771	169064771	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1336G>T	p.Glu446Ter	p.E446*	ENST00000354536	12/13	28	18	10	19	19	0	SMOC2,stop_gained,p.Glu435Ter,ENST00000356284,;SMOC2,stop_gained,p.Glu446Ter,ENST00000354536,;SMOC2,stop_gained,p.Glu55Ter,ENST00000417208,;SMOC2,non_coding_transcript_exon_variant,,ENST00000477998,;SMOC2,3_prime_UTR_variant,,ENST00000392100,;AL391319.1,upstream_gene_variant,,ENST00000535039,;	T	ENSG00000112562	ENST00000354536	Transcript	stop_gained	1556	1336	446	E/*	Gaa/Taa	.	.	.	1	SMOC2	HGNC	20323	protein_coding	YES	CCDS5307.1	ENSP00000346537	SMOC2_HUMAN	B4DNB1_HUMAN	UPI0000072A56	.	.	.	12/13	.	hmmpanther:PTHR12352:SF11,hmmpanther:PTHR12352	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTGAAAGT	.	5	BLCA
KIAA0319	0	.	GRCh37	6	24570162	24570162	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1960G>A	p.Gly654Ser	p.G654S	ENST00000378214	12/21	30	26	4	42	42	0	KIAA0319,missense_variant,p.Gly654Ser,ENST00000543707,;KIAA0319,missense_variant,p.Gly609Ser,ENST00000430948,;KIAA0319,missense_variant,p.Gly654Ser,ENST00000378214,;KIAA0319,missense_variant,p.Gly645Ser,ENST00000535378,;KIAA0319,missense_variant,p.Gly654Ser,ENST00000537886,;	T	ENSG00000137261	ENST00000378214	Transcript	missense_variant	2485	1960	654	G/S	Ggc/Agc	.	.	.	-1	KIAA0319	HGNC	21580	protein_coding	YES	CCDS34348.1	ENSP00000367459	K0319_HUMAN	.	UPI000020D61A	.	deleterious(0.01)	probably_damaging(0.974)	12/21	.	Superfamily_domains:SSF49299,SMART_domains:SM00060,SMART_domains:SM00089,Pfam_domain:PF02010,Gene3D:2.60.40.670,hmmpanther:PTHR10083,hmmpanther:PTHR10083:SF194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATGCCGTGGT	.	3	BLCA
PRRC2A	0	.	GRCh37	6	31590590	31590590	+	Silent	SNP	T	T	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24T>C	p.%3D	p.T8T	ENST00000376033	2/31	174	155	19	138	138	0	PRRC2A,synonymous_variant,p.%3D,ENST00000376033,;PRRC2A,synonymous_variant,p.%3D,ENST00000376007,;SNORA38,upstream_gene_variant,,ENST00000363946,;PRRC2A,intron_variant,,ENST00000469577,;PRRC2A,upstream_gene_variant,,ENST00000464079,;PRRC2A,upstream_gene_variant,,ENST00000464890,;	C	ENSG00000204469	ENST00000376033	Transcript	synonymous_variant	258	24	8	T	acT/acC	.	.	.	1	PRRC2A	HGNC	13918	protein_coding	YES	CCDS4708.1	ENSP00000365201	PRC2A_HUMAN	.	UPI000020E56F	.	.	.	2/31	.	hmmpanther:PTHR14038,Pfam_domain:PF07001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCGACTGCCAA	.	3	BLCA
EHMT2	0	.	GRCh37	6	31854617	31854617	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2176G>T	p.Val726Leu	p.V726L	ENST00000375537	17/28	144	82	61	162	162	0	EHMT2,missense_variant,p.Val726Leu,ENST00000375537,;EHMT2,missense_variant,p.Val44Leu,ENST00000436026,;EHMT2,missense_variant,p.Val749Leu,ENST00000375528,;EHMT2,missense_variant,p.Val783Leu,ENST00000395728,;EHMT2,missense_variant,p.Val692Leu,ENST00000375530,;EHMT2-AS1,downstream_gene_variant,,ENST00000434689,;EHMT2,non_coding_transcript_exon_variant,,ENST00000480912,;EHMT2,upstream_gene_variant,,ENST00000478491,;EHMT2,non_coding_transcript_exon_variant,,ENST00000477678,;EHMT2,upstream_gene_variant,,ENST00000461880,;EHMT2,upstream_gene_variant,,ENST00000494816,;	A	ENSG00000204371	ENST00000375537	Transcript	missense_variant	2183	2176	726	V/L	Gtg/Ttg	.	.	.	-1	EHMT2	HGNC	14129	protein_coding	YES	CCDS4725.1	ENSP00000364687	EHMT2_HUMAN	.	UPI000013D085	.	tolerated(0.15)	possibly_damaging(0.868)	17/28	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF306,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCACGGCCT	.	5	BLCA
HLA-DMB	0	.	GRCh37	6	32906744	32906744	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.56-2A>G	.	p.X19_splice	ENST00000418107	.	64	53	10	50	50	0	HLA-DMB,splice_acceptor_variant,,ENST00000416244,;XXbac-BPG181M17.5,splice_acceptor_variant,,ENST00000429234,;HLA-DMB,splice_acceptor_variant,,ENST00000418107,;HLA-DMB,upstream_gene_variant,,ENST00000414017,;HLA-DMB,upstream_gene_variant,,ENST00000438510,;AL645941.1,upstream_gene_variant,,ENST00000390777,;HLA-DMB,splice_acceptor_variant,,ENST00000498020,;HLA-DMB,upstream_gene_variant,,ENST00000487996,;HLA-DMB,upstream_gene_variant,,ENST00000477537,;	C	ENSG00000242574	ENST00000418107	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	HLA-DMB	HGNC	4935	protein_coding	YES	CCDS4760.1	ENSP00000398890	DMB_HUMAN	B4DVC2_HUMAN	UPI0000140DCC	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACCTAGAGG	.	4	BLCA
PHF3	0	.	GRCh37	6	64422337	64422337	+	Missense_Mutation	SNP	C	C	G	rs773783440	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4853C>G	p.Ser1618Cys	p.S1618C	ENST00000262043	16/16	55	42	13	52	52	0	PHF3,missense_variant,p.Ser1618Cys,ENST00000393387,;PHF3,missense_variant,p.Ser1618Cys,ENST00000262043,;PHF3,intron_variant,,ENST00000505138,;PHF3,downstream_gene_variant,,ENST00000506783,;PHF3,downstream_gene_variant,,ENST00000515594,;PHF3,3_prime_UTR_variant,,ENST00000509876,;	G	ENSG00000118482	ENST00000262043	Transcript	missense_variant	5193	4853	1618	S/C	tCt/tGt	rs773783440	.	.	1	PHF3	HGNC	8921	protein_coding	YES	CCDS4966.1	ENSP00000262043	PHF3_HUMAN	E9PE34_HUMAN,E7EVH3_HUMAN,E7ER40_HUMAN,B3KP41_HUMAN	UPI000007154D	.	deleterious(0.03)	possibly_damaging(0.778)	16/16	.	hmmpanther:PTHR14914:SF6,hmmpanther:PTHR14914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATCTAATG	.	5	BLCA
MAP3K7	0	.	GRCh37	6	91269806	91269806	+	Silent	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.471G>C	p.%3D	p.L157L	ENST00000369329	5/17	51	38	12	43	43	0	MAP3K7,synonymous_variant,p.%3D,ENST00000369325,;MAP3K7,synonymous_variant,p.%3D,ENST00000369329,;MAP3K7,synonymous_variant,p.%3D,ENST00000369332,;MAP3K7,synonymous_variant,p.%3D,ENST00000369327,;	G	ENSG00000135341	ENST00000369329	Transcript	synonymous_variant	633	471	157	L	ctG/ctC	.	.	.	-1	MAP3K7	HGNC	6859	protein_coding	YES	CCDS5028.1	ENSP00000358335	M3K7_HUMAN	.	UPI000012EAD6	.	.	.	5/17	.	PROSITE_profiles:PS50011,hmmpanther:PTHR26392,PROSITE_patterns:PS00108,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF038168,SMART_domains:SM00220,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCAGGTC	.	5	BLCA
USP45	0	.	GRCh37	6	99885183	99885183	+	Silent	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2253G>C	p.%3D	p.V751V	ENST00000327681	17/18	60	35	24	63	63	0	USP45,synonymous_variant,p.%3D,ENST00000392738,;USP45,synonymous_variant,p.%3D,ENST00000369233,;USP45,synonymous_variant,p.%3D,ENST00000500704,;USP45,synonymous_variant,p.%3D,ENST00000327681,;USP45,synonymous_variant,p.%3D,ENST00000539675,;USP45,3_prime_UTR_variant,,ENST00000496518,;	G	ENSG00000123552	ENST00000327681	Transcript	synonymous_variant	2786	2253	751	V	gtG/gtC	.	.	.	-1	USP45	HGNC	20080	protein_coding	YES	CCDS34501.1	ENSP00000333376	UBP45_HUMAN	F5H1L5_HUMAN,D6RE98_HUMAN	UPI0000253B80	.	.	.	17/18	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF346,hmmpanther:PTHR24006,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTCACATA	.	5	BLCA
MEPCE	0	.	GRCh37	7	100028723	100028723	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1082G>A	p.Arg361Gln	p.R361Q	ENST00000310512	1/4	138	112	26	102	102	0	MEPCE,missense_variant,p.Arg361Gln,ENST00000310512,;MEPCE,5_prime_UTR_variant,,ENST00000414441,;ZCWPW1,upstream_gene_variant,,ENST00000360951,;ZCWPW1,upstream_gene_variant,,ENST00000398027,;ZCWPW1,upstream_gene_variant,,ENST00000324725,;PPP1R35,downstream_gene_variant,,ENST00000292330,;ZCWPW1,upstream_gene_variant,,ENST00000472716,;RP11-758P17.2,upstream_gene_variant,,ENST00000492523,;PPP1R35,downstream_gene_variant,,ENST00000476185,;MEPCE,non_coding_transcript_exon_variant,,ENST00000497759,;MEPCE,non_coding_transcript_exon_variant,,ENST00000479201,;PPP1R35,downstream_gene_variant,,ENST00000487452,;PPP1R35,downstream_gene_variant,,ENST00000491407,;ZCWPW1,upstream_gene_variant,,ENST00000464510,;PPP1R35,downstream_gene_variant,,ENST00000470295,;	A	ENSG00000146834	ENST00000310512	Transcript	missense_variant	1470	1082	361	R/Q	cGa/cAa	.	.	.	1	MEPCE	HGNC	20247	protein_coding	YES	CCDS5693.1	ENSP00000308546	MEPCE_HUMAN	.	UPI0000227DFA	.	tolerated(0.25)	benign(0.361)	1/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12315:SF0,hmmpanther:PTHR12315	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCCGACATC	.	4	BLCA
COG5	0	.	GRCh37	7	106843937	106843937	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24C>G	.	.	ENST00000297135	22/22	38	29	9	43	43	0	COG5,3_prime_UTR_variant,,ENST00000347053,;COG5,3_prime_UTR_variant,,ENST00000297135,;HBP1,downstream_gene_variant,,ENST00000468410,;HBP1,downstream_gene_variant,,ENST00000607681,;HBP1,downstream_gene_variant,,ENST00000222574,;COG5,downstream_gene_variant,,ENST00000393603,;HBP1,downstream_gene_variant,,ENST00000485846,;HBP1,downstream_gene_variant,,ENST00000461963,;HBP1,downstream_gene_variant,,ENST00000463202,;HBP1,downstream_gene_variant,,ENST00000463790,;	C	ENSG00000164597	ENST00000297135	Transcript	3_prime_UTR_variant	3132	.	.	.	.	.	.	.	-1	COG5	HGNC	14857	protein_coding	YES	CCDS5742.1	ENSP00000297135	COG5_HUMAN	U3KQU7_HUMAN,B3KMW0_HUMAN	UPI0000246D05	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGTGGAGATG	.	2	BLCA
COG5	0	.	GRCh37	7	106843949	106843949	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12C>G	.	.	ENST00000297135	22/22	45	32	12	46	46	0	COG5,3_prime_UTR_variant,,ENST00000347053,;COG5,3_prime_UTR_variant,,ENST00000297135,;HBP1,downstream_gene_variant,,ENST00000468410,;HBP1,downstream_gene_variant,,ENST00000607681,;HBP1,downstream_gene_variant,,ENST00000222574,;COG5,downstream_gene_variant,,ENST00000393603,;HBP1,downstream_gene_variant,,ENST00000485846,;HBP1,downstream_gene_variant,,ENST00000461963,;HBP1,downstream_gene_variant,,ENST00000463202,;HBP1,downstream_gene_variant,,ENST00000463790,;	C	ENSG00000164597	ENST00000297135	Transcript	3_prime_UTR_variant	3120	.	.	.	.	.	.	.	-1	COG5	HGNC	14857	protein_coding	YES	CCDS5742.1	ENSP00000297135	COG5_HUMAN	U3KQU7_HUMAN,B3KMW0_HUMAN	UPI0000246D05	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAAAGATTTC	.	2	BLCA
COG5	0	.	GRCh37	7	106843966	106843966	+	Nonsense_Mutation	SNP	G	G	A	rs549788738	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2578C>T	p.Gln860Ter	p.Q860*	ENST00000297135	22/22	60	41	18	59	59	0	COG5,stop_gained,p.Gln839Ter,ENST00000347053,;COG5,stop_gained,p.Gln860Ter,ENST00000297135,;HBP1,downstream_gene_variant,,ENST00000468410,;HBP1,downstream_gene_variant,,ENST00000607681,;HBP1,downstream_gene_variant,,ENST00000222574,;COG5,downstream_gene_variant,,ENST00000393603,;HBP1,downstream_gene_variant,,ENST00000485846,;HBP1,downstream_gene_variant,,ENST00000461963,;HBP1,downstream_gene_variant,,ENST00000463202,;HBP1,downstream_gene_variant,,ENST00000463790,;	A	ENSG00000164597	ENST00000297135	Transcript	stop_gained	3103	2578	860	Q/*	Cag/Tag	rs549788738	.	.	-1	COG5	HGNC	14857	protein_coding	YES	CCDS5742.1	ENSP00000297135	COG5_HUMAN	U3KQU7_HUMAN,B3KMW0_HUMAN	UPI0000246D05	.	.	.	22/22	.	hmmpanther:PTHR13228:SF3,hmmpanther:PTHR13228	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTACTGAAGAG	by1000G	3	BLCA
LAMB1	0	.	GRCh37	7	107580556	107580556	+	Silent	SNP	G	G	A	rs141885441	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3639C>T	p.%3D	p.I1213I	ENST00000222399	25/34	97	83	13	95	95	0	LAMB1,synonymous_variant,p.%3D,ENST00000393561,;LAMB1,synonymous_variant,p.%3D,ENST00000222399,;CTB-13F3.1,upstream_gene_variant,,ENST00000608515,;LAMB1,non_coding_transcript_exon_variant,,ENST00000468999,;LAMB1,upstream_gene_variant,,ENST00000491196,;LAMB1,downstream_gene_variant,,ENST00000476039,;LAMB1,upstream_gene_variant,,ENST00000470995,;LAMB1,upstream_gene_variant,,ENST00000474380,;	A	ENSG00000091136	ENST00000222399	Transcript	synonymous_variant	3870	3639	1213	I	atC/atT	rs141885441,COSM598446	.	.	-1	LAMB1	HGNC	6486	protein_coding	YES	CCDS5750.1	ENSP00000222399	LAMB1_HUMAN	Q75MC8_HUMAN,E9PCS6_HUMAN	UPI00001AE63F	.	.	.	25/34	.	hmmpanther:PTHR10574:SF233,hmmpanther:PTHR10574	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCCGATCAC	byCluster	4	BLCA
MET	0	.	GRCh37	7	116339422	116339422	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.284G>T	p.Cys95Phe	p.C95F	ENST00000318493	2/21	87	66	20	78	78	0	MET,missense_variant,p.Cys114Phe,ENST00000456159,;MET,missense_variant,p.Cys95Phe,ENST00000318493,;MET,missense_variant,p.Cys95Phe,ENST00000397752,;MET,missense_variant,p.Cys95Phe,ENST00000436117,;	T	ENSG00000105976	ENST00000318493	Transcript	missense_variant	471	284	95	C/F	tGt/tTt	.	.	.	1	MET	HGNC	7029	protein_coding	YES	CCDS47689.1	ENSP00000317272	MET_HUMAN	Q9UEJ3_HUMAN,B4DPY6_HUMAN	UPI000014033E	.	deleterious(0)	probably_damaging(0.991)	2/21	.	PROSITE_profiles:PS51004,Gene3D:2.130.10.10,Pfam_domain:PF01403,PIRSF_domain:PIRSF000617,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTGTTTCC	.	5	BLCA
NUP205	0	.	GRCh37	7	135315105	135315105	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4946T>G	p.Leu1649Arg	p.L1649R	ENST00000285968	35/43	36	25	10	41	41	0	NUP205,missense_variant,p.Leu1649Arg,ENST00000285968,;NUP205,missense_variant,p.Leu231Arg,ENST00000477620,;NUP205,non_coding_transcript_exon_variant,,ENST00000607647,;NUP205,upstream_gene_variant,,ENST00000461255,;	G	ENSG00000155561	ENST00000285968	Transcript	missense_variant	4972	4946	1649	L/R	cTt/cGt	.	.	.	1	NUP205	HGNC	18658	protein_coding	YES	CCDS34759.1	ENSP00000285968	NU205_HUMAN	Q6P486_HUMAN,Q6DKH1_HUMAN	UPI00001D74D8	.	deleterious(0)	probably_damaging(0.914)	35/43	.	hmmpanther:PTHR31344:SF0,hmmpanther:PTHR31344,Pfam_domain:PF11894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTCTTATTT	.	5	BLCA
TRIM24	0	.	GRCh37	7	138269679	138269679	+	Missense_Mutation	SNP	C	C	T	rs769470209	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3136C>T	p.Arg1046Cys	p.R1046C	ENST00000343526	19/19	70	56	14	67	67	0	TRIM24,missense_variant,p.Arg1012Cys,ENST00000415680,;TRIM24,missense_variant,p.Arg1046Cys,ENST00000343526,;	T	ENSG00000122779	ENST00000343526	Transcript	missense_variant	3351	3136	1046	R/C	Cgc/Tgc	rs769470209	.	.	1	TRIM24	HGNC	11812	protein_coding	YES	CCDS5847.1	ENSP00000340507	TIF1A_HUMAN	B4DYZ9_HUMAN	UPI00000012CB	.	deleterious(0.01)	probably_damaging(0.965)	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAACGCCAG	.	5	BLCA
LUC7L2	0	.	GRCh37	7	139092031	139092031	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820G>A	p.Asp274Asn	p.D274N	ENST00000541515	7/11	55	44	11	55	55	0	LUC7L2,missense_variant,p.Asp274Asn,ENST00000541515,;C7orf55-LUC7L2,missense_variant,p.Asp205Asn,ENST00000541170,;C7orf55-LUC7L2,missense_variant,p.Asp207Asn,ENST00000263545,;C7orf55-LUC7L2,missense_variant,p.Asp208Asn,ENST00000354926,;C7orf55-LUC7L2,3_prime_UTR_variant,,ENST00000456182,;C7orf55-LUC7L2,non_coding_transcript_exon_variant,,ENST00000498518,;C7orf55-LUC7L2,non_coding_transcript_exon_variant,,ENST00000463912,;	A	ENSG00000269955	ENST00000541515	Transcript	missense_variant	845	820	274	D/N	Gat/Aat	COSM1086124,COSM3634074,COSM3634075	.	.	1	LUC7L2	HGNC	21608	protein_coding	YES	CCDS59084.1	ENSP00000440222	.	B3KSP8_HUMAN	UPI0001914F36	.	deleterious(0)	probably_damaging(0.996)	7/11	.	hmmpanther:PTHR12375,hmmpanther:PTHR12375:SF28,Pfam_domain:PF03194	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.D208N|c.622G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGATCAT	.	5	BLCA
HNRNPA2B1	0	.	GRCh37	7	26236190	26236190	+	Missense_Mutation	SNP	C	C	G	rs771233964	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.600G>C	p.Arg200Ser	p.R200S	ENST00000354667	6/12	202	155	47	131	131	0	HNRNPA2B1,missense_variant,p.Arg200Ser,ENST00000354667,;HNRNPA2B1,missense_variant,p.Arg188Ser,ENST00000356674,;CBX3,upstream_gene_variant,,ENST00000337620,;HNRNPA2B1,upstream_gene_variant,,ENST00000476233,;HNRNPA2B1,missense_variant,p.Arg200Ser,ENST00000360787,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000490912,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000495810,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000463181,;	G	ENSG00000122566	ENST00000354667	Transcript	missense_variant	769	600	200	R/S	agG/agC	rs771233964	.	.	-1	HNRNPA2B1	HGNC	5033	protein_coding	YES	CCDS43557.1	ENSP00000346694	ROA2_HUMAN	.	UPI000002F091	.	deleterious(0.05)	unknown(0)	6/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24012:SF329,hmmpanther:PTHR24012,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTCCTAGA	.	5	BLCA
HNRNPA2B1	0	.	GRCh37	7	26237349	26237349	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46G>C	p.Glu16Gln	p.E16Q	ENST00000354667	3/12	49	36	13	32	32	0	HNRNPA2B1,missense_variant,p.Glu16Gln,ENST00000354667,;HNRNPA2B1,missense_variant,p.Glu4Gln,ENST00000356674,;CBX3,upstream_gene_variant,,ENST00000456948,;CBX3,upstream_gene_variant,,ENST00000409747,;CBX3,upstream_gene_variant,,ENST00000337620,;CBX3,upstream_gene_variant,,ENST00000396386,;CBX3,upstream_gene_variant,,ENST00000497498,;HNRNPA2B1,missense_variant,p.Glu16Gln,ENST00000360787,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000490912,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000463181,;HNRNPA2B1,upstream_gene_variant,,ENST00000495810,;	G	ENSG00000122566	ENST00000354667	Transcript	missense_variant	215	46	16	E/Q	Gaa/Caa	COSM3832572,COSM3832571	.	.	-1	HNRNPA2B1	HGNC	5033	protein_coding	YES	CCDS43557.1	ENSP00000346694	ROA2_HUMAN	.	UPI000002F091	.	deleterious(0)	benign(0.373)	3/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24012:SF329,hmmpanther:PTHR24012,Gene3D:3.30.70.330	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCTCTCT	.	5	BLCA
FKBP9	0	.	GRCh37	7	33044804	33044804	+	Silent	SNP	C	C	T	rs574102091	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1554C>T	p.%3D	p.H518H	ENST00000242209	10/10	79	56	22	56	56	0	FKBP9,synonymous_variant,p.%3D,ENST00000538336,;FKBP9,synonymous_variant,p.%3D,ENST00000490776,;FKBP9,synonymous_variant,p.%3D,ENST00000538443,;FKBP9,synonymous_variant,p.%3D,ENST00000242209,;AVL9,intron_variant,,ENST00000404479,;FKBP9,downstream_gene_variant,,ENST00000418354,;RNU6-388P,upstream_gene_variant,,ENST00000517012,;FKBP9,non_coding_transcript_exon_variant,,ENST00000475220,;FKBP9,non_coding_transcript_exon_variant,,ENST00000471066,;FKBP9,downstream_gene_variant,,ENST00000468510,;	T	ENSG00000122642	ENST00000242209	Transcript	synonymous_variant	1723	1554	518	H	caC/caT	rs574102091	.	.	1	FKBP9	HGNC	3725	protein_coding	YES	CCDS5439.1	ENSP00000242209	FKBP9_HUMAN	B7ZAH5_HUMAN,B7Z230_HUMAN,A7YQ73_HUMAN	UPI00001B6B0A	.	.	.	10/10	.	PROSITE_profiles:PS50222,hmmpanther:PTHR10516:SF111,hmmpanther:PTHR10516,Gene3D:1.10.238.10,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCACGCCCA	byFrequency|byCluster	5	BLCA
GLI3	0	.	GRCh37	7	42004227	42004227	+	Missense_Mutation	SNP	G	G	A	rs748815553	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4444C>T	p.Pro1482Ser	p.P1482S	ENST00000395925	15/15	51	29	22	39	39	0	GLI3,missense_variant,p.Pro1482Ser,ENST00000395925,;GLI3,non_coding_transcript_exon_variant,,ENST00000479210,;	A	ENSG00000106571	ENST00000395925	Transcript	missense_variant	4529	4444	1482	P/S	Cca/Tca	rs748815553,COSM3638696	.	.	-1	GLI3	HGNC	4319	protein_coding	YES	CCDS5465.1	ENSP00000379258	GLI3_HUMAN	C9J9N4_HUMAN	UPI000020EE4C	.	deleterious(0.02)	probably_damaging(0.998)	15/15	.	hmmpanther:PTHR19818:SF5,hmmpanther:PTHR19818	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTGGGGAAA	.	5	BLCA
NPC1L1	0	.	GRCh37	7	44579768	44579768	+	Missense_Mutation	SNP	C	C	G	rs763565133	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228G>C	p.Lys76Asn	p.K76N	ENST00000289547	2/20	34	21	12	15	15	0	NPC1L1,missense_variant,p.Lys76Asn,ENST00000546276,;NPC1L1,missense_variant,p.Lys76Asn,ENST00000381160,;NPC1L1,missense_variant,p.Lys76Asn,ENST00000423141,;NPC1L1,missense_variant,p.Lys76Asn,ENST00000289547,;	G	ENSG00000015520	ENST00000289547	Transcript	missense_variant	284	228	76	K/N	aaG/aaC	rs763565133,COSM1089962,COSM1663113	.	.	-1	NPC1L1	HGNC	7898	protein_coding	YES	CCDS5491.1	ENSP00000289547	NPCL1_HUMAN	.	UPI000013DF88	.	tolerated(0.12)	benign(0.02)	2/20	.	hmmpanther:PTHR10796,hmmpanther:PTHR10796:SF89	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATCTTCTG	.	5	BLCA
ZNF733P	0	.	GRCh37	7	62752310	62752310	+	RNA	SNP	A	A	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1159T>C	.	.	ENST00000444809	4/4	36	24	12	42	42	0	ZNF733P,non_coding_transcript_exon_variant,,ENST00000331425,;ZNF733P,non_coding_transcript_exon_variant,,ENST00000444809,;	G	ENSG00000185037	ENST00000444809	Transcript	non_coding_transcript_exon_variant	1159	.	.	.	.	.	.	.	-1	ZNF733P	HGNC	32473	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCACATTCTT	.	5	BLCA
WBSCR17	0	.	GRCh37	7	70880886	70880886	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>A	p.Val201Ile	p.V201I	ENST00000333538	4/11	31	24	7	28	28	0	WBSCR17,missense_variant,p.Val201Ile,ENST00000333538,;WBSCR17,missense_variant,p.Val179Ile,ENST00000447516,;WBSCR17,non_coding_transcript_exon_variant,,ENST00000467723,;WBSCR17,non_coding_transcript_exon_variant,,ENST00000498380,;	A	ENSG00000185274	ENST00000333538	Transcript	missense_variant	1235	601	201	V/I	Gtc/Atc	.	.	.	1	WBSCR17	HGNC	16347	protein_coding	YES	CCDS5540.1	ENSP00000329654	GLTL3_HUMAN	Q68CW8_HUMAN,Q2L4S5_HUMAN,B3KRD2_HUMAN	UPI00000502D5	.	tolerated(0.19)	benign(0.016)	4/11	.	hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF38,Pfam_domain:PF00535,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGAAGGTCCCC	.	4	BLCA
YWHAG	0	.	GRCh37	7	75959465	75959465	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173C>G	p.Ser58Cys	p.S58C	ENST00000307630	2/2	92	53	39	87	87	0	YWHAG,missense_variant,p.Ser58Cys,ENST00000307630,;	C	ENSG00000170027	ENST00000307630	Transcript	missense_variant	396	173	58	S/C	tCt/tGt	.	.	.	-1	YWHAG	HGNC	12852	protein_coding	YES	CCDS5584.1	ENSP00000306330	1433G_HUMAN	B4DHC4_HUMAN	UPI000000106B	.	deleterious_low_confidence(0)	probably_damaging(1)	2/2	.	hmmpanther:PTHR18860,hmmpanther:PTHR18860:SF2,Gene3D:3iquA00,Pfam_domain:PF00244,SMART_domains:SM00101,PIRSF_domain:PIRSF000868,Superfamily_domains:SSF48445,Prints_domain:PR00305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAGCGG	.	5	BLCA
SGCE	0	.	GRCh37	7	94218031	94218031	+	Nonsense_Mutation	SNP	G	G	A	rs766199553	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1342C>T	p.Gln448Ter	p.Q448*	ENST00000445866	11/12	73	61	11	60	60	0	SGCE,stop_gained,p.Gln414Ter,ENST00000447873,;SGCE,stop_gained,p.Gln459Ter,ENST00000415788,;SGCE,stop_gained,p.Gln448Ter,ENST00000445866,;SGCE,stop_gained,p.Gln382Ter,ENST00000437425,;SGCE,stop_gained,p.Gln423Ter,ENST00000265735,;SGCE,stop_gained,p.Gln414Ter,ENST00000428696,;SGCE,intron_variant,,ENST00000522045,;SGCE,non_coding_transcript_exon_variant,,ENST00000472326,;	A	ENSG00000127990	ENST00000445866	Transcript	stop_gained	1368	1342	448	Q/*	Cag/Tag	rs766199553	.	.	-1	SGCE	HGNC	10808	protein_coding	YES	CCDS47643.1	ENSP00000398930	.	G5E9K6_HUMAN	UPI0000D4E987	.	.	.	11/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10132:SF13,hmmpanther:PTHR10132	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTGATGTG	.	5	BLCA
GRHL2	0	.	GRCh37	8	102570814	102570814	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.452C>T	p.Pro151Leu	p.P151L	ENST00000251808	4/16	94	65	28	97	97	0	GRHL2,missense_variant,p.Pro151Leu,ENST00000251808,;GRHL2,missense_variant,p.Pro135Leu,ENST00000395927,;KB-1562D12.3,downstream_gene_variant,,ENST00000524051,;	T	ENSG00000083307	ENST00000251808	Transcript	missense_variant	790	452	151	P/L	cCg/cTg	.	.	.	1	GRHL2	HGNC	2799	protein_coding	YES	CCDS34931.1	ENSP00000251808	GRHL2_HUMAN	.	UPI000013CD16	.	tolerated(0.12)	benign(0.018)	4/16	.	hmmpanther:PTHR11037:SF17,hmmpanther:PTHR11037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCCCGGTGT	.	5	BLCA
SLC30A8	0	.	GRCh37	8	118183350	118183350	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.907C>T	p.%3D	p.L303L	ENST00000456015	7/8	84	69	15	92	92	0	SLC30A8,synonymous_variant,p.%3D,ENST00000427715,;SLC30A8,synonymous_variant,p.%3D,ENST00000456015,;SLC30A8,synonymous_variant,p.%3D,ENST00000519688,;SLC30A8,synonymous_variant,p.%3D,ENST00000521243,;	T	ENSG00000164756	ENST00000456015	Transcript	synonymous_variant	907	907	303	L	Ctg/Ttg	.	.	.	1	SLC30A8	HGNC	20303	protein_coding	YES	CCDS6322.1	ENSP00000415011	ZNT8_HUMAN	E5RG87_HUMAN	UPI00001B00D6	.	.	.	7/8	.	hmmpanther:PTHR11562:SF37,hmmpanther:PTHR11562,Pfam_domain:PF01545,TIGRFAM_domain:TIGR01297,Superfamily_domains:SSF160240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCCTGCAC	.	5	BLCA
HAS2	0	.	GRCh37	8	122627250	122627250	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.758C>T	p.Ser253Leu	p.S253L	ENST00000303924	4/4	73	52	21	36	36	0	HAS2,missense_variant,p.Ser253Leu,ENST00000303924,;	A	ENSG00000170961	ENST00000303924	Transcript	missense_variant	1296	758	253	S/L	tCa/tTa	.	.	.	-1	HAS2	HGNC	4819	protein_coding	YES	CCDS6335.1	ENSP00000306991	HYAS2_HUMAN	.	UPI000012C0A9	.	deleterious(0)	probably_damaging(0.986)	4/4	.	hmmpanther:PTHR22913,hmmpanther:PTHR22913:SF7,Pfam_domain:PF03142,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAATGAGATC	.	5	BLCA
RNF139	0	.	GRCh37	8	125499824	125499824	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1934G>C	p.Arg645Thr	p.R645T	ENST00000303545	2/2	75	53	22	66	66	0	RNF139,missense_variant,p.Arg645Thr,ENST00000303545,;RNF139,downstream_gene_variant,,ENST00000517684,;TATDN1,downstream_gene_variant,,ENST00000522810,;TATDN1,downstream_gene_variant,,ENST00000519548,;TATDN1,downstream_gene_variant,,ENST00000276692,;RP11-158K1.3,upstream_gene_variant,,ENST00000518639,;TATDN1,downstream_gene_variant,,ENST00000523214,;TATDN1,downstream_gene_variant,,ENST00000522927,;TATDN1,downstream_gene_variant,,ENST00000523631,;	C	ENSG00000170881	ENST00000303545	Transcript	missense_variant	2306	1934	645	R/T	aGa/aCa	COSM171810	.	.	1	RNF139	HGNC	17023	protein_coding	YES	CCDS6350.1	ENSP00000304051	RN139_HUMAN	E5RH85_HUMAN	UPI0000071331	.	tolerated_low_confidence(0.42)	benign(0.016)	2/2	.	hmmpanther:PTHR12477:SF75,hmmpanther:PTHR12477	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAGAAATG	.	5	BLCA
LY6H	0	.	GRCh37	8	144240221	144240221	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249C>T	p.%3D	p.S83S	ENST00000414417	4/5	92	65	27	77	77	0	LY6H,synonymous_variant,p.%3D,ENST00000430474,;LY6H,synonymous_variant,p.%3D,ENST00000414417,;LY6H,synonymous_variant,p.%3D,ENST00000342752,;LY6H,splice_region_variant,,ENST00000479685,;	A	ENSG00000176956	ENST00000414417	Transcript	synonymous_variant	483	249	83	S	agC/agT	.	.	.	-1	LY6H	HGNC	6728	protein_coding	YES	CCDS47926.1	ENSP00000399485	LY6H_HUMAN	.	UPI00005A7901	.	.	.	4/5	.	hmmpanther:PTHR32217,hmmpanther:PTHR32217:SF4,Gene3D:2.10.60.10,Pfam_domain:PF00021,SMART_domains:SM00134,Superfamily_domains:SSF57302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACTGCTGCT	.	5	BLCA
EEF1D	0	.	GRCh37	8	144662251	144662256	+	In_Frame_Del	DEL	CTGAAT	CTGAAT	-	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	CTGAAT	CTGAAT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1831_1836delATTCAG	p.Ile611_Gln612del	p.I611_Q612del	ENST00000423316	9/10	48	43	5	58	58	0	EEF1D,inframe_deletion,p.Ile611_Gln612del,ENST00000423316,;EEF1D,inframe_deletion,p.Ile221_Gln222del,ENST00000528610,;EEF1D,inframe_deletion,p.Ile120_Gln121del,ENST00000530109,;EEF1D,inframe_deletion,p.Ile245_Gln246del,ENST00000529272,;EEF1D,inframe_deletion,p.Ile245_Gln246del,ENST00000534380,;EEF1D,inframe_deletion,p.Ile245_Gln246del,ENST00000419152,;EEF1D,inframe_deletion,p.Ile226_Gln227del,ENST00000526838,;EEF1D,inframe_deletion,p.Arg60_Phe61del,ENST00000532400,;EEF1D,inframe_deletion,p.Ile221_Gln222del,ENST00000524624,;EEF1D,inframe_deletion,p.Ile85_Gln86del,ENST00000529576,;EEF1D,inframe_deletion,p.Ile35_Gln36del,ENST00000528382,;EEF1D,inframe_deletion,p.Ile661_Gln662del,ENST00000532741,;EEF1D,inframe_deletion,p.Ile245_Gln246del,ENST00000395119,;EEF1D,inframe_deletion,p.Ile245_Gln246del,ENST00000317198,;EEF1D,inframe_deletion,p.Ile202_Gln203del,ENST00000531621,;EEF1D,inframe_deletion,p.Ile611_Gln612del,ENST00000442189,;NAPRT1,upstream_gene_variant,,ENST00000435154,;EEF1D,downstream_gene_variant,,ENST00000533749,;EEF1D,downstream_gene_variant,,ENST00000530445,;EEF1D,downstream_gene_variant,,ENST00000533494,;EEF1D,downstream_gene_variant,,ENST00000530191,;NAPRT1,upstream_gene_variant,,ENST00000449291,;NAPRT1,upstream_gene_variant,,ENST00000276844,;EEF1D,downstream_gene_variant,,ENST00000530616,;EEF1D,downstream_gene_variant,,ENST00000531218,;NAPRT1,upstream_gene_variant,,ENST00000340490,;EEF1D,downstream_gene_variant,,ENST00000529516,;NAPRT1,upstream_gene_variant,,ENST00000426292,;EEF1D,downstream_gene_variant,,ENST00000533204,;EEF1D,downstream_gene_variant,,ENST00000534377,;RP11-661A12.7,intron_variant,,ENST00000529247,;RP11-661A12.9,downstream_gene_variant,,ENST00000531730,;NAPRT1,upstream_gene_variant,,ENST00000460623,;EEF1D,3_prime_UTR_variant,,ENST00000529007,;EEF1D,3_prime_UTR_variant,,ENST00000524397,;EEF1D,3_prime_UTR_variant,,ENST00000533833,;EEF1D,non_coding_transcript_exon_variant,,ENST00000527741,;NAPRT1,upstream_gene_variant,,ENST00000464332,;NAPRT1,upstream_gene_variant,,ENST00000498076,;NAPRT1,upstream_gene_variant,,ENST00000462059,;NAPRT1,upstream_gene_variant,,ENST00000529179,;NAPRT1,upstream_gene_variant,,ENST00000491904,;NAPRT1,upstream_gene_variant,,ENST00000480946,;EEF1D,downstream_gene_variant,,ENST00000526786,;NAPRT1,upstream_gene_variant,,ENST00000532645,;EEF1D,downstream_gene_variant,,ENST00000530848,;NAPRT1,upstream_gene_variant,,ENST00000488096,;NAPRT1,upstream_gene_variant,,ENST00000525583,;EEF1D,downstream_gene_variant,,ENST00000534232,;	-	ENSG00000104529	ENST00000423316	Transcript	inframe_deletion	2173-2178	1831-1836	611-612	IQ/-	ATTCAG/-	.	.	.	-1	EEF1D	HGNC	3211	protein_coding	YES	CCDS6404.1	ENSP00000410059	EF1D_HUMAN	E9PRL0_HUMAN,E9PQR8_HUMAN,E9PQC9_HUMAN,E9PQ49_HUMAN,E9PPY1_HUMAN,E9PPR1_HUMAN,E9PNW6_HUMAN,E9PNC8_HUMAN,E9PN71_HUMAN,E9PN56_HUMAN,E9PMW7_HUMAN,E9PM66_HUMAN,E9PLT8_HUMAN,E9PLS6_HUMAN,E9PLL8_HUMAN,E9PLA1_HUMAN,E9PL21_HUMAN,E9PL12_HUMAN,E9PKK3_HUMAN,E9PKH7_HUMAN,E9PK72_HUMAN,E9PK01_HUMAN,E9PJV8_HUMAN,E9PJ84_HUMAN,E9PIP5_HUMAN,E9PI93_HUMAN,E9PI39_HUMAN	UPI000013C7A6	.	.	.	9/10	.	hmmpanther:PTHR11595,hmmpanther:PTHR11595:SF20,Gene3D:3.30.70.60,Pfam_domain:PF00736,SMART_domains:SM00888,Superfamily_domains:SSF54984	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CACACACTGAATCTGTA	.	2	BLCA
ZNF395	0	.	GRCh37	8	28209134	28209135	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1110dupT	p.Leu371SerfsTer114	p.L371Sfs*114	ENST00000344423	7/10	104	93	11	91	91	0	ZNF395,frameshift_variant,p.Leu371SerfsTer114,ENST00000344423,;ZNF395,frameshift_variant,p.Leu371SerfsTer114,ENST00000523095,;ZNF395,frameshift_variant,p.Leu371SerfsTer114,ENST00000523202,;ZNF395,upstream_gene_variant,,ENST00000520535,;FBXO16,3_prime_UTR_variant,,ENST00000521548,;ZNF395,non_coding_transcript_exon_variant,,ENST00000517372,;	A	ENSG00000186918	ENST00000344423	Transcript	frameshift_variant	1242-1243	1110-1111	370-371	-/X	-/T	.	.	.	-1	ZNF395	HGNC	18737	protein_coding	YES	CCDS6067.1	ENSP00000340494	ZN395_HUMAN	E5RH90_HUMAN,E5RGF1_HUMAN,E5RG59_HUMAN,E5RFV4_HUMAN	UPI0000073F08	.	.	.	7/10	.	hmmpanther:PTHR13006:SF6,hmmpanther:PTHR13006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTGCAGAGGTG	.	3	BLCA
UNC5D	0	.	GRCh37	8	35583708	35583708	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1342C>T	p.%3D	p.L448L	ENST00000404895	10/17	61	51	9	61	61	0	UNC5D,synonymous_variant,p.%3D,ENST00000449677,;UNC5D,synonymous_variant,p.%3D,ENST00000453357,;UNC5D,synonymous_variant,p.%3D,ENST00000416672,;UNC5D,synonymous_variant,p.%3D,ENST00000404895,;UNC5D,synonymous_variant,p.%3D,ENST00000287272,;UNC5D,synonymous_variant,p.%3D,ENST00000420357,;UNC5D,non_coding_transcript_exon_variant,,ENST00000474634,;	T	ENSG00000156687	ENST00000404895	Transcript	synonymous_variant	1670	1342	448	L	Ctg/Ttg	.	.	.	1	UNC5D	HGNC	18634	protein_coding	YES	CCDS6093.2	ENSP00000385143	UNC5D_HUMAN	.	UPI00001D6915	.	.	.	10/17	.	hmmpanther:PTHR12582:SF5,hmmpanther:PTHR12582	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATCTGACA	.	5	BLCA
C8orf22	0	.	GRCh37	8	49985442	49985442	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.53G>T	p.Arg18Leu	p.R18L	ENST00000303202	2/5	68	55	13	77	77	0	C8orf22,missense_variant,p.Arg18Leu,ENST00000303202,;C8orf22,missense_variant,p.Arg18Leu,ENST00000399653,;C8orf22,missense_variant,p.Arg18Leu,ENST00000517663,;C8orf22,missense_variant,p.Arg18Leu,ENST00000522267,;	T	ENSG00000168333	ENST00000303202	Transcript	missense_variant	226	53	18	R/L	cGa/cTa	COSM1100354	.	.	1	C8orf22	HGNC	31745	protein_coding	YES	CCDS59101.1	ENSP00000304926	PDPFL_HUMAN	.	UPI0000070316	.	deleterious(0)	possibly_damaging(0.773)	2/5	.	Prints_domain:PR02071,Pfam_domain:PF15060,hmmpanther:PTHR14572,hmmpanther:PTHR14572:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R18Q|c.53G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATCGAAGTA	.	5	BLCA
SNTG1	0	.	GRCh37	8	51569553	51569553	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934G>A	p.Gly312Ser	p.G312S	ENST00000522124	14/19	88	75	13	74	74	0	SNTG1,missense_variant,p.Gly312Ser,ENST00000517473,;SNTG1,missense_variant,p.Gly312Ser,ENST00000518864,;SNTG1,missense_variant,p.Gly312Ser,ENST00000276467,;SNTG1,missense_variant,p.Gly312Ser,ENST00000522124,;SNTG1,missense_variant,p.Gly312Ser,ENST00000520825,;SNTG1,missense_variant,p.Gly86Ser,ENST00000524004,;	A	ENSG00000147481	ENST00000522124	Transcript	missense_variant	1595	934	312	G/S	Ggc/Agc	.	.	.	1	SNTG1	HGNC	13740	protein_coding	YES	CCDS6147.1	ENSP00000429842	SNTG1_HUMAN	E5RIN0_HUMAN	UPI000004A0DD	.	deleterious(0.01)	probably_damaging(0.992)	14/19	.	PROSITE_profiles:PS50003,hmmpanther:PTHR10554,hmmpanther:PTHR10554:SF2,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGGGGCTCA	.	5	BLCA
CHD7	0	.	GRCh37	8	61778138	61778138	+	Silent	SNP	G	G	A	rs374937585	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8640G>A	p.%3D	p.P2880P	ENST00000423902	38/38	65	57	8	57	57	0	CHD7,synonymous_variant,p.%3D,ENST00000423902,;CHD7,synonymous_variant,p.%3D,ENST00000524602,;CHD7,downstream_gene_variant,,ENST00000532149,;CHD7,downstream_gene_variant,,ENST00000528280,;CHD7,downstream_gene_variant,,ENST00000531695,;	A	ENSG00000171316	ENST00000423902	Transcript	synonymous_variant	9119	8640	2880	P	ccG/ccA	rs374937585,COSM364788,COSM364787	.	.	1	CHD7	HGNC	20626	protein_coding	YES	CCDS47865.1	ENSP00000392028	CHD7_HUMAN	H0YDC1_HUMAN,E9PP20_HUMAN	UPI0000251DA6	.	.	.	38/38	.	.	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCCGGCTGG	byFrequency|byCluster	4	BLCA
DECR1	0	.	GRCh37	8	91064185	91064185	+	3'UTR	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*60C>G	.	.	ENST00000220764	10/10	26	15	11	21	21	0	DECR1,3_prime_UTR_variant,,ENST00000522161,;DECR1,3_prime_UTR_variant,,ENST00000220764,;DECR1,downstream_gene_variant,,ENST00000517301,;DECR1,3_prime_UTR_variant,,ENST00000517597,;DECR1,3_prime_UTR_variant,,ENST00000520148,;DECR1,downstream_gene_variant,,ENST00000524332,;DECR1,downstream_gene_variant,,ENST00000519328,;	G	ENSG00000104325	ENST00000220764	Transcript	3_prime_UTR_variant	1156	.	.	.	.	.	.	.	1	DECR1	HGNC	2753	protein_coding	YES	CCDS6250.1	ENSP00000220764	DECR_HUMAN	Q7LDK6_HUMAN,E5RJD2_HUMAN	UPI000004C795	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCTCTCATC	.	5	BLCA
TMEM67	0	.	GRCh37	8	94798529	94798529	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1367G>A	p.Gly456Glu	p.G456E	ENST00000453321	13/28	46	40	6	37	37	0	TMEM67,missense_variant,p.Gly162Glu,ENST00000453906,;TMEM67,missense_variant,p.Gly353Glu,ENST00000452276,;TMEM67,missense_variant,p.Gly375Glu,ENST00000409623,;TMEM67,missense_variant,p.Gly456Glu,ENST00000453321,;TMEM67,missense_variant,p.Gly64Glu,ENST00000520680,;TMEM67,downstream_gene_variant,,ENST00000520634,;TMEM67,downstream_gene_variant,,ENST00000425545,;TMEM67,missense_variant,p.Gly446Glu,ENST00000323130,;TMEM67,non_coding_transcript_exon_variant,,ENST00000474944,;TMEM67,upstream_gene_variant,,ENST00000523230,;	A	ENSG00000164953	ENST00000453321	Transcript	missense_variant	1425	1367	456	G/E	gGa/gAa	.	.	.	1	TMEM67	HGNC	28396	protein_coding	YES	CCDS6258.2	ENSP00000389998	MKS3_HUMAN	E5RG10_HUMAN,C9JRQ8_HUMAN	UPI0000D624E9	.	tolerated(0.25)	benign(0.01)	13/28	.	hmmpanther:PTHR21274:SF0,hmmpanther:PTHR21274,Pfam_domain:PF09773	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTAGGAACTC	.	4	BLCA
GOLGA2	0	.	GRCh37	9	131028582	131028582	+	Missense_Mutation	SNP	G	G	A	rs775544000	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.584C>T	p.Thr195Met	p.T195M	ENST00000421699	8/26	49	31	17	56	56	0	GOLGA2,missense_variant,p.Thr183Met,ENST00000609374,;GOLGA2,missense_variant,p.Thr195Met,ENST00000421699,;GOLGA2,missense_variant,p.Thr128Met,ENST00000458730,;GOLGA2,missense_variant,p.Thr222Met,ENST00000450617,;GOLGA2,non_coding_transcript_exon_variant,,ENST00000490257,;GOLGA2,upstream_gene_variant,,ENST00000468488,;GOLGA2,upstream_gene_variant,,ENST00000470630,;	A	ENSG00000167110	ENST00000421699	Transcript	missense_variant	597	584	195	T/M	aCg/aTg	rs775544000	.	.	-1	GOLGA2	HGNC	4425	protein_coding	YES	CCDS6896.2	ENSP00000416097	GOGA2_HUMAN	Q5PXD5_HUMAN	UPI0000D4C11A	.	tolerated(0.25)	benign(0.024)	8/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10881,hmmpanther:PTHR10881:SF45	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCCGTAATT	byFrequency	5	BLCA
RAPGEF1	0	.	GRCh37	9	134525605	134525605	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229G>A	p.Glu77Lys	p.E77K	ENST00000372190	3/24	26	21	5	20	20	0	RAPGEF1,missense_variant,p.Glu77Lys,ENST00000372190,;RAPGEF1,missense_variant,p.Glu77Lys,ENST00000427994,;RAPGEF1,missense_variant,p.Glu76Lys,ENST00000372195,;RAPGEF1,missense_variant,p.Glu59Lys,ENST00000372189,;RAPGEF1,intron_variant,,ENST00000438647,;	T	ENSG00000107263	ENST00000372190	Transcript	missense_variant	388	229	77	E/K	Gag/Aag	.	.	.	-1	RAPGEF1	HGNC	4568	protein_coding	YES	CCDS48048.1	ENSP00000361264	RPGF1_HUMAN	Q5JUE5_HUMAN	UPI0000074689	.	deleterious_low_confidence(0.04)	possibly_damaging(0.637)	3/24	.	hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCTGGTA	.	5	BLCA
CDKN2A	0	.	GRCh37	9	21971120	21971120	+	Nonsense_Mutation	SNP	G	G	A	rs121913388	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238C>T	p.Arg80Ter	p.R80*	ENST00000498124	2/4	13	6	7	14	14	0	CDKN2A,stop_gained,p.Arg29Ter,ENST00000578845,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000494262,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000498628,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000446177,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000304494,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000498124,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000479692,;CDKN2A,stop_gained,p.Arg80Ter,ENST00000579122,;CDKN2A,stop_gained,p.Arg29Ter,ENST00000497750,;CDKN2A,missense_variant,p.Pro94Leu,ENST00000579755,;CDKN2A,missense_variant,p.Pro94Leu,ENST00000530628,;CDKN2A,missense_variant,p.Pro135Leu,ENST00000361570,;C9orf53,downstream_gene_variant,,ENST00000441769,;CDKN2A,non_coding_transcript_exon_variant,,ENST00000380150,;CDKN2A,upstream_gene_variant,,ENST00000577854,;CDKN2A,3_prime_UTR_variant,,ENST00000380151,;RP11-145E5.5,intron_variant,,ENST00000404796,;	A	ENSG00000147889	ENST00000498124	Transcript	stop_gained	277	238	80	R/*	Cga/Tga	CM014695,rs121913388,COSM12475,COSM99935,COSM99191,COSM1314729	.	.	-1	CDKN2A	HGNC	1787	protein_coding	YES	CCDS56565.1	ENSP00000418915	CD2A1_HUMAN	Q9UPB7_HUMAN	UPI0001565711	.	.	.	2/4	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24144:SF30,hmmpanther:PTHR24144,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	not_provided,risk_factor	0,1,1,1,1,1	21499247	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R80*|c.238C>T|116,SITE|p.P135L|c.404C>T|29,SITE|p.R80*|c.238C>T|14,SITE|p.R80*|c.238C>T|31,CODON|p.0?|c.1_471del471|15,CODON|p.R80*|c.237_238CC>TT|10,CODON|p.R80Q|c.239G>A|3,BUFFER|p.H83R|c.248A>G|3,BUFFER|p.H83Y|c.247C>T|5,BUFFER|p.H83Y|c.247C>T|6,BUFFER|p.A138V|c.413C>T|6,BUFFER|p.H83Y|c.247C>T|39,BUFFER|p.V82M|c.244G>A|3,BUFFER|p.P81L|c.242C>T|9,BUFFER|p.L78fs*41|c.233_234delTC|6,BUFFER|p.L78fs*41|c.231_232delTC|5,BUFFER|p.A76V|c.227C>T|3	RADIA|MUTECT|MUSE	GGGTCGGGTGA	byCluster	3	BLCA
DOCK8	0	.	GRCh37	9	422131	422131	+	Missense_Mutation	SNP	G	G	T	rs770909878	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4237G>T	p.Asp1413Tyr	p.D1413Y	ENST00000453981	33/48	38	19	18	49	49	0	DOCK8,missense_variant,p.Asp1345Tyr,ENST00000432829,;DOCK8,missense_variant,p.Asp1413Tyr,ENST00000453981,;DOCK8,missense_variant,p.Asp1313Tyr,ENST00000469391,;DOCK8,missense_variant,p.Asp880Tyr,ENST00000382329,;DOCK8,non_coding_transcript_exon_variant,,ENST00000493666,;DOCK8,non_coding_transcript_exon_variant,,ENST00000495184,;	T	ENSG00000107099	ENST00000453981	Transcript	missense_variant	4349	4237	1413	D/Y	Gat/Tat	rs770909878	.	.	1	DOCK8	HGNC	19191	protein_coding	YES	CCDS6440.2	ENSP00000408464	DOCK8_HUMAN	E2J6M5_HUMAN,C9J7A3_HUMAN,C9J613_HUMAN	UPI0000E0B9E5	.	deleterious(0)	probably_damaging(0.968)	33/48	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF74	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTAGATAAG	.	5	BLCA
DOCK8	0	.	GRCh37	9	449888	449888	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5922G>C	p.Gln1974His	p.Q1974H	ENST00000453981	45/48	62	39	22	64	64	0	DOCK8,missense_variant,p.Gln1906His,ENST00000432829,;DOCK8,missense_variant,p.Gln1974His,ENST00000453981,;DOCK8,missense_variant,p.Gln1874His,ENST00000469391,;DOCK8,missense_variant,p.Gln1441His,ENST00000382329,;RP11-165F24.3,downstream_gene_variant,,ENST00000586805,;RP11-165F24.3,downstream_gene_variant,,ENST00000589287,;RP11-165F24.3,downstream_gene_variant,,ENST00000591577,;RP11-165F24.3,downstream_gene_variant,,ENST00000589387,;RP11-165F24.3,downstream_gene_variant,,ENST00000585944,;RP11-165F24.3,downstream_gene_variant,,ENST00000415004,;DOCK8,non_coding_transcript_exon_variant,,ENST00000495184,;	C	ENSG00000107099	ENST00000453981	Transcript	missense_variant	6034	5922	1974	Q/H	caG/caC	.	.	.	1	DOCK8	HGNC	19191	protein_coding	YES	CCDS6440.2	ENSP00000408464	DOCK8_HUMAN	E2J6M5_HUMAN,C9J7A3_HUMAN,C9J613_HUMAN	UPI0000E0B9E5	.	deleterious(0)	probably_damaging(0.973)	45/48	.	PROSITE_profiles:PS51651,hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF74,Pfam_domain:PF06920	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCAGATGGT	.	5	BLCA
SLC1A1	0	.	GRCh37	9	4585615	4585615	+	3'UTR	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*57C>G	.	.	ENST00000262352	12/12	21	12	9	30	30	0	SLC1A1,3_prime_UTR_variant,,ENST00000262352,;SLC1A1,downstream_gene_variant,,ENST00000422398,;SPATA6L,intron_variant,,ENST00000485616,;SPATA6L,downstream_gene_variant,,ENST00000486047,;SPATA6L,downstream_gene_variant,,ENST00000461761,;	G	ENSG00000106688	ENST00000262352	Transcript	3_prime_UTR_variant	1868	.	.	.	.	.	.	.	1	SLC1A1	HGNC	10939	protein_coding	YES	CCDS6452.1	ENSP00000262352	EAA3_HUMAN	.	UPI0000129B16	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCAAACA	.	5	BLCA
FOXB2	0	.	GRCh37	9	79634744	79634744	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174G>A	p.%3D	p.Q58Q	ENST00000376708	1/1	35	26	9	37	37	0	FOXB2,synonymous_variant,p.%3D,ENST00000376708,;	A	ENSG00000204612	ENST00000376708	Transcript	synonymous_variant	174	174	58	Q	caG/caA	.	.	.	1	FOXB2	HGNC	23315	protein_coding	YES	CCDS35045.1	ENSP00000365898	FOXB2_HUMAN	.	UPI00004588EE	.	.	.	1/1	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829:SF76,hmmpanther:PTHR11829,PROSITE_patterns:PS00658,Gene3D:1.10.10.10,Pfam_domain:PF00250,SMART_domains:SM00339,Superfamily_domains:SSF46785,Prints_domain:PR00053	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCAGAACAG	.	5	BLCA
CEP78	0	.	GRCh37	9	80881568	80881568	+	Missense_Mutation	SNP	G	G	C	rs758277997	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2059G>C	p.Glu687Gln	p.E687Q	ENST00000376597	16/16	21	15	6	23	23	0	CEP78,missense_variant,p.Glu686Gln,ENST00000376598,;CEP78,missense_variant,p.Glu687Gln,ENST00000376597,;CEP78,missense_variant,p.Glu670Gln,ENST00000277082,;CEP78,missense_variant,p.Glu670Gln,ENST00000424347,;CEP78,missense_variant,p.Glu671Gln,ENST00000415759,;CEP78,non_coding_transcript_exon_variant,,ENST00000476652,;CEP78,downstream_gene_variant,,ENST00000487108,;CEP78,non_coding_transcript_exon_variant,,ENST00000447629,;CEP78,downstream_gene_variant,,ENST00000498582,;CEP78,downstream_gene_variant,,ENST00000459817,;	C	ENSG00000148019	ENST00000376597	Transcript	missense_variant	2203	2059	687	E/Q	Gag/Cag	rs758277997	.	.	1	CEP78	HGNC	25740	protein_coding	YES	CCDS47984.1	ENSP00000365782	CEP78_HUMAN	.	UPI000153BFA4	.	deleterious_low_confidence(0.01)	benign(0.146)	16/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGAGGAG	.	5	BLCA
RGAG1	0	.	GRCh37	X	109697829	109697829	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3984C>T	p.%3D	p.A1328A	ENST00000465301	3/4	24	8	16	19	19	0	RGAG1,synonymous_variant,p.%3D,ENST00000540313,;RGAG1,synonymous_variant,p.%3D,ENST00000465301,;RGAG1,downstream_gene_variant,,ENST00000520821,;	T	ENSG00000243978	ENST00000465301	Transcript	synonymous_variant	4230	3984	1328	A	gcC/gcT	.	.	.	1	RGAG1	HGNC	29245	protein_coding	YES	CCDS14552.1	ENSP00000419786	RGAG1_HUMAN	E5RKA1_HUMAN	UPI000006F841	.	.	.	3/4	.	hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ACAGCCTGTAA	.	4	BLCA
ZNF275	0	.	GRCh37	X	152612686	152612686	+	Silent	SNP	C	C	T	.	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.543C>T	p.%3D	p.F181F	ENST00000370251	4/5	26	16	9	26	26	0	ZNF275,synonymous_variant,p.%3D,ENST00000370251,;ZNF275,synonymous_variant,p.%3D,ENST00000440091,;ZNF275,synonymous_variant,p.%3D,ENST00000370249,;ZNF275,synonymous_variant,p.%3D,ENST00000421401,;snoU13,upstream_gene_variant,,ENST00000459572,;ZNF275,upstream_gene_variant,,ENST00000438239,;	T	ENSG00000063587	ENST00000370251	Transcript	synonymous_variant	720	543	181	F	ttC/ttT	COSM4107654,COSM4107653	.	.	1	ZNF275	HGNC	13069	protein_coding	YES	.	ENSP00000359271	.	A6NFS0_HUMAN	UPI000059DBB5	.	.	.	4/5	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50157,hmmpanther:PTHR24409,hmmpanther:PTHR24409:SF13,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCGAGTG	.	5	BLCA
FAM50A	0	.	GRCh37	X	153673979	153673979	+	Splice_Site	SNP	A	A	T	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112-2A>T	.	p.X38_splice	ENST00000393600	.	19	10	9	15	15	0	FAM50A,splice_acceptor_variant,,ENST00000393600,;FAM50A,splice_acceptor_variant,,ENST00000158526,;GDI1,downstream_gene_variant,,ENST00000447750,;GDI1,downstream_gene_variant,,ENST00000471972,;GDI1,downstream_gene_variant,,ENST00000465640,;FAM50A,splice_acceptor_variant,,ENST00000464419,;FAM50A,splice_acceptor_variant,,ENST00000481619,;FAM50A,non_coding_transcript_exon_variant,,ENST00000490480,;FAM50A,upstream_gene_variant,,ENST00000494278,;GDI1,downstream_gene_variant,,ENST00000468483,;GDI1,downstream_gene_variant,,ENST00000476540,;GDI1,downstream_gene_variant,,ENST00000489589,;GDI1,downstream_gene_variant,,ENST00000491154,;FAM50A,upstream_gene_variant,,ENST00000478509,;GDI1,downstream_gene_variant,,ENST00000460984,;	T	ENSG00000071859	ENST00000393600	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	FAM50A	HGNC	18786	protein_coding	YES	CCDS14751.1	ENSP00000377225	FA50A_HUMAN	Q6PJH5_HUMAN,B0S8I6_HUMAN	UPI0000138FCD	.	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGCAGGAGA	.	5	BLCA
MXRA5	0	.	GRCh37	X	3240254	3240254	+	Missense_Mutation	SNP	G	G	A	rs183322867	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3472C>T	p.Arg1158Cys	p.R1158C	ENST00000217939	5/7	48	44	4	38	38	0	MXRA5,missense_variant,p.Arg1158Cys,ENST00000217939,;	A	ENSG00000101825	ENST00000217939	Transcript	missense_variant	3627	3472	1158	R/C	Cgc/Tgc	rs183322867	.	.	-1	MXRA5	HGNC	7539	protein_coding	YES	CCDS14124.1	ENSP00000217939	MXRA5_HUMAN	.	UPI000013C73B	.	deleterious(0)	possibly_damaging(0.886)	5/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF582	A:0.0005	A:0.0008	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGGCGTAATC	byFrequency|byCluster|by1000G	3	BLCA
MXRA5	0	.	GRCh37	X	3241554	3241554	+	Silent	SNP	G	G	C	rs754531675	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2172C>G	p.%3D	p.L724L	ENST00000217939	5/7	35	21	14	36	36	0	MXRA5,synonymous_variant,p.%3D,ENST00000217939,;	C	ENSG00000101825	ENST00000217939	Transcript	synonymous_variant	2327	2172	724	L	ctC/ctG	rs754531675	.	.	-1	MXRA5	HGNC	7539	protein_coding	YES	CCDS14124.1	ENSP00000217939	MXRA5_HUMAN	.	UPI000013C73B	.	.	.	5/7	.	hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF582	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTGAGGAA	byFrequency	5	BLCA
DGKK	0	.	GRCh37	X	50130617	50130617	+	RNA	SNP	C	C	G	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2113G>C	.	.	ENST00000376025	14/28	17	13	4	18	18	0	DGKK,non_coding_transcript_exon_variant,,ENST00000376025,;DGKK,non_coding_transcript_exon_variant,,ENST00000546288,;	G	ENSG00000204466	ENST00000376025	Transcript	non_coding_transcript_exon_variant	2113	.	.	.	.	.	.	.	-1	DGKK	HGNC	32395	processed_transcript	YES	.	.	.	.	.	.	.	.	14/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATCAACCA	.	5	BLCA
OGT	0	.	GRCh37	X	70783176	70783176	+	Intron	DEL	C	C	-	novel	.	TCGA-GU-A42Q-01A-11D-A23U-08	TCGA-GU-A42Q-10A-01D-A23U-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2266-3delC	.	.	ENST00000373719	.	59	41	18	49	49	0	OGT,splice_region_variant,,ENST00000373701,;OGT,splice_region_variant,,ENST00000373719,;OGT,splice_region_variant,,ENST00000488174,;OGT,upstream_gene_variant,,ENST00000474633,;	-	ENSG00000147162	ENST00000373719	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	OGT	HGNC	8127	protein_coding	YES	CCDS14414.1	ENSP00000362824	OGT1_HUMAN	C9JZL3_HUMAN	UPI0000073C9F	.	.	.	.	17/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTTTTCAGATG	.	3	BLCA
FAM178A	0	.	GRCh37	10	102676711	102676711	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569G>A	p.Arg190Gln	p.R190Q	ENST00000370269	3/19	48	30	18	43	43	0	FAM178A,missense_variant,p.Arg190Gln,ENST00000370269,;FAM178A,missense_variant,p.Arg190Gln,ENST00000370271,;FAM178A,missense_variant,p.Arg190Gln,ENST00000238961,;FAM178A,downstream_gene_variant,,ENST00000609386,;RP11-179B2.2,upstream_gene_variant,,ENST00000608554,;	A	ENSG00000119906	ENST00000370269	Transcript	missense_variant	701	569	190	R/Q	cGa/cAa	.	.	.	1	FAM178A	HGNC	17814	protein_coding	YES	CCDS44470.1	ENSP00000359292	F178A_HUMAN	.	UPI0000458847	.	tolerated(0.39)	benign(0.01)	3/19	.	hmmpanther:PTHR16046,hmmpanther:PTHR16046:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATCGAGGCA	.	5	BLCA
PPRC1	0	.	GRCh37	10	103898903	103898903	+	Missense_Mutation	SNP	C	C	G	rs746664279	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.638C>G	p.Ser213Cys	p.S213C	ENST00000278070	5/14	158	142	15	168	168	0	PPRC1,missense_variant,p.Ser213Cys,ENST00000413464,;PPRC1,missense_variant,p.Ser213Cys,ENST00000278070,;PPRC1,upstream_gene_variant,,ENST00000370012,;PPRC1,upstream_gene_variant,,ENST00000489648,;PPRC1,upstream_gene_variant,,ENST00000462933,;	G	ENSG00000148840	ENST00000278070	Transcript	missense_variant	677	638	213	S/C	tCt/tGt	rs746664279	.	.	1	PPRC1	HGNC	30025	protein_coding	YES	CCDS7529.1	ENSP00000278070	PPRC1_HUMAN	.	UPI000013DB5C	.	deleterious_low_confidence(0.04)	probably_damaging(0.995)	5/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15528:SF5,hmmpanther:PTHR15528	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCTTTCT	byFrequency	4	BLCA
EMX2	0	.	GRCh37	10	119303135	119303135	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357C>T	p.%3D	p.F119F	ENST00000553456	1/3	62	57	5	114	114	0	EMX2,synonymous_variant,p.%3D,ENST00000442245,;EMX2,synonymous_variant,p.%3D,ENST00000553456,;EMX2OS,intron_variant,,ENST00000551288,;EMX2OS,upstream_gene_variant,,ENST00000440007,;EMX2OS,upstream_gene_variant,,ENST00000450314,;EMX2,upstream_gene_variant,,ENST00000546446,;	T	ENSG00000170370	ENST00000553456	Transcript	synonymous_variant	1181	357	119	F	ttC/ttT	.	.	.	1	EMX2	HGNC	3341	protein_coding	YES	CCDS7601.1	ENSP00000450962	EMX2_HUMAN	.	UPI000004CC07	.	.	.	1/3	.	hmmpanther:PTHR24339,hmmpanther:PTHR24339:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ACCTTCTACCC	.	2	BLCA
CHST15	0	.	GRCh37	10	125769698	125769698	+	Silent	SNP	G	G	A	rs750435817	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1653C>T	p.%3D	p.L551L	ENST00000346248	8/8	35	32	3	51	51	0	CHST15,synonymous_variant,p.%3D,ENST00000435907,;CHST15,synonymous_variant,p.%3D,ENST00000346248,;	A	ENSG00000182022	ENST00000346248	Transcript	synonymous_variant	2296	1653	551	L	ctC/ctT	rs750435817	.	.	-1	CHST15	HGNC	18137	protein_coding	YES	CCDS7638.1	ENSP00000333947	CHSTF_HUMAN	.	UPI000004D06B	.	.	.	8/8	.	hmmpanther:PTHR15723,hmmpanther:PTHR15723:SF0,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCGCGAGGAC	.	2	BLCA
EDRF1	0	.	GRCh37	10	127426975	127426975	+	Missense_Mutation	SNP	G	G	A	rs144071063	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1942G>A	p.Glu648Lys	p.E648K	ENST00000356792	15/25	73	58	15	92	92	0	EDRF1,missense_variant,p.Glu648Lys,ENST00000356792,;EDRF1,missense_variant,p.Glu614Lys,ENST00000337623,;EDRF1,missense_variant,p.Glu68Lys,ENST00000368813,;EDRF1,missense_variant,p.Glu648Lys,ENST00000419769,;EDRF1,3_prime_UTR_variant,,ENST00000368815,;EDRF1,3_prime_UTR_variant,,ENST00000481600,;EDRF1,non_coding_transcript_exon_variant,,ENST00000525091,;EDRF1,downstream_gene_variant,,ENST00000530795,;	A	ENSG00000107938	ENST00000356792	Transcript	missense_variant	2174	1942	648	E/K	Gag/Aag	rs144071063	.	.	1	EDRF1	HGNC	24640	protein_coding	YES	CCDS55733.1	ENSP00000349244	EDRF1_HUMAN	.	UPI00005CA2E3	.	tolerated(0.4)	benign(0.004)	15/25	.	hmmpanther:PTHR15000:SF1,hmmpanther:PTHR15000	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCCGAGGGG	byCluster|by1000G	5	BLCA
FRMD4A	0	.	GRCh37	10	13699486	13699486	+	Silent	SNP	G	G	A	rs534651878	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2103C>T	p.%3D	p.L701L	ENST00000357447	22/25	29	22	7	19	19	0	FRMD4A,synonymous_variant,p.%3D,ENST00000357447,;FRMD4A,synonymous_variant,p.%3D,ENST00000358621,;FRMD4A,synonymous_variant,p.%3D,ENST00000378503,;RP11-295P9.3,downstream_gene_variant,,ENST00000601460,;RP11-295P9.3,intron_variant,,ENST00000593351,;RP11-295P9.3,downstream_gene_variant,,ENST00000599639,;FRMD4A,upstream_gene_variant,,ENST00000475325,;RP11-295P9.3,downstream_gene_variant,,ENST00000600511,;RP11-295P9.3,downstream_gene_variant,,ENST00000600249,;RP11-295P9.3,downstream_gene_variant,,ENST00000593358,;FRMD4A,upstream_gene_variant,,ENST00000495956,;RP11-295P9.3,downstream_gene_variant,,ENST00000601758,;RP11-295P9.3,downstream_gene_variant,,ENST00000596499,;RP11-295P9.3,downstream_gene_variant,,ENST00000596235,;RP11-295P9.3,downstream_gene_variant,,ENST00000430721,;RP11-295P9.3,downstream_gene_variant,,ENST00000594575,;RP11-295P9.3,downstream_gene_variant,,ENST00000419851,;RP11-295P9.3,downstream_gene_variant,,ENST00000597920,;RP11-295P9.3,downstream_gene_variant,,ENST00000598625,;	A	ENSG00000151474	ENST00000357447	Transcript	synonymous_variant	2472	2103	701	L	ctC/ctT	rs534651878	.	.	-1	FRMD4A	HGNC	25491	protein_coding	YES	CCDS7101.1	ENSP00000350032	FRM4A_HUMAN	F8WAN4_HUMAN	UPI0000366665	.	.	.	22/25	.	hmmpanther:PTHR23281:SF12,hmmpanther:PTHR23281	C:0.0002	C:0	C:0	.	C:0	C:0	C:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGCGAGGCT	by1000G	2	BLCA
FAM188A	0	.	GRCh37	10	15821032	15821032	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1297G>C	p.Glu433Gln	p.E433Q	ENST00000277632	15/15	43	37	6	45	45	0	FAM188A,missense_variant,p.Glu433Gln,ENST00000277632,;FAM188A,missense_variant,p.Glu138Gln,ENST00000378036,;FAM188A,non_coding_transcript_exon_variant,,ENST00000476912,;FAM188A,non_coding_transcript_exon_variant,,ENST00000477891,;	G	ENSG00000148481	ENST00000277632	Transcript	missense_variant	1518	1297	433	E/Q	Gag/Cag	.	.	.	-1	FAM188A	HGNC	23578	protein_coding	YES	CCDS7110.1	ENSP00000277632	F188A_HUMAN	.	UPI000006E7F1	.	deleterious(0)	probably_damaging(0.989)	15/15	.	hmmpanther:PTHR12473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAACTCAATGT	.	4	BLCA
KIAA1462	0	.	GRCh37	10	30306741	30306741	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71C>G	.	.	ENST00000375377	4/4	14	11	3	18	18	0	KIAA1462,3_prime_UTR_variant,,ENST00000375377,;KIAA1462,upstream_gene_variant,,ENST00000464386,;	C	ENSG00000165757	ENST00000375377	Transcript	3_prime_UTR_variant	4253	.	.	.	.	.	.	.	-1	KIAA1462	HGNC	29283	protein_coding	YES	CCDS41500.1	ENSP00000364526	JCAD_HUMAN	.	UPI00001D8117	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCTGATAGA	.	2	BLCA
AKR1C2	0	.	GRCh37	10	5046087	5046087	+	5'UTR	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-60C>G	.	.	ENST00000380753	1/9	29	21	8	30	30	0	AKR1C2,5_prime_UTR_variant,,ENST00000604507,;AKR1C2,5_prime_UTR_variant,,ENST00000380753,;AKR1C2,5_prime_UTR_variant,,ENST00000407674,;AKR1C2,upstream_gene_variant,,ENST00000455190,;AKR1C2,upstream_gene_variant,,ENST00000421196,;U8,upstream_gene_variant,,ENST00000459141,;AKR1C2,downstream_gene_variant,,ENST00000604428,;AKR1C2,downstream_gene_variant,,ENST00000604711,;AKR1C2,upstream_gene_variant,,ENST00000604184,;AKR1C2,non_coding_transcript_exon_variant,,ENST00000460124,;	C	ENSG00000151632	ENST00000380753	Transcript	5_prime_UTR_variant	129	.	.	.	.	.	.	.	-1	AKR1C2	HGNC	385	protein_coding	YES	CCDS7062.1	ENSP00000370129	AK1C2_HUMAN	S4R3P0_HUMAN	UPI0000111D9F	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAATGAGCTG	.	5	BLCA
CDH23	0	.	GRCh37	10	73548775	73548775	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5914G>C	p.Glu1972Gln	p.E1972Q	ENST00000224721	44/69	30	24	6	38	38	0	CDH23,missense_variant,p.Glu1972Gln,ENST00000224721,;	C	ENSG00000107736	ENST00000224721	Transcript	missense_variant	5919	5914	1972	E/Q	Gag/Cag	.	.	.	1	CDH23	HGNC	13733	protein_coding	.	.	ENSP00000224721	.	.	UPI0002B831D5	.	tolerated(0.11)	benign(0.135)	44/69	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF277,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCAGAGGTG	.	5	BLCA
DLG5	0	.	GRCh37	10	79570892	79570892	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4423G>A	p.Glu1475Lys	p.E1475K	ENST00000372391	23/32	43	38	5	60	60	0	DLG5,missense_variant,p.Glu436Lys,ENST00000424842,;DLG5,missense_variant,p.Glu1135Lys,ENST00000372388,;DLG5,missense_variant,p.Glu1475Lys,ENST00000372391,;DLG5,non_coding_transcript_exon_variant,,ENST00000459739,;DLG5,non_coding_transcript_exon_variant,,ENST00000489547,;DLG5,upstream_gene_variant,,ENST00000484525,;DLG5,3_prime_UTR_variant,,ENST00000468332,;DLG5,non_coding_transcript_exon_variant,,ENST00000463362,;DLG5,non_coding_transcript_exon_variant,,ENST00000475613,;DLG5,downstream_gene_variant,,ENST00000476354,;	T	ENSG00000151208	ENST00000372391	Transcript	missense_variant	4429	4423	1475	E/K	Gag/Aag	.	.	.	-1	DLG5	HGNC	2904	protein_coding	YES	CCDS7353.2	ENSP00000361467	DLG5_HUMAN	.	UPI0000470041	.	deleterious(0.05)	possibly_damaging(0.876)	23/32	.	hmmpanther:PTHR13865	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D1474D|c.4422C>T|3	MUTECT|MUSE|VARSCANS	CCCCTCGTCCT	.	3	BLCA
LIPA	0	.	GRCh37	10	90983577	90983577	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.686G>C	p.Gly229Ala	p.G229A	ENST00000336233	7/10	92	81	11	96	96	0	LIPA,missense_variant,p.Gly173Ala,ENST00000371837,;LIPA,missense_variant,p.Gly229Ala,ENST00000456827,;LIPA,missense_variant,p.Gly229Ala,ENST00000428800,;LIPA,missense_variant,p.Gly229Ala,ENST00000336233,;LIPA,downstream_gene_variant,,ENST00000282673,;	G	ENSG00000107798	ENST00000336233	Transcript	missense_variant	1009	686	229	G/A	gGa/gCa	.	.	.	-1	LIPA	HGNC	6617	protein_coding	YES	CCDS7401.1	ENSP00000337354	LICH_HUMAN	Q5T770_HUMAN,Q5T073_HUMAN,B4DE67_HUMAN	UPI000013C851	.	deleterious(0.01)	probably_damaging(0.986)	7/10	.	hmmpanther:PTHR11005,hmmpanther:PTHR11005:SF26,Gene3D:3.40.50.1820,Pfam_domain:PF00561,PIRSF_domain:PIRSF000862,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCTCCAAAT	.	4	BLCA
HELLS	0	.	GRCh37	10	96306226	96306226	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124C>G	p.Leu42Val	p.L42V	ENST00000348459	2/22	61	47	14	90	90	0	HELLS,missense_variant,p.Leu42Val,ENST00000394044,;HELLS,missense_variant,p.Leu42Val,ENST00000394036,;HELLS,missense_variant,p.Leu26Val,ENST00000419900,;HELLS,missense_variant,p.Leu42Val,ENST00000239026,;HELLS,missense_variant,p.Leu42Val,ENST00000348459,;HELLS,missense_variant,p.Leu42Val,ENST00000394045,;HELLS,missense_variant,p.Leu42Val,ENST00000371332,;	G	ENSG00000119969	ENST00000348459	Transcript	missense_variant	229	124	42	L/V	Cta/Gta	.	.	.	1	HELLS	HGNC	4861	protein_coding	YES	CCDS7434.1	ENSP00000239027	HELLS_HUMAN	B1ALG6_HUMAN	UPI000006F63A	.	tolerated(0.25)	benign(0.017)	2/22	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10799:SF547,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGACTAGAG	.	5	BLCA
YAP1	0	.	GRCh37	11	102076777	102076777	+	Missense_Mutation	SNP	G	G	A	rs758360525	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.956G>A	p.Arg319Gln	p.R319Q	ENST00000282441	5/9	47	42	5	58	58	0	YAP1,missense_variant,p.Arg141Gln,ENST00000524575,;YAP1,missense_variant,p.Arg281Gln,ENST00000526343,;YAP1,missense_variant,p.Arg281Gln,ENST00000345877,;YAP1,missense_variant,p.Arg69Gln,ENST00000529029,;YAP1,missense_variant,p.Arg319Gln,ENST00000537274,;YAP1,missense_variant,p.Arg319Gln,ENST00000531439,;YAP1,missense_variant,p.Arg319Gln,ENST00000282441,;	A	ENSG00000137693	ENST00000282441	Transcript	missense_variant	1344	956	319	R/Q	cGg/cAg	rs758360525	.	.	1	YAP1	HGNC	16262	protein_coding	YES	CCDS44716.1	ENSP00000282441	YAP1_HUMAN	.	UPI00000746D8	.	deleterious(0.02)	possibly_damaging(0.701)	5/9	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR17616,hmmpanther:PTHR17616:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGCGGCTGA	byFrequency	2	BLCA
APOA1	0	.	GRCh37	11	116707812	116707812	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105G>A	p.%3D	p.V35V	ENST00000236850	3/4	94	82	11	87	87	0	APOA1,synonymous_variant,p.%3D,ENST00000236850,;APOA1,synonymous_variant,p.%3D,ENST00000375320,;APOA1,synonymous_variant,p.%3D,ENST00000359492,;APOA1,synonymous_variant,p.%3D,ENST00000375323,;APOA1,intron_variant,,ENST00000375329,;APOC3,downstream_gene_variant,,ENST00000375345,;APOC3,downstream_gene_variant,,ENST00000227667,;APOA1-AS,intron_variant,,ENST00000444200,;	T	ENSG00000118137	ENST00000236850	Transcript	synonymous_variant	471	105	35	V	gtG/gtA	.	.	.	-1	APOA1	HGNC	600	protein_coding	YES	CCDS8378.1	ENSP00000236850	APOA1_HUMAN	.	UPI000002C911	.	.	.	3/4	.	Gene3D:1.20.120.20,hmmpanther:PTHR18976:SF11,hmmpanther:PTHR18976	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTTCACTCG	.	4	BLCA
KMT2A	0	.	GRCh37	11	118339535	118339535	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478C>T	p.Arg160Ter	p.R160*	ENST00000534358	2/36	100	86	13	100	100	0	KMT2A,stop_gained,p.Arg110Ter,ENST00000527869,;KMT2A,stop_gained,p.Arg160Ter,ENST00000389506,;KMT2A,stop_gained,p.Arg77Ter,ENST00000533790,;KMT2A,stop_gained,p.Arg160Ter,ENST00000354520,;KMT2A,stop_gained,p.Arg160Ter,ENST00000534358,;KMT2A,stop_gained,p.Arg193Ter,ENST00000531904,;	T	ENSG00000118058	ENST00000534358	Transcript	stop_gained	501	478	160	R/*	Cga/Tga	.	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	.	2/36	.	hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGTGCGAAGT	.	4	BLCA
DDX6	0	.	GRCh37	11	118656795	118656795	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166C>G	p.Gln56Glu	p.Q56E	ENST00000264018	2/14	84	70	14	95	95	0	DDX6,missense_variant,p.Gln56Glu,ENST00000526070,;DDX6,missense_variant,p.Gln56Glu,ENST00000264018,;DDX6,missense_variant,p.Gln56Glu,ENST00000534980,;DDX6,non_coding_transcript_exon_variant,,ENST00000525082,;DDX6,non_coding_transcript_exon_variant,,ENST00000533239,;DDX6,non_coding_transcript_exon_variant,,ENST00000531971,;	C	ENSG00000110367	ENST00000264018	Transcript	missense_variant	472	166	56	Q/E	Cag/Gag	.	.	.	-1	DDX6	HGNC	2747	protein_coding	YES	CCDS44751.1	ENSP00000264018	DDX6_HUMAN	B2R858_HUMAN	UPI000013D4A2	.	tolerated_low_confidence(0.63)	benign(0.004)	2/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF214	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGTGC	.	5	BLCA
EIF3M	0	.	GRCh37	11	32608636	32608636	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121G>A	p.Asp41Asn	p.D41N	ENST00000531120	2/11	158	126	32	179	179	0	EIF3M,missense_variant,p.Asp41Asn,ENST00000531120,;EIF3M,5_prime_UTR_variant,,ENST00000533439,;EIF3M,5_prime_UTR_variant,,ENST00000323213,;EIF3M,intron_variant,,ENST00000524896,;EIF3M,upstream_gene_variant,,ENST00000526267,;EIF3M,non_coding_transcript_exon_variant,,ENST00000532054,;EIF3M,missense_variant,p.Asp41Asn,ENST00000524711,;EIF3M,missense_variant,p.Asp41Asn,ENST00000531921,;EIF3M,synonymous_variant,p.%3D,ENST00000532444,;EIF3M,non_coding_transcript_exon_variant,,ENST00000530026,;EIF3M,non_coding_transcript_exon_variant,,ENST00000531186,;EIF3M,intron_variant,,ENST00000525782,;HNRNPA3P9,downstream_gene_variant,,ENST00000604913,;	A	ENSG00000149100	ENST00000531120	Transcript	missense_variant	184	121	41	D/N	Gat/Aat	.	.	.	1	EIF3M	HGNC	24460	protein_coding	YES	CCDS7880.1	ENSP00000436049	EIF3M_HUMAN	J3KNJ2_HUMAN,E9PN86_HUMAN	UPI0000070F8A	.	tolerated(0.14)	benign(0.39)	2/11	.	HAMAP:MF_03012,hmmpanther:PTHR15350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTGATTTA	.	5	BLCA
QSER1	0	.	GRCh37	11	32956369	32956369	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3178G>A	p.Glu1060Lys	p.E1060K	ENST00000399302	4/13	73	64	9	80	80	0	QSER1,missense_variant,p.Glu821Lys,ENST00000527788,;QSER1,missense_variant,p.Glu1060Lys,ENST00000399302,;QSER1,missense_variant,p.Glu81Lys,ENST00000524678,;QSER1,downstream_gene_variant,,ENST00000528155,;QSER1,downstream_gene_variant,,ENST00000527250,;	A	ENSG00000060749	ENST00000399302	Transcript	missense_variant	3513	3178	1060	E/K	Gaa/Aaa	.	.	.	1	QSER1	HGNC	26154	protein_coding	YES	CCDS41631.1	ENSP00000382241	QSER1_HUMAN	E9PQD3_HUMAN,B3KWV1_HUMAN	UPI0000E467AF	.	deleterious(0.01)	probably_damaging(0.997)	4/13	.	hmmpanther:PTHR14709,hmmpanther:PTHR14709:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGATTGAAGAA	.	4	BLCA
HSD17B12	0	.	GRCh37	11	43876875	43876875	+	3'UTR	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*77G>A	.	.	ENST00000278353	11/11	18	15	3	19	19	0	HSD17B12,3_prime_UTR_variant,,ENST00000278353,;RP11-613D13.5,intron_variant,,ENST00000530450,;HSD17B12,downstream_gene_variant,,ENST00000533802,;HSD17B12,non_coding_transcript_exon_variant,,ENST00000525736,;HSD17B12,non_coding_transcript_exon_variant,,ENST00000533090,;HSD17B12,downstream_gene_variant,,ENST00000534053,;	A	ENSG00000149084	ENST00000278353	Transcript	3_prime_UTR_variant	1135	.	.	.	.	.	.	.	1	HSD17B12	HGNC	18646	protein_coding	YES	CCDS7905.1	ENSP00000278353	DHB12_HUMAN	B4DWS6_HUMAN	UPI000004C79B	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTTGAAAAT	.	2	BLCA
OR51E2	0	.	GRCh37	11	4703011	4703011	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931G>C	p.Asp311His	p.D311H	ENST00000396950	2/2	83	64	18	69	69	0	OR51E2,missense_variant,p.Asp311His,ENST00000396950,;OR51E2,downstream_gene_variant,,ENST00000532598,;	G	ENSG00000167332	ENST00000396950	Transcript	missense_variant	1171	931	311	D/H	Gac/Cac	.	.	.	-1	OR51E2	HGNC	15195	protein_coding	YES	CCDS7751.1	ENSP00000380153	O51E2_HUMAN	E9PPJ8_HUMAN	UPI000003B49B	.	tolerated(0.49)	benign(0.153)	2/2	.	hmmpanther:PTHR26450,hmmpanther:PTHR26450:SF99	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTCACAGC	.	5	BLCA
OR51B2	0	.	GRCh37	11	5345000	5345000	+	Silent	SNP	G	G	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.528C>T	p.%3D	p.F176F	ENST00000328813	1/1	76	60	16	90	90	0	OR51B2,synonymous_variant,p.%3D,ENST00000328813,;HBE1,intron_variant,,ENST00000396895,;HBG2,intron_variant,,ENST00000380252,;HBE1,intron_variant,,ENST00000380237,;HBG2,intron_variant,,ENST00000380259,;AC104389.28,intron_variant,,ENST00000420465,;	A	ENSG00000184881	ENST00000328813	Transcript	synonymous_variant	583	528	176	F	ttC/ttT	COSM3448612	.	.	-1	OR51B2	HGNC	14703	protein_coding	YES	CCDS31377.1	ENSP00000327540	O51B2_HUMAN	.	UPI0000456470	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26450:SF76,hmmpanther:PTHR26450,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCAGAAAGC	.	5	BLCA
OR8K3	0	.	GRCh37	11	56086228	56086228	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.446A>G	p.Tyr149Cys	p.Y149C	ENST00000312711	1/1	98	81	17	111	111	0	OR8K3,missense_variant,p.Tyr149Cys,ENST00000312711,;	G	ENSG00000181689	ENST00000312711	Transcript	missense_variant	446	446	149	Y/C	tAc/tGc	.	.	.	1	OR8K3	HGNC	15313	protein_coding	YES	CCDS31527.1	ENSP00000323555	OR8K3_HUMAN	.	UPI0000041BE7	.	deleterious_low_confidence(0.02)	possibly_damaging(0.793)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF161,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTACCTCT	.	5	BLCA
GIF	0	.	GRCh37	11	59611349	59611349	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256+3G>A	.	.	ENST00000257248	.	30	19	11	41	41	0	GIF,splice_region_variant,,ENST00000257248,;GIF,splice_region_variant,,ENST00000541311,;GIF,splice_region_variant,,ENST00000532070,;GIF,splice_region_variant,,ENST00000525058,;GIF,upstream_gene_variant,,ENST00000533847,;	T	ENSG00000134812	ENST00000257248	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	GIF	HGNC	4268	protein_coding	YES	CCDS7977.1	ENSP00000257248	IF_HUMAN	.	UPI0000001C67	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	TGTCTCACCGT	.	2	BLCA
MS4A4A	0	.	GRCh37	11	60075732	60075732	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*81G>C	.	.	ENST00000337908	7/7	32	28	4	20	20	0	MS4A4A,3_prime_UTR_variant,,ENST00000395016,;MS4A4A,3_prime_UTR_variant,,ENST00000355131,;MS4A4A,3_prime_UTR_variant,,ENST00000337908,;MS4A4A,downstream_gene_variant,,ENST00000532114,;MS4A4A,3_prime_UTR_variant,,ENST00000343968,;MS4A4A,non_coding_transcript_exon_variant,,ENST00000529991,;	C	ENSG00000110079	ENST00000337908	Transcript	3_prime_UTR_variant	891	.	.	.	.	.	.	.	1	MS4A4A	HGNC	13371	protein_coding	YES	CCDS7982.1	ENSP00000338648	M4A4A_HUMAN	.	UPI0000055AE7	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCAGTATCC	.	4	BLCA
MS4A1	0	.	GRCh37	11	60230520	60230520	+	Missense_Mutation	SNP	C	C	T	rs752030627	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205C>T	p.Leu69Phe	p.L69F	ENST00000534668	3/7	106	81	25	110	110	0	MS4A1,missense_variant,p.Leu72Phe,ENST00000533306,;MS4A1,missense_variant,p.Leu69Phe,ENST00000345732,;MS4A1,missense_variant,p.Leu69Phe,ENST00000534668,;MS4A1,missense_variant,p.Leu69Phe,ENST00000389939,;MS4A1,missense_variant,p.Leu69Phe,ENST00000532073,;MS4A1,intron_variant,,ENST00000528313,;MS4A1,downstream_gene_variant,,ENST00000524807,;MS4A1,downstream_gene_variant,,ENST00000532491,;MS4A1,non_coding_transcript_exon_variant,,ENST00000527101,;MS4A1,non_coding_transcript_exon_variant,,ENST00000534503,;MS4A1,upstream_gene_variant,,ENST00000532418,;MS4A1,upstream_gene_variant,,ENST00000530482,;	T	ENSG00000156738	ENST00000534668	Transcript	missense_variant	494	205	69	L/F	Ctt/Ttt	rs752030627	.	.	1	MS4A1	HGNC	7315	protein_coding	YES	CCDS31570.1	ENSP00000433277	CD20_HUMAN	.	UPI000012733B	.	tolerated(0.08)	probably_damaging(0.983)	3/7	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR23320:SF6,hmmpanther:PTHR23320,Pfam_domain:PF04103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGTCTTCTG	.	5	BLCA
ASRGL1	0	.	GRCh37	11	62156681	62156681	+	Missense_Mutation	SNP	G	G	A	rs200906420	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>A	p.Val190Ile	p.V190I	ENST00000415229	5/7	112	87	24	96	96	0	ASRGL1,missense_variant,p.Val62Ile,ENST00000535727,;ASRGL1,missense_variant,p.Val190Ile,ENST00000415229,;ASRGL1,missense_variant,p.Val190Ile,ENST00000301776,;CTD-2531D15.5,downstream_gene_variant,,ENST00000526045,;ASRGL1,upstream_gene_variant,,ENST00000533970,;ASRGL1,3_prime_UTR_variant,,ENST00000534183,;ASRGL1,upstream_gene_variant,,ENST00000525708,;ASRGL1,downstream_gene_variant,,ENST00000529226,;	A	ENSG00000162174	ENST00000415229	Transcript	missense_variant	783	568	190	V/I	Gtt/Att	rs200906420	.	.	1	ASRGL1	HGNC	16448	protein_coding	YES	CCDS8019.1	ENSP00000400057	ASGL1_HUMAN	Q9BRH2_HUMAN	UPI000004BF00	.	tolerated(0.38)	benign(0.005)	5/7	.	hmmpanther:PTHR10188,hmmpanther:PTHR10188:SF18,Pfam_domain:PF01112,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATCGTTAAT	byFrequency|byCluster	5	BLCA
FCHSD2	0	.	GRCh37	11	72551973	72551973	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2088C>T	p.%3D	p.F696F	ENST00000409418	19/20	40	30	10	37	37	0	FCHSD2,synonymous_variant,p.%3D,ENST00000409263,;FCHSD2,synonymous_variant,p.%3D,ENST00000409418,;FCHSD2,synonymous_variant,p.%3D,ENST00000311172,;FCHSD2,synonymous_variant,p.%3D,ENST00000409314,;FCHSD2,synonymous_variant,p.%3D,ENST00000458644,;ATG16L2,intron_variant,,ENST00000534905,;FCHSD2,downstream_gene_variant,,ENST00000409853,;FCHSD2,downstream_gene_variant,,ENST00000432043,;	A	ENSG00000137478	ENST00000409418	Transcript	synonymous_variant	2472	2088	696	F	ttC/ttT	.	.	.	-1	FCHSD2	HGNC	29114	protein_coding	YES	CCDS8218.2	ENSP00000386722	FCSD2_HUMAN	C9JM66_HUMAN	UPI0000251F08	.	.	.	19/20	.	hmmpanther:PTHR15735,hmmpanther:PTHR15735:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGAGAATCC	.	5	BLCA
RSF1	0	.	GRCh37	11	77413253	77413253	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1021G>A	p.Glu341Lys	p.E341K	ENST00000308488	6/16	213	165	48	212	212	0	RSF1,missense_variant,p.Glu341Lys,ENST00000308488,;RSF1,missense_variant,p.Glu310Lys,ENST00000360355,;RSF1,missense_variant,p.Glu340Lys,ENST00000528095,;RSF1,missense_variant,p.Glu142Lys,ENST00000526324,;RSF1,missense_variant,p.Glu89Lys,ENST00000480887,;RSF1,upstream_gene_variant,,ENST00000531026,;RSF1,upstream_gene_variant,,ENST00000532556,;RSF1,downstream_gene_variant,,ENST00000534794,;RSF1,upstream_gene_variant,,ENST00000531768,;	T	ENSG00000048649	ENST00000308488	Transcript	missense_variant	1324	1021	341	E/K	Gag/Aag	.	.	.	-1	RSF1	HGNC	18118	protein_coding	YES	CCDS8253.1	ENSP00000311513	RSF1_HUMAN	H0YER1_HUMAN,H0YDG9_HUMAN,H0YCN2_HUMAN	UPI00001FB001	.	tolerated(0.23)	benign(0.341)	6/16	.	Pfam_domain:PF15614,hmmpanther:PTHR10615,hmmpanther:PTHR10615:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCATGC	.	5	BLCA
KCTD21	0	.	GRCh37	11	77885384	77885384	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217G>T	p.Asp73Tyr	p.D73Y	ENST00000340067	2/2	50	36	13	52	52	0	KCTD21,missense_variant,p.Asp73Tyr,ENST00000525447,;KCTD21,missense_variant,p.Asp73Tyr,ENST00000340067,;KCTD21,missense_variant,p.Asp73Tyr,ENST00000526208,;KCTD21,missense_variant,p.Asp73Tyr,ENST00000529350,;KCTD21,3_prime_UTR_variant,,ENST00000530018,;KCTD21,downstream_gene_variant,,ENST00000528776,;KCTD21-AS1,non_coding_transcript_exon_variant,,ENST00000600795,;KCTD21-AS1,downstream_gene_variant,,ENST00000530261,;KCTD21-AS1,downstream_gene_variant,,ENST00000528468,;KCTD21-AS1,downstream_gene_variant,,ENST00000523626,;	A	ENSG00000188997	ENST00000340067	Transcript	missense_variant	496	217	73	D/Y	Gac/Tac	.	.	.	-1	KCTD21	HGNC	27452	protein_coding	YES	CCDS31645.1	ENSP00000339340	KCD21_HUMAN	E9PRT1_HUMAN,E9PMS5_HUMAN,E9PM10_HUMAN,E9PK99_HUMAN,E9PJJ5_HUMAN	UPI000016193F	.	tolerated(0.05)	probably_damaging(0.998)	2/2	.	hmmpanther:PTHR14499,hmmpanther:PTHR14499:SF57,Pfam_domain:PF02214,Gene3D:3.30.710.10,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGTCCTCAG	.	5	BLCA
ANAPC5	0	.	GRCh37	12	121784699	121784699	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>A	p.Gly133Ser	p.G133S	ENST00000261819	3/17	43	37	6	41	41	0	ANAPC5,missense_variant,p.Gly133Ser,ENST00000541887,;ANAPC5,missense_variant,p.Gly34Ser,ENST00000544442,;ANAPC5,missense_variant,p.Gly34Ser,ENST00000344395,;ANAPC5,missense_variant,p.Gly133Ser,ENST00000261819,;ANAPC5,missense_variant,p.Gly34Ser,ENST00000536837,;ANAPC5,missense_variant,p.Gly34Ser,ENST00000441917,;ANAPC5,missense_variant,p.Gly181Ser,ENST00000539871,;ANAPC5,upstream_gene_variant,,ENST00000536366,;ANAPC5,splice_region_variant,,ENST00000536416,;ANAPC5,splice_region_variant,,ENST00000541652,;ANAPC5,non_coding_transcript_exon_variant,,ENST00000534976,;ANAPC5,non_coding_transcript_exon_variant,,ENST00000545801,;ANAPC5,upstream_gene_variant,,ENST00000539612,;	T	ENSG00000089053	ENST00000261819	Transcript	missense_variant	519	397	133	G/S	Ggt/Agt	.	.	.	-1	ANAPC5	HGNC	15713	protein_coding	YES	CCDS9220.1	ENSP00000261819	APC5_HUMAN	Q49A41_HUMAN,F5GZ05_HUMAN,F5GY68_HUMAN,B4DFK4_HUMAN	UPI000006DF80	.	deleterious(0)	probably_damaging(1)	3/17	.	hmmpanther:PTHR12830	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATACCTACTA	.	2	BLCA
CLIP1	0	.	GRCh37	12	122845721	122845721	+	Nonsense_Mutation	SNP	G	G	A	rs764995960	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790C>T	p.Gln264Ter	p.Q264*	ENST00000540338	4/25	46	37	8	70	70	0	CLIP1,stop_gained,p.Gln264Ter,ENST00000537178,;CLIP1,stop_gained,p.Gln264Ter,ENST00000302528,;CLIP1,stop_gained,p.Gln264Ter,ENST00000361654,;CLIP1,stop_gained,p.Gln264Ter,ENST00000358808,;CLIP1,stop_gained,p.Gln264Ter,ENST00000537004,;CLIP1,stop_gained,p.Gln264Ter,ENST00000540304,;CLIP1,stop_gained,p.Gln264Ter,ENST00000540338,;CLIP1,5_prime_UTR_variant,,ENST00000545889,;CLIP1,stop_gained,p.Gln264Ter,ENST00000541108,;RPL21P1,upstream_gene_variant,,ENST00000399532,;	A	ENSG00000130779	ENST00000540338	Transcript	stop_gained	832	790	264	Q/*	Cag/Tag	rs764995960	.	.	-1	CLIP1	HGNC	10461	protein_coding	YES	CCDS58285.1	ENSP00000439093	CLIP1_HUMAN	F5H367_HUMAN,F5H270_HUMAN	UPI0000E00D4E	.	.	.	4/25	.	Superfamily_domains:SSF74924,SMART_domains:SM01052,Pfam_domain:PF01302,Gene3D:2.30.30.190,hmmpanther:PTHR18916,hmmpanther:PTHR18916:SF30,PROSITE_profiles:PS50245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTGAAAAT	.	5	BLCA
TMEM132B	0	.	GRCh37	12	126137164	126137164	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2077C>G	p.Gln693Glu	p.Q693E	ENST00000299308	8/9	46	37	9	61	61	0	TMEM132B,missense_variant,p.Gln205Glu,ENST00000535886,;TMEM132B,missense_variant,p.Gln693Glu,ENST00000299308,;	G	ENSG00000139364	ENST00000299308	Transcript	missense_variant	2085	2077	693	Q/E	Cag/Gag	.	.	.	1	TMEM132B	HGNC	29397	protein_coding	YES	CCDS41859.1	ENSP00000299308	T132B_HUMAN	.	UPI00006BFF58	.	tolerated(0.14)	benign(0.03)	8/9	.	hmmpanther:PTHR13388,hmmpanther:PTHR13388:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAGTCC	.	5	BLCA
PIWIL1	0	.	GRCh37	12	130847598	130847598	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2104G>A	p.Asp702Asn	p.D702N	ENST00000245255	18/21	80	61	18	99	99	0	PIWIL1,missense_variant,p.Asp702Asn,ENST00000245255,;PIWIL1,upstream_gene_variant,,ENST00000541480,;	A	ENSG00000125207	ENST00000245255	Transcript	missense_variant	2376	2104	702	D/N	Gat/Aat	.	.	.	1	PIWIL1	HGNC	9007	protein_coding	YES	CCDS9268.1	ENSP00000245255	PIWL1_HUMAN	F5H889_HUMAN,F5H3U6_HUMAN,F5H2F7_HUMAN,F5GZL9_HUMAN,F5GYG0_HUMAN,F5GWW4_HUMAN	UPI000007059F	.	deleterious(0.05)	probably_damaging(0.99)	18/21	.	Superfamily_domains:SSF53098,SMART_domains:SM00950,Pfam_domain:PF02171,Gene3D:3.30.420.10,hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF31,PROSITE_profiles:PS50822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCGCGATGGC	.	5	BLCA
DDX11	0	.	GRCh37	12	31246218	31246218	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1329G>A	p.%3D	p.Q443Q	ENST00000407793	12/27	40	32	8	51	51	0	DDX11,synonymous_variant,p.%3D,ENST00000350437,;DDX11,synonymous_variant,p.%3D,ENST00000542838,;DDX11,synonymous_variant,p.%3D,ENST00000545668,;DDX11,synonymous_variant,p.%3D,ENST00000228264,;DDX11,synonymous_variant,p.%3D,ENST00000407793,;DDX11,3_prime_UTR_variant,,ENST00000251758,;DDX11,downstream_gene_variant,,ENST00000544652,;DDX11,downstream_gene_variant,,ENST00000438391,;DDX11,downstream_gene_variant,,ENST00000415475,;DDX11,non_coding_transcript_exon_variant,,ENST00000539673,;DDX11,downstream_gene_variant,,ENST00000545717,;DDX11,3_prime_UTR_variant,,ENST00000435753,;DDX11,3_prime_UTR_variant,,ENST00000542129,;DDX11,3_prime_UTR_variant,,ENST00000539049,;DDX11,non_coding_transcript_exon_variant,,ENST00000536580,;DDX11,non_coding_transcript_exon_variant,,ENST00000536265,;DDX11,non_coding_transcript_exon_variant,,ENST00000543026,;DDX11,intron_variant,,ENST00000538345,;DDX11,downstream_gene_variant,,ENST00000542244,;DDX11,upstream_gene_variant,,ENST00000542661,;DDX11,upstream_gene_variant,,ENST00000543511,;DDX11,downstream_gene_variant,,ENST00000540935,;DDX11,downstream_gene_variant,,ENST00000535158,;DDX11,downstream_gene_variant,,ENST00000542242,;DDX11,upstream_gene_variant,,ENST00000539699,;	A	ENSG00000013573	ENST00000407793	Transcript	synonymous_variant	1580	1329	443	Q	caG/caA	.	.	.	1	DDX11	HGNC	2736	protein_coding	YES	CCDS44856.1	ENSP00000384703	DDX11_HUMAN	F5GXJ8_HUMAN	UPI000006F88F	.	.	.	12/27	.	PROSITE_profiles:PS51193,hmmpanther:PTHR11472,hmmpanther:PTHR11472:SF35,TIGRFAM_domain:TIGR00604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCAGATCCT	.	5	BLCA
ENDOU	0	.	GRCh37	12	48111320	48111320	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.363G>A	p.%3D	p.E121E	ENST00000422538	4/10	126	105	21	121	121	0	ENDOU,synonymous_variant,p.%3D,ENST00000545824,;ENDOU,synonymous_variant,p.%3D,ENST00000422538,;ENDOU,synonymous_variant,p.%3D,ENST00000229003,;ENDOU,5_prime_UTR_variant,,ENST00000542202,;RP1-197B17.3,non_coding_transcript_exon_variant,,ENST00000547799,;RP1-197B17.3,upstream_gene_variant,,ENST00000552502,;RP1-197B17.3,upstream_gene_variant,,ENST00000553045,;RP1-197B17.3,upstream_gene_variant,,ENST00000552133,;ENDOU,non_coding_transcript_exon_variant,,ENST00000551186,;	T	ENSG00000111405	ENST00000422538	Transcript	synonymous_variant	486	363	121	E	gaG/gaA	.	.	.	-1	ENDOU	HGNC	14369	protein_coding	YES	CCDS53785.1	ENSP00000397679	ENDOU_HUMAN	B7Z3J4_HUMAN	UPI00001FC0AE	.	.	.	4/10	.	PROSITE_profiles:PS50958,hmmpanther:PTHR12439:SF9,hmmpanther:PTHR12439,PROSITE_patterns:PS00524,Pfam_domain:PF01033,SMART_domains:SM00201,Superfamily_domains:0049461,Prints_domain:PR00022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCTCAAA	.	5	BLCA
H1FNT	0	.	GRCh37	12	48723164	48723164	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.90C>T	p.%3D	p.G30G	ENST00000335017	1/1	19	15	3	38	38	0	H1FNT,synonymous_variant,p.%3D,ENST00000335017,;RP11-370I10.4,downstream_gene_variant,,ENST00000549699,;	T	ENSG00000187166	ENST00000335017	Transcript	synonymous_variant	402	90	30	G	ggC/ggT	.	.	.	1	H1FNT	HGNC	24893	protein_coding	YES	CCDS8762.1	ENSP00000334805	H1FNT_HUMAN	.	UPI00001AA15C	.	.	.	1/1	.	hmmpanther:PTHR11467:SF14,hmmpanther:PTHR11467	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AGTGGCGAATC	.	2	BLCA
KCNH3	0	.	GRCh37	12	49948155	49948155	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1954C>T	p.Arg652Trp	p.R652W	ENST00000257981	11/15	126	101	25	143	141	1	KCNH3,missense_variant,p.Arg652Trp,ENST00000257981,;MCRS1,downstream_gene_variant,,ENST00000550165,;MCRS1,downstream_gene_variant,,ENST00000357123,;MCRS1,downstream_gene_variant,,ENST00000546244,;MCRS1,downstream_gene_variant,,ENST00000343810,;MCRS1,downstream_gene_variant,,ENST00000551598,;MCRS1,downstream_gene_variant,,ENST00000547182,;MCRS1,downstream_gene_variant,,ENST00000548646,;MCRS1,downstream_gene_variant,,ENST00000551625,;KCNH3,upstream_gene_variant,,ENST00000548675,;MCRS1,downstream_gene_variant,,ENST00000548602,;MCRS1,downstream_gene_variant,,ENST00000549000,;MCRS1,downstream_gene_variant,,ENST00000552596,;	T	ENSG00000135519	ENST00000257981	Transcript	missense_variant	2214	1954	652	R/W	Cgg/Tgg	.	.	.	1	KCNH3	HGNC	6252	protein_coding	YES	CCDS8786.1	ENSP00000257981	KCNH3_HUMAN	Q8N500_HUMAN	UPI000012DCA6	.	deleterious(0.03)	possibly_damaging(0.892)	11/15	.	Superfamily_domains:SSF51206,SMART_domains:SM00100,Gene3D:2.60.120.10,Pfam_domain:PF00027,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF481	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCGGCGGGAG	.	4	BLCA
CCDC77	0	.	GRCh37	12	527786	527786	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>A	p.Asp133Asn	p.D133N	ENST00000239830	5/13	149	127	22	106	106	0	CCDC77,missense_variant,p.Asp101Asn,ENST00000540180,;CCDC77,missense_variant,p.Asp133Asn,ENST00000239830,;CCDC77,missense_variant,p.Asp101Asn,ENST00000412006,;CCDC77,missense_variant,p.Asp101Asn,ENST00000543504,;CCDC77,missense_variant,p.Asp101Asn,ENST00000422000,;CCDC77,downstream_gene_variant,,ENST00000535052,;CCDC77,non_coding_transcript_exon_variant,,ENST00000540344,;CCDC77,non_coding_transcript_exon_variant,,ENST00000538160,;	A	ENSG00000120647	ENST00000239830	Transcript	missense_variant	576	397	133	D/N	Gac/Aac	.	.	.	1	CCDC77	HGNC	28203	protein_coding	YES	CCDS8503.1	ENSP00000239830	CCD77_HUMAN	F5H5Q8_HUMAN,F5H0W5_HUMAN	UPI0000070D97	.	deleterious(0)	probably_damaging(1)	5/13	.	hmmpanther:PTHR22091,hmmpanther:PTHR22091:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATGACCGA	.	4	BLCA
KRT82	0	.	GRCh37	12	52797631	52797631	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>C	p.Gln158His	p.Q158H	ENST00000257974	2/9	56	44	12	73	73	0	KRT82,missense_variant,p.Gln158His,ENST00000257974,;RP11-1020M18.10,upstream_gene_variant,,ENST00000548135,;RP3-416H24.4,downstream_gene_variant,,ENST00000547174,;	G	ENSG00000161850	ENST00000257974	Transcript	missense_variant	552	474	158	Q/H	caG/caC	.	.	.	-1	KRT82	HGNC	6459	protein_coding	YES	CCDS8826.1	ENSP00000257974	KRT82_HUMAN	.	UPI000013CFA4	.	tolerated(0.09)	benign(0.026)	2/9	.	Prints_domain:PR01276,Superfamily_domains:SSF64593,Pfam_domain:PF00038,hmmpanther:PTHR23239:SF151,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTGCTG	.	5	BLCA
KRT77	0	.	GRCh37	12	53097197	53097197	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22C>G	p.Gln8Glu	p.Q8E	ENST00000341809	1/9	38	32	5	47	47	0	KRT77,missense_variant,p.Gln8Glu,ENST00000341809,;KRT77,5_prime_UTR_variant,,ENST00000537195,;KRT77,missense_variant,p.Gln8Glu,ENST00000553168,;	C	ENSG00000189182	ENST00000341809	Transcript	missense_variant	51	22	8	Q/E	Cag/Gag	.	.	.	-1	KRT77	HGNC	20411	protein_coding	YES	CCDS8837.1	ENSP00000342710	K2C1B_HUMAN	F5GY66_HUMAN	UPI00001D797A	.	tolerated(0.69)	unknown(0)	1/9	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGACTGAGAAC	.	4	BLCA
RARG	0	.	GRCh37	12	53609099	53609099	+	Silent	SNP	G	G	A	rs775669227	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453C>T	p.%3D	p.F151F	ENST00000425354	5/10	102	74	28	80	80	0	RARG,synonymous_variant,p.%3D,ENST00000425354,;RARG,synonymous_variant,p.%3D,ENST00000327550,;RARG,synonymous_variant,p.%3D,ENST00000394426,;RARG,synonymous_variant,p.%3D,ENST00000543726,;RARG,synonymous_variant,p.%3D,ENST00000338561,;RARG,non_coding_transcript_exon_variant,,ENST00000543762,;RARG,non_coding_transcript_exon_variant,,ENST00000550265,;RARG,non_coding_transcript_exon_variant,,ENST00000548317,;RARG,downstream_gene_variant,,ENST00000548284,;RARG,upstream_gene_variant,,ENST00000551580,;	A	ENSG00000172819	ENST00000425354	Transcript	synonymous_variant	941	453	151	F	ttC/ttT	rs775669227	.	.	-1	RARG	HGNC	9866	protein_coding	YES	CCDS8850.1	ENSP00000388510	RARG_HUMAN	H3BMY6_HUMAN,H3BMK1_HUMAN,A8K3H3_HUMAN	UPI000000105D	.	.	.	5/10	.	PROSITE_profiles:PS51030,hmmpanther:PTHR24082:SF116,hmmpanther:PTHR24082,Gene3D:3.30.50.10,Pfam_domain:PF00105,SMART_domains:SM00399,Superfamily_domains:SSF57716,Superfamily_domains:SSF48508,Prints_domain:PR00047,Prints_domain:PR00398	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTCGAAGCA	.	5	BLCA
DTX3	0	.	GRCh37	12	58000773	58000773	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.127G>A	p.Glu43Lys	p.E43K	ENST00000548198	3/5	291	254	37	358	358	0	DTX3,missense_variant,p.Glu43Lys,ENST00000337737,;DTX3,missense_variant,p.Glu43Lys,ENST00000548804,;DTX3,missense_variant,p.Glu43Lys,ENST00000548198,;DTX3,missense_variant,p.Glu46Lys,ENST00000549583,;DTX3,missense_variant,p.Glu36Lys,ENST00000548478,;DTX3,missense_variant,p.Glu43Lys,ENST00000551835,;DTX3,missense_variant,p.Glu46Lys,ENST00000551632,;ARHGEF25,upstream_gene_variant,,ENST00000286494,;DTX3,downstream_gene_variant,,ENST00000550596,;PIP4K2C,downstream_gene_variant,,ENST00000354947,;ARHGEF25,upstream_gene_variant,,ENST00000333972,;DTX3,upstream_gene_variant,,ENST00000550300,;PIP4K2C,downstream_gene_variant,,ENST00000540759,;	A	ENSG00000178498	ENST00000548198	Transcript	missense_variant	1631	127	43	E/K	Gag/Aag	.	.	.	1	DTX3	HGNC	24457	protein_coding	YES	CCDS41800.1	ENSP00000447873	DTX3_HUMAN	F8VV96_HUMAN	UPI00000437C5	.	tolerated(0.57)	possibly_damaging(0.636)	3/5	.	hmmpanther:PTHR12622	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGAGGAGCAC	.	4	BLCA
FAM19A2	0	.	GRCh37	12	62147449	62147449	+	Missense_Mutation	SNP	C	C	T	rs569347374	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338G>A	p.Arg113Gln	p.R113Q	ENST00000416284	4/5	93	83	10	83	82	0	FAM19A2,missense_variant,p.Arg16Gln,ENST00000550003,;FAM19A2,missense_variant,p.Arg113Gln,ENST00000416284,;FAM19A2,missense_variant,p.Arg113Gln,ENST00000551619,;FAM19A2,intron_variant,,ENST00000551449,;FAM19A2,downstream_gene_variant,,ENST00000548780,;FAM19A2,downstream_gene_variant,,ENST00000549958,;FAM19A2,downstream_gene_variant,,ENST00000552075,;FAM19A2,missense_variant,p.Arg113Gln,ENST00000549379,;	T	ENSG00000198673	ENST00000416284	Transcript	missense_variant	1923	338	113	R/Q	cGg/cAg	rs569347374	.	.	-1	FAM19A2	HGNC	21589	protein_coding	YES	CCDS8962.1	ENSP00000393987	F19A2_HUMAN	.	UPI000006F642	.	tolerated(0.46)	benign(0.004)	4/5	.	hmmpanther:PTHR31770:SF4,hmmpanther:PTHR31770,Pfam_domain:PF12020	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTCCGATCC	byFrequency|byCluster	4	BLCA
USP15	0	.	GRCh37	12	62784646	62784646	+	Missense_Mutation	SNP	G	G	A	rs775355642	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1847G>A	p.Arg616Gln	p.R616Q	ENST00000280377	15/22	28	22	6	31	31	0	USP15,missense_variant,p.Arg587Gln,ENST00000353364,;USP15,missense_variant,p.Arg591Gln,ENST00000393654,;USP15,missense_variant,p.Arg616Gln,ENST00000280377,;USP15,upstream_gene_variant,,ENST00000549415,;USP15,upstream_gene_variant,,ENST00000548620,;USP15,downstream_gene_variant,,ENST00000549268,;	A	ENSG00000135655	ENST00000280377	Transcript	missense_variant	1905	1847	616	R/Q	cGa/cAa	rs775355642	.	.	1	USP15	HGNC	12613	protein_coding	YES	CCDS58251.1	ENSP00000280377	UBP15_HUMAN	F8VZG8_HUMAN,F8VVY7_HUMAN	UPI00001379F8	.	deleterious(0)	probably_damaging(0.986)	15/22	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF387,hmmpanther:PTHR24006,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCCGATATG	byFrequency	5	BLCA
TMCO3	0	.	GRCh37	13	114149903	114149903	+	Missense_Mutation	SNP	G	G	A	rs781417053	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7G>A	p.Val3Met	p.V3M	ENST00000434316	2/13	46	36	10	61	61	0	TMCO3,missense_variant,p.Val3Met,ENST00000375391,;TMCO3,missense_variant,p.Val3Met,ENST00000434316,;DCUN1D2,upstream_gene_variant,,ENST00000478244,;DCUN1D2,upstream_gene_variant,,ENST00000332592,;DCUN1D2,upstream_gene_variant,,ENST00000496873,;DCUN1D2,upstream_gene_variant,,ENST00000439909,;DCUN1D2,upstream_gene_variant,,ENST00000375399,;TMCO3,non_coding_transcript_exon_variant,,ENST00000474393,;TMCO3,upstream_gene_variant,,ENST00000462877,;TMCO3,upstream_gene_variant,,ENST00000473287,;DCUN1D2,upstream_gene_variant,,ENST00000375403,;DCUN1D2,upstream_gene_variant,,ENST00000438545,;	A	ENSG00000150403	ENST00000434316	Transcript	missense_variant	366	7	3	V/M	Gtg/Atg	rs781417053	.	.	1	TMCO3	HGNC	20329	protein_coding	YES	CCDS9537.1	ENSP00000389399	TMCO3_HUMAN	.	UPI000004C642	.	deleterious_low_confidence(0.02)	benign(0.047)	2/13	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGAAGGTGTTG	byFrequency	4	BLCA
ATP8A2	0	.	GRCh37	13	26154062	26154062	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1984G>C	p.Glu662Gln	p.E662Q	ENST00000381655	22/37	48	37	10	62	62	0	ATP8A2,missense_variant,p.Glu622Gln,ENST00000255283,;ATP8A2,missense_variant,p.Glu662Gln,ENST00000381655,;ATP8A2,non_coding_transcript_exon_variant,,ENST00000491840,;ATP8A2,missense_variant,p.Glu502Gln,ENST00000281620,;	C	ENSG00000132932	ENST00000381655	Transcript	missense_variant	2126	1984	662	E/Q	Gag/Cag	.	.	.	1	ATP8A2	HGNC	13533	protein_coding	YES	CCDS41873.1	ENSP00000371070	AT8A2_HUMAN	.	UPI0000229592	.	tolerated(0.11)	possibly_damaging(0.848)	22/37	.	hmmpanther:PTHR24092:SF45,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Pfam_domain:PF12710,Gene3D:3.40.1110.10,Superfamily_domains:SSF56784,Superfamily_domains:SSF81660	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E665K|c.1993G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAAGAGTGT	.	5	BLCA
HSPH1	0	.	GRCh37	13	31725297	31725297	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.695G>C	p.Gly232Ala	p.G232A	ENST00000320027	7/18	71	60	11	61	61	0	HSPH1,missense_variant,p.Gly51Ala,ENST00000429785,;HSPH1,missense_variant,p.Gly232Ala,ENST00000320027,;HSPH1,missense_variant,p.Gly191Ala,ENST00000380406,;HSPH1,missense_variant,p.Gly234Ala,ENST00000445273,;HSPH1,missense_variant,p.Gly232Ala,ENST00000380405,;HSPH1,3_prime_UTR_variant,,ENST00000602786,;	G	ENSG00000120694	ENST00000320027	Transcript	missense_variant	1040	695	232	G/A	gGa/gCa	.	.	.	-1	HSPH1	HGNC	16969	protein_coding	YES	CCDS9340.1	ENSP00000318687	HS105_HUMAN	.	UPI0000001C62	.	deleterious(0)	probably_damaging(1)	7/18	.	hmmpanther:PTHR19375:SF18,hmmpanther:PTHR19375,Gene3D:3.30.420.40,Pfam_domain:PF00012,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCCTAAG	.	5	BLCA
COG6	0	.	GRCh37	13	40298699	40298700	+	Splice_Site	INS	-	-	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1746+2dupT	.	p.X582_splice	ENST00000455146	.	95	75	20	68	68	0	COG6,splice_donor_variant,,ENST00000455146,;COG6,splice_donor_variant,,ENST00000416691,;COG6,splice_donor_variant,,ENST00000356576,;	T	ENSG00000133103	ENST00000455146	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	COG6	HGNC	18621	protein_coding	YES	CCDS9370.1	ENSP00000397441	COG6_HUMAN	B4DG73_HUMAN	UPI000019271E	.	.	.	.	17/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAATGGTAAGT	.	3	BLCA
SERPINE3	0	.	GRCh37	13	51915321	51915321	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.94G>C	p.Glu32Gln	p.E32Q	ENST00000521255	1/7	49	41	8	56	56	0	SERPINE3,missense_variant,p.Glu32Gln,ENST00000419898,;SERPINE3,missense_variant,p.Glu32Gln,ENST00000400389,;SERPINE3,missense_variant,p.Glu32Gln,ENST00000524365,;SERPINE3,missense_variant,p.Glu32Gln,ENST00000521255,;	C	ENSG00000253309	ENST00000521255	Transcript	missense_variant	154	94	32	E/Q	Gag/Cag	COSM432481	.	.	1	SERPINE3	HGNC	24774	protein_coding	YES	CCDS53870.1	ENSP00000428316	SERP3_HUMAN	E5RG55_HUMAN	UPI00001B2164	.	tolerated(0.07)	possibly_damaging(0.513)	1/7	.	Superfamily_domains:SSF56574,Pfam_domain:PF00079,Gene3D:3.30.497.10,hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF129	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTGAGTTT	.	5	BLCA
KLHL1	0	.	GRCh37	13	70456528	70456528	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1114G>A	p.Glu372Lys	p.E372K	ENST00000377844	5/11	80	61	19	75	75	0	KLHL1,missense_variant,p.Glu179Lys,ENST00000545028,;KLHL1,missense_variant,p.Glu372Lys,ENST00000377844,;	T	ENSG00000150361	ENST00000377844	Transcript	missense_variant	1874	1114	372	E/K	Gaa/Aaa	.	.	.	-1	KLHL1	HGNC	6352	protein_coding	YES	CCDS9445.1	ENSP00000367075	KLHL1_HUMAN	Q96RF4_HUMAN	UPI000004B136	.	deleterious(0)	probably_damaging(0.999)	5/11	.	hmmpanther:PTHR24412:SF75,hmmpanther:PTHR24412,Pfam_domain:PF07707,SMART_domains:SM00875	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCATCAG	.	5	BLCA
TRAV8-7	0	.	GRCh37	14	22600798	22600798	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.143C>T	p.Pro48Leu	p.P48L	ENST00000390456	2/2	41	31	10	40	40	0	TRAV8-7,missense_variant,p.Pro48Leu,ENST00000390456,;	T	ENSG00000211808	ENST00000390456	Transcript	missense_variant	143	143	48	P/L	cCt/cTt	.	.	.	1	TRAV8-7	HGNC	12152	TR_V_gene	YES	.	ENSP00000450448	.	.	UPI00021CF0E2	.	tolerated(0.15)	benign(0.027)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19367,Pfam_domain:PF07686,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTCCTTCTC	.	5	BLCA
TGM1	0	.	GRCh37	14	24724456	24724456	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1649C>T	p.Ser550Leu	p.S550L	ENST00000206765	12/15	67	56	11	66	66	0	TGM1,missense_variant,p.Ser108Leu,ENST00000544573,;TGM1,missense_variant,p.Ser550Leu,ENST00000206765,;TGM1,downstream_gene_variant,,ENST00000559136,;TGM1,upstream_gene_variant,,ENST00000559669,;	A	ENSG00000092295	ENST00000206765	Transcript	missense_variant	1773	1649	550	S/L	tCa/tTa	.	.	.	-1	TGM1	HGNC	11777	protein_coding	YES	CCDS9622.1	ENSP00000206765	TGM1_HUMAN	H0YNM4_HUMAN,H0YN27_HUMAN,H0YMQ8_HUMAN,H0YLT9_HUMAN,H0YLJ6_HUMAN,H0YKI6_HUMAN,B4DWR7_HUMAN	UPI000000164D	.	deleterious(0)	probably_damaging(0.972)	12/15	.	Superfamily_domains:SSF54001,PIRSF_domain:PIRSF000459,Gene3D:1ex0A02,hmmpanther:PTHR11590:SF13,hmmpanther:PTHR11590	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTGAGCCT	.	5	BLCA
KLHDC2	0	.	GRCh37	14	50246473	50246473	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.722G>C	p.Arg241Thr	p.R241T	ENST00000298307	8/13	54	36	18	55	55	0	KLHDC2,missense_variant,p.Arg241Thr,ENST00000298307,;KLHDC2,missense_variant,p.Arg241Thr,ENST00000554589,;KLHDC2,missense_variant,p.Arg241Thr,ENST00000557247,;NEMF,downstream_gene_variant,,ENST00000382135,;NEMF,downstream_gene_variant,,ENST00000298310,;NEMF,downstream_gene_variant,,ENST00000546046,;NEMF,downstream_gene_variant,,ENST00000545773,;NEMF,downstream_gene_variant,,ENST00000556691,;KLHDC2,downstream_gene_variant,,ENST00000553538,;NEMF,downstream_gene_variant,,ENST00000556925,;KLHDC2,3_prime_UTR_variant,,ENST00000555443,;KLHDC2,3_prime_UTR_variant,,ENST00000555739,;KLHDC2,non_coding_transcript_exon_variant,,ENST00000556559,;KLHDC2,non_coding_transcript_exon_variant,,ENST00000557063,;KLHDC2,upstream_gene_variant,,ENST00000554115,;KLHDC2,downstream_gene_variant,,ENST00000553703,;NEMF,downstream_gene_variant,,ENST00000557193,;KLHDC2,upstream_gene_variant,,ENST00000553579,;NEMF,downstream_gene_variant,,ENST00000556074,;	C	ENSG00000165516	ENST00000298307	Transcript	missense_variant	1583	722	241	R/T	aGa/aCa	COSM416682	.	.	1	KLHDC2	HGNC	20231	protein_coding	YES	CCDS9693.1	ENSP00000298307	KLDC2_HUMAN	.	UPI00000372DF	.	deleterious(0.02)	probably_damaging(0.927)	8/13	.	hmmpanther:PTHR23244:SF261,hmmpanther:PTHR23244,Gene3D:1zgkA00,Pfam_domain:PF13418,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTAGAATGA	.	5	BLCA
NIN	0	.	GRCh37	14	51190225	51190225	+	3'Flank	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000382041	.	58	31	26	80	80	0	NIN,synonymous_variant,p.%3D,ENST00000245441,;NIN,synonymous_variant,p.%3D,ENST00000530997,;NIN,3_prime_UTR_variant,,ENST00000389868,;NIN,downstream_gene_variant,,ENST00000324330,;NIN,downstream_gene_variant,,ENST00000382041,;NIN,downstream_gene_variant,,ENST00000389869,;NIN,downstream_gene_variant,,ENST00000530853,;NIN,downstream_gene_variant,,ENST00000382043,;NIN,downstream_gene_variant,,ENST00000453196,;RP11-248J18.3,downstream_gene_variant,,ENST00000602615,;NIN,3_prime_UTR_variant,,ENST00000476352,;NIN,non_coding_transcript_exon_variant,,ENST00000555984,;NIN,downstream_gene_variant,,ENST00000485005,;	A	ENSG00000100503	ENST00000382041	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	2333	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCAGATTCC	.	5	BLCA
YLPM1	0	.	GRCh37	14	75269286	75269286	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4428G>A	p.Met1476Ile	p.M1476I	ENST00000325680	6/21	60	37	23	56	56	0	YLPM1,missense_variant,p.Met1476Ile,ENST00000325680,;YLPM1,missense_variant,p.Met1281Ile,ENST00000238571,;YLPM1,missense_variant,p.Met770Ile,ENST00000552421,;YLPM1,missense_variant,p.Met1029Ile,ENST00000549293,;	A	ENSG00000119596	ENST00000325680	Transcript	missense_variant	4552	4428	1476	M/I	atG/atA	.	.	.	1	YLPM1	HGNC	17798	protein_coding	YES	CCDS45135.1	ENSP00000324463	YLPM1_HUMAN	B4DMQ9_HUMAN	UPI00006C1433	.	.	benign(0.083)	6/21	.	hmmpanther:PTHR13413:SF0,hmmpanther:PTHR13413,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAAAGA	.	5	BLCA
FLRT2	0	.	GRCh37	14	86088025	86088025	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.167C>G	p.Ser56Ter	p.S56*	ENST00000330753	2/2	106	76	30	140	140	0	FLRT2,stop_gained,p.Ser56Ter,ENST00000330753,;FLRT2,stop_gained,p.Ser56Ter,ENST00000554746,;FLRT2,upstream_gene_variant,,ENST00000553650,;	G	ENSG00000185070	ENST00000330753	Transcript	stop_gained	934	167	56	S/*	tCa/tGa	.	.	.	1	FLRT2	HGNC	3761	protein_coding	YES	CCDS9877.1	ENSP00000332879	FLRT2_HUMAN	B4DM15_HUMAN	UPI0000049E10	.	.	.	2/2	.	SMART_domains:SM00013,Pfam_domain:PF01462,Gene3D:3.80.10.10,hmmpanther:PTHR24369,hmmpanther:PTHR24369:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCAGTGC	.	5	BLCA
GPR68	0	.	GRCh37	14	91701405	91701405	+	5'UTR	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11C>G	.	.	ENST00000531499	2/2	44	30	13	65	65	0	GPR68,stop_gained,p.Ser7Ter,ENST00000238699,;GPR68,5_prime_UTR_variant,,ENST00000535815,;GPR68,5_prime_UTR_variant,,ENST00000531499,;GPR68,5_prime_UTR_variant,,ENST00000529102,;GPR68,downstream_gene_variant,,ENST00000529300,;	C	ENSG00000119714	ENST00000531499	Transcript	5_prime_UTR_variant	330	.	.	.	.	.	.	.	-1	GPR68	HGNC	4519	protein_coding	YES	CCDS9894.2	ENSP00000434045	OGR1_HUMAN	E9PNU7_HUMAN	UPI000005042A	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAAGGG	.	4	BLCA
NDNL2	0	.	GRCh37	15	29561448	29561448	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.462C>T	p.%3D	p.L154L	ENST00000332303	1/1	32	28	3	43	43	0	NDNL2,synonymous_variant,p.%3D,ENST00000332303,;FAM189A1,intron_variant,,ENST00000261275,;FAM189A1,intron_variant,,ENST00000560082,;	A	ENSG00000185115	ENST00000332303	Transcript	synonymous_variant	586	462	154	L	ctC/ctT	.	.	.	-1	NDNL2	HGNC	7677	protein_coding	YES	CCDS10023.1	ENSP00000330694	MAGG1_HUMAN	.	UPI000004E578	.	.	.	1/1	.	PROSITE_profiles:PS50838,hmmpanther:PTHR11736:SF51,hmmpanther:PTHR11736,Pfam_domain:PF01454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGATGAGGAT	.	4	BLCA
KATNBL1	0	.	GRCh37	15	34445220	34445220	+	Missense_Mutation	SNP	T	T	C	rs375027107	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209A>G	p.Tyr70Cys	p.Y70C	ENST00000256544	4/10	137	126	11	152	152	0	KATNBL1,missense_variant,p.Tyr70Cys,ENST00000557877,;KATNBL1,missense_variant,p.Tyr11Cys,ENST00000561270,;KATNBL1,missense_variant,p.Tyr70Cys,ENST00000256544,;KATNBL1,missense_variant,p.Tyr70Cys,ENST00000559515,;KATNBL1,missense_variant,p.Tyr70Cys,ENST00000560108,;KATNBL1,5_prime_UTR_variant,,ENST00000559462,;KATNBL1,5_prime_UTR_variant,,ENST00000560310,;KATNBL1,upstream_gene_variant,,ENST00000559760,;KATNBL1,non_coding_transcript_exon_variant,,ENST00000558473,;KATNBL1,non_coding_transcript_exon_variant,,ENST00000560671,;KATNBL1,non_coding_transcript_exon_variant,,ENST00000540594,;KATNBL1,non_coding_transcript_exon_variant,,ENST00000560308,;KATNBL1,intron_variant,,ENST00000560247,;	C	ENSG00000134152	ENST00000256544	Transcript	missense_variant	352	209	70	Y/C	tAt/tGt	rs375027107	.	.	-1	KATNBL1	HGNC	26199	protein_coding	YES	CCDS10034.1	ENSP00000256544	KTBL1_HUMAN	H0YNW3_HUMAN,H0YNH1_HUMAN,H0YNG2_HUMAN,H0YNF7_HUMAN,H0YLP4_HUMAN,H0YKW3_HUMAN,B4DNG1_HUMAN,B4DEM0_HUMAN	UPI0000037DAE	.	tolerated(0.15)	benign(0.001)	4/10	.	hmmpanther:PTHR14682	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCGATAGATC	byFrequency|byCluster	3	BLCA
RMDN3	0	.	GRCh37	15	41037303	41037303	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.679C>T	p.%3D	p.L227L	ENST00000260385	4/12	39	34	5	50	50	0	RMDN3,synonymous_variant,p.%3D,ENST00000338376,;RMDN3,synonymous_variant,p.%3D,ENST00000560905,;RMDN3,synonymous_variant,p.%3D,ENST00000260385,;RMDN3,synonymous_variant,p.%3D,ENST00000558232,;RMDN3,intron_variant,,ENST00000560460,;RMDN3,non_coding_transcript_exon_variant,,ENST00000558364,;RMDN3,intron_variant,,ENST00000558560,;RMDN3,3_prime_UTR_variant,,ENST00000558777,;RMDN3,upstream_gene_variant,,ENST00000560779,;	A	ENSG00000137824	ENST00000260385	Transcript	synonymous_variant	1747	679	227	L	Ctg/Ttg	.	.	.	-1	RMDN3	HGNC	25550	protein_coding	YES	CCDS10063.1	ENSP00000260385	RMD3_HUMAN	H0YLG5_HUMAN	UPI0000037778	.	.	.	4/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16056,hmmpanther:PTHR16056:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCAGGGCAC	.	4	BLCA
MGA	0	.	GRCh37	15	42032370	42032370	+	Silent	SNP	G	G	C	rs756470715	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4554G>C	p.%3D	p.L1518L	ENST00000219905	14/24	38	26	12	39	39	0	MGA,synonymous_variant,p.%3D,ENST00000564190,;MGA,synonymous_variant,p.%3D,ENST00000219905,;MGA,synonymous_variant,p.%3D,ENST00000570161,;MGA,synonymous_variant,p.%3D,ENST00000545763,;MGA,synonymous_variant,p.%3D,ENST00000389936,;MGA,synonymous_variant,p.%3D,ENST00000566586,;	C	ENSG00000174197	ENST00000219905	Transcript	synonymous_variant	4735	4554	1518	L	ctG/ctC	rs756470715	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	.	.	14/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTGAAGGC	.	5	BLCA
WDR76	0	.	GRCh37	15	44120407	44120407	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305C>G	p.Ser102Cys	p.S102C	ENST00000263795	2/13	82	74	8	70	70	0	WDR76,missense_variant,p.Ser38Cys,ENST00000381246,;WDR76,missense_variant,p.Ser102Cys,ENST00000263795,;WDR76,missense_variant,p.Ser38Cys,ENST00000452115,;MFAP1,upstream_gene_variant,,ENST00000267812,;	G	ENSG00000092470	ENST00000263795	Transcript	missense_variant	375	305	102	S/C	tCt/tGt	.	.	.	1	WDR76	HGNC	25773	protein_coding	YES	CCDS10106.1	ENSP00000263795	WDR76_HUMAN	C9JE56_HUMAN	UPI000013D462	.	tolerated(0.06)	possibly_damaging(0.885)	2/13	.	hmmpanther:PTHR14773:SF0,hmmpanther:PTHR14773	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACATCTTCCA	.	4	BLCA
DTWD1	0	.	GRCh37	15	49924441	49924441	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.350A>C	p.Glu117Ala	p.E117A	ENST00000251250	4/6	60	56	4	61	61	0	DTWD1,missense_variant,p.Glu117Ala,ENST00000251250,;DTWD1,missense_variant,p.Glu117Ala,ENST00000558653,;DTWD1,missense_variant,p.Glu30Ala,ENST00000415425,;DTWD1,missense_variant,p.Glu117Ala,ENST00000559164,;DTWD1,missense_variant,p.Glu113Ala,ENST00000560632,;DTWD1,missense_variant,p.Glu117Ala,ENST00000403028,;DTWD1,downstream_gene_variant,,ENST00000559405,;DTWD1,non_coding_transcript_exon_variant,,ENST00000559223,;DTWD1,downstream_gene_variant,,ENST00000560735,;DTWD1,3_prime_UTR_variant,,ENST00000557988,;DTWD1,downstream_gene_variant,,ENST00000557968,;	C	ENSG00000104047	ENST00000251250	Transcript	missense_variant	557	350	117	E/A	gAa/gCa	.	.	.	1	DTWD1	HGNC	30926	protein_coding	YES	CCDS10132.1	ENSP00000251250	DTWD1_HUMAN	H0YK73_HUMAN	UPI000006DA3D	.	deleterious(0.02)	benign(0.202)	4/6	.	hmmpanther:PTHR15627:SF8,hmmpanther:PTHR15627,Pfam_domain:PF03942	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTGAATTTG	.	2	BLCA
MYO5C	0	.	GRCh37	15	52537586	52537586	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2143G>C	p.Glu715Gln	p.E715Q	ENST00000261839	18/41	151	127	23	149	148	0	MYO5C,missense_variant,p.Glu715Gln,ENST00000261839,;MYO5C,3_prime_UTR_variant,,ENST00000443683,;MYO5C,3_prime_UTR_variant,,ENST00000558902,;MYO5C,3_prime_UTR_variant,,ENST00000560809,;MYO5C,upstream_gene_variant,,ENST00000559434,;	G	ENSG00000128833	ENST00000261839	Transcript	missense_variant	2305	2143	715	E/Q	Gag/Cag	.	.	.	-1	MYO5C	HGNC	7604	protein_coding	YES	CCDS42036.1	ENSP00000261839	MYO5C_HUMAN	Q14783_HUMAN,H0YM93_HUMAN	UPI000013D20E	.	tolerated(1)	benign(0.014)	18/41	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF313,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTCCTTTT	.	4	BLCA
FAM63B	0	.	GRCh37	15	59144162	59144162	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1735C>T	p.Gln579Ter	p.Q579*	ENST00000559228	8/9	65	58	7	70	70	0	FAM63B,stop_gained,p.Gln579Ter,ENST00000559228,;FAM63B,stop_gained,p.Gln579Ter,ENST00000450403,;RP11-30K9.5,downstream_gene_variant,,ENST00000558042,;FAM63B,splice_region_variant,,ENST00000560289,;FAM63B,splice_region_variant,,ENST00000316848,;	T	ENSG00000128923	ENST00000559228	Transcript	stop_gained	1817	1735	579	Q/*	Cag/Tag	.	.	.	1	FAM63B	HGNC	26954	protein_coding	YES	CCDS42046.1	ENSP00000452885	FA63B_HUMAN	.	UPI0000D74C47	.	.	.	8/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18063:SF8,hmmpanther:PTHR18063	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTCAGGTA	.	2	BLCA
FAM96A	0	.	GRCh37	15	64385903	64385903	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.65C>T	p.Ser22Phe	p.S22F	ENST00000300030	1/5	46	40	5	54	54	0	FAM96A,missense_variant,p.Ser22Phe,ENST00000557835,;FAM96A,missense_variant,p.Ser22Phe,ENST00000300030,;FAM96A,missense_variant,p.Ser22Phe,ENST00000559950,;FAM96A,missense_variant,p.Ser22Phe,ENST00000380290,;SNX1,upstream_gene_variant,,ENST00000559844,;SNX1,upstream_gene_variant,,ENST00000560829,;SNX1,upstream_gene_variant,,ENST00000559061,;SNX1,upstream_gene_variant,,ENST00000353874,;SNX1,upstream_gene_variant,,ENST00000261889,;SNX1,upstream_gene_variant,,ENST00000561026,;SNX1,upstream_gene_variant,,ENST00000558040,;FAM96A,missense_variant,p.Ser22Phe,ENST00000559705,;SNX1,upstream_gene_variant,,ENST00000559389,;SNX1,upstream_gene_variant,,ENST00000560260,;SNX1,upstream_gene_variant,,ENST00000380285,;	A	ENSG00000166797	ENST00000300030	Transcript	missense_variant	315	65	22	S/F	tCt/tTt	.	.	.	-1	FAM96A	HGNC	26235	protein_coding	YES	CCDS10189.1	ENSP00000300030	FA96A_HUMAN	.	UPI0000137917	.	tolerated(0.14)	benign(0.002)	1/5	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCAGAGAGG	.	4	BLCA
DPP8	0	.	GRCh37	15	65744408	65744408	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2352G>C	p.Trp784Cys	p.W784C	ENST00000341861	18/20	110	99	11	121	121	0	DPP8,missense_variant,p.Trp353Cys,ENST00000558559,;DPP8,missense_variant,p.Trp668Cys,ENST00000358939,;DPP8,missense_variant,p.Trp733Cys,ENST00000321147,;DPP8,missense_variant,p.Trp784Cys,ENST00000341861,;DPP8,missense_variant,p.Trp784Cys,ENST00000559233,;DPP8,missense_variant,p.Trp197Cys,ENST00000558786,;DPP8,missense_variant,p.Trp735Cys,ENST00000321118,;DPP8,missense_variant,p.Trp768Cys,ENST00000300141,;DPP8,missense_variant,p.Trp611Cys,ENST00000339244,;DPP8,non_coding_transcript_exon_variant,,ENST00000560048,;DPP8,downstream_gene_variant,,ENST00000558363,;DPP8,3_prime_UTR_variant,,ENST00000395652,;DPP8,downstream_gene_variant,,ENST00000560597,;	G	ENSG00000074603	ENST00000341861	Transcript	missense_variant	3933	2352	784	W/C	tgG/tgC	COSM135677	.	.	-1	DPP8	HGNC	16490	protein_coding	YES	CCDS10207.1	ENSP00000339208	DPP8_HUMAN	H0YN53_HUMAN,H0YMV1_HUMAN	UPI00001BFAFE	.	deleterious(0)	probably_damaging(0.999)	18/20	.	hmmpanther:PTHR11731:SF98,hmmpanther:PTHR11731,Pfam_domain:PF00326,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGATCCACAG	.	4	BLCA
DNAH3	0	.	GRCh37	16	20999130	20999130	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6767G>C	p.Arg2256Thr	p.R2256T	ENST00000261383	46/62	63	59	4	64	64	0	DNAH3,missense_variant,p.Arg2256Thr,ENST00000261383,;DNAH3,3_prime_UTR_variant,,ENST00000415178,;	G	ENSG00000158486	ENST00000261383	Transcript	missense_variant	6767	6767	2256	R/T	aGa/aCa	.	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	deleterious(0.01)	benign(0.016)	46/62	.	Superfamily_domains:SSF52540,Pfam_domain:PF12775,hmmpanther:PTHR10676:SF242,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCTCTATAA	.	2	BLCA
SCNN1B	0	.	GRCh37	16	23364134	23364134	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324C>G	p.Ile108Met	p.I108M	ENST00000343070	3/13	75	58	16	80	80	0	SCNN1B,missense_variant,p.Ile153Met,ENST00000307331,;SCNN1B,missense_variant,p.Ile108Met,ENST00000568923,;SCNN1B,missense_variant,p.Ile108Met,ENST00000343070,;SCNN1B,missense_variant,p.Ile108Met,ENST00000568085,;SCNN1B,non_coding_transcript_exon_variant,,ENST00000569789,;SCNN1B,missense_variant,p.Ile108Met,ENST00000564275,;SCNN1B,non_coding_transcript_exon_variant,,ENST00000566870,;SCNN1B,upstream_gene_variant,,ENST00000566441,;	G	ENSG00000168447	ENST00000343070	Transcript	missense_variant	500	324	108	I/M	atC/atG	.	.	.	1	SCNN1B	HGNC	10600	protein_coding	YES	CCDS10609.1	ENSP00000345751	SCNNB_HUMAN	B2R812_HUMAN	UPI0000135616	.	tolerated(0.12)	benign(0.027)	3/13	.	hmmpanther:PTHR11690:SF18,hmmpanther:PTHR11690,TIGRFAM_domain:TIGR00859,Pfam_domain:PF00858	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCAAGCA	.	5	BLCA
SCNN1B	0	.	GRCh37	16	23364263	23364263	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453C>T	p.%3D	p.V151V	ENST00000343070	3/13	96	79	16	103	103	0	SCNN1B,synonymous_variant,p.%3D,ENST00000307331,;SCNN1B,synonymous_variant,p.%3D,ENST00000568923,;SCNN1B,synonymous_variant,p.%3D,ENST00000343070,;SCNN1B,synonymous_variant,p.%3D,ENST00000568085,;SCNN1B,downstream_gene_variant,,ENST00000569789,;SCNN1B,synonymous_variant,p.%3D,ENST00000564275,;SCNN1B,non_coding_transcript_exon_variant,,ENST00000566870,;SCNN1B,upstream_gene_variant,,ENST00000566441,;	T	ENSG00000168447	ENST00000343070	Transcript	synonymous_variant	629	453	151	V	gtC/gtT	.	.	.	1	SCNN1B	HGNC	10600	protein_coding	YES	CCDS10609.1	ENSP00000345751	SCNNB_HUMAN	B2R812_HUMAN	UPI0000135616	.	.	.	3/13	.	hmmpanther:PTHR11690:SF18,hmmpanther:PTHR11690,TIGRFAM_domain:TIGR00859,Pfam_domain:PF00858	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTCCTTAT	.	5	BLCA
SRRM2	0	.	GRCh37	16	2806578	2806578	+	Silent	SNP	C	C	G	rs758818767	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>G	p.%3D	p.L71L	ENST00000301740	2/15	49	40	8	109	109	0	SRRM2,synonymous_variant,p.%3D,ENST00000576924,;SRRM2,synonymous_variant,p.%3D,ENST00000574340,;SRRM2,synonymous_variant,p.%3D,ENST00000301740,;SRRM2,intron_variant,,ENST00000571378,;SRRM2,intron_variant,,ENST00000575009,;SRRM2,intron_variant,,ENST00000576415,;SRRM2-AS1,upstream_gene_variant,,ENST00000570677,;SRRM2-AS1,upstream_gene_variant,,ENST00000573802,;SRRM2,upstream_gene_variant,,ENST00000572278,;SRRM2,upstream_gene_variant,,ENST00000575870,;SRRM2,non_coding_transcript_exon_variant,,ENST00000575701,;SRRM2,non_coding_transcript_exon_variant,,ENST00000576894,;SRRM2,upstream_gene_variant,,ENST00000570655,;SRRM2,upstream_gene_variant,,ENST00000573451,;SRRM2,upstream_gene_variant,,ENST00000576076,;SRRM2,upstream_gene_variant,,ENST00000573498,;SRRM2,upstream_gene_variant,,ENST00000570971,;SRRM2,upstream_gene_variant,,ENST00000571372,;SRRM2,upstream_gene_variant,,ENST00000572952,;	G	ENSG00000167978	ENST00000301740	Transcript	synonymous_variant	762	213	71	L	ctC/ctG	rs758818767	.	.	1	SRRM2	HGNC	16639	protein_coding	YES	CCDS32373.1	ENSP00000301740	SRRM2_HUMAN	I3L4D8_HUMAN,I3L1I8_HUMAN,I3L1C0_HUMAN,I3L182_HUMAN,I3L0N7_HUMAN	UPI000049DDFC	.	.	.	2/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR32093:SF13,hmmpanther:PTHR32093,Pfam_domain:PF08312	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCGAGCT	.	5	BLCA
PPP4C	0	.	GRCh37	16	30095063	30095063	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565G>A	p.Asp189Asn	p.D189N	ENST00000279387	7/9	54	43	10	81	81	0	PPP4C,missense_variant,p.Asp155Asn,ENST00000562222,;PPP4C,missense_variant,p.Asp189Asn,ENST00000279387,;PPP4C,missense_variant,p.Asp155Asn,ENST00000562664,;PPP4C,missense_variant,p.Asp189Asn,ENST00000561610,;TBX6,downstream_gene_variant,,ENST00000395224,;TBX6,downstream_gene_variant,,ENST00000279386,;TBX6,downstream_gene_variant,,ENST00000553607,;PPP4C,3_prime_UTR_variant,,ENST00000563732,;PPP4C,3_prime_UTR_variant,,ENST00000566749,;PPP4C,3_prime_UTR_variant,,ENST00000563597,;PPP4C,non_coding_transcript_exon_variant,,ENST00000567040,;PPP4C,non_coding_transcript_exon_variant,,ENST00000563200,;PPP4C,downstream_gene_variant,,ENST00000567828,;PPP4C,downstream_gene_variant,,ENST00000564966,;PPP4C,downstream_gene_variant,,ENST00000568810,;TBX6,downstream_gene_variant,,ENST00000567664,;PPP4C,downstream_gene_variant,,ENST00000567642,;	A	ENSG00000149923	ENST00000279387	Transcript	missense_variant	733	565	189	D/N	Gat/Aat	.	.	.	1	PPP4C	HGNC	9319	protein_coding	YES	CCDS10669.1	ENSP00000279387	PP4C_HUMAN	.	UPI0000023591	.	deleterious(0.02)	possibly_damaging(0.9)	7/9	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF22,Pfam_domain:PF00149,Gene3D:3.60.21.10,SMART_domains:SM00156,Superfamily_domains:SSF56300,Prints_domain:PR00114	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATGATGGG	.	5	BLCA
ITGAD	0	.	GRCh37	16	31418942	31418942	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811G>T	p.Val271Phe	p.V271F	ENST00000389202	8/30	53	39	13	66	66	0	ITGAD,missense_variant,p.Val271Phe,ENST00000389202,;RP11-120K18.2,downstream_gene_variant,,ENST00000567545,;ITGAD,non_coding_transcript_exon_variant,,ENST00000444228,;	T	ENSG00000156886	ENST00000389202	Transcript	missense_variant	860	811	271	V/F	Gtc/Ttc	.	.	.	1	ITGAD	HGNC	6146	protein_coding	YES	CCDS32438.1	ENSP00000373854	ITAD_HUMAN	Q59H14_HUMAN	UPI000004B27A	.	deleterious(0)	probably_damaging(0.957)	8/30	.	Superfamily_domains:SSF53300,SMART_domains:SM00327,Pfam_domain:PF00092,hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF19,PROSITE_profiles:PS50234	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATGTCATC	.	5	BLCA
DNAJA3	0	.	GRCh37	16	4484461	4484461	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288G>C	p.Gln96His	p.Q96H	ENST00000262375	2/12	190	137	53	218	218	0	DNAJA3,missense_variant,p.Gln96His,ENST00000262375,;DNAJA3,missense_variant,p.Gln96His,ENST00000574895,;DNAJA3,missense_variant,p.Gln96His,ENST00000355296,;DNAJA3,intron_variant,,ENST00000431375,;DNAJA3,non_coding_transcript_exon_variant,,ENST00000572139,;DNAJA3,downstream_gene_variant,,ENST00000572974,;DNAJA3,missense_variant,p.Arg121Thr,ENST00000575106,;DNAJA3,non_coding_transcript_exon_variant,,ENST00000573120,;DNAJA3,non_coding_transcript_exon_variant,,ENST00000572009,;DNAJA3,intron_variant,,ENST00000570857,;DNAJA3,intron_variant,,ENST00000576911,;	C	ENSG00000103423	ENST00000262375	Transcript	missense_variant	365	288	96	Q/H	caG/caC	.	.	.	1	DNAJA3	HGNC	11808	protein_coding	YES	CCDS10515.1	ENSP00000262375	DNJA3_HUMAN	Q59E88_HUMAN,Q53G26_HUMAN	UPI0000043C38	.	deleterious(0)	probably_damaging(0.971)	2/12	.	HAMAP:MF_01152,PROSITE_profiles:PS50076,hmmpanther:PTHR24076:SF79,hmmpanther:PTHR24076,Gene3D:1.10.287.110,Pfam_domain:PF00226,SMART_domains:SM00271,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCAGATATT	.	5	BLCA
TANGO6	0	.	GRCh37	16	68877531	68877531	+	Missense_Mutation	SNP	G	G	A	rs760746324	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11G>A	p.Arg4Gln	p.R4Q	ENST00000261778	1/18	63	46	16	108	107	0	TANGO6,missense_variant,p.Arg4Gln,ENST00000261778,;TANGO6,non_coding_transcript_exon_variant,,ENST00000565037,;TANGO6,non_coding_transcript_exon_variant,,ENST00000564180,;	A	ENSG00000103047	ENST00000261778	Transcript	missense_variant	23	11	4	R/Q	cGa/cAa	rs760746324,COSM4141862	.	.	1	TANGO6	HGNC	25749	protein_coding	YES	CCDS45516.1	ENSP00000261778	TNG6_HUMAN	B3KTB6_HUMAN	UPI00001FF4A8	.	tolerated_low_confidence(0.6)	benign(0.019)	1/18	.	hmmpanther:PTHR20959:SF1,hmmpanther:PTHR20959	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCGACAGG	byFrequency	5	BLCA
MARVELD3	0	.	GRCh37	16	71668455	71668455	+	Intron	SNP	C	C	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595+5058C>A	.	.	ENST00000299952	.	44	38	6	54	54	0	MARVELD3,missense_variant,p.Pro319Thr,ENST00000268485,;MARVELD3,intron_variant,,ENST00000299952,;MARVELD3,intron_variant,,ENST00000565261,;MARVELD3,downstream_gene_variant,,ENST00000567501,;MARVELD3,downstream_gene_variant,,ENST00000567566,;PHLPP2,downstream_gene_variant,,ENST00000540628,;MARVELD3,upstream_gene_variant,,ENST00000561682,;PHLPP2,downstream_gene_variant,,ENST00000568004,;PHLPP2,downstream_gene_variant,,ENST00000564884,;	A	ENSG00000140832	ENST00000299952	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MARVELD3	HGNC	30525	protein_coding	YES	CCDS32478.1	ENSP00000299952	MALD3_HUMAN	.	UPI000013E601	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACATCCCGGCC	.	3	BLCA
CLEC18B	0	.	GRCh37	16	74452041	74452041	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372C>T	p.%3D	p.V124V	ENST00000339953	3/13	55	41	13	75	75	0	CLEC18B,synonymous_variant,p.%3D,ENST00000339953,;RP11-252A24.5,upstream_gene_variant,,ENST00000566506,;RP11-252A24.5,upstream_gene_variant,,ENST00000567148,;CLEC18B,intron_variant,,ENST00000425714,;	A	ENSG00000140839	ENST00000339953	Transcript	synonymous_variant	494	372	124	V	gtC/gtT	.	.	.	-1	CLEC18B	HGNC	33849	protein_coding	YES	CCDS32484.1	ENSP00000341051	CL18B_HUMAN	.	UPI000025210E	.	.	.	3/13	.	Prints_domain:PR00837,Superfamily_domains:SSF55797,SMART_domains:SM00198,Gene3D:3.40.33.10,Pfam_domain:PF00188,hmmpanther:PTHR10334:SF180,hmmpanther:PTHR10334	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGCTGACCAC	.	3	BLCA
WDR59	0	.	GRCh37	16	74921614	74921614	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2386G>A	p.Asp796Asn	p.D796N	ENST00000262144	23/26	32	28	4	37	37	0	WDR59,missense_variant,p.Asp796Asn,ENST00000262144,;WDR59,missense_variant,p.Asp111Asn,ENST00000563797,;WDR59,downstream_gene_variant,,ENST00000569229,;WDR59,downstream_gene_variant,,ENST00000569788,;WDR59,upstream_gene_variant,,ENST00000569968,;WDR59,downstream_gene_variant,,ENST00000566924,;WDR59,downstream_gene_variant,,ENST00000567018,;WDR59,downstream_gene_variant,,ENST00000563381,;WDR59,upstream_gene_variant,,ENST00000569183,;	T	ENSG00000103091	ENST00000262144	Transcript	missense_variant	2517	2386	796	D/N	Gac/Aac	.	.	.	-1	WDR59	HGNC	25706	protein_coding	YES	CCDS32488.1	ENSP00000262144	WDR59_HUMAN	H3BUE9_HUMAN,H3BR95_HUMAN	UPI000019839C	.	deleterious(0.03)	probably_damaging(0.917)	23/26	.	hmmpanther:PTHR22850,hmmpanther:PTHR22850:SF96	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGTCTGACA	.	4	BLCA
MYH3	0	.	GRCh37	17	10532938	10532938	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5772G>T	p.Lys1924Asn	p.K1924N	ENST00000583535	40/41	40	23	17	59	59	0	MYH3,missense_variant,p.Lys1924Asn,ENST00000583535,;MYH3,missense_variant,p.Lys1924Asn,ENST00000226209,;MYH3,non_coding_transcript_exon_variant,,ENST00000577963,;MYH3,non_coding_transcript_exon_variant,,ENST00000579928,;	A	ENSG00000109063	ENST00000583535	Transcript	missense_variant	5860	5772	1924	K/N	aaG/aaT	.	.	.	-1	MYH3	HGNC	7573	protein_coding	YES	CCDS11157.1	ENSP00000464317	MYH3_HUMAN	.	UPI000013C892	.	deleterious(0)	probably_damaging(0.995)	40/41	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF297,Pfam_domain:PF01576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAGTCTTAGC	.	5	BLCA
CCDC144A	0	.	GRCh37	17	16664976	16664976	+	Missense_Mutation	SNP	G	G	C	rs771361779	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3610G>C	p.Glu1204Gln	p.E1204Q	ENST00000443444	13/27	94	75	19	95	95	0	CCDC144A,missense_variant,p.Glu1204Gln,ENST00000443444,;CCDC144A,missense_variant,p.Glu1204Gln,ENST00000360524,;CCDC144A,missense_variant,p.Glu970Gln,ENST00000456009,;CCDC144A,missense_variant,p.Glu1204Gln,ENST00000399273,;RP11-219A15.1,missense_variant,p.Glu1204Gln,ENST00000448331,;CCDC144A,3_prime_UTR_variant,,ENST00000360495,;CCDC144A,non_coding_transcript_exon_variant,,ENST00000470068,;CCDC144A,non_coding_transcript_exon_variant,,ENST00000328495,;	C	ENSG00000170160	ENST00000443444	Transcript	missense_variant	3750	3610	1204	E/Q	Gaa/Caa	rs771361779	.	.	1	CCDC144A	HGNC	29072	protein_coding	YES	CCDS45621.1	ENSP00000439262	C144A_HUMAN	.	UPI0000F095D0	.	deleterious(0.02)	benign(0.375)	13/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22245,hmmpanther:PTHR22245:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TTGAAGAAAGA	.	3	BLCA
MYO15A	0	.	GRCh37	17	18023369	18023369	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1255C>T	p.Pro419Ser	p.P419S	ENST00000205890	2/66	54	39	14	59	59	0	MYO15A,missense_variant,p.Pro419Ser,ENST00000205890,;MYO15A,non_coding_transcript_exon_variant,,ENST00000583079,;	T	ENSG00000091536	ENST00000205890	Transcript	missense_variant	1593	1255	419	P/S	Ccg/Tcg	.	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	benign(0.001)	2/66	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATCCCGTCG	.	5	BLCA
MYO15A	0	.	GRCh37	17	18039129	18039129	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4587C>G	p.Phe1529Leu	p.F1529L	ENST00000205890	13/66	21	17	4	23	23	0	MYO15A,missense_variant,p.Phe1529Leu,ENST00000205890,;MYO15A,upstream_gene_variant,,ENST00000412324,;	G	ENSG00000091536	ENST00000205890	Transcript	missense_variant	4925	4587	1529	F/L	ttC/ttG	.	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	unknown(0)	13/66	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,Pfam_domain:PF00063,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF351,PROSITE_profiles:PS51456	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCTTCAAAGT	.	3	BLCA
ERBB2	0	.	GRCh37	17	37866063	37866063	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.575-3C>T	.	.	ENST00000269571	.	41	27	14	41	41	0	ERBB2,splice_region_variant,,ENST00000584450,;ERBB2,splice_region_variant,,ENST00000540042,;ERBB2,splice_region_variant,,ENST00000541774,;ERBB2,splice_region_variant,,ENST00000578199,;ERBB2,splice_region_variant,,ENST00000269571,;ERBB2,splice_region_variant,,ENST00000406381,;ERBB2,splice_region_variant,,ENST00000540147,;ERBB2,splice_region_variant,,ENST00000584601,;ERBB2,intron_variant,,ENST00000445658,;ERBB2,downstream_gene_variant,,ENST00000578709,;ERBB2,upstream_gene_variant,,ENST00000578502,;ERBB2,downstream_gene_variant,,ENST00000584099,;ERBB2,splice_region_variant,,ENST00000584908,;ERBB2,splice_region_variant,,ENST00000583038,;ERBB2,splice_region_variant,,ENST00000583391,;ERBB2,splice_region_variant,,ENST00000578373,;ERBB2,intron_variant,,ENST00000582648,;ERBB2,intron_variant,,ENST00000582788,;	T	ENSG00000141736	ENST00000269571	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	.	.	.	4/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCAGGCC	.	4	BLCA
ERBB2	0	.	GRCh37	17	37868208	37868208	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929C>A	p.Ser310Tyr	p.S310Y	ENST00000269571	8/27	268	186	81	294	293	0	ERBB2,missense_variant,p.Ser310Tyr,ENST00000584450,;ERBB2,missense_variant,p.Ser280Tyr,ENST00000540042,;ERBB2,missense_variant,p.Ser52Tyr,ENST00000578502,;ERBB2,missense_variant,p.Ser295Tyr,ENST00000541774,;ERBB2,missense_variant,p.Ser34Tyr,ENST00000445658,;ERBB2,missense_variant,p.Ser280Tyr,ENST00000578199,;ERBB2,missense_variant,p.Ser310Tyr,ENST00000269571,;ERBB2,missense_variant,p.Ser280Tyr,ENST00000406381,;ERBB2,missense_variant,p.Ser280Tyr,ENST00000540147,;ERBB2,missense_variant,p.Ser280Tyr,ENST00000584601,;ERBB2,downstream_gene_variant,,ENST00000578709,;ERBB2,upstream_gene_variant,,ENST00000582818,;ERBB2,downstream_gene_variant,,ENST00000584099,;ERBB2,missense_variant,p.Pro85Thr,ENST00000582648,;ERBB2,3_prime_UTR_variant,,ENST00000578373,;ERBB2,non_coding_transcript_exon_variant,,ENST00000584908,;ERBB2,non_coding_transcript_exon_variant,,ENST00000583038,;ERBB2,non_coding_transcript_exon_variant,,ENST00000582788,;ERBB2,downstream_gene_variant,,ENST00000583391,;	A	ENSG00000141736	ENST00000269571	Transcript	missense_variant	1088	929	310	S/Y	tCc/tAc	COSM48358,COSM94225	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	deleterious(0)	probably_damaging(0.996)	8/27	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF137,Pfam_domain:PF00757,Gene3D:2.10.220.10,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S310Y|c.929C>A|4,CODON|p.S310F|c.929C>T|24	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGATCCTGCA	.	5	BLCA
ACLY	0	.	GRCh37	17	40070025	40070025	+	Silent	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.102C>G	p.%3D	p.V34V	ENST00000352035	2/29	128	120	8	130	130	0	ACLY,synonymous_variant,p.%3D,ENST00000590151,;ACLY,synonymous_variant,p.%3D,ENST00000537919,;ACLY,synonymous_variant,p.%3D,ENST00000592970,;ACLY,synonymous_variant,p.%3D,ENST00000353196,;ACLY,synonymous_variant,p.%3D,ENST00000352035,;ACLY,synonymous_variant,p.%3D,ENST00000393896,;ACLY,intron_variant,,ENST00000590770,;ACLY,intron_variant,,ENST00000590735,;	C	ENSG00000131473	ENST00000352035	Transcript	synonymous_variant	233	102	34	V	gtC/gtG	.	.	.	-1	ACLY	HGNC	115	protein_coding	YES	CCDS11412.1	ENSP00000253792	ACLY_HUMAN	Q4LE36_HUMAN,K7ESG8_HUMAN,K7EIE7_HUMAN	UPI000013CDF3	.	.	.	2/29	.	Superfamily_domains:SSF56059,PIRSF_domain:PIRSF036511,hmmpanther:PTHR23118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAGTGACCCG	.	2	BLCA
NMT1	0	.	GRCh37	17	43182233	43182233	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1341delT	p.Phe447LeufsTer23	p.F447Lfs*23	ENST00000592782	12/13	54	47	7	65	65	0	NMT1,frameshift_variant,p.Phe447LeufsTer23,ENST00000592782,;NMT1,frameshift_variant,p.Phe447LeufsTer23,ENST00000258960,;NMT1,upstream_gene_variant,,ENST00000587670,;NMT1,upstream_gene_variant,,ENST00000587120,;PLCD3,downstream_gene_variant,,ENST00000540511,;NMT1,non_coding_transcript_exon_variant,,ENST00000591931,;NMT1,downstream_gene_variant,,ENST00000587014,;	-	ENSG00000136448	ENST00000592782	Transcript	frameshift_variant	1470	1339	447	F/X	Ttt/tt	.	.	.	1	NMT1	HGNC	7857	protein_coding	YES	CCDS11494.1	ENSP00000468424	NMT1_HUMAN	Q9Y465_HUMAN,Q96HI4_HUMAN,K7EN82_HUMAN	UPI0000130275	.	.	.	12/13	.	hmmpanther:PTHR11377,hmmpanther:PTHR11377:SF7,Gene3D:3.40.630.30,Pfam_domain:PF02799,PIRSF_domain:PIRSF015892,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAAGGGTTTGAT	.	3	BLCA
HEXIM2	0	.	GRCh37	17	43246705	43246705	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.390G>C	p.Glu130Asp	p.E130D	ENST00000307275	4/4	30	25	5	37	37	0	HEXIM2,missense_variant,p.Glu130Asp,ENST00000586681,;HEXIM2,missense_variant,p.Glu130Asp,ENST00000589230,;HEXIM2,missense_variant,p.Glu130Asp,ENST00000591576,;HEXIM2,missense_variant,p.Glu152Asp,ENST00000585340,;HEXIM2,missense_variant,p.Glu130Asp,ENST00000307275,;HEXIM2,missense_variant,p.Glu130Asp,ENST00000592695,;HEXIM2,downstream_gene_variant,,ENST00000591070,;HEXIM2,downstream_gene_variant,,ENST00000593138,;RP13-890H12.2,non_coding_transcript_exon_variant,,ENST00000589796,;RP13-890H12.2,downstream_gene_variant,,ENST00000589451,;	C	ENSG00000168517	ENST00000307275	Transcript	missense_variant	826	390	130	E/D	gaG/gaC	.	.	.	1	HEXIM2	HGNC	28591	protein_coding	YES	CCDS11496.1	ENSP00000302276	HEXI2_HUMAN	K7ESM2_HUMAN,K7ELS4_HUMAN,K7EJA3_HUMAN,K7EIM4_HUMAN	UPI00000730EA	.	deleterious(0)	benign(0.261)	4/4	.	Pfam_domain:PF15313,hmmpanther:PTHR13469,hmmpanther:PTHR13469:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGAGATGTT	.	5	BLCA
METTL2A	0	.	GRCh37	17	60503793	60503793	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.336G>C	p.Leu112Phe	p.L112F	ENST00000311506	3/9	92	80	11	68	68	0	METTL2A,missense_variant,p.Leu112Phe,ENST00000311506,;METTL2A,non_coding_transcript_exon_variant,,ENST00000333483,;	C	ENSG00000087995	ENST00000311506	Transcript	missense_variant	372	336	112	L/F	ttG/ttC	COSM377511	.	.	1	METTL2A	HGNC	25755	protein_coding	YES	CCDS45752.1	ENSP00000309610	MET2A_HUMAN	B3KM33_HUMAN	UPI0000201189	.	tolerated(0.07)	benign(0.005)	3/9	.	hmmpanther:PTHR22809,hmmpanther:PTHR22809:SF4,PIRSF_domain:PIRSF037755	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATTTGAAGGA	.	4	BLCA
TLK2	0	.	GRCh37	17	60650687	60650687	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1080G>C	p.Gln360His	p.Q360H	ENST00000346027	12/22	31	23	7	44	44	0	TLK2,missense_variant,p.Gln151His,ENST00000578697,;TLK2,missense_variant,p.Gln296His,ENST00000581041,;TLK2,missense_variant,p.Gln328His,ENST00000343388,;TLK2,missense_variant,p.Gln211His,ENST00000582809,;TLK2,missense_variant,p.Gln328His,ENST00000542523,;TLK2,missense_variant,p.Gln360His,ENST00000346027,;TLK2,missense_variant,p.Gln360His,ENST00000326270,;TLK2,non_coding_transcript_exon_variant,,ENST00000584367,;	C	ENSG00000146872	ENST00000346027	Transcript	missense_variant	1351	1080	360	Q/H	caG/caC	.	.	.	1	TLK2	HGNC	11842	protein_coding	YES	CCDS11633.1	ENSP00000275780	TLK2_HUMAN	J3QS73_HUMAN,J3QQN4_HUMAN,J3QLK5_HUMAN,J3KST4_HUMAN	UPI00001B6B0F	.	tolerated(0.11)	benign(0.028)	12/22	.	hmmpanther:PTHR22974:SF20,hmmpanther:PTHR22974	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCAGAAACA	.	5	BLCA
ABCA6	0	.	GRCh37	17	67119420	67119420	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1396G>C	p.Glu466Gln	p.E466Q	ENST00000284425	10/39	74	68	6	64	64	0	ABCA6,missense_variant,p.Glu466Gln,ENST00000284425,;	G	ENSG00000154262	ENST00000284425	Transcript	missense_variant	1571	1396	466	E/Q	Gaa/Caa	.	.	.	-1	ABCA6	HGNC	36	protein_coding	YES	CCDS11683.1	ENSP00000284425	ABCA6_HUMAN	.	UPI000013DD9D	.	deleterious(0)	possibly_damaging(0.82)	10/39	.	hmmpanther:PTHR19229:SF13,hmmpanther:PTHR19229,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGTTCAAAAT	.	3	BLCA
ABCA10	0	.	GRCh37	17	67144894	67144894	+	3'UTR	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*74C>T	.	.	ENST00000269081	40/40	20	16	3	23	23	0	ABCA10,3_prime_UTR_variant,,ENST00000416101,;ABCA10,3_prime_UTR_variant,,ENST00000269081,;ABCA10,intron_variant,,ENST00000522787,;ABCA10,intron_variant,,ENST00000521538,;ABCA10,non_coding_transcript_exon_variant,,ENST00000519732,;ABCA10,3_prime_UTR_variant,,ENST00000523419,;ABCA10,3_prime_UTR_variant,,ENST00000522406,;ABCA10,3_prime_UTR_variant,,ENST00000518929,;ABCA10,non_coding_transcript_exon_variant,,ENST00000524231,;ABCA10,non_coding_transcript_exon_variant,,ENST00000588514,;	A	ENSG00000154263	ENST00000269081	Transcript	3_prime_UTR_variant	5616	.	.	.	.	.	.	.	-1	ABCA10	HGNC	30	protein_coding	YES	CCDS11684.1	ENSP00000269081	ABCAA_HUMAN	K7ERP5_HUMAN	UPI000013D7F6	.	.	.	40/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAAGGAAACA	.	3	BLCA
RECQL5	0	.	GRCh37	17	73647280	73647280	+	Silent	SNP	G	G	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1215C>T	p.%3D	p.F405F	ENST00000317905	8/20	608	394	214	606	606	0	RECQL5,synonymous_variant,p.%3D,ENST00000578201,;RECQL5,synonymous_variant,p.%3D,ENST00000584999,;RECQL5,synonymous_variant,p.%3D,ENST00000420326,;RECQL5,synonymous_variant,p.%3D,ENST00000423245,;RECQL5,synonymous_variant,p.%3D,ENST00000317905,;RECQL5,synonymous_variant,p.%3D,ENST00000340830,;RECQL5,3_prime_UTR_variant,,ENST00000580078,;SMIM6,downstream_gene_variant,,ENST00000556126,;SMIM6,downstream_gene_variant,,ENST00000579469,;RECQL5,downstream_gene_variant,,ENST00000579274,;RECQL5,synonymous_variant,p.%3D,ENST00000582464,;	A	ENSG00000108469	ENST00000317905	Transcript	synonymous_variant	1375	1215	405	F	ttC/ttT	COSM1480010	.	.	-1	RECQL5	HGNC	9950	protein_coding	YES	CCDS42380.1	ENSP00000317636	RECQ5_HUMAN	Q9BW80_HUMAN,Q9BSD6_HUMAN,J3QLU0_HUMAN,J3KTQ2_HUMAN	UPI0000133477	.	.	.	8/20	.	hmmpanther:PTHR13710:SF81,hmmpanther:PTHR13710,TIGRFAM_domain:TIGR00614,Gene3D:1.10.10.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGAAGGT	.	5	BLCA
FBF1	0	.	GRCh37	17	73917570	73917570	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1553G>C	p.Gly518Ala	p.G518A	ENST00000319129	15/29	23	20	3	17	17	0	FBF1,missense_variant,p.Gly518Ala,ENST00000319129,;FBF1,missense_variant,p.Gly533Ala,ENST00000592193,;FBF1,missense_variant,p.Gly519Ala,ENST00000389570,;FBF1,missense_variant,p.Gly519Ala,ENST00000586717,;FBF1,3_prime_UTR_variant,,ENST00000586838,;FBF1,non_coding_transcript_exon_variant,,ENST00000585990,;RP11-552F3.12,non_coding_transcript_exon_variant,,ENST00000593156,;FBF1,upstream_gene_variant,,ENST00000588283,;	G	ENSG00000188878	ENST00000319129	Transcript	missense_variant	1827	1553	518	G/A	gGa/gCa	.	.	.	-1	FBF1	HGNC	24674	protein_coding	YES	CCDS45779.1	ENSP00000324292	FBF1_HUMAN	K7ESG2_HUMAN	UPI0000DD841F	.	tolerated(0.13)	benign(0.011)	15/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCTCCAGGG	.	2	BLCA
TP53	0	.	GRCh37	17	7578392	7578392	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>T	p.Glu180Ter	p.E180*	ENST00000269305	5/11	55	39	15	48	48	0	TP53,stop_gained,p.Glu180Ter,ENST00000413465,;TP53,stop_gained,p.Glu180Ter,ENST00000420246,;TP53,stop_gained,p.Glu180Ter,ENST00000269305,;TP53,stop_gained,p.Glu48Ter,ENST00000509690,;TP53,stop_gained,p.Glu180Ter,ENST00000359597,;TP53,stop_gained,p.Glu87Ter,ENST00000514944,;TP53,stop_gained,p.Glu180Ter,ENST00000445888,;TP53,stop_gained,p.Glu180Ter,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,non_coding_transcript_exon_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;	A	ENSG00000141510	ENST00000269305	Transcript	stop_gained	728	538	180	E/*	Gag/Tag	CM941328,TP53_g.12526G>C,TP53_g.12526G>T,TP53_g.12526G>A,COSM43597,COSM43772,COSM45705,COSM1522501,COSM1522502,COSM1522504,COSM1522503	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	5/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	0,0,0,0,1,1,1,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,0,0,0,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E180*|c.538G>T|14,CODON|p.0?|c.1_1182del1182|6,CODON|p.P177_C182delPHHERC|c.529_546del18|9,CODON|p.P177_C182delPHHERC|c.526_543del18|3,CODON|p.E180D|c.540G>T|5,CODON|p.E48D|c.144G>T|3,CODON|p.E87D|c.261G>T|3,CODON|p.E180D|c.540G>T|3,CODON|p.E180D|c.540G>T|3,BUFFER|p.S51*|c.152C>G|5,BUFFER|p.S183*|c.548C>A|6,BUFFER|p.S183*|c.548C>G|25,BUFFER|p.S183*|c.548C>G|4,BUFFER|p.S183*|c.548C>G|3,BUFFER|p.S183*|c.548C>G|4,BUFFER|p.S90*|c.269C>G|4,BUFFER|p.S183P|c.547T>C|3,BUFFER|p.C182*|c.546C>A|5,BUFFER|p.C182S|c.544T>A|7,BUFFER|p.R181H|c.542G>A|24,BUFFER|p.R88H|c.263G>A|3,BUFFER|p.R49H|c.146G>A|3,BUFFER|p.R181P|c.542G>C|12,BUFFER|p.R181H|c.542G>A|3,BUFFER|p.R181H|c.542G>A|3,BUFFER|p.R181L|c.542G>T|3,BUFFER|p.R181C|c.541C>T|6,BUFFER|p.R88C|c.262C>T|6,BUFFER|p.R49C|c.145C>T|6,BUFFER|p.R181C|c.541C>T|4,BUFFER|p.R181C|c.541C>T|20,BUFFER|p.R181C|c.541C>T|6,BUFFER|p.E180K|c.538G>A|6,BUFFER|p.H179Q|c.537T>A|7,BUFFER|p.H179Q|c.537T>A|16,BUFFER|p.H179Q|c.537T>A|7,BUFFER|p.H179Q|c.537T>A|5,BUFFER|p.H86Q|c.258T>A|7,BUFFER|p.H47Q|c.141T>A|7,BUFFER|p.H179Q|c.537T>G|9,BUFFER|p.H179R|c.536A>G|17,BUFFER|p.H179L|c.536A>T|40,BUFFER|p.H47R|c.140A>G|31,BUFFER|p.H86R|c.257A>G|30,BUFFER|p.H179L|c.536A>T|4,BUFFER|p.H179R|c.536A>G|136,BUFFER|p.H179L|c.536A>T|7,BUFFER|p.H179R|c.536A>G|30,BUFFER|p.H179L|c.536A>T|7,BUFFER|p.H47L|c.140A>T|9,BUFFER|p.H179P|c.536A>C|5,BUFFER|p.H179R|c.536A>G|21,BUFFER|p.H86L|c.257A>T|7,BUFFER|p.H179R|c.536A>G|30,BUFFER|p.H179Y|c.534_535CC>TT|8,BUFFER|p.H179D|c.535C>G|12,BUFFER|p.H179Y|c.535C>T|4,BUFFER|p.H47Y|c.139C>T|15,BUFFER|p.H179Y|c.535C>T|5,BUFFER|p.H179Y|c.535C>T|88,BUFFER|p.H179N|c.535C>A|15,BUFFER|p.H179Y|c.535C>T|14,BUFFER|p.H179Y|c.535C>T|14,BUFFER|p.H86Y|c.256C>T|14,BUFFER|p.H178Q|c.534C>A|5,BUFFER|p.H178fs*69|c.532delC|10,BUFFER|p.H178P|c.533A>C|7,BUFFER|p.H178D|c.532C>G|5,BUFFER|p.H178N|c.532C>A|3,BUFFER|p.H178Y|c.532C>T|7,BUFFER|p.P177P|c.531C>T|7,BUFFER|p.P177R|c.530C>G|3,BUFFER|p.P177L|c.530C>T|20,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P177R|c.530C>G|18,BUFFER|p.P177R|c.530C>G|3,BUFFER|p.P84L|c.251C>T|4,BUFFER|p.P45L|c.134C>T|4,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P177L|c.530C>T|3,BUFFER|p.P45R|c.134C>G|3,BUFFER|p.P177L|c.530C>T|4,BUFFER|p.P84R|c.251C>G|3,BUFFER|p.H178fs*69|c.528delC|3,BUFFER|p.P177S|c.529C>T|10,BUFFER|p.C176*|c.528C>A|3,BUFFER|p.C44*|c.132C>A|3,BUFFER|p.C176*|c.528C>A|11,BUFFER|p.C176W|c.528C>G|12,BUFFER|p.C83*|c.249C>A|3,BUFFER|p.C176*|c.528C>A|3,BUFFER|p.C176fs*71|c.526delT|7,BUFFER|p.C176F|c.527G>T|33,BUFFER|p.C44Y|c.131G>A|20,BUFFER|p.C176F|c.527G>T|133,BUFFER|p.C176Y|c.527G>A|73,BUFFER|p.C176F|c.527G>T|11,BUFFER|p.C176Y|c.527G>A|19,BUFFER|p.C176F|c.527G>T|33,BUFFER|p.C83Y|c.248G>A|19,BUFFER|p.C176Y|c.527G>A|19,BUFFER|p.C176S|c.527G>C|9,BUFFER|p.C83F|c.248G>T|33,BUFFER|p.C176Y|c.527G>A|11,BUFFER|p.C176Y|c.527G>A|9,BUFFER|p.C44F|c.131G>T|34,BUFFER|p.C176F|c.527G>T|17	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCATGGT	.	5	BLCA
RNF213	0	.	GRCh37	17	78320894	78320894	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8759C>G	p.Ser2920Ter	p.S2920*	ENST00000582970	29/68	28	17	10	30	30	0	RNF213,stop_gained,p.Ser2920Ter,ENST00000582970,;RNF213,stop_gained,p.Ser993Ter,ENST00000336301,;RNF213,stop_gained,p.Ser2969Ter,ENST00000508628,;CTD-2047H16.4,downstream_gene_variant,,ENST00000575034,;	G	ENSG00000173821	ENST00000582970	Transcript	stop_gained	8902	8759	2920	S/*	tCa/tGa	.	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	.	29/68	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,hmmpanther:PTHR22605,hmmpanther:PTHR22605:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGACA	.	5	BLCA
CCBE1	0	.	GRCh37	18	57103273	57103273	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088C>G	p.Ser363Cys	p.S363C	ENST00000439986	11/11	148	102	45	146	146	0	CCBE1,missense_variant,p.Ser92Cys,ENST00000398179,;CCBE1,missense_variant,p.Ser363Cys,ENST00000439986,;CCBE1,non_coding_transcript_exon_variant,,ENST00000589116,;	C	ENSG00000183287	ENST00000439986	Transcript	missense_variant	1126	1088	363	S/C	tCt/tGt	.	.	.	-1	CCBE1	HGNC	29426	protein_coding	YES	CCDS32838.1	ENSP00000404464	CCBE1_HUMAN	K7EQ81_HUMAN	UPI000004C616	.	deleterious_low_confidence(0.01)	probably_damaging(0.948)	11/11	.	hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAGTGA	.	5	BLCA
CDH7	0	.	GRCh37	18	63530185	63530185	+	Intron	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1864+32G>A	.	.	ENST00000397968	.	27	18	9	46	46	0	CDH7,3_prime_UTR_variant,,ENST00000536984,;CDH7,intron_variant,,ENST00000397968,;CDH7,intron_variant,,ENST00000323011,;RP11-389J22.1,upstream_gene_variant,,ENST00000581987,;	A	ENSG00000081138	ENST00000397968	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CDH7	HGNC	1766	protein_coding	YES	CCDS11993.1	ENSP00000381058	CADH7_HUMAN	.	UPI000013D269	.	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAAGAGCTG	.	5	BLCA
PTPRM	0	.	GRCh37	18	8076560	8076560	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1549G>A	p.Glu517Lys	p.E517K	ENST00000580170	9/33	37	31	6	42	42	0	PTPRM,missense_variant,p.Glu517Lys,ENST00000332175,;PTPRM,missense_variant,p.Glu304Lys,ENST00000444013,;PTPRM,missense_variant,p.Glu455Lys,ENST00000400053,;PTPRM,missense_variant,p.Glu517Lys,ENST00000400060,;PTPRM,missense_variant,p.Glu517Lys,ENST00000580170,;PTPRM,splice_region_variant,,ENST00000578571,;PTPRM,non_coding_transcript_exon_variant,,ENST00000578698,;	A	ENSG00000173482	ENST00000580170	Transcript	missense_variant	2586	1549	517	E/K	Gag/Aag	COSM344663	.	.	1	PTPRM	HGNC	9675	protein_coding	YES	CCDS58613.1	ENSP00000463325	PTPRM_HUMAN	Q49AC9_HUMAN	UPI00015CFC03	.	tolerated(0.06)	possibly_damaging(0.757)	9/33	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Gene3D:2.60.40.10,Pfam_domain:PF00041,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF206,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATATGAGGTA	.	2	BLCA
ZNF20	0	.	GRCh37	19	12243277	12243277	+	3'UTR	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*125C>T	.	.	ENST00000334213	4/4	12	7	5	10	10	0	ZNF20,3_prime_UTR_variant,,ENST00000334213,;ZNF20,intron_variant,,ENST00000600335,;ZNF20,downstream_gene_variant,,ENST00000418866,;ZNF20,intron_variant,,ENST00000480770,;ZNF788,intron_variant,,ENST00000601686,;ZNF20,downstream_gene_variant,,ENST00000485451,;ZNF20,downstream_gene_variant,,ENST00000480477,;ZNF625-ZNF20,3_prime_UTR_variant,,ENST00000430024,;ZNF20,downstream_gene_variant,,ENST00000454949,;ZNF20,downstream_gene_variant,,ENST00000478942,;	A	ENSG00000132010	ENST00000334213	Transcript	3_prime_UTR_variant	1949	.	.	.	.	.	.	.	-1	ZNF20	HGNC	12992	protein_coding	YES	CCDS45986.1	ENSP00000335437	ZNF20_HUMAN	Q86XA2_HUMAN	UPI000013C404	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTATCGCAAGT	.	2	BLCA
GCDH	0	.	GRCh37	19	13007762	13007762	+	Silent	SNP	C	C	T	rs143102910	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891C>T	p.%3D	p.I297I	ENST00000222214	9/12	44	34	9	45	45	0	GCDH,synonymous_variant,p.%3D,ENST00000222214,;GCDH,synonymous_variant,p.%3D,ENST00000422947,;GCDH,synonymous_variant,p.%3D,ENST00000457854,;GCDH,synonymous_variant,p.%3D,ENST00000591470,;GCDH,downstream_gene_variant,,ENST00000588905,;GCDH,upstream_gene_variant,,ENST00000590472,;SYCE2,downstream_gene_variant,,ENST00000592819,;GCDH,downstream_gene_variant,,ENST00000589039,;GCDH,upstream_gene_variant,,ENST00000591050,;SYCE2,downstream_gene_variant,,ENST00000293695,;GCDH,downstream_gene_variant,,ENST00000587072,;GCDH,upstream_gene_variant,,ENST00000588242,;GCDH,3_prime_UTR_variant,,ENST00000590530,;GCDH,non_coding_transcript_exon_variant,,ENST00000421816,;GCDH,non_coding_transcript_exon_variant,,ENST00000585420,;GCDH,non_coding_transcript_exon_variant,,ENST00000591043,;GCDH,downstream_gene_variant,,ENST00000590445,;GCDH,downstream_gene_variant,,ENST00000590627,;GCDH,downstream_gene_variant,,ENST00000585760,;GCDH,downstream_gene_variant,,ENST00000587832,;AD000092.3,downstream_gene_variant,,ENST00000464444,;	T	ENSG00000105607	ENST00000222214	Transcript	synonymous_variant	1102	891	297	I	atC/atT	rs143102910	.	.	1	GCDH	HGNC	4189	protein_coding	YES	CCDS12286.1	ENSP00000222214	GCDH_HUMAN	.	UPI000012B292	.	.	.	9/12	.	hmmpanther:PTHR10909,hmmpanther:PTHR10909:SF152,Pfam_domain:PF00441,Gene3D:1.20.140.10,Superfamily_domains:SSF47203	.	.	.	.	.	.	.	T:0.0007	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCGCGTG	byFrequency|byCluster	5	BLCA
ZNF626	0	.	GRCh37	19	20828231	20828231	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226+259G>A	.	.	ENST00000601440	.	43	30	13	45	45	0	ZNF626,missense_variant,p.Glu84Lys,ENST00000291750,;ZNF626,intron_variant,,ENST00000601440,;ZNF626,intron_variant,,ENST00000595405,;CTC-513N18.7,intron_variant,,ENST00000595094,;	T	ENSG00000188171	ENST00000601440	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ZNF626	HGNC	30461	protein_coding	YES	CCDS42535.1	ENSP00000469958	ZN626_HUMAN	M0QY39_HUMAN,I0CMK8_HUMAN	UPI000035E843	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCACTGT	.	5	BLCA
ZNF30	0	.	GRCh37	19	35435274	35435274	+	Missense_Mutation	SNP	C	C	G	rs377630217	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1407C>G	p.His469Gln	p.H469Q	ENST00000439785	5/5	41	35	6	61	61	0	ZNF30,missense_variant,p.His469Gln,ENST00000439785,;ZNF30,missense_variant,p.His387Gln,ENST00000426813,;ZNF30,missense_variant,p.His469Gln,ENST00000303586,;ZNF30,missense_variant,p.His468Gln,ENST00000601142,;ZNF30,3_prime_UTR_variant,,ENST00000601957,;ZNF30,downstream_gene_variant,,ENST00000595818,;	G	ENSG00000168661	ENST00000439785	Transcript	missense_variant	1851	1407	469	H/Q	caC/caG	rs377630217	.	.	1	ZNF30	HGNC	13090	protein_coding	YES	CCDS46044.1	ENSP00000403441	ZNF30_HUMAN	.	UPI0001596897	.	tolerated(0.35)	benign(0.033)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF190,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCACGTACA	byFrequency|byCluster	5	BLCA
DPF1	0	.	GRCh37	19	38703011	38703011	+	Intron	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1093-10C>T	.	.	ENST00000355526	.	22	17	5	16	16	0	DPF1,synonymous_variant,p.%3D,ENST00000416611,;DPF1,synonymous_variant,p.%3D,ENST00000420980,;DPF1,intron_variant,,ENST00000412732,;DPF1,intron_variant,,ENST00000414789,;DPF1,intron_variant,,ENST00000355526,;DPF1,intron_variant,,ENST00000456296,;SIPA1L3,downstream_gene_variant,,ENST00000222345,;DPF1,downstream_gene_variant,,ENST00000438060,;DPF1,intron_variant,,ENST00000471976,;DPF1,intron_variant,,ENST00000494031,;DPF1,intron_variant,,ENST00000472656,;DPF1,intron_variant,,ENST00000473716,;DPF1,intron_variant,,ENST00000418517,;DPF1,intron_variant,,ENST00000488378,;	A	ENSG00000011332	ENST00000355526	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DPF1	HGNC	20225	protein_coding	YES	CCDS46064.1	ENSP00000347716	DPF1_HUMAN	K7EJD5_HUMAN,C9JGC1_HUMAN,C9IZH8_HUMAN	UPI00018131F2	.	.	.	.	10/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGGTGAGACC	.	2	BLCA
CXCL17	0	.	GRCh37	19	42946982	42946982	+	Translation_Start_Site	SNP	C	C	T	rs779141251	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000601181	1/4	32	29	3	41	41	0	CXCL17,start_lost,p.Met1?,ENST00000601181,;LIPE-AS1,intron_variant,,ENST00000594688,;LIPE-AS1,intron_variant,,ENST00000597203,;LIPE-AS1,intron_variant,,ENST00000457234,;LIPE-AS1,intron_variant,,ENST00000593740,;LIPE-AS1,intron_variant,,ENST00000594624,;CXCL17,start_lost,p.Met1?,ENST00000341918,;	T	ENSG00000189377	ENST00000601181	Transcript	start_lost	219	3	1	M/I	atG/atA	rs779141251,COSM439677	.	.	-1	CXCL17	HGNC	19232	protein_coding	YES	CCDS12608.1	ENSP00000472467	VCC1_HUMAN	.	UPI00000389D5	.	deleterious_low_confidence(0.02)	unknown(0)	1/4	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTTTCATCGC	byFrequency	2	BLCA
PSG6	0	.	GRCh37	19	43406420	43406420	+	3'Flank	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000292125	.	19	15	4	15	15	0	PSG6,3_prime_UTR_variant,,ENST00000187910,;PSG6,3_prime_UTR_variant,,ENST00000402603,;PSG6,downstream_gene_variant,,ENST00000292125,;PSG6,3_prime_UTR_variant,,ENST00000599753,;PSG6,downstream_gene_variant,,ENST00000595062,;	T	ENSG00000170848	ENST00000292125	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1348	-1	PSG6	HGNC	9523	protein_coding	YES	CCDS12613.1	ENSP00000292125	PSG6_HUMAN	.	UPI00001327A1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAATCAGCAC	.	4	BLCA
CCDC114	0	.	GRCh37	19	48807271	48807271	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681C>T	p.%3D	p.L227L	ENST00000315396	7/14	124	103	21	167	167	0	CCDC114,synonymous_variant,p.%3D,ENST00000315396,;CCDC114,downstream_gene_variant,,ENST00000504608,;CCDC114,non_coding_transcript_exon_variant,,ENST00000474199,;CCDC114,upstream_gene_variant,,ENST00000497273,;	A	ENSG00000105479	ENST00000315396	Transcript	synonymous_variant	1364	681	227	L	ctC/ctT	.	.	.	-1	CCDC114	HGNC	26560	protein_coding	YES	CCDS12714.2	ENSP00000318429	CC114_HUMAN	.	UPI0000EE7B5F	.	.	.	7/14	.	hmmpanther:PTHR21694:SF18,hmmpanther:PTHR21694	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTGAGGAA	.	5	BLCA
BCAT2	0	.	GRCh37	19	49299592	49299592	+	Intron	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1140+93C>T	.	.	ENST00000316273	.	30	24	6	37	37	0	BCAT2,splice_region_variant,,ENST00000593515,;BCAT2,3_prime_UTR_variant,,ENST00000599246,;BCAT2,3_prime_UTR_variant,,ENST00000598162,;BCAT2,intron_variant,,ENST00000402551,;BCAT2,intron_variant,,ENST00000597011,;BCAT2,intron_variant,,ENST00000316273,;BCAT2,intron_variant,,ENST00000545387,;BCAT2,downstream_gene_variant,,ENST00000601681,;RNU6-317P,upstream_gene_variant,,ENST00000384031,;BCAT2,non_coding_transcript_exon_variant,,ENST00000599510,;BCAT2,downstream_gene_variant,,ENST00000595376,;	A	ENSG00000105552	ENST00000316273	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	BCAT2	HGNC	977	protein_coding	YES	CCDS12735.1	ENSP00000322991	BCAT2_HUMAN	M0R2K7_HUMAN,B3KSI3_HUMAN	UPI00001267CC	.	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTACTGAAGGA	.	4	BLCA
SLC6A16	0	.	GRCh37	19	49793532	49793532	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2059C>T	p.Pro687Ser	p.P687S	ENST00000335875	12/12	137	120	17	174	174	0	SLC6A16,missense_variant,p.Pro687Ser,ENST00000335875,;SLC6A16,3_prime_UTR_variant,,ENST00000454748,;SLC6A16,downstream_gene_variant,,ENST00000598828,;SLC6A16,downstream_gene_variant,,ENST00000598221,;	A	ENSG00000063127	ENST00000335875	Transcript	missense_variant	2301	2059	687	P/S	Ccc/Tcc	COSM3990158	.	.	-1	SLC6A16	HGNC	13622	protein_coding	YES	CCDS42590.1	ENSP00000338627	S6A16_HUMAN	M0QYK3_HUMAN	UPI00001305CE	.	tolerated(0.18)	benign(0.046)	12/12	.	hmmpanther:PTHR11616:SF48,hmmpanther:PTHR11616	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAGGGAATCC	.	4	BLCA
MED25	0	.	GRCh37	19	50333414	50333414	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.758C>G	p.Ser253Ter	p.S253*	ENST00000312865	7/18	58	49	9	94	94	0	MED25,stop_gained,p.Ser253Ter,ENST00000312865,;MED25,intron_variant,,ENST00000595185,;MED25,intron_variant,,ENST00000538643,;MED25,upstream_gene_variant,,ENST00000593767,;MED25,upstream_gene_variant,,ENST00000594998,;MED25,upstream_gene_variant,,ENST00000599722,;	G	ENSG00000104973	ENST00000312865	Transcript	stop_gained	811	758	253	S/*	tCa/tGa	.	.	.	1	MED25	HGNC	28845	protein_coding	YES	CCDS33075.1	ENSP00000326767	MED25_HUMAN	.	UPI00002029A3	.	.	.	7/18	.	hmmpanther:PTHR12433,hmmpanther:PTHR12433:SF10,Pfam_domain:PF11235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ACCCTCAGGTG	.	2	BLCA
ZNF611	0	.	GRCh37	19	53208071	53208071	+	3'UTR	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*119C>T	.	.	ENST00000543227	6/6	75	59	15	81	81	0	ZNF611,3_prime_UTR_variant,,ENST00000453741,;ZNF611,3_prime_UTR_variant,,ENST00000543227,;ZNF611,3_prime_UTR_variant,,ENST00000319783,;ZNF611,3_prime_UTR_variant,,ENST00000595798,;ZNF611,3_prime_UTR_variant,,ENST00000602162,;ZNF611,3_prime_UTR_variant,,ENST00000540744,;ZNF611,downstream_gene_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000600943,;ZNF611,downstream_gene_variant,,ENST00000601643,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,downstream_gene_variant,,ENST00000597343,;ZNF611,downstream_gene_variant,,ENST00000598639,;ZNF611,downstream_gene_variant,,ENST00000598723,;	A	ENSG00000213020	ENST00000543227	Transcript	3_prime_UTR_variant	2512	.	.	.	.	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGTGAATCA	.	5	BLCA
HCN2	0	.	GRCh37	19	613319	613319	+	Silent	SNP	C	C	T	rs200925272	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1656C>T	p.%3D	p.F552F	ENST00000251287	6/8	21	17	4	32	32	0	HCN2,synonymous_variant,p.%3D,ENST00000251287,;POLRMT,downstream_gene_variant,,ENST00000588649,;POLRMT,downstream_gene_variant,,ENST00000590336,;AC005559.2,downstream_gene_variant,,ENST00000591847,;POLRMT,downstream_gene_variant,,ENST00000589961,;POLRMT,downstream_gene_variant,,ENST00000592633,;POLRMT,downstream_gene_variant,,ENST00000587057,;	T	ENSG00000099822	ENST00000251287	Transcript	synonymous_variant	1709	1656	552	F	ttC/ttT	rs200925272	.	.	1	HCN2	HGNC	4846	protein_coding	YES	CCDS12035.1	ENSP00000251287	HCN2_HUMAN	Q09ND3_HUMAN	UPI000013CCF6	.	.	.	6/8	.	PROSITE_profiles:PS50042,hmmpanther:PTHR10217:SF372,hmmpanther:PTHR10217,Gene3D:2.60.120.10,SMART_domains:SM00100,Superfamily_domains:SSF51206	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	AACTTCGTCAC	byCluster	4	BLCA
GTF2F1	0	.	GRCh37	19	6380608	6380608	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1325C>T	p.Ser442Leu	p.S442L	ENST00000394456	12/13	57	46	11	63	63	0	GTF2F1,missense_variant,p.Ser358Leu,ENST00000593678,;GTF2F1,missense_variant,p.Ser357Leu,ENST00000429701,;GTF2F1,missense_variant,p.Ser442Leu,ENST00000394456,;GTF2F1,downstream_gene_variant,,ENST00000595047,;PSPN,upstream_gene_variant,,ENST00000245810,;PSPN,upstream_gene_variant,,ENST00000597721,;GTF2F1,non_coding_transcript_exon_variant,,ENST00000594965,;GTF2F1,non_coding_transcript_exon_variant,,ENST00000594213,;	A	ENSG00000125651	ENST00000394456	Transcript	missense_variant	1790	1325	442	S/L	tCa/tTa	.	.	.	-1	GTF2F1	HGNC	4652	protein_coding	YES	CCDS12165.1	ENSP00000377969	T2FA_HUMAN	M0R0Z3_HUMAN	UPI000007323F	.	deleterious(0)	probably_damaging(0.994)	12/13	.	hmmpanther:PTHR13011,Pfam_domain:PF05793	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGATGGT	.	5	BLCA
GTF2F1	0	.	GRCh37	19	6389523	6389523	+	Silent	SNP	G	G	A	rs761360004	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.258C>T	p.%3D	p.I86I	ENST00000394456	4/13	201	164	36	191	191	0	GTF2F1,synonymous_variant,p.%3D,ENST00000595047,;GTF2F1,synonymous_variant,p.%3D,ENST00000593678,;GTF2F1,synonymous_variant,p.%3D,ENST00000429701,;GTF2F1,synonymous_variant,p.%3D,ENST00000598607,;GTF2F1,synonymous_variant,p.%3D,ENST00000394456,;CTB-180A7.8,upstream_gene_variant,,ENST00000593563,;CTB-180A7.6,intron_variant,,ENST00000599584,;	A	ENSG00000125651	ENST00000394456	Transcript	synonymous_variant	723	258	86	I	atC/atT	rs761360004	.	.	-1	GTF2F1	HGNC	4652	protein_coding	YES	CCDS12165.1	ENSP00000377969	T2FA_HUMAN	M0R0Z3_HUMAN	UPI000007323F	.	.	.	4/13	.	hmmpanther:PTHR13011,Pfam_domain:PF05793,Superfamily_domains:SSF50916	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGACGATGCC	.	4	BLCA
UBE4B	0	.	GRCh37	1	10207131	10207131	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2574G>A	p.%3D	p.L858L	ENST00000343090	19/28	178	123	54	195	195	0	UBE4B,synonymous_variant,p.%3D,ENST00000377157,;UBE4B,synonymous_variant,p.%3D,ENST00000253251,;UBE4B,synonymous_variant,p.%3D,ENST00000343090,;UBE4B,downstream_gene_variant,,ENST00000470736,;UBE4B,downstream_gene_variant,,ENST00000466379,;	A	ENSG00000130939	ENST00000343090	Transcript	synonymous_variant	2649	2574	858	L	ctG/ctA	.	.	.	1	UBE4B	HGNC	12500	protein_coding	YES	CCDS41245.1	ENSP00000343001	UBE4B_HUMAN	.	UPI0000137944	.	.	.	19/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13931:SF13,hmmpanther:PTHR13931,Pfam_domain:PF10408	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A861T|c.2581G>A|3,BUFFER|p.A732T|c.2194G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGGACCC	.	5	BLCA
MRPL20	0	.	GRCh37	1	1342378	1342378	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109C>G	p.Arg37Gly	p.R37G	ENST00000344843	2/4	166	115	51	305	304	1	MRPL20,start_lost,p.Arg1?,ENST00000492508,;MRPL20,missense_variant,p.Arg37Gly,ENST00000482352,;MRPL20,missense_variant,p.Arg37Gly,ENST00000344843,;RP4-758J18.2,downstream_gene_variant,,ENST00000444362,;RP4-758J18.13,upstream_gene_variant,,ENST00000607307,;RN7SL657P,upstream_gene_variant,,ENST00000582431,;MRPL20,non_coding_transcript_exon_variant,,ENST00000477686,;MRPL20,upstream_gene_variant,,ENST00000493287,;RP4-758J18.2,downstream_gene_variant,,ENST00000453521,;MRPL20,non_coding_transcript_exon_variant,,ENST00000487659,;RP4-758J18.2,downstream_gene_variant,,ENST00000572242,;RP4-758J18.2,downstream_gene_variant,,ENST00000447725,;RP4-758J18.2,downstream_gene_variant,,ENST00000418833,;	C	ENSG00000242485	ENST00000344843	Transcript	missense_variant	205	109	37	R/G	Cgc/Ggc	COSM3472774	.	.	-1	MRPL20	HGNC	14478	protein_coding	YES	CCDS26.1	ENSP00000341082	RM20_HUMAN	.	UPI000006F0A8	.	tolerated(0.26)	probably_damaging(0.915)	2/4	.	hmmpanther:PTHR10986,TIGRFAM_domain:TIGR01032,Pfam_domain:PF00453,Superfamily_domains:SSF74731,Prints_domain:PR00062	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCAGCGATTTT	.	3	BLCA
PIAS3	0	.	GRCh37	1	145585767	145585767	+	3'UTR	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*145C>G	.	.	ENST00000393045	14/14	13	9	4	11	11	0	PIAS3,3_prime_UTR_variant,,ENST00000393045,;PIAS3,3_prime_UTR_variant,,ENST00000369298,;NUDT17,downstream_gene_variant,,ENST00000334513,;NUDT17,downstream_gene_variant,,ENST00000444015,;PIAS3,non_coding_transcript_exon_variant,,ENST00000475261,;PIAS3,non_coding_transcript_exon_variant,,ENST00000472114,;NUDT17,downstream_gene_variant,,ENST00000460879,;NUDT17,downstream_gene_variant,,ENST00000477878,;NUDT17,downstream_gene_variant,,ENST00000498192,;	G	ENSG00000131788	ENST00000393045	Transcript	3_prime_UTR_variant	2122	.	.	.	.	.	.	.	1	PIAS3	HGNC	16861	protein_coding	YES	CCDS920.2	ENSP00000376765	PIAS3_HUMAN	Q6IAR4_HUMAN,E7ESB4_HUMAN,A4CZ08_HUMAN	UPI0000150636	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CATCTCTGCCT	.	3	BLCA
ARHGEF11	0	.	GRCh37	1	156941516	156941516	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.675G>C	p.Lys225Asn	p.K225N	ENST00000368194	8/41	103	74	29	91	91	0	ARHGEF11,missense_variant,p.Lys225Asn,ENST00000368194,;ARHGEF11,intron_variant,,ENST00000361409,;ARHGEF11,non_coding_transcript_exon_variant,,ENST00000483682,;	G	ENSG00000132694	ENST00000368194	Transcript	missense_variant	1715	675	225	K/N	aaG/aaC	.	.	.	-1	ARHGEF11	HGNC	14580	protein_coding	YES	CCDS1163.1	ENSP00000357177	ARHGB_HUMAN	.	UPI00001D62A7	.	deleterious(0)	probably_damaging(0.962)	8/41	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22825:SF5,hmmpanther:PTHR22825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATCTTCAG	.	5	BLCA
ARHGEF19	0	.	GRCh37	1	16534271	16534271	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696G>A	p.%3D	p.G232G	ENST00000270747	4/16	47	37	9	49	49	0	ARHGEF19,synonymous_variant,p.%3D,ENST00000270747,;ARHGEF19,upstream_gene_variant,,ENST00000449495,;ARHGEF19,upstream_gene_variant,,ENST00000441785,;ARHGEF19,upstream_gene_variant,,ENST00000478210,;ARHGEF19,upstream_gene_variant,,ENST00000478117,;ARHGEF19,upstream_gene_variant,,ENST00000471928,;	T	ENSG00000142632	ENST00000270747	Transcript	synonymous_variant	833	696	232	G	ggG/ggA	.	.	.	-1	ARHGEF19	HGNC	26604	protein_coding	YES	CCDS170.1	ENSP00000270747	ARHGJ_HUMAN	.	UPI0000074533	.	.	.	4/16	.	hmmpanther:PTHR12845,hmmpanther:PTHR12845:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCCCTGG	.	5	BLCA
ARHGEF10L	0	.	GRCh37	1	18023482	18023482	+	Silent	SNP	C	C	T	rs748841382	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3447C>T	p.%3D	p.D1149D	ENST00000361221	29/29	10	5	4	10	10	0	ARHGEF10L,synonymous_variant,p.%3D,ENST00000375415,;ARHGEF10L,synonymous_variant,p.%3D,ENST00000361221,;ARHGEF10L,synonymous_variant,p.%3D,ENST00000375408,;ARHGEF10L,synonymous_variant,p.%3D,ENST00000167825,;ARHGEF10L,synonymous_variant,p.%3D,ENST00000452522,;ARHGEF10L,non_coding_transcript_exon_variant,,ENST00000475356,;ARHGEF10L,non_coding_transcript_exon_variant,,ENST00000469726,;ARHGEF10L,non_coding_transcript_exon_variant,,ENST00000495593,;	T	ENSG00000074964	ENST00000361221	Transcript	synonymous_variant	3606	3447	1149	D	gaC/gaT	rs748841382	.	.	1	ARHGEF10L	HGNC	25540	protein_coding	YES	CCDS182.1	ENSP00000355060	ARGAL_HUMAN	.	UPI00003664EA	.	.	.	29/29	.	hmmpanther:PTHR12877,hmmpanther:PTHR12877:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCAGACGGGCA	byFrequency	3	BLCA
ACTL8	0	.	GRCh37	1	18152290	18152290	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.377C>G	p.Ser126Trp	p.S126W	ENST00000375406	3/3	23	14	9	31	31	0	ACTL8,missense_variant,p.Ser126Trp,ENST00000375406,;	G	ENSG00000117148	ENST00000375406	Transcript	missense_variant	593	377	126	S/W	tCg/tGg	.	.	.	1	ACTL8	HGNC	24018	protein_coding	YES	CCDS183.1	ENSP00000364555	ACTL8_HUMAN	.	UPI000007008F	.	deleterious(0)	probably_damaging(0.98)	3/3	.	hmmpanther:PTHR11937:SF169,hmmpanther:PTHR11937,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCGGTCC	.	5	BLCA
CACNA1E	0	.	GRCh37	1	181759595	181759595	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5801G>A	p.Gly1934Glu	p.G1934E	ENST00000367573	44/48	44	40	4	43	43	0	CACNA1E,missense_variant,p.Gly1866Glu,ENST00000358338,;CACNA1E,missense_variant,p.Gly1541Glu,ENST00000367567,;CACNA1E,missense_variant,p.Gly1885Glu,ENST00000357570,;CACNA1E,missense_variant,p.Gly1915Glu,ENST00000360108,;CACNA1E,missense_variant,p.Gly1915Glu,ENST00000526775,;CACNA1E,missense_variant,p.Gly1934Glu,ENST00000367573,;CACNA1E,missense_variant,p.Gly1934Glu,ENST00000367570,;	A	ENSG00000198216	ENST00000367573	Transcript	missense_variant	5801	5801	1934	G/E	gGa/gAa	COSM3479803,COSM3479804,COSM3479802	.	.	1	CACNA1E	HGNC	1392	protein_coding	YES	CCDS55664.1	ENSP00000356545	CAC1E_HUMAN	Q9UN68_HUMAN,Q9NYZ6_HUMAN,Q9NY05_HUMAN,E9PIE8_HUMAN	UPI00004588C2	.	tolerated(0.3)	benign(0.029)	44/48	.	hmmpanther:PTHR10037:SF57,hmmpanther:PTHR10037	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGTGGATACC	.	2	BLCA
NFASC	0	.	GRCh37	1	204955124	204955124	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2471-1422C>T	.	.	ENST00000339876	.	25	21	4	32	32	0	NFASC,synonymous_variant,p.%3D,ENST00000404076,;NFASC,synonymous_variant,p.%3D,ENST00000367170,;NFASC,synonymous_variant,p.%3D,ENST00000338515,;NFASC,synonymous_variant,p.%3D,ENST00000360049,;NFASC,synonymous_variant,p.%3D,ENST00000404907,;NFASC,synonymous_variant,p.%3D,ENST00000367171,;NFASC,synonymous_variant,p.%3D,ENST00000539706,;NFASC,synonymous_variant,p.%3D,ENST00000430393,;NFASC,synonymous_variant,p.%3D,ENST00000513543,;NFASC,synonymous_variant,p.%3D,ENST00000367172,;NFASC,synonymous_variant,p.%3D,ENST00000338586,;NFASC,intron_variant,,ENST00000425360,;NFASC,intron_variant,,ENST00000401399,;NFASC,intron_variant,,ENST00000339876,;NFASC,intron_variant,,ENST00000367173,;NFASC,intron_variant,,ENST00000367169,;NFASC,upstream_gene_variant,,ENST00000413225,;NFASC,non_coding_transcript_exon_variant,,ENST00000404977,;NFASC,intron_variant,,ENST00000468328,;NFASC,upstream_gene_variant,,ENST00000492085,;NFASC,upstream_gene_variant,,ENST00000495396,;NFASC,downstream_gene_variant,,ENST00000471392,;NFASC,3_prime_UTR_variant,,ENST00000504476,;NFASC,non_coding_transcript_exon_variant,,ENST00000512826,;	T	ENSG00000163531	ENST00000339876	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	NFASC	HGNC	29866	protein_coding	YES	CCDS53460.1	ENSP00000344786	NFASC_HUMAN	D6RHX4_HUMAN	UPI0000237208	.	.	.	.	21/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCCTCCGTGG	.	3	BLCA
RPS6KA1	0	.	GRCh37	1	26873469	26873469	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>C	p.Gly83Arg	p.G83R	ENST00000531382	2/21	42	27	14	55	55	0	RPS6KA1,missense_variant,p.Gly74Arg,ENST00000374168,;RPS6KA1,missense_variant,p.Gly74Arg,ENST00000374166,;RPS6KA1,missense_variant,p.Gly58Arg,ENST00000530003,;RPS6KA1,missense_variant,p.Gly83Arg,ENST00000531382,;RPS6KA1,5_prime_UTR_variant,,ENST00000526792,;RPS6KA1,intron_variant,,ENST00000529454,;RPS6KA1,intron_variant,,ENST00000374162,;RPS6KA1,missense_variant,p.Gly83Arg,ENST00000374163,;RPS6KA1,missense_variant,p.Leu92Phe,ENST00000366866,;RPS6KA1,3_prime_UTR_variant,,ENST00000525525,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000524436,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000531113,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000530607,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000525582,;RPS6KA1,intron_variant,,ENST00000526040,;RPS6KA1,upstream_gene_variant,,ENST00000527264,;RPS6KA1,upstream_gene_variant,,ENST00000474934,;	C	ENSG00000117676	ENST00000531382	Transcript	missense_variant	296	247	83	G/R	Ggc/Cgc	.	.	.	1	RPS6KA1	HGNC	10430	protein_coding	YES	CCDS30649.1	ENSP00000435412	KS6A1_HUMAN	E9PMM7_HUMAN	UPI000046D37A	.	deleterious(0)	probably_damaging(0.999)	2/21	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24351:SF43,hmmpanther:PTHR24351,PROSITE_patterns:PS00107,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,PIRSF_domain:PIRSF000606,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTGGCAAA	.	5	BLCA
ARID1A	0	.	GRCh37	1	27057826	27057826	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1534C>T	p.Gln512Ter	p.Q512*	ENST00000324856	3/20	292	206	85	291	290	0	ARID1A,stop_gained,p.Gln512Ter,ENST00000457599,;ARID1A,stop_gained,p.Gln129Ter,ENST00000374152,;ARID1A,stop_gained,p.Gln512Ter,ENST00000324856,;ARID1A,downstream_gene_variant,,ENST00000524572,;	T	ENSG00000117713	ENST00000324856	Transcript	stop_gained	1905	1534	512	Q/*	Cag/Tag	.	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	.	3/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12656,hmmpanther:PTHR12656:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTCCAGTCC	.	5	BLCA
ARID1A	0	.	GRCh37	1	27101296	27101296	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4578G>A	p.%3D	p.V1526V	ENST00000324856	18/20	74	51	22	99	99	0	ARID1A,synonymous_variant,p.%3D,ENST00000374152,;ARID1A,synonymous_variant,p.%3D,ENST00000430799,;ARID1A,synonymous_variant,p.%3D,ENST00000324856,;ARID1A,intron_variant,,ENST00000457599,;ARID1A,intron_variant,,ENST00000540690,;ARID1A,intron_variant,,ENST00000466382,;ARID1A,upstream_gene_variant,,ENST00000532781,;	A	ENSG00000117713	ENST00000324856	Transcript	synonymous_variant	4949	4578	1526	V	gtG/gtA	.	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	.	18/20	.	hmmpanther:PTHR12656,hmmpanther:PTHR12656:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R1528*|c.4582C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGTGAACCG	.	5	BLCA
SLC2A1	0	.	GRCh37	1	43393372	43393372	+	Silent	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1182C>G	p.%3D	p.L394L	ENST00000426263	9/10	25	18	7	36	36	0	SLC2A1,synonymous_variant,p.%3D,ENST00000426263,;SLC2A1,downstream_gene_variant,,ENST00000439722,;SLC2A1,downstream_gene_variant,,ENST00000372500,;SLC2A1,downstream_gene_variant,,ENST00000415851,;SLC2A1,intron_variant,,ENST00000475162,;	C	ENSG00000117394	ENST00000426263	Transcript	synonymous_variant	1361	1182	394	L	ctC/ctG	COSM426292	.	.	-1	SLC2A1	HGNC	11005	protein_coding	YES	CCDS477.1	ENSP00000416293	GTR1_HUMAN	Q59GX2_HUMAN,B3KVN0_HUMAN	UPI00002058B9	.	.	.	9/10	.	PROSITE_profiles:PS50850,hmmpanther:PTHR24063,hmmpanther:PTHR24063:SF289,TIGRFAM_domain:TIGR00879,Pfam_domain:PF00083,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473,Prints_domain:PR00171	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAGTTC	.	5	BLCA
FPGT	0	.	GRCh37	1	74670942	74670942	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1211A>G	p.Gln404Arg	p.Q404R	ENST00000609362	4/4	65	55	10	66	66	0	FPGT,missense_variant,p.Gln417Arg,ENST00000370898,;FPGT,missense_variant,p.Gln150Arg,ENST00000534056,;FPGT,missense_variant,p.Gln404Arg,ENST00000609362,;FPGT,missense_variant,p.Lys132Glu,ENST00000370894,;FPGT-TNNI3K,intron_variant,,ENST00000370895,;FPGT-TNNI3K,intron_variant,,ENST00000370893,;FPGT-TNNI3K,intron_variant,,ENST00000534632,;FPGT-TNNI3K,intron_variant,,ENST00000370899,;TNNI3K,intron_variant,,ENST00000370891,;FPGT-TNNI3K,intron_variant,,ENST00000557284,;FPGT,downstream_gene_variant,,ENST00000482102,;FPGT,downstream_gene_variant,,ENST00000467578,;FPGT,downstream_gene_variant,,ENST00000472069,;FPGT,intron_variant,,ENST00000524915,;FPGT-TNNI3K,intron_variant,,ENST00000533006,;FPGT,downstream_gene_variant,,ENST00000529485,;	G	ENSG00000254685	ENST00000609362	Transcript	missense_variant	1248	1211	404	Q/R	cAa/cGa	.	.	.	1	FPGT	HGNC	3825	protein_coding	YES	.	ENSP00000476680	.	.	UPI000013D402	.	tolerated(0.08)	benign(0.222)	4/4	.	hmmpanther:PTHR15045,Pfam_domain:PF07959,Gene3D:3.90.550.10,PIRSF_domain:PIRSF036640,Superfamily_domains:SSF51161	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCAAAGCA	.	5	BLCA
RABGGTB	0	.	GRCh37	1	76259853	76259853	+	Missense_Mutation	SNP	C	C	T	rs756448664	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790C>T	p.Arg264Cys	p.R264C	ENST00000319942	8/9	143	111	32	163	163	0	RABGGTB,missense_variant,p.Arg90Cys,ENST00000535300,;RABGGTB,missense_variant,p.Arg264Cys,ENST00000319942,;RABGGTB,downstream_gene_variant,,ENST00000370826,;MSH4,upstream_gene_variant,,ENST00000263187,;SNORD45B,downstream_gene_variant,,ENST00000364617,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000496055,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000459697,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000471759,;RABGGTB,downstream_gene_variant,,ENST00000470201,;RABGGTB,downstream_gene_variant,,ENST00000467748,;RABGGTB,downstream_gene_variant,,ENST00000462042,;RABGGTB,downstream_gene_variant,,ENST00000461653,;RABGGTB,downstream_gene_variant,,ENST00000491266,;RABGGTB,downstream_gene_variant,,ENST00000473406,;RABGGTB,downstream_gene_variant,,ENST00000485459,;RABGGTB,downstream_gene_variant,,ENST00000489450,;	T	ENSG00000137955	ENST00000319942	Transcript	missense_variant	861	790	264	R/C	Cgt/Tgt	rs756448664,COSM912156	.	.	1	RABGGTB	HGNC	9796	protein_coding	YES	CCDS669.1	ENSP00000317473	PGTB2_HUMAN	Q6IB63_HUMAN,D3DQ78_HUMAN	UPI0000131891	.	tolerated(0.05)	benign(0.002)	8/9	.	hmmpanther:PTHR11774,hmmpanther:PTHR11774:SF9,Gene3D:1.50.10.20,Pfam_domain:PF00432,Superfamily_domains:SSF48239	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACTGCGTAAT	byFrequency	3	BLCA
RABGGTB	0	.	GRCh37	1	76259861	76259861	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798C>T	p.%3D	p.F266F	ENST00000319942	8/9	148	115	33	169	169	0	RABGGTB,synonymous_variant,p.%3D,ENST00000535300,;RABGGTB,synonymous_variant,p.%3D,ENST00000319942,;RABGGTB,downstream_gene_variant,,ENST00000370826,;MSH4,upstream_gene_variant,,ENST00000263187,;SNORD45B,downstream_gene_variant,,ENST00000364617,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000496055,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000459697,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000471759,;RABGGTB,downstream_gene_variant,,ENST00000470201,;RABGGTB,downstream_gene_variant,,ENST00000467748,;RABGGTB,downstream_gene_variant,,ENST00000462042,;RABGGTB,downstream_gene_variant,,ENST00000461653,;RABGGTB,downstream_gene_variant,,ENST00000491266,;RABGGTB,downstream_gene_variant,,ENST00000473406,;RABGGTB,downstream_gene_variant,,ENST00000485459,;RABGGTB,downstream_gene_variant,,ENST00000489450,;	T	ENSG00000137955	ENST00000319942	Transcript	synonymous_variant	869	798	266	F	ttC/ttT	.	.	.	1	RABGGTB	HGNC	9796	protein_coding	YES	CCDS669.1	ENSP00000317473	PGTB2_HUMAN	Q6IB63_HUMAN,D3DQ78_HUMAN	UPI0000131891	.	.	.	8/9	.	hmmpanther:PTHR11774,hmmpanther:PTHR11774:SF9,Gene3D:1.50.10.20,Pfam_domain:PF00432,Superfamily_domains:SSF48239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AATTTCATTTT	.	3	BLCA
CCBL2	0	.	GRCh37	1	89414909	89414909	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1006G>C	p.Glu336Gln	p.E336Q	ENST00000260508	11/14	39	23	15	27	27	0	CCBL2,missense_variant,p.Glu302Gln,ENST00000370491,;CCBL2,missense_variant,p.Glu336Gln,ENST00000260508,;CCBL2,3_prime_UTR_variant,,ENST00000370485,;CCBL2,non_coding_transcript_exon_variant,,ENST00000446900,;	G	ENSG00000137944	ENST00000260508	Transcript	missense_variant	1344	1006	336	E/Q	Gaa/Caa	.	.	.	-1	CCBL2	HGNC	33238	protein_coding	YES	CCDS30766.1	ENSP00000260508	KAT3_HUMAN	B4DW13_HUMAN	UPI0000155712	.	tolerated(0.06)	benign(0.083)	11/14	.	hmmpanther:PTHR11751:SF336,hmmpanther:PTHR11751,Gene3D:3.90.1150.10,Pfam_domain:PF00155,Superfamily_domains:SSF53383	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCTGGGT	.	5	BLCA
MACROD2	0	.	GRCh37	20	14665596	14665596	+	Missense_Mutation	SNP	C	C	T	rs780496408	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.409C>T	p.Pro137Ser	p.P137S	ENST00000217246	5/17	118	66	52	120	120	0	MACROD2,missense_variant,p.Pro137Ser,ENST00000217246,;MACROD2,missense_variant,p.Pro137Ser,ENST00000310348,;MACROD2,non_coding_transcript_exon_variant,,ENST00000464883,;MACROD2,non_coding_transcript_exon_variant,,ENST00000497992,;MACROD2,non_coding_transcript_exon_variant,,ENST00000490428,;MACROD2,non_coding_transcript_exon_variant,,ENST00000463861,;	T	ENSG00000172264	ENST00000217246	Transcript	missense_variant	804	409	137	P/S	Cct/Tct	rs780496408	.	.	1	MACROD2	HGNC	16126	protein_coding	YES	CCDS13120.2	ENSP00000217246	MACD2_HUMAN	.	UPI00005B2E12	.	deleterious(0.02)	possibly_damaging(0.687)	5/17	.	PROSITE_profiles:PS51154,hmmpanther:PTHR11106,hmmpanther:PTHR11106:SF54,Pfam_domain:PF01661,Gene3D:3.40.220.10,SMART_domains:SM00506,Superfamily_domains:SSF52949	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCCTGCA	.	5	BLCA
MGME1	0	.	GRCh37	20	17970779	17970779	+	3'UTR	SNP	C	C	A	rs765049495	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27C>A	.	.	ENST00000377710	5/5	35	14	21	35	35	0	MGME1,missense_variant,p.Gln237Lys,ENST00000377704,;MGME1,3_prime_UTR_variant,,ENST00000377709,;MGME1,3_prime_UTR_variant,,ENST00000377710,;MGME1,non_coding_transcript_exon_variant,,ENST00000463219,;MGME1,non_coding_transcript_exon_variant,,ENST00000467391,;OVOL2,intron_variant,,ENST00000486776,;	A	ENSG00000125871	ENST00000377710	Transcript	3_prime_UTR_variant	1350	.	.	.	.	rs765049495	.	.	1	MGME1	HGNC	16205	protein_coding	YES	CCDS13131.1	ENSP00000366939	MGME1_HUMAN	.	UPI00001285E8	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCAGCAC	.	5	BLCA
SLC2A10	0	.	GRCh37	20	45354215	45354215	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.540C>T	p.%3D	p.L180L	ENST00000359271	2/5	58	30	27	58	58	0	SLC2A10,synonymous_variant,p.%3D,ENST00000359271,;	T	ENSG00000197496	ENST00000359271	Transcript	synonymous_variant	790	540	180	L	ctC/ctT	.	.	.	1	SLC2A10	HGNC	13444	protein_coding	YES	CCDS13402.1	ENSP00000352216	GTR10_HUMAN	Q8TDC7_HUMAN	UPI000012BC8D	.	.	.	2/5	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24063:SF93,hmmpanther:PTHR24063,Gene3D:1.20.1250.20,Pfam_domain:PF00083,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCAGCCT	.	5	BLCA
ARFGEF2	0	.	GRCh37	20	47615021	47615021	+	Silent	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3411G>C	p.%3D	p.V1137V	ENST00000371917	25/39	76	42	34	93	93	0	ARFGEF2,synonymous_variant,p.%3D,ENST00000371917,;ARFGEF2,downstream_gene_variant,,ENST00000493140,;	C	ENSG00000124198	ENST00000371917	Transcript	synonymous_variant	3411	3411	1137	V	gtG/gtC	.	.	.	1	ARFGEF2	HGNC	15853	protein_coding	YES	CCDS13411.1	ENSP00000360985	BIG2_HUMAN	Q59FR3_HUMAN	UPI000013D378	.	.	.	25/39	.	hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF124,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTGATTGG	.	5	BLCA
NFATC2	0	.	GRCh37	20	50092156	50092156	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1374C>T	p.%3D	p.I458I	ENST00000396009	4/10	62	36	26	56	56	0	NFATC2,synonymous_variant,p.%3D,ENST00000396009,;NFATC2,synonymous_variant,p.%3D,ENST00000609943,;NFATC2,synonymous_variant,p.%3D,ENST00000371564,;NFATC2,synonymous_variant,p.%3D,ENST00000609507,;NFATC2,synonymous_variant,p.%3D,ENST00000610033,;NFATC2,synonymous_variant,p.%3D,ENST00000414705,;	A	ENSG00000101096	ENST00000396009	Transcript	synonymous_variant	1594	1374	458	I	atC/atT	.	.	.	-1	NFATC2	HGNC	7776	protein_coding	YES	CCDS13437.1	ENSP00000379330	NFAC2_HUMAN	B5B2P4_HUMAN,B5B2P3_HUMAN	UPI0000167D0F	.	.	.	4/10	.	Superfamily_domains:SSF49417,Gene3D:2.60.40.340,Pfam_domain:PF00554,hmmpanther:PTHR12533:SF4,hmmpanther:PTHR12533,PROSITE_profiles:PS50254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGAAGATCTG	.	5	BLCA
ITSN1	0	.	GRCh37	21	35091116	35091116	+	5'UTR	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-18G>T	.	.	ENST00000381318	2/40	105	82	22	93	93	0	ITSN1,5_prime_UTR_variant,,ENST00000399353,;ITSN1,5_prime_UTR_variant,,ENST00000399352,;ITSN1,5_prime_UTR_variant,,ENST00000444491,;ITSN1,5_prime_UTR_variant,,ENST00000399338,;ITSN1,5_prime_UTR_variant,,ENST00000451686,;ITSN1,5_prime_UTR_variant,,ENST00000381285,;ITSN1,5_prime_UTR_variant,,ENST00000381318,;ITSN1,5_prime_UTR_variant,,ENST00000399349,;ITSN1,5_prime_UTR_variant,,ENST00000381283,;ITSN1,5_prime_UTR_variant,,ENST00000399355,;ITSN1,5_prime_UTR_variant,,ENST00000399367,;ITSN1,5_prime_UTR_variant,,ENST00000381291,;AP000304.12,intron_variant,,ENST00000429238,;ITSN1,upstream_gene_variant,,ENST00000399326,;ITSN1,upstream_gene_variant,,ENST00000437442,;ITSN1,upstream_gene_variant,,ENST00000379960,;ITSN1,non_coding_transcript_exon_variant,,ENST00000470742,;	T	ENSG00000205726	ENST00000381318	Transcript	5_prime_UTR_variant	271	.	.	.	.	.	.	.	1	ITSN1	HGNC	6183	protein_coding	YES	CCDS33545.1	ENSP00000370719	ITSN1_HUMAN	D6PAW2_HUMAN,C9JXS9_HUMAN,C9J1A4_HUMAN	UPI00001403C6	.	.	.	2/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAAGGTAAA	.	5	BLCA
RRP1	0	.	GRCh37	21	45219498	45219498	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859G>A	p.Asp287Asn	p.D287N	ENST00000497547	9/13	16	13	3	31	31	0	RRP1,missense_variant,p.Asp287Asn,ENST00000497547,;RRP1,non_coding_transcript_exon_variant,,ENST00000471909,;RRP1,downstream_gene_variant,,ENST00000475534,;RRP1,non_coding_transcript_exon_variant,,ENST00000467112,;RRP1,downstream_gene_variant,,ENST00000483896,;	A	ENSG00000160214	ENST00000497547	Transcript	missense_variant	976	859	287	D/N	Gac/Aac	.	.	.	1	RRP1	HGNC	18785	protein_coding	YES	CCDS42951.1	ENSP00000417464	RRP1_HUMAN	.	UPI0000130286	.	tolerated(0.07)	benign(0.015)	9/13	.	hmmpanther:PTHR13026:SF1,hmmpanther:PTHR13026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGTGACGAC	.	5	BLCA
COL6A2	0	.	GRCh37	21	47539014	47539014	+	Missense_Mutation	SNP	G	G	A	rs371383704	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1250G>A	p.Arg417His	p.R417H	ENST00000300527	14/28	17	11	6	23	23	0	COL6A2,missense_variant,p.Arg417His,ENST00000397763,;COL6A2,missense_variant,p.Arg417His,ENST00000310645,;COL6A2,missense_variant,p.Arg417His,ENST00000300527,;COL6A2,missense_variant,p.Arg417His,ENST00000357838,;COL6A2,missense_variant,p.Arg417His,ENST00000409416,;COL6A2,upstream_gene_variant,,ENST00000413758,;COL6A2,downstream_gene_variant,,ENST00000485591,;	A	ENSG00000142173	ENST00000300527	Transcript	missense_variant	1354	1250	417	R/H	cGc/cAc	rs371383704	.	.	1	COL6A2	HGNC	2212	protein_coding	YES	CCDS13728.1	ENSP00000300527	CO6A2_HUMAN	C9JH44_HUMAN	UPI00001AECE0	.	tolerated(0.08)	benign(0.41)	14/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF119,Pfam_domain:PF01391	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCGCGGAC	byFrequency|byCluster	2	BLCA
PI4KA	0	.	GRCh37	22	21174067	21174067	+	Silent	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.651C>A	p.%3D	p.L217L	ENST00000255882	6/55	147	111	36	197	197	0	PI4KA,synonymous_variant,p.%3D,ENST00000572273,;PI4KA,synonymous_variant,p.%3D,ENST00000255882,;PI4KA,downstream_gene_variant,,ENST00000449120,;PI4KA,non_coding_transcript_exon_variant,,ENST00000485963,;	T	ENSG00000241973	ENST00000255882	Transcript	synonymous_variant	738	651	217	L	ctC/ctA	.	.	.	-1	PI4KA	HGNC	8983	protein_coding	YES	CCDS33603.2	ENSP00000255882	.	Q4LE69_HUMAN,J3KN10_HUMAN,C9JLI1_HUMAN	UPI0000E06BD6	.	.	.	6/55	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACGGAGGGA	.	5	BLCA
MN1	0	.	GRCh37	22	28146949	28146949	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3917C>G	p.Ser1306Cys	p.S1306C	ENST00000302326	2/2	45	32	13	72	72	0	MN1,missense_variant,p.Ser1306Cys,ENST00000302326,;MN1,non_coding_transcript_exon_variant,,ENST00000497225,;MN1,missense_variant,p.Ser91Cys,ENST00000424656,;	C	ENSG00000169184	ENST00000302326	Transcript	missense_variant	4872	3917	1306	S/C	tCt/tGt	.	.	.	-1	MN1	HGNC	7180	protein_coding	YES	CCDS42998.1	ENSP00000304956	MN1_HUMAN	A5HML1_HUMAN	UPI0000207445	.	.	probably_damaging(0.997)	2/2	.	hmmpanther:PTHR15821	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCAGAATGC	.	5	BLCA
PLA2G3	0	.	GRCh37	22	31534263	31534263	+	Missense_Mutation	SNP	C	C	T	rs779578652	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.781G>A	p.Gly261Arg	p.G261R	ENST00000215885	3/7	17	14	3	18	18	0	PLA2G3,missense_variant,p.Gly261Arg,ENST00000215885,;INPP5J,downstream_gene_variant,,ENST00000401755,;INPP5J,downstream_gene_variant,,ENST00000404453,;INPP5J,downstream_gene_variant,,ENST00000412277,;INPP5J,downstream_gene_variant,,ENST00000405300,;INPP5J,downstream_gene_variant,,ENST00000404390,;INPP5J,downstream_gene_variant,,ENST00000331075,;INPP5J,downstream_gene_variant,,ENST00000402238,;INPP5J,downstream_gene_variant,,ENST00000400294,;INPP5J,downstream_gene_variant,,ENST00000461241,;	T	ENSG00000100078	ENST00000215885	Transcript	missense_variant	1034	781	261	G/R	Ggg/Agg	rs779578652	.	.	-1	PLA2G3	HGNC	17934	protein_coding	YES	CCDS13889.1	ENSP00000215885	PA2G3_HUMAN	.	UPI00001AE5E4	.	tolerated(0.13)	benign(0.198)	3/7	.	hmmpanther:PTHR12253:SF11,hmmpanther:PTHR12253,Gene3D:1.20.90.10,Superfamily_domains:SSF48619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTACCCGCCCC	.	2	BLCA
PLA2G3	0	.	GRCh37	22	31536024	31536024	+	Missense_Mutation	SNP	C	C	G	rs751992541	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317G>C	p.Arg106Thr	p.R106T	ENST00000215885	1/7	31	18	12	51	51	0	PLA2G3,missense_variant,p.Arg106Thr,ENST00000215885,;	G	ENSG00000100078	ENST00000215885	Transcript	missense_variant	570	317	106	R/T	aGa/aCa	rs751992541	.	.	-1	PLA2G3	HGNC	17934	protein_coding	YES	CCDS13889.1	ENSP00000215885	PA2G3_HUMAN	.	UPI00001AE5E4	.	tolerated(0.16)	benign(0.147)	1/7	.	hmmpanther:PTHR12253:SF11,hmmpanther:PTHR12253	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCTCTGC	.	5	BLCA
ST13	0	.	GRCh37	22	41223120	41223120	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.961G>C	p.Glu321Gln	p.E321Q	ENST00000216218	11/12	45	32	13	62	62	0	ST13,missense_variant,p.Glu321Gln,ENST00000216218,;ST13,downstream_gene_variant,,ENST00000480048,;ST13,downstream_gene_variant,,ENST00000413424,;ST13,downstream_gene_variant,,ENST00000455824,;	G	ENSG00000100380	ENST00000216218	Transcript	missense_variant	1443	961	321	E/Q	Gag/Cag	COSM727044	.	.	-1	ST13	HGNC	11343	protein_coding	YES	CCDS14006.1	ENSP00000216218	F10A1_HUMAN	Q0IJ56_HUMAN,F6VDH7_HUMAN,B7ZA40_HUMAN,B4E0U6_HUMAN	UPI000013605D	.	deleterious(0.03)	benign(0.419)	11/12	.	hmmpanther:PTHR22904:SF34,hmmpanther:PTHR22904,SMART_domains:SM00727	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCTGGAT	.	5	BLCA
ALG12	0	.	GRCh37	22	50303672	50303672	+	Silent	SNP	G	G	A	rs139916198	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.534C>T	p.%3D	p.F178F	ENST00000330817	5/10	23	15	7	29	29	0	ALG12,synonymous_variant,p.%3D,ENST00000330817,;ALG12,upstream_gene_variant,,ENST00000486602,;ALG12,synonymous_variant,p.%3D,ENST00000492791,;	A	ENSG00000182858	ENST00000330817	Transcript	synonymous_variant	808	534	178	F	ttC/ttT	rs139916198	.	.	-1	ALG12	HGNC	19358	protein_coding	YES	CCDS14081.1	ENSP00000333813	ALG12_HUMAN	.	UPI000006D8F9	.	.	.	5/10	.	Transmembrane_helices:TMhelix,Pfam_domain:PF03901,hmmpanther:PTHR22760:SF1,hmmpanther:PTHR22760	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGCGAAGGC	byCluster|by1000G	5	BLCA
NCAPH2	0	.	GRCh37	22	50956471	50956471	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.490C>T	p.Pro164Ser	p.P164S	ENST00000299821	6/20	38	28	10	55	55	0	NCAPH2,missense_variant,p.Pro130Ser,ENST00000523045,;NCAPH2,missense_variant,p.Pro164Ser,ENST00000395701,;NCAPH2,missense_variant,p.Pro164Ser,ENST00000420993,;NCAPH2,missense_variant,p.Pro164Ser,ENST00000299821,;NCAPH2,missense_variant,p.Pro164Ser,ENST00000395698,;NCAPH2,upstream_gene_variant,,ENST00000522304,;NCAPH2,upstream_gene_variant,,ENST00000520297,;NCAPH2,3_prime_UTR_variant,,ENST00000418794,;NCAPH2,3_prime_UTR_variant,,ENST00000518394,;NCAPH2,upstream_gene_variant,,ENST00000522048,;	T	ENSG00000025770	ENST00000299821	Transcript	missense_variant	568	490	164	P/S	Ccc/Tcc	.	.	.	1	NCAPH2	HGNC	25071	protein_coding	YES	CCDS54546.1	ENSP00000299821	CNDH2_HUMAN	.	UPI0000207A65	.	deleterious(0.01)	probably_damaging(0.978)	6/20	.	hmmpanther:PTHR14324:SF3,hmmpanther:PTHR14324,Pfam_domain:PF06278	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCCCCTG	.	5	BLCA
AFF3	0	.	GRCh37	2	100176889	100176889	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3204G>A	p.Met1068Ile	p.M1068I	ENST00000356421	20/24	58	47	11	87	87	0	AFF3,missense_variant,p.Met1068Ile,ENST00000409579,;AFF3,missense_variant,p.Met1068Ile,ENST00000356421,;AFF3,missense_variant,p.Met1043Ile,ENST00000317233,;AFF3,missense_variant,p.Met1043Ile,ENST00000409236,;AFF3,missense_variant,p.Met85Ile,ENST00000445815,;	T	ENSG00000144218	ENST00000356421	Transcript	missense_variant	3348	3204	1068	M/I	atG/atA	.	.	.	-1	AFF3	HGNC	6473	protein_coding	YES	CCDS33258.1	ENSP00000348793	AFF3_HUMAN	.	UPI000041098C	.	deleterious(0.01)	benign(0.055)	20/24	.	hmmpanther:PTHR10528,hmmpanther:PTHR10528:SF16,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCATAGC	.	5	BLCA
AC093838.4	0	.	GRCh37	2	132257818	132257818	+	RNA	SNP	C	C	T	rs36063185	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.541C>T	.	.	ENST00000438378	4/18	20	16	4	29	29	0	AC093838.4,non_coding_transcript_exon_variant,,ENST00000438378,;AC093838.4,non_coding_transcript_exon_variant,,ENST00000538598,;AC093838.4,non_coding_transcript_exon_variant,,ENST00000416745,;AC093838.4,non_coding_transcript_exon_variant,,ENST00000426369,;AC093838.4,non_coding_transcript_exon_variant,,ENST00000415574,;AC093838.4,non_coding_transcript_exon_variant,,ENST00000543513,;	T	ENSG00000152117	ENST00000438378	Transcript	non_coding_transcript_exon_variant	541	.	.	.	.	rs36063185	.	.	1	AC093838.4	Clone_based_vega_gene	.	processed_transcript	YES	.	.	.	.	.	.	.	.	4/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|VARSCANS	ATTTTCGGCAG	.	3	BLCA
RAB3GAP1	0	.	GRCh37	2	135888197	135888197	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142C>G	p.Ser381Ter	p.S381*	ENST00000442034	13/25	75	57	18	77	77	0	RAB3GAP1,stop_gained,p.Ser381Ter,ENST00000442034,;RAB3GAP1,stop_gained,p.Ser337Ter,ENST00000539493,;RAB3GAP1,stop_gained,p.Ser381Ter,ENST00000264158,;RAB3GAP1,non_coding_transcript_exon_variant,,ENST00000487003,;RAB3GAP1,non_coding_transcript_exon_variant,,ENST00000489858,;	G	ENSG00000115839	ENST00000442034	Transcript	stop_gained	1152	1142	381	S/*	tCa/tGa	COSM1305651	.	.	1	RAB3GAP1	HGNC	17063	protein_coding	YES	CCDS54402.1	ENSP00000411418	.	C9J837_HUMAN	UPI0000D4C196	.	.	.	13/25	.	hmmpanther:PTHR21422	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCAAATA	.	5	BLCA
WDSUB1	0	.	GRCh37	2	160139395	160139395	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>G	p.Phe62Leu	p.F62L	ENST00000409990	2/11	63	43	20	66	66	0	WDSUB1,missense_variant,p.Phe62Leu,ENST00000392796,;WDSUB1,missense_variant,p.Phe62Leu,ENST00000409124,;WDSUB1,missense_variant,p.Phe62Leu,ENST00000409990,;WDSUB1,missense_variant,p.Phe62Leu,ENST00000358147,;WDSUB1,missense_variant,p.Phe62Leu,ENST00000359774,;	C	ENSG00000196151	ENST00000409990	Transcript	missense_variant	443	186	62	F/L	ttC/ttG	.	.	.	-1	WDSUB1	HGNC	26697	protein_coding	YES	CCDS2208.1	ENSP00000387078	WSDU1_HUMAN	.	UPI0000141898	.	deleterious(0)	probably_damaging(0.999)	2/11	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR22849,hmmpanther:PTHR22849:SF0,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGAGAAACA	.	5	BLCA
PLA2R1	0	.	GRCh37	2	160798378	160798378	+	Missense_Mutation	SNP	G	G	A	rs755614255	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4303C>T	p.Arg1435Trp	p.R1435W	ENST00000283243	30/30	23	20	3	43	43	0	PLA2R1,missense_variant,p.Arg1435Trp,ENST00000283243,;PLA2R1,downstream_gene_variant,,ENST00000392771,;PLA2R1,non_coding_transcript_exon_variant,,ENST00000460710,;	A	ENSG00000153246	ENST00000283243	Transcript	missense_variant	4510	4303	1435	R/W	Cgg/Tgg	rs755614255	.	.	-1	PLA2R1	HGNC	9042	protein_coding	YES	CCDS33309.1	ENSP00000283243	PLA2R_HUMAN	.	UPI00001AEA9D	.	deleterious(0.02)	possibly_damaging(0.724)	30/30	.	hmmpanther:PTHR22803:SF71,hmmpanther:PTHR22803	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCCGAAACC	byFrequency	2	BLCA
SCN1A	0	.	GRCh37	2	166848778	166848778	+	Silent	SNP	C	C	T	rs750366817	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5007G>A	p.%3D	p.A1669A	ENST00000303395	26/26	91	68	22	93	93	0	SCN1A,synonymous_variant,p.%3D,ENST00000409050,;SCN1A,synonymous_variant,p.%3D,ENST00000423058,;SCN1A,synonymous_variant,p.%3D,ENST00000303395,;SCN1A,synonymous_variant,p.%3D,ENST00000375405,;AC010127.3,intron_variant,,ENST00000595647,;AC010127.3,intron_variant,,ENST00000597623,;SCN1A,downstream_gene_variant,,ENST00000473295,;	T	ENSG00000144285	ENST00000303395	Transcript	synonymous_variant	5007	5007	1669	A	gcG/gcA	rs750366817,COSM3837243,COSM3837242,COSM3837244	.	.	-1	SCN1A	HGNC	10585	protein_coding	YES	CCDS54413.1	ENSP00000303540	SCN1A_HUMAN	F8T7W7_HUMAN	UPI000003C71D	.	.	.	26/26	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF133,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAACGCAGG	byFrequency	5	BLCA
TTN	0	.	GRCh37	2	179424485	179424485	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86374G>C	p.Asp28792His	p.D28792H	ENST00000589042	326/363	115	102	13	138	138	0	TTN,missense_variant,p.Asp19852His,ENST00000359218,;TTN,missense_variant,p.Asp27151His,ENST00000591111,;TTN,missense_variant,p.Asp28792His,ENST00000589042,;TTN,missense_variant,p.Asp19919His,ENST00000342175,;TTN,missense_variant,p.Asp26224His,ENST00000342992,;TTN,missense_variant,p.Asp19727His,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	86599	86374	28792	D/H	Gac/Cac	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTGTCTGGCT	.	4	BLCA
RFTN2	0	.	GRCh37	2	198436896	198436896	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1342G>A	p.Glu448Lys	p.E448K	ENST00000295049	9/9	94	80	13	102	102	0	RFTN2,missense_variant,p.Glu140Lys,ENST00000454447,;RFTN2,missense_variant,p.Glu448Lys,ENST00000295049,;RFTN2,non_coding_transcript_exon_variant,,ENST00000494346,;	T	ENSG00000162944	ENST00000295049	Transcript	missense_variant	1879	1342	448	E/K	Gag/Aag	COSM3838231	.	.	-1	RFTN2	HGNC	26402	protein_coding	YES	CCDS2323.1	ENSP00000295049	RFTN2_HUMAN	C9J6C2_HUMAN	UPI000013E1F9	.	tolerated(0.38)	benign(0.004)	9/9	.	hmmpanther:PTHR17601,hmmpanther:PTHR17601:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCAGGCA	.	4	BLCA
SGOL2	0	.	GRCh37	2	201437743	201437743	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2674G>A	p.Asp892Asn	p.D892N	ENST00000357799	7/9	108	89	19	94	94	0	SGOL2,missense_variant,p.Asp892Asn,ENST00000357799,;SGOL2,downstream_gene_variant,,ENST00000409203,;	A	ENSG00000163535	ENST00000357799	Transcript	missense_variant	2772	2674	892	D/N	Gat/Aat	.	.	.	1	SGOL2	HGNC	30812	protein_coding	YES	CCDS42796.1	ENSP00000350447	SGOL2_HUMAN	C9JW92_HUMAN	UPI00001AEBF5	.	tolerated(0.28)	benign(0.066)	7/9	.	hmmpanther:PTHR21577:SF2,hmmpanther:PTHR21577	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACTGATAGG	.	5	BLCA
TRAK2	0	.	GRCh37	2	202259985	202259985	+	Intron	SNP	G	G	C	rs750488448	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900+52C>G	.	.	ENST00000332624	.	51	45	6	42	42	0	TRAK2,3_prime_UTR_variant,,ENST00000430254,;STRADB,intron_variant,,ENST00000458269,;TRAK2,intron_variant,,ENST00000332624,;TRAK2,downstream_gene_variant,,ENST00000486291,;	C	ENSG00000115993	ENST00000332624	Transcript	intron_variant	.	.	.	.	.	rs750488448	.	.	-1	TRAK2	HGNC	13206	protein_coding	YES	CCDS2347.1	ENSP00000328875	TRAK2_HUMAN	Q53TT7_HUMAN,Q53RS6_HUMAN	UPI0000125022	.	.	.	.	8/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCAAGATACT	.	4	BLCA
NBEAL1	0	.	GRCh37	2	204066416	204066416	+	Missense_Mutation	SNP	C	C	G	rs757817387	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7302C>G	p.Ile2434Met	p.I2434M	ENST00000449802	49/55	60	54	6	50	50	0	NBEAL1,missense_variant,p.Ile2434Met,ENST00000449802,;NBEAL1,missense_variant,p.Ile449Met,ENST00000414576,;	G	ENSG00000144426	ENST00000449802	Transcript	missense_variant	7635	7302	2434	I/M	atC/atG	rs757817387	.	.	1	NBEAL1	HGNC	20681	protein_coding	YES	CCDS46495.1	ENSP00000399903	NBEL1_HUMAN	.	UPI000194EC27	.	deleterious(0.02)	benign(0.133)	49/55	.	hmmpanther:PTHR13743:SF59,hmmpanther:PTHR13743,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTATCTCACA	.	2	BLCA
UGT1A8	0	.	GRCh37	2	234526713	234526713	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.360T>G	p.Phe120Leu	p.F120L	ENST00000373450	1/5	163	154	9	184	183	0	UGT1A8,missense_variant,p.Phe120Leu,ENST00000373450,;	G	ENSG00000241635	ENST00000373450	Transcript	missense_variant	423	360	120	F/L	ttT/ttG	.	.	.	1	UGT1A8	HGNC	12540	protein_coding	.	CCDS33402.1	ENSP00000362549	UD18_HUMAN	Q5DSZ6_HUMAN	UPI0000072F75	.	tolerated(0.82)	benign(0.001)	1/5	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF53756,Pfam_domain:PF00201,hmmpanther:PTHR11926:SF138,hmmpanther:PTHR11926	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTATTTTTTTC	.	2	BLCA
ANO7	0	.	GRCh37	2	242149760	242149760	+	Silent	SNP	C	C	A	rs757342841	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1572C>A	p.%3D	p.I524I	ENST00000274979	14/25	43	32	11	50	50	0	ANO7,synonymous_variant,p.%3D,ENST00000402430,;ANO7,synonymous_variant,p.%3D,ENST00000274979,;ANO7,upstream_gene_variant,,ENST00000471606,;	A	ENSG00000146205	ENST00000274979	Transcript	synonymous_variant	1675	1572	524	I	atC/atA	rs757342841	.	.	1	ANO7	HGNC	31677	protein_coding	YES	CCDS33423.1	ENSP00000274979	ANO7_HUMAN	.	UPI0000D612DB	.	.	.	14/25	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12308:SF22,hmmpanther:PTHR12308,Pfam_domain:PF04547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCATGGC	byFrequency	5	BLCA
ING5	0	.	GRCh37	2	242644111	242644111	+	Silent	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.81G>T	p.%3D	p.L27L	ENST00000313552	2/8	84	69	15	128	128	0	ING5,synonymous_variant,p.%3D,ENST00000406941,;ING5,synonymous_variant,p.%3D,ENST00000313552,;ING5,non_coding_transcript_exon_variant,,ENST00000482774,;ING5,synonymous_variant,p.%3D,ENST00000445620,;ING5,non_coding_transcript_exon_variant,,ENST00000493261,;ING5,non_coding_transcript_exon_variant,,ENST00000489509,;ING5,non_coding_transcript_exon_variant,,ENST00000492488,;ING5,upstream_gene_variant,,ENST00000484145,;	T	ENSG00000168395	ENST00000313552	Transcript	synonymous_variant	107	81	27	L	ctG/ctT	.	.	.	1	ING5	HGNC	19421	protein_coding	YES	CCDS33425.1	ENSP00000322142	ING5_HUMAN	.	UPI00000702CD	.	.	.	2/8	.	Pfam_domain:PF12998,hmmpanther:PTHR10333:SF41,hmmpanther:PTHR10333	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGATGCG	.	5	BLCA
OTOF	0	.	GRCh37	2	26698278	26698278	+	Silent	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3075G>C	p.%3D	p.L1025L	ENST00000272371	25/47	56	48	8	58	58	0	OTOF,synonymous_variant,p.%3D,ENST00000403946,;OTOF,synonymous_variant,p.%3D,ENST00000338581,;OTOF,synonymous_variant,p.%3D,ENST00000272371,;OTOF,synonymous_variant,p.%3D,ENST00000339598,;OTOF,synonymous_variant,p.%3D,ENST00000402415,;OTOF,upstream_gene_variant,,ENST00000426958,;	G	ENSG00000115155	ENST00000272371	Transcript	synonymous_variant	3202	3075	1025	L	ctG/ctC	.	.	.	-1	OTOF	HGNC	8515	protein_coding	YES	CCDS1725.1	ENSP00000272371	OTOF_HUMAN	.	UPI000013D94D	.	.	.	25/47	.	PROSITE_profiles:PS50004,hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF32,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCAGCTC	.	5	BLCA
TMEM214	0	.	GRCh37	2	27261629	27261629	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1353G>A	p.%3D	p.L451L	ENST00000238788	12/17	27	18	8	48	48	0	TMEM214,synonymous_variant,p.%3D,ENST00000425720,;TMEM214,synonymous_variant,p.%3D,ENST00000444135,;TMEM214,synonymous_variant,p.%3D,ENST00000404032,;TMEM214,synonymous_variant,p.%3D,ENST00000238788,;AGBL5,upstream_gene_variant,,ENST00000421915,;TMEM214,synonymous_variant,p.%3D,ENST00000321326,;TMEM214,synonymous_variant,p.%3D,ENST00000434544,;TMEM214,3_prime_UTR_variant,,ENST00000435172,;TMEM214,downstream_gene_variant,,ENST00000460904,;TMEM214,upstream_gene_variant,,ENST00000469445,;TMEM214,upstream_gene_variant,,ENST00000460665,;TMEM214,downstream_gene_variant,,ENST00000495312,;TMEM214,downstream_gene_variant,,ENST00000478980,;TMEM214,downstream_gene_variant,,ENST00000475258,;	A	ENSG00000119777	ENST00000238788	Transcript	synonymous_variant	1415	1353	451	L	ctG/ctA	.	.	.	1	TMEM214	HGNC	25983	protein_coding	YES	CCDS42664.1	ENSP00000238788	TM214_HUMAN	B2RD07_HUMAN	UPI00003FF926	.	.	.	12/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13448,Pfam_domain:PF10151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGGAA	.	5	BLCA
SLC5A6	0	.	GRCh37	2	27425742	27425742	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1214G>T	p.Gly405Val	p.G405V	ENST00000310574	12/17	125	104	21	165	165	0	SLC5A6,missense_variant,p.Gly405Val,ENST00000408041,;SLC5A6,missense_variant,p.Gly405Val,ENST00000310574,;SLC5A6,downstream_gene_variant,,ENST00000432106,;SLC5A6,downstream_gene_variant,,ENST00000412471,;SLC5A6,downstream_gene_variant,,ENST00000426119,;SLC5A6,downstream_gene_variant,,ENST00000442731,;SLC5A6,downstream_gene_variant,,ENST00000430186,;SLC5A6,downstream_gene_variant,,ENST00000401463,;SLC5A6,downstream_gene_variant,,ENST00000414408,;SLC5A6,downstream_gene_variant,,ENST00000428518,;SLC5A6,non_coding_transcript_exon_variant,,ENST00000461319,;SLC5A6,non_coding_transcript_exon_variant,,ENST00000481751,;SLC5A6,non_coding_transcript_exon_variant,,ENST00000476319,;SLC5A6,non_coding_transcript_exon_variant,,ENST00000488743,;SLC5A6,non_coding_transcript_exon_variant,,ENST00000461757,;SLC5A6,non_coding_transcript_exon_variant,,ENST00000492069,;SLC5A6,downstream_gene_variant,,ENST00000464538,;SLC5A6,downstream_gene_variant,,ENST00000445802,;	A	ENSG00000138074	ENST00000310574	Transcript	missense_variant	1688	1214	405	G/V	gGc/gTc	COSM3407784	.	.	-1	SLC5A6	HGNC	11041	protein_coding	YES	CCDS1740.1	ENSP00000310208	SC5A6_HUMAN	Q9HD19_HUMAN,E7EXC0_HUMAN,E7EW78_HUMAN,E7EW41_HUMAN,E7ERE1_HUMAN,E7EP02_HUMAN,E7ENN0_HUMAN,E7ENG0_HUMAN,E7EMX0_HUMAN	UPI000006DE33	.	tolerated(0.52)	benign(0.014)	12/17	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50283,hmmpanther:PTHR11819,hmmpanther:PTHR11819:SF124,Pfam_domain:PF00474,TIGRFAM_domain:TIGR00813	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAGCCAAAG	.	5	BLCA
SUPT7L	0	.	GRCh37	2	27880307	27880307	+	Missense_Mutation	SNP	C	C	T	rs765547884	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649G>A	p.Glu217Lys	p.E217K	ENST00000337768	4/6	56	45	11	46	46	0	SUPT7L,missense_variant,p.Glu215Lys,ENST00000464789,;SUPT7L,missense_variant,p.Glu215Lys,ENST00000405491,;SUPT7L,missense_variant,p.Glu82Lys,ENST00000404798,;SUPT7L,missense_variant,p.Glu215Lys,ENST00000406540,;SUPT7L,missense_variant,p.Glu217Lys,ENST00000337768,;	T	ENSG00000119760	ENST00000337768	Transcript	missense_variant	1219	649	217	E/K	Gag/Aag	rs765547884	.	.	-1	SUPT7L	HGNC	30632	protein_coding	YES	CCDS42667.1	ENSP00000336750	ST65G_HUMAN	.	UPI000013607D	.	deleterious(0.01)	possibly_damaging(0.73)	4/6	.	Pfam_domain:PF07524,SMART_domains:SM00576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCCATCA	.	5	BLCA
SOS1	0	.	GRCh37	2	39250312	39250312	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1257C>T	p.%3D	p.I419I	ENST00000426016	11/24	100	87	13	71	71	0	SOS1,synonymous_variant,p.%3D,ENST00000395038,;SOS1,synonymous_variant,p.%3D,ENST00000426016,;SOS1,synonymous_variant,p.%3D,ENST00000402219,;SOS1,3_prime_UTR_variant,,ENST00000428721,;SOS1,non_coding_transcript_exon_variant,,ENST00000472480,;SOS1,downstream_gene_variant,,ENST00000461545,;	A	ENSG00000115904	ENST00000426016	Transcript	synonymous_variant	1344	1257	419	I	atC/atT	.	.	.	-1	SOS1	HGNC	11187	protein_coding	YES	CCDS1802.1	ENSP00000387784	SOS1_HUMAN	Q9UKX9_HUMAN,Q53SF8_HUMAN,C9K0N6_HUMAN	UPI0000135CF0	.	.	.	11/24	.	Superfamily_domains:SSF50729,hmmpanther:PTHR23113:SF168,hmmpanther:PTHR23113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTGATTGC	.	4	BLCA
PSME4	0	.	GRCh37	2	54133982	54133982	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2808C>T	p.%3D	p.I936I	ENST00000404125	25/47	57	48	8	49	49	0	PSME4,synonymous_variant,p.%3D,ENST00000421748,;PSME4,synonymous_variant,p.%3D,ENST00000404125,;PSME4,3_prime_UTR_variant,,ENST00000389993,;PSME4,downstream_gene_variant,,ENST00000461810,;	A	ENSG00000068878	ENST00000404125	Transcript	synonymous_variant	2864	2808	936	I	atC/atT	.	.	.	-1	PSME4	HGNC	20635	protein_coding	YES	CCDS33197.2	ENSP00000384211	PSME4_HUMAN	.	UPI0000F3BE4A	.	.	.	25/47	.	hmmpanther:PTHR32170,hmmpanther:PTHR32170:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGATATG	.	5	BLCA
STAMBP	0	.	GRCh37	2	74074845	74074845	+	Missense_Mutation	SNP	C	C	T	rs766580482	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.707C>T	p.Ser236Phe	p.S236F	ENST00000394070	5/10	51	43	8	62	62	0	STAMBP,missense_variant,p.Ser236Phe,ENST00000409707,;STAMBP,missense_variant,p.Ser236Phe,ENST00000394070,;STAMBP,missense_variant,p.Ser236Phe,ENST00000394073,;STAMBP,missense_variant,p.Ser236Phe,ENST00000339566,;STAMBP,missense_variant,p.Ser236Phe,ENST00000432295,;STAMBP,intron_variant,,ENST00000536064,;STAMBP,downstream_gene_variant,,ENST00000424659,;STAMBP,downstream_gene_variant,,ENST00000452725,;STAMBP,non_coding_transcript_exon_variant,,ENST00000478946,;STAMBP,upstream_gene_variant,,ENST00000486458,;	T	ENSG00000124356	ENST00000394070	Transcript	missense_variant	1210	707	236	S/F	tCc/tTc	rs766580482	.	.	1	STAMBP	HGNC	16950	protein_coding	YES	CCDS1929.1	ENSP00000377633	STABP_HUMAN	C9JZ93_HUMAN,C9JK83_HUMAN,C9JEK5_HUMAN	UPI0000038DA0	.	deleterious(0)	probably_damaging(0.994)	5/10	.	hmmpanther:PTHR12947,hmmpanther:PTHR12947:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGTCCTTGA	byFrequency	4	BLCA
STAMBP	0	.	GRCh37	2	74077584	74077584	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949G>C	p.Glu317Gln	p.E317Q	ENST00000394070	7/10	81	64	16	78	77	0	STAMBP,missense_variant,p.Glu317Gln,ENST00000409707,;STAMBP,missense_variant,p.Glu317Gln,ENST00000394070,;STAMBP,missense_variant,p.Glu317Gln,ENST00000394073,;STAMBP,missense_variant,p.Glu317Gln,ENST00000339566,;STAMBP,missense_variant,p.Glu317Gln,ENST00000432295,;STAMBP,downstream_gene_variant,,ENST00000424659,;STAMBP,downstream_gene_variant,,ENST00000536064,;STAMBP,downstream_gene_variant,,ENST00000452725,;STAMBP,non_coding_transcript_exon_variant,,ENST00000486458,;STAMBP,downstream_gene_variant,,ENST00000478946,;	C	ENSG00000124356	ENST00000394070	Transcript	missense_variant	1452	949	317	E/Q	Gaa/Caa	COSM225152	.	.	1	STAMBP	HGNC	16950	protein_coding	YES	CCDS1929.1	ENSP00000377633	STABP_HUMAN	C9JZ93_HUMAN,C9JK83_HUMAN,C9JEK5_HUMAN	UPI0000038DA0	.	deleterious(0)	probably_damaging(0.999)	7/10	.	hmmpanther:PTHR12947,hmmpanther:PTHR12947:SF8,Pfam_domain:PF01398,Gene3D:3.40.140.10,SMART_domains:SM00232,Superfamily_domains:0048572	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGAAGAAGAA	.	5	BLCA
MOB1A	0	.	GRCh37	2	74399722	74399722	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172G>T	p.Ala58Ser	p.A58S	ENST00000396049	2/6	86	79	7	69	69	0	MOB1A,missense_variant,p.Ala58Ser,ENST00000396049,;MOB1A,missense_variant,p.Ala58Ser,ENST00000409969,;MOB1A,non_coding_transcript_exon_variant,,ENST00000495286,;MOB1A,non_coding_transcript_exon_variant,,ENST00000497054,;MOB1A,downstream_gene_variant,,ENST00000488006,;MOB1A,non_coding_transcript_exon_variant,,ENST00000463975,;	A	ENSG00000114978	ENST00000396049	Transcript	missense_variant	366	172	58	A/S	Gct/Tct	.	.	.	-1	MOB1A	HGNC	16015	protein_coding	YES	CCDS46340.1	ENSP00000379364	MOB1A_HUMAN	.	UPI0000028995	.	deleterious(0.02)	probably_damaging(0.994)	2/6	.	Superfamily_domains:0049093,Pfam_domain:PF03637,Gene3D:1pi1A00,hmmpanther:PTHR22599,hmmpanther:PTHR22599:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CACAGCAATCC	.	3	BLCA
POLR1A	0	.	GRCh37	2	86297203	86297203	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1804G>A	p.Glu602Lys	p.E602K	ENST00000263857	13/34	32	28	4	30	30	0	POLR1A,missense_variant,p.Glu602Lys,ENST00000409681,;POLR1A,missense_variant,p.Glu602Lys,ENST00000263857,;POLR1A,upstream_gene_variant,,ENST00000483538,;	T	ENSG00000068654	ENST00000263857	Transcript	missense_variant	2183	1804	602	E/K	Gag/Aag	.	.	.	-1	POLR1A	HGNC	17264	protein_coding	YES	CCDS42706.1	ENSP00000263857	RPA1_HUMAN	Q96AG9_HUMAN,Q53T12_HUMAN,B7Z8X7_HUMAN	UPI0000D7DB86	.	deleterious(0)	probably_damaging(1)	13/34	.	hmmpanther:PTHR19376,hmmpanther:PTHR19376:SF11,Pfam_domain:PF00623,Gene3D:2.40.40.20,SMART_domains:SM00663,Superfamily_domains:SSF64484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTCACTCT	.	2	BLCA
SLC9C1	0	.	GRCh37	3	111962879	111962879	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1242C>T	p.%3D	p.V414V	ENST00000305815	11/29	63	51	11	48	48	0	SLC9C1,synonymous_variant,p.%3D,ENST00000487372,;SLC9C1,synonymous_variant,p.%3D,ENST00000305815,;SLC9C1,intron_variant,,ENST00000471295,;	A	ENSG00000172139	ENST00000305815	Transcript	synonymous_variant	1495	1242	414	V	gtC/gtT	.	.	.	-1	SLC9C1	HGNC	31401	protein_coding	YES	CCDS33817.1	ENSP00000306627	SL9C1_HUMAN	C9J3M6_HUMAN	UPI00002372C5	.	.	.	11/29	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10110,hmmpanther:PTHR10110:SF87,Pfam_domain:PF00999	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATTGACAAC	.	5	BLCA
KPNA1	0	.	GRCh37	3	122215400	122215400	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13G>A	p.Gly5Arg	p.G5R	ENST00000344337	2/14	138	113	24	108	108	0	KPNA1,missense_variant,p.Gly5Arg,ENST00000493510,;KPNA1,missense_variant,p.Gly5Arg,ENST00000344337,;KPNA1,missense_variant,p.Gly5Arg,ENST00000476916,;KPNA1,missense_variant,p.Gly5Arg,ENST00000482287,;KPNA1,missense_variant,p.Gly5Arg,ENST00000465882,;KPNA1,missense_variant,p.Gly5Arg,ENST00000485027,;KPNA1,missense_variant,p.Gly5Arg,ENST00000494339,;	T	ENSG00000114030	ENST00000344337	Transcript	missense_variant	190	13	5	G/R	Gga/Aga	.	.	.	-1	KPNA1	HGNC	6394	protein_coding	YES	CCDS3013.1	ENSP00000343701	IMA5_HUMAN	C9JYI4_HUMAN,C9JWD9_HUMAN,C9J4U1_HUMAN,B3KXZ2_HUMAN	UPI000013D524	.	tolerated(0.06)	probably_damaging(0.939)	2/14	.	PROSITE_profiles:PS51214,hmmpanther:PTHR23316:SF3,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF01749,PIRSF_domain:PIRSF005673	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTCCTGGGG	.	5	BLCA
ATR	0	.	GRCh37	3	142261518	142261518	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3439G>A	p.Asp1147Asn	p.D1147N	ENST00000350721	17/47	31	27	4	42	42	0	ATR,missense_variant,p.Asp1083Asn,ENST00000383101,;ATR,missense_variant,p.Asp1147Asn,ENST00000350721,;	T	ENSG00000175054	ENST00000350721	Transcript	missense_variant	3561	3439	1147	D/N	Gat/Aat	.	.	.	-1	ATR	HGNC	882	protein_coding	YES	CCDS3124.1	ENSP00000343741	ATR_HUMAN	.	UPI0000031A31	.	tolerated(0.06)	possibly_damaging(0.597)	17/47	.	hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF64,Gene3D:1.25.10.10,Pfam_domain:PF08064,SMART_domains:SM00802,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTATCTTCAA	.	3	BLCA
C3orf20	0	.	GRCh37	3	14746055	14746055	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1090C>G	p.Gln364Glu	p.Q364E	ENST00000253697	7/17	217	190	27	326	325	0	C3orf20,missense_variant,p.Gln242Glu,ENST00000435614,;C3orf20,missense_variant,p.Gln242Glu,ENST00000412910,;C3orf20,missense_variant,p.Gln364Glu,ENST00000253697,;C3orf20,non_coding_transcript_exon_variant,,ENST00000495387,;	G	ENSG00000131379	ENST00000253697	Transcript	missense_variant	1542	1090	364	Q/E	Caa/Gaa	.	.	.	1	C3orf20	HGNC	25320	protein_coding	YES	CCDS33706.1	ENSP00000253697	CC020_HUMAN	.	UPI000013CDE9	.	tolerated(0.13)	possibly_damaging(0.716)	7/17	.	Pfam_domain:PF14977,hmmpanther:PTHR23093,hmmpanther:PTHR23093:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTGTCAAGAG	.	4	BLCA
AADACL2	0	.	GRCh37	3	151474906	151474906	+	Missense_Mutation	SNP	G	G	A	rs770531172	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.730G>A	p.Asp244Asn	p.D244N	ENST00000356517	5/5	153	124	29	172	172	0	AADACL2,missense_variant,p.Asp244Asn,ENST00000356517,;RP11-454C18.2,intron_variant,,ENST00000475855,;RP11-454C18.2,intron_variant,,ENST00000483843,;AADACL2,3_prime_UTR_variant,,ENST00000445270,;RP11-64D22.1,downstream_gene_variant,,ENST00000489539,;	A	ENSG00000197953	ENST00000356517	Transcript	missense_variant	839	730	244	D/N	Gat/Aat	rs770531172	.	.	1	AADACL2	HGNC	24427	protein_coding	YES	CCDS3161.2	ENSP00000348911	ADCL2_HUMAN	.	UPI000015F144	.	tolerated(0.24)	benign(0.071)	5/5	.	hmmpanther:PTHR23024,hmmpanther:PTHR23024:SF104,Pfam_domain:PF07859,Gene3D:3.40.50.1820,PIRSF_domain:PIRSF037251,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGGGATGTA	byFrequency	5	BLCA
TMEM14E	0	.	GRCh37	3	152058210	152058210	+	3'UTR	SNP	C	C	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*106G>T	.	.	ENST00000408960	1/1	32	24	8	31	31	0	TMEM14E,3_prime_UTR_variant,,ENST00000408960,;MBNL1,intron_variant,,ENST00000545754,;MBNL1,intron_variant,,ENST00000282486,;MBNL1,intron_variant,,ENST00000485509,;MBNL1,intron_variant,,ENST00000324196,;MBNL1,intron_variant,,ENST00000459747,;MBNL1,intron_variant,,ENST00000498502,;MBNL1,intron_variant,,ENST00000493459,;MBNL1,intron_variant,,ENST00000460591,;MBNL1,intron_variant,,ENST00000357472,;MBNL1,intron_variant,,ENST00000463374,;MBNL1,intron_variant,,ENST00000465907,;MBNL1,intron_variant,,ENST00000495875,;MBNL1,intron_variant,,ENST00000282488,;MBNL1,intron_variant,,ENST00000492948,;MBNL1,intron_variant,,ENST00000324210,;MBNL1,intron_variant,,ENST00000355460,;MBNL1,intron_variant,,ENST00000485910,;MBNL1,intron_variant,,ENST00000464596,;	A	ENSG00000221962	ENST00000408960	Transcript	3_prime_UTR_variant	570	.	.	.	.	.	.	.	-1	TMEM14E	HGNC	34386	protein_coding	YES	CCDS43161.1	ENSP00000386163	TM14E_HUMAN	.	UPI00001D6969	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTTTTCCTGCC	.	4	BLCA
OXNAD1	0	.	GRCh37	3	16312433	16312433	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8-19C>T	.	.	ENST00000285083	.	117	96	20	121	120	1	OXNAD1,splice_region_variant,,ENST00000435829,;OXNAD1,splice_region_variant,,ENST00000544043,;OXNAD1,intron_variant,,ENST00000606098,;OXNAD1,intron_variant,,ENST00000285083,;OXNAD1,intron_variant,,ENST00000605932,;OXNAD1,intron_variant,,ENST00000452581,;OXNAD1,intron_variant,,ENST00000486267,;OXNAD1,intron_variant,,ENST00000442255,;RP11-608O8.2,downstream_gene_variant,,ENST00000604305,;	T	ENSG00000154814	ENST00000285083	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	OXNAD1	HGNC	25128	protein_coding	YES	CCDS2630.1	ENSP00000285083	OXND1_HUMAN	.	UPI0000071465	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AATTTCAGTTT	.	3	BLCA
SI	0	.	GRCh37	3	164741437	164741437	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3020G>C	p.Arg1007Thr	p.R1007T	ENST00000264382	26/48	78	67	10	88	88	0	SI,missense_variant,p.Arg1007Thr,ENST00000264382,;	G	ENSG00000090402	ENST00000264382	Transcript	missense_variant	3083	3020	1007	R/T	aGa/aCa	.	.	.	-1	SI	HGNC	10856	protein_coding	YES	CCDS3196.1	ENSP00000264382	SUIS_HUMAN	.	UPI000022C287	.	tolerated(0.25)	benign(0.027)	26/48	.	Superfamily_domains:SSF74650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTATTCTGGCA	.	4	BLCA
PHC3	0	.	GRCh37	3	169846696	169846696	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1564C>A	p.Pro522Thr	p.P522T	ENST00000495893	8/15	87	72	14	66	66	0	PHC3,missense_variant,p.Pro522Thr,ENST00000495893,;PHC3,missense_variant,p.Pro469Thr,ENST00000467570,;PHC3,missense_variant,p.Pro510Thr,ENST00000494943,;PHC3,downstream_gene_variant,,ENST00000484931,;PHC3,upstream_gene_variant,,ENST00000486042,;PHC3,downstream_gene_variant,,ENST00000497171,;	T	ENSG00000173889	ENST00000495893	Transcript	missense_variant	1596	1564	522	P/T	Cca/Aca	.	.	.	-1	PHC3	HGNC	15682	protein_coding	YES	CCDS46952.1	ENSP00000420294	PHC3_HUMAN	C9JYH7_HUMAN	UPI00004DF1A6	.	deleterious(0.03)	possibly_damaging(0.544)	8/15	.	hmmpanther:PTHR12247,hmmpanther:PTHR12247:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTGGAGGAG	.	4	BLCA
OXSM	0	.	GRCh37	3	25835623	25835623	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1018G>C	p.Glu340Gln	p.E340Q	ENST00000280701	3/3	67	55	11	62	62	0	OXSM,missense_variant,p.Glu340Gln,ENST00000280701,;OXSM,missense_variant,p.Glu257Gln,ENST00000420173,;NGLY1,upstream_gene_variant,,ENST00000417874,;OXSM,downstream_gene_variant,,ENST00000452098,;OXSM,downstream_gene_variant,,ENST00000428266,;OXSM,downstream_gene_variant,,ENST00000449808,;OXSM,downstream_gene_variant,,ENST00000464688,;OXSM,3_prime_UTR_variant,,ENST00000448177,;	C	ENSG00000151093	ENST00000280701	Transcript	missense_variant	1117	1018	340	E/Q	Gag/Cag	COSM460817	.	.	1	OXSM	HGNC	26063	protein_coding	YES	CCDS2643.1	ENSP00000280701	OXSM_HUMAN	C9JQQ2_HUMAN,C9J2G3_HUMAN,B4E3Q7_HUMAN	UPI000004713F	.	tolerated(0.15)	benign(0.018)	3/3	.	hmmpanther:PTHR11712,TIGRFAM_domain:TIGR03150,Pfam_domain:PF02801,Gene3D:3.40.47.10,SMART_domains:SM00825,PIRSF_domain:PIRSF000447,Superfamily_domains:SSF53901	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTGAGGAG	.	5	BLCA
OXSM	0	.	GRCh37	3	25835901	25835901	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1296G>T	p.Trp432Cys	p.W432C	ENST00000280701	3/3	104	87	17	141	141	0	OXSM,missense_variant,p.Trp432Cys,ENST00000280701,;OXSM,missense_variant,p.Trp349Cys,ENST00000420173,;NGLY1,upstream_gene_variant,,ENST00000417874,;OXSM,downstream_gene_variant,,ENST00000452098,;OXSM,downstream_gene_variant,,ENST00000428266,;OXSM,downstream_gene_variant,,ENST00000449808,;OXSM,downstream_gene_variant,,ENST00000464688,;OXSM,3_prime_UTR_variant,,ENST00000448177,;	T	ENSG00000151093	ENST00000280701	Transcript	missense_variant	1395	1296	432	W/C	tgG/tgT	.	.	.	1	OXSM	HGNC	26063	protein_coding	YES	CCDS2643.1	ENSP00000280701	OXSM_HUMAN	C9JQQ2_HUMAN,C9J2G3_HUMAN,B4E3Q7_HUMAN	UPI000004713F	.	tolerated(0.18)	probably_damaging(0.994)	3/3	.	hmmpanther:PTHR11712,TIGRFAM_domain:TIGR03150,Gene3D:3.40.47.10,SMART_domains:SM00825,PIRSF_domain:PIRSF000447,Superfamily_domains:SSF53901	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAATGGAAAAC	.	3	BLCA
OXSM	0	.	GRCh37	3	25835910	25835910	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1305G>C	p.Glu435Asp	p.E435D	ENST00000280701	3/3	105	86	19	135	135	0	OXSM,missense_variant,p.Glu435Asp,ENST00000280701,;OXSM,missense_variant,p.Glu352Asp,ENST00000420173,;NGLY1,upstream_gene_variant,,ENST00000417874,;OXSM,downstream_gene_variant,,ENST00000452098,;OXSM,downstream_gene_variant,,ENST00000428266,;OXSM,downstream_gene_variant,,ENST00000449808,;OXSM,downstream_gene_variant,,ENST00000464688,;OXSM,3_prime_UTR_variant,,ENST00000448177,;	C	ENSG00000151093	ENST00000280701	Transcript	missense_variant	1404	1305	435	E/D	gaG/gaC	.	.	.	1	OXSM	HGNC	26063	protein_coding	YES	CCDS2643.1	ENSP00000280701	OXSM_HUMAN	C9JQQ2_HUMAN,C9J2G3_HUMAN,B4E3Q7_HUMAN	UPI000004713F	.	tolerated(0.85)	benign(0)	3/3	.	hmmpanther:PTHR11712,TIGRFAM_domain:TIGR03150,Gene3D:3.40.47.10,SMART_domains:SM00825,PIRSF_domain:PIRSF000447,Superfamily_domains:SSF53901	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTGAGAAAAG	.	3	BLCA
GADL1	0	.	GRCh37	3	30842412	30842412	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1219G>A	p.Glu407Lys	p.E407K	ENST00000282538	12/15	75	62	12	83	83	0	GADL1,missense_variant,p.Glu407Lys,ENST00000454381,;GADL1,missense_variant,p.Glu407Lys,ENST00000282538,;	T	ENSG00000144644	ENST00000282538	Transcript	missense_variant	1370	1219	407	E/K	Gaa/Aaa	.	.	.	-1	GADL1	HGNC	27949	protein_coding	YES	CCDS2649.2	ENSP00000282538	GADL1_HUMAN	.	UPI000022BF90	.	tolerated(0.64)	benign(0.034)	12/15	.	hmmpanther:PTHR11999,hmmpanther:PTHR11999:SF61,Gene3D:3.90.1150.10,Pfam_domain:PF00282,Superfamily_domains:SSF53383	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTCTTCAA	.	4	BLCA
TRAK1	0	.	GRCh37	3	42264837	42264837	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2470G>A	p.Glu824Lys	p.E824K	ENST00000327628	16/16	33	29	3	38	38	0	TRAK1,missense_variant,p.Glu766Lys,ENST00000396175,;TRAK1,missense_variant,p.Glu824Lys,ENST00000327628,;RNU4-78P,downstream_gene_variant,,ENST00000410940,;TRAK1,non_coding_transcript_exon_variant,,ENST00000487159,;	A	ENSG00000182606	ENST00000327628	Transcript	missense_variant	2870	2470	824	E/K	Gaa/Aaa	.	.	.	1	TRAK1	HGNC	29947	protein_coding	YES	CCDS43072.1	ENSP00000328998	TRAK1_HUMAN	.	UPI0000139F52	.	tolerated(0.65)	benign(0.243)	16/16	.	hmmpanther:PTHR15751:SF11,hmmpanther:PTHR15751,Pfam_domain:PF12448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAGAGAAAAG	.	4	BLCA
SS18L2	0	.	GRCh37	3	42632386	42632386	+	5'UTR	SNP	C	C	T	rs762938007	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4C>T	.	.	ENST00000447630	2/4	96	87	8	97	97	0	SS18L2,5_prime_UTR_variant,,ENST00000011691,;SS18L2,5_prime_UTR_variant,,ENST00000447630,;SEC22C,intron_variant,,ENST00000450981,;SEC22C,intron_variant,,ENST00000417572,;SS18L2,upstream_gene_variant,,ENST00000474941,;	T	ENSG00000008324	ENST00000447630	Transcript	5_prime_UTR_variant	205	.	.	.	.	rs762938007	.	.	1	SS18L2	HGNC	15593	protein_coding	YES	CCDS2701.1	ENSP00000401115	S18L2_HUMAN	.	UPI000013543E	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTCGGGAT	.	3	BLCA
KLHL18	0	.	GRCh37	3	47378027	47378027	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901G>A	p.Asp301Asn	p.D301N	ENST00000232766	7/10	31	24	7	32	32	0	KLHL18,missense_variant,p.Asp301Asn,ENST00000232766,;KLHL18,missense_variant,p.Asp189Asn,ENST00000455924,;KLHL18,splice_region_variant,,ENST00000461084,;KLHL18,splice_region_variant,,ENST00000442272,;	A	ENSG00000114648	ENST00000232766	Transcript	missense_variant	921	901	301	D/N	Gat/Aat	.	.	.	1	KLHL18	HGNC	29120	protein_coding	YES	CCDS33749.1	ENSP00000232766	KLH18_HUMAN	Q6PJF0_HUMAN,C9J4G4_HUMAN,B4DHW4_HUMAN	UPI00004703A5	.	tolerated(0.08)	probably_damaging(0.925)	7/10	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF139,Pfam_domain:PF01344,Gene3D:1k3iA02,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTGATTCC	.	5	BLCA
FLNB	0	.	GRCh37	3	57994444	57994444	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153C>T	p.%3D	p.I51I	ENST00000490882	1/47	82	69	13	104	104	0	FLNB,synonymous_variant,p.%3D,ENST00000429972,;FLNB,synonymous_variant,p.%3D,ENST00000295956,;FLNB,synonymous_variant,p.%3D,ENST00000348383,;FLNB,synonymous_variant,p.%3D,ENST00000358537,;FLNB,synonymous_variant,p.%3D,ENST00000490882,;FLNB,synonymous_variant,p.%3D,ENST00000357272,;	T	ENSG00000136068	ENST00000490882	Transcript	synonymous_variant	318	153	51	I	atC/atT	.	.	.	1	FLNB	HGNC	3755	protein_coding	YES	CCDS54599.1	ENSP00000420213	FLNB_HUMAN	.	UPI0001765F91	.	.	.	1/47	.	PROSITE_profiles:PS50021,hmmpanther:PTHR11915:SF238,hmmpanther:PTHR11915,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATCGCGCT	.	4	BLCA
DNASE1L3	0	.	GRCh37	3	58178615	58178615	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.802-85G>A	.	.	ENST00000318316	.	15	10	5	17	17	0	DNASE1L3,3_prime_UTR_variant,,ENST00000483681,;DNASE1L3,intron_variant,,ENST00000486455,;DNASE1L3,intron_variant,,ENST00000318316,;DNASE1L3,intron_variant,,ENST00000477209,;DNASE1L3,intron_variant,,ENST00000394549,;	T	ENSG00000163687	ENST00000318316	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DNASE1L3	HGNC	2959	protein_coding	YES	CCDS2886.1	ENSP00000316193	DNSL3_HUMAN	C9J9N0_HUMAN,C9J0L2_HUMAN	UPI0000129890	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACCAGGGA	.	5	BLCA
MINA	0	.	GRCh37	3	97668765	97668765	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.983C>G	p.Ser328Ter	p.S328*	ENST00000333396	7/10	68	60	8	69	69	0	MINA,stop_gained,p.Ser328Ter,ENST00000394198,;MINA,stop_gained,p.Ser327Ter,ENST00000360258,;MINA,stop_gained,p.Ser328Ter,ENST00000333396,;MINA,upstream_gene_variant,,ENST00000503097,;MINA,downstream_gene_variant,,ENST00000507612,;MINA,downstream_gene_variant,,ENST00000330299,;CRYBG3,downstream_gene_variant,,ENST00000182096,;CRYBG3,downstream_gene_variant,,ENST00000389622,;CRYBG3,downstream_gene_variant,,ENST00000485253,;MINA,3_prime_UTR_variant,,ENST00000514314,;MINA,non_coding_transcript_exon_variant,,ENST00000503517,;MINA,non_coding_transcript_exon_variant,,ENST00000506682,;	C	ENSG00000170854	ENST00000333396	Transcript	stop_gained	1566	983	328	S/*	tCa/tGa	.	.	.	-1	MINA	HGNC	19441	protein_coding	YES	CCDS43114.1	ENSP00000328251	MINA_HUMAN	D6RCB6_HUMAN	UPI0000074784	.	.	.	7/10	.	hmmpanther:PTHR13096,Pfam_domain:PF08007,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCTGAGGAA	.	4	BLCA
SEC24D	0	.	GRCh37	4	119718845	119718845	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1034C>T	p.Ser345Leu	p.S345L	ENST00000280551	8/23	56	41	15	75	75	0	SEC24D,missense_variant,p.Ser346Leu,ENST00000379735,;SEC24D,missense_variant,p.Ser345Leu,ENST00000280551,;SEC24D,5_prime_UTR_variant,,ENST00000419654,;SEC24D,3_prime_UTR_variant,,ENST00000514561,;SEC24D,3_prime_UTR_variant,,ENST00000506622,;SEC24D,3_prime_UTR_variant,,ENST00000509818,;	A	ENSG00000150961	ENST00000280551	Transcript	missense_variant	1273	1034	345	S/L	tCa/tTa	.	.	.	-1	SEC24D	HGNC	10706	protein_coding	YES	CCDS3710.1	ENSP00000280551	SC24D_HUMAN	E9PDM8_HUMAN,D6RGJ5_HUMAN	UPI00001AEA4F	.	deleterious(0.04)	benign(0.035)	8/23	.	hmmpanther:PTHR13803:SF6,hmmpanther:PTHR13803,Superfamily_domains:SSF81995	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTGAAGGA	.	5	BLCA
SEL1L3	0	.	GRCh37	4	25848952	25848952	+	Missense_Mutation	SNP	G	G	A	rs200984722	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.697C>T	p.Arg233Trp	p.R233W	ENST00000399878	2/24	49	32	16	82	82	0	SEL1L3,missense_variant,p.Arg233Trp,ENST00000399878,;SEL1L3,missense_variant,p.Arg80Trp,ENST00000502949,;SEL1L3,missense_variant,p.Arg198Trp,ENST00000264868,;SEL1L3,downstream_gene_variant,,ENST00000510880,;SEL1L3,downstream_gene_variant,,ENST00000514872,;SEL1L3,downstream_gene_variant,,ENST00000513691,;SEL1L3,intron_variant,,ENST00000513364,;	A	ENSG00000091490	ENST00000399878	Transcript	missense_variant	820	697	233	R/W	Cgg/Tgg	rs200984722	.	.	-1	SEL1L3	HGNC	29108	protein_coding	YES	CCDS47037.1	ENSP00000382767	SE1L3_HUMAN	D6RF11_HUMAN,D6RDH1_HUMAN,D6RCE1_HUMAN,B4DTH5_HUMAN	UPI00001D7736	.	tolerated(0.1)	benign(0.001)	2/24	.	hmmpanther:PTHR11102:SF58,hmmpanther:PTHR11102	A:0.0004	A:0.0008	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCCGAAGGT	byFrequency|byCluster|by1000G	5	BLCA
CSNK1G3	0	.	GRCh37	5	122893236	122893236	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267C>G	p.Phe89Leu	p.F89L	ENST00000395412	4/14	55	32	23	43	43	0	CSNK1G3,missense_variant,p.Phe89Leu,ENST00000395412,;CSNK1G3,missense_variant,p.Phe89Leu,ENST00000521364,;CSNK1G3,missense_variant,p.Phe14Leu,ENST00000512718,;CSNK1G3,missense_variant,p.Phe89Leu,ENST00000345990,;CSNK1G3,missense_variant,p.Phe89Leu,ENST00000395411,;CSNK1G3,missense_variant,p.Phe89Leu,ENST00000361991,;CSNK1G3,missense_variant,p.Phe89Leu,ENST00000510842,;CSNK1G3,missense_variant,p.Phe89Leu,ENST00000360683,;CSNK1G3,intron_variant,,ENST00000511130,;CSNK1G3,non_coding_transcript_exon_variant,,ENST00000514131,;	G	ENSG00000151292	ENST00000395412	Transcript	missense_variant	986	267	89	F/L	ttC/ttG	COSM1060140	.	.	1	CSNK1G3	HGNC	2456	protein_coding	YES	CCDS43355.1	ENSP00000378807	KC1G3_HUMAN	.	UPI000014149D	.	tolerated(0.12)	benign(0.09)	4/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11909:SF112,hmmpanther:PTHR11909,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCTATAA	.	5	BLCA
FBN2	0	.	GRCh37	5	127654688	127654688	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4477G>C	p.Asp1493His	p.D1493H	ENST00000508053	41/71	78	62	16	64	64	0	FBN2,missense_variant,p.Asp1493His,ENST00000262464,;FBN2,missense_variant,p.Asp1493His,ENST00000508053,;	G	ENSG00000138829	ENST00000508053	Transcript	missense_variant	5452	4477	1493	D/H	Gat/Cat	.	.	.	-1	FBN2	HGNC	3604	protein_coding	YES	CCDS34222.1	ENSP00000424571	FBN2_HUMAN	.	UPI0000519468	.	deleterious(0)	probably_damaging(0.988)	41/71	.	Superfamily_domains:SSF57184,Superfamily_domains:SSF57184,SMART_domains:SM00179,PIRSF_domain:PIRSF036312,Gene3D:2.10.25.10,Pfam_domain:PF07645,PROSITE_patterns:PS01187,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF19,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCAATAT	.	5	BLCA
SLC6A3	0	.	GRCh37	5	1403077	1403077	+	Missense_Mutation	SNP	G	G	A	rs773100141	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1727C>T	p.Ala576Val	p.A576V	ENST00000270349	13/15	57	52	4	35	35	0	SLC6A3,missense_variant,p.Ala576Val,ENST00000270349,;SLC6A3,missense_variant,p.Ala576Val,ENST00000453492,;SLC6A3,upstream_gene_variant,,ENST00000512002,;	A	ENSG00000142319	ENST00000270349	Transcript	missense_variant	1855	1727	576	A/V	gCg/gTg	rs773100141,COSM1434898	.	.	-1	SLC6A3	HGNC	11049	protein_coding	YES	CCDS3863.1	ENSP00000270349	SC6A3_HUMAN	Q6LC27_HUMAN,H0YBA7_HUMAN	UPI000013548F	.	tolerated(0.09)	benign(0.187)	13/15	.	Transmembrane_helices:TMhelix,Superfamily_domains:0053687,Pfam_domain:PF00209,hmmpanther:PTHR11616:SF38,hmmpanther:PTHR11616,PROSITE_profiles:PS50267	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGGCCGCATAG	byFrequency	2	BLCA
PCDHB16	0	.	GRCh37	5	140563664	140563664	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1530C>T	p.%3D	p.N510N	ENST00000361016	1/1	75	65	10	84	84	0	PCDHB16,synonymous_variant,p.%3D,ENST00000361016,;PCDHB8,downstream_gene_variant,,ENST00000239444,;PCDHB9,upstream_gene_variant,,ENST00000316105,;	T	ENSG00000196963	ENST00000361016	Transcript	synonymous_variant	2685	1530	510	N	aaC/aaT	.	.	.	1	PCDHB16	HGNC	14546	protein_coding	YES	CCDS4251.1	ENSP00000354293	PCDBG_HUMAN	.	UPI000006D372	.	.	.	1/1	.	Prints_domain:PR00205,Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF71,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACAACGGCCA	.	4	BLCA
GRIA1	0	.	GRCh37	5	153182047	153182047	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2547G>A	p.Met849Ile	p.M849I	ENST00000518783	15/16	211	133	78	210	209	0	GRIA1,missense_variant,p.Met759Ile,ENST00000518142,;GRIA1,missense_variant,p.Met849Ile,ENST00000518783,;GRIA1,missense_variant,p.Met770Ile,ENST00000521843,;GRIA1,missense_variant,p.Met839Ile,ENST00000285900,;GRIA1,missense_variant,p.Met849Ile,ENST00000448073,;GRIA1,missense_variant,p.Met839Ile,ENST00000340592,;	A	ENSG00000155511	ENST00000518783	Transcript	missense_variant	2574	2547	849	M/I	atG/atA	.	.	.	1	GRIA1	HGNC	4571	protein_coding	YES	CCDS58987.1	ENSP00000428994	GRIA1_HUMAN	.	UPI0001E8F433	.	deleterious(0.03)	probably_damaging(0.968)	15/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGATGAAGGT	.	5	BLCA
CANX	0	.	GRCh37	5	179134191	179134191	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304G>A	p.Gly102Arg	p.G102R	ENST00000247461	4/15	58	50	8	78	78	0	CANX,missense_variant,p.Gly102Arg,ENST00000502498,;CANX,missense_variant,p.Gly102Arg,ENST00000514383,;CANX,missense_variant,p.Gly102Arg,ENST00000452673,;CANX,missense_variant,p.Gly71Arg,ENST00000510810,;CANX,missense_variant,p.Gly102Arg,ENST00000502296,;CANX,missense_variant,p.Gly102Arg,ENST00000247461,;CANX,missense_variant,p.Gly137Arg,ENST00000415618,;CANX,missense_variant,p.Gly102Arg,ENST00000504734,;CANX,missense_variant,p.Gly102Arg,ENST00000513246,;CANX,splice_region_variant,,ENST00000506654,;CANX,intron_variant,,ENST00000512607,;CANX,intron_variant,,ENST00000502673,;CANX,upstream_gene_variant,,ENST00000508787,;CANX,downstream_gene_variant,,ENST00000509563,;CANX,downstream_gene_variant,,ENST00000507307,;CANX,splice_region_variant,,ENST00000503126,;CANX,intron_variant,,ENST00000504579,;CANX,intron_variant,,ENST00000514032,;CANX,upstream_gene_variant,,ENST00000506298,;	A	ENSG00000127022	ENST00000247461	Transcript	missense_variant	504	304	102	G/R	Gga/Aga	.	.	.	1	CANX	HGNC	1473	protein_coding	YES	CCDS4447.1	ENSP00000247461	CALX_HUMAN	D6RHJ3_HUMAN,D6RFW4_HUMAN,D6RFL1_HUMAN,D6RDP7_HUMAN,D6RB85_HUMAN,D6RAU8_HUMAN,D6RAQ8_HUMAN,B4E2T8_HUMAN	UPI000000D9F9	.	deleterious(0)	probably_damaging(1)	4/15	.	hmmpanther:PTHR11073,hmmpanther:PTHR11073:SF11,Gene3D:2.60.120.200,Pfam_domain:PF00262,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGATGGTGAG	.	4	BLCA
HMGCS1	0	.	GRCh37	5	43291259	43291259	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1537G>A	p.Ala513Thr	p.A513T	ENST00000325110	11/11	198	160	37	141	141	0	HMGCS1,missense_variant,p.Ala513Thr,ENST00000433297,;HMGCS1,missense_variant,p.Ala513Thr,ENST00000325110,;CTD-2636A23.2,downstream_gene_variant,,ENST00000565748,;CTD-2636A23.2,downstream_gene_variant,,ENST00000569313,;HMGCS1,downstream_gene_variant,,ENST00000508319,;HMGCS1,downstream_gene_variant,,ENST00000514610,;	T	ENSG00000112972	ENST00000325110	Transcript	missense_variant	1744	1537	513	A/T	Gct/Act	.	.	.	-1	HMGCS1	HGNC	5007	protein_coding	YES	CCDS34154.1	ENSP00000322706	HMCS1_HUMAN	Q8N995_HUMAN,D6RIW1_HUMAN	UPI000012C9BC	.	tolerated_low_confidence(0.13)	benign(0.001)	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACAGCTGCTT	.	3	BLCA
HMGCS1	0	.	GRCh37	5	43291265	43291265	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1531G>A	p.Glu511Lys	p.E511K	ENST00000325110	11/11	202	164	38	137	137	0	HMGCS1,missense_variant,p.Glu511Lys,ENST00000433297,;HMGCS1,missense_variant,p.Glu511Lys,ENST00000325110,;CTD-2636A23.2,downstream_gene_variant,,ENST00000565748,;CTD-2636A23.2,downstream_gene_variant,,ENST00000569313,;HMGCS1,downstream_gene_variant,,ENST00000508319,;HMGCS1,downstream_gene_variant,,ENST00000514610,;	T	ENSG00000112972	ENST00000325110	Transcript	missense_variant	1738	1531	511	E/K	Gaa/Aaa	.	.	.	-1	HMGCS1	HGNC	5007	protein_coding	YES	CCDS34154.1	ENSP00000322706	HMCS1_HUMAN	Q8N995_HUMAN,D6RIW1_HUMAN	UPI000012C9BC	.	tolerated_low_confidence(0.19)	benign(0.013)	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCTTCAGGTT	.	3	BLCA
PLK2	0	.	GRCh37	5	57753379	57753379	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.745C>G	p.Pro249Ala	p.P249A	ENST00000274289	6/14	58	40	17	73	73	0	PLK2,missense_variant,p.Pro249Ala,ENST00000274289,;PLK2,non_coding_transcript_exon_variant,,ENST00000502671,;PLK2,non_coding_transcript_exon_variant,,ENST00000509422,;PLK2,non_coding_transcript_exon_variant,,ENST00000503115,;PLK2,non_coding_transcript_exon_variant,,ENST00000515415,;PLK2,non_coding_transcript_exon_variant,,ENST00000509555,;PLK2,non_coding_transcript_exon_variant,,ENST00000508300,;PLK2,upstream_gene_variant,,ENST00000505244,;PLK2,downstream_gene_variant,,ENST00000514306,;PLK2,downstream_gene_variant,,ENST00000504196,;PLK2,upstream_gene_variant,,ENST00000511326,;PLK2,upstream_gene_variant,,ENST00000503378,;PLK2,upstream_gene_variant,,ENST00000510629,;PLK2,upstream_gene_variant,,ENST00000503713,;	C	ENSG00000145632	ENST00000274289	Transcript	missense_variant	1046	745	249	P/A	Cct/Gct	.	.	.	-1	PLK2	HGNC	19699	protein_coding	YES	CCDS3974.1	ENSP00000274289	PLK2_HUMAN	.	UPI0000135B35	.	deleterious(0)	probably_damaging(0.997)	6/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24345:SF44,hmmpanther:PTHR24345,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAGGAGAGA	.	5	BLCA
IQGAP2	0	.	GRCh37	5	75970356	75970356	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3349G>C	p.Asp1117His	p.D1117H	ENST00000274364	27/36	61	38	23	60	60	0	IQGAP2,missense_variant,p.Asp1067His,ENST00000505766,;IQGAP2,missense_variant,p.Asp1117His,ENST00000274364,;IQGAP2,missense_variant,p.Asp613His,ENST00000502745,;IQGAP2,missense_variant,p.Asp613His,ENST00000396234,;IQGAP2,missense_variant,p.Asp619His,ENST00000379730,;IQGAP2,downstream_gene_variant,,ENST00000514001,;IQGAP2,downstream_gene_variant,,ENST00000512383,;IQGAP2,missense_variant,p.Asp4His,ENST00000504477,;IQGAP2,upstream_gene_variant,,ENST00000512256,;IQGAP2,upstream_gene_variant,,ENST00000509741,;IQGAP2,downstream_gene_variant,,ENST00000504558,;	C	ENSG00000145703	ENST00000274364	Transcript	missense_variant	3646	3349	1117	D/H	Gat/Cat	.	.	.	1	IQGAP2	HGNC	6111	protein_coding	YES	CCDS34188.1	ENSP00000274364	IQGA2_HUMAN	E7EWC2_HUMAN,D6R939_HUMAN	UPI000020CB2C	.	deleterious(0)	probably_damaging(0.99)	27/36	.	PROSITE_profiles:PS50018,hmmpanther:PTHR14149,hmmpanther:PTHR14149:SF12,Gene3D:1.10.506.10,Pfam_domain:PF00616,SMART_domains:SM00323,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCAGATGGC	.	5	BLCA
RASA1	0	.	GRCh37	5	86686731	86686731	+	3'UTR	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*31C>T	.	.	ENST00000274376	25/25	41	27	14	53	53	0	RASA1,3_prime_UTR_variant,,ENST00000512763,;RASA1,3_prime_UTR_variant,,ENST00000274376,;RASA1,3_prime_UTR_variant,,ENST00000506290,;RASA1,3_prime_UTR_variant,,ENST00000456692,;CCNH,downstream_gene_variant,,ENST00000508855,;CCNH,downstream_gene_variant,,ENST00000256897,;CCNH,downstream_gene_variant,,ENST00000504878,;CCNH,downstream_gene_variant,,ENST00000510921,;RASA1,3_prime_UTR_variant,,ENST00000515800,;CCNH,downstream_gene_variant,,ENST00000505587,;CCNH,downstream_gene_variant,,ENST00000511207,;CCNH,downstream_gene_variant,,ENST00000504115,;	T	ENSG00000145715	ENST00000274376	Transcript	3_prime_UTR_variant	3739	.	.	.	.	.	.	.	1	RASA1	HGNC	9871	protein_coding	YES	CCDS34200.1	ENSP00000274376	RASA1_HUMAN	B4DTL8_HUMAN	UPI00001351F3	.	.	.	25/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATTCAGCAT	.	5	BLCA
REV3L	0	.	GRCh37	6	111694670	111694670	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4888G>C	p.Glu1630Gln	p.E1630Q	ENST00000358835	14/33	101	84	16	88	88	0	REV3L,missense_variant,p.Glu1552Gln,ENST00000435970,;REV3L,missense_variant,p.Glu1630Gln,ENST00000358835,;REV3L,missense_variant,p.Glu1630Gln,ENST00000368802,;REV3L,missense_variant,p.Glu1630Gln,ENST00000368805,;REV3L,3_prime_UTR_variant,,ENST00000434009,;REV3L,3_prime_UTR_variant,,ENST00000422377,;	G	ENSG00000009413	ENST00000358835	Transcript	missense_variant	5343	4888	1630	E/Q	Gaa/Caa	.	.	.	-1	REV3L	HGNC	9968	protein_coding	YES	CCDS5091.2	ENSP00000351697	DPOLZ_HUMAN	Q9UID5_HUMAN,C4TNX2_HUMAN,C4TNX1_HUMAN,C4TNX0_HUMAN,C4B7Q4_HUMAN	UPI0000140023	.	deleterious(0.01)	probably_damaging(0.998)	14/33	.	hmmpanther:PTHR10322:SF16,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTTTCAAAGC	.	4	BLCA
TSPYL4	0	.	GRCh37	6	116575051	116575051	+	Missense_Mutation	SNP	C	C	T	rs375496363	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121G>A	p.Glu41Lys	p.E41K	ENST00000420283	1/1	26	22	3	22	22	0	TSPYL4,missense_variant,p.Glu41Lys,ENST00000420283,;NT5DC1,downstream_gene_variant,,ENST00000319550,;DSE,upstream_gene_variant,,ENST00000540275,;DSE,upstream_gene_variant,,ENST00000430252,;RP3-486I3.7,upstream_gene_variant,,ENST00000448740,;RP3-486I3.4,downstream_gene_variant,,ENST00000435100,;	T	ENSG00000187189	ENST00000420283	Transcript	missense_variant	211	121	41	E/K	Gag/Aag	rs375496363	.	.	-1	TSPYL4	HGNC	21559	protein_coding	YES	CCDS5106.1	ENSP00000410943	TSYL4_HUMAN	Q69YV8_HUMAN	UPI00001BBB76	.	tolerated(0.15)	benign(0.005)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCTCGGTTT	byCluster	2	BLCA
PHACTR2	0	.	GRCh37	6	144086865	144086865	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1162G>A	p.Glu388Lys	p.E388K	ENST00000440869	6/13	111	86	25	99	99	0	PHACTR2,missense_variant,p.Glu377Lys,ENST00000427704,;PHACTR2,missense_variant,p.Glu388Lys,ENST00000440869,;PHACTR2,missense_variant,p.Glu297Lys,ENST00000305766,;PHACTR2,missense_variant,p.Glu365Lys,ENST00000367584,;PHACTR2,missense_variant,p.Glu308Lys,ENST00000367582,;PHACTR2,downstream_gene_variant,,ENST00000451827,;PHACTR2,downstream_gene_variant,,ENST00000542769,;PHACTR2,downstream_gene_variant,,ENST00000420771,;	A	ENSG00000112419	ENST00000440869	Transcript	missense_variant	1361	1162	388	E/K	Gaa/Aaa	COSM461886,COSM461885	.	.	1	PHACTR2	HGNC	20956	protein_coding	YES	CCDS47493.1	ENSP00000417038	PHAR2_HUMAN	.	UPI000020E355	.	deleterious_low_confidence(0.01)	benign(0.325)	6/13	.	hmmpanther:PTHR12751:SF5,hmmpanther:PTHR12751	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAAGAG	.	5	BLCA
TMEM181	0	.	GRCh37	6	159029430	159029430	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1150C>A	p.Gln384Lys	p.Q384K	ENST00000367090	9/17	88	66	21	81	81	0	TMEM181,missense_variant,p.Gln384Lys,ENST00000367090,;TATDN2P2,downstream_gene_variant,,ENST00000403590,;	A	ENSG00000146433	ENST00000367090	Transcript	missense_variant	1161	1150	384	Q/K	Cag/Aag	.	.	.	1	TMEM181	HGNC	20958	protein_coding	YES	CCDS43520.1	ENSP00000356057	TM181_HUMAN	.	UPI00001C1E40	.	deleterious(0.04)	probably_damaging(0.999)	9/17	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR31918,hmmpanther:PTHR31918:SF1,Pfam_domain:PF06664	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGTCC	.	5	BLCA
MLLT4	0	.	GRCh37	6	168352864	168352864	+	Silent	SNP	G	G	A	rs374331983	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4809G>A	p.%3D	p.A1603A	ENST00000392108	29/30	186	147	39	219	219	0	MLLT4,synonymous_variant,p.%3D,ENST00000507704,;MLLT4,synonymous_variant,p.%3D,ENST00000351017,;MLLT4,synonymous_variant,p.%3D,ENST00000447894,;MLLT4,synonymous_variant,p.%3D,ENST00000392108,;MLLT4,synonymous_variant,p.%3D,ENST00000392112,;MLLT4,synonymous_variant,p.%3D,ENST00000476946,;MLLT4,synonymous_variant,p.%3D,ENST00000344191,;MLLT4,synonymous_variant,p.%3D,ENST00000400822,;MLLT4,synonymous_variant,p.%3D,ENST00000366806,;MLLT4,downstream_gene_variant,,ENST00000507679,;MLLT4,non_coding_transcript_exon_variant,,ENST00000366809,;MLLT4,non_coding_transcript_exon_variant,,ENST00000511637,;MLLT4,downstream_gene_variant,,ENST00000509296,;	A	ENSG00000130396	ENST00000392108	Transcript	synonymous_variant	4951	4809	1603	A	gcG/gcA	rs374331983	.	.	1	MLLT4	HGNC	7137	protein_coding	YES	CCDS47517.1	ENSP00000375956	AFAD_HUMAN	.	UPI0000711FD9	.	.	.	29/30	.	hmmpanther:PTHR10398,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGCGAGGGT	byCluster	5	BLCA
DCDC2	0	.	GRCh37	6	24205302	24205302	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.951G>A	p.%3D	p.E317E	ENST00000378454	8/10	231	198	33	251	251	0	DCDC2,synonymous_variant,p.%3D,ENST00000378450,;DCDC2,synonymous_variant,p.%3D,ENST00000378454,;	T	ENSG00000146038	ENST00000378454	Transcript	synonymous_variant	1253	951	317	E	gaG/gaA	.	.	.	-1	DCDC2	HGNC	18141	protein_coding	YES	CCDS4550.1	ENSP00000367715	DCDC2_HUMAN	.	UPI000013DA24	.	.	.	8/10	.	hmmpanther:PTHR23004:SF5,hmmpanther:PTHR23004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTCTCTGC	.	4	BLCA
HIST1H1C	0	.	GRCh37	6	26056218	26056218	+	Missense_Mutation	SNP	G	G	A	rs527943061	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>T	p.Pro147Ser	p.P147S	ENST00000343677	1/1	175	144	30	208	208	0	HIST1H1C,missense_variant,p.Pro147Ser,ENST00000343677,;	A	ENSG00000187837	ENST00000343677	Transcript	missense_variant	482	439	147	P/S	Ccg/Tcg	rs527943061,COSM184071	.	.	-1	HIST1H1C	HGNC	4716	protein_coding	YES	CCDS4577.1	ENSP00000339566	H12_HUMAN	.	UPI0000001BD9	.	tolerated(0.11)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11467:SF23,hmmpanther:PTHR11467	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCGGAGTTG	by1000G	4	BLCA
BRD2	0	.	GRCh37	6	32942379	32942379	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173delC	p.Pro58LeufsTer28	p.P58Lfs*28	ENST00000395289	3/14	68	54	14	43	43	0	BRD2,frameshift_variant,p.Pro58LeufsTer28,ENST00000395289,;BRD2,frameshift_variant,p.Pro64LeufsTer28,ENST00000449025,;BRD2,frameshift_variant,p.Pro11LeufsTer28,ENST00000449085,;BRD2,frameshift_variant,p.Pro58LeufsTer28,ENST00000374825,;BRD2,frameshift_variant,p.Pro58LeufsTer28,ENST00000607833,;BRD2,frameshift_variant,p.Pro58LeufsTer28,ENST00000374831,;BRD2,frameshift_variant,p.Pro60LeufsTer28,ENST00000456339,;BRD2,frameshift_variant,p.Pro58LeufsTer28,ENST00000395287,;BRD2,5_prime_UTR_variant,,ENST00000443797,;BRD2,downstream_gene_variant,,ENST00000496118,;BRD2,upstream_gene_variant,,ENST00000606059,;XXbac-BPG181M17.6,upstream_gene_variant,,ENST00000580587,;BRD2-IT1,downstream_gene_variant,,ENST00000415875,;BRD2,downstream_gene_variant,,ENST00000580234,;BRD2,downstream_gene_variant,,ENST00000584808,;BRD2,downstream_gene_variant,,ENST00000581002,;BRD2,frameshift_variant,p.Pro58LeufsTer28,ENST00000482914,;BRD2,frameshift_variant,p.Pro58LeufsTer28,ENST00000495733,;BRD2,upstream_gene_variant,,ENST00000481259,;BRD2,upstream_gene_variant,,ENST00000469132,;BRD2,upstream_gene_variant,,ENST00000464592,;BRD2,upstream_gene_variant,,ENST00000463639,;	-	ENSG00000204256	ENST00000395289	Transcript	frameshift_variant	1771	170	57	T/X	aCc/ac	.	.	.	1	BRD2	HGNC	1103	protein_coding	YES	CCDS56420.1	ENSP00000378704	BRD2_HUMAN	U3KQA6_HUMAN	UPI0000227E6A	.	.	.	3/14	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AACTTACCCCTG	.	3	BLCA
TAPBP	0	.	GRCh37	6	33281050	33281050	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.413T>G	p.Leu138Arg	p.L138R	ENST00000426633	3/7	66	43	22	83	83	0	TAPBP,missense_variant,p.Leu138Arg,ENST00000456592,;TAPBP,missense_variant,p.Leu81Arg,ENST00000467025,;TAPBP,missense_variant,p.Leu138Arg,ENST00000426633,;TAPBP,missense_variant,p.Leu138Arg,ENST00000475304,;TAPBP,missense_variant,p.Leu138Arg,ENST00000434618,;TAPBP,intron_variant,,ENST00000489157,;ZBTB22,downstream_gene_variant,,ENST00000431845,;ZBTB22,downstream_gene_variant,,ENST00000418724,;ZBTB22,downstream_gene_variant,,ENST00000441117,;TAPBP,non_coding_transcript_exon_variant,,ENST00000476333,;TAPBP,non_coding_transcript_exon_variant,,ENST00000437116,;TAPBP,non_coding_transcript_exon_variant,,ENST00000480730,;	C	ENSG00000231925	ENST00000426633	Transcript	missense_variant	584	413	138	L/R	cTc/cGc	.	.	.	-1	TAPBP	HGNC	11566	protein_coding	YES	CCDS34428.2	ENSP00000404833	.	.	UPI0000E5AD4C	.	deleterious(0)	probably_damaging(0.999)	3/7	.	Prints_domain:PR01669,hmmpanther:PTHR23411:SF5,hmmpanther:PTHR23411,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAGAGGCTG	.	5	BLCA
CMTR1	0	.	GRCh37	6	37445393	37445393	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2131G>A	p.Glu711Lys	p.E711K	ENST00000373451	21/24	192	163	29	204	204	0	CMTR1,missense_variant,p.Glu711Lys,ENST00000373451,;CMTR1,missense_variant,p.Glu64Lys,ENST00000457419,;CMTR1,3_prime_UTR_variant,,ENST00000475364,;	A	ENSG00000137200	ENST00000373451	Transcript	missense_variant	2295	2131	711	E/K	Gag/Aag	.	.	.	1	CMTR1	HGNC	21077	protein_coding	YES	CCDS4835.1	ENSP00000362550	CMTR1_HUMAN	.	UPI00000700C2	.	deleterious(0.04)	benign(0.169)	21/24	.	hmmpanther:PTHR16121:SF0,hmmpanther:PTHR16121	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGAAGAGATG	.	4	BLCA
NFYA	0	.	GRCh37	6	41065207	41065207	+	3'UTR	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*58G>C	.	.	ENST00000341376	10/10	34	31	3	23	23	0	NFYA,3_prime_UTR_variant,,ENST00000341376,;NFYA,3_prime_UTR_variant,,ENST00000353205,;OARD1,intron_variant,,ENST00000488238,;OARD1,intron_variant,,ENST00000480585,;ADCY10P1,upstream_gene_variant,,ENST00000567255,;ADCY10P1,upstream_gene_variant,,ENST00000457653,;	C	ENSG00000001167	ENST00000341376	Transcript	3_prime_UTR_variant	1303	.	.	.	.	.	.	.	1	NFYA	HGNC	7804	protein_coding	YES	CCDS4849.1	ENSP00000345702	NFYA_HUMAN	K9JA49_HUMAN	UPI000012717C	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAATTGATCAA	.	2	BLCA
CUL9	0	.	GRCh37	6	43184229	43184229	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6270C>G	p.His2090Gln	p.H2090Q	ENST00000252050	31/41	128	103	24	128	128	0	CUL9,missense_variant,p.His1980Gln,ENST00000354495,;CUL9,missense_variant,p.His2062Gln,ENST00000372647,;CUL9,missense_variant,p.His2090Gln,ENST00000252050,;RP3-330M21.5,intron_variant,,ENST00000500590,;CUL9,downstream_gene_variant,,ENST00000502937,;CUL9,non_coding_transcript_exon_variant,,ENST00000508656,;CUL9,non_coding_transcript_exon_variant,,ENST00000515773,;CUL9,intron_variant,,ENST00000506830,;CUL9,upstream_gene_variant,,ENST00000512423,;CUL9,downstream_gene_variant,,ENST00000513904,;CUL9,downstream_gene_variant,,ENST00000504485,;CUL9,downstream_gene_variant,,ENST00000505172,;CUL9,downstream_gene_variant,,ENST00000502719,;	G	ENSG00000112659	ENST00000252050	Transcript	missense_variant	6354	6270	2090	H/Q	caC/caG	.	.	.	1	CUL9	HGNC	15982	protein_coding	YES	CCDS4890.1	ENSP00000252050	CUL9_HUMAN	.	UPI000006F22F	.	deleterious(0)	probably_damaging(0.99)	31/41	.	hmmpanther:PTHR22771:SF2,hmmpanther:PTHR22771,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCACTATTG	.	5	BLCA
XPO5	0	.	GRCh37	6	43491384	43491384	+	3'UTR	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*222G>C	.	.	ENST00000265351	32/32	62	51	11	64	64	0	XPO5,3_prime_UTR_variant,,ENST00000265351,;POLR1C,intron_variant,,ENST00000304004,;POLR1C,downstream_gene_variant,,ENST00000372389,;POLR1C,downstream_gene_variant,,ENST00000372344,;XPO5,downstream_gene_variant,,ENST00000455285,;POLR1C,downstream_gene_variant,,ENST00000423780,;POLR1C,downstream_gene_variant,,ENST00000428025,;RP3-337H4.9,upstream_gene_variant,,ENST00000607571,;XPO5,non_coding_transcript_exon_variant,,ENST00000455854,;XPO5,downstream_gene_variant,,ENST00000398835,;POLR1C,downstream_gene_variant,,ENST00000455605,;XPO5,downstream_gene_variant,,ENST00000450462,;POLR1C,downstream_gene_variant,,ENST00000488601,;POLR1C,downstream_gene_variant,,ENST00000481352,;XPO5,downstream_gene_variant,,ENST00000488195,;XPO5,downstream_gene_variant,,ENST00000486936,;POLR1C,downstream_gene_variant,,ENST00000512472,;	G	ENSG00000124571	ENST00000265351	Transcript	3_prime_UTR_variant	4048	.	.	.	.	.	.	.	-1	XPO5	HGNC	17675	protein_coding	YES	CCDS47430.1	ENSP00000265351	XPO5_HUMAN	E2QRM3_HUMAN	UPI000006CC97	.	.	.	32/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATCTAGAC	.	5	BLCA
SUPT3H	0	.	GRCh37	6	44929520	44929520	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583G>A	p.Glu195Lys	p.E195K	ENST00000371460	9/13	55	42	12	57	56	0	SUPT3H,missense_variant,p.Glu195Lys,ENST00000371461,;SUPT3H,missense_variant,p.Glu184Lys,ENST00000371459,;SUPT3H,missense_variant,p.Glu184Lys,ENST00000306867,;SUPT3H,missense_variant,p.Glu195Lys,ENST00000371460,;SUPT3H,missense_variant,p.Glu184Lys,ENST00000475057,;	T	ENSG00000196284	ENST00000371460	Transcript	missense_variant	901	583	195	E/K	Gaa/Aaa	.	.	.	-1	SUPT3H	HGNC	11466	protein_coding	YES	CCDS34466.1	ENSP00000360515	SUPT3_HUMAN	B4E1H0_HUMAN	UPI000018CE7C	.	tolerated(0.18)	probably_damaging(0.915)	9/13	.	hmmpanther:PTHR11380:SF3,hmmpanther:PTHR11380	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTCTGCAT	.	5	BLCA
DSP	0	.	GRCh37	6	7559514	7559514	+	Nonsense_Mutation	SNP	C	C	T	rs397516943	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478C>T	p.Arg160Ter	p.R160*	ENST00000379802	4/24	252	205	46	260	260	0	DSP,stop_gained,p.Arg160Ter,ENST00000379802,;DSP,stop_gained,p.Arg160Ter,ENST00000418664,;DSP,upstream_gene_variant,,ENST00000506617,;	T	ENSG00000096696	ENST00000379802	Transcript	stop_gained	819	478	160	R/*	Cga/Tga	rs397516943,COSM122709	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	4/24	.	hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	likely_pathogenic	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTCGAGTC	.	4	BLCA
DSP	0	.	GRCh37	6	7583560	7583560	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6065C>G	p.Ser2022Cys	p.S2022C	ENST00000379802	24/24	59	46	13	40	40	0	DSP,missense_variant,p.Ser2022Cys,ENST00000379802,;DSP,missense_variant,p.Ser1423Cys,ENST00000418664,;	G	ENSG00000096696	ENST00000379802	Transcript	missense_variant	6406	6065	2022	S/C	tCt/tGt	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	probably_damaging(0.997)	24/24	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCTGCTT	.	5	BLCA
ZNF292	0	.	GRCh37	6	87964497	87964497	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1150G>A	p.Glu384Lys	p.E384K	ENST00000369577	8/8	81	70	11	68	68	0	ZNF292,missense_variant,p.Glu384Lys,ENST00000369577,;ZNF292,missense_variant,p.Glu379Lys,ENST00000339907,;ZNF292,3_prime_UTR_variant,,ENST00000466062,;ZNF292,intron_variant,,ENST00000496806,;	A	ENSG00000188994	ENST00000369577	Transcript	missense_variant	1193	1150	384	E/K	Gaa/Aaa	.	.	.	1	ZNF292	HGNC	18410	protein_coding	YES	CCDS47457.1	ENSP00000358590	ZN292_HUMAN	Q6ZS01_HUMAN,Q6P495_HUMAN,Q3MN16_HUMAN	UPI000020D2CC	.	deleterious(0)	probably_damaging(0.99)	8/8	.	hmmpanther:PTHR15507,hmmpanther:PTHR15507:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTGGAAGTT	.	4	BLCA
ZNF292	0	.	GRCh37	6	87971439	87971439	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8092G>C	p.Glu2698Gln	p.E2698Q	ENST00000369577	8/8	34	29	5	37	37	0	ZNF292,missense_variant,p.Glu2698Gln,ENST00000369577,;ZNF292,missense_variant,p.Glu2693Gln,ENST00000339907,;ZNF292,downstream_gene_variant,,ENST00000496806,;	C	ENSG00000188994	ENST00000369577	Transcript	missense_variant	8135	8092	2698	E/Q	Gaa/Caa	.	.	.	1	ZNF292	HGNC	18410	protein_coding	YES	CCDS47457.1	ENSP00000358590	ZN292_HUMAN	Q6ZS01_HUMAN,Q6P495_HUMAN,Q3MN16_HUMAN	UPI000020D2CC	.	deleterious(0.01)	probably_damaging(0.911)	8/8	.	hmmpanther:PTHR15507,hmmpanther:PTHR15507:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTTGAAGTA	.	4	BLCA
LAMB4	0	.	GRCh37	7	107688500	107688500	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4179C>T	p.%3D	p.L1393L	ENST00000388781	28/34	80	62	17	102	102	0	LAMB4,synonymous_variant,p.%3D,ENST00000388781,;LAMB4,synonymous_variant,p.%3D,ENST00000422975,;LAMB4,synonymous_variant,p.%3D,ENST00000388780,;LAMB4,synonymous_variant,p.%3D,ENST00000205386,;LAMB4,upstream_gene_variant,,ENST00000475572,;	A	ENSG00000091128	ENST00000388781	Transcript	synonymous_variant	4263	4179	1393	L	ctC/ctT	.	.	.	-1	LAMB4	HGNC	6491	protein_coding	YES	CCDS34732.1	ENSP00000373433	LAMB4_HUMAN	C9JM08_HUMAN	UPI0000198CD5	.	.	.	28/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCAGAGAGC	.	5	BLCA
TRPV6	0	.	GRCh37	7	142575686	142575686	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222G>C	p.Gln74His	p.Q74H	ENST00000359396	2/15	50	39	11	86	86	0	TRPV6,missense_variant,p.Gln74His,ENST00000359396,;TRPV6,5_prime_UTR_variant,,ENST00000431833,;TRPV6,intron_variant,,ENST00000436401,;RP11-114L10.2,intron_variant,,ENST00000438839,;TRPV6,non_coding_transcript_exon_variant,,ENST00000489123,;TRPV6,non_coding_transcript_exon_variant,,ENST00000487077,;TRPV6,upstream_gene_variant,,ENST00000463646,;TRPV6,upstream_gene_variant,,ENST00000485138,;TRPV6,upstream_gene_variant,,ENST00000474388,;	G	ENSG00000165125	ENST00000359396	Transcript	missense_variant	468	222	74	Q/H	caG/caC	.	.	.	-1	TRPV6	HGNC	14006	protein_coding	YES	CCDS5874.1	ENSP00000352358	TRPV6_HUMAN	Q9NXZ3_HUMAN,Q8NBV5_HUMAN,C9J9W0_HUMAN	UPI000000D91B	.	deleterious(0.01)	possibly_damaging(0.782)	2/15	.	Superfamily_domains:SSF48403,SMART_domains:SM00248,TIGRFAM_domain:TIGR00870,Pfam_domain:PF12796,Gene3D:1.25.40.20,hmmpanther:PTHR10582,hmmpanther:PTHR10582:SF21,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTGGTG	.	5	BLCA
TAX1BP1	0	.	GRCh37	7	27797661	27797661	+	Silent	SNP	T	T	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174T>C	p.%3D	p.S58S	ENST00000396319	3/17	108	82	26	84	83	1	TAX1BP1,synonymous_variant,p.%3D,ENST00000396319,;TAX1BP1,synonymous_variant,p.%3D,ENST00000265393,;TAX1BP1,synonymous_variant,p.%3D,ENST00000422800,;TAX1BP1,synonymous_variant,p.%3D,ENST00000418691,;TAX1BP1,synonymous_variant,p.%3D,ENST00000543117,;TAX1BP1,synonymous_variant,p.%3D,ENST00000409980,;TAX1BP1,5_prime_UTR_variant,,ENST00000433216,;TAX1BP1,synonymous_variant,p.%3D,ENST00000416801,;TAX1BP1,non_coding_transcript_exon_variant,,ENST00000490455,;	C	ENSG00000106052	ENST00000396319	Transcript	synonymous_variant	262	174	58	S	agT/agC	.	.	.	1	TAX1BP1	HGNC	11575	protein_coding	YES	CCDS5415.1	ENSP00000379612	TAXB1_HUMAN	C9JBZ7_HUMAN,C9J7J4_HUMAN,A4D196_HUMAN	UPI00000723AD	.	.	.	3/17	.	Pfam_domain:PF07888,hmmpanther:PTHR31915,hmmpanther:PTHR31915:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGGAGTACTGC	.	4	BLCA
ELMO1	0	.	GRCh37	7	36895167	36895167	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2173G>C	p.Asp725His	p.D725H	ENST00000310758	22/22	127	106	21	116	116	0	ELMO1,missense_variant,p.Asp245His,ENST00000396045,;ELMO1,missense_variant,p.Asp725His,ENST00000442504,;ELMO1,missense_variant,p.Asp725His,ENST00000310758,;ELMO1,missense_variant,p.Asp245His,ENST00000396040,;ELMO1,missense_variant,p.Asp725His,ENST00000448602,;ELMO1,missense_variant,p.Asp427His,ENST00000341056,;ELMO1,non_coding_transcript_exon_variant,,ENST00000487843,;ELMO1,non_coding_transcript_exon_variant,,ENST00000497024,;	G	ENSG00000155849	ENST00000310758	Transcript	missense_variant	2821	2173	725	D/H	Gac/Cac	.	.	.	-1	ELMO1	HGNC	16286	protein_coding	YES	CCDS5449.1	ENSP00000312185	ELMO1_HUMAN	C9JIW2_HUMAN,C9JB20_HUMAN,C9J5X3_HUMAN,B4DJV6_HUMAN,A4D1X5_HUMAN	UPI000006F687	.	deleterious(0)	possibly_damaging(0.735)	22/22	.	hmmpanther:PTHR12771:SF23,hmmpanther:PTHR12771	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTCATAGA	.	5	BLCA
PKD1L1	0	.	GRCh37	7	47904867	47904867	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4096G>C	p.Glu1366Gln	p.E1366Q	ENST00000289672	26/57	32	25	7	26	26	0	PKD1L1,missense_variant,p.Glu1366Gln,ENST00000289672,;HUS1,intron_variant,,ENST00000436444,;	G	ENSG00000158683	ENST00000289672	Transcript	missense_variant	4147	4096	1366	E/Q	Gaa/Caa	.	.	.	-1	PKD1L1	HGNC	18053	protein_coding	YES	CCDS34633.1	ENSP00000289672	PK1L1_HUMAN	.	UPI0000130FA9	.	deleterious(0.03)	probably_damaging(0.925)	26/57	.	hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF32,PROSITE_profiles:PS51111	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTTCCT	.	5	BLCA
GBAS	0	.	GRCh37	7	56062621	56062621	+	Missense_Mutation	SNP	G	G	A	rs767257057	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652G>A	p.Glu218Lys	p.E218K	ENST00000322090	8/10	267	152	114	175	175	0	GBAS,missense_variant,p.Glu78Lys,ENST00000437587,;GBAS,missense_variant,p.Glu218Lys,ENST00000322090,;GBAS,missense_variant,p.Glu179Lys,ENST00000446778,;GBAS,3_prime_UTR_variant,,ENST00000415967,;GBAS,non_coding_transcript_exon_variant,,ENST00000497279,;	A	ENSG00000146729	ENST00000322090	Transcript	missense_variant	681	652	218	E/K	Gaa/Aaa	rs767257057	.	.	1	GBAS	HGNC	4179	protein_coding	YES	CCDS5521.1	ENSP00000313050	NIPS2_HUMAN	C9K068_HUMAN,C9J7B1_HUMAN	UPI00000015EB	.	deleterious(0)	possibly_damaging(0.905)	8/10	.	hmmpanther:PTHR21017:SF14,hmmpanther:PTHR21017,Gene3D:3.30.70.900,Pfam_domain:PF07978,Superfamily_domains:SSF54909	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAACGAAGCC	.	5	BLCA
PMS2	0	.	GRCh37	7	6043387	6043387	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287C>T	p.Ala96Val	p.A96V	ENST00000265849	4/15	70	66	4	52	52	0	PMS2,missense_variant,p.Ala96Val,ENST00000265849,;PMS2,missense_variant,p.Ala96Val,ENST00000382321,;PMS2,missense_variant,p.Ala96Val,ENST00000406569,;PMS2,intron_variant,,ENST00000441476,;Y_RNA,downstream_gene_variant,,ENST00000365120,;PMS2,intron_variant,,ENST00000469652,;PMS2,non_coding_transcript_exon_variant,,ENST00000415839,;PMS2,non_coding_transcript_exon_variant,,ENST00000380416,;	A	ENSG00000122512	ENST00000265849	Transcript	missense_variant	393	287	96	A/V	gCc/gTc	.	.	.	-1	PMS2	HGNC	9122	protein_coding	YES	CCDS5343.1	ENSP00000265849	PMS2_HUMAN	.	UPI000013D696	.	tolerated(0.1)	benign(0.151)	4/15	.	Superfamily_domains:SSF55874,Gene3D:3.30.565.10,Pfam_domain:PF13589,TIGRFAM_domain:TIGR00585,hmmpanther:PTHR10073,hmmpanther:PTHR10073:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCGGCAAAC	.	2	BLCA
ZNF12	0	.	GRCh37	7	6731373	6731373	+	Silent	SNP	C	C	T	rs541433447	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1200G>A	p.%3D	p.Q400Q	ENST00000405858	5/5	48	30	18	39	39	0	ZNF12,synonymous_variant,p.%3D,ENST00000405858,;ZNF12,synonymous_variant,p.%3D,ENST00000404360,;ZNF12,synonymous_variant,p.%3D,ENST00000342651,;AC073343.2,upstream_gene_variant,,ENST00000577401,;AC073343.13,intron_variant,,ENST00000366167,;	T	ENSG00000164631	ENST00000405858	Transcript	synonymous_variant	1742	1200	400	Q	caG/caA	rs541433447	.	.	-1	ZNF12	HGNC	12902	protein_coding	YES	CCDS47538.1	ENSP00000385939	ZNF12_HUMAN	.	UPI000020EAF7	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF85,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTGATG	by1000G	4	BLCA
SEMA3A	0	.	GRCh37	7	83590623	83590623	+	3'UTR	SNP	T	T	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*64A>G	.	.	ENST00000265362	17/17	55	43	12	52	52	0	SEMA3A,3_prime_UTR_variant,,ENST00000265362,;SEMA3A,3_prime_UTR_variant,,ENST00000436949,;	C	ENSG00000075213	ENST00000265362	Transcript	3_prime_UTR_variant	2695	.	.	.	.	.	.	.	-1	SEMA3A	HGNC	10723	protein_coding	YES	CCDS5599.1	ENSP00000265362	SEM3A_HUMAN	Q86UJ2_HUMAN,Q75MQ2_HUMAN,C9JD25_HUMAN,C9J9C4_HUMAN	UPI0000135A60	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGCATTTGTTT	.	4	BLCA
PILRA	0	.	GRCh37	7	99971727	99971727	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.125C>G	p.Ser42Ter	p.S42*	ENST00000198536	2/7	52	45	7	48	48	0	PILRA,stop_gained,p.Ser42Ter,ENST00000350573,;PILRA,stop_gained,p.Ser42Ter,ENST00000432297,;PILRA,stop_gained,p.Ser42Ter,ENST00000198536,;PILRA,stop_gained,p.Ser42Ter,ENST00000394000,;PILRA,stop_gained,p.Ser42Ter,ENST00000453419,;PILRA,non_coding_transcript_exon_variant,,ENST00000474013,;PILRA,non_coding_transcript_exon_variant,,ENST00000484934,;	G	ENSG00000085514	ENST00000198536	Transcript	stop_gained	337	125	42	S/*	tCa/tGa	.	.	.	1	PILRA	HGNC	20396	protein_coding	YES	CCDS5691.1	ENSP00000198536	PILRA_HUMAN	.	UPI000013C61C	.	.	.	2/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR15549,hmmpanther:PTHR15549:SF1,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAGCCT	.	4	BLCA
ENPP2	0	.	GRCh37	8	120638956	120638956	+	Silent	SNP	T	T	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141A>G	p.%3D	p.L47L	ENST00000259486	3/26	39	25	14	60	60	0	ENPP2,synonymous_variant,p.%3D,ENST00000259486,;ENPP2,synonymous_variant,p.%3D,ENST00000520066,;ENPP2,synonymous_variant,p.%3D,ENST00000075322,;ENPP2,synonymous_variant,p.%3D,ENST00000427067,;ENPP2,synonymous_variant,p.%3D,ENST00000522826,;ENPP2,synonymous_variant,p.%3D,ENST00000518958,;	C	ENSG00000136960	ENST00000259486	Transcript	synonymous_variant	191	141	47	L	ctA/ctG	.	.	.	-1	ENPP2	HGNC	3357	protein_coding	YES	CCDS6329.1	ENSP00000259486	ENPP2_HUMAN	.	UPI000013C57A	.	.	.	3/26	.	hmmpanther:PTHR10151,hmmpanther:PTHR10151:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGATAGCAC	.	5	BLCA
TSTA3	0	.	GRCh37	8	144696807	144696807	+	Missense_Mutation	SNP	C	C	T	rs780777231	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>A	p.Asp151Asn	p.D151N	ENST00000425753	5/11	70	42	27	60	60	0	TSTA3,missense_variant,p.Asp151Asn,ENST00000529048,;TSTA3,missense_variant,p.Asp151Asn,ENST00000425753,;TSTA3,missense_variant,p.Asp151Asn,ENST00000529064,;TSTA3,missense_variant,p.Asp151Asn,ENST00000533817,;TSTA3,upstream_gene_variant,,ENST00000524719,;TSTA3,downstream_gene_variant,,ENST00000527006,;TSTA3,downstream_gene_variant,,ENST00000526290,;PYCRL,upstream_gene_variant,,ENST00000495276,;TSTA3,3_prime_UTR_variant,,ENST00000530474,;TSTA3,non_coding_transcript_exon_variant,,ENST00000525274,;TSTA3,non_coding_transcript_exon_variant,,ENST00000531473,;TSTA3,non_coding_transcript_exon_variant,,ENST00000532308,;TSTA3,upstream_gene_variant,,ENST00000528920,;TSTA3,downstream_gene_variant,,ENST00000531006,;TSTA3,downstream_gene_variant,,ENST00000527549,;TSTA3,upstream_gene_variant,,ENST00000527677,;TSTA3,downstream_gene_variant,,ENST00000529899,;	T	ENSG00000104522	ENST00000425753	Transcript	missense_variant	555	451	151	D/N	Gac/Aac	rs780777231	.	.	-1	TSTA3	HGNC	12390	protein_coding	YES	CCDS6408.1	ENSP00000398803	FCL_HUMAN	E9PP14_HUMAN,E9PLH9_HUMAN,E9PKL9_HUMAN	UPI000012A5A5	.	deleterious(0)	probably_damaging(0.988)	5/11	.	HAMAP:MF_00956,hmmpanther:PTHR10366:SF259,hmmpanther:PTHR10366,Gene3D:3.40.50.720,Pfam_domain:PF01370,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGTCGATCA	.	5	BLCA
MAPK15	0	.	GRCh37	8	144803417	144803417	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1040G>T	p.Gly347Val	p.G347V	ENST00000338033	11/14	100	67	33	95	95	0	MAPK15,missense_variant,p.Gly347Val,ENST00000338033,;MAPK15,downstream_gene_variant,,ENST00000395107,;MAPK15,downstream_gene_variant,,ENST00000395108,;FAM83H,downstream_gene_variant,,ENST00000388913,;RP11-429J17.5,upstream_gene_variant,,ENST00000527908,;MAPK15,non_coding_transcript_exon_variant,,ENST00000533830,;MAPK15,non_coding_transcript_exon_variant,,ENST00000461928,;MAPK15,non_coding_transcript_exon_variant,,ENST00000484654,;MAPK15,upstream_gene_variant,,ENST00000528175,;MAPK15,downstream_gene_variant,,ENST00000475376,;FAM83H,downstream_gene_variant,,ENST00000395103,;	T	ENSG00000181085	ENST00000338033	Transcript	missense_variant	1159	1040	347	G/V	gGa/gTa	.	.	.	1	MAPK15	HGNC	24667	protein_coding	YES	CCDS6409.2	ENSP00000337691	MK15_HUMAN	.	UPI00000496E7	.	deleterious(0.01)	benign(0.013)	11/14	.	hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF79	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTGGAGGCA	.	5	BLCA
BMP1	0	.	GRCh37	8	22053809	22053809	+	Intron	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1766-384C>T	.	.	ENST00000306385	.	26	15	11	24	24	0	BMP1,3_prime_UTR_variant,,ENST00000397814,;BMP1,intron_variant,,ENST00000354870,;BMP1,intron_variant,,ENST00000306385,;BMP1,intron_variant,,ENST00000306349,;BMP1,intron_variant,,ENST00000397816,;BMP1,downstream_gene_variant,,ENST00000523749,;BMP1,3_prime_UTR_variant,,ENST00000471755,;BMP1,intron_variant,,ENST00000483364,;BMP1,intron_variant,,ENST00000518913,;BMP1,intron_variant,,ENST00000521385,;BMP1,intron_variant,,ENST00000520970,;BMP1,intron_variant,,ENST00000520626,;BMP1,intron_variant,,ENST00000520982,;BMP1,downstream_gene_variant,,ENST00000523457,;BMP1,downstream_gene_variant,,ENST00000517324,;BMP1,upstream_gene_variant,,ENST00000522332,;	T	ENSG00000168487	ENST00000306385	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	BMP1	HGNC	1067	protein_coding	YES	CCDS6026.1	ENSP00000305714	BMP1_HUMAN	.	UPI0000049818	.	.	.	.	13/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCACTAG	.	5	BLCA
EBF2	0	.	GRCh37	8	25745427	25745427	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813C>T	p.%3D	p.V271V	ENST00000520164	9/16	51	38	13	66	66	0	EBF2,synonymous_variant,p.%3D,ENST00000408929,;EBF2,synonymous_variant,p.%3D,ENST00000535548,;EBF2,synonymous_variant,p.%3D,ENST00000520164,;	A	ENSG00000221818	ENST00000520164	Transcript	synonymous_variant	1351	813	271	V	gtC/gtT	.	.	.	-1	EBF2	HGNC	19090	protein_coding	YES	CCDS43726.1	ENSP00000430241	COE2_HUMAN	B7Z934_HUMAN,B2RNT0_HUMAN	UPI0000DD7EC9	.	.	.	9/16	.	hmmpanther:PTHR10747,Pfam_domain:PF01833,Gene3D:2.60.40.10,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGATGACCAT	.	5	BLCA
RP1	0	.	GRCh37	8	55538471	55538471	+	Nonsense_Mutation	SNP	C	C	T	rs104894082	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2029C>T	p.Arg677Ter	p.R677*	ENST00000220676	4/4	61	43	17	57	56	1	RP1,stop_gained,p.Arg677Ter,ENST00000220676,;	T	ENSG00000104237	ENST00000220676	Transcript	stop_gained	2177	2029	677	R/*	Cga/Tga	CM991103,CD992276,rs104894082,COSM3779278	.	.	1	RP1	HGNC	10263	protein_coding	YES	CCDS6160.1	ENSP00000220676	RP1_HUMAN	A0FDN2_HUMAN	UPI000013455B	.	.	.	4/4	.	hmmpanther:PTHR23005:SF4,hmmpanther:PTHR23005	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCGACAG	byCluster	5	BLCA
CHD7	0	.	GRCh37	8	61761089	61761089	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5226C>T	p.%3D	p.V1742V	ENST00000423902	24/38	8	5	3	11	11	0	CHD7,synonymous_variant,p.%3D,ENST00000423902,;CHD7,intron_variant,,ENST00000524602,;CHD7,upstream_gene_variant,,ENST00000527921,;	T	ENSG00000171316	ENST00000423902	Transcript	synonymous_variant	5705	5226	1742	V	gtC/gtT	.	.	.	1	CHD7	HGNC	20626	protein_coding	YES	CCDS47865.1	ENSP00000392028	CHD7_HUMAN	H0YDC1_HUMAN,E9PP20_HUMAN	UPI0000251DA6	.	.	.	24/38	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF551	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CGTGTCCGCAT	.	2	BLCA
MCMDC2	0	.	GRCh37	8	67813598	67813598	+	Intron	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1769+15C>G	.	.	ENST00000422365	.	74	59	15	82	82	0	MCMDC2,3_prime_UTR_variant,,ENST00000396592,;MCMDC2,intron_variant,,ENST00000541540,;MCMDC2,intron_variant,,ENST00000313616,;MCMDC2,intron_variant,,ENST00000422365,;MCMDC2,intron_variant,,ENST00000415737,;MCMDC2,intron_variant,,ENST00000428734,;	G	ENSG00000178460	ENST00000422365	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MCMDC2	HGNC	26368	protein_coding	YES	CCDS6197.2	ENSP00000413632	MCMD2_HUMAN	.	UPI00002107AF	.	.	.	.	13/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCAAGAT	.	5	BLCA
MUSK	0	.	GRCh37	9	113547282	113547282	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1572G>A	p.Trp524Ter	p.W524*	ENST00000374448	12/15	141	92	48	106	106	0	MUSK,stop_gained,p.Trp524Ter,ENST00000374448,;MUSK,stop_gained,p.Trp524Ter,ENST00000189978,;MUSK,stop_gained,p.Trp516Ter,ENST00000416899,;MUSK,intron_variant,,ENST00000374438,;	A	ENSG00000030304	ENST00000374448	Transcript	stop_gained	1706	1572	524	W/*	tgG/tgA	.	.	.	1	MUSK	HGNC	7525	protein_coding	YES	CCDS48005.1	ENSP00000363571	MUSK_HUMAN	.	UPI000006D2F7	.	.	.	12/15	.	Gene3D:3.30.200.20,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF63	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATGGAAAAA	.	5	BLCA
ZNF483	0	.	GRCh37	9	114290002	114290002	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>C	p.Arg109Ser	p.R109S	ENST00000309235	2/6	109	59	49	86	86	0	ZNF483,missense_variant,p.Arg109Ser,ENST00000309235,;ZNF483,missense_variant,p.Arg109Ser,ENST00000355824,;ZNF483,missense_variant,p.Arg109Ser,ENST00000374374,;ZNF483,missense_variant,p.Arg109Ser,ENST00000358151,;	C	ENSG00000173258	ENST00000309235	Transcript	missense_variant	485	327	109	R/S	agG/agC	COSM1489573	.	.	1	ZNF483	HGNC	23384	protein_coding	YES	CCDS35106.1	ENSP00000311679	ZN483_HUMAN	.	UPI00001C1EBF	.	deleterious(0)	possibly_damaging(0.537)	2/6	.	PROSITE_profiles:PS50804,Pfam_domain:PF02023,SMART_domains:SM00431,Superfamily_domains:SSF47353	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCAGGATTTG	.	5	BLCA
SPTAN1	0	.	GRCh37	9	131370143	131370143	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4159G>A	p.Glu1387Lys	p.E1387K	ENST00000372739	33/57	67	51	16	56	56	0	SPTAN1,missense_variant,p.Glu1387Lys,ENST00000372739,;SPTAN1,missense_variant,p.Glu1387Lys,ENST00000358161,;SPTAN1,missense_variant,p.Glu1387Lys,ENST00000372731,;SPTAN1,non_coding_transcript_exon_variant,,ENST00000461855,;SPTAN1,upstream_gene_variant,,ENST00000476825,;	A	ENSG00000197694	ENST00000372739	Transcript	missense_variant	4269	4159	1387	E/K	Gaa/Aaa	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	deleterious(0)	probably_damaging(0.999)	33/57	.	hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Gene3D:1.20.58.60,Pfam_domain:PF00435,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACAGAAATC	.	5	BLCA
SPTAN1	0	.	GRCh37	9	131374459	131374459	+	Silent	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4977G>A	p.%3D	p.L1659L	ENST00000372739	39/57	98	65	33	119	119	0	SPTAN1,synonymous_variant,p.%3D,ENST00000372739,;SPTAN1,synonymous_variant,p.%3D,ENST00000358161,;SPTAN1,synonymous_variant,p.%3D,ENST00000372731,;SPTAN1,non_coding_transcript_exon_variant,,ENST00000476825,;SPTAN1,downstream_gene_variant,,ENST00000461855,;	A	ENSG00000197694	ENST00000372739	Transcript	synonymous_variant	5087	4977	1659	L	ctG/ctA	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	.	.	39/57	.	hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACTGAAAGA	.	5	BLCA
SPTAN1	0	.	GRCh37	9	131378024	131378024	+	Silent	SNP	C	C	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5262C>T	p.%3D	p.I1754I	ENST00000372739	41/57	61	33	28	58	58	0	SPTAN1,synonymous_variant,p.%3D,ENST00000372739,;SPTAN1,synonymous_variant,p.%3D,ENST00000358161,;SPTAN1,synonymous_variant,p.%3D,ENST00000372731,;SPTAN1,non_coding_transcript_exon_variant,,ENST00000476825,;	T	ENSG00000197694	ENST00000372739	Transcript	synonymous_variant	5372	5262	1754	I	atC/atT	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	.	.	41/57	.	hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATCAAGAG	.	5	BLCA
SPTAN1	0	.	GRCh37	9	131381222	131381222	+	Silent	SNP	C	C	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5673C>A	p.%3D	p.I1891I	ENST00000372739	44/57	55	37	18	47	47	0	SPTAN1,synonymous_variant,p.%3D,ENST00000372739,;SPTAN1,synonymous_variant,p.%3D,ENST00000358161,;SPTAN1,synonymous_variant,p.%3D,ENST00000372731,;SPTAN1,downstream_gene_variant,,ENST00000476825,;SPTAN1,upstream_gene_variant,,ENST00000491712,;	A	ENSG00000197694	ENST00000372739	Transcript	synonymous_variant	5783	5673	1891	I	atC/atA	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	.	.	44/57	.	hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Gene3D:1.20.58.60,Pfam_domain:PF00435,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATCAATGA	.	5	BLCA
TSC1	0	.	GRCh37	9	135798755	135798755	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488C>A	p.Ser163Ter	p.S163*	ENST00000298552	6/23	38	23	14	52	52	0	TSC1,stop_gained,p.Ser163Ter,ENST00000298552,;TSC1,stop_gained,p.Ser112Ter,ENST00000545250,;TSC1,stop_gained,p.Ser163Ter,ENST00000440111,;TSC1,stop_gained,p.Ser163Ter,ENST00000403810,;TSC1,non_coding_transcript_exon_variant,,ENST00000475903,;TSC1,non_coding_transcript_exon_variant,,ENST00000461879,;TSC1,downstream_gene_variant,,ENST00000490179,;TSC1,non_coding_transcript_exon_variant,,ENST00000493467,;	T	ENSG00000165699	ENST00000298552	Transcript	stop_gained	710	488	163	S/*	tCa/tAa	.	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	.	.	6/23	.	hmmpanther:PTHR15154,Pfam_domain:PF04388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATGATGAC	.	5	BLCA
CKS2	0	.	GRCh37	9	91930175	91930175	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.150G>C	p.Gln50His	p.Q50H	ENST00000314355	2/3	119	72	47	121	121	0	CKS2,missense_variant,p.Gln50His,ENST00000314355,;SECISBP2,upstream_gene_variant,,ENST00000534113,;SECISBP2,upstream_gene_variant,,ENST00000375807,;SECISBP2,upstream_gene_variant,,ENST00000339901,;MIR3153,downstream_gene_variant,,ENST00000580744,;	C	ENSG00000123975	ENST00000314355	Transcript	missense_variant	245	150	50	Q/H	caG/caC	.	.	.	1	CKS2	HGNC	2000	protein_coding	YES	CCDS6682.1	ENSP00000364976	CKS2_HUMAN	.	UPI0000048D60	.	deleterious(0)	possibly_damaging(0.657)	2/3	.	hmmpanther:PTHR23415,Gene3D:3.30.170.10,Pfam_domain:PF01111,SMART_domains:SM01084,Superfamily_domains:SSF55637,Prints_domain:PR00296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACAGAGTCT	.	5	BLCA
KIAA1210	0	.	GRCh37	X	118250501	118250501	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608C>G	p.Ser203Cys	p.S203C	ENST00000402510	4/14	18	11	6	20	20	0	KIAA1210,missense_variant,p.Ser203Cys,ENST00000402510,;	C	ENSG00000250423	ENST00000402510	Transcript	missense_variant	608	608	203	S/C	tCt/tGt	.	.	.	-1	KIAA1210	HGNC	29218	protein_coding	YES	CCDS48156.1	ENSP00000384670	K1210_HUMAN	.	UPI0001596C4C	.	deleterious(0.03)	benign(0.176)	4/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12036:SF19,hmmpanther:PTHR12036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAGATG	.	5	BLCA
ACTRT1	0	.	GRCh37	X	127185359	127185359	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.827C>A	p.Ser276Ter	p.S276*	ENST00000371124	1/1	93	49	43	103	102	1	ACTRT1,stop_gained,p.Ser276Ter,ENST00000371124,;	T	ENSG00000123165	ENST00000371124	Transcript	stop_gained	1024	827	276	S/*	tCa/tAa	.	.	.	-1	ACTRT1	HGNC	24027	protein_coding	YES	CCDS14611.1	ENSP00000360165	ACTT1_HUMAN	.	UPI0000072276	.	.	.	1/1	.	hmmpanther:PTHR11937:SF153,hmmpanther:PTHR11937,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTGAGAGT	.	5	BLCA
NSDHL	0	.	GRCh37	X	152031185	152031185	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460G>A	p.Asp154Asn	p.D154N	ENST00000370274	5/8	64	29	34	69	69	0	NSDHL,missense_variant,p.Asp154Asn,ENST00000440023,;NSDHL,missense_variant,p.Asp154Asn,ENST00000432467,;NSDHL,missense_variant,p.Asp154Asn,ENST00000370274,;	A	ENSG00000147383	ENST00000370274	Transcript	missense_variant	654	460	154	D/N	Gat/Aat	.	.	.	1	NSDHL	HGNC	13398	protein_coding	YES	CCDS14717.1	ENSP00000359297	NSDHL_HUMAN	C9JDR0_HUMAN	UPI0000000C8A	.	tolerated(0.32)	benign(0.117)	5/8	.	hmmpanther:PTHR10366,hmmpanther:PTHR10366:SF242,Pfam_domain:PF01073,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G152G|c.456C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTCGATATC	.	5	BLCA
PLXNA3	0	.	GRCh37	X	153691835	153691835	+	Silent	SNP	G	G	T	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1419G>T	p.%3D	p.R473R	ENST00000369682	5/33	29	17	11	23	23	0	PLXNA3,synonymous_variant,p.%3D,ENST00000369682,;PLXNA3,downstream_gene_variant,,ENST00000495040,;PLXNA3,upstream_gene_variant,,ENST00000467463,;PLXNA3,upstream_gene_variant,,ENST00000482598,;PLXNA3,upstream_gene_variant,,ENST00000478236,;	T	ENSG00000130827	ENST00000369682	Transcript	synonymous_variant	1594	1419	473	R	cgG/cgT	.	.	.	1	PLXNA3	HGNC	9101	protein_coding	YES	CCDS14752.1	ENSP00000358696	PLXA3_HUMAN	.	UPI000004E900	.	.	.	5/33	.	PROSITE_profiles:PS51004,hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF32,Gene3D:2.130.10.10,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCGGCACAT	.	5	BLCA
SYAP1	0	.	GRCh37	X	16775342	16775342	+	Missense_Mutation	SNP	G	G	A	rs142663946	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.841G>A	p.Asp281Asn	p.D281N	ENST00000380155	8/9	86	54	32	75	75	0	SYAP1,missense_variant,p.Asp281Asn,ENST00000380155,;	A	ENSG00000169895	ENST00000380155	Transcript	missense_variant	934	841	281	D/N	Gat/Aat	rs142663946,COSM1118532	.	.	1	SYAP1	HGNC	16273	protein_coding	YES	CCDS14177.1	ENSP00000369500	SYAP1_HUMAN	B4DHY7_HUMAN	UPI000006E658	.	deleterious(0.04)	possibly_damaging(0.711)	8/9	.	hmmpanther:PTHR16019:SF6,hmmpanther:PTHR16019	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTCGATGCC	byFrequency|byCluster	5	BLCA
SYP	0	.	GRCh37	X	49047990	49047990	+	Silent	SNP	G	G	T	rs781911441	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846C>A	p.%3D	p.A282A	ENST00000263233	6/7	13	6	7	10	10	0	SYP,synonymous_variant,p.%3D,ENST00000479808,;SYP,synonymous_variant,p.%3D,ENST00000263233,;SYP,synonymous_variant,p.%3D,ENST00000538567,;SYP,synonymous_variant,p.%3D,ENST00000472598,;SYP,3_prime_UTR_variant,,ENST00000376303,;SYP,downstream_gene_variant,,ENST00000466635,;SYP,downstream_gene_variant,,ENST00000469389,;	T	ENSG00000102003	ENST00000263233	Transcript	synonymous_variant	919	846	282	A	gcC/gcA	rs781911441	.	.	-1	SYP	HGNC	11506	protein_coding	YES	CCDS14321.1	ENSP00000263233	SYPH_HUMAN	B7Z359_HUMAN	UPI0000117AEC	.	.	.	6/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10306,hmmpanther:PTHR10306:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCCGGCTGG	byFrequency	2	BLCA
FAM120C	0	.	GRCh37	X	54159251	54159251	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1936G>C	p.Glu646Gln	p.E646Q	ENST00000375180	9/16	15	7	7	19	19	0	FAM120C,missense_variant,p.Glu646Gln,ENST00000375180,;FAM120C,missense_variant,p.Glu646Gln,ENST00000328235,;	G	ENSG00000184083	ENST00000375180	Transcript	missense_variant	1993	1936	646	E/Q	Gag/Cag	.	.	.	-1	FAM120C	HGNC	16949	protein_coding	YES	CCDS14356.1	ENSP00000364324	F120C_HUMAN	.	UPI000022DC3D	.	deleterious(0.01)	probably_damaging(0.92)	9/16	.	hmmpanther:PTHR15976,hmmpanther:PTHR15976:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCATGT	.	5	BLCA
IL2RG	0	.	GRCh37	X	70329170	70329170	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-GU-A766-01A-11D-A32B-08	TCGA-GU-A766-10A-01D-A329-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.665G>A	p.Arg222His	p.R222H	ENST00000374202	5/8	36	20	16	28	28	0	IL2RG,missense_variant,p.Arg178His,ENST00000464642,;IL2RG,missense_variant,p.Arg32His,ENST00000456850,;IL2RG,missense_variant,p.Arg27His,ENST00000482750,;IL2RG,missense_variant,p.Arg222His,ENST00000374202,;CXorf65,upstream_gene_variant,,ENST00000374251,;IL2RG,upstream_gene_variant,,ENST00000374188,;IL2RG,downstream_gene_variant,,ENST00000473378,;IL2RG,downstream_gene_variant,,ENST00000487883,;IL2RG,non_coding_transcript_exon_variant,,ENST00000512747,;IL2RG,non_coding_transcript_exon_variant,,ENST00000276110,;CXorf65,upstream_gene_variant,,ENST00000466160,;CXorf65,upstream_gene_variant,,ENST00000483257,;CXorf65,upstream_gene_variant,,ENST00000438526,;	T	ENSG00000147168	ENST00000374202	Transcript	missense_variant	757	665	222	R/H	cGt/cAt	CD951748,COSM1469121,COSM1469122	.	.	-1	IL2RG	HGNC	6010	protein_coding	YES	CCDS14406.1	ENSP00000363318	IL2RG_HUMAN	Q6LER1_HUMAN,D6RDW9_HUMAN	UPI0000000DEA	.	tolerated(0.36)	possibly_damaging(0.624)	5/8	.	PROSITE_profiles:PS50853,hmmpanther:PTHR23036:SF92,hmmpanther:PTHR23036,PROSITE_patterns:PS01355,Pfam_domain:PF00041,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GAACACGAAAC	.	4	BLCA
GPAM	0	.	GRCh37	10	113920454	113920454	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1667T>C	p.Phe556Ser	p.F556S	ENST00000348367	16/22	25	21	4	28	28	0	GPAM,missense_variant,p.Phe556Ser,ENST00000348367,;GPAM,missense_variant,p.Phe556Ser,ENST00000423155,;GPAM,missense_variant,p.Phe556Ser,ENST00000369425,;	G	ENSG00000119927	ENST00000348367	Transcript	missense_variant	1865	1667	556	F/S	tTt/tCt	.	.	.	-1	GPAM	HGNC	24865	protein_coding	YES	CCDS7570.1	ENSP00000265276	GPAT1_HUMAN	Q6ZMG4_HUMAN	UPI000004AC02	.	deleterious(0.02)	benign(0.367)	16/22	.	PIRSF_domain:PIRSF000437,PIRSF_domain:PIRSF500064,hmmpanther:PTHR12563:SF2,hmmpanther:PTHR12563	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGATAAAAAAC	.	3	BLCA
ATRNL1	0	.	GRCh37	10	116925335	116925335	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1022G>A	p.Ser341Asn	p.S341N	ENST00000355044	7/29	17	13	4	22	22	0	ATRNL1,missense_variant,p.Ser341Asn,ENST00000355044,;ATRNL1,intron_variant,,ENST00000527407,;ATRNL1,non_coding_transcript_exon_variant,,ENST00000529665,;ATRNL1,non_coding_transcript_exon_variant,,ENST00000485327,;	A	ENSG00000107518	ENST00000355044	Transcript	missense_variant	1148	1022	341	S/N	aGt/aAt	.	.	.	1	ATRNL1	HGNC	29063	protein_coding	YES	CCDS7592.1	ENSP00000347152	ATRN1_HUMAN	.	UPI000021CCF8	.	tolerated(0.55)	benign(0.002)	7/29	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF224,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCAGTATAT	.	5	BLCA
CPXM2	0	.	GRCh37	10	125622155	125622155	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488C>T	p.Ala163Val	p.A163V	ENST00000241305	3/14	38	34	3	55	55	0	CPXM2,missense_variant,p.Ala163Val,ENST00000241305,;CPXM2,non_coding_transcript_exon_variant,,ENST00000368854,;	A	ENSG00000121898	ENST00000241305	Transcript	missense_variant	643	488	163	A/V	gCa/gTa	.	.	.	-1	CPXM2	HGNC	26977	protein_coding	YES	CCDS7637.1	ENSP00000241305	CPXM2_HUMAN	.	UPI00001AE6BE	.	deleterious(0.01)	probably_damaging(0.993)	3/14	.	Superfamily_domains:SSF49785,SMART_domains:SM00231,Gene3D:2.60.120.260,hmmpanther:PTHR11532,hmmpanther:PTHR11532:SF45,PROSITE_profiles:PS50022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGTGCCCCC	.	4	BLCA
CUBN	0	.	GRCh37	10	17107538	17107538	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3108A>C	p.Leu1036Phe	p.L1036F	ENST00000377833	22/67	118	92	25	93	93	0	CUBN,missense_variant,p.Leu1036Phe,ENST00000377833,;	G	ENSG00000107611	ENST00000377833	Transcript	missense_variant	3174	3108	1036	L/F	ttA/ttC	.	.	.	-1	CUBN	HGNC	2548	protein_coding	YES	CCDS7113.1	ENSP00000367064	CUBN_HUMAN	B3KQA6_HUMAN	UPI00001AE8F4	.	tolerated(0.1)	benign(0.295)	22/67	.	PROSITE_profiles:PS01180,hmmpanther:PTHR10127:SF561,hmmpanther:PTHR10127,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATTAAGAA	.	5	BLCA
THNSL1	0	.	GRCh37	10	25312114	25312114	+	5'UTR	SNP	C	C	T	rs111328016	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-39C>T	.	.	ENST00000524413	3/3	21	17	4	21	21	0	THNSL1,5_prime_UTR_variant,,ENST00000524413,;THNSL1,5_prime_UTR_variant,,ENST00000376356,;	T	ENSG00000185875	ENST00000524413	Transcript	5_prime_UTR_variant	309	.	.	.	.	rs111328016	.	.	1	THNSL1	HGNC	26160	protein_coding	YES	CCDS7147.1	ENSP00000434887	THNS1_HUMAN	Q9H6P9_HUMAN,Q8N9J5_HUMAN	UPI00001F9045	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AAAGCCAATTT	.	3	BLCA
GPR158	0	.	GRCh37	10	25888025	25888025	+	Nonsense_Mutation	SNP	C	C	G	rs772239419	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3470C>G	p.Ser1157Ter	p.S1157*	ENST00000376351	11/11	34	27	7	40	40	0	GPR158,stop_gained,p.Ser1157Ter,ENST00000376351,;GPR158,non_coding_transcript_exon_variant,,ENST00000490549,;	G	ENSG00000151025	ENST00000376351	Transcript	stop_gained	3829	3470	1157	S/*	tCa/tGa	rs772239419	.	.	1	GPR158	HGNC	23689	protein_coding	YES	CCDS31166.1	ENSP00000365529	GP158_HUMAN	.	UPI0000199875	.	.	.	11/11	.	hmmpanther:PTHR32546:SF11,hmmpanther:PTHR32546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACTCAAGTA	.	5	BLCA
RUFY2	0	.	GRCh37	10	70143620	70143620	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.979C>A	p.Gln327Lys	p.Q327K	ENST00000388768	10/18	36	33	3	52	52	0	RUFY2,missense_variant,p.Gln258Lys,ENST00000399200,;RUFY2,missense_variant,p.Gln327Lys,ENST00000388768,;RUFY2,missense_variant,p.Gln234Lys,ENST00000454950,;RUFY2,missense_variant,p.Gln292Lys,ENST00000602465,;RUFY2,non_coding_transcript_exon_variant,,ENST00000472394,;RUFY2,upstream_gene_variant,,ENST00000491118,;RUFY2,missense_variant,p.Gln306Lys,ENST00000466493,;	T	ENSG00000204130	ENST00000388768	Transcript	missense_variant	1306	979	327	Q/K	Cag/Aag	.	.	.	-1	RUFY2	HGNC	19761	protein_coding	YES	CCDS41534.1	ENSP00000373420	RUFY2_HUMAN	.	UPI000046FD20	.	tolerated(0.22)	benign(0.198)	10/18	.	hmmpanther:PTHR22835:SF104,hmmpanther:PTHR22835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTGACGAG	.	2	BLCA
TET1	0	.	GRCh37	10	70360764	70360764	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1941G>C	p.Gln647His	p.Q647H	ENST00000373644	3/12	58	50	8	82	82	0	TET1,missense_variant,p.Gln647His,ENST00000373644,;	C	ENSG00000138336	ENST00000373644	Transcript	missense_variant	2150	1941	647	Q/H	caG/caC	.	.	.	1	TET1	HGNC	29484	protein_coding	YES	CCDS7281.1	ENSP00000362748	TET1_HUMAN	.	UPI000013D114	.	deleterious(0)	possibly_damaging(0.88)	3/12	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCAGAGGGA	.	5	BLCA
TTC18	0	.	GRCh37	10	75029411	75029411	+	Silent	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3198T>C	p.%3D	p.N1066N	ENST00000310715	26/28	35	28	6	65	65	0	TTC18,synonymous_variant,p.%3D,ENST00000401621,;TTC18,synonymous_variant,p.%3D,ENST00000355577,;TTC18,synonymous_variant,p.%3D,ENST00000433268,;TTC18,synonymous_variant,p.%3D,ENST00000310715,;TTC18,synonymous_variant,p.%3D,ENST00000340329,;TTC18,synonymous_variant,p.%3D,ENST00000394865,;DNAJC9-AS1,intron_variant,,ENST00000440197,;TTC18,non_coding_transcript_exon_variant,,ENST00000495161,;TTC18,non_coding_transcript_exon_variant,,ENST00000462684,;TTC18,intron_variant,,ENST00000493787,;	G	ENSG00000156042	ENST00000310715	Transcript	synonymous_variant	3319	3198	1066	N	aaT/aaC	.	.	.	-1	TTC18	HGNC	30726	protein_coding	YES	CCDS7324.3	ENSP00000310829	.	.	UPI00001AEF7A	.	.	.	26/28	.	PROSITE_profiles:PS50293,hmmpanther:PTHR23083,hmmpanther:PTHR23083:SF361,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGCATTGTA	.	5	BLCA
GHITM	0	.	GRCh37	10	85909866	85909866	+	Silent	SNP	C	C	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648C>A	p.%3D	p.I216I	ENST00000372134	7/9	50	44	6	57	57	0	GHITM,synonymous_variant,p.%3D,ENST00000372134,;	A	ENSG00000165678	ENST00000372134	Transcript	synonymous_variant	841	648	216	I	atC/atA	.	.	.	1	GHITM	HGNC	17281	protein_coding	YES	CCDS41542.1	ENSP00000361207	GHITM_HUMAN	Q9P099_HUMAN,Q658I8_HUMAN,Q5VT94_HUMAN,B4DPG9_HUMAN	UPI0000049DE6	.	.	.	7/9	.	Pfam_domain:PF01027,hmmpanther:PTHR23291:SF32,hmmpanther:PTHR23291	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATCAGAGC	.	4	BLCA
FAS	0	.	GRCh37	10	90770539	90770539	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535C>G	p.Leu179Val	p.L179V	ENST00000355740	6/9	119	91	28	129	129	0	FAS,missense_variant,p.Leu179Val,ENST00000352159,;FAS,missense_variant,p.Leu179Val,ENST00000355740,;FAS,missense_variant,p.Leu179Val,ENST00000355279,;FAS,intron_variant,,ENST00000357339,;FAS,non_coding_transcript_exon_variant,,ENST00000487314,;FAS,non_coding_transcript_exon_variant,,ENST00000313771,;FAS,non_coding_transcript_exon_variant,,ENST00000477270,;FAS,non_coding_transcript_exon_variant,,ENST00000494799,;FAS,downstream_gene_variant,,ENST00000460510,;FAS,downstream_gene_variant,,ENST00000466081,;FAS,synonymous_variant,p.%3D,ENST00000494410,;FAS,synonymous_variant,p.%3D,ENST00000488877,;FAS,synonymous_variant,p.%3D,ENST00000484444,;FAS,non_coding_transcript_exon_variant,,ENST00000371857,;FAS,intron_variant,,ENST00000492756,;FAS,intron_variant,,ENST00000479522,;	G	ENSG00000026103	ENST00000355740	Transcript	missense_variant	755	535	179	L/V	Ctt/Gtt	.	.	.	1	FAS	HGNC	11920	protein_coding	YES	CCDS7393.1	ENSP00000347979	TNR6_HUMAN	S5PSV7_HUMAN,Q8IUB7_HUMAN	UPI000003060C	.	tolerated(0.45)	possibly_damaging(0.888)	6/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23097:SF93,hmmpanther:PTHR23097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTCTTCTT	.	5	BLCA
PDE6C	0	.	GRCh37	10	95372807	95372807	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325G>A	p.Glu109Lys	p.E109K	ENST00000371447	1/22	34	29	5	54	54	0	PDE6C,missense_variant,p.Glu109Lys,ENST00000371447,;AL356214.1,downstream_gene_variant,,ENST00000408425,;	A	ENSG00000095464	ENST00000371447	Transcript	missense_variant	463	325	109	E/K	Gag/Aag	.	.	.	1	PDE6C	HGNC	8787	protein_coding	YES	CCDS7429.1	ENSP00000360502	PDE6C_HUMAN	.	UPI000013C84A	.	deleterious(0.03)	probably_damaging(1)	1/22	.	hmmpanther:PTHR11347,hmmpanther:PTHR11347:SF23,Gene3D:3.30.450.40,Pfam_domain:PF01590,SMART_domains:SM00065,Superfamily_domains:SSF55781	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TACCTGAGGTG	.	2	BLCA
APOA1	0	.	GRCh37	11	116707864	116707864	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.53C>T	p.Ala18Val	p.A18V	ENST00000236850	3/4	57	47	9	81	81	0	APOA1,missense_variant,p.Ala18Val,ENST00000236850,;APOA1,missense_variant,p.Ala18Val,ENST00000375320,;APOA1,missense_variant,p.Ala18Val,ENST00000359492,;APOA1,missense_variant,p.Ala18Val,ENST00000375323,;APOA1,intron_variant,,ENST00000375329,;APOC3,downstream_gene_variant,,ENST00000375345,;APOC3,downstream_gene_variant,,ENST00000227667,;APOA1-AS,intron_variant,,ENST00000444200,;	A	ENSG00000118137	ENST00000236850	Transcript	missense_variant	419	53	18	A/V	gCt/gTt	.	.	.	-1	APOA1	HGNC	600	protein_coding	YES	CCDS8378.1	ENSP00000236850	APOA1_HUMAN	.	UPI000002C911	.	deleterious(0)	probably_damaging(0.999)	3/4	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR18976:SF11,hmmpanther:PTHR18976	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGAGCCTGG	.	5	BLCA
KMT2A	0	.	GRCh37	11	118374212	118374212	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7605G>T	p.Glu2535Asp	p.E2535D	ENST00000534358	27/36	45	40	5	39	39	0	KMT2A,missense_variant,p.Glu2532Asp,ENST00000389506,;KMT2A,missense_variant,p.Glu2494Asp,ENST00000354520,;KMT2A,missense_variant,p.Glu2535Asp,ENST00000534358,;KMT2A,non_coding_transcript_exon_variant,,ENST00000528278,;KMT2A,upstream_gene_variant,,ENST00000534085,;	T	ENSG00000118058	ENST00000534358	Transcript	missense_variant	7628	7605	2535	E/D	gaG/gaT	.	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	benign(0.115)	27/36	.	hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATGAGAGTCA	.	4	BLCA
OR5AP2	0	.	GRCh37	11	56409301	56409301	+	Missense_Mutation	SNP	G	G	C	rs762156570	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.615C>G	p.Ile205Met	p.I205M	ENST00000302981	1/1	167	154	13	134	134	0	OR5AP2,missense_variant,p.Ile205Met,ENST00000302981,;OR5AP2,missense_variant,p.Ile206Met,ENST00000544374,;AP002517.1,downstream_gene_variant,,ENST00000584225,;	C	ENSG00000172464	ENST00000302981	Transcript	missense_variant	615	615	205	I/M	atC/atG	rs762156570	.	.	-1	OR5AP2	HGNC	15258	protein_coding	YES	CCDS31534.1	ENSP00000303111	O5AP2_HUMAN	.	UPI0000061EE6	.	tolerated(0.22)	benign(0.363)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF151,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCCATGATCAC	.	3	BLCA
MS4A4E	0	.	GRCh37	11	59997456	59997456	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73G>C	p.Asp25His	p.D25H	ENST00000425663	1/4	14	8	6	26	26	0	MS4A4E,missense_variant,p.Asp25His,ENST00000398984,;MS4A4E,missense_variant,p.Asp25His,ENST00000528394,;MS4A4E,missense_variant,p.Asp25His,ENST00000526086,;MS4A4E,missense_variant,p.Asp25His,ENST00000398986,;MS4A4E,missense_variant,p.Asp25His,ENST00000425663,;MS4A4E,5_prime_UTR_variant,,ENST00000427611,;MS4A4E,missense_variant,p.Asp22His,ENST00000526153,;MS4A4E,missense_variant,p.Asp25His,ENST00000532442,;	G	ENSG00000214787	ENST00000425663	Transcript	missense_variant	73	73	25	D/H	Gat/Cat	.	.	.	-1	MS4A4E	HGNC	14284	protein_coding	YES	.	ENSP00000389556	M4A4E_HUMAN	.	UPI000173AA13	.	tolerated_low_confidence(0.06)	benign(0.002)	1/4	.	hmmpanther:PTHR23320,hmmpanther:PTHR23320:SF35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACATCTATGT	.	2	BLCA
TMEM132A	0	.	GRCh37	11	60704380	60704380	+	3'UTR	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1C>G	.	.	ENST00000005286	11/11	34	25	9	35	35	0	TMEM132A,3_prime_UTR_variant,,ENST00000005286,;TMEM132A,3_prime_UTR_variant,,ENST00000453848,;TMEM132A,3_prime_UTR_variant,,ENST00000535480,;TMEM132A,3_prime_UTR_variant,,ENST00000540112,;SLC15A3,downstream_gene_variant,,ENST00000227880,;TMEM132A,downstream_gene_variant,,ENST00000536409,;SLC15A3,downstream_gene_variant,,ENST00000537307,;SLC15A3,downstream_gene_variant,,ENST00000536784,;SLC15A3,downstream_gene_variant,,ENST00000536491,;TMEM132A,downstream_gene_variant,,ENST00000539899,;TMEM132A,downstream_gene_variant,,ENST00000536928,;TMEM132A,downstream_gene_variant,,ENST00000538090,;TMEM132A,downstream_gene_variant,,ENST00000544098,;SLC15A3,downstream_gene_variant,,ENST00000544101,;SLC15A3,downstream_gene_variant,,ENST00000543406,;SLC15A3,downstream_gene_variant,,ENST00000541505,;TMEM132A,downstream_gene_variant,,ENST00000534983,;	G	ENSG00000006118	ENST00000005286	Transcript	3_prime_UTR_variant	3229	.	.	.	.	.	.	.	1	TMEM132A	HGNC	31092	protein_coding	YES	CCDS7997.1	ENSP00000005286	T132A_HUMAN	F5H765_HUMAN	UPI0000190977	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTGACCCTCC	.	2	BLCA
ASRGL1	0	.	GRCh37	11	62159690	62159690	+	Silent	SNP	C	C	T	rs766697902	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861C>T	p.%3D	p.A287A	ENST00000415229	7/7	85	70	15	76	76	0	ASRGL1,synonymous_variant,p.%3D,ENST00000415229,;ASRGL1,synonymous_variant,p.%3D,ENST00000301776,;ASRGL1,downstream_gene_variant,,ENST00000535727,;CTD-2531D15.5,intron_variant,,ENST00000526045,;ASRGL1,non_coding_transcript_exon_variant,,ENST00000533970,;ASRGL1,non_coding_transcript_exon_variant,,ENST00000525708,;ASRGL1,downstream_gene_variant,,ENST00000534183,;ASRGL1,downstream_gene_variant,,ENST00000529226,;	T	ENSG00000162174	ENST00000415229	Transcript	synonymous_variant	1076	861	287	A	gcC/gcT	rs766697902	.	.	1	ASRGL1	HGNC	16448	protein_coding	YES	CCDS8019.1	ENSP00000400057	ASGL1_HUMAN	Q9BRH2_HUMAN	UPI000004BF00	.	.	.	7/7	.	hmmpanther:PTHR10188,hmmpanther:PTHR10188:SF18,Pfam_domain:PF01112,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGCCGCCAA	byFrequency	5	BLCA
AHNAK	0	.	GRCh37	11	62297677	62297677	+	Silent	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4212G>C	p.%3D	p.V1404V	ENST00000378024	5/5	240	188	52	238	238	0	AHNAK,synonymous_variant,p.%3D,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,downstream_gene_variant,,ENST00000531324,;AHNAK,downstream_gene_variant,,ENST00000530285,;AHNAK,downstream_gene_variant,,ENST00000528508,;	G	ENSG00000124942	ENST00000378024	Transcript	synonymous_variant	4487	4212	1404	V	gtG/gtC	.	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	.	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTCACATC	.	5	BLCA
RPS6KA4	0	.	GRCh37	11	64126887	64126887	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93G>C	p.Glu31Asp	p.E31D	ENST00000334205	2/17	51	47	4	37	37	0	RPS6KA4,missense_variant,p.Glu31Asp,ENST00000294261,;RPS6KA4,missense_variant,p.Glu31Asp,ENST00000334205,;RPS6KA4,missense_variant,p.Glu31Asp,ENST00000528057,;RPS6KA4,missense_variant,p.Glu15Asp,ENST00000530504,;CCDC88B,downstream_gene_variant,,ENST00000301897,;CCDC88B,downstream_gene_variant,,ENST00000359902,;CCDC88B,downstream_gene_variant,,ENST00000356786,;CCDC88B,downstream_gene_variant,,ENST00000463837,;CCDC88B,downstream_gene_variant,,ENST00000472524,;CCDC88B,downstream_gene_variant,,ENST00000473405,;CCDC88B,downstream_gene_variant,,ENST00000494080,;CCDC88B,downstream_gene_variant,,ENST00000479965,;RPS6KA4,non_coding_transcript_exon_variant,,ENST00000530383,;RPS6KA4,non_coding_transcript_exon_variant,,ENST00000531659,;RPS6KA4,intron_variant,,ENST00000528355,;RPS6KA4,upstream_gene_variant,,ENST00000532496,;RPS6KA4,upstream_gene_variant,,ENST00000532885,;	C	ENSG00000162302	ENST00000334205	Transcript	missense_variant	158	93	31	E/D	gaG/gaC	.	.	.	1	RPS6KA4	HGNC	10433	protein_coding	YES	CCDS8073.1	ENSP00000333896	KS6A4_HUMAN	A0PJF8_HUMAN	UPI000006F835	.	tolerated(0.27)	benign(0)	2/17	.	Superfamily_domains:SSF56112,PIRSF_domain:PIRSF000606,Gene3D:3.30.200.20,hmmpanther:PTHR24351:SF41,hmmpanther:PTHR24351	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGAGAACTT	.	2	BLCA
ZNHIT2	0	.	GRCh37	11	64884261	64884261	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865G>A	p.Glu289Lys	p.E289K	ENST00000310597	1/1	60	55	5	44	44	0	ZNHIT2,missense_variant,p.Glu289Lys,ENST00000310597,;ZNHIT2,missense_variant,p.Glu124Lys,ENST00000528598,;FAU,downstream_gene_variant,,ENST00000279259,;TM7SF2,downstream_gene_variant,,ENST00000530750,;TM7SF2,downstream_gene_variant,,ENST00000279263,;FAU,downstream_gene_variant,,ENST00000526555,;TM7SF2,downstream_gene_variant,,ENST00000526085,;TM7SF2,downstream_gene_variant,,ENST00000524986,;TM7SF2,downstream_gene_variant,,ENST00000527968,;TM7SF2,downstream_gene_variant,,ENST00000345348,;TM7SF2,downstream_gene_variant,,ENST00000531321,;FAU,downstream_gene_variant,,ENST00000527548,;FAU,downstream_gene_variant,,ENST00000531743,;TM7SF2,downstream_gene_variant,,ENST00000528802,;VPS51,downstream_gene_variant,,ENST00000279281,;FAU,downstream_gene_variant,,ENST00000525297,;TM7SF2,downstream_gene_variant,,ENST00000534371,;FAU,downstream_gene_variant,,ENST00000529259,;FAU,downstream_gene_variant,,ENST00000434372,;TM7SF2,downstream_gene_variant,,ENST00000525385,;FAU,downstream_gene_variant,,ENST00000529639,;TM7SF2,downstream_gene_variant,,ENST00000529414,;TM7SF2,downstream_gene_variant,,ENST00000526809,;TM7SF2,downstream_gene_variant,,ENST00000540748,;AP003068.12,upstream_gene_variant,,ENST00000527789,;TM7SF2,downstream_gene_variant,,ENST00000531029,;TM7SF2,downstream_gene_variant,,ENST00000533646,;TM7SF2,downstream_gene_variant,,ENST00000529601,;TM7SF2,downstream_gene_variant,,ENST00000533766,;TM7SF2,downstream_gene_variant,,ENST00000528026,;TM7SF2,downstream_gene_variant,,ENST00000529233,;TM7SF2,downstream_gene_variant,,ENST00000532328,;TM7SF2,downstream_gene_variant,,ENST00000529292,;FAU,downstream_gene_variant,,ENST00000531357,;TM7SF2,downstream_gene_variant,,ENST00000526048,;TM7SF2,downstream_gene_variant,,ENST00000527851,;SYVN1,downstream_gene_variant,,ENST00000530451,;TM7SF2,downstream_gene_variant,,ENST00000524690,;TM7SF2,downstream_gene_variant,,ENST00000530650,;TM7SF2,downstream_gene_variant,,ENST00000530892,;TM7SF2,downstream_gene_variant,,ENST00000534667,;	T	ENSG00000174276	ENST00000310597	Transcript	missense_variant	910	865	289	E/K	Gag/Aag	.	.	.	-1	ZNHIT2	HGNC	1177	protein_coding	YES	CCDS8094.1	ENSP00000308548	ZNHI2_HUMAN	A0PJH8_HUMAN	UPI0000049CD6	.	tolerated(0.14)	probably_damaging(0.972)	1/1	.	hmmpanther:PTHR15555:SF0,hmmpanther:PTHR15555	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACCTCGTGCA	.	3	BLCA
MALAT1	0	.	GRCh37	11	65266456	65266456	+	RNA	SNP	G	G	A	rs767057594	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1224G>A	.	.	ENST00000534336	1/1	149	119	30	110	110	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;MALAT1,upstream_gene_variant,,ENST00000544868,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	1224	.	.	.	.	rs767057594	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATCGAATTC	byFrequency	5	BLCA
MALAT1	0	.	GRCh37	11	65267685	65267685	+	RNA	SNP	G	G	T	rs750044671	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2453G>T	.	.	ENST00000534336	1/1	16	11	4	9	9	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	T	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	2453	.	.	.	.	rs750044671	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTGGAAGA	.	5	BLCA
CATSPER1	0	.	GRCh37	11	65793340	65793340	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.511G>A	p.Glu171Lys	p.E171K	ENST00000312106	1/12	96	68	27	77	77	0	CATSPER1,missense_variant,p.Glu171Lys,ENST00000312106,;CATSPER1,upstream_gene_variant,,ENST00000529244,;	T	ENSG00000175294	ENST00000312106	Transcript	missense_variant	649	511	171	E/K	Gag/Aag	.	.	.	-1	CATSPER1	HGNC	17116	protein_coding	YES	CCDS8127.1	ENSP00000309052	CTSR1_HUMAN	.	UPI000045651C	.	tolerated(0.18)	benign(0.003)	1/12	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCACCGT	.	5	BLCA
TPCN2	0	.	GRCh37	11	68835069	68835069	+	Silent	SNP	C	C	T	rs754612840	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825C>T	p.%3D	p.P275P	ENST00000294309	8/25	95	83	12	77	77	0	TPCN2,synonymous_variant,p.%3D,ENST00000542467,;TPCN2,synonymous_variant,p.%3D,ENST00000294309,;TPCN2,non_coding_transcript_exon_variant,,ENST00000442692,;TPCN2,non_coding_transcript_exon_variant,,ENST00000535009,;	T	ENSG00000162341	ENST00000294309	Transcript	synonymous_variant	926	825	275	P	ccC/ccT	rs754612840	.	.	1	TPCN2	HGNC	20820	protein_coding	YES	CCDS8189.1	ENSP00000294309	TPC2_HUMAN	.	UPI000013E149	.	.	.	8/25	.	Superfamily_domains:SSF81324,Pfam_domain:PF00520,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF175	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCCCGATGG	byFrequency	4	BLCA
CAPN5	0	.	GRCh37	11	76823766	76823766	+	Silent	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429C>G	p.%3D	p.V143V	ENST00000278559	4/13	36	26	9	49	49	0	CAPN5,synonymous_variant,p.%3D,ENST00000529629,;CAPN5,synonymous_variant,p.%3D,ENST00000456580,;CAPN5,synonymous_variant,p.%3D,ENST00000278559,;CAPN5,intron_variant,,ENST00000531028,;CAPN5,non_coding_transcript_exon_variant,,ENST00000533889,;	G	ENSG00000149260	ENST00000278559	Transcript	synonymous_variant	618	429	143	V	gtC/gtG	.	.	.	1	CAPN5	HGNC	1482	protein_coding	YES	CCDS8248.1	ENSP00000278559	CAN5_HUMAN	E9PS73_HUMAN	UPI0000126E9F	.	.	.	4/13	.	Superfamily_domains:SSF54001,SMART_domains:SM00230,Pfam_domain:PF00648,hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF138,PROSITE_profiles:PS50203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTCAACAA	.	5	BLCA
IPO7	0	.	GRCh37	11	9430080	9430080	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>A	p.Glu72Lys	p.E72K	ENST00000379719	3/25	25	14	11	19	19	0	IPO7,missense_variant,p.Glu10Lys,ENST00000527431,;IPO7,missense_variant,p.Glu72Lys,ENST00000379719,;IPO7,downstream_gene_variant,,ENST00000533680,;IPO7,3_prime_UTR_variant,,ENST00000533233,;IPO7,upstream_gene_variant,,ENST00000528833,;	A	ENSG00000205339	ENST00000379719	Transcript	missense_variant	356	214	72	E/K	Gaa/Aaa	.	.	.	1	IPO7	HGNC	9852	protein_coding	YES	CCDS31425.1	ENSP00000369042	IPO7_HUMAN	E9PLB2_HUMAN,B3KQG6_HUMAN,B3KNG9_HUMAN	UPI0000072C06	.	tolerated(0.07)	possibly_damaging(0.7)	3/25	.	Superfamily_domains:SSF48371,SMART_domains:SM00913,Pfam_domain:PF03810,Gene3D:1.25.10.10,hmmpanther:PTHR10997,hmmpanther:PTHR10997:SF27,PROSITE_profiles:PS50166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCGAGAAACA	.	2	BLCA
IPO7	0	.	GRCh37	11	9431515	9431515	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361G>C	p.Asp121His	p.D121H	ENST00000379719	4/25	51	32	19	39	39	0	IPO7,missense_variant,p.Asp59His,ENST00000527431,;IPO7,missense_variant,p.Asp121His,ENST00000379719,;IPO7,3_prime_UTR_variant,,ENST00000533233,;IPO7,upstream_gene_variant,,ENST00000528833,;	C	ENSG00000205339	ENST00000379719	Transcript	missense_variant	503	361	121	D/H	Gat/Cat	.	.	.	1	IPO7	HGNC	9852	protein_coding	YES	CCDS31425.1	ENSP00000369042	IPO7_HUMAN	E9PLB2_HUMAN,B3KQG6_HUMAN,B3KNG9_HUMAN	UPI0000072C06	.	deleterious(0)	probably_damaging(1)	4/25	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR10997,hmmpanther:PTHR10997:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATGATTAT	.	5	BLCA
UHRF1BP1L	0	.	GRCh37	12	100451973	100451973	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3082C>G	p.Gln1028Glu	p.Q1028E	ENST00000279907	14/21	22	18	4	34	34	0	UHRF1BP1L,missense_variant,p.Gln678Glu,ENST00000545232,;UHRF1BP1L,missense_variant,p.Gln1028Glu,ENST00000279907,;	C	ENSG00000111647	ENST00000279907	Transcript	missense_variant	3295	3082	1028	Q/E	Caa/Gaa	.	.	.	-1	UHRF1BP1L	HGNC	29102	protein_coding	YES	CCDS31882.1	ENSP00000279907	UH1BL_HUMAN	F8W665_HUMAN,F8VWX2_HUMAN	UPI0000160563	.	tolerated(0.96)	benign(0.071)	14/21	.	hmmpanther:PTHR22774:SF13,hmmpanther:PTHR22774	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTTGATTAC	.	4	BLCA
TBX5	0	.	GRCh37	12	114823313	114823313	+	Silent	SNP	G	G	A	rs368563052	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.723C>T	p.%3D	p.D241D	ENST00000310346	7/9	38	30	8	47	47	0	TBX5,synonymous_variant,p.%3D,ENST00000405440,;TBX5,synonymous_variant,p.%3D,ENST00000349716,;TBX5,synonymous_variant,p.%3D,ENST00000310346,;TBX5,synonymous_variant,p.%3D,ENST00000526441,;	A	ENSG00000089225	ENST00000310346	Transcript	synonymous_variant	1390	723	241	D	gaC/gaT	rs368563052	.	.	-1	TBX5	HGNC	11604	protein_coding	YES	CCDS9173.1	ENSP00000309913	TBX5_HUMAN	.	UPI0000136AA2	.	.	.	7/9	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF28,SMART_domains:SM00425	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATGTCATC	byFrequency|byCluster	5	BLCA
B3GNT4	0	.	GRCh37	12	122690862	122690862	+	Intron	SNP	C	C	A	rs766256170	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67-3C>A	.	.	ENST00000324189	.	44	35	9	61	61	0	B3GNT4,splice_region_variant,,ENST00000546192,;B3GNT4,splice_region_variant,,ENST00000324189,;B3GNT4,5_prime_UTR_variant,,ENST00000535274,;DIABLO,downstream_gene_variant,,ENST00000540535,;DIABLO,downstream_gene_variant,,ENST00000474004,;DIABLO,downstream_gene_variant,,ENST00000541656,;DIABLO,downstream_gene_variant,,ENST00000353548,;DIABLO,downstream_gene_variant,,ENST00000464942,;DIABLO,downstream_gene_variant,,ENST00000413918,;DIABLO,downstream_gene_variant,,ENST00000541273,;DIABLO,downstream_gene_variant,,ENST00000446652,;DIABLO,downstream_gene_variant,,ENST00000439489,;DIABLO,downstream_gene_variant,,ENST00000267169,;LRRC43,downstream_gene_variant,,ENST00000425921,;LRRC43,downstream_gene_variant,,ENST00000339777,;DIABLO,downstream_gene_variant,,ENST00000443649,;B3GNT4,intron_variant,,ENST00000538257,;B3GNT4,intron_variant,,ENST00000545141,;B3GNT4,intron_variant,,ENST00000537991,;LRRC43,downstream_gene_variant,,ENST00000537733,;DIABLO,downstream_gene_variant,,ENST00000342392,;RP11-512M8.5,downstream_gene_variant,,ENST00000535844,;	A	ENSG00000176383	ENST00000324189	Transcript	splice_region_variant	.	.	.	.	.	rs766256170	.	.	1	B3GNT4	HGNC	15683	protein_coding	YES	CCDS9227.1	ENSP00000319636	B3GN4_HUMAN	.	UPI0000051E30	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTGCAGGGA	.	4	BLCA
SLCO1C1	0	.	GRCh37	12	20868203	20868203	+	Silent	SNP	T	T	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660T>C	p.%3D	p.N220N	ENST00000381552	6/15	54	36	17	50	50	0	SLCO1C1,synonymous_variant,p.%3D,ENST00000381552,;SLCO1C1,synonymous_variant,p.%3D,ENST00000545604,;SLCO1C1,synonymous_variant,p.%3D,ENST00000545102,;SLCO1C1,synonymous_variant,p.%3D,ENST00000266509,;SLCO1C1,intron_variant,,ENST00000540354,;SLCO1C1,3_prime_UTR_variant,,ENST00000539415,;	C	ENSG00000139155	ENST00000381552	Transcript	synonymous_variant	1028	660	220	N	aaT/aaC	.	.	.	1	SLCO1C1	HGNC	13819	protein_coding	YES	CCDS53757.1	ENSP00000370964	SO1C1_HUMAN	.	UPI00004C3E1B	.	.	.	6/15	.	hmmpanther:PTHR11388,hmmpanther:PTHR11388:SF18,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D219G|c.656A>G|3,BUFFER|p.D219G|c.656A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACAATGCAGC	.	5	BLCA
ST8SIA1	0	.	GRCh37	12	22354791	22354791	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.766C>T	p.%3D	p.L256L	ENST00000396037	5/5	65	50	14	52	52	0	ST8SIA1,synonymous_variant,p.%3D,ENST00000396037,;ST8SIA1,synonymous_variant,p.%3D,ENST00000539510,;ST8SIA1,downstream_gene_variant,,ENST00000540824,;ST8SIA1,non_coding_transcript_exon_variant,,ENST00000508924,;ST8SIA1,non_coding_transcript_exon_variant,,ENST00000545494,;ST8SIA1,intron_variant,,ENST00000545524,;ST8SIA1,intron_variant,,ENST00000544732,;ST8SIA1,3_prime_UTR_variant,,ENST00000261197,;	A	ENSG00000111728	ENST00000396037	Transcript	synonymous_variant	1248	766	256	L	Ctg/Ttg	.	.	.	-1	ST8SIA1	HGNC	10869	protein_coding	YES	CCDS8697.1	ENSP00000379353	SIA8A_HUMAN	H0YFU1_HUMAN	UPI000013596F	.	.	.	5/5	.	PIRSF_domain:PIRSF005557,Pfam_domain:PF00777,hmmpanther:PTHR11987:SF3,hmmpanther:PTHR11987	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCAGAAAGT	.	5	BLCA
FKBP4	0	.	GRCh37	12	2907923	2907923	+	Missense_Mutation	SNP	G	G	A	rs772045995	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>A	p.Gly149Arg	p.G149R	ENST00000001008	4/10	93	76	17	112	112	0	FKBP4,missense_variant,p.Gly149Arg,ENST00000001008,;FKBP4,upstream_gene_variant,,ENST00000539181,;FKBP4,downstream_gene_variant,,ENST00000538622,;FKBP4,upstream_gene_variant,,ENST00000544366,;RP4-816N1.6,intron_variant,,ENST00000547834,;RP4-816N1.7,intron_variant,,ENST00000547042,;CBX3P4,upstream_gene_variant,,ENST00000540428,;FKBP4,downstream_gene_variant,,ENST00000540260,;FKBP4,upstream_gene_variant,,ENST00000543037,;FKBP4,downstream_gene_variant,,ENST00000543769,;	A	ENSG00000004478	ENST00000001008	Transcript	missense_variant	632	445	149	G/R	Gga/Aga	rs772045995	.	.	1	FKBP4	HGNC	3720	protein_coding	YES	CCDS8512.1	ENSP00000001008	FKBP4_HUMAN	F5H1U3_HUMAN	UPI000013C4D0	.	deleterious(0)	probably_damaging(1)	4/10	.	hmmpanther:PTHR10516:SF25,hmmpanther:PTHR10516,Gene3D:3.10.50.40,Superfamily_domains:SSF54534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.G148G|c.444C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGCGGAATC	.	5	BLCA
ALG10B	0	.	GRCh37	12	38710702	38710702	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7C>G	p.Gln3Glu	p.Q3E	ENST00000308742	1/3	206	176	29	257	257	0	ALG10B,missense_variant,p.Gln3Glu,ENST00000308742,;ALG10B,missense_variant,p.Gln3Glu,ENST00000551464,;AC117372.1,downstream_gene_variant,,ENST00000401168,;ALG10B,missense_variant,p.Gln3Glu,ENST00000548240,;ALG10B,non_coding_transcript_exon_variant,,ENST00000553138,;	G	ENSG00000175548	ENST00000308742	Transcript	missense_variant	323	7	3	Q/E	Cag/Gag	.	.	.	1	ALG10B	HGNC	31088	protein_coding	YES	CCDS31772.1	ENSP00000310120	AG10B_HUMAN	.	UPI000013EDA4	.	tolerated_low_confidence(0.28)	benign(0.001)	1/3	.	hmmpanther:PTHR12989:SF12,hmmpanther:PTHR12989,PIRSF_domain:PIRSF028810	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCGCAGCTA	.	4	BLCA
ARID2	0	.	GRCh37	12	46125020	46125020	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207G>T	p.Trp69Cys	p.W69C	ENST00000334344	3/21	43	35	8	54	54	0	ARID2,missense_variant,p.Trp69Cys,ENST00000334344,;ARID2,5_prime_UTR_variant,,ENST00000422737,;LINC00938,upstream_gene_variant,,ENST00000609803,;ARID2,non_coding_transcript_exon_variant,,ENST00000427628,;ARID2,non_coding_transcript_exon_variant,,ENST00000426776,;	T	ENSG00000189079	ENST00000334344	Transcript	missense_variant	379	207	69	W/C	tgG/tgT	.	.	.	1	ARID2	HGNC	18037	protein_coding	YES	CCDS31783.1	ENSP00000335044	ARID2_HUMAN	Q96SQ4_HUMAN,F8WCU9_HUMAN	UPI00001D7973	.	deleterious(0)	probably_damaging(0.999)	3/21	.	PROSITE_profiles:PS51011,hmmpanther:PTHR22970:SF14,hmmpanther:PTHR22970,Pfam_domain:PF01388,Gene3D:1.10.150.60,SMART_domains:SM01014,SMART_domains:SM00501,Superfamily_domains:SSF46774	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTGGGGAGA	.	5	BLCA
HOXC9	0	.	GRCh37	12	54396375	54396375	+	Missense_Mutation	SNP	C	C	T	rs777643587	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700C>T	p.Arg234Trp	p.R234W	ENST00000303450	2/2	60	54	6	108	108	0	HOXC9,missense_variant,p.Arg234Trp,ENST00000303450,;HOXC9,missense_variant,p.Arg234Trp,ENST00000508190,;HOXC6,intron_variant,,ENST00000509328,;HOXC6,intron_variant,,ENST00000504315,;RP11-834C11.12,intron_variant,,ENST00000513209,;HOXC-AS1,upstream_gene_variant,,ENST00000512427,;HOXC-AS1,upstream_gene_variant,,ENST00000505700,;HOXC9,non_coding_transcript_exon_variant,,ENST00000504557,;	T	ENSG00000180806	ENST00000303450	Transcript	missense_variant	770	700	234	R/W	Cgg/Tgg	rs777643587,COSM1362752	.	.	1	HOXC9	HGNC	5130	protein_coding	YES	CCDS8869.1	ENSP00000302836	HXC9_HUMAN	.	UPI000012CF79	.	deleterious(0)	probably_damaging(0.996)	2/2	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24326:SF145,hmmpanther:PTHR24326,PROSITE_patterns:PS00027,Gene3D:1.10.10.60,Pfam_domain:PF00046,SMART_domains:SM00389,PIRSF_domain:PIRSF037109,Superfamily_domains:SSF46689,Prints_domain:PR00024	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGAGCGGCAG	.	4	BLCA
ARHGEF25	0	.	GRCh37	12	58009791	58009791	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1528T>C	p.Phe510Leu	p.F510L	ENST00000333972	14/16	66	56	10	102	102	0	ARHGEF25,missense_variant,p.Phe471Leu,ENST00000286494,;ARHGEF25,missense_variant,p.Phe510Leu,ENST00000333972,;SLC26A10,upstream_gene_variant,,ENST00000379218,;SLC26A10,upstream_gene_variant,,ENST00000320442,;AC025165.8,intron_variant,,ENST00000610219,;AC025165.8,intron_variant,,ENST00000356672,;AC025165.8,intron_variant,,ENST00000444467,;AC025165.8,intron_variant,,ENST00000593846,;ARHGEF25,upstream_gene_variant,,ENST00000477314,;ARHGEF25,non_coding_transcript_exon_variant,,ENST00000469072,;ARHGEF25,non_coding_transcript_exon_variant,,ENST00000471370,;ARHGEF25,downstream_gene_variant,,ENST00000466399,;SLC26A10,upstream_gene_variant,,ENST00000497297,;SLC26A10,upstream_gene_variant,,ENST00000440686,;ARHGEF25,downstream_gene_variant,,ENST00000484357,;SLC26A10,upstream_gene_variant,,ENST00000474359,;	C	ENSG00000240771	ENST00000333972	Transcript	missense_variant	1565	1528	510	F/L	Ttc/Ctc	.	.	.	1	ARHGEF25	HGNC	30275	protein_coding	YES	CCDS44931.1	ENSP00000335560	ARHGP_HUMAN	.	UPI000173A6BB	.	deleterious(0)	probably_damaging(0.999)	14/16	.	hmmpanther:PTHR22826:SF117,hmmpanther:PTHR22826,Gene3D:2.30.29.30,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGACTTCCTC	.	5	BLCA
CD163L1	0	.	GRCh37	12	7528479	7528479	+	Nonsense_Mutation	SNP	C	C	A	rs147256239	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2503G>T	p.Glu835Ter	p.E835*	ENST00000313599	10/20	71	63	8	53	53	0	CD163L1,stop_gained,p.Glu845Ter,ENST00000416109,;CD163L1,stop_gained,p.Glu835Ter,ENST00000313599,;CD163L1,stop_gained,p.Glu835Ter,ENST00000396630,;CD163L1,non_coding_transcript_exon_variant,,ENST00000544331,;	A	ENSG00000177675	ENST00000313599	Transcript	stop_gained	2561	2503	835	E/*	Gaa/Taa	rs147256239	.	.	-1	CD163L1	HGNC	30375	protein_coding	YES	CCDS8577.1	ENSP00000315945	C163B_HUMAN	F5H7R7_HUMAN	UPI000013F5AD	.	.	.	10/20	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331:SF260,hmmpanther:PTHR19331,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	A:0.0015	A:0	.	A:0	A:0	A:0	A:0.0007	A:0	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N837N|c.2511C>T|3	MUTECT|MUSE|VARSCANS	TAATTCTCTGC	byFrequency|byCluster|by1000G	3	BLCA
GLIPR1L2	0	.	GRCh37	12	75804223	75804223	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244G>A	p.Val82Ile	p.V82I	ENST00000550916	2/6	19	16	3	23	23	0	GLIPR1L2,missense_variant,p.Val17Ile,ENST00000441218,;GLIPR1L2,missense_variant,p.Val82Ile,ENST00000435775,;GLIPR1L2,missense_variant,p.Val82Ile,ENST00000547164,;GLIPR1L2,missense_variant,p.Val82Ile,ENST00000320460,;GLIPR1L2,missense_variant,p.Val82Ile,ENST00000550916,;GLIPR1L2,5_prime_UTR_variant,,ENST00000378692,;	A	ENSG00000180481	ENST00000550916	Transcript	missense_variant	291	244	82	V/I	Gta/Ata	.	.	.	1	GLIPR1L2	HGNC	28592	protein_coding	YES	CCDS58258.1	ENSP00000448248	GRPL2_HUMAN	.	UPI00001408B2	.	tolerated(0.19)	possibly_damaging(0.844)	2/6	.	hmmpanther:PTHR10334:SF191,hmmpanther:PTHR10334,Gene3D:3.40.33.10,Pfam_domain:PF00188,SMART_domains:SM00198,Superfamily_domains:SSF55797,Prints_domain:PR00837	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGATGTAGCT	.	2	BLCA
PHLDA1	0	.	GRCh37	12	76425160	76425160	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362C>A	p.Pro121Gln	p.P121Q	ENST00000266671	1/2	22	17	5	12	12	0	PHLDA1,missense_variant,p.Pro121Gln,ENST00000266671,;PHLDA1,5_prime_UTR_variant,,ENST00000602540,;RP11-290L1.3,downstream_gene_variant,,ENST00000552367,;RP11-290L1.2,upstream_gene_variant,,ENST00000547721,;	T	ENSG00000139289	ENST00000266671	Transcript	missense_variant	2553	362	121	P/Q	cCg/cAg	.	.	.	-1	PHLDA1	HGNC	8933	protein_coding	YES	CCDS31861.1	ENSP00000266671	PHLA1_HUMAN	R4GND3_HUMAN,A2BDE7_HUMAN	UPI000013D704	.	deleterious_low_confidence(0)	possibly_damaging(0.883)	1/2	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCGGGGGC	.	5	BLCA
A2M	0	.	GRCh37	12	9265997	9265997	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229C>G	p.Leu77Val	p.L77V	ENST00000318602	2/36	86	63	23	100	100	0	A2M,missense_variant,p.Leu77Val,ENST00000404455,;A2M,missense_variant,p.Leu77Val,ENST00000318602,;A2M,non_coding_transcript_exon_variant,,ENST00000467091,;A2M,downstream_gene_variant,,ENST00000497324,;A2M,missense_variant,p.Leu77Val,ENST00000539638,;	C	ENSG00000175899	ENST00000318602	Transcript	missense_variant	537	229	77	L/V	Ctg/Gtg	.	.	.	-1	A2M	HGNC	7	protein_coding	YES	CCDS44827.1	ENSP00000323929	A2MG_HUMAN	Q9BQ22_HUMAN,F8W7L3_HUMAN,F5H1E8_HUMAN	UPI000014038F	.	tolerated(0.59)	benign(0.003)	2/36	.	hmmpanther:PTHR11412:SF75,hmmpanther:PTHR11412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCAGGTCAG	.	5	BLCA
RBM26	0	.	GRCh37	13	79940846	79940846	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057C>T	p.Leu353Phe	p.L353F	ENST00000267229	7/21	49	33	15	44	44	0	RBM26,missense_variant,p.Leu353Phe,ENST00000438737,;RBM26,missense_variant,p.Leu353Phe,ENST00000438724,;RBM26,missense_variant,p.Leu353Phe,ENST00000267229,;RBM26,upstream_gene_variant,,ENST00000461008,;	A	ENSG00000139746	ENST00000267229	Transcript	missense_variant	1071	1057	353	L/F	Ctt/Ttt	.	.	.	-1	RBM26	HGNC	20327	protein_coding	YES	CCDS9462.1	ENSP00000267229	RBM26_HUMAN	.	UPI00001A95DC	.	tolerated(0.68)	probably_damaging(0.964)	7/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14398,hmmpanther:PTHR14398:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTAAGAATTG	.	5	BLCA
AKAP6	0	.	GRCh37	14	33004842	33004842	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.407A>G	p.Tyr136Cys	p.Y136C	ENST00000280979	3/14	77	50	26	77	77	0	AKAP6,missense_variant,p.Tyr136Cys,ENST00000280979,;AKAP6,missense_variant,p.Tyr136Cys,ENST00000557272,;AKAP6,missense_variant,p.Tyr136Cys,ENST00000557354,;AKAP6,5_prime_UTR_variant,,ENST00000553547,;AKAP6,5_prime_UTR_variant,,ENST00000556638,;AKAP6,5_prime_UTR_variant,,ENST00000554410,;	G	ENSG00000151320	ENST00000280979	Transcript	missense_variant	577	407	136	Y/C	tAc/tGc	.	.	.	1	AKAP6	HGNC	376	protein_coding	YES	CCDS9644.1	ENSP00000280979	AKAP6_HUMAN	G3V569_HUMAN,G3V3H6_HUMAN,G3V3H2_HUMAN,G3V3B5_HUMAN,D3DS91_HUMAN	UPI000013DC48	.	deleterious(0)	probably_damaging(0.999)	3/14	.	hmmpanther:PTHR14514,hmmpanther:PTHR14514:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTACTCTG	.	5	BLCA
LCMT2	0	.	GRCh37	15	43621620	43621620	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068G>A	p.%3D	p.K356K	ENST00000305641	1/1	37	33	4	42	42	0	LCMT2,synonymous_variant,p.%3D,ENST00000305641,;LCMT2,5_prime_UTR_variant,,ENST00000544735,;LCMT2,3_prime_UTR_variant,,ENST00000567039,;ADAL,upstream_gene_variant,,ENST00000428046,;ADAL,upstream_gene_variant,,ENST00000389651,;ADAL,upstream_gene_variant,,ENST00000422466,;ADAL,upstream_gene_variant,,ENST00000563551,;ADAL,upstream_gene_variant,,ENST00000565555,;	T	ENSG00000168806	ENST00000305641	Transcript	synonymous_variant	1184	1068	356	K	aaG/aaA	.	.	.	-1	LCMT2	HGNC	17558	protein_coding	YES	CCDS10094.1	ENSP00000307214	LCMT2_HUMAN	B4DUW3_HUMAN	UPI00000727F6	.	.	.	1/1	.	hmmpanther:PTHR13600,hmmpanther:PTHR13600:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATCTCTTCAG	.	4	BLCA
TUBGCP4	0	.	GRCh37	15	43677998	43677998	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733G>C	p.Glu245Gln	p.E245Q	ENST00000564079	8/18	25	21	4	39	39	0	TUBGCP4,missense_variant,p.Glu245Gln,ENST00000260383,;TUBGCP4,missense_variant,p.Glu245Gln,ENST00000564079,;TUBGCP4,missense_variant,p.Glu109Gln,ENST00000399460,;TUBGCP4,missense_variant,p.Glu164Gln,ENST00000561691,;TUBGCP4,3_prime_UTR_variant,,ENST00000563412,;TUBGCP4,downstream_gene_variant,,ENST00000564511,;	C	ENSG00000137822	ENST00000564079	Transcript	missense_variant	973	733	245	E/Q	Gag/Cag	.	.	.	1	TUBGCP4	HGNC	16691	protein_coding	YES	CCDS42030.1	ENSP00000456648	GCP4_HUMAN	.	UPI0000169EEB	.	tolerated(0.19)	possibly_damaging(0.683)	8/18	.	hmmpanther:PTHR19302,Pfam_domain:PF04130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TGATTGAGGAA	.	2	BLCA
PDIA3	0	.	GRCh37	15	44038746	44038746	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9C>T	p.%3D	p.L3L	ENST00000300289	1/13	18	15	3	23	23	0	PDIA3,synonymous_variant,p.%3D,ENST00000300289,;PDIA3,5_prime_UTR_variant,,ENST00000538521,;CATSPER2P1,non_coding_transcript_exon_variant,,ENST00000429276,;PDIA3,non_coding_transcript_exon_variant,,ENST00000469684,;CATSPER2P1,upstream_gene_variant,,ENST00000381680,;CATSPER2P1,upstream_gene_variant,,ENST00000416302,;PDIA3,synonymous_variant,p.%3D,ENST00000434494,;PDIA3,synonymous_variant,p.%3D,ENST00000446523,;PDIA3,upstream_gene_variant,,ENST00000455250,;CATSPER2P1,upstream_gene_variant,,ENST00000439564,;	T	ENSG00000167004	ENST00000300289	Transcript	synonymous_variant	157	9	3	L	ctC/ctT	.	.	.	1	PDIA3	HGNC	4606	protein_coding	YES	CCDS10101.1	ENSP00000300289	PDIA3_HUMAN	.	UPI0000052A4F	.	.	.	1/13	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR18929,hmmpanther:PTHR18929:SF60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCTCCGCCG	.	2	BLCA
SEMA6D	0	.	GRCh37	15	48056191	48056191	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892C>A	p.Gln298Lys	p.Q298K	ENST00000316364	10/19	30	27	3	40	40	0	SEMA6D,missense_variant,p.Gln298Lys,ENST00000389432,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000358066,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000389428,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000389425,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000355997,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000389433,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000558014,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000537942,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000354744,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000536845,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000558816,;SEMA6D,missense_variant,p.Gln298Lys,ENST00000316364,;SEMA6D,downstream_gene_variant,,ENST00000559196,;SEMA6D,downstream_gene_variant,,ENST00000560636,;SEMA6D,upstream_gene_variant,,ENST00000559064,;SEMA6D,upstream_gene_variant,,ENST00000560006,;SEMA6D,downstream_gene_variant,,ENST00000559184,;SEMA6D,downstream_gene_variant,,ENST00000561133,;SEMA6D,downstream_gene_variant,,ENST00000561106,;SEMA6D,upstream_gene_variant,,ENST00000558431,;	A	ENSG00000137872	ENST00000316364	Transcript	missense_variant	1331	892	298	Q/K	Cag/Aag	.	.	.	1	SEMA6D	HGNC	16770	protein_coding	YES	CCDS32225.1	ENSP00000324857	SEM6D_HUMAN	Q9HAH9_HUMAN,H0YMV0_HUMAN,H0YMA6_HUMAN,H0YL82_HUMAN	UPI000006E201	.	deleterious(0)	probably_damaging(0.996)	10/19	.	Superfamily_domains:SSF101912,SMART_domains:SM00630,Gene3D:2.130.10.10,Pfam_domain:PF01403,hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF65,PROSITE_profiles:PS51004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTGCAGTCT	.	2	BLCA
MPI	0	.	GRCh37	15	75189514	75189514	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1007C>G	p.Ser336Ter	p.S336*	ENST00000352410	7/8	63	57	6	90	90	0	MPI,stop_gained,p.Ser336Ter,ENST00000352410,;MPI,stop_gained,p.Ser275Ter,ENST00000323744,;MPI,stop_gained,p.Ser316Ter,ENST00000563786,;MPI,stop_gained,p.Ser286Ter,ENST00000535694,;MPI,intron_variant,,ENST00000566377,;MPI,intron_variant,,ENST00000567177,;MPI,intron_variant,,ENST00000562800,;FAM219B,downstream_gene_variant,,ENST00000563119,;MPI,downstream_gene_variant,,ENST00000568828,;MPI,downstream_gene_variant,,ENST00000567570,;MPI,downstream_gene_variant,,ENST00000563422,;MPI,downstream_gene_variant,,ENST00000569931,;MPI,downstream_gene_variant,,ENST00000562606,;MPI,downstream_gene_variant,,ENST00000569233,;MPI,downstream_gene_variant,,ENST00000564633,;FAM219B,downstream_gene_variant,,ENST00000565772,;MPI,downstream_gene_variant,,ENST00000564003,;MPI,downstream_gene_variant,,ENST00000567132,;MPI,downstream_gene_variant,,ENST00000565576,;FAM219B,downstream_gene_variant,,ENST00000357635,;MPI,downstream_gene_variant,,ENST00000568907,;CTD-2235H24.2,upstream_gene_variant,,ENST00000564692,;FAM219B,downstream_gene_variant,,ENST00000564723,;MPI,non_coding_transcript_exon_variant,,ENST00000566556,;FAM219B,downstream_gene_variant,,ENST00000569524,;FAM219B,downstream_gene_variant,,ENST00000566894,;FAM219B,downstream_gene_variant,,ENST00000563069,;MPI,downstream_gene_variant,,ENST00000561470,;MPI,downstream_gene_variant,,ENST00000567116,;FAM219B,downstream_gene_variant,,ENST00000563671,;FAM219B,downstream_gene_variant,,ENST00000566132,;FAM219B,downstream_gene_variant,,ENST00000570143,;MPI,downstream_gene_variant,,ENST00000568840,;FAM219B,downstream_gene_variant,,ENST00000563413,;	G	ENSG00000178802	ENST00000352410	Transcript	stop_gained	1074	1007	336	S/*	tCa/tGa	.	.	.	1	MPI	HGNC	7216	protein_coding	YES	CCDS10272.1	ENSP00000318318	MPI_HUMAN	H3BPU7_HUMAN,H3BPM5_HUMAN,H3BPB8_HUMAN,H3BP57_HUMAN,F5GX71_HUMAN	UPI000000DB74	.	.	.	7/8	.	hmmpanther:PTHR10309:SF0,hmmpanther:PTHR10309,TIGRFAM_domain:TIGR00218,Gene3D:2.60.120.10,Pfam_domain:PF01238,PIRSF_domain:PIRSF001480,Superfamily_domains:SSF51182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTCTCAATCT	.	3	BLCA
SH2D7	0	.	GRCh37	15	78393264	78393264	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669C>T	p.%3D	p.L223L	ENST00000328828	5/6	45	38	6	56	56	0	SH2D7,synonymous_variant,p.%3D,ENST00000328828,;SH2D7,synonymous_variant,p.%3D,ENST00000409568,;CIB2,downstream_gene_variant,,ENST00000539011,;CIB2,downstream_gene_variant,,ENST00000258930,;CIB2,downstream_gene_variant,,ENST00000557846,;CIB2,downstream_gene_variant,,ENST00000559645,;CIB2,downstream_gene_variant,,ENST00000560618,;CIB2,downstream_gene_variant,,ENST00000561190,;CIB2,downstream_gene_variant,,ENST00000557818,;CIB2,downstream_gene_variant,,ENST00000557917,;	T	ENSG00000183476	ENST00000328828	Transcript	synonymous_variant	669	669	223	L	ctC/ctT	.	.	.	1	SH2D7	HGNC	34549	protein_coding	YES	CCDS45315.1	ENSP00000327846	SH2D7_HUMAN	B8ZZB5_HUMAN	UPI00006C15D7	.	.	.	5/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14388,hmmpanther:PTHR14388:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCCCTGA	.	5	BLCA
ERCC4	0	.	GRCh37	16	14041695	14041695	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2242A>G	p.Met748Val	p.M748V	ENST00000311895	11/11	61	46	14	69	69	0	ERCC4,missense_variant,p.Met748Val,ENST00000311895,;ERCC4,3_prime_UTR_variant,,ENST00000462862,;ERCC4,non_coding_transcript_exon_variant,,ENST00000389138,;	G	ENSG00000175595	ENST00000311895	Transcript	missense_variant	2251	2242	748	M/V	Atg/Gtg	.	.	.	1	ERCC4	HGNC	3436	protein_coding	YES	CCDS32390.1	ENSP00000310520	XPF_HUMAN	B4DXD8_HUMAN	UPI0000161BBF	.	deleterious(0)	probably_damaging(0.999)	11/11	.	hmmpanther:PTHR10150,Gene3D:1j23A00,Pfam_domain:PF02732,TIGRFAM_domain:TIGR00596,SMART_domains:SM00891,Superfamily_domains:SSF52980	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCCATGTCC	.	5	BLCA
MKL2	0	.	GRCh37	16	14334492	14334492	+	Intron	SNP	A	A	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1079+151A>T	.	.	ENST00000318282	.	48	37	10	66	66	0	MKL2,missense_variant,p.Glu316Val,ENST00000573051,;MKL2,3_prime_UTR_variant,,ENST00000572567,;MKL2,intron_variant,,ENST00000318282,;MKL2,intron_variant,,ENST00000341243,;MKL2,intron_variant,,ENST00000571589,;MKL2,intron_variant,,ENST00000574045,;	T	ENSG00000186260	ENST00000318282	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MKL2	HGNC	29819	protein_coding	YES	CCDS32391.1	ENSP00000339086	MKL2_HUMAN	I3L0U1_HUMAN	UPI0000225CCB	.	.	.	.	9/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTGAAGTCC	.	5	BLCA
SH2B1	0	.	GRCh37	16	28878700	28878700	+	Missense_Mutation	SNP	C	C	G	rs369196090	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988C>G	p.Arg330Gly	p.R330G	ENST00000322610	5/11	226	191	35	326	326	0	SH2B1,missense_variant,p.Arg330Gly,ENST00000395532,;SH2B1,missense_variant,p.Arg330Gly,ENST00000322610,;SH2B1,missense_variant,p.Arg330Gly,ENST00000337120,;SH2B1,missense_variant,p.Arg20Gly,ENST00000545570,;SH2B1,missense_variant,p.Arg17Gly,ENST00000566176,;SH2B1,missense_variant,p.Arg330Gly,ENST00000359285,;SH2B1,5_prime_UTR_variant,,ENST00000538342,;SH2B1,5_prime_UTR_variant,,ENST00000561629,;SH2B1,intron_variant,,ENST00000567536,;SH2B1,downstream_gene_variant,,ENST00000563591,;SH2B1,downstream_gene_variant,,ENST00000566209,;SH2B1,upstream_gene_variant,,ENST00000569651,;SH2B1,upstream_gene_variant,,ENST00000568868,;RP11-22P6.2,upstream_gene_variant,,ENST00000567731,;SH2B1,intron_variant,,ENST00000563674,;SH2B1,upstream_gene_variant,,ENST00000569471,;	G	ENSG00000178188	ENST00000322610	Transcript	missense_variant	1427	988	330	R/G	Cgg/Ggg	rs369196090	.	.	1	SH2B1	HGNC	30417	protein_coding	YES	CCDS53996.1	ENSP00000321221	SH2B1_HUMAN	H3BVF6_HUMAN,H3BTK4_HUMAN	UPI00001AF36C	.	deleterious(0)	probably_damaging(0.999)	5/11	.	hmmpanther:PTHR10872:SF3,hmmpanther:PTHR10872,Gene3D:2.30.29.30,Pfam_domain:PF00169,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGTCCGGACA	byFrequency|byCluster	4	BLCA
ITGAL	0	.	GRCh37	16	30490651	30490651	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.446-1G>A	.	p.X149_splice	ENST00000356798	.	37	32	5	61	61	0	ITGAL,splice_acceptor_variant,,ENST00000356798,;ITGAL,intron_variant,,ENST00000454514,;ITGAL,intron_variant,,ENST00000433423,;ITGAL,intron_variant,,ENST00000358164,;ITGAL,intron_variant,,ENST00000564118,;ITGAL,downstream_gene_variant,,ENST00000569725,;RNU7-61P,downstream_gene_variant,,ENST00000515897,;RP11-297C4.2,non_coding_transcript_exon_variant,,ENST00000569459,;RP11-297C4.3,downstream_gene_variant,,ENST00000562525,;ITGAL,intron_variant,,ENST00000565348,;ITGAL,downstream_gene_variant,,ENST00000569570,;ITGAL,intron_variant,,ENST00000562857,;ITGAL,intron_variant,,ENST00000568926,;ITGAL,upstream_gene_variant,,ENST00000566149,;ITGAL,downstream_gene_variant,,ENST00000562652,;ITGAL,downstream_gene_variant,,ENST00000565864,;	A	ENSG00000005844	ENST00000356798	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ITGAL	HGNC	6148	protein_coding	YES	CCDS32433.1	ENSP00000349252	ITAL_HUMAN	I3L468_HUMAN,H3BNL5_HUMAN	UPI000013C4FF	.	.	.	.	5/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCAGAATGT	.	4	BLCA
SRCAP	0	.	GRCh37	16	30750483	30750483	+	Missense_Mutation	SNP	G	G	T	rs139814474	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9122G>T	p.Arg3041Leu	p.R3041L	ENST00000262518	34/34	33	27	6	61	61	0	SRCAP,missense_variant,p.Arg3041Leu,ENST00000262518,;SRCAP,missense_variant,p.Arg2883Leu,ENST00000344771,;SRCAP,missense_variant,p.Arg2979Leu,ENST00000395059,;RP11-2C24.4,upstream_gene_variant,,ENST00000483578,;SRCAP,missense_variant,p.Arg2864Leu,ENST00000380361,;SRCAP,downstream_gene_variant,,ENST00000474008,;	T	ENSG00000080603	ENST00000262518	Transcript	missense_variant	9507	9122	3041	R/L	cGa/cTa	rs139814474	.	.	1	SRCAP	HGNC	16974	protein_coding	YES	CCDS10689.2	ENSP00000262518	SRCAP_HUMAN	G1UI29_HUMAN,C9J4U4_HUMAN	UPI000059D368	.	.	unknown(0)	34/34	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10799:SF581,hmmpanther:PTHR10799	.	.	.	.	.	.	.	A:0.0002	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGCGACGGC	byFrequency|byCluster	4	BLCA
STX1B	0	.	GRCh37	16	31008336	31008336	+	Silent	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399T>C	p.%3D	p.Y133Y	ENST00000215095	6/10	18	14	4	27	27	0	STX1B,synonymous_variant,p.%3D,ENST00000569638,;STX1B,synonymous_variant,p.%3D,ENST00000565419,;STX1B,synonymous_variant,p.%3D,ENST00000215095,;STX1B,non_coding_transcript_exon_variant,,ENST00000566211,;STX1B,downstream_gene_variant,,ENST00000561836,;	G	ENSG00000099365	ENST00000215095	Transcript	synonymous_variant	631	399	133	Y	taT/taC	.	.	.	-1	STX1B	HGNC	18539	protein_coding	YES	CCDS10699.1	ENSP00000215095	STX1B_HUMAN	H3BT82_HUMAN	UPI0000000C13	.	.	.	6/10	.	hmmpanther:PTHR19957,hmmpanther:PTHR19957:SF76,Gene3D:1.20.58.70,SMART_domains:SM00503,Superfamily_domains:SSF47661	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE	GCGTTATATTC	.	3	BLCA
OR2C1	0	.	GRCh37	16	3406173	3406173	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233T>C	p.Val78Ala	p.V78A	ENST00000304936	1/1	67	61	6	76	75	0	OR2C1,missense_variant,p.Val78Ala,ENST00000304936,;	C	ENSG00000168158	ENST00000304936	Transcript	missense_variant	285	233	78	V/A	gTc/gCc	.	.	.	1	OR2C1	HGNC	8242	protein_coding	YES	CCDS10502.1	ENSP00000307726	OR2C1_HUMAN	.	UPI000013E9E9	.	tolerated(0.11)	benign(0.242)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF237,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCAGTCCCCC	.	3	BLCA
NDRG4	0	.	GRCh37	16	58528893	58528893	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158C>A	p.Ala53Asp	p.A53D	ENST00000394282	3/16	25	21	4	25	25	0	NDRG4,missense_variant,p.Ala33Asp,ENST00000565434,;NDRG4,missense_variant,p.Ala33Asp,ENST00000564207,;NDRG4,missense_variant,p.Ala46Asp,ENST00000564486,;NDRG4,missense_variant,p.Ala53Asp,ENST00000561779,;NDRG4,missense_variant,p.Ala33Asp,ENST00000569404,;NDRG4,missense_variant,p.Ala33Asp,ENST00000565430,;NDRG4,missense_variant,p.Ala33Asp,ENST00000258187,;NDRG4,missense_variant,p.Ala53Asp,ENST00000394282,;NDRG4,missense_variant,p.Ala33Asp,ENST00000561724,;NDRG4,missense_variant,p.Ala33Asp,ENST00000564126,;NDRG4,missense_variant,p.Ala33Asp,ENST00000394279,;NDRG4,missense_variant,p.Ala53Asp,ENST00000567454,;NDRG4,missense_variant,p.Ala33Asp,ENST00000566041,;NDRG4,missense_variant,p.Ala33Asp,ENST00000568999,;NDRG4,missense_variant,p.Ala33Asp,ENST00000567667,;NDRG4,intron_variant,,ENST00000565304,;NDRG4,intron_variant,,ENST00000567063,;NDRG4,intron_variant,,ENST00000569539,;RNU6-103P,upstream_gene_variant,,ENST00000363686,;NDRG4,non_coding_transcript_exon_variant,,ENST00000569578,;NDRG4,non_coding_transcript_exon_variant,,ENST00000566065,;NDRG4,intron_variant,,ENST00000562725,;NDRG4,missense_variant,p.Ala33Asp,ENST00000562764,;NDRG4,missense_variant,p.Ala53Asp,ENST00000566061,;NDRG4,3_prime_UTR_variant,,ENST00000564867,;NDRG4,non_coding_transcript_exon_variant,,ENST00000421602,;NDRG4,upstream_gene_variant,,ENST00000561720,;	A	ENSG00000103034	ENST00000394282	Transcript	missense_variant	565	158	53	A/D	gCt/gAt	.	.	.	1	NDRG4	HGNC	14466	protein_coding	YES	CCDS45500.1	ENSP00000377823	NDRG4_HUMAN	H3BUK1_HUMAN,H3BU25_HUMAN,H3BST8_HUMAN,H3BSC3_HUMAN,H3BRT9_HUMAN,H3BR92_HUMAN,H3BPH8_HUMAN,H3BNQ1_HUMAN,H3BNB4_HUMAN,H3BN97_HUMAN,H3BMR6_HUMAN,H3BM83_HUMAN,B7Z9X4_HUMAN	UPI00001C0CB5	.	tolerated(0.23)	benign(0.001)	3/16	.	hmmpanther:PTHR11034,hmmpanther:PTHR11034:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CTTGGCTGCAG	.	2	BLCA
CES4A	0	.	GRCh37	16	67029590	67029590	+	Nonsense_Mutation	SNP	C	C	T	rs751170926	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118C>T	p.Gln40Ter	p.Q40*	ENST00000540947	2/12	85	60	25	128	128	0	CES4A,stop_gained,p.Gln40Ter,ENST00000326686,;CES4A,stop_gained,p.Gln40Ter,ENST00000398354,;CES4A,stop_gained,p.Gln40Ter,ENST00000540947,;CES4A,stop_gained,p.Gln3Ter,ENST00000538199,;CES4A,stop_gained,p.Gln63Ter,ENST00000541479,;CES4A,stop_gained,p.Gln63Ter,ENST00000338718,;CES4A,upstream_gene_variant,,ENST00000540579,;CES4A,upstream_gene_variant,,ENST00000535696,;CES4A,stop_gained,p.Gln21Ter,ENST00000567587,;CES4A,upstream_gene_variant,,ENST00000543561,;CES4A,upstream_gene_variant,,ENST00000535543,;	T	ENSG00000172824	ENST00000540947	Transcript	stop_gained	302	118	40	Q/*	Cag/Tag	rs751170926	.	.	1	CES4A	HGNC	26741	protein_coding	YES	CCDS42174.3	ENSP00000444052	EST4A_HUMAN	.	UPI0001E306A2	.	.	.	2/12	.	hmmpanther:PTHR11559,hmmpanther:PTHR11559:SF169,Gene3D:3.40.50.1820,Pfam_domain:PF00135,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAAACAGATG	byFrequency	5	BLCA
CDH13	0	.	GRCh37	16	83065765	83065765	+	Missense_Mutation	SNP	C	C	T	rs199539898	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.449C>T	p.Ala150Val	p.A150V	ENST00000268613	4/15	21	18	3	20	20	0	CDH13,missense_variant,p.Ala103Val,ENST00000446376,;CDH13,missense_variant,p.Ala103Val,ENST00000565636,;CDH13,missense_variant,p.Ala103Val,ENST00000566620,;CDH13,missense_variant,p.Ala103Val,ENST00000428848,;CDH13,missense_variant,p.Ala150Val,ENST00000268613,;CDH13,missense_variant,p.Ala103Val,ENST00000431540,;CDH13,non_coding_transcript_exon_variant,,ENST00000569454,;CDH13,non_coding_transcript_exon_variant,,ENST00000566333,;CDH13,intron_variant,,ENST00000539548,;CDH13,downstream_gene_variant,,ENST00000562601,;CDH13,downstream_gene_variant,,ENST00000568770,;CDH13,downstream_gene_variant,,ENST00000569144,;	T	ENSG00000140945	ENST00000268613	Transcript	missense_variant	542	449	150	A/V	gCg/gTg	rs199539898,COSM974276,COSM197106	.	.	1	CDH13	HGNC	1753	protein_coding	YES	CCDS58485.1	ENSP00000268613	CAD13_HUMAN	.	UPI00020E71A6	.	tolerated(0.13)	benign(0.346)	4/15	.	hmmpanther:PTHR24027:SF80,hmmpanther:PTHR24027,Pfam_domain:PF08758,Gene3D:2.60.40.60,SMART_domains:SM01055,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	A:0	A:0.0002	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATGCGGAAG	byFrequency|byCluster	4	BLCA
ZNF276	0	.	GRCh37	16	89788997	89788997	+	Silent	SNP	G	G	A	rs762800359	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.264G>A	p.%3D	p.S88S	ENST00000443381	2/11	71	54	16	106	106	0	ZNF276,synonymous_variant,p.%3D,ENST00000568064,;ZNF276,synonymous_variant,p.%3D,ENST00000443381,;ZNF276,synonymous_variant,p.%3D,ENST00000289816,;ZNF276,5_prime_UTR_variant,,ENST00000446326,;VPS9D1,upstream_gene_variant,,ENST00000389386,;VPS9D1,upstream_gene_variant,,ENST00000561976,;VPS9D1-AS1,downstream_gene_variant,,ENST00000562866,;VPS9D1-AS1,downstream_gene_variant,,ENST00000562298,;ZNF276,synonymous_variant,p.%3D,ENST00000568295,;ZNF276,synonymous_variant,p.%3D,ENST00000562530,;ZNF276,non_coding_transcript_exon_variant,,ENST00000563983,;ZNF276,upstream_gene_variant,,ENST00000569426,;ZNF276,upstream_gene_variant,,ENST00000561536,;ZNF276,upstream_gene_variant,,ENST00000563541,;VPS9D1,upstream_gene_variant,,ENST00000563798,;	A	ENSG00000158805	ENST00000443381	Transcript	synonymous_variant	361	264	88	S	tcG/tcA	rs762800359	.	.	1	ZNF276	HGNC	23330	protein_coding	YES	CCDS45554.1	ENSP00000415836	ZN276_HUMAN	.	UPI0000EE7D9C	.	.	.	2/11	.	hmmpanther:PTHR11389:SF340,hmmpanther:PTHR11389,Pfam_domain:PF07776	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTCGAGAAG	.	5	BLCA
MYH4	0	.	GRCh37	17	10359805	10359805	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1965C>T	p.%3D	p.F655F	ENST00000255381	17/40	24	19	5	34	34	0	MYH4,synonymous_variant,p.%3D,ENST00000255381,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;	A	ENSG00000264424	ENST00000255381	Transcript	synonymous_variant	2076	1965	655	F	ttC/ttT	.	.	.	-1	MYH4	HGNC	7574	protein_coding	YES	CCDS11154.1	ENSP00000255381	MYH4_HUMAN	.	UPI000013CEAB	.	.	.	17/40	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF278,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTGAAAAG	.	5	BLCA
RHBDL3	0	.	GRCh37	17	30643287	30643287	+	Missense_Mutation	SNP	C	C	G	rs759896670	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.919C>G	p.Arg307Gly	p.R307G	ENST00000269051	8/9	165	152	13	217	216	0	RHBDL3,missense_variant,p.Arg209Gly,ENST00000536287,;RHBDL3,missense_variant,p.Arg299Gly,ENST00000538145,;RHBDL3,missense_variant,p.Arg307Gly,ENST00000269051,;RHBDL3,missense_variant,p.Ala273Gly,ENST00000431505,;RHBDL3,3_prime_UTR_variant,,ENST00000578006,;RHBDL3,non_coding_transcript_exon_variant,,ENST00000582967,;	G	ENSG00000141314	ENST00000269051	Transcript	missense_variant	933	919	307	R/G	Cgg/Ggg	rs759896670,COSM167938	.	.	1	RHBDL3	HGNC	16502	protein_coding	YES	CCDS32613.1	ENSP00000269051	RHBL3_HUMAN	Q495Y4_HUMAN	UPI0000133858	.	deleterious(0)	probably_damaging(0.999)	8/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22936:SF14,hmmpanther:PTHR22936,Pfam_domain:PF01694,Gene3D:2xovA00,PIRSF_domain:PIRSF037470,Superfamily_domains:SSF144091	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCTGCGGATG	.	3	BLCA
CDK12	0	.	GRCh37	17	37627570	37627570	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1485G>C	p.Leu495Phe	p.L495F	ENST00000447079	2/14	89	77	12	88	88	0	CDK12,missense_variant,p.Leu495Phe,ENST00000447079,;CDK12,missense_variant,p.Leu494Phe,ENST00000584632,;CDK12,missense_variant,p.Leu495Phe,ENST00000430627,;CDK12,upstream_gene_variant,,ENST00000581593,;	C	ENSG00000167258	ENST00000447079	Transcript	missense_variant	1518	1485	495	L/F	ttG/ttC	.	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	possibly_damaging(0.879)	2/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTTGAAAGC	.	5	BLCA
CNP	0	.	GRCh37	17	40125722	40125723	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1047dupA	p.Glu350ArgfsTer60	p.E350Rfs*60	ENST00000393892	4/4	30	25	5	31	31	0	CNP,frameshift_variant,p.Glu330ArgfsTer60,ENST00000393888,;CNP,frameshift_variant,p.Glu115ArgfsTer60,ENST00000591072,;CNP,frameshift_variant,p.Glu350ArgfsTer60,ENST00000393892,;CNP,3_prime_UTR_variant,,ENST00000472031,;DNAJC7,downstream_gene_variant,,ENST00000457167,;DNAJC7,downstream_gene_variant,,ENST00000587727,;DNAJC7,downstream_gene_variant,,ENST00000316603,;DNAJC7,downstream_gene_variant,,ENST00000426588,;CNP,non_coding_transcript_exon_variant,,ENST00000592105,;CNP,non_coding_transcript_exon_variant,,ENST00000486438,;DNAJC7,downstream_gene_variant,,ENST00000588814,;CNP,downstream_gene_variant,,ENST00000592861,;	A	ENSG00000173786	ENST00000393892	Transcript	frameshift_variant	1190-1191	1046-1047	349	L/LX	tta/ttAa	.	.	.	1	CNP	HGNC	2158	protein_coding	YES	CCDS11414.2	ENSP00000377470	CN37_HUMAN	K7ERZ0_HUMAN,K7EN66_HUMAN,C9K0L8_HUMAN,B4DFN6_HUMAN	UPI0000127BEE	.	.	.	4/4	.	hmmpanther:PTHR10156:SF0,hmmpanther:PTHR10156,Pfam_domain:PF05881,PIRSF_domain:PIRSF000970,Superfamily_domains:SSF55144	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	CCTCTTAGAGA	.	2	BLCA
CACNG5	0	.	GRCh37	17	64881347	64881347	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.818C>T	p.Ser273Leu	p.S273L	ENST00000533854	6/6	55	44	10	78	78	0	CACNG5,missense_variant,p.Ser273Leu,ENST00000307139,;CACNG5,missense_variant,p.Ser273Leu,ENST00000533854,;CACNG5,downstream_gene_variant,,ENST00000169565,;	T	ENSG00000075429	ENST00000533854	Transcript	missense_variant	1055	818	273	S/L	tCa/tTa	.	.	.	1	CACNG5	HGNC	1409	protein_coding	YES	CCDS11665.1	ENSP00000436836	CCG5_HUMAN	.	UPI0000001240	.	deleterious_low_confidence(0)	possibly_damaging(0.511)	6/6	.	hmmpanther:PTHR12107:SF4,hmmpanther:PTHR12107	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCACCCT	.	5	BLCA
KCNJ2	0	.	GRCh37	17	68171413	68171413	+	Missense_Mutation	SNP	A	A	G	rs199473371	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233A>G	p.Asp78Gly	p.D78G	ENST00000243457	2/2	66	55	11	73	73	0	KCNJ2,missense_variant,p.Asp78Gly,ENST00000535240,;KCNJ2,missense_variant,p.Asp78Gly,ENST00000243457,;	G	ENSG00000123700	ENST00000243457	Transcript	missense_variant	616	233	78	D/G	gAc/gGc	rs199473371,CM053934	.	.	1	KCNJ2	HGNC	6263	protein_coding	YES	CCDS11688.1	ENSP00000243457	IRK2_HUMAN	.	UPI000004F21A	.	deleterious(0)	probably_damaging(0.999)	2/2	.	hmmpanther:PTHR11767:SF43,hmmpanther:PTHR11767,Pfam_domain:PF01007,Gene3D:1.10.287.70,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	pathogenic	.	16217063	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGGACATTC	.	5	BLCA
ASGR2	0	.	GRCh37	17	7010447	7010447	+	Missense_Mutation	SNP	C	C	G	rs767191672	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535G>C	p.Val179Leu	p.V179L	ENST00000380952	7/9	91	78	12	95	95	0	ASGR2,missense_variant,p.Val160Leu,ENST00000446679,;ASGR2,missense_variant,p.Val179Leu,ENST00000355035,;ASGR2,missense_variant,p.Val179Leu,ENST00000380952,;ASGR2,missense_variant,p.Val155Leu,ENST00000254850,;ASGR2,downstream_gene_variant,,ENST00000574868,;ASGR2,downstream_gene_variant,,ENST00000450034,;ASGR2,downstream_gene_variant,,ENST00000576487,;	G	ENSG00000161944	ENST00000380952	Transcript	missense_variant	800	535	179	V/L	Gtc/Ctc	rs767191672,COSM473288	.	.	-1	ASGR2	HGNC	743	protein_coding	YES	CCDS32544.1	ENSP00000370339	ASGR2_HUMAN	Q7Z4G9_HUMAN	UPI00002007B9	.	tolerated(0.36)	benign(0.094)	7/9	.	hmmpanther:PTHR22802,hmmpanther:PTHR22802:SF201,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGACGGGGC	.	5	BLCA
GRIN2C	0	.	GRCh37	17	72851013	72851014	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218dupA	p.Asn73LysfsTer24	p.N73Kfs*24	ENST00000293190	2/13	39	34	5	46	46	0	GRIN2C,frameshift_variant,p.Asn73LysfsTer24,ENST00000347612,;GRIN2C,frameshift_variant,p.Asn73LysfsTer24,ENST00000293190,;GRIN2C,intron_variant,,ENST00000578159,;GRIN2C,non_coding_transcript_exon_variant,,ENST00000584176,;GRIN2C,non_coding_transcript_exon_variant,,ENST00000584496,;	T	ENSG00000161509	ENST00000293190	Transcript	frameshift_variant	365-366	218-219	73	N/KX	aac/aaAc	.	.	.	-1	GRIN2C	HGNC	4587	protein_coding	YES	CCDS32724.1	ENSP00000293190	NMDE3_HUMAN	.	UPI00001AEBA4	.	.	.	2/13	.	hmmpanther:PTHR18966:SF179,hmmpanther:PTHR18966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CTGGGGTTGGT	.	2	BLCA
NLGN2	0	.	GRCh37	17	7312031	7312031	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457G>A	p.Gly153Ser	p.G153S	ENST00000302926	1/7	27	20	7	64	64	0	NLGN2,missense_variant,p.Asp25Asn,ENST00000570940,;NLGN2,missense_variant,p.Gly153Ser,ENST00000575301,;NLGN2,missense_variant,p.Gly153Ser,ENST00000302926,;TMEM256-PLSCR3,upstream_gene_variant,,ENST00000535512,;TMEM256,upstream_gene_variant,,ENST00000302422,;TMEM256,upstream_gene_variant,,ENST00000576017,;NLGN2,downstream_gene_variant,,ENST00000572893,;C17orf61-PLSCR3,upstream_gene_variant,,ENST00000570600,;C17orf61-PLSCR3,upstream_gene_variant,,ENST00000570569,;C17orf61-PLSCR3,upstream_gene_variant,,ENST00000573331,;	A	ENSG00000169992	ENST00000302926	Transcript	missense_variant	530	457	153	G/S	Ggt/Agt	.	.	.	1	NLGN2	HGNC	14290	protein_coding	YES	CCDS11103.1	ENSP00000305288	NLGN2_HUMAN	.	UPI0000049FD2	.	deleterious(0.01)	probably_damaging(0.999)	1/7	.	hmmpanther:PTHR11559,hmmpanther:PTHR11559:SF53,Pfam_domain:PF00135,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACGGTAAG	.	5	BLCA
FGF11	0	.	GRCh37	17	7346325	7346325	+	Intron	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608-70G>A	.	.	ENST00000293829	.	16	10	6	21	21	0	FGF11,intron_variant,,ENST00000575235,;FGF11,intron_variant,,ENST00000575082,;FGF11,intron_variant,,ENST00000293829,;FGF11,intron_variant,,ENST00000575398,;FGF11,intron_variant,,ENST00000572907,;CHRNB1,upstream_gene_variant,,ENST00000570557,;CHRNB1,upstream_gene_variant,,ENST00000536404,;CHRNB1,upstream_gene_variant,,ENST00000576360,;CHRNB1,upstream_gene_variant,,ENST00000306071,;CHRNB1,upstream_gene_variant,,ENST00000572857,;RP11-104H15.8,intron_variant,,ENST00000576615,;RP11-104H15.7,non_coding_transcript_exon_variant,,ENST00000575310,;RP11-104H15.10,non_coding_transcript_exon_variant,,ENST00000575331,;CHRNB1,upstream_gene_variant,,ENST00000574054,;FGF11,downstream_gene_variant,,ENST00000576328,;CHRNB1,upstream_gene_variant,,ENST00000573209,;	A	ENSG00000161958	ENST00000293829	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	FGF11	HGNC	3667	protein_coding	YES	CCDS11105.1	ENSP00000293829	FGF11_HUMAN	Q6LA99_HUMAN,I3L4N4_HUMAN	UPI000003596F	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGAGCACTG	.	5	BLCA
RECQL5	0	.	GRCh37	17	73625916	73625916	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1819G>A	p.Asp607Asn	p.D607N	ENST00000317905	15/20	53	46	7	65	65	0	RECQL5,missense_variant,p.Asp580Asn,ENST00000423245,;RECQL5,missense_variant,p.Asp607Asn,ENST00000317905,;RECQL5,missense_variant,p.Asp96Asn,ENST00000580707,;SMIM5,upstream_gene_variant,,ENST00000375215,;RECQL5,downstream_gene_variant,,ENST00000578201,;RECQL5,upstream_gene_variant,,ENST00000581825,;RECQL5,upstream_gene_variant,,ENST00000582548,;RECQL5,non_coding_transcript_exon_variant,,ENST00000443199,;MYO15B,downstream_gene_variant,,ENST00000577948,;MYO15B,downstream_gene_variant,,ENST00000580262,;RECQL5,downstream_gene_variant,,ENST00000583673,;MYO15B,downstream_gene_variant,,ENST00000580414,;SMIM5,upstream_gene_variant,,ENST00000581115,;MYO15B,downstream_gene_variant,,ENST00000578382,;MYO15B,downstream_gene_variant,,ENST00000578220,;RECQL5,non_coding_transcript_exon_variant,,ENST00000585205,;RECQL5,non_coding_transcript_exon_variant,,ENST00000579265,;RECQL5,downstream_gene_variant,,ENST00000582464,;RECQL5,upstream_gene_variant,,ENST00000578865,;	T	ENSG00000108469	ENST00000317905	Transcript	missense_variant	1979	1819	607	D/N	Gat/Aat	.	.	.	-1	RECQL5	HGNC	9950	protein_coding	YES	CCDS42380.1	ENSP00000317636	RECQ5_HUMAN	Q9BW80_HUMAN,Q9BSD6_HUMAN,J3QLU0_HUMAN,J3KTQ2_HUMAN	UPI0000133477	.	deleterious(0)	benign(0.002)	15/20	.	hmmpanther:PTHR13710:SF81,hmmpanther:PTHR13710	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATATCGGCCA	.	4	BLCA
TP53	0	.	GRCh37	17	7577538	7577538	+	Missense_Mutation	SNP	C	C	T	rs11540652	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743G>A	p.Arg248Gln	p.R248Q	ENST00000269305	7/11	33	21	12	71	71	0	TP53,missense_variant,p.Arg248Gln,ENST00000413465,;TP53,missense_variant,p.Arg248Gln,ENST00000420246,;TP53,missense_variant,p.Arg248Gln,ENST00000269305,;TP53,missense_variant,p.Arg116Gln,ENST00000509690,;TP53,missense_variant,p.Arg248Gln,ENST00000359597,;TP53,missense_variant,p.Arg155Gln,ENST00000514944,;TP53,missense_variant,p.Arg248Gln,ENST00000445888,;TP53,missense_variant,p.Arg248Gln,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	933	743	248	R/Q	cGg/cAg	rs11540652,CM920675,TP53_g.13380G>A,TP53_g.13380G>C,TP53_g.13380G>T,TP53_g.13380del,COSM10662,COSM11491,COSM6549,COSM46135,COSM340105,COSM99602,COSM241995,COSM99020,COSM241994,COSM340106,COSM3356964,COSM3378346,COSM1640830,COSM1646857,COSM1646858,COSM99021,COSM241996,COSM340107	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,PROSITE_patterns:PS00348,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	25032700,20377871,18798306,15450681,25105660,21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R248Q|c.743G>A|113,SITE|p.R248Q|c.743G>A|633,SITE|p.R248Q|c.743G>A|64,SITE|p.R248Q|c.743G>A|42,SITE|p.R155Q|c.464G>A|114,SITE|p.R248Q|c.743G>A|110,CODON|p.0?|c.1_1182del1182|6,CODON|p.R248Q|c.743_744GG>AA|5,CODON|p.R248R|c.744G>A|5,CODON|p.R248W|c.741_742CC>TT|15,CODON|p.R248L|c.743G>T|7,CODON|p.R248L|c.743G>T|12,CODON|p.R155L|c.464G>T|12,CODON|p.R155P|c.464G>C|5,CODON|p.R248P|c.743G>C|17,CODON|p.R248L|c.743G>T|12,CODON|p.R248P|c.743G>C|5,CODON|p.R248L|c.743G>T|74,CODON|p.R248P|c.743G>C|5,BUFFER|p.L252_I254delLTI|c.754_762delCTCACCATC|4,BUFFER|p.L252_I254delLTI|c.751_759delATCCTCACC|4,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252delL|c.754_756delCTC|9,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252fs*93|c.754delC|5,BUFFER|p.L252F|c.754C>T|10,BUFFER|p.I251I|c.753C>A|3,BUFFER|p.I251N|c.752T>A|9,BUFFER|p.I251T|c.752T>C|6,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251S|c.752T>G|12,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251fs*94|c.751delA|6,BUFFER|p.I251L|c.751A>C|3,BUFFER|p.I251F|c.751A>T|8,BUFFER|p.P250P|c.750C>T|4,BUFFER|p.P250F|c.748_749CC>TT|3,BUFFER|p.I251fs*94|c.748delC|4,BUFFER|p.P250L|c.749C>T|49,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250L|c.749C>T|8,BUFFER|p.P250L|c.749C>T|6,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250S|c.748C>T|12,BUFFER|p.R249fs*96|c.746delG|4,BUFFER|p.R249S|c.747G>T|31,BUFFER|p.R249S|c.747G>C|22,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|15,BUFFER|p.R249R|c.747G>A|6,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|314,BUFFER|p.R249S|c.747G>T|30,BUFFER|p.R249T|c.746G>C|3,BUFFER|p.R249M|c.746G>T|8,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249K|c.746G>A|17,BUFFER|p.R249M|c.746G>T|4,BUFFER|p.R249T|c.746G>C|20,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249M|c.746G>T|35,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249W|c.745A>T|36,BUFFER|p.R249W|c.745A>T|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249W|c.745A>T|4,BUFFER|p.R249G|c.745A>G|4,BUFFER|p.R249W|c.745A>T|8,BUFFER|p.R249G|c.745A>G|30,BUFFER|p.R248W|c.742C>T|46,BUFFER|p.R248W|c.742C>T|92,BUFFER|p.R248W|c.742C>T|537,BUFFER|p.R155W|c.463C>T|92,BUFFER|p.R248G|c.742C>G|14,BUFFER|p.R248W|c.742C>T|31,BUFFER|p.R248W|c.742C>T|87,BUFFER|p.N247N|c.741C>T|10,BUFFER|p.N247I|c.740A>T|7,BUFFER|p.N154I|c.461A>T|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247T|c.740A>C|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247S|c.740A>G|7,BUFFER|p.N247D|c.739A>G|5,BUFFER|p.N247Y|c.739A>T|3,BUFFER|p.M153I|c.459G>C|3,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>A|21,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>C|4,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246R|c.737T>G|12,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246T|c.737T>C|8,BUFFER|p.M153R|c.458T>G|3,BUFFER|p.M246K|c.737T>A|7,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246L|c.736A>T|3,BUFFER|p.M153V|c.457A>G|7,BUFFER|p.M246V|c.736A>G|3,BUFFER|p.M246V|c.736A>G|35,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246V|c.736A>G|4,BUFFER|p.G245G|c.735C>T|5,BUFFER|p.G245D|c.734G>A|10,BUFFER|p.G245V|c.734G>T|3,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245A|c.734G>C|8,BUFFER|p.G152D|c.455G>A|23,BUFFER|p.G152V|c.455G>T|15,BUFFER|p.G245V|c.734G>T|10,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245D|c.734G>A|119,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245D|c.734G>A|7,BUFFER|p.G245V|c.734G>T|69,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245R|c.733G>C|14,BUFFER|p.G245S|c.733G>A|22,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152S|c.454G>A|56,BUFFER|p.G245C|c.733G>T|4,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245S|c.733G>A|340,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245C|c.733G>T|50,BUFFER|p.G245S|c.733G>A|39,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152C|c.454G>T|6,BUFFER|p.G152R|c.454G>C|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G151G|c.453C>T|3,BUFFER|p.G244G|c.732C>T|8,BUFFER|p.G244G|c.732C>A|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTCCGGTTC	byFrequency|byCluster	5	BLCA
CHD3	0	.	GRCh37	17	7801368	7801368	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2176G>A	p.Glu726Lys	p.E726K	ENST00000380358	12/40	125	104	21	165	165	0	CHD3,missense_variant,p.Glu726Lys,ENST00000380358,;CHD3,missense_variant,p.Glu667Lys,ENST00000330494,;CHD3,missense_variant,p.Glu667Lys,ENST00000358181,;CHD3,downstream_gene_variant,,ENST00000571249,;CHD3,downstream_gene_variant,,ENST00000452447,;CHD3,downstream_gene_variant,,ENST00000572579,;CHD3,downstream_gene_variant,,ENST00000479080,;	A	ENSG00000170004	ENST00000380358	Transcript	missense_variant	2177	2176	726	E/K	Gaa/Aaa	.	.	.	1	CHD3	HGNC	1918	protein_coding	YES	CCDS32553.2	ENSP00000369716	CHD3_HUMAN	Q2TAZ1_HUMAN	UPI00004DDA7C	.	.	possibly_damaging(0.621)	12/40	.	PROSITE_profiles:PS50013,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF544,PROSITE_patterns:PS00598,Pfam_domain:PF00385,Gene3D:2.40.50.40,SMART_domains:SM00298,Superfamily_domains:SSF54160	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATGAAATG	.	5	BLCA
ARHGDIA	0	.	GRCh37	17	79826712	79826712	+	3'UTR	SNP	C	C	A	rs546790617	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*40G>T	.	.	ENST00000269321	6/6	13	9	4	19	19	0	ARHGDIA,synonymous_variant,p.%3D,ENST00000583868,;ARHGDIA,3_prime_UTR_variant,,ENST00000541078,;ARHGDIA,3_prime_UTR_variant,,ENST00000580685,;ARHGDIA,3_prime_UTR_variant,,ENST00000400721,;ARHGDIA,3_prime_UTR_variant,,ENST00000581876,;ARHGDIA,3_prime_UTR_variant,,ENST00000269321,;ARHGDIA,intron_variant,,ENST00000579121,;ARHGDIA,intron_variant,,ENST00000584461,;RP11-498C9.3,downstream_gene_variant,,ENST00000576021,;RP11-498C9.3,downstream_gene_variant,,ENST00000576554,;ARHGDIA,upstream_gene_variant,,ENST00000582520,;ARHGDIA,downstream_gene_variant,,ENST00000582309,;ARHGDIA,downstream_gene_variant,,ENST00000580033,;ARHGDIA,downstream_gene_variant,,ENST00000582984,;ARHGDIA,downstream_gene_variant,,ENST00000578351,;ARHGDIA,downstream_gene_variant,,ENST00000583499,;ARHGDIA,downstream_gene_variant,,ENST00000583791,;ARHGDIA,downstream_gene_variant,,ENST00000583111,;ARHGDIA,downstream_gene_variant,,ENST00000584397,;	A	ENSG00000141522	ENST00000269321	Transcript	3_prime_UTR_variant	791	.	.	.	.	rs546790617	.	.	-1	ARHGDIA	HGNC	678	protein_coding	YES	CCDS11788.1	ENSP00000269321	GDIR1_HUMAN	J3KS60_HUMAN	UPI0000110BD8	.	.	.	6/6	.	.	T:0.0004	T:0.0008	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCGTCGTCCG	byFrequency|by1000G	3	BLCA
GPS1	0	.	GRCh37	17	80011196	80011196	+	Missense_Mutation	SNP	C	C	T	rs745651143	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200C>T	p.Pro67Leu	p.P67L	ENST00000392358	2/13	28	24	3	44	44	0	GPS1,missense_variant,p.Pro95Leu,ENST00000583641,;GPS1,missense_variant,p.Pro67Leu,ENST00000392358,;GPS1,missense_variant,p.Pro27Leu,ENST00000578552,;GPS1,missense_variant,p.Pro67Leu,ENST00000583009,;GPS1,missense_variant,p.Pro11Leu,ENST00000320548,;GPS1,missense_variant,p.Pro11Leu,ENST00000581418,;GPS1,missense_variant,p.Pro11Leu,ENST00000581578,;GPS1,missense_variant,p.Pro11Leu,ENST00000580716,;GPS1,missense_variant,p.Pro67Leu,ENST00000355130,;GPS1,missense_variant,p.Pro67Leu,ENST00000583961,;GPS1,missense_variant,p.Pro11Leu,ENST00000582327,;GPS1,missense_variant,p.Pro27Leu,ENST00000306823,;GPS1,missense_variant,p.Pro94Leu,ENST00000583885,;GPS1,missense_variant,p.Pro11Leu,ENST00000585084,;DUS1L,downstream_gene_variant,,ENST00000538833,;DUS1L,downstream_gene_variant,,ENST00000542088,;DUS1L,downstream_gene_variant,,ENST00000306796,;RFNG,upstream_gene_variant,,ENST00000310496,;DUS1L,downstream_gene_variant,,ENST00000577574,;RFNG,upstream_gene_variant,,ENST00000578356,;GPS1,upstream_gene_variant,,ENST00000578168,;DUS1L,downstream_gene_variant,,ENST00000354321,;RFNG,upstream_gene_variant,,ENST00000429557,;RFNG,upstream_gene_variant,,ENST00000580928,;GPS1,downstream_gene_variant,,ENST00000584229,;GPS1,downstream_gene_variant,,ENST00000583983,;RFNG,upstream_gene_variant,,ENST00000584838,;GPS1,missense_variant,p.Arg34Cys,ENST00000580627,;GPS1,synonymous_variant,p.%3D,ENST00000580141,;GPS1,synonymous_variant,p.%3D,ENST00000584460,;GPS1,synonymous_variant,p.%3D,ENST00000580723,;GPS1,synonymous_variant,p.%3D,ENST00000578392,;GPS1,non_coding_transcript_exon_variant,,ENST00000392357,;GPS1,non_coding_transcript_exon_variant,,ENST00000578642,;RFNG,upstream_gene_variant,,ENST00000584515,;RFNG,upstream_gene_variant,,ENST00000582478,;GPS1,upstream_gene_variant,,ENST00000578279,;RFNG,upstream_gene_variant,,ENST00000580953,;DUS1L,downstream_gene_variant,,ENST00000578846,;GPS1,upstream_gene_variant,,ENST00000583486,;RFNG,upstream_gene_variant,,ENST00000584463,;RFNG,upstream_gene_variant,,ENST00000583784,;RFNG,upstream_gene_variant,,ENST00000578676,;DUS1L,downstream_gene_variant,,ENST00000584871,;DUS1L,downstream_gene_variant,,ENST00000579854,;RFNG,upstream_gene_variant,,ENST00000580793,;	T	ENSG00000169727	ENST00000392358	Transcript	missense_variant	549	200	67	P/L	cCg/cTg	rs745651143	.	.	1	GPS1	HGNC	4549	protein_coding	YES	CCDS11800.1	ENSP00000376167	CSN1_HUMAN	J3QS88_HUMAN,J3QL53_HUMAN,J3KTB0_HUMAN,J3KSA5_HUMAN,C9JFE4_HUMAN,A8K070_HUMAN	UPI0000231C2E	.	tolerated(0.38)	benign(0.002)	2/13	.	hmmpanther:PTHR14145:SF2,hmmpanther:PTHR14145	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACCCGCAGA	byFrequency	4	BLCA
DSC3	0	.	GRCh37	18	28602454	28602454	+	Frame_Shift_Del	DEL	C	C	-	rs765928616	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790delG	p.Val264TrpfsTer17	p.V264Wfs*17	ENST00000360428	7/16	43	38	5	47	47	0	DSC3,frameshift_variant,p.Val264TrpfsTer17,ENST00000360428,;DSC3,frameshift_variant,p.Val264TrpfsTer17,ENST00000434452,;	-	ENSG00000134762	ENST00000360428	Transcript	frameshift_variant	871	790	264	V/X	Gtg/tg	rs765928616	.	.	-1	DSC3	HGNC	3037	protein_coding	YES	CCDS32810.1	ENSP00000353608	DSC3_HUMAN	.	UPI000004CAAD	.	.	.	7/16	.	Prints_domain:PR00205,Superfamily_domains:SSF49313,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24025:SF6,hmmpanther:PTHR24025,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAACCACCCCCA	byFrequency	3	BLCA
SERPINB13	0	.	GRCh37	18	61264523	61264523	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1102C>T	p.His368Tyr	p.H368Y	ENST00000344731	8/8	50	45	5	57	57	0	SERPINB13,missense_variant,p.His368Tyr,ENST00000344731,;SERPINB13,missense_variant,p.His316Tyr,ENST00000269489,;SERPINB13,intron_variant,,ENST00000415733,;SERPINB13,downstream_gene_variant,,ENST00000431153,;SERPINB13,3_prime_UTR_variant,,ENST00000438844,;	T	ENSG00000197641	ENST00000344731	Transcript	missense_variant	1204	1102	368	H/Y	Cat/Tat	.	.	.	1	SERPINB13	HGNC	8944	protein_coding	YES	CCDS11985.1	ENSP00000341584	SPB13_HUMAN	.	UPI000004EE29	.	deleterious(0)	probably_damaging(1)	8/8	.	hmmpanther:PTHR11461:SF152,hmmpanther:PTHR11461,PROSITE_patterns:PS00284,Gene3D:2.30.39.10,Pfam_domain:PF00079,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAATCATCCC	.	2	BLCA
P2RY11	0	.	GRCh37	19	10225763	10225763	+	3'UTR	SNP	C	C	T	rs374059230	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*349C>T	.	.	ENST00000321826	2/2	27	23	3	44	44	0	P2RY11,3_prime_UTR_variant,,ENST00000321826,;EIF3G,3_prime_UTR_variant,,ENST00000593054,;EIF3G,3_prime_UTR_variant,,ENST00000253108,;EIF3G,downstream_gene_variant,,ENST00000589454,;PPAN,downstream_gene_variant,,ENST00000393793,;PPAN,downstream_gene_variant,,ENST00000253107,;EIF3G,downstream_gene_variant,,ENST00000587146,;PPAN-P2RY11,downstream_gene_variant,,ENST00000393796,;PPAN,downstream_gene_variant,,ENST00000446223,;PPAN-P2RY11,downstream_gene_variant,,ENST00000428358,;EIF3G,downstream_gene_variant,,ENST00000588709,;PPAN,downstream_gene_variant,,ENST00000556468,;PPAN,downstream_gene_variant,,ENST00000444703,;P2RY11,downstream_gene_variant,,ENST00000471843,;EIF3G,downstream_gene_variant,,ENST00000587168,;EIF3G,non_coding_transcript_exon_variant,,ENST00000590158,;EIF3G,downstream_gene_variant,,ENST00000586151,;EIF3G,downstream_gene_variant,,ENST00000590647,;EIF3G,downstream_gene_variant,,ENST00000587590,;PPAN,downstream_gene_variant,,ENST00000468881,;EIF3G,downstream_gene_variant,,ENST00000590940,;EIF3G,downstream_gene_variant,,ENST00000587681,;EIF3G,downstream_gene_variant,,ENST00000589458,;EIF3G,downstream_gene_variant,,ENST00000589009,;PPAN,downstream_gene_variant,,ENST00000486482,;PPAN,downstream_gene_variant,,ENST00000466025,;EIF3G,downstream_gene_variant,,ENST00000587993,;EIF3G,downstream_gene_variant,,ENST00000593066,;EIF3G,downstream_gene_variant,,ENST00000593095,;EIF3G,downstream_gene_variant,,ENST00000589674,;EIF3G,downstream_gene_variant,,ENST00000592485,;	T	ENSG00000244165	ENST00000321826	Transcript	3_prime_UTR_variant	1658	.	.	.	.	rs374059230	.	.	1	P2RY11	HGNC	8540	protein_coding	YES	CCDS12226.1	ENSP00000323872	P2Y11_HUMAN	.	UPI0000131004	.	.	.	2/2	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCCCGGACC	byFrequency|byCluster	4	BLCA
TMED1	0	.	GRCh37	19	10945645	10945645	+	Missense_Mutation	SNP	C	C	T	rs762064138	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430G>A	p.Glu144Lys	p.E144K	ENST00000214869	3/4	145	130	15	179	179	0	TMED1,missense_variant,p.Glu126Lys,ENST00000589638,;TMED1,missense_variant,p.Glu144Lys,ENST00000214869,;TMED1,missense_variant,p.Glu13Lys,ENST00000586835,;TMED1,5_prime_UTR_variant,,ENST00000588289,;TMED1,intron_variant,,ENST00000591695,;DNM2,downstream_gene_variant,,ENST00000359692,;DNM2,downstream_gene_variant,,ENST00000585892,;DNM2,downstream_gene_variant,,ENST00000591818,;C19orf38,upstream_gene_variant,,ENST00000592854,;DNM2,downstream_gene_variant,,ENST00000389253,;DNM2,downstream_gene_variant,,ENST00000355667,;DNM2,downstream_gene_variant,,ENST00000314646,;DNM2,downstream_gene_variant,,ENST00000589106,;DNM2,downstream_gene_variant,,ENST00000408974,;TMED1,3_prime_UTR_variant,,ENST00000591157,;TMED1,3_prime_UTR_variant,,ENST00000588259,;DNM2,downstream_gene_variant,,ENST00000593203,;DNM2,downstream_gene_variant,,ENST00000590806,;	T	ENSG00000099203	ENST00000214869	Transcript	missense_variant	529	430	144	E/K	Gag/Aag	rs762064138	.	.	-1	TMED1	HGNC	17291	protein_coding	YES	CCDS12249.1	ENSP00000214869	TMED1_HUMAN	K7EIN4_HUMAN	UPI00000722CE	.	tolerated(0.21)	benign(0.166)	3/4	.	hmmpanther:PTHR22811:SF40,hmmpanther:PTHR22811,Pfam_domain:PF01105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCGGGCT	.	4	BLCA
SBNO2	0	.	GRCh37	19	1119621	1119621	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1268-1G>A	.	p.X423_splice	ENST00000361757	.	12	9	3	15	15	0	SBNO2,splice_acceptor_variant,,ENST00000438103,;SBNO2,splice_acceptor_variant,,ENST00000587024,;SBNO2,splice_acceptor_variant,,ENST00000361757,;SBNO2,splice_acceptor_variant,,ENST00000592222,;SBNO2,splice_acceptor_variant,,ENST00000590446,;	T	ENSG00000064932	ENST00000361757	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	SBNO2	HGNC	29158	protein_coding	YES	CCDS45894.1	ENSP00000354733	SBNO2_HUMAN	K7ERL2_HUMAN,K7ENA9_HUMAN	UPI0000140680	.	.	.	.	12/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCACCTGTGG	.	2	BLCA
SLC1A6	0	.	GRCh37	19	15083521	15083521	+	Missense_Mutation	SNP	T	T	C	rs751345541	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202A>G	p.Ile68Val	p.I68V	ENST00000221742	1/9	22	17	5	63	63	0	SLC1A6,missense_variant,p.His72Arg,ENST00000599636,;SLC1A6,missense_variant,p.Ile68Val,ENST00000544886,;SLC1A6,missense_variant,p.Ile68Val,ENST00000601761,;SLC1A6,missense_variant,p.Ile68Val,ENST00000600144,;SLC1A6,missense_variant,p.Ile68Val,ENST00000597262,;SLC1A6,missense_variant,p.Ile68Val,ENST00000595863,;SLC1A6,missense_variant,p.His72Arg,ENST00000430939,;SLC1A6,missense_variant,p.Ile68Val,ENST00000221742,;SLC1A6,missense_variant,p.Ile68Val,ENST00000598504,;SLC1A6,downstream_gene_variant,,ENST00000594383,;SLC1A6,non_coding_transcript_exon_variant,,ENST00000596697,;	C	ENSG00000105143	ENST00000221742	Transcript	missense_variant	210	202	68	I/V	Att/Gtt	rs751345541	.	.	-1	SLC1A6	HGNC	10944	protein_coding	YES	CCDS12321.1	ENSP00000221742	EAA4_HUMAN	Q8N753_HUMAN,M0R1V3_HUMAN,M0R106_HUMAN,M0QY32_HUMAN	UPI0000129B1A	.	tolerated(0.37)	benign(0.062)	1/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11958,hmmpanther:PTHR11958:SF29,Pfam_domain:PF00375,Gene3D:2nwlC00,Superfamily_domains:0053221,Prints_domain:PR00173	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAATGACCA	.	5	BLCA
MYO9B	0	.	GRCh37	19	17212870	17212870	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.343G>C	p.Asp115His	p.D115H	ENST00000595618	2/40	29	25	4	32	32	0	MYO9B,missense_variant,p.Asp115His,ENST00000595641,;MYO9B,missense_variant,p.Asp115His,ENST00000397274,;MYO9B,missense_variant,p.Asp115His,ENST00000595618,;MYO9B,missense_variant,p.Asp115His,ENST00000594824,;CTD-2528A14.5,upstream_gene_variant,,ENST00000597045,;MYO9B,upstream_gene_variant,,ENST00000593411,;	C	ENSG00000099331	ENST00000595618	Transcript	missense_variant	495	343	115	D/H	Gat/Cat	.	.	.	1	MYO9B	HGNC	7609	protein_coding	YES	CCDS46010.1	ENSP00000471457	MYO9B_HUMAN	Q4LE74_HUMAN	UPI000020367C	.	deleterious(0)	probably_damaging(0.977)	2/40	.	hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF306	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGCAGATGGA	.	4	BLCA
ZNF567	0	.	GRCh37	19	37210333	37210333	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.614A>G	p.Asn205Ser	p.N205S	ENST00000585696	3/3	18	14	4	18	18	0	ZNF567,missense_variant,p.Asn205Ser,ENST00000392163,;ZNF567,missense_variant,p.Asn205Ser,ENST00000360729,;ZNF567,missense_variant,p.Asn236Ser,ENST00000536254,;ZNF567,missense_variant,p.Asn205Ser,ENST00000585696,;ZNF567,missense_variant,p.Asn205Ser,ENST00000588311,;ZNF567,intron_variant,,ENST00000589264,;ZNF850,intron_variant,,ENST00000589390,;ZNF567,intron_variant,,ENST00000591308,;	G	ENSG00000189042	ENST00000585696	Transcript	missense_variant	1844	614	205	N/S	aAc/aGc	.	.	.	1	ZNF567	HGNC	28696	protein_coding	YES	CCDS12495.1	ENSP00000467379	ZN567_HUMAN	.	UPI00001BBFD4	.	tolerated(0.46)	benign(0.004)	3/3	.	Superfamily_domains:SSF57667,hmmpanther:PTHR24404:SF25,hmmpanther:PTHR24404,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAAAACCCAT	.	2	BLCA
EIF3K	0	.	GRCh37	19	39127576	39127576	+	3'UTR	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*16A>G	.	.	ENST00000248342	8/8	87	55	32	95	95	0	EIF3K,missense_variant,p.Ile134Met,ENST00000588934,;EIF3K,3_prime_UTR_variant,,ENST00000593149,;EIF3K,3_prime_UTR_variant,,ENST00000592558,;EIF3K,3_prime_UTR_variant,,ENST00000248342,;EIF3K,downstream_gene_variant,,ENST00000591409,;EIF3K,downstream_gene_variant,,ENST00000545173,;EIF3K,downstream_gene_variant,,ENST00000538434,;EIF3K,downstream_gene_variant,,ENST00000588299,;EIF3K,downstream_gene_variant,,ENST00000590134,;	G	ENSG00000178982	ENST00000248342	Transcript	3_prime_UTR_variant	845	.	.	.	.	.	.	.	1	EIF3K	HGNC	24656	protein_coding	YES	CCDS12517.1	ENSP00000248342	EIF3K_HUMAN	K7EK53_HUMAN	UPI000012D318	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATAAAGAT	.	5	BLCA
DYRK1B	0	.	GRCh37	19	40318956	40318956	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.788C>T	p.Ser263Phe	p.S263F	ENST00000593685	6/11	28	20	7	37	37	0	DYRK1B,missense_variant,p.Ser263Phe,ENST00000597639,;DYRK1B,missense_variant,p.Ser263Phe,ENST00000593685,;DYRK1B,missense_variant,p.Ser263Phe,ENST00000348817,;DYRK1B,missense_variant,p.Ser263Phe,ENST00000430012,;DYRK1B,missense_variant,p.Ser263Phe,ENST00000323039,;DYRK1B,downstream_gene_variant,,ENST00000601972,;DYRK1B,downstream_gene_variant,,ENST00000600611,;DYRK1B,downstream_gene_variant,,ENST00000601696,;	A	ENSG00000105204	ENST00000593685	Transcript	missense_variant	1257	788	263	S/F	tCc/tTc	.	.	.	-1	DYRK1B	HGNC	3092	protein_coding	YES	CCDS12543.1	ENSP00000469863	DYR1B_HUMAN	M0R131_HUMAN	UPI0000001059	.	deleterious(0.01)	probably_damaging(0.999)	6/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24058,hmmpanther:PTHR24058:SF27,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCAGGAGCTG	.	5	BLCA
ATP1A3	0	.	GRCh37	19	42471441	42471441	+	Silent	SNP	G	G	A	rs372919447	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3012C>T	p.%3D	p.Y1004Y	ENST00000545399	22/23	40	30	10	67	67	0	ATP1A3,synonymous_variant,p.%3D,ENST00000602133,;ATP1A3,synonymous_variant,p.%3D,ENST00000545399,;ATP1A3,synonymous_variant,p.%3D,ENST00000543770,;ATP1A3,synonymous_variant,p.%3D,ENST00000302102,;ATP1A3,synonymous_variant,p.%3D,ENST00000441343,;	A	ENSG00000105409	ENST00000545399	Transcript	synonymous_variant	3166	3012	1004	Y	taC/taT	rs372919447	.	.	-1	ATP1A3	HGNC	801	protein_coding	YES	CCDS58664.1	ENSP00000444688	AT1A3_HUMAN	Q58I21_HUMAN,M0R116_HUMAN,M0QXF2_HUMAN	UPI0001914BDE	.	.	.	22/23	.	Transmembrane_helices:TMhelix,Superfamily_domains:0049473,Gene3D:1.20.1110.10,Pfam_domain:PF00689,TIGRFAM_domain:TIGR01106,hmmpanther:PTHR24093:SF259,hmmpanther:PTHR24093	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGTCGTAGAC	byFrequency|byCluster	5	BLCA
ZNF235	0	.	GRCh37	19	44791824	44791824	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1764C>T	p.%3D	p.A588A	ENST00000291182	5/5	76	69	7	99	99	0	ZNF235,synonymous_variant,p.%3D,ENST00000291182,;ZNF235,intron_variant,,ENST00000589248,;ZNF235,intron_variant,,ENST00000589799,;ZNF235,downstream_gene_variant,,ENST00000591609,;ZNF235,non_coding_transcript_exon_variant,,ENST00000587921,;ZNF235,intron_variant,,ENST00000592844,;CTC-512J12.7,upstream_gene_variant,,ENST00000605717,;	A	ENSG00000159917	ENST00000291182	Transcript	synonymous_variant	1867	1764	588	A	gcC/gcT	.	.	.	-1	ZNF235	HGNC	12866	protein_coding	YES	CCDS33048.1	ENSP00000291182	ZN235_HUMAN	.	UPI00002025C2	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF251,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGATGGGCTTG	.	3	BLCA
CLPTM1	0	.	GRCh37	19	45476396	45476396	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238C>G	p.Gln80Glu	p.Q80E	ENST00000337392	3/14	79	70	9	85	85	0	CLPTM1,missense_variant,p.Gln80Glu,ENST00000591304,;CLPTM1,missense_variant,p.Gln66Glu,ENST00000541297,;CLPTM1,missense_variant,p.Gln80Glu,ENST00000337392,;CLPTM1,5_prime_UTR_variant,,ENST00000546079,;CLPTM1,5_prime_UTR_variant,,ENST00000585961,;CLPTM1,non_coding_transcript_exon_variant,,ENST00000588855,;CLPTM1,upstream_gene_variant,,ENST00000587537,;	G	ENSG00000104853	ENST00000337392	Transcript	missense_variant	388	238	80	Q/E	Cag/Gag	.	.	.	1	CLPTM1	HGNC	2087	protein_coding	YES	CCDS12651.1	ENSP00000336994	CLPT1_HUMAN	K7EKQ7_HUMAN,B4DDS3_HUMAN	UPI0000072CBA	.	tolerated(0.76)	benign(0.035)	3/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21347,hmmpanther:PTHR21347:SF0,Pfam_domain:PF05602	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCTCAGGAC	.	4	BLCA
ZNF600	0	.	GRCh37	19	53268952	53268952	+	Missense_Mutation	SNP	C	C	T	rs766135512	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2057G>A	p.Gly686Glu	p.G686E	ENST00000338230	3/3	47	28	18	60	60	0	ZNF600,missense_variant,p.Gly686Glu,ENST00000338230,;	T	ENSG00000189190	ENST00000338230	Transcript	missense_variant	2325	2057	686	G/E	gGa/gAa	rs766135512	.	.	-1	ZNF600	HGNC	30951	protein_coding	YES	CCDS12856.1	ENSP00000344791	ZN600_HUMAN	.	UPI0000366E5E	.	tolerated(0.21)	benign(0.008)	3/3	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGTCCAGTA	byFrequency	5	BLCA
LILRA1	0	.	GRCh37	19	55106589	55106589	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.383C>T	p.Ser128Leu	p.S128L	ENST00000251372	5/10	95	79	16	135	135	0	LILRA1,missense_variant,p.Ser128Leu,ENST00000453777,;LILRA1,missense_variant,p.Ser128Leu,ENST00000251372,;LILRB1,intron_variant,,ENST00000418536,;LILRB1,intron_variant,,ENST00000448689,;LILRB1,intron_variant,,ENST00000396321,;CTB-83J4.2,downstream_gene_variant,,ENST00000596330,;LILRA1,non_coding_transcript_exon_variant,,ENST00000473156,;LILRA1,non_coding_transcript_exon_variant,,ENST00000495417,;LILRA1,non_coding_transcript_exon_variant,,ENST00000477255,;	T	ENSG00000104974	ENST00000251372	Transcript	missense_variant	565	383	128	S/L	tCa/tTa	.	.	.	1	LILRA1	HGNC	6602	protein_coding	YES	CCDS12901.1	ENSP00000251372	LIRA1_HUMAN	.	UPI0000034C00	.	tolerated(0.07)	possibly_damaging(0.83)	5/10	.	hmmpanther:PTHR11738:SF89,hmmpanther:PTHR11738,Pfam_domain:PF13927,Gene3D:2.60.40.10,PIRSF_domain:PIRSF001979,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAGCTC	.	5	BLCA
BRSK1	0	.	GRCh37	19	55800876	55800876	+	Missense_Mutation	SNP	G	G	A	rs751858160	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346G>A	p.Gly116Ser	p.G116S	ENST00000309383	4/19	60	55	4	67	67	0	BRSK1,missense_variant,p.Gly116Ser,ENST00000585418,;BRSK1,missense_variant,p.Gly116Ser,ENST00000309383,;BRSK1,missense_variant,p.Gly132Ser,ENST00000590333,;BRSK1,3_prime_UTR_variant,,ENST00000592539,;	A	ENSG00000160469	ENST00000309383	Transcript	missense_variant	623	346	116	G/S	Ggt/Agt	rs751858160	.	.	1	BRSK1	HGNC	18994	protein_coding	YES	CCDS12921.1	ENSP00000310649	BRSK1_HUMAN	K7EM68_HUMAN,J3KNK0_HUMAN	UPI0000070495	.	deleterious(0)	probably_damaging(0.95)	4/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343,hmmpanther:PTHR24343:SF130,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGGGGGTGAG	.	2	BLCA
PEG3	0	.	GRCh37	19	57326047	57326047	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3763C>T	p.Gln1255Ter	p.Q1255*	ENST00000326441	10/10	28	23	5	31	31	0	PEG3,stop_gained,p.Gln1255Ter,ENST00000423103,;PEG3,stop_gained,p.Gln1255Ter,ENST00000599577,;PEG3,stop_gained,p.Gln1255Ter,ENST00000599534,;PEG3,stop_gained,p.Gln1131Ter,ENST00000598410,;PEG3,stop_gained,p.Gln1255Ter,ENST00000326441,;PEG3,stop_gained,p.Gln1129Ter,ENST00000593695,;ZIM2,intron_variant,,ENST00000221722,;ZIM2,intron_variant,,ENST00000601070,;ZIM2,intron_variant,,ENST00000593711,;ZIM2,intron_variant,,ENST00000599935,;ZIM2,intron_variant,,ENST00000391708,;PEG3,downstream_gene_variant,,ENST00000600833,;PEG3,upstream_gene_variant,,ENST00000599565,;ZIM2,intron_variant,,ENST00000597281,;ZIM2,intron_variant,,ENST00000595671,;	A	ENSG00000198300	ENST00000326441	Transcript	stop_gained	4127	3763	1255	Q/*	Cag/Tag	.	.	.	-1	PEG3	HGNC	8826	protein_coding	YES	CCDS12948.1	ENSP00000326581	PEG3_HUMAN	M0QXG1_HUMAN	UPI000006D36D	.	.	.	10/10	.	hmmpanther:PTHR10032,hmmpanther:PTHR10032:SF78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTGCTCCA	.	4	BLCA
ELANE	0	.	GRCh37	19	856106	856106	+	Missense_Mutation	SNP	C	C	G	rs201224216	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.746C>G	p.Ser249Cys	p.S249C	ENST00000590230	6/6	196	166	30	236	236	0	ELANE,missense_variant,p.Ser249Cys,ENST00000263621,;ELANE,missense_variant,p.Ser249Cys,ENST00000590230,;CFD,upstream_gene_variant,,ENST00000592860,;CFD,upstream_gene_variant,,ENST00000327726,;	G	ENSG00000197561	ENST00000590230	Transcript	missense_variant	887	746	249	S/C	tCc/tGc	rs201224216	.	.	1	ELANE	HGNC	3309	protein_coding	YES	CCDS12045.1	ENSP00000466090	ELNE_HUMAN	B2MUD5_HUMAN	UPI0000129E6B	.	tolerated(0.06)	possibly_damaging(0.662)	6/6	.	hmmpanther:PTHR24257:SF16,hmmpanther:PTHR24257	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGCTCCGAGG	byCluster|by1000G	4	BLCA
MUC16	0	.	GRCh37	19	9070692	9070692	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16754C>A	p.Ser5585Ter	p.S5585*	ENST00000397910	3/84	106	93	13	154	154	0	MUC16,stop_gained,p.Ser5585Ter,ENST00000397910,;	T	ENSG00000181143	ENST00000397910	Transcript	stop_gained	16958	16754	5585	S/*	tCa/tAa	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	3/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TGGTTGATGTG	.	3	BLCA
ZNF560	0	.	GRCh37	19	9577886	9577886	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1737A>T	p.Lys579Asn	p.K579N	ENST00000301480	10/10	71	60	11	72	72	0	ZNF560,missense_variant,p.Lys579Asn,ENST00000301480,;ZNF560,downstream_gene_variant,,ENST00000585974,;	A	ENSG00000198028	ENST00000301480	Transcript	missense_variant	1951	1737	579	K/N	aaA/aaT	.	.	.	-1	ZNF560	HGNC	26484	protein_coding	YES	CCDS12214.1	ENSP00000301480	ZN560_HUMAN	.	UPI000013E720	.	deleterious(0)	probably_damaging(0.945)	10/10	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF44,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGCTTTCCC	.	5	BLCA
AGL	0	.	GRCh37	1	100376372	100376372	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3805G>T	p.Ala1269Ser	p.A1269S	ENST00000294724	28/34	25	21	4	26	26	0	AGL,missense_variant,p.Ala1269Ser,ENST00000370163,;AGL,missense_variant,p.Ala1253Ser,ENST00000361302,;AGL,missense_variant,p.Ala1269Ser,ENST00000294724,;AGL,missense_variant,p.Ala1269Ser,ENST00000370165,;AGL,missense_variant,p.Ala1252Ser,ENST00000361522,;AGL,missense_variant,p.Ala1253Ser,ENST00000370161,;AGL,missense_variant,p.Ala1269Ser,ENST00000361915,;	T	ENSG00000162688	ENST00000294724	Transcript	missense_variant	4283	3805	1269	A/S	Gct/Tct	.	.	.	1	AGL	HGNC	321	protein_coding	YES	CCDS759.1	ENSP00000294724	GDE_HUMAN	G1UI17_HUMAN	UPI00001694CB	.	deleterious(0.03)	probably_damaging(0.913)	28/34	.	hmmpanther:PTHR10569,Pfam_domain:PF06202,TIGRFAM_domain:TIGR01531,Superfamily_domains:SSF48208	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	ACAGAGCTAGA	.	2	BLCA
PRPF38B	0	.	GRCh37	1	109241791	109241793	+	In_Frame_Del	DEL	AGG	AGG	-	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	AGG	AGG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.792_794delGAG	p.Arg265del	p.R265del	ENST00000370025	6/6	57	49	8	61	61	0	PRPF38B,inframe_deletion,p.Arg154del,ENST00000370021,;PRPF38B,inframe_deletion,p.Arg265del,ENST00000370025,;PRPF38B,downstream_gene_variant,,ENST00000370022,;PRPF38B,non_coding_transcript_exon_variant,,ENST00000485810,;PRPF38B,downstream_gene_variant,,ENST00000467302,;	-	ENSG00000134186	ENST00000370025	Transcript	inframe_deletion	1059-1061	790-792	264	R/-	AGG/-	.	.	.	1	PRPF38B	HGNC	25512	protein_coding	YES	CCDS788.1	ENSP00000359042	PR38B_HUMAN	.	UPI000013CF13	.	.	.	6/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23142	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCTCCAAGGAGATC	.	3	BLCA
GPR61	0	.	GRCh37	1	110085875	110085875	+	Silent	SNP	C	C	G	rs769522752	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231C>G	p.%3D	p.V77V	ENST00000527748	2/2	175	163	12	187	187	0	GPR61,synonymous_variant,p.%3D,ENST00000527748,;RP5-1160K1.8,intron_variant,,ENST00000526411,;GPR61,upstream_gene_variant,,ENST00000526744,;GPR61,downstream_gene_variant,,ENST00000533959,;GPR61,synonymous_variant,p.%3D,ENST00000404129,;GPR61,synonymous_variant,p.%3D,ENST00000469383,;	G	ENSG00000156097	ENST00000527748	Transcript	synonymous_variant	914	231	77	V	gtC/gtG	rs769522752	.	.	1	GPR61	HGNC	13300	protein_coding	YES	CCDS801.1	ENSP00000432456	GPR61_HUMAN	Q59GL3_HUMAN,G4XH66_HUMAN	UPI000003BCCB	.	.	.	2/2	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR22752:SF5,hmmpanther:PTHR22752,PROSITE_profiles:PS50262,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTGTCTTCGT	.	2	BLCA
GPR61	0	.	GRCh37	1	110086039	110086039	+	Missense_Mutation	SNP	C	C	T	rs571875540	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395C>T	p.Ser132Leu	p.S132L	ENST00000527748	2/2	101	91	10	92	91	1	GPR61,missense_variant,p.Ser132Leu,ENST00000527748,;RP5-1160K1.8,non_coding_transcript_exon_variant,,ENST00000526411,;GPR61,upstream_gene_variant,,ENST00000526744,;GPR61,downstream_gene_variant,,ENST00000533959,;GPR61,missense_variant,p.Ser132Leu,ENST00000404129,;GPR61,missense_variant,p.Ser132Leu,ENST00000469383,;	T	ENSG00000156097	ENST00000527748	Transcript	missense_variant	1078	395	132	S/L	tCg/tTg	rs571875540	.	.	1	GPR61	HGNC	13300	protein_coding	YES	CCDS801.1	ENSP00000432456	GPR61_HUMAN	Q59GL3_HUMAN,G4XH66_HUMAN	UPI000003BCCB	.	deleterious(0)	possibly_damaging(0.835)	2/2	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,PROSITE_patterns:PS00237,hmmpanther:PTHR22752:SF5,hmmpanther:PTHR22752,PROSITE_profiles:PS50262,Transmembrane_helices:TMhelix	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCGGTGT	by1000G	4	BLCA
EXOSC10	0	.	GRCh37	1	11136911	11136911	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1974C>T	p.%3D	p.I658I	ENST00000376936	17/25	31	24	7	43	43	0	EXOSC10,synonymous_variant,p.%3D,ENST00000376936,;EXOSC10,synonymous_variant,p.%3D,ENST00000304457,;EXOSC10,3_prime_UTR_variant,,ENST00000544779,;RP4-635E18.7,downstream_gene_variant,,ENST00000452378,;EXOSC10,non_coding_transcript_exon_variant,,ENST00000470611,;EXOSC10,downstream_gene_variant,,ENST00000485606,;EXOSC10,non_coding_transcript_exon_variant,,ENST00000474216,;EXOSC10,downstream_gene_variant,,ENST00000472078,;EXOSC10,upstream_gene_variant,,ENST00000478271,;EXOSC10,downstream_gene_variant,,ENST00000498576,;EXOSC10,upstream_gene_variant,,ENST00000469634,;	A	ENSG00000171824	ENST00000376936	Transcript	synonymous_variant	2024	1974	658	I	atC/atT	.	.	.	-1	EXOSC10	HGNC	9138	protein_coding	YES	CCDS30584.1	ENSP00000366135	EXOSX_HUMAN	K7EJ37_HUMAN,B4DFE4_HUMAN	UPI0000001C90	.	.	.	17/25	.	hmmpanther:PTHR12124,hmmpanther:PTHR12124:SF42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACGTGATGAC	.	5	BLCA
EXOSC10	0	.	GRCh37	1	11137483	11137483	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1818C>T	p.%3D	p.L606L	ENST00000376936	16/25	81	66	14	98	98	0	EXOSC10,missense_variant,p.Leu659Phe,ENST00000544779,;EXOSC10,synonymous_variant,p.%3D,ENST00000376936,;EXOSC10,synonymous_variant,p.%3D,ENST00000304457,;RP4-635E18.7,downstream_gene_variant,,ENST00000452378,;EXOSC10,non_coding_transcript_exon_variant,,ENST00000470611,;EXOSC10,downstream_gene_variant,,ENST00000485606,;EXOSC10,non_coding_transcript_exon_variant,,ENST00000474216,;EXOSC10,non_coding_transcript_exon_variant,,ENST00000498576,;EXOSC10,downstream_gene_variant,,ENST00000472078,;EXOSC10,upstream_gene_variant,,ENST00000469634,;	A	ENSG00000171824	ENST00000376936	Transcript	synonymous_variant	1868	1818	606	L	ctC/ctT	.	.	.	-1	EXOSC10	HGNC	9138	protein_coding	YES	CCDS30584.1	ENSP00000366135	EXOSX_HUMAN	K7EJ37_HUMAN,B4DFE4_HUMAN	UPI0000001C90	.	.	.	16/25	.	hmmpanther:PTHR12124,hmmpanther:PTHR12124:SF42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	CCAAAGAGAAC	.	4	BLCA
MTOR	0	.	GRCh37	1	11288890	11288890	+	Silent	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2865G>C	p.%3D	p.L955L	ENST00000361445	19/58	47	37	10	76	76	0	MTOR,synonymous_variant,p.%3D,ENST00000361445,;RNU6-291P,downstream_gene_variant,,ENST00000384720,;RPL39P6,upstream_gene_variant,,ENST00000448289,;	G	ENSG00000198793	ENST00000361445	Transcript	synonymous_variant	2942	2865	955	L	ctG/ctC	.	.	.	-1	MTOR	HGNC	3942	protein_coding	YES	CCDS127.1	ENSP00000354558	MTOR_HUMAN	Q96QW8_HUMAN,B1AKQ2_HUMAN,B1AKP8_HUMAN	UPI000012ABD3	.	.	.	19/58	.	hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF63,Pfam_domain:PF11865,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCATCAGGGC	.	5	BLCA
OR10K1	0	.	GRCh37	1	158435384	158435384	+	Missense_Mutation	SNP	G	G	T	rs777382123	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33G>T	p.Glu11Asp	p.E11D	ENST00000289451	1/1	26	20	6	48	48	0	OR10K1,missense_variant,p.Glu11Asp,ENST00000289451,;	T	ENSG00000173285	ENST00000289451	Transcript	missense_variant	113	33	11	E/D	gaG/gaT	rs777382123	.	.	1	OR10K1	HGNC	14693	protein_coding	YES	CCDS30897.1	ENSP00000289451	O10K1_HUMAN	.	UPI0000041B19	.	tolerated(0.05)	benign(0.053)	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26451:SF112,hmmpanther:PTHR26451	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGAGTTCGT	byFrequency	5	BLCA
TOMM40L	0	.	GRCh37	1	161197761	161197761	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466G>A	p.Asp156Asn	p.D156N	ENST00000367988	6/10	85	78	7	51	51	0	TOMM40L,missense_variant,p.Asp156Asn,ENST00000367987,;TOMM40L,missense_variant,p.Asp122Asn,ENST00000545897,;TOMM40L,missense_variant,p.Asp156Asn,ENST00000367988,;NR1I3,downstream_gene_variant,,ENST00000511676,;NR1I3,downstream_gene_variant,,ENST00000512372,;NR1I3,downstream_gene_variant,,ENST00000367985,;NR1I3,downstream_gene_variant,,ENST00000367981,;NR1I3,downstream_gene_variant,,ENST00000367984,;NR1I3,downstream_gene_variant,,ENST00000515621,;NR1I3,downstream_gene_variant,,ENST00000506209,;NR1I3,downstream_gene_variant,,ENST00000367979,;NR1I3,downstream_gene_variant,,ENST00000508740,;APOA2,upstream_gene_variant,,ENST00000468465,;NR1I3,downstream_gene_variant,,ENST00000502985,;NR1I3,downstream_gene_variant,,ENST00000367983,;APOA2,upstream_gene_variant,,ENST00000463812,;NR1I3,downstream_gene_variant,,ENST00000511944,;NR1I3,downstream_gene_variant,,ENST00000442691,;APOA2,upstream_gene_variant,,ENST00000491350,;NR1I3,downstream_gene_variant,,ENST00000504010,;APOA2,upstream_gene_variant,,ENST00000470459,;NR1I3,downstream_gene_variant,,ENST00000412844,;NR1I3,downstream_gene_variant,,ENST00000428574,;NR1I3,downstream_gene_variant,,ENST00000367982,;APOA2,upstream_gene_variant,,ENST00000463273,;NR1I3,downstream_gene_variant,,ENST00000367980,;APOA2,upstream_gene_variant,,ENST00000464492,;NR1I3,downstream_gene_variant,,ENST00000511748,;APOA2,upstream_gene_variant,,ENST00000367990,;NR1I3,downstream_gene_variant,,ENST00000437437,;APOA2,upstream_gene_variant,,ENST00000469730,;NR1I3,downstream_gene_variant,,ENST00000515452,;NR1I3,downstream_gene_variant,,ENST00000508387,;NR1I3,downstream_gene_variant,,ENST00000505005,;MIR5187,downstream_gene_variant,,ENST00000583479,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000474486,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000470426,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000468803,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000492482,;TOMM40L,non_coding_transcript_exon_variant,,ENST00000465512,;NR1I3,downstream_gene_variant,,ENST00000464422,;NR1I3,downstream_gene_variant,,ENST00000503547,;NR1I3,downstream_gene_variant,,ENST00000488651,;NR1I3,downstream_gene_variant,,ENST00000479324,;TOMM40L,upstream_gene_variant,,ENST00000475793,;NR1I3,downstream_gene_variant,,ENST00000505944,;NR1I3,downstream_gene_variant,,ENST00000510951,;NR1I3,downstream_gene_variant,,ENST00000512340,;NR1I3,downstream_gene_variant,,ENST00000506018,;NR1I3,downstream_gene_variant,,ENST00000502848,;APOA2,upstream_gene_variant,,ENST00000481511,;NR1I3,downstream_gene_variant,,ENST00000507215,;APOA2,upstream_gene_variant,,ENST00000481413,;	A	ENSG00000158882	ENST00000367988	Transcript	missense_variant	735	466	156	D/N	Gac/Aac	.	.	.	1	TOMM40L	HGNC	25756	protein_coding	YES	CCDS1227.1	ENSP00000356967	TM40L_HUMAN	.	UPI000006F917	.	tolerated(0.1)	probably_damaging(0.985)	6/10	.	Gene3D:2.40.160.10,Pfam_domain:PF01459,hmmpanther:PTHR10802,hmmpanther:PTHR10802:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCCTGACCTG	.	2	BLCA
SPATA21	0	.	GRCh37	1	16736407	16736407	+	Silent	SNP	C	C	T	rs145844310	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276G>A	p.%3D	p.V92V	ENST00000335496	6/13	32	24	8	54	54	0	SPATA21,synonymous_variant,p.%3D,ENST00000540400,;SPATA21,synonymous_variant,p.%3D,ENST00000335496,;SPATA21,non_coding_transcript_exon_variant,,ENST00000466212,;	T	ENSG00000187144	ENST00000335496	Transcript	synonymous_variant	759	276	92	V	gtG/gtA	rs145844310	.	.	-1	SPATA21	HGNC	28026	protein_coding	YES	CCDS172.1	ENSP00000335612	SPT21_HUMAN	.	UPI00001B4B16	.	.	.	6/13	.	hmmpanther:PTHR10891:SF565,hmmpanther:PTHR10891	T:0.0018	T:0.0068	T:0	.	T:0	T:0	T:0	T:0.0036	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCCACCTC	byFrequency|byCluster|by1000G	5	BLCA
ALDH4A1	0	.	GRCh37	1	19201943	19201943	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1393G>C	p.Glu465Gln	p.E465Q	ENST00000375341	13/15	79	60	19	90	90	0	ALDH4A1,missense_variant,p.Glu405Gln,ENST00000538309,;ALDH4A1,missense_variant,p.Glu414Gln,ENST00000538839,;ALDH4A1,missense_variant,p.Glu465Gln,ENST00000290597,;ALDH4A1,missense_variant,p.Glu465Gln,ENST00000375341,;RP13-279N23.2,3_prime_UTR_variant,,ENST00000494072,;	G	ENSG00000159423	ENST00000375341	Transcript	missense_variant	1651	1393	465	E/Q	Gag/Cag	.	.	.	-1	ALDH4A1	HGNC	406	protein_coding	YES	CCDS188.1	ENSP00000364490	AL4A1_HUMAN	.	UPI000007418C	.	tolerated(0.05)	possibly_damaging(0.794)	13/15	.	hmmpanther:PTHR11699,hmmpanther:PTHR11699:SF18,Gene3D:3.40.309.10,TIGRFAM_domain:TIGR01236,Pfam_domain:PF00171,Superfamily_domains:SSF53720	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCCTTGT	.	5	BLCA
IPO9	0	.	GRCh37	1	201816464	201816464	+	Missense_Mutation	SNP	G	G	A	rs761738400	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221G>A	p.Arg74His	p.R74H	ENST00000361565	2/24	37	28	9	31	31	0	IPO9,missense_variant,p.Arg74His,ENST00000361565,;IPO9,non_coding_transcript_exon_variant,,ENST00000479374,;IPO9,non_coding_transcript_exon_variant,,ENST00000464348,;	A	ENSG00000198700	ENST00000361565	Transcript	missense_variant	290	221	74	R/H	cGt/cAt	rs761738400	.	.	1	IPO9	HGNC	19425	protein_coding	YES	CCDS1415.1	ENSP00000354742	IPO9_HUMAN	.	UPI000007304B	.	deleterious(0)	probably_damaging(1)	2/24	.	PROSITE_profiles:PS50166,hmmpanther:PTHR10997,hmmpanther:PTHR10997:SF9,Gene3D:1.25.10.10,Pfam_domain:PF03810,SMART_domains:SM00913,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCCGTCAGG	.	5	BLCA
KCTD3	0	.	GRCh37	1	215777626	215777626	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1291G>C	p.Glu431Gln	p.E431Q	ENST00000259154	13/18	39	34	5	40	40	0	KCTD3,missense_variant,p.Glu431Gln,ENST00000259154,;KCTD3,missense_variant,p.Glu63Gln,ENST00000452413,;	C	ENSG00000136636	ENST00000259154	Transcript	missense_variant	1585	1291	431	E/Q	Gag/Cag	.	.	.	1	KCTD3	HGNC	21305	protein_coding	YES	CCDS1515.1	ENSP00000259154	KCTD3_HUMAN	B4DJX2_HUMAN	UPI0000071A2E	.	deleterious(0.03)	probably_damaging(0.997)	13/18	.	hmmpanther:PTHR15859,hmmpanther:PTHR15859:SF2,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATCAGAGAAG	.	4	BLCA
GGPS1	0	.	GRCh37	1	235506024	235506024	+	Silent	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.840G>T	p.%3D	p.G280G	ENST00000282841	4/4	17	12	5	24	24	0	GGPS1,synonymous_variant,p.%3D,ENST00000476121,;GGPS1,synonymous_variant,p.%3D,ENST00000358966,;GGPS1,synonymous_variant,p.%3D,ENST00000488594,;GGPS1,synonymous_variant,p.%3D,ENST00000282841,;GGPS1,synonymous_variant,p.%3D,ENST00000391855,;GGPS1,downstream_gene_variant,,ENST00000497327,;GGPS1,downstream_gene_variant,,ENST00000471812,;	T	ENSG00000152904	ENST00000282841	Transcript	synonymous_variant	1072	840	280	G	ggG/ggT	.	.	.	1	GGPS1	HGNC	4249	protein_coding	YES	CCDS1604.1	ENSP00000282841	GGPPS_HUMAN	C9J7M1_HUMAN,C9J6G3_HUMAN,A8MVQ8_HUMAN	UPI000012B3FB	.	.	.	4/4	.	hmmpanther:PTHR12001,hmmpanther:PTHR12001:SF44,Gene3D:1.10.600.10,Superfamily_domains:SSF48576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGGGAACCC	.	5	BLCA
MYOM3	0	.	GRCh37	1	24426229	24426230	+	Frame_Shift_Del	DEL	AA	AA	-	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	AA	AA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.596_597delTT	p.Phe199SerfsTer19	p.F199Sfs*19	ENST00000374434	6/37	48	41	7	60	60	0	MYOM3,frameshift_variant,p.Phe199SerfsTer19,ENST00000374434,;MYOM3,frameshift_variant,p.Phe199SerfsTer19,ENST00000329601,;MYOM3,frameshift_variant,p.Phe200SerfsTer19,ENST00000330966,;MYOM3,non_coding_transcript_exon_variant,,ENST00000475306,;	-	ENSG00000142661	ENST00000374434	Transcript	frameshift_variant	759-760	596-597	199	F/X	tTT/t	.	.	.	-1	MYOM3	HGNC	26679	protein_coding	YES	CCDS41281.1	ENSP00000363557	MYOM3_HUMAN	.	UPI0000203A5D	.	.	.	6/37	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00408,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR19900:SF35,hmmpanther:PTHR19900,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGCACGAAAGAGG	.	3	BLCA
OR14K1	0	.	GRCh37	1	247902073	247902073	+	Missense_Mutation	SNP	C	C	G	rs771821916	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157C>G	p.Leu53Val	p.L53V	ENST00000283225	1/1	62	44	17	45	45	0	OR14K1,missense_variant,p.Leu53Val,ENST00000283225,;RP11-634B7.4,intron_variant,,ENST00000449298,;	G	ENSG00000153230	ENST00000283225	Transcript	missense_variant	157	157	53	L/V	Ctc/Gtc	rs771821916	.	.	1	OR14K1	HGNC	15025	protein_coding	YES	.	ENSP00000283225	O14K1_HUMAN	.	UPI0000041CBA	.	deleterious(0)	probably_damaging(0.987)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF242,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCGTCTCCAC	.	5	BLCA
MTFR1L	0	.	GRCh37	1	26149617	26149617	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22G>A	p.Val8Met	p.V8M	ENST00000374301	2/7	84	71	12	88	88	0	MTFR1L,missense_variant,p.Val8Met,ENST00000374307,;MTFR1L,missense_variant,p.Val8Met,ENST00000526894,;MTFR1L,missense_variant,p.Val8Met,ENST00000529116,;MTFR1L,missense_variant,p.Val8Met,ENST00000525713,;MTFR1L,missense_variant,p.Val8Met,ENST00000374301,;MTFR1L,missense_variant,p.Val8Met,ENST00000466284,;MTFR1L,missense_variant,p.Val8Met,ENST00000374303,;MTFR1L,missense_variant,p.Val8Met,ENST00000474295,;MTFR1L,missense_variant,p.Val8Met,ENST00000526158,;MTFR1L,missense_variant,p.Val8Met,ENST00000374300,;MTFR1L,missense_variant,p.Val8Met,ENST00000424294,;MTFR1L,splice_region_variant,,ENST00000533762,;MTFR1L,splice_region_variant,,ENST00000524618,;MTFR1L,intron_variant,,ENST00000472643,;MTFR1L,intron_variant,,ENST00000488327,;SEPN1,downstream_gene_variant,,ENST00000354177,;AL020996.1,upstream_gene_variant,,ENST00000536896,;SEPN1,downstream_gene_variant,,ENST00000361547,;SEPN1,downstream_gene_variant,,ENST00000374315,;RP1-317E23.3,upstream_gene_variant,,ENST00000442055,;MTFR1L,splice_region_variant,,ENST00000531361,;MTFR1L,intron_variant,,ENST00000469815,;MTFR1L,missense_variant,p.Val8Met,ENST00000528624,;MTFR1L,missense_variant,p.Val8Met,ENST00000530599,;MTFR1L,missense_variant,p.Val8Met,ENST00000464008,;MTFR1L,missense_variant,p.Val8Met,ENST00000478284,;RP1-317E23.6,splice_region_variant,,ENST00000527604,;MTFR1L,non_coding_transcript_exon_variant,,ENST00000494293,;RP1-317E23.6,non_coding_transcript_exon_variant,,ENST00000559265,;MTFR1L,upstream_gene_variant,,ENST00000497956,;RP1-317E23.3,upstream_gene_variant,,ENST00000453649,;	A	ENSG00000117640	ENST00000374301	Transcript	missense_variant	330	22	8	V/M	Gtg/Atg	.	.	.	1	MTFR1L	HGNC	28836	protein_coding	YES	CCDS41284.1	ENSP00000363419	MFR1L_HUMAN	E9PSD6_HUMAN,E9PRW1_HUMAN,E9PPQ0_HUMAN,E9PPF9_HUMAN,E9PLU1_HUMAN,E9PLD2_HUMAN,C9JF50_HUMAN	UPI000006D344	.	tolerated(0.1)	benign(0.188)	2/7	.	hmmpanther:PTHR14215,hmmpanther:PTHR14215:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACTGTGGTA	.	4	BLCA
CATSPER4	0	.	GRCh37	1	26517165	26517165	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.47C>T	p.Thr16Ile	p.T16I	ENST00000456354	1/10	20	12	8	33	33	0	CATSPER4,missense_variant,p.Thr16Ile,ENST00000338855,;CATSPER4,missense_variant,p.Thr16Ile,ENST00000456354,;CNKSR1,downstream_gene_variant,,ENST00000531191,;CNKSR1,downstream_gene_variant,,ENST00000361530,;CNKSR1,downstream_gene_variant,,ENST00000374253,;CATSPER4,missense_variant,p.Thr16Ile,ENST00000518899,;CNKSR1,downstream_gene_variant,,ENST00000482227,;CNKSR1,downstream_gene_variant,,ENST00000480617,;CNKSR1,downstream_gene_variant,,ENST00000484874,;CNKSR1,downstream_gene_variant,,ENST00000528281,;	T	ENSG00000188782	ENST00000456354	Transcript	missense_variant	114	47	16	T/I	aCa/aTa	.	.	.	1	CATSPER4	HGNC	23220	protein_coding	YES	CCDS30645.1	ENSP00000390423	CTSR4_HUMAN	.	UPI00001D9648	.	tolerated_low_confidence(0.09)	benign(0.005)	1/10	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATACAGGCC	.	5	BLCA
BMP8A	0	.	GRCh37	1	39987099	39987099	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725G>T	p.Arg242Leu	p.R242L	ENST00000331593	4/7	31	26	5	51	51	0	BMP8A,missense_variant,p.Arg242Leu,ENST00000331593,;RP11-69E11.4,downstream_gene_variant,,ENST00000440190,;RP11-69E11.4,downstream_gene_variant,,ENST00000417869,;RP11-69E11.4,downstream_gene_variant,,ENST00000450157,;RP11-69E11.4,downstream_gene_variant,,ENST00000431553,;RP11-69E11.4,downstream_gene_variant,,ENST00000441741,;RP11-69E11.4,downstream_gene_variant,,ENST00000458207,;RP11-69E11.4,downstream_gene_variant,,ENST00000331856,;OXCT2P1,downstream_gene_variant,,ENST00000447263,;	T	ENSG00000183682	ENST00000331593	Transcript	missense_variant	1071	725	242	R/L	cGc/cTc	.	.	.	1	BMP8A	HGNC	21650	protein_coding	YES	CCDS437.1	ENSP00000327440	BMP8A_HUMAN	.	UPI00002057D6	.	tolerated(0.22)	possibly_damaging(0.852)	4/7	.	hmmpanther:PTHR11848:SF119,hmmpanther:PTHR11848,Pfam_domain:PF00688	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CCCACGCTCCC	.	2	BLCA
CYP4A22	0	.	GRCh37	1	47603337	47603337	+	Silent	SNP	C	C	T	rs754219380	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180C>T	p.%3D	p.F60F	ENST00000371891	1/12	42	23	19	39	39	0	CYP4A22,synonymous_variant,p.%3D,ENST00000371890,;CYP4A22,synonymous_variant,p.%3D,ENST00000294337,;CYP4A22,synonymous_variant,p.%3D,ENST00000371891,;CYP4A22-AS1,intron_variant,,ENST00000444042,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000485117,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000490948,;	T	ENSG00000162365	ENST00000371891	Transcript	synonymous_variant	211	180	60	F	ttC/ttT	rs754219380	.	.	1	CYP4A22	HGNC	20575	protein_coding	YES	CCDS30707.1	ENSP00000360958	CP4AM_HUMAN	.	UPI00002371F0	.	.	.	1/12	.	hmmpanther:PTHR24290:SF67,hmmpanther:PTHR24290,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCGGGCA	byFrequency	5	BLCA
SLC5A9	0	.	GRCh37	1	48701540	48701540	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1356G>A	p.Met452Ile	p.M452I	ENST00000236495	11/15	63	55	7	69	69	0	SLC5A9,missense_variant,p.Met448Ile,ENST00000533824,;SLC5A9,missense_variant,p.Met427Ile,ENST00000438567,;SLC5A9,missense_variant,p.Met452Ile,ENST00000236495,;SLC5A9,3_prime_UTR_variant,,ENST00000420136,;SLC5A9,upstream_gene_variant,,ENST00000525901,;SLC5A9,upstream_gene_variant,,ENST00000471020,;SLC5A9,3_prime_UTR_variant,,ENST00000441260,;SLC5A9,3_prime_UTR_variant,,ENST00000425816,;SLC5A9,non_coding_transcript_exon_variant,,ENST00000493837,;SLC5A9,upstream_gene_variant,,ENST00000532322,;SLC5A9,downstream_gene_variant,,ENST00000527929,;	A	ENSG00000117834	ENST00000236495	Transcript	missense_variant	1406	1356	452	M/I	atG/atA	.	.	.	1	SLC5A9	HGNC	22146	protein_coding	YES	CCDS44136.1	ENSP00000236495	SC5A9_HUMAN	.	UPI0000251D94	.	deleterious(0.04)	probably_damaging(0.98)	11/15	.	Transmembrane_helices:TMhelix,Pfam_domain:PF00474,TIGRFAM_domain:TIGR00813,hmmpanther:PTHR11819,hmmpanther:PTHR11819:SF96,PROSITE_profiles:PS50283	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGATGGTGGT	.	4	BLCA
TMEM59	0	.	GRCh37	1	54518790	54518790	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>A	p.Met24Ile	p.M24I	ENST00000234831	1/8	98	87	11	97	97	0	TMEM59,missense_variant,p.Met24Ile,ENST00000371337,;TMEM59,missense_variant,p.Met24Ile,ENST00000234831,;TMEM59,missense_variant,p.Met24Ile,ENST00000452421,;TMEM59,intron_variant,,ENST00000440019,;TMEM59,intron_variant,,ENST00000420738,;TMEM59,intron_variant,,ENST00000371341,;TCEANC2,upstream_gene_variant,,ENST00000234827,;TCEANC2,upstream_gene_variant,,ENST00000371331,;MIR4781,upstream_gene_variant,,ENST00000585250,;TCEANC2,upstream_gene_variant,,ENST00000498272,;	T	ENSG00000116209	ENST00000234831	Transcript	missense_variant	322	72	24	M/I	atG/atA	.	.	.	-1	TMEM59	HGNC	1239	protein_coding	YES	CCDS586.1	ENSP00000234831	TMM59_HUMAN	Q5T6Z8_HUMAN	UPI0000001BF9	.	tolerated(0.21)	benign(0)	1/8	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGCCATGGT	.	4	BLCA
CLSTN1	0	.	GRCh37	1	9795075	9795075	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2041G>C	p.Glu681Gln	p.E681Q	ENST00000377298	14/19	108	90	18	164	164	0	CLSTN1,missense_variant,p.Glu482Gln,ENST00000435891,;CLSTN1,missense_variant,p.Glu681Gln,ENST00000377298,;CLSTN1,missense_variant,p.Glu662Gln,ENST00000377288,;CLSTN1,missense_variant,p.Glu671Gln,ENST00000361311,;CLSTN1,upstream_gene_variant,,ENST00000477264,;	G	ENSG00000171603	ENST00000377298	Transcript	missense_variant	2834	2041	681	E/Q	Gag/Cag	.	.	.	-1	CLSTN1	HGNC	17447	protein_coding	YES	CCDS30580.1	ENSP00000366513	CSTN1_HUMAN	.	UPI0000127B95	.	deleterious(0.01)	probably_damaging(0.916)	14/19	.	hmmpanther:PTHR14139,hmmpanther:PTHR14139:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R683H|c.2048G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCAGGGA	.	5	BLCA
DLGAP4	0	.	GRCh37	20	35154443	35154443	+	Intron	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2751+34G>T	.	.	ENST00000373913	.	131	81	50	92	92	0	DLGAP4,intron_variant,,ENST00000401952,;DLGAP4,intron_variant,,ENST00000339266,;DLGAP4,intron_variant,,ENST00000373913,;DLGAP4,intron_variant,,ENST00000373907,;DLGAP4,intron_variant,,ENST00000340491,;RP5-977B1.7,non_coding_transcript_exon_variant,,ENST00000433238,;RP5-977B1.7,intron_variant,,ENST00000439595,;RP5-977B1.7,intron_variant,,ENST00000425233,;DLGAP4,non_coding_transcript_exon_variant,,ENST00000477195,;DLGAP4,intron_variant,,ENST00000475894,;DLGAP4,intron_variant,,ENST00000497862,;DLGAP4,stop_gained,p.Gly238Ter,ENST00000489701,;DLGAP4,intron_variant,,ENST00000478910,;	T	ENSG00000080845	ENST00000373913	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	DLGAP4	HGNC	24476	protein_coding	YES	CCDS13274.1	ENSP00000363023	DLGP4_HUMAN	.	UPI000013D34B	.	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TCCAGGGACAA	.	4	BLCA
ZNF334	0	.	GRCh37	20	45131371	45131371	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607C>G	p.Gln203Glu	p.Q203E	ENST00000347606	5/5	50	44	6	43	43	0	ZNF334,missense_variant,p.Gln226Glu,ENST00000593880,;ZNF334,missense_variant,p.Gln165Glu,ENST00000596323,;ZNF334,missense_variant,p.Gln203Glu,ENST00000347606,;ZNF334,missense_variant,p.Gln165Glu,ENST00000457685,;	C	ENSG00000198185	ENST00000347606	Transcript	missense_variant	790	607	203	Q/E	Cag/Gag	.	.	.	-1	ZNF334	HGNC	15806	protein_coding	YES	CCDS33480.1	ENSP00000255129	ZN334_HUMAN	M0R3E1_HUMAN	UPI000004A0FE	.	tolerated(0.13)	benign(0.097)	5/5	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF116,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATCTGAATGT	.	4	BLCA
ZMYND8	0	.	GRCh37	20	45920581	45920581	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619G>T	p.Glu207Ter	p.E207*	ENST00000461685	6/23	38	29	8	41	41	0	ZMYND8,stop_gained,p.Glu124Ter,ENST00000446994,;ZMYND8,stop_gained,p.Glu182Ter,ENST00000372023,;ZMYND8,stop_gained,p.Glu187Ter,ENST00000355972,;ZMYND8,stop_gained,p.Glu182Ter,ENST00000360911,;ZMYND8,stop_gained,p.Glu187Ter,ENST00000262975,;ZMYND8,stop_gained,p.Glu187Ter,ENST00000311275,;ZMYND8,stop_gained,p.Glu214Ter,ENST00000536340,;ZMYND8,stop_gained,p.Glu114Ter,ENST00000467200,;ZMYND8,stop_gained,p.Glu182Ter,ENST00000540497,;ZMYND8,stop_gained,p.Glu162Ter,ENST00000435836,;ZMYND8,stop_gained,p.Glu207Ter,ENST00000352431,;ZMYND8,stop_gained,p.Glu187Ter,ENST00000396281,;ZMYND8,stop_gained,p.Glu182Ter,ENST00000458360,;ZMYND8,stop_gained,p.Glu207Ter,ENST00000471951,;ZMYND8,stop_gained,p.Glu207Ter,ENST00000461685,;ZMYND8,non_coding_transcript_exon_variant,,ENST00000468376,;	A	ENSG00000101040	ENST00000461685	Transcript	stop_gained	619	619	207	E/*	Gaa/Taa	.	.	.	-1	ZMYND8	HGNC	9397	protein_coding	YES	CCDS13405.1	ENSP00000418210	PKCB1_HUMAN	Q5TH08_HUMAN,Q5TH07_HUMAN	UPI00001BDF63	.	.	.	6/23	.	Superfamily_domains:SSF47370,SMART_domains:SM00297,Pfam_domain:PF00439,Gene3D:1.20.920.10,hmmpanther:PTHR24102:SF13,hmmpanther:PTHR24102,PROSITE_profiles:PS50014	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTCCGCAT	.	5	BLCA
CTSZ	0	.	GRCh37	20	57581450	57581450	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234C>T	p.%3D	p.S78S	ENST00000217131	2/6	35	28	7	41	41	0	CTSZ,synonymous_variant,p.%3D,ENST00000217131,;CTSZ,non_coding_transcript_exon_variant,,ENST00000503833,;CTSZ,non_coding_transcript_exon_variant,,ENST00000488395,;CTSZ,non_coding_transcript_exon_variant,,ENST00000472025,;	A	ENSG00000101160	ENST00000217131	Transcript	synonymous_variant	353	234	78	S	agC/agT	.	.	.	-1	CTSZ	HGNC	2547	protein_coding	YES	CCDS13474.1	ENSP00000217131	CATZ_HUMAN	.	UPI000000D9CC	.	.	.	2/6	.	hmmpanther:PTHR12411:SF14,hmmpanther:PTHR12411,Gene3D:3.90.70.10,Pfam_domain:PF00112,SMART_domains:SM00645,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGATGCTGGC	.	2	BLCA
TCFL5	0	.	GRCh37	20	61473415	61473415	+	Missense_Mutation	SNP	C	C	T	rs763542036	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1415G>A	p.Arg472Gln	p.R472Q	ENST00000335351	6/6	38	35	3	36	36	0	TCFL5,missense_variant,p.Arg472Gln,ENST00000335351,;TCFL5,downstream_gene_variant,,ENST00000217162,;COL9A3,downstream_gene_variant,,ENST00000343916,;COL9A3,downstream_gene_variant,,ENST00000466532,;COL9A3,downstream_gene_variant,,ENST00000467819,;COL9A3,downstream_gene_variant,,ENST00000462700,;COL9A3,downstream_gene_variant,,ENST00000466192,;COL9A3,downstream_gene_variant,,ENST00000469802,;DPH3P1,upstream_gene_variant,,ENST00000486648,;DPH3P1,upstream_gene_variant,,ENST00000502378,;	T	ENSG00000101190	ENST00000335351	Transcript	missense_variant	1508	1415	472	R/Q	cGa/cAa	rs763542036	.	.	-1	TCFL5	HGNC	11646	protein_coding	YES	CCDS13506.1	ENSP00000334294	TCFL5_HUMAN	.	UPI0000206389	.	tolerated(0.07)	probably_damaging(0.99)	6/6	.	hmmpanther:PTHR15402,hmmpanther:PTHR15402:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCCTTCGGCCA	byFrequency	3	BLCA
C20orf195	0	.	GRCh37	20	62187062	62187062	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46G>A	p.Gly16Ser	p.G16S	ENST00000370098	2/2	34	31	3	32	32	0	C20orf195,missense_variant,p.Gly16Ser,ENST00000370097,;C20orf195,missense_variant,p.Gly16Ser,ENST00000370098,;HELZ2,downstream_gene_variant,,ENST00000467148,;HELZ2,downstream_gene_variant,,ENST00000427522,;HELZ2,downstream_gene_variant,,ENST00000478861,;	A	ENSG00000125531	ENST00000370098	Transcript	missense_variant	138	46	16	G/S	Ggc/Agc	.	.	.	1	C20orf195	HGNC	28764	protein_coding	YES	CCDS13526.1	ENSP00000359116	CT195_HUMAN	.	UPI0000072CF6	.	tolerated(0.22)	benign(0.165)	2/2	.	hmmpanther:PTHR14537:SF0,hmmpanther:PTHR14537	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCTGGGCAAT	.	2	BLCA
DSCAM	0	.	GRCh37	21	41710047	41710047	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1764C>T	p.%3D	p.S588S	ENST00000400454	8/33	91	83	8	117	117	0	DSCAM,synonymous_variant,p.%3D,ENST00000404019,;DSCAM,synonymous_variant,p.%3D,ENST00000400454,;	A	ENSG00000171587	ENST00000400454	Transcript	synonymous_variant	2242	1764	588	S	agC/agT	.	.	.	-1	DSCAM	HGNC	3039	protein_coding	YES	CCDS42929.1	ENSP00000383303	DSCAM_HUMAN	.	UPI00000422DF	.	.	.	8/33	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF16,Pfam_domain:PF07679,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGACGCTCTG	.	3	BLCA
SLC7A4	0	.	GRCh37	22	21383721	21383721	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1636C>T	p.Pro546Ser	p.P546S	ENST00000382932	4/5	68	59	8	84	84	0	SLC7A4,missense_variant,p.Pro546Ser,ENST00000403586,;SLC7A4,missense_variant,p.Pro546Ser,ENST00000382932,;P2RX6,downstream_gene_variant,,ENST00000401443,;P2RX6,downstream_gene_variant,,ENST00000413302,;P2RX6,downstream_gene_variant,,ENST00000402329,;SLC7A4,downstream_gene_variant,,ENST00000426145,;P2RX6,downstream_gene_variant,,ENST00000336296,;P2RX6,downstream_gene_variant,,ENST00000443995,;MIR649,downstream_gene_variant,,ENST00000384843,;AC002472.11,upstream_gene_variant,,ENST00000450652,;P2RX6,downstream_gene_variant,,ENST00000442475,;P2RX6,downstream_gene_variant,,ENST00000487342,;P2RX6,downstream_gene_variant,,ENST00000432930,;P2RX6,downstream_gene_variant,,ENST00000422210,;	A	ENSG00000099960	ENST00000382932	Transcript	missense_variant	1704	1636	546	P/S	Ccc/Tcc	.	.	.	-1	SLC7A4	HGNC	11062	protein_coding	YES	CCDS33608.1	ENSP00000372390	CTR4_HUMAN	C9JM63_HUMAN	UPI0000169EC7	.	deleterious(0)	probably_damaging(1)	4/5	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11785:SF196,hmmpanther:PTHR11785,Pfam_domain:PF13906,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGGGAACCA	.	4	BLCA
SLC7A4	0	.	GRCh37	22	21384564	21384564	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1059C>T	p.%3D	p.F353F	ENST00000382932	3/5	46	39	7	67	67	0	SLC7A4,synonymous_variant,p.%3D,ENST00000403586,;SLC7A4,synonymous_variant,p.%3D,ENST00000382932,;P2RX6,downstream_gene_variant,,ENST00000401443,;P2RX6,downstream_gene_variant,,ENST00000413302,;P2RX6,downstream_gene_variant,,ENST00000402329,;SLC7A4,downstream_gene_variant,,ENST00000426145,;P2RX6,downstream_gene_variant,,ENST00000336296,;P2RX6,downstream_gene_variant,,ENST00000443995,;MIR649,downstream_gene_variant,,ENST00000384843,;AC002472.11,upstream_gene_variant,,ENST00000450652,;P2RX6P,downstream_gene_variant,,ENST00000439119,;P2RX6,downstream_gene_variant,,ENST00000442475,;P2RX6,downstream_gene_variant,,ENST00000487342,;P2RX6,downstream_gene_variant,,ENST00000432930,;P2RX6,downstream_gene_variant,,ENST00000422210,;	A	ENSG00000099960	ENST00000382932	Transcript	synonymous_variant	1127	1059	353	F	ttC/ttT	.	.	.	-1	SLC7A4	HGNC	11062	protein_coding	YES	CCDS33608.1	ENSP00000372390	CTR4_HUMAN	C9JM63_HUMAN	UPI0000169EC7	.	.	.	3/5	.	hmmpanther:PTHR11785:SF196,hmmpanther:PTHR11785,Pfam_domain:PF13520,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGAAGAG	.	5	BLCA
ATF4	0	.	GRCh37	22	39917511	39917511	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.61G>C	p.Asp21His	p.D21H	ENST00000337304	1/2	56	47	8	77	77	0	ATF4,missense_variant,p.Asp21His,ENST00000396680,;ATF4,missense_variant,p.Asp21His,ENST00000337304,;ATF4,missense_variant,p.Asp21His,ENST00000404241,;MIEF1,downstream_gene_variant,,ENST00000325301,;	C	ENSG00000128272	ENST00000337304	Transcript	missense_variant	943	61	21	D/H	Gac/Cac	.	.	.	1	ATF4	HGNC	786	protein_coding	YES	CCDS13996.1	ENSP00000336790	ATF4_HUMAN	Q96AQ3_HUMAN,B4DJD4_HUMAN	UPI000000DABF	.	deleterious(0.02)	probably_damaging(0.935)	1/2	.	hmmpanther:PTHR13044:SF2,hmmpanther:PTHR13044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTCGACCAG	.	5	BLCA
ZC3H7B	0	.	GRCh37	22	41734347	41734347	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>C	p.Asp205His	p.D205H	ENST00000352645	8/23	12	9	3	26	26	0	ZC3H7B,missense_variant,p.Asp205His,ENST00000352645,;ZC3H7B,missense_variant,p.Asp205His,ENST00000351589,;ZC3H7B,downstream_gene_variant,,ENST00000486331,;	C	ENSG00000100403	ENST00000352645	Transcript	missense_variant	870	613	205	D/H	Gac/Cac	.	.	.	1	ZC3H7B	HGNC	30869	protein_coding	YES	CCDS14013.1	ENSP00000345793	Z3H7B_HUMAN	.	UPI000002B2AD	.	deleterious(0.03)	possibly_damaging(0.599)	8/23	.	hmmpanther:PTHR14928,hmmpanther:PTHR14928:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGATGACATC	.	2	BLCA
ZC3H7B	0	.	GRCh37	22	41735862	41735862	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859G>A	p.Glu287Lys	p.E287K	ENST00000352645	10/23	137	102	35	119	119	0	ZC3H7B,missense_variant,p.Glu287Lys,ENST00000352645,;ZC3H7B,missense_variant,p.Glu287Lys,ENST00000351589,;ZC3H7B,downstream_gene_variant,,ENST00000486331,;	A	ENSG00000100403	ENST00000352645	Transcript	missense_variant	1116	859	287	E/K	Gag/Aag	.	.	.	1	ZC3H7B	HGNC	30869	protein_coding	YES	CCDS14013.1	ENSP00000345793	Z3H7B_HUMAN	.	UPI000002B2AD	.	tolerated(0.45)	benign(0.124)	10/23	.	hmmpanther:PTHR14928,hmmpanther:PTHR14928:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGTGAGTTG	.	5	BLCA
ZC3H7B	0	.	GRCh37	22	41739457	41739457	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1336G>A	p.Glu446Lys	p.E446K	ENST00000352645	13/23	84	60	23	87	87	0	ZC3H7B,missense_variant,p.Glu446Lys,ENST00000352645,;ZC3H7B,missense_variant,p.Glu446Lys,ENST00000351589,;	A	ENSG00000100403	ENST00000352645	Transcript	missense_variant	1593	1336	446	E/K	Gag/Aag	.	.	.	1	ZC3H7B	HGNC	30869	protein_coding	YES	CCDS14013.1	ENSP00000345793	Z3H7B_HUMAN	.	UPI000002B2AD	.	deleterious(0.04)	possibly_damaging(0.642)	13/23	.	hmmpanther:PTHR14928,hmmpanther:PTHR14928:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTGAGCAC	.	5	BLCA
ATXN10	0	.	GRCh37	22	46098718	46098718	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.638C>G	p.Ser213Ter	p.S213*	ENST00000252934	5/12	58	42	16	81	81	0	ATXN10,stop_gained,p.Ser149Ter,ENST00000381061,;ATXN10,stop_gained,p.Ser213Ter,ENST00000252934,;ATXN10,non_coding_transcript_exon_variant,,ENST00000498009,;ATXN10,upstream_gene_variant,,ENST00000476998,;ATXN10,downstream_gene_variant,,ENST00000470722,;	G	ENSG00000130638	ENST00000252934	Transcript	stop_gained	903	638	213	S/*	tCa/tGa	.	.	.	1	ATXN10	HGNC	10549	protein_coding	YES	CCDS14070.1	ENSP00000252934	ATX10_HUMAN	Q9NTC6_HUMAN	UPI0000052A56	.	.	.	5/12	.	hmmpanther:PTHR13255,hmmpanther:PTHR13255:SF0,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATCAGAAT	.	5	BLCA
ATXN10	0	.	GRCh37	22	46114359	46114359	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.714G>A	p.%3D	p.L238L	ENST00000252934	6/12	70	65	5	56	56	0	ATXN10,synonymous_variant,p.%3D,ENST00000381061,;ATXN10,synonymous_variant,p.%3D,ENST00000252934,;ATXN10,non_coding_transcript_exon_variant,,ENST00000476998,;ATXN10,downstream_gene_variant,,ENST00000498009,;ATXN10,non_coding_transcript_exon_variant,,ENST00000483549,;	A	ENSG00000130638	ENST00000252934	Transcript	synonymous_variant	979	714	238	L	ctG/ctA	.	.	.	1	ATXN10	HGNC	10549	protein_coding	YES	CCDS14070.1	ENSP00000252934	ATX10_HUMAN	Q9NTC6_HUMAN	UPI0000052A56	.	.	.	6/12	.	hmmpanther:PTHR13255,hmmpanther:PTHR13255:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACTGAACAA	.	2	BLCA
CHKB	0	.	GRCh37	22	51020270	51020270	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.355G>A	p.Glu119Lys	p.E119K	ENST00000406938	3/11	104	91	13	87	87	0	CHKB,missense_variant,p.Glu119Lys,ENST00000406938,;CPT1B,upstream_gene_variant,,ENST00000312108,;CPT1B,upstream_gene_variant,,ENST00000417176,;CPT1B,upstream_gene_variant,,ENST00000360719,;CPT1B,upstream_gene_variant,,ENST00000395650,;CPT1B,upstream_gene_variant,,ENST00000434492,;CPT1B,upstream_gene_variant,,ENST00000457250,;CPT1B,upstream_gene_variant,,ENST00000405237,;CPT1B,upstream_gene_variant,,ENST00000440709,;CHKB-AS1,upstream_gene_variant,,ENST00000380711,;CHKB,non_coding_transcript_exon_variant,,ENST00000463053,;CHKB,upstream_gene_variant,,ENST00000464225,;CHKB-CPT1B,upstream_gene_variant,,ENST00000452668,;CHKB,upstream_gene_variant,,ENST00000471515,;CHKB,non_coding_transcript_exon_variant,,ENST00000476289,;CHKB,non_coding_transcript_exon_variant,,ENST00000492582,;CHKB,non_coding_transcript_exon_variant,,ENST00000481673,;CHKB-CPT1B,non_coding_transcript_exon_variant,,ENST00000492556,;CHKB,non_coding_transcript_exon_variant,,ENST00000468532,;CHKB,non_coding_transcript_exon_variant,,ENST00000479003,;CHKB,non_coding_transcript_exon_variant,,ENST00000465842,;CHKB,intron_variant,,ENST00000484266,;CPT1B,upstream_gene_variant,,ENST00000476790,;CPT1B,upstream_gene_variant,,ENST00000460853,;CHKB-CPT1B,upstream_gene_variant,,ENST00000453634,;CPT1B,upstream_gene_variant,,ENST00000461117,;CHKB,upstream_gene_variant,,ENST00000489453,;	T	ENSG00000100288	ENST00000406938	Transcript	missense_variant	573	355	119	E/K	Gaa/Aaa	COSM461050	.	.	-1	CHKB	HGNC	1938	protein_coding	YES	CCDS14099.1	ENSP00000384400	CHKB_HUMAN	H3BT56_HUMAN	UPI000012DE4D	.	deleterious(0)	probably_damaging(0.998)	3/11	.	hmmpanther:PTHR22603:SF28,hmmpanther:PTHR22603,Gene3D:3.10.450.110,Pfam_domain:PF01633,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTTCTAGCA	.	4	BLCA
INHBB	0	.	GRCh37	2	121106682	121106682	+	Silent	SNP	C	C	T	rs145813735	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.456C>T	p.%3D	p.L152L	ENST00000295228	2/2	59	51	8	74	74	0	INHBB,synonymous_variant,p.%3D,ENST00000295228,;	T	ENSG00000163083	ENST00000295228	Transcript	synonymous_variant	502	456	152	L	ctC/ctT	rs145813735	.	.	1	INHBB	HGNC	6067	protein_coding	YES	CCDS2132.1	ENSP00000295228	INHBB_HUMAN	.	UPI000012D427	.	.	.	2/2	.	hmmpanther:PTHR11848,hmmpanther:PTHR11848:SF29,Pfam_domain:PF00688,Prints_domain:PR00671	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R156Q|c.467G>A|3	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGCCTC	byCluster|by1000G	4	BLCA
THSD7B	0	.	GRCh37	2	138414453	138414453	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4202A>T	p.Gln1401Leu	p.Q1401L	ENST00000272643	23/28	51	45	5	72	72	0	THSD7B,missense_variant,p.Gln1398Leu,ENST00000409968,;THSD7B,missense_variant,p.Gln1370Leu,ENST00000413152,;THSD7B,missense_variant,p.Gln1401Leu,ENST00000272643,;THSD7B,intron_variant,,ENST00000543459,;THSD7B,downstream_gene_variant,,ENST00000480352,;	T	ENSG00000144229	ENST00000272643	Transcript	missense_variant	4202	4202	1401	Q/L	cAg/cTg	.	.	.	1	THSD7B	HGNC	29348	protein_coding	YES	.	ENSP00000272643	THS7B_HUMAN	.	UPI00015E0A18	.	deleterious(0)	unknown(0)	23/28	.	PROSITE_profiles:PS50092,hmmpanther:PTHR11311:SF7,hmmpanther:PTHR11311,Pfam_domain:PF00090,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCCAGTCTA	.	4	BLCA
TPO	0	.	GRCh37	2	1457485	1457485	+	Missense_Mutation	SNP	G	G	A	rs150812908	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502G>A	p.Ala168Thr	p.A168T	ENST00000345913	6/17	90	72	18	108	108	0	TPO,missense_variant,p.Ala168Thr,ENST00000329066,;TPO,missense_variant,p.Ala168Thr,ENST00000337415,;TPO,missense_variant,p.Ala168Thr,ENST00000382198,;TPO,missense_variant,p.Ala168Thr,ENST00000382201,;TPO,missense_variant,p.Ala168Thr,ENST00000349624,;TPO,missense_variant,p.Ala168Thr,ENST00000423320,;TPO,missense_variant,p.Ala168Thr,ENST00000346956,;TPO,missense_variant,p.Ala97Thr,ENST00000422464,;TPO,missense_variant,p.Ala168Thr,ENST00000345913,;TPO,intron_variant,,ENST00000497517,;	A	ENSG00000115705	ENST00000345913	Transcript	missense_variant	593	502	168	A/T	Gcc/Acc	rs150812908	.	.	1	TPO	HGNC	12015	protein_coding	YES	CCDS1643.1	ENSP00000318820	PERT_HUMAN	Q53QT2_HUMAN,C9J511_HUMAN	UPI000013D480	.	deleterious(0.03)	probably_damaging(0.994)	6/17	.	PROSITE_profiles:PS50292,hmmpanther:PTHR11475,hmmpanther:PTHR11475:SF60,Pfam_domain:PF03098,Gene3D:1.10.640.10,Superfamily_domains:SSF48113	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0003	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGCGCCTCC	byCluster|by1000G	5	BLCA
STK39	0	.	GRCh37	2	168873576	168873576	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1406G>A	p.Arg469Gln	p.R469Q	ENST00000355999	15/18	19	15	4	10	10	0	STK39,missense_variant,p.Arg469Gln,ENST00000355999,;STK39,non_coding_transcript_exon_variant,,ENST00000487143,;STK39,upstream_gene_variant,,ENST00000461000,;	T	ENSG00000198648	ENST00000355999	Transcript	missense_variant	2112	1406	469	R/Q	cGa/cAa	.	.	.	-1	STK39	HGNC	17717	protein_coding	YES	CCDS42770.1	ENSP00000348278	STK39_HUMAN	.	UPI000013D46D	.	deleterious(0.02)	probably_damaging(0.909)	15/18	.	hmmpanther:PTHR24361:SF201,hmmpanther:PTHR24361,Gene3D:3.10.20.90,Pfam_domain:PF12202	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAATCGTATG	.	4	BLCA
TTN	0	.	GRCh37	2	179485343	179485343	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45905T>A	p.Leu15302His	p.L15302H	ENST00000589042	248/363	21	16	5	34	34	0	TTN,missense_variant,p.Leu6362His,ENST00000359218,;TTN,missense_variant,p.Leu13661His,ENST00000591111,;TTN,missense_variant,p.Leu15302His,ENST00000589042,;TTN,missense_variant,p.Leu12734His,ENST00000342992,;TTN,missense_variant,p.Leu6429His,ENST00000342175,;TTN,missense_variant,p.Leu6237His,ENST00000460472,;RP11-171I2.4,downstream_gene_variant,,ENST00000605334,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000604956,;TTN-AS1,downstream_gene_variant,,ENST00000592750,;TTN-AS1,downstream_gene_variant,,ENST00000456053,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	46130	45905	15302	L/H	cTt/cAt	COSM3837830,COSM3837829,COSM3837826,COSM3837828,COSM3837827	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	248/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTAAGGTCT	.	5	BLCA
FAM117B	0	.	GRCh37	2	203630478	203630478	+	Silent	SNP	T	T	C	.	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1761T>C	p.%3D	p.A587A	ENST00000392238	8/8	30	24	5	37	37	0	FAM117B,synonymous_variant,p.%3D,ENST00000392238,;FAM117B,synonymous_variant,p.%3D,ENST00000303116,;	C	ENSG00000138439	ENST00000392238	Transcript	synonymous_variant	1761	1761	587	A	gcT/gcC	COSM1641791,COSM1641790	.	.	1	FAM117B	HGNC	14440	protein_coding	YES	CCDS33362.2	ENSP00000376071	F117B_HUMAN	.	UPI00015B3B88	.	.	.	8/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14972:SF6,hmmpanther:PTHR14972	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGCTGAAGG	.	5	BLCA
RHOB	0	.	GRCh37	2	20647449	20647449	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223C>A	p.Pro75Thr	p.P75T	ENST00000272233	1/1	105	93	12	124	124	0	RHOB,missense_variant,p.Pro75Thr,ENST00000272233,;AC023137.2,upstream_gene_variant,,ENST00000448241,;	A	ENSG00000143878	ENST00000272233	Transcript	missense_variant	615	223	75	P/T	Ccg/Acg	COSM1306337,COSM1741492	.	.	1	RHOB	HGNC	668	protein_coding	YES	CCDS1699.1	ENSP00000272233	RHOB_HUMAN	B4DMJ8_HUMAN	UPI0000021989	.	deleterious(0)	possibly_damaging(0.558)	1/1	.	PROSITE_profiles:PS51420,hmmpanther:PTHR24072:SF100,hmmpanther:PTHR24072,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00173,SMART_domains:SM00175,SMART_domains:SM00174,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P75S|c.223C>T|3	RADIA|MUTECT|MUSE|VARSCANS	CCTACCCGGAC	.	4	BLCA
IKZF2	0	.	GRCh37	2	213914454	213914454	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.557A>G	p.His186Arg	p.H186R	ENST00000457361	5/8	50	44	5	54	54	0	IKZF2,missense_variant,p.His186Arg,ENST00000457361,;IKZF2,missense_variant,p.His186Arg,ENST00000434687,;IKZF2,missense_variant,p.His160Arg,ENST00000421754,;IKZF2,missense_variant,p.His160Arg,ENST00000451136,;IKZF2,missense_variant,p.His192Arg,ENST00000342002,;IKZF2,missense_variant,p.His160Arg,ENST00000374319,;IKZF2,missense_variant,p.His186Arg,ENST00000413091,;IKZF2,intron_variant,,ENST00000374327,;IKZF2,downstream_gene_variant,,ENST00000433134,;IKZF2,missense_variant,p.His186Arg,ENST00000431520,;IKZF2,3_prime_UTR_variant,,ENST00000453575,;IKZF2,3_prime_UTR_variant,,ENST00000439848,;IKZF2,3_prime_UTR_variant,,ENST00000412444,;IKZF2,3_prime_UTR_variant,,ENST00000374326,;	C	ENSG00000030419	ENST00000457361	Transcript	missense_variant	726	557	186	H/R	cAc/cGc	.	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	deleterious(0)	probably_damaging(0.997)	5/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24404:SF31,hmmpanther:PTHR24404,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAGGTGTCCT	.	4	BLCA
STK11IP	0	.	GRCh37	2	220476408	220476408	+	Silent	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2220G>C	p.%3D	p.R740R	ENST00000295641	18/25	64	46	17	115	115	0	STK11IP,synonymous_variant,p.%3D,ENST00000456909,;STK11IP,synonymous_variant,p.%3D,ENST00000295641,;STK11IP,upstream_gene_variant,,ENST00000447191,;STK11IP,downstream_gene_variant,,ENST00000483319,;STK11IP,upstream_gene_variant,,ENST00000494777,;STK11IP,downstream_gene_variant,,ENST00000475396,;STK11IP,downstream_gene_variant,,ENST00000473899,;STK11IP,downstream_gene_variant,,ENST00000466648,;STK11IP,upstream_gene_variant,,ENST00000495941,;STK11IP,upstream_gene_variant,,ENST00000413891,;	C	ENSG00000144589	ENST00000295641	Transcript	synonymous_variant	2263	2220	740	R	cgG/cgC	.	.	.	1	STK11IP	HGNC	19184	protein_coding	YES	CCDS46521.1	ENSP00000295641	S11IP_HUMAN	C9JQV3_HUMAN	UPI0001AE7798	.	.	.	18/25	.	hmmpanther:PTHR15454:SF16,hmmpanther:PTHR15454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCGGAAACA	.	5	BLCA
C2orf54	0	.	GRCh37	2	241831177	241831177	+	Missense_Mutation	SNP	G	G	A	rs775942728	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.518C>T	p.Ser173Leu	p.S173L	ENST00000388934	2/5	50	43	7	69	69	0	C2orf54,missense_variant,p.Ser5Leu,ENST00000402775,;C2orf54,missense_variant,p.Ser173Leu,ENST00000388934,;C2orf54,missense_variant,p.Ser24Leu,ENST00000307486,;C2orf54,downstream_gene_variant,,ENST00000454476,;C2orf54,downstream_gene_variant,,ENST00000414499,;	A	ENSG00000172478	ENST00000388934	Transcript	missense_variant	677	518	173	S/L	tCg/tTg	rs775942728	.	.	-1	C2orf54	HGNC	26216	protein_coding	YES	CCDS42839.1	ENSP00000373586	CB054_HUMAN	C9JP86_HUMAN,C9JEK0_HUMAN	UPI000049DF42	.	deleterious(0.05)	benign(0.07)	2/5	.	hmmpanther:PTHR10656:SF7,hmmpanther:PTHR10656,Pfam_domain:PF03281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAGCGAACCT	byFrequency	4	BLCA
SLC30A3	0	.	GRCh37	2	27481113	27481113	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>T	p.Gly114Cys	p.G114C	ENST00000233535	3/8	61	39	21	53	53	0	SLC30A3,missense_variant,p.Gly65Cys,ENST00000432351,;SLC30A3,missense_variant,p.Gly92Cys,ENST00000424577,;SLC30A3,missense_variant,p.Gly109Cys,ENST00000447008,;SLC30A3,missense_variant,p.Gly114Cys,ENST00000233535,;SLC30A3,missense_variant,p.Gly65Cys,ENST00000426569,;SLC30A3,missense_variant,p.Gly65Cys,ENST00000450118,;SLC30A3,missense_variant,p.Gly101Cys,ENST00000426924,;SLC30A3,missense_variant,p.Gly103Cys,ENST00000445870,;SLC30A3,non_coding_transcript_exon_variant,,ENST00000497341,;SLC30A3,non_coding_transcript_exon_variant,,ENST00000486309,;SLC30A3,upstream_gene_variant,,ENST00000482990,;	A	ENSG00000115194	ENST00000233535	Transcript	missense_variant	693	340	114	G/C	Ggc/Tgc	.	.	.	-1	SLC30A3	HGNC	11014	protein_coding	YES	CCDS1743.1	ENSP00000233535	ZNT3_HUMAN	C9JM13_HUMAN,C9JHZ9_HUMAN,C9J1K4_HUMAN	UPI000006D0B4	.	deleterious(0.01)	probably_damaging(0.976)	3/8	.	hmmpanther:PTHR11562:SF36,hmmpanther:PTHR11562,Pfam_domain:PF01545,Gene3D:3h90A01,TIGRFAM_domain:TIGR01297,Superfamily_domains:0054606	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGCCCACAT	.	5	BLCA
SMEK2	0	.	GRCh37	2	55806843	55806843	+	Silent	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440C>G	p.%3D	p.T480T	ENST00000345102	9/17	33	26	6	39	39	0	SMEK2,synonymous_variant,p.%3D,ENST00000345102,;SMEK2,synonymous_variant,p.%3D,ENST00000272313,;SMEK2,synonymous_variant,p.%3D,ENST00000407823,;	C	ENSG00000138041	ENST00000345102	Transcript	synonymous_variant	1742	1440	480	T	acC/acG	.	.	.	-1	SMEK2	HGNC	29267	protein_coding	YES	CCDS46289.1	ENSP00000339769	P4R3B_HUMAN	.	UPI00001C1DBA	.	.	.	9/17	.	hmmpanther:PTHR23318:SF2,hmmpanther:PTHR23318	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTATTGGTCAA	.	5	BLCA
LRRTM1	0	.	GRCh37	2	80529681	80529681	+	Missense_Mutation	SNP	C	C	T	rs777356920	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1264G>A	p.Ala422Thr	p.A422T	ENST00000295057	2/2	56	41	15	67	67	0	LRRTM1,missense_variant,p.Ala422Thr,ENST00000295057,;LRRTM1,missense_variant,p.Ala422Thr,ENST00000409148,;CTNNA2,intron_variant,,ENST00000496558,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000540488,;CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000402739,;LRRTM1,downstream_gene_variant,,ENST00000415098,;LRRTM1,downstream_gene_variant,,ENST00000452811,;LRRTM1,downstream_gene_variant,,ENST00000416268,;CTNNA2,upstream_gene_variant,,ENST00000493024,;LRRTM1,missense_variant,p.Ala422Thr,ENST00000417012,;LRRTM1,missense_variant,p.Ala422Thr,ENST00000433224,;	T	ENSG00000162951	ENST00000295057	Transcript	missense_variant	1921	1264	422	A/T	Gcc/Acc	rs777356920	.	.	-1	LRRTM1	HGNC	19408	protein_coding	YES	CCDS1966.1	ENSP00000295057	LRRT1_HUMAN	C9JPM9_HUMAN,C9JF97_HUMAN,C9JEE2_HUMAN	UPI000013E1FE	.	tolerated(0.44)	benign(0.002)	2/2	.	hmmpanther:PTHR24369,hmmpanther:PTHR24369:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACGGCGTTCT	.	5	BLCA
PARP14	0	.	GRCh37	3	122418709	122418709	+	Silent	SNP	A	A	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1308A>T	p.%3D	p.A436A	ENST00000474629	6/17	37	31	5	46	46	0	PARP14,synonymous_variant,p.%3D,ENST00000474629,;PARP14,downstream_gene_variant,,ENST00000494811,;PARP14,synonymous_variant,p.%3D,ENST00000460683,;PARP14,upstream_gene_variant,,ENST00000474669,;	T	ENSG00000173193	ENST00000474629	Transcript	synonymous_variant	1574	1308	436	A	gcA/gcT	.	.	.	1	PARP14	HGNC	29232	protein_coding	YES	CCDS46894.1	ENSP00000418194	PAR14_HUMAN	.	UPI00015A20AB	.	.	.	6/17	.	hmmpanther:PTHR14453:SF53,hmmpanther:PTHR14453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAGCAGGGAA	.	4	BLCA
KALRN	0	.	GRCh37	3	124196175	124196175	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4179C>T	p.%3D	p.F1393F	ENST00000240874	27/34	47	37	10	31	31	0	KALRN,synonymous_variant,p.%3D,ENST00000240874,;KALRN,synonymous_variant,p.%3D,ENST00000460856,;KALRN,synonymous_variant,p.%3D,ENST00000354186,;KALRN,synonymous_variant,p.%3D,ENST00000360013,;KALRN,non_coding_transcript_exon_variant,,ENST00000393501,;	T	ENSG00000160145	ENST00000240874	Transcript	synonymous_variant	4336	4179	1393	F	ttC/ttT	.	.	.	1	KALRN	HGNC	4814	protein_coding	YES	CCDS3027.1	ENSP00000240874	KALRN_HUMAN	.	UPI000012C095	.	.	.	27/34	.	PROSITE_profiles:PS50010,hmmpanther:PTHR22826,hmmpanther:PTHR22826:SF49,Pfam_domain:PF00621,Gene3D:1.20.900.10,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTTTGA	.	5	BLCA
SOX2	0	.	GRCh37	3	181430438	181430438	+	Missense_Mutation	SNP	T	T	G	rs104893802	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.290T>G	p.Leu97Arg	p.L97R	ENST00000325404	1/1	29	25	4	51	51	0	SOX2,missense_variant,p.Leu97Arg,ENST00000431565,;SOX2,missense_variant,p.Leu97Arg,ENST00000325404,;SOX2-OT,intron_variant,,ENST00000498731,;SOX2-OT,intron_variant,,ENST00000595287,;SOX2-OT,intron_variant,,ENST00000593549,;SOX2-OT,intron_variant,,ENST00000597828,;SOX2-OT,intron_variant,,ENST00000493521,;SOX2-OT,intron_variant,,ENST00000593330,;SOX2-OT,intron_variant,,ENST00000477928,;SOX2-OT,intron_variant,,ENST00000600778,;SOX2-OT,intron_variant,,ENST00000596250,;SOX2-OT,intron_variant,,ENST00000600386,;SOX2-OT,intron_variant,,ENST00000598474,;SOX2-OT,intron_variant,,ENST00000476964,;SOX2-OT,intron_variant,,ENST00000492337,;SOX2-OT,intron_variant,,ENST00000466034,;SOX2-OT,intron_variant,,ENST00000491282,;SOX2-OT,intron_variant,,ENST00000498226,;SOX2-OT,intron_variant,,ENST00000599082,;SOX2-OT,intron_variant,,ENST00000469278,;SOX2-OT,intron_variant,,ENST00000600801,;SOX2-OT,intron_variant,,ENST00000597651,;SOX2-OT,downstream_gene_variant,,ENST00000600962,;SOX2-OT,downstream_gene_variant,,ENST00000476125,;	G	ENSG00000181449	ENST00000325404	Transcript	missense_variant	717	290	97	L/R	cTg/cGg	rs104893802,CM051647	.	.	1	SOX2	HGNC	11195	protein_coding	YES	CCDS3239.1	ENSP00000323588	SOX2_HUMAN	.	UPI000003F545	.	deleterious(0)	probably_damaging(1)	1/1	.	PROSITE_profiles:PS50118,hmmpanther:PTHR10270:SF47,hmmpanther:PTHR10270,Pfam_domain:PF00505,Gene3D:1.10.30.10,SMART_domains:SM00398,Superfamily_domains:SSF47095	.	.	.	.	.	.	.	.	.	pathogenic	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGGCTGCGAG	byCluster	4	BLCA
IL1RAP	0	.	GRCh37	3	190326899	190326899	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466C>T	p.Gln156Ter	p.Q156*	ENST00000317757	5/12	46	40	6	49	49	0	IL1RAP,stop_gained,p.Gln15Ter,ENST00000434491,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000439062,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000422940,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000422485,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000317757,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000412504,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000072516,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000447382,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000443369,;IL1RAP,downstream_gene_variant,,ENST00000453359,;IL1RAP,downstream_gene_variant,,ENST00000422625,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000342550,;IL1RAP,stop_gained,p.Gln156Ter,ENST00000413869,;	T	ENSG00000196083	ENST00000317757	Transcript	stop_gained	672	466	156	Q/*	Cag/Tag	.	.	.	1	IL1RAP	HGNC	5995	protein_coding	YES	CCDS54696.1	ENSP00000314807	IL1AP_HUMAN	Q8N9C1_HUMAN,C9JT28_HUMAN,C9J1D9_HUMAN	UPI000020A9C1	.	.	.	5/12	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,hmmpanther:PTHR11890:SF21,hmmpanther:PTHR11890,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCATTCAGAGG	.	4	BLCA
ATP13A5	0	.	GRCh37	3	193081968	193081968	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165C>T	p.%3D	p.P55P	ENST00000342358	2/30	204	144	60	215	215	0	ATP13A5,synonymous_variant,p.%3D,ENST00000342358,;ATP13A5,synonymous_variant,p.%3D,ENST00000446087,;	A	ENSG00000187527	ENST00000342358	Transcript	synonymous_variant	283	165	55	P	ccC/ccT	.	.	.	-1	ATP13A5	HGNC	31789	protein_coding	YES	CCDS33914.1	ENSP00000341942	AT135_HUMAN	.	UPI000050EC1D	.	.	.	2/30	.	Pfam_domain:PF12409,TIGRFAM_domain:TIGR01657,hmmpanther:PTHR24093:SF237,hmmpanther:PTHR24093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTGGGGTCT	.	5	BLCA
GORASP1	0	.	GRCh37	3	39141917	39141917	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.644G>A	p.Gly215Asp	p.G215D	ENST00000319283	6/9	23	14	9	51	51	0	GORASP1,missense_variant,p.Gly60Asp,ENST00000422110,;GORASP1,missense_variant,p.Gly120Asp,ENST00000479927,;GORASP1,missense_variant,p.Gly215Asp,ENST00000319283,;GORASP1,intron_variant,,ENST00000427459,;GORASP1,downstream_gene_variant,,ENST00000441081,;WDR48,downstream_gene_variant,,ENST00000544962,;WDR48,downstream_gene_variant,,ENST00000396258,;GORASP1,downstream_gene_variant,,ENST00000411813,;WDR48,downstream_gene_variant,,ENST00000302313,;GORASP1,downstream_gene_variant,,ENST00000416741,;GORASP1,downstream_gene_variant,,ENST00000437458,;GORASP1,non_coding_transcript_exon_variant,,ENST00000489587,;GORASP1,downstream_gene_variant,,ENST00000493751,;GORASP1,upstream_gene_variant,,ENST00000476334,;GORASP1,downstream_gene_variant,,ENST00000479124,;WDR48,downstream_gene_variant,,ENST00000466405,;GORASP1,downstream_gene_variant,,ENST00000493938,;GORASP1,downstream_gene_variant,,ENST00000486133,;GORASP1,stop_gained,p.Trp201Ter,ENST00000452389,;GORASP1,missense_variant,p.Gly142Asp,ENST00000431601,;GORASP1,missense_variant,p.Ala199Thr,ENST00000453680,;GORASP1,3_prime_UTR_variant,,ENST00000419156,;GORASP1,non_coding_transcript_exon_variant,,ENST00000470910,;GORASP1,non_coding_transcript_exon_variant,,ENST00000441302,;GORASP1,downstream_gene_variant,,ENST00000488479,;GORASP1,downstream_gene_variant,,ENST00000493851,;WDR48,downstream_gene_variant,,ENST00000420940,;GORASP1,downstream_gene_variant,,ENST00000473827,;GORASP1,downstream_gene_variant,,ENST00000466443,;GORASP1,downstream_gene_variant,,ENST00000469471,;GORASP1,downstream_gene_variant,,ENST00000413243,;GORASP1,downstream_gene_variant,,ENST00000492064,;	T	ENSG00000114745	ENST00000319283	Transcript	missense_variant	1466	644	215	G/D	gGc/gAc	COSM4117447	.	.	-1	GORASP1	HGNC	16769	protein_coding	YES	CCDS2681.1	ENSP00000313869	GORS1_HUMAN	F8WD30_HUMAN,C9J5S6_HUMAN	UPI000007074D	.	tolerated(0.13)	benign(0.003)	6/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12893,hmmpanther:PTHR12893:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTGCCAGGT	.	5	BLCA
ITPR1	0	.	GRCh37	3	4722271	4722271	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2957C>T	p.Ser986Phe	p.S986F	ENST00000302640	24/61	48	44	4	37	37	0	ITPR1,missense_variant,p.Ser986Phe,ENST00000443694,;ITPR1,missense_variant,p.Ser1001Phe,ENST00000354582,;ITPR1,missense_variant,p.Ser992Phe,ENST00000423119,;ITPR1,missense_variant,p.Ser977Phe,ENST00000456211,;ITPR1,missense_variant,p.Ser992Phe,ENST00000357086,;ITPR1,missense_variant,p.Ser986Phe,ENST00000302640,;ITPR1,intron_variant,,ENST00000544951,;	T	ENSG00000150995	ENST00000302640	Transcript	missense_variant	3307	2957	986	S/F	tCc/tTc	.	.	.	1	ITPR1	HGNC	6180	protein_coding	YES	CCDS54551.1	ENSP00000306253	ITPR1_HUMAN	.	UPI0000E5A461	.	deleterious(0)	probably_damaging(0.996)	24/61	.	hmmpanther:PTHR13715:SF52,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATCTCCTGCC	.	2	BLCA
ITPR1	0	.	GRCh37	3	4722272	4722272	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2958C>T	p.%3D	p.S986S	ENST00000302640	24/61	47	43	4	37	37	0	ITPR1,synonymous_variant,p.%3D,ENST00000443694,;ITPR1,synonymous_variant,p.%3D,ENST00000354582,;ITPR1,synonymous_variant,p.%3D,ENST00000423119,;ITPR1,synonymous_variant,p.%3D,ENST00000456211,;ITPR1,synonymous_variant,p.%3D,ENST00000357086,;ITPR1,synonymous_variant,p.%3D,ENST00000302640,;ITPR1,intron_variant,,ENST00000544951,;	T	ENSG00000150995	ENST00000302640	Transcript	synonymous_variant	3308	2958	986	S	tcC/tcT	.	.	.	1	ITPR1	HGNC	6180	protein_coding	YES	CCDS54551.1	ENSP00000306253	ITPR1_HUMAN	.	UPI0000E5A461	.	.	.	24/61	.	hmmpanther:PTHR13715:SF52,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCTCCTGCCT	.	2	BLCA
TRAM1L1	0	.	GRCh37	4	118005529	118005529	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1021T>C	p.Ser341Pro	p.S341P	ENST00000310754	1/1	88	79	9	92	92	0	TRAM1L1,missense_variant,p.Ser341Pro,ENST00000310754,;	G	ENSG00000174599	ENST00000310754	Transcript	missense_variant	1208	1021	341	S/P	Tct/Cct	.	.	.	-1	TRAM1L1	HGNC	28371	protein_coding	YES	CCDS3707.1	ENSP00000309402	TR1L1_HUMAN	.	UPI000013F075	.	tolerated(0.4)	benign(0.002)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12371:SF9,hmmpanther:PTHR12371,PIRSF_domain:PIRSF005449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAAGATCTCG	.	4	BLCA
KIAA1109	0	.	GRCh37	4	123095791	123095791	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.277G>T	p.Glu93Ter	p.E93*	ENST00000264501	5/86	29	26	3	32	32	0	KIAA1109,stop_gained,p.Glu93Ter,ENST00000455637,;KIAA1109,stop_gained,p.Glu93Ter,ENST00000264501,;KIAA1109,stop_gained,p.Glu93Ter,ENST00000388738,;	T	ENSG00000138688	ENST00000264501	Transcript	stop_gained	650	277	93	E/*	Gaa/Taa	.	.	.	1	KIAA1109	HGNC	26953	protein_coding	YES	CCDS43267.1	ENSP00000264501	K1109_HUMAN	B3KN93_HUMAN	UPI0000DD87B4	.	.	.	5/86	.	hmmpanther:PTHR31640:SF1,hmmpanther:PTHR31640	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTACAGAAGAC	.	2	BLCA
FAM198B	0	.	GRCh37	4	159091780	159091780	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>A	p.Glu250Lys	p.E250K	ENST00000393807	2/6	18	13	5	43	43	0	FAM198B,missense_variant,p.Glu250Lys,ENST00000296530,;FAM198B,missense_variant,p.Glu250Lys,ENST00000393807,;FAM198B,missense_variant,p.Glu250Lys,ENST00000592057,;FAM198B,missense_variant,p.Glu250Lys,ENST00000585682,;FAM198B,upstream_gene_variant,,ENST00000593260,;FAM198B,downstream_gene_variant,,ENST00000587787,;FAM198B,upstream_gene_variant,,ENST00000592586,;RP11-597D13.9,upstream_gene_variant,,ENST00000514381,;RP11-597D13.9,upstream_gene_variant,,ENST00000505532,;RP11-597D13.9,upstream_gene_variant,,ENST00000509463,;RP11-597D13.9,upstream_gene_variant,,ENST00000503611,;FAM198B,intron_variant,,ENST00000589306,;	T	ENSG00000164125	ENST00000393807	Transcript	missense_variant	1155	748	250	E/K	Gag/Aag	.	.	.	-1	FAM198B	HGNC	25312	protein_coding	YES	CCDS34087.1	ENSP00000377396	F198B_HUMAN	K7EK71_HUMAN	UPI00003672A2	.	tolerated(0.19)	benign(0.005)	2/6	.	hmmpanther:PTHR15905,hmmpanther:PTHR15905:SF1,Pfam_domain:PF15051	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCCAGCA	.	5	BLCA
ATP10D	0	.	GRCh37	4	47517632	47517632	+	Missense_Mutation	SNP	C	C	T	rs748191553	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430C>T	p.Arg144Trp	p.R144W	ENST00000273859	3/23	37	33	4	34	34	0	ATP10D,missense_variant,p.Arg144Trp,ENST00000504445,;ATP10D,missense_variant,p.Arg144Trp,ENST00000273859,;ATP10D,downstream_gene_variant,,ENST00000507889,;	T	ENSG00000145246	ENST00000273859	Transcript	missense_variant	699	430	144	R/W	Cgg/Tgg	rs748191553	.	.	1	ATP10D	HGNC	13549	protein_coding	YES	CCDS3476.1	ENSP00000273859	AT10D_HUMAN	.	UPI00001AE9B7	.	deleterious(0)	probably_damaging(0.993)	3/23	.	hmmpanther:PTHR24092,hmmpanther:PTHR24092:SF61,Gene3D:2.70.150.10,TIGRFAM_domain:TIGR01652,Pfam_domain:PF00122,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTATCGGAAA	byFrequency	2	BLCA
COPS4	0	.	GRCh37	4	83978134	83978134	+	Silent	SNP	C	C	T	rs762663194	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466C>T	p.%3D	p.L156L	ENST00000264389	5/10	54	46	8	52	52	0	COPS4,synonymous_variant,p.%3D,ENST00000511653,;COPS4,synonymous_variant,p.%3D,ENST00000503682,;COPS4,synonymous_variant,p.%3D,ENST00000509317,;COPS4,synonymous_variant,p.%3D,ENST00000264389,;COPS4,synonymous_variant,p.%3D,ENST00000509093,;COPS4,non_coding_transcript_exon_variant,,ENST00000506443,;	T	ENSG00000138663	ENST00000264389	Transcript	synonymous_variant	601	466	156	L	Ctg/Ttg	rs762663194	.	.	1	COPS4	HGNC	16702	protein_coding	YES	CCDS3600.1	ENSP00000264389	CSN4_HUMAN	.	UPI0000037722	.	.	.	5/10	.	hmmpanther:PTHR10855	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATATCTGGAG	.	4	BLCA
CDS1	0	.	GRCh37	4	85556434	85556434	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.740C>T	p.Ser247Leu	p.S247L	ENST00000295887	8/13	30	21	8	26	26	0	CDS1,missense_variant,p.Ser247Leu,ENST00000295887,;	T	ENSG00000163624	ENST00000295887	Transcript	missense_variant	1163	740	247	S/L	tCa/tTa	.	.	.	1	CDS1	HGNC	1800	protein_coding	YES	CCDS3608.1	ENSP00000295887	CDS1_HUMAN	.	UPI0000127453	.	tolerated(0.07)	possibly_damaging(0.631)	8/13	.	Transmembrane_helices:TMhelix,PIRSF_domain:PIRSF018269,Pfam_domain:PF01148,hmmpanther:PTHR13773,hmmpanther:PTHR13773:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AATATCAAGTG	.	4	BLCA
CDC25C	0	.	GRCh37	5	137665260	137665260	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>C	p.Ala91Pro	p.A91P	ENST00000323760	3/14	81	64	17	149	149	0	CDC25C,missense_variant,p.Ala91Pro,ENST00000513970,;CDC25C,missense_variant,p.Ala91Pro,ENST00000356505,;CDC25C,missense_variant,p.Ala91Pro,ENST00000323760,;CDC25C,missense_variant,p.Ala108Pro,ENST00000510119,;CDC25C,missense_variant,p.Ala91Pro,ENST00000514555,;CDC25C,missense_variant,p.Ala91Pro,ENST00000503022,;CDC25C,intron_variant,,ENST00000357274,;CDC25C,intron_variant,,ENST00000415130,;CDC25C,intron_variant,,ENST00000348983,;FAM53C,upstream_gene_variant,,ENST00000512180,;FAM53C,upstream_gene_variant,,ENST00000511595,;FAM53C,upstream_gene_variant,,ENST00000506710,;CDC25C,upstream_gene_variant,,ENST00000504831,;	G	ENSG00000158402	ENST00000323760	Transcript	missense_variant	550	271	91	A/P	Gca/Cca	.	.	.	-1	CDC25C	HGNC	1727	protein_coding	YES	CCDS4202.1	ENSP00000321656	MPIP3_HUMAN	D6RJC2_HUMAN	UPI000013E3D2	.	tolerated(0.56)	benign(0.015)	3/14	.	hmmpanther:PTHR10828,hmmpanther:PTHR10828:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTGCAGAAG	.	5	BLCA
SLC6A3	0	.	GRCh37	5	1394820	1394820	+	3'UTR	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*30C>T	.	.	ENST00000270349	15/15	62	41	20	58	58	0	SLC6A3,3_prime_UTR_variant,,ENST00000512002,;SLC6A3,3_prime_UTR_variant,,ENST00000270349,;SLC6A3,3_prime_UTR_variant,,ENST00000453492,;	A	ENSG00000142319	ENST00000270349	Transcript	3_prime_UTR_variant	2021	.	.	.	.	.	.	.	-1	SLC6A3	HGNC	11049	protein_coding	YES	CCDS3863.1	ENSP00000270349	SC6A3_HUMAN	Q6LC27_HUMAN,H0YBA7_HUMAN	UPI000013548F	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATGACTTC	.	5	BLCA
PCDHA3	0	.	GRCh37	5	140182066	140182066	+	Silent	SNP	G	G	A	rs782571599	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1284G>A	p.%3D	p.R428R	ENST00000522353	1/4	164	131	33	186	186	0	PCDHA3,synonymous_variant,p.%3D,ENST00000532566,;PCDHA3,synonymous_variant,p.%3D,ENST00000522353,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA2,intron_variant,,ENST00000520672,;PCDHA4,upstream_gene_variant,,ENST00000530339,;PCDHA4,upstream_gene_variant,,ENST00000356878,;PCDHA4,upstream_gene_variant,,ENST00000512229,;	A	ENSG00000255408	ENST00000522353	Transcript	synonymous_variant	1284	1284	428	R	cgG/cgA	rs782571599	.	.	1	PCDHA3	HGNC	8669	protein_coding	YES	CCDS54915.1	ENSP00000429808	PCDA3_HUMAN	.	UPI00001273CB	.	.	.	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF93,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCGGGACGG	byFrequency	5	BLCA
HTR4	0	.	GRCh37	5	147928314	147928314	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>A	p.%3D	p.E90E	ENST00000360693	4/8	15	10	5	21	21	0	HTR4,synonymous_variant,p.%3D,ENST00000521530,;HTR4,synonymous_variant,p.%3D,ENST00000520514,;HTR4,synonymous_variant,p.%3D,ENST00000517929,;HTR4,synonymous_variant,p.%3D,ENST00000362016,;HTR4,synonymous_variant,p.%3D,ENST00000354217,;HTR4,synonymous_variant,p.%3D,ENST00000314512,;HTR4,synonymous_variant,p.%3D,ENST00000521735,;HTR4,synonymous_variant,p.%3D,ENST00000360693,;HTR4,synonymous_variant,p.%3D,ENST00000377888,;HTR4,downstream_gene_variant,,ENST00000519495,;HTR4,synonymous_variant,p.%3D,ENST00000522588,;HTR4,synonymous_variant,p.%3D,ENST00000524063,;HTR4,non_coding_transcript_exon_variant,,ENST00000521124,;	T	ENSG00000164270	ENST00000360693	Transcript	synonymous_variant	409	270	90	E	gaG/gaA	.	.	.	-1	HTR4	HGNC	5299	protein_coding	YES	CCDS34272.1	ENSP00000353915	5HT4R_HUMAN	.	UPI00002323B1	.	.	.	4/8	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249:SF33,hmmpanther:PTHR24249,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACACCTCCCC	.	2	BLCA
HTR4	0	.	GRCh37	5	147928327	147928327	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.257G>T	p.Trp86Leu	p.W86L	ENST00000360693	4/8	18	14	4	25	25	0	HTR4,missense_variant,p.Trp86Leu,ENST00000521530,;HTR4,missense_variant,p.Trp86Leu,ENST00000520514,;HTR4,missense_variant,p.Trp86Leu,ENST00000517929,;HTR4,missense_variant,p.Trp86Leu,ENST00000362016,;HTR4,missense_variant,p.Trp86Leu,ENST00000354217,;HTR4,missense_variant,p.Trp86Leu,ENST00000314512,;HTR4,missense_variant,p.Trp86Leu,ENST00000521735,;HTR4,missense_variant,p.Trp86Leu,ENST00000360693,;HTR4,missense_variant,p.Trp86Leu,ENST00000377888,;HTR4,downstream_gene_variant,,ENST00000519495,;HTR4,missense_variant,p.Trp86Leu,ENST00000522588,;HTR4,missense_variant,p.Trp86Leu,ENST00000524063,;HTR4,non_coding_transcript_exon_variant,,ENST00000521124,;	A	ENSG00000164270	ENST00000360693	Transcript	missense_variant	396	257	86	W/L	tGg/tTg	.	.	.	-1	HTR4	HGNC	5299	protein_coding	YES	CCDS34272.1	ENSP00000353915	5HT4R_HUMAN	.	UPI00002323B1	.	deleterious(0)	probably_damaging(1)	4/8	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249:SF33,hmmpanther:PTHR24249,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAATCCAGATG	.	3	BLCA
SYNPO	0	.	GRCh37	5	150028206	150028206	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1101C>T	p.%3D	p.L367L	ENST00000394243	3/3	104	81	22	150	150	0	SYNPO,synonymous_variant,p.%3D,ENST00000519664,;SYNPO,synonymous_variant,p.%3D,ENST00000394243,;SYNPO,synonymous_variant,p.%3D,ENST00000522122,;SYNPO,synonymous_variant,p.%3D,ENST00000307662,;SYNPO,non_coding_transcript_exon_variant,,ENST00000518872,;	T	ENSG00000171992	ENST00000394243	Transcript	synonymous_variant	1475	1101	367	L	ctC/ctT	.	.	.	1	SYNPO	HGNC	30672	protein_coding	YES	CCDS54937.1	ENSP00000377789	SYNPO_HUMAN	Q71HJ6_HUMAN	UPI000013F943	.	.	.	3/3	.	hmmpanther:PTHR24217:SF11,hmmpanther:PTHR24217	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCCCATC	.	5	BLCA
FLT4	0	.	GRCh37	5	180055979	180055979	+	Missense_Mutation	SNP	C	C	T	rs747487993	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1006G>A	p.Glu336Lys	p.E336K	ENST00000261937	8/30	37	26	10	60	60	0	FLT4,missense_variant,p.Glu336Lys,ENST00000502649,;FLT4,missense_variant,p.Glu336Lys,ENST00000261937,;FLT4,missense_variant,p.Glu336Lys,ENST00000393347,;FLT4,non_coding_transcript_exon_variant,,ENST00000424276,;FLT4,non_coding_transcript_exon_variant,,ENST00000502293,;FLT4,downstream_gene_variant,,ENST00000513527,;FLT4,non_coding_transcript_exon_variant,,ENST00000507059,;	T	ENSG00000037280	ENST00000261937	Transcript	missense_variant	1085	1006	336	E/K	Gag/Aag	rs747487993	.	.	-1	FLT4	HGNC	3767	protein_coding	YES	CCDS4457.1	ENSP00000261937	VGFR3_HUMAN	D6RFF2_HUMAN	UPI00001488E7	.	tolerated(0.19)	benign(0.194)	8/30	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF49,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTCGACGC	byFrequency	5	BLCA
BTNL8	0	.	GRCh37	5	180377222	180377222	+	Missense_Mutation	SNP	G	G	A	rs754512426	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1181G>A	p.Arg394His	p.R394H	ENST00000340184	8/8	14	9	5	33	33	0	BTNL8,missense_variant,p.Arg210His,ENST00000533815,;BTNL8,missense_variant,p.Arg394His,ENST00000340184,;BTNL8,missense_variant,p.Arg187His,ENST00000505126,;BTNL8,missense_variant,p.Arg269His,ENST00000400707,;BTNL8,missense_variant,p.Arg278His,ENST00000511704,;BTNL8,3_prime_UTR_variant,,ENST00000508408,;BTNL8,3_prime_UTR_variant,,ENST00000231229,;BTNL8,downstream_gene_variant,,ENST00000514448,;BTNL8,downstream_gene_variant,,ENST00000513442,;BTNL8,downstream_gene_variant,,ENST00000503543,;RPS29P12,downstream_gene_variant,,ENST00000460178,;	A	ENSG00000113303	ENST00000340184	Transcript	missense_variant	1387	1181	394	R/H	cGt/cAt	rs754512426	.	.	1	BTNL8	HGNC	26131	protein_coding	YES	CCDS43413.1	ENSP00000342197	BTNL8_HUMAN	D6RIR7_HUMAN	UPI00000389ED	.	tolerated(1)	benign(0.002)	8/8	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24100:SF13,hmmpanther:PTHR24100,Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE	TCCCCGTTTTA	byFrequency	3	BLCA
TRMT11	0	.	GRCh37	6	126320607	126320607	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527C>T	p.Ala176Val	p.A176V	ENST00000334379	7/13	26	19	7	26	26	0	TRMT11,missense_variant,p.Ala113Val,ENST00000446681,;TRMT11,missense_variant,p.Ala176Val,ENST00000334379,;TRMT11,missense_variant,p.Ala176Val,ENST00000450358,;TRMT11,missense_variant,p.Ala176Val,ENST00000368332,;TRMT11,downstream_gene_variant,,ENST00000473273,;TRMT11,downstream_gene_variant,,ENST00000444121,;TRMT11,upstream_gene_variant,,ENST00000453993,;TRMT11,downstream_gene_variant,,ENST00000489934,;TRMT11,missense_variant,p.Ala176Val,ENST00000468097,;TRMT11,missense_variant,p.Ala176Val,ENST00000479748,;TRMT11,3_prime_UTR_variant,,ENST00000461129,;	T	ENSG00000066651	ENST00000334379	Transcript	missense_variant	648	527	176	A/V	gCa/gTa	.	.	.	1	TRMT11	HGNC	21080	protein_coding	YES	CCDS35496.1	ENSP00000333934	TRM11_HUMAN	Q5JY02_HUMAN,Q5JY01_HUMAN	UPI000014DBD1	.	tolerated(0.07)	benign(0.059)	7/13	.	PROSITE_profiles:PS51627,hmmpanther:PTHR13370,hmmpanther:PTHR13370:SF3,PIRSF_domain:PIRSF017259,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTGCAGATG	.	5	BLCA
RNF39	0	.	GRCh37	6	30043546	30043546	+	Silent	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21G>C	p.%3D	p.T7T	ENST00000244360	1/4	39	33	5	73	73	0	RNF39,synonymous_variant,p.%3D,ENST00000376751,;RNF39,synonymous_variant,p.%3D,ENST00000244360,;	G	ENSG00000204618	ENST00000244360	Transcript	synonymous_variant	119	21	7	T	acG/acC	.	.	.	-1	RNF39	HGNC	18064	protein_coding	YES	CCDS4673.1	ENSP00000244360	RNF39_HUMAN	Q96QB5_HUMAN	UPI000000D735	.	.	.	1/4	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCTCGTCAA	.	4	BLCA
VARS	0	.	GRCh37	6	31747546	31747546	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3127G>A	p.Glu1043Lys	p.E1043K	ENST00000375663	27/30	40	31	9	41	41	0	VARS,missense_variant,p.Glu1043Lys,ENST00000375663,;VWA7,upstream_gene_variant,,ENST00000375686,;VWA7,upstream_gene_variant,,ENST00000447450,;VWA7,upstream_gene_variant,,ENST00000375688,;VARS,downstream_gene_variant,,ENST00000428445,;VARS,downstream_gene_variant,,ENST00000444930,;Y_RNA,upstream_gene_variant,,ENST00000364685,;VWA7,upstream_gene_variant,,ENST00000467576,;VARS,upstream_gene_variant,,ENST00000470953,;VARS,downstream_gene_variant,,ENST00000482996,;VARS,downstream_gene_variant,,ENST00000483275,;VWA7,upstream_gene_variant,,ENST00000497645,;VARS,non_coding_transcript_exon_variant,,ENST00000463184,;VARS,downstream_gene_variant,,ENST00000495010,;VARS,downstream_gene_variant,,ENST00000474643,;VARS,downstream_gene_variant,,ENST00000461328,;VARS,downstream_gene_variant,,ENST00000479051,;VARS,downstream_gene_variant,,ENST00000461874,;VARS,downstream_gene_variant,,ENST00000459667,;	T	ENSG00000204394	ENST00000375663	Transcript	missense_variant	3568	3127	1043	E/K	Gag/Aag	.	.	.	-1	VARS	HGNC	12651	protein_coding	YES	CCDS34412.1	ENSP00000364815	SYVC_HUMAN	A2ABF4_HUMAN	UPI00001366EA	.	tolerated(0.9)	benign(0.005)	27/30	.	Superfamily_domains:SSF47323,Gene3D:1.10.730.10,TIGRFAM_domain:TIGR00422,Pfam_domain:PF08264,hmmpanther:PTHR11946,hmmpanther:PTHR11946:SF54,HAMAP:MF_02004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTCAGCTG	.	5	BLCA
ITPR3	0	.	GRCh37	6	33644592	33644592	+	Silent	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3330C>T	p.%3D	p.I1110I	ENST00000374316	27/59	55	47	8	44	44	0	ITPR3,synonymous_variant,p.%3D,ENST00000374316,;ITPR3,synonymous_variant,p.%3D,ENST00000605930,;	T	ENSG00000096433	ENST00000374316	Transcript	synonymous_variant	4390	3330	1110	I	atC/atT	.	.	.	1	ITPR3	HGNC	6182	protein_coding	YES	CCDS4783.1	ENSP00000363435	ITPR3_HUMAN	A6H8K3_HUMAN	UPI000013CB74	.	.	.	27/59	.	hmmpanther:PTHR13715:SF51,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGATCAAGTC	.	5	BLCA
GIMAP8	0	.	GRCh37	7	150171112	150171112	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.695G>A	p.Arg232Lys	p.R232K	ENST00000307271	4/5	101	92	8	98	98	0	GIMAP8,missense_variant,p.Arg232Lys,ENST00000307271,;	A	ENSG00000171115	ENST00000307271	Transcript	missense_variant	1269	695	232	R/K	aGg/aAg	COSM3635940	.	.	1	GIMAP8	HGNC	21792	protein_coding	YES	CCDS34777.1	ENSP00000305107	GIMA8_HUMAN	.	UPI0000168646	.	tolerated(0.59)	benign(0.012)	4/5	.	hmmpanther:PTHR10903,hmmpanther:PTHR10903:SF45	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAAAGGCAGC	.	2	BLCA
NUB1	0	.	GRCh37	7	151042520	151042520	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157G>C	p.Asp53His	p.D53H	ENST00000568733	2/15	24	17	7	21	21	0	NUB1,missense_variant,p.Asp29His,ENST00000355851,;NUB1,missense_variant,p.Asp29His,ENST00000566856,;NUB1,missense_variant,p.Asp53His,ENST00000568733,;NUB1,missense_variant,p.Asp29His,ENST00000470229,;NUB1,missense_variant,p.Asp29His,ENST00000483358,;NUB1,missense_variant,p.Asp53His,ENST00000413040,;NUB1,missense_variant,p.Asp29His,ENST00000470316,;NUB1,missense_variant,p.Asp29His,ENST00000468404,;	C	ENSG00000013374	ENST00000568733	Transcript	missense_variant	223	157	53	D/H	Gat/Cat	.	.	.	1	NUB1	HGNC	17623	protein_coding	YES	CCDS59089.1	ENSP00000454264	.	H3BM74_HUMAN,C9JRT6_HUMAN,C9J7X7_HUMAN	UPI00021CF908	.	deleterious(0.04)	possibly_damaging(0.734)	2/15	.	hmmpanther:PTHR12948	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATACAGATGAA	.	2	BLCA
EIF4H	0	.	GRCh37	7	73604598	73604598	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.431C>T	p.Ser144Phe	p.S144F	ENST00000265753	5/7	34	25	8	43	43	0	EIF4H,missense_variant,p.Ser144Phe,ENST00000265753,;EIF4H,intron_variant,,ENST00000353999,;MIR590,upstream_gene_variant,,ENST00000385008,;EIF4H,non_coding_transcript_exon_variant,,ENST00000495187,;EIF4H,non_coding_transcript_exon_variant,,ENST00000489484,;EIF4H,downstream_gene_variant,,ENST00000479338,;	T	ENSG00000106682	ENST00000265753	Transcript	missense_variant	570	431	144	S/F	tCt/tTt	COSM3882317	.	.	1	EIF4H	HGNC	12741	protein_coding	YES	CCDS5564.1	ENSP00000265753	IF4H_HUMAN	Q75MU2_HUMAN,Q75MU1_HUMAN,Q75MT8_HUMAN	UPI000012D373	.	deleterious(0.05)	benign(0.087)	5/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23236,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCTAGAG	.	5	BLCA
MIOS	0	.	GRCh37	7	7613733	7613733	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1299G>C	p.Met433Ile	p.M433I	ENST00000340080	5/13	20	17	3	22	22	0	MIOS,missense_variant,p.Met433Ile,ENST00000405785,;MIOS,missense_variant,p.Met433Ile,ENST00000340080,;MIOS,downstream_gene_variant,,ENST00000456533,;MIOS,downstream_gene_variant,,ENST00000433056,;MIOS,downstream_gene_variant,,ENST00000445169,;MIOS,downstream_gene_variant,,ENST00000433635,;	C	ENSG00000164654	ENST00000340080	Transcript	missense_variant	1720	1299	433	M/I	atG/atC	.	.	.	1	MIOS	HGNC	21905	protein_coding	YES	CCDS43554.1	ENSP00000339881	MIO_HUMAN	C9JUE6_HUMAN,C9JTV2_HUMAN,C9JAQ1_HUMAN	UPI000020EB0B	.	tolerated(1)	benign(0.001)	5/13	.	hmmpanther:PTHR16453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTATGAAGCA	.	2	BLCA
VPS13B	0	.	GRCh37	8	100493888	100493888	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3728G>A	p.Arg1243Lys	p.R1243K	ENST00000358544	25/62	331	82	248	125	125	0	VPS13B,missense_variant,p.Arg1243Lys,ENST00000395996,;VPS13B,missense_variant,p.Arg1243Lys,ENST00000358544,;VPS13B,missense_variant,p.Arg1243Lys,ENST00000357162,;VPS13B,missense_variant,p.Arg1243Lys,ENST00000496144,;	A	ENSG00000132549	ENST00000358544	Transcript	missense_variant	3839	3728	1243	R/K	aGa/aAa	.	.	.	1	VPS13B	HGNC	2183	protein_coding	YES	CCDS6280.1	ENSP00000351346	VP13B_HUMAN	.	UPI00001D2D35	.	tolerated(0.36)	benign(0.153)	25/62	.	hmmpanther:PTHR12517,hmmpanther:PTHR12517:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGAGAGGCA	.	5	BLCA
RP1L1	0	.	GRCh37	8	10480436	10480436	+	Silent	SNP	G	G	A	rs372461532	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276C>T	p.%3D	p.A92A	ENST00000382483	2/4	24	11	13	31	31	0	RP1L1,synonymous_variant,p.%3D,ENST00000382483,;RP1L1,non_coding_transcript_exon_variant,,ENST00000329335,;	A	ENSG00000183638	ENST00000382483	Transcript	synonymous_variant	500	276	92	A	gcC/gcT	rs372461532	.	.	-1	RP1L1	HGNC	15946	protein_coding	YES	CCDS43708.1	ENSP00000371923	.	A6NKC6_HUMAN	UPI00001AF9CC	.	.	.	2/4	.	PROSITE_profiles:PS50309,hmmpanther:PTHR23005:SF3,hmmpanther:PTHR23005,Gene3D:1mfwA00,Pfam_domain:PF03607,SMART_domains:SM00537,Superfamily_domains:SSF89837	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGGGCGCT	byFrequency|byCluster	5	BLCA
C8orf33	0	.	GRCh37	8	146279502	146279502	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649C>G	p.Leu217Val	p.L217V	ENST00000331434	5/5	174	155	19	141	141	0	C8orf33,missense_variant,p.Leu217Val,ENST00000331434,;C8orf33,non_coding_transcript_exon_variant,,ENST00000534350,;C8orf33,non_coding_transcript_exon_variant,,ENST00000530455,;C8orf33,non_coding_transcript_exon_variant,,ENST00000524395,;C8orf33,downstream_gene_variant,,ENST00000529593,;	G	ENSG00000182307	ENST00000331434	Transcript	missense_variant	763	649	217	L/V	Ctg/Gtg	.	.	.	1	C8orf33	HGNC	26104	protein_coding	YES	CCDS34974.1	ENSP00000330361	CH033_HUMAN	.	UPI0000070F82	.	tolerated(0.39)	benign(0.023)	5/5	.	hmmpanther:PTHR13602,hmmpanther:PTHR13602:SF1,Pfam_domain:PF15393	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACTCTGGAC	.	4	BLCA
ARHGEF10	0	.	GRCh37	8	1876682	1876682	+	Silent	SNP	A	A	G	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2787A>G	p.%3D	p.E929E	ENST00000349830	24/29	77	58	19	100	100	0	ARHGEF10,synonymous_variant,p.%3D,ENST00000522435,;ARHGEF10,synonymous_variant,p.%3D,ENST00000262112,;ARHGEF10,synonymous_variant,p.%3D,ENST00000398564,;ARHGEF10,synonymous_variant,p.%3D,ENST00000349830,;ARHGEF10,synonymous_variant,p.%3D,ENST00000520359,;ARHGEF10,synonymous_variant,p.%3D,ENST00000518288,;ARHGEF10,downstream_gene_variant,,ENST00000523711,;ARHGEF10,downstream_gene_variant,,ENST00000519641,;	G	ENSG00000104728	ENST00000349830	Transcript	synonymous_variant	2972	2787	929	E	gaA/gaG	.	.	.	1	ARHGEF10	HGNC	14103	protein_coding	YES	CCDS34794.1	ENSP00000340297	ARHGA_HUMAN	.	UPI00005054FE	.	.	.	24/29	.	hmmpanther:PTHR12877:SF14,hmmpanther:PTHR12877,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGAATCTCG	.	5	BLCA
DCTN6	0	.	GRCh37	8	30021636	30021636	+	Silent	SNP	T	T	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33T>A	p.%3D	p.I11I	ENST00000221114	2/7	16	8	8	30	30	0	DCTN6,synonymous_variant,p.%3D,ENST00000221114,;DCTN6,synonymous_variant,p.%3D,ENST00000520829,;LEPROTL1,missense_variant,p.Cys97Ser,ENST00000520739,;DCTN6,synonymous_variant,p.%3D,ENST00000519830,;DCTN6,synonymous_variant,p.%3D,ENST00000523666,;DCTN6,synonymous_variant,p.%3D,ENST00000522141,;DCTN6,non_coding_transcript_exon_variant,,ENST00000522540,;	A	ENSG00000104671	ENST00000221114	Transcript	synonymous_variant	120	33	11	I	atT/atA	.	.	.	1	DCTN6	HGNC	16964	protein_coding	YES	CCDS6076.1	ENSP00000221114	DCTN6_HUMAN	.	UPI0000138F9C	.	.	.	2/7	.	hmmpanther:PTHR13072,Gene3D:2.160.10.10,Pfam_domain:PF00132,Superfamily_domains:SSF51161	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	AAGATTGCTCC	.	4	BLCA
CHD7	0	.	GRCh37	8	61736594	61736594	+	Intron	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3378+19G>A	.	.	ENST00000423902	.	77	68	8	54	54	0	CHD7,missense_variant,p.Asp1133Asn,ENST00000525508,;CHD7,intron_variant,,ENST00000423902,;CHD7,intron_variant,,ENST00000524602,;	A	ENSG00000171316	ENST00000423902	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CHD7	HGNC	20626	protein_coding	YES	CCDS47865.1	ENSP00000392028	CHD7_HUMAN	H0YDC1_HUMAN,E9PP20_HUMAN	UPI0000251DA6	.	.	.	.	13/37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGTGATTGC	.	4	BLCA
COPS5	0	.	GRCh37	8	67974120	67974120	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>T	p.Glu38Ter	p.E38*	ENST00000357849	1/8	91	84	7	100	100	0	COPS5,stop_gained,p.Glu38Ter,ENST00000357849,;COPS5,intron_variant,,ENST00000517736,;COPS5,intron_variant,,ENST00000518747,;CSPP1,upstream_gene_variant,,ENST00000262210,;CSPP1,upstream_gene_variant,,ENST00000412460,;CSPP1,upstream_gene_variant,,ENST00000521919,;AC109335.1,downstream_gene_variant,,ENST00000578628,;COPS5,non_coding_transcript_exon_variant,,ENST00000519963,;COPS5,non_coding_transcript_exon_variant,,ENST00000519057,;COPS5,intron_variant,,ENST00000517793,;COPS5,downstream_gene_variant,,ENST00000518768,;COPS5,stop_gained,p.Glu38Ter,ENST00000523890,;COPS5,stop_gained,p.Glu38Ter,ENST00000517406,;COPS5,stop_gained,p.Glu38Ter,ENST00000518374,;COPS5,non_coding_transcript_exon_variant,,ENST00000521509,;CSPP1,upstream_gene_variant,,ENST00000519701,;CSPP1,upstream_gene_variant,,ENST00000519163,;COPS5,upstream_gene_variant,,ENST00000521386,;	A	ENSG00000121022	ENST00000357849	Transcript	stop_gained	433	112	38	E/*	Gaa/Taa	.	.	.	-1	COPS5	HGNC	2240	protein_coding	YES	CCDS6198.1	ENSP00000350512	CSN5_HUMAN	E5RHF2_HUMAN	UPI000006D7AB	.	.	.	1/8	.	hmmpanther:PTHR10410,hmmpanther:PTHR10410:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GATTTCTTGCT	.	3	BLCA
BRINP1	0	.	GRCh37	9	121929760	121929760	+	Nonsense_Mutation	SNP	G	G	A	rs764781191	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1888C>T	p.Arg630Ter	p.R630*	ENST00000265922	8/8	169	152	17	191	191	0	BRINP1,stop_gained,p.Arg630Ter,ENST00000265922,;BRINP1,intron_variant,,ENST00000482797,;	A	ENSG00000078725	ENST00000265922	Transcript	stop_gained	2350	1888	630	R/*	Cga/Tga	rs764781191	.	.	-1	BRINP1	HGNC	2687	protein_coding	YES	CCDS6822.1	ENSP00000265922	BRNP1_HUMAN	B4DE75_HUMAN	UPI000013D6A7	.	.	.	8/8	.	hmmpanther:PTHR15564:SF7,hmmpanther:PTHR15564,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R630Q|c.1889G>A|11	RADIA|MUTECT|MUSE|VARSCANS	ATTTCGCAGTA	.	4	BLCA
PHYHD1	0	.	GRCh37	9	131702707	131702707	+	Silent	SNP	G	G	A	rs371562024	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495G>A	p.%3D	p.A165A	ENST00000308941	9/12	86	81	5	92	92	0	PHYHD1,missense_variant,p.Val152Met,ENST00000421063,;PHYHD1,missense_variant,p.Val173Met,ENST00000426694,;PHYHD1,missense_variant,p.Val173Met,ENST00000372592,;PHYHD1,missense_variant,p.Val152Met,ENST00000353176,;PHYHD1,synonymous_variant,p.%3D,ENST00000308941,;PHYHD1,synonymous_variant,p.%3D,ENST00000419872,;PHYHD1,synonymous_variant,p.%3D,ENST00000442837,;RP11-101E3.5,upstream_gene_variant,,ENST00000482796,;PHYHD1,non_coding_transcript_exon_variant,,ENST00000487504,;PHYHD1,3_prime_UTR_variant,,ENST00000424503,;PHYHD1,3_prime_UTR_variant,,ENST00000412476,;PHYHD1,downstream_gene_variant,,ENST00000451000,;	A	ENSG00000175287	ENST00000308941	Transcript	synonymous_variant	915	495	165	A	gcG/gcA	rs371562024	.	.	1	PHYHD1	HGNC	23396	protein_coding	YES	CCDS6914.1	ENSP00000309515	PHYD1_HUMAN	.	UPI0000140899	.	.	.	9/12	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGGCGTGTGG	byFrequency|byCluster	2	BLCA
LCN9	0	.	GRCh37	9	138556057	138556057	+	Missense_Mutation	SNP	G	G	A	rs567397362	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146G>A	p.Arg49Gln	p.R49Q	ENST00000277526	2/7	46	25	20	43	43	0	LCN9,missense_variant,p.Arg49Gln,ENST00000277526,;LCN9,non_coding_transcript_exon_variant,,ENST00000430290,;LCN9,upstream_gene_variant,,ENST00000554343,;	A	ENSG00000148386	ENST00000277526	Transcript	missense_variant	146	146	49	R/Q	cGg/cAg	rs567397362	.	.	1	LCN9	HGNC	17442	protein_coding	YES	CCDS56593.1	ENSP00000277526	LCN9_HUMAN	.	UPI00003779EE	.	tolerated(0.06)	benign(0.221)	2/7	.	hmmpanther:PTHR11430:SF28,hmmpanther:PTHR11430,Pfam_domain:PF00061,Gene3D:2.40.128.20,Superfamily_domains:SSF50814,Prints_domain:PR01221	A:0.0010	A:0	A:0	.	A:0	A:0	A:0.0051	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATCGGATTA	byFrequency|by1000G	5	BLCA
ABCA2	0	.	GRCh37	9	139908391	139908391	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4340G>A	p.Arg1447His	p.R1447H	ENST00000341511	28/49	22	15	7	42	42	0	ABCA2,missense_variant,p.Arg1446His,ENST00000371605,;ABCA2,missense_variant,p.Arg1447His,ENST00000341511,;ABCA2,missense_variant,p.Arg1447His,ENST00000265662,;ABCA2,upstream_gene_variant,,ENST00000448336,;ABCA2,downstream_gene_variant,,ENST00000470535,;ABCA2,upstream_gene_variant,,ENST00000490486,;ABCA2,downstream_gene_variant,,ENST00000466707,;ABCA2,upstream_gene_variant,,ENST00000463603,;ABCA2,downstream_gene_variant,,ENST00000492260,;ABCA2,upstream_gene_variant,,ENST00000437791,;ABCA2,missense_variant,p.Arg797His,ENST00000479446,;ABCA2,missense_variant,p.Arg1476His,ENST00000459850,;ABCA2,missense_variant,p.Arg794His,ENST00000488535,;ABCA2,3_prime_UTR_variant,,ENST00000487109,;ABCA2,upstream_gene_variant,,ENST00000464520,;ABCA2,upstream_gene_variant,,ENST00000431584,;	T	ENSG00000107331	ENST00000341511	Transcript	missense_variant	4390	4340	1447	R/H	cGc/cAc	.	.	.	-1	ABCA2	HGNC	32	protein_coding	YES	CCDS43909.1	ENSP00000344155	ABCA2_HUMAN	Q9UPU0_HUMAN,B4DI99_HUMAN	UPI00015E02DC	.	deleterious(0)	probably_damaging(1)	28/49	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF116	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A1451P|c.4351G>C|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAAGCGTTTG	.	5	BLCA
PIGO	0	.	GRCh37	9	35092000	35092000	+	Silent	SNP	C	C	T	rs746618634	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1884G>A	p.%3D	p.L628L	ENST00000378617	7/11	41	25	15	50	50	0	PIGO,synonymous_variant,p.%3D,ENST00000341666,;PIGO,synonymous_variant,p.%3D,ENST00000378617,;PIGO,intron_variant,,ENST00000361778,;PIGO,intron_variant,,ENST00000298004,;RP11-182N22.8,upstream_gene_variant,,ENST00000431804,;PIGO,downstream_gene_variant,,ENST00000492770,;PIGO,upstream_gene_variant,,ENST00000491687,;PIGO,downstream_gene_variant,,ENST00000472208,;PIGO,non_coding_transcript_exon_variant,,ENST00000465745,;PIGO,non_coding_transcript_exon_variant,,ENST00000474436,;	T	ENSG00000165282	ENST00000378617	Transcript	synonymous_variant	2279	1884	628	L	ttG/ttA	rs746618634	.	.	-1	PIGO	HGNC	23215	protein_coding	YES	CCDS6575.1	ENSP00000367880	PIGO_HUMAN	.	UPI0000048EF6	.	.	.	7/11	.	hmmpanther:PTHR23071	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAAGCAACCC	.	5	BLCA
GDA	0	.	GRCh37	9	74863296	74863296	+	Intron	SNP	G	G	A	rs778734479	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1361+42G>A	.	.	ENST00000238018	.	20	9	11	19	19	0	GDA,3_prime_UTR_variant,,ENST00000358399,;GDA,3_prime_UTR_variant,,ENST00000545168,;GDA,intron_variant,,ENST00000238018,;GDA,intron_variant,,ENST00000376986,;GDA,intron_variant,,ENST00000436438,;GDA,intron_variant,,ENST00000376989,;GDA,3_prime_UTR_variant,,ENST00000475764,;GDA,3_prime_UTR_variant,,ENST00000489618,;	A	ENSG00000119125	ENST00000238018	Transcript	intron_variant	.	.	.	.	.	rs778734479	.	.	1	GDA	HGNC	4212	protein_coding	YES	CCDS56576.1	ENSP00000238018	GUAD_HUMAN	Q5SZC3_HUMAN,B4DIP8_HUMAN,B3KUM3_HUMAN	UPI000015828B	.	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAGCGTGGTT	byFrequency	2	BLCA
ROR2	0	.	GRCh37	9	94495419	94495419	+	Missense_Mutation	SNP	C	C	T	rs761854477	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.922G>A	p.Glu308Lys	p.E308K	ENST00000375708	6/9	11	8	3	13	13	0	ROR2,missense_variant,p.Glu168Lys,ENST00000375715,;ROR2,missense_variant,p.Glu308Lys,ENST00000375708,;ROR2,non_coding_transcript_exon_variant,,ENST00000550066,;	T	ENSG00000169071	ENST00000375708	Transcript	missense_variant	1121	922	308	E/K	Gag/Aag	rs761854477	.	.	-1	ROR2	HGNC	10257	protein_coding	YES	CCDS6691.1	ENSP00000364860	ROR2_HUMAN	.	UPI000013E8CA	.	tolerated(0.26)	benign(0.02)	6/9	.	Superfamily_domains:SSF57440,PIRSF_domain:PIRSF000624,Gene3D:2.40.20.10,hmmpanther:PTHR24416:SF132,hmmpanther:PTHR24416	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTCGGCTG	byFrequency	2	BLCA
ARL13A	0	.	GRCh37	X	100240712	100240712	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187G>C	p.Asp63His	p.D63H	ENST00000450049	4/8	17	13	4	17	17	0	ARL13A,missense_variant,p.Asp63His,ENST00000450049,;ARL13A,upstream_gene_variant,,ENST00000372953,;ARL13A,missense_variant,p.Asp63His,ENST00000450457,;ARL13A,upstream_gene_variant,,ENST00000494863,;	C	ENSG00000174225	ENST00000450049	Transcript	missense_variant	300	187	63	D/H	Gat/Cat	.	.	.	1	ARL13A	HGNC	31709	protein_coding	YES	CCDS55463.1	ENSP00000398637	AR13A_HUMAN	.	UPI0001747A4A	.	deleterious(0.03)	benign(0.429)	4/8	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51417,hmmpanther:PTHR11711,hmmpanther:PTHR11711:SF111,Gene3D:3.40.50.300,Pfam_domain:PF00025,SMART_domains:SM00177,SMART_domains:SM00178,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTTAGATGAG	.	2	BLCA
ARL13A	0	.	GRCh37	X	100240721	100240721	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>A	p.Glu66Lys	p.E66K	ENST00000450049	4/8	17	13	4	18	18	0	ARL13A,missense_variant,p.Glu66Lys,ENST00000450049,;ARL13A,upstream_gene_variant,,ENST00000372953,;ARL13A,missense_variant,p.Glu66Lys,ENST00000450457,;ARL13A,upstream_gene_variant,,ENST00000494863,;	A	ENSG00000174225	ENST00000450049	Transcript	missense_variant	309	196	66	E/K	Gaa/Aaa	.	.	.	1	ARL13A	HGNC	31709	protein_coding	YES	CCDS55463.1	ENSP00000398637	AR13A_HUMAN	.	UPI0001747A4A	.	deleterious(0.03)	benign(0.104)	4/8	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51417,hmmpanther:PTHR11711,hmmpanther:PTHR11711:SF111,Gene3D:3.40.50.300,Pfam_domain:PF00025,SMART_domains:SM00177,SMART_domains:SM00178,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTATGAACTT	.	2	BLCA
TMSB4X	0	.	GRCh37	X	12994980	12994980	+	3'UTR	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*50C>T	.	.	ENST00000380636	2/2	25	22	3	45	45	0	TMSB4X,3_prime_UTR_variant,,ENST00000380636,;TMSB4X,3_prime_UTR_variant,,ENST00000380633,;TMSB4X,3_prime_UTR_variant,,ENST00000451311,;TMSB4X,3_prime_UTR_variant,,ENST00000380635,;	T	ENSG00000205542	ENST00000380636	Transcript	3_prime_UTR_variant	1337	.	.	.	.	.	.	.	1	TMSB4X	HGNC	11881	protein_coding	YES	CCDS35202.1	ENSP00000370010	TYB4_HUMAN	A2VCK8_HUMAN,Q0P5U7_HUMAN,Q0P5T0_HUMAN,Q0P5Q0_HUMAN,Q0P5P4_HUMAN,Q0P5N8_HUMAN	UPI0000000CD7	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTTCTTATT	.	2	BLCA
MBTPS2	0	.	GRCh37	X	21863334	21863335	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276dupT	p.Leu93SerfsTer16	p.L93Sfs*16	ENST00000379484	3/11	54	37	17	61	61	0	MBTPS2,frameshift_variant,p.Leu93SerfsTer16,ENST00000365779,;MBTPS2,frameshift_variant,p.Leu93SerfsTer16,ENST00000379484,;MBTPS2,non_coding_transcript_exon_variant,,ENST00000465888,;	T	ENSG00000012174	ENST00000379484	Transcript	frameshift_variant	369-370	270-271	90-91	-/X	-/T	.	.	.	1	MBTPS2	HGNC	15455	protein_coding	YES	CCDS14201.1	ENSP00000368798	MBTP2_HUMAN	.	UPI000012F5A0	.	.	.	3/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13325:SF2,hmmpanther:PTHR13325	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	PINDEL|SOMATICSNIPER*|VARSCANI*|INDELOCATOR*|MUSE*|MUTECT*|VARSCANS*	AGCTCATTTTT	.	7	BLCA
DCAF8L2	0	.	GRCh37	X	27766599	27766599	+	Silent	SNP	G	G	A	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1587G>A	p.%3D	p.A529A	ENST00000451261	5/5	11	8	3	9	9	0	DCAF8L2,synonymous_variant,p.%3D,ENST00000451261,;DCAF8L2,downstream_gene_variant,,ENST00000431122,;DCAF8L2,downstream_gene_variant,,ENST00000583068,;AC107613.1,non_coding_transcript_exon_variant,,ENST00000545306,;	A	ENSG00000189186	ENST00000451261	Transcript	synonymous_variant	1986	1587	529	A	gcG/gcA	.	.	.	1	DCAF8L2	HGNC	31811	protein_coding	YES	CCDS59162.1	ENSP00000462745	DC8L2_HUMAN	J3QRI4_HUMAN	UPI000183CBD9	.	.	.	5/5	.	PROSITE_profiles:PS50294,hmmpanther:PTHR15574,hmmpanther:PTHR15574:SF36,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGGCGTGCAG	.	3	BLCA
CACNA1F	0	.	GRCh37	X	49086926	49086926	+	Intron	SNP	C	C	T	novel	.	TCGA-K4-A4AC-01A-21D-A26M-08	TCGA-K4-A4AC-10A-01D-A26K-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664+3G>A	.	.	ENST00000376265	.	17	13	4	12	12	0	CACNA1F,splice_region_variant,,ENST00000376251,;CACNA1F,splice_region_variant,,ENST00000376265,;CACNA1F,splice_region_variant,,ENST00000323022,;HSPB1P2,downstream_gene_variant,,ENST00000448722,;	T	ENSG00000102001	ENST00000376265	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	CACNA1F	HGNC	1393	protein_coding	YES	CCDS35253.1	ENSP00000365441	CAC1F_HUMAN	.	UPI0000072854	.	.	.	.	5/47	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CCACTCACTCG	.	2	BLCA
MCM10	0	.	GRCh37	10	13222580	13222580	+	Silent	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906G>A	p.%3D	p.K302K	ENST00000484800	7/20	214	61	152	268	268	0	MCM10,synonymous_variant,p.%3D,ENST00000484800,;MCM10,synonymous_variant,p.%3D,ENST00000378714,;MCM10,synonymous_variant,p.%3D,ENST00000378694,;	A	ENSG00000065328	ENST00000484800	Transcript	synonymous_variant	1009	906	302	K	aaG/aaA	.	.	.	1	MCM10	HGNC	18043	protein_coding	YES	CCDS7096.1	ENSP00000418268	MCM10_HUMAN	C9J600_HUMAN	UPI000013C5E2	.	.	.	7/20	.	hmmpanther:PTHR13454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGAAGGT	.	5	BLCA
FRG2B	0	.	GRCh37	10	135440206	135440206	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.41C>A	p.Ser14Tyr	p.S14Y	ENST00000425520	1/4	397	372	25	418	417	1	FRG2B,missense_variant,p.Ser14Tyr,ENST00000425520,;FRG2B,missense_variant,p.Ser14Tyr,ENST00000443774,;	T	ENSG00000225899	ENST00000425520	Transcript	missense_variant	94	41	14	S/Y	tCc/tAc	.	.	.	-1	FRG2B	HGNC	33518	protein_coding	YES	CCDS44502.1	ENSP00000401310	FRG2B_HUMAN	.	UPI00000727C6	.	deleterious(0.04)	benign(0.027)	1/4	.	Prints_domain:PR02074,hmmpanther:PTHR31883:SF2,hmmpanther:PTHR31883	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGATGGAGGAG	.	2	BLCA
FAM171A1	0	.	GRCh37	10	15255345	15255345	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2242G>A	p.Glu748Lys	p.E748K	ENST00000378116	8/8	76	27	49	114	113	1	FAM171A1,missense_variant,p.Glu748Lys,ENST00000378116,;FAM171A1,downstream_gene_variant,,ENST00000477161,;	T	ENSG00000148468	ENST00000378116	Transcript	missense_variant	2249	2242	748	E/K	Gaa/Aaa	COSM427327,COSM427328	.	.	-1	FAM171A1	HGNC	23522	protein_coding	YES	CCDS31154.1	ENSP00000367356	F1711_HUMAN	.	UPI00001414CA	.	deleterious(0)	probably_damaging(0.999)	8/8	.	hmmpanther:PTHR31626,Pfam_domain:PF10577,hmmpanther:PTHR31626:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCATTCA	.	5	BLCA
CUBN	0	.	GRCh37	10	16970190	16970190	+	Silent	SNP	T	T	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6237A>T	p.%3D	p.V2079V	ENST00000377833	41/67	84	16	67	121	121	0	CUBN,synonymous_variant,p.%3D,ENST00000377833,;	A	ENSG00000107611	ENST00000377833	Transcript	synonymous_variant	6303	6237	2079	V	gtA/gtT	.	.	.	-1	CUBN	HGNC	2548	protein_coding	YES	CCDS7113.1	ENSP00000367064	CUBN_HUMAN	B3KQA6_HUMAN	UPI00001AE8F4	.	.	.	41/67	.	PROSITE_profiles:PS01180,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTTACACT	.	5	BLCA
GRID1	0	.	GRCh37	10	87379623	87379623	+	Splice_Site	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2360+1G>T	.	p.X787_splice	ENST00000327946	.	29	11	17	43	43	0	GRID1,splice_donor_variant,,ENST00000536331,;GRID1,splice_donor_variant,,ENST00000327946,;GRID1,intron_variant,,ENST00000464741,;	A	ENSG00000182771	ENST00000327946	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	GRID1	HGNC	4575	protein_coding	YES	CCDS31236.1	ENSP00000330148	GRID1_HUMAN	B7Z7L0_HUMAN	UPI00001D8051	.	.	.	.	14/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCCTACCTCTG	.	4	BLCA
DSCAML1	0	.	GRCh37	11	117298988	117298988	+	3'UTR	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*56C>A	.	.	ENST00000321322	33/33	56	9	47	61	61	0	DSCAML1,3_prime_UTR_variant,,ENST00000527706,;DSCAML1,3_prime_UTR_variant,,ENST00000321322,;	T	ENSG00000177103	ENST00000321322	Transcript	3_prime_UTR_variant	6400	.	.	.	.	.	.	.	-1	DSCAML1	HGNC	14656	protein_coding	YES	CCDS8384.1	ENSP00000315465	DSCL1_HUMAN	.	UPI00000726E2	.	.	.	33/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGCTGGCGTG	.	3	BLCA
NELL1	0	.	GRCh37	11	20699584	20699584	+	Silent	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162C>T	p.%3D	p.A54A	ENST00000357134	2/20	188	98	90	140	140	0	NELL1,synonymous_variant,p.%3D,ENST00000325319,;NELL1,synonymous_variant,p.%3D,ENST00000357134,;NELL1,synonymous_variant,p.%3D,ENST00000298925,;NELL1,synonymous_variant,p.%3D,ENST00000532434,;	T	ENSG00000165973	ENST00000357134	Transcript	synonymous_variant	314	162	54	A	gcC/gcT	.	.	.	1	NELL1	HGNC	7750	protein_coding	YES	CCDS7855.1	ENSP00000349654	NELL1_HUMAN	K9UUD5_HUMAN	UPI000013E53D	.	.	.	2/20	.	hmmpanther:PTHR24042,hmmpanther:PTHR24042:SF2,SMART_domains:SM00210,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGCCAGCAA	.	5	BLCA
SVIP	0	.	GRCh37	11	22848837	22848837	+	Silent	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135A>G	p.%3D	p.Q45Q	ENST00000354193	3/4	244	154	90	171	171	0	SVIP,synonymous_variant,p.%3D,ENST00000354193,;RP11-17A1.3,upstream_gene_variant,,ENST00000525963,;RP11-17A1.3,upstream_gene_variant,,ENST00000528701,;RP11-17A1.3,upstream_gene_variant,,ENST00000499625,;SVIP,non_coding_transcript_exon_variant,,ENST00000530199,;SVIP,non_coding_transcript_exon_variant,,ENST00000533774,;SVIP,non_coding_transcript_exon_variant,,ENST00000525670,;SVIP,non_coding_transcript_exon_variant,,ENST00000529848,;	C	ENSG00000198168	ENST00000354193	Transcript	synonymous_variant	252	135	45	Q	caA/caG	.	.	.	-1	SVIP	HGNC	25238	protein_coding	YES	CCDS41627.1	ENSP00000346130	SVIP_HUMAN	.	UPI000006DD71	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGATTGAAC	.	5	BLCA
KIAA1549L	0	.	GRCh37	11	33612854	33612854	+	Silent	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3747G>C	p.%3D	p.V1249V	ENST00000321505	11/20	60	33	27	47	47	0	KIAA1549L,synonymous_variant,p.%3D,ENST00000321505,;KIAA1549L,synonymous_variant,p.%3D,ENST00000526400,;KIAA1549L,synonymous_variant,p.%3D,ENST00000389726,;KIAA1549L,intron_variant,,ENST00000265654,;	C	ENSG00000110427	ENST00000321505	Transcript	synonymous_variant	3927	3747	1249	V	gtG/gtC	.	.	.	1	KIAA1549L	HGNC	24836	protein_coding	YES	CCDS44565.2	ENSP00000315295	K154L_HUMAN	.	UPI0000E59322	.	.	.	11/20	.	Pfam_domain:PF12877,hmmpanther:PTHR21590,hmmpanther:PTHR21590:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGTGACTCA	.	5	BLCA
DGKZ	0	.	GRCh37	11	46397158	46397158	+	Silent	SNP	G	G	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2451G>A	p.%3D	p.R817R	ENST00000454345	21/32	16	11	5	12	12	0	DGKZ,synonymous_variant,p.%3D,ENST00000421244,;DGKZ,synonymous_variant,p.%3D,ENST00000524869,;DGKZ,synonymous_variant,p.%3D,ENST00000527911,;DGKZ,synonymous_variant,p.%3D,ENST00000456247,;DGKZ,synonymous_variant,p.%3D,ENST00000343674,;DGKZ,synonymous_variant,p.%3D,ENST00000454345,;DGKZ,synonymous_variant,p.%3D,ENST00000318201,;DGKZ,synonymous_variant,p.%3D,ENST00000395574,;DGKZ,synonymous_variant,p.%3D,ENST00000528615,;DGKZ,synonymous_variant,p.%3D,ENST00000532868,;DGKZ,intron_variant,,ENST00000543978,;DGKZ,downstream_gene_variant,,ENST00000524448,;MIR4688,upstream_gene_variant,,ENST00000577966,;DGKZ,upstream_gene_variant,,ENST00000529660,;DGKZ,3_prime_UTR_variant,,ENST00000524984,;DGKZ,non_coding_transcript_exon_variant,,ENST00000531879,;DGKZ,non_coding_transcript_exon_variant,,ENST00000529698,;DGKZ,non_coding_transcript_exon_variant,,ENST00000528173,;DGKZ,downstream_gene_variant,,ENST00000527903,;DGKZ,upstream_gene_variant,,ENST00000532941,;DGKZ,upstream_gene_variant,,ENST00000534802,;DGKZ,downstream_gene_variant,,ENST00000533376,;DGKZ,upstream_gene_variant,,ENST00000527211,;	A	ENSG00000149091	ENST00000454345	Transcript	synonymous_variant	2576	2451	817	R	cgG/cgA	COSM1746247,COSM1746249,COSM1746248,COSM1746246	.	.	1	DGKZ	HGNC	2857	protein_coding	YES	CCDS41640.1	ENSP00000412178	DGKZ_HUMAN	Q7Z5X8_HUMAN,E9PNL8_HUMAN	UPI000013DB71	.	.	.	21/32	.	hmmpanther:PTHR11255:SF43,hmmpanther:PTHR11255	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCGGAGCGC	.	5	BLCA
OR5L2	0	.	GRCh37	11	55595595	55595595	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901C>A	p.Leu301Ile	p.L301I	ENST00000378397	1/1	60	41	19	48	48	0	OR5L2,missense_variant,p.Leu301Ile,ENST00000378397,;	A	ENSG00000205030	ENST00000378397	Transcript	missense_variant	901	901	301	L/I	Ctc/Atc	.	.	.	1	OR5L2	HGNC	8351	protein_coding	YES	CCDS31511.1	ENSP00000367650	OR5L2_HUMAN	.	UPI0000041C49	.	tolerated(0.09)	benign(0.334)	1/1	.	hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF154,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTCAGA	.	5	BLCA
OR52N5	0	.	GRCh37	11	5798938	5798938	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927A>G	p.Ile309Met	p.I309M	ENST00000317093	1/1	65	13	52	86	86	0	OR52N5,missense_variant,p.Ile309Met,ENST00000317093,;TRIM5,intron_variant,,ENST00000412903,;TRIM5,intron_variant,,ENST00000380027,;	C	ENSG00000181009	ENST00000317093	Transcript	missense_variant	960	927	309	I/M	atA/atG	.	.	.	-1	OR52N5	HGNC	15231	protein_coding	YES	CCDS31397.1	ENSP00000322866	O52N5_HUMAN	.	UPI0000041BF9	.	deleterious(0)	probably_damaging(0.91)	1/1	.	hmmpanther:PTHR26450:SF18,hmmpanther:PTHR26450,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCGTATCTG	.	5	BLCA
GLYATL2	0	.	GRCh37	11	58605776	58605776	+	Silent	SNP	G	G	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.144C>T	p.%3D	p.A48A	ENST00000287275	3/6	79	55	23	77	77	0	GLYATL2,synonymous_variant,p.%3D,ENST00000532258,;GLYATL2,synonymous_variant,p.%3D,ENST00000287275,;GLYATL2,non_coding_transcript_exon_variant,,ENST00000533636,;	A	ENSG00000156689	ENST00000287275	Transcript	synonymous_variant	535	144	48	A	gcC/gcT	COSM3450077	.	.	-1	GLYATL2	HGNC	24178	protein_coding	YES	CCDS41649.1	ENSP00000287275	GLYL2_HUMAN	.	UPI000003FFB7	.	.	.	3/6	.	hmmpanther:PTHR15298:SF4,hmmpanther:PTHR15298,Pfam_domain:PF06021,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCAGGCATC	.	5	BLCA
MPEG1	0	.	GRCh37	11	58978162	58978162	+	3'UTR	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*26C>T	.	.	ENST00000361050	1/1	77	47	30	77	77	0	MPEG1,3_prime_UTR_variant,,ENST00000361050,;DTX4,downstream_gene_variant,,ENST00000227451,;RN7SL42P,downstream_gene_variant,,ENST00000579786,;	A	ENSG00000197629	ENST00000361050	Transcript	3_prime_UTR_variant	2263	.	.	.	.	.	.	.	-1	MPEG1	HGNC	29619	protein_coding	YES	CCDS41650.1	ENSP00000354335	MPEG1_HUMAN	.	UPI0000049D9F	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGATGAGAGA	.	5	BLCA
PHRF1	0	.	GRCh37	11	609574	609574	+	Missense_Mutation	SNP	C	C	T	rs746910335	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4115C>T	p.Ser1372Phe	p.S1372F	ENST00000416188	14/18	14	2	11	16	16	0	PHRF1,missense_variant,p.Ser1373Phe,ENST00000264555,;PHRF1,missense_variant,p.Ser1371Phe,ENST00000413872,;PHRF1,missense_variant,p.Ser1369Phe,ENST00000533464,;PHRF1,missense_variant,p.Ser1372Phe,ENST00000416188,;IRF7,downstream_gene_variant,,ENST00000330243,;IRF7,downstream_gene_variant,,ENST00000397566,;IRF7,downstream_gene_variant,,ENST00000348655,;IRF7,downstream_gene_variant,,ENST00000525445,;IRF7,downstream_gene_variant,,ENST00000397570,;IRF7,downstream_gene_variant,,ENST00000397562,;IRF7,downstream_gene_variant,,ENST00000397574,;PHRF1,missense_variant,p.Ser1373Phe,ENST00000534320,;IRF7,downstream_gene_variant,,ENST00000527160,;IRF7,downstream_gene_variant,,ENST00000532326,;IRF7,downstream_gene_variant,,ENST00000531912,;IRF7,downstream_gene_variant,,ENST00000528413,;IRF7,downstream_gene_variant,,ENST00000532096,;IRF7,downstream_gene_variant,,ENST00000532788,;IRF7,downstream_gene_variant,,ENST00000469048,;IRF7,downstream_gene_variant,,ENST00000533182,;PHRF1,downstream_gene_variant,,ENST00000532550,;IRF7,downstream_gene_variant,,ENST00000525750,;	T	ENSG00000070047	ENST00000416188	Transcript	missense_variant	4208	4115	1372	S/F	tCt/tTt	rs746910335	.	.	1	PHRF1	HGNC	24351	protein_coding	YES	CCDS44507.1	ENSP00000410626	PHRF1_HUMAN	.	UPI000189A834	.	tolerated(0.61)	benign(0.129)	14/18	.	hmmpanther:PTHR15242:SF1,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	CCCCTCTGCGA	byFrequency	4	BLCA
NXF1	0	.	GRCh37	11	62572858	62572858	+	5'UTR	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-30C>T	.	.	ENST00000532297	2/22	63	45	17	37	37	0	NXF1,5_prime_UTR_variant,,ENST00000532297,;NXF1,5_prime_UTR_variant,,ENST00000530875,;NXF1,5_prime_UTR_variant,,ENST00000294172,;NXF1,5_prime_UTR_variant,,ENST00000439713,;NXF1,5_prime_UTR_variant,,ENST00000531131,;NXF1,5_prime_UTR_variant,,ENST00000531709,;NXF1,upstream_gene_variant,,ENST00000531474,;NXF1,upstream_gene_variant,,ENST00000533671,;STX5,downstream_gene_variant,,ENST00000394690,;STX5,downstream_gene_variant,,ENST00000541317,;STX5,downstream_gene_variant,,ENST00000294179,;STX5,downstream_gene_variant,,ENST00000377897,;RP11-727F15.13,downstream_gene_variant,,ENST00000596971,;NXF1,non_coding_transcript_exon_variant,,ENST00000531579,;NXF1,non_coding_transcript_exon_variant,,ENST00000526163,;NXF1,5_prime_UTR_variant,,ENST00000525576,;NXF1,non_coding_transcript_exon_variant,,ENST00000527064,;STX5,downstream_gene_variant,,ENST00000492066,;STX5,downstream_gene_variant,,ENST00000491231,;	A	ENSG00000162231	ENST00000532297	Transcript	5_prime_UTR_variant	601	.	.	.	.	.	.	.	-1	NXF1	HGNC	8071	protein_coding	YES	CCDS8037.1	ENSP00000436679	NXF1_HUMAN	Q68CW9_HUMAN,E9PMV7_HUMAN,E9PLA7_HUMAN	UPI00000012B9	.	.	.	2/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAGGCGCTG	.	5	BLCA
SART3	0	.	GRCh37	12	108930519	108930519	+	Missense_Mutation	SNP	C	C	A	rs779672510	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1352G>T	p.Arg451Leu	p.R451L	ENST00000228284	10/19	45	30	15	44	44	0	SART3,missense_variant,p.Arg451Leu,ENST00000228284,;SART3,missense_variant,p.Arg415Leu,ENST00000431469,;SART3,missense_variant,p.Arg469Leu,ENST00000546815,;SART3,3_prime_UTR_variant,,ENST00000547528,;SART3,3_prime_UTR_variant,,ENST00000546728,;SART3,non_coding_transcript_exon_variant,,ENST00000548077,;SART3,upstream_gene_variant,,ENST00000546808,;SART3,downstream_gene_variant,,ENST00000548119,;SART3,upstream_gene_variant,,ENST00000547196,;SART3,upstream_gene_variant,,ENST00000548582,;	A	ENSG00000075856	ENST00000228284	Transcript	missense_variant	1587	1352	451	R/L	cGt/cTt	rs779672510	.	.	-1	SART3	HGNC	16860	protein_coding	YES	CCDS9117.1	ENSP00000228284	SART3_HUMAN	H0YHU8_HUMAN,F8VZM2_HUMAN,F8VVK9_HUMAN	UPI000006D72B	.	deleterious(0)	possibly_damaging(0.858)	10/19	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF48452,hmmpanther:PTHR23269,hmmpanther:PTHR23269:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCACGAGTA	.	5	BLCA
HECTD4	0	.	GRCh37	12	112677704	112677704	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4648T>A	p.Cys1550Ser	p.C1550S	ENST00000550722	33/76	86	58	28	94	94	0	HECTD4,missense_variant,p.Cys1274Ser,ENST00000430131,;HECTD4,missense_variant,p.Cys1550Ser,ENST00000550722,;HECTD4,missense_variant,p.Cys1524Ser,ENST00000377560,;	T	ENSG00000173064	ENST00000550722	Transcript	missense_variant	5044	4648	1550	C/S	Tgt/Agt	.	.	.	-1	HECTD4	HGNC	26611	protein_coding	YES	.	ENSP00000449784	.	F8VWT9_HUMAN,F8VU57_HUMAN	UPI00020CE513	.	.	possibly_damaging(0.568)	33/76	.	hmmpanther:PTHR11254:SF286,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTACATAAGA	.	5	BLCA
HECTD4	0	.	GRCh37	12	112696960	112696960	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2545G>T	p.Ala849Ser	p.A849S	ENST00000550722	19/76	145	101	44	167	167	0	HECTD4,missense_variant,p.Ala563Ser,ENST00000430131,;HECTD4,missense_variant,p.Ala849Ser,ENST00000550722,;HECTD4,missense_variant,p.Ala813Ser,ENST00000377560,;RP3-521E19.2,downstream_gene_variant,,ENST00000547401,;HECTD4,non_coding_transcript_exon_variant,,ENST00000547352,;HECTD4,non_coding_transcript_exon_variant,,ENST00000311694,;	A	ENSG00000173064	ENST00000550722	Transcript	missense_variant	2941	2545	849	A/S	Gcc/Tcc	.	.	.	-1	HECTD4	HGNC	26611	protein_coding	YES	.	ENSP00000449784	.	F8VWT9_HUMAN,F8VU57_HUMAN	UPI00020CE513	.	.	probably_damaging(0.914)	19/76	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGGCATCCG	.	5	BLCA
NCOR2	0	.	GRCh37	12	124862827	124862827	+	Missense_Mutation	SNP	G	G	A	rs772228038	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2123C>T	p.Ser708Leu	p.S708L	ENST00000405201	18/47	127	81	45	114	114	0	NCOR2,missense_variant,p.Ser708Leu,ENST00000356219,;NCOR2,missense_variant,p.Ser708Leu,ENST00000458234,;NCOR2,missense_variant,p.Ser278Leu,ENST00000404121,;NCOR2,missense_variant,p.Ser707Leu,ENST00000429285,;NCOR2,missense_variant,p.Ser708Leu,ENST00000405201,;NCOR2,missense_variant,p.Ser707Leu,ENST00000404621,;NCOR2,missense_variant,p.Ser98Leu,ENST00000448614,;NCOR2,missense_variant,p.Ser708Leu,ENST00000397355,;	A	ENSG00000196498	ENST00000405201	Transcript	missense_variant	2124	2123	708	S/L	tCg/tTg	rs772228038	.	.	-1	NCOR2	HGNC	7673	protein_coding	YES	CCDS41858.2	ENSP00000384018	.	C9JFD3_HUMAN,C9J330_HUMAN	UPI000013D737	.	.	unknown(0)	18/47	.	hmmpanther:PTHR13992:SF21,hmmpanther:PTHR13992	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCCGACGCC	.	5	BLCA
TMEM132B	0	.	GRCh37	12	126128690	126128690	+	Silent	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1491G>A	p.%3D	p.V497V	ENST00000299308	6/9	57	37	20	67	67	0	TMEM132B,synonymous_variant,p.%3D,ENST00000535886,;TMEM132B,synonymous_variant,p.%3D,ENST00000299308,;	A	ENSG00000139364	ENST00000299308	Transcript	synonymous_variant	1499	1491	497	V	gtG/gtA	.	.	.	1	TMEM132B	HGNC	29397	protein_coding	YES	CCDS41859.1	ENSP00000299308	T132B_HUMAN	.	UPI00006BFF58	.	.	.	6/9	.	hmmpanther:PTHR13388,hmmpanther:PTHR13388:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTGTGAACTT	.	5	BLCA
GALNT8	0	.	GRCh37	12	4835995	4835995	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509G>T	p.Arg170Ile	p.R170I	ENST00000252318	2/11	84	46	38	79	79	0	GALNT8,missense_variant,p.Arg170Ile,ENST00000252318,;RP11-234B24.6,splice_region_variant,,ENST00000544741,;RP11-234B24.6,downstream_gene_variant,,ENST00000543979,;	T	ENSG00000130035	ENST00000252318	Transcript	missense_variant	846	509	170	R/I	aGa/aTa	.	.	.	1	GALNT8	HGNC	4130	protein_coding	YES	CCDS8533.1	ENSP00000252318	GALT8_HUMAN	Q68VJ3_HUMAN	UPI0000070DEC	.	deleterious(0.01)	possibly_damaging(0.643)	2/11	.	hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF13,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACAGGTGGG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49433394	49433394	+	Nonsense_Mutation	SNP	G	G	A	rs587783727	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8053C>T	p.Arg2685Ter	p.R2685*	ENST00000301067	32/54	41	34	6	23	23	0	KMT2D,stop_gained,p.Arg2685Ter,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	8053	8053	2685	R/*	Cga/Tga	rs587783727,COSM221056,COSM221057	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	32/54	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	pathogenic	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGTCGCTGGC	.	5	BLCA
KMT2D	0	.	GRCh37	12	49434307	49434307	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7246C>T	p.Gln2416Ter	p.Q2416*	ENST00000301067	31/54	79	35	44	57	57	0	KMT2D,stop_gained,p.Gln2416Ter,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	7246	7246	2416	Q/*	Cag/Tag	CM114115	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	31/54	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTGAGGAC	.	5	BLCA
TUBA1A	0	.	GRCh37	12	49582796	49582796	+	5'UTR	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-34C>T	.	.	ENST00000301071	1/4	184	64	119	135	135	0	TUBA1A,5_prime_UTR_variant,,ENST00000546918,;TUBA1A,5_prime_UTR_variant,,ENST00000301071,;TUBA1A,5_prime_UTR_variant,,ENST00000552924,;TUBA1A,5_prime_UTR_variant,,ENST00000547939,;TUBA1A,upstream_gene_variant,,ENST00000550767,;TUBA1A,upstream_gene_variant,,ENST00000295766,;TUBA1A,upstream_gene_variant,,ENST00000550811,;TUBA1C,non_coding_transcript_exon_variant,,ENST00000549554,;TUBA1A,upstream_gene_variant,,ENST00000550254,;TUBA1A,upstream_gene_variant,,ENST00000548363,;	A	ENSG00000167552	ENST00000301071	Transcript	5_prime_UTR_variant	312	.	.	.	.	.	.	.	-1	TUBA1A	HGNC	20766	protein_coding	YES	CCDS8781.1	ENSP00000301071	TBA1A_HUMAN	F8VXZ7_HUMAN,F8VX09_HUMAN,F8VWV9_HUMAN,F8VRZ4_HUMAN,F8VRK0_HUMAN,F8VQQ4_HUMAN	UPI0000000DB2	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TGGCGGAGACG	.	4	BLCA
GDF11	0	.	GRCh37	12	56142754	56142754	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.830G>C	p.Gly277Ala	p.G277A	ENST00000257868	2/3	31	17	14	30	30	0	GDF11,missense_variant,p.Gly250Ala,ENST00000546799,;GDF11,missense_variant,p.Gly277Ala,ENST00000257868,;SARNP,downstream_gene_variant,,ENST00000444631,;SARNP,downstream_gene_variant,,ENST00000552884,;SARNP,downstream_gene_variant,,ENST00000546604,;	C	ENSG00000135414	ENST00000257868	Transcript	missense_variant	867	830	277	G/A	gGa/gCa	.	.	.	1	GDF11	HGNC	4216	protein_coding	YES	CCDS8891.1	ENSP00000257868	GDF11_HUMAN	.	UPI000004C158	.	deleterious(0.01)	benign(0.16)	2/3	.	Pfam_domain:PF00688,hmmpanther:PTHR11848,hmmpanther:PTHR11848:SF140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGGGAGCCG	.	5	BLCA
USP15	0	.	GRCh37	12	62785206	62785206	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2230G>C	p.Asp744His	p.D744H	ENST00000280377	16/22	112	75	37	101	101	0	USP15,missense_variant,p.Asp715His,ENST00000353364,;USP15,missense_variant,p.Asp719His,ENST00000393654,;USP15,missense_variant,p.Asp744His,ENST00000280377,;USP15,upstream_gene_variant,,ENST00000549415,;USP15,upstream_gene_variant,,ENST00000552346,;USP15,upstream_gene_variant,,ENST00000548620,;USP15,downstream_gene_variant,,ENST00000549268,;	C	ENSG00000135655	ENST00000280377	Transcript	missense_variant	2288	2230	744	D/H	Gat/Cat	.	.	.	1	USP15	HGNC	12613	protein_coding	YES	CCDS58251.1	ENSP00000280377	UBP15_HUMAN	F8VZG8_HUMAN,F8VVY7_HUMAN	UPI00001379F8	.	deleterious(0.05)	benign(0.091)	16/22	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF387,hmmpanther:PTHR24006,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTAGATGGT	.	5	BLCA
LPCAT3	0	.	GRCh37	12	7091887	7091887	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316C>A	p.Leu106Ile	p.L106I	ENST00000261407	3/13	78	59	18	56	56	0	LPCAT3,missense_variant,p.Leu106Ile,ENST00000261407,;C1S,upstream_gene_variant,,ENST00000406697,;U47924.30,downstream_gene_variant,,ENST00000606112,;LPCAT3,non_coding_transcript_exon_variant,,ENST00000539868,;LPCAT3,non_coding_transcript_exon_variant,,ENST00000545459,;EMG1,intron_variant,,ENST00000564245,;LPCAT3,intron_variant,,ENST00000536971,;EMG1,intron_variant,,ENST00000539535,;LPCAT3,upstream_gene_variant,,ENST00000540060,;LPCAT3,upstream_gene_variant,,ENST00000535021,;LPCAT3,missense_variant,p.Leu106Ile,ENST00000535479,;LPCAT3,missense_variant,p.Leu106Ile,ENST00000536797,;LPCAT3,missense_variant,p.Leu106Ile,ENST00000543794,;LPCAT3,3_prime_UTR_variant,,ENST00000538910,;LPCAT3,intron_variant,,ENST00000540090,;LPCAT3,upstream_gene_variant,,ENST00000537179,;LPCAT3,upstream_gene_variant,,ENST00000538987,;	T	ENSG00000111684	ENST00000261407	Transcript	missense_variant	402	316	106	L/I	Cta/Ata	.	.	.	-1	LPCAT3	HGNC	30244	protein_coding	YES	CCDS8572.1	ENSP00000261407	MBOA5_HUMAN	F5H0M4_HUMAN	UPI0000034DFC	.	tolerated(0.34)	possibly_damaging(0.468)	3/13	.	hmmpanther:PTHR13906:SF9,hmmpanther:PTHR13906	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTAGTCGAA	.	5	BLCA
NAV3	0	.	GRCh37	12	78225326	78225326	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85C>G	p.Leu29Val	p.L29V	ENST00000536525	1/39	223	165	57	216	216	0	NAV3,missense_variant,p.Leu29Val,ENST00000536525,;NAV3,missense_variant,p.Leu29Val,ENST00000397909,;NAV3,missense_variant,p.Leu29Val,ENST00000266692,;NAV3,missense_variant,p.Leu29Val,ENST00000228327,;NAV3,missense_variant,p.Leu29Val,ENST00000549464,;	G	ENSG00000067798	ENST00000536525	Transcript	missense_variant	258	85	29	L/V	Ctt/Gtt	COSM943597	.	.	1	NAV3	HGNC	15998	protein_coding	YES	CCDS41815.1	ENSP00000446132	NAV3_HUMAN	F8VZV4_HUMAN	UPI00001FB1E8	.	tolerated_low_confidence(1)	benign(0.023)	1/39	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAATCTTGGC	.	5	BLCA
FOXJ2	0	.	GRCh37	12	8192482	8192482	+	Silent	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.%3D	p.L18L	ENST00000162391	2/11	173	114	59	164	164	0	FOXJ2,synonymous_variant,p.%3D,ENST00000428177,;FOXJ2,synonymous_variant,p.%3D,ENST00000162391,;	A	ENSG00000065970	ENST00000162391	Transcript	synonymous_variant	1199	54	18	L	ctG/ctA	.	.	.	1	FOXJ2	HGNC	24818	protein_coding	YES	CCDS8587.1	ENSP00000162391	FOXJ2_HUMAN	.	UPI000012ADE1	.	.	.	2/11	.	hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTGACCCT	.	5	BLCA
MTIF3	0	.	GRCh37	13	28010009	28010009	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.640C>T	p.Leu214Phe	p.L214F	ENST00000381116	7/7	72	13	59	121	121	0	MTIF3,missense_variant,p.Leu214Phe,ENST00000431572,;MTIF3,missense_variant,p.Leu214Phe,ENST00000381120,;MTIF3,missense_variant,p.Leu214Phe,ENST00000405591,;MTIF3,missense_variant,p.Leu214Phe,ENST00000381116,;GTF3A,downstream_gene_variant,,ENST00000381140,;GTF3A,downstream_gene_variant,,ENST00000439403,;MTIF3,non_coding_transcript_exon_variant,,ENST00000461838,;MTIF3,downstream_gene_variant,,ENST00000484342,;MTIF3,downstream_gene_variant,,ENST00000485959,;MTIF3,downstream_gene_variant,,ENST00000483903,;GTF3A,downstream_gene_variant,,ENST00000470606,;MTIF3,downstream_gene_variant,,ENST00000493719,;MTIF3,downstream_gene_variant,,ENST00000471771,;MTIF3,downstream_gene_variant,,ENST00000485650,;MTIF3,downstream_gene_variant,,ENST00000464753,;GTF3A,downstream_gene_variant,,ENST00000466776,;MTIF3,downstream_gene_variant,,ENST00000460973,;GTF3A,downstream_gene_variant,,ENST00000493903,;GTF3A,downstream_gene_variant,,ENST00000435781,;GTF3A,downstream_gene_variant,,ENST00000419181,;GTF3A,downstream_gene_variant,,ENST00000438571,;GTF3A,downstream_gene_variant,,ENST00000482655,;AL137059.1,upstream_gene_variant,,ENST00000366409,;	A	ENSG00000122033	ENST00000381116	Transcript	missense_variant	875	640	214	L/F	Ctc/Ttc	.	.	.	-1	MTIF3	HGNC	29788	protein_coding	YES	CCDS9322.1	ENSP00000370508	IF3M_HUMAN	.	UPI000013CACF	.	deleterious(0.04)	probably_damaging(0.981)	7/7	.	Superfamily_domains:SSF55200,Gene3D:1tigA00,Pfam_domain:PF00707,hmmpanther:PTHR10938,hmmpanther:PTHR10938:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGAGTATTT	.	5	BLCA
RB1	0	.	GRCh37	13	48934194	48934194	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649C>T	p.Gln217Ter	p.Q217*	ENST00000267163	7/27	76	25	50	93	93	0	RB1,stop_gained,p.Gln217Ter,ENST00000267163,;RB1,3_prime_UTR_variant,,ENST00000467505,;RB1,non_coding_transcript_exon_variant,,ENST00000525036,;	T	ENSG00000139687	ENST00000267163	Transcript	stop_gained	787	649	217	Q/*	Cag/Tag	COSM13405,COSM1300224	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	7/27	.	hmmpanther:PTHR13742,Pfam_domain:PF11934	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q217*|c.649C>T|3,SITE|p.Q217*|c.649C>T|6	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTCAGTTA	.	5	BLCA
DYNC1H1	0	.	GRCh37	14	102511010	102511010	+	Silent	SNP	C	C	T	rs538662679	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12981C>T	p.%3D	p.A4327A	ENST00000360184	72/78	92	30	62	106	106	0	DYNC1H1,synonymous_variant,p.%3D,ENST00000360184,;RP11-1017G21.4,intron_variant,,ENST00000553701,;RP11-1017G21.4,intron_variant,,ENST00000557242,;RP11-1017G21.4,upstream_gene_variant,,ENST00000557551,;DYNC1H1,downstream_gene_variant,,ENST00000555102,;DYNC1H1,downstream_gene_variant,,ENST00000556499,;DYNC1H1,downstream_gene_variant,,ENST00000556139,;DYNC1H1,upstream_gene_variant,,ENST00000555062,;DYNC1H1,upstream_gene_variant,,ENST00000556229,;	T	ENSG00000197102	ENST00000360184	Transcript	synonymous_variant	13145	12981	4327	A	gcC/gcT	rs538662679	.	.	1	DYNC1H1	HGNC	2961	protein_coding	YES	CCDS9966.1	ENSP00000348965	DYHC1_HUMAN	Q92862_HUMAN,B4DSR6_HUMAN	UPI00001B515A	.	.	.	72/78	.	hmmpanther:PTHR10676:SF28,hmmpanther:PTHR10676,Pfam_domain:PF03028	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACGCCGAGAG	byFrequency|by1000G	5	BLCA
POTEG	0	.	GRCh37	14	19553578	19553578	+	Missense_Mutation	SNP	G	G	A	rs752492256	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162G>A	p.Met54Ile	p.M54I	ENST00000409832	1/11	605	495	110	1078	1078	0	POTEG,missense_variant,p.Met54Ile,ENST00000409832,;POTEG,missense_variant,p.Met54Ile,ENST00000552966,;POTEG,missense_variant,p.Met54Ile,ENST00000547889,;	A	ENSG00000222036	ENST00000409832	Transcript	missense_variant	214	162	54	M/I	atG/atA	rs752492256,COSM697758	.	.	1	POTEG	HGNC	33896	protein_coding	YES	CCDS32018.1	ENSP00000386971	POTEG_HUMAN	.	UPI00004443FE	.	deleterious_low_confidence(0.03)	benign(0.019)	1/11	.	hmmpanther:PTHR24118:SF43,hmmpanther:PTHR24118	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D51N|c.151G>A|8	RADIA|MUTECT|MUSE|VARSCANS	GCTATGAAGAC	.	4	BLCA
POTEM	0	.	GRCh37	14	20020059	20020059	+	Missense_Mutation	SNP	C	C	T	rs765072868	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162G>A	p.Met54Ile	p.M54I	ENST00000551509	1/11	215	180	34	342	342	0	POTEM,missense_variant,p.Met54Ile,ENST00000551509,;POTEM,missense_variant,p.Met54Ile,ENST00000547848,;POTEM,missense_variant,p.Met54Ile,ENST00000547722,;	T	ENSG00000187537	ENST00000551509	Transcript	missense_variant	214	162	54	M/I	atG/atA	rs765072868,COSM3885751,COSM3885752	.	.	-1	POTEM	HGNC	37096	protein_coding	YES	CCDS45076.1	ENSP00000452296	POTEM_HUMAN	.	UPI00006C1407	.	deleterious_low_confidence(0.02)	benign(0.002)	1/11	.	hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF43	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTCATAGC	byFrequency	4	BLCA
AP1G2	0	.	GRCh37	14	24035814	24035814	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>A	p.Glu96Lys	p.E96K	ENST00000308724	2/21	256	69	187	298	298	0	AP1G2,missense_variant,p.Glu96Lys,ENST00000308724,;AP1G2,missense_variant,p.Glu96Lys,ENST00000556843,;AP1G2,missense_variant,p.Glu96Lys,ENST00000557189,;AP1G2,missense_variant,p.Glu96Lys,ENST00000397120,;JPH4,downstream_gene_variant,,ENST00000544177,;AP1G2,upstream_gene_variant,,ENST00000554477,;JPH4,downstream_gene_variant,,ENST00000397118,;JPH4,downstream_gene_variant,,ENST00000356300,;RP11-66N24.3,non_coding_transcript_exon_variant,,ENST00000555968,;AP1G2,non_coding_transcript_exon_variant,,ENST00000556277,;AP1G2,upstream_gene_variant,,ENST00000555118,;AP1G2,upstream_gene_variant,,ENST00000555510,;AP1G2,non_coding_transcript_exon_variant,,ENST00000554069,;AP1G2,non_coding_transcript_exon_variant,,ENST00000557482,;AP1G2,non_coding_transcript_exon_variant,,ENST00000553629,;AP1G2,intron_variant,,ENST00000556943,;AP1G2,intron_variant,,ENST00000556743,;AP1G2,intron_variant,,ENST00000535852,;AP1G2,intron_variant,,ENST00000460049,;AP1G2,intron_variant,,ENST00000553756,;AP1G2,intron_variant,,ENST00000557619,;AP1G2,intron_variant,,ENST00000555896,;AP1G2,intron_variant,,ENST00000465445,;AP1G2,upstream_gene_variant,,ENST00000556741,;AP1G2,upstream_gene_variant,,ENST00000555789,;AP1G2,upstream_gene_variant,,ENST00000554312,;AP1G2,downstream_gene_variant,,ENST00000553685,;AP1G2,downstream_gene_variant,,ENST00000554816,;AP1G2,upstream_gene_variant,,ENST00000557132,;AP1G2,upstream_gene_variant,,ENST00000557162,;AP1G2,upstream_gene_variant,,ENST00000555974,;AP1G2,upstream_gene_variant,,ENST00000554977,;AP1G2,upstream_gene_variant,,ENST00000554554,;AP1G2,upstream_gene_variant,,ENST00000556966,;AP1G2,upstream_gene_variant,,ENST00000554982,;AP1G2,upstream_gene_variant,,ENST00000556152,;	T	ENSG00000213983	ENST00000308724	Transcript	missense_variant	1042	286	96	E/K	Gag/Aag	.	.	.	-1	AP1G2	HGNC	556	protein_coding	YES	CCDS9602.1	ENSP00000312442	AP1G2_HUMAN	Q86U41_HUMAN,Q86U03_HUMAN,G3V532_HUMAN,G3V3Z2_HUMAN,G3V2V9_HUMAN	UPI0000124FE8	.	deleterious(0)	probably_damaging(0.999)	2/21	.	hmmpanther:PTHR22780:SF22,hmmpanther:PTHR22780,Pfam_domain:PF01602,Gene3D:1.25.10.10,PIRSF_domain:PIRSF037094,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCATCCA	.	5	BLCA
ENTPD5	0	.	GRCh37	14	74425019	74425019	+	3'Flank	SNP	T	T	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000334696	.	35	7	28	36	36	0	ENTPD5,3_prime_UTR_variant,,ENST00000557325,;COQ6,intron_variant,,ENST00000238709,;COQ6,intron_variant,,ENST00000334571,;COQ6,intron_variant,,ENST00000554920,;COQ6,intron_variant,,ENST00000554320,;COQ6,intron_variant,,ENST00000394026,;ENTPD5,downstream_gene_variant,,ENST00000334696,;ENTPD5,downstream_gene_variant,,ENST00000555829,;COQ6,downstream_gene_variant,,ENST00000555552,;COQ6,upstream_gene_variant,,ENST00000557780,;COQ6,non_coding_transcript_exon_variant,,ENST00000556300,;COQ6,non_coding_transcript_exon_variant,,ENST00000553462,;COQ6,non_coding_transcript_exon_variant,,ENST00000557205,;COQ6,intron_variant,,ENST00000557584,;COQ6,intron_variant,,ENST00000555511,;COQ6,intron_variant,,ENST00000554341,;COQ6,downstream_gene_variant,,ENST00000554153,;COQ6,downstream_gene_variant,,ENST00000555392,;COQ6,upstream_gene_variant,,ENST00000553448,;COQ6,downstream_gene_variant,,ENST00000554217,;COQ6,downstream_gene_variant,,ENST00000554193,;COQ6,downstream_gene_variant,,ENST00000553922,;COQ6,upstream_gene_variant,,ENST00000556299,;COQ6,upstream_gene_variant,,ENST00000556588,;COQ6,downstream_gene_variant,,ENST00000555196,;	A	ENSG00000187097	ENST00000334696	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	4377	-1	ENTPD5	HGNC	3367	protein_coding	YES	CCDS9825.1	ENSP00000335246	ENTP5_HUMAN	G3V450_HUMAN	UPI0000052B69	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTATATCTACA	.	5	BLCA
MGA	0	.	GRCh37	15	42026780	42026780	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3904G>C	p.Asp1302His	p.D1302H	ENST00000219905	12/24	23	18	5	29	29	0	MGA,missense_variant,p.Asp11His,ENST00000564190,;MGA,missense_variant,p.Asp1302His,ENST00000219905,;MGA,missense_variant,p.Asp1302His,ENST00000570161,;MGA,missense_variant,p.Asp1302His,ENST00000545763,;MGA,missense_variant,p.Asp1302His,ENST00000389936,;MGA,missense_variant,p.Asp1302His,ENST00000566586,;	C	ENSG00000174197	ENST00000219905	Transcript	missense_variant	4085	3904	1302	D/H	Gat/Cat	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	deleterious(0.01)	benign(0.021)	12/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTGATAAA	.	5	BLCA
FAM81A	0	.	GRCh37	15	59813563	59813563	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1093G>A	p.Glu365Lys	p.E365K	ENST00000288228	9/9	37	27	10	21	21	0	FAM81A,missense_variant,p.Glu365Lys,ENST00000288228,;RP11-112N19.1,downstream_gene_variant,,ENST00000463506,;	A	ENSG00000157470	ENST00000288228	Transcript	missense_variant	1280	1093	365	E/K	Gag/Aag	.	.	.	1	FAM81A	HGNC	28379	protein_coding	YES	CCDS45269.1	ENSP00000288228	FA81A_HUMAN	H0YN94_HUMAN,H0YN47_HUMAN,H0YMX7_HUMAN,H0YMW3_HUMAN,H0YMF2_HUMAN,H0YKW2_HUMAN,H0YKQ6_HUMAN	UPI000015DCFD	.	tolerated(0.65)	benign(0.008)	9/9	.	hmmpanther:PTHR22420:SF2,hmmpanther:PTHR22420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCAGAGACC	.	2	BLCA
NARG2	0	.	GRCh37	15	60741331	60741331	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1835A>G	p.Gln612Arg	p.Q612R	ENST00000261520	10/16	90	38	52	87	87	0	NARG2,missense_variant,p.Gln612Arg,ENST00000261520,;NARG2,missense_variant,p.Gln475Arg,ENST00000439632,;NARG2,downstream_gene_variant,,ENST00000558512,;NARG2,downstream_gene_variant,,ENST00000561114,;NARG2,3_prime_UTR_variant,,ENST00000558181,;NARG2,non_coding_transcript_exon_variant,,ENST00000561328,;NARG2,upstream_gene_variant,,ENST00000561144,;	C	ENSG00000128915	ENST00000261520	Transcript	missense_variant	2070	1835	612	Q/R	cAg/cGg	.	.	.	-1	NARG2	HGNC	29885	protein_coding	YES	CCDS10176.1	ENSP00000261520	NARG2_HUMAN	H0YMX6_HUMAN,H0YL35_HUMAN,H0YK97_HUMAN,H0YK14_HUMAN,G3V0H6_HUMAN,B3KXT2_HUMAN	UPI00001A828C	.	tolerated(0.39)	benign(0.118)	10/16	.	hmmpanther:PTHR14633:SF3,hmmpanther:PTHR14633	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCCTGTCCT	.	5	BLCA
RN7SL319P	0	.	GRCh37	15	76073378	76073378	+	5'Flank	SNP	C	C	T	rs577163754	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000480656	.	111	76	35	80	80	0	RN7SL319P,upstream_gene_variant,,ENST00000480656,;RP11-24M17.5,non_coding_transcript_exon_variant,,ENST00000395215,;RP11-24M17.5,non_coding_transcript_exon_variant,,ENST00000566174,;	T	ENSG00000241807	ENST00000480656	Transcript	upstream_gene_variant	.	.	.	.	.	rs577163754	.	4075	1	RN7SL319P	HGNC	46335	misc_RNA	YES	.	.	.	.	.	.	.	.	.	.	.	G:0.0004	G:0.0008	G:0	.	G:0.001	G:0	G:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTCTGCTG	byFrequency|by1000G	5	BLCA
BLM	0	.	GRCh37	15	91303418	91303418	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129G>C	p.Glu377Gln	p.E377Q	ENST00000355112	6/22	56	38	17	44	44	0	BLM,missense_variant,p.Glu377Gln,ENST00000560509,;BLM,missense_variant,p.Glu377Gln,ENST00000355112,;SNORD18,upstream_gene_variant,,ENST00000363807,;BLM,intron_variant,,ENST00000558599,;BLM,upstream_gene_variant,,ENST00000559426,;BLM,upstream_gene_variant,,ENST00000560136,;BLM,3_prime_UTR_variant,,ENST00000559724,;	C	ENSG00000197299	ENST00000355112	Transcript	missense_variant	1247	1129	377	E/Q	Gag/Cag	.	.	.	1	BLM	HGNC	1058	protein_coding	YES	CCDS10363.1	ENSP00000347232	BLM_HUMAN	.	UPI00001269FA	.	deleterious(0.02)	possibly_damaging(0.771)	6/22	.	Pfam_domain:PF08072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATGGAGCAC	.	5	BLCA
ACSM5	0	.	GRCh37	16	20435239	20435239	+	Missense_Mutation	SNP	C	C	T	rs566907774	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769C>T	p.Arg257Trp	p.R257W	ENST00000331849	6/14	158	95	63	178	178	0	ACSM5,missense_variant,p.Arg257Trp,ENST00000331849,;ACSM5,downstream_gene_variant,,ENST00000575584,;ACSM5,missense_variant,p.Arg44Trp,ENST00000573920,;ACSM5,splice_region_variant,,ENST00000570305,;ACSM5,intron_variant,,ENST00000574748,;	T	ENSG00000183549	ENST00000331849	Transcript	missense_variant	916	769	257	R/W	Cgg/Tgg	rs566907774	.	.	1	ACSM5	HGNC	26060	protein_coding	YES	CCDS10585.1	ENSP00000327916	ACSM5_HUMAN	.	UPI00001FEFB3	.	deleterious(0.05)	possibly_damaging(0.579)	6/14	.	Superfamily_domains:SSF56801,Pfam_domain:PF00501,Gene3D:3.40.50.980,hmmpanther:PTHR24095:SF105,hmmpanther:PTHR24095	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGACGGTGG	by1000G	5	BLCA
SLC5A2	0	.	GRCh37	16	31497553	31497553	+	Silent	SNP	C	C	T	rs376135738	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>T	p.%3D	p.S177S	ENST00000330498	5/14	127	89	37	101	101	0	SLC5A2,synonymous_variant,p.%3D,ENST00000569576,;SLC5A2,synonymous_variant,p.%3D,ENST00000330498,;C16orf58,downstream_gene_variant,,ENST00000567994,;C16orf58,downstream_gene_variant,,ENST00000327237,;C16orf58,downstream_gene_variant,,ENST00000570164,;AC026471.6,downstream_gene_variant,,ENST00000565137,;SLC5A2,upstream_gene_variant,,ENST00000567051,;SLC5A2,upstream_gene_variant,,ENST00000564197,;SLC5A2,synonymous_variant,p.%3D,ENST00000419665,;SLC5A2,non_coding_transcript_exon_variant,,ENST00000565446,;C16orf58,downstream_gene_variant,,ENST00000568491,;SLC5A2,downstream_gene_variant,,ENST00000562006,;SLC5A2,upstream_gene_variant,,ENST00000568188,;SLC5A2,upstream_gene_variant,,ENST00000568891,;	T	ENSG00000140675	ENST00000330498	Transcript	synonymous_variant	550	531	177	S	tcC/tcT	rs376135738,COSM3509276	.	.	1	SLC5A2	HGNC	11037	protein_coding	YES	CCDS10714.1	ENSP00000327943	SC5A2_HUMAN	H3BP44_HUMAN	UPI000004D0A0	.	.	.	5/14	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50283,hmmpanther:PTHR11819:SF95,hmmpanther:PTHR11819,PROSITE_patterns:PS00456,TIGRFAM_domain:TIGR00813,Pfam_domain:PF00474	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTCCGTCAT	byCluster|by1000G	5	BLCA
CREBBP	0	.	GRCh37	16	3841997	3841997	+	Nonsense_Mutation	SNP	T	T	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1315A>T	p.Lys439Ter	p.K439*	ENST00000262367	5/31	145	109	36	162	162	0	CREBBP,stop_gained,p.Lys439Ter,ENST00000262367,;CREBBP,intron_variant,,ENST00000382070,;	A	ENSG00000005339	ENST00000262367	Transcript	stop_gained	2125	1315	439	K/*	Aag/Tag	.	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	.	5/31	.	hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF5,Gene3D:1.20.1020.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCTTGTCAC	.	5	BLCA
DNAJA3	0	.	GRCh37	16	4492322	4492322	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684C>A	p.Phe228Leu	p.F228L	ENST00000262375	5/12	122	63	58	104	104	0	DNAJA3,missense_variant,p.Phe228Leu,ENST00000262375,;DNAJA3,missense_variant,p.Phe161Leu,ENST00000574895,;DNAJA3,missense_variant,p.Phe228Leu,ENST00000355296,;DNAJA3,missense_variant,p.Phe75Leu,ENST00000431375,;DNAJA3,downstream_gene_variant,,ENST00000572139,;DNAJA3,3_prime_UTR_variant,,ENST00000575106,;DNAJA3,3_prime_UTR_variant,,ENST00000576911,;DNAJA3,non_coding_transcript_exon_variant,,ENST00000577083,;DNAJA3,downstream_gene_variant,,ENST00000570857,;DNAJA3,downstream_gene_variant,,ENST00000573120,;DNAJA3,downstream_gene_variant,,ENST00000572009,;	A	ENSG00000103423	ENST00000262375	Transcript	missense_variant	761	684	228	F/L	ttC/ttA	.	.	.	1	DNAJA3	HGNC	11808	protein_coding	YES	CCDS10515.1	ENSP00000262375	DNJA3_HUMAN	Q59E88_HUMAN,Q53G26_HUMAN	UPI0000043C38	.	tolerated(0.34)	benign(0.002)	5/12	.	HAMAP:MF_01152,PROSITE_profiles:PS51188,hmmpanther:PTHR24076:SF79,hmmpanther:PTHR24076,Gene3D:2.60.260.20,Superfamily_domains:SSF57938	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGTTCACCGT	.	5	BLCA
ROGDI	0	.	GRCh37	16	4852667	4852667	+	5'UTR	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-95G>C	.	.	ENST00000322048	1/11	8	2	6	9	9	0	ROGDI,5_prime_UTR_variant,,ENST00000322048,;GLYR1,downstream_gene_variant,,ENST00000321919,;ROGDI,upstream_gene_variant,,ENST00000586504,;GLYR1,downstream_gene_variant,,ENST00000381983,;ROGDI,upstream_gene_variant,,ENST00000586153,;ROGDI,upstream_gene_variant,,ENST00000587711,;GLYR1,downstream_gene_variant,,ENST00000436648,;ROGDI,upstream_gene_variant,,ENST00000591392,;GLYR1,downstream_gene_variant,,ENST00000589389,;GLYR1,downstream_gene_variant,,ENST00000591451,;ROGDI,upstream_gene_variant,,ENST00000592019,;ROGDI,upstream_gene_variant,,ENST00000586336,;ROGDI,5_prime_UTR_variant,,ENST00000588201,;ROGDI,non_coding_transcript_exon_variant,,ENST00000592112,;ROGDI,non_coding_transcript_exon_variant,,ENST00000585871,;ROGDI,upstream_gene_variant,,ENST00000587377,;ROGDI,upstream_gene_variant,,ENST00000591292,;ROGDI,upstream_gene_variant,,ENST00000587843,;ROGDI,upstream_gene_variant,,ENST00000589543,;GLYR1,downstream_gene_variant,,ENST00000588732,;GLYR1,downstream_gene_variant,,ENST00000587936,;ROGDI,upstream_gene_variant,,ENST00000590198,;ROGDI,upstream_gene_variant,,ENST00000585653,;AC020663.1,downstream_gene_variant,,ENST00000541129,;	G	ENSG00000067836	ENST00000322048	Transcript	5_prime_UTR_variant	285	.	.	.	.	.	.	.	-1	ROGDI	HGNC	29478	protein_coding	YES	CCDS10523.1	ENSP00000322832	ROGDI_HUMAN	D3DUE5_HUMAN	UPI0000037B8E	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCCGGCGT	.	2	BLCA
RPGRIP1L	0	.	GRCh37	16	53671604	53671604	+	Intron	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3220+3G>A	.	.	ENST00000379925	.	63	44	19	107	107	0	RPGRIP1L,splice_region_variant,,ENST00000563746,;RPGRIP1L,splice_region_variant,,ENST00000564374,;RPGRIP1L,splice_region_variant,,ENST00000262135,;RPGRIP1L,splice_region_variant,,ENST00000379925,;RPGRIP1L,splice_region_variant,,ENST00000568009,;	T	ENSG00000103494	ENST00000379925	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	.	.	.	21/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTCACCTT	.	4	BLCA
RPGRIP1L	0	.	GRCh37	16	53671682	53671682	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3145G>C	p.Glu1049Gln	p.E1049Q	ENST00000379925	21/27	92	60	32	123	123	0	RPGRIP1L,missense_variant,p.Glu1015Gln,ENST00000563746,;RPGRIP1L,missense_variant,p.Glu1049Gln,ENST00000564374,;RPGRIP1L,missense_variant,p.Glu1015Gln,ENST00000262135,;RPGRIP1L,missense_variant,p.Glu1049Gln,ENST00000379925,;RPGRIP1L,non_coding_transcript_exon_variant,,ENST00000568009,;	G	ENSG00000103494	ENST00000379925	Transcript	missense_variant	3196	3145	1049	E/Q	Gaa/Caa	.	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	tolerated(0.05)	benign(0.128)	21/27	.	hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCAGATA	.	5	BLCA
RPGRIP1L	0	.	GRCh37	16	53679759	53679759	+	Missense_Mutation	SNP	C	C	G	rs377377380	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2461G>C	p.Asp821His	p.D821H	ENST00000379925	17/27	152	89	63	203	203	0	RPGRIP1L,missense_variant,p.Asp821His,ENST00000563746,;RPGRIP1L,missense_variant,p.Asp821His,ENST00000564374,;RPGRIP1L,missense_variant,p.Asp821His,ENST00000262135,;RPGRIP1L,missense_variant,p.Asp821His,ENST00000379925,;	G	ENSG00000103494	ENST00000379925	Transcript	missense_variant	2512	2461	821	D/H	Gat/Cat	rs377377380	.	.	-1	RPGRIP1L	HGNC	29168	protein_coding	YES	CCDS32447.1	ENSP00000369257	FTM_HUMAN	J3QLR9_HUMAN,I3L2P2_HUMAN,H3BPF5_HUMAN	UPI000047DAF2	.	tolerated(0.08)	possibly_damaging(0.873)	17/27	.	PROSITE_profiles:PS50004,hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF4,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATCAAAAA	.	5	BLCA
PLLP	0	.	GRCh37	16	57295921	57295921	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.197A>G	p.Tyr66Cys	p.Y66C	ENST00000219207	2/4	82	33	48	92	92	0	PLLP,missense_variant,p.Tyr66Cys,ENST00000219207,;PLLP,5_prime_UTR_variant,,ENST00000564018,;PLLP,intron_variant,,ENST00000569059,;	C	ENSG00000102934	ENST00000219207	Transcript	missense_variant	344	197	66	Y/C	tAt/tGt	.	.	.	-1	PLLP	HGNC	18553	protein_coding	YES	CCDS10777.1	ENSP00000219207	PLLP_HUMAN	J3QLJ3_HUMAN	UPI0000131C07	.	tolerated(0.08)	benign(0.221)	2/4	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS51225,hmmpanther:PTHR22776,hmmpanther:PTHR22776:SF9,Pfam_domain:PF01284	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCATAGGCC	.	5	BLCA
FAM65A	0	.	GRCh37	16	67576191	67576191	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1562G>C	p.Gly521Ala	p.G521A	ENST00000422602	13/22	223	131	92	267	267	0	FAM65A,missense_variant,p.Gly515Ala,ENST00000428437,;FAM65A,missense_variant,p.Gly501Ala,ENST00000566559,;FAM65A,missense_variant,p.Gly464Ala,ENST00000569253,;FAM65A,missense_variant,p.Gly521Ala,ENST00000422602,;FAM65A,missense_variant,p.Gly521Ala,ENST00000540839,;FAM65A,missense_variant,p.Gly501Ala,ENST00000042381,;FAM65A,missense_variant,p.Gly505Ala,ENST00000379312,;FAM65A,downstream_gene_variant,,ENST00000569179,;FAM65A,upstream_gene_variant,,ENST00000568959,;FAM65A,downstream_gene_variant,,ENST00000562755,;FAM65A,downstream_gene_variant,,ENST00000566920,;FAM65A,downstream_gene_variant,,ENST00000565176,;FAM65A,downstream_gene_variant,,ENST00000566907,;FAM65A,downstream_gene_variant,,ENST00000562116,;CTD-2012K14.3,non_coding_transcript_exon_variant,,ENST00000563083,;CTD-2012K14.4,downstream_gene_variant,,ENST00000564717,;CTD-2012K14.2,upstream_gene_variant,,ENST00000567122,;FAM65A,downstream_gene_variant,,ENST00000566522,;FAM65A,non_coding_transcript_exon_variant,,ENST00000569733,;FAM65A,upstream_gene_variant,,ENST00000565190,;FAM65A,downstream_gene_variant,,ENST00000561534,;FAM65A,upstream_gene_variant,,ENST00000565679,;FAM65A,downstream_gene_variant,,ENST00000569474,;FAM65A,upstream_gene_variant,,ENST00000564616,;FAM65A,downstream_gene_variant,,ENST00000566730,;FAM65A,downstream_gene_variant,,ENST00000566815,;	C	ENSG00000039523	ENST00000422602	Transcript	missense_variant	1658	1562	521	G/A	gGc/gCc	.	.	.	1	FAM65A	HGNC	25836	protein_coding	YES	CCDS54026.1	ENSP00000400099	FA65A_HUMAN	H3BQI5_HUMAN,H3BV02_HUMAN,H3BUP6_HUMAN,H3BSV5_HUMAN,H3BS40_HUMAN	UPI0001AE68C6	.	tolerated(0.07)	benign(0.071)	13/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15829,hmmpanther:PTHR15829:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTGGCCACT	.	5	BLCA
FBXL16	0	.	GRCh37	16	744271	744271	+	3'UTR	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4G>C	.	.	ENST00000397621	6/6	16	6	9	24	24	0	FBXL16,3_prime_UTR_variant,,ENST00000324361,;FBXL16,3_prime_UTR_variant,,ENST00000397621,;FBXL16,3_prime_UTR_variant,,ENST00000562563,;WDR24,upstream_gene_variant,,ENST00000293883,;WDR24,upstream_gene_variant,,ENST00000248142,;LA16c-313D11.12,downstream_gene_variant,,ENST00000566927,;FBXL16,downstream_gene_variant,,ENST00000562585,;FBXL16,non_coding_transcript_exon_variant,,ENST00000562648,;LA16c-313D11.12,downstream_gene_variant,,ENST00000575305,;	G	ENSG00000127585	ENST00000397621	Transcript	3_prime_UTR_variant	1776	.	.	.	.	.	.	.	-1	FBXL16	HGNC	14150	protein_coding	YES	CCDS10421.1	ENSP00000380746	FXL16_HUMAN	Q8N4J3_HUMAN,B3KR59_HUMAN	UPI0000141371	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGCGCT	.	5	BLCA
CHST5	0	.	GRCh37	16	75563511	75563511	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772G>T	p.Asp258Tyr	p.D258Y	ENST00000336257	3/3	85	53	32	121	121	0	CHST5,missense_variant,p.Asp264Tyr,ENST00000541075,;CHST5,missense_variant,p.Asp258Tyr,ENST00000336257,;CHST5,downstream_gene_variant,,ENST00000565039,;RP11-77K12.7,3_prime_UTR_variant,,ENST00000460606,;	A	ENSG00000135702	ENST00000336257	Transcript	missense_variant	2167	772	258	D/Y	Gac/Tac	.	.	.	-1	CHST5	HGNC	1973	protein_coding	YES	CCDS10919.1	ENSP00000338783	CHST5_HUMAN	.	UPI000006EAEA	.	deleterious(0)	probably_damaging(0.992)	3/3	.	hmmpanther:PTHR10704:SF13,hmmpanther:PTHR10704,Gene3D:3.40.50.300,Pfam_domain:PF00685,PIRSF_domain:PIRSF005883,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGTCGGCCT	.	5	BLCA
COX4I1	0	.	GRCh37	16	85839589	85839589	+	Intron	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.373+119G>T	.	.	ENST00000562336	.	30	21	9	46	46	0	COX4I1,3_prime_UTR_variant,,ENST00000564903,;COX4I1,intron_variant,,ENST00000566405,;COX4I1,intron_variant,,ENST00000562336,;COX4I1,intron_variant,,ENST00000561569,;COX4I1,intron_variant,,ENST00000253452,;COX4I1,intron_variant,,ENST00000568794,;COX4I1,downstream_gene_variant,,ENST00000565078,;COX4I1,intron_variant,,ENST00000562929,;COX4I1,downstream_gene_variant,,ENST00000570123,;COX4I1,non_coding_transcript_exon_variant,,ENST00000569997,;COX4I1,non_coding_transcript_exon_variant,,ENST00000568339,;COX4I1,intron_variant,,ENST00000564648,;COX4I1,intron_variant,,ENST00000564544,;COX4I1,downstream_gene_variant,,ENST00000567266,;COX4I1,downstream_gene_variant,,ENST00000563774,;COX4I1,downstream_gene_variant,,ENST00000567241,;COX4I1,downstream_gene_variant,,ENST00000566115,;COX4I1,downstream_gene_variant,,ENST00000566617,;	T	ENSG00000131143	ENST00000562336	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	COX4I1	HGNC	2265	protein_coding	YES	CCDS10955.1	ENSP00000457513	COX41_HUMAN	H3BPG0_HUMAN,H3BNI5_HUMAN	UPI0000128787	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCAGAGTTC	.	5	BLCA
ANKRD11	0	.	GRCh37	16	89337258	89337258	+	Silent	SNP	G	G	C	rs141407178	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7773C>G	p.%3D	p.L2591L	ENST00000301030	12/13	39	18	21	53	53	0	ANKRD11,synonymous_variant,p.%3D,ENST00000378330,;ANKRD11,synonymous_variant,p.%3D,ENST00000301030,;ANKRD11,synonymous_variant,p.%3D,ENST00000562194,;AC137932.1,3_prime_UTR_variant,,ENST00000602042,;RP11-46C24.5,upstream_gene_variant,,ENST00000566427,;ANKRD11,3_prime_UTR_variant,,ENST00000330736,;	C	ENSG00000167522	ENST00000301030	Transcript	synonymous_variant	8234	7773	2591	L	ctC/ctG	rs141407178	.	.	-1	ANKRD11	HGNC	21316	protein_coding	YES	CCDS32513.1	ENSP00000301030	ANR11_HUMAN	.	UPI00004569E1	.	.	.	12/13	.	hmmpanther:PTHR24145	.	.	.	.	.	.	.	C:0.0002	C:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGGAGCCA	byCluster	5	BLCA
HS3ST3B1	0	.	GRCh37	17	14204871	14204871	+	Silent	SNP	C	C	G	rs751348586	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36C>G	p.%3D	p.L12L	ENST00000360954	1/2	16	7	9	20	20	0	HS3ST3B1,synonymous_variant,p.%3D,ENST00000360954,;RP11-214O1.1,upstream_gene_variant,,ENST00000571192,;RP11-214O1.2,upstream_gene_variant,,ENST00000583262,;HS3ST3B1,synonymous_variant,p.%3D,ENST00000466596,;	G	ENSG00000125430	ENST00000360954	Transcript	synonymous_variant	472	36	12	L	ctC/ctG	rs751348586	.	.	1	HS3ST3B1	HGNC	5198	protein_coding	YES	CCDS11167.1	ENSP00000354213	HS3SB_HUMAN	.	UPI0000038167	.	.	.	1/2	.	hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCGATGT	.	5	BLCA
SARM1	0	.	GRCh37	17	26727562	26727562	+	3'UTR	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4257G>T	.	.	ENST00000457710	9/9	55	13	42	15	15	0	SARM1,3_prime_UTR_variant,,ENST00000457710,;SLC46A1,intron_variant,,ENST00000440501,;SLC46A1,intron_variant,,ENST00000321666,;SLC46A1,intron_variant,,ENST00000582735,;SLC46A1,downstream_gene_variant,,ENST00000581516,;SARM1,downstream_gene_variant,,ENST00000579593,;SLC46A1,downstream_gene_variant,,ENST00000584995,;SLC46A1,downstream_gene_variant,,ENST00000584426,;SARM1,downstream_gene_variant,,ENST00000578128,;CTD-2350C19.1,upstream_gene_variant,,ENST00000583956,;CTD-2350C19.2,upstream_gene_variant,,ENST00000580714,;SLC46A1,intron_variant,,ENST00000584729,;SLC46A1,intron_variant,,ENST00000583295,;SLC46A1,downstream_gene_variant,,ENST00000578217,;SARM1,downstream_gene_variant,,ENST00000379061,;SLC46A1,non_coding_transcript_exon_variant,,ENST00000582345,;SARM1,downstream_gene_variant,,ENST00000580711,;SLC46A1,downstream_gene_variant,,ENST00000582590,;SARM1,downstream_gene_variant,,ENST00000003834,;SARM1,downstream_gene_variant,,ENST00000577870,;	T	ENSG00000004139	ENST00000457710	Transcript	3_prime_UTR_variant	6801	.	.	.	.	.	.	.	1	SARM1	HGNC	17074	protein_coding	YES	.	ENSP00000406738	.	.	UPI0000042801	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGAGGAGAAG	.	2	BLCA
SUPT6H	0	.	GRCh37	17	27025016	27025016	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4416C>G	p.Phe1472Leu	p.F1472L	ENST00000314616	32/37	205	169	35	59	59	0	SUPT6H,missense_variant,p.Phe1472Leu,ENST00000314616,;SUPT6H,missense_variant,p.Phe1472Leu,ENST00000347486,;SUPT6H,non_coding_transcript_exon_variant,,ENST00000581510,;SUPT6H,downstream_gene_variant,,ENST00000580471,;SUPT6H,upstream_gene_variant,,ENST00000583340,;	G	ENSG00000109111	ENST00000314616	Transcript	missense_variant	4699	4416	1472	F/L	ttC/ttG	.	.	.	1	SUPT6H	HGNC	11470	protein_coding	YES	CCDS32596.1	ENSP00000319104	SPT6H_HUMAN	J3QS64_HUMAN	UPI000015FFA7	.	deleterious(0)	probably_damaging(0.967)	32/37	.	PIRSF_domain:PIRSF036947,Pfam_domain:PF14633,hmmpanther:PTHR10145:SF6,hmmpanther:PTHR10145	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTTCCTACT	.	4	BLCA
CCL5	0	.	GRCh37	17	34199431	34199431	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226C>A	p.Pro76Thr	p.P76T	ENST00000293272	3/3	192	113	79	157	157	0	CCL5,missense_variant,p.Pro76Thr,ENST00000366113,;CCL5,missense_variant,p.Pro76Thr,ENST00000293272,;CCL5,missense_variant,p.Pro99His,ENST00000463941,;C17orf66,upstream_gene_variant,,ENST00000311880,;C17orf66,upstream_gene_variant,,ENST00000587626,;C17orf66,upstream_gene_variant,,ENST00000592980,;AC015849.2,intron_variant,,ENST00000413928,;C17orf66,upstream_gene_variant,,ENST00000587585,;C17orf66,upstream_gene_variant,,ENST00000589015,;C17orf66,upstream_gene_variant,,ENST00000587573,;C17orf66,upstream_gene_variant,,ENST00000462028,;C17orf66,upstream_gene_variant,,ENST00000585840,;	T	ENSG00000161570	ENST00000293272	Transcript	missense_variant	429	226	76	P/T	Cca/Aca	.	.	.	-1	CCL5	HGNC	10632	protein_coding	YES	CCDS11300.1	ENSP00000293272	CCL5_HUMAN	D0EI67_HUMAN	UPI000004A187	.	deleterious(0.01)	probably_damaging(0.995)	3/3	.	hmmpanther:PTHR12015,hmmpanther:PTHR12015:SF82,Gene3D:2.40.50.40,Pfam_domain:PF00048,SMART_domains:SM00199,Superfamily_domains:SSF54117	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTGGGTTGG	.	5	BLCA
CTD-2206N4.4	0	.	GRCh37	17	37213356	37213356	+	RNA	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.85G>A	.	.	ENST00000583447	1/5	46	25	21	19	19	0	CTD-2206N4.4,non_coding_transcript_exon_variant,,ENST00000583447,;CTD-2206N4.4,non_coding_transcript_exon_variant,,ENST00000578423,;LRRC37A11P,downstream_gene_variant,,ENST00000425901,;CTD-2206N4.4,non_coding_transcript_exon_variant,,ENST00000584586,;	A	ENSG00000263818	ENST00000583447	Transcript	non_coding_transcript_exon_variant	85	.	.	.	.	.	.	.	1	CTD-2206N4.4	Clone_based_vega_gene	.	processed_transcript	YES	.	.	.	.	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGTGACAAA	.	5	BLCA
HDAC5	0	.	GRCh37	17	42164806	42164806	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1861G>A	p.Glu621Lys	p.E621K	ENST00000225983	13/27	39	10	29	49	49	0	HDAC5,missense_variant,p.Glu620Lys,ENST00000393622,;HDAC5,missense_variant,p.Glu621Lys,ENST00000225983,;HDAC5,missense_variant,p.Glu620Lys,ENST00000586802,;HDAC5,missense_variant,p.Glu620Lys,ENST00000336057,;HDAC5,downstream_gene_variant,,ENST00000588261,;HDAC5,non_coding_transcript_exon_variant,,ENST00000592385,;HDAC5,upstream_gene_variant,,ENST00000588419,;HDAC5,upstream_gene_variant,,ENST00000593013,;HDAC5,downstream_gene_variant,,ENST00000587776,;	T	ENSG00000108840	ENST00000225983	Transcript	missense_variant	2185	1861	621	E/K	Gag/Aag	.	.	.	-1	HDAC5	HGNC	14068	protein_coding	YES	CCDS32663.1	ENSP00000225983	HDAC5_HUMAN	K7EJZ7_HUMAN,K7EJL6_HUMAN	UPI0000508BBA	.	tolerated(0.5)	probably_damaging(0.979)	13/27	.	hmmpanther:PTHR10625,hmmpanther:PTHR10625:SF57,PIRSF_domain:PIRSF037911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCAAGT	.	5	BLCA
HDAC5	0	.	GRCh37	17	42164893	42164893	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1774G>C	p.Glu592Gln	p.E592Q	ENST00000225983	13/27	45	10	35	60	60	0	HDAC5,missense_variant,p.Glu591Gln,ENST00000393622,;HDAC5,missense_variant,p.Glu592Gln,ENST00000225983,;HDAC5,missense_variant,p.Glu591Gln,ENST00000586802,;HDAC5,missense_variant,p.Glu591Gln,ENST00000336057,;HDAC5,downstream_gene_variant,,ENST00000588261,;HDAC5,non_coding_transcript_exon_variant,,ENST00000592385,;HDAC5,upstream_gene_variant,,ENST00000588419,;HDAC5,upstream_gene_variant,,ENST00000593013,;HDAC5,downstream_gene_variant,,ENST00000587776,;	G	ENSG00000108840	ENST00000225983	Transcript	missense_variant	2098	1774	592	E/Q	Gag/Cag	.	.	.	-1	HDAC5	HGNC	14068	protein_coding	YES	CCDS32663.1	ENSP00000225983	HDAC5_HUMAN	K7EJZ7_HUMAN,K7EJL6_HUMAN	UPI0000508BBA	.	tolerated(0.46)	possibly_damaging(0.878)	13/27	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10625,hmmpanther:PTHR10625:SF57,PIRSF_domain:PIRSF037911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D593E|c.1779C>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCGTCCT	.	5	BLCA
NUP88	0	.	GRCh37	17	5298251	5298251	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1342T>C	p.Phe448Leu	p.F448L	ENST00000573584	9/17	76	23	53	108	108	0	NUP88,missense_variant,p.Phe387Leu,ENST00000225696,;NUP88,missense_variant,p.Phe448Leu,ENST00000573584,;NUP88,non_coding_transcript_exon_variant,,ENST00000574867,;NUP88,non_coding_transcript_exon_variant,,ENST00000576862,;NUP88,non_coding_transcript_exon_variant,,ENST00000570937,;	G	ENSG00000108559	ENST00000573584	Transcript	missense_variant	1852	1342	448	F/L	Ttt/Ctt	.	.	.	-1	NUP88	HGNC	8067	protein_coding	YES	CCDS11070.1	ENSP00000458954	NUP88_HUMAN	I3L245_HUMAN	UPI0000130894	.	tolerated(0.28)	benign(0.02)	9/17	.	hmmpanther:PTHR13257:SF0,hmmpanther:PTHR13257,Pfam_domain:PF10168	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACAAAGCATT	.	5	BLCA
BZRAP1	0	.	GRCh37	17	56400389	56400389	+	Silent	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1116G>C	p.%3D	p.L372L	ENST00000343736	8/32	24	16	7	15	15	0	BZRAP1,synonymous_variant,p.%3D,ENST00000355701,;BZRAP1,synonymous_variant,p.%3D,ENST00000343736,;BZRAP1,synonymous_variant,p.%3D,ENST00000268893,;BZRAP1-AS1,upstream_gene_variant,,ENST00000579527,;BZRAP1,upstream_gene_variant,,ENST00000583624,;	G	ENSG00000005379	ENST00000343736	Transcript	synonymous_variant	1280	1116	372	L	ctG/ctC	.	.	.	-1	BZRAP1	HGNC	16831	protein_coding	YES	CCDS11605.1	ENSP00000345824	RIMB1_HUMAN	.	UPI000013D7E3	.	.	.	8/32	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14234:SF20,hmmpanther:PTHR14234	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCAGCTG	.	5	BLCA
GPRC5C	0	.	GRCh37	17	72436960	72436960	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1180G>T	p.Val394Phe	p.V394F	ENST00000392627	2/4	57	27	29	50	50	0	GPRC5C,missense_variant,p.Val361Phe,ENST00000392629,;GPRC5C,missense_variant,p.Val34Phe,ENST00000342648,;GPRC5C,missense_variant,p.Val369Phe,ENST00000392628,;GPRC5C,missense_variant,p.Val394Phe,ENST00000392627,;GPRC5C,intron_variant,,ENST00000481232,;GPRC5C,intron_variant,,ENST00000581590,;GPRC5C,downstream_gene_variant,,ENST00000582444,;GPRC5C,downstream_gene_variant,,ENST00000582473,;GPRC5C,upstream_gene_variant,,ENST00000582873,;GPRC5C,upstream_gene_variant,,ENST00000577663,;GPRC5C,upstream_gene_variant,,ENST00000482723,;	T	ENSG00000170412	ENST00000392627	Transcript	missense_variant	2306	1180	394	V/F	Gtt/Ttt	.	.	.	1	GPRC5C	HGNC	13309	protein_coding	YES	CCDS11699.1	ENSP00000376403	GPC5C_HUMAN	J9JIE0_HUMAN,J3QQN3_HUMAN	UPI0000231CB2	.	tolerated(0.05)	benign(0.006)	2/4	.	hmmpanther:PTHR14511,hmmpanther:PTHR14511:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCGGTTGCA	.	5	BLCA
TP53	0	.	GRCh37	17	7577538	7577538	+	Missense_Mutation	SNP	C	C	T	rs11540652	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743G>A	p.Arg248Gln	p.R248Q	ENST00000269305	7/11	75	15	60	104	104	0	TP53,missense_variant,p.Arg248Gln,ENST00000413465,;TP53,missense_variant,p.Arg248Gln,ENST00000420246,;TP53,missense_variant,p.Arg248Gln,ENST00000269305,;TP53,missense_variant,p.Arg116Gln,ENST00000509690,;TP53,missense_variant,p.Arg248Gln,ENST00000359597,;TP53,missense_variant,p.Arg155Gln,ENST00000514944,;TP53,missense_variant,p.Arg248Gln,ENST00000445888,;TP53,missense_variant,p.Arg248Gln,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	933	743	248	R/Q	cGg/cAg	rs11540652,CM920675,TP53_g.13380G>A,TP53_g.13380G>C,TP53_g.13380G>T,TP53_g.13380del,COSM10662,COSM11491,COSM6549,COSM46135,COSM340105,COSM99602,COSM241995,COSM99020,COSM241994,COSM340106,COSM3356964,COSM3378346,COSM1640830,COSM1646857,COSM1646858,COSM99021,COSM241996,COSM340107	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,PROSITE_patterns:PS00348,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	25032700,20377871,18798306,15450681,25105660,21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R248Q|c.743G>A|113,SITE|p.R248Q|c.743G>A|633,SITE|p.R248Q|c.743G>A|64,SITE|p.R248Q|c.743G>A|42,SITE|p.R155Q|c.464G>A|114,SITE|p.R248Q|c.743G>A|110,CODON|p.0?|c.1_1182del1182|6,CODON|p.R248Q|c.743_744GG>AA|5,CODON|p.R248R|c.744G>A|5,CODON|p.R248W|c.741_742CC>TT|15,CODON|p.R248L|c.743G>T|7,CODON|p.R248L|c.743G>T|12,CODON|p.R155L|c.464G>T|12,CODON|p.R155P|c.464G>C|5,CODON|p.R248P|c.743G>C|17,CODON|p.R248L|c.743G>T|12,CODON|p.R248P|c.743G>C|5,CODON|p.R248L|c.743G>T|74,CODON|p.R248P|c.743G>C|5,BUFFER|p.L252_I254delLTI|c.754_762delCTCACCATC|4,BUFFER|p.L252_I254delLTI|c.751_759delATCCTCACC|4,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252delL|c.754_756delCTC|9,BUFFER|p.L252delL|c.754_756delCTC|4,BUFFER|p.L252fs*93|c.754delC|5,BUFFER|p.L252F|c.754C>T|10,BUFFER|p.I251I|c.753C>A|3,BUFFER|p.I251N|c.752T>A|9,BUFFER|p.I251T|c.752T>C|6,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251S|c.752T>G|12,BUFFER|p.I251T|c.752T>C|3,BUFFER|p.I251fs*94|c.751delA|6,BUFFER|p.I251L|c.751A>C|3,BUFFER|p.I251F|c.751A>T|8,BUFFER|p.P250P|c.750C>T|4,BUFFER|p.P250F|c.748_749CC>TT|3,BUFFER|p.I251fs*94|c.748delC|4,BUFFER|p.P250L|c.749C>T|49,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250L|c.749C>T|8,BUFFER|p.P250L|c.749C>T|6,BUFFER|p.P250L|c.749C>T|11,BUFFER|p.P250S|c.748C>T|12,BUFFER|p.R249fs*96|c.746delG|4,BUFFER|p.R249S|c.747G>T|31,BUFFER|p.R249S|c.747G>C|22,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|15,BUFFER|p.R249R|c.747G>A|6,BUFFER|p.R249S|c.747G>C|3,BUFFER|p.R249S|c.747G>T|314,BUFFER|p.R249S|c.747G>T|30,BUFFER|p.R249T|c.746G>C|3,BUFFER|p.R249M|c.746G>T|8,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249M|c.746G>T|9,BUFFER|p.R249K|c.746G>A|17,BUFFER|p.R249M|c.746G>T|4,BUFFER|p.R249T|c.746G>C|20,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249M|c.746G>T|35,BUFFER|p.R249T|c.746G>C|4,BUFFER|p.R249W|c.745A>T|36,BUFFER|p.R249W|c.745A>T|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249G|c.745A>G|7,BUFFER|p.R249W|c.745A>T|4,BUFFER|p.R249G|c.745A>G|4,BUFFER|p.R249W|c.745A>T|8,BUFFER|p.R249G|c.745A>G|30,BUFFER|p.R248W|c.742C>T|46,BUFFER|p.R248W|c.742C>T|92,BUFFER|p.R248W|c.742C>T|537,BUFFER|p.R155W|c.463C>T|92,BUFFER|p.R248G|c.742C>G|14,BUFFER|p.R248W|c.742C>T|31,BUFFER|p.R248W|c.742C>T|87,BUFFER|p.N247N|c.741C>T|10,BUFFER|p.N247I|c.740A>T|7,BUFFER|p.N154I|c.461A>T|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247T|c.740A>C|5,BUFFER|p.N247I|c.740A>T|5,BUFFER|p.N247S|c.740A>G|7,BUFFER|p.N247D|c.739A>G|5,BUFFER|p.N247Y|c.739A>T|3,BUFFER|p.M153I|c.459G>C|3,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>A|21,BUFFER|p.M246I|c.738G>C|3,BUFFER|p.M246I|c.738G>C|4,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246R|c.737T>G|12,BUFFER|p.M246R|c.737T>G|3,BUFFER|p.M246T|c.737T>C|8,BUFFER|p.M153R|c.458T>G|3,BUFFER|p.M246K|c.737T>A|7,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246L|c.736A>T|3,BUFFER|p.M153V|c.457A>G|7,BUFFER|p.M246V|c.736A>G|3,BUFFER|p.M246V|c.736A>G|35,BUFFER|p.M246V|c.736A>G|7,BUFFER|p.M246V|c.736A>G|4,BUFFER|p.G245G|c.735C>T|5,BUFFER|p.G245D|c.734G>A|10,BUFFER|p.G245V|c.734G>T|3,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245A|c.734G>C|8,BUFFER|p.G152D|c.455G>A|23,BUFFER|p.G152V|c.455G>T|15,BUFFER|p.G245V|c.734G>T|10,BUFFER|p.G245D|c.734G>A|23,BUFFER|p.G245D|c.734G>A|119,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245D|c.734G>A|7,BUFFER|p.G245V|c.734G>T|69,BUFFER|p.G245V|c.734G>T|15,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245R|c.733G>C|14,BUFFER|p.G245S|c.733G>A|22,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152S|c.454G>A|56,BUFFER|p.G245C|c.733G>T|4,BUFFER|p.G245S|c.733G>A|56,BUFFER|p.G245S|c.733G>A|340,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245C|c.733G>T|50,BUFFER|p.G245S|c.733G>A|39,BUFFER|p.G245C|c.733G>T|6,BUFFER|p.G245R|c.733G>C|3,BUFFER|p.G152C|c.454G>T|6,BUFFER|p.G152R|c.454G>C|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G244G|c.732C>T|3,BUFFER|p.G151G|c.453C>T|3,BUFFER|p.G244G|c.732C>T|8,BUFFER|p.G244G|c.732C>A|6	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTCCGGTTC	byFrequency|byCluster	5	BLCA
RPTOR	0	.	GRCh37	17	78882639	78882639	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2430G>T	p.Gln810His	p.Q810H	ENST00000306801	21/34	393	366	27	323	323	0	RPTOR,missense_variant,p.Gln652His,ENST00000544334,;RPTOR,missense_variant,p.Gln810His,ENST00000306801,;RPTOR,non_coding_transcript_exon_variant,,ENST00000575542,;RPTOR,non_coding_transcript_exon_variant,,ENST00000577161,;	T	ENSG00000141564	ENST00000306801	Transcript	missense_variant	2792	2430	810	Q/H	caG/caT	.	.	.	1	RPTOR	HGNC	30287	protein_coding	YES	CCDS11773.1	ENSP00000307272	RPTOR_HUMAN	Q6DKI0_HUMAN	UPI000007000F	.	tolerated(0.2)	benign(0.002)	21/34	.	hmmpanther:PTHR12848,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCAGATTTG	.	2	BLCA
GPS1	0	.	GRCh37	17	80014554	80014555	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1287dupC	p.Asn430GlnfsTer44	p.N430Qfs*44	ENST00000392358	11/13	43	35	8	33	33	0	GPS1,frameshift_variant,p.Asn430GlnfsTer44,ENST00000392358,;GPS1,frameshift_variant,p.Asn390GlnfsTer44,ENST00000578552,;GPS1,frameshift_variant,p.Asn374GlnfsTer44,ENST00000320548,;GPS1,frameshift_variant,p.Asn430GlnfsTer44,ENST00000355130,;GPS1,frameshift_variant,p.Asn27GlnfsTer163,ENST00000578168,;GPS1,frameshift_variant,p.Asn394GlnfsTer44,ENST00000306823,;DUS1L,downstream_gene_variant,,ENST00000538833,;DUS1L,downstream_gene_variant,,ENST00000542088,;GPS1,downstream_gene_variant,,ENST00000583641,;DUS1L,downstream_gene_variant,,ENST00000578907,;GPS1,downstream_gene_variant,,ENST00000583009,;DUS1L,downstream_gene_variant,,ENST00000306796,;RFNG,upstream_gene_variant,,ENST00000310496,;DUS1L,downstream_gene_variant,,ENST00000577574,;GPS1,downstream_gene_variant,,ENST00000581418,;GPS1,downstream_gene_variant,,ENST00000581578,;GPS1,downstream_gene_variant,,ENST00000580716,;DUS1L,downstream_gene_variant,,ENST00000578176,;GPS1,downstream_gene_variant,,ENST00000583961,;GPS1,downstream_gene_variant,,ENST00000582327,;DUS1L,downstream_gene_variant,,ENST00000354321,;GPS1,downstream_gene_variant,,ENST00000583885,;GPS1,downstream_gene_variant,,ENST00000585084,;DUS1L,downstream_gene_variant,,ENST00000582529,;GPS1,downstream_gene_variant,,ENST00000584229,;GPS1,downstream_gene_variant,,ENST00000583983,;GPS1,3_prime_UTR_variant,,ENST00000584460,;GPS1,non_coding_transcript_exon_variant,,ENST00000392357,;GPS1,non_coding_transcript_exon_variant,,ENST00000578279,;GPS1,non_coding_transcript_exon_variant,,ENST00000583486,;GPS1,downstream_gene_variant,,ENST00000580141,;RFNG,upstream_gene_variant,,ENST00000582478,;DUS1L,downstream_gene_variant,,ENST00000582407,;DUS1L,downstream_gene_variant,,ENST00000578846,;DUS1L,downstream_gene_variant,,ENST00000578264,;GPS1,downstream_gene_variant,,ENST00000580627,;GPS1,downstream_gene_variant,,ENST00000578642,;DUS1L,downstream_gene_variant,,ENST00000584871,;DUS1L,downstream_gene_variant,,ENST00000579854,;DUS1L,downstream_gene_variant,,ENST00000580731,;DUS1L,downstream_gene_variant,,ENST00000578428,;GPS1,downstream_gene_variant,,ENST00000580723,;GPS1,downstream_gene_variant,,ENST00000578392,;	C	ENSG00000169727	ENST00000392358	Transcript	frameshift_variant	1635-1636	1286-1287	429	F/FX	ttc/ttCc	.	.	.	1	GPS1	HGNC	4549	protein_coding	YES	CCDS11800.1	ENSP00000376167	CSN1_HUMAN	J3QS88_HUMAN,J3QL53_HUMAN,J3KTB0_HUMAN,J3KSA5_HUMAN,C9JFE4_HUMAN,A8K070_HUMAN	UPI0000231C2E	.	.	.	11/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14145:SF2,hmmpanther:PTHR14145,Gene3D:1.10.10.10,Pfam_domain:PF01399,SMART_domains:SM00088,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	AGCCTTCAATA	.	2	BLCA
FN3K	0	.	GRCh37	17	80708415	80708415	+	Silent	SNP	C	C	T	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.714C>T	p.%3D	p.F238F	ENST00000300784	6/6	331	232	99	289	289	0	FN3K,synonymous_variant,p.%3D,ENST00000300784,;TBCD,upstream_gene_variant,,ENST00000539345,;TBCD,upstream_gene_variant,,ENST00000397466,;TBCD,upstream_gene_variant,,ENST00000355528,;RP11-388C12.8,downstream_gene_variant,,ENST00000572594,;FN3K,downstream_gene_variant,,ENST00000570734,;	T	ENSG00000167363	ENST00000300784	Transcript	synonymous_variant	776	714	238	F	ttC/ttT	COSM986171	.	.	1	FN3K	HGNC	24822	protein_coding	YES	CCDS11818.1	ENSP00000300784	FN3K_HUMAN	.	UPI000000D9F6	.	.	.	6/6	.	Superfamily_domains:SSF56112,PIRSF_domain:PIRSF006221,Gene3D:3.90.1200.10,Pfam_domain:PF03881,hmmpanther:PTHR12149,hmmpanther:PTHR12149:SF7	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTATGG	.	5	BLCA
LAMA3	0	.	GRCh37	18	21529864	21529864	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9487G>A	p.Glu3163Lys	p.E3163K	ENST00000313654	71/75	164	122	41	159	159	0	LAMA3,missense_variant,p.Glu1498Lys,ENST00000587184,;LAMA3,missense_variant,p.Glu3163Lys,ENST00000313654,;LAMA3,missense_variant,p.Glu4Lys,ENST00000588004,;LAMA3,missense_variant,p.Glu1554Lys,ENST00000269217,;LAMA3,missense_variant,p.Glu3107Lys,ENST00000399516,;LAMA3,downstream_gene_variant,,ENST00000590104,;LAMA3,non_coding_transcript_exon_variant,,ENST00000588770,;	A	ENSG00000053747	ENST00000313654	Transcript	missense_variant	9728	9487	3163	E/K	Gaa/Aaa	.	.	.	1	LAMA3	HGNC	6483	protein_coding	YES	CCDS42419.1	ENSP00000324532	LAMA3_HUMAN	B0YJ32_HUMAN	UPI00001C1222	.	.	benign(0.001)	71/75	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF259,Gene3D:2.60.120.200,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGAAGAA	.	5	BLCA
JUNB	0	.	GRCh37	19	12902990	12902990	+	Silent	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.405C>T	p.%3D	p.F135F	ENST00000302754	1/1	11	7	4	10	10	0	JUNB,synonymous_variant,p.%3D,ENST00000302754,;PRDX2,downstream_gene_variant,,ENST00000301522,;PRDX2,downstream_gene_variant,,ENST00000334482,;MIR5684,downstream_gene_variant,,ENST00000585074,;CTD-2659N19.10,upstream_gene_variant,,ENST00000585496,;HOOK2,intron_variant,,ENST00000589765,;HOOK2,intron_variant,,ENST00000593143,;PRDX2,downstream_gene_variant,,ENST00000466174,;	T	ENSG00000171223	ENST00000302754	Transcript	synonymous_variant	681	405	135	F	ttC/ttT	.	.	.	1	JUNB	HGNC	6205	protein_coding	YES	CCDS12280.1	ENSP00000303315	JUNB_HUMAN	Q5U079_HUMAN	UPI000012DACF	.	.	.	1/1	.	hmmpanther:PTHR11462,hmmpanther:PTHR11462:SF37,Pfam_domain:PF03957	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCTTCGCCGA	.	2	BLCA
DNAJB1	0	.	GRCh37	19	14629193	14629193	+	5'UTR	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-32G>A	.	.	ENST00000254322	1/3	22	14	8	24	24	0	DNAJB1,5_prime_UTR_variant,,ENST00000254322,;DNAJB1,intron_variant,,ENST00000594099,;DNAJB1,intron_variant,,ENST00000598692,;DNAJB1,intron_variant,,ENST00000596853,;DNAJB1,intron_variant,,ENST00000596075,;DNAJB1,intron_variant,,ENST00000396969,;DNAJB1,intron_variant,,ENST00000601533,;DNAJB1,intron_variant,,ENST00000595992,;DNAJB1,upstream_gene_variant,,ENST00000598235,;DNAJB1,upstream_gene_variant,,ENST00000595139,;TECR,intron_variant,,ENST00000600076,;	T	ENSG00000132002	ENST00000254322	Transcript	5_prime_UTR_variant	40	.	.	.	.	.	.	.	-1	DNAJB1	HGNC	5270	protein_coding	YES	CCDS12312.1	ENSP00000254322	DNJB1_HUMAN	Q6FHS4_HUMAN,M0R1D6_HUMAN,M0R128_HUMAN,M0R080_HUMAN,M0QZD0_HUMAN,M0QYT3_HUMAN,B4DX52_HUMAN	UPI0000000C3A	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCTGTCGCCGT	.	2	BLCA
OR7A10	0	.	GRCh37	19	14952164	14952164	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.526C>T	p.His176Tyr	p.H176Y	ENST00000248058	1/1	104	63	40	145	145	0	OR7A10,missense_variant,p.His176Tyr,ENST00000248058,;	A	ENSG00000127515	ENST00000248058	Transcript	missense_variant	526	526	176	H/Y	Cat/Tat	.	.	.	-1	OR7A10	HGNC	8356	protein_coding	YES	CCDS32936.1	ENSP00000248058	OR7AA_HUMAN	.	UPI0000130B4B	.	deleterious_low_confidence(0)	probably_damaging(0.966)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF263,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATGAGGGA	.	5	BLCA
BRD4	0	.	GRCh37	19	15354223	15354223	+	Missense_Mutation	SNP	C	C	T	rs758977685	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2657G>A	p.Arg886Gln	p.R886Q	ENST00000263377	14/20	27	15	11	19	19	0	BRD4,missense_variant,p.Arg886Gln,ENST00000263377,;BRD4,downstream_gene_variant,,ENST00000371835,;BRD4,downstream_gene_variant,,ENST00000594066,;	T	ENSG00000141867	ENST00000263377	Transcript	missense_variant	2879	2657	886	R/Q	cGg/cAg	rs758977685	.	.	-1	BRD4	HGNC	13575	protein_coding	YES	CCDS12328.1	ENSP00000263377	BRD4_HUMAN	Q96HN0_HUMAN,M0R0H4_HUMAN,M0QZD9_HUMAN	UPI0000126ACE	.	.	benign(0.238)	14/20	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF143,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGCCGGGCG	byFrequency	5	BLCA
ZNF208	0	.	GRCh37	19	22154573	22154573	+	Missense_Mutation	SNP	T	T	A	rs752031490	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3263A>T	p.Glu1088Val	p.E1088V	ENST00000397126	4/4	104	68	36	175	175	0	ZNF208,missense_variant,p.Glu1088Val,ENST00000397126,;ZNF208,intron_variant,,ENST00000601773,;ZNF208,intron_variant,,ENST00000599916,;	A	ENSG00000160321	ENST00000397126	Transcript	missense_variant	3412	3263	1088	E/V	gAa/gTa	rs752031490	.	.	-1	ZNF208	HGNC	12999	protein_coding	YES	CCDS54240.1	ENSP00000380315	ZN208_HUMAN	.	UPI0001B23C28	.	tolerated(0.19)	probably_damaging(0.942)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF103,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTTCACAT	.	5	BLCA
ZNF77	0	.	GRCh37	19	2934747	2934747	+	Silent	SNP	A	A	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378T>G	p.%3D	p.T126T	ENST00000314531	4/4	120	75	44	183	183	0	ZNF77,synonymous_variant,p.%3D,ENST00000314531,;ZNF77,downstream_gene_variant,,ENST00000588050,;	C	ENSG00000175691	ENST00000314531	Transcript	synonymous_variant	471	378	126	T	acT/acG	.	.	.	-1	ZNF77	HGNC	13150	protein_coding	YES	CCDS12099.1	ENSP00000319053	ZNF77_HUMAN	.	UPI0000160564	.	.	.	4/4	.	hmmpanther:PTHR24381:SF51,hmmpanther:PTHR24381,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCGCAGTCTG	.	5	BLCA
KIAA0355	0	.	GRCh37	19	34843663	34843663	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3016A>C	p.Ser1006Arg	p.S1006R	ENST00000299505	14/14	47	33	14	53	53	0	KIAA0355,missense_variant,p.Ser1006Arg,ENST00000299505,;KIAA0355,synonymous_variant,p.%3D,ENST00000588338,;AC010504.2,intron_variant,,ENST00000591311,;KIAA0355,non_coding_transcript_exon_variant,,ENST00000588974,;	C	ENSG00000166398	ENST00000299505	Transcript	missense_variant	3889	3016	1006	S/R	Agc/Cgc	.	.	.	1	KIAA0355	HGNC	29016	protein_coding	YES	CCDS12436.1	ENSP00000299505	K0355_HUMAN	U3KPV0_HUMAN,K7EPA0_HUMAN	UPI000013E5AD	.	deleterious_low_confidence(0)	probably_damaging(0.975)	14/14	.	hmmpanther:PTHR15703,hmmpanther:PTHR15703:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGCAGCCAG	.	2	BLCA
KMT2B	0	.	GRCh37	19	36210956	36210956	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.707A>T	p.Gln236Leu	p.Q236L	ENST00000222270	3/37	21	16	5	18	18	0	KMT2B,missense_variant,p.Gln236Leu,ENST00000222270,;KMT2B,missense_variant,p.Gln236Leu,ENST00000341701,;KMT2B,missense_variant,p.Gln236Leu,ENST00000420124,;ZBTB32,downstream_gene_variant,,ENST00000392197,;ZBTB32,downstream_gene_variant,,ENST00000262630,;ZBTB32,downstream_gene_variant,,ENST00000426659,;KMT2B,non_coding_transcript_exon_variant,,ENST00000606995,;KMT2B,non_coding_transcript_exon_variant,,ENST00000607650,;ZBTB32,downstream_gene_variant,,ENST00000481182,;	T	ENSG00000272333	ENST00000222270	Transcript	missense_variant	707	707	236	Q/L	cAa/cTa	.	.	.	1	KMT2B	Uniprot_gn	15840	protein_coding	YES	CCDS46055.1	ENSP00000222270	KMT2B_HUMAN	.	UPI00001376B5	.	.	unknown(0)	3/37	.	hmmpanther:PTHR22884:SF280,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGCAAGCAG	.	5	BLCA
SUPT5H	0	.	GRCh37	19	39963695	39963695	+	Silent	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2199T>C	p.%3D	p.R733R	ENST00000599117	24/31	72	60	12	82	82	0	SUPT5H,synonymous_variant,p.%3D,ENST00000359191,;SUPT5H,synonymous_variant,p.%3D,ENST00000432763,;SUPT5H,synonymous_variant,p.%3D,ENST00000598725,;SUPT5H,synonymous_variant,p.%3D,ENST00000402194,;SUPT5H,synonymous_variant,p.%3D,ENST00000599117,;SUPT5H,non_coding_transcript_exon_variant,,ENST00000599335,;SUPT5H,upstream_gene_variant,,ENST00000600818,;SUPT5H,downstream_gene_variant,,ENST00000596208,;SUPT5H,downstream_gene_variant,,ENST00000598117,;	C	ENSG00000196235	ENST00000599117	Transcript	synonymous_variant	2566	2199	733	R	cgT/cgC	.	.	.	1	SUPT5H	HGNC	11469	protein_coding	YES	CCDS12536.1	ENSP00000470252	SPT5H_HUMAN	M0R2M5_HUMAN,M0R105_HUMAN,B4E0Q4_HUMAN,B4DZJ7_HUMAN	UPI000006D81A	.	.	.	24/31	.	hmmpanther:PTHR11125,Pfam_domain:PF00467,PIRSF_domain:PIRSF036945	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCGTGTGGA	.	4	BLCA
SPTBN4	0	.	GRCh37	19	41062014	41062014	+	Silent	SNP	T	T	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5109T>G	p.%3D	p.S1703S	ENST00000352632	25/36	26	16	10	35	35	0	SPTBN4,synonymous_variant,p.%3D,ENST00000338932,;SPTBN4,synonymous_variant,p.%3D,ENST00000392023,;SPTBN4,synonymous_variant,p.%3D,ENST00000352632,;SPTBN4,synonymous_variant,p.%3D,ENST00000598249,;SPTBN4,synonymous_variant,p.%3D,ENST00000595535,;SPTBN4,synonymous_variant,p.%3D,ENST00000392025,;SPTBN4,3_prime_UTR_variant,,ENST00000597389,;SPTBN4,downstream_gene_variant,,ENST00000596900,;	G	ENSG00000160460	ENST00000352632	Transcript	synonymous_variant	5195	5109	1703	S	tcT/tcG	.	.	.	1	SPTBN4	HGNC	14896	protein_coding	YES	CCDS12559.1	ENSP00000263373	SPTN4_HUMAN	.	UPI0000135DBB	.	.	.	25/36	.	hmmpanther:PTHR11915:SF232,hmmpanther:PTHR11915,Gene3D:1.20.58.60,Pfam_domain:PF00435,PIRSF_domain:PIRSF002297,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTCTCAGGT	.	5	BLCA
POU2F2	0	.	GRCh37	19	42598045	42598045	+	Silent	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1134C>G	p.%3D	p.V378V	ENST00000526816	12/14	149	101	47	155	155	0	POU2F2,missense_variant,p.His42Asp,ENST00000533548,;POU2F2,synonymous_variant,p.%3D,ENST00000560398,;POU2F2,synonymous_variant,p.%3D,ENST00000526816,;POU2F2,synonymous_variant,p.%3D,ENST00000598842,;POU2F2,synonymous_variant,p.%3D,ENST00000533720,;POU2F2,synonymous_variant,p.%3D,ENST00000389341,;POU2F2,synonymous_variant,p.%3D,ENST00000560804,;POU2F2,synonymous_variant,p.%3D,ENST00000342301,;POU2F2,synonymous_variant,p.%3D,ENST00000529952,;POU2F2,synonymous_variant,p.%3D,ENST00000529067,;POU2F2,synonymous_variant,p.%3D,ENST00000560558,;POU2F2,downstream_gene_variant,,ENST00000528894,;POU2F2,downstream_gene_variant,,ENST00000526831,;POU2F2,splice_region_variant,,ENST00000534559,;	C	ENSG00000028277	ENST00000526816	Transcript	synonymous_variant	1150	1134	378	V	gtC/gtG	.	.	.	-1	POU2F2	HGNC	9213	protein_coding	YES	CCDS56095.1	ENSP00000431603	PO2F2_HUMAN	Q9UMJ4_HUMAN,Q9UMI6_HUMAN	UPI0000186851	.	.	.	12/14	.	hmmpanther:PTHR11636,hmmpanther:PTHR11636:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTGACCTG	.	5	BLCA
PSG9	0	.	GRCh37	19	43757762	43757762	+	Nonstop_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280G>C	p.Ter427SerextTer7	p.*427Sext*7	ENST00000270077	6/6	54	27	27	77	77	0	PSG9,stop_lost,p.Ter334SerextTer7,ENST00000443718,;PSG9,stop_lost,p.Ter334SerextTer7,ENST00000593948,;PSG9,stop_lost,p.Ter241SerextTer7,ENST00000291752,;PSG9,stop_lost,p.Ter427SerextTer7,ENST00000270077,;PSG9,intron_variant,,ENST00000418820,;PSG9,downstream_gene_variant,,ENST00000596730,;PSG9,downstream_gene_variant,,ENST00000244293,;CEACAMP10,upstream_gene_variant,,ENST00000489959,;PSG9,intron_variant,,ENST00000595404,;	G	ENSG00000183668	ENST00000270077	Transcript	stop_lost	1377	1280	427	*/S	tGa/tCa	.	.	.	-1	PSG9	HGNC	9526	protein_coding	YES	CCDS12618.1	ENSP00000270077	PSG9_HUMAN	Q9UMH8_HUMAN,Q15461_HUMAN,Q12810_HUMAN	UPI00001327A5	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGTCATGAC	.	5	BLCA
ERCC1	0	.	GRCh37	19	45912907	45912907	+	3'Flank	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000013807	.	14	9	5	19	19	0	ERCC1,3_prime_UTR_variant,,ENST00000591636,;ERCC1,3_prime_UTR_variant,,ENST00000590701,;ERCC1,3_prime_UTR_variant,,ENST00000300853,;ERCC1,3_prime_UTR_variant,,ENST00000423698,;CD3EAP,3_prime_UTR_variant,,ENST00000309424,;CD3EAP,3_prime_UTR_variant,,ENST00000589804,;ERCC1,3_prime_UTR_variant,,ENST00000340192,;ERCC1,downstream_gene_variant,,ENST00000589381,;PPP1R13L,upstream_gene_variant,,ENST00000593226,;ERCC1,downstream_gene_variant,,ENST00000589165,;ERCC1,downstream_gene_variant,,ENST00000013807,;PPP1R13L,upstream_gene_variant,,ENST00000418234,;PPP1R13L,upstream_gene_variant,,ENST00000360957,;CD3EAP,downstream_gene_variant,,ENST00000592852,;ERCC1,downstream_gene_variant,,ENST00000592083,;PPP1R13L,upstream_gene_variant,,ENST00000592134,;CD3EAP,downstream_gene_variant,,ENST00000590794,;ERCC1,downstream_gene_variant,,ENST00000592444,;ERCC1,non_coding_transcript_exon_variant,,ENST00000588738,;ERCC1,downstream_gene_variant,,ENST00000592410,;PPP1R13L,upstream_gene_variant,,ENST00000585905,;ERCC1,downstream_gene_variant,,ENST00000587888,;	A	ENSG00000012061	ENST00000013807	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	3785	-1	ERCC1	HGNC	3433	protein_coding	YES	CCDS12663.1	ENSP00000013807	ERCC1_HUMAN	Q8WWH8_HUMAN,K7ER89_HUMAN,K7EP14_HUMAN,K7EK97_HUMAN	UPI000019C835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTGGGGGT	.	5	BLCA
CCDC9	0	.	GRCh37	19	47769969	47769969	+	Silent	SNP	C	C	T	rs758135209	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.822C>T	p.%3D	p.I274I	ENST00000221922	8/12	16	7	9	26	26	0	CCDC9,synonymous_variant,p.%3D,ENST00000221922,;CCDC9,non_coding_transcript_exon_variant,,ENST00000600117,;	T	ENSG00000105321	ENST00000221922	Transcript	synonymous_variant	1044	822	274	I	atC/atT	rs758135209	.	.	1	CCDC9	HGNC	24560	protein_coding	YES	CCDS12698.1	ENSP00000221922	CCDC9_HUMAN	M0R2W0_HUMAN,M0QZR0_HUMAN,M0QYB4_HUMAN	UPI0000073E41	.	.	.	8/12	.	hmmpanther:PTHR15635:SF11,hmmpanther:PTHR15635,Pfam_domain:PF15266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATCGACCA	byFrequency	5	BLCA
TSKS	0	.	GRCh37	19	50245163	50245163	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1476G>T	p.Gln492His	p.Q492H	ENST00000246801	9/11	157	96	60	169	169	0	TSKS,missense_variant,p.Gln492His,ENST00000246801,;TSKS,missense_variant,p.Gln292His,ENST00000358830,;TSKS,upstream_gene_variant,,ENST00000599325,;	A	ENSG00000126467	ENST00000246801	Transcript	missense_variant	1559	1476	492	Q/H	caG/caT	.	.	.	-1	TSKS	HGNC	30719	protein_coding	YES	CCDS12780.1	ENSP00000246801	TSKS_HUMAN	.	UPI000007272E	.	deleterious(0.01)	probably_damaging(0.997)	9/11	.	hmmpanther:PTHR14351:SF1,hmmpanther:PTHR14351,Pfam_domain:PF15358	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCTGACA	.	5	BLCA
ZNF665	0	.	GRCh37	19	53669214	53669214	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529C>T	p.His177Tyr	p.H177Y	ENST00000396424	4/4	111	72	39	154	154	0	ZNF665,missense_variant,p.His177Tyr,ENST00000396424,;ZNF665,missense_variant,p.His112Tyr,ENST00000600412,;CTD-2245F17.2,downstream_gene_variant,,ENST00000600257,;ZNF665,upstream_gene_variant,,ENST00000596564,;	A	ENSG00000197497	ENST00000396424	Transcript	missense_variant	619	529	177	H/Y	Cat/Tat	.	.	.	-1	ZNF665	HGNC	25885	protein_coding	YES	CCDS46169.1	ENSP00000379702	ZN665_HUMAN	.	UPI000059D78D	.	tolerated(0.13)	benign(0.245)	4/4	.	hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF132,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAATGTTTTC	.	5	BLCA
PEG3	0	.	GRCh37	19	57325345	57325345	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4465G>C	p.Asp1489His	p.D1489H	ENST00000326441	10/10	165	105	60	210	210	0	PEG3,missense_variant,p.Asp1489His,ENST00000423103,;PEG3,missense_variant,p.Asp1489His,ENST00000599577,;PEG3,missense_variant,p.Asp1489His,ENST00000599534,;PEG3,missense_variant,p.Asp1365His,ENST00000598410,;PEG3,missense_variant,p.Asp1489His,ENST00000326441,;PEG3,missense_variant,p.Asp1363His,ENST00000593695,;ZIM2,intron_variant,,ENST00000221722,;ZIM2,intron_variant,,ENST00000601070,;ZIM2,intron_variant,,ENST00000593711,;ZIM2,intron_variant,,ENST00000599935,;ZIM2,intron_variant,,ENST00000391708,;PEG3,downstream_gene_variant,,ENST00000600833,;PEG3,upstream_gene_variant,,ENST00000599565,;ZIM2,intron_variant,,ENST00000597281,;ZIM2,intron_variant,,ENST00000595671,;	G	ENSG00000198300	ENST00000326441	Transcript	missense_variant	4829	4465	1489	D/H	Gac/Cac	.	.	.	-1	PEG3	HGNC	8826	protein_coding	YES	CCDS12948.1	ENSP00000326581	PEG3_HUMAN	M0QXG1_HUMAN	UPI000006D36D	.	deleterious(0.04)	probably_damaging(0.994)	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGTCTTCAA	.	5	BLCA
MUC16	0	.	GRCh37	19	9076877	9076877	+	Silent	SNP	C	C	T	rs145641827	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10569G>A	p.%3D	p.A3523A	ENST00000397910	3/84	192	114	78	259	259	0	MUC16,synonymous_variant,p.%3D,ENST00000397910,;	T	ENSG00000181143	ENST00000397910	Transcript	synonymous_variant	10773	10569	3523	A	gcG/gcA	rs145641827	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	3/84	.	.	T:0.0004	T:0.0008	T:0	.	T:0	T:0	T:0.001	T:0.0009	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTCCGCAGG	byFrequency|byCluster|by1000G	5	BLCA
SLC35A3	0	.	GRCh37	1	100459156	100459156	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46C>G	p.Gln16Glu	p.Q16E	ENST00000370155	2/8	86	19	66	122	122	0	SLC35A3,missense_variant,p.Gln16Glu,ENST00000532693,;SLC35A3,missense_variant,p.Gln16Glu,ENST00000427993,;SLC35A3,missense_variant,p.Gln16Glu,ENST00000465289,;SLC35A3,missense_variant,p.Gln16Glu,ENST00000422078,;SLC35A3,missense_variant,p.Gln58Glu,ENST00000370153,;SLC35A3,missense_variant,p.Gln16Glu,ENST00000370155,;SLC35A3,upstream_gene_variant,,ENST00000370156,;SLC35A3,missense_variant,p.Gln16Glu,ENST00000533028,;	G	ENSG00000117620	ENST00000370155	Transcript	missense_variant	438	46	16	Q/E	Cag/Gag	.	.	.	1	SLC35A3	HGNC	11023	protein_coding	YES	CCDS762.1	ENSP00000359174	S35A3_HUMAN	E9PPQ9_HUMAN,C9JW63_HUMAN	UPI0000137AF2	.	deleterious(0)	probably_damaging(0.983)	2/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10231:SF36,hmmpanther:PTHR10231,PIRSF_domain:PIRSF005799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCAGACT	.	5	BLCA
MASP2	0	.	GRCh37	1	11087114	11087114	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1889G>C	p.Arg630Thr	p.R630T	ENST00000400897	11/11	242	61	180	247	247	0	MASP2,missense_variant,p.Arg630Thr,ENST00000400897,;TARDBP,downstream_gene_variant,,ENST00000439080,;TARDBP,downstream_gene_variant,,ENST00000240185,;TARDBP,downstream_gene_variant,,ENST00000315091,;RP4-635E18.8,upstream_gene_variant,,ENST00000607145,;TARDBP,downstream_gene_variant,,ENST00000480464,;TARDBP,downstream_gene_variant,,ENST00000477447,;TARDBP,downstream_gene_variant,,ENST00000496840,;TARDBP,downstream_gene_variant,,ENST00000473869,;	G	ENSG00000009724	ENST00000400897	Transcript	missense_variant	1905	1889	630	R/T	aGa/aCa	.	.	.	-1	MASP2	HGNC	6902	protein_coding	YES	CCDS123.1	ENSP00000383690	MASP2_HUMAN	.	UPI0000161FB9	.	tolerated(0.57)	benign(0.01)	11/11	.	Prints_domain:PR00722,Superfamily_domains:SSF50494,PIRSF_domain:PIRSF001155,SMART_domains:SM00020,Gene3D:2.40.10.10,Pfam_domain:PF00089,PROSITE_patterns:PS00135,hmmpanther:PTHR24255,hmmpanther:PTHR24255:SF10,PROSITE_profiles:PS50240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCTGCAG	.	5	BLCA
PDE4DIP	0	.	GRCh37	1	144879302	144879302	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4148C>G	p.Ser1383Ter	p.S1383*	ENST00000369356	27/44	197	168	29	195	195	0	PDE4DIP,stop_gained,p.Ser1383Ter,ENST00000369354,;PDE4DIP,stop_gained,p.Ser1519Ter,ENST00000369359,;PDE4DIP,stop_gained,p.Ser1519Ter,ENST00000530740,;PDE4DIP,stop_gained,p.Ser1339Ter,ENST00000313382,;PDE4DIP,stop_gained,p.Ser1383Ter,ENST00000369356,;PDE4DIP,downstream_gene_variant,,ENST00000530592,;AL138796.1,downstream_gene_variant,,ENST00000582173,;RP4-791M13.5,downstream_gene_variant,,ENST00000531288,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524974,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,intron_variant,,ENST00000525886,;PDE4DIP,upstream_gene_variant,,ENST00000479369,;	C	ENSG00000178104	ENST00000369356	Transcript	stop_gained	4439	4148	1383	S/*	tCa/tGa	COSM3788577,COSM3788578,COSM3788576	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	.	.	27/44	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13895:SF2,hmmpanther:PTHR13895	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAACTGAGAGG	.	4	BLCA
POLR3GL	0	.	GRCh37	1	145457080	145457080	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481G>A	p.Val161Ile	p.V161I	ENST00000369314	7/8	78	27	51	69	69	0	POLR3GL,missense_variant,p.Val138Ile,ENST00000369313,;POLR3GL,missense_variant,p.Val161Ile,ENST00000369314,;POLR3GL,non_coding_transcript_exon_variant,,ENST00000446572,;POLR3GL,non_coding_transcript_exon_variant,,ENST00000471706,;	T	ENSG00000121851	ENST00000369314	Transcript	missense_variant	588	481	161	V/I	Gta/Ata	.	.	.	-1	POLR3GL	HGNC	28466	protein_coding	YES	CCDS914.1	ENSP00000358320	RPC7L_HUMAN	.	UPI000006F290	.	tolerated(0.19)	benign(0.067)	7/8	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15367:SF4,hmmpanther:PTHR15367,Pfam_domain:PF11705	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTACTTCTT	.	5	BLCA
NUP210L	0	.	GRCh37	1	154108407	154108407	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892G>C	p.Asp298His	p.D298H	ENST00000368559	7/40	82	70	12	63	63	0	NUP210L,missense_variant,p.Asp298His,ENST00000368559,;NUP210L,missense_variant,p.Asp298His,ENST00000271854,;	G	ENSG00000143552	ENST00000368559	Transcript	missense_variant	964	892	298	D/H	Gac/Cac	.	.	.	-1	NUP210L	HGNC	29915	protein_coding	YES	CCDS41399.1	ENSP00000357547	P210L_HUMAN	.	UPI000023724F	.	deleterious(0)	possibly_damaging(0.569)	7/40	.	hmmpanther:PTHR23019:SF1,hmmpanther:PTHR23019	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGGTCTTGCA	.	4	BLCA
MTX1	0	.	GRCh37	1	155182338	155182338	+	Missense_Mutation	SNP	G	G	A	rs752758999	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934G>A	p.Glu312Lys	p.E312K	ENST00000368376	5/8	57	23	34	36	36	0	MTX1,missense_variant,p.Glu312Lys,ENST00000368376,;MTX1,missense_variant,p.Glu163Lys,ENST00000609421,;MTX1,missense_variant,p.Glu281Lys,ENST00000316721,;THBS3,upstream_gene_variant,,ENST00000368378,;THBS3,upstream_gene_variant,,ENST00000541990,;THBS3,upstream_gene_variant,,ENST00000457183,;RP11-263K19.6,intron_variant,,ENST00000455788,;MTX1,non_coding_transcript_exon_variant,,ENST00000495589,;THBS3,upstream_gene_variant,,ENST00000486260,;GBAP1,downstream_gene_variant,,ENST00000368374,;GBAP1,downstream_gene_variant,,ENST00000486869,;GBAP1,downstream_gene_variant,,ENST00000462587,;MTX1,3_prime_UTR_variant,,ENST00000424959,;MTX1,non_coding_transcript_exon_variant,,ENST00000481771,;MTX1,non_coding_transcript_exon_variant,,ENST00000495492,;GBAP1,downstream_gene_variant,,ENST00000486197,;THBS3,upstream_gene_variant,,ENST00000428962,;GBAP1,downstream_gene_variant,,ENST00000473223,;GBAP1,downstream_gene_variant,,ENST00000463838,;GBAP1,downstream_gene_variant,,ENST00000459805,;GBAP1,downstream_gene_variant,,ENST00000313929,;GBAP1,downstream_gene_variant,,ENST00000566701,;	A	ENSG00000173171	ENST00000368376	Transcript	missense_variant	1040	934	312	E/K	Gag/Aag	rs752758999,COSM4142785	.	.	1	MTX1	HGNC	7504	protein_coding	YES	CCDS1100.1	ENSP00000357360	MTX1_HUMAN	.	UPI0000225CC9	.	tolerated(0.61)	benign(0.362)	5/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12289:SF34,hmmpanther:PTHR12289,Gene3D:1.20.1050.10,Pfam_domain:PF11801,Superfamily_domains:SSF47616	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGACGAGGAA	byFrequency	5	BLCA
MTX1	0	.	GRCh37	1	155184410	155184410	+	3'Flank	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000368376	.	42	19	23	37	37	0	MTX1,downstream_gene_variant,,ENST00000368376,;MTX1,downstream_gene_variant,,ENST00000609421,;MTX1,downstream_gene_variant,,ENST00000316721,;RP11-263K19.6,upstream_gene_variant,,ENST00000455788,;GBAP1,non_coding_transcript_exon_variant,,ENST00000368374,;GBAP1,non_coding_transcript_exon_variant,,ENST00000486869,;MTX1,downstream_gene_variant,,ENST00000495589,;GBAP1,downstream_gene_variant,,ENST00000462587,;GBAP1,non_coding_transcript_exon_variant,,ENST00000486197,;GBAP1,non_coding_transcript_exon_variant,,ENST00000473223,;GBAP1,non_coding_transcript_exon_variant,,ENST00000459805,;MTX1,downstream_gene_variant,,ENST00000481771,;MTX1,downstream_gene_variant,,ENST00000424959,;GBAP1,downstream_gene_variant,,ENST00000463838,;MTX1,downstream_gene_variant,,ENST00000495492,;GBAP1,non_coding_transcript_exon_variant,,ENST00000313929,;GBAP1,non_coding_transcript_exon_variant,,ENST00000566701,;	A	ENSG00000173171	ENST00000368376	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	796	1	MTX1	HGNC	7504	protein_coding	YES	CCDS1100.1	ENSP00000357360	MTX1_HUMAN	.	UPI0000225CC9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTGCGTCC	.	5	BLCA
ARHGEF2	0	.	GRCh37	1	155935540	155935540	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.352G>T	p.Glu118Ter	p.E118*	ENST00000361247	5/22	69	58	11	59	59	0	ARHGEF2,stop_gained,p.Glu118Ter,ENST00000361247,;ARHGEF2,stop_gained,p.Glu119Ter,ENST00000368315,;ARHGEF2,stop_gained,p.Glu91Ter,ENST00000497907,;ARHGEF2,stop_gained,p.Glu91Ter,ENST00000368316,;ARHGEF2,stop_gained,p.Glu118Ter,ENST00000313667,;ARHGEF2,stop_gained,p.Glu91Ter,ENST00000471589,;ARHGEF2,stop_gained,p.Glu91Ter,ENST00000313695,;ARHGEF2,stop_gained,p.Glu110Ter,ENST00000609707,;ARHGEF2,stop_gained,p.Glu163Ter,ENST00000462460,;ARHGEF2,downstream_gene_variant,,ENST00000495070,;ARHGEF2,intron_variant,,ENST00000477754,;ARHGEF2,intron_variant,,ENST00000476273,;ARHGEF2,upstream_gene_variant,,ENST00000474428,;ARHGEF2,intron_variant,,ENST00000470874,;ARHGEF2,upstream_gene_variant,,ENST00000608543,;ARHGEF2,downstream_gene_variant,,ENST00000465079,;ARHGEF2,upstream_gene_variant,,ENST00000470975,;ARHGEF2,downstream_gene_variant,,ENST00000487755,;	A	ENSG00000116584	ENST00000361247	Transcript	stop_gained	452	352	118	E/*	Gag/Tag	.	.	.	-1	ARHGEF2	HGNC	682	protein_coding	YES	CCDS53376.1	ENSP00000354837	ARHG2_HUMAN	.	UPI000045892C	.	.	.	5/22	.	hmmpanther:PTHR22825,hmmpanther:PTHR22825:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCTCCCGGA	.	4	BLCA
C1orf110	0	.	GRCh37	1	162829299	162829299	+	Silent	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138G>A	p.%3D	p.L46L	ENST00000367910	2/4	29	12	16	33	33	0	C1orf110,synonymous_variant,p.%3D,ENST00000367911,;C1orf110,synonymous_variant,p.%3D,ENST00000367912,;C1orf110,synonymous_variant,p.%3D,ENST00000367910,;C1orf110,upstream_gene_variant,,ENST00000524691,;C1orf110,upstream_gene_variant,,ENST00000524710,;	T	ENSG00000185860	ENST00000367910	Transcript	synonymous_variant	259	138	46	L	ctG/ctA	.	.	.	-1	C1orf110	HGNC	28736	protein_coding	YES	CCDS44269.1	ENSP00000356886	CA110_HUMAN	.	UPI0000198631	.	.	.	2/4	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTCAGCAA	.	5	BLCA
PADI2	0	.	GRCh37	1	17413113	17413113	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737C>T	p.Ala246Val	p.A246V	ENST00000375486	7/16	125	31	94	166	166	0	PADI2,missense_variant,p.Ala246Val,ENST00000375486,;PADI2,missense_variant,p.Arg165Trp,ENST00000444885,;PADI2,missense_variant,p.Ala246Val,ENST00000375481,;PADI2,upstream_gene_variant,,ENST00000466151,;	A	ENSG00000117115	ENST00000375486	Transcript	missense_variant	801	737	246	A/V	gCg/gTg	.	.	.	-1	PADI2	HGNC	18341	protein_coding	YES	CCDS177.1	ENSP00000364635	PADI2_HUMAN	Q96DA7_HUMAN	UPI00001314AF	.	tolerated(0.29)	possibly_damaging(0.621)	7/16	.	hmmpanther:PTHR10837:SF1,hmmpanther:PTHR10837,Pfam_domain:PF08527,PIRSF_domain:PIRSF001247,Superfamily_domains:0044952	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCCGCGGAG	.	5	BLCA
DHX9	0	.	GRCh37	1	182850427	182850427	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2653G>C	p.Ala885Pro	p.A885P	ENST00000367549	23/28	177	137	40	145	145	0	DHX9,missense_variant,p.Ala885Pro,ENST00000367549,;DHX9,non_coding_transcript_exon_variant,,ENST00000473076,;DHX9,non_coding_transcript_exon_variant,,ENST00000485081,;DHX9,non_coding_transcript_exon_variant,,ENST00000474446,;DHX9,downstream_gene_variant,,ENST00000490519,;	C	ENSG00000135829	ENST00000367549	Transcript	missense_variant	2763	2653	885	A/P	Gct/Cct	.	.	.	1	DHX9	HGNC	2750	protein_coding	YES	CCDS41444.1	ENSP00000356520	DHX9_HUMAN	.	UPI00001AEF15	.	deleterious(0)	probably_damaging(0.992)	23/28	.	hmmpanther:PTHR18934:SF84,hmmpanther:PTHR18934,Pfam_domain:PF04408,SMART_domains:SM00847,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCTGCTGCT	.	5	BLCA
TATDN3	0	.	GRCh37	1	212965252	212965252	+	5'UTR	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-12C>T	.	.	ENST00000532324	1/10	55	26	28	50	50	0	TATDN3,5_prime_UTR_variant,,ENST00000530441,;TATDN3,5_prime_UTR_variant,,ENST00000366973,;TATDN3,5_prime_UTR_variant,,ENST00000531963,;TATDN3,5_prime_UTR_variant,,ENST00000526997,;TATDN3,5_prime_UTR_variant,,ENST00000526641,;TATDN3,5_prime_UTR_variant,,ENST00000366974,;TATDN3,5_prime_UTR_variant,,ENST00000532324,;TATDN3,upstream_gene_variant,,ENST00000530399,;NSL1,upstream_gene_variant,,ENST00000366978,;NSL1,upstream_gene_variant,,ENST00000366977,;NSL1,upstream_gene_variant,,ENST00000422588,;NSL1,upstream_gene_variant,,ENST00000366975,;NSL1,upstream_gene_variant,,ENST00000366976,;TATDN3,upstream_gene_variant,,ENST00000488246,;NSL1,upstream_gene_variant,,ENST00000473995,;TATDN3,upstream_gene_variant,,ENST00000497768,;NSL1,upstream_gene_variant,,ENST00000487995,;TATDN3,upstream_gene_variant,,ENST00000530392,;TATDN3,upstream_gene_variant,,ENST00000525569,;TATDN3,upstream_gene_variant,,ENST00000525574,;TATDN3,upstream_gene_variant,,ENST00000533650,;TATDN3,upstream_gene_variant,,ENST00000532433,;	T	ENSG00000203705	ENST00000532324	Transcript	5_prime_UTR_variant	83	.	.	.	.	.	.	.	1	TATDN3	HGNC	27010	protein_coding	YES	CCDS53475.1	ENSP00000431376	TATD3_HUMAN	.	UPI0000205E43	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGCCGCCGG	.	5	BLCA
PTPN14	0	.	GRCh37	1	214558118	214558119	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1079dupA	p.His360GlnfsTer4	p.H360Qfs*4	ENST00000366956	13/19	265	134	131	132	132	0	PTPN14,frameshift_variant,p.His360GlnfsTer4,ENST00000366956,;PTPN14,3_prime_UTR_variant,,ENST00000543945,;	T	ENSG00000152104	ENST00000366956	Transcript	frameshift_variant	1274-1275	1079-1080	360	H/QX	cat/caAt	.	.	.	-1	PTPN14	HGNC	9647	protein_coding	YES	CCDS1514.1	ENSP00000355923	PTN14_HUMAN	.	UPI000013DCA6	.	.	.	13/19	.	PIRSF_domain:PIRSF000934,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF77	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCCCATGAAA	.	3	BLCA
C1orf115	0	.	GRCh37	1	220870053	220870053	+	Missense_Mutation	SNP	G	G	A	rs746388879	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.409G>A	p.Val137Met	p.V137M	ENST00000294889	2/2	168	137	31	125	125	0	C1orf115,missense_variant,p.Val137Met,ENST00000294889,;	A	ENSG00000162817	ENST00000294889	Transcript	missense_variant	967	409	137	V/M	Gtg/Atg	rs746388879	.	.	1	C1orf115	HGNC	25873	protein_coding	YES	CCDS1524.1	ENSP00000294889	CA115_HUMAN	.	UPI0000073CC0	.	tolerated(0.12)	possibly_damaging(0.791)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14680,hmmpanther:PTHR14680:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGCGTGGTA	byFrequency	5	BLCA
GNG4	0	.	GRCh37	1	235747078	235747078	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.61G>A	p.Glu21Lys	p.E21K	ENST00000391854	3/4	206	91	115	218	218	0	GNG4,missense_variant,p.Glu21Lys,ENST00000366598,;GNG4,missense_variant,p.Glu21Lys,ENST00000366597,;GNG4,missense_variant,p.Glu21Lys,ENST00000391854,;GNG4,missense_variant,p.Glu21Lys,ENST00000450593,;GNG4,non_coding_transcript_exon_variant,,ENST00000484517,;	T	ENSG00000168243	ENST00000391854	Transcript	missense_variant	515	61	21	E/K	Gag/Aag	COSM1296020	.	.	-1	GNG4	HGNC	4407	protein_coding	YES	CCDS1607.1	ENSP00000375727	GBG4_HUMAN	B1APZ0_HUMAN	UPI000012B22C	.	deleterious(0.05)	probably_damaging(0.93)	3/4	.	PROSITE_profiles:PS50058,hmmpanther:PTHR13809,hmmpanther:PTHR13809:SF21,Gene3D:4.10.260.10,Pfam_domain:PF00631,SMART_domains:SM00224,Superfamily_domains:SSF48670,Prints_domain:PR00321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCCACAG	.	5	BLCA
RYR2	0	.	GRCh37	1	237947294	237947294	+	Missense_Mutation	SNP	C	C	G	rs764339831	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12282C>G	p.Ile4094Met	p.I4094M	ENST00000366574	90/105	45	8	37	46	46	0	RYR2,missense_variant,p.Ile4078Met,ENST00000542537,;RYR2,missense_variant,p.Ile4094Met,ENST00000366574,;RYR2,missense_variant,p.Ile4100Met,ENST00000360064,;RYR2,non_coding_transcript_exon_variant,,ENST00000609119,;	G	ENSG00000198626	ENST00000366574	Transcript	missense_variant	12599	12282	4094	I/M	atC/atG	rs764339831,COSM80480,COSM4030029	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	probably_damaging(0.999)	90/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.I4094I|c.12282C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATCGGCTT	.	5	BLCA
TRIM62	0	.	GRCh37	1	33631078	33631078	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498G>C	p.Glu166Asp	p.E166D	ENST00000291416	2/5	11	3	8	11	11	0	TRIM62,missense_variant,p.Glu166Asp,ENST00000291416,;TRIM62,missense_variant,p.Glu45Asp,ENST00000543586,;TRIM62,non_coding_transcript_exon_variant,,ENST00000485148,;	G	ENSG00000116525	ENST00000291416	Transcript	missense_variant	732	498	166	E/D	gaG/gaC	.	.	.	-1	TRIM62	HGNC	25574	protein_coding	YES	CCDS376.1	ENSP00000291416	TRI62_HUMAN	.	UPI000004E050	.	tolerated(0.08)	benign(0.002)	2/5	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24103:SF30,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGGTCTCCGC	.	3	BLCA
TCEANC2	0	.	GRCh37	1	54562207	54562207	+	3'UTR	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61C>G	.	.	ENST00000234827	5/5	12	2	10	15	15	0	TCEANC2,3_prime_UTR_variant,,ENST00000234827,;TCEANC2,downstream_gene_variant,,ENST00000371331,;TCEANC2,non_coding_transcript_exon_variant,,ENST00000498272,;AL353898.3,downstream_gene_variant,,ENST00000422908,;	G	ENSG00000116205	ENST00000234827	Transcript	3_prime_UTR_variant	888	.	.	.	.	.	.	.	1	TCEANC2	HGNC	26494	protein_coding	YES	CCDS587.1	ENSP00000234827	TEAN2_HUMAN	.	UPI0000073C98	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCGTTCAAAGA	.	3	BLCA
C1orf146	0	.	GRCh37	1	92711252	92711252	+	3'UTR	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*21C>G	.	.	ENST00000370375	6/6	30	12	18	63	63	0	C1orf146,3_prime_UTR_variant,,ENST00000370373,;C1orf146,3_prime_UTR_variant,,ENST00000370375,;GLMN,downstream_gene_variant,,ENST00000495852,;GLMN,downstream_gene_variant,,ENST00000534881,;GLMN,downstream_gene_variant,,ENST00000370360,;GLMN,downstream_gene_variant,,ENST00000495106,;GLMN,downstream_gene_variant,,ENST00000471465,;	G	ENSG00000203910	ENST00000370375	Transcript	3_prime_UTR_variant	712	.	.	.	.	.	.	.	1	C1orf146	HGNC	24032	protein_coding	YES	CCDS30772.1	ENSP00000359401	CA146_HUMAN	.	UPI0000185FBA	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTTCTCGAA	.	5	BLCA
PCSK2	0	.	GRCh37	20	17462778	17462778	+	3'UTR	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*63G>A	.	.	ENST00000262545	12/12	22	13	9	21	21	0	PCSK2,3_prime_UTR_variant,,ENST00000262545,;PCSK2,3_prime_UTR_variant,,ENST00000377899,;PCSK2,3_prime_UTR_variant,,ENST00000536609,;PCSK2,non_coding_transcript_exon_variant,,ENST00000459871,;DYNLT3P1,upstream_gene_variant,,ENST00000378574,;	A	ENSG00000125851	ENST00000262545	Transcript	3_prime_UTR_variant	2295	.	.	.	.	.	.	.	1	PCSK2	HGNC	8744	protein_coding	YES	CCDS13125.1	ENSP00000262545	NEC2_HUMAN	Q9UM69_HUMAN	UPI0000000C6E	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCACGTTTCA	.	2	BLCA
SYNDIG1	0	.	GRCh37	20	24565601	24565601	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.590G>C	p.Gly197Ala	p.G197A	ENST00000376862	3/4	220	118	102	167	167	0	SYNDIG1,missense_variant,p.Gly197Ala,ENST00000376862,;SYNDIG1,non_coding_transcript_exon_variant,,ENST00000482637,;	C	ENSG00000101463	ENST00000376862	Transcript	missense_variant	1223	590	197	G/A	gGc/gCc	.	.	.	1	SYNDIG1	HGNC	15885	protein_coding	YES	CCDS13164.1	ENSP00000366058	SYNG1_HUMAN	.	UPI00001285DC	.	deleterious(0)	probably_damaging(1)	3/4	.	Pfam_domain:PF04505,hmmpanther:PTHR14768,hmmpanther:PTHR14768:SF3,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGGGCATCG	.	5	BLCA
ABHD12	0	.	GRCh37	20	25281436	25281436	+	Intron	SNP	C	C	T	rs200450758	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1157+1419G>A	.	.	ENST00000376542	.	41	21	19	33	33	0	ABHD12,3_prime_UTR_variant,,ENST00000339157,;ABHD12,intron_variant,,ENST00000376542,;PYGB,downstream_gene_variant,,ENST00000216962,;PYGB,downstream_gene_variant,,ENST00000428458,;ABHD12,downstream_gene_variant,,ENST00000576316,;PYGB,downstream_gene_variant,,ENST00000471359,;ABHD12,3_prime_UTR_variant,,ENST00000465694,;	T	ENSG00000100997	ENST00000376542	Transcript	intron_variant	.	.	.	.	.	rs200450758	.	.	-1	ABHD12	HGNC	15868	protein_coding	YES	CCDS13172.1	ENSP00000365725	ABD12_HUMAN	I3L440_HUMAN,I3L294_HUMAN	UPI000006F03A	.	.	.	.	12/12	.	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAAACGGGAG	byFrequency|byCluster|by1000G	5	BLCA
C20orf27	0	.	GRCh37	20	3736222	3736222	+	Missense_Mutation	SNP	C	C	A	rs753235419	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>T	p.Glu90Asp	p.E90D	ENST00000217195	4/6	85	46	38	53	53	0	C20orf27,missense_variant,p.Glu65Asp,ENST00000379772,;C20orf27,missense_variant,p.Glu65Asp,ENST00000399672,;C20orf27,missense_variant,p.Glu59Asp,ENST00000399683,;C20orf27,missense_variant,p.Glu90Asp,ENST00000217195,;HSPA12B,downstream_gene_variant,,ENST00000542646,;HSPA12B,downstream_gene_variant,,ENST00000254963,;HSPA12B,downstream_gene_variant,,ENST00000399701,;	A	ENSG00000101220	ENST00000217195	Transcript	missense_variant	422	270	90	E/D	gaG/gaT	rs753235419	.	.	-1	C20orf27	HGNC	15873	protein_coding	YES	CCDS33436.1	ENSP00000217195	CT027_HUMAN	.	UPI0000470A46	.	deleterious(0.01)	probably_damaging(0.972)	4/6	.	hmmpanther:PTHR13287,Pfam_domain:PF15006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAATCTCATA	.	5	BLCA
JPH2	0	.	GRCh37	20	42815237	42815237	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109G>A	p.Glu37Lys	p.E37K	ENST00000372980	1/6	88	41	47	76	76	0	JPH2,missense_variant,p.Glu37Lys,ENST00000342272,;JPH2,missense_variant,p.Glu37Lys,ENST00000372980,;	T	ENSG00000149596	ENST00000372980	Transcript	missense_variant	982	109	37	E/K	Gaa/Aaa	.	.	.	-1	JPH2	HGNC	14202	protein_coding	YES	CCDS13325.1	ENSP00000362071	JPH2_HUMAN	Q86VZ3_HUMAN,B4E3T9_HUMAN	UPI000012DAC2	.	deleterious(0)	probably_damaging(0.981)	1/6	.	hmmpanther:PTHR23085:SF5,hmmpanther:PTHR23085,Gene3D:1h3iA01,PIRSF_domain:PIRSF037387,Superfamily_domains:0038399	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTATTCGCCCT	.	5	BLCA
HRH3	0	.	GRCh37	20	60791856	60791857	+	In_Frame_Ins	INS	-	-	GCT	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541_543dupAGC	p.Ser182dup	p.S182dup	ENST00000340177	3/3	114	60	54	50	50	0	HRH3,inframe_insertion,p.Ser182dup,ENST00000317393,;HRH3,inframe_insertion,p.Ser182dup,ENST00000340177,;	GCT	ENSG00000101180	ENST00000340177	Transcript	inframe_insertion	828-829	543-544	181-182	-/S	-/AGC	.	.	.	-1	HRH3	HGNC	5184	protein_coding	YES	CCDS13493.1	ENSP00000342560	HRH3_HUMAN	.	UPI000012C6ED	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249:SF242,hmmpanther:PTHR24249,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GATGGAGCTGC	.	3	BLCA
DIDO1	0	.	GRCh37	20	61510942	61510942	+	Silent	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6366C>T	p.%3D	p.N2122N	ENST00000266070	16/16	272	155	117	149	149	0	DIDO1,synonymous_variant,p.%3D,ENST00000266070,;DIDO1,synonymous_variant,p.%3D,ENST00000395343,;	A	ENSG00000101191	ENST00000266070	Transcript	synonymous_variant	6692	6366	2122	N	aaC/aaT	.	.	.	-1	DIDO1	HGNC	2680	protein_coding	YES	CCDS33506.1	ENSP00000266070	DIDO1_HUMAN	.	UPI0000206380	.	.	.	16/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14914:SF7,hmmpanther:PTHR14914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTCCAGTTTCG	.	4	BLCA
IGHV1OR21-1	0	.	GRCh37	21	10863024	10863024	+	Missense_Mutation	SNP	C	C	A	rs773626529	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.320C>A	p.Ser107Tyr	p.S107Y	ENST00000559480	2/2	783	710	72	659	659	0	IGHV1OR21-1,missense_variant,p.Ser107Tyr,ENST00000559480,;IGHV1OR21-1,missense_variant,p.Ser107Tyr,ENST00000302092,;	A	ENSG00000169861	ENST00000559480	Transcript	missense_variant	320	320	107	S/Y	tCt/tAt	rs773626529	.	.	1	IGHV1OR21-1	HGNC	38040	IG_V_gene	YES	.	ENSP00000453358	IV1U1_HUMAN	.	UPI000041AB26	.	deleterious(0.03)	benign(0.131)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23266:SF73,hmmpanther:PTHR23266,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGATCTGAGG	.	3	BLCA
TIAM1	0	.	GRCh37	21	32638764	32638764	+	Missense_Mutation	SNP	G	G	C	rs771021898	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525C>G	p.Ile175Met	p.I175M	ENST00000286827	5/29	179	131	47	143	143	0	TIAM1,missense_variant,p.Ile175Met,ENST00000286827,;TIAM1,missense_variant,p.Ile175Met,ENST00000541036,;TIAM1,missense_variant,p.Ile175Met,ENST00000455508,;TIAM1,intron_variant,,ENST00000469412,;	C	ENSG00000156299	ENST00000286827	Transcript	missense_variant	997	525	175	I/M	atC/atG	rs771021898	.	.	-1	TIAM1	HGNC	11805	protein_coding	YES	CCDS13609.1	ENSP00000286827	TIAM1_HUMAN	C9JMB5_HUMAN	UPI000013DE6F	.	tolerated_low_confidence(1)	benign(0.014)	5/29	.	hmmpanther:PTHR22826:SF88,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCAGATGTC	byFrequency	5	BLCA
C21orf33	0	.	GRCh37	21	45563196	45563196	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631G>C	p.Glu211Gln	p.E211Q	ENST00000291577	6/7	38	30	8	49	49	0	C21orf33,missense_variant,p.Glu211Gln,ENST00000291577,;C21orf33,missense_variant,p.Glu200Gln,ENST00000449622,;C21orf33,missense_variant,p.Glu180Gln,ENST00000348499,;C21orf33,missense_variant,p.Glu127Gln,ENST00000419699,;C21orf33,downstream_gene_variant,,ENST00000389690,;C21orf33,downstream_gene_variant,,ENST00000427803,;C21orf33,downstream_gene_variant,,ENST00000493883,;C21orf33,non_coding_transcript_exon_variant,,ENST00000495007,;C21orf33,downstream_gene_variant,,ENST00000480786,;	C	ENSG00000160221	ENST00000291577	Transcript	missense_variant	724	631	211	E/Q	Gag/Cag	.	.	.	1	C21orf33	HGNC	1273	protein_coding	YES	CCDS33580.1	ENSP00000291577	ES1_HUMAN	.	UPI0000169D5E	.	tolerated(0.5)	benign(0.057)	6/7	.	hmmpanther:PTHR10224:SF7,hmmpanther:PTHR10224,Pfam_domain:PF01965,Gene3D:3.40.50.880,Superfamily_domains:SSF52317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCAGAGGCC	.	5	BLCA
ITGB2	0	.	GRCh37	21	46306331	46306331	+	Silent	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2262C>T	p.%3D	p.F754F	ENST00000397850	17/17	171	126	44	164	164	0	ITGB2,synonymous_variant,p.%3D,ENST00000397850,;ITGB2,synonymous_variant,p.%3D,ENST00000355153,;ITGB2,synonymous_variant,p.%3D,ENST00000397852,;ITGB2,synonymous_variant,p.%3D,ENST00000397857,;ITGB2,synonymous_variant,p.%3D,ENST00000302347,;ITGB2,synonymous_variant,p.%3D,ENST00000397854,;ITGB2,3_prime_UTR_variant,,ENST00000523323,;ITGB2,non_coding_transcript_exon_variant,,ENST00000479202,;ITGB2,non_coding_transcript_exon_variant,,ENST00000498666,;ITGB2,non_coding_transcript_exon_variant,,ENST00000475170,;	A	ENSG00000160255	ENST00000397850	Transcript	synonymous_variant	2715	2262	754	F	ttC/ttT	.	.	.	-1	ITGB2	HGNC	6155	protein_coding	YES	CCDS13716.1	ENSP00000380948	ITB2_HUMAN	Q96PT7_HUMAN,E7EVZ9_HUMAN,E5RK54_HUMAN,E5RK25_HUMAN,E5RIG7_HUMAN,E5RHT0_HUMAN,E5RHE6_HUMAN,E5RFI0_HUMAN	UPI000016A19B	.	.	.	17/17	.	Prints_domain:PR01186,PIRSF_domain:PIRSF002512,Gene3D:1.20.5.100,Pfam_domain:PF08725,hmmpanther:PTHR10082:SF15,hmmpanther:PTHR10082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTGAAAAG	.	5	BLCA
ATP6V1E1	0	.	GRCh37	22	18075303	18075303	+	3'UTR	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*137C>G	.	.	ENST00000253413	9/9	16	12	4	25	25	0	ATP6V1E1,3_prime_UTR_variant,,ENST00000399798,;ATP6V1E1,3_prime_UTR_variant,,ENST00000253413,;ATP6V1E1,3_prime_UTR_variant,,ENST00000399796,;SLC25A18,downstream_gene_variant,,ENST00000399813,;ATP6V1E1,downstream_gene_variant,,ENST00000413576,;SLC25A18,downstream_gene_variant,,ENST00000327451,;AC004019.13,upstream_gene_variant,,ENST00000443935,;ATP6V1E1,downstream_gene_variant,,ENST00000473248,;	C	ENSG00000131100	ENST00000253413	Transcript	3_prime_UTR_variant	1001	.	.	.	.	.	.	.	-1	ATP6V1E1	HGNC	857	protein_coding	YES	CCDS13745.1	ENSP00000253413	VATE1_HUMAN	Q53Y06_HUMAN	UPI0000000C60	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGACAGAGGGG	.	3	BLCA
CSF2RB	0	.	GRCh37	22	37322030	37322030	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202G>A	p.Asp68Asn	p.D68N	ENST00000403662	4/14	55	36	19	58	58	0	CSF2RB,missense_variant,p.Asp9Asn,ENST00000536485,;CSF2RB,missense_variant,p.Asp68Asn,ENST00000406230,;CSF2RB,missense_variant,p.Asp68Asn,ENST00000403662,;CSF2RB,missense_variant,p.Asp68Asn,ENST00000262825,;CSF2RB,splice_region_variant,,ENST00000421539,;	A	ENSG00000100368	ENST00000403662	Transcript	missense_variant	424	202	68	D/N	Gac/Aac	.	.	.	1	CSF2RB	HGNC	2436	protein_coding	YES	CCDS13936.1	ENSP00000384053	IL3RB_HUMAN	B0QY07_HUMAN	UPI0000128C9F	.	tolerated(0.38)	benign(0.001)	4/14	.	Superfamily_domains:SSF49265,PIRSF_domain:PIRSF001956,Gene3D:2.60.40.10,hmmpanther:PTHR23037,hmmpanther:PTHR23037:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGGGACCTC	.	5	BLCA
SH3BP1	0	.	GRCh37	22	38040915	38040915	+	Silent	SNP	G	G	C	rs758936930	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726G>C	p.%3D	p.L242L	ENST00000357436	9/18	35	18	17	41	41	0	SH3BP1,synonymous_variant,p.%3D,ENST00000336738,;SH3BP1,synonymous_variant,p.%3D,ENST00000599616,;SH3BP1,synonymous_variant,p.%3D,ENST00000442465,;SH3BP1,synonymous_variant,p.%3D,ENST00000357436,;Z83844.1,intron_variant,,ENST00000456099,;SH3BP1,non_coding_transcript_exon_variant,,ENST00000495174,;SH3BP1,synonymous_variant,p.%3D,ENST00000417536,;SH3BP1,3_prime_UTR_variant,,ENST00000451997,;SH3BP1,non_coding_transcript_exon_variant,,ENST00000459646,;SH3BP1,non_coding_transcript_exon_variant,,ENST00000469947,;SH3BP1,non_coding_transcript_exon_variant,,ENST00000471650,;SH3BP1,upstream_gene_variant,,ENST00000466097,;	C	ENSG00000100092	ENST00000357436	Transcript	synonymous_variant	1039	726	242	L	ctG/ctC	rs758936930	.	.	1	SH3BP1	HGNC	10824	protein_coding	YES	CCDS13952.2	ENSP00000350018	3BP1_HUMAN	F8WEQ3_HUMAN	UPI000004EE00	.	.	.	9/18	.	PROSITE_profiles:PS51021,hmmpanther:PTHR14130:SF12,hmmpanther:PTHR14130,Gene3D:1.20.1270.60,Pfam_domain:PF03114,SMART_domains:SM00721,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTGAGCTC	.	5	BLCA
PKDREJ	0	.	GRCh37	22	46652387	46652387	+	3'UTR	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71G>A	.	.	ENST00000253255	1/1	72	44	28	77	77	0	PKDREJ,3_prime_UTR_variant,,ENST00000253255,;	T	ENSG00000130943	ENST00000253255	Transcript	3_prime_UTR_variant	6833	.	.	.	.	.	.	.	-1	PKDREJ	HGNC	9015	protein_coding	YES	CCDS14073.1	ENSP00000253255	PKDRE_HUMAN	A6MW40_HUMAN	UPI0000031D01	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ACTCCCTAATC	.	4	BLCA
NEB	0	.	GRCh37	2	152380907	152380907	+	Missense_Mutation	SNP	C	C	T	rs369436489	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22397G>A	p.Arg7466His	p.R7466H	ENST00000397345	153/182	121	86	34	136	136	0	NEB,missense_variant,p.Arg7466His,ENST00000397345,;NEB,missense_variant,p.Arg7466His,ENST00000604864,;NEB,missense_variant,p.Arg5765His,ENST00000409198,;NEB,missense_variant,p.Arg5765His,ENST00000172853,;NEB,missense_variant,p.Arg7466His,ENST00000603639,;NEB,missense_variant,p.Arg7466His,ENST00000427231,;NEB,missense_variant,p.Arg2196His,ENST00000413693,;NEB,missense_variant,p.Arg89His,ENST00000434685,;NEB,upstream_gene_variant,,ENST00000483418,;	T	ENSG00000183091	ENST00000397345	Transcript	missense_variant	22600	22397	7466	R/H	cGc/cAc	rs369436489	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	probably_damaging(1)	153/182	.	PROSITE_profiles:PS51216,hmmpanther:PTHR11039:SF37,hmmpanther:PTHR11039,SMART_domains:SM00227	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTGCGGTGC	byFrequency|byCluster	5	BLCA
SSFA2	0	.	GRCh37	2	182785321	182785321	+	Intron	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3145-3C>T	.	.	ENST00000431877	.	68	53	14	58	58	0	SSFA2,splice_region_variant,,ENST00000409136,;SSFA2,splice_region_variant,,ENST00000431877,;SSFA2,splice_region_variant,,ENST00000320370,;SSFA2,intron_variant,,ENST00000409001,;SSFA2,intron_variant,,ENST00000428267,;SSFA2,upstream_gene_variant,,ENST00000451836,;SSFA2,splice_region_variant,,ENST00000467172,;SSFA2,downstream_gene_variant,,ENST00000491866,;SSFA2,splice_region_variant,,ENST00000416081,;SSFA2,splice_region_variant,,ENST00000491720,;SSFA2,splice_region_variant,,ENST00000440623,;SSFA2,intron_variant,,ENST00000454579,;	T	ENSG00000138434	ENST00000431877	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	SSFA2	HGNC	11319	protein_coding	YES	CCDS46467.1	ENSP00000388731	SSFA2_HUMAN	B3KXT1_HUMAN	UPI000019B17A	.	.	.	.	14/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE|VARSCANS	CTTTTCAGGGA	.	3	BLCA
HECW2	0	.	GRCh37	2	197080654	197080654	+	Silent	SNP	G	G	T	rs767670181	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4542C>A	p.%3D	p.L1514L	ENST00000260983	28/29	90	60	30	88	88	0	HECW2,synonymous_variant,p.%3D,ENST00000260983,;HECW2,synonymous_variant,p.%3D,ENST00000409111,;snoU13,upstream_gene_variant,,ENST00000459047,;	T	ENSG00000138411	ENST00000260983	Transcript	synonymous_variant	4725	4542	1514	L	ctC/ctA	rs767670181	.	.	-1	HECW2	HGNC	29853	protein_coding	YES	CCDS33354.1	ENSP00000260983	HECW2_HUMAN	C9JPI9_HUMAN,C9JHL2_HUMAN	UPI00001A75E8	.	.	.	28/29	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254:SF127,hmmpanther:PTHR11254,Pfam_domain:PF00632,SMART_domains:SM00119,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCGGAGTGA	byFrequency	5	BLCA
SUMO1	0	.	GRCh37	2	203075522	203075522	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173C>T	p.Pro58Leu	p.P58L	ENST00000392246	4/5	34	14	20	39	39	0	SUMO1,missense_variant,p.Pro58Leu,ENST00000392245,;SUMO1,missense_variant,p.Pro58Leu,ENST00000392246,;SUMO1,missense_variant,p.Pro19Leu,ENST00000409498,;SUMO1,missense_variant,p.Pro19Leu,ENST00000409205,;SUMO1,missense_variant,p.Pro58Leu,ENST00000409368,;SUMO1,missense_variant,p.Pro33Leu,ENST00000392244,;SUMO1,intron_variant,,ENST00000409712,;SUMO1,intron_variant,,ENST00000409181,;SUMO1,non_coding_transcript_exon_variant,,ENST00000469034,;SUMO1,3_prime_UTR_variant,,ENST00000409627,;	A	ENSG00000116030	ENST00000392246	Transcript	missense_variant	330	173	58	P/L	cCa/cTa	COSM3576399	.	.	-1	SUMO1	HGNC	12502	protein_coding	YES	CCDS2352.1	ENSP00000376077	SUMO1_HUMAN	B8ZZ67_HUMAN	UPI0000001227	.	deleterious(0)	benign(0.048)	4/5	.	PROSITE_profiles:PS50053,hmmpanther:PTHR10562,Pfam_domain:PF11976,Gene3D:3.10.20.90,SMART_domains:SM00213,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTGGAACA	.	5	BLCA
TMEM169	0	.	GRCh37	2	216965108	216965108	+	Missense_Mutation	SNP	G	G	A	rs748059072	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737G>A	p.Arg246Gln	p.R246Q	ENST00000454545	4/4	201	88	113	209	209	0	TMEM169,missense_variant,p.Arg246Gln,ENST00000406027,;TMEM169,missense_variant,p.Arg246Gln,ENST00000295658,;TMEM169,missense_variant,p.Arg246Gln,ENST00000437356,;TMEM169,missense_variant,p.Arg246Gln,ENST00000454545,;TMEM169,downstream_gene_variant,,ENST00000455479,;TMEM169,downstream_gene_variant,,ENST00000433112,;	A	ENSG00000163449	ENST00000454545	Transcript	missense_variant	1063	737	246	R/Q	cGg/cAg	rs748059072	.	.	1	TMEM169	HGNC	25130	protein_coding	YES	CCDS2401.1	ENSP00000412524	TM169_HUMAN	C9JZB1_HUMAN,C9J1P0_HUMAN	UPI0000070E77	.	tolerated(0.32)	benign(0.037)	4/4	.	hmmpanther:PTHR31777,hmmpanther:PTHR31777:SF0,Pfam_domain:PF15052	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCCGGGACA	byFrequency	5	BLCA
SERPINE2	0	.	GRCh37	2	224866633	224866633	+	Silent	SNP	G	G	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21C>T	p.%3D	p.S7S	ENST00000447280	2/9	110	92	18	89	89	0	SERPINE2,synonymous_variant,p.%3D,ENST00000447280,;SERPINE2,5_prime_UTR_variant,,ENST00000432738,;SERPINE2,5_prime_UTR_variant,,ENST00000423446,;SERPINE2,5_prime_UTR_variant,,ENST00000409304,;SERPINE2,5_prime_UTR_variant,,ENST00000454956,;SERPINE2,5_prime_UTR_variant,,ENST00000409840,;SERPINE2,5_prime_UTR_variant,,ENST00000258405,;SERPINE2,non_coding_transcript_exon_variant,,ENST00000489065,;	A	ENSG00000135919	ENST00000447280	Transcript	synonymous_variant	322	21	7	S	tcC/tcT	COSM3578267	.	.	-1	SERPINE2	HGNC	8951	protein_coding	YES	CCDS46525.1	ENSP00000415786	GDN_HUMAN	C9K031_HUMAN,C9JRK5_HUMAN,C9JN98_HUMAN,B4DMR3_HUMAN	UPI00017A7317	.	.	.	2/9	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCAAGGACGA	.	2	BLCA
BRE	0	.	GRCh37	2	28464251	28464251	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.842A>G	p.His281Arg	p.H281R	ENST00000344773	9/13	79	36	42	69	69	0	BRE,missense_variant,p.His281Arg,ENST00000361704,;BRE,missense_variant,p.His281Arg,ENST00000344773,;BRE,missense_variant,p.His281Arg,ENST00000379632,;BRE,missense_variant,p.His281Arg,ENST00000342045,;BRE,missense_variant,p.His281Arg,ENST00000379624,;	G	ENSG00000158019	ENST00000344773	Transcript	missense_variant	980	842	281	H/R	cAc/cGc	.	.	.	1	BRE	HGNC	1106	protein_coding	YES	CCDS1764.1	ENSP00000343412	BRE_HUMAN	C9J2G0_HUMAN	UPI0000072A9C	.	tolerated(0.67)	benign(0.013)	9/13	.	hmmpanther:PTHR15189:SF7,hmmpanther:PTHR15189,Pfam_domain:PF06113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTCACTTTG	.	5	BLCA
CCDC88A	0	.	GRCh37	2	55543247	55543247	+	Silent	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3747G>C	p.%3D	p.L1249L	ENST00000336838	22/33	18	11	7	16	16	0	CCDC88A,synonymous_variant,p.%3D,ENST00000413716,;CCDC88A,synonymous_variant,p.%3D,ENST00000412148,;CCDC88A,synonymous_variant,p.%3D,ENST00000436346,;CCDC88A,synonymous_variant,p.%3D,ENST00000456975,;CCDC88A,synonymous_variant,p.%3D,ENST00000263630,;CCDC88A,synonymous_variant,p.%3D,ENST00000336838,;CCDC88A,synonymous_variant,p.%3D,ENST00000426576,;AC012358.8,intron_variant,,ENST00000608103,;AC012358.8,intron_variant,,ENST00000600219,;AC012358.8,intron_variant,,ENST00000594078,;AC012358.8,intron_variant,,ENST00000599475,;AC012358.8,intron_variant,,ENST00000599352,;AC012358.8,downstream_gene_variant,,ENST00000366287,;CCDC88A,non_coding_transcript_exon_variant,,ENST00000474059,;CCDC88A,upstream_gene_variant,,ENST00000476903,;	G	ENSG00000115355	ENST00000336838	Transcript	synonymous_variant	4281	3747	1249	L	ctG/ctC	.	.	.	-1	CCDC88A	HGNC	25523	protein_coding	YES	CCDS46288.1	ENSP00000338728	GRDN_HUMAN	C9J225_HUMAN,B4DSN0_HUMAN	UPI00005B7220	.	.	.	22/33	.	hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATTCAGCCT	.	5	BLCA
BCL11A	0	.	GRCh37	2	60688033	60688033	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2014C>T	p.Pro672Ser	p.P672S	ENST00000335712	4/4	122	50	71	137	137	0	BCL11A,missense_variant,p.Pro638Ser,ENST00000538214,;BCL11A,missense_variant,p.Pro638Ser,ENST00000358510,;BCL11A,missense_variant,p.Pro672Ser,ENST00000356842,;BCL11A,missense_variant,p.Pro341Ser,ENST00000537768,;BCL11A,missense_variant,p.Pro672Ser,ENST00000335712,;BCL11A,intron_variant,,ENST00000359629,;BCL11A,non_coding_transcript_exon_variant,,ENST00000477659,;BCL11A,intron_variant,,ENST00000489516,;BCL11A,intron_variant,,ENST00000492272,;BCL11A,upstream_gene_variant,,ENST00000479026,;	A	ENSG00000119866	ENST00000335712	Transcript	missense_variant	2242	2014	672	P/S	Ccc/Tcc	.	.	.	-1	BCL11A	HGNC	13221	protein_coding	YES	CCDS1862.1	ENSP00000338774	BC11A_HUMAN	D6W5D9_HUMAN,Q53TS1_HUMAN,Q53TE8_HUMAN	UPI000013DC00	.	deleterious(0.05)	benign(0.403)	4/4	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGGGATCTT	.	5	BLCA
USP34	0	.	GRCh37	2	61528088	61528088	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4126G>A	p.Glu1376Lys	p.E1376K	ENST00000398571	29/80	130	101	29	115	115	0	USP34,missense_variant,p.Glu1376Lys,ENST00000398571,;USP34,splice_region_variant,,ENST00000472706,;	T	ENSG00000115464	ENST00000398571	Transcript	missense_variant	4203	4126	1376	E/K	Gag/Aag	.	.	.	-1	USP34	HGNC	20066	protein_coding	YES	CCDS42686.1	ENSP00000381577	UBP34_HUMAN	.	UPI0000410E09	.	tolerated(0.11)	benign(0.035)	29/80	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCACTAT	.	5	BLCA
VPS54	0	.	GRCh37	2	64160958	64160958	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1588A>G	p.Ile530Val	p.I530V	ENST00000272322	12/23	84	40	43	70	70	0	VPS54,missense_variant,p.Ile377Val,ENST00000354504,;VPS54,missense_variant,p.Ile530Val,ENST00000272322,;VPS54,missense_variant,p.Ile518Val,ENST00000409558,;	C	ENSG00000143952	ENST00000272322	Transcript	missense_variant	1743	1588	530	I/V	Ata/Gta	.	.	.	-1	VPS54	HGNC	18652	protein_coding	YES	CCDS33208.1	ENSP00000272322	VPS54_HUMAN	.	UPI0000053408	.	tolerated(0.84)	benign(0)	12/23	.	hmmpanther:PTHR12965:SF0,hmmpanther:PTHR12965	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTATAGGTG	.	5	BLCA
REG1A	0	.	GRCh37	2	79348720	79348720	+	Silent	SNP	C	C	A	rs753598455	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.97C>A	p.%3D	p.R33R	ENST00000233735	3/6	387	188	198	390	390	0	REG1A,synonymous_variant,p.%3D,ENST00000233735,;REG1A,non_coding_transcript_exon_variant,,ENST00000488524,;REG1A,non_coding_transcript_exon_variant,,ENST00000485184,;REG1A,non_coding_transcript_exon_variant,,ENST00000461579,;	A	ENSG00000115386	ENST00000233735	Transcript	synonymous_variant	200	97	33	R	Cgg/Agg	rs753598455,COSM722364	.	.	1	REG1A	HGNC	9951	protein_coding	YES	CCDS1964.1	ENSP00000233735	REG1A_HUMAN	Q2TBE1_HUMAN	UPI000012E72D	.	.	.	3/6	.	hmmpanther:PTHR22801,hmmpanther:PTHR22801:SF25,Gene3D:3.10.100.10,Superfamily_domains:SSF56436,Prints_domain:PR01504	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCCGGATC	byFrequency	5	BLCA
SNRNP200	0	.	GRCh37	2	96944282	96944282	+	Intron	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5488+3G>A	.	.	ENST00000323853	.	148	67	81	145	145	0	SNRNP200,splice_region_variant,,ENST00000323853,;SNRNP200,intron_variant,,ENST00000349783,;SNRNP200,splice_region_variant,,ENST00000429650,;SNRNP200,splice_region_variant,,ENST00000497539,;SNRNP200,downstream_gene_variant,,ENST00000484372,;SNRNP200,downstream_gene_variant,,ENST00000493271,;SNRNP200,upstream_gene_variant,,ENST00000480835,;SNRNP200,downstream_gene_variant,,ENST00000480242,;	T	ENSG00000144028	ENST00000323853	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SNRNP200	HGNC	30859	protein_coding	YES	CCDS2020.1	ENSP00000317123	U520_HUMAN	Q9P172_HUMAN,Q7L5W4_HUMAN,Q5ZF01_HUMAN,A4FU77_HUMAN,A2RRQ7_HUMAN	UPI0000207C53	.	.	.	.	38/44	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCACCAA	.	4	BLCA
WDR52	0	.	GRCh37	3	113128116	113128116	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.727C>G	p.Leu243Val	p.L243V	ENST00000393845	7/35	124	92	31	103	103	0	WDR52,missense_variant,p.Leu243Val,ENST00000393845,;WDR52,missense_variant,p.Leu243Val,ENST00000295868,;WDR52-AS1,intron_variant,,ENST00000473329,;WDR52-AS1,intron_variant,,ENST00000498480,;WDR52,3_prime_UTR_variant,,ENST00000488854,;WDR52,intron_variant,,ENST00000489938,;	C	ENSG00000206530	ENST00000393845	Transcript	missense_variant	794	727	243	L/V	Ctg/Gtg	.	.	.	-1	WDR52	HGNC	25631	protein_coding	YES	CCDS54624.1	ENSP00000377428	WDR52_HUMAN	C9K0A4_HUMAN	UPI0000367198	.	deleterious(0)	probably_damaging(0.92)	7/35	.	hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF18,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCAGCAAGT	.	5	BLCA
TIMP4	0	.	GRCh37	3	12200210	12200210	+	Missense_Mutation	SNP	G	G	A	rs201048395	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131C>T	p.Ser44Leu	p.S44L	ENST00000287814	1/5	80	26	54	122	122	0	TIMP4,missense_variant,p.Ser44Leu,ENST00000287814,;SYN2,non_coding_transcript_exon_variant,,ENST00000447752,;SYN2,intron_variant,,ENST00000432424,;SYN2,intron_variant,,ENST00000426379,;SYN2,upstream_gene_variant,,ENST00000425297,;SYN2,intron_variant,,ENST00000439861,;	A	ENSG00000157150	ENST00000287814	Transcript	missense_variant	642	131	44	S/L	tCg/tTg	rs201048395	.	.	-1	TIMP4	HGNC	11823	protein_coding	YES	CCDS2608.1	ENSP00000287814	TIMP4_HUMAN	.	UPI0000136FA3	.	deleterious(0.02)	probably_damaging(0.994)	1/5	.	PROSITE_profiles:PS50189,hmmpanther:PTHR11844:SF8,hmmpanther:PTHR11844,Pfam_domain:PF00965,Gene3D:2.40.50.120,SMART_domains:SM00206,Superfamily_domains:SSF50242	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCCGAGTGG	byCluster	5	BLCA
EPHB1	0	.	GRCh37	3	134911634	134911634	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2099T>C	p.Met700Thr	p.M700T	ENST00000398015	11/16	71	49	22	62	62	0	EPHB1,missense_variant,p.Met261Thr,ENST00000493838,;EPHB1,missense_variant,p.Met700Thr,ENST00000398015,;	C	ENSG00000154928	ENST00000398015	Transcript	missense_variant	2469	2099	700	M/T	aTg/aCg	.	.	.	1	EPHB1	HGNC	3392	protein_coding	YES	CCDS46921.1	ENSP00000381097	EPHB1_HUMAN	C9K090_HUMAN,C9JB88_HUMAN,C9J6S4_HUMAN,C9J466_HUMAN,B3KTB2_HUMAN	UPI000012A07E	.	deleterious(0)	probably_damaging(0.991)	11/16	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF173,Pfam_domain:PF07714,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000666,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCATGGAGA	.	5	BLCA
C3orf58	0	.	GRCh37	3	143691549	143691549	+	Silent	SNP	C	C	A	rs768693814	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375C>A	p.%3D	p.I125I	ENST00000315691	1/3	25	20	4	18	18	0	C3orf58,synonymous_variant,p.%3D,ENST00000315691,;C3orf58,upstream_gene_variant,,ENST00000492452,;C3orf58,upstream_gene_variant,,ENST00000495414,;C3orf58,upstream_gene_variant,,ENST00000441925,;C3orf58,non_coding_transcript_exon_variant,,ENST00000493396,;C3orf58,non_coding_transcript_exon_variant,,ENST00000491798,;C3orf58,upstream_gene_variant,,ENST00000483808,;	A	ENSG00000181744	ENST00000315691	Transcript	synonymous_variant	910	375	125	I	atC/atA	rs768693814	.	.	1	C3orf58	HGNC	28490	protein_coding	YES	CCDS3130.1	ENSP00000320081	DIA1_HUMAN	E7ET39_HUMAN,B3KT85_HUMAN	UPI000006EE5C	.	.	.	1/3	.	hmmpanther:PTHR32073,hmmpanther:PTHR32073:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATCTGCAA	.	4	BLCA
SLC7A14	0	.	GRCh37	3	170198437	170198437	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1634G>C	p.Arg545Thr	p.R545T	ENST00000231706	7/8	148	117	31	114	114	0	SLC7A14,missense_variant,p.Arg545Thr,ENST00000231706,;CLDN11,intron_variant,,ENST00000486975,;CLDN11,intron_variant,,ENST00000451576,;CLDN11,intron_variant,,ENST00000480067,;CLDN11,intron_variant,,ENST00000471373,;	G	ENSG00000013293	ENST00000231706	Transcript	missense_variant	1950	1634	545	R/T	aGa/aCa	.	.	.	-1	SLC7A14	HGNC	29326	protein_coding	YES	CCDS33892.1	ENSP00000231706	S7A14_HUMAN	.	UPI0000051F6B	.	deleterious(0.03)	possibly_damaging(0.694)	7/8	.	hmmpanther:PTHR11785,hmmpanther:PTHR11785:SF250	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R547W|c.1639C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATTCTCATG	.	5	BLCA
KCNMB3	0	.	GRCh37	3	178968995	178968995	+	5'UTR	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-104G>C	.	.	ENST00000314235	1/4	21	10	11	18	18	0	KCNMB3,5_prime_UTR_variant,,ENST00000392685,;KCNMB3,5_prime_UTR_variant,,ENST00000314235,;KCNMB3,intron_variant,,ENST00000349697,;KCNMB3,intron_variant,,ENST00000485523,;KCNMB3,intron_variant,,ENST00000497599,;KCNMB3,intron_variant,,ENST00000392686,;	G	ENSG00000171121	ENST00000314235	Transcript	5_prime_UTR_variant	409	.	.	.	.	.	.	.	-1	KCNMB3	HGNC	6287	protein_coding	YES	CCDS3226.1	ENSP00000319370	KCMB3_HUMAN	.	UPI000013EA98	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTAATCAATAA	.	5	BLCA
C3orf70	0	.	GRCh37	3	184870595	184870595	+	Missense_Mutation	SNP	G	G	A	rs757159118	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>T	p.Ser6Leu	p.S6L	ENST00000335012	1/2	37	24	13	20	20	0	C3orf70,missense_variant,p.Ser6Leu,ENST00000335012,;	A	ENSG00000187068	ENST00000335012	Transcript	missense_variant	208	17	6	S/L	tCg/tTg	rs757159118,COSM420098,COSM3774780	.	.	-1	C3orf70	HGNC	33731	protein_coding	YES	CCDS33900.1	ENSP00000334974	CC070_HUMAN	.	UPI000016128B	.	deleterious_low_confidence(0.02)	benign(0.001)	1/2	.	hmmpanther:PTHR31785:SF2,hmmpanther:PTHR31785	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S6L|c.17C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGGCGAGGCC	.	5	BLCA
TGFBR2	0	.	GRCh37	3	30715657	30715658	+	Frame_Shift_Ins	INS	-	-	TT	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1391_1392dupTT	p.Glu465LeufsTer19	p.E465Lfs*19	ENST00000359013	6/8	86	49	37	95	95	0	TGFBR2,frameshift_variant,p.Glu440LeufsTer19,ENST00000295754,;TGFBR2,frameshift_variant,p.Glu465LeufsTer19,ENST00000359013,;	TT	ENSG00000163513	ENST00000359013	Transcript	frameshift_variant	1673-1674	1390-1391	464	V/VX	gtt/gTTtt	.	.	.	1	TGFBR2	HGNC	11773	protein_coding	YES	CCDS33727.1	ENSP00000351905	TGFR2_HUMAN	D2JYI1_HUMAN	UPI000053030E	.	.	.	6/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255,hmmpanther:PTHR23255:SF55,Gene3D:1.10.510.10,Pfam_domain:PF00069,PIRSF_domain:PIRSF037393,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGAATGTTGAG	.	3	BLCA
ZNF445	0	.	GRCh37	3	44489378	44489378	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1785A>T	p.Lys595Asn	p.K595N	ENST00000425708	7/7	86	23	63	114	114	0	ZNF445,missense_variant,p.Lys595Asn,ENST00000425708,;ZNF445,missense_variant,p.Lys595Asn,ENST00000396077,;ZNF445,downstream_gene_variant,,ENST00000460529,;	A	ENSG00000185219	ENST00000425708	Transcript	missense_variant	2127	1785	595	K/N	aaA/aaT	.	.	.	-1	ZNF445	HGNC	21018	protein_coding	YES	CCDS2713.1	ENSP00000413073	ZN445_HUMAN	B7ZKX2_HUMAN	UPI000019AD12	.	tolerated(0.23)	benign(0.403)	7/7	.	hmmpanther:PTHR24385:SF48,hmmpanther:PTHR24385,Gene3D:3.30.160.60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAGTTTCTC	.	5	BLCA
ZKSCAN7	0	.	GRCh37	3	44612004	44612004	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1402A>G	p.Lys468Glu	p.K468E	ENST00000273320	6/6	76	14	61	89	89	0	ZKSCAN7,missense_variant,p.Lys468Glu,ENST00000273320,;ZKSCAN7,missense_variant,p.Lys468Glu,ENST00000426540,;ZKSCAN7,missense_variant,p.Lys317Glu,ENST00000447279,;ZKSCAN7,intron_variant,,ENST00000431636,;ZKSCAN7,intron_variant,,ENST00000341840,;RP11-944L7.5,intron_variant,,ENST00000419137,;RP11-944L7.4,intron_variant,,ENST00000457331,;ZKSCAN7,downstream_gene_variant,,ENST00000496563,;ZKSCAN7,downstream_gene_variant,,ENST00000418719,;	G	ENSG00000196345	ENST00000273320	Transcript	missense_variant	1831	1402	468	K/E	Aaa/Gaa	.	.	.	1	ZKSCAN7	HGNC	12955	protein_coding	YES	CCDS2715.1	ENSP00000273320	ZKSC7_HUMAN	.	UPI000013D9A9	.	tolerated(0.25)	probably_damaging(0.974)	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF205,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTATAAATGT	.	5	BLCA
DNAH1	0	.	GRCh37	3	52387194	52387194	+	Missense_Mutation	SNP	C	C	T	rs200988223	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3103C>T	p.Arg1035Cys	p.R1035C	ENST00000420323	19/78	31	4	27	57	57	0	DNAH1,missense_variant,p.Arg1035Cys,ENST00000420323,;DNAH1,non_coding_transcript_exon_variant,,ENST00000486752,;DNAH1,non_coding_transcript_exon_variant,,ENST00000497875,;	T	ENSG00000114841	ENST00000420323	Transcript	missense_variant	3364	3103	1035	R/C	Cgc/Tgc	rs200988223,COSM4118993,COSM4118992	.	.	1	DNAH1	HGNC	2940	protein_coding	YES	CCDS46842.1	ENSP00000401514	DYH1_HUMAN	.	UPI0001AE79D6	.	.	possibly_damaging(0.892)	19/78	.	Pfam_domain:PF08393,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF137	T:0.0014	T:0	T:0	.	T:0.0069	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTGCGCTGG	byFrequency|byCluster|by1000G	5	BLCA
LRIG1	0	.	GRCh37	3	66434438	66434438	+	Missense_Mutation	SNP	G	G	A	rs759550136	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2048C>T	p.Ala683Val	p.A683V	ENST00000273261	14/19	41	11	30	73	73	0	LRIG1,missense_variant,p.Ala683Val,ENST00000273261,;LRIG1,intron_variant,,ENST00000383703,;SLC25A26,intron_variant,,ENST00000536651,;LRIG1,non_coding_transcript_exon_variant,,ENST00000496559,;LRIG1,non_coding_transcript_exon_variant,,ENST00000495037,;SLC25A26,intron_variant,,ENST00000464350,;	A	ENSG00000144749	ENST00000273261	Transcript	missense_variant	2573	2048	683	A/V	gCt/gTt	rs759550136,COSM4119903	.	.	-1	LRIG1	HGNC	17360	protein_coding	YES	CCDS33783.1	ENSP00000273261	LRIG1_HUMAN	.	UPI000004C5BE	.	deleterious(0)	possibly_damaging(0.857)	14/19	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR24367:SF245,hmmpanther:PTHR24367,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTAGCTGAA	.	5	BLCA
LRIG1	0	.	GRCh37	3	66434439	66434439	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2047G>C	p.Ala683Pro	p.A683P	ENST00000273261	14/19	43	11	32	74	74	0	LRIG1,missense_variant,p.Ala683Pro,ENST00000273261,;LRIG1,intron_variant,,ENST00000383703,;SLC25A26,intron_variant,,ENST00000536651,;LRIG1,non_coding_transcript_exon_variant,,ENST00000496559,;LRIG1,non_coding_transcript_exon_variant,,ENST00000495037,;SLC25A26,intron_variant,,ENST00000464350,;	G	ENSG00000144749	ENST00000273261	Transcript	missense_variant	2572	2047	683	A/P	Gct/Cct	.	.	.	-1	LRIG1	HGNC	17360	protein_coding	YES	CCDS33783.1	ENSP00000273261	LRIG1_HUMAN	.	UPI000004C5BE	.	deleterious(0)	probably_damaging(0.998)	14/19	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR24367:SF245,hmmpanther:PTHR24367,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTAGCTGAAA	.	5	BLCA
OR5K2	0	.	GRCh37	3	98217146	98217146	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622G>A	p.Val208Ile	p.V208I	ENST00000427338	1/1	174	133	41	169	169	0	OR5K2,missense_variant,p.Val208Ile,ENST00000427338,;CLDND1,intron_variant,,ENST00000502288,;CLDND1,downstream_gene_variant,,ENST00000507874,;	A	ENSG00000231861	ENST00000427338	Transcript	missense_variant	699	622	208	V/I	Gtc/Atc	COSM75775	.	.	1	OR5K2	HGNC	14774	protein_coding	YES	CCDS33804.1	ENSP00000393889	OR5K2_HUMAN	.	UPI000004B1DF	.	tolerated(0.63)	benign(0.003)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF38,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCAAGTCTTT	.	5	BLCA
DCHS2	0	.	GRCh37	4	155312380	155312380	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.70G>A	p.Glu24Lys	p.E24K	ENST00000357232	1/25	19	4	15	12	12	0	DCHS2,missense_variant,p.Glu24Lys,ENST00000357232,;DCHS2,intron_variant,,ENST00000339452,;	T	ENSG00000197410	ENST00000357232	Transcript	missense_variant	70	70	24	E/K	Gaa/Aaa	.	.	.	-1	DCHS2	HGNC	23111	protein_coding	YES	CCDS3785.1	ENSP00000349768	PCD23_HUMAN	B3KT73_HUMAN	UPI000035B018	.	tolerated_low_confidence(0.9)	benign(0)	1/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTCAAACT	.	5	BLCA
FGA	0	.	GRCh37	4	155510689	155510689	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80T>A	p.Phe27Tyr	p.F27Y	ENST00000302053	2/6	92	23	68	172	172	0	FGA,missense_variant,p.Phe27Tyr,ENST00000302053,;FGA,missense_variant,p.Phe27Tyr,ENST00000403106,;	T	ENSG00000171560	ENST00000302053	Transcript	missense_variant	159	80	27	F/Y	tTt/tAt	.	.	.	-1	FGA	HGNC	3661	protein_coding	YES	CCDS3787.1	ENSP00000306361	FIBA_HUMAN	Q86Z09_HUMAN	UPI000012A75A	.	deleterious(0.01)	benign(0.153)	2/6	.	hmmpanther:PTHR19143:SF172,hmmpanther:PTHR19143	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAGAAAGTCA	.	5	BLCA
SLC30A9	0	.	GRCh37	4	42064976	42065005	+	Splice_Site	DEL	CGAACTATATTCTTTTCTATTTTTCAGGTA	CGAACTATATTCTTTTCTATTTTTCAGGTA	-	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	CGAACTATATTCTTTTCTATTTTTCAGGTA	CGAACTATATTCTTTTCTATTTTTCAGGTA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.897-25_901delAACTATATTCTTTTCTATTTTTCAGGTACG	.	p.X299_splice	ENST00000264451	11/18	76	33	43	140	140	0	SLC30A9,splice_acceptor_variant,,ENST00000264451,;SLC30A9,splice_acceptor_variant,,ENST00000513699,;SLC30A9,upstream_gene_variant,,ENST00000509683,;	-	ENSG00000014824	ENST00000264451	Transcript	splice_acceptor_variant	?-1079	?-899	?-300	.	.	.	.	.	1	SLC30A9	HGNC	1329	protein_coding	YES	CCDS3465.1	ENSP00000264451	ZNT9_HUMAN	.	UPI000013D51C	.	.	.	11/18	10/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCTTGCGAACTATATTCTTTTCTATTTTTCAGGTACGGAT	.	3	BLCA
EPHA5	0	.	GRCh37	4	66213881	66213881	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2549T>C	p.Ile850Thr	p.I850T	ENST00000273854	15/18	99	23	75	162	162	0	EPHA5,missense_variant,p.Ile850Thr,ENST00000273854,;EPHA5,missense_variant,p.Ile851Thr,ENST00000511294,;EPHA5,missense_variant,p.Ile687Thr,ENST00000432638,;EPHA5,missense_variant,p.Ile828Thr,ENST00000354839,;	G	ENSG00000145242	ENST00000273854	Transcript	missense_variant	3150	2549	850	I/T	aTa/aCa	.	.	.	-1	EPHA5	HGNC	3389	protein_coding	YES	CCDS3513.1	ENSP00000273854	EPHA5_HUMAN	.	UPI000013D9D9	.	deleterious(0)	probably_damaging(0.992)	15/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF17,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000666,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTATTGCT	.	5	BLCA
CCT5	0	.	GRCh37	5	10261841	10261841	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1163G>C	p.Arg388Thr	p.R388T	ENST00000280326	8/11	180	130	49	164	164	0	CCT5,missense_variant,p.Arg388Thr,ENST00000280326,;CCT5,missense_variant,p.Arg295Thr,ENST00000506600,;CCT5,missense_variant,p.Arg367Thr,ENST00000503026,;CCT5,missense_variant,p.Arg333Thr,ENST00000515390,;CCT5,missense_variant,p.Arg350Thr,ENST00000515676,;CTD-2256P15.4,downstream_gene_variant,,ENST00000606194,;CCT5,non_coding_transcript_exon_variant,,ENST00000423695,;CCT5,downstream_gene_variant,,ENST00000512975,;CCT5,downstream_gene_variant,,ENST00000511700,;CCT5,upstream_gene_variant,,ENST00000511995,;CCT5,downstream_gene_variant,,ENST00000509846,;CCT5,downstream_gene_variant,,ENST00000514674,;CCT5,downstream_gene_variant,,ENST00000503454,;	C	ENSG00000150753	ENST00000280326	Transcript	missense_variant	1583	1163	388	R/T	aGa/aCa	.	.	.	1	CCT5	HGNC	1618	protein_coding	YES	CCDS3877.1	ENSP00000280326	TCPE_HUMAN	Q9HB74_HUMAN,Q9BU08_HUMAN,Q96GI1_HUMAN,B7ZAR1_HUMAN	UPI0000001C34	.	deleterious(0)	probably_damaging(0.999)	8/11	.	hmmpanther:PTHR11353,Pfam_domain:PF00118,Gene3D:3.30.260.10,TIGRFAM_domain:TIGR02343,Superfamily_domains:SSF52029,Superfamily_domains:SSF54849,Prints_domain:PR00304	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTAGAGGAG	.	5	BLCA
FTMT	0	.	GRCh37	5	121188173	121188173	+	Missense_Mutation	SNP	A	A	T	rs774733511	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515A>T	p.Gln172Leu	p.Q172L	ENST00000321339	1/1	187	140	47	208	208	0	FTMT,missense_variant,p.Gln172Leu,ENST00000321339,;	T	ENSG00000181867	ENST00000321339	Transcript	missense_variant	524	515	172	Q/L	cAg/cTg	rs774733511	.	.	1	FTMT	HGNC	17345	protein_coding	YES	CCDS4128.1	ENSP00000313691	FTMT_HUMAN	.	UPI000006F87E	.	deleterious(0.01)	benign(0.129)	1/1	.	PROSITE_profiles:PS50905,hmmpanther:PTHR11431:SF30,hmmpanther:PTHR11431,Pfam_domain:PF00210,Gene3D:1.20.1260.10,Superfamily_domains:SSF47240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACCAGTCGT	.	5	BLCA
GRIA1	0	.	GRCh37	5	153149749	153149749	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2074G>C	p.Glu692Gln	p.E692Q	ENST00000518783	13/16	151	114	36	187	187	0	GRIA1,missense_variant,p.Glu602Gln,ENST00000518142,;GRIA1,missense_variant,p.Glu692Gln,ENST00000518783,;GRIA1,missense_variant,p.Glu613Gln,ENST00000521843,;GRIA1,missense_variant,p.Glu682Gln,ENST00000285900,;GRIA1,missense_variant,p.Glu692Gln,ENST00000448073,;GRIA1,missense_variant,p.Glu682Gln,ENST00000340592,;	C	ENSG00000155511	ENST00000518783	Transcript	missense_variant	2101	2074	692	E/Q	Gag/Cag	.	.	.	1	GRIA1	HGNC	4571	protein_coding	YES	CCDS58987.1	ENSP00000428994	GRIA1_HUMAN	.	UPI0001E8F433	.	tolerated(0.06)	possibly_damaging(0.853)	13/16	.	Superfamily_domains:SSF53850,SMART_domains:SM00079,Pfam_domain:PF00060,Gene3D:1.10.287.70,Pfam_domain:PF00497,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTGAGAAG	.	5	BLCA
SKIV2L2	0	.	GRCh37	5	54640925	54640925	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>A	p.Asp337Asn	p.D337N	ENST00000230640	10/27	54	28	26	45	45	0	SKIV2L2,missense_variant,p.Asp236Asn,ENST00000545714,;SKIV2L2,missense_variant,p.Asp337Asn,ENST00000230640,;SKIV2L2,non_coding_transcript_exon_variant,,ENST00000504997,;SKIV2L2,3_prime_UTR_variant,,ENST00000506750,;SKIV2L2,downstream_gene_variant,,ENST00000505565,;SKIV2L2,downstream_gene_variant,,ENST00000502953,;	A	ENSG00000039123	ENST00000230640	Transcript	missense_variant	1263	1009	337	D/N	Gac/Aac	.	.	.	1	SKIV2L2	HGNC	18734	protein_coding	YES	CCDS3967.1	ENSP00000230640	SK2L2_HUMAN	.	UPI000020C772	.	tolerated(0.5)	benign(0.001)	10/27	.	hmmpanther:PTHR11752,hmmpanther:PTHR11752:SF54,PIRSF_domain:PIRSF005198	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGTGACTTC	.	5	BLCA
FCHO2	0	.	GRCh37	5	72333035	72333035	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.907G>A	p.Glu303Lys	p.E303K	ENST00000430046	10/26	53	42	10	65	64	1	FCHO2,missense_variant,p.Glu270Lys,ENST00000512348,;FCHO2,missense_variant,p.Glu303Lys,ENST00000287761,;FCHO2,missense_variant,p.Glu303Lys,ENST00000341845,;FCHO2,missense_variant,p.Glu303Lys,ENST00000430046,;FCHO2,downstream_gene_variant,,ENST00000511264,;	A	ENSG00000157107	ENST00000430046	Transcript	missense_variant	1023	907	303	E/K	Gaa/Aaa	.	.	.	1	FCHO2	HGNC	25180	protein_coding	YES	CCDS47230.1	ENSP00000393776	FCHO2_HUMAN	B4DEU7_HUMAN	UPI000019971A	.	tolerated(0.08)	benign(0.018)	10/26	.	hmmpanther:PTHR23065,hmmpanther:PTHR23065:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ATGCAGAATCT	.	4	BLCA
GCNT2	0	.	GRCh37	6	10586610	10586610	+	Intron	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.926-34974G>A	.	.	ENST00000379597	.	78	18	59	111	111	0	GCNT2,missense_variant,p.Glu130Lys,ENST00000265012,;GCNT2,intron_variant,,ENST00000495262,;GCNT2,intron_variant,,ENST00000316170,;GCNT2,intron_variant,,ENST00000379597,;GCNT2,intron_variant,,ENST00000410107,;GCNT2,intron_variant,,ENST00000459872,;GCNT2,intron_variant,,ENST00000397423,;GCNT2,intron_variant,,ENST00000489225,;GCNT2,intron_variant,,ENST00000475577,;GCNT2,intron_variant,,ENST00000474518,;GCNT2,intron_variant,,ENST00000489819,;GCNT2,intron_variant,,ENST00000485764,;GCNT2,intron_variant,,ENST00000461400,;	A	ENSG00000111846	ENST00000379597	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GCNT2	HGNC	4204	protein_coding	YES	CCDS34338.1	ENSP00000368917	GNT2A_HUMAN	Q8N7N7_HUMAN,Q08M29_HUMAN	UPI000006E705	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATGAGAAA	.	5	BLCA
TXLNB	0	.	GRCh37	6	139597983	139597983	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.500A>G	p.Lys167Arg	p.K167R	ENST00000358430	3/10	54	47	7	44	44	0	TXLNB,missense_variant,p.Lys167Arg,ENST00000358430,;RP11-445F6.2,intron_variant,,ENST00000441249,;	C	ENSG00000164440	ENST00000358430	Transcript	missense_variant	733	500	167	K/R	aAg/aGg	.	.	.	-1	TXLNB	HGNC	21617	protein_coding	YES	CCDS34545.1	ENSP00000351206	TXLNB_HUMAN	H0UI60_HUMAN	UPI0000072983	.	tolerated(0.05)	possibly_damaging(0.67)	3/10	.	hmmpanther:PTHR16127,hmmpanther:PTHR16127:SF10,Pfam_domain:PF09728	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTTCTTGAAT	.	4	BLCA
SYNE1	0	.	GRCh37	6	152823866	152823866	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790G>C	p.Asp264His	p.D264H	ENST00000367255	10/146	70	53	16	54	54	0	SYNE1,missense_variant,p.Asp264His,ENST00000466159,;SYNE1,missense_variant,p.Asp271His,ENST00000367248,;SYNE1,missense_variant,p.Asp271His,ENST00000423061,;SYNE1,missense_variant,p.Asp271His,ENST00000448038,;SYNE1,missense_variant,p.Asp264His,ENST00000367255,;SYNE1,missense_variant,p.Asp264His,ENST00000413186,;SYNE1,missense_variant,p.Asp264His,ENST00000537750,;SYNE1,missense_variant,p.Asp264His,ENST00000341594,;SYNE1,missense_variant,p.Asp264His,ENST00000367253,;SYNE1,missense_variant,p.Asp264His,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000461872,;	G	ENSG00000131018	ENST00000367255	Transcript	missense_variant	1392	790	264	D/H	Gat/Cat	.	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	possibly_damaging(0.841)	10/146	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF47576,SMART_domains:SM00033,Pfam_domain:PF00307,Gene3D:1.10.418.10,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267,PROSITE_profiles:PS50021	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATCCACAT	.	5	BLCA
DTNBP1	0	.	GRCh37	6	15523445	15523445	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.817G>A	p.Glu273Lys	p.E273K	ENST00000344537	10/10	890	795	94	138	137	0	DTNBP1,missense_variant,p.Glu117Lys,ENST00000462989,;DTNBP1,missense_variant,p.Glu273Lys,ENST00000344537,;DTNBP1,missense_variant,p.Glu274Lys,ENST00000355917,;DTNBP1,missense_variant,p.Glu90Lys,ENST00000509674,;JARID2,downstream_gene_variant,,ENST00000397311,;DTNBP1,downstream_gene_variant,,ENST00000511762,;JARID2,downstream_gene_variant,,ENST00000341776,;DTNBP1,downstream_gene_variant,,ENST00000338950,;DTNBP1,3_prime_UTR_variant,,ENST00000515875,;DTNBP1,3_prime_UTR_variant,,ENST00000510395,;DTNBP1,3_prime_UTR_variant,,ENST00000513680,;DTNBP1,downstream_gene_variant,,ENST00000506844,;DTNBP1,downstream_gene_variant,,ENST00000514651,;	T	ENSG00000047579	ENST00000344537	Transcript	missense_variant	990	817	273	E/K	Gaa/Aaa	.	.	.	-1	DTNBP1	HGNC	17328	protein_coding	YES	CCDS4534.1	ENSP00000341680	DTBP1_HUMAN	D6RAR7_HUMAN	UPI000006F968	.	deleterious(0.05)	possibly_damaging(0.527)	10/10	.	hmmpanther:PTHR16294,hmmpanther:PTHR16294:SF5,Pfam_domain:PF04440	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGATTCAGGCC	.	4	BLCA
OSTCP1	0	.	GRCh37	6	159262780	159262780	+	RNA	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.564G>A	.	.	ENST00000522287	3/3	196	141	55	151	151	0	OSTCP1,non_coding_transcript_exon_variant,,ENST00000522287,;OSTCP1,non_coding_transcript_exon_variant,,ENST00000455507,;	T	ENSG00000243775	ENST00000522287	Transcript	non_coding_transcript_exon_variant	564	.	.	.	.	.	.	.	-1	OSTCP1	HGNC	30530	processed_transcript	YES	.	.	.	.	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCATTCT	.	5	BLCA
HIST1H2BG	0	.	GRCh37	6	26216650	26216650	+	Silent	SNP	G	G	A	rs767133701	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222C>T	p.%3D	p.I74I	ENST00000244601	1/1	190	98	92	220	220	0	HIST1H2BG,synonymous_variant,p.%3D,ENST00000244601,;HIST1H2AE,upstream_gene_variant,,ENST00000303910,;	A	ENSG00000187990	ENST00000244601	Transcript	synonymous_variant	223	222	74	I	atC/atT	rs767133701	.	.	-1	HIST1H2BG	HGNC	4746	protein_coding	YES	CCDS4594.1	ENSP00000244601	H2B1C_HUMAN	B2R4S9_HUMAN	UPI0000000C24	.	.	.	1/1	.	hmmpanther:PTHR23428,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00427,Superfamily_domains:SSF47113,Prints_domain:PR00621	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGCGATGCG	.	5	BLCA
HIST1H2BM	0	.	GRCh37	6	27783210	27783210	+	3'UTR	DEL	G	G	-	rs772571094	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8delG	.	.	ENST00000359465	1/1	98	58	40	68	68	0	HIST1H2BM,3_prime_UTR_variant,,ENST00000359465,;HIST1H2AJ,upstream_gene_variant,,ENST00000333151,;HIST1H3H,downstream_gene_variant,,ENST00000369163,;	-	ENSG00000196374	ENST00000359465	Transcript	3_prime_UTR_variant	389	.	.	.	.	rs772571094	.	.	1	HIST1H2BM	HGNC	4750	protein_coding	YES	CCDS4629.1	ENSP00000352442	H2B1M_HUMAN	I6L9F7_HUMAN	UPI0000001BD7	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTCTCGCTGCA	.	3	BLCA
PRRT1	0	.	GRCh37	6	32116918	32116918	+	3'UTR	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*81G>A	.	.	ENST00000211413	4/4	11	6	5	12	12	0	PRRT1,3_prime_UTR_variant,,ENST00000211413,;PRRT1,3_prime_UTR_variant,,ENST00000375150,;PRRT1,3_prime_UTR_variant,,ENST00000375152,;PPT2,upstream_gene_variant,,ENST00000395523,;PPT2,upstream_gene_variant,,ENST00000324816,;PPT2,upstream_gene_variant,,ENST00000375143,;PPT2,upstream_gene_variant,,ENST00000414204,;PPT2,upstream_gene_variant,,ENST00000361568,;PRRT1,downstream_gene_variant,,ENST00000428778,;PPT2,upstream_gene_variant,,ENST00000375137,;PPT2,upstream_gene_variant,,ENST00000445576,;PPT2,upstream_gene_variant,,ENST00000437001,;PRRT1,non_coding_transcript_exon_variant,,ENST00000467780,;PRRT1,non_coding_transcript_exon_variant,,ENST00000472641,;PRRT1,downstream_gene_variant,,ENST00000485392,;PPT2,upstream_gene_variant,,ENST00000478521,;PRRT1,downstream_gene_variant,,ENST00000497552,;PRRT1,downstream_gene_variant,,ENST00000494332,;PRRT1,downstream_gene_variant,,ENST00000498575,;PRRT1,downstream_gene_variant,,ENST00000475826,;PRRT1,downstream_gene_variant,,ENST00000486917,;PRRT1,non_coding_transcript_exon_variant,,ENST00000495191,;PPT2-EGFL8,upstream_gene_variant,,ENST00000585246,;PPT2-EGFL8,upstream_gene_variant,,ENST00000428388,;	T	ENSG00000204314	ENST00000211413	Transcript	3_prime_UTR_variant	1127	.	.	.	.	.	.	.	-1	PRRT1	HGNC	13943	protein_coding	YES	CCDS4739.1	ENSP00000211413	PRRT1_HUMAN	.	UPI000012FFED	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGGGCGCCCA	.	3	BLCA
RGL2	0	.	GRCh37	6	33262910	33262910	+	Silent	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1203C>A	p.%3D	p.L401L	ENST00000497454	9/18	13	9	4	23	23	0	RGL2,synonymous_variant,p.%3D,ENST00000444031,;RGL2,synonymous_variant,p.%3D,ENST00000497454,;PFDN6,intron_variant,,ENST00000463584,;RGL2,downstream_gene_variant,,ENST00000425946,;PFDN6,downstream_gene_variant,,ENST00000395131,;PFDN6,downstream_gene_variant,,ENST00000374607,;PFDN6,downstream_gene_variant,,ENST00000374610,;TAPBP,downstream_gene_variant,,ENST00000434618,;PFDN6,downstream_gene_variant,,ENST00000374606,;RGL2,non_coding_transcript_exon_variant,,ENST00000437840,;RGL2,non_coding_transcript_exon_variant,,ENST00000491168,;RGL2,upstream_gene_variant,,ENST00000471319,;RGL2,downstream_gene_variant,,ENST00000485077,;RGL2,non_coding_transcript_exon_variant,,ENST00000476616,;RGL2,non_coding_transcript_exon_variant,,ENST00000483151,;RGL2,downstream_gene_variant,,ENST00000478610,;PFDN6,downstream_gene_variant,,ENST00000395134,;RGL2,downstream_gene_variant,,ENST00000460988,;RGL2,downstream_gene_variant,,ENST00000494550,;PFDN6,downstream_gene_variant,,ENST00000491382,;	T	ENSG00000237441	ENST00000497454	Transcript	synonymous_variant	1699	1203	401	L	ctC/ctA	.	.	.	-1	RGL2	HGNC	9769	protein_coding	YES	CCDS4774.1	ENSP00000420211	RGL2_HUMAN	Q9BSI0_HUMAN,Q54AJ0_HUMAN,A2AB89_HUMAN	UPI0000001621	.	.	.	9/18	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF159,Gene3D:2ii0A02,Pfam_domain:PF00617,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCACGAGCAG	.	3	BLCA
MRPS18A	0	.	GRCh37	6	43642976	43642976	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.409G>A	p.Glu137Lys	p.E137K	ENST00000372133	5/6	87	26	61	101	101	0	MRPS18A,missense_variant,p.Glu211Lys,ENST00000427312,;MRPS18A,missense_variant,p.Glu137Lys,ENST00000372133,;MRPS18A,intron_variant,,ENST00000372116,;RSPH9,downstream_gene_variant,,ENST00000372163,;RSPH9,downstream_gene_variant,,ENST00000372165,;	T	ENSG00000096080	ENST00000372133	Transcript	missense_variant	421	409	137	E/K	Gaa/Aaa	.	.	.	-1	MRPS18A	HGNC	14515	protein_coding	YES	CCDS4906.1	ENSP00000361206	RT18A_HUMAN	.	UPI0000132F33	.	tolerated(0.19)	benign(0.017)	5/6	.	hmmpanther:PTHR16050	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCAGGAA	.	5	BLCA
PTCHD4	0	.	GRCh37	6	47846543	47846543	+	Silent	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2037G>A	p.%3D	p.V679V	ENST00000339488	3/3	79	58	20	65	65	0	PTCHD4,synonymous_variant,p.%3D,ENST00000339488,;	T	ENSG00000244694	ENST00000339488	Transcript	synonymous_variant	2071	2037	679	V	gtG/gtA	.	.	.	-1	PTCHD4	HGNC	21345	protein_coding	YES	CCDS34473.2	ENSP00000341914	PTHD4_HUMAN	B2RPC0_HUMAN	UPI000179A8D3	.	.	.	3/3	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10796,hmmpanther:PTHR10796:SF15,Gene3D:2j8sB01,Pfam_domain:PF02460,Superfamily_domains:SSF82866	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATCACTAG	.	5	BLCA
PHF3	0	.	GRCh37	6	64395370	64395370	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1747C>T	p.Gln583Ter	p.Q583*	ENST00000262043	4/16	67	53	14	56	56	0	PHF3,stop_gained,p.Gln583Ter,ENST00000393387,;PHF3,stop_gained,p.Gln397Ter,ENST00000506783,;PHF3,stop_gained,p.Gln495Ter,ENST00000481385,;PHF3,stop_gained,p.Gln583Ter,ENST00000509330,;PHF3,stop_gained,p.Gln583Ter,ENST00000262043,;PHF3,stop_gained,p.Gln536Ter,ENST00000494284,;PHF3,intron_variant,,ENST00000515594,;PHF3,downstream_gene_variant,,ENST00000514822,;PHF3,3_prime_UTR_variant,,ENST00000509876,;	T	ENSG00000118482	ENST00000262043	Transcript	stop_gained	2087	1747	583	Q/*	Caa/Taa	.	.	.	1	PHF3	HGNC	8921	protein_coding	YES	CCDS4966.1	ENSP00000262043	PHF3_HUMAN	E9PE34_HUMAN,E7EVH3_HUMAN,E7ER40_HUMAN,B3KP41_HUMAN	UPI000007154D	.	.	.	4/16	.	hmmpanther:PTHR14914:SF6,hmmpanther:PTHR14914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATCAAACT	.	5	BLCA
COL12A1	0	.	GRCh37	6	75851842	75851842	+	Silent	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4863C>G	p.%3D	p.L1621L	ENST00000322507	27/66	211	151	59	206	206	0	COL12A1,synonymous_variant,p.%3D,ENST00000416123,;COL12A1,synonymous_variant,p.%3D,ENST00000322507,;COL12A1,synonymous_variant,p.%3D,ENST00000419671,;COL12A1,synonymous_variant,p.%3D,ENST00000483888,;COL12A1,synonymous_variant,p.%3D,ENST00000345356,;COL12A1,downstream_gene_variant,,ENST00000474564,;	C	ENSG00000111799	ENST00000322507	Transcript	synonymous_variant	5173	4863	1621	L	ctC/ctG	.	.	.	-1	COL12A1	HGNC	2188	protein_coding	YES	CCDS43482.1	ENSP00000325146	COCA1_HUMAN	.	UPI000045890B	.	.	.	27/66	.	PROSITE_profiles:PS50853,hmmpanther:PTHR22992:SF23,hmmpanther:PTHR22992,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTGAGGGA	.	5	BLCA
DOPEY1	0	.	GRCh37	6	83838783	83838783	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1897A>T	p.Ser633Cys	p.S633C	ENST00000349129	16/39	179	142	37	148	147	1	DOPEY1,missense_variant,p.Ser614Cys,ENST00000237163,;DOPEY1,missense_variant,p.Ser624Cys,ENST00000369739,;DOPEY1,missense_variant,p.Ser633Cys,ENST00000349129,;DOPEY1,downstream_gene_variant,,ENST00000604380,;DOPEY1,upstream_gene_variant,,ENST00000493541,;	T	ENSG00000083097	ENST00000349129	Transcript	missense_variant	2157	1897	633	S/C	Agc/Tgc	.	.	.	1	DOPEY1	HGNC	21194	protein_coding	YES	CCDS4996.1	ENSP00000195654	DOP1_HUMAN	.	UPI00001C1574	.	tolerated(0.09)	probably_damaging(0.971)	16/39	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14042:SF22,hmmpanther:PTHR14042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGTAGCACA	.	5	BLCA
PCOLCE	0	.	GRCh37	7	100205694	100205694	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1318C>G	p.Gln440Glu	p.Q440E	ENST00000223061	9/9	140	58	81	111	111	0	PCOLCE,missense_variant,p.Gln440Glu,ENST00000223061,;MOSPD3,upstream_gene_variant,,ENST00000493970,;MOSPD3,upstream_gene_variant,,ENST00000424091,;MOSPD3,upstream_gene_variant,,ENST00000223054,;MOSPD3,upstream_gene_variant,,ENST00000393950,;MOSPD3,upstream_gene_variant,,ENST00000379527,;PCOLCE-AS1,upstream_gene_variant,,ENST00000446022,;PCOLCE-AS1,upstream_gene_variant,,ENST00000442166,;PCOLCE,downstream_gene_variant,,ENST00000486440,;PCOLCE,downstream_gene_variant,,ENST00000496269,;PCOLCE,non_coding_transcript_exon_variant,,ENST00000472348,;MOSPD3,upstream_gene_variant,,ENST00000490309,;PCOLCE,downstream_gene_variant,,ENST00000462260,;PCOLCE,downstream_gene_variant,,ENST00000490909,;PCOLCE,downstream_gene_variant,,ENST00000468214,;MOSPD3,upstream_gene_variant,,ENST00000497456,;PCOLCE,downstream_gene_variant,,ENST00000482863,;PCOLCE,downstream_gene_variant,,ENST00000460002,;MOSPD3,upstream_gene_variant,,ENST00000462372,;PCOLCE,downstream_gene_variant,,ENST00000487172,;	G	ENSG00000106333	ENST00000223061	Transcript	missense_variant	1598	1318	440	Q/E	Caa/Gaa	.	.	.	1	PCOLCE	HGNC	8738	protein_coding	YES	CCDS5700.1	ENSP00000223061	PCOC1_HUMAN	.	UPI0000131428	.	deleterious_low_confidence(0.01)	benign(0.044)	9/9	.	Superfamily_domains:SSF50242,Gene3D:2.40.50.120,hmmpanther:PTHR10127:SF567,hmmpanther:PTHR10127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAACCT	.	5	BLCA
FSCN3	0	.	GRCh37	7	127235724	127235724	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508G>A	p.Ala170Thr	p.A170T	ENST00000265825	2/7	93	47	45	85	85	0	FSCN3,missense_variant,p.Ala170Thr,ENST00000265825,;FSCN3,missense_variant,p.Ala36Thr,ENST00000420086,;FSCN3,missense_variant,p.Ala36Thr,ENST00000478821,;ARF5,downstream_gene_variant,,ENST00000000233,;ARF5,downstream_gene_variant,,ENST00000415666,;GCC1,upstream_gene_variant,,ENST00000473728,;FSCN3,downstream_gene_variant,,ENST00000478328,;GCC1,upstream_gene_variant,,ENST00000497650,;FSCN3,non_coding_transcript_exon_variant,,ENST00000469242,;ARF5,downstream_gene_variant,,ENST00000463733,;ARF5,downstream_gene_variant,,ENST00000489673,;FSCN3,downstream_gene_variant,,ENST00000421705,;	A	ENSG00000106328	ENST00000265825	Transcript	missense_variant	727	508	170	A/T	Gca/Aca	COSM320511	.	.	1	FSCN3	HGNC	3961	protein_coding	YES	CCDS34746.1	ENSP00000265825	FSCN3_HUMAN	R4GN86_HUMAN	UPI000012AC5F	.	tolerated(0.35)	benign(0.025)	2/7	.	Superfamily_domains:SSF50405,PIRSF_domain:PIRSF005682,Gene3D:2.80.10.50,hmmpanther:PTHR10551:SF1,hmmpanther:PTHR10551	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGACGCAGCA	.	5	BLCA
PLXNA4	0	.	GRCh37	7	132192620	132192620	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.833C>T	p.Ser278Phe	p.S278F	ENST00000359827	2/32	61	48	12	49	49	0	PLXNA4,missense_variant,p.Ser278Phe,ENST00000321063,;PLXNA4,missense_variant,p.Ser278Phe,ENST00000423507,;PLXNA4,missense_variant,p.Ser278Phe,ENST00000359827,;PLXNA4,missense_variant,p.Ser278Phe,ENST00000378539,;	A	ENSG00000221866	ENST00000359827	Transcript	missense_variant	1796	833	278	S/F	tCc/tTc	.	.	.	-1	PLXNA4	HGNC	9102	protein_coding	YES	CCDS43646.1	ENSP00000352882	PLXA4_HUMAN	.	UPI000004E55B	.	deleterious(0)	probably_damaging(1)	2/32	.	PROSITE_profiles:PS51004,hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF34,Pfam_domain:PF01403,Gene3D:2.130.10.10,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTGGATGTA	.	5	BLCA
TAS2R41	0	.	GRCh37	7	143175833	143175833	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.868C>G	p.Leu290Val	p.L290V	ENST00000408916	1/1	69	48	20	61	61	0	TAS2R41,missense_variant,p.Leu290Val,ENST00000408916,;EPHA1-AS1,intron_variant,,ENST00000429289,;	G	ENSG00000221855	ENST00000408916	Transcript	missense_variant	868	868	290	L/V	Ctt/Gtt	.	.	.	1	TAS2R41	HGNC	18883	protein_coding	YES	CCDS43663.1	ENSP00000386201	T2R41_HUMAN	.	UPI000000D823	.	deleterious(0)	probably_damaging(0.98)	1/1	.	hmmpanther:PTHR11394:SF32,hmmpanther:PTHR11394,Gene3D:1.20.1070.10,Pfam_domain:PF05296,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAAGCTTCGA	.	5	BLCA
PTPRN2	0	.	GRCh37	7	157997948	157997948	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.295G>C	p.Asp99His	p.D99H	ENST00000389418	4/23	26	9	17	84	84	0	PTPRN2,missense_variant,p.Asp61His,ENST00000409483,;PTPRN2,missense_variant,p.Asp82His,ENST00000389416,;PTPRN2,missense_variant,p.Asp122His,ENST00000404321,;PTPRN2,missense_variant,p.Asp99His,ENST00000389418,;PTPRN2,missense_variant,p.Asp99His,ENST00000389413,;	G	ENSG00000155093	ENST00000389418	Transcript	missense_variant	305	295	99	D/H	Gac/Cac	.	.	.	-1	PTPRN2	HGNC	9677	protein_coding	YES	CCDS5947.1	ENSP00000374069	PTPR2_HUMAN	Q9NSR5_HUMAN	UPI000002E7C7	.	deleterious(0)	possibly_damaging(0.879)	4/23	.	Pfam_domain:PF14948	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAGTCATCCT	.	5	BLCA
HNRNPA2B1	0	.	GRCh37	7	26237304	26237304	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91G>C	p.Glu31Gln	p.E31Q	ENST00000354667	3/12	43	34	9	49	49	0	HNRNPA2B1,missense_variant,p.Glu31Gln,ENST00000354667,;HNRNPA2B1,missense_variant,p.Glu19Gln,ENST00000356674,;CBX3,upstream_gene_variant,,ENST00000456948,;CBX3,upstream_gene_variant,,ENST00000409747,;CBX3,upstream_gene_variant,,ENST00000337620,;CBX3,upstream_gene_variant,,ENST00000396386,;CBX3,upstream_gene_variant,,ENST00000497498,;HNRNPA2B1,missense_variant,p.Glu31Gln,ENST00000360787,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000490912,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000463181,;HNRNPA2B1,upstream_gene_variant,,ENST00000495810,;	G	ENSG00000122566	ENST00000354667	Transcript	missense_variant	260	91	31	E/Q	Gaa/Caa	.	.	.	-1	HNRNPA2B1	HGNC	5033	protein_coding	YES	CCDS43557.1	ENSP00000346694	ROA2_HUMAN	.	UPI000002F091	.	tolerated(0.05)	benign(0.237)	3/12	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012:SF329,hmmpanther:PTHR24012,Pfam_domain:PF14259,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTTCAAAGC	.	5	BLCA
PSMA2	0	.	GRCh37	7	42959002	42959002	+	Intron	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531-1568C>G	.	.	ENST00000223321	.	61	30	31	62	62	0	PSMA2,3_prime_UTR_variant,,ENST00000538645,;PSMA2,intron_variant,,ENST00000445517,;PSMA2,intron_variant,,ENST00000223321,;PSMA2,3_prime_UTR_variant,,ENST00000411875,;PSMA2,intron_variant,,ENST00000433579,;PSMA2,intron_variant,,ENST00000442788,;PSMA2,intron_variant,,ENST00000457444,;PSMA2,intron_variant,,ENST00000436986,;AC010132.11,non_coding_transcript_exon_variant,,ENST00000295493,;	C	ENSG00000106588	ENST00000223321	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PSMA2	HGNC	9531	protein_coding	YES	CCDS5467.1	ENSP00000223321	PSA2_HUMAN	Q6MZI6_HUMAN	UPI000004D00F	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACAGAATAA	.	5	BLCA
NPC1L1	0	.	GRCh37	7	44574149	44574149	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2063C>G	p.Ser688Cys	p.S688C	ENST00000289547	6/20	134	59	74	114	114	0	NPC1L1,missense_variant,p.Ser688Cys,ENST00000546276,;NPC1L1,missense_variant,p.Ser688Cys,ENST00000381160,;NPC1L1,missense_variant,p.Ser688Cys,ENST00000423141,;NPC1L1,missense_variant,p.Ser688Cys,ENST00000289547,;	C	ENSG00000015520	ENST00000289547	Transcript	missense_variant	2119	2063	688	S/C	tCc/tGc	.	.	.	-1	NPC1L1	HGNC	7898	protein_coding	YES	CCDS5491.1	ENSP00000289547	NPCL1_HUMAN	.	UPI000013DF88	.	deleterious(0.01)	probably_damaging(0.972)	6/20	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF82866,Pfam_domain:PF12349,Gene3D:2j8sB01,hmmpanther:PTHR10796,hmmpanther:PTHR10796:SF89,PROSITE_profiles:PS50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTAGGAGAAG	.	5	BLCA
C7orf57	0	.	GRCh37	7	48083119	48083119	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283C>T	p.Pro95Ser	p.P95S	ENST00000348904	4/9	46	21	25	50	50	0	C7orf57,missense_variant,p.Pro95Ser,ENST00000348904,;C7orf57,missense_variant,p.Pro140Ser,ENST00000430738,;C7orf57,missense_variant,p.Pro95Ser,ENST00000539619,;C7orf57,missense_variant,p.Pro140Ser,ENST00000420324,;C7orf57,5_prime_UTR_variant,,ENST00000435376,;C7orf57,downstream_gene_variant,,ENST00000461741,;	T	ENSG00000164746	ENST00000348904	Transcript	missense_variant	495	283	95	P/S	Cca/Tca	.	.	.	1	C7orf57	HGNC	22247	protein_coding	YES	CCDS47583.1	ENSP00000335500	CG057_HUMAN	.	UPI00001C1E6B	.	tolerated(0.07)	benign(0.406)	4/9	.	hmmpanther:PTHR31097,hmmpanther:PTHR31097:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCCAGTG	.	5	BLCA
ZNF679	0	.	GRCh37	7	63721235	63721235	+	Missense_Mutation	SNP	T	T	A	rs775032089	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190T>A	p.Leu64Met	p.L64M	ENST00000421025	4/5	73	61	11	85	85	0	ZNF679,missense_variant,p.Leu64Met,ENST00000255746,;ZNF679,missense_variant,p.Leu64Met,ENST00000421025,;	A	ENSG00000197123	ENST00000421025	Transcript	missense_variant	459	190	64	L/M	Ttg/Atg	rs775032089,COSM3640003	.	.	1	ZNF679	HGNC	28650	protein_coding	YES	CCDS47592.1	ENSP00000416809	ZN679_HUMAN	.	UPI000045756A	.	deleterious(0.01)	possibly_damaging(0.844)	4/5	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF91,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGACTTGATC	.	3	BLCA
TFPI2	0	.	GRCh37	7	93519632	93519632	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89-1G>A	.	p.X30_splice	ENST00000222543	.	72	56	15	65	65	0	TFPI2,splice_acceptor_variant,,ENST00000545378,;TFPI2,splice_acceptor_variant,,ENST00000222543,;GNGT1,intron_variant,,ENST00000455502,;TFPI2,upstream_gene_variant,,ENST00000451238,;AC002076.10,upstream_gene_variant,,ENST00000435257,;TFPI2,splice_acceptor_variant,,ENST00000461482,;	T	ENSG00000105825	ENST00000222543	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	TFPI2	HGNC	11761	protein_coding	YES	CCDS5632.1	ENSP00000222543	TFPI2_HUMAN	Q8NE89_HUMAN,Q8NAK6_HUMAN	UPI00000362E2	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTCCTGAAG	.	5	BLCA
RGS22	0	.	GRCh37	8	101076250	101076250	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.746G>T	p.Gly249Val	p.G249V	ENST00000360863	8/28	303	201	102	262	261	0	RGS22,missense_variant,p.Gly68Val,ENST00000523287,;RGS22,missense_variant,p.Gly237Val,ENST00000523437,;RGS22,missense_variant,p.Gly249Val,ENST00000360863,;RGS22,intron_variant,,ENST00000517828,;RGS22,downstream_gene_variant,,ENST00000520117,;RGS22,missense_variant,p.Gly249Val,ENST00000519725,;RGS22,non_coding_transcript_exon_variant,,ENST00000520923,;	A	ENSG00000132554	ENST00000360863	Transcript	missense_variant	941	746	249	G/V	gGa/gTa	.	.	.	-1	RGS22	HGNC	24499	protein_coding	YES	CCDS43758.1	ENSP00000354109	RGS22_HUMAN	E5RHE4_HUMAN,E5RFV6_HUMAN	UPI0000E5AF25	.	deleterious(0.02)	possibly_damaging(0.851)	8/28	.	hmmpanther:PTHR10845:SF132,hmmpanther:PTHR10845	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACTCCATCA	.	5	BLCA
KCNQ3	0	.	GRCh37	8	133153379	133153379	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1462G>A	p.Glu488Lys	p.E488K	ENST00000388996	10/15	155	94	60	94	94	0	KCNQ3,missense_variant,p.Glu368Lys,ENST00000521134,;KCNQ3,missense_variant,p.Glu488Lys,ENST00000388996,;KCNQ3,missense_variant,p.Glu488Lys,ENST00000519445,;KCNQ3,non_coding_transcript_exon_variant,,ENST00000519589,;	T	ENSG00000184156	ENST00000388996	Transcript	missense_variant	1883	1462	488	E/K	Gaa/Aaa	.	.	.	-1	KCNQ3	HGNC	6297	protein_coding	YES	CCDS34943.1	ENSP00000373648	KCNQ3_HUMAN	.	UPI00001279F0	.	deleterious(0.03)	probably_damaging(0.969)	10/15	.	Pfam_domain:PF03520	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCAGAAC	.	5	BLCA
LRRC6	0	.	GRCh37	8	133637551	133637551	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.803T>A	p.Met268Lys	p.M268K	ENST00000250173	6/12	46	23	22	29	29	0	LRRC6,missense_variant,p.Met268Lys,ENST00000519595,;LRRC6,missense_variant,p.Met268Lys,ENST00000518642,;LRRC6,missense_variant,p.Met268Lys,ENST00000250173,;LRRC6,missense_variant,p.Met28Lys,ENST00000522789,;LRRC6,upstream_gene_variant,,ENST00000519085,;LRRC6,non_coding_transcript_exon_variant,,ENST00000520446,;LRRC6,downstream_gene_variant,,ENST00000523503,;LRRC6,upstream_gene_variant,,ENST00000522597,;	T	ENSG00000129295	ENST00000250173	Transcript	missense_variant	877	803	268	M/K	aTg/aAg	.	.	.	-1	LRRC6	HGNC	16725	protein_coding	YES	CCDS6365.1	ENSP00000250173	TILB_HUMAN	.	UPI000000DBC5	.	deleterious(0)	benign(0.011)	6/12	.	hmmpanther:PTHR10588:SF114,hmmpanther:PTHR10588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCCATGTGT	.	5	BLCA
DLGAP2	0	.	GRCh37	8	1497192	1497192	+	Missense_Mutation	SNP	C	C	A	rs569842232	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333C>A	p.Asn111Lys	p.N111K	ENST00000421627	2/12	21	17	4	17	17	0	DLGAP2,missense_variant,p.Asn128Lys,ENST00000520901,;DLGAP2,missense_variant,p.Asn111Lys,ENST00000421627,;	A	ENSG00000198010	ENST00000421627	Transcript	missense_variant	467	333	111	N/K	aaC/aaA	rs569842232	.	.	1	DLGAP2	HGNC	2906	protein_coding	YES	CCDS47760.1	ENSP00000400258	DLGP2_HUMAN	.	UPI000021BFBC	.	deleterious(0)	possibly_damaging(0.87)	2/12	.	hmmpanther:PTHR12353,hmmpanther:PTHR12353:SF3	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCAACCTGCT	by1000G	4	BLCA
RPS20	0	.	GRCh37	8	56985599	56985599	+	Intron	SNP	A	A	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333+77T>C	.	.	ENST00000519807	.	50	37	13	42	42	0	RPS20,3_prime_UTR_variant,,ENST00000009589,;RPS20,intron_variant,,ENST00000519807,;RPS20,downstream_gene_variant,,ENST00000523936,;RPS20,downstream_gene_variant,,ENST00000521262,;RPS20,downstream_gene_variant,,ENST00000518875,;RPS20,downstream_gene_variant,,ENST00000524349,;RPS20,downstream_gene_variant,,ENST00000520627,;RPS20,downstream_gene_variant,,ENST00000519606,;SNORD54,downstream_gene_variant,,ENST00000459159,;CTA-397H3.3,upstream_gene_variant,,ENST00000521403,;RPS20,downstream_gene_variant,,ENST00000520490,;RPS20,downstream_gene_variant,,ENST00000519369,;RPS20,downstream_gene_variant,,ENST00000521289,;	G	ENSG00000008988	ENST00000519807	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RPS20	HGNC	10405	protein_coding	YES	CCDS55231.1	ENSP00000429374	RS20_HUMAN	.	UPI000022D6C1	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATAAAAACC	.	5	BLCA
CA3	0	.	GRCh37	8	86354383	86354383	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314C>G	p.Ser105Cys	p.S105C	ENST00000285381	3/7	171	111	59	141	141	0	CA3,missense_variant,p.Ser105Cys,ENST00000285381,;CA3,downstream_gene_variant,,ENST00000520921,;RP11-317J10.2,non_coding_transcript_exon_variant,,ENST00000521761,;RP11-317J10.2,non_coding_transcript_exon_variant,,ENST00000517697,;CA3,non_coding_transcript_exon_variant,,ENST00000522207,;	G	ENSG00000164879	ENST00000285381	Transcript	missense_variant	397	314	105	S/C	tCt/tGt	.	.	.	1	CA3	HGNC	1374	protein_coding	YES	CCDS6238.1	ENSP00000285381	CAH3_HUMAN	E5RHI4_HUMAN	UPI0000049C1A	.	deleterious(0.01)	probably_damaging(0.94)	3/7	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952:SF96,hmmpanther:PTHR18952,PROSITE_patterns:PS00162,Gene3D:3.10.200.10,Pfam_domain:PF00194,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTCTGAGC	.	5	BLCA
OTUD6B	0	.	GRCh37	8	92086102	92086102	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368A>G	p.Asn123Ser	p.N123S	ENST00000285420	3/7	24	14	9	18	18	0	OTUD6B,missense_variant,p.Asn123Ser,ENST00000285420,;OTUD6B,5_prime_UTR_variant,,ENST00000404789,;GS1-251I9.4,upstream_gene_variant,,ENST00000522817,;GS1-251I9.4,upstream_gene_variant,,ENST00000524003,;OTUD6B,missense_variant,p.Asn113Ser,ENST00000522894,;OTUD6B,non_coding_transcript_exon_variant,,ENST00000524027,;	G	ENSG00000155100	ENST00000285420	Transcript	missense_variant	467	368	123	N/S	aAt/aGt	.	.	.	1	OTUD6B	HGNC	24281	protein_coding	YES	CCDS6253.2	ENSP00000285420	OTU6B_HUMAN	.	UPI0000E5AF0F	.	tolerated(0.15)	benign(0.004)	3/7	.	hmmpanther:PTHR12419:SF1,hmmpanther:PTHR12419	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGAATCAGC	.	5	BLCA
HSDL2	0	.	GRCh37	9	115179164	115179164	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>T	p.His147Tyr	p.H147Y	ENST00000398805	5/11	41	33	7	31	31	0	HSDL2,missense_variant,p.His27Tyr,ENST00000262542,;HSDL2,missense_variant,p.His147Tyr,ENST00000398805,;HSDL2,intron_variant,,ENST00000539114,;HSDL2,intron_variant,,ENST00000398803,;HSDL2,non_coding_transcript_exon_variant,,ENST00000488101,;HSDL2,non_coding_transcript_exon_variant,,ENST00000480881,;HSDL2,intron_variant,,ENST00000467434,;	T	ENSG00000119471	ENST00000398805	Transcript	missense_variant	666	439	147	H/Y	Cat/Tat	.	.	.	1	HSDL2	HGNC	18572	protein_coding	YES	CCDS43864.1	ENSP00000381785	HSDL2_HUMAN	B4E136_HUMAN,B4DWC7_HUMAN	UPI0000039E52	.	deleterious(0)	probably_damaging(0.99)	5/11	.	Superfamily_domains:SSF51735,Pfam_domain:PF00106,Gene3D:3.40.50.720,hmmpanther:PTHR24322,hmmpanther:PTHR24322:SF273	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGCTCATATC	.	3	BLCA
GSN	0	.	GRCh37	9	124083609	124083609	+	Missense_Mutation	SNP	G	G	A	rs758669795	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1408G>A	p.Gly470Arg	p.G470R	ENST00000373818	10/17	107	83	23	86	86	0	GSN,missense_variant,p.Gly470Arg,ENST00000373818,;GSN,missense_variant,p.Gly419Arg,ENST00000373823,;GSN,missense_variant,p.Gly419Arg,ENST00000341272,;GSN,missense_variant,p.Gly419Arg,ENST00000449733,;GSN,missense_variant,p.Gly427Arg,ENST00000545652,;GSN,missense_variant,p.Gly430Arg,ENST00000394353,;GSN,missense_variant,p.Gly201Arg,ENST00000373807,;GSN,missense_variant,p.Gly430Arg,ENST00000436847,;GSN,missense_variant,p.Gly419Arg,ENST00000412819,;GSN,missense_variant,p.Gly419Arg,ENST00000373808,;GSN,downstream_gene_variant,,ENST00000432226,;GSN,downstream_gene_variant,,ENST00000485767,;GSN,downstream_gene_variant,,ENST00000483960,;	A	ENSG00000148180	ENST00000373818	Transcript	missense_variant	1477	1408	470	G/R	Gga/Aga	rs758669795	.	.	1	GSN	HGNC	4620	protein_coding	YES	CCDS6828.1	ENSP00000362924	GELS_HUMAN	Q5T0I0_HUMAN	UPI000012B3B4	.	deleterious(0)	probably_damaging(0.981)	10/17	.	Prints_domain:PR00597,Superfamily_domains:SSF55753,SMART_domains:SM00262,Gene3D:3.40.20.10,Pfam_domain:PF00626,hmmpanther:PTHR11977:SF29,hmmpanther:PTHR11977	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTATGGAGGC	.	5	BLCA
RC3H2	0	.	GRCh37	9	125621378	125621378	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1853A>T	p.Tyr618Phe	p.Y618F	ENST00000373670	11/20	32	12	20	29	29	0	RC3H2,missense_variant,p.Tyr618Phe,ENST00000373670,;RC3H2,missense_variant,p.Tyr618Phe,ENST00000423239,;RC3H2,missense_variant,p.Tyr618Phe,ENST00000357244,;RC3H2,upstream_gene_variant,,ENST00000398671,;RC3H2,upstream_gene_variant,,ENST00000454740,;RC3H2,3_prime_UTR_variant,,ENST00000498479,;	A	ENSG00000056586	ENST00000373670	Transcript	missense_variant	2454	1853	618	Y/F	tAc/tTc	.	.	.	-1	RC3H2	HGNC	21461	protein_coding	YES	CCDS43874.1	ENSP00000362774	RC3H2_HUMAN	.	UPI0000048D91	.	tolerated(0.12)	probably_damaging(0.952)	11/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13139,hmmpanther:PTHR13139:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATAGTATCCT	.	5	BLCA
CIZ1	0	.	GRCh37	9	130940677	130940681	+	Frame_Shift_Del	DEL	ATTCT	ATTCT	-	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	ATTCT	ATTCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1587_1591delAGAAT	p.Glu530Ter	p.E530*	ENST00000393608	9/17	237	188	49	194	194	0	CIZ1,frameshift_variant,p.Glu501Ter,ENST00000325721,;CIZ1,frameshift_variant,p.Glu474Ter,ENST00000372948,;CIZ1,frameshift_variant,p.Glu502Ter,ENST00000357558,;CIZ1,frameshift_variant,p.Glu452Ter,ENST00000415526,;CIZ1,frameshift_variant,p.Glu530Ter,ENST00000538431,;CIZ1,frameshift_variant,p.Glu530Ter,ENST00000372938,;CIZ1,frameshift_variant,p.Glu502Ter,ENST00000277465,;CIZ1,frameshift_variant,p.Glu429Ter,ENST00000541172,;CIZ1,frameshift_variant,p.Glu530Ter,ENST00000393608,;CIZ1,frameshift_variant,p.Glu450Ter,ENST00000372954,;CIZ1,downstream_gene_variant,,ENST00000324544,;CIZ1,non_coding_transcript_exon_variant,,ENST00000476239,;CIZ1,non_coding_transcript_exon_variant,,ENST00000475471,;CIZ1,intron_variant,,ENST00000476727,;CIZ1,downstream_gene_variant,,ENST00000498156,;CIZ1,downstream_gene_variant,,ENST00000474442,;CIZ1,downstream_gene_variant,,ENST00000467178,;CIZ1,downstream_gene_variant,,ENST00000491954,;CIZ1,downstream_gene_variant,,ENST00000488559,;CIZ1,upstream_gene_variant,,ENST00000471839,;	-	ENSG00000148337	ENST00000393608	Transcript	frameshift_variant	1790-1794	1587-1591	529-531	GEC/GX	ggAGAATgt/gggt	.	.	.	-1	CIZ1	HGNC	16744	protein_coding	YES	CCDS6894.1	ENSP00000377232	CIZ1_HUMAN	Q9Y3F8_HUMAN,F6WSM2_HUMAN,F6VD24_HUMAN,B0EXJ7_HUMAN	UPI0000141722	.	.	.	9/17	.	hmmpanther:PTHR15491:SF9,hmmpanther:PTHR15491	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTCACATTCTCCCAC	.	3	BLCA
ODF2	0	.	GRCh37	9	131250230	131250230	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1462G>T	p.Asp488Tyr	p.D488Y	ENST00000434106	14/21	45	16	29	43	43	0	ODF2,missense_variant,p.Asp532Tyr,ENST00000372814,;ODF2,missense_variant,p.Asp407Tyr,ENST00000448249,;ODF2,missense_variant,p.Asp483Tyr,ENST00000351030,;ODF2,missense_variant,p.Asp464Tyr,ENST00000393527,;ODF2,missense_variant,p.Asp488Tyr,ENST00000604420,;ODF2,missense_variant,p.Asp464Tyr,ENST00000444119,;ODF2,missense_variant,p.Asp488Tyr,ENST00000434106,;ODF2,missense_variant,p.Asp469Tyr,ENST00000372791,;ODF2,missense_variant,p.Asp469Tyr,ENST00000546203,;ODF2,missense_variant,p.Asp483Tyr,ENST00000372807,;ODF2,missense_variant,p.Asp488Tyr,ENST00000393533,;ODF2,downstream_gene_variant,,ENST00000421776,;ODF2,upstream_gene_variant,,ENST00000483070,;ODF2,downstream_gene_variant,,ENST00000535026,;	T	ENSG00000136811	ENST00000434106	Transcript	missense_variant	1825	1462	488	D/Y	Gat/Tat	.	.	.	1	ODF2	HGNC	8114	protein_coding	YES	CCDS56588.1	ENSP00000403453	ODFP2_HUMAN	S4R462_HUMAN,Q9UNM2_HUMAN,Q6PJQ8_HUMAN,Q5T4C7_HUMAN	UPI0000211922	.	deleterious(0)	possibly_damaging(0.866)	14/21	.	hmmpanther:PTHR23162:SF8,hmmpanther:PTHR23162	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCGGGATAGC	.	5	BLCA
ZER1	0	.	GRCh37	9	131503856	131503856	+	Silent	SNP	G	G	A	rs776701903	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1695C>T	p.%3D	p.F565F	ENST00000291900	11/16	133	100	32	136	136	0	ZER1,synonymous_variant,p.%3D,ENST00000291900,;	A	ENSG00000160445	ENST00000291900	Transcript	synonymous_variant	2102	1695	565	F	ttC/ttT	rs776701903	.	.	-1	ZER1	HGNC	30960	protein_coding	YES	CCDS6910.1	ENSP00000291900	ZER1_HUMAN	Q05BR7_HUMAN	UPI000013E085	.	.	.	11/16	.	Superfamily_domains:SSF48371,SMART_domains:SM00185,Gene3D:1.25.10.10,hmmpanther:PTHR12904:SF22,hmmpanther:PTHR12904	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAGGAACAT	.	5	BLCA
SARDH	0	.	GRCh37	9	136599224	136599224	+	Silent	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>A	p.%3D	p.G24G	ENST00000371872	2/21	28	15	13	29	29	0	SARDH,synonymous_variant,p.%3D,ENST00000439388,;SARDH,synonymous_variant,p.%3D,ENST00000298628,;SARDH,synonymous_variant,p.%3D,ENST00000371872,;SARDH,synonymous_variant,p.%3D,ENST00000427237,;SARDH,intron_variant,,ENST00000422262,;SARDH,upstream_gene_variant,,ENST00000371867,;	T	ENSG00000123453	ENST00000371872	Transcript	synonymous_variant	330	72	24	G	ggG/ggA	.	.	.	-1	SARDH	HGNC	10536	protein_coding	YES	CCDS6978.1	ENSP00000360938	SARDH_HUMAN	Q5SYV1_HUMAN,B4DPI2_HUMAN	UPI000006F076	.	.	.	2/21	.	hmmpanther:PTHR13847,hmmpanther:PTHR13847:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGGCCCCAT	.	5	BLCA
ADAMTSL1	0	.	GRCh37	9	18777729	18777729	+	Missense_Mutation	SNP	C	C	T	rs779175944	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3502C>T	p.Arg1168Cys	p.R1168C	ENST00000380548	19/29	33	24	9	48	48	0	ADAMTSL1,missense_variant,p.Arg1168Cys,ENST00000380548,;ADAMTSL1,non_coding_transcript_exon_variant,,ENST00000380559,;	T	ENSG00000178031	ENST00000380548	Transcript	missense_variant	3841	3502	1168	R/C	Cgc/Tgc	rs779175944,COSM3358330	.	.	1	ADAMTSL1	HGNC	14632	protein_coding	YES	CCDS47954.1	ENSP00000369921	ATL1_HUMAN	H7BYE3_HUMAN	UPI000004FD83	.	deleterious(0)	probably_damaging(0.915)	19/29	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13723:SF157,hmmpanther:PTHR13723	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTGCGCAAG	byFrequency	5	BLCA
NFX1	0	.	GRCh37	9	33354118	33354118	+	Missense_Mutation	SNP	G	G	C	rs368831263	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2764G>C	p.Asp922His	p.D922H	ENST00000379540	18/24	18	13	4	31	31	0	NFX1,missense_variant,p.Asp922His,ENST00000379540,;NFX1,missense_variant,p.Asp922His,ENST00000379521,;Y_RNA,upstream_gene_variant,,ENST00000363674,;NFX1,downstream_gene_variant,,ENST00000466971,;	C	ENSG00000086102	ENST00000379540	Transcript	missense_variant	2826	2764	922	D/H	Gac/Cac	rs368831263	.	.	1	NFX1	HGNC	7803	protein_coding	YES	CCDS6538.1	ENSP00000368856	NFX1_HUMAN	.	UPI0000072140	.	deleterious(0)	probably_damaging(0.957)	18/24	.	hmmpanther:PTHR12360,hmmpanther:PTHR12360:SF0	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACAGACATG	byFrequency|byCluster	5	BLCA
VPS13A	0	.	GRCh37	9	79910566	79910566	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3616A>G	p.Arg1206Gly	p.R1206G	ENST00000360280	33/72	122	56	66	145	145	0	VPS13A,missense_variant,p.Arg1206Gly,ENST00000357409,;VPS13A,missense_variant,p.Arg1206Gly,ENST00000376634,;VPS13A,missense_variant,p.Arg1167Gly,ENST00000376636,;VPS13A,missense_variant,p.Arg1206Gly,ENST00000360280,;VPS13A,non_coding_transcript_exon_variant,,ENST00000423463,;VPS13A,missense_variant,p.Arg42Gly,ENST00000493341,;	G	ENSG00000197969	ENST00000360280	Transcript	missense_variant	3876	3616	1206	R/G	Aga/Gga	.	.	.	1	VPS13A	HGNC	1908	protein_coding	YES	CCDS6655.1	ENSP00000353422	VP13A_HUMAN	.	UPI0000210B7A	.	deleterious(0)	probably_damaging(0.999)	33/72	.	hmmpanther:PTHR16166,hmmpanther:PTHR16166:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCCAGAATG	.	5	BLCA
MORF4L2	0	.	GRCh37	X	102931422	102931422	+	Silent	SNP	C	C	T	rs141716716	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.534G>A	p.%3D	p.A178A	ENST00000423833	3/3	134	21	113	100	100	0	MORF4L2,synonymous_variant,p.%3D,ENST00000423833,;MORF4L2,synonymous_variant,p.%3D,ENST00000441076,;MORF4L2,synonymous_variant,p.%3D,ENST00000422154,;MORF4L2,synonymous_variant,p.%3D,ENST00000433176,;MORF4L2,synonymous_variant,p.%3D,ENST00000451301,;MORF4L2,synonymous_variant,p.%3D,ENST00000360458,;MORF4L2,downstream_gene_variant,,ENST00000442614,;MORF4L2,downstream_gene_variant,,ENST00000418819,;MORF4L2,downstream_gene_variant,,ENST00000422355,;MORF4L2,downstream_gene_variant,,ENST00000434230,;MORF4L2,downstream_gene_variant,,ENST00000467755,;MORF4L2,downstream_gene_variant,,ENST00000474653,;MORF4L2,downstream_gene_variant,,ENST00000492116,;MORF4L2,downstream_gene_variant,,ENST00000498064,;	T	ENSG00000123562	ENST00000423833	Transcript	synonymous_variant	1760	534	178	A	gcG/gcA	rs141716716	.	.	-1	MORF4L2	HGNC	16849	protein_coding	YES	CCDS14512.1	ENSP00000416120	MO4L2_HUMAN	Q5JXX6_HUMAN,Q5JXX4_HUMAN,Q5JXX3_HUMAN,Q5JXX2_HUMAN,Q5JXX1_HUMAN,B4DXQ8_HUMAN,B3KWX6_HUMAN	UPI000012F567	.	.	.	3/3	.	PROSITE_profiles:PS51640,hmmpanther:PTHR10880:SF25,hmmpanther:PTHR10880,Pfam_domain:PF05712	T:0.0003	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTAACCGCATA	byCluster|by1000G	5	BLCA
GUCY2F	0	.	GRCh37	X	108619345	108619345	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3202A>G	p.Lys1068Glu	p.K1068E	ENST00000218006	18/20	269	36	232	179	179	0	GUCY2F,missense_variant,p.Lys1068Glu,ENST00000218006,;	C	ENSG00000101890	ENST00000218006	Transcript	missense_variant	3494	3202	1068	K/E	Aag/Gag	.	.	.	-1	GUCY2F	HGNC	4691	protein_coding	YES	CCDS14545.1	ENSP00000218006	GUC2F_HUMAN	.	UPI000013C740	.	deleterious(0)	probably_damaging(0.98)	18/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11920:SF278,hmmpanther:PTHR11920	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTTCATGA	.	5	BLCA
STAG2	0	.	GRCh37	X	123197030	123197031	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1797dupA	p.Tyr600IlefsTer35	p.Y600Ifs*35	ENST00000218089	19/35	85	46	39	23	23	0	STAG2,frameshift_variant,p.Tyr600IlefsTer35,ENST00000371160,;STAG2,frameshift_variant,p.Tyr531IlefsTer35,ENST00000354548,;STAG2,frameshift_variant,p.Tyr600IlefsTer35,ENST00000371157,;STAG2,frameshift_variant,p.Tyr600IlefsTer35,ENST00000371144,;STAG2,frameshift_variant,p.Tyr600IlefsTer35,ENST00000218089,;STAG2,frameshift_variant,p.Tyr600IlefsTer35,ENST00000371145,;STAG2,downstream_gene_variant,,ENST00000455404,;STAG2,non_coding_transcript_exon_variant,,ENST00000466748,;STAG2,non_coding_transcript_exon_variant,,ENST00000471107,;STAG2,intron_variant,,ENST00000469481,;STAG2,downstream_gene_variant,,ENST00000483575,;	A	ENSG00000101972	ENST00000218089	Transcript	frameshift_variant	2306-2307	1796-1797	599	I/IX	ata/atAa	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	.	.	19/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGAAATATATA	.	3	BLCA
SLITRK2	0	.	GRCh37	X	144906347	144906347	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2404G>A	p.Val802Ile	p.V802I	ENST00000370490	1/1	154	29	124	111	111	0	SLITRK2,missense_variant,p.Val802Ile,ENST00000370490,;SLITRK2,missense_variant,p.Val802Ile,ENST00000434188,;SLITRK2,missense_variant,p.Val802Ile,ENST00000428560,;SLITRK2,missense_variant,p.Val802Ile,ENST00000413937,;SLITRK2,missense_variant,p.Val802Ile,ENST00000447897,;TMEM257,upstream_gene_variant,,ENST00000408967,;SLITRK2,downstream_gene_variant,,ENST00000335565,;	A	ENSG00000185985	ENST00000370490	Transcript	missense_variant	6659	2404	802	V/I	Gtt/Att	.	.	.	1	SLITRK2	HGNC	13449	protein_coding	YES	CCDS14680.1	ENSP00000359521	SLIK2_HUMAN	B3KTY4_HUMAN	UPI000004E64B	.	tolerated(0.32)	benign(0.252)	1/1	.	hmmpanther:PTHR24373:SF36,hmmpanther:PTHR24373	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACCGTTTTA	.	5	BLCA
PPEF1	0	.	GRCh37	X	18725943	18725943	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44C>T	p.Thr15Ile	p.T15I	ENST00000361511	4/19	51	12	38	48	48	0	PPEF1,missense_variant,p.Thr15Ile,ENST00000543630,;PPEF1,missense_variant,p.Thr15Ile,ENST00000349874,;PPEF1,missense_variant,p.Thr15Ile,ENST00000359763,;PPEF1,missense_variant,p.Thr15Ile,ENST00000361511,;PPEF1,splice_region_variant,,ENST00000472826,;PPEF1,splice_region_variant,,ENST00000496075,;PPEF1,splice_region_variant,,ENST00000544635,;PPEF1,splice_region_variant,,ENST00000471570,;PPEF1,splice_region_variant,,ENST00000496616,;	T	ENSG00000086717	ENST00000361511	Transcript	missense_variant	538	44	15	T/I	aCa/aTa	.	.	.	1	PPEF1	HGNC	9243	protein_coding	YES	CCDS14188.1	ENSP00000354871	PPE1_HUMAN	C9JY08_HUMAN,B7Z6R7_HUMAN,B7Z353_HUMAN	UPI0000001C4F	.	tolerated(0.21)	benign(0)	4/19	.	Low_complexity_(Seg):seg,SMART_domains:SM00015,PIRSF_domain:PIRSF000912,hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACACATGTG	.	5	BLCA
PHKA1	0	.	GRCh37	X	71825148	71825148	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2788G>T	p.Glu930Ter	p.E930*	ENST00000373542	25/32	68	8	60	43	43	0	PHKA1,stop_gained,p.Glu871Ter,ENST00000373545,;PHKA1,stop_gained,p.Glu930Ter,ENST00000339490,;PHKA1,stop_gained,p.Glu930Ter,ENST00000373542,;PHKA1,stop_gained,p.Glu871Ter,ENST00000541944,;PHKA1,stop_gained,p.Glu930Ter,ENST00000373539,;	A	ENSG00000067177	ENST00000373542	Transcript	stop_gained	2948	2788	930	E/*	Gaa/Taa	COSM3563269,COSM3563270	.	.	-1	PHKA1	HGNC	8925	protein_coding	YES	CCDS14421.1	ENSP00000362643	KPB1_HUMAN	.	UPI000013D340	.	.	.	25/32	.	hmmpanther:PTHR10749:SF4,hmmpanther:PTHR10749	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTCTGTTG	.	5	BLCA
UPRT	0	.	GRCh37	X	74494186	74494186	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-PQ-A6FI-01A-11D-A31L-08	TCGA-PQ-A6FI-10A-01D-A31J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.97G>T	p.Asp33Tyr	p.D33Y	ENST00000373383	1/7	20	0	20	22	22	0	UPRT,missense_variant,p.Asp33Tyr,ENST00000373379,;UPRT,missense_variant,p.Asp33Tyr,ENST00000373383,;UPRT,upstream_gene_variant,,ENST00000530743,;UPRT,non_coding_transcript_exon_variant,,ENST00000531704,;UPRT,missense_variant,p.Asp33Tyr,ENST00000373373,;UPRT,missense_variant,p.Asp33Tyr,ENST00000462237,;	T	ENSG00000094841	ENST00000373383	Transcript	missense_variant	264	97	33	D/Y	Gat/Tat	COSM1125289	.	.	1	UPRT	HGNC	28334	protein_coding	YES	CCDS14429.1	ENSP00000362481	UPP_HUMAN	E9PSD7_HUMAN,A8KAF9_HUMAN	UPI000004B62E	.	deleterious_low_confidence(0)	possibly_damaging(0.897)	1/7	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGCGATCTG	.	5	BLCA
EIF3A	0	.	GRCh37	10	120801902	120801902	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3130G>A	p.Asp1044Asn	p.D1044N	ENST00000369144	19/22	147	122	24	129	129	0	EIF3A,missense_variant,p.Asp1010Asn,ENST00000541549,;EIF3A,missense_variant,p.Asp1044Asn,ENST00000369144,;	T	ENSG00000107581	ENST00000369144	Transcript	missense_variant	3258	3130	1044	D/N	Gat/Aat	.	.	.	-1	EIF3A	HGNC	3271	protein_coding	YES	CCDS7608.1	ENSP00000358140	EIF3A_HUMAN	F5H335_HUMAN	UPI000012D311	.	deleterious(0)	possibly_damaging(0.637)	19/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14005:SF0,hmmpanther:PTHR14005	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCATCATCCA	.	5	BLCA
FAM45A	0	.	GRCh37	10	120871423	120871423	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315C>T	p.%3D	p.F105F	ENST00000361432	3/9	126	102	23	90	90	0	FAM45A,missense_variant,p.Ser4Leu,ENST00000544016,;FAM45A,synonymous_variant,p.%3D,ENST00000535029,;FAM45A,synonymous_variant,p.%3D,ENST00000361432,;FAM45A,non_coding_transcript_exon_variant,,ENST00000493766,;FAM45A,non_coding_transcript_exon_variant,,ENST00000487888,;FAM45A,intron_variant,,ENST00000448258,;FAM45A,upstream_gene_variant,,ENST00000489988,;FAM45A,downstream_gene_variant,,ENST00000497903,;	T	ENSG00000119979	ENST00000361432	Transcript	synonymous_variant	341	315	105	F	ttC/ttT	.	.	.	1	FAM45A	HGNC	31793	protein_coding	YES	CCDS7609.1	ENSP00000354688	FA45A_HUMAN	.	UPI0000071DBA	.	.	.	3/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCACTAG	.	5	BLCA
WDR11	0	.	GRCh37	10	122630715	122630715	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1328G>C	p.Arg443Thr	p.R443T	ENST00000263461	10/29	64	32	32	60	60	0	WDR11,missense_variant,p.Arg443Thr,ENST00000263461,;WDR11,missense_variant,p.Arg184Thr,ENST00000604585,;WDR11,non_coding_transcript_exon_variant,,ENST00000604220,;WDR11,missense_variant,p.Gln149His,ENST00000497136,;WDR11,intron_variant,,ENST00000605543,;	C	ENSG00000120008	ENST00000263461	Transcript	missense_variant	1574	1328	443	R/T	aGa/aCa	COSM380817	.	.	1	WDR11	HGNC	13831	protein_coding	YES	CCDS7619.1	ENSP00000263461	WDR11_HUMAN	S4R3Z0_HUMAN,Q9NWV7_HUMAN,Q659C9_HUMAN	UPI0000138ED1	.	tolerated(0.42)	benign(0)	10/29	.	hmmpanther:PTHR14593	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCAGAGGTT	.	5	BLCA
ZRANB1	0	.	GRCh37	10	126671870	126671870	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1675C>T	p.Gln559Ter	p.Q559*	ENST00000359653	7/9	106	90	16	92	92	0	ZRANB1,stop_gained,p.Gln559Ter,ENST00000359653,;CTBP2,downstream_gene_variant,,ENST00000337195,;ZRANB1,non_coding_transcript_exon_variant,,ENST00000471421,;	T	ENSG00000019995	ENST00000359653	Transcript	stop_gained	2046	1675	559	Q/*	Caa/Taa	.	.	.	1	ZRANB1	HGNC	18224	protein_coding	YES	CCDS7642.1	ENSP00000352676	ZRAN1_HUMAN	.	UPI000013C53E	.	.	.	7/9	.	PROSITE_profiles:PS50802,hmmpanther:PTHR13367,Pfam_domain:PF02338	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCAAGGT	.	5	BLCA
PLXDC2	0	.	GRCh37	10	20290724	20290724	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133C>G	p.Gln45Glu	p.Q45E	ENST00000377252	2/14	27	24	3	33	33	0	PLXDC2,missense_variant,p.Gln45Glu,ENST00000377242,;PLXDC2,missense_variant,p.Gln45Glu,ENST00000377252,;	G	ENSG00000120594	ENST00000377252	Transcript	missense_variant	974	133	45	Q/E	Cag/Gag	.	.	.	1	PLXDC2	HGNC	21013	protein_coding	YES	CCDS7132.1	ENSP00000366460	PXDC2_HUMAN	.	UPI0000048F2C	.	tolerated_low_confidence(0.39)	benign(0.005)	2/14	.	hmmpanther:PTHR13055:SF11,hmmpanther:PTHR13055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTACTCAGGCC	.	2	BLCA
PDSS1	0	.	GRCh37	10	26993640	26993640	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.197C>A	p.Ser66Tyr	p.S66Y	ENST00000376215	3/12	107	87	19	95	95	0	PDSS1,missense_variant,p.Ser66Tyr,ENST00000376203,;PDSS1,missense_variant,p.Ser66Tyr,ENST00000376215,;PDSS1,upstream_gene_variant,,ENST00000473224,;	A	ENSG00000148459	ENST00000376215	Transcript	missense_variant	250	197	66	S/Y	tCt/tAt	COSM4013520	.	.	1	PDSS1	HGNC	17759	protein_coding	YES	CCDS31168.1	ENSP00000365388	DPS1_HUMAN	.	UPI000013DB22	.	tolerated_low_confidence(0.14)	benign(0.312)	3/12	.	hmmpanther:PTHR12001,hmmpanther:PTHR12001:SF47	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACATCTGCCT	.	5	BLCA
ARMC4	0	.	GRCh37	10	28250520	28250520	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1363C>T	p.Gln455Ter	p.Q455*	ENST00000305242	10/20	87	82	5	84	84	0	ARMC4,stop_gained,p.Gln455Ter,ENST00000305242,;ARMC4,stop_gained,p.Gln312Ter,ENST00000239715,;ARMC4,stop_gained,p.Gln349Ter,ENST00000434029,;ARMC4,stop_gained,p.Gln147Ter,ENST00000537576,;ARMC4,5_prime_UTR_variant,,ENST00000545014,;ARMC4,non_coding_transcript_exon_variant,,ENST00000480504,;	A	ENSG00000169126	ENST00000305242	Transcript	stop_gained	1456	1363	455	Q/*	Cag/Tag	.	.	.	-1	ARMC4	HGNC	25583	protein_coding	YES	CCDS7157.1	ENSP00000306410	ARMC4_HUMAN	R4GN11_HUMAN,A8K906_HUMAN	UPI00001A95E1	.	.	.	10/20	.	hmmpanther:PTHR23315:SF67,hmmpanther:PTHR23315,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.V352V|c.1056G>A|3,BUFFER|p.V458V|c.1374G>A|3	MUTECT|MUSE	CTTCTGAATTT	.	2	BLCA
NRP1	0	.	GRCh37	10	33495214	33495214	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1759+1286G>A	.	.	ENST00000265371	.	41	35	6	42	42	0	NRP1,synonymous_variant,p.%3D,ENST00000374816,;NRP1,intron_variant,,ENST00000374875,;NRP1,intron_variant,,ENST00000374822,;NRP1,intron_variant,,ENST00000374823,;NRP1,intron_variant,,ENST00000374821,;NRP1,intron_variant,,ENST00000395995,;NRP1,intron_variant,,ENST00000374867,;NRP1,intron_variant,,ENST00000265371,;NRP1,intron_variant,,ENST00000466932,;NRP1,intron_variant,,ENST00000431894,;NRP1,upstream_gene_variant,,ENST00000418675,;RP11-342D11.2,upstream_gene_variant,,ENST00000451530,;	T	ENSG00000099250	ENST00000265371	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	NRP1	HGNC	8004	protein_coding	YES	CCDS7177.1	ENSP00000265371	NRP1_HUMAN	Q9H2E0_HUMAN,Q9H2D9_HUMAN,Q9H2D8_HUMAN,Q9H2D7_HUMAN,Q7Z5M2_HUMAN	UPI000013D60A	.	.	.	.	11/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCTTCTT	.	5	BLCA
FZD8	0	.	GRCh37	10	35928534	35928534	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1824G>A	p.%3D	p.K608K	ENST00000374694	1/1	24	15	9	24	24	0	FZD8,synonymous_variant,p.%3D,ENST00000374694,;MIR4683,downstream_gene_variant,,ENST00000579659,;	T	ENSG00000177283	ENST00000374694	Transcript	synonymous_variant	1829	1824	608	K	aaG/aaA	.	.	.	-1	FZD8	HGNC	4046	protein_coding	YES	CCDS7192.1	ENSP00000363826	FZD8_HUMAN	.	UPI0000047F3B	.	.	.	1/1	.	PROSITE_profiles:PS50261,hmmpanther:PTHR11309:SF77,hmmpanther:PTHR11309,Pfam_domain:PF01534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCGTCTTGCC	.	5	BLCA
DNAJC12	0	.	GRCh37	10	69583135	69583135	+	Missense_Mutation	SNP	C	C	T	rs762376764	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.94G>A	p.Ala32Thr	p.A32T	ENST00000225171	2/5	69	64	5	59	59	0	DNAJC12,missense_variant,p.Ala32Thr,ENST00000339758,;DNAJC12,missense_variant,p.Ala32Thr,ENST00000483798,;DNAJC12,missense_variant,p.Ala32Thr,ENST00000225171,;RN7SL394P,downstream_gene_variant,,ENST00000480997,;DNAJC12,missense_variant,p.Ala32Thr,ENST00000480963,;DNAJC12,3_prime_UTR_variant,,ENST00000480180,;	T	ENSG00000108176	ENST00000225171	Transcript	missense_variant	247	94	32	A/T	Gca/Aca	rs762376764,COSM1321257,COSM1321258	.	.	-1	DNAJC12	HGNC	28908	protein_coding	YES	CCDS7271.1	ENSP00000225171	DJC12_HUMAN	Q6IAH1_HUMAN	UPI000012DAAA	.	tolerated(0.18)	benign(0.085)	2/5	.	PROSITE_profiles:PS50076,hmmpanther:PTHR24078:SF137,hmmpanther:PTHR24078,Pfam_domain:PF00226,Gene3D:1.10.287.110,SMART_domains:SM00271,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTGCCAGGA	.	2	BLCA
SIRT1	0	.	GRCh37	10	69672522	69672522	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1649C>A	p.Ser550Ter	p.S550*	ENST00000212015	8/9	97	57	39	78	78	0	SIRT1,stop_gained,p.Ser255Ter,ENST00000432464,;SIRT1,stop_gained,p.Ser247Ter,ENST00000403579,;SIRT1,stop_gained,p.Ser550Ter,ENST00000212015,;SIRT1,stop_gained,p.Ser247Ter,ENST00000406900,;	A	ENSG00000096717	ENST00000212015	Transcript	stop_gained	1702	1649	550	S/*	tCa/tAa	.	.	.	1	SIRT1	HGNC	14929	protein_coding	YES	CCDS7273.1	ENSP00000212015	SIR1_HUMAN	E9PC49_HUMAN,A8K128_HUMAN	UPI0000073E1A	.	.	.	8/9	.	hmmpanther:PTHR11085:SF15,hmmpanther:PTHR11085	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAGTGA	.	5	BLCA
TAF3	0	.	GRCh37	10	8006971	8006971	+	Missense_Mutation	SNP	C	C	A	rs748291820	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1498C>A	p.Pro500Thr	p.P500T	ENST00000344293	3/7	87	73	14	67	67	0	TAF3,missense_variant,p.Pro500Thr,ENST00000344293,;	A	ENSG00000165632	ENST00000344293	Transcript	missense_variant	1704	1498	500	P/T	Ccc/Acc	rs748291820	.	.	1	TAF3	HGNC	17303	protein_coding	YES	CCDS41487.1	ENSP00000340271	TAF3_HUMAN	.	UPI00004588FA	.	deleterious_low_confidence(0)	probably_damaging(0.996)	3/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12321:SF34,hmmpanther:PTHR12321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCCACT	.	5	BLCA
MUC6	0	.	GRCh37	11	1016061	1016061	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6740C>T	p.Ala2247Val	p.A2247V	ENST00000421673	31/33	121	97	24	93	93	0	MUC6,missense_variant,p.Ala32Val,ENST00000532016,;MUC6,missense_variant,p.Ala2247Val,ENST00000421673,;MUC6,downstream_gene_variant,,ENST00000527242,;AP2A2,downstream_gene_variant,,ENST00000448903,;	A	ENSG00000184956	ENST00000421673	Transcript	missense_variant	6791	6740	2247	A/V	gCa/gTa	.	.	.	-1	MUC6	HGNC	7517	protein_coding	YES	CCDS44513.1	ENSP00000406861	MUC6_HUMAN	Q6W3D1_HUMAN,H9XFC0_HUMAN,H9XFB9_HUMAN,H9XFB8_HUMAN,H9XFB7_HUMAN	UPI0000251DBE	.	.	benign(0.003)	31/33	.	hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAATGCAATG	.	5	BLCA
BUD13	0	.	GRCh37	11	116633853	116633853	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.452C>G	p.Ser151Cys	p.S151C	ENST00000260210	4/10	98	74	24	94	94	0	BUD13,missense_variant,p.Ser151Cys,ENST00000260210,;BUD13,missense_variant,p.Ser151Cys,ENST00000375445,;BUD13,upstream_gene_variant,,ENST00000419189,;	C	ENSG00000137656	ENST00000260210	Transcript	missense_variant	476	452	151	S/C	tCt/tGt	.	.	.	-1	BUD13	HGNC	28199	protein_coding	YES	CCDS8374.1	ENSP00000260210	BUD13_HUMAN	.	UPI0000072AE6	.	deleterious(0)	probably_damaging(0.95)	4/10	.	hmmpanther:PTHR31809	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGGAGATGGA	.	5	BLCA
FXYD6	0	.	GRCh37	11	117710415	117710415	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*21+81G>C	.	.	ENST00000526014	.	33	26	7	41	41	0	FXYD6,3_prime_UTR_variant,,ENST00000530956,;FXYD6,3_prime_UTR_variant,,ENST00000527429,;FXYD6,intron_variant,,ENST00000540359,;FXYD6,intron_variant,,ENST00000529335,;FXYD6,intron_variant,,ENST00000524656,;FXYD6,intron_variant,,ENST00000260282,;FXYD6,intron_variant,,ENST00000584394,;FXYD6,intron_variant,,ENST00000539526,;FXYD6,intron_variant,,ENST00000527717,;FXYD6-FXYD2,intron_variant,,ENST00000532984,;FXYD6,intron_variant,,ENST00000526014,;FXYD6,downstream_gene_variant,,ENST00000584230,;RP11-728F11.4,downstream_gene_variant,,ENST00000581173,;RP11-728F11.4,downstream_gene_variant,,ENST00000534150,;RP11-728F11.4,downstream_gene_variant,,ENST00000525260,;FXYD6,intron_variant,,ENST00000583233,;FXYD6,downstream_gene_variant,,ENST00000579486,;FXYD6,intron_variant,,ENST00000583660,;FXYD6,intron_variant,,ENST00000524841,;FXYD6,downstream_gene_variant,,ENST00000534125,;FXYD6,downstream_gene_variant,,ENST00000527053,;	G	ENSG00000137726	ENST00000526014	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FXYD6	HGNC	4030	protein_coding	YES	CCDS8387.1	ENSP00000433312	FXYD6_HUMAN	.	UPI0000037BAF	.	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCCTTCC	.	5	BLCA
FXYD6	0	.	GRCh37	11	117710499	117710499	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18G>A	.	.	ENST00000526014	7/8	87	75	12	80	80	0	FXYD6,missense_variant,p.Gly93Glu,ENST00000529335,;FXYD6,missense_variant,p.Glu86Lys,ENST00000584394,;FXYD6-FXYD2,missense_variant,p.Gly90Glu,ENST00000532984,;FXYD6,3_prime_UTR_variant,,ENST00000540359,;FXYD6,3_prime_UTR_variant,,ENST00000524656,;FXYD6,3_prime_UTR_variant,,ENST00000260282,;FXYD6,3_prime_UTR_variant,,ENST00000539526,;FXYD6,3_prime_UTR_variant,,ENST00000527717,;FXYD6,3_prime_UTR_variant,,ENST00000530956,;FXYD6,3_prime_UTR_variant,,ENST00000526014,;FXYD6,3_prime_UTR_variant,,ENST00000527429,;FXYD6,downstream_gene_variant,,ENST00000584230,;RP11-728F11.4,downstream_gene_variant,,ENST00000581173,;RP11-728F11.4,downstream_gene_variant,,ENST00000534150,;RP11-728F11.4,downstream_gene_variant,,ENST00000525260,;FXYD6,non_coding_transcript_exon_variant,,ENST00000579486,;FXYD6,non_coding_transcript_exon_variant,,ENST00000583233,;FXYD6,3_prime_UTR_variant,,ENST00000524841,;FXYD6,non_coding_transcript_exon_variant,,ENST00000583660,;FXYD6,downstream_gene_variant,,ENST00000534125,;FXYD6,downstream_gene_variant,,ENST00000527053,;	T	ENSG00000137726	ENST00000526014	Transcript	3_prime_UTR_variant	902	.	.	.	.	.	.	.	-1	FXYD6	HGNC	4030	protein_coding	YES	CCDS8387.1	ENSP00000433312	FXYD6_HUMAN	.	UPI0000037BAF	.	.	.	7/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCCACCT	.	4	BLCA
MCAM	0	.	GRCh37	11	119185559	119185559	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384C>T	p.%3D	p.I128I	ENST00000264036	3/16	57	39	18	56	56	0	MCAM,synonymous_variant,p.%3D,ENST00000264036,;MCAM,upstream_gene_variant,,ENST00000392814,;MCAM,non_coding_transcript_exon_variant,,ENST00000530706,;MCAM,non_coding_transcript_exon_variant,,ENST00000529686,;MCAM,non_coding_transcript_exon_variant,,ENST00000529257,;MCAM,non_coding_transcript_exon_variant,,ENST00000529295,;MCAM,non_coding_transcript_exon_variant,,ENST00000528502,;MCAM,upstream_gene_variant,,ENST00000524940,;MCAM,upstream_gene_variant,,ENST00000528976,;MCAM,downstream_gene_variant,,ENST00000530144,;MCAM,downstream_gene_variant,,ENST00000534522,;MCAM,downstream_gene_variant,,ENST00000526992,;MCAM,downstream_gene_variant,,ENST00000525555,;MCAM,non_coding_transcript_exon_variant,,ENST00000530937,;MCAM,non_coding_transcript_exon_variant,,ENST00000525586,;MCAM,non_coding_transcript_exon_variant,,ENST00000528533,;MCAM,non_coding_transcript_exon_variant,,ENST00000530006,;MCAM,non_coding_transcript_exon_variant,,ENST00000526190,;	A	ENSG00000076706	ENST00000264036	Transcript	synonymous_variant	399	384	128	I	atC/atT	.	.	.	-1	MCAM	HGNC	6934	protein_coding	YES	CCDS31690.1	ENSP00000264036	MUC18_HUMAN	.	UPI000013D4A8	.	.	.	3/16	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11973:SF18,hmmpanther:PTHR11973,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGGATGCG	.	5	BLCA
HPS5	0	.	GRCh37	11	18320406	18320406	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1097G>T	p.Arg366Ile	p.R366I	ENST00000349215	10/23	99	83	16	83	83	0	HPS5,missense_variant,p.Arg252Ile,ENST00000531848,;HPS5,missense_variant,p.Arg252Ile,ENST00000438420,;HPS5,missense_variant,p.Arg366Ile,ENST00000349215,;HPS5,missense_variant,p.Arg252Ile,ENST00000396253,;HPS5,upstream_gene_variant,,ENST00000544218,;HPS5,upstream_gene_variant,,ENST00000352460,;HPS5,upstream_gene_variant,,ENST00000543728,;	A	ENSG00000110756	ENST00000349215	Transcript	missense_variant	1375	1097	366	R/I	aGa/aTa	.	.	.	-1	HPS5	HGNC	17022	protein_coding	YES	CCDS7836.1	ENSP00000265967	HPS5_HUMAN	F5GWM5_HUMAN	UPI000000D7E9	.	deleterious(0)	probably_damaging(0.975)	10/23	.	hmmpanther:PTHR23287:SF15,hmmpanther:PTHR23287,PIRSF_domain:PIRSF037475	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTTAGC	.	5	BLCA
NAV2	0	.	GRCh37	11	20127225	20127225	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6970C>T	p.His2324Tyr	p.H2324Y	ENST00000396087	38/41	76	66	10	51	51	0	NAV2,missense_variant,p.His2201Tyr,ENST00000360655,;NAV2,missense_variant,p.His1329Tyr,ENST00000533917,;NAV2,missense_variant,p.His2253Tyr,ENST00000527559,;NAV2,missense_variant,p.His2265Tyr,ENST00000349880,;NAV2,missense_variant,p.His2324Tyr,ENST00000396087,;NAV2,missense_variant,p.His2268Tyr,ENST00000396085,;NAV2,missense_variant,p.His2255Tyr,ENST00000540292,;NAV2,missense_variant,p.His1329Tyr,ENST00000311043,;NAV2,non_coding_transcript_exon_variant,,ENST00000533746,;NAV2,upstream_gene_variant,,ENST00000525025,;	T	ENSG00000166833	ENST00000396087	Transcript	missense_variant	7069	6970	2324	H/Y	Cac/Tac	.	.	.	1	NAV2	HGNC	15997	protein_coding	YES	CCDS58126.1	ENSP00000379396	NAV2_HUMAN	.	UPI00001E0580	.	deleterious(0)	probably_damaging(0.956)	38/41	.	hmmpanther:PTHR12784:SF6,hmmpanther:PTHR12784,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCATCACCTC	.	4	BLCA
PAMR1	0	.	GRCh37	11	35515744	35515744	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.150G>C	p.Gln50His	p.Q50H	ENST00000278360	2/12	84	69	14	59	59	0	PAMR1,missense_variant,p.Gln10His,ENST00000532848,;PAMR1,missense_variant,p.Gln50His,ENST00000378880,;PAMR1,missense_variant,p.Gln10His,ENST00000527605,;PAMR1,missense_variant,p.Gln50His,ENST00000378878,;PAMR1,missense_variant,p.Gln50His,ENST00000278360,;PAMR1,missense_variant,p.Gln50His,ENST00000529303,;PAMR1,non_coding_transcript_exon_variant,,ENST00000534803,;	G	ENSG00000149090	ENST00000278360	Transcript	missense_variant	188	150	50	Q/H	caG/caC	.	.	.	-1	PAMR1	HGNC	24554	protein_coding	YES	CCDS7898.1	ENSP00000278360	PAMR1_HUMAN	E9PQ70_HUMAN	UPI000013DB70	.	tolerated(0.06)	probably_damaging(0.999)	2/12	.	hmmpanther:PTHR24254:SF7,hmmpanther:PTHR24254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAATCTGATC	.	5	BLCA
MAPK8IP1	0	.	GRCh37	11	45924599	45924599	+	Silent	SNP	C	C	T	rs761801234	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1281C>T	p.%3D	p.I427I	ENST00000241014	5/12	45	38	7	23	23	0	MAPK8IP1,synonymous_variant,p.%3D,ENST00000395629,;MAPK8IP1,synonymous_variant,p.%3D,ENST00000241014,;C11orf94,downstream_gene_variant,,ENST00000449465,;RP11-618K13.2,downstream_gene_variant,,ENST00000533218,;MAPK8IP1,downstream_gene_variant,,ENST00000497090,;	T	ENSG00000121653	ENST00000241014	Transcript	synonymous_variant	1451	1281	427	I	atC/atT	rs761801234	.	.	1	MAPK8IP1	HGNC	6882	protein_coding	YES	CCDS7916.1	ENSP00000241014	JIP1_HUMAN	Q59EU1_HUMAN,B4DJ64_HUMAN	UPI000003046D	.	.	.	5/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATCGGAGA	byFrequency	4	BLCA
CKAP5	0	.	GRCh37	11	46801761	46801761	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2416G>C	p.Asp806His	p.D806H	ENST00000529230	20/44	60	51	9	37	37	0	CKAP5,missense_variant,p.Asp806His,ENST00000415402,;CKAP5,missense_variant,p.Asp806His,ENST00000354558,;CKAP5,missense_variant,p.Asp806His,ENST00000312055,;CKAP5,missense_variant,p.Asp806His,ENST00000529230,;CKAP5,downstream_gene_variant,,ENST00000528593,;	G	ENSG00000175216	ENST00000529230	Transcript	missense_variant	2463	2416	806	D/H	Gat/Cat	.	.	.	-1	CKAP5	HGNC	28959	protein_coding	YES	CCDS31477.1	ENSP00000432768	CKAP5_HUMAN	E9PQH5_HUMAN	UPI000013F21E	.	deleterious(0)	probably_damaging(0.999)	20/44	.	hmmpanther:PTHR12609:SF0,hmmpanther:PTHR12609,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCATCTATCT	.	5	BLCA
LRP4	0	.	GRCh37	11	46924470	46924470	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.63C>T	p.%3D	p.S21S	ENST00000378623	2/38	39	35	4	37	37	0	LRP4,synonymous_variant,p.%3D,ENST00000378623,;LRP4,intron_variant,,ENST00000534404,;	A	ENSG00000134569	ENST00000378623	Transcript	synonymous_variant	306	63	21	S	agC/agT	.	.	.	-1	LRP4	HGNC	6696	protein_coding	YES	CCDS31478.1	ENSP00000367888	LRP4_HUMAN	.	UPI0000D625E9	.	.	.	2/38	.	hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTGCTGGC	.	4	BLCA
LRRC56	0	.	GRCh37	11	541564	541564	+	Missense_Mutation	SNP	C	C	T	rs377700269	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205C>T	p.Arg69Trp	p.R69W	ENST00000270115	5/14	54	44	10	25	25	0	LRRC56,missense_variant,p.Arg69Trp,ENST00000270115,;HRAS,upstream_gene_variant,,ENST00000468682,;	T	ENSG00000161328	ENST00000270115	Transcript	missense_variant	705	205	69	R/W	Cgg/Tgg	rs377700269	.	.	1	LRRC56	HGNC	25430	protein_coding	YES	CCDS7700.1	ENSP00000270115	LRC56_HUMAN	.	UPI000007425F	.	deleterious(0)	possibly_damaging(0.891)	5/14	.	hmmpanther:PTHR22708:SF0,hmmpanther:PTHR22708	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCGGCTG	byCluster	5	BLCA
OR8U1	0	.	GRCh37	11	56143793	56143793	+	Missense_Mutation	SNP	G	G	A	rs747760692	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694G>A	p.Glu232Lys	p.E232K	ENST00000302270	1/1	81	64	17	89	89	0	OR8U1,missense_variant,p.Glu232Lys,ENST00000302270,;	A	ENSG00000172199	ENST00000302270	Transcript	missense_variant	694	694	232	E/K	Gag/Aag	rs747760692	.	.	1	OR8U1	HGNC	19611	protein_coding	YES	CCDS41647.1	ENSP00000304188	OR8U1_HUMAN	.	UPI0000061EEF	.	deleterious(0.05)	possibly_damaging(0.7)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF107,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.H229N|c.685C>A|3,BUFFER|p.H229H|c.687T>C|3,BUFFER|p.E232E|c.696G>A|3,BUFFER|p.G233E|c.698G>A|3,BUFFER|p.Q235R|c.704A>G|3,BUFFER|p.Q235H|c.705G>C|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTGAGGGA	byFrequency	5	BLCA
OR9Q2	0	.	GRCh37	11	57958893	57958893	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931G>A	p.Ala311Thr	p.A311T	ENST00000311591	1/1	30	24	5	20	20	0	OR9Q2,missense_variant,p.Ala311Thr,ENST00000311591,;	A	ENSG00000186513	ENST00000311591	Transcript	missense_variant	988	931	311	A/T	Gct/Act	.	.	.	1	OR9Q2	HGNC	15328	protein_coding	YES	CCDS31544.1	ENSP00000308714	OR9Q2_HUMAN	.	UPI0000061ECB	.	tolerated(0.06)	benign(0.01)	1/1	.	Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	AGCCTGCTAGA	.	4	BLCA
OR4D10	0	.	GRCh37	11	59245779	59245779	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.877G>A	p.Glu293Lys	p.E293K	ENST00000530162	1/1	46	39	6	41	41	0	OR4D10,missense_variant,p.Glu293Lys,ENST00000530162,;	A	ENSG00000254466	ENST00000530162	Transcript	missense_variant	934	877	293	E/K	Gag/Aag	.	.	.	1	OR4D10	HGNC	15173	protein_coding	YES	CCDS53636.1	ENSP00000436424	OR4DA_HUMAN	.	UPI0000046485	.	deleterious(0.02)	benign(0.103)	1/1	.	hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF111,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCATGAGATG	.	3	BLCA
OR4D10	0	.	GRCh37	11	59245784	59245784	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882G>A	p.Met294Ile	p.M294I	ENST00000530162	1/1	46	40	6	38	38	0	OR4D10,missense_variant,p.Met294Ile,ENST00000530162,;	A	ENSG00000254466	ENST00000530162	Transcript	missense_variant	939	882	294	M/I	atG/atA	.	.	.	1	OR4D10	HGNC	15173	protein_coding	YES	CCDS53636.1	ENSP00000436424	OR4DA_HUMAN	.	UPI0000046485	.	deleterious(0.04)	benign(0.008)	1/1	.	hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF111,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGATGAAGTC	.	3	BLCA
OR4D10	0	.	GRCh37	11	59245827	59245827	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925G>A	p.Asp309Asn	p.D309N	ENST00000530162	1/1	23	17	6	28	28	0	OR4D10,missense_variant,p.Asp309Asn,ENST00000530162,;	A	ENSG00000254466	ENST00000530162	Transcript	missense_variant	982	925	309	D/N	Gat/Aat	.	.	.	1	OR4D10	HGNC	15173	protein_coding	YES	CCDS53636.1	ENSP00000436424	OR4DA_HUMAN	.	UPI0000046485	.	tolerated(0.19)	benign(0.002)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCTGATAGA	.	2	BLCA
OOSP2	0	.	GRCh37	11	59807968	59807968	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36G>A	p.%3D	p.L12L	ENST00000278855	1/4	145	121	24	107	107	0	OOSP2,synonymous_variant,p.%3D,ENST00000278855,;OOSP2,5_prime_UTR_variant,,ENST00000532905,;OOSP2,non_coding_transcript_exon_variant,,ENST00000527395,;	A	ENSG00000149507	ENST00000278855	Transcript	synonymous_variant	221	36	12	L	ttG/ttA	.	.	.	1	OOSP2	HGNC	26699	protein_coding	YES	CCDS7979.1	ENSP00000278855	OOSP2_HUMAN	.	UPI000000DC90	.	.	.	1/4	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR14380,hmmpanther:PTHR14380:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTGATTTG	.	4	BLCA
SLC15A3	0	.	GRCh37	11	60708718	60708718	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152G>A	p.%3D	p.L384L	ENST00000227880	5/8	19	15	4	15	15	0	SLC15A3,synonymous_variant,p.%3D,ENST00000227880,;SLC15A3,synonymous_variant,p.%3D,ENST00000537307,;SLC15A3,synonymous_variant,p.%3D,ENST00000536491,;TMEM132A,downstream_gene_variant,,ENST00000453848,;SLC15A3,upstream_gene_variant,,ENST00000536784,;TMEM132A,downstream_gene_variant,,ENST00000005286,;TMEM132A,downstream_gene_variant,,ENST00000535480,;TMEM132A,downstream_gene_variant,,ENST00000540112,;SLC15A3,non_coding_transcript_exon_variant,,ENST00000543406,;SLC15A3,intron_variant,,ENST00000541505,;SLC15A3,downstream_gene_variant,,ENST00000540272,;SLC15A3,upstream_gene_variant,,ENST00000544101,;	T	ENSG00000110446	ENST00000227880	Transcript	synonymous_variant	1386	1152	384	L	ctG/ctA	.	.	.	-1	SLC15A3	HGNC	18068	protein_coding	YES	CCDS7998.1	ENSP00000227880	S15A3_HUMAN	F5H251_HUMAN,F5GZ36_HUMAN	UPI000004433B	.	.	.	5/8	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Superfamily_domains:SSF103473,Pfam_domain:PF00854,hmmpanther:PTHR11654:SF95,hmmpanther:PTHR11654	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCAGCAC	.	5	BLCA
PHRF1	0	.	GRCh37	11	611648	611648	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4818G>C	p.Lys1606Asn	p.K1606N	ENST00000416188	18/18	32	28	4	19	19	0	PHRF1,missense_variant,p.Lys1607Asn,ENST00000264555,;PHRF1,missense_variant,p.Lys1605Asn,ENST00000413872,;PHRF1,missense_variant,p.Lys1603Asn,ENST00000533464,;PHRF1,missense_variant,p.Lys1606Asn,ENST00000416188,;IRF7,downstream_gene_variant,,ENST00000330243,;IRF7,downstream_gene_variant,,ENST00000397566,;IRF7,downstream_gene_variant,,ENST00000348655,;IRF7,downstream_gene_variant,,ENST00000525445,;IRF7,downstream_gene_variant,,ENST00000397570,;CDHR5,downstream_gene_variant,,ENST00000397542,;CDHR5,downstream_gene_variant,,ENST00000358353,;IRF7,downstream_gene_variant,,ENST00000397562,;IRF7,downstream_gene_variant,,ENST00000397574,;PHRF1,3_prime_UTR_variant,,ENST00000534320,;IRF7,downstream_gene_variant,,ENST00000527160,;IRF7,downstream_gene_variant,,ENST00000532326,;IRF7,downstream_gene_variant,,ENST00000531912,;IRF7,downstream_gene_variant,,ENST00000528413,;IRF7,downstream_gene_variant,,ENST00000532096,;IRF7,downstream_gene_variant,,ENST00000532788,;IRF7,downstream_gene_variant,,ENST00000469048,;IRF7,downstream_gene_variant,,ENST00000533182,;PHRF1,downstream_gene_variant,,ENST00000532550,;IRF7,downstream_gene_variant,,ENST00000525750,;IRF7,downstream_gene_variant,,ENST00000533190,;	C	ENSG00000070047	ENST00000416188	Transcript	missense_variant	4911	4818	1606	K/N	aaG/aaC	.	.	.	1	PHRF1	HGNC	24351	protein_coding	YES	CCDS44507.1	ENSP00000410626	PHRF1_HUMAN	.	UPI000189A834	.	deleterious(0)	possibly_damaging(0.895)	18/18	.	hmmpanther:PTHR15242:SF1,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCAAGAGTGG	.	3	BLCA
PHRF1	0	.	GRCh37	11	611657	611657	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4827G>C	p.Glu1609Asp	p.E1609D	ENST00000416188	18/18	34	31	3	23	23	0	PHRF1,missense_variant,p.Glu1610Asp,ENST00000264555,;PHRF1,missense_variant,p.Glu1608Asp,ENST00000413872,;PHRF1,missense_variant,p.Glu1606Asp,ENST00000533464,;PHRF1,missense_variant,p.Glu1609Asp,ENST00000416188,;IRF7,downstream_gene_variant,,ENST00000330243,;IRF7,downstream_gene_variant,,ENST00000397566,;IRF7,downstream_gene_variant,,ENST00000348655,;IRF7,downstream_gene_variant,,ENST00000525445,;IRF7,downstream_gene_variant,,ENST00000397570,;CDHR5,downstream_gene_variant,,ENST00000397542,;CDHR5,downstream_gene_variant,,ENST00000358353,;IRF7,downstream_gene_variant,,ENST00000397562,;IRF7,downstream_gene_variant,,ENST00000397574,;PHRF1,3_prime_UTR_variant,,ENST00000534320,;IRF7,downstream_gene_variant,,ENST00000527160,;IRF7,downstream_gene_variant,,ENST00000532326,;IRF7,downstream_gene_variant,,ENST00000531912,;IRF7,downstream_gene_variant,,ENST00000528413,;IRF7,downstream_gene_variant,,ENST00000532096,;IRF7,downstream_gene_variant,,ENST00000532788,;IRF7,downstream_gene_variant,,ENST00000469048,;IRF7,downstream_gene_variant,,ENST00000533182,;PHRF1,downstream_gene_variant,,ENST00000532550,;IRF7,downstream_gene_variant,,ENST00000525750,;IRF7,downstream_gene_variant,,ENST00000533190,;	C	ENSG00000070047	ENST00000416188	Transcript	missense_variant	4920	4827	1609	E/D	gaG/gaC	.	.	.	1	PHRF1	HGNC	24351	protein_coding	YES	CCDS44507.1	ENSP00000410626	PHRF1_HUMAN	.	UPI000189A834	.	deleterious(0)	possibly_damaging(0.801)	18/18	.	hmmpanther:PTHR15242:SF1,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGAGAGATCAA	.	3	BLCA
SCGB2A1	0	.	GRCh37	11	61981266	61981266	+	3'UTR	SNP	G	G	C	rs749897608	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24G>C	.	.	ENST00000244930	3/3	62	54	8	59	59	0	SCGB2A1,3_prime_UTR_variant,,ENST00000244930,;RP11-703H8.9,intron_variant,,ENST00000529875,;	C	ENSG00000124939	ENST00000244930	Transcript	3_prime_UTR_variant	376	.	.	.	.	rs749897608	.	.	1	SCGB2A1	HGNC	7051	protein_coding	YES	CCDS8016.1	ENSP00000244930	SG2A1_HUMAN	.	UPI000012F056	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCAGAGGGC	byFrequency	2	BLCA
AHNAK	0	.	GRCh37	11	62295814	62295814	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6075C>G	p.Ile2025Met	p.I2025M	ENST00000378024	5/5	409	341	67	357	357	0	AHNAK,missense_variant,p.Ile2025Met,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;	C	ENSG00000124942	ENST00000378024	Transcript	missense_variant	6350	6075	2025	I/M	atC/atG	.	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	possibly_damaging(0.817)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTGATGTC	.	4	BLCA
SLC22A20	0	.	GRCh37	11	65004179	65004179	+	RNA	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1429C>G	.	.	ENST00000525437	9/11	61	48	12	54	54	0	SLC22A20,non_coding_transcript_exon_variant,,ENST00000525437,;SLC22A20,non_coding_transcript_exon_variant,,ENST00000529062,;SLC22A20,non_coding_transcript_exon_variant,,ENST00000454680,;SLC22A20,non_coding_transcript_exon_variant,,ENST00000530038,;	G	ENSG00000197847	ENST00000525437	Transcript	non_coding_transcript_exon_variant	1429	.	.	.	.	.	.	.	1	SLC22A20	HGNC	29867	processed_transcript	.	.	.	.	.	.	.	.	.	9/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCTGTCC	.	2	BLCA
SLC22A20	0	.	GRCh37	11	65004195	65004195	+	RNA	SNP	C	C	A	rs376182442	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1445C>A	.	.	ENST00000525437	9/11	84	64	20	60	60	0	SLC22A20,non_coding_transcript_exon_variant,,ENST00000525437,;SLC22A20,non_coding_transcript_exon_variant,,ENST00000529062,;SLC22A20,non_coding_transcript_exon_variant,,ENST00000454680,;SLC22A20,non_coding_transcript_exon_variant,,ENST00000530038,;	A	ENSG00000197847	ENST00000525437	Transcript	non_coding_transcript_exon_variant	1445	.	.	.	.	rs376182442	.	.	1	SLC22A20	HGNC	29867	processed_transcript	.	.	.	.	.	.	.	.	.	9/11	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCCTCGGGGG	byCluster	3	BLCA
POLA2	0	.	GRCh37	11	65034085	65034085	+	Nonsense_Mutation	SNP	G	G	T	rs749929651	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>T	p.Glu38Ter	p.E38*	ENST00000265465	2/18	44	35	9	27	27	0	POLA2,stop_gained,p.Glu38Ter,ENST00000265465,;POLA2,5_prime_UTR_variant,,ENST00000532391,;POLA2,intron_variant,,ENST00000541089,;POLA2,non_coding_transcript_exon_variant,,ENST00000532469,;POLA2,intron_variant,,ENST00000527850,;	T	ENSG00000014138	ENST00000265465	Transcript	stop_gained	643	112	38	E/*	Gag/Tag	rs749929651	.	.	1	POLA2	HGNC	30073	protein_coding	YES	CCDS8098.1	ENSP00000265465	DPOA2_HUMAN	E9PIQ6_HUMAN,B3KSX6_HUMAN	UPI000007375F	.	.	.	2/18	.	hmmpanther:PTHR23061:SF12,hmmpanther:PTHR23061,Pfam_domain:PF08418,PIRSF_domain:PIRSF018300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGAATGAGGAG	byFrequency	3	BLCA
POLA2	0	.	GRCh37	11	65034151	65034151	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.178G>A	p.Glu60Lys	p.E60K	ENST00000265465	2/18	66	51	14	33	33	0	POLA2,missense_variant,p.Glu20Lys,ENST00000532391,;POLA2,missense_variant,p.Glu60Lys,ENST00000265465,;POLA2,intron_variant,,ENST00000541089,;POLA2,non_coding_transcript_exon_variant,,ENST00000532469,;POLA2,intron_variant,,ENST00000527850,;	A	ENSG00000014138	ENST00000265465	Transcript	missense_variant	709	178	60	E/K	Gag/Aag	.	.	.	1	POLA2	HGNC	30073	protein_coding	YES	CCDS8098.1	ENSP00000265465	DPOA2_HUMAN	E9PIQ6_HUMAN,B3KSX6_HUMAN	UPI000007375F	.	deleterious(0.03)	benign(0.41)	2/18	.	hmmpanther:PTHR23061:SF12,hmmpanther:PTHR23061,Pfam_domain:PF08418,PIRSF_domain:PIRSF018300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCAGAGATC	.	5	BLCA
RIN1	0	.	GRCh37	11	66100125	66100125	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1974C>G	p.%3D	p.L658L	ENST00000311320	10/10	109	99	10	92	92	0	RIN1,synonymous_variant,p.%3D,ENST00000311320,;RIN1,synonymous_variant,p.%3D,ENST00000424433,;RIN1,synonymous_variant,p.%3D,ENST00000530056,;BRMS1,downstream_gene_variant,,ENST00000359957,;BRMS1,downstream_gene_variant,,ENST00000524699,;BRMS1,downstream_gene_variant,,ENST00000425825,;RP11-867G23.12,upstream_gene_variant,,ENST00000526655,;RIN1,non_coding_transcript_exon_variant,,ENST00000524804,;RIN1,3_prime_UTR_variant,,ENST00000534824,;RIN1,3_prime_UTR_variant,,ENST00000530745,;RIN1,non_coding_transcript_exon_variant,,ENST00000526246,;BRMS1,downstream_gene_variant,,ENST00000530238,;RIN1,downstream_gene_variant,,ENST00000528006,;	C	ENSG00000174791	ENST00000311320	Transcript	synonymous_variant	2101	1974	658	L	ctC/ctG	.	.	.	-1	RIN1	HGNC	18749	protein_coding	YES	CCDS31614.1	ENSP00000310406	RIN1_HUMAN	.	UPI000013F14D	.	.	.	10/10	.	PROSITE_profiles:PS50200,hmmpanther:PTHR23101:SF54,hmmpanther:PTHR23101,Pfam_domain:PF00788,SMART_domains:SM00314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCACAGAGCTG	.	3	BLCA
ARRB1	0	.	GRCh37	11	74985189	74985189	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.843C>G	p.Asn281Lys	p.N281K	ENST00000420843	11/16	158	131	26	129	129	0	ARRB1,missense_variant,p.Asn281Lys,ENST00000360025,;ARRB1,missense_variant,p.Asn281Lys,ENST00000420843,;ARRB1,missense_variant,p.Asn106Lys,ENST00000532447,;ARRB1,missense_variant,p.Asn281Lys,ENST00000393505,;ARRB1,downstream_gene_variant,,ENST00000532525,;ARRB1,non_coding_transcript_exon_variant,,ENST00000529741,;ARRB1,non_coding_transcript_exon_variant,,ENST00000531012,;ARRB1,downstream_gene_variant,,ENST00000527385,;ARRB1,downstream_gene_variant,,ENST00000533609,;ARRB1,downstream_gene_variant,,ENST00000524400,;	C	ENSG00000137486	ENST00000420843	Transcript	missense_variant	941	843	281	N/K	aaC/aaG	.	.	.	-1	ARRB1	HGNC	711	protein_coding	YES	CCDS44684.1	ENSP00000409581	ARRB1_HUMAN	.	UPI0000126076	.	deleterious(0.02)	possibly_damaging(0.624)	11/16	.	hmmpanther:PTHR11792:SF22,hmmpanther:PTHR11792,Pfam_domain:PF02752,Gene3D:1g4mB02,SMART_domains:SM01017,Superfamily_domains:SSF81296,Prints_domain:PR00309	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCGGTTATT	.	5	BLCA
KLHL35	0	.	GRCh37	11	75133563	75133563	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61C>T	.	.	ENST00000539798	6/6	24	21	3	21	21	0	KLHL35,3_prime_UTR_variant,,ENST00000376292,;KLHL35,3_prime_UTR_variant,,ENST00000539798,;RPS3,downstream_gene_variant,,ENST00000527446,;KLHL35,non_coding_transcript_exon_variant,,ENST00000460787,;KLHL35,downstream_gene_variant,,ENST00000527491,;	A	ENSG00000149243	ENST00000539798	Transcript	3_prime_UTR_variant	1813	.	.	.	.	.	.	.	-1	KLHL35	HGNC	26597	protein_coding	YES	CCDS44685.2	ENSP00000438526	.	F5H412_HUMAN	UPI0001B723C7	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCAGAGTGT	.	2	BLCA
PCF11	0	.	GRCh37	11	82872425	82872425	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249C>A	p.Asn83Lys	p.N83K	ENST00000298281	2/16	36	24	12	23	23	0	PCF11,missense_variant,p.Asn83Lys,ENST00000298281,;PCF11,missense_variant,p.Asn83Lys,ENST00000530660,;PCF11,missense_variant,p.Asn83Lys,ENST00000530304,;PCF11,intron_variant,,ENST00000533018,;	A	ENSG00000165494	ENST00000298281	Transcript	missense_variant	701	249	83	N/K	aaC/aaA	.	.	.	1	PCF11	HGNC	30097	protein_coding	YES	CCDS44689.1	ENSP00000298281	PCF11_HUMAN	E9PKN0_HUMAN	UPI00001BB2B7	.	deleterious(0)	probably_damaging(1)	2/16	.	PROSITE_profiles:PS51391,hmmpanther:PTHR15921:SF3,hmmpanther:PTHR15921,Pfam_domain:PF04818,Gene3D:1.25.40.90,SMART_domains:SM00582,Superfamily_domains:SSF48464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAAACGTTGG	.	5	BLCA
PCF11	0	.	GRCh37	11	82880510	82880510	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3133C>T	p.Gln1045Ter	p.Q1045*	ENST00000298281	8/16	36	25	10	52	52	0	PCF11,stop_gained,p.Gln1045Ter,ENST00000298281,;PCF11,upstream_gene_variant,,ENST00000530906,;PCF11,downstream_gene_variant,,ENST00000530660,;PCF11,downstream_gene_variant,,ENST00000530304,;	T	ENSG00000165494	ENST00000298281	Transcript	stop_gained	3585	3133	1045	Q/*	Cag/Tag	COSM458358,COSM458357	.	.	1	PCF11	HGNC	30097	protein_coding	YES	CCDS44689.1	ENSP00000298281	PCF11_HUMAN	E9PKN0_HUMAN	UPI00001BB2B7	.	.	.	8/16	.	hmmpanther:PTHR15921:SF3,hmmpanther:PTHR15921	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CAGGTCAGCCG	.	4	BLCA
CREBZF	0	.	GRCh37	11	85375196	85375196	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724G>A	p.Glu242Lys	p.E242K	ENST00000527447	1/1	166	142	24	93	93	0	CREBZF,missense_variant,p.Glu160Lys,ENST00000398294,;CREBZF,missense_variant,p.Glu242Lys,ENST00000527447,;CREBZF,intron_variant,,ENST00000534224,;CREBZF,intron_variant,,ENST00000531515,;CREBZF,missense_variant,p.Glu168Lys,ENST00000260058,;CREBZF,missense_variant,p.Glu242Lys,ENST00000525639,;CREBZF,missense_variant,p.Glu14Lys,ENST00000527529,;CREBZF,missense_variant,p.Glu242Lys,ENST00000490820,;CREBZF,upstream_gene_variant,,ENST00000528889,;CREBZF,upstream_gene_variant,,ENST00000528561,;	T	ENSG00000137504	ENST00000527447	Transcript	missense_variant	951	724	242	E/K	Gag/Aag	.	.	.	-1	CREBZF	HGNC	24905	protein_coding	YES	CCDS41697.1	ENSP00000433459	ZHANG_HUMAN	.	UPI0000405F55	.	deleterious(0.03)	probably_damaging(0.995)	1/1	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14312:SF1,hmmpanther:PTHR14312,Pfam_domain:PF00170,Gene3D:1.20.5.170,Superfamily_domains:SSF57959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCTCGGCTG	.	4	BLCA
PIWIL4	0	.	GRCh37	11	94354146	94354146	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2547C>G	p.%3D	p.L849L	ENST00000299001	20/20	74	67	7	56	56	0	PIWIL4,synonymous_variant,p.%3D,ENST00000299001,;PIWIL4,synonymous_variant,p.%3D,ENST00000537419,;RP11-867G2.8,intron_variant,,ENST00000536540,;RP11-867G2.8,intron_variant,,ENST00000537874,;PIWIL4,3_prime_UTR_variant,,ENST00000446230,;PIWIL4,downstream_gene_variant,,ENST00000543336,;	G	ENSG00000134627	ENST00000299001	Transcript	synonymous_variant	2758	2547	849	L	ctC/ctG	.	.	.	1	PIWIL4	HGNC	18444	protein_coding	YES	CCDS31656.1	ENSP00000299001	PIWL4_HUMAN	F5GX26_HUMAN	UPI000006D0EC	.	.	.	20/20	.	hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF27,Gene3D:3.30.420.10,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATCTCTTCTA	.	3	BLCA
SART3	0	.	GRCh37	12	108932784	108932784	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988C>T	p.Gln330Ter	p.Q330*	ENST00000228284	7/19	64	51	13	54	54	0	SART3,stop_gained,p.Gln330Ter,ENST00000228284,;SART3,stop_gained,p.Gln330Ter,ENST00000431469,;SART3,stop_gained,p.Gln348Ter,ENST00000546815,;SART3,downstream_gene_variant,,ENST00000550322,;SART3,stop_gained,p.Gln330Ter,ENST00000546728,;SART3,3_prime_UTR_variant,,ENST00000547528,;SART3,upstream_gene_variant,,ENST00000546808,;SART3,upstream_gene_variant,,ENST00000548119,;SART3,downstream_gene_variant,,ENST00000551416,;SART3,upstream_gene_variant,,ENST00000548077,;	A	ENSG00000075856	ENST00000228284	Transcript	stop_gained	1223	988	330	Q/*	Cag/Tag	.	.	.	-1	SART3	HGNC	16860	protein_coding	YES	CCDS9117.1	ENSP00000228284	SART3_HUMAN	H0YHU8_HUMAN,F8VZM2_HUMAN,F8VVK9_HUMAN	UPI000006D72B	.	.	.	7/19	.	Superfamily_domains:SSF48452,SMART_domains:SM00386,hmmpanther:PTHR23269,hmmpanther:PTHR23269:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTGAATGC	.	5	BLCA
TAS2R46	0	.	GRCh37	12	11214242	11214242	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652G>C	p.Asp218His	p.D218H	ENST00000533467	1/1	177	146	30	144	144	0	TAS2R46,missense_variant,p.Asp218His,ENST00000533467,;TAS2R14,intron_variant,,ENST00000381852,;PRR4,intron_variant,,ENST00000536668,;PRR4,intron_variant,,ENST00000546265,;PRR4,intron_variant,,ENST00000541977,;PRR4,intron_variant,,ENST00000535024,;	G	ENSG00000226761	ENST00000533467	Transcript	missense_variant	652	652	218	D/H	Gat/Cat	.	.	.	-1	TAS2R46	HGNC	18877	protein_coding	YES	CCDS53748.1	ENSP00000436450	T2R46_HUMAN	Q50KH0_HUMAN	UPI000000D821	.	deleterious(0)	probably_damaging(0.999)	1/1	.	hmmpanther:PTHR11394,hmmpanther:PTHR11394:SF48,Pfam_domain:PF05296,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGATCTTGAG	.	5	BLCA
KNTC1	0	.	GRCh37	12	123057809	123057809	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2260G>A	p.Glu754Lys	p.E754K	ENST00000333479	26/64	87	83	4	65	65	0	KNTC1,missense_variant,p.Glu717Lys,ENST00000450485,;KNTC1,missense_variant,p.Glu754Lys,ENST00000333479,;	A	ENSG00000184445	ENST00000333479	Transcript	missense_variant	2437	2260	754	E/K	Gaa/Aaa	COSM3688004	.	.	1	KNTC1	HGNC	17255	protein_coding	YES	CCDS45002.1	ENSP00000328236	KNTC1_HUMAN	J3KQF2_HUMAN,F5H5V0_HUMAN	UPI0000047FD6	.	deleterious(0.02)	probably_damaging(0.971)	26/64	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15688:SF1,hmmpanther:PTHR15688	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAGGAACTT	.	2	BLCA
HCAR2	0	.	GRCh37	12	123187756	123187756	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.75C>A	p.Phe25Leu	p.F25L	ENST00000328880	1/1	94	76	17	71	71	0	HCAR2,missense_variant,p.Phe25Leu,ENST00000328880,;HCAR1,intron_variant,,ENST00000356987,;RP11-324E6.6,intron_variant,,ENST00000543611,;	T	ENSG00000182782	ENST00000328880	Transcript	missense_variant	135	75	25	F/L	ttC/ttA	.	.	.	-1	HCAR2	HGNC	24827	protein_coding	YES	CCDS9235.1	ENSP00000375066	HCAR2_HUMAN	.	UPI000003BCD5	.	tolerated(0.7)	benign(0.001)	1/1	.	hmmpanther:PTHR24231,hmmpanther:PTHR24231:SF0,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAATGAAGTC	.	4	BLCA
SBNO1	0	.	GRCh37	12	123793864	123793864	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3623C>T	p.Ser1208Leu	p.S1208L	ENST00000420886	27/31	107	93	14	78	78	0	SBNO1,missense_variant,p.Ser1208Leu,ENST00000602398,;SBNO1,missense_variant,p.Ser1207Leu,ENST00000602750,;SBNO1,missense_variant,p.Ser1208Leu,ENST00000420886,;SBNO1,missense_variant,p.Ser1207Leu,ENST00000267176,;	A	ENSG00000139697	ENST00000420886	Transcript	missense_variant	3623	3623	1208	S/L	tCa/tTa	.	.	.	-1	SBNO1	HGNC	22973	protein_coding	YES	CCDS53844.1	ENSP00000387361	SBNO1_HUMAN	Q9NVJ3_HUMAN	UPI00001FB922	.	tolerated(0.06)	benign(0.04)	27/31	.	hmmpanther:PTHR12706,hmmpanther:PTHR12706:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCAATGACAAG	.	3	BLCA
DDX55	0	.	GRCh37	12	124102401	124102401	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1146C>A	p.Phe382Leu	p.F382L	ENST00000238146	11/14	75	63	11	60	60	0	DDX55,missense_variant,p.Phe351Leu,ENST00000538744,;DDX55,missense_variant,p.Phe382Leu,ENST00000238146,;EIF2B1,downstream_gene_variant,,ENST00000539951,;EIF2B1,downstream_gene_variant,,ENST00000534960,;EIF2B1,downstream_gene_variant,,ENST00000424014,;DDX55,upstream_gene_variant,,ENST00000421670,;SNORA9,downstream_gene_variant,,ENST00000384170,;DDX55,intron_variant,,ENST00000541259,;DDX55,3_prime_UTR_variant,,ENST00000544738,;DDX55,non_coding_transcript_exon_variant,,ENST00000542286,;DDX55,non_coding_transcript_exon_variant,,ENST00000539934,;DDX55,non_coding_transcript_exon_variant,,ENST00000543016,;DDX55,downstream_gene_variant,,ENST00000354291,;	A	ENSG00000111364	ENST00000238146	Transcript	missense_variant	1196	1146	382	F/L	ttC/ttA	.	.	.	1	DDX55	HGNC	20085	protein_coding	YES	CCDS9251.1	ENSP00000238146	DDX55_HUMAN	Q8IYH0_HUMAN	UPI000004F594	.	deleterious(0.01)	benign(0.162)	11/14	.	PROSITE_profiles:PS51194,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF2,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATTTCCTTGC	.	4	BLCA
ERP27	0	.	GRCh37	12	15073965	15073965	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351G>A	p.%3D	p.L117L	ENST00000266397	4/7	65	47	17	65	65	0	ERP27,synonymous_variant,p.%3D,ENST00000266397,;ERP27,synonymous_variant,p.%3D,ENST00000540097,;ERP27,upstream_gene_variant,,ENST00000544881,;	T	ENSG00000139055	ENST00000266397	Transcript	synonymous_variant	925	351	117	L	ctG/ctA	.	.	.	-1	ERP27	HGNC	26495	protein_coding	YES	CCDS8670.1	ENSP00000266397	ERP27_HUMAN	.	UPI0000037A99	.	.	.	4/7	.	hmmpanther:PTHR18929:SF77,hmmpanther:PTHR18929,Pfam_domain:PF13848,Gene3D:3.40.30.10,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATTCAGTTG	.	5	BLCA
KCNJ8	0	.	GRCh37	12	21918938	21918938	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994G>A	p.Glu332Lys	p.E332K	ENST00000240662	3/3	109	85	24	74	74	0	KCNJ8,missense_variant,p.Glu332Lys,ENST00000240662,;RP11-59N23.1,intron_variant,,ENST00000542489,;	T	ENSG00000121361	ENST00000240662	Transcript	missense_variant	1340	994	332	E/K	Gaa/Aaa	.	.	.	-1	KCNJ8	HGNC	6269	protein_coding	YES	CCDS8692.1	ENSP00000240662	IRK8_HUMAN	F5GY12_HUMAN	UPI000012D8A3	.	tolerated(1)	benign(0.233)	3/3	.	hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF11,Pfam_domain:PF01007,Gene3D:2.60.40.1400,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCTTCCT	.	5	BLCA
ALG10	0	.	GRCh37	12	34175543	34175543	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9G>C	p.Gln3His	p.Q3H	ENST00000266483	1/3	191	160	31	153	153	0	ALG10,missense_variant,p.Gln3His,ENST00000266483,;ALG10,missense_variant,p.Gln3His,ENST00000538927,;AC046130.1,downstream_gene_variant,,ENST00000401300,;RP11-847H18.2,non_coding_transcript_exon_variant,,ENST00000501954,;ALG10,missense_variant,p.Gln3His,ENST00000541875,;ALG10,non_coding_transcript_exon_variant,,ENST00000541178,;	C	ENSG00000139133	ENST00000266483	Transcript	missense_variant	328	9	3	Q/H	caG/caC	.	.	.	1	ALG10	HGNC	23162	protein_coding	YES	CCDS41769.1	ENSP00000266483	AG10A_HUMAN	.	UPI000004E870	.	deleterious(0.04)	benign(0.155)	1/3	.	hmmpanther:PTHR12989,hmmpanther:PTHR12989:SF11,PIRSF_domain:PIRSF028810	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGCAGCTGGA	.	4	BLCA
KMT2D	0	.	GRCh37	12	49441766	49441767	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4217dupC	p.Tyr1407LeufsTer25	p.Y1407Lfs*25	ENST00000301067	14/54	70	53	17	23	23	0	KMT2D,frameshift_variant,p.Tyr1407LeufsTer25,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000550356,;	G	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	4217-4218	4217-4218	1406	P/PX	cct/ccCt	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	14/54	.	PROSITE_profiles:PS50016,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324,Gene3D:3.30.40.10,Pfam_domain:PF00628,SMART_domains:SM00249,SMART_domains:SM00184,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGTAAGGGTG	.	3	BLCA
KMT2D	0	.	GRCh37	12	49445666	49445666	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1800C>T	p.%3D	p.F600F	ENST00000301067	10/54	81	64	17	62	62	0	KMT2D,synonymous_variant,p.%3D,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000547610,;	A	ENSG00000167548	ENST00000301067	Transcript	synonymous_variant	1800	1800	600	F	ttC/ttT	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	10/54	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGGGAACAG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49446493	49446493	+	Splice_Site	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1113-1G>T	.	p.X371_splice	ENST00000301067	.	27	20	6	21	21	0	KMT2D,splice_acceptor_variant,,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000547610,;	A	ENSG00000167548	ENST00000301067	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	.	8/53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCTGCAG	.	5	BLCA
ACVRL1	0	.	GRCh37	12	52309965	52309965	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1194C>T	p.%3D	p.I398I	ENST00000388922	8/10	47	40	7	42	42	0	ACVRL1,synonymous_variant,p.%3D,ENST00000550683,;ACVRL1,synonymous_variant,p.%3D,ENST00000419526,;ACVRL1,synonymous_variant,p.%3D,ENST00000552678,;ACVRL1,synonymous_variant,p.%3D,ENST00000388922,;ACVRL1,downstream_gene_variant,,ENST00000551576,;ACVRL1,downstream_gene_variant,,ENST00000547400,;ACVRL1,non_coding_transcript_exon_variant,,ENST00000547632,;	T	ENSG00000139567	ENST00000388922	Transcript	synonymous_variant	1477	1194	398	I	atC/atT	.	.	.	1	ACVRL1	HGNC	175	protein_coding	YES	CCDS31804.1	ENSP00000373574	ACVL1_HUMAN	D9IPD9_HUMAN,B4DUF0_HUMAN	UPI000000D9F4	.	.	.	8/10	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255:SF59,hmmpanther:PTHR23255,Gene3D:1.10.510.10,Pfam_domain:PF00069,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATCTGGGC	.	5	BLCA
MAP3K12	0	.	GRCh37	12	53874971	53874971	+	Missense_Mutation	SNP	G	G	C	rs754311401	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2674C>G	p.Pro892Ala	p.P892A	ENST00000547035	14/14	16	12	4	16	16	0	MAP3K12,missense_variant,p.Pro892Ala,ENST00000547035,;MAP3K12,missense_variant,p.Pro859Ala,ENST00000267079,;MAP3K12,missense_variant,p.Pro892Ala,ENST00000547488,;PCBP2,downstream_gene_variant,,ENST00000455667,;PCBP2,downstream_gene_variant,,ENST00000547859,;PCBP2,downstream_gene_variant,,ENST00000359282,;PCBP2,downstream_gene_variant,,ENST00000546463,;PCBP2,downstream_gene_variant,,ENST00000552819,;PCBP2,downstream_gene_variant,,ENST00000552296,;PCBP2,downstream_gene_variant,,ENST00000562264,;PCBP2,downstream_gene_variant,,ENST00000359462,;PCBP2,downstream_gene_variant,,ENST00000437231,;PCBP2,downstream_gene_variant,,ENST00000439930,;PCBP2,downstream_gene_variant,,ENST00000447282,;PCBP2,downstream_gene_variant,,ENST00000548933,;PCBP2,downstream_gene_variant,,ENST00000549863,;PCBP2,downstream_gene_variant,,ENST00000603815,;MAP3K12,3_prime_UTR_variant,,ENST00000552365,;MAP3K12,non_coding_transcript_exon_variant,,ENST00000551511,;MAP3K12,non_coding_transcript_exon_variant,,ENST00000547020,;PCBP2,downstream_gene_variant,,ENST00000550585,;PCBP2,downstream_gene_variant,,ENST00000550733,;PCBP2,downstream_gene_variant,,ENST00000547048,;MAP3K12,downstream_gene_variant,,ENST00000548690,;	C	ENSG00000139625	ENST00000547035	Transcript	missense_variant	2879	2674	892	P/A	Cca/Gca	rs754311401	.	.	-1	MAP3K12	HGNC	6851	protein_coding	YES	CCDS55831.1	ENSP00000448689	M3K12_HUMAN	H3BMF0_HUMAN	UPI00001407EE	.	deleterious_low_confidence(0)	benign(0)	14/14	.	PIRSF_domain:PIRSF500741,PIRSF_domain:PIRSF038165	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCATGGAGGGA	.	2	BLCA
MAP3K12	0	.	GRCh37	12	53875751	53875751	+	Missense_Mutation	SNP	G	G	C	rs757542488	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2554C>G	p.Pro852Ala	p.P852A	ENST00000547035	13/14	70	54	16	59	59	0	MAP3K12,missense_variant,p.Pro852Ala,ENST00000547035,;MAP3K12,missense_variant,p.Pro819Ala,ENST00000267079,;MAP3K12,missense_variant,p.Pro852Ala,ENST00000547488,;PCBP2,downstream_gene_variant,,ENST00000455667,;PCBP2,downstream_gene_variant,,ENST00000547859,;PCBP2,downstream_gene_variant,,ENST00000359282,;PCBP2,downstream_gene_variant,,ENST00000546463,;PCBP2,downstream_gene_variant,,ENST00000552819,;PCBP2,downstream_gene_variant,,ENST00000552296,;PCBP2,downstream_gene_variant,,ENST00000562264,;PCBP2,downstream_gene_variant,,ENST00000359462,;PCBP2,downstream_gene_variant,,ENST00000437231,;PCBP2,downstream_gene_variant,,ENST00000439930,;PCBP2,downstream_gene_variant,,ENST00000447282,;PCBP2,downstream_gene_variant,,ENST00000548933,;PCBP2,downstream_gene_variant,,ENST00000549863,;PCBP2,downstream_gene_variant,,ENST00000603815,;MAP3K12,downstream_gene_variant,,ENST00000547151,;MAP3K12,3_prime_UTR_variant,,ENST00000552365,;MAP3K12,non_coding_transcript_exon_variant,,ENST00000551511,;MAP3K12,non_coding_transcript_exon_variant,,ENST00000547020,;PCBP2,downstream_gene_variant,,ENST00000550585,;PCBP2,downstream_gene_variant,,ENST00000550733,;PCBP2,downstream_gene_variant,,ENST00000547048,;MAP3K12,downstream_gene_variant,,ENST00000551895,;MAP3K12,downstream_gene_variant,,ENST00000548690,;	C	ENSG00000139625	ENST00000547035	Transcript	missense_variant	2759	2554	852	P/A	Cca/Gca	rs757542488	.	.	-1	MAP3K12	HGNC	6851	protein_coding	YES	CCDS55831.1	ENSP00000448689	M3K12_HUMAN	H3BMF0_HUMAN	UPI00001407EE	.	tolerated_low_confidence(0.09)	benign(0)	13/14	.	PIRSF_domain:PIRSF500741,PIRSF_domain:PIRSF038165	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTGGAATGG	.	5	BLCA
MAP3K12	0	.	GRCh37	12	53876881	53876881	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1706C>T	p.Ser569Leu	p.S569L	ENST00000547035	11/14	45	37	8	30	30	0	MAP3K12,missense_variant,p.Ser569Leu,ENST00000547035,;MAP3K12,missense_variant,p.Ser536Leu,ENST00000267079,;MAP3K12,missense_variant,p.Ser569Leu,ENST00000547488,;PCBP2,downstream_gene_variant,,ENST00000455667,;PCBP2,downstream_gene_variant,,ENST00000547859,;PCBP2,downstream_gene_variant,,ENST00000359282,;PCBP2,downstream_gene_variant,,ENST00000546463,;PCBP2,downstream_gene_variant,,ENST00000552819,;PCBP2,downstream_gene_variant,,ENST00000552296,;PCBP2,downstream_gene_variant,,ENST00000562264,;PCBP2,downstream_gene_variant,,ENST00000359462,;PCBP2,downstream_gene_variant,,ENST00000437231,;PCBP2,downstream_gene_variant,,ENST00000439930,;PCBP2,downstream_gene_variant,,ENST00000447282,;MAP3K12,downstream_gene_variant,,ENST00000548565,;PCBP2,downstream_gene_variant,,ENST00000548933,;PCBP2,downstream_gene_variant,,ENST00000549863,;PCBP2,downstream_gene_variant,,ENST00000603815,;MAP3K12,downstream_gene_variant,,ENST00000547151,;MAP3K12,3_prime_UTR_variant,,ENST00000552365,;MAP3K12,non_coding_transcript_exon_variant,,ENST00000547020,;PCBP2,downstream_gene_variant,,ENST00000550585,;PCBP2,downstream_gene_variant,,ENST00000550733,;MAP3K12,upstream_gene_variant,,ENST00000551511,;PCBP2,downstream_gene_variant,,ENST00000547048,;MAP3K12,downstream_gene_variant,,ENST00000551895,;MAP3K12,downstream_gene_variant,,ENST00000548690,;MAP3K12,downstream_gene_variant,,ENST00000547803,;	A	ENSG00000139625	ENST00000547035	Transcript	missense_variant	1911	1706	569	S/L	tCa/tTa	.	.	.	-1	MAP3K12	HGNC	6851	protein_coding	YES	CCDS55831.1	ENSP00000448689	M3K12_HUMAN	H3BMF0_HUMAN	UPI00001407EE	.	tolerated(0.16)	benign(0.144)	11/14	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF500741,PIRSF_domain:PIRSF038165	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTGAGGGG	.	5	BLCA
MYL6	0	.	GRCh37	12	56555198	56555198	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*44G>A	.	.	ENST00000550697	7/7	122	99	23	81	81	0	MYL6,stop_retained_variant,p.%3D,ENST00000547649,;MYL6,stop_retained_variant,p.%3D,ENST00000549566,;MYL6,stop_retained_variant,p.%3D,ENST00000548580,;MYL6,stop_retained_variant,p.%3D,ENST00000549017,;MYL6,stop_retained_variant,p.%3D,ENST00000293422,;MYL6,3_prime_UTR_variant,,ENST00000348108,;MYL6,3_prime_UTR_variant,,ENST00000550697,;MYL6,3_prime_UTR_variant,,ENST00000548400,;MYL6,intron_variant,,ENST00000547408,;MYL6,downstream_gene_variant,,ENST00000548293,;MYL6B,downstream_gene_variant,,ENST00000552568,;SMARCC2,downstream_gene_variant,,ENST00000347471,;MYL6B,downstream_gene_variant,,ENST00000553066,;MYL6,downstream_gene_variant,,ENST00000551589,;SMARCC2,downstream_gene_variant,,ENST00000267064,;SMARCC2,downstream_gene_variant,,ENST00000394023,;MYL6B,downstream_gene_variant,,ENST00000207437,;MYL6B,downstream_gene_variant,,ENST00000550443,;MYL6,downstream_gene_variant,,ENST00000549392,;SMARCC2,downstream_gene_variant,,ENST00000550164,;MYL6,downstream_gene_variant,,ENST00000536128,;RP11-977G19.5,downstream_gene_variant,,ENST00000553176,;RP11-603J24.14,upstream_gene_variant,,ENST00000548731,;MYL6,downstream_gene_variant,,ENST00000552297,;MYL6B,downstream_gene_variant,,ENST00000548571,;MYL6,downstream_gene_variant,,ENST00000550639,;MYL6,upstream_gene_variant,,ENST00000551954,;MYL6,non_coding_transcript_exon_variant,,ENST00000550184,;MYL6,intron_variant,,ENST00000546845,;SMARCC2,downstream_gene_variant,,ENST00000552674,;MYL6,downstream_gene_variant,,ENST00000546630,;MYL6,downstream_gene_variant,,ENST00000547703,;MYL6B,downstream_gene_variant,,ENST00000550550,;MYL6B,downstream_gene_variant,,ENST00000549380,;MYL6,downstream_gene_variant,,ENST00000548725,;MYL6B,downstream_gene_variant,,ENST00000549178,;MYL6B,downstream_gene_variant,,ENST00000548548,;	A	ENSG00000092841	ENST00000550697	Transcript	3_prime_UTR_variant	741	.	.	.	.	.	.	.	1	MYL6	HGNC	7587	protein_coding	YES	CCDS8906.1	ENSP00000446955	MYL6_HUMAN	.	UPI0000000E0D	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGAGGAC	.	5	BLCA
CHD4	0	.	GRCh37	12	6703684	6703684	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2254G>A	p.Glu752Lys	p.E752K	ENST00000357008	15/40	79	63	15	66	66	0	CHD4,missense_variant,p.Glu749Lys,ENST00000544484,;CHD4,missense_variant,p.Glu752Lys,ENST00000309577,;CHD4,missense_variant,p.Glu745Lys,ENST00000544040,;CHD4,missense_variant,p.Glu752Lys,ENST00000357008,;CHD4,upstream_gene_variant,,ENST00000536301,;CHD4,downstream_gene_variant,,ENST00000536999,;CHD4,upstream_gene_variant,,ENST00000545083,;CHD4,upstream_gene_variant,,ENST00000537634,;	T	ENSG00000111642	ENST00000357008	Transcript	missense_variant	2418	2254	752	E/K	Gag/Aag	.	.	.	-1	CHD4	HGNC	1919	protein_coding	YES	CCDS8552.1	ENSP00000349508	CHD4_HUMAN	F5H6N4_HUMAN	UPI000013C8EF	.	deleterious(0)	benign(0.089)	15/40	.	PROSITE_profiles:PS51192,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF554,Gene3D:3.40.50.300,Pfam_domain:PF00176,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCATCAG	.	5	BLCA
ZNF384	0	.	GRCh37	12	6788158	6788158	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.258G>C	p.Gln86His	p.Q86H	ENST00000396801	4/11	135	96	39	98	98	0	ZNF384,missense_variant,p.Gln86His,ENST00000542351,;ZNF384,missense_variant,p.Gln86His,ENST00000540915,;ZNF384,missense_variant,p.Gln86His,ENST00000417772,;ZNF384,missense_variant,p.Gln86His,ENST00000535485,;ZNF384,missense_variant,p.Gln86His,ENST00000544482,;ZNF384,missense_variant,p.Gln86His,ENST00000355772,;ZNF384,missense_variant,p.Gln86His,ENST00000396795,;ZNF384,missense_variant,p.Gln86His,ENST00000361959,;ZNF384,missense_variant,p.Gln86His,ENST00000396801,;ZNF384,missense_variant,p.Gln86His,ENST00000436774,;ZNF384,missense_variant,p.Gln86His,ENST00000538829,;ZNF384,missense_variant,p.Gln86His,ENST00000319770,;ZNF384,missense_variant,p.Gln86His,ENST00000396799,;ZNF384,non_coding_transcript_exon_variant,,ENST00000537248,;ZNF384,upstream_gene_variant,,ENST00000542519,;ZNF384,downstream_gene_variant,,ENST00000542605,;	G	ENSG00000126746	ENST00000396801	Transcript	missense_variant	466	258	86	Q/H	caG/caC	.	.	.	-1	ZNF384	HGNC	11955	protein_coding	YES	CCDS44817.1	ENSP00000380019	ZN384_HUMAN	F5H3Z9_HUMAN,F5H105_HUMAN,F5H0D6_HUMAN,F5GYZ1_HUMAN,D3DUR9_HUMAN,B4DQU6_HUMAN,A9X425_HUMAN	UPI00001AE6F8	.	tolerated(0.09)	probably_damaging(0.991)	4/11	.	hmmpanther:PTHR11389:SF332,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTCTGGGT	.	5	BLCA
MDM1	0	.	GRCh37	12	68709961	68709961	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1078C>T	p.%3D	p.L360L	ENST00000303145	8/14	57	50	7	51	51	0	MDM1,synonymous_variant,p.%3D,ENST00000411698,;MDM1,synonymous_variant,p.%3D,ENST00000540418,;MDM1,synonymous_variant,p.%3D,ENST00000303145,;MDM1,non_coding_transcript_exon_variant,,ENST00000536313,;MDM1,non_coding_transcript_exon_variant,,ENST00000545964,;MDM1,downstream_gene_variant,,ENST00000538454,;	A	ENSG00000111554	ENST00000303145	Transcript	synonymous_variant	1165	1078	360	L	Ctg/Ttg	.	.	.	-1	MDM1	HGNC	29917	protein_coding	YES	CCDS8983.1	ENSP00000302537	MDM1_HUMAN	F5H804_HUMAN	UPI00001FC70C	.	.	.	8/14	.	Pfam_domain:PF15501,hmmpanther:PTHR32078	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCAGATGGT	.	4	BLCA
SLC2A3	0	.	GRCh37	12	8073975	8073975	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*34G>A	.	.	ENST00000075120	10/10	222	204	17	179	179	0	SLC2A3,3_prime_UTR_variant,,ENST00000075120,;SLC2A3,upstream_gene_variant,,ENST00000543435,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000486749,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000469295,;SLC2A3,downstream_gene_variant,,ENST00000479059,;SLC2A3,downstream_gene_variant,,ENST00000490763,;	T	ENSG00000059804	ENST00000075120	Transcript	3_prime_UTR_variant	1766	.	.	.	.	.	.	.	-1	SLC2A3	HGNC	11007	protein_coding	YES	CCDS8586.1	ENSP00000075120	GTR3_HUMAN	.	UPI0000001C7D	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTTCCCATG	.	2	BLCA
BTG1	0	.	GRCh37	12	92537898	92537898	+	Silent	SNP	C	C	T	rs752016296	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>A	p.%3D	p.T158T	ENST00000256015	2/2	77	68	9	58	58	0	BTG1,synonymous_variant,p.%3D,ENST00000552315,;BTG1,synonymous_variant,p.%3D,ENST00000256015,;C12orf79,upstream_gene_variant,,ENST00000549802,;C12orf79,upstream_gene_variant,,ENST00000551563,;C12orf79,upstream_gene_variant,,ENST00000546975,;RP11-796E2.4,upstream_gene_variant,,ENST00000501008,;RP11-796E2.4,upstream_gene_variant,,ENST00000499685,;C12orf79,upstream_gene_variant,,ENST00000551843,;C12orf79,upstream_gene_variant,,ENST00000553207,;C12orf79,upstream_gene_variant,,ENST00000552106,;C12orf79,upstream_gene_variant,,ENST00000548552,;	T	ENSG00000133639	ENST00000256015	Transcript	synonymous_variant	836	474	158	T	acG/acA	rs752016296	.	.	-1	BTG1	HGNC	1130	protein_coding	YES	CCDS9043.1	ENSP00000256015	BTG1_HUMAN	Q6IBC8_HUMAN,F8W0U7_HUMAN	UPI00000246C2	.	.	.	2/2	.	Prints_domain:PR00310,hmmpanther:PTHR22978:SF23,hmmpanther:PTHR22978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTCGTTCT	.	4	BLCA
EEA1	0	.	GRCh37	12	93202920	93202920	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2212G>A	p.Asp738Asn	p.D738N	ENST00000322349	18/29	83	64	19	46	46	0	EEA1,missense_variant,p.Asp738Asn,ENST00000322349,;EEA1,downstream_gene_variant,,ENST00000549790,;EEA1,3_prime_UTR_variant,,ENST00000418984,;	T	ENSG00000102189	ENST00000322349	Transcript	missense_variant	2477	2212	738	D/N	Gat/Aat	.	.	.	-1	EEA1	HGNC	3185	protein_coding	YES	CCDS31874.1	ENSP00000317955	EEA1_HUMAN	.	UPI000013C754	.	tolerated(0.18)	benign(0.007)	18/29	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23164:SF2,hmmpanther:PTHR23164	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATCAGCTT	.	5	BLCA
KDELC1	0	.	GRCh37	13	103446062	103446062	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483G>C	p.Gln161His	p.Q161H	ENST00000376004	3/10	120	107	13	91	91	0	KDELC1,missense_variant,p.Gln161His,ENST00000376004,;KDELC1,non_coding_transcript_exon_variant,,ENST00000460338,;KDELC1,upstream_gene_variant,,ENST00000486540,;KDELC1,upstream_gene_variant,,ENST00000484943,;	G	ENSG00000134901	ENST00000376004	Transcript	missense_variant	820	483	161	Q/H	caG/caC	.	.	.	-1	KDELC1	HGNC	19350	protein_coding	YES	CCDS9504.1	ENSP00000365172	KDEL1_HUMAN	.	UPI000004C663	.	tolerated(0.16)	benign(0.009)	3/10	.	hmmpanther:PTHR12203:SF21,hmmpanther:PTHR12203,Pfam_domain:PF05686	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCTGAAT	.	4	BLCA
TFDP1	0	.	GRCh37	13	114285953	114285953	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202C>G	p.Gln68Glu	p.Q68E	ENST00000375370	5/12	72	63	9	49	49	0	TFDP1,missense_variant,p.Gln68Glu,ENST00000375370,;TFDP1,missense_variant,p.Gln68Glu,ENST00000453989,;TFDP1,missense_variant,p.Gln68Glu,ENST00000408980,;TFDP1,intron_variant,,ENST00000544902,;TFDP1,intron_variant,,ENST00000538138,;TFDP1,non_coding_transcript_exon_variant,,ENST00000465174,;TFDP1,non_coding_transcript_exon_variant,,ENST00000475254,;	G	ENSG00000198176	ENST00000375370	Transcript	missense_variant	414	202	68	Q/E	Cag/Gag	.	.	.	1	TFDP1	HGNC	11749	protein_coding	YES	CCDS9538.1	ENSP00000364519	TFDP1_HUMAN	Q5JSB5_HUMAN	UPI0000000CB6	.	deleterious(0.03)	benign(0.217)	5/12	.	hmmpanther:PTHR12548:SF4,hmmpanther:PTHR12548,PIRSF_domain:PIRSF009404	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCAGAGA	.	4	BLCA
TEX26	0	.	GRCh37	13	31540437	31540437	+	Missense_Mutation	SNP	G	G	A	rs201693674	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.548G>A	p.Arg183Gln	p.R183Q	ENST00000380473	5/7	57	49	8	47	47	0	TEX26,missense_variant,p.Arg183Gln,ENST00000380473,;TEX26,intron_variant,,ENST00000530916,;TEX26,3_prime_UTR_variant,,ENST00000531960,;	A	ENSG00000175664	ENST00000380473	Transcript	missense_variant	561	548	183	R/Q	cGa/cAa	rs201693674,COSM1366321	.	.	1	TEX26	HGNC	28622	protein_coding	YES	CCDS9339.1	ENSP00000369840	TEX26_HUMAN	.	UPI0000070D41	.	deleterious(0.02)	possibly_damaging(0.83)	5/7	.	.	.	.	.	.	.	.	.	A:0.0005	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R183*|c.547C>T|3	RADIA|MUTECT|MUSE|VARSCANS	ATTCCGAAGGA	byFrequency|byCluster	4	BLCA
KIAA0226L	0	.	GRCh37	13	46924404	46924404	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1413C>T	p.%3D	p.I471I	ENST00000429979	11/15	13	8	5	8	8	0	KIAA0226L,synonymous_variant,p.%3D,ENST00000322896,;KIAA0226L,synonymous_variant,p.%3D,ENST00000389908,;KIAA0226L,synonymous_variant,p.%3D,ENST00000378784,;KIAA0226L,synonymous_variant,p.%3D,ENST00000534925,;KIAA0226L,synonymous_variant,p.%3D,ENST00000429979,;KIAA0226L,synonymous_variant,p.%3D,ENST00000378787,;KIAA0226L,synonymous_variant,p.%3D,ENST00000409879,;KIAA0226L,synonymous_variant,p.%3D,ENST00000378797,;KIAA0226L,3_prime_UTR_variant,,ENST00000378781,;KIAA0226L,3_prime_UTR_variant,,ENST00000441284,;KIAA0226L,non_coding_transcript_exon_variant,,ENST00000487195,;PPP1R2P4,non_coding_transcript_exon_variant,,ENST00000535073,;	A	ENSG00000102445	ENST00000429979	Transcript	synonymous_variant	2018	1413	471	I	atC/atT	.	.	.	-1	KIAA0226L	HGNC	20420	protein_coding	YES	CCDS31970.2	ENSP00000396935	K226L_HUMAN	Q5W050_HUMAN,A8XR14_HUMAN,A8KAG9_HUMAN	UPI00001FCD59	.	.	.	11/15	.	Pfam_domain:PF13901,hmmpanther:PTHR12326,hmmpanther:PTHR12326:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGGGATGCA	.	2	BLCA
HTR2A	0	.	GRCh37	13	47409525	47409525	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.863C>G	p.Ser288Cys	p.S288C	ENST00000378688	3/3	43	38	5	42	42	0	HTR2A,missense_variant,p.Ser288Cys,ENST00000378688,;HTR2A,missense_variant,p.Ser288Cys,ENST00000542664,;HTR2A,missense_variant,p.Ser204Cys,ENST00000543956,;	C	ENSG00000102468	ENST00000378688	Transcript	missense_variant	995	863	288	S/C	tCt/tGt	COSM947753	.	.	-1	HTR2A	HGNC	5293	protein_coding	YES	CCDS9405.1	ENSP00000367959	5HT2A_HUMAN	Q9P2Q9_HUMAN,B3VRC0_HUMAN,B3VRB5_HUMAN,B3VRB0_HUMAN	UPI000000126E	.	deleterious(0.05)	probably_damaging(0.998)	3/3	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50262,hmmpanther:PTHR24247:SF30,hmmpanther:PTHR24247,Gene3D:1.20.1070.10,Pfam_domain:PF00001	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAAAGAACTC	.	4	BLCA
HTR2A	0	.	GRCh37	13	47409663	47409663	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725C>T	p.Ser242Leu	p.S242L	ENST00000378688	3/3	38	35	3	41	41	0	HTR2A,missense_variant,p.Ser242Leu,ENST00000378688,;HTR2A,missense_variant,p.Ser242Leu,ENST00000542664,;HTR2A,missense_variant,p.Ser158Leu,ENST00000543956,;	A	ENSG00000102468	ENST00000378688	Transcript	missense_variant	857	725	242	S/L	tCa/tTa	.	.	.	-1	HTR2A	HGNC	5293	protein_coding	YES	CCDS9405.1	ENSP00000367959	5HT2A_HUMAN	Q9P2Q9_HUMAN,B3VRC0_HUMAN,B3VRB5_HUMAN,B3VRB0_HUMAN	UPI000000126E	.	deleterious(0)	benign(0.082)	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24247:SF30,hmmpanther:PTHR24247,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01101,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAATGACACA	.	2	BLCA
TRIM13	0	.	GRCh37	13	50586722	50586722	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>C	p.Asp219His	p.D219H	ENST00000356017	4/4	48	39	8	43	43	0	TRIM13,missense_variant,p.Asp216His,ENST00000378183,;TRIM13,missense_variant,p.Asp216His,ENST00000420995,;TRIM13,missense_variant,p.Asp219His,ENST00000356017,;TRIM13,missense_variant,p.Asp216His,ENST00000378182,;TRIM13,missense_variant,p.Asp216His,ENST00000457662,;TRIM13,missense_variant,p.Asp219His,ENST00000298772,;TRIM13,downstream_gene_variant,,ENST00000442421,;KCNRG,upstream_gene_variant,,ENST00000360473,;KCNRG,upstream_gene_variant,,ENST00000312942,;TRIM13,intron_variant,,ENST00000478111,;TRIM13,intron_variant,,ENST00000474805,;	C	ENSG00000204977	ENST00000356017	Transcript	missense_variant	1043	655	219	D/H	Gac/Cac	.	.	.	1	TRIM13	HGNC	9976	protein_coding	YES	CCDS41888.1	ENSP00000348299	TRI13_HUMAN	.	UPI00001FCDDE	.	deleterious(0)	probably_damaging(1)	4/4	.	hmmpanther:PTHR24103:SF252,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATATGACCCA	.	5	BLCA
SUGT1	0	.	GRCh37	13	53250364	53250364	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724-1G>A	.	p.X242_splice	ENST00000343788	.	29	23	6	18	18	0	SUGT1,splice_acceptor_variant,,ENST00000343788,;SUGT1,splice_acceptor_variant,,ENST00000310528,;SUGT1,splice_acceptor_variant,,ENST00000535397,;	A	ENSG00000165416	ENST00000343788	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	SUGT1	HGNC	16987	protein_coding	YES	CCDS45050.1	ENSP00000367208	SUGT1_HUMAN	.	UPI00001CDFF4	.	.	.	.	11/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCAGATTGA	.	2	BLCA
DCT	0	.	GRCh37	13	95117942	95117942	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808C>G	p.Pro270Ala	p.P270A	ENST00000446125	4/10	52	40	11	43	43	0	DCT,missense_variant,p.Pro270Ala,ENST00000377028,;DCT,missense_variant,p.Pro270Ala,ENST00000446125,;AL139318.1,upstream_gene_variant,,ENST00000390768,;DCT,non_coding_transcript_exon_variant,,ENST00000490854,;DCT,missense_variant,p.Pro80Ala,ENST00000483392,;DCT,non_coding_transcript_exon_variant,,ENST00000472871,;	C	ENSG00000080166	ENST00000446125	Transcript	missense_variant	1235	808	270	P/A	Ccg/Gcg	.	.	.	-1	DCT	HGNC	2709	protein_coding	YES	CCDS45060.1	ENSP00000392762	TYRP2_HUMAN	Q9NQD8_HUMAN,Q0PK43_HUMAN	UPI0000E13F02	.	deleterious(0.04)	possibly_damaging(0.5)	4/10	.	Superfamily_domains:SSF48056,Pfam_domain:PF00264,Gene3D:1.10.1280.10,hmmpanther:PTHR11474,hmmpanther:PTHR11474:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCGGATCGT	.	5	BLCA
UGGT2	0	.	GRCh37	13	96589319	96589319	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1836G>A	p.Met612Ile	p.M612I	ENST00000376747	17/39	106	89	17	68	68	0	UGGT2,missense_variant,p.Met612Ile,ENST00000376747,;	T	ENSG00000102595	ENST00000376747	Transcript	missense_variant	1907	1836	612	M/I	atG/atA	.	.	.	-1	UGGT2	HGNC	15664	protein_coding	YES	CCDS9480.1	ENSP00000365938	UGGG2_HUMAN	.	UPI00001FC9AA	.	tolerated(0.05)	benign(0.003)	17/39	.	hmmpanther:PTHR11226:SF1,hmmpanther:PTHR11226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTCATCTT	.	5	BLCA
RNASE9	0	.	GRCh37	14	21024580	21024580	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*31G>A	.	.	ENST00000404716	5/5	31	25	6	26	26	0	RNASE9,3_prime_UTR_variant,,ENST00000404716,;RNASE9,3_prime_UTR_variant,,ENST00000429244,;RNASE9,3_prime_UTR_variant,,ENST00000338904,;RNASE9,3_prime_UTR_variant,,ENST00000556208,;RNASE9,3_prime_UTR_variant,,ENST00000555230,;RNASE9,3_prime_UTR_variant,,ENST00000553706,;RNASE9,3_prime_UTR_variant,,ENST00000557209,;RNASE9,3_prime_UTR_variant,,ENST00000553541,;RNASE9,3_prime_UTR_variant,,ENST00000557068,;RNASE9,3_prime_UTR_variant,,ENST00000554964,;	T	ENSG00000188655	ENST00000404716	Transcript	3_prime_UTR_variant	919	.	.	.	.	.	.	.	-1	RNASE9	HGNC	20673	protein_coding	YES	CCDS53883.1	ENSP00000384683	RNAS9_HUMAN	.	UPI00015E3754	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTCCTCCCA	.	5	BLCA
RNASE3	0	.	GRCh37	14	21360176	21360176	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331G>C	p.Asp111His	p.D111H	ENST00000304639	2/2	101	78	22	89	89	0	RNASE3,missense_variant,p.Asp111His,ENST00000304639,;	C	ENSG00000169397	ENST00000304639	Transcript	missense_variant	389	331	111	D/H	Gac/Cac	.	.	.	1	RNASE3	HGNC	10046	protein_coding	YES	CCDS9560.1	ENSP00000302324	ECP_HUMAN	.	UPI000013E9AE	.	deleterious(0.03)	benign(0.046)	2/2	.	Prints_domain:PR00794,Superfamily_domains:SSF54076,SMART_domains:SM00092,Gene3D:3.10.130.10,Pfam_domain:PF00074,hmmpanther:PTHR11437:SF3,hmmpanther:PTHR11437	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTGACCTC	.	5	BLCA
HNRNPC	0	.	GRCh37	14	21681248	21681248	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433C>G	p.Pro145Ala	p.P145A	ENST00000320084	5/8	64	52	12	64	64	0	HNRNPC,missense_variant,p.Pro132Ala,ENST00000554969,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000555883,;HNRNPC,missense_variant,p.Pro65Ala,ENST00000556628,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000336053,;HNRNPC,missense_variant,p.Pro29Ala,ENST00000554539,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000556513,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000553753,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000556897,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000553300,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000556142,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000555309,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000554383,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000555137,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000554455,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000555914,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000557201,;HNRNPC,missense_variant,p.Pro53Ala,ENST00000557157,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000420743,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000555215,;HNRNPC,missense_variant,p.Pro145Ala,ENST00000320084,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000430246,;HNRNPC,missense_variant,p.Pro132Ala,ENST00000449098,;HNRNPC,downstream_gene_variant,,ENST00000554891,;HNRNPC,non_coding_transcript_exon_variant,,ENST00000554417,;HNRNPC,non_coding_transcript_exon_variant,,ENST00000555585,;HNRNPC,intron_variant,,ENST00000557442,;HNRNPC,upstream_gene_variant,,ENST00000553444,;	C	ENSG00000092199	ENST00000320084	Transcript	missense_variant	673	433	145	P/A	Cct/Gct	.	.	.	-1	HNRNPC	HGNC	5035	protein_coding	YES	CCDS41915.1	ENSP00000319690	HNRPC_HUMAN	G3V575_HUMAN,G3V555_HUMAN,G3V4M8_HUMAN,G3V2H6_HUMAN	UPI000013C6E4	.	tolerated(0.1)	benign(0.023)	5/8	.	PIRSF_domain:PIRSF037992,hmmpanther:PTHR13968:SF17,hmmpanther:PTHR13968,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAGGAGGTA	.	5	BLCA
REM2	0	.	GRCh37	14	23354069	23354069	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.290C>T	p.Ser97Leu	p.S97L	ENST00000267396	2/5	53	45	8	51	51	0	REM2,missense_variant,p.Ser97Leu,ENST00000267396,;REM2,missense_variant,p.Ser97Leu,ENST00000536884,;LRP10,downstream_gene_variant,,ENST00000551466,;LRP10,downstream_gene_variant,,ENST00000359591,;	T	ENSG00000139890	ENST00000267396	Transcript	missense_variant	413	290	97	S/L	tCg/tTg	COSM3495042	.	.	1	REM2	HGNC	20248	protein_coding	YES	CCDS45082.1	ENSP00000267396	REM2_HUMAN	.	UPI00000716C5	.	tolerated(0.28)	probably_damaging(0.996)	2/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24070,hmmpanther:PTHR24070:SF197,PIRSF_domain:PIRSF038017	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTCGTCTG	.	4	BLCA
NGDN	0	.	GRCh37	14	23946430	23946430	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.735G>A	p.Met245Ile	p.M245I	ENST00000408901	9/11	49	39	10	36	36	0	NGDN,start_lost,p.Met1?,ENST00000556580,;NGDN,missense_variant,p.Met245Ile,ENST00000408901,;NGDN,missense_variant,p.Met3Ile,ENST00000556699,;NGDN,missense_variant,p.Met245Ile,ENST00000397154,;NGDN,missense_variant,p.Met193Ile,ENST00000556483,;NGDN,downstream_gene_variant,,ENST00000555128,;NGDN,non_coding_transcript_exon_variant,,ENST00000556022,;NGDN,non_coding_transcript_exon_variant,,ENST00000553439,;NGDN,non_coding_transcript_exon_variant,,ENST00000556103,;NGDN,downstream_gene_variant,,ENST00000553336,;	A	ENSG00000129460	ENST00000408901	Transcript	missense_variant	763	735	245	M/I	atG/atA	.	.	.	1	NGDN	HGNC	20271	protein_coding	YES	CCDS41926.1	ENSP00000386134	NGDN_HUMAN	G3V601_HUMAN,G3V4G1_HUMAN	UPI000006F7A0	.	tolerated(0.09)	possibly_damaging(0.882)	9/11	.	hmmpanther:PTHR13237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATGATGGT	.	5	BLCA
ARHGAP5	0	.	GRCh37	14	32559836	32559836	+	5'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-40C>G	.	.	ENST00000345122	2/7	59	49	10	42	42	0	ARHGAP5,5_prime_UTR_variant,,ENST00000556191,;ARHGAP5,5_prime_UTR_variant,,ENST00000432921,;ARHGAP5,5_prime_UTR_variant,,ENST00000539826,;ARHGAP5,5_prime_UTR_variant,,ENST00000345122,;ARHGAP5,5_prime_UTR_variant,,ENST00000556611,;ARHGAP5,5_prime_UTR_variant,,ENST00000555814,;ARHGAP5,intron_variant,,ENST00000554090,;ARHGAP5,intron_variant,,ENST00000396582,;ARHGAP5,intron_variant,,ENST00000433497,;ARHGAP5,upstream_gene_variant,,ENST00000557643,;	G	ENSG00000100852	ENST00000345122	Transcript	5_prime_UTR_variant	276	.	.	.	.	.	.	.	1	ARHGAP5	HGNC	675	protein_coding	YES	CCDS32062.1	ENSP00000371897	RHG05_HUMAN	G3V5I7_HUMAN,G3V444_HUMAN,G3V360_HUMAN	UPI000057B85C	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATATCTGGTT	.	2	BLCA
BAZ1A	0	.	GRCh37	14	35233926	35233926	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3763G>T	p.Glu1255Ter	p.E1255*	ENST00000360310	23/27	28	23	5	16	16	0	BAZ1A,stop_gained,p.Glu1223Ter,ENST00000358716,;BAZ1A,stop_gained,p.Glu1255Ter,ENST00000360310,;BAZ1A,stop_gained,p.Glu1255Ter,ENST00000382422,;BAZ1A,downstream_gene_variant,,ENST00000554865,;BAZ1A,upstream_gene_variant,,ENST00000555331,;BAZ1A,upstream_gene_variant,,ENST00000557739,;	A	ENSG00000198604	ENST00000360310	Transcript	stop_gained	4331	3763	1255	E/*	Gag/Tag	COSM1369649	.	.	-1	BAZ1A	HGNC	960	protein_coding	YES	CCDS9651.1	ENSP00000353458	BAZ1A_HUMAN	D3DS96_HUMAN	UPI00001584D3	.	.	.	23/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF145	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTTCTT	.	4	BLCA
FKBP3	0	.	GRCh37	14	45587268	45587268	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583G>A	p.Glu195Lys	p.E195K	ENST00000216330	7/8	188	163	24	135	135	0	FKBP3,missense_variant,p.Glu195Lys,ENST00000396062,;FKBP3,missense_variant,p.Glu195Lys,ENST00000216330,;PRPF39,downstream_gene_variant,,ENST00000355765,;FKBP3,downstream_gene_variant,,ENST00000557324,;PRPF39,downstream_gene_variant,,ENST00000554439,;FKBP3,downstream_gene_variant,,ENST00000556231,;PRPF39,downstream_gene_variant,,ENST00000424478,;PRPF39,downstream_gene_variant,,ENST00000554429,;PRPF39,downstream_gene_variant,,ENST00000554785,;PRPF39,downstream_gene_variant,,ENST00000477626,;PRPF39,downstream_gene_variant,,ENST00000554081,;	T	ENSG00000100442	ENST00000216330	Transcript	missense_variant	994	583	195	E/K	Gaa/Aaa	.	.	.	-1	FKBP3	HGNC	3719	protein_coding	YES	CCDS9683.1	ENSP00000216330	FKBP3_HUMAN	.	UPI000012A815	.	deleterious(0.04)	benign(0.041)	7/8	.	PROSITE_profiles:PS50059,hmmpanther:PTHR10516,Gene3D:3.10.50.40,Pfam_domain:PF00254,Superfamily_domains:SSF54534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCATTCTGGTT	.	3	BLCA
FKBP3	0	.	GRCh37	14	45587274	45587274	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.577G>A	p.Glu193Lys	p.E193K	ENST00000216330	7/8	180	159	20	127	127	0	FKBP3,missense_variant,p.Glu193Lys,ENST00000396062,;FKBP3,missense_variant,p.Glu193Lys,ENST00000216330,;PRPF39,downstream_gene_variant,,ENST00000355765,;FKBP3,downstream_gene_variant,,ENST00000557324,;PRPF39,downstream_gene_variant,,ENST00000554439,;FKBP3,downstream_gene_variant,,ENST00000556231,;PRPF39,downstream_gene_variant,,ENST00000424478,;PRPF39,downstream_gene_variant,,ENST00000554429,;PRPF39,downstream_gene_variant,,ENST00000554785,;PRPF39,downstream_gene_variant,,ENST00000477626,;PRPF39,downstream_gene_variant,,ENST00000554081,;	T	ENSG00000100442	ENST00000216330	Transcript	missense_variant	988	577	193	E/K	Gaa/Aaa	.	.	.	-1	FKBP3	HGNC	3719	protein_coding	YES	CCDS9683.1	ENSP00000216330	FKBP3_HUMAN	.	UPI000012A815	.	tolerated(0.08)	possibly_damaging(0.884)	7/8	.	PROSITE_profiles:PS50059,hmmpanther:PTHR10516,Gene3D:3.10.50.40,Pfam_domain:PF00254,Superfamily_domains:SSF54534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGTTCAATCT	.	3	BLCA
FANCM	0	.	GRCh37	14	45623965	45623965	+	Missense_Mutation	SNP	G	G	C	rs141729590	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1249G>C	p.Glu417Gln	p.E417Q	ENST00000267430	7/23	60	48	12	36	36	0	FANCM,missense_variant,p.Glu417Gln,ENST00000556036,;FANCM,missense_variant,p.Glu391Gln,ENST00000542564,;FANCM,missense_variant,p.Glu2Gln,ENST00000556250,;FANCM,missense_variant,p.Glu417Gln,ENST00000267430,;	C	ENSG00000187790	ENST00000267430	Transcript	missense_variant	1334	1249	417	E/Q	Gag/Cag	rs141729590	.	.	1	FANCM	HGNC	23168	protein_coding	YES	CCDS32070.1	ENSP00000267430	FANCM_HUMAN	.	UPI000059F032	.	tolerated(0.06)	benign(0.017)	7/23	.	hmmpanther:PTHR14025,hmmpanther:PTHR14025:SF20,Gene3D:1wp9B03	.	.	.	.	.	.	.	C:0.0005	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTAGAGTGT	byCluster	5	BLCA
PTGDR	0	.	GRCh37	14	52735213	52735213	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681G>C	p.%3D	p.A227A	ENST00000306051	1/2	87	76	10	58	57	0	PTGDR,synonymous_variant,p.%3D,ENST00000553372,;PTGDR,synonymous_variant,p.%3D,ENST00000306051,;	C	ENSG00000168229	ENST00000306051	Transcript	synonymous_variant	783	681	227	A	gcG/gcC	.	.	.	1	PTGDR	HGNC	9591	protein_coding	YES	CCDS9707.1	ENSP00000303424	PD2R_HUMAN	.	UPI000000D994	.	.	.	1/2	.	Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,hmmpanther:PTHR11866:SF14,hmmpanther:PTHR11866,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TATGCGATGCA	.	3	BLCA
SYNE2	0	.	GRCh37	14	64588826	64588826	+	Missense_Mutation	SNP	G	G	A	rs774059513	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13255G>A	p.Asp4419Asn	p.D4419N	ENST00000358025	69/116	54	49	5	63	63	0	SYNE2,missense_variant,p.Asp4434Asn,ENST00000554584,;SYNE2,missense_variant,p.Asp804Asn,ENST00000394768,;SYNE2,missense_variant,p.Asp138Asn,ENST00000553455,;SYNE2,missense_variant,p.Asp4419Asn,ENST00000344113,;SYNE2,missense_variant,p.Asp804Asn,ENST00000357395,;SYNE2,missense_variant,p.Asp4419Asn,ENST00000358025,;SYNE2,missense_variant,p.Asp1053Asn,ENST00000555002,;ESR2,intron_variant,,ENST00000556275,;ESR2,intron_variant,,ENST00000542956,;	A	ENSG00000054654	ENST00000358025	Transcript	missense_variant	13485	13255	4419	D/N	Gat/Aat	rs774059513	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	benign(0.01)	69/116	.	hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ATAACGATACA	.	2	BLCA
AKAP5	0	.	GRCh37	14	64936098	64936098	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.986C>G	p.Ser329Ter	p.S329*	ENST00000394718	2/2	105	82	22	100	100	0	AKAP5,stop_gained,p.Ser329Ter,ENST00000394718,;AKAP5,stop_gained,p.Ser329Ter,ENST00000320636,;ZBTB25,intron_variant,,ENST00000555424,;ZBTB25,intron_variant,,ENST00000555220,;	G	ENSG00000179841	ENST00000394718	Transcript	stop_gained	1364	986	329	S/*	tCa/tGa	.	.	.	1	AKAP5	HGNC	375	protein_coding	YES	CCDS9764.1	ENSP00000378207	AKAP5_HUMAN	.	UPI0000140927	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15182:SF0,hmmpanther:PTHR15182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAATCAGAAG	.	5	BLCA
ERH	0	.	GRCh37	14	69853691	69853691	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201C>T	p.%3D	p.L67L	ENST00000557016	3/4	26	19	7	27	27	0	ERH,synonymous_variant,p.%3D,ENST00000557016,;ERH,synonymous_variant,p.%3D,ENST00000555373,;ERH,non_coding_transcript_exon_variant,,ENST00000216520,;ERH,intron_variant,,ENST00000557697,;	A	ENSG00000100632	ENST00000557016	Transcript	synonymous_variant	595	201	67	L	ctC/ctT	.	.	.	-1	ERH	HGNC	3447	protein_coding	YES	CCDS9794.1	ENSP00000451080	ERH_HUMAN	G3V279_HUMAN	UPI0000000284	.	.	.	3/4	.	hmmpanther:PTHR12373,hmmpanther:PTHR12373:SF1,PROSITE_patterns:PS01290,Pfam_domain:PF01133,PIRSF_domain:PIRSF016393,Superfamily_domains:0053200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGAGGTC	.	5	BLCA
SAMD15	0	.	GRCh37	14	77844297	77844297	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.536G>C	p.Arg179Thr	p.R179T	ENST00000216471	1/3	81	69	12	66	66	0	SAMD15,missense_variant,p.Arg179Thr,ENST00000216471,;SAMD15,intron_variant,,ENST00000533095,;TMED8,upstream_gene_variant,,ENST00000216468,;	C	ENSG00000100583	ENST00000216471	Transcript	missense_variant	822	536	179	R/T	aGa/aCa	.	.	.	1	SAMD15	HGNC	18631	protein_coding	YES	CCDS32126.1	ENSP00000216471	SAM15_HUMAN	G3V2Z3_HUMAN	UPI0000072F0E	.	tolerated(1)	benign(0)	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22908,hmmpanther:PTHR22908:SF55	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGAGAAATT	.	5	BLCA
CATSPERB	0	.	GRCh37	14	92047389	92047389	+	Silent	SNP	C	C	T	rs775176127	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3195G>A	p.%3D	p.A1065A	ENST00000256343	27/27	58	51	7	47	47	0	CATSPERB,synonymous_variant,p.%3D,ENST00000256343,;CATSPERB,3_prime_UTR_variant,,ENST00000557036,;	T	ENSG00000133962	ENST00000256343	Transcript	synonymous_variant	3352	3195	1065	A	gcG/gcA	rs775176127,COSM243501	.	.	-1	CATSPERB	HGNC	20500	protein_coding	YES	CCDS32142.1	ENSP00000256343	CTSRB_HUMAN	G3V584_HUMAN,G3V352_HUMAN	UPI0000418DA1	.	.	.	27/27	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14705,Pfam_domain:PF15149	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTACCGCTGT	byFrequency	4	BLCA
MEF2A	0	.	GRCh37	15	100211599	100211599	+	Intron	SNP	C	C	G	rs1136937	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259-126C>G	.	.	ENST00000354410	.	108	81	27	86	86	0	MEF2A,synonymous_variant,p.%3D,ENST00000449277,;MEF2A,synonymous_variant,p.%3D,ENST00000338042,;MEF2A,synonymous_variant,p.%3D,ENST00000558812,;MEF2A,synonymous_variant,p.%3D,ENST00000453228,;MEF2A,synonymous_variant,p.%3D,ENST00000557785,;MEF2A,synonymous_variant,p.%3D,ENST00000557942,;MEF2A,intron_variant,,ENST00000354410,;MEF2A,non_coding_transcript_exon_variant,,ENST00000558983,;	G	ENSG00000068305	ENST00000354410	Transcript	intron_variant	.	.	.	.	.	rs1136937	.	.	1	MEF2A	HGNC	6993	protein_coding	YES	CCDS45362.1	ENSP00000346389	MEF2A_HUMAN	H0YNI2_HUMAN,H0YM62_HUMAN,H0YKY6_HUMAN,D6RJ95_HUMAN	UPI0000073025	.	.	.	.	4/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTCTCGGA	.	5	BLCA
NPAP1	0	.	GRCh37	15	24922734	24922734	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720G>A	p.Glu574Lys	p.E574K	ENST00000329468	1/1	84	79	5	67	67	0	NPAP1,missense_variant,p.Glu574Lys,ENST00000329468,;	A	ENSG00000185823	ENST00000329468	Transcript	missense_variant	2194	1720	574	E/K	Gaa/Aaa	.	.	.	1	NPAP1	HGNC	1190	protein_coding	YES	CCDS10015.1	ENSP00000333735	NPAP1_HUMAN	.	UPI00001AFA1B	.	tolerated(0.3)	benign(0.44)	1/1	.	hmmpanther:PTHR23193,hmmpanther:PTHR23193:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCCTGAAGTA	.	2	BLCA
GABRG3	0	.	GRCh37	15	27725925	27725925	+	Missense_Mutation	SNP	C	C	T	rs760201044	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.704C>T	p.Thr235Met	p.T235M	ENST00000333743	6/10	16	13	3	17	17	0	GABRG3,missense_variant,p.Thr177Met,ENST00000554696,;GABRG3,missense_variant,p.Thr235Met,ENST00000555083,;GABRG3,missense_variant,p.Thr235Met,ENST00000333743,;RP11-100M12.3,downstream_gene_variant,,ENST00000556642,;	T	ENSG00000182256	ENST00000333743	Transcript	missense_variant	958	704	235	T/M	aCg/aTg	rs760201044	.	.	1	GABRG3	HGNC	4088	protein_coding	YES	CCDS45195.1	ENSP00000331912	GBRG3_HUMAN	.	UPI000012AFCB	.	deleterious(0)	probably_damaging(0.992)	6/10	.	hmmpanther:PTHR18945:SF195,hmmpanther:PTHR18945,TIGRFAM_domain:TIGR00860,Gene3D:2.70.170.10,Pfam_domain:PF02931,Superfamily_domains:0038932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAACGTCTG	byFrequency	5	BLCA
GPR176	0	.	GRCh37	15	40093774	40093774	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1107C>T	p.%3D	p.L369L	ENST00000561100	3/3	155	125	30	96	96	0	GPR176,synonymous_variant,p.%3D,ENST00000543580,;GPR176,synonymous_variant,p.%3D,ENST00000561100,;GPR176,synonymous_variant,p.%3D,ENST00000299092,;GPR176,downstream_gene_variant,,ENST00000558041,;RP11-37C7.1,upstream_gene_variant,,ENST00000558616,;GPR176,downstream_gene_variant,,ENST00000560729,;	A	ENSG00000166073	ENST00000561100	Transcript	synonymous_variant	1973	1107	369	L	ctC/ctT	COSM3500770	.	.	-1	GPR176	HGNC	32370	protein_coding	YES	CCDS10051.1	ENSP00000453076	GP176_HUMAN	H9NIL9_HUMAN	UPI0000041346	.	.	.	3/3	.	hmmpanther:PTHR22752:SF1,hmmpanther:PTHR22752	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCAGGAGCTG	.	4	BLCA
EIF2AK4	0	.	GRCh37	15	40269014	40269014	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2218G>A	p.Glu740Lys	p.E740K	ENST00000263791	12/39	79	62	16	59	59	0	EIF2AK4,missense_variant,p.Glu546Lys,ENST00000560855,;EIF2AK4,missense_variant,p.Glu740Lys,ENST00000382727,;EIF2AK4,missense_variant,p.Glu740Lys,ENST00000263791,;EIF2AK4,downstream_gene_variant,,ENST00000559624,;	A	ENSG00000128829	ENST00000263791	Transcript	missense_variant	2261	2218	740	E/K	Gag/Aag	.	.	.	1	EIF2AK4	HGNC	19687	protein_coding	YES	CCDS42016.1	ENSP00000263791	E2AK4_HUMAN	.	UPI0000160791	.	tolerated(0.14)	benign(0.102)	12/39	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50011,hmmpanther:PTHR11042,hmmpanther:PTHR11042:SF70,PIRSF_domain:PIRSF000660,SMART_domains:SM00220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.D737_E738insDD|c.2213_2214insCGACGA|8	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACGAGCAC	.	5	BLCA
LRRC57	0	.	GRCh37	15	42837403	42837403	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550G>T	p.Glu184Ter	p.E184*	ENST00000323443	4/5	57	51	6	36	36	0	LRRC57,stop_gained,p.Glu184Ter,ENST00000323443,;LRRC57,stop_gained,p.Glu184Ter,ENST00000563454,;LRRC57,stop_gained,p.Glu184Ter,ENST00000397130,;SNAP23,missense_variant,p.Phe76Leu,ENST00000563873,;SNAP23,splice_region_variant,,ENST00000563830,;SNAP23,3_prime_UTR_variant,,ENST00000568841,;HAUS2,upstream_gene_variant,,ENST00000568846,;HAUS2,upstream_gene_variant,,ENST00000562398,;HAUS2,upstream_gene_variant,,ENST00000568876,;HAUS2,upstream_gene_variant,,ENST00000260372,;LRRC57,downstream_gene_variant,,ENST00000570160,;LRRC57,non_coding_transcript_exon_variant,,ENST00000569830,;LRRC57,non_coding_transcript_exon_variant,,ENST00000562868,;HAUS2,upstream_gene_variant,,ENST00000391623,;HAUS2,upstream_gene_variant,,ENST00000563479,;HAUS2,upstream_gene_variant,,ENST00000567640,;HAUS2,upstream_gene_variant,,ENST00000570178,;HAUS2,upstream_gene_variant,,ENST00000564279,;	A	ENSG00000180979	ENST00000323443	Transcript	stop_gained	918	550	184	E/*	Gaa/Taa	.	.	.	-1	LRRC57	HGNC	26719	protein_coding	YES	CCDS10089.1	ENSP00000326817	LRC57_HUMAN	H3BSW0_HUMAN	UPI000004F8C8	.	.	.	4/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23155,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCCAGGC	.	4	BLCA
LRRC57	0	.	GRCh37	15	42839600	42839600	+	Silent	SNP	C	C	T	rs201038101	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351G>A	p.%3D	p.G117G	ENST00000323443	3/5	84	65	19	57	57	0	LRRC57,synonymous_variant,p.%3D,ENST00000323443,;LRRC57,synonymous_variant,p.%3D,ENST00000563454,;LRRC57,synonymous_variant,p.%3D,ENST00000397130,;LRRC57,synonymous_variant,p.%3D,ENST00000570160,;HAUS2,upstream_gene_variant,,ENST00000568846,;HAUS2,upstream_gene_variant,,ENST00000562398,;SNAP23,downstream_gene_variant,,ENST00000563830,;SNAP23,downstream_gene_variant,,ENST00000568841,;HAUS2,upstream_gene_variant,,ENST00000568876,;HAUS2,upstream_gene_variant,,ENST00000260372,;SNAP23,downstream_gene_variant,,ENST00000563873,;LRRC57,non_coding_transcript_exon_variant,,ENST00000569830,;HAUS2,upstream_gene_variant,,ENST00000391623,;HAUS2,upstream_gene_variant,,ENST00000563479,;HAUS2,upstream_gene_variant,,ENST00000567640,;LRRC57,upstream_gene_variant,,ENST00000562868,;HAUS2,upstream_gene_variant,,ENST00000570178,;HAUS2,upstream_gene_variant,,ENST00000564279,;	T	ENSG00000180979	ENST00000323443	Transcript	synonymous_variant	719	351	117	G	ggG/ggA	rs201038101	.	.	-1	LRRC57	HGNC	26719	protein_coding	YES	CCDS10089.1	ENSP00000326817	LRC57_HUMAN	H3BSW0_HUMAN	UPI000004F8C8	.	.	.	3/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23155,Gene3D:3.80.10.10,Pfam_domain:PF13855,SMART_domains:SM00364,SMART_domains:SM00369,Superfamily_domains:SSF52058,Prints_domain:PR00019	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCCCAGA	by1000G	5	BLCA
LRRC57	0	.	GRCh37	15	42839711	42839711	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240G>A	p.%3D	p.E80E	ENST00000323443	3/5	82	73	8	58	58	0	LRRC57,synonymous_variant,p.%3D,ENST00000323443,;LRRC57,synonymous_variant,p.%3D,ENST00000563454,;LRRC57,synonymous_variant,p.%3D,ENST00000397130,;LRRC57,synonymous_variant,p.%3D,ENST00000570160,;HAUS2,upstream_gene_variant,,ENST00000568846,;HAUS2,upstream_gene_variant,,ENST00000562398,;SNAP23,downstream_gene_variant,,ENST00000563830,;SNAP23,downstream_gene_variant,,ENST00000568841,;HAUS2,upstream_gene_variant,,ENST00000568876,;HAUS2,upstream_gene_variant,,ENST00000260372,;SNAP23,downstream_gene_variant,,ENST00000563873,;LRRC57,non_coding_transcript_exon_variant,,ENST00000569830,;HAUS2,upstream_gene_variant,,ENST00000391623,;HAUS2,upstream_gene_variant,,ENST00000563479,;HAUS2,upstream_gene_variant,,ENST00000567640,;LRRC57,upstream_gene_variant,,ENST00000562868,;HAUS2,upstream_gene_variant,,ENST00000570178,;HAUS2,upstream_gene_variant,,ENST00000564279,;	T	ENSG00000180979	ENST00000323443	Transcript	synonymous_variant	608	240	80	E	gaG/gaA	.	.	.	-1	LRRC57	HGNC	26719	protein_coding	YES	CCDS10089.1	ENSP00000326817	LRC57_HUMAN	H3BSW0_HUMAN	UPI000004F8C8	.	.	.	3/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23155,Gene3D:3.80.10.10,SMART_domains:SM00364,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATATCTCATC	.	4	BLCA
LRRC57	0	.	GRCh37	15	42840546	42840546	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84+3G>A	.	.	ENST00000323443	.	51	42	9	42	42	0	LRRC57,splice_region_variant,,ENST00000323443,;LRRC57,splice_region_variant,,ENST00000563454,;LRRC57,splice_region_variant,,ENST00000397130,;LRRC57,splice_region_variant,,ENST00000570160,;HAUS2,upstream_gene_variant,,ENST00000568846,;HAUS2,upstream_gene_variant,,ENST00000562398,;SNAP23,downstream_gene_variant,,ENST00000563830,;SNAP23,downstream_gene_variant,,ENST00000568841,;HAUS2,upstream_gene_variant,,ENST00000568876,;HAUS2,upstream_gene_variant,,ENST00000260372,;SNAP23,downstream_gene_variant,,ENST00000563873,;LRRC57,splice_region_variant,,ENST00000569830,;HAUS2,upstream_gene_variant,,ENST00000391623,;HAUS2,upstream_gene_variant,,ENST00000563479,;HAUS2,upstream_gene_variant,,ENST00000567640,;LRRC57,upstream_gene_variant,,ENST00000562868,;HAUS2,upstream_gene_variant,,ENST00000570178,;HAUS2,upstream_gene_variant,,ENST00000564279,;	T	ENSG00000180979	ENST00000323443	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	LRRC57	HGNC	26719	protein_coding	YES	CCDS10089.1	ENSP00000326817	LRC57_HUMAN	H3BSW0_HUMAN	UPI000004F8C8	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCACCTC	.	4	BLCA
RNF111	0	.	GRCh37	15	59350651	59350651	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1268C>T	p.Ser423Phe	p.S423F	ENST00000559209	5/14	282	231	50	190	190	0	RNF111,missense_variant,p.Ser423Phe,ENST00000434298,;RNF111,missense_variant,p.Ser156Phe,ENST00000559592,;RNF111,missense_variant,p.Ser423Phe,ENST00000561186,;RNF111,missense_variant,p.Ser423Phe,ENST00000557998,;RNF111,missense_variant,p.Ser423Phe,ENST00000348370,;RNF111,missense_variant,p.Ser423Phe,ENST00000559209,;	T	ENSG00000157450	ENST00000559209	Transcript	missense_variant	1404	1268	423	S/F	tCt/tTt	COSM1301265,COSM1301266	.	.	1	RNF111	HGNC	17384	protein_coding	YES	CCDS58365.1	ENSP00000453872	RN111_HUMAN	H0YKS2_HUMAN	UPI0000EE4EBD	.	tolerated_low_confidence(0.13)	probably_damaging(0.998)	5/14	.	hmmpanther:PTHR13644,hmmpanther:PTHR13644:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTGATA	.	4	BLCA
MYO1E	0	.	GRCh37	15	59430453	59430453	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3194A>G	p.Gln1065Arg	p.Q1065R	ENST00000288235	27/28	125	98	27	101	100	0	MYO1E,missense_variant,p.Gln1065Arg,ENST00000288235,;MYO1E,intron_variant,,ENST00000559412,;	C	ENSG00000157483	ENST00000288235	Transcript	missense_variant	3594	3194	1065	Q/R	cAg/cGg	.	.	.	-1	MYO1E	HGNC	7599	protein_coding	YES	CCDS32254.1	ENSP00000288235	MYO1E_HUMAN	Q4KMR3_HUMAN	UPI00001FE590	.	deleterious(0.02)	probably_damaging(0.998)	27/28	.	PROSITE_profiles:PS50002,Pfam_domain:PF00018,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCCTGAGCG	.	5	BLCA
HERC1	0	.	GRCh37	15	63967011	63967011	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7376C>T	p.Ser2459Leu	p.S2459L	ENST00000443617	38/78	188	173	15	144	144	0	HERC1,missense_variant,p.Ser2459Leu,ENST00000443617,;HERC1,missense_variant,p.Ser142Leu,ENST00000559715,;RP11-317G6.1,upstream_gene_variant,,ENST00000559303,;	A	ENSG00000103657	ENST00000443617	Transcript	missense_variant	7464	7376	2459	S/L	tCa/tTa	.	.	.	-1	HERC1	HGNC	4867	protein_coding	YES	CCDS45277.1	ENSP00000390158	HERC1_HUMAN	H0YL74_HUMAN,H0YL07_HUMAN,H0YKW7_HUMAN	UPI0000212760	.	.	possibly_damaging(0.713)	38/78	.	hmmpanther:PTHR22870:SF156,hmmpanther:PTHR22870	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTCTGATTTG	.	3	BLCA
DIS3L	0	.	GRCh37	15	66625378	66625378	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2893G>C	p.Asp965His	p.D965H	ENST00000319212	17/17	49	44	5	51	51	0	DIS3L,missense_variant,p.Asp882His,ENST00000319194,;DIS3L,missense_variant,p.Asp965His,ENST00000319212,;TIPIN,downstream_gene_variant,,ENST00000261881,;TIPIN,downstream_gene_variant,,ENST00000562124,;TIPIN,downstream_gene_variant,,ENST00000367709,;RP11-352G18.2,upstream_gene_variant,,ENST00000565993,;DIS3L,downstream_gene_variant,,ENST00000568874,;DIS3L,3_prime_UTR_variant,,ENST00000530537,;DIS3L,downstream_gene_variant,,ENST00000564945,;TIPIN,downstream_gene_variant,,ENST00000566524,;	C	ENSG00000166938	ENST00000319212	Transcript	missense_variant	2943	2893	965	D/H	Gat/Cat	.	.	.	1	DIS3L	HGNC	28698	protein_coding	YES	CCDS45286.1	ENSP00000321711	DI3L1_HUMAN	E9PS35_HUMAN,E9PIL0_HUMAN,E9PI27_HUMAN,E9PI20_HUMAN	UPI000162779D	.	tolerated(0.28)	benign(0.032)	17/17	.	hmmpanther:PTHR23355,hmmpanther:PTHR23355:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCTGATACA	.	4	BLCA
SMAD3	0	.	GRCh37	15	67457593	67457593	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.403C>G	p.Leu135Val	p.L135V	ENST00000327367	3/9	110	91	19	78	78	0	SMAD3,missense_variant,p.Leu30Val,ENST00000558739,;SMAD3,missense_variant,p.Leu30Val,ENST00000558894,;SMAD3,missense_variant,p.Leu135Val,ENST00000327367,;SMAD3,missense_variant,p.Leu30Val,ENST00000540846,;SMAD3,missense_variant,p.Leu91Val,ENST00000439724,;SMAD3,missense_variant,p.Leu30Val,ENST00000559460,;SMAD3,missense_variant,p.Leu30Val,ENST00000560175,;SMAD3,downstream_gene_variant,,ENST00000559092,;SMAD3,upstream_gene_variant,,ENST00000558428,;SMAD3,upstream_gene_variant,,ENST00000558827,;SMAD3,upstream_gene_variant,,ENST00000537194,;SMAD3,splice_region_variant,,ENST00000559937,;	G	ENSG00000166949	ENST00000327367	Transcript	missense_variant	713	403	135	L/V	Cta/Gta	.	.	.	1	SMAD3	HGNC	6769	protein_coding	YES	CCDS10222.1	ENSP00000332973	SMAD3_HUMAN	Q68DS8_HUMAN,H3BP09_HUMAN,H0YNV1_HUMAN,H0YMP2_HUMAN,H0YL71_HUMAN,H0YKE2_HUMAN	UPI0000023A91	.	deleterious(0.03)	benign(0.126)	3/9	.	Low_complexity_(Seg):seg,Gene3D:1ozjA00,hmmpanther:PTHR13703:SF25,hmmpanther:PTHR13703,PROSITE_profiles:PS51075	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTCTACCT	.	5	BLCA
KIF23	0	.	GRCh37	15	69718506	69718506	+	Missense_Mutation	SNP	G	G	C	rs763331945	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.832G>C	p.Glu278Gln	p.E278Q	ENST00000260363	8/23	46	38	7	39	39	0	KIF23,missense_variant,p.Glu278Gln,ENST00000260363,;KIF23,missense_variant,p.Glu95Gln,ENST00000537891,;KIF23,missense_variant,p.Glu95Gln,ENST00000558585,;KIF23,missense_variant,p.Glu278Gln,ENST00000352331,;KIF23,missense_variant,p.Glu278Gln,ENST00000559279,;KIF23,missense_variant,p.Glu278Gln,ENST00000395392,;KIF23,missense_variant,p.Glu81Gln,ENST00000559283,;KIF23,missense_variant,p.Glu292Gln,ENST00000558346,;KIF23,3_prime_UTR_variant,,ENST00000561089,;KIF23,non_coding_transcript_exon_variant,,ENST00000559456,;KIF23,downstream_gene_variant,,ENST00000560042,;	C	ENSG00000137807	ENST00000260363	Transcript	missense_variant	949	832	278	E/Q	Gaa/Caa	rs763331945	.	.	1	KIF23	HGNC	6392	protein_coding	YES	CCDS32278.1	ENSP00000260363	KIF23_HUMAN	.	UPI0000072141	.	tolerated(0.14)	benign(0.34)	8/23	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF88,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTGAAGTT	.	5	BLCA
PARP6	0	.	GRCh37	15	72534268	72534268	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1764C>A	p.Asp588Glu	p.D588E	ENST00000569795	23/24	88	75	12	62	62	0	PARP6,missense_variant,p.Asp522Glu,ENST00000567974,;PARP6,missense_variant,p.Asp588Glu,ENST00000287196,;PARP6,missense_variant,p.Asp588Glu,ENST00000569795,;PARP6,3_prime_UTR_variant,,ENST00000260376,;PARP6,intron_variant,,ENST00000569173,;PARP6,downstream_gene_variant,,ENST00000419739,;PARP6,non_coding_transcript_exon_variant,,ENST00000413097,;PARP6,non_coding_transcript_exon_variant,,ENST00000544520,;PARP6,3_prime_UTR_variant,,ENST00000567263,;PARP6,3_prime_UTR_variant,,ENST00000565443,;PARP6,3_prime_UTR_variant,,ENST00000567440,;PARP6,3_prime_UTR_variant,,ENST00000564610,;PARP6,non_coding_transcript_exon_variant,,ENST00000566991,;PARP6,non_coding_transcript_exon_variant,,ENST00000566831,;PARP6,non_coding_transcript_exon_variant,,ENST00000569972,;PARP6,downstream_gene_variant,,ENST00000569890,;PARP6,downstream_gene_variant,,ENST00000567042,;	T	ENSG00000137817	ENST00000569795	Transcript	missense_variant	2452	1764	588	D/E	gaC/gaA	.	.	.	-1	PARP6	HGNC	26921	protein_coding	YES	CCDS10241.2	ENSP00000456348	PARP6_HUMAN	H3BUY2_HUMAN,H3BTI3_HUMAN	UPI000067DA73	.	tolerated(0.36)	probably_damaging(0.996)	23/24	.	PROSITE_profiles:PS51059,hmmpanther:PTHR21328:SF23,hmmpanther:PTHR21328,Superfamily_domains:SSF56399	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATGGTCGGA	.	4	BLCA
PEAK1	0	.	GRCh37	15	77425465	77425465	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3959G>C	p.Gly1320Ala	p.G1320A	ENST00000560626	6/7	104	85	18	81	81	0	PEAK1,missense_variant,p.Gly1320Ala,ENST00000560626,;PEAK1,missense_variant,p.Gly1320Ala,ENST00000312493,;	G	ENSG00000173517	ENST00000560626	Transcript	missense_variant	4435	3959	1320	G/A	gGa/gCa	.	.	.	-1	PEAK1	HGNC	29431	protein_coding	YES	CCDS42062.1	ENSP00000452796	PEAK1_HUMAN	H3BUZ5_HUMAN,H3BUE6_HUMAN	UPI00002378D0	.	tolerated(0.09)	probably_damaging(0.999)	6/7	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22972,hmmpanther:PTHR22972:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACTCCAAAA	.	5	BLCA
AKAP13	0	.	GRCh37	15	86122402	86122402	+	Missense_Mutation	SNP	C	C	T	rs144259676	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1103C>T	p.Ser368Phe	p.S368F	ENST00000361243	7/37	79	64	14	64	64	0	AKAP13,missense_variant,p.Ser182Phe,ENST00000558166,;AKAP13,missense_variant,p.Ser368Phe,ENST00000394518,;AKAP13,missense_variant,p.Ser368Phe,ENST00000559362,;AKAP13,missense_variant,p.Ser368Phe,ENST00000361243,;AKAP13,downstream_gene_variant,,ENST00000558811,;RP11-815J21.2,non_coding_transcript_exon_variant,,ENST00000561409,;AKAP13,upstream_gene_variant,,ENST00000560340,;AKAP13,upstream_gene_variant,,ENST00000561337,;	T	ENSG00000170776	ENST00000361243	Transcript	missense_variant	1184	1103	368	S/F	tCc/tTc	rs144259676,COSM107640	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	deleterious(0.04)	probably_damaging(0.998)	7/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	not_provided	1,1	21499247	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTTCCTGTA	byFrequency|byCluster	5	BLCA
AKAP13	0	.	GRCh37	15	86123406	86123406	+	Missense_Mutation	SNP	C	C	T	rs537413224	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2107C>T	p.Pro703Ser	p.P703S	ENST00000361243	7/37	79	71	8	65	65	0	AKAP13,missense_variant,p.Pro703Ser,ENST00000394518,;AKAP13,missense_variant,p.Pro703Ser,ENST00000559362,;AKAP13,missense_variant,p.Pro703Ser,ENST00000361243,;AKAP13,downstream_gene_variant,,ENST00000558166,;AKAP13,downstream_gene_variant,,ENST00000558811,;RP11-815J21.2,non_coding_transcript_exon_variant,,ENST00000561409,;AKAP13,upstream_gene_variant,,ENST00000560340,;AKAP13,upstream_gene_variant,,ENST00000561337,;	T	ENSG00000170776	ENST00000361243	Transcript	missense_variant	2188	2107	703	P/S	Cca/Tca	rs537413224	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	tolerated_low_confidence(0.13)	benign(0.306)	7/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGATCCACCC	.	4	BLCA
AKAP13	0	.	GRCh37	15	86123641	86123641	+	Missense_Mutation	SNP	C	C	T	rs530733643	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2342C>T	p.Ser781Leu	p.S781L	ENST00000361243	7/37	94	83	11	101	101	0	AKAP13,missense_variant,p.Ser781Leu,ENST00000394518,;AKAP13,missense_variant,p.Ser781Leu,ENST00000559362,;AKAP13,missense_variant,p.Ser781Leu,ENST00000361243,;AKAP13,downstream_gene_variant,,ENST00000558166,;AKAP13,downstream_gene_variant,,ENST00000558811,;RP11-815J21.2,upstream_gene_variant,,ENST00000561409,;AKAP13,upstream_gene_variant,,ENST00000560340,;AKAP13,upstream_gene_variant,,ENST00000561337,;	T	ENSG00000170776	ENST00000361243	Transcript	missense_variant	2423	2342	781	S/L	tCa/tTa	rs530733643	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	deleterious_low_confidence(0.01)	possibly_damaging(0.466)	7/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATATCAGACA	byFrequency|byCluster	4	BLCA
AKAP13	0	.	GRCh37	15	86123707	86123707	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2408C>G	p.Ser803Cys	p.S803C	ENST00000361243	7/37	153	134	19	121	121	0	AKAP13,missense_variant,p.Ser803Cys,ENST00000394518,;AKAP13,missense_variant,p.Ser803Cys,ENST00000559362,;AKAP13,missense_variant,p.Ser803Cys,ENST00000361243,;AKAP13,downstream_gene_variant,,ENST00000558166,;AKAP13,downstream_gene_variant,,ENST00000558811,;RP11-815J21.2,upstream_gene_variant,,ENST00000561409,;AKAP13,upstream_gene_variant,,ENST00000560340,;AKAP13,upstream_gene_variant,,ENST00000561337,;	G	ENSG00000170776	ENST00000361243	Transcript	missense_variant	2489	2408	803	S/C	tCt/tGt	.	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	deleterious_low_confidence(0.04)	possibly_damaging(0.855)	7/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTTTCTTTTG	.	4	BLCA
AGBL1	0	.	GRCh37	15	86940643	86940643	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2283G>C	p.Glu761Asp	p.E761D	ENST00000441037	17/24	62	51	11	38	38	0	AGBL1,missense_variant,p.Glu492Asp,ENST00000389298,;AGBL1,missense_variant,p.Glu761Asp,ENST00000441037,;AGBL1,missense_variant,p.Glu761Asp,ENST00000421325,;	C	ENSG00000166748	ENST00000441037	Transcript	missense_variant	2378	2283	761	E/D	gaG/gaC	COSM3504956,COSM3504957	.	.	1	AGBL1	HGNC	26504	protein_coding	YES	CCDS58398.1	ENSP00000413001	CBPC4_HUMAN	J3KQF5_HUMAN	UPI0000EC9CE0	.	deleterious(0)	probably_damaging(1)	17/24	.	hmmpanther:PTHR12756:SF5,hmmpanther:PTHR12756,Gene3D:3.40.630.10,Pfam_domain:PF00246,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGAGAGAGCAA	.	2	BLCA
FANCI	0	.	GRCh37	15	89801991	89801991	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141G>C	p.%3D	p.L47L	ENST00000310775	3/38	92	69	23	88	88	0	FANCI,synonymous_variant,p.%3D,ENST00000563250,;FANCI,synonymous_variant,p.%3D,ENST00000564920,;FANCI,synonymous_variant,p.%3D,ENST00000310775,;FANCI,synonymous_variant,p.%3D,ENST00000300027,;FANCI,synonymous_variant,p.%3D,ENST00000567891,;FANCI,synonymous_variant,p.%3D,ENST00000565255,;FANCI,synonymous_variant,p.%3D,ENST00000567996,;FANCI,5_prime_UTR_variant,,ENST00000451393,;FANCI,upstream_gene_variant,,ENST00000561894,;FANCI,upstream_gene_variant,,ENST00000570225,;FANCI,non_coding_transcript_exon_variant,,ENST00000568670,;FANCI,intron_variant,,ENST00000565522,;FANCI,synonymous_variant,p.%3D,ENST00000447611,;FANCI,non_coding_transcript_exon_variant,,ENST00000564636,;FANCI,non_coding_transcript_exon_variant,,ENST00000570110,;	C	ENSG00000140525	ENST00000310775	Transcript	synonymous_variant	227	141	47	L	ctG/ctC	.	.	.	1	FANCI	HGNC	25568	protein_coding	YES	CCDS45346.1	ENSP00000310842	FANCI_HUMAN	H3BT54_HUMAN,H3BS60_HUMAN,H3BQE2_HUMAN	UPI00001FEB1D	.	.	.	3/38	.	hmmpanther:PTHR21818,hmmpanther:PTHR21818:SF0,Pfam_domain:PF14674	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTGAGAGC	.	5	BLCA
PRC1	0	.	GRCh37	15	91519967	91519967	+	Missense_Mutation	SNP	C	C	G	rs776689189	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142G>C	p.Arg381Pro	p.R381P	ENST00000394249	9/15	99	95	4	64	64	0	PRC1,missense_variant,p.Arg381Pro,ENST00000361188,;PRC1,missense_variant,p.Arg381Pro,ENST00000361919,;PRC1,missense_variant,p.Arg73Pro,ENST00000559828,;PRC1,missense_variant,p.Arg340Pro,ENST00000442656,;PRC1,missense_variant,p.Arg381Pro,ENST00000394249,;PRC1,downstream_gene_variant,,ENST00000557905,;PRC1,upstream_gene_variant,,ENST00000555455,;PRC1-AS1,intron_variant,,ENST00000554388,;PRC1-AS1,downstream_gene_variant,,ENST00000556200,;Y_RNA,downstream_gene_variant,,ENST00000363272,;PRC1,non_coding_transcript_exon_variant,,ENST00000559326,;PRC1,non_coding_transcript_exon_variant,,ENST00000560914,;PRC1,downstream_gene_variant,,ENST00000417173,;PRC1,downstream_gene_variant,,ENST00000553494,;PRC1,downstream_gene_variant,,ENST00000560605,;PRC1,downstream_gene_variant,,ENST00000556982,;PRC1,downstream_gene_variant,,ENST00000557763,;	G	ENSG00000198901	ENST00000394249	Transcript	missense_variant	1220	1142	381	R/P	cGa/cCa	rs776689189	.	.	-1	PRC1	HGNC	9341	protein_coding	YES	CCDS32334.1	ENSP00000377793	PRC1_HUMAN	.	UPI00001A5ED8	.	deleterious(0)	probably_damaging(0.998)	9/15	.	Pfam_domain:PF03999,hmmpanther:PTHR19321:SF1,hmmpanther:PTHR19321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCGGTTT	.	2	BLCA
NUBP1	0	.	GRCh37	16	10840997	10840997	+	Intron	SNP	C	C	T	rs756485699	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.125-3C>T	.	.	ENST00000283027	.	67	58	8	47	47	0	NUBP1,splice_region_variant,,ENST00000283027,;NUBP1,splice_region_variant,,ENST00000574334,;NUBP1,splice_region_variant,,ENST00000433392,;NUBP1,splice_region_variant,,ENST00000571790,;NUBP1,splice_region_variant,,ENST00000574137,;	T	ENSG00000103274	ENST00000283027	Transcript	splice_region_variant	.	.	.	.	.	rs756485699	.	.	1	NUBP1	HGNC	8041	protein_coding	YES	CCDS10543.1	ENSP00000283027	NUBP1_HUMAN	.	UPI000013DD15	.	.	.	.	2/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CTTTGCAGCTA	byFrequency	3	BLCA
TMC5	0	.	GRCh37	16	19474639	19474639	+	Missense_Mutation	SNP	C	C	G	rs200495961	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1186C>G	p.Arg396Gly	p.R396G	ENST00000396229	7/22	79	67	12	54	54	0	TMC5,missense_variant,p.Arg150Gly,ENST00000219821,;TMC5,missense_variant,p.Arg396Gly,ENST00000381414,;TMC5,missense_variant,p.Arg37Gly,ENST00000561503,;TMC5,missense_variant,p.Arg396Gly,ENST00000541464,;TMC5,missense_variant,p.Arg396Gly,ENST00000396229,;TMC5,missense_variant,p.Arg79Gly,ENST00000564959,;TMC5,missense_variant,p.Arg396Gly,ENST00000542583,;TMC5,non_coding_transcript_exon_variant,,ENST00000567478,;	G	ENSG00000103534	ENST00000396229	Transcript	missense_variant	1935	1186	396	R/G	Cgt/Ggt	rs200495961,COSM3506701,COSM3506700	.	.	1	TMC5	HGNC	22999	protein_coding	YES	CCDS45431.1	ENSP00000379531	TMC5_HUMAN	.	UPI00001FEF87	.	tolerated(0.38)	benign(0.001)	7/22	.	hmmpanther:PTHR23302,hmmpanther:PTHR23302:SF5	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCGTATC	byCluster	5	BLCA
ACSM5	0	.	GRCh37	16	20430576	20430576	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442C>G	p.Gln148Glu	p.Q148E	ENST00000331849	4/14	36	32	4	29	29	0	ACSM5,missense_variant,p.Gln148Glu,ENST00000575584,;ACSM5,missense_variant,p.Gln148Glu,ENST00000331849,;ACSM5,upstream_gene_variant,,ENST00000570305,;ACSM5,upstream_gene_variant,,ENST00000574748,;ACSM5,upstream_gene_variant,,ENST00000573920,;	G	ENSG00000183549	ENST00000331849	Transcript	missense_variant	589	442	148	Q/E	Cag/Gag	.	.	.	1	ACSM5	HGNC	26060	protein_coding	YES	CCDS10585.1	ENSP00000327916	ACSM5_HUMAN	.	UPI00001FEFB3	.	deleterious(0)	probably_damaging(0.953)	4/14	.	Superfamily_domains:SSF56801,Pfam_domain:PF00501,Gene3D:3.40.50.980,hmmpanther:PTHR24095:SF105,hmmpanther:PTHR24095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGACTCAGCTG	.	4	BLCA
PKD1	0	.	GRCh37	16	2161373	2161373	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3795G>A	p.%3D	p.L1265L	ENST00000262304	15/46	31	22	9	22	22	0	PKD1,synonymous_variant,p.%3D,ENST00000262304,;PKD1,synonymous_variant,p.%3D,ENST00000423118,;PKD1,intron_variant,,ENST00000483024,;PKD1,intron_variant,,ENST00000488185,;RP11-304L19.4,upstream_gene_variant,,ENST00000568795,;PKD1,intron_variant,,ENST00000468674,;PKD1,upstream_gene_variant,,ENST00000483558,;PKD1,upstream_gene_variant,,ENST00000561991,;PKD1,upstream_gene_variant,,ENST00000473780,;PKD1,intron_variant,,ENST00000568591,;PKD1,intron_variant,,ENST00000565639,;PKD1,intron_variant,,ENST00000415938,;PKD1,intron_variant,,ENST00000483731,;PKD1,intron_variant,,ENST00000569983,;PKD1,upstream_gene_variant,,ENST00000486339,;PKD1,upstream_gene_variant,,ENST00000496574,;PKD1,downstream_gene_variant,,ENST00000469241,;PKD1,upstream_gene_variant,,ENST00000487932,;PKD1,upstream_gene_variant,,ENST00000564890,;	T	ENSG00000008710	ENST00000262304	Transcript	synonymous_variant	4004	3795	1265	L	ctG/ctA	.	.	.	-1	PKD1	HGNC	9008	protein_coding	YES	CCDS32369.1	ENSP00000262304	PKD1_HUMAN	O75276_HUMAN	UPI00001B0454	.	.	.	15/46	.	PROSITE_profiles:PS50093,hmmpanther:PTHR10877:SF123,hmmpanther:PTHR10877,Gene3D:2.60.40.670,TIGRFAM_domain:TIGR00864,Pfam_domain:PF00801,SMART_domains:SM00089,Superfamily_domains:SSF49299	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCGCAGGTA	.	5	BLCA
CASKIN1	0	.	GRCh37	16	2233936	2233936	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1423G>C	p.Glu475Gln	p.E475Q	ENST00000343516	15/20	45	42	3	29	29	0	CASKIN1,missense_variant,p.Glu475Gln,ENST00000343516,;CASKIN1,intron_variant,,ENST00000564289,;CASKIN1,downstream_gene_variant,,ENST00000562055,;	G	ENSG00000167971	ENST00000343516	Transcript	missense_variant	1516	1423	475	E/Q	Gag/Cag	.	.	.	-1	CASKIN1	HGNC	20879	protein_coding	YES	CCDS42103.1	ENSP00000345436	CSKI1_HUMAN	D3DU87_HUMAN	UPI0000073A3B	.	.	possibly_damaging(0.479)	15/20	.	PROSITE_profiles:PS50105,hmmpanther:PTHR24177:SF12,hmmpanther:PTHR24177,Pfam_domain:PF00536,Gene3D:1.10.150.50,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCAGAGC	.	2	BLCA
MLST8	0	.	GRCh37	16	2256037	2256037	+	5'UTR	SNP	C	C	T	rs766383322	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-50C>T	.	.	ENST00000569417	2/9	121	99	22	74	74	0	MLST8,5_prime_UTR_variant,,ENST00000569457,;MLST8,5_prime_UTR_variant,,ENST00000563179,;MLST8,5_prime_UTR_variant,,ENST00000397124,;MLST8,5_prime_UTR_variant,,ENST00000301724,;MLST8,5_prime_UTR_variant,,ENST00000562352,;MLST8,5_prime_UTR_variant,,ENST00000569417,;MLST8,5_prime_UTR_variant,,ENST00000382450,;MLST8,intron_variant,,ENST00000301725,;MLST8,intron_variant,,ENST00000562479,;MLST8,intron_variant,,ENST00000564088,;MLST8,intron_variant,,ENST00000565250,;BRICD5,downstream_gene_variant,,ENST00000328540,;BRICD5,downstream_gene_variant,,ENST00000566018,;BRICD5,downstream_gene_variant,,ENST00000562360,;AC009065.3,upstream_gene_variant,,ENST00000517149,;MLST8,non_coding_transcript_exon_variant,,ENST00000561651,;MLST8,non_coding_transcript_exon_variant,,ENST00000562844,;MLST8,downstream_gene_variant,,ENST00000565926,;MLST8,upstream_gene_variant,,ENST00000564319,;MLST8,downstream_gene_variant,,ENST00000562043,;MLST8,5_prime_UTR_variant,,ENST00000563107,;MLST8,5_prime_UTR_variant,,ENST00000567282,;MLST8,5_prime_UTR_variant,,ENST00000565687,;MLST8,5_prime_UTR_variant,,ENST00000567623,;MLST8,5_prime_UTR_variant,,ENST00000570224,;MLST8,5_prime_UTR_variant,,ENST00000565717,;MLST8,non_coding_transcript_exon_variant,,ENST00000566653,;MLST8,non_coding_transcript_exon_variant,,ENST00000564294,;MLST8,non_coding_transcript_exon_variant,,ENST00000568194,;MLST8,non_coding_transcript_exon_variant,,ENST00000564679,;MLST8,non_coding_transcript_exon_variant,,ENST00000565330,;MLST8,non_coding_transcript_exon_variant,,ENST00000563067,;MLST8,intron_variant,,ENST00000566835,;MLST8,intron_variant,,ENST00000562851,;MLST8,intron_variant,,ENST00000567928,;MLST8,intron_variant,,ENST00000565269,;MLST8,intron_variant,,ENST00000568542,;BRICD5,downstream_gene_variant,,ENST00000566795,;MLST8,upstream_gene_variant,,ENST00000569848,;MLST8,upstream_gene_variant,,ENST00000562239,;MLST8,upstream_gene_variant,,ENST00000562392,;	T	ENSG00000167965	ENST00000569417	Transcript	5_prime_UTR_variant	305	.	.	.	.	rs766383322	.	.	1	MLST8	HGNC	24825	protein_coding	YES	CCDS10462.2	ENSP00000456405	LST8_HUMAN	H3BQ74_HUMAN,H3BN58_HUMAN	UPI000006D8E8	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCTCTGACC	.	4	BLCA
USP31	0	.	GRCh37	16	23080049	23080049	+	Missense_Mutation	SNP	G	G	A	rs767401137	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3377C>T	p.Ser1126Phe	p.S1126F	ENST00000219689	16/16	88	73	15	72	72	0	USP31,missense_variant,p.Ser1126Phe,ENST00000219689,;USP31,missense_variant,p.Ser419Phe,ENST00000567975,;RP11-20G6.3,upstream_gene_variant,,ENST00000563129,;USP31,intron_variant,,ENST00000381162,;	A	ENSG00000103404	ENST00000219689	Transcript	missense_variant	3377	3377	1126	S/F	tCc/tTc	rs767401137	.	.	-1	USP31	HGNC	20060	protein_coding	YES	CCDS10607.1	ENSP00000219689	UBP31_HUMAN	.	UPI0000366B06	.	deleterious_low_confidence(0.01)	possibly_damaging(0.553)	16/16	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGAGGAAGCA	byFrequency	4	BLCA
ABCA3	0	.	GRCh37	16	2345606	2345606	+	Missense_Mutation	SNP	C	C	G	rs773905661	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2399G>C	p.Arg800Thr	p.R800T	ENST00000301732	18/33	143	137	6	121	121	0	ABCA3,missense_variant,p.Arg742Thr,ENST00000382381,;ABCA3,missense_variant,p.Arg800Thr,ENST00000301732,;ABCA3,non_coding_transcript_exon_variant,,ENST00000563623,;	G	ENSG00000167972	ENST00000301732	Transcript	missense_variant	3100	2399	800	R/T	aGa/aCa	rs773905661	.	.	-1	ABCA3	HGNC	33	protein_coding	YES	CCDS10466.1	ENSP00000301732	ABCA3_HUMAN	.	UPI0000001232	.	deleterious(0.03)	benign(0.001)	18/33	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF98	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCTCTGGGA	.	2	BLCA
RP11-20I23.1	0	.	GRCh37	16	2546109	2546109	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-41C>T	.	.	ENST00000564543	1/3	43	35	8	42	42	0	RP11-20I23.1,5_prime_UTR_variant,,ENST00000564543,;TBC1D24,5_prime_UTR_variant,,ENST00000293970,;TBC1D24,5_prime_UTR_variant,,ENST00000434757,;TBC1D24,5_prime_UTR_variant,,ENST00000562105,;TBC1D24,5_prime_UTR_variant,,ENST00000567020,;TBC1D24,upstream_gene_variant,,ENST00000564879,;TBC1D24,upstream_gene_variant,,ENST00000569874,;	T	ENSG00000260272	ENST00000564543	Transcript	5_prime_UTR_variant	77	.	.	.	.	.	.	.	1	RP11-20I23.1	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000455547	.	H3BV07_HUMAN,H3BQ06_HUMAN	UPI0002466D02	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCCCTTCCG	.	5	BLCA
C16orf82	0	.	GRCh37	16	27078353	27078353	+	RNA	SNP	G	G	A	rs369685237	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.326G>A	.	.	ENST00000505035	1/1	39	31	8	37	37	0	C16orf82,non_coding_transcript_exon_variant,,ENST00000505035,;C16orf82,non_coding_transcript_exon_variant,,ENST00000418886,;RP11-673P17.2,intron_variant,,ENST00000565783,;	A	ENSG00000234186	ENST00000505035	Transcript	non_coding_transcript_exon_variant	326	.	.	.	.	rs369685237	.	.	1	C16orf82	HGNC	30755	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	A:0.0008	A:0	A:0	.	A:0.004	A:0	A:0	A:0.0003	A:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCGAGGGA	byFrequency|byCluster|by1000G	5	BLCA
GTF3C1	0	.	GRCh37	16	27561184	27561184	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28G>A	p.Glu10Lys	p.E10K	ENST00000356183	1/37	32	27	4	16	16	0	GTF3C1,missense_variant,p.Glu10Lys,ENST00000561623,;GTF3C1,missense_variant,p.Glu10Lys,ENST00000356183,;KIAA0556,upstream_gene_variant,,ENST00000261588,;KIAA0556,upstream_gene_variant,,ENST00000566023,;	T	ENSG00000077235	ENST00000356183	Transcript	missense_variant	44	28	10	E/K	Gaa/Aaa	.	.	.	-1	GTF3C1	HGNC	4664	protein_coding	YES	CCDS32414.1	ENSP00000348510	TF3C1_HUMAN	Q7Z7H4_HUMAN,I3L1Z3_HUMAN	UPI00001FF123	.	deleterious(0)	probably_damaging(0.998)	1/37	.	hmmpanther:PTHR15180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTTCGTCCA	.	4	BLCA
KIAA0556	0	.	GRCh37	16	27689179	27689179	+	Missense_Mutation	SNP	G	G	T	rs774869000	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.670G>T	p.Gly224Cys	p.G224C	ENST00000261588	7/28	61	54	6	46	46	0	KIAA0556,missense_variant,p.Gly224Cys,ENST00000261588,;KIAA0556,downstream_gene_variant,,ENST00000568258,;CTD-2049O4.1,downstream_gene_variant,,ENST00000564893,;KIAA0556,non_coding_transcript_exon_variant,,ENST00000567894,;KIAA0556,3_prime_UTR_variant,,ENST00000565672,;	T	ENSG00000047578	ENST00000261588	Transcript	missense_variant	689	670	224	G/C	Ggc/Tgc	rs774869000	.	.	1	KIAA0556	HGNC	29068	protein_coding	YES	CCDS32415.1	ENSP00000261588	K0556_HUMAN	B4DHT8_HUMAN	UPI000045693C	.	deleterious(0)	possibly_damaging(0.823)	7/28	.	hmmpanther:PTHR21534:SF0,hmmpanther:PTHR21534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGGGCCAT	byFrequency	4	BLCA
ATP2A1	0	.	GRCh37	16	28892251	28892251	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235G>A	p.Glu79Lys	p.E79K	ENST00000357084	4/22	79	66	13	56	56	0	ATP2A1,missense_variant,p.Glu79Lys,ENST00000395503,;ATP2A1,missense_variant,p.Glu51Lys,ENST00000563975,;ATP2A1,missense_variant,p.Glu79Lys,ENST00000357084,;ATP2A1,5_prime_UTR_variant,,ENST00000536376,;ATP2A1,5_prime_UTR_variant,,ENST00000562185,;SNORA43,downstream_gene_variant,,ENST00000516652,;RP11-22P6.3,upstream_gene_variant,,ENST00000561547,;RP11-22P6.3,upstream_gene_variant,,ENST00000566956,;	A	ENSG00000196296	ENST00000357084	Transcript	missense_variant	502	235	79	E/K	Gag/Aag	.	.	.	1	ATP2A1	HGNC	811	protein_coding	YES	CCDS10643.1	ENSP00000349595	AT2A1_HUMAN	H3BUU3_HUMAN	UPI000003B461	.	deleterious(0)	probably_damaging(0.959)	4/22	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF215,Gene3D:1.20.1110.10,TIGRFAM_domain:TIGR01116,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTTTGAGGAA	.	4	BLCA
ZNF688	0	.	GRCh37	16	30581209	30581209	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28G>C	.	.	ENST00000223459	3/3	35	31	4	31	31	0	ZNF688,3_prime_UTR_variant,,ENST00000223459,;ZNF688,3_prime_UTR_variant,,ENST00000395219,;ZNF688,downstream_gene_variant,,ENST00000563707,;ZNF688,downstream_gene_variant,,ENST00000563276,;ZNF688,downstream_gene_variant,,ENST00000567855,;ZNF688,downstream_gene_variant,,ENST00000566632,;AC002310.7,upstream_gene_variant,,ENST00000492040,;AC002310.7,upstream_gene_variant,,ENST00000486926,;ZNF688,downstream_gene_variant,,ENST00000563665,;ZNF785,downstream_gene_variant,,ENST00000562128,;ZNF688,downstream_gene_variant,,ENST00000562455,;	G	ENSG00000229809	ENST00000223459	Transcript	3_prime_UTR_variant	1964	.	.	.	.	.	.	.	-1	ZNF688	HGNC	30489	protein_coding	YES	CCDS10684.1	ENSP00000223459	ZN688_HUMAN	.	UPI0000071FFC	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGTCAGGCT	.	4	BLCA
PRR14	0	.	GRCh37	16	30664700	30664700	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519G>A	p.%3D	p.E173E	ENST00000542965	5/11	102	86	16	60	60	0	PRR14,synonymous_variant,p.%3D,ENST00000542965,;PRR14,synonymous_variant,p.%3D,ENST00000568754,;PRR14,synonymous_variant,p.%3D,ENST00000300835,;PRR14,downstream_gene_variant,,ENST00000569864,;PRR14,upstream_gene_variant,,ENST00000571654,;PRR14,non_coding_transcript_exon_variant,,ENST00000287463,;PRR14,non_coding_transcript_exon_variant,,ENST00000564946,;PRR14,upstream_gene_variant,,ENST00000567322,;PRR14,upstream_gene_variant,,ENST00000567989,;PRR14,downstream_gene_variant,,ENST00000563399,;PRR14,downstream_gene_variant,,ENST00000563211,;PRR14,downstream_gene_variant,,ENST00000565410,;PRR14,upstream_gene_variant,,ENST00000565977,;	A	ENSG00000156858	ENST00000542965	Transcript	synonymous_variant	975	519	173	E	gaG/gaA	.	.	.	1	PRR14	HGNC	28458	protein_coding	YES	CCDS10687.1	ENSP00000441641	PRR14_HUMAN	H3BQL8_HUMAN,H3BND2_HUMAN	UPI000006F1D0	.	.	.	5/11	.	hmmpanther:PTHR14522	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGAGACCCC	.	5	BLCA
CHTF8	0	.	GRCh37	16	69154325	69154325	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7G>C	p.Glu3Gln	p.E3Q	ENST00000574807	1/1	22	16	6	32	32	0	CHTF8,missense_variant,p.Glu3Gln,ENST00000574807,;CHTF8,missense_variant,p.Glu3Gln,ENST00000306585,;CHTF8,3_prime_UTR_variant,,ENST00000519520,;CHTF8,3_prime_UTR_variant,,ENST00000448552,;CHTF8,3_prime_UTR_variant,,ENST00000567763,;CHTF8,3_prime_UTR_variant,,ENST00000520529,;CHTF8,3_prime_UTR_variant,,ENST00000522497,;CHTF8,3_prime_UTR_variant,,ENST00000398235,;CHTF8,intron_variant,,ENST00000518041,;CHTF8,intron_variant,,ENST00000523421,;HAS3,downstream_gene_variant,,ENST00000219322,;HAS3,downstream_gene_variant,,ENST00000569188,;HAS3,downstream_gene_variant,,ENST00000306560,;CHTF8,downstream_gene_variant,,ENST00000522091,;CHTF8,3_prime_UTR_variant,,ENST00000519534,;	G	ENSG00000263203	ENST00000574807	Transcript	missense_variant	7	7	3	E/Q	Gaa/Caa	.	.	.	-1	CHTF8	Uniprot_gn	24353	protein_coding	YES	.	ENSP00000461389	.	L0R4W3_HUMAN	UPI000007051C	.	deleterious_low_confidence(0.02)	unknown(0)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCTTTCA	.	5	BLCA
TAT	0	.	GRCh37	16	71610326	71610326	+	5'UTR	SNP	G	G	A	rs764680207	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8C>T	.	.	ENST00000355962	2/12	65	51	14	56	56	0	TAT,5_prime_UTR_variant,,ENST00000355962,;RP11-432I5.1,intron_variant,,ENST00000561529,;TAT,non_coding_transcript_exon_variant,,ENST00000566010,;TAT,non_coding_transcript_exon_variant,,ENST00000566094,;	A	ENSG00000198650	ENST00000355962	Transcript	5_prime_UTR_variant	127	.	.	.	.	rs764680207	.	.	-1	TAT	HGNC	11573	protein_coding	YES	CCDS10903.1	ENSP00000348234	ATTY_HUMAN	.	UPI0000126636	.	.	.	2/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAGCGAAGCC	byFrequency	5	BLCA
PRPF8	0	.	GRCh37	17	1585557	1585557	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300C>T	p.%3D	p.L100L	ENST00000572621	3/42	68	56	12	51	51	0	PRPF8,synonymous_variant,p.%3D,ENST00000572621,;PRPF8,synonymous_variant,p.%3D,ENST00000304992,;PRPF8,intron_variant,,ENST00000577001,;PRPF8,upstream_gene_variant,,ENST00000574728,;PRPF8,downstream_gene_variant,,ENST00000571346,;PRPF8,upstream_gene_variant,,ENST00000573716,;PRPF8,upstream_gene_variant,,ENST00000576407,;	A	ENSG00000174231	ENST00000572621	Transcript	synonymous_variant	566	300	100	L	ctC/ctT	.	.	.	-1	PRPF8	HGNC	17340	protein_coding	YES	CCDS11010.1	ENSP00000460348	PRP8_HUMAN	.	UPI000006F2DD	.	.	.	3/42	.	hmmpanther:PTHR11140:SF0,hmmpanther:PTHR11140,Pfam_domain:PF08082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTGAGGAC	.	5	BLCA
KIAA0100	0	.	GRCh37	17	26951356	26951356	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4647C>A	p.Phe1549Leu	p.F1549L	ENST00000528896	25/39	86	76	10	58	58	0	KIAA0100,missense_variant,p.Phe1549Leu,ENST00000528896,;KIAA0100,missense_variant,p.Phe1406Leu,ENST00000544884,;KIAA0100,missense_variant,p.Phe1406Leu,ENST00000389003,;KIAA0100,upstream_gene_variant,,ENST00000579924,;KIAA0100,upstream_gene_variant,,ENST00000580395,;	T	ENSG00000007202	ENST00000528896	Transcript	missense_variant	4722	4647	1549	F/L	ttC/ttA	.	.	.	-1	KIAA0100	HGNC	28960	protein_coding	YES	CCDS32595.1	ENSP00000436773	K0100_HUMAN	Q08E86_HUMAN,G1UI35_HUMAN	UPI00004B4130	.	deleterious(0)	possibly_damaging(0.594)	25/39	.	hmmpanther:PTHR15678	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTGTGAACAC	.	4	BLCA
GIT1	0	.	GRCh37	17	27901744	27901744	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2289C>T	p.%3D	p.I763I	ENST00000394869	21/21	69	54	15	47	47	0	GIT1,synonymous_variant,p.%3D,ENST00000225394,;GIT1,synonymous_variant,p.%3D,ENST00000394869,;GIT1,synonymous_variant,p.%3D,ENST00000581348,;GIT1,3_prime_UTR_variant,,ENST00000579937,;TP53I13,downstream_gene_variant,,ENST00000583940,;GIT1,downstream_gene_variant,,ENST00000585148,;GIT1,downstream_gene_variant,,ENST00000578266,;TP53I13,downstream_gene_variant,,ENST00000580183,;TP53I13,downstream_gene_variant,,ENST00000378818,;TP53I13,downstream_gene_variant,,ENST00000301057,;TP53I13,downstream_gene_variant,,ENST00000581411,;TP53I13,downstream_gene_variant,,ENST00000578749,;TP53I13,downstream_gene_variant,,ENST00000582829,;RP11-68I3.2,intron_variant,,ENST00000581474,;RP11-68I3.4,downstream_gene_variant,,ENST00000579050,;GIT1,3_prime_UTR_variant,,ENST00000578670,;GIT1,non_coding_transcript_exon_variant,,ENST00000473217,;GIT1,downstream_gene_variant,,ENST00000581925,;GIT1,downstream_gene_variant,,ENST00000586574,;TP53I13,downstream_gene_variant,,ENST00000577934,;GIT1,downstream_gene_variant,,ENST00000491377,;TP53I13,downstream_gene_variant,,ENST00000579674,;	A	ENSG00000108262	ENST00000394869	Transcript	synonymous_variant	2460	2289	763	I	atC/atT	.	.	.	-1	GIT1	HGNC	4272	protein_coding	YES	CCDS42290.1	ENSP00000378338	GIT1_HUMAN	Q59FC3_HUMAN,K7EIX6_HUMAN,B4DS81_HUMAN,B4DMF7_HUMAN	UPI0000E59EEC	.	.	.	21/21	.	hmmpanther:PTHR23180:SF193,hmmpanther:PTHR23180,Pfam_domain:PF12205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTGATGGT	.	5	BLCA
CPD	0	.	GRCh37	17	28750667	28750667	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1801C>T	p.His601Tyr	p.H601Y	ENST00000225719	6/21	54	49	5	46	46	0	CPD,missense_variant,p.His354Tyr,ENST00000543464,;CPD,missense_variant,p.His601Tyr,ENST00000225719,;	T	ENSG00000108582	ENST00000225719	Transcript	missense_variant	1877	1801	601	H/Y	Cac/Tac	.	.	.	1	CPD	HGNC	2301	protein_coding	YES	CCDS11257.1	ENSP00000225719	CBPD_HUMAN	.	UPI000000DAF7	.	deleterious(0)	probably_damaging(1)	6/21	.	hmmpanther:PTHR11532:SF40,hmmpanther:PTHR11532,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAATTCACCTT	.	3	BLCA
MED1	0	.	GRCh37	17	37564616	37564616	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3858G>A	p.%3D	p.Q1286Q	ENST00000300651	17/17	61	47	14	50	50	0	MED1,synonymous_variant,p.%3D,ENST00000300651,;MED1,intron_variant,,ENST00000394287,;CTB-131K11.1,downstream_gene_variant,,ENST00000582842,;MED1,3_prime_UTR_variant,,ENST00000577831,;	T	ENSG00000125686	ENST00000300651	Transcript	synonymous_variant	4082	3858	1286	Q	caG/caA	.	.	.	-1	MED1	HGNC	9234	protein_coding	YES	CCDS11336.1	ENSP00000300651	MED1_HUMAN	.	UPI0000167F57	.	.	.	17/17	.	hmmpanther:PTHR12881,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATGCTGGTT	.	5	BLCA
PLEKHH3	0	.	GRCh37	17	40828479	40828479	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103G>A	p.Glu35Lys	p.E35K	ENST00000591022	1/13	22	18	4	15	15	0	PLEKHH3,missense_variant,p.Glu35Lys,ENST00000412503,;PLEKHH3,missense_variant,p.Glu35Lys,ENST00000587627,;PLEKHH3,missense_variant,p.Glu35Lys,ENST00000591022,;PLEKHH3,missense_variant,p.Glu35Lys,ENST00000293349,;CCR10,downstream_gene_variant,,ENST00000591765,;CCR10,downstream_gene_variant,,ENST00000332438,;CCR10,downstream_gene_variant,,ENST00000591568,;CTD-3193K9.4,upstream_gene_variant,,ENST00000593139,;PLEKHH3,upstream_gene_variant,,ENST00000592974,;PLEKHH3,upstream_gene_variant,,ENST00000591544,;PLEKHH3,upstream_gene_variant,,ENST00000456950,;PLEKHH3,missense_variant,p.Glu35Lys,ENST00000591196,;PLEKHH3,non_coding_transcript_exon_variant,,ENST00000591490,;	T	ENSG00000068137	ENST00000591022	Transcript	missense_variant	491	103	35	E/K	Gag/Aag	.	.	.	-1	PLEKHH3	HGNC	26105	protein_coding	YES	CCDS11434.1	ENSP00000468678	PKHH3_HUMAN	.	UPI0000200DD6	.	tolerated_low_confidence(0.25)	unknown(0)	1/13	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCGTCCC	.	5	BLCA
AOC4P	0	.	GRCh37	17	41020476	41020476	+	RNA	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1181C>G	.	.	ENST00000566825	1/4	14	8	6	11	11	0	AOC4P,non_coding_transcript_exon_variant,,ENST00000585538,;AOC4P,intron_variant,,ENST00000562301,;AOC4P,upstream_gene_variant,,ENST00000570207,;AOC4P,downstream_gene_variant,,ENST00000569586,;AOC4P,upstream_gene_variant,,ENST00000563852,;AOC4P,non_coding_transcript_exon_variant,,ENST00000566825,;	G	ENSG00000260105	ENST00000566825	Transcript	non_coding_transcript_exon_variant	1181	.	.	.	.	.	.	.	1	AOC4P	HGNC	48869	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCACGC	.	5	BLCA
AARSD1	0	.	GRCh37	17	41107902	41107902	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.751G>C	p.Glu251Gln	p.E251Q	ENST00000427569	7/12	165	146	19	134	134	0	AARSD1,missense_variant,p.Glu251Gln,ENST00000427569,;PTGES3L-AARSD1,missense_variant,p.Glu425Gln,ENST00000409399,;PTGES3L-AARSD1,missense_variant,p.Glu425Gln,ENST00000421990,;PTGES3L-AARSD1,missense_variant,p.Glu334Gln,ENST00000409103,;PTGES3L-AARSD1,missense_variant,p.Glu364Gln,ENST00000360221,;AARSD1,downstream_gene_variant,,ENST00000430739,;AARSD1,downstream_gene_variant,,ENST00000416949,;AARSD1,missense_variant,p.Glu22Gln,ENST00000591096,;PTGES3L-AARSD1,3_prime_UTR_variant,,ENST00000423601,;AARSD1,3_prime_UTR_variant,,ENST00000450475,;AARSD1,non_coding_transcript_exon_variant,,ENST00000491665,;AARSD1,non_coding_transcript_exon_variant,,ENST00000478040,;AARSD1,non_coding_transcript_exon_variant,,ENST00000486664,;AARSD1,upstream_gene_variant,,ENST00000592136,;AARSD1,downstream_gene_variant,,ENST00000483774,;AARSD1,downstream_gene_variant,,ENST00000441280,;AARSD1,upstream_gene_variant,,ENST00000474578,;AARSD1,downstream_gene_variant,,ENST00000436545,;AARSD1,upstream_gene_variant,,ENST00000593123,;AARSD1,upstream_gene_variant,,ENST00000486493,;AARSD1,upstream_gene_variant,,ENST00000587023,;AARSD1,downstream_gene_variant,,ENST00000591910,;AARSD1,upstream_gene_variant,,ENST00000483535,;	G	ENSG00000266967	ENST00000427569	Transcript	missense_variant	787	751	251	E/Q	Gag/Cag	.	.	.	-1	AARSD1	HGNC	28417	protein_coding	YES	CCDS58552.1	ENSP00000400870	AASD1_HUMAN	L7N2F4_HUMAN	UPI0000D4D9AF	.	tolerated(0.35)	benign(0.002)	7/12	.	hmmpanther:PTHR11777,PROSITE_profiles:PS50860	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCCATCC	.	4	BLCA
NBR1	0	.	GRCh37	17	41345216	41345216	+	Missense_Mutation	SNP	C	C	G	rs530084812	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1179C>G	p.Ile393Met	p.I393M	ENST00000422280	11/21	44	34	10	22	22	0	NBR1,missense_variant,p.Ile393Met,ENST00000422280,;NBR1,missense_variant,p.Ile393Met,ENST00000589872,;NBR1,missense_variant,p.Ile393Met,ENST00000389312,;NBR1,missense_variant,p.Ile372Met,ENST00000542611,;NBR1,missense_variant,p.Ile393Met,ENST00000341165,;NBR1,missense_variant,p.Ile393Met,ENST00000590996,;NBR1,non_coding_transcript_exon_variant,,ENST00000585505,;	G	ENSG00000188554	ENST00000422280	Transcript	missense_variant	1638	1179	393	I/M	atC/atG	rs530084812	.	.	1	NBR1	HGNC	6746	protein_coding	YES	CCDS45694.1	ENSP00000411250	NBR1_HUMAN	Q3LRK1_HUMAN,Q3LRJ8_HUMAN,Q3LRJ5_HUMAN,Q3LRI9_HUMAN,Q3LRI6_HUMAN,Q3LRI0_HUMAN,B7Z4J4_HUMAN	UPI0000161BF3	.	deleterious(0.04)	benign(0.265)	11/21	.	hmmpanther:PTHR20930,hmmpanther:PTHR20930:SF1	G:0.0016	G:0	G:0	.	G:0	G:0	G:0.0082	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATCAAACA	byFrequency|by1000G	5	BLCA
TBKBP1	0	.	GRCh37	17	45788151	45788151	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*159C>G	.	.	ENST00000361722	9/9	19	12	7	17	17	0	TBKBP1,3_prime_UTR_variant,,ENST00000361722,;	G	ENSG00000198933	ENST00000361722	Transcript	3_prime_UTR_variant	2856	.	.	.	.	.	.	.	1	TBKBP1	HGNC	30140	protein_coding	YES	CCDS45722.1	ENSP00000354777	TBKB1_HUMAN	J3KS71_HUMAN,F5H1U4_HUMAN	UPI000006E6FC	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTCCAGGC	.	5	BLCA
USP32	0	.	GRCh37	17	58308885	58308885	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239+4614C>G	.	.	ENST00000300896	.	39	32	7	47	47	0	USP32,intron_variant,,ENST00000590133,;USP32,intron_variant,,ENST00000592339,;USP32,intron_variant,,ENST00000300896,;USP32,intron_variant,,ENST00000589335,;SCARNA20,non_coding_transcript_exon_variant,,ENST00000516768,;	C	ENSG00000170832	ENST00000300896	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	USP32	HGNC	19143	protein_coding	YES	CCDS32697.1	ENSP00000300896	UBP32_HUMAN	Q86WP5_HUMAN,Q6IRT0_HUMAN,Q4VC15_HUMAN,K7EQL6_HUMAN	UPI0000047AF8	.	.	.	.	12/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTGAGGCA	.	5	BLCA
BRIP1	0	.	GRCh37	17	59858312	59858312	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1683G>C	p.Gln561His	p.Q561H	ENST00000259008	12/20	73	59	14	66	66	0	BRIP1,missense_variant,p.Gln561His,ENST00000259008,;BRIP1,missense_variant,p.Gln561His,ENST00000577598,;BRIP1,upstream_gene_variant,,ENST00000584322,;BRIP1,upstream_gene_variant,,ENST00000583837,;BRIP1,3_prime_UTR_variant,,ENST00000579028,;	G	ENSG00000136492	ENST00000259008	Transcript	missense_variant	1951	1683	561	Q/H	caG/caC	.	.	.	-1	BRIP1	HGNC	20473	protein_coding	YES	CCDS11631.1	ENSP00000259008	FANCJ_HUMAN	J3KS24_HUMAN	UPI000013D01F	.	tolerated(0.1)	benign(0.029)	12/20	.	hmmpanther:PTHR11472:SF6,hmmpanther:PTHR11472,TIGRFAM_domain:TIGR00604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCAATCTGATT	.	4	BLCA
MRC2	0	.	GRCh37	17	60767662	60767662	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3888G>A	p.%3D	p.Q1296Q	ENST00000303375	26/30	31	25	6	14	14	0	MRC2,synonymous_variant,p.%3D,ENST00000446119,;MRC2,synonymous_variant,p.%3D,ENST00000303375,;MRC2,downstream_gene_variant,,ENST00000580916,;MRC2,non_coding_transcript_exon_variant,,ENST00000583597,;	A	ENSG00000011028	ENST00000303375	Transcript	synonymous_variant	4290	3888	1296	Q	caG/caA	.	.	.	1	MRC2	HGNC	16875	protein_coding	YES	CCDS11634.1	ENSP00000307513	MRC2_HUMAN	J3QQZ6_HUMAN	UPI000013E895	.	.	.	26/30	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22803:SF69,hmmpanther:PTHR22803,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCAGAGAGG	.	2	BLCA
MAP3K3	0	.	GRCh37	17	61769675	61769675	+	Silent	SNP	G	G	A	rs754638634	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1641G>A	p.%3D	p.T547T	ENST00000361357	16/17	48	44	4	29	29	0	MAP3K3,synonymous_variant,p.%3D,ENST00000579585,;MAP3K3,synonymous_variant,p.%3D,ENST00000361357,;MAP3K3,synonymous_variant,p.%3D,ENST00000577395,;MAP3K3,synonymous_variant,p.%3D,ENST00000584573,;MAP3K3,synonymous_variant,p.%3D,ENST00000361733,;LIMD2,downstream_gene_variant,,ENST00000259006,;MAP3K3,downstream_gene_variant,,ENST00000577784,;MAP3K3,3_prime_UTR_variant,,ENST00000581732,;MAP3K3,3_prime_UTR_variant,,ENST00000577597,;MAP3K3,downstream_gene_variant,,ENST00000577839,;MAP3K3,downstream_gene_variant,,ENST00000585302,;MAP3K3,downstream_gene_variant,,ENST00000578622,;	A	ENSG00000198909	ENST00000361357	Transcript	synonymous_variant	1959	1641	547	T	acG/acA	rs754638634	.	.	1	MAP3K3	HGNC	6855	protein_coding	YES	CCDS32701.1	ENSP00000354927	M3K3_HUMAN	Q7Z4E6_HUMAN	UPI0000074003	.	.	.	16/17	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24360:SF38,hmmpanther:PTHR24360,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGACGATCTG	.	2	BLCA
ERN1	0	.	GRCh37	17	62121216	62121216	+	3'UTR	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*132C>A	.	.	ENST00000433197	22/22	9	5	4	20	20	0	ERN1,3_prime_UTR_variant,,ENST00000433197,;	T	ENSG00000178607	ENST00000433197	Transcript	3_prime_UTR_variant	3162	.	.	.	.	.	.	.	-1	ERN1	HGNC	3449	protein_coding	YES	CCDS45762.1	ENSP00000401445	ERN1_HUMAN	.	UPI0000201263	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCAGAGCAG	.	2	BLCA
FAM20A	0	.	GRCh37	17	66533543	66533543	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*75C>T	.	.	ENST00000592554	11/11	50	42	7	29	29	0	FAM20A,3_prime_UTR_variant,,ENST00000592554,;PRKAR1A,intron_variant,,ENST00000588188,;PRKAR1A,downstream_gene_variant,,ENST00000392711,;PRKAR1A,downstream_gene_variant,,ENST00000358598,;PRKAR1A,downstream_gene_variant,,ENST00000536854,;PRKAR1A,downstream_gene_variant,,ENST00000589228,;FAM20A,non_coding_transcript_exon_variant,,ENST00000226094,;FAM20A,downstream_gene_variant,,ENST00000592847,;FAM20A,3_prime_UTR_variant,,ENST00000590873,;FAM20A,non_coding_transcript_exon_variant,,ENST00000375556,;FAM20A,downstream_gene_variant,,ENST00000590074,;PRKAR1A,downstream_gene_variant,,ENST00000392710,;	A	ENSG00000108950	ENST00000592554	Transcript	3_prime_UTR_variant	2424	.	.	.	.	.	.	.	-1	FAM20A	HGNC	23015	protein_coding	YES	CCDS11679.1	ENSP00000468308	FA20A_HUMAN	L8B8N7_HUMAN	UPI00001AE65B	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGTGAGGAC	.	4	BLCA
MXRA7	0	.	GRCh37	17	74673720	74673720	+	Missense_Mutation	SNP	C	C	T	rs776109825	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565G>A	p.Glu189Lys	p.E189K	ENST00000355797	4/4	92	76	15	55	55	0	MXRA7,missense_variant,p.Glu189Lys,ENST00000355797,;MXRA7,downstream_gene_variant,,ENST00000449428,;MXRA7,downstream_gene_variant,,ENST00000375036,;MXRA7,downstream_gene_variant,,ENST00000585519,;MXRA7,downstream_gene_variant,,ENST00000589082,;MXRA7,downstream_gene_variant,,ENST00000588114,;MXRA7,downstream_gene_variant,,ENST00000592148,;RP11-318A15.2,downstream_gene_variant,,ENST00000565271,;	T	ENSG00000182534	ENST00000355797	Transcript	missense_variant	574	565	189	E/K	Gag/Aag	rs776109825	.	.	-1	MXRA7	HGNC	7541	protein_coding	YES	CCDS32745.1	ENSP00000348050	MXRA7_HUMAN	.	UPI000023765A	.	.	probably_damaging(0.956)	4/4	.	hmmpanther:PTHR21845	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCGCCAA	byFrequency	5	BLCA
MGAT5B	0	.	GRCh37	17	74936489	74936489	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1617C>T	p.%3D	p.F539F	ENST00000428789	12/16	88	73	14	53	53	0	MGAT5B,synonymous_variant,p.%3D,ENST00000428789,;MGAT5B,synonymous_variant,p.%3D,ENST00000569840,;MGAT5B,synonymous_variant,p.%3D,ENST00000301618,;MGAT5B,upstream_gene_variant,,ENST00000563153,;MGAT5B,3_prime_UTR_variant,,ENST00000565043,;	T	ENSG00000167889	ENST00000428789	Transcript	synonymous_variant	1720	1617	539	F	ttC/ttT	.	.	.	1	MGAT5B	HGNC	24140	protein_coding	YES	CCDS45788.1	ENSP00000391227	MGT5B_HUMAN	.	UPI0000231C88	.	.	.	12/16	.	hmmpanther:PTHR15075:SF4,hmmpanther:PTHR15075,Pfam_domain:PF15024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCATCGG	.	5	BLCA
DNAH17	0	.	GRCh37	17	76568866	76568866	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.456G>C	p.Met152Ile	p.M152I	ENST00000389840	3/81	22	18	4	16	16	0	DNAH17,missense_variant,p.Met152Ile,ENST00000585328,;DNAH17,missense_variant,p.Met152Ile,ENST00000389840,;DNAH17,upstream_gene_variant,,ENST00000589793,;	G	ENSG00000187775	ENST00000389840	Transcript	missense_variant	581	456	152	M/I	atG/atC	.	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	benign(0.006)	3/81	.	hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACTCATCAC	.	4	BLCA
ENGASE	0	.	GRCh37	17	77082454	77082454	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23C>G	.	.	ENST00000579016	14/14	23	20	3	16	16	0	ENGASE,3_prime_UTR_variant,,ENST00000579016,;RBFOX3,downstream_gene_variant,,ENST00000415831,;ENGASE,downstream_gene_variant,,ENST00000311595,;RBFOX3,downstream_gene_variant,,ENST00000582043,;RBFOX3,downstream_gene_variant,,ENST00000583458,;RBFOX3,downstream_gene_variant,,ENST00000453134,;RBFOX3,downstream_gene_variant,,ENST00000580155,;ENGASE,downstream_gene_variant,,ENST00000539857,;ENGASE,downstream_gene_variant,,ENST00000585160,;ENGASE,downstream_gene_variant,,ENST00000584568,;ENGASE,3_prime_UTR_variant,,ENST00000300682,;ENGASE,non_coding_transcript_exon_variant,,ENST00000579809,;RBFOX3,downstream_gene_variant,,ENST00000581393,;ENGASE,downstream_gene_variant,,ENST00000583041,;ENGASE,downstream_gene_variant,,ENST00000578419,;ENGASE,downstream_gene_variant,,ENST00000577783,;RBFOX3,downstream_gene_variant,,ENST00000578998,;ENGASE,downstream_gene_variant,,ENST00000583646,;	G	ENSG00000167280	ENST00000579016	Transcript	3_prime_UTR_variant	2255	.	.	.	.	.	.	.	1	ENGASE	HGNC	24622	protein_coding	YES	CCDS42394.1	ENSP00000462333	ENASE_HUMAN	.	UPI000006CF27	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGTCTCCTG	.	2	BLCA
AZI1	0	.	GRCh37	17	79164844	79164844	+	Missense_Mutation	SNP	C	C	T	rs770242250	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2806G>A	p.Glu936Lys	p.E936K	ENST00000450824	23/26	74	60	13	48	48	0	AZI1,missense_variant,p.Glu380Lys,ENST00000573053,;AZI1,missense_variant,p.Glu81Lys,ENST00000571292,;AZI1,missense_variant,p.Glu939Lys,ENST00000269392,;AZI1,missense_variant,p.Glu936Lys,ENST00000450824,;AZI1,missense_variant,p.Glu900Lys,ENST00000374782,;AZI1,missense_variant,p.Glu903Lys,ENST00000575907,;AZI1,missense_variant,p.Glu161Lys,ENST00000570817,;	T	ENSG00000141577	ENST00000450824	Transcript	missense_variant	2985	2806	936	E/K	Gag/Aag	rs770242250	.	.	-1	AZI1	HGNC	29511	protein_coding	YES	CCDS45808.1	ENSP00000393583	AZI1_HUMAN	.	UPI00002017B6	.	deleterious(0)	benign(0.363)	23/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31540,hmmpanther:PTHR31540:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCGGAGA	byFrequency	5	BLCA
SLC38A10	0	.	GRCh37	17	79226238	79226238	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1702G>C	p.Glu568Gln	p.E568Q	ENST00000374759	13/16	73	69	4	58	58	0	SLC38A10,missense_variant,p.Glu568Gln,ENST00000374759,;SLC38A10,missense_variant,p.Glu568Gln,ENST00000288439,;SLC38A10,upstream_gene_variant,,ENST00000576151,;SLC38A10,upstream_gene_variant,,ENST00000540966,;SLC38A10,non_coding_transcript_exon_variant,,ENST00000573058,;SLC38A10,non_coding_transcript_exon_variant,,ENST00000542075,;SLC38A10,upstream_gene_variant,,ENST00000539643,;	G	ENSG00000157637	ENST00000374759	Transcript	missense_variant	2086	1702	568	E/Q	Gag/Cag	.	.	.	-1	SLC38A10	HGNC	28237	protein_coding	YES	CCDS42397.1	ENSP00000363891	S38AA_HUMAN	F5H3T4_HUMAN	UPI000066DA6A	.	tolerated(0.27)	possibly_damaging(0.833)	13/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCCAAGG	.	2	BLCA
SLC38A10	0	.	GRCh37	17	79246428	79246428	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.913-1G>A	.	p.X305_splice	ENST00000374759	.	53	45	8	45	45	0	SLC38A10,splice_acceptor_variant,,ENST00000374759,;SLC38A10,splice_acceptor_variant,,ENST00000288439,;SLC38A10,intron_variant,,ENST00000546352,;SLC38A10,splice_acceptor_variant,,ENST00000542075,;	T	ENSG00000157637	ENST00000374759	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	SLC38A10	HGNC	28237	protein_coding	YES	CCDS42397.1	ENSP00000363891	S38AA_HUMAN	F5H3T4_HUMAN	UPI000066DA6A	.	.	.	.	8/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTGCTGTAC	.	4	BLCA
P4HB	0	.	GRCh37	17	79804455	79804455	+	Silent	SNP	G	G	A	rs200781309	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906C>T	p.%3D	p.L302L	ENST00000331483	7/11	59	52	7	58	58	0	P4HB,synonymous_variant,p.%3D,ENST00000576380,;P4HB,synonymous_variant,p.%3D,ENST00000415593,;P4HB,synonymous_variant,p.%3D,ENST00000331483,;P4HB,synonymous_variant,p.%3D,ENST00000570907,;P4HB,synonymous_variant,p.%3D,ENST00000439918,;P4HB,intron_variant,,ENST00000576390,;P4HB,intron_variant,,ENST00000571617,;P4HB,downstream_gene_variant,,ENST00000573778,;P4HB,downstream_gene_variant,,ENST00000576052,;P4HB,downstream_gene_variant,,ENST00000576541,;RP11-498C9.2,downstream_gene_variant,,ENST00000576784,;P4HB,non_coding_transcript_exon_variant,,ENST00000472244,;P4HB,3_prime_UTR_variant,,ENST00000575069,;P4HB,non_coding_transcript_exon_variant,,ENST00000478034,;P4HB,non_coding_transcript_exon_variant,,ENST00000476482,;P4HB,non_coding_transcript_exon_variant,,ENST00000477607,;P4HB,upstream_gene_variant,,ENST00000571507,;P4HB,upstream_gene_variant,,ENST00000473021,;P4HB,downstream_gene_variant,,ENST00000574007,;P4HB,downstream_gene_variant,,ENST00000484286,;P4HB,upstream_gene_variant,,ENST00000474712,;	A	ENSG00000185624	ENST00000331483	Transcript	synonymous_variant	1129	906	302	L	ctC/ctT	rs200781309	.	.	-1	P4HB	HGNC	8548	protein_coding	YES	CCDS11787.1	ENSP00000327801	PDIA1_HUMAN	B3KTQ9_HUMAN	UPI0000000CAA	.	.	.	7/11	.	hmmpanther:PTHR18929:SF48,hmmpanther:PTHR18929,Gene3D:3.40.30.10,Pfam_domain:PF13848,TIGRFAM_domain:TIGR01130,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTCGAGGAT	byFrequency|byCluster	4	BLCA
FN3KRP	0	.	GRCh37	17	80684939	80684939	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.822G>A	p.%3D	p.E274E	ENST00000269373	6/6	94	75	18	71	71	0	FN3KRP,synonymous_variant,p.%3D,ENST00000269373,;FN3KRP,synonymous_variant,p.%3D,ENST00000577128,;FN3KRP,synonymous_variant,p.%3D,ENST00000573158,;FN3KRP,synonymous_variant,p.%3D,ENST00000535965,;RP11-388C12.5,downstream_gene_variant,,ENST00000570919,;FN3KRP,3_prime_UTR_variant,,ENST00000574832,;FN3KRP,non_coding_transcript_exon_variant,,ENST00000576363,;FN3KRP,upstream_gene_variant,,ENST00000571594,;FN3KRP,downstream_gene_variant,,ENST00000574206,;FN3KRP,downstream_gene_variant,,ENST00000574356,;FN3KRP,downstream_gene_variant,,ENST00000571482,;	A	ENSG00000141560	ENST00000269373	Transcript	synonymous_variant	895	822	274	E	gaG/gaA	.	.	.	1	FN3KRP	HGNC	25700	protein_coding	YES	CCDS11817.1	ENSP00000269373	KT3K_HUMAN	I3L378_HUMAN,F5H4E4_HUMAN	UPI000006F7D6	.	.	.	6/6	.	hmmpanther:PTHR12149:SF6,hmmpanther:PTHR12149,Pfam_domain:PF03881,PIRSF_domain:PIRSF006221,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCGAGAAGCG	.	5	BLCA
CEP192	0	.	GRCh37	18	13056697	13056697	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4108G>T	p.Gly1370Trp	p.G1370W	ENST00000506447	19/45	131	108	23	110	110	0	CEP192,missense_variant,p.Gly774Trp,ENST00000325971,;CEP192,missense_variant,p.Gly1111Trp,ENST00000589596,;CEP192,missense_variant,p.Gly1370Trp,ENST00000506447,;CEP192,missense_variant,p.Gly895Trp,ENST00000430049,;CEP192,missense_variant,p.Gly909Trp,ENST00000511820,;CEP192,missense_variant,p.Gly24Trp,ENST00000585938,;CEP192,missense_variant,p.Gly970Trp,ENST00000510237,;CEP192,splice_region_variant,,ENST00000513432,;CEP192,upstream_gene_variant,,ENST00000589993,;	T	ENSG00000101639	ENST00000506447	Transcript	missense_variant	4188	4108	1370	G/W	Ggg/Tgg	.	.	.	1	CEP192	HGNC	25515	protein_coding	YES	CCDS32792.2	ENSP00000427550	.	E9PF99_HUMAN	UPI0001B09235	.	deleterious(0)	probably_damaging(0.995)	19/45	.	hmmpanther:PTHR16029:SF10,hmmpanther:PTHR16029	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTGGGTAAG	.	4	BLCA
CEP192	0	.	GRCh37	18	13103558	13103558	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6922C>T	p.%3D	p.L2308L	ENST00000506447	39/45	209	200	9	145	145	0	CEP192,synonymous_variant,p.%3D,ENST00000325971,;CEP192,synonymous_variant,p.%3D,ENST00000506447,;CEP192,synonymous_variant,p.%3D,ENST00000430049,;CEP192,synonymous_variant,p.%3D,ENST00000511820,;CEP192,non_coding_transcript_exon_variant,,ENST00000540847,;CEP192,non_coding_transcript_exon_variant,,ENST00000508539,;CEP192,synonymous_variant,p.%3D,ENST00000510237,;CEP192,synonymous_variant,p.%3D,ENST00000589993,;CEP192,3_prime_UTR_variant,,ENST00000513432,;	T	ENSG00000101639	ENST00000506447	Transcript	synonymous_variant	7002	6922	2308	L	Ctg/Ttg	.	.	.	1	CEP192	HGNC	25515	protein_coding	YES	CCDS32792.2	ENSP00000427550	.	E9PF99_HUMAN	UPI0001B09235	.	.	.	39/45	.	hmmpanther:PTHR16029:SF10,hmmpanther:PTHR16029	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCATCTGTCA	.	2	BLCA
TRAPPC8	0	.	GRCh37	18	29444637	29444637	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2698G>A	p.Asp900Asn	p.D900N	ENST00000283351	19/29	75	61	14	71	71	0	TRAPPC8,missense_variant,p.Asp846Asn,ENST00000582539,;TRAPPC8,missense_variant,p.Asp900Asn,ENST00000283351,;TRAPPC8,missense_variant,p.Asp900Asn,ENST00000580104,;	T	ENSG00000153339	ENST00000283351	Transcript	missense_variant	3034	2698	900	D/N	Gat/Aat	.	.	.	-1	TRAPPC8	HGNC	29169	protein_coding	YES	CCDS11901.1	ENSP00000283351	TPPC8_HUMAN	J3QQJ5_HUMAN,J3QKL6_HUMAN	UPI0000052E22	.	deleterious(0)	probably_damaging(0.998)	19/29	.	hmmpanther:PTHR12975,hmmpanther:PTHR12975:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGATCAGGGC	.	5	BLCA
ZNF271	0	.	GRCh37	18	32887660	32887660	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2054G>A	.	.	ENST00000399070	3/3	61	51	10	34	34	0	ZNF271,non_coding_transcript_exon_variant,,ENST00000399070,;ZNF271,non_coding_transcript_exon_variant,,ENST00000465539,;ZNF271,non_coding_transcript_exon_variant,,ENST00000540308,;	A	ENSG00000257267	ENST00000399070	Transcript	non_coding_transcript_exon_variant	2054	.	.	.	.	.	.	.	1	ZNF271	HGNC	13065	processed_transcript	YES	.	.	.	.	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTGAGGAG	.	5	BLCA
RPRD1A	0	.	GRCh37	18	33610797	33610797	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460C>G	p.Leu154Val	p.L154V	ENST00000399022	4/7	58	48	9	48	48	0	RPRD1A,missense_variant,p.Leu118Val,ENST00000588737,;RPRD1A,missense_variant,p.Leu7Val,ENST00000585953,;RPRD1A,missense_variant,p.Leu118Val,ENST00000337059,;RPRD1A,missense_variant,p.Leu118Val,ENST00000590898,;RPRD1A,missense_variant,p.Leu154Val,ENST00000357384,;RPRD1A,missense_variant,p.Leu154Val,ENST00000319040,;RPRD1A,missense_variant,p.Leu154Val,ENST00000399022,;RPRD1A,missense_variant,p.Leu154Val,ENST00000589050,;RPRD1A,upstream_gene_variant,,ENST00000591994,;RPRD1A,downstream_gene_variant,,ENST00000592674,;	C	ENSG00000141425	ENST00000399022	Transcript	missense_variant	632	460	154	L/V	Ctg/Gtg	.	.	.	-1	RPRD1A	HGNC	25560	protein_coding	YES	CCDS11917.1	ENSP00000381984	RPR1A_HUMAN	K7ER50_HUMAN	UPI0000036029	.	tolerated(0.32)	benign(0.002)	4/7	.	hmmpanther:PTHR12460,hmmpanther:PTHR12460:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCAGAGAGG	.	5	BLCA
DYM	0	.	GRCh37	18	46570560	46570560	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1875G>A	p.%3D	p.L625L	ENST00000269445	17/17	90	78	11	95	95	0	DYM,stop_retained_variant,p.%3D,ENST00000577734,;DYM,synonymous_variant,p.%3D,ENST00000269445,;DYM,synonymous_variant,p.%3D,ENST00000442713,;RP11-15F12.1,intron_variant,,ENST00000584252,;	T	ENSG00000141627	ENST00000269445	Transcript	synonymous_variant	2333	1875	625	L	ttG/ttA	.	.	.	-1	DYM	HGNC	21317	protein_coding	YES	CCDS11937.1	ENSP00000269445	DYM_HUMAN	J3QRF2_HUMAN,J3QR81_HUMAN,J3KSF9_HUMAN,J3KRG4_HUMAN	UPI00001AE953	.	.	.	17/17	.	hmmpanther:PTHR12895:SF9,hmmpanther:PTHR12895,Pfam_domain:PF09742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATTTCAATTC	.	4	BLCA
DCC	0	.	GRCh37	18	51056940	51056940	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4261G>T	p.Glu1421Ter	p.E1421*	ENST00000442544	29/29	95	85	10	76	76	0	DCC,stop_lost,p.Ter1077LeuextTer3,ENST00000581580,;DCC,stop_gained,p.Glu1421Ter,ENST00000442544,;RP11-671P2.1,intron_variant,,ENST00000582064,;DCC,downstream_gene_variant,,ENST00000577224,;DCC,downstream_gene_variant,,ENST00000579702,;	T	ENSG00000187323	ENST00000442544	Transcript	stop_gained	4877	4261	1421	E/*	Gaa/Taa	.	.	.	1	DCC	HGNC	2701	protein_coding	YES	CCDS11952.1	ENSP00000389140	DCC_HUMAN	J3QQJ6_HUMAN	UPI00001AEDC6	.	.	.	29/29	.	hmmpanther:PTHR10489:SF68,hmmpanther:PTHR10489,Pfam_domain:PF06583	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTATGAACAG	.	2	BLCA
ATP8B1	0	.	GRCh37	18	55359049	55359049	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1210C>G	p.Leu404Val	p.L404V	ENST00000536015	12/28	30	25	4	21	21	0	ATP8B1,missense_variant,p.Leu404Val,ENST00000283684,;ATP8B1,missense_variant,p.Leu404Val,ENST00000536015,;ATP8B1,upstream_gene_variant,,ENST00000588255,;RP11-35G9.3,intron_variant,,ENST00000599199,;RP11-35G9.5,intron_variant,,ENST00000588925,;	C	ENSG00000081923	ENST00000536015	Transcript	missense_variant	1330	1210	404	L/V	Ctc/Gtc	.	.	.	-1	ATP8B1	HGNC	3706	protein_coding	YES	CCDS11965.1	ENSP00000445359	AT8B1_HUMAN	K7ERI0_HUMAN,K7EQC4_HUMAN	UPI000013DD54	.	deleterious(0)	probably_damaging(0.957)	12/28	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24092:SF48,hmmpanther:PTHR24092,Pfam_domain:PF00122,TIGRFAM_domain:TIGR01652,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATAGAGAGAGA	.	3	BLCA
TNFRSF11A	0	.	GRCh37	18	60036647	60036647	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1497G>A	p.%3D	p.G499G	ENST00000586569	9/10	56	47	8	44	44	0	TNFRSF11A,synonymous_variant,p.%3D,ENST00000586569,;TNFRSF11A,intron_variant,,ENST00000269485,;RP11-640A1.3,downstream_gene_variant,,ENST00000589084,;	A	ENSG00000141655	ENST00000586569	Transcript	synonymous_variant	1535	1497	499	G	ggG/ggA	.	.	.	1	TNFRSF11A	HGNC	11908	protein_coding	YES	CCDS11980.1	ENSP00000465500	TNR11_HUMAN	N0GVH0_HUMAN	UPI000003BC8A	.	.	.	9/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23097:SF29,hmmpanther:PTHR23097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGGGAGGCT	.	4	BLCA
SERPINB13	0	.	GRCh37	18	61260118	61260118	+	Missense_Mutation	SNP	C	C	T	rs771394755	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.385C>T	p.His129Tyr	p.H129Y	ENST00000344731	5/8	67	55	12	46	46	0	SERPINB13,missense_variant,p.His129Tyr,ENST00000344731,;SERPINB13,missense_variant,p.His129Tyr,ENST00000269489,;SERPINB13,incomplete_terminal_codon_variant,p.%3D,ENST00000431153,;SERPINB13,intron_variant,,ENST00000415733,;SERPINB13,missense_variant,p.His128Tyr,ENST00000438844,;SERPINB13,downstream_gene_variant,,ENST00000479842,;	T	ENSG00000197641	ENST00000344731	Transcript	missense_variant	487	385	129	H/Y	Cat/Tat	rs771394755	.	.	1	SERPINB13	HGNC	8944	protein_coding	YES	CCDS11985.1	ENSP00000341584	SPB13_HUMAN	.	UPI000004EE29	.	tolerated(0.08)	probably_damaging(0.968)	5/8	.	hmmpanther:PTHR11461:SF152,hmmpanther:PTHR11461,Gene3D:3.30.497.10,Pfam_domain:PF00079,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTATCATGCA	.	5	BLCA
SOCS6	0	.	GRCh37	18	67992887	67992887	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.983G>A	p.Gly328Glu	p.G328E	ENST00000397942	2/2	53	44	9	49	49	0	SOCS6,missense_variant,p.Gly328Glu,ENST00000397942,;SOCS6,missense_variant,p.Gly328Glu,ENST00000582322,;SOCS6,downstream_gene_variant,,ENST00000578377,;	A	ENSG00000170677	ENST00000397942	Transcript	missense_variant	1299	983	328	G/E	gGa/gAa	.	.	.	1	SOCS6	HGNC	16833	protein_coding	YES	CCDS11998.1	ENSP00000381034	SOCS6_HUMAN	J3KTM7_HUMAN	UPI0000072C28	.	tolerated_low_confidence(0.09)	possibly_damaging(0.717)	2/2	.	hmmpanther:PTHR10385:SF25,hmmpanther:PTHR10385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTGGACTCA	.	5	BLCA
CNDP1	0	.	GRCh37	18	72234566	72234566	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.654C>T	p.%3D	p.F218F	ENST00000358821	6/12	74	66	7	68	68	0	CNDP1,synonymous_variant,p.%3D,ENST00000358821,;CNDP1,synonymous_variant,p.%3D,ENST00000582365,;CNDP1,downstream_gene_variant,,ENST00000585136,;CNDP1,3_prime_UTR_variant,,ENST00000584316,;CNDP1,non_coding_transcript_exon_variant,,ENST00000584004,;	T	ENSG00000150656	ENST00000358821	Transcript	synonymous_variant	882	654	218	F	ttC/ttT	.	.	.	1	CNDP1	HGNC	20675	protein_coding	YES	CCDS12007.1	ENSP00000351682	CNDP1_HUMAN	.	UPI0000141054	.	.	.	6/12	.	hmmpanther:PTHR11014:SF58,hmmpanther:PTHR11014,Gene3D:3.40.630.10,Pfam_domain:PF01546,PIRSF_domain:PIRSF037242,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCTTCTCTGG	.	3	BLCA
RBFA	0	.	GRCh37	18	77805982	77805982	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859G>A	p.Glu287Lys	p.E287K	ENST00000306735	7/7	56	49	7	48	48	0	RBFA,missense_variant,p.Glu287Lys,ENST00000306735,;RBFA,3_prime_UTR_variant,,ENST00000262197,;RP11-795F19.5,non_coding_transcript_exon_variant,,ENST00000589713,;RP11-795F19.5,intron_variant,,ENST00000564012,;RBFADN,upstream_gene_variant,,ENST00000562391,;RBFA,non_coding_transcript_exon_variant,,ENST00000593019,;RP11-795F19.5,intron_variant,,ENST00000591514,;RP11-795F19.5,intron_variant,,ENST00000562771,;RP11-795F19.5,intron_variant,,ENST00000569722,;	A	ENSG00000101546	ENST00000306735	Transcript	missense_variant	997	859	287	E/K	Gag/Aag	.	.	.	1	RBFA	HGNC	26120	protein_coding	YES	CCDS12021.1	ENSP00000305696	RBFA_HUMAN	.	UPI000013D270	.	deleterious(0.03)	benign(0.05)	7/7	.	hmmpanther:PTHR14725:SF0,hmmpanther:PTHR14725	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTGGAGCAG	.	4	BLCA
SOGA2	0	.	GRCh37	18	8718482	8718482	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>A	p.Asp12Asn	p.D12N	ENST00000359865	3/17	32	27	4	26	26	0	SOGA2,missense_variant,p.Asp12Asn,ENST00000517570,;SOGA2,missense_variant,p.Asp12Asn,ENST00000400050,;SOGA2,missense_variant,p.Asp372Asn,ENST00000306329,;SOGA2,missense_variant,p.Asp12Asn,ENST00000359865,;SOGA2,missense_variant,p.Asp12Asn,ENST00000523122,;SOGA2,5_prime_UTR_variant,,ENST00000306285,;Y_RNA,downstream_gene_variant,,ENST00000516510,;SOGA2,non_coding_transcript_exon_variant,,ENST00000522146,;	A	ENSG00000168502	ENST00000359865	Transcript	missense_variant	176	34	12	D/N	Gat/Aat	.	.	.	1	SOGA2	HGNC	29121	protein_coding	YES	CCDS11841.1	ENSP00000352927	SOGA2_HUMAN	J3QLE1_HUMAN	UPI0000456B5B	.	deleterious(0)	probably_damaging(0.959)	3/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15742:SF3,hmmpanther:PTHR15742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGAAGATGTT	.	4	BLCA
ABCA7	0	.	GRCh37	19	1043174	1043174	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.714C>T	p.%3D	p.L238L	ENST00000263094	8/47	99	84	15	64	64	0	ABCA7,synonymous_variant,p.%3D,ENST00000433129,;ABCA7,synonymous_variant,p.%3D,ENST00000263094,;ABCA7,synonymous_variant,p.%3D,ENST00000435683,;CNN2,downstream_gene_variant,,ENST00000263097,;ABCA7,downstream_gene_variant,,ENST00000531467,;CNN2,downstream_gene_variant,,ENST00000348419,;ABCA7,downstream_gene_variant,,ENST00000524850,;CNN2,downstream_gene_variant,,ENST00000562958,;AC011558.5,upstream_gene_variant,,ENST00000585757,;ABCA7,upstream_gene_variant,,ENST00000533574,;CNN2,downstream_gene_variant,,ENST00000606983,;CNN2,downstream_gene_variant,,ENST00000564572,;ABCA7,downstream_gene_variant,,ENST00000525238,;ABCA7,downstream_gene_variant,,ENST00000526885,;ABCA7,downstream_gene_variant,,ENST00000527496,;ABCA7,downstream_gene_variant,,ENST00000530703,;	T	ENSG00000064687	ENST00000263094	Transcript	synonymous_variant	945	714	238	L	ctC/ctT	.	.	.	1	ABCA7	HGNC	37	protein_coding	YES	CCDS12055.1	ENSP00000263094	ABCA7_HUMAN	E9PL63_HUMAN	UPI000013D3A4	.	.	.	8/47	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF49	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCAACTG	.	5	BLCA
KRI1	0	.	GRCh37	19	10665805	10665805	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1757C>T	p.Ser586Leu	p.S586L	ENST00000312962	18/19	61	53	8	35	35	0	KRI1,missense_variant,p.Ser586Leu,ENST00000312962,;KRI1,missense_variant,p.Ser582Leu,ENST00000361821,;ATG4D,downstream_gene_variant,,ENST00000586863,;ATG4D,downstream_gene_variant,,ENST00000540862,;ATG4D,downstream_gene_variant,,ENST00000585437,;ATG4D,downstream_gene_variant,,ENST00000309469,;KRI1,downstream_gene_variant,,ENST00000539027,;ATG4D,downstream_gene_variant,,ENST00000587256,;ATG4D,downstream_gene_variant,,ENST00000588972,;RNU7-140P,upstream_gene_variant,,ENST00000459546,;MIR1238,downstream_gene_variant,,ENST00000408483,;KRI1,non_coding_transcript_exon_variant,,ENST00000536689,;KRI1,non_coding_transcript_exon_variant,,ENST00000537363,;KRI1,non_coding_transcript_exon_variant,,ENST00000478863,;KRI1,downstream_gene_variant,,ENST00000543842,;ATG4D,downstream_gene_variant,,ENST00000588667,;ATG4D,downstream_gene_variant,,ENST00000586417,;KRI1,downstream_gene_variant,,ENST00000432197,;ATG4D,downstream_gene_variant,,ENST00000589753,;KRI1,downstream_gene_variant,,ENST00000536714,;KRI1,downstream_gene_variant,,ENST00000537433,;ATG4D,downstream_gene_variant,,ENST00000585752,;ATG4D,downstream_gene_variant,,ENST00000588857,;	A	ENSG00000129347	ENST00000312962	Transcript	missense_variant	1777	1757	586	S/L	tCa/tTa	.	.	.	-1	KRI1	HGNC	25769	protein_coding	YES	CCDS12242.1	ENSP00000320917	KRI1_HUMAN	.	UPI0000246DCC	.	tolerated(0.33)	benign(0.002)	18/19	.	hmmpanther:PTHR14490,Pfam_domain:PF12936	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATGAGTTC	.	4	BLCA
KRI1	0	.	GRCh37	19	10675660	10675660	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237G>A	p.%3D	p.L79L	ENST00000312962	3/19	85	69	16	60	60	0	KRI1,synonymous_variant,p.%3D,ENST00000312962,;KRI1,synonymous_variant,p.%3D,ENST00000361821,;KRI1,synonymous_variant,p.%3D,ENST00000539027,;KRI1,intron_variant,,ENST00000543682,;CDKN2D,downstream_gene_variant,,ENST00000335766,;CDKN2D,downstream_gene_variant,,ENST00000393599,;KRI1,non_coding_transcript_exon_variant,,ENST00000537964,;KRI1,synonymous_variant,p.%3D,ENST00000544397,;KRI1,3_prime_UTR_variant,,ENST00000546063,;KRI1,3_prime_UTR_variant,,ENST00000432197,;KRI1,non_coding_transcript_exon_variant,,ENST00000536689,;KRI1,non_coding_transcript_exon_variant,,ENST00000478863,;	T	ENSG00000129347	ENST00000312962	Transcript	synonymous_variant	257	237	79	L	ttG/ttA	.	.	.	-1	KRI1	HGNC	25769	protein_coding	YES	CCDS12242.1	ENSP00000320917	KRI1_HUMAN	.	UPI0000246DCC	.	.	.	3/19	.	hmmpanther:PTHR14490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAACAA	.	5	BLCA
ZNF440	0	.	GRCh37	19	11944459	11944459	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*680G>C	.	.	ENST00000304060	4/4	23	18	5	15	15	0	ZNF440,3_prime_UTR_variant,,ENST00000304060,;ZNF440,downstream_gene_variant,,ENST00000457526,;ZNF440,downstream_gene_variant,,ENST00000588954,;ZNF440,downstream_gene_variant,,ENST00000414255,;ZNF440,downstream_gene_variant,,ENST00000427505,;	C	ENSG00000171295	ENST00000304060	Transcript	3_prime_UTR_variant	2632	.	.	.	.	.	.	.	1	ZNF440	HGNC	20874	protein_coding	YES	CCDS42503.1	ENSP00000305373	ZN440_HUMAN	K7EJ55_HUMAN,C9JG89_HUMAN	UPI0000074249	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGGGAGAGA	.	5	BLCA
BEST2	0	.	GRCh37	19	12868835	12868835	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1474C>G	p.Pro492Ala	p.P492A	ENST00000549706	10/10	13	9	3	9	9	0	BEST2,missense_variant,p.Pro492Ala,ENST00000549706,;BEST2,missense_variant,p.Pro492Ala,ENST00000042931,;BEST2,missense_variant,p.Pro492Ala,ENST00000553030,;BEST2,downstream_gene_variant,,ENST00000552539,;HOOK2,downstream_gene_variant,,ENST00000397668,;HOOK2,downstream_gene_variant,,ENST00000264827,;	G	ENSG00000039987	ENST00000549706	Transcript	missense_variant	1798	1474	492	P/A	Ccg/Gcg	COSM3528830	.	.	1	BEST2	HGNC	17107	protein_coding	YES	CCDS42506.1	ENSP00000448310	BEST2_HUMAN	.	UPI000007395A	.	tolerated_low_confidence(0.12)	benign(0.034)	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10736:SF1,hmmpanther:PTHR10736	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	GGGGTCCGGCG	.	4	BLCA
GTPBP3	0	.	GRCh37	19	17449403	17449403	+	Silent	SNP	C	C	T	rs745687275	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.444C>T	p.%3D	p.F148F	ENST00000358792	4/8	58	44	14	38	38	0	GTPBP3,synonymous_variant,p.%3D,ENST00000361619,;GTPBP3,synonymous_variant,p.%3D,ENST00000324894,;GTPBP3,synonymous_variant,p.%3D,ENST00000358792,;GTPBP3,synonymous_variant,p.%3D,ENST00000600625,;ANO8,upstream_gene_variant,,ENST00000159087,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000596218,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000598038,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000600995,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000596941,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000593297,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000596166,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000594345,;GTPBP3,downstream_gene_variant,,ENST00000595951,;GTPBP3,downstream_gene_variant,,ENST00000595381,;GTPBP3,downstream_gene_variant,,ENST00000598532,;GTPBP3,synonymous_variant,p.%3D,ENST00000594018,;GTPBP3,3_prime_UTR_variant,,ENST00000602165,;GTPBP3,3_prime_UTR_variant,,ENST00000600610,;GTPBP3,3_prime_UTR_variant,,ENST00000601213,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000601983,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000596001,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000601261,;GTPBP3,intron_variant,,ENST00000598493,;GTPBP3,upstream_gene_variant,,ENST00000594703,;GTPBP3,downstream_gene_variant,,ENST00000599329,;ANO8,upstream_gene_variant,,ENST00000597643,;GTPBP3,upstream_gene_variant,,ENST00000595194,;GTPBP3,upstream_gene_variant,,ENST00000596125,;ANO8,upstream_gene_variant,,ENST00000600711,;GTPBP3,upstream_gene_variant,,ENST00000602056,;GTPBP3,downstream_gene_variant,,ENST00000599429,;	T	ENSG00000130299	ENST00000358792	Transcript	synonymous_variant	501	444	148	F	ttC/ttT	rs745687275	.	.	1	GTPBP3	HGNC	14880	protein_coding	YES	CCDS32950.1	ENSP00000351644	GTPB3_HUMAN	.	UPI000059D6A7	.	.	.	4/8	.	HAMAP:MF_00379,hmmpanther:PTHR11649,hmmpanther:PTHR11649:SF56,Gene3D:3.30.1360.120,Pfam_domain:PF10396,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGTTCGCCAA	.	5	BLCA
SLC25A42	0	.	GRCh37	19	19206924	19206924	+	5'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-10C>G	.	.	ENST00000318596	2/8	28	25	3	14	14	0	SLC25A42,5_prime_UTR_variant,,ENST00000318596,;SLC25A42,non_coding_transcript_exon_variant,,ENST00000597661,;SLC25A42,non_coding_transcript_exon_variant,,ENST00000594070,;	G	ENSG00000181035	ENST00000318596	Transcript	5_prime_UTR_variant	142	.	.	.	.	.	.	.	1	SLC25A42	HGNC	28380	protein_coding	YES	CCDS32966.1	ENSP00000326693	S2542_HUMAN	.	UPI0000198748	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGAGCAGGCC	.	2	BLCA
TSSK6	0	.	GRCh37	19	19626097	19626097	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140G>A	p.Arg47Gln	p.R47Q	ENST00000360913	1/2	52	48	4	55	55	0	TSSK6,missense_variant,p.Arg47Gln,ENST00000585580,;TSSK6,missense_variant,p.Arg47Gln,ENST00000360913,;NDUFA13,upstream_gene_variant,,ENST00000428459,;NDUFA13,upstream_gene_variant,,ENST00000512771,;NDUFA13,upstream_gene_variant,,ENST00000507754,;NDUFA13,upstream_gene_variant,,ENST00000252576,;NDUFA13,upstream_gene_variant,,ENST00000503283,;CTC-260F20.3,upstream_gene_variant,,ENST00000555938,;YJEFN3,upstream_gene_variant,,ENST00000608404,;CTC-260F20.3,upstream_gene_variant,,ENST00000586674,;TSSK6,missense_variant,p.Arg47Gln,ENST00000587522,;NDUFA13,upstream_gene_variant,,ENST00000511584,;NDUFA13,upstream_gene_variant,,ENST00000511180,;NDUFA13,upstream_gene_variant,,ENST00000502506,;TSSK6,upstream_gene_variant,,ENST00000602623,;NDUFA13,upstream_gene_variant,,ENST00000606722,;	T	ENSG00000178093	ENST00000360913	Transcript	missense_variant	742	140	47	R/Q	cGa/cAa	.	.	.	-1	TSSK6	HGNC	30410	protein_coding	YES	CCDS12403.1	ENSP00000354168	TSSK6_HUMAN	R4GMZ2_HUMAN	UPI0000035B9A	.	tolerated(0.19)	benign(0.019)	1/2	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343,hmmpanther:PTHR24343:SF112,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGCTCGCCGC	.	2	BLCA
ZNF93	0	.	GRCh37	19	20011785	20011785	+	5'Flank	SNP	C	C	G	rs186738574	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000343769	.	40	34	6	39	39	0	ZNF93,5_prime_UTR_variant,,ENST00000591366,;ZNF93,5_prime_UTR_variant,,ENST00000588146,;ZNF93,5_prime_UTR_variant,,ENST00000592160,;ZNF93,upstream_gene_variant,,ENST00000343769,;AC007204.2,non_coding_transcript_exon_variant,,ENST00000592245,;ZNF93,non_coding_transcript_exon_variant,,ENST00000592613,;ZNF93,upstream_gene_variant,,ENST00000589903,;ZNF93,5_prime_UTR_variant,,ENST00000586021,;	G	ENSG00000184635	ENST00000343769	Transcript	upstream_gene_variant	.	.	.	.	.	rs186738574	.	85	1	ZNF93	HGNC	13169	protein_coding	YES	CCDS32973.1	ENSP00000342002	ZNF93_HUMAN	K7EPV7_HUMAN,B4DJ46_HUMAN	UPI00002263B9	.	.	.	.	.	.	T:0.0016	T:0	T:0.0086	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTCCTCTT	byFrequency|by1000G	4	BLCA
ZBTB32	0	.	GRCh37	19	36206267	36206267	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739C>T	p.Pro247Ser	p.P247S	ENST00000392197	3/7	105	84	21	67	67	0	ZBTB32,missense_variant,p.Pro247Ser,ENST00000392197,;ZBTB32,missense_variant,p.Pro247Ser,ENST00000262630,;ZBTB32,intron_variant,,ENST00000426659,;KMT2B,upstream_gene_variant,,ENST00000222270,;KMT2B,upstream_gene_variant,,ENST00000341701,;KMT2B,upstream_gene_variant,,ENST00000420124,;KMT2B,upstream_gene_variant,,ENST00000606995,;ZBTB32,downstream_gene_variant,,ENST00000442282,;KMT2B,upstream_gene_variant,,ENST00000607650,;ZBTB32,downstream_gene_variant,,ENST00000451726,;ZBTB32,missense_variant,p.Pro247Ser,ENST00000481182,;	T	ENSG00000011590	ENST00000392197	Transcript	missense_variant	1057	739	247	P/S	Ccc/Tcc	.	.	.	1	ZBTB32	HGNC	16763	protein_coding	YES	CCDS12471.1	ENSP00000376035	ZBT32_HUMAN	K7EMJ1_HUMAN	UPI0000038C8C	.	deleterious(0)	possibly_damaging(0.641)	3/7	.	hmmpanther:PTHR11389:SF456,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAGGCCCTCG	.	5	BLCA
WDR62	0	.	GRCh37	19	36594781	36594781	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4051C>T	p.Pro1351Ser	p.P1351S	ENST00000401500	30/32	69	49	19	28	28	0	WDR62,missense_variant,p.Pro1346Ser,ENST00000270301,;WDR62,missense_variant,p.Pro1351Ser,ENST00000401500,;WDR62,3_prime_UTR_variant,,ENST00000587391,;	T	ENSG00000075702	ENST00000401500	Transcript	missense_variant	4086	4051	1351	P/S	Cct/Tct	.	.	.	1	WDR62	HGNC	24502	protein_coding	YES	CCDS46059.1	ENSP00000384792	WDR62_HUMAN	.	UPI000022A7E9	.	tolerated_low_confidence(0.36)	benign(0.003)	30/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCTGAG	.	5	BLCA
ZNF570	0	.	GRCh37	19	37975802	37975802	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1278T>C	p.%3D	p.I426I	ENST00000330173	5/5	105	87	17	93	93	0	ZNF570,synonymous_variant,p.%3D,ENST00000388801,;ZNF570,synonymous_variant,p.%3D,ENST00000330173,;ZNF570,synonymous_variant,p.%3D,ENST00000586475,;ZNF570,downstream_gene_variant,,ENST00000589725,;CTD-2086O20.3,upstream_gene_variant,,ENST00000591976,;ZNF570,3_prime_UTR_variant,,ENST00000588644,;ZNF570,downstream_gene_variant,,ENST00000590664,;	C	ENSG00000171827	ENST00000330173	Transcript	synonymous_variant	1807	1278	426	I	atT/atC	.	.	.	1	ZNF570	HGNC	26416	protein_coding	YES	CCDS12504.1	ENSP00000331540	ZN570_HUMAN	K7EP64_HUMAN,K7ENX9_HUMAN,K7EMF5_HUMAN,B4DMP1_HUMAN	UPI000006DC96	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24387,hmmpanther:PTHR24387:SF17,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATTGCCTA	.	5	BLCA
RINL	0	.	GRCh37	19	39361497	39361497	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737G>A	p.Arg246Lys	p.R246K	ENST00000591812	8/12	60	46	14	46	46	0	RINL,missense_variant,p.Arg132Lys,ENST00000340740,;RINL,missense_variant,p.Arg132Lys,ENST00000598904,;RINL,missense_variant,p.Arg246Lys,ENST00000591812,;RINL,upstream_gene_variant,,ENST00000593424,;RINL,upstream_gene_variant,,ENST00000593809,;CTC-360G5.6,intron_variant,,ENST00000593830,;RINL,upstream_gene_variant,,ENST00000602238,;RINL,non_coding_transcript_exon_variant,,ENST00000589111,;RINL,downstream_gene_variant,,ENST00000599911,;RINL,downstream_gene_variant,,ENST00000596919,;RINL,upstream_gene_variant,,ENST00000596961,;RINL,downstream_gene_variant,,ENST00000598048,;	T	ENSG00000187994	ENST00000591812	Transcript	missense_variant	824	737	246	R/K	aGg/aAg	.	.	.	-1	RINL	HGNC	24795	protein_coding	YES	CCDS59386.1	ENSP00000467107	RINL_HUMAN	M0QZ15_HUMAN	UPI00001D8162	.	tolerated(0.88)	benign(0.013)	8/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23101,hmmpanther:PTHR23101:SF44	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCCTTCCT	.	5	BLCA
CYP2A6	0	.	GRCh37	19	41354584	41354584	+	Missense_Mutation	SNP	C	C	T	rs780336943	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.428G>A	p.Arg143Gln	p.R143Q	ENST00000301141	3/9	57	50	6	32	32	0	CYP2A6,missense_variant,p.Arg143Gln,ENST00000301141,;CYP2A6,3_prime_UTR_variant,,ENST00000600495,;CYP2A6,non_coding_transcript_exon_variant,,ENST00000596719,;CTC-490E21.12,intron_variant,,ENST00000601627,;CYP2A6,upstream_gene_variant,,ENST00000599960,;	T	ENSG00000255974	ENST00000301141	Transcript	missense_variant	449	428	143	R/Q	cGa/cAa	rs780336943	.	.	-1	CYP2A6	HGNC	2610	protein_coding	YES	CCDS12568.1	ENSP00000301141	CP2A6_HUMAN	.	UPI000013E6D2	.	.	possibly_damaging(0.645)	3/9	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF96,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTCGCTTG	byFrequency	4	BLCA
CYP2F1	0	.	GRCh37	19	41626286	41626286	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369C>T	p.%3D	p.V123V	ENST00000331105	4/10	87	70	17	61	61	0	CYP2F1,synonymous_variant,p.%3D,ENST00000331105,;CYP2F1,upstream_gene_variant,,ENST00000439903,;CYP2F1,synonymous_variant,p.%3D,ENST00000532164,;CYP2F1,non_coding_transcript_exon_variant,,ENST00000531409,;CYP2F1,intron_variant,,ENST00000526093,;CYP2F1,upstream_gene_variant,,ENST00000534009,;	T	ENSG00000197446	ENST00000331105	Transcript	synonymous_variant	441	369	123	V	gtC/gtT	.	.	.	1	CYP2F1	HGNC	2632	protein_coding	YES	CCDS12572.1	ENSP00000333534	CP2F1_HUMAN	.	UPI000013C622	.	.	.	4/10	.	hmmpanther:PTHR24300:SF15,hmmpanther:PTHR24300,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTCCTGAG	.	5	BLCA
CYP2F1	0	.	GRCh37	19	41627484	41627484	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.606C>G	p.Ile202Met	p.I202M	ENST00000331105	5/10	122	97	24	89	89	0	CYP2F1,missense_variant,p.Ile202Met,ENST00000331105,;CYP2F1,upstream_gene_variant,,ENST00000439903,;CYP2F1,missense_variant,p.Ile202Met,ENST00000532164,;CYP2F1,non_coding_transcript_exon_variant,,ENST00000531409,;CYP2F1,intron_variant,,ENST00000526093,;CYP2F1,upstream_gene_variant,,ENST00000534009,;	G	ENSG00000197446	ENST00000331105	Transcript	missense_variant	678	606	202	I/M	atC/atG	.	.	.	1	CYP2F1	HGNC	2632	protein_coding	YES	CCDS12572.1	ENSP00000333534	CP2F1_HUMAN	.	UPI000013C622	.	tolerated(0.56)	possibly_damaging(0.465)	5/10	.	hmmpanther:PTHR24300:SF15,hmmpanther:PTHR24300,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTATCAATGA	.	5	BLCA
CEA	0	.	GRCh37	19	42265179	42265179	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447C>G	p.Ile149Met	p.I149M	ENST00000598976	3/3	215	179	35	165	165	0	CEA,missense_variant,p.Ile149Met,ENST00000598976,;CEACAM6,missense_variant,p.Ile149Met,ENST00000199764,;CEACAM6,downstream_gene_variant,,ENST00000595740,;CEA,downstream_gene_variant,,ENST00000435837,;AC011513.4,intron_variant,,ENST00000601409,;	G	ENSG00000267881	ENST00000598976	Transcript	missense_variant	567	447	149	I/M	atC/atG	.	.	.	1	CEA	Uniprot_gn	.	protein_coding	YES	.	ENSP00000469421	.	Q7KZ28_HUMAN,M0QXV9_HUMAN	UPI0002A4737D	.	deleterious(0)	probably_damaging(0.999)	3/3	.	hmmpanther:PTHR19955:SF113,hmmpanther:PTHR19955	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATCTCCAG	.	4	BLCA
CEACAM6	0	.	GRCh37	19	42270193	42270193	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*26C>T	.	.	ENST00000199764	5/6	53	39	14	40	40	0	CEACAM6,3_prime_UTR_variant,,ENST00000199764,;AC011513.4,intron_variant,,ENST00000601409,;	T	ENSG00000086548	ENST00000199764	Transcript	3_prime_UTR_variant	1279	.	.	.	.	.	.	.	1	CEACAM6	HGNC	1818	protein_coding	YES	CCDS12585.1	ENSP00000199764	CEAM6_HUMAN	Q13985_HUMAN,M0QYD3_HUMAN	UPI000006DF42	.	.	.	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTTCAGGAA	.	5	BLCA
CIC	0	.	GRCh37	19	42791187	42791187	+	Nonsense_Mutation	SNP	G	G	T	rs768744137	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>T	p.Glu83Ter	p.E83*	ENST00000575354	3/20	107	94	12	92	92	0	CIC,stop_gained,p.Glu83Ter,ENST00000575354,;CIC,stop_gained,p.Glu992Ter,ENST00000572681,;CIC,stop_gained,p.Glu83Ter,ENST00000160740,;CIC,downstream_gene_variant,,ENST00000575839,;	T	ENSG00000079432	ENST00000575354	Transcript	stop_gained	287	247	83	E/*	Gaa/Taa	rs768744137	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	.	3/20	.	hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATGAACGG	.	4	BLCA
CIC	0	.	GRCh37	19	42791250	42791250	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310G>A	p.Glu104Lys	p.E104K	ENST00000575354	3/20	61	53	8	63	63	0	CIC,missense_variant,p.Glu104Lys,ENST00000575354,;CIC,missense_variant,p.Glu1013Lys,ENST00000572681,;CIC,missense_variant,p.Glu104Lys,ENST00000160740,;CIC,downstream_gene_variant,,ENST00000575839,;	A	ENSG00000079432	ENST00000575354	Transcript	missense_variant	350	310	104	E/K	Gag/Aag	COSM32270	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	benign(0.341)	3/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTGAGAGC	.	4	BLCA
CIC	0	.	GRCh37	19	42791367	42791367	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>A	p.Glu143Lys	p.E143K	ENST00000575354	3/20	44	37	7	39	39	0	CIC,missense_variant,p.Glu143Lys,ENST00000575354,;CIC,missense_variant,p.Glu1052Lys,ENST00000572681,;CIC,missense_variant,p.Glu143Lys,ENST00000160740,;CIC,downstream_gene_variant,,ENST00000575839,;	A	ENSG00000079432	ENST00000575354	Transcript	missense_variant	467	427	143	E/K	Gag/Aag	.	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	probably_damaging(0.958)	3/20	.	hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACAGTGAGACA	.	3	BLCA
CIC	0	.	GRCh37	19	42791373	42791373	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433G>A	p.Glu145Lys	p.E145K	ENST00000575354	3/20	41	34	6	39	39	0	CIC,missense_variant,p.Glu145Lys,ENST00000575354,;CIC,missense_variant,p.Glu1054Lys,ENST00000572681,;CIC,missense_variant,p.Glu145Lys,ENST00000160740,;CIC,downstream_gene_variant,,ENST00000575839,;	A	ENSG00000079432	ENST00000575354	Transcript	missense_variant	473	433	145	E/K	Gag/Aag	.	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	possibly_damaging(0.647)	3/20	.	hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGACAGAGAGT	.	3	BLCA
CIC	0	.	GRCh37	19	42791562	42791562	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.543G>A	p.%3D	p.R181R	ENST00000575354	4/20	76	68	8	52	52	0	CIC,synonymous_variant,p.%3D,ENST00000575354,;CIC,synonymous_variant,p.%3D,ENST00000572681,;CIC,synonymous_variant,p.%3D,ENST00000160740,;CIC,downstream_gene_variant,,ENST00000575839,;	A	ENSG00000079432	ENST00000575354	Transcript	synonymous_variant	583	543	181	R	cgG/cgA	.	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	.	4/20	.	hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACGGGACTC	.	4	BLCA
CIC	0	.	GRCh37	19	42791968	42791968	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772G>A	p.Glu258Lys	p.E258K	ENST00000575354	6/20	19	13	5	14	14	0	CIC,missense_variant,p.Glu258Lys,ENST00000575354,;CIC,missense_variant,p.Glu1167Lys,ENST00000572681,;CIC,missense_variant,p.Glu258Lys,ENST00000160740,;CIC,downstream_gene_variant,,ENST00000575839,;	A	ENSG00000079432	ENST00000575354	Transcript	missense_variant	812	772	258	E/K	Gag/Aag	.	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	probably_damaging(0.914)	6/20	.	PROSITE_profiles:PS50118,hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059,Pfam_domain:PF00505,Gene3D:1.10.30.10,SMART_domains:SM00398,Superfamily_domains:SSF47095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAAGGAGGCC	.	5	BLCA
PAFAH1B3	0	.	GRCh37	19	42801340	42801340	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.586C>G	p.Leu196Val	p.L196V	ENST00000538771	6/6	74	65	9	64	64	0	PAFAH1B3,missense_variant,p.Leu196Val,ENST00000262890,;PAFAH1B3,missense_variant,p.Leu196Val,ENST00000538771,;PAFAH1B3,missense_variant,p.Leu167Val,ENST00000594989,;CIC,downstream_gene_variant,,ENST00000576505,;CIC,downstream_gene_variant,,ENST00000575354,;CIC,downstream_gene_variant,,ENST00000573349,;CIC,downstream_gene_variant,,ENST00000572681,;PAFAH1B3,downstream_gene_variant,,ENST00000601865,;PAFAH1B3,downstream_gene_variant,,ENST00000596265,;PAFAH1B3,downstream_gene_variant,,ENST00000599778,;PRR19,upstream_gene_variant,,ENST00000341747,;CIC,downstream_gene_variant,,ENST00000160740,;PAFAH1B3,downstream_gene_variant,,ENST00000595530,;PRR19,upstream_gene_variant,,ENST00000598490,;PAFAH1B3,downstream_gene_variant,,ENST00000597333,;CIC,downstream_gene_variant,,ENST00000571033,;CIC,downstream_gene_variant,,ENST00000575287,;	C	ENSG00000079462	ENST00000538771	Transcript	missense_variant	943	586	196	L/V	Ctg/Gtg	.	.	.	-1	PAFAH1B3	HGNC	8576	protein_coding	YES	CCDS12602.1	ENSP00000444935	PA1B3_HUMAN	M0R389_HUMAN,M0R323_HUMAN,M0QXS6_HUMAN	UPI0000131074	.	deleterious(0.01)	probably_damaging(0.996)	6/6	.	Superfamily_domains:SSF52266,Pfam_domain:PF13472,Gene3D:3.40.50.1110,hmmpanther:PTHR11852	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCAGATGCA	.	4	BLCA
PSG6	0	.	GRCh37	19	43411884	43411884	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.829C>G	p.Gln277Glu	p.Q277E	ENST00000292125	4/6	316	257	59	276	276	0	PSG6,missense_variant,p.Gln277Glu,ENST00000187910,;PSG6,missense_variant,p.Gln156Glu,ENST00000594375,;PSG6,missense_variant,p.Gln277Glu,ENST00000292125,;PSG6,intron_variant,,ENST00000402603,;PSG6,3_prime_UTR_variant,,ENST00000599753,;PSG6,intron_variant,,ENST00000595062,;PSG6,downstream_gene_variant,,ENST00000402456,;PSG6,downstream_gene_variant,,ENST00000484292,;	C	ENSG00000170848	ENST00000292125	Transcript	missense_variant	874	829	277	Q/E	Cag/Gag	.	.	.	-1	PSG6	HGNC	9523	protein_coding	YES	CCDS12613.1	ENSP00000292125	PSG6_HUMAN	.	UPI00001327A1	.	tolerated(0.38)	benign(0.012)	4/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF13895,Gene3D:2.60.40.10,hmmpanther:PTHR19955:SF126,hmmpanther:PTHR19955,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGACCAT	.	5	BLCA
KCNN4	0	.	GRCh37	19	44276242	44276242	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729G>A	p.%3D	p.L243L	ENST00000262888	4/9	63	56	7	28	28	0	KCNN4,synonymous_variant,p.%3D,ENST00000262888,;KCNN4,upstream_gene_variant,,ENST00000600909,;KCNN4,upstream_gene_variant,,ENST00000598836,;KCNN4,synonymous_variant,p.%3D,ENST00000600408,;KCNN4,stop_retained_variant,p.%3D,ENST00000599720,;KCNN4,non_coding_transcript_exon_variant,,ENST00000601549,;KCNN4,upstream_gene_variant,,ENST00000597184,;KCNN4,downstream_gene_variant,,ENST00000599107,;	T	ENSG00000104783	ENST00000262888	Transcript	synonymous_variant	1125	729	243	L	ctG/ctA	.	.	.	-1	KCNN4	HGNC	6293	protein_coding	YES	CCDS12630.1	ENSP00000262888	KCNN4_HUMAN	M0R2E8_HUMAN,M0QZ70_HUMAN	UPI0000000DF3	.	.	.	4/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10153:SF4,hmmpanther:PTHR10153,Gene3D:1.10.287.70,Pfam_domain:PF07885,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGATCAGCCA	.	2	BLCA
RSPH6A	0	.	GRCh37	19	46307789	46307789	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1374C>T	p.%3D	p.F458F	ENST00000221538	3/6	60	54	6	46	46	0	RSPH6A,synonymous_variant,p.%3D,ENST00000600188,;RSPH6A,synonymous_variant,p.%3D,ENST00000597055,;RSPH6A,synonymous_variant,p.%3D,ENST00000221538,;	A	ENSG00000104941	ENST00000221538	Transcript	synonymous_variant	1517	1374	458	F	ttC/ttT	.	.	.	-1	RSPH6A	HGNC	14241	protein_coding	YES	CCDS12675.1	ENSP00000221538	RSH6A_HUMAN	M0R103_HUMAN	UPI0000037C58	.	.	.	3/6	.	hmmpanther:PTHR13159,hmmpanther:PTHR13159:SF1,Pfam_domain:PF04712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGAAGAACTT	.	3	BLCA
DHX34	0	.	GRCh37	19	47884535	47884535	+	Silent	SNP	C	C	T	rs138943688	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3252C>T	p.%3D	p.I1084I	ENST00000328771	16/17	71	66	5	50	50	0	DHX34,synonymous_variant,p.%3D,ENST00000328771,;DHX34,3_prime_UTR_variant,,ENST00000460681,;DHX34,non_coding_transcript_exon_variant,,ENST00000486327,;	T	ENSG00000134815	ENST00000328771	Transcript	synonymous_variant	3601	3252	1084	I	atC/atT	rs138943688	.	.	1	DHX34	HGNC	16719	protein_coding	YES	CCDS12700.1	ENSP00000331907	DHX34_HUMAN	.	UPI0000202759	.	.	.	16/17	.	.	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0	T:0.0005	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCATCGCCCA	byCluster|by1000G	2	BLCA
SLC8A2	0	.	GRCh37	19	47951412	47951412	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1417G>C	p.Glu473Gln	p.E473Q	ENST00000236877	4/10	32	25	7	28	28	0	SLC8A2,missense_variant,p.Glu229Gln,ENST00000542837,;SLC8A2,missense_variant,p.Glu473Gln,ENST00000236877,;SLC8A2,intron_variant,,ENST00000539381,;SLC8A2,upstream_gene_variant,,ENST00000601757,;	G	ENSG00000118160	ENST00000236877	Transcript	missense_variant	1813	1417	473	E/Q	Gag/Cag	.	.	.	-1	SLC8A2	HGNC	11069	protein_coding	YES	CCDS33065.1	ENSP00000236877	NAC2_HUMAN	M0R211_HUMAN,M0R1Z4_HUMAN,F5H6L7_HUMAN,F5GYS4_HUMAN	UPI000012FC49	.	deleterious(0)	probably_damaging(0.989)	4/10	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF141072,SMART_domains:SM00237,Pfam_domain:PF03160,TIGRFAM_domain:TIGR00845,hmmpanther:PTHR11878	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCGAAGA	.	5	BLCA
ZNF611	0	.	GRCh37	19	53208236	53208236	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2072C>G	p.Ser691Ter	p.S691*	ENST00000543227	6/6	123	97	26	131	131	0	ZNF611,stop_gained,p.Ser622Ter,ENST00000453741,;ZNF611,stop_gained,p.Ser691Ter,ENST00000543227,;ZNF611,stop_gained,p.Ser691Ter,ENST00000319783,;ZNF611,stop_gained,p.Ser622Ter,ENST00000595798,;ZNF611,stop_gained,p.Ser622Ter,ENST00000602162,;ZNF611,stop_gained,p.Ser691Ter,ENST00000540744,;ZNF611,downstream_gene_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000600943,;ZNF611,downstream_gene_variant,,ENST00000601643,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,downstream_gene_variant,,ENST00000597343,;ZNF611,downstream_gene_variant,,ENST00000598639,;ZNF611,downstream_gene_variant,,ENST00000598723,;	C	ENSG00000213020	ENST00000543227	Transcript	stop_gained	2347	2072	691	S/*	tCa/tGa	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	.	.	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTGATTGT	.	5	BLCA
ZNF611	0	.	GRCh37	19	53208740	53208740	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1568C>G	p.Ser523Ter	p.S523*	ENST00000543227	6/6	209	175	33	161	161	0	ZNF611,stop_gained,p.Ser454Ter,ENST00000453741,;ZNF611,stop_gained,p.Ser523Ter,ENST00000543227,;ZNF611,stop_gained,p.Ser523Ter,ENST00000319783,;ZNF611,stop_gained,p.Ser454Ter,ENST00000595798,;ZNF611,stop_gained,p.Ser454Ter,ENST00000602162,;ZNF611,stop_gained,p.Ser523Ter,ENST00000540744,;ZNF611,downstream_gene_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000600943,;ZNF611,downstream_gene_variant,,ENST00000601643,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,downstream_gene_variant,,ENST00000597343,;ZNF611,downstream_gene_variant,,ENST00000598639,;ZNF611,downstream_gene_variant,,ENST00000598723,;	C	ENSG00000213020	ENST00000543227	Transcript	stop_gained	1843	1568	523	S/*	tCa/tGa	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	.	.	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTTGATTTA	.	4	BLCA
ZNF611	0	.	GRCh37	19	53209232	53209232	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1076C>A	p.Ser359Ter	p.S359*	ENST00000543227	6/6	103	84	19	95	95	0	ZNF611,stop_gained,p.Ser290Ter,ENST00000453741,;ZNF611,stop_gained,p.Ser359Ter,ENST00000543227,;ZNF611,stop_gained,p.Ser359Ter,ENST00000319783,;ZNF611,stop_gained,p.Ser290Ter,ENST00000595798,;ZNF611,stop_gained,p.Ser290Ter,ENST00000602162,;ZNF611,stop_gained,p.Ser359Ter,ENST00000540744,;ZNF611,downstream_gene_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000600943,;ZNF611,downstream_gene_variant,,ENST00000601643,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,downstream_gene_variant,,ENST00000597343,;ZNF611,downstream_gene_variant,,ENST00000598639,;ZNF611,downstream_gene_variant,,ENST00000598723,;	T	ENSG00000213020	ENST00000543227	Transcript	stop_gained	1351	1076	359	S/*	tCa/tAa	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	.	.	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGTGAAAGT	.	5	BLCA
ZNF611	0	.	GRCh37	19	53209507	53209507	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.801C>G	p.%3D	p.L267L	ENST00000543227	6/6	229	196	32	176	176	0	ZNF611,synonymous_variant,p.%3D,ENST00000453741,;ZNF611,synonymous_variant,p.%3D,ENST00000543227,;ZNF611,synonymous_variant,p.%3D,ENST00000319783,;ZNF611,synonymous_variant,p.%3D,ENST00000595798,;ZNF611,synonymous_variant,p.%3D,ENST00000602162,;ZNF611,synonymous_variant,p.%3D,ENST00000540744,;ZNF611,downstream_gene_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000600943,;ZNF611,downstream_gene_variant,,ENST00000601643,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,downstream_gene_variant,,ENST00000597343,;ZNF611,downstream_gene_variant,,ENST00000598639,;ZNF611,downstream_gene_variant,,ENST00000598723,;	C	ENSG00000213020	ENST00000543227	Transcript	synonymous_variant	1076	801	267	L	ctC/ctG	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	.	.	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13912,PROSITE_patterns:PS00028,hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAAAGAGCTT	.	4	BLCA
ZNF611	0	.	GRCh37	19	53209742	53209742	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.566C>T	p.Ser189Leu	p.S189L	ENST00000543227	6/6	200	171	28	180	180	0	ZNF611,missense_variant,p.Ser120Leu,ENST00000453741,;ZNF611,missense_variant,p.Ser189Leu,ENST00000543227,;ZNF611,missense_variant,p.Ser189Leu,ENST00000319783,;ZNF611,missense_variant,p.Ser120Leu,ENST00000595798,;ZNF611,missense_variant,p.Ser120Leu,ENST00000602162,;ZNF611,missense_variant,p.Ser189Leu,ENST00000540744,;ZNF611,missense_variant,p.Ser120Leu,ENST00000601643,;ZNF611,downstream_gene_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000600943,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,downstream_gene_variant,,ENST00000597343,;ZNF611,downstream_gene_variant,,ENST00000598639,;ZNF611,downstream_gene_variant,,ENST00000598723,;	A	ENSG00000213020	ENST00000543227	Transcript	missense_variant	841	566	189	S/L	tCa/tTa	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	tolerated(0.3)	benign(0.001)	6/6	.	hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACTGAGGGA	.	4	BLCA
TTYH1	0	.	GRCh37	19	54941065	54941065	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813C>G	p.%3D	p.L271L	ENST00000376531	7/13	89	72	17	83	83	0	TTYH1,synonymous_variant,p.%3D,ENST00000391739,;TTYH1,synonymous_variant,p.%3D,ENST00000376531,;TTYH1,synonymous_variant,p.%3D,ENST00000376530,;TTYH1,synonymous_variant,p.%3D,ENST00000301194,;TTYH1,downstream_gene_variant,,ENST00000445095,;AC008746.3,downstream_gene_variant,,ENST00000457113,;CTD-2587H19.2,upstream_gene_variant,,ENST00000596631,;TTYH1,non_coding_transcript_exon_variant,,ENST00000489425,;TTYH1,downstream_gene_variant,,ENST00000461302,;TTYH1,downstream_gene_variant,,ENST00000476757,;TTYH1,upstream_gene_variant,,ENST00000492920,;TTYH1,3_prime_UTR_variant,,ENST00000472198,;TTYH1,non_coding_transcript_exon_variant,,ENST00000487134,;TTYH1,downstream_gene_variant,,ENST00000425969,;	G	ENSG00000167614	ENST00000376531	Transcript	synonymous_variant	840	813	271	L	ctC/ctG	.	.	.	1	TTYH1	HGNC	13476	protein_coding	YES	CCDS33106.1	ENSP00000365714	TTYH1_HUMAN	.	UPI0000141B60	.	.	.	7/13	.	hmmpanther:PTHR12424,hmmpanther:PTHR12424:SF5,Pfam_domain:PF04906	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCAGTGA	.	5	BLCA
SAFB	0	.	GRCh37	19	5654145	5654145	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1600G>A	p.Glu534Lys	p.E534K	ENST00000588852	12/21	80	75	5	57	57	0	SAFB,missense_variant,p.Glu534Lys,ENST00000588852,;SAFB,missense_variant,p.Glu465Lys,ENST00000454510,;SAFB,missense_variant,p.Glu534Lys,ENST00000292123,;SAFB,missense_variant,p.Glu377Lys,ENST00000538656,;SAFB,missense_variant,p.Glu364Lys,ENST00000433404,;SAFB,missense_variant,p.Glu534Lys,ENST00000592224,;SAFB,upstream_gene_variant,,ENST00000589006,;SAFB,downstream_gene_variant,,ENST00000586934,;SAFB,3_prime_UTR_variant,,ENST00000589863,;SAFB,downstream_gene_variant,,ENST00000592396,;SAFB,downstream_gene_variant,,ENST00000592707,;	A	ENSG00000160633	ENST00000588852	Transcript	missense_variant	1653	1600	534	E/K	Gaa/Aaa	.	.	.	1	SAFB	HGNC	10520	protein_coding	YES	CCDS59339.1	ENSP00000467423	SAFB1_HUMAN	Q68DW3_HUMAN,F5GZU3_HUMAN	UPI0000E5BE82	.	tolerated(0.77)	benign(0.366)	12/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15683:SF6,hmmpanther:PTHR15683	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGAGAAAAG	.	2	BLCA
SAFB	0	.	GRCh37	19	5654393	5654393	+	Missense_Mutation	SNP	G	G	A	rs751387449	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1681G>A	p.Glu561Lys	p.E561K	ENST00000588852	13/21	213	195	17	160	160	0	SAFB,missense_variant,p.Glu561Lys,ENST00000588852,;SAFB,missense_variant,p.Glu492Lys,ENST00000454510,;SAFB,missense_variant,p.Glu561Lys,ENST00000292123,;SAFB,missense_variant,p.Glu404Lys,ENST00000538656,;SAFB,missense_variant,p.Glu391Lys,ENST00000433404,;SAFB,missense_variant,p.Glu561Lys,ENST00000592224,;SAFB,upstream_gene_variant,,ENST00000589006,;SAFB,downstream_gene_variant,,ENST00000586934,;SAFB,3_prime_UTR_variant,,ENST00000589863,;SAFB,downstream_gene_variant,,ENST00000592396,;SAFB,downstream_gene_variant,,ENST00000592707,;	A	ENSG00000160633	ENST00000588852	Transcript	missense_variant	1734	1681	561	E/K	Gaa/Aaa	rs751387449	.	.	1	SAFB	HGNC	10520	protein_coding	YES	CCDS59339.1	ENSP00000467423	SAFB1_HUMAN	Q68DW3_HUMAN,F5GZU3_HUMAN	UPI0000E5BE82	.	deleterious(0)	probably_damaging(0.998)	13/21	.	hmmpanther:PTHR15683:SF6,hmmpanther:PTHR15683	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGACCGAACGG	.	3	BLCA
SAFB	0	.	GRCh37	19	5668276	5668276	+	Missense_Mutation	SNP	G	G	T	rs756589107	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2728G>T	p.Asp910Tyr	p.D910Y	ENST00000588852	21/21	39	33	5	24	24	0	SAFB,missense_variant,p.Asp910Tyr,ENST00000588852,;SAFB,missense_variant,p.Asp841Tyr,ENST00000454510,;SAFB,missense_variant,p.Asp908Tyr,ENST00000292123,;SAFB,missense_variant,p.Asp752Tyr,ENST00000538656,;SAFB,missense_variant,p.Asp740Tyr,ENST00000433404,;SAFB,missense_variant,p.Asp909Tyr,ENST00000592224,;SAFB,downstream_gene_variant,,ENST00000589006,;SAFB,3_prime_UTR_variant,,ENST00000589863,;SAFB,non_coding_transcript_exon_variant,,ENST00000592555,;SAFB,non_coding_transcript_exon_variant,,ENST00000591991,;SAFB,downstream_gene_variant,,ENST00000586281,;	T	ENSG00000160633	ENST00000588852	Transcript	missense_variant	2781	2728	910	D/Y	Gat/Tat	rs756589107	.	.	1	SAFB	HGNC	10520	protein_coding	YES	CCDS59339.1	ENSP00000467423	SAFB1_HUMAN	Q68DW3_HUMAN,F5GZU3_HUMAN	UPI0000E5BE82	.	tolerated_low_confidence(0.29)	unknown(0)	21/21	.	hmmpanther:PTHR15683:SF6,hmmpanther:PTHR15683	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGCGATGCC	byFrequency	4	BLCA
ZSCAN4	0	.	GRCh37	19	58190138	58190138	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1167C>T	p.%3D	p.I389I	ENST00000318203	5/5	106	95	11	91	91	0	ZSCAN4,synonymous_variant,p.%3D,ENST00000318203,;AC003006.7,upstream_gene_variant,,ENST00000594684,;ZNF551,upstream_gene_variant,,ENST00000282296,;ZNF551,upstream_gene_variant,,ENST00000596085,;ZNF551,upstream_gene_variant,,ENST00000601064,;ZNF551,upstream_gene_variant,,ENST00000356715,;AC003006.7,upstream_gene_variant,,ENST00000599221,;ZNF551,upstream_gene_variant,,ENST00000599402,;	T	ENSG00000180532	ENST00000318203	Transcript	synonymous_variant	1864	1167	389	I	atC/atT	.	.	.	1	ZSCAN4	HGNC	23709	protein_coding	YES	CCDS12958.1	ENSP00000321963	ZSCA4_HUMAN	.	UPI000006E923	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23226:SF45,hmmpanther:PTHR23226,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAATCCACAC	.	4	BLCA
CLPP	0	.	GRCh37	19	6364562	6364562	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.467C>T	p.Ser156Phe	p.S156F	ENST00000245816	4/6	14	9	5	11	11	0	CLPP,missense_variant,p.Ser156Phe,ENST00000245816,;CLPP,missense_variant,p.Ser69Phe,ENST00000596149,;CLPP,missense_variant,p.Ser93Phe,ENST00000597326,;CLPP,intron_variant,,ENST00000596605,;CTB-180A7.3,upstream_gene_variant,,ENST00000595644,;CLPP,non_coding_transcript_exon_variant,,ENST00000594780,;CLPP,non_coding_transcript_exon_variant,,ENST00000596070,;	T	ENSG00000125656	ENST00000245816	Transcript	missense_variant	590	467	156	S/F	tCc/tTc	.	.	.	1	CLPP	HGNC	2084	protein_coding	YES	CCDS12162.1	ENSP00000245816	CLPP_HUMAN	M0R208_HUMAN,A4UCS4_HUMAN	UPI0000000C4D	.	deleterious(0)	probably_damaging(0.996)	4/6	.	Low_complexity_(Seg):seg,HAMAP:MF_00444,hmmpanther:PTHR10381:SF11,hmmpanther:PTHR10381,PROSITE_patterns:PS00381,Gene3D:3.90.226.10,Pfam_domain:PF00574,Superfamily_domains:SSF52096,Prints_domain:PR00127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCCTGC	.	5	BLCA
CD209	0	.	GRCh37	19	7811350	7811350	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174C>G	p.%3D	p.V58V	ENST00000315599	3/7	45	37	7	39	39	0	CD209,synonymous_variant,p.%3D,ENST00000394161,;CD209,synonymous_variant,p.%3D,ENST00000394173,;CD209,synonymous_variant,p.%3D,ENST00000354397,;CD209,synonymous_variant,p.%3D,ENST00000315599,;CD209,synonymous_variant,p.%3D,ENST00000602261,;CD209,intron_variant,,ENST00000315591,;CD209,intron_variant,,ENST00000593660,;CD209,intron_variant,,ENST00000601256,;CD209,intron_variant,,ENST00000204801,;CD209,intron_variant,,ENST00000301357,;CD209,intron_variant,,ENST00000601951,;CD209,intron_variant,,ENST00000593821,;RPL21P129,upstream_gene_variant,,ENST00000491732,;	C	ENSG00000090659	ENST00000315599	Transcript	synonymous_variant	197	174	58	V	gtC/gtG	.	.	.	-1	CD209	HGNC	1641	protein_coding	YES	CCDS12186.1	ENSP00000315477	CD209_HUMAN	B4E2A8_HUMAN	UPI000003422C	.	.	.	3/7	.	hmmpanther:PTHR22802:SF205,hmmpanther:PTHR22802	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTGGACAAG	.	5	BLCA
FBN3	0	.	GRCh37	19	8196471	8196471	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1957G>A	p.Glu653Lys	p.E653K	ENST00000600128	15/64	48	42	5	44	44	0	FBN3,missense_variant,p.Glu653Lys,ENST00000600128,;FBN3,missense_variant,p.Glu653Lys,ENST00000601739,;FBN3,missense_variant,p.Glu653Lys,ENST00000270509,;	T	ENSG00000142449	ENST00000600128	Transcript	missense_variant	2372	1957	653	E/K	Gag/Aag	.	.	.	-1	FBN3	HGNC	18794	protein_coding	YES	CCDS12196.1	ENSP00000470498	FBN3_HUMAN	.	UPI000013D88F	.	deleterious(0.03)	possibly_damaging(0.515)	15/64	.	PROSITE_profiles:PS51364,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF0,Gene3D:3.90.290.10,Pfam_domain:PF00683,PIRSF_domain:PIRSF036312,Superfamily_domains:SSF57581	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCCCAA	.	4	BLCA
MUC16	0	.	GRCh37	19	8995951	8995951	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.41287+3G>A	.	.	ENST00000397910	.	59	46	13	42	42	0	MUC16,splice_region_variant,,ENST00000380951,;MUC16,splice_region_variant,,ENST00000397910,;MUC16,splice_region_variant,,ENST00000599436,;MUC16,splice_region_variant,,ENST00000601404,;MUC16,splice_region_variant,,ENST00000596768,;	T	ENSG00000181143	ENST00000397910	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	.	62/83	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTCACTGC	.	4	BLCA
DFFA	0	.	GRCh37	1	10521675	10521675	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.868G>A	p.Glu290Lys	p.E290K	ENST00000377038	6/6	64	55	9	41	41	0	DFFA,missense_variant,p.Glu290Lys,ENST00000377038,;DFFA,downstream_gene_variant,,ENST00000377036,;RP5-1113E3.3,downstream_gene_variant,,ENST00000424487,;DFFA,downstream_gene_variant,,ENST00000476658,;	T	ENSG00000160049	ENST00000377038	Transcript	missense_variant	936	868	290	E/K	Gag/Aag	COSM212081	.	.	-1	DFFA	HGNC	2772	protein_coding	YES	CCDS118.1	ENSP00000366237	DFFA_HUMAN	.	UPI00001291FA	.	tolerated(0.42)	benign(0.001)	6/6	.	hmmpanther:PTHR12306,hmmpanther:PTHR12306:SF16,Gene3D:1.10.1490.10,PIRSF_domain:PIRSF037865,Superfamily_domains:0039286	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCTCACAGG	.	4	BLCA
CASZ1	0	.	GRCh37	1	10706341	10706341	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3540C>A	p.Phe1180Leu	p.F1180L	ENST00000377022	17/21	52	36	16	33	33	0	CASZ1,missense_variant,p.Phe1180Leu,ENST00000377022,;CASZ1,upstream_gene_variant,,ENST00000447850,;CASZ1,downstream_gene_variant,,ENST00000344008,;RP4-734G22.3,intron_variant,,ENST00000606802,;CASZ1,downstream_gene_variant,,ENST00000490176,;	T	ENSG00000130940	ENST00000377022	Transcript	missense_variant	3858	3540	1180	F/L	ttC/ttA	.	.	.	-1	CASZ1	HGNC	26002	protein_coding	YES	CCDS41246.1	ENSP00000366221	CASZ1_HUMAN	.	UPI0000EBB7D6	.	deleterious(0.02)	probably_damaging(0.998)	17/21	.	hmmpanther:PTHR12451	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTGGAACTT	.	5	BLCA
SLC25A24	0	.	GRCh37	1	108700128	108700128	+	Nonsense_Mutation	SNP	G	G	A	rs145306696	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.625C>T	p.Arg209Ter	p.R209*	ENST00000565488	5/10	73	53	19	57	57	0	SLC25A24,stop_gained,p.Arg209Ter,ENST00000565488,;SLC25A24,stop_gained,p.Arg190Ter,ENST00000370041,;SLC25A24,3_prime_UTR_variant,,ENST00000264128,;	A	ENSG00000085491	ENST00000565488	Transcript	stop_gained	845	625	209	R/*	Cga/Tga	rs145306696	.	.	-1	SLC25A24	HGNC	20662	protein_coding	YES	CCDS41361.1	ENSP00000457733	SCMC1_HUMAN	.	UPI0000206111	.	.	.	5/10	.	Prints_domain:PR00928,Prints_domain:PR00926,Superfamily_domains:0048588,Pfam_domain:PF00153,Gene3D:1okcA00,hmmpanther:PTHR24089:SF262,hmmpanther:PTHR24089,PROSITE_profiles:PS50920	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTCGAGAGA	byCluster	5	BLCA
GNAI3	0	.	GRCh37	1	110129495	110129495	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865G>C	p.Glu289Gln	p.E289Q	ENST00000369851	7/9	50	38	12	41	41	0	GNAI3,missense_variant,p.Glu289Gln,ENST00000369851,;RNU6V,downstream_gene_variant,,ENST00000384105,;	C	ENSG00000065135	ENST00000369851	Transcript	missense_variant	975	865	289	E/Q	Gaa/Caa	.	.	.	1	GNAI3	HGNC	4387	protein_coding	YES	CCDS802.1	ENSP00000358867	GNAI3_HUMAN	Q5TZX1_HUMAN,C9J2Z2_HUMAN	UPI000004D205	.	deleterious(0.01)	benign(0.127)	7/9	.	hmmpanther:PTHR10218,hmmpanther:PTHR10218:SF173,Pfam_domain:PF00503,Gene3D:3.40.50.300,SMART_domains:SM00275,Superfamily_domains:SSF52540,Prints_domain:PR00441	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAATAC	.	5	BLCA
CSF1	0	.	GRCh37	1	110458295	110458295	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.202G>C	p.Glu68Gln	p.E68Q	ENST00000329608	3/9	112	90	22	89	88	0	CSF1,missense_variant,p.Glu27Gln,ENST00000488198,;CSF1,missense_variant,p.Glu68Gln,ENST00000420111,;CSF1,missense_variant,p.Glu75Gln,ENST00000527192,;CSF1,missense_variant,p.Glu68Gln,ENST00000369801,;CSF1,missense_variant,p.Glu68Gln,ENST00000329608,;CSF1,missense_variant,p.Glu68Gln,ENST00000369802,;CSF1,missense_variant,p.Glu27Gln,ENST00000525659,;CSF1,missense_variant,p.Glu68Gln,ENST00000357302,;CSF1,missense_variant,p.Glu68Gln,ENST00000344188,;CSF1,non_coding_transcript_exon_variant,,ENST00000526001,;	C	ENSG00000184371	ENST00000329608	Transcript	missense_variant	593	202	68	E/Q	Gag/Cag	.	.	.	1	CSF1	HGNC	2432	protein_coding	YES	CCDS816.1	ENSP00000327513	CSF1_HUMAN	H7BY18_HUMAN,E9PKP4_HUMAN	UPI00001AFA6F	.	tolerated(0.08)	benign(0.198)	3/9	.	Superfamily_domains:SSF47266,PIRSF_domain:PIRSF001948,Pfam_domain:PF05337,hmmpanther:PTHR10058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTGAGTTT	.	5	BLCA
TTF2	0	.	GRCh37	1	117617968	117617968	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762G>C	p.%3D	p.L254L	ENST00000369466	5/23	186	150	35	122	122	0	TTF2,synonymous_variant,p.%3D,ENST00000369466,;TTF2,non_coding_transcript_exon_variant,,ENST00000469638,;TTF2,non_coding_transcript_exon_variant,,ENST00000470935,;	C	ENSG00000116830	ENST00000369466	Transcript	synonymous_variant	806	762	254	L	ctG/ctC	.	.	.	1	TTF2	HGNC	12398	protein_coding	YES	CCDS892.1	ENSP00000358478	TTF2_HUMAN	.	UPI000013CCE7	.	.	.	5/23	.	hmmpanther:PTHR10799:SF573,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTGAGAGA	.	5	BLCA
ITGA10	0	.	GRCh37	1	145537734	145537734	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2575-3C>T	.	.	ENST00000369304	.	65	49	15	32	32	0	ITGA10,splice_region_variant,,ENST00000538811,;ITGA10,splice_region_variant,,ENST00000539363,;ITGA10,splice_region_variant,,ENST00000369304,;RP11-315I20.3,downstream_gene_variant,,ENST00000415065,;	T	ENSG00000143127	ENST00000369304	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ITGA10	HGNC	6135	protein_coding	YES	CCDS918.1	ENSP00000358310	ITA10_HUMAN	.	UPI000013D8D1	.	.	.	.	20/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCAGAGA	.	4	BLCA
TCHH	0	.	GRCh37	1	152085036	152085036	+	Silent	SNP	C	C	T	rs201915759	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657G>A	p.%3D	p.R219R	ENST00000368804	2/2	123	104	18	99	99	0	TCHH,synonymous_variant,p.%3D,ENST00000368804,;	T	ENSG00000159450	ENST00000368804	Transcript	synonymous_variant	657	657	219	R	agG/agA	rs201915759	.	.	-1	TCHH	HGNC	11791	protein_coding	YES	CCDS41396.1	ENSP00000357794	TRHY_HUMAN	Q5D861_HUMAN,A2RRS3_HUMAN	UPI0000458A5E	.	.	.	2/2	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCCTCAG	byCluster|by1000G	4	BLCA
PGLYRP3	0	.	GRCh37	1	153276439	153276439	+	Silent	SNP	G	G	T	rs139620883	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423C>A	p.%3D	p.I141I	ENST00000290722	4/7	55	48	7	37	37	0	PGLYRP3,synonymous_variant,p.%3D,ENST00000290722,;	T	ENSG00000159527	ENST00000290722	Transcript	synonymous_variant	476	423	141	I	atC/atA	rs139620883	.	.	-1	PGLYRP3	HGNC	30014	protein_coding	YES	CCDS1035.1	ENSP00000290722	PGRP3_HUMAN	.	UPI000006F12B	.	.	.	4/7	.	hmmpanther:PTHR11022:SF28,hmmpanther:PTHR11022,Gene3D:3.40.80.10,Pfam_domain:PF01510,SMART_domains:SM00644,SMART_domains:SM00701,Superfamily_domains:SSF55846	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGGAGATCAG	.	4	BLCA
CHTOP	0	.	GRCh37	1	153615862	153615862	+	Intron	SNP	G	G	A	rs768813971	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541+22G>A	.	.	ENST00000368694	.	74	64	9	59	59	0	CHTOP,3_prime_UTR_variant,,ENST00000368686,;CHTOP,intron_variant,,ENST00000403433,;CHTOP,intron_variant,,ENST00000368690,;CHTOP,intron_variant,,ENST00000368687,;CHTOP,intron_variant,,ENST00000368694,;CHTOP,intron_variant,,ENST00000495554,;	A	ENSG00000160679	ENST00000368694	Transcript	intron_variant	.	.	.	.	.	rs768813971	.	.	1	CHTOP	HGNC	24511	protein_coding	YES	CCDS1048.1	ENSP00000357683	CHTOP_HUMAN	.	UPI00000467F6	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCAGAGAGT	byFrequency	4	BLCA
CRTC2	0	.	GRCh37	1	153921109	153921109	+	Silent	SNP	G	G	A	rs769443498	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1686C>T	p.%3D	p.F562F	ENST00000368633	13/14	64	47	16	64	64	0	CRTC2,synonymous_variant,p.%3D,ENST00000368633,;CRTC2,synonymous_variant,p.%3D,ENST00000368630,;DENND4B,upstream_gene_variant,,ENST00000368646,;DENND4B,upstream_gene_variant,,ENST00000361217,;DENND4B,upstream_gene_variant,,ENST00000472932,;CRTC2,downstream_gene_variant,,ENST00000476883,;CRTC2,3_prime_UTR_variant,,ENST00000303569,;CRTC2,3_prime_UTR_variant,,ENST00000461638,;CRTC2,non_coding_transcript_exon_variant,,ENST00000487235,;CRTC2,downstream_gene_variant,,ENST00000467860,;CRTC2,downstream_gene_variant,,ENST00000524997,;CRTC2,downstream_gene_variant,,ENST00000493909,;	A	ENSG00000160741	ENST00000368633	Transcript	synonymous_variant	1814	1686	562	F	ttC/ttT	rs769443498	.	.	-1	CRTC2	HGNC	27301	protein_coding	YES	CCDS30875.1	ENSP00000357622	CRTC2_HUMAN	Q8WZ18_HUMAN,Q8N332_HUMAN	UPI00001A9468	.	.	.	13/14	.	hmmpanther:PTHR13589:SF6,hmmpanther:PTHR13589	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTGAACTG	.	5	BLCA
GON4L	0	.	GRCh37	1	155785648	155785648	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1109C>G	p.Ser370Ter	p.S370*	ENST00000437809	8/32	70	55	14	44	44	0	GON4L,stop_gained,p.Ser370Ter,ENST00000437809,;GON4L,stop_gained,p.Ser370Ter,ENST00000361040,;GON4L,stop_gained,p.Ser370Ter,ENST00000368331,;GON4L,stop_gained,p.Ser370Ter,ENST00000271883,;GON4L,non_coding_transcript_exon_variant,,ENST00000467009,;GON4L,non_coding_transcript_exon_variant,,ENST00000471341,;	C	ENSG00000116580	ENST00000437809	Transcript	stop_gained	1232	1109	370	S/*	tCa/tGa	COSM254704,COSM254705,COSM254706	.	.	-1	GON4L	HGNC	25973	protein_coding	YES	CCDS44242.1	ENSP00000396117	GON4L_HUMAN	Q9NXJ9_HUMAN	UPI0000603C24	.	.	.	8/32	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16088,hmmpanther:PTHR16088:SF10	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.S370L|c.1109C>T|3,CODON|p.S370L|c.1109C>T|3,CODON|p.S370L|c.1109C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTGAGGAA	.	5	BLCA
RAB25	0	.	GRCh37	1	156038135	156038135	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314G>A	p.Arg105Gln	p.R105Q	ENST00000361084	3/5	117	96	21	82	82	0	RAB25,missense_variant,p.Arg105Gln,ENST00000361084,;MEX3A,downstream_gene_variant,,ENST00000532414,;RAB25,non_coding_transcript_exon_variant,,ENST00000473336,;RAB25,non_coding_transcript_exon_variant,,ENST00000497968,;RAB25,non_coding_transcript_exon_variant,,ENST00000487325,;RAB25,downstream_gene_variant,,ENST00000463614,;	A	ENSG00000132698	ENST00000361084	Transcript	missense_variant	555	314	105	R/Q	cGa/cAa	.	.	.	1	RAB25	HGNC	18238	protein_coding	YES	CCDS41413.1	ENSP00000354376	RAB25_HUMAN	.	UPI0000073C4C	.	deleterious_low_confidence(0.01)	benign(0.349)	3/5	.	Superfamily_domains:SSF52540,SMART_domains:SM00175,SMART_domains:SM00173,SMART_domains:SM00174,SMART_domains:SM00176,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00071,Gene3D:3.40.50.300,hmmpanther:PTHR24073:SF319,hmmpanther:PTHR24073,PROSITE_profiles:PS51419	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGCGATGGC	.	5	BLCA
LMNA	0	.	GRCh37	1	156084823	156084823	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>T	p.%3D	p.L38L	ENST00000368300	1/12	10	4	6	8	8	0	LMNA,synonymous_variant,p.%3D,ENST00000368299,;LMNA,synonymous_variant,p.%3D,ENST00000347559,;LMNA,synonymous_variant,p.%3D,ENST00000368301,;LMNA,synonymous_variant,p.%3D,ENST00000361308,;LMNA,synonymous_variant,p.%3D,ENST00000368300,;LMNA,non_coding_transcript_exon_variant,,ENST00000469565,;LMNA,non_coding_transcript_exon_variant,,ENST00000470199,;LMNA,non_coding_transcript_exon_variant,,ENST00000478063,;LMNA,intron_variant,,ENST00000502751,;LMNA,downstream_gene_variant,,ENST00000515711,;	T	ENSG00000160789	ENST00000368300	Transcript	synonymous_variant	326	114	38	L	ctC/ctT	.	.	.	1	LMNA	HGNC	6636	protein_coding	YES	CCDS1129.1	ENSP00000357283	LMNA_HUMAN	Q5I6Y5_HUMAN	UPI000012E20D	.	.	.	1/12	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF158,hmmpanther:PTHR23239,Pfam_domain:PF00038,Superfamily_domains:SSF64593	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCTCAATGA	.	2	BLCA
LMNA	0	.	GRCh37	1	156105073	156105073	+	Silent	SNP	C	C	G	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906C>G	p.%3D	p.L302L	ENST00000368300	5/12	16	13	3	25	25	0	LMNA,synonymous_variant,p.%3D,ENST00000392353,;LMNA,synonymous_variant,p.%3D,ENST00000368299,;LMNA,synonymous_variant,p.%3D,ENST00000347559,;LMNA,synonymous_variant,p.%3D,ENST00000368301,;LMNA,synonymous_variant,p.%3D,ENST00000473598,;LMNA,synonymous_variant,p.%3D,ENST00000368297,;LMNA,synonymous_variant,p.%3D,ENST00000448611,;LMNA,synonymous_variant,p.%3D,ENST00000361308,;LMNA,synonymous_variant,p.%3D,ENST00000368300,;LMNA,upstream_gene_variant,,ENST00000508500,;LMNA,downstream_gene_variant,,ENST00000504687,;LMNA,non_coding_transcript_exon_variant,,ENST00000496738,;LMNA,downstream_gene_variant,,ENST00000502357,;LMNA,upstream_gene_variant,,ENST00000459904,;LMNA,downstream_gene_variant,,ENST00000502751,;LMNA,downstream_gene_variant,,ENST00000470199,;LMNA,downstream_gene_variant,,ENST00000469565,;LMNA,non_coding_transcript_exon_variant,,ENST00000515824,;LMNA,non_coding_transcript_exon_variant,,ENST00000368298,;LMNA,upstream_gene_variant,,ENST00000498722,;LMNA,upstream_gene_variant,,ENST00000506981,;LMNA,downstream_gene_variant,,ENST00000515459,;	G	ENSG00000160789	ENST00000368300	Transcript	synonymous_variant	1118	906	302	L	ctC/ctG	COSM3475155,COSM3475156	.	.	1	LMNA	HGNC	6636	protein_coding	YES	CCDS1129.1	ENSP00000357283	LMNA_HUMAN	Q5I6Y5_HUMAN	UPI000012E20D	.	.	.	5/12	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF158,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCTCTGC	.	2	BLCA
TSACC	0	.	GRCh37	1	156314442	156314442	+	Nonsense_Mutation	SNP	C	C	T	rs770270629	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.106C>T	p.Gln36Ter	p.Q36*	ENST00000368255	3/4	89	70	18	60	60	0	TSACC,stop_gained,p.Gln36Ter,ENST00000368252,;TSACC,stop_gained,p.Gln36Ter,ENST00000368253,;TSACC,stop_gained,p.Gln36Ter,ENST00000368251,;TSACC,stop_gained,p.Gln36Ter,ENST00000466306,;TSACC,stop_gained,p.Gln36Ter,ENST00000368255,;TSACC,stop_gained,p.Gln36Ter,ENST00000368254,;TSACC,stop_gained,p.Gln36Ter,ENST00000470342,;TSACC,stop_gained,p.Gln36Ter,ENST00000481479,;CCT3,intron_variant,,ENST00000446905,;CCT3,intron_variant,,ENST00000413555,;CCT3,intron_variant,,ENST00000463132,;	T	ENSG00000163467	ENST00000368255	Transcript	stop_gained	466	106	36	Q/*	Caa/Taa	rs770270629	.	.	1	TSACC	HGNC	30636	protein_coding	YES	CCDS1141.1	ENSP00000357238	TSACC_HUMAN	.	UPI000006FD49	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCAAGCA	byFrequency	5	BLCA
CADM3	0	.	GRCh37	1	159166906	159166906	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1054+56C>T	.	.	ENST00000368124	.	20	15	5	13	13	0	CADM3,intron_variant,,ENST00000368124,;CADM3,intron_variant,,ENST00000368125,;CADM3,downstream_gene_variant,,ENST00000416746,;CTA-134P22.2,non_coding_transcript_exon_variant,,ENST00000415675,;CTA-134P22.2,downstream_gene_variant,,ENST00000609696,;CADM3,intron_variant,,ENST00000497636,;	T	ENSG00000162706	ENST00000368124	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CADM3	HGNC	17601	protein_coding	YES	CCDS1182.1	ENSP00000357106	CADM3_HUMAN	.	UPI000006E8A2	.	.	.	.	8/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTCCCTTT	.	5	BLCA
CADM3	0	.	GRCh37	1	159170712	159170712	+	Nonstop_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1299G>C	p.Ter433TyrextTer128	p.*433Yext*128	ENST00000368124	10/10	40	32	7	36	36	0	CADM3,stop_lost,p.Ter433TyrextTer128,ENST00000368124,;CADM3,stop_lost,p.Ter399TyrextTer128,ENST00000368125,;DARC,upstream_gene_variant,,ENST00000537147,;DARC,upstream_gene_variant,,ENST00000435307,;DARC,upstream_gene_variant,,ENST00000368121,;CADM3,downstream_gene_variant,,ENST00000416746,;DARC,upstream_gene_variant,,ENST00000368122,;CTA-134P22.2,non_coding_transcript_exon_variant,,ENST00000415675,;CTA-134P22.2,downstream_gene_variant,,ENST00000609696,;CADM3,non_coding_transcript_exon_variant,,ENST00000497636,;	C	ENSG00000162706	ENST00000368124	Transcript	stop_lost	1456	1299	433	*/Y	taG/taC	COSM3863204	.	.	1	CADM3	HGNC	17601	protein_coding	YES	CCDS1182.1	ENSP00000357106	CADM3_HUMAN	.	UPI000006E8A2	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTAGAGGCG	.	5	BLCA
KCNJ10	0	.	GRCh37	1	160011558	160011558	+	Missense_Mutation	SNP	G	G	C	rs746776353	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765C>G	p.Phe255Leu	p.F255L	ENST00000368089	2/2	79	68	10	54	54	0	KCNJ10,missense_variant,p.Phe255Leu,ENST00000368089,;KCNJ10,intron_variant,,ENST00000509700,;	C	ENSG00000177807	ENST00000368089	Transcript	missense_variant	992	765	255	F/L	ttC/ttG	rs746776353	.	.	-1	KCNJ10	HGNC	6256	protein_coding	YES	CCDS1193.1	ENSP00000357068	IRK10_HUMAN	Q9BXC5_HUMAN	UPI000012D8A6	.	tolerated(0.63)	probably_damaging(0.983)	2/2	.	hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF21,Pfam_domain:PF01007,Gene3D:2.60.40.1400,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296,Prints_domain:PR01320	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATAGAAGGT	byFrequency	5	BLCA
KCNJ10	0	.	GRCh37	1	160011626	160011626	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.697C>T	p.Gln233Ter	p.Q233*	ENST00000368089	2/2	67	53	13	61	61	0	KCNJ10,stop_gained,p.Gln233Ter,ENST00000368089,;KCNJ10,splice_region_variant,,ENST00000509700,;	A	ENSG00000177807	ENST00000368089	Transcript	stop_gained	924	697	233	Q/*	Cag/Tag	.	.	.	-1	KCNJ10	HGNC	6256	protein_coding	YES	CCDS1193.1	ENSP00000357068	IRK10_HUMAN	Q9BXC5_HUMAN	UPI000012D8A6	.	.	.	2/2	.	hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF21,Pfam_domain:PF01007,Gene3D:2.60.40.1400,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296,Prints_domain:PR01322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACCTGGTTGA	.	3	BLCA
KCNJ10	0	.	GRCh37	1	160011630	160011630	+	Silent	SNP	G	G	A	rs779532834	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.693C>T	p.%3D	p.L231L	ENST00000368089	2/2	72	57	14	60	60	0	KCNJ10,synonymous_variant,p.%3D,ENST00000368089,;KCNJ10,non_coding_transcript_exon_variant,,ENST00000509700,;	A	ENSG00000177807	ENST00000368089	Transcript	synonymous_variant	920	693	231	L	ctC/ctT	rs779532834	.	.	-1	KCNJ10	HGNC	6256	protein_coding	YES	CCDS1193.1	ENSP00000357068	IRK10_HUMAN	Q9BXC5_HUMAN	UPI000012D8A6	.	.	.	2/2	.	hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF21,Pfam_domain:PF01007,Gene3D:2.60.40.1400,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296,Prints_domain:PR01322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGTTGAGCCG	.	3	BLCA
B4GALT3	0	.	GRCh37	1	161143525	161143525	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681-8C>G	.	.	ENST00000319769	.	60	46	14	43	43	0	B4GALT3,splice_region_variant,,ENST00000319769,;B4GALT3,splice_region_variant,,ENST00000367998,;PPOX,intron_variant,,ENST00000432542,;PPOX,intron_variant,,ENST00000535223,;PPOX,downstream_gene_variant,,ENST00000367999,;PPOX,downstream_gene_variant,,ENST00000352210,;PPOX,downstream_gene_variant,,ENST00000537523,;PPOX,downstream_gene_variant,,ENST00000544598,;PPOX,downstream_gene_variant,,ENST00000537829,;B4GALT3,splice_region_variant,,ENST00000466504,;B4GALT3,non_coding_transcript_exon_variant,,ENST00000470882,;PPOX,intron_variant,,ENST00000497522,;PPOX,intron_variant,,ENST00000495483,;B4GALT3,downstream_gene_variant,,ENST00000496313,;B4GALT3,downstream_gene_variant,,ENST00000482288,;B4GALT3,downstream_gene_variant,,ENST00000465740,;B4GALT3,downstream_gene_variant,,ENST00000460415,;B4GALT3,downstream_gene_variant,,ENST00000493164,;PPOX,downstream_gene_variant,,ENST00000462977,;PPOX,downstream_gene_variant,,ENST00000470607,;B4GALT3,downstream_gene_variant,,ENST00000467863,;PPOX,downstream_gene_variant,,ENST00000494216,;B4GALT3,downstream_gene_variant,,ENST00000487004,;B4GALT3,upstream_gene_variant,,ENST00000486938,;PPOX,downstream_gene_variant,,ENST00000460611,;PPOX,downstream_gene_variant,,ENST00000466452,;PPOX,downstream_gene_variant,,ENST00000462866,;PPOX,downstream_gene_variant,,ENST00000539753,;PPOX,downstream_gene_variant,,ENST00000541818,;	C	ENSG00000158850	ENST00000319769	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	B4GALT3	HGNC	926	protein_coding	YES	CCDS1222.1	ENSP00000320965	B4GT3_HUMAN	.	UPI0000070AD6	.	.	.	.	5/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGAGAGAAA	.	5	BLCA
ILDR2	0	.	GRCh37	1	166927022	166927022	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.363G>A	p.%3D	p.E121E	ENST00000271417	2/10	63	56	7	46	46	0	ILDR2,synonymous_variant,p.%3D,ENST00000526687,;ILDR2,synonymous_variant,p.%3D,ENST00000529387,;ILDR2,synonymous_variant,p.%3D,ENST00000271417,;ILDR2,synonymous_variant,p.%3D,ENST00000469934,;ILDR2,synonymous_variant,p.%3D,ENST00000525740,;ILDR2,synonymous_variant,p.%3D,ENST00000529071,;ILDR2,synonymous_variant,p.%3D,ENST00000528703,;	T	ENSG00000143195	ENST00000271417	Transcript	synonymous_variant	419	363	121	E	gaG/gaA	.	.	.	-1	ILDR2	HGNC	18131	protein_coding	YES	CCDS1256.1	ENSP00000271417	ILDR2_HUMAN	.	UPI00002317DF	.	.	.	2/10	.	hmmpanther:PTHR15923,hmmpanther:PTHR15923:SF0,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGATCTCTCT	.	2	BLCA
F5	0	.	GRCh37	1	169511747	169511747	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2581G>A	p.Glu861Lys	p.E861K	ENST00000367797	13/25	156	126	29	113	113	0	F5,missense_variant,p.Glu866Lys,ENST00000367796,;F5,missense_variant,p.Glu861Lys,ENST00000367797,;F5,downstream_gene_variant,,ENST00000546081,;	T	ENSG00000198734	ENST00000367797	Transcript	missense_variant	2783	2581	861	E/K	Gaa/Aaa	.	.	.	-1	F5	HGNC	3542	protein_coding	YES	CCDS1281.1	ENSP00000356771	FA5_HUMAN	Q8TD21_HUMAN,Q2HZZ1_HUMAN,Q1L610_HUMAN	UPI0000070F01	.	tolerated(0.29)	benign(0.02)	13/25	.	hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF597	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K858R|c.2573A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTTCTTGAC	.	5	BLCA
GNB1	0	.	GRCh37	1	1718796	1718796	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.997G>A	p.Asp333Asn	p.D333N	ENST00000378609	11/12	93	73	20	45	45	0	GNB1,missense_variant,p.Asp333Asn,ENST00000378609,;GNB1,downstream_gene_variant,,ENST00000439272,;GNB1,downstream_gene_variant,,ENST00000471354,;GNB1,downstream_gene_variant,,ENST00000461893,;	T	ENSG00000078369	ENST00000378609	Transcript	missense_variant	1329	997	333	D/N	Gat/Aat	.	.	.	-1	GNB1	HGNC	4396	protein_coding	YES	CCDS34.1	ENSP00000367872	GBB1_HUMAN	Q71UM7_HUMAN,Q71UM6_HUMAN,F6UT28_HUMAN,B3KVK2_HUMAN,B1AKQ8_HUMAN	UPI00000230B3	.	deleterious(0.04)	probably_damaging(0.943)	11/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR19850,Gene3D:2.130.10.10,Pfam_domain:PF00400,PIRSF_domain:PIRSF002394,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTATCCCAGG	.	3	BLCA
GNB1	0	.	GRCh37	1	1718829	1718829	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.964G>A	p.Asp322Asn	p.D322N	ENST00000378609	11/12	92	73	19	50	50	0	GNB1,missense_variant,p.Asp322Asn,ENST00000378609,;GNB1,downstream_gene_variant,,ENST00000439272,;GNB1,downstream_gene_variant,,ENST00000471354,;GNB1,downstream_gene_variant,,ENST00000461893,;	T	ENSG00000078369	ENST00000378609	Transcript	missense_variant	1296	964	322	D/N	Gac/Aac	.	.	.	-1	GNB1	HGNC	4396	protein_coding	YES	CCDS34.1	ENSP00000367872	GBB1_HUMAN	Q71UM7_HUMAN,Q71UM6_HUMAN,F6UT28_HUMAN,B3KVK2_HUMAN,B1AKQ8_HUMAN	UPI00000230B3	.	tolerated(0.16)	benign(0.091)	11/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR19850,Gene3D:2.130.10.10,Pfam_domain:PF00400,PIRSF_domain:PIRSF002394,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCGTCAGTCA	.	3	BLCA
TEDDM1	0	.	GRCh37	1	182369215	182369215	+	Missense_Mutation	SNP	C	C	G	rs755280239	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406G>C	p.Val136Leu	p.V136L	ENST00000367565	1/1	101	90	10	54	54	0	TEDDM1,missense_variant,p.Val136Leu,ENST00000367565,;	G	ENSG00000203730	ENST00000367565	Transcript	missense_variant	537	406	136	V/L	Gtg/Ctg	rs755280239	.	.	-1	TEDDM1	HGNC	30233	protein_coding	YES	CCDS30953.1	ENSP00000356536	TEDM1_HUMAN	.	UPI0000470B8B	.	tolerated(0.08)	benign(0.252)	1/1	.	Pfam_domain:PF04819,hmmpanther:PTHR16007:SF16,hmmpanther:PTHR16007,Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CACCACCAAGA	.	3	BLCA
KIF21B	0	.	GRCh37	1	200959349	200959349	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2947G>A	p.Glu983Lys	p.E983K	ENST00000422435	20/35	58	48	10	26	26	0	KIF21B,missense_variant,p.Glu983Lys,ENST00000422435,;KIF21B,missense_variant,p.Glu983Lys,ENST00000360529,;KIF21B,missense_variant,p.Glu983Lys,ENST00000461742,;KIF21B,missense_variant,p.Glu983Lys,ENST00000332129,;	T	ENSG00000116852	ENST00000422435	Transcript	missense_variant	3264	2947	983	E/K	Gag/Aag	.	.	.	-1	KIF21B	HGNC	29442	protein_coding	YES	CCDS58056.1	ENSP00000411831	KI21B_HUMAN	.	UPI0000153E7C	.	deleterious(0)	probably_damaging(0.986)	20/35	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24115:SF335,hmmpanther:PTHR24115,Superfamily_domains:SSF46579	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTCGATCT	.	4	BLCA
PPP1R15B	0	.	GRCh37	1	204380234	204380234	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306C>G	p.%3D	p.V102V	ENST00000367188	1/2	106	84	22	87	87	0	PPP1R15B,synonymous_variant,p.%3D,ENST00000367188,;RP11-739N20.2,intron_variant,,ENST00000443515,;	C	ENSG00000158615	ENST00000367188	Transcript	synonymous_variant	686	306	102	V	gtC/gtG	.	.	.	-1	PPP1R15B	HGNC	14951	protein_coding	YES	CCDS1445.1	ENSP00000356156	PR15B_HUMAN	.	UPI000013DF8B	.	.	.	1/2	.	hmmpanther:PTHR16489:SF9,hmmpanther:PTHR16489,Pfam_domain:PF10472	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTAGACTCC	.	5	BLCA
NFASC	0	.	GRCh37	1	204913470	204913470	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27G>A	p.Trp9Ter	p.W9*	ENST00000339876	3/30	14	10	3	18	18	0	NFASC,stop_gained,p.Trp9Ter,ENST00000404076,;NFASC,stop_gained,p.Trp9Ter,ENST00000403080,;NFASC,stop_gained,p.Trp9Ter,ENST00000367170,;NFASC,stop_gained,p.Trp9Ter,ENST00000446412,;NFASC,stop_gained,p.Trp9Ter,ENST00000338515,;NFASC,stop_gained,p.Trp9Ter,ENST00000505079,;NFASC,stop_gained,p.Trp9Ter,ENST00000360049,;NFASC,stop_gained,p.Trp9Ter,ENST00000401399,;NFASC,stop_gained,p.Trp9Ter,ENST00000404907,;NFASC,stop_gained,p.Trp9Ter,ENST00000367171,;NFASC,stop_gained,p.Trp9Ter,ENST00000539706,;NFASC,stop_gained,p.Trp9Ter,ENST00000339876,;NFASC,stop_gained,p.Trp9Ter,ENST00000513543,;NFASC,stop_gained,p.Trp9Ter,ENST00000367169,;NFASC,stop_gained,p.Trp9Ter,ENST00000367172,;NFASC,stop_gained,p.Trp9Ter,ENST00000338586,;NFASC,upstream_gene_variant,,ENST00000430393,;NFASC,non_coding_transcript_exon_variant,,ENST00000404977,;NFASC,non_coding_transcript_exon_variant,,ENST00000493914,;NFASC,stop_gained,p.Trp9Ter,ENST00000504476,;NFASC,non_coding_transcript_exon_variant,,ENST00000514644,;RP11-494K3.2,upstream_gene_variant,,ENST00000452580,;	A	ENSG00000163531	ENST00000339876	Transcript	stop_gained	355	27	9	W/*	tgG/tgA	.	.	.	1	NFASC	HGNC	29866	protein_coding	YES	CCDS53460.1	ENSP00000344786	NFASC_HUMAN	D6RHX4_HUMAN	UPI0000237208	.	.	.	3/30	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	CCCTGGGTCCA	.	4	BLCA
PROX1	0	.	GRCh37	1	214170240	214170240	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362C>T	p.Ser121Phe	p.S121F	ENST00000366958	2/5	79	66	12	65	65	0	PROX1,missense_variant,p.Ser121Phe,ENST00000498508,;PROX1,missense_variant,p.Ser121Phe,ENST00000366958,;PROX1,missense_variant,p.Ser121Phe,ENST00000607425,;PROX1,missense_variant,p.Ser121Phe,ENST00000471129,;PROX1,missense_variant,p.Ser121Phe,ENST00000261454,;PROX1,missense_variant,p.Ser121Phe,ENST00000435016,;	T	ENSG00000117707	ENST00000366958	Transcript	missense_variant	970	362	121	S/F	tCc/tTc	COSM3483215	.	.	1	PROX1	HGNC	9459	protein_coding	YES	CCDS31021.1	ENSP00000355925	PROX1_HUMAN	U3KPY6_HUMAN,C9JU29_HUMAN,B4DP41_HUMAN	UPI0000071D14	.	deleterious(0.02)	possibly_damaging(0.873)	2/5	.	hmmpanther:PTHR12198:SF2,hmmpanther:PTHR12198	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTCCGAAG	.	5	BLCA
SUSD4	0	.	GRCh37	1	223395498	223395498	+	3'UTR	SNP	G	G	A	rs778355476	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*36C>T	.	.	ENST00000343846	8/8	152	127	25	102	102	0	SUSD4,3_prime_UTR_variant,,ENST00000608996,;SUSD4,3_prime_UTR_variant,,ENST00000343846,;SUSD4,3_prime_UTR_variant,,ENST00000454695,;SUSD4,3_prime_UTR_variant,,ENST00000484758,;SUSD4,3_prime_UTR_variant,,ENST00000366878,;SUSD4,intron_variant,,ENST00000494793,;SUSD4,non_coding_transcript_exon_variant,,ENST00000478605,;SUSD4,downstream_gene_variant,,ENST00000483818,;	A	ENSG00000143502	ENST00000343846	Transcript	3_prime_UTR_variant	2143	.	.	.	.	rs778355476	.	.	-1	SUSD4	HGNC	25470	protein_coding	YES	CCDS41471.1	ENSP00000344219	SUSD4_HUMAN	B7Z469_HUMAN	UPI0000205CB5	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCCGAAGGA	byFrequency	4	BLCA
CAPN2	0	.	GRCh37	1	223940629	223940629	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1106C>T	p.Ser369Phe	p.S369F	ENST00000295006	9/21	102	80	21	72	72	0	CAPN2,missense_variant,p.Ser291Phe,ENST00000433674,;CAPN2,missense_variant,p.Ser369Phe,ENST00000295006,;CAPN2,non_coding_transcript_exon_variant,,ENST00000480581,;CAPN2,downstream_gene_variant,,ENST00000483579,;CAPN2,upstream_gene_variant,,ENST00000474026,;	T	ENSG00000162909	ENST00000295006	Transcript	missense_variant	1415	1106	369	S/F	tCc/tTc	.	.	.	1	CAPN2	HGNC	1479	protein_coding	YES	CCDS31035.1	ENSP00000295006	CAN2_HUMAN	.	UPI000059D0B9	.	deleterious(0)	probably_damaging(0.974)	9/21	.	hmmpanther:PTHR10183:SF268,hmmpanther:PTHR10183,Gene3D:2.60.120.380,Pfam_domain:PF01067,SMART_domains:SM00720,Superfamily_domains:SSF49758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCCACCG	.	5	BLCA
RYR2	0	.	GRCh37	1	237947771	237947771	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12759G>C	p.Leu4253Phe	p.L4253F	ENST00000366574	90/105	42	36	5	24	24	0	RYR2,missense_variant,p.Leu4237Phe,ENST00000542537,;RYR2,missense_variant,p.Leu4253Phe,ENST00000366574,;RYR2,missense_variant,p.Leu4259Phe,ENST00000360064,;RYR2,non_coding_transcript_exon_variant,,ENST00000609119,;	C	ENSG00000198626	ENST00000366574	Transcript	missense_variant	13076	12759	4253	L/F	ttG/ttC	.	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	benign(0.004)	90/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTGACCCT	.	4	BLCA
AHCTF1	0	.	GRCh37	1	247079667	247079667	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.179G>A	p.Gly60Asp	p.G60D	ENST00000326225	3/36	35	27	8	46	46	0	AHCTF1,missense_variant,p.Gly51Asp,ENST00000391829,;AHCTF1,missense_variant,p.Gly86Asp,ENST00000366508,;AHCTF1,missense_variant,p.Gly51Asp,ENST00000478568,;AHCTF1,missense_variant,p.Gly60Asp,ENST00000326225,;	T	ENSG00000153207	ENST00000326225	Transcript	missense_variant	276	179	60	G/D	gGt/gAt	.	.	.	-1	AHCTF1	HGNC	24618	protein_coding	YES	CCDS1629.2	ENSP00000355465	ELYS_HUMAN	C9J5C5_HUMAN	UPI0000204034	.	deleterious(0.04)	probably_damaging(0.977)	3/36	.	hmmpanther:PTHR21583	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGACCACAA	.	5	BLCA
OR2M2	0	.	GRCh37	1	248343431	248343431	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.144C>T	p.%3D	p.L48L	ENST00000359682	1/1	265	212	52	219	219	0	OR2M2,synonymous_variant,p.%3D,ENST00000359682,;	T	ENSG00000198601	ENST00000359682	Transcript	synonymous_variant	144	144	48	L	ctC/ctT	.	.	.	1	OR2M2	HGNC	8268	protein_coding	YES	CCDS31106.1	ENSP00000352710	OR2M2_HUMAN	.	UPI00001612E4	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF204,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCATCTA	.	4	BLCA
UBXN11	0	.	GRCh37	1	26644666	26644666	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-277C>G	.	.	ENST00000374222	1/16	29	21	8	23	23	0	UBXN11,5_prime_UTR_variant,,ENST00000374222,;UBXN11,5_prime_UTR_variant,,ENST00000374217,;CD52,intron_variant,,ENST00000374213,;AIM1L,downstream_gene_variant,,ENST00000308182,;AIM1L,downstream_gene_variant,,ENST00000527815,;CD52,intron_variant,,ENST00000492808,;CD52,intron_variant,,ENST00000470468,;AIM1L,downstream_gene_variant,,ENST00000374211,;AIM1L,downstream_gene_variant,,ENST00000374208,;	C	ENSG00000158062	ENST00000374222	Transcript	5_prime_UTR_variant	189	.	.	.	.	.	.	.	-1	UBXN11	HGNC	30600	protein_coding	YES	CCDS41288.1	ENSP00000363339	UBX11_HUMAN	.	UPI00004700E1	.	.	.	1/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTGAGAGC	.	5	BLCA
CD164L2	0	.	GRCh37	1	27706475	27706475	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*62C>T	.	.	ENST00000374027	5/5	92	83	9	75	75	0	CD164L2,3_prime_UTR_variant,,ENST00000374027,;CD164L2,intron_variant,,ENST00000374030,;CD164L2,downstream_gene_variant,,ENST00000374025,;	A	ENSG00000174950	ENST00000374027	Transcript	3_prime_UTR_variant	648	.	.	.	.	.	.	.	-1	CD164L2	HGNC	32043	protein_coding	YES	CCDS302.1	ENSP00000363139	C16L2_HUMAN	.	UPI000004BA78	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAGGGGAACGG	.	3	BLCA
SESN2	0	.	GRCh37	1	28599209	28599209	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>A	p.Glu219Lys	p.E219K	ENST00000253063	5/10	82	70	12	36	36	0	SESN2,missense_variant,p.Glu219Lys,ENST00000253063,;	A	ENSG00000130766	ENST00000253063	Transcript	missense_variant	976	655	219	E/K	Gag/Aag	.	.	.	1	SESN2	HGNC	20746	protein_coding	YES	CCDS321.1	ENSP00000253063	SESN2_HUMAN	.	UPI0000001C01	.	tolerated(0.07)	benign(0.43)	5/10	.	hmmpanther:PTHR12474:SF2,hmmpanther:PTHR12474,Pfam_domain:PF04636,Gene3D:1.20.1290.10,Superfamily_domains:SSF69118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTGAGGGG	.	4	BLCA
PUM1	0	.	GRCh37	1	31421979	31421979	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2856+995C>T	.	.	ENST00000426105	.	27	22	5	24	24	0	PUM1,intron_variant,,ENST00000426105,;PUM1,intron_variant,,ENST00000424085,;PUM1,intron_variant,,ENST00000423018,;PUM1,intron_variant,,ENST00000257075,;PUM1,intron_variant,,ENST00000525843,;PUM1,intron_variant,,ENST00000373747,;PUM1,intron_variant,,ENST00000373742,;PUM1,intron_variant,,ENST00000440538,;PUM1,intron_variant,,ENST00000525997,;PUM1,intron_variant,,ENST00000373741,;PUM1,intron_variant,,ENST00000529846,;PUM1,intron_variant,,ENST00000498419,;SNORD103B,non_coding_transcript_exon_variant,,ENST00000365237,;PUM1,intron_variant,,ENST00000527498,;PUM1,upstream_gene_variant,,ENST00000530669,;	A	ENSG00000134644	ENST00000426105	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PUM1	HGNC	14957	protein_coding	YES	CCDS44099.1	ENSP00000391723	PUM1_HUMAN	E9PL65_HUMAN	UPI0000203D8E	.	.	.	.	17/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	AACTTGAGTCC	.	2	BLCA
TXLNA	0	.	GRCh37	1	32658299	32658299	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1125G>A	p.%3D	p.L375L	ENST00000373609	7/10	63	53	10	51	51	0	TXLNA,synonymous_variant,p.%3D,ENST00000373609,;TXLNA,synonymous_variant,p.%3D,ENST00000373610,;	A	ENSG00000084652	ENST00000373609	Transcript	synonymous_variant	1406	1125	375	L	ctG/ctA	.	.	.	1	TXLNA	HGNC	30685	protein_coding	YES	CCDS353.1	ENSP00000362711	TXLNA_HUMAN	.	UPI000000D7D9	.	.	.	7/10	.	hmmpanther:PTHR16127,hmmpanther:PTHR16127:SF12,Pfam_domain:PF09728	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTGATGAA	.	4	BLCA
IQCC	0	.	GRCh37	1	32672200	32672200	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.517G>C	p.Glu173Gln	p.E173Q	ENST00000537469	3/5	87	81	6	68	68	0	IQCC,missense_variant,p.Glu93Gln,ENST00000291358,;IQCC,missense_variant,p.Glu173Gln,ENST00000537469,;CCDC28B,downstream_gene_variant,,ENST00000373602,;DCDC2B,upstream_gene_variant,,ENST00000409358,;CCDC28B,downstream_gene_variant,,ENST00000421922,;RP4-622L5.7,intron_variant,,ENST00000421616,;RP4-622L5.7,upstream_gene_variant,,ENST00000373604,;CCDC28B,downstream_gene_variant,,ENST00000483009,;CCDC28B,downstream_gene_variant,,ENST00000469003,;CCDC28B,downstream_gene_variant,,ENST00000461819,;DCDC2B,upstream_gene_variant,,ENST00000487056,;	C	ENSG00000160051	ENST00000537469	Transcript	missense_variant	564	517	173	E/Q	Gag/Cag	COSM534948,COSM1648521	.	.	1	IQCC	HGNC	25545	protein_coding	YES	CCDS53293.1	ENSP00000442291	IQCC_HUMAN	.	UPI0001A42065	.	deleterious(0.03)	probably_damaging(0.996)	3/5	.	hmmpanther:PTHR16049	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTCTGAGGGA	.	2	BLCA
LCK	0	.	GRCh37	1	32739964	32739964	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34G>A	p.Asp12Asn	p.D12N	ENST00000336890	2/13	86	73	12	49	49	0	LCK,missense_variant,p.Asp12Asn,ENST00000373562,;LCK,missense_variant,p.Asp12Asn,ENST00000495610,;LCK,missense_variant,p.Asp56Asn,ENST00000373557,;LCK,missense_variant,p.Asp56Asn,ENST00000477031,;LCK,missense_variant,p.Asp12Asn,ENST00000333070,;LCK,missense_variant,p.Asp12Asn,ENST00000336890,;LCK,missense_variant,p.Asp12Asn,ENST00000461712,;LCK,missense_variant,p.Asp12Asn,ENST00000373564,;LCK,missense_variant,p.Asp12Asn,ENST00000482949,;LCK,non_coding_transcript_exon_variant,,ENST00000469765,;LCK,non_coding_transcript_exon_variant,,ENST00000476457,;LCK,non_coding_transcript_exon_variant,,ENST00000355928,;LCK,upstream_gene_variant,,ENST00000469956,;	A	ENSG00000182866	ENST00000336890	Transcript	missense_variant	172	34	12	D/N	Gac/Aac	COSM3488116,COSM3488114,COSM3488115	.	.	1	LCK	HGNC	6524	protein_coding	YES	CCDS359.1	ENSP00000337825	LCK_HUMAN	F8W6B9_HUMAN,B3KUV3_HUMAN	UPI0000151F17	.	tolerated_low_confidence(0.13)	benign(0.33)	2/13	.	hmmpanther:PTHR24418:SF204,hmmpanther:PTHR24418	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATGACTGG	.	5	BLCA
MACF1	0	.	GRCh37	1	39796965	39796965	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4629+3940G>C	.	.	ENST00000545844	.	51	39	11	44	44	0	MACF1,missense_variant,p.Asp9His,ENST00000289893,;MACF1,missense_variant,p.Asp1569His,ENST00000564288,;MACF1,missense_variant,p.Asp1574His,ENST00000372915,;MACF1,missense_variant,p.Asp1606His,ENST00000567887,;MACF1,intron_variant,,ENST00000372925,;MACF1,intron_variant,,ENST00000361689,;MACF1,intron_variant,,ENST00000530262,;MACF1,intron_variant,,ENST00000539005,;MACF1,intron_variant,,ENST00000317713,;MACF1,intron_variant,,ENST00000545844,;MACF1,intron_variant,,ENST00000476350,;MACF1,downstream_gene_variant,,ENST00000528611,;MACF1,downstream_gene_variant,,ENST00000496804,;	C	ENSG00000127603	ENST00000545844	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	.	.	36/93	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAAGACACA	.	5	BLCA
MACF1	0	.	GRCh37	1	39824490	39824490	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5879C>T	p.Ser1960Leu	p.S1960L	ENST00000545844	41/94	57	42	15	45	45	0	MACF1,missense_variant,p.Ser1094Leu,ENST00000372925,;MACF1,missense_variant,p.Ser1960Leu,ENST00000361689,;MACF1,missense_variant,p.Ser2462Leu,ENST00000289893,;MACF1,missense_variant,p.Ser4022Leu,ENST00000564288,;MACF1,missense_variant,p.Ser1960Leu,ENST00000539005,;MACF1,missense_variant,p.Ser4027Leu,ENST00000372915,;MACF1,missense_variant,p.Ser1960Leu,ENST00000317713,;MACF1,missense_variant,p.Ser4059Leu,ENST00000567887,;MACF1,missense_variant,p.Ser1960Leu,ENST00000545844,;MACF1,downstream_gene_variant,,ENST00000530262,;MACF1,non_coding_transcript_exon_variant,,ENST00000476350,;	T	ENSG00000127603	ENST00000545844	Transcript	missense_variant	5987	5879	1960	S/L	tCa/tTa	COSM1473955,COSM1473956	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	benign(0.02)	41/94	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Gene3D:1.20.58.60,Pfam_domain:PF00435,hmmpanther:PTHR11915:SF37,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGATA	.	5	BLCA
KDM4A	0	.	GRCh37	1	44169751	44169751	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3022G>A	p.Glu1008Lys	p.E1008K	ENST00000372396	21/22	109	97	12	76	76	0	KDM4A,missense_variant,p.Glu1008Lys,ENST00000372396,;ST3GAL3,upstream_gene_variant,,ENST00000353126,;ST3GAL3,upstream_gene_variant,,ENST00000372375,;ST3GAL3,upstream_gene_variant,,ENST00000347631,;ST3GAL3,upstream_gene_variant,,ENST00000351035,;ST3GAL3,upstream_gene_variant,,ENST00000262915,;ST3GAL3,upstream_gene_variant,,ENST00000361400,;ST3GAL3,upstream_gene_variant,,ENST00000372374,;ST3GAL3,upstream_gene_variant,,ENST00000372377,;ST3GAL3,upstream_gene_variant,,ENST00000330208,;ST3GAL3,upstream_gene_variant,,ENST00000545417,;ST3GAL3,upstream_gene_variant,,ENST00000335430,;ST3GAL3,upstream_gene_variant,,ENST00000361392,;KDM4A-AS1,intron_variant,,ENST00000434346,;KDM4A-AS1,intron_variant,,ENST00000398804,;KDM4A-AS1,intron_variant,,ENST00000439057,;KDM4A-AS1,intron_variant,,ENST00000453015,;KDM4A-AS1,downstream_gene_variant,,ENST00000418149,;ST3GAL3,upstream_gene_variant,,ENST00000484868,;ST3GAL3,upstream_gene_variant,,ENST00000532911,;ST3GAL3,upstream_gene_variant,,ENST00000530154,;ST3GAL3,upstream_gene_variant,,ENST00000461066,;ST3GAL3,upstream_gene_variant,,ENST00000479383,;ST3GAL3,upstream_gene_variant,,ENST00000489897,;	A	ENSG00000066135	ENST00000372396	Transcript	missense_variant	3156	3022	1008	E/K	Gaa/Aaa	.	.	.	1	KDM4A	HGNC	22978	protein_coding	YES	CCDS491.1	ENSP00000361473	KDM4A_HUMAN	B4DGH3_HUMAN	UPI000013D35A	.	deleterious(0)	possibly_damaging(0.899)	21/22	.	hmmpanther:PTHR10694:SF36,hmmpanther:PTHR10694,SMART_domains:SM00333,Superfamily_domains:SSF63748	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATGAAGAG	.	4	BLCA
PIK3R3	0	.	GRCh37	1	46532696	46532696	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382C>G	p.Leu128Val	p.L128V	ENST00000262741	4/10	131	112	18	76	76	0	PIK3R3,missense_variant,p.Leu128Val,ENST00000372006,;PIK3R3,missense_variant,p.Leu128Val,ENST00000423209,;PIK3R3,missense_variant,p.Leu128Val,ENST00000420542,;PIK3R3,missense_variant,p.Leu128Val,ENST00000425892,;PIK3R3,missense_variant,p.Leu128Val,ENST00000262741,;PIK3R3,missense_variant,p.Leu92Val,ENST00000340332,;PIK3R3,missense_variant,p.Leu174Val,ENST00000540385,;PIK3R3,missense_variant,p.Leu128Val,ENST00000354242,;PIK3R3,non_coding_transcript_exon_variant,,ENST00000493202,;	C	ENSG00000117461	ENST00000262741	Transcript	missense_variant	1072	382	128	L/V	Ctg/Gtg	.	.	.	-1	PIK3R3	HGNC	8981	protein_coding	YES	CCDS529.1	ENSP00000262741	P55G_HUMAN	Q9UMI3_HUMAN,Q5T4P3_HUMAN	UPI000013D318	.	deleterious(0.01)	probably_damaging(0.999)	4/10	.	Prints_domain:PR00678,Superfamily_domains:SSF55550,SMART_domains:SM00252,Gene3D:3.30.505.10,Pfam_domain:PF00017,hmmpanther:PTHR10155,PROSITE_profiles:PS50001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCAGAGGAT	.	4	BLCA
ATPAF1	0	.	GRCh37	1	47131005	47131005	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>C	p.Glu123Gln	p.E123Q	ENST00000576409	2/9	47	37	10	32	32	0	ATPAF1,missense_variant,p.Glu12Gln,ENST00000532925,;ATPAF1,missense_variant,p.Glu100Gln,ENST00000371937,;EFCAB14,missense_variant,p.Trp384Cys,ENST00000544071,;ATPAF1,missense_variant,p.Glu100Gln,ENST00000574428,;ATPAF1,missense_variant,p.Glu123Gln,ENST00000329231,;ATPAF1,missense_variant,p.Glu123Gln,ENST00000576409,;ATPAF1,missense_variant,p.Glu14Gln,ENST00000526821,;ATPAF1,5_prime_UTR_variant,,ENST00000542495,;TEX38,upstream_gene_variant,,ENST00000564071,;ATPAF1,non_coding_transcript_exon_variant,,ENST00000525633,;ATPAF1,missense_variant,p.Glu53Gln,ENST00000487193,;ATPAF1,missense_variant,p.Glu12Gln,ENST00000529214,;ATPAF1,non_coding_transcript_exon_variant,,ENST00000474020,;ATPAF1,non_coding_transcript_exon_variant,,ENST00000460928,;RP11-8J9.1,downstream_gene_variant,,ENST00000419476,;	G	ENSG00000123472	ENST00000576409	Transcript	missense_variant	430	367	123	E/Q	Gag/Cag	.	.	.	-1	ATPAF1	HGNC	18803	protein_coding	YES	CCDS541.2	ENSP00000460964	.	I3L448_HUMAN	UPI000222BB4E	.	deleterious(0.04)	possibly_damaging(0.729)	2/9	.	Pfam_domain:PF06644,hmmpanther:PTHR13126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCCAGGC	.	5	BLCA
CYP4X1	0	.	GRCh37	1	47505149	47505149	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1018G>A	p.Glu340Lys	p.E340K	ENST00000371901	8/12	39	30	9	31	31	0	CYP4X1,missense_variant,p.Glu340Lys,ENST00000371901,;CYP4X1,missense_variant,p.Glu339Lys,ENST00000538609,;CYP4X1,non_coding_transcript_exon_variant,,ENST00000466294,;	A	ENSG00000186377	ENST00000371901	Transcript	missense_variant	1268	1018	340	E/K	Gag/Aag	.	.	.	1	CYP4X1	HGNC	20244	protein_coding	YES	CCDS544.1	ENSP00000360968	CP4X1_HUMAN	.	UPI000003F043	.	tolerated(0.08)	benign(0.101)	8/12	.	hmmpanther:PTHR24290:SF6,hmmpanther:PTHR24290,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCAAGAGAGA	.	5	BLCA
KANK4	0	.	GRCh37	1	62739378	62739378	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1398G>C	p.Gln466His	p.Q466H	ENST00000371153	3/10	147	120	27	105	105	0	KANK4,missense_variant,p.Gln466His,ENST00000371153,;KANK4,intron_variant,,ENST00000354381,;KANK4,upstream_gene_variant,,ENST00000371150,;	G	ENSG00000132854	ENST00000371153	Transcript	missense_variant	1777	1398	466	Q/H	caG/caC	.	.	.	-1	KANK4	HGNC	27263	protein_coding	YES	CCDS620.1	ENSP00000360195	KANK4_HUMAN	B1ALP6_HUMAN,B1ALP5_HUMAN	UPI000022AE73	.	tolerated(0.14)	benign(0.048)	3/10	.	hmmpanther:PTHR24168,hmmpanther:PTHR24168:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCTGATT	.	5	BLCA
FAM73A	0	.	GRCh37	1	78340626	78340626	+	Silent	SNP	C	C	G	rs375168306	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1776C>G	p.%3D	p.L592L	ENST00000370791	16/16	59	50	8	61	61	0	FAM73A,synonymous_variant,p.%3D,ENST00000443751,;FAM73A,synonymous_variant,p.%3D,ENST00000370791,;	G	ENSG00000180488	ENST00000370791	Transcript	synonymous_variant	1808	1776	592	L	ctC/ctG	rs375168306	.	.	1	FAM73A	HGNC	24741	protein_coding	YES	CCDS681.1	ENSP00000359827	FA73A_HUMAN	R4GMP2_HUMAN,B7ZLZ8_HUMAN	UPI00000722C6	.	.	.	16/16	.	hmmpanther:PTHR21508:SF3,hmmpanther:PTHR21508,Pfam_domain:PF10265	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACTCATTCG	byCluster	5	BLCA
COL24A1	0	.	GRCh37	1	86591886	86591886	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133C>G	p.Leu45Val	p.L45V	ENST00000370571	3/60	47	41	6	38	38	0	COL24A1,missense_variant,p.Leu45Val,ENST00000436319,;COL24A1,missense_variant,p.Leu45Val,ENST00000496682,;COL24A1,missense_variant,p.Leu45Val,ENST00000370571,;COL24A1,missense_variant,p.Leu45Val,ENST00000426639,;	C	ENSG00000171502	ENST00000370571	Transcript	missense_variant	500	133	45	L/V	Ctt/Gtt	.	.	.	-1	COL24A1	HGNC	20821	protein_coding	YES	CCDS41353.1	ENSP00000359603	COOA1_HUMAN	E9PNK8_HUMAN	UPI000013E81F	.	deleterious(0)	probably_damaging(0.994)	3/60	.	Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAAGAATAT	.	2	BLCA
RP4-651E10.4	0	.	GRCh37	1	87104624	87104624	+	Intron	SNP	C	C	G	rs755491096	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.294+8996G>C	.	.	ENST00000456587	.	67	57	10	68	68	0	RP4-651E10.4,intron_variant,,ENST00000456587,;CLCA3P,non_coding_transcript_exon_variant,,ENST00000466454,;CLCA3P,non_coding_transcript_exon_variant,,ENST00000284054,;CLCA3P,non_coding_transcript_exon_variant,,ENST00000490028,;	G	ENSG00000236915	ENST00000456587	Transcript	intron_variant	.	.	.	.	.	rs755491096	.	.	-1	RP4-651E10.4	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCAAAGA	byFrequency	5	BLCA
LRRC8B	0	.	GRCh37	1	90048718	90048718	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509C>T	p.Ser170Leu	p.S170L	ENST00000330947	5/6	103	85	18	60	60	0	LRRC8B,missense_variant,p.Ser170Leu,ENST00000439853,;LRRC8B,missense_variant,p.Ser170Leu,ENST00000330947,;LRRC8B,missense_variant,p.Ser170Leu,ENST00000358200,;LRRC8B,downstream_gene_variant,,ENST00000449440,;RP5-1007M22.2,downstream_gene_variant,,ENST00000443562,;	T	ENSG00000197147	ENST00000330947	Transcript	missense_variant	869	509	170	S/L	tCa/tTa	.	.	.	1	LRRC8B	HGNC	30692	protein_coding	YES	CCDS724.1	ENSP00000332674	LRC8B_HUMAN	Q49AH5_HUMAN,C9JGJ7_HUMAN	UPI00000739FF	.	deleterious(0)	probably_damaging(0.966)	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAGAAA	.	5	BLCA
LRRC8B	0	.	GRCh37	1	90049964	90049964	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1755C>T	p.%3D	p.V585V	ENST00000330947	5/6	40	33	7	44	44	0	LRRC8B,synonymous_variant,p.%3D,ENST00000439853,;LRRC8B,synonymous_variant,p.%3D,ENST00000330947,;LRRC8B,synonymous_variant,p.%3D,ENST00000358200,;LRRC8B,downstream_gene_variant,,ENST00000449440,;RP5-1007M22.2,intron_variant,,ENST00000443562,;	T	ENSG00000197147	ENST00000330947	Transcript	synonymous_variant	2115	1755	585	V	gtC/gtT	.	.	.	1	LRRC8B	HGNC	30692	protein_coding	YES	CCDS724.1	ENSP00000332674	LRC8B_HUMAN	Q49AH5_HUMAN,C9JGJ7_HUMAN	UPI00000739FF	.	.	.	5/6	.	hmmpanther:PTHR23155:SF465,hmmpanther:PTHR23155,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTCAATCT	.	5	BLCA
PLEKHN1	0	.	GRCh37	1	906287	906287	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513C>T	p.%3D	p.L171L	ENST00000379410	6/16	36	29	6	30	30	0	PLEKHN1,synonymous_variant,p.%3D,ENST00000379409,;PLEKHN1,synonymous_variant,p.%3D,ENST00000379407,;PLEKHN1,synonymous_variant,p.%3D,ENST00000379410,;C1orf170,downstream_gene_variant,,ENST00000341290,;C1orf170,downstream_gene_variant,,ENST00000433179,;PLEKHN1,upstream_gene_variant,,ENST00000491024,;PLEKHN1,non_coding_transcript_exon_variant,,ENST00000480267,;C1orf170,downstream_gene_variant,,ENST00000479361,;	T	ENSG00000187583	ENST00000379410	Transcript	synonymous_variant	548	513	171	L	ctC/ctT	.	.	.	1	PLEKHN1	HGNC	25284	protein_coding	YES	CCDS4.1	ENSP00000368720	PKHN1_HUMAN	J3KSM5_HUMAN	UPI00001416D8	.	.	.	6/16	.	Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTCTGCCC	.	5	BLCA
RPAP2	0	.	GRCh37	1	92789090	92789090	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Glu205Lys	p.E205K	ENST00000610020	8/13	169	124	44	132	132	0	RPAP2,missense_variant,p.Glu205Lys,ENST00000610020,;RPAP2,non_coding_transcript_exon_variant,,ENST00000484158,;	A	ENSG00000122484	ENST00000610020	Transcript	missense_variant	722	613	205	E/K	Gaa/Aaa	.	.	.	1	RPAP2	HGNC	25791	protein_coding	YES	CCDS740.1	ENSP00000476948	RPAP2_HUMAN	.	UPI0000074323	.	tolerated(0.13)	benign(0.017)	8/13	.	hmmpanther:PTHR14732:SF0,hmmpanther:PTHR14732	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATGAATCT	.	5	BLCA
F3	0	.	GRCh37	1	94996084	94996084	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820C>G	p.Leu274Val	p.L274V	ENST00000334047	6/6	52	44	7	42	42	0	F3,missense_variant,p.Leu274Val,ENST00000334047,;F3,synonymous_variant,p.%3D,ENST00000370207,;F3,downstream_gene_variant,,ENST00000480356,;F3,downstream_gene_variant,,ENST00000478217,;	C	ENSG00000117525	ENST00000334047	Transcript	missense_variant	984	820	274	L/V	Cta/Gta	.	.	.	-1	F3	HGNC	3541	protein_coding	YES	CCDS750.1	ENSP00000334145	TF_HUMAN	Q8NCW7_HUMAN	UPI000002CD0D	.	tolerated(0.1)	benign(0.098)	6/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20859:SF22,hmmpanther:PTHR20859,PIRSF_domain:PIRSF002498,Prints_domain:PR00346	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTAGAGATA	.	5	BLCA
AGRN	0	.	GRCh37	1	986943	986943	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5481C>T	p.%3D	p.L1827L	ENST00000379370	32/36	9	6	3	8	8	0	AGRN,synonymous_variant,p.%3D,ENST00000379370,;AGRN,synonymous_variant,p.%3D,ENST00000419249,;RP11-54O7.14,upstream_gene_variant,,ENST00000418300,;AGRN,downstream_gene_variant,,ENST00000466223,;AGRN,downstream_gene_variant,,ENST00000478677,;AGRN,upstream_gene_variant,,ENST00000461111,;AGRN,downstream_gene_variant,,ENST00000492947,;	T	ENSG00000188157	ENST00000379370	Transcript	synonymous_variant	5531	5481	1827	L	ctC/ctT	.	.	.	1	AGRN	HGNC	329	protein_coding	YES	CCDS30551.1	ENSP00000368678	AGRIN_HUMAN	Q5XG79_HUMAN	UPI00001D7C8B	.	.	.	32/36	.	SMART_domains:SM00181,SMART_domains:SM00179,Gene3D:2.10.25.10,Pfam_domain:PF00008,hmmpanther:PTHR10574:SF227,hmmpanther:PTHR10574,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCAATGG	.	2	BLCA
PYGB	0	.	GRCh37	20	25277015	25277015	+	Missense_Mutation	SNP	G	G	C	rs753688457	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2389G>C	p.Glu797Gln	p.E797Q	ENST00000216962	20/20	38	33	5	30	30	0	PYGB,missense_variant,p.Glu797Gln,ENST00000216962,;PYGB,missense_variant,p.Glu216Gln,ENST00000428458,;ABHD12,intron_variant,,ENST00000376542,;ABHD12,downstream_gene_variant,,ENST00000339157,;PYGB,non_coding_transcript_exon_variant,,ENST00000471359,;ABHD12,intron_variant,,ENST00000465694,;	C	ENSG00000100994	ENST00000216962	Transcript	missense_variant	2499	2389	797	E/Q	Gag/Cag	rs753688457	.	.	1	PYGB	HGNC	9723	protein_coding	YES	CCDS13171.1	ENSP00000216962	PYGB_HUMAN	Q8TDG6_HUMAN	UPI0000131A0A	.	tolerated(0.16)	benign(0.109)	20/20	.	hmmpanther:PTHR11468,hmmpanther:PTHR11468:SF1,Gene3D:3.40.50.2000,TIGRFAM_domain:TIGR02093,Pfam_domain:PF00343,PIRSF_domain:PIRSF000460,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAAGGAGTGG	.	4	BLCA
MYBL2	0	.	GRCh37	20	42331380	42331380	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1202C>G	p.Ser401Cys	p.S401C	ENST00000217026	8/14	69	52	17	65	65	0	MYBL2,missense_variant,p.Ser401Cys,ENST00000217026,;MYBL2,missense_variant,p.Ser377Cys,ENST00000396863,;	G	ENSG00000101057	ENST00000217026	Transcript	missense_variant	1329	1202	401	S/C	tCt/tGt	.	.	.	1	MYBL2	HGNC	7548	protein_coding	YES	CCDS13322.1	ENSP00000217026	MYBB_HUMAN	.	UPI000012FAE1	.	deleterious(0.04)	possibly_damaging(0.479)	8/14	.	hmmpanther:PTHR10641:SF37,hmmpanther:PTHR10641	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCTGGCA	.	5	BLCA
SRMS	0	.	GRCh37	20	62173890	62173890	+	Silent	SNP	G	G	A	rs770997808	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.690C>T	p.%3D	p.F230F	ENST00000217188	4/8	30	27	3	19	19	0	SRMS,synonymous_variant,p.%3D,ENST00000217188,;	A	ENSG00000125508	ENST00000217188	Transcript	synonymous_variant	731	690	230	F	ttC/ttT	rs770997808,COSM395188	.	.	-1	SRMS	HGNC	11298	protein_coding	YES	CCDS13525.1	ENSP00000217188	SRMS_HUMAN	.	UPI000004F1F3	.	.	.	4/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418:SF23,hmmpanther:PTHR24418,Gene3D:3.30.200.20,SMART_domains:SM00219,Superfamily_domains:SSF55550,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGCGAATTC	.	2	BLCA
NPBWR2	0	.	GRCh37	20	62737633	62737633	+	Silent	SNP	G	G	A	rs201448282	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>T	p.%3D	p.F184F	ENST00000369768	1/1	25	22	3	26	26	0	NPBWR2,synonymous_variant,p.%3D,ENST00000369768,;	A	ENSG00000125522	ENST00000369768	Transcript	synonymous_variant	892	552	184	F	ttC/ttT	rs201448282	.	.	-1	NPBWR2	HGNC	4530	protein_coding	YES	CCDS13557.1	ENSP00000358783	NPBW2_HUMAN	.	UPI000013CBB3	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24229:SF18,hmmpanther:PTHR24229,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01855	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGCGAAAGA	byCluster	2	BLCA
NPBWR2	0	.	GRCh37	20	62738020	62738020	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165C>T	p.%3D	p.I55I	ENST00000369768	1/1	43	36	6	45	45	0	NPBWR2,synonymous_variant,p.%3D,ENST00000369768,;	A	ENSG00000125522	ENST00000369768	Transcript	synonymous_variant	505	165	55	I	atC/atT	.	.	.	-1	NPBWR2	HGNC	4530	protein_coding	YES	CCDS13557.1	ENSP00000358783	NPBW2_HUMAN	.	UPI000013CBB3	.	.	.	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24229:SF18,hmmpanther:PTHR24229,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACAGATCCC	.	5	BLCA
NPBWR2	0	.	GRCh37	20	62738074	62738074	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111C>T	p.%3D	p.F37F	ENST00000369768	1/1	60	44	15	51	51	0	NPBWR2,synonymous_variant,p.%3D,ENST00000369768,;	A	ENSG00000125522	ENST00000369768	Transcript	synonymous_variant	451	111	37	F	ttC/ttT	.	.	.	-1	NPBWR2	HGNC	4530	protein_coding	YES	CCDS13557.1	ENSP00000358783	NPBW2_HUMAN	.	UPI000013CBB3	.	.	.	1/1	.	hmmpanther:PTHR24229:SF18,hmmpanther:PTHR24229,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGGAGAAGGT	.	5	BLCA
CCT8	0	.	GRCh37	21	30445863	30445863	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49G>A	p.Glu17Lys	p.E17K	ENST00000286788	1/15	84	79	4	65	65	0	CCT8,missense_variant,p.Glu9Lys,ENST00000431234,;CCT8,missense_variant,p.Glu17Lys,ENST00000286788,;CCT8,5_prime_UTR_variant,,ENST00000540844,;MAP3K7CL,upstream_gene_variant,,ENST00000545939,;MAP3K7CL,upstream_gene_variant,,ENST00000341618,;MAP3K7CL,upstream_gene_variant,,ENST00000286791,;MAP3K7CL,upstream_gene_variant,,ENST00000399935,;MAP3K7CL,upstream_gene_variant,,ENST00000399934,;MAP3K7CL,upstream_gene_variant,,ENST00000419845,;CCT8,upstream_gene_variant,,ENST00000542732,;CCT8,non_coding_transcript_exon_variant,,ENST00000470450,;MAP3K7CL,upstream_gene_variant,,ENST00000492930,;MAP3K7CL,upstream_gene_variant,,ENST00000496779,;CCT8,upstream_gene_variant,,ENST00000494296,;CCT8,upstream_gene_variant,,ENST00000481059,;CCT8,non_coding_transcript_exon_variant,,ENST00000484403,;	T	ENSG00000156261	ENST00000286788	Transcript	missense_variant	256	49	17	E/K	Gag/Aag	.	.	.	-1	CCT8	HGNC	1623	protein_coding	YES	CCDS33528.1	ENSP00000286788	TCPQ_HUMAN	Q7Z759_HUMAN	UPI0000136B0D	.	tolerated(0.07)	benign(0.008)	1/15	.	TIGRFAM_domain:TIGR02346,hmmpanther:PTHR11353,hmmpanther:PTHR11353:SF60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCCTCCTTGA	.	2	BLCA
TIAM1	0	.	GRCh37	21	32519296	32519296	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3392C>T	p.Ser1131Leu	p.S1131L	ENST00000286827	21/29	43	35	8	36	36	0	TIAM1,missense_variant,p.Ser1131Leu,ENST00000286827,;TIAM1,missense_variant,p.Ser1071Leu,ENST00000541036,;	A	ENSG00000156299	ENST00000286827	Transcript	missense_variant	3864	3392	1131	S/L	tCa/tTa	COSM3799841,COSM3799842	.	.	-1	TIAM1	HGNC	11805	protein_coding	YES	CCDS13609.1	ENSP00000286827	TIAM1_HUMAN	C9JMB5_HUMAN	UPI000013DE6F	.	deleterious(0.01)	probably_damaging(0.919)	21/29	.	Superfamily_domains:SSF48065,SMART_domains:SM00325,Pfam_domain:PF00621,Gene3D:1.20.900.10,hmmpanther:PTHR22826:SF88,hmmpanther:PTHR22826,PROSITE_profiles:PS50010	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATGATCCC	.	5	BLCA
PAXBP1	0	.	GRCh37	21	34107294	34107294	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2721G>A	p.%3D	p.V907V	ENST00000331923	18/18	39	36	3	41	41	0	PAXBP1,synonymous_variant,p.%3D,ENST00000331923,;PAXBP1-AS1,intron_variant,,ENST00000455170,;PAXBP1-AS1,intron_variant,,ENST00000440052,;PAXBP1-AS1,downstream_gene_variant,,ENST00000458479,;PAXBP1,3_prime_UTR_variant,,ENST00000443785,;PAXBP1,non_coding_transcript_exon_variant,,ENST00000497873,;PAXBP1,non_coding_transcript_exon_variant,,ENST00000466846,;	T	ENSG00000159086	ENST00000331923	Transcript	synonymous_variant	2911	2721	907	V	gtG/gtA	.	.	.	-1	PAXBP1	HGNC	13579	protein_coding	YES	CCDS13619.1	ENSP00000328992	PAXB1_HUMAN	Q9NZD7_HUMAN,Q8N6E6_HUMAN,Q8N2J1_HUMAN,B3KY25_HUMAN	UPI000012B294	.	.	.	18/18	.	hmmpanther:PTHR12214:SF2,hmmpanther:PTHR12214	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTCACATT	.	4	BLCA
PAXBP1	0	.	GRCh37	21	34121010	34121010	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1724-1G>C	.	p.X575_splice	ENST00000331923	.	35	24	11	37	37	0	PAXBP1,splice_acceptor_variant,,ENST00000290178,;PAXBP1,splice_acceptor_variant,,ENST00000331923,;PAXBP1,splice_acceptor_variant,,ENST00000497873,;PAXBP1,splice_acceptor_variant,,ENST00000421049,;PAXBP1,splice_acceptor_variant,,ENST00000443785,;PAXBP1,splice_acceptor_variant,,ENST00000466846,;	G	ENSG00000159086	ENST00000331923	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	PAXBP1	HGNC	13579	protein_coding	YES	CCDS13619.1	ENSP00000328992	PAXB1_HUMAN	Q9NZD7_HUMAN,Q8N6E6_HUMAN,Q8N2J1_HUMAN,B3KY25_HUMAN	UPI000012B294	.	.	.	.	10/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGATCTAAAA	.	2	BLCA
CLIC6	0	.	GRCh37	21	36088672	36088672	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1953C>T	p.%3D	p.I651I	ENST00000349499	6/6	90	77	13	80	80	0	CLIC6,synonymous_variant,p.%3D,ENST00000360731,;CLIC6,synonymous_variant,p.%3D,ENST00000349499,;	T	ENSG00000159212	ENST00000349499	Transcript	synonymous_variant	1953	1953	651	I	atC/atT	.	.	.	1	CLIC6	HGNC	2065	protein_coding	YES	CCDS13638.1	ENSP00000290332	CLIC6_HUMAN	.	UPI000000D7AC	.	.	.	6/6	.	PROSITE_profiles:PS50405,hmmpanther:PTHR11260:SF142,hmmpanther:PTHR11260,Gene3D:1.20.1050.10,TIGRFAM_domain:TIGR00862,Pfam_domain:PF13410,Superfamily_domains:SSF47616	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCATCTGGAG	.	4	BLCA
CBR1	0	.	GRCh37	21	37442464	37442464	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51C>T	p.%3D	p.I17I	ENST00000290349	1/3	10	6	4	9	9	0	CBR1,synonymous_variant,p.%3D,ENST00000439427,;CBR1,synonymous_variant,p.%3D,ENST00000530908,;CBR1,synonymous_variant,p.%3D,ENST00000290349,;CBR1,synonymous_variant,p.%3D,ENST00000399191,;SETD4,intron_variant,,ENST00000399201,;RNU6-992P,downstream_gene_variant,,ENST00000363343,;AP000688.14,non_coding_transcript_exon_variant,,ENST00000535199,;AP000688.14,downstream_gene_variant,,ENST00000415147,;CBR1,non_coding_transcript_exon_variant,,ENST00000466328,;	T	ENSG00000159228	ENST00000290349	Transcript	synonymous_variant	226	51	17	I	atC/atT	.	.	.	1	CBR1	HGNC	1548	protein_coding	YES	CCDS13641.1	ENSP00000290349	CBR1_HUMAN	.	UPI000004C784	.	.	.	1/3	.	hmmpanther:PTHR24322:SF236,hmmpanther:PTHR24322,Gene3D:3.40.50.720,Pfam_domain:PF00106,Superfamily_domains:SSF51735,Prints_domain:PR00081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCATCGGCTT	.	2	BLCA
DOPEY2	0	.	GRCh37	21	37617673	37617673	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3395C>A	p.Ser1132Tyr	p.S1132Y	ENST00000399151	19/37	58	44	14	49	49	0	DOPEY2,missense_variant,p.Ser1132Tyr,ENST00000399151,;DOPEY2,upstream_gene_variant,,ENST00000463668,;	A	ENSG00000142197	ENST00000399151	Transcript	missense_variant	3480	3395	1132	S/Y	tCc/tAc	.	.	.	1	DOPEY2	HGNC	1291	protein_coding	YES	CCDS13643.1	ENSP00000382104	DOP2_HUMAN	F8W8U9_HUMAN	UPI000013D876	.	tolerated(0.17)	benign(0.009)	19/37	.	hmmpanther:PTHR14042:SF23,hmmpanther:PTHR14042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCCCACG	.	5	BLCA
KCNJ15	0	.	GRCh37	21	39671789	39671789	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.606G>A	p.Met202Ile	p.M202I	ENST00000328656	4/4	50	44	6	47	47	0	KCNJ15,missense_variant,p.Met202Ile,ENST00000328656,;KCNJ15,missense_variant,p.Met202Ile,ENST00000398930,;KCNJ15,missense_variant,p.Met202Ile,ENST00000438657,;KCNJ15,missense_variant,p.Met202Ile,ENST00000398938,;KCNJ15,missense_variant,p.Met202Ile,ENST00000398934,;KCNJ15,missense_variant,p.Met202Ile,ENST00000398932,;KCNJ15,downstream_gene_variant,,ENST00000398928,;KCNJ15,downstream_gene_variant,,ENST00000398927,;KCNJ15,downstream_gene_variant,,ENST00000398925,;KCNJ15,downstream_gene_variant,,ENST00000549805,;KCNJ15,downstream_gene_variant,,ENST00000417042,;KCNJ15,downstream_gene_variant,,ENST00000548700,;KCNJ15,downstream_gene_variant,,ENST00000419868,;KCNJ15,downstream_gene_variant,,ENST00000549932,;KCNJ15,downstream_gene_variant,,ENST00000547595,;KCNJ15,downstream_gene_variant,,ENST00000549158,;KCNJ15,downstream_gene_variant,,ENST00000547341,;KCNJ15,downstream_gene_variant,,ENST00000551422,;KCNJ15,downstream_gene_variant,,ENST00000443341,;	A	ENSG00000157551	ENST00000328656	Transcript	missense_variant	909	606	202	M/I	atG/atA	.	.	.	1	KCNJ15	HGNC	6261	protein_coding	YES	CCDS13656.1	ENSP00000331698	IRK15_HUMAN	F8VX74_HUMAN,F8VW46_HUMAN,E7EWV2_HUMAN,E7EPG3_HUMAN,C9JTX1_HUMAN,A8MVK1_HUMAN,A8MTZ5_HUMAN	UPI000006E337	.	tolerated(0.07)	benign(0.266)	4/4	.	hmmpanther:PTHR11767:SF20,hmmpanther:PTHR11767,Pfam_domain:PF01007,Gene3D:2.60.40.1400,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATATGAGGAA	.	4	BLCA
ERG	0	.	GRCh37	21	39755498	39755498	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1288G>A	p.Ala430Thr	p.A430T	ENST00000417133	12/12	47	38	8	39	39	0	ERG,missense_variant,p.Ala307Thr,ENST00000398897,;ERG,missense_variant,p.Ala331Thr,ENST00000453032,;ERG,missense_variant,p.Ala407Thr,ENST00000398910,;ERG,missense_variant,p.Ala423Thr,ENST00000288319,;ERG,missense_variant,p.Ala406Thr,ENST00000442448,;ERG,missense_variant,p.Ala430Thr,ENST00000398919,;ERG,missense_variant,p.Ala399Thr,ENST00000398905,;ERG,missense_variant,p.Ala430Thr,ENST00000417133,;ERG,missense_variant,p.Ala406Thr,ENST00000398911,;ERG,missense_variant,p.Ala400Thr,ENST00000398907,;	T	ENSG00000157554	ENST00000417133	Transcript	missense_variant	1474	1288	430	A/T	Gcc/Acc	.	.	.	-1	ERG	HGNC	3446	protein_coding	YES	CCDS46648.1	ENSP00000414150	ERG_HUMAN	Q16031_HUMAN,B4DVX5_HUMAN	UPI000018681C	.	tolerated(0.42)	benign(0.002)	12/12	.	hmmpanther:PTHR11849:SF161,hmmpanther:PTHR11849,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGGCGTGAT	.	5	BLCA
BRWD1	0	.	GRCh37	21	40570949	40570949	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5393C>G	p.Ser1798Cys	p.S1798C	ENST00000333229	40/42	184	146	37	135	135	0	BRWD1,missense_variant,p.Ser1798Cys,ENST00000342449,;BRWD1,missense_variant,p.Ser1798Cys,ENST00000380800,;BRWD1,missense_variant,p.Ser1798Cys,ENST00000333229,;BRWD1,downstream_gene_variant,,ENST00000424441,;BRWD1,3_prime_UTR_variant,,ENST00000446924,;BRWD1,downstream_gene_variant,,ENST00000491564,;	C	ENSG00000185658	ENST00000333229	Transcript	missense_variant	5721	5393	1798	S/C	tCt/tGt	.	.	.	-1	BRWD1	HGNC	12760	protein_coding	YES	CCDS13662.1	ENSP00000330753	BRWD1_HUMAN	.	UPI0000163C12	.	tolerated_low_confidence(0.35)	benign(0.001)	40/42	.	hmmpanther:PTHR16266:SF26,hmmpanther:PTHR16266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCAGATCTT	.	5	BLCA
PWP2	0	.	GRCh37	21	45546826	45546826	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2120C>T	p.Ser707Leu	p.S707L	ENST00000291576	17/21	162	126	35	110	110	0	PWP2,missense_variant,p.Ser707Leu,ENST00000291576,;PWP2,non_coding_transcript_exon_variant,,ENST00000494310,;PWP2,non_coding_transcript_exon_variant,,ENST00000471490,;PWP2,upstream_gene_variant,,ENST00000476948,;	T	ENSG00000241945	ENST00000291576	Transcript	missense_variant	2247	2120	707	S/L	tCa/tTa	.	.	.	1	PWP2	HGNC	9711	protein_coding	YES	CCDS33579.1	ENSP00000291576	PWP2_HUMAN	.	UPI0000169D5D	.	tolerated(0.1)	benign(0.206)	17/21	.	hmmpanther:PTHR19858,Gene3D:2.130.10.10,SMART_domains:SM00320	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACCTCACTCC	.	3	BLCA
PWP2	0	.	GRCh37	21	45546836	45546836	+	Silent	SNP	C	C	T	rs569177028	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2130C>T	p.%3D	p.F710F	ENST00000291576	17/21	156	120	36	109	109	0	PWP2,synonymous_variant,p.%3D,ENST00000291576,;PWP2,non_coding_transcript_exon_variant,,ENST00000494310,;PWP2,non_coding_transcript_exon_variant,,ENST00000471490,;PWP2,upstream_gene_variant,,ENST00000476948,;	T	ENSG00000241945	ENST00000291576	Transcript	synonymous_variant	2257	2130	710	F	ttC/ttT	rs569177028	.	.	1	PWP2	HGNC	9711	protein_coding	YES	CCDS33579.1	ENSP00000291576	PWP2_HUMAN	.	UPI0000169D5D	.	.	.	17/21	.	hmmpanther:PTHR19858,Gene3D:2.130.10.10,SMART_domains:SM00320	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCTTCTCTCC	by1000G	3	BLCA
DGCR8	0	.	GRCh37	22	20074087	20074087	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>C	p.Glu201Gln	p.E201Q	ENST00000351989	2/14	107	95	11	82	82	0	DGCR8,missense_variant,p.Glu201Gln,ENST00000351989,;DGCR8,missense_variant,p.Glu201Gln,ENST00000383024,;DGCR8,missense_variant,p.Glu201Gln,ENST00000407755,;DGCR8,downstream_gene_variant,,ENST00000457069,;MIR1306,downstream_gene_variant,,ENST00000408439,;MIR3618,downstream_gene_variant,,ENST00000580330,;DGCR8,non_coding_transcript_exon_variant,,ENST00000495826,;DGCR8,upstream_gene_variant,,ENST00000498171,;	C	ENSG00000128191	ENST00000351989	Transcript	missense_variant	1030	601	201	E/Q	Gag/Cag	.	.	.	1	DGCR8	HGNC	2847	protein_coding	YES	CCDS13773.1	ENSP00000263209	DGCR8_HUMAN	C9JSD5_HUMAN	UPI0000129225	.	deleterious(0.01)	possibly_damaging(0.791)	2/14	.	hmmpanther:PTHR13482,hmmpanther:PTHR13482:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCGATGAGTTA	.	3	BLCA
LRP5L	0	.	GRCh37	22	25750642	25750642	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.576C>G	p.%3D	p.V192V	ENST00000402859	5/6	98	79	19	68	68	0	LRP5L,synonymous_variant,p.%3D,ENST00000402859,;LRP5L,synonymous_variant,p.%3D,ENST00000444995,;LRP5L,synonymous_variant,p.%3D,ENST00000402785,;LRP5L,3_prime_UTR_variant,,ENST00000474163,;LRP5L,non_coding_transcript_exon_variant,,ENST00000467672,;LRP5L,downstream_gene_variant,,ENST00000484509,;CTA-246H3.11,upstream_gene_variant,,ENST00000434827,;	C	ENSG00000100068	ENST00000402859	Transcript	synonymous_variant	1100	576	192	V	gtC/gtG	.	.	.	-1	LRP5L	HGNC	25323	protein_coding	YES	CCDS33626.1	ENSP00000384291	LRP5L_HUMAN	.	UPI000006DF62	.	.	.	5/6	.	PROSITE_profiles:PS51120,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF202,Gene3D:2.120.10.30,SMART_domains:SM00135,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTGACCTT	.	5	BLCA
HMGXB4	0	.	GRCh37	22	35660934	35660934	+	Missense_Mutation	SNP	C	C	T	rs757502367	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553C>T	p.Arg185Trp	p.R185W	ENST00000216106	5/11	123	90	33	112	112	0	HMGXB4,missense_variant,p.Arg76Trp,ENST00000444518,;HMGXB4,missense_variant,p.Arg76Trp,ENST00000455359,;HMGXB4,missense_variant,p.Arg185Trp,ENST00000216106,;HMGXB4,missense_variant,p.Arg76Trp,ENST00000420166,;HMGXB4,3_prime_UTR_variant,,ENST00000418170,;HMGXB4,downstream_gene_variant,,ENST00000464480,;HMGXB4,downstream_gene_variant,,ENST00000498325,;	T	ENSG00000100281	ENST00000216106	Transcript	missense_variant	681	553	185	R/W	Cgg/Tgg	rs757502367,COSM3694041	.	.	1	HMGXB4	HGNC	5003	protein_coding	YES	CCDS33641.1	ENSP00000216106	HMGX4_HUMAN	Q7Z641_HUMAN,B0QXZ9_HUMAN,B0QXZ8_HUMAN	UPI00003765B4	.	deleterious(0)	probably_damaging(1)	5/11	.	hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF169,Pfam_domain:PF13775	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCGGGAG	.	5	BLCA
SH3BP1	0	.	GRCh37	22	38043271	38043271	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1037-3C>T	.	.	ENST00000357436	.	79	68	11	77	77	0	SH3BP1,splice_region_variant,,ENST00000336738,;SH3BP1,splice_region_variant,,ENST00000599616,;SH3BP1,splice_region_variant,,ENST00000442465,;SH3BP1,splice_region_variant,,ENST00000357436,;Z83844.1,intron_variant,,ENST00000456099,;SH3BP1,splice_region_variant,,ENST00000495174,;SH3BP1,splice_region_variant,,ENST00000469947,;SH3BP1,splice_region_variant,,ENST00000471650,;SH3BP1,splice_region_variant,,ENST00000417536,;SH3BP1,splice_region_variant,,ENST00000466097,;SH3BP1,splice_region_variant,,ENST00000451997,;SH3BP1,downstream_gene_variant,,ENST00000459646,;	T	ENSG00000100092	ENST00000357436	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	SH3BP1	HGNC	10824	protein_coding	YES	CCDS13952.2	ENSP00000350018	3BP1_HUMAN	F8WEQ3_HUMAN	UPI000004EE00	.	.	.	.	11/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCCTTCAGGTG	.	3	BLCA
APOBEC3H	0	.	GRCh37	22	39497351	39497351	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.260C>T	p.Ser87Phe	p.S87F	ENST00000401756	3/6	57	49	8	42	42	0	APOBEC3H,missense_variant,p.Ser87Phe,ENST00000421988,;APOBEC3H,missense_variant,p.Ser87Phe,ENST00000348946,;APOBEC3H,missense_variant,p.Ser87Phe,ENST00000401756,;APOBEC3H,missense_variant,p.Ser87Phe,ENST00000442487,;APOBEC3H,downstream_gene_variant,,ENST00000474235,;	T	ENSG00000100298	ENST00000401756	Transcript	missense_variant	336	260	87	S/F	tCc/tTc	.	.	.	1	APOBEC3H	HGNC	24100	protein_coding	YES	CCDS54530.1	ENSP00000385741	ABC3H_HUMAN	.	UPI00002077A2	.	tolerated(0.26)	benign(0.06)	3/6	.	Superfamily_domains:SSF53927,Gene3D:3.40.140.10,Pfam_domain:PF08210,PROSITE_patterns:PS00903,hmmpanther:PTHR13857,hmmpanther:PTHR13857:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCTGTG	.	4	BLCA
APOBEC3H	0	.	GRCh37	22	39497352	39497352	+	Silent	SNP	C	C	A	rs773083408	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261C>A	p.%3D	p.S87S	ENST00000401756	3/6	56	48	8	42	42	0	APOBEC3H,synonymous_variant,p.%3D,ENST00000421988,;APOBEC3H,synonymous_variant,p.%3D,ENST00000348946,;APOBEC3H,synonymous_variant,p.%3D,ENST00000401756,;APOBEC3H,synonymous_variant,p.%3D,ENST00000442487,;APOBEC3H,downstream_gene_variant,,ENST00000474235,;	A	ENSG00000100298	ENST00000401756	Transcript	synonymous_variant	337	261	87	S	tcC/tcA	rs773083408	.	.	1	APOBEC3H	HGNC	24100	protein_coding	YES	CCDS54530.1	ENSP00000385741	ABC3H_HUMAN	.	UPI00002077A2	.	.	.	3/6	.	Superfamily_domains:SSF53927,Gene3D:3.40.140.10,Pfam_domain:PF08210,PROSITE_patterns:PS00903,hmmpanther:PTHR13857,hmmpanther:PTHR13857:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTCCTGTGC	.	4	BLCA
RPL3	0	.	GRCh37	22	39710205	39710205	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858G>A	p.%3D	p.K286K	ENST00000216146	7/10	99	84	15	90	90	0	RPL3,synonymous_variant,p.%3D,ENST00000401609,;RPL3,synonymous_variant,p.%3D,ENST00000216146,;RPL3,synonymous_variant,p.%3D,ENST00000402527,;RPL3,downstream_gene_variant,,ENST00000453303,;RPL3,downstream_gene_variant,,ENST00000427905,;SNORD83A,downstream_gene_variant,,ENST00000386747,;SNORD83B,upstream_gene_variant,,ENST00000386745,;SNORD43,downstream_gene_variant,,ENST00000583861,;RPL3,non_coding_transcript_exon_variant,,ENST00000471290,;RPL3,non_coding_transcript_exon_variant,,ENST00000465618,;RPL3,downstream_gene_variant,,ENST00000459859,;RPL3,non_coding_transcript_exon_variant,,ENST00000481985,;RPL3,non_coding_transcript_exon_variant,,ENST00000467105,;RPL3,downstream_gene_variant,,ENST00000498462,;RPL3,upstream_gene_variant,,ENST00000464182,;RPL3,downstream_gene_variant,,ENST00000420536,;RPL3,upstream_gene_variant,,ENST00000473638,;RPL3,downstream_gene_variant,,ENST00000484358,;RPL3,downstream_gene_variant,,ENST00000460589,;RPL3,downstream_gene_variant,,ENST00000484615,;RPL3,downstream_gene_variant,,ENST00000461967,;	T	ENSG00000100316	ENST00000216146	Transcript	synonymous_variant	1032	858	286	K	aaG/aaA	.	.	.	-1	RPL3	HGNC	10332	protein_coding	YES	CCDS13988.1	ENSP00000346001	RL3_HUMAN	Q9NY85_HUMAN,Q9BT63_HUMAN,Q8TBW1_HUMAN,Q49AJ9_HUMAN,G5E9G0_HUMAN,B5MCW2_HUMAN,B4DN06_HUMAN	UPI0000167B7E	.	.	.	7/10	.	hmmpanther:PTHR11363,Gene3D:2.40.30.10,Pfam_domain:PF00297,Superfamily_domains:SSF50447	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAATCTTATA	.	4	BLCA
SEPT3	0	.	GRCh37	22	42393009	42393009	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*38C>G	.	.	ENST00000396426	11/11	56	45	11	48	48	0	SEPT3,3_prime_UTR_variant,,ENST00000396425,;SEPT3,3_prime_UTR_variant,,ENST00000396426,;SEPT3,3_prime_UTR_variant,,ENST00000328414,;SEPT3,3_prime_UTR_variant,,ENST00000406029,;SEPT3,downstream_gene_variant,,ENST00000291236,;WBP2NL,upstream_gene_variant,,ENST00000328823,;WBP2NL,upstream_gene_variant,,ENST00000475341,;WBP2NL,upstream_gene_variant,,ENST00000461730,;SEPT3,3_prime_UTR_variant,,ENST00000396417,;WBP2NL,upstream_gene_variant,,ENST00000329620,;WBP2NL,upstream_gene_variant,,ENST00000412113,;WBP2NL,upstream_gene_variant,,ENST00000436265,;WBP2NL,upstream_gene_variant,,ENST00000445185,;SLC25A5P1,downstream_gene_variant,,ENST00000450250,;	G	ENSG00000100167	ENST00000396426	Transcript	3_prime_UTR_variant	1370	.	.	.	.	.	.	.	1	SEPT3	HGNC	10750	protein_coding	YES	CCDS14026.2	ENSP00000379704	SEPT3_HUMAN	B1AHR2_HUMAN	UPI000067DA91	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAGCTG	.	5	BLCA
ARFGAP3	0	.	GRCh37	22	43219702	43219702	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632C>G	p.Ser211Cys	p.S211C	ENST00000263245	8/16	23	18	4	24	24	0	ARFGAP3,missense_variant,p.Ser58Cys,ENST00000453516,;ARFGAP3,missense_variant,p.Ser167Cys,ENST00000437119,;ARFGAP3,missense_variant,p.Ser139Cys,ENST00000454099,;ARFGAP3,missense_variant,p.Ser211Cys,ENST00000263245,;ARFGAP3,missense_variant,p.Ser139Cys,ENST00000429508,;	C	ENSG00000242247	ENST00000263245	Transcript	missense_variant	852	632	211	S/C	tCc/tGc	.	.	.	-1	ARFGAP3	HGNC	661	protein_coding	YES	CCDS14042.1	ENSP00000263245	ARFG3_HUMAN	.	UPI0000125DF8	.	deleterious(0.01)	benign(0.021)	8/16	.	hmmpanther:PTHR23180:SF208,hmmpanther:PTHR23180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGAGGATACC	.	5	BLCA
PACSIN2	0	.	GRCh37	22	43275128	43275128	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954G>A	p.%3D	p.K318K	ENST00000263246	8/11	56	42	14	47	47	0	PACSIN2,synonymous_variant,p.%3D,ENST00000263246,;PACSIN2,synonymous_variant,p.%3D,ENST00000403744,;PACSIN2,synonymous_variant,p.%3D,ENST00000402229,;PACSIN2,synonymous_variant,p.%3D,ENST00000337959,;PACSIN2,synonymous_variant,p.%3D,ENST00000407585,;PACSIN2,upstream_gene_variant,,ENST00000507586,;	T	ENSG00000100266	ENST00000263246	Transcript	synonymous_variant	1156	954	318	K	aaG/aaA	.	.	.	-1	PACSIN2	HGNC	8571	protein_coding	YES	CCDS43023.1	ENSP00000263246	PACN2_HUMAN	B0QYG9_HUMAN,B0QYG7_HUMAN	UPI00001311CA	.	.	.	8/11	.	hmmpanther:PTHR10959:SF2,hmmpanther:PTHR10959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCCTTCTTCTT	.	4	BLCA
CERK	0	.	GRCh37	22	47089366	47089366	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1084G>A	p.Glu362Lys	p.E362K	ENST00000216264	10/13	42	37	4	37	37	0	CERK,missense_variant,p.Glu362Lys,ENST00000216264,;CERK,missense_variant,p.Glu164Lys,ENST00000541677,;CERK,non_coding_transcript_exon_variant,,ENST00000471929,;CERK,3_prime_UTR_variant,,ENST00000443629,;	T	ENSG00000100422	ENST00000216264	Transcript	missense_variant	1197	1084	362	E/K	Gag/Aag	.	.	.	-1	CERK	HGNC	19256	protein_coding	YES	CCDS14077.1	ENSP00000216264	CERK1_HUMAN	Q6NX59_HUMAN	UPI000004BBBD	.	tolerated(0.31)	benign(0.009)	10/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12358,hmmpanther:PTHR12358:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCCAGCT	.	4	BLCA
TUBGCP6	0	.	GRCh37	22	50656969	50656969	+	Silent	SNP	C	C	T	rs779532804	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4902G>A	p.%3D	p.L1634L	ENST00000248846	22/25	40	28	11	25	25	0	TUBGCP6,synonymous_variant,p.%3D,ENST00000425018,;TUBGCP6,synonymous_variant,p.%3D,ENST00000248846,;TUBGCP6,3_prime_UTR_variant,,ENST00000439308,;SELO,downstream_gene_variant,,ENST00000380903,;TUBGCP6,non_coding_transcript_exon_variant,,ENST00000491449,;SELO,downstream_gene_variant,,ENST00000492092,;TUBGCP6,downstream_gene_variant,,ENST00000473946,;TUBGCP6,downstream_gene_variant,,ENST00000489511,;TUBGCP6,non_coding_transcript_exon_variant,,ENST00000498611,;	T	ENSG00000128159	ENST00000248846	Transcript	synonymous_variant	5007	4902	1634	L	ctG/ctA	rs779532804	.	.	-1	TUBGCP6	HGNC	18127	protein_coding	YES	CCDS14087.1	ENSP00000248846	GCP6_HUMAN	.	UPI000013CC55	.	.	.	22/25	.	Pfam_domain:PF04130,hmmpanther:PTHR19302,hmmpanther:PTHR19302:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCAGCTG	byFrequency	5	BLCA
SBF1	0	.	GRCh37	22	50897990	50897990	+	Silent	SNP	G	G	A	rs754805260	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3597C>T	p.%3D	p.S1199S	ENST00000380817	27/41	27	22	5	24	24	0	SBF1,synonymous_variant,p.%3D,ENST00000390679,;SBF1,synonymous_variant,p.%3D,ENST00000348911,;SBF1,synonymous_variant,p.%3D,ENST00000380817,;SBF1,upstream_gene_variant,,ENST00000418590,;SBF1,upstream_gene_variant,,ENST00000476293,;SBF1,upstream_gene_variant,,ENST00000470434,;	A	ENSG00000100241	ENST00000380817	Transcript	synonymous_variant	3781	3597	1199	S	agC/agT	rs754805260,COSM726718,COSM1149520	.	.	-1	SBF1	HGNC	10542	protein_coding	YES	CCDS14091.2	ENSP00000370196	MTMR5_HUMAN	Q86TK5_HUMAN	UPI00001D69ED	.	.	.	27/41	.	PROSITE_profiles:PS51339,hmmpanther:PTHR10807,hmmpanther:PTHR10807:SF43,Pfam_domain:PF06602,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCCGCTGCG	byFrequency	4	BLCA
SCO2	0	.	GRCh37	22	50962769	50962769	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>A	p.%3D	p.G24G	ENST00000543927	2/2	43	35	8	27	27	0	SCO2,synonymous_variant,p.%3D,ENST00000395693,;SCO2,synonymous_variant,p.%3D,ENST00000252785,;SCO2,synonymous_variant,p.%3D,ENST00000423348,;SCO2,synonymous_variant,p.%3D,ENST00000543927,;SCO2,synonymous_variant,p.%3D,ENST00000535425,;SCO2,synonymous_variant,p.%3D,ENST00000439934,;NCAPH2,downstream_gene_variant,,ENST00000523045,;NCAPH2,downstream_gene_variant,,ENST00000395701,;NCAPH2,downstream_gene_variant,,ENST00000420993,;NCAPH2,downstream_gene_variant,,ENST00000522304,;TYMP,downstream_gene_variant,,ENST00000425169,;NCAPH2,downstream_gene_variant,,ENST00000395698,;TYMP,downstream_gene_variant,,ENST00000252029,;TYMP,downstream_gene_variant,,ENST00000395678,;TYMP,downstream_gene_variant,,ENST00000395681,;NCAPH2,downstream_gene_variant,,ENST00000299821,;TYMP,downstream_gene_variant,,ENST00000395680,;CTA-384D8.36,non_coding_transcript_exon_variant,,ENST00000608319,;NCAPH2,downstream_gene_variant,,ENST00000520297,;TYMP,downstream_gene_variant,,ENST00000487577,;TYMP,downstream_gene_variant,,ENST00000487162,;TYMP,downstream_gene_variant,,ENST00000476284,;NCAPH2,downstream_gene_variant,,ENST00000522048,;	T	ENSG00000130489	ENST00000543927	Transcript	synonymous_variant	279	72	24	G	ggG/ggA	.	.	.	-1	SCO2	HGNC	10604	protein_coding	YES	CCDS14095.1	ENSP00000444433	SCO2_HUMAN	C9JBU1_HUMAN	UPI000013566C	.	.	.	2/2	.	hmmpanther:PTHR12151,hmmpanther:PTHR12151:SF2,PIRSF_domain:PIRSF037736	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGTCCCAGG	.	5	BLCA
BCL2L11	0	.	GRCh37	2	111881686	111881686	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364C>T	p.Gln122Ter	p.Q122*	ENST00000393256	2/4	69	62	7	58	58	0	BCL2L11,stop_gained,p.Gln60Ter,ENST00000438054,;BCL2L11,stop_gained,p.Gln122Ter,ENST00000393256,;BCL2L11,stop_gained,p.Gln62Ter,ENST00000337565,;BCL2L11,stop_gained,p.Gln62Ter,ENST00000405953,;BCL2L11,stop_gained,p.Gln62Ter,ENST00000308659,;BCL2L11,stop_gained,p.Gln122Ter,ENST00000357757,;BCL2L11,stop_gained,p.Gln122Ter,ENST00000432179,;BCL2L11,intron_variant,,ENST00000393253,;BCL2L11,downstream_gene_variant,,ENST00000393252,;BCL2L11,stop_gained,p.Gln122Ter,ENST00000437029,;BCL2L11,stop_gained,p.Gln62Ter,ENST00000415458,;BCL2L11,stop_gained,p.Gln62Ter,ENST00000433098,;BCL2L11,stop_gained,p.Gln122Ter,ENST00000436733,;BCL2L11,stop_gained,p.Gln122Ter,ENST00000431217,;BCL2L11,intron_variant,,ENST00000439718,;BCL2L11,intron_variant,,ENST00000361493,;BCL2L11,intron_variant,,ENST00000452231,;	T	ENSG00000153094	ENST00000393256	Transcript	stop_gained	637	364	122	Q/*	Cag/Tag	.	.	.	1	BCL2L11	HGNC	994	protein_coding	YES	CCDS2089.1	ENSP00000376943	B2L11_HUMAN	E9PAM9_HUMAN,C9J417_HUMAN	UPI0000033ABA	.	.	.	2/4	.	hmmpanther:PTHR12044,PIRSF_domain:PIRSF037827	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTGCCAGGCC	.	3	BLCA
ROCK2	0	.	GRCh37	2	11367470	11367470	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.778G>C	p.Glu260Gln	p.E260Q	ENST00000315872	6/33	144	124	19	111	111	0	ROCK2,missense_variant,p.Glu87Gln,ENST00000431087,;ROCK2,missense_variant,p.Glu260Gln,ENST00000315872,;ROCK2,missense_variant,p.Glu17Gln,ENST00000401753,;ROCK2,missense_variant,p.Glu260Gln,ENST00000261535,;	G	ENSG00000134318	ENST00000315872	Transcript	missense_variant	1227	778	260	E/Q	Gag/Cag	.	.	.	-1	ROCK2	HGNC	10252	protein_coding	YES	CCDS42654.1	ENSP00000317985	ROCK2_HUMAN	Q14DU5_HUMAN,E9PF63_HUMAN	UPI000034ECB0	.	deleterious(0)	probably_damaging(0.998)	6/33	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22988:SF24,hmmpanther:PTHR22988,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,PIRSF_domain:PIRSF037568,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTCAGGTG	.	4	BLCA
PTPN4	0	.	GRCh37	2	120639722	120639722	+	Missense_Mutation	SNP	C	C	G	rs781205857	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463C>G	p.Gln155Glu	p.Q155E	ENST00000263708	7/27	103	89	14	67	67	0	PTPN4,missense_variant,p.Gln155Glu,ENST00000263708,;PTPN4,incomplete_terminal_codon_variant,p.%3D,ENST00000488279,;PTPN4,non_coding_transcript_exon_variant,,ENST00000485247,;PTPN4,downstream_gene_variant,,ENST00000460289,;PTPN4,missense_variant,p.Gln73Glu,ENST00000433888,;PTPN4,upstream_gene_variant,,ENST00000430976,;	G	ENSG00000088179	ENST00000263708	Transcript	missense_variant	1234	463	155	Q/E	Cag/Gag	rs781205857,COSM1305594	.	.	1	PTPN4	HGNC	9656	protein_coding	YES	CCDS2129.1	ENSP00000263708	PTN4_HUMAN	Q580X3_HUMAN,Q53QV5_HUMAN,Q53Q76_HUMAN,Q4ZG31_HUMAN,J3KQP5_HUMAN,F5H1A0_HUMAN	UPI0000000CA9	.	deleterious(0.01)	benign(0.033)	7/27	.	PROSITE_profiles:PS50057,hmmpanther:PTHR19134:SF187,hmmpanther:PTHR19134,Pfam_domain:PF00373,Gene3D:1.20.80.10,PIRSF_domain:PIRSF000927,SMART_domains:SM00295,Superfamily_domains:SSF47031,Prints_domain:PR00935	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGTTCAGTGT	.	4	BLCA
NEB	0	.	GRCh37	2	152370885	152370885	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23074G>A	p.Glu7692Lys	p.E7692K	ENST00000397345	159/182	170	142	28	104	104	0	NEB,missense_variant,p.Glu7692Lys,ENST00000397345,;NEB,missense_variant,p.Glu7692Lys,ENST00000604864,;NEB,missense_variant,p.Glu5991Lys,ENST00000409198,;NEB,missense_variant,p.Glu5991Lys,ENST00000172853,;NEB,missense_variant,p.Glu7692Lys,ENST00000603639,;NEB,missense_variant,p.Glu7692Lys,ENST00000427231,;NEB,missense_variant,p.Glu2422Lys,ENST00000413693,;NEB,missense_variant,p.Glu278Lys,ENST00000434685,;NEB,upstream_gene_variant,,ENST00000424585,;NEB,downstream_gene_variant,,ENST00000483418,;	T	ENSG00000183091	ENST00000397345	Transcript	missense_variant	23277	23074	7692	E/K	Gaa/Aaa	.	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	possibly_damaging(0.78)	159/182	.	PROSITE_profiles:PS51216,hmmpanther:PTHR11039:SF37,hmmpanther:PTHR11039,SMART_domains:SM00227	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTCCATTT	.	4	BLCA
FASTKD1	0	.	GRCh37	2	170428200	170428200	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>A	p.Asp114Asn	p.D114N	ENST00000453153	2/15	48	37	11	35	35	0	FASTKD1,missense_variant,p.Asp114Asn,ENST00000438035,;FASTKD1,missense_variant,p.Asp114Asn,ENST00000453929,;FASTKD1,missense_variant,p.Asp114Asn,ENST00000453153,;FASTKD1,missense_variant,p.Asp114Asn,ENST00000445210,;FASTKD1,upstream_gene_variant,,ENST00000417376,;	T	ENSG00000138399	ENST00000453153	Transcript	missense_variant	687	340	114	D/N	Gac/Aac	.	.	.	-1	FASTKD1	HGNC	26150	protein_coding	YES	CCDS33318.1	ENSP00000400513	FAKD1_HUMAN	D3DPC4_HUMAN,C9JTP4_HUMAN,C9JMM4_HUMAN	UPI000050BC4D	.	tolerated(0.12)	probably_damaging(0.992)	2/15	.	hmmpanther:PTHR21228:SF29,hmmpanther:PTHR21228	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCGTCATTCA	.	5	BLCA
HOXD10	0	.	GRCh37	2	176983854	176983854	+	Silent	SNP	C	C	T	rs376251268	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.918C>T	p.%3D	p.T306T	ENST00000249501	2/2	83	68	15	68	67	1	HOXD10,synonymous_variant,p.%3D,ENST00000249501,;HOXD9,upstream_gene_variant,,ENST00000249499,;HOXD-AS2,downstream_gene_variant,,ENST00000440016,;HOXD10,non_coding_transcript_exon_variant,,ENST00000549469,;HOXD10,non_coding_transcript_exon_variant,,ENST00000490088,;	T	ENSG00000128710	ENST00000249501	Transcript	synonymous_variant	1173	918	306	T	acC/acT	rs376251268	.	.	1	HOXD10	HGNC	5133	protein_coding	YES	CCDS2266.1	ENSP00000249501	HXD10_HUMAN	.	UPI000013CC87	.	.	.	2/2	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF49,PROSITE_patterns:PS00027,Gene3D:1.10.10.60,Pfam_domain:PF00046,SMART_domains:SM00389,Superfamily_domains:SSF46689,Prints_domain:PR00024	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	CTCACCGACAG	byCluster	4	BLCA
HOXD8	0	.	GRCh37	2	176996057	176996057	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.590G>A	p.Arg197Lys	p.R197K	ENST00000313173	2/2	77	56	21	77	77	0	HOXD8,missense_variant,p.Arg93Lys,ENST00000548663,;HOXD8,missense_variant,p.Arg196Lys,ENST00000544999,;HOXD8,missense_variant,p.Arg196Lys,ENST00000450510,;HOXD8,missense_variant,p.Arg13Lys,ENST00000429017,;HOXD8,missense_variant,p.Arg197Lys,ENST00000313173,;HOXD-AS2,intron_variant,,ENST00000440016,;HOXD-AS2,downstream_gene_variant,,ENST00000426965,;	A	ENSG00000175879	ENST00000313173	Transcript	missense_variant	1217	590	197	R/K	aGa/aAa	.	.	.	1	HOXD8	HGNC	5139	protein_coding	YES	CCDS2268.1	ENSP00000315949	HXD8_HUMAN	.	UPI000012CF8B	.	deleterious(0.02)	probably_damaging(0.989)	2/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50071,hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF110,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTAGACGAA	.	5	BLCA
TTN	0	.	GRCh37	2	179437922	179437922	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72937C>G	p.Pro24313Ala	p.P24313A	ENST00000589042	326/363	83	68	15	54	54	0	TTN,missense_variant,p.Pro15373Ala,ENST00000359218,;TTN,missense_variant,p.Pro22672Ala,ENST00000591111,;TTN,missense_variant,p.Pro24313Ala,ENST00000589042,;TTN,missense_variant,p.Pro15440Ala,ENST00000342175,;TTN,missense_variant,p.Pro21745Ala,ENST00000342992,;TTN,missense_variant,p.Pro15248Ala,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;RP11-171I2.5,upstream_gene_variant,,ENST00000604215,;	C	ENSG00000155657	ENST00000589042	Transcript	missense_variant	73162	72937	24313	P/A	Cca/Gca	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATGGACTGG	.	5	BLCA
TTN	0	.	GRCh37	2	179443700	179443700	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.68057C>T	p.Ser22686Phe	p.S22686F	ENST00000589042	320/363	84	69	15	58	58	0	TTN,missense_variant,p.Ser13746Phe,ENST00000359218,;TTN,missense_variant,p.Ser21045Phe,ENST00000591111,;TTN,missense_variant,p.Ser22686Phe,ENST00000589042,;TTN,missense_variant,p.Ser13813Phe,ENST00000342175,;TTN,missense_variant,p.Ser20118Phe,ENST00000342992,;TTN,missense_variant,p.Ser13621Phe,ENST00000460472,;RP11-171I2.2,non_coding_transcript_exon_variant,,ENST00000603521,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;RP11-171I2.5,downstream_gene_variant,,ENST00000604215,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	68282	68057	22686	S/F	tCt/tTt	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	320/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGAATCC	.	5	BLCA
TTN	0	.	GRCh37	2	179583474	179583474	+	Silent	SNP	G	G	A	rs772386098	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24453C>T	p.%3D	p.L8151L	ENST00000589042	84/363	65	52	13	55	55	0	TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,downstream_gene_variant,,ENST00000592630,;TTN-AS1,downstream_gene_variant,,ENST00000431752,;RP11-171I2.1,upstream_gene_variant,,ENST00000590024,;TTN-AS1,downstream_gene_variant,,ENST00000589830,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	24678	24453	8151	L	ctC/ctT	rs772386098,COSM122168	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	84/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTAACGAGGCA	.	3	BLCA
COL3A1	0	.	GRCh37	2	189871119	189871119	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3142C>T	p.His1048Tyr	p.H1048Y	ENST00000304636	43/51	52	48	3	32	32	0	COL3A1,missense_variant,p.His1048Tyr,ENST00000304636,;COL3A1,intron_variant,,ENST00000317840,;COL3A1,downstream_gene_variant,,ENST00000467886,;COL3A1,upstream_gene_variant,,ENST00000487010,;	T	ENSG00000168542	ENST00000304636	Transcript	missense_variant	3312	3142	1048	H/Y	Cat/Tat	COSM359609	.	.	1	COL3A1	HGNC	2201	protein_coding	YES	CCDS2297.1	ENSP00000304408	CO3A1_HUMAN	Q6LBY7_HUMAN,D2JYH5_HUMAN	UPI0000456EBA	.	.	probably_damaging(0.943)	43/51	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF415	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGTCATCCA	.	2	BLCA
AOX1	0	.	GRCh37	2	201521592	201521592	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3103G>C	p.Asp1035His	p.D1035H	ENST00000374700	27/35	63	53	9	42	42	0	AOX1,missense_variant,p.Asp1035His,ENST00000374700,;AOX1,upstream_gene_variant,,ENST00000260930,;AOX1,non_coding_transcript_exon_variant,,ENST00000485106,;AOX1,non_coding_transcript_exon_variant,,ENST00000465297,;	C	ENSG00000138356	ENST00000374700	Transcript	missense_variant	3344	3103	1035	D/H	Gat/Cat	COSM1691818	.	.	1	AOX1	HGNC	553	protein_coding	YES	CCDS33360.1	ENSP00000363832	ADO_HUMAN	C9J244_HUMAN,B4DNI5_HUMAN	UPI0000071863	.	deleterious(0)	probably_damaging(1)	27/35	.	hmmpanther:PTHR11908,Pfam_domain:PF02738,Gene3D:3.30.365.10,TIGRFAM_domain:TIGR02969,PIRSF_domain:PIRSF000127,Superfamily_domains:SSF56003	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTTGATGGC	.	5	BLCA
CASP8	0	.	GRCh37	2	202149808	202149808	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1249C>T	p.Gln417Ter	p.Q417*	ENST00000358485	8/9	125	95	30	94	94	0	CASP8,stop_gained,p.Gln343Ter,ENST00000323492,;CASP8,stop_gained,p.Gln375Ter,ENST00000264275,;CASP8,stop_gained,p.Gln417Ter,ENST00000358485,;CASP8,stop_gained,p.Gln137Ter,ENST00000444430,;CASP8,stop_gained,p.Gln343Ter,ENST00000392263,;CASP8,stop_gained,p.Gln358Ter,ENST00000432109,;CASP8,stop_gained,p.Gln274Ter,ENST00000264274,;CASP8,3_prime_UTR_variant,,ENST00000392266,;CASP8,3_prime_UTR_variant,,ENST00000392259,;ALS2CR12,downstream_gene_variant,,ENST00000415745,;ALS2CR12,downstream_gene_variant,,ENST00000405148,;ALS2CR12,downstream_gene_variant,,ENST00000392257,;CASP8,downstream_gene_variant,,ENST00000392258,;ALS2CR12,downstream_gene_variant,,ENST00000439709,;ALS2CR12,downstream_gene_variant,,ENST00000286190,;CASP8,downstream_gene_variant,,ENST00000424461,;CASP8,non_coding_transcript_exon_variant,,ENST00000339403,;ALS2CR12,downstream_gene_variant,,ENST00000494171,;ALS2CR12,downstream_gene_variant,,ENST00000494223,;	T	ENSG00000064012	ENST00000358485	Transcript	stop_gained	1445	1249	417	Q/*	Cag/Tag	COSM3713592,COSM3713591,COSM3713590	.	.	1	CASP8	HGNC	1509	protein_coding	YES	CCDS42798.1	ENSP00000351273	CASP8_HUMAN	E7EVN1_HUMAN,E7ETB7_HUMAN,E7EQ01_HUMAN	UPI0000456ECD	.	.	.	8/9	.	PROSITE_profiles:PS50208,hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF141,PROSITE_patterns:PS01122,Pfam_domain:PF00656,Gene3D:3.40.50.1460,SMART_domains:SM00115,Superfamily_domains:SSF52129,Prints_domain:PR00376	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATTCAGGCT	.	5	BLCA
CDK15	0	.	GRCh37	2	202687551	202687551	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.468G>C	p.Leu156Phe	p.L156F	ENST00000450471	5/14	96	77	19	79	79	0	CDK15,missense_variant,p.Leu156Phe,ENST00000434439,;CDK15,missense_variant,p.Leu156Phe,ENST00000450471,;CDK15,missense_variant,p.Leu105Phe,ENST00000260967,;CDK15,missense_variant,p.Leu105Phe,ENST00000410091,;CDK15,missense_variant,p.Leu156Phe,ENST00000374598,;CDK15,non_coding_transcript_exon_variant,,ENST00000488419,;CDK15,3_prime_UTR_variant,,ENST00000451080,;UBE2V1P11,upstream_gene_variant,,ENST00000411559,;	C	ENSG00000138395	ENST00000450471	Transcript	missense_variant	554	468	156	L/F	ttG/ttC	.	.	.	1	CDK15	HGNC	14434	protein_coding	YES	CCDS58747.1	ENSP00000406472	CDK15_HUMAN	.	UPI0001D3BDAF	.	deleterious(0)	probably_damaging(0.972)	5/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24056:SF159,hmmpanther:PTHR24056,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTTGAAACA	.	5	BLCA
ICA1L	0	.	GRCh37	2	203684529	203684529	+	Silent	SNP	C	C	T	rs770716015	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453G>A	p.%3D	p.R151R	ENST00000392237	6/14	105	88	17	74	74	0	ICA1L,synonymous_variant,p.%3D,ENST00000425178,;ICA1L,synonymous_variant,p.%3D,ENST00000392237,;ICA1L,synonymous_variant,p.%3D,ENST00000358299,;ICA1L,3_prime_UTR_variant,,ENST00000418208,;ICA1L,intron_variant,,ENST00000420558,;ICA1L,downstream_gene_variant,,ENST00000441547,;ICA1L,downstream_gene_variant,,ENST00000435143,;ICA1L,downstream_gene_variant,,ENST00000454326,;ICA1L,downstream_gene_variant,,ENST00000416760,;ICA1L,downstream_gene_variant,,ENST00000450143,;ICA1L,downstream_gene_variant,,ENST00000457524,;ICA1L,downstream_gene_variant,,ENST00000432273,;ICA1L,downstream_gene_variant,,ENST00000412210,;ICA1L,downstream_gene_variant,,ENST00000419460,;ICA1L,synonymous_variant,p.%3D,ENST00000438804,;ICA1L,non_coding_transcript_exon_variant,,ENST00000476602,;ICA1L,non_coding_transcript_exon_variant,,ENST00000494560,;ICA1L,downstream_gene_variant,,ENST00000437978,;	T	ENSG00000163596	ENST00000392237	Transcript	synonymous_variant	611	453	151	R	cgG/cgA	rs770716015	.	.	-1	ICA1L	HGNC	14442	protein_coding	YES	CCDS2354.1	ENSP00000376070	ICA1L_HUMAN	C9JRB6_HUMAN,C9JP49_HUMAN,C9JEP0_HUMAN,C9JEN4_HUMAN,C9JDM8_HUMAN,C9JDK6_HUMAN,C9JAQ4_HUMAN,C9J9Z8_HUMAN,C9J5Z0_HUMAN,C9J1M7_HUMAN	UPI000007263F	.	.	.	6/14	.	PROSITE_profiles:PS50870,hmmpanther:PTHR10164,hmmpanther:PTHR10164:SF2,Pfam_domain:PF06456,Gene3D:1.20.1270.60,SMART_domains:SM01015,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATCCGATT	.	4	BLCA
ERBB4	0	.	GRCh37	2	213403270	213403270	+	5'UTR	SNP	G	G	C	rs760706766	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-16C>G	.	.	ENST00000342788	1/28	64	54	10	37	37	0	ERBB4,5_prime_UTR_variant,,ENST00000436443,;ERBB4,5_prime_UTR_variant,,ENST00000342788,;ERBB4,upstream_gene_variant,,ENST00000402597,;ERBB4,upstream_gene_variant,,ENST00000260943,;ERBB4,non_coding_transcript_exon_variant,,ENST00000484594,;	C	ENSG00000178568	ENST00000342788	Transcript	5_prime_UTR_variant	296	.	.	.	.	rs760706766	.	.	-1	ERBB4	HGNC	3432	protein_coding	YES	CCDS2394.1	ENSP00000342235	ERBB4_HUMAN	Q580Q7_HUMAN,Q53T57_HUMAN,Q53R48_HUMAN,Q53R25_HUMAN,Q53QS8_HUMAN,Q4ZG14_HUMAN,E9PDR1_HUMAN	UPI00000499DF	.	.	.	1/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCAGATCCC	byFrequency	4	BLCA
CCDC108	0	.	GRCh37	2	219868711	219868711	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5518G>C	p.Glu1840Gln	p.E1840Q	ENST00000341552	33/35	133	122	11	112	112	0	CCDC108,missense_variant,p.Glu1840Gln,ENST00000453220,;CCDC108,missense_variant,p.Glu1840Gln,ENST00000341552,;CCDC108,missense_variant,p.Glu1840Gln,ENST00000441968,;MIR375,upstream_gene_variant,,ENST00000362103,;AC097468.4,intron_variant,,ENST00000441450,;	G	ENSG00000181378	ENST00000341552	Transcript	missense_variant	5602	5518	1840	E/Q	Gag/Cag	.	.	.	-1	CCDC108	HGNC	25325	protein_coding	YES	CCDS2430.2	ENSP00000340776	CC108_HUMAN	C9JLP9_HUMAN,C9JIV0_HUMAN	UPI0000609097	.	tolerated(0.19)	unknown(0)	33/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCCTCCTTCA	.	3	BLCA
CCDC108	0	.	GRCh37	2	219868912	219868912	+	Missense_Mutation	SNP	C	C	T	rs779045715	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5317G>A	p.Glu1773Lys	p.E1773K	ENST00000341552	33/35	58	53	5	59	59	0	CCDC108,missense_variant,p.Glu1773Lys,ENST00000453220,;CCDC108,missense_variant,p.Glu1773Lys,ENST00000341552,;CCDC108,missense_variant,p.Glu1773Lys,ENST00000441968,;MIR375,upstream_gene_variant,,ENST00000362103,;AC097468.4,intron_variant,,ENST00000441450,;	T	ENSG00000181378	ENST00000341552	Transcript	missense_variant	5401	5317	1773	E/K	Gaa/Aaa	rs779045715,COSM1016534	.	.	-1	CCDC108	HGNC	25325	protein_coding	YES	CCDS2430.2	ENSP00000340776	CC108_HUMAN	C9JLP9_HUMAN,C9JIV0_HUMAN	UPI0000609097	.	tolerated(0.28)	unknown(0)	33/35	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTCTTCTT	byFrequency	2	BLCA
SLC23A3	0	.	GRCh37	2	220034310	220034310	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253C>T	p.Gln85Ter	p.Q85*	ENST00000455516	2/12	102	89	12	85	85	0	SLC23A3,stop_gained,p.Gln85Ter,ENST00000295738,;SLC23A3,stop_gained,p.Gln27Ter,ENST00000396775,;SLC23A3,stop_gained,p.Gln85Ter,ENST00000430764,;SLC23A3,stop_gained,p.Gln85Ter,ENST00000409878,;SLC23A3,stop_gained,p.Gln85Ter,ENST00000409370,;SLC23A3,stop_gained,p.Gln85Ter,ENST00000455516,;CNPPD1,downstream_gene_variant,,ENST00000451647,;CNPPD1,downstream_gene_variant,,ENST00000360507,;CNPPD1,downstream_gene_variant,,ENST00000409789,;CNPPD1,downstream_gene_variant,,ENST00000453038,;SLC23A3,stop_gained,p.Gln85Ter,ENST00000318673,;SLC23A3,missense_variant,p.Ser66Leu,ENST00000421779,;SLC23A3,splice_region_variant,,ENST00000497918,;SLC23A3,non_coding_transcript_exon_variant,,ENST00000498327,;SLC23A3,non_coding_transcript_exon_variant,,ENST00000465580,;SLC23A3,non_coding_transcript_exon_variant,,ENST00000461812,;SLC23A3,upstream_gene_variant,,ENST00000414999,;	A	ENSG00000213901	ENST00000455516	Transcript	stop_gained	301	253	85	Q/*	Cag/Tag	.	.	.	-1	SLC23A3	HGNC	20601	protein_coding	YES	CCDS46517.1	ENSP00000406546	S23A3_HUMAN	.	UPI0001914DC9	.	.	.	2/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11119,hmmpanther:PTHR11119:SF13,Pfam_domain:PF00860	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTGAGAAG	.	4	BLCA
GLB1L	0	.	GRCh37	2	220102578	220102578	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1443C>T	p.%3D	p.L481L	ENST00000295759	15/17	46	36	9	45	45	0	GLB1L,synonymous_variant,p.%3D,ENST00000409640,;GLB1L,synonymous_variant,p.%3D,ENST00000295759,;GLB1L,synonymous_variant,p.%3D,ENST00000356283,;GLB1L,synonymous_variant,p.%3D,ENST00000392089,;ANKZF1,downstream_gene_variant,,ENST00000410034,;ANKZF1,downstream_gene_variant,,ENST00000409849,;GLB1L,downstream_gene_variant,,ENST00000440853,;GLB1L,downstream_gene_variant,,ENST00000428427,;ANKZF1,downstream_gene_variant,,ENST00000323348,;GLB1L,non_coding_transcript_exon_variant,,ENST00000497855,;ANKZF1,downstream_gene_variant,,ENST00000490526,;GLB1L,downstream_gene_variant,,ENST00000471516,;ANKZF1,downstream_gene_variant,,ENST00000465550,;GLB1L,downstream_gene_variant,,ENST00000447002,;ANKZF1,downstream_gene_variant,,ENST00000460966,;ANKZF1,downstream_gene_variant,,ENST00000468387,;ANKZF1,downstream_gene_variant,,ENST00000474225,;GLB1L,downstream_gene_variant,,ENST00000459951,;ANKZF1,downstream_gene_variant,,ENST00000493563,;ANKZF1,downstream_gene_variant,,ENST00000467884,;ANKZF1,downstream_gene_variant,,ENST00000483188,;ANKZF1,downstream_gene_variant,,ENST00000477479,;ANKZF1,downstream_gene_variant,,ENST00000463792,;ANKZF1,downstream_gene_variant,,ENST00000496346,;ANKZF1,downstream_gene_variant,,ENST00000475202,;GLB1L,downstream_gene_variant,,ENST00000467548,;ANKZF1,downstream_gene_variant,,ENST00000486203,;ANKZF1,downstream_gene_variant,,ENST00000461731,;ANKZF1,downstream_gene_variant,,ENST00000494886,;ANKZF1,downstream_gene_variant,,ENST00000435521,;	A	ENSG00000163521	ENST00000295759	Transcript	synonymous_variant	1757	1443	481	L	ctC/ctT	.	.	.	-1	GLB1L	HGNC	28129	protein_coding	YES	CCDS2437.1	ENSP00000295759	GLB1L_HUMAN	C9JE41_HUMAN,C9J1Y9_HUMAN	UPI000003ED32	.	.	.	15/17	.	Superfamily_domains:SSF49785,PIRSF_domain:PIRSF006336,Gene3D:2.60.120.260,hmmpanther:PTHR23421,hmmpanther:PTHR23421:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAGCCT	.	5	BLCA
SGPP2	0	.	GRCh37	2	223423308	223423308	+	Frame_Shift_Del	DEL	C	C	-	rs762776700	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892delC	p.Gln298SerfsTer24	p.Q298Sfs*24	ENST00000321276	5/5	82	71	11	48	48	0	SGPP2,frameshift_variant,p.Gln298SerfsTer24,ENST00000321276,;	-	ENSG00000163082	ENST00000321276	Transcript	frameshift_variant	977	891	297	F/X	ttC/tt	rs762776700	.	.	1	SGPP2	HGNC	19953	protein_coding	YES	CCDS2453.1	ENSP00000315137	SGPP2_HUMAN	Q53QF5_HUMAN,Q4ZFX2_HUMAN,Q3B870_HUMAN	UPI000004A1E3	.	.	.	5/5	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14969:SF14,hmmpanther:PTHR14969	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTCTTCCAGCT	.	3	BLCA
SPHKAP	0	.	GRCh37	2	228882210	228882210	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3360G>A	p.%3D	p.S1120S	ENST00000392056	7/12	21	16	5	30	30	0	SPHKAP,synonymous_variant,p.%3D,ENST00000344657,;SPHKAP,synonymous_variant,p.%3D,ENST00000392056,;	T	ENSG00000153820	ENST00000392056	Transcript	synonymous_variant	3407	3360	1120	S	tcG/tcA	COSM3798711,COSM3938969,COSM3798710,COSM3938968	.	.	-1	SPHKAP	HGNC	30619	protein_coding	YES	CCDS46537.1	ENSP00000375909	SPKAP_HUMAN	.	UPI0000411D7E	.	.	.	7/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10226,hmmpanther:PTHR10226:SF7	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCGACTG	.	5	BLCA
EFHD1	0	.	GRCh37	2	233527636	233527636	+	Missense_Mutation	SNP	G	G	A	rs745364469	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>A	p.Asp143Asn	p.D143N	ENST00000264059	2/4	52	43	9	23	23	0	EFHD1,missense_variant,p.Asp31Asn,ENST00000409708,;EFHD1,missense_variant,p.Asp31Asn,ENST00000427698,;EFHD1,missense_variant,p.Asp31Asn,ENST00000410095,;EFHD1,missense_variant,p.Asp143Asn,ENST00000264059,;EFHD1,missense_variant,p.Asp47Asn,ENST00000409613,;EFHD1,3_prime_UTR_variant,,ENST00000442845,;	A	ENSG00000115468	ENST00000264059	Transcript	missense_variant	904	427	143	D/N	Gat/Aat	rs745364469,COSM3426210	.	.	1	EFHD1	HGNC	29556	protein_coding	YES	CCDS2497.1	ENSP00000264059	EFHD1_HUMAN	Q8WYH2_HUMAN,Q53SA2_HUMAN,Q53S38_HUMAN,C9JTV4_HUMAN,B4DEE0_HUMAN	UPI00001362A7	.	deleterious(0)	probably_damaging(1)	2/4	.	PROSITE_profiles:PS50222,hmmpanther:PTHR13025,hmmpanther:PTHR13025:SF5,Pfam_domain:PF13499,Gene3D:1.10.238.10,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTCGATGGC	.	5	BLCA
COL6A3	0	.	GRCh37	2	238285527	238285527	+	Silent	SNP	G	G	A	rs145203676	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2958C>T	p.%3D	p.I986I	ENST00000295550	7/44	187	173	14	127	127	0	COL6A3,synonymous_variant,p.%3D,ENST00000392003,;COL6A3,synonymous_variant,p.%3D,ENST00000472056,;COL6A3,synonymous_variant,p.%3D,ENST00000409809,;COL6A3,synonymous_variant,p.%3D,ENST00000295550,;COL6A3,synonymous_variant,p.%3D,ENST00000347401,;COL6A3,synonymous_variant,p.%3D,ENST00000346358,;COL6A3,synonymous_variant,p.%3D,ENST00000353578,;COL6A3,synonymous_variant,p.%3D,ENST00000392004,;COL6A3,downstream_gene_variant,,ENST00000433762,;	A	ENSG00000163359	ENST00000295550	Transcript	synonymous_variant	3411	2958	986	I	atC/atT	rs145203676,COSM3909937,COSM3909938	.	.	-1	COL6A3	HGNC	2213	protein_coding	YES	CCDS33412.1	ENSP00000295550	CO6A3_HUMAN	Q8N4Z1_HUMAN,D9ZGF2_HUMAN	UPI0000456F39	.	.	.	7/44	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22992,hmmpanther:PTHR22992:SF83,Pfam_domain:PF00092,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCACGATCTG	byCluster	2	BLCA
COL6A3	0	.	GRCh37	2	238296571	238296571	+	Silent	SNP	G	G	A	rs369160080	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966C>T	p.%3D	p.I322I	ENST00000295550	4/44	47	41	6	31	31	0	COL6A3,synonymous_variant,p.%3D,ENST00000409809,;COL6A3,synonymous_variant,p.%3D,ENST00000295550,;COL6A3,synonymous_variant,p.%3D,ENST00000433762,;COL6A3,synonymous_variant,p.%3D,ENST00000346358,;COL6A3,synonymous_variant,p.%3D,ENST00000491233,;COL6A3,synonymous_variant,p.%3D,ENST00000353578,;COL6A3,synonymous_variant,p.%3D,ENST00000392004,;COL6A3,intron_variant,,ENST00000392003,;COL6A3,intron_variant,,ENST00000472056,;COL6A3,intron_variant,,ENST00000347401,;	A	ENSG00000163359	ENST00000295550	Transcript	synonymous_variant	1419	966	322	I	atC/atT	rs369160080	.	.	-1	COL6A3	HGNC	2213	protein_coding	YES	CCDS33412.1	ENSP00000295550	CO6A3_HUMAN	Q8N4Z1_HUMAN,D9ZGF2_HUMAN	UPI0000456F39	.	.	.	4/44	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22992,hmmpanther:PTHR22992:SF83,Pfam_domain:PF00092,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCCGATATT	byFrequency|byCluster	4	BLCA
MLPH	0	.	GRCh37	2	238462396	238462396	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*161G>A	.	.	ENST00000264605	16/16	37	34	3	13	13	0	MLPH,3_prime_UTR_variant,,ENST00000434770,;MLPH,3_prime_UTR_variant,,ENST00000409373,;MLPH,3_prime_UTR_variant,,ENST00000264605,;MLPH,3_prime_UTR_variant,,ENST00000437893,;MLPH,3_prime_UTR_variant,,ENST00000410032,;MLPH,3_prime_UTR_variant,,ENST00000338530,;MLPH,downstream_gene_variant,,ENST00000445024,;MLPH,downstream_gene_variant,,ENST00000415753,;MLPH,non_coding_transcript_exon_variant,,ENST00000495439,;MLPH,non_coding_transcript_exon_variant,,ENST00000477457,;MLPH,non_coding_transcript_exon_variant,,ENST00000464123,;MLPH,non_coding_transcript_exon_variant,,ENST00000489967,;MLPH,downstream_gene_variant,,ENST00000432475,;MLPH,downstream_gene_variant,,ENST00000478712,;	A	ENSG00000115648	ENST00000264605	Transcript	3_prime_UTR_variant	2258	.	.	.	.	.	.	.	1	MLPH	HGNC	29643	protein_coding	YES	CCDS2518.1	ENSP00000264605	MELPH_HUMAN	Q53QV8_HUMAN,Q53QF3_HUMAN,C9JKV5_HUMAN,C9JI01_HUMAN	UPI00000730BF	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGACAGCGACA	.	2	BLCA
ADCY3	0	.	GRCh37	2	25062816	25062816	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1281G>C	p.Gln427His	p.Q427H	ENST00000260600	6/21	91	82	9	70	70	0	ADCY3,missense_variant,p.Gln427His,ENST00000260600,;ADCY3,missense_variant,p.Gln377His,ENST00000435135,;ADCY3,missense_variant,p.Gln98His,ENST00000606682,;ADCY3,missense_variant,p.Gln183His,ENST00000427849,;ADCY3,missense_variant,p.Gln38His,ENST00000405392,;ADCY3,downstream_gene_variant,,ENST00000433852,;ADCY3,non_coding_transcript_exon_variant,,ENST00000454027,;ADCY3,downstream_gene_variant,,ENST00000479517,;	G	ENSG00000138031	ENST00000260600	Transcript	missense_variant	2133	1281	427	Q/H	caG/caC	COSM442669	.	.	-1	ADCY3	HGNC	234	protein_coding	YES	CCDS1715.1	ENSP00000260600	ADCY3_HUMAN	Q8NBM1_HUMAN,C9J969_HUMAN	UPI000013D0ED	.	deleterious(0)	probably_damaging(0.987)	6/21	.	PROSITE_profiles:PS50125,hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF221,PROSITE_patterns:PS00452,Pfam_domain:PF00211,Gene3D:3.30.70.1230,SMART_domains:SM00044,Superfamily_domains:SSF55073	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGCTTCTGGCC	.	3	BLCA
DRC1	0	.	GRCh37	2	26654847	26654847	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861C>G	p.Ile287Met	p.I287M	ENST00000288710	7/17	40	34	6	29	29	0	DRC1,missense_variant,p.Ile287Met,ENST00000288710,;DRC1,missense_variant,p.Ile116Met,ENST00000442810,;DRC1,non_coding_transcript_exon_variant,,ENST00000483675,;DRC1,3_prime_UTR_variant,,ENST00000421869,;DRC1,non_coding_transcript_exon_variant,,ENST00000487307,;DRC1,downstream_gene_variant,,ENST00000497651,;	G	ENSG00000157856	ENST00000288710	Transcript	missense_variant	935	861	287	I/M	atC/atG	.	.	.	1	DRC1	HGNC	24245	protein_coding	YES	CCDS1723.1	ENSP00000288710	DRC1_HUMAN	.	UPI000013DF36	.	tolerated(0.56)	probably_damaging(0.974)	7/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21625,hmmpanther:PTHR21625:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGATCAAGAT	.	3	BLCA
MAPRE3	0	.	GRCh37	2	27249175	27249175	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.805G>C	p.Glu269Gln	p.E269Q	ENST00000233121	7/7	54	50	3	28	28	0	MAPRE3,missense_variant,p.Glu254Gln,ENST00000402218,;MAPRE3,missense_variant,p.Glu269Gln,ENST00000233121,;MAPRE3,missense_variant,p.Glu254Gln,ENST00000405074,;MAPRE3,downstream_gene_variant,,ENST00000458529,;MAPRE3,downstream_gene_variant,,ENST00000491354,;MAPRE3,downstream_gene_variant,,ENST00000481222,;MAPRE3,downstream_gene_variant,,ENST00000474367,;MAPRE3,downstream_gene_variant,,ENST00000475633,;MAPRE3,downstream_gene_variant,,ENST00000494788,;	C	ENSG00000084764	ENST00000233121	Transcript	missense_variant	1003	805	269	E/Q	Gag/Cag	.	.	.	1	MAPRE3	HGNC	6892	protein_coding	YES	CCDS1731.1	ENSP00000233121	MARE3_HUMAN	C9JB30_HUMAN	UPI000012EB1C	.	tolerated(0.11)	unknown(0)	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10623,hmmpanther:PTHR10623:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACGATGAGATT	.	2	BLCA
OXER1	0	.	GRCh37	2	42991141	42991141	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.179C>G	p.Ser60Cys	p.S60C	ENST00000378661	1/1	29	21	8	33	33	0	OXER1,missense_variant,p.Ser60Cys,ENST00000378661,;HAAO,downstream_gene_variant,,ENST00000294973,;HAAO,downstream_gene_variant,,ENST00000402698,;HAAO,downstream_gene_variant,,ENST00000406007,;HAAO,downstream_gene_variant,,ENST00000404451,;	C	ENSG00000162881	ENST00000378661	Transcript	missense_variant	261	179	60	S/C	tCc/tGc	.	.	.	-1	OXER1	HGNC	24884	protein_coding	YES	CCDS1810.1	ENSP00000367930	OXER1_HUMAN	.	UPI000003BCC9	.	tolerated_low_confidence(0.07)	benign(0.068)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24231:SF1,hmmpanther:PTHR24231	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAGGAGGGA	.	5	BLCA
MSH2	0	.	GRCh37	2	47641437	47641437	+	Missense_Mutation	SNP	C	C	G	rs781569442	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.822C>G	p.Ile274Met	p.I274M	ENST00000233146	5/16	64	50	13	36	36	0	MSH2,missense_variant,p.Ile274Met,ENST00000406134,;MSH2,missense_variant,p.Ile274Met,ENST00000233146,;MSH2,missense_variant,p.Ile208Met,ENST00000543555,;MSH2,downstream_gene_variant,,ENST00000454849,;	G	ENSG00000095002	ENST00000233146	Transcript	missense_variant	1045	822	274	I/M	atC/atG	rs781569442	.	.	1	MSH2	HGNC	7325	protein_coding	YES	CCDS1834.1	ENSP00000233146	MSH2_HUMAN	Q53RU4_HUMAN,C9J809_HUMAN,B4DL39_HUMAN	UPI00000405F6	.	deleterious(0.02)	possibly_damaging(0.615)	5/16	.	hmmpanther:PTHR11361,hmmpanther:PTHR11361:SF35,Pfam_domain:PF05188,Gene3D:3.30.420.110,PIRSF_domain:PIRSF005813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAATCAAGTT	.	5	BLCA
MTIF2	0	.	GRCh37	2	55467162	55467162	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1855G>A	p.Glu619Lys	p.E619K	ENST00000394600	15/17	51	42	9	32	32	0	MTIF2,missense_variant,p.Glu297Lys,ENST00000418823,;MTIF2,missense_variant,p.Glu619Lys,ENST00000394600,;MTIF2,missense_variant,p.Glu619Lys,ENST00000403721,;MTIF2,missense_variant,p.Glu619Lys,ENST00000263629,;RPS27A,downstream_gene_variant,,ENST00000272317,;RPS27A,downstream_gene_variant,,ENST00000404735,;RPS27A,downstream_gene_variant,,ENST00000402285,;RPS27A,downstream_gene_variant,,ENST00000478196,;RPS27A,downstream_gene_variant,,ENST00000495843,;	T	ENSG00000085760	ENST00000394600	Transcript	missense_variant	2592	1855	619	E/K	Gaa/Aaa	.	.	.	-1	MTIF2	HGNC	7441	protein_coding	YES	CCDS1853.1	ENSP00000378099	IF2M_HUMAN	E7EW07_HUMAN,E7ESE3_HUMAN,C9JIY5_HUMAN,B5MCU1_HUMAN	UPI000013D42F	.	tolerated(0.76)	benign(0.009)	15/17	.	HAMAP:MF_00100_B,hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF113,Gene3D:2.40.30.10,Superfamily_domains:SSF50447,Superfamily_domains:0037976	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCCACAG	.	5	BLCA
SMEK2	0	.	GRCh37	2	55816047	55816047	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967G>C	p.Glu323Gln	p.E323Q	ENST00000345102	5/17	102	97	5	78	78	0	SMEK2,missense_variant,p.Glu323Gln,ENST00000345102,;SMEK2,missense_variant,p.Glu323Gln,ENST00000272313,;SMEK2,missense_variant,p.Glu323Gln,ENST00000407823,;	G	ENSG00000138041	ENST00000345102	Transcript	missense_variant	1269	967	323	E/Q	Gag/Cag	.	.	.	-1	SMEK2	HGNC	29267	protein_coding	YES	CCDS46289.1	ENSP00000339769	P4R3B_HUMAN	.	UPI00001C1DBA	.	tolerated(0.07)	possibly_damaging(0.555)	5/17	.	hmmpanther:PTHR23318:SF2,hmmpanther:PTHR23318,Pfam_domain:PF04802,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCATCTG	.	2	BLCA
KIAA1841	0	.	GRCh37	2	61344627	61344627	+	Missense_Mutation	SNP	G	G	A	rs769628991	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1891G>A	p.Asp631Asn	p.D631N	ENST00000402291	19/22	88	69	18	63	63	0	KIAA1841,missense_variant,p.Asp631Asn,ENST00000402291,;KIAA1841,missense_variant,p.Asp631Asn,ENST00000295031,;KIAA1841,missense_variant,p.Asp631Asn,ENST00000453873,;KIAA1841,missense_variant,p.Asp631Asn,ENST00000356719,;KIAA1841,non_coding_transcript_exon_variant,,ENST00000488322,;KIAA1841,non_coding_transcript_exon_variant,,ENST00000462959,;KIAA1841,3_prime_UTR_variant,,ENST00000453186,;KIAA1841,non_coding_transcript_exon_variant,,ENST00000471625,;	A	ENSG00000162929	ENST00000402291	Transcript	missense_variant	2132	1891	631	D/N	Gat/Aat	rs769628991	.	.	1	KIAA1841	HGNC	29387	protein_coding	YES	CCDS46296.1	ENSP00000385579	K1841_HUMAN	.	UPI0000197410	.	tolerated(0.11)	probably_damaging(0.996)	19/22	.	hmmpanther:PTHR20946:SF0,hmmpanther:PTHR20946	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTGGGATGCC	.	5	BLCA
LGALSL	0	.	GRCh37	2	64685625	64685625	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*63G>A	.	.	ENST00000238875	5/5	89	72	17	75	75	0	LGALSL,3_prime_UTR_variant,,ENST00000409537,;LGALSL,3_prime_UTR_variant,,ENST00000238875,;LGALSL,downstream_gene_variant,,ENST00000464281,;AC008074.3,upstream_gene_variant,,ENST00000441630,;LGALSL,downstream_gene_variant,,ENST00000420552,;LGALSL,downstream_gene_variant,,ENST00000462737,;	A	ENSG00000119862	ENST00000238875	Transcript	3_prime_UTR_variant	1036	.	.	.	.	.	.	.	1	LGALSL	HGNC	25012	protein_coding	YES	CCDS1877.1	ENSP00000238875	LEGL_HUMAN	U3KQ88_HUMAN	UPI000013CA5E	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGAAGAAGTG	.	3	BLCA
SEMA4F	0	.	GRCh37	2	74884980	74884980	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358G>A	p.Asp120Asn	p.D120N	ENST00000357877	4/14	109	81	28	67	67	0	SEMA4F,missense_variant,p.Asp120Asn,ENST00000357877,;SEMA4F,intron_variant,,ENST00000453930,;SEMA4F,intron_variant,,ENST00000434486,;SEMA4F,intron_variant,,ENST00000339773,;SEMA4F,missense_variant,p.Asp120Asn,ENST00000420077,;SEMA4F,intron_variant,,ENST00000458114,;SEMA4F,intron_variant,,ENST00000446927,;SEMA4F,downstream_gene_variant,,ENST00000416236,;	A	ENSG00000135622	ENST00000357877	Transcript	missense_variant	507	358	120	D/N	Gac/Aac	.	.	.	1	SEMA4F	HGNC	10734	protein_coding	YES	CCDS1955.1	ENSP00000350547	SEM4F_HUMAN	.	UPI0000001BF5	.	tolerated(0.49)	benign(0.312)	4/14	.	Superfamily_domains:SSF101912,SMART_domains:SM00630,Pfam_domain:PF01403,Gene3D:2.130.10.10,hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF72,PROSITE_profiles:PS51004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCAGGACGAA	.	5	BLCA
EVA1A	0	.	GRCh37	2	75720543	75720543	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278C>T	p.Ser93Phe	p.S93F	ENST00000233712	4/4	50	37	13	34	34	0	EVA1A,missense_variant,p.Ser93Phe,ENST00000410113,;EVA1A,missense_variant,p.Ser93Phe,ENST00000233712,;EVA1A,missense_variant,p.Ser93Phe,ENST00000452003,;EVA1A,missense_variant,p.Ser93Phe,ENST00000432649,;EVA1A,missense_variant,p.Ser93Phe,ENST00000393913,;EVA1A,missense_variant,p.Ser93Phe,ENST00000410071,;EVA1A,missense_variant,p.Ser81Phe,ENST00000410010,;snoU109,downstream_gene_variant,,ENST00000459339,;EVA1A,intron_variant,,ENST00000485891,;EVA1A,intron_variant,,ENST00000490746,;	A	ENSG00000115363	ENST00000233712	Transcript	missense_variant	716	278	93	S/F	tCc/tTc	.	.	.	-1	EVA1A	HGNC	25816	protein_coding	YES	CCDS1959.1	ENSP00000233712	EVA1A_HUMAN	C9JX09_HUMAN,C9J5M4_HUMAN	UPI0000071E24	.	deleterious(0)	probably_damaging(0.999)	4/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12011,Pfam_domain:PF14851	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCGGACACG	.	5	BLCA
TEX37	0	.	GRCh37	2	88828854	88828854	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.405C>T	p.%3D	p.L135L	ENST00000303254	4/4	63	52	10	55	55	0	TEX37,synonymous_variant,p.%3D,ENST00000303254,;	T	ENSG00000172073	ENST00000303254	Transcript	synonymous_variant	547	405	135	L	ctC/ctT	COSM3910754	.	.	1	TEX37	HGNC	26341	protein_coding	YES	CCDS2003.1	ENSP00000307142	TEX37_HUMAN	.	UPI0000072E9C	.	.	.	4/4	.	Pfam_domain:PF15217	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCGTGGA	.	5	BLCA
IGKV6D-41	0	.	GRCh37	2	90108864	90108864	+	Frame_Shift_Del	DEL	C	C	-	rs375933385	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130delC	p.Gln44ArgfsTer?	p.Q44Rfs*?	ENST00000390271	2/2	48	40	8	43	43	0	IGKV6D-41,frameshift_variant,p.Gln44ArgfsTer?,ENST00000390271,;	-	ENSG00000211626	ENST00000390271	Transcript	frameshift_variant	155	129	43	C/X	tgC/tg	rs375933385	.	.	1	IGKV6D-41	HGNC	5838	IG_V_gene	YES	.	ENSP00000374806	.	.	UPI0000116D04	.	.	.	2/2	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00406,Pfam_domain:PF07686,Gene3D:2.60.40.10,hmmpanther:PTHR23267,hmmpanther:PTHR23267:SF146,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CACCTGCCAGGC	byFrequency|byCluster	3	BLCA
ADAM17	0	.	GRCh37	2	9637342	9637342	+	Missense_Mutation	SNP	C	C	T	rs549183501	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1684G>A	p.Glu562Lys	p.E562K	ENST00000310823	14/19	114	95	18	56	56	0	ADAM17,missense_variant,p.Glu562Lys,ENST00000310823,;IAH1,downstream_gene_variant,,ENST00000481367,;IAH1,downstream_gene_variant,,ENST00000545602,;	T	ENSG00000151694	ENST00000310823	Transcript	missense_variant	1867	1684	562	E/K	Gaa/Aaa	rs549183501	.	.	-1	ADAM17	HGNC	195	protein_coding	YES	CCDS1665.1	ENSP00000309968	ADA17_HUMAN	Q53S40_HUMAN,Q53RS1_HUMAN,Q53RF5_HUMAN,B2RNB2_HUMAN	UPI00001254D4	.	tolerated(0.42)	benign(0.017)	14/19	.	PROSITE_profiles:PS50214,hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF121	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTCAGCAT	byFrequency|by1000G	4	BLCA
FANCD2OS	0	.	GRCh37	3	10146259	10146259	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200G>C	p.Gly67Ala	p.G67A	ENST00000450660	2/2	61	47	14	48	48	0	FANCD2OS,missense_variant,p.Gly67Ala,ENST00000524279,;FANCD2OS,missense_variant,p.Gly65Ala,ENST00000453223,;FANCD2OS,missense_variant,p.Gly67Ala,ENST00000450660,;FANCD2,downstream_gene_variant,,ENST00000383807,;FANCD2,downstream_gene_variant,,ENST00000287647,;FANCD2,downstream_gene_variant,,ENST00000419585,;FANCD2,downstream_gene_variant,,ENST00000383806,;FANCD2OS,intron_variant,,ENST00000431315,;FANCD2,downstream_gene_variant,,ENST00000470028,;FANCD2,downstream_gene_variant,,ENST00000421731,;	G	ENSG00000163705	ENST00000450660	Transcript	missense_variant	417	200	67	G/A	gGa/gCa	COSM1308333,COSM1731480	.	.	-1	FANCD2OS	HGNC	28623	protein_coding	YES	CCDS2596.1	ENSP00000429608	FACOS_HUMAN	.	UPI0000072955	.	tolerated(0.88)	possibly_damaging(0.486)	2/2	.	hmmpanther:PTHR31036:SF0,hmmpanther:PTHR31036,Pfam_domain:PF15124	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCCAGAT	.	5	BLCA
CEP97	0	.	GRCh37	3	101477118	101477118	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1668G>T	p.Gln556His	p.Q556H	ENST00000341893	9/11	140	104	35	108	108	0	CEP97,missense_variant,p.Gln497His,ENST00000494050,;CEP97,missense_variant,p.Gln556His,ENST00000327230,;CEP97,missense_variant,p.Gln556His,ENST00000341893,;CEP97,downstream_gene_variant,,ENST00000462076,;CEP97,3_prime_UTR_variant,,ENST00000467655,;CEP97,non_coding_transcript_exon_variant,,ENST00000489172,;	T	ENSG00000182504	ENST00000341893	Transcript	missense_variant	2420	1668	556	Q/H	caG/caT	COSM1035840,COSM1035841	.	.	1	CEP97	HGNC	26244	protein_coding	YES	CCDS2944.1	ENSP00000342510	CEP97_HUMAN	.	UPI0000074569	.	tolerated(0.06)	possibly_damaging(0.687)	9/11	.	hmmpanther:PTHR10588,hmmpanther:PTHR10588:SF232	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCAGAAATT	.	5	BLCA
POLQ	0	.	GRCh37	3	121263576	121263576	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.341C>T	p.Ser114Leu	p.S114L	ENST00000264233	2/30	57	48	9	39	39	0	POLQ,missense_variant,p.Ser114Leu,ENST00000264233,;	A	ENSG00000051341	ENST00000264233	Transcript	missense_variant	470	341	114	S/L	tCa/tTa	.	.	.	-1	POLQ	HGNC	9186	protein_coding	YES	CCDS33833.1	ENSP00000264233	DPOLQ_HUMAN	.	UPI0000D61B5F	.	deleterious(0)	possibly_damaging(0.752)	2/30	.	PROSITE_profiles:PS51192,hmmpanther:PTHR11752,hmmpanther:PTHR11752:SF48,Pfam_domain:PF00270,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTGAATAA	.	4	BLCA
MCM2	0	.	GRCh37	3	127325611	127325611	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1052C>T	p.Ser351Phe	p.S351F	ENST00000265056	6/16	94	82	12	60	60	0	MCM2,missense_variant,p.Ser351Phe,ENST00000265056,;MCM2,missense_variant,p.Ser214Phe,ENST00000491422,;MCM2,downstream_gene_variant,,ENST00000472731,;MCM2,downstream_gene_variant,,ENST00000480910,;MCM2,downstream_gene_variant,,ENST00000468659,;MCM2,3_prime_UTR_variant,,ENST00000477668,;MCM2,3_prime_UTR_variant,,ENST00000474964,;	T	ENSG00000073111	ENST00000265056	Transcript	missense_variant	1296	1052	351	S/F	tCc/tTc	.	.	.	1	MCM2	HGNC	6944	protein_coding	YES	CCDS3043.1	ENSP00000265056	MCM2_HUMAN	Q9BWF4_HUMAN,C9JZ21_HUMAN,C9J013_HUMAN	UPI00001A3E4E	.	tolerated(0.74)	possibly_damaging(0.753)	6/16	.	Superfamily_domains:SSF50249,SMART_domains:SM00350,hmmpanther:PTHR11630:SF44,hmmpanther:PTHR11630	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCCTGTC	.	4	BLCA
RUVBL1	0	.	GRCh37	3	127842558	127842558	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10G>C	p.Glu4Gln	p.E4Q	ENST00000322623	1/11	40	34	6	23	23	0	RUVBL1,missense_variant,p.Glu4Gln,ENST00000322623,;RUVBL1,missense_variant,p.Glu4Gln,ENST00000417360,;RUVBL1,intron_variant,,ENST00000464873,;	G	ENSG00000175792	ENST00000322623	Transcript	missense_variant	110	10	4	E/Q	Gag/Cag	.	.	.	-1	RUVBL1	HGNC	10474	protein_coding	YES	CCDS3047.1	ENSP00000318297	RUVB1_HUMAN	J3QLR1_HUMAN	UPI0000044739	.	tolerated(0.17)	benign(0.128)	1/11	.	hmmpanther:PTHR11093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCAATCT	.	4	BLCA
GRK7	0	.	GRCh37	3	141497550	141497550	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424G>C	p.Glu142Gln	p.E142Q	ENST00000264952	1/4	50	42	8	38	38	0	GRK7,missense_variant,p.Glu142Gln,ENST00000264952,;	C	ENSG00000114124	ENST00000264952	Transcript	missense_variant	561	424	142	E/Q	Gag/Cag	.	.	.	1	GRK7	HGNC	17031	protein_coding	YES	CCDS3120.1	ENSP00000264952	GRK7_HUMAN	.	UPI000004244D	.	tolerated(0.52)	benign(0.371)	1/4	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50132,hmmpanther:PTHR24355,hmmpanther:PTHR24355:SF12,Pfam_domain:PF00615,SMART_domains:SM00315,Superfamily_domains:SSF48097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAGCGA	.	4	BLCA
TM4SF1	0	.	GRCh37	3	149093237	149093237	+	Missense_Mutation	SNP	C	C	T	rs775442660	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406G>A	p.Glu136Lys	p.E136K	ENST00000305366	3/5	48	38	9	37	37	0	TM4SF1,missense_variant,p.Glu136Lys,ENST00000305366,;TM4SF1,missense_variant,p.Glu47Lys,ENST00000472441,;TM4SF1-AS1,upstream_gene_variant,,ENST00000484046,;TM4SF1-AS1,upstream_gene_variant,,ENST00000496491,;TM4SF1,3_prime_UTR_variant,,ENST00000493298,;TM4SF1,intron_variant,,ENST00000493348,;	T	ENSG00000169908	ENST00000305366	Transcript	missense_variant	724	406	136	E/K	Gag/Aag	rs775442660	.	.	-1	TM4SF1	HGNC	11853	protein_coding	YES	CCDS3143.1	ENSP00000304277	T4S1_HUMAN	.	UPI0000044E0A	.	tolerated(0.13)	benign(0.029)	3/5	.	hmmpanther:PTHR14198,hmmpanther:PTHR14198:SF18,Pfam_domain:PF05805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCAGTGC	byFrequency	5	BLCA
SMC4	0	.	GRCh37	3	160148934	160148934	+	Missense_Mutation	SNP	G	G	C	rs750051763	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3055G>C	p.Glu1019Gln	p.E1019Q	ENST00000357388	20/24	60	56	4	65	65	0	SMC4,missense_variant,p.Glu1019Gln,ENST00000344722,;SMC4,missense_variant,p.Glu994Gln,ENST00000469762,;SMC4,missense_variant,p.Glu1019Gln,ENST00000357388,;SMC4,intron_variant,,ENST00000462787,;SMC4,intron_variant,,ENST00000360111,;TRIM59,downstream_gene_variant,,ENST00000309784,;TRIM59,downstream_gene_variant,,ENST00000543469,;SMC4,non_coding_transcript_exon_variant,,ENST00000486711,;SMC4,non_coding_transcript_exon_variant,,ENST00000462668,;RP11-432B6.3,intron_variant,,ENST00000483754,;SMC4,downstream_gene_variant,,ENST00000488017,;	C	ENSG00000113810	ENST00000357388	Transcript	missense_variant	3506	3055	1019	E/Q	Gaa/Caa	rs750051763	.	.	1	SMC4	HGNC	14013	protein_coding	YES	CCDS3189.1	ENSP00000349961	SMC4_HUMAN	C9JWF0_HUMAN,C9JVD8_HUMAN,C9JR83_HUMAN,C9JJ64_HUMAN,C9J9E4_HUMAN,C9J578_HUMAN,C9IYK2_HUMAN	UPI000006DA0A	.	tolerated(0.15)	benign(0.159)	20/24	.	hmmpanther:PTHR18937,hmmpanther:PTHR18937:SF148,Pfam_domain:PF02463,PIRSF_domain:PIRSF005719,Superfamily_domains:SSF57997	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACTTGAACAA	byFrequency	2	BLCA
SLC7A14	0	.	GRCh37	3	170184814	170184814	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29G>C	.	.	ENST00000231706	8/8	97	87	10	69	69	0	SLC7A14,3_prime_UTR_variant,,ENST00000231706,;CLDN11,intron_variant,,ENST00000486975,;CLDN11,intron_variant,,ENST00000451576,;CLDN11,intron_variant,,ENST00000471373,;CLDN11,upstream_gene_variant,,ENST00000480067,;	G	ENSG00000013293	ENST00000231706	Transcript	3_prime_UTR_variant	2661	.	.	.	.	.	.	.	-1	SLC7A14	HGNC	29326	protein_coding	YES	CCDS33892.1	ENSP00000231706	S7A14_HUMAN	.	UPI0000051F6B	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCATCACCAT	.	2	BLCA
PIK3CA	0	.	GRCh37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1633G>A	p.Glu545Lys	p.E545K	ENST00000263967	10/21	53	42	10	32	32	0	PIK3CA,missense_variant,p.Glu545Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1790	1633	545	E/K	Gag/Aag	rs104886003,COSM763,COSM27133,COSM125370,COSM295672	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.02)	probably_damaging(0.959)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	0,1,1,1,1	21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E545K|c.1633G>A|227,SITE|p.E545K|c.1633G>A|1153,CODON|p.T544N|c.1631C>A|3,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542K|c.1624G>A|115,BUFFER|p.E542K|c.1624G>A|758,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4,BUFFER|p.Q546K|c.1636C>A|119,BUFFER|p.Q546E|c.1636C>G|15,BUFFER|p.Q546K|c.1636C>A|18,BUFFER|p.Q546R|c.1637A>G|20,BUFFER|p.Q546P|c.1637A>C|22,BUFFER|p.Q546P|c.1637A>C|7,BUFFER|p.Q546L|c.1637A>T|8,BUFFER|p.Q546R|c.1637A>G|41,BUFFER|p.Q546H|c.1638G>T|7,BUFFER|p.E547K|c.1639G>A|11,BUFFER|p.E547G|c.1640A>G|5,BUFFER|p.E547G|c.1640A>G|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAGCAG	byCluster	5	BLCA
ACTL6A	0	.	GRCh37	3	179294022	179294022	+	Missense_Mutation	SNP	C	C	G	rs746466516	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.494C>G	p.Ser165Cys	p.S165C	ENST00000429709	6/14	71	52	19	53	53	0	ACTL6A,missense_variant,p.Ser123Cys,ENST00000392662,;ACTL6A,missense_variant,p.Ser123Cys,ENST00000450518,;ACTL6A,missense_variant,p.Ser165Cys,ENST00000429709,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000467615,;ACTL6A,downstream_gene_variant,,ENST00000468767,;ACTL6A,3_prime_UTR_variant,,ENST00000487978,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000467383,;ACTL6A,upstream_gene_variant,,ENST00000484312,;ACTL6A,upstream_gene_variant,,ENST00000479056,;ACTL6A,downstream_gene_variant,,ENST00000486471,;ACTL6A,downstream_gene_variant,,ENST00000494843,;	G	ENSG00000136518	ENST00000429709	Transcript	missense_variant	707	494	165	S/C	tCt/tGt	rs746466516	.	.	1	ACTL6A	HGNC	24124	protein_coding	YES	CCDS3231.1	ENSP00000397552	ACL6A_HUMAN	D3DNS0_HUMAN,C9JQT2_HUMAN	UPI0000001655	.	deleterious(0.01)	probably_damaging(0.972)	6/14	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF191,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067,Superfamily_domains:SSF53067,Prints_domain:PR00190	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGTTCTACTG	.	5	BLCA
ACTL6A	0	.	GRCh37	3	179294425	179294425	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589C>G	p.Leu197Val	p.L197V	ENST00000429709	7/14	108	85	22	72	72	0	ACTL6A,missense_variant,p.Leu155Val,ENST00000392662,;ACTL6A,missense_variant,p.Leu155Val,ENST00000450518,;ACTL6A,missense_variant,p.Leu197Val,ENST00000429709,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000467615,;ACTL6A,downstream_gene_variant,,ENST00000468767,;ACTL6A,3_prime_UTR_variant,,ENST00000487978,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000479056,;ACTL6A,upstream_gene_variant,,ENST00000484312,;ACTL6A,downstream_gene_variant,,ENST00000486471,;ACTL6A,downstream_gene_variant,,ENST00000494843,;ACTL6A,downstream_gene_variant,,ENST00000467383,;	G	ENSG00000136518	ENST00000429709	Transcript	missense_variant	802	589	197	L/V	Ctt/Gtt	.	.	.	1	ACTL6A	HGNC	24124	protein_coding	YES	CCDS3231.1	ENSP00000397552	ACL6A_HUMAN	D3DNS0_HUMAN,C9JQT2_HUMAN	UPI0000001655	.	tolerated(0.13)	probably_damaging(0.999)	7/14	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF191,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCTTGCT	.	5	BLCA
ACTL6A	0	.	GRCh37	3	179298707	179298707	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856C>T	p.His286Tyr	p.H286Y	ENST00000429709	10/14	103	88	15	75	75	0	ACTL6A,missense_variant,p.His244Tyr,ENST00000392662,;ACTL6A,missense_variant,p.His244Tyr,ENST00000450518,;ACTL6A,missense_variant,p.His286Tyr,ENST00000429709,;RP11-145M9.6,downstream_gene_variant,,ENST00000610007,;RP11-15L13.4,downstream_gene_variant,,ENST00000608818,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000467615,;ACTL6A,non_coding_transcript_exon_variant,,ENST00000479056,;ACTL6A,upstream_gene_variant,,ENST00000484312,;ACTL6A,downstream_gene_variant,,ENST00000487978,;ACTL6A,downstream_gene_variant,,ENST00000467383,;	T	ENSG00000136518	ENST00000429709	Transcript	missense_variant	1069	856	286	H/Y	Cat/Tat	.	.	.	1	ACTL6A	HGNC	24124	protein_coding	YES	CCDS3231.1	ENSP00000397552	ACL6A_HUMAN	D3DNS0_HUMAN,C9JQT2_HUMAN	UPI0000001655	.	tolerated(0.34)	possibly_damaging(0.904)	10/14	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF191,Gene3D:3.90.640.10,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGTTCATTAT	.	4	BLCA
MCCC1	0	.	GRCh37	3	182733119	182733119	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*107G>C	.	.	ENST00000265594	19/19	46	39	7	32	32	0	MCCC1,3_prime_UTR_variant,,ENST00000265594,;MCCC1,3_prime_UTR_variant,,ENST00000492597,;MCCC1,downstream_gene_variant,,ENST00000539926,;MCCC1,downstream_gene_variant,,ENST00000476176,;MCCC1-AS1,upstream_gene_variant,,ENST00000471731,;MCCC1,3_prime_UTR_variant,,ENST00000497830,;MCCC1,3_prime_UTR_variant,,ENST00000497959,;MCCC1,non_coding_transcript_exon_variant,,ENST00000464601,;MCCC1,downstream_gene_variant,,ENST00000495767,;	G	ENSG00000078070	ENST00000265594	Transcript	3_prime_UTR_variant	2432	.	.	.	.	.	.	.	-1	MCCC1	HGNC	6936	protein_coding	YES	CCDS3241.1	ENSP00000265594	MCCA_HUMAN	F5GYT8_HUMAN,F2Z3E2_HUMAN,E9PHF7_HUMAN	UPI000013D646	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAATCATTTA	.	2	BLCA
YEATS2	0	.	GRCh37	3	183490134	183490134	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1989G>A	p.%3D	p.V663V	ENST00000305135	16/31	88	69	19	56	56	0	YEATS2,synonymous_variant,p.%3D,ENST00000305135,;YEATS2,upstream_gene_variant,,ENST00000432781,;	A	ENSG00000163872	ENST00000305135	Transcript	synonymous_variant	2184	1989	663	V	gtG/gtA	.	.	.	1	YEATS2	HGNC	25489	protein_coding	YES	CCDS43175.1	ENSP00000306983	YETS2_HUMAN	.	UPI00001BB2B9	.	.	.	16/31	.	hmmpanther:PTHR23195,hmmpanther:PTHR23195:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTGAAGCA	.	5	BLCA
HTR3D	0	.	GRCh37	3	183755937	183755937	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.789C>G	p.Phe263Leu	p.F263L	ENST00000382489	6/8	64	50	14	36	36	0	HTR3D,missense_variant,p.Phe215Leu,ENST00000428798,;HTR3D,missense_variant,p.Phe90Leu,ENST00000334128,;HTR3D,missense_variant,p.Phe44Leu,ENST00000453435,;HTR3D,missense_variant,p.Phe263Leu,ENST00000382489,;	G	ENSG00000186090	ENST00000382489	Transcript	missense_variant	789	789	263	F/L	ttC/ttG	.	.	.	1	HTR3D	HGNC	24004	protein_coding	YES	CCDS54685.1	ENSP00000371929	5HT3D_HUMAN	.	UPI000024209D	.	deleterious(0.03)	possibly_damaging(0.836)	6/8	.	hmmpanther:PTHR18945:SF409,hmmpanther:PTHR18945,Gene3D:1.20.120.370,Pfam_domain:PF02932,Superfamily_domains:SSF90112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATTCAAGAT	.	5	BLCA
PSMD2	0	.	GRCh37	3	184019789	184019789	+	Missense_Mutation	SNP	G	G	A	rs773453167	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.634G>A	p.Glu212Lys	p.E212K	ENST00000310118	5/21	81	67	14	60	60	0	PSMD2,missense_variant,p.Glu212Lys,ENST00000310118,;PSMD2,missense_variant,p.Glu53Lys,ENST00000435761,;PSMD2,missense_variant,p.Glu82Lys,ENST00000439383,;PSMD2,intron_variant,,ENST00000417952,;EIF2B5,intron_variant,,ENST00000444495,;PSMD2,upstream_gene_variant,,ENST00000432855,;PSMD2,non_coding_transcript_exon_variant,,ENST00000463602,;PSMD2,downstream_gene_variant,,ENST00000459910,;PSMD2,upstream_gene_variant,,ENST00000473991,;PSMD2,3_prime_UTR_variant,,ENST00000433010,;PSMD2,3_prime_UTR_variant,,ENST00000445558,;PSMD2,non_coding_transcript_exon_variant,,ENST00000487475,;PSMD2,non_coding_transcript_exon_variant,,ENST00000485937,;PSMD2,upstream_gene_variant,,ENST00000466987,;PSMD2,upstream_gene_variant,,ENST00000491149,;PSMD2,downstream_gene_variant,,ENST00000476461,;PSMD2,upstream_gene_variant,,ENST00000488085,;PSMD2,upstream_gene_variant,,ENST00000496925,;PSMD2,downstream_gene_variant,,ENST00000492191,;PSMD2,upstream_gene_variant,,ENST00000460628,;	A	ENSG00000175166	ENST00000310118	Transcript	missense_variant	1192	634	212	E/K	Gag/Aag	rs773453167	.	.	1	PSMD2	HGNC	9559	protein_coding	YES	CCDS3258.1	ENSP00000310129	PSMD2_HUMAN	Q9NSM5_HUMAN,E7EW34_HUMAN	UPI000013277E	.	deleterious(0)	probably_damaging(0.91)	5/21	.	hmmpanther:PTHR10943,PIRSF_domain:PIRSF015965	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATTGAGCAG	.	5	BLCA
LIPH	0	.	GRCh37	3	185234886	185234886	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.951C>G	p.Phe317Leu	p.F317L	ENST00000296252	7/10	137	117	19	94	94	0	LIPH,missense_variant,p.Phe283Leu,ENST00000424591,;LIPH,missense_variant,p.Phe317Leu,ENST00000296252,;LIPH,downstream_gene_variant,,ENST00000452897,;LIPH,upstream_gene_variant,,ENST00000435679,;	C	ENSG00000163898	ENST00000296252	Transcript	missense_variant	1093	951	317	F/L	ttC/ttG	.	.	.	-1	LIPH	HGNC	18483	protein_coding	YES	CCDS3272.1	ENSP00000296252	LIPH_HUMAN	A2IBA8_HUMAN	UPI000003AEB8	.	deleterious(0)	possibly_damaging(0.861)	7/10	.	hmmpanther:PTHR11610,hmmpanther:PTHR11610:SF12,Gene3D:3.40.50.1820,Pfam_domain:PF00151,PIRSF_domain:PIRSF000865,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAAAGAATGC	.	5	BLCA
MASP1	0	.	GRCh37	3	186961291	186961291	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1209G>A	p.%3D	p.K403K	ENST00000296280	9/11	78	63	15	47	47	0	MASP1,synonymous_variant,p.%3D,ENST00000296280,;MASP1,synonymous_variant,p.%3D,ENST00000337774,;MASP1,synonymous_variant,p.%3D,ENST00000392472,;MASP1,downstream_gene_variant,,ENST00000392470,;MASP1,downstream_gene_variant,,ENST00000169293,;MASP1,non_coding_transcript_exon_variant,,ENST00000468121,;MASP1,intron_variant,,ENST00000495249,;MASP1,non_coding_transcript_exon_variant,,ENST00000480349,;	T	ENSG00000127241	ENST00000296280	Transcript	synonymous_variant	1435	1209	403	K	aaG/aaA	.	.	.	-1	MASP1	HGNC	6901	protein_coding	YES	CCDS33908.1	ENSP00000296280	MASP1_HUMAN	Q9NSY8_HUMAN,C9JLU5_HUMAN	UPI000007256E	.	.	.	9/11	.	PROSITE_profiles:PS50923,hmmpanther:PTHR24255,hmmpanther:PTHR24255:SF13,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,PIRSF_domain:PIRSF001155,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCTTGTA	.	5	BLCA
GPD1L	0	.	GRCh37	3	32180100	32180100	+	Missense_Mutation	SNP	G	G	A	rs72552292	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>A	p.Glu83Lys	p.E83K	ENST00000282541	3/8	136	118	18	100	100	0	GPD1L,missense_variant,p.Glu44Lys,ENST00000431009,;GPD1L,missense_variant,p.Glu83Lys,ENST00000282541,;GPD1L,missense_variant,p.Glu44Lys,ENST00000429432,;GPD1L,intron_variant,,ENST00000425459,;GPD1L,synonymous_variant,p.%3D,ENST00000428684,;	A	ENSG00000152642	ENST00000282541	Transcript	missense_variant	448	247	83	E/K	Gag/Aag	rs72552292,CM074891	.	.	1	GPD1L	HGNC	28956	protein_coding	YES	CCDS33729.1	ENSP00000282541	GPD1L_HUMAN	C9K0P5_HUMAN,C9JFA7_HUMAN,B3KWN2_HUMAN	UPI000006E26D	.	tolerated(0.18)	benign(0.383)	3/8	.	hmmpanther:PTHR11728,hmmpanther:PTHR11728:SF7,Gene3D:3.40.50.720,Pfam_domain:PF01210,TIGRFAM_domain:TIGR03376,PIRSF_domain:PIRSF000114,Superfamily_domains:SSF51735,Prints_domain:PR00077	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	pathogenic	.	17967976	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAGCGAGGCT	byCluster|by1000G	4	BLCA
DLEC1	0	.	GRCh37	3	38081004	38081004	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288C>T	p.%3D	p.L96L	ENST00000308059	1/37	92	69	23	58	58	0	DLEC1,synonymous_variant,p.%3D,ENST00000308059,;DLEC1,synonymous_variant,p.%3D,ENST00000346219,;DLEC1,synonymous_variant,p.%3D,ENST00000452631,;DLEC1,non_coding_transcript_exon_variant,,ENST00000440294,;	T	ENSG00000008226	ENST00000308059	Transcript	synonymous_variant	309	288	96	L	ctC/ctT	.	.	.	1	DLEC1	HGNC	2899	protein_coding	YES	CCDS2672.2	ENSP00000308597	DLEC1_HUMAN	.	UPI00006EB134	.	.	.	1/37	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCTCACCGG	.	5	BLCA
ZNF620	0	.	GRCh37	3	40557356	40557356	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>A	p.Glu91Lys	p.E91K	ENST00000314529	5/5	57	49	8	36	36	0	ZNF620,missense_variant,p.Glu91Lys,ENST00000420891,;ZNF620,missense_variant,p.Glu91Lys,ENST00000314529,;ZNF620,5_prime_UTR_variant,,ENST00000418905,;ZNF620,downstream_gene_variant,,ENST00000433723,;	A	ENSG00000177842	ENST00000314529	Transcript	missense_variant	420	271	91	E/K	Gag/Aag	.	.	.	1	ZNF620	HGNC	28742	protein_coding	YES	CCDS33740.1	ENSP00000322265	ZN620_HUMAN	C9J967_HUMAN	UPI00001D7F23	.	tolerated(0.44)	benign(0)	5/5	.	hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF114	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGATGAGGCC	.	4	BLCA
CCDC13	0	.	GRCh37	3	42784430	42784430	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945G>C	p.%3D	p.L315L	ENST00000310232	8/16	121	102	19	120	119	0	CCDC13,synonymous_variant,p.%3D,ENST00000310232,;CCDC13-AS1,non_coding_transcript_exon_variant,,ENST00000446950,;CCDC13-AS1,non_coding_transcript_exon_variant,,ENST00000418161,;CCDC13,downstream_gene_variant,,ENST00000479576,;CCDC13,downstream_gene_variant,,ENST00000492806,;	G	ENSG00000244607	ENST00000310232	Transcript	synonymous_variant	1029	945	315	L	ctG/ctC	.	.	.	-1	CCDC13	HGNC	26358	protein_coding	YES	CCDS2705.1	ENSP00000309836	CCD13_HUMAN	.	UPI00001AEF4E	.	.	.	8/16	.	hmmpanther:PTHR31935,hmmpanther:PTHR31935:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTCAGCAG	.	5	BLCA
ARL8B	0	.	GRCh37	3	5220360	5220360	+	Nonsense_Mutation	SNP	C	C	T	rs201065934	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.523C>T	p.Gln175Ter	p.Q175*	ENST00000256496	7/7	81	65	16	55	55	0	ARL8B,stop_gained,p.Gln175Ter,ENST00000256496,;ARL8B,synonymous_variant,p.%3D,ENST00000419534,;AC026202.3,intron_variant,,ENST00000439325,;ARL8B,non_coding_transcript_exon_variant,,ENST00000468010,;ARL8B,3_prime_UTR_variant,,ENST00000455168,;ARL8B,non_coding_transcript_exon_variant,,ENST00000476343,;	T	ENSG00000134108	ENST00000256496	Transcript	stop_gained	769	523	175	Q/*	Cag/Tag	rs201065934	.	.	1	ARL8B	HGNC	25564	protein_coding	YES	CCDS2566.1	ENSP00000256496	ARL8B_HUMAN	B4E1J8_HUMAN,B4DQT8_HUMAN	UPI00000233C0	.	.	.	7/7	.	PROSITE_profiles:PS51417,hmmpanther:PTHR11711:SF112,hmmpanther:PTHR11711,Pfam_domain:PF00025,Gene3D:3.40.50.300,SMART_domains:SM00175,SMART_domains:SM00177,SMART_domains:SM00173,SMART_domains:SM00178,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTTCAGTGG	by1000G	5	BLCA
DNAH1	0	.	GRCh37	3	52412647	52412647	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7228G>A	p.Glu2410Lys	p.E2410K	ENST00000420323	47/78	129	104	25	100	100	0	DNAH1,missense_variant,p.Glu2410Lys,ENST00000420323,;DNAH1,non_coding_transcript_exon_variant,,ENST00000486752,;RP11-168J18.6,downstream_gene_variant,,ENST00000495716,;	A	ENSG00000114841	ENST00000420323	Transcript	missense_variant	7489	7228	2410	E/K	Gag/Aag	COSM260454	.	.	1	DNAH1	HGNC	2940	protein_coding	YES	CCDS46842.1	ENSP00000401514	DYH1_HUMAN	.	UPI0001AE79D6	.	.	benign(0.003)	47/78	.	Superfamily_domains:SSF52540,Pfam_domain:PF12775,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF137	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACGGAGCCC	.	5	BLCA
PHF7	0	.	GRCh37	3	52448053	52448053	+	Frame_Shift_Ins	INS	C	C	TT	rs773421228	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83delCinsTT	p.Ser28PhefsTer39	p.S28Ffs*39	ENST00000327906	3/11	52	47	5	27	27	0	PHF7,frameshift_variant,p.Ser28PhefsTer39,ENST00000347025,;PHF7,frameshift_variant,p.Ser28PhefsTer39,ENST00000327906,;PHF7,upstream_gene_variant,,ENST00000461861,;BAP1,upstream_gene_variant,,ENST00000296288,;BAP1,upstream_gene_variant,,ENST00000460680,;BAP1,upstream_gene_variant,,ENST00000470173,;PHF7,non_coding_transcript_exon_variant,,ENST00000482327,;PHF7,intron_variant,,ENST00000472337,;PHF7,non_coding_transcript_exon_variant,,ENST00000473145,;BAP1,upstream_gene_variant,,ENST00000490917,;BAP1,upstream_gene_variant,,ENST00000483984,;	TT	ENSG00000010318	ENST00000327906	Transcript	frameshift_variant	743	83	28	S/FX	tCt/tTTt	rs773421228	.	.	1	PHF7	HGNC	18458	protein_coding	YES	CCDS2854.1	ENSP00000333024	PHF7_HUMAN	C9J4W0_HUMAN	UPI000007190E	.	.	.	3/11	.	hmmpanther:PTHR12420:SF11,hmmpanther:PTHR12420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	AACCGTCTTCAG	.	5	BLCA
PBRM1	0	.	GRCh37	3	52668703	52668703	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216G>A	p.Glu406Lys	p.E406K	ENST00000394830	12/30	81	63	18	69	69	0	PBRM1,missense_variant,p.Glu406Lys,ENST00000394830,;PBRM1,missense_variant,p.Glu406Lys,ENST00000409057,;PBRM1,missense_variant,p.Glu406Lys,ENST00000423351,;PBRM1,missense_variant,p.Glu406Lys,ENST00000410007,;PBRM1,missense_variant,p.Glu374Lys,ENST00000356770,;PBRM1,missense_variant,p.Glu406Lys,ENST00000296302,;PBRM1,missense_variant,p.Glu406Lys,ENST00000409767,;PBRM1,missense_variant,p.Glu350Lys,ENST00000446103,;PBRM1,missense_variant,p.Glu406Lys,ENST00000337303,;PBRM1,missense_variant,p.Glu406Lys,ENST00000409114,;PBRM1,missense_variant,p.Glu406Lys,ENST00000412587,;	T	ENSG00000163939	ENST00000394830	Transcript	missense_variant	1316	1216	406	E/K	Gaa/Aaa	.	.	.	-1	PBRM1	HGNC	30064	protein_coding	YES	CCDS43099.1	ENSP00000378307	PB1_HUMAN	C9JQF1_HUMAN,C9JPI5_HUMAN,C9JCJ2_HUMAN,C9J9L6_HUMAN,C9J409_HUMAN,C9J053_HUMAN	UPI000013E31E	.	deleterious(0)	benign(0.434)	12/30	.	PROSITE_profiles:PS50014,hmmpanther:PTHR16062,PROSITE_patterns:PS00633,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTTCAGCTA	.	5	BLCA
PBRM1	0	.	GRCh37	3	52668805	52668805	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1114G>C	p.Glu372Gln	p.E372Q	ENST00000394830	12/30	57	52	5	50	50	0	PBRM1,missense_variant,p.Glu372Gln,ENST00000394830,;PBRM1,missense_variant,p.Glu372Gln,ENST00000409057,;PBRM1,missense_variant,p.Glu372Gln,ENST00000423351,;PBRM1,missense_variant,p.Glu372Gln,ENST00000410007,;PBRM1,missense_variant,p.Glu340Gln,ENST00000356770,;PBRM1,missense_variant,p.Glu372Gln,ENST00000296302,;PBRM1,missense_variant,p.Glu372Gln,ENST00000409767,;PBRM1,missense_variant,p.Glu316Gln,ENST00000446103,;PBRM1,missense_variant,p.Glu372Gln,ENST00000337303,;PBRM1,missense_variant,p.Glu372Gln,ENST00000409114,;PBRM1,missense_variant,p.Glu372Gln,ENST00000412587,;	G	ENSG00000163939	ENST00000394830	Transcript	missense_variant	1214	1114	372	E/Q	Gaa/Caa	.	.	.	-1	PBRM1	HGNC	30064	protein_coding	YES	CCDS43099.1	ENSP00000378307	PB1_HUMAN	C9JQF1_HUMAN,C9JPI5_HUMAN,C9JCJ2_HUMAN,C9J9L6_HUMAN,C9J409_HUMAN,C9J053_HUMAN	UPI000013E31E	.	deleterious(0.01)	possibly_damaging(0.607)	12/30	.	hmmpanther:PTHR16062	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCTTCTGACT	.	3	BLCA
CACNA1D	0	.	GRCh37	3	53804556	53804556	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4081T>C	p.Trp1361Arg	p.W1361R	ENST00000288139	33/49	52	46	6	47	47	0	CACNA1D,missense_variant,p.Trp1361Arg,ENST00000288139,;CACNA1D,missense_variant,p.Trp1326Arg,ENST00000422281,;CACNA1D,missense_variant,p.Trp1341Arg,ENST00000350061,;CACNA1D,missense_variant,p.Trp233Arg,ENST00000540742,;CACNA1D,missense_variant,p.Trp1034Arg,ENST00000481478,;	C	ENSG00000157388	ENST00000288139	Transcript	missense_variant	4199	4081	1361	W/R	Tgg/Cgg	.	.	.	1	CACNA1D	HGNC	1391	protein_coding	YES	CCDS2872.1	ENSP00000288139	CAC1D_HUMAN	.	UPI000005031A	.	deleterious(0)	probably_damaging(0.999)	33/49	.	hmmpanther:PTHR10037:SF139,hmmpanther:PTHR10037,Pfam_domain:PF00520,Superfamily_domains:SSF81324,Prints_domain:PR00167	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTGTGGACT	.	4	BLCA
PROS1	0	.	GRCh37	3	93646099	93646099	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229G>A	p.Glu77Lys	p.E77K	ENST00000394236	2/15	81	74	7	66	66	0	PROS1,missense_variant,p.Glu77Lys,ENST00000394236,;PROS1,missense_variant,p.Glu109Lys,ENST00000348974,;PROS1,5_prime_UTR_variant,,ENST00000472684,;PROS1,5_prime_UTR_variant,,ENST00000407433,;	T	ENSG00000184500	ENST00000394236	Transcript	missense_variant	546	229	77	E/K	Gaa/Aaa	.	.	.	-1	PROS1	HGNC	9456	protein_coding	YES	CCDS2923.1	ENSP00000377783	PROS_HUMAN	Q8IXD5_HUMAN,Q8IXD4_HUMAN,Q8IXD2_HUMAN,Q6J1N0_HUMAN,Q06F35_HUMAN,G5E9F8_HUMAN,C9K0R0_HUMAN,B4E1L6_HUMAN	UPI00001323E8	.	deleterious(0)	probably_damaging(1)	2/15	.	PROSITE_profiles:PS50998,hmmpanther:PTHR24040,hmmpanther:PTHR24040:SF0,PROSITE_patterns:PS00011,Pfam_domain:PF00594,Gene3D:4.10.740.10,SMART_domains:SM00069,Superfamily_domains:SSF57630,Prints_domain:PR00001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P76P|c.228G>A|3	MUTECT|MUSE|VARSCANS	CGTTTCCGGGT	.	3	BLCA
THUMPD3	0	.	GRCh37	3	9412965	9412965	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>G	p.Ile184Met	p.I184M	ENST00000345094	4/10	66	52	14	55	55	0	THUMPD3,missense_variant,p.Ile184Met,ENST00000515662,;THUMPD3,missense_variant,p.Ile184Met,ENST00000345094,;THUMPD3,missense_variant,p.Ile17Met,ENST00000416603,;THUMPD3,missense_variant,p.Ile41Met,ENST00000441127,;THUMPD3,missense_variant,p.Ile184Met,ENST00000452837,;THUMPD3,downstream_gene_variant,,ENST00000419437,;SETD5-AS1,intron_variant,,ENST00000468186,;THUMPD3,upstream_gene_variant,,ENST00000461636,;	G	ENSG00000134077	ENST00000345094	Transcript	missense_variant	886	552	184	I/M	atC/atG	.	.	.	1	THUMPD3	HGNC	24493	protein_coding	YES	CCDS2573.1	ENSP00000339532	THUM3_HUMAN	C9JP31_HUMAN,C9J9V2_HUMAN	UPI000006E64E	.	tolerated_low_confidence(0.11)	benign(0.2)	4/10	.	PROSITE_profiles:PS51165,hmmpanther:PTHR14911:SF12,hmmpanther:PTHR14911,Superfamily_domains:SSF143437	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATATCTTAGA	.	5	BLCA
MTMR14	0	.	GRCh37	3	9739480	9739480	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1699G>A	p.Glu567Lys	p.E567K	ENST00000296003	18/19	237	196	40	180	180	0	MTMR14,missense_variant,p.Glu567Lys,ENST00000296003,;MTMR14,intron_variant,,ENST00000420925,;MTMR14,intron_variant,,ENST00000351233,;MTMR14,intron_variant,,ENST00000353332,;MTMR14,3_prime_UTR_variant,,ENST00000414996,;MTMR14,3_prime_UTR_variant,,ENST00000447144,;MTMR14,upstream_gene_variant,,ENST00000606184,;	A	ENSG00000163719	ENST00000296003	Transcript	missense_variant	1821	1699	567	E/K	Gag/Aag	.	.	.	1	MTMR14	HGNC	26190	protein_coding	YES	CCDS43043.1	ENSP00000296003	MTMRE_HUMAN	.	UPI000007423D	.	tolerated(0.24)	benign(0.023)	18/19	.	hmmpanther:PTHR13524	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCAGGAGCGG	.	4	BLCA
OGG1	0	.	GRCh37	3	9800937	9800937	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.948+2437G>A	.	.	ENST00000302036	.	124	98	25	92	92	0	OGG1,missense_variant,p.Glu339Lys,ENST00000302008,;OGG1,stop_retained_variant,p.%3D,ENST00000449570,;OGG1,intron_variant,,ENST00000349503,;OGG1,intron_variant,,ENST00000302036,;OGG1,intron_variant,,ENST00000426518,;CAMK1,intron_variant,,ENST00000421120,;OGG1,intron_variant,,ENST00000352937,;OGG1,intron_variant,,ENST00000383826,;CAMK1,intron_variant,,ENST00000256460,;CAMK1,downstream_gene_variant,,ENST00000411972,;OGG1,downstream_gene_variant,,ENST00000416333,;OGG1,downstream_gene_variant,,ENST00000344629,;OGG1,downstream_gene_variant,,ENST00000339511,;OGG1,downstream_gene_variant,,ENST00000302003,;OGG1,downstream_gene_variant,,ENST00000441094,;OGG1,downstream_gene_variant,,ENST00000383825,;OGG1,non_coding_transcript_exon_variant,,ENST00000602976,;CAMK1,intron_variant,,ENST00000397277,;CAMK1,intron_variant,,ENST00000496534,;OGG1,downstream_gene_variant,,ENST00000429146,;CAMK1,upstream_gene_variant,,ENST00000482803,;OGG1,downstream_gene_variant,,ENST00000425665,;	A	ENSG00000114026	ENST00000302036	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	OGG1	HGNC	8125	protein_coding	YES	CCDS2576.1	ENSP00000306561	OGG1_HUMAN	E5KPM5_HUMAN	UPI000002B01B	.	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTGAAGAA	.	5	BLCA
PAPSS1	0	.	GRCh37	4	108566146	108566146	+	Missense_Mutation	SNP	G	G	C	rs760111620	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1318C>G	p.Leu440Val	p.L440V	ENST00000265174	10/12	72	66	6	42	42	0	PAPSS1,missense_variant,p.Leu440Val,ENST00000265174,;	C	ENSG00000138801	ENST00000265174	Transcript	missense_variant	1591	1318	440	L/V	Cta/Gta	rs760111620	.	.	-1	PAPSS1	HGNC	8603	protein_coding	YES	CCDS3676.1	ENSP00000265174	PAPS1_HUMAN	Q6IAX6_HUMAN,Q4W5H3_HUMAN,Q4W5F0_HUMAN	UPI0000132102	.	tolerated(0.09)	benign(0.021)	10/12	.	hmmpanther:PTHR11055:SF17,hmmpanther:PTHR11055,TIGRFAM_domain:TIGR00339,Pfam_domain:PF01747,Gene3D:3.40.50.620,Superfamily_domains:SSF52374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCTAGAAGTT	byFrequency	3	BLCA
TNIP3	0	.	GRCh37	4	122071303	122071303	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.795C>G	p.Phe265Leu	p.F265L	ENST00000509841	9/13	60	44	15	38	38	0	TNIP3,missense_variant,p.Phe265Leu,ENST00000509841,;TNIP3,missense_variant,p.Phe188Leu,ENST00000454328,;TNIP3,missense_variant,p.Phe188Leu,ENST00000057513,;TNIP3,missense_variant,p.Phe258Leu,ENST00000507879,;TNIP3,upstream_gene_variant,,ENST00000511909,;TNIP3,non_coding_transcript_exon_variant,,ENST00000515605,;TNIP3,downstream_gene_variant,,ENST00000506753,;	C	ENSG00000050730	ENST00000509841	Transcript	missense_variant	874	795	265	F/L	ttC/ttG	.	.	.	-1	TNIP3	HGNC	19315	protein_coding	YES	CCDS58926.1	ENSP00000426613	TNIP3_HUMAN	.	UPI00017A8362	.	tolerated(0.14)	benign(0.034)	9/13	.	hmmpanther:PTHR31882,hmmpanther:PTHR31882:SF2,Gene3D:1.20.5.990	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCAGAATTC	.	5	BLCA
FAT4	0	.	GRCh37	4	126370157	126370157	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7986C>A	p.%3D	p.V2662V	ENST00000394329	9/17	93	73	20	77	77	0	FAT4,synonymous_variant,p.%3D,ENST00000394329,;FAT4,synonymous_variant,p.%3D,ENST00000335110,;FAT4,downstream_gene_variant,,ENST00000509444,;	A	ENSG00000196159	ENST00000394329	Transcript	synonymous_variant	7999	7986	2662	V	gtC/gtA	.	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	.	9/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,PROSITE_patterns:PS00232,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGTCAATGA	.	4	BLCA
HSPA4L	0	.	GRCh37	4	128726257	128726257	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015G>C	p.Glu339Gln	p.E339Q	ENST00000296464	9/19	42	37	5	31	31	0	HSPA4L,missense_variant,p.Glu339Gln,ENST00000296464,;HSPA4L,missense_variant,p.Glu370Gln,ENST00000439123,;HSPA4L,missense_variant,p.Glu298Gln,ENST00000508549,;HSPA4L,missense_variant,p.Glu313Gln,ENST00000505726,;HSPA4L,missense_variant,p.Glu339Gln,ENST00000508776,;	C	ENSG00000164070	ENST00000296464	Transcript	missense_variant	1426	1015	339	E/Q	Gaa/Caa	.	.	.	1	HSPA4L	HGNC	17041	protein_coding	YES	CCDS3734.1	ENSP00000296464	HS74L_HUMAN	.	UPI000007452A	.	deleterious(0.01)	probably_damaging(1)	9/19	.	hmmpanther:PTHR19375,hmmpanther:PTHR19375:SF161,PROSITE_patterns:PS01036,Gene3D:3.30.420.40,Pfam_domain:PF00012,Superfamily_domains:SSF53067,Prints_domain:PR00301	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.I335T|c.1004T>C|3	RADIA|MUTECT|MUSE|VARSCANS	GTATAGAAATT	.	4	BLCA
MFSD8	0	.	GRCh37	4	128864912	128864912	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.434G>C	p.Gly145Ala	p.G145A	ENST00000296468	5/13	60	50	9	43	43	0	MFSD8,missense_variant,p.Gly100Ala,ENST00000541133,;MFSD8,missense_variant,p.Gly100Ala,ENST00000513559,;MFSD8,missense_variant,p.Gly145Ala,ENST00000296468,;MFSD8,non_coding_transcript_exon_variant,,ENST00000508441,;MFSD8,non_coding_transcript_exon_variant,,ENST00000515130,;MFSD8,non_coding_transcript_exon_variant,,ENST00000505284,;MFSD8,missense_variant,p.Gly100Ala,ENST00000509826,;	G	ENSG00000164073	ENST00000296468	Transcript	missense_variant	562	434	145	G/A	gGa/gCa	.	.	.	-1	MFSD8	HGNC	28486	protein_coding	YES	CCDS3736.1	ENSP00000296468	MFSD8_HUMAN	E7ERQ4_HUMAN	UPI000004DAF1	.	deleterious(0.02)	probably_damaging(0.986)	5/13	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24003:SF41,hmmpanther:PTHR24003,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCCAATT	.	5	BLCA
HSP90AB2P	0	.	GRCh37	4	13338798	13338798	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.693G>C	.	.	ENST00000507090	1/1	24	21	3	19	19	0	HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000602906,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000507090,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000382444,;	C	ENSG00000205940	ENST00000507090	Transcript	non_coding_transcript_exon_variant	693	.	.	.	.	.	.	.	1	HSP90AB2P	HGNC	32537	transcribed_processed_pseudogene	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAAGAGAAA	.	2	BLCA
HSP90AB2P	0	.	GRCh37	4	13338813	13338813	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.708G>C	.	.	ENST00000507090	1/1	28	25	3	16	16	0	HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000602906,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000507090,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000382444,;	C	ENSG00000205940	ENST00000507090	Transcript	non_coding_transcript_exon_variant	708	.	.	.	.	.	.	.	1	HSP90AB2P	HGNC	32537	transcribed_processed_pseudogene	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAAAGAAGAG	.	2	BLCA
HSP90AB2P	0	.	GRCh37	4	13338852	13338852	+	RNA	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.747G>T	.	.	ENST00000507090	1/1	32	29	3	13	13	0	HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000602906,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000507090,;HSP90AB2P,non_coding_transcript_exon_variant,,ENST00000382444,;	T	ENSG00000205940	ENST00000507090	Transcript	non_coding_transcript_exon_variant	747	.	.	.	.	.	.	.	1	HSP90AB2P	HGNC	32537	transcribed_processed_pseudogene	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATCGAAGAT	.	2	BLCA
OTUD4	0	.	GRCh37	4	146072039	146072039	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.792C>T	p.%3D	p.L264L	ENST00000454497	12/21	59	49	10	45	45	0	OTUD4,synonymous_variant,p.%3D,ENST00000447906,;OTUD4,synonymous_variant,p.%3D,ENST00000454497,;OTUD4,synonymous_variant,p.%3D,ENST00000514973,;Y_RNA,upstream_gene_variant,,ENST00000459374,;OTUD4,non_coding_transcript_exon_variant,,ENST00000455611,;OTUD4,downstream_gene_variant,,ENST00000505976,;OTUD4,non_coding_transcript_exon_variant,,ENST00000509517,;	A	ENSG00000164164	ENST00000454497	Transcript	synonymous_variant	930	792	264	L	ctC/ctT	.	.	.	-1	OTUD4	HGNC	24949	protein_coding	YES	CCDS47139.1	ENSP00000409279	OTUD4_HUMAN	D6RA27_HUMAN	UPI0000DA6D4D	.	.	.	12/21	.	hmmpanther:PTHR12419,hmmpanther:PTHR12419:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTGAGGTT	.	5	BLCA
FAM198B	0	.	GRCh37	4	159076935	159076935	+	Intron	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1012-35C>T	.	.	ENST00000393807	.	62	48	14	33	33	0	FAM198B,missense_variant,p.Ser59Phe,ENST00000593260,;FAM198B,missense_variant,p.Ser24Phe,ENST00000590648,;FAM198B,missense_variant,p.Ser318Phe,ENST00000296530,;FAM198B,missense_variant,p.Ser318Phe,ENST00000585682,;FAM198B,5_prime_UTR_variant,,ENST00000592586,;FAM198B,intron_variant,,ENST00000393807,;FAM198B,non_coding_transcript_exon_variant,,ENST00000589306,;	A	ENSG00000164125	ENST00000393807	Transcript	intron_variant	.	.	.	.	.	COSM1052635	.	.	-1	FAM198B	HGNC	25312	protein_coding	YES	CCDS34087.1	ENSP00000377396	F198B_HUMAN	K7EK71_HUMAN	UPI00003672A2	.	.	.	.	3/5	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGAAGATAAA	.	5	BLCA
TMEM144	0	.	GRCh37	4	159133768	159133768	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-52G>A	.	.	ENST00000296529	3/13	43	35	8	33	33	0	TMEM144,5_prime_UTR_variant,,ENST00000512481,;TMEM144,5_prime_UTR_variant,,ENST00000503200,;TMEM144,5_prime_UTR_variant,,ENST00000511038,;TMEM144,5_prime_UTR_variant,,ENST00000502698,;TMEM144,5_prime_UTR_variant,,ENST00000504569,;TMEM144,5_prime_UTR_variant,,ENST00000505189,;TMEM144,5_prime_UTR_variant,,ENST00000508243,;TMEM144,5_prime_UTR_variant,,ENST00000514558,;TMEM144,5_prime_UTR_variant,,ENST00000514971,;TMEM144,5_prime_UTR_variant,,ENST00000505049,;TMEM144,5_prime_UTR_variant,,ENST00000296529,;TMEM144,5_prime_UTR_variant,,ENST00000509278,;TMEM144,downstream_gene_variant,,ENST00000514346,;TMEM144,downstream_gene_variant,,ENST00000513744,;TMEM144,5_prime_UTR_variant,,ENST00000511532,;	A	ENSG00000164124	ENST00000296529	Transcript	5_prime_UTR_variant	469	.	.	.	.	.	.	.	1	TMEM144	HGNC	25633	protein_coding	YES	CCDS3799.1	ENSP00000296529	TM144_HUMAN	D6RDN8_HUMAN,D6RDF9_HUMAN,D6RCA2_HUMAN,D6RAX5_HUMAN,D6R9U5_HUMAN,D6R9I0_HUMAN	UPI0000140BEC	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCCTGAAAAG	.	3	BLCA
TMEM144	0	.	GRCh37	4	159133814	159133814	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6G>A	.	.	ENST00000296529	3/13	62	51	11	46	46	0	TMEM144,5_prime_UTR_variant,,ENST00000512481,;TMEM144,5_prime_UTR_variant,,ENST00000503200,;TMEM144,5_prime_UTR_variant,,ENST00000511038,;TMEM144,5_prime_UTR_variant,,ENST00000502698,;TMEM144,5_prime_UTR_variant,,ENST00000504569,;TMEM144,5_prime_UTR_variant,,ENST00000505189,;TMEM144,5_prime_UTR_variant,,ENST00000508243,;TMEM144,5_prime_UTR_variant,,ENST00000514558,;TMEM144,5_prime_UTR_variant,,ENST00000514971,;TMEM144,5_prime_UTR_variant,,ENST00000505049,;TMEM144,5_prime_UTR_variant,,ENST00000296529,;TMEM144,5_prime_UTR_variant,,ENST00000509278,;TMEM144,downstream_gene_variant,,ENST00000514346,;TMEM144,downstream_gene_variant,,ENST00000513744,;TMEM144,5_prime_UTR_variant,,ENST00000511532,;	A	ENSG00000164124	ENST00000296529	Transcript	5_prime_UTR_variant	515	.	.	.	.	.	.	.	1	TMEM144	HGNC	25633	protein_coding	YES	CCDS3799.1	ENSP00000296529	TM144_HUMAN	D6RDN8_HUMAN,D6RDF9_HUMAN,D6RCA2_HUMAN,D6RAX5_HUMAN,D6R9U5_HUMAN,D6R9I0_HUMAN	UPI0000140BEC	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTGGAATC	.	5	BLCA
HMGB2	0	.	GRCh37	4	174253984	174253984	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459G>A	p.%3D	p.E153E	ENST00000296503	4/5	159	142	17	119	119	0	HMGB2,synonymous_variant,p.%3D,ENST00000438704,;HMGB2,synonymous_variant,p.%3D,ENST00000296503,;HMGB2,synonymous_variant,p.%3D,ENST00000446922,;HMGB2,downstream_gene_variant,,ENST00000506267,;RP11-798M19.3,upstream_gene_variant,,ENST00000507803,;HMGB2,non_coding_transcript_exon_variant,,ENST00000511316,;	T	ENSG00000164104	ENST00000296503	Transcript	synonymous_variant	1333	459	153	E	gaG/gaA	.	.	.	-1	HMGB2	HGNC	5000	protein_coding	YES	CCDS3816.1	ENSP00000296503	HMGB2_HUMAN	Q5U071_HUMAN,D6R9A6_HUMAN	UPI000013E34D	.	.	.	4/5	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50118,hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF181,Pfam_domain:PF00505,Gene3D:1.10.30.10,SMART_domains:SM00398,Superfamily_domains:SSF47095,Prints_domain:PR00886	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTCTCCTT	.	4	BLCA
FGFR3	0	.	GRCh37	4	1803568	1803568	+	Missense_Mutation	SNP	C	C	G	rs121913483	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.746C>G	p.Ser249Cys	p.S249C	ENST00000340107	7/18	28	22	6	14	14	0	FGFR3,missense_variant,p.Ser249Cys,ENST00000352904,;FGFR3,missense_variant,p.Ser249Cys,ENST00000412135,;FGFR3,missense_variant,p.Ser249Cys,ENST00000440486,;FGFR3,missense_variant,p.Ser249Cys,ENST00000481110,;FGFR3,missense_variant,p.Ser249Cys,ENST00000260795,;FGFR3,missense_variant,p.Ser69Cys,ENST00000507588,;FGFR3,missense_variant,p.Ser249Cys,ENST00000340107,;FGFR3,non_coding_transcript_exon_variant,,ENST00000474521,;FGFR3,upstream_gene_variant,,ENST00000469068,;	G	ENSG00000068078	ENST00000340107	Transcript	missense_variant	1002	746	249	S/C	tCc/tGc	CM950470,rs121913483,COSM715,COSM1149892	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	deleterious(0.01)	possibly_damaging(0.594)	7/18	.	hmmpanther:PTHR24416:SF128,hmmpanther:PTHR24416,PIRSF_domain:PIRSF000628	.	.	.	.	.	.	.	.	.	pathogenic	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.S249C|c.746C>G|14,SITE|p.S249C|c.746C>G|1250,BUFFER|p.R248C|c.742C>T|11,BUFFER|p.R248C|c.742C>T|248	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCCCCGC	byFrequency|byCluster	5	BLCA
FGFR3	0	.	GRCh37	4	1805531	1805531	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1082-526C>T	.	.	ENST00000340107	.	65	54	10	45	45	0	FGFR3,missense_variant,p.Ser348Phe,ENST00000440486,;FGFR3,missense_variant,p.Ser348Phe,ENST00000481110,;FGFR3,missense_variant,p.Ser348Phe,ENST00000260795,;FGFR3,intron_variant,,ENST00000352904,;FGFR3,intron_variant,,ENST00000412135,;FGFR3,intron_variant,,ENST00000340107,;FGFR3,downstream_gene_variant,,ENST00000507588,;FGFR3,downstream_gene_variant,,ENST00000474521,;FGFR3,upstream_gene_variant,,ENST00000469068,;	T	ENSG00000068078	ENST00000340107	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	.	.	.	8/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTTCTCATC	.	5	BLCA
WWC2	0	.	GRCh37	4	184182301	184182301	+	Missense_Mutation	SNP	G	G	A	rs138464595	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1525G>A	p.Glu509Lys	p.E509K	ENST00000403733	11/23	29	22	7	24	24	0	WWC2,missense_variant,p.Glu191Lys,ENST00000504005,;WWC2,missense_variant,p.Glu509Lys,ENST00000513834,;WWC2,missense_variant,p.Glu411Lys,ENST00000378925,;WWC2,missense_variant,p.Glu509Lys,ENST00000448232,;WWC2,missense_variant,p.Glu509Lys,ENST00000403733,;WWC2,upstream_gene_variant,,ENST00000506225,;WWC2,missense_variant,p.Glu411Lys,ENST00000438543,;WWC2,3_prime_UTR_variant,,ENST00000427431,;	A	ENSG00000151718	ENST00000403733	Transcript	missense_variant	1724	1525	509	E/K	Gag/Aag	rs138464595	.	.	1	WWC2	HGNC	24148	protein_coding	YES	CCDS34109.2	ENSP00000384222	WWC2_HUMAN	.	UPI000022C4C2	.	deleterious(0.03)	probably_damaging(0.998)	11/23	.	hmmpanther:PTHR14791,hmmpanther:PTHR14791:SF26	.	.	.	.	.	.	.	A:0.0007	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAACGAGGTG	byCluster	5	BLCA
WWC2	0	.	GRCh37	4	184236834	184236834	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3531C>T	p.%3D	p.F1177F	ENST00000403733	23/23	25	20	4	11	11	0	WWC2,synonymous_variant,p.%3D,ENST00000504005,;WWC2,synonymous_variant,p.%3D,ENST00000508747,;WWC2,synonymous_variant,p.%3D,ENST00000513834,;WWC2,synonymous_variant,p.%3D,ENST00000448232,;WWC2,synonymous_variant,p.%3D,ENST00000403733,;CLDN22,downstream_gene_variant,,ENST00000323319,;WWC2,3_prime_UTR_variant,,ENST00000427431,;WWC2,3_prime_UTR_variant,,ENST00000438543,;	T	ENSG00000151718	ENST00000403733	Transcript	synonymous_variant	3730	3531	1177	F	ttC/ttT	.	.	.	1	WWC2	HGNC	24148	protein_coding	YES	CCDS34109.2	ENSP00000384222	WWC2_HUMAN	.	UPI000022C4C2	.	.	.	23/23	.	hmmpanther:PTHR14791,hmmpanther:PTHR14791:SF26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACTTCACCAG	.	4	BLCA
DHX15	0	.	GRCh37	4	24543629	24543629	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1352T>A	p.Ile451Asn	p.I451N	ENST00000336812	8/14	44	38	6	62	62	0	DHX15,missense_variant,p.Ile451Asn,ENST00000336812,;DHX15,upstream_gene_variant,,ENST00000508032,;DHX15,upstream_gene_variant,,ENST00000503562,;	T	ENSG00000109606	ENST00000336812	Transcript	missense_variant	1509	1352	451	I/N	aTc/aAc	.	.	.	-1	DHX15	HGNC	2738	protein_coding	YES	CCDS33966.1	ENSP00000336741	DHX15_HUMAN	.	UPI000012907A	.	deleterious(0.03)	probably_damaging(0.981)	8/14	.	PROSITE_profiles:PS51194,hmmpanther:PTHR18934:SF95,hmmpanther:PTHR18934,Gene3D:3.40.50.300,Pfam_domain:PF00271,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTGATTCGA	.	4	BLCA
SEL1L3	0	.	GRCh37	4	25806331	25806331	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1608G>C	p.Lys536Asn	p.K536N	ENST00000399878	10/24	46	41	5	43	43	0	SEL1L3,missense_variant,p.Lys536Asn,ENST00000399878,;SEL1L3,missense_variant,p.Lys383Asn,ENST00000502949,;SEL1L3,missense_variant,p.Lys501Asn,ENST00000264868,;	G	ENSG00000091490	ENST00000399878	Transcript	missense_variant	1731	1608	536	K/N	aaG/aaC	COSM3825726,COSM3825724,COSM3825725	.	.	-1	SEL1L3	HGNC	29108	protein_coding	YES	CCDS47037.1	ENSP00000382767	SE1L3_HUMAN	D6RF11_HUMAN,D6RDH1_HUMAN,D6RCE1_HUMAN,B4DTH5_HUMAN	UPI00001D7736	.	tolerated(0.46)	benign(0.001)	10/24	.	hmmpanther:PTHR11102:SF58,hmmpanther:PTHR11102	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATATCTTCCC	.	3	BLCA
TLR1	0	.	GRCh37	4	38799584	38799584	+	Missense_Mutation	SNP	C	C	G	rs760353192	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.869G>C	p.Arg290Thr	p.R290T	ENST00000308979	4/4	70	60	9	43	43	0	TLR1,missense_variant,p.Arg290Thr,ENST00000308979,;TLR1,missense_variant,p.Arg290Thr,ENST00000502213,;TLR1,downstream_gene_variant,,ENST00000506146,;TLR1,downstream_gene_variant,,ENST00000508364,;TLR1,downstream_gene_variant,,ENST00000505940,;TLR1,downstream_gene_variant,,ENST00000515861,;TLR1,intron_variant,,ENST00000505744,;TLR1,downstream_gene_variant,,ENST00000508535,;TLR1,upstream_gene_variant,,ENST00000510552,;TLR1,downstream_gene_variant,,ENST00000509754,;	G	ENSG00000174125	ENST00000308979	Transcript	missense_variant	1143	869	290	R/T	aGa/aCa	rs760353192	.	.	-1	TLR1	HGNC	11847	protein_coding	YES	CCDS33973.1	ENSP00000354932	TLR1_HUMAN	Q32MK4_HUMAN,D6RF68_HUMAN,D6RCE8_HUMAN,D6RAP2_HUMAN,D6RA99_HUMAN	UPI000013EDFA	.	tolerated(0.41)	benign(0.021)	4/4	.	hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF261,PIRSF_domain:PIRSF037595	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCTCTGAAG	.	5	BLCA
ABCA11P	0	.	GRCh37	4	420768	420768	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.277-6C>T	.	.	ENST00000451020	.	33	30	3	28	28	0	ZNF721,3_prime_UTR_variant,,ENST00000506646,;ABCA11P,splice_region_variant,,ENST00000514396,;ABCA11P,splice_region_variant,,ENST00000451020,;ABCA11P,non_coding_transcript_exon_variant,,ENST00000507854,;ZNF721,3_prime_UTR_variant,,ENST00000515578,;ABCA11P,non_coding_transcript_exon_variant,,ENST00000504019,;	A	ENSG00000251595	ENST00000451020	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	ABCA11P	HGNC	31	processed_transcript	YES	.	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTATGACAAA	.	2	BLCA
ZAR1	0	.	GRCh37	4	48494839	48494839	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1020G>C	p.Glu340Asp	p.E340D	ENST00000327939	2/4	254	204	49	196	196	0	ZAR1,missense_variant,p.Glu340Asp,ENST00000327939,;SLC10A4,downstream_gene_variant,,ENST00000273861,;FRYL,downstream_gene_variant,,ENST00000358350,;FRYL,downstream_gene_variant,,ENST00000503238,;FRYL,downstream_gene_variant,,ENST00000507873,;FRYL,downstream_gene_variant,,ENST00000264319,;FRYL,downstream_gene_variant,,ENST00000537810,;FRYL,downstream_gene_variant,,ENST00000503339,;	C	ENSG00000182223	ENST00000327939	Transcript	missense_variant	1060	1020	340	E/D	gaG/gaC	.	.	.	1	ZAR1	HGNC	20436	protein_coding	YES	CCDS3483.1	ENSP00000329803	ZAR1_HUMAN	.	UPI000000D8B4	.	deleterious(0)	probably_damaging(0.999)	2/4	.	hmmpanther:PTHR31054:SF2,hmmpanther:PTHR31054,Pfam_domain:PF13695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGAGAGTGC	.	5	BLCA
FRYL	0	.	GRCh37	4	48555389	48555389	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4278C>T	p.%3D	p.V1426V	ENST00000358350	36/64	85	77	8	51	51	0	FRYL,synonymous_variant,p.%3D,ENST00000358350,;FRYL,synonymous_variant,p.%3D,ENST00000507711,;FRYL,synonymous_variant,p.%3D,ENST00000514617,;FRYL,synonymous_variant,p.%3D,ENST00000503238,;FRYL,synonymous_variant,p.%3D,ENST00000537810,;FRYL,5_prime_UTR_variant,,ENST00000507873,;FRYL,5_prime_UTR_variant,,ENST00000264319,;FRYL,upstream_gene_variant,,ENST00000502925,;	A	ENSG00000075539	ENST00000358350	Transcript	synonymous_variant	4883	4278	1426	V	gtC/gtT	.	.	.	-1	FRYL	HGNC	29127	protein_coding	YES	CCDS43227.1	ENSP00000351113	FRYL_HUMAN	.	UPI0000EBC149	.	.	.	36/64	.	hmmpanther:PTHR12295:SF9,hmmpanther:PTHR12295	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAATGACCTT	.	2	BLCA
KIAA1211	0	.	GRCh37	4	57179435	57179435	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>C	p.Asp143His	p.D143H	ENST00000504228	5/9	214	208	6	134	134	0	KIAA1211,missense_variant,p.Asp143His,ENST00000504228,;KIAA1211,missense_variant,p.Asp143His,ENST00000264229,;KIAA1211,missense_variant,p.Asp136His,ENST00000541073,;KIAA1211,upstream_gene_variant,,ENST00000514330,;KIAA1211,downstream_gene_variant,,ENST00000505410,;	C	ENSG00000109265	ENST00000504228	Transcript	missense_variant	532	427	143	D/H	Gat/Cat	.	.	.	1	KIAA1211	HGNC	29219	protein_coding	YES	CCDS43230.1	ENSP00000423366	K1211_HUMAN	.	UPI0000237309	.	deleterious(0)	probably_damaging(1)	5/9	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF350,Pfam_domain:PF15262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTTAGATGCC	.	2	BLCA
KIAA0232	0	.	GRCh37	4	6843886	6843886	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324G>A	p.Met108Ile	p.M108I	ENST00000307659	4/10	94	74	19	85	85	0	KIAA0232,missense_variant,p.Met108Ile,ENST00000307659,;KIAA0232,missense_variant,p.Met108Ile,ENST00000425103,;	A	ENSG00000170871	ENST00000307659	Transcript	missense_variant	779	324	108	M/I	atG/atA	.	.	.	1	KIAA0232	HGNC	28992	protein_coding	YES	CCDS43209.1	ENSP00000303928	K0232_HUMAN	D6REK0_HUMAN	UPI000013EC3F	.	tolerated(0.08)	possibly_damaging(0.45)	4/10	.	hmmpanther:PTHR17611,Pfam_domain:PF15376	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAATGAAAAA	.	5	BLCA
TMPRSS11D	0	.	GRCh37	4	68693052	68693052	+	Silent	SNP	G	G	C	rs761896718	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879C>G	p.%3D	p.L293L	ENST00000283916	8/10	92	80	12	82	82	0	TMPRSS11D,synonymous_variant,p.%3D,ENST00000545541,;TMPRSS11D,synonymous_variant,p.%3D,ENST00000283916,;TMPRSS11D,intron_variant,,ENST00000514868,;UBA6-AS1,intron_variant,,ENST00000500538,;TMPRSS11D,downstream_gene_variant,,ENST00000502573,;TMPRSS11D,non_coding_transcript_exon_variant,,ENST00000505533,;	C	ENSG00000153802	ENST00000283916	Transcript	synonymous_variant	978	879	293	L	ctC/ctG	rs761896718	.	.	-1	TMPRSS11D	HGNC	24059	protein_coding	YES	CCDS3518.1	ENSP00000283916	TM11D_HUMAN	Q4W5K4_HUMAN,B4DL57_HUMAN	UPI000003FE66	.	.	.	8/10	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24256:SF36,hmmpanther:PTHR24256,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,PIRSF_domain:PIRSF037941,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGGAGACA	byFrequency	5	BLCA
TADA2B	0	.	GRCh37	4	7055993	7055993	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.475G>T	p.Ala159Ser	p.A159S	ENST00000310074	2/2	19	15	4	20	20	0	TADA2B,missense_variant,p.Ala67Ser,ENST00000506692,;TADA2B,missense_variant,p.Ala67Ser,ENST00000515646,;TADA2B,missense_variant,p.Ala67Ser,ENST00000510704,;TADA2B,missense_variant,p.Ala159Ser,ENST00000310074,;TADA2B,missense_variant,p.Ala84Ser,ENST00000512388,;GRPEL1,downstream_gene_variant,,ENST00000264954,;	T	ENSG00000173011	ENST00000310074	Transcript	missense_variant	664	475	159	A/S	Gct/Tct	.	.	.	1	TADA2B	HGNC	30781	protein_coding	YES	CCDS47007.1	ENSP00000308022	TAD2B_HUMAN	D6RJ05_HUMAN,D6RC20_HUMAN	UPI00001996F4	.	tolerated(0.3)	benign(0.007)	2/2	.	hmmpanther:PTHR12374,PIRSF_domain:PIRSF025024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTGGCTGAG	.	5	BLCA
SULT1B1	0	.	GRCh37	4	70596342	70596342	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>A	p.Glu219Lys	p.E219K	ENST00000310613	7/8	48	44	4	27	27	0	SULT1B1,missense_variant,p.Glu219Lys,ENST00000310613,;SULT1B1,downstream_gene_variant,,ENST00000510821,;	T	ENSG00000173597	ENST00000310613	Transcript	missense_variant	953	655	219	E/K	Gag/Aag	.	.	.	-1	SULT1B1	HGNC	17845	protein_coding	YES	CCDS3530.1	ENSP00000308770	ST1B1_HUMAN	D6RIA8_HUMAN,D6RD70_HUMAN	UPI000006FDD9	.	tolerated(0.09)	benign(0.007)	7/8	.	hmmpanther:PTHR11783:SF14,hmmpanther:PTHR11783,Gene3D:3.40.50.300,Pfam_domain:PF00685,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATCTCATCAT	.	2	BLCA
ENAM	0	.	GRCh37	4	71508401	71508401	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1258C>G	p.Leu420Val	p.L420V	ENST00000396073	9/9	97	93	4	83	82	1	ENAM,missense_variant,p.Leu420Val,ENST00000396073,;ENAM,intron_variant,,ENST00000472903,;ENAM,downstream_gene_variant,,ENST00000472597,;	G	ENSG00000132464	ENST00000396073	Transcript	missense_variant	1539	1258	420	L/V	Ctg/Gtg	.	.	.	1	ENAM	HGNC	3344	protein_coding	YES	CCDS3544.2	ENSP00000379383	ENAM_HUMAN	Q8NFB4_HUMAN	UPI000013CE60	.	tolerated(0.39)	benign(0.072)	9/9	.	Pfam_domain:PF15362,hmmpanther:PTHR16784:SF2,hmmpanther:PTHR16784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCCCACTGGGT	.	2	BLCA
SLCO4C1	0	.	GRCh37	5	101572628	101572628	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2109A>T	p.Lys703Asn	p.K703N	ENST00000310954	13/13	73	53	20	63	63	0	SLCO4C1,missense_variant,p.Lys703Asn,ENST00000310954,;AC008948.1,downstream_gene_variant,,ENST00000597120,;	A	ENSG00000173930	ENST00000310954	Transcript	missense_variant	2396	2109	703	K/N	aaA/aaT	.	.	.	-1	SLCO4C1	HGNC	23612	protein_coding	YES	CCDS34205.1	ENSP00000309741	SO4C1_HUMAN	Q63HP3_HUMAN	UPI00001C10B6	.	tolerated(0.98)	benign(0)	13/13	.	hmmpanther:PTHR11388:SF81,hmmpanther:PTHR11388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCTTTATG	.	5	BLCA
NUDT12	0	.	GRCh37	5	102895167	102895167	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209G>A	p.Cys70Tyr	p.C70Y	ENST00000230792	3/7	49	42	7	38	38	0	NUDT12,missense_variant,p.Cys52Tyr,ENST00000507423,;NUDT12,missense_variant,p.Cys70Tyr,ENST00000230792,;NUDT12,upstream_gene_variant,,ENST00000515407,;NUDT12,non_coding_transcript_exon_variant,,ENST00000508889,;	T	ENSG00000112874	ENST00000230792	Transcript	missense_variant	306	209	70	C/Y	tGt/tAt	COSM4126985	.	.	-1	NUDT12	HGNC	18826	protein_coding	YES	CCDS4096.1	ENSP00000230792	NUD12_HUMAN	.	UPI0000073C53	.	deleterious(0)	probably_damaging(0.979)	3/7	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCACACCTA	.	2	BLCA
PDLIM4	0	.	GRCh37	5	131607054	131607054	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565G>C	p.Glu189Gln	p.E189Q	ENST00000253754	5/7	33	27	5	18	18	0	PDLIM4,missense_variant,p.Glu189Gln,ENST00000253754,;PDLIM4,missense_variant,p.Glu189Gln,ENST00000379018,;P4HA2,intron_variant,,ENST00000431054,;P4HA2,intron_variant,,ENST00000439698,;P4HA2,intron_variant,,ENST00000416053,;PDLIM4,downstream_gene_variant,,ENST00000418373,;PDLIM4,non_coding_transcript_exon_variant,,ENST00000484620,;P4HA2,intron_variant,,ENST00000471826,;PDLIM4,non_coding_transcript_exon_variant,,ENST00000462597,;PDLIM4,non_coding_transcript_exon_variant,,ENST00000474421,;PDLIM4,downstream_gene_variant,,ENST00000463615,;	C	ENSG00000131435	ENST00000253754	Transcript	missense_variant	629	565	189	E/Q	Gag/Cag	.	.	.	1	PDLIM4	HGNC	16501	protein_coding	YES	CCDS4152.1	ENSP00000253754	PDLI4_HUMAN	C9J542_HUMAN	UPI00001338F6	.	deleterious(0.01)	benign(0.349)	5/7	.	hmmpanther:PTHR24214,hmmpanther:PTHR24214:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	GCTCCGAGGTG	.	4	BLCA
MYOT	0	.	GRCh37	5	137217765	137217765	+	Missense_Mutation	SNP	G	G	A	rs757400809	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787G>A	p.Glu263Lys	p.E263K	ENST00000239926	6/10	58	49	9	49	49	0	MYOT,missense_variant,p.Glu263Lys,ENST00000239926,;MYOT,missense_variant,p.Glu79Lys,ENST00000421631,;MYOT,missense_variant,p.Glu148Lys,ENST00000515645,;RP11-381K20.2,intron_variant,,ENST00000514616,;RP11-381K20.2,downstream_gene_variant,,ENST00000508281,;MYOT,intron_variant,,ENST00000509812,;MYOT,non_coding_transcript_exon_variant,,ENST00000503748,;MYOT,intron_variant,,ENST00000511254,;MYOT,upstream_gene_variant,,ENST00000508938,;	A	ENSG00000120729	ENST00000239926	Transcript	missense_variant	1161	787	263	E/K	Gaa/Aaa	rs757400809	.	.	1	MYOT	HGNC	12399	protein_coding	YES	CCDS4194.1	ENSP00000239926	MYOTI_HUMAN	B4DT68_HUMAN	UPI000013CA96	.	deleterious(0)	probably_damaging(1)	6/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGATGAAGGA	.	5	BLCA
FAM13B	0	.	GRCh37	5	137354117	137354117	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244G>A	p.Glu82Lys	p.E82K	ENST00000033079	4/23	77	65	12	59	59	0	FAM13B,missense_variant,p.Glu82Lys,ENST00000420893,;FAM13B,missense_variant,p.Glu82Lys,ENST00000033079,;FAM13B,missense_variant,p.Glu82Lys,ENST00000514310,;FAM13B,missense_variant,p.Glu82Lys,ENST00000502471,;FAM13B,missense_variant,p.Glu82Lys,ENST00000509596,;FAM13B,5_prime_UTR_variant,,ENST00000425075,;FAM13B,downstream_gene_variant,,ENST00000505961,;FAM13B,downstream_gene_variant,,ENST00000508403,;FAM13B,downstream_gene_variant,,ENST00000510804,;	T	ENSG00000031003	ENST00000033079	Transcript	missense_variant	696	244	82	E/K	Gag/Aag	.	.	.	-1	FAM13B	HGNC	1335	protein_coding	YES	CCDS4195.1	ENSP00000033079	FA13B_HUMAN	D6RE97_HUMAN,D6RDL7_HUMAN,D6RCA0_HUMAN,D6RBJ3_HUMAN,D6RAT6_HUMAN	UPI000004A03C	.	tolerated(0.07)	possibly_damaging(0.559)	4/23	.	PROSITE_profiles:PS50238,hmmpanther:PTHR15904:SF16,hmmpanther:PTHR15904,Pfam_domain:PF00620,Gene3D:1.10.555.10,SMART_domains:SM00324,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTTCTC	.	5	BLCA
PCDHGA7	0	.	GRCh37	5	140764423	140764423	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1957C>T	p.Pro653Ser	p.P653S	ENST00000518325	1/4	45	38	7	51	51	0	PCDHGA7,missense_variant,p.Pro653Ser,ENST00000518325,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB4,upstream_gene_variant,,ENST00000519479,;	T	ENSG00000253537	ENST00000518325	Transcript	missense_variant	1957	1957	653	P/S	Cct/Tct	.	.	.	1	PCDHGA7	HGNC	8705	protein_coding	YES	CCDS54927.1	ENSP00000430024	PCDG7_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000007146F	.	deleterious_low_confidence(0.01)	possibly_damaging(0.856)	1/4	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF56,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTCCTCTG	.	4	BLCA
SH3RF2	0	.	GRCh37	5	145317698	145317698	+	Silent	SNP	C	C	T	rs774262685	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207C>T	p.%3D	p.L69L	ENST00000511217	1/10	51	44	7	37	37	0	SH3RF2,synonymous_variant,p.%3D,ENST00000359120,;SH3RF2,synonymous_variant,p.%3D,ENST00000511217,;SH3RF2,downstream_gene_variant,,ENST00000506591,;	T	ENSG00000156463	ENST00000511217	Transcript	synonymous_variant	259	207	69	L	ctC/ctT	rs774262685	.	.	1	SH3RF2	HGNC	26299	protein_coding	YES	CCDS4280.1	ENSP00000424497	SH3R2_HUMAN	.	UPI0000457366	.	.	.	1/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10661,hmmpanther:PTHR10661:SF6,Gene3D:3.30.40.10,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCGTGCG	.	5	BLCA
PPP2R2B	0	.	GRCh37	5	145969389	145969389	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*121G>C	.	.	ENST00000336640	9/9	24	20	4	16	16	0	PPP2R2B,3_prime_UTR_variant,,ENST00000394414,;PPP2R2B,3_prime_UTR_variant,,ENST00000508545,;PPP2R2B,3_prime_UTR_variant,,ENST00000504198,;PPP2R2B,3_prime_UTR_variant,,ENST00000394411,;PPP2R2B,3_prime_UTR_variant,,ENST00000453001,;PPP2R2B,3_prime_UTR_variant,,ENST00000394410,;PPP2R2B,3_prime_UTR_variant,,ENST00000356826,;PPP2R2B,3_prime_UTR_variant,,ENST00000394413,;PPP2R2B,3_prime_UTR_variant,,ENST00000336640,;PPP2R2B,downstream_gene_variant,,ENST00000394409,;PPP2R2B,downstream_gene_variant,,ENST00000512984,;RNA5SP196,upstream_gene_variant,,ENST00000516984,;CTB-99A3.1,intron_variant,,ENST00000512730,;PPP2R2B,non_coding_transcript_exon_variant,,ENST00000530902,;PPP2R2B,downstream_gene_variant,,ENST00000512639,;	G	ENSG00000156475	ENST00000336640	Transcript	3_prime_UTR_variant	1693	.	.	.	.	.	.	.	-1	PPP2R2B	HGNC	9305	protein_coding	YES	CCDS4283.1	ENSP00000336591	2ABB_HUMAN	.	UPI0000026156	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CTATTCCAATC	.	3	BLCA
JAKMIP2	0	.	GRCh37	5	147016608	147016608	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1534C>G	p.Gln512Glu	p.Q512E	ENST00000265272	11/21	112	92	20	82	82	0	JAKMIP2,missense_variant,p.Gln512Glu,ENST00000265272,;JAKMIP2,missense_variant,p.Gln470Glu,ENST00000333010,;JAKMIP2,missense_variant,p.Gln512Glu,ENST00000507386,;JAKMIP2,non_coding_transcript_exon_variant,,ENST00000504845,;	C	ENSG00000176049	ENST00000265272	Transcript	missense_variant	2002	1534	512	Q/E	Caa/Gaa	COSM3852508,COSM3852509	.	.	-1	JAKMIP2	HGNC	29067	protein_coding	YES	CCDS4285.1	ENSP00000265272	JKIP2_HUMAN	.	UPI000000D782	.	deleterious(0)	benign(0.037)	11/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18935,hmmpanther:PTHR18935:SF7	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTGAGCCT	.	4	BLCA
PPARGC1B	0	.	GRCh37	5	149225358	149225358	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2852C>A	p.Ser951Tyr	p.S951Y	ENST00000309241	11/12	65	55	10	58	58	0	PPARGC1B,missense_variant,p.Ser912Tyr,ENST00000360453,;PPARGC1B,missense_variant,p.Ser887Tyr,ENST00000403750,;PPARGC1B,missense_variant,p.Ser951Tyr,ENST00000309241,;PPARGC1B,missense_variant,p.Ser951Tyr,ENST00000394320,;PPARGC1B,missense_variant,p.Ser638Tyr,ENST00000434684,;PPARGC1B,non_coding_transcript_exon_variant,,ENST00000492495,;	A	ENSG00000155846	ENST00000309241	Transcript	missense_variant	2884	2852	951	S/Y	tCt/tAt	.	.	.	1	PPARGC1B	HGNC	30022	protein_coding	YES	CCDS4298.1	ENSP00000312649	PRGC2_HUMAN	.	UPI000006F49D	.	deleterious(0)	probably_damaging(0.999)	11/12	.	PROSITE_profiles:PS50102,hmmpanther:PTHR15528:SF12,hmmpanther:PTHR15528,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGTTCTGAGC	.	3	BLCA
PPARGC1B	0	.	GRCh37	5	149225374	149225374	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2868C>T	p.%3D	p.L956L	ENST00000309241	11/12	71	58	13	54	54	0	PPARGC1B,synonymous_variant,p.%3D,ENST00000360453,;PPARGC1B,synonymous_variant,p.%3D,ENST00000403750,;PPARGC1B,synonymous_variant,p.%3D,ENST00000309241,;PPARGC1B,synonymous_variant,p.%3D,ENST00000394320,;PPARGC1B,synonymous_variant,p.%3D,ENST00000434684,;PPARGC1B,non_coding_transcript_exon_variant,,ENST00000492495,;	T	ENSG00000155846	ENST00000309241	Transcript	synonymous_variant	2900	2868	956	L	ctC/ctT	.	.	.	1	PPARGC1B	HGNC	30022	protein_coding	YES	CCDS4298.1	ENSP00000312649	PRGC2_HUMAN	.	UPI000006F49D	.	.	.	11/12	.	PROSITE_profiles:PS50102,hmmpanther:PTHR15528:SF12,hmmpanther:PTHR15528,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCCTCTCTTT	.	3	BLCA
PPARGC1B	0	.	GRCh37	5	149225376	149225376	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2870C>T	p.Ser957Phe	p.S957F	ENST00000309241	11/12	70	56	14	53	53	0	PPARGC1B,missense_variant,p.Ser918Phe,ENST00000360453,;PPARGC1B,missense_variant,p.Ser893Phe,ENST00000403750,;PPARGC1B,missense_variant,p.Ser957Phe,ENST00000309241,;PPARGC1B,missense_variant,p.Ser957Phe,ENST00000394320,;PPARGC1B,missense_variant,p.Ser644Phe,ENST00000434684,;PPARGC1B,non_coding_transcript_exon_variant,,ENST00000492495,;	T	ENSG00000155846	ENST00000309241	Transcript	missense_variant	2902	2870	957	S/F	tCt/tTt	.	.	.	1	PPARGC1B	HGNC	30022	protein_coding	YES	CCDS4298.1	ENSP00000312649	PRGC2_HUMAN	.	UPI000006F49D	.	deleterious(0)	probably_damaging(0.999)	11/12	.	PROSITE_profiles:PS50102,hmmpanther:PTHR15528:SF12,hmmpanther:PTHR15528,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTCTCTTTGA	.	3	BLCA
ANXA6	0	.	GRCh37	5	150515820	150515820	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486C>T	p.%3D	p.L162L	ENST00000354546	7/26	49	40	9	24	24	0	ANXA6,synonymous_variant,p.%3D,ENST00000354546,;ANXA6,synonymous_variant,p.%3D,ENST00000521749,;ANXA6,synonymous_variant,p.%3D,ENST00000356496,;ANXA6,synonymous_variant,p.%3D,ENST00000523714,;ANXA6,intron_variant,,ENST00000521512,;ANXA6,intron_variant,,ENST00000517486,;ANXA6,intron_variant,,ENST00000377751,;ANXA6,downstream_gene_variant,,ENST00000523164,;ANXA6,downstream_gene_variant,,ENST00000517757,;ANXA6,intron_variant,,ENST00000519644,;ANXA6,intron_variant,,ENST00000517677,;ANXA6,upstream_gene_variant,,ENST00000517707,;ANXA6,downstream_gene_variant,,ENST00000520378,;	A	ENSG00000197043	ENST00000354546	Transcript	synonymous_variant	714	486	162	L	ctC/ctT	.	.	.	-1	ANXA6	HGNC	544	protein_coding	YES	CCDS47315.1	ENSP00000346550	ANXA6_HUMAN	E5RK63_HUMAN,E5RJR0_HUMAN,E5RJF5_HUMAN,B7Z582_HUMAN	UPI000013CB37	.	.	.	7/26	.	Superfamily_domains:SSF47874,Gene3D:1.10.220.10,hmmpanther:PTHR10502:SF19,hmmpanther:PTHR10502	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTGGAGCAG	.	5	BLCA
SGCD	0	.	GRCh37	5	156186296	156186296	+	Silent	SNP	G	G	T	rs376141942	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768G>T	p.%3D	p.T256T	ENST00000337851	9/9	100	84	16	72	72	0	SGCD,synonymous_variant,p.%3D,ENST00000435422,;SGCD,synonymous_variant,p.%3D,ENST00000337851,;SGCD,downstream_gene_variant,,ENST00000447401,;SGCD,downstream_gene_variant,,ENST00000517913,;	T	ENSG00000170624	ENST00000337851	Transcript	synonymous_variant	1287	768	256	T	acG/acT	rs376141942	.	.	1	SGCD	HGNC	10807	protein_coding	YES	CCDS47325.1	ENSP00000338343	SGCD_HUMAN	.	UPI00001678CF	.	.	.	9/9	.	hmmpanther:PTHR12939:SF6,hmmpanther:PTHR12939,Pfam_domain:PF04790	.	.	.	.	.	.	.	C:0.0003	C:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAACGAGGCA	byFrequency|byCluster	4	BLCA
SOX30	0	.	GRCh37	5	157053261	157053261	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*87C>G	.	.	ENST00000265007	5/5	22	19	3	16	16	0	SOX30,3_prime_UTR_variant,,ENST00000311371,;SOX30,3_prime_UTR_variant,,ENST00000265007,;SOX30,3_prime_UTR_variant,,ENST00000519442,;	C	ENSG00000039600	ENST00000265007	Transcript	3_prime_UTR_variant	2691	.	.	.	.	.	.	.	-1	SOX30	HGNC	30635	protein_coding	YES	CCDS4339.1	ENSP00000265007	SOX30_HUMAN	.	UPI00001362BA	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAAAGAATTC	.	2	BLCA
RNF145	0	.	GRCh37	5	158630512	158630512	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204C>T	p.%3D	p.I68I	ENST00000518802	2/11	78	61	16	64	64	0	RNF145,synonymous_variant,p.%3D,ENST00000520638,;RNF145,synonymous_variant,p.%3D,ENST00000521606,;RNF145,synonymous_variant,p.%3D,ENST00000519865,;RNF145,synonymous_variant,p.%3D,ENST00000274542,;RNF145,synonymous_variant,p.%3D,ENST00000518802,;RNF145,synonymous_variant,p.%3D,ENST00000424310,;RNF145,non_coding_transcript_exon_variant,,ENST00000520548,;	A	ENSG00000145860	ENST00000518802	Transcript	synonymous_variant	354	204	68	I	atC/atT	.	.	.	-1	RNF145	HGNC	20853	protein_coding	YES	CCDS56393.1	ENSP00000430955	RN145_HUMAN	Q8NDT8_HUMAN,Q8NC08_HUMAN,Q8N783_HUMAN,Q6MZY8_HUMAN,B7Z249_HUMAN,B3KWZ2_HUMAN	UPI0001E8F5CB	.	.	.	2/11	.	Pfam_domain:PF13705	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTGGATCTG	.	5	BLCA
SLU7	0	.	GRCh37	5	159835443	159835443	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.712G>C	p.Glu238Gln	p.E238Q	ENST00000297151	8/16	57	45	12	30	30	0	SLU7,missense_variant,p.Glu238Gln,ENST00000297151,;SLU7,upstream_gene_variant,,ENST00000521320,;SLU7,upstream_gene_variant,,ENST00000520841,;SLU7,upstream_gene_variant,,ENST00000523219,;	G	ENSG00000164609	ENST00000297151	Transcript	missense_variant	1100	712	238	E/Q	Gag/Cag	.	.	.	-1	SLU7	HGNC	16939	protein_coding	YES	CCDS4352.1	ENSP00000297151	SLU7_HUMAN	E5RK41_HUMAN,E5RGM7_HUMAN	UPI000013E3CE	.	tolerated(0.13)	probably_damaging(0.971)	8/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12942,hmmpanther:PTHR12942:SF2,Pfam_domain:PF11708	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCATCTT	.	5	BLCA
NSD1	0	.	GRCh37	5	176636760	176636760	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1360G>A	p.Asp454Asn	p.D454N	ENST00000439151	5/23	95	68	27	74	74	0	NSD1,missense_variant,p.Asp351Asn,ENST00000361032,;NSD1,missense_variant,p.Asp185Asn,ENST00000354179,;NSD1,missense_variant,p.Asp454Asn,ENST00000439151,;NSD1,missense_variant,p.Asp185Asn,ENST00000347982,;NSD1,downstream_gene_variant,,ENST00000508896,;NSD1,upstream_gene_variant,,ENST00000375350,;	A	ENSG00000165671	ENST00000439151	Transcript	missense_variant	1405	1360	454	D/N	Gat/Aat	.	.	.	1	NSD1	HGNC	14234	protein_coding	YES	CCDS4412.1	ENSP00000395929	NSD1_HUMAN	Q9H6H8_HUMAN,Q9H6B5_HUMAN,Q96MN8_HUMAN,Q96DQ7_HUMAN,Q658U6_HUMAN,D6RE14_HUMAN,D6RBP3_HUMAN,D6RA90_HUMAN	UPI000006F9C6	.	deleterious_low_confidence(0)	benign(0.287)	5/23	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF312	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGATATG	.	5	BLCA
PDLIM7	0	.	GRCh37	5	176918073	176918073	+	Missense_Mutation	SNP	C	C	T	rs774710389	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.473G>A	p.Arg158Gln	p.R158Q	ENST00000355841	6/13	16	10	5	14	14	0	PDLIM7,missense_variant,p.Arg158Gln,ENST00000355572,;PDLIM7,missense_variant,p.Arg158Gln,ENST00000505074,;PDLIM7,missense_variant,p.Arg175Gln,ENST00000393546,;PDLIM7,missense_variant,p.Arg124Gln,ENST00000359895,;PDLIM7,missense_variant,p.Arg158Gln,ENST00000355841,;PDLIM7,missense_variant,p.Arg158Gln,ENST00000356618,;PDLIM7,missense_variant,p.Arg158Gln,ENST00000506161,;PDLIM7,missense_variant,p.Arg158Gln,ENST00000393551,;PDLIM7,downstream_gene_variant,,ENST00000506537,;RP11-1334A24.6,upstream_gene_variant,,ENST00000506025,;PDLIM7,missense_variant,p.Arg158Gln,ENST00000486828,;PDLIM7,3_prime_UTR_variant,,ENST00000493815,;PDLIM7,non_coding_transcript_exon_variant,,ENST00000504318,;PDLIM7,downstream_gene_variant,,ENST00000503346,;PDLIM7,downstream_gene_variant,,ENST00000463411,;PDLIM7,downstream_gene_variant,,ENST00000503827,;	T	ENSG00000196923	ENST00000355841	Transcript	missense_variant	540	473	158	R/Q	cGg/cAg	rs774710389	.	.	-1	PDLIM7	HGNC	22958	protein_coding	YES	CCDS4422.1	ENSP00000348099	PDLI7_HUMAN	D6RF83_HUMAN,D6RAN1_HUMAN	UPI0000073DEF	.	deleterious(0.01)	benign(0.062)	6/13	.	hmmpanther:PTHR24214	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGCCGCGGC	byFrequency	5	BLCA
FLT4	0	.	GRCh37	5	180048866	180048866	+	Missense_Mutation	SNP	C	C	T	rs757667364	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1696G>A	p.Glu566Lys	p.E566K	ENST00000261937	13/30	73	63	10	63	63	0	FLT4,missense_variant,p.Glu566Lys,ENST00000502649,;FLT4,missense_variant,p.Glu566Lys,ENST00000261937,;FLT4,missense_variant,p.Glu566Lys,ENST00000393347,;FLT4,upstream_gene_variant,,ENST00000512795,;FLT4,non_coding_transcript_exon_variant,,ENST00000424276,;FLT4,non_coding_transcript_exon_variant,,ENST00000507059,;FLT4,upstream_gene_variant,,ENST00000514810,;	T	ENSG00000037280	ENST00000261937	Transcript	missense_variant	1775	1696	566	E/K	Gag/Aag	rs757667364	.	.	-1	FLT4	HGNC	3767	protein_coding	YES	CCDS4457.1	ENSP00000261937	VGFR3_HUMAN	D6RFF2_HUMAN	UPI00001488E7	.	tolerated(0.18)	probably_damaging(0.955)	13/30	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF13895,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF49,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCGGATG	byFrequency	4	BLCA
TTC23L	0	.	GRCh37	5	34863131	34863131	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508C>G	p.Leu170Val	p.L170V	ENST00000505624	5/11	63	54	9	53	53	0	TTC23L,missense_variant,p.Leu170Val,ENST00000505624,;TTC23L,non_coding_transcript_exon_variant,,ENST00000514080,;TTC23L,downstream_gene_variant,,ENST00000506758,;TTC23L,downstream_gene_variant,,ENST00000502782,;TTC23L,missense_variant,p.Leu170Val,ENST00000502674,;TTC23L,3_prime_UTR_variant,,ENST00000508722,;CTD-2517O10.5,upstream_gene_variant,,ENST00000515352,;	G	ENSG00000205838	ENST00000505624	Transcript	missense_variant	611	508	170	L/V	Ctg/Gtg	.	.	.	1	TTC23L	HGNC	26355	protein_coding	YES	CCDS54840.1	ENSP00000422188	TT23L_HUMAN	.	UPI000013F897	.	tolerated(0.08)	benign(0.309)	5/11	.	Superfamily_domains:SSF48452,Gene3D:1.25.40.10,hmmpanther:PTHR14485:SF1,hmmpanther:PTHR14485	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACACTCTGGGC	.	4	BLCA
PRLR	0	.	GRCh37	5	35072715	35072715	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.505G>A	p.Glu169Lys	p.E169K	ENST00000382002	6/10	107	98	9	87	87	0	PRLR,missense_variant,p.Glu169Lys,ENST00000310101,;PRLR,missense_variant,p.Glu169Lys,ENST00000382002,;PRLR,missense_variant,p.Glu169Lys,ENST00000348262,;PRLR,missense_variant,p.Glu68Lys,ENST00000342362,;PRLR,missense_variant,p.Glu68Lys,ENST00000511486,;PRLR,missense_variant,p.Glu98Lys,ENST00000397391,;PRLR,missense_variant,p.Glu169Lys,ENST00000542609,;PRLR,missense_variant,p.Glu169Lys,ENST00000231423,;PRLR,missense_variant,p.Glu169Lys,ENST00000513753,;PRLR,non_coding_transcript_exon_variant,,ENST00000509934,;PRLR,3_prime_UTR_variant,,ENST00000509140,;PRLR,3_prime_UTR_variant,,ENST00000514088,;PRLR,intron_variant,,ENST00000508107,;	T	ENSG00000113494	ENST00000382002	Transcript	missense_variant	932	505	169	E/K	Gaa/Aaa	COSM1222107,COSM3615618,COSM3615619	.	.	-1	PRLR	HGNC	9446	protein_coding	YES	CCDS3909.1	ENSP00000371432	PRLR_HUMAN	D6RD41_HUMAN,D6RC67_HUMAN,D6RAN9_HUMAN,D6R9V7_HUMAN,D6R9P5_HUMAN	UPI0000132234	.	deleterious(0.03)	probably_damaging(0.955)	6/10	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Gene3D:2.60.40.10,PROSITE_patterns:PS01352,hmmpanther:PTHR23036:SF86,hmmpanther:PTHR23036,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	AATTTCATACA	.	3	BLCA
SPEF2	0	.	GRCh37	5	35700647	35700647	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2191T>G	p.Leu731Val	p.L731V	ENST00000356031	16/37	55	44	10	34	34	0	SPEF2,missense_variant,p.Leu726Val,ENST00000440995,;SPEF2,missense_variant,p.Leu237Val,ENST00000504054,;SPEF2,missense_variant,p.Leu726Val,ENST00000509059,;SPEF2,missense_variant,p.Leu731Val,ENST00000356031,;CTD-2113L7.1,intron_variant,,ENST00000510433,;SPEF2,non_coding_transcript_exon_variant,,ENST00000503074,;SPEF2,upstream_gene_variant,,ENST00000508817,;	G	ENSG00000152582	ENST00000356031	Transcript	missense_variant	2345	2191	731	L/V	Tta/Gta	.	.	.	1	SPEF2	HGNC	26293	protein_coding	YES	CCDS43309.1	ENSP00000348314	SPEF2_HUMAN	.	UPI0001505B9F	.	tolerated(0.22)	possibly_damaging(0.849)	16/37	.	hmmpanther:PTHR14919,hmmpanther:PTHR14919:SF0,Pfam_domain:PF00406,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACTTTAAAC	.	5	BLCA
WDR70	0	.	GRCh37	5	37379655	37379655	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.90C>A	p.Phe30Leu	p.F30L	ENST00000265107	2/18	33	20	12	25	25	0	WDR70,missense_variant,p.Phe30Leu,ENST00000265107,;WDR70,missense_variant,p.Phe30Leu,ENST00000504564,;WDR70,splice_region_variant,,ENST00000505799,;WDR70,intron_variant,,ENST00000511906,;RP11-648M2.1,downstream_gene_variant,,ENST00000514638,;	A	ENSG00000082068	ENST00000265107	Transcript	missense_variant	246	90	30	F/L	ttC/ttA	COSM3828041	.	.	1	WDR70	HGNC	25495	protein_coding	YES	CCDS34147.1	ENSP00000265107	WDR70_HUMAN	.	UPI0000049FC2	.	deleterious(0.03)	benign(0.025)	2/18	.	hmmpanther:PTHR16017,hmmpanther:PTHR16017:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTTCGGTGA	.	5	BLCA
MROH2B	0	.	GRCh37	5	41038954	41038954	+	Missense_Mutation	SNP	C	C	G	rs774331511	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2098G>C	p.Asp700His	p.D700H	ENST00000399564	21/42	39	32	7	25	25	0	MROH2B,missense_variant,p.Asp255His,ENST00000506092,;MROH2B,missense_variant,p.Asp700His,ENST00000399564,;MROH2B,non_coding_transcript_exon_variant,,ENST00000515297,;MROH2B,non_coding_transcript_exon_variant,,ENST00000503890,;	G	ENSG00000171495	ENST00000399564	Transcript	missense_variant	2549	2098	700	D/H	Gat/Cat	rs774331511,COSM330486	.	.	-1	MROH2B	HGNC	26857	protein_coding	YES	CCDS47202.1	ENSP00000382476	MRO2B_HUMAN	F5GZ06_HUMAN	UPI000020CA04	.	deleterious(0.02)	probably_damaging(0.956)	21/42	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF15,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATCTGTCT	byFrequency	5	BLCA
GZMA	0	.	GRCh37	5	54405998	54405998	+	Missense_Mutation	SNP	G	G	C	rs751079863	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.777G>C	p.Lys259Asn	p.K259N	ENST00000274306	5/5	85	73	11	61	61	0	GZMA,missense_variant,p.Lys259Asn,ENST00000274306,;CDC20B,downstream_gene_variant,,ENST00000296733,;CDC20B,downstream_gene_variant,,ENST00000322374,;CDC20B,downstream_gene_variant,,ENST00000334206,;CDC20B,downstream_gene_variant,,ENST00000381375,;	C	ENSG00000145649	ENST00000274306	Transcript	missense_variant	812	777	259	K/N	aaG/aaC	rs751079863,COSM3617020	.	.	1	GZMA	HGNC	4708	protein_coding	YES	CCDS3965.1	ENSP00000274306	GRAA_HUMAN	.	UPI000013D9FC	.	tolerated(0.12)	benign(0.213)	5/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24272,hmmpanther:PTHR24272:SF48,Gene3D:2.40.10.10	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCAAGGGAGC	byFrequency	4	BLCA
PLK2	0	.	GRCh37	5	57754898	57754898	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292G>C	p.Glu98Gln	p.E98Q	ENST00000274289	2/14	97	79	17	86	86	0	PLK2,missense_variant,p.Glu98Gln,ENST00000274289,;PLK2,upstream_gene_variant,,ENST00000502671,;PLK2,non_coding_transcript_exon_variant,,ENST00000514306,;PLK2,non_coding_transcript_exon_variant,,ENST00000515415,;PLK2,non_coding_transcript_exon_variant,,ENST00000504196,;PLK2,non_coding_transcript_exon_variant,,ENST00000508300,;PLK2,upstream_gene_variant,,ENST00000509422,;PLK2,upstream_gene_variant,,ENST00000505244,;PLK2,upstream_gene_variant,,ENST00000503115,;PLK2,upstream_gene_variant,,ENST00000509555,;PLK2,upstream_gene_variant,,ENST00000511326,;PLK2,upstream_gene_variant,,ENST00000503378,;PLK2,upstream_gene_variant,,ENST00000510629,;PLK2,upstream_gene_variant,,ENST00000503713,;	G	ENSG00000145632	ENST00000274289	Transcript	missense_variant	593	292	98	E/Q	Gag/Cag	.	.	.	-1	PLK2	HGNC	19699	protein_coding	YES	CCDS3974.1	ENSP00000274289	PLK2_HUMAN	.	UPI0000135B35	.	deleterious(0.01)	probably_damaging(0.998)	2/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24345:SF44,hmmpanther:PTHR24345,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCGTAAC	.	5	BLCA
BDP1	0	.	GRCh37	5	70838038	70838038	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6358C>G	p.Gln2120Glu	p.Q2120E	ENST00000358731	30/39	39	35	4	28	28	0	BDP1,missense_variant,p.Gln2120Glu,ENST00000358731,;BDP1,missense_variant,p.Gln256Glu,ENST00000380675,;BDP1,missense_variant,p.Gln142Glu,ENST00000525844,;BDP1,missense_variant,p.Gln376Glu,ENST00000514903,;BDP1,non_coding_transcript_exon_variant,,ENST00000508917,;HMGN1P12,upstream_gene_variant,,ENST00000499125,;	G	ENSG00000145734	ENST00000358731	Transcript	missense_variant	6621	6358	2120	Q/E	Cag/Gag	.	.	.	1	BDP1	HGNC	13652	protein_coding	YES	CCDS43328.1	ENSP00000351575	BDP1_HUMAN	.	UPI000020CA90	.	deleterious(0.05)	possibly_damaging(0.576)	30/39	.	hmmpanther:PTHR22929:SF0,hmmpanther:PTHR22929	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTATCAGGAA	.	4	BLCA
THBS4	0	.	GRCh37	5	79351615	79351615	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300C>A	p.%3D	p.L100L	ENST00000350881	3/22	203	158	45	127	127	0	THBS4,synonymous_variant,p.%3D,ENST00000350881,;THBS4,synonymous_variant,p.%3D,ENST00000511733,;CTD-2201I18.1,intron_variant,,ENST00000503007,;THBS4,non_coding_transcript_exon_variant,,ENST00000510218,;THBS4,non_coding_transcript_exon_variant,,ENST00000513310,;	A	ENSG00000113296	ENST00000350881	Transcript	synonymous_variant	490	300	100	L	ctC/ctA	.	.	.	1	THBS4	HGNC	11788	protein_coding	YES	CCDS4049.1	ENSP00000339730	TSP4_HUMAN	E7ES19_HUMAN	UPI000013D591	.	.	.	3/22	.	hmmpanther:PTHR10199:SF4,hmmpanther:PTHR10199,SMART_domains:SM00210,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTCCGTTA	.	5	BLCA
ASCC3	0	.	GRCh37	6	101296120	101296120	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705G>A	p.%3D	p.L235L	ENST00000369162	4/42	78	66	12	50	50	0	ASCC3,synonymous_variant,p.%3D,ENST00000369162,;ASCC3,synonymous_variant,p.%3D,ENST00000522650,;ASCC3,downstream_gene_variant,,ENST00000324723,;ASCC3,3_prime_UTR_variant,,ENST00000324696,;ASCC3,non_coding_transcript_exon_variant,,ENST00000468245,;	T	ENSG00000112249	ENST00000369162	Transcript	synonymous_variant	1050	705	235	L	ttG/ttA	.	.	.	-1	ASCC3	HGNC	18697	protein_coding	YES	CCDS5046.1	ENSP00000358159	ASCC3_HUMAN	E5RFZ0_HUMAN	UPI000014145A	.	.	.	4/42	.	hmmpanther:PTHR11752:SF8,hmmpanther:PTHR11752	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCAAAGT	.	5	BLCA
GCNT2	0	.	GRCh37	6	10586730	10586730	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.926-34854G>A	.	.	ENST00000379597	.	161	139	22	111	111	0	GCNT2,missense_variant,p.Asp170Asn,ENST00000265012,;GCNT2,intron_variant,,ENST00000495262,;GCNT2,intron_variant,,ENST00000316170,;GCNT2,intron_variant,,ENST00000379597,;GCNT2,intron_variant,,ENST00000410107,;GCNT2,intron_variant,,ENST00000459872,;GCNT2,intron_variant,,ENST00000397423,;GCNT2,intron_variant,,ENST00000489225,;GCNT2,intron_variant,,ENST00000475577,;GCNT2,intron_variant,,ENST00000474518,;GCNT2,intron_variant,,ENST00000489819,;GCNT2,intron_variant,,ENST00000485764,;GCNT2,intron_variant,,ENST00000461400,;	A	ENSG00000111846	ENST00000379597	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GCNT2	HGNC	4204	protein_coding	YES	CCDS34338.1	ENSP00000368917	GNT2A_HUMAN	Q8N7N7_HUMAN,Q08M29_HUMAN	UPI000006E705	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGCTGACCTG	.	3	BLCA
GCNT2	0	.	GRCh37	6	10586744	10586744	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.926-34840G>C	.	.	ENST00000379597	.	156	136	20	103	103	0	GCNT2,synonymous_variant,p.%3D,ENST00000265012,;GCNT2,intron_variant,,ENST00000495262,;GCNT2,intron_variant,,ENST00000316170,;GCNT2,intron_variant,,ENST00000379597,;GCNT2,intron_variant,,ENST00000410107,;GCNT2,intron_variant,,ENST00000459872,;GCNT2,intron_variant,,ENST00000397423,;GCNT2,intron_variant,,ENST00000489225,;GCNT2,intron_variant,,ENST00000475577,;GCNT2,intron_variant,,ENST00000474518,;GCNT2,intron_variant,,ENST00000489819,;GCNT2,intron_variant,,ENST00000485764,;GCNT2,intron_variant,,ENST00000461400,;	C	ENSG00000111846	ENST00000379597	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GCNT2	HGNC	4204	protein_coding	YES	CCDS34338.1	ENSP00000368917	GNT2A_HUMAN	Q8N7N7_HUMAN,Q08M29_HUMAN	UPI000006E705	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGTCTGAAAGA	.	3	BLCA
GPRC6A	0	.	GRCh37	6	117128244	117128244	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624G>C	p.Trp208Cys	p.W208C	ENST00000310357	3/6	126	113	12	128	128	0	GPRC6A,missense_variant,p.Trp208Cys,ENST00000310357,;GPRC6A,missense_variant,p.Trp208Cys,ENST00000368549,;GPRC6A,missense_variant,p.Trp208Cys,ENST00000530250,;	G	ENSG00000173612	ENST00000310357	Transcript	missense_variant	646	624	208	W/C	tgG/tgC	.	.	.	-1	GPRC6A	HGNC	18510	protein_coding	YES	CCDS5112.1	ENSP00000309493	GPC6A_HUMAN	.	UPI000013EFF9	.	deleterious(0)	probably_damaging(1)	3/6	.	hmmpanther:PTHR24061:SF5,hmmpanther:PTHR24061,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822,Prints_domain:PR00248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGTTCCAACC	.	4	BLCA
HSF2	0	.	GRCh37	6	122744065	122744065	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1033G>A	p.Asp345Asn	p.D345N	ENST00000368455	9/13	90	72	18	73	73	0	HSF2,missense_variant,p.Asp345Asn,ENST00000452194,;HSF2,missense_variant,p.Asp345Asn,ENST00000368455,;HSF2,missense_variant,p.Asp116Asn,ENST00000465214,;	A	ENSG00000025156	ENST00000368455	Transcript	missense_variant	1225	1033	345	D/N	Gat/Aat	.	.	.	1	HSF2	HGNC	5225	protein_coding	YES	CCDS5124.1	ENSP00000357440	HSF2_HUMAN	.	UPI000012CCE8	.	deleterious(0)	probably_damaging(1)	9/13	.	hmmpanther:PTHR10015:SF144,hmmpanther:PTHR10015,Pfam_domain:PF06546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGGATTCC	.	5	BLCA
LAMA2	0	.	GRCh37	6	129670474	129670474	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4468G>A	p.Asp1490Asn	p.D1490N	ENST00000421865	31/65	102	81	20	76	76	0	LAMA2,missense_variant,p.Asp1490Asn,ENST00000421865,;	A	ENSG00000196569	ENST00000421865	Transcript	missense_variant	4517	4468	1490	D/N	Gac/Aac	.	.	.	1	LAMA2	HGNC	6482	protein_coding	YES	CCDS5138.1	ENSP00000400365	LAMA2_HUMAN	Q59H37_HUMAN	UPI00003673E0	.	tolerated(0.57)	benign(0.007)	31/65	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF106,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00180,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTGACGAC	.	5	BLCA
TMEM200A	0	.	GRCh37	6	130762006	130762006	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>T	p.Leu147Phe	p.L147F	ENST00000392429	2/2	73	58	14	65	65	0	TMEM200A,missense_variant,p.Leu147Phe,ENST00000392429,;TMEM200A,missense_variant,p.Leu147Phe,ENST00000545622,;TMEM200A,missense_variant,p.Leu147Phe,ENST00000296978,;	T	ENSG00000164484	ENST00000392429	Transcript	missense_variant	2817	439	147	L/F	Ctt/Ttt	.	.	.	1	TMEM200A	HGNC	21075	protein_coding	YES	CCDS5140.1	ENSP00000376224	T200A_HUMAN	B4DG12_HUMAN,A8K2A1_HUMAN	UPI000000DA85	.	deleterious(0)	probably_damaging(0.999)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR31815,hmmpanther:PTHR31815:SF0,Pfam_domain:PF10177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATTCTTCAT	.	5	BLCA
IFNGR1	0	.	GRCh37	6	137522104	137522104	+	Missense_Mutation	SNP	G	G	C	rs149290101	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775C>G	p.Leu259Val	p.L259V	ENST00000367739	6/7	72	62	10	56	56	0	IFNGR1,missense_variant,p.Leu231Val,ENST00000543628,;IFNGR1,missense_variant,p.Leu259Val,ENST00000367739,;IFNGR1,downstream_gene_variant,,ENST00000458076,;IFNGR1,downstream_gene_variant,,ENST00000367735,;IFNGR1,downstream_gene_variant,,ENST00000414770,;	C	ENSG00000027697	ENST00000367739	Transcript	missense_variant	897	775	259	L/V	Cta/Gta	rs149290101	.	.	-1	IFNGR1	HGNC	5439	protein_coding	YES	CCDS5185.1	ENSP00000356713	INGR1_HUMAN	Q7Z687_HUMAN,Q14936_HUMAN,E5QBZ2_HUMAN,A1Z2M9_HUMAN	UPI000002CE40	.	tolerated(0.33)	benign(0.309)	6/7	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR20859:SF5,hmmpanther:PTHR20859,Pfam_domain:PF07140	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	C:0.0007	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTAGAAAGA	byCluster|by1000G	5	BLCA
EPM2A	0	.	GRCh37	6	145956510	145956510	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589G>C	p.Asp197His	p.D197H	ENST00000367519	3/4	131	109	22	83	83	0	EPM2A,missense_variant,p.Asp197His,ENST00000367519,;EPM2A,missense_variant,p.Asp117His,ENST00000435470,;EPM2A,missense_variant,p.Asp97His,ENST00000450221,;EPM2A,non_coding_transcript_exon_variant,,ENST00000489412,;EPM2A,non_coding_transcript_exon_variant,,ENST00000496228,;	G	ENSG00000112425	ENST00000367519	Transcript	missense_variant	1115	589	197	D/H	Gat/Cat	.	.	.	-1	EPM2A	HGNC	3413	protein_coding	YES	CCDS5206.1	ENSP00000356489	EPM2A_HUMAN	H0UI04_HUMAN	UPI000006E60E	.	deleterious(0)	probably_damaging(1)	3/4	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159,hmmpanther:PTHR10159:SF48,Gene3D:3.90.190.10,Pfam_domain:PF00782,SMART_domains:SM00195,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATCCCATT	.	5	BLCA
SASH1	0	.	GRCh37	6	148869546	148869546	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3596C>T	p.Ser1199Phe	p.S1199F	ENST00000367467	20/20	111	91	20	83	83	0	SASH1,missense_variant,p.Ser1199Phe,ENST00000367467,;	T	ENSG00000111961	ENST00000367467	Transcript	missense_variant	4071	3596	1199	S/F	tCc/tTc	.	.	.	1	SASH1	HGNC	19182	protein_coding	YES	CCDS5212.1	ENSP00000356437	SASH1_HUMAN	.	UPI00003519AE	.	deleterious_low_confidence(0.03)	benign(0.328)	20/20	.	PROSITE_profiles:PS50105,hmmpanther:PTHR12301:SF3,hmmpanther:PTHR12301,Gene3D:1.10.150.50,Pfam_domain:PF07647,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCCACCG	.	5	BLCA
DLL1	0	.	GRCh37	6	170594483	170594483	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891C>G	p.%3D	p.P297P	ENST00000366756	7/11	35	29	6	50	50	0	DLL1,synonymous_variant,p.%3D,ENST00000366756,;	C	ENSG00000198719	ENST00000366756	Transcript	synonymous_variant	1225	891	297	P	ccC/ccG	.	.	.	-1	DLL1	HGNC	2908	protein_coding	YES	CCDS5313.1	ENSP00000355718	DLL1_HUMAN	.	UPI000004C656	.	.	.	7/11	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24044,Pfam_domain:PF00008,Gene3D:2.10.25.10,SMART_domains:SM00179,SMART_domains:SM00181,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCAGGGCTT	.	2	BLCA
FAM120B	0	.	GRCh37	6	170700100	170700100	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2491-1G>A	.	p.X831_splice	ENST00000476287	.	21	16	5	10	10	0	FAM120B,splice_acceptor_variant,,ENST00000476287,;FAM120B,splice_acceptor_variant,,ENST00000537664,;FAM120B,splice_acceptor_variant,,ENST00000252510,;FAM120B,splice_acceptor_variant,,ENST00000540480,;	A	ENSG00000112584	ENST00000476287	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	FAM120B	HGNC	21109	protein_coding	YES	CCDS5314.1	ENSP00000417970	F120B_HUMAN	B4DL34_HUMAN	UPI000006DC13	.	.	.	.	7/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCAGAGATC	.	2	BLCA
TBP	0	.	GRCh37	6	170866010	170866010	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-108G>A	.	.	ENST00000392092	2/8	38	31	7	51	51	0	TBP,5_prime_UTR_variant,,ENST00000392092,;TBP,5_prime_UTR_variant,,ENST00000230354,;TBP,5_prime_UTR_variant,,ENST00000423353,;TBP,5_prime_UTR_variant,,ENST00000421512,;TBP,intron_variant,,ENST00000540980,;PSMB1,upstream_gene_variant,,ENST00000262193,;	A	ENSG00000112592	ENST00000392092	Transcript	5_prime_UTR_variant	172	.	.	.	.	.	.	.	1	TBP	HGNC	11588	protein_coding	YES	CCDS5315.1	ENSP00000375942	TBP_HUMAN	Q7Z6S5_HUMAN,Q7Z6S4_HUMAN,Q32MN7_HUMAN,D2CT66_HUMAN,D2CT65_HUMAN,D2CT64_HUMAN,D2CT63_HUMAN,C0LUL1_HUMAN,B4DPC1_HUMAN	UPI0000136C3F	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATTGAGGAA	.	4	BLCA
SLC17A4	0	.	GRCh37	6	25769292	25769292	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.171G>A	p.%3D	p.L57L	ENST00000377905	3/12	52	37	15	38	38	0	SLC17A4,synonymous_variant,p.%3D,ENST00000397076,;SLC17A4,synonymous_variant,p.%3D,ENST00000377905,;SLC17A4,synonymous_variant,p.%3D,ENST00000439485,;	A	ENSG00000146039	ENST00000377905	Transcript	synonymous_variant	290	171	57	L	ttG/ttA	.	.	.	1	SLC17A4	HGNC	10932	protein_coding	YES	CCDS4564.1	ENSP00000367137	S17A4_HUMAN	.	UPI0000073585	.	.	.	3/12	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11662,hmmpanther:PTHR11662:SF25,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTTGAGCAT	.	5	BLCA
HIST1H3B	0	.	GRCh37	6	26031895	26031895	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394C>G	p.Arg132Gly	p.R132G	ENST00000244661	1/1	65	57	8	55	55	0	HIST1H3B,missense_variant,p.Arg132Gly,ENST00000244661,;HIST1H2AB,downstream_gene_variant,,ENST00000259791,;HIST1H4B,upstream_gene_variant,,ENST00000377364,;	C	ENSG00000124693	ENST00000244661	Transcript	missense_variant	394	394	132	R/G	Cgc/Ggc	COSM3777382,COSM3829812	.	.	-1	HIST1H3B	HGNC	4776	protein_coding	YES	CCDS4573.1	ENSP00000244661	H31_HUMAN	.	UPI00000003C7	.	deleterious_low_confidence(0.01)	probably_damaging(0.997)	1/1	.	hmmpanther:PTHR11426,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00428,Superfamily_domains:SSF47113,Prints_domain:PR00622	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCGCGAATGC	.	4	BLCA
HIST1H1D	0	.	GRCh37	6	26235027	26235027	+	Silent	SNP	G	G	A	rs200463287	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135C>T	p.%3D	p.I45I	ENST00000244534	1/1	176	145	31	126	126	0	HIST1H1D,synonymous_variant,p.%3D,ENST00000244534,;HIST1H2APS3,downstream_gene_variant,,ENST00000403259,;	A	ENSG00000124575	ENST00000244534	Transcript	synonymous_variant	190	135	45	I	atC/atT	rs200463287	.	.	-1	HIST1H1D	HGNC	4717	protein_coding	YES	CCDS4597.1	ENSP00000244534	H13_HUMAN	.	UPI0000000E14	.	.	.	1/1	.	PROSITE_profiles:PS51504,hmmpanther:PTHR11467,hmmpanther:PTHR11467:SF16,Pfam_domain:PF00538,Gene3D:1.10.10.10,SMART_domains:SM00526,Superfamily_domains:SSF46785,Prints_domain:PR00624	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGGTGATAAG	byCluster|by1000G	4	BLCA
HIST1H2BK	0	.	GRCh37	6	27114365	27114365	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>G	p.Phe71Leu	p.F71L	ENST00000396891	1/2	216	178	38	157	157	0	HIST1H2BK,missense_variant,p.Phe71Leu,ENST00000356950,;HIST1H2BK,missense_variant,p.Phe71Leu,ENST00000396891,;HIST1H2AH,upstream_gene_variant,,ENST00000377459,;MIR3143,upstream_gene_variant,,ENST00000584253,;	C	ENSG00000197903	ENST00000396891	Transcript	missense_variant	255	213	71	F/L	ttC/ttG	.	.	.	-1	HIST1H2BK	HGNC	13954	protein_coding	YES	CCDS4621.1	ENSP00000380100	H2B1K_HUMAN	.	UPI0000073CF8	.	deleterious_low_confidence(0.02)	benign(0.291)	1/2	.	hmmpanther:PTHR23428,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00427,Superfamily_domains:SSF47113,Prints_domain:PR00621	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGTTCGAAGAT	.	4	BLCA
HIST1H2AH	0	.	GRCh37	6	27114996	27114996	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89G>A	p.Arg30Gln	p.R30Q	ENST00000377459	1/1	72	67	5	67	67	0	HIST1H2AH,missense_variant,p.Arg30Gln,ENST00000377459,;HIST1H2BK,upstream_gene_variant,,ENST00000356950,;HIST1H2BK,upstream_gene_variant,,ENST00000396891,;MIR3143,upstream_gene_variant,,ENST00000584253,;	A	ENSG00000184825	ENST00000377459	Transcript	missense_variant	136	89	30	R/Q	cGa/cAa	.	.	.	1	HIST1H2AH	HGNC	13671	protein_coding	YES	CCDS4622.1	ENSP00000366679	H2A1H_HUMAN	A3KPC7_HUMAN	UPI0000073C8A	.	deleterious_low_confidence(0)	possibly_damaging(0.878)	1/1	.	hmmpanther:PTHR23430:SF24,hmmpanther:PTHR23430,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00414,Superfamily_domains:SSF47113,Prints_domain:PR00620	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCCGAGTGC	.	2	BLCA
HIST1H1B	0	.	GRCh37	6	27834834	27834845	+	In_Frame_Del	DEL	CTTCTTCGGAGT	CTTCTTCGGAGT	-	rs545007006	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	CTTCTTCGGAGT	CTTCTTCGGAGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463_474delACTCCGAAGAAG	p.Thr155_Lys158del	p.T155_K158del	ENST00000331442	1/1	198	178	19	180	180	0	HIST1H1B,inframe_deletion,p.Thr155_Lys158del,ENST00000331442,;HIST1H2AL,downstream_gene_variant,,ENST00000357320,;HIST1H3I,downstream_gene_variant,,ENST00000328488,;HIST1H2BPS2,upstream_gene_variant,,ENST00000402707,;	-	ENSG00000184357	ENST00000331442	Transcript	inframe_deletion	515-526	463-474	155-158	TPKK/-	ACTCCGAAGAAG/-	rs545007006	.	.	-1	HIST1H1B	HGNC	4719	protein_coding	YES	CCDS4635.1	ENSP00000330074	H15_HUMAN	.	UPI0000001BDA	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11467:SF24,hmmpanther:PTHR11467	-:0.0006	-:0	-:0.0014	.	-:0	-:0	-:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTTCGCCTTCTTCGGAGTCTTCT	byFrequency|byCluster|by1000G	2	BLCA
ZNRD1-AS1	0	.	GRCh37	6	29974674	29974674	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1346+326G>A	.	.	ENST00000376797	.	12	8	4	17	17	0	ZNRD1-AS1,intron_variant,,ENST00000420251,;ZNRD1-AS1,intron_variant,,ENST00000448093,;ZNRD1-AS1,intron_variant,,ENST00000425604,;ZNRD1-AS1,intron_variant,,ENST00000376797,;HLA-J,non_coding_transcript_exon_variant,,ENST00000462773,;HLA-J,non_coding_transcript_exon_variant,,ENST00000469281,;HLA-J,intron_variant,,ENST00000495278,;HLA-J,non_coding_transcript_exon_variant,,ENST00000494367,;HCG4P3,non_coding_transcript_exon_variant,,ENST00000458060,;	T	ENSG00000204623	ENST00000376797	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ZNRD1-AS1	HGNC	13924	antisense	YES	.	.	.	.	.	.	.	.	.	10/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGTTCGTGCG	.	3	BLCA
PPP1R10	0	.	GRCh37	6	30577617	30577617	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105C>G	p.Phe35Leu	p.F35L	ENST00000376511	3/20	71	56	15	62	62	0	PPP1R10,missense_variant,p.Phe35Leu,ENST00000376511,;PPP1R10,downstream_gene_variant,,ENST00000484449,;PPP1R10,upstream_gene_variant,,ENST00000468181,;PPP1R10,upstream_gene_variant,,ENST00000461593,;PPP1R10,upstream_gene_variant,,ENST00000476704,;	C	ENSG00000204569	ENST00000376511	Transcript	missense_variant	658	105	35	F/L	ttC/ttG	COSM741469	.	.	-1	PPP1R10	HGNC	9284	protein_coding	YES	CCDS4681.1	ENSP00000365694	PP1RA_HUMAN	Q2L6I0_HUMAN	UPI000000D73C	.	tolerated(0.1)	probably_damaging(0.931)	3/20	.	hmmpanther:PTHR12506	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTGAAGAT	.	5	BLCA
SAPCD1	0	.	GRCh37	6	31732257	31732257	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486G>C	p.Glu162Asp	p.E162D	ENST00000415669	5/5	37	33	4	34	34	0	SAPCD1,missense_variant,p.Glu162Asp,ENST00000415669,;SAPCD1,missense_variant,p.Glu132Asp,ENST00000425424,;MSH5,3_prime_UTR_variant,,ENST00000534153,;MSH5,downstream_gene_variant,,ENST00000395853,;VWA7,downstream_gene_variant,,ENST00000375686,;MSH5,downstream_gene_variant,,ENST00000375740,;MSH5,downstream_gene_variant,,ENST00000375755,;MSH5,downstream_gene_variant,,ENST00000375750,;VWA7,downstream_gene_variant,,ENST00000447450,;MSH5,downstream_gene_variant,,ENST00000429846,;VWA7,downstream_gene_variant,,ENST00000375688,;MSH5,downstream_gene_variant,,ENST00000450148,;MSH5,downstream_gene_variant,,ENST00000375742,;MSH5,downstream_gene_variant,,ENST00000375703,;MSH5,downstream_gene_variant,,ENST00000431848,;SAPCD1,downstream_gene_variant,,ENST00000433778,;SAPCD1-AS1,non_coding_transcript_exon_variant,,ENST00000419679,;VWA7,downstream_gene_variant,,ENST00000467576,;MSH5-SAPCD1,downstream_gene_variant,,ENST00000491552,;MSH5-SAPCD1,3_prime_UTR_variant,,ENST00000498473,;MSH5-SAPCD1,3_prime_UTR_variant,,ENST00000476085,;MSH5-SAPCD1,3_prime_UTR_variant,,ENST00000493662,;MSH5,downstream_gene_variant,,ENST00000494646,;SAPCD1,downstream_gene_variant,,ENST00000494299,;VWA7,downstream_gene_variant,,ENST00000486423,;MSH5,downstream_gene_variant,,ENST00000467319,;MSH5,downstream_gene_variant,,ENST00000423982,;MSH5,downstream_gene_variant,,ENST00000484309,;MSH5,downstream_gene_variant,,ENST00000494458,;MSH5,downstream_gene_variant,,ENST00000463144,;MSH5,downstream_gene_variant,,ENST00000468136,;	C	ENSG00000228727	ENST00000415669	Transcript	missense_variant	545	486	162	E/D	gaG/gaC	.	.	.	1	SAPCD1	HGNC	13938	protein_coding	YES	CCDS34411.1	ENSP00000411948	SAPC1_HUMAN	F6XBR9_HUMAN	UPI000020D95B	.	deleterious(0.01)	benign(0.347)	5/5	.	hmmpanther:PTHR14907:SF4,hmmpanther:PTHR14907	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGAGATGGC	.	2	BLCA
DXO	0	.	GRCh37	6	31938438	31938438	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.757G>A	p.Glu253Lys	p.E253K	ENST00000375349	4/7	63	47	16	54	54	0	DXO,missense_variant,p.Glu60Lys,ENST00000495340,;DXO,missense_variant,p.Glu253Lys,ENST00000375356,;DXO,missense_variant,p.Glu253Lys,ENST00000375349,;DXO,missense_variant,p.Glu253Lys,ENST00000337523,;SKIV2L,downstream_gene_variant,,ENST00000544581,;SKIV2L,downstream_gene_variant,,ENST00000491994,;STK19,upstream_gene_variant,,ENST00000375331,;SKIV2L,downstream_gene_variant,,ENST00000375394,;STK19,upstream_gene_variant,,ENST00000460018,;STK19,upstream_gene_variant,,ENST00000375333,;DXO,non_coding_transcript_exon_variant,,ENST00000474587,;DXO,non_coding_transcript_exon_variant,,ENST00000487914,;DXO,non_coding_transcript_exon_variant,,ENST00000478221,;SKIV2L,downstream_gene_variant,,ENST00000470453,;STK19,upstream_gene_variant,,ENST00000463823,;SKIV2L,downstream_gene_variant,,ENST00000461915,;SKIV2L,downstream_gene_variant,,ENST00000471818,;STK19,upstream_gene_variant,,ENST00000466336,;DXO,3_prime_UTR_variant,,ENST00000480240,;DXO,non_coding_transcript_exon_variant,,ENST00000473976,;DXO,non_coding_transcript_exon_variant,,ENST00000492946,;DXO,non_coding_transcript_exon_variant,,ENST00000498357,;DXO,non_coding_transcript_exon_variant,,ENST00000477826,;DXO,non_coding_transcript_exon_variant,,ENST00000491327,;DXO,non_coding_transcript_exon_variant,,ENST00000485557,;SKIV2L,downstream_gene_variant,,ENST00000494058,;STK19,upstream_gene_variant,,ENST00000473983,;STK19,upstream_gene_variant,,ENST00000469907,;SKIV2L,downstream_gene_variant,,ENST00000484835,;STK19,upstream_gene_variant,,ENST00000479644,;STK19,upstream_gene_variant,,ENST00000483801,;SKIV2L,downstream_gene_variant,,ENST00000474839,;STK19,upstream_gene_variant,,ENST00000466132,;SKIV2L,downstream_gene_variant,,ENST00000465703,;DXO,downstream_gene_variant,,ENST00000460058,;STK19,upstream_gene_variant,,ENST00000492583,;STK19,upstream_gene_variant,,ENST00000519179,;STK19,upstream_gene_variant,,ENST00000491861,;STK19,upstream_gene_variant,,ENST00000484540,;STK19,upstream_gene_variant,,ENST00000471028,;SKIV2L,downstream_gene_variant,,ENST00000483553,;STK19,upstream_gene_variant,,ENST00000478486,;SKIV2L,downstream_gene_variant,,ENST00000485349,;	T	ENSG00000204348	ENST00000375349	Transcript	missense_variant	1169	757	253	E/K	Gag/Aag	.	.	.	-1	DXO	HGNC	2992	protein_coding	YES	CCDS4732.1	ENSP00000364498	DXO_HUMAN	.	UPI00000710F6	.	deleterious(0)	probably_damaging(0.999)	4/7	.	hmmpanther:PTHR12395,hmmpanther:PTHR12395:SF9,Pfam_domain:PF08652	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCCACAT	.	5	BLCA
RXRB	0	.	GRCh37	6	33166104	33166104	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.621C>G	p.Ile207Met	p.I207M	ENST00000374685	3/10	161	124	37	131	131	0	RXRB,missense_variant,p.Ile17Met,ENST00000544186,;RXRB,missense_variant,p.Ile111Met,ENST00000413614,;RXRB,missense_variant,p.Ile207Met,ENST00000374680,;RXRB,missense_variant,p.Ile207Met,ENST00000374685,;SLC39A7,upstream_gene_variant,,ENST00000374675,;SLC39A7,upstream_gene_variant,,ENST00000444757,;SLC39A7,upstream_gene_variant,,ENST00000374677,;RNY4P10,upstream_gene_variant,,ENST00000365571,;SLC39A7,upstream_gene_variant,,ENST00000463972,;RXRB,3_prime_UTR_variant,,ENST00000483281,;RXRB,non_coding_transcript_exon_variant,,ENST00000481441,;RXRB,upstream_gene_variant,,ENST00000483821,;	C	ENSG00000204231	ENST00000374685	Transcript	missense_variant	759	621	207	I/M	atC/atG	.	.	.	-1	RXRB	HGNC	10478	protein_coding	YES	CCDS59007.1	ENSP00000363817	RXRB_HUMAN	E9PK75_HUMAN	UPI0000E5AD48	.	deleterious(0)	probably_damaging(0.999)	3/10	.	PROSITE_profiles:PS51030,hmmpanther:PTHR24083:SF90,hmmpanther:PTHR24083,PROSITE_patterns:PS00031,Pfam_domain:PF00105,Gene3D:3.30.50.10,SMART_domains:SM00399,Superfamily_domains:SSF57716,Prints_domain:PR00047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCAGATTGC	.	5	BLCA
SYNGAP1	0	.	GRCh37	6	33411047	33411047	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2718C>T	p.%3D	p.L906L	ENST00000418600	15/19	139	110	29	111	111	0	SYNGAP1,synonymous_variant,p.%3D,ENST00000428982,;SYNGAP1,synonymous_variant,p.%3D,ENST00000418600,;SYNGAP1,synonymous_variant,p.%3D,ENST00000293748,;SYNGAP1,synonymous_variant,p.%3D,ENST00000449372,;MIR5004,downstream_gene_variant,,ENST00000579078,;SYNGAP1,non_coding_transcript_exon_variant,,ENST00000496374,;SYNGAP1,upstream_gene_variant,,ENST00000486399,;SYNGAP1,downstream_gene_variant,,ENST00000495633,;SYNGAP1,upstream_gene_variant,,ENST00000470232,;SYNGAP1,downstream_gene_variant,,ENST00000479510,;	T	ENSG00000197283	ENST00000418600	Transcript	synonymous_variant	2819	2718	906	L	ctC/ctT	.	.	.	1	SYNGAP1	HGNC	11497	protein_coding	YES	CCDS34434.2	ENSP00000403636	SYGP1_HUMAN	.	UPI0000470C44	.	.	.	15/19	.	hmmpanther:PTHR10194,hmmpanther:PTHR10194:SF25,Pfam_domain:PF12004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCAGCCA	.	4	BLCA
RNF8	0	.	GRCh37	6	37336285	37336285	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.266G>C	p.Arg89Thr	p.R89T	ENST00000373479	3/8	146	125	21	120	120	0	RNF8,missense_variant,p.Arg32Thr,ENST00000487950,;RNF8,missense_variant,p.Arg89Thr,ENST00000373479,;RNF8,missense_variant,p.Arg89Thr,ENST00000469731,;RNF8,upstream_gene_variant,,ENST00000498460,;RNF8,downstream_gene_variant,,ENST00000394443,;RNF8,non_coding_transcript_exon_variant,,ENST00000479516,;RNF8,3_prime_UTR_variant,,ENST00000229866,;RNF8,3_prime_UTR_variant,,ENST00000494320,;RNF8,3_prime_UTR_variant,,ENST00000469316,;	C	ENSG00000112130	ENST00000373479	Transcript	missense_variant	459	266	89	R/T	aGa/aCa	.	.	.	1	RNF8	HGNC	10071	protein_coding	YES	CCDS4834.1	ENSP00000362578	RNF8_HUMAN	C9J858_HUMAN	UPI000013437B	.	tolerated(0.13)	possibly_damaging(0.764)	3/8	.	Superfamily_domains:SSF49879,SMART_domains:SM00240,PIRSF_domain:PIRSF037950,Gene3D:2.60.200.20,Pfam_domain:PF00498,hmmpanther:PTHR15067:SF4,hmmpanther:PTHR15067,PROSITE_profiles:PS50006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACAGAGCGC	.	4	BLCA
KCNK16	0	.	GRCh37	6	39282952	39282952	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.917C>T	p.Ser306Leu	p.S306L	ENST00000425054	5/5	50	42	7	28	28	0	KCNK16,missense_variant,p.Ser306Leu,ENST00000425054,;KCNK16,intron_variant,,ENST00000373227,;KCNK16,intron_variant,,ENST00000507712,;KCNK16,intron_variant,,ENST00000373229,;KCNK17,upstream_gene_variant,,ENST00000373231,;KCNK16,downstream_gene_variant,,ENST00000437525,;KCNK17,upstream_gene_variant,,ENST00000453413,;KCNK17,upstream_gene_variant,,ENST00000503878,;	A	ENSG00000095981	ENST00000425054	Transcript	missense_variant	917	917	306	S/L	tCa/tTa	.	.	.	-1	KCNK16	HGNC	14464	protein_coding	YES	CCDS47421.1	ENSP00000391498	KCNKG_HUMAN	.	UPI00006838F1	.	deleterious_low_confidence(0.01)	benign(0)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATGATGGG	.	4	BLCA
ZNF318	0	.	GRCh37	6	43305549	43305549	+	Missense_Mutation	SNP	C	C	T	rs775867297	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6187G>A	p.Glu2063Lys	p.E2063K	ENST00000361428	10/10	68	56	11	44	44	0	ZNF318,missense_variant,p.Glu2063Lys,ENST00000361428,;ZNF318,intron_variant,,ENST00000606599,;ZNF318,intron_variant,,ENST00000318149,;ZNF318,intron_variant,,ENST00000605935,;	T	ENSG00000171467	ENST00000361428	Transcript	missense_variant	6265	6187	2063	E/K	Gaa/Aaa	rs775867297	.	.	-1	ZNF318	HGNC	13578	protein_coding	YES	CCDS4895.2	ENSP00000354964	ZN318_HUMAN	.	UPI000049E044	.	.	benign(0.033)	10/10	.	hmmpanther:PTHR15577:SF2,hmmpanther:PTHR15577	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCGAAGT	.	5	BLCA
TMEM63B	0	.	GRCh37	6	44122606	44122606	+	Missense_Mutation	SNP	G	G	A	rs776687560	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2485G>A	p.Glu829Lys	p.E829K	ENST00000259746	24/24	50	42	8	27	27	0	TMEM63B,missense_variant,p.Glu758Lys,ENST00000371893,;TMEM63B,missense_variant,p.Glu829Lys,ENST00000323267,;TMEM63B,missense_variant,p.Glu829Lys,ENST00000259746,;CAPN11,upstream_gene_variant,,ENST00000398776,;CAPN11,upstream_gene_variant,,ENST00000532171,;CAPN11,upstream_gene_variant,,ENST00000542245,;TMEM63B,3_prime_UTR_variant,,ENST00000533121,;CAPN11,upstream_gene_variant,,ENST00000526118,;	A	ENSG00000137216	ENST00000259746	Transcript	missense_variant	2668	2485	829	E/K	Gag/Aag	rs776687560	.	.	1	TMEM63B	HGNC	17735	protein_coding	YES	CCDS34461.1	ENSP00000259746	TM63B_HUMAN	E9PNG1_HUMAN	UPI000020DDEE	.	deleterious(0.01)	probably_damaging(0.993)	24/24	.	hmmpanther:PTHR13018:SF38,hmmpanther:PTHR13018	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAATGAGATT	.	4	BLCA
MB21D1	0	.	GRCh37	6	74150030	74150030	+	Missense_Mutation	SNP	C	C	T	rs190867294	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1016G>A	p.Arg339His	p.R339H	ENST00000370315	3/5	96	80	15	64	64	0	MB21D1,missense_variant,p.Arg339His,ENST00000370315,;MB21D1,missense_variant,p.Arg339His,ENST00000370318,;MB21D1,non_coding_transcript_exon_variant,,ENST00000459924,;	T	ENSG00000164430	ENST00000370315	Transcript	missense_variant	1111	1016	339	R/H	cGc/cAc	rs190867294,COSM1081549	.	.	-1	MB21D1	HGNC	21367	protein_coding	YES	CCDS4978.1	ENSP00000359339	CGAS_HUMAN	A6PW79_HUMAN	UPI00001AEC2D	.	deleterious(0.01)	benign(0.065)	3/5	.	Pfam_domain:PF03281,hmmpanther:PTHR10656:SF35,hmmpanther:PTHR10656	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R339H|c.1016G>A|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATGCGCAGG	byCluster|by1000G	5	BLCA
KIAA1009	0	.	GRCh37	6	84930781	84930781	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>C	p.Asp56His	p.D56H	ENST00000403245	3/27	66	60	6	67	67	0	KIAA1009,missense_variant,p.Asp56His,ENST00000403245,;KIAA1009,5_prime_UTR_variant,,ENST00000257766,;KIAA1009,non_coding_transcript_exon_variant,,ENST00000497936,;KIAA1009,missense_variant,p.Asp56His,ENST00000435955,;	G	ENSG00000135315	ENST00000403245	Transcript	missense_variant	281	166	56	D/H	Gat/Cat	.	.	.	-1	KIAA1009	HGNC	21107	protein_coding	YES	CCDS34494.2	ENSP00000385215	CE162_HUMAN	B3KN48_HUMAN	UPI0001533DAA	.	deleterious(0)	possibly_damaging(0.889)	3/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCATCTTTAA	.	4	BLCA
MDN1	0	.	GRCh37	6	90383905	90383905	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13165G>A	p.Glu4389Lys	p.E4389K	ENST00000369393	79/102	42	34	8	37	37	0	MDN1,missense_variant,p.Glu4389Lys,ENST00000369393,;MDN1,missense_variant,p.Glu4389Lys,ENST00000428876,;RP1-122O8.7,intron_variant,,ENST00000438877,;MDN1,upstream_gene_variant,,ENST00000468568,;	T	ENSG00000112159	ENST00000369393	Transcript	missense_variant	13281	13165	4389	E/K	Gag/Aag	.	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	benign(0.085)	79/102	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22908:SF58,hmmpanther:PTHR22908,PIRSF_domain:PIRSF010340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCTGTTA	.	5	BLCA
UFL1	0	.	GRCh37	6	96999713	96999713	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1900-1G>A	.	p.X634_splice	ENST00000369278	.	50	46	4	33	33	0	UFL1,splice_acceptor_variant,,ENST00000369278,;	A	ENSG00000014123	ENST00000369278	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	UFL1	HGNC	23039	protein_coding	YES	CCDS5034.1	ENSP00000358283	UFL1_HUMAN	B7ZAY8_HUMAN	UPI0000072D61	.	.	.	.	16/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTCAGAGCAT	.	3	BLCA
OFCC1	0	.	GRCh37	6	9897038	9897038	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.343+11713C>T	.	.	ENST00000460363	.	22	18	4	28	28	0	OFCC1,3_prime_UTR_variant,,ENST00000316020,;OFCC1,intron_variant,,ENST00000492169,;OFCC1,intron_variant,,ENST00000460363,;OFCC1,downstream_gene_variant,,ENST00000491508,;OFCC1,non_coding_transcript_exon_variant,,ENST00000472329,;OFCC1,intron_variant,,ENST00000460066,;OFCC1,downstream_gene_variant,,ENST00000466385,;OFCC1,intron_variant,,ENST00000486246,;OFCC1,intron_variant,,ENST00000487015,;OFCC1,intron_variant,,ENST00000492094,;OFCC1,intron_variant,,ENST00000469656,;OFCC1,intron_variant,,ENST00000469426,;	A	ENSG00000181355	ENST00000460363	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	OFCC1	HGNC	21017	protein_coding	YES	.	ENSP00000419718	.	Q8IZS0_HUMAN	UPI00000740B8	.	.	.	.	4/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTATGATGTT	.	2	BLCA
ACTL6B	0	.	GRCh37	7	100244385	100244385	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1006G>A	p.Asp336Asn	p.D336N	ENST00000160382	11/14	52	46	6	27	27	0	ACTL6B,missense_variant,p.Asp336Asn,ENST00000160382,;TFR2,upstream_gene_variant,,ENST00000462107,;ACTL6B,downstream_gene_variant,,ENST00000461605,;ACTL6B,non_coding_transcript_exon_variant,,ENST00000487125,;TFR2,upstream_gene_variant,,ENST00000474947,;ACTL6B,downstream_gene_variant,,ENST00000489904,;ACTL6B,downstream_gene_variant,,ENST00000487225,;ACTL6B,downstream_gene_variant,,ENST00000485601,;	T	ENSG00000077080	ENST00000160382	Transcript	missense_variant	1113	1006	336	D/N	Gat/Aat	.	.	.	-1	ACTL6B	HGNC	160	protein_coding	YES	CCDS5702.1	ENSP00000160382	ACL6B_HUMAN	C9JQT4_HUMAN	UPI0000126725	.	deleterious(0)	probably_damaging(0.994)	11/14	.	hmmpanther:PTHR11937:SF196,hmmpanther:PTHR11937,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATATCAATGT	.	3	BLCA
MUC3A	0	.	GRCh37	7	100551882	100551882	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633C>T	p.%3D	p.F211F	ENST00000319509	1/11	573	527	45	383	383	0	MUC3A,synonymous_variant,p.%3D,ENST00000319509,;MUC3A,downstream_gene_variant,,ENST00000379458,;MUC3A,upstream_gene_variant,,ENST00000422757,;MUC3A,downstream_gene_variant,,ENST00000483366,;MUC3A,non_coding_transcript_exon_variant,,ENST00000483133,;MUC3A,upstream_gene_variant,,ENST00000414964,;	T	ENSG00000169894	ENST00000319509	Transcript	synonymous_variant	633	633	211	F	ttC/ttT	.	.	.	1	MUC3A	HGNC	7513	protein_coding	YES	.	ENSP00000324834	.	J3QST7_HUMAN,I0CMK2_HUMAN,H9XFA8_HUMAN	UPI000198CE7F	.	.	.	1/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24041,hmmpanther:PTHR24041:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGTTCACTAC	.	2	BLCA
VGF	0	.	GRCh37	7	100806449	100806449	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1676C>T	p.Ser559Leu	p.S559L	ENST00000249330	2/2	52	42	9	10	10	0	VGF,missense_variant,p.Ser559Leu,ENST00000445482,;VGF,missense_variant,p.Ser559Leu,ENST00000249330,;AP1S1,downstream_gene_variant,,ENST00000337619,;AP1S1,downstream_gene_variant,,ENST00000429457,;MIR4653,downstream_gene_variant,,ENST00000585107,;AP1S1,downstream_gene_variant,,ENST00000443943,;	A	ENSG00000128564	ENST00000249330	Transcript	missense_variant	1916	1676	559	S/L	tCg/tTg	.	.	.	-1	VGF	HGNC	12684	protein_coding	YES	CCDS5712.1	ENSP00000249330	VGF_HUMAN	.	UPI000006FC7B	.	deleterious_low_confidence(0.01)	unknown(0)	2/2	.	hmmpanther:PTHR15159,hmmpanther:PTHR15159:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGAGGGC	.	5	BLCA
KMT2E	0	.	GRCh37	7	104752875	104752875	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4672C>G	p.Gln1558Glu	p.Q1558E	ENST00000311117	27/27	91	83	8	59	59	0	KMT2E,missense_variant,p.Gln1558Glu,ENST00000257745,;KMT2E,missense_variant,p.Gln1558Glu,ENST00000311117,;KMT2E,missense_variant,p.Gln1516Glu,ENST00000334877,;KMT2E,intron_variant,,ENST00000334914,;KMT2E,downstream_gene_variant,,ENST00000473063,;SRPK2,downstream_gene_variant,,ENST00000393651,;SRPK2,downstream_gene_variant,,ENST00000477925,;SRPK2,downstream_gene_variant,,ENST00000357311,;SRPK2,intron_variant,,ENST00000493638,;SRPK2,downstream_gene_variant,,ENST00000485455,;KMT2E,3_prime_UTR_variant,,ENST00000334884,;SRPK2,downstream_gene_variant,,ENST00000466917,;KMT2E,downstream_gene_variant,,ENST00000478079,;SRPK2,downstream_gene_variant,,ENST00000465072,;	G	ENSG00000005483	ENST00000311117	Transcript	missense_variant	5217	4672	1558	Q/E	Caa/Gaa	.	.	.	1	KMT2E	HGNC	18541	protein_coding	YES	CCDS34723.1	ENSP00000312379	KMT2E_HUMAN	O95038_HUMAN,C9JQ68_HUMAN,C9JNE1_HUMAN	UPI0000074133	.	deleterious_low_confidence(0)	benign(0.042)	27/27	.	hmmpanther:PTHR16286,hmmpanther:PTHR16286:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTATCAAAAC	.	4	BLCA
DOCK4	0	.	GRCh37	7	111368673	111368673	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5558C>A	p.Ser1853Tyr	p.S1853Y	ENST00000437633	52/52	75	67	8	42	42	0	DOCK4,missense_variant,p.Ser1886Tyr,ENST00000445943,;DOCK4,missense_variant,p.Ser1862Tyr,ENST00000428084,;DOCK4,missense_variant,p.Ser736Tyr,ENST00000494651,;DOCK4,missense_variant,p.Ser1276Tyr,ENST00000423057,;DOCK4,missense_variant,p.Ser1853Tyr,ENST00000437633,;DOCK4,non_coding_transcript_exon_variant,,ENST00000494769,;DOCK4,non_coding_transcript_exon_variant,,ENST00000486186,;	T	ENSG00000128512	ENST00000437633	Transcript	missense_variant	5815	5558	1853	S/Y	tCt/tAt	.	.	.	-1	DOCK4	HGNC	19192	protein_coding	YES	CCDS47688.1	ENSP00000404179	DOCK4_HUMAN	Q75MU6_HUMAN	UPI0000D5BB0D	.	deleterious_low_confidence(0)	probably_damaging(0.993)	52/52	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGAGAGAAGAA	.	3	BLCA
CADPS2	0	.	GRCh37	7	122261582	122261582	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057G>C	p.Glu353Gln	p.E353Q	ENST00000449022	5/30	135	124	10	68	68	0	CADPS2,missense_variant,p.Glu353Gln,ENST00000334010,;CADPS2,missense_variant,p.Glu353Gln,ENST00000449022,;CADPS2,missense_variant,p.Glu2Gln,ENST00000397721,;CADPS2,missense_variant,p.Glu353Gln,ENST00000313070,;CADPS2,missense_variant,p.Glu353Gln,ENST00000412584,;	G	ENSG00000081803	ENST00000449022	Transcript	missense_variant	1077	1057	353	E/Q	Gag/Cag	COSM3922600,COSM3922601	.	.	-1	CADPS2	HGNC	16018	protein_coding	YES	CCDS55158.1	ENSP00000398481	CAPS2_HUMAN	B3KNS2_HUMAN	UPI0000668808	.	tolerated(0.06)	possibly_damaging(0.756)	5/30	.	hmmpanther:PTHR12166,hmmpanther:PTHR12166:SF3	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCTCATTCT	.	2	BLCA
ARF5	0	.	GRCh37	7	127231361	127231361	+	3'UTR	SNP	G	G	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8G>T	.	.	ENST00000000233	6/6	45	39	6	18	18	0	ARF5,3_prime_UTR_variant,,ENST00000000233,;FSCN3,upstream_gene_variant,,ENST00000265825,;FSCN3,upstream_gene_variant,,ENST00000420086,;FSCN3,upstream_gene_variant,,ENST00000478821,;ARF5,downstream_gene_variant,,ENST00000415666,;GCC1,intron_variant,,ENST00000497650,;GCC1,downstream_gene_variant,,ENST00000473728,;ARF5,downstream_gene_variant,,ENST00000467281,;FSCN3,upstream_gene_variant,,ENST00000478328,;ARF5,non_coding_transcript_exon_variant,,ENST00000463733,;ARF5,downstream_gene_variant,,ENST00000459680,;FSCN3,upstream_gene_variant,,ENST00000469242,;ARF5,downstream_gene_variant,,ENST00000489673,;FSCN3,upstream_gene_variant,,ENST00000421705,;	T	ENSG00000004059	ENST00000000233	Transcript	3_prime_UTR_variant	705	.	.	.	.	.	.	.	1	ARF5	HGNC	658	protein_coding	YES	CCDS34745.1	ENSP00000000233	ARF5_HUMAN	A4D0Z3_HUMAN	UPI0000044DA0	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCAGGGGCA	.	2	BLCA
EXOC4	0	.	GRCh37	7	132937919	132937919	+	Nonsense_Mutation	SNP	C	C	A	rs183280115	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.62C>A	p.Ser21Ter	p.S21*	ENST00000253861	1/18	77	65	12	35	35	0	EXOC4,stop_gained,p.Ser21Ter,ENST00000253861,;EXOC4,stop_gained,p.Ser21Ter,ENST00000393161,;EXOC4,upstream_gene_variant,,ENST00000539845,;EXOC4,non_coding_transcript_exon_variant,,ENST00000481074,;EXOC4,upstream_gene_variant,,ENST00000492326,;EXOC4,non_coding_transcript_exon_variant,,ENST00000486013,;EXOC4,non_coding_transcript_exon_variant,,ENST00000462055,;	A	ENSG00000131558	ENST00000253861	Transcript	stop_gained	91	62	21	S/*	tCg/tAg	rs183280115,COSM452375,COSM3778121,COSM3778122,COSM3831913	.	.	1	EXOC4	HGNC	30389	protein_coding	YES	CCDS5829.1	ENSP00000253861	EXOC4_HUMAN	B7Z4J9_HUMAN,B7Z321_HUMAN	UPI0000135758	.	.	.	1/18	.	hmmpanther:PTHR14146	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	0,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.S21L|c.62C>T|3	MUSE|VARSCANS	CCCCTCGGGGC	byCluster|by1000G	2	BLCA
NUP205	0	.	GRCh37	7	135304605	135304605	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4299G>C	p.Gln1433His	p.Q1433H	ENST00000285968	30/43	269	235	34	152	152	0	NUP205,missense_variant,p.Gln1433His,ENST00000285968,;NUP205,downstream_gene_variant,,ENST00000472132,;NUP205,missense_variant,p.Gln15His,ENST00000477620,;NUP205,non_coding_transcript_exon_variant,,ENST00000607647,;NUP205,downstream_gene_variant,,ENST00000463247,;	C	ENSG00000155561	ENST00000285968	Transcript	missense_variant	4325	4299	1433	Q/H	caG/caC	.	.	.	1	NUP205	HGNC	18658	protein_coding	YES	CCDS34759.1	ENSP00000285968	NU205_HUMAN	Q6P486_HUMAN,Q6DKH1_HUMAN	UPI00001D74D8	.	tolerated(0.08)	benign(0.395)	30/43	.	hmmpanther:PTHR31344:SF0,hmmpanther:PTHR31344,Pfam_domain:PF11894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCAGAGACC	.	4	BLCA
CREB3L2	0	.	GRCh37	7	137570238	137570238	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1054C>T	p.Gln352Ter	p.Q352*	ENST00000330387	9/12	76	67	9	27	27	0	CREB3L2,stop_gained,p.Gln352Ter,ENST00000330387,;CREB3L2,stop_gained,p.Gln352Ter,ENST00000456390,;	A	ENSG00000182158	ENST00000330387	Transcript	stop_gained	1406	1054	352	Q/*	Cag/Tag	.	.	.	-1	CREB3L2	HGNC	23720	protein_coding	YES	CCDS34760.1	ENSP00000329140	CR3L2_HUMAN	.	UPI0000457614	.	.	.	9/12	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50217,hmmpanther:PTHR22952:SF96,hmmpanther:PTHR22952,Gene3D:1.20.5.170,Pfam_domain:PF00170,SMART_domains:SM00338,Superfamily_domains:SSF57959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCTGAAGGA	.	4	BLCA
ATP6V0A4	0	.	GRCh37	7	138453545	138453545	+	Missense_Mutation	SNP	G	G	A	rs564427621	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271C>T	p.Arg91Trp	p.R91W	ENST00000310018	5/22	55	33	21	37	37	0	ATP6V0A4,missense_variant,p.Arg91Trp,ENST00000310018,;ATP6V0A4,missense_variant,p.Arg91Trp,ENST00000393054,;ATP6V0A4,missense_variant,p.Arg91Trp,ENST00000353492,;ATP6V0A4,non_coding_transcript_exon_variant,,ENST00000483139,;	A	ENSG00000105929	ENST00000310018	Transcript	missense_variant	554	271	91	R/W	Cgg/Tgg	rs564427621	.	.	-1	ATP6V0A4	HGNC	866	protein_coding	YES	CCDS5849.1	ENSP00000308122	VPP4_HUMAN	.	UPI000013CDFD	.	deleterious(0.01)	probably_damaging(1)	5/22	.	hmmpanther:PTHR11629,hmmpanther:PTHR11629:SF26,Pfam_domain:PF01496,PIRSF_domain:PIRSF001293	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCCGTGGGA	by1000G	5	BLCA
UBN2	0	.	GRCh37	7	138968355	138968355	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2704C>G	p.Gln902Glu	p.Q902E	ENST00000473989	15/18	88	80	8	49	49	0	UBN2,missense_variant,p.Gln819Glu,ENST00000288561,;UBN2,missense_variant,p.Gln902Glu,ENST00000473989,;	G	ENSG00000157741	ENST00000473989	Transcript	missense_variant	2704	2704	902	Q/E	Caa/Gaa	.	.	.	1	UBN2	HGNC	21931	protein_coding	YES	CCDS43655.2	ENSP00000418648	UBN2_HUMAN	C9J6Y5_HUMAN	UPI00001D74DF	.	tolerated_low_confidence(0.06)	benign(0.017)	15/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16426,hmmpanther:PTHR16426:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTCCCAAGCC	.	3	BLCA
UBN2	0	.	GRCh37	7	138968545	138968545	+	Missense_Mutation	SNP	C	C	G	rs773007325	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2894C>G	p.Ser965Cys	p.S965C	ENST00000473989	15/18	73	66	7	35	35	0	UBN2,missense_variant,p.Ser882Cys,ENST00000288561,;UBN2,missense_variant,p.Ser965Cys,ENST00000473989,;	G	ENSG00000157741	ENST00000473989	Transcript	missense_variant	2894	2894	965	S/C	tCc/tGc	rs773007325	.	.	1	UBN2	HGNC	21931	protein_coding	YES	CCDS43655.2	ENSP00000418648	UBN2_HUMAN	C9J6Y5_HUMAN	UPI00001D74DF	.	deleterious_low_confidence(0)	possibly_damaging(0.474)	15/18	.	hmmpanther:PTHR16426,hmmpanther:PTHR16426:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACTCTCCTGTT	byFrequency	3	BLCA
PRSS58	0	.	GRCh37	7	141955090	141955090	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221C>G	p.Ser74Cys	p.S74C	ENST00000552471	3/5	161	145	15	85	85	0	PRSS58,missense_variant,p.Ser74Cys,ENST00000547058,;PRSS58,missense_variant,p.Ser74Cys,ENST00000552471,;	C	ENSG00000258223	ENST00000552471	Transcript	missense_variant	541	221	74	S/C	tCt/tGt	.	.	.	-1	PRSS58	HGNC	39125	protein_coding	YES	CCDS5871.1	ENSP00000446916	PRS58_HUMAN	.	UPI000004C649	.	tolerated(0.2)	possibly_damaging(0.738)	3/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24275,hmmpanther:PTHR24275:SF46,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E76K|c.226G>A|4	RADIA|MUTECT|MUSE|VARSCANS	CATTAGAGTCT	.	4	BLCA
SMARCD3	0	.	GRCh37	7	150936794	150936794	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1212C>T	p.%3D	p.I404I	ENST00000262188	11/13	109	99	10	58	58	0	SMARCD3,synonymous_variant,p.%3D,ENST00000262188,;SMARCD3,synonymous_variant,p.%3D,ENST00000392811,;SMARCD3,synonymous_variant,p.%3D,ENST00000356800,;CHPF2,downstream_gene_variant,,ENST00000482173,;CHPF2,downstream_gene_variant,,ENST00000035307,;SMARCD3,downstream_gene_variant,,ENST00000491651,;CHPF2,downstream_gene_variant,,ENST00000495645,;MIR671,downstream_gene_variant,,ENST00000390183,;RP4-548D19.3,upstream_gene_variant,,ENST00000607902,;SMARCD3,downstream_gene_variant,,ENST00000489503,;SMARCD3,downstream_gene_variant,,ENST00000477169,;SMARCD3,upstream_gene_variant,,ENST00000496530,;SMARCD3,downstream_gene_variant,,ENST00000460431,;SMARCD3,3_prime_UTR_variant,,ENST00000469154,;SMARCD3,non_coding_transcript_exon_variant,,ENST00000470588,;SMARCD3,non_coding_transcript_exon_variant,,ENST00000472789,;SMARCD3,downstream_gene_variant,,ENST00000485592,;SMARCD3,downstream_gene_variant,,ENST00000472988,;SMARCD3,downstream_gene_variant,,ENST00000472103,;SMARCD3,downstream_gene_variant,,ENST00000485610,;CHPF2,downstream_gene_variant,,ENST00000465601,;	A	ENSG00000082014	ENST00000262188	Transcript	synonymous_variant	1623	1212	404	I	atC/atT	.	.	.	-1	SMARCD3	HGNC	11108	protein_coding	YES	CCDS34780.1	ENSP00000262188	SMRD3_HUMAN	.	UPI000022D4B4	.	.	.	11/13	.	hmmpanther:PTHR13844:SF5,hmmpanther:PTHR13844	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCTGGATCTT	.	3	BLCA
KMT2C	0	.	GRCh37	7	151851141	151851141	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12230C>G	p.Ser4077Ter	p.S4077*	ENST00000262189	48/59	108	67	41	67	67	0	KMT2C,stop_gained,p.Ser4134Ter,ENST00000355193,;KMT2C,stop_gained,p.Ser694Ter,ENST00000424877,;KMT2C,stop_gained,p.Ser1638Ter,ENST00000360104,;KMT2C,stop_gained,p.Ser4077Ter,ENST00000262189,;KMT2C,stop_gained,p.Ser203Ter,ENST00000418061,;KMT2C,non_coding_transcript_exon_variant,,ENST00000485241,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	C	ENSG00000055609	ENST00000262189	Transcript	stop_gained	12449	12230	4077	S/*	tCa/tGa	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	48/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G4131V|c.12392G>T|3,BUFFER|p.G4074V|c.12221G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTGATCTG	.	5	BLCA
KMT2C	0	.	GRCh37	7	151856073	151856073	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11545C>T	p.Gln3849Ter	p.Q3849*	ENST00000262189	44/59	205	179	26	106	106	0	KMT2C,stop_gained,p.Gln3849Ter,ENST00000355193,;KMT2C,stop_gained,p.Gln435Ter,ENST00000424877,;KMT2C,stop_gained,p.Gln1355Ter,ENST00000360104,;KMT2C,stop_gained,p.Gln3849Ter,ENST00000262189,;KMT2C,intron_variant,,ENST00000418061,;KMT2C,upstream_gene_variant,,ENST00000485241,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	11764	11545	3849	Q/*	Cag/Tag	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	44/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGCTGTTTCT	.	4	BLCA
KMT2C	0	.	GRCh37	7	151927373	151927373	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2803G>A	p.Asp935Asn	p.D935N	ENST00000262189	17/59	159	139	19	76	76	0	KMT2C,missense_variant,p.Asp935Asn,ENST00000355193,;KMT2C,missense_variant,p.Asp91Asn,ENST00000418673,;KMT2C,missense_variant,p.Asp935Asn,ENST00000262189,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	T	ENSG00000055609	ENST00000262189	Transcript	missense_variant	3022	2803	935	D/N	Gat/Aat	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	benign(0.062)	17/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCATCATCCT	.	4	BLCA
PTPRN2	0	.	GRCh37	7	157369315	157369315	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2773G>A	p.Asp925Asn	p.D925N	ENST00000389418	19/23	28	25	3	17	17	0	PTPRN2,missense_variant,p.Asp887Asn,ENST00000409483,;PTPRN2,missense_variant,p.Asp908Asn,ENST00000389416,;PTPRN2,missense_variant,p.Asp948Asn,ENST00000404321,;PTPRN2,missense_variant,p.Asp925Asn,ENST00000389418,;PTPRN2,missense_variant,p.Asp896Asn,ENST00000389413,;MIR153-2,upstream_gene_variant,,ENST00000385225,;	T	ENSG00000155093	ENST00000389418	Transcript	missense_variant	2783	2773	925	D/N	Gac/Aac	.	.	.	-1	PTPRN2	HGNC	9677	protein_coding	YES	CCDS5947.1	ENSP00000374069	PTPR2_HUMAN	Q9NSR5_HUMAN	UPI000002E7C7	.	deleterious(0)	probably_damaging(1)	19/23	.	PROSITE_profiles:PS50056,PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF2,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00194,SMART_domains:SM00404,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAGTCCAGGA	.	2	BLCA
PTPRN2	0	.	GRCh37	7	158109527	158109527	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261G>C	p.Gln87His	p.Q87H	ENST00000389418	3/23	32	27	5	19	19	0	PTPRN2,missense_variant,p.Gln70His,ENST00000389416,;PTPRN2,missense_variant,p.Gln110His,ENST00000404321,;PTPRN2,missense_variant,p.Gln87His,ENST00000389418,;PTPRN2,missense_variant,p.Gln87His,ENST00000389413,;PTPRN2,intron_variant,,ENST00000409483,;	G	ENSG00000155093	ENST00000389418	Transcript	missense_variant	271	261	87	Q/H	caG/caC	.	.	.	-1	PTPRN2	HGNC	9677	protein_coding	YES	CCDS5947.1	ENSP00000374069	PTPR2_HUMAN	Q9NSR5_HUMAN	UPI000002E7C7	.	tolerated(0.07)	possibly_damaging(0.841)	3/23	.	Pfam_domain:PF14948	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCTTCTGCAA	.	2	BLCA
HDAC9	0	.	GRCh37	7	18687612	18687612	+	Missense_Mutation	SNP	C	C	G	rs766245801	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1240C>G	p.Leu414Val	p.L414V	ENST00000441542	9/25	15	9	5	12	12	0	HDAC9,missense_variant,p.Leu370Val,ENST00000401921,;HDAC9,missense_variant,p.Leu411Val,ENST00000405010,;HDAC9,missense_variant,p.Leu367Val,ENST00000428307,;HDAC9,missense_variant,p.Leu414Val,ENST00000441542,;HDAC9,missense_variant,p.Leu409Val,ENST00000417496,;HDAC9,missense_variant,p.Leu398Val,ENST00000406072,;HDAC9,missense_variant,p.Leu411Val,ENST00000406451,;HDAC9,missense_variant,p.Leu383Val,ENST00000456174,;HDAC9,missense_variant,p.Leu411Val,ENST00000432645,;HDAC9,missense_variant,p.Leu334Val,ENST00000524023,;HDAC9,non_coding_transcript_exon_variant,,ENST00000461159,;HDAC9,non_coding_transcript_exon_variant,,ENST00000523867,;	G	ENSG00000048052	ENST00000441542	Transcript	missense_variant	1240	1240	414	L/V	Ctt/Gtt	rs766245801	.	.	1	HDAC9	HGNC	14065	protein_coding	YES	CCDS47553.1	ENSP00000408617	HDAC9_HUMAN	Q8N926_HUMAN,Q75N15_HUMAN,Q75N14_HUMAN,Q75N10_HUMAN,C9JLX1_HUMAN,C9J835_HUMAN,C9J1W4_HUMAN,C9IZS0_HUMAN	UPI000019AB75	.	deleterious(0.04)	possibly_damaging(0.835)	9/25	.	hmmpanther:PTHR10625:SF116,hmmpanther:PTHR10625,PIRSF_domain:PIRSF037911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCTTGTA	byFrequency	5	BLCA
SP4	0	.	GRCh37	7	21469148	21469148	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.365C>G	p.Ser122Cys	p.S122C	ENST00000222584	3/6	57	44	13	55	55	0	SP4,missense_variant,p.Ser122Cys,ENST00000222584,;SP4,intron_variant,,ENST00000432066,;SP4,intron_variant,,ENST00000448246,;SP4,downstream_gene_variant,,ENST00000440636,;	G	ENSG00000105866	ENST00000222584	Transcript	missense_variant	583	365	122	S/C	tCt/tGt	.	.	.	1	SP4	HGNC	11209	protein_coding	YES	CCDS5373.1	ENSP00000222584	SP4_HUMAN	Q32M51_HUMAN	UPI000013C807	.	deleterious(0.01)	benign(0.423)	3/6	.	hmmpanther:PTHR23235:SF5,hmmpanther:PTHR23235,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCTAGTT	.	5	BLCA
DFNA5	0	.	GRCh37	7	24749890	24749890	+	Missense_Mutation	SNP	G	G	A	rs771163879	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.815C>T	p.Ala272Val	p.A272V	ENST00000342947	6/10	69	53	15	66	66	0	DFNA5,missense_variant,p.Ala272Val,ENST00000409775,;DFNA5,missense_variant,p.Ala272Val,ENST00000342947,;DFNA5,missense_variant,p.Ala61Val,ENST00000415480,;DFNA5,missense_variant,p.Ala108Val,ENST00000545231,;DFNA5,missense_variant,p.Ala108Val,ENST00000419307,;DFNA5,missense_variant,p.Ala108Val,ENST00000409970,;DFNA5,missense_variant,p.Ala97Val,ENST00000446822,;DFNA5,upstream_gene_variant,,ENST00000430096,;DFNA5,non_coding_transcript_exon_variant,,ENST00000559637,;DFNA5,3_prime_UTR_variant,,ENST00000411476,;DFNA5,non_coding_transcript_exon_variant,,ENST00000469133,;DFNA5,upstream_gene_variant,,ENST00000479636,;	A	ENSG00000105928	ENST00000342947	Transcript	missense_variant	1241	815	272	A/V	gCg/gTg	rs771163879	.	.	-1	DFNA5	HGNC	2810	protein_coding	YES	CCDS5389.1	ENSP00000339587	DFNA5_HUMAN	.	UPI00001291FC	.	tolerated(0.6)	benign(0.002)	6/10	.	hmmpanther:PTHR15207:SF1,hmmpanther:PTHR15207,Pfam_domain:PF04598	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGCGCAGCA	byFrequency|byCluster	5	BLCA
HOXA3	0	.	GRCh37	7	27149799	27149799	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.461A>C	p.Gln154Pro	p.Q154P	ENST00000396352	2/3	98	82	15	58	58	0	HOXA3,missense_variant,p.Gln154Pro,ENST00000396352,;HOXA3,missense_variant,p.Gln154Pro,ENST00000317201,;HOXA3,downstream_gene_variant,,ENST00000522456,;HOXA3,downstream_gene_variant,,ENST00000522788,;HOXA3,downstream_gene_variant,,ENST00000521779,;HOXA-AS2,non_coding_transcript_exon_variant,,ENST00000518088,;HOXA-AS2,upstream_gene_variant,,ENST00000522193,;HOXA3,downstream_gene_variant,,ENST00000521401,;	G	ENSG00000105997	ENST00000396352	Transcript	missense_variant	661	461	154	Q/P	cAa/cCa	.	.	.	-1	HOXA3	HGNC	5104	protein_coding	YES	CCDS5404.1	ENSP00000379640	HXA3_HUMAN	F2Z3A4_HUMAN,E5RIJ8_HUMAN,A4D182_HUMAN	UPI000012CF22	.	deleterious(0)	benign(0.153)	2/3	.	hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGATTTGTTTG	.	3	BLCA
HOXA3	0	.	GRCh37	7	27149822	27149822	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438C>G	p.%3D	p.L146L	ENST00000396352	2/3	76	63	13	48	48	0	HOXA3,synonymous_variant,p.%3D,ENST00000396352,;HOXA3,synonymous_variant,p.%3D,ENST00000317201,;HOXA3,downstream_gene_variant,,ENST00000522456,;HOXA3,downstream_gene_variant,,ENST00000522788,;HOXA3,downstream_gene_variant,,ENST00000521779,;HOXA-AS2,splice_region_variant,,ENST00000518088,;HOXA-AS2,upstream_gene_variant,,ENST00000522193,;HOXA3,downstream_gene_variant,,ENST00000521401,;	C	ENSG00000105997	ENST00000396352	Transcript	synonymous_variant	638	438	146	L	ctC/ctG	.	.	.	-1	HOXA3	HGNC	5104	protein_coding	YES	CCDS5404.1	ENSP00000379640	HXA3_HUMAN	F2Z3A4_HUMAN,E5RIJ8_HUMAN,A4D182_HUMAN	UPI000012CF22	.	.	.	2/3	.	hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGTTGAGCAG	.	3	BLCA
FAM188B	0	.	GRCh37	7	30921810	30921810	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1986G>A	p.%3D	p.L662L	ENST00000265299	16/18	100	87	13	97	97	0	FAM188B,synonymous_variant,p.%3D,ENST00000265299,;AQP1,synonymous_variant,p.%3D,ENST00000509504,;AQP1,synonymous_variant,p.%3D,ENST00000434909,;INMT-FAM188B,3_prime_UTR_variant,,ENST00000458257,;FAM188B,non_coding_transcript_exon_variant,,ENST00000409881,;	A	ENSG00000106125	ENST00000265299	Transcript	synonymous_variant	2063	1986	662	L	ctG/ctA	.	.	.	1	FAM188B	HGNC	21916	protein_coding	YES	CCDS43565.1	ENSP00000265299	F188B_HUMAN	.	UPI0000D60E7B	.	.	.	16/18	.	hmmpanther:PTHR12473,hmmpanther:PTHR12473:SF4,Pfam_domain:PF13898	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTGAAGAC	.	4	BLCA
GLI3	0	.	GRCh37	7	42005483	42005483	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3188C>T	p.Ser1063Phe	p.S1063F	ENST00000395925	15/15	59	52	7	41	41	0	GLI3,missense_variant,p.Ser1063Phe,ENST00000395925,;GLI3,non_coding_transcript_exon_variant,,ENST00000479210,;	A	ENSG00000106571	ENST00000395925	Transcript	missense_variant	3273	3188	1063	S/F	tCc/tTc	.	.	.	-1	GLI3	HGNC	4319	protein_coding	YES	CCDS5465.1	ENSP00000379258	GLI3_HUMAN	C9J9N4_HUMAN	UPI000020EE4C	.	deleterious(0)	possibly_damaging(0.895)	15/15	.	hmmpanther:PTHR19818:SF5,hmmpanther:PTHR19818	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S1062S|c.3186G>A|3,BUFFER|p.S1062L|c.3185C>T|3	RADIA|MUTECT|MUSE|VARSCANS	AGGGGGACGAG	.	4	BLCA
MYO1G	0	.	GRCh37	7	45004062	45004062	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2583G>A	p.%3D	p.Q861Q	ENST00000258787	19/22	53	47	6	46	46	0	MYO1G,synonymous_variant,p.%3D,ENST00000258787,;RP4-647J21.1,upstream_gene_variant,,ENST00000568457,;MYO1G,3_prime_UTR_variant,,ENST00000495831,;MYO1G,non_coding_transcript_exon_variant,,ENST00000463516,;MYO1G,non_coding_transcript_exon_variant,,ENST00000483585,;MYO1G,non_coding_transcript_exon_variant,,ENST00000488554,;MYO1G,downstream_gene_variant,,ENST00000464434,;MYO1G,downstream_gene_variant,,ENST00000480503,;	T	ENSG00000136286	ENST00000258787	Transcript	synonymous_variant	2720	2583	861	Q	caG/caA	.	.	.	-1	MYO1G	HGNC	13880	protein_coding	YES	CCDS34629.1	ENSP00000258787	MYO1G_HUMAN	.	UPI00001D747C	.	.	.	19/22	.	Pfam_domain:PF06017	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTCCTGAAG	.	4	BLCA
MRPS17	0	.	GRCh37	7	55990870	55990870	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.64C>T	p.Gln22Ter	p.Q22*	ENST00000426595	5/8	57	48	9	36	36	0	MRPS17,stop_gained,p.Gln22Ter,ENST00000426595,;ZNF713,stop_gained,p.Gln22Ter,ENST00000429591,;ZNF713,non_coding_transcript_exon_variant,,ENST00000482436,;ZNF713,3_prime_UTR_variant,,ENST00000411863,;ZNF713,non_coding_transcript_exon_variant,,ENST00000466630,;	T	ENSG00000249773	ENST00000426595	Transcript	stop_gained	1057	64	22	Q/*	Cag/Tag	.	.	.	1	MRPS17	Uniprot_gn	14047	protein_coding	YES	.	ENSP00000390331	.	Q96Q59_HUMAN,I3L0E3_HUMAN,E9PE17_HUMAN	UPI000020FC5A	.	.	.	5/8	.	Superfamily_domains:0044637,SMART_domains:SM00349,Pfam_domain:PF01352,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTTTCAGGAT	.	5	BLCA
RNF216	0	.	GRCh37	7	5756394	5756394	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1648G>T	p.Glu550Ter	p.E550*	ENST00000389902	10/17	83	65	18	56	56	0	RNF216,stop_gained,p.Glu550Ter,ENST00000389902,;RNF216,stop_gained,p.Glu493Ter,ENST00000425013,;RNF216,upstream_gene_variant,,ENST00000484458,;RNF216,3_prime_UTR_variant,,ENST00000389900,;	A	ENSG00000011275	ENST00000389902	Transcript	stop_gained	1916	1648	550	E/*	Gaa/Taa	.	.	.	-1	RNF216	HGNC	21698	protein_coding	YES	CCDS34594.1	ENSP00000374552	RN216_HUMAN	C9JIV3_HUMAN	UPI000013F5B3	.	.	.	10/17	.	hmmpanther:PTHR22770:SF13,hmmpanther:PTHR22770	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCATGCT	.	5	BLCA
KCTD7	0	.	GRCh37	7	66103327	66103327	+	Missense_Mutation	SNP	C	C	T	rs754958440	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.232C>T	p.Arg78Trp	p.R78W	ENST00000449064	2/3	75	68	7	41	41	0	KCTD7,missense_variant,p.Arg78Trp,ENST00000449064,;KCTD7,synonymous_variant,p.%3D,ENST00000443322,;KCTD7,synonymous_variant,p.%3D,ENST00000275532,;KCTD7,missense_variant,p.Arg78Trp,ENST00000503687,;	T	ENSG00000243335	ENST00000449064	Transcript	missense_variant	339	232	78	R/W	Cgg/Tgg	rs754958440	.	.	1	KCTD7	HGNC	21957	protein_coding	.	.	ENSP00000388463	.	C9JTB6_HUMAN	UPI000198CCDE	.	tolerated_low_confidence(0.13)	benign(0)	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCATCGGGCC	byFrequency	2	BLCA
STX1A	0	.	GRCh37	7	73118654	73118654	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357+26C>T	.	.	ENST00000222812	.	58	32	25	30	30	0	WBSCR22,3_prime_UTR_variant,,ENST00000423166,;STX1A,intron_variant,,ENST00000395156,;STX1A,intron_variant,,ENST00000395155,;STX1A,intron_variant,,ENST00000222812,;STX1A,intron_variant,,ENST00000395154,;STX1A,intron_variant,,ENST00000496216,;STX1A,intron_variant,,ENST00000470878,;STX1A,upstream_gene_variant,,ENST00000480126,;STX1A,upstream_gene_variant,,ENST00000491645,;STX1A,upstream_gene_variant,,ENST00000484736,;WBSCR22,3_prime_UTR_variant,,ENST00000436944,;STX1A,non_coding_transcript_exon_variant,,ENST00000491427,;STX1A,non_coding_transcript_exon_variant,,ENST00000462135,;STX1A,intron_variant,,ENST00000494245,;STX1A,upstream_gene_variant,,ENST00000497980,;STX1A,upstream_gene_variant,,ENST00000461441,;	A	ENSG00000106089	ENST00000222812	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	STX1A	HGNC	11433	protein_coding	YES	CCDS34655.1	ENSP00000222812	STX1A_HUMAN	Q75ME0_HUMAN	UPI0000136065	.	.	.	.	5/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCCGCCCAT	.	5	BLCA
PCLO	0	.	GRCh37	7	82583380	82583380	+	Missense_Mutation	SNP	C	C	G	rs773820261	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6889G>C	p.Glu2297Gln	p.E2297Q	ENST00000333891	5/25	150	117	33	84	84	0	PCLO,missense_variant,p.Glu2297Gln,ENST00000333891,;PCLO,missense_variant,p.Glu2297Gln,ENST00000423517,;PCLO,upstream_gene_variant,,ENST00000437081,;	G	ENSG00000186472	ENST00000333891	Transcript	missense_variant	7227	6889	2297	E/Q	Gaa/Caa	rs773820261,COSM4006779,COSM4006780,COSM4006781	.	.	-1	PCLO	HGNC	13406	protein_coding	YES	CCDS47630.1	ENSP00000334319	PCLO_HUMAN	.	UPI0001573469	.	.	unknown(0)	5/25	.	hmmpanther:PTHR14113:SF6,hmmpanther:PTHR14113	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCAGATA	.	5	BLCA
SAMD9	0	.	GRCh37	7	92734759	92734759	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652G>A	p.Glu218Lys	p.E218K	ENST00000379958	3/3	222	188	33	114	114	0	SAMD9,missense_variant,p.Glu218Lys,ENST00000446617,;SAMD9,missense_variant,p.Glu218Lys,ENST00000379958,;	T	ENSG00000205413	ENST00000379958	Transcript	missense_variant	922	652	218	E/K	Gag/Aag	.	.	.	-1	SAMD9	HGNC	1348	protein_coding	YES	CCDS34680.1	ENSP00000369292	SAMD9_HUMAN	C9JKF1_HUMAN	UPI0000038BC6	.	deleterious(0)	possibly_damaging(0.904)	3/3	.	hmmpanther:PTHR16155:SF17,hmmpanther:PTHR16155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTCATTGC	.	4	BLCA
TAF6	0	.	GRCh37	7	99711688	99711688	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.256G>C	p.Glu86Gln	p.E86Q	ENST00000437822	2/15	106	86	20	58	58	0	TAF6,missense_variant,p.Glu49Gln,ENST00000449571,;TAF6,missense_variant,p.Glu86Gln,ENST00000437822,;TAF6,missense_variant,p.Glu49Gln,ENST00000451699,;TAF6,missense_variant,p.Glu49Gln,ENST00000452041,;TAF6,missense_variant,p.Glu49Gln,ENST00000417349,;TAF6,missense_variant,p.Glu49Gln,ENST00000344095,;TAF6,missense_variant,p.Glu49Gln,ENST00000453269,;TAF6,missense_variant,p.Glu49Gln,ENST00000440225,;TAF6,missense_variant,p.Glu49Gln,ENST00000493322,;TAF6,missense_variant,p.Glu49Gln,ENST00000452438,;TAF6,missense_variant,p.Glu106Gln,ENST00000472509,;TAF6,5_prime_UTR_variant,,ENST00000418432,;TAF6,intron_variant,,ENST00000523306,;TAF6,intron_variant,,ENST00000520135,;TAF6,downstream_gene_variant,,ENST00000431404,;AP4M1,downstream_gene_variant,,ENST00000450807,;AP4M1,downstream_gene_variant,,ENST00000421755,;TAF6,downstream_gene_variant,,ENST00000460673,;RP11-506M12.1,downstream_gene_variant,,ENST00000494221,;TAF6,downstream_gene_variant,,ENST00000497233,;TAF6,missense_variant,p.Glu49Gln,ENST00000421980,;TAF6,non_coding_transcript_exon_variant,,ENST00000487288,;TAF6,upstream_gene_variant,,ENST00000487115,;	G	ENSG00000106290	ENST00000437822	Transcript	missense_variant	351	256	86	E/Q	Gag/Cag	.	.	.	-1	TAF6	HGNC	11540	protein_coding	YES	CCDS55135.1	ENSP00000399982	TAF6_HUMAN	C9JTY6_HUMAN,C9JIS2_HUMAN,C9JHQ8_HUMAN,C9J7C4_HUMAN,A4D299_HUMAN	UPI00017A7AA3	.	tolerated(0.33)	benign(0.285)	2/15	.	Superfamily_domains:SSF47113,SMART_domains:SM00803,Pfam_domain:PF02969,Gene3D:1.10.20.10,hmmpanther:PTHR10221,hmmpanther:PTHR10221:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCTTTGA	.	5	BLCA
RGS22	0	.	GRCh37	8	100974946	100974946	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3759G>A	p.%3D	p.L1253L	ENST00000360863	26/28	68	63	5	46	46	0	RGS22,synonymous_variant,p.%3D,ENST00000523287,;RGS22,synonymous_variant,p.%3D,ENST00000523437,;RGS22,synonymous_variant,p.%3D,ENST00000360863,;RGS22,intron_variant,,ENST00000517843,;RGS22,non_coding_transcript_exon_variant,,ENST00000517769,;	T	ENSG00000132554	ENST00000360863	Transcript	synonymous_variant	3954	3759	1253	L	ttG/ttA	.	.	.	-1	RGS22	HGNC	24499	protein_coding	YES	CCDS43758.1	ENSP00000354109	RGS22_HUMAN	E5RHE4_HUMAN,E5RFV6_HUMAN	UPI0000E5AF25	.	.	.	26/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTTCAAAGA	.	2	BLCA
SOX7	0	.	GRCh37	8	10583234	10583234	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14C>T	.	.	ENST00000554914	6/6	33	29	4	23	23	0	SOX7,3_prime_UTR_variant,,ENST00000554914,;SOX7,3_prime_UTR_variant,,ENST00000553390,;SOX7,3_prime_UTR_variant,,ENST00000304501,;CTD-2135J3.3,upstream_gene_variant,,ENST00000506149,;CTD-2135J3.3,upstream_gene_variant,,ENST00000519568,;	A	ENSG00000258724	ENST00000554914	Transcript	3_prime_UTR_variant	1428	.	.	.	.	.	.	.	-1	SOX7	Uniprot_gn	18196	protein_coding	YES	.	ENSP00000451145	.	B4DKV0_HUMAN	UPI00017A7531	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGACGGGGCGC	.	4	BLCA
FAM86B1	0	.	GRCh37	8	12040311	12040311	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*804G>A	.	.	ENST00000448228	7/7	21	18	3	21	21	0	FAM86B1,3_prime_UTR_variant,,ENST00000448228,;FAM86B1,3_prime_UTR_variant,,ENST00000533852,;FAM86B1,downstream_gene_variant,,ENST00000321602,;FAM86B1,downstream_gene_variant,,ENST00000524571,;FAM86B1,downstream_gene_variant,,ENST00000533513,;FAM86B1,downstream_gene_variant,,ENST00000534520,;AC145124.1,downstream_gene_variant,,ENST00000579282,;FAM86B1,3_prime_UTR_variant,,ENST00000431227,;FAM86B1,3_prime_UTR_variant,,ENST00000529146,;FAM86B1,3_prime_UTR_variant,,ENST00000340537,;FAM86B1,3_prime_UTR_variant,,ENST00000534187,;FAM86B1,downstream_gene_variant,,ENST00000531833,;FAM86B1,downstream_gene_variant,,ENST00000530385,;FAM86B1,downstream_gene_variant,,ENST00000529060,;FAM86B1,downstream_gene_variant,,ENST00000529617,;FAM86B1,downstream_gene_variant,,ENST00000526708,;FAM86B1,downstream_gene_variant,,ENST00000530508,;FAM86B1,downstream_gene_variant,,ENST00000534732,;FAM86B1,downstream_gene_variant,,ENST00000524893,;FAM86B1,downstream_gene_variant,,ENST00000527300,;FAM86B1,downstream_gene_variant,,ENST00000525822,;ALG1L11P,downstream_gene_variant,,ENST00000511660,;FAM90A2P,upstream_gene_variant,,ENST00000511144,;	T	ENSG00000186523	ENST00000448228	Transcript	3_prime_UTR_variant	1745	.	.	.	.	.	.	.	-1	FAM86B1	HGNC	28268	protein_coding	YES	CCDS59512.1	ENSP00000407067	F86B1_HUMAN	H9XFB3_HUMAN	UPI0000F58EC4	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGAGCAGCGC	.	2	BLCA
TBC1D31	0	.	GRCh37	8	124157020	124157020	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2899G>C	p.Asp967His	p.D967H	ENST00000287380	20/22	47	32	15	29	29	0	TBC1D31,missense_variant,p.Asp902His,ENST00000309336,;TBC1D31,missense_variant,p.Asp862His,ENST00000522420,;TBC1D31,missense_variant,p.Asp521His,ENST00000518805,;TBC1D31,missense_variant,p.Asp844His,ENST00000521676,;TBC1D31,missense_variant,p.Asp871His,ENST00000327098,;TBC1D31,missense_variant,p.Asp967His,ENST00000287380,;TBC1D31,3_prime_UTR_variant,,ENST00000378080,;TBC1D31,3_prime_UTR_variant,,ENST00000524307,;TBC1D31,downstream_gene_variant,,ENST00000518866,;	C	ENSG00000156787	ENST00000287380	Transcript	missense_variant	2989	2899	967	D/H	Gat/Cat	.	.	.	1	TBC1D31	HGNC	30888	protein_coding	YES	CCDS6338.1	ENSP00000287380	TBC31_HUMAN	E5RG45_HUMAN	UPI000013DEAB	.	deleterious(0.02)	benign(0.062)	20/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19853,hmmpanther:PTHR19853:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCAGATGCG	.	5	BLCA
TG	0	.	GRCh37	8	133900470	133900470	+	Silent	SNP	C	C	T	rs749626724	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2418C>T	p.%3D	p.I806I	ENST00000220616	10/48	58	49	9	40	40	0	TG,synonymous_variant,p.%3D,ENST00000220616,;TG,synonymous_variant,p.%3D,ENST00000377869,;TG,downstream_gene_variant,,ENST00000520769,;	T	ENSG00000042832	ENST00000220616	Transcript	synonymous_variant	2458	2418	806	I	atC/atT	rs749626724	.	.	1	TG	HGNC	11764	protein_coding	YES	CCDS34944.1	ENSP00000220616	THYG_HUMAN	Q9NYM1_HUMAN,Q9NYD9_HUMAN,E5RG33_HUMAN	UPI000013C79F	.	.	.	10/48	.	PIRSF_domain:PIRSF001831,PROSITE_profiles:PS51162	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AAGATCATGAG	byFrequency	3	BLCA
TG	0	.	GRCh37	8	133900507	133900507	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2455C>G	p.Leu819Val	p.L819V	ENST00000220616	10/48	78	65	13	54	54	0	TG,missense_variant,p.Leu819Val,ENST00000220616,;TG,missense_variant,p.Leu819Val,ENST00000377869,;	G	ENSG00000042832	ENST00000220616	Transcript	missense_variant	2495	2455	819	L/V	Ctc/Gtc	.	.	.	1	TG	HGNC	11764	protein_coding	YES	CCDS34944.1	ENSP00000220616	THYG_HUMAN	Q9NYM1_HUMAN,Q9NYD9_HUMAN,E5RG33_HUMAN	UPI000013C79F	.	tolerated(0.64)	benign(0.049)	10/48	.	PIRSF_domain:PIRSF001831,PROSITE_profiles:PS51162	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGTCTCTTT	.	5	BLCA
TG	0	.	GRCh37	8	133900576	133900576	+	Missense_Mutation	SNP	C	C	G	rs565268369	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2524C>G	p.Leu842Val	p.L842V	ENST00000220616	10/48	68	57	11	64	64	0	TG,missense_variant,p.Leu842Val,ENST00000220616,;TG,missense_variant,p.Leu842Val,ENST00000377869,;	G	ENSG00000042832	ENST00000220616	Transcript	missense_variant	2564	2524	842	L/V	Ctg/Gtg	rs565268369	.	.	1	TG	HGNC	11764	protein_coding	YES	CCDS34944.1	ENSP00000220616	THYG_HUMAN	Q9NYM1_HUMAN,Q9NYD9_HUMAN,E5RG33_HUMAN	UPI000013C79F	.	deleterious(0.03)	benign(0.004)	10/48	.	PIRSF_domain:PIRSF001831,PROSITE_profiles:PS51162	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCTGCAA	byFrequency|by1000G	5	BLCA
ST3GAL1	0	.	GRCh37	8	134478139	134478139	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.501C>T	p.%3D	p.L167L	ENST00000319914	5/9	100	83	17	77	77	0	ST3GAL1,synonymous_variant,p.%3D,ENST00000517668,;ST3GAL1,synonymous_variant,p.%3D,ENST00000521180,;ST3GAL1,synonymous_variant,p.%3D,ENST00000523854,;ST3GAL1,synonymous_variant,p.%3D,ENST00000319914,;ST3GAL1,synonymous_variant,p.%3D,ENST00000522652,;ST3GAL1,synonymous_variant,p.%3D,ENST00000399640,;ST3GAL1,non_coding_transcript_exon_variant,,ENST00000522204,;	A	ENSG00000008513	ENST00000319914	Transcript	synonymous_variant	1529	501	167	L	ctC/ctT	.	.	.	-1	ST3GAL1	HGNC	10862	protein_coding	YES	CCDS6373.1	ENSP00000318445	SIA4A_HUMAN	E5RHV6_HUMAN,E5RH34_HUMAN,E5RGL4_HUMAN,E5RGI3_HUMAN,E5RG72_HUMAN	UPI00000015E1	.	.	.	5/9	.	hmmpanther:PTHR13713:SF39,hmmpanther:PTHR13713,Pfam_domain:PF00777,PIRSF_domain:PIRSF005557	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTGAGGAC	.	4	BLCA
MROH5	0	.	GRCh37	8	142483018	142483018	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1615G>A	.	.	ENST00000523857	14/27	16	10	6	10	10	0	MROH5,3_prime_UTR_variant,,ENST00000523857,;MROH5,3_prime_UTR_variant,,ENST00000521053,;MROH5,missense_variant,p.Glu601Lys,ENST00000430863,;	T	ENSG00000226807	ENST00000523857	Transcript	3_prime_UTR_variant	1816	.	.	.	.	.	.	.	-1	MROH5	HGNC	42976	nonsense_mediated_decay	.	.	ENSP00000427945	.	E5RFU7_HUMAN	UPI0001E8F5FA	.	.	.	14/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCTCATGCG	.	5	BLCA
EPPK1	0	.	GRCh37	8	144940603	144940603	+	Silent	SNP	G	G	A	rs782227916	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6819C>T	p.%3D	p.I2273I	ENST00000525985	2/2	100	92	8	106	106	0	EPPK1,synonymous_variant,p.%3D,ENST00000525985,;	A	ENSG00000227184	ENST00000525985	Transcript	synonymous_variant	6891	6819	2273	I	atC/atT	rs782227916	.	.	-1	EPPK1	HGNC	15577	protein_coding	YES	.	ENSP00000436337	.	E9PPU0_HUMAN	UPI00006C0DF1	.	.	.	2/2	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,Pfam_domain:PF00681,hmmpanther:PTHR11915:SF252,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTCGATGAC	byFrequency	2	BLCA
EXOSC4	0	.	GRCh37	8	145135510	145135510	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6C>T	.	.	ENST00000316052	3/3	96	78	18	54	54	0	EXOSC4,3_prime_UTR_variant,,ENST00000316052,;GPAA1,upstream_gene_variant,,ENST00000361036,;GPAA1,upstream_gene_variant,,ENST00000524418,;GPAA1,upstream_gene_variant,,ENST00000525087,;EXOSC4,downstream_gene_variant,,ENST00000525936,;GPAA1,upstream_gene_variant,,ENST00000530258,;GPAA1,upstream_gene_variant,,ENST00000355091,;EXOSC4,downstream_gene_variant,,ENST00000527954,;CTD-3065J16.9,upstream_gene_variant,,ENST00000524499,;GPAA1,upstream_gene_variant,,ENST00000527144,;GPAA1,upstream_gene_variant,,ENST00000526233,;GPAA1,upstream_gene_variant,,ENST00000526341,;GPAA1,upstream_gene_variant,,ENST00000530796,;GPAA1,upstream_gene_variant,,ENST00000528073,;GPAA1,upstream_gene_variant,,ENST00000531593,;GPAA1,upstream_gene_variant,,ENST00000530633,;GPAA1,upstream_gene_variant,,ENST00000527653,;GPAA1,upstream_gene_variant,,ENST00000534072,;GPAA1,upstream_gene_variant,,ENST00000532758,;GPAA1,upstream_gene_variant,,ENST00000529638,;GPAA1,upstream_gene_variant,,ENST00000529503,;GPAA1,upstream_gene_variant,,ENST00000525308,;	T	ENSG00000178896	ENST00000316052	Transcript	3_prime_UTR_variant	847	.	.	.	.	.	.	.	1	EXOSC4	HGNC	18189	protein_coding	YES	CCDS6414.1	ENSP00000315476	EXOS4_HUMAN	.	UPI0000000C49	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACCCAGCCA	.	5	BLCA
VPS28	0	.	GRCh37	8	145651089	145651089	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.171C>G	p.Ile57Met	p.I57M	ENST00000377348	5/9	66	59	6	51	51	0	VPS28,missense_variant,p.Ile57Met,ENST00000526054,;VPS28,missense_variant,p.Ile57Met,ENST00000529182,;VPS28,missense_variant,p.Ile57Met,ENST00000292510,;VPS28,missense_variant,p.Ile57Met,ENST00000533806,;VPS28,missense_variant,p.Ile57Met,ENST00000377348,;VPS28,missense_variant,p.Ile57Met,ENST00000531032,;TONSL,downstream_gene_variant,,ENST00000409379,;VPS28,downstream_gene_variant,,ENST00000530790,;VPS28,non_coding_transcript_exon_variant,,ENST00000526734,;VPS28,downstream_gene_variant,,ENST00000524521,;VPS28,missense_variant,p.Ile57Met,ENST00000527797,;VPS28,3_prime_UTR_variant,,ENST00000526204,;VPS28,3_prime_UTR_variant,,ENST00000526977,;VPS28,3_prime_UTR_variant,,ENST00000530983,;VPS28,3_prime_UTR_variant,,ENST00000530836,;VPS28,non_coding_transcript_exon_variant,,ENST00000531924,;VPS28,non_coding_transcript_exon_variant,,ENST00000528142,;TONSL,downstream_gene_variant,,ENST00000497613,;	C	ENSG00000160948	ENST00000377348	Transcript	missense_variant	261	171	57	I/M	atC/atG	.	.	.	-1	VPS28	HGNC	18178	protein_coding	YES	CCDS34967.1	ENSP00000366565	VPS28_HUMAN	E9PR04_HUMAN,E9PQR7_HUMAN,E9PLM9_HUMAN,E9PI55_HUMAN	UPI000018CECF	.	deleterious(0.02)	possibly_damaging(0.804)	5/9	.	PROSITE_profiles:PS51313,hmmpanther:PTHR12937,Pfam_domain:PF03997,PIRSF_domain:PIRSF017535,Superfamily_domains:SSF140111	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTTGATGTA	.	4	BLCA
MYOM2	0	.	GRCh37	8	2046792	2046792	+	Missense_Mutation	SNP	G	G	A	rs746189413	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2419G>A	p.Ala807Thr	p.A807T	ENST00000262113	19/37	25	20	4	21	21	0	MYOM2,missense_variant,p.Ala232Thr,ENST00000523438,;MYOM2,missense_variant,p.Ala807Thr,ENST00000262113,;MYOM2,non_coding_transcript_exon_variant,,ENST00000519372,;MYOM2,upstream_gene_variant,,ENST00000517520,;MYOM2,upstream_gene_variant,,ENST00000518203,;MYOM2,downstream_gene_variant,,ENST00000518803,;	A	ENSG00000036448	ENST00000262113	Transcript	missense_variant	2560	2419	807	A/T	Gcc/Acc	rs746189413	.	.	1	MYOM2	HGNC	7614	protein_coding	YES	CCDS5957.1	ENSP00000262113	MYOM2_HUMAN	E7EWH9_HUMAN	UPI000013D260	.	tolerated(0.11)	benign(0.048)	19/37	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900:SF48,hmmpanther:PTHR19900,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAGGCCTGG	byFrequency	4	BLCA
TNFRSF10A	0	.	GRCh37	8	23058245	23058245	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.658G>T	p.Asp220Tyr	p.D220Y	ENST00000221132	5/10	93	80	13	54	54	0	TNFRSF10A,missense_variant,p.Asp220Tyr,ENST00000221132,;TNFRSF10A,missense_variant,p.Asp18Tyr,ENST00000524158,;TNFRSF10A,upstream_gene_variant,,ENST00000519862,;	A	ENSG00000104689	ENST00000221132	Transcript	missense_variant	723	658	220	D/Y	Gat/Tat	.	.	.	-1	TNFRSF10A	HGNC	11904	protein_coding	YES	CCDS6039.1	ENSP00000221132	TR10A_HUMAN	E5RFH1_HUMAN	UPI000013C7A8	.	deleterious(0.05)	possibly_damaging(0.89)	5/10	.	PROSITE_profiles:PS50050,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF41,PROSITE_patterns:PS00652,Gene3D:2.10.50.10,Pfam_domain:PF00020,PIRSF_domain:PIRSF037867,SMART_domains:SM00208,Superfamily_domains:SSF57586,Superfamily_domains:SSF57586,Prints_domain:PR01956	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAATCCTTGA	.	4	BLCA
EBF2	0	.	GRCh37	8	25718731	25718731	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1176G>C	p.Leu392Phe	p.L392F	ENST00000520164	13/16	71	59	12	77	77	0	EBF2,missense_variant,p.Leu244Phe,ENST00000408929,;EBF2,missense_variant,p.Leu123Phe,ENST00000535548,;EBF2,missense_variant,p.Leu392Phe,ENST00000520164,;	G	ENSG00000221818	ENST00000520164	Transcript	missense_variant	1714	1176	392	L/F	ttG/ttC	.	.	.	-1	EBF2	HGNC	19090	protein_coding	YES	CCDS43726.1	ENSP00000430241	COE2_HUMAN	B7Z934_HUMAN,B2RNT0_HUMAN	UPI0000DD7EC9	.	tolerated(0.08)	probably_damaging(0.924)	13/16	.	hmmpanther:PTHR10747	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCTTCAAAAT	.	5	BLCA
DPYSL2	0	.	GRCh37	8	26505224	26505224	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189C>T	p.Arg397Trp	p.R397W	ENST00000311151	11/14	98	76	22	74	74	0	DPYSL2,missense_variant,p.Arg361Trp,ENST00000521913,;DPYSL2,missense_variant,p.Arg397Trp,ENST00000311151,;DPYSL2,missense_variant,p.Arg361Trp,ENST00000523027,;DPYSL2,downstream_gene_variant,,ENST00000521983,;DPYSL2,downstream_gene_variant,,ENST00000474808,;	T	ENSG00000092964	ENST00000311151	Transcript	missense_variant	1601	1189	397	R/W	Cgg/Tgg	.	.	.	1	DPYSL2	HGNC	3014	protein_coding	YES	CCDS6051.1	ENSP00000309539	DPYL2_HUMAN	Q8NAN9_HUMAN,A9CQZ2_HUMAN	UPI0000129864	.	deleterious(0)	probably_damaging(0.999)	11/14	.	hmmpanther:PTHR11647,hmmpanther:PTHR11647:SF56,Pfam_domain:PF01979,Gene3D:2.30.40.10,TIGRFAM_domain:TIGR02033,Superfamily_domains:SSF51556,Superfamily_domains:SSF51338	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCCCGGAAA	.	5	BLCA
ADRA1A	0	.	GRCh37	8	26627600	26627600	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1269+198C>T	.	.	ENST00000380586	.	73	61	11	80	80	0	ADRA1A,3_prime_UTR_variant,,ENST00000380573,;ADRA1A,3_prime_UTR_variant,,ENST00000276393,;ADRA1A,intron_variant,,ENST00000380586,;ADRA1A,intron_variant,,ENST00000354550,;ADRA1A,intron_variant,,ENST00000380587,;ADRA1A,intron_variant,,ENST00000380581,;ADRA1A,intron_variant,,ENST00000380582,;ADRA1A,intron_variant,,ENST00000519229,;ADRA1A,downstream_gene_variant,,ENST00000518621,;ADRA1A,intron_variant,,ENST00000521711,;ADRA1A,intron_variant,,ENST00000519096,;RP11-384C12.1,upstream_gene_variant,,ENST00000486251,;	A	ENSG00000120907	ENST00000380586	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ADRA1A	HGNC	277	protein_coding	YES	CCDS34869.1	ENSP00000369960	ADA1A_HUMAN	Q7KYZ9_HUMAN,B0ZBD3_HUMAN	UPI000066DA42	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCTGGCCTTC	.	2	BLCA
CSMD1	0	.	GRCh37	8	2830762	2830762	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8800G>T	p.Asp2934Tyr	p.D2934Y	ENST00000537824	57/70	119	99	19	85	85	0	CSMD1,missense_variant,p.Asp2877Tyr,ENST00000400186,;CSMD1,missense_variant,p.Asp2876Tyr,ENST00000542608,;CSMD1,missense_variant,p.Asp2877Tyr,ENST00000602723,;CSMD1,missense_variant,p.Asp2352Tyr,ENST00000335551,;CSMD1,missense_variant,p.Asp2934Tyr,ENST00000537824,;CSMD1,missense_variant,p.Asp2935Tyr,ENST00000602557,;CSMD1,missense_variant,p.Asp2935Tyr,ENST00000520002,;	A	ENSG00000183117	ENST00000537824	Transcript	missense_variant	8800	8800	2934	D/Y	Gat/Tat	.	.	.	-1	CSMD1	HGNC	14026	protein_coding	YES	CCDS55189.1	ENSP00000441462	.	F5GZ18_HUMAN	UPI0001B723C6	.	.	possibly_damaging(0.894)	57/70	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325:SF323,hmmpanther:PTHR19325,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCATCACCAA	.	4	BLCA
DDHD2	0	.	GRCh37	8	38110591	38110591	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1837G>A	p.Glu613Lys	p.E613K	ENST00000397166	15/18	57	46	11	37	36	0	DDHD2,missense_variant,p.Glu613Lys,ENST00000397166,;DDHD2,missense_variant,p.Glu64Lys,ENST00000529845,;DDHD2,missense_variant,p.Glu232Lys,ENST00000517385,;DDHD2,missense_variant,p.Glu115Lys,ENST00000526144,;DDHD2,missense_variant,p.Glu613Lys,ENST00000520272,;DDHD2,upstream_gene_variant,,ENST00000528613,;DDHD2,downstream_gene_variant,,ENST00000532106,;DDHD2,downstream_gene_variant,,ENST00000528888,;DDHD2,non_coding_transcript_exon_variant,,ENST00000520176,;DDHD2,non_coding_transcript_exon_variant,,ENST00000528504,;DDHD2,non_coding_transcript_exon_variant,,ENST00000524545,;DDHD2,downstream_gene_variant,,ENST00000528148,;	A	ENSG00000085788	ENST00000397166	Transcript	missense_variant	2362	1837	613	E/K	Gaa/Aaa	.	.	.	1	DDHD2	HGNC	29106	protein_coding	YES	CCDS34883.1	ENSP00000380352	DDHD2_HUMAN	H0YE64_HUMAN,E9PQY9_HUMAN,E9PPH8_HUMAN,E9PP45_HUMAN,E9PK57_HUMAN,B3KXB5_HUMAN	UPI0000160E07	.	tolerated(0.51)	benign(0.217)	15/18	.	Low_complexity_(Seg):seg,Pfam_domain:PF02862,hmmpanther:PTHR15457:SF7,hmmpanther:PTHR15457,PROSITE_profiles:PS51043	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCAGAAACA	.	5	BLCA
ADAM9	0	.	GRCh37	8	38874796	38874796	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.469C>T	p.His157Tyr	p.H157Y	ENST00000487273	6/22	68	53	15	50	50	0	ADAM9,missense_variant,p.His157Tyr,ENST00000487273,;ADAM9,downstream_gene_variant,,ENST00000466936,;ADAM9,downstream_gene_variant,,ENST00000481513,;SNORD38,downstream_gene_variant,,ENST00000384470,;ADAM9,missense_variant,p.His157Tyr,ENST00000468065,;ADAM9,missense_variant,p.His157Tyr,ENST00000379917,;ADAM9,missense_variant,p.His157Tyr,ENST00000481873,;ADAM9,non_coding_transcript_exon_variant,,ENST00000481058,;	T	ENSG00000168615	ENST00000487273	Transcript	missense_variant	547	469	157	H/Y	Cat/Tat	.	.	.	1	ADAM9	HGNC	216	protein_coding	YES	CCDS6112.1	ENSP00000419446	ADAM9_HUMAN	B4DDM8_HUMAN	UPI0000048D87	.	deleterious(0.04)	benign(0.217)	6/22	.	hmmpanther:PTHR11905:SF32,hmmpanther:PTHR11905,Pfam_domain:PF01562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCATTTT	.	5	BLCA
SPIDR	0	.	GRCh37	8	48353063	48353063	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1056C>T	p.%3D	p.L352L	ENST00000297423	8/20	60	54	6	39	39	0	SPIDR,synonymous_variant,p.%3D,ENST00000524006,;SPIDR,synonymous_variant,p.%3D,ENST00000541342,;SPIDR,synonymous_variant,p.%3D,ENST00000297423,;SPIDR,synonymous_variant,p.%3D,ENST00000519401,;SPIDR,synonymous_variant,p.%3D,ENST00000518074,;SPIDR,non_coding_transcript_exon_variant,,ENST00000521550,;SPIDR,non_coding_transcript_exon_variant,,ENST00000521214,;SPIDR,downstream_gene_variant,,ENST00000521918,;SPIDR,3_prime_UTR_variant,,ENST00000524126,;SPIDR,3_prime_UTR_variant,,ENST00000522117,;SPIDR,3_prime_UTR_variant,,ENST00000517824,;SPIDR,3_prime_UTR_variant,,ENST00000519661,;SPIDR,3_prime_UTR_variant,,ENST00000524033,;SPIDR,non_coding_transcript_exon_variant,,ENST00000524141,;	T	ENSG00000164808	ENST00000297423	Transcript	synonymous_variant	1440	1056	352	L	ctC/ctT	.	.	.	1	SPIDR	HGNC	28971	protein_coding	YES	CCDS43737.1	ENSP00000297423	SPIDR_HUMAN	E5RGX8_HUMAN,E5RFY2_HUMAN,B3KP42_HUMAN	UPI0000253B92	.	.	.	8/20	.	Pfam_domain:PF14950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACCTCAGGGG	.	3	BLCA
PRKDC	0	.	GRCh37	8	48731990	48731990	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9415G>A	p.Glu3139Lys	p.E3139K	ENST00000314191	68/87	64	54	10	54	54	0	PRKDC,missense_variant,p.Glu3139Lys,ENST00000338368,;PRKDC,missense_variant,p.Glu3139Lys,ENST00000314191,;PRKDC,non_coding_transcript_exon_variant,,ENST00000518216,;PRKDC,non_coding_transcript_exon_variant,,ENST00000523565,;	T	ENSG00000253729	ENST00000314191	Transcript	missense_variant	9472	9415	3139	E/K	Gag/Aag	.	.	.	-1	PRKDC	HGNC	9413	protein_coding	YES	.	ENSP00000313420	PRKDC_HUMAN	F5GX40_HUMAN	UPI000045790C	.	.	possibly_damaging(0.757)	68/87	.	PROSITE_profiles:PS51189,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF54,Pfam_domain:PF02259	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTCCTGAA	.	4	BLCA
RB1CC1	0	.	GRCh37	8	53569730	53569730	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2659G>C	p.Glu887Gln	p.E887Q	ENST00000025008	15/24	58	46	11	47	47	0	RB1CC1,missense_variant,p.Glu887Gln,ENST00000025008,;RB1CC1,missense_variant,p.Glu887Gln,ENST00000539297,;RB1CC1,missense_variant,p.Glu887Gln,ENST00000435644,;RB1CC1,intron_variant,,ENST00000521611,;RB1CC1,downstream_gene_variant,,ENST00000523594,;	G	ENSG00000023287	ENST00000025008	Transcript	missense_variant	3183	2659	887	E/Q	Gag/Cag	.	.	.	-1	RB1CC1	HGNC	15574	protein_coding	YES	CCDS34892.1	ENSP00000025008	RBCC1_HUMAN	E5RH63_HUMAN,B4DGF9_HUMAN	UPI0000DBEF23	.	tolerated_low_confidence(0.14)	probably_damaging(0.997)	15/24	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13222:SF1,hmmpanther:PTHR13222	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTCTTCAG	.	5	BLCA
COPS5	0	.	GRCh37	8	67970374	67970374	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>C	p.Asp151His	p.D151H	ENST00000357849	3/8	79	67	12	45	45	0	COPS5,missense_variant,p.Asp87His,ENST00000517736,;COPS5,missense_variant,p.Asp151His,ENST00000357849,;COPS5,missense_variant,p.Asp87His,ENST00000518747,;CSPP1,upstream_gene_variant,,ENST00000521919,;AC109335.1,upstream_gene_variant,,ENST00000578628,;COPS5,non_coding_transcript_exon_variant,,ENST00000517793,;COPS5,upstream_gene_variant,,ENST00000523086,;COPS5,downstream_gene_variant,,ENST00000519963,;COPS5,downstream_gene_variant,,ENST00000518768,;PPP1R42,upstream_gene_variant,,ENST00000517834,;COPS5,downstream_gene_variant,,ENST00000519057,;COPS5,3_prime_UTR_variant,,ENST00000523890,;COPS5,3_prime_UTR_variant,,ENST00000518374,;COPS5,non_coding_transcript_exon_variant,,ENST00000521509,;COPS5,non_coding_transcript_exon_variant,,ENST00000521386,;COPS5,downstream_gene_variant,,ENST00000517406,;	G	ENSG00000121022	ENST00000357849	Transcript	missense_variant	772	451	151	D/H	Gat/Cat	.	.	.	-1	COPS5	HGNC	2240	protein_coding	YES	CCDS6198.1	ENSP00000350512	CSN5_HUMAN	E5RHF2_HUMAN	UPI000006D7AB	.	deleterious(0)	probably_damaging(1)	3/8	.	Superfamily_domains:0048572,SMART_domains:SM00232,Gene3D:3.40.140.10,Pfam_domain:PF01398,hmmpanther:PTHR10410,hmmpanther:PTHR10410:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATCAATCC	.	4	BLCA
RDH10	0	.	GRCh37	8	74209446	74209446	+	Missense_Mutation	SNP	G	G	A	rs556672044	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307G>A	p.Glu103Lys	p.E103K	ENST00000240285	2/6	33	27	6	35	35	0	RDH10,missense_variant,p.Glu103Lys,ENST00000240285,;RDH10,5_prime_UTR_variant,,ENST00000521928,;RDH10,5_prime_UTR_variant,,ENST00000519380,;RPL7,upstream_gene_variant,,ENST00000431653,;RPL7,upstream_gene_variant,,ENST00000352983,;RPL7,upstream_gene_variant,,ENST00000396465,;RPL7,upstream_gene_variant,,ENST00000396467,;RPL7,upstream_gene_variant,,ENST00000396466,;RPL7,upstream_gene_variant,,ENST00000435330,;RP11-434I12.2,downstream_gene_variant,,ENST00000520894,;RDH10,non_coding_transcript_exon_variant,,ENST00000518870,;	A	ENSG00000121039	ENST00000240285	Transcript	missense_variant	985	307	103	E/K	Gaa/Aaa	rs556672044	.	.	1	RDH10	HGNC	19975	protein_coding	YES	CCDS6213.1	ENSP00000240285	RDH10_HUMAN	E5RK48_HUMAN,E5RHJ9_HUMAN	UPI0000054C83	.	tolerated(0.15)	benign(0.26)	2/6	.	hmmpanther:PTHR24316:SF309,hmmpanther:PTHR24316,Gene3D:3.40.50.720,Pfam_domain:PF00106,PIRSF_domain:PIRSF000126,Superfamily_domains:SSF51735	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAAATT	by1000G	5	BLCA
GDAP1	0	.	GRCh37	8	75276743	75276743	+	3'UTR	SNP	C	C	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*141C>A	.	.	ENST00000220822	6/6	26	19	7	16	16	0	GDAP1,3_prime_UTR_variant,,ENST00000434412,;GDAP1,3_prime_UTR_variant,,ENST00000220822,;GDAP1,intron_variant,,ENST00000524195,;GDAP1,downstream_gene_variant,,ENST00000524366,;GDAP1,downstream_gene_variant,,ENST00000521096,;GDAP1,downstream_gene_variant,,ENST00000523640,;GDAP1,downstream_gene_variant,,ENST00000520797,;GDAP1,3_prime_UTR_variant,,ENST00000522568,;	A	ENSG00000104381	ENST00000220822	Transcript	3_prime_UTR_variant	1298	.	.	.	.	.	.	.	1	GDAP1	HGNC	15968	protein_coding	YES	CCDS34911.1	ENSP00000220822	GDAP1_HUMAN	B4DIH2_HUMAN	UPI00001AE62B	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACACAGGGG	.	5	BLCA
IMPA1	0	.	GRCh37	8	82583256	82583256	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.661G>C	p.Glu221Gln	p.E221Q	ENST00000449740	8/10	57	45	12	41	41	0	IMPA1,missense_variant,p.Glu187Gln,ENST00000523942,;IMPA1,missense_variant,p.Glu127Gln,ENST00000521360,;IMPA1,missense_variant,p.Glu221Gln,ENST00000449740,;IMPA1,missense_variant,p.Glu162Gln,ENST00000256108,;IMPA1,missense_variant,p.Glu154Gln,ENST00000519964,;IMPA1,intron_variant,,ENST00000311489,;IMPA1,downstream_gene_variant,,ENST00000518202,;IMPA1,downstream_gene_variant,,ENST00000522997,;IMPA1,non_coding_transcript_exon_variant,,ENST00000523710,;IMPA1,3_prime_UTR_variant,,ENST00000518188,;IMPA1,3_prime_UTR_variant,,ENST00000521979,;IMPA1,non_coding_transcript_exon_variant,,ENST00000520065,;IMPA1,downstream_gene_variant,,ENST00000519816,;	G	ENSG00000133731	ENST00000449740	Transcript	missense_variant	741	661	221	E/Q	Gag/Cag	.	.	.	-1	IMPA1	HGNC	6050	protein_coding	YES	CCDS47883.1	ENSP00000408526	IMPA1_HUMAN	E5RGY4_HUMAN,E5RG94_HUMAN	UPI000192950E	.	deleterious(0.01)	probably_damaging(0.998)	8/10	.	hmmpanther:PTHR20854:SF26,hmmpanther:PTHR20854,Pfam_domain:PF00459,Gene3D:3.40.190.80,Superfamily_domains:SSF56655,Prints_domain:PR00378	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCAGTCA	.	5	BLCA
ERI1	0	.	GRCh37	8	8875866	8875866	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.642G>A	p.Met214Ile	p.M214I	ENST00000523898	6/8	54	45	9	46	46	0	ERI1,missense_variant,p.Met214Ile,ENST00000519292,;ERI1,missense_variant,p.Met214Ile,ENST00000523898,;ERI1,missense_variant,p.Met214Ile,ENST00000250263,;ERI1,non_coding_transcript_exon_variant,,ENST00000520332,;ERI1,non_coding_transcript_exon_variant,,ENST00000518663,;ERI1,upstream_gene_variant,,ENST00000522612,;ERI1,downstream_gene_variant,,ENST00000520684,;	A	ENSG00000104626	ENST00000523898	Transcript	missense_variant	1321	642	214	M/I	atG/atA	.	.	.	1	ERI1	HGNC	23994	protein_coding	YES	CCDS5972.1	ENSP00000429615	ERI1_HUMAN	.	UPI00000746A1	.	deleterious(0.01)	benign(0.311)	6/8	.	hmmpanther:PTHR23044,Pfam_domain:PF00929,Gene3D:3.30.420.10,SMART_domains:SM00479,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGATGAAATT	.	3	BLCA
ERI1	0	.	GRCh37	8	8875882	8875882	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.658G>C	p.Gly220Arg	p.G220R	ENST00000523898	6/8	49	41	8	43	43	0	ERI1,missense_variant,p.Gly220Arg,ENST00000519292,;ERI1,missense_variant,p.Gly220Arg,ENST00000523898,;ERI1,missense_variant,p.Gly220Arg,ENST00000250263,;ERI1,non_coding_transcript_exon_variant,,ENST00000520332,;ERI1,non_coding_transcript_exon_variant,,ENST00000518663,;ERI1,upstream_gene_variant,,ENST00000522612,;ERI1,downstream_gene_variant,,ENST00000520684,;	C	ENSG00000104626	ENST00000523898	Transcript	missense_variant	1337	658	220	G/R	Gga/Cga	.	.	.	1	ERI1	HGNC	23994	protein_coding	YES	CCDS5972.1	ENSP00000429615	ERI1_HUMAN	.	UPI00000746A1	.	deleterious(0)	probably_damaging(0.998)	6/8	.	hmmpanther:PTHR23044,Pfam_domain:PF00929,Gene3D:3.30.420.10,SMART_domains:SM00479,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AATTAGGAACA	.	3	BLCA
FOXE1	0	.	GRCh37	9	100616436	100616436	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240C>G	p.Tyr80Ter	p.Y80*	ENST00000375123	1/1	33	24	8	31	31	0	FOXE1,stop_gained,p.Tyr80Ter,ENST00000375123,;	G	ENSG00000178919	ENST00000375123	Transcript	stop_gained	901	240	80	Y/*	taC/taG	.	.	.	1	FOXE1	HGNC	3806	protein_coding	YES	CCDS35078.1	ENSP00000364265	FOXE1_HUMAN	.	UPI0000167B2F	.	.	.	1/1	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF156,Pfam_domain:PF00250,Gene3D:1.10.10.10,SMART_domains:SM00339,Superfamily_domains:SSF46785,Prints_domain:PR00053	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTACAAGTT	.	5	BLCA
ANP32B	0	.	GRCh37	9	100773666	100773666	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631G>A	p.Glu211Lys	p.E211K	ENST00000339399	5/7	18	15	3	10	10	0	ANP32B,missense_variant,p.Glu211Lys,ENST00000339399,;	A	ENSG00000136938	ENST00000339399	Transcript	missense_variant	826	631	211	E/K	Gag/Aag	.	.	.	1	ANP32B	HGNC	16677	protein_coding	YES	CCDS6732.1	ENSP00000345848	AN32B_HUMAN	Q5T6W8_HUMAN,Q53F35_HUMAN	UPI0000125029	.	tolerated(0.75)	unknown(0)	5/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11375:SF2,hmmpanther:PTHR11375	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGTGAGGAG	.	2	BLCA
SEC61B	0	.	GRCh37	9	101992784	101992784	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*78C>G	.	.	ENST00000223641	4/4	39	32	7	43	43	0	SEC61B,3_prime_UTR_variant,,ENST00000498603,;SEC61B,3_prime_UTR_variant,,ENST00000223641,;	G	ENSG00000106803	ENST00000223641	Transcript	3_prime_UTR_variant	432	.	.	.	.	.	.	.	1	SEC61B	HGNC	16993	protein_coding	YES	CCDS6741.1	ENSP00000223641	SC61B_HUMAN	S4R3B5_HUMAN	UPI000000096E	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTATCTGTTC	.	4	BLCA
SMC2	0	.	GRCh37	9	106874078	106874078	+	Missense_Mutation	SNP	C	C	G	rs770558864	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237C>G	p.Gln413Glu	p.Q413E	ENST00000286398	10/25	35	27	8	27	27	0	SMC2,missense_variant,p.Gln413Glu,ENST00000303219,;SMC2,missense_variant,p.Gln413Glu,ENST00000374793,;SMC2,missense_variant,p.Gln413Glu,ENST00000286398,;SMC2,missense_variant,p.Gln413Glu,ENST00000374787,;	G	ENSG00000136824	ENST00000286398	Transcript	missense_variant	1525	1237	413	Q/E	Cag/Gag	rs770558864	.	.	1	SMC2	HGNC	14011	protein_coding	YES	CCDS35086.1	ENSP00000286398	SMC2_HUMAN	Q5T821_HUMAN	UPI000013DE44	.	tolerated(1)	benign(0.004)	10/25	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18937:SF9,hmmpanther:PTHR18937,Pfam_domain:PF02463,PIRSF_domain:PIRSF005719	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCAGACA	.	5	BLCA
SLC31A1	0	.	GRCh37	9	116018455	116018455	+	Missense_Mutation	SNP	G	G	T	rs776144609	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27G>T	p.Met9Ile	p.M9I	ENST00000374212	2/5	74	64	10	57	57	0	SLC31A1,missense_variant,p.Met9Ile,ENST00000374212,;SLC31A1,missense_variant,p.Met9Ile,ENST00000374210,;CDC26,intron_variant,,ENST00000490408,;	T	ENSG00000136868	ENST00000374212	Transcript	missense_variant	179	27	9	M/I	atG/atT	rs776144609	.	.	1	SLC31A1	HGNC	11016	protein_coding	YES	CCDS6789.1	ENSP00000363329	COPT1_HUMAN	Q9BT69_HUMAN	UPI0000127EC2	.	tolerated(0.3)	benign(0)	2/5	.	hmmpanther:PTHR12483:SF22,hmmpanther:PTHR12483	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGATGAGCTA	byFrequency	4	BLCA
PAPPA	0	.	GRCh37	9	119097321	119097321	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3579G>A	p.%3D	p.Q1193Q	ENST00000328252	13/22	44	35	9	43	43	0	PAPPA,synonymous_variant,p.%3D,ENST00000328252,;PAPPA,synonymous_variant,p.%3D,ENST00000534838,;PAPPA,non_coding_transcript_exon_variant,,ENST00000460463,;	A	ENSG00000182752	ENST00000328252	Transcript	synonymous_variant	3948	3579	1193	Q	caG/caA	.	.	.	1	PAPPA	HGNC	8602	protein_coding	YES	CCDS6813.1	ENSP00000330658	PAPP1_HUMAN	Q5QFB7_HUMAN,F5GZ19_HUMAN	UPI00001E0589	.	.	.	13/22	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCAGAGAGG	.	5	BLCA
BRINP1	0	.	GRCh37	9	121930210	121930210	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1438G>A	p.Asp480Asn	p.D480N	ENST00000265922	8/8	46	41	5	38	38	0	BRINP1,missense_variant,p.Asp480Asn,ENST00000265922,;BRINP1,intron_variant,,ENST00000482797,;	T	ENSG00000078725	ENST00000265922	Transcript	missense_variant	1900	1438	480	D/N	Gac/Aac	.	.	.	-1	BRINP1	HGNC	2687	protein_coding	YES	CCDS6822.1	ENSP00000265922	BRNP1_HUMAN	B4DE75_HUMAN	UPI000013D6A7	.	deleterious(0)	benign(0.135)	8/8	.	hmmpanther:PTHR15564:SF7,hmmpanther:PTHR15564	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGTCAGTCT	.	4	BLCA
SCAI	0	.	GRCh37	9	127783044	127783044	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.586G>A	p.Glu196Lys	p.E196K	ENST00000373549	8/19	70	55	15	52	52	0	SCAI,missense_variant,p.Glu196Lys,ENST00000373549,;SCAI,missense_variant,p.Glu173Lys,ENST00000336505,;SCAI,missense_variant,p.Glu173Lys,ENST00000477186,;	T	ENSG00000173611	ENST00000373549	Transcript	missense_variant	645	586	196	E/K	Gaa/Aaa	.	.	.	-1	SCAI	HGNC	26709	protein_coding	YES	CCDS43877.1	ENSP00000362650	SCAI_HUMAN	.	UPI000013F2EF	.	deleterious(0.03)	benign(0.206)	8/19	.	hmmpanther:PTHR21243,Pfam_domain:PF12070,PIRSF_domain:PIRSF013022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CAATTCAGGTC	.	4	BLCA
MVB12B	0	.	GRCh37	9	129154361	129154361	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.426G>A	p.%3D	p.R142R	ENST00000361171	5/10	211	179	32	167	167	0	MVB12B,synonymous_variant,p.%3D,ENST00000402437,;MVB12B,synonymous_variant,p.%3D,ENST00000535766,;MVB12B,synonymous_variant,p.%3D,ENST00000436593,;MVB12B,synonymous_variant,p.%3D,ENST00000545391,;MVB12B,synonymous_variant,p.%3D,ENST00000361171,;MVB12B,non_coding_transcript_exon_variant,,ENST00000489637,;MVB12B,upstream_gene_variant,,ENST00000470567,;	A	ENSG00000196814	ENST00000361171	Transcript	synonymous_variant	507	426	142	R	agG/agA	COSM336307	.	.	1	MVB12B	HGNC	23368	protein_coding	YES	CCDS35142.1	ENSP00000354772	MB12B_HUMAN	Q9H7N7_HUMAN	UPI00001C1EBC	.	.	.	5/10	.	PROSITE_profiles:PS51498,hmmpanther:PTHR31547:SF1,hmmpanther:PTHR31547,Pfam_domain:PF10240	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTAGGAAGAA	.	4	BLCA
LMX1B	0	.	GRCh37	9	129376822	129376822	+	Missense_Mutation	SNP	G	G	A	rs748676035	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.94G>A	p.Glu32Lys	p.E32K	ENST00000355497	1/8	20	17	3	15	15	0	LMX1B,missense_variant,p.Glu9Lys,ENST00000425646,;LMX1B,missense_variant,p.Glu32Lys,ENST00000526117,;LMX1B,missense_variant,p.Glu9Lys,ENST00000561065,;LMX1B,missense_variant,p.Glu32Lys,ENST00000373474,;LMX1B,missense_variant,p.Glu32Lys,ENST00000355497,;RP11-123K19.1,upstream_gene_variant,,ENST00000425370,;RP11-123K19.1,upstream_gene_variant,,ENST00000432418,;RP11-123K19.1,upstream_gene_variant,,ENST00000451449,;	A	ENSG00000136944	ENST00000355497	Transcript	missense_variant	101	94	32	E/K	Gag/Aag	rs748676035	.	.	1	LMX1B	HGNC	6654	protein_coding	YES	CCDS55343.1	ENSP00000347684	LMX1B_HUMAN	Q9UE66_HUMAN,B7ZLH2_HUMAN	UPI0001CE94D0	.	deleterious_low_confidence(0.02)	benign(0.281)	1/8	.	hmmpanther:PTHR24208,hmmpanther:PTHR24208:SF96	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGAGGAGCAC	.	2	BLCA
NTNG2	0	.	GRCh37	9	135073895	135073895	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>A	p.%3D	p.L252L	ENST00000393229	3/8	86	73	13	64	64	0	NTNG2,synonymous_variant,p.%3D,ENST00000393228,;NTNG2,synonymous_variant,p.%3D,ENST00000372179,;NTNG2,synonymous_variant,p.%3D,ENST00000360670,;NTNG2,synonymous_variant,p.%3D,ENST00000393229,;	A	ENSG00000196358	ENST00000393229	Transcript	synonymous_variant	1532	756	252	L	ctG/ctA	.	.	.	1	NTNG2	HGNC	14288	protein_coding	YES	CCDS6946.1	ENSP00000376921	NTNG2_HUMAN	.	UPI0000367698	.	.	.	3/8	.	SMART_domains:SM00136,Pfam_domain:PF00055,hmmpanther:PTHR10574,PROSITE_profiles:PS51117	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTGCGCAT	.	4	BLCA
SOHLH1	0	.	GRCh37	9	138588462	138588462	+	Silent	SNP	G	G	A	rs758782648	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657C>T	p.%3D	p.F219F	ENST00000425225	5/8	32	26	6	19	19	0	SOHLH1,synonymous_variant,p.%3D,ENST00000298466,;SOHLH1,synonymous_variant,p.%3D,ENST00000425225,;	A	ENSG00000165643	ENST00000425225	Transcript	synonymous_variant	718	657	219	F	ttC/ttT	rs758782648,COSM3655580,COSM3655579	.	.	-1	SOHLH1	HGNC	27845	protein_coding	YES	CCDS48054.1	ENSP00000404438	SOLH1_HUMAN	.	UPI0001AE6F1C	.	.	.	5/8	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGAGAAAGG	.	5	BLCA
ENTPD8	0	.	GRCh37	9	140330234	140330234	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1098C>T	p.%3D	p.S366S	ENST00000371506	8/10	65	55	10	57	57	0	ENTPD8,synonymous_variant,p.%3D,ENST00000371506,;ENTPD8,synonymous_variant,p.%3D,ENST00000472938,;ENTPD8,intron_variant,,ENST00000344119,;NOXA1,downstream_gene_variant,,ENST00000341349,;ENTPD8,downstream_gene_variant,,ENST00000493135,;NOXA1,downstream_gene_variant,,ENST00000392815,;ENTPD8,non_coding_transcript_exon_variant,,ENST00000461823,;	A	ENSG00000188833	ENST00000371506	Transcript	synonymous_variant	1282	1098	366	S	tcC/tcT	.	.	.	-1	ENTPD8	HGNC	24860	protein_coding	YES	CCDS43913.1	ENSP00000360561	ENTP8_HUMAN	.	UPI0000D6195D	.	.	.	8/10	.	hmmpanther:PTHR11782:SF31,hmmpanther:PTHR11782,Pfam_domain:PF01150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTGGAGGT	.	5	BLCA
RRAGA	0	.	GRCh37	9	19050377	19050377	+	Silent	SNP	G	G	C	rs141987080	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720G>C	p.%3D	p.L240L	ENST00000380527	1/1	124	96	28	88	88	0	RRAGA,synonymous_variant,p.%3D,ENST00000380527,;HAUS6,downstream_gene_variant,,ENST00000380502,;	C	ENSG00000155876	ENST00000380527	Transcript	synonymous_variant	1006	720	240	L	ctG/ctC	rs141987080	.	.	1	RRAGA	HGNC	16963	protein_coding	YES	CCDS6488.1	ENSP00000369899	RRAGA_HUMAN	.	UPI000006D235	.	.	.	1/1	.	hmmpanther:PTHR11259,hmmpanther:PTHR11259:SF4	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTGAGCTG	byCluster	5	BLCA
IFNA17	0	.	GRCh37	9	21227886	21227886	+	Missense_Mutation	SNP	G	G	A	rs747924158	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287C>T	p.Ser96Leu	p.S96L	ENST00000413767	1/1	186	153	33	139	139	0	IFNA17,missense_variant,p.Ser96Leu,ENST00000413767,;IFNWP5,downstream_gene_variant,,ENST00000445100,;	A	ENSG00000234829	ENST00000413767	Transcript	missense_variant	336	287	96	S/L	tCa/tTa	rs747924158	.	.	-1	IFNA17	HGNC	5422	protein_coding	YES	CCDS6500.1	ENSP00000411940	IFN17_HUMAN	Q9UMJ2_HUMAN	UPI0000052AF9	.	deleterious(0.02)	probably_damaging(0.949)	1/1	.	hmmpanther:PTHR11691,hmmpanther:PTHR11691:SF29,Gene3D:1.20.1250.10,Pfam_domain:PF00143,SMART_domains:SM00076,Superfamily_domains:SSF47266,Prints_domain:PR00266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGATGAGTCC	byFrequency	4	BLCA
ACO1	0	.	GRCh37	9	32430447	32430447	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1601G>A	p.Gly534Glu	p.G534E	ENST00000309951	14/21	86	70	16	75	75	0	ACO1,missense_variant,p.Gly534Glu,ENST00000379923,;ACO1,missense_variant,p.Gly534Glu,ENST00000309951,;ACO1,missense_variant,p.Gly435Glu,ENST00000541043,;	A	ENSG00000122729	ENST00000309951	Transcript	missense_variant	1739	1601	534	G/E	gGa/gAa	.	.	.	1	ACO1	HGNC	117	protein_coding	YES	CCDS6525.1	ENSP00000309477	ACOC_HUMAN	Q9HBB2_HUMAN	UPI000012D87E	.	deleterious(0)	probably_damaging(1)	14/21	.	hmmpanther:PTHR11670:SF32,hmmpanther:PTHR11670,Pfam_domain:PF00330,TIGRFAM_domain:TIGR01341,Gene3D:3.30.499.10,Superfamily_domains:SSF53732	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTGGAAACA	.	5	BLCA
DNAJA1	0	.	GRCh37	9	33026883	33026883	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205G>C	p.Glu69Gln	p.E69Q	ENST00000330899	3/9	69	56	13	51	51	0	DNAJA1,missense_variant,p.Glu69Gln,ENST00000330899,;DNAJA1,intron_variant,,ENST00000544625,;DNAJA1,intron_variant,,ENST00000495015,;APTX,upstream_gene_variant,,ENST00000473270,;APTX,upstream_gene_variant,,ENST00000460945,;APTX,upstream_gene_variant,,ENST00000489583,;APTX,upstream_gene_variant,,ENST00000495360,;	C	ENSG00000086061	ENST00000330899	Transcript	missense_variant	388	205	69	E/Q	Gaa/Caa	.	.	.	1	DNAJA1	HGNC	5229	protein_coding	YES	CCDS6533.1	ENSP00000369127	DNJA1_HUMAN	B7Z5C0_HUMAN	UPI0000129431	.	deleterious(0.03)	benign(0.13)	3/9	.	Low_complexity_(Seg):seg,HAMAP:MF_01152,hmmpanther:PTHR24076:SF94,hmmpanther:PTHR24076,Gene3D:1.10.287.110,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGAGAACAG	.	5	BLCA
AQP3	0	.	GRCh37	9	33443859	33443859	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140T>C	p.Val47Ala	p.V47A	ENST00000297991	2/6	27	20	7	20	20	0	AQP3,missense_variant,p.Val47Ala,ENST00000297991,;AQP3,non_coding_transcript_exon_variant,,ENST00000463983,;AQP3,non_coding_transcript_exon_variant,,ENST00000493581,;AQP3,non_coding_transcript_exon_variant,,ENST00000473153,;AQP3,upstream_gene_variant,,ENST00000494313,;	G	ENSG00000165272	ENST00000297991	Transcript	missense_variant	221	140	47	V/A	gTg/gCg	.	.	.	-1	AQP3	HGNC	636	protein_coding	YES	CCDS6542.1	ENSP00000297991	AQP3_HUMAN	.	UPI0000125D1C	.	deleterious(0.01)	benign(0.209)	2/6	.	Superfamily_domains:SSF81338,TIGRFAM_domain:TIGR00861,Pfam_domain:PF00230,Gene3D:1.20.1080.10,hmmpanther:PTHR19139:SF101,hmmpanther:PTHR19139,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGCACAACC	.	5	BLCA
NOL6	0	.	GRCh37	9	33463916	33463916	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2907C>T	p.%3D	p.I969I	ENST00000297990	23/26	89	75	14	49	49	0	NOL6,synonymous_variant,p.%3D,ENST00000297990,;NOL6,synonymous_variant,p.%3D,ENST00000379471,;NOL6,synonymous_variant,p.%3D,ENST00000455041,;NOL6,synonymous_variant,p.%3D,ENST00000379470,;NOL6,intron_variant,,ENST00000353159,;NOL6,intron_variant,,ENST00000464829,;	A	ENSG00000165271	ENST00000297990	Transcript	synonymous_variant	2995	2907	969	I	atC/atT	.	.	.	-1	NOL6	HGNC	19910	protein_coding	YES	CCDS6543.1	ENSP00000297990	NOL6_HUMAN	.	UPI0000050326	.	.	.	23/26	.	Pfam_domain:PF03813,hmmpanther:PTHR17972,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGATCTG	.	5	BLCA
UNC13B	0	.	GRCh37	9	35295828	35295828	+	Missense_Mutation	SNP	G	G	A	rs373846094	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662G>A	p.Arg221Gln	p.R221Q	ENST00000378495	8/39	45	28	17	17	17	0	UNC13B,missense_variant,p.Arg221Gln,ENST00000378495,;UNC13B,missense_variant,p.Arg233Gln,ENST00000396787,;UNC13B,missense_variant,p.Arg221Gln,ENST00000378496,;	A	ENSG00000198722	ENST00000378495	Transcript	missense_variant	884	662	221	R/Q	cGa/cAa	rs373846094	.	.	1	UNC13B	HGNC	12566	protein_coding	YES	CCDS6579.1	ENSP00000367756	UN13B_HUMAN	.	UPI0000211336	.	deleterious_low_confidence(0.03)	benign(0)	8/39	.	hmmpanther:PTHR10480	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGCGATCGC	byFrequency|byCluster	5	BLCA
MLANA	0	.	GRCh37	9	5908726	5908726	+	3'UTR	SNP	G	G	C	rs777670729	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18G>C	.	.	ENST00000381477	5/5	49	43	5	38	38	0	MLANA,3_prime_UTR_variant,,ENST00000381476,;MLANA,3_prime_UTR_variant,,ENST00000381477,;MLANA,3_prime_UTR_variant,,ENST00000381471,;KIAA2026,intron_variant,,ENST00000443149,;MLANA,downstream_gene_variant,,ENST00000482341,;MLANA,downstream_gene_variant,,ENST00000490518,;KIAA2026,intron_variant,,ENST00000436015,;	C	ENSG00000120215	ENST00000381477	Transcript	3_prime_UTR_variant	535	.	.	.	.	rs777670729	.	.	1	MLANA	HGNC	7124	protein_coding	YES	CCDS6466.1	ENSP00000370886	MAR1_HUMAN	.	UPI0000039DCC	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CACCTGAGACA	.	3	BLCA
SLC25A5	0	.	GRCh37	X	118604382	118604382	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645G>A	p.Met215Ile	p.M215I	ENST00000317881	3/4	60	38	21	39	39	0	SLC25A5,missense_variant,p.Met215Ile,ENST00000317881,;SLC25A5-AS1,upstream_gene_variant,,ENST00000609227,;SLC25A5-AS1,upstream_gene_variant,,ENST00000446986,;SLC25A5-AS1,upstream_gene_variant,,ENST00000445759,;SLC25A5,non_coding_transcript_exon_variant,,ENST00000463551,;SLC25A5,non_coding_transcript_exon_variant,,ENST00000460013,;SLC25A5,downstream_gene_variant,,ENST00000475354,;SLC25A5-AS1,upstream_gene_variant,,ENST00000395539,;	A	ENSG00000005022	ENST00000317881	Transcript	missense_variant	761	645	215	M/I	atG/atA	.	.	.	1	SLC25A5	HGNC	10991	protein_coding	YES	CCDS14578.1	ENSP00000360671	ADT2_HUMAN	Q6NVC0_HUMAN	UPI000013C4ED	.	tolerated(0.19)	benign(0.003)	3/4	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50920,hmmpanther:PTHR24089,hmmpanther:PTHR24089:SF160,Gene3D:1okcA00,Pfam_domain:PF00153,Superfamily_domains:0048588,Prints_domain:PR00927	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATGATCGC	.	5	BLCA
FRMPD4	0	.	GRCh37	X	12735943	12735943	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2998G>A	p.Glu1000Lys	p.E1000K	ENST00000380682	16/17	61	36	25	47	47	0	FRMPD4,missense_variant,p.Glu1000Lys,ENST00000380682,;	A	ENSG00000169933	ENST00000380682	Transcript	missense_variant	3504	2998	1000	E/K	Gaa/Aaa	.	.	.	1	FRMPD4	HGNC	29007	protein_coding	YES	CCDS35201.1	ENSP00000370057	FRPD4_HUMAN	.	UPI00001C2066	.	deleterious_low_confidence(0)	possibly_damaging(0.83)	16/17	.	hmmpanther:PTHR13436,hmmpanther:PTHR13436:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTGAAACT	.	5	BLCA
CNKSR2	0	.	GRCh37	X	21458841	21458841	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.461C>T	p.Ser154Leu	p.S154L	ENST00000379510	4/22	34	19	15	27	27	0	CNKSR2,missense_variant,p.Ser154Leu,ENST00000379510,;CNKSR2,missense_variant,p.Ser154Leu,ENST00000425654,;CNKSR2,missense_variant,p.Ser154Leu,ENST00000543067,;CNKSR2,missense_variant,p.Ser154Leu,ENST00000279451,;CNKSR2,non_coding_transcript_exon_variant,,ENST00000480138,;	T	ENSG00000149970	ENST00000379510	Transcript	missense_variant	497	461	154	S/L	tCa/tTa	COSM457242	.	.	1	CNKSR2	HGNC	19701	protein_coding	YES	CCDS14198.1	ENSP00000368824	CNKR2_HUMAN	.	UPI0000070D72	.	deleterious(0)	benign(0.335)	4/22	.	PROSITE_profiles:PS51290,hmmpanther:PTHR12844,hmmpanther:PTHR12844:SF21,Pfam_domain:PF10534	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTATTCAGTTA	.	5	BLCA
MAOA	0	.	GRCh37	X	43591984	43591984	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994C>G	p.Pro332Ala	p.P332A	ENST00000338702	9/15	53	40	13	48	48	0	MAOA,missense_variant,p.Pro199Ala,ENST00000542639,;MAOA,missense_variant,p.Pro332Ala,ENST00000338702,;MAOA,downstream_gene_variant,,ENST00000497485,;	G	ENSG00000189221	ENST00000338702	Transcript	missense_variant	1117	994	332	P/A	Cca/Gca	.	.	.	1	MAOA	HGNC	6833	protein_coding	YES	CCDS14260.1	ENSP00000340684	AOFA_HUMAN	Q5ULA9_HUMAN,Q5ULA3_HUMAN,Q5UL94_HUMAN,Q5UL91_HUMAN,Q53YE7_HUMAN	UPI0000125B99	.	tolerated(0.08)	benign(0.068)	9/15	.	hmmpanther:PTHR10742,hmmpanther:PTHR10742:SF253,Pfam_domain:PF01593,Gene3D:3.90.660.10,Superfamily_domains:SSF54373	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCCAATT	.	5	BLCA
EBP	0	.	GRCh37	X	48382385	48382385	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226C>T	p.His76Tyr	p.H76Y	ENST00000495186	2/5	42	29	13	41	41	0	EBP,missense_variant,p.His76Tyr,ENST00000446158,;EBP,missense_variant,p.His76Tyr,ENST00000495186,;EBP,missense_variant,p.His76Tyr,ENST00000414061,;PORCN,downstream_gene_variant,,ENST00000359882,;PORCN,downstream_gene_variant,,ENST00000361988,;PORCN,downstream_gene_variant,,ENST00000355961,;PORCN,downstream_gene_variant,,ENST00000355092,;PORCN,downstream_gene_variant,,ENST00000367574,;PORCN,downstream_gene_variant,,ENST00000537758,;PORCN,downstream_gene_variant,,ENST00000326194,;EBP,non_coding_transcript_exon_variant,,ENST00000276096,;EBP,non_coding_transcript_exon_variant,,ENST00000498425,;EBP,upstream_gene_variant,,ENST00000466461,;PORCN,downstream_gene_variant,,ENST00000485288,;PORCN,downstream_gene_variant,,ENST00000472520,;PORCN,downstream_gene_variant,,ENST00000491243,;	T	ENSG00000147155	ENST00000495186	Transcript	missense_variant	1049	226	76	H/Y	Cac/Tac	CM081571	.	.	1	EBP	HGNC	3133	protein_coding	YES	CCDS14300.1	ENSP00000417052	EBP_HUMAN	C9JJ78_HUMAN,C9J719_HUMAN	UPI000000DB82	.	deleterious(0)	probably_damaging(1)	2/5	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14207:SF0,hmmpanther:PTHR14207,Pfam_domain:PF05241	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTCACCTG	.	5	BLCA
COX7B	0	.	GRCh37	X	77158143	77158143	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44G>A	p.Arg15Gln	p.R15Q	ENST00000481445	2/3	34	28	6	28	28	0	COX7B,missense_variant,p.Arg15Gln,ENST00000481445,;COX7B,non_coding_transcript_exon_variant,,ENST00000475465,;COX7B,non_coding_transcript_exon_variant,,ENST00000373335,;	A	ENSG00000131174	ENST00000481445	Transcript	missense_variant	160	44	15	R/Q	cGa/cAa	.	.	.	1	COX7B	HGNC	2291	protein_coding	YES	CCDS14437.1	ENSP00000417656	COX7B_HUMAN	.	UPI0000049C75	.	tolerated(0.49)	benign(0.023)	2/3	.	hmmpanther:PTHR16716:SF0,hmmpanther:PTHR16716,Pfam_domain:PF05392	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTTCGAAGCA	.	2	BLCA
CPXCR1	0	.	GRCh37	X	88008976	88008976	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561C>T	p.%3D	p.F187F	ENST00000276127	3/3	19	14	5	25	25	0	CPXCR1,synonymous_variant,p.%3D,ENST00000276127,;CPXCR1,synonymous_variant,p.%3D,ENST00000373111,;	T	ENSG00000147183	ENST00000276127	Transcript	synonymous_variant	820	561	187	F	ttC/ttT	COSM160191,COSM1126315	.	.	1	CPXCR1	HGNC	2332	protein_coding	YES	CCDS14458.1	ENSP00000276127	CPXCR_HUMAN	.	UPI000007369F	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCACCCA	.	5	BLCA
RBMY1E	0	.	GRCh37	Y	24050314	24050314	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HE-01A-11D-A364-08	TCGA-XF-A8HE-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1220G>C	p.Arg407Thr	p.R407T	ENST00000382659	12/12	127	109	18	135	135	0	RBMY1E,missense_variant,p.Arg407Thr,ENST00000382659,;RBMY1E,missense_variant,p.Arg370Thr,ENST00000382658,;RBMY1E,intron_variant,,ENST00000382673,;RBMY1E,3_prime_UTR_variant,,ENST00000358944,;	G	ENSG00000242389	ENST00000382659	Transcript	missense_variant	1372	1220	407	R/T	aGa/aCa	.	.	.	-1	RBMY1E	HGNC	23916	protein_coding	YES	CCDS35481.1	ENSP00000372105	RBY1E_HUMAN	.	UPI00001AE736	.	deleterious(0)	possibly_damaging(0.893)	12/12	.	hmmpanther:PTHR24012:SF337,hmmpanther:PTHR24012	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCTTGCA	.	4	BLCA
DHTKD1	0	.	GRCh37	10	12110991	12110991	+	5'UTR	SNP	C	C	A	rs766759357	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-42C>A	.	.	ENST00000263035	1/17	14	8	6	16	16	0	DHTKD1,5_prime_UTR_variant,,ENST00000263035,;DHTKD1,upstream_gene_variant,,ENST00000437298,;	A	ENSG00000181192	ENST00000263035	Transcript	5_prime_UTR_variant	21	.	.	.	.	rs766759357	.	.	1	DHTKD1	HGNC	23537	protein_coding	YES	CCDS7087.1	ENSP00000263035	DHTK1_HUMAN	.	UPI000013D38C	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCCCTCGGGCT	byFrequency	4	BLCA
KIAA1217	0	.	GRCh37	10	24820855	24820855	+	Missense_Mutation	SNP	C	C	T	rs745318950	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3179C>T	p.Ser1060Leu	p.S1060L	ENST00000376454	15/21	25	22	3	42	42	0	KIAA1217,missense_variant,p.Ser1060Leu,ENST00000376454,;KIAA1217,missense_variant,p.Ser743Leu,ENST00000396445,;KIAA1217,missense_variant,p.Ser743Leu,ENST00000307544,;KIAA1217,missense_variant,p.Ser743Leu,ENST00000396446,;KIAA1217,missense_variant,p.Ser743Leu,ENST00000376451,;KIAA1217,missense_variant,p.Ser1024Leu,ENST00000376452,;KIAA1217,missense_variant,p.Ser980Leu,ENST00000376462,;KIAA1217,missense_variant,p.Ser1025Leu,ENST00000458595,;KIAA1217,downstream_gene_variant,,ENST00000430453,;KIAA1217,downstream_gene_variant,,ENST00000376456,;KIAA1217,downstream_gene_variant,,ENST00000438429,;	T	ENSG00000120549	ENST00000376454	Transcript	missense_variant	3209	3179	1060	S/L	tCg/tTg	rs745318950	.	.	1	KIAA1217	HGNC	25428	protein_coding	YES	CCDS31165.1	ENSP00000365637	SKT_HUMAN	.	UPI000013EC2A	.	deleterious(0.02)	probably_damaging(0.997)	15/21	.	hmmpanther:PTHR22741,hmmpanther:PTHR22741:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGATCGGGAC	byFrequency	2	BLCA
ZWINT	0	.	GRCh37	10	58121011	58121011	+	5'UTR	SNP	G	G	A	rs762388883	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14C>T	.	.	ENST00000373944	1/9	11	8	3	11	11	0	ZWINT,5_prime_UTR_variant,,ENST00000395405,;ZWINT,5_prime_UTR_variant,,ENST00000373944,;ZWINT,5_prime_UTR_variant,,ENST00000361148,;ZWINT,upstream_gene_variant,,ENST00000318387,;ZWINT,upstream_gene_variant,,ENST00000467523,;ZWINT,upstream_gene_variant,,ENST00000460654,;ZWINT,upstream_gene_variant,,ENST00000478181,;ZWINT,5_prime_UTR_variant,,ENST00000489649,;ZWINT,non_coding_transcript_exon_variant,,ENST00000494312,;	A	ENSG00000122952	ENST00000373944	Transcript	5_prime_UTR_variant	26	.	.	.	.	rs762388883	.	.	-1	ZWINT	HGNC	13195	protein_coding	YES	CCDS7249.1	ENSP00000363055	ZWINT_HUMAN	A6NH27_HUMAN	UPI000013CB09	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCGCCGAGTTC	byFrequency	3	BLCA
TET1	0	.	GRCh37	10	70405515	70405515	+	Nonsense_Mutation	SNP	C	C	G	rs747672308	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3029C>G	p.Ser1010Ter	p.S1010*	ENST00000373644	4/12	60	47	13	51	51	0	TET1,stop_gained,p.Ser1010Ter,ENST00000373644,;	G	ENSG00000138336	ENST00000373644	Transcript	stop_gained	3238	3029	1010	S/*	tCa/tGa	rs747672308	.	.	1	TET1	HGNC	29484	protein_coding	YES	CCDS7281.1	ENSP00000362748	TET1_HUMAN	.	UPI000013D114	.	.	.	4/12	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCAAATT	.	5	BLCA
TET1	0	.	GRCh37	10	70406450	70406450	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3964C>T	p.Gln1322Ter	p.Q1322*	ENST00000373644	4/12	63	55	8	60	60	0	TET1,stop_gained,p.Gln1322Ter,ENST00000373644,;	T	ENSG00000138336	ENST00000373644	Transcript	stop_gained	4173	3964	1322	Q/*	Cag/Tag	COSM1228955	.	.	1	TET1	HGNC	29484	protein_coding	YES	CCDS7281.1	ENSP00000362748	TET1_HUMAN	.	UPI000013D114	.	.	.	4/12	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTTTCAGCAG	.	4	BLCA
PPP1R3C	0	.	GRCh37	10	93389663	93389663	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*21G>A	.	.	ENST00000238994	2/2	27	22	5	24	24	0	PPP1R3C,3_prime_UTR_variant,,ENST00000238994,;	T	ENSG00000119938	ENST00000238994	Transcript	3_prime_UTR_variant	1060	.	.	.	.	.	.	.	-1	PPP1R3C	HGNC	9293	protein_coding	YES	CCDS7416.1	ENSP00000238994	PPR3C_HUMAN	B4DRR5_HUMAN	UPI000006EFF1	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAAGACCAGTT	.	2	BLCA
PI4K2A	0	.	GRCh37	10	99416706	99416706	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807G>T	p.%3D	p.V269V	ENST00000370649	5/10	44	34	10	63	63	0	PI4K2A,synonymous_variant,p.%3D,ENST00000370649,;PI4K2A,synonymous_variant,p.%3D,ENST00000555577,;PI4K2A,synonymous_variant,p.%3D,ENST00000370631,;	T	ENSG00000249967	ENST00000370649	Transcript	synonymous_variant	1137	807	269	V	gtG/gtT	.	.	.	1	PI4K2A	Uniprot_gn	30031	protein_coding	YES	.	ENSP00000359683	.	E9PAM4_HUMAN	UPI0001AE6D73	.	.	.	5/10	.	Pfam_domain:PF00454,hmmpanther:PTHR12865:SF4,hmmpanther:PTHR12865	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTGCTGGA	.	5	BLCA
C11orf1	0	.	GRCh37	11	111753253	111753253	+	Silent	SNP	G	G	C	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207G>C	p.%3D	p.L69L	ENST00000260276	2/4	32	21	11	30	30	0	C11orf1,synonymous_variant,p.%3D,ENST00000529270,;C11orf1,synonymous_variant,p.%3D,ENST00000260276,;C11orf1,synonymous_variant,p.%3D,ENST00000530799,;C11orf1,synonymous_variant,p.%3D,ENST00000530214,;C11orf1,synonymous_variant,p.%3D,ENST00000528125,;FDXACB1,upstream_gene_variant,,ENST00000528274,;FDXACB1,upstream_gene_variant,,ENST00000260257,;FDXACB1,upstream_gene_variant,,ENST00000542429,;ALG9,upstream_gene_variant,,ENST00000524880,;FDXACB1,upstream_gene_variant,,ENST00000531487,;	C	ENSG00000137720	ENST00000260276	Transcript	synonymous_variant	544	207	69	L	ctG/ctC	COSM1297651	.	.	1	C11orf1	HGNC	1163	protein_coding	YES	CCDS8350.1	ENSP00000260276	CK001_HUMAN	E9PLN1_HUMAN	UPI000004C5AE	.	.	.	2/4	.	Pfam_domain:PF06608	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTGATGGG	.	5	BLCA
OR52J3	0	.	GRCh37	11	5067999	5067999	+	Missense_Mutation	SNP	C	C	T	rs201482687	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244C>T	p.Arg82Cys	p.R82C	ENST00000380370	1/1	79	62	16	86	86	0	OR52J3,missense_variant,p.Arg82Cys,ENST00000380370,;	T	ENSG00000205495	ENST00000380370	Transcript	missense_variant	244	244	82	R/C	Cgc/Tgc	rs201482687,COSM367049	.	.	1	OR52J3	HGNC	14799	protein_coding	YES	CCDS31370.1	ENSP00000369728	O52J3_HUMAN	.	UPI0000046AE0	.	deleterious(0.01)	benign(0.052)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26450:SF9,hmmpanther:PTHR26450,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCTCGCATG	byCluster|by1000G	3	BLCA
SMTNL1	0	.	GRCh37	11	57311169	57311169	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859C>T	p.Pro287Ser	p.P287S	ENST00000457912	3/8	13	10	3	10	10	0	SMTNL1,missense_variant,p.Pro232Ser,ENST00000399154,;SMTNL1,missense_variant,p.Pro269Ser,ENST00000527972,;SMTNL1,missense_variant,p.Pro287Ser,ENST00000457912,;	T	ENSG00000214872	ENST00000457912	Transcript	missense_variant	859	859	287	P/S	Ccc/Tcc	.	.	.	1	SMTNL1	HGNC	32394	protein_coding	YES	.	ENSP00000406485	.	E9PPJ3_HUMAN,C9J621_HUMAN	UPI0000DD8085	.	deleterious(0.01)	probably_damaging(0.999)	3/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR25069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGATTCCCAGC	.	2	BLCA
FAM111A	0	.	GRCh37	11	58920671	58920671	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1530G>A	p.%3D	p.E510E	ENST00000528737	5/5	103	79	24	129	129	0	FAM111A,synonymous_variant,p.%3D,ENST00000361723,;FAM111A,synonymous_variant,p.%3D,ENST00000420244,;FAM111A,synonymous_variant,p.%3D,ENST00000528737,;FAM111A,synonymous_variant,p.%3D,ENST00000531147,;FAM111A,synonymous_variant,p.%3D,ENST00000533703,;FAM111A,downstream_gene_variant,,ENST00000531408,;FAM111A,downstream_gene_variant,,ENST00000527629,;FAM111A,downstream_gene_variant,,ENST00000529358,;FAM111A,downstream_gene_variant,,ENST00000532790,;	A	ENSG00000166801	ENST00000528737	Transcript	synonymous_variant	4348	1530	510	E	gaG/gaA	.	.	.	1	FAM111A	HGNC	24725	protein_coding	YES	CCDS7973.1	ENSP00000434435	F111A_HUMAN	E9PR18_HUMAN,E9PNQ0_HUMAN	UPI00001FA7CB	.	.	.	5/5	.	hmmpanther:PTHR14389:SF14,hmmpanther:PTHR14389,Pfam_domain:PF13365	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGAGTATGT	.	5	BLCA
MYRF	0	.	GRCh37	11	61539178	61539178	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.947G>A	p.Arg316His	p.R316H	ENST00000278836	6/27	107	95	11	113	113	0	MYRF,missense_variant,p.Arg316His,ENST00000278836,;MYRF,missense_variant,p.Arg307His,ENST00000265460,;MYRF,upstream_gene_variant,,ENST00000327797,;TMEM258,intron_variant,,ENST00000535042,;MYRF,downstream_gene_variant,,ENST00000537766,;	A	ENSG00000124920	ENST00000278836	Transcript	missense_variant	1043	947	316	R/H	cGt/cAt	COSM1509287	.	.	1	MYRF	HGNC	1181	protein_coding	YES	CCDS44622.1	ENSP00000278836	MRF_HUMAN	.	UPI0000D45F7B	.	deleterious(0.04)	probably_damaging(0.999)	6/27	.	hmmpanther:PTHR13029,hmmpanther:PTHR13029:SF16,PROSITE_profiles:PS51517	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCCGTGTCC	.	4	BLCA
CFL1	0	.	GRCh37	11	65623477	65623477	+	Silent	SNP	G	G	A	rs371721199	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240C>T	p.%3D	p.C80C	ENST00000525451	3/5	110	76	33	143	143	0	CFL1,synonymous_variant,p.%3D,ENST00000534769,;CFL1,synonymous_variant,p.%3D,ENST00000531407,;CFL1,synonymous_variant,p.%3D,ENST00000308162,;CFL1,synonymous_variant,p.%3D,ENST00000530413,;CFL1,synonymous_variant,p.%3D,ENST00000527344,;CFL1,synonymous_variant,p.%3D,ENST00000526975,;CFL1,synonymous_variant,p.%3D,ENST00000534784,;CFL1,synonymous_variant,p.%3D,ENST00000532134,;CFL1,synonymous_variant,p.%3D,ENST00000531413,;CFL1,synonymous_variant,p.%3D,ENST00000524553,;CFL1,synonymous_variant,p.%3D,ENST00000525451,;MUS81,upstream_gene_variant,,ENST00000533035,;MUS81,upstream_gene_variant,,ENST00000529857,;SNX32,downstream_gene_variant,,ENST00000308342,;MUS81,upstream_gene_variant,,ENST00000525768,;MUS81,upstream_gene_variant,,ENST00000308110,;CFL1,intron_variant,,ENST00000527752,;CFL1,non_coding_transcript_exon_variant,,ENST00000530945,;SNX32,intron_variant,,ENST00000530101,;SNX32,downstream_gene_variant,,ENST00000526972,;SNX32,downstream_gene_variant,,ENST00000533236,;MUS81,upstream_gene_variant,,ENST00000524647,;	A	ENSG00000172757	ENST00000525451	Transcript	synonymous_variant	956	240	80	C	tgC/tgT	rs371721199	.	.	-1	CFL1	HGNC	1874	protein_coding	YES	CCDS8114.1	ENSP00000432660	COF1_HUMAN	G3V1A4_HUMAN,E9PS23_HUMAN,E9PQB7_HUMAN,E9PP50_HUMAN,E9PLJ3_HUMAN	UPI0000127E2C	.	.	.	3/5	.	Prints_domain:PR00006,Superfamily_domains:SSF55753,SMART_domains:SM00102,Gene3D:3.40.20.10,Pfam_domain:PF00241,hmmpanther:PTHR11913:SF17,hmmpanther:PTHR11913,PROSITE_profiles:PS51263	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGCGGCAGTC	byFrequency|byCluster	5	BLCA
TPCN2	0	.	GRCh37	11	68822696	68822696	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305C>T	p.Pro102Leu	p.P102L	ENST00000294309	4/25	176	131	45	213	213	0	TPCN2,missense_variant,p.Pro102Leu,ENST00000542467,;TPCN2,missense_variant,p.Pro102Leu,ENST00000294309,;TPCN2,non_coding_transcript_exon_variant,,ENST00000442692,;TPCN2,downstream_gene_variant,,ENST00000534832,;TPCN2,intron_variant,,ENST00000535009,;	T	ENSG00000162341	ENST00000294309	Transcript	missense_variant	406	305	102	P/L	cCa/cTa	.	.	.	1	TPCN2	HGNC	20820	protein_coding	YES	CCDS8189.1	ENSP00000294309	TPC2_HUMAN	.	UPI000013E149	.	deleterious(0)	probably_damaging(1)	4/25	.	Superfamily_domains:SSF81324,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF175	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCCCATCCT	.	5	BLCA
TMEM126B	0	.	GRCh37	11	85346929	85346929	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509+107G>C	.	.	ENST00000358867	.	14	9	4	18	18	0	TMEM126B,3_prime_UTR_variant,,ENST00000534341,;TMEM126B,intron_variant,,ENST00000393375,;TMEM126B,intron_variant,,ENST00000531274,;TMEM126B,intron_variant,,ENST00000358867,;TMEM126B,intron_variant,,ENST00000529197,;TMEM126B,intron_variant,,ENST00000526822,;TMEM126B,intron_variant,,ENST00000530783,;TMEM126B,intron_variant,,ENST00000531477,;TMEM126B,downstream_gene_variant,,ENST00000530901,;TMEM126B,downstream_gene_variant,,ENST00000531718,;TMEM126B,downstream_gene_variant,,ENST00000528361,;	C	ENSG00000171204	ENST00000358867	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	TMEM126B	HGNC	30883	protein_coding	YES	CCDS8267.2	ENSP00000351737	T126B_HUMAN	.	UPI00003D5F21	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTTGAATCA	.	5	BLCA
FAM76B	0	.	GRCh37	11	95504794	95504794	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.951C>G	p.%3D	p.L317L	ENST00000358780	10/10	70	49	21	84	84	0	FAM76B,synonymous_variant,p.%3D,ENST00000536839,;FAM76B,synonymous_variant,p.%3D,ENST00000358780,;FAM76B,3_prime_UTR_variant,,ENST00000543641,;FAM76B,3_prime_UTR_variant,,ENST00000398187,;FAM76B,non_coding_transcript_exon_variant,,ENST00000545813,;FAM76B,downstream_gene_variant,,ENST00000541418,;	C	ENSG00000077458	ENST00000358780	Transcript	synonymous_variant	1264	951	317	L	ctC/ctG	.	.	.	-1	FAM76B	HGNC	28492	protein_coding	YES	CCDS41700.1	ENSP00000351631	FA76B_HUMAN	.	UPI0000D62675	.	.	.	10/10	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22875:SF9,hmmpanther:PTHR22875	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTGAGTAG	.	5	BLCA
GLTP	0	.	GRCh37	12	110318125	110318125	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.55G>A	p.Glu19Lys	p.E19K	ENST00000318348	1/5	23	19	4	23	23	0	GLTP,missense_variant,p.Glu19Lys,ENST00000544393,;GLTP,missense_variant,p.Glu19Lys,ENST00000318348,;GLTP,missense_variant,p.Arg3Gln,ENST00000540772,;RP1-7G5.6,upstream_gene_variant,,ENST00000446473,;GLTP,missense_variant,p.Glu19Lys,ENST00000537066,;GLTP,missense_variant,p.Glu19Lys,ENST00000536390,;	T	ENSG00000139433	ENST00000318348	Transcript	missense_variant	169	55	19	E/K	Gag/Aag	.	.	.	-1	GLTP	HGNC	24867	protein_coding	YES	CCDS9136.1	ENSP00000315263	GLTP_HUMAN	E7CEM8_HUMAN	UPI00001402D4	.	tolerated(0.28)	benign(0.014)	1/5	.	hmmpanther:PTHR10219,hmmpanther:PTHR10219:SF29,Pfam_domain:PF08718,Gene3D:2i3fA00,Superfamily_domains:0043785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTCGATCT	.	4	BLCA
LRP6	0	.	GRCh37	12	12301926	12301926	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3156G>C	p.%3D	p.L1052L	ENST00000261349	14/23	146	105	40	175	174	0	LRP6,synonymous_variant,p.%3D,ENST00000543091,;LRP6,synonymous_variant,p.%3D,ENST00000261349,;LRP6,synonymous_variant,p.%3D,ENST00000538239,;BCL2L14,intron_variant,,ENST00000298566,;	G	ENSG00000070018	ENST00000261349	Transcript	synonymous_variant	3233	3156	1052	L	ctG/ctC	.	.	.	-1	LRP6	HGNC	6698	protein_coding	YES	CCDS8647.1	ENSP00000261349	LRP6_HUMAN	F5H0Z3_HUMAN,B3KQA9_HUMAN	UPI00001FB66C	.	.	.	14/23	.	Superfamily_domains:SSF63825,SMART_domains:SM00135,PIRSF_domain:PIRSF036314,Gene3D:2.120.10.30,hmmpanther:PTHR10529:SF109,hmmpanther:PTHR10529,PROSITE_profiles:PS51120	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAGCAC	.	5	BLCA
HCAR2	0	.	GRCh37	12	123186580	123186580	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*159G>C	.	.	ENST00000328880	1/1	26	14	11	36	36	0	HCAR2,3_prime_UTR_variant,,ENST00000328880,;HCAR1,intron_variant,,ENST00000356987,;RP11-324E6.6,intron_variant,,ENST00000543611,;	G	ENSG00000182782	ENST00000328880	Transcript	3_prime_UTR_variant	1311	.	.	.	.	.	.	.	-1	HCAR2	HGNC	24827	protein_coding	YES	CCDS9235.1	ENSP00000375066	HCAR2_HUMAN	.	UPI000003BCD5	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTCCCACT	.	5	BLCA
NCOR2	0	.	GRCh37	12	124821405	124821405	+	Silent	SNP	G	G	A	rs377215571	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6009C>T	p.%3D	p.H2003H	ENST00000405201	38/47	31	27	3	38	38	0	NCOR2,synonymous_variant,p.%3D,ENST00000356219,;NCOR2,synonymous_variant,p.%3D,ENST00000404121,;NCOR2,synonymous_variant,p.%3D,ENST00000429285,;NCOR2,synonymous_variant,p.%3D,ENST00000405201,;NCOR2,synonymous_variant,p.%3D,ENST00000404621,;NCOR2,synonymous_variant,p.%3D,ENST00000397355,;NCOR2,downstream_gene_variant,,ENST00000453428,;NCOR2,downstream_gene_variant,,ENST00000440187,;NCOR2,upstream_gene_variant,,ENST00000418829,;NCOR2,upstream_gene_variant,,ENST00000443451,;NCOR2,upstream_gene_variant,,ENST00000440337,;NCOR2,upstream_gene_variant,,ENST00000474079,;NCOR2,upstream_gene_variant,,ENST00000461081,;	A	ENSG00000196498	ENST00000405201	Transcript	synonymous_variant	6010	6009	2003	H	caC/caT	rs377215571	.	.	-1	NCOR2	HGNC	7673	protein_coding	YES	CCDS41858.2	ENSP00000384018	.	C9JFD3_HUMAN,C9J330_HUMAN	UPI000013D737	.	.	.	38/47	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13992:SF21,hmmpanther:PTHR13992	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGCGTGGTG	byCluster|by1000G	2	BLCA
TMTC1	0	.	GRCh37	12	29911635	29911635	+	Splice_Site	SNP	A	A	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.554+2T>A	.	p.X185_splice	ENST00000539277	.	23	20	3	33	33	0	TMTC1,splice_donor_variant,,ENST00000256062,;TMTC1,splice_donor_variant,,ENST00000381224,;TMTC1,splice_donor_variant,,ENST00000551659,;TMTC1,splice_donor_variant,,ENST00000539277,;TMTC1,splice_donor_variant,,ENST00000552618,;TMTC1,splice_donor_variant,,ENST00000553189,;	T	ENSG00000133687	ENST00000539277	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	TMTC1	HGNC	24099	protein_coding	YES	CCDS53772.1	ENSP00000442046	TMTC1_HUMAN	B3KVW1_HUMAN	UPI0001DD37FA	.	.	.	.	3/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACATACCTGT	.	4	BLCA
ARID2	0	.	GRCh37	12	46230579	46230579	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.828G>A	p.%3D	p.L276L	ENST00000334344	8/21	80	57	23	105	105	0	ARID2,synonymous_variant,p.%3D,ENST00000334344,;ARID2,synonymous_variant,p.%3D,ENST00000422737,;ARID2,upstream_gene_variant,,ENST00000444670,;ARID2,non_coding_transcript_exon_variant,,ENST00000479608,;ARID2,upstream_gene_variant,,ENST00000480128,;	A	ENSG00000189079	ENST00000334344	Transcript	synonymous_variant	1000	828	276	L	ctG/ctA	.	.	.	1	ARID2	HGNC	18037	protein_coding	YES	CCDS31783.1	ENSP00000335044	ARID2_HUMAN	Q96SQ4_HUMAN,F8WCU9_HUMAN	UPI00001D7973	.	.	.	8/21	.	hmmpanther:PTHR22970:SF14,hmmpanther:PTHR22970,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R274*|c.820C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTGGGCAT	.	5	BLCA
ARID2	0	.	GRCh37	12	46298726	46298726	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5373G>A	p.%3D	p.K1791K	ENST00000334344	21/21	32	26	5	38	38	0	ARID2,synonymous_variant,p.%3D,ENST00000334344,;ARID2,synonymous_variant,p.%3D,ENST00000444670,;ARID2,3_prime_UTR_variant,,ENST00000457135,;ARID2,non_coding_transcript_exon_variant,,ENST00000479608,;	A	ENSG00000189079	ENST00000334344	Transcript	synonymous_variant	5545	5373	1791	K	aaG/aaA	.	.	.	1	ARID2	HGNC	18037	protein_coding	YES	CCDS31783.1	ENSP00000335044	ARID2_HUMAN	Q96SQ4_HUMAN,F8WCU9_HUMAN	UPI00001D7973	.	.	.	21/21	.	hmmpanther:PTHR22970:SF14,hmmpanther:PTHR22970	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTAAAGAGACA	.	3	BLCA
ARID2	0	.	GRCh37	12	46298733	46298733	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5380G>T	p.Glu1794Ter	p.E1794*	ENST00000334344	21/21	35	29	6	39	39	0	ARID2,stop_gained,p.Glu1794Ter,ENST00000334344,;ARID2,stop_gained,p.Glu1404Ter,ENST00000444670,;ARID2,3_prime_UTR_variant,,ENST00000457135,;ARID2,non_coding_transcript_exon_variant,,ENST00000479608,;	T	ENSG00000189079	ENST00000334344	Transcript	stop_gained	5552	5380	1794	E/*	Gaa/Taa	COSM3460987	.	.	1	ARID2	HGNC	18037	protein_coding	YES	CCDS31783.1	ENSP00000335044	ARID2_HUMAN	Q96SQ4_HUMAN,F8WCU9_HUMAN	UPI00001D7973	.	.	.	21/21	.	hmmpanther:PTHR22970:SF14,hmmpanther:PTHR22970	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACATGAAAAT	.	3	BLCA
H1FNT	0	.	GRCh37	12	48723425	48723425	+	Silent	SNP	C	C	T	rs372377328	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351C>T	p.%3D	p.A117A	ENST00000335017	1/1	18	14	4	11	11	0	H1FNT,synonymous_variant,p.%3D,ENST00000335017,;RP11-370I10.4,downstream_gene_variant,,ENST00000549699,;	T	ENSG00000187166	ENST00000335017	Transcript	synonymous_variant	663	351	117	A	gcC/gcT	rs372377328	.	.	1	H1FNT	HGNC	24893	protein_coding	YES	CCDS8762.1	ENSP00000334805	H1FNT_HUMAN	.	UPI00001AA15C	.	.	.	1/1	.	hmmpanther:PTHR11467:SF14,hmmpanther:PTHR11467	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCGCCGGCTA	byCluster	5	BLCA
ERBB3	0	.	GRCh37	12	56488228	56488228	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1747C>T	p.Pro583Ser	p.P583S	ENST00000267101	15/28	104	87	16	153	153	0	ERBB3,missense_variant,p.Pro524Ser,ENST00000415288,;ERBB3,missense_variant,p.Pro583Ser,ENST00000267101,;ERBB3,missense_variant,p.Pro67Ser,ENST00000550070,;ERBB3,intron_variant,,ENST00000450146,;ERBB3,upstream_gene_variant,,ENST00000553131,;ERBB3,upstream_gene_variant,,ENST00000549832,;ERBB3,missense_variant,p.Pro583Ser,ENST00000551085,;ERBB3,non_coding_transcript_exon_variant,,ENST00000549205,;ERBB3,intron_variant,,ENST00000550869,;ERBB3,intron_variant,,ENST00000551242,;ERBB3,upstream_gene_variant,,ENST00000549644,;ERBB3,downstream_gene_variant,,ENST00000550828,;ERBB3,upstream_gene_variant,,ENST00000548709,;	T	ENSG00000065361	ENST00000267101	Transcript	missense_variant	2187	1747	583	P/S	Ccc/Tcc	COSM3812528,COSM3812527	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	deleterious(0.03)	probably_damaging(0.917)	15/28	.	hmmpanther:PTHR24416:SF88,hmmpanther:PTHR24416,Gene3D:2.10.220.10,Pfam_domain:PF14843,SMART_domains:SM00261,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGGGCCCCAC	.	4	BLCA
STAT2	0	.	GRCh37	12	56737115	56737115	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*58G>A	.	.	ENST00000314128	24/24	19	13	6	19	19	0	STAT2,3_prime_UTR_variant,,ENST00000557235,;STAT2,3_prime_UTR_variant,,ENST00000314128,;IL23A,downstream_gene_variant,,ENST00000228534,;STAT2,non_coding_transcript_exon_variant,,ENST00000556539,;STAT2,downstream_gene_variant,,ENST00000555488,;STAT2,downstream_gene_variant,,ENST00000557199,;	T	ENSG00000170581	ENST00000314128	Transcript	3_prime_UTR_variant	2638	.	.	.	.	.	.	.	-1	STAT2	HGNC	11363	protein_coding	YES	CCDS8917.1	ENSP00000315768	STAT2_HUMAN	R9QG81_HUMAN,R9QE65_HUMAN,Q6LD48_HUMAN	UPI00000473FC	.	.	.	24/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATCATGCT	.	5	BLCA
ANO2	0	.	GRCh37	12	6030527	6030527	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201C>G	p.Ile67Met	p.I67M	ENST00000327087	3/26	34	20	14	39	39	0	ANO2,missense_variant,p.Ile67Met,ENST00000327087,;ANO2,missense_variant,p.Ile67Met,ENST00000546188,;ANO2,missense_variant,p.Ile67Met,ENST00000356134,;	C	ENSG00000047617	ENST00000327087	Transcript	missense_variant	273	201	67	I/M	atC/atG	.	.	.	-1	ANO2	HGNC	1183	protein_coding	YES	.	ENSP00000314048	ANO2_HUMAN	Q69YW4_HUMAN	UPI0001823FDD	.	deleterious_low_confidence(0.01)	possibly_damaging(0.831)	3/26	.	hmmpanther:PTHR12308:SF20,hmmpanther:PTHR12308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTTGATGAC	.	5	BLCA
PPM1H	0	.	GRCh37	12	63195765	63195765	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.587C>G	p.Pro196Arg	p.P196R	ENST00000228705	3/10	73	59	13	98	98	0	PPM1H,missense_variant,p.Pro196Arg,ENST00000228705,;PPM1H,non_coding_transcript_exon_variant,,ENST00000548414,;PPM1H,non_coding_transcript_exon_variant,,ENST00000547857,;	C	ENSG00000111110	ENST00000228705	Transcript	missense_variant	888	587	196	P/R	cCt/cGt	.	.	.	-1	PPM1H	HGNC	18583	protein_coding	YES	CCDS44934.1	ENSP00000228705	PPM1H_HUMAN	.	UPI00000557DD	.	tolerated(0.23)	benign(0.312)	3/10	.	hmmpanther:PTHR13832,hmmpanther:PTHR13832:SF214,SMART_domains:SM00332	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCAGGCTCC	.	5	BLCA
IFT88	0	.	GRCh37	13	21265282	21265282	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2470G>T	p.Glu824Ter	p.E824*	ENST00000319980	28/28	66	47	18	74	74	0	IFT88,stop_gained,p.Glu824Ter,ENST00000319980,;IFT88,stop_gained,p.Glu815Ter,ENST00000351808,;IFT88,stop_gained,p.Glu796Ter,ENST00000537103,;IFT88,3_prime_UTR_variant,,ENST00000382778,;IFT88,non_coding_transcript_exon_variant,,ENST00000482172,;	T	ENSG00000032742	ENST00000319980	Transcript	stop_gained	2797	2470	824	E/*	Gaa/Taa	COSM175667	.	.	1	IFT88	HGNC	20606	protein_coding	YES	CCDS31944.1	ENSP00000323580	IFT88_HUMAN	F6SRW8_HUMAN	UPI0000160108	.	.	.	28/28	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGATGAAGAA	.	5	BLCA
ATP12A	0	.	GRCh37	13	25274889	25274889	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1728C>T	p.%3D	p.F576F	ENST00000218548	13/23	47	29	18	48	48	0	ATP12A,synonymous_variant,p.%3D,ENST00000218548,;ATP12A,synonymous_variant,p.%3D,ENST00000381946,;RNY1P7,downstream_gene_variant,,ENST00000384743,;RPL26P34,downstream_gene_variant,,ENST00000431005,;	T	ENSG00000075673	ENST00000218548	Transcript	synonymous_variant	2061	1728	576	F	ttC/ttT	.	.	.	1	ATP12A	HGNC	13816	protein_coding	YES	CCDS53858.1	ENSP00000218548	AT12A_HUMAN	.	UPI000006D1DE	.	.	.	13/23	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF282,Pfam_domain:PF00702,Gene3D:3.40.1110.10,TIGRFAM_domain:TIGR01106,Superfamily_domains:SSF81660	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTTCTGTCA	.	5	BLCA
SLAIN1	0	.	GRCh37	13	78335205	78335205	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165A>G	p.Ser389Gly	p.S389G	ENST00000488699	6/7	52	32	20	66	66	0	SLAIN1,missense_variant,p.Ser531Gly,ENST00000466548,;SLAIN1,missense_variant,p.Ser154Gly,ENST00000314070,;SLAIN1,missense_variant,p.Ser389Gly,ENST00000488699,;SLAIN1,missense_variant,p.Ser268Gly,ENST00000351546,;SLAIN1,missense_variant,p.Ser268Gly,ENST00000358679,;SLAIN1,missense_variant,p.Ser312Gly,ENST00000267219,;SLAIN1,missense_variant,p.Ser312Gly,ENST00000418532,;SLAIN1,downstream_gene_variant,,ENST00000441784,;	G	ENSG00000139737	ENST00000488699	Transcript	missense_variant	1208	1165	389	S/G	Agt/Ggt	.	.	.	1	SLAIN1	HGNC	26387	protein_coding	YES	CCDS31995.2	ENSP00000418707	SLAI1_HUMAN	Q5T6P2_HUMAN,C9JUW9_HUMAN,C9JP03_HUMAN	UPI0001914D54	.	tolerated(0.28)	benign(0.139)	6/7	.	hmmpanther:PTHR22406,hmmpanther:PTHR22406:SF2,Pfam_domain:PF15301	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGGAGTAAC	.	5	BLCA
TECPR2	0	.	GRCh37	14	102931587	102931587	+	Silent	SNP	C	C	T	rs767100178	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3750C>T	p.%3D	p.L1250L	ENST00000359520	17/20	46	35	11	79	79	0	TECPR2,synonymous_variant,p.%3D,ENST00000359520,;TECPR2,synonymous_variant,p.%3D,ENST00000558678,;	T	ENSG00000196663	ENST00000359520	Transcript	synonymous_variant	3976	3750	1250	L	ctC/ctT	rs767100178	.	.	1	TECPR2	HGNC	19957	protein_coding	YES	CCDS32162.1	ENSP00000352510	TCPR2_HUMAN	.	UPI00001FDC38	.	.	.	17/20	.	Superfamily_domains:SSF50985,Pfam_domain:PF06462,hmmpanther:PTHR23287:SF16,hmmpanther:PTHR23287	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTCATGCT	.	5	BLCA
AHNAK2	0	.	GRCh37	14	105413205	105413205	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8583C>T	p.%3D	p.I2861I	ENST00000333244	7/7	172	154	18	267	267	0	AHNAK2,synonymous_variant,p.%3D,ENST00000333244,;AHNAK2,intron_variant,,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	A	ENSG00000185567	ENST00000333244	Transcript	synonymous_variant	8703	8583	2861	I	atC/atT	.	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	.	7/7	.	hmmpanther:PTHR23348:SF37,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGCGGATGTC	.	3	BLCA
SALL2	0	.	GRCh37	14	21991188	21991188	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2674G>C	p.Glu892Gln	p.E892Q	ENST00000327430	2/2	37	34	3	53	53	0	SALL2,missense_variant,p.Glu755Gln,ENST00000450879,;SALL2,missense_variant,p.Glu892Gln,ENST00000327430,;SALL2,missense_variant,p.Glu751Gln,ENST00000546363,;SALL2,intron_variant,,ENST00000538754,;SALL2,intron_variant,,ENST00000317492,;SALL2,downstream_gene_variant,,ENST00000537235,;SALL2,downstream_gene_variant,,ENST00000541965,;AE000658.22,downstream_gene_variant,,ENST00000535893,;	G	ENSG00000165821	ENST00000327430	Transcript	missense_variant	2969	2674	892	E/Q	Gag/Cag	.	.	.	-1	SALL2	HGNC	10526	protein_coding	YES	CCDS32045.1	ENSP00000333537	SALL2_HUMAN	F5H1G6_HUMAN	UPI00001AF54D	.	tolerated(0.14)	probably_damaging(0.993)	2/2	.	hmmpanther:PTHR23233:SF15,hmmpanther:PTHR23233	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCTACCA	.	2	BLCA
TRAV17	0	.	GRCh37	14	22465850	22465850	+	5'UTR	SNP	A	A	G	rs565706658	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-75A>G	.	.	ENST00000390445	1/2	10	7	3	12	12	0	TRAV17,5_prime_UTR_variant,,ENST00000390445,;	G	ENSG00000211797	ENST00000390445	Transcript	5_prime_UTR_variant	73	.	.	.	.	rs565706658	.	.	1	TRAV17	HGNC	12113	TR_V_gene	YES	.	ENSP00000452087	.	.	UPI000011D121	.	.	.	1/2	.	.	G:0.0002	G:0	G:0.0014	.	G:0	G:0	G:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCCAGTAAA	by1000G	2	BLCA
PSME2	0	.	GRCh37	14	24614967	24614967	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96C>G	p.%3D	p.L32L	ENST00000216802	3/11	37	21	15	50	50	0	PSME2,synonymous_variant,p.%3D,ENST00000216802,;PSME2,synonymous_variant,p.%3D,ENST00000560410,;PSME2,5_prime_UTR_variant,,ENST00000559056,;RNF31,upstream_gene_variant,,ENST00000557991,;RNF31,upstream_gene_variant,,ENST00000559533,;RNF31,upstream_gene_variant,,ENST00000560787,;RNF31,upstream_gene_variant,,ENST00000560071,;RNF31,upstream_gene_variant,,ENST00000560875,;EMC9,upstream_gene_variant,,ENST00000216799,;EMC9,upstream_gene_variant,,ENST00000560403,;RNF31,upstream_gene_variant,,ENST00000324103,;RNF31,upstream_gene_variant,,ENST00000382687,;EMC9,upstream_gene_variant,,ENST00000419198,;RNF31,upstream_gene_variant,,ENST00000559308,;RNF31,upstream_gene_variant,,ENST00000559275,;RNF31,upstream_gene_variant,,ENST00000559260,;PSME2,non_coding_transcript_exon_variant,,ENST00000471700,;PSME2,non_coding_transcript_exon_variant,,ENST00000559613,;EMC9,upstream_gene_variant,,ENST00000558200,;RNF31,upstream_gene_variant,,ENST00000558634,;RNF31,upstream_gene_variant,,ENST00000559438,;PSME2,downstream_gene_variant,,ENST00000561103,;RNF31,upstream_gene_variant,,ENST00000559882,;RNF31,upstream_gene_variant,,ENST00000559583,;RNF31,upstream_gene_variant,,ENST00000557878,;PSME2,splice_region_variant,,ENST00000560370,;PSME2,3_prime_UTR_variant,,ENST00000558273,;PSME2,non_coding_transcript_exon_variant,,ENST00000560788,;PSME2,non_coding_transcript_exon_variant,,ENST00000559453,;PSME2,non_coding_transcript_exon_variant,,ENST00000559493,;PSME2,non_coding_transcript_exon_variant,,ENST00000558931,;PSME2,non_coding_transcript_exon_variant,,ENST00000560592,;PSME2,upstream_gene_variant,,ENST00000559042,;RNF31,upstream_gene_variant,,ENST00000491351,;PSME2,upstream_gene_variant,,ENST00000559005,;PSME2,upstream_gene_variant,,ENST00000559359,;RNF31,upstream_gene_variant,,ENST00000558907,;RNF31,upstream_gene_variant,,ENST00000560342,;EMC9,upstream_gene_variant,,ENST00000560600,;	C	ENSG00000100911	ENST00000216802	Transcript	synonymous_variant	736	96	32	L	ctC/ctG	.	.	.	-1	PSME2	HGNC	9569	protein_coding	YES	CCDS9614.1	ENSP00000216802	PSME2_HUMAN	Q86SZ7_HUMAN,H0YKU2_HUMAN	UPI000000CC17	.	.	.	3/11	.	Superfamily_domains:SSF47216,Gene3D:1avoA00,Pfam_domain:PF02251,hmmpanther:PTHR10660:SF6,hmmpanther:PTHR10660	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTAGAGGAA	.	5	BLCA
NPAS3	0	.	GRCh37	14	34268993	34268993	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1480G>A	p.Glu494Lys	p.E494K	ENST00000356141	12/12	10	7	3	19	19	0	NPAS3,missense_variant,p.Glu464Lys,ENST00000548645,;NPAS3,missense_variant,p.Glu499Lys,ENST00000551492,;NPAS3,missense_variant,p.Glu468Lys,ENST00000551634,;NPAS3,missense_variant,p.Glu462Lys,ENST00000346562,;NPAS3,missense_variant,p.Glu481Lys,ENST00000357798,;NPAS3,missense_variant,p.Glu494Lys,ENST00000356141,;	A	ENSG00000151322	ENST00000356141	Transcript	missense_variant	1480	1480	494	E/K	Gaa/Aaa	.	.	.	1	NPAS3	HGNC	19311	protein_coding	YES	CCDS53891.1	ENSP00000348460	NPAS3_HUMAN	.	UPI00000743C2	.	tolerated(0.13)	benign(0.221)	12/12	.	hmmpanther:PTHR23043:SF21,hmmpanther:PTHR23043	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGCGAAGAC	.	2	BLCA
SNX6	0	.	GRCh37	14	35062350	35062350	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>C	p.Asp219His	p.D219H	ENST00000362031	8/14	76	52	23	81	81	0	SNX6,missense_variant,p.Asp219His,ENST00000362031,;SNX6,missense_variant,p.Asp91His,ENST00000396534,;SNX6,missense_variant,p.Asp182His,ENST00000557265,;SNX6,missense_variant,p.Asp95His,ENST00000355110,;SNX6,missense_variant,p.Asp91His,ENST00000396526,;SNX6,3_prime_UTR_variant,,ENST00000556712,;SNX6,3_prime_UTR_variant,,ENST00000556162,;SNX6,3_prime_UTR_variant,,ENST00000555416,;	G	ENSG00000129515	ENST00000362031	Transcript	missense_variant	686	655	219	D/H	Gat/Cat	.	.	.	-1	SNX6	HGNC	14970	protein_coding	YES	CCDS41942.1	ENSP00000355217	.	Q5QTQ6_HUMAN	UPI00006AB832	.	deleterious(0)	possibly_damaging(0.694)	8/14	.	hmmpanther:PTHR10555,hmmpanther:PTHR10555:SF120,Pfam_domain:PF09325,PIRSF_domain:PIRSF036924,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCTACAT	.	5	BLCA
RDH11	0	.	GRCh37	14	68157903	68157903	+	Silent	SNP	C	C	T	rs17853736	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.408G>A	p.%3D	p.S136S	ENST00000381346	4/7	168	114	54	209	209	0	RDH11,synonymous_variant,p.%3D,ENST00000553384,;RDH11,synonymous_variant,p.%3D,ENST00000554035,;RDH11,synonymous_variant,p.%3D,ENST00000557726,;RDH11,synonymous_variant,p.%3D,ENST00000428130,;RDH11,synonymous_variant,p.%3D,ENST00000381346,;RDH11,intron_variant,,ENST00000557273,;RP11-1012A1.4,upstream_gene_variant,,ENST00000557564,;RP11-1012A1.4,upstream_gene_variant,,ENST00000554493,;RDH11,3_prime_UTR_variant,,ENST00000557331,;RDH11,non_coding_transcript_exon_variant,,ENST00000553578,;RDH11,non_coding_transcript_exon_variant,,ENST00000553816,;RDH11,intron_variant,,ENST00000554731,;RDH11,downstream_gene_variant,,ENST00000556692,;RP11-1012A1.4,upstream_gene_variant,,ENST00000553582,;RP11-1012A1.4,upstream_gene_variant,,ENST00000553306,;	T	ENSG00000072042	ENST00000381346	Transcript	synonymous_variant	519	408	136	S	tcG/tcA	rs17853736	.	.	-1	RDH11	HGNC	17964	protein_coding	YES	CCDS32104.1	ENSP00000370750	RDH11_HUMAN	Q0QD40_HUMAN,B3KQ19_HUMAN	UPI0000039842	.	.	.	4/7	.	hmmpanther:PTHR24316,hmmpanther:PTHR24316:SF300,Gene3D:3.40.50.720,Pfam_domain:PF00106,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCGAGTA	byFrequency	5	BLCA
TRPM1	0	.	GRCh37	15	31360178	31360178	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.448G>C	p.Glu150Gln	p.E150Q	ENST00000542188	4/27	110	80	29	132	132	0	TRPM1,missense_variant,p.Glu111Gln,ENST00000558445,;TRPM1,missense_variant,p.Glu150Gln,ENST00000542188,;TRPM1,missense_variant,p.Glu41Gln,ENST00000558768,;TRPM1,missense_variant,p.Glu133Gln,ENST00000256552,;TRPM1,missense_variant,p.Glu111Gln,ENST00000397795,;TRPM1,missense_variant,p.Glu111Gln,ENST00000559177,;TRPM1,downstream_gene_variant,,ENST00000559179,;MIR211,upstream_gene_variant,,ENST00000384969,;TRPM1,missense_variant,p.Glu41Gln,ENST00000560801,;TRPM1,missense_variant,p.Glu111Gln,ENST00000560658,;	G	ENSG00000134160	ENST00000542188	Transcript	missense_variant	762	448	150	E/Q	Gag/Cag	.	.	.	-1	TRPM1	HGNC	7146	protein_coding	YES	CCDS58347.1	ENSP00000437849	TRPM1_HUMAN	H0YKU7_HUMAN	UPI0001DBB3A9	.	tolerated(0.1)	benign(0.068)	4/27	.	hmmpanther:PTHR13800,hmmpanther:PTHR13800:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCAAAGT	.	5	BLCA
PLCB2	0	.	GRCh37	15	40594234	40594234	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507-1G>A	.	p.X169_splice	ENST00000260402	.	41	30	10	49	49	0	PLCB2,splice_acceptor_variant,,ENST00000543785,;PLCB2,splice_acceptor_variant,,ENST00000260402,;PLCB2,splice_acceptor_variant,,ENST00000557821,;PLCB2,splice_acceptor_variant,,ENST00000456256,;PLCB2-AS1,downstream_gene_variant,,ENST00000559520,;PLCB2,splice_acceptor_variant,,ENST00000558588,;PLCB2,downstream_gene_variant,,ENST00000559634,;PLCB2,upstream_gene_variant,,ENST00000560093,;PLCB2,upstream_gene_variant,,ENST00000558409,;	T	ENSG00000137841	ENST00000260402	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	PLCB2	HGNC	9055	protein_coding	YES	CCDS42020.1	ENSP00000260402	PLCB2_HUMAN	H0YNI4_HUMAN	UPI0000D79B75	.	.	.	.	6/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAAGCTGAAG	.	5	BLCA
DUOX1	0	.	GRCh37	15	45442897	45442897	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2886C>G	p.Ile962Met	p.I962M	ENST00000321429	23/35	22	14	8	42	42	0	DUOX1,missense_variant,p.Ile962Met,ENST00000389037,;DUOX1,missense_variant,p.Ile608Met,ENST00000561166,;DUOX1,missense_variant,p.Ile962Met,ENST00000321429,;CTD-2651B20.1,downstream_gene_variant,,ENST00000558039,;DUOX1,upstream_gene_variant,,ENST00000559221,;DUOX1,splice_region_variant,,ENST00000561220,;DUOX1,splice_region_variant,,ENST00000557893,;DUOX1,splice_region_variant,,ENST00000558446,;DUOX1,upstream_gene_variant,,ENST00000558744,;DUOX1,downstream_gene_variant,,ENST00000559219,;DUOX1,upstream_gene_variant,,ENST00000559716,;	G	ENSG00000137857	ENST00000321429	Transcript	missense_variant	3293	2886	962	I/M	atC/atG	COSM79761	.	.	1	DUOX1	HGNC	3062	protein_coding	YES	CCDS32221.1	ENSP00000317997	DUOX1_HUMAN	H0YNR5_HUMAN	UPI000006E50E	.	tolerated(0.27)	benign(0.007)	23/35	.	hmmpanther:PTHR11972,hmmpanther:PTHR11972:SF37	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATCTGGTG	.	5	BLCA
SLC30A4	0	.	GRCh37	15	45814199	45814199	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.354C>G	p.%3D	p.A118A	ENST00000261867	2/8	58	37	21	55	55	0	SLC30A4,synonymous_variant,p.%3D,ENST00000261867,;SLC30A4,non_coding_transcript_exon_variant,,ENST00000559667,;HMGN2P46,non_coding_transcript_exon_variant,,ENST00000568669,;HMGN2P46,intron_variant,,ENST00000409454,;HMGN2P46,intron_variant,,ENST00000396644,;HMGN2P46,intron_variant,,ENST00000396645,;HMGN2P46,intron_variant,,ENST00000313559,;HMGN2P46,downstream_gene_variant,,ENST00000495658,;	C	ENSG00000104154	ENST00000261867	Transcript	synonymous_variant	669	354	118	A	gcC/gcG	.	.	.	-1	SLC30A4	HGNC	11015	protein_coding	YES	CCDS10125.1	ENSP00000261867	ZNT4_HUMAN	.	UPI00000526F2	.	.	.	2/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11562,hmmpanther:PTHR11562:SF34,Gene3D:3h90A01,Pfam_domain:PF01545,TIGRFAM_domain:TIGR01297,Superfamily_domains:0054606	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAACGGCAGC	.	5	BLCA
TRPM7	0	.	GRCh37	15	50902041	50902041	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2398G>A	p.Glu800Lys	p.E800K	ENST00000313478	18/39	81	62	18	104	104	0	TRPM7,missense_variant,p.Glu800Lys,ENST00000560955,;TRPM7,missense_variant,p.Glu337Lys,ENST00000560638,;TRPM7,missense_variant,p.Glu800Lys,ENST00000313478,;	T	ENSG00000092439	ENST00000313478	Transcript	missense_variant	2680	2398	800	E/K	Gaa/Aaa	COSM962607	.	.	-1	TRPM7	HGNC	17994	protein_coding	YES	CCDS42035.1	ENSP00000320239	TRPM7_HUMAN	.	UPI0000071CBA	.	tolerated(0.22)	possibly_damaging(0.614)	18/39	.	hmmpanther:PTHR13800:SF8,hmmpanther:PTHR13800	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.E800K|c.2398G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTTTCGCTGT	.	5	BLCA
WDR72	0	.	GRCh37	15	53908364	53908364	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2039A>T	p.His680Leu	p.H680L	ENST00000396328	15/20	72	57	15	73	73	0	WDR72,missense_variant,p.His680Leu,ENST00000560036,;WDR72,missense_variant,p.His690Leu,ENST00000559418,;WDR72,missense_variant,p.His677Leu,ENST00000557913,;WDR72,missense_variant,p.His680Leu,ENST00000396328,;WDR72,missense_variant,p.His680Leu,ENST00000360509,;	A	ENSG00000166415	ENST00000396328	Transcript	missense_variant	2279	2039	680	H/L	cAt/cTt	.	.	.	-1	WDR72	HGNC	26790	protein_coding	YES	CCDS10151.1	ENSP00000379619	WDR72_HUMAN	H0YN02_HUMAN	UPI00001D777D	.	deleterious(0)	possibly_damaging(0.842)	15/20	.	hmmpanther:PTHR12816:SF18,hmmpanther:PTHR12816	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATATGAAAG	.	5	BLCA
NARG2	0	.	GRCh37	15	60741060	60741060	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2106G>C	p.Gln702His	p.Q702H	ENST00000261520	10/16	37	32	4	50	50	0	NARG2,missense_variant,p.Gln702His,ENST00000261520,;NARG2,missense_variant,p.Gln565His,ENST00000439632,;NARG2,downstream_gene_variant,,ENST00000558512,;NARG2,downstream_gene_variant,,ENST00000561114,;NARG2,3_prime_UTR_variant,,ENST00000558181,;NARG2,non_coding_transcript_exon_variant,,ENST00000561144,;NARG2,non_coding_transcript_exon_variant,,ENST00000561328,;	G	ENSG00000128915	ENST00000261520	Transcript	missense_variant	2341	2106	702	Q/H	caG/caC	.	.	.	-1	NARG2	HGNC	29885	protein_coding	YES	CCDS10176.1	ENSP00000261520	NARG2_HUMAN	H0YMX6_HUMAN,H0YL35_HUMAN,H0YK97_HUMAN,H0YK14_HUMAN,G3V0H6_HUMAN,B3KXT2_HUMAN	UPI00001A828C	.	tolerated(0.09)	benign(0.014)	10/16	.	hmmpanther:PTHR14633:SF3,hmmpanther:PTHR14633	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTTCTGAAA	.	4	BLCA
NARG2	0	.	GRCh37	15	60741548	60741548	+	Missense_Mutation	SNP	C	C	T	rs763434700	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1618G>A	p.Glu540Lys	p.E540K	ENST00000261520	10/16	67	51	16	59	59	0	NARG2,missense_variant,p.Glu540Lys,ENST00000261520,;NARG2,missense_variant,p.Glu403Lys,ENST00000439632,;NARG2,downstream_gene_variant,,ENST00000558512,;NARG2,downstream_gene_variant,,ENST00000561114,;NARG2,3_prime_UTR_variant,,ENST00000558181,;NARG2,non_coding_transcript_exon_variant,,ENST00000561328,;NARG2,upstream_gene_variant,,ENST00000561144,;	T	ENSG00000128915	ENST00000261520	Transcript	missense_variant	1853	1618	540	E/K	Gaa/Aaa	rs763434700	.	.	-1	NARG2	HGNC	29885	protein_coding	YES	CCDS10176.1	ENSP00000261520	NARG2_HUMAN	H0YMX6_HUMAN,H0YL35_HUMAN,H0YK97_HUMAN,H0YK14_HUMAN,G3V0H6_HUMAN,B3KXT2_HUMAN	UPI00001A828C	.	tolerated(0.5)	benign(0.007)	10/16	.	hmmpanther:PTHR14633:SF3,hmmpanther:PTHR14633	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCACCAT	.	5	BLCA
NARG2	0	.	GRCh37	15	60741617	60741617	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1549G>C	p.Glu517Gln	p.E517Q	ENST00000261520	10/16	94	70	24	90	90	0	NARG2,missense_variant,p.Glu517Gln,ENST00000261520,;NARG2,missense_variant,p.Glu380Gln,ENST00000439632,;NARG2,downstream_gene_variant,,ENST00000558512,;NARG2,downstream_gene_variant,,ENST00000561114,;NARG2,3_prime_UTR_variant,,ENST00000558181,;NARG2,non_coding_transcript_exon_variant,,ENST00000561328,;NARG2,upstream_gene_variant,,ENST00000561144,;	G	ENSG00000128915	ENST00000261520	Transcript	missense_variant	1784	1549	517	E/Q	Gaa/Caa	.	.	.	-1	NARG2	HGNC	29885	protein_coding	YES	CCDS10176.1	ENSP00000261520	NARG2_HUMAN	H0YMX6_HUMAN,H0YL35_HUMAN,H0YK97_HUMAN,H0YK14_HUMAN,G3V0H6_HUMAN,B3KXT2_HUMAN	UPI00001A828C	.	tolerated(0.49)	benign(0.282)	10/16	.	hmmpanther:PTHR14633:SF3,hmmpanther:PTHR14633	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTCTAACT	.	5	BLCA
TRIP4	0	.	GRCh37	15	64706352	64706352	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1112C>A	p.Ser371Tyr	p.S371Y	ENST00000261884	8/13	68	57	10	71	71	0	TRIP4,missense_variant,p.Ser371Tyr,ENST00000261884,;TRIP4,intron_variant,,ENST00000560475,;TRIP4,downstream_gene_variant,,ENST00000559565,;TRIP4,intron_variant,,ENST00000560567,;TRIP4,downstream_gene_variant,,ENST00000558820,;TRIP4,downstream_gene_variant,,ENST00000561265,;	A	ENSG00000103671	ENST00000261884	Transcript	missense_variant	1172	1112	371	S/Y	tCt/tAt	.	.	.	1	TRIP4	HGNC	12310	protein_coding	YES	CCDS10194.1	ENSP00000261884	TRIP4_HUMAN	.	UPI0000035D96	.	deleterious(0.03)	benign(0.005)	8/13	.	hmmpanther:PTHR12963:SF0,hmmpanther:PTHR12963	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGATCTTCTG	.	5	BLCA
GOLGA6D	0	.	GRCh37	15	75580601	75580601	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460G>C	p.Glu154Gln	p.E154Q	ENST00000434739	7/18	73	50	23	71	71	0	GOLGA6D,missense_variant,p.Glu154Gln,ENST00000434739,;RN7SL327P,upstream_gene_variant,,ENST00000488659,;	C	ENSG00000140478	ENST00000434739	Transcript	missense_variant	501	460	154	E/Q	Gag/Cag	.	.	.	1	GOLGA6D	HGNC	32204	protein_coding	YES	CCDS45308.1	ENSP00000391085	GOG6D_HUMAN	.	UPI00001AEE2C	.	deleterious(0.02)	possibly_damaging(0.859)	7/18	.	hmmpanther:PTHR10881	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGAGTCC	.	4	BLCA
CTSH	0	.	GRCh37	15	79224774	79224774	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432C>T	p.%3D	p.F144F	ENST00000220166	6/12	35	28	6	39	39	0	CTSH,synonymous_variant,p.%3D,ENST00000528741,;CTSH,synonymous_variant,p.%3D,ENST00000220166,;CTSH,non_coding_transcript_exon_variant,,ENST00000534038,;CTSH,non_coding_transcript_exon_variant,,ENST00000528191,;CTSH,non_coding_transcript_exon_variant,,ENST00000534533,;CTSH,upstream_gene_variant,,ENST00000534237,;CTSH,downstream_gene_variant,,ENST00000534268,;CTSH,downstream_gene_variant,,ENST00000528436,;CTSH,missense_variant,p.Ser35Phe,ENST00000525807,;CTSH,3_prime_UTR_variant,,ENST00000529861,;CTSH,3_prime_UTR_variant,,ENST00000533777,;CTSH,non_coding_transcript_exon_variant,,ENST00000529612,;CTSH,non_coding_transcript_exon_variant,,ENST00000529263,;CTSH,downstream_gene_variant,,ENST00000530929,;CTSH,upstream_gene_variant,,ENST00000527138,;CTSH,downstream_gene_variant,,ENST00000530010,;	A	ENSG00000103811	ENST00000220166	Transcript	synonymous_variant	542	432	144	F	ttC/ttT	COSM965443	.	.	-1	CTSH	HGNC	2535	protein_coding	YES	CCDS10308.1	ENSP00000220166	CATH_HUMAN	Q68D46_HUMAN,E9PKT6_HUMAN	UPI000013C799	.	.	.	6/12	.	Prints_domain:PR00705,Superfamily_domains:SSF54001,SMART_domains:SM00645,Gene3D:3.90.70.10,Pfam_domain:PF00112,PROSITE_patterns:PS00139,hmmpanther:PTHR12411,hmmpanther:PTHR12411:SF101	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGAGAAAGT	.	5	BLCA
NUBP1	0	.	GRCh37	16	10837823	10837823	+	Missense_Mutation	SNP	C	C	T	rs761142433	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25C>T	p.Pro9Ser	p.P9S	ENST00000283027	2/11	8	5	3	17	17	0	NUBP1,missense_variant,p.Pro9Ser,ENST00000283027,;NUBP1,missense_variant,p.Pro9Ser,ENST00000574334,;NUBP1,missense_variant,p.Pro9Ser,ENST00000433392,;NUBP1,non_coding_transcript_exon_variant,,ENST00000571790,;NUBP1,non_coding_transcript_exon_variant,,ENST00000574137,;	T	ENSG00000103274	ENST00000283027	Transcript	missense_variant	44	25	9	P/S	Cca/Tca	rs761142433	.	.	1	NUBP1	HGNC	8041	protein_coding	YES	CCDS10543.1	ENSP00000283027	NUBP1_HUMAN	.	UPI000013DD15	.	deleterious(0)	probably_damaging(0.992)	2/11	.	HAMAP:MF_03038,hmmpanther:PTHR23264:SF19,hmmpanther:PTHR23264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTGTCCAGGG	byFrequency	2	BLCA
POLR3E	0	.	GRCh37	16	22314264	22314264	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-26G>C	.	.	ENST00000299853	2/21	145	107	37	189	189	0	POLR3E,5_prime_UTR_variant,,ENST00000564883,;POLR3E,5_prime_UTR_variant,,ENST00000418581,;POLR3E,5_prime_UTR_variant,,ENST00000299853,;POLR3E,5_prime_UTR_variant,,ENST00000564209,;POLR3E,5_prime_UTR_variant,,ENST00000359210,;POLR3E,intron_variant,,ENST00000565358,;POLR3E,intron_variant,,ENST00000563024,;POLR3E,upstream_gene_variant,,ENST00000564256,;POLR3E,5_prime_UTR_variant,,ENST00000561494,;POLR3E,non_coding_transcript_exon_variant,,ENST00000564061,;POLR3E,non_coding_transcript_exon_variant,,ENST00000567022,;POLR3E,non_coding_transcript_exon_variant,,ENST00000563766,;POLR3E,upstream_gene_variant,,ENST00000564750,;	C	ENSG00000058600	ENST00000299853	Transcript	5_prime_UTR_variant	142	.	.	.	.	.	.	.	1	POLR3E	HGNC	30347	protein_coding	YES	CCDS10605.1	ENSP00000299853	RPC5_HUMAN	H3BSI5_HUMAN,H3BRY1_HUMAN,H3BNJ0_HUMAN	UPI000006D8F8	.	.	.	2/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAAGGACTGC	.	5	BLCA
COG7	0	.	GRCh37	16	23400193	23400193	+	3'UTR	SNP	C	C	T	rs768496469	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*48G>A	.	.	ENST00000307149	17/17	35	29	5	41	41	0	COG7,3_prime_UTR_variant,,ENST00000307149,;COG7,downstream_gene_variant,,ENST00000563164,;COG7,downstream_gene_variant,,ENST00000569635,;COG7,3_prime_UTR_variant,,ENST00000561854,;COG7,non_coding_transcript_exon_variant,,ENST00000566364,;	T	ENSG00000168434	ENST00000307149	Transcript	3_prime_UTR_variant	2547	.	.	.	.	rs768496469	.	.	-1	COG7	HGNC	18622	protein_coding	YES	CCDS10610.1	ENSP00000305442	COG7_HUMAN	.	UPI0000127E42	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGAGTCGCGAA	.	3	BLCA
KCTD19	0	.	GRCh37	16	67327899	67327899	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1766C>T	p.Ser589Leu	p.S589L	ENST00000304372	12/16	118	88	30	170	170	0	KCTD19,missense_variant,p.Ser589Leu,ENST00000304372,;PLEKHG4,downstream_gene_variant,,ENST00000360461,;PLEKHG4,downstream_gene_variant,,ENST00000379344,;PLEKHG4,downstream_gene_variant,,ENST00000427155,;KCTD19,upstream_gene_variant,,ENST00000562841,;PLEKHG4,downstream_gene_variant,,ENST00000450733,;KCTD19,non_coding_transcript_exon_variant,,ENST00000570049,;KCTD19,non_coding_transcript_exon_variant,,ENST00000566392,;KCTD19,non_coding_transcript_exon_variant,,ENST00000569333,;PLEKHG4,downstream_gene_variant,,ENST00000563969,;PLEKHG4,downstream_gene_variant,,ENST00000393966,;PLEKHG4,downstream_gene_variant,,ENST00000567136,;PLEKHG4,downstream_gene_variant,,ENST00000562289,;	A	ENSG00000168676	ENST00000304372	Transcript	missense_variant	1822	1766	589	S/L	tCa/tTa	.	.	.	-1	KCTD19	HGNC	24753	protein_coding	YES	CCDS42179.1	ENSP00000305702	KCD19_HUMAN	J3KSZ9_HUMAN,H3BVC0_HUMAN	UPI00001D7875	.	tolerated(0.09)	benign(0.055)	12/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTGTGAGTAT	.	5	BLCA
KCTD19	0	.	GRCh37	16	67327997	67327997	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1668C>G	p.%3D	p.V556V	ENST00000304372	12/16	192	136	56	191	191	0	KCTD19,synonymous_variant,p.%3D,ENST00000304372,;PLEKHG4,downstream_gene_variant,,ENST00000360461,;PLEKHG4,downstream_gene_variant,,ENST00000379344,;PLEKHG4,downstream_gene_variant,,ENST00000427155,;KCTD19,upstream_gene_variant,,ENST00000562841,;PLEKHG4,downstream_gene_variant,,ENST00000450733,;KCTD19,non_coding_transcript_exon_variant,,ENST00000570049,;KCTD19,non_coding_transcript_exon_variant,,ENST00000566392,;KCTD19,non_coding_transcript_exon_variant,,ENST00000569333,;PLEKHG4,downstream_gene_variant,,ENST00000563969,;PLEKHG4,downstream_gene_variant,,ENST00000562289,;	C	ENSG00000168676	ENST00000304372	Transcript	synonymous_variant	1724	1668	556	V	gtC/gtG	.	.	.	-1	KCTD19	HGNC	24753	protein_coding	YES	CCDS42179.1	ENSP00000305702	KCD19_HUMAN	J3KSZ9_HUMAN,H3BVC0_HUMAN	UPI00001D7875	.	.	.	12/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTGACCAG	.	5	BLCA
HS3ST3B1	0	.	GRCh37	17	14205045	14205045	+	Silent	SNP	C	C	T	rs757426733	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210C>T	p.%3D	p.A70A	ENST00000360954	1/2	12	6	6	15	15	0	HS3ST3B1,synonymous_variant,p.%3D,ENST00000360954,;RP11-214O1.1,upstream_gene_variant,,ENST00000571192,;RP11-214O1.2,upstream_gene_variant,,ENST00000583262,;HS3ST3B1,synonymous_variant,p.%3D,ENST00000466596,;	T	ENSG00000125430	ENST00000360954	Transcript	synonymous_variant	646	210	70	A	gcC/gcT	rs757426733	.	.	1	HS3ST3B1	HGNC	5198	protein_coding	YES	CCDS11167.1	ENSP00000354213	HS3SB_HUMAN	.	UPI0000038167	.	.	.	1/2	.	hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCGCCGCACA	byFrequency	3	BLCA
MYO18A	0	.	GRCh37	17	27414050	27414050	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5616G>A	p.%3D	p.Q1872Q	ENST00000527372	38/42	89	78	11	71	71	0	MYO18A,synonymous_variant,p.%3D,ENST00000527372,;MYO18A,synonymous_variant,p.%3D,ENST00000533112,;MYO18A,synonymous_variant,p.%3D,ENST00000354329,;MYO18A,synonymous_variant,p.%3D,ENST00000531253,;TIAF1,5_prime_UTR_variant,,ENST00000408971,;MYO18A,non_coding_transcript_exon_variant,,ENST00000546105,;MYO18A,non_coding_transcript_exon_variant,,ENST00000529578,;MYO18A,non_coding_transcript_exon_variant,,ENST00000531892,;MYO18A,3_prime_UTR_variant,,ENST00000530254,;MYO18A,non_coding_transcript_exon_variant,,ENST00000531438,;MYO18A,non_coding_transcript_exon_variant,,ENST00000529889,;MYO18A,upstream_gene_variant,,ENST00000527312,;	T	ENSG00000196535	ENST00000527372	Transcript	synonymous_variant	5797	5616	1872	Q	caG/caA	.	.	.	-1	MYO18A	HGNC	31104	protein_coding	YES	CCDS45642.1	ENSP00000437073	MY18A_HUMAN	.	UPI0000167F32	.	.	.	38/42	.	hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF293,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTTCTGTTC	.	4	BLCA
ZNF830	0	.	GRCh37	17	33288602	33288602	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>T	p.Ser6Phe	p.S6F	ENST00000361952	1/1	108	83	25	105	105	0	ZNF830,missense_variant,p.Ser6Phe,ENST00000361952,;CCT6B,intron_variant,,ENST00000585073,;CCT6B,upstream_gene_variant,,ENST00000314144,;CCT6B,upstream_gene_variant,,ENST00000436961,;CCT6B,upstream_gene_variant,,ENST00000421975,;ZNF830,upstream_gene_variant,,ENST00000578339,;	T	ENSG00000198783	ENST00000361952	Transcript	missense_variant	54	17	6	S/F	tCc/tTc	.	.	.	1	ZNF830	HGNC	28291	protein_coding	YES	CCDS32618.1	ENSP00000354518	ZN830_HUMAN	J3QQQ3_HUMAN	UPI0000456A79	.	deleterious_low_confidence(0.01)	possibly_damaging(0.521)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCTCCGCCC	.	5	BLCA
ZNF385C	0	.	GRCh37	17	40179718	40179718	+	Missense_Mutation	SNP	C	C	T	rs782342323	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1196G>A	p.Arg399His	p.R399H	ENST00000436535	7/8	85	70	15	76	76	0	ZNF385C,missense_variant,p.Arg399His,ENST00000436535,;NKIRAS2,downstream_gene_variant,,ENST00000393880,;NKIRAS2,downstream_gene_variant,,ENST00000462043,;NKIRAS2,downstream_gene_variant,,ENST00000307641,;NKIRAS2,downstream_gene_variant,,ENST00000393885,;NKIRAS2,downstream_gene_variant,,ENST00000393884,;NKIRAS2,downstream_gene_variant,,ENST00000393881,;NKIRAS2,downstream_gene_variant,,ENST00000316082,;NKIRAS2,downstream_gene_variant,,ENST00000479407,;NKIRAS2,downstream_gene_variant,,ENST00000587337,;NKIRAS2,downstream_gene_variant,,ENST00000449471,;ZNF385C,non_coding_transcript_exon_variant,,ENST00000461831,;ZNF385C,non_coding_transcript_exon_variant,,ENST00000496039,;NKIRAS2,downstream_gene_variant,,ENST00000491638,;NKIRAS2,downstream_gene_variant,,ENST00000393879,;NKIRAS2,downstream_gene_variant,,ENST00000485789,;	T	ENSG00000187595	ENST00000436535	Transcript	missense_variant	1197	1196	399	R/H	cGc/cAc	rs782342323	.	.	-1	ZNF385C	HGNC	33722	protein_coding	YES	.	ENSP00000411514	.	C9J6X6_HUMAN	UPI000198C823	.	deleterious(0)	probably_damaging(0.998)	7/8	.	hmmpanther:PTHR23067:SF6,hmmpanther:PTHR23067,SMART_domains:SM00451,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGGCGGTCT	byFrequency	5	BLCA
HDAC5	0	.	GRCh37	17	42168789	42168789	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239G>A	p.%3D	p.T413T	ENST00000225983	11/27	36	32	3	45	45	0	HDAC5,synonymous_variant,p.%3D,ENST00000393622,;HDAC5,synonymous_variant,p.%3D,ENST00000225983,;HDAC5,synonymous_variant,p.%3D,ENST00000586802,;HDAC5,synonymous_variant,p.%3D,ENST00000336057,;HDAC5,synonymous_variant,p.%3D,ENST00000588261,;HDAC5,downstream_gene_variant,,ENST00000591714,;HDAC5,downstream_gene_variant,,ENST00000588703,;HDAC5,downstream_gene_variant,,ENST00000587135,;HDAC5,non_coding_transcript_exon_variant,,ENST00000587776,;HDAC5,non_coding_transcript_exon_variant,,ENST00000592385,;HDAC5,upstream_gene_variant,,ENST00000588419,;	T	ENSG00000108840	ENST00000225983	Transcript	synonymous_variant	1563	1239	413	T	acG/acA	.	.	.	-1	HDAC5	HGNC	14068	protein_coding	YES	CCDS32663.1	ENSP00000225983	HDAC5_HUMAN	K7EJZ7_HUMAN,K7EJL6_HUMAN	UPI0000508BBA	.	.	.	11/27	.	hmmpanther:PTHR10625,hmmpanther:PTHR10625:SF57,PIRSF_domain:PIRSF037911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTCAGCGTGCC	.	3	BLCA
KAT7	0	.	GRCh37	17	47895248	47895248	+	Missense_Mutation	SNP	C	C	T	rs200465294	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1030C>T	p.Arg344Cys	p.R344C	ENST00000259021	9/15	64	45	19	48	48	0	KAT7,missense_variant,p.Arg175Cys,ENST00000510819,;KAT7,missense_variant,p.Arg344Cys,ENST00000259021,;KAT7,missense_variant,p.Arg158Cys,ENST00000435742,;KAT7,missense_variant,p.Arg205Cys,ENST00000454930,;KAT7,missense_variant,p.Arg188Cys,ENST00000503935,;KAT7,missense_variant,p.Arg234Cys,ENST00000509773,;KAT7,missense_variant,p.Arg314Cys,ENST00000424009,;KAT7,non_coding_transcript_exon_variant,,ENST00000512616,;KAT7,non_coding_transcript_exon_variant,,ENST00000513171,;KAT7,non_coding_transcript_exon_variant,,ENST00000508594,;KAT7,intron_variant,,ENST00000514540,;KAT7,intron_variant,,ENST00000513980,;KAT7,downstream_gene_variant,,ENST00000509124,;KAT7,upstream_gene_variant,,ENST00000510426,;KAT7,upstream_gene_variant,,ENST00000509794,;	T	ENSG00000136504	ENST00000259021	Transcript	missense_variant	1310	1030	344	R/C	Cgc/Tgc	rs200465294	.	.	1	KAT7	HGNC	17016	protein_coding	YES	CCDS11554.1	ENSP00000259021	KAT7_HUMAN	G3V125_HUMAN,B4DJ40_HUMAN,B4DGH8_HUMAN	UPI000006D3D5	.	deleterious(0.04)	benign(0.064)	9/15	.	hmmpanther:PTHR10615,Gene3D:1fy7A01,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGCCGCTAT	byCluster	5	BLCA
ACSF2	0	.	GRCh37	17	48551110	48551110	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1560C>G	p.Ile520Met	p.I520M	ENST00000300441	13/16	114	103	10	121	121	0	ACSF2,missense_variant,p.Ile477Met,ENST00000504392,;ACSF2,missense_variant,p.Ile360Met,ENST00000541920,;ACSF2,missense_variant,p.Ile507Met,ENST00000502667,;ACSF2,missense_variant,p.Ile545Met,ENST00000427954,;ACSF2,missense_variant,p.Ile520Met,ENST00000300441,;CHAD,upstream_gene_variant,,ENST00000258969,;CHAD,upstream_gene_variant,,ENST00000508540,;ACSF2,non_coding_transcript_exon_variant,,ENST00000512119,;ACSF2,non_coding_transcript_exon_variant,,ENST00000506085,;ACSF2,non_coding_transcript_exon_variant,,ENST00000513544,;ACSF2,non_coding_transcript_exon_variant,,ENST00000511147,;ACSF2,downstream_gene_variant,,ENST00000508734,;ACSF2,downstream_gene_variant,,ENST00000509806,;ACSF2,3_prime_UTR_variant,,ENST00000510410,;ACSF2,3_prime_UTR_variant,,ENST00000508245,;ACSF2,non_coding_transcript_exon_variant,,ENST00000512537,;ACSF2,non_coding_transcript_exon_variant,,ENST00000503295,;ACSF2,downstream_gene_variant,,ENST00000507769,;ACSF2,downstream_gene_variant,,ENST00000513101,;ACSF2,downstream_gene_variant,,ENST00000503387,;ACSF2,downstream_gene_variant,,ENST00000510262,;ACSF2,upstream_gene_variant,,ENST00000507792,;ACSF2,downstream_gene_variant,,ENST00000511288,;	G	ENSG00000167107	ENST00000300441	Transcript	missense_variant	1664	1560	520	I/M	atC/atG	.	.	.	1	ACSF2	HGNC	26101	protein_coding	YES	CCDS11567.1	ENSP00000300441	ACSF2_HUMAN	B4DUF5_HUMAN	UPI0000049DEF	.	deleterious(0)	probably_damaging(1)	13/16	.	hmmpanther:PTHR24095,Gene3D:3.30.300.30,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AACATCTACCC	.	3	BLCA
BZRAP1	0	.	GRCh37	17	56386652	56386652	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3981G>A	p.%3D	p.K1327K	ENST00000343736	22/32	40	35	5	49	49	0	BZRAP1,synonymous_variant,p.%3D,ENST00000343736,;BZRAP1,synonymous_variant,p.%3D,ENST00000355701,;BZRAP1,synonymous_variant,p.%3D,ENST00000268893,;BZRAP1,intron_variant,,ENST00000582679,;BZRAP1,upstream_gene_variant,,ENST00000581675,;BZRAP1,upstream_gene_variant,,ENST00000580669,;BZRAP1,upstream_gene_variant,,ENST00000577871,;BZRAP1,upstream_gene_variant,,ENST00000578511,;BZRAP1,upstream_gene_variant,,ENST00000578486,;BZRAP1,upstream_gene_variant,,ENST00000581692,;BZRAP1,downstream_gene_variant,,ENST00000585149,;	T	ENSG00000005379	ENST00000343736	Transcript	synonymous_variant	4145	3981	1327	K	aaG/aaA	.	.	.	-1	BZRAP1	HGNC	16831	protein_coding	YES	CCDS11605.1	ENSP00000345824	RIMB1_HUMAN	.	UPI000013D7E3	.	.	.	22/32	.	hmmpanther:PTHR14234:SF20,hmmpanther:PTHR14234	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTTCTTGCT	.	4	BLCA
HEATR6	0	.	GRCh37	17	58134520	58134520	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1968C>A	p.%3D	p.L656L	ENST00000184956	12/20	103	67	36	101	101	0	HEATR6,synonymous_variant,p.%3D,ENST00000585976,;HEATR6,synonymous_variant,p.%3D,ENST00000184956,;HEATR6,3_prime_UTR_variant,,ENST00000587003,;HEATR6,upstream_gene_variant,,ENST00000591683,;	T	ENSG00000068097	ENST00000184956	Transcript	synonymous_variant	1985	1968	656	L	ctC/ctA	.	.	.	-1	HEATR6	HGNC	24076	protein_coding	YES	CCDS11623.1	ENSP00000184956	HEAT6_HUMAN	K7ELR8_HUMAN	UPI0000366C37	.	.	.	12/20	.	hmmpanther:PTHR13366,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCAGAGTCG	.	5	BLCA
hsa-mir-6080	0	.	GRCh37	17	62758676	62758676	+	RNA	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1270G>C	.	.	ENST00000400873	5/13	34	30	3	33	33	0	hsa-mir-6080,non_coding_transcript_exon_variant,,ENST00000578492,;hsa-mir-6080,non_coding_transcript_exon_variant,,ENST00000400873,;hsa-mir-6080,downstream_gene_variant,,ENST00000579125,;RP11-927P21.5,non_coding_transcript_exon_variant,,ENST00000579209,;RP13-104F24.1,upstream_gene_variant,,ENST00000584190,;	G	ENSG00000215769	ENST00000400873	Transcript	non_coding_transcript_exon_variant	1270	.	.	.	.	.	.	.	-1	hsa-mir-6080	miRBase	.	processed_transcript	YES	.	.	.	.	.	.	.	.	5/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTATTCAAAGC	.	3	BLCA
hsa-mir-6080	0	.	GRCh37	17	62758790	62758790	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1156G>A	.	.	ENST00000400873	5/13	38	32	5	25	25	0	hsa-mir-6080,non_coding_transcript_exon_variant,,ENST00000578492,;hsa-mir-6080,non_coding_transcript_exon_variant,,ENST00000400873,;hsa-mir-6080,downstream_gene_variant,,ENST00000579125,;RP11-927P21.5,non_coding_transcript_exon_variant,,ENST00000579209,;RP13-104F24.1,upstream_gene_variant,,ENST00000584190,;	T	ENSG00000215769	ENST00000400873	Transcript	non_coding_transcript_exon_variant	1156	.	.	.	.	.	.	.	-1	hsa-mir-6080	miRBase	.	processed_transcript	YES	.	.	.	.	.	.	.	.	5/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTCAACCG	.	5	BLCA
ABCA5	0	.	GRCh37	17	67282434	67282434	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2060C>T	p.Ser687Leu	p.S687L	ENST00000392676	16/39	49	43	6	75	75	0	ABCA5,missense_variant,p.Ser687Leu,ENST00000392676,;ABCA5,missense_variant,p.Ser687Leu,ENST00000588877,;ABCA5,missense_variant,p.Ser687Leu,ENST00000392677,;ABCA5,missense_variant,p.Ser687Leu,ENST00000593153,;ABCA5,missense_variant,p.Ser358Leu,ENST00000586995,;ABCA5,upstream_gene_variant,,ENST00000591234,;	A	ENSG00000154265	ENST00000392676	Transcript	missense_variant	2125	2060	687	S/L	tCa/tTa	.	.	.	-1	ABCA5	HGNC	35	protein_coding	YES	CCDS11685.1	ENSP00000376443	ABCA5_HUMAN	K7EQ50_HUMAN,K7EPM3_HUMAN,K7EMV2_HUMAN,K7EJW6_HUMAN	UPI000013DD9E	.	deleterious(0.01)	probably_damaging(0.999)	16/39	.	PROSITE_profiles:PS50893,hmmpanther:PTHR19229:SF100,hmmpanther:PTHR19229,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGTGATATC	.	4	BLCA
OTOP3	0	.	GRCh37	17	72942938	72942938	+	Missense_Mutation	SNP	G	G	T	rs569900376	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988G>T	p.Ala330Ser	p.A330S	ENST00000328801	6/7	175	109	65	175	175	0	OTOP3,missense_variant,p.Ala330Ser,ENST00000328801,;HID1,downstream_gene_variant,,ENST00000425042,;OTOP3,3_prime_UTR_variant,,ENST00000580749,;HID1,downstream_gene_variant,,ENST00000532395,;HID1,downstream_gene_variant,,ENST00000534480,;	T	ENSG00000182938	ENST00000328801	Transcript	missense_variant	988	988	330	A/S	Gca/Tca	rs569900376	.	.	1	OTOP3	HGNC	19658	protein_coding	YES	CCDS11709.1	ENSP00000328090	OTOP3_HUMAN	.	UPI000019097F	.	tolerated(0.71)	benign(0.012)	6/7	.	hmmpanther:PTHR21522,hmmpanther:PTHR21522:SF36,Pfam_domain:PF03189	A:0.0004	A:0	A:0	.	A:0	A:0	A:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACCGCACCC	byFrequency|by1000G	5	BLCA
QRICH2	0	.	GRCh37	17	74273247	74273247	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4764G>A	p.Met1588Ile	p.M1588I	ENST00000262765	16/19	60	38	22	47	47	0	QRICH2,missense_variant,p.Met1588Ile,ENST00000262765,;QRICH2,intron_variant,,ENST00000447564,;QRICH2,intron_variant,,ENST00000532549,;QRICH2,3_prime_UTR_variant,,ENST00000524722,;	T	ENSG00000129646	ENST00000262765	Transcript	missense_variant	4944	4764	1588	M/I	atG/atA	.	.	.	-1	QRICH2	HGNC	25326	protein_coding	YES	CCDS32741.1	ENSP00000262765	QRIC2_HUMAN	.	UPI000006FECD	.	tolerated(0.07)	benign(0.086)	16/19	.	hmmpanther:PTHR23343,hmmpanther:PTHR23343:SF78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCATGGC	.	5	BLCA
TP53	0	.	GRCh37	17	7579415	7579415	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.272G>A	p.Trp91Ter	p.W91*	ENST00000269305	4/11	61	36	25	117	117	0	TP53,stop_gained,p.Trp91Ter,ENST00000508793,;TP53,stop_gained,p.Trp91Ter,ENST00000413465,;TP53,stop_gained,p.Trp91Ter,ENST00000604348,;TP53,stop_gained,p.Trp91Ter,ENST00000420246,;TP53,stop_gained,p.Trp91Ter,ENST00000269305,;TP53,stop_gained,p.Trp91Ter,ENST00000359597,;TP53,stop_gained,p.Trp91Ter,ENST00000445888,;TP53,stop_gained,p.Trp91Ter,ENST00000503591,;TP53,stop_gained,p.Trp91Ter,ENST00000455263,;TP53,intron_variant,,ENST00000509690,;TP53,intron_variant,,ENST00000514944,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,upstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,upstream_gene_variant,,ENST00000504937,;TP53,upstream_gene_variant,,ENST00000504290,;TP53,upstream_gene_variant,,ENST00000510385,;	T	ENSG00000141510	ENST00000269305	Transcript	stop_gained	462	272	91	W/*	tGg/tAg	TP53_g.11503G>A,COSM44192,COSM323934,COSM323933,COSM3378448,COSM3378447	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	4/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.W91*|c.272G>A|3,SITE|p.W91*|c.272G>A|3,SITE|p.W91*|c.272G>A|7,CODON|p.0?|c.1_1182del1182|6,CODON|p.G59fs*23|c.175_374del200|3,CODON|p.W91*|c.273G>A|5,CODON|p.W91*|c.273G>A|3,CODON|p.W91*|c.273G>A|9,CODON|p.W91*|c.273G>A|9,CODON|p.W91*|c.273G>A|17,BUFFER|p.S95P|c.283T>C|3,BUFFER|p.S95P|c.283T>C|3,BUFFER|p.S95P|c.283T>C|3,BUFFER|p.S94*|c.281C>G|4,BUFFER|p.S94*|c.281C>A|4,BUFFER|p.A76_S90del15|c.226_270del45|3,BUFFER|p.P89S|c.265C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGCCAGGAG	.	5	BLCA
NDC80	0	.	GRCh37	18	2578109	2578109	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>A	p.Glu149Lys	p.E149K	ENST00000261597	5/17	98	75	22	122	122	0	NDC80,missense_variant,p.Glu55Lys,ENST00000576274,;NDC80,missense_variant,p.Glu149Lys,ENST00000261597,;NDC80,downstream_gene_variant,,ENST00000575515,;NDC80,upstream_gene_variant,,ENST00000574567,;	A	ENSG00000080986	ENST00000261597	Transcript	missense_variant	627	445	149	E/K	Gaa/Aaa	.	.	.	1	NDC80	HGNC	16909	protein_coding	YES	CCDS11827.1	ENSP00000261597	NDC80_HUMAN	A8K031_HUMAN	UPI0000073C92	.	deleterious(0.01)	probably_damaging(0.998)	5/17	.	hmmpanther:PTHR10643:SF2,hmmpanther:PTHR10643,Pfam_domain:PF03801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGAAGAG	.	5	BLCA
ZNF236	0	.	GRCh37	18	74672699	74672699	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5301G>A	p.%3D	p.V1767V	ENST00000253159	30/31	75	66	8	95	95	0	ZNF236,synonymous_variant,p.%3D,ENST00000320610,;ZNF236,synonymous_variant,p.%3D,ENST00000253159,;ZNF236,3_prime_UTR_variant,,ENST00000543926,;	A	ENSG00000130856	ENST00000253159	Transcript	synonymous_variant	5499	5301	1767	V	gtG/gtA	.	.	.	1	ZNF236	HGNC	13028	protein_coding	YES	CCDS42447.1	ENSP00000253159	ZN236_HUMAN	.	UPI0000F6DCCB	.	.	.	30/31	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24396,hmmpanther:PTHR24396:SF15,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A1764V|c.5291C>T|5	RADIA|MUTECT|MUSE|VARSCANS	CAGGTGCACAT	.	4	BLCA
NFATC1	0	.	GRCh37	18	77246360	77246360	+	Silent	SNP	G	G	A	rs368426396	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2166G>A	p.%3D	p.A722A	ENST00000329101	9/10	193	134	59	210	210	0	NFATC1,synonymous_variant,p.%3D,ENST00000253506,;NFATC1,synonymous_variant,p.%3D,ENST00000329101,;NFATC1,synonymous_variant,p.%3D,ENST00000427363,;NFATC1,synonymous_variant,p.%3D,ENST00000318065,;NFATC1,synonymous_variant,p.%3D,ENST00000545796,;NFATC1,synonymous_variant,p.%3D,ENST00000397790,;NFATC1,intron_variant,,ENST00000542384,;NFATC1,intron_variant,,ENST00000586434,;NFATC1,3_prime_UTR_variant,,ENST00000590313,;	A	ENSG00000131196	ENST00000329101	Transcript	synonymous_variant	2222	2166	722	A	gcG/gcA	rs368426396	.	.	1	NFATC1	HGNC	7775	protein_coding	YES	CCDS32850.1	ENSP00000327850	NFAC1_HUMAN	F5H4S8_HUMAN	UPI000002AF02	.	.	.	9/10	.	hmmpanther:PTHR12533,hmmpanther:PTHR12533:SF5	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCGCGATGCC	byFrequency|byCluster	5	BLCA
ZNF626	0	.	GRCh37	19	20844362	20844362	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-110C>T	.	.	ENST00000601440	1/4	27	19	8	30	30	0	ZNF626,5_prime_UTR_variant,,ENST00000601440,;ZNF626,5_prime_UTR_variant,,ENST00000291750,;ZNF626,upstream_gene_variant,,ENST00000595405,;CTC-513N18.7,non_coding_transcript_exon_variant,,ENST00000595094,;	A	ENSG00000188171	ENST00000601440	Transcript	5_prime_UTR_variant	38	.	.	.	.	.	.	.	-1	ZNF626	HGNC	30461	protein_coding	YES	CCDS42535.1	ENSP00000469958	ZN626_HUMAN	M0QY39_HUMAN,I0CMK8_HUMAN	UPI000035E843	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCTCTGACTGC	.	4	BLCA
ZNF429	0	.	GRCh37	19	21720515	21720515	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1660C>T	p.Gln554Ter	p.Q554*	ENST00000358491	4/4	83	68	14	97	97	0	ZNF429,stop_gained,p.Gln554Ter,ENST00000358491,;ZNF429,intron_variant,,ENST00000597078,;ZNF429,upstream_gene_variant,,ENST00000594385,;ZNF429,downstream_gene_variant,,ENST00000594022,;	T	ENSG00000197013	ENST00000358491	Transcript	stop_gained	1868	1660	554	Q/*	Caa/Taa	.	.	.	1	ZNF429	HGNC	20817	protein_coding	YES	CCDS42537.1	ENSP00000351280	ZN429_HUMAN	.	UPI000022ABC2	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF239,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K556K|c.1668G>A|34,BUFFER|p.K556N|c.1668G>C|24	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTACTCAACAT	.	5	BLCA
ZNF507	0	.	GRCh37	19	32845418	32845418	+	Missense_Mutation	SNP	A	A	G	rs749512577	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1682A>G	p.Asn561Ser	p.N561S	ENST00000311921	2/6	53	49	4	55	55	0	ZNF507,missense_variant,p.Asn561Ser,ENST00000355898,;ZNF507,missense_variant,p.Asn561Ser,ENST00000311921,;ZNF507,missense_variant,p.Asn561Ser,ENST00000544431,;ZNF507,non_coding_transcript_exon_variant,,ENST00000587084,;	G	ENSG00000168813	ENST00000311921	Transcript	missense_variant	1874	1682	561	N/S	aAc/aGc	rs749512577	.	.	1	ZNF507	HGNC	23783	protein_coding	YES	CCDS32985.1	ENSP00000312277	ZN507_HUMAN	.	UPI0000202010	.	tolerated(0.5)	benign(0.002)	2/6	.	hmmpanther:PTHR24402:SF193,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGCAACTCCA	.	2	BLCA
CEACAM8	0	.	GRCh37	19	43087450	43087450	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.998G>C	p.Arg333Thr	p.R333T	ENST00000244336	5/6	60	46	14	71	71	0	CEACAM8,missense_variant,p.Arg333Thr,ENST00000244336,;CEACAM8,missense_variant,p.Arg35Thr,ENST00000599005,;LIPE-AS1,intron_variant,,ENST00000594688,;LIPE-AS1,intron_variant,,ENST00000594624,;	G	ENSG00000124469	ENST00000244336	Transcript	missense_variant	1100	998	333	R/T	aGa/aCa	.	.	.	-1	CEACAM8	HGNC	1820	protein_coding	YES	CCDS12610.1	ENSP00000244336	CEAM8_HUMAN	Q0Z7S6_HUMAN	UPI00000012A3	.	tolerated(0.19)	benign(0.001)	5/6	.	hmmpanther:PTHR19955:SF60,hmmpanther:PTHR19955	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTAGCT	.	5	BLCA
NPAS1	0	.	GRCh37	19	47548576	47548576	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440C>T	p.%3D	p.D480D	ENST00000602212	12/12	28	23	5	65	64	1	NPAS1,synonymous_variant,p.%3D,ENST00000602212,;NPAS1,synonymous_variant,p.%3D,ENST00000602189,;NPAS1,synonymous_variant,p.%3D,ENST00000449844,;NPAS1,3_prime_UTR_variant,,ENST00000439365,;TMEM160,downstream_gene_variant,,ENST00000253047,;NPAS1,downstream_gene_variant,,ENST00000594670,;NPAS1,downstream_gene_variant,,ENST00000594257,;NPAS1,downstream_gene_variant,,ENST00000601169,;NPAS1,downstream_gene_variant,,ENST00000600352,;	T	ENSG00000130751	ENST00000602212	Transcript	synonymous_variant	1660	1440	480	D	gaC/gaT	.	.	.	1	NPAS1	HGNC	7894	protein_coding	YES	CCDS12694.1	ENSP00000469142	NPAS1_HUMAN	.	UPI0000073CD1	.	.	.	12/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23043:SF20,hmmpanther:PTHR23043	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCGACGAGGA	.	5	BLCA
ZNF468	0	.	GRCh37	19	53343935	53343935	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*43C>T	.	.	ENST00000595646	4/4	95	79	16	92	92	0	ZNF468,3_prime_UTR_variant,,ENST00000390651,;ZNF468,3_prime_UTR_variant,,ENST00000396409,;ZNF468,3_prime_UTR_variant,,ENST00000595646,;ZNF468,3_prime_UTR_variant,,ENST00000243639,;ZNF28,intron_variant,,ENST00000596559,;ZNF28,intron_variant,,ENST00000594602,;ZNF468,downstream_gene_variant,,ENST00000601847,;ZNF468,downstream_gene_variant,,ENST00000597924,;ZNF468,downstream_gene_variant,,ENST00000601980,;ZNF468,downstream_gene_variant,,ENST00000602144,;	A	ENSG00000204604	ENST00000595646	Transcript	3_prime_UTR_variant	1733	.	.	.	.	.	.	.	-1	ZNF468	HGNC	33105	protein_coding	YES	CCDS33094.1	ENSP00000470381	ZN468_HUMAN	.	UPI00001D8191	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTACAGGGTTG	.	3	BLCA
NLRP13	0	.	GRCh37	19	56407431	56407431	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3012C>G	p.%3D	p.L1004L	ENST00000342929	11/11	87	58	28	99	99	0	NLRP13,synonymous_variant,p.%3D,ENST00000588751,;NLRP13,synonymous_variant,p.%3D,ENST00000342929,;	C	ENSG00000173572	ENST00000342929	Transcript	synonymous_variant	3012	3012	1004	L	ctC/ctG	.	.	.	-1	NLRP13	HGNC	22937	protein_coding	YES	CCDS33119.1	ENSP00000343891	NAL13_HUMAN	.	UPI00001AEEC8	.	.	.	11/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF10,Gene3D:3.80.10.10,SMART_domains:SM00368,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTGAGAAC	.	5	BLCA
GDAP2	0	.	GRCh37	1	118455250	118455250	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372C>T	p.%3D	p.F124F	ENST00000369443	4/14	131	98	33	140	140	0	GDAP2,synonymous_variant,p.%3D,ENST00000369442,;GDAP2,synonymous_variant,p.%3D,ENST00000369443,;GDAP2,non_coding_transcript_exon_variant,,ENST00000494224,;GDAP2,non_coding_transcript_exon_variant,,ENST00000493555,;	A	ENSG00000196505	ENST00000369443	Transcript	synonymous_variant	622	372	124	F	ttC/ttT	.	.	.	-1	GDAP2	HGNC	18010	protein_coding	YES	CCDS897.1	ENSP00000358451	GDAP2_HUMAN	.	UPI0000071019	.	.	.	4/14	.	PROSITE_profiles:PS51154,hmmpanther:PTHR11106,hmmpanther:PTHR11106:SF59,Pfam_domain:PF01661,Gene3D:3.40.220.10,SMART_domains:SM00506,Superfamily_domains:SSF52949	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATGAACCG	.	5	BLCA
CKS1B	0	.	GRCh37	1	154947364	154947364	+	Intron	SNP	G	G	A	rs527372216	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59+84G>A	.	.	ENST00000308987	.	84	64	19	95	95	0	CKS1B,5_prime_UTR_variant,,ENST00000368439,;CKS1B,intron_variant,,ENST00000308987,;CKS1B,intron_variant,,ENST00000368436,;SHC1,upstream_gene_variant,,ENST00000448116,;SHC1,upstream_gene_variant,,ENST00000368445,;SHC1,upstream_gene_variant,,ENST00000368453,;SHC1,upstream_gene_variant,,ENST00000412170,;SHC1,upstream_gene_variant,,ENST00000368449,;SHC1,upstream_gene_variant,,ENST00000606391,;SHC1,upstream_gene_variant,,ENST00000366442,;SHC1,upstream_gene_variant,,ENST00000368450,;MIR4258,upstream_gene_variant,,ENST00000580920,;CKS1B,upstream_gene_variant,,ENST00000471245,;CKS1B,upstream_gene_variant,,ENST00000477676,;CKS1B,upstream_gene_variant,,ENST00000474215,;CKS1B,upstream_gene_variant,,ENST00000473344,;	A	ENSG00000173207	ENST00000308987	Transcript	intron_variant	.	.	.	.	.	rs527372216	.	.	1	CKS1B	HGNC	19083	protein_coding	YES	CCDS1077.1	ENSP00000311083	CKS1_HUMAN	Q5T178_HUMAN,D3DV79_HUMAN	UPI0000003ED9	.	.	.	.	1/2	.	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGCGATAGA	by1000G	5	BLCA
B4GALT3	0	.	GRCh37	1	161143713	161143713	+	Silent	SNP	G	G	A	rs549057226	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616C>T	p.%3D	p.L206L	ENST00000319769	5/8	60	45	15	59	59	0	B4GALT3,synonymous_variant,p.%3D,ENST00000319769,;B4GALT3,synonymous_variant,p.%3D,ENST00000367998,;PPOX,intron_variant,,ENST00000432542,;PPOX,intron_variant,,ENST00000535223,;PPOX,downstream_gene_variant,,ENST00000367999,;PPOX,downstream_gene_variant,,ENST00000352210,;PPOX,downstream_gene_variant,,ENST00000537523,;PPOX,downstream_gene_variant,,ENST00000544598,;PPOX,downstream_gene_variant,,ENST00000537829,;B4GALT3,non_coding_transcript_exon_variant,,ENST00000470882,;B4GALT3,non_coding_transcript_exon_variant,,ENST00000465740,;B4GALT3,non_coding_transcript_exon_variant,,ENST00000466504,;PPOX,intron_variant,,ENST00000497522,;PPOX,intron_variant,,ENST00000495483,;B4GALT3,downstream_gene_variant,,ENST00000496313,;B4GALT3,downstream_gene_variant,,ENST00000482288,;B4GALT3,downstream_gene_variant,,ENST00000460415,;B4GALT3,downstream_gene_variant,,ENST00000493164,;PPOX,downstream_gene_variant,,ENST00000462977,;PPOX,downstream_gene_variant,,ENST00000470607,;B4GALT3,downstream_gene_variant,,ENST00000467863,;PPOX,downstream_gene_variant,,ENST00000494216,;B4GALT3,downstream_gene_variant,,ENST00000487004,;B4GALT3,upstream_gene_variant,,ENST00000486938,;PPOX,downstream_gene_variant,,ENST00000460611,;PPOX,downstream_gene_variant,,ENST00000466452,;PPOX,downstream_gene_variant,,ENST00000462866,;PPOX,downstream_gene_variant,,ENST00000539753,;PPOX,downstream_gene_variant,,ENST00000541818,;	A	ENSG00000158850	ENST00000319769	Transcript	synonymous_variant	839	616	206	L	Ctg/Ttg	rs549057226	.	.	-1	B4GALT3	HGNC	926	protein_coding	YES	CCDS1222.1	ENSP00000320965	B4GT3_HUMAN	.	UPI0000070AD6	.	.	.	5/8	.	hmmpanther:PTHR19300:SF33,hmmpanther:PTHR19300,Gene3D:3.90.550.10,Pfam_domain:PF13733,Superfamily_domains:SSF53448,Prints_domain:PR02050	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATACAGATTGT	byCluster	5	BLCA
NBPF1	0	.	GRCh37	1	16914285	16914285	+	Silent	SNP	G	G	A	rs574028395	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.501C>T	p.%3D	p.D167D	ENST00000430580	10/29	586	554	31	778	777	1	NBPF1,synonymous_variant,p.%3D,ENST00000430580,;NBPF1,intron_variant,,ENST00000392963,;	A	ENSG00000219481	ENST00000430580	Transcript	synonymous_variant	1389	501	167	D	gaC/gaT	rs574028395	.	.	-1	NBPF1	HGNC	26088	protein_coding	YES	.	ENSP00000474456	.	S4R3W5_HUMAN,S4R3K2_HUMAN,S4R3H5_HUMAN,Q3BBU8_HUMAN	UPI0000E04FDF	.	.	.	10/29	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51316	A:0.0006	A:0.0008	A:0	.	A:0	A:0	A:0.002	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTCGTCATT	byFrequency|by1000G	2	BLCA
C1orf106	0	.	GRCh37	1	200877971	200877971	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688G>A	p.Glu230Lys	p.E230K	ENST00000413687	7/10	59	44	15	69	69	0	C1orf106,missense_variant,p.Glu315Lys,ENST00000367342,;C1orf106,missense_variant,p.Glu230Lys,ENST00000413687,;C1orf106,non_coding_transcript_exon_variant,,ENST00000526172,;C1orf106,downstream_gene_variant,,ENST00000531649,;C1orf106,upstream_gene_variant,,ENST00000465162,;	A	ENSG00000163362	ENST00000413687	Transcript	missense_variant	1049	688	230	E/K	Gaa/Aaa	COSM3803416	.	.	1	C1orf106	HGNC	25599	protein_coding	YES	CCDS44292.1	ENSP00000392105	CA106_HUMAN	E9PK29_HUMAN,C9JAT8_HUMAN	UPI0000204714	.	deleterious(0.03)	possibly_damaging(0.662)	7/10	.	hmmpanther:PTHR16093:SF4,hmmpanther:PTHR16093	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAGAACGG	.	5	BLCA
RASSF5	0	.	GRCh37	1	206760303	206760303	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1250C>A	p.Pro417His	p.P417H	ENST00000355294	6/6	28	24	4	57	57	0	RASSF5,missense_variant,p.Pro417His,ENST00000355294,;RASSF5,missense_variant,p.Pro264His,ENST00000304534,;RASSF5,3_prime_UTR_variant,,ENST00000367117,;EIF2D,downstream_gene_variant,,ENST00000367114,;EIF2D,downstream_gene_variant,,ENST00000271764,;RASSF5,non_coding_transcript_exon_variant,,ENST00000491368,;RASSF5,non_coding_transcript_exon_variant,,ENST00000481486,;EIF2D,intron_variant,,ENST00000472709,;	A	ENSG00000136653	ENST00000355294	Transcript	missense_variant	1307	1250	417	P/H	cCt/cAt	.	.	.	1	RASSF5	HGNC	17609	protein_coding	YES	CCDS30998.1	ENSP00000347443	RASF5_HUMAN	.	UPI0000072CF5	.	deleterious_low_confidence(0)	probably_damaging(0.959)	6/6	.	hmmpanther:PTHR22738,hmmpanther:PTHR22738:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CAAACCTGGGT	.	2	BLCA
PIGR	0	.	GRCh37	1	207104857	207104857	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2184C>G	p.%3D	p.P728P	ENST00000356495	10/11	65	41	24	106	106	0	PIGR,synonymous_variant,p.%3D,ENST00000356495,;PIGR,non_coding_transcript_exon_variant,,ENST00000487208,;	C	ENSG00000162896	ENST00000356495	Transcript	synonymous_variant	2368	2184	728	P	ccC/ccG	.	.	.	-1	PIGR	HGNC	8968	protein_coding	YES	CCDS1474.1	ENSP00000348888	PIGR_HUMAN	.	UPI000007407E	.	.	.	10/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11860:SF44,hmmpanther:PTHR11860	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTGGGTTC	.	5	BLCA
CENPF	0	.	GRCh37	1	214826219	214826219	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8209G>C	p.Glu2737Gln	p.E2737Q	ENST00000366955	16/20	71	54	17	88	88	0	CENPF,missense_variant,p.Glu2737Gln,ENST00000366955,;CENPF,non_coding_transcript_exon_variant,,ENST00000467765,;CENPF,upstream_gene_variant,,ENST00000469862,;	C	ENSG00000117724	ENST00000366955	Transcript	missense_variant	8377	8209	2737	E/Q	Gaa/Caa	.	.	.	1	CENPF	HGNC	1857	protein_coding	YES	CCDS31023.1	ENSP00000355922	CENPF_HUMAN	.	UPI00001AE985	.	.	possibly_damaging(0.677)	16/20	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAATGT	.	5	BLCA
PARP1	0	.	GRCh37	1	226570804	226570804	+	Silent	SNP	G	G	A	rs761844848	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1092C>T	p.%3D	p.S364S	ENST00000366794	8/23	222	183	39	223	223	0	PARP1,synonymous_variant,p.%3D,ENST00000366794,;	A	ENSG00000143799	ENST00000366794	Transcript	synonymous_variant	1236	1092	364	S	tcC/tcT	rs761844848,COSM3484277,COSM3864588	.	.	-1	PARP1	HGNC	270	protein_coding	YES	CCDS1554.1	ENSP00000355759	PARP1_HUMAN	Q96P95_HUMAN	UPI000013D92D	.	.	.	8/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15447:SF13,hmmpanther:PTHR15447,PIRSF_domain:PIRSF000489	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCACGGAGGC	byFrequency	4	BLCA
OBSCN	0	.	GRCh37	1	228462037	228462037	+	Missense_Mutation	SNP	G	G	A	rs772203801	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6700G>A	p.Glu2234Lys	p.E2234K	ENST00000570156	23/116	80	52	28	100	100	0	OBSCN,missense_variant,p.Glu1859Lys,ENST00000284548,;OBSCN,missense_variant,p.Glu706Lys,ENST00000359599,;OBSCN,missense_variant,p.Glu2234Lys,ENST00000570156,;OBSCN,missense_variant,p.Glu1859Lys,ENST00000422127,;OBSCN,5_prime_UTR_variant,,ENST00000366707,;OBSCN,5_prime_UTR_variant,,ENST00000366709,;OBSCN,upstream_gene_variant,,ENST00000366706,;RP5-1139B12.2,non_coding_transcript_exon_variant,,ENST00000602517,;RP5-1139B12.3,downstream_gene_variant,,ENST00000602529,;RP5-1139B12.3,downstream_gene_variant,,ENST00000602947,;	A	ENSG00000154358	ENST00000570156	Transcript	missense_variant	6774	6700	2234	E/K	Gag/Aag	rs772203801	.	.	1	OBSCN	HGNC	15719	protein_coding	YES	CCDS59204.1	ENSP00000455507	.	H3BPX2_HUMAN	UPI00027FCDB5	.	.	benign(0.343)	23/116	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF17,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCCGAGGGG	byFrequency	5	BLCA
TP73	0	.	GRCh37	1	3624130	3624130	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204G>A	p.%3D	p.L68L	ENST00000378295	4/14	127	98	29	188	187	1	TP73,synonymous_variant,p.%3D,ENST00000378288,;TP73,synonymous_variant,p.%3D,ENST00000604479,;TP73,synonymous_variant,p.%3D,ENST00000604074,;TP73,synonymous_variant,p.%3D,ENST00000354437,;TP73,synonymous_variant,p.%3D,ENST00000378285,;TP73,synonymous_variant,p.%3D,ENST00000603362,;TP73,synonymous_variant,p.%3D,ENST00000346387,;TP73,synonymous_variant,p.%3D,ENST00000378295,;TP73,synonymous_variant,p.%3D,ENST00000378280,;TP73,synonymous_variant,p.%3D,ENST00000357733,;TP73,5_prime_UTR_variant,,ENST00000378290,;RP5-1092A11.2,downstream_gene_variant,,ENST00000416554,;TP73,non_coding_transcript_exon_variant,,ENST00000604194,;TP73,non_coding_transcript_exon_variant,,ENST00000603364,;	A	ENSG00000078900	ENST00000378295	Transcript	synonymous_variant	359	204	68	L	ctG/ctA	.	.	.	1	TP73	HGNC	12003	protein_coding	YES	CCDS49.1	ENSP00000367545	P73_HUMAN	B7Z3B4_HUMAN	UPI000002E988	.	.	.	4/14	.	hmmpanther:PTHR11447,hmmpanther:PTHR11447:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTGAGCAG	.	5	BLCA
AGO3	0	.	GRCh37	1	36397036	36397036	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9C>T	p.%3D	p.I3I	ENST00000373191	1/19	11	7	4	10	10	0	AGO3,synonymous_variant,p.%3D,ENST00000397828,;AGO3,synonymous_variant,p.%3D,ENST00000373191,;AGO3,synonymous_variant,p.%3D,ENST00000324350,;AGO3,5_prime_UTR_variant,,ENST00000246314,;AGO1,downstream_gene_variant,,ENST00000373204,;RP4-789D17.5,upstream_gene_variant,,ENST00000606838,;	T	ENSG00000126070	ENST00000373191	Transcript	synonymous_variant	358	9	3	I	atC/atT	.	.	.	1	AGO3	HGNC	18421	protein_coding	YES	CCDS399.1	ENSP00000362287	AGO3_HUMAN	B4DY67_HUMAN	UPI0000141361	.	.	.	1/19	.	HAMAP:MF_03032,hmmpanther:PTHR22891:SF3,hmmpanther:PTHR22891	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAATCGGCTC	.	2	BLCA
MACF1	0	.	GRCh37	1	39847678	39847678	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7516G>C	p.Glu2506Gln	p.E2506Q	ENST00000545844	51/94	72	51	20	81	81	0	MACF1,missense_variant,p.Glu1619Gln,ENST00000372925,;MACF1,missense_variant,p.Glu2506Gln,ENST00000361689,;MACF1,missense_variant,p.Glu3008Gln,ENST00000289893,;MACF1,missense_variant,p.Glu4568Gln,ENST00000564288,;MACF1,missense_variant,p.Glu2485Gln,ENST00000539005,;MACF1,missense_variant,p.Glu4573Gln,ENST00000372915,;MACF1,missense_variant,p.Glu2506Gln,ENST00000317713,;MACF1,missense_variant,p.Glu4605Gln,ENST00000567887,;MACF1,missense_variant,p.Glu2506Gln,ENST00000545844,;	C	ENSG00000127603	ENST00000545844	Transcript	missense_variant	7624	7516	2506	E/Q	Gag/Cag	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	probably_damaging(0.999)	51/94	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Gene3D:1.20.58.60,Pfam_domain:PF00435,hmmpanther:PTHR11915:SF37,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTAGAGGAA	.	5	BLCA
LEPRE1	0	.	GRCh37	1	43232181	43232181	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.462C>A	p.Phe154Leu	p.F154L	ENST00000236040	1/14	11	8	3	15	15	0	LEPRE1,missense_variant,p.Phe154Leu,ENST00000397054,;LEPRE1,missense_variant,p.Phe154Leu,ENST00000372526,;LEPRE1,missense_variant,p.Phe154Leu,ENST00000236040,;LEPRE1,missense_variant,p.Phe154Leu,ENST00000296388,;C1orf50,upstream_gene_variant,,ENST00000536543,;C1orf50,upstream_gene_variant,,ENST00000372525,;C1orf50,upstream_gene_variant,,ENST00000468913,;LEPRE1,non_coding_transcript_exon_variant,,ENST00000495874,;LEPRE1,non_coding_transcript_exon_variant,,ENST00000460031,;LEPRE1,non_coding_transcript_exon_variant,,ENST00000492956,;C1orf50,upstream_gene_variant,,ENST00000603943,;C1orf50,upstream_gene_variant,,ENST00000464081,;LEPRE1,upstream_gene_variant,,ENST00000463465,;	T	ENSG00000117385	ENST00000236040	Transcript	missense_variant	503	462	154	F/L	ttC/ttA	.	.	.	-1	LEPRE1	HGNC	19316	protein_coding	YES	CCDS57986.1	ENSP00000236040	P3H1_HUMAN	B4DTG8_HUMAN	UPI000013E32E	.	tolerated(0.07)	possibly_damaging(0.57)	1/14	.	Gene3D:1.25.40.10,hmmpanther:PTHR14049,hmmpanther:PTHR14049:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTGAAGTA	.	2	BLCA
KLF17	0	.	GRCh37	1	44595607	44595607	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664A>G	p.Met222Val	p.M222V	ENST00000372299	2/4	56	47	9	69	69	0	KLF17,missense_variant,p.Met222Val,ENST00000372299,;KLF17,intron_variant,,ENST00000476802,;	G	ENSG00000171872	ENST00000372299	Transcript	missense_variant	722	664	222	M/V	Atg/Gtg	.	.	.	1	KLF17	HGNC	18830	protein_coding	YES	CCDS508.1	ENSP00000361373	KLF17_HUMAN	.	UPI000013E95E	.	tolerated(0.07)	benign(0.026)	2/4	.	hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGGATGCCC	.	5	BLCA
MSH4	0	.	GRCh37	1	76378435	76378435	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2674G>T	p.Ala892Ser	p.A892S	ENST00000263187	20/20	28	20	7	21	21	0	MSH4,missense_variant,p.Ala892Ser,ENST00000263187,;	T	ENSG00000057468	ENST00000263187	Transcript	missense_variant	2778	2674	892	A/S	Gcc/Tcc	.	.	.	1	MSH4	HGNC	7327	protein_coding	YES	CCDS670.1	ENSP00000263187	MSH4_HUMAN	Q5ZEZ0_HUMAN	UPI000006D934	.	deleterious(0.04)	benign(0.411)	20/20	.	hmmpanther:PTHR11361,hmmpanther:PTHR11361:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTAGCCACT	.	5	BLCA
MYL9	0	.	GRCh37	20	35176535	35176535	+	Silent	SNP	C	C	T	rs149515934	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.285C>T	p.%3D	p.N95N	ENST00000279022	3/4	41	38	3	43	43	0	MYL9,synonymous_variant,p.%3D,ENST00000279022,;MYL9,intron_variant,,ENST00000346786,;RP5-977B1.7,intron_variant,,ENST00000439595,;RP5-977B1.7,intron_variant,,ENST00000425233,;RP5-977B1.11,downstream_gene_variant,,ENST00000561134,;	T	ENSG00000101335	ENST00000279022	Transcript	synonymous_variant	389	285	95	N	aaC/aaT	rs149515934	.	.	1	MYL9	HGNC	15754	protein_coding	YES	CCDS13276.1	ENSP00000279022	MYL9_HUMAN	.	UPI00000012F1	.	.	.	3/4	.	hmmpanther:PTHR23049,hmmpanther:PTHR23049:SF37,Pfam_domain:PF13499,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGAACGGCAC	byCluster	2	BLCA
SIGLEC1	0	.	GRCh37	20	3678470	3678470	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2097C>A	p.%3D	p.S699S	ENST00000344754	8/21	41	25	16	60	60	0	SIGLEC1,synonymous_variant,p.%3D,ENST00000344754,;SIGLEC1,synonymous_variant,p.%3D,ENST00000202578,;SIGLEC1,upstream_gene_variant,,ENST00000419548,;	T	ENSG00000088827	ENST00000344754	Transcript	synonymous_variant	2097	2097	699	S	tcC/tcA	.	.	.	-1	SIGLEC1	HGNC	11127	protein_coding	YES	CCDS13060.1	ENSP00000341141	SN_HUMAN	.	UPI0000049BA6	.	.	.	8/21	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF46,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGTGGAGGC	.	5	BLCA
TBC1D20	0	.	GRCh37	20	419427	419427	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015A>C	p.Met339Leu	p.M339L	ENST00000354200	8/8	119	81	37	86	86	0	TBC1D20,missense_variant,p.Met339Leu,ENST00000354200,;TBC1D20,non_coding_transcript_exon_variant,,ENST00000494633,;TBC1D20,non_coding_transcript_exon_variant,,ENST00000461188,;TBC1D20,missense_variant,p.Met339Leu,ENST00000461304,;	G	ENSG00000125875	ENST00000354200	Transcript	missense_variant	1163	1015	339	M/L	Atg/Ctg	.	.	.	-1	TBC1D20	HGNC	16133	protein_coding	YES	CCDS13002.1	ENSP00000346139	TBC20_HUMAN	B9A6M1_HUMAN	UPI000006D549	.	tolerated(0.72)	benign(0.007)	8/8	.	hmmpanther:PTHR20913:SF10,hmmpanther:PTHR20913	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCATATCAG	.	5	BLCA
GGT1	0	.	GRCh37	22	25010755	25010755	+	Silent	SNP	G	G	A	rs554125940	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177G>A	p.%3D	p.R59R	ENST00000400382	6/16	38	28	9	51	51	0	GGT1,synonymous_variant,p.%3D,ENST00000428855,;GGT1,synonymous_variant,p.%3D,ENST00000445029,;GGT1,synonymous_variant,p.%3D,ENST00000412898,;GGT1,synonymous_variant,p.%3D,ENST00000400380,;GGT1,synonymous_variant,p.%3D,ENST00000452551,;GGT1,synonymous_variant,p.%3D,ENST00000419133,;GGT1,synonymous_variant,p.%3D,ENST00000248923,;GGT1,synonymous_variant,p.%3D,ENST00000455483,;GGT1,synonymous_variant,p.%3D,ENST00000451366,;GGT1,synonymous_variant,p.%3D,ENST00000432867,;GGT1,synonymous_variant,p.%3D,ENST00000412658,;GGT1,synonymous_variant,p.%3D,ENST00000430289,;GGT1,synonymous_variant,p.%3D,ENST00000447416,;GGT1,synonymous_variant,p.%3D,ENST00000406383,;GGT1,synonymous_variant,p.%3D,ENST00000411974,;GGT1,synonymous_variant,p.%3D,ENST00000400383,;GGT1,synonymous_variant,p.%3D,ENST00000400382,;GGT1,downstream_gene_variant,,ENST00000456869,;GGT1,downstream_gene_variant,,ENST00000438643,;GGT1,intron_variant,,ENST00000474191,;GGT1,synonymous_variant,p.%3D,ENST00000425895,;SNRPD3,downstream_gene_variant,,ENST00000404603,;GGT1,upstream_gene_variant,,ENST00000487766,;	A	ENSG00000100031	ENST00000400382	Transcript	synonymous_variant	932	177	59	R	cgG/cgA	rs554125940	.	.	1	GGT1	HGNC	4250	protein_coding	YES	CCDS42992.1	ENSP00000383232	GGT1_HUMAN	Q9UEN9_HUMAN,Q9UEN8_HUMAN,Q6NZY2_HUMAN,O76033_HUMAN,O75693_HUMAN,E9PHP2_HUMAN,E7EVF8_HUMAN,E7ETU4_HUMAN,E7ETR7_HUMAN,E7ETN1_HUMAN,E7ETJ6_HUMAN,E7ET76_HUMAN,E7ESL5_HUMAN,E7ERN9_HUMAN,E7ENJ5_HUMAN,E7EM62_HUMAN,C9JIY6_HUMAN,C9JGF3_HUMAN	UPI000007080C	.	.	.	6/16	.	hmmpanther:PTHR11686,hmmpanther:PTHR11686:SF1,TIGRFAM_domain:TIGR00066,Pfam_domain:PF01019,Superfamily_domains:SSF56235	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D60D|c.180C>T|8	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCGGGACGG	by1000G	5	BLCA
DMC1	0	.	GRCh37	22	38917725	38917725	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.841C>G	p.Gln281Glu	p.Q281E	ENST00000216024	13/14	133	97	35	146	146	0	DMC1,missense_variant,p.Gln281Glu,ENST00000216024,;DMC1,missense_variant,p.Gln226Glu,ENST00000428462,;	C	ENSG00000100206	ENST00000216024	Transcript	missense_variant	1118	841	281	Q/E	Cag/Gag	.	.	.	-1	DMC1	HGNC	2927	protein_coding	YES	CCDS13973.1	ENSP00000216024	DMC1_HUMAN	B0QYE1_HUMAN	UPI00001294D1	.	tolerated(0.21)	benign(0.257)	13/14	.	PROSITE_profiles:PS50163,hmmpanther:PTHR22942:SF29,hmmpanther:PTHR22942,Pfam_domain:PF08423,TIGRFAM_domain:TIGR02238,Gene3D:3.40.50.300,PIRSF_domain:PIRSF005856,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTGAAAGC	.	5	BLCA
UXS1	0	.	GRCh37	2	106713228	106713228	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1092G>T	p.Gln364His	p.Q364H	ENST00000283148	14/15	12	8	3	12	12	0	UXS1,missense_variant,p.Gln191His,ENST00000409032,;UXS1,missense_variant,p.Gln364His,ENST00000283148,;UXS1,missense_variant,p.Gln359His,ENST00000409501,;UXS1,missense_variant,p.Gln302His,ENST00000540130,;UXS1,downstream_gene_variant,,ENST00000441952,;UXS1,downstream_gene_variant,,ENST00000428048,;UXS1,non_coding_transcript_exon_variant,,ENST00000497604,;UXS1,non_coding_transcript_exon_variant,,ENST00000473338,;UXS1,downstream_gene_variant,,ENST00000470053,;	A	ENSG00000115652	ENST00000283148	Transcript	missense_variant	1190	1092	364	Q/H	caG/caT	.	.	.	-1	UXS1	HGNC	17729	protein_coding	YES	CCDS58721.1	ENSP00000283148	UXS1_HUMAN	Q8ND26_HUMAN,C9JW33_HUMAN,C9JFU6_HUMAN,C9JCB7_HUMAN,C9J3T9_HUMAN,B3KV61_HUMAN	UPI000003CA36	.	tolerated(0.19)	benign(0.012)	14/15	.	hmmpanther:PTHR10366,hmmpanther:PTHR10366:SF35,Gene3D:3.90.25.10,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTTCTGTGG	.	2	BLCA
SGOL2	0	.	GRCh37	2	201435997	201435997	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.928G>C	p.Glu310Gln	p.E310Q	ENST00000357799	7/9	43	29	14	63	63	0	SGOL2,missense_variant,p.Glu310Gln,ENST00000357799,;SGOL2,downstream_gene_variant,,ENST00000409203,;	C	ENSG00000163535	ENST00000357799	Transcript	missense_variant	1026	928	310	E/Q	Gag/Cag	.	.	.	1	SGOL2	HGNC	30812	protein_coding	YES	CCDS42796.1	ENSP00000350447	SGOL2_HUMAN	C9JW92_HUMAN	UPI00001AEBF5	.	deleterious(0.03)	possibly_damaging(0.756)	7/9	.	hmmpanther:PTHR21577:SF2,hmmpanther:PTHR21577	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAATGAGATA	.	5	BLCA
SGOL2	0	.	GRCh37	2	201436313	201436313	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1244G>T	p.Arg415Ile	p.R415I	ENST00000357799	7/9	56	34	21	54	54	0	SGOL2,missense_variant,p.Arg415Ile,ENST00000357799,;SGOL2,downstream_gene_variant,,ENST00000409203,;	T	ENSG00000163535	ENST00000357799	Transcript	missense_variant	1342	1244	415	R/I	aGa/aTa	.	.	.	1	SGOL2	HGNC	30812	protein_coding	YES	CCDS42796.1	ENSP00000350447	SGOL2_HUMAN	C9JW92_HUMAN	UPI00001AEBF5	.	deleterious(0.02)	probably_damaging(0.934)	7/9	.	hmmpanther:PTHR21577:SF2,hmmpanther:PTHR21577,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGAGACAGT	.	5	BLCA
FARP2	0	.	GRCh37	2	242371150	242371150	+	Missense_Mutation	SNP	G	G	C	rs189731640	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.828G>C	p.Lys276Asn	p.K276N	ENST00000264042	9/27	92	53	39	137	137	0	FARP2,missense_variant,p.Lys276Asn,ENST00000264042,;FARP2,missense_variant,p.Lys276Asn,ENST00000373287,;FARP2,missense_variant,p.Lys276Asn,ENST00000545004,;FARP2,upstream_gene_variant,,ENST00000413432,;FARP2,non_coding_transcript_exon_variant,,ENST00000471447,;FARP2,non_coding_transcript_exon_variant,,ENST00000485051,;	C	ENSG00000006607	ENST00000264042	Transcript	missense_variant	998	828	276	K/N	aaG/aaC	rs189731640,COSM720850	.	.	1	FARP2	HGNC	16460	protein_coding	YES	CCDS33424.1	ENSP00000264042	FARP2_HUMAN	C9JWM9_HUMAN,C9JVQ5_HUMAN	UPI0000073D5B	.	deleterious(0)	probably_damaging(0.99)	9/27	.	PROSITE_profiles:PS50057,hmmpanther:PTHR12673,hmmpanther:PTHR12673:SF58,Gene3D:2.30.29.30,Pfam_domain:PF09380,Superfamily_domains:SSF50729	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCAAGAGGAA	byCluster|by1000G	5	BLCA
AC009499.1	0	.	GRCh37	2	33952672	33952672	+	Intron	SNP	G	G	A	rs780318385	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.68+20652G>A	.	.	ENST00000366209	.	34	23	11	27	27	0	AC009499.1,intron_variant,,ENST00000442026,;AC009499.1,intron_variant,,ENST00000366209,;MYADML,non_coding_transcript_exon_variant,,ENST00000474610,;MYADML,upstream_gene_variant,,ENST00000490394,;MYADML,non_coding_transcript_exon_variant,,ENST00000491596,;MYADML,non_coding_transcript_exon_variant,,ENST00000322472,;	A	ENSG00000203386	ENST00000366209	Transcript	intron_variant	.	.	.	.	.	rs780318385	.	.	1	AC009499.1	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTCGCGGGA	.	5	BLCA
PREPL	0	.	GRCh37	2	44571025	44571025	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.475G>A	p.Asp159Asn	p.D159N	ENST00000409936	5/15	115	82	33	116	116	0	PREPL,missense_variant,p.Asp159Asn,ENST00000378520,;PREPL,missense_variant,p.Asp159Asn,ENST00000409936,;PREPL,missense_variant,p.Asp70Asn,ENST00000409957,;PREPL,missense_variant,p.Asp159Asn,ENST00000260648,;PREPL,missense_variant,p.Asp70Asn,ENST00000541738,;PREPL,missense_variant,p.Asp70Asn,ENST00000409411,;PREPL,missense_variant,p.Asp159Asn,ENST00000409272,;PREPL,missense_variant,p.Asp159Asn,ENST00000410081,;PREPL,missense_variant,p.Asp159Asn,ENST00000378511,;PREPL,downstream_gene_variant,,ENST00000438314,;PREPL,non_coding_transcript_exon_variant,,ENST00000540817,;PREPL,downstream_gene_variant,,ENST00000477410,;PREPL,missense_variant,p.Asp159Asn,ENST00000425263,;PREPL,missense_variant,p.Asp159Asn,ENST00000426481,;	T	ENSG00000138078	ENST00000409936	Transcript	missense_variant	913	475	159	D/N	Gat/Aat	.	.	.	-1	PREPL	HGNC	30228	protein_coding	YES	CCDS33190.1	ENSP00000386543	PPCEL_HUMAN	C9JMT4_HUMAN	UPI0000208358	.	deleterious(0.03)	benign(0.18)	5/15	.	hmmpanther:PTHR11757,hmmpanther:PTHR11757:SF3,Pfam_domain:PF02897,Superfamily_domains:SSF50993	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAATCAATGA	.	5	BLCA
ANKRD36C	0	.	GRCh37	2	96523187	96523187	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1031A>G	p.Gln344Arg	p.Q344R	ENST00000419039	54/58	23	17	6	37	37	0	ANKRD36C,missense_variant,p.Gln344Arg,ENST00000419039,;ANKRD36C,missense_variant,p.Gln568Arg,ENST00000420871,;ANKRD36C,missense_variant,p.Gln1317Arg,ENST00000456556,;ANKRD36C,non_coding_transcript_exon_variant,,ENST00000488721,;ANKRD36C,non_coding_transcript_exon_variant,,ENST00000531153,;ANKRD36C,downstream_gene_variant,,ENST00000534304,;	C	ENSG00000174501	ENST00000419039	Transcript	missense_variant	3037	1031	344	Q/R	cAa/cGa	.	.	.	-1	ANKRD36C	HGNC	32946	protein_coding	.	.	ENSP00000407838	.	I1Z9D5_HUMAN,I1Z9D4_HUMAN,I1Z9D3_HUMAN,I1Z9D2_HUMAN,F8WEX4_HUMAN	UPI0002065901	.	deleterious(0)	benign(0.017)	54/58	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24176:SF1,hmmpanther:PTHR24176	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTTGGTGC	.	5	BLCA
COX17	0	.	GRCh37	3	119396058	119396058	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>A	p.Asp34Asn	p.D34N	ENST00000261070	1/3	17	11	6	13	13	0	COX17,missense_variant,p.Asp34Asn,ENST00000484810,;COX17,missense_variant,p.Asp34Asn,ENST00000261070,;COX17,missense_variant,p.Asp34Asn,ENST00000497116,;COX17,missense_variant,p.Asp34Asn,ENST00000468918,;COX17,missense_variant,p.Asp29Asn,ENST00000486606,;COX17,upstream_gene_variant,,ENST00000490145,;COX17,upstream_gene_variant,,ENST00000497997,;	T	ENSG00000138495	ENST00000261070	Transcript	missense_variant	193	100	34	D/N	Gat/Aat	.	.	.	-1	COX17	HGNC	2264	protein_coding	YES	CCDS2993.1	ENSP00000261070	COX17_HUMAN	.	UPI000013D132	.	deleterious(0)	probably_damaging(1)	1/3	.	hmmpanther:PTHR16719,Pfam_domain:PF05051,Gene3D:1.10.810.10,Superfamily_domains:SSF47072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCATCGCGCG	.	2	BLCA
PLXND1	0	.	GRCh37	3	129281952	129281952	+	Missense_Mutation	SNP	G	G	C	rs150232906	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4653C>G	p.Ile1551Met	p.I1551M	ENST00000324093	26/36	41	36	5	44	44	0	PLXND1,missense_variant,p.Ile1551Met,ENST00000324093,;PLXND1,missense_variant,p.Ile1551Met,ENST00000393239,;PLXND1,upstream_gene_variant,,ENST00000506979,;PLXND1,missense_variant,p.Ile146Met,ENST00000512744,;PLXND1,non_coding_transcript_exon_variant,,ENST00000503166,;PLXND1,non_coding_transcript_exon_variant,,ENST00000504979,;PLXND1,upstream_gene_variant,,ENST00000512807,;PLXND1,upstream_gene_variant,,ENST00000504524,;PLXND1,upstream_gene_variant,,ENST00000508630,;	C	ENSG00000004399	ENST00000324093	Transcript	missense_variant	4832	4653	1551	I/M	atC/atG	rs150232906	.	.	-1	PLXND1	HGNC	9107	protein_coding	YES	CCDS33854.1	ENSP00000317128	PLXD1_HUMAN	Q6P657_HUMAN	UPI00003671AD	.	deleterious(0)	probably_damaging(0.979)	26/36	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF7,Gene3D:3.10.20.90,Pfam_domain:PF08337	T:0.0012	T:0.0045	T:0	.	T:0	T:0	T:0	T:0.0027	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTCGATGTT	byFrequency|byCluster|by1000G	4	BLCA
DNAJC13	0	.	GRCh37	3	132226191	132226191	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5109A>G	p.%3D	p.Q1703Q	ENST00000260818	43/56	142	104	38	91	91	0	DNAJC13,synonymous_variant,p.%3D,ENST00000260818,;	G	ENSG00000138246	ENST00000260818	Transcript	synonymous_variant	5357	5109	1703	Q	caA/caG	.	.	.	1	DNAJC13	HGNC	30343	protein_coding	YES	CCDS33857.1	ENSP00000260818	DJC13_HUMAN	.	UPI000022C1FD	.	.	.	43/56	.	hmmpanther:PTHR24078,hmmpanther:PTHR24078:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCAACTGGA	.	5	BLCA
DLEC1	0	.	GRCh37	3	38136501	38136501	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2051G>A	p.Arg684Lys	p.R684K	ENST00000308059	13/37	78	53	24	68	68	0	DLEC1,missense_variant,p.Arg684Lys,ENST00000308059,;DLEC1,missense_variant,p.Arg684Lys,ENST00000346219,;DLEC1,missense_variant,p.Arg684Lys,ENST00000452631,;DLEC1,non_coding_transcript_exon_variant,,ENST00000440294,;DLEC1,intron_variant,,ENST00000447130,;	A	ENSG00000008226	ENST00000308059	Transcript	missense_variant	2072	2051	684	R/K	aGa/aAa	.	.	.	1	DLEC1	HGNC	2899	protein_coding	YES	CCDS2672.2	ENSP00000308597	DLEC1_HUMAN	.	UPI00006EB134	.	tolerated(0.4)	benign(0)	13/37	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAGAAAGG	.	5	BLCA
DHX30	0	.	GRCh37	3	47887807	47887807	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1245G>A	p.%3D	p.Q415Q	ENST00000445061	11/22	117	88	28	119	119	0	DHX30,synonymous_variant,p.%3D,ENST00000348968,;DHX30,synonymous_variant,p.%3D,ENST00000457607,;DHX30,synonymous_variant,p.%3D,ENST00000446256,;DHX30,synonymous_variant,p.%3D,ENST00000445061,;MAP4,downstream_gene_variant,,ENST00000426837,;MAP4,downstream_gene_variant,,ENST00000429422,;MAP4,downstream_gene_variant,,ENST00000395734,;MAP4,downstream_gene_variant,,ENST00000264724,;MAP4,downstream_gene_variant,,ENST00000383737,;MIR1226,upstream_gene_variant,,ENST00000408658,;DHX30,non_coding_transcript_exon_variant,,ENST00000461905,;DHX30,3_prime_UTR_variant,,ENST00000395745,;DHX30,upstream_gene_variant,,ENST00000474183,;DHX30,downstream_gene_variant,,ENST00000441384,;	A	ENSG00000132153	ENST00000445061	Transcript	synonymous_variant	1652	1245	415	Q	caG/caA	.	.	.	1	DHX30	HGNC	16716	protein_coding	YES	CCDS2759.1	ENSP00000405620	DHX30_HUMAN	H7BXY3_HUMAN	UPI000007112B	.	.	.	11/22	.	hmmpanther:PTHR18934:SF109,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCAGAGTCT	.	5	BLCA
DENND6A	0	.	GRCh37	3	57613884	57613884	+	3'UTR	SNP	A	A	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*57T>C	.	.	ENST00000311128	20/20	91	49	42	80	80	0	DENND6A,3_prime_UTR_variant,,ENST00000311128,;DENND6A,downstream_gene_variant,,ENST00000471531,;RP11-755B10.2,upstream_gene_variant,,ENST00000470427,;DENND6A,downstream_gene_variant,,ENST00000480710,;	G	ENSG00000174839	ENST00000311128	Transcript	3_prime_UTR_variant	1955	.	.	.	.	.	.	.	-1	DENND6A	HGNC	26635	protein_coding	YES	CCDS33773.1	ENSP00000311401	DEN6A_HUMAN	.	UPI00000744F6	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGAAATGTC	.	5	BLCA
TMEM184C	0	.	GRCh37	4	148545957	148545957	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294G>C	p.Trp98Cys	p.W98C	ENST00000296582	4/10	40	34	6	56	56	0	TMEM184C,missense_variant,p.Trp98Cys,ENST00000508208,;TMEM184C,missense_variant,p.Trp98Cys,ENST00000296582,;TMEM184C,upstream_gene_variant,,ENST00000505999,;	C	ENSG00000164168	ENST00000296582	Transcript	missense_variant	868	294	98	W/C	tgG/tgC	.	.	.	1	TMEM184C	HGNC	25587	protein_coding	YES	CCDS3770.1	ENSP00000296582	T184C_HUMAN	.	UPI000013E360	.	deleterious(0)	probably_damaging(0.999)	4/10	.	Pfam_domain:PF03619,hmmpanther:PTHR23423,hmmpanther:PTHR23423:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGTGGATAGC	.	5	BLCA
PCDH1	0	.	GRCh37	5	141236880	141236880	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3256G>A	p.Glu1086Lys	p.E1086K	ENST00000287008	4/5	34	23	11	43	43	0	PCDH1,missense_variant,p.Glu354Lys,ENST00000503492,;PCDH1,missense_variant,p.Glu1086Lys,ENST00000287008,;	T	ENSG00000156453	ENST00000287008	Transcript	missense_variant	3404	3256	1086	E/K	Gag/Aag	.	.	.	-1	PCDH1	HGNC	8655	protein_coding	YES	CCDS4267.1	ENSP00000287008	PCDH1_HUMAN	D6RBG2_HUMAN	UPI000016158F	.	deleterious(0)	probably_damaging(0.991)	4/5	.	hmmpanther:PTHR24027:SF30,hmmpanther:PTHR24027	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTCAGGCA	.	5	BLCA
PRELID2	0	.	GRCh37	5	145176089	145176089	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.426C>T	p.%3D	p.G142G	ENST00000334744	6/8	79	59	20	76	76	0	PRELID2,synonymous_variant,p.%3D,ENST00000394450,;PRELID2,synonymous_variant,p.%3D,ENST00000358004,;PRELID2,synonymous_variant,p.%3D,ENST00000334744,;PRELID2,synonymous_variant,p.%3D,ENST00000505416,;PRELID2,synonymous_variant,p.%3D,ENST00000511435,;PRELID2,non_coding_transcript_exon_variant,,ENST00000510594,;	A	ENSG00000186314	ENST00000334744	Transcript	synonymous_variant	479	426	142	G	ggC/ggT	.	.	.	-1	PRELID2	HGNC	28306	protein_coding	YES	CCDS34262.1	ENSP00000335675	PRLD2_HUMAN	.	UPI000006FB14	.	.	.	6/8	.	PROSITE_profiles:PS50904,hmmpanther:PTHR11158,hmmpanther:PTHR11158:SF20,Pfam_domain:PF04707	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTGCCTCT	.	5	BLCA
HK3	0	.	GRCh37	5	176314551	176314551	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1501C>T	p.Gln501Ter	p.Q501*	ENST00000292432	11/19	41	32	8	41	41	0	HK3,stop_gained,p.Gln501Ter,ENST00000292432,;HK3,upstream_gene_variant,,ENST00000514058,;HK3,non_coding_transcript_exon_variant,,ENST00000506834,;HK3,intron_variant,,ENST00000509717,;HK3,downstream_gene_variant,,ENST00000504910,;	A	ENSG00000160883	ENST00000292432	Transcript	stop_gained	1593	1501	501	Q/*	Cag/Tag	.	.	.	-1	HK3	HGNC	4925	protein_coding	YES	CCDS4407.1	ENSP00000292432	HXK3_HUMAN	.	UPI000006E237	.	.	.	11/19	.	hmmpanther:PTHR19443:SF1,hmmpanther:PTHR19443,Pfam_domain:PF00349,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTGAACCG	.	5	BLCA
F12	0	.	GRCh37	5	176829575	176829575	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1656C>T	p.%3D	p.L552L	ENST00000253496	13/14	17	13	4	21	21	0	F12,synonymous_variant,p.%3D,ENST00000253496,;GRK6,upstream_gene_variant,,ENST00000502598,;GRK6,upstream_gene_variant,,ENST00000506296,;SLC34A1,downstream_gene_variant,,ENST00000324417,;PFN3,upstream_gene_variant,,ENST00000358571,;F12,downstream_gene_variant,,ENST00000514943,;SLC34A1,downstream_gene_variant,,ENST00000513614,;F12,non_coding_transcript_exon_variant,,ENST00000504406,;F12,non_coding_transcript_exon_variant,,ENST00000502854,;F12,non_coding_transcript_exon_variant,,ENST00000510358,;F12,downstream_gene_variant,,ENST00000503736,;	A	ENSG00000131187	ENST00000253496	Transcript	synonymous_variant	1705	1656	552	L	ctC/ctT	.	.	.	-1	F12	HGNC	3530	protein_coding	YES	CCDS34302.1	ENSP00000253496	FA12_HUMAN	Q96EF3_HUMAN	UPI000048055F	.	.	.	13/14	.	Superfamily_domains:SSF50494,SMART_domains:SM00020,PIRSF_domain:PIRSF001146,Gene3D:2.40.10.10,Pfam_domain:PF00089,hmmpanther:PTHR24265:SF75,hmmpanther:PTHR24265,PROSITE_profiles:PS50240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCCTCGAGGAA	.	2	BLCA
CDH12	0	.	GRCh37	5	21842319	21842319	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765C>T	p.%3D	p.V255V	ENST00000382254	8/15	86	64	21	100	100	0	CDH12,synonymous_variant,p.%3D,ENST00000522262,;CDH12,synonymous_variant,p.%3D,ENST00000504376,;CDH12,synonymous_variant,p.%3D,ENST00000382254,;CDH12,non_coding_transcript_exon_variant,,ENST00000521384,;CDH12,non_coding_transcript_exon_variant,,ENST00000517378,;	A	ENSG00000154162	ENST00000382254	Transcript	synonymous_variant	1852	765	255	V	gtC/gtT	.	.	.	-1	CDH12	HGNC	1751	protein_coding	YES	CCDS3890.1	ENSP00000371689	CAD12_HUMAN	B3KRT0_HUMAN	UPI00000622EB	.	.	.	8/15	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF293,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTTGACTAT	.	5	BLCA
JMY	0	.	GRCh37	5	78610630	78610630	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2615G>A	p.Arg872Gln	p.R872Q	ENST00000396137	9/11	29	22	6	33	33	0	JMY,missense_variant,p.Arg872Gln,ENST00000396137,;JMY,intron_variant,,ENST00000412001,;	A	ENSG00000152409	ENST00000396137	Transcript	missense_variant	3077	2615	872	R/Q	cGg/cAg	.	.	.	1	JMY	HGNC	28916	protein_coding	YES	CCDS4047.3	ENSP00000379441	JMY_HUMAN	.	UPI0000E5AC67	.	deleterious(0.04)	probably_damaging(0.937)	9/11	.	hmmpanther:PTHR23330,hmmpanther:PTHR23330:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCACGGAAGA	.	5	BLCA
FAM172A	0	.	GRCh37	5	93294586	93294586	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463C>T	p.His155Tyr	p.H155Y	ENST00000395965	6/11	106	69	37	108	108	0	FAM172A,missense_variant,p.His109Tyr,ENST00000509163,;FAM172A,missense_variant,p.His155Tyr,ENST00000395965,;FAM172A,intron_variant,,ENST00000509739,;FAM172A,intron_variant,,ENST00000505869,;FAM172A,non_coding_transcript_exon_variant,,ENST00000504768,;FAM172A,missense_variant,p.His72Tyr,ENST00000502503,;FAM172A,non_coding_transcript_exon_variant,,ENST00000506398,;	A	ENSG00000113391	ENST00000395965	Transcript	missense_variant	606	463	155	H/Y	Cat/Tat	.	.	.	-1	FAM172A	HGNC	25365	protein_coding	YES	CCDS4069.1	ENSP00000379294	F172A_HUMAN	.	UPI000006DF3B	.	deleterious(0)	probably_damaging(0.915)	6/11	.	hmmpanther:PTHR21357,hmmpanther:PTHR21357:SF3,Gene3D:3.40.50.1820,Pfam_domain:PF09757,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATGAATTA	.	5	BLCA
RIOK2	0	.	GRCh37	5	96504509	96504509	+	Missense_Mutation	SNP	C	C	T	rs374850686	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.827G>A	p.Arg276His	p.R276H	ENST00000283109	7/10	88	82	6	86	86	0	RIOK2,missense_variant,p.Arg276His,ENST00000508447,;RIOK2,missense_variant,p.Arg276His,ENST00000283109,;CTD-2215E18.1,intron_variant,,ENST00000509481,;RIOK2,upstream_gene_variant,,ENST00000511012,;RIOK2,upstream_gene_variant,,ENST00000511293,;	T	ENSG00000058729	ENST00000283109	Transcript	missense_variant	896	827	276	R/H	cGt/cAt	rs374850686	.	.	-1	RIOK2	HGNC	18999	protein_coding	YES	CCDS4089.1	ENSP00000283109	RIOK2_HUMAN	.	UPI000013DD20	.	deleterious(0)	probably_damaging(0.951)	7/10	.	hmmpanther:PTHR10593:SF1,hmmpanther:PTHR10593,Pfam_domain:PF01163,Gene3D:1.10.510.10,SMART_domains:SM00090	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAACGTTTC	byFrequency|byCluster	2	BLCA
LAMA4	0	.	GRCh37	6	112575049	112575049	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195+109G>C	.	.	ENST00000230538	.	32	27	5	49	49	0	LAMA4,missense_variant,p.Glu102Gln,ENST00000453937,;LAMA4,missense_variant,p.Glu102Gln,ENST00000368638,;LAMA4,missense_variant,p.Glu102Gln,ENST00000455073,;LAMA4,intron_variant,,ENST00000521398,;LAMA4,intron_variant,,ENST00000521690,;LAMA4,intron_variant,,ENST00000389463,;LAMA4,intron_variant,,ENST00000519932,;LAMA4,intron_variant,,ENST00000424408,;LAMA4,intron_variant,,ENST00000243219,;LAMA4,intron_variant,,ENST00000522006,;LAMA4,intron_variant,,ENST00000230538,;LAMA4,intron_variant,,ENST00000431543,;RP11-506B6.6,intron_variant,,ENST00000590584,;RP11-506B6.6,intron_variant,,ENST00000585450,;RP11-506B6.6,intron_variant,,ENST00000587816,;RP11-506B6.6,intron_variant,,ENST00000588837,;RP11-506B6.6,intron_variant,,ENST00000590293,;RP11-506B6.6,intron_variant,,ENST00000585611,;RP11-506B6.6,intron_variant,,ENST00000590804,;RP11-506B6.6,intron_variant,,ENST00000585504,;RP11-506B6.6,intron_variant,,ENST00000433684,;RP11-506B6.6,intron_variant,,ENST00000590673,;	G	ENSG00000112769	ENST00000230538	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	.	.	.	2/38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACTCTCAAGGC	.	3	BLCA
TNXB	0	.	GRCh37	6	32032767	32032767	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6672C>T	p.%3D	p.F2224F	ENST00000375247	19/44	34	22	12	21	21	0	TNXB,synonymous_variant,p.%3D,ENST00000375247,;TNXB,synonymous_variant,p.%3D,ENST00000375244,;	A	ENSG00000168477	ENST00000375247	Transcript	synonymous_variant	6874	6672	2224	F	ttC/ttT	COSM1443512,COSM1443511	.	.	-1	TNXB	HGNC	11976	protein_coding	.	.	ENSP00000364396	TENX_HUMAN	Q9NPK8_HUMAN,Q9NPK7_HUMAN,B6RHJ5_HUMAN	UPI000174F11D	.	.	.	19/44	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR19143:SF190,hmmpanther:PTHR19143,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCAAGAAATG	.	5	BLCA
DNAH8	0	.	GRCh37	6	38841115	38841115	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6932C>T	p.Pro2311Leu	p.P2311L	ENST00000359357	50/91	83	73	10	119	119	0	DNAH8,missense_variant,p.Pro2311Leu,ENST00000359357,;DNAH8,missense_variant,p.Pro2516Leu,ENST00000327475,;DNAH8,missense_variant,p.Pro2275Leu,ENST00000441566,;DNAH8,missense_variant,p.Pro2528Leu,ENST00000449981,;DNAH8,downstream_gene_variant,,ENST00000394393,;	T	ENSG00000124721	ENST00000359357	Transcript	missense_variant	7186	6932	2311	P/L	cCc/cTc	.	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	possibly_damaging(0.573)	50/91	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAATCCCAAAA	.	4	BLCA
MED20	0	.	GRCh37	6	41874896	41874896	+	Missense_Mutation	SNP	C	C	T	rs760175473	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553G>A	p.Gly185Ser	p.G185S	ENST00000265350	4/4	49	41	8	78	78	0	MED20,missense_variant,p.Gly185Ser,ENST00000265350,;MED20,3_prime_UTR_variant,,ENST00000409312,;MED20,downstream_gene_variant,,ENST00000409060,;MED20,downstream_gene_variant,,ENST00000394251,;MED20,non_coding_transcript_exon_variant,,ENST00000482361,;MED20,non_coding_transcript_exon_variant,,ENST00000467535,;	T	ENSG00000124641	ENST00000265350	Transcript	missense_variant	634	553	185	G/S	Ggc/Agc	rs760175473	.	.	-1	MED20	HGNC	16840	protein_coding	YES	CCDS4862.1	ENSP00000265350	MED20_HUMAN	B3KUJ9_HUMAN,A6PVP4_HUMAN	UPI0000073C85	.	tolerated(0.79)	benign(0.001)	4/4	.	hmmpanther:PTHR12465,hmmpanther:PTHR12465:SF0,Pfam_domain:PF08612	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGCCGTAGA	.	5	BLCA
RHAG	0	.	GRCh37	6	49573475	49573475	+	3'UTR	SNP	T	T	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51A>T	.	.	ENST00000371175	10/10	60	42	18	78	78	0	RHAG,3_prime_UTR_variant,,ENST00000229810,;RHAG,3_prime_UTR_variant,,ENST00000371175,;	A	ENSG00000112077	ENST00000371175	Transcript	3_prime_UTR_variant	1308	.	.	.	.	.	.	.	-1	RHAG	HGNC	10006	protein_coding	YES	CCDS4927.1	ENSP00000360217	RHAG_HUMAN	Q9UL98_HUMAN,Q9UK69_HUMAN,Q9UHG8_HUMAN,Q9UBB8_HUMAN	UPI000006D18F	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGACTTCAGG	.	5	BLCA
BMP6	0	.	GRCh37	6	7880647	7880647	+	3'UTR	SNP	G	G	A	rs767986591	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71G>A	.	.	ENST00000283147	7/7	63	57	6	63	63	0	BMP6,3_prime_UTR_variant,,ENST00000283147,;TXNDC5,downstream_gene_variant,,ENST00000539054,;TXNDC5,downstream_gene_variant,,ENST00000379757,;TXNDC5,downstream_gene_variant,,ENST00000473453,;TXNDC5,downstream_gene_variant,,ENST00000475802,;BLOC1S5-TXNDC5,downstream_gene_variant,,ENST00000439343,;TXNDC5,downstream_gene_variant,,ENST00000460138,;	A	ENSG00000153162	ENST00000283147	Transcript	3_prime_UTR_variant	1772	.	.	.	.	rs767986591	.	.	1	BMP6	HGNC	1073	protein_coding	YES	CCDS4503.1	ENSP00000283147	BMP6_HUMAN	B4DUF7_HUMAN	UPI0000126A2D	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	AACACGGAAGC	.	2	BLCA
IBTK	0	.	GRCh37	6	82950048	82950048	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156C>T	p.%3D	p.G52G	ENST00000306270	2/29	44	40	4	57	57	0	IBTK,synonymous_variant,p.%3D,ENST00000510291,;IBTK,synonymous_variant,p.%3D,ENST00000503631,;IBTK,synonymous_variant,p.%3D,ENST00000306270,;IBTK,synonymous_variant,p.%3D,ENST00000503400,;IBTK,non_coding_transcript_exon_variant,,ENST00000505222,;IBTK,non_coding_transcript_exon_variant,,ENST00000369751,;	A	ENSG00000005700	ENST00000306270	Transcript	synonymous_variant	706	156	52	G	ggC/ggT	.	.	.	-1	IBTK	HGNC	17853	protein_coding	YES	CCDS34490.1	ENSP00000305721	IBTK_HUMAN	.	UPI000041929F	.	.	.	2/29	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR22872,hmmpanther:PTHR22872:SF2,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTGCCAAA	.	3	BLCA
DNAJC2	0	.	GRCh37	7	102960101	102960101	+	Silent	SNP	G	G	A	rs749456723	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1197C>T	p.%3D	p.L399L	ENST00000379263	12/17	42	32	9	39	39	0	DNAJC2,synonymous_variant,p.%3D,ENST00000379263,;DNAJC2,intron_variant,,ENST00000249270,;PMPCB,intron_variant,,ENST00000420236,;DNAJC2,downstream_gene_variant,,ENST00000454277,;DNAJC2,downstream_gene_variant,,ENST00000426036,;DNAJC2,non_coding_transcript_exon_variant,,ENST00000475090,;DNAJC2,non_coding_transcript_exon_variant,,ENST00000464253,;DNAJC2,non_coding_transcript_exon_variant,,ENST00000475065,;PMPCB,intron_variant,,ENST00000444457,;DNAJC2,upstream_gene_variant,,ENST00000492497,;DNAJC2,downstream_gene_variant,,ENST00000483637,;DNAJC2,downstream_gene_variant,,ENST00000379257,;	A	ENSG00000105821	ENST00000379263	Transcript	synonymous_variant	1448	1197	399	L	ctC/ctT	rs749456723	.	.	-1	DNAJC2	HGNC	13192	protein_coding	YES	CCDS43628.1	ENSP00000368565	DNJC2_HUMAN	Q08AR5_HUMAN,C9IZ83_HUMAN	UPI000020F858	.	.	.	12/17	.	hmmpanther:PTHR24078,hmmpanther:PTHR24078:SF67	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GATGTGAGTGT	byFrequency	4	BLCA
CYP3A5	0	.	GRCh37	7	99247777	99247777	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332G>A	p.Met444Ile	p.M444I	ENST00000222982	12/13	165	121	43	169	169	0	CYP3A5,missense_variant,p.Met444Ile,ENST00000222982,;CYP3A5,missense_variant,p.Met434Ile,ENST00000343703,;CYP3A5,3_prime_UTR_variant,,ENST00000339843,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000461920,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000469887,;CYP3A5,downstream_gene_variant,,ENST00000488187,;	T	ENSG00000106258	ENST00000222982	Transcript	missense_variant	1432	1332	444	M/I	atG/atA	.	.	.	-1	CYP3A5	HGNC	2638	protein_coding	YES	CCDS5672.1	ENSP00000222982	CP3A5_HUMAN	Q96RK6_HUMAN,Q7Z447_HUMAN,Q7Z446_HUMAN	UPI000000163D	.	deleterious(0)	possibly_damaging(0.793)	12/13	.	Prints_domain:PR00385,Superfamily_domains:SSF48264,Pfam_domain:PF00067,Gene3D:1.10.630.10,hmmpanther:PTHR24302:SF3,hmmpanther:PTHR24302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCTCATGCC	.	5	BLCA
GRHL2	0	.	GRCh37	8	102589686	102589686	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.942C>G	p.%3D	p.L314L	ENST00000251808	7/16	129	118	10	13	13	0	GRHL2,synonymous_variant,p.%3D,ENST00000251808,;GRHL2,synonymous_variant,p.%3D,ENST00000395927,;	G	ENSG00000083307	ENST00000251808	Transcript	synonymous_variant	1280	942	314	L	ctC/ctG	.	.	.	1	GRHL2	HGNC	2799	protein_coding	YES	CCDS34931.1	ENSP00000251808	GRHL2_HUMAN	.	UPI000013CD16	.	.	.	7/16	.	Pfam_domain:PF04516,hmmpanther:PTHR11037:SF17,hmmpanther:PTHR11037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGCTCAAATA	.	3	BLCA
GRHL2	0	.	GRCh37	8	102589737	102589737	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993C>G	p.%3D	p.V331V	ENST00000251808	7/16	95	87	8	11	11	0	GRHL2,synonymous_variant,p.%3D,ENST00000251808,;GRHL2,synonymous_variant,p.%3D,ENST00000395927,;	G	ENSG00000083307	ENST00000251808	Transcript	synonymous_variant	1331	993	331	V	gtC/gtG	.	.	.	1	GRHL2	HGNC	2799	protein_coding	YES	CCDS34931.1	ENSP00000251808	GRHL2_HUMAN	.	UPI000013CD16	.	.	.	7/16	.	Pfam_domain:PF04516,hmmpanther:PTHR11037:SF17,hmmpanther:PTHR11037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGGGTCCTTGA	.	2	BLCA
RAD21	0	.	GRCh37	8	117862883	117862883	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1594delG	p.Glu532LysfsTer80	p.E532Kfs*80	ENST00000297338	12/14	92	79	13	78	78	0	RAD21,frameshift_variant,p.Glu532LysfsTer80,ENST00000297338,;RAD21,frameshift_variant,p.Glu77LysfsTer80,ENST00000518055,;RAD21,frameshift_variant,p.Glu36LysfsTer80,ENST00000523986,;RAD21,upstream_gene_variant,,ENST00000517749,;UTP23,downstream_gene_variant,,ENST00000520733,;UTP23,downstream_gene_variant,,ENST00000517820,;UTP23,downstream_gene_variant,,ENST00000521703,;UTP23,downstream_gene_variant,,ENST00000524128,;	-	ENSG00000164754	ENST00000297338	Transcript	frameshift_variant	1882	1594	532	E/X	Gaa/aa	.	.	.	-1	RAD21	HGNC	9811	protein_coding	YES	CCDS6321.1	ENSP00000297338	RAD21_HUMAN	E5RJW1_HUMAN,E5RJK5_HUMAN,E5RIN7_HUMAN,E5RI01_HUMAN,E5RG18_HUMAN,E5RFZ5_HUMAN,E5RFV8_HUMAN	UPI0000133018	.	.	.	12/14	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12585:SF20,hmmpanther:PTHR12585	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTTTTTCCTTCT	.	3	BLCA
ENPP2	0	.	GRCh37	8	120631527	120631527	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>C	p.Asp146His	p.D146H	ENST00000259486	5/26	70	52	18	101	101	0	ENPP2,missense_variant,p.Asp146His,ENST00000259486,;ENPP2,missense_variant,p.Asp128His,ENST00000520066,;ENPP2,missense_variant,p.Asp146His,ENST00000075322,;ENPP2,missense_variant,p.Asp142His,ENST00000427067,;ENPP2,missense_variant,p.Asp146His,ENST00000522826,;ENPP2,missense_variant,p.Asp146His,ENST00000518958,;RP11-99I9.2,upstream_gene_variant,,ENST00000519781,;	G	ENSG00000136960	ENST00000259486	Transcript	missense_variant	486	436	146	D/H	Gat/Cat	.	.	.	-1	ENPP2	HGNC	3357	protein_coding	YES	CCDS6329.1	ENSP00000259486	ENPP2_HUMAN	.	UPI000013C57A	.	deleterious(0.04)	benign(0.067)	5/26	.	hmmpanther:PTHR10151,hmmpanther:PTHR10151:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S142S|c.426G>A|3,BUFFER|p.S142S|c.426G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCAACCC	.	5	BLCA
LOXL2	0	.	GRCh37	8	23160801	23160801	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1990G>C	p.Glu664Gln	p.E664Q	ENST00000389131	11/14	45	30	15	56	56	0	LOXL2,missense_variant,p.Glu664Gln,ENST00000389131,;	G	ENSG00000134013	ENST00000389131	Transcript	missense_variant	2360	1990	664	E/Q	Gaa/Caa	.	.	.	-1	LOXL2	HGNC	6666	protein_coding	YES	CCDS34864.1	ENSP00000373783	LOXL2_HUMAN	E5RJL2_HUMAN,E5RI22_HUMAN,E5RFE2_HUMAN	UPI000012E7AB	.	tolerated(0.4)	possibly_damaging(0.466)	11/14	.	Pfam_domain:PF01186,hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TCCTTCACATT	.	4	BLCA
COL15A1	0	.	GRCh37	9	101748257	101748257	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.511G>A	p.Glu171Lys	p.E171K	ENST00000375001	3/42	98	77	21	100	100	0	COL15A1,missense_variant,p.Glu171Lys,ENST00000375001,;COL15A1,non_coding_transcript_exon_variant,,ENST00000471477,;	A	ENSG00000204291	ENST00000375001	Transcript	missense_variant	934	511	171	E/K	Gag/Aag	.	.	.	1	COL15A1	HGNC	2192	protein_coding	YES	CCDS35081.1	ENSP00000364140	COFA1_HUMAN	.	UPI0000211506	.	tolerated(0.09)	benign(0.174)	3/42	.	Pfam_domain:PF13385,SMART_domains:SM00210,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGTGAGGAA	.	5	BLCA
LPPR1	0	.	GRCh37	9	103947746	103947746	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000374874	2/8	64	52	11	71	71	0	LPPR1,5_prime_UTR_variant,,ENST00000395056,;LPPR1,5_prime_UTR_variant,,ENST00000456287,;LPPR1,5_prime_UTR_variant,,ENST00000374874,;LPPR1,non_coding_transcript_exon_variant,,ENST00000494890,;	A	ENSG00000148123	ENST00000374874	Transcript	5_prime_UTR_variant	409	.	.	.	.	.	.	.	1	LPPR1	Uniprot_gn	.	protein_coding	YES	CCDS6751.1	ENSP00000364008	LPPR1_HUMAN	M9MML5_HUMAN,B7Z8R9_HUMAN	UPI0000034FFA	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTTGACGGT	.	5	BLCA
PAPPA	0	.	GRCh37	9	119097189	119097189	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3447C>G	p.%3D	p.V1149V	ENST00000328252	13/22	37	31	6	61	61	0	PAPPA,synonymous_variant,p.%3D,ENST00000328252,;PAPPA,synonymous_variant,p.%3D,ENST00000534838,;PAPPA,non_coding_transcript_exon_variant,,ENST00000460463,;	G	ENSG00000182752	ENST00000328252	Transcript	synonymous_variant	3816	3447	1149	V	gtC/gtG	.	.	.	1	PAPPA	HGNC	8602	protein_coding	YES	CCDS6813.1	ENSP00000330658	PAPP1_HUMAN	Q5QFB7_HUMAN,F5GZ19_HUMAN	UPI00001E0589	.	.	.	13/22	.	hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTCCATGA	.	5	BLCA
AL161784.1	0	.	GRCh37	9	124110341	124110341	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111C>T	p.%3D	p.L37L	ENST00000594963	2/2	101	79	22	119	119	0	AL161784.1,synonymous_variant,p.%3D,ENST00000594963,;STOM,synonymous_variant,p.%3D,ENST00000286713,;STOM,synonymous_variant,p.%3D,ENST00000538954,;STOM,intron_variant,,ENST00000347359,;	T	ENSG00000267987	ENST00000594963	Transcript	synonymous_variant	111	111	37	L	ctC/ctT	.	.	.	1	AL161784.1	Clone_based_ensembl_gene	.	protein_coding	YES	.	ENSP00000472130	.	Q9H376_HUMAN,M0R1V0_HUMAN	UPI00004577A2	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCTGGAG	.	5	BLCA
UBAP1	0	.	GRCh37	9	34241318	34241318	+	Missense_Mutation	SNP	G	G	A	rs766828858	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.487G>A	p.Asp163Asn	p.D163N	ENST00000545103	3/6	50	36	14	63	63	0	UBAP1,missense_variant,p.Asp135Asn,ENST00000543944,;UBAP1,missense_variant,p.Asp99Asn,ENST00000540348,;UBAP1,missense_variant,p.Asp99Asn,ENST00000359544,;UBAP1,missense_variant,p.Asp99Asn,ENST00000379186,;UBAP1,missense_variant,p.Asp163Asn,ENST00000545103,;UBAP1,missense_variant,p.Asp99Asn,ENST00000297661,;UBAP1,missense_variant,p.Asp99Asn,ENST00000536252,;	A	ENSG00000165006	ENST00000545103	Transcript	missense_variant	497	487	163	D/N	Gat/Aat	rs766828858	.	.	1	UBAP1	HGNC	12461	protein_coding	YES	CCDS55303.1	ENSP00000441024	UBAP1_HUMAN	.	UPI0001C2BF9D	.	tolerated(0.44)	benign(0.004)	3/6	.	hmmpanther:PTHR15960:SF2,hmmpanther:PTHR15960	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGCGATAGC	.	5	BLCA
KANK1	0	.	GRCh37	9	711641	711641	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.875C>G	p.Ser292Cys	p.S292C	ENST00000382303	7/16	64	44	19	69	69	0	KANK1,missense_variant,p.Ser134Cys,ENST00000382293,;KANK1,missense_variant,p.Ser292Cys,ENST00000382303,;KANK1,missense_variant,p.Ser292Cys,ENST00000382297,;KANK1,non_coding_transcript_exon_variant,,ENST00000489369,;KANK1,non_coding_transcript_exon_variant,,ENST00000354485,;	G	ENSG00000107104	ENST00000382303	Transcript	missense_variant	1527	875	292	S/C	tCt/tGt	.	.	.	1	KANK1	HGNC	19309	protein_coding	YES	CCDS34976.1	ENSP00000371740	KANK1_HUMAN	Q8WUM7_HUMAN,Q53U93_HUMAN	UPI00001AF26E	.	deleterious(0)	probably_damaging(0.921)	7/16	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24168,hmmpanther:PTHR24168:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCTGTCT	.	5	BLCA
SPATA31D1	0	.	GRCh37	9	84606360	84606360	+	Silent	SNP	G	G	A	rs557466931	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.975G>A	p.%3D	p.P325P	ENST00000344803	4/4	162	115	47	204	204	0	SPATA31D1,synonymous_variant,p.%3D,ENST00000344803,;SPATA31D1,downstream_gene_variant,,ENST00000603921,;	A	ENSG00000214929	ENST00000344803	Transcript	synonymous_variant	1022	975	325	P	ccG/ccA	rs557466931	.	.	1	SPATA31D1	HGNC	37283	protein_coding	YES	CCDS47986.1	ENSP00000341988	S31D1_HUMAN	.	UPI00001C10A6	.	.	.	4/4	.	hmmpanther:PTHR21859:SF12,hmmpanther:PTHR21859	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCCGGAAAT	by1000G	5	BLCA
RBM41	0	.	GRCh37	X	106310709	106310709	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*48C>G	.	.	ENST00000372479	7/7	191	149	41	224	224	0	RBM41,3_prime_UTR_variant,,ENST00000372479,;RBM41,intron_variant,,ENST00000372487,;RBM41,downstream_gene_variant,,ENST00000203616,;RBM41,downstream_gene_variant,,ENST00000434854,;RBM41,intron_variant,,ENST00000474499,;RBM41,3_prime_UTR_variant,,ENST00000495517,;	C	ENSG00000089682	ENST00000372479	Transcript	3_prime_UTR_variant	1321	.	.	.	.	.	.	.	-1	RBM41	HGNC	25617	protein_coding	YES	CCDS14526.1	ENSP00000361557	RBM41_HUMAN	.	UPI000013CC0E	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAAGATTCC	.	5	BLCA
PHF6	0	.	GRCh37	X	133527538	133527538	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.248C>T	p.Ser83Phe	p.S83F	ENST00000332070	4/10	113	69	44	152	152	0	PHF6,missense_variant,p.Ser83Phe,ENST00000394292,;PHF6,missense_variant,p.Ser83Phe,ENST00000370799,;PHF6,missense_variant,p.Ser83Phe,ENST00000332070,;PHF6,missense_variant,p.Ser49Phe,ENST00000416404,;PHF6,missense_variant,p.Ser83Phe,ENST00000370800,;PHF6,missense_variant,p.Ser83Phe,ENST00000370803,;	T	ENSG00000156531	ENST00000332070	Transcript	missense_variant	450	248	83	S/F	tCt/tTt	.	.	.	1	PHF6	HGNC	18145	protein_coding	YES	CCDS14639.1	ENSP00000329097	PHF6_HUMAN	B4E138_HUMAN	UPI0000074487	.	deleterious(0)	probably_damaging(0.938)	4/10	.	SMART_domains:SM00249,Gene3D:3.30.40.10,Pfam_domain:PF13771,hmmpanther:PTHR12420,hmmpanther:PTHR12420:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTTCTTTGT	.	5	BLCA
FAM127B	0	.	GRCh37	X	134185771	134185771	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*26C>T	.	.	ENST00000370775	1/1	22	15	7	37	37	0	FAM127B,3_prime_UTR_variant,,ENST00000370775,;FAM127B,intron_variant,,ENST00000522309,;FAM127B,intron_variant,,ENST00000520964,;FAM127B,intron_variant,,ENST00000518153,;	A	ENSG00000203950	ENST00000370775	Transcript	3_prime_UTR_variant	435	.	.	.	.	.	.	.	-1	FAM127B	HGNC	24514	protein_coding	YES	CCDS43998.1	ENSP00000375267	F127B_HUMAN	.	UPI0000140B18	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCCGCCCCC	.	5	BLCA
SPRY3	0	.	GRCh37	X	155004068	155004068	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535G>A	p.Glu179Lys	p.E179K	ENST00000302805	2/2	118	76	41	140	140	0	SPRY3,missense_variant,p.Glu179Lys,ENST00000302805,;	A	ENSG00000168939	ENST00000302805	Transcript	missense_variant	966	535	179	E/K	Gag/Aag	COSM3844163	.	.	1	SPRY3	HGNC	11271	protein_coding	YES	CCDS14769.4	ENSP00000302978	SPY3_HUMAN	.	UPI0000135E98	.	deleterious(0.01)	possibly_damaging(0.507)	2/2	.	PROSITE_profiles:PS51227,hmmpanther:PTHR12365:SF9,hmmpanther:PTHR12365,Pfam_domain:PF05210	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTGAGAGC	.	5	BLCA
MED14	0	.	GRCh37	X	40534580	40534580	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2914G>A	p.Asp972Asn	p.D972N	ENST00000324817	22/31	48	36	12	70	70	0	MED14,missense_variant,p.Asp972Asn,ENST00000324817,;MED14,non_coding_transcript_exon_variant,,ENST00000496531,;	T	ENSG00000180182	ENST00000324817	Transcript	missense_variant	3033	2914	972	D/N	Gat/Aat	COSM757285	.	.	-1	MED14	HGNC	2370	protein_coding	YES	CCDS14254.1	ENSP00000323720	MED14_HUMAN	.	UPI00001414B1	.	tolerated(0.46)	benign(0.008)	22/31	.	hmmpanther:PTHR12809,hmmpanther:PTHR12809:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCCTGAT	.	5	BLCA
KDM6A	0	.	GRCh37	X	44929442	44929443	+	Frame_Shift_Del	DEL	CA	CA	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	CA	CA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2542_2543delCAinsT	p.His848SerfsTer19	p.H848Sfs*19	ENST00000377967	17/29	53	37	16	53	53	0	KDM6A,frameshift_variant,p.His491SerfsTer19,ENST00000433797,;KDM6A,frameshift_variant,p.His446SerfsTer19,ENST00000414389,;KDM6A,frameshift_variant,p.His769SerfsTer19,ENST00000543216,;KDM6A,frameshift_variant,p.His855SerfsTer19,ENST00000382899,;KDM6A,frameshift_variant,p.His848SerfsTer19,ENST00000377967,;KDM6A,frameshift_variant,p.His803SerfsTer19,ENST00000536777,;	T	ENSG00000147050	ENST00000377967	Transcript	frameshift_variant	2583-2584	2542-2543	848	H/X	CAc/Tc	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	17/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	AGCCCTCACAGTG	.	5	BLCA
PAGE5	0	.	GRCh37	X	55247847	55247847	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.92C>G	p.Ser31Ter	p.S31*	ENST00000289619	2/5	76	66	10	77	77	0	PAGE5,stop_gained,p.Ser11Ter,ENST00000374952,;PAGE5,stop_gained,p.Ser31Ter,ENST00000289619,;PAGE5,stop_gained,p.Ser11Ter,ENST00000374955,;	G	ENSG00000158639	ENST00000289619	Transcript	stop_gained	337	92	31	S/*	tCa/tGa	COSM1558563	.	.	1	PAGE5	HGNC	29992	protein_coding	YES	CCDS14368.1	ENSP00000289619	PAGE5_HUMAN	.	UPI0000071A52	.	.	.	2/5	.	Pfam_domain:PF05831,hmmpanther:PTHR14047,hmmpanther:PTHR14047:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCCTCAGAAA	.	4	BLCA
PBDC1	0	.	GRCh37	X	75393483	75393483	+	Missense_Mutation	SNP	G	G	A	rs781911481	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.94G>A	p.Asp32Asn	p.D32N	ENST00000373358	2/6	96	60	35	154	153	0	PBDC1,missense_variant,p.Asp32Asn,ENST00000373358,;PBDC1,missense_variant,p.Asp32Asn,ENST00000373357,;	A	ENSG00000102390	ENST00000373358	Transcript	missense_variant	297	94	32	D/N	Gat/Aat	rs781911481,COSM1756669,COSM4005177	.	.	1	PBDC1	HGNC	28790	protein_coding	YES	CCDS14432.1	ENSP00000362456	PBDC1_HUMAN	Q9P0N4_HUMAN	UPI0000072009	.	deleterious(0.05)	benign(0.284)	2/6	.	hmmpanther:PTHR13410,Gene3D:2jynA01	T:0.0003	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAACGATGTG	byCluster|by1000G	5	BLCA
DIAPH2	0	.	GRCh37	X	96684678	96684678	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A8HH-01A-11D-A38G-08	TCGA-XF-A8HH-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3175C>T	p.Leu1059Phe	p.L1059F	ENST00000324765	26/27	38	30	7	62	62	0	DIAPH2,missense_variant,p.Leu1055Phe,ENST00000373054,;DIAPH2,missense_variant,p.Leu1059Phe,ENST00000355827,;DIAPH2,missense_variant,p.Leu1059Phe,ENST00000324765,;DIAPH2,missense_variant,p.Leu1059Phe,ENST00000373049,;DIAPH2,missense_variant,p.Leu1059Phe,ENST00000373061,;DIAPH2-AS1,downstream_gene_variant,,ENST00000439759,;	T	ENSG00000147202	ENST00000324765	Transcript	missense_variant	3522	3175	1059	L/F	Ctt/Ttt	.	.	.	1	DIAPH2	HGNC	2877	protein_coding	YES	CCDS14467.1	ENSP00000321348	DIAP2_HUMAN	.	UPI00001293C8	.	deleterious(0)	probably_damaging(1)	26/27	.	PROSITE_profiles:PS51231,hmmpanther:PTHR23213:SF174,hmmpanther:PTHR23213,Pfam_domain:PF06345,SMART_domains:SM00498	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ATAATCTTCTA	.	4	BLCA
CUTC	0	.	GRCh37	10	101503815	101503815	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.425T>G	p.Val142Gly	p.V142G	ENST00000370476	5/9	37	33	4	86	86	0	CUTC,missense_variant,p.Val142Gly,ENST00000370476,;CUTC,missense_variant,p.Val79Gly,ENST00000370472,;CUTC,downstream_gene_variant,,ENST00000493385,;CUTC,missense_variant,p.Val142Gly,ENST00000471520,;	G	ENSG00000119929	ENST00000370476	Transcript	missense_variant	554	425	142	V/G	gTc/gGc	.	.	.	1	CUTC	HGNC	24271	protein_coding	YES	CCDS7483.1	ENSP00000359507	CUTC_HUMAN	Q5TCZ7_HUMAN	UPI000007091E	.	deleterious(0.02)	benign(0.406)	5/9	.	HAMAP:MF_00795,hmmpanther:PTHR12598:SF0,hmmpanther:PTHR12598,Pfam_domain:PF03932,Gene3D:1twdB00,Superfamily_domains:0049721	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L140V|c.418C>G|3	RADIA|MUTECT|MUSE|VARSCANS	GCCAGTCACTT	.	4	BLCA
BLOC1S2	0	.	GRCh37	10	102046364	102046364	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.53G>A	p.Arg18Gln	p.R18Q	ENST00000370372	1/5	19	15	4	33	33	0	BLOC1S2,missense_variant,p.Arg18Gln,ENST00000370372,;PKD2L1,downstream_gene_variant,,ENST00000465680,;PKD2L1,downstream_gene_variant,,ENST00000353274,;BLOC1S2,upstream_gene_variant,,ENST00000579542,;PKD2L1,downstream_gene_variant,,ENST00000338519,;PKD2L1,downstream_gene_variant,,ENST00000318222,;BLOC1S2,upstream_gene_variant,,ENST00000441611,;BLOC1S2,splice_region_variant,,ENST00000361832,;PKD2L1,downstream_gene_variant,,ENST00000528248,;	T	ENSG00000196072	ENST00000370372	Transcript	missense_variant	106	53	18	R/Q	cGa/cAa	.	.	.	-1	BLOC1S2	HGNC	20984	protein_coding	YES	CCDS7490.1	ENSP00000359398	BL1S2_HUMAN	F1T0F0_HUMAN	UPI00000358DA	.	tolerated(0.21)	benign(0.002)	1/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10668,hmmpanther:PTHR10668:SF66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCGGGCG	.	4	BLCA
SEPHS1	0	.	GRCh37	10	13361330	13361330	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.991G>A	p.Glu331Lys	p.E331K	ENST00000327347	9/9	279	232	47	303	301	1	SEPHS1,missense_variant,p.Glu260Lys,ENST00000378614,;SEPHS1,missense_variant,p.Glu264Lys,ENST00000537130,;SEPHS1,missense_variant,p.Glu331Lys,ENST00000327347,;SEPHS1,3_prime_UTR_variant,,ENST00000545675,;	T	ENSG00000086475	ENST00000327347	Transcript	missense_variant	1367	991	331	E/K	Gag/Aag	.	.	.	-1	SEPHS1	HGNC	19685	protein_coding	YES	CCDS7098.1	ENSP00000367893	SPS1_HUMAN	Q5T5U7_HUMAN,Q5T5U6_HUMAN	UPI0000135E82	.	tolerated(0.06)	possibly_damaging(0.523)	9/9	.	Superfamily_domains:SSF56042,PIRSF_domain:PIRSF036407,Pfam_domain:PF02769,TIGRFAM_domain:TIGR00476,Gene3D:3.90.650.10,hmmpanther:PTHR10256,hmmpanther:PTHR10256:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCTCACGTG	.	4	BLCA
LRRC27	0	.	GRCh37	10	134161828	134161828	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894G>C	p.Glu298Asp	p.E298D	ENST00000368614	6/11	98	46	52	142	142	0	LRRC27,missense_variant,p.Glu298Asp,ENST00000368614,;LRRC27,missense_variant,p.Glu298Asp,ENST00000344079,;LRRC27,missense_variant,p.Glu298Asp,ENST00000368615,;LRRC27,missense_variant,p.Glu298Asp,ENST00000368613,;LRRC27,missense_variant,p.Glu298Asp,ENST00000392638,;LRRC27,missense_variant,p.Glu236Asp,ENST00000368612,;LRRC27,missense_variant,p.Glu171Asp,ENST00000432555,;LRRC27,missense_variant,p.Glu236Asp,ENST00000368610,;LRRC27,missense_variant,p.Glu250Asp,ENST00000450442,;LRRC27,downstream_gene_variant,,ENST00000356571,;LRRC27,non_coding_transcript_exon_variant,,ENST00000462656,;LRRC27,non_coding_transcript_exon_variant,,ENST00000472387,;LRRC27,upstream_gene_variant,,ENST00000472556,;LRRC27,downstream_gene_variant,,ENST00000490055,;LRRC27,downstream_gene_variant,,ENST00000489204,;LRRC27,upstream_gene_variant,,ENST00000475747,;	C	ENSG00000148814	ENST00000368614	Transcript	missense_variant	999	894	298	E/D	gaG/gaC	.	.	.	1	LRRC27	HGNC	29346	protein_coding	YES	CCDS31316.1	ENSP00000357603	LRC27_HUMAN	.	UPI0000141386	.	tolerated(0.29)	benign(0.054)	6/11	.	hmmpanther:PTHR23155:SF255,hmmpanther:PTHR23155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTGAGAAAGA	.	5	BLCA
VIM	0	.	GRCh37	10	17271444	17271444	+	Missense_Mutation	SNP	C	C	T	rs779204525	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23C>T	p.Ser8Leu	p.S8L	ENST00000544301	2/10	24	18	5	27	27	0	VIM,missense_variant,p.Ser8Leu,ENST00000224237,;VIM,missense_variant,p.Ser8Leu,ENST00000544301,;VIM,upstream_gene_variant,,ENST00000421459,;VIM-AS1,non_coding_transcript_exon_variant,,ENST00000605833,;VIM-AS1,upstream_gene_variant,,ENST00000437232,;RP11-124N14.3,downstream_gene_variant,,ENST00000456355,;VIM,non_coding_transcript_exon_variant,,ENST00000485947,;VIM,non_coding_transcript_exon_variant,,ENST00000478746,;VIM,non_coding_transcript_exon_variant,,ENST00000478317,;VIM,non_coding_transcript_exon_variant,,ENST00000497849,;VIM,upstream_gene_variant,,ENST00000495528,;VIM,missense_variant,p.Ser8Leu,ENST00000487938,;VIM,upstream_gene_variant,,ENST00000469543,;	T	ENSG00000026025	ENST00000544301	Transcript	missense_variant	436	23	8	S/L	tCg/tTg	rs779204525	.	.	1	VIM	HGNC	12692	protein_coding	YES	CCDS7120.1	ENSP00000446007	VIME_HUMAN	.	UPI00000012EB	.	deleterious(0.02)	possibly_damaging(0.488)	2/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23239:SF27,hmmpanther:PTHR23239,Pfam_domain:PF04732	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCGTCCT	.	5	BLCA
NEBL-AS1	0	.	GRCh37	10	21462760	21462760	+	5'Flank	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000439097	.	25	21	4	44	44	0	NEBL,start_lost,p.Met1?,ENST00000417816,;NEBL-AS1,upstream_gene_variant,,ENST00000417845,;NEBL-AS1,upstream_gene_variant,,ENST00000439097,;NEBL,non_coding_transcript_exon_variant,,ENST00000464278,;NEBL,upstream_gene_variant,,ENST00000485750,;	T	ENSG00000231920	ENST00000439097	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	183	1	NEBL-AS1	HGNC	44899	antisense	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTTCATGAT	.	2	BLCA
PFKP	0	.	GRCh37	10	3149487	3149487	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856G>A	p.Glu286Lys	p.E286K	ENST00000381125	8/22	64	58	6	68	68	0	PFKP,missense_variant,p.Glu70Lys,ENST00000468050,;PFKP,missense_variant,p.Glu286Lys,ENST00000381125,;PFKP,missense_variant,p.Glu70Lys,ENST00000415005,;PFKP,missense_variant,p.Glu278Lys,ENST00000381075,;PFKP,downstream_gene_variant,,ENST00000407806,;PFKP,downstream_gene_variant,,ENST00000460445,;PFKP,downstream_gene_variant,,ENST00000421751,;	A	ENSG00000067057	ENST00000381125	Transcript	missense_variant	932	856	286	E/K	Gag/Aag	COSM1474583,COSM1474584	.	.	1	PFKP	HGNC	8878	protein_coding	YES	CCDS7059.1	ENSP00000370517	K6PP_HUMAN	Q5VSR6_HUMAN,Q5VSR5_HUMAN,B1APP8_HUMAN,B1APP6_HUMAN	UPI00000012D2	.	deleterious(0.03)	benign(0.263)	8/22	.	Superfamily_domains:SSF53784,PIRSF_domain:PIRSF000533,TIGRFAM_domain:TIGR02478,Pfam_domain:PF00365,hmmpanther:PTHR13697:SF5,hmmpanther:PTHR13697,HAMAP:MF_00339	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTGAGAAA	.	4	BLCA
PCDH15	0	.	GRCh37	10	55943323	55943323	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1471G>A	p.Glu491Lys	p.E491K	ENST00000361849	13/34	55	49	6	118	118	0	PCDH15,missense_variant,p.Glu491Lys,ENST00000437009,;PCDH15,missense_variant,p.Glu469Lys,ENST00000395433,;PCDH15,missense_variant,p.Glu498Lys,ENST00000395445,;PCDH15,missense_variant,p.Glu491Lys,ENST00000320301,;PCDH15,missense_variant,p.Glu102Lys,ENST00000409834,;PCDH15,missense_variant,p.Glu454Lys,ENST00000395432,;PCDH15,missense_variant,p.Glu491Lys,ENST00000373955,;PCDH15,missense_variant,p.Glu469Lys,ENST00000373957,;PCDH15,missense_variant,p.Glu491Lys,ENST00000361849,;PCDH15,missense_variant,p.Glu491Lys,ENST00000395438,;PCDH15,missense_variant,p.Glu491Lys,ENST00000395446,;PCDH15,missense_variant,p.Glu496Lys,ENST00000414778,;PCDH15,missense_variant,p.Glu498Lys,ENST00000373965,;PCDH15,missense_variant,p.Glu491Lys,ENST00000395430,;PCDH15,intron_variant,,ENST00000395440,;PCDH15,intron_variant,,ENST00000395442,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,missense_variant,p.Glu491Lys,ENST00000448885,;PCDH15,intron_variant,,ENST00000373956,;PCDH15,intron_variant,,ENST00000414367,;	T	ENSG00000150275	ENST00000361849	Transcript	missense_variant	1866	1471	491	E/K	Gag/Aag	.	.	.	-1	PCDH15	HGNC	14674	protein_coding	YES	CCDS44404.1	ENSP00000354950	.	A2A3E7_HUMAN,A2A3D9_HUMAN	UPI0000EE048B	.	tolerated(0.8)	benign(0.008)	13/34	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF11,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.I494I|c.1482C>T|3,BUFFER|p.I499I|c.1497C>T|3,BUFFER|p.I494I|c.1482C>T|3,BUFFER|p.I499I|c.1497C>T|3	RADIA|MUTECT|MUSE|VARSCANS	TGGCTCACTTT	.	4	BLCA
TTC18	0	.	GRCh37	10	75107979	75107979	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364C>T	p.Gln122Ter	p.Q122*	ENST00000310715	5/28	40	35	5	74	74	0	TTC18,stop_gained,p.Gln122Ter,ENST00000340329,;TTC18,stop_gained,p.Gln122Ter,ENST00000401621,;TTC18,stop_gained,p.Gln122Ter,ENST00000310715,;TTC18,stop_gained,p.Gln122Ter,ENST00000394865,;TTC18,5_prime_UTR_variant,,ENST00000355577,;Y_RNA,downstream_gene_variant,,ENST00000384742,;TTC18,intron_variant,,ENST00000493787,;	A	ENSG00000156042	ENST00000310715	Transcript	stop_gained	485	364	122	Q/*	Caa/Taa	.	.	.	-1	TTC18	HGNC	30726	protein_coding	YES	CCDS7324.3	ENSP00000310829	.	.	UPI00001AEF7A	.	.	.	5/28	.	hmmpanther:PTHR23083,hmmpanther:PTHR23083:SF361	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTTTGAAATG	.	4	BLCA
RP11-574K11.28	0	.	GRCh37	10	75482236	75482236	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.608C>G	.	.	ENST00000580790	5/12	44	40	4	72	72	0	RP11-574K11.28,non_coding_transcript_exon_variant,,ENST00000580790,;RP11-464F9.1,non_coding_transcript_exon_variant,,ENST00000449532,;RP11-464F9.1,non_coding_transcript_exon_variant,,ENST00000399449,;BMS1P4,non_coding_transcript_exon_variant,,ENST00000584747,;BMS1P4,non_coding_transcript_exon_variant,,ENST00000441263,;	C	ENSG00000271816	ENST00000580790	Transcript	non_coding_transcript_exon_variant	608	.	.	.	.	.	.	.	-1	RP11-574K11.28	Clone_based_vega_gene	.	processed_transcript	YES	.	.	.	.	.	.	.	.	5/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGTGAGAACTC	.	3	BLCA
DLG5	0	.	GRCh37	10	79584175	79584175	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2349C>T	p.%3D	p.S783S	ENST00000372391	14/32	26	17	9	33	33	0	DLG5,synonymous_variant,p.%3D,ENST00000424842,;DLG5,synonymous_variant,p.%3D,ENST00000372388,;DLG5,synonymous_variant,p.%3D,ENST00000372391,;DLG5,upstream_gene_variant,,ENST00000459739,;DLG5,3_prime_UTR_variant,,ENST00000468332,;DLG5,non_coding_transcript_exon_variant,,ENST00000475613,;DLG5,non_coding_transcript_exon_variant,,ENST00000466198,;DLG5,upstream_gene_variant,,ENST00000463362,;DLG5,upstream_gene_variant,,ENST00000476354,;	A	ENSG00000151208	ENST00000372391	Transcript	synonymous_variant	2355	2349	783	S	agC/agT	.	.	.	-1	DLG5	HGNC	2904	protein_coding	YES	CCDS7353.2	ENSP00000361467	DLG5_HUMAN	.	UPI0000470041	.	.	.	14/32	.	PROSITE_profiles:PS50106,hmmpanther:PTHR13865,Gene3D:2.30.42.10,Pfam_domain:PF00595,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGCTGCG	.	5	BLCA
ADM	0	.	GRCh37	11	10328161	10328161	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531G>A	p.%3D	p.P177P	ENST00000528655	3/3	27	24	3	34	34	0	ADM,synonymous_variant,p.%3D,ENST00000534464,;ADM,synonymous_variant,p.%3D,ENST00000530439,;ADM,synonymous_variant,p.%3D,ENST00000278175,;ADM,synonymous_variant,p.%3D,ENST00000525063,;ADM,synonymous_variant,p.%3D,ENST00000528655,;ADM,downstream_gene_variant,,ENST00000524948,;ADM,downstream_gene_variant,,ENST00000528544,;ADM,downstream_gene_variant,,ENST00000526492,;RP11-351I24.1,upstream_gene_variant,,ENST00000526906,;AMPD3,upstream_gene_variant,,ENST00000527261,;	A	ENSG00000148926	ENST00000528655	Transcript	synonymous_variant	1148	531	177	P	ccG/ccA	.	.	.	1	ADM	HGNC	259	protein_coding	YES	CCDS7801.1	ENSP00000436607	ADML_HUMAN	E9PL83_HUMAN	UPI00001255F0	.	.	.	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23414,hmmpanther:PTHR23414:SF3,Prints_domain:PR00801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCCGAGTGG	.	2	BLCA
ACAT1	0	.	GRCh37	11	108005920	108005920	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386G>A	p.Gly129Glu	p.G129E	ENST00000265838	5/12	93	88	5	149	149	0	ACAT1,missense_variant,p.Gly129Glu,ENST00000265838,;ACAT1,missense_variant,p.Gly65Glu,ENST00000528370,;ACAT1,missense_variant,p.Gly129Glu,ENST00000299355,;ACAT1,missense_variant,p.Gly39Glu,ENST00000527942,;ACAT1,downstream_gene_variant,,ENST00000526119,;ACAT1,downstream_gene_variant,,ENST00000531853,;ACAT1,intron_variant,,ENST00000531813,;ACAT1,upstream_gene_variant,,ENST00000534773,;ACAT1,upstream_gene_variant,,ENST00000533610,;ACAT1,downstream_gene_variant,,ENST00000524833,;ACAT1,upstream_gene_variant,,ENST00000532792,;	A	ENSG00000075239	ENST00000265838	Transcript	missense_variant	477	386	129	G/E	gGa/gAa	.	.	.	1	ACAT1	HGNC	93	protein_coding	YES	CCDS8339.1	ENSP00000265838	THIL_HUMAN	E9PKF3_HUMAN	UPI0000136E41	.	deleterious(0)	probably_damaging(0.994)	5/12	.	Superfamily_domains:SSF53901,PIRSF_domain:PIRSF000429,TIGRFAM_domain:TIGR01930,Pfam_domain:PF00108,Gene3D:3.40.47.10,PROSITE_patterns:PS00098,hmmpanther:PTHR18919:SF79,hmmpanther:PTHR18919	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCAGGAATGA	.	2	BLCA
NPAT	0	.	GRCh37	11	108043625	108043625	+	Missense_Mutation	SNP	C	C	T	rs572830572	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2086G>A	p.Glu696Lys	p.E696K	ENST00000278612	13/18	52	42	9	78	78	0	NPAT,missense_variant,p.Glu696Lys,ENST00000278612,;NPAT,non_coding_transcript_exon_variant,,ENST00000610253,;NPAT,upstream_gene_variant,,ENST00000530859,;	T	ENSG00000149308	ENST00000278612	Transcript	missense_variant	2192	2086	696	E/K	Gaa/Aaa	rs572830572,COSM685603	.	.	-1	NPAT	HGNC	7896	protein_coding	YES	CCDS41710.1	ENSP00000278612	NPAT_HUMAN	.	UPI00001FA306	.	tolerated(0.18)	benign(0.023)	13/18	.	hmmpanther:PTHR15087:SF5,hmmpanther:PTHR15087	G:0.0014	G:0	G:0	.	G:0.0069	G:0	G:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTACAG	byFrequency|by1000G	5	BLCA
ZC3H12C	0	.	GRCh37	11	110007781	110007781	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415G>A	p.Asp139Asn	p.D139N	ENST00000278590	2/6	32	22	9	37	37	0	ZC3H12C,missense_variant,p.Asp108Asn,ENST00000453089,;ZC3H12C,missense_variant,p.Asp139Asn,ENST00000278590,;ZC3H12C,missense_variant,p.Asp140Asn,ENST00000528673,;	A	ENSG00000149289	ENST00000278590	Transcript	missense_variant	466	415	139	D/N	Gac/Aac	.	.	.	1	ZC3H12C	HGNC	29362	protein_coding	YES	CCDS44727.1	ENSP00000278590	ZC12C_HUMAN	E9PP00_HUMAN	UPI0000DD80B8	.	deleterious(0)	benign(0.415)	2/6	.	hmmpanther:PTHR12876,hmmpanther:PTHR12876:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCAAGACTTT	.	5	BLCA
AMICA1	0	.	GRCh37	11	118083210	118083210	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.110C>T	p.Ser37Leu	p.S37L	ENST00000356289	3/10	63	57	6	68	67	1	AMICA1,missense_variant,p.Ser27Leu,ENST00000292067,;AMICA1,missense_variant,p.Ser37Leu,ENST00000533261,;AMICA1,missense_variant,p.Ser37Leu,ENST00000525565,;AMICA1,missense_variant,p.Ser37Leu,ENST00000356289,;AMICA1,5_prime_UTR_variant,,ENST00000524477,;AMICA1,5_prime_UTR_variant,,ENST00000526620,;AMICA1,5_prime_UTR_variant,,ENST00000526595,;AMICA1,non_coding_transcript_exon_variant,,ENST00000534294,;AMICA1,non_coding_transcript_exon_variant,,ENST00000529164,;AMICA1,intron_variant,,ENST00000527877,;AMICA1,upstream_gene_variant,,ENST00000531536,;HSPE1P18,upstream_gene_variant,,ENST00000517602,;	A	ENSG00000160593	ENST00000356289	Transcript	missense_variant	284	110	37	S/L	tCa/tTa	.	.	.	-1	AMICA1	HGNC	19084	protein_coding	YES	CCDS41723.1	ENSP00000348635	JAML1_HUMAN	Q496M1_HUMAN,E9PNS8_HUMAN,E9PJJ4_HUMAN	UPI000000D82D	.	deleterious(0.04)	probably_damaging(0.996)	3/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13869,hmmpanther:PTHR13869:SF22,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCTGAATCA	.	2	BLCA
UPK2	0	.	GRCh37	11	118828036	118828036	+	Silent	SNP	C	C	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327C>A	p.%3D	p.L109L	ENST00000264031	3/5	27	23	4	30	30	0	UPK2,synonymous_variant,p.%3D,ENST00000264031,;RP11-158I9.7,upstream_gene_variant,,ENST00000584831,;UPK2,intron_variant,,ENST00000534788,;	A	ENSG00000110375	ENST00000264031	Transcript	synonymous_variant	362	327	109	L	ctC/ctA	COSM1746070	.	.	1	UPK2	HGNC	12579	protein_coding	YES	CCDS8404.1	ENSP00000264031	UPK2_HUMAN	Q9UEE8_HUMAN	UPI0000137CD3	.	.	.	3/5	.	hmmpanther:PTHR17573,Pfam_domain:PF07353,PIRSF_domain:PIRSF016439	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACCTCGTGCC	.	2	BLCA
THY1	0	.	GRCh37	11	119290911	119290911	+	Missense_Mutation	SNP	G	G	A	rs11546392	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223C>T	p.Arg75Cys	p.R75C	ENST00000284240	3/4	126	112	14	149	149	0	THY1,missense_variant,p.Arg75Cys,ENST00000524659,;THY1,missense_variant,p.Arg75Cys,ENST00000524970,;THY1,missense_variant,p.Arg75Cys,ENST00000528522,;THY1,missense_variant,p.Arg75Cys,ENST00000284240,;THY1,missense_variant,p.Arg58Cys,ENST00000580275,;USP2-AS1,intron_variant,,ENST00000500970,;USP2-AS1,intron_variant,,ENST00000578923,;USP2-AS1,intron_variant,,ENST00000498979,;USP2-AS1,intron_variant,,ENST00000530002,;RP11-334E6.12,downstream_gene_variant,,ENST00000578216,;THY1,non_coding_transcript_exon_variant,,ENST00000527590,;THY1,3_prime_UTR_variant,,ENST00000528295,;THY1,non_coding_transcript_exon_variant,,ENST00000532974,;THY1,non_coding_transcript_exon_variant,,ENST00000584021,;THY1,downstream_gene_variant,,ENST00000533840,;	A	ENSG00000154096	ENST00000284240	Transcript	missense_variant	1263	223	75	R/C	Cgc/Tgc	rs11546392	.	.	-1	THY1	HGNC	11801	protein_coding	YES	CCDS8424.1	ENSP00000284240	THY1_HUMAN	E9PIM6_HUMAN,B0YJA4_HUMAN	UPI0000136F1F	.	deleterious(0)	probably_damaging(0.984)	3/4	.	Superfamily_domains:SSF48726,SMART_domains:SM00406,Pfam_domain:PF00047,Gene3D:2.60.40.10,hmmpanther:PTHR19226,hmmpanther:PTHR19226:SF2,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGCGGTATG	byCluster|byHapMap	4	BLCA
MICAL2	0	.	GRCh37	11	12242003	12242003	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1204G>A	p.Glu402Lys	p.E402K	ENST00000256194	9/28	36	30	6	59	59	0	MICAL2,missense_variant,p.Glu402Lys,ENST00000379612,;MICAL2,missense_variant,p.Glu402Lys,ENST00000256194,;MICAL2,missense_variant,p.Glu402Lys,ENST00000527546,;MICAL2,missense_variant,p.Glu402Lys,ENST00000342902,;MICAL2,missense_variant,p.Glu402Lys,ENST00000537344,;MICAL2,splice_region_variant,,ENST00000528931,;MICAL2,splice_region_variant,,ENST00000530691,;MICAL2,downstream_gene_variant,,ENST00000524730,;MICAL2,upstream_gene_variant,,ENST00000533219,;	A	ENSG00000133816	ENST00000256194	Transcript	missense_variant	1492	1204	402	E/K	Gag/Aag	.	.	.	1	MICAL2	HGNC	24693	protein_coding	YES	CCDS7809.1	ENSP00000256194	MICA2_HUMAN	E9PRE0_HUMAN,E9PNC3_HUMAN,E9PL42_HUMAN,E9PKI3_HUMAN,E9PJB0_HUMAN	UPI000000DA92	.	deleterious(0)	probably_damaging(0.999)	9/28	.	Superfamily_domains:SSF47576,Superfamily_domains:SSF51905,hmmpanther:PTHR11915:SF239,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTGAGGTA	.	2	BLCA
SPA17	0	.	GRCh37	11	124564318	124564318	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432T>C	p.%3D	p.N144N	ENST00000532692	4/4	60	51	8	116	116	0	SPA17,synonymous_variant,p.%3D,ENST00000532692,;SPA17,synonymous_variant,p.%3D,ENST00000227135,;SIAE,non_coding_transcript_exon_variant,,ENST00000525730,;SPA17,non_coding_transcript_exon_variant,,ENST00000524614,;	C	ENSG00000064199	ENST00000532692	Transcript	synonymous_variant	1853	432	144	N	aaT/aaC	.	.	.	1	SPA17	HGNC	11210	protein_coding	YES	CCDS8450.1	ENSP00000432305	SP17_HUMAN	.	UPI0000001617	.	.	.	4/4	.	hmmpanther:PTHR10699,hmmpanther:PTHR10699:SF16,PIRSF_domain:PIRSF016533	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAAATGAGGA	.	4	BLCA
HSD17B12	0	.	GRCh37	11	43702270	43702270	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-108G>C	.	.	ENST00000278353	1/11	25	22	3	24	24	0	HSD17B12,5_prime_UTR_variant,,ENST00000278353,;HSD17B12,5_prime_UTR_variant,,ENST00000531185,;HSD17B12,upstream_gene_variant,,ENST00000395700,;HSD17B12,non_coding_transcript_exon_variant,,ENST00000527433,;HSD17B12,intron_variant,,ENST00000532864,;HSD17B12,intron_variant,,ENST00000529261,;	C	ENSG00000149084	ENST00000278353	Transcript	5_prime_UTR_variant	12	.	.	.	.	.	.	.	1	HSD17B12	HGNC	18646	protein_coding	YES	CCDS7905.1	ENSP00000278353	DHB12_HUMAN	B4DWS6_HUMAN	UPI000004C79B	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGTCGGAGCA	.	2	BLCA
OR51F2	0	.	GRCh37	11	4843634	4843634	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1019T>C	p.Ile340Thr	p.I340T	ENST00000322110	1/1	44	35	8	87	87	0	OR51F2,missense_variant,p.Ile340Thr,ENST00000322110,;MMP26,intron_variant,,ENST00000380390,;MMP26,intron_variant,,ENST00000477339,;	C	ENSG00000176925	ENST00000322110	Transcript	missense_variant	1084	1019	340	I/T	aTt/aCt	.	.	.	1	OR51F2	HGNC	15197	protein_coding	YES	CCDS31361.1	ENSP00000323952	O51F2_HUMAN	.	UPI000004B219	.	deleterious_low_confidence(0)	unknown(0)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGCCATTTATG	.	4	BLCA
OR5D14	0	.	GRCh37	11	55563500	55563500	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.469G>T	p.Gly157Cys	p.G157C	ENST00000335605	1/1	84	76	8	108	108	0	OR5D14,missense_variant,p.Gly157Cys,ENST00000335605,;	T	ENSG00000186113	ENST00000335605	Transcript	missense_variant	469	469	157	G/C	Ggc/Tgc	COSM4033685	.	.	1	OR5D14	HGNC	15281	protein_coding	YES	CCDS31508.1	ENSP00000334456	OR5DE_HUMAN	.	UPI000004B1F6	.	tolerated(1)	benign(0.002)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF67,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGTTTGGCCCC	.	3	BLCA
INCENP	0	.	GRCh37	11	61906366	61906366	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1180G>C	p.Glu394Gln	p.E394Q	ENST00000394818	7/19	146	138	8	166	166	0	INCENP,missense_variant,p.Glu394Gln,ENST00000278849,;INCENP,missense_variant,p.Glu394Gln,ENST00000394818,;INCENP,non_coding_transcript_exon_variant,,ENST00000528375,;INCENP,downstream_gene_variant,,ENST00000528037,;	C	ENSG00000149503	ENST00000394818	Transcript	missense_variant	1382	1180	394	E/Q	Gag/Cag	.	.	.	1	INCENP	HGNC	6058	protein_coding	YES	CCDS44624.1	ENSP00000378295	INCE_HUMAN	E9PM67_HUMAN	UPI0000D7D6F3	.	tolerated(0.33)	unknown(0)	7/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13142,hmmpanther:PTHR13142:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N396N|c.1188T>C|3	MUTECT|MUSE	TCCCTGAGAAC	.	2	BLCA
P2RY2	0	.	GRCh37	11	72945909	72945909	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705C>A	p.%3D	p.G235G	ENST00000311131	3/3	39	27	11	71	71	0	P2RY2,synonymous_variant,p.%3D,ENST00000393597,;P2RY2,synonymous_variant,p.%3D,ENST00000311131,;P2RY2,synonymous_variant,p.%3D,ENST00000393596,;RP11-800A3.4,upstream_gene_variant,,ENST00000565433,;	A	ENSG00000175591	ENST00000311131	Transcript	synonymous_variant	1172	705	235	G	ggC/ggA	.	.	.	1	P2RY2	HGNC	8541	protein_coding	YES	CCDS8219.1	ENSP00000310305	P2RY2_HUMAN	.	UPI000013F103	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24231:SF17,hmmpanther:PTHR24231,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCGGCCTGCC	.	5	BLCA
B3GNT6	0	.	GRCh37	11	76750707	76750707	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112C>A	p.%3D	p.R38R	ENST00000533140	2/2	46	37	9	43	43	0	B3GNT6,synonymous_variant,p.%3D,ENST00000533140,;B3GNT6,synonymous_variant,p.%3D,ENST00000354301,;B3GNT6,synonymous_variant,p.%3D,ENST00000528622,;B3GNT6,intron_variant,,ENST00000421061,;	A	ENSG00000198488	ENST00000533140	Transcript	synonymous_variant	250	112	38	R	Cgg/Agg	.	.	.	1	B3GNT6	HGNC	24141	protein_coding	YES	CCDS53681.1	ENSP00000435352	B3GN6_HUMAN	E9PJ79_HUMAN	UPI00001FAFE0	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11214,hmmpanther:PTHR11214:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCGCGGGAG	.	2	BLCA
PCF11	0	.	GRCh37	11	82877677	82877677	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1738G>A	p.Glu580Lys	p.E580K	ENST00000298281	5/16	59	51	8	54	53	1	PCF11,missense_variant,p.Glu580Lys,ENST00000298281,;PCF11,missense_variant,p.Glu580Lys,ENST00000530660,;PCF11,missense_variant,p.Glu580Lys,ENST00000530304,;PCF11,upstream_gene_variant,,ENST00000530906,;PCF11,downstream_gene_variant,,ENST00000533018,;	A	ENSG00000165494	ENST00000298281	Transcript	missense_variant	2190	1738	580	E/K	Gaa/Aaa	COSM1298695,COSM1298694	.	.	1	PCF11	HGNC	30097	protein_coding	YES	CCDS44689.1	ENSP00000298281	PCF11_HUMAN	E9PKN0_HUMAN	UPI00001BB2B7	.	tolerated(0.1)	benign(0.083)	5/16	.	hmmpanther:PTHR15921:SF3,hmmpanther:PTHR15921	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACTGAACCA	.	4	BLCA
FAT3	0	.	GRCh37	11	92085327	92085327	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49T>C	p.Cys17Arg	p.C17R	ENST00000298047	1/27	23	18	4	28	28	0	FAT3,missense_variant,p.Cys17Arg,ENST00000541502,;FAT3,missense_variant,p.Cys17Arg,ENST00000298047,;FAT3,missense_variant,p.Cys17Arg,ENST00000409404,;FAT3,upstream_gene_variant,,ENST00000525166,;FAT3,upstream_gene_variant,,ENST00000528921,;	C	ENSG00000165323	ENST00000298047	Transcript	missense_variant	66	49	17	C/R	Tgc/Cgc	.	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	benign(0.001)	1/27	.	hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGTTGCCTC	.	5	BLCA
FAT3	0	.	GRCh37	11	92532201	92532201	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6022G>A	p.Gly2008Arg	p.G2008R	ENST00000298047	9/27	90	74	16	99	98	1	FAT3,missense_variant,p.Gly2008Arg,ENST00000298047,;FAT3,missense_variant,p.Gly2008Arg,ENST00000409404,;FAT3,missense_variant,p.Gly1858Arg,ENST00000525166,;	A	ENSG00000165323	ENST00000298047	Transcript	missense_variant	6039	6022	2008	G/R	Gga/Aga	.	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	probably_damaging(1)	9/27	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTGGAAAT	.	5	BLCA
UNG	0	.	GRCh37	12	109536206	109536206	+	Intron	SNP	C	C	G	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133-31C>G	.	.	ENST00000242576	.	43	35	8	68	68	0	UNG,synonymous_variant,p.%3D,ENST00000336865,;UNG,intron_variant,,ENST00000242576,;ALKBH2,upstream_gene_variant,,ENST00000429722,;ALKBH2,upstream_gene_variant,,ENST00000536358,;ALKBH2,upstream_gene_variant,,ENST00000536242,;ALKBH2,upstream_gene_variant,,ENST00000343075,;UNG,synonymous_variant,p.%3D,ENST00000539287,;UNG,synonymous_variant,p.%3D,ENST00000446767,;UNG,intron_variant,,ENST00000540158,;ALKBH2,upstream_gene_variant,,ENST00000536720,;	G	ENSG00000076248	ENST00000242576	Transcript	intron_variant	.	.	.	.	.	COSM3368639	.	.	1	UNG	HGNC	12572	protein_coding	YES	CCDS9124.1	ENSP00000242576	UNG_HUMAN	E5KTA5_HUMAN	UPI000002E951	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCTTGAG	.	5	BLCA
TAS2R31	0	.	GRCh37	12	11183152	11183152	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783C>T	p.%3D	p.F261F	ENST00000390675	1/1	184	165	19	179	179	0	TAS2R31,synonymous_variant,p.%3D,ENST00000390675,;AC018630.1,upstream_gene_variant,,ENST00000601123,;PRR4,intron_variant,,ENST00000539853,;PRR4,intron_variant,,ENST00000541977,;PRR4,intron_variant,,ENST00000535024,;TAS2R14,intron_variant,,ENST00000381852,;PRR4,intron_variant,,ENST00000536668,;PRR4,intron_variant,,ENST00000536086,;PRR4,intron_variant,,ENST00000534923,;PRR4,intron_variant,,ENST00000541456,;	A	ENSG00000256436	ENST00000390675	Transcript	synonymous_variant	855	783	261	F	ttC/ttT	.	.	.	-1	TAS2R31	HGNC	19113	protein_coding	YES	CCDS53747.1	ENSP00000375093	T2R31_HUMAN	.	UPI000000D820	.	.	.	1/1	.	hmmpanther:PTHR11394:SF54,hmmpanther:PTHR11394,Gene3D:1.20.1070.10,Pfam_domain:PF05296,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACATGAAGAC	.	4	BLCA
RNFT2	0	.	GRCh37	12	117273771	117273771	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039G>A	p.Asp347Asn	p.D347N	ENST00000257575	9/11	46	42	4	96	96	0	RNFT2,missense_variant,p.Asp347Asn,ENST00000407967,;RNFT2,missense_variant,p.Asp347Asn,ENST00000392549,;RNFT2,missense_variant,p.Asp347Asn,ENST00000257575,;RNFT2,intron_variant,,ENST00000319176,;RNFT2,upstream_gene_variant,,ENST00000551251,;RNFT2,3_prime_UTR_variant,,ENST00000547718,;	A	ENSG00000135119	ENST00000257575	Transcript	missense_variant	1272	1039	347	D/N	Gac/Aac	COSM1706341,COSM1706340	.	.	1	RNFT2	HGNC	25905	protein_coding	YES	CCDS44987.1	ENSP00000257575	RNFT2_HUMAN	.	UPI00001FBBF4	.	tolerated(0.08)	probably_damaging(0.988)	9/11	.	hmmpanther:PTHR15860:SF2,hmmpanther:PTHR15860	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTCGACATC	.	4	BLCA
IL31	0	.	GRCh37	12	122658442	122658442	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114A>G	p.%3D	p.V38V	ENST00000377035	2/3	44	36	7	93	93	0	IL31,synonymous_variant,p.%3D,ENST00000377035,;LRRC43,intron_variant,,ENST00000537729,;	C	ENSG00000204671	ENST00000377035	Transcript	synonymous_variant	141	114	38	V	gtA/gtG	.	.	.	-1	IL31	HGNC	19372	protein_coding	YES	CCDS31919.1	ENSP00000366234	IL31_HUMAN	.	UPI00003BF6FE	.	.	.	2/3	.	Pfam_domain:PF15209	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGTACATC	.	5	BLCA
VPS37B	0	.	GRCh37	12	123355596	123355596	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124C>T	p.Gln42Ter	p.Q42*	ENST00000267202	2/4	47	36	10	59	59	0	VPS37B,stop_gained,p.Gln42Ter,ENST00000267202,;VPS37B,stop_gained,p.Gln40Ter,ENST00000535765,;VPS37B,stop_gained,p.Gln40Ter,ENST00000371248,;RP11-463O12.3,downstream_gene_variant,,ENST00000537827,;VPS37B,non_coding_transcript_exon_variant,,ENST00000543590,;	A	ENSG00000139722	ENST00000267202	Transcript	stop_gained	506	124	42	Q/*	Cag/Tag	.	.	.	-1	VPS37B	HGNC	25754	protein_coding	YES	CCDS9239.1	ENSP00000267202	VP37B_HUMAN	.	UPI000006ED3B	.	.	.	2/4	.	hmmpanther:PTHR13678,hmmpanther:PTHR13678:SF9,Pfam_domain:PF07200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTGAACAT	.	5	BLCA
KIAA1467	0	.	GRCh37	12	13233615	13233615	+	3'UTR	SNP	C	C	T	rs751780164	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51C>T	.	.	ENST00000197268	13/13	25	21	4	45	45	0	KIAA1467,3_prime_UTR_variant,,ENST00000197268,;KIAA1467,intron_variant,,ENST00000537625,;GSG1,downstream_gene_variant,,ENST00000396310,;GSG1,downstream_gene_variant,,ENST00000432710,;GSG1,downstream_gene_variant,,ENST00000324458,;GSG1,downstream_gene_variant,,ENST00000351606,;GSG1,downstream_gene_variant,,ENST00000396302,;GSG1,downstream_gene_variant,,ENST00000537302,;GSG1,downstream_gene_variant,,ENST00000337630,;GSG1,downstream_gene_variant,,ENST00000457134,;KIAA1467,3_prime_UTR_variant,,ENST00000416494,;KIAA1467,non_coding_transcript_exon_variant,,ENST00000541950,;	T	ENSG00000084444	ENST00000197268	Transcript	3_prime_UTR_variant	2040	.	.	.	.	rs751780164	.	.	1	KIAA1467	HGNC	29288	protein_coding	YES	CCDS31750.1	ENSP00000197268	K1467_HUMAN	.	UPI00001FB6A1	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTCTACTC	.	2	BLCA
IPO8	0	.	GRCh37	12	30792627	30792627	+	Nonsense_Mutation	SNP	G	G	A	rs775413184	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2311C>T	p.Arg771Ter	p.R771*	ENST00000256079	21/25	67	58	8	89	89	0	IPO8,stop_gained,p.Arg771Ter,ENST00000256079,;IPO8,stop_gained,p.Arg566Ter,ENST00000544829,;IPO8,upstream_gene_variant,,ENST00000535598,;	A	ENSG00000133704	ENST00000256079	Transcript	stop_gained	2650	2311	771	R/*	Cga/Tga	rs775413184,COSM1210830	.	.	-1	IPO8	HGNC	9853	protein_coding	YES	CCDS8719.1	ENSP00000256079	IPO8_HUMAN	F5H009_HUMAN,F5GXT5_HUMAN	UPI000013CEE9	.	.	.	21/25	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR10997:SF26,hmmpanther:PTHR10997	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTCGAGTTA	.	4	BLCA
DDX23	0	.	GRCh37	12	49237778	49237778	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>T	p.Asp89Tyr	p.D89Y	ENST00000308025	3/17	192	179	13	313	313	0	DDX23,missense_variant,p.Asp89Tyr,ENST00000552512,;DDX23,missense_variant,p.Asp89Tyr,ENST00000551468,;DDX23,missense_variant,p.Asp89Tyr,ENST00000308025,;DDX23,upstream_gene_variant,,ENST00000550834,;DDX23,non_coding_transcript_exon_variant,,ENST00000552369,;DDX23,non_coding_transcript_exon_variant,,ENST00000552555,;DDX23,non_coding_transcript_exon_variant,,ENST00000553182,;DDX23,missense_variant,p.Asp89Tyr,ENST00000547135,;DDX23,non_coding_transcript_exon_variant,,ENST00000551098,;	A	ENSG00000174243	ENST00000308025	Transcript	missense_variant	345	265	89	D/Y	Gac/Tac	.	.	.	-1	DDX23	HGNC	17347	protein_coding	YES	CCDS8770.1	ENSP00000310723	DDX23_HUMAN	F8W1J5_HUMAN,F8VVA2_HUMAN,B3KY11_HUMAN	UPI0000073875	.	deleterious_low_confidence(0.01)	unknown(0)	3/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGGTCCTTCT	.	2	BLCA
KMT2D	0	.	GRCh37	12	49444304	49444304	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3067C>T	p.Gln1023Ter	p.Q1023*	ENST00000301067	11/54	51	46	5	69	69	0	KMT2D,stop_gained,p.Gln1023Ter,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000547610,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	3067	3067	1023	Q/*	Cag/Tag	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	11/54	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACACTGAGGAG	.	4	BLCA
ASIC1	0	.	GRCh37	12	50475366	50475366	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1659G>C	p.Met553Ile	p.M553I	ENST00000228468	12/12	24	21	3	37	37	0	ASIC1,missense_variant,p.Met106Ile,ENST00000552633,;ASIC1,missense_variant,p.Met553Ile,ENST00000228468,;ASIC1,missense_variant,p.Met375Ile,ENST00000453327,;ASIC1,missense_variant,p.Met541Ile,ENST00000552438,;ASIC1,missense_variant,p.Met507Ile,ENST00000447966,;SMARCD1,upstream_gene_variant,,ENST00000550477,;SMARCD1,upstream_gene_variant,,ENST00000394963,;SMARCD1,upstream_gene_variant,,ENST00000551966,;SMARCD1,upstream_gene_variant,,ENST00000551497,;SMARCD1,upstream_gene_variant,,ENST00000381513,;ASIC1,3_prime_UTR_variant,,ENST00000550558,;SMARCD1,upstream_gene_variant,,ENST00000547247,;ASIC1,downstream_gene_variant,,ENST00000548350,;SMARCD1,upstream_gene_variant,,ENST00000547637,;ASIC1,downstream_gene_variant,,ENST00000551199,;ASIC1,downstream_gene_variant,,ENST00000549792,;	C	ENSG00000110881	ENST00000228468	Transcript	missense_variant	2044	1659	553	M/I	atG/atC	.	.	.	1	ASIC1	HGNC	100	protein_coding	YES	CCDS8796.1	ENSP00000228468	ASIC1_HUMAN	.	UPI000013C8D6	.	tolerated(0.52)	benign(0.009)	12/12	.	hmmpanther:PTHR11690,hmmpanther:PTHR11690:SF110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGATGACATA	.	2	BLCA
HOXC13	0	.	GRCh37	12	54333278	54333278	+	Silent	SNP	G	G	A	rs778942107	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.588G>A	p.%3D	p.G196G	ENST00000243056	1/2	24	13	11	21	21	0	HOXC13,synonymous_variant,p.%3D,ENST00000243056,;HOXC13-AS,non_coding_transcript_exon_variant,,ENST00000512916,;	A	ENSG00000123364	ENST00000243056	Transcript	synonymous_variant	744	588	196	G	ggG/ggA	rs778942107	.	.	1	HOXC13	HGNC	5125	protein_coding	YES	CCDS8865.1	ENSP00000243056	HXC13_HUMAN	Q6LAM3_HUMAN	UPI000012CF7F	.	.	.	1/2	.	hmmpanther:PTHR24326:SF39,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGGGATCAG	byFrequency	5	BLCA
RBMS2	0	.	GRCh37	12	56956280	56956280	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146G>T	p.Gly49Val	p.G49V	ENST00000262031	2/14	33	28	5	72	72	0	RBMS2,missense_variant,p.Gly49Val,ENST00000552247,;RBMS2,missense_variant,p.Gly49Val,ENST00000262031,;RBMS2,intron_variant,,ENST00000550726,;RBMS2,intron_variant,,ENST00000542360,;RBMS2,non_coding_transcript_exon_variant,,ENST00000549945,;RBMS2,missense_variant,p.Gly49Val,ENST00000552916,;RBMS2,3_prime_UTR_variant,,ENST00000551369,;	T	ENSG00000076067	ENST00000262031	Transcript	missense_variant	241	146	49	G/V	gGa/gTa	.	.	.	1	RBMS2	HGNC	9909	protein_coding	YES	CCDS8923.1	ENSP00000262031	RBMS2_HUMAN	F8VV01_HUMAN	UPI000006EEB0	.	deleterious(0.01)	benign(0.135)	2/14	.	Low_complexity_(Seg):seg,Gene3D:3.30.70.330,hmmpanther:PTHR24011:SF257,hmmpanther:PTHR24011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAATGGAAATG	.	4	BLCA
OS9	0	.	GRCh37	12	58088031	58088031	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.87G>C	p.%3D	p.G29G	ENST00000315970	1/15	59	47	12	110	110	0	OS9,synonymous_variant,p.%3D,ENST00000413095,;OS9,synonymous_variant,p.%3D,ENST00000257966,;OS9,synonymous_variant,p.%3D,ENST00000435406,;OS9,synonymous_variant,p.%3D,ENST00000551035,;OS9,synonymous_variant,p.%3D,ENST00000315970,;OS9,synonymous_variant,p.%3D,ENST00000552285,;OS9,synonymous_variant,p.%3D,ENST00000389142,;OS9,synonymous_variant,p.%3D,ENST00000389146,;OS9,synonymous_variant,p.%3D,ENST00000550372,;OS9,synonymous_variant,p.%3D,ENST00000547079,;OS9,synonymous_variant,p.%3D,ENST00000439210,;RP11-571M6.7,non_coding_transcript_exon_variant,,ENST00000549477,;OS9,synonymous_variant,p.%3D,ENST00000550848,;OS9,synonymous_variant,p.%3D,ENST00000552787,;OS9,synonymous_variant,p.%3D,ENST00000552423,;OS9,synonymous_variant,p.%3D,ENST00000551285,;OS9,non_coding_transcript_exon_variant,,ENST00000549897,;OS9,non_coding_transcript_exon_variant,,ENST00000550793,;OS9,non_coding_transcript_exon_variant,,ENST00000553208,;OS9,upstream_gene_variant,,ENST00000549307,;	C	ENSG00000135506	ENST00000315970	Transcript	synonymous_variant	128	87	29	G	ggG/ggC	.	.	.	1	OS9	HGNC	16994	protein_coding	YES	CCDS31843.1	ENSP00000318165	OS9_HUMAN	Q9BR60_HUMAN	UPI0000130EAC	.	.	.	1/15	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR15414,hmmpanther:PTHR15414:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCGGGAGCCT	.	5	BLCA
HELB	0	.	GRCh37	12	66715737	66715737	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2165C>T	p.Ser722Phe	p.S722F	ENST00000247815	8/13	18	9	9	14	14	0	HELB,missense_variant,p.Ser722Phe,ENST00000247815,;HELB,missense_variant,p.Ser722Phe,ENST00000545134,;HELB,missense_variant,p.Ser722Phe,ENST00000542394,;HELB,3_prime_UTR_variant,,ENST00000440906,;HELB,non_coding_transcript_exon_variant,,ENST00000545455,;HELB,upstream_gene_variant,,ENST00000536862,;	T	ENSG00000127311	ENST00000247815	Transcript	missense_variant	2224	2165	722	S/F	tCt/tTt	.	.	.	1	HELB	HGNC	17196	protein_coding	YES	CCDS8976.1	ENSP00000247815	HELB_HUMAN	.	UPI000013CC2D	.	deleterious(0)	probably_damaging(0.957)	8/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTCTGCAG	.	5	BLCA
PTPRB	0	.	GRCh37	12	70983837	70983837	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1957G>A	p.Asp653Asn	p.D653N	ENST00000334414	8/34	91	87	4	99	99	0	PTPRB,missense_variant,p.Asp435Asn,ENST00000538708,;PTPRB,missense_variant,p.Asp435Asn,ENST00000261266,;PTPRB,missense_variant,p.Asp653Asn,ENST00000334414,;PTPRB,missense_variant,p.Asp653Asn,ENST00000550358,;PTPRB,missense_variant,p.Asp652Asn,ENST00000551525,;PTPRB,missense_variant,p.Asp532Asn,ENST00000548122,;PTPRB,intron_variant,,ENST00000451516,;PTPRB,intron_variant,,ENST00000550857,;PTPRB,non_coding_transcript_exon_variant,,ENST00000538174,;PTPRB,downstream_gene_variant,,ENST00000552253,;	T	ENSG00000127329	ENST00000334414	Transcript	missense_variant	2002	1957	653	D/N	Gac/Aac	.	.	.	-1	PTPRB	HGNC	9665	protein_coding	YES	CCDS44943.1	ENSP00000334928	PTPRB_HUMAN	.	UPI00002294FA	.	tolerated(0.28)	benign(0.005)	8/34	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF219,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTGTCATCCA	.	2	BLCA
ACSM4	0	.	GRCh37	12	7470645	7470645	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.788C>G	p.Ser263Ter	p.S263*	ENST00000399422	5/13	46	42	4	55	55	0	ACSM4,stop_gained,p.Ser263Ter,ENST00000399422,;ACSM4,non_coding_transcript_exon_variant,,ENST00000533292,;	G	ENSG00000215009	ENST00000399422	Transcript	stop_gained	836	788	263	S/*	tCa/tGa	.	.	.	1	ACSM4	HGNC	32016	protein_coding	YES	CCDS44825.1	ENSP00000382349	ACSM4_HUMAN	.	UPI0000DD812A	.	.	.	5/13	.	hmmpanther:PTHR24095:SF127,hmmpanther:PTHR24095,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCCTCAGATA	.	4	BLCA
SLC2A3	0	.	GRCh37	12	8078452	8078452	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954C>T	p.%3D	p.F318F	ENST00000075120	7/10	54	50	4	80	80	0	SLC2A3,synonymous_variant,p.%3D,ENST00000075120,;SLC2A3,downstream_gene_variant,,ENST00000544291,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000479059,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000486749,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000490763,;SLC2A3,downstream_gene_variant,,ENST00000495813,;SLC2A3,upstream_gene_variant,,ENST00000469295,;	A	ENSG00000059804	ENST00000075120	Transcript	synonymous_variant	1195	954	318	F	ttC/ttT	.	.	.	-1	SLC2A3	HGNC	11007	protein_coding	YES	CCDS8586.1	ENSP00000075120	GTR3_HUMAN	.	UPI0000001C7D	.	.	.	7/10	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24063:SF322,hmmpanther:PTHR24063,TIGRFAM_domain:TIGR00879,Pfam_domain:PF00083,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGTGAAGAT	.	2	BLCA
CCDC59	0	.	GRCh37	12	82750779	82750779	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424G>A	p.Asp142Asn	p.D142N	ENST00000256151	2/4	67	60	7	91	91	0	CCDC59,missense_variant,p.Asp142Asn,ENST00000552377,;CCDC59,missense_variant,p.Asp142Asn,ENST00000256151,;METTL25,upstream_gene_variant,,ENST00000550058,;METTL25,upstream_gene_variant,,ENST00000248306,;METTL25,upstream_gene_variant,,ENST00000548200,;CCDC59,non_coding_transcript_exon_variant,,ENST00000548126,;METTL25,upstream_gene_variant,,ENST00000547985,;CCDC59,downstream_gene_variant,,ENST00000552412,;METTL25,upstream_gene_variant,,ENST00000547357,;METTL25,upstream_gene_variant,,ENST00000548569,;CCDC59,non_coding_transcript_exon_variant,,ENST00000547758,;CCDC59,non_coding_transcript_exon_variant,,ENST00000552606,;CCDC59,upstream_gene_variant,,ENST00000550589,;	T	ENSG00000133773	ENST00000256151	Transcript	missense_variant	836	424	142	D/N	Gac/Aac	.	.	.	-1	CCDC59	HGNC	25005	protein_coding	YES	CCDS9023.1	ENSP00000256151	TAP26_HUMAN	.	UPI0000034DFE	.	tolerated(0.46)	benign(0.259)	2/4	.	hmmpanther:PTHR15657:SF1,hmmpanther:PTHR15657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGTCAAAGC	.	4	BLCA
GALNT4	0	.	GRCh37	12	89917975	89917975	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.352G>A	p.Asp118Asn	p.D118N	ENST00000529983	1/1	64	54	10	92	92	0	GALNT4,missense_variant,p.Asp118Asn,ENST00000529983,;POC1B-GALNT4,missense_variant,p.Asp115Asn,ENST00000548729,;POC1B,intron_variant,,ENST00000541909,;POC1B-GALNT4,intron_variant,,ENST00000547474,;POC1B,intron_variant,,ENST00000393179,;POC1B,intron_variant,,ENST00000549504,;POC1B,intron_variant,,ENST00000549035,;POC1B,intron_variant,,ENST00000313546,;GALNT4,intron_variant,,ENST00000413530,;RP11-734K2.4,upstream_gene_variant,,ENST00000605233,;POC1B,intron_variant,,ENST00000539190,;POC1B,intron_variant,,ENST00000546830,;POC1B,intron_variant,,ENST00000552563,;POC1B,intron_variant,,ENST00000548715,;POC1B,intron_variant,,ENST00000547274,;POC1B,intron_variant,,ENST00000547496,;	T	ENSG00000257594	ENST00000529983	Transcript	missense_variant	609	352	118	D/N	Gat/Aat	.	.	.	-1	GALNT4	HGNC	4126	protein_coding	YES	CCDS53817.1	ENSP00000436604	GALT4_HUMAN	.	UPI00001C036C	.	tolerated(0.05)	probably_damaging(0.998)	1/1	.	Superfamily_domains:SSF53448,hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTATCCTCTA	.	4	BLCA
TMTC4	0	.	GRCh37	13	101257221	101257221	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27G>C	.	.	ENST00000342624	19/19	115	106	9	116	116	0	TMTC4,3_prime_UTR_variant,,ENST00000376234,;TMTC4,3_prime_UTR_variant,,ENST00000328767,;TMTC4,3_prime_UTR_variant,,ENST00000342624,;	G	ENSG00000125247	ENST00000342624	Transcript	3_prime_UTR_variant	2569	.	.	.	.	.	.	.	-1	TMTC4	HGNC	25904	protein_coding	YES	CCDS9497.2	ENSP00000343871	TMTC4_HUMAN	C9K0R2_HUMAN	UPI000004B63E	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACACTCAAACT	.	3	BLCA
RAB20	0	.	GRCh37	13	111176437	111176437	+	Missense_Mutation	SNP	G	G	A	rs764352241	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280C>T	p.Arg94Trp	p.R94W	ENST00000267328	2/2	88	84	4	83	83	0	RAB20,missense_variant,p.Arg94Trp,ENST00000267328,;	A	ENSG00000139832	ENST00000267328	Transcript	missense_variant	494	280	94	R/W	Cgg/Tgg	rs764352241	.	.	-1	RAB20	HGNC	18260	protein_coding	YES	CCDS9512.1	ENSP00000267328	RAB20_HUMAN	.	UPI0000001299	.	deleterious(0)	probably_damaging(0.999)	2/2	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073:SF429,hmmpanther:PTHR24073,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00071,Gene3D:3.40.50.300,SMART_domains:SM00174,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAACCGGTCCT	byFrequency	2	BLCA
TUBGCP3	0	.	GRCh37	13	113201984	113201984	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1118A>G	p.Asp373Gly	p.D373G	ENST00000261965	10/22	62	44	17	65	65	0	TUBGCP3,missense_variant,p.Asp373Gly,ENST00000261965,;TUBGCP3,missense_variant,p.Asp373Gly,ENST00000375669,;TUBGCP3,upstream_gene_variant,,ENST00000462580,;TUBGCP3,non_coding_transcript_exon_variant,,ENST00000464139,;	C	ENSG00000126216	ENST00000261965	Transcript	missense_variant	1305	1118	373	D/G	gAt/gGt	.	.	.	-1	TUBGCP3	HGNC	18598	protein_coding	YES	CCDS9525.1	ENSP00000261965	GCP3_HUMAN	.	UPI000000DB88	.	deleterious(0)	benign(0.098)	10/22	.	Pfam_domain:PF04130,hmmpanther:PTHR19302:SF14,hmmpanther:PTHR19302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGATCATAG	.	5	BLCA
CUL4A	0	.	GRCh37	13	113897470	113897470	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1224G>A	p.%3D	p.L408L	ENST00000375440	11/20	103	95	8	106	106	0	CUL4A,synonymous_variant,p.%3D,ENST00000375441,;CUL4A,synonymous_variant,p.%3D,ENST00000375440,;CUL4A,synonymous_variant,p.%3D,ENST00000326335,;CUL4A,synonymous_variant,p.%3D,ENST00000451881,;CUL4A,upstream_gene_variant,,ENST00000472083,;CUL4A,upstream_gene_variant,,ENST00000470067,;	A	ENSG00000139842	ENST00000375440	Transcript	synonymous_variant	1308	1224	408	L	ctG/ctA	.	.	.	1	CUL4A	HGNC	2554	protein_coding	YES	CCDS41908.1	ENSP00000364589	CUL4A_HUMAN	B4DKT2_HUMAN	UPI000021C449	.	.	.	11/20	.	PROSITE_profiles:PS50069,hmmpanther:PTHR11932:SF68,hmmpanther:PTHR11932,Gene3D:1.20.1310.10,Pfam_domain:PF00888,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAACTGATCGG	.	2	BLCA
PAN3	0	.	GRCh37	13	28844908	28844908	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1863T>C	p.%3D	p.I621I	ENST00000380958	13/19	98	92	6	135	135	0	PAN3,synonymous_variant,p.%3D,ENST00000399613,;PAN3,synonymous_variant,p.%3D,ENST00000380958,;PAN3,synonymous_variant,p.%3D,ENST00000282391,;PAN3,non_coding_transcript_exon_variant,,ENST00000503791,;	C	ENSG00000152520	ENST00000380958	Transcript	synonymous_variant	2015	1863	621	I	atT/atC	.	.	.	1	PAN3	HGNC	29991	protein_coding	YES	CCDS9329.2	ENSP00000370345	PAN3_HUMAN	Q6ZMN5_HUMAN	UPI0001BE8112	.	.	.	13/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR12272,Gene3D:3.30.200.20,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATATTGTCCA	.	2	BLCA
TPT1	0	.	GRCh37	13	45915202	45915202	+	Translation_Start_Site	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>T	p.Met1?	p.M1?	ENST00000530705	1/6	11	3	8	14	14	0	TPT1,start_lost,p.Met1?,ENST00000530705,;TPT1,start_lost,p.Met1?,ENST00000309246,;TPT1,5_prime_UTR_variant,,ENST00000379060,;TPT1,5_prime_UTR_variant,,ENST00000527226,;TPT1,5_prime_UTR_variant,,ENST00000379055,;TPT1,5_prime_UTR_variant,,ENST00000379056,;TPT1,upstream_gene_variant,,ENST00000528619,;TPT1,upstream_gene_variant,,ENST00000530245,;SNORA31,upstream_gene_variant,,ENST00000362607,;SNORA31,upstream_gene_variant,,ENST00000517242,;RP11-290D2.6,non_coding_transcript_exon_variant,,ENST00000610057,;TPT1-AS1,upstream_gene_variant,,ENST00000520310,;TPT1-AS1,upstream_gene_variant,,ENST00000521507,;TPT1-AS1,upstream_gene_variant,,ENST00000412946,;TPT1-AS1,upstream_gene_variant,,ENST00000517509,;TPT1-AS1,upstream_gene_variant,,ENST00000523445,;TPT1-AS1,upstream_gene_variant,,ENST00000523506,;TPT1-AS1,upstream_gene_variant,,ENST00000520622,;TPT1-AS1,upstream_gene_variant,,ENST00000520590,;TPT1-AS1,upstream_gene_variant,,ENST00000521336,;TPT1,upstream_gene_variant,,ENST00000529421,;TPT1,non_coding_transcript_exon_variant,,ENST00000442760,;TPT1,non_coding_transcript_exon_variant,,ENST00000490277,;TPT1-AS1,upstream_gene_variant,,ENST00000520924,;TPT1-AS1,upstream_gene_variant,,ENST00000524062,;TPT1-AS1,upstream_gene_variant,,ENST00000522859,;TPT1,upstream_gene_variant,,ENST00000533567,;TPT1,upstream_gene_variant,,ENST00000484604,;	A	ENSG00000133112	ENST00000530705	Transcript	start_lost	304	3	1	M/I	atG/atT	.	.	.	-1	TPT1	HGNC	12022	protein_coding	YES	CCDS9397.1	ENSP00000431872	TCTP_HUMAN	Q8TBK7_HUMAN,Q86YH5_HUMAN,J3KPG2_HUMAN	UPI0000000FED	.	deleterious(0.05)	benign(0.309)	1/6	.	Gene3D:2.170.150.10,Pfam_domain:PF00838,Superfamily_domains:SSF51316,Prints_domain:PR01653	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATAATCATGAT	.	3	BLCA
RB1	0	.	GRCh37	13	49039158	49039158	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2236G>T	p.Glu746Ter	p.E746*	ENST00000267163	22/27	29	11	18	54	54	0	RB1,stop_gained,p.Glu746Ter,ENST00000267163,;	T	ENSG00000139687	ENST00000267163	Transcript	stop_gained	2374	2236	746	E/*	Gaa/Taa	CM040265	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	22/27	.	hmmpanther:PTHR13742,Pfam_domain:PF01857,Gene3D:1.10.472.10,SMART_domains:SM00385,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAAGAAGAG	.	5	BLCA
FNDC3A	0	.	GRCh37	13	49710506	49710506	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529G>A	p.Glu177Lys	p.E177K	ENST00000492622	6/26	45	34	10	48	48	0	FNDC3A,missense_variant,p.Glu177Lys,ENST00000541916,;FNDC3A,missense_variant,p.Glu177Lys,ENST00000492622,;FNDC3A,missense_variant,p.Glu121Lys,ENST00000398316,;FNDC3A,missense_variant,p.Glu177Lys,ENST00000484074,;FNDC3A,non_coding_transcript_exon_variant,,ENST00000378383,;	A	ENSG00000102531	ENST00000492622	Transcript	missense_variant	834	529	177	E/K	Gaa/Aaa	COSM3793330	.	.	1	FNDC3A	HGNC	20296	protein_coding	YES	CCDS41886.1	ENSP00000417257	FND3A_HUMAN	.	UPI0000229601	.	deleterious(0.04)	benign(0.371)	6/26	.	hmmpanther:PTHR19900:SF38,hmmpanther:PTHR19900	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGATGAACGA	.	5	BLCA
ALG11	0	.	GRCh37	13	52598206	52598206	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>A	p.Glu114Lys	p.E114K	ENST00000521508	3/4	77	65	11	148	148	0	ALG11,missense_variant,p.Glu114Lys,ENST00000521508,;ALG11,intron_variant,,ENST00000523764,;UTP14C,upstream_gene_variant,,ENST00000521776,;ALG11,non_coding_transcript_exon_variant,,ENST00000519151,;	A	ENSG00000253710	ENST00000521508	Transcript	missense_variant	345	340	114	E/K	Gaa/Aaa	.	.	.	1	ALG11	HGNC	32456	protein_coding	YES	CCDS31977.1	ENSP00000430236	ALG11_HUMAN	.	UPI000044C60E	.	tolerated(0.41)	benign(0.006)	3/4	.	hmmpanther:PTHR12526:SF23,hmmpanther:PTHR12526,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTAGAAGGT	.	5	BLCA
LMO7	0	.	GRCh37	13	76409469	76409469	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2628G>C	p.Gln876His	p.Q876H	ENST00000465261	15/27	43	27	16	55	55	0	LMO7,missense_variant,p.Gln1161His,ENST00000357063,;LMO7,missense_variant,p.Gln115His,ENST00000525107,;LMO7,missense_variant,p.Gln876His,ENST00000321797,;LMO7,missense_variant,p.Gln64His,ENST00000525914,;LMO7,missense_variant,p.Gln753His,ENST00000526202,;LMO7,missense_variant,p.Gln876His,ENST00000465261,;LMO7,missense_variant,p.Gln208His,ENST00000524651,;LMO7,missense_variant,p.Gln827His,ENST00000341547,;LMO7,missense_variant,p.Gln1161His,ENST00000377534,;LMO7,missense_variant,p.Gln775His,ENST00000377499,;LMO7,missense_variant,p.Gln785His,ENST00000447038,;LMO7,upstream_gene_variant,,ENST00000533809,;LMO7,non_coding_transcript_exon_variant,,ENST00000485987,;	C	ENSG00000136153	ENST00000465261	Transcript	missense_variant	3388	2628	876	Q/H	caG/caC	.	.	.	1	LMO7	HGNC	6646	protein_coding	YES	CCDS53876.1	ENSP00000433352	.	E9PRJ0_HUMAN,E9PLH4_HUMAN	UPI0001929501	.	deleterious(0.01)	benign(0.02)	15/27	.	hmmpanther:PTHR15551,hmmpanther:PTHR15551:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCAGAGTTC	.	5	BLCA
RNF219	0	.	GRCh37	13	79212999	79212999	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508A>G	p.Ile170Val	p.I170V	ENST00000282003	4/6	52	33	19	79	79	0	RNF219,missense_variant,p.Ile170Val,ENST00000282003,;	C	ENSG00000152193	ENST00000282003	Transcript	missense_variant	567	508	170	I/V	Atc/Gtc	.	.	.	-1	RNF219	HGNC	20308	protein_coding	YES	CCDS31997.1	ENSP00000282003	RN219_HUMAN	.	UPI0000458868	.	tolerated(0.14)	possibly_damaging(0.593)	4/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14609	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAGATTTCAT	.	5	BLCA
MOK	0	.	GRCh37	14	102700006	102700006	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.692+19G>C	.	.	ENST00000361847	.	25	22	3	33	33	0	MOK,5_prime_UTR_variant,,ENST00000522867,;MOK,intron_variant,,ENST00000517966,;MOK,intron_variant,,ENST00000559838,;MOK,intron_variant,,ENST00000193029,;MOK,intron_variant,,ENST00000522874,;MOK,intron_variant,,ENST00000522534,;MOK,intron_variant,,ENST00000524214,;MOK,intron_variant,,ENST00000361847,;MOK,intron_variant,,ENST00000561150,;MOK,intron_variant,,ENST00000522537,;MOK,intron_variant,,ENST00000519058,;MOK,intron_variant,,ENST00000523231,;MOK,intron_variant,,ENST00000524370,;MOK,upstream_gene_variant,,ENST00000521937,;MOK,intron_variant,,ENST00000524120,;MOK,intron_variant,,ENST00000557823,;MOK,intron_variant,,ENST00000519477,;MOK,intron_variant,,ENST00000520266,;MOK,3_prime_UTR_variant,,ENST00000521766,;MOK,non_coding_transcript_exon_variant,,ENST00000518686,;MOK,intron_variant,,ENST00000520046,;MOK,intron_variant,,ENST00000523485,;MOK,intron_variant,,ENST00000521388,;MOK,intron_variant,,ENST00000559138,;MOK,intron_variant,,ENST00000519569,;MOK,intron_variant,,ENST00000520252,;MOK,downstream_gene_variant,,ENST00000562292,;MOK,upstream_gene_variant,,ENST00000521249,;	G	ENSG00000080823	ENST00000361847	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MOK	HGNC	9833	protein_coding	YES	CCDS9971.1	ENSP00000355304	MOK_HUMAN	Q49A77_HUMAN	UPI0000035B77	.	.	.	.	8/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACTCTCAGA	.	2	BLCA
AHNAK2	0	.	GRCh37	14	105411603	105411603	+	Silent	SNP	C	C	T	rs780705915	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10185G>A	p.%3D	p.E3395E	ENST00000333244	7/7	301	276	24	363	363	0	AHNAK2,synonymous_variant,p.%3D,ENST00000333244,;AHNAK2,intron_variant,,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	T	ENSG00000185567	ENST00000333244	Transcript	synonymous_variant	10305	10185	3395	E	gaG/gaA	rs780705915	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	.	7/7	.	hmmpanther:PTHR23348:SF37,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGCATCTCCAC	byFrequency	3	BLCA
IGHV4-28	0	.	GRCh37	14	106780590	106780590	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>A	p.Asp92Asn	p.D92N	ENST00000390612	2/2	284	264	19	298	298	0	IGHV4-28,missense_variant,p.Asp92Asn,ENST00000390612,;	T	ENSG00000211952	ENST00000390612	Transcript	missense_variant	346	274	92	D/N	Gac/Aac	.	.	.	-1	IGHV4-28	HGNC	5645	IG_V_gene	YES	.	ENSP00000375021	.	.	UPI000011AAD4	.	deleterious(0.02)	possibly_damaging(0.584)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23266,hmmpanther:PTHR23266:SF86,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTGTCTACTG	.	2	BLCA
ACIN1	0	.	GRCh37	14	23548108	23548108	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2102C>T	p.Ser701Leu	p.S701L	ENST00000262710	7/19	40	35	4	39	39	0	ACIN1,missense_variant,p.Ser643Leu,ENST00000605057,;ACIN1,missense_variant,p.Ser701Leu,ENST00000262710,;ACIN1,missense_variant,p.Ser701Leu,ENST00000555053,;ACIN1,missense_variant,p.Ser661Leu,ENST00000457657,;ACIN1,upstream_gene_variant,,ENST00000555352,;ACIN1,non_coding_transcript_exon_variant,,ENST00000554708,;	A	ENSG00000100813	ENST00000262710	Transcript	missense_variant	2430	2102	701	S/L	tCa/tTa	.	.	.	-1	ACIN1	HGNC	17066	protein_coding	YES	CCDS9587.1	ENSP00000262710	ACINU_HUMAN	S4R3H4_HUMAN	UPI000013D308	.	.	benign(0.001)	7/19	.	hmmpanther:PTHR14127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGATGAGGAG	.	4	BLCA
NOP9	0	.	GRCh37	14	24773757	24773757	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1706G>A	p.Trp569Ter	p.W569*	ENST00000267425	9/10	46	41	5	60	60	0	NOP9,stop_gained,p.Trp569Ter,ENST00000267425,;NOP9,intron_variant,,ENST00000396802,;NOP9,intron_variant,,ENST00000557362,;LTB4R2,upstream_gene_variant,,ENST00000527924,;DHRS1,upstream_gene_variant,,ENST00000288111,;CIDEB,downstream_gene_variant,,ENST00000556756,;CIDEB,downstream_gene_variant,,ENST00000554411,;LTB4R2,upstream_gene_variant,,ENST00000528054,;CIDEB,downstream_gene_variant,,ENST00000336557,;CIDEB,downstream_gene_variant,,ENST00000258807,;DHRS1,upstream_gene_variant,,ENST00000559483,;DHRS1,upstream_gene_variant,,ENST00000561273,;DHRS1,upstream_gene_variant,,ENST00000558114,;DHRS1,upstream_gene_variant,,ENST00000558340,;DHRS1,upstream_gene_variant,,ENST00000560991,;	A	ENSG00000196943	ENST00000267425	Transcript	stop_gained	1799	1706	569	W/*	tGg/tAg	COSM140720	.	.	1	NOP9	HGNC	19826	protein_coding	YES	CCDS9624.1	ENSP00000267425	NOP9_HUMAN	B3KVY3_HUMAN	UPI000000CBCF	.	.	.	9/10	.	hmmpanther:PTHR13102,hmmpanther:PTHR13102:SF0,Gene3D:1.25.10.10,SMART_domains:SM00025,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCTGGAGTG	.	4	BLCA
WDHD1	0	.	GRCh37	14	55408345	55408345	+	Missense_Mutation	SNP	G	G	A	rs779514064	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3253C>T	p.Arg1085Cys	p.R1085C	ENST00000360586	26/26	46	40	6	83	83	0	WDHD1,missense_variant,p.Arg962Cys,ENST00000420358,;WDHD1,missense_variant,p.Arg962Cys,ENST00000421192,;WDHD1,missense_variant,p.Arg603Cys,ENST00000359167,;WDHD1,missense_variant,p.Arg1085Cys,ENST00000360586,;WDHD1,3_prime_UTR_variant,,ENST00000567693,;WDHD1,non_coding_transcript_exon_variant,,ENST00000475379,;	A	ENSG00000198554	ENST00000360586	Transcript	missense_variant	3319	3253	1085	R/C	Cgt/Tgt	rs779514064	.	.	-1	WDHD1	HGNC	23170	protein_coding	YES	CCDS9721.1	ENSP00000353793	WDHD1_HUMAN	C9JYB3_HUMAN,C9JW18_HUMAN	UPI0000125AC6	.	deleterious(0)	benign(0.014)	26/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR19932,hmmpanther:PTHR19932:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CACACGTTTTC	.	3	BLCA
PPM1A	0	.	GRCh37	14	60749768	60749768	+	Missense_Mutation	SNP	C	C	T	rs756020328	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.566C>T	p.Ser189Leu	p.S189L	ENST00000325642	2/6	61	55	6	83	83	0	PPM1A,missense_variant,p.Ser116Leu,ENST00000529574,;PPM1A,missense_variant,p.Ser116Leu,ENST00000325658,;PPM1A,missense_variant,p.Ser116Leu,ENST00000528241,;PPM1A,missense_variant,p.Ser116Leu,ENST00000525399,;PPM1A,missense_variant,p.Ser189Leu,ENST00000325642,;PPM1A,missense_variant,p.Ser116Leu,ENST00000395076,;PPM1A,missense_variant,p.Ser116Leu,ENST00000531937,;PPM1A,3_prime_UTR_variant,,ENST00000531143,;PPM1A,intron_variant,,ENST00000532036,;	T	ENSG00000100614	ENST00000325642	Transcript	missense_variant	662	566	189	S/L	tCa/tTa	rs756020328	.	.	1	PPM1A	HGNC	9275	protein_coding	YES	CCDS45120.1	ENSP00000327255	PPM1A_HUMAN	E9PL75_HUMAN,E9PKB5_HUMAN,E9PJN3_HUMAN	UPI0000E01530	.	tolerated(0.66)	benign(0.029)	2/6	.	Superfamily_domains:SSF81606,SMART_domains:SM00332,Pfam_domain:PF00481,Gene3D:3.60.40.10,hmmpanther:PTHR13832,hmmpanther:PTHR13832:SF262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATGTCAGAGA	.	4	BLCA
PPP2R5E	0	.	GRCh37	14	63856332	63856332	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1072C>G	p.Gln358Glu	p.Q358E	ENST00000337537	11/14	38	31	7	68	68	0	PPP2R5E,missense_variant,p.Gln358Glu,ENST00000337537,;PPP2R5E,missense_variant,p.Gln282Glu,ENST00000422769,;PPP2R5E,missense_variant,p.Gln358Glu,ENST00000555899,;PPP2R5E,splice_region_variant,,ENST00000553266,;PPP2R5E,splice_region_variant,,ENST00000556150,;PPP2R5E,splice_region_variant,,ENST00000556484,;	C	ENSG00000154001	ENST00000337537	Transcript	missense_variant	1675	1072	358	Q/E	Cag/Gag	.	.	.	-1	PPP2R5E	HGNC	9313	protein_coding	YES	CCDS9758.1	ENSP00000337641	2A5E_HUMAN	J3KQN6_HUMAN	UPI0000124E94	.	deleterious(0)	possibly_damaging(0.465)	11/14	.	hmmpanther:PTHR10257,hmmpanther:PTHR10257:SF5,Gene3D:1.25.10.10,Pfam_domain:PF01603,PIRSF_domain:PIRSF028043,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCTGAAAAT	.	5	BLCA
PPP1R36	0	.	GRCh37	14	65041193	65041193	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.554A>T	p.Glu185Val	p.E185V	ENST00000298705	8/12	60	52	8	73	73	0	PPP1R36,missense_variant,p.Glu185Val,ENST00000298705,;RP11-973N13.3,intron_variant,,ENST00000556634,;RP11-973N13.3,intron_variant,,ENST00000554454,;PPP1R36,3_prime_UTR_variant,,ENST00000467261,;	T	ENSG00000165807	ENST00000298705	Transcript	missense_variant	650	554	185	E/V	gAa/gTa	.	.	.	1	PPP1R36	HGNC	20097	protein_coding	YES	CCDS9767.1	ENSP00000298705	PPR36_HUMAN	G3V5S6_HUMAN,E9PLB5_HUMAN	UPI0000070446	.	deleterious(0.04)	probably_damaging(0.999)	8/12	.	hmmpanther:PTHR21055,Pfam_domain:PF14895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAAGAAATGG	.	4	BLCA
ADAM21	0	.	GRCh37	14	70926037	70926037	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1821G>A	p.%3D	p.V607V	ENST00000603540	2/2	66	60	6	60	60	0	ADAM21,synonymous_variant,p.%3D,ENST00000603540,;ADAM21,synonymous_variant,p.%3D,ENST00000267499,;RP11-486O13.4,intron_variant,,ENST00000556646,;	A	ENSG00000139985	ENST00000603540	Transcript	synonymous_variant	2079	1821	607	V	gtG/gtA	.	.	.	1	ADAM21	HGNC	200	protein_coding	YES	CCDS9804.1	ENSP00000474385	ADA21_HUMAN	.	UPI000013D756	.	.	.	2/2	.	SMART_domains:SM00608,Pfam_domain:PF08516,hmmpanther:PTHR11905:SF116,hmmpanther:PTHR11905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAAGTGAAAGA	.	3	BLCA
SIPA1L1	0	.	GRCh37	14	72055461	72055461	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.872G>C	p.Gly291Ala	p.G291A	ENST00000555818	2/22	74	48	25	70	70	0	SIPA1L1,missense_variant,p.Gly291Ala,ENST00000358550,;SIPA1L1,missense_variant,p.Gly291Ala,ENST00000381232,;SIPA1L1,missense_variant,p.Gly291Ala,ENST00000555818,;SIPA1L1,downstream_gene_variant,,ENST00000557151,;SIPA1L1,downstream_gene_variant,,ENST00000555652,;SIPA1L1,downstream_gene_variant,,ENST00000554362,;SIPA1L1,downstream_gene_variant,,ENST00000555989,;	C	ENSG00000197555	ENST00000555818	Transcript	missense_variant	1220	872	291	G/A	gGa/gCa	.	.	.	1	SIPA1L1	HGNC	20284	protein_coding	YES	CCDS9807.1	ENSP00000450832	SI1L1_HUMAN	G3V4Z3_HUMAN	UPI00000443CB	.	tolerated(1)	probably_damaging(0.968)	2/22	.	hmmpanther:PTHR15711:SF10,hmmpanther:PTHR15711	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTGGAGACT	.	5	BLCA
EIF2B2	0	.	GRCh37	14	75470288	75470288	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319G>C	p.Glu107Gln	p.E107Q	ENST00000266126	3/8	48	45	3	86	86	0	EIF2B2,missense_variant,p.Glu107Gln,ENST00000266126,;EIF2B2,upstream_gene_variant,,ENST00000554748,;RP11-950C14.3,downstream_gene_variant,,ENST00000554430,;EIF2B2,missense_variant,p.Glu98Gln,ENST00000553401,;EIF2B2,missense_variant,p.Glu107Gln,ENST00000556028,;EIF2B2,non_coding_transcript_exon_variant,,ENST00000553539,;EIF2B2,non_coding_transcript_exon_variant,,ENST00000555522,;EIF2B2,upstream_gene_variant,,ENST00000556668,;	C	ENSG00000119718	ENST00000266126	Transcript	missense_variant	399	319	107	E/Q	Gag/Cag	.	.	.	1	EIF2B2	HGNC	3258	protein_coding	YES	CCDS9836.1	ENSP00000266126	EI2BB_HUMAN	Q53XC2_HUMAN	UPI0000000CB9	.	tolerated(0.1)	benign(0.213)	3/8	.	hmmpanther:PTHR10233,hmmpanther:PTHR10233:SF9,Pfam_domain:PF01008	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCAGGAGTCC	.	2	BLCA
PTPN21	0	.	GRCh37	14	88945861	88945861	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1914C>T	p.%3D	p.I638I	ENST00000556564	13/19	43	35	7	54	54	0	PTPN21,synonymous_variant,p.%3D,ENST00000556564,;PTPN21,synonymous_variant,p.%3D,ENST00000328736,;PTPN21,3_prime_UTR_variant,,ENST00000536337,;PTPN21,non_coding_transcript_exon_variant,,ENST00000554270,;	A	ENSG00000070778	ENST00000556564	Transcript	synonymous_variant	2199	1914	638	I	atC/atT	.	.	.	-1	PTPN21	HGNC	9651	protein_coding	YES	CCDS9884.1	ENSP00000452414	PTN21_HUMAN	Q8WX29_HUMAN,G3V3S6_HUMAN	UPI000013D15F	.	.	.	13/19	.	hmmpanther:PTHR19134:SF78,hmmpanther:PTHR19134,PIRSF_domain:PIRSF000934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTCGATGCT	.	5	BLCA
TRIP11	0	.	GRCh37	14	92471670	92471670	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2650G>A	p.Asp884Asn	p.D884N	ENST00000267622	11/21	69	63	5	75	75	0	TRIP11,missense_variant,p.Asp600Asn,ENST00000554357,;TRIP11,missense_variant,p.Asp884Asn,ENST00000267622,;	T	ENSG00000100815	ENST00000267622	Transcript	missense_variant	3024	2650	884	D/N	Gac/Aac	.	.	.	-1	TRIP11	HGNC	12305	protein_coding	YES	CCDS9899.1	ENSP00000267622	TRIPB_HUMAN	G3V4R7_HUMAN	UPI000013D767	.	deleterious(0.04)	benign(0.102)	11/21	.	hmmpanther:PTHR18921:SF2,hmmpanther:PTHR18921	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGGGTCAGCCA	.	2	BLCA
AK7	0	.	GRCh37	14	96858545	96858545	+	Silent	SNP	G	G	A	rs775049122	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.%3D	p.Q18Q	ENST00000267584	1/18	55	34	20	58	58	0	AK7,synonymous_variant,p.%3D,ENST00000267584,;AK7,synonymous_variant,p.%3D,ENST00000555570,;GSKIP,downstream_gene_variant,,ENST00000438650,;GSKIP,downstream_gene_variant,,ENST00000556095,;GSKIP,downstream_gene_variant,,ENST00000555181,;AK7,non_coding_transcript_exon_variant,,ENST00000556643,;	A	ENSG00000140057	ENST00000267584	Transcript	synonymous_variant	98	54	18	Q	caG/caA	rs775049122	.	.	1	AK7	HGNC	20091	protein_coding	YES	CCDS9945.1	ENSP00000267584	KAD7_HUMAN	.	UPI00001FDB1D	.	.	.	1/18	.	hmmpanther:PTHR23359,hmmpanther:PTHR23359:SF71	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCAGAGGGT	byFrequency	5	BLCA
PAPOLA	0	.	GRCh37	14	97022689	97022689	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1943G>T	p.Gly648Val	p.G648V	ENST00000216277	19/22	96	81	15	116	116	0	PAPOLA,missense_variant,p.Gly648Val,ENST00000392990,;PAPOLA,missense_variant,p.Gly648Val,ENST00000216277,;PAPOLA,missense_variant,p.Gly398Val,ENST00000555626,;PAPOLA,missense_variant,p.Gly149Val,ENST00000556459,;PAPOLA,3_prime_UTR_variant,,ENST00000553689,;PAPOLA,downstream_gene_variant,,ENST00000555701,;PAPOLA,downstream_gene_variant,,ENST00000556787,;PAPOLA,downstream_gene_variant,,ENST00000556283,;PAPOLA,downstream_gene_variant,,ENST00000554135,;PAPOLA,upstream_gene_variant,,ENST00000553940,;	T	ENSG00000090060	ENST00000216277	Transcript	missense_variant	2163	1943	648	G/V	gGa/gTa	.	.	.	1	PAPOLA	HGNC	14981	protein_coding	YES	CCDS9946.1	ENSP00000216277	PAPOA_HUMAN	G3V2A0_HUMAN,B7ZA53_HUMAN,B4DZL2_HUMAN	UPI0000074269	.	deleterious(0.02)	benign(0.255)	19/22	.	PIRSF_domain:PIRSF018425	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTAGGAGTCA	.	5	BLCA
HERC2	0	.	GRCh37	15	28501052	28501052	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2837C>T	p.Ser946Leu	p.S946L	ENST00000261609	19/93	47	44	3	64	64	0	HERC2,missense_variant,p.Ser946Leu,ENST00000261609,;HERC2,3_prime_UTR_variant,,ENST00000564734,;	A	ENSG00000128731	ENST00000261609	Transcript	missense_variant	2946	2837	946	S/L	tCa/tTa	.	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	benign(0.073)	19/93	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGGCTGACTCC	.	2	BLCA
SLC12A6	0	.	GRCh37	15	34534377	34534377	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2088C>G	p.Phe696Leu	p.F696L	ENST00000354181	17/26	48	45	3	82	82	0	SLC12A6,missense_variant,p.Phe696Leu,ENST00000560611,;SLC12A6,missense_variant,p.Phe687Leu,ENST00000558589,;SLC12A6,missense_variant,p.Phe637Leu,ENST00000397702,;SLC12A6,missense_variant,p.Phe508Leu,ENST00000560164,;SLC12A6,missense_variant,p.Phe696Leu,ENST00000354181,;SLC12A6,missense_variant,p.Phe637Leu,ENST00000458406,;SLC12A6,missense_variant,p.Phe681Leu,ENST00000397707,;SLC12A6,missense_variant,p.Phe645Leu,ENST00000290209,;SLC12A6,missense_variant,p.Phe508Leu,ENST00000451844,;SLC12A6,missense_variant,p.Phe696Leu,ENST00000558667,;SLC12A6,missense_variant,p.Phe696Leu,ENST00000559664,;SLC12A6,missense_variant,p.Phe696Leu,ENST00000561080,;SLC12A6,missense_variant,p.Phe637Leu,ENST00000559523,;SLC12A6,non_coding_transcript_exon_variant,,ENST00000560023,;SLC12A6,upstream_gene_variant,,ENST00000559076,;SLC12A6,upstream_gene_variant,,ENST00000559441,;SLC12A6,upstream_gene_variant,,ENST00000558950,;	C	ENSG00000140199	ENST00000354181	Transcript	missense_variant	2581	2088	696	F/L	ttC/ttG	.	.	.	-1	SLC12A6	HGNC	10914	protein_coding	YES	CCDS58352.1	ENSP00000346112	S12A6_HUMAN	H0YNJ5_HUMAN,H0YKL8_HUMAN,H0YKJ2_HUMAN,H0YKE6_HUMAN	UPI0000135427	.	deleterious(0.02)	possibly_damaging(0.868)	17/26	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11827:SF51,hmmpanther:PTHR11827,Pfam_domain:PF00324,TIGRFAM_domain:TIGR00930	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GAAATGAACAT	.	2	BLCA
CHP1	0	.	GRCh37	15	41535933	41535933	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136C>G	p.Leu46Val	p.L46V	ENST00000334660	2/7	22	15	7	21	21	0	CHP1,missense_variant,p.Leu46Val,ENST00000560397,;CHP1,missense_variant,p.Leu46Val,ENST00000334660,;CHP1,non_coding_transcript_exon_variant,,ENST00000561280,;CHP1,non_coding_transcript_exon_variant,,ENST00000558351,;CHP1,missense_variant,p.Leu46Val,ENST00000560784,;CHP1,missense_variant,p.Leu46Val,ENST00000392151,;CHP1,intron_variant,,ENST00000560411,;	G	ENSG00000187446	ENST00000334660	Transcript	missense_variant	376	136	46	L/V	Ctc/Gtc	.	.	.	1	CHP1	HGNC	17433	protein_coding	YES	CCDS10073.1	ENSP00000335632	CHP1_HUMAN	.	UPI000013D461	.	deleterious(0.02)	possibly_damaging(0.52)	2/7	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23056,hmmpanther:PTHR23056:SF17,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACTCTCAGG	.	5	BLCA
ZNF106	0	.	GRCh37	15	42729493	42729493	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4614G>C	p.Gln1538His	p.Q1538H	ENST00000263805	10/19	90	82	8	131	131	0	ZNF106,missense_variant,p.Gln723His,ENST00000565611,;ZNF106,missense_variant,p.Gln766His,ENST00000565380,;ZNF106,missense_variant,p.Gln505His,ENST00000565500,;ZNF106,missense_variant,p.Gln1538His,ENST00000263805,;ZNF106,downstream_gene_variant,,ENST00000567772,;	G	ENSG00000103994	ENST00000263805	Transcript	missense_variant	4941	4614	1538	Q/H	caG/caC	COSM1372933	.	.	-1	ZNF106	HGNC	12886	protein_coding	YES	CCDS32208.1	ENSP00000263805	ZN106_HUMAN	H3BNX5_HUMAN	UPI000006D6CC	.	deleterious(0.01)	probably_damaging(0.999)	10/19	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR14435,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATATCTGAAT	.	4	BLCA
TTBK2	0	.	GRCh37	15	43044531	43044531	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2913G>C	p.Lys971Asn	p.K971N	ENST00000267890	14/15	92	54	37	91	91	0	TTBK2,missense_variant,p.Lys971Asn,ENST00000267890,;	G	ENSG00000128881	ENST00000267890	Transcript	missense_variant	3022	2913	971	K/N	aaG/aaC	.	.	.	-1	TTBK2	HGNC	19141	protein_coding	YES	CCDS42029.1	ENSP00000267890	TTBK2_HUMAN	H3BTY5_HUMAN	UPI0000043542	.	deleterious(0)	probably_damaging(0.999)	14/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTCTTTTG	.	5	BLCA
TTBK2	0	.	GRCh37	15	43044785	43044785	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2659G>A	p.Glu887Lys	p.E887K	ENST00000267890	14/15	69	43	26	99	99	0	TTBK2,missense_variant,p.Glu887Lys,ENST00000267890,;	T	ENSG00000128881	ENST00000267890	Transcript	missense_variant	2768	2659	887	E/K	Gaa/Aaa	.	.	.	-1	TTBK2	HGNC	19141	protein_coding	YES	CCDS42029.1	ENSP00000267890	TTBK2_HUMAN	H3BTY5_HUMAN	UPI0000043542	.	tolerated_low_confidence(0.08)	benign(0.092)	14/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCACTCA	.	5	BLCA
TTBK2	0	.	GRCh37	15	43044920	43044920	+	Missense_Mutation	SNP	C	C	G	rs747638637	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2524G>C	p.Glu842Gln	p.E842Q	ENST00000267890	14/15	59	36	22	90	90	0	TTBK2,missense_variant,p.Glu842Gln,ENST00000267890,;	G	ENSG00000128881	ENST00000267890	Transcript	missense_variant	2633	2524	842	E/Q	Gag/Cag	rs747638637	.	.	-1	TTBK2	HGNC	19141	protein_coding	YES	CCDS42029.1	ENSP00000267890	TTBK2_HUMAN	H3BTY5_HUMAN	UPI0000043542	.	tolerated_low_confidence(0.08)	benign(0.238)	14/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCATTAT	.	5	BLCA
LCMT2	0	.	GRCh37	15	43622527	43622527	+	Missense_Mutation	SNP	C	C	T	rs761343841	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.161G>A	p.Arg54Gln	p.R54Q	ENST00000305641	1/1	53	46	7	62	62	0	LCMT2,missense_variant,p.Arg54Gln,ENST00000305641,;LCMT2,intron_variant,,ENST00000544735,;LCMT2,intron_variant,,ENST00000567039,;ADAL,upstream_gene_variant,,ENST00000428046,;ADAL,upstream_gene_variant,,ENST00000562188,;ADAL,upstream_gene_variant,,ENST00000389651,;ADAL,upstream_gene_variant,,ENST00000422466,;ADAL,upstream_gene_variant,,ENST00000563551,;ADAL,upstream_gene_variant,,ENST00000565555,;	T	ENSG00000168806	ENST00000305641	Transcript	missense_variant	277	161	54	R/Q	cGa/cAa	rs761343841	.	.	-1	LCMT2	HGNC	17558	protein_coding	YES	CCDS10094.1	ENSP00000307214	LCMT2_HUMAN	B4DUW3_HUMAN	UPI00000727F6	.	deleterious(0)	probably_damaging(0.999)	1/1	.	hmmpanther:PTHR13600,hmmpanther:PTHR13600:SF2,Pfam_domain:PF04072,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTCGGTGA	.	4	BLCA
DMXL2	0	.	GRCh37	15	51757070	51757070	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7610T>C	p.Leu2537Pro	p.L2537P	ENST00000543779	32/43	47	33	14	89	89	0	DMXL2,missense_variant,p.Leu1900Pro,ENST00000449909,;DMXL2,missense_variant,p.Leu2537Pro,ENST00000543779,;DMXL2,missense_variant,p.Leu662Pro,ENST00000560891,;DMXL2,missense_variant,p.Leu2536Pro,ENST00000251076,;RP11-707P17.1,intron_variant,,ENST00000561007,;RP11-707P17.2,downstream_gene_variant,,ENST00000560727,;RP11-707P17.2,downstream_gene_variant,,ENST00000559173,;RP11-707P17.2,downstream_gene_variant,,ENST00000559977,;DMXL2,non_coding_transcript_exon_variant,,ENST00000561079,;DMXL2,intron_variant,,ENST00000559498,;	G	ENSG00000104093	ENST00000543779	Transcript	missense_variant	7700	7610	2537	L/P	cTg/cCg	.	.	.	-1	DMXL2	HGNC	2938	protein_coding	YES	CCDS53946.1	ENSP00000441858	DMXL2_HUMAN	.	UPI00001FE4C2	.	deleterious(0)	probably_damaging(0.999)	32/43	.	hmmpanther:PTHR13950:SF11,hmmpanther:PTHR13950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGCAGCTCT	.	5	BLCA
DENND4A	0	.	GRCh37	15	65959945	65959945	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5080T>G	p.Leu1694Val	p.L1694V	ENST00000443035	29/33	40	33	7	61	61	0	DENND4A,missense_variant,p.Leu1694Val,ENST00000443035,;DENND4A,missense_variant,p.Leu1651Val,ENST00000431932,;DENND4A,upstream_gene_variant,,ENST00000562540,;	C	ENSG00000174485	ENST00000443035	Transcript	missense_variant	5296	5080	1694	L/V	Ttg/Gtg	.	.	.	-1	DENND4A	HGNC	24321	protein_coding	YES	CCDS53949.1	ENSP00000391167	MYCPP_HUMAN	.	UPI000013EDF7	.	deleterious(0.01)	probably_damaging(0.979)	29/33	.	hmmpanther:PTHR12296:SF16,hmmpanther:PTHR12296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCAATAAGC	.	5	BLCA
CALML4	0	.	GRCh37	15	68497727	68497727	+	5'UTR	SNP	C	C	G	rs371209739	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-13G>C	.	.	ENST00000467889	1/5	19	16	3	35	35	0	CALML4,5_prime_UTR_variant,,ENST00000395465,;CALML4,5_prime_UTR_variant,,ENST00000448060,;CALML4,5_prime_UTR_variant,,ENST00000540479,;CALML4,5_prime_UTR_variant,,ENST00000467889,;RP11-315D16.2,intron_variant,,ENST00000562767,;CLN6,downstream_gene_variant,,ENST00000538696,;CLN6,downstream_gene_variant,,ENST00000564752,;CLN6,downstream_gene_variant,,ENST00000565471,;CLN6,downstream_gene_variant,,ENST00000566347,;CLN6,downstream_gene_variant,,ENST00000418702,;CLN6,downstream_gene_variant,,ENST00000249806,;CALML4,5_prime_UTR_variant,,ENST00000395463,;CLN6,downstream_gene_variant,,ENST00000563917,;CALML4,upstream_gene_variant,,ENST00000478113,;CLN6,downstream_gene_variant,,ENST00000567060,;	G	ENSG00000129007	ENST00000467889	Transcript	5_prime_UTR_variant	173	.	.	.	.	rs371209739	.	.	-1	CALML4	HGNC	18445	protein_coding	YES	CCDS10226.2	ENSP00000419081	CALL4_HUMAN	H3BS46_HUMAN	UPI0000251E74	.	.	.	1/5	.	.	.	.	.	.	.	.	.	A:0.0018	A:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCCCGACGC	byFrequency|byCluster	2	BLCA
C15orf39	0	.	GRCh37	15	75498511	75498511	+	Missense_Mutation	SNP	G	G	A	rs150862421	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.122G>A	p.Cys41Tyr	p.C41Y	ENST00000360639	2/3	47	42	5	89	89	0	C15orf39,missense_variant,p.Cys41Tyr,ENST00000567617,;C15orf39,missense_variant,p.Cys41Tyr,ENST00000360639,;C15orf39,missense_variant,p.Cys41Tyr,ENST00000394987,;C15orf39,downstream_gene_variant,,ENST00000562637,;C15orf39,upstream_gene_variant,,ENST00000565074,;C15orf39,downstream_gene_variant,,ENST00000563905,;C15orf39,downstream_gene_variant,,ENST00000564848,;	A	ENSG00000167173	ENST00000360639	Transcript	missense_variant	442	122	41	C/Y	tGc/tAc	rs150862421	.	.	1	C15orf39	HGNC	24497	protein_coding	YES	CCDS10276.1	ENSP00000353854	CO039_HUMAN	H3BT66_HUMAN,H3BRS2_HUMAN,H3BN41_HUMAN	UPI000004F079	.	tolerated(0.41)	possibly_damaging(0.588)	2/3	.	.	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCCCTGCACCT	byCluster	3	BLCA
PEAK1	0	.	GRCh37	15	77472070	77472070	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2199G>C	p.Lys733Asn	p.K733N	ENST00000560626	4/7	70	62	7	111	111	0	PEAK1,missense_variant,p.Lys733Asn,ENST00000560626,;PEAK1,missense_variant,p.Lys733Asn,ENST00000558305,;PEAK1,missense_variant,p.Lys733Asn,ENST00000312493,;PEAK1,downstream_gene_variant,,ENST00000565820,;PEAK1,downstream_gene_variant,,ENST00000564328,;PEAK1,downstream_gene_variant,,ENST00000567808,;PEAK1,upstream_gene_variant,,ENST00000559791,;PEAK1,non_coding_transcript_exon_variant,,ENST00000560854,;	G	ENSG00000173517	ENST00000560626	Transcript	missense_variant	2675	2199	733	K/N	aaG/aaC	.	.	.	-1	PEAK1	HGNC	29431	protein_coding	YES	CCDS42062.1	ENSP00000452796	PEAK1_HUMAN	H3BUZ5_HUMAN,H3BUE6_HUMAN	UPI00002378D0	.	tolerated_low_confidence(0.3)	benign(0.004)	4/7	.	hmmpanther:PTHR22972,hmmpanther:PTHR22972:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCTTTGC	.	4	BLCA
RASGRF1	0	.	GRCh37	15	79264243	79264243	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3694C>T	p.Gln1232Ter	p.Q1232*	ENST00000419573	27/28	73	68	5	129	129	0	RASGRF1,stop_gained,p.Gln1216Ter,ENST00000558480,;RASGRF1,stop_gained,p.Gln1232Ter,ENST00000419573,;RASGRF1,stop_gained,p.Gln448Ter,ENST00000394745,;RASGRF1,downstream_gene_variant,,ENST00000559926,;	A	ENSG00000058335	ENST00000419573	Transcript	stop_gained	3969	3694	1232	Q/*	Caa/Taa	.	.	.	-1	RASGRF1	HGNC	9875	protein_coding	YES	CCDS10309.1	ENSP00000405963	.	J3KQP9_HUMAN	UPI000013D1F1	.	.	.	27/28	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113:SF193,hmmpanther:PTHR23113,Gene3D:2ii0A02,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGTTGAAACT	.	2	BLCA
RASGRF1	0	.	GRCh37	15	79310118	79310118	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1737C>T	p.%3D	p.I579I	ENST00000419573	12/28	41	33	7	100	100	0	RASGRF1,synonymous_variant,p.%3D,ENST00000558480,;RASGRF1,synonymous_variant,p.%3D,ENST00000419573,;RASGRF1,non_coding_transcript_exon_variant,,ENST00000560334,;	A	ENSG00000058335	ENST00000419573	Transcript	synonymous_variant	2012	1737	579	I	atC/atT	.	.	.	-1	RASGRF1	HGNC	9875	protein_coding	YES	CCDS10309.1	ENSP00000405963	.	J3KQP9_HUMAN	UPI000013D1F1	.	.	.	12/28	.	PROSITE_profiles:PS50003,hmmpanther:PTHR23113:SF193,hmmpanther:PTHR23113,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGATGTC	.	5	BLCA
ACAN	0	.	GRCh37	15	89400237	89400237	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4421G>A	p.Gly1474Glu	p.G1474E	ENST00000439576	12/18	105	91	13	148	148	0	ACAN,missense_variant,p.Gly1474Glu,ENST00000559004,;ACAN,missense_variant,p.Gly1474Glu,ENST00000439576,;ACAN,missense_variant,p.Gly1474Glu,ENST00000561243,;ACAN,missense_variant,p.Gly1474Glu,ENST00000352105,;ACAN,upstream_gene_variant,,ENST00000560601,;	A	ENSG00000157766	ENST00000439576	Transcript	missense_variant	4795	4421	1474	G/E	gGa/gAa	.	.	.	1	ACAN	HGNC	319	protein_coding	YES	CCDS53970.1	ENSP00000387356	.	Q6LE94_HUMAN,E7EX88_HUMAN	UPI0001B23381	.	tolerated(1)	benign(0.074)	12/18	.	hmmpanther:PTHR22804:SF42,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGAGGAGAAG	.	4	BLCA
C15orf38-AP3S2	0	.	GRCh37	15	90446523	90446523	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597C>T	p.%3D	p.I199I	ENST00000398333	5/10	85	74	10	100	100	0	C15orf38-AP3S2,synonymous_variant,p.%3D,ENST00000398333,;C15orf38,synonymous_variant,p.%3D,ENST00000357484,;C15orf38,synonymous_variant,p.%3D,ENST00000560096,;C15orf38,synonymous_variant,p.%3D,ENST00000460685,;C15orf38-AP3S2,synonymous_variant,p.%3D,ENST00000559629,;C15orf38-AP3S2,synonymous_variant,p.%3D,ENST00000558648,;C15orf38-AP3S2,non_coding_transcript_exon_variant,,ENST00000560224,;	A	ENSG00000250021	ENST00000398333	Transcript	synonymous_variant	644	597	199	I	atC/atT	.	.	.	-1	C15orf38-AP3S2	HGNC	38824	protein_coding	YES	CCDS55977.1	ENSP00000381377	.	.	UPI00005A6223	.	.	.	5/10	.	Pfam_domain:PF10574,hmmpanther:PTHR31199:SF1,hmmpanther:PTHR31199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGATGTT	.	4	BLCA
MAPK8IP3	0	.	GRCh37	16	1798319	1798319	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066G>C	p.Glu356Gln	p.E356Q	ENST00000250894	7/32	41	38	3	59	58	1	MAPK8IP3,missense_variant,p.Glu356Gln,ENST00000356010,;MAPK8IP3,missense_variant,p.Glu356Gln,ENST00000250894,;LA16c-361A3.3,downstream_gene_variant,,ENST00000569670,;MAPK8IP3,non_coding_transcript_exon_variant,,ENST00000568271,;MAPK8IP3,3_prime_UTR_variant,,ENST00000567849,;MAPK8IP3,non_coding_transcript_exon_variant,,ENST00000568774,;MAPK8IP3,downstream_gene_variant,,ENST00000564098,;MAPK8IP3,downstream_gene_variant,,ENST00000561765,;	C	ENSG00000138834	ENST00000250894	Transcript	missense_variant	1223	1066	356	E/Q	Gag/Cag	.	.	.	1	MAPK8IP3	HGNC	6884	protein_coding	YES	CCDS10442.2	ENSP00000250894	JIP3_HUMAN	.	UPI000034ECA7	.	tolerated(0.08)	benign(0.365)	7/32	.	hmmpanther:PTHR13886,hmmpanther:PTHR13886:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCAGAGACC	.	2	BLCA
ERN2	0	.	GRCh37	16	23718358	23718358	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.493T>C	p.Cys165Arg	p.C165R	ENST00000256797	5/22	30	26	4	65	65	0	ERN2,missense_variant,p.Cys117Arg,ENST00000457008,;ERN2,missense_variant,p.Cys165Arg,ENST00000256797,;CTD-2385L22.1,upstream_gene_variant,,ENST00000563611,;ERN2,3_prime_UTR_variant,,ENST00000562562,;ERN2,non_coding_transcript_exon_variant,,ENST00000561478,;ERN2,downstream_gene_variant,,ENST00000569903,;ERN2,upstream_gene_variant,,ENST00000566565,;	G	ENSG00000134398	ENST00000256797	Transcript	missense_variant	662	493	165	C/R	Tgc/Cgc	.	.	.	-1	ERN2	HGNC	16942	protein_coding	YES	CCDS32407.1	ENSP00000256797	ERN2_HUMAN	.	UPI000041A8F8	.	deleterious(0)	probably_damaging(0.992)	5/22	.	hmmpanther:PTHR13954:SF9,hmmpanther:PTHR13954,Gene3D:2.140.10.10,SMART_domains:SM00564,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGGCAGGGAG	.	4	BLCA
GTF3C1	0	.	GRCh37	16	27561472	27561472	+	5'Flank	SNP	C	C	T	rs554319752	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000356183	.	28	19	9	49	49	0	GTF3C1,upstream_gene_variant,,ENST00000561623,;KIAA0556,upstream_gene_variant,,ENST00000261588,;GTF3C1,upstream_gene_variant,,ENST00000356183,;KIAA0556,non_coding_transcript_exon_variant,,ENST00000566023,;	T	ENSG00000077235	ENST00000356183	Transcript	upstream_gene_variant	.	.	.	.	.	rs554319752	.	245	-1	GTF3C1	HGNC	4664	protein_coding	YES	CCDS32414.1	ENSP00000348510	TF3C1_HUMAN	Q7Z7H4_HUMAN,I3L1Z3_HUMAN	UPI00001FF123	.	.	.	.	.	.	G:0.0002	G:0.0008	G:0	.	G:0	G:0	G:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCCCGGAAC	by1000G	5	BLCA
SRCAP	0	.	GRCh37	16	30750651	30750651	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9290C>T	p.Ala3097Val	p.A3097V	ENST00000262518	34/34	45	36	9	68	68	0	SRCAP,missense_variant,p.Ala3097Val,ENST00000262518,;SRCAP,missense_variant,p.Ala2939Val,ENST00000344771,;SRCAP,missense_variant,p.Ala3035Val,ENST00000395059,;RP11-2C24.4,upstream_gene_variant,,ENST00000483578,;SRCAP,missense_variant,p.Ala2920Val,ENST00000380361,;SRCAP,downstream_gene_variant,,ENST00000474008,;	T	ENSG00000080603	ENST00000262518	Transcript	missense_variant	9675	9290	3097	A/V	gCa/gTa	.	.	.	1	SRCAP	HGNC	16974	protein_coding	YES	CCDS10689.2	ENSP00000262518	SRCAP_HUMAN	G1UI29_HUMAN,C9J4U4_HUMAN	UPI000059D368	.	.	unknown(0)	34/34	.	hmmpanther:PTHR10799:SF581,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTAGCAGATA	.	5	BLCA
C16orf93	0	.	GRCh37	16	30770756	30770756	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.564C>G	p.%3D	p.L188L	ENST00000543610	6/9	61	56	5	92	92	0	C16orf93,missense_variant,p.Ser54Cys,ENST00000544613,;C16orf93,synonymous_variant,p.%3D,ENST00000541260,;C16orf93,synonymous_variant,p.%3D,ENST00000535476,;C16orf93,synonymous_variant,p.%3D,ENST00000543610,;PHKG2,3_prime_UTR_variant,,ENST00000563588,;PHKG2,intron_variant,,ENST00000424889,;RNF40,upstream_gene_variant,,ENST00000566811,;C16orf93,downstream_gene_variant,,ENST00000545825,;RNF40,upstream_gene_variant,,ENST00000563683,;PHKG2,downstream_gene_variant,,ENST00000561712,;RNF40,upstream_gene_variant,,ENST00000324685,;RNF40,upstream_gene_variant,,ENST00000402121,;RNF40,upstream_gene_variant,,ENST00000565931,;PHKG2,downstream_gene_variant,,ENST00000565897,;PHKG2,downstream_gene_variant,,ENST00000565924,;PHKG2,downstream_gene_variant,,ENST00000328273,;RNF40,upstream_gene_variant,,ENST00000563909,;RNF40,upstream_gene_variant,,ENST00000565995,;RNF40,upstream_gene_variant,,ENST00000357890,;C16orf93,non_coding_transcript_exon_variant,,ENST00000544487,;C16orf93,non_coding_transcript_exon_variant,,ENST00000544643,;C16orf93,non_coding_transcript_exon_variant,,ENST00000543128,;C16orf93,non_coding_transcript_exon_variant,,ENST00000546006,;C16orf93,non_coding_transcript_exon_variant,,ENST00000433909,;C16orf93,intron_variant,,ENST00000537986,;PHKG2,downstream_gene_variant,,ENST00000563913,;RNF40,upstream_gene_variant,,ENST00000493683,;C16orf93,downstream_gene_variant,,ENST00000545809,;PHKG2,downstream_gene_variant,,ENST00000569684,;PHKG2,downstream_gene_variant,,ENST00000564838,;	C	ENSG00000196118	ENST00000543610	Transcript	synonymous_variant	1526	564	188	L	ctC/ctG	.	.	.	-1	C16orf93	HGNC	28078	protein_coding	YES	CCDS32434.2	ENSP00000437532	CP093_HUMAN	.	UPI0000EA2A74	.	.	.	6/9	.	Pfam_domain:PF14769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGAAGAGGTC	.	3	BLCA
C16orf93	0	.	GRCh37	16	30771630	30771630	+	Silent	SNP	G	G	C	rs140609394	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.444C>G	p.%3D	p.L148L	ENST00000543610	4/9	58	50	8	77	77	0	C16orf93,missense_variant,p.Pro38Ala,ENST00000544613,;C16orf93,synonymous_variant,p.%3D,ENST00000545825,;C16orf93,synonymous_variant,p.%3D,ENST00000541260,;C16orf93,synonymous_variant,p.%3D,ENST00000543610,;PHKG2,3_prime_UTR_variant,,ENST00000424889,;PHKG2,3_prime_UTR_variant,,ENST00000563588,;RNF40,upstream_gene_variant,,ENST00000566811,;RNF40,upstream_gene_variant,,ENST00000563683,;RNF40,upstream_gene_variant,,ENST00000324685,;RNF40,upstream_gene_variant,,ENST00000402121,;RNF40,upstream_gene_variant,,ENST00000565931,;PHKG2,downstream_gene_variant,,ENST00000565897,;PHKG2,downstream_gene_variant,,ENST00000565924,;PHKG2,downstream_gene_variant,,ENST00000328273,;RNF40,upstream_gene_variant,,ENST00000563909,;C16orf93,upstream_gene_variant,,ENST00000535476,;RNF40,upstream_gene_variant,,ENST00000565995,;RNF40,upstream_gene_variant,,ENST00000357890,;C16orf93,3_prime_UTR_variant,,ENST00000545809,;C16orf93,non_coding_transcript_exon_variant,,ENST00000544487,;C16orf93,non_coding_transcript_exon_variant,,ENST00000544643,;C16orf93,non_coding_transcript_exon_variant,,ENST00000543128,;C16orf93,non_coding_transcript_exon_variant,,ENST00000546006,;C16orf93,non_coding_transcript_exon_variant,,ENST00000433909,;C16orf93,non_coding_transcript_exon_variant,,ENST00000537986,;PHKG2,downstream_gene_variant,,ENST00000563913,;RNF40,upstream_gene_variant,,ENST00000493683,;PHKG2,downstream_gene_variant,,ENST00000569684,;RNF40,upstream_gene_variant,,ENST00000566703,;PHKG2,downstream_gene_variant,,ENST00000564838,;	C	ENSG00000196118	ENST00000543610	Transcript	synonymous_variant	1406	444	148	L	ctC/ctG	rs140609394	.	.	-1	C16orf93	HGNC	28078	protein_coding	YES	CCDS32434.2	ENSP00000437532	CP093_HUMAN	.	UPI0000EA2A74	.	.	.	4/9	.	Pfam_domain:PF14769	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGAGCAG	byCluster	5	BLCA
SETD1A	0	.	GRCh37	16	30974836	30974836	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.600G>C	p.%3D	p.L200L	ENST00000262519	5/19	106	92	13	179	179	0	SETD1A,synonymous_variant,p.%3D,ENST00000262519,;SETD1A,synonymous_variant,p.%3D,ENST00000452917,;	C	ENSG00000099381	ENST00000262519	Transcript	synonymous_variant	1286	600	200	L	ctG/ctC	.	.	.	1	SETD1A	HGNC	29010	protein_coding	YES	CCDS32435.1	ENSP00000262519	SET1A_HUMAN	C9J2Z9_HUMAN	UPI00001C1FA9	.	.	.	5/19	.	hmmpanther:PTHR22884:SF295,hmmpanther:PTHR22884	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTGAGTGA	.	4	BLCA
ITGAM	0	.	GRCh37	16	31288029	31288029	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1047G>A	p.%3D	p.E349E	ENST00000544665	10/30	14	9	5	17	17	0	ITGAM,synonymous_variant,p.%3D,ENST00000567031,;ITGAM,synonymous_variant,p.%3D,ENST00000287497,;ITGAM,synonymous_variant,p.%3D,ENST00000544665,;ITGAM,downstream_gene_variant,,ENST00000570242,;	A	ENSG00000169896	ENST00000544665	Transcript	synonymous_variant	1118	1047	349	E	gaG/gaA	COSM970183	.	.	1	ITGAM	HGNC	6149	protein_coding	YES	CCDS54004.1	ENSP00000441691	ITAM_HUMAN	B3KXM6_HUMAN	UPI000004B26A	.	.	.	10/30	.	PROSITE_profiles:PS51470,hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF76,Gene3D:3nigC00,Superfamily_domains:SSF69318	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	CATGAGATGTC	.	2	BLCA
CORO7	0	.	GRCh37	16	4410337	4410337	+	Missense_Mutation	SNP	C	C	T	rs200575254	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2050G>A	p.Gly684Arg	p.G684R	ENST00000251166	21/28	24	20	4	41	41	0	CORO7,missense_variant,p.Gly464Arg,ENST00000539968,;CORO7,missense_variant,p.Gly599Arg,ENST00000574025,;CORO7-PAM16,missense_variant,p.Gly684Arg,ENST00000572467,;CORO7,missense_variant,p.Gly666Arg,ENST00000537233,;CORO7,missense_variant,p.Gly684Arg,ENST00000251166,;PAM16,upstream_gene_variant,,ENST00000576217,;CORO7,upstream_gene_variant,,ENST00000570779,;CORO7,downstream_gene_variant,,ENST00000572044,;CORO7,downstream_gene_variant,,ENST00000423908,;CORO7,downstream_gene_variant,,ENST00000572549,;CORO7-PAM16,upstream_gene_variant,,ENST00000572274,;CORO7-PAM16,3_prime_UTR_variant,,ENST00000575334,;CORO7,3_prime_UTR_variant,,ENST00000571227,;CORO7,3_prime_UTR_variant,,ENST00000574311,;CORO7,non_coding_transcript_exon_variant,,ENST00000575714,;CORO7,non_coding_transcript_exon_variant,,ENST00000572666,;CORO7,non_coding_transcript_exon_variant,,ENST00000575531,;CORO7,downstream_gene_variant,,ENST00000571756,;CORO7,downstream_gene_variant,,ENST00000576437,;CORO7,upstream_gene_variant,,ENST00000574849,;CORO7,upstream_gene_variant,,ENST00000576637,;CORO7,downstream_gene_variant,,ENST00000573773,;CORO7,upstream_gene_variant,,ENST00000572125,;	T	ENSG00000262246	ENST00000251166	Transcript	missense_variant	2196	2050	684	G/R	Gga/Aga	rs200575254	.	.	-1	CORO7	HGNC	26161	protein_coding	YES	CCDS10513.1	ENSP00000251166	CORO7_HUMAN	I3L258_HUMAN,B3KSY4_HUMAN	UPI00001FF898	.	deleterious(0)	probably_damaging(0.996)	21/28	.	hmmpanther:PTHR10856:SF20,hmmpanther:PTHR10856,Gene3D:2.130.10.10,Superfamily_domains:0049172	T:0.0000	T:0	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTCCGCGTC	byCluster|by1000G	4	BLCA
PHKB	0	.	GRCh37	16	47703166	47703166	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2468C>T	p.Ser823Phe	p.S823F	ENST00000323584	26/31	61	51	10	72	72	0	PHKB,missense_variant,p.Ser823Phe,ENST00000299167,;PHKB,missense_variant,p.Ser130Phe,ENST00000566275,;PHKB,missense_variant,p.Ser823Phe,ENST00000323584,;PHKB,missense_variant,p.Ser816Phe,ENST00000566044,;PHKB,missense_variant,p.Ser816Phe,ENST00000455779,;PHKB,non_coding_transcript_exon_variant,,ENST00000566319,;PHKB,downstream_gene_variant,,ENST00000568171,;	T	ENSG00000102893	ENST00000323584	Transcript	missense_variant	2492	2468	823	S/F	tCt/tTt	.	.	.	1	PHKB	HGNC	8927	protein_coding	YES	CCDS10729.1	ENSP00000313504	KPBB_HUMAN	Q6LAJ4_HUMAN	UPI0000141140	.	deleterious(0.02)	probably_damaging(0.958)	26/31	.	hmmpanther:PTHR10749,hmmpanther:PTHR10749:SF3,Pfam_domain:PF00723	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCTCTAATC	.	5	BLCA
ZFP90	0	.	GRCh37	16	68598451	68598451	+	Silent	SNP	G	G	A	rs761401818	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1761G>A	p.%3D	p.G587G	ENST00000570495	5/5	103	96	7	253	253	0	ZFP90,synonymous_variant,p.%3D,ENST00000563169,;ZFP90,synonymous_variant,p.%3D,ENST00000398253,;ZFP90,synonymous_variant,p.%3D,ENST00000570495,;ZFP90,intron_variant,,ENST00000573113,;ZFP90,downstream_gene_variant,,ENST00000573685,;ZFP90,downstream_gene_variant,,ENST00000562156,;ZFP90,downstream_gene_variant,,ENST00000564323,;ZFP90,3_prime_UTR_variant,,ENST00000564558,;ZFP90,non_coding_transcript_exon_variant,,ENST00000571720,;ZFP90,downstream_gene_variant,,ENST00000571809,;ZFP90,downstream_gene_variant,,ENST00000576805,;ZFP90,downstream_gene_variant,,ENST00000569323,;	A	ENSG00000184939	ENST00000570495	Transcript	synonymous_variant	2053	1761	587	G	ggG/ggA	rs761401818	.	.	1	ZFP90	HGNC	23329	protein_coding	YES	CCDS42183.1	ENSP00000460547	ZFP90_HUMAN	I3L3M0_HUMAN,I3L1L4_HUMAN,H3BVC6_HUMAN	UPI000004C096	.	.	.	5/5	.	Superfamily_domains:SSF57667,Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF143,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTGGGAGAGC	.	2	BLCA
ZNF23	0	.	GRCh37	16	71482259	71482259	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1669G>C	p.Glu557Gln	p.E557Q	ENST00000393539	6/6	45	35	10	98	98	0	ZNF23,missense_variant,p.Glu499Gln,ENST00000428724,;ZNF23,missense_variant,p.Glu557Gln,ENST00000393539,;ZNF23,missense_variant,p.Glu557Gln,ENST00000357254,;ZNF23,missense_variant,p.Glu557Gln,ENST00000417828,;ZNF23,missense_variant,p.Glu499Gln,ENST00000564528,;ZNF23,3_prime_UTR_variant,,ENST00000358700,;ZNF23,3_prime_UTR_variant,,ENST00000497160,;ZNF23,downstream_gene_variant,,ENST00000565718,;ZNF23,downstream_gene_variant,,ENST00000567340,;ZNF23,non_coding_transcript_exon_variant,,ENST00000539742,;AC010547.9,3_prime_UTR_variant,,ENST00000561908,;ZNF23,non_coding_transcript_exon_variant,,ENST00000576258,;RP11-510M2.8,upstream_gene_variant,,ENST00000571789,;	G	ENSG00000167377	ENST00000393539	Transcript	missense_variant	2483	1669	557	E/Q	Gag/Cag	.	.	.	-1	ZNF23	HGNC	13023	protein_coding	YES	CCDS10900.1	ENSP00000377171	ZNF23_HUMAN	Q8NDP5_HUMAN,H3BPE6_HUMAN	UPI000013C406	.	deleterious(0.03)	probably_damaging(0.961)	6/6	.	Superfamily_domains:SSF57667,Superfamily_domains:SSF57667,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24377:SF180,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCTCCTG	.	5	BLCA
CLEC18B	0	.	GRCh37	16	74447572	74447572	+	Silent	SNP	G	G	A	rs546829879	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459C>T	p.%3D	p.L153L	ENST00000339953	4/13	60	48	11	135	135	0	CLEC18B,synonymous_variant,p.%3D,ENST00000339953,;CLEC18B,splice_region_variant,,ENST00000425714,;CLEC18B,upstream_gene_variant,,ENST00000564842,;	A	ENSG00000140839	ENST00000339953	Transcript	synonymous_variant	581	459	153	L	ctC/ctT	rs546829879	.	.	-1	CLEC18B	HGNC	33849	protein_coding	YES	CCDS32484.1	ENSP00000341051	CL18B_HUMAN	.	UPI000025210E	.	.	.	4/13	.	Prints_domain:PR00837,Superfamily_domains:SSF55797,SMART_domains:SM00198,Gene3D:3.40.33.10,Pfam_domain:PF00188,hmmpanther:PTHR10334:SF180,hmmpanther:PTHR10334	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACACGAGCTA	by1000G	5	BLCA
MLKL	0	.	GRCh37	16	74729538	74729538	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118A>G	p.Lys40Glu	p.K40E	ENST00000308807	2/11	43	35	7	92	92	0	MLKL,missense_variant,p.Lys40Glu,ENST00000573267,;MLKL,missense_variant,p.Lys40Glu,ENST00000308807,;MLKL,missense_variant,p.Lys40Glu,ENST00000306247,;MLKL,missense_variant,p.Lys20Glu,ENST00000575686,;MLKL,upstream_gene_variant,,ENST00000571303,;	C	ENSG00000168404	ENST00000308807	Transcript	missense_variant	582	118	40	K/E	Aag/Gag	.	.	.	-1	MLKL	HGNC	26617	protein_coding	YES	CCDS32487.1	ENSP00000308351	MLKL_HUMAN	I3L4Z5_HUMAN,I3L2T9_HUMAN	UPI000004073C	.	tolerated(0.96)	benign(0)	2/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTTGATCA	.	5	BLCA
PRPF8	0	.	GRCh37	17	1554081	1554081	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15C>T	.	.	ENST00000572621	42/42	67	60	7	71	71	0	PRPF8,missense_variant,p.Pro75Ser,ENST00000571958,;PRPF8,3_prime_UTR_variant,,ENST00000572621,;PRPF8,3_prime_UTR_variant,,ENST00000304992,;RILP,upstream_gene_variant,,ENST00000301336,;RILP,upstream_gene_variant,,ENST00000574810,;PRPF8,downstream_gene_variant,,ENST00000575116,;PRPF8,downstream_gene_variant,,ENST00000572723,;RILP,upstream_gene_variant,,ENST00000570858,;RILP,upstream_gene_variant,,ENST00000573398,;PRPF8,downstream_gene_variant,,ENST00000576585,;	A	ENSG00000174231	ENST00000572621	Transcript	3_prime_UTR_variant	7289	.	.	.	.	.	.	.	-1	PRPF8	HGNC	17340	protein_coding	YES	CCDS11010.1	ENSP00000460348	PRP8_HUMAN	.	UPI000006F2DD	.	.	.	42/42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCAGGAGGCA	.	4	BLCA
ADORA2B	0	.	GRCh37	17	15848739	15848739	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177C>A	p.Phe59Leu	p.F59L	ENST00000304222	1/2	20	14	5	49	49	0	ADORA2B,missense_variant,p.Phe59Leu,ENST00000304222,;	A	ENSG00000170425	ENST00000304222	Transcript	missense_variant	509	177	59	F/L	ttC/ttA	.	.	.	1	ADORA2B	HGNC	264	protein_coding	YES	CCDS11173.1	ENSP00000304501	AA2BR_HUMAN	Q2L7J7_HUMAN	UPI00000503E3	.	tolerated(1)	benign(0.005)	1/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24246,hmmpanther:PTHR24246:SF18,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCGCCAT	.	5	BLCA
MYO15A	0	.	GRCh37	17	18042845	18042845	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5134-3C>T	.	.	ENST00000205890	.	22	16	5	32	32	0	MYO15A,splice_region_variant,,ENST00000205890,;MYO15A,splice_region_variant,,ENST00000412324,;	T	ENSG00000091536	ENST00000205890	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	.	.	18/65	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCAGGTG	.	4	BLCA
C17orf103	0	.	GRCh37	17	21147529	21147529	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112G>A	p.Asp38Asn	p.D38N	ENST00000399011	3/4	21	16	5	40	40	0	C17orf103,missense_variant,p.Met38Ile,ENST00000468196,;C17orf103,missense_variant,p.Asp38Asn,ENST00000399011,;	T	ENSG00000154035	ENST00000399011	Transcript	missense_variant	114	112	38	D/N	Gac/Aac	.	.	.	-1	C17orf103	HGNC	30770	protein_coding	YES	.	ENSP00000454565	GTL3B_HUMAN	H3BMV2_HUMAN	UPI0001AE6685	.	deleterious(0)	possibly_damaging(0.601)	3/4	.	hmmpanther:PTHR31435:SF1,hmmpanther:PTHR31435,Pfam_domain:PF14542,Gene3D:3.40.630.30,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGGTCATGAC	.	5	BLCA
SPAG5	0	.	GRCh37	17	26912364	26912364	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1926A>T	p.Gln642His	p.Q642H	ENST00000321765	9/24	76	71	5	90	90	0	SPAG5,missense_variant,p.Gln642His,ENST00000321765,;SPAG5,missense_variant,p.Gln142His,ENST00000584206,;RP11-192H23.4,intron_variant,,ENST00000531839,;SPAG5,missense_variant,p.Gln67His,ENST00000580083,;RP11-192H23.4,intron_variant,,ENST00000481916,;SPAG5,upstream_gene_variant,,ENST00000580406,;SPAG5,upstream_gene_variant,,ENST00000577259,;SPAG5,upstream_gene_variant,,ENST00000578230,;SPAG5,upstream_gene_variant,,ENST00000378976,;	A	ENSG00000076382	ENST00000321765	Transcript	missense_variant	2259	1926	642	Q/H	caA/caT	.	.	.	-1	SPAG5	HGNC	13452	protein_coding	YES	CCDS32594.1	ENSP00000323300	SPAG5_HUMAN	.	UPI0000073414	.	tolerated(0.11)	benign(0.002)	9/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15347,hmmpanther:PTHR15347:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTGTTGCAA	.	2	BLCA
SPAG5	0	.	GRCh37	17	26912396	26912396	+	Missense_Mutation	SNP	G	G	C	rs775517852	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1894C>G	p.Gln632Glu	p.Q632E	ENST00000321765	9/24	82	76	6	96	96	0	SPAG5,missense_variant,p.Gln632Glu,ENST00000321765,;SPAG5,missense_variant,p.Gln132Glu,ENST00000584206,;RP11-192H23.4,intron_variant,,ENST00000531839,;SPAG5,missense_variant,p.Gln57Glu,ENST00000580083,;RP11-192H23.4,intron_variant,,ENST00000481916,;SPAG5,upstream_gene_variant,,ENST00000580406,;SPAG5,upstream_gene_variant,,ENST00000577259,;SPAG5,upstream_gene_variant,,ENST00000578230,;SPAG5,upstream_gene_variant,,ENST00000378976,;	C	ENSG00000076382	ENST00000321765	Transcript	missense_variant	2227	1894	632	Q/E	Cag/Gag	rs775517852	.	.	-1	SPAG5	HGNC	13452	protein_coding	YES	CCDS32594.1	ENSP00000323300	SPAG5_HUMAN	.	UPI0000073414	.	tolerated(0.36)	benign(0.234)	9/24	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15347,hmmpanther:PTHR15347:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTGAACCA	.	2	BLCA
RPL23A	0	.	GRCh37	17	27047786	27047786	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.87G>C	p.Leu29Phe	p.L29F	ENST00000422514	2/5	109	100	9	139	139	0	RPL23A,missense_variant,p.Leu67Phe,ENST00000394938,;RPL23A,missense_variant,p.Leu48Phe,ENST00000394935,;RPL23A,missense_variant,p.Leu29Phe,ENST00000422514,;RPL23A,missense_variant,p.Leu22Phe,ENST00000578181,;RPL23A,missense_variant,p.Leu31Phe,ENST00000355731,;RPL23A,5_prime_UTR_variant,,ENST00000472628,;RPL23A,5_prime_UTR_variant,,ENST00000496182,;RAB34,upstream_gene_variant,,ENST00000430132,;RAB34,upstream_gene_variant,,ENST00000301043,;RAB34,upstream_gene_variant,,ENST00000419712,;RAB34,upstream_gene_variant,,ENST00000415040,;RAB34,upstream_gene_variant,,ENST00000436730,;RAB34,upstream_gene_variant,,ENST00000353676,;RAB34,upstream_gene_variant,,ENST00000447716,;RAB34,upstream_gene_variant,,ENST00000450529,;RAB34,upstream_gene_variant,,ENST00000582934,;RAB34,upstream_gene_variant,,ENST00000583538,;TLCD1,downstream_gene_variant,,ENST00000394933,;RAB34,upstream_gene_variant,,ENST00000395242,;TLCD1,downstream_gene_variant,,ENST00000581236,;RAB34,upstream_gene_variant,,ENST00000395243,;RAB34,upstream_gene_variant,,ENST00000395245,;TLCD1,downstream_gene_variant,,ENST00000292090,;RAB34,upstream_gene_variant,,ENST00000580843,;TLCD1,downstream_gene_variant,,ENST00000580518,;RAB34,upstream_gene_variant,,ENST00000412625,;RAB34,upstream_gene_variant,,ENST00000453384,;SNORD42A,upstream_gene_variant,,ENST00000459584,;SNORD4B,upstream_gene_variant,,ENST00000459083,;SNORD4A,upstream_gene_variant,,ENST00000459174,;SNORD42B,downstream_gene_variant,,ENST00000458893,;AC010761.8,downstream_gene_variant,,ENST00000582718,;RPL23A,non_coding_transcript_exon_variant,,ENST00000582736,;RPL23A,upstream_gene_variant,,ENST00000580755,;RAB34,upstream_gene_variant,,ENST00000482688,;RAB34,upstream_gene_variant,,ENST00000481501,;RAB34,upstream_gene_variant,,ENST00000422279,;RAB34,upstream_gene_variant,,ENST00000483554,;	C	ENSG00000198242	ENST00000422514	Transcript	missense_variant	700	87	29	L/F	ttG/ttC	.	.	.	1	RPL23A	HGNC	10317	protein_coding	YES	CCDS11241.1	ENSP00000389103	RL23A_HUMAN	K7EMA7_HUMAN	UPI0000028D48	.	deleterious(0.02)	unknown(0)	2/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11620,Pfam_domain:PF03939	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGTTGAAAGG	.	3	BLCA
TLCD1	0	.	GRCh37	17	27051414	27051414	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*114G>A	.	.	ENST00000292090	4/4	133	117	16	111	111	0	TLCD1,3_prime_UTR_variant,,ENST00000581236,;TLCD1,3_prime_UTR_variant,,ENST00000292090,;RPL23A,downstream_gene_variant,,ENST00000472628,;RPL23A,downstream_gene_variant,,ENST00000394938,;TLCD1,downstream_gene_variant,,ENST00000394933,;NEK8,upstream_gene_variant,,ENST00000268766,;NEK8,upstream_gene_variant,,ENST00000579060,;RPL23A,downstream_gene_variant,,ENST00000394935,;RPL23A,downstream_gene_variant,,ENST00000422514,;RPL23A,downstream_gene_variant,,ENST00000578181,;TLCD1,downstream_gene_variant,,ENST00000580518,;RPL23A,downstream_gene_variant,,ENST00000355731,;NEK8,upstream_gene_variant,,ENST00000579671,;RPL23A,downstream_gene_variant,,ENST00000496182,;SNORD42A,downstream_gene_variant,,ENST00000459584,;SNORD4B,downstream_gene_variant,,ENST00000459083,;SNORD4A,downstream_gene_variant,,ENST00000459174,;SNORD42B,downstream_gene_variant,,ENST00000458893,;AC010761.14,upstream_gene_variant,,ENST00000587898,;AC010761.8,upstream_gene_variant,,ENST00000582718,;NEK8,upstream_gene_variant,,ENST00000593261,;RPL23A,downstream_gene_variant,,ENST00000582736,;NEK8,upstream_gene_variant,,ENST00000581000,;RPL23A,downstream_gene_variant,,ENST00000580755,;NEK8,upstream_gene_variant,,ENST00000543014,;NEK8,upstream_gene_variant,,ENST00000584342,;	T	ENSG00000160606	ENST00000292090	Transcript	3_prime_UTR_variant	969	.	.	.	.	.	.	.	-1	TLCD1	HGNC	25177	protein_coding	YES	CCDS11242.1	ENSP00000292090	TLCD1_HUMAN	K7ELX5_HUMAN	UPI000006DF3D	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTCAGAAG	.	2	BLCA
CORO6	0	.	GRCh37	17	27943829	27943829	+	Missense_Mutation	SNP	C	C	T	rs751078194	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895G>A	p.Glu299Lys	p.E299K	ENST00000345068	8/11	139	132	7	158	158	0	CORO6,missense_variant,p.Glu299Lys,ENST00000584969,;CORO6,missense_variant,p.Glu65Lys,ENST00000456796,;CORO6,missense_variant,p.Glu299Lys,ENST00000345068,;CORO6,missense_variant,p.Glu299Lys,ENST00000388767,;CORO6,missense_variant,p.Glu299Lys,ENST00000445145,;CORO6,missense_variant,p.Glu259Lys,ENST00000580212,;ANKRD13B,downstream_gene_variant,,ENST00000579719,;CORO6,downstream_gene_variant,,ENST00000584602,;CORO6,downstream_gene_variant,,ENST00000492276,;ANKRD13B,downstream_gene_variant,,ENST00000394859,;RP11-68I3.2,intron_variant,,ENST00000581474,;RP11-68I3.10,downstream_gene_variant,,ENST00000582367,;CORO6,non_coding_transcript_exon_variant,,ENST00000577909,;CORO6,3_prime_UTR_variant,,ENST00000480954,;CORO6,non_coding_transcript_exon_variant,,ENST00000469090,;CORO6,non_coding_transcript_exon_variant,,ENST00000459686,;CORO6,non_coding_transcript_exon_variant,,ENST00000467534,;CORO6,non_coding_transcript_exon_variant,,ENST00000579388,;ANKRD13B,downstream_gene_variant,,ENST00000493506,;ANKRD13B,downstream_gene_variant,,ENST00000487527,;ANKRD13B,downstream_gene_variant,,ENST00000488766,;	T	ENSG00000167549	ENST00000345068	Transcript	missense_variant	1109	895	299	E/K	Gag/Aag	rs751078194	.	.	-1	CORO6	HGNC	21356	protein_coding	YES	CCDS11252.2	ENSP00000344562	CORO6_HUMAN	K7ERF4_HUMAN,J3QRV4_HUMAN	UPI0000DA4C55	.	deleterious(0.01)	possibly_damaging(0.8)	8/11	.	Superfamily_domains:SSF50978,Gene3D:2.130.10.10,Pfam_domain:PF08954,hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGCTCGTCGG	.	2	BLCA
RNF135	0	.	GRCh37	17	29311676	29311676	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414G>A	p.%3D	p.L138L	ENST00000328381	2/5	76	48	27	83	83	0	RNF135,synonymous_variant,p.%3D,ENST00000324689,;RNF135,synonymous_variant,p.%3D,ENST00000535306,;RNF135,synonymous_variant,p.%3D,ENST00000328381,;RNF135,intron_variant,,ENST00000443677,;RNF135,intron_variant,,ENST00000580444,;RNF135,upstream_gene_variant,,ENST00000434242,;RP11-848P1.4,upstream_gene_variant,,ENST00000584499,;	A	ENSG00000181481	ENST00000328381	Transcript	synonymous_variant	1287	414	138	L	ctG/ctA	.	.	.	1	RNF135	HGNC	21158	protein_coding	YES	CCDS11262.1	ENSP00000328340	RN135_HUMAN	B3KV69_HUMAN	UPI00001AF795	.	.	.	2/5	.	hmmpanther:PTHR25462,hmmpanther:PTHR25462:SF200,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTGACAGA	.	5	BLCA
TMEM132E	0	.	GRCh37	17	32953555	32953555	+	Silent	SNP	C	C	T	rs776419866	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.477C>T	p.%3D	p.T159T	ENST00000321639	2/10	28	24	4	25	25	0	TMEM132E,synonymous_variant,p.%3D,ENST00000321639,;	T	ENSG00000181291	ENST00000321639	Transcript	synonymous_variant	805	477	159	T	acC/acT	rs776419866	.	.	1	TMEM132E	HGNC	26991	protein_coding	YES	CCDS11283.1	ENSP00000316532	T132E_HUMAN	.	UPI000035960F	.	.	.	2/10	.	hmmpanther:PTHR13388:SF7,hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCACCGAGCG	byFrequency	4	BLCA
AATF	0	.	GRCh37	17	35310557	35310557	+	Missense_Mutation	SNP	G	G	A	rs376353889	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>A	p.Glu219Lys	p.E219K	ENST00000225402	3/12	135	122	13	173	173	0	AATF,missense_variant,p.Glu219Lys,ENST00000225402,;AATF,intron_variant,,ENST00000592751,;	A	ENSG00000108270	ENST00000225402	Transcript	missense_variant	906	655	219	E/K	Gag/Aag	rs376353889	.	.	1	AATF	HGNC	19235	protein_coding	YES	CCDS32632.1	ENSP00000225402	AATF_HUMAN	K7ERC2_HUMAN	UPI000006E3DE	.	tolerated(0.12)	benign(0.099)	3/12	.	hmmpanther:PTHR15565:SF0,hmmpanther:PTHR15565	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCTGAGGAA	byCluster	4	BLCA
KRT19	0	.	GRCh37	17	39680172	39680172	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1026C>T	p.%3D	p.I342I	ENST00000361566	6/6	64	57	7	63	63	0	KRT19,synonymous_variant,p.%3D,ENST00000593096,;KRT19,synonymous_variant,p.%3D,ENST00000361566,;KRT15,upstream_gene_variant,,ENST00000393976,;KRT15,upstream_gene_variant,,ENST00000254043,;KRT15,upstream_gene_variant,,ENST00000393974,;KRT15,upstream_gene_variant,,ENST00000458290,;KRT19,downstream_gene_variant,,ENST00000455635,;KRT19,non_coding_transcript_exon_variant,,ENST00000468880,;KRT19,downstream_gene_variant,,ENST00000479031,;KRT15,upstream_gene_variant,,ENST00000470004,;KRT15,upstream_gene_variant,,ENST00000497016,;KRT15,upstream_gene_variant,,ENST00000463447,;KRT19,downstream_gene_variant,,ENST00000462611,;KRT15,upstream_gene_variant,,ENST00000474031,;KRT19,downstream_gene_variant,,ENST00000471565,;	A	ENSG00000171345	ENST00000361566	Transcript	synonymous_variant	1087	1026	342	I	atC/atT	.	.	.	-1	KRT19	HGNC	6436	protein_coding	YES	CCDS11399.1	ENSP00000355124	K1C19_HUMAN	K7EMS3_HUMAN	UPI000006D379	.	.	.	6/6	.	hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF107,Gene3D:1.20.5.170,Pfam_domain:PF00038,Superfamily_domains:SSF64593,Prints_domain:PR01248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCTGATCAG	.	4	BLCA
JUP	0	.	GRCh37	17	39919384	39919384	+	Missense_Mutation	SNP	C	C	T	rs782165604	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1348G>A	p.Asp450Asn	p.D450N	ENST00000393931	8/14	47	43	4	39	38	0	JUP,missense_variant,p.Asp450Asn,ENST00000393931,;JUP,missense_variant,p.Asp450Asn,ENST00000310706,;JUP,missense_variant,p.Asp450Asn,ENST00000393930,;JUP,intron_variant,,ENST00000540235,;JUP,downstream_gene_variant,,ENST00000437187,;JUP,downstream_gene_variant,,ENST00000449889,;JUP,downstream_gene_variant,,ENST00000420370,;JUP,upstream_gene_variant,,ENST00000585793,;	T	ENSG00000173801	ENST00000393931	Transcript	missense_variant	1467	1348	450	D/N	Gac/Aac	rs782165604	.	.	-1	JUP	HGNC	6207	protein_coding	YES	CCDS11407.1	ENSP00000377508	PLAK_HUMAN	Q7KZ86_HUMAN,K7ERP3_HUMAN,C9JTX4_HUMAN,C9JPI2_HUMAN,C9JKY1_HUMAN,C9JK18_HUMAN,C9J826_HUMAN	UPI0000073ED4	.	deleterious(0)	probably_damaging(0.935)	8/14	.	Prints_domain:PR01869,Superfamily_domains:SSF48371,SMART_domains:SM00185,Gene3D:1.25.10.10,hmmpanther:PTHR23315:SF12,hmmpanther:PTHR23315,PROSITE_profiles:PS50176	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GATGTCGTCCT	.	3	BLCA
STAT3	0	.	GRCh37	17	40478196	40478196	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1303G>A	p.Glu435Lys	p.E435K	ENST00000264657	15/24	60	56	4	67	67	0	STAT3,missense_variant,p.Glu435Lys,ENST00000588969,;STAT3,missense_variant,p.Glu435Lys,ENST00000585517,;STAT3,missense_variant,p.Glu435Lys,ENST00000404395,;STAT3,missense_variant,p.Glu435Lys,ENST00000264657,;STAT3,missense_variant,p.Glu337Lys,ENST00000389272,;STAT3,upstream_gene_variant,,ENST00000471989,;STAT3,upstream_gene_variant,,ENST00000498330,;STAT3,downstream_gene_variant,,ENST00000478276,;	T	ENSG00000168610	ENST00000264657	Transcript	missense_variant	1616	1303	435	E/K	Gag/Aag	.	.	.	-1	STAT3	HGNC	11364	protein_coding	YES	CCDS32656.1	ENSP00000264657	STAT3_HUMAN	G8JLH9_HUMAN	UPI0000031047	.	deleterious(0)	probably_damaging(0.996)	15/24	.	hmmpanther:PTHR11801:SF2,hmmpanther:PTHR11801,Pfam_domain:PF02864,Gene3D:2.60.40.630,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTCCTCAG	.	2	BLCA
CNTNAP1	0	.	GRCh37	17	40839976	40839976	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1283G>A	p.Arg428Gln	p.R428Q	ENST00000264638	8/24	67	61	6	92	92	0	CNTNAP1,missense_variant,p.Arg428Gln,ENST00000264638,;CCR10,upstream_gene_variant,,ENST00000591765,;CCR10,upstream_gene_variant,,ENST00000591568,;CTD-3193K9.3,intron_variant,,ENST00000592440,;CNTNAP1,missense_variant,p.Arg428Gln,ENST00000591662,;CNTNAP1,non_coding_transcript_exon_variant,,ENST00000586801,;CNTNAP1,upstream_gene_variant,,ENST00000585534,;	A	ENSG00000108797	ENST00000264638	Transcript	missense_variant	1500	1283	428	R/Q	cGa/cAa	COSM979581	.	.	1	CNTNAP1	HGNC	8011	protein_coding	YES	CCDS11436.1	ENSP00000264638	CNTP1_HUMAN	.	UPI00001285F6	.	tolerated(0.33)	possibly_damaging(0.457)	8/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF584,hmmpanther:PTHR10127,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGGCCGAAAGA	.	3	BLCA
NAGS	0	.	GRCh37	17	42084858	42084858	+	Missense_Mutation	SNP	G	G	A	rs771540094	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1264G>A	p.Glu422Lys	p.E422K	ENST00000293404	5/7	52	42	10	79	79	0	NAGS,missense_variant,p.Glu391Lys,ENST00000589767,;NAGS,missense_variant,p.Glu422Lys,ENST00000293404,;PYY,upstream_gene_variant,,ENST00000360085,;TMEM101,downstream_gene_variant,,ENST00000589334,;TMEM101,downstream_gene_variant,,ENST00000542039,;TMEM101,downstream_gene_variant,,ENST00000206380,;NAGS,non_coding_transcript_exon_variant,,ENST00000592915,;	A	ENSG00000161653	ENST00000293404	Transcript	missense_variant	1382	1264	422	E/K	Gag/Aag	rs771540094	.	.	1	NAGS	HGNC	17996	protein_coding	YES	CCDS11473.1	ENSP00000293404	NAGS_HUMAN	Q2NKP2_HUMAN	UPI000006E37E	.	deleterious(0.04)	probably_damaging(1)	5/7	.	PROSITE_profiles:PS51186,hmmpanther:PTHR23342:SF3,hmmpanther:PTHR23342,Pfam_domain:PF04768,PIRSF_domain:PIRSF036442,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCCGAGGGG	.	5	BLCA
RUNDC3A	0	.	GRCh37	17	42393784	42393784	+	Missense_Mutation	SNP	C	C	G	rs779213235	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.985C>G	p.Leu329Val	p.L329V	ENST00000426726	9/11	36	28	8	50	50	0	RUNDC3A,missense_variant,p.Leu329Val,ENST00000426726,;RUNDC3A,missense_variant,p.Leu329Val,ENST00000225441,;RUNDC3A,missense_variant,p.Leu324Val,ENST00000590941,;SLC25A39,downstream_gene_variant,,ENST00000590194,;SLC25A39,downstream_gene_variant,,ENST00000225308,;SLC25A39,downstream_gene_variant,,ENST00000377095,;SLC25A39,downstream_gene_variant,,ENST00000588767,;SLC25A39,downstream_gene_variant,,ENST00000586016,;SLC25A39,downstream_gene_variant,,ENST00000537904,;AC003102.3,upstream_gene_variant,,ENST00000588097,;RUNDC3A,non_coding_transcript_exon_variant,,ENST00000590834,;RUNDC3A,non_coding_transcript_exon_variant,,ENST00000587483,;SLC25A39,downstream_gene_variant,,ENST00000585695,;RUNDC3A,upstream_gene_variant,,ENST00000588564,;SLC25A39,downstream_gene_variant,,ENST00000593166,;SLC25A39,downstream_gene_variant,,ENST00000591006,;SLC25A39,downstream_gene_variant,,ENST00000588315,;RUNDC3A,downstream_gene_variant,,ENST00000593079,;SLC25A39,downstream_gene_variant,,ENST00000592372,;	G	ENSG00000108309	ENST00000426726	Transcript	missense_variant	1259	985	329	L/V	Ctg/Gtg	rs779213235	.	.	1	RUNDC3A	HGNC	16984	protein_coding	YES	CCDS45698.1	ENSP00000410862	RUN3A_HUMAN	.	UPI0000EE7B82	.	deleterious_low_confidence(0)	benign(0.17)	9/11	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCTGGCC	.	5	BLCA
FZD2	0	.	GRCh37	17	42636535	42636535	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479G>A	p.%3D	p.S493S	ENST00000315323	1/1	44	38	6	49	49	0	FZD2,synonymous_variant,p.%3D,ENST00000315323,;	A	ENSG00000180340	ENST00000315323	Transcript	synonymous_variant	1611	1479	493	S	tcG/tcA	.	.	.	1	FZD2	HGNC	4040	protein_coding	YES	CCDS11484.1	ENSP00000323901	FZD2_HUMAN	Q86UZ8_HUMAN	UPI0000050444	.	.	.	1/1	.	PROSITE_profiles:PS50261,hmmpanther:PTHR11309:SF34,hmmpanther:PTHR11309,Pfam_domain:PF01534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R492C|c.1474C>T|3	RADIA|MUTECT|VARSCANS	CGCTCGTGGGT	.	3	BLCA
KANSL1	0	.	GRCh37	17	44248882	44248882	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628C>T	p.Leu210Phe	p.L210F	ENST00000262419	2/15	211	203	8	227	227	0	KANSL1,missense_variant,p.Leu210Phe,ENST00000575318,;KANSL1,missense_variant,p.Leu210Phe,ENST00000574590,;KANSL1,missense_variant,p.Leu210Phe,ENST00000432791,;KANSL1,missense_variant,p.Leu210Phe,ENST00000262419,;KANSL1,missense_variant,p.Leu210Phe,ENST00000572904,;KANSL1,5_prime_UTR_variant,,ENST00000393476,;KANSL1,downstream_gene_variant,,ENST00000576739,;KANSL1,downstream_gene_variant,,ENST00000574655,;KANSL1,downstream_gene_variant,,ENST00000571698,;KANSL1,upstream_gene_variant,,ENST00000576248,;KANSL1,upstream_gene_variant,,ENST00000577114,;	A	ENSG00000120071	ENST00000262419	Transcript	missense_variant	1099	628	210	L/F	Ctt/Ttt	.	.	.	-1	KANSL1	HGNC	24565	protein_coding	YES	CCDS11503.1	ENSP00000262419	KANL1_HUMAN	I3L243_HUMAN,I3L233_HUMAN	UPI0001AE66EA	.	tolerated(0.14)	probably_damaging(0.999)	2/15	.	hmmpanther:PTHR22443:SF14,hmmpanther:PTHR22443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGAAGAGTGC	.	2	BLCA
CHRNE	0	.	GRCh37	17	4806038	4806038	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67G>A	p.Glu23Lys	p.E23K	ENST00000293780	2/12	94	85	8	165	165	0	CHRNE,missense_variant,p.Glu23Lys,ENST00000293780,;C17orf107,3_prime_UTR_variant,,ENST00000381365,;C17orf107,downstream_gene_variant,,ENST00000521575,;MINK1,downstream_gene_variant,,ENST00000355280,;MINK1,downstream_gene_variant,,ENST00000347992,;CHRNE,upstream_gene_variant,,ENST00000575637,;CHRNE,upstream_gene_variant,,ENST00000572438,;MINK1,downstream_gene_variant,,ENST00000572330,;MINK1,downstream_gene_variant,,ENST00000574453,;MINK1,downstream_gene_variant,,ENST00000571207,;MINK1,downstream_gene_variant,,ENST00000574871,;	T	ENSG00000108556	ENST00000293780	Transcript	missense_variant	78	67	23	E/K	Gag/Aag	.	.	.	-1	CHRNE	HGNC	1966	protein_coding	YES	CCDS11058.1	ENSP00000293780	ACHE_HUMAN	Q8N731_HUMAN	UPI0000125262	.	deleterious(0.05)	benign(0.423)	2/12	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF59,Superfamily_domains:0038932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTCGTTCT	.	3	BLCA
TMEM92	0	.	GRCh37	17	48356558	48356558	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369G>A	p.%3D	p.V123V	ENST00000300433	6/6	161	152	9	227	227	0	TMEM92,synonymous_variant,p.%3D,ENST00000300433,;TMEM92,synonymous_variant,p.%3D,ENST00000507382,;RP11-893F2.9,downstream_gene_variant,,ENST00000508851,;TMEM92,downstream_gene_variant,,ENST00000511882,;	A	ENSG00000167105	ENST00000300433	Transcript	synonymous_variant	479	369	123	V	gtG/gtA	.	.	.	1	TMEM92	HGNC	26579	protein_coding	YES	CCDS11562.1	ENSP00000300433	TMM92_HUMAN	.	UPI000013E65C	.	.	.	6/6	.	hmmpanther:PTHR31359	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGTGATTCT	.	2	BLCA
SRSF1	0	.	GRCh37	17	56083766	56083766	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317G>A	p.Gly106Glu	p.G106E	ENST00000258962	2/4	44	38	6	52	52	0	SRSF1,missense_variant,p.Gly106Glu,ENST00000582730,;SRSF1,missense_variant,p.Gly106Glu,ENST00000258962,;SRSF1,missense_variant,p.Gly106Glu,ENST00000584773,;SRSF1,intron_variant,,ENST00000585096,;RP11-159D12.5,upstream_gene_variant,,ENST00000578794,;SRSF1,upstream_gene_variant,,ENST00000581497,;SRSF1,missense_variant,p.Gly106Glu,ENST00000581979,;SRSF1,coding_sequence_variant,p.%3D,ENST00000584668,;SRSF1,3_prime_UTR_variant,,ENST00000583741,;SRSF1,non_coding_transcript_exon_variant,,ENST00000578430,;	T	ENSG00000136450	ENST00000258962	Transcript	missense_variant	526	317	106	G/E	gGa/gAa	.	.	.	-1	SRSF1	HGNC	10780	protein_coding	YES	CCDS11600.1	ENSP00000258962	SRSF1_HUMAN	J3QQV5_HUMAN	UPI0000001220	.	deleterious(0.03)	benign(0.091)	2/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF87,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTCCGCCA	.	4	BLCA
TEX14	0	.	GRCh37	17	56649311	56649311	+	Missense_Mutation	SNP	C	C	G	rs766136939	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3826G>C	p.Glu1276Gln	p.E1276Q	ENST00000240361	25/33	93	83	10	120	120	0	TEX14,missense_variant,p.Glu1230Gln,ENST00000349033,;TEX14,missense_variant,p.Glu1270Gln,ENST00000389934,;TEX14,missense_variant,p.Glu1276Gln,ENST00000240361,;TEX14,missense_variant,p.Glu84Gln,ENST00000581147,;TEX14,3_prime_UTR_variant,,ENST00000582740,;	G	ENSG00000121101	ENST00000240361	Transcript	missense_variant	3912	3826	1276	E/Q	Gaa/Caa	rs766136939	.	.	-1	TEX14	HGNC	11737	protein_coding	YES	CCDS56042.1	ENSP00000240361	TEX14_HUMAN	.	UPI0000DAC9CA	.	tolerated(0.07)	benign(0.133)	25/33	.	hmmpanther:PTHR23060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTTTCAGAGG	.	4	BLCA
PITPNM3	0	.	GRCh37	17	6358786	6358786	+	Missense_Mutation	SNP	C	C	T	rs777178487	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2797G>A	p.Asp933Asn	p.D933N	ENST00000262483	20/20	21	13	8	36	36	0	PITPNM3,missense_variant,p.Asp933Asn,ENST00000262483,;PITPNM3,missense_variant,p.Asp897Asn,ENST00000421306,;FAM64A,downstream_gene_variant,,ENST00000572447,;FAM64A,downstream_gene_variant,,ENST00000572595,;FAM64A,downstream_gene_variant,,ENST00000250056,;FAM64A,downstream_gene_variant,,ENST00000571572,;PITPNM3,non_coding_transcript_exon_variant,,ENST00000576664,;PITPNM3,non_coding_transcript_exon_variant,,ENST00000572795,;	T	ENSG00000091622	ENST00000262483	Transcript	missense_variant	2885	2797	933	D/N	Gac/Aac	rs777178487	.	.	-1	PITPNM3	HGNC	21043	protein_coding	YES	CCDS11076.1	ENSP00000262483	PITM3_HUMAN	.	UPI000022A281	.	tolerated(0.12)	benign(0.006)	20/20	.	hmmpanther:PTHR10658	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGGTCGGGCT	.	5	BLCA
KCNJ16	0	.	GRCh37	17	68129129	68129129	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901C>T	p.Pro301Ser	p.P301S	ENST00000392670	4/4	105	71	34	128	128	0	KCNJ16,missense_variant,p.Pro301Ser,ENST00000283936,;KCNJ16,missense_variant,p.Pro301Ser,ENST00000589377,;KCNJ16,missense_variant,p.Pro301Ser,ENST00000392671,;KCNJ16,missense_variant,p.Pro340Ser,ENST00000586462,;KCNJ16,missense_variant,p.Pro336Ser,ENST00000585558,;KCNJ16,missense_variant,p.Pro301Ser,ENST00000392670,;KCNJ16,downstream_gene_variant,,ENST00000587698,;KCNJ16,downstream_gene_variant,,ENST00000591891,;KCNJ16,downstream_gene_variant,,ENST00000587892,;AC002539.1,upstream_gene_variant,,ENST00000435112,;	T	ENSG00000153822	ENST00000392670	Transcript	missense_variant	1394	901	301	P/S	Ccc/Tcc	COSM1710710	.	.	1	KCNJ16	HGNC	6262	protein_coding	YES	CCDS11687.1	ENSP00000376438	IRK16_HUMAN	K7ELL5_HUMAN,K7EKJ4_HUMAN	UPI000012D8B3	.	tolerated(0.17)	probably_damaging(1)	4/4	.	hmmpanther:PTHR11767,hmmpanther:PTHR11767:SF24,Gene3D:2.60.40.1400,Pfam_domain:PF01007,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81296,Prints_domain:PR01320	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTTCCCCGA	.	5	BLCA
ICT1	0	.	GRCh37	17	73016592	73016592	+	Nonsense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376A>T	p.Lys126Ter	p.K126*	ENST00000301585	5/6	45	41	4	57	57	0	ICT1,stop_gained,p.Lys126Ter,ENST00000301585,;ICT1,stop_gained,p.Lys133Ter,ENST00000584208,;ICT1,3_prime_UTR_variant,,ENST00000580800,;ICT1,non_coding_transcript_exon_variant,,ENST00000583772,;	T	ENSG00000167862	ENST00000301585	Transcript	stop_gained	389	376	126	K/*	Aag/Tag	.	.	.	1	ICT1	HGNC	5359	protein_coding	YES	CCDS11711.1	ENSP00000301585	ICT1_HUMAN	.	UPI0000000DF2	.	.	.	5/6	.	hmmpanther:PTHR11075,Gene3D:2jvaA00,Pfam_domain:PF00472,Superfamily_domains:0039326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAACAAGATC	.	2	BLCA
POLR2A	0	.	GRCh37	17	7388152	7388152	+	Silent	SNP	C	C	T	rs769761900	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69C>T	p.%3D	p.F23F	ENST00000322644	1/29	9	6	3	13	13	0	POLR2A,synonymous_variant,p.%3D,ENST00000572844,;POLR2A,synonymous_variant,p.%3D,ENST00000322644,;SLC35G6,downstream_gene_variant,,ENST00000412468,;ZBTB4,upstream_gene_variant,,ENST00000311403,;	T	ENSG00000181222	ENST00000322644	Transcript	synonymous_variant	468	69	23	F	ttC/ttT	rs769761900	.	.	1	POLR2A	HGNC	9187	protein_coding	YES	CCDS32548.1	ENSP00000314949	RPB1_HUMAN	.	UPI0000140EB9	.	.	.	1/29	.	hmmpanther:PTHR19376:SF33,hmmpanther:PTHR19376,Pfam_domain:PF04997,Superfamily_domains:SSF64484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTTCGGAGT	byFrequency	2	BLCA
ACOX1	0	.	GRCh37	17	73946892	73946893	+	Frame_Shift_Ins	INS	-	-	AA	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1259_1260dupTT	p.Glu421LeufsTer8	p.E421Lfs*8	ENST00000293217	9/14	121	85	36	92	92	0	ACOX1,frameshift_variant,p.Glu383LeufsTer8,ENST00000537812,;ACOX1,frameshift_variant,p.Glu421LeufsTer8,ENST00000301608,;ACOX1,frameshift_variant,p.Glu421LeufsTer8,ENST00000293217,;ACOX1,upstream_gene_variant,,ENST00000588968,;ACOX1,upstream_gene_variant,,ENST00000587927,;ACOX1,3_prime_UTR_variant,,ENST00000573078,;ACOX1,3_prime_UTR_variant,,ENST00000572047,;ACOX1,downstream_gene_variant,,ENST00000589744,;	AA	ENSG00000161533	ENST00000293217	Transcript	frameshift_variant	1550-1551	1260-1261	420-421	-/X	-/TT	.	.	.	-1	ACOX1	HGNC	119	protein_coding	YES	CCDS11734.1	ENSP00000293217	ACOX1_HUMAN	.	UPI000013E0F5	.	.	.	9/14	.	hmmpanther:PTHR10909:SF263,hmmpanther:PTHR10909,Gene3D:1.20.140.10,PIRSF_domain:PIRSF000168,Superfamily_domains:SSF47203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCCCTCAAAGG	.	3	BLCA
SLC26A11	0	.	GRCh37	17	78221936	78221936	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1302C>T	p.%3D	p.D434D	ENST00000361193	14/18	36	32	4	48	48	0	SLC26A11,synonymous_variant,p.%3D,ENST00000361193,;SLC26A11,synonymous_variant,p.%3D,ENST00000572725,;SLC26A11,synonymous_variant,p.%3D,ENST00000546047,;SLC26A11,synonymous_variant,p.%3D,ENST00000411502,;SLC26A11,upstream_gene_variant,,ENST00000575019,;SLC26A11,downstream_gene_variant,,ENST00000571215,;SLC26A11,downstream_gene_variant,,ENST00000571888,;	T	ENSG00000181045	ENST00000361193	Transcript	synonymous_variant	1582	1302	434	D	gaC/gaT	.	.	.	1	SLC26A11	HGNC	14471	protein_coding	YES	CCDS11771.2	ENSP00000355384	S2611_HUMAN	Q96BU7_HUMAN,I3L3K8_HUMAN,I3L2J9_HUMAN,I3L1H1_HUMAN,I3L124_HUMAN	UPI000003E7B7	.	.	.	14/18	.	hmmpanther:PTHR11814:SF55,hmmpanther:PTHR11814,Pfam_domain:PF00916	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGACCTGCT	.	4	BLCA
WDR45B	0	.	GRCh37	17	80573751	80573751	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*44G>A	.	.	ENST00000392325	10/10	34	31	3	38	38	0	WDR45B,3_prime_UTR_variant,,ENST00000392325,;FOXK2,intron_variant,,ENST00000574694,;WDR45B,downstream_gene_variant,,ENST00000571767,;WDR45B,downstream_gene_variant,,ENST00000571835,;WDR45B,3_prime_UTR_variant,,ENST00000572583,;WDR45B,3_prime_UTR_variant,,ENST00000576517,;WDR45B,downstream_gene_variant,,ENST00000573616,;WDR45B,downstream_gene_variant,,ENST00000573656,;WDR45B,downstream_gene_variant,,ENST00000571817,;WDR45B,downstream_gene_variant,,ENST00000577774,;	T	ENSG00000141580	ENST00000392325	Transcript	3_prime_UTR_variant	1274	.	.	.	.	.	.	.	-1	WDR45B	HGNC	25072	protein_coding	YES	CCDS11815.2	ENSP00000376139	WIPI3_HUMAN	B4DMI6_HUMAN	UPI000020051D	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAGTCTGAAG	.	2	BLCA
TMEM107	0	.	GRCh37	17	8079611	8079611	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7G>A	.	.	ENST00000316425	1/5	17	14	3	19	19	0	TMEM107,5_prime_UTR_variant,,ENST00000316425,;TMEM107,5_prime_UTR_variant,,ENST00000431792,;TMEM107,5_prime_UTR_variant,,ENST00000533070,;TMEM107,5_prime_UTR_variant,,ENST00000532998,;TMEM107,5_prime_UTR_variant,,ENST00000449985,;TMEM107,5_prime_UTR_variant,,ENST00000437139,;SNORD118,upstream_gene_variant,,ENST00000363593,;RP11-599B13.7,upstream_gene_variant,,ENST00000581248,;TMEM107,non_coding_transcript_exon_variant,,ENST00000417073,;TMEM107,non_coding_transcript_exon_variant,,ENST00000526920,;TMEM107,non_coding_transcript_exon_variant,,ENST00000529756,;	T	ENSG00000179029	ENST00000316425	Transcript	5_prime_UTR_variant	107	.	.	.	.	.	.	.	-1	TMEM107	HGNC	28128	protein_coding	YES	CCDS11132.1	ENSP00000314116	TM107_HUMAN	.	UPI00001BBB36	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCGGGGA	.	2	BLCA
MFSD6L	0	.	GRCh37	17	8701869	8701869	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.570C>T	p.%3D	p.V190V	ENST00000329805	1/1	69	55	14	90	90	0	MFSD6L,synonymous_variant,p.%3D,ENST00000329805,;PIK3R6,downstream_gene_variant,,ENST00000311434,;PIK3R6,downstream_gene_variant,,ENST00000434064,;PIK3R6,downstream_gene_variant,,ENST00000452122,;PIK3R6,downstream_gene_variant,,ENST00000583984,;	A	ENSG00000185156	ENST00000329805	Transcript	synonymous_variant	799	570	190	V	gtC/gtT	.	.	.	-1	MFSD6L	HGNC	26656	protein_coding	YES	CCDS11146.1	ENSP00000330051	MFS6L_HUMAN	.	UPI0000141B5F	.	.	.	1/1	.	hmmpanther:PTHR16172:SF22,hmmpanther:PTHR16172,Pfam_domain:PF13347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGTGACAGG	.	5	BLCA
GLP2R	0	.	GRCh37	17	9757847	9757847	+	Silent	SNP	G	G	A	rs780243421	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.540G>A	p.%3D	p.L180L	ENST00000262441	5/13	203	188	14	291	291	0	GLP2R,synonymous_variant,p.%3D,ENST00000262441,;GLP2R,5_prime_UTR_variant,,ENST00000574745,;GLP2R,5_prime_UTR_variant,,ENST00000304773,;GLP2R,3_prime_UTR_variant,,ENST00000458005,;NPM1P45,upstream_gene_variant,,ENST00000583151,;	A	ENSG00000065325	ENST00000262441	Transcript	synonymous_variant	1053	540	180	L	ctG/ctA	rs780243421	.	.	1	GLP2R	HGNC	4325	protein_coding	YES	CCDS11150.1	ENSP00000262441	GLP2R_HUMAN	I3L151_HUMAN,I3L0P5_HUMAN,E9PC86_HUMAN	UPI0000050469	.	.	.	5/13	.	PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF269,Pfam_domain:PF00002,Superfamily_domains:SSF111418,Superfamily_domains:SSF81321,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTGATGTA	byFrequency	2	BLCA
CABYR	0	.	GRCh37	18	21739688	21739688	+	Missense_Mutation	SNP	C	C	T	rs751617367	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.794C>T	p.Ser265Leu	p.S265L	ENST00000399496	5/6	33	29	4	58	58	0	CABYR,missense_variant,p.Ser265Leu,ENST00000399499,;CABYR,missense_variant,p.Ser265Leu,ENST00000399496,;CABYR,missense_variant,p.Ser265Leu,ENST00000581397,;CABYR,missense_variant,p.Ser167Leu,ENST00000327201,;CABYR,intron_variant,,ENST00000415309,;OSBPL1A,downstream_gene_variant,,ENST00000399443,;OSBPL1A,downstream_gene_variant,,ENST00000319481,;CABYR,downstream_gene_variant,,ENST00000585037,;CABYR,downstream_gene_variant,,ENST00000577705,;CABYR,downstream_gene_variant,,ENST00000399481,;OSBPL1A,downstream_gene_variant,,ENST00000578013,;OSBPL1A,downstream_gene_variant,,ENST00000357041,;CABYR,downstream_gene_variant,,ENST00000579102,;RP11-799B12.4,non_coding_transcript_exon_variant,,ENST00000583267,;CABYR,3_prime_UTR_variant,,ENST00000486759,;CABYR,3_prime_UTR_variant,,ENST00000463087,;CABYR,intron_variant,,ENST00000582229,;CABYR,downstream_gene_variant,,ENST00000581872,;CABYR,downstream_gene_variant,,ENST00000584752,;	T	ENSG00000154040	ENST00000399496	Transcript	missense_variant	959	794	265	S/L	tCa/tTa	rs751617367	.	.	1	CABYR	HGNC	15569	protein_coding	YES	CCDS42420.1	ENSP00000382419	CABYR_HUMAN	J3QQK7_HUMAN,J3QLW5_HUMAN,J3KT09_HUMAN,G9BQT7_HUMAN	UPI000006FA4E	.	deleterious(0)	benign(0.199)	5/6	.	hmmpanther:PTHR15494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTCAAATG	byFrequency	2	BLCA
ZNF271	0	.	GRCh37	18	32887209	32887209	+	RNA	SNP	G	G	A	rs757793965	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1603G>A	.	.	ENST00000399070	3/3	57	47	10	76	76	0	ZNF271,non_coding_transcript_exon_variant,,ENST00000399070,;ZNF271,non_coding_transcript_exon_variant,,ENST00000465539,;ZNF271,non_coding_transcript_exon_variant,,ENST00000540308,;	A	ENSG00000257267	ENST00000399070	Transcript	non_coding_transcript_exon_variant	1603	.	.	.	.	rs757793965	.	.	1	ZNF271	HGNC	13065	processed_transcript	YES	.	.	.	.	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCAGACCTC	byFrequency	5	BLCA
SYT4	0	.	GRCh37	18	40854178	40854178	+	Silent	SNP	C	C	T	rs374054209	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.216G>A	p.%3D	p.K72K	ENST00000255224	2/4	42	32	10	58	58	0	SYT4,synonymous_variant,p.%3D,ENST00000255224,;SYT4,synonymous_variant,p.%3D,ENST00000590752,;SYT4,intron_variant,,ENST00000596867,;SYT4,intron_variant,,ENST00000593720,;SYT4,non_coding_transcript_exon_variant,,ENST00000591820,;SYT4,intron_variant,,ENST00000586678,;SYT4,intron_variant,,ENST00000585604,;SYT4,upstream_gene_variant,,ENST00000589479,;	T	ENSG00000132872	ENST00000255224	Transcript	synonymous_variant	585	216	72	K	aaG/aaA	rs374054209,COSM4072211,COSM4072212	.	.	-1	SYT4	HGNC	11512	protein_coding	YES	CCDS11922.1	ENSP00000255224	SYT4_HUMAN	M0QZF3_HUMAN,B4DMA9_HUMAN	UPI000013669E	.	.	.	2/4	.	hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF114	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAAACTTCTT	byCluster	5	BLCA
CCDC102B	0	.	GRCh37	18	66513652	66513652	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930G>A	p.%3D	p.V310V	ENST00000360242	4/8	40	33	7	74	74	0	CCDC102B,synonymous_variant,p.%3D,ENST00000584156,;CCDC102B,synonymous_variant,p.%3D,ENST00000319445,;CCDC102B,synonymous_variant,p.%3D,ENST00000584775,;CCDC102B,synonymous_variant,p.%3D,ENST00000360242,;CCDC102B,intron_variant,,ENST00000358653,;CCDC102B,non_coding_transcript_exon_variant,,ENST00000577772,;CCDC102B,non_coding_transcript_exon_variant,,ENST00000577800,;CCDC102B,non_coding_transcript_exon_variant,,ENST00000581103,;	A	ENSG00000150636	ENST00000360242	Transcript	synonymous_variant	1047	930	310	V	gtG/gtA	.	.	.	1	CCDC102B	HGNC	26295	protein_coding	YES	CCDS11996.2	ENSP00000353377	C102B_HUMAN	J3QLG6_HUMAN,J3QL62_HUMAN,J3KRT2_HUMAN,J3KRG3_HUMAN,A1A4H1_HUMAN	UPI0000201E87	.	.	.	4/8	.	hmmpanther:PTHR13140:SF295,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATGTGAAAGA	.	2	BLCA
PTPRM	0	.	GRCh37	18	7926630	7926630	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.612C>T	p.%3D	p.F204F	ENST00000580170	5/33	71	59	12	84	84	0	PTPRM,synonymous_variant,p.%3D,ENST00000332175,;PTPRM,synonymous_variant,p.%3D,ENST00000400053,;PTPRM,synonymous_variant,p.%3D,ENST00000400060,;PTPRM,synonymous_variant,p.%3D,ENST00000580170,;	T	ENSG00000173482	ENST00000580170	Transcript	synonymous_variant	1649	612	204	F	ttC/ttT	.	.	.	1	PTPRM	HGNC	9675	protein_coding	YES	CCDS58613.1	ENSP00000463325	PTPRM_HUMAN	Q49AC9_HUMAN	UPI00015CFC03	.	.	.	5/33	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF00047,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF206,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCCAGTG	.	5	BLCA
PTPRM	0	.	GRCh37	18	8376056	8376056	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3184G>C	p.Glu1062Gln	p.E1062Q	ENST00000580170	25/33	90	80	9	80	80	0	PTPRM,missense_variant,p.Glu1049Gln,ENST00000332175,;PTPRM,missense_variant,p.Glu836Gln,ENST00000444013,;PTPRM,missense_variant,p.Glu47Gln,ENST00000583153,;PTPRM,missense_variant,p.Glu987Gln,ENST00000400053,;PTPRM,missense_variant,p.Glu1063Gln,ENST00000400060,;PTPRM,missense_variant,p.Glu1062Gln,ENST00000580170,;PTPRM,non_coding_transcript_exon_variant,,ENST00000577827,;	C	ENSG00000173482	ENST00000580170	Transcript	missense_variant	4221	3184	1062	E/Q	Gaa/Caa	.	.	.	1	PTPRM	HGNC	9675	protein_coding	YES	CCDS58613.1	ENSP00000463325	PTPRM_HUMAN	Q49AC9_HUMAN	UPI00015CFC03	.	deleterious(0.05)	possibly_damaging(0.777)	25/33	.	Superfamily_domains:SSF52799,SMART_domains:SM00194,Gene3D:3.90.190.10,Pfam_domain:PF00102,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF206,PROSITE_profiles:PS50055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCATGAAATC	.	4	BLCA
ANKRD12	0	.	GRCh37	18	9257772	9257772	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4507G>T	p.Glu1503Ter	p.E1503*	ENST00000262126	9/13	51	48	3	46	46	0	ANKRD12,stop_gained,p.Glu1503Ter,ENST00000262126,;ANKRD12,stop_gained,p.Glu1480Ter,ENST00000383440,;ANKRD12,stop_gained,p.Glu1480Ter,ENST00000400020,;ANKRD12,downstream_gene_variant,,ENST00000546007,;RP11-888D10.4,upstream_gene_variant,,ENST00000609701,;RP11-21J18.1,downstream_gene_variant,,ENST00000578850,;ANKRD12,downstream_gene_variant,,ENST00000359158,;	T	ENSG00000101745	ENST00000262126	Transcript	stop_gained	4747	4507	1503	E/*	Gaa/Taa	.	.	.	1	ANKRD12	HGNC	29135	protein_coding	YES	CCDS11843.1	ENSP00000262126	ANR12_HUMAN	J3QRX3_HUMAN	UPI0000073327	.	.	.	9/13	.	hmmpanther:PTHR24149:SF7,hmmpanther:PTHR24149	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGCTGAATCG	.	2	BLCA
KRI1	0	.	GRCh37	19	10673502	10673502	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304G>A	p.Asp102Asn	p.D102N	ENST00000312962	4/19	56	52	4	82	82	0	KRI1,missense_variant,p.Asp40Asn,ENST00000543682,;KRI1,missense_variant,p.Asp102Asn,ENST00000312962,;KRI1,missense_variant,p.Asp98Asn,ENST00000361821,;KRI1,missense_variant,p.Asp93Asn,ENST00000539027,;CDKN2D,downstream_gene_variant,,ENST00000335766,;CDKN2D,downstream_gene_variant,,ENST00000393599,;KRI1,intron_variant,,ENST00000537964,;KRI1,splice_region_variant,,ENST00000544397,;KRI1,3_prime_UTR_variant,,ENST00000432197,;KRI1,3_prime_UTR_variant,,ENST00000546063,;KRI1,non_coding_transcript_exon_variant,,ENST00000536689,;KRI1,non_coding_transcript_exon_variant,,ENST00000478863,;KRI1,upstream_gene_variant,,ENST00000543842,;KRI1,upstream_gene_variant,,ENST00000536714,;KRI1,upstream_gene_variant,,ENST00000537433,;KRI1,upstream_gene_variant,,ENST00000537363,;	T	ENSG00000129347	ENST00000312962	Transcript	missense_variant	324	304	102	D/N	Gac/Aac	.	.	.	-1	KRI1	HGNC	25769	protein_coding	YES	CCDS12242.1	ENSP00000320917	KRI1_HUMAN	.	UPI0000246DCC	.	tolerated(0.25)	benign(0.003)	4/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTGTCTGATG	.	2	BLCA
ILF3	0	.	GRCh37	19	10795246	10795246	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2071+600C>G	.	.	ENST00000449870	.	23	14	9	32	32	0	ILF3,3_prime_UTR_variant,,ENST00000589998,;ILF3,3_prime_UTR_variant,,ENST00000407004,;ILF3,3_prime_UTR_variant,,ENST00000592763,;ILF3,intron_variant,,ENST00000590261,;ILF3,intron_variant,,ENST00000318511,;ILF3,intron_variant,,ENST00000593061,;ILF3,intron_variant,,ENST00000590869,;ILF3,intron_variant,,ENST00000250241,;ILF3,intron_variant,,ENST00000588657,;ILF3,intron_variant,,ENST00000420083,;ILF3,intron_variant,,ENST00000449870,;ILF3,downstream_gene_variant,,ENST00000590009,;ILF3,upstream_gene_variant,,ENST00000586544,;ILF3,intron_variant,,ENST00000587928,;ILF3,downstream_gene_variant,,ENST00000589173,;ILF3,upstream_gene_variant,,ENST00000591649,;ILF3,downstream_gene_variant,,ENST00000585835,;ILF3,downstream_gene_variant,,ENST00000587840,;ILF3,downstream_gene_variant,,ENST00000589416,;ILF3,downstream_gene_variant,,ENST00000589485,;ILF3,downstream_gene_variant,,ENST00000587505,;	G	ENSG00000129351	ENST00000449870	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ILF3	HGNC	6038	protein_coding	YES	CCDS45965.1	ENSP00000404121	ILF3_HUMAN	K7ERM6_HUMAN,K7ER69_HUMAN,K7EM82_HUMAN,K7EKJ9_HUMAN,K7EJ09_HUMAN	UPI000059D66A	.	.	.	.	17/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAACCG	.	5	BLCA
ZNF563	0	.	GRCh37	19	12444294	12444303	+	Intron	DEL	CATTTCCCGG	CATTTCCCGG	-	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	CATTTCCCGG	CATTTCCCGG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7_3delCCGGGAAATG	.	.	ENST00000293725	1/4	110	97	13	131	131	0	ZNF563,splice_region_variant,,ENST00000293725,;ZNF563,splice_region_variant,,ENST00000601858,;ZNF563,splice_region_variant,,ENST00000595977,;ZNF563,splice_region_variant,,ENST00000594577,;	-	ENSG00000188868	ENST00000293725	Transcript	splice_region_variant	200-209	?-3	?-1	.	.	.	.	.	-1	ZNF563	HGNC	30498	protein_coding	YES	CCDS12270.1	ENSP00000293725	ZN563_HUMAN	M0R1Q6_HUMAN	UPI0000072E62	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACGCACCATTTCCCGGCTTCC	.	3	BLCA
MAST1	0	.	GRCh37	19	12962831	12962831	+	Silent	SNP	G	G	A	rs566894767	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858G>A	p.%3D	p.A286A	ENST00000251472	8/26	39	33	6	63	63	0	MAST1,synonymous_variant,p.%3D,ENST00000591495,;MAST1,synonymous_variant,p.%3D,ENST00000590204,;MAST1,synonymous_variant,p.%3D,ENST00000588379,;MAST1,synonymous_variant,p.%3D,ENST00000251472,;HOOK2,intron_variant,,ENST00000589765,;MAST1,downstream_gene_variant,,ENST00000590883,;MAST1,upstream_gene_variant,,ENST00000589040,;MAST1,downstream_gene_variant,,ENST00000592713,;	A	ENSG00000105613	ENST00000251472	Transcript	synonymous_variant	897	858	286	A	gcG/gcA	rs566894767	.	.	1	MAST1	HGNC	19034	protein_coding	YES	CCDS32921.1	ENSP00000251472	MAST1_HUMAN	.	UPI000004A042	.	.	.	8/26	.	Superfamily_domains:0050107,Pfam_domain:PF08926,hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF150	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CCTGCGAGGCT	by1000G	3	BLCA
CACNA1A	0	.	GRCh37	19	13342574	13342574	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5350G>A	p.Glu1784Lys	p.E1784K	ENST00000360228	35/47	28	25	3	33	33	0	CACNA1A,missense_variant,p.Glu1785Lys,ENST00000573710,;CACNA1A,missense_variant,p.Glu1784Lys,ENST00000360228,;CACNA1A,missense_variant,p.Glu470Lys,ENST00000585802,;CACNA1A,missense_variant,p.Glu271Lys,ENST00000587525,;CACNA1A,non_coding_transcript_exon_variant,,ENST00000574822,;CACNA1A,3_prime_UTR_variant,,ENST00000573891,;CACNA1A,downstream_gene_variant,,ENST00000593267,;	T	ENSG00000141837	ENST00000360228	Transcript	missense_variant	5350	5350	1784	E/K	Gaa/Aaa	.	.	.	-1	CACNA1A	HGNC	1388	protein_coding	YES	CCDS45998.1	ENSP00000353362	CAC1A_HUMAN	Q9UN69_HUMAN,Q9UHM9_HUMAN	UPI0000141565	.	.	possibly_damaging(0.486)	35/47	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF59,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AAATTCATTGC	.	2	BLCA
PRKACA	0	.	GRCh37	19	14208578	14208578	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.544C>T	p.Gln182Ter	p.Q182*	ENST00000308677	6/10	39	32	7	67	67	0	PRKACA,stop_gained,p.Gln165Ter,ENST00000593092,;PRKACA,stop_gained,p.Gln182Ter,ENST00000308677,;PRKACA,stop_gained,p.Gln137Ter,ENST00000587372,;PRKACA,stop_gained,p.Gln174Ter,ENST00000589994,;PRKACA,intron_variant,,ENST00000590853,;PRKACA,splice_region_variant,,ENST00000350356,;PRKACA,splice_region_variant,,ENST00000588209,;PRKACA,splice_region_variant,,ENST00000536649,;PRKACA,non_coding_transcript_exon_variant,,ENST00000587533,;	A	ENSG00000072062	ENST00000308677	Transcript	stop_gained	741	544	182	Q/*	Cag/Tag	.	.	.	-1	PRKACA	HGNC	9380	protein_coding	YES	CCDS12304.1	ENSP00000309591	KAPCA_HUMAN	K7EMV1_HUMAN	UPI0000001C8D	.	.	.	6/10	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24353:SF55,hmmpanther:PTHR24353,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTGAATGT	.	5	BLCA
EPS15L1	0	.	GRCh37	19	16532279	16532279	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.801G>A	p.%3D	p.V267V	ENST00000455140	10/24	76	63	12	94	94	0	EPS15L1,synonymous_variant,p.%3D,ENST00000594975,;EPS15L1,synonymous_variant,p.%3D,ENST00000602009,;EPS15L1,synonymous_variant,p.%3D,ENST00000455140,;EPS15L1,synonymous_variant,p.%3D,ENST00000248070,;EPS15L1,synonymous_variant,p.%3D,ENST00000535753,;EPS15L1,synonymous_variant,p.%3D,ENST00000597937,;EPS15L1,synonymous_variant,p.%3D,ENST00000602022,;EPS15L1,3_prime_UTR_variant,,ENST00000592031,;EPS15L1,downstream_gene_variant,,ENST00000593760,;EPS15L1,upstream_gene_variant,,ENST00000596151,;	T	ENSG00000127527	ENST00000455140	Transcript	synonymous_variant	868	801	267	V	gtG/gtA	.	.	.	-1	EPS15L1	HGNC	24634	protein_coding	YES	CCDS58654.1	ENSP00000393313	EP15R_HUMAN	.	UPI0000D4C04A	.	.	.	10/24	.	hmmpanther:PTHR11216,hmmpanther:PTHR11216:SF69,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTCACTGT	.	5	BLCA
FAM129C	0	.	GRCh37	19	17660263	17660263	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1770G>C	p.Lys590Asn	p.K590N	ENST00000335393	15/16	106	95	11	223	222	1	FAM129C,missense_variant,p.Lys559Asn,ENST00000599164,;FAM129C,missense_variant,p.Lys590Asn,ENST00000335393,;FAM129C,missense_variant,p.Lys590Asn,ENST00000332386,;FAM129C,missense_variant,p.Lys559Asn,ENST00000601861,;FAM129C,missense_variant,p.Lys523Asn,ENST00000599124,;FAM129C,missense_variant,p.Lys316Asn,ENST00000449408,;FAM129C,missense_variant,p.Lys590Asn,ENST00000595684,;FAM129C,missense_variant,p.Lys554Asn,ENST00000352727,;FAM129C,intron_variant,,ENST00000600871,;FAM129C,downstream_gene_variant,,ENST00000300971,;FAM129C,splice_acceptor_variant,,ENST00000600519,;	C	ENSG00000167483	ENST00000335393	Transcript	missense_variant	1908	1770	590	K/N	aaG/aaC	.	.	.	1	FAM129C	HGNC	24130	protein_coding	YES	CCDS12362.1	ENSP00000335040	NIBL2_HUMAN	M0R0E0_HUMAN,B4DNU3_HUMAN	UPI0000246FFF	.	deleterious(0.02)	benign(0.33)	15/16	.	hmmpanther:PTHR14392,hmmpanther:PTHR14392:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAAAGACCCT	.	4	BLCA
PGPEP1	0	.	GRCh37	19	18451503	18451503	+	Silent	SNP	G	G	A	rs765846256	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12G>A	p.%3D	p.P4P	ENST00000269919	1/5	12	9	3	19	19	0	PGPEP1,synonymous_variant,p.%3D,ENST00000595066,;PGPEP1,synonymous_variant,p.%3D,ENST00000604499,;PGPEP1,synonymous_variant,p.%3D,ENST00000597431,;PGPEP1,synonymous_variant,p.%3D,ENST00000269919,;PGPEP1,5_prime_UTR_variant,,ENST00000252813,;PGPEP1,synonymous_variant,p.%3D,ENST00000600283,;PGPEP1,synonymous_variant,p.%3D,ENST00000596962,;	A	ENSG00000130517	ENST00000269919	Transcript	synonymous_variant	107	12	4	P	ccG/ccA	rs765846256	.	.	1	PGPEP1	HGNC	13568	protein_coding	YES	CCDS12375.1	ENSP00000269919	PGPI_HUMAN	U3KQG9_HUMAN,Q8IVT1_HUMAN	UPI0000049B15	.	.	.	1/5	.	hmmpanther:PTHR23402:SF11,hmmpanther:PTHR23402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCCGAGGAA	.	2	BLCA
CSNK1G2	0	.	GRCh37	19	1979563	1979563	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.923T>C	p.Leu308Pro	p.L308P	ENST00000255641	9/12	46	39	7	65	64	0	CSNK1G2,missense_variant,p.Leu308Pro,ENST00000255641,;CSNK1G2,downstream_gene_variant,,ENST00000591752,;CSNK1G2,downstream_gene_variant,,ENST00000589350,;CSNK1G2,downstream_gene_variant,,ENST00000589385,;CSNK1G2,non_coding_transcript_exon_variant,,ENST00000589861,;CSNK1G2,non_coding_transcript_exon_variant,,ENST00000585957,;CSNK1G2,non_coding_transcript_exon_variant,,ENST00000590106,;CSNK1G2,downstream_gene_variant,,ENST00000585959,;CSNK1G2,downstream_gene_variant,,ENST00000591002,;	C	ENSG00000133275	ENST00000255641	Transcript	missense_variant	1418	923	308	L/P	cTg/cCg	.	.	.	1	CSNK1G2	HGNC	2455	protein_coding	YES	CCDS12077.1	ENSP00000255641	KC1G2_HUMAN	.	UPI00000015E2	.	deleterious(0.05)	probably_damaging(1)	9/12	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:1.10.510.10,hmmpanther:PTHR11909,hmmpanther:PTHR11909:SF101,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTACCTGCGGA	.	4	BLCA
TSHZ3	0	.	GRCh37	19	31769712	31769712	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987G>A	p.%3D	p.E329E	ENST00000240587	2/2	88	67	21	114	114	0	TSHZ3,synonymous_variant,p.%3D,ENST00000240587,;TSHZ3,downstream_gene_variant,,ENST00000560707,;	T	ENSG00000121297	ENST00000240587	Transcript	synonymous_variant	1315	987	329	E	gaG/gaA	.	.	.	-1	TSHZ3	HGNC	30700	protein_coding	YES	CCDS12421.2	ENSP00000240587	TSH3_HUMAN	A1L0U7_HUMAN	UPI0000202000	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12487,hmmpanther:PTHR12487:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGAGCTCCAG	.	5	BLCA
CEBPG	0	.	GRCh37	19	33870338	33870338	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193T>C	p.Tyr65His	p.Y65H	ENST00000284000	2/2	27	24	3	26	26	0	CEBPG,missense_variant,p.Tyr65His,ENST00000585933,;CEBPG,missense_variant,p.Tyr65His,ENST00000284000,;	C	ENSG00000153879	ENST00000284000	Transcript	missense_variant	855	193	65	Y/H	Tat/Cat	.	.	.	1	CEBPG	HGNC	1837	protein_coding	YES	CCDS12432.1	ENSP00000284000	CEBPG_HUMAN	K7ELC9_HUMAN	UPI00001274A6	.	tolerated(0.07)	benign(0.434)	2/2	.	Superfamily_domains:SSF57959,SMART_domains:SM00338,Gene3D:1.20.5.170,Pfam_domain:PF07716,hmmpanther:PTHR23334,PROSITE_profiles:PS50217	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGAGTATCGG	.	4	BLCA
ZNF792	0	.	GRCh37	19	35450035	35450035	+	Nonsense_Mutation	SNP	C	C	A	rs138080556	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724G>T	p.Glu242Ter	p.E242*	ENST00000404801	4/4	88	81	7	89	89	0	ZNF792,stop_gained,p.Glu175Ter,ENST00000605484,;ZNF792,stop_gained,p.Glu242Ter,ENST00000404801,;	A	ENSG00000180884	ENST00000404801	Transcript	stop_gained	1111	724	242	E/*	Gaa/Taa	rs138080556	.	.	-1	ZNF792	HGNC	24751	protein_coding	YES	CCDS12440.2	ENSP00000385099	ZN792_HUMAN	S4R3B8_HUMAN	UPI0000202090	.	.	.	4/4	.	hmmpanther:PTHR24387,hmmpanther:PTHR24387:SF187	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0.0005	T:0	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTCGGTGG	byCluster|by1000G	2	BLCA
POLR2I	0	.	GRCh37	19	36604919	36604919	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313G>A	p.Glu105Lys	p.E105K	ENST00000221859	5/6	101	82	19	120	120	0	POLR2I,missense_variant,p.Glu105Lys,ENST00000221859,;TBCB,upstream_gene_variant,,ENST00000589996,;OVOL3,downstream_gene_variant,,ENST00000586670,;OVOL3,downstream_gene_variant,,ENST00000585332,;TBCB,upstream_gene_variant,,ENST00000591296,;TBCB,upstream_gene_variant,,ENST00000586868,;TBCB,upstream_gene_variant,,ENST00000585746,;OVOL3,downstream_gene_variant,,ENST00000262637,;TBCB,upstream_gene_variant,,ENST00000221855,;TBCB,upstream_gene_variant,,ENST00000588385,;TBCB,upstream_gene_variant,,ENST00000593075,;TBCB,upstream_gene_variant,,ENST00000589308,;TBCB,upstream_gene_variant,,ENST00000392178,;POLR2I,splice_region_variant,,ENST00000586439,;POLR2I,splice_region_variant,,ENST00000586789,;POLR2I,splice_region_variant,,ENST00000585842,;POLR2I,splice_region_variant,,ENST00000592962,;POLR2I,splice_region_variant,,ENST00000589591,;TBCB,upstream_gene_variant,,ENST00000589624,;TBCB,upstream_gene_variant,,ENST00000481742,;POLR2I,downstream_gene_variant,,ENST00000589069,;	T	ENSG00000105258	ENST00000221859	Transcript	missense_variant	803	313	105	E/K	Gag/Aag	.	.	.	-1	POLR2I	HGNC	9196	protein_coding	YES	CCDS12487.1	ENSP00000221859	RPB9_HUMAN	K7EKS1_HUMAN	UPI0000001B8F	.	deleterious(0)	possibly_damaging(0.907)	5/6	.	PROSITE_profiles:PS51133,hmmpanther:PTHR11239:SF1,hmmpanther:PTHR11239,PROSITE_patterns:PS00466,Gene3D:2.20.25.10,Pfam_domain:PF01096,SMART_domains:SM00440,PIRSF_domain:PIRSF005586,Superfamily_domains:SSF57783	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCGGCCC	.	5	BLCA
ZNF570	0	.	GRCh37	19	37975419	37975419	+	Missense_Mutation	SNP	G	G	A	rs776469961	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895G>A	p.Glu299Lys	p.E299K	ENST00000330173	5/5	90	85	5	105	105	0	ZNF570,missense_variant,p.Glu96Lys,ENST00000388801,;ZNF570,missense_variant,p.Glu299Lys,ENST00000330173,;ZNF570,missense_variant,p.Glu355Lys,ENST00000586475,;ZNF570,downstream_gene_variant,,ENST00000589725,;CTD-2086O20.3,upstream_gene_variant,,ENST00000591976,;ZNF570,3_prime_UTR_variant,,ENST00000588644,;ZNF570,downstream_gene_variant,,ENST00000590664,;	A	ENSG00000171827	ENST00000330173	Transcript	missense_variant	1424	895	299	E/K	Gaa/Aaa	rs776469961	.	.	1	ZNF570	HGNC	26416	protein_coding	YES	CCDS12504.1	ENSP00000331540	ZN570_HUMAN	K7EP64_HUMAN,K7ENX9_HUMAN,K7EMF5_HUMAN,B4DMP1_HUMAN	UPI000006DC96	.	deleterious(0)	probably_damaging(0.995)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24387,hmmpanther:PTHR24387:SF17,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGAGAAAAA	byFrequency	2	BLCA
ZNF571	0	.	GRCh37	19	38057104	38057104	+	Missense_Mutation	SNP	G	G	A	rs201847427,rs745898803	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226C>T	p.Arg76Cys	p.R76C	ENST00000328550	4/5	77	73	4	87	87	0	ZNF571,missense_variant,p.Arg76Cys,ENST00000593133,;ZNF571,missense_variant,p.Arg79Cys,ENST00000590390,;ZNF571,missense_variant,p.Arg76Cys,ENST00000358744,;ZNF571,missense_variant,p.Arg76Cys,ENST00000451802,;ZNF571,missense_variant,p.Arg76Cys,ENST00000328550,;ZNF571,intron_variant,,ENST00000590751,;ZNF540,intron_variant,,ENST00000592533,;ZNF571-AS1,intron_variant,,ENST00000586013,;ZNF571-AS1,intron_variant,,ENST00000589750,;ZNF571-AS1,intron_variant,,ENST00000587121,;ZNF571-AS1,intron_variant,,ENST00000591430,;ZNF571-AS1,intron_variant,,ENST00000590838,;ZNF571-AS1,intron_variant,,ENST00000586139,;ZNF571-AS1,intron_variant,,ENST00000585578,;ZNF571-AS1,intron_variant,,ENST00000589802,;ZNF571-AS1,intron_variant,,ENST00000592392,;ZNF571-AS1,upstream_gene_variant,,ENST00000591177,;	A	ENSG00000180479	ENST00000328550	Transcript	missense_variant	326	226	76	R/C	Cgt/Tgt	rs201847427,rs745898803	.	.	-1	ZNF571	HGNC	25000	protein_coding	YES	CCDS12505.1	ENSP00000333660	ZN571_HUMAN	.	UPI000020220A	.	tolerated(0.18)	benign(0.001)	4/5	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF141,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	-:0.0005	-:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATACGTTTCC	byFrequency|byCluster	2	BLCA
SPINT2	0	.	GRCh37	19	38781187	38781187	+	Silent	SNP	G	G	A	rs749191665	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.564G>A	p.%3D	p.E188E	ENST00000301244	6/7	30	27	3	38	38	0	SPINT2,synonymous_variant,p.%3D,ENST00000587090,;SPINT2,synonymous_variant,p.%3D,ENST00000587334,;CTB-102L5.4,synonymous_variant,p.%3D,ENST00000591889,;SPINT2,synonymous_variant,p.%3D,ENST00000454580,;SPINT2,synonymous_variant,p.%3D,ENST00000590738,;SPINT2,synonymous_variant,p.%3D,ENST00000301244,;CTB-102L5.4,synonymous_variant,p.%3D,ENST00000587519,;SPINT2,synonymous_variant,p.%3D,ENST00000587516,;SPINT2,downstream_gene_variant,,ENST00000592007,;SPINT2,downstream_gene_variant,,ENST00000590510,;Y_RNA,upstream_gene_variant,,ENST00000363339,;SPINT2,non_coding_transcript_exon_variant,,ENST00000589749,;SPINT2,non_coding_transcript_exon_variant,,ENST00000585357,;SPINT2,downstream_gene_variant,,ENST00000590210,;	A	ENSG00000167642	ENST00000301244	Transcript	synonymous_variant	999	564	188	E	gaG/gaA	rs749191665	.	.	1	SPINT2	HGNC	11247	protein_coding	YES	CCDS12510.1	ENSP00000301244	SPIT2_HUMAN	K7EM91_HUMAN,K7EKC8_HUMAN,K7EJS4_HUMAN	UPI0000135E8E	.	.	.	6/7	.	hmmpanther:PTHR10083,hmmpanther:PTHR10083:SF177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CAGGAGAATCC	.	2	BLCA
EIF3K	0	.	GRCh37	19	39127590	39127590	+	3'UTR	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*30T>C	.	.	ENST00000248342	8/8	51	39	12	68	68	0	EIF3K,3_prime_UTR_variant,,ENST00000588934,;EIF3K,3_prime_UTR_variant,,ENST00000593149,;EIF3K,3_prime_UTR_variant,,ENST00000592558,;EIF3K,3_prime_UTR_variant,,ENST00000248342,;EIF3K,downstream_gene_variant,,ENST00000591409,;EIF3K,downstream_gene_variant,,ENST00000545173,;EIF3K,downstream_gene_variant,,ENST00000538434,;EIF3K,downstream_gene_variant,,ENST00000588299,;EIF3K,downstream_gene_variant,,ENST00000590134,;	C	ENSG00000178982	ENST00000248342	Transcript	3_prime_UTR_variant	859	.	.	.	.	.	.	.	1	EIF3K	HGNC	24656	protein_coding	YES	CCDS12517.1	ENSP00000248342	EIF3K_HUMAN	K7EK53_HUMAN	UPI000012D318	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGACTCAGCC	.	5	BLCA
CCDC97	0	.	GRCh37	19	41816244	41816244	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.29C>G	p.Ala10Gly	p.A10G	ENST00000269967	1/5	11	7	3	11	11	0	CCDC97,missense_variant,p.Ala10Gly,ENST00000269967,;TGFB1,intron_variant,,ENST00000598758,;HNRNPUL1,downstream_gene_variant,,ENST00000392006,;CCDC97,upstream_gene_variant,,ENST00000596882,;HNRNPUL1,downstream_gene_variant,,ENST00000378215,;HNRNPUL1,downstream_gene_variant,,ENST00000595018,;HNRNPUL1,downstream_gene_variant,,ENST00000263367,;HNRNPUL1,downstream_gene_variant,,ENST00000602130,;HNRNPUL1,downstream_gene_variant,,ENST00000599614,;HNRNPUL1,downstream_gene_variant,,ENST00000352456,;HNRNPUL1,downstream_gene_variant,,ENST00000593587,;HNRNPUL1,downstream_gene_variant,,ENST00000595806,;HNRNPUL1,downstream_gene_variant,,ENST00000595196,;	G	ENSG00000142039	ENST00000269967	Transcript	missense_variant	151	29	10	A/G	gCg/gGg	.	.	.	1	CCDC97	HGNC	28289	protein_coding	YES	CCDS12578.1	ENSP00000269967	CCD97_HUMAN	.	UPI000007279F	.	deleterious_low_confidence(0.03)	benign(0.045)	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCGGCGAAGG	.	3	BLCA
MEGF8	0	.	GRCh37	19	42874353	42874353	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6646G>A	p.Glu2216Lys	p.E2216K	ENST00000334370	38/41	54	49	5	80	80	0	MEGF8,missense_variant,p.Glu36Lys,ENST00000593647,;MEGF8,missense_variant,p.Glu2216Lys,ENST00000334370,;MEGF8,missense_variant,p.Glu2283Lys,ENST00000251268,;MEGF8,5_prime_UTR_variant,,ENST00000378073,;MEGF8,intron_variant,,ENST00000598762,;MEGF8,upstream_gene_variant,,ENST00000599787,;	A	ENSG00000105429	ENST00000334370	Transcript	missense_variant	7281	6646	2216	E/K	Gag/Aag	.	.	.	1	MEGF8	HGNC	3233	protein_coding	YES	CCDS12604.2	ENSP00000334219	MEGF8_HUMAN	.	UPI00003CF1A7	.	deleterious(0.01)	probably_damaging(0.954)	38/41	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF241,hmmpanther:PTHR10574,PROSITE_patterns:PS01248,Gene3D:2.10.25.10,SMART_domains:SM00181,SMART_domains:SM00180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTGTGAGCAG	.	4	BLCA
PSG6	0	.	GRCh37	19	43411741	43411741	+	Silent	SNP	G	G	A	rs200845699	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.972C>T	p.%3D	p.T324T	ENST00000292125	4/6	138	124	13	103	103	0	PSG6,synonymous_variant,p.%3D,ENST00000187910,;PSG6,synonymous_variant,p.%3D,ENST00000292125,;PSG6,intron_variant,,ENST00000402603,;PSG6,downstream_gene_variant,,ENST00000594375,;PSG6,3_prime_UTR_variant,,ENST00000599753,;PSG6,intron_variant,,ENST00000595062,;PSG6,downstream_gene_variant,,ENST00000402456,;PSG6,downstream_gene_variant,,ENST00000484292,;	A	ENSG00000170848	ENST00000292125	Transcript	synonymous_variant	1017	972	324	T	acC/acT	rs200845699	.	.	-1	PSG6	HGNC	9523	protein_coding	YES	CCDS12613.1	ENSP00000292125	PSG6_HUMAN	.	UPI00001327A1	.	.	.	4/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Pfam_domain:PF13895,Gene3D:2.60.40.10,hmmpanther:PTHR19955:SF126,hmmpanther:PTHR19955,PROSITE_profiles:PS50835	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCAGGGTGAC	byCluster|by1000G	3	BLCA
MPND	0	.	GRCh37	19	4359211	4359211	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1288G>T	p.Glu430Ter	p.E430*	ENST00000262966	11/12	41	33	8	93	93	0	MPND,stop_gained,p.Glu428Ter,ENST00000597036,;MPND,stop_gained,p.Glu430Ter,ENST00000262966,;MPND,stop_gained,p.Glu410Ter,ENST00000359935,;MPND,stop_gained,p.Glu68Ter,ENST00000594162,;MPND,stop_gained,p.Glu460Ter,ENST00000599840,;MPND,stop_gained,p.Glu462Ter,ENST00000596722,;SH3GL1,downstream_gene_variant,,ENST00000598230,;SH3GL1,downstream_gene_variant,,ENST00000417295,;SH3GL1,downstream_gene_variant,,ENST00000598564,;SH3GL1,downstream_gene_variant,,ENST00000269886,;MPND,downstream_gene_variant,,ENST00000601877,;SH3GL1,downstream_gene_variant,,ENST00000593591,;AC007292.6,upstream_gene_variant,,ENST00000594444,;AC007292.3,upstream_gene_variant,,ENST00000593524,;MPND,3_prime_UTR_variant,,ENST00000594716,;	T	ENSG00000008382	ENST00000262966	Transcript	stop_gained	1355	1288	430	E/*	Gaa/Taa	.	.	.	1	MPND	HGNC	25934	protein_coding	YES	CCDS42470.1	ENSP00000262966	MPND_HUMAN	.	UPI000006EE47	.	.	.	11/12	.	hmmpanther:PTHR12802,hmmpanther:PTHR12802:SF40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGGAACCC	.	5	BLCA
ZNF222	0	.	GRCh37	19	44536353	44536353	+	Missense_Mutation	SNP	G	G	A	rs374780710	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646G>A	p.Asp216Asn	p.D216N	ENST00000391960	4/4	131	120	11	144	144	0	ZNF222,missense_variant,p.Asp216Asn,ENST00000391960,;ZNF222,missense_variant,p.Asp176Asn,ENST00000187879,;ZNF222,downstream_gene_variant,,ENST00000587846,;ZNF222,downstream_gene_variant,,ENST00000590160,;ZNF223,intron_variant,,ENST00000591793,;	A	ENSG00000159885	ENST00000391960	Transcript	missense_variant	683	646	216	D/N	Gat/Aat	rs374780710	.	.	1	ZNF222	HGNC	13015	protein_coding	YES	CCDS46098.1	ENSP00000375822	ZN222_HUMAN	Q02387_HUMAN	UPI000014182E	.	tolerated(0.14)	possibly_damaging(0.525)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF163,hmmpanther:PTHR24402,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGTGTGATGTG	byFrequency|byCluster	3	BLCA
APOC1	0	.	GRCh37	19	45422466	45422466	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231G>C	p.Glu77Asp	p.E77D	ENST00000588750	5/5	135	124	11	216	216	0	APOC1,missense_variant,p.Glu126Gln,ENST00000592885,;APOC1,missense_variant,p.Glu77Asp,ENST00000592535,;APOC1,missense_variant,p.Glu77Asp,ENST00000252491,;APOC1,missense_variant,p.Glu77Asp,ENST00000588750,;APOC1,missense_variant,p.Glu89Gln,ENST00000586638,;APOC1,missense_variant,p.Glu77Asp,ENST00000588802,;APOC1,3_prime_UTR_variant,,ENST00000589781,;APOC1,downstream_gene_variant,,ENST00000589078,;APOC1,3_prime_UTR_variant,,ENST00000590334,;APOC1,3_prime_UTR_variant,,ENST00000592176,;	C	ENSG00000130208	ENST00000588750	Transcript	missense_variant	556	231	77	E/D	gaG/gaC	.	.	.	1	APOC1	HGNC	607	protein_coding	YES	CCDS12648.1	ENSP00000465356	APOC1_HUMAN	B2R526_HUMAN,K7ERI9_HUMAN,K7EKP1_HUMAN	UPI0000125C19	.	tolerated(0.29)	possibly_damaging(0.874)	5/5	.	hmmpanther:PTHR16565,Gene3D:1iojA00,Pfam_domain:PF04691	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	AAGGAGAAACT	.	2	BLCA
ERCC2	0	.	GRCh37	19	45872213	45872213	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221C>T	p.Ser74Leu	p.S74L	ENST00000391945	4/23	99	69	30	125	125	0	ERCC2,missense_variant,p.Ser50Leu,ENST00000391941,;ERCC2,missense_variant,p.Ser74Leu,ENST00000391944,;ERCC2,missense_variant,p.Ser50Leu,ENST00000586131,;ERCC2,missense_variant,p.Ser74Leu,ENST00000391945,;ERCC2,missense_variant,p.Ser50Leu,ENST00000391940,;ERCC2,missense_variant,p.Ser74Leu,ENST00000221481,;ERCC2,missense_variant,p.Ser24Leu,ENST00000586856,;ERCC2,missense_variant,p.Ser50Leu,ENST00000485403,;ERCC2,missense_variant,p.Ser74Leu,ENST00000591309,;ERCC2,non_coding_transcript_exon_variant,,ENST00000586441,;ERCC2,non_coding_transcript_exon_variant,,ENST00000586737,;ERCC2,upstream_gene_variant,,ENST00000587376,;	A	ENSG00000104884	ENST00000391945	Transcript	missense_variant	299	221	74	S/L	tCa/tTa	COSM3701512,COSM3701513	.	.	-1	ERCC2	HGNC	3434	protein_coding	YES	CCDS33049.1	ENSP00000375809	ERCC2_HUMAN	K7EIT8_HUMAN,A8MX75_HUMAN	UPI0000139012	.	deleterious(0)	possibly_damaging(0.884)	4/23	.	PROSITE_profiles:PS51193,hmmpanther:PTHR11472:SF1,hmmpanther:PTHR11472,Gene3D:3.40.50.300,Pfam_domain:PF06733,TIGRFAM_domain:TIGR00604,SMART_domains:SM00488,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTGAGCAG	.	5	BLCA
IGFL1	0	.	GRCh37	19	46733721	46733721	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>A	p.%3D	p.L90L	ENST00000437936	3/4	124	113	11	162	162	0	IGFL1,synonymous_variant,p.%3D,ENST00000437936,;AC006262.10,upstream_gene_variant,,ENST00000597337,;	A	ENSG00000188293	ENST00000437936	Transcript	synonymous_variant	293	270	90	L	ctG/ctA	.	.	.	1	IGFL1	HGNC	24093	protein_coding	YES	CCDS46123.1	ENSP00000415823	IGFL1_HUMAN	.	UPI000003C715	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	AAGCTGATAAA	.	2	BLCA
GYS1	0	.	GRCh37	19	49494690	49494690	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169G>A	p.Glu57Lys	p.E57K	ENST00000323798	2/16	180	145	34	226	226	0	GYS1,missense_variant,p.Glu57Lys,ENST00000263276,;GYS1,missense_variant,p.Glu57Lys,ENST00000323798,;GYS1,intron_variant,,ENST00000540532,;GYS1,intron_variant,,ENST00000541188,;GYS1,intron_variant,,ENST00000544287,;RUVBL2,upstream_gene_variant,,ENST00000596837,;RUVBL2,upstream_gene_variant,,ENST00000595090,;RUVBL2,upstream_gene_variant,,ENST00000413176,;RUVBL2,upstream_gene_variant,,ENST00000601968,;GYS1,non_coding_transcript_exon_variant,,ENST00000457974,;RUVBL2,upstream_gene_variant,,ENST00000598768,;RUVBL2,upstream_gene_variant,,ENST00000594017,;RUVBL2,upstream_gene_variant,,ENST00000596247,;RUVBL2,upstream_gene_variant,,ENST00000221413,;RUVBL2,upstream_gene_variant,,ENST00000593570,;RUVBL2,upstream_gene_variant,,ENST00000595811,;	T	ENSG00000104812	ENST00000323798	Transcript	missense_variant	366	169	57	E/K	Gaa/Aaa	.	.	.	-1	GYS1	HGNC	4706	protein_coding	YES	CCDS12747.1	ENSP00000317904	GYS1_HUMAN	F5H1N8_HUMAN	UPI0000000C44	.	tolerated(0.06)	probably_damaging(0.995)	2/16	.	hmmpanther:PTHR10176,hmmpanther:PTHR10176:SF2,Pfam_domain:PF05693,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATTCGTCCC	.	5	BLCA
FLT3LG	0	.	GRCh37	19	49979749	49979749	+	Missense_Mutation	SNP	G	G	C	rs143173973	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268G>C	p.Ala90Pro	p.A90P	ENST00000594009	4/8	29	25	4	36	36	0	FLT3LG,missense_variant,p.Ala90Pro,ENST00000600429,;FLT3LG,missense_variant,p.Ala90Pro,ENST00000597551,;FLT3LG,missense_variant,p.Ala8Pro,ENST00000595510,;FLT3LG,missense_variant,p.Ala90Pro,ENST00000344019,;FLT3LG,missense_variant,p.Ala50Pro,ENST00000598555,;FLT3LG,missense_variant,p.Ala8Pro,ENST00000204637,;FLT3LG,missense_variant,p.Ala90Pro,ENST00000596435,;FLT3LG,missense_variant,p.Ala90Pro,ENST00000594009,;FLT3LG,upstream_gene_variant,,ENST00000597914,;CTD-3148I10.15,non_coding_transcript_exon_variant,,ENST00000595815,;FLT3LG,3_prime_UTR_variant,,ENST00000600084,;FLT3LG,3_prime_UTR_variant,,ENST00000601800,;FLT3LG,non_coding_transcript_exon_variant,,ENST00000593422,;FLT3LG,non_coding_transcript_exon_variant,,ENST00000598472,;CTD-3148I10.9,intron_variant,,ENST00000599536,;	C	ENSG00000090554	ENST00000594009	Transcript	missense_variant	347	268	90	A/P	Gct/Cct	rs143173973	.	.	1	FLT3LG	HGNC	3766	protein_coding	YES	CCDS12767.1	ENSP00000469613	FLT3L_HUMAN	Q05C96_HUMAN	UPI0000037544	.	deleterious(0)	probably_damaging(0.967)	4/8	.	hmmpanther:PTHR11032,hmmpanther:PTHR11032:SF1,Pfam_domain:PF02947,Gene3D:1.20.1250.10,Superfamily_domains:SSF47266	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGTCGCTGGG	.	4	BLCA
TBC1D17	0	.	GRCh37	19	50383538	50383538	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198C>G	p.Asp66Glu	p.D66E	ENST00000221543	4/17	51	42	9	73	73	0	TBC1D17,missense_variant,p.Asp45Glu,ENST00000599049,;TBC1D17,missense_variant,p.Asp33Glu,ENST00000535102,;TBC1D17,missense_variant,p.Asp66Glu,ENST00000221543,;AKT1S1,upstream_gene_variant,,ENST00000391835,;AKT1S1,upstream_gene_variant,,ENST00000391832,;AKT1S1,upstream_gene_variant,,ENST00000344175,;AKT1S1,upstream_gene_variant,,ENST00000391833,;AKT1S1,upstream_gene_variant,,ENST00000391831,;AKT1S1,upstream_gene_variant,,ENST00000391830,;AKT1S1,upstream_gene_variant,,ENST00000391834,;TBC1D17,splice_region_variant,,ENST00000598789,;AKT1S1,upstream_gene_variant,,ENST00000482622,;TBC1D17,splice_region_variant,,ENST00000596243,;TBC1D17,splice_region_variant,,ENST00000594996,;TBC1D17,upstream_gene_variant,,ENST00000594984,;	G	ENSG00000104946	ENST00000221543	Transcript	missense_variant	497	198	66	D/E	gaC/gaG	.	.	.	1	TBC1D17	HGNC	25699	protein_coding	YES	CCDS12785.1	ENSP00000221543	TBC17_HUMAN	Q96RQ7_HUMAN	UPI000013C7D2	.	tolerated(0.16)	benign(0.032)	4/17	.	hmmpanther:PTHR22957:SF228,hmmpanther:PTHR22957,Pfam_domain:PF12068	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGACTCCAG	.	5	BLCA
KLK10	0	.	GRCh37	19	51522333	51522333	+	Silent	SNP	C	C	T	rs763595967	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.%3D	p.A18A	ENST00000309958	2/6	18	14	3	35	35	0	KLK10,synonymous_variant,p.%3D,ENST00000599077,;KLK10,synonymous_variant,p.%3D,ENST00000391805,;KLK10,synonymous_variant,p.%3D,ENST00000309958,;KLK10,synonymous_variant,p.%3D,ENST00000358789,;KLK11,downstream_gene_variant,,ENST00000319720,;KLK11,downstream_gene_variant,,ENST00000453757,;KLK11,downstream_gene_variant,,ENST00000600362,;KLK11,downstream_gene_variant,,ENST00000594768,;KLK11,downstream_gene_variant,,ENST00000593681,;KLK11,downstream_gene_variant,,ENST00000391804,;KLK11,downstream_gene_variant,,ENST00000598799,;CTC-518B2.12,downstream_gene_variant,,ENST00000596286,;KLK10,upstream_gene_variant,,ENST00000599987,;KLK10,upstream_gene_variant,,ENST00000601467,;KLK11,downstream_gene_variant,,ENST00000594827,;KLK11,downstream_gene_variant,,ENST00000319756,;	T	ENSG00000129451	ENST00000309958	Transcript	synonymous_variant	273	54	18	A	gcG/gcA	rs763595967,COSM312377	.	.	-1	KLK10	HGNC	6358	protein_coding	YES	CCDS12817.1	ENSP00000311746	KLK10_HUMAN	M0R132_HUMAN	UPI000013CCB0	.	.	.	2/6	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTCGCCAG	.	5	BLCA
ZNF613	0	.	GRCh37	19	52448462	52448463	+	Frame_Shift_Del	DEL	TT	TT	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	TT	TT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1326_1327delTTinsC	p.Leu443Ter	p.L443*	ENST00000293471	6/6	72	64	8	97	97	0	ZNF613,frameshift_variant,p.Leu407Ter,ENST00000391794,;ZNF613,frameshift_variant,p.Leu443Ter,ENST00000293471,;ZNF613,downstream_gene_variant,,ENST00000599683,;ZNF613,downstream_gene_variant,,ENST00000600853,;HCCAT3,upstream_gene_variant,,ENST00000600253,;HCCAT3,upstream_gene_variant,,ENST00000595010,;ZNF613,non_coding_transcript_exon_variant,,ENST00000601794,;ZNF613,downstream_gene_variant,,ENST00000593379,;	C	ENSG00000176024	ENST00000293471	Transcript	frameshift_variant	2005-2006	1326-1327	442-443	CL/CX	tgTTta/tgCta	.	.	.	1	ZNF613	HGNC	25827	protein_coding	YES	CCDS33089.1	ENSP00000293471	ZN613_HUMAN	M0R2C1_HUMAN,M0QX19_HUMAN	UPI0000202AD1	.	.	.	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24404,hmmpanther:PTHR24404:SF26,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*	GACATGTTTAATA	.	4	BLCA
AURKC	0	.	GRCh37	19	57743107	57743107	+	Intron	SNP	C	C	G	rs751151295	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59-3C>G	.	.	ENST00000302804	.	34	30	3	59	59	0	AURKC,splice_region_variant,,ENST00000302804,;AURKC,splice_region_variant,,ENST00000448930,;AURKC,splice_region_variant,,ENST00000415300,;AURKC,5_prime_UTR_variant,,ENST00000598785,;AURKC,intron_variant,,ENST00000599062,;AURKC,upstream_gene_variant,,ENST00000594599,;AURKC,5_prime_UTR_variant,,ENST00000596375,;AURKC,3_prime_UTR_variant,,ENST00000601799,;	G	ENSG00000105146	ENST00000302804	Transcript	splice_region_variant	.	.	.	.	.	rs751151295	.	.	1	AURKC	HGNC	11391	protein_coding	YES	CCDS33128.1	ENSP00000302898	AURKC_HUMAN	.	UPI000013610A	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUSE|VARSCANS	TCTTTCAGTGG	byFrequency	3	BLCA
C19orf45	0	.	GRCh37	19	7571004	7571004	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1160C>T	p.Ala387Val	p.A387V	ENST00000361664	7/9	35	24	11	53	53	0	C19orf45,missense_variant,p.Ala387Val,ENST00000361664,;C19orf45,downstream_gene_variant,,ENST00000596132,;CTD-2207O23.12,upstream_gene_variant,,ENST00000599312,;C19orf45,downstream_gene_variant,,ENST00000597207,;C19orf45,downstream_gene_variant,,ENST00000601176,;C19orf45,non_coding_transcript_exon_variant,,ENST00000600112,;C19orf45,upstream_gene_variant,,ENST00000601292,;CTD-2207O23.12,upstream_gene_variant,,ENST00000597384,;C19orf45,downstream_gene_variant,,ENST00000596524,;	T	ENSG00000198723	ENST00000361664	Transcript	missense_variant	1301	1160	387	A/V	gCg/gTg	.	.	.	1	C19orf45	HGNC	24745	protein_coding	YES	CCDS12179.2	ENSP00000355241	CS045_HUMAN	M0R096_HUMAN,M0QYK1_HUMAN,M0QY34_HUMAN	UPI00001D83AB	.	tolerated(0.26)	benign(0.08)	7/9	.	Pfam_domain:PF15373	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAAAGCGCCCA	.	3	BLCA
DBT	0	.	GRCh37	1	100672099	100672099	+	Missense_Mutation	SNP	C	C	T	rs777868718	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1111G>A	p.Ala371Thr	p.A371T	ENST00000370132	9/11	175	141	33	339	339	0	DBT,missense_variant,p.Ala371Thr,ENST00000370132,;DBT,downstream_gene_variant,,ENST00000370131,;	T	ENSG00000137992	ENST00000370132	Transcript	missense_variant	1125	1111	371	A/T	Gcc/Acc	rs777868718	.	.	-1	DBT	HGNC	2698	protein_coding	YES	CCDS767.1	ENSP00000359151	ODB2_HUMAN	.	UPI000013D0E7	.	deleterious(0)	probably_damaging(0.936)	9/11	.	hmmpanther:PTHR23151:SF46,hmmpanther:PTHR23151,Gene3D:3.30.559.10,Pfam_domain:PF00198,Superfamily_domains:SSF52777	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTGGCGATGT	byFrequency	5	BLCA
AKNAD1	0	.	GRCh37	1	109373225	109373225	+	Silent	SNP	C	C	G	rs776811283	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1794G>C	p.%3D	p.T598T	ENST00000370001	10/16	26	22	3	41	41	0	AKNAD1,synonymous_variant,p.%3D,ENST00000357393,;AKNAD1,synonymous_variant,p.%3D,ENST00000369995,;AKNAD1,synonymous_variant,p.%3D,ENST00000369994,;AKNAD1,synonymous_variant,p.%3D,ENST00000370001,;AKNAD1,synonymous_variant,p.%3D,ENST00000474186,;AKNAD1,3_prime_UTR_variant,,ENST00000461774,;AKNAD1,non_coding_transcript_exon_variant,,ENST00000603450,;	G	ENSG00000162641	ENST00000370001	Transcript	synonymous_variant	2063	1794	598	T	acG/acC	rs776811283	.	.	-1	AKNAD1	HGNC	28398	protein_coding	YES	CCDS791.2	ENSP00000359018	AKND1_HUMAN	.	UPI00004700A0	.	.	.	10/16	.	hmmpanther:PTHR21510:SF14,hmmpanther:PTHR21510	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTGCCGTCAT	.	4	BLCA
AMIGO1	0	.	GRCh37	1	110050080	110050080	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1455C>T	p.%3D	p.V485V	ENST00000369864	2/2	65	58	6	101	101	0	AMIGO1,synonymous_variant,p.%3D,ENST00000369862,;AMIGO1,synonymous_variant,p.%3D,ENST00000369864,;CYB561D1,downstream_gene_variant,,ENST00000528785,;	A	ENSG00000181754	ENST00000369864	Transcript	synonymous_variant	1805	1455	485	V	gtC/gtT	.	.	.	-1	AMIGO1	HGNC	20824	protein_coding	YES	CCDS30795.1	ENSP00000358880	AMGO1_HUMAN	.	UPI0000035067	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGAAGACCGA	.	4	BLCA
LAMTOR5	0	.	GRCh37	1	110950440	110950440	+	Missense_Mutation	SNP	T	T	G	rs777135788	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49A>C	p.Ser17Arg	p.S17R	ENST00000256644	1/4	32	27	5	36	36	0	LAMTOR5,missense_variant,p.Ser17Arg,ENST00000256644,;LAMTOR5,upstream_gene_variant,,ENST00000483260,;LAMTOR5,upstream_gene_variant,,ENST00000602318,;LAMTOR5,upstream_gene_variant,,ENST00000474861,;LAMTOR5,upstream_gene_variant,,ENST00000602858,;LAMTOR5-AS1,non_coding_transcript_exon_variant,,ENST00000608067,;LAMTOR5-AS1,non_coding_transcript_exon_variant,,ENST00000457535,;LAMTOR5-AS1,intron_variant,,ENST00000590413,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000598454,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000610148,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000590826,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000608253,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000608499,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000609709,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000587691,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000609512,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000585330,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000609653,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000608602,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000609244,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000608486,;LAMTOR5,upstream_gene_variant,,ENST00000531779,;LAMTOR5,upstream_gene_variant,,ENST00000464240,;	G	ENSG00000134248	ENST00000256644	Transcript	missense_variant	125	49	17	S/R	Agc/Cgc	rs777135788	.	.	-1	LAMTOR5	HGNC	17955	protein_coding	YES	CCDS824.1	ENSP00000256644	LTOR5_HUMAN	R4GMU8_HUMAN	UPI0000205288	.	tolerated_low_confidence(0.7)	possibly_damaging(0.504)	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGGCTTGGGC	.	4	BLCA
KCNA2	0	.	GRCh37	1	111147044	111147044	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361G>A	p.Glu121Lys	p.E121K	ENST00000485317	3/3	32	28	4	33	33	0	KCNA2,missense_variant,p.Glu121Lys,ENST00000440270,;KCNA2,missense_variant,p.Glu121Lys,ENST00000485317,;KCNA2,missense_variant,p.Glu121Lys,ENST00000316361,;KCNA2,missense_variant,p.Glu121Lys,ENST00000369770,;KCNA2,intron_variant,,ENST00000525120,;	T	ENSG00000177301	ENST00000485317	Transcript	missense_variant	1035	361	121	E/K	Gaa/Aaa	.	.	.	-1	KCNA2	HGNC	6220	protein_coding	YES	CCDS827.1	ENSP00000433109	KCNA2_HUMAN	.	UPI00001279A1	.	deleterious(0.03)	probably_damaging(0.994)	3/3	.	Prints_domain:PR01496,Superfamily_domains:SSF54695,SMART_domains:SM00225,Pfam_domain:PF02214,Gene3D:3.30.710.10,hmmpanther:PTHR11537:SF23,hmmpanther:PTHR11537	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTTCTTCTC	.	4	BLCA
ATP5F1	0	.	GRCh37	1	111992469	111992469	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51G>A	p.%3D	p.L17L	ENST00000369722	2/7	66	44	21	158	158	0	ATP5F1,synonymous_variant,p.%3D,ENST00000369722,;ATP5F1,intron_variant,,ENST00000483994,;WDR77,upstream_gene_variant,,ENST00000449340,;WDR77,upstream_gene_variant,,ENST00000235090,;WDR77,upstream_gene_variant,,ENST00000411751,;Y_RNA,downstream_gene_variant,,ENST00000363020,;ATP5F1,non_coding_transcript_exon_variant,,ENST00000468818,;ATP5F1,non_coding_transcript_exon_variant,,ENST00000464154,;ATP5F1,non_coding_transcript_exon_variant,,ENST00000493119,;ATP5F1,non_coding_transcript_exon_variant,,ENST00000369721,;WDR77,upstream_gene_variant,,ENST00000497278,;WDR77,upstream_gene_variant,,ENST00000459665,;	A	ENSG00000116459	ENST00000369722	Transcript	synonymous_variant	657	51	17	L	ctG/ctA	.	.	.	1	ATP5F1	HGNC	840	protein_coding	YES	CCDS836.1	ENSP00000358737	AT5F1_HUMAN	Q08ET0_HUMAN	UPI0000126541	.	.	.	2/7	.	hmmpanther:PTHR12733,hmmpanther:PTHR12733:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTGAAGAA	.	5	BLCA
VANGL1	0	.	GRCh37	1	116233903	116233903	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1478A>G	p.Asn493Ser	p.N493S	ENST00000355485	8/8	41	29	11	97	97	0	VANGL1,missense_variant,p.Asn493Ser,ENST00000355485,;VANGL1,missense_variant,p.Asn493Ser,ENST00000369509,;VANGL1,missense_variant,p.Asn491Ser,ENST00000369510,;VANGL1,missense_variant,p.Asn493Ser,ENST00000310260,;	G	ENSG00000173218	ENST00000355485	Transcript	missense_variant	1749	1478	493	N/S	aAt/aGt	.	.	.	1	VANGL1	HGNC	15512	protein_coding	YES	CCDS883.1	ENSP00000347672	VANG1_HUMAN	.	UPI0000070B72	.	tolerated(0.69)	benign(0.061)	8/8	.	hmmpanther:PTHR20886,hmmpanther:PTHR20886:SF8,Pfam_domain:PF06638,PIRSF_domain:PIRSF007991	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCAATGTGA	.	5	BLCA
SPAG17	0	.	GRCh37	1	118609445	118609445	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2463C>T	p.%3D	p.V821V	ENST00000336338	18/49	58	49	8	90	90	0	SPAG17,synonymous_variant,p.%3D,ENST00000336338,;SPAG17,intron_variant,,ENST00000477444,;	A	ENSG00000155761	ENST00000336338	Transcript	synonymous_variant	2529	2463	821	V	gtC/gtT	.	.	.	-1	SPAG17	HGNC	26620	protein_coding	YES	CCDS899.1	ENSP00000337804	SPG17_HUMAN	A7LBF9_HUMAN	UPI00001601FD	.	.	.	18/49	.	hmmpanther:PTHR21963	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAAAGACTAA	.	5	BLCA
ITGA10	0	.	GRCh37	1	145539408	145539408	+	Missense_Mutation	SNP	C	C	G	rs374447173	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3077C>G	p.Pro1026Arg	p.P1026R	ENST00000369304	26/30	39	32	6	42	42	0	ITGA10,missense_variant,p.Pro895Arg,ENST00000538811,;ITGA10,missense_variant,p.Pro883Arg,ENST00000539363,;ITGA10,missense_variant,p.Pro1026Arg,ENST00000369304,;RP11-315I20.3,downstream_gene_variant,,ENST00000415065,;	G	ENSG00000143127	ENST00000369304	Transcript	missense_variant	3252	3077	1026	P/R	cCt/cGt	rs374447173	.	.	1	ITGA10	HGNC	6135	protein_coding	YES	CCDS918.1	ENSP00000358310	ITA10_HUMAN	.	UPI000013D8D1	.	deleterious(0.03)	possibly_damaging(0.795)	26/30	.	hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF26,Pfam_domain:PF08441,Superfamily_domains:SSF69179	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCACCTGTGC	byCluster|by1000G	5	BLCA
PRUNE	0	.	GRCh37	1	151001264	151001264	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.777C>T	p.%3D	p.A259A	ENST00000271620	7/8	158	149	9	108	108	0	PRUNE,synonymous_variant,p.%3D,ENST00000368936,;PRUNE,synonymous_variant,p.%3D,ENST00000450884,;PRUNE,synonymous_variant,p.%3D,ENST00000271620,;PRUNE,intron_variant,,ENST00000431193,;PRUNE,intron_variant,,ENST00000368934,;PRUNE,intron_variant,,ENST00000368935,;PRUNE,intron_variant,,ENST00000271619,;PRUNE,intron_variant,,ENST00000368937,;PRUNE,splice_region_variant,,ENST00000475722,;PRUNE,splice_region_variant,,ENST00000462440,;PRUNE,splice_region_variant,,ENST00000467771,;	T	ENSG00000143363	ENST00000271620	Transcript	synonymous_variant	933	777	259	A	gcC/gcT	.	.	.	1	PRUNE	HGNC	13420	protein_coding	YES	CCDS977.1	ENSP00000271620	PRUNE_HUMAN	Q5SZF2_HUMAN,B7ZB72_HUMAN	UPI000004BF0B	.	.	.	7/8	.	hmmpanther:PTHR21466,hmmpanther:PTHR21466:SF13,Pfam_domain:PF02833,Superfamily_domains:SSF64182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGCCTTTCT	.	2	BLCA
TCHH	0	.	GRCh37	1	152081600	152081600	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4093G>A	p.Glu1365Lys	p.E1365K	ENST00000368804	2/2	399	368	31	239	239	0	TCHH,missense_variant,p.Glu1365Lys,ENST00000368804,;	T	ENSG00000159450	ENST00000368804	Transcript	missense_variant	4093	4093	1365	E/K	Gag/Aag	.	.	.	-1	TCHH	HGNC	11791	protein_coding	YES	CCDS41396.1	ENSP00000357794	TRHY_HUMAN	Q5D861_HUMAN,A2RRS3_HUMAN	UPI0000458A5E	.	.	unknown(0)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTCTTCGC	.	2	BLCA
HRNR	0	.	GRCh37	1	152192623	152192623	+	Silent	SNP	G	G	A	rs77355406	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1482C>T	p.%3D	p.H494H	ENST00000368801	3/3	541	504	37	357	357	0	HRNR,synonymous_variant,p.%3D,ENST00000368801,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;	A	ENSG00000197915	ENST00000368801	Transcript	synonymous_variant	1558	1482	494	H	caC/caT	rs77355406,COSM3934092	.	.	-1	HRNR	HGNC	20846	protein_coding	YES	CCDS30859.1	ENSP00000357791	HORN_HUMAN	Q5W8V9_HUMAN	UPI00001D7CAD	.	.	.	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22571:SF23,hmmpanther:PTHR22571	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0005	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCCGTGTTG	byCluster|by1000G	2	BLCA
S100A6	0	.	GRCh37	1	153507130	153507130	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*42C>T	.	.	ENST00000368720	4/4	98	93	5	77	76	0	S100A6,3_prime_UTR_variant,,ENST00000368719,;S100A6,3_prime_UTR_variant,,ENST00000496817,;S100A6,3_prime_UTR_variant,,ENST00000368720,;S100A5,downstream_gene_variant,,ENST00000368717,;S100A5,downstream_gene_variant,,ENST00000368718,;S100A6,downstream_gene_variant,,ENST00000462776,;S100A5,downstream_gene_variant,,ENST00000359215,;BX470102.3,intron_variant,,ENST00000420695,;S100A6,downstream_gene_variant,,ENST00000462951,;	A	ENSG00000197956	ENST00000368720	Transcript	3_prime_UTR_variant	618	.	.	.	.	.	.	.	-1	S100A6	HGNC	10496	protein_coding	YES	CCDS1040.1	ENSP00000357709	S10A6_HUMAN	R4GN98_HUMAN	UPI000003417F	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCAGAGAGG	.	2	BLCA
ADAR	0	.	GRCh37	1	154562780	154562780	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2376G>C	p.Leu792Phe	p.L792F	ENST00000368474	7/15	66	58	8	61	61	0	ADAR,missense_variant,p.Leu835Phe,ENST00000292205,;ADAR,missense_variant,p.Leu787Phe,ENST00000529168,;ADAR,missense_variant,p.Leu497Phe,ENST00000368471,;ADAR,missense_variant,p.Leu792Phe,ENST00000368474,;ADAR,upstream_gene_variant,,ENST00000530954,;ADAR,upstream_gene_variant,,ENST00000534279,;ADAR,upstream_gene_variant,,ENST00000492630,;	G	ENSG00000160710	ENST00000368474	Transcript	missense_variant	2576	2376	792	L/F	ttG/ttC	.	.	.	-1	ADAR	HGNC	225	protein_coding	YES	CCDS1071.1	ENSP00000357459	DSRAD_HUMAN	.	UPI000045626B	.	deleterious(0)	probably_damaging(0.999)	7/15	.	PROSITE_profiles:PS50137,hmmpanther:PTHR10910,hmmpanther:PTHR10910:SF93,Pfam_domain:PF00035,Gene3D:3.30.160.20,SMART_domains:SM00358,Superfamily_domains:SSF54768	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAATCAAGAC	.	4	BLCA
RHBG	0	.	GRCh37	1	156339062	156339062	+	Missense_Mutation	SNP	G	G	A	rs763772705	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22G>A	p.Ala8Thr	p.A8T	ENST00000368249	1/10	76	72	4	89	89	0	RHBG,missense_variant,p.Ala8Thr,ENST00000368249,;RHBG,missense_variant,p.Ala8Thr,ENST00000537040,;RHBG,missense_variant,p.Ala8Thr,ENST00000368246,;RHBG,5_prime_UTR_variant,,ENST00000255013,;RHBG,5_prime_UTR_variant,,ENST00000451864,;RHBG,5_prime_UTR_variant,,ENST00000400992,;CCT3,upstream_gene_variant,,ENST00000446905,;CCT3,upstream_gene_variant,,ENST00000413555,;CCT3,upstream_gene_variant,,ENST00000463132,;RHBG,missense_variant,p.Ala8Thr,ENST00000446171,;RHBG,missense_variant,p.Ala8Thr,ENST00000544720,;RHBG,missense_variant,p.Ala8Thr,ENST00000368245,;RHBG,missense_variant,p.Ala8Thr,ENST00000368247,;RHBG,non_coding_transcript_exon_variant,,ENST00000467375,;RHBG,non_coding_transcript_exon_variant,,ENST00000466013,;	A	ENSG00000132677	ENST00000368249	Transcript	missense_variant	60	22	8	A/T	Gcc/Acc	rs763772705	.	.	1	RHBG	HGNC	14572	protein_coding	YES	.	ENSP00000357232	RHBG_HUMAN	.	UPI00001411E0	.	tolerated(0.1)	benign(0.001)	1/10	.	Cleavage_site_(Signalp):SignalP-TM,hmmpanther:PTHR11883,hmmpanther:PTHR11883:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCGCGCCGCG	byFrequency	2	BLCA
HAPLN2	0	.	GRCh37	1	156594414	156594414	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.578G>A	p.Trp193Ter	p.W193*	ENST00000255039	6/7	23	19	4	26	26	0	HAPLN2,stop_gained,p.Trp193Ter,ENST00000255039,;HAPLN2,downstream_gene_variant,,ENST00000456112,;HAPLN2,non_coding_transcript_exon_variant,,ENST00000494218,;HAPLN2,downstream_gene_variant,,ENST00000482204,;HAPLN2,downstream_gene_variant,,ENST00000487988,;	A	ENSG00000132702	ENST00000255039	Transcript	stop_gained	985	578	193	W/*	tGg/tAg	.	.	.	1	HAPLN2	HGNC	17410	protein_coding	YES	CCDS1148.1	ENSP00000255039	HPLN2_HUMAN	Q5T3J1_HUMAN,Q5T3J0_HUMAN	UPI00000012E0	.	.	.	6/7	.	PROSITE_profiles:PS50963,hmmpanther:PTHR22804:SF8,hmmpanther:PTHR22804,PROSITE_patterns:PS01241,Gene3D:3.10.100.10,Pfam_domain:PF00193,SMART_domains:SM00445,Superfamily_domains:SSF56436,Prints_domain:PR01265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTGGTGTA	.	5	BLCA
CRABP2	0	.	GRCh37	1	156670387	156670387	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313G>A	p.Gly105Ser	p.G105S	ENST00000368222	3/4	78	73	5	89	89	0	CRABP2,missense_variant,p.Gly105Ser,ENST00000368222,;CRABP2,missense_variant,p.Gly105Ser,ENST00000368221,;CRABP2,downstream_gene_variant,,ENST00000368220,;	T	ENSG00000143320	ENST00000368222	Transcript	missense_variant	468	313	105	G/S	Ggc/Agc	.	.	.	-1	CRABP2	HGNC	2339	protein_coding	YES	CCDS1152.1	ENSP00000357205	RABP2_HUMAN	Q5SYZ4_HUMAN	UPI00000362E0	.	deleterious(0.02)	possibly_damaging(0.571)	3/4	.	Superfamily_domains:SSF50814,Gene3D:2.40.128.20,Pfam_domain:PF00061,hmmpanther:PTHR11955:SF60,hmmpanther:PTHR11955	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGGCCCTCTC	.	2	BLCA
DDI2	0	.	GRCh37	1	15956926	15956926	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375A>G	p.Ile125Met	p.I125M	ENST00000480945	3/10	73	69	4	112	111	1	DDI2,missense_variant,p.Ile125Met,ENST00000480945,;DDI2,missense_variant,p.Ile3Met,ENST00000483899,;DDI2,missense_variant,p.Ile10Met,ENST00000320153,;DDI2,non_coding_transcript_exon_variant,,ENST00000486680,;DDI2,downstream_gene_variant,,ENST00000546927,;	G	ENSG00000197312	ENST00000480945	Transcript	missense_variant	546	375	125	I/M	atA/atG	.	.	.	1	DDI2	HGNC	24578	protein_coding	YES	CCDS30607.1	ENSP00000417748	DDI2_HUMAN	.	UPI0000470AD7	.	tolerated(0.11)	benign(0.002)	3/10	.	hmmpanther:PTHR12917:SF13,hmmpanther:PTHR12917	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAATAACTTC	.	2	BLCA
KCNJ9	0	.	GRCh37	1	160054063	160054063	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243G>A	p.%3D	p.L81L	ENST00000368088	2/3	25	22	3	27	27	0	KCNJ9,synonymous_variant,p.%3D,ENST00000368088,;RP11-536C5.2,downstream_gene_variant,,ENST00000435580,;	A	ENSG00000162728	ENST00000368088	Transcript	synonymous_variant	485	243	81	L	ctG/ctA	.	.	.	1	KCNJ9	HGNC	6270	protein_coding	YES	CCDS1194.1	ENSP00000357067	IRK9_HUMAN	.	UPI000013E1B3	.	.	.	2/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11767:SF17,hmmpanther:PTHR11767,Gene3D:1.10.287.70,Pfam_domain:PF01007,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81324,Prints_domain:PR01320	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCTGATCGC	.	2	BLCA
SPEN	0	.	GRCh37	1	16266004	16266004	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*82G>A	.	.	ENST00000375759	15/15	40	37	3	61	61	0	SPEN,3_prime_UTR_variant,,ENST00000375759,;ZBTB17,downstream_gene_variant,,ENST00000444358,;ZBTB17,downstream_gene_variant,,ENST00000375743,;ZBTB17,downstream_gene_variant,,ENST00000375733,;ZBTB17,downstream_gene_variant,,ENST00000537142,;ZBTB17,downstream_gene_variant,,ENST00000448462,;ZBTB17,downstream_gene_variant,,ENST00000440560,;SPEN,non_coding_transcript_exon_variant,,ENST00000487496,;ZBTB17,downstream_gene_variant,,ENST00000462525,;ZBTB17,downstream_gene_variant,,ENST00000474511,;ZBTB17,downstream_gene_variant,,ENST00000488008,;ZBTB17,downstream_gene_variant,,ENST00000492834,;ZBTB17,downstream_gene_variant,,ENST00000472658,;ZBTB17,downstream_gene_variant,,ENST00000471805,;ZBTB17,downstream_gene_variant,,ENST00000487785,;	A	ENSG00000065526	ENST00000375759	Transcript	3_prime_UTR_variant	11281	.	.	.	.	.	.	.	1	SPEN	HGNC	17575	protein_coding	YES	CCDS164.1	ENSP00000364912	MINT_HUMAN	.	UPI000006FF0C	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAAGAAGCT	.	2	BLCA
PRDX6	0	.	GRCh37	1	173455477	173455477	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483C>T	p.%3D	p.L161L	ENST00000340385	4/5	127	120	7	184	184	0	PRDX6,synonymous_variant,p.%3D,ENST00000340385,;PRDX6,non_coding_transcript_exon_variant,,ENST00000470017,;PRDX6,downstream_gene_variant,,ENST00000460950,;	T	ENSG00000117592	ENST00000340385	Transcript	synonymous_variant	615	483	161	L	ctC/ctT	.	.	.	1	PRDX6	HGNC	16753	protein_coding	YES	CCDS1307.1	ENSP00000342026	PRDX6_HUMAN	.	UPI0000001C4B	.	.	.	4/5	.	PROSITE_profiles:PS51352,hmmpanther:PTHR10681,hmmpanther:PTHR10681:SF77,Gene3D:3.40.30.10,PIRSF_domain:PIRSF000239,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTCAGGGT	.	2	BLCA
ANKRD45	0	.	GRCh37	1	173628300	173628300	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.258G>A	p.Met86Ile	p.M86I	ENST00000333279	2/6	90	85	5	159	159	0	ANKRD45,missense_variant,p.Met86Ile,ENST00000333279,;snoU13,downstream_gene_variant,,ENST00000459202,;ANKRD45,non_coding_transcript_exon_variant,,ENST00000367712,;	T	ENSG00000183831	ENST00000333279	Transcript	missense_variant	319	258	86	M/I	atG/atA	.	.	.	-1	ANKRD45	HGNC	24786	protein_coding	YES	CCDS1309.1	ENSP00000331268	ANR45_HUMAN	.	UPI000019851A	.	tolerated(0.19)	benign(0.173)	2/6	.	Superfamily_domains:SSF48403,SMART_domains:SM00248,Gene3D:1.25.40.20,Pfam_domain:PF12796,hmmpanther:PTHR24180:SF12,hmmpanther:PTHR24180,PROSITE_profiles:PS50088,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGCCATGCA	.	2	BLCA
NPHS2	0	.	GRCh37	1	179520532	179520532	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.928G>C	p.Glu310Gln	p.E310Q	ENST00000367615	8/8	47	44	3	46	46	0	NPHS2,missense_variant,p.Glu242Gln,ENST00000367616,;NPHS2,missense_variant,p.Glu310Gln,ENST00000367615,;AXDND1,intron_variant,,ENST00000434088,;AXDND1,intron_variant,,ENST00000367618,;RP11-545A16.1,upstream_gene_variant,,ENST00000569644,;AXDND1,non_coding_transcript_exon_variant,,ENST00000489080,;AXDND1,intron_variant,,ENST00000484455,;AXDND1,intron_variant,,ENST00000484883,;AXDND1,intron_variant,,ENST00000511157,;	G	ENSG00000116218	ENST00000367615	Transcript	missense_variant	997	928	310	E/Q	Gag/Cag	.	.	.	-1	NPHS2	HGNC	13394	protein_coding	YES	CCDS1331.1	ENSP00000356587	PODO_HUMAN	.	UPI000003F549	.	tolerated(0.05)	probably_damaging(0.972)	8/8	.	Prints_domain:PR00721,hmmpanther:PTHR10264,hmmpanther:PTHR10264:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCTCAGCTG	.	2	BLCA
HMCN1	0	.	GRCh37	1	185880860	185880860	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.848C>T	p.Ser283Phe	p.S283F	ENST00000271588	6/107	114	93	21	131	131	0	HMCN1,missense_variant,p.Ser283Phe,ENST00000367492,;HMCN1,missense_variant,p.Ser283Phe,ENST00000271588,;	T	ENSG00000143341	ENST00000271588	Transcript	missense_variant	1077	848	283	S/F	tCt/tTt	.	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	probably_damaging(0.962)	6/107	.	hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACTCTGCCA	.	5	BLCA
SYT2	0	.	GRCh37	1	202565968	202565968	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1177G>A	p.Ala393Thr	p.A393T	ENST00000367267	9/9	51	42	9	68	67	0	SYT2,missense_variant,p.Ala393Thr,ENST00000367267,;SYT2,missense_variant,p.Ala393Thr,ENST00000367268,;PPP1R12B,downstream_gene_variant,,ENST00000608999,;	T	ENSG00000143858	ENST00000367267	Transcript	missense_variant	1370	1177	393	A/T	Gcc/Acc	.	.	.	-1	SYT2	HGNC	11510	protein_coding	YES	CCDS1427.1	ENSP00000356236	SYT2_HUMAN	.	UPI000006E8FC	.	deleterious(0)	possibly_damaging(0.717)	9/9	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,hmmpanther:PTHR10024:SF208,hmmpanther:PTHR10024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGGCCAGCA	.	5	BLCA
PLEKHA6	0	.	GRCh37	1	204234079	204234079	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372C>A	p.His124Gln	p.H124Q	ENST00000272203	6/23	174	131	43	208	208	0	PLEKHA6,missense_variant,p.His124Gln,ENST00000414478,;PLEKHA6,missense_variant,p.His124Gln,ENST00000272203,;PLEKHA6,upstream_gene_variant,,ENST00000485632,;	T	ENSG00000143850	ENST00000272203	Transcript	missense_variant	689	372	124	H/Q	caC/caA	.	.	.	-1	PLEKHA6	HGNC	17053	protein_coding	YES	CCDS1444.1	ENSP00000272203	PKHA6_HUMAN	.	UPI000013D935	.	deleterious(0.03)	benign(0.281)	6/23	.	PROSITE_profiles:PS50003,hmmpanther:PTHR12752:SF5,hmmpanther:PTHR12752,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACGTGTGTTT	.	5	BLCA
USP48	0	.	GRCh37	1	22055186	22055186	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327G>T	p.Asp443Tyr	p.D443Y	ENST00000308271	11/27	61	57	4	79	79	0	USP48,missense_variant,p.Asp65Tyr,ENST00000534705,;USP48,missense_variant,p.Asp29Tyr,ENST00000526044,;USP48,missense_variant,p.Asp443Tyr,ENST00000308271,;USP48,missense_variant,p.Asp443Tyr,ENST00000421625,;USP48,missense_variant,p.Asp442Tyr,ENST00000529637,;USP48,missense_variant,p.Asp443Tyr,ENST00000400301,;USP48,upstream_gene_variant,,ENST00000374732,;USP48,upstream_gene_variant,,ENST00000487880,;USP48,3_prime_UTR_variant,,ENST00000374730,;	A	ENSG00000090686	ENST00000308271	Transcript	missense_variant	1976	1327	443	D/Y	Gat/Tat	.	.	.	-1	USP48	HGNC	18533	protein_coding	YES	CCDS30623.1	ENSP00000309262	UBP48_HUMAN	E9PRY5_HUMAN,E9PJH5_HUMAN,E9PJ87_HUMAN	UPI0000192195	.	deleterious(0)	benign(0.358)	11/27	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF100	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTATCCCGAT	.	2	BLCA
EPHX1	0	.	GRCh37	1	226032876	226032876	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1196C>G	p.Ser399Cys	p.S399C	ENST00000366837	9/9	150	142	8	196	196	0	EPHX1,missense_variant,p.Ser399Cys,ENST00000366837,;EPHX1,missense_variant,p.Ser399Cys,ENST00000272167,;TMEM63A,downstream_gene_variant,,ENST00000366835,;RP11-285F7.2,intron_variant,,ENST00000424332,;TMEM63A,downstream_gene_variant,,ENST00000496025,;TMEM63A,downstream_gene_variant,,ENST00000482753,;	G	ENSG00000143819	ENST00000366837	Transcript	missense_variant	1392	1196	399	S/C	tCt/tGt	.	.	.	1	EPHX1	HGNC	3401	protein_coding	YES	CCDS1547.1	ENSP00000355802	HYEP_HUMAN	R4SBI6_HUMAN,B1AQP9_HUMAN,B1AQP8_HUMAN	UPI000012CFF2	.	deleterious(0)	benign(0.008)	9/9	.	hmmpanther:PTHR21661,hmmpanther:PTHR21661:SF10,Gene3D:3.40.50.1820,PIRSF_domain:PIRSF001112,Superfamily_domains:SSF53474,Prints_domain:PR00412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCTCTGCCT	.	2	BLCA
OR14K1	0	.	GRCh37	1	247902063	247902063	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147G>T	p.%3D	p.L49L	ENST00000283225	1/1	80	76	4	75	75	0	OR14K1,synonymous_variant,p.%3D,ENST00000283225,;RP11-634B7.4,intron_variant,,ENST00000449298,;	T	ENSG00000153230	ENST00000283225	Transcript	synonymous_variant	147	147	49	L	ctG/ctT	.	.	.	1	OR14K1	HGNC	15025	protein_coding	YES	.	ENSP00000283225	O14K1_HUMAN	.	UPI0000041CBA	.	.	.	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF242,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTGGACCA	.	2	BLCA
OR2T34	0	.	GRCh37	1	248737861	248737861	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198C>T	p.%3D	p.F66F	ENST00000328782	1/1	33	29	4	36	36	0	OR2T34,synonymous_variant,p.%3D,ENST00000328782,;	A	ENSG00000183310	ENST00000328782	Transcript	synonymous_variant	220	198	66	F	ttC/ttT	.	.	.	-1	OR2T34	HGNC	31256	protein_coding	YES	CCDS31120.1	ENSP00000330904	O2T34_HUMAN	.	UPI0000061ED4	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF4,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	ATGAAGAAGTA	.	2	BLCA
RPS6KA1	0	.	GRCh37	1	26879984	26879984	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>A	p.Glu200Lys	p.E200K	ENST00000531382	6/21	76	70	6	102	102	0	RPS6KA1,missense_variant,p.Glu99Lys,ENST00000529454,;RPS6KA1,missense_variant,p.Glu191Lys,ENST00000374168,;RPS6KA1,missense_variant,p.Glu191Lys,ENST00000374166,;RPS6KA1,missense_variant,p.Glu99Lys,ENST00000526792,;RPS6KA1,missense_variant,p.Glu175Lys,ENST00000530003,;RPS6KA1,missense_variant,p.Glu99Lys,ENST00000374162,;RPS6KA1,missense_variant,p.Glu200Lys,ENST00000531382,;RPS6KA1,upstream_gene_variant,,ENST00000403732,;MIR1976,upstream_gene_variant,,ENST00000459548,;RPS6KA1,upstream_gene_variant,,ENST00000488985,;RPS6KA1,3_prime_UTR_variant,,ENST00000374163,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000531113,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000527264,;RPS6KA1,non_coding_transcript_exon_variant,,ENST00000474934,;RPS6KA1,downstream_gene_variant,,ENST00000524436,;RPS6KA1,downstream_gene_variant,,ENST00000526040,;RPS6KA1,downstream_gene_variant,,ENST00000530607,;RPS6KA1,downstream_gene_variant,,ENST00000366866,;	A	ENSG00000117676	ENST00000531382	Transcript	missense_variant	647	598	200	E/K	Gag/Aag	.	.	.	1	RPS6KA1	HGNC	10430	protein_coding	YES	CCDS30649.1	ENSP00000435412	KS6A1_HUMAN	E9PMM7_HUMAN	UPI000046D37A	.	deleterious(0)	probably_damaging(0.953)	6/21	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24351:SF43,hmmpanther:PTHR24351,PROSITE_patterns:PS00108,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,PIRSF_domain:PIRSF000606,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTGAGAAG	.	2	BLCA
EIF3I	0	.	GRCh37	1	32692075	32692075	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.472G>A	p.Gly158Arg	p.G158R	ENST00000373586	6/11	143	126	17	237	237	0	EIF3I,missense_variant,p.Gly158Arg,ENST00000373586,;EIF3I,downstream_gene_variant,,ENST00000355082,;TMEM234,upstream_gene_variant,,ENST00000344461,;TMEM234,upstream_gene_variant,,ENST00000309777,;TMEM234,upstream_gene_variant,,ENST00000545122,;TMEM234,upstream_gene_variant,,ENST00000373593,;EIF3I,non_coding_transcript_exon_variant,,ENST00000471486,;EIF3I,non_coding_transcript_exon_variant,,ENST00000483517,;EIF3I,intron_variant,,ENST00000474371,;EIF3I,downstream_gene_variant,,ENST00000489353,;TMEM234,upstream_gene_variant,,ENST00000491434,;TMEM234,upstream_gene_variant,,ENST00000487174,;TMEM234,upstream_gene_variant,,ENST00000489170,;TMEM234,upstream_gene_variant,,ENST00000484490,;TMEM234,upstream_gene_variant,,ENST00000461402,;TMEM234,upstream_gene_variant,,ENST00000483001,;	A	ENSG00000084623	ENST00000373586	Transcript	missense_variant	544	472	158	G/R	Ggg/Agg	.	.	.	1	EIF3I	HGNC	3272	protein_coding	YES	CCDS357.1	ENSP00000362688	EIF3I_HUMAN	Q9P1D9_HUMAN,Q5U0F4_HUMAN,Q5TFK1_HUMAN	UPI000012D2FB	.	tolerated(0.07)	benign(0.003)	6/11	.	PROSITE_profiles:PS50294,HAMAP:MF_03008,hmmpanther:PTHR19877,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTGGGGGAG	.	4	BLCA
SMIM12	0	.	GRCh37	1	35321002	35321002	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*298C>T	.	.	ENST00000521580	2/2	48	45	3	56	56	0	SMIM12,3_prime_UTR_variant,,ENST00000456842,;SMIM12,3_prime_UTR_variant,,ENST00000423898,;SMIM12,3_prime_UTR_variant,,ENST00000521580,;SMIM12,3_prime_UTR_variant,,ENST00000446026,;SMIM12,downstream_gene_variant,,ENST00000417239,;RP5-997D16.2,downstream_gene_variant,,ENST00000429293,;SMIM12,intron_variant,,ENST00000426886,;	A	ENSG00000163866	ENST00000521580	Transcript	3_prime_UTR_variant	722	.	.	.	.	.	.	.	-1	SMIM12	HGNC	25154	protein_coding	YES	CCDS53295.1	ENSP00000428585	SIM12_HUMAN	L0R6D7_HUMAN	UPI0000039F00	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACAGAGATT	.	2	BLCA
WRAP73	0	.	GRCh37	1	3547564	3547564	+	Missense_Mutation	SNP	C	C	A	rs758148303	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1358G>T	p.Cys453Phe	p.C453F	ENST00000270708	12/12	60	46	14	84	84	0	WRAP73,missense_variant,p.Cys453Phe,ENST00000270708,;WRAP73,3_prime_UTR_variant,,ENST00000378322,;TPRG1L,downstream_gene_variant,,ENST00000378344,;WRAP73,downstream_gene_variant,,ENST00000419924,;WRAP73,downstream_gene_variant,,ENST00000465916,;TPRG1L,downstream_gene_variant,,ENST00000344579,;WRAP73,downstream_gene_variant,,ENST00000424367,;WRAP73,downstream_gene_variant,,ENST00000471223,;WRAP73,downstream_gene_variant,,ENST00000469643,;WRAP73,downstream_gene_variant,,ENST00000494884,;WRAP73,downstream_gene_variant,,ENST00000497940,;	A	ENSG00000116213	ENST00000270708	Transcript	missense_variant	1432	1358	453	C/F	tGc/tTc	rs758148303	.	.	-1	WRAP73	HGNC	12759	protein_coding	YES	CCDS48.1	ENSP00000270708	WRP73_HUMAN	J3KTP2_HUMAN	UPI0000138EDF	.	tolerated_low_confidence(0.78)	benign(0)	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTGCAGGCT	byFrequency	5	BLCA
PPCS	0	.	GRCh37	1	42922574	42922574	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338C>T	p.Ser113Leu	p.S113L	ENST00000372561	1/3	82	75	7	117	117	0	PPCS,missense_variant,p.Ser113Leu,ENST00000372561,;PPCS,missense_variant,p.Ser113Leu,ENST00000372560,;PPCS,intron_variant,,ENST00000455780,;PPCS,intron_variant,,ENST00000372562,;PPCS,intron_variant,,ENST00000372556,;ZMYND12,upstream_gene_variant,,ENST00000372565,;ZMYND12,upstream_gene_variant,,ENST00000433602,;PPCS,non_coding_transcript_exon_variant,,ENST00000471420,;PPCS,non_coding_transcript_exon_variant,,ENST00000472013,;ZMYND12,upstream_gene_variant,,ENST00000461083,;PPCS,upstream_gene_variant,,ENST00000482168,;PPCS,upstream_gene_variant,,ENST00000469615,;	T	ENSG00000127125	ENST00000372561	Transcript	missense_variant	345	338	113	S/L	tCg/tTg	COSM2169830,COSM2169831	.	.	1	PPCS	HGNC	25686	protein_coding	YES	CCDS41311.1	ENSP00000361642	PPCS_HUMAN	.	UPI000035B21F	.	tolerated(0.18)	benign(0.003)	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12290:SF2,hmmpanther:PTHR12290,Gene3D:3.40.50.10300,Superfamily_domains:SSF102645	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTTTCGGGCT	.	3	BLCA
WDR65	0	.	GRCh37	1	43672506	43672506	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1658A>C	p.Lys553Thr	p.K553T	ENST00000528956	10/11	82	75	7	123	122	1	WDR65,missense_variant,p.Lys553Thr,ENST00000528956,;WDR65,missense_variant,p.Lys553Thr,ENST00000372492,;EBNA1BP2,intron_variant,,ENST00000461557,;EBNA1BP2,intron_variant,,ENST00000474566,;EBNA1BP2,intron_variant,,ENST00000466927,;WDR65,3_prime_UTR_variant,,ENST00000533339,;	C	ENSG00000243710	ENST00000528956	Transcript	missense_variant	1804	1658	553	K/T	aAg/aCg	.	.	.	1	WDR65	HGNC	26485	protein_coding	YES	CCDS479.1	ENSP00000435310	WDR65_HUMAN	E9PRV3_HUMAN	UPI000013E331	.	deleterious(0.02)	possibly_damaging(0.754)	10/11	.	hmmpanther:PTHR32215,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCAAGTCTT	.	2	BLCA
KTI12	0	.	GRCh37	1	52498480	52498480	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954G>A	p.%3D	p.L318L	ENST00000371614	1/1	71	65	5	86	86	0	KTI12,synonymous_variant,p.%3D,ENST00000371614,;TXNDC12,intron_variant,,ENST00000371626,;TXNDC12,downstream_gene_variant,,ENST00000610127,;RP11-91A18.4,upstream_gene_variant,,ENST00000425802,;TXNDC12,intron_variant,,ENST00000472624,;	T	ENSG00000198841	ENST00000371614	Transcript	synonymous_variant	1009	954	318	L	ctG/ctA	.	.	.	-1	KTI12	HGNC	25160	protein_coding	YES	CCDS562.1	ENSP00000360676	KTI12_HUMAN	.	UPI000007168B	.	.	.	1/1	.	hmmpanther:PTHR12435,hmmpanther:PTHR12435:SF1,Pfam_domain:PF08433	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGACTCAGTTC	.	3	BLCA
SLC1A7	0	.	GRCh37	1	53558461	53558461	+	Splice_Site	SNP	T	T	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798-2A>C	.	p.X266_splice	ENST00000371494	.	44	41	3	52	52	0	SLC1A7,splice_acceptor_variant,,ENST00000371494,;SLC1A7,upstream_gene_variant,,ENST00000488036,;	G	ENSG00000162383	ENST00000371494	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	SLC1A7	HGNC	10945	protein_coding	YES	CCDS574.1	ENSP00000360549	EAA5_HUMAN	F1T0D2_HUMAN	UPI000013DED8	.	.	.	.	6/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATACCTGGGGG	.	2	BLCA
SGIP1	0	.	GRCh37	1	67101697	67101697	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170C>A	p.Ser57Ter	p.S57*	ENST00000371037	4/25	19	16	3	50	50	0	SGIP1,stop_gained,p.Ser57Ter,ENST00000424320,;SGIP1,stop_gained,p.Ser57Ter,ENST00000371037,;SGIP1,intron_variant,,ENST00000237247,;SGIP1,intron_variant,,ENST00000371039,;SGIP1,intron_variant,,ENST00000371036,;SGIP1,intron_variant,,ENST00000371035,;SGIP1,splice_region_variant,,ENST00000483060,;SGIP1,intron_variant,,ENST00000468286,;	A	ENSG00000118473	ENST00000371037	Transcript	stop_gained	247	170	57	S/*	tCg/tAg	.	.	.	1	SGIP1	HGNC	25412	protein_coding	YES	CCDS30744.1	ENSP00000360076	SGIP1_HUMAN	.	UPI000045891B	.	.	.	4/25	.	hmmpanther:PTHR23065:SF5,hmmpanther:PTHR23065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTTTCGGTAA	.	2	BLCA
RABGGTB	0	.	GRCh37	1	76254912	76254912	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180G>A	p.Met60Ile	p.M60I	ENST00000319942	3/9	70	63	7	119	119	0	RABGGTB,missense_variant,p.Met60Ile,ENST00000370826,;RABGGTB,missense_variant,p.Met60Ile,ENST00000319942,;RABGGTB,5_prime_UTR_variant,,ENST00000535300,;SNORD45B,upstream_gene_variant,,ENST00000364617,;SNORD45A,downstream_gene_variant,,ENST00000384512,;SNORD45C,downstream_gene_variant,,ENST00000383893,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000470201,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000462042,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000496055,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000461653,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000473406,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000491266,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000489450,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000471759,;RABGGTB,intron_variant,,ENST00000485459,;RABGGTB,upstream_gene_variant,,ENST00000459697,;RABGGTB,upstream_gene_variant,,ENST00000467748,;RABGGTB,downstream_gene_variant,,ENST00000497648,;ACADM,downstream_gene_variant,,ENST00000528016,;	A	ENSG00000137955	ENST00000319942	Transcript	missense_variant	251	180	60	M/I	atG/atA	.	.	.	1	RABGGTB	HGNC	9796	protein_coding	YES	CCDS669.1	ENSP00000317473	PGTB2_HUMAN	Q6IB63_HUMAN,D3DQ78_HUMAN	UPI0000131891	.	tolerated(0.09)	benign(0.013)	3/9	.	hmmpanther:PTHR11774,hmmpanther:PTHR11774:SF9,Gene3D:1.50.10.20,Superfamily_domains:SSF48239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCATGGGACA	.	4	BLCA
RABGGTB	0	.	GRCh37	1	76255006	76255006	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>C	p.Asp92His	p.D92H	ENST00000319942	3/9	63	58	5	110	110	0	RABGGTB,missense_variant,p.Asp92His,ENST00000370826,;RABGGTB,missense_variant,p.Asp92His,ENST00000319942,;RABGGTB,5_prime_UTR_variant,,ENST00000535300,;SNORD45B,upstream_gene_variant,,ENST00000364617,;SNORD45A,downstream_gene_variant,,ENST00000384512,;SNORD45C,downstream_gene_variant,,ENST00000383893,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000470201,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000462042,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000496055,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000461653,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000473406,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000491266,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000489450,;RABGGTB,non_coding_transcript_exon_variant,,ENST00000471759,;RABGGTB,intron_variant,,ENST00000485459,;RABGGTB,upstream_gene_variant,,ENST00000459697,;RABGGTB,upstream_gene_variant,,ENST00000467748,;RABGGTB,downstream_gene_variant,,ENST00000497648,;ACADM,downstream_gene_variant,,ENST00000528016,;	C	ENSG00000137955	ENST00000319942	Transcript	missense_variant	345	274	92	D/H	Gat/Cat	.	.	.	1	RABGGTB	HGNC	9796	protein_coding	YES	CCDS669.1	ENSP00000317473	PGTB2_HUMAN	Q6IB63_HUMAN,D3DQ78_HUMAN	UPI0000131891	.	deleterious(0)	probably_damaging(1)	3/9	.	hmmpanther:PTHR11774,hmmpanther:PTHR11774:SF9,Gene3D:1.50.10.20,Pfam_domain:PF13249,Superfamily_domains:SSF48239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACATGATCCT	.	3	BLCA
PARK7	0	.	GRCh37	1	8022891	8022891	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46G>A	p.Glu16Lys	p.E16K	ENST00000493678	2/7	32	28	4	66	66	0	PARK7,missense_variant,p.Glu16Lys,ENST00000377493,;PARK7,missense_variant,p.Glu16Lys,ENST00000377488,;PARK7,missense_variant,p.Glu16Lys,ENST00000493678,;PARK7,missense_variant,p.Glu16Lys,ENST00000493373,;PARK7,missense_variant,p.Glu16Lys,ENST00000338639,;PARK7,missense_variant,p.Glu16Lys,ENST00000377491,;PARK7,upstream_gene_variant,,ENST00000469225,;PARK7,non_coding_transcript_exon_variant,,ENST00000497113,;PARK7,non_coding_transcript_exon_variant,,ENST00000465354,;PARK7,non_coding_transcript_exon_variant,,ENST00000460192,;	A	ENSG00000116288	ENST00000493678	Transcript	missense_variant	113	46	16	E/K	Gaa/Aaa	.	.	.	1	PARK7	HGNC	16369	protein_coding	YES	CCDS93.1	ENSP00000418770	PARK7_HUMAN	.	UPI0000072F6F	.	deleterious(0)	probably_damaging(0.988)	2/7	.	hmmpanther:PTHR11019,hmmpanther:PTHR11019:SF4,TIGRFAM_domain:TIGR01383,Gene3D:3.40.50.880,Superfamily_domains:SSF52317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGAGGAAATG	.	4	BLCA
SEC23B	0	.	GRCh37	20	18516375	18516375	+	Missense_Mutation	SNP	G	G	A	rs745421570	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1393G>A	p.Val465Ile	p.V465I	ENST00000336714	12/20	32	25	6	49	49	0	SEC23B,missense_variant,p.Val465Ile,ENST00000377475,;SEC23B,missense_variant,p.Val465Ile,ENST00000377465,;SEC23B,missense_variant,p.Val465Ile,ENST00000336714,;SEC23B,missense_variant,p.Val465Ile,ENST00000262544,;	A	ENSG00000101310	ENST00000336714	Transcript	missense_variant	1825	1393	465	V/I	Gtt/Att	rs745421570	.	.	1	SEC23B	HGNC	10702	protein_coding	YES	CCDS13137.1	ENSP00000338844	SC23B_HUMAN	Q5QPE2_HUMAN,B4DS04_HUMAN	UPI0000135455	.	tolerated(0.69)	benign(0.06)	12/20	.	hmmpanther:PTHR11141:SF3,hmmpanther:PTHR11141,Pfam_domain:PF08033,Gene3D:2nutA01,Superfamily_domains:SSF81995	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGTTGTC	.	5	BLCA
ZNF337	0	.	GRCh37	20	25666735	25666735	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51C>T	p.%3D	p.V17V	ENST00000376436	2/4	94	88	6	134	134	0	ZNF337,synonymous_variant,p.%3D,ENST00000538750,;ZNF337,synonymous_variant,p.%3D,ENST00000252979,;ZNF337,synonymous_variant,p.%3D,ENST00000376436,;ZNF337,non_coding_transcript_exon_variant,,ENST00000481610,;	A	ENSG00000130684	ENST00000376436	Transcript	synonymous_variant	591	51	17	V	gtC/gtT	.	.	.	-1	ZNF337	HGNC	15809	protein_coding	YES	CCDS13174.1	ENSP00000365619	ZN337_HUMAN	B3KPK8_HUMAN	UPI000013C35E	.	.	.	2/4	.	Superfamily_domains:0044637,SMART_domains:SM00349,Pfam_domain:PF01352,hmmpanther:PTHR24381:SF22,hmmpanther:PTHR24381,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGTGACATC	.	2	BLCA
PIGU	0	.	GRCh37	20	33225730	33225730	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378C>T	p.%3D	p.L126L	ENST00000217446	5/12	65	57	7	111	110	0	PIGU,synonymous_variant,p.%3D,ENST00000374820,;PIGU,synonymous_variant,p.%3D,ENST00000452740,;PIGU,synonymous_variant,p.%3D,ENST00000217446,;PIGU,upstream_gene_variant,,ENST00000480175,;	A	ENSG00000101464	ENST00000217446	Transcript	synonymous_variant	378	378	126	L	ctC/ctT	.	.	.	-1	PIGU	HGNC	15791	protein_coding	YES	CCDS13239.1	ENSP00000217446	PIGU_HUMAN	.	UPI0000131ABC	.	.	.	5/12	.	hmmpanther:PTHR13121,Pfam_domain:PF06728	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGGATGAGTTC	.	4	BLCA
DSN1	0	.	GRCh37	20	35384168	35384168	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790C>G	p.Gln264Glu	p.Q264E	ENST00000426836	9/11	74	69	5	106	106	0	DSN1,missense_variant,p.Gln264Glu,ENST00000373745,;DSN1,missense_variant,p.Gln157Glu,ENST00000373734,;DSN1,missense_variant,p.Gln248Glu,ENST00000448110,;DSN1,missense_variant,p.Gln192Glu,ENST00000373740,;DSN1,missense_variant,p.Gln264Glu,ENST00000426836,;DSN1,missense_variant,p.Gln264Glu,ENST00000373750,;DSN1,downstream_gene_variant,,ENST00000447406,;DSN1,downstream_gene_variant,,ENST00000438549,;DSN1,non_coding_transcript_exon_variant,,ENST00000473615,;DSN1,downstream_gene_variant,,ENST00000492703,;DSN1,non_coding_transcript_exon_variant,,ENST00000480153,;	C	ENSG00000149636	ENST00000426836	Transcript	missense_variant	1163	790	264	Q/E	Cag/Gag	.	.	.	-1	DSN1	HGNC	16165	protein_coding	YES	CCDS13286.1	ENSP00000389810	DSN1_HUMAN	Q5JW58_HUMAN,Q5JW57_HUMAN,Q5JW53_HUMAN	UPI0000128621	.	deleterious(0.03)	probably_damaging(0.998)	9/11	.	hmmpanther:PTHR14778,Pfam_domain:PF08202	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTGAGAAG	.	2	BLCA
MROH8	0	.	GRCh37	20	35743657	35743657	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2534G>A	p.%3D	p.Q845Q	ENST00000343811	18/24	178	164	14	185	184	1	MROH8,synonymous_variant,p.%3D,ENST00000343811,;MROH8,synonymous_variant,p.%3D,ENST00000217333,;MROH8,synonymous_variant,p.%3D,ENST00000441008,;MROH8,synonymous_variant,p.%3D,ENST00000400441,;MROH8,synonymous_variant,p.%3D,ENST00000417458,;	T	ENSG00000101353	ENST00000343811	Transcript	synonymous_variant	2534	2535	845	Q	caG/caA	.	.	.	-1	MROH8	HGNC	16125	protein_coding	YES	.	ENSP00000339971	.	Q5JYR0_HUMAN,Q5JYQ9_HUMAN	UPI0000E5A31D	.	.	.	18/24	.	hmmpanther:PTHR23120:SF4,hmmpanther:PTHR23120,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGTATCTGGAT	.	3	BLCA
SMOX	0	.	GRCh37	20	4162457	4162457	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443A>T	p.Asn148Ile	p.N148I	ENST00000305958	4/7	81	76	4	105	105	0	SMOX,missense_variant,p.Asn148Ile,ENST00000305958,;SMOX,missense_variant,p.Asn148Ile,ENST00000339123,;SMOX,missense_variant,p.Asn5Ile,ENST00000457205,;SMOX,missense_variant,p.Asn148Ile,ENST00000278795,;SMOX,missense_variant,p.Asn148Ile,ENST00000379460,;SMOX,intron_variant,,ENST00000346595,;SMOX,non_coding_transcript_exon_variant,,ENST00000484515,;SMOX,upstream_gene_variant,,ENST00000466004,;SMOX,upstream_gene_variant,,ENST00000486998,;SMOX,upstream_gene_variant,,ENST00000494098,;	T	ENSG00000088826	ENST00000305958	Transcript	missense_variant	668	443	148	N/I	aAc/aTc	.	.	.	1	SMOX	HGNC	15862	protein_coding	YES	CCDS13075.1	ENSP00000307252	SMOX_HUMAN	.	UPI000006CE86	.	deleterious(0)	possibly_damaging(0.732)	4/7	.	hmmpanther:PTHR10742,hmmpanther:PTHR10742:SF44,Pfam_domain:PF01593,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTATAACTTGA	.	2	BLCA
SRSF6	0	.	GRCh37	20	42087020	42087020	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.127G>C	p.Glu43Gln	p.E43Q	ENST00000244020	2/6	23	16	6	16	16	0	SRSF6,missense_variant,p.Glu43Gln,ENST00000244020,;SRSF6,missense_variant,p.Glu43Gln,ENST00000483871,;	C	ENSG00000124193	ENST00000244020	Transcript	missense_variant	233	127	43	E/Q	Gag/Cag	.	.	.	1	SRSF6	HGNC	10788	protein_coding	YES	CCDS13318.1	ENSP00000244020	SRSF6_HUMAN	.	UPI00001358C1	.	deleterious(0.03)	probably_damaging(0.975)	2/6	.	PROSITE_profiles:PS50102,hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF7,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTCGAGGAC	.	5	BLCA
SLC9A8	0	.	GRCh37	20	48431707	48431707	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189C>T	p.%3D	p.F63F	ENST00000417961	2/16	59	50	8	63	63	0	SLC9A8,synonymous_variant,p.%3D,ENST00000417961,;SLC9A8,synonymous_variant,p.%3D,ENST00000361573,;SLC9A8,5_prime_UTR_variant,,ENST00000541138,;SLC9A8,5_prime_UTR_variant,,ENST00000539601,;SLC9A8,non_coding_transcript_exon_variant,,ENST00000489787,;	T	ENSG00000197818	ENST00000417961	Transcript	synonymous_variant	399	189	63	F	ttC/ttT	.	.	.	1	SLC9A8	HGNC	20728	protein_coding	YES	CCDS58774.1	ENSP00000416418	SL9A8_HUMAN	B7Z3B1_HUMAN,B4DIV9_HUMAN	UPI00017A7E08	.	.	.	2/16	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10110,TIGRFAM_domain:TIGR00840	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTCTTCAG	.	5	BLCA
TPTE	0	.	GRCh37	21	10942760	10942760	+	Silent	SNP	T	T	C	rs771102738	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681A>G	p.%3D	p.K227K	ENST00000361285	13/24	241	226	15	285	285	0	TPTE,synonymous_variant,p.%3D,ENST00000361285,;TPTE,synonymous_variant,p.%3D,ENST00000342420,;TPTE,synonymous_variant,p.%3D,ENST00000298232,;TPTE,non_coding_transcript_exon_variant,,ENST00000415664,;TPTE,non_coding_transcript_exon_variant,,ENST00000447568,;	C	ENSG00000166157	ENST00000361285	Transcript	synonymous_variant	1011	681	227	K	aaA/aaG	rs771102738,COSM1029421,COSM1592710	.	.	-1	TPTE	HGNC	12023	protein_coding	YES	CCDS13560.2	ENSP00000355208	TPTE_HUMAN	.	UPI000016A18A	.	.	.	13/24	.	hmmpanther:PTHR12305,Gene3D:3.90.190.10	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCTTTTGTT	.	2	BLCA
KCNE2	0	.	GRCh37	21	35742842	35742842	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.65A>C	p.Tyr22Ser	p.Y22S	ENST00000290310	2/2	117	111	6	108	108	0	KCNE2,missense_variant,p.Tyr22Ser,ENST00000290310,;SMIM11,upstream_gene_variant,,ENST00000399299,;SMIM11,upstream_gene_variant,,ENST00000399292,;AP000320.6,downstream_gene_variant,,ENST00000440403,;SMIM11,upstream_gene_variant,,ENST00000481710,;SMIM11,upstream_gene_variant,,ENST00000489469,;	C	ENSG00000159197	ENST00000290310	Transcript	missense_variant	205	65	22	Y/S	tAt/tCt	.	.	.	1	KCNE2	HGNC	6242	protein_coding	YES	CCDS13635.1	ENSP00000290310	KCNE2_HUMAN	Q2N1I3_HUMAN	UPI000004A1D8	.	deleterious(0)	probably_damaging(0.993)	2/2	.	hmmpanther:PTHR17028,hmmpanther:PTHR17028:SF2,Prints_domain:PR01605	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACTTATATGG	.	2	BLCA
BRWD1	0	.	GRCh37	21	40667668	40667668	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.609+1G>C	.	p.X203_splice	ENST00000333229	.	73	28	45	72	72	0	BRWD1,splice_donor_variant,,ENST00000342449,;BRWD1,splice_donor_variant,,ENST00000380800,;BRWD1,splice_donor_variant,,ENST00000333229,;BRWD1,downstream_gene_variant,,ENST00000341322,;BRWD1,downstream_gene_variant,,ENST00000470108,;	G	ENSG00000185658	ENST00000333229	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	BRWD1	HGNC	12760	protein_coding	YES	CCDS13662.1	ENSP00000330753	BRWD1_HUMAN	.	UPI0000163C12	.	.	.	.	7/41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCACTGTAA	.	5	BLCA
MX1	0	.	GRCh37	21	42824582	42824582	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1544G>A	p.Arg515Lys	p.R515K	ENST00000398600	18/19	93	73	20	92	92	0	MX1,missense_variant,p.Arg515Lys,ENST00000398600,;MX1,missense_variant,p.Arg492Lys,ENST00000288383,;MX1,missense_variant,p.Arg515Lys,ENST00000398598,;MX1,missense_variant,p.Arg515Lys,ENST00000455164,;MX1,non_coding_transcript_exon_variant,,ENST00000491110,;MX1,downstream_gene_variant,,ENST00000486275,;	A	ENSG00000157601	ENST00000398600	Transcript	missense_variant	2569	1544	515	R/K	aGa/aAa	.	.	.	1	MX1	HGNC	7532	protein_coding	YES	CCDS13673.1	ENSP00000381601	MX1_HUMAN	H9KVD3_HUMAN,H9KVD0_HUMAN,H9KVC9_HUMAN,H9KVC7_HUMAN,H9KVC4_HUMAN,H9KVC3_HUMAN	UPI0000206F16	.	tolerated(0.87)	benign(0.004)	18/19	.	hmmpanther:PTHR11566:SF51,hmmpanther:PTHR11566,Pfam_domain:PF01031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGAGAGAAG	.	5	BLCA
FAM207A	0	.	GRCh37	21	46387037	46387037	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441C>T	p.%3D	p.L147L	ENST00000291634	4/6	26	19	7	32	32	0	FAM207A,synonymous_variant,p.%3D,ENST00000291634,;FAM207A,synonymous_variant,p.%3D,ENST00000397826,;FAM207A,synonymous_variant,p.%3D,ENST00000458015,;FAM207A,non_coding_transcript_exon_variant,,ENST00000479127,;	T	ENSG00000160256	ENST00000291634	Transcript	synonymous_variant	489	441	147	L	ctC/ctT	.	.	.	1	FAM207A	HGNC	15811	protein_coding	YES	CCDS13718.1	ENSP00000291634	F207A_HUMAN	.	UPI00001286B9	.	.	.	4/6	.	hmmpanther:PTHR31109,Pfam_domain:PF15341	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGGGA	.	5	BLCA
PCNT	0	.	GRCh37	21	47836564	47836564	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6732G>A	p.%3D	p.V2244V	ENST00000359568	30/47	63	56	7	59	59	0	PCNT,synonymous_variant,p.%3D,ENST00000359568,;PCNT,non_coding_transcript_exon_variant,,ENST00000480896,;RPL18AP2,downstream_gene_variant,,ENST00000450007,;	A	ENSG00000160299	ENST00000359568	Transcript	synonymous_variant	6839	6732	2244	V	gtG/gtA	.	.	.	1	PCNT	HGNC	16068	protein_coding	YES	CCDS33592.1	ENSP00000352572	PCNT_HUMAN	.	UPI00001AEB88	.	.	.	30/47	.	hmmpanther:PTHR18932:SF11,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCGTGACACC	.	4	BLCA
IGLV5-48	0	.	GRCh37	22	22707529	22707529	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.117C>T	p.%3D	p.L39L	ENST00000390293	2/2	128	113	15	200	199	0	IGLV5-48,synonymous_variant,p.%3D,ENST00000390293,;IGLV1-47,upstream_gene_variant,,ENST00000390294,;	T	ENSG00000211647	ENST00000390293	Transcript	synonymous_variant	117	117	39	L	ctC/ctT	.	.	.	1	IGLV5-48	HGNC	5925	IG_V_gene	YES	.	ENSP00000374828	.	A2MYC9_HUMAN	UPI0000F30333	.	.	.	2/2	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,SMART_domains:SM00406,Pfam_domain:PF07686,Gene3D:2.60.40.10,hmmpanther:PTHR23267:SF147,hmmpanther:PTHR23267,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACTCACCTG	.	4	BLCA
RFPL1	0	.	GRCh37	22	29837967	29837967	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.810C>T	p.%3D	p.F270F	ENST00000354373	2/2	54	49	5	77	77	0	RFPL1,synonymous_variant,p.%3D,ENST00000354373,;RFPL1S,non_coding_transcript_exon_variant,,ENST00000461286,;RFPL1S,upstream_gene_variant,,ENST00000539579,;	T	ENSG00000128250	ENST00000354373	Transcript	synonymous_variant	1019	810	270	F	ttC/ttT	.	.	.	1	RFPL1	HGNC	9977	protein_coding	YES	CCDS13857.2	ENSP00000346342	RFPL1_HUMAN	.	UPI000013CC65	.	.	.	2/2	.	PROSITE_profiles:PS50188,hmmpanther:PTHR25462:SF211,hmmpanther:PTHR25462,Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899,Prints_domain:PR01407	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACATTCAGGAG	.	3	BLCA
ELFN2	0	.	GRCh37	22	37771338	37771338	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237G>A	p.%3D	p.G79G	ENST00000402918	3/3	45	40	4	76	76	0	ELFN2,synonymous_variant,p.%3D,ENST00000402918,;RP1-63G5.5,intron_variant,,ENST00000430883,;RP1-63G5.5,intron_variant,,ENST00000452946,;RP1-63G5.8,downstream_gene_variant,,ENST00000609322,;ELFN2,downstream_gene_variant,,ENST00000424973,;ELFN2,downstream_gene_variant,,ENST00000415408,;ELFN2,downstream_gene_variant,,ENST00000414347,;ELFN2,downstream_gene_variant,,ENST00000435824,;ELFN2,downstream_gene_variant,,ENST00000451509,;	T	ENSG00000166897	ENST00000402918	Transcript	synonymous_variant	1023	237	79	G	ggG/ggA	.	.	.	-1	ELFN2	HGNC	29396	protein_coding	YES	CCDS33642.1	ENSP00000385277	PPR29_HUMAN	.	UPI000004E87D	.	.	.	3/3	.	hmmpanther:PTHR24367:SF248,hmmpanther:PTHR24367,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGGTTCCCAAA	.	3	BLCA
GTPBP1	0	.	GRCh37	22	39104861	39104861	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204G>A	p.%3D	p.V68V	ENST00000216044	2/12	29	26	3	54	54	0	GTPBP1,synonymous_variant,p.%3D,ENST00000216044,;GTPBP1,5_prime_UTR_variant,,ENST00000484657,;GTPBP1,5_prime_UTR_variant,,ENST00000488787,;GTPBP1,5_prime_UTR_variant,,ENST00000470836,;GTPBP1,non_coding_transcript_exon_variant,,ENST00000461428,;GTPBP1,intron_variant,,ENST00000418601,;	A	ENSG00000100226	ENST00000216044	Transcript	synonymous_variant	437	204	68	V	gtG/gtA	.	.	.	1	GTPBP1	HGNC	4669	protein_coding	YES	CCDS13977.2	ENSP00000216044	GTPB1_HUMAN	F5H7C0_HUMAN,F5H716_HUMAN,F5H257_HUMAN	UPI00005EDDA0	.	.	.	2/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTAGTGAGCCC	.	2	BLCA
SUN2	0	.	GRCh37	22	39137511	39137511	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1197C>T	p.%3D	p.V399V	ENST00000405018	10/18	43	35	7	81	81	0	SUN2,synonymous_variant,p.%3D,ENST00000405018,;SUN2,synonymous_variant,p.%3D,ENST00000405510,;SUN2,synonymous_variant,p.%3D,ENST00000406622,;SUN2,synonymous_variant,p.%3D,ENST00000216064,;SUN2,synonymous_variant,p.%3D,ENST00000411587,;SUN2,downstream_gene_variant,,ENST00000430185,;GTPBP1,downstream_gene_variant,,ENST00000489527,;SUN2,downstream_gene_variant,,ENST00000438058,;SUN2,upstream_gene_variant,,ENST00000455125,;GTPBP1,downstream_gene_variant,,ENST00000458073,;RP3-508I15.14,intron_variant,,ENST00000416406,;RP3-508I15.19,downstream_gene_variant,,ENST00000418803,;RP3-508I15.18,downstream_gene_variant,,ENST00000420118,;RP3-508I15.21,upstream_gene_variant,,ENST00000609212,;RP3-508I15.20,upstream_gene_variant,,ENST00000609428,;RP3-508I15.22,upstream_gene_variant,,ENST00000607991,;SUN2,non_coding_transcript_exon_variant,,ENST00000477262,;SUN2,non_coding_transcript_exon_variant,,ENST00000469086,;SUN2,non_coding_transcript_exon_variant,,ENST00000464202,;SUN2,upstream_gene_variant,,ENST00000470642,;	A	ENSG00000100242	ENST00000405018	Transcript	synonymous_variant	1471	1197	399	V	gtC/gtT	.	.	.	-1	SUN2	HGNC	14210	protein_coding	YES	CCDS56231.1	ENSP00000385616	SUN2_HUMAN	Q6NT72_HUMAN,B0QY68_HUMAN,B0QY66_HUMAN	UPI0001611146	.	.	.	10/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12911:SF17,hmmpanther:PTHR12911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCGGACGAT	.	5	BLCA
PRR5	0	.	GRCh37	22	45132747	45132747	+	Missense_Mutation	SNP	G	G	A	rs755369530	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856G>A	p.Val286Met	p.V286M	ENST00000403581	10/10	40	34	6	65	65	0	PRR5,missense_variant,p.Val286Met,ENST00000403581,;PRR5,missense_variant,p.Val254Met,ENST00000432186,;PRR5,missense_variant,p.Val263Met,ENST00000336985,;PRR5,missense_variant,p.Val223Met,ENST00000455389,;PRR5,missense_variant,p.Val254Met,ENST00000006251,;PRR5-ARHGAP8,intron_variant,,ENST00000352766,;PRR5-ARHGAP8,intron_variant,,ENST00000515632,;ARHGAP8,intron_variant,,ENST00000517296,;ARHGAP8,intron_variant,,ENST00000389773,;PRR5-ARHGAP8,intron_variant,,ENST00000361473,;PRR5,downstream_gene_variant,,ENST00000457960,;PRR5,downstream_gene_variant,,ENST00000403696,;PRR5,non_coding_transcript_exon_variant,,ENST00000492475,;PRR5,non_coding_transcript_exon_variant,,ENST00000477331,;PRR5,3_prime_UTR_variant,,ENST00000431834,;PRR5,3_prime_UTR_variant,,ENST00000432916,;PRR5,non_coding_transcript_exon_variant,,ENST00000475850,;PRR5,non_coding_transcript_exon_variant,,ENST00000495017,;PRR5-ARHGAP8,intron_variant,,ENST00000495250,;	A	ENSG00000186654	ENST00000403581	Transcript	missense_variant	1465	856	286	V/M	Gtg/Atg	rs755369530	.	.	1	PRR5	HGNC	31682	protein_coding	YES	CCDS56232.1	ENSP00000384848	PRR5_HUMAN	B1AHG4_HUMAN,B1AHG3_HUMAN	UPI00002327F8	.	deleterious(0.01)	probably_damaging(0.997)	10/10	.	hmmpanther:PTHR32428,hmmpanther:PTHR32428:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCCGTGCAG	.	4	BLCA
NUP50	0	.	GRCh37	22	45577205	45577205	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1042G>A	p.Val348Ile	p.V348I	ENST00000347635	6/8	40	35	5	81	81	0	NUP50,missense_variant,p.Val320Ile,ENST00000396096,;NUP50,missense_variant,p.Val320Ile,ENST00000407019,;NUP50,missense_variant,p.Val127Ile,ENST00000422489,;NUP50,missense_variant,p.Val348Ile,ENST00000347635,;NUP50,missense_variant,p.Val98Ile,ENST00000425733,;NUP50,downstream_gene_variant,,ENST00000430547,;CTA-268H5.12,downstream_gene_variant,,ENST00000610217,;NUP50,non_coding_transcript_exon_variant,,ENST00000493456,;NUP50,downstream_gene_variant,,ENST00000491860,;NUP50,downstream_gene_variant,,ENST00000486184,;NUP50,non_coding_transcript_exon_variant,,ENST00000469163,;NUP50,downstream_gene_variant,,ENST00000419387,;	A	ENSG00000093000	ENST00000347635	Transcript	missense_variant	1508	1042	348	V/I	Gta/Ata	.	.	.	1	NUP50	HGNC	8065	protein_coding	YES	CCDS14062.1	ENSP00000345895	NUP50_HUMAN	B4E2D3_HUMAN	UPI000013079E	.	tolerated(0.5)	benign(0.042)	6/8	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50196,hmmpanther:PTHR13118,Gene3D:2.30.29.30,SMART_domains:SM00160,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTAGTAGTT	.	4	BLCA
UPK3A	0	.	GRCh37	22	45691472	45691472	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>G	p.His246Asp	p.H246D	ENST00000216211	6/6	77	58	19	167	167	0	UPK3A,missense_variant,p.His125Asp,ENST00000396082,;UPK3A,missense_variant,p.His246Asp,ENST00000216211,;	G	ENSG00000100373	ENST00000216211	Transcript	missense_variant	768	736	246	H/D	Cac/Gac	.	.	.	1	UPK3A	HGNC	12580	protein_coding	YES	CCDS14064.1	ENSP00000216211	UPK3A_HUMAN	.	UPI0000161B8E	.	deleterious(0.01)	probably_damaging(0.999)	6/6	.	hmmpanther:PTHR15446,hmmpanther:PTHR15446:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGACTCACGAC	.	5	BLCA
RANBP2	0	.	GRCh37	2	109382741	109382741	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5746C>G	p.Leu1916Val	p.L1916V	ENST00000283195	20/29	391	339	51	488	488	0	RANBP2,missense_variant,p.Leu1916Val,ENST00000283195,;	G	ENSG00000153201	ENST00000283195	Transcript	missense_variant	5872	5746	1916	L/V	Ctt/Gtt	.	.	.	1	RANBP2	HGNC	9848	protein_coding	YES	CCDS2079.1	ENSP00000283195	RBP2_HUMAN	I1Z9D1_HUMAN	UPI0000207FB9	.	tolerated(0.4)	benign(0.001)	20/29	.	hmmpanther:PTHR23138,hmmpanther:PTHR23138:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTCTTGAA	.	4	BLCA
IL36A	0	.	GRCh37	2	113765477	113765477	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333G>A	p.%3D	p.Q111Q	ENST00000259211	4/4	88	82	6	87	87	0	IL36A,synonymous_variant,p.%3D,ENST00000259211,;	A	ENSG00000136694	ENST00000259211	Transcript	synonymous_variant	744	333	111	Q	caG/caA	.	.	.	1	IL36A	HGNC	15562	protein_coding	YES	CCDS42734.1	ENSP00000259211	IL36A_HUMAN	.	UPI000003C9C1	.	.	.	4/4	.	hmmpanther:PTHR10078:SF14,hmmpanther:PTHR10078,Pfam_domain:PF00340,Gene3D:2.80.10.50,SMART_domains:SM00125,Superfamily_domains:SSF50353,Prints_domain:PR01359,Prints_domain:PR01357,Prints_domain:PR00264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCAGAGTGG	.	2	BLCA
MYO7B	0	.	GRCh37	2	128393861	128393861	+	Missense_Mutation	SNP	C	C	T	rs753292445	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6007C>T	p.Arg2003Trp	p.R2003W	ENST00000428314	44/47	49	28	20	54	54	0	MYO7B,missense_variant,p.Arg2003Trp,ENST00000409816,;MYO7B,missense_variant,p.Arg2004Trp,ENST00000389524,;MYO7B,missense_variant,p.Arg2003Trp,ENST00000428314,;MYO7B,missense_variant,p.Arg856Trp,ENST00000409090,;LIMS2,downstream_gene_variant,,ENST00000409254,;LIMS2,downstream_gene_variant,,ENST00000410038,;LIMS2,downstream_gene_variant,,ENST00000409455,;LIMS2,downstream_gene_variant,,ENST00000355119,;LIMS2,downstream_gene_variant,,ENST00000409286,;LIMS2,downstream_gene_variant,,ENST00000426981,;LIMS2,downstream_gene_variant,,ENST00000410011,;LIMS2,downstream_gene_variant,,ENST00000324938,;LIMS2,downstream_gene_variant,,ENST00000545738,;LIMS2,downstream_gene_variant,,ENST00000409754,;LIMS2,downstream_gene_variant,,ENST00000409808,;LIMS2,downstream_gene_variant,,ENST00000494613,;MYO7B,non_coding_transcript_exon_variant,,ENST00000494959,;MYO7B,non_coding_transcript_exon_variant,,ENST00000491278,;MYO7B,non_coding_transcript_exon_variant,,ENST00000496841,;LIMS2,downstream_gene_variant,,ENST00000476932,;LIMS2,downstream_gene_variant,,ENST00000413578,;LIMS2,downstream_gene_variant,,ENST00000466410,;LIMS2,downstream_gene_variant,,ENST00000469300,;LIMS2,downstream_gene_variant,,ENST00000484252,;	T	ENSG00000169994	ENST00000428314	Transcript	missense_variant	6060	6007	2003	R/W	Cgg/Tgg	rs753292445	.	.	1	MYO7B	HGNC	7607	protein_coding	YES	CCDS46405.1	ENSP00000415090	MYO7B_HUMAN	C9JC21_HUMAN,B9A063_HUMAN	UPI00006C04F0	.	deleterious(0)	probably_damaging(1)	44/47	.	PROSITE_profiles:PS50057,Gene3D:1.20.80.10,Pfam_domain:PF00373,SMART_domains:SM00295,Superfamily_domains:SSF47031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGCCGGTGG	byFrequency	5	BLCA
SMPD4	0	.	GRCh37	2	130913680	130913680	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1334A>G	p.Gln445Arg	p.Q445R	ENST00000409031	14/20	27	22	5	37	37	0	SMPD4,missense_variant,p.Gln303Arg,ENST00000339679,;SMPD4,missense_variant,p.Gln320Arg,ENST00000439886,;SMPD4,missense_variant,p.Gln127Arg,ENST00000430682,;SMPD4,missense_variant,p.Gln194Arg,ENST00000453750,;SMPD4,missense_variant,p.Gln416Arg,ENST00000351288,;SMPD4,missense_variant,p.Gln186Arg,ENST00000452225,;SMPD4,missense_variant,p.Gln445Arg,ENST00000409031,;SMPD4,missense_variant,p.Gln109Arg,ENST00000443958,;SMPD4,missense_variant,p.Gln42Arg,ENST00000457039,;SMPD4,missense_variant,p.Gln193Arg,ENST00000451542,;SMPD4,missense_variant,p.Gln343Arg,ENST00000431183,;SMPD4,missense_variant,p.Gln81Arg,ENST00000426662,;SMPD4,upstream_gene_variant,,ENST00000449159,;SMPD4,non_coding_transcript_exon_variant,,ENST00000455548,;SMPD4,non_coding_transcript_exon_variant,,ENST00000473720,;SMPD4,3_prime_UTR_variant,,ENST00000435455,;SMPD4,3_prime_UTR_variant,,ENST00000433118,;SMPD4,3_prime_UTR_variant,,ENST00000454468,;SMPD4,3_prime_UTR_variant,,ENST00000412570,;SMPD4,non_coding_transcript_exon_variant,,ENST00000461187,;SMPD4,non_coding_transcript_exon_variant,,ENST00000491128,;SMPD4,non_coding_transcript_exon_variant,,ENST00000482171,;SMPD4,upstream_gene_variant,,ENST00000491319,;SMPD4,downstream_gene_variant,,ENST00000439029,;	C	ENSG00000136699	ENST00000409031	Transcript	missense_variant	2483	1334	445	Q/R	cAg/cGg	.	.	.	-1	SMPD4	HGNC	32949	protein_coding	YES	CCDS42751.1	ENSP00000386531	.	C9J647_HUMAN,B1PBA3_HUMAN	UPI000036FC5A	.	deleterious(0)	possibly_damaging(0.607)	14/20	.	hmmpanther:PTHR12988,Pfam_domain:PF14724	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACGGCTGCAGG	.	2	BLCA
AMER3	0	.	GRCh37	2	131520004	131520004	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.359C>T	p.Ser120Phe	p.S120F	ENST00000423981	2/2	35	32	3	36	36	0	AMER3,missense_variant,p.Ser120Phe,ENST00000458606,;AMER3,missense_variant,p.Ser120Phe,ENST00000321420,;AMER3,missense_variant,p.Ser120Phe,ENST00000431758,;AMER3,missense_variant,p.Ser120Phe,ENST00000423981,;	T	ENSG00000178171	ENST00000423981	Transcript	missense_variant	469	359	120	S/F	tCc/tTc	COSM3894743	.	.	1	AMER3	HGNC	26771	protein_coding	YES	CCDS2164.1	ENSP00000392700	AMER3_HUMAN	C9JS07_HUMAN,C9J4B8_HUMAN	UPI0000D61239	.	deleterious(0.01)	benign(0.048)	2/2	.	hmmpanther:PTHR22237,hmmpanther:PTHR22237:SF2,Pfam_domain:PF09422	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCTCCCCGG	.	2	BLCA
RAB3GAP1	0	.	GRCh37	2	135926277	135926277	+	Missense_Mutation	SNP	C	C	G	rs757184202	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2893C>G	p.Arg965Gly	p.R965G	ENST00000442034	25/25	53	47	6	79	79	0	RAB3GAP1,missense_variant,p.Arg965Gly,ENST00000442034,;RAB3GAP1,missense_variant,p.Arg914Gly,ENST00000539493,;RAB3GAP1,missense_variant,p.Arg958Gly,ENST00000264158,;RAB3GAP1,non_coding_transcript_exon_variant,,ENST00000487003,;ZRANB3,intron_variant,,ENST00000412849,;RAB3GAP1,non_coding_transcript_exon_variant,,ENST00000497080,;	G	ENSG00000115839	ENST00000442034	Transcript	missense_variant	2903	2893	965	R/G	Cgg/Ggg	rs757184202	.	.	1	RAB3GAP1	HGNC	17063	protein_coding	YES	CCDS54402.1	ENSP00000411418	.	C9J837_HUMAN	UPI0000D4C196	.	deleterious(0)	probably_damaging(0.998)	25/25	.	hmmpanther:PTHR21422	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCAGCGGATG	byFrequency	4	BLCA
ORC4	0	.	GRCh37	2	148693080	148693080	+	Nonstop_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1310G>C	p.Ter437SerextTer2	p.*437Sext*2	ENST00000392857	14/14	69	63	6	111	111	0	ORC4,stop_lost,p.Ter437SerextTer2,ENST00000392858,;ORC4,stop_lost,p.Ter437SerextTer2,ENST00000392857,;ORC4,stop_lost,p.Ter220SerextTer2,ENST00000542387,;ORC4,stop_lost,p.Ter353SerextTer2,ENST00000536575,;ORC4,stop_lost,p.Ter363SerextTer2,ENST00000540442,;ORC4,stop_lost,p.Ter437SerextTer2,ENST00000535373,;ORC4,stop_lost,p.Ter437SerextTer2,ENST00000264169,;ACVR2A,downstream_gene_variant,,ENST00000241416,;ORC4,downstream_gene_variant,,ENST00000488761,;ORC4,downstream_gene_variant,,ENST00000481488,;	G	ENSG00000115947	ENST00000392857	Transcript	stop_lost	1418	1310	437	*/S	tGa/tCa	.	.	.	-1	ORC4	HGNC	8490	protein_coding	YES	CCDS2187.1	ENSP00000376597	ORC4_HUMAN	Q96B14_HUMAN,Q53TH5_HUMAN,Q53SE3_HUMAN,C9JGH7_HUMAN,C9J2X8_HUMAN,B7Z632_HUMAN	UPI000013D4D3	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATATTCATAAC	.	3	BLCA
LYPD6B	0	.	GRCh37	2	150061800	150061800	+	Silent	SNP	C	C	T	rs563490653	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111C>T	p.%3D	p.V37V	ENST00000409642	4/7	64	59	5	75	75	0	LYPD6B,synonymous_variant,p.%3D,ENST00000409029,;LYPD6B,synonymous_variant,p.%3D,ENST00000409876,;LYPD6B,synonymous_variant,p.%3D,ENST00000409642,;LYPD6B,synonymous_variant,p.%3D,ENST00000280115,;LYPD6B,non_coding_transcript_exon_variant,,ENST00000473975,;LYPD6B,non_coding_transcript_exon_variant,,ENST00000498249,;LYPD6B,synonymous_variant,p.%3D,ENST00000442722,;LYPD6B,downstream_gene_variant,,ENST00000437627,;	T	ENSG00000150556	ENST00000409642	Transcript	synonymous_variant	512	111	37	V	gtC/gtT	rs563490653,COSM347618	.	.	1	LYPD6B	HGNC	27018	protein_coding	YES	CCDS46423.1	ENSP00000387077	LPD6B_HUMAN	.	UPI00001BDB14	.	.	.	4/7	.	hmmpanther:PTHR31171,hmmpanther:PTHR31171:SF3	G:0.0002	G:0	G:0	.	G:0	G:0.001	G:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGGTCAGCAT	by1000G	2	BLCA
RIF1	0	.	GRCh37	2	152320461	152320461	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4427A>C	p.Glu1476Ala	p.E1476A	ENST00000243326	29/35	36	26	9	86	86	0	RIF1,missense_variant,p.Glu1476Ala,ENST00000444746,;RIF1,missense_variant,p.Glu1476Ala,ENST00000453091,;RIF1,missense_variant,p.Glu1476Ala,ENST00000428287,;RIF1,missense_variant,p.Glu1476Ala,ENST00000243326,;RIF1,missense_variant,p.Glu1476Ala,ENST00000430328,;RIF1,upstream_gene_variant,,ENST00000454583,;	C	ENSG00000080345	ENST00000243326	Transcript	missense_variant	4910	4427	1476	E/A	gAg/gCg	COSM1007370	.	.	1	RIF1	HGNC	23207	protein_coding	YES	CCDS2194.1	ENSP00000243326	RIF1_HUMAN	C9J1D6_HUMAN,B4DRJ4_HUMAN	UPI000023729F	.	deleterious(0.04)	possibly_damaging(0.611)	29/35	.	hmmpanther:PTHR22928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGGAGAATT	.	5	BLCA
NEB	0	.	GRCh37	2	152477490	152477490	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10503G>C	p.Leu3501Phe	p.L3501F	ENST00000397345	72/182	20	12	7	23	23	0	NEB,missense_variant,p.Leu3501Phe,ENST00000603639,;NEB,missense_variant,p.Leu3258Phe,ENST00000172853,;NEB,missense_variant,p.Leu3501Phe,ENST00000427231,;NEB,missense_variant,p.Leu3501Phe,ENST00000397345,;NEB,missense_variant,p.Leu3501Phe,ENST00000604864,;NEB,missense_variant,p.Leu3258Phe,ENST00000409198,;NEB,upstream_gene_variant,,ENST00000486320,;	G	ENSG00000183091	ENST00000397345	Transcript	missense_variant	10706	10503	3501	L/F	ttG/ttC	.	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	probably_damaging(0.986)	72/182	.	PROSITE_profiles:PS51216,hmmpanther:PTHR11039:SF37,hmmpanther:PTHR11039,SMART_domains:SM00227	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAAGTC	.	5	BLCA
FMNL2	0	.	GRCh37	2	153504334	153504334	+	Missense_Mutation	SNP	G	G	A	rs777043152	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3194G>A	p.Arg1065Gln	p.R1065Q	ENST00000288670	26/26	109	101	8	184	184	0	FMNL2,missense_variant,p.Arg1065Gln,ENST00000288670,;FMNL2,3_prime_UTR_variant,,ENST00000475377,;PRPF40A,downstream_gene_variant,,ENST00000410080,;	A	ENSG00000157827	ENST00000288670	Transcript	missense_variant	3561	3194	1065	R/Q	cGa/cAa	rs777043152	.	.	1	FMNL2	HGNC	18267	protein_coding	YES	CCDS46429.1	ENSP00000288670	FMNL2_HUMAN	B3KT32_HUMAN	UPI0000441EF9	.	.	unknown(0)	26/26	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51231,hmmpanther:PTHR23213:SF180,hmmpanther:PTHR23213	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGACGAGCCG	.	2	BLCA
XIRP2	0	.	GRCh37	2	168105925	168105925	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8023A>G	p.Ile2675Val	p.I2675V	ENST00000409195	9/11	64	57	6	57	57	0	XIRP2,missense_variant,p.Ile2453Val,ENST00000409273,;XIRP2,missense_variant,p.Ile2675Val,ENST00000409195,;XIRP2,missense_variant,p.Ile2675Val,ENST00000295237,;XIRP2,intron_variant,,ENST00000409605,;XIRP2,intron_variant,,ENST00000420519,;XIRP2,intron_variant,,ENST00000409756,;XIRP2,intron_variant,,ENST00000409043,;XIRP2,intron_variant,,ENST00000409728,;	G	ENSG00000163092	ENST00000409195	Transcript	missense_variant	8112	8023	2675	I/V	Att/Gtt	.	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	benign(0.311)	9/11	.	hmmpanther:PTHR22591,hmmpanther:PTHR22591:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGAAATTAAA	.	4	BLCA
TTN	0	.	GRCh37	2	179485545	179485545	+	Silent	SNP	G	G	A	rs754067884	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45792C>T	p.%3D	p.L15264L	ENST00000589042	247/363	123	111	12	180	179	0	TTN,synonymous_variant,p.%3D,ENST00000359218,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000342175,;TTN,synonymous_variant,p.%3D,ENST00000460472,;RP11-171I2.4,downstream_gene_variant,,ENST00000605334,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000604956,;TTN-AS1,downstream_gene_variant,,ENST00000592750,;TTN-AS1,downstream_gene_variant,,ENST00000456053,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	46017	45792	15264	L	ctC/ctT	rs754067884	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	247/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATTCTGAGGGT	.	3	BLCA
ALS2CR12	0	.	GRCh37	2	202211274	202211274	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.359G>C	p.Arg120Thr	p.R120T	ENST00000405148	5/15	62	46	15	131	131	0	ALS2CR12,missense_variant,p.Arg120Thr,ENST00000405148,;ALS2CR12,missense_variant,p.Arg120Thr,ENST00000439709,;ALS2CR12,missense_variant,p.Arg120Thr,ENST00000286190,;ALS2CR12,missense_variant,p.Arg58Thr,ENST00000425488,;ALS2CR12,missense_variant,p.Arg120Thr,ENST00000392257,;ALS2CR12,downstream_gene_variant,,ENST00000418364,;ALS2CR12,non_coding_transcript_exon_variant,,ENST00000448967,;ALS2CR12,non_coding_transcript_exon_variant,,ENST00000494171,;	G	ENSG00000155749	ENST00000405148	Transcript	missense_variant	803	359	120	R/T	aGa/aCa	.	.	.	-1	ALS2CR12	HGNC	14439	protein_coding	YES	CCDS2346.1	ENSP00000385098	AL2SB_HUMAN	C9JTY0_HUMAN	UPI00001AEADD	.	tolerated(0.31)	benign(0.007)	5/15	.	hmmpanther:PTHR21707,hmmpanther:PTHR21707:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATCTGCCT	.	5	BLCA
ALS2	0	.	GRCh37	2	202622166	202622166	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1430G>A	p.Gly477Glu	p.G477E	ENST00000264276	5/34	46	43	3	99	99	0	ALS2,missense_variant,p.Gly477Glu,ENST00000264276,;ALS2,downstream_gene_variant,,ENST00000467448,;ALS2,downstream_gene_variant,,ENST00000410052,;ALS2,downstream_gene_variant,,ENST00000409632,;ALS2,downstream_gene_variant,,ENST00000496244,;ALS2,non_coding_transcript_exon_variant,,ENST00000482891,;ALS2,non_coding_transcript_exon_variant,,ENST00000482789,;	T	ENSG00000003393	ENST00000264276	Transcript	missense_variant	1803	1430	477	G/E	gGa/gAa	.	.	.	-1	ALS2	HGNC	443	protein_coding	YES	CCDS42800.1	ENSP00000264276	ALS2_HUMAN	J3KQ43_HUMAN,J3KQ33_HUMAN,A8K4R4_HUMAN	UPI0000231C77	.	deleterious(0.04)	probably_damaging(0.938)	5/34	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22870,hmmpanther:PTHR22870:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCCCTCT	.	2	BLCA
CYP20A1	0	.	GRCh37	2	204131303	204131303	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499C>T	p.His167Tyr	p.H167Y	ENST00000356079	5/13	73	61	12	141	141	0	CYP20A1,missense_variant,p.His167Tyr,ENST00000356079,;CYP20A1,missense_variant,p.His167Tyr,ENST00000443941,;CYP20A1,missense_variant,p.His167Tyr,ENST00000429815,;CYP20A1,non_coding_transcript_exon_variant,,ENST00000489360,;CYP20A1,non_coding_transcript_exon_variant,,ENST00000463131,;CYP20A1,non_coding_transcript_exon_variant,,ENST00000461371,;CYP20A1,missense_variant,p.His167Tyr,ENST00000449301,;CYP20A1,3_prime_UTR_variant,,ENST00000431118,;CYP20A1,3_prime_UTR_variant,,ENST00000428265,;	T	ENSG00000119004	ENST00000356079	Transcript	missense_variant	622	499	167	H/Y	Cat/Tat	.	.	.	1	CYP20A1	HGNC	20576	protein_coding	YES	CCDS2357.1	ENSP00000348380	CP20A_HUMAN	Q8WZ13_HUMAN,Q53RS5_HUMAN	UPI0000048EFF	.	tolerated(0.28)	possibly_damaging(0.449)	5/13	.	hmmpanther:PTHR24280:SF3,hmmpanther:PTHR24280,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAGCATATG	.	5	BLCA
DNAJB2	0	.	GRCh37	2	220146449	220146449	+	Missense_Mutation	SNP	G	G	A	rs771292719	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.185G>A	p.Arg62Gln	p.R62Q	ENST00000336576	4/9	31	26	5	67	67	0	DNAJB2,missense_variant,p.Arg62Gln,ENST00000336576,;DNAJB2,missense_variant,p.Arg62Gln,ENST00000392086,;DNAJB2,missense_variant,p.Arg62Gln,ENST00000442681,;DNAJB2,missense_variant,p.Arg62Gln,ENST00000421532,;DNAJB2,missense_variant,p.Arg62Gln,ENST00000392087,;DNAJB2,missense_variant,p.Arg62Gln,ENST00000439026,;DNAJB2,missense_variant,p.Arg62Gln,ENST00000425450,;TUBA4A,upstream_gene_variant,,ENST00000427737,;TUBA4A,upstream_gene_variant,,ENST00000398989,;DNAJB2,non_coding_transcript_exon_variant,,ENST00000487855,;DNAJB2,non_coding_transcript_exon_variant,,ENST00000463463,;DNAJB2,upstream_gene_variant,,ENST00000470530,;DNAJB2,non_coding_transcript_exon_variant,,ENST00000477917,;DNAJB2,non_coding_transcript_exon_variant,,ENST00000480537,;DNAJB2,upstream_gene_variant,,ENST00000473750,;DNAJB2,downstream_gene_variant,,ENST00000485220,;DNAJB2,upstream_gene_variant,,ENST00000476254,;DNAJB2,downstream_gene_variant,,ENST00000482988,;DNAJB2,downstream_gene_variant,,ENST00000481815,;DNAJB2,upstream_gene_variant,,ENST00000472019,;	A	ENSG00000135924	ENST00000336576	Transcript	missense_variant	473	185	62	R/Q	cGg/cAg	rs771292719	.	.	1	DNAJB2	HGNC	5228	protein_coding	YES	CCDS2439.1	ENSP00000338019	DNJB2_HUMAN	Q53QD7_HUMAN,C9JX00_HUMAN,C9JRD2_HUMAN,C9J1G2_HUMAN,B4DJY6_HUMAN	UPI000000DCD8	.	deleterious(0)	probably_damaging(0.999)	4/9	.	PROSITE_profiles:PS50076,hmmpanther:PTHR24077,hmmpanther:PTHR24077:SF206,PROSITE_patterns:PS00636,Pfam_domain:PF00226,Gene3D:1.10.287.110,Superfamily_domains:SSF46565,Prints_domain:PR00625	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGCGGGAGA	byFrequency	5	BLCA
AGBL5	0	.	GRCh37	2	27280235	27280235	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1600G>A	p.Asp534Asn	p.D534N	ENST00000360131	9/15	71	63	8	83	83	0	AGBL5,missense_variant,p.Asp534Asn,ENST00000360131,;AGBL5,missense_variant,p.Asp534Asn,ENST00000323064,;AGBL5,downstream_gene_variant,,ENST00000421915,;AGBL5,downstream_gene_variant,,ENST00000453161,;AGBL5,downstream_gene_variant,,ENST00000451003,;AGBL5,upstream_gene_variant,,ENST00000441931,;AGBL5,downstream_gene_variant,,ENST00000437006,;AGBL5-IT1,upstream_gene_variant,,ENST00000411862,;RP11-503P10.1,upstream_gene_variant,,ENST00000607407,;AGBL5,missense_variant,p.Asp534Asn,ENST00000487078,;AGBL5,downstream_gene_variant,,ENST00000477136,;AGBL5,downstream_gene_variant,,ENST00000489683,;	A	ENSG00000084693	ENST00000360131	Transcript	missense_variant	1759	1600	534	D/N	Gac/Aac	.	.	.	1	AGBL5	HGNC	26147	protein_coding	YES	CCDS1732.3	ENSP00000353249	CBPC5_HUMAN	C9JTY1_HUMAN,C9JQG9_HUMAN,C9JHM6_HUMAN,C9JCE1_HUMAN	UPI000006FE54	.	deleterious(0.02)	probably_damaging(0.978)	9/15	.	hmmpanther:PTHR12756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGACAAT	.	4	BLCA
AGBL5	0	.	GRCh37	2	27282102	27282102	+	Missense_Mutation	SNP	G	G	A	rs145709465	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1919G>A	p.Arg640Gln	p.R640Q	ENST00000360131	11/15	150	143	7	161	161	0	AGBL5,missense_variant,p.Arg640Gln,ENST00000360131,;AGBL5,missense_variant,p.Arg640Gln,ENST00000323064,;AGBL5,upstream_gene_variant,,ENST00000441931,;AGBL5-IT1,upstream_gene_variant,,ENST00000411862,;RP11-503P10.1,upstream_gene_variant,,ENST00000607407,;RP11-195B17.1,downstream_gene_variant,,ENST00000607659,;AGBL5,missense_variant,p.Arg640Gln,ENST00000487078,;AGBL5,downstream_gene_variant,,ENST00000477136,;AGBL5,downstream_gene_variant,,ENST00000489683,;	A	ENSG00000084693	ENST00000360131	Transcript	missense_variant	2078	1919	640	R/Q	cGa/cAa	rs145709465	.	.	1	AGBL5	HGNC	26147	protein_coding	YES	CCDS1732.3	ENSP00000353249	CBPC5_HUMAN	C9JTY1_HUMAN,C9JQG9_HUMAN,C9JHM6_HUMAN,C9JCE1_HUMAN	UPI000006FE54	.	deleterious_low_confidence(0.01)	probably_damaging(0.988)	11/15	.	hmmpanther:PTHR12756	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCACGAAGTT	byCluster	2	BLCA
EIF2B4	0	.	GRCh37	2	27591268	27591268	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.621C>A	p.Ser207Arg	p.S207R	ENST00000451130	5/12	59	55	4	94	94	0	EIF2B4,missense_variant,p.Ser186Arg,ENST00000445933,;EIF2B4,missense_variant,p.Ser208Arg,ENST00000493344,;EIF2B4,missense_variant,p.Ser187Arg,ENST00000347454,;EIF2B4,missense_variant,p.Ser207Arg,ENST00000451130,;SNX17,upstream_gene_variant,,ENST00000537606,;SNX17,upstream_gene_variant,,ENST00000542478,;SNX17,upstream_gene_variant,,ENST00000543024,;SNX17,upstream_gene_variant,,ENST00000233575,;AC074117.10,downstream_gene_variant,,ENST00000412749,;EIF2B4,missense_variant,p.Ser187Arg,ENST00000405940,;EIF2B4,missense_variant,p.Ser46Arg,ENST00000417567,;EIF2B4,non_coding_transcript_exon_variant,,ENST00000475582,;SNX17,upstream_gene_variant,,ENST00000453453,;SNX17,upstream_gene_variant,,ENST00000484886,;SNX17,upstream_gene_variant,,ENST00000464279,;SNX17,upstream_gene_variant,,ENST00000440760,;EIF2B4,upstream_gene_variant,,ENST00000478311,;EIF2B4,downstream_gene_variant,,ENST00000418146,;SNX17,upstream_gene_variant,,ENST00000494893,;EIF2B4,downstream_gene_variant,,ENST00000462749,;SNX17,upstream_gene_variant,,ENST00000489402,;SNX17,upstream_gene_variant,,ENST00000427123,;	T	ENSG00000115211	ENST00000451130	Transcript	missense_variant	621	621	207	S/R	agC/agA	.	.	.	-1	EIF2B4	HGNC	3260	protein_coding	YES	CCDS46245.1	ENSP00000394869	EI2BD_HUMAN	.	UPI0000366EE5	.	tolerated(0.14)	probably_damaging(0.948)	5/12	.	hmmpanther:PTHR10233:SF14,hmmpanther:PTHR10233,Superfamily_domains:SSF100950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCTGCTGTA	.	2	BLCA
FNDC4	0	.	GRCh37	2	27717245	27717245	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222C>A	p.%3D	p.I74I	ENST00000264703	3/7	23	19	4	24	24	0	FNDC4,synonymous_variant,p.%3D,ENST00000264703,;GCKR,upstream_gene_variant,,ENST00000453813,;GCKR,upstream_gene_variant,,ENST00000424318,;IFT172,upstream_gene_variant,,ENST00000260570,;GCKR,upstream_gene_variant,,ENST00000264717,;IFT172,upstream_gene_variant,,ENST00000416524,;IFT172,upstream_gene_variant,,ENST00000359466,;FNDC4,non_coding_transcript_exon_variant,,ENST00000476197,;FNDC4,non_coding_transcript_exon_variant,,ENST00000491414,;IFT172,upstream_gene_variant,,ENST00000475476,;GCKR,upstream_gene_variant,,ENST00000472290,;IFT172,upstream_gene_variant,,ENST00000476264,;GCKR,upstream_gene_variant,,ENST00000417872,;IFT172,upstream_gene_variant,,ENST00000511842,;IFT172,upstream_gene_variant,,ENST00000507184,;	T	ENSG00000115226	ENST00000264703	Transcript	synonymous_variant	614	222	74	I	atC/atA	.	.	.	-1	FNDC4	HGNC	20239	protein_coding	YES	CCDS1756.1	ENSP00000264703	FNDC4_HUMAN	.	UPI000006F5E7	.	.	.	3/7	.	PROSITE_profiles:PS50853,hmmpanther:PTHR14470:SF2,hmmpanther:PTHR14470,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGACGATGTT	.	2	BLCA
RBKS	0	.	GRCh37	2	28065998	28065998	+	Silent	SNP	G	G	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450C>A	p.%3D	p.V150V	ENST00000302188	5/8	106	93	12	134	134	0	RBKS,synonymous_variant,p.%3D,ENST00000302188,;RBKS,synonymous_variant,p.%3D,ENST00000444339,;RBKS,synonymous_variant,p.%3D,ENST00000458185,;RBKS,3_prime_UTR_variant,,ENST00000449378,;MRPL33,intron_variant,,ENST00000448427,;	T	ENSG00000171174	ENST00000302188	Transcript	synonymous_variant	1203	450	150	V	gtC/gtA	COSM3391682,COSM3391683	.	.	-1	RBKS	HGNC	30325	protein_coding	YES	CCDS1762.1	ENSP00000306817	RBSK_HUMAN	Q53SD1_HUMAN	UPI000003B021	.	.	.	5/8	.	hmmpanther:PTHR10584,hmmpanther:PTHR10584:SF166,Gene3D:3.40.1190.20,Pfam_domain:PF00294,TIGRFAM_domain:TIGR02152,Superfamily_domains:SSF53613	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCAGACCAT	.	4	BLCA
CRIM1	0	.	GRCh37	2	36771587	36771587	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2692G>A	p.Glu898Lys	p.E898K	ENST00000280527	15/17	49	44	5	57	57	0	CRIM1,missense_variant,p.Glu898Lys,ENST00000280527,;AC007401.2,intron_variant,,ENST00000406220,;	A	ENSG00000150938	ENST00000280527	Transcript	missense_variant	3059	2692	898	E/K	Gag/Aag	.	.	.	1	CRIM1	HGNC	2359	protein_coding	YES	CCDS1783.1	ENSP00000280527	CRIM1_HUMAN	Q53TR0_HUMAN,Q53TH9_HUMAN,Q4ZG85_HUMAN,B4DUW0_HUMAN	UPI000004C628	.	deleterious(0.03)	benign(0.014)	15/17	.	hmmpanther:PTHR11339	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTGGAGGTT	.	4	BLCA
MTA3	0	.	GRCh37	2	42836606	42836606	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199G>T	p.Glu67Ter	p.E67*	ENST00000407270	4/14	27	24	3	26	26	0	MTA3,stop_gained,p.Glu11Ter,ENST00000406652,;MTA3,stop_gained,p.Glu11Ter,ENST00000433553,;MTA3,stop_gained,p.Glu67Ter,ENST00000407270,;MTA3,stop_gained,p.Glu67Ter,ENST00000406911,;MTA3,stop_gained,p.Glu11Ter,ENST00000405592,;MTA3,stop_gained,p.Glu67Ter,ENST00000405094,;MTA3,non_coding_transcript_exon_variant,,ENST00000493983,;MTA3,non_coding_transcript_exon_variant,,ENST00000461256,;MTA3,intron_variant,,ENST00000484780,;MTA3,upstream_gene_variant,,ENST00000491314,;MTA3,stop_gained,p.Glu67Ter,ENST00000454356,;MTA3,stop_gained,p.Glu67Ter,ENST00000409019,;MTA3,3_prime_UTR_variant,,ENST00000430763,;	T	ENSG00000057935	ENST00000407270	Transcript	stop_gained	428	199	67	E/*	Gag/Tag	.	.	.	1	MTA3	HGNC	23784	protein_coding	YES	CCDS46267.1	ENSP00000385045	MTA3_HUMAN	Q53SC0_HUMAN,Q53RX8_HUMAN,Q53QZ9_HUMAN	UPI000002AE6A	.	.	.	4/14	.	SMART_domains:SM00439,Pfam_domain:PF01426,hmmpanther:PTHR10865,hmmpanther:PTHR10865:SF6,PROSITE_profiles:PS51038,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAATTGAGGAA	.	2	BLCA
ATP6V1B1	0	.	GRCh37	2	71189911	71189911	+	Nonsense_Mutation	SNP	G	G	T	rs200839517	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790G>T	p.Glu264Ter	p.E264*	ENST00000234396	9/14	44	26	18	61	60	0	ATP6V1B1,stop_gained,p.Glu264Ter,ENST00000234396,;ATP6V1B1,stop_gained,p.Glu264Ter,ENST00000412314,;AC007040.11,intron_variant,,ENST00000606025,;ATP6V1B1,upstream_gene_variant,,ENST00000433895,;ATP6V1B1,downstream_gene_variant,,ENST00000454446,;ATP6V1B1,downstream_gene_variant,,ENST00000432098,;RN7SL160P,upstream_gene_variant,,ENST00000468558,;ATP6V1B1,3_prime_UTR_variant,,ENST00000432367,;AC007040.11,intron_variant,,ENST00000453130,;ATP6V1B1,downstream_gene_variant,,ENST00000463380,;ATP6V1B1,downstream_gene_variant,,ENST00000495118,;	T	ENSG00000116039	ENST00000234396	Transcript	stop_gained	863	790	264	E/*	Gag/Tag	rs200839517,COSM3799149	.	.	1	ATP6V1B1	HGNC	853	protein_coding	YES	CCDS1912.1	ENSP00000234396	VATB1_HUMAN	Q71UA2_HUMAN,C9JZ02_HUMAN,C9JTN0_HUMAN,B4DWH7_HUMAN	UPI000013C9A0	.	.	.	9/14	.	HAMAP:MF_00310,hmmpanther:PTHR15184:SF29,hmmpanther:PTHR15184,Pfam_domain:PF00006,TIGRFAM_domain:TIGR01040,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATCGAGCGG	byCluster|by1000G	5	BLCA
DYSF	0	.	GRCh37	2	71742875	71742875	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882C>T	p.%3D	p.F294F	ENST00000410020	8/56	49	43	6	47	47	0	DYSF,synonymous_variant,p.%3D,ENST00000409582,;DYSF,synonymous_variant,p.%3D,ENST00000410020,;DYSF,synonymous_variant,p.%3D,ENST00000409744,;DYSF,synonymous_variant,p.%3D,ENST00000429174,;DYSF,synonymous_variant,p.%3D,ENST00000409762,;DYSF,synonymous_variant,p.%3D,ENST00000410041,;DYSF,synonymous_variant,p.%3D,ENST00000409651,;DYSF,synonymous_variant,p.%3D,ENST00000394120,;DYSF,synonymous_variant,p.%3D,ENST00000409366,;DYSF,synonymous_variant,p.%3D,ENST00000413539,;DYSF,synonymous_variant,p.%3D,ENST00000258104,;	T	ENSG00000135636	ENST00000410020	Transcript	synonymous_variant	1023	882	294	F	ttC/ttT	.	.	.	1	DYSF	HGNC	3097	protein_coding	YES	CCDS46328.1	ENSP00000386881	DYSF_HUMAN	A0FK00_HUMAN	UPI000171F710	.	.	.	8/56	.	PROSITE_profiles:PS50004,hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF35,Pfam_domain:PF00168,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCAATGA	.	4	BLCA
ALMS1P	0	.	GRCh37	2	73902000	73902000	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.953C>T	.	.	ENST00000450720	6/7	70	66	4	73	73	0	ALMS1P,non_coding_transcript_exon_variant,,ENST00000450720,;ALMS1P,non_coding_transcript_exon_variant,,ENST00000428767,;	T	ENSG00000163016	ENST00000450720	Transcript	non_coding_transcript_exon_variant	953	.	.	.	.	.	.	.	1	ALMS1P	HGNC	29586	processed_transcript	YES	.	.	.	.	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTATCAGCAA	.	2	BLCA
MTHFD2	0	.	GRCh37	2	74432988	74432988	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.258C>T	p.%3D	p.L86L	ENST00000394053	2/8	100	77	22	113	113	0	MTHFD2,synonymous_variant,p.%3D,ENST00000409601,;MTHFD2,synonymous_variant,p.%3D,ENST00000409804,;MTHFD2,synonymous_variant,p.%3D,ENST00000394053,;MTHFD2,intron_variant,,ENST00000264090,;MTHFD2,intron_variant,,ENST00000394050,;MTHFD2,non_coding_transcript_exon_variant,,ENST00000477455,;MTHFD2,non_coding_transcript_exon_variant,,ENST00000488086,;MTHFD2,upstream_gene_variant,,ENST00000462026,;MTHFD2,intron_variant,,ENST00000470592,;MTHFD2,intron_variant,,ENST00000489041,;	T	ENSG00000065911	ENST00000394053	Transcript	synonymous_variant	338	258	86	L	ctC/ctT	.	.	.	1	MTHFD2	HGNC	7434	protein_coding	YES	CCDS1935.2	ENSP00000377617	MTDC_HUMAN	Q7Z650_HUMAN,B4DY35_HUMAN,B2R7W0_HUMAN	UPI0000208708	.	.	.	2/8	.	HAMAP:MF_01576,hmmpanther:PTHR10025:SF29,hmmpanther:PTHR10025,Gene3D:3.40.192.10,Pfam_domain:PF00763,Superfamily_domains:SSF53223,Prints_domain:PR00085	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCAACAA	.	5	BLCA
TGOLN2	0	.	GRCh37	2	85553672	85553672	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1183C>G	p.Leu395Val	p.L395V	ENST00000409232	2/4	94	89	5	115	115	0	TGOLN2,missense_variant,p.Leu337Val,ENST00000398263,;TGOLN2,missense_variant,p.Leu395Val,ENST00000409232,;TGOLN2,missense_variant,p.Leu239Val,ENST00000282120,;TGOLN2,missense_variant,p.Leu395Val,ENST00000444342,;TGOLN2,missense_variant,p.Leu395Val,ENST00000409015,;TGOLN2,missense_variant,p.Leu395Val,ENST00000377386,;	C	ENSG00000152291	ENST00000409232	Transcript	missense_variant	1245	1183	395	L/V	Ctt/Gtt	.	.	.	-1	TGOLN2	HGNC	15450	protein_coding	YES	CCDS56126.1	ENSP00000386443	.	F8WBK2_HUMAN	UPI000020880A	.	deleterious(0)	possibly_damaging(0.801)	2/4	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR23211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACAAGAATGG	.	2	BLCA
POLR1A	0	.	GRCh37	2	86255102	86255102	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4968A>G	p.%3D	p.P1656P	ENST00000263857	33/34	82	64	18	85	85	0	POLR1A,synonymous_variant,p.%3D,ENST00000409681,;POLR1A,synonymous_variant,p.%3D,ENST00000263857,;POLR1A,non_coding_transcript_exon_variant,,ENST00000471427,;POLR1A,downstream_gene_variant,,ENST00000492034,;POLR1A,downstream_gene_variant,,ENST00000496892,;	C	ENSG00000068654	ENST00000263857	Transcript	synonymous_variant	5347	4968	1656	P	ccA/ccG	.	.	.	-1	POLR1A	HGNC	17264	protein_coding	YES	CCDS42706.1	ENSP00000263857	RPA1_HUMAN	Q96AG9_HUMAN,Q53T12_HUMAN,B7Z8X7_HUMAN	UPI0000D7DB86	.	.	.	33/34	.	hmmpanther:PTHR19376,hmmpanther:PTHR19376:SF11,Pfam_domain:PF04998,Superfamily_domains:SSF64484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCAGTGGCTT	.	5	BLCA
FABP1	0	.	GRCh37	2	88425770	88425770	+	Silent	SNP	C	C	G	rs373818427	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165G>C	p.%3D	p.G55G	ENST00000295834	2/4	304	294	10	357	357	0	FABP1,synonymous_variant,p.%3D,ENST00000295834,;FABP1,synonymous_variant,p.%3D,ENST00000393750,;FABP1,non_coding_transcript_exon_variant,,ENST00000495375,;FABP1,non_coding_transcript_exon_variant,,ENST00000472846,;	G	ENSG00000163586	ENST00000295834	Transcript	synonymous_variant	264	165	55	G	ggG/ggC	rs373818427,COSM3583880	.	.	-1	FABP1	HGNC	3555	protein_coding	YES	CCDS2001.1	ENSP00000295834	FABPL_HUMAN	Q6FGL7_HUMAN	UPI00000527AB	.	.	.	2/4	.	Superfamily_domains:SSF50814,Pfam_domain:PF14651,Gene3D:2.40.128.20,hmmpanther:PTHR11955:SF73,hmmpanther:PTHR11955	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGGACCCAGC	.	2	BLCA
CNGA3	0	.	GRCh37	2	99013389	99013389	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1756G>C	p.Glu586Gln	p.E586Q	ENST00000393504	8/8	54	44	10	55	55	0	CNGA3,missense_variant,p.Glu590Gln,ENST00000409937,;CNGA3,missense_variant,p.Glu568Gln,ENST00000436404,;CNGA3,missense_variant,p.Glu586Gln,ENST00000393504,;CNGA3,missense_variant,p.Glu586Gln,ENST00000272602,;	C	ENSG00000144191	ENST00000393504	Transcript	missense_variant	2173	1756	586	E/Q	Gag/Cag	.	.	.	1	CNGA3	HGNC	2150	protein_coding	YES	CCDS2034.1	ENSP00000377140	CNGA3_HUMAN	.	UPI000004717B	.	deleterious(0.01)	benign(0.236)	8/8	.	Superfamily_domains:SSF51206,SMART_domains:SM00100,Pfam_domain:PF00027,Gene3D:2.60.120.10,hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF390,PROSITE_profiles:PS50042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCATGGAGGCC	.	2	BLCA
GPR156	0	.	GRCh37	3	119887216	119887216	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1108G>A	p.Glu370Lys	p.E370K	ENST00000464295	10/10	97	92	5	112	112	0	GPR156,missense_variant,p.Glu370Lys,ENST00000315843,;GPR156,missense_variant,p.Glu366Lys,ENST00000461057,;GPR156,missense_variant,p.Glu370Lys,ENST00000464295,;GPR156,3_prime_UTR_variant,,ENST00000495912,;	T	ENSG00000175697	ENST00000464295	Transcript	missense_variant	1554	1108	370	E/K	Gaa/Aaa	.	.	.	-1	GPR156	HGNC	20844	protein_coding	YES	CCDS2997.1	ENSP00000417261	GP156_HUMAN	.	UPI000004731C	.	deleterious(0)	probably_damaging(0.998)	10/10	.	hmmpanther:PTHR10519,hmmpanther:PTHR10519:SF31,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTTCAATCA	.	2	BLCA
MUC13	0	.	GRCh37	3	124646669	124646669	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221G>C	p.Ser74Thr	p.S74T	ENST00000311075	2/12	132	104	28	155	155	0	MUC13,missense_variant,p.Ser74Thr,ENST00000311075,;MUC13,intron_variant,,ENST00000478191,;MUC13,downstream_gene_variant,,ENST00000497378,;MUC13,upstream_gene_variant,,ENST00000490147,;	G	ENSG00000173702	ENST00000311075	Transcript	missense_variant	260	221	74	S/T	aGt/aCt	.	.	.	-1	MUC13	HGNC	7511	protein_coding	YES	.	ENSP00000312235	MUC13_HUMAN	.	UPI00001AEF8F	.	tolerated(0.98)	unknown(0)	2/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24041,hmmpanther:PTHR24041:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTACTAATT	.	5	BLCA
MSL2	0	.	GRCh37	3	135870978	135870978	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.745A>G	p.Thr249Ala	p.T249A	ENST00000309993	2/2	57	51	6	68	68	0	MSL2,missense_variant,p.Thr249Ala,ENST00000309993,;MSL2,missense_variant,p.Thr175Ala,ENST00000434835,;MSL2,downstream_gene_variant,,ENST00000491050,;MSL2,downstream_gene_variant,,ENST00000473093,;PPP2R3A,downstream_gene_variant,,ENST00000264977,;MSL2,downstream_gene_variant,,ENST00000481989,;TDGF1P6,upstream_gene_variant,,ENST00000463873,;	C	ENSG00000174579	ENST00000309993	Transcript	missense_variant	1478	745	249	T/A	Aca/Gca	.	.	.	-1	MSL2	HGNC	25544	protein_coding	YES	CCDS33861.1	ENSP00000311827	MSL2_HUMAN	C9J5S2_HUMAN,C9IZG7_HUMAN,C9IZ03_HUMAN	UPI000020A2D7	.	tolerated(0.87)	benign(0)	2/2	.	hmmpanther:PTHR16048,hmmpanther:PTHR16048:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTGTGGAAC	.	4	BLCA
HLTF	0	.	GRCh37	3	148749927	148749927	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*80G>A	.	.	ENST00000310053	25/25	38	28	10	27	27	0	HLTF,3_prime_UTR_variant,,ENST00000465259,;HLTF,3_prime_UTR_variant,,ENST00000310053,;HLTF,intron_variant,,ENST00000494055,;HLTF,intron_variant,,ENST00000392912,;GYG1,downstream_gene_variant,,ENST00000484197,;HLTF,downstream_gene_variant,,ENST00000467858,;GYG1,downstream_gene_variant,,ENST00000296048,;GYG1,downstream_gene_variant,,ENST00000345003,;GYG1,downstream_gene_variant,,ENST00000479119,;HLTF,downstream_gene_variant,,ENST00000472830,;	T	ENSG00000071794	ENST00000310053	Transcript	3_prime_UTR_variant	3304	.	.	.	.	.	.	.	-1	HLTF	HGNC	11099	protein_coding	YES	CCDS33875.1	ENSP00000308944	HLTF_HUMAN	.	UPI0000161FA7	.	.	.	25/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGATCTCATT	.	5	BLCA
P2RY13	0	.	GRCh37	3	151045986	151045986	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858G>C	p.Lys286Asn	p.K286N	ENST00000325602	2/2	75	66	8	81	81	0	P2RY13,missense_variant,p.Lys286Asn,ENST00000325602,;MED12L,intron_variant,,ENST00000474524,;MED12L,intron_variant,,ENST00000480026,;MED12L,intron_variant,,ENST00000273432,;MED12L,intron_variant,,ENST00000491549,;MED12L,intron_variant,,ENST00000468305,;	G	ENSG00000181631	ENST00000325602	Transcript	missense_variant	878	858	286	K/N	aaG/aaC	.	.	.	-1	P2RY13	HGNC	4537	protein_coding	YES	CCDS3158.2	ENSP00000320376	P2Y13_HUMAN	.	UPI000020A470	.	tolerated(0.63)	benign(0.014)	2/2	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR24233,hmmpanther:PTHR24233:SF7,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAGTCTTATT	.	4	BLCA
IGSF10	0	.	GRCh37	3	151155432	151155432	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6917C>T	p.Ser2306Leu	p.S2306L	ENST00000282466	6/6	139	131	7	152	151	1	IGSF10,missense_variant,p.Ser2306Leu,ENST00000282466,;IGSF10,intron_variant,,ENST00000489791,;MED12L,downstream_gene_variant,,ENST00000474524,;MED12L,downstream_gene_variant,,ENST00000273432,;IGSF10,non_coding_transcript_exon_variant,,ENST00000495443,;IGSF10,non_coding_transcript_exon_variant,,ENST00000493841,;IGSF10,upstream_gene_variant,,ENST00000497472,;	A	ENSG00000152580	ENST00000282466	Transcript	missense_variant	6917	6917	2306	S/L	tCa/tTa	.	.	.	-1	IGSF10	HGNC	26384	protein_coding	YES	CCDS3160.1	ENSP00000282466	IGS10_HUMAN	.	UPI00001D629A	.	deleterious(0)	probably_damaging(0.989)	6/6	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF29,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00406,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCTGAAAGC	.	2	BLCA
MCF2L2	0	.	GRCh37	3	182897406	182897406	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3180A>G	p.%3D	p.E1060E	ENST00000328913	29/30	99	93	6	142	142	0	MCF2L2,synonymous_variant,p.%3D,ENST00000473233,;MCF2L2,synonymous_variant,p.%3D,ENST00000328913,;MCF2L2,downstream_gene_variant,,ENST00000468976,;MCF2L2,non_coding_transcript_exon_variant,,ENST00000478652,;MCF2L2,non_coding_transcript_exon_variant,,ENST00000464626,;	C	ENSG00000053524	ENST00000328913	Transcript	synonymous_variant	3478	3180	1060	E	gaA/gaG	.	.	.	-1	MCF2L2	HGNC	30319	protein_coding	YES	CCDS3243.1	ENSP00000328118	MF2L2_HUMAN	C9J326_HUMAN	UPI00001A962F	.	.	.	29/30	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTTTCTCC	.	2	BLCA
THPO	0	.	GRCh37	3	184090622	184090622	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.741G>C	p.%3D	p.L247L	ENST00000204615	6/6	84	79	5	91	91	0	THPO,missense_variant,p.Glu209Gln,ENST00000421442,;THPO,synonymous_variant,p.%3D,ENST00000204615,;THPO,synonymous_variant,p.%3D,ENST00000445696,;EIF2B5,intron_variant,,ENST00000444495,;POLR2H,downstream_gene_variant,,ENST00000430783,;POLR2H,downstream_gene_variant,,ENST00000429568,;POLR2H,downstream_gene_variant,,ENST00000455712,;POLR2H,downstream_gene_variant,,ENST00000296223,;POLR2H,downstream_gene_variant,,ENST00000456318,;POLR2H,downstream_gene_variant,,ENST00000438240,;POLR2H,downstream_gene_variant,,ENST00000443489,;POLR2H,downstream_gene_variant,,ENST00000452961,;THPO,downstream_gene_variant,,ENST00000477594,;POLR2H,downstream_gene_variant,,ENST00000488213,;POLR2H,downstream_gene_variant,,ENST00000476003,;POLR2H,downstream_gene_variant,,ENST00000489043,;	G	ENSG00000090534	ENST00000204615	Transcript	synonymous_variant	956	741	247	L	ctG/ctC	.	.	.	-1	THPO	HGNC	11795	protein_coding	YES	CCDS3265.1	ENSP00000204615	TPO_HUMAN	.	UPI000004A8D1	.	.	.	6/6	.	hmmpanther:PTHR10560	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTTCAGGTA	.	2	BLCA
MASP1	0	.	GRCh37	3	186943250	186943250	+	Missense_Mutation	SNP	C	C	T	rs148698841	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1603G>A	p.Val535Ile	p.V535I	ENST00000337774	13/16	128	118	10	153	153	0	MASP1,missense_variant,p.Val535Ile,ENST00000337774,;MASP1,downstream_gene_variant,,ENST00000468121,;	T	ENSG00000127241	ENST00000337774	Transcript	missense_variant	1993	1603	535	V/I	Gtc/Atc	rs148698841	.	.	-1	MASP1	HGNC	6901	protein_coding	.	CCDS33907.1	ENSP00000336792	MASP1_HUMAN	C9JLU5_HUMAN	UPI0000161FB8	.	tolerated(0.15)	benign(0.434)	13/16	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24255,hmmpanther:PTHR24255:SF13,Gene3D:2.40.10.10,Pfam_domain:PF00089,PIRSF_domain:PIRSF001155,SMART_domains:SM00020,Superfamily_domains:SSF50494	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTGACGCCGA	byCluster|by1000G	3	BLCA
IQCG	0	.	GRCh37	3	197639602	197639602	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.907G>A	p.Glu303Lys	p.E303K	ENST00000265239	9/12	164	151	13	207	206	1	IQCG,missense_variant,p.Glu303Lys,ENST00000455191,;IQCG,missense_variant,p.Glu303Lys,ENST00000265239,;IQCG,downstream_gene_variant,,ENST00000453254,;IQCG,non_coding_transcript_exon_variant,,ENST00000485787,;IQCG,non_coding_transcript_exon_variant,,ENST00000469822,;IQCG,downstream_gene_variant,,ENST00000473225,;IQCG,non_coding_transcript_exon_variant,,ENST00000478903,;IQCG,non_coding_transcript_exon_variant,,ENST00000490748,;	T	ENSG00000114473	ENST00000265239	Transcript	missense_variant	1332	907	303	E/K	Gaa/Aaa	.	.	.	-1	IQCG	HGNC	25251	protein_coding	YES	CCDS3331.1	ENSP00000265239	IQCG_HUMAN	C9JUC1_HUMAN,C9J6M9_HUMAN	UPI0000037D68	.	deleterious(0)	possibly_damaging(0.701)	9/12	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14871,hmmpanther:PTHR14871:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTTCGGTTT	.	2	BLCA
LMLN	0	.	GRCh37	3	197687151	197687151	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>T	p.Ser20Leu	p.S20L	ENST00000420910	1/17	40	32	7	41	41	0	LMLN,missense_variant,p.Ser20Leu,ENST00000330198,;LMLN,missense_variant,p.Ser20Leu,ENST00000420910,;LMLN,synonymous_variant,p.%3D,ENST00000332636,;LMLN,synonymous_variant,p.%3D,ENST00000482695,;LMLN,intron_variant,,ENST00000419117,;IQCG,upstream_gene_variant,,ENST00000265239,;RPL35A,downstream_gene_variant,,ENST00000464167,;RPL35A,downstream_gene_variant,,ENST00000448864,;IQCG,upstream_gene_variant,,ENST00000416896,;IQCG,upstream_gene_variant,,ENST00000480302,;LMLN,non_coding_transcript_exon_variant,,ENST00000451139,;IQCG,upstream_gene_variant,,ENST00000493624,;RPL35A,downstream_gene_variant,,ENST00000474640,;RPL35A,downstream_gene_variant,,ENST00000439255,;RPL35A,downstream_gene_variant,,ENST00000429437,;	T	ENSG00000185621	ENST00000420910	Transcript	missense_variant	59	59	20	S/L	tCg/tTg	.	.	.	1	LMLN	HGNC	15991	protein_coding	YES	CCDS46988.1	ENSP00000410926	LMLN_HUMAN	B4DR62_HUMAN	UPI000192C367	.	deleterious_low_confidence(0.02)	benign(0.004)	1/17	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACTCGGGCT	.	5	BLCA
ZCWPW2	0	.	GRCh37	3	28476669	28476669	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401T>C	p.Val134Ala	p.V134A	ENST00000383768	4/10	50	46	4	74	73	1	ZCWPW2,missense_variant,p.Val134Ala,ENST00000383768,;ZCWPW2,missense_variant,p.Val134Ala,ENST00000421010,;ZCWPW2,missense_variant,p.Val118Ala,ENST00000428875,;ZCWPW2,downstream_gene_variant,,ENST00000420223,;ZCWPW2,upstream_gene_variant,,ENST00000419130,;	C	ENSG00000206559	ENST00000383768	Transcript	missense_variant	589	401	134	V/A	gTt/gCt	.	.	.	1	ZCWPW2	HGNC	23574	protein_coding	YES	CCDS33723.1	ENSP00000373278	ZCPW2_HUMAN	C9JFK0_HUMAN	UPI0000161ABF	.	tolerated(0.08)	possibly_damaging(0.906)	4/10	.	Superfamily_domains:SSF63748,Pfam_domain:PF00855,Gene3D:2.30.30.160,hmmpanther:PTHR15999:SF3,hmmpanther:PTHR15999,PROSITE_profiles:PS50812	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAATGTTGAAG	.	3	BLCA
CCDC36	0	.	GRCh37	3	49293728	49293728	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798G>A	p.%3D	p.V266V	ENST00000438782	8/8	32	25	7	59	59	0	CCDC36,synonymous_variant,p.%3D,ENST00000438782,;CCDC36,synonymous_variant,p.%3D,ENST00000296449,;CCDC36,synonymous_variant,p.%3D,ENST00000452691,;RP11-3B7.1,upstream_gene_variant,,ENST00000440528,;RP11-3B7.7,upstream_gene_variant,,ENST00000604776,;	A	ENSG00000173421	ENST00000438782	Transcript	synonymous_variant	1034	798	266	V	gtG/gtA	.	.	.	1	CCDC36	HGNC	27945	protein_coding	YES	CCDS33755.2	ENSP00000391788	CCD36_HUMAN	.	UPI0000209CD2	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGTGAAAGA	.	5	BLCA
RFT1	0	.	GRCh37	3	53133453	53133453	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152C>T	p.%3D	p.I384I	ENST00000296292	11/13	55	50	5	75	75	0	RFT1,synonymous_variant,p.%3D,ENST00000296292,;RFT1,synonymous_variant,p.%3D,ENST00000394738,;RFT1,downstream_gene_variant,,ENST00000467048,;RP11-894J14.5,synonymous_variant,p.%3D,ENST00000607495,;RP11-894J14.5,synonymous_variant,p.%3D,ENST00000607283,;RP11-894J14.5,synonymous_variant,p.%3D,ENST00000607203,;RFT1,downstream_gene_variant,,ENST00000471158,;	A	ENSG00000163933	ENST00000296292	Transcript	synonymous_variant	1214	1152	384	I	atC/atT	.	.	.	-1	RFT1	HGNC	30220	protein_coding	YES	CCDS2869.1	ENSP00000296292	RFT1_HUMAN	.	UPI000000DA67	.	.	.	11/13	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13117,Pfam_domain:PF04506	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCATTGATGGC	.	3	BLCA
GPR15	0	.	GRCh37	3	98251739	98251739	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.862G>A	p.Gly288Arg	p.G288R	ENST00000284311	1/1	82	73	9	85	85	0	GPR15,missense_variant,p.Gly288Arg,ENST00000284311,;CPOX,intron_variant,,ENST00000512905,;	A	ENSG00000154165	ENST00000284311	Transcript	missense_variant	997	862	288	G/R	Gga/Aga	.	.	.	1	GPR15	HGNC	4469	protein_coding	YES	CCDS2931.1	ENSP00000284311	GPR15_HUMAN	B6V9G9_HUMAN	UPI0000000EAC	.	deleterious(0.03)	probably_damaging(0.971)	1/1	.	Transmembrane_helices:TMhelix,Prints_domain:PR00237,Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,hmmpanther:PTHR24228:SF10,hmmpanther:PTHR24228,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAGTGGACCC	.	4	BLCA
PITX2	0	.	GRCh37	4	111539548	111539548	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708A>G	p.%3D	p.S236S	ENST00000306732	3/3	49	46	3	43	43	0	PITX2,missense_variant,p.Ser161Gly,ENST00000394595,;PITX2,synonymous_variant,p.%3D,ENST00000394598,;PITX2,synonymous_variant,p.%3D,ENST00000354925,;PITX2,synonymous_variant,p.%3D,ENST00000355080,;PITX2,synonymous_variant,p.%3D,ENST00000511837,;PITX2,synonymous_variant,p.%3D,ENST00000306732,;PITX2,downstream_gene_variant,,ENST00000557119,;PITX2,downstream_gene_variant,,ENST00000511990,;RP11-380D23.2,upstream_gene_variant,,ENST00000513690,;RP11-380D23.2,upstream_gene_variant,,ENST00000503456,;PITX2,downstream_gene_variant,,ENST00000556049,;PITX2,non_coding_transcript_exon_variant,,ENST00000607868,;	C	ENSG00000164093	ENST00000306732	Transcript	synonymous_variant	1351	708	236	S	tcA/tcG	.	.	.	-1	PITX2	HGNC	9005	protein_coding	YES	CCDS3694.1	ENSP00000304169	PITX2_HUMAN	.	UPI000002B122	.	.	.	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24329:SF287,hmmpanther:PTHR24329,PIRSF_domain:PIRSF000563	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ACTGCTGAGGG	.	2	BLCA
HS3ST1	0	.	GRCh37	4	11401108	11401108	+	Missense_Mutation	SNP	G	G	C	rs776091605	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522C>G	p.Ile174Met	p.I174M	ENST00000002596	2/2	56	51	5	90	90	0	HS3ST1,missense_variant,p.Ile174Met,ENST00000002596,;HS3ST1,downstream_gene_variant,,ENST00000510712,;HS3ST1,downstream_gene_variant,,ENST00000514690,;	C	ENSG00000002587	ENST00000002596	Transcript	missense_variant	1697	522	174	I/M	atC/atG	rs776091605	.	.	-1	HS3ST1	HGNC	5194	protein_coding	YES	CCDS3408.1	ENSP00000002596	HS3S1_HUMAN	Q05CH3_HUMAN,E9PDE3_HUMAN	UPI0000072A23	.	deleterious(0.04)	probably_damaging(0.946)	2/2	.	hmmpanther:PTHR10605:SF16,hmmpanther:PTHR10605,Gene3D:3.40.50.300,Pfam_domain:PF00685,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCCTCGATGGA	byFrequency	3	BLCA
RAB28	0	.	GRCh37	4	13462410	13462410	+	Missense_Mutation	SNP	C	C	G	rs554015222	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304G>C	p.Glu102Gln	p.E102Q	ENST00000330852	4/7	47	37	9	68	68	0	RAB28,missense_variant,p.Glu17Gln,ENST00000510528,;RAB28,missense_variant,p.Glu102Gln,ENST00000288723,;RAB28,missense_variant,p.Glu102Gln,ENST00000330852,;RAB28,missense_variant,p.Glu25Gln,ENST00000511649,;RAB28,missense_variant,p.Glu102Gln,ENST00000338176,;RAB28,intron_variant,,ENST00000508274,;	G	ENSG00000157869	ENST00000330852	Transcript	missense_variant	519	304	102	E/Q	Gag/Cag	rs554015222	.	.	-1	RAB28	HGNC	9768	protein_coding	YES	CCDS33961.1	ENSP00000328551	RAB28_HUMAN	.	UPI00000741FF	.	tolerated(0.21)	benign(0.141)	4/7	.	Superfamily_domains:SSF52540,SMART_domains:SM00173,SMART_domains:SM00175,SMART_domains:SM00176,SMART_domains:SM00174,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,PROSITE_profiles:PS51419,hmmpanther:PTHR24073	T:0.0016	T:0	T:0	.	T:0	T:0	T:0.0082	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCAAAGC	byFrequency|by1000G	5	BLCA
TBC1D9	0	.	GRCh37	4	141598251	141598251	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856C>G	p.Leu286Val	p.L286V	ENST00000442267	6/21	81	75	6	105	105	0	TBC1D9,missense_variant,p.Leu286Val,ENST00000442267,;TBC1D9,non_coding_transcript_exon_variant,,ENST00000514787,;	C	ENSG00000109436	ENST00000442267	Transcript	missense_variant	931	856	286	L/V	Ctt/Gtt	.	.	.	-1	TBC1D9	HGNC	21710	protein_coding	YES	CCDS47136.1	ENSP00000411197	TBCD9_HUMAN	.	UPI00001C1E18	.	deleterious(0.02)	benign(0.248)	6/21	.	hmmpanther:PTHR22957:SF190,hmmpanther:PTHR22957	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCAAGATCAC	.	2	BLCA
USP38	0	.	GRCh37	4	144107020	144107020	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417G>A	p.%3D	p.P139P	ENST00000307017	1/10	49	37	12	43	43	0	USP38,synonymous_variant,p.%3D,ENST00000510377,;USP38,synonymous_variant,p.%3D,ENST00000307017,;RP11-284M14.1,upstream_gene_variant,,ENST00000507486,;RP11-284M14.1,upstream_gene_variant,,ENST00000507826,;USP38,synonymous_variant,p.%3D,ENST00000511739,;	A	ENSG00000170185	ENST00000307017	Transcript	synonymous_variant	923	417	139	P	ccG/ccA	.	.	.	1	USP38	HGNC	20067	protein_coding	YES	CCDS3758.1	ENSP00000303434	UBP38_HUMAN	B3KSB9_HUMAN	UPI0000047AF9	.	.	.	1/10	.	hmmpanther:PTHR24006:SF386,hmmpanther:PTHR24006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCGGAGCC	.	5	BLCA
DCHS2	0	.	GRCh37	4	155254126	155254126	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1737C>A	p.His579Gln	p.H579Q	ENST00000357232	9/25	53	32	21	99	99	0	DCHS2,missense_variant,p.His1078Gln,ENST00000339452,;DCHS2,missense_variant,p.His579Gln,ENST00000357232,;DCHS2,downstream_gene_variant,,ENST00000507542,;DCHS2,downstream_gene_variant,,ENST00000504580,;	T	ENSG00000197410	ENST00000357232	Transcript	missense_variant	1737	1737	579	H/Q	caC/caA	.	.	.	-1	DCHS2	HGNC	23111	protein_coding	YES	CCDS3785.1	ENSP00000349768	PCD23_HUMAN	B3KT73_HUMAN	UPI000035B018	.	tolerated(0.61)	benign(0)	9/25	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF257,Gene3D:2.60.40.60,SMART_domains:SM00112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTGTGTTC	.	5	BLCA
GUCY1A3	0	.	GRCh37	4	156618222	156618222	+	Missense_Mutation	SNP	G	G	A	rs148621325	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.203G>A	p.Arg68Gln	p.R68Q	ENST00000296518	3/10	61	57	4	119	119	0	GUCY1A3,missense_variant,p.Arg68Gln,ENST00000506455,;GUCY1A3,missense_variant,p.Arg68Gln,ENST00000455639,;GUCY1A3,missense_variant,p.Arg68Gln,ENST00000513574,;GUCY1A3,missense_variant,p.Arg68Gln,ENST00000296518,;GUCY1A3,missense_variant,p.Arg68Gln,ENST00000511507,;GUCY1A3,missense_variant,p.Arg68Gln,ENST00000511108,;GUCY1A3,5_prime_UTR_variant,,ENST00000393832,;GUCY1A3,non_coding_transcript_exon_variant,,ENST00000515602,;GUCY1A3,missense_variant,p.Arg68Gln,ENST00000515201,;GUCY1A3,missense_variant,p.Arg68Gln,ENST00000443668,;GUCY1A3,non_coding_transcript_exon_variant,,ENST00000512983,;GUCY1A3,intron_variant,,ENST00000509901,;	A	ENSG00000164116	ENST00000296518	Transcript	missense_variant	412	203	68	R/Q	cGa/cAa	rs148621325	.	.	1	GUCY1A3	HGNC	4685	protein_coding	YES	CCDS34085.1	ENSP00000296518	GCYA3_HUMAN	Q9NNW8_HUMAN,J3KPQ8_HUMAN	UPI0000033343	.	deleterious(0.01)	possibly_damaging(0.716)	3/10	.	hmmpanther:PTHR11920:SF226,hmmpanther:PTHR11920	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.0009	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GAGCCGAGTCT	byCluster|by1000G	2	BLCA
FGFR3	0	.	GRCh37	4	1801132	1801132	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262delC	p.Leu88TrpfsTer10	p.L88Wfs*10	ENST00000340107	3/18	29	24	5	27	27	0	FGFR3,frameshift_variant,p.Leu88TrpfsTer10,ENST00000352904,;FGFR3,frameshift_variant,p.Leu88TrpfsTer10,ENST00000412135,;FGFR3,frameshift_variant,p.Leu88TrpfsTer10,ENST00000440486,;FGFR3,frameshift_variant,p.Leu88TrpfsTer10,ENST00000481110,;FGFR3,frameshift_variant,p.Leu88TrpfsTer10,ENST00000260795,;FGFR3,frameshift_variant,p.Leu88TrpfsTer10,ENST00000340107,;FGFR3,upstream_gene_variant,,ENST00000507588,;FGFR3,upstream_gene_variant,,ENST00000474521,;	-	ENSG00000068078	ENST00000340107	Transcript	frameshift_variant	517	261	87	V/X	gtC/gt	.	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	.	.	3/18	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24416:SF128,hmmpanther:PTHR24416,Pfam_domain:PF00047,Gene3D:2.60.40.10,SMART_domains:SM00409,PIRSF_domain:PIRSF000628,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCGTGTCCTGGT	.	3	BLCA
IRF2	0	.	GRCh37	4	185309878	185309878	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*34C>T	.	.	ENST00000393593	9/9	47	44	3	86	86	0	IRF2,3_prime_UTR_variant,,ENST00000393593,;IRF2,downstream_gene_variant,,ENST00000502750,;IRF2,downstream_gene_variant,,ENST00000505067,;	A	ENSG00000168310	ENST00000393593	Transcript	3_prime_UTR_variant	1292	.	.	.	.	.	.	.	-1	IRF2	HGNC	6117	protein_coding	YES	CCDS3835.1	ENSP00000377218	IRF2_HUMAN	K4DIA5_HUMAN,D6RB08_HUMAN,D6R9N5_HUMAN	UPI000012D888	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAAGAAGCC	.	2	BLCA
N4BP2	0	.	GRCh37	4	40104297	40104297	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.832C>G	p.Gln278Glu	p.Q278E	ENST00000261435	4/18	57	46	10	90	90	0	N4BP2,missense_variant,p.Gln278Glu,ENST00000261435,;N4BP2,downstream_gene_variant,,ENST00000515550,;N4BP2,upstream_gene_variant,,ENST00000513269,;N4BP2,3_prime_UTR_variant,,ENST00000511480,;	G	ENSG00000078177	ENST00000261435	Transcript	missense_variant	1248	832	278	Q/E	Caa/Gaa	.	.	.	1	N4BP2	HGNC	29851	protein_coding	YES	CCDS3457.1	ENSP00000261435	N4BP2_HUMAN	D6R9J2_HUMAN	UPI00001A962C	.	tolerated(0.33)	benign(0.013)	4/18	.	hmmpanther:PTHR13308:SF16,hmmpanther:PTHR13308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTCAATTC	.	5	BLCA
NSUN7	0	.	GRCh37	4	40752969	40752969	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259C>T	p.Gln87Ter	p.Q87*	ENST00000381782	2/12	63	55	8	92	92	0	NSUN7,stop_gained,p.Gln87Ter,ENST00000381782,;NSUN7,stop_gained,p.Gln87Ter,ENST00000316607,;NSUN7,non_coding_transcript_exon_variant,,ENST00000473399,;	T	ENSG00000179299	ENST00000381782	Transcript	stop_gained	754	259	87	Q/*	Cag/Tag	.	.	.	1	NSUN7	HGNC	25857	protein_coding	YES	CCDS3461.2	ENSP00000371201	NSUN7_HUMAN	B4E1Z6_HUMAN	UPI000066D9E8	.	.	.	2/12	.	hmmpanther:PTHR14663:SF2,hmmpanther:PTHR14663	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAGCGT	.	4	BLCA
TMPRSS11E	0	.	GRCh37	4	69313176	69313176	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-55C>T	.	.	ENST00000305363	1/10	140	130	9	244	244	0	TMPRSS11E,5_prime_UTR_variant,,ENST00000305363,;	T	ENSG00000087128	ENST00000305363	Transcript	5_prime_UTR_variant	10	.	.	.	.	.	.	.	1	TMPRSS11E	HGNC	24465	protein_coding	YES	CCDS33993.1	ENSP00000307519	TM11E_HUMAN	Q4W5P3_HUMAN	UPI00000389F7	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGATTCACACA	.	2	BLCA
UGT2A3	0	.	GRCh37	4	69817335	69817335	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.144G>A	p.%3D	p.V48V	ENST00000251566	1/6	56	50	6	96	96	0	UGT2A3,synonymous_variant,p.%3D,ENST00000251566,;UGT2A3,upstream_gene_variant,,ENST00000420231,;UGT2A3,upstream_gene_variant,,ENST00000503012,;	T	ENSG00000135220	ENST00000251566	Transcript	synonymous_variant	175	144	48	V	gtG/gtA	COSM3605203	.	.	-1	UGT2A3	HGNC	28528	protein_coding	YES	CCDS3525.1	ENSP00000251566	UD2A3_HUMAN	F5GY78_HUMAN	UPI000004E644	.	.	.	1/6	.	Superfamily_domains:SSF53756,Pfam_domain:PF00201,hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF130	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCACTAT	.	4	BLCA
CCDC96	0	.	GRCh37	4	7043890	7043890	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.776G>A	p.Arg259Lys	p.R259K	ENST00000310085	1/1	64	54	10	116	116	0	CCDC96,missense_variant,p.Arg259Lys,ENST00000310085,;TADA2B,intron_variant,,ENST00000506692,;TADA2B,upstream_gene_variant,,ENST00000310074,;TADA2B,upstream_gene_variant,,ENST00000512388,;RP11-367J11.2,intron_variant,,ENST00000500031,;	T	ENSG00000173013	ENST00000310085	Transcript	missense_variant	839	776	259	R/K	aGa/aAa	.	.	.	-1	CCDC96	HGNC	26900	protein_coding	YES	CCDS3395.1	ENSP00000309285	CCD96_HUMAN	.	UPI00000705C9	.	tolerated(1)	benign(0.012)	1/1	.	hmmpanther:PTHR15654,hmmpanther:PTHR15654:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCTGCGC	.	5	BLCA
SULT1B1	0	.	GRCh37	4	70599967	70599967	+	Missense_Mutation	SNP	G	G	C	rs540095455	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391C>G	p.Arg131Gly	p.R131G	ENST00000310613	5/8	25	22	3	35	35	0	SULT1B1,missense_variant,p.Arg131Gly,ENST00000310613,;SULT1B1,missense_variant,p.Arg131Gly,ENST00000510821,;	C	ENSG00000173597	ENST00000310613	Transcript	missense_variant	689	391	131	R/G	Cgt/Ggt	rs540095455	.	.	-1	SULT1B1	HGNC	17845	protein_coding	YES	CCDS3530.1	ENSP00000308770	ST1B1_HUMAN	D6RIA8_HUMAN,D6RD70_HUMAN	UPI000006FDD9	.	deleterious(0)	probably_damaging(1)	5/8	.	hmmpanther:PTHR11783:SF14,hmmpanther:PTHR11783,Gene3D:3.40.50.300,Pfam_domain:PF00685,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTACGAGCCA	byFrequency|byCluster	2	BLCA
AFF1	0	.	GRCh37	4	88029382	88029382	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1448A>C	p.Asp483Ala	p.D483A	ENST00000395146	11/21	38	24	13	50	50	0	AFF1,missense_variant,p.Asp167Ala,ENST00000514970,;AFF1,missense_variant,p.Asp476Ala,ENST00000307808,;AFF1,missense_variant,p.Asp483Ala,ENST00000395146,;AFF1,missense_variant,p.Asp114Ala,ENST00000511722,;AFF1,missense_variant,p.Asp114Ala,ENST00000544085,;AFF1,downstream_gene_variant,,ENST00000503477,;	C	ENSG00000172493	ENST00000395146	Transcript	missense_variant	1723	1448	483	D/A	gAc/gCc	.	.	.	1	AFF1	HGNC	7135	protein_coding	YES	CCDS54775.1	ENSP00000378578	AFF1_HUMAN	Q712L1_HUMAN,F5GXF9_HUMAN,D6RIZ5_HUMAN,D6RAU0_HUMAN	UPI000013EC52	.	deleterious(0.03)	unknown(0)	11/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10528:SF14,hmmpanther:PTHR10528,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTGACTCAG	.	5	BLCA
SLCO4C1	0	.	GRCh37	5	101599431	101599431	+	Missense_Mutation	SNP	C	C	T	rs573882552	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856G>A	p.Gly286Arg	p.G286R	ENST00000310954	4/13	79	59	19	147	147	0	SLCO4C1,missense_variant,p.Gly286Arg,ENST00000310954,;	T	ENSG00000173930	ENST00000310954	Transcript	missense_variant	1143	856	286	G/R	Gga/Aga	rs573882552	.	.	-1	SLCO4C1	HGNC	23612	protein_coding	YES	CCDS34205.1	ENSP00000309741	SO4C1_HUMAN	Q63HP3_HUMAN	UPI00001C10B6	.	deleterious(0)	probably_damaging(0.952)	4/13	.	Superfamily_domains:SSF103473,Pfam_domain:PF03137,TIGRFAM_domain:TIGR00805,Gene3D:1.20.1250.20,hmmpanther:PTHR11388:SF81,hmmpanther:PTHR11388,PROSITE_profiles:PS50850,Transmembrane_helices:TMhelix	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTCCTCCCA	by1000G	5	BLCA
DAP	0	.	GRCh37	5	10748303	10748303	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136G>C	p.Glu46Gln	p.E46Q	ENST00000230895	2/4	73	66	7	67	67	0	DAP,missense_variant,p.Glu46Gln,ENST00000432074,;DAP,missense_variant,p.Glu46Gln,ENST00000230895,;DAP,non_coding_transcript_exon_variant,,ENST00000510546,;DAP,non_coding_transcript_exon_variant,,ENST00000508253,;DAP,non_coding_transcript_exon_variant,,ENST00000514882,;DAP,non_coding_transcript_exon_variant,,ENST00000508646,;	G	ENSG00000112977	ENST00000230895	Transcript	missense_variant	340	136	46	E/Q	Gaa/Caa	.	.	.	-1	DAP	HGNC	2672	protein_coding	YES	CCDS3880.1	ENSP00000230895	DAP1_HUMAN	.	UPI0000128E2E	.	tolerated(0.11)	benign(0.012)	2/4	.	Pfam_domain:PF15228,hmmpanther:PTHR13177:SF3,hmmpanther:PTHR13177,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATTCCTGGT	.	4	BLCA
WDR36	0	.	GRCh37	5	110445954	110445954	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1561T>C	p.Tyr521His	p.Y521H	ENST00000506538	13/23	75	69	6	127	127	0	WDR36,missense_variant,p.Tyr521His,ENST00000513710,;WDR36,missense_variant,p.Tyr521His,ENST00000506538,;WDR36,missense_variant,p.Tyr465His,ENST00000505303,;	C	ENSG00000134987	ENST00000506538	Transcript	missense_variant	2134	1561	521	Y/H	Tat/Cat	.	.	.	1	WDR36	HGNC	30696	protein_coding	YES	CCDS4102.1	ENSP00000423067	WDR36_HUMAN	D6RFM8_HUMAN	UPI000007018C	.	deleterious(0)	probably_damaging(0.992)	13/23	.	PROSITE_profiles:PS50294,hmmpanther:PTHR13889,hmmpanther:PTHR13889:SF2,Gene3D:2.130.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ATGTATATAAC	.	2	BLCA
FBN2	0	.	GRCh37	5	127873107	127873107	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190C>T	p.Arg64Cys	p.R64C	ENST00000508053	7/71	13	9	4	18	18	0	FBN2,missense_variant,p.Arg64Cys,ENST00000262464,;FBN2,missense_variant,p.Arg64Cys,ENST00000508053,;FBN2,missense_variant,p.Arg64Cys,ENST00000502468,;FBN2,missense_variant,p.Arg64Cys,ENST00000508989,;SLC27A6,upstream_gene_variant,,ENST00000508645,;FBN2,non_coding_transcript_exon_variant,,ENST00000514742,;	A	ENSG00000138829	ENST00000508053	Transcript	missense_variant	1165	190	64	R/C	Cgc/Tgc	.	.	.	-1	FBN2	HGNC	3604	protein_coding	YES	CCDS34222.1	ENSP00000424571	FBN2_HUMAN	.	UPI0000519468	.	tolerated(0.06)	unknown(0)	7/71	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF036312,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	CTCGCGATACT	.	4	BLCA
SLC25A48	0	.	GRCh37	5	135188350	135188350	+	Silent	SNP	C	C	T	rs141621757	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261C>T	p.%3D	p.L87L	ENST00000412661	4/5	59	53	6	102	102	0	SLC25A48,synonymous_variant,p.%3D,ENST00000420621,;SLC25A48,synonymous_variant,p.%3D,ENST00000433282,;SLC25A48,synonymous_variant,p.%3D,ENST00000412661,;SLC25A48,synonymous_variant,p.%3D,ENST00000274513,;SLC25A48,intron_variant,,ENST00000425402,;SLC25A48,3_prime_UTR_variant,,ENST00000462340,;	T	ENSG00000145832	ENST00000412661	Transcript	synonymous_variant	382	261	87	L	ctC/ctT	rs141621757,COSM108035	.	.	1	SLC25A48	HGNC	30451	protein_coding	YES	CCDS43366.2	ENSP00000413049	S2548_HUMAN	.	UPI000006FF97	.	.	.	4/5	.	hmmpanther:PTHR24089:SF229,hmmpanther:PTHR24089,Pfam_domain:PF00153,Gene3D:1okcA00,Superfamily_domains:0048588	.	.	.	.	.	.	.	.	.	not_provided	1,1	21499247	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTCAGCCA	byFrequency|byCluster	3	BLCA
IK	0	.	GRCh37	5	140027477	140027477	+	5'UTR	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-17G>T	.	.	ENST00000417647	1/20	75	63	11	97	97	0	IK,5_prime_UTR_variant,,ENST00000417647,;IK,5_prime_UTR_variant,,ENST00000508301,;IK,5_prime_UTR_variant,,ENST00000507593,;IK,intron_variant,,ENST00000513256,;NDUFA2,upstream_gene_variant,,ENST00000252102,;TMCO6,downstream_gene_variant,,ENST00000394671,;IK,upstream_gene_variant,,ENST00000502899,;TMCO6,downstream_gene_variant,,ENST00000252100,;NDUFA2,upstream_gene_variant,,ENST00000512088,;TMCO6,downstream_gene_variant,,ENST00000537378,;MIR3655,non_coding_transcript_exon_variant,,ENST00000581765,;IK,upstream_gene_variant,,ENST00000523672,;NDUFA2,upstream_gene_variant,,ENST00000510680,;IK,5_prime_UTR_variant,,ENST00000503332,;TMCO6,downstream_gene_variant,,ENST00000509269,;IK,upstream_gene_variant,,ENST00000512827,;NDUFA2,upstream_gene_variant,,ENST00000502960,;TMCO6,downstream_gene_variant,,ENST00000515653,;TMCO6,downstream_gene_variant,,ENST00000504069,;TMCO6,downstream_gene_variant,,ENST00000510336,;TMCO6,downstream_gene_variant,,ENST00000509605,;TMCO6,downstream_gene_variant,,ENST00000515265,;	T	ENSG00000113141	ENST00000417647	Transcript	5_prime_UTR_variant	123	.	.	.	.	.	.	.	1	IK	HGNC	5958	protein_coding	YES	CCDS47280.1	ENSP00000396301	RED_HUMAN	E7EQZ7_HUMAN,B4DEH2_HUMAN	UPI0000378337	.	.	.	1/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGCGAAAGA	.	5	BLCA
PCDHA3	0	.	GRCh37	5	140182034	140182034	+	Missense_Mutation	SNP	G	G	A	rs149312681	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1252G>A	p.Val418Met	p.V418M	ENST00000522353	1/4	173	130	43	208	208	0	PCDHA3,missense_variant,p.Val418Met,ENST00000532566,;PCDHA3,missense_variant,p.Val418Met,ENST00000522353,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA2,intron_variant,,ENST00000520672,;PCDHA4,upstream_gene_variant,,ENST00000530339,;PCDHA4,upstream_gene_variant,,ENST00000356878,;PCDHA4,upstream_gene_variant,,ENST00000512229,;PCDHA2,downstream_gene_variant,,ENST00000378132,;	A	ENSG00000255408	ENST00000522353	Transcript	missense_variant	1252	1252	418	V/M	Gtg/Atg	rs149312681	.	.	1	PCDHA3	HGNC	8669	protein_coding	YES	CCDS54915.1	ENSP00000429808	PCDA3_HUMAN	.	UPI00001273CB	.	tolerated_low_confidence(0.1)	possibly_damaging(0.466)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF93,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0008	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGCGTGTCG	byCluster|by1000G	5	BLCA
PCDHB5	0	.	GRCh37	5	140515333	140515333	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317T>G	p.Phe106Cys	p.F106C	ENST00000231134	1/1	69	27	41	98	97	0	PCDHB5,missense_variant,p.Phe106Cys,ENST00000231134,;	G	ENSG00000113209	ENST00000231134	Transcript	missense_variant	534	317	106	F/C	tTc/tGc	.	.	.	1	PCDHB5	HGNC	8690	protein_coding	YES	CCDS4247.1	ENSP00000231134	PCDB5_HUMAN	.	UPI00001273E1	.	deleterious_low_confidence(0)	probably_damaging(0.972)	1/1	.	Pfam_domain:PF08266,hmmpanther:PTHR24028:SF64,hmmpanther:PTHR24028,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTTCCAGC	.	5	BLCA
TRIO	0	.	GRCh37	5	14487801	14487801	+	Missense_Mutation	SNP	C	C	G	rs777447174	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7064C>G	p.Ser2355Cys	p.S2355C	ENST00000344204	48/57	21	8	13	18	18	0	TRIO,missense_variant,p.Ser2355Cys,ENST00000537187,;TRIO,missense_variant,p.Ser2355Cys,ENST00000344204,;TRIO,missense_variant,p.Ser2088Cys,ENST00000513206,;TRIO,upstream_gene_variant,,ENST00000344135,;TRIO,missense_variant,p.Ser2296Cys,ENST00000512070,;TRIO,non_coding_transcript_exon_variant,,ENST00000515144,;TRIO,non_coding_transcript_exon_variant,,ENST00000510281,;TRIO,upstream_gene_variant,,ENST00000503399,;	G	ENSG00000038382	ENST00000344204	Transcript	missense_variant	7088	7064	2355	S/C	tCt/tGt	rs777447174	.	.	1	TRIO	HGNC	12303	protein_coding	YES	CCDS3883.1	ENSP00000339299	TRIO_HUMAN	.	UPI000034ECE6	.	.	benign(0.216)	48/57	.	hmmpanther:PTHR22826:SF104,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTCTGCAG	byFrequency	5	BLCA
FAT2	0	.	GRCh37	5	150925467	150925467	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5221G>A	p.Asp1741Asn	p.D1741N	ENST00000261800	9/23	102	85	17	181	181	0	FAT2,missense_variant,p.Asp1741Asn,ENST00000261800,;	T	ENSG00000086570	ENST00000261800	Transcript	missense_variant	5234	5221	1741	D/N	Gat/Aat	.	.	.	-1	FAT2	HGNC	3596	protein_coding	YES	CCDS4317.1	ENSP00000261800	FAT2_HUMAN	.	UPI0000055B22	.	.	possibly_damaging(0.9)	9/23	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF37,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACATCAGTAA	.	4	BLCA
UIMC1	0	.	GRCh37	5	176378563	176378563	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1355C>G	p.Ser452Cys	p.S452C	ENST00000377227	9/15	111	104	7	213	213	0	UIMC1,missense_variant,p.Ser452Cys,ENST00000377219,;UIMC1,missense_variant,p.Ser452Cys,ENST00000511320,;UIMC1,missense_variant,p.Ser286Cys,ENST00000506128,;UIMC1,missense_variant,p.Ser452Cys,ENST00000377227,;UIMC1,non_coding_transcript_exon_variant,,ENST00000503273,;UIMC1,missense_variant,p.Ser171Cys,ENST00000510698,;UIMC1,3_prime_UTR_variant,,ENST00000512031,;	C	ENSG00000087206	ENST00000377227	Transcript	missense_variant	1488	1355	452	S/C	tCc/tGc	.	.	.	-1	UIMC1	HGNC	30298	protein_coding	YES	CCDS4408.1	ENSP00000366434	UIMC1_HUMAN	D6RDZ5_HUMAN,D6RC40_HUMAN,D6R9M3_HUMAN	UPI00001A9954	.	deleterious(0)	probably_damaging(0.959)	9/15	.	hmmpanther:PTHR15932,hmmpanther:PTHR15932:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGAGGAACTT	.	2	BLCA
C5orf45	0	.	GRCh37	5	179274980	179274980	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>A	p.%3D	p.L71L	ENST00000292586	3/7	105	89	15	149	149	0	C5orf45,synonymous_variant,p.%3D,ENST00000518219,;C5orf45,synonymous_variant,p.%3D,ENST00000292586,;C5orf45,synonymous_variant,p.%3D,ENST00000521333,;C5orf45,synonymous_variant,p.%3D,ENST00000403396,;C5orf45,synonymous_variant,p.%3D,ENST00000518235,;C5orf45,intron_variant,,ENST00000520698,;C5orf45,intron_variant,,ENST00000376931,;C5orf45,intron_variant,,ENST00000523084,;RN7SKP150,downstream_gene_variant,,ENST00000410516,;Y_RNA,upstream_gene_variant,,ENST00000516393,;C5orf45,upstream_gene_variant,,ENST00000523267,;C5orf45,downstream_gene_variant,,ENST00000517338,;C5orf45,synonymous_variant,p.%3D,ENST00000521299,;C5orf45,synonymous_variant,p.%3D,ENST00000519208,;C5orf45,splice_region_variant,,ENST00000523835,;C5orf45,splice_region_variant,,ENST00000522663,;C5orf45,splice_region_variant,,ENST00000519213,;C5orf45,splice_region_variant,,ENST00000520995,;C5orf45,splice_region_variant,,ENST00000524068,;C5orf45,splice_region_variant,,ENST00000522157,;C5orf45,non_coding_transcript_exon_variant,,ENST00000519318,;C5orf45,intron_variant,,ENST00000520150,;C5orf45,intron_variant,,ENST00000523737,;C5orf45,upstream_gene_variant,,ENST00000521675,;C5orf45,upstream_gene_variant,,ENST00000520900,;	T	ENSG00000161010	ENST00000292586	Transcript	synonymous_variant	304	213	71	L	ctC/ctA	.	.	.	-1	C5orf45	HGNC	30817	protein_coding	YES	CCDS34319.1	ENSP00000292586	CE045_HUMAN	E5RJC6_HUMAN	UPI000020CD05	.	.	.	3/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15863:SF2,hmmpanther:PTHR15863	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTGAGTGG	.	4	BLCA
PDZD2	0	.	GRCh37	5	32101003	32101003	+	Intron	SNP	C	C	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8219-208C>A	.	.	ENST00000438447	.	30	26	4	29	29	0	PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000282493,;CTD-2152M20.2,downstream_gene_variant,,ENST00000503441,;PDZD2,non_coding_transcript_exon_variant,,ENST00000515115,;PDZD2,non_coding_transcript_exon_variant,,ENST00000513490,;PDZD2,non_coding_transcript_exon_variant,,ENST00000397559,;	A	ENSG00000133401	ENST00000438447	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	PDZD2	HGNC	18486	protein_coding	YES	CCDS34137.1	ENSP00000402033	PDZD2_HUMAN	B4DGS3_HUMAN	UPI000069648B	.	.	.	.	23/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCAACACAGC	.	2	BLCA
SKP2	0	.	GRCh37	5	36168486	36168486	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608C>T	p.Ser203Phe	p.S203F	ENST00000274255	5/10	214	204	10	181	181	0	SKP2,missense_variant,p.Ser203Phe,ENST00000274254,;SKP2,missense_variant,p.Ser203Phe,ENST00000274255,;SKP2,intron_variant,,ENST00000508514,;SKP2,intron_variant,,ENST00000546211,;SKP2,intron_variant,,ENST00000513151,;SKP2,3_prime_UTR_variant,,ENST00000513263,;SKP2,intron_variant,,ENST00000509692,;SKP2,intron_variant,,ENST00000504386,;	T	ENSG00000145604	ENST00000274255	Transcript	missense_variant	804	608	203	S/F	tCt/tTt	.	.	.	1	SKP2	HGNC	10901	protein_coding	YES	CCDS3916.1	ENSP00000274255	SKP2_HUMAN	.	UPI0000073D61	.	tolerated(0.16)	possibly_damaging(0.814)	5/10	.	hmmpanther:PTHR23125:SF34,hmmpanther:PTHR23125,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTGTCTCAGT	.	2	BLCA
TTC33	0	.	GRCh37	5	40747077	40747077	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44C>T	p.Ser15Leu	p.S15L	ENST00000337702	2/5	72	58	13	80	80	0	TTC33,missense_variant,p.Ser15Leu,ENST00000337702,;TTC33,non_coding_transcript_exon_variant,,ENST00000511730,;TTC33,non_coding_transcript_exon_variant,,ENST00000504251,;TTC33,non_coding_transcript_exon_variant,,ENST00000503936,;	A	ENSG00000113638	ENST00000337702	Transcript	missense_variant	197	44	15	S/L	tCa/tTa	.	.	.	-1	TTC33	HGNC	29959	protein_coding	YES	CCDS3931.1	ENSP00000338533	TTC33_HUMAN	.	UPI000006D413	.	deleterious(0.05)	probably_damaging(0.962)	2/5	.	hmmpanther:PTHR15544:SF0,hmmpanther:PTHR15544	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTGAGACC	.	5	BLCA
DDX4	0	.	GRCh37	5	55063741	55063741	+	Missense_Mutation	SNP	C	C	T	rs374972771	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367C>T	p.Arg123Trp	p.R123W	ENST00000505374	7/22	35	32	3	61	61	0	DDX4,missense_variant,p.Arg123Trp,ENST00000353507,;DDX4,missense_variant,p.Arg97Trp,ENST00000515709,;DDX4,missense_variant,p.Arg24Trp,ENST00000511853,;DDX4,missense_variant,p.Arg123Trp,ENST00000354991,;DDX4,missense_variant,p.Arg123Trp,ENST00000511491,;DDX4,missense_variant,p.Arg123Trp,ENST00000505374,;DDX4,missense_variant,p.Arg123Trp,ENST00000514679,;DDX4,intron_variant,,ENST00000514278,;DDX4,intron_variant,,ENST00000506511,;DDX4,downstream_gene_variant,,ENST00000506848,;DDX4,non_coding_transcript_exon_variant,,ENST00000508580,;SLC38A9,intron_variant,,ENST00000504880,;DDX4,missense_variant,p.Arg24Trp,ENST00000507645,;DDX4,missense_variant,p.Arg29Trp,ENST00000503129,;	T	ENSG00000152670	ENST00000505374	Transcript	missense_variant	459	367	123	R/W	Cgg/Tgg	rs374972771,COSM1582658,COSM1582656,COSM1582657	.	.	1	DDX4	HGNC	18700	protein_coding	YES	CCDS3969.1	ENSP00000424838	DDX4_HUMAN	D6RBL3_HUMAN,D6RAF5_HUMAN	UPI00001290D3	.	tolerated_low_confidence(0.05)	benign(0.006)	7/22	.	.	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R123W|c.367C>T|4,SITE|p.R123W|c.367C>T|4,SITE|p.R24W|c.70C>T|4	RADIA|MUTECT|MUSE|VARSCANS	CAACACGGAAC	byFrequency|byCluster	4	BLCA
IL6ST	0	.	GRCh37	5	55253063	55253063	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1030T>C	p.Tyr344His	p.Y344H	ENST00000381298	9/17	43	39	4	103	103	0	IL6ST,missense_variant,p.Tyr344His,ENST00000336909,;IL6ST,missense_variant,p.Tyr344His,ENST00000381298,;IL6ST,missense_variant,p.Tyr344His,ENST00000381294,;IL6ST,missense_variant,p.Tyr344His,ENST00000502326,;IL6ST,intron_variant,,ENST00000522633,;IL6ST,intron_variant,,ENST00000381287,;IL6ST,intron_variant,,ENST00000381293,;IL6ST,intron_variant,,ENST00000536319,;IL6ST,intron_variant,,ENST00000381286,;IL6ST,3_prime_UTR_variant,,ENST00000503773,;IL6ST,non_coding_transcript_exon_variant,,ENST00000506241,;	G	ENSG00000134352	ENST00000381298	Transcript	missense_variant	1343	1030	344	Y/H	Tac/Cac	.	.	.	-1	IL6ST	HGNC	6021	protein_coding	YES	CCDS3971.1	ENSP00000370698	IL6RB_HUMAN	.	UPI000013CF29	.	tolerated(0.5)	benign(0.002)	9/17	.	PROSITE_profiles:PS50853,hmmpanther:PTHR23036:SF25,hmmpanther:PTHR23036,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCTGTAGCCTT	.	3	BLCA
RHOBTB3	0	.	GRCh37	5	95067330	95067330	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-57G>A	.	.	ENST00000379982	1/12	11	8	3	25	25	0	RHOBTB3,5_prime_UTR_variant,,ENST00000379982,;RHOBTB3,5_prime_UTR_variant,,ENST00000506817,;RHOBTB3,intron_variant,,ENST00000506959,;CTD-2154I11.2,intron_variant,,ENST00000512486,;CTD-2154I11.2,intron_variant,,ENST00000513235,;RHOBTB3,intron_variant,,ENST00000510226,;RHOBTB3,intron_variant,,ENST00000515852,;RHOBTB3,intron_variant,,ENST00000504949,;RHOBTB3,upstream_gene_variant,,ENST00000510623,;RHOBTB3,upstream_gene_variant,,ENST00000512878,;	A	ENSG00000164292	ENST00000379982	Transcript	5_prime_UTR_variant	452	.	.	.	.	.	.	.	1	RHOBTB3	HGNC	18757	protein_coding	YES	CCDS4077.1	ENSP00000369318	RHBT3_HUMAN	.	UPI0000367303	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCGCGAAGCC	.	2	BLCA
SGK1	0	.	GRCh37	6	134493443	134493443	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.959C>A	p.Pro320Gln	p.P320Q	ENST00000367858	10/14	52	42	10	107	107	0	SGK1,missense_variant,p.Pro225Gln,ENST00000237305,;SGK1,missense_variant,p.Pro320Gln,ENST00000367858,;SGK1,missense_variant,p.Pro253Gln,ENST00000528577,;SGK1,missense_variant,p.Pro239Gln,ENST00000413996,;SGK1,missense_variant,p.Pro215Gln,ENST00000367857,;SGK1,missense_variant,p.Pro181Gln,ENST00000475719,;SGK1,downstream_gene_variant,,ENST00000461976,;SGK1,non_coding_transcript_exon_variant,,ENST00000489458,;SGK1,downstream_gene_variant,,ENST00000524387,;SGK1,downstream_gene_variant,,ENST00000531575,;SGK1,non_coding_transcript_exon_variant,,ENST00000474427,;SGK1,non_coding_transcript_exon_variant,,ENST00000477460,;SGK1,non_coding_transcript_exon_variant,,ENST00000525877,;SGK1,non_coding_transcript_exon_variant,,ENST00000367855,;SGK1,downstream_gene_variant,,ENST00000534658,;SGK1,downstream_gene_variant,,ENST00000524764,;SGK1,upstream_gene_variant,,ENST00000531782,;SGK1,downstream_gene_variant,,ENST00000530421,;SGK1,downstream_gene_variant,,ENST00000532021,;SGK1,upstream_gene_variant,,ENST00000473704,;SGK1,downstream_gene_variant,,ENST00000472859,;SGK1,downstream_gene_variant,,ENST00000532856,;SGK1,downstream_gene_variant,,ENST00000475882,;SGK1,downstream_gene_variant,,ENST00000490149,;SGK1,downstream_gene_variant,,ENST00000525700,;	T	ENSG00000118515	ENST00000367858	Transcript	missense_variant	1557	959	320	P/Q	cCa/cAa	.	.	.	-1	SGK1	HGNC	10810	protein_coding	YES	CCDS47476.1	ENSP00000356832	SGK1_HUMAN	E9PP33_HUMAN,E9PJN2_HUMAN,B7Z1G1_HUMAN	UPI000013CA0E	.	deleterious(0)	probably_damaging(0.978)	10/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24356:SF148,hmmpanther:PTHR24356,PROSITE_patterns:PS00108,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGGTTTT	.	5	BLCA
UNC93A	0	.	GRCh37	6	167728920	167728920	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1354G>C	p.Glu452Gln	p.E452Q	ENST00000230256	8/8	100	95	5	154	154	0	UNC93A,missense_variant,p.Glu410Gln,ENST00000366829,;UNC93A,missense_variant,p.Glu452Gln,ENST00000230256,;	C	ENSG00000112494	ENST00000230256	Transcript	missense_variant	1529	1354	452	E/Q	Gaa/Caa	.	.	.	1	UNC93A	HGNC	12570	protein_coding	YES	CCDS5300.1	ENSP00000230256	UN93A_HUMAN	D6RFH7_HUMAN	UPI0000062351	.	tolerated(0.39)	benign(0.039)	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAAGAAATA	.	2	BLCA
NUP153	0	.	GRCh37	6	17637526	17637526	+	Silent	SNP	A	A	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2322T>G	p.%3D	p.S774S	ENST00000262077	16/22	87	79	8	94	94	0	NUP153,synonymous_variant,p.%3D,ENST00000537253,;NUP153,synonymous_variant,p.%3D,ENST00000262077,;	C	ENSG00000124789	ENST00000262077	Transcript	synonymous_variant	2322	2322	774	S	tcT/tcG	.	.	.	-1	NUP153	HGNC	8062	protein_coding	YES	CCDS4541.1	ENSP00000262077	NU153_HUMAN	.	UPI000013D251	.	.	.	16/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23193,hmmpanther:PTHR23193:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGAAGATGA	.	4	BLCA
HIST1H3E	0	.	GRCh37	6	26225698	26225698	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316G>A	p.Glu106Lys	p.E106K	ENST00000360408	1/1	73	57	16	81	81	0	HIST1H3E,missense_variant,p.Glu106Lys,ENST00000360408,;	A	ENSG00000196966	ENST00000360408	Transcript	missense_variant	316	316	106	E/K	Gag/Aag	COSM3860943	.	.	1	HIST1H3E	HGNC	4769	protein_coding	YES	CCDS4596.1	ENSP00000353581	H31_HUMAN	.	UPI00000003C7	.	deleterious_low_confidence(0)	probably_damaging(0.986)	1/1	.	hmmpanther:PTHR11426,Gene3D:1.10.20.10,Pfam_domain:PF00125,SMART_domains:SM00428,Superfamily_domains:SSF47113,Prints_domain:PR00622	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTCGAGGAC	.	5	BLCA
BTN2A2	0	.	GRCh37	6	26393148	26393148	+	Missense_Mutation	SNP	G	G	A	rs114098566	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1525G>A	p.Glu509Lys	p.E509K	ENST00000356709	8/8	59	47	11	53	53	0	BTN2A2,missense_variant,p.Glu509Lys,ENST00000356709,;BTN2A2,missense_variant,p.Glu393Lys,ENST00000352867,;BTN2A2,missense_variant,p.Glu509Lys,ENST00000416795,;BTN2A2,missense_variant,p.Glu299Lys,ENST00000482536,;BTN2A2,3_prime_UTR_variant,,ENST00000495632,;BTN2A2,3_prime_UTR_variant,,ENST00000432533,;BTN2A2,intron_variant,,ENST00000469230,;BTN2A2,downstream_gene_variant,,ENST00000472507,;BTN2A2,downstream_gene_variant,,ENST00000490025,;BTN2A2,downstream_gene_variant,,ENST00000482842,;BTN2A2,downstream_gene_variant,,ENST00000493275,;BTN2A2,downstream_gene_variant,,ENST00000483410,;BTN2A2,downstream_gene_variant,,ENST00000471116,;BTN2A2,downstream_gene_variant,,ENST00000467485,;	A	ENSG00000124508	ENST00000356709	Transcript	missense_variant	1636	1525	509	E/K	Gaa/Aaa	rs114098566	.	.	1	BTN2A2	HGNC	1137	protein_coding	YES	CCDS4606.1	ENSP00000349143	BT2A2_HUMAN	C9JAJ6_HUMAN,C9J8R3_HUMAN,C9IZY2_HUMAN,C9IY66_HUMAN	UPI00000480EA	.	deleterious(0.04)	benign(0.033)	8/8	.	.	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0003	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTGAAGAG	byCluster|by1000G	5	BLCA
HIST1H4I	0	.	GRCh37	6	27107237	27107237	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.150C>T	p.%3D	p.L50L	ENST00000354348	1/1	76	65	11	64	64	0	HIST1H4I,synonymous_variant,p.%3D,ENST00000354348,;HIST1H2BK,intron_variant,,ENST00000396891,;HIST1H2AG,downstream_gene_variant,,ENST00000359193,;	T	ENSG00000198339	ENST00000354348	Transcript	synonymous_variant	162	150	50	L	ctC/ctT	.	.	.	1	HIST1H4I	HGNC	4793	protein_coding	YES	CCDS4620.1	ENSP00000346316	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	.	.	1/1	.	hmmpanther:PTHR10484,Gene3D:1.10.20.10,Pfam_domain:PF00125,SMART_domains:SM00803,SMART_domains:SM00417,Superfamily_domains:SSF47113,Prints_domain:PR00623	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCATCTA	.	4	BLCA
SCAND3	0	.	GRCh37	6	28554245	28554245	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Glu84Lys	p.E84K	ENST00000452236	1/4	81	68	13	60	60	0	SCAND3,missense_variant,p.Glu84Lys,ENST00000452236,;SCAND3,non_coding_transcript_exon_variant,,ENST00000526291,;SCAND3,intron_variant,,ENST00000530247,;SCAND3,downstream_gene_variant,,ENST00000524745,;RP5-1186N24.3,upstream_gene_variant,,ENST00000499525,;	T	ENSG00000232040	ENST00000452236	Transcript	missense_variant	868	250	84	E/K	Gag/Aag	.	.	.	-1	SCAND3	HGNC	13851	protein_coding	YES	CCDS34355.1	ENSP00000395259	SCND3_HUMAN	.	UPI00001618B7	.	deleterious_low_confidence(0)	probably_damaging(0.975)	1/4	.	PROSITE_profiles:PS50804,hmmpanther:PTHR11697,hmmpanther:PTHR11697:SF90,Pfam_domain:PF02023,SMART_domains:SM00431,Superfamily_domains:SSF47353	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCTCTGGGT	.	5	BLCA
TRIM27	0	.	GRCh37	6	28889711	28889711	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>A	p.%3D	p.K158K	ENST00000377199	2/8	116	109	6	142	142	0	TRIM27,synonymous_variant,p.%3D,ENST00000377199,;TRIM27,synonymous_variant,p.%3D,ENST00000377194,;TRIM27,non_coding_transcript_exon_variant,,ENST00000498117,;TRIM27,upstream_gene_variant,,ENST00000496091,;TRIM27,non_coding_transcript_exon_variant,,ENST00000481474,;	T	ENSG00000204713	ENST00000377199	Transcript	synonymous_variant	831	474	158	K	aaG/aaA	.	.	.	-1	TRIM27	HGNC	9975	protein_coding	YES	CCDS4654.1	ENSP00000366404	TRI27_HUMAN	Q9NZT8_HUMAN	UPI0000000DCE	.	.	.	2/8	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24103:SF271,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTCTCTTCTT	.	2	BLCA
TRIM26	0	.	GRCh37	6	30153743	30153743	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1530C>T	p.%3D	p.L510L	ENST00000454678	10/10	24	19	5	19	19	0	TRIM26,synonymous_variant,p.%3D,ENST00000454678,;TRIM26,synonymous_variant,p.%3D,ENST00000453195,;TRIM26,synonymous_variant,p.%3D,ENST00000437089,;TRIM26,non_coding_transcript_exon_variant,,ENST00000480999,;PAIP1P1,downstream_gene_variant,,ENST00000446875,;	A	ENSG00000234127	ENST00000454678	Transcript	synonymous_variant	1967	1530	510	L	ctC/ctT	.	.	.	-1	TRIM26	HGNC	12962	protein_coding	YES	CCDS4678.1	ENSP00000410446	TRI26_HUMAN	Q5SPU2_HUMAN,A2AE50_HUMAN,A2AE48_HUMAN	UPI0000001C20	.	.	.	10/10	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF277,hmmpanther:PTHR24103,Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899,Prints_domain:PR01407	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGATGAGTTC	.	4	BLCA
BRPF3	0	.	GRCh37	6	36168787	36168787	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>T	p.Leu230Phe	p.L230F	ENST00000357641	2/13	47	44	3	71	71	0	BRPF3,missense_variant,p.Leu230Phe,ENST00000443324,;BRPF3,missense_variant,p.Leu230Phe,ENST00000357641,;BRPF3,missense_variant,p.Leu230Phe,ENST00000534694,;BRPF3,missense_variant,p.Leu230Phe,ENST00000543502,;BRPF3,missense_variant,p.Leu230Phe,ENST00000339717,;BRPF3,missense_variant,p.Leu230Phe,ENST00000534400,;BRPF3,downstream_gene_variant,,ENST00000446974,;BRPF3,downstream_gene_variant,,ENST00000454960,;BRPF3,upstream_gene_variant,,ENST00000527657,;RP1-179N16.6,upstream_gene_variant,,ENST00000526611,;RP1-179N16.6,upstream_gene_variant,,ENST00000499560,;BRPF3,missense_variant,p.Leu203Phe,ENST00000441123,;BRPF3,missense_variant,p.Leu230Phe,ENST00000449261,;BRPF3,missense_variant,p.Leu230Phe,ENST00000532330,;	T	ENSG00000096070	ENST00000357641	Transcript	missense_variant	941	688	230	L/F	Ctc/Ttc	.	.	.	1	BRPF3	HGNC	14256	protein_coding	YES	CCDS34437.1	ENSP00000350267	BRPF3_HUMAN	A8WI62_HUMAN,A8WI61_HUMAN	UPI00001C1E4C	.	deleterious(0)	probably_damaging(1)	2/13	.	PROSITE_profiles:PS50016,hmmpanther:PTHR13793,hmmpanther:PTHR13793:SF19,PROSITE_patterns:PS01359,Pfam_domain:PF13831,Gene3D:3.30.40.10,SMART_domains:SM00249,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTATTCTCTTC	.	2	BLCA
DNAH8	0	.	GRCh37	6	38976676	38976676	+	Missense_Mutation	SNP	G	G	C	rs267601022	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12650G>C	p.Arg4217Pro	p.R4217P	ENST00000359357	87/91	97	58	38	153	153	0	DNAH8,missense_variant,p.Arg4217Pro,ENST00000359357,;DNAH8,missense_variant,p.Arg4422Pro,ENST00000327475,;DNAH8,missense_variant,p.Arg4181Pro,ENST00000441566,;	C	ENSG00000124721	ENST00000359357	Transcript	missense_variant	12904	12650	4217	R/P	cGg/cCg	rs267601022	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	probably_damaging(1)	87/91	.	Pfam_domain:PF03028,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCCGGGAGG	byFrequency|byCluster	5	BLCA
MOCS1	0	.	GRCh37	6	39895180	39895180	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138G>A	p.%3D	p.R46R	ENST00000373186	1/10	29	24	5	38	38	0	MOCS1,synonymous_variant,p.%3D,ENST00000425303,;MOCS1,synonymous_variant,p.%3D,ENST00000373188,;MOCS1,synonymous_variant,p.%3D,ENST00000373175,;MOCS1,synonymous_variant,p.%3D,ENST00000340692,;MOCS1,synonymous_variant,p.%3D,ENST00000308559,;MOCS1,synonymous_variant,p.%3D,ENST00000373186,;MOCS1,synonymous_variant,p.%3D,ENST00000432280,;MOCS1,intron_variant,,ENST00000373195,;MOCS1,synonymous_variant,p.%3D,ENST00000487924,;MOCS1,5_prime_UTR_variant,,ENST00000373181,;MOCS1,intron_variant,,ENST00000473742,;	T	ENSG00000124615	ENST00000373186	Transcript	synonymous_variant	276	138	46	R	cgG/cgA	.	.	.	-1	MOCS1	HGNC	7190	protein_coding	YES	CCDS4846.1	ENSP00000362282	MOCS1_HUMAN	Q9NP27_HUMAN	UPI000006FA21	.	.	.	1/10	.	hmmpanther:PTHR22960:SF0,hmmpanther:PTHR22960	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCCGCCT	.	5	BLCA
LRRC73	0	.	GRCh37	6	43477448	43477448	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76C>A	p.Arg26Ser	p.R26S	ENST00000372441	1/6	17	14	3	16	16	0	LRRC73,missense_variant,p.Arg26Ser,ENST00000372441,;POLR1C,5_prime_UTR_variant,,ENST00000428025,;TJAP1,downstream_gene_variant,,ENST00000372449,;TJAP1,downstream_gene_variant,,ENST00000438588,;TJAP1,downstream_gene_variant,,ENST00000372445,;YIPF3,downstream_gene_variant,,ENST00000506469,;YIPF3,downstream_gene_variant,,ENST00000503972,;TJAP1,downstream_gene_variant,,ENST00000259751,;TJAP1,downstream_gene_variant,,ENST00000436109,;YIPF3,downstream_gene_variant,,ENST00000372422,;YIPF3,downstream_gene_variant,,ENST00000500090,;TJAP1,downstream_gene_variant,,ENST00000372444,;TJAP1,downstream_gene_variant,,ENST00000372452,;TJAP1,downstream_gene_variant,,ENST00000454762,;YIPF3,downstream_gene_variant,,ENST00000511831,;TJAP1,downstream_gene_variant,,ENST00000483640,;YIPF3,downstream_gene_variant,,ENST00000488966,;YIPF3,downstream_gene_variant,,ENST00000503147,;YIPF3,downstream_gene_variant,,ENST00000502714,;YIPF3,downstream_gene_variant,,ENST00000512713,;YIPF3,downstream_gene_variant,,ENST00000490447,;YIPF3,downstream_gene_variant,,ENST00000510102,;YIPF3,downstream_gene_variant,,ENST00000455768,;YIPF3,downstream_gene_variant,,ENST00000514627,;YIPF3,downstream_gene_variant,,ENST00000372417,;YIPF3,downstream_gene_variant,,ENST00000416380,;YIPF3,downstream_gene_variant,,ENST00000460547,;	T	ENSG00000204052	ENST00000372441	Transcript	missense_variant	977	76	26	R/S	Cgc/Agc	.	.	.	-1	LRRC73	HGNC	21375	protein_coding	YES	CCDS34456.1	ENSP00000361518	LRC73_HUMAN	B3KX61_HUMAN	UPI000015FBAC	.	tolerated(0.07)	benign(0.095)	1/6	.	Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR25480:SF182,hmmpanther:PTHR25480	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCGCGAAGGC	.	2	BLCA
POLH	0	.	GRCh37	6	43565432	43565432	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.491-1G>T	.	p.X164_splice	ENST00000372236	.	46	43	3	64	64	0	POLH,splice_acceptor_variant,,ENST00000372226,;POLH,splice_acceptor_variant,,ENST00000535400,;POLH,splice_acceptor_variant,,ENST00000372236,;	T	ENSG00000170734	ENST00000372236	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	POLH	HGNC	9181	protein_coding	YES	CCDS4902.1	ENSP00000361310	POLH_HUMAN	Q5JTF2_HUMAN,B4DG64_HUMAN,B3KN75_HUMAN	UPI000006F8FD	.	.	.	.	4/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCAGAGGGG	.	2	BLCA
CAPN11	0	.	GRCh37	6	44145133	44145133	+	Missense_Mutation	SNP	G	G	T	rs751377623	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1392G>T	p.Gln464His	p.Q464H	ENST00000398776	12/23	30	21	9	32	32	0	CAPN11,missense_variant,p.Gln464His,ENST00000398776,;CAPN11,missense_variant,p.Gln464His,ENST00000542245,;CAPN11,non_coding_transcript_exon_variant,,ENST00000533604,;CAPN11,non_coding_transcript_exon_variant,,ENST00000524554,;	T	ENSG00000137225	ENST00000398776	Transcript	missense_variant	1430	1392	464	Q/H	caG/caT	rs751377623	.	.	1	CAPN11	HGNC	1478	protein_coding	YES	CCDS47436.1	ENSP00000381758	CAN11_HUMAN	.	UPI00000383D5	.	tolerated(0.6)	benign(0.013)	12/23	.	hmmpanther:PTHR10183:SF269,hmmpanther:PTHR10183,Gene3D:2.60.120.380,Pfam_domain:PF01067,SMART_domains:SM00720,Superfamily_domains:SSF49758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGACCAT	.	5	BLCA
PLA2G7	0	.	GRCh37	6	46678360	46678360	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.699C>T	p.%3D	p.L233L	ENST00000274793	8/12	51	44	7	87	87	0	PLA2G7,synonymous_variant,p.%3D,ENST00000538237,;PLA2G7,synonymous_variant,p.%3D,ENST00000541026,;PLA2G7,synonymous_variant,p.%3D,ENST00000537365,;PLA2G7,synonymous_variant,p.%3D,ENST00000274793,;	A	ENSG00000146070	ENST00000274793	Transcript	synonymous_variant	896	699	233	L	ctC/ctT	.	.	.	-1	PLA2G7	HGNC	9040	protein_coding	YES	CCDS4917.1	ENSP00000274793	PAFA_HUMAN	.	UPI000002FED1	.	.	.	8/12	.	hmmpanther:PTHR10272,hmmpanther:PTHR10272:SF9,Pfam_domain:PF03403,PIRSF_domain:PIRSF018169	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACTGAGAGC	.	4	BLCA
PAQR8	0	.	GRCh37	6	52268580	52268580	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569C>T	p.Ser190Phe	p.S190F	ENST00000442253	2/2	93	83	10	126	126	0	PAQR8,missense_variant,p.Ser190Phe,ENST00000442253,;PAQR8,missense_variant,p.Ser190Phe,ENST00000360726,;PAQR8,downstream_gene_variant,,ENST00000512121,;	T	ENSG00000170915	ENST00000442253	Transcript	missense_variant	743	569	190	S/F	tCt/tTt	COSM3674733	.	.	1	PAQR8	HGNC	15708	protein_coding	YES	CCDS4941.1	ENSP00000406197	MPRB_HUMAN	D6RCM7_HUMAN	UPI0000073877	.	deleterious(0)	probably_damaging(0.988)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20855:SF22,hmmpanther:PTHR20855,Pfam_domain:PF03006	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTTATCTTGTG	.	3	BLCA
DST	0	.	GRCh37	6	56492946	56492946	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2878G>A	p.Glu960Lys	p.E960K	ENST00000244364	19/84	43	38	4	40	40	0	DST,missense_variant,p.Glu960Lys,ENST00000439203,;DST,missense_variant,p.Glu960Lys,ENST00000446842,;DST,missense_variant,p.Glu1286Lys,ENST00000370788,;DST,missense_variant,p.Glu960Lys,ENST00000244364,;DST,missense_variant,p.Glu1326Lys,ENST00000520645,;DST,missense_variant,p.Glu960Lys,ENST00000370765,;DST,missense_variant,p.Glu1464Lys,ENST00000370754,;DST,missense_variant,p.Glu1286Lys,ENST00000361203,;DST,missense_variant,p.Glu1286Lys,ENST00000370769,;DST,missense_variant,p.Glu1286Lys,ENST00000312431,;DST,missense_variant,p.Glu1286Lys,ENST00000421834,;DST,missense_variant,p.Glu960Lys,ENST00000518935,;DST,upstream_gene_variant,,ENST00000522360,;	T	ENSG00000151914	ENST00000244364	Transcript	missense_variant	3086	2878	960	E/K	Gag/Aag	.	.	.	-1	DST	HGNC	1090	protein_coding	YES	CCDS47443.1	ENSP00000244364	DYST_HUMAN	Q86T18_HUMAN	UPI00001C1577	.	.	possibly_damaging(0.492)	19/84	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF38,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCTAAGT	.	4	BLCA
SNAP91	0	.	GRCh37	6	84292052	84292052	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2038C>T	p.Pro680Ser	p.P680S	ENST00000439399	23/30	28	24	3	30	30	0	SNAP91,missense_variant,p.Pro680Ser,ENST00000439399,;SNAP91,missense_variant,p.Pro680Ser,ENST00000195649,;SNAP91,missense_variant,p.Pro21Ser,ENST00000523448,;SNAP91,missense_variant,p.Pro493Ser,ENST00000521931,;SNAP91,missense_variant,p.Pro373Ser,ENST00000437520,;SNAP91,missense_variant,p.Pro680Ser,ENST00000521485,;SNAP91,missense_variant,p.Pro650Ser,ENST00000520302,;SNAP91,missense_variant,p.Pro680Ser,ENST00000428679,;SNAP91,missense_variant,p.Pro373Ser,ENST00000520213,;SNAP91,missense_variant,p.Pro680Ser,ENST00000369694,;SNAP91,missense_variant,p.Pro680Ser,ENST00000521743,;SNAP91,upstream_gene_variant,,ENST00000519133,;SNAP91,3_prime_UTR_variant,,ENST00000521616,;SNAP91,3_prime_UTR_variant,,ENST00000518312,;	A	ENSG00000065609	ENST00000439399	Transcript	missense_variant	2355	2038	680	P/S	Cct/Tct	.	.	.	-1	SNAP91	HGNC	14986	protein_coding	YES	CCDS47455.1	ENSP00000400459	AP180_HUMAN	E5RK53_HUMAN,E5RK51_HUMAN,E5RJY3_HUMAN,E5RIJ5_HUMAN,E5RFU0_HUMAN,E5RFC6_HUMAN,B7Z2C2_HUMAN	UPI0000124FB3	.	tolerated(0.06)	probably_damaging(0.993)	23/30	.	hmmpanther:PTHR22951,hmmpanther:PTHR22951:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAAGGCGCCA	.	4	BLCA
NDUFA4	0	.	GRCh37	7	10979655	10979655	+	Silent	SNP	C	C	T	rs762245975	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30G>A	p.%3D	p.K10K	ENST00000339600	1/4	115	109	5	186	186	0	NDUFA4,synonymous_variant,p.%3D,ENST00000339600,;RP5-855F16.1,upstream_gene_variant,,ENST00000604183,;NDUFA4,non_coding_transcript_exon_variant,,ENST00000492822,;NDUFA4,non_coding_transcript_exon_variant,,ENST00000486007,;NDUFA4,upstream_gene_variant,,ENST00000482299,;NDUFA4,upstream_gene_variant,,ENST00000463308,;NDUFA4,upstream_gene_variant,,ENST00000470761,;	T	ENSG00000189043	ENST00000339600	Transcript	synonymous_variant	229	30	10	K	aaG/aaA	rs762245975	.	.	-1	NDUFA4	HGNC	7687	protein_coding	YES	CCDS5357.1	ENSP00000339720	NDUA4_HUMAN	.	UPI00001309C1	.	.	.	1/4	.	hmmpanther:PTHR14256,hmmpanther:PTHR14256:SF4,Pfam_domain:PF06522	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTCTTGGC	.	2	BLCA
GRM8	0	.	GRCh37	7	126086196	126086196	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2661G>C	p.Glu887Asp	p.E887D	ENST00000339582	10/11	132	126	6	157	157	0	GRM8,missense_variant,p.Glu887Asp,ENST00000358373,;GRM8,missense_variant,p.Glu887Asp,ENST00000444921,;GRM8,missense_variant,p.Glu887Asp,ENST00000339582,;GRM8,non_coding_transcript_exon_variant,,ENST00000495315,;GRM8,non_coding_transcript_exon_variant,,ENST00000489939,;GRM8,missense_variant,p.Glu887Asp,ENST00000472701,;GRM8,3_prime_UTR_variant,,ENST00000341617,;	G	ENSG00000179603	ENST00000339582	Transcript	missense_variant	3470	2661	887	E/D	gaG/gaC	.	.	.	-1	GRM8	HGNC	4600	protein_coding	YES	CCDS5794.1	ENSP00000344173	GRM8_HUMAN	E7ETK3_HUMAN,C9J7I1_HUMAN	UPI000012F085	.	tolerated(0.18)	benign(0.217)	10/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24060:SF26,hmmpanther:PTHR24060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGACTCTCACA	.	2	BLCA
CPA5	0	.	GRCh37	7	130007228	130007228	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.854G>A	p.Ser285Asn	p.S285N	ENST00000485477	10/12	48	44	4	38	38	0	CPA5,missense_variant,p.Ser285Asn,ENST00000466363,;CPA5,missense_variant,p.Ser285Asn,ENST00000461828,;CPA5,missense_variant,p.Ser285Asn,ENST00000474905,;CPA5,missense_variant,p.Ser285Asn,ENST00000393213,;CPA5,missense_variant,p.Ser285Asn,ENST00000355388,;CPA5,missense_variant,p.Ser285Asn,ENST00000485477,;CPA5,missense_variant,p.Ser285Asn,ENST00000431780,;CPA5,intron_variant,,ENST00000479492,;CPA5,non_coding_transcript_exon_variant,,ENST00000495736,;	A	ENSG00000158525	ENST00000485477	Transcript	missense_variant	1983	854	285	S/N	aGc/aAc	.	.	.	1	CPA5	HGNC	15722	protein_coding	YES	CCDS5819.1	ENSP00000420237	CBPA5_HUMAN	A4D1M2_HUMAN,C9JZE9_HUMAN,C9JRV5_HUMAN	UPI000000D837	.	tolerated(0.69)	benign(0.001)	10/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11705,hmmpanther:PTHR11705:SF16,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAACAGCAACC	.	2	BLCA
TRBV6-1	0	.	GRCh37	7	142028452	142028452	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>T	p.%3D	p.L62L	ENST00000390353	2/2	179	173	6	178	178	0	TRBV6-1,synonymous_variant,p.%3D,ENST00000390353,;TRBV7-1,upstream_gene_variant,,ENST00000547918,;	T	ENSG00000211706	ENST00000390353	Transcript	synonymous_variant	243	186	62	L	ctG/ctT	.	.	.	1	TRBV6-1	HGNC	12226	TR_V_gene	YES	.	ENSP00000374876	.	A0A586_HUMAN	UPI0000115AB1	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23268,hmmpanther:PTHR23268:SF18,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGACTGAGGCT	.	2	BLCA
KCNH2	0	.	GRCh37	7	150671863	150671863	+	Silent	SNP	C	C	T	rs199472849	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243G>A	p.%3D	p.Q81Q	ENST00000262186	2/15	33	30	3	31	31	0	KCNH2,synonymous_variant,p.%3D,ENST00000262186,;KCNH2,synonymous_variant,p.%3D,ENST00000430723,;KCNH2,non_coding_transcript_exon_variant,,ENST00000532957,;	T	ENSG00000055118	ENST00000262186	Transcript	synonymous_variant	645	243	81	Q	caG/caA	rs199472849,CM102594	.	.	-1	KCNH2	HGNC	6251	protein_coding	YES	CCDS5910.1	ENSP00000262186	KCNH2_HUMAN	Q75MK9_HUMAN,Q75MK8_HUMAN,Q6U287_HUMAN,Q6U283_HUMAN,Q6U279_HUMAN,Q45QN5_HUMAN	UPI0000062255	.	.	.	2/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10217:SF468,hmmpanther:PTHR10217,TIGRFAM_domain:TIGR00229,Pfam_domain:PF13426,Gene3D:3.30.450.20,Superfamily_domains:SSF55785	.	.	.	.	.	.	.	T:0.0002	T:0	likely_pathogenic	.	20167303	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGATCTGCGC	byCluster	4	BLCA
ABCF2	0	.	GRCh37	7	150912711	150912711	+	Silent	SNP	G	G	A	rs750282865	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1509C>T	p.%3D	p.Y503Y	ENST00000222388	13/16	174	158	16	226	226	0	ABCF2,synonymous_variant,p.%3D,ENST00000287844,;ABCF2,synonymous_variant,p.%3D,ENST00000222388,;ABCF2,downstream_gene_variant,,ENST00000473874,;	A	ENSG00000033050	ENST00000222388	Transcript	synonymous_variant	1555	1509	503	Y	taC/taT	rs750282865,COSM118046	.	.	-1	ABCF2	HGNC	71	protein_coding	YES	CCDS5922.1	ENSP00000222388	.	Q75MJ1_HUMAN,C9JZV3_HUMAN,C9JHK9_HUMAN	UPI000004C4C9	.	.	.	13/16	.	PROSITE_profiles:PS50893,hmmpanther:PTHR19211:SF15,hmmpanther:PTHR19211,Pfam_domain:PF00005,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGACCGTATCG	.	3	BLCA
STK31	0	.	GRCh37	7	23775363	23775363	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.690A>T	p.Gln230His	p.Q230H	ENST00000355870	7/24	60	46	13	64	64	0	STK31,missense_variant,p.Gln230His,ENST00000355870,;STK31,missense_variant,p.Gln207His,ENST00000354639,;STK31,missense_variant,p.Gln207His,ENST00000428484,;STK31,missense_variant,p.Gln230His,ENST00000433467,;STK31,downstream_gene_variant,,ENST00000456014,;STK31,downstream_gene_variant,,ENST00000422637,;STK31,non_coding_transcript_exon_variant,,ENST00000405627,;STK31,intron_variant,,ENST00000529549,;STK31,downstream_gene_variant,,ENST00000528479,;STK31,non_coding_transcript_exon_variant,,ENST00000476399,;	T	ENSG00000196335	ENST00000355870	Transcript	missense_variant	809	690	230	Q/H	caA/caT	.	.	.	1	STK31	HGNC	11407	protein_coding	YES	CCDS5386.1	ENSP00000348132	STK31_HUMAN	Q75MZ9_HUMAN,F8W6E7_HUMAN,E9PRQ0_HUMAN,C9JQW5_HUMAN,B3KY91_HUMAN	UPI0000167B73	.	deleterious(0.02)	possibly_damaging(0.765)	7/24	.	hmmpanther:PTHR12302:SF0,hmmpanther:PTHR12302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCAACTTGT	.	5	BLCA
ANLN	0	.	GRCh37	7	36459777	36459777	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1870-1G>A	.	p.X624_splice	ENST00000265748	.	42	37	5	48	48	0	ANLN,splice_acceptor_variant,,ENST00000396068,;ANLN,splice_acceptor_variant,,ENST00000265748,;ANLN,intron_variant,,ENST00000428612,;ANLN,upstream_gene_variant,,ENST00000457743,;ANLN,upstream_gene_variant,,ENST00000446635,;ANLN,downstream_gene_variant,,ENST00000495714,;ANLN,downstream_gene_variant,,ENST00000452877,;ANLN,downstream_gene_variant,,ENST00000441696,;	A	ENSG00000011426	ENST00000265748	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ANLN	HGNC	14082	protein_coding	YES	CCDS5447.1	ENSP00000265748	ANLN_HUMAN	C9JJT6_HUMAN	UPI00001A95DE	.	.	.	.	10/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACAGAGTTT	.	4	BLCA
ELMO1	0	.	GRCh37	7	37354468	37354468	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.178T>C	p.Tyr60His	p.Y60H	ENST00000310758	4/22	80	42	38	118	118	0	ELMO1,missense_variant,p.Tyr60His,ENST00000442504,;ELMO1,missense_variant,p.Tyr60His,ENST00000455119,;ELMO1,missense_variant,p.Tyr60His,ENST00000310758,;ELMO1,missense_variant,p.Tyr60His,ENST00000448602,;ELMO1,missense_variant,p.Tyr60His,ENST00000455879,;ELMO1,missense_variant,p.Tyr60His,ENST00000453399,;ELMO1,downstream_gene_variant,,ENST00000445322,;ELMO1,non_coding_transcript_exon_variant,,ENST00000463390,;	G	ENSG00000155849	ENST00000310758	Transcript	missense_variant	826	178	60	Y/H	Tat/Cat	.	.	.	-1	ELMO1	HGNC	16286	protein_coding	YES	CCDS5449.1	ENSP00000312185	ELMO1_HUMAN	C9JIW2_HUMAN,C9JB20_HUMAN,C9J5X3_HUMAN,B4DJV6_HUMAN,A4D1X5_HUMAN	UPI000006F687	.	deleterious(0)	probably_damaging(0.998)	4/22	.	hmmpanther:PTHR12771:SF23,hmmpanther:PTHR12771	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATAGAAGT	.	5	BLCA
TMED4	0	.	GRCh37	7	44620694	44620694	+	Silent	SNP	T	T	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.532A>C	p.%3D	p.R178R	ENST00000457408	4/5	42	38	3	75	75	0	TMED4,synonymous_variant,p.%3D,ENST00000457408,;TMED4,synonymous_variant,p.%3D,ENST00000481238,;TMED4,intron_variant,,ENST00000289577,;TMED4,non_coding_transcript_exon_variant,,ENST00000444131,;TMED4,non_coding_transcript_exon_variant,,ENST00000477639,;	G	ENSG00000158604	ENST00000457408	Transcript	synonymous_variant	585	532	178	R	Agg/Cgg	.	.	.	-1	TMED4	HGNC	22301	protein_coding	YES	CCDS5493.1	ENSP00000404042	TMED4_HUMAN	.	UPI000003ED37	.	.	.	4/5	.	hmmpanther:PTHR22811,hmmpanther:PTHR22811:SF38,Pfam_domain:PF01105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCCTTTGGT	.	2	BLCA
TNS3	0	.	GRCh37	7	47342707	47342707	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3298G>A	p.Glu1100Lys	p.E1100K	ENST00000398879	22/31	27	23	4	33	33	0	TNS3,missense_variant,p.Glu1100Lys,ENST00000398879,;TNS3,missense_variant,p.Glu1100Lys,ENST00000311160,;TNS3,missense_variant,p.Glu1203Lys,ENST00000457718,;TNS3,missense_variant,p.Glu860Lys,ENST00000355730,;	T	ENSG00000136205	ENST00000398879	Transcript	missense_variant	3665	3298	1100	E/K	Gag/Aag	.	.	.	-1	TNS3	HGNC	21616	protein_coding	YES	CCDS5506.2	ENSP00000381854	TENS3_HUMAN	C9JWN9_HUMAN,C9JTD0_HUMAN	UPI00001AE9DA	.	deleterious(0.01)	probably_damaging(0.991)	22/31	.	hmmpanther:PTHR12305:SF41,hmmpanther:PTHR12305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAGGGA	.	4	BLCA
ABCA13	0	.	GRCh37	7	48317780	48317780	+	Nonsense_Mutation	SNP	C	C	G	rs777982045	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6989C>G	p.Ser2330Ter	p.S2330*	ENST00000435803	18/62	13	8	5	11	11	0	ABCA13,stop_gained,p.Ser2330Ter,ENST00000435803,;	G	ENSG00000179869	ENST00000435803	Transcript	stop_gained	7013	6989	2330	S/*	tCa/tGa	rs777982045	.	.	1	ABCA13	HGNC	14638	protein_coding	YES	CCDS47584.1	ENSP00000411096	ABCAD_HUMAN	.	UPI00001A95EA	.	.	.	18/62	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTTCAAGTT	.	2	BLCA
WBSCR22	0	.	GRCh37	7	73097945	73097945	+	5'Flank	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000423497	.	17	13	4	16	16	0	WBSCR22,5_prime_UTR_variant,,ENST00000265758,;WBSCR22,5_prime_UTR_variant,,ENST00000423166,;DNAJC30,upstream_gene_variant,,ENST00000395176,;WBSCR22,upstream_gene_variant,,ENST00000423497,;WBSCR22,intron_variant,,ENST00000464615,;WBSCR22,5_prime_UTR_variant,,ENST00000421304,;WBSCR22,5_prime_UTR_variant,,ENST00000441822,;WBSCR22,5_prime_UTR_variant,,ENST00000436944,;WBSCR22,5_prime_UTR_variant,,ENST00000428163,;WBSCR22,5_prime_UTR_variant,,ENST00000421744,;WBSCR22,5_prime_UTR_variant,,ENST00000432522,;WBSCR22,non_coding_transcript_exon_variant,,ENST00000496153,;WBSCR22,non_coding_transcript_exon_variant,,ENST00000463307,;WBSCR22,non_coding_transcript_exon_variant,,ENST00000478670,;WBSCR22,upstream_gene_variant,,ENST00000487006,;WBSCR22,upstream_gene_variant,,ENST00000430270,;WBSCR22,upstream_gene_variant,,ENST00000430446,;	A	ENSG00000071462	ENST00000423497	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	11	1	WBSCR22	HGNC	16405	protein_coding	YES	CCDS56490.1	ENSP00000401191	.	C9K060_HUMAN	UPI0000423E27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTGAGGCG	.	2	BLCA
ELN	0	.	GRCh37	7	73474216	73474216	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1415G>A	p.Gly472Glu	p.G472E	ENST00000252034	23/33	166	139	27	232	232	0	ELN,missense_variant,p.Gly478Glu,ENST00000380562,;ELN,missense_variant,p.Gly472Glu,ENST00000252034,;ELN,missense_variant,p.Gly453Glu,ENST00000380576,;ELN,missense_variant,p.Gly443Glu,ENST00000380575,;ELN,missense_variant,p.Gly391Glu,ENST00000320492,;ELN,missense_variant,p.Gly472Glu,ENST00000445912,;ELN,missense_variant,p.Gly448Glu,ENST00000414324,;ELN,missense_variant,p.Gly458Glu,ENST00000429192,;ELN,missense_variant,p.Gly507Glu,ENST00000358929,;ELN,missense_variant,p.Gly336Glu,ENST00000380553,;ELN,missense_variant,p.Gly472Glu,ENST00000320399,;ELN,missense_variant,p.Gly462Glu,ENST00000458204,;ELN,missense_variant,p.Gly477Glu,ENST00000357036,;ELN,missense_variant,p.Gly439Glu,ENST00000380584,;CTB-51J22.1,non_coding_transcript_exon_variant,,ENST00000435932,;ELN,downstream_gene_variant,,ENST00000466878,;ELN,downstream_gene_variant,,ENST00000492210,;	A	ENSG00000049540	ENST00000252034	Transcript	missense_variant	1814	1415	472	G/E	gGg/gAg	.	.	.	1	ELN	HGNC	3327	protein_coding	YES	CCDS5562.2	ENSP00000252034	ELN_HUMAN	Q9UMK5_HUMAN	UPI0000D4A0DC	.	.	unknown(0)	23/33	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24018:SF2,hmmpanther:PTHR24018	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCAGGGTTAG	.	4	BLCA
MIOS	0	.	GRCh37	7	7625319	7625319	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1701G>C	p.Glu567Asp	p.E567D	ENST00000340080	7/13	92	86	6	109	109	0	MIOS,missense_variant,p.Glu567Asp,ENST00000405785,;MIOS,missense_variant,p.Glu567Asp,ENST00000340080,;MIOS,downstream_gene_variant,,ENST00000461907,;MIOS,non_coding_transcript_exon_variant,,ENST00000493227,;	C	ENSG00000164654	ENST00000340080	Transcript	missense_variant	2122	1701	567	E/D	gaG/gaC	.	.	.	1	MIOS	HGNC	21905	protein_coding	YES	CCDS43554.1	ENSP00000339881	MIO_HUMAN	C9JUE6_HUMAN,C9JTV2_HUMAN,C9JAQ1_HUMAN	UPI000020EB0B	.	tolerated(0.62)	benign(0.132)	7/13	.	hmmpanther:PTHR16453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATGAGAAGAA	.	2	BLCA
CYP3A5	0	.	GRCh37	7	99277533	99277533	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14G>A	.	.	ENST00000222982	1/13	50	45	5	67	67	0	CYP3A5,5_prime_UTR_variant,,ENST00000222982,;CYP3A5,5_prime_UTR_variant,,ENST00000339843,;CYP3A5,5_prime_UTR_variant,,ENST00000439761,;CYP3A5,5_prime_UTR_variant,,ENST00000343703,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000480723,;CYP3A5,5_prime_UTR_variant,,ENST00000456417,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000466061,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000489231,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000463907,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000481825,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000461920,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000463364,;CYP3A5,non_coding_transcript_exon_variant,,ENST00000469622,;CYP3A5,upstream_gene_variant,,ENST00000469887,;	T	ENSG00000106258	ENST00000222982	Transcript	5_prime_UTR_variant	87	.	.	.	.	.	.	.	-1	CYP3A5	HGNC	2638	protein_coding	YES	CCDS5672.1	ENSP00000222982	CP3A5_HUMAN	Q96RK6_HUMAN,Q7Z447_HUMAN,Q7Z446_HUMAN	UPI000000163D	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCCTTCTTCAA	.	3	BLCA
RGS22	0	.	GRCh37	8	101016307	101016307	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2474G>C	p.Gly825Ala	p.G825A	ENST00000360863	17/28	95	91	4	78	78	0	RGS22,missense_variant,p.Gly644Ala,ENST00000523287,;RGS22,missense_variant,p.Gly813Ala,ENST00000523437,;RGS22,missense_variant,p.Gly140Ala,ENST00000517828,;RGS22,missense_variant,p.Gly825Ala,ENST00000360863,;SNORD77,upstream_gene_variant,,ENST00000391112,;RGS22,non_coding_transcript_exon_variant,,ENST00000519421,;RGS22,non_coding_transcript_exon_variant,,ENST00000517769,;RGS22,downstream_gene_variant,,ENST00000519725,;	G	ENSG00000132554	ENST00000360863	Transcript	missense_variant	2669	2474	825	G/A	gGa/gCa	.	.	.	-1	RGS22	HGNC	24499	protein_coding	YES	CCDS43758.1	ENSP00000354109	RGS22_HUMAN	E5RHE4_HUMAN,E5RFV6_HUMAN	UPI0000E5AF25	.	tolerated(0.37)	benign(0.017)	17/28	.	hmmpanther:PTHR10845:SF132,hmmpanther:PTHR10845	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTTCCAATT	.	2	BLCA
CSMD3	0	.	GRCh37	8	113402947	113402947	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5880C>G	p.Asp1960Glu	p.D1960E	ENST00000297405	36/71	39	35	4	50	50	0	CSMD3,missense_variant,p.Asp1890Glu,ENST00000352409,;CSMD3,missense_variant,p.Asp1856Glu,ENST00000455883,;CSMD3,missense_variant,p.Asp1960Glu,ENST00000297405,;CSMD3,missense_variant,p.Asp1230Glu,ENST00000339701,;CSMD3,missense_variant,p.Asp1920Glu,ENST00000343508,;	C	ENSG00000164796	ENST00000297405	Transcript	missense_variant	6125	5880	1960	D/E	gaC/gaG	.	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	tolerated(1)	possibly_damaging(0.696)	36/71	.	PROSITE_profiles:PS01180,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF44,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGTTGTCATA	.	3	BLCA
COLEC10	0	.	GRCh37	8	120118505	120118505	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*75G>A	.	.	ENST00000332843	6/6	18	13	5	18	18	0	COLEC10,3_prime_UTR_variant,,ENST00000332843,;COLEC10,downstream_gene_variant,,ENST00000521788,;	A	ENSG00000184374	ENST00000332843	Transcript	3_prime_UTR_variant	950	.	.	.	.	.	.	.	1	COLEC10	HGNC	2220	protein_coding	YES	CCDS6327.1	ENSP00000332723	COL10_HUMAN	.	UPI00001B01DD	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTGATTGT	.	5	BLCA
MTBP	0	.	GRCh37	8	121535635	121535635	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*59C>T	.	.	ENST00000305949	22/22	69	65	4	91	91	0	MTBP,3_prime_UTR_variant,,ENST00000305949,;MTBP,intron_variant,,ENST00000519556,;	T	ENSG00000172167	ENST00000305949	Transcript	3_prime_UTR_variant	2819	.	.	.	.	.	.	.	1	MTBP	HGNC	7417	protein_coding	YES	CCDS6333.1	ENSP00000303398	MTBP_HUMAN	.	UPI00000703F0	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACTTCTTTTC	.	2	BLCA
KIAA0196	0	.	GRCh37	8	126085447	126085447	+	Silent	SNP	C	C	G	rs775174828	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1098G>C	p.%3D	p.L366L	ENST00000318410	9/29	63	59	4	80	80	0	KIAA0196,synonymous_variant,p.%3D,ENST00000517845,;KIAA0196,synonymous_variant,p.%3D,ENST00000318410,;KIAA0196,downstream_gene_variant,,ENST00000523297,;	G	ENSG00000164961	ENST00000318410	Transcript	synonymous_variant	1448	1098	366	L	ctG/ctC	rs775174828	.	.	-1	KIAA0196	HGNC	28984	protein_coding	YES	CCDS6355.1	ENSP00000318016	STRUM_HUMAN	Q53EL1_HUMAN,E7EQI7_HUMAN,E5RFU6_HUMAN	UPI000013943B	.	.	.	9/29	.	hmmpanther:PTHR15691,Pfam_domain:PF10266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TCTCTCAGGCA	.	2	BLCA
PSD3	0	.	GRCh37	8	18513178	18513178	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2190C>G	p.Ile730Met	p.I730M	ENST00000327040	10/16	50	41	8	110	110	0	PSD3,missense_variant,p.Ile665Met,ENST00000523619,;PSD3,missense_variant,p.Ile730Met,ENST00000327040,;PSD3,missense_variant,p.Ile732Met,ENST00000440756,;PSD3,missense_variant,p.Ile59Met,ENST00000428502,;PSD3,missense_variant,p.Ile196Met,ENST00000286485,;PSD3,intron_variant,,ENST00000521878,;PSD3,3_prime_UTR_variant,,ENST00000518315,;	C	ENSG00000156011	ENST00000327040	Transcript	missense_variant	2293	2190	730	I/M	atC/atG	.	.	.	-1	PSD3	HGNC	19093	protein_coding	YES	CCDS43720.1	ENSP00000324127	PSD3_HUMAN	E5RJE4_HUMAN,E5RJ29_HUMAN	UPI0000210A46	.	deleterious(0)	probably_damaging(1)	10/16	.	PROSITE_profiles:PS50190,hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF106,Gene3D:1.10.1000.11,Pfam_domain:PF01369,SMART_domains:SM00222,Superfamily_domains:SSF48425	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTGATTGA	.	5	BLCA
KCNU1	0	.	GRCh37	8	36793376	36793376	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3388G>A	p.Glu1130Lys	p.E1130K	ENST00000399881	27/27	23	18	5	63	63	0	KCNU1,missense_variant,p.Glu1130Lys,ENST00000399881,;KCNU1,downstream_gene_variant,,ENST00000518904,;KCNU1,3_prime_UTR_variant,,ENST00000522372,;	A	ENSG00000215262	ENST00000399881	Transcript	missense_variant	3425	3388	1130	E/K	Gaa/Aaa	COSM360428,COSM360427	.	.	1	KCNU1	HGNC	18867	protein_coding	YES	CCDS55220.1	ENSP00000382770	KCNU1_HUMAN	.	UPI0000F079EF	.	tolerated_low_confidence(0.16)	benign(0)	27/27	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATGAAAGG	.	5	BLCA
WHSC1L1	0	.	GRCh37	8	38172285	38172285	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2122G>C	p.Glu708Gln	p.E708Q	ENST00000317025	12/24	13	9	4	31	31	0	WHSC1L1,missense_variant,p.Glu708Gln,ENST00000433384,;WHSC1L1,missense_variant,p.Glu708Gln,ENST00000317025,;WHSC1L1,missense_variant,p.Glu708Gln,ENST00000527502,;WHSC1L1,downstream_gene_variant,,ENST00000316985,;WHSC1L1,downstream_gene_variant,,ENST00000528627,;WHSC1L1,downstream_gene_variant,,ENST00000525081,;	G	ENSG00000147548	ENST00000317025	Transcript	missense_variant	2640	2122	708	E/Q	Gaa/Caa	.	.	.	-1	WHSC1L1	HGNC	12767	protein_coding	YES	CCDS43729.1	ENSP00000313983	NSD3_HUMAN	E9PQ95_HUMAN,E9PKA2_HUMAN	UPI000006F297	.	deleterious(0.01)	probably_damaging(0.917)	12/24	.	PROSITE_profiles:PS50016,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF301,PROSITE_patterns:PS01359,Gene3D:3.30.40.10,SMART_domains:SM00249,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTTCACAAA	.	2	BLCA
XKR4	0	.	GRCh37	8	56436091	56436091	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1258G>A	p.Glu420Lys	p.E420K	ENST00000327381	3/3	166	137	29	212	212	0	XKR4,missense_variant,p.Glu420Lys,ENST00000327381,;RP11-628E19.2,upstream_gene_variant,,ENST00000522918,;XKR4,upstream_gene_variant,,ENST00000518261,;	A	ENSG00000206579	ENST00000327381	Transcript	missense_variant	1358	1258	420	E/K	Gag/Aag	.	.	.	1	XKR4	HGNC	29394	protein_coding	YES	CCDS34893.1	ENSP00000328326	XKR4_HUMAN	.	UPI000016098C	.	deleterious(0.03)	probably_damaging(0.992)	3/3	.	Pfam_domain:PF09815,hmmpanther:PTHR32129:SF14,hmmpanther:PTHR32129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGTGAGACA	.	5	BLCA
RRS1	0	.	GRCh37	8	67341396	67341396	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30C>T	p.%3D	p.L10L	ENST00000320270	1/1	49	34	15	34	34	0	RRS1,synonymous_variant,p.%3D,ENST00000320270,;ADHFE1,upstream_gene_variant,,ENST00000415254,;ADHFE1,upstream_gene_variant,,ENST00000396623,;ADHFE1,upstream_gene_variant,,ENST00000379385,;ADHFE1,upstream_gene_variant,,ENST00000523113,;RP11-346I3.4,upstream_gene_variant,,ENST00000499642,;ADHFE1,upstream_gene_variant,,ENST00000496501,;ADHFE1,upstream_gene_variant,,ENST00000422166,;ADHFE1,upstream_gene_variant,,ENST00000449512,;ADHFE1,upstream_gene_variant,,ENST00000424777,;ADHFE1,upstream_gene_variant,,ENST00000466920,;ADHFE1,upstream_gene_variant,,ENST00000443372,;ADHFE1,upstream_gene_variant,,ENST00000419955,;ADHFE1,upstream_gene_variant,,ENST00000426810,;ADHFE1,upstream_gene_variant,,ENST00000276576,;ADHFE1,upstream_gene_variant,,ENST00000431959,;ADHFE1,upstream_gene_variant,,ENST00000463261,;ADHFE1,upstream_gene_variant,,ENST00000396621,;	T	ENSG00000179041	ENST00000320270	Transcript	synonymous_variant	134	30	10	L	ctC/ctT	.	.	.	1	RRS1	HGNC	17083	protein_coding	YES	CCDS6189.1	ENSP00000322396	RRS1_HUMAN	.	UPI0000134B8A	.	.	.	1/1	.	hmmpanther:PTHR17602	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCGCAAA	.	5	BLCA
SGK223	0	.	GRCh37	8	8233800	8233800	+	Missense_Mutation	SNP	C	C	T	rs375268828	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2119G>A	p.Glu707Lys	p.E707K	ENST00000520004	3/6	48	37	10	90	90	0	SGK223,missense_variant,p.Glu707Lys,ENST00000520004,;SGK223,missense_variant,p.Glu707Lys,ENST00000330777,;	T	ENSG00000182319	ENST00000520004	Transcript	missense_variant	2384	2119	707	E/K	Gag/Aag	rs375268828	.	.	-1	SGK223	Uniprot_gn	.	protein_coding	YES	CCDS43706.1	ENSP00000428054	SG223_HUMAN	.	UPI00001D82A6	.	.	probably_damaging(0.98)	3/6	.	hmmpanther:PTHR22972:SF3,hmmpanther:PTHR22972	.	.	.	.	.	.	.	G:0.0003	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCAATCC	byFrequency|byCluster	5	BLCA
CALB1	0	.	GRCh37	8	91075644	91075644	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.496G>A	p.Glu166Lys	p.E166K	ENST00000265431	7/11	88	80	7	61	61	0	CALB1,missense_variant,p.Glu109Lys,ENST00000523716,;CALB1,missense_variant,p.Glu109Lys,ENST00000518457,;CALB1,missense_variant,p.Glu166Lys,ENST00000265431,;CALB1,downstream_gene_variant,,ENST00000520613,;CALB1,non_coding_transcript_exon_variant,,ENST00000522070,;CALB1,non_coding_transcript_exon_variant,,ENST00000469032,;CALB1,upstream_gene_variant,,ENST00000497376,;	T	ENSG00000104327	ENST00000265431	Transcript	missense_variant	678	496	166	E/K	Gag/Aag	.	.	.	-1	CALB1	HGNC	1434	protein_coding	YES	CCDS6251.1	ENSP00000265431	CALB1_HUMAN	O75552_HUMAN,E5RIZ8_HUMAN,E5RG14_HUMAN,B7Z9J4_HUMAN	UPI000013D620	.	deleterious(0)	probably_damaging(1)	7/11	.	PROSITE_profiles:PS50222,hmmpanther:PTHR19972,hmmpanther:PTHR19972:SF3,PROSITE_patterns:PS00018,Pfam_domain:PF13499,Gene3D:1.10.238.10,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATCTCAGTTA	.	3	BLCA
PTDSS1	0	.	GRCh37	8	97274337	97274337	+	Missense_Mutation	SNP	G	G	C	rs760082933	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69G>C	p.Met23Ile	p.M23I	ENST00000517309	1/13	41	28	12	28	28	0	PTDSS1,missense_variant,p.Met23Ile,ENST00000517309,;PTDSS1,5_prime_UTR_variant,,ENST00000455950,;MTERFD1,upstream_gene_variant,,ENST00000522822,;MTERFD1,upstream_gene_variant,,ENST00000517720,;MTERFD1,upstream_gene_variant,,ENST00000523821,;MTERFD1,upstream_gene_variant,,ENST00000287025,;PTDSS1,missense_variant,p.Met23Ile,ENST00000337004,;PTDSS1,non_coding_transcript_exon_variant,,ENST00000517557,;	C	ENSG00000156471	ENST00000517309	Transcript	missense_variant	395	69	23	M/I	atG/atC	rs760082933	.	.	1	PTDSS1	HGNC	9587	protein_coding	YES	CCDS6271.1	ENSP00000430548	PTSS1_HUMAN	Q9BUQ5_HUMAN	UPI0000132810	.	tolerated(0.37)	benign(0.03)	1/13	.	hmmpanther:PTHR12615,hmmpanther:PTHR12615:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGATGATCAA	.	5	BLCA
ALDOB	0	.	GRCh37	9	104187278	104187278	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846C>G	p.%3D	p.L282L	ENST00000374855	8/9	49	46	3	91	91	0	ALDOB,synonymous_variant,p.%3D,ENST00000374855,;ALDOB,downstream_gene_variant,,ENST00000468981,;	C	ENSG00000136872	ENST00000374855	Transcript	synonymous_variant	971	846	282	L	ctC/ctG	.	.	.	-1	ALDOB	HGNC	417	protein_coding	YES	CCDS6756.1	ENSP00000363988	ALDOB_HUMAN	.	UPI000016A4A9	.	.	.	8/9	.	Superfamily_domains:SSF51569,Gene3D:3.20.20.70,Pfam_domain:PF00274,hmmpanther:PTHR11627,hmmpanther:PTHR11627:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGTTGAGAGT	.	2	BLCA
RC3H2	0	.	GRCh37	9	125642499	125642499	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.961-95G>A	.	.	ENST00000373670	.	103	98	5	120	120	0	RC3H2,intron_variant,,ENST00000373670,;RC3H2,intron_variant,,ENST00000423239,;RC3H2,intron_variant,,ENST00000373665,;RC3H2,intron_variant,,ENST00000335387,;RC3H2,intron_variant,,ENST00000357244,;SNORD90,non_coding_transcript_exon_variant,,ENST00000391145,;RC3H2,intron_variant,,ENST00000498479,;	T	ENSG00000056586	ENST00000373670	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RC3H2	HGNC	21461	protein_coding	YES	CCDS43874.1	ENSP00000362774	RC3H2_HUMAN	.	UPI0000048D91	.	.	.	.	5/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTTCAAGTG	.	2	BLCA
GOLGA1	0	.	GRCh37	9	127693603	127693603	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218G>C	p.Arg73Thr	p.R73T	ENST00000373555	4/23	87	59	27	151	151	0	GOLGA1,missense_variant,p.Arg73Thr,ENST00000373555,;GOLGA1,missense_variant,p.Arg73Thr,ENST00000421514,;GOLGA1,upstream_gene_variant,,ENST00000475407,;	G	ENSG00000136935	ENST00000373555	Transcript	missense_variant	552	218	73	R/T	aGa/aCa	.	.	.	-1	GOLGA1	HGNC	4424	protein_coding	YES	CCDS6860.1	ENSP00000362656	GOGA1_HUMAN	Q5T165_HUMAN	UPI000013D059	.	deleterious(0.03)	benign(0.016)	4/23	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23157,hmmpanther:PTHR23157:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGTCTGGCC	.	5	BLCA
SETX	0	.	GRCh37	9	135201758	135201758	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5227T>C	p.Tyr1743His	p.Y1743H	ENST00000224140	10/26	35	30	5	36	36	0	SETX,missense_variant,p.Tyr1743His,ENST00000372169,;SETX,missense_variant,p.Tyr1743His,ENST00000393220,;SETX,missense_variant,p.Tyr1743His,ENST00000224140,;	G	ENSG00000107290	ENST00000224140	Transcript	missense_variant	5410	5227	1743	Y/H	Tat/Cat	.	.	.	-1	SETX	HGNC	445	protein_coding	YES	CCDS6947.1	ENSP00000224140	SETX_HUMAN	.	UPI0000210D28	.	deleterious(0)	probably_damaging(0.999)	10/26	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF336	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATAATCTC	.	4	BLCA
MED22	0	.	GRCh37	9	136211147	136211147	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.246C>G	p.%3D	p.L82L	ENST00000491289	4/5	79	75	4	92	91	1	MED22,synonymous_variant,p.%3D,ENST00000476080,;MED22,synonymous_variant,p.%3D,ENST00000344469,;MED22,synonymous_variant,p.%3D,ENST00000491289,;MED22,synonymous_variant,p.%3D,ENST00000343730,;MED22,synonymous_variant,p.%3D,ENST00000494177,;MED22,synonymous_variant,p.%3D,ENST00000446777,;MED22,synonymous_variant,p.%3D,ENST00000371999,;MED22,synonymous_variant,p.%3D,ENST00000457204,;RPL7A,upstream_gene_variant,,ENST00000426651,;RPL7A,upstream_gene_variant,,ENST00000315731,;RPL7A,upstream_gene_variant,,ENST00000323345,;MED22,non_coding_transcript_exon_variant,,ENST00000471524,;RPL7A,upstream_gene_variant,,ENST00000496554,;RPL7A,upstream_gene_variant,,ENST00000468019,;RPL7A,upstream_gene_variant,,ENST00000485706,;RPL7A,upstream_gene_variant,,ENST00000489392,;RPL7A,upstream_gene_variant,,ENST00000463740,;MED22,downstream_gene_variant,,ENST00000482295,;RP11-244N20.7,downstream_gene_variant,,ENST00000439130,;	C	ENSG00000148297	ENST00000491289	Transcript	synonymous_variant	828	246	82	L	ctC/ctG	.	.	.	-1	MED22	HGNC	11477	protein_coding	YES	CCDS6963.1	ENSP00000420393	MED22_HUMAN	Q5T8T8_HUMAN,Q5T8T6_HUMAN,E9PGW7_HUMAN,E7EN96_HUMAN	UPI000013623C	.	.	.	4/5	.	hmmpanther:PTHR12434,Pfam_domain:PF06179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTGAGGTC	.	2	BLCA
CAAP1	0	.	GRCh37	9	26892427	26892427	+	Missense_Mutation	SNP	G	G	A	rs749294350	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287C>T	p.Ser96Leu	p.S96L	ENST00000333916	1/6	14	11	3	14	14	0	CAAP1,missense_variant,p.Ser96Leu,ENST00000333916,;CAAP1,missense_variant,p.Ser96Leu,ENST00000520187,;CAAP1,upstream_gene_variant,,ENST00000535437,;RN7SL100P,upstream_gene_variant,,ENST00000460565,;CAAP1,non_coding_transcript_exon_variant,,ENST00000495958,;CAAP1,upstream_gene_variant,,ENST00000517946,;CAAP1,missense_variant,p.Ser96Leu,ENST00000483493,;	A	ENSG00000120159	ENST00000333916	Transcript	missense_variant	376	287	96	S/L	tCg/tTg	rs749294350	.	.	-1	CAAP1	HGNC	25834	protein_coding	YES	CCDS6516.1	ENSP00000369431	CAAP1_HUMAN	.	UPI000013D280	.	tolerated_low_confidence(0.31)	unknown(0)	1/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14740	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCCGAGACG	.	2	BLCA
OR13J1	0	.	GRCh37	9	35869949	35869949	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450C>T	p.%3D	p.V150V	ENST00000377981	1/1	33	23	10	43	43	0	OR13J1,synonymous_variant,p.%3D,ENST00000377981,;NDUFA5P4,downstream_gene_variant,,ENST00000436704,;	A	ENSG00000168828	ENST00000377981	Transcript	synonymous_variant	513	450	150	V	gtC/gtT	.	.	.	-1	OR13J1	HGNC	15108	protein_coding	YES	CCDS35011.1	ENSP00000367219	O13J1_HUMAN	.	UPI000003FF73	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF38,hmmpanther:PTHR26453,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAGGACCCA	.	5	BLCA
APBA1	0	.	GRCh37	9	72072037	72072037	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1534C>G	p.Gln512Glu	p.Q512E	ENST00000265381	7/13	79	75	4	88	88	0	APBA1,missense_variant,p.Gln512Glu,ENST00000265381,;APBA1,non_coding_transcript_exon_variant,,ENST00000470082,;	C	ENSG00000107282	ENST00000265381	Transcript	missense_variant	1757	1534	512	Q/E	Cag/Gag	.	.	.	-1	APBA1	HGNC	578	protein_coding	YES	CCDS6630.1	ENSP00000265381	APBA1_HUMAN	.	UPI000013D611	.	deleterious(0.03)	benign(0.022)	7/13	.	PROSITE_profiles:PS01179,hmmpanther:PTHR12345:SF14,hmmpanther:PTHR12345,Pfam_domain:PF00640,Gene3D:2.30.29.30,SMART_domains:SM00462,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCTGAGATT	.	2	BLCA
TMEM261	0	.	GRCh37	9	7799694	7799694	+	Missense_Mutation	SNP	G	G	A	rs781137305	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.41C>T	p.Thr14Ile	p.T14I	ENST00000358227	1/2	36	26	10	49	49	0	TMEM261,missense_variant,p.Thr14Ile,ENST00000358227,;TMEM261,intron_variant,,ENST00000469050,;TMEM261,intron_variant,,ENST00000484082,;	A	ENSG00000137038	ENST00000358227	Transcript	missense_variant	374	41	14	T/I	aCt/aTt	rs781137305	.	.	-1	TMEM261	HGNC	30536	protein_coding	YES	CCDS34989.1	ENSP00000350961	TM261_HUMAN	.	UPI0000039E99	.	tolerated(0.39)	benign(0)	1/2	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCAGTGATA	.	5	BLCA
NTRK2	0	.	GRCh37	9	87325686	87325686	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.563A>C	p.Asn188Thr	p.N188T	ENST00000376214	8/21	64	56	8	103	103	0	NTRK2,missense_variant,p.Asn188Thr,ENST00000323115,;NTRK2,missense_variant,p.Asn32Thr,ENST00000395866,;NTRK2,missense_variant,p.Asn188Thr,ENST00000395882,;NTRK2,missense_variant,p.Asn188Thr,ENST00000376213,;NTRK2,missense_variant,p.Asn188Thr,ENST00000376208,;NTRK2,missense_variant,p.Asn188Thr,ENST00000277120,;NTRK2,missense_variant,p.Asn188Thr,ENST00000376214,;NTRK2,missense_variant,p.Asn188Thr,ENST00000359847,;NTRK2,missense_variant,p.Asn188Thr,ENST00000304053,;	C	ENSG00000148053	ENST00000376214	Transcript	missense_variant	1501	563	188	N/T	aAc/aCc	.	.	.	1	NTRK2	HGNC	8032	protein_coding	YES	CCDS6671.1	ENSP00000365387	NTRK2_HUMAN	S5MD53_HUMAN,Q8WXJ4_HUMAN	UPI000006FA0D	.	tolerated(0.69)	benign(0.013)	8/21	.	hmmpanther:PTHR24416:SF136,hmmpanther:PTHR24416,SMART_domains:SM00082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCAAACCTGC	.	4	BLCA
WWC3	0	.	GRCh37	X	10094307	10094307	+	Nonsense_Mutation	SNP	C	C	G	rs199701428	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2067C>G	p.Tyr689Ter	p.Y689*	ENST00000380861	15/23	59	53	6	95	95	0	WWC3,stop_gained,p.Tyr689Ter,ENST00000380861,;WWC3,stop_gained,p.Tyr689Ter,ENST00000454666,;	G	ENSG00000047644	ENST00000380861	Transcript	stop_gained	2458	2067	689	Y/*	taC/taG	rs199701428	.	.	1	WWC3	HGNC	29237	protein_coding	YES	CCDS14136.1	ENSP00000370242	WWC3_HUMAN	T2C6S4_HUMAN	UPI0000225CDE	.	.	.	15/23	.	hmmpanther:PTHR14791,hmmpanther:PTHR14791:SF25,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	T:0.0003	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTATACGTGTG	byCluster|by1000G	4	BLCA
OR13H1	0	.	GRCh37	X	130678906	130678906	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859C>T	p.%3D	p.L287L	ENST00000338616	1/1	50	30	20	80	80	0	OR13H1,synonymous_variant,p.%3D,ENST00000338616,;	T	ENSG00000171054	ENST00000338616	Transcript	synonymous_variant	957	859	287	L	Ctg/Ttg	.	.	.	1	OR13H1	HGNC	14755	protein_coding	YES	CCDS35396.1	ENSP00000340748	O13H1_HUMAN	.	UPI000003CAC9	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF76,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCCCTGATA	.	5	BLCA
MAP3K15	0	.	GRCh37	X	19506967	19506967	+	Silent	SNP	G	G	A	rs761893536	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.480C>T	p.%3D	p.A160A	ENST00000338883	2/29	61	56	4	59	59	0	MAP3K15,synonymous_variant,p.%3D,ENST00000338883,;MAP3K15,upstream_gene_variant,,ENST00000469203,;	A	ENSG00000180815	ENST00000338883	Transcript	synonymous_variant	480	480	160	A	gcC/gcT	rs761893536	.	.	-1	MAP3K15	HGNC	31689	protein_coding	YES	.	ENSP00000345629	M3K15_HUMAN	E7EWI5_HUMAN	UPI0000E444D0	.	.	.	2/29	.	hmmpanther:PTHR11584,hmmpanther:PTHR11584:SF363,Pfam_domain:PF13281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGTCGGCATC	.	3	BLCA
IL1RAPL1	0	.	GRCh37	X	29417410	29417410	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688G>A	p.Glu230Lys	p.E230K	ENST00000378993	5/11	27	24	3	52	52	0	IL1RAPL1,missense_variant,p.Glu230Lys,ENST00000378993,;IL1RAPL1,missense_variant,p.Glu230Lys,ENST00000302196,;	A	ENSG00000169306	ENST00000378993	Transcript	missense_variant	1361	688	230	E/K	Gaa/Aaa	.	.	.	1	IL1RAPL1	HGNC	5996	protein_coding	YES	CCDS14218.1	ENSP00000368278	IRPL1_HUMAN	Q7Z2H0_HUMAN	UPI000006D1BF	.	tolerated(0.41)	benign(0.341)	5/11	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF13895,hmmpanther:PTHR11890,hmmpanther:PTHR11890:SF20,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTACTGAATTA	.	2	BLCA
CXorf22	0	.	GRCh37	X	35989825	35989825	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2093G>C	p.Arg698Thr	p.R698T	ENST00000297866	12/16	26	11	14	39	39	0	CXorf22,missense_variant,p.Arg698Thr,ENST00000297866,;CXorf22,missense_variant,p.Arg698Thr,ENST00000493930,;	C	ENSG00000165164	ENST00000297866	Transcript	missense_variant	2159	2093	698	R/T	aGa/aCa	.	.	.	1	CXorf22	HGNC	28546	protein_coding	YES	CCDS14237.2	ENSP00000297866	CX022_HUMAN	.	UPI000022DD27	.	tolerated(0.2)	benign(0.009)	12/16	.	hmmpanther:PTHR23053	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTAGAGCGA	.	5	BLCA
KDM6A	0	.	GRCh37	X	44920639	44920639	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1400G>A	p.Trp467Ter	p.W467*	ENST00000377967	14/29	9	4	5	14	14	0	KDM6A,stop_gained,p.Trp110Ter,ENST00000433797,;KDM6A,stop_gained,p.Trp65Ter,ENST00000414389,;KDM6A,stop_gained,p.Trp131Ter,ENST00000451692,;KDM6A,stop_gained,p.Trp422Ter,ENST00000543216,;KDM6A,stop_gained,p.Trp474Ter,ENST00000382899,;KDM6A,stop_gained,p.Trp467Ter,ENST00000377967,;KDM6A,stop_gained,p.Trp422Ter,ENST00000536777,;	A	ENSG00000147050	ENST00000377967	Transcript	stop_gained	1441	1400	467	W/*	tGg/tAg	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	14/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5	RADIA|MUTECT|MUSE	TTCATGGTGTT	.	3	BLCA
USP11	0	.	GRCh37	X	47102076	47102076	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1669G>A	p.Glu557Lys	p.E557K	ENST00000218348	12/21	29	25	4	51	51	0	USP11,missense_variant,p.Glu557Lys,ENST00000218348,;USP11,missense_variant,p.Glu514Lys,ENST00000377107,;USP11,downstream_gene_variant,,ENST00000377078,;USP11,downstream_gene_variant,,ENST00000377080,;USP11,non_coding_transcript_exon_variant,,ENST00000469080,;USP11,non_coding_transcript_exon_variant,,ENST00000480104,;USP11,downstream_gene_variant,,ENST00000489111,;USP11,downstream_gene_variant,,ENST00000478596,;USP11,upstream_gene_variant,,ENST00000467378,;USP11,upstream_gene_variant,,ENST00000497179,;USP11,upstream_gene_variant,,ENST00000488848,;USP11,downstream_gene_variant,,ENST00000489030,;	A	ENSG00000102226	ENST00000218348	Transcript	missense_variant	1669	1669	557	E/K	Gag/Aag	.	.	.	1	USP11	HGNC	12609	protein_coding	YES	CCDS14277.1	ENSP00000218348	UBP11_HUMAN	Q6P453_HUMAN,Q5JXD3_HUMAN,G5E9A6_HUMAN,B4DGK3_HUMAN,B3KP28_HUMAN	UPI0000161434	.	deleterious(0.02)	benign(0.278)	12/21	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF403,hmmpanther:PTHR24006,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTAGAGGAG	.	4	BLCA
FOXR2	0	.	GRCh37	X	55650514	55650514	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370G>A	p.Glu124Lys	p.E124K	ENST00000339140	1/1	26	22	4	36	36	0	FOXR2,missense_variant,p.Glu124Lys,ENST00000339140,;	A	ENSG00000189299	ENST00000339140	Transcript	missense_variant	682	370	124	E/K	Gag/Aag	COSM3562583	.	.	1	FOXR2	HGNC	30469	protein_coding	YES	CCDS35308.1	ENSP00000427329	FOXR2_HUMAN	.	UPI00001603CE	.	tolerated(0.1)	benign(0.045)	1/1	.	hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF73	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCAGAGGAC	.	2	BLCA
ERCC6L	0	.	GRCh37	X	71427803	71427803	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.814G>C	p.Asp272His	p.D272H	ENST00000334463	2/2	50	43	7	49	49	0	ERCC6L,missense_variant,p.Asp149His,ENST00000373657,;ERCC6L,missense_variant,p.Asp272His,ENST00000334463,;PIN4,intron_variant,,ENST00000423432,;PIN4,intron_variant,,ENST00000496835,;PIN4,intron_variant,,ENST00000439980,;	G	ENSG00000186871	ENST00000334463	Transcript	missense_variant	950	814	272	D/H	Gat/Cat	.	.	.	-1	ERCC6L	HGNC	20794	protein_coding	YES	CCDS35329.1	ENSP00000334675	ERC6L_HUMAN	B5MDQ0_HUMAN	UPI000021233E	.	deleterious(0)	probably_damaging(0.994)	2/2	.	PROSITE_profiles:PS51192,hmmpanther:PTHR10799:SF67,hmmpanther:PTHR10799,Gene3D:3.40.50.300,Pfam_domain:PF00176,SMART_domains:SM00487,Superfamily_domains:SSF52540,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATCAAATA	.	4	BLCA
ATRX	0	.	GRCh37	X	76856024	76856024	+	Missense_Mutation	SNP	T	T	C	rs587778084	.	TCGA-XF-A9SJ-01A-11D-A391-08	TCGA-XF-A9SJ-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5576A>G	p.Asn1859Ser	p.N1859S	ENST00000373344	23/35	104	99	5	164	164	0	ATRX,missense_variant,p.Asn1821Ser,ENST00000395603,;ATRX,missense_variant,p.Asn1859Ser,ENST00000373344,;ATRX,non_coding_transcript_exon_variant,,ENST00000480283,;ATRX,non_coding_transcript_exon_variant,,ENST00000479487,;	C	ENSG00000085224	ENST00000373344	Transcript	missense_variant	5791	5576	1859	N/S	aAt/aGt	rs587778084	.	.	-1	ATRX	HGNC	886	protein_coding	YES	CCDS14434.1	ENSP00000362441	ATRX_HUMAN	B4DLE1_HUMAN	UPI0000161F78	.	.	benign(0.06)	23/35	.	hmmpanther:PTHR10799:SF566,hmmpanther:PTHR10799,Pfam_domain:PF00176	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATTATTGCCC	.	2	BLCA
MYO3A	0	.	GRCh37	10	26310672	26310672	+	Intron	SNP	A	A	G	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.731+95A>G	.	.	ENST00000265944	.	17	7	10	15	15	0	MYO3A,3_prime_UTR_variant,,ENST00000376302,;MYO3A,intron_variant,,ENST00000265944,;MYO3A,intron_variant,,ENST00000543632,;MYO3A,downstream_gene_variant,,ENST00000376301,;	G	ENSG00000095777	ENST00000265944	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MYO3A	HGNC	7601	protein_coding	YES	CCDS7148.1	ENSP00000265944	MYO3A_HUMAN	.	UPI000014140A	.	.	.	.	8/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CAGATATATTC	.	2	BLCA
GDF10	0	.	GRCh37	10	48429497	48429497	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389C>T	p.Thr130Met	p.T130M	ENST00000224605	2/3	23	19	4	15	15	0	GDF10,missense_variant,p.Thr130Met,ENST00000224605,;	A	ENSG00000107623	ENST00000224605	Transcript	missense_variant	655	389	130	T/M	aCg/aTg	COSM42669	.	.	-1	GDF10	HGNC	4215	protein_coding	YES	CCDS7220.1	ENSP00000224605	BMP3B_HUMAN	Q8N6T2_HUMAN	UPI0000126A13	.	tolerated(0.06)	benign(0.061)	2/3	.	hmmpanther:PTHR11848,hmmpanther:PTHR11848:SF145,Pfam_domain:PF00688,PIRSF_domain:PIRSF037403	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	TGGCCGTAAGG	.	2	BLCA
MRGPRX2	0	.	GRCh37	11	19077768	19077768	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.182G>A	p.Arg61Lys	p.R61K	ENST00000329773	2/2	75	22	53	75	75	0	MRGPRX2,missense_variant,p.Arg61Lys,ENST00000329773,;	T	ENSG00000183695	ENST00000329773	Transcript	missense_variant	270	182	61	R/K	aGg/aAg	.	.	.	-1	MRGPRX2	HGNC	17983	protein_coding	YES	CCDS7847.1	ENSP00000333800	MRGX2_HUMAN	.	UPI0000038C81	.	tolerated(0.1)	benign(0.371)	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR11334:SF25,hmmpanther:PTHR11334,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR02108	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N62S|c.185A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTTCCTGCGC	.	5	BLCA
HRAS	0	.	GRCh37	11	533874	533874	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.182A>T	p.Gln61Leu	p.Q61L	ENST00000451590	3/5	79	16	62	75	75	0	HRAS,missense_variant,p.Gln61Leu,ENST00000417302,;HRAS,missense_variant,p.Gln61Leu,ENST00000397596,;HRAS,missense_variant,p.Gln61Leu,ENST00000311189,;HRAS,missense_variant,p.Gln61Leu,ENST00000397594,;HRAS,missense_variant,p.Gln61Leu,ENST00000451590,;LRRC56,upstream_gene_variant,,ENST00000270115,;RP13-46H24.1,downstream_gene_variant,,ENST00000526431,;HRAS,non_coding_transcript_exon_variant,,ENST00000468682,;HRAS,non_coding_transcript_exon_variant,,ENST00000479482,;HRAS,upstream_gene_variant,,ENST00000462734,;HRAS,upstream_gene_variant,,ENST00000478324,;HRAS,downstream_gene_variant,,ENST00000482021,;HRAS,missense_variant,p.Gln61Leu,ENST00000493230,;	A	ENSG00000174775	ENST00000451590	Transcript	missense_variant	370	182	61	Q/L	cAg/cTg	COSM500,COSM499,COSM498,COSM99664,COSM244958	.	.	-1	HRAS	HGNC	5173	protein_coding	YES	CCDS7698.1	ENSP00000407586	RASH_HUMAN	Q9UM97_HUMAN,Q71SP6_HUMAN,P78460_HUMAN	UPI0000001251	.	deleterious(0)	possibly_damaging(0.476)	3/5	.	PROSITE_profiles:PS51421,hmmpanther:PTHR24070:SF184,hmmpanther:PTHR24070,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00174,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q61L|c.182A>T|146,SITE|p.Q61L|c.182A>T|7,CODON|p.Q61H|c.183G>C|6,CODON|p.Q61H|c.183G>T|14,CODON|p.Q61P|c.182A>C|3,CODON|p.Q61R|c.182A>G|35,CODON|p.Q61R|c.182A>G|187,BUFFER|p.E62G|c.185A>G|5,BUFFER|p.Q61K|c.181C>A|17,BUFFER|p.Q61K|c.181C>A|82	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCTGGCCG	.	5	BLCA
STK33	0	.	GRCh37	11	8496318	8496318	+	Silent	SNP	T	T	A	rs200899066	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135A>T	p.%3D	p.T45T	ENST00000447869	1/12	125	79	46	131	130	0	STK33,synonymous_variant,p.%3D,ENST00000457885,;STK33,synonymous_variant,p.%3D,ENST00000422559,;STK33,synonymous_variant,p.%3D,ENST00000315204,;STK33,synonymous_variant,p.%3D,ENST00000418597,;STK33,synonymous_variant,p.%3D,ENST00000396672,;STK33,synonymous_variant,p.%3D,ENST00000431279,;STK33,synonymous_variant,p.%3D,ENST00000534493,;STK33,synonymous_variant,p.%3D,ENST00000396673,;STK33,synonymous_variant,p.%3D,ENST00000447869,;STK33,intron_variant,,ENST00000358872,;STK33,upstream_gene_variant,,ENST00000524760,;STK33,downstream_gene_variant,,ENST00000454443,;STK33,downstream_gene_variant,,ENST00000526360,;STK33,intron_variant,,ENST00000526517,;STK33,non_coding_transcript_exon_variant,,ENST00000532336,;	A	ENSG00000130413	ENST00000447869	Transcript	synonymous_variant	1054	135	45	T	acA/acT	rs200899066	.	.	-1	STK33	HGNC	14568	protein_coding	YES	CCDS7789.1	ENSP00000416750	STK33_HUMAN	F8WAK5_HUMAN,E9PNP9_HUMAN,C9JCS6_HUMAN,C9J8B1_HUMAN,C9J6X7_HUMAN,C9J5G1_HUMAN,C9J319_HUMAN,B4DDH2_HUMAN	UPI000004496E	.	.	.	1/12	.	hmmpanther:PTHR24347:SF133,hmmpanther:PTHR24347	C:0.0002	C:0	C:0	.	C:0	C:0	C:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGATGTCTG	byCluster|by1000G	5	BLCA
GIT2	0	.	GRCh37	12	110385083	110385083	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1619G>C	p.Arg540Thr	p.R540T	ENST00000355312	15/20	52	33	19	71	71	0	GIT2,missense_variant,p.Arg540Thr,ENST00000361006,;GIT2,missense_variant,p.Arg492Thr,ENST00000457474,;GIT2,missense_variant,p.Arg540Thr,ENST00000355312,;GIT2,missense_variant,p.Arg489Thr,ENST00000551209,;GIT2,missense_variant,p.Arg478Thr,ENST00000550186,;GIT2,missense_variant,p.Arg460Thr,ENST00000343646,;GIT2,missense_variant,p.Arg492Thr,ENST00000354574,;GIT2,missense_variant,p.Arg490Thr,ENST00000360185,;GIT2,intron_variant,,ENST00000356259,;GIT2,intron_variant,,ENST00000338373,;GIT2,intron_variant,,ENST00000553118,;GIT2,downstream_gene_variant,,ENST00000320063,;GIT2,downstream_gene_variant,,ENST00000547815,;TCHP,intron_variant,,ENST00000550780,;GIT2,upstream_gene_variant,,ENST00000548000,;GIT2,non_coding_transcript_exon_variant,,ENST00000549999,;TCHP,intron_variant,,ENST00000544838,;GIT2,downstream_gene_variant,,ENST00000551455,;	G	ENSG00000139436	ENST00000355312	Transcript	missense_variant	1619	1619	540	R/T	aGa/aCa	.	.	.	-1	GIT2	HGNC	4273	protein_coding	YES	CCDS9138.1	ENSP00000347464	GIT2_HUMAN	.	UPI000012B4C5	.	tolerated(0.26)	benign(0.003)	15/20	.	hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGTCTCATC	.	5	BLCA
CUX2	0	.	GRCh37	12	111652022	111652022	+	Missense_Mutation	SNP	G	G	A	rs374906688	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82G>A	p.Ala28Thr	p.A28T	ENST00000261726	2/22	58	40	17	72	72	0	CUX2,missense_variant,p.Ala88Thr,ENST00000397643,;CUX2,missense_variant,p.Ala28Thr,ENST00000261726,;CUX2,upstream_gene_variant,,ENST00000551604,;	A	ENSG00000111249	ENST00000261726	Transcript	missense_variant	236	82	28	A/T	Gct/Act	rs374906688	.	.	1	CUX2	HGNC	19347	protein_coding	YES	CCDS41837.1	ENSP00000261726	CUX2_HUMAN	Q9BZX3_HUMAN,Q9BZV4_HUMAN	UPI00001FBB07	.	deleterious(0)	probably_damaging(0.997)	2/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14043,hmmpanther:PTHR14043:SF5	.	.	.	.	.	.	.	A:0.0003	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTCGCTTCT	byFrequency|byCluster	5	BLCA
SDS	0	.	GRCh37	12	113830675	113830675	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71C>T	.	.	ENST00000257549	8/8	81	49	31	96	96	0	SDS,3_prime_UTR_variant,,ENST00000257549,;PLBD2,downstream_gene_variant,,ENST00000280800,;PLBD2,downstream_gene_variant,,ENST00000545182,;SDS,downstream_gene_variant,,ENST00000552280,;SDS,downstream_gene_variant,,ENST00000553112,;	A	ENSG00000135094	ENST00000257549	Transcript	3_prime_UTR_variant	1181	.	.	.	.	.	.	.	-1	SDS	HGNC	10691	protein_coding	YES	CCDS9169.1	ENSP00000257549	SDHL_HUMAN	.	UPI000013CF6B	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGCGCTGGA	.	5	BLCA
PUS1	0	.	GRCh37	12	132428252	132428252	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*121G>A	.	.	ENST00000376649	6/6	9	5	4	10	10	0	PUS1,3_prime_UTR_variant,,ENST00000542167,;PUS1,3_prime_UTR_variant,,ENST00000443358,;PUS1,3_prime_UTR_variant,,ENST00000440818,;PUS1,3_prime_UTR_variant,,ENST00000535067,;PUS1,3_prime_UTR_variant,,ENST00000376649,;PUS1,downstream_gene_variant,,ENST00000537484,;PUS1,downstream_gene_variant,,ENST00000322060,;PUS1,downstream_gene_variant,,ENST00000538037,;PUS1,non_coding_transcript_exon_variant,,ENST00000543754,;	A	ENSG00000177192	ENST00000376649	Transcript	3_prime_UTR_variant	1905	.	.	.	.	.	.	.	1	PUS1	HGNC	15508	protein_coding	YES	CCDS9275.2	ENSP00000365837	TRUA_HUMAN	E5KMT6_HUMAN,E5KMT5_HUMAN,G8JLB3_HUMAN,F5GY32_HUMAN	UPI000006FC81	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCGGCGTTG	.	2	BLCA
PPFIBP1	0	.	GRCh37	12	27825375	27825375	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1329C>T	p.%3D	p.I443I	ENST00000318304	15/29	27	17	9	28	28	0	PPFIBP1,synonymous_variant,p.%3D,ENST00000228425,;PPFIBP1,synonymous_variant,p.%3D,ENST00000318304,;PPFIBP1,synonymous_variant,p.%3D,ENST00000537927,;PPFIBP1,synonymous_variant,p.%3D,ENST00000537261,;PPFIBP1,synonymous_variant,p.%3D,ENST00000542629,;PPFIBP1,synonymous_variant,p.%3D,ENST00000540114,;	T	ENSG00000110841	ENST00000318304	Transcript	synonymous_variant	1612	1329	443	I	atC/atT	.	.	.	1	PPFIBP1	HGNC	9249	protein_coding	YES	CCDS55812.1	ENSP00000314724	LIPB1_HUMAN	F5H6Q7_HUMAN	UPI00004565E6	.	.	.	15/29	.	hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAATCCTTGG	.	5	BLCA
CD163L1	0	.	GRCh37	12	7531611	7531611	+	Silent	SNP	C	C	T	rs201306383	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2334G>A	p.%3D	p.A778A	ENST00000313599	9/20	95	63	32	107	107	0	CD163L1,synonymous_variant,p.%3D,ENST00000416109,;CD163L1,synonymous_variant,p.%3D,ENST00000313599,;CD163L1,synonymous_variant,p.%3D,ENST00000396630,;CD163L1,non_coding_transcript_exon_variant,,ENST00000544331,;	T	ENSG00000177675	ENST00000313599	Transcript	synonymous_variant	2392	2334	778	A	gcG/gcA	rs201306383	.	.	-1	CD163L1	HGNC	30375	protein_coding	YES	CCDS8577.1	ENSP00000315945	C163B_HUMAN	F5H7R7_HUMAN	UPI000013F5AD	.	.	.	9/20	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331:SF260,hmmpanther:PTHR19331,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	T:0	T:0	.	T:0	T:0.001	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACACGCAGT	byFrequency|byCluster|by1000G	5	BLCA
KLHL1	0	.	GRCh37	13	70371010	70371010	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1499G>T	p.Gly500Val	p.G500V	ENST00000377844	7/11	120	81	39	150	150	0	KLHL1,missense_variant,p.Gly307Val,ENST00000545028,;KLHL1,missense_variant,p.Gly500Val,ENST00000377844,;	A	ENSG00000150361	ENST00000377844	Transcript	missense_variant	2259	1499	500	G/V	gGt/gTt	.	.	.	-1	KLHL1	HGNC	6352	protein_coding	YES	CCDS9445.1	ENSP00000367075	KLHL1_HUMAN	Q96RF4_HUMAN	UPI000004B136	.	deleterious(0)	probably_damaging(1)	7/11	.	hmmpanther:PTHR24412:SF75,hmmpanther:PTHR24412,Pfam_domain:PF01344,Gene3D:1k3iA02,SMART_domains:SM00612,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACACCAAAC	.	5	BLCA
C16orf98	0	.	GRCh37	16	31214015	31214015	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241T>C	p.Ser81Pro	p.S81P	ENST00000561916	2/2	58	36	22	49	49	0	C16orf98,missense_variant,p.Ser81Pro,ENST00000561916,;PYCARD,5_prime_UTR_variant,,ENST00000247470,;PYCARD,5_prime_UTR_variant,,ENST00000350605,;PYCARD,5_prime_UTR_variant,,ENST00000561508,;PYCARD,upstream_gene_variant,,ENST00000565022,;	C	ENSG00000261359	ENST00000561916	Transcript	missense_variant	337	241	81	S/P	Tcc/Ccc	.	.	.	1	C16orf98	HGNC	45036	protein_coding	YES	.	ENSP00000458304	CP098_HUMAN	.	UPI00016628A8	.	.	unknown(0)	2/2	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGCTCCAGG	.	5	BLCA
CDH11	0	.	GRCh37	16	65016142	65016142	+	Silent	SNP	G	G	A	rs771089094	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1062C>T	p.%3D	p.I354I	ENST00000268603	8/13	78	49	28	88	88	0	CDH11,synonymous_variant,p.%3D,ENST00000394156,;CDH11,synonymous_variant,p.%3D,ENST00000268603,;CDH11,synonymous_variant,p.%3D,ENST00000566827,;	A	ENSG00000140937	ENST00000268603	Transcript	synonymous_variant	1678	1062	354	I	atC/atT	rs771089094	.	.	-1	CDH11	HGNC	1750	protein_coding	YES	CCDS10803.1	ENSP00000268603	CAD11_HUMAN	H3BUU9_HUMAN,H3BSM4_HUMAN,H3BR78_HUMAN,H3BQH2_HUMAN,H3BQB5_HUMAN,H3BPQ2_HUMAN,H3BP26_HUMAN	UPI000013D7C5	.	.	.	8/13	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF85,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K357T|c.1070A>C|4,BUFFER|p.K357T|c.1070A>C|4,BUFFER|p.P356P|c.1068G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGTCGATGTG	.	5	BLCA
PLEKHG4	0	.	GRCh37	16	67316524	67316524	+	Missense_Mutation	SNP	C	C	T	rs759951391	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1372C>T	p.Arg458Trp	p.R458W	ENST00000360461	9/21	52	28	24	58	58	0	PLEKHG4,missense_variant,p.Arg458Trp,ENST00000360461,;PLEKHG4,missense_variant,p.Arg458Trp,ENST00000379344,;PLEKHG4,missense_variant,p.Arg458Trp,ENST00000427155,;PLEKHG4,missense_variant,p.Arg377Trp,ENST00000450733,;PLEKHG4,downstream_gene_variant,,ENST00000567938,;PLEKHG4,downstream_gene_variant,,ENST00000568621,;PLEKHG4,downstream_gene_variant,,ENST00000565899,;PLEKHG4,downstream_gene_variant,,ENST00000562144,;PLEKHG4,downstream_gene_variant,,ENST00000565773,;PLEKHG4,downstream_gene_variant,,ENST00000562744,;PLEKHG4,3_prime_UTR_variant,,ENST00000563969,;PLEKHG4,3_prime_UTR_variant,,ENST00000393966,;PLEKHG4,upstream_gene_variant,,ENST00000562289,;	T	ENSG00000196155	ENST00000360461	Transcript	missense_variant	3907	1372	458	R/W	Cgg/Tgg	rs759951391	.	.	1	PLEKHG4	HGNC	24501	protein_coding	YES	CCDS32466.1	ENSP00000353646	PKHG4_HUMAN	H3BSU4_HUMAN,H3BQP9_HUMAN,H3BQE6_HUMAN,H3BPQ5_HUMAN,H3BME5_HUMAN,C5IFI8_HUMAN	UPI000013C774	.	tolerated(0.19)	benign(0.164)	9/21	.	hmmpanther:PTHR22826:SF110,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCCGGGAA	byFrequency	5	BLCA
ITGAE	0	.	GRCh37	17	3680919	3680919	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.70G>T	p.Ala24Ser	p.A24S	ENST00000263087	2/31	51	41	10	78	78	0	ITGAE,missense_variant,p.Ala24Ser,ENST00000263087,;	A	ENSG00000083457	ENST00000263087	Transcript	missense_variant	169	70	24	A/S	Gcc/Tcc	.	.	.	-1	ITGAE	HGNC	6147	protein_coding	YES	CCDS32531.1	ENSP00000263087	ITAE_HUMAN	.	UPI000049DE2D	.	tolerated(0.32)	benign(0.028)	2/31	.	hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF74,Gene3D:3nigC00	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGGGCCACAT	.	5	BLCA
STAT5A	0	.	GRCh37	17	40461544	40461544	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2222+42G>A	.	.	ENST00000345506	.	23	14	9	14	14	0	STAT5A,3_prime_UTR_variant,,ENST00000587646,;STAT5A,intron_variant,,ENST00000546010,;STAT5A,intron_variant,,ENST00000590949,;STAT5A,intron_variant,,ENST00000452307,;STAT5A,intron_variant,,ENST00000345506,;STAT5A,intron_variant,,ENST00000588868,;STAT3,downstream_gene_variant,,ENST00000264657,;STAT5A,intron_variant,,ENST00000468096,;STAT5A,downstream_gene_variant,,ENST00000479417,;STAT5A,downstream_gene_variant,,ENST00000591556,;	A	ENSG00000126561	ENST00000345506	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	STAT5A	HGNC	11366	protein_coding	YES	CCDS11424.1	ENSP00000341208	STA5A_HUMAN	K7EIF9_HUMAN,C9JVV6_HUMAN	UPI0000136075	.	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGGGACTTG	.	5	BLCA
MED13	0	.	GRCh37	17	60040276	60040276	+	Missense_Mutation	SNP	G	G	C	rs779887785	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4901C>G	p.Thr1634Arg	p.T1634R	ENST00000397786	21/30	149	140	9	117	117	0	MED13,missense_variant,p.Thr1634Arg,ENST00000397786,;	C	ENSG00000108510	ENST00000397786	Transcript	missense_variant	4978	4901	1634	T/R	aCg/aGg	rs779887785	.	.	-1	MED13	HGNC	22474	protein_coding	YES	CCDS42366.1	ENSP00000380888	MED13_HUMAN	.	UPI0000D7D6F6	.	deleterious(0.01)	benign(0.246)	21/30	.	hmmpanther:PTHR12950:SF22,hmmpanther:PTHR12950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATACGTGACT	byFrequency	2	BLCA
CDR2L	0	.	GRCh37	17	73000112	73000112	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1341C>T	p.%3D	p.I447I	ENST00000337231	5/5	25	16	8	14	14	0	CDR2L,synonymous_variant,p.%3D,ENST00000337231,;	T	ENSG00000109089	ENST00000337231	Transcript	synonymous_variant	1753	1341	447	I	atC/atT	.	.	.	1	CDR2L	HGNC	29999	protein_coding	YES	CCDS11710.2	ENSP00000336587	CDR2L_HUMAN	.	UPI00005AE46D	.	.	.	5/5	.	hmmpanther:PTHR19232:SF10,hmmpanther:PTHR19232	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATCCAGAA	.	5	BLCA
CTC1	0	.	GRCh37	17	8136307	8136307	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1862T>C	p.Leu621Pro	p.L621P	ENST00000315684	11/23	112	59	52	108	108	0	CTC1,missense_variant,p.Leu621Pro,ENST00000315684,;CTC1,upstream_gene_variant,,ENST00000581729,;CTC1,upstream_gene_variant,,ENST00000580299,;CTC1,downstream_gene_variant,,ENST00000581671,;CTC1,missense_variant,p.Leu586Pro,ENST00000449476,;CTC1,non_coding_transcript_exon_variant,,ENST00000581967,;CTC1,non_coding_transcript_exon_variant,,ENST00000583254,;CTC1,upstream_gene_variant,,ENST00000578441,;CTC1,upstream_gene_variant,,ENST00000578537,;CTC1,upstream_gene_variant,,ENST00000584439,;CTC1,downstream_gene_variant,,ENST00000579066,;CTC1,upstream_gene_variant,,ENST00000578240,;	G	ENSG00000178971	ENST00000315684	Transcript	missense_variant	1870	1862	621	L/P	cTg/cCg	.	.	.	-1	CTC1	HGNC	26169	protein_coding	YES	CCDS42259.1	ENSP00000313759	CTC1_HUMAN	.	UPI000041A9A9	.	deleterious(0)	probably_damaging(0.988)	11/23	.	hmmpanther:PTHR14865,Pfam_domain:PF15489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGCAGACAA	.	5	BLCA
SEC11C	0	.	GRCh37	18	56819839	56819839	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269G>C	p.Arg90Thr	p.R90T	ENST00000587834	3/6	182	121	61	134	134	0	SEC11C,missense_variant,p.Arg90Thr,ENST00000587834,;SEC11C,missense_variant,p.Arg90Thr,ENST00000588875,;SEC11C,downstream_gene_variant,,ENST00000592774,;SEC11C,downstream_gene_variant,,ENST00000593132,;SEC11C,missense_variant,p.Arg90Thr,ENST00000299714,;SEC11C,non_coding_transcript_exon_variant,,ENST00000585864,;SEC11C,non_coding_transcript_exon_variant,,ENST00000509791,;SEC11C,upstream_gene_variant,,ENST00000591406,;	C	ENSG00000166562	ENST00000587834	Transcript	missense_variant	741	269	90	R/T	aGa/aCa	.	.	.	1	SEC11C	HGNC	23400	protein_coding	YES	CCDS11970.1	ENSP00000468633	SC11C_HUMAN	B4DI03_HUMAN	UPI0000000DC8	.	deleterious(0.03)	benign(0.285)	3/6	.	hmmpanther:PTHR10806,hmmpanther:PTHR10806:SF3,Pfam_domain:PF00717,Gene3D:2.10.109.10,TIGRFAM_domain:TIGR02228,Superfamily_domains:SSF51306	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCAGAGCTG	.	5	BLCA
ATP5D	0	.	GRCh37	19	1244149	1244149	+	Missense_Mutation	SNP	G	G	A	rs753537314	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.349G>A	p.Glu117Lys	p.E117K	ENST00000215375	3/4	15	9	6	26	25	1	ATP5D,missense_variant,p.Glu117Lys,ENST00000215375,;ATP5D,missense_variant,p.Glu117Lys,ENST00000395633,;ATP5D,missense_variant,p.Glu117Lys,ENST00000591660,;MIDN,upstream_gene_variant,,ENST00000300952,;MIDN,upstream_gene_variant,,ENST00000586757,;AC004221.2,downstream_gene_variant,,ENST00000592843,;ATP5D,non_coding_transcript_exon_variant,,ENST00000591249,;ATP5D,non_coding_transcript_exon_variant,,ENST00000588538,;ATP5D,non_coding_transcript_exon_variant,,ENST00000589478,;ATP5D,non_coding_transcript_exon_variant,,ENST00000590265,;ATP5D,downstream_gene_variant,,ENST00000592624,;	A	ENSG00000099624	ENST00000215375	Transcript	missense_variant	450	349	117	E/K	Gaa/Aaa	rs753537314,COSM991244	.	.	1	ATP5D	HGNC	837	protein_coding	YES	CCDS12058.1	ENSP00000215375	ATPD_HUMAN	.	UPI000004493C	.	deleterious(0)	probably_damaging(1)	3/4	.	HAMAP:MF_00530,hmmpanther:PTHR13822,Pfam_domain:PF02823,TIGRFAM_domain:TIGR01216,Gene3D:2.60.15.10,Superfamily_domains:SSF51344	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	TGGCCGAAGAG	.	2	BLCA
ZNF613	0	.	GRCh37	19	52447758	52447758	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622G>A	p.Glu208Lys	p.E208K	ENST00000293471	6/6	250	165	85	242	241	1	ZNF613,missense_variant,p.Glu172Lys,ENST00000391794,;ZNF613,missense_variant,p.Glu208Lys,ENST00000293471,;ZNF613,downstream_gene_variant,,ENST00000599683,;ZNF613,downstream_gene_variant,,ENST00000600853,;HCCAT3,upstream_gene_variant,,ENST00000600253,;HCCAT3,upstream_gene_variant,,ENST00000595010,;ZNF613,upstream_gene_variant,,ENST00000601794,;ZNF613,downstream_gene_variant,,ENST00000593379,;	A	ENSG00000176024	ENST00000293471	Transcript	missense_variant	1301	622	208	E/K	Gag/Aag	.	.	.	1	ZNF613	HGNC	25827	protein_coding	YES	CCDS33089.1	ENSP00000293471	ZN613_HUMAN	M0R2C1_HUMAN,M0QX19_HUMAN	UPI0000202AD1	.	deleterious(0.03)	possibly_damaging(0.671)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24404,hmmpanther:PTHR24404:SF26,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACTGAGTGT	.	5	BLCA
CHIA	0	.	GRCh37	1	111860424	111860424	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.602C>T	p.Ser201Leu	p.S201L	ENST00000369740	7/12	54	34	19	64	64	0	CHIA,missense_variant,p.Ser201Leu,ENST00000369740,;CHIA,missense_variant,p.Ser201Leu,ENST00000343320,;CHIA,missense_variant,p.Ser40Leu,ENST00000489524,;CHIA,missense_variant,p.Ser93Leu,ENST00000430615,;CHIA,missense_variant,p.Ser40Leu,ENST00000483391,;CHIA,missense_variant,p.Ser40Leu,ENST00000353665,;CHIA,missense_variant,p.Ser40Leu,ENST00000451398,;CHIA,missense_variant,p.Ser145Leu,ENST00000422815,;RP5-1125M8.2,non_coding_transcript_exon_variant,,ENST00000426321,;CHIA,3_prime_UTR_variant,,ENST00000352594,;CHIA,non_coding_transcript_exon_variant,,ENST00000477918,;	T	ENSG00000134216	ENST00000369740	Transcript	missense_variant	705	602	201	S/L	tCa/tTa	.	.	.	1	CHIA	HGNC	17432	protein_coding	YES	CCDS41368.1	ENSP00000358755	CHIA_HUMAN	E9PLJ2_HUMAN	UPI00000727DC	.	deleterious(0.02)	benign(0.255)	7/12	.	hmmpanther:PTHR11177:SF37,hmmpanther:PTHR11177,Gene3D:3.20.20.80,Pfam_domain:PF00704,SMART_domains:SM00636,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTGTCACAGT	.	5	BLCA
OR10R2	0	.	GRCh37	1	158450698	158450698	+	3'Flank	SNP	C	C	T	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000368152	.	19	12	6	12	12	0	OR10R2,downstream_gene_variant,,ENST00000368152,;RP11-144L1.4,non_coding_transcript_exon_variant,,ENST00000419738,;RP11-144L1.4,intron_variant,,ENST00000426251,;	T	ENSG00000198965	ENST00000368152	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	23	1	OR10R2	HGNC	14820	protein_coding	YES	CCDS30898.1	ENSP00000357134	O10R2_HUMAN	.	UPI000004CA1C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GATTTCTTAAT	.	4	BLCA
TFB2M	0	.	GRCh37	1	246711851	246711851	+	Missense_Mutation	SNP	C	C	T	rs746323608	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.854G>A	p.Arg285His	p.R285H	ENST00000366514	6/8	47	32	15	80	80	0	TFB2M,missense_variant,p.Arg285His,ENST00000366514,;TFB2M,3_prime_UTR_variant,,ENST00000544618,;	T	ENSG00000162851	ENST00000366514	Transcript	missense_variant	1040	854	285	R/H	cGt/cAt	rs746323608	.	.	-1	TFB2M	HGNC	18559	protein_coding	YES	CCDS1627.1	ENSP00000355471	TFB2M_HUMAN	.	UPI0000073CFC	.	tolerated(0.6)	benign(0.004)	6/8	.	PROSITE_profiles:PS51689,hmmpanther:PTHR11727:SF13,hmmpanther:PTHR11727,Pfam_domain:PF00398,PIRSF_domain:PIRSF027833,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTACGCTTT	byFrequency	5	BLCA
GJA4	0	.	GRCh37	1	35260203	35260203	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389T>C	p.Val130Ala	p.V130A	ENST00000342280	2/2	17	14	3	31	31	0	GJA4,missense_variant,p.Val130Ala,ENST00000450137,;GJA4,missense_variant,p.Val130Ala,ENST00000342280,;SMIM12,intron_variant,,ENST00000426886,;	C	ENSG00000187513	ENST00000342280	Transcript	missense_variant	477	389	130	V/A	gTa/gCa	.	.	.	1	GJA4	HGNC	4278	protein_coding	YES	CCDS30669.1	ENSP00000343676	CXA4_HUMAN	Q5JW71_HUMAN	UPI000013E8EF	.	tolerated(0.84)	benign(0.022)	2/2	.	Gene3D:2zw3A00,hmmpanther:PTHR11984:SF54,hmmpanther:PTHR11984	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCGTAGAGC	.	4	BLCA
RLF	0	.	GRCh37	1	40704531	40704531	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4157C>G	p.Ser1386Cys	p.S1386C	ENST00000372771	8/8	93	49	43	103	103	0	RLF,missense_variant,p.Ser1386Cys,ENST00000372771,;	G	ENSG00000117000	ENST00000372771	Transcript	missense_variant	4184	4157	1386	S/C	tCt/tGt	.	.	.	1	RLF	HGNC	10025	protein_coding	YES	CCDS448.1	ENSP00000361857	RLF_HUMAN	.	UPI000013C9DA	.	tolerated(0.19)	benign(0.243)	8/8	.	SMART_domains:SM00355,PROSITE_patterns:PS00028,hmmpanther:PTHR15507:SF18,hmmpanther:PTHR15507,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATTCTCATA	.	5	BLCA
USP24	0	.	GRCh37	1	55538007	55538007	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7672C>T	p.Arg2558Ter	p.R2558*	ENST00000294383	66/68	23	19	4	18	18	0	USP24,stop_gained,p.Arg2398Ter,ENST00000407756,;USP24,stop_gained,p.Arg2558Ter,ENST00000294383,;USP24,non_coding_transcript_exon_variant,,ENST00000484447,;USP24,non_coding_transcript_exon_variant,,ENST00000480962,;	A	ENSG00000162402	ENST00000294383	Transcript	stop_gained	7672	7672	2558	R/*	Cga/Tga	.	.	.	-1	USP24	HGNC	12623	protein_coding	YES	CCDS44154.2	ENSP00000294383	UBP24_HUMAN	.	UPI000059CFDE	.	.	.	66/68	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GGTTCGCTGAA	.	2	BLCA
NCOR1P1	0	.	GRCh37	20	26084183	26084183	+	RNA	SNP	C	C	T	rs375093330	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.275G>A	.	.	ENST00000478176	2/2	56	45	11	43	42	1	NCOR1P1,non_coding_transcript_exon_variant,,ENST00000478176,;NCOR1P1,non_coding_transcript_exon_variant,,ENST00000486162,;	T	ENSG00000240108	ENST00000478176	Transcript	non_coding_transcript_exon_variant	275	.	.	.	.	rs375093330	.	.	-1	NCOR1P1	HGNC	16724	processed_transcript	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	T:0	T:0.0003	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R81*|c.241C>T|3	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTACACGATCC	byFrequency|byCluster	4	BLCA
RGL4	0	.	GRCh37	22	24036559	24036559	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.938C>G	p.Ser313Cys	p.S313C	ENST00000290691	5/11	52	30	22	47	47	0	RGL4,missense_variant,p.Ser313Cys,ENST00000290691,;RGL4,missense_variant,p.Ser313Cys,ENST00000423392,;RGL4,missense_variant,p.Ser177Cys,ENST00000401461,;RGL4,upstream_gene_variant,,ENST00000452208,;KB-1572G7.2,non_coding_transcript_exon_variant,,ENST00000421064,;GUSBP11,non_coding_transcript_exon_variant,,ENST00000445682,;GUSBP11,non_coding_transcript_exon_variant,,ENST00000451837,;GUSBP11,intron_variant,,ENST00000422506,;GUSBP11,intron_variant,,ENST00000452737,;AP000347.2,upstream_gene_variant,,ENST00000458554,;KB-1572G7.2,upstream_gene_variant,,ENST00000423913,;AP000347.2,upstream_gene_variant,,ENST00000417194,;RGL4,upstream_gene_variant,,ENST00000460167,;GUSBP11,upstream_gene_variant,,ENST00000455485,;AP000347.2,upstream_gene_variant,,ENST00000438858,;GUSBP11,upstream_gene_variant,,ENST00000608454,;RGL4,missense_variant,p.Ser313Cys,ENST00000441897,;RGL4,non_coding_transcript_exon_variant,,ENST00000460003,;RGL4,non_coding_transcript_exon_variant,,ENST00000467354,;AP000347.2,intron_variant,,ENST00000435868,;	G	ENSG00000159496	ENST00000290691	Transcript	missense_variant	2108	938	313	S/C	tCc/tGc	.	.	.	1	RGL4	HGNC	31911	protein_coding	YES	CCDS13811.1	ENSP00000290691	RGDSR_HUMAN	B5MCW5_HUMAN	UPI00000740FE	.	deleterious(0)	probably_damaging(0.973)	5/11	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF28,Gene3D:2ii0A02,Pfam_domain:PF00617,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCCTCGG	.	5	BLCA
FASTKD1	0	.	GRCh37	2	170387987	170387987	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2202C>T	p.%3D	p.I734I	ENST00000453153	13/15	36	26	9	24	24	0	FASTKD1,synonymous_variant,p.%3D,ENST00000453929,;FASTKD1,synonymous_variant,p.%3D,ENST00000453153,;FASTKD1,non_coding_transcript_exon_variant,,ENST00000495505,;FASTKD1,non_coding_transcript_exon_variant,,ENST00000490590,;FASTKD1,non_coding_transcript_exon_variant,,ENST00000488951,;	A	ENSG00000138399	ENST00000453153	Transcript	synonymous_variant	2549	2202	734	I	atC/atT	.	.	.	-1	FASTKD1	HGNC	26150	protein_coding	YES	CCDS33318.1	ENSP00000400513	FAKD1_HUMAN	D3DPC4_HUMAN,C9JTP4_HUMAN,C9JMM4_HUMAN	UPI000050BC4D	.	.	.	13/15	.	hmmpanther:PTHR21228:SF29,hmmpanther:PTHR21228,Pfam_domain:PF08368	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAAGATACA	.	5	BLCA
ITGAV	0	.	GRCh37	2	187528498	187528498	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1861C>T	p.His621Tyr	p.H621Y	ENST00000261023	19/30	48	33	15	41	41	0	ITGAV,missense_variant,p.His585Tyr,ENST00000374907,;ITGAV,missense_variant,p.His621Tyr,ENST00000261023,;ITGAV,missense_variant,p.His575Tyr,ENST00000433736,;AC017101.10,intron_variant,,ENST00000453665,;ITGAV,upstream_gene_variant,,ENST00000496477,;ITGAV,upstream_gene_variant,,ENST00000460641,;ITGAV,upstream_gene_variant,,ENST00000496854,;	T	ENSG00000138448	ENST00000261023	Transcript	missense_variant	2135	1861	621	H/Y	Cac/Tac	.	.	.	1	ITGAV	HGNC	6150	protein_coding	YES	CCDS2292.1	ENSP00000261023	ITAV_HUMAN	L7RXH0_HUMAN	UPI000013D12E	.	tolerated(0.26)	probably_damaging(0.911)	19/30	.	hmmpanther:PTHR23220:SF4,hmmpanther:PTHR23220,Gene3D:1jv2A02,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTCACATT	.	5	BLCA
FN1	0	.	GRCh37	2	216274346	216274346	+	Missense_Mutation	SNP	C	C	T	rs776884669	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2239G>A	p.Val747Met	p.V747M	ENST00000354785	15/46	40	26	13	50	50	0	FN1,missense_variant,p.Val747Met,ENST00000357867,;FN1,missense_variant,p.Val747Met,ENST00000432072,;FN1,missense_variant,p.Val747Met,ENST00000421182,;FN1,missense_variant,p.Val747Met,ENST00000443816,;FN1,missense_variant,p.Val747Met,ENST00000346544,;FN1,missense_variant,p.Val747Met,ENST00000345488,;FN1,missense_variant,p.Val747Met,ENST00000354785,;FN1,missense_variant,p.Val747Met,ENST00000336916,;FN1,missense_variant,p.Val747Met,ENST00000359671,;FN1,missense_variant,p.Val747Met,ENST00000357009,;FN1,missense_variant,p.Val747Met,ENST00000446046,;FN1,missense_variant,p.Val747Met,ENST00000323926,;FN1,missense_variant,p.Val747Met,ENST00000356005,;FN1,non_coding_transcript_exon_variant,,ENST00000471193,;	T	ENSG00000115414	ENST00000354785	Transcript	missense_variant	2609	2239	747	V/M	Gtg/Atg	rs776884669	.	.	-1	FN1	HGNC	3778	protein_coding	YES	CCDS42814.1	ENSP00000346839	FINC_HUMAN	Q9H382_HUMAN,Q7L553_HUMAN,Q53S27_HUMAN,A6YID6_HUMAN	UPI0000E5A2B5	.	deleterious(0)	possibly_damaging(0.885)	15/46	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143:SF187,hmmpanther:PTHR19143,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGACACGGTGT	.	5	BLCA
MAATS1	0	.	GRCh37	3	119449127	119449127	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.921G>A	p.%3D	p.Q307Q	ENST00000273390	8/18	146	116	30	120	120	0	MAATS1,synonymous_variant,p.%3D,ENST00000273390,;MAATS1,3_prime_UTR_variant,,ENST00000482927,;MAATS1,3_prime_UTR_variant,,ENST00000482573,;MAATS1,3_prime_UTR_variant,,ENST00000475093,;MAATS1,non_coding_transcript_exon_variant,,ENST00000468630,;MAATS1,non_coding_transcript_exon_variant,,ENST00000483134,;MAATS1,downstream_gene_variant,,ENST00000498167,;MAATS1,upstream_gene_variant,,ENST00000461322,;	A	ENSG00000183833	ENST00000273390	Transcript	synonymous_variant	998	921	307	Q	caG/caA	.	.	.	1	MAATS1	HGNC	24010	protein_coding	YES	CCDS2994.1	ENSP00000273390	MAAT1_HUMAN	.	UPI00001C1DFE	.	.	.	8/18	.	Pfam_domain:PF14738,hmmpanther:PTHR22455:SF10,hmmpanther:PTHR22455	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCAGAATGA	.	5	BLCA
PRDM5	0	.	GRCh37	4	121738036	121738036	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694C>T	p.Arg232Ter	p.R232*	ENST00000264808	6/16	217	143	74	167	167	0	PRDM5,stop_gained,p.Arg232Ter,ENST00000264808,;PRDM5,intron_variant,,ENST00000515109,;PRDM5,intron_variant,,ENST00000428209,;PRDM5,stop_gained,p.Arg76Ter,ENST00000502409,;PRDM5,non_coding_transcript_exon_variant,,ENST00000505484,;PRDM5,intron_variant,,ENST00000512845,;PRDM5,upstream_gene_variant,,ENST00000503661,;PRDM5,downstream_gene_variant,,ENST00000507611,;	A	ENSG00000138738	ENST00000264808	Transcript	stop_gained	935	694	232	R/*	Cga/Tga	.	.	.	-1	PRDM5	HGNC	9349	protein_coding	YES	CCDS3716.1	ENSP00000264808	PRDM5_HUMAN	.	UPI000013D572	.	.	.	6/16	.	hmmpanther:PTHR24409:SF17,hmmpanther:PTHR24409,PIRSF_domain:PIRSF037162	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTCGCGAAG	.	5	BLCA
NAA15	0	.	GRCh37	4	140291413	140291413	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1802G>A	p.Arg601Lys	p.R601K	ENST00000296543	15/20	36	24	11	24	24	0	NAA15,missense_variant,p.Arg601Lys,ENST00000296543,;NAA15,missense_variant,p.Arg601Lys,ENST00000398947,;	A	ENSG00000164134	ENST00000296543	Transcript	missense_variant	2125	1802	601	R/K	aGa/aAa	.	.	.	1	NAA15	HGNC	30782	protein_coding	YES	CCDS43270.1	ENSP00000296543	NAA15_HUMAN	.	UPI000004B631	.	tolerated(0.79)	possibly_damaging(0.796)	15/20	.	Coiled-coils_(Ncoils):Coil,PIRSF_domain:PIRSF000422,Pfam_domain:PF12569,hmmpanther:PTHR22767,hmmpanther:PTHR22767:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAGCTC	.	5	BLCA
PLRG1	0	.	GRCh37	4	155471491	155471491	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31C>T	.	.	ENST00000499023	1/15	92	51	40	80	80	0	PLRG1,5_prime_UTR_variant,,ENST00000302078,;PLRG1,5_prime_UTR_variant,,ENST00000499023,;PLRG1,upstream_gene_variant,,ENST00000504341,;PLRG1,upstream_gene_variant,,ENST00000393905,;PLRG1,5_prime_UTR_variant,,ENST00000506192,;PLRG1,5_prime_UTR_variant,,ENST00000509975,;PLRG1,non_coding_transcript_exon_variant,,ENST00000503751,;PLRG1,non_coding_transcript_exon_variant,,ENST00000512719,;PLRG1,non_coding_transcript_exon_variant,,ENST00000515520,;PLRG1,upstream_gene_variant,,ENST00000506918,;RP11-158C21.3,upstream_gene_variant,,ENST00000507985,;	A	ENSG00000171566	ENST00000499023	Transcript	5_prime_UTR_variant	97	.	.	.	.	.	.	.	-1	PLRG1	HGNC	9089	protein_coding	YES	CCDS34083.1	ENSP00000424417	PLRG1_HUMAN	.	UPI0000070B39	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGGGAAGAA	.	5	BLCA
LAP3	0	.	GRCh37	4	17609259	17609259	+	3'UTR	SNP	G	G	C	rs368134525	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*47G>C	.	.	ENST00000226299	13/13	22	13	9	15	15	0	LAP3,3_prime_UTR_variant,,ENST00000226299,;LAP3,3_prime_UTR_variant,,ENST00000606142,;LAP3,downstream_gene_variant,,ENST00000513105,;AC006160.5,intron_variant,,ENST00000511010,;LAP3,non_coding_transcript_exon_variant,,ENST00000503467,;LAP3,downstream_gene_variant,,ENST00000504614,;	C	ENSG00000002549	ENST00000226299	Transcript	3_prime_UTR_variant	1881	.	.	.	.	rs368134525	.	.	1	LAP3	HGNC	18449	protein_coding	YES	CCDS3422.1	ENSP00000226299	AMPL_HUMAN	.	UPI000014F97D	.	.	.	13/13	.	.	T:0.0004	T:0	T:0.0014	.	T:0	T:0	T:0.001	T:0.0002	T:0.0007	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTGAACTT	byFrequency|byCluster|by1000G	5	BLCA
UBA6	0	.	GRCh37	4	68514802	68514802	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1232C>A	p.Ser411Tyr	p.S411Y	ENST00000322244	14/33	122	77	44	112	112	0	UBA6,missense_variant,p.Ser411Tyr,ENST00000322244,;UBA6,upstream_gene_variant,,ENST00000505673,;	T	ENSG00000033178	ENST00000322244	Transcript	missense_variant	1292	1232	411	S/Y	tCt/tAt	COSM1231519	.	.	-1	UBA6	HGNC	25581	protein_coding	YES	CCDS3516.1	ENSP00000313454	UBA6_HUMAN	B3KSS1_HUMAN	UPI000004A4F7	.	tolerated(1)	probably_damaging(0.921)	14/33	.	hmmpanther:PTHR10953,hmmpanther:PTHR10953:SF141,Gene3D:3.40.50.720,TIGRFAM_domain:TIGR01408,Superfamily_domains:SSF69572	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGAGAAAAT	.	5	BLCA
SMARCAD1	0	.	GRCh37	4	95197489	95197489	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1809-1G>C	.	p.X603_splice	ENST00000359052	.	74	46	27	64	64	0	SMARCAD1,splice_acceptor_variant,,ENST00000509418,;SMARCAD1,splice_acceptor_variant,,ENST00000457823,;SMARCAD1,splice_acceptor_variant,,ENST00000354268,;SMARCAD1,splice_acceptor_variant,,ENST00000359052,;SMARCAD1,splice_acceptor_variant,,ENST00000394961,;SMARCAD1,splice_acceptor_variant,,ENST00000510105,;SMARCAD1,downstream_gene_variant,,ENST00000506089,;SMARCAD1,downstream_gene_variant,,ENST00000514232,;	C	ENSG00000163104	ENST00000359052	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	SMARCAD1	HGNC	18398	protein_coding	YES	CCDS47101.1	ENSP00000351947	SMRCD_HUMAN	.	UPI000020B1CF	.	.	.	.	14/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACAGATATA	.	5	BLCA
PCDHB4	0	.	GRCh37	5	140502959	140502959	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1379G>A	p.Arg460His	p.R460H	ENST00000194152	1/1	142	87	55	118	118	0	PCDHB4,missense_variant,p.Arg460His,ENST00000194152,;AC005754.8,downstream_gene_variant,,ENST00000606030,;	A	ENSG00000081818	ENST00000194152	Transcript	missense_variant	1379	1379	460	R/H	cGc/cAc	.	.	.	1	PCDHB4	HGNC	8689	protein_coding	YES	CCDS4246.1	ENSP00000194152	PCDB4_HUMAN	.	UPI00001273DF	.	tolerated_low_confidence(0.08)	benign(0.099)	1/1	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF55,hmmpanther:PTHR24028,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F458F|c.1374C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTCCGCGAGA	.	5	BLCA
ARHGEF28	0	.	GRCh37	5	73136383	73136383	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225C>G	p.Leu409Val	p.L409V	ENST00000545377	11/37	44	25	19	40	40	0	ARHGEF28,missense_variant,p.Leu409Val,ENST00000437974,;ARHGEF28,missense_variant,p.Leu96Val,ENST00000296799,;ARHGEF28,missense_variant,p.Leu409Val,ENST00000513042,;ARHGEF28,missense_variant,p.Leu409Val,ENST00000287898,;ARHGEF28,missense_variant,p.Leu409Val,ENST00000545377,;ARHGEF28,missense_variant,p.Leu409Val,ENST00000426542,;ARHGEF28,missense_variant,p.Leu409Val,ENST00000296794,;ARHGEF28,non_coding_transcript_exon_variant,,ENST00000513841,;	G	ENSG00000214944	ENST00000545377	Transcript	missense_variant	1401	1225	409	L/V	Ctg/Gtg	.	.	.	1	ARHGEF28	HGNC	30322	protein_coding	YES	CCDS47231.2	ENSP00000441913	ARG28_HUMAN	D6RAP0_HUMAN	UPI00004DF58E	.	tolerated(0.11)	benign(0.15)	11/37	.	hmmpanther:PTHR22825:SF4,hmmpanther:PTHR22825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACTCTGTGG	.	5	BLCA
SYNE1	0	.	GRCh37	6	152738145	152738145	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5427C>T	p.%3D	p.H1809H	ENST00000367255	41/146	65	48	16	66	66	0	SYNE1,synonymous_variant,p.%3D,ENST00000448038,;SYNE1,synonymous_variant,p.%3D,ENST00000367255,;SYNE1,synonymous_variant,p.%3D,ENST00000423061,;SYNE1,synonymous_variant,p.%3D,ENST00000341594,;SYNE1,synonymous_variant,p.%3D,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000461872,;	A	ENSG00000131018	ENST00000367255	Transcript	synonymous_variant	6029	5427	1809	H	caC/caT	.	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	.	41/146	.	Superfamily_domains:SSF46966,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGCGTGGTC	.	5	BLCA
RPS6KA2	0	.	GRCh37	6	166831732	166831732	+	Missense_Mutation	SNP	G	G	A	rs779085045	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1943C>T	p.Ser648Leu	p.S648L	ENST00000503859	20/22	118	76	42	110	110	0	RPS6KA2,missense_variant,p.Ser551Leu,ENST00000481261,;RPS6KA2,missense_variant,p.Ser551Leu,ENST00000405189,;RPS6KA2,missense_variant,p.Ser640Leu,ENST00000265678,;RPS6KA2,missense_variant,p.Ser648Leu,ENST00000503859,;RPS6KA2,missense_variant,p.Ser665Leu,ENST00000510118,;RPS6KA2,non_coding_transcript_exon_variant,,ENST00000509742,;	A	ENSG00000071242	ENST00000503859	Transcript	missense_variant	2324	1943	648	S/L	tCg/tTg	rs779085045,COSM1075879,COSM1075878	.	.	-1	RPS6KA2	HGNC	10431	protein_coding	YES	CCDS34570.1	ENSP00000427015	KS6A2_HUMAN	D6RHW7_HUMAN,D6RD75_HUMAN,D6R910_HUMAN,B7Z3B5_HUMAN	UPI000020D48C	.	tolerated(0.22)	benign(0.006)	20/22	.	Superfamily_domains:SSF56112,PIRSF_domain:PIRSF000606,SMART_domains:SM00220,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR24351,hmmpanther:PTHR24351:SF25,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATCGAGTCC	byFrequency	5	BLCA
KLHL31	0	.	GRCh37	6	53519742	53519742	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.329G>T	p.Arg110Met	p.R110M	ENST00000370905	2/3	142	100	41	135	135	0	KLHL31,missense_variant,p.Arg110Met,ENST00000407079,;KLHL31,missense_variant,p.Arg110Met,ENST00000370905,;	A	ENSG00000124743	ENST00000370905	Transcript	missense_variant	470	329	110	R/M	aGg/aTg	.	.	.	-1	KLHL31	HGNC	21353	protein_coding	YES	CCDS34478.1	ENSP00000359942	KLH31_HUMAN	.	UPI000006D624	.	tolerated(0.06)	probably_damaging(0.935)	2/3	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF58,Pfam_domain:PF00651,Gene3D:3.30.710.10,SMART_domains:SM00225,PIRSF_domain:PIRSF037037,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCACCCTCTGA	.	5	BLCA
EPHA7	0	.	GRCh37	6	94066764	94066764	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.995C>T	p.Pro332Leu	p.P332L	ENST00000369303	5/17	41	29	11	35	35	0	EPHA7,missense_variant,p.Pro332Leu,ENST00000369303,;	A	ENSG00000135333	ENST00000369303	Transcript	missense_variant	1180	995	332	P/L	cCa/cTa	.	.	.	-1	EPHA7	HGNC	3390	protein_coding	YES	CCDS5031.1	ENSP00000358309	EPHA7_HUMAN	.	UPI0000044771	.	deleterious(0)	possibly_damaging(0.905)	5/17	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF266,hmmpanther:PTHR24416,Gene3D:2.60.40.10,SMART_domains:SM00060,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATGGAGGC	.	5	BLCA
CREB5	0	.	GRCh37	7	28857695	28857695	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1262T>G	p.Val421Gly	p.V421G	ENST00000357727	10/11	105	100	5	88	87	1	CREB5,missense_variant,p.Val388Gly,ENST00000409603,;CREB5,missense_variant,p.Val282Gly,ENST00000396298,;CREB5,missense_variant,p.Val421Gly,ENST00000357727,;CREB5,missense_variant,p.Val5Gly,ENST00000498316,;CREB5,missense_variant,p.Val388Gly,ENST00000396299,;CREB5,missense_variant,p.Val414Gly,ENST00000396300,;	G	ENSG00000146592	ENST00000357727	Transcript	missense_variant	1652	1262	421	V/G	gTg/gGg	.	.	.	1	CREB5	HGNC	16844	protein_coding	YES	CCDS5417.1	ENSP00000350359	CREB5_HUMAN	H9KVC5_HUMAN,C9JN33_HUMAN	UPI0000457534	.	deleterious(0)	unknown(0)	10/11	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50217,hmmpanther:PTHR19304:SF8,hmmpanther:PTHR19304,Gene3D:1.20.5.170,Pfam_domain:PF00170,PIRSF_domain:PIRSF003153,SMART_domains:SM00338,Superfamily_domains:SSF57959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAGTGTCTA	.	2	BLCA
TRRAP	0	.	GRCh37	7	98608704	98608704	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10926G>C	p.Gln3642His	p.Q3642H	ENST00000359863	70/72	36	21	14	39	39	0	TRRAP,missense_variant,p.Gln3613His,ENST00000355540,;TRRAP,missense_variant,p.Gln3631His,ENST00000446306,;TRRAP,missense_variant,p.Gln3371His,ENST00000456197,;TRRAP,missense_variant,p.Gln3642His,ENST00000359863,;AC004893.11,upstream_gene_variant,,ENST00000360902,;	C	ENSG00000196367	ENST00000359863	Transcript	missense_variant	11135	10926	3642	Q/H	caG/caC	.	.	.	1	TRRAP	HGNC	12347	protein_coding	YES	CCDS59066.1	ENSP00000352925	TRRAP_HUMAN	C9K0N1_HUMAN	UPI00004575B4	.	.	probably_damaging(0.997)	70/72	.	PROSITE_profiles:PS50290,hmmpanther:PTHR11139:SF1,hmmpanther:PTHR11139,Pfam_domain:PF00454,SMART_domains:SM00146	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCAGAGTAA	.	5	BLCA
CYC1	0	.	GRCh37	8	145152184	145152184	+	Missense_Mutation	SNP	G	G	A	rs200419425	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.923G>A	p.Arg308Gln	p.R308Q	ENST00000318911	7/7	36	20	15	46	46	0	CYC1,missense_variant,p.Arg308Gln,ENST00000318911,;SHARPIN,downstream_gene_variant,,ENST00000398712,;SHARPIN,downstream_gene_variant,,ENST00000532536,;SHARPIN,downstream_gene_variant,,ENST00000533948,;SHARPIN,downstream_gene_variant,,ENST00000534242,;CYC1,non_coding_transcript_exon_variant,,ENST00000533444,;CYC1,downstream_gene_variant,,ENST00000525122,;SHARPIN,downstream_gene_variant,,ENST00000530216,;SHARPIN,downstream_gene_variant,,ENST00000359551,;SHARPIN,downstream_gene_variant,,ENST00000525275,;CYC1,downstream_gene_variant,,ENST00000528618,;	A	ENSG00000179091	ENST00000318911	Transcript	missense_variant	996	923	308	R/Q	cGg/cAg	rs200419425	.	.	1	CYC1	HGNC	2579	protein_coding	YES	CCDS6415.1	ENSP00000317159	CY1_HUMAN	.	UPI000014046B	.	deleterious(0)	possibly_damaging(0.683)	7/7	.	Superfamily_domains:SSF81496,Pfam_domain:PF02167,Gene3D:1.20.5.100,hmmpanther:PTHR10266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGCGGCACA	byFrequency|byCluster	5	BLCA
INPP5E	0	.	GRCh37	9	139324229	139324229	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1833A>G	p.%3D	p.R611R	ENST00000371712	10/10	73	40	33	83	83	0	INPP5E,synonymous_variant,p.%3D,ENST00000371712,;	C	ENSG00000148384	ENST00000371712	Transcript	synonymous_variant	2236	1833	611	R	agA/agG	.	.	.	-1	INPP5E	HGNC	21474	protein_coding	YES	CCDS7000.1	ENSP00000360777	INP5E_HUMAN	Q2YD81_HUMAN	UPI000014053C	.	.	.	10/10	.	hmmpanther:PTHR11200:SF114,hmmpanther:PTHR11200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTCTCTATC	.	5	BLCA
GRIPAP1	0	.	GRCh37	X	48846041	48846041	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9T4-01A-11D-A391-08	TCGA-XF-A9T4-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.852A>G	p.%3D	p.E284E	ENST00000376441	11/26	36	33	3	20	20	0	GRIPAP1,synonymous_variant,p.%3D,ENST00000376423,;GRIPAP1,synonymous_variant,p.%3D,ENST00000376441,;GRIPAP1,synonymous_variant,p.%3D,ENST00000376425,;GRIPAP1,synonymous_variant,p.%3D,ENST00000376444,;GRIPAP1,non_coding_transcript_exon_variant,,ENST00000473581,;GRIPAP1,upstream_gene_variant,,ENST00000474512,;	C	ENSG00000068400	ENST00000376441	Transcript	synonymous_variant	887	852	284	E	gaA/gaG	.	.	.	-1	GRIPAP1	HGNC	18706	protein_coding	YES	CCDS35248.1	ENSP00000365624	GRAP1_HUMAN	.	UPI000035AC76	.	.	.	11/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18978:SF1,hmmpanther:PTHR18978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TCAAGTTCCTG	.	3	BLCA
PKD2L1	0	.	GRCh37	10	102055962	102055962	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1273T>G	p.Tyr425Asp	p.Y425D	ENST00000318222	7/16	48	44	4	48	48	0	PKD2L1,missense_variant,p.Tyr425Asp,ENST00000318222,;PKD2L1,missense_variant,p.Tyr425Asp,ENST00000353274,;PKD2L1,missense_variant,p.Tyr350Asp,ENST00000338519,;PKD2L1,intron_variant,,ENST00000465680,;PKD2L1,3_prime_UTR_variant,,ENST00000528248,;PKD2L1,downstream_gene_variant,,ENST00000532547,;	C	ENSG00000107593	ENST00000318222	Transcript	missense_variant	1656	1273	425	Y/D	Tat/Gat	.	.	.	-1	PKD2L1	HGNC	9011	protein_coding	YES	CCDS7492.1	ENSP00000325296	PK2L1_HUMAN	.	UPI0000130FED	.	deleterious(0)	probably_damaging(1)	7/16	.	hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF105,Pfam_domain:PF08016	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCATACGTGT	.	4	BLCA
BTRC	0	.	GRCh37	10	103310522	103310522	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1723G>A	p.Asp575Asn	p.D575N	ENST00000370187	14/15	85	76	9	99	99	0	BTRC,missense_variant,p.Asp539Asn,ENST00000408038,;BTRC,missense_variant,p.Asp575Asn,ENST00000370187,;BTRC,missense_variant,p.Asp534Asn,ENST00000393441,;BTRC,non_coding_transcript_exon_variant,,ENST00000493877,;	A	ENSG00000166167	ENST00000370187	Transcript	missense_variant	1841	1723	575	D/N	Gac/Aac	.	.	.	1	BTRC	HGNC	1144	protein_coding	YES	CCDS7512.1	ENSP00000359206	FBW1A_HUMAN	Q5T1W7_HUMAN	UPI00000012B5	.	tolerated(0.12)	possibly_damaging(0.663)	14/15	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR22844:SF143,hmmpanther:PTHR22844,PROSITE_patterns:PS00678,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGATGACACA	.	4	BLCA
HPS6	0	.	GRCh37	10	103827142	103827142	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1911C>G	p.%3D	p.L637L	ENST00000299238	1/1	46	30	15	69	69	0	HPS6,synonymous_variant,p.%3D,ENST00000299238,;	G	ENSG00000166189	ENST00000299238	Transcript	synonymous_variant	1996	1911	637	L	ctC/ctG	.	.	.	1	HPS6	HGNC	18817	protein_coding	YES	CCDS7527.1	ENSP00000299238	HPS6_HUMAN	.	UPI000000D7EB	.	.	.	1/1	.	hmmpanther:PTHR14696:SF1,hmmpanther:PTHR14696,PIRSF_domain:PIRSF037476	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCTCCAAGC	.	5	BLCA
RP1-251M9.3	0	.	GRCh37	10	11047380	11047380	+	3'Flank	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000437825	.	150	113	37	223	223	0	CELF2,missense_variant,p.Met10Ile,ENST00000379261,;CELF2,missense_variant,p.Met10Ile,ENST00000416382,;RP1-251M9.3,downstream_gene_variant,,ENST00000437825,;	A	ENSG00000228027	ENST00000437825	Transcript	downstream_gene_variant	.	.	.	.	.	COSM1504042	.	4747	-1	RP1-251M9.3	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTATGAGAAA	.	5	BLCA
TRUB1	0	.	GRCh37	10	116698044	116698044	+	Missense_Mutation	SNP	C	C	T	rs774806190	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.32C>T	p.Ser11Leu	p.S11L	ENST00000298746	1/8	29	14	14	54	54	0	TRUB1,missense_variant,p.Ser11Leu,ENST00000298746,;TRUB1,upstream_gene_variant,,ENST00000485065,;	T	ENSG00000165832	ENST00000298746	Transcript	missense_variant	93	32	11	S/L	tCg/tTg	rs774806190	.	.	1	TRUB1	HGNC	16060	protein_coding	YES	CCDS7591.1	ENSP00000298746	TRUB1_HUMAN	B4DZ90_HUMAN,B3KWQ1_HUMAN	UPI000006DEBE	.	tolerated_low_confidence(0.05)	unknown(0)	1/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13767:SF2,hmmpanther:PTHR13767	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCGCCGT	.	5	BLCA
FAM53B	0	.	GRCh37	10	126370735	126370735	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347C>A	p.Ser116Ter	p.S116*	ENST00000337318	4/5	9	5	4	20	20	0	FAM53B,stop_gained,p.Ser116Ter,ENST00000392754,;FAM53B,stop_gained,p.Ser116Ter,ENST00000337318,;FAM53B,stop_gained,p.Ser116Ter,ENST00000280780,;RP11-12J10.3,3_prime_UTR_variant,,ENST00000494792,;	T	ENSG00000189319	ENST00000337318	Transcript	stop_gained	559	347	116	S/*	tCa/tAa	.	.	.	-1	FAM53B	HGNC	28968	protein_coding	YES	CCDS7641.1	ENSP00000338532	FA53B_HUMAN	.	UPI000013DC3C	.	.	.	4/5	.	Pfam_domain:PF15242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGTGAGCGG	.	2	BLCA
CTBP2	0	.	GRCh37	10	126694451	126694451	+	Intron	SNP	C	C	T	rs549949717	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1679-2390G>A	.	.	ENST00000309035	.	39	21	18	44	44	0	CTBP2,5_prime_UTR_variant,,ENST00000334808,;CTBP2,intron_variant,,ENST00000531469,;CTBP2,intron_variant,,ENST00000309035,;CTBP2,intron_variant,,ENST00000494626,;CTBP2,intron_variant,,ENST00000337195,;CTBP2,intron_variant,,ENST00000411419,;CTBP2,intron_variant,,ENST00000460976,;CTBP2,intron_variant,,ENST00000493552,;CTBP2,upstream_gene_variant,,ENST00000395705,;CTBP2,upstream_gene_variant,,ENST00000486955,;	T	ENSG00000175029	ENST00000309035	Transcript	intron_variant	.	.	.	.	.	rs549949717	.	.	-1	CTBP2	HGNC	2495	protein_coding	YES	CCDS7644.1	ENSP00000311825	CTBP2_HUMAN	.	UPI000013EE11	.	.	.	.	1/8	.	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTATCGGAGA	by1000G	5	BLCA
MKI67	0	.	GRCh37	10	129911795	129911795	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1552G>A	p.Asp518Asn	p.D518N	ENST00000368654	8/15	92	50	42	106	106	0	MKI67,missense_variant,p.Asp518Asn,ENST00000368654,;MKI67,missense_variant,p.Asp158Asn,ENST00000368653,;MKI67,downstream_gene_variant,,ENST00000478293,;MKI67,upstream_gene_variant,,ENST00000484853,;	T	ENSG00000148773	ENST00000368654	Transcript	missense_variant	1928	1552	518	D/N	Gat/Aat	COSM3806740	.	.	-1	MKI67	HGNC	7107	protein_coding	YES	CCDS7659.1	ENSP00000357643	KI67_HUMAN	.	UPI000013DB54	.	deleterious(0)	probably_damaging(0.999)	8/15	.	hmmpanther:PTHR21603,hmmpanther:PTHR21603:SF3,Pfam_domain:PF15276	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATCAAATA	.	5	BLCA
MCM10	0	.	GRCh37	10	13234282	13234282	+	Missense_Mutation	SNP	C	C	G	rs772965566	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1547C>G	p.Ser516Cys	p.S516C	ENST00000484800	12/20	23	19	4	27	27	0	MCM10,missense_variant,p.Ser516Cys,ENST00000484800,;MCM10,missense_variant,p.Ser515Cys,ENST00000378714,;MCM10,missense_variant,p.Ser515Cys,ENST00000378694,;MCM10,upstream_gene_variant,,ENST00000481292,;MCM10,upstream_gene_variant,,ENST00000459751,;	G	ENSG00000065328	ENST00000484800	Transcript	missense_variant	1650	1547	516	S/C	tCt/tGt	rs772965566	.	.	1	MCM10	HGNC	18043	protein_coding	YES	CCDS7096.1	ENSP00000418268	MCM10_HUMAN	C9J600_HUMAN	UPI000013C5E2	.	deleterious(0)	probably_damaging(0.971)	12/20	.	hmmpanther:PTHR13454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGCTCTGAGG	byFrequency	3	BLCA
MRC1L1	0	.	GRCh37	10	17949613	17949613	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3977C>G	p.Ser1326Cys	p.S1326C	ENST00000331429	28/30	50	41	9	93	93	0	MRC1L1,missense_variant,p.Ser1326Cys,ENST00000331429,;	G	ENSG00000183748	ENST00000331429	Transcript	missense_variant	4080	3977	1326	S/C	tCt/tGt	.	.	.	1	MRC1L1	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000332124	.	B4DLK9_HUMAN	UPI00001AFE88	.	.	possibly_damaging(0.834)	28/30	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22803:SF55,hmmpanther:PTHR22803,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TCCCTCTGGTG	.	3	BLCA
ZNF33B	0	.	GRCh37	10	43089740	43089740	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.658G>C	p.Glu220Gln	p.E220Q	ENST00000359467	5/5	106	84	22	120	120	0	ZNF33B,missense_variant,p.Glu220Gln,ENST00000359467,;ZNF33B,intron_variant,,ENST00000486187,;ZNF33B,intron_variant,,ENST00000465206,;ZNF33B,intron_variant,,ENST00000462075,;	G	ENSG00000196693	ENST00000359467	Transcript	missense_variant	773	658	220	E/Q	Gaa/Caa	.	.	.	-1	ZNF33B	HGNC	13097	protein_coding	YES	CCDS7198.1	ENSP00000352444	ZN33B_HUMAN	.	UPI000007257B	.	tolerated(0.09)	benign(0.023)	5/5	.	hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTATTCAAAAT	.	5	BLCA
ERCC6	0	.	GRCh37	10	50666943	50666943	+	Missense_Mutation	SNP	C	C	T	rs145554525	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4400G>A	p.Arg1467Gln	p.R1467Q	ENST00000355832	21/21	88	69	19	129	129	0	ERCC6,missense_variant,p.Arg837Gln,ENST00000542458,;ERCC6,missense_variant,p.Arg1467Gln,ENST00000355832,;RP11-123B3.2,intron_variant,,ENST00000423283,;ERCC6,downstream_gene_variant,,ENST00000465653,;	T	ENSG00000225830	ENST00000355832	Transcript	missense_variant	4479	4400	1467	R/Q	cGa/cAa	rs145554525	.	.	-1	ERCC6	HGNC	3438	protein_coding	YES	CCDS7229.1	ENSP00000348089	ERCC6_HUMAN	F5H493_HUMAN,D6R9X7_HUMAN	UPI000000D8DA	.	deleterious(0)	probably_damaging(0.982)	21/21	.	hmmpanther:PTHR10799:SF49,hmmpanther:PTHR10799	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTCGGAAG	byCluster	5	BLCA
ERCC6	0	.	GRCh37	10	50678733	50678733	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3273G>C	p.Leu1091Phe	p.L1091F	ENST00000355832	18/21	90	80	10	150	150	0	ERCC6,missense_variant,p.Leu461Phe,ENST00000542458,;ERCC6,missense_variant,p.Leu1091Phe,ENST00000355832,;RP11-123B3.2,intron_variant,,ENST00000423283,;ERCC6,upstream_gene_variant,,ENST00000465653,;	G	ENSG00000225830	ENST00000355832	Transcript	missense_variant	3352	3273	1091	L/F	ttG/ttC	.	.	.	-1	ERCC6	HGNC	3438	protein_coding	YES	CCDS7229.1	ENSP00000348089	ERCC6_HUMAN	F5H493_HUMAN,D6R9X7_HUMAN	UPI000000D8DA	.	tolerated(0.68)	benign(0.011)	18/21	.	hmmpanther:PTHR10799:SF49,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTCAAAGG	.	4	BLCA
RP11-50E11.3	0	.	GRCh37	10	52390415	52390415	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1604G>C	.	.	ENST00000443374	4/4	48	40	8	53	53	0	RP11-50E11.3,non_coding_transcript_exon_variant,,ENST00000443374,;RP11-50E11.3,downstream_gene_variant,,ENST00000609579,;RP11-50E11.2,non_coding_transcript_exon_variant,,ENST00000437111,;	C	ENSG00000226200	ENST00000443374	Transcript	non_coding_transcript_exon_variant	1604	.	.	.	.	.	.	.	1	RP11-50E11.3	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTAGATAAT	.	5	BLCA
PCDH15	0	.	GRCh37	10	55587175	55587175	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4345G>A	p.Glu1449Lys	p.E1449K	ENST00000361849	32/34	51	37	13	76	76	0	PCDH15,missense_variant,p.Glu1378Lys,ENST00000437009,;PCDH15,missense_variant,p.Glu1424Lys,ENST00000395433,;PCDH15,missense_variant,p.Glu1456Lys,ENST00000395445,;PCDH15,missense_variant,p.Glu1449Lys,ENST00000320301,;PCDH15,missense_variant,p.Glu1060Lys,ENST00000409834,;PCDH15,missense_variant,p.Glu1409Lys,ENST00000395432,;PCDH15,missense_variant,p.Glu1449Lys,ENST00000361849,;PCDH15,missense_variant,p.Glu1449Lys,ENST00000395438,;PCDH15,missense_variant,p.Glu1451Lys,ENST00000414778,;PCDH15,missense_variant,p.Glu1446Lys,ENST00000395430,;PCDH15,missense_variant,p.Glu1456Lys,ENST00000373965,;PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000395440,;PCDH15,intron_variant,,ENST00000395446,;PCDH15,intron_variant,,ENST00000395442,;PCDH15,non_coding_transcript_exon_variant,,ENST00000463095,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,3_prime_UTR_variant,,ENST00000448885,;PCDH15,3_prime_UTR_variant,,ENST00000373956,;PCDH15,3_prime_UTR_variant,,ENST00000414367,;	T	ENSG00000150275	ENST00000361849	Transcript	missense_variant	4740	4345	1449	E/K	Gaa/Aaa	COSM3438816,COSM3438817,COSM3438819,COSM3438818	.	.	-1	PCDH15	HGNC	14674	protein_coding	YES	CCDS44404.1	ENSP00000354950	.	A2A3E7_HUMAN,A2A3D9_HUMAN	UPI0000EE048B	.	deleterious_low_confidence(0.02)	probably_damaging(0.952)	32/34	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCATAGA	.	5	BLCA
ANK3	0	.	GRCh37	10	61956290	61956290	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1783G>C	p.Gly595Arg	p.G595R	ENST00000280772	15/44	32	26	5	41	41	0	ANK3,missense_variant,p.Gly589Arg,ENST00000373827,;ANK3,missense_variant,p.Gly595Arg,ENST00000280772,;ANK3,missense_variant,p.Gly578Arg,ENST00000503366,;	G	ENSG00000151150	ENST00000280772	Transcript	missense_variant	1975	1783	595	G/R	Ggg/Cgg	.	.	.	-1	ANK3	HGNC	494	protein_coding	YES	CCDS7258.1	ENSP00000280772	ANK3_HUMAN	D6RFK6_HUMAN,D6RBY7_HUMAN,B1AQT1_HUMAN	UPI0000141BA9	.	.	probably_damaging(0.989)	15/44	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF15,Pfam_domain:PF12796,Gene3D:1.25.40.20,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCCCAGCAG	.	4	BLCA
JMJD1C	0	.	GRCh37	10	64949089	64949089	+	Missense_Mutation	SNP	C	C	G	rs751191855	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6409G>C	p.Glu2137Gln	p.E2137Q	ENST00000399262	18/26	64	49	14	79	79	0	JMJD1C,missense_variant,p.Glu2137Gln,ENST00000399262,;JMJD1C,missense_variant,p.Glu684Gln,ENST00000327520,;JMJD1C,missense_variant,p.Glu1955Gln,ENST00000542921,;JMJD1C,missense_variant,p.Glu1900Gln,ENST00000402544,;JMJD1C,3_prime_UTR_variant,,ENST00000399251,;JMJD1C,non_coding_transcript_exon_variant,,ENST00000497922,;JMJD1C,downstream_gene_variant,,ENST00000483298,;JMJD1C,downstream_gene_variant,,ENST00000490669,;	G	ENSG00000171988	ENST00000399262	Transcript	missense_variant	6628	6409	2137	E/Q	Gaa/Caa	rs751191855	.	.	-1	JMJD1C	HGNC	12313	protein_coding	YES	CCDS41532.1	ENSP00000382204	JHD2C_HUMAN	.	UPI0000198BEF	.	tolerated(0.16)	possibly_damaging(0.501)	18/26	.	hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTTTAA	.	5	BLCA
TSPAN15	0	.	GRCh37	10	71243521	71243521	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.171T>C	p.%3D	p.S57S	ENST00000373290	2/8	23	16	6	56	56	0	TSPAN15,synonymous_variant,p.%3D,ENST00000373290,;TSPAN15,upstream_gene_variant,,ENST00000452130,;TSPAN15,non_coding_transcript_exon_variant,,ENST00000478112,;TSPAN15,upstream_gene_variant,,ENST00000475069,;	C	ENSG00000099282	ENST00000373290	Transcript	synonymous_variant	293	171	57	S	agT/agC	.	.	.	1	TSPAN15	HGNC	23298	protein_coding	YES	CCDS7294.1	ENSP00000362387	TSN15_HUMAN	.	UPI00001370A4	.	.	.	2/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR19282:SF159,hmmpanther:PTHR19282,Pfam_domain:PF00335,PIRSF_domain:PIRSF002419	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAAGTGCCTT	.	5	BLCA
UNC5B	0	.	GRCh37	10	73053170	73053170	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1781C>T	p.Ser594Leu	p.S594L	ENST00000335350	12/17	55	42	13	96	96	0	UNC5B,missense_variant,p.Ser594Leu,ENST00000335350,;UNC5B,missense_variant,p.Ser583Leu,ENST00000373192,;	T	ENSG00000107731	ENST00000335350	Transcript	missense_variant	2197	1781	594	S/L	tCa/tTa	.	.	.	1	UNC5B	HGNC	12568	protein_coding	YES	CCDS7309.1	ENSP00000334329	UNC5B_HUMAN	.	UPI000000D753	.	tolerated(0.44)	benign(0.152)	12/17	.	PROSITE_profiles:PS51145,hmmpanther:PTHR12582:SF6,hmmpanther:PTHR12582,Pfam_domain:PF00791,SMART_domains:SM00218	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTCAGAAG	.	5	BLCA
OIT3	0	.	GRCh37	10	74658496	74658496	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136C>G	p.Gln46Glu	p.Q46E	ENST00000334011	2/9	50	38	12	88	88	0	OIT3,missense_variant,p.Gln46Glu,ENST00000334011,;	G	ENSG00000138315	ENST00000334011	Transcript	missense_variant	354	136	46	Q/E	Caa/Gaa	.	.	.	1	OIT3	HGNC	29953	protein_coding	YES	CCDS7318.1	ENSP00000333900	OIT3_HUMAN	.	UPI00000389F9	.	tolerated(0.3)	benign(0.001)	2/9	.	hmmpanther:PTHR22962,hmmpanther:PTHR22962:SF131	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTCAAGGT	.	5	BLCA
OIT3	0	.	GRCh37	10	74660207	74660207	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509G>A	p.Gly170Glu	p.G170E	ENST00000334011	3/9	18	13	5	31	31	0	OIT3,missense_variant,p.Gly170Glu,ENST00000334011,;	A	ENSG00000138315	ENST00000334011	Transcript	missense_variant	727	509	170	G/E	gGa/gAa	.	.	.	1	OIT3	HGNC	29953	protein_coding	YES	CCDS7318.1	ENSP00000333900	OIT3_HUMAN	.	UPI00000389F9	.	deleterious(0.01)	probably_damaging(1)	3/9	.	hmmpanther:PTHR22962,hmmpanther:PTHR22962:SF131,SMART_domains:SM00181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGGAACTG	.	5	BLCA
ZMIZ1	0	.	GRCh37	10	81063878	81063878	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2232C>T	p.%3D	p.I744I	ENST00000334512	19/25	37	30	7	49	49	0	ZMIZ1,synonymous_variant,p.%3D,ENST00000334512,;ZMIZ1,upstream_gene_variant,,ENST00000446377,;	T	ENSG00000108175	ENST00000334512	Transcript	synonymous_variant	2804	2232	744	I	atC/atT	.	.	.	1	ZMIZ1	HGNC	16493	protein_coding	YES	CCDS7357.1	ENSP00000334474	ZMIZ1_HUMAN	A0PJD4_HUMAN	UPI0000161744	.	.	.	19/25	.	PROSITE_profiles:PS51044,hmmpanther:PTHR10782:SF7,hmmpanther:PTHR10782,Gene3D:3.30.40.10,Pfam_domain:PF02891	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCACATT	.	5	BLCA
PPIF	0	.	GRCh37	10	81113558	81113558	+	Missense_Mutation	SNP	C	C	G	rs747434200	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.584C>G	p.Ser195Cys	p.S195C	ENST00000225174	6/6	33	23	9	60	60	0	PPIF,missense_variant,p.Ser195Cys,ENST00000225174,;PPIF,3_prime_UTR_variant,,ENST00000394579,;PPIF,3_prime_UTR_variant,,ENST00000448165,;PPIF,downstream_gene_variant,,ENST00000498681,;PPIF,downstream_gene_variant,,ENST00000492149,;PPIF,downstream_gene_variant,,ENST00000472580,;	G	ENSG00000108179	ENST00000225174	Transcript	missense_variant	655	584	195	S/C	tCc/tGc	rs747434200	.	.	1	PPIF	HGNC	9259	protein_coding	YES	CCDS7358.1	ENSP00000225174	PPIF_HUMAN	.	UPI000003AF84	.	deleterious_low_confidence(0)	possibly_damaging(0.694)	6/6	.	PROSITE_profiles:PS50072,hmmpanther:PTHR11071:SF116,hmmpanther:PTHR11071,Pfam_domain:PF00160,Gene3D:2.40.100.10,PIRSF_domain:PIRSF001467,Superfamily_domains:SSF50891	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATCCAAGA	.	5	BLCA
GRID1	0	.	GRCh37	10	87628830	87628830	+	Silent	SNP	C	C	T	rs749819154	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888G>A	p.%3D	p.R296R	ENST00000327946	6/16	68	52	16	113	113	0	GRID1,synonymous_variant,p.%3D,ENST00000327946,;GRID1,synonymous_variant,p.%3D,ENST00000464741,;	T	ENSG00000182771	ENST00000327946	Transcript	synonymous_variant	974	888	296	R	agG/agA	rs749819154,COSM354963,COSM3441158	.	.	-1	GRID1	HGNC	4575	protein_coding	YES	CCDS31236.1	ENSP00000330148	GRID1_HUMAN	B7Z7L0_HUMAN	UPI00001D8051	.	.	.	6/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF108,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCCTCGT	.	5	BLCA
PANK1	0	.	GRCh37	10	91371744	91371744	+	Silent	SNP	C	C	T	rs772935952	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>A	p.%3D	p.P255P	ENST00000307534	2/7	48	33	14	90	90	0	PANK1,synonymous_variant,p.%3D,ENST00000371774,;PANK1,synonymous_variant,p.%3D,ENST00000342512,;PANK1,synonymous_variant,p.%3D,ENST00000322191,;PANK1,synonymous_variant,p.%3D,ENST00000307534,;PANK1,upstream_gene_variant,,ENST00000461829,;	T	ENSG00000152782	ENST00000307534	Transcript	synonymous_variant	921	765	255	P	ccG/ccA	rs772935952	.	.	-1	PANK1	HGNC	8598	protein_coding	YES	CCDS31244.1	ENSP00000302108	PANK1_HUMAN	.	UPI0000131D49	.	.	.	2/7	.	hmmpanther:PTHR12280,hmmpanther:PTHR12280:SF23,TIGRFAM_domain:TIGR00555,Pfam_domain:PF03630,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCGGCTC	byFrequency	5	BLCA
HTR7	0	.	GRCh37	10	92508615	92508615	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1276G>C	p.Glu426Gln	p.E426Q	ENST00000336152	2/4	86	49	37	116	116	0	HTR7,missense_variant,p.Glu426Gln,ENST00000371719,;HTR7,missense_variant,p.Glu426Gln,ENST00000371721,;HTR7,missense_variant,p.Glu426Gln,ENST00000277874,;HTR7,missense_variant,p.Glu426Gln,ENST00000336152,;	G	ENSG00000148680	ENST00000336152	Transcript	missense_variant	1303	1276	426	E/Q	Gag/Cag	.	.	.	-1	HTR7	HGNC	5302	protein_coding	YES	CCDS7408.1	ENSP00000337949	5HT7R_HUMAN	.	UPI0000049B68	.	tolerated(0.05)	benign(0.09)	2/4	.	Prints_domain:PR00652,hmmpanther:PTHR24247:SF104,hmmpanther:PTHR24247	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTCTGGCC	.	5	BLCA
ZNF518A	0	.	GRCh37	10	97916829	97916829	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1607G>A	.	.	ENST00000534948	6/7	52	32	20	68	68	0	ZNF518A,non_coding_transcript_exon_variant,,ENST00000478086,;ZNF518A,non_coding_transcript_exon_variant,,ENST00000567632,;ZNF518A,non_coding_transcript_exon_variant,,ENST00000534948,;ZNF518A,intron_variant,,ENST00000563195,;ZNF518A,intron_variant,,ENST00000442635,;ZNF518A,intron_variant,,ENST00000316045,;ZNF518A,downstream_gene_variant,,ENST00000488700,;ZNF518A,non_coding_transcript_exon_variant,,ENST00000371192,;	A	ENSG00000177853	ENST00000534948	Transcript	non_coding_transcript_exon_variant	1607	.	.	.	.	.	.	.	1	ZNF518A	HGNC	29009	processed_transcript	YES	.	.	.	.	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCAGAAGCA	.	5	BLCA
BIRC2	0	.	GRCh37	11	102239086	102239086	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1173G>A	p.Met391Ile	p.M391I	ENST00000227758	6/9	82	68	14	103	103	0	BIRC2,missense_variant,p.Met391Ile,ENST00000227758,;BIRC2,missense_variant,p.Met370Ile,ENST00000532672,;BIRC2,missense_variant,p.Met342Ile,ENST00000530675,;BIRC2,missense_variant,p.Met53Ile,ENST00000533742,;BIRC2,intron_variant,,ENST00000531259,;BIRC2,non_coding_transcript_exon_variant,,ENST00000527910,;BIRC2,non_coding_transcript_exon_variant,,ENST00000534130,;BIRC2,downstream_gene_variant,,ENST00000528344,;	A	ENSG00000110330	ENST00000227758	Transcript	missense_variant	2572	1173	391	M/I	atG/atA	.	.	.	1	BIRC2	HGNC	590	protein_coding	YES	CCDS8316.1	ENSP00000227758	BIRC2_HUMAN	E9PNM6_HUMAN,E9PMH5_HUMAN,E9PIW1_HUMAN,E9PI77_HUMAN	UPI00000015E7	.	deleterious(0.04)	benign(0.365)	6/9	.	hmmpanther:PTHR10044:SF79,hmmpanther:PTHR10044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGATGAATAC	.	5	BLCA
DCUN1D5	0	.	GRCh37	11	102937215	102937215	+	Silent	SNP	G	G	A	rs370827697	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423C>T	p.%3D	p.I141I	ENST00000260247	5/8	46	38	8	61	61	0	DCUN1D5,synonymous_variant,p.%3D,ENST00000260247,;DCUN1D5,synonymous_variant,p.%3D,ENST00000531543,;DCUN1D5,synonymous_variant,p.%3D,ENST00000527260,;DCUN1D5,3_prime_UTR_variant,,ENST00000529294,;DCUN1D5,3_prime_UTR_variant,,ENST00000527576,;DCUN1D5,3_prime_UTR_variant,,ENST00000531571,;DCUN1D5,3_prime_UTR_variant,,ENST00000527779,;DCUN1D5,3_prime_UTR_variant,,ENST00000583974,;DCUN1D5,3_prime_UTR_variant,,ENST00000529281,;DCUN1D5,downstream_gene_variant,,ENST00000525420,;	A	ENSG00000137692	ENST00000260247	Transcript	synonymous_variant	766	423	141	I	atC/atT	rs370827697	.	.	-1	DCUN1D5	HGNC	28409	protein_coding	YES	CCDS8325.1	ENSP00000260247	DCNL5_HUMAN	B4DP84_HUMAN	UPI000006DE72	.	.	.	5/8	.	PROSITE_profiles:PS51229,hmmpanther:PTHR12281:SF6,hmmpanther:PTHR12281,Pfam_domain:PF03556	.	.	.	.	.	.	.	C:0.0002	C:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTAGATATT	byFrequency|byCluster	5	BLCA
CTR9	0	.	GRCh37	11	10800269	10800269	+	Missense_Mutation	SNP	G	G	A	rs567678481	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3139G>A	p.Glu1047Lys	p.E1047K	ENST00000361367	25/25	23	20	3	25	25	0	CTR9,missense_variant,p.Glu1047Lys,ENST00000361367,;RP11-685M7.5,upstream_gene_variant,,ENST00000532365,;CTR9,downstream_gene_variant,,ENST00000529898,;	A	ENSG00000198730	ENST00000361367	Transcript	missense_variant	3565	3139	1047	E/K	Gaa/Aaa	rs567678481	.	.	1	CTR9	HGNC	16850	protein_coding	YES	CCDS7805.1	ENSP00000355013	CTR9_HUMAN	.	UPI000006F32A	.	tolerated(0.85)	benign(0.027)	25/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14027,hmmpanther:PTHR14027:SF2	C:0.0002	C:0	C:0	.	C:0	C:0	C:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGACGAACAA	by1000G	2	BLCA
ATM	0	.	GRCh37	11	108170548	108170548	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5113G>A	p.Asp1705Asn	p.D1705N	ENST00000278616	34/63	145	118	27	214	214	0	ATM,missense_variant,p.Asp1705Asn,ENST00000278616,;ATM,missense_variant,p.Asp1705Asn,ENST00000452508,;ATM,downstream_gene_variant,,ENST00000531525,;ATM,non_coding_transcript_exon_variant,,ENST00000534625,;ATM,non_coding_transcript_exon_variant,,ENST00000524792,;ATM,non_coding_transcript_exon_variant,,ENST00000533690,;ATM,downstream_gene_variant,,ENST00000531957,;ATM,upstream_gene_variant,,ENST00000529588,;	A	ENSG00000149311	ENST00000278616	Transcript	missense_variant	5498	5113	1705	D/N	Gat/Aat	.	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	tolerated(0.2)	benign(0.056)	34/63	.	Superfamily_domains:SSF48371,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGATAAA	.	5	BLCA
EXPH5	0	.	GRCh37	11	108380255	108380255	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*9C>T	.	.	ENST00000265843	6/6	105	75	30	132	132	0	EXPH5,3_prime_UTR_variant,,ENST00000428840,;EXPH5,3_prime_UTR_variant,,ENST00000443411,;EXPH5,3_prime_UTR_variant,,ENST00000525344,;EXPH5,3_prime_UTR_variant,,ENST00000265843,;EXPH5,downstream_gene_variant,,ENST00000533052,;EXPH5,downstream_gene_variant,,ENST00000526312,;EXPH5,downstream_gene_variant,,ENST00000524840,;	A	ENSG00000110723	ENST00000265843	Transcript	3_prime_UTR_variant	6090	.	.	.	.	.	.	.	-1	EXPH5	HGNC	30578	protein_coding	YES	CCDS8341.1	ENSP00000265843	EXPH5_HUMAN	F5GXG5_HUMAN,E9PPH6_HUMAN,E9PIT1_HUMAN,E9PC93_HUMAN,E7ENT4_HUMAN	UPI000013D692	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTGAAAAA	.	5	BLCA
ARHGAP20	0	.	GRCh37	11	110450584	110450584	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3086C>G	p.Ser1029Cys	p.S1029C	ENST00000260283	16/16	78	65	13	105	105	0	ARHGAP20,missense_variant,p.Ser1029Cys,ENST00000260283,;ARHGAP20,missense_variant,p.Ser572Cys,ENST00000529591,;ARHGAP20,missense_variant,p.Ser993Cys,ENST00000527598,;ARHGAP20,missense_variant,p.Ser993Cys,ENST00000528829,;ARHGAP20,missense_variant,p.Ser1003Cys,ENST00000357139,;ARHGAP20,missense_variant,p.Ser1003Cys,ENST00000533353,;ARHGAP20,missense_variant,p.Ser1006Cys,ENST00000524756,;	C	ENSG00000137727	ENST00000260283	Transcript	missense_variant	3371	3086	1029	S/C	tCt/tGt	COSM922934	.	.	-1	ARHGAP20	HGNC	18357	protein_coding	YES	CCDS31673.1	ENSP00000260283	RHG20_HUMAN	.	UPI000013D0BA	.	deleterious(0.03)	possibly_damaging(0.868)	16/16	.	hmmpanther:PTHR23179,hmmpanther:PTHR23179:SF24	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACAGAATGC	.	5	BLCA
TMPRSS5	0	.	GRCh37	11	113568007	113568007	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.462C>T	p.%3D	p.L154L	ENST00000299882	5/13	65	52	12	74	74	0	TMPRSS5,synonymous_variant,p.%3D,ENST00000544476,;TMPRSS5,synonymous_variant,p.%3D,ENST00000538955,;TMPRSS5,synonymous_variant,p.%3D,ENST00000544634,;TMPRSS5,synonymous_variant,p.%3D,ENST00000545579,;TMPRSS5,synonymous_variant,p.%3D,ENST00000299882,;TMPRSS5,splice_region_variant,,ENST00000540540,;TMPRSS5,splice_region_variant,,ENST00000539732,;TMPRSS5,splice_region_variant,,ENST00000536856,;TMPRSS5,splice_region_variant,,ENST00000538770,;TMPRSS5,upstream_gene_variant,,ENST00000545265,;TMPRSS5,upstream_gene_variant,,ENST00000545412,;TMPRSS5,downstream_gene_variant,,ENST00000538091,;	A	ENSG00000166682	ENST00000299882	Transcript	synonymous_variant	611	462	154	L	ctC/ctT	.	.	.	-1	TMPRSS5	HGNC	14908	protein_coding	YES	CCDS44735.1	ENSP00000299882	TMPS5_HUMAN	G5EA43_HUMAN,F5H2M3_HUMAN,B0YJB1_HUMAN	UPI00001FA3AA	.	.	.	5/13	.	hmmpanther:PTHR24256:SF18,hmmpanther:PTHR24256,Gene3D:3.10.250.10,Pfam_domain:PF15494,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTGAGATG	.	5	BLCA
C11orf71	0	.	GRCh37	11	114270825	114270825	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229G>T	p.Glu77Ter	p.E77*	ENST00000325636	1/2	63	49	14	88	88	0	C11orf71,stop_gained,p.Glu77Ter,ENST00000325636,;RBM7,5_prime_UTR_variant,,ENST00000540163,;RBM7,upstream_gene_variant,,ENST00000544582,;RBM7,upstream_gene_variant,,ENST00000375490,;RBM7,upstream_gene_variant,,ENST00000545678,;RBM7,upstream_gene_variant,,ENST00000541475,;RBM7,upstream_gene_variant,,ENST00000542140,;RP11-212D19.4,upstream_gene_variant,,ENST00000544347,;RBM7,upstream_gene_variant,,ENST00000538134,;RBM7,upstream_gene_variant,,ENST00000544313,;	A	ENSG00000180425	ENST00000325636	Transcript	stop_gained	315	229	77	E/*	Gaa/Taa	.	.	.	-1	C11orf71	HGNC	25937	protein_coding	YES	CCDS8369.2	ENSP00000325508	CK071_HUMAN	.	UPI000037830C	.	.	.	1/2	.	hmmpanther:PTHR16445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCCCTTG	.	5	BLCA
NXPE1	0	.	GRCh37	11	114401604	114401604	+	5'UTR	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-301C>A	.	.	ENST00000251921	3/6	36	29	7	43	43	0	NXPE1,synonymous_variant,p.%3D,ENST00000534921,;NXPE1,synonymous_variant,p.%3D,ENST00000424269,;NXPE1,synonymous_variant,p.%3D,ENST00000539878,;NXPE1,synonymous_variant,p.%3D,ENST00000536312,;NXPE1,5_prime_UTR_variant,,ENST00000251921,;NXPE1,upstream_gene_variant,,ENST00000536271,;snoU13,downstream_gene_variant,,ENST00000459372,;	T	ENSG00000095110	ENST00000251921	Transcript	5_prime_UTR_variant	117	.	.	.	.	.	.	.	-1	NXPE1	HGNC	28527	protein_coding	YES	CCDS8372.1	ENSP00000251921	NXPE1_HUMAN	G3V1T0_HUMAN	UPI000013CD22	.	.	.	3/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGAGATGGA	.	2	BLCA
TMPRSS13	0	.	GRCh37	11	117789537	117789537	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.38G>C	p.Arg13Thr	p.R13T	ENST00000524993	2/13	35	32	3	46	46	0	TMPRSS13,missense_variant,p.Arg13Thr,ENST00000526090,;TMPRSS13,missense_variant,p.Arg13Thr,ENST00000524993,;TMPRSS13,missense_variant,p.Arg13Thr,ENST00000430170,;TMPRSS13,missense_variant,p.Arg13Thr,ENST00000528626,;TMPRSS13,missense_variant,p.Arg13Thr,ENST00000445164,;TMPRSS13,non_coding_transcript_exon_variant,,ENST00000525794,;TMPRSS13,intron_variant,,ENST00000528135,;	G	ENSG00000137747	ENST00000524993	Transcript	missense_variant	96	38	13	R/T	aGa/aCa	.	.	.	-1	TMPRSS13	HGNC	29808	protein_coding	YES	CCDS41721.1	ENSP00000434279	.	Q1RMF8_HUMAN,E9PRA0_HUMAN	UPI0000E5923F	.	deleterious_low_confidence(0.03)	possibly_damaging(0.765)	2/13	.	PIRSF_domain:PIRSF037935	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGTTCTTGCT	.	2	BLCA
KMT2A	0	.	GRCh37	11	118376326	118376326	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9719C>G	p.Ser3240Cys	p.S3240C	ENST00000534358	27/36	60	44	16	59	59	0	KMT2A,missense_variant,p.Ser3237Cys,ENST00000389506,;KMT2A,missense_variant,p.Ser3199Cys,ENST00000354520,;KMT2A,missense_variant,p.Ser3240Cys,ENST00000534358,;KMT2A,upstream_gene_variant,,ENST00000534085,;KMT2A,downstream_gene_variant,,ENST00000528278,;KMT2A,upstream_gene_variant,,ENST00000534678,;	G	ENSG00000118058	ENST00000534358	Transcript	missense_variant	9742	9719	3240	S/C	tCt/tGt	.	.	.	1	KMT2A	HGNC	7132	protein_coding	YES	CCDS55791.1	ENSP00000436786	KMT2A_HUMAN	Q9UPD0_HUMAN,Q9UM91_HUMAN,Q9HBJ4_HUMAN,B4DIJ7_HUMAN	UPI0001E5E732	.	.	probably_damaging(0.988)	27/36	.	hmmpanther:PTHR22884:SF302,hmmpanther:PTHR22884,PIRSF_domain:PIRSF010354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCTAGTA	.	5	BLCA
BCL9L	0	.	GRCh37	11	118780716	118780716	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-68C>G	.	.	ENST00000334801	1/8	22	15	7	42	42	0	BCL9L,5_prime_UTR_variant,,ENST00000334801,;BCL9L,5_prime_UTR_variant,,ENST00000532899,;MIR4492,upstream_gene_variant,,ENST00000581627,;BCL9L,intron_variant,,ENST00000530293,;BCL9L,intron_variant,,ENST00000526143,;BCL9L,upstream_gene_variant,,ENST00000527266,;BCL9L,upstream_gene_variant,,ENST00000526514,;	C	ENSG00000186174	ENST00000334801	Transcript	5_prime_UTR_variant	898	.	.	.	.	.	.	.	-1	BCL9L	HGNC	23688	protein_coding	YES	CCDS8403.1	ENSP00000335320	BCL9L_HUMAN	E9PNR0_HUMAN	UPI0000192102	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTGGAGCAC	.	5	BLCA
DPAGT1	0	.	GRCh37	11	118972318	118972318	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48C>T	p.%3D	p.I16I	ENST00000409993	3/11	65	55	10	114	114	0	DPAGT1,synonymous_variant,p.%3D,ENST00000409993,;DPAGT1,synonymous_variant,p.%3D,ENST00000354202,;DPAGT1,5_prime_UTR_variant,,ENST00000432443,;DPAGT1,non_coding_transcript_exon_variant,,ENST00000445653,;C2CD2L,upstream_gene_variant,,ENST00000534024,;DPAGT1,synonymous_variant,p.%3D,ENST00000414373,;DPAGT1,synonymous_variant,p.%3D,ENST00000392834,;DPAGT1,non_coding_transcript_exon_variant,,ENST00000472016,;DPAGT1,non_coding_transcript_exon_variant,,ENST00000460183,;DPAGT1,non_coding_transcript_exon_variant,,ENST00000481084,;DPAGT1,intron_variant,,ENST00000442480,;DPAGT1,upstream_gene_variant,,ENST00000530052,;DPAGT1,upstream_gene_variant,,ENST00000525456,;DPAGT1,upstream_gene_variant,,ENST00000461999,;DPAGT1,upstream_gene_variant,,ENST00000533687,;DPAGT1,upstream_gene_variant,,ENST00000524658,;	A	ENSG00000172269	ENST00000409993	Transcript	synonymous_variant	1600	48	16	I	atC/atT	.	.	.	-1	DPAGT1	HGNC	2995	protein_coding	YES	CCDS8411.1	ENSP00000386597	GPT_HUMAN	.	UPI000012BA3F	.	.	.	3/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10571:SF0,hmmpanther:PTHR10571	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGACGATCAA	.	5	BLCA
MICALCL	0	.	GRCh37	11	12379954	12379954	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2016C>G	p.Ile672Met	p.I672M	ENST00000256186	9/9	174	143	31	220	220	0	MICALCL,missense_variant,p.Ile672Met,ENST00000256186,;	G	ENSG00000133808	ENST00000256186	Transcript	missense_variant	2307	2016	672	I/M	atC/atG	.	.	.	1	MICALCL	HGNC	25933	protein_coding	YES	CCDS41620.1	ENSP00000256186	MICLK_HUMAN	E9PRG5_HUMAN	UPI0000228C2E	.	deleterious(0.03)	benign(0.217)	9/9	.	Pfam_domain:PF12130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCATCAGAGA	.	5	BLCA
CCDC15	0	.	GRCh37	11	124857212	124857212	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1090G>C	p.Glu364Gln	p.E364Q	ENST00000344762	8/16	91	75	15	106	106	0	CCDC15,missense_variant,p.Glu364Gln,ENST00000344762,;CCDC15,missense_variant,p.Glu364Gln,ENST00000529051,;	C	ENSG00000149548	ENST00000344762	Transcript	missense_variant	1349	1090	364	E/Q	Gaa/Caa	COSM1661023,COSM1661022	.	.	1	CCDC15	HGNC	25798	protein_coding	YES	CCDS44756.1	ENSP00000341684	CCD15_HUMAN	.	UPI0000EE3BEA	.	deleterious(0.03)	probably_damaging(0.997)	8/16	.	hmmpanther:PTHR14817	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTGAAATG	.	5	BLCA
TMEM45B	0	.	GRCh37	11	129725682	129725682	+	Silent	SNP	C	C	T	rs527243028	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.465C>T	p.%3D	p.F155F	ENST00000281441	4/6	97	91	6	144	144	0	TMEM45B,synonymous_variant,p.%3D,ENST00000524567,;TMEM45B,synonymous_variant,p.%3D,ENST00000281441,;TMEM45B,non_coding_transcript_exon_variant,,ENST00000527754,;TMEM45B,downstream_gene_variant,,ENST00000529381,;	T	ENSG00000151715	ENST00000281441	Transcript	synonymous_variant	553	465	155	F	ttC/ttT	rs527243028	.	.	1	TMEM45B	HGNC	25194	protein_coding	YES	CCDS8482.1	ENSP00000281441	TM45B_HUMAN	.	UPI0000039E75	.	.	.	4/6	.	Transmembrane_helices:TMhelix,Pfam_domain:PF04819,hmmpanther:PTHR16007:SF12,hmmpanther:PTHR16007	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTTCGGAGG	by1000G	2	BLCA
ADAMTS15	0	.	GRCh37	11	130319659	130319659	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.791T>C	p.Ile264Thr	p.I264T	ENST00000299164	1/8	18	14	3	20	20	0	ADAMTS15,missense_variant,p.Ile264Thr,ENST00000299164,;	C	ENSG00000166106	ENST00000299164	Transcript	missense_variant	791	791	264	I/T	aTc/aCc	.	.	.	1	ADAMTS15	HGNC	16305	protein_coding	YES	CCDS8488.1	ENSP00000299164	ATS15_HUMAN	.	UPI000004F277	.	deleterious(0)	possibly_damaging(0.864)	1/8	.	PROSITE_profiles:PS50215,hmmpanther:PTHR13723:SF39,hmmpanther:PTHR13723,Pfam_domain:PF01421,Gene3D:3.40.390.10,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAACATCGTTG	.	3	BLCA
RP11-113D6.10	0	.	GRCh37	11	18231297	18231297	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83G>A	p.Arg28Lys	p.R28K	ENST00000340135	2/3	20	16	4	33	33	0	RP11-113D6.10,missense_variant,p.Arg28Lys,ENST00000527059,;RP11-113D6.10,missense_variant,p.Arg28Lys,ENST00000340135,;RP11-113D6.10,missense_variant,p.Arg28Lys,ENST00000534640,;	A	ENSG00000189332	ENST00000340135	Transcript	missense_variant	321	83	28	R/K	aGa/aAa	.	.	.	1	RP11-113D6.10	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000342780	YK019_HUMAN	.	UPI00001B6518	.	deleterious_low_confidence(0.03)	benign(0.001)	2/3	.	hmmpanther:PTHR24089:SF158,hmmpanther:PTHR24089	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E26K|c.76G>A|3	MUTECT|MUSE	AACAAGATATG	.	2	BLCA
MRGPRX1	0	.	GRCh37	11	18956185	18956185	+	Silent	SNP	G	G	T	rs752227404	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147C>A	p.%3D	p.L49L	ENST00000302797	1/1	101	75	26	95	95	0	MRGPRX1,synonymous_variant,p.%3D,ENST00000302797,;RP11-583F24.8,upstream_gene_variant,,ENST00000528646,;MRGPRX1,non_coding_transcript_exon_variant,,ENST00000526914,;	T	ENSG00000170255	ENST00000302797	Transcript	synonymous_variant	372	147	49	L	ctC/ctA	rs752227404	.	.	-1	MRGPRX1	HGNC	17962	protein_coding	YES	CCDS7846.1	ENSP00000305766	MRGX1_HUMAN	.	UPI000003BCCF	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR11334,hmmpanther:PTHR11334:SF22,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A46T|c.136G>A|5	RADIA|MUTECT|MUSE	AGCCAGAGCAC	.	3	BLCA
NAV2	0	.	GRCh37	11	20113763	20113763	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5841G>C	p.Glu1947Asp	p.E1947D	ENST00000396087	31/41	86	69	17	105	105	0	NAV2,missense_variant,p.Glu1891Asp,ENST00000396085,;NAV2,missense_variant,p.Glu1824Asp,ENST00000360655,;NAV2,missense_variant,p.Glu952Asp,ENST00000533917,;NAV2,missense_variant,p.Glu1878Asp,ENST00000540292,;NAV2,missense_variant,p.Glu1876Asp,ENST00000527559,;NAV2,missense_variant,p.Glu1888Asp,ENST00000349880,;NAV2,missense_variant,p.Glu952Asp,ENST00000311043,;NAV2,missense_variant,p.Glu1947Asp,ENST00000396087,;	C	ENSG00000166833	ENST00000396087	Transcript	missense_variant	5940	5841	1947	E/D	gaG/gaC	.	.	.	1	NAV2	HGNC	15997	protein_coding	YES	CCDS58126.1	ENSP00000379396	NAV2_HUMAN	.	UPI00001E0580	.	tolerated(0.18)	probably_damaging(0.989)	31/41	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12784:SF6,hmmpanther:PTHR12784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATAGAGAAGCT	.	5	BLCA
NAP1L4	0	.	GRCh37	11	2979642	2979642	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879C>T	p.%3D	p.F293F	ENST00000380542	10/16	61	51	9	95	95	0	NAP1L4,synonymous_variant,p.%3D,ENST00000380542,;NAP1L4,synonymous_variant,p.%3D,ENST00000526115,;NAP1L4,downstream_gene_variant,,ENST00000448187,;NAP1L4,downstream_gene_variant,,ENST00000532325,;NAP1L4,synonymous_variant,p.%3D,ENST00000492685,;NAP1L4,non_coding_transcript_exon_variant,,ENST00000528363,;NAP1L4,non_coding_transcript_exon_variant,,ENST00000528261,;NAP1L4,non_coding_transcript_exon_variant,,ENST00000483643,;NAP1L4,upstream_gene_variant,,ENST00000492594,;	A	ENSG00000205531	ENST00000380542	Transcript	synonymous_variant	1020	879	293	F	ttC/ttT	.	.	.	-1	NAP1L4	HGNC	7640	protein_coding	YES	CCDS41599.1	ENSP00000369915	NP1L4_HUMAN	E9PS34_HUMAN,E9PNW0_HUMAN,E9PNJ7_HUMAN,E9PKI2_HUMAN,E9PJJ2_HUMAN,C9J6D1_HUMAN,A8MXH2_HUMAN	UPI00001303EA	.	.	.	10/16	.	hmmpanther:PTHR11875,hmmpanther:PTHR11875:SF34,Pfam_domain:PF00956,Superfamily_domains:SSF143113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATTGAAGAA	.	5	BLCA
CCDC73	0	.	GRCh37	11	32634970	32634970	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2894C>T	p.Pro965Leu	p.P965L	ENST00000335185	16/18	64	54	10	94	94	0	CCDC73,missense_variant,p.Pro965Leu,ENST00000335185,;CCDC73,intron_variant,,ENST00000528333,;CCDC73,downstream_gene_variant,,ENST00000534415,;	A	ENSG00000186714	ENST00000335185	Transcript	missense_variant	2938	2894	965	P/L	cCa/cTa	.	.	.	-1	CCDC73	HGNC	23261	protein_coding	YES	CCDS41630.1	ENSP00000335325	CCD73_HUMAN	.	UPI000066725E	.	tolerated(0.64)	possibly_damaging(0.499)	16/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGGTCCA	.	5	BLCA
HIPK3	0	.	GRCh37	11	33358682	33358682	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1283A>G	p.Lys428Arg	p.K428R	ENST00000303296	4/17	53	42	10	59	59	0	HIPK3,missense_variant,p.Lys428Arg,ENST00000525975,;HIPK3,missense_variant,p.Lys428Arg,ENST00000456517,;HIPK3,missense_variant,p.Lys428Arg,ENST00000379016,;HIPK3,missense_variant,p.Lys428Arg,ENST00000303296,;HIPK3,non_coding_transcript_exon_variant,,ENST00000534262,;	G	ENSG00000110422	ENST00000303296	Transcript	missense_variant	1588	1283	428	K/R	aAa/aGa	.	.	.	1	HIPK3	HGNC	4915	protein_coding	YES	CCDS7884.1	ENSP00000304226	HIPK3_HUMAN	E9PKD7_HUMAN	UPI000006D7F8	.	deleterious(0)	probably_damaging(0.999)	4/17	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR24058:SF29,hmmpanther:PTHR24058,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACTAAATCCA	.	5	BLCA
NUP98	0	.	GRCh37	11	3727727	3727727	+	Missense_Mutation	SNP	G	G	A	rs11607340	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2873C>T	p.Ser958Phe	p.S958F	ENST00000324932	21/33	111	82	29	132	131	1	NUP98,missense_variant,p.Ser14Phe,ENST00000429801,;NUP98,missense_variant,p.Ser958Phe,ENST00000324932,;NUP98,missense_variant,p.Ser958Phe,ENST00000359171,;NUP98,missense_variant,p.Ser958Phe,ENST00000355260,;NUP98,upstream_gene_variant,,ENST00000529063,;	A	ENSG00000110713	ENST00000324932	Transcript	missense_variant	3294	2873	958	S/F	tCt/tTt	rs11607340,COSM1627963	.	.	-1	NUP98	HGNC	8068	protein_coding	YES	CCDS7746.1	ENSP00000316032	NUP98_HUMAN	Q9HDC8_HUMAN	UPI000013CD36	.	deleterious(0.01)	possibly_damaging(0.861)	21/33	.	hmmpanther:PTHR23198,hmmpanther:PTHR23198:SF0	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCAGACACA	byHapMap	5	BLCA
RRM1	0	.	GRCh37	11	4142993	4142993	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1036C>G	p.Gln346Glu	p.Q346E	ENST00000300738	10/19	61	48	13	63	63	0	RRM1,missense_variant,p.Gln249Glu,ENST00000423050,;RRM1,missense_variant,p.Gln8Glu,ENST00000537197,;RRM1,missense_variant,p.Gln346Glu,ENST00000300738,;RRM1,missense_variant,p.Gln124Glu,ENST00000534285,;RRM1,splice_region_variant,,ENST00000528470,;RRM1,splice_region_variant,,ENST00000526304,;RRM1,splice_region_variant,,ENST00000533495,;RRM1,splice_region_variant,,ENST00000532170,;RRM1,splice_region_variant,,ENST00000533349,;RRM1,splice_region_variant,,ENST00000531591,;RRM1,splice_region_variant,,ENST00000528442,;RRM1,upstream_gene_variant,,ENST00000529109,;	G	ENSG00000167325	ENST00000300738	Transcript	missense_variant	1240	1036	346	Q/E	Cag/Gag	.	.	.	1	RRM1	HGNC	10451	protein_coding	YES	CCDS7750.1	ENSP00000300738	RIR1_HUMAN	F5H861_HUMAN,E9PL69_HUMAN,E9PD78_HUMAN,B4DNN4_HUMAN	UPI0000000C7C	.	tolerated_low_confidence(0.38)	benign(0.001)	10/19	.	Superfamily_domains:SSF51998,Pfam_domain:PF02867,TIGRFAM_domain:TIGR02506,hmmpanther:PTHR11573	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAATCAGGTG	.	5	BLCA
OR51D1	0	.	GRCh37	11	4661041	4661041	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21G>A	p.%3D	p.L7L	ENST00000357605	1/1	117	97	19	146	146	0	OR51D1,synonymous_variant,p.%3D,ENST00000357605,;OR51E1,upstream_gene_variant,,ENST00000396952,;	A	ENSG00000197428	ENST00000357605	Transcript	synonymous_variant	97	21	7	L	ttG/ttA	.	.	.	1	OR51D1	HGNC	15193	protein_coding	YES	CCDS31357.1	ENSP00000350222	O51D1_HUMAN	.	UPI000004B21E	.	.	.	1/1	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTGGTCCC	.	5	BLCA
ARHGAP1	0	.	GRCh37	11	46703683	46703683	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367C>T	p.%3D	p.L123L	ENST00000311956	5/13	99	79	19	140	140	0	ARHGAP1,synonymous_variant,p.%3D,ENST00000525488,;ARHGAP1,synonymous_variant,p.%3D,ENST00000311956,;ARHGAP1,intron_variant,,ENST00000528837,;ARHGAP1,downstream_gene_variant,,ENST00000527588,;ARHGAP1,upstream_gene_variant,,ENST00000526423,;	A	ENSG00000175220	ENST00000311956	Transcript	synonymous_variant	465	367	123	L	Ctg/Ttg	.	.	.	-1	ARHGAP1	HGNC	673	protein_coding	YES	CCDS7922.1	ENSP00000310491	RHG01_HUMAN	E9PNR6_HUMAN	UPI0000040691	.	.	.	5/13	.	Superfamily_domains:SSF52087,SMART_domains:SM00516,Pfam_domain:PF13716,Gene3D:3.40.525.10,hmmpanther:PTHR23176,hmmpanther:PTHR23176:SF7,PROSITE_profiles:PS50191	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATACAGAAGTG	.	5	BLCA
AGBL2	0	.	GRCh37	11	47713800	47713800	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.703G>C	p.Glu235Gln	p.E235Q	ENST00000525123	9/19	66	52	13	77	77	0	AGBL2,missense_variant,p.Glu197Gln,ENST00000528244,;AGBL2,missense_variant,p.Glu179Gln,ENST00000532595,;AGBL2,missense_variant,p.Glu235Gln,ENST00000357610,;AGBL2,missense_variant,p.Glu235Gln,ENST00000298861,;AGBL2,missense_variant,p.Glu235Gln,ENST00000525123,;AGBL2,non_coding_transcript_exon_variant,,ENST00000529712,;AGBL2,non_coding_transcript_exon_variant,,ENST00000526331,;AGBL2,upstream_gene_variant,,ENST00000528609,;	G	ENSG00000165923	ENST00000525123	Transcript	missense_variant	989	703	235	E/Q	Gaa/Caa	.	.	.	-1	AGBL2	HGNC	26296	protein_coding	YES	CCDS7944.1	ENSP00000435582	CBPC2_HUMAN	E9PJH3_HUMAN,E9PI49_HUMAN	UPI00001A95E3	.	tolerated(0.12)	benign(0.045)	9/19	.	hmmpanther:PTHR12756,hmmpanther:PTHR12756:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCTATAG	.	5	BLCA
FNBP4	0	.	GRCh37	11	47772479	47772479	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895G>A	p.Glu299Lys	p.E299K	ENST00000263773	6/17	74	53	21	98	98	0	FNBP4,missense_variant,p.Glu299Lys,ENST00000263773,;FNBP4,downstream_gene_variant,,ENST00000540172,;FNBP4,non_coding_transcript_exon_variant,,ENST00000534003,;FNBP4,downstream_gene_variant,,ENST00000542975,;FNBP4,upstream_gene_variant,,ENST00000544590,;FNBP4,downstream_gene_variant,,ENST00000533707,;	T	ENSG00000109920	ENST00000263773	Transcript	missense_variant	908	895	299	E/K	Gaa/Aaa	COSM1252646	.	.	-1	FNBP4	HGNC	19752	protein_coding	YES	CCDS41644.1	ENSP00000263773	FNBP4_HUMAN	.	UPI0000DBEF37	.	tolerated(0.13)	probably_damaging(0.91)	6/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF186	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCTCGCT	.	5	BLCA
OR5D14	0	.	GRCh37	11	55563034	55563034	+	Translation_Start_Site	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000335605	1/1	86	69	16	128	128	0	OR5D14,start_lost,p.Met1?,ENST00000335605,;	A	ENSG00000186113	ENST00000335605	Transcript	start_lost	3	3	1	M/I	atG/atA	.	.	.	1	OR5D14	HGNC	15281	protein_coding	YES	CCDS31508.1	ENSP00000334456	OR5DE_HUMAN	.	UPI000004B1F6	.	tolerated(0.05)	benign(0.004)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTATGATGAT	.	5	BLCA
OR8K3	0	.	GRCh37	11	56086432	56086432	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.650C>G	p.Ser217Cys	p.S217C	ENST00000312711	1/1	52	42	10	89	89	0	OR8K3,missense_variant,p.Ser217Cys,ENST00000312711,;	G	ENSG00000181689	ENST00000312711	Transcript	missense_variant	650	650	217	S/C	tCt/tGt	.	.	.	1	OR8K3	HGNC	15313	protein_coding	YES	CCDS31527.1	ENSP00000323555	OR8K3_HUMAN	.	UPI0000041BE7	.	deleterious_low_confidence(0.01)	possibly_damaging(0.837)	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF161,hmmpanther:PTHR26452,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATCTTACC	.	5	BLCA
SERPING1	0	.	GRCh37	11	57373917	57373917	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.926G>A	p.Arg309Lys	p.R309K	ENST00000278407	6/8	85	58	27	104	104	0	SERPING1,missense_variant,p.Arg309Lys,ENST00000278407,;SERPING1,missense_variant,p.Arg352Lys,ENST00000403558,;SERPING1,missense_variant,p.Arg257Lys,ENST00000378324,;SERPING1,missense_variant,p.Arg309Lys,ENST00000340687,;SERPING1,missense_variant,p.Arg314Lys,ENST00000378323,;SERPING1,downstream_gene_variant,,ENST00000531605,;SERPING1,missense_variant,p.Arg13Lys,ENST00000528996,;SERPING1,3_prime_UTR_variant,,ENST00000531133,;SERPING1,intron_variant,,ENST00000531797,;SERPING1,upstream_gene_variant,,ENST00000530113,;	A	ENSG00000149131	ENST00000278407	Transcript	missense_variant	1153	926	309	R/K	aGa/aAa	.	.	.	1	SERPING1	HGNC	1228	protein_coding	YES	CCDS7962.1	ENSP00000278407	IC1_HUMAN	E9KL26_HUMAN,B5MCB9_HUMAN,B4E1H2_HUMAN	UPI000000123F	.	tolerated(1)	benign(0.015)	6/8	.	hmmpanther:PTHR11461:SF156,hmmpanther:PTHR11461,Pfam_domain:PF00079,Gene3D:2.30.39.10,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCAGAATGG	.	5	BLCA
TMEM132A	0	.	GRCh37	11	60694735	60694735	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.160G>C	p.Asp54His	p.D54H	ENST00000005286	2/11	62	47	15	103	103	0	TMEM132A,missense_variant,p.Asp54His,ENST00000453848,;TMEM132A,missense_variant,p.Asp54His,ENST00000005286,;TMEM132A,5_prime_UTR_variant,,ENST00000544065,;TMEM132A,upstream_gene_variant,,ENST00000536409,;TMEM109,downstream_gene_variant,,ENST00000536171,;TMEM109,downstream_gene_variant,,ENST00000227525,;RP11-881M11.4,upstream_gene_variant,,ENST00000543907,;TMEM132A,intron_variant,,ENST00000540276,;TMEM132A,downstream_gene_variant,,ENST00000537110,;TMEM132A,upstream_gene_variant,,ENST00000539899,;TMEM132A,downstream_gene_variant,,ENST00000543732,;TMEM132A,downstream_gene_variant,,ENST00000537065,;TMEM109,downstream_gene_variant,,ENST00000540280,;TMEM132A,non_coding_transcript_exon_variant,,ENST00000534983,;TMEM132A,non_coding_transcript_exon_variant,,ENST00000544098,;	C	ENSG00000006118	ENST00000005286	Transcript	missense_variant	313	160	54	D/H	Gac/Cac	.	.	.	1	TMEM132A	HGNC	31092	protein_coding	YES	CCDS7997.1	ENSP00000005286	T132A_HUMAN	F5H765_HUMAN	UPI0000190977	.	tolerated(0.1)	probably_damaging(0.991)	2/11	.	hmmpanther:PTHR13388:SF6,hmmpanther:PTHR13388,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTAGACGCC	.	5	BLCA
PHRF1	0	.	GRCh37	11	608501	608501	+	Silent	SNP	A	A	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3042A>G	p.%3D	p.G1014G	ENST00000416188	14/18	31	21	10	56	56	0	PHRF1,synonymous_variant,p.%3D,ENST00000264555,;PHRF1,synonymous_variant,p.%3D,ENST00000413872,;PHRF1,synonymous_variant,p.%3D,ENST00000533464,;PHRF1,synonymous_variant,p.%3D,ENST00000416188,;IRF7,downstream_gene_variant,,ENST00000330243,;IRF7,downstream_gene_variant,,ENST00000397566,;IRF7,downstream_gene_variant,,ENST00000348655,;IRF7,downstream_gene_variant,,ENST00000525445,;IRF7,downstream_gene_variant,,ENST00000397570,;IRF7,downstream_gene_variant,,ENST00000397562,;IRF7,downstream_gene_variant,,ENST00000397574,;PHRF1,synonymous_variant,p.%3D,ENST00000534320,;IRF7,downstream_gene_variant,,ENST00000532326,;IRF7,downstream_gene_variant,,ENST00000531912,;IRF7,downstream_gene_variant,,ENST00000528413,;IRF7,downstream_gene_variant,,ENST00000469048,;IRF7,downstream_gene_variant,,ENST00000533182,;PHRF1,downstream_gene_variant,,ENST00000532550,;	G	ENSG00000070047	ENST00000416188	Transcript	synonymous_variant	3135	3042	1014	G	ggA/ggG	COSM4034549,COSM4034548	.	.	1	PHRF1	HGNC	24351	protein_coding	YES	CCDS44507.1	ENSP00000410626	PHRF1_HUMAN	.	UPI000189A834	.	.	.	14/18	.	hmmpanther:PTHR15242:SF1,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.G1019_S1022delGTRS|c.3044_3055del12|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACGGACGGAC	.	5	BLCA
DAGLA	0	.	GRCh37	11	61508657	61508657	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2007G>T	p.%3D	p.G669G	ENST00000257215	19/20	38	29	9	68	68	0	DAGLA,synonymous_variant,p.%3D,ENST00000257215,;DAGLA,3_prime_UTR_variant,,ENST00000540717,;	T	ENSG00000134780	ENST00000257215	Transcript	synonymous_variant	2123	2007	669	G	ggG/ggT	.	.	.	1	DAGLA	HGNC	1165	protein_coding	YES	CCDS31578.1	ENSP00000257215	DGLA_HUMAN	.	UPI00001678B3	.	.	.	19/20	.	hmmpanther:PTHR21493,hmmpanther:PTHR21493:SF87	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGGGAAGAC	.	5	BLCA
AHNAK	0	.	GRCh37	11	62284479	62284479	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17410G>T	p.Gly5804Trp	p.G5804W	ENST00000378024	5/5	67	48	19	86	86	0	AHNAK,missense_variant,p.Gly5804Trp,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,splice_region_variant,,ENST00000525875,;	A	ENSG00000124942	ENST00000378024	Transcript	missense_variant	17685	17410	5804	G/W	Ggg/Tgg	.	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	probably_damaging(1)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCCCACCTT	.	5	BLCA
AHNAK	0	.	GRCh37	11	62286885	62286885	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15004G>A	p.Glu5002Lys	p.E5002K	ENST00000378024	5/5	103	83	20	134	133	0	AHNAK,missense_variant,p.Glu5002Lys,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,upstream_gene_variant,,ENST00000525875,;	T	ENSG00000124942	ENST00000378024	Transcript	missense_variant	15279	15004	5002	E/K	Gag/Aag	COSM1509244	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	possibly_damaging(0.517)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCAGGAA	.	5	BLCA
C11orf48	0	.	GRCh37	11	62430462	62430462	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*139G>C	.	.	ENST00000532208	7/7	9	5	4	16	16	0	C11orf48,3_prime_UTR_variant,,ENST00000524958,;C11orf48,3_prime_UTR_variant,,ENST00000354588,;C11orf48,3_prime_UTR_variant,,ENST00000532208,;C11orf48,3_prime_UTR_variant,,ENST00000431002,;RP11-831H9.11,intron_variant,,ENST00000528405,;C11orf48,downstream_gene_variant,,ENST00000528115,;METTL12,upstream_gene_variant,,ENST00000532971,;C11orf48,downstream_gene_variant,,ENST00000525675,;C11orf48,downstream_gene_variant,,ENST00000528862,;C11orf48,downstream_gene_variant,,ENST00000415855,;SNORA57,upstream_gene_variant,,ENST00000383870,;METTL12,upstream_gene_variant,,ENST00000398922,;METTL12,upstream_gene_variant,,ENST00000594728,;C11orf48,non_coding_transcript_exon_variant,,ENST00000532786,;C11orf48,downstream_gene_variant,,ENST00000527679,;C11orf48,downstream_gene_variant,,ENST00000524759,;METTL12,upstream_gene_variant,,ENST00000529868,;	G	ENSG00000162194	ENST00000532208	Transcript	3_prime_UTR_variant	1366	.	.	.	.	.	.	.	-1	C11orf48	HGNC	28351	protein_coding	YES	CCDS8028.1	ENSP00000436848	CK048_HUMAN	E9PL64_HUMAN	UPI00003520AA	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCTCTGAAA	.	2	BLCA
C11orf48	0	.	GRCh37	11	62430472	62430472	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*129G>A	.	.	ENST00000532208	7/7	9	5	4	20	20	0	C11orf48,3_prime_UTR_variant,,ENST00000524958,;C11orf48,3_prime_UTR_variant,,ENST00000354588,;C11orf48,3_prime_UTR_variant,,ENST00000532208,;C11orf48,3_prime_UTR_variant,,ENST00000431002,;RP11-831H9.11,intron_variant,,ENST00000528405,;C11orf48,downstream_gene_variant,,ENST00000528115,;METTL12,upstream_gene_variant,,ENST00000532971,;C11orf48,downstream_gene_variant,,ENST00000525675,;C11orf48,downstream_gene_variant,,ENST00000528862,;C11orf48,downstream_gene_variant,,ENST00000415855,;SNORA57,upstream_gene_variant,,ENST00000383870,;METTL12,upstream_gene_variant,,ENST00000398922,;METTL12,upstream_gene_variant,,ENST00000594728,;C11orf48,non_coding_transcript_exon_variant,,ENST00000532786,;C11orf48,downstream_gene_variant,,ENST00000527679,;C11orf48,downstream_gene_variant,,ENST00000524759,;METTL12,upstream_gene_variant,,ENST00000529868,;	T	ENSG00000162194	ENST00000532208	Transcript	3_prime_UTR_variant	1356	.	.	.	.	.	.	.	-1	C11orf48	HGNC	28351	protein_coding	YES	CCDS8028.1	ENSP00000436848	CK048_HUMAN	E9PL64_HUMAN	UPI00003520AA	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAACCACTGA	.	2	BLCA
METTL12	0	.	GRCh37	11	62433912	62433912	+	Missense_Mutation	SNP	C	C	G	rs111425217	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112C>G	p.Arg38Gly	p.R38G	ENST00000532971	3/3	52	43	9	79	79	0	METTL12,missense_variant,p.Arg38Gly,ENST00000532971,;C11orf48,intron_variant,,ENST00000354588,;C11orf48,intron_variant,,ENST00000532208,;C11orf48,intron_variant,,ENST00000415855,;C11orf48,intron_variant,,ENST00000431002,;C11orf48,downstream_gene_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000525675,;C11orf48,upstream_gene_variant,,ENST00000524958,;C11orf48,downstream_gene_variant,,ENST00000528862,;RP11-831H9.11,upstream_gene_variant,,ENST00000528405,;C11orf83,upstream_gene_variant,,ENST00000531323,;C11orf48,downstream_gene_variant,,ENST00000377954,;C11orf48,downstream_gene_variant,,ENST00000526490,;SNORA57,downstream_gene_variant,,ENST00000383870,;METTL12,non_coding_transcript_exon_variant,,ENST00000398922,;METTL12,downstream_gene_variant,,ENST00000594728,;METTL12,non_coding_transcript_exon_variant,,ENST00000529868,;C11orf48,upstream_gene_variant,,ENST00000532786,;C11orf48,downstream_gene_variant,,ENST00000524759,;C11orf48,downstream_gene_variant,,ENST00000527679,;	G	ENSG00000214756	ENST00000532971	Transcript	missense_variant	369	112	38	R/G	Cgg/Ggg	rs111425217	.	.	1	METTL12	HGNC	33113	protein_coding	YES	CCDS41657.1	ENSP00000431287	MET12_HUMAN	.	UPI0000D4EAB2	.	deleterious(0)	benign(0.065)	3/3	.	hmmpanther:PTHR12176,hmmpanther:PTHR12176:SF15	T:0.0004	T:0	T:0.0029	.	T:0	T:0	T:0	T:0.0005	T:0.0023	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGATCGGCTG	byFrequency|byCluster|by1000G	5	BLCA
METTL12	0	.	GRCh37	11	62434236	62434236	+	Missense_Mutation	SNP	C	C	G	rs769505563	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436C>G	p.Gln146Glu	p.Q146E	ENST00000532971	3/3	40	31	9	58	58	0	METTL12,missense_variant,p.Gln146Glu,ENST00000532971,;C11orf48,intron_variant,,ENST00000354588,;C11orf48,intron_variant,,ENST00000532208,;C11orf48,intron_variant,,ENST00000415855,;C11orf48,intron_variant,,ENST00000431002,;C11orf48,downstream_gene_variant,,ENST00000528115,;C11orf48,upstream_gene_variant,,ENST00000525675,;C11orf48,upstream_gene_variant,,ENST00000524958,;C11orf48,downstream_gene_variant,,ENST00000528862,;RP11-831H9.11,upstream_gene_variant,,ENST00000528405,;C11orf83,upstream_gene_variant,,ENST00000531323,;C11orf83,upstream_gene_variant,,ENST00000377953,;C11orf48,downstream_gene_variant,,ENST00000377954,;C11orf48,downstream_gene_variant,,ENST00000526490,;SNORA57,downstream_gene_variant,,ENST00000383870,;METTL12,non_coding_transcript_exon_variant,,ENST00000398922,;METTL12,downstream_gene_variant,,ENST00000594728,;METTL12,non_coding_transcript_exon_variant,,ENST00000529868,;C11orf48,upstream_gene_variant,,ENST00000532786,;C11orf48,downstream_gene_variant,,ENST00000524759,;C11orf48,downstream_gene_variant,,ENST00000527679,;	G	ENSG00000214756	ENST00000532971	Transcript	missense_variant	693	436	146	Q/E	Cag/Gag	rs769505563	.	.	1	METTL12	HGNC	33113	protein_coding	YES	CCDS41657.1	ENSP00000431287	MET12_HUMAN	.	UPI0000D4EAB2	.	tolerated(0.13)	benign(0.089)	3/3	.	hmmpanther:PTHR12176,hmmpanther:PTHR12176:SF15,Pfam_domain:PF13847,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCAGAAC	.	5	BLCA
NXF1	0	.	GRCh37	11	62560121	62560121	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1813C>G	p.His605Asp	p.H605D	ENST00000532297	21/22	44	36	8	67	67	0	NXF1,missense_variant,p.His605Asp,ENST00000532297,;NXF1,missense_variant,p.His605Asp,ENST00000294172,;NXF1,missense_variant,p.His110Asp,ENST00000527902,;NXF1,3_prime_UTR_variant,,ENST00000531709,;TMEM179B,downstream_gene_variant,,ENST00000526546,;NXF1,downstream_gene_variant,,ENST00000530875,;TMEM179B,downstream_gene_variant,,ENST00000533861,;TMEM223,upstream_gene_variant,,ENST00000525631,;TMEM223,upstream_gene_variant,,ENST00000528367,;TMEM179B,downstream_gene_variant,,ENST00000333449,;TMEM223,upstream_gene_variant,,ENST00000307366,;NXF1,non_coding_transcript_exon_variant,,ENST00000533048,;NXF1,downstream_gene_variant,,ENST00000531579,;TMEM223,upstream_gene_variant,,ENST00000527073,;NXF1,non_coding_transcript_exon_variant,,ENST00000533499,;NXF1,non_coding_transcript_exon_variant,,ENST00000527497,;NXF1,downstream_gene_variant,,ENST00000533440,;TMEM179B,downstream_gene_variant,,ENST00000532345,;TMEM179B,downstream_gene_variant,,ENST00000532586,;NXF1,downstream_gene_variant,,ENST00000531872,;	C	ENSG00000162231	ENST00000532297	Transcript	missense_variant	2443	1813	605	H/D	Cat/Gat	.	.	.	-1	NXF1	HGNC	8071	protein_coding	YES	CCDS8037.1	ENSP00000436679	NXF1_HUMAN	Q68CW9_HUMAN,E9PMV7_HUMAN,E9PLA7_HUMAN	UPI00000012B9	.	tolerated(0.47)	benign(0)	21/22	.	Superfamily_domains:SSF46934,SMART_domains:SM00804,Pfam_domain:PF03943,Gene3D:1.10.8.10,hmmpanther:PTHR10662:SF27,hmmpanther:PTHR10662,PROSITE_profiles:PS51281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATGAGTGA	.	5	BLCA
FERMT3	0	.	GRCh37	11	63988079	63988079	+	Missense_Mutation	SNP	G	G	A	rs199681648	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1495G>A	p.Glu499Lys	p.E499K	ENST00000279227	12/15	20	17	3	15	15	0	FERMT3,missense_variant,p.Glu495Lys,ENST00000345728,;FERMT3,missense_variant,p.Glu499Lys,ENST00000279227,;FERMT3,synonymous_variant,p.%3D,ENST00000545896,;TRPT1,downstream_gene_variant,,ENST00000317459,;TRPT1,downstream_gene_variant,,ENST00000545812,;FERMT3,downstream_gene_variant,,ENST00000544997,;TRPT1,downstream_gene_variant,,ENST00000394546,;TRPT1,downstream_gene_variant,,ENST00000394547,;TRPT1,downstream_gene_variant,,ENST00000541278,;TRPT1,downstream_gene_variant,,ENST00000546133,;TRPT1,downstream_gene_variant,,ENST00000546089,;TRPT1,downstream_gene_variant,,ENST00000544286,;TRPT1,downstream_gene_variant,,ENST00000540472,;TRPT1,downstream_gene_variant,,ENST00000542040,;FERMT3,downstream_gene_variant,,ENST00000546255,;TRPT1,downstream_gene_variant,,ENST00000537907,;FERMT3,downstream_gene_variant,,ENST00000540957,;TRPT1,downstream_gene_variant,,ENST00000536234,;TRPT1,downstream_gene_variant,,ENST00000539595,;TRPT1,downstream_gene_variant,,ENST00000539436,;FERMT3,upstream_gene_variant,,ENST00000540554,;FERMT3,downstream_gene_variant,,ENST00000541326,;TRPT1,downstream_gene_variant,,ENST00000541928,;TRPT1,downstream_gene_variant,,ENST00000536158,;	A	ENSG00000149781	ENST00000279227	Transcript	missense_variant	1590	1495	499	E/K	Gag/Aag	rs199681648	.	.	1	FERMT3	HGNC	23151	protein_coding	YES	CCDS8060.1	ENSP00000279227	URP2_HUMAN	F5H3I6_HUMAN,F5H1C6_HUMAN	UPI000019270B	.	tolerated(0.62)	benign(0.422)	12/15	.	hmmpanther:PTHR16160:SF1,hmmpanther:PTHR16160,Pfam_domain:PF00373,Gene3D:1.20.80.10,SMART_domains:SM00295,Superfamily_domains:SSF47031	A:0.0004	A:0.0008	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCCGAGGGC	byFrequency|byCluster|by1000G	2	BLCA
GPR137	0	.	GRCh37	11	64054107	64054107	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.285C>T	p.%3D	p.L95L	ENST00000411458	3/9	92	71	20	137	137	0	GPR137,synonymous_variant,p.%3D,ENST00000543383,;GPR137,synonymous_variant,p.%3D,ENST00000538032,;GPR137,synonymous_variant,p.%3D,ENST00000538244,;GPR137,synonymous_variant,p.%3D,ENST00000377702,;GPR137,synonymous_variant,p.%3D,ENST00000313074,;GPR137,synonymous_variant,p.%3D,ENST00000542190,;GPR137,synonymous_variant,p.%3D,ENST00000539833,;GPR137,synonymous_variant,p.%3D,ENST00000546139,;GPR137,synonymous_variant,p.%3D,ENST00000539851,;GPR137,synonymous_variant,p.%3D,ENST00000535675,;GPR137,synonymous_variant,p.%3D,ENST00000438980,;GPR137,synonymous_variant,p.%3D,ENST00000411458,;GPR137,synonymous_variant,p.%3D,ENST00000540370,;GPR137,synonymous_variant,p.%3D,ENST00000541952,;GPR137,intron_variant,,ENST00000536667,;KCNK4,upstream_gene_variant,,ENST00000538767,;KCNK4,upstream_gene_variant,,ENST00000422670,;BAD,upstream_gene_variant,,ENST00000394531,;GPR137,upstream_gene_variant,,ENST00000536282,;BAD,upstream_gene_variant,,ENST00000394532,;BAD,upstream_gene_variant,,ENST00000309032,;BAD,upstream_gene_variant,,ENST00000544785,;GPR137,synonymous_variant,p.%3D,ENST00000546201,;GPR137,non_coding_transcript_exon_variant,,ENST00000536017,;KCNK4,upstream_gene_variant,,ENST00000453423,;GPR137,upstream_gene_variant,,ENST00000545366,;BAD,upstream_gene_variant,,ENST00000544271,;KCNK4,upstream_gene_variant,,ENST00000538846,;	T	ENSG00000173264	ENST00000411458	Transcript	synonymous_variant	313	285	95	L	ctC/ctT	.	.	.	1	GPR137	HGNC	24300	protein_coding	YES	CCDS53655.1	ENSP00000411827	G137A_HUMAN	F5H7S0_HUMAN,F5H4R8_HUMAN,F5H1V9_HUMAN,F5H1T3_HUMAN,F5H0Q1_HUMAN,F5GXW8_HUMAN,F5GXI8_HUMAN	UPI00017A7FAD	.	.	.	3/9	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR15146,hmmpanther:PTHR15146:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCTTCTT	.	5	BLCA
KCNK4	0	.	GRCh37	11	64067776	64067776	+	3'Flank	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000539216	.	10	7	3	8	8	0	KCNK4,downstream_gene_variant,,ENST00000538767,;TEX40,upstream_gene_variant,,ENST00000328404,;TEX40,upstream_gene_variant,,ENST00000539943,;KCNK4,downstream_gene_variant,,ENST00000539216,;KCNK4,downstream_gene_variant,,ENST00000422670,;KCNK4,downstream_gene_variant,,ENST00000394525,;Y_RNA,downstream_gene_variant,,ENST00000384297,;RP11-783K16.10,non_coding_transcript_exon_variant,,ENST00000539086,;KCNK4,downstream_gene_variant,,ENST00000539651,;KCNK4,downstream_gene_variant,,ENST00000541349,;TEX40,upstream_gene_variant,,ENST00000535981,;KCNK4,downstream_gene_variant,,ENST00000536690,;KCNK4,downstream_gene_variant,,ENST00000453423,;KCNK4,downstream_gene_variant,,ENST00000545838,;KCNK4,downstream_gene_variant,,ENST00000538846,;	G	ENSG00000182450	ENST00000539216	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	397	1	KCNK4	HGNC	6279	protein_coding	YES	CCDS8067.1	ENSP00000444948	KCNK4_HUMAN	F5GZ20_HUMAN	UPI0000042377	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGTCGTTTG	.	2	BLCA
CDC42BPG	0	.	GRCh37	11	64597049	64597049	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3861C>A	p.%3D	p.L1287L	ENST00000342711	30/37	14	9	5	15	15	0	CDC42BPG,synonymous_variant,p.%3D,ENST00000342711,;CDC42BPG,downstream_gene_variant,,ENST00000491280,;CDC42BPG,downstream_gene_variant,,ENST00000468512,;CDC42BPG,downstream_gene_variant,,ENST00000480767,;	T	ENSG00000171219	ENST00000342711	Transcript	synonymous_variant	3861	3861	1287	L	ctC/ctA	.	.	.	-1	CDC42BPG	HGNC	29829	protein_coding	YES	CCDS31601.1	ENSP00000345133	MRCKG_HUMAN	.	UPI000047C9E2	.	.	.	30/37	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50219,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF22,Pfam_domain:PF00780,SMART_domains:SM00036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCTGAGGCT	.	5	BLCA
MALAT1	0	.	GRCh37	11	65271095	65271095	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.5863G>C	.	.	ENST00000534336	1/1	35	26	9	51	51	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;MALAT1,downstream_gene_variant,,ENST00000508832,;	C	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	5863	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTAGAGAATGT	.	5	BLCA
SNX32	0	.	GRCh37	11	65617651	65617651	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283G>C	p.Glu95Gln	p.E95Q	ENST00000308342	4/13	60	50	9	80	80	0	SNX32,missense_variant,p.Glu95Gln,ENST00000308342,;CFL1,downstream_gene_variant,,ENST00000531407,;CFL1,downstream_gene_variant,,ENST00000308162,;CFL1,downstream_gene_variant,,ENST00000527344,;CFL1,downstream_gene_variant,,ENST00000524553,;CFL1,downstream_gene_variant,,ENST00000525451,;CFL1,intron_variant,,ENST00000527752,;SNX32,downstream_gene_variant,,ENST00000531795,;SNX32,non_coding_transcript_exon_variant,,ENST00000530101,;SNX32,non_coding_transcript_exon_variant,,ENST00000526972,;SNX32,non_coding_transcript_exon_variant,,ENST00000531503,;SNX32,non_coding_transcript_exon_variant,,ENST00000534387,;SNX32,non_coding_transcript_exon_variant,,ENST00000533236,;SNX32,non_coding_transcript_exon_variant,,ENST00000524729,;SNX32,non_coding_transcript_exon_variant,,ENST00000533298,;CFL1,downstream_gene_variant,,ENST00000530945,;	C	ENSG00000172803	ENST00000308342	Transcript	missense_variant	708	283	95	E/Q	Gag/Cag	.	.	.	1	SNX32	HGNC	26423	protein_coding	YES	CCDS8113.2	ENSP00000310620	SNX32_HUMAN	.	UPI000000DAEA	.	tolerated(0.07)	benign(0.076)	4/13	.	PROSITE_profiles:PS50195,hmmpanther:PTHR10555,hmmpanther:PTHR10555:SF137,Gene3D:3.30.1520.10,Pfam_domain:PF00787,PIRSF_domain:PIRSF036924,Superfamily_domains:SSF64268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTGAGGCT	.	5	BLCA
B3GNT1	0	.	GRCh37	11	66114591	66114591	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.426G>A	p.%3D	p.L142L	ENST00000311181	1/2	8	5	3	13	13	0	B3GNT1,synonymous_variant,p.%3D,ENST00000311181,;BRMS1,upstream_gene_variant,,ENST00000359957,;BRMS1,upstream_gene_variant,,ENST00000524699,;RP11-867G23.8,upstream_gene_variant,,ENST00000531602,;BRMS1,upstream_gene_variant,,ENST00000530756,;BRMS1,upstream_gene_variant,,ENST00000425825,;RP11-867G23.8,upstream_gene_variant,,ENST00000581155,;RP11-867G23.8,upstream_gene_variant,,ENST00000580881,;BRMS1,upstream_gene_variant,,ENST00000529544,;BRMS1,upstream_gene_variant,,ENST00000530238,;BRMS1,upstream_gene_variant,,ENST00000534617,;BRMS1,upstream_gene_variant,,ENST00000527375,;BRMS1,upstream_gene_variant,,ENST00000525127,;	T	ENSG00000174684	ENST00000311181	Transcript	synonymous_variant	573	426	142	L	ctG/ctA	.	.	.	-1	B3GNT1	HGNC	15685	protein_coding	YES	CCDS8136.1	ENSP00000309096	B3GN1_HUMAN	B4DGI0_HUMAN	UPI00000358A1	.	.	.	1/2	.	hmmpanther:PTHR12270:SF20,hmmpanther:PTHR12270,Pfam_domain:PF13896	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCAGCGC	.	2	BLCA
TPP1	0	.	GRCh37	11	6636537	6636537	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1290G>C	p.%3D	p.L430L	ENST00000299427	11/13	29	23	6	38	38	0	TPP1,synonymous_variant,p.%3D,ENST00000533371,;TPP1,synonymous_variant,p.%3D,ENST00000299427,;ILK,downstream_gene_variant,,ENST00000528995,;TAF10,upstream_gene_variant,,ENST00000299424,;TPP1,downstream_gene_variant,,ENST00000436873,;TPP1,downstream_gene_variant,,ENST00000528657,;ILK,downstream_gene_variant,,ENST00000420936,;ILK,downstream_gene_variant,,ENST00000537806,;ILK,downstream_gene_variant,,ENST00000396751,;ILK,downstream_gene_variant,,ENST00000299421,;RP11-732A19.9,upstream_gene_variant,,ENST00000545572,;TPP1,non_coding_transcript_exon_variant,,ENST00000524924,;TPP1,non_coding_transcript_exon_variant,,ENST00000524611,;TPP1,non_coding_transcript_exon_variant,,ENST00000532191,;TPP1,downstream_gene_variant,,ENST00000528807,;TPP1,downstream_gene_variant,,ENST00000534644,;TAF10,upstream_gene_variant,,ENST00000531760,;TPP1,downstream_gene_variant,,ENST00000530040,;TPP1,downstream_gene_variant,,ENST00000524903,;TPP1,downstream_gene_variant,,ENST00000524788,;TAF10,upstream_gene_variant,,ENST00000527248,;ILK,downstream_gene_variant,,ENST00000526318,;TPP1,downstream_gene_variant,,ENST00000528571,;ILK,downstream_gene_variant,,ENST00000527394,;ILK,downstream_gene_variant,,ENST00000527327,;TPP1,downstream_gene_variant,,ENST00000531754,;TPP1,downstream_gene_variant,,ENST00000528917,;TAF10,upstream_gene_variant,,ENST00000532344,;TPP1,downstream_gene_variant,,ENST00000428886,;ILK,downstream_gene_variant,,ENST00000532063,;TAF10,upstream_gene_variant,,ENST00000526743,;	G	ENSG00000166340	ENST00000299427	Transcript	synonymous_variant	1351	1290	430	L	ctG/ctC	.	.	.	-1	TPP1	HGNC	2073	protein_coding	YES	CCDS7770.1	ENSP00000299427	TPP1_HUMAN	E9PME9_HUMAN,D3DQU2_HUMAN	UPI0000001109	.	.	.	11/13	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF52743,Pfam_domain:PF00082,Gene3D:3.40.50.200,hmmpanther:PTHR14218,hmmpanther:PTHR14218:SF15,PROSITE_profiles:PS51695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCTCAGGAA	.	2	BLCA
ADRBK1	0	.	GRCh37	11	67049005	67049005	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.723C>G	p.Ile241Met	p.I241M	ENST00000308595	9/21	39	32	7	78	78	0	ADRBK1,missense_variant,p.Ile241Met,ENST00000526285,;ADRBK1,missense_variant,p.Ile241Met,ENST00000308595,;ADRBK1,non_coding_transcript_exon_variant,,ENST00000534651,;ADRBK1,non_coding_transcript_exon_variant,,ENST00000532099,;ADRBK1,intron_variant,,ENST00000529738,;ADRBK1,upstream_gene_variant,,ENST00000532611,;ADRBK1,upstream_gene_variant,,ENST00000527176,;ADRBK1,upstream_gene_variant,,ENST00000524899,;ADRBK1,downstream_gene_variant,,ENST00000530291,;ADRBK1,upstream_gene_variant,,ENST00000531390,;ADRBK1,non_coding_transcript_exon_variant,,ENST00000533077,;ADRBK1,non_coding_transcript_exon_variant,,ENST00000416281,;ADRBK1,upstream_gene_variant,,ENST00000526572,;ADRBK1,upstream_gene_variant,,ENST00000529815,;	G	ENSG00000173020	ENST00000308595	Transcript	missense_variant	1013	723	241	I/M	atC/atG	.	.	.	1	ADRBK1	HGNC	289	protein_coding	YES	CCDS8156.1	ENSP00000312262	ARBK1_HUMAN	.	UPI0000001C68	.	tolerated(0.11)	possibly_damaging(0.783)	9/21	.	Prints_domain:PR00717,Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:3.30.200.20,Pfam_domain:PF00069,hmmpanther:PTHR24355:SF22,hmmpanther:PTHR24355,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCATCATGCT	.	5	BLCA
CHKA	0	.	GRCh37	11	67836402	67836402	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.872C>A	p.Ser291Ter	p.S291*	ENST00000265689	7/12	37	29	8	39	39	0	CHKA,stop_gained,p.Ser273Ter,ENST00000356135,;CHKA,stop_gained,p.Ser291Ter,ENST00000265689,;CHKA,downstream_gene_variant,,ENST00000531341,;CHKA,splice_region_variant,,ENST00000528235,;CHKA,downstream_gene_variant,,ENST00000530730,;CHKA,splice_region_variant,,ENST00000533910,;CHKA,upstream_gene_variant,,ENST00000525155,;	T	ENSG00000110721	ENST00000265689	Transcript	stop_gained	899	872	291	S/*	tCa/tAa	.	.	.	-1	CHKA	HGNC	1937	protein_coding	YES	CCDS8178.1	ENSP00000265689	CHKA_HUMAN	E9PM06_HUMAN	UPI000013D662	.	.	.	7/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22603,hmmpanther:PTHR22603:SF21,Pfam_domain:PF01633,Gene3D:3.90.1200.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAATGATCTG	.	5	BLCA
C11orf24	0	.	GRCh37	11	68030116	68030116	+	Missense_Mutation	SNP	G	G	A	rs150492129	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347C>T	p.Ala116Val	p.A116V	ENST00000304271	4/4	23	17	6	38	38	0	C11orf24,missense_variant,p.Ala116Val,ENST00000304271,;C11orf24,intron_variant,,ENST00000533310,;C11orf24,downstream_gene_variant,,ENST00000527280,;C11orf24,non_coding_transcript_exon_variant,,ENST00000530166,;C11orf24,intron_variant,,ENST00000531745,;C11orf24,downstream_gene_variant,,ENST00000529590,;C11orf24,downstream_gene_variant,,ENST00000532534,;C11orf24,downstream_gene_variant,,ENST00000532969,;	A	ENSG00000171067	ENST00000304271	Transcript	missense_variant	750	347	116	A/V	gCg/gTg	rs150492129	.	.	-1	C11orf24	HGNC	1174	protein_coding	YES	CCDS8180.1	ENSP00000307264	CK024_HUMAN	E9PI63_HUMAN	UPI000006E42A	.	tolerated(0.32)	unknown(0)	4/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16021:SF9,hmmpanther:PTHR16021	A:0.0012	A:0.003	A:0	.	A:0	A:0	A:0.002	A:0.0018	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCCGCAGTC	byFrequency|byCluster|by1000G	5	BLCA
CTTN	0	.	GRCh37	11	70281184	70281184	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458G>C	p.Glu486Asp	p.E486D	ENST00000376561	17/19	77	58	18	107	107	0	CTTN,missense_variant,p.Glu486Asp,ENST00000376561,;CTTN,missense_variant,p.Glu523Asp,ENST00000301843,;CTTN,missense_variant,p.Glu486Asp,ENST00000346329,;CTTN,missense_variant,p.Glu180Asp,ENST00000529736,;CTTN,missense_variant,p.Glu207Asp,ENST00000538675,;CTTN,3_prime_UTR_variant,,ENST00000533931,;CTTN,3_prime_UTR_variant,,ENST00000393747,;	C	ENSG00000085733	ENST00000376561	Transcript	missense_variant	1629	1458	486	E/D	gaG/gaC	.	.	.	1	CTTN	HGNC	3338	protein_coding	YES	CCDS53676.1	ENSP00000365745	SRC8_HUMAN	E9PP90_HUMAN,E9PKG3_HUMAN,B4E358_HUMAN	UPI000006E3C2	.	tolerated(0.11)	probably_damaging(0.996)	17/19	.	PROSITE_profiles:PS50002,hmmpanther:PTHR10829:SF15,hmmpanther:PTHR10829,Pfam_domain:PF00018,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCGAGATGAT	.	5	BLCA
LRTOMT	0	.	GRCh37	11	71806017	71806017	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-92G>C	.	.	ENST00000435085	5/9	78	69	9	100	100	0	LRTOMT,synonymous_variant,p.%3D,ENST00000289488,;LRTOMT,synonymous_variant,p.%3D,ENST00000538478,;LRTOMT,synonymous_variant,p.%3D,ENST00000439209,;LRTOMT,synonymous_variant,p.%3D,ENST00000541614,;LRTOMT,synonymous_variant,p.%3D,ENST00000447974,;LRTOMT,synonymous_variant,p.%3D,ENST00000536917,;LRTOMT,synonymous_variant,p.%3D,ENST00000423494,;LRTOMT,synonymous_variant,p.%3D,ENST00000324866,;LRTOMT,5_prime_UTR_variant,,ENST00000539271,;LRTOMT,5_prime_UTR_variant,,ENST00000435085,;LRTOMT,5_prime_UTR_variant,,ENST00000307198,;LRTOMT,5_prime_UTR_variant,,ENST00000419228,;LRTOMT,5_prime_UTR_variant,,ENST00000539587,;LAMTOR1,intron_variant,,ENST00000545249,;LAMTOR1,intron_variant,,ENST00000535107,;LRTOMT,upstream_gene_variant,,ENST00000440313,;LAMTOR1,downstream_gene_variant,,ENST00000278671,;LRTOMT,downstream_gene_variant,,ENST00000538413,;LRTOMT,downstream_gene_variant,,ENST00000542846,;LAMTOR1,downstream_gene_variant,,ENST00000544594,;LAMTOR1,downstream_gene_variant,,ENST00000538404,;LAMTOR1,downstream_gene_variant,,ENST00000539797,;LRTOMT,synonymous_variant,p.%3D,ENST00000544409,;LRTOMT,synonymous_variant,p.%3D,ENST00000427369,;LRTOMT,3_prime_UTR_variant,,ENST00000535883,;LRTOMT,non_coding_transcript_exon_variant,,ENST00000412777,;LAMTOR1,downstream_gene_variant,,ENST00000535872,;LAMTOR1,downstream_gene_variant,,ENST00000541403,;	C	ENSG00000184154	ENST00000435085	Transcript	5_prime_UTR_variant	1001	.	.	.	.	.	.	.	1	LRTOMT	HGNC	25033	protein_coding	YES	CCDS44668.1	ENSP00000409789	TOMT_HUMAN	.	UPI00019150CB	.	.	.	5/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTGAGTGT	.	4	BLCA
PLEKHB1	0	.	GRCh37	11	73361616	73361616	+	Nonsense_Mutation	SNP	G	G	A	rs775089754	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.113G>A	p.Trp38Ter	p.W38*	ENST00000354190	3/8	15	11	4	26	26	0	PLEKHB1,stop_gained,p.Trp19Ter,ENST00000535582,;PLEKHB1,stop_gained,p.Trp26Ter,ENST00000539157,;PLEKHB1,stop_gained,p.Trp38Ter,ENST00000398492,;PLEKHB1,stop_gained,p.Trp38Ter,ENST00000354190,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000535129,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000538227,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000546251,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000543524,;PLEKHB1,stop_gained,p.Trp26Ter,ENST00000540431,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000398494,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000545798,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000227214,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000542389,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000541597,;PLEKHB1,stop_gained,p.Trp19Ter,ENST00000536527,;PLEKHB1,intron_variant,,ENST00000543085,;PLEKHB1,non_coding_transcript_exon_variant,,ENST00000544532,;PLEKHB1,non_coding_transcript_exon_variant,,ENST00000541760,;PLEKHB1,upstream_gene_variant,,ENST00000540157,;PLEKHB1,upstream_gene_variant,,ENST00000426191,;	A	ENSG00000021300	ENST00000354190	Transcript	stop_gained	544	113	38	W/*	tGg/tAg	rs775089754	.	.	1	PLEKHB1	HGNC	19079	protein_coding	YES	CCDS44672.1	ENSP00000346127	PKHB1_HUMAN	F5H190_HUMAN,F5GY87_HUMAN	UPI000006F426	.	.	.	3/8	.	PROSITE_profiles:PS50003,hmmpanther:PTHR14309:SF7,hmmpanther:PTHR14309,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCTGGAAGC	byCluster	5	BLCA
C2CD3	0	.	GRCh37	11	73748616	73748616	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5788C>T	p.Leu1930Phe	p.L1930F	ENST00000313663	30/31	99	83	15	126	126	0	C2CD3,missense_variant,p.Leu738Phe,ENST00000414160,;C2CD3,missense_variant,p.Leu1930Phe,ENST00000313663,;C2CD3,missense_variant,p.Leu1930Phe,ENST00000334126,;C2CD3,missense_variant,p.Leu139Phe,ENST00000538361,;C2CD3,non_coding_transcript_exon_variant,,ENST00000540452,;C2CD3,non_coding_transcript_exon_variant,,ENST00000538625,;C2CD3,upstream_gene_variant,,ENST00000542452,;C2CD3,synonymous_variant,p.%3D,ENST00000442398,;	A	ENSG00000168014	ENST00000313663	Transcript	missense_variant	6015	5788	1930	L/F	Ctt/Ttt	.	.	.	-1	C2CD3	HGNC	24564	protein_coding	YES	CCDS31636.1	ENSP00000323339	C2CD3_HUMAN	.	UPI0000D62650	.	tolerated(0.63)	benign(0.121)	30/31	.	hmmpanther:PTHR21254,hmmpanther:PTHR21254:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCAAGATGGT	.	4	BLCA
PGM2L1	0	.	GRCh37	11	74058370	74058370	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762G>A	p.%3D	p.S254S	ENST00000298198	7/14	39	31	7	61	61	0	PGM2L1,synonymous_variant,p.%3D,ENST00000298198,;	T	ENSG00000165434	ENST00000298198	Transcript	synonymous_variant	1074	762	254	S	tcG/tcA	.	.	.	-1	PGM2L1	HGNC	20898	protein_coding	YES	CCDS8231.1	ENSP00000298198	PGM2L_HUMAN	.	UPI0000072053	.	.	.	7/14	.	Superfamily_domains:SSF53738,Pfam_domain:PF02879,hmmpanther:PTHR22573,hmmpanther:PTHR22573:SF42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCGAGTT	.	5	BLCA
ARRB1	0	.	GRCh37	11	74983986	74983986	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.951C>G	p.Ile317Met	p.I317M	ENST00000420843	12/16	25	19	6	41	41	0	ARRB1,missense_variant,p.Ile142Met,ENST00000532447,;ARRB1,missense_variant,p.Ile317Met,ENST00000360025,;ARRB1,missense_variant,p.Ile317Met,ENST00000420843,;ARRB1,missense_variant,p.Ile317Met,ENST00000393505,;ARRB1,downstream_gene_variant,,ENST00000532525,;ARRB1,non_coding_transcript_exon_variant,,ENST00000531012,;ARRB1,non_coding_transcript_exon_variant,,ENST00000529741,;	C	ENSG00000137486	ENST00000420843	Transcript	missense_variant	1049	951	317	I/M	atC/atG	.	.	.	-1	ARRB1	HGNC	711	protein_coding	YES	CCDS44684.1	ENSP00000409581	ARRB1_HUMAN	.	UPI0000126076	.	tolerated(0.07)	possibly_damaging(0.849)	12/16	.	hmmpanther:PTHR11792:SF22,hmmpanther:PTHR11792,Pfam_domain:PF02752,Gene3D:1g4mB02,SMART_domains:SM01017,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAATGATCCC	.	5	BLCA
GDPD5	0	.	GRCh37	11	75160959	75160959	+	Missense_Mutation	SNP	C	C	T	rs553455165	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>A	p.Glu149Lys	p.E149K	ENST00000336898	7/17	27	21	5	63	63	0	GDPD5,missense_variant,p.Glu149Lys,ENST00000336898,;GDPD5,missense_variant,p.Glu11Lys,ENST00000526177,;GDPD5,missense_variant,p.Glu149Lys,ENST00000529721,;GDPD5,5_prime_UTR_variant,,ENST00000533805,;GDPD5,3_prime_UTR_variant,,ENST00000443276,;GDPD5,intron_variant,,ENST00000533784,;GDPD5,intron_variant,,ENST00000376282,;GDPD5,non_coding_transcript_exon_variant,,ENST00000533911,;GDPD5,intron_variant,,ENST00000527322,;GDPD5,3_prime_UTR_variant,,ENST00000527820,;	T	ENSG00000158555	ENST00000336898	Transcript	missense_variant	1283	445	149	E/K	Gag/Aag	rs553455165,COSM3376032	.	.	-1	GDPD5	HGNC	28804	protein_coding	YES	CCDS8238.1	ENSP00000337972	GDPD5_HUMAN	E9PJU5_HUMAN	UPI000013FB97	.	tolerated(0.08)	probably_damaging(0.999)	7/17	.	hmmpanther:PTHR23344:SF6,hmmpanther:PTHR23344	G:0.0002	G:0	G:0.0014	.	G:0	G:0	G:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCGTCCT	by1000G	5	BLCA
PPFIBP2	0	.	GRCh37	11	7670063	7670063	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1830G>A	p.%3D	p.K610K	ENST00000299492	19/24	93	82	11	146	146	0	PPFIBP2,synonymous_variant,p.%3D,ENST00000528883,;PPFIBP2,synonymous_variant,p.%3D,ENST00000530181,;PPFIBP2,synonymous_variant,p.%3D,ENST00000299492,;PPFIBP2,synonymous_variant,p.%3D,ENST00000533792,;PPFIBP2,upstream_gene_variant,,ENST00000534552,;PPFIBP2,non_coding_transcript_exon_variant,,ENST00000530582,;PPFIBP2,non_coding_transcript_exon_variant,,ENST00000524495,;PPFIBP2,intron_variant,,ENST00000532926,;PPFIBP2,intron_variant,,ENST00000529021,;PPFIBP2,non_coding_transcript_exon_variant,,ENST00000532112,;PPFIBP2,upstream_gene_variant,,ENST00000529664,;PPFIBP2,upstream_gene_variant,,ENST00000528929,;	A	ENSG00000166387	ENST00000299492	Transcript	synonymous_variant	2218	1830	610	K	aaG/aaA	.	.	.	1	PPFIBP2	HGNC	9250	protein_coding	YES	CCDS31419.1	ENSP00000299492	LIPB2_HUMAN	E9PP16_HUMAN,E9PMN3_HUMAN,E9PMH3_HUMAN,E9PK17_HUMAN,E9PJA0_HUMAN,E9PIK8_HUMAN,B3KM46_HUMAN	UPI00001C1EF8	.	.	.	19/24	.	Superfamily_domains:SSF47769,SMART_domains:SM00454,Gene3D:1.10.150.50,Pfam_domain:PF00536,hmmpanther:PTHR12587:SF18,hmmpanther:PTHR12587,PROSITE_profiles:PS50105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAAGCT	.	4	BLCA
PAK1	0	.	GRCh37	11	77054919	77054919	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.943G>A	p.Glu315Lys	p.E315K	ENST00000278568	10/16	140	114	26	171	170	1	PAK1,missense_variant,p.Glu315Lys,ENST00000278568,;PAK1,missense_variant,p.Glu315Lys,ENST00000356341,;PAK1,missense_variant,p.Glu315Lys,ENST00000530617,;PAK1,missense_variant,p.Glu37Lys,ENST00000533285,;PAK1,missense_variant,p.Glu217Lys,ENST00000528203,;PAK1,non_coding_transcript_exon_variant,,ENST00000525542,;PAK1,3_prime_UTR_variant,,ENST00000527535,;PAK1,non_coding_transcript_exon_variant,,ENST00000532991,;PAK1,non_coding_transcript_exon_variant,,ENST00000532711,;PAK1,intron_variant,,ENST00000527457,;	T	ENSG00000149269	ENST00000278568	Transcript	missense_variant	1473	943	315	E/K	Gag/Aag	.	.	.	-1	PAK1	HGNC	8590	protein_coding	YES	CCDS44687.1	ENSP00000278568	PAK1_HUMAN	E9PRP6_HUMAN,E9PQW5_HUMAN,E9PMP2_HUMAN,E9PM17_HUMAN,E9PKH9_HUMAN,E9PJF8_HUMAN	UPI000013DB7F	.	deleterious(0)	probably_damaging(0.999)	10/16	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF250,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L317L|c.951G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCATTAA	.	5	BLCA
NLRP10	0	.	GRCh37	11	7981506	7981506	+	Missense_Mutation	SNP	C	C	G	rs144039243	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1653G>C	p.Gln551His	p.Q551H	ENST00000328600	2/2	62	47	14	98	98	0	NLRP10,missense_variant,p.Gln551His,ENST00000328600,;NLRP10,downstream_gene_variant,,ENST00000526590,;	G	ENSG00000182261	ENST00000328600	Transcript	missense_variant	1815	1653	551	Q/H	caG/caC	rs144039243,COSM3453813	.	.	-1	NLRP10	HGNC	21464	protein_coding	YES	CCDS7784.1	ENSP00000327763	NAL10_HUMAN	E9PPY0_HUMAN	UPI0000167F6C	.	deleterious(0.01)	possibly_damaging(0.784)	2/2	.	hmmpanther:PTHR24106:SF103,hmmpanther:PTHR24106	.	.	.	.	.	.	.	G:0	G:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATCTGTTC	.	5	BLCA
POLR2L	0	.	GRCh37	11	840378	840378	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198G>A	p.%3D	p.E66E	ENST00000322028	2/2	102	73	28	140	139	0	POLR2L,synonymous_variant,p.%3D,ENST00000322028,;TSPAN4,upstream_gene_variant,,ENST00000397396,;CD151,downstream_gene_variant,,ENST00000528011,;CD151,downstream_gene_variant,,ENST00000526439,;CD151,downstream_gene_variant,,ENST00000525333,;CD151,downstream_gene_variant,,ENST00000527341,;CD151,downstream_gene_variant,,ENST00000524748,;TSPAN4,upstream_gene_variant,,ENST00000525201,;CD151,downstream_gene_variant,,ENST00000526693,;CD151,downstream_gene_variant,,ENST00000528867,;TSPAN4,upstream_gene_variant,,ENST00000409543,;TSPAN4,upstream_gene_variant,,ENST00000397411,;CD151,downstream_gene_variant,,ENST00000525718,;CD151,downstream_gene_variant,,ENST00000397420,;TSPAN4,upstream_gene_variant,,ENST00000525334,;CD151,downstream_gene_variant,,ENST00000322008,;TSPAN4,upstream_gene_variant,,ENST00000397397,;TSPAN4,upstream_gene_variant,,ENST00000397404,;TSPAN4,upstream_gene_variant,,ENST00000397406,;CD151,downstream_gene_variant,,ENST00000529810,;TSPAN4,upstream_gene_variant,,ENST00000397408,;CD151,downstream_gene_variant,,ENST00000397421,;CD151,downstream_gene_variant,,ENST00000530320,;TSPAN4,upstream_gene_variant,,ENST00000530404,;CD151,downstream_gene_variant,,ENST00000525181,;POLR2L,synonymous_variant,p.%3D,ENST00000534030,;CD151,downstream_gene_variant,,ENST00000530155,;CD151,downstream_gene_variant,,ENST00000530726,;CD151,downstream_gene_variant,,ENST00000532075,;CD151,downstream_gene_variant,,ENST00000531999,;CD151,downstream_gene_variant,,ENST00000532045,;CD151,downstream_gene_variant,,ENST00000526661,;CD151,downstream_gene_variant,,ENST00000525868,;	T	ENSG00000177700	ENST00000322028	Transcript	synonymous_variant	235	198	66	E	gaG/gaA	.	.	.	-1	POLR2L	HGNC	9199	protein_coding	YES	CCDS7720.1	ENSP00000324124	RPAB5_HUMAN	.	UPI0000025AD1	.	.	.	2/2	.	hmmpanther:PTHR23413,hmmpanther:PTHR23413:SF8,Gene3D:1.10.10.60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTTCTCCAG	.	5	BLCA
CCDC83	0	.	GRCh37	11	85593586	85593586	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.211C>T	p.His71Tyr	p.H71Y	ENST00000280245	4/12	63	46	17	95	94	1	CCDC83,missense_variant,p.His28Tyr,ENST00000376067,;CCDC83,missense_variant,p.His33Tyr,ENST00000526729,;CCDC83,missense_variant,p.His71Tyr,ENST00000280245,;CCDC83,missense_variant,p.His71Tyr,ENST00000342404,;CCDC83,intron_variant,,ENST00000529676,;	T	ENSG00000150676	ENST00000280245	Transcript	missense_variant	723	211	71	H/Y	Cac/Tac	.	.	.	1	CCDC83	HGNC	28535	protein_coding	YES	CCDS8271.1	ENSP00000280245	CCD83_HUMAN	.	UPI00001C098D	.	deleterious(0.04)	probably_damaging(0.984)	4/12	.	hmmpanther:PTHR21468,hmmpanther:PTHR21468:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTGGCACATA	.	3	BLCA
CCDC83	0	.	GRCh37	11	85593598	85593598	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223C>T	p.%3D	p.L75L	ENST00000280245	4/12	67	47	20	94	94	0	CCDC83,synonymous_variant,p.%3D,ENST00000376067,;CCDC83,synonymous_variant,p.%3D,ENST00000526729,;CCDC83,synonymous_variant,p.%3D,ENST00000280245,;CCDC83,synonymous_variant,p.%3D,ENST00000342404,;CCDC83,intron_variant,,ENST00000529676,;	T	ENSG00000150676	ENST00000280245	Transcript	synonymous_variant	735	223	75	L	Cta/Tta	.	.	.	1	CCDC83	HGNC	28535	protein_coding	YES	CCDS8271.1	ENSP00000280245	CCD83_HUMAN	.	UPI00001C098D	.	.	.	4/12	.	hmmpanther:PTHR21468,hmmpanther:PTHR21468:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCATCTACTA	.	3	BLCA
GRM5	0	.	GRCh37	11	88300897	88300897	+	Missense_Mutation	SNP	C	C	A	rs758198713	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1954G>T	p.Gly652Cys	p.G652C	ENST00000418177	8/10	27	17	9	30	30	0	GRM5,missense_variant,p.Gly652Cys,ENST00000305447,;GRM5,missense_variant,p.Gly652Cys,ENST00000393297,;GRM5,missense_variant,p.Gly652Cys,ENST00000305432,;GRM5,missense_variant,p.Gly652Cys,ENST00000418177,;GRM5,missense_variant,p.Gly652Cys,ENST00000455756,;	A	ENSG00000168959	ENST00000418177	Transcript	missense_variant	2322	1954	652	G/C	Ggt/Tgt	rs758198713	.	.	-1	GRM5	HGNC	4597	protein_coding	YES	CCDS44694.1	ENSP00000402912	GRM5_HUMAN	.	UPI000012F081	.	deleterious(0.04)	probably_damaging(1)	8/10	.	PROSITE_profiles:PS50259,hmmpanther:PTHR24060:SF30,hmmpanther:PTHR24060,Pfam_domain:PF00003,Prints_domain:PR00593,Prints_domain:PR00248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGACCAATGC	byFrequency	5	BLCA
CHID1	0	.	GRCh37	11	902253	902253	+	Silent	SNP	C	C	T	rs558261531	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414G>A	p.%3D	p.L138L	ENST00000454838	4/13	32	25	7	35	35	0	CHID1,synonymous_variant,p.%3D,ENST00000530939,;CHID1,synonymous_variant,p.%3D,ENST00000323578,;CHID1,synonymous_variant,p.%3D,ENST00000528581,;CHID1,synonymous_variant,p.%3D,ENST00000449825,;CHID1,synonymous_variant,p.%3D,ENST00000323541,;CHID1,synonymous_variant,p.%3D,ENST00000531859,;CHID1,synonymous_variant,p.%3D,ENST00000533056,;CHID1,synonymous_variant,p.%3D,ENST00000533059,;CHID1,synonymous_variant,p.%3D,ENST00000336845,;CHID1,synonymous_variant,p.%3D,ENST00000436108,;CHID1,synonymous_variant,p.%3D,ENST00000454838,;CHID1,synonymous_variant,p.%3D,ENST00000429789,;CHID1,downstream_gene_variant,,ENST00000528154,;CHID1,downstream_gene_variant,,ENST00000525840,;CHID1,downstream_gene_variant,,ENST00000525225,;CHID1,non_coding_transcript_exon_variant,,ENST00000526714,;CHID1,non_coding_transcript_exon_variant,,ENST00000524832,;CHID1,synonymous_variant,p.%3D,ENST00000534254,;CHID1,3_prime_UTR_variant,,ENST00000528426,;	T	ENSG00000177830	ENST00000454838	Transcript	synonymous_variant	521	414	138	L	ctG/ctA	rs558261531	.	.	-1	CHID1	HGNC	28474	protein_coding	YES	CCDS44511.1	ENSP00000398722	CHID1_HUMAN	H0YDL6_HUMAN,E9PJL0_HUMAN,E9PJ91_HUMAN	UPI000003B0AE	.	.	.	4/13	.	hmmpanther:PTHR11177,Gene3D:3.20.20.80,Pfam_domain:PF00704,SMART_domains:SM00636,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCAGCTG	.	5	BLCA
FAT3	0	.	GRCh37	11	92523307	92523307	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4534G>C	p.Asp1512His	p.D1512H	ENST00000298047	7/27	85	63	22	142	142	0	FAT3,missense_variant,p.Asp1512His,ENST00000298047,;FAT3,missense_variant,p.Asp1512His,ENST00000409404,;FAT3,missense_variant,p.Asp1362His,ENST00000525166,;	C	ENSG00000165323	ENST00000298047	Transcript	missense_variant	4551	4534	1512	D/H	Gac/Cac	.	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	benign(0.05)	7/27	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATTGACCCT	.	5	BLCA
IPO7	0	.	GRCh37	11	9450095	9450095	+	Missense_Mutation	SNP	C	C	G	rs751396800	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1344C>G	p.Ile448Met	p.I448M	ENST00000379719	13/25	20	17	3	33	33	0	IPO7,missense_variant,p.Ile448Met,ENST00000379719,;SNORA23,upstream_gene_variant,,ENST00000365128,;CTD-2371O3.2,downstream_gene_variant,,ENST00000531111,;IPO7,downstream_gene_variant,,ENST00000530037,;	G	ENSG00000205339	ENST00000379719	Transcript	missense_variant	1486	1344	448	I/M	atC/atG	rs751396800	.	.	1	IPO7	HGNC	9852	protein_coding	YES	CCDS31425.1	ENSP00000369042	IPO7_HUMAN	E9PLB2_HUMAN,B3KQG6_HUMAN,B3KNG9_HUMAN	UPI0000072C06	.	tolerated(0.5)	benign(0.043)	13/25	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR10997,hmmpanther:PTHR10997:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGATCTATAA	.	2	BLCA
WEE1	0	.	GRCh37	11	9597510	9597510	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652G>A	p.Glu218Lys	p.E218K	ENST00000450114	2/11	83	70	12	85	85	0	WEE1,missense_variant,p.Glu4Lys,ENST00000299613,;WEE1,missense_variant,p.Glu218Lys,ENST00000450114,;WEE1,upstream_gene_variant,,ENST00000524612,;snoU13,upstream_gene_variant,,ENST00000458785,;RN7SL56P,upstream_gene_variant,,ENST00000470034,;WEE1,non_coding_transcript_exon_variant,,ENST00000524549,;	A	ENSG00000166483	ENST00000450114	Transcript	missense_variant	905	652	218	E/K	Gaa/Aaa	.	.	.	1	WEE1	HGNC	12761	protein_coding	YES	CCDS7800.1	ENSP00000402084	WEE1_HUMAN	E9PRU3_HUMAN	UPI0000138EF4	.	tolerated(0.77)	benign(0.218)	2/11	.	hmmpanther:PTHR11042:SF72,hmmpanther:PTHR11042,PIRSF_domain:PIRSF037281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATACAGAAAAA	.	5	BLCA
ANKS1B	0	.	GRCh37	12	100377964	100377964	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52C>T	p.%3D	p.L18L	ENST00000547776	1/26	24	19	5	47	47	0	ANKS1B,synonymous_variant,p.%3D,ENST00000329257,;ANKS1B,synonymous_variant,p.%3D,ENST00000549866,;ANKS1B,synonymous_variant,p.%3D,ENST00000547776,;ANKS1B,5_prime_UTR_variant,,ENST00000547010,;	A	ENSG00000185046	ENST00000547776	Transcript	synonymous_variant	52	52	18	L	Ctg/Ttg	.	.	.	-1	ANKS1B	HGNC	24600	protein_coding	YES	CCDS55872.1	ENSP00000449629	ANS1B_HUMAN	R4GN73_HUMAN,R4GN70_HUMAN,R4GN07_HUMAN	UPI00003FE521	.	.	.	1/26	.	hmmpanther:PTHR24174,hmmpanther:PTHR24174:SF3,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCAGAGCCA	.	5	BLCA
PAH	0	.	GRCh37	12	103306618	103306618	+	Missense_Mutation	SNP	G	G	A	rs62642938	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.119C>T	p.Ser40Leu	p.S40L	ENST00000553106	2/13	70	54	16	128	128	0	PAH,missense_variant,p.Ser40Leu,ENST00000551337,;PAH,missense_variant,p.Ser40Leu,ENST00000553106,;PAH,missense_variant,p.Ser40Leu,ENST00000546844,;PAH,missense_variant,p.Ser35Leu,ENST00000307000,;PAH,non_coding_transcript_exon_variant,,ENST00000551988,;PAH,non_coding_transcript_exon_variant,,ENST00000548677,;PAH,non_coding_transcript_exon_variant,,ENST00000548928,;PAH,downstream_gene_variant,,ENST00000546708,;PAH,downstream_gene_variant,,ENST00000547319,;PAH,non_coding_transcript_exon_variant,,ENST00000549111,;PAH,non_coding_transcript_exon_variant,,ENST00000550978,;	A	ENSG00000171759	ENST00000553106	Transcript	missense_variant	592	119	40	S/L	tCa/tTa	CM961063,rs62642938,PAH_c.119C>T	.	.	-1	PAH	HGNC	8582	protein_coding	YES	CCDS9092.1	ENSP00000448059	PH4H_HUMAN	F8W1D4_HUMAN,F8W0A0_HUMAN	UPI00001318A0	.	deleterious(0)	benign(0.096)	2/13	.	Superfamily_domains:SSF55021,PIRSF_domain:PIRSF000336,Pfam_domain:PF01842,TIGRFAM_domain:TIGR01268,Gene3D:1.10.800.10,hmmpanther:PTHR11473,PROSITE_profiles:PS51671	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGTGAGAAG	.	5	BLCA
ACACB	0	.	GRCh37	12	109677668	109677668	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4696G>A	p.Glu1566Lys	p.E1566K	ENST00000338432	35/53	24	19	5	36	36	0	ACACB,missense_variant,p.Glu1496Lys,ENST00000377854,;ACACB,missense_variant,p.Glu1566Lys,ENST00000338432,;ACACB,missense_variant,p.Glu1566Lys,ENST00000377848,;ACACB,missense_variant,p.Glu232Lys,ENST00000543201,;ACACB,missense_variant,p.Glu233Lys,ENST00000538526,;ACACB,upstream_gene_variant,,ENST00000537347,;ACACB,upstream_gene_variant,,ENST00000534852,;ACACB,downstream_gene_variant,,ENST00000542524,;	A	ENSG00000076555	ENST00000338432	Transcript	missense_variant	4815	4696	1566	E/K	Gag/Aag	.	.	.	1	ACACB	HGNC	85	protein_coding	YES	CCDS31898.1	ENSP00000341044	ACACB_HUMAN	F5H5C3_HUMAN,E9PEW7_HUMAN	UPI0000DBEEFB	.	deleterious(0)	probably_damaging(1)	35/53	.	hmmpanther:PTHR18866,hmmpanther:PTHR18866:SF84,Pfam_domain:PF08326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGGTGAGCGG	.	4	BLCA
FAM216A	0	.	GRCh37	12	110922933	110922933	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235G>A	p.Glu79Lys	p.E79K	ENST00000377673	3/7	71	57	13	82	82	0	FAM216A,missense_variant,p.Glu79Lys,ENST00000377673,;FAM216A,non_coding_transcript_exon_variant,,ENST00000548869,;FAM216A,non_coding_transcript_exon_variant,,ENST00000538285,;FAM216A,intron_variant,,ENST00000548449,;FAM216A,upstream_gene_variant,,ENST00000546396,;FAM216A,upstream_gene_variant,,ENST00000547539,;	A	ENSG00000204856	ENST00000377673	Transcript	missense_variant	747	235	79	E/K	Gag/Aag	.	.	.	1	FAM216A	HGNC	30180	protein_coding	YES	CCDS31899.1	ENSP00000366901	F216A_HUMAN	.	UPI0000073200	.	deleterious_low_confidence(0.04)	possibly_damaging(0.716)	3/7	.	Pfam_domain:PF15107,hmmpanther:PTHR16476:SF1,hmmpanther:PTHR16476	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCAAGAGTTA	.	5	BLCA
RBM19	0	.	GRCh37	12	114384248	114384248	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440C>G	p.Ile480Met	p.I480M	ENST00000545145	12/25	20	16	4	35	35	0	RBM19,missense_variant,p.Ile480Met,ENST00000545145,;RBM19,missense_variant,p.Ile480Met,ENST00000392561,;RBM19,missense_variant,p.Ile480Met,ENST00000261741,;	C	ENSG00000122965	ENST00000545145	Transcript	missense_variant	1519	1440	480	I/M	atC/atG	.	.	.	-1	RBM19	HGNC	29098	protein_coding	YES	CCDS9172.1	ENSP00000442053	RBM19_HUMAN	.	UPI000013D1EC	.	tolerated(0.09)	benign(0.045)	12/25	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012:SF312,hmmpanther:PTHR24012,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTGATGGT	.	5	BLCA
ETV6	0	.	GRCh37	12	12037408	12037408	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039C>G	p.Gln347Glu	p.Q347E	ENST00000396373	6/8	136	110	25	199	198	0	ETV6,missense_variant,p.Gln347Glu,ENST00000396373,;ETV6,upstream_gene_variant,,ENST00000266427,;	G	ENSG00000139083	ENST00000396373	Transcript	missense_variant	1313	1039	347	Q/E	Cag/Gag	COSM416006	.	.	1	ETV6	HGNC	3495	protein_coding	YES	CCDS8643.1	ENSP00000379658	ETV6_HUMAN	Q9UME7_HUMAN	UPI000000DA45	.	deleterious(0)	probably_damaging(0.99)	6/8	.	Prints_domain:PR00454,Superfamily_domains:SSF46785,SMART_domains:SM00413,Gene3D:1.10.10.10,Pfam_domain:PF00178,hmmpanther:PTHR11849:SF19,hmmpanther:PTHR11849,PROSITE_profiles:PS50061	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTATCAGTTG	.	5	BLCA
ERC1	0	.	GRCh37	12	1219412	1219412	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216C>T	p.Gln406Ter	p.Q406*	ENST00000397203	5/19	35	30	4	62	62	0	ERC1,stop_gained,p.Gln406Ter,ENST00000546231,;ERC1,stop_gained,p.Gln255Ter,ENST00000592048,;ERC1,stop_gained,p.Gln406Ter,ENST00000360905,;ERC1,stop_gained,p.Gln406Ter,ENST00000589028,;ERC1,stop_gained,p.Gln406Ter,ENST00000397203,;ERC1,stop_gained,p.Gln406Ter,ENST00000543086,;ERC1,stop_gained,p.Gln406Ter,ENST00000355446,;ERC1,non_coding_transcript_exon_variant,,ENST00000536573,;ERC1,stop_gained,p.Gln406Ter,ENST00000542302,;ERC1,stop_gained,p.Gln406Ter,ENST00000440394,;ERC1,stop_gained,p.Gln406Ter,ENST00000347735,;ERC1,non_coding_transcript_exon_variant,,ENST00000539007,;ERC1,non_coding_transcript_exon_variant,,ENST00000538971,;ERC1,intron_variant,,ENST00000545948,;	T	ENSG00000082805	ENST00000397203	Transcript	stop_gained	1622	1216	406	Q/*	Cag/Tag	.	.	.	1	ERC1	HGNC	17072	protein_coding	YES	CCDS8508.1	ENSP00000380386	RB6I2_HUMAN	K7EKH8_HUMAN,K7EIZ7_HUMAN	UPI000007479C	.	.	.	5/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18861,hmmpanther:PTHR18861:SF1,Pfam_domain:PF10174	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAATTCAGATG	.	4	BLCA
TMEM120B	0	.	GRCh37	12	122181532	122181532	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.70-3C>T	.	.	ENST00000449592	.	44	31	13	70	70	0	TMEM120B,stop_gained,p.Gln2Ter,ENST00000541467,;TMEM120B,splice_region_variant,,ENST00000449592,;TMEM120B,splice_region_variant,,ENST00000342607,;	T	ENSG00000188735	ENST00000449592	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	TMEM120B	HGNC	32008	protein_coding	YES	CCDS41852.1	ENSP00000404991	T120B_HUMAN	.	UPI0000160852	.	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAGGAG	.	4	BLCA
LRRC43	0	.	GRCh37	12	122669239	122669239	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324G>A	p.%3D	p.L108L	ENST00000339777	2/12	19	13	6	28	28	0	LRRC43,synonymous_variant,p.%3D,ENST00000339777,;LRRC43,5_prime_UTR_variant,,ENST00000425921,;LRRC43,5_prime_UTR_variant,,ENST00000537729,;LRRC43,non_coding_transcript_exon_variant,,ENST00000541498,;LRRC43,non_coding_transcript_exon_variant,,ENST00000538800,;LRRC43,non_coding_transcript_exon_variant,,ENST00000537113,;	A	ENSG00000158113	ENST00000339777	Transcript	synonymous_variant	352	324	108	L	ctG/ctA	.	.	.	1	LRRC43	HGNC	28562	protein_coding	YES	CCDS45001.1	ENSP00000344233	LRC43_HUMAN	F5H0N3_HUMAN	UPI00015347BE	.	.	.	2/12	.	hmmpanther:PTHR10588,hmmpanther:PTHR10588:SF224	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTGAGAGA	.	5	BLCA
CLIP1	0	.	GRCh37	12	122825761	122825761	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1990G>C	p.Glu664Gln	p.E664Q	ENST00000540338	10/25	104	87	17	164	164	0	CLIP1,missense_variant,p.Glu618Gln,ENST00000537178,;CLIP1,missense_variant,p.Glu653Gln,ENST00000302528,;CLIP1,missense_variant,p.Glu618Gln,ENST00000361654,;CLIP1,missense_variant,p.Glu354Gln,ENST00000545889,;CLIP1,missense_variant,p.Glu653Gln,ENST00000358808,;CLIP1,missense_variant,p.Glu587Gln,ENST00000540304,;CLIP1,missense_variant,p.Glu664Gln,ENST00000540338,;CLIP1,non_coding_transcript_exon_variant,,ENST00000541410,;CLIP1,non_coding_transcript_exon_variant,,ENST00000514271,;	G	ENSG00000130779	ENST00000540338	Transcript	missense_variant	2032	1990	664	E/Q	Gag/Cag	.	.	.	-1	CLIP1	HGNC	10461	protein_coding	YES	CCDS58285.1	ENSP00000439093	CLIP1_HUMAN	F5H367_HUMAN,F5H270_HUMAN	UPI0000E00D4E	.	tolerated(0.06)	probably_damaging(0.989)	10/25	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18916,hmmpanther:PTHR18916:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTCTCTATTT	.	3	BLCA
CLIP1	0	.	GRCh37	12	122825795	122825795	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1956G>C	p.Glu652Asp	p.E652D	ENST00000540338	10/25	100	85	15	148	148	0	CLIP1,missense_variant,p.Glu606Asp,ENST00000537178,;CLIP1,missense_variant,p.Glu641Asp,ENST00000302528,;CLIP1,missense_variant,p.Glu606Asp,ENST00000361654,;CLIP1,missense_variant,p.Glu342Asp,ENST00000545889,;CLIP1,missense_variant,p.Glu641Asp,ENST00000358808,;CLIP1,missense_variant,p.Glu575Asp,ENST00000540304,;CLIP1,missense_variant,p.Glu652Asp,ENST00000540338,;CLIP1,non_coding_transcript_exon_variant,,ENST00000541410,;CLIP1,non_coding_transcript_exon_variant,,ENST00000514271,;	G	ENSG00000130779	ENST00000540338	Transcript	missense_variant	1998	1956	652	E/D	gaG/gaC	.	.	.	-1	CLIP1	HGNC	10461	protein_coding	YES	CCDS58285.1	ENSP00000439093	CLIP1_HUMAN	F5H367_HUMAN,F5H270_HUMAN	UPI0000E00D4E	.	tolerated(0.14)	benign(0.003)	10/25	.	hmmpanther:PTHR18916,hmmpanther:PTHR18916:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCGTCTCTGT	.	3	BLCA
CLIP1	0	.	GRCh37	12	122826046	122826046	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1705G>C	p.Glu569Gln	p.E569Q	ENST00000540338	10/25	255	199	55	347	346	0	CLIP1,missense_variant,p.Glu523Gln,ENST00000537178,;CLIP1,missense_variant,p.Glu558Gln,ENST00000302528,;CLIP1,missense_variant,p.Glu523Gln,ENST00000361654,;CLIP1,missense_variant,p.Glu259Gln,ENST00000545889,;CLIP1,missense_variant,p.Glu558Gln,ENST00000358808,;CLIP1,missense_variant,p.Glu492Gln,ENST00000540304,;CLIP1,missense_variant,p.Glu569Gln,ENST00000540338,;CLIP1,non_coding_transcript_exon_variant,,ENST00000541410,;CLIP1,non_coding_transcript_exon_variant,,ENST00000514271,;	G	ENSG00000130779	ENST00000540338	Transcript	missense_variant	1747	1705	569	E/Q	Gaa/Caa	COSM936218	.	.	-1	CLIP1	HGNC	10461	protein_coding	YES	CCDS58285.1	ENSP00000439093	CLIP1_HUMAN	F5H367_HUMAN,F5H270_HUMAN	UPI0000E00D4E	.	tolerated(0.09)	probably_damaging(0.989)	10/25	.	hmmpanther:PTHR18916,hmmpanther:PTHR18916:SF30	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCTCTCT	.	5	BLCA
RSRC2	0	.	GRCh37	12	122990075	122990075	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1304G>A	p.%3D	p.%3D	ENST00000331738	10/10	87	68	18	123	122	0	RSRC2,stop_retained_variant,p.%3D,ENST00000331738,;RSRC2,stop_retained_variant,p.%3D,ENST00000354654,;ZCCHC8,upstream_gene_variant,,ENST00000336229,;RSRC2,downstream_gene_variant,,ENST00000344591,;ZCCHC8,upstream_gene_variant,,ENST00000543897,;RSRC2,non_coding_transcript_exon_variant,,ENST00000392442,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525332,;RSRC2,3_prime_UTR_variant,,ENST00000532695,;RSRC2,3_prime_UTR_variant,,ENST00000433877,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527173,;RSRC2,downstream_gene_variant,,ENST00000531389,;RSRC2,downstream_gene_variant,,ENST00000528263,;RSRC2,downstream_gene_variant,,ENST00000525335,;	T	ENSG00000111011	ENST00000331738	Transcript	stop_retained_variant	1450	1304	435	*	tGa/tAa	.	.	.	-1	RSRC2	HGNC	30559	protein_coding	YES	CCDS31920.1	ENSP00000330188	RSRC2_HUMAN	.	UPI00001FB8BB	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTCAAACT	.	5	BLCA
HCAR2	0	.	GRCh37	12	123187756	123187756	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.75C>G	p.Phe25Leu	p.F25L	ENST00000328880	1/1	100	76	23	94	94	0	HCAR2,missense_variant,p.Phe25Leu,ENST00000328880,;HCAR1,intron_variant,,ENST00000356987,;RP11-324E6.6,intron_variant,,ENST00000543611,;	C	ENSG00000182782	ENST00000328880	Transcript	missense_variant	135	75	25	F/L	ttC/ttG	.	.	.	-1	HCAR2	HGNC	24827	protein_coding	YES	CCDS9235.1	ENSP00000375066	HCAR2_HUMAN	.	UPI000003BCD5	.	tolerated(0.7)	benign(0.001)	1/1	.	hmmpanther:PTHR24231,hmmpanther:PTHR24231:SF0,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATGAAGTC	.	5	BLCA
PITPNM2	0	.	GRCh37	12	123472867	123472867	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2911G>T	p.Glu971Ter	p.E971*	ENST00000320201	19/25	173	143	30	188	187	1	PITPNM2,stop_gained,p.Glu971Ter,ENST00000542749,;PITPNM2,stop_gained,p.Glu965Ter,ENST00000280562,;PITPNM2,stop_gained,p.Glu692Ter,ENST00000392428,;PITPNM2,stop_gained,p.Glu971Ter,ENST00000320201,;	A	ENSG00000090975	ENST00000320201	Transcript	stop_gained	3050	2911	971	E/*	Gag/Tag	.	.	.	-1	PITPNM2	HGNC	21044	protein_coding	YES	CCDS9242.1	ENSP00000322218	PITM2_HUMAN	Q9UF51_HUMAN,F5H664_HUMAN	UPI0000070D27	.	.	.	19/25	.	hmmpanther:PTHR10658,hmmpanther:PTHR10658:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCAAGA	.	4	BLCA
TMEM132D	0	.	GRCh37	12	129558623	129558623	+	Missense_Mutation	SNP	C	C	T	rs768389546	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3097G>A	p.Glu1033Lys	p.E1033K	ENST00000422113	9/9	69	55	14	111	111	0	TMEM132D,missense_variant,p.Glu1033Lys,ENST00000422113,;TMEM132D,missense_variant,p.Glu571Lys,ENST00000389441,;	T	ENSG00000151952	ENST00000422113	Transcript	missense_variant	3424	3097	1033	E/K	Gag/Aag	rs768389546	.	.	-1	TMEM132D	HGNC	29411	protein_coding	YES	CCDS9266.1	ENSP00000408581	T132D_HUMAN	.	UPI000023759C	.	deleterious(0)	benign(0.268)	9/9	.	hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCACTTT	.	5	BLCA
CHFR	0	.	GRCh37	12	133435664	133435664	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.937G>A	p.Asp313Asn	p.D313N	ENST00000432561	8/18	29	21	8	27	27	0	CHFR,missense_variant,p.Asp301Asn,ENST00000450056,;CHFR,missense_variant,p.Asp313Asn,ENST00000432561,;CHFR,missense_variant,p.Asp272Asn,ENST00000315585,;CHFR,missense_variant,p.Asp221Asn,ENST00000443047,;CHFR,missense_variant,p.Asp313Asn,ENST00000266880,;CHFR,upstream_gene_variant,,ENST00000537522,;CHFR,downstream_gene_variant,,ENST00000541817,;CHFR,downstream_gene_variant,,ENST00000540963,;CHFR,non_coding_transcript_exon_variant,,ENST00000541837,;CHFR,upstream_gene_variant,,ENST00000535527,;CHFR,upstream_gene_variant,,ENST00000511001,;CHFR,upstream_gene_variant,,ENST00000544268,;CHFR,downstream_gene_variant,,ENST00000535897,;	T	ENSG00000072609	ENST00000432561	Transcript	missense_variant	1011	937	313	D/N	Gac/Aac	COSM468058,COSM1135336	.	.	-1	CHFR	HGNC	20455	protein_coding	YES	CCDS53849.1	ENSP00000392395	CHFR_HUMAN	U3KQ08_HUMAN,F5H829_HUMAN,F5H7R8_HUMAN	UPI000006FA02	.	deleterious(0)	possibly_damaging(0.481)	8/18	.	PROSITE_profiles:PS50089,hmmpanther:PTHR16079,hmmpanther:PTHR16079:SF2,Pfam_domain:PF13639,Gene3D:3.30.40.10,SMART_domains:SM00184,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGTCGTGCA	.	5	BLCA
GUCY2C	0	.	GRCh37	12	14825887	14825887	+	Missense_Mutation	SNP	C	C	T	rs762254572	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1090G>A	p.Asp364Asn	p.D364N	ENST00000261170	9/27	77	59	18	127	127	0	GUCY2C,missense_variant,p.Asp364Asn,ENST00000261170,;RP11-174G6.1,intron_variant,,ENST00000501178,;GUCY2C,downstream_gene_variant,,ENST00000535803,;	T	ENSG00000070019	ENST00000261170	Transcript	missense_variant	1227	1090	364	D/N	Gac/Aac	rs762254572	.	.	-1	GUCY2C	HGNC	4688	protein_coding	YES	CCDS8664.1	ENSP00000261170	GUC2C_HUMAN	.	UPI000013D135	.	tolerated(0.49)	benign(0.007)	9/27	.	hmmpanther:PTHR11920:SF41,hmmpanther:PTHR11920,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCGTCATACC	.	5	BLCA
SMCO3	0	.	GRCh37	12	14959539	14959539	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76C>T	p.Leu26Phe	p.L26F	ENST00000316048	2/2	87	62	25	123	123	0	SMCO3,missense_variant,p.Leu26Phe,ENST00000316048,;C12orf60,intron_variant,,ENST00000330828,;WBP11,upstream_gene_variant,,ENST00000261167,;WBP11,upstream_gene_variant,,ENST00000535328,;C12orf60,intron_variant,,ENST00000527783,;C12orf60,intron_variant,,ENST00000533472,;WBP11,upstream_gene_variant,,ENST00000544764,;WBP11,upstream_gene_variant,,ENST00000543316,;	A	ENSG00000179256	ENST00000316048	Transcript	missense_variant	149	76	26	L/F	Ctt/Ttt	.	.	.	-1	SMCO3	HGNC	34401	protein_coding	YES	CCDS41759.1	ENSP00000381895	SMCO3_HUMAN	.	UPI00001FB6CD	.	deleterious(0.04)	benign(0.01)	2/2	.	Pfam_domain:PF15047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCAAGAAGCT	.	5	BLCA
IQSEC3	0	.	GRCh37	12	250398	250398	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2100G>A	p.Met700Ile	p.M700I	ENST00000538872	5/14	38	28	9	84	83	0	IQSEC3,missense_variant,p.Met700Ile,ENST00000538872,;IQSEC3,missense_variant,p.Met397Ile,ENST00000382841,;IQSEC3,missense_variant,p.Met700Ile,ENST00000326261,;RP11-598F7.4,non_coding_transcript_exon_variant,,ENST00000505893,;RP11-598F7.4,non_coding_transcript_exon_variant,,ENST00000508953,;	A	ENSG00000120645	ENST00000538872	Transcript	missense_variant	2218	2100	700	M/I	atG/atA	.	.	.	1	IQSEC3	HGNC	29193	protein_coding	YES	CCDS53728.1	ENSP00000437554	IQEC3_HUMAN	.	UPI0000DBEEF0	.	deleterious(0)	possibly_damaging(0.708)	5/14	.	PROSITE_profiles:PS50190,hmmpanther:PTHR10663:SF62,hmmpanther:PTHR10663,Gene3D:1.10.220.20,Pfam_domain:PF01369,SMART_domains:SM00222,Superfamily_domains:SSF48425	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATGATTGG	.	5	BLCA
RASSF8	0	.	GRCh37	12	26217839	26217839	+	Missense_Mutation	SNP	G	G	A	rs78627144	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.512G>A	p.Arg171His	p.R171H	ENST00000405154	3/5	42	30	11	59	59	0	RASSF8,missense_variant,p.Arg171His,ENST00000542004,;RASSF8,missense_variant,p.Arg171His,ENST00000541218,;RASSF8,missense_variant,p.Arg171His,ENST00000282884,;RASSF8,missense_variant,p.Arg171His,ENST00000381352,;RASSF8,missense_variant,p.Arg171His,ENST00000542865,;RASSF8,missense_variant,p.Arg171His,ENST00000405154,;RASSF8,missense_variant,p.Arg171His,ENST00000541490,;RASSF8,downstream_gene_variant,,ENST00000542315,;RASSF8,downstream_gene_variant,,ENST00000545413,;RASSF8,downstream_gene_variant,,ENST00000535907,;RASSF8,upstream_gene_variant,,ENST00000539545,;	A	ENSG00000123094	ENST00000405154	Transcript	missense_variant	711	512	171	R/H	cGt/cAt	rs78627144	.	.	1	RASSF8	HGNC	13232	protein_coding	YES	CCDS53765.1	ENSP00000384491	RASF8_HUMAN	H0YG85_HUMAN,F5H8C5_HUMAN,F5H8B9_HUMAN,F5H7J1_HUMAN,F5H343_HUMAN,F5H0S5_HUMAN,F5GYP8_HUMAN	UPI00001FB7C1	.	tolerated(0.16)	benign(0)	3/5	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15286:SF9,hmmpanther:PTHR15286	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCCGTCTGC	byCluster|by1000G	5	BLCA
C12orf71	0	.	GRCh37	12	27235188	27235188	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229C>G	p.Gln77Glu	p.Q77E	ENST00000429849	1/2	26	22	4	33	33	0	C12orf71,missense_variant,p.Gln77Glu,ENST00000429849,;	C	ENSG00000214700	ENST00000429849	Transcript	missense_variant	260	229	77	Q/E	Cag/Gag	.	.	.	-1	C12orf71	HGNC	34452	protein_coding	YES	CCDS44851.1	ENSP00000413728	CL071_HUMAN	.	UPI00001D79FA	.	tolerated(0.33)	benign(0.006)	1/2	.	Pfam_domain:PF15480	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCCTGAATTT	.	2	BLCA
STK38L	0	.	GRCh37	12	27467992	27467992	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.717G>C	p.Lys239Asn	p.K239N	ENST00000389032	8/14	59	42	16	71	71	0	STK38L,missense_variant,p.Lys239Asn,ENST00000389032,;STK38L,missense_variant,p.Lys146Asn,ENST00000539577,;STK38L,missense_variant,p.Lys198Asn,ENST00000545470,;STK38L,missense_variant,p.Lys47Asn,ENST00000536093,;STK38L,3_prime_UTR_variant,,ENST00000407753,;STK38L,downstream_gene_variant,,ENST00000544367,;STK38L,upstream_gene_variant,,ENST00000543992,;	C	ENSG00000211455	ENST00000389032	Transcript	missense_variant	886	717	239	K/N	aaG/aaC	.	.	.	1	STK38L	HGNC	17848	protein_coding	YES	CCDS31761.1	ENSP00000373684	ST38L_HUMAN	F5H7Z3_HUMAN,F5GY51_HUMAN	UPI0000035B4A	.	tolerated(0.11)	probably_damaging(0.991)	8/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24358:SF6,hmmpanther:PTHR24358,Pfam_domain:PF00069,SMART_domains:SM00220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAAAGAAAGC	.	5	BLCA
KLHL42	0	.	GRCh37	12	27933986	27933986	+	Silent	SNP	C	C	G	rs569081413	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.723C>G	p.%3D	p.V241V	ENST00000381271	1/3	26	21	5	26	26	0	KLHL42,synonymous_variant,p.%3D,ENST00000381271,;KLHL42,synonymous_variant,p.%3D,ENST00000543254,;RP11-860B13.1,non_coding_transcript_exon_variant,,ENST00000545904,;KLHL42,synonymous_variant,p.%3D,ENST00000539176,;	G	ENSG00000087448	ENST00000381271	Transcript	synonymous_variant	1034	723	241	V	gtC/gtG	rs569081413	.	.	1	KLHL42	HGNC	29252	protein_coding	YES	CCDS31763.1	ENSP00000370671	KLH42_HUMAN	B2RNT7_HUMAN	UPI0000185FB1	.	.	.	1/3	.	hmmpanther:PTHR24412:SF54,hmmpanther:PTHR24412,Gene3D:1zgkA00,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGTCAATGT	byCluster	5	BLCA
DDX11	0	.	GRCh37	12	31255232	31255232	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2258C>G	p.Ser753Cys	p.S753C	ENST00000407793	22/27	58	46	11	89	89	0	DDX11,missense_variant,p.Ser703Cys,ENST00000350437,;DDX11,missense_variant,p.Ser11Cys,ENST00000539702,;DDX11,missense_variant,p.Ser753Cys,ENST00000542838,;DDX11,missense_variant,p.Ser753Cys,ENST00000545668,;DDX11,missense_variant,p.Ser727Cys,ENST00000228264,;DDX11,missense_variant,p.Ser753Cys,ENST00000407793,;DDX11,3_prime_UTR_variant,,ENST00000251758,;DDX11,downstream_gene_variant,,ENST00000539673,;DDX11,missense_variant,p.Ser11Cys,ENST00000545115,;DDX11,3_prime_UTR_variant,,ENST00000435753,;DDX11,non_coding_transcript_exon_variant,,ENST00000542661,;DDX11,non_coding_transcript_exon_variant,,ENST00000537136,;DDX11,non_coding_transcript_exon_variant,,ENST00000536265,;DDX11,intron_variant,,ENST00000538345,;DDX11,intron_variant,,ENST00000539049,;DDX11,downstream_gene_variant,,ENST00000542777,;DDX11,downstream_gene_variant,,ENST00000539699,;DDX11,downstream_gene_variant,,ENST00000538740,;RP11-551L14.7,downstream_gene_variant,,ENST00000605711,;	G	ENSG00000013573	ENST00000407793	Transcript	missense_variant	2509	2258	753	S/C	tCc/tGc	.	.	.	1	DDX11	HGNC	2736	protein_coding	YES	CCDS44856.1	ENSP00000384703	DDX11_HUMAN	F5GXJ8_HUMAN	UPI000006F88F	.	deleterious(0)	probably_damaging(0.964)	22/27	.	hmmpanther:PTHR11472,hmmpanther:PTHR11472:SF35,Pfam_domain:PF13307,TIGRFAM_domain:TIGR00604,SMART_domains:SM00491	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTCCAGGT	.	5	BLCA
AMN1	0	.	GRCh37	12	31850794	31850794	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414C>G	p.%3D	p.L138L	ENST00000281471	4/7	44	33	10	65	65	0	AMN1,synonymous_variant,p.%3D,ENST00000536761,;AMN1,synonymous_variant,p.%3D,ENST00000281471,;AMN1,synonymous_variant,p.%3D,ENST00000535408,;AMN1,synonymous_variant,p.%3D,ENST00000537562,;AMN1,5_prime_UTR_variant,,ENST00000542781,;AMN1,5_prime_UTR_variant,,ENST00000541931,;AMN1,downstream_gene_variant,,ENST00000537960,;AMN1,downstream_gene_variant,,ENST00000506446,;AMN1,downstream_gene_variant,,ENST00000457428,;	C	ENSG00000151743	ENST00000281471	Transcript	synonymous_variant	580	414	138	L	ctC/ctG	.	.	.	-1	AMN1	HGNC	27281	protein_coding	YES	CCDS44858.1	ENSP00000281471	AMN1_HUMAN	F5H3D1_HUMAN,F5H1R2_HUMAN,F5GWF7_HUMAN,B7Z7J3_HUMAN	UPI000013DC7A	.	.	.	4/7	.	Superfamily_domains:SSF52047,SMART_domains:SM00367,Gene3D:3.80.10.10,hmmpanther:PTHR23125	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTGAGTGC	.	5	BLCA
H3F3C	0	.	GRCh37	12	31944918	31944918	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.183C>G	p.%3D	p.L61L	ENST00000340398	1/1	65	51	14	73	73	0	H3F3C,synonymous_variant,p.%3D,ENST00000340398,;	C	ENSG00000188375	ENST00000340398	Transcript	synonymous_variant	258	183	61	L	ctC/ctG	.	.	.	-1	H3F3C	HGNC	33164	protein_coding	YES	CCDS31769.1	ENSP00000339835	H3C_HUMAN	.	UPI0000185FBF	.	.	.	1/1	.	hmmpanther:PTHR11426,Gene3D:1.10.20.10,Pfam_domain:PF00125,SMART_domains:SM00428,Superfamily_domains:SSF47113,Prints_domain:PR00622	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGATGAGCAG	.	5	BLCA
YARS2	0	.	GRCh37	12	32903745	32903745	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011C>G	p.%3D	p.V337V	ENST00000324868	3/5	50	39	11	74	74	0	YARS2,synonymous_variant,p.%3D,ENST00000324868,;YARS2,upstream_gene_variant,,ENST00000551673,;YARS2,3_prime_UTR_variant,,ENST00000548490,;	C	ENSG00000139131	ENST00000324868	Transcript	synonymous_variant	1039	1011	337	V	gtC/gtG	.	.	.	-1	YARS2	HGNC	24249	protein_coding	YES	CCDS31770.1	ENSP00000320658	SYYM_HUMAN	.	UPI0000046058	.	.	.	3/5	.	hmmpanther:PTHR11766:SF0,hmmpanther:PTHR11766,Pfam_domain:PF00579,TIGRFAM_domain:TIGR00234,Gene3D:1.10.240.10,Superfamily_domains:SSF52374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGACATG	.	5	BLCA
TSPAN9	0	.	GRCh37	12	3389631	3389631	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414G>C	p.Trp138Cys	p.W138C	ENST00000011898	6/9	16	13	3	29	29	0	TSPAN9,missense_variant,p.Trp138Cys,ENST00000407263,;TSPAN9,missense_variant,p.Trp138Cys,ENST00000011898,;TSPAN9,missense_variant,p.Trp138Cys,ENST00000537971,;TSPAN9,non_coding_transcript_exon_variant,,ENST00000431374,;TSPAN9,non_coding_transcript_exon_variant,,ENST00000492305,;TSPAN9,downstream_gene_variant,,ENST00000444315,;	C	ENSG00000011105	ENST00000011898	Transcript	missense_variant	575	414	138	W/C	tgG/tgC	.	.	.	1	TSPAN9	HGNC	21640	protein_coding	YES	CCDS8520.1	ENSP00000011898	TSN9_HUMAN	.	UPI000004F1F1	.	deleterious(0)	probably_damaging(0.997)	6/9	.	Superfamily_domains:0037997,PIRSF_domain:PIRSF002419,Pfam_domain:PF00335,hmmpanther:PTHR19282,hmmpanther:PTHR19282:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTGGAACAT	.	2	BLCA
ADAMTS20	0	.	GRCh37	12	43777731	43777731	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4502G>A	p.Arg1501Lys	p.R1501K	ENST00000389420	30/39	42	33	8	57	57	0	ADAMTS20,missense_variant,p.Arg1501Lys,ENST00000389420,;	T	ENSG00000173157	ENST00000389420	Transcript	missense_variant	4502	4502	1501	R/K	aGa/aAa	.	.	.	-1	ADAMTS20	HGNC	17178	protein_coding	YES	CCDS31778.2	ENSP00000374071	ATS20_HUMAN	.	UPI00004565F4	.	tolerated(0.09)	possibly_damaging(0.805)	30/39	.	PROSITE_profiles:PS50092,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF165,Pfam_domain:PF00090,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGTCTGCAG	.	5	BLCA
PUS7L	0	.	GRCh37	12	44148499	44148499	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550C>T	p.Pro184Ser	p.P184S	ENST00000416848	2/9	70	54	15	79	79	0	PUS7L,missense_variant,p.Pro184Ser,ENST00000416848,;PUS7L,missense_variant,p.Pro184Ser,ENST00000344862,;PUS7L,missense_variant,p.Pro184Ser,ENST00000553166,;PUS7L,missense_variant,p.Pro184Ser,ENST00000551923,;PUS7L,intron_variant,,ENST00000431332,;PUS7L,intron_variant,,ENST00000547156,;PUS7L,intron_variant,,ENST00000550784,;IRAK4,upstream_gene_variant,,ENST00000440781,;PUS7L,downstream_gene_variant,,ENST00000549868,;IRAK4,upstream_gene_variant,,ENST00000551736,;IRAK4,upstream_gene_variant,,ENST00000448290,;IRAK4,upstream_gene_variant,,ENST00000550616,;IRAK4,upstream_gene_variant,,ENST00000431837,;IRAK4,upstream_gene_variant,,ENST00000552309,;IRAK4,upstream_gene_variant,,ENST00000546780,;IRAK4,upstream_gene_variant,,ENST00000547101,;IRAK4,upstream_gene_variant,,ENST00000550361,;IRAK4,upstream_gene_variant,,ENST00000547521,;IRAK4,upstream_gene_variant,,ENST00000550615,;IRAK4,upstream_gene_variant,,ENST00000550386,;	A	ENSG00000129317	ENST00000416848	Transcript	missense_variant	1039	550	184	P/S	Cca/Tca	.	.	.	-1	PUS7L	HGNC	25276	protein_coding	YES	CCDS8743.1	ENSP00000415899	PUS7L_HUMAN	F8VZA0_HUMAN,F8VWC0_HUMAN,F8VW99_HUMAN,F8VP66_HUMAN,B3KUJ1_HUMAN	UPI0000037C53	.	deleterious(0)	probably_damaging(1)	2/9	.	PIRSF_domain:PIRSF037016,hmmpanther:PTHR13326:SF5,hmmpanther:PTHR13326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATGGAAATT	.	5	BLCA
C12orf4	0	.	GRCh37	12	4598880	4598880	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*93G>A	.	.	ENST00000261250	14/14	20	10	10	19	19	0	C12orf4,3_prime_UTR_variant,,ENST00000545746,;C12orf4,3_prime_UTR_variant,,ENST00000261250,;C12orf4,downstream_gene_variant,,ENST00000544258,;	T	ENSG00000047621	ENST00000261250	Transcript	3_prime_UTR_variant	1840	.	.	.	.	.	.	.	-1	C12orf4	HGNC	1184	protein_coding	YES	CCDS8528.1	ENSP00000261250	CL004_HUMAN	F5H744_HUMAN,F5GXX6_HUMAN	UPI0000038C60	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTGGGC	.	5	BLCA
OR8S1	0	.	GRCh37	12	48920205	48920205	+	Nonsense_Mutation	SNP	C	C	G	rs764732510	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.791C>G	p.Ser264Ter	p.S264*	ENST00000310194	1/2	67	59	8	75	75	0	OR8S1,stop_gained,p.Ser264Ter,ENST00000310194,;OR8S1,intron_variant,,ENST00000551654,;	G	ENSG00000197376	ENST00000310194	Transcript	stop_gained	791	791	264	S/*	tCa/tGa	rs764732510	.	.	1	OR8S1	HGNC	19628	protein_coding	YES	CCDS31789.1	ENSP00000310632	OR8S1_HUMAN	.	UPI000013EFC1	.	.	.	1/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF239,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACTCAGGTT	byFrequency	4	BLCA
KMT2D	0	.	GRCh37	12	49421090	49421090	+	Nonsense_Mutation	SNP	C	C	A	rs793888513	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14659G>T	p.Glu4887Ter	p.E4887*	ENST00000301067	48/54	111	91	20	178	178	0	KMT2D,stop_gained,p.Glu4887Ter,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000526209,;KMT2D,downstream_gene_variant,,ENST00000552391,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	14659	14659	4887	E/*	Gag/Tag	rs793888513	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	48/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	likely_pathogenic	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTGGGG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49433365	49433365	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8082G>C	p.Gln2694His	p.Q2694H	ENST00000301067	32/54	22	18	4	23	23	0	KMT2D,missense_variant,p.Gln2694His,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	G	ENSG00000167548	ENST00000301067	Transcript	missense_variant	8082	8082	2694	Q/H	caG/caC	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	probably_damaging(0.993)	32/54	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATCTGCTG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49441751	49441751	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4233C>T	p.%3D	p.S1411S	ENST00000301067	14/54	25	20	5	31	31	0	KMT2D,synonymous_variant,p.%3D,ENST00000301067,;KMT2D,upstream_gene_variant,,ENST00000550356,;	A	ENSG00000167548	ENST00000301067	Transcript	synonymous_variant	4233	4233	1411	S	agC/agT	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	14/54	.	PROSITE_profiles:PS50016,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324,Gene3D:3.30.40.10,Pfam_domain:PF00628,SMART_domains:SM00249,SMART_domains:SM00184,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTGCTGTT	.	2	BLCA
KMT2D	0	.	GRCh37	12	49445386	49445386	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2080G>A	p.Glu694Lys	p.E694K	ENST00000301067	10/54	55	44	10	83	83	0	KMT2D,missense_variant,p.Glu694Lys,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000547610,;	T	ENSG00000167548	ENST00000301067	Transcript	missense_variant	2080	2080	694	E/K	Gag/Aag	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	unknown(0)	10/54	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCAGGTG	.	5	BLCA
KMT2D	0	.	GRCh37	12	49448347	49448347	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>A	p.Glu122Lys	p.E122K	ENST00000301067	3/54	14	10	4	13	13	0	KMT2D,missense_variant,p.Glu122Lys,ENST00000547610,;KMT2D,missense_variant,p.Glu122Lys,ENST00000301067,;	T	ENSG00000167548	ENST00000301067	Transcript	missense_variant	364	364	122	E/K	Gag/Aag	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	unknown(0)	3/54	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE	GCCCTCAGGGA	.	3	BLCA
TUBA1B	0	.	GRCh37	12	49523287	49523287	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222C>A	p.%3D	p.V74V	ENST00000336023	2/4	95	72	23	126	126	0	TUBA1B,synonymous_variant,p.%3D,ENST00000549870,;TUBA1B,synonymous_variant,p.%3D,ENST00000550367,;TUBA1B,synonymous_variant,p.%3D,ENST00000336023,;TUBA1B,synonymous_variant,p.%3D,ENST00000552984,;TUBA1B,synonymous_variant,p.%3D,ENST00000547476,;RP11-386G11.10,intron_variant,,ENST00000547387,;RP11-386G11.10,upstream_gene_variant,,ENST00000547712,;RP11-386G11.10,downstream_gene_variant,,ENST00000548149,;Y_RNA,downstream_gene_variant,,ENST00000363439,;RP11-386G11.10,upstream_gene_variant,,ENST00000551496,;RP11-386G11.10,downstream_gene_variant,,ENST00000552893,;TUBA1B,3_prime_UTR_variant,,ENST00000547765,;TUBA1B,non_coding_transcript_exon_variant,,ENST00000551324,;TUBA1B,non_coding_transcript_exon_variant,,ENST00000332858,;	T	ENSG00000123416	ENST00000336023	Transcript	synonymous_variant	317	222	74	V	gtC/gtA	.	.	.	-1	TUBA1B	HGNC	18809	protein_coding	YES	CCDS31792.1	ENSP00000336799	TBA1B_HUMAN	F8VXZ7_HUMAN,F8VX09_HUMAN,F8VWV9_HUMAN,F8VRZ4_HUMAN,F8VRK0_HUMAN,C9JDS9_HUMAN	UPI00000015EA	.	.	.	2/4	.	hmmpanther:PTHR11588:SF65,hmmpanther:PTHR11588,Gene3D:3.40.50.1440,Pfam_domain:PF00091,SMART_domains:SM00864,Superfamily_domains:SSF52490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATGACTGT	.	5	BLCA
TROAP	0	.	GRCh37	12	49725148	49725149	+	Frame_Shift_Del	DEL	CA	CA	-	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	CA	CA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2251_2252delAC	p.Thr751GlnfsTer42	p.T751Qfs*42	ENST00000257909	14/15	34	26	8	37	37	0	TROAP,frameshift_variant,p.Thr841GlnfsTer42,ENST00000551245,;TROAP,frameshift_variant,p.Thr430GlnfsTer42,ENST00000547923,;TROAP,frameshift_variant,p.Thr751GlnfsTer42,ENST00000257909,;C1QL4,downstream_gene_variant,,ENST00000334221,;TROAP,downstream_gene_variant,,ENST00000550346,;TROAP,downstream_gene_variant,,ENST00000547807,;TROAP,downstream_gene_variant,,ENST00000546735,;TROAP,downstream_gene_variant,,ENST00000551192,;TROAP,downstream_gene_variant,,ENST00000549891,;TROAP,downstream_gene_variant,,ENST00000546776,;TROAP,downstream_gene_variant,,ENST00000548817,;	-	ENSG00000135451	ENST00000257909	Transcript	frameshift_variant	2326-2327	2250-2251	750-751	CT/CX	tgCAcc/tgcc	.	.	.	1	TROAP	HGNC	12327	protein_coding	YES	CCDS8784.1	ENSP00000257909	TROAP_HUMAN	F8W052_HUMAN	UPI000007108A	.	.	.	14/15	.	hmmpanther:PTHR15289,hmmpanther:PTHR15289:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGTCTGCACCAAC	.	3	BLCA
FAM186B	0	.	GRCh37	12	49994493	49994493	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930G>A	p.Met310Ile	p.M310I	ENST00000257894	4/7	119	91	28	174	174	0	FAM186B,missense_variant,p.Met220Ile,ENST00000544141,;FAM186B,missense_variant,p.Met310Ile,ENST00000257894,;FAM186B,intron_variant,,ENST00000551047,;PRPF40B,intron_variant,,ENST00000551063,;FAM186B,upstream_gene_variant,,ENST00000532262,;FAM186B,upstream_gene_variant,,ENST00000548841,;PRPF40B,non_coding_transcript_exon_variant,,ENST00000508736,;PRPF40B,intron_variant,,ENST00000527253,;PRPF40B,downstream_gene_variant,,ENST00000547764,;FAM186B,3_prime_UTR_variant,,ENST00000533372,;	T	ENSG00000135436	ENST00000257894	Transcript	missense_variant	1092	930	310	M/I	atG/atA	.	.	.	-1	FAM186B	HGNC	25296	protein_coding	YES	CCDS8788.1	ENSP00000257894	F186B_HUMAN	.	UPI000007077C	.	tolerated(1)	benign(0)	4/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTCATCAG	.	5	BLCA
KCNA1	0	.	GRCh37	12	5021889	5021889	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1345A>C	p.Met449Leu	p.M449L	ENST00000382545	2/2	156	133	23	199	199	0	KCNA1,missense_variant,p.Met449Leu,ENST00000382545,;KCNA1,intron_variant,,ENST00000541095,;KCNA1,intron_variant,,ENST00000543874,;	C	ENSG00000111262	ENST00000382545	Transcript	missense_variant	2452	1345	449	M/L	Atg/Ctg	.	.	.	1	KCNA1	HGNC	6218	protein_coding	YES	CCDS8535.1	ENSP00000371985	KCNA1_HUMAN	.	UPI000013C8E0	.	tolerated_low_confidence(1)	benign(0)	2/2	.	Prints_domain:PR01508,hmmpanther:PTHR11537:SF24,hmmpanther:PTHR11537,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACTATGAGC	.	5	BLCA
DIP2B	0	.	GRCh37	12	51117064	51117064	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3246G>C	p.Gln1082His	p.Q1082H	ENST00000301180	27/38	76	58	18	87	87	0	DIP2B,missense_variant,p.Gln1082His,ENST00000301180,;DIP2B,3_prime_UTR_variant,,ENST00000546732,;	C	ENSG00000066084	ENST00000301180	Transcript	missense_variant	3280	3246	1082	Q/H	caG/caC	.	.	.	1	DIP2B	HGNC	29284	protein_coding	YES	CCDS31799.1	ENSP00000301180	DIP2B_HUMAN	Q96IB4_HUMAN	UPI0000406CA1	.	deleterious(0.05)	benign(0.41)	27/38	.	hmmpanther:PTHR22754:SF22,hmmpanther:PTHR22754,Pfam_domain:PF00501,Gene3D:3.40.50.980,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCAGAACCT	.	5	BLCA
EIF4B	0	.	GRCh37	12	53413718	53413718	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.385G>A	p.Glu129Lys	p.E129K	ENST00000262056	4/15	37	32	5	38	38	0	EIF4B,missense_variant,p.Glu83Lys,ENST00000551002,;EIF4B,missense_variant,p.Glu129Lys,ENST00000420463,;EIF4B,missense_variant,p.Glu129Lys,ENST00000549481,;EIF4B,missense_variant,p.Glu129Lys,ENST00000262056,;EIF4B,missense_variant,p.Glu129Lys,ENST00000552490,;EIF4B,intron_variant,,ENST00000416762,;RP11-983P16.4,intron_variant,,ENST00000552905,;RP11-983P16.4,upstream_gene_variant,,ENST00000549388,;EIF4B,non_coding_transcript_exon_variant,,ENST00000551527,;EIF4B,non_coding_transcript_exon_variant,,ENST00000549645,;EIF4B,missense_variant,p.Glu129Lys,ENST00000550390,;EIF4B,missense_variant,p.Glu129Lys,ENST00000549077,;EIF4B,missense_variant,p.Glu129Lys,ENST00000550704,;EIF4B,non_coding_transcript_exon_variant,,ENST00000550025,;	A	ENSG00000063046	ENST00000262056	Transcript	missense_variant	711	385	129	E/K	Gaa/Aaa	.	.	.	1	EIF4B	HGNC	3285	protein_coding	YES	CCDS41788.1	ENSP00000262056	IF4B_HUMAN	.	UPI000006F988	.	deleterious(0)	unknown(0)	4/15	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,Pfam_domain:PF00076,hmmpanther:PTHR23236,hmmpanther:PTHR23236:SF8,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACGTGAACCC	.	4	BLCA
SP7	0	.	GRCh37	12	53722239	53722239	+	Silent	SNP	G	G	C	rs762746999	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987C>G	p.%3D	p.L329L	ENST00000536324	3/3	53	39	14	60	60	0	SP7,synonymous_variant,p.%3D,ENST00000537210,;SP7,synonymous_variant,p.%3D,ENST00000536324,;SP7,synonymous_variant,p.%3D,ENST00000303846,;AAAS,upstream_gene_variant,,ENST00000550286,;SP7,downstream_gene_variant,,ENST00000547755,;AAAS,upstream_gene_variant,,ENST00000548258,;AAAS,upstream_gene_variant,,ENST00000551724,;	C	ENSG00000170374	ENST00000536324	Transcript	synonymous_variant	1271	987	329	L	ctC/ctG	rs762746999	.	.	-1	SP7	HGNC	17321	protein_coding	YES	CCDS44897.1	ENSP00000443827	SP7_HUMAN	F8VV67_HUMAN	UPI000000D7AE	.	.	.	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF12,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAAGAGCCA	.	5	BLCA
COPZ1	0	.	GRCh37	12	54731041	54731041	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19-3290C>T	.	.	ENST00000262061	.	74	54	19	112	112	0	COPZ1,intron_variant,,ENST00000548753,;COPZ1,intron_variant,,ENST00000553231,;COPZ1,intron_variant,,ENST00000552218,;COPZ1,intron_variant,,ENST00000455864,;COPZ1,intron_variant,,ENST00000552848,;COPZ1,intron_variant,,ENST00000552362,;COPZ1,intron_variant,,ENST00000549043,;COPZ1,intron_variant,,ENST00000416254,;COPZ1,intron_variant,,ENST00000551779,;COPZ1,intron_variant,,ENST00000262061,;COPZ1,intron_variant,,ENST00000549116,;COPZ1,upstream_gene_variant,,ENST00000550713,;MIR148B,mature_miRNA_variant,,ENST00000362252,;RP11-968A15.8,intron_variant,,ENST00000553061,;COPZ1,intron_variant,,ENST00000548281,;COPZ1,intron_variant,,ENST00000548076,;COPZ1,intron_variant,,ENST00000553009,;COPZ1,intron_variant,,ENST00000551412,;COPZ1,intron_variant,,ENST00000550171,;COPZ1,intron_variant,,ENST00000551962,;COPZ1,intron_variant,,ENST00000550027,;	T	ENSG00000111481	ENST00000262061	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	COPZ1	HGNC	2243	protein_coding	YES	CCDS8877.1	ENSP00000262061	COPZ1_HUMAN	F8VYZ4_HUMAN,F8VYK5_HUMAN,F8VXB1_HUMAN	UPI000000416D	.	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTCAGGCT	.	5	BLCA
TESPA1	0	.	GRCh37	12	55356535	55356535	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1147G>C	p.Asp383His	p.D383H	ENST00000449076	9/11	52	44	8	64	64	0	TESPA1,missense_variant,p.Asp383His,ENST00000316577,;TESPA1,missense_variant,p.Asp245His,ENST00000531122,;TESPA1,missense_variant,p.Asp383His,ENST00000449076,;TESPA1,missense_variant,p.Asp245His,ENST00000532804,;TESPA1,missense_variant,p.Asp245His,ENST00000524622,;TESPA1,intron_variant,,ENST00000532757,;TESPA1,downstream_gene_variant,,ENST00000526532,;TESPA1,downstream_gene_variant,,ENST00000533446,;TESPA1,upstream_gene_variant,,ENST00000528240,;TESPA1,downstream_gene_variant,,ENST00000524959,;TESPA1,3_prime_UTR_variant,,ENST00000524923,;TESPA1,downstream_gene_variant,,ENST00000525978,;	G	ENSG00000135426	ENST00000449076	Transcript	missense_variant	1280	1147	383	D/H	Gat/Cat	.	.	.	-1	TESPA1	HGNC	29109	protein_coding	YES	CCDS44913.1	ENSP00000400892	TESP1_HUMAN	E9PN46_HUMAN,E9PM24_HUMAN,E9PIT9_HUMAN,E9PIN8_HUMAN,E9PHY9_HUMAN,B4DHC1_HUMAN	UPI00001FC438	.	tolerated_low_confidence(0.12)	benign(0.016)	9/11	.	hmmpanther:PTHR17469:SF1,hmmpanther:PTHR17469	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAATCCAGAG	.	5	BLCA
ERBB3	0	.	GRCh37	12	56493443	56493443	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2851G>A	p.Asp951Asn	p.D951N	ENST00000267101	24/28	72	60	12	104	104	0	ERBB3,missense_variant,p.Asp892Asn,ENST00000415288,;ERBB3,missense_variant,p.Asp308Asn,ENST00000450146,;ERBB3,missense_variant,p.Asp951Asn,ENST00000267101,;ERBB3,missense_variant,p.Asp258Asn,ENST00000550070,;ERBB3,missense_variant,p.Asp192Asn,ENST00000553131,;ERBB3,missense_variant,p.Asp71Asn,ENST00000549832,;RP11-603J24.9,upstream_gene_variant,,ENST00000548861,;PA2G4,upstream_gene_variant,,ENST00000552766,;PA2G4,upstream_gene_variant,,ENST00000303305,;RP11-603J24.17,downstream_gene_variant,,ENST00000548595,;ERBB3,3_prime_UTR_variant,,ENST00000551085,;ERBB3,intron_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;ERBB3,downstream_gene_variant,,ENST00000548709,;ERBB3,downstream_gene_variant,,ENST00000549644,;ERBB3,downstream_gene_variant,,ENST00000549205,;ERBB3,upstream_gene_variant,,ENST00000552691,;	A	ENSG00000065361	ENST00000267101	Transcript	missense_variant	3291	2851	951	D/N	Gat/Aat	.	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	deleterious(0)	probably_damaging(1)	24/28	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF88,hmmpanther:PTHR24416,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATTGATGAG	.	5	BLCA
ERBB3	0	.	GRCh37	12	56493627	56493627	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2943G>C	p.Glu981Asp	p.E981D	ENST00000267101	25/28	35	29	6	48	48	0	ERBB3,missense_variant,p.Glu922Asp,ENST00000415288,;ERBB3,missense_variant,p.Glu338Asp,ENST00000450146,;ERBB3,missense_variant,p.Glu981Asp,ENST00000267101,;ERBB3,missense_variant,p.Glu288Asp,ENST00000550070,;ERBB3,missense_variant,p.Glu222Asp,ENST00000553131,;ERBB3,missense_variant,p.Glu101Asp,ENST00000549832,;RP11-603J24.9,upstream_gene_variant,,ENST00000548861,;PA2G4,upstream_gene_variant,,ENST00000552766,;PA2G4,upstream_gene_variant,,ENST00000303305,;RP11-603J24.17,downstream_gene_variant,,ENST00000548595,;ERBB3,3_prime_UTR_variant,,ENST00000551085,;ERBB3,intron_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;ERBB3,downstream_gene_variant,,ENST00000548709,;ERBB3,downstream_gene_variant,,ENST00000549644,;ERBB3,downstream_gene_variant,,ENST00000549205,;ERBB3,upstream_gene_variant,,ENST00000552691,;	C	ENSG00000065361	ENST00000267101	Transcript	missense_variant	3383	2943	981	E/D	gaG/gaC	.	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	tolerated(1)	benign(0)	25/28	.	hmmpanther:PTHR24416:SF88,hmmpanther:PTHR24416,PIRSF_domain:PIRSF000619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAGAGAGTGG	.	5	BLCA
ERBB3	0	.	GRCh37	12	56494956	56494956	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3313G>A	p.Glu1105Lys	p.E1105K	ENST00000267101	27/28	19	16	3	49	49	0	ERBB3,missense_variant,p.Glu1046Lys,ENST00000415288,;ERBB3,missense_variant,p.Glu462Lys,ENST00000450146,;ERBB3,missense_variant,p.Glu1105Lys,ENST00000267101,;ERBB3,missense_variant,p.Glu412Lys,ENST00000550070,;ERBB3,missense_variant,p.Glu346Lys,ENST00000553131,;ERBB3,missense_variant,p.Glu225Lys,ENST00000549832,;RP11-603J24.9,upstream_gene_variant,,ENST00000548861,;PA2G4,upstream_gene_variant,,ENST00000552766,;PA2G4,upstream_gene_variant,,ENST00000551061,;PA2G4,upstream_gene_variant,,ENST00000303305,;PA2G4,upstream_gene_variant,,ENST00000553057,;RP11-603J24.17,downstream_gene_variant,,ENST00000548595,;ERBB3,3_prime_UTR_variant,,ENST00000551085,;ERBB3,3_prime_UTR_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;ERBB3,downstream_gene_variant,,ENST00000548709,;ERBB3,downstream_gene_variant,,ENST00000552691,;	A	ENSG00000065361	ENST00000267101	Transcript	missense_variant	3753	3313	1105	E/K	Gag/Aag	.	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	deleterious(0.02)	possibly_damaging(0.856)	27/28	.	PIRSF_domain:PIRSF000619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTGAGGCT	.	2	BLCA
ERBB3	0	.	GRCh37	12	56494962	56494962	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3319G>A	p.Glu1107Lys	p.E1107K	ENST00000267101	27/28	20	17	3	47	47	0	ERBB3,missense_variant,p.Glu1048Lys,ENST00000415288,;ERBB3,missense_variant,p.Glu464Lys,ENST00000450146,;ERBB3,missense_variant,p.Glu1107Lys,ENST00000267101,;ERBB3,missense_variant,p.Glu414Lys,ENST00000550070,;ERBB3,missense_variant,p.Glu348Lys,ENST00000553131,;ERBB3,missense_variant,p.Glu227Lys,ENST00000549832,;RP11-603J24.9,upstream_gene_variant,,ENST00000548861,;PA2G4,upstream_gene_variant,,ENST00000552766,;PA2G4,upstream_gene_variant,,ENST00000551061,;PA2G4,upstream_gene_variant,,ENST00000303305,;PA2G4,upstream_gene_variant,,ENST00000553057,;RP11-603J24.17,downstream_gene_variant,,ENST00000548595,;ERBB3,3_prime_UTR_variant,,ENST00000551085,;ERBB3,3_prime_UTR_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;ERBB3,downstream_gene_variant,,ENST00000548709,;ERBB3,downstream_gene_variant,,ENST00000552691,;	A	ENSG00000065361	ENST00000267101	Transcript	missense_variant	3759	3319	1107	E/K	Gag/Aag	.	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	deleterious(0.01)	possibly_damaging(0.856)	27/28	.	PIRSF_domain:PIRSF000619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTGAGCTC	.	2	BLCA
ARHGAP9	0	.	GRCh37	12	57872945	57872945	+	Missense_Mutation	SNP	T	T	A	rs745351058	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.245A>T	p.Tyr82Phe	p.Y82F	ENST00000393791	2/18	72	51	21	126	126	0	ARHGAP9,missense_variant,p.Tyr82Phe,ENST00000356411,;ARHGAP9,missense_variant,p.Tyr82Phe,ENST00000393791,;ARHGAP9,missense_variant,p.Tyr161Phe,ENST00000550288,;ARHGAP9,missense_variant,p.Tyr153Phe,ENST00000393797,;ARHGAP9,missense_variant,p.Tyr82Phe,ENST00000424809,;ARHGAP9,5_prime_UTR_variant,,ENST00000552249,;ARHGAP9,upstream_gene_variant,,ENST00000552604,;ARHGAP9,upstream_gene_variant,,ENST00000430041,;ARHGAP9,upstream_gene_variant,,ENST00000551452,;ARHGAP9,upstream_gene_variant,,ENST00000550399,;ARHGAP9,upstream_gene_variant,,ENST00000549602,;ARHGAP9,upstream_gene_variant,,ENST00000548139,;ARHGAP9,upstream_gene_variant,,ENST00000552066,;ARHGAP9,upstream_gene_variant,,ENST00000550130,;MARS,intron_variant,,ENST00000549133,;ARHGAP9,upstream_gene_variant,,ENST00000547200,;ARHGAP9,upstream_gene_variant,,ENST00000550454,;ARHGAP9,non_coding_transcript_exon_variant,,ENST00000552420,;ARHGAP9,upstream_gene_variant,,ENST00000550440,;ARHGAP9,upstream_gene_variant,,ENST00000546704,;ARHGAP9,upstream_gene_variant,,ENST00000551000,;ARHGAP9,upstream_gene_variant,,ENST00000552953,;ARHGAP9,upstream_gene_variant,,ENST00000546200,;ARHGAP9,upstream_gene_variant,,ENST00000551574,;ARHGAP9,upstream_gene_variant,,ENST00000547216,;ARHGAP9,upstream_gene_variant,,ENST00000548148,;	A	ENSG00000123329	ENST00000393791	Transcript	missense_variant	384	245	82	Y/F	tAt/tTt	rs745351058	.	.	-1	ARHGAP9	HGNC	14130	protein_coding	YES	CCDS8941.2	ENSP00000377380	RHG09_HUMAN	F8VW89_HUMAN,F8VSD0_HUMAN,F8VR90_HUMAN,F8VQY5_HUMAN	UPI000007131B	.	deleterious(0)	probably_damaging(0.998)	2/18	.	PROSITE_profiles:PS50002,hmmpanther:PTHR23181,hmmpanther:PTHR23181:SF4,Gene3D:2.30.30.40,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATATAGGCT	byFrequency	5	BLCA
AVIL	0	.	GRCh37	12	58200272	58200272	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1542C>T	p.%3D	p.L514L	ENST00000257861	13/19	61	50	10	80	80	0	AVIL,synonymous_variant,p.%3D,ENST00000257861,;AVIL,synonymous_variant,p.%3D,ENST00000537081,;TSFM,intron_variant,,ENST00000548851,;AVIL,downstream_gene_variant,,ENST00000549994,;TSFM,downstream_gene_variant,,ENST00000550559,;TSFM,downstream_gene_variant,,ENST00000543727,;RNU6-1083P,upstream_gene_variant,,ENST00000384022,;RP11-571M6.17,downstream_gene_variant,,ENST00000602802,;AVIL,non_coding_transcript_exon_variant,,ENST00000550083,;AVIL,3_prime_UTR_variant,,ENST00000549851,;AVIL,non_coding_transcript_exon_variant,,ENST00000549753,;AVIL,non_coding_transcript_exon_variant,,ENST00000548843,;AVIL,non_coding_transcript_exon_variant,,ENST00000550537,;AVIL,non_coding_transcript_exon_variant,,ENST00000549548,;	A	ENSG00000135407	ENST00000257861	Transcript	synonymous_variant	1973	1542	514	L	ctC/ctT	COSM2156229	.	.	-1	AVIL	HGNC	14188	protein_coding	YES	CCDS8959.1	ENSP00000257861	AVIL_HUMAN	F8VVU1_HUMAN	UPI000013CF93	.	.	.	13/19	.	Superfamily_domains:SSF55753,Superfamily_domains:SSF55753,SMART_domains:SM00262,Gene3D:3.40.20.10,hmmpanther:PTHR11977,hmmpanther:PTHR11977:SF33	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAAGAGTCT	.	5	BLCA
MON2	0	.	GRCh37	12	62972277	62972277	+	Missense_Mutation	SNP	G	G	C	rs760667289	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4567G>C	p.Asp1523His	p.D1523H	ENST00000393632	31/35	31	27	4	57	57	0	MON2,missense_variant,p.Asp1523His,ENST00000546600,;MON2,missense_variant,p.Asp1524His,ENST00000393630,;MON2,missense_variant,p.Asp1524His,ENST00000280379,;MON2,missense_variant,p.Asp1517His,ENST00000393629,;MON2,missense_variant,p.Asp1523His,ENST00000393632,;MON2,missense_variant,p.Asp1494His,ENST00000552738,;MON2,3_prime_UTR_variant,,ENST00000547095,;MON2,non_coding_transcript_exon_variant,,ENST00000546751,;MON2,non_coding_transcript_exon_variant,,ENST00000551307,;	C	ENSG00000061987	ENST00000393632	Transcript	missense_variant	4958	4567	1523	D/H	Gat/Cat	rs760667289,COSM3987133,COSM3987134	.	.	1	MON2	HGNC	29177	protein_coding	YES	CCDS31849.1	ENSP00000377252	MON2_HUMAN	F8VZV1_HUMAN	UPI00001AEA4C	.	deleterious(0)	probably_damaging(0.965)	31/35	.	Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATATTGATGTC	.	2	BLCA
MON2	0	.	GRCh37	12	62972283	62972283	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4573G>A	p.Glu1525Lys	p.E1525K	ENST00000393632	31/35	31	27	4	58	58	0	MON2,missense_variant,p.Glu1525Lys,ENST00000546600,;MON2,missense_variant,p.Glu1526Lys,ENST00000393630,;MON2,missense_variant,p.Glu1526Lys,ENST00000280379,;MON2,missense_variant,p.Glu1519Lys,ENST00000393629,;MON2,missense_variant,p.Glu1525Lys,ENST00000393632,;MON2,missense_variant,p.Glu1496Lys,ENST00000552738,;MON2,splice_region_variant,,ENST00000546751,;MON2,splice_region_variant,,ENST00000547095,;MON2,splice_region_variant,,ENST00000551307,;	A	ENSG00000061987	ENST00000393632	Transcript	missense_variant	4964	4573	1525	E/K	Gag/Aag	.	.	.	1	MON2	HGNC	29177	protein_coding	YES	CCDS31849.1	ENSP00000377252	MON2_HUMAN	F8VZV1_HUMAN	UPI00001AEA4C	.	tolerated(0.57)	benign(0.001)	31/35	.	Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGTCGAGGTA	.	3	BLCA
LLPH	0	.	GRCh37	12	66517632	66517632	+	Silent	SNP	A	A	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378T>G	p.%3D	p.G126G	ENST00000266604	3/3	126	97	29	169	169	0	LLPH,synonymous_variant,p.%3D,ENST00000446587,;LLPH,synonymous_variant,p.%3D,ENST00000266604,;TMBIM4,downstream_gene_variant,,ENST00000556010,;TMBIM4,downstream_gene_variant,,ENST00000539652,;	C	ENSG00000139233	ENST00000266604	Transcript	synonymous_variant	449	378	126	G	ggT/ggG	.	.	.	-1	LLPH	HGNC	28229	protein_coding	YES	CCDS8974.1	ENSP00000266604	LLPH_HUMAN	.	UPI000006E52D	.	.	.	3/3	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAAACCCTT	.	5	BLCA
CHD4	0	.	GRCh37	12	6691315	6691315	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4503G>A	p.%3D	p.L1501L	ENST00000357008	30/40	20	16	3	37	37	0	CHD4,synonymous_variant,p.%3D,ENST00000544040,;CHD4,synonymous_variant,p.%3D,ENST00000544484,;CHD4,synonymous_variant,p.%3D,ENST00000309577,;CHD4,synonymous_variant,p.%3D,ENST00000357008,;SCARNA11,upstream_gene_variant,,ENST00000516089,;RP5-940J5.6,intron_variant,,ENST00000501075,;CHD4,intron_variant,,ENST00000536301,;CHD4,upstream_gene_variant,,ENST00000542717,;CHD4,downstream_gene_variant,,ENST00000540960,;	T	ENSG00000111642	ENST00000357008	Transcript	synonymous_variant	4667	4503	1501	L	ttG/ttA	.	.	.	-1	CHD4	HGNC	1919	protein_coding	YES	CCDS8552.1	ENSP00000349508	CHD4_HUMAN	F5H6N4_HUMAN	UPI000013C8EF	.	.	.	30/40	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF554,Pfam_domain:PF06461	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGAATCAAAGA	.	4	BLCA
PHB2	0	.	GRCh37	12	7076691	7076691	+	Intron	SNP	C	C	G	rs782754128	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711+148G>C	.	.	ENST00000535923	.	23	17	6	35	35	0	PHB2,intron_variant,,ENST00000535923,;PHB2,intron_variant,,ENST00000546111,;PHB2,intron_variant,,ENST00000399433,;PHB2,intron_variant,,ENST00000542912,;PHB2,intron_variant,,ENST00000440277,;PHB2,intron_variant,,ENST00000545555,;PHB2,downstream_gene_variant,,ENST00000545167,;PHB2,downstream_gene_variant,,ENST00000536316,;EMG1,upstream_gene_variant,,ENST00000261406,;SCARNA12,non_coding_transcript_exon_variant,,ENST00000459155,;U47924.27,downstream_gene_variant,,ENST00000537269,;MIR200C,downstream_gene_variant,,ENST00000384980,;MIR141,downstream_gene_variant,,ENST00000384975,;U47924.29,downstream_gene_variant,,ENST00000606539,;EMG1,intron_variant,,ENST00000607161,;EMG1,upstream_gene_variant,,ENST00000541016,;EMG1,upstream_gene_variant,,ENST00000564245,;PHB2,downstream_gene_variant,,ENST00000544134,;EMG1,upstream_gene_variant,,ENST00000539196,;EMG1,upstream_gene_variant,,ENST00000546220,;EMG1,upstream_gene_variant,,ENST00000539535,;PHB2,non_coding_transcript_exon_variant,,ENST00000537646,;PHB2,intron_variant,,ENST00000543465,;EMG1,upstream_gene_variant,,ENST00000451846,;EMG1,upstream_gene_variant,,ENST00000539440,;PHB2,downstream_gene_variant,,ENST00000546217,;PHB2,downstream_gene_variant,,ENST00000544888,;PHB2,downstream_gene_variant,,ENST00000542294,;	G	ENSG00000215021	ENST00000535923	Transcript	intron_variant	.	.	.	.	.	rs782754128	.	.	-1	PHB2	HGNC	30306	protein_coding	YES	CCDS53741.1	ENSP00000441875	PHB2_HUMAN	Q9BXV3_HUMAN	UPI00000292BE	.	.	.	.	6/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCATCTG	byFrequency	5	BLCA
ZFC3H1	0	.	GRCh37	12	72026239	72026239	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2873C>T	p.Ser958Leu	p.S958L	ENST00000378743	15/35	58	53	5	103	103	0	ZFC3H1,missense_variant,p.Ser958Leu,ENST00000378743,;ZFC3H1,missense_variant,p.Ser958Leu,ENST00000552994,;ZFC3H1,non_coding_transcript_exon_variant,,ENST00000546606,;	A	ENSG00000133858	ENST00000378743	Transcript	missense_variant	3232	2873	958	S/L	tCa/tTa	.	.	.	-1	ZFC3H1	HGNC	28328	protein_coding	YES	CCDS41813.1	ENSP00000368017	ZC3H1_HUMAN	.	UPI00003668E9	.	tolerated(0.12)	benign(0.416)	15/35	.	hmmpanther:PTHR21563	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTGCTGAATGC	.	3	BLCA
OSBPL8	0	.	GRCh37	12	76796503	76796503	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.332C>T	p.Thr111Ile	p.T111I	ENST00000261183	6/24	26	19	7	28	28	0	OSBPL8,missense_variant,p.Thr111Ile,ENST00000261183,;OSBPL8,missense_variant,p.Thr111Ile,ENST00000547540,;OSBPL8,missense_variant,p.Thr69Ile,ENST00000549570,;OSBPL8,missense_variant,p.Thr69Ile,ENST00000393249,;OSBPL8,missense_variant,p.Thr69Ile,ENST00000393250,;OSBPL8,missense_variant,p.Thr86Ile,ENST00000546946,;OSBPL8,missense_variant,p.Thr69Ile,ENST00000553139,;OSBPL8,missense_variant,p.Thr98Ile,ENST00000548341,;OSBPL8,downstream_gene_variant,,ENST00000550628,;OSBPL8,downstream_gene_variant,,ENST00000549646,;	A	ENSG00000091039	ENST00000261183	Transcript	missense_variant	812	332	111	T/I	aCt/aTt	.	.	.	-1	OSBPL8	HGNC	16396	protein_coding	YES	CCDS31862.1	ENSP00000261183	OSBL8_HUMAN	Q96E43_HUMAN,Q6ZME5_HUMAN,F8VZB8_HUMAN,F8VVE7_HUMAN,F8VVD3_HUMAN,F8VQX7_HUMAN	UPI000006ECD1	.	deleterious(0.01)	benign(0.102)	6/24	.	Superfamily_domains:SSF50729,hmmpanther:PTHR10972,hmmpanther:PTHR10972:SF77,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGTTGAA	.	5	BLCA
SLC2A14	0	.	GRCh37	12	7967025	7967025	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1450G>T	p.Asp484Tyr	p.D484Y	ENST00000543909	16/16	98	84	14	124	124	0	SLC2A14,missense_variant,p.Asp375Tyr,ENST00000535295,;SLC2A14,missense_variant,p.Asp484Tyr,ENST00000396589,;SLC2A14,missense_variant,p.Asp461Tyr,ENST00000431042,;SLC2A14,missense_variant,p.Asp375Tyr,ENST00000542546,;SLC2A14,missense_variant,p.Asp125Tyr,ENST00000542505,;SLC2A14,missense_variant,p.Asp461Tyr,ENST00000340749,;SLC2A14,missense_variant,p.Asp499Tyr,ENST00000539924,;SLC2A14,missense_variant,p.Asp484Tyr,ENST00000543909,;	A	ENSG00000173262	ENST00000543909	Transcript	missense_variant	2210	1450	484	D/Y	Gat/Tat	.	.	.	-1	SLC2A14	HGNC	18301	protein_coding	YES	CCDS8585.1	ENSP00000440480	GTR14_HUMAN	F5H6F6_HUMAN,F5GXP7_HUMAN	UPI000006D325	.	deleterious(0)	probably_damaging(0.945)	16/16	.	hmmpanther:PTHR24063:SF322,hmmpanther:PTHR24063,Pfam_domain:PF00083,TIGRFAM_domain:TIGR00879,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATATCCTCAA	.	4	BLCA
MYF5	0	.	GRCh37	12	81112162	81112162	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527C>G	p.Ser176Cys	p.S176C	ENST00000228644	2/3	105	97	8	151	151	0	MYF5,missense_variant,p.Ser176Cys,ENST00000228644,;	G	ENSG00000111049	ENST00000228644	Transcript	missense_variant	679	527	176	S/C	tCc/tGc	.	.	.	1	MYF5	HGNC	7565	protein_coding	YES	CCDS9020.1	ENSP00000228644	MYF5_HUMAN	.	UPI000013C8D9	.	tolerated(0.14)	probably_damaging(0.974)	2/3	.	hmmpanther:PTHR11534,hmmpanther:PTHR11534:SF3,Pfam_domain:PF12232	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTGGTCCAGAA	.	3	BLCA
PPFIA2	0	.	GRCh37	12	81657121	81657121	+	Missense_Mutation	SNP	G	G	A	rs544450027	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3604C>T	p.Pro1202Ser	p.P1202S	ENST00000549396	31/33	29	21	7	59	59	0	PPFIA2,missense_variant,p.Pro1190Ser,ENST00000333447,;PPFIA2,missense_variant,p.Pro1101Ser,ENST00000407050,;PPFIA2,missense_variant,p.Pro738Ser,ENST00000541570,;PPFIA2,missense_variant,p.Pro1097Ser,ENST00000443686,;PPFIA2,missense_variant,p.Pro1049Ser,ENST00000550359,;PPFIA2,missense_variant,p.Pro1196Ser,ENST00000548586,;PPFIA2,missense_variant,p.Pro1202Ser,ENST00000549396,;PPFIA2,missense_variant,p.Pro1187Ser,ENST00000549325,;PPFIA2,missense_variant,p.Pro388Ser,ENST00000541017,;PPFIA2,missense_variant,p.Pro1202Ser,ENST00000550584,;PPFIA2,missense_variant,p.Pro1181Ser,ENST00000552948,;PPFIA2,intron_variant,,ENST00000545296,;PPFIA2,3_prime_UTR_variant,,ENST00000551461,;	A	ENSG00000139220	ENST00000549396	Transcript	missense_variant	3765	3604	1202	P/S	Cct/Tct	rs544450027,COSM1993527,COSM3465905	.	.	-1	PPFIA2	HGNC	9246	protein_coding	YES	CCDS55857.1	ENSP00000450337	LIPA2_HUMAN	H0YHK3_HUMAN,F8W1Y8_HUMAN,F8VU88_HUMAN	UPI0000168655	.	deleterious_low_confidence(0.01)	benign(0.333)	31/33	.	hmmpanther:PTHR12587:SF6,hmmpanther:PTHR12587	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGGAAACT	by1000G	5	BLCA
SLC6A15	0	.	GRCh37	12	85285857	85285857	+	Missense_Mutation	SNP	C	C	T	rs759631659	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43G>A	p.Asp15Asn	p.D15N	ENST00000266682	2/12	96	80	15	148	148	0	SLC6A15,missense_variant,p.Asp15Asn,ENST00000551010,;SLC6A15,missense_variant,p.Asp15Asn,ENST00000549540,;SLC6A15,missense_variant,p.Asp15Asn,ENST00000450363,;SLC6A15,missense_variant,p.Asp15Asn,ENST00000266682,;SLC6A15,intron_variant,,ENST00000552192,;SLC6A15,intron_variant,,ENST00000551612,;SLC6A15,intron_variant,,ENST00000551388,;SLC6A15,intron_variant,,ENST00000547240,;	T	ENSG00000072041	ENST00000266682	Transcript	missense_variant	585	43	15	D/N	Gat/Aat	rs759631659	.	.	-1	SLC6A15	HGNC	13621	protein_coding	YES	CCDS9026.1	ENSP00000266682	S6A15_HUMAN	Q68CX0_HUMAN,F8VX16_HUMAN,F8VSG1_HUMAN	UPI0000038BF2	.	deleterious(0.02)	benign(0.121)	2/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACATCATCAT	.	5	BLCA
PZP	0	.	GRCh37	12	9301510	9301510	+	3'UTR	SNP	C	C	T	rs769775723	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*58G>A	.	.	ENST00000261336	36/36	25	21	4	41	41	0	PZP,3_prime_UTR_variant,,ENST00000261336,;PZP,3_prime_UTR_variant,,ENST00000381997,;PZP,downstream_gene_variant,,ENST00000535230,;	T	ENSG00000126838	ENST00000261336	Transcript	3_prime_UTR_variant	4536	.	.	.	.	rs769775723	.	.	-1	PZP	HGNC	9750	protein_coding	YES	CCDS8600.1	ENSP00000261336	PZP_HUMAN	.	UPI000013D168	.	.	.	36/36	.	.	.	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCATTCCTTCT	by1000G	4	BLCA
EEA1	0	.	GRCh37	12	93169883	93169883	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4140C>G	p.Ile1380Met	p.I1380M	ENST00000322349	29/29	34	27	7	29	29	0	EEA1,missense_variant,p.Ile1380Met,ENST00000322349,;PLEKHG7,downstream_gene_variant,,ENST00000344636,;	C	ENSG00000102189	ENST00000322349	Transcript	missense_variant	4405	4140	1380	I/M	atC/atG	.	.	.	-1	EEA1	HGNC	3185	protein_coding	YES	CCDS31874.1	ENSP00000317955	EEA1_HUMAN	.	UPI000013C754	.	deleterious(0)	probably_damaging(0.999)	29/29	.	PROSITE_profiles:PS50178,hmmpanther:PTHR23164:SF2,hmmpanther:PTHR23164,Pfam_domain:PF01363,Gene3D:3.30.40.10,SMART_domains:SM00064,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAAGATATT	.	5	BLCA
CCDC38	0	.	GRCh37	12	96292198	96292198	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579G>C	p.%3D	p.L193L	ENST00000344280	7/16	98	69	29	142	142	0	CCDC38,synonymous_variant,p.%3D,ENST00000344280,;SNRPF,intron_variant,,ENST00000552085,;CCDC38,non_coding_transcript_exon_variant,,ENST00000548771,;	G	ENSG00000165972	ENST00000344280	Transcript	synonymous_variant	1137	579	193	L	ctG/ctC	.	.	.	-1	CCDC38	HGNC	26843	protein_coding	YES	CCDS9056.1	ENSP00000345470	CCD38_HUMAN	F8VY05_HUMAN	UPI00001AEC9B	.	.	.	7/16	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF13863,hmmpanther:PTHR21683:SF7,hmmpanther:PTHR21683	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCAGCTC	.	5	BLCA
SLC9A7P1	0	.	GRCh37	12	98850129	98850129	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.795C>G	.	.	ENST00000554295	1/1	26	22	4	48	48	0	SLC9A7P1,non_coding_transcript_exon_variant,,ENST00000554295,;SLC9A7P1,non_coding_transcript_exon_variant,,ENST00000556476,;SLC9A7P1,non_coding_transcript_exon_variant,,ENST00000370696,;	C	ENSG00000227825	ENST00000554295	Transcript	non_coding_transcript_exon_variant	795	.	.	.	.	.	.	.	-1	SLC9A7P1	HGNC	32679	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCAGAGATG	.	2	BLCA
KDELC1	0	.	GRCh37	13	103438620	103438620	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1453G>A	p.Glu485Lys	p.E485K	ENST00000376004	9/10	88	73	14	124	124	0	KDELC1,missense_variant,p.Glu485Lys,ENST00000376004,;KDELC1,non_coding_transcript_exon_variant,,ENST00000484943,;KDELC1,non_coding_transcript_exon_variant,,ENST00000460338,;	T	ENSG00000134901	ENST00000376004	Transcript	missense_variant	1790	1453	485	E/K	Gag/Aag	.	.	.	-1	KDELC1	HGNC	19350	protein_coding	YES	CCDS9504.1	ENSP00000365172	KDEL1_HUMAN	.	UPI000004C663	.	tolerated(0.4)	benign(0.005)	9/10	.	hmmpanther:PTHR12203:SF21,hmmpanther:PTHR12203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCAGTCT	.	5	BLCA
FAM155A	0	.	GRCh37	13	108518320	108518320	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.625A>G	p.Ser209Gly	p.S209G	ENST00000375915	1/3	49	45	4	90	89	1	FAM155A,missense_variant,p.Ser209Gly,ENST00000375915,;	C	ENSG00000204442	ENST00000375915	Transcript	missense_variant	764	625	209	S/G	Agc/Ggc	.	.	.	-1	FAM155A	HGNC	33877	protein_coding	YES	CCDS32006.1	ENSP00000365080	F155A_HUMAN	.	UPI000045882C	.	tolerated(1)	benign(0)	1/3	.	hmmpanther:PTHR15819,hmmpanther:PTHR15819:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTGCTCCTCA	.	2	BLCA
CARS2	0	.	GRCh37	13	111296830	111296830	+	Nonsense_Mutation	SNP	C	C	A	rs965189	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1318G>T	p.Glu440Ter	p.E440*	ENST00000257347	13/15	49	40	9	92	92	0	CARS2,stop_gained,p.Glu440Ter,ENST00000257347,;CARKD,downstream_gene_variant,,ENST00000309957,;CARS2,splice_region_variant,,ENST00000480437,;CARS2,splice_region_variant,,ENST00000535398,;CARS2,non_coding_transcript_exon_variant,,ENST00000542774,;CARS2,intron_variant,,ENST00000471986,;CARKD,downstream_gene_variant,,ENST00000470164,;CARS2,downstream_gene_variant,,ENST00000543487,;CARS2,stop_gained,p.Glu134Ter,ENST00000487253,;CARS2,splice_region_variant,,ENST00000481787,;CARS2,splice_region_variant,,ENST00000537802,;CARS2,splice_region_variant,,ENST00000535516,;CARS2,splice_region_variant,,ENST00000535615,;CARS2,splice_region_variant,,ENST00000375781,;CARS2,non_coding_transcript_exon_variant,,ENST00000541239,;CARS2,non_coding_transcript_exon_variant,,ENST00000540215,;CARS2,non_coding_transcript_exon_variant,,ENST00000540006,;CARS2,downstream_gene_variant,,ENST00000537404,;CARS2,downstream_gene_variant,,ENST00000537386,;CARS2,downstream_gene_variant,,ENST00000541362,;CARS2,downstream_gene_variant,,ENST00000545506,;AL139385.1,downstream_gene_variant,,ENST00000545740,;	A	ENSG00000134905	ENST00000257347	Transcript	stop_gained	1382	1318	440	E/*	Gaa/Taa	rs965189	.	.	-1	CARS2	HGNC	25695	protein_coding	YES	CCDS9514.1	ENSP00000257347	SYCM_HUMAN	.	UPI0000046055	.	.	.	13/15	.	HAMAP:MF_00041,hmmpanther:PTHR10890,hmmpanther:PTHR10890:SF6,Gene3D:1li5A02,TIGRFAM_domain:TIGR00435,Superfamily_domains:SSF47323	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTTCCTGTA	byFrequency|byCluster|byHapMap	5	BLCA
ATP11A	0	.	GRCh37	13	113508844	113508844	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2243G>A	p.Gly748Glu	p.G748E	ENST00000487903	19/30	21	18	3	65	65	0	ATP11A,missense_variant,p.Gly748Glu,ENST00000375645,;ATP11A,missense_variant,p.Gly748Glu,ENST00000283558,;ATP11A,missense_variant,p.Gly748Glu,ENST00000375630,;ATP11A,missense_variant,p.Gly723Glu,ENST00000418678,;ATP11A,missense_variant,p.Gly748Glu,ENST00000487903,;ATP11A,splice_region_variant,,ENST00000489577,;ATP11A,downstream_gene_variant,,ENST00000459011,;ATP11A,missense_variant,p.Gly169Glu,ENST00000471555,;ATP11A,splice_region_variant,,ENST00000459908,;	A	ENSG00000068650	ENST00000487903	Transcript	missense_variant	2331	2243	748	G/E	gGa/gAa	.	.	.	1	ATP11A	HGNC	13552	protein_coding	YES	CCDS32011.1	ENSP00000420387	AT11A_HUMAN	.	UPI00001FCB27	.	tolerated(0.65)	benign(0.033)	19/30	.	Pfam_domain:PF12710,TIGRFAM_domain:TIGR01652,hmmpanther:PTHR24092:SF33,hmmpanther:PTHR24092	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCGGGTAGG	.	2	BLCA
PCID2	0	.	GRCh37	13	113834355	113834355	+	Missense_Mutation	SNP	C	C	T	rs375098990	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1024G>A	p.Glu342Lys	p.E342K	ENST00000246505	12/15	31	23	8	50	50	0	PCID2,missense_variant,p.Glu288Lys,ENST00000375477,;PCID2,missense_variant,p.Glu286Lys,ENST00000375459,;PCID2,missense_variant,p.Glu288Lys,ENST00000375479,;PCID2,missense_variant,p.Glu288Lys,ENST00000337344,;PCID2,missense_variant,p.Glu342Lys,ENST00000246505,;PCID2,missense_variant,p.Glu286Lys,ENST00000375457,;PCID2,splice_region_variant,,ENST00000473462,;PCID2,splice_region_variant,,ENST00000493650,;PCID2,downstream_gene_variant,,ENST00000480971,;PCID2,downstream_gene_variant,,ENST00000484641,;PCID2,upstream_gene_variant,,ENST00000462653,;PCID2,upstream_gene_variant,,ENST00000463102,;PCID2,downstream_gene_variant,,ENST00000475433,;	T	ENSG00000126226	ENST00000246505	Transcript	missense_variant	1059	1024	342	E/K	Gag/Aag	rs375098990	.	.	-1	PCID2	HGNC	25653	protein_coding	YES	CCDS58302.1	ENSP00000246505	PCID2_HUMAN	.	UPI00001AEF24	.	tolerated(0.54)	benign(0.109)	12/15	.	hmmpanther:PTHR12732,Pfam_domain:PF01399,SMART_domains:SM00753	T:0.0000	T:0	T:0	.	T:0	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCGCTGG	byCluster|by1000G	5	BLCA
PSPC1	0	.	GRCh37	13	20346427	20346427	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.629G>A	p.Arg210Gln	p.R210Q	ENST00000338910	2/9	87	73	13	163	163	0	PSPC1,missense_variant,p.Arg210Gln,ENST00000338910,;PSPC1,missense_variant,p.Arg210Gln,ENST00000427943,;PSPC1,missense_variant,p.Arg210Gln,ENST00000471658,;PSPC1,missense_variant,p.Arg210Gln,ENST00000492741,;	T	ENSG00000121390	ENST00000338910	Transcript	missense_variant	789	629	210	R/Q	cGa/cAa	COSM263151	.	.	-1	PSPC1	HGNC	20320	protein_coding	YES	CCDS41870.1	ENSP00000343966	PSPC1_HUMAN	.	UPI000006F2BE	.	tolerated(0.22)	benign(0.053)	2/9	.	PROSITE_profiles:PS50102,hmmpanther:PTHR23189,hmmpanther:PTHR23189:SF14,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCGTGCA	.	5	BLCA
SACS	0	.	GRCh37	13	23907010	23907010	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11005C>G	p.Gln3669Glu	p.Q3669E	ENST00000382298	10/10	59	46	13	76	76	0	SACS,missense_variant,p.Gln3669Glu,ENST00000382292,;SACS,missense_variant,p.Gln2919Glu,ENST00000402364,;SACS,missense_variant,p.Gln3669Glu,ENST00000382298,;SACS,intron_variant,,ENST00000455470,;SACS,intron_variant,,ENST00000423156,;	C	ENSG00000151835	ENST00000382298	Transcript	missense_variant	11594	11005	3669	Q/E	Caa/Gaa	.	.	.	-1	SACS	HGNC	10519	protein_coding	YES	CCDS9300.2	ENSP00000371735	SACS_HUMAN	.	UPI000047039D	.	.	probably_damaging(0.949)	10/10	.	hmmpanther:PTHR15600:SF26,hmmpanther:PTHR15600	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTGAGGAT	.	5	BLCA
PARP4	0	.	GRCh37	13	25029183	25029183	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2730G>A	p.%3D	p.Q910Q	ENST00000381989	22/34	190	148	42	209	209	0	PARP4,synonymous_variant,p.%3D,ENST00000381989,;PARP4,downstream_gene_variant,,ENST00000480576,;PARP4,non_coding_transcript_exon_variant,,ENST00000484989,;TPTE2P6,intron_variant,,ENST00000445572,;	T	ENSG00000102699	ENST00000381989	Transcript	synonymous_variant	2836	2730	910	Q	caG/caA	.	.	.	-1	PARP4	HGNC	271	protein_coding	YES	CCDS9307.1	ENSP00000371419	PARP4_HUMAN	.	UPI000013C76E	.	.	.	22/34	.	PROSITE_profiles:PS50234,hmmpanther:PTHR10338:SF7,hmmpanther:PTHR10338,Pfam_domain:PF13768,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTCTGCTT	.	5	BLCA
VWA8	0	.	GRCh37	13	42249377	42249377	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4383G>C	p.Lys1461Asn	p.K1461N	ENST00000379310	36/45	20	14	5	43	43	0	VWA8,missense_variant,p.Lys1461Asn,ENST00000379310,;	G	ENSG00000102763	ENST00000379310	Transcript	missense_variant	4452	4383	1461	K/N	aaG/aaC	COSM947476	.	.	-1	VWA8	HGNC	29071	protein_coding	YES	CCDS41881.1	ENSP00000368612	VWA8_HUMAN	.	UPI00001606AC	.	tolerated(0.09)	possibly_damaging(0.722)	36/45	.	hmmpanther:PTHR21610,hmmpanther:PTHR21610:SF9	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCTTTGA	.	5	BLCA
LRCH1	0	.	GRCh37	13	47255931	47255931	+	Missense_Mutation	SNP	C	C	T	rs761448015	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.635C>T	p.Ser212Phe	p.S212F	ENST00000389797	4/20	32	26	6	48	48	0	LRCH1,missense_variant,p.Ser212Phe,ENST00000389797,;LRCH1,missense_variant,p.Ser212Phe,ENST00000311191,;LRCH1,missense_variant,p.Ser212Phe,ENST00000389798,;LRCH1,5_prime_UTR_variant,,ENST00000478412,;LRCH1,5_prime_UTR_variant,,ENST00000463929,;LRCH1,non_coding_transcript_exon_variant,,ENST00000443945,;	T	ENSG00000136141	ENST00000389797	Transcript	missense_variant	772	635	212	S/F	tCt/tTt	rs761448015	.	.	1	LRCH1	HGNC	20309	protein_coding	YES	CCDS53865.1	ENSP00000374447	LRCH1_HUMAN	C9JWE0_HUMAN,C9J5B8_HUMAN	UPI00015DFE06	.	deleterious(0)	possibly_damaging(0.828)	4/20	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23155:SF434,hmmpanther:PTHR23155,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00364,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAATCTCTAC	.	5	BLCA
RB1	0	.	GRCh37	13	49051505	49051505	+	Missense_Mutation	SNP	G	G	C	rs764171812	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2678G>C	p.Gly893Ala	p.G893A	ENST00000267163	26/27	13	9	4	26	26	0	RB1,missense_variant,p.Gly893Ala,ENST00000267163,;RB1,non_coding_transcript_exon_variant,,ENST00000484879,;RB1,non_coding_transcript_exon_variant,,ENST00000531171,;	C	ENSG00000139687	ENST00000267163	Transcript	missense_variant	2816	2678	893	G/A	gGa/gCa	rs764171812	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	tolerated_low_confidence(0.31)	benign(0.013)	26/27	.	hmmpanther:PTHR13742,Pfam_domain:PF08934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT	CCCAGGAGAGT	.	3	BLCA
TRIM13	0	.	GRCh37	13	50587172	50587172	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1105G>C	p.Glu369Gln	p.E369Q	ENST00000356017	4/4	108	90	18	138	138	0	TRIM13,missense_variant,p.Glu366Gln,ENST00000420995,;TRIM13,missense_variant,p.Glu369Gln,ENST00000356017,;TRIM13,missense_variant,p.Glu366Gln,ENST00000378182,;TRIM13,missense_variant,p.Glu366Gln,ENST00000457662,;TRIM13,missense_variant,p.Glu369Gln,ENST00000298772,;TRIM13,downstream_gene_variant,,ENST00000378183,;TRIM13,downstream_gene_variant,,ENST00000442421,;KCNRG,upstream_gene_variant,,ENST00000360473,;KCNRG,upstream_gene_variant,,ENST00000312942,;TRIM13,intron_variant,,ENST00000478111,;TRIM13,intron_variant,,ENST00000474805,;	C	ENSG00000204977	ENST00000356017	Transcript	missense_variant	1493	1105	369	E/Q	Gaa/Caa	.	.	.	1	TRIM13	HGNC	9976	protein_coding	YES	CCDS41888.1	ENSP00000348299	TRI13_HUMAN	.	UPI00001FCDDE	.	tolerated(0.44)	benign(0.004)	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATAGAACAA	.	5	BLCA
MYCBP2	0	.	GRCh37	13	77759426	77759426	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4417G>T	p.Glu1473Ter	p.E1473*	ENST00000544440	32/83	104	84	19	135	135	0	MYCBP2,stop_gained,p.Glu1473Ter,ENST00000357337,;MYCBP2,stop_gained,p.Glu1473Ter,ENST00000544440,;MYCBP2,stop_gained,p.Glu1511Ter,ENST00000407578,;MYCBP2,5_prime_UTR_variant,,ENST00000360084,;	A	ENSG00000005810	ENST00000544440	Transcript	stop_gained	4435	4417	1473	E/*	Gaa/Taa	.	.	.	-1	MYCBP2	HGNC	23386	protein_coding	YES	.	ENSP00000444596	MYCB2_HUMAN	.	UPI0000212757	.	.	.	32/83	.	hmmpanther:PTHR12846:SF14,hmmpanther:PTHR12846	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGATA	.	5	BLCA
TGDS	0	.	GRCh37	13	95233385	95233385	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.515C>A	p.Ala172Asp	p.A172D	ENST00000261296	6/12	53	46	7	73	73	0	TGDS,missense_variant,p.Ala172Asp,ENST00000261296,;TGDS,non_coding_transcript_exon_variant,,ENST00000498294,;TGDS,non_coding_transcript_exon_variant,,ENST00000470480,;	T	ENSG00000088451	ENST00000261296	Transcript	missense_variant	636	515	172	A/D	gCt/gAt	.	.	.	-1	TGDS	HGNC	20324	protein_coding	YES	CCDS9471.1	ENSP00000261296	TGDS_HUMAN	Q2TU31_HUMAN	UPI000006E8F4	.	deleterious(0)	benign(0.084)	6/12	.	Superfamily_domains:SSF51735,Pfam_domain:PF01370,Gene3D:3.40.50.720,hmmpanther:PTHR10366:SF41,hmmpanther:PTHR10366	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCAGCTGCT	.	4	BLCA
UGGT2	0	.	GRCh37	13	96642272	96642272	+	Missense_Mutation	SNP	C	C	G	rs754285217	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.886G>C	p.Glu296Gln	p.E296Q	ENST00000376747	8/39	112	96	16	154	154	0	UGGT2,missense_variant,p.Glu296Gln,ENST00000397618,;UGGT2,missense_variant,p.Glu296Gln,ENST00000376747,;UGGT2,intron_variant,,ENST00000376714,;UGGT2,downstream_gene_variant,,ENST00000376712,;UGGT2,non_coding_transcript_exon_variant,,ENST00000467305,;UGGT2,non_coding_transcript_exon_variant,,ENST00000465196,;UGGT2,non_coding_transcript_exon_variant,,ENST00000461329,;	G	ENSG00000102595	ENST00000376747	Transcript	missense_variant	957	886	296	E/Q	Gag/Cag	rs754285217	.	.	-1	UGGT2	HGNC	15664	protein_coding	YES	CCDS9480.1	ENSP00000365938	UGGG2_HUMAN	.	UPI00001FC9AA	.	deleterious(0.03)	benign(0.382)	8/39	.	hmmpanther:PTHR11226:SF1,hmmpanther:PTHR11226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTCTCAATCA	byFrequency	4	BLCA
FARP1	0	.	GRCh37	13	98865514	98865514	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18G>A	p.%3D	p.Q6Q	ENST00000319562	2/27	92	78	13	147	147	0	FARP1,synonymous_variant,p.%3D,ENST00000319562,;FARP1,synonymous_variant,p.%3D,ENST00000376586,;FARP1,synonymous_variant,p.%3D,ENST00000595437,;FARP1,synonymous_variant,p.%3D,ENST00000598389,;FARP1,synonymous_variant,p.%3D,ENST00000376581,;MIR3170,downstream_gene_variant,,ENST00000582699,;FARP1,downstream_gene_variant,,ENST00000600648,;	A	ENSG00000152767	ENST00000319562	Transcript	synonymous_variant	283	18	6	Q	caG/caA	.	.	.	1	FARP1	HGNC	3591	protein_coding	YES	CCDS9487.1	ENSP00000322926	FARP1_HUMAN	M0QYB0_HUMAN	UPI000007052C	.	.	.	2/27	.	hmmpanther:PTHR12673,hmmpanther:PTHR12673:SF105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCAGAGGCC	.	4	BLCA
BAG5	0	.	GRCh37	14	104026786	104026786	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.839G>A	p.Arg280Lys	p.R280K	ENST00000337322	2/2	52	45	7	72	72	0	BAG5,missense_variant,p.Arg239Lys,ENST00000299204,;BAG5,missense_variant,p.Arg280Lys,ENST00000337322,;BAG5,missense_variant,p.Arg239Lys,ENST00000445922,;KLC1,upstream_gene_variant,,ENST00000557172,;APOPT1,upstream_gene_variant,,ENST00000440963,;RP11-73M18.2,upstream_gene_variant,,ENST00000472726,;BAG5,downstream_gene_variant,,ENST00000557666,;APOPT1,upstream_gene_variant,,ENST00000247618,;APOPT1,upstream_gene_variant,,ENST00000409074,;APOPT1,upstream_gene_variant,,ENST00000495778,;APOPT1,upstream_gene_variant,,ENST00000556253,;RP11-894P9.2,intron_variant,,ENST00000556332,;APOPT1,upstream_gene_variant,,ENST00000477116,;APOPT1,upstream_gene_variant,,ENST00000473127,;APOPT1,upstream_gene_variant,,ENST00000476323,;APOPT1,upstream_gene_variant,,ENST00000492189,;APOPT1,upstream_gene_variant,,ENST00000497901,;APOPT1,upstream_gene_variant,,ENST00000489117,;APOPT1,upstream_gene_variant,,ENST00000554625,;APOPT1,upstream_gene_variant,,ENST00000458117,;	T	ENSG00000166170	ENST00000337322	Transcript	missense_variant	1130	839	280	R/K	aGa/aAa	.	.	.	-1	BAG5	HGNC	941	protein_coding	YES	CCDS41995.1	ENSP00000338814	BAG5_HUMAN	G3V274_HUMAN	UPI00001FDC93	.	tolerated_low_confidence(0.09)	possibly_damaging(0.799)	2/2	.	Superfamily_domains:SSF63491,SMART_domains:SM00264,Pfam_domain:PF02179,Gene3D:1.20.58.120,hmmpanther:PTHR12329,hmmpanther:PTHR12329:SF2,PROSITE_profiles:PS51035	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AATTTCTGATT	.	3	BLCA
AKT1	0	.	GRCh37	14	105258988	105258988	+	5'UTR	SNP	G	G	T	rs28730786	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8C>A	.	.	ENST00000554581	1/13	56	43	12	91	91	0	AKT1,5_prime_UTR_variant,,ENST00000407796,;AKT1,5_prime_UTR_variant,,ENST00000555926,;AKT1,5_prime_UTR_variant,,ENST00000554581,;AKT1,5_prime_UTR_variant,,ENST00000402615,;AKT1,5_prime_UTR_variant,,ENST00000349310,;AKT1,5_prime_UTR_variant,,ENST00000555528,;AKT1,5_prime_UTR_variant,,ENST00000554848,;AKT1,downstream_gene_variant,,ENST00000553797,;AKT1,downstream_gene_variant,,ENST00000557494,;	T	ENSG00000142208	ENST00000554581	Transcript	5_prime_UTR_variant	1474	.	.	.	.	rs28730786	.	.	-1	AKT1	HGNC	391	protein_coding	YES	CCDS9994.1	ENSP00000451828	AKT1_HUMAN	B0LPE5_HUMAN,Q9BV07_HUMAN,G3V4I6_HUMAN,G3V3K5_HUMAN,B7Z5R1_HUMAN,B3KXD7_HUMAN	UPI0000070813	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TGCCCGAGGCT	byFrequency|byCluster	3	BLCA
AKT1	0	.	GRCh37	14	105258994	105258994	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14G>A	.	.	ENST00000554581	1/13	53	41	12	85	85	0	AKT1,5_prime_UTR_variant,,ENST00000407796,;AKT1,5_prime_UTR_variant,,ENST00000555926,;AKT1,5_prime_UTR_variant,,ENST00000554581,;AKT1,5_prime_UTR_variant,,ENST00000402615,;AKT1,5_prime_UTR_variant,,ENST00000349310,;AKT1,5_prime_UTR_variant,,ENST00000555528,;AKT1,5_prime_UTR_variant,,ENST00000554848,;AKT1,downstream_gene_variant,,ENST00000553797,;AKT1,downstream_gene_variant,,ENST00000557494,;	T	ENSG00000142208	ENST00000554581	Transcript	5_prime_UTR_variant	1468	.	.	.	.	.	.	.	-1	AKT1	HGNC	391	protein_coding	YES	CCDS9994.1	ENSP00000451828	AKT1_HUMAN	B0LPE5_HUMAN,Q9BV07_HUMAN,G3V4I6_HUMAN,G3V3K5_HUMAN,B7Z5R1_HUMAN,B3KXD7_HUMAN	UPI0000070813	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AGGCTCCCGCG	.	3	BLCA
PNP	0	.	GRCh37	14	20943019	20943019	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.373G>C	p.Glu125Gln	p.E125Q	ENST00000361505	4/6	37	25	11	42	42	0	PNP,missense_variant,p.Glu164Gln,ENST00000553591,;PNP,missense_variant,p.Glu46Gln,ENST00000554065,;PNP,missense_variant,p.Glu125Gln,ENST00000361505,;PNP,downstream_gene_variant,,ENST00000553418,;RP11-203M5.8,non_coding_transcript_exon_variant,,ENST00000554678,;PNP,non_coding_transcript_exon_variant,,ENST00000557229,;PNP,non_coding_transcript_exon_variant,,ENST00000554056,;PNP,non_coding_transcript_exon_variant,,ENST00000556754,;PNP,downstream_gene_variant,,ENST00000556293,;	C	ENSG00000198805	ENST00000361505	Transcript	missense_variant	519	373	125	E/Q	Gag/Cag	.	.	.	1	PNP	HGNC	7892	protein_coding	YES	CCDS9552.1	ENSP00000354532	PNPH_HUMAN	Q9P1G4_HUMAN,Q8N7G1_HUMAN,G3V393_HUMAN,G3V2H3_HUMAN	UPI00001FCF7D	.	tolerated(0.21)	benign(0.016)	4/6	.	Superfamily_domains:SSF53167,PIRSF_domain:PIRSF000477,Pfam_domain:PF01048,TIGRFAM_domain:TIGR01697,Gene3D:3.40.50.1580,TIGRFAM_domain:TIGR01700,hmmpanther:PTHR11904,hmmpanther:PTHR11904:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTGAGGTT	.	5	BLCA
PNP	0	.	GRCh37	14	20943315	20943315	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Glu186Lys	p.E186K	ENST00000361505	5/6	53	44	9	70	70	0	PNP,missense_variant,p.Glu186Lys,ENST00000361505,;PNP,downstream_gene_variant,,ENST00000553591,;PNP,downstream_gene_variant,,ENST00000554065,;PNP,downstream_gene_variant,,ENST00000553418,;RP11-203M5.8,intron_variant,,ENST00000554678,;PNP,non_coding_transcript_exon_variant,,ENST00000557229,;PNP,non_coding_transcript_exon_variant,,ENST00000554056,;PNP,non_coding_transcript_exon_variant,,ENST00000556754,;PNP,downstream_gene_variant,,ENST00000556293,;	A	ENSG00000198805	ENST00000361505	Transcript	missense_variant	702	556	186	E/K	Gag/Aag	.	.	.	1	PNP	HGNC	7892	protein_coding	YES	CCDS9552.1	ENSP00000354532	PNPH_HUMAN	Q9P1G4_HUMAN,Q8N7G1_HUMAN,G3V393_HUMAN,G3V2H3_HUMAN	UPI00001FCF7D	.	tolerated(0.3)	benign(0.002)	5/6	.	Superfamily_domains:SSF53167,PIRSF_domain:PIRSF000477,Pfam_domain:PF01048,TIGRFAM_domain:TIGR01697,Gene3D:3.40.50.1580,TIGRFAM_domain:TIGR01700,hmmpanther:PTHR11904,hmmpanther:PTHR11904:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACGTGAGCTA	.	5	BLCA
EDDM3A	0	.	GRCh37	14	21216202	21216202	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*19C>G	.	.	ENST00000326842	2/2	46	42	4	54	54	0	EDDM3A,3_prime_UTR_variant,,ENST00000326842,;	G	ENSG00000181562	ENST00000326842	Transcript	3_prime_UTR_variant	590	.	.	.	.	.	.	.	1	EDDM3A	HGNC	16978	protein_coding	YES	CCDS9556.1	ENSP00000315098	EP3A_HUMAN	.	UPI000003EE00	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCCTCAGATA	.	2	BLCA
EDDM3B	0	.	GRCh37	14	21238307	21238307	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3G>C	.	.	ENST00000326783	2/2	33	30	3	42	42	0	EDDM3B,5_prime_UTR_variant,,ENST00000326783,;	C	ENSG00000181552	ENST00000326783	Transcript	5_prime_UTR_variant	96	.	.	.	.	.	.	.	1	EDDM3B	HGNC	19223	protein_coding	YES	CCDS9557.1	ENSP00000314810	EP3B_HUMAN	.	UPI000003EDF8	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGACTGAGATG	.	2	BLCA
SUPT16H	0	.	GRCh37	14	21821946	21821946	+	Missense_Mutation	SNP	C	C	G	rs750452954	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2836G>C	p.Glu946Gln	p.E946Q	ENST00000216297	24/26	99	75	24	133	133	0	SUPT16H,missense_variant,p.Glu946Gln,ENST00000216297,;RPGRIP1,downstream_gene_variant,,ENST00000400017,;RPGRIP1,downstream_gene_variant,,ENST00000382933,;RPGRIP1,downstream_gene_variant,,ENST00000557771,;RPGRIP1,downstream_gene_variant,,ENST00000307974,;RPGRIP1,downstream_gene_variant,,ENST00000555587,;RPGRIP1,downstream_gene_variant,,ENST00000206660,;RPGRIP1,downstream_gene_variant,,ENST00000556336,;SUPT16H,non_coding_transcript_exon_variant,,ENST00000552829,;SUPT16H,non_coding_transcript_exon_variant,,ENST00000557394,;RPGRIP1,downstream_gene_variant,,ENST00000555489,;RPGRIP1,downstream_gene_variant,,ENST00000553927,;RPGRIP1,downstream_gene_variant,,ENST00000555322,;	G	ENSG00000092201	ENST00000216297	Transcript	missense_variant	3175	2836	946	E/Q	Gag/Cag	rs750452954	.	.	-1	SUPT16H	HGNC	11465	protein_coding	YES	CCDS9569.1	ENSP00000216297	SP16H_HUMAN	.	UPI0000035D5C	.	deleterious(0.02)	benign(0.382)	24/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13980:SF15,hmmpanther:PTHR13980	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTCATCTT	.	5	BLCA
TRAV14DV4	0	.	GRCh37	14	22392735	22392735	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.258G>A	p.%3D	p.L86L	ENST00000390440	2/2	68	51	16	95	95	0	TRAV14DV4,synonymous_variant,p.%3D,ENST00000390440,;	A	ENSG00000211792	ENST00000390440	Transcript	synonymous_variant	333	258	86	L	ttG/ttA	.	.	.	1	TRAV14DV4	HGNC	12110	TR_V_gene	YES	.	ENSP00000446015	.	A0JD09_HUMAN	UPI000011C70F	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF6,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTGAATTT	.	5	BLCA
TRAV27	0	.	GRCh37	14	22616478	22616478	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.219G>C	p.%3D	p.V73V	ENST00000390457	2/2	36	33	3	52	52	0	TRAV27,synonymous_variant,p.%3D,ENST00000390457,;	C	ENSG00000211809	ENST00000390457	Transcript	synonymous_variant	316	219	73	V	gtG/gtC	.	.	.	1	TRAV27	HGNC	12125	TR_V_gene	YES	.	ENSP00000451735	.	.	UPI000011D12A	.	.	.	2/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50835,hmmpanther:PTHR19433,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAGTGAAGAA	.	2	BLCA
SLC7A8	0	.	GRCh37	14	23597298	23597298	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1371G>A	p.%3D	p.L457L	ENST00000316902	10/11	34	26	8	28	28	0	SLC7A8,synonymous_variant,p.%3D,ENST00000529705,;SLC7A8,synonymous_variant,p.%3D,ENST00000422941,;SLC7A8,synonymous_variant,p.%3D,ENST00000316902,;SLC7A8,synonymous_variant,p.%3D,ENST00000453702,;SLC7A8,intron_variant,,ENST00000469263,;SLC7A8,3_prime_UTR_variant,,ENST00000339733,;SLC7A8,3_prime_UTR_variant,,ENST00000528860,;SLC7A8,non_coding_transcript_exon_variant,,ENST00000397310,;SLC7A8,downstream_gene_variant,,ENST00000528806,;SLC7A8,downstream_gene_variant,,ENST00000528186,;	T	ENSG00000092068	ENST00000316902	Transcript	synonymous_variant	2097	1371	457	L	ctG/ctA	.	.	.	-1	SLC7A8	HGNC	11066	protein_coding	YES	CCDS9590.1	ENSP00000320378	LAT2_HUMAN	E9PQT4_HUMAN,E9PIC3_HUMAN,B3KSX4_HUMAN	UPI000012E235	.	.	.	10/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11785:SF113,hmmpanther:PTHR11785,TIGRFAM_domain:TIGR00911,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGTCAGCAT	.	5	BLCA
EFS	0	.	GRCh37	14	23826696	23826696	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1425G>C	p.Lys475Asn	p.K475N	ENST00000216733	6/6	36	26	10	77	77	0	EFS,missense_variant,p.Lys382Asn,ENST00000351354,;EFS,missense_variant,p.Lys475Asn,ENST00000216733,;EFS,missense_variant,p.Lys306Asn,ENST00000429593,;SLC22A17,upstream_gene_variant,,ENST00000354772,;SLC22A17,upstream_gene_variant,,ENST00000206544,;SLC22A17,upstream_gene_variant,,ENST00000397267,;SLC22A17,upstream_gene_variant,,ENST00000397260,;RP11-124D2.3,downstream_gene_variant,,ENST00000554010,;SLC22A17,upstream_gene_variant,,ENST00000474057,;SLC22A17,upstream_gene_variant,,ENST00000557699,;	G	ENSG00000100842	ENST00000216733	Transcript	missense_variant	2033	1425	475	K/N	aaG/aaC	.	.	.	-1	EFS	HGNC	16898	protein_coding	YES	CCDS9595.1	ENSP00000216733	EFS_HUMAN	.	UPI0000129D21	.	deleterious(0)	probably_damaging(0.93)	6/6	.	Pfam_domain:PF12026,hmmpanther:PTHR10654:SF13,hmmpanther:PTHR10654	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTCTTGCT	.	5	BLCA
MYH6	0	.	GRCh37	14	23855641	23855641	+	Silent	SNP	C	C	G	rs763639676	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4842G>C	p.%3D	p.L1614L	ENST00000405093	33/39	67	55	11	116	116	0	MYH6,synonymous_variant,p.%3D,ENST00000405093,;MYH6,synonymous_variant,p.%3D,ENST00000356287,;MIR208A,downstream_gene_variant,,ENST00000362287,;	G	ENSG00000197616	ENST00000405093	Transcript	synonymous_variant	4913	4842	1614	L	ctG/ctC	rs763639676	.	.	-1	MYH6	HGNC	7576	protein_coding	YES	CCDS9600.1	ENSP00000386041	MYH6_HUMAN	Q9UQV1_HUMAN,A8CLL2_HUMAN	UPI0000160969	.	.	.	33/39	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF260,hmmpanther:PTHR13140,Pfam_domain:PF01576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCAGGAC	.	5	BLCA
MYH7	0	.	GRCh37	14	23886468	23886468	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4413G>A	p.%3D	p.Q1471Q	ENST00000355349	32/40	92	77	15	117	117	0	MYH7,synonymous_variant,p.%3D,ENST00000355349,;MIR208B,downstream_gene_variant,,ENST00000401172,;CTD-2201G16.1,downstream_gene_variant,,ENST00000557368,;	T	ENSG00000092054	ENST00000355349	Transcript	synonymous_variant	4576	4413	1471	Q	caG/caA	.	.	.	-1	MYH7	HGNC	7577	protein_coding	YES	CCDS9601.1	ENSP00000347507	MYH7_HUMAN	Q59EV3_HUMAN,L0L5E6_HUMAN,A8CLN2_HUMAN,A8CLL2_HUMAN,A6N931_HUMAN,A6N930_HUMAN	UPI000014019B	.	.	.	32/40	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF279,hmmpanther:PTHR13140,Pfam_domain:PF01576,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGCGA	.	5	BLCA
PSMA6	0	.	GRCh37	14	35786501	35786501	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.730G>A	p.Glu244Lys	p.E244K	ENST00000261479	7/7	63	28	35	106	106	0	PSMA6,missense_variant,p.Glu225Lys,ENST00000540871,;PSMA6,missense_variant,p.Glu165Lys,ENST00000555764,;PSMA6,missense_variant,p.Glu250Lys,ENST00000553809,;PSMA6,missense_variant,p.Glu83Lys,ENST00000556221,;PSMA6,missense_variant,p.Glu244Lys,ENST00000261479,;PSMA6,3_prime_UTR_variant,,ENST00000556506,;PSMA6,3_prime_UTR_variant,,ENST00000554541,;KIAA0391,3_prime_UTR_variant,,ENST00000557565,;PSMA6,3_prime_UTR_variant,,ENST00000554961,;PSMA6,non_coding_transcript_exon_variant,,ENST00000554457,;PSMA6,downstream_gene_variant,,ENST00000554620,;PSMA6,downstream_gene_variant,,ENST00000553688,;	A	ENSG00000100902	ENST00000261479	Transcript	missense_variant	850	730	244	E/K	Gag/Aag	COSM416704	.	.	1	PSMA6	HGNC	9535	protein_coding	YES	CCDS9655.1	ENSP00000261479	PSA6_HUMAN	Q9BZ93_HUMAN,B4DQR4_HUMAN	UPI0000001C1E	.	deleterious(0)	benign(0.081)	7/7	.	hmmpanther:PTHR11599,hmmpanther:PTHR11599:SF11,Gene3D:3.60.20.10,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGCAGAGAGA	.	5	BLCA
NFKBIA	0	.	GRCh37	14	35871602	35871602	+	Missense_Mutation	SNP	C	C	G	rs116801398	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.904G>C	p.Glu302Gln	p.E302Q	ENST00000216797	5/6	66	54	12	77	77	0	NFKBIA,missense_variant,p.Glu212Gln,ENST00000557389,;NFKBIA,missense_variant,p.Glu302Gln,ENST00000216797,;NFKBIA,missense_variant,p.Glu259Gln,ENST00000557140,;NFKBIA,downstream_gene_variant,,ENST00000553342,;NFKBIA,downstream_gene_variant,,ENST00000557100,;NFKBIA,splice_region_variant,,ENST00000554001,;NFKBIA,splice_region_variant,,ENST00000555371,;NFKBIA,downstream_gene_variant,,ENST00000557459,;NFKBIA,downstream_gene_variant,,ENST00000555629,;NFKBIA,downstream_gene_variant,,ENST00000556664,;	G	ENSG00000100906	ENST00000216797	Transcript	missense_variant	1006	904	302	E/Q	Gag/Cag	rs116801398,COSM3814739	.	.	-1	NFKBIA	HGNC	7797	protein_coding	YES	CCDS9656.1	ENSP00000216797	IKBA_HUMAN	Q9UGJ5_HUMAN,G3V286_HUMAN	UPI000004F0A9	.	tolerated(0.1)	benign(0.226)	5/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24139	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCGTCCT	byFrequency|byCluster|by1000G	5	BLCA
NFKBIA	0	.	GRCh37	14	35872475	35872475	+	Missense_Mutation	SNP	C	C	G	rs757053022	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.428G>C	p.Arg143Pro	p.R143P	ENST00000216797	3/6	65	61	4	98	98	0	NFKBIA,missense_variant,p.Arg53Pro,ENST00000557389,;NFKBIA,missense_variant,p.Arg143Pro,ENST00000216797,;NFKBIA,missense_variant,p.Arg143Pro,ENST00000557140,;NFKBIA,downstream_gene_variant,,ENST00000553342,;NFKBIA,non_coding_transcript_exon_variant,,ENST00000557100,;NFKBIA,3_prime_UTR_variant,,ENST00000554001,;NFKBIA,non_coding_transcript_exon_variant,,ENST00000557459,;NFKBIA,non_coding_transcript_exon_variant,,ENST00000556664,;NFKBIA,downstream_gene_variant,,ENST00000555629,;NFKBIA,upstream_gene_variant,,ENST00000555371,;	G	ENSG00000100906	ENST00000216797	Transcript	missense_variant	530	428	143	R/P	cGa/cCa	rs757053022,COSM1607646	.	.	-1	NFKBIA	HGNC	7797	protein_coding	YES	CCDS9656.1	ENSP00000216797	IKBA_HUMAN	Q9UGJ5_HUMAN,G3V286_HUMAN	UPI000004F0A9	.	tolerated(0.11)	probably_damaging(0.96)	3/6	.	Superfamily_domains:SSF48403,SMART_domains:SM00248,Pfam_domain:PF12796,Gene3D:1.25.40.20,hmmpanther:PTHR24139,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R143Q|c.428G>A|3	MUTECT|MUSE	TTCCTCGAAAG	byFrequency	2	BLCA
FBXO34	0	.	GRCh37	14	55817538	55817538	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430G>C	p.Asp144His	p.D144H	ENST00000313833	2/2	21	18	3	32	32	0	FBXO34,missense_variant,p.Asp144His,ENST00000440021,;FBXO34,missense_variant,p.Asp144His,ENST00000313833,;FBXO34,non_coding_transcript_exon_variant,,ENST00000555087,;FBXO34,non_coding_transcript_exon_variant,,ENST00000554940,;FBXO34,intron_variant,,ENST00000557647,;FBXO34,missense_variant,p.Asp10His,ENST00000555280,;	C	ENSG00000178974	ENST00000313833	Transcript	missense_variant	675	430	144	D/H	Gat/Cat	.	.	.	1	FBXO34	HGNC	20201	protein_coding	YES	CCDS32086.1	ENSP00000313159	FBX34_HUMAN	G3V2U9_HUMAN	UPI00001FD5AD	.	deleterious(0)	probably_damaging(0.959)	2/2	.	hmmpanther:PTHR16271:SF11,hmmpanther:PTHR16271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATATTGATGGG	.	2	BLCA
ARID4A	0	.	GRCh37	14	58831508	58831508	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2701G>C	p.Glu901Gln	p.E901Q	ENST00000355431	20/24	39	29	9	72	72	0	ARID4A,missense_variant,p.Glu901Gln,ENST00000355431,;ARID4A,missense_variant,p.Glu901Gln,ENST00000395168,;ARID4A,missense_variant,p.Glu579Gln,ENST00000417477,;ARID4A,missense_variant,p.Glu901Gln,ENST00000431317,;ARID4A,missense_variant,p.Glu901Gln,ENST00000348476,;ARID4A,downstream_gene_variant,,ENST00000469635,;ARID4A,upstream_gene_variant,,ENST00000466065,;	C	ENSG00000032219	ENST00000355431	Transcript	missense_variant	3074	2701	901	E/Q	Gaa/Caa	.	.	.	1	ARID4A	HGNC	9885	protein_coding	YES	CCDS9732.1	ENSP00000347602	ARI4A_HUMAN	H7C485_HUMAN,C9JIF4_HUMAN	UPI000013FD01	.	tolerated_low_confidence(0.16)	possibly_damaging(0.864)	20/24	.	hmmpanther:PTHR13964:SF1,hmmpanther:PTHR13964	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTGAACAG	.	5	BLCA
C14orf39	0	.	GRCh37	14	60923759	60923759	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1234G>C	p.Glu412Gln	p.E412Q	ENST00000321731	15/18	84	79	5	132	132	0	C14orf39,missense_variant,p.Glu412Gln,ENST00000321731,;C14orf39,3_prime_UTR_variant,,ENST00000557138,;C14orf39,upstream_gene_variant,,ENST00000498565,;	G	ENSG00000179008	ENST00000321731	Transcript	missense_variant	1394	1234	412	E/Q	Gaa/Caa	.	.	.	-1	C14orf39	HGNC	19849	protein_coding	YES	CCDS9746.1	ENSP00000324920	S6OS1_HUMAN	G3V493_HUMAN,G3V3U9_HUMAN	UPI0000140C15	.	deleterious(0.01)	possibly_damaging(0.859)	15/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTCTACTT	.	2	BLCA
SIX4	0	.	GRCh37	14	61190185	61190185	+	Missense_Mutation	SNP	C	C	G	rs755306854	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608G>C	p.Gly203Ala	p.G203A	ENST00000216513	1/3	15	11	4	22	22	0	SIX4,missense_variant,p.Gly195Ala,ENST00000556952,;SIX4,missense_variant,p.Gly203Ala,ENST00000216513,;SIX4,upstream_gene_variant,,ENST00000554079,;	G	ENSG00000100625	ENST00000216513	Transcript	missense_variant	668	608	203	G/A	gGa/gCa	rs755306854	.	.	-1	SIX4	HGNC	10890	protein_coding	YES	CCDS9749.2	ENSP00000216513	SIX4_HUMAN	.	UPI000066D924	.	deleterious(0.02)	probably_damaging(0.998)	1/3	.	hmmpanther:PTHR10390,hmmpanther:PTHR10390:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CGGCTCCCAGC	.	4	BLCA
SIX4	0	.	GRCh37	14	61190745	61190745	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48C>G	p.Ile16Met	p.I16M	ENST00000216513	1/3	83	52	30	136	135	0	SIX4,missense_variant,p.Ile8Met,ENST00000556952,;SIX4,missense_variant,p.Ile16Met,ENST00000216513,;SIX4,upstream_gene_variant,,ENST00000554079,;	C	ENSG00000100625	ENST00000216513	Transcript	missense_variant	108	48	16	I/M	atC/atG	.	.	.	-1	SIX4	HGNC	10890	protein_coding	YES	CCDS9749.2	ENSP00000216513	SIX4_HUMAN	.	UPI000066D924	.	deleterious_low_confidence(0)	probably_damaging(0.986)	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTGATGTC	.	5	BLCA
SIX4	0	.	GRCh37	14	61190788	61190788	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5C>G	p.Ser2Cys	p.S2C	ENST00000216513	1/3	54	35	18	97	97	0	SIX4,missense_variant,p.Ser2Cys,ENST00000216513,;SIX4,intron_variant,,ENST00000556952,;SIX4,upstream_gene_variant,,ENST00000554079,;	C	ENSG00000100625	ENST00000216513	Transcript	missense_variant	65	5	2	S/C	tCc/tGc	.	.	.	-1	SIX4	HGNC	10890	protein_coding	YES	CCDS9749.2	ENSP00000216513	SIX4_HUMAN	.	UPI000066D924	.	deleterious_low_confidence(0)	probably_damaging(0.984)	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGAGGACATT	.	2	BLCA
SYNE2	0	.	GRCh37	14	64408435	64408435	+	Missense_Mutation	SNP	C	C	T	rs755793819	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164C>T	p.Ser55Phe	p.S55F	ENST00000358025	4/116	66	62	4	116	116	0	SYNE2,missense_variant,p.Ser55Phe,ENST00000554584,;SYNE2,missense_variant,p.Ser55Phe,ENST00000356081,;SYNE2,missense_variant,p.Ser55Phe,ENST00000341472,;SYNE2,missense_variant,p.Ser55Phe,ENST00000358025,;SYNE2,missense_variant,p.Ser55Phe,ENST00000344113,;SYNE2,5_prime_UTR_variant,,ENST00000357395,;	T	ENSG00000054654	ENST00000358025	Transcript	missense_variant	394	164	55	S/F	tCc/tTc	rs755793819	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	possibly_damaging(0.879)	4/116	.	PROSITE_profiles:PS50021,hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATATCCGACC	.	2	BLCA
SYNE2	0	.	GRCh37	14	64634013	64634013	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16668C>T	p.%3D	p.L5556L	ENST00000358025	91/116	46	39	6	65	65	0	SYNE2,synonymous_variant,p.%3D,ENST00000554584,;SYNE2,synonymous_variant,p.%3D,ENST00000394768,;SYNE2,synonymous_variant,p.%3D,ENST00000344113,;SYNE2,synonymous_variant,p.%3D,ENST00000357395,;SYNE2,synonymous_variant,p.%3D,ENST00000358025,;SYNE2,synonymous_variant,p.%3D,ENST00000555002,;ESR2,intron_variant,,ENST00000556275,;ESR2,intron_variant,,ENST00000542956,;SYNE2,non_coding_transcript_exon_variant,,ENST00000556342,;SYNE2,synonymous_variant,p.%3D,ENST00000553289,;SYNE2,synonymous_variant,p.%3D,ENST00000555612,;SYNE2,downstream_gene_variant,,ENST00000557024,;	T	ENSG00000054654	ENST00000358025	Transcript	synonymous_variant	16898	16668	5556	L	ctC/ctT	COSM553496	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	.	91/116	.	hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCTCAAGCT	.	4	BLCA
MTHFD1	0	.	GRCh37	14	64877818	64877818	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.137G>C	p.Arg46Thr	p.R46T	ENST00000216605	3/28	51	45	6	58	58	0	MTHFD1,missense_variant,p.Arg46Thr,ENST00000216605,;MTHFD1,missense_variant,p.Arg102Thr,ENST00000555709,;MTHFD1,missense_variant,p.Arg102Thr,ENST00000545908,;MTHFD1,5_prime_UTR_variant,,ENST00000554739,;MTHFD1,5_prime_UTR_variant,,ENST00000557539,;MTHFD1,5_prime_UTR_variant,,ENST00000554768,;MTHFD1,intron_variant,,ENST00000555252,;	C	ENSG00000100714	ENST00000216605	Transcript	missense_variant	215	137	46	R/T	aGa/aCa	.	.	.	1	MTHFD1	HGNC	7432	protein_coding	YES	CCDS9763.1	ENSP00000216605	C1TC_HUMAN	.	UPI000013C6FA	.	deleterious(0.01)	possibly_damaging(0.635)	3/28	.	Prints_domain:PR00085,Superfamily_domains:SSF53223,Gene3D:3.40.192.10,Pfam_domain:PF00763,hmmpanther:PTHR10025:SF30,hmmpanther:PTHR10025,HAMAP:MF_01576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAACAGAGATG	.	4	BLCA
GPHN	0	.	GRCh37	14	67525466	67525466	+	Missense_Mutation	SNP	G	G	A	rs760589848	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1107G>A	p.Met369Ile	p.M369I	ENST00000478722	11/23	96	89	6	150	150	0	GPHN,missense_variant,p.Met351Ile,ENST00000459628,;GPHN,missense_variant,p.Met382Ile,ENST00000543237,;GPHN,missense_variant,p.Met305Ile,ENST00000305960,;GPHN,missense_variant,p.Met336Ile,ENST00000315266,;GPHN,missense_variant,p.Met369Ile,ENST00000478722,;GPHN,downstream_gene_variant,,ENST00000555456,;GPHN,non_coding_transcript_exon_variant,,ENST00000544752,;GPHN,non_coding_transcript_exon_variant,,ENST00000556501,;	A	ENSG00000171723	ENST00000478722	Transcript	missense_variant	2228	1107	369	M/I	atG/atA	rs760589848	.	.	1	GPHN	HGNC	15465	protein_coding	YES	CCDS9777.1	ENSP00000417901	GEPH_HUMAN	.	UPI0000072592	.	tolerated(0.39)	benign(0.393)	11/23	.	hmmpanther:PTHR10192:SF5,hmmpanther:PTHR10192,Pfam_domain:PF03453,Superfamily_domains:SSF63882	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGATGACTCC	.	2	BLCA
GPHN	0	.	GRCh37	14	67610141	67610141	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1811C>T	p.Ser604Leu	p.S604L	ENST00000478722	18/23	93	81	12	147	147	0	GPHN,missense_variant,p.Ser96Leu,ENST00000555503,;GPHN,missense_variant,p.Ser617Leu,ENST00000543237,;GPHN,missense_variant,p.Ser540Leu,ENST00000305960,;GPHN,missense_variant,p.Ser571Leu,ENST00000315266,;GPHN,missense_variant,p.Ser604Leu,ENST00000478722,;GPHN,non_coding_transcript_exon_variant,,ENST00000544752,;GPHN,non_coding_transcript_exon_variant,,ENST00000555527,;GPHN,non_coding_transcript_exon_variant,,ENST00000557678,;	T	ENSG00000171723	ENST00000478722	Transcript	missense_variant	2932	1811	604	S/L	tCa/tTa	COSM1208552	.	.	1	GPHN	HGNC	15465	protein_coding	YES	CCDS9777.1	ENSP00000417901	GEPH_HUMAN	.	UPI0000072592	.	deleterious(0)	probably_damaging(1)	18/23	.	hmmpanther:PTHR10192:SF5,hmmpanther:PTHR10192,Pfam_domain:PF00994,TIGRFAM_domain:TIGR00177,Gene3D:3.40.980.10,SMART_domains:SM00852,Superfamily_domains:SSF53218	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACATCAGGGG	.	4	BLCA
EIF2S1	0	.	GRCh37	14	67849272	67849272	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787G>C	p.Glu263Gln	p.E263Q	ENST00000256383	7/8	73	61	12	107	107	0	EIF2S1,missense_variant,p.Glu263Gln,ENST00000466499,;EIF2S1,missense_variant,p.Glu263Gln,ENST00000256383,;EIF2S1,missense_variant,p.Glu220Gln,ENST00000555876,;EIF2S1,missense_variant,p.Glu263Gln,ENST00000557310,;PLEK2,downstream_gene_variant,,ENST00000216446,;PLEK2,downstream_gene_variant,,ENST00000556532,;EIF2S1,non_coding_transcript_exon_variant,,ENST00000554332,;PLEK2,downstream_gene_variant,,ENST00000555803,;	C	ENSG00000134001	ENST00000256383	Transcript	missense_variant	1248	787	263	E/Q	Gag/Cag	.	.	.	1	EIF2S1	HGNC	3265	protein_coding	YES	CCDS9781.1	ENSP00000256383	IF2A_HUMAN	Q53XC0_HUMAN,G3V4T5_HUMAN	UPI000000CC43	.	tolerated(0.1)	benign(0.034)	7/8	.	hmmpanther:PTHR10602:SF0,hmmpanther:PTHR10602,Gene3D:1q8kA03,Superfamily_domains:SSF110993	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATTGAGGAA	.	5	BLCA
VRTN	0	.	GRCh37	14	74825508	74825508	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2022C>T	p.%3D	p.F674F	ENST00000256362	2/2	68	50	18	98	98	0	VRTN,synonymous_variant,p.%3D,ENST00000256362,;VRTN,downstream_gene_variant,,ENST00000557177,;	T	ENSG00000133980	ENST00000256362	Transcript	synonymous_variant	2263	2022	674	F	ttC/ttT	.	.	.	1	VRTN	HGNC	20223	protein_coding	YES	CCDS9830.1	ENSP00000256362	VRTN_HUMAN	G3V537_HUMAN	UPI00000737D5	.	.	.	2/2	.	hmmpanther:PTHR16081:SF0,hmmpanther:PTHR16081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGTTCAGTGC	.	5	BLCA
FLVCR2	0	.	GRCh37	14	76045651	76045651	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.336C>G	p.Phe112Leu	p.F112L	ENST00000238667	1/10	55	46	9	109	109	0	FLVCR2,missense_variant,p.Phe112Leu,ENST00000238667,;AC007182.6,non_coding_transcript_exon_variant,,ENST00000455232,;FLVCR2,upstream_gene_variant,,ENST00000554496,;FLVCR2,upstream_gene_variant,,ENST00000555385,;	G	ENSG00000119686	ENST00000238667	Transcript	missense_variant	692	336	112	F/L	ttC/ttG	.	.	.	1	FLVCR2	HGNC	20105	protein_coding	YES	CCDS9844.1	ENSP00000238667	FLVC2_HUMAN	G3V391_HUMAN	UPI0000073CD6	.	tolerated(0.06)	benign(0.09)	1/10	.	PROSITE_profiles:PS50850,hmmpanther:PTHR10924,hmmpanther:PTHR10924:SF3,Gene3D:1.20.1250.20,Pfam_domain:PF07690,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTTCATGCA	.	5	BLCA
TTLL5	0	.	GRCh37	14	76330187	76330187	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3504G>C	p.Gln1168His	p.Q1168H	ENST00000298832	29/32	52	32	20	75	75	0	TTLL5,missense_variant,p.Gln1183His,ENST00000557636,;TTLL5,missense_variant,p.Gln677His,ENST00000554510,;TTLL5,missense_variant,p.Gln719His,ENST00000556893,;TTLL5,missense_variant,p.Gln1168His,ENST00000298832,;	C	ENSG00000119685	ENST00000298832	Transcript	missense_variant	3709	3504	1168	Q/H	caG/caC	.	.	.	1	TTLL5	HGNC	19963	protein_coding	YES	CCDS32124.1	ENSP00000298832	TTLL5_HUMAN	Q2TAY9_HUMAN,O95419_HUMAN	UPI00003FF22B	.	tolerated(0.08)	benign(0.049)	29/32	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GACCAGAGTCG	.	3	BLCA
NRXN3	0	.	GRCh37	14	79117553	79117553	+	5'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-15C>G	.	.	ENST00000554719	3/17	69	60	9	108	108	0	NRXN3,missense_variant,p.Gln142Glu,ENST00000553363,;NRXN3,5_prime_UTR_variant,,ENST00000554719,;NRXN3,5_prime_UTR_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000553631,;NRXN3,missense_variant,p.Gln367Glu,ENST00000554738,;NRXN3,non_coding_transcript_exon_variant,,ENST00000556496,;	G	ENSG00000021645	ENST00000554719	Transcript	5_prime_UTR_variant	477	.	.	.	.	.	.	.	1	NRXN3	HGNC	8010	protein_coding	YES	CCDS9870.1	ENSP00000451648	NRX3A_HUMAN	G3V4R9_HUMAN,G3V247_HUMAN	UPI0000167BBA	.	.	.	3/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTCAAGAG	.	5	BLCA
CEP128	0	.	GRCh37	14	81046741	81046741	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2833G>C	p.Asp945His	p.D945H	ENST00000555265	20/25	83	51	31	139	139	0	CEP128,missense_variant,p.Asp945His,ENST00000555265,;CEP128,missense_variant,p.Asp11His,ENST00000556061,;CEP128,missense_variant,p.Asp945His,ENST00000281129,;CEP128,missense_variant,p.Asp637His,ENST00000554502,;	G	ENSG00000100629	ENST00000555265	Transcript	missense_variant	3209	2833	945	D/H	Gat/Cat	.	.	.	-1	CEP128	HGNC	20359	protein_coding	YES	CCDS32130.1	ENSP00000451162	CE128_HUMAN	Q9NS50_HUMAN,Q9HCB0_HUMAN,Q86TS1_HUMAN,G3V3U2_HUMAN,G3V3F4_HUMAN	UPI000022982E	.	deleterious(0)	possibly_damaging(0.81)	20/25	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18937:SF149,hmmpanther:PTHR18937	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATCTTTTC	.	5	BLCA
SPATA7	0	.	GRCh37	14	88894023	88894023	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895G>A	p.Glu299Lys	p.E299K	ENST00000393545	7/12	40	32	7	46	46	0	SPATA7,missense_variant,p.Glu267Lys,ENST00000356583,;SPATA7,missense_variant,p.Glu299Lys,ENST00000045347,;SPATA7,missense_variant,p.Glu299Lys,ENST00000393545,;SPATA7,missense_variant,p.Glu267Lys,ENST00000556553,;SPATA7,downstream_gene_variant,,ENST00000555401,;SPATA7,upstream_gene_variant,,ENST00000556406,;SPATA7,downstream_gene_variant,,ENST00000553885,;SPATA7,non_coding_transcript_exon_variant,,ENST00000556666,;SPATA7,non_coding_transcript_exon_variant,,ENST00000553626,;SPATA7,downstream_gene_variant,,ENST00000553908,;SPATA7,upstream_gene_variant,,ENST00000553303,;SPATA7,downstream_gene_variant,,ENST00000557248,;SPATA7,downstream_gene_variant,,ENST00000556870,;SPATA7,downstream_gene_variant,,ENST00000555515,;SPATA7,downstream_gene_variant,,ENST00000555534,;	A	ENSG00000042317	ENST00000393545	Transcript	missense_variant	1184	895	299	E/K	Gaa/Aaa	.	.	.	1	SPATA7	HGNC	20423	protein_coding	YES	CCDS9883.1	ENSP00000377176	SPAT7_HUMAN	.	UPI00000712C7	.	tolerated(0.06)	benign(0.16)	7/12	.	Pfam_domain:PF15244,hmmpanther:PTHR14917	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCAGAAATG	.	5	BLCA
ZC3H14	0	.	GRCh37	14	89041178	89041178	+	Missense_Mutation	SNP	C	C	T	rs761255138	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1003C>T	p.Pro335Ser	p.P335S	ENST00000251038	7/17	17	10	7	34	34	0	ZC3H14,missense_variant,p.Pro301Ser,ENST00000336693,;ZC3H14,missense_variant,p.Pro335Ser,ENST00000555755,;ZC3H14,missense_variant,p.Pro335Ser,ENST00000393514,;ZC3H14,missense_variant,p.Pro335Ser,ENST00000302216,;ZC3H14,missense_variant,p.Pro335Ser,ENST00000251038,;ZC3H14,missense_variant,p.Pro301Ser,ENST00000359301,;ZC3H14,missense_variant,p.Pro335Ser,ENST00000556945,;ZC3H14,missense_variant,p.Pro180Ser,ENST00000557607,;ZC3H14,missense_variant,p.Pro251Ser,ENST00000556000,;ZC3H14,downstream_gene_variant,,ENST00000556158,;ZC3H14,downstream_gene_variant,,ENST00000555799,;ZC3H14,downstream_gene_variant,,ENST00000555120,;ZC3H14,downstream_gene_variant,,ENST00000554602,;ZC3H14,downstream_gene_variant,,ENST00000557693,;ZC3H14,non_coding_transcript_exon_variant,,ENST00000557047,;ZC3H14,non_coding_transcript_exon_variant,,ENST00000557605,;ZC3H14,missense_variant,p.Pro16Ser,ENST00000556110,;ZC3H14,downstream_gene_variant,,ENST00000553495,;	T	ENSG00000100722	ENST00000251038	Transcript	missense_variant	1228	1003	335	P/S	Cct/Tct	rs761255138	.	.	1	ZC3H14	HGNC	20509	protein_coding	YES	CCDS32133.1	ENSP00000251038	ZC3HE_HUMAN	G3V572_HUMAN,G3V473_HUMAN,G3V3Y4_HUMAN,G3V2X4_HUMAN,G3V240_HUMAN	UPI00001BDB9B	.	tolerated(0.06)	possibly_damaging(0.747)	7/17	.	hmmpanther:PTHR14738,hmmpanther:PTHR14738:SF29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGCCTGCA	.	5	BLCA
NRDE2	0	.	GRCh37	14	90770438	90770438	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846G>A	p.Trp282Ter	p.W282*	ENST00000354366	5/14	74	56	17	123	123	0	NRDE2,stop_gained,p.Trp51Ter,ENST00000357904,;NRDE2,stop_gained,p.Trp282Ter,ENST00000354366,;NRDE2,upstream_gene_variant,,ENST00000554464,;NRDE2,non_coding_transcript_exon_variant,,ENST00000557064,;NRDE2,stop_gained,p.Trp138Ter,ENST00000556189,;NRDE2,3_prime_UTR_variant,,ENST00000553409,;	T	ENSG00000119720	ENST00000354366	Transcript	stop_gained	1079	846	282	W/*	tgG/tgA	.	.	.	-1	NRDE2	HGNC	20186	protein_coding	YES	CCDS9890.1	ENSP00000346335	NRDE2_HUMAN	Q658X2_HUMAN,E9PBK4_HUMAN	UPI00001FD9DB	.	.	.	5/14	.	hmmpanther:PTHR13471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTAGCCAATG	.	5	BLCA
CCDC88C	0	.	GRCh37	14	91738961	91738961	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8G>A	.	.	ENST00000389857	30/30	104	87	17	144	143	1	CCDC88C,3_prime_UTR_variant,,ENST00000389857,;CCDC88C,downstream_gene_variant,,ENST00000331194,;CCDC88C,3_prime_UTR_variant,,ENST00000556726,;CCDC88C,downstream_gene_variant,,ENST00000334448,;	T	ENSG00000015133	ENST00000389857	Transcript	3_prime_UTR_variant	6182	.	.	.	.	.	.	.	-1	CCDC88C	HGNC	19967	protein_coding	YES	CCDS45151.1	ENSP00000374507	DAPLE_HUMAN	B4DZB8_HUMAN	UPI00006C1440	.	.	.	30/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCACGAGAC	.	4	BLCA
OR4F6	0	.	GRCh37	15	102346017	102346017	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.95C>T	p.Ser32Leu	p.S32L	ENST00000328882	1/1	119	98	21	170	170	0	OR4F6,missense_variant,p.Ser32Leu,ENST00000328882,;	T	ENSG00000184140	ENST00000328882	Transcript	missense_variant	116	95	32	S/L	tCa/tTa	COSM699580	.	.	1	OR4F6	HGNC	15372	protein_coding	YES	CCDS32341.1	ENSP00000327525	OR4F6_HUMAN	.	UPI0000041BF4	.	tolerated_low_confidence(0.08)	benign(0.053)	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF199,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCAGTGT	.	5	BLCA
SNORD116-18	0	.	GRCh37	15	25330540	25330540	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.9G>A	.	.	ENST00000383961	1/1	209	165	44	266	266	0	SNORD116-18,non_coding_transcript_exon_variant,,ENST00000383961,;SNORD116-15,downstream_gene_variant,,ENST00000384445,;SNORD116-19,upstream_gene_variant,,ENST00000384729,;SNORD116-16,downstream_gene_variant,,ENST00000384533,;SNHG14,upstream_gene_variant,,ENST00000384430,;SNORD116-17,downstream_gene_variant,,ENST00000383929,;SNORD116-20,upstream_gene_variant,,ENST00000567527,;SNORD116-20,upstream_gene_variant,,ENST00000384507,;SNORD116-20,upstream_gene_variant,,ENST00000384529,;SNHG14,intron_variant,,ENST00000546682,;SNHG14,intron_variant,,ENST00000553108,;SNHG14,intron_variant,,ENST00000549804,;SNHG14,downstream_gene_variant,,ENST00000383025,;	A	ENSG00000206688	ENST00000383961	Transcript	non_coding_transcript_exon_variant	9	.	.	.	.	.	.	.	1	SNORD116-18	HGNC	33084	snoRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGATGATGAC	.	5	BLCA
HERC2	0	.	GRCh37	15	28478819	28478819	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4342G>A	p.Glu1448Lys	p.E1448K	ENST00000261609	28/93	69	58	10	96	96	0	HERC2,missense_variant,p.Glu1448Lys,ENST00000261609,;HERC2,upstream_gene_variant,,ENST00000569335,;	T	ENSG00000128731	ENST00000261609	Transcript	missense_variant	4451	4342	1448	E/K	Gaa/Aaa	.	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	benign(0.026)	28/93	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTCATGTT	.	4	BLCA
NDNL2	0	.	GRCh37	15	29561277	29561277	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633G>C	p.Lys211Asn	p.K211N	ENST00000332303	1/1	73	61	11	88	88	0	NDNL2,missense_variant,p.Lys211Asn,ENST00000332303,;FAM189A1,intron_variant,,ENST00000261275,;FAM189A1,intron_variant,,ENST00000560082,;	G	ENSG00000185115	ENST00000332303	Transcript	missense_variant	757	633	211	K/N	aaG/aaC	.	.	.	-1	NDNL2	HGNC	7677	protein_coding	YES	CCDS10023.1	ENSP00000330694	MAGG1_HUMAN	.	UPI000004E578	.	deleterious(0.03)	possibly_damaging(0.735)	1/1	.	PROSITE_profiles:PS50838,hmmpanther:PTHR11736:SF51,hmmpanther:PTHR11736,Pfam_domain:PF01454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTCTTGGT	.	4	BLCA
GANC	0	.	GRCh37	15	42585102	42585102	+	Missense_Mutation	SNP	C	C	G	rs371819683	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499C>G	p.Leu167Val	p.L167V	ENST00000318010	5/24	70	65	5	82	82	0	GANC,missense_variant,p.Leu167Val,ENST00000318010,;GANC,missense_variant,p.Leu167Val,ENST00000566442,;GANC,downstream_gene_variant,,ENST00000562859,;GANC,non_coding_transcript_exon_variant,,ENST00000567421,;	G	ENSG00000214013	ENST00000318010	Transcript	missense_variant	739	499	167	L/V	Ctt/Gtt	rs371819683	.	.	1	GANC	HGNC	4139	protein_coding	YES	CCDS10084.1	ENSP00000326227	GANC_HUMAN	H3BUE8_HUMAN,H3BPX5_HUMAN,H3BMW3_HUMAN,H3BMM3_HUMAN	UPI00001FE303	.	.	benign(0.039)	5/24	.	hmmpanther:PTHR22762,hmmpanther:PTHR22762:SF60	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATTCTTCAC	.	2	BLCA
UBR1	0	.	GRCh37	15	43328411	43328411	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2155G>T	p.Glu719Ter	p.E719*	ENST00000290650	19/47	131	96	35	200	200	0	UBR1,stop_gained,p.Glu719Ter,ENST00000382177,;UBR1,stop_gained,p.Glu719Ter,ENST00000290650,;UBR1,stop_gained,p.Glu64Ter,ENST00000569066,;UBR1,non_coding_transcript_exon_variant,,ENST00000546274,;	A	ENSG00000159459	ENST00000290650	Transcript	stop_gained	2234	2155	719	E/*	Gag/Tag	.	.	.	-1	UBR1	HGNC	16808	protein_coding	YES	CCDS10091.1	ENSP00000290650	UBR1_HUMAN	.	UPI0000074467	.	.	.	19/47	.	hmmpanther:PTHR21497:SF27,hmmpanther:PTHR21497	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCGGCAA	.	5	BLCA
ATP8B4	0	.	GRCh37	15	50152602	50152602	+	Nonsense_Mutation	SNP	G	G	C	rs775773188	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3368C>G	p.Ser1123Ter	p.S1123*	ENST00000284509	28/28	51	40	10	78	78	0	ATP8B4,stop_gained,p.Ser1123Ter,ENST00000559829,;ATP8B4,stop_gained,p.Ser426Ter,ENST00000560479,;ATP8B4,stop_gained,p.Ser1123Ter,ENST00000284509,;ATP8B4,stop_gained,p.Ser214Ter,ENST00000558498,;ATP8B4,3_prime_UTR_variant,,ENST00000557955,;ATP8B4,3_prime_UTR_variant,,ENST00000558906,;ATP8B4,3_prime_UTR_variant,,ENST00000559726,;ATP8B4,non_coding_transcript_exon_variant,,ENST00000558203,;ATP8B4,downstream_gene_variant,,ENST00000560354,;	C	ENSG00000104043	ENST00000284509	Transcript	stop_gained	3510	3368	1123	S/*	tCa/tGa	rs775773188,COSM3501907	.	.	-1	ATP8B4	HGNC	13536	protein_coding	YES	CCDS32238.1	ENSP00000284509	AT8B4_HUMAN	H0YMB5_HUMAN	UPI0000055904	.	.	.	28/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24092:SF46,hmmpanther:PTHR24092	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTGACCTG	.	5	BLCA
TRPM7	0	.	GRCh37	15	50881790	50881790	+	Missense_Mutation	SNP	G	G	C	rs185367011	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4388C>G	p.Ser1463Cys	p.S1463C	ENST00000313478	27/39	65	56	9	79	79	0	TRPM7,missense_variant,p.Ser1463Cys,ENST00000560955,;TRPM7,missense_variant,p.Ser1463Cys,ENST00000313478,;TRPM7,upstream_gene_variant,,ENST00000560849,;TRPM7,downstream_gene_variant,,ENST00000560284,;	C	ENSG00000092439	ENST00000313478	Transcript	missense_variant	4670	4388	1463	S/C	tCc/tGc	rs185367011	.	.	-1	TRPM7	HGNC	17994	protein_coding	YES	CCDS42035.1	ENSP00000320239	TRPM7_HUMAN	.	UPI0000071CBA	.	deleterious_low_confidence(0.03)	benign(0.103)	27/39	.	hmmpanther:PTHR13800:SF8,hmmpanther:PTHR13800	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TTACGGATAGT	by1000G	2	BLCA
UNC13C	0	.	GRCh37	15	54306146	54306146	+	Missense_Mutation	SNP	C	C	T	rs565877113	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1046C>T	p.Ser349Leu	p.S349L	ENST00000260323	1/32	30	26	4	39	39	0	UNC13C,missense_variant,p.Ser349Leu,ENST00000537900,;UNC13C,missense_variant,p.Ser349Leu,ENST00000545554,;UNC13C,missense_variant,p.Ser349Leu,ENST00000260323,;	T	ENSG00000137766	ENST00000260323	Transcript	missense_variant	1046	1046	349	S/L	tCa/tTa	rs565877113	.	.	1	UNC13C	HGNC	23149	protein_coding	YES	CCDS45264.1	ENSP00000260323	UN13C_HUMAN	H3BRP8_HUMAN	UPI0000DD82AB	.	tolerated_low_confidence(0.1)	benign(0.018)	1/32	.	hmmpanther:PTHR10480,hmmpanther:PTHR10480:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTTCAGATG	byCluster	4	BLCA
RNF111	0	.	GRCh37	15	59368241	59368241	+	Missense_Mutation	SNP	G	G	A	rs776377062	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1775G>A	p.Cys592Tyr	p.C592Y	ENST00000559209	7/14	75	58	17	125	125	0	RNF111,missense_variant,p.Cys592Tyr,ENST00000434298,;RNF111,missense_variant,p.Cys592Tyr,ENST00000561186,;RNF111,missense_variant,p.Cys592Tyr,ENST00000557998,;RNF111,missense_variant,p.Cys592Tyr,ENST00000348370,;RNF111,missense_variant,p.Cys592Tyr,ENST00000559209,;RNF111,upstream_gene_variant,,ENST00000558977,;	A	ENSG00000157450	ENST00000559209	Transcript	missense_variant	1911	1775	592	C/Y	tGc/tAc	rs776377062	.	.	1	RNF111	HGNC	17384	protein_coding	YES	CCDS58365.1	ENSP00000453872	RN111_HUMAN	H0YKS2_HUMAN	UPI0000EE4EBD	.	deleterious_low_confidence(0)	probably_damaging(0.993)	7/14	.	hmmpanther:PTHR13644,hmmpanther:PTHR13644:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTGCCCTG	.	5	BLCA
LDHAL6B	0	.	GRCh37	15	59500317	59500317	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*32G>C	.	.	ENST00000307144	1/1	33	29	4	31	31	0	LDHAL6B,3_prime_UTR_variant,,ENST00000307144,;MYO1E,intron_variant,,ENST00000559269,;MYO1E,intron_variant,,ENST00000560749,;MYO1E,intron_variant,,ENST00000288235,;MYO1E,downstream_gene_variant,,ENST00000559489,;RNU4-80P,downstream_gene_variant,,ENST00000363200,;MYO1E,upstream_gene_variant,,ENST00000558182,;MYO1E,intron_variant,,ENST00000560642,;	C	ENSG00000171989	ENST00000307144	Transcript	3_prime_UTR_variant	1276	.	.	.	.	.	.	.	1	LDHAL6B	HGNC	21481	protein_coding	YES	CCDS10171.1	ENSP00000302393	LDH6B_HUMAN	.	UPI000012E326	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTATTGAAGAG	.	2	BLCA
GTF2A2	0	.	GRCh37	15	59944508	59944508	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-32G>A	.	.	ENST00000396060	2/5	46	34	12	59	59	0	GTF2A2,5_prime_UTR_variant,,ENST00000484743,;GTF2A2,5_prime_UTR_variant,,ENST00000559706,;GTF2A2,5_prime_UTR_variant,,ENST00000396063,;GTF2A2,5_prime_UTR_variant,,ENST00000396060,;GTF2A2,5_prime_UTR_variant,,ENST00000396064,;GTF2A2,5_prime_UTR_variant,,ENST00000396061,;AC092755.4,intron_variant,,ENST00000441746,;GTF2A2,non_coding_transcript_exon_variant,,ENST00000472508,;GTF2A2,intron_variant,,ENST00000267869,;GTF2A2,intron_variant,,ENST00000559141,;GTF2A2,non_coding_transcript_exon_variant,,ENST00000480768,;	T	ENSG00000140307	ENST00000396060	Transcript	5_prime_UTR_variant	151	.	.	.	.	.	.	.	-1	GTF2A2	HGNC	4647	protein_coding	YES	CCDS10173.1	ENSP00000379372	T2AG_HUMAN	.	UPI0000048D68	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTCAAGCT	.	5	BLCA
VPS13C	0	.	GRCh37	15	62238074	62238074	+	Missense_Mutation	SNP	G	G	C	rs781089729	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4988C>G	p.Ser1663Cys	p.S1663C	ENST00000261517	45/85	89	72	17	107	107	0	VPS13C,missense_variant,p.Ser1663Cys,ENST00000261517,;VPS13C,missense_variant,p.Ser1663Cys,ENST00000395896,;VPS13C,missense_variant,p.Ser1620Cys,ENST00000249837,;VPS13C,missense_variant,p.Ser1620Cys,ENST00000395898,;	C	ENSG00000129003	ENST00000261517	Transcript	missense_variant	5062	4988	1663	S/C	tCt/tGt	rs781089729	.	.	-1	VPS13C	HGNC	23594	protein_coding	YES	CCDS32257.1	ENSP00000261517	VP13C_HUMAN	B4E2S9_HUMAN,B3KW10_HUMAN	UPI000023B7D3	.	tolerated(0.09)	benign(0.167)	45/85	.	hmmpanther:PTHR16166:SF69,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATAGAGACA	.	5	BLCA
MEGF11	0	.	GRCh37	15	66206297	66206297	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2488G>A	p.Glu830Lys	p.E830K	ENST00000409699	20/23	20	15	5	47	46	1	MEGF11,missense_variant,p.Glu830Lys,ENST00000409699,;MEGF11,missense_variant,p.Glu3Lys,ENST00000395614,;MEGF11,missense_variant,p.Glu755Lys,ENST00000395625,;MEGF11,missense_variant,p.Glu830Lys,ENST00000422354,;MEGF11,missense_variant,p.Glu755Lys,ENST00000288745,;MEGF11,3_prime_UTR_variant,,ENST00000360698,;MEGF11,non_coding_transcript_exon_variant,,ENST00000478721,;MEGF11,upstream_gene_variant,,ENST00000489275,;MEGF11,upstream_gene_variant,,ENST00000493192,;MEGF11,upstream_gene_variant,,ENST00000562154,;MEGF11,3_prime_UTR_variant,,ENST00000490495,;MEGF11,non_coding_transcript_exon_variant,,ENST00000478590,;	T	ENSG00000157890	ENST00000409699	Transcript	missense_variant	2661	2488	830	E/K	Gag/Aag	.	.	.	-1	MEGF11	HGNC	29635	protein_coding	YES	CCDS10213.2	ENSP00000386908	MEG11_HUMAN	C9JYE7_HUMAN	UPI00001FE6DA	.	tolerated(0.49)	benign(0.261)	20/23	.	hmmpanther:PTHR24035:SF10,hmmpanther:PTHR24035	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCCATCA	.	2	BLCA
ZWILCH	0	.	GRCh37	15	66829597	66829597	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1570C>T	p.Gln524Ter	p.Q524*	ENST00000307897	16/19	50	36	14	52	52	0	ZWILCH,stop_gained,p.Gln31Ter,ENST00000567816,;ZWILCH,stop_gained,p.Gln524Ter,ENST00000307897,;ZWILCH,stop_gained,p.Gln410Ter,ENST00000535141,;ZWILCH,stop_gained,p.Gln410Ter,ENST00000565627,;ZWILCH,stop_gained,p.Gln410Ter,ENST00000446801,;ZWILCH,upstream_gene_variant,,ENST00000569489,;	T	ENSG00000174442	ENST00000307897	Transcript	stop_gained	1950	1570	524	Q/*	Caa/Taa	.	.	.	1	ZWILCH	HGNC	25468	protein_coding	YES	CCDS10219.1	ENSP00000311429	ZWILC_HUMAN	H3BSG1_HUMAN,H3BQ07_HUMAN,H3BPI7_HUMAN	UPI000013EC73	.	.	.	16/19	.	hmmpanther:PTHR15995,Pfam_domain:PF09817	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATATCAAAGG	.	5	BLCA
UACA	0	.	GRCh37	15	70991936	70991936	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.142G>C	p.Glu48Gln	p.E48Q	ENST00000322954	2/19	79	62	17	89	89	0	UACA,missense_variant,p.Glu48Gln,ENST00000539319,;UACA,missense_variant,p.Glu48Gln,ENST00000322954,;UACA,missense_variant,p.Glu35Gln,ENST00000558758,;UACA,missense_variant,p.Glu43Gln,ENST00000560167,;UACA,missense_variant,p.Glu35Gln,ENST00000379983,;UACA,missense_variant,p.Glu35Gln,ENST00000560441,;UACA,non_coding_transcript_exon_variant,,ENST00000560523,;	G	ENSG00000137831	ENST00000322954	Transcript	missense_variant	328	142	48	E/Q	Gaa/Caa	.	.	.	-1	UACA	HGNC	15947	protein_coding	YES	CCDS10235.1	ENSP00000314556	UACA_HUMAN	.	UPI000006DCF3	.	deleterious(0.01)	probably_damaging(0.982)	2/19	.	Superfamily_domains:SSF48403,SMART_domains:SM00248,Gene3D:1.25.40.20,Pfam_domain:PF12796,hmmpanther:PTHR24196,hmmpanther:PTHR24196:SF1,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTTCTACAT	.	5	BLCA
PML	0	.	GRCh37	15	74328369	74328369	+	Intron	SNP	C	C	G	rs759232644	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1710+1498C>G	.	.	ENST00000268058	.	148	113	35	245	245	0	PML,missense_variant,p.Leu426Val,ENST00000395132,;PML,splice_region_variant,,ENST00000565239,;PML,3_prime_UTR_variant,,ENST00000563500,;PML,3_prime_UTR_variant,,ENST00000435786,;PML,3_prime_UTR_variant,,ENST00000436891,;PML,3_prime_UTR_variant,,ENST00000562086,;PML,3_prime_UTR_variant,,ENST00000567606,;PML,3_prime_UTR_variant,,ENST00000354026,;PML,3_prime_UTR_variant,,ENST00000268059,;PML,intron_variant,,ENST00000395135,;PML,intron_variant,,ENST00000565898,;PML,intron_variant,,ENST00000359928,;PML,intron_variant,,ENST00000564428,;PML,intron_variant,,ENST00000569965,;PML,intron_variant,,ENST00000268058,;PML,downstream_gene_variant,,ENST00000569477,;PML,downstream_gene_variant,,ENST00000567543,;PML,downstream_gene_variant,,ENST00000566068,;PML,downstream_gene_variant,,ENST00000569161,;PML,downstream_gene_variant,,ENST00000570213,;	G	ENSG00000140464	ENST00000268058	Transcript	intron_variant	.	.	.	.	.	rs759232644	.	.	1	PML	HGNC	9113	protein_coding	YES	CCDS10255.1	ENSP00000268058	PML_HUMAN	Q9UE85_HUMAN,Q05835_HUMAN	UPI000013D78F	.	.	.	.	7/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCTTACA	.	5	BLCA
FBXO22	0	.	GRCh37	15	76222343	76222343	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.747C>G	p.Ile249Met	p.I249M	ENST00000308275	6/7	101	85	16	136	136	0	FBXO22,missense_variant,p.Ile145Met,ENST00000540507,;FBXO22,missense_variant,p.Ile145Met,ENST00000569054,;FBXO22,missense_variant,p.Ile249Met,ENST00000308275,;FBXO22,missense_variant,p.Ile249Met,ENST00000453211,;FBXO22,missense_variant,p.Ile188Met,ENST00000565036,;FBXO22,upstream_gene_variant,,ENST00000564220,;FBXO22,missense_variant,p.Ile135Met,ENST00000561885,;FBXO22,3_prime_UTR_variant,,ENST00000569749,;FBXO22,3_prime_UTR_variant,,ENST00000569022,;	G	ENSG00000167196	ENST00000308275	Transcript	missense_variant	852	747	249	I/M	atC/atG	.	.	.	1	FBXO22	HGNC	13593	protein_coding	YES	CCDS10287.1	ENSP00000307833	FBX22_HUMAN	H3BUC1_HUMAN,H3BTR7_HUMAN,H3BRE0_HUMAN	UPI0000049FDF	.	tolerated(0.09)	possibly_damaging(0.589)	6/7	.	hmmpanther:PTHR14939:SF4,hmmpanther:PTHR14939	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCTTGGC	.	5	BLCA
NRG4	0	.	GRCh37	15	76301591	76301591	+	Silent	SNP	C	C	G	rs776675887	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>C	p.%3D	p.L18L	ENST00000394907	3/6	71	56	15	86	86	0	NRG4,synonymous_variant,p.%3D,ENST00000535975,;NRG4,synonymous_variant,p.%3D,ENST00000305435,;NRG4,synonymous_variant,p.%3D,ENST00000563910,;NRG4,synonymous_variant,p.%3D,ENST00000394907,;NRG4,non_coding_transcript_exon_variant,,ENST00000568203,;NRG4,synonymous_variant,p.%3D,ENST00000566417,;NRG4,synonymous_variant,p.%3D,ENST00000568073,;NRG4,synonymous_variant,p.%3D,ENST00000563204,;NRG4,synonymous_variant,p.%3D,ENST00000498750,;NRG4,synonymous_variant,p.%3D,ENST00000472094,;NRG4,synonymous_variant,p.%3D,ENST00000562114,;NRG4,synonymous_variant,p.%3D,ENST00000567936,;NRG4,synonymous_variant,p.%3D,ENST00000461391,;NRG4,synonymous_variant,p.%3D,ENST00000567126,;NRG4,synonymous_variant,p.%3D,ENST00000565661,;	G	ENSG00000169752	ENST00000394907	Transcript	synonymous_variant	236	54	18	L	ctG/ctC	rs776675887	.	.	-1	NRG4	HGNC	29862	protein_coding	YES	CCDS10288.1	ENSP00000378367	NRG4_HUMAN	Q68D87_HUMAN,H3BP63_HUMAN	UPI0000038134	.	.	.	3/6	.	PROSITE_profiles:PS50026,hmmpanther:PTHR11100,Gene3D:2.10.25.10,SMART_domains:SM00181,Superfamily_domains:SSF57196,Prints_domain:PR00009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCAGGCA	.	5	BLCA
ADAMTS7	0	.	GRCh37	15	79064149	79064149	+	Missense_Mutation	SNP	G	G	C	rs765056670	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2154C>G	p.Ile718Met	p.I718M	ENST00000388820	15/24	24	21	3	50	50	0	ADAMTS7,missense_variant,p.Ile718Met,ENST00000388820,;ADAMTS7,intron_variant,,ENST00000566303,;ADAMTS7,non_coding_transcript_exon_variant,,ENST00000568712,;ADAMTS7,non_coding_transcript_exon_variant,,ENST00000565793,;	C	ENSG00000136378	ENST00000388820	Transcript	missense_variant	2365	2154	718	I/M	atC/atG	rs765056670	.	.	-1	ADAMTS7	HGNC	223	protein_coding	YES	CCDS32303.1	ENSP00000373472	ATS7_HUMAN	.	UPI00002263B3	.	deleterious(0)	probably_damaging(0.998)	15/24	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF142,Pfam_domain:PF05986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGGGATCAG	.	2	BLCA
RASGRF1	0	.	GRCh37	15	79272977	79272977	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3527G>C	p.Arg1176Thr	p.R1176T	ENST00000419573	25/28	62	51	10	65	65	0	RASGRF1,missense_variant,p.Arg1160Thr,ENST00000558480,;RASGRF1,missense_variant,p.Arg1176Thr,ENST00000419573,;RASGRF1,missense_variant,p.Arg392Thr,ENST00000394745,;RP11-16K12.1,intron_variant,,ENST00000316148,;RASGRF1,non_coding_transcript_exon_variant,,ENST00000560334,;RASGRF1,upstream_gene_variant,,ENST00000559926,;RASGRF1,non_coding_transcript_exon_variant,,ENST00000560286,;RASGRF1,downstream_gene_variant,,ENST00000560943,;	G	ENSG00000058335	ENST00000419573	Transcript	missense_variant	3802	3527	1176	R/T	aGa/aCa	.	.	.	-1	RASGRF1	HGNC	9875	protein_coding	YES	CCDS10309.1	ENSP00000405963	.	J3KQP9_HUMAN	UPI000013D1F1	.	deleterious(0)	probably_damaging(0.999)	25/28	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113:SF193,hmmpanther:PTHR23113,Pfam_domain:PF00617,Gene3D:2ii0A02,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCTGAGA	.	5	BLCA
AP3B2	0	.	GRCh37	15	83333116	83333116	+	Intron	SNP	C	C	T	rs552652292	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2204+3G>A	.	.	ENST00000261722	.	29	24	5	52	52	0	AP3B2,splice_region_variant,,ENST00000535348,;AP3B2,splice_region_variant,,ENST00000535359,;AP3B2,splice_region_variant,,ENST00000261722,;RP11-752G15.3,intron_variant,,ENST00000560650,;AP3B2,splice_region_variant,,ENST00000543938,;AP3B2,upstream_gene_variant,,ENST00000538592,;AP3B2,upstream_gene_variant,,ENST00000537735,;AP3B2,upstream_gene_variant,,ENST00000545315,;	T	ENSG00000103723	ENST00000261722	Transcript	splice_region_variant	.	.	.	.	.	rs552652292	.	.	-1	AP3B2	HGNC	567	protein_coding	YES	CCDS45331.1	ENSP00000261722	AP3B2_HUMAN	F5GWU4_HUMAN	UPI0000125030	.	.	.	.	18/25	.	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCACCTC	by1000G	4	BLCA
ZNF592	0	.	GRCh37	15	85327787	85327787	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1881C>G	p.Phe627Leu	p.F627L	ENST00000299927	1/8	69	53	16	90	90	0	ZNF592,missense_variant,p.Phe627Leu,ENST00000299927,;ZNF592,missense_variant,p.Phe627Leu,ENST00000560079,;ZNF592,missense_variant,p.Phe627Leu,ENST00000559607,;	G	ENSG00000166716	ENST00000299927	Transcript	missense_variant	1903	1881	627	F/L	ttC/ttG	.	.	.	1	ZNF592	HGNC	28986	protein_coding	YES	CCDS32317.1	ENSP00000299927	ZN592_HUMAN	.	UPI000013E5FC	.	deleterious(0.01)	benign(0.154)	1/8	.	hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF199,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCAACAA	.	5	BLCA
FANCI	0	.	GRCh37	15	89807248	89807248	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660C>T	p.%3D	p.L220L	ENST00000310775	8/38	67	60	7	92	92	0	FANCI,synonymous_variant,p.%3D,ENST00000451393,;FANCI,synonymous_variant,p.%3D,ENST00000561894,;FANCI,synonymous_variant,p.%3D,ENST00000310775,;FANCI,synonymous_variant,p.%3D,ENST00000300027,;FANCI,synonymous_variant,p.%3D,ENST00000565255,;FANCI,synonymous_variant,p.%3D,ENST00000567996,;FANCI,synonymous_variant,p.%3D,ENST00000570225,;FANCI,downstream_gene_variant,,ENST00000563250,;FANCI,downstream_gene_variant,,ENST00000564920,;FANCI,downstream_gene_variant,,ENST00000567891,;FANCI,intron_variant,,ENST00000565522,;FANCI,downstream_gene_variant,,ENST00000568670,;FANCI,synonymous_variant,p.%3D,ENST00000447611,;FANCI,downstream_gene_variant,,ENST00000564636,;FANCI,downstream_gene_variant,,ENST00000570110,;	T	ENSG00000140525	ENST00000310775	Transcript	synonymous_variant	746	660	220	L	ctC/ctT	.	.	.	1	FANCI	HGNC	25568	protein_coding	YES	CCDS45346.1	ENSP00000310842	FANCI_HUMAN	H3BT54_HUMAN,H3BS60_HUMAN,H3BQE2_HUMAN	UPI00001FEB1D	.	.	.	8/38	.	hmmpanther:PTHR21818,hmmpanther:PTHR21818:SF0,Pfam_domain:PF14675	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCTCTCCTC	.	4	BLCA
CHD2	0	.	GRCh37	15	93489418	93489418	+	Nonsense_Mutation	SNP	C	C	G	rs779773002	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1349C>G	p.Ser450Ter	p.S450*	ENST00000394196	12/39	55	41	14	80	80	0	CHD2,stop_gained,p.Ser450Ter,ENST00000557381,;CHD2,stop_gained,p.Ser450Ter,ENST00000420239,;CHD2,stop_gained,p.Ser463Ter,ENST00000536619,;CHD2,stop_gained,p.Ser450Ter,ENST00000394196,;CHD2,downstream_gene_variant,,ENST00000555753,;CHD2,upstream_gene_variant,,ENST00000555582,;CHD2,non_coding_transcript_exon_variant,,ENST00000556930,;CHD2,non_coding_transcript_exon_variant,,ENST00000309818,;CHD2,downstream_gene_variant,,ENST00000556270,;CHD2,downstream_gene_variant,,ENST00000553323,;	G	ENSG00000173575	ENST00000394196	Transcript	stop_gained	2417	1349	450	S/*	tCa/tGa	rs779773002	.	.	1	CHD2	HGNC	1917	protein_coding	YES	CCDS10374.2	ENSP00000377747	CHD2_HUMAN	Q6AI05_HUMAN,Q3YLD6_HUMAN,Q3YLD5_HUMAN,G3V4S8_HUMAN,G3V418_HUMAN	UPI0000E8A85C	.	.	.	12/39	.	PROSITE_profiles:PS50013,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF538,Gene3D:2.40.50.40,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACTCAAAAA	.	5	BLCA
NOMO1	0	.	GRCh37	16	14947427	14947427	+	Missense_Mutation	SNP	C	C	G	rs373446176	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.839C>G	p.Ser280Cys	p.S280C	ENST00000287667	8/31	247	195	51	335	335	0	NOMO1,missense_variant,p.Ser280Cys,ENST00000287667,;NOMO1,non_coding_transcript_exon_variant,,ENST00000566883,;NOMO1,non_coding_transcript_exon_variant,,ENST00000566720,;NOMO1,non_coding_transcript_exon_variant,,ENST00000566917,;	G	ENSG00000103512	ENST00000287667	Transcript	missense_variant	1010	839	280	S/C	tCt/tGt	rs373446176	.	.	1	NOMO1	HGNC	30060	protein_coding	YES	CCDS10556.1	ENSP00000287667	NOMO1_HUMAN	Q9H049_HUMAN	UPI000013D37E	.	tolerated(0.1)	possibly_damaging(0.619)	8/31	.	hmmpanther:PTHR23303	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTCTTTCT	byFrequency|byCluster	5	BLCA
MYH11	0	.	GRCh37	16	15829285	15829285	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3465G>C	p.%3D	p.L1155L	ENST00000396324	27/42	75	67	7	120	120	0	MYH11,synonymous_variant,p.%3D,ENST00000452625,;MYH11,synonymous_variant,p.%3D,ENST00000576790,;MYH11,synonymous_variant,p.%3D,ENST00000300036,;MYH11,synonymous_variant,p.%3D,ENST00000396324,;AF001548.5,downstream_gene_variant,,ENST00000574212,;	G	ENSG00000133392	ENST00000396324	Transcript	synonymous_variant	3553	3465	1155	L	ctG/ctC	.	.	.	-1	MYH11	HGNC	7569	protein_coding	YES	CCDS45423.1	ENSP00000379616	MYH11_HUMAN	Q68D89_HUMAN,Q66K75_HUMAN	UPI00005B7237	.	.	.	27/42	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF90257,Pfam_domain:PF01576,hmmpanther:PTHR13140:SF335,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCTCCAGCTC	.	3	BLCA
MYH11	0	.	GRCh37	16	15829309	15829309	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3441G>A	p.%3D	p.Q1147Q	ENST00000396324	27/42	83	72	10	135	135	0	MYH11,synonymous_variant,p.%3D,ENST00000452625,;MYH11,synonymous_variant,p.%3D,ENST00000576790,;MYH11,synonymous_variant,p.%3D,ENST00000300036,;MYH11,synonymous_variant,p.%3D,ENST00000396324,;AF001548.5,downstream_gene_variant,,ENST00000574212,;	T	ENSG00000133392	ENST00000396324	Transcript	synonymous_variant	3529	3441	1147	Q	caG/caA	.	.	.	-1	MYH11	HGNC	7569	protein_coding	YES	CCDS45423.1	ENSP00000379616	MYH11_HUMAN	Q68D89_HUMAN,Q66K75_HUMAN	UPI00005B7237	.	.	.	27/42	.	Coiled-coils_(Ncoils):Coil,Superfamily_domains:SSF90257,Pfam_domain:PF01576,hmmpanther:PTHR13140:SF335,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTTCTGCTT	.	4	BLCA
PDILT	0	.	GRCh37	16	20410434	20410434	+	Silent	SNP	G	G	A	rs140659319	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189C>T	p.%3D	p.L63L	ENST00000302451	2/12	34	30	4	38	38	0	PDILT,synonymous_variant,p.%3D,ENST00000575561,;PDILT,synonymous_variant,p.%3D,ENST00000302451,;	A	ENSG00000169340	ENST00000302451	Transcript	synonymous_variant	438	189	63	L	ctC/ctT	rs140659319	.	.	-1	PDILT	HGNC	27338	protein_coding	YES	CCDS10584.1	ENSP00000305465	PDILT_HUMAN	.	UPI000000DAC6	.	.	.	2/12	.	hmmpanther:PTHR18929:SF58,hmmpanther:PTHR18929,Pfam_domain:PF00085,Gene3D:3.40.30.10,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ACCATGAGGAA	byCluster	2	BLCA
PRKCB	0	.	GRCh37	16	24043488	24043488	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.320A>G	p.His107Arg	p.H107R	ENST00000303531	4/17	35	29	5	56	56	0	PRKCB,missense_variant,p.His107Arg,ENST00000303531,;PRKCB,missense_variant,p.His107Arg,ENST00000321728,;PRKCB,intron_variant,,ENST00000498739,;PRKCB,non_coding_transcript_exon_variant,,ENST00000486868,;	G	ENSG00000166501	ENST00000303531	Transcript	missense_variant	472	320	107	H/R	cAc/cGc	.	.	.	1	PRKCB	HGNC	9395	protein_coding	YES	CCDS10619.1	ENSP00000305355	KPCB_HUMAN	I3L1Z0_HUMAN	UPI000002ACF9	.	tolerated(0.05)	benign(0.16)	4/17	.	PROSITE_profiles:PS50081,hmmpanther:PTHR24357,hmmpanther:PTHR24357:SF63,PROSITE_patterns:PS00479,Pfam_domain:PF00130,Gene3D:3.30.60.20,PIRSF_domain:PIRSF000550,SMART_domains:SM00109,Superfamily_domains:SSF57889	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATCCACACGT	.	4	BLCA
MVP	0	.	GRCh37	16	29857244	29857244	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2082G>C	p.%3D	p.L694L	ENST00000357402	12/15	81	61	19	115	115	0	MVP,synonymous_variant,p.%3D,ENST00000395353,;MVP,synonymous_variant,p.%3D,ENST00000357402,;MVP,downstream_gene_variant,,ENST00000563558,;MVP,downstream_gene_variant,,ENST00000452209,;MVP,downstream_gene_variant,,ENST00000568068,;	C	ENSG00000013364	ENST00000357402	Transcript	synonymous_variant	2220	2082	694	L	ctG/ctC	.	.	.	1	MVP	HGNC	7531	protein_coding	YES	CCDS10656.1	ENSP00000349977	MVP_HUMAN	H3BUK7_HUMAN,H3BRL2_HUMAN,H3BQK6_HUMAN,H3BP76_HUMAN,H3BNF2_HUMAN	UPI000012FA9C	.	.	.	12/15	.	hmmpanther:PTHR14165:SF3,hmmpanther:PTHR14165	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTGGACCA	.	5	BLCA
CD2BP2	0	.	GRCh37	16	30364593	30364593	+	Missense_Mutation	SNP	C	C	T	rs550369828	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824G>A	p.Gly275Glu	p.G275E	ENST00000305596	6/7	61	56	5	74	74	0	CD2BP2,missense_variant,p.Gly275Glu,ENST00000305596,;CD2BP2,missense_variant,p.Gly275Glu,ENST00000569466,;TBC1D10B,downstream_gene_variant,,ENST00000409939,;TBC1D10B,downstream_gene_variant,,ENST00000490703,;RP11-347C12.10,upstream_gene_variant,,ENST00000563252,;TBC1D10B,downstream_gene_variant,,ENST00000478158,;CD2BP2,downstream_gene_variant,,ENST00000564525,;TBC1D10B,downstream_gene_variant,,ENST00000475650,;	T	ENSG00000169217	ENST00000305596	Transcript	missense_variant	1000	824	275	G/E	gGa/gAa	rs550369828	.	.	-1	CD2BP2	HGNC	1656	protein_coding	YES	CCDS10675.1	ENSP00000304903	CD2B2_HUMAN	Q5QTR6_HUMAN	UPI000006D625	.	tolerated(0.92)	benign(0.004)	6/7	.	hmmpanther:PTHR13138:SF3,hmmpanther:PTHR13138	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATCTCCCCGC	byCluster	3	BLCA
CD2BP2	0	.	GRCh37	16	30365287	30365287	+	Missense_Mutation	SNP	C	C	G	rs775874982	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310G>C	p.Asp104His	p.D104H	ENST00000305596	4/7	68	51	17	91	91	0	CD2BP2,missense_variant,p.Asp104His,ENST00000305596,;CD2BP2,missense_variant,p.Asp104His,ENST00000569466,;TBC1D10B,downstream_gene_variant,,ENST00000409939,;TBC1D10B,downstream_gene_variant,,ENST00000490703,;RP11-347C12.10,upstream_gene_variant,,ENST00000563252,;CD2BP2,non_coding_transcript_exon_variant,,ENST00000564525,;TBC1D10B,downstream_gene_variant,,ENST00000478158,;TBC1D10B,downstream_gene_variant,,ENST00000475872,;TBC1D10B,downstream_gene_variant,,ENST00000475650,;	G	ENSG00000169217	ENST00000305596	Transcript	missense_variant	486	310	104	D/H	Gat/Cat	rs775874982,COSM1247692	.	.	-1	CD2BP2	HGNC	1656	protein_coding	YES	CCDS10675.1	ENSP00000304903	CD2B2_HUMAN	Q5QTR6_HUMAN	UPI000006D625	.	deleterious(0)	benign(0.091)	4/7	.	hmmpanther:PTHR13138:SF3,hmmpanther:PTHR13138	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCGGCAT	.	5	BLCA
PRR14	0	.	GRCh37	16	30666443	30666443	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152C>G	p.%3D	p.V384V	ENST00000542965	7/11	65	50	15	78	78	0	PRR14,synonymous_variant,p.%3D,ENST00000542965,;PRR14,synonymous_variant,p.%3D,ENST00000300835,;PRR14,downstream_gene_variant,,ENST00000569864,;FBRS,upstream_gene_variant,,ENST00000568722,;FBRS,upstream_gene_variant,,ENST00000356166,;PRR14,downstream_gene_variant,,ENST00000568754,;PRR14,intron_variant,,ENST00000571654,;PRR14,non_coding_transcript_exon_variant,,ENST00000567322,;PRR14,non_coding_transcript_exon_variant,,ENST00000287463,;PRR14,non_coding_transcript_exon_variant,,ENST00000564946,;PRR14,upstream_gene_variant,,ENST00000567989,;FBRS,upstream_gene_variant,,ENST00000484152,;PRR14,downstream_gene_variant,,ENST00000563211,;PRR14,downstream_gene_variant,,ENST00000565410,;PRR14,downstream_gene_variant,,ENST00000563399,;FBRS,upstream_gene_variant,,ENST00000543786,;FBRS,upstream_gene_variant,,ENST00000498588,;PRR14,upstream_gene_variant,,ENST00000565977,;	G	ENSG00000156858	ENST00000542965	Transcript	synonymous_variant	1608	1152	384	V	gtC/gtG	.	.	.	1	PRR14	HGNC	28458	protein_coding	YES	CCDS10687.1	ENSP00000441641	PRR14_HUMAN	H3BQL8_HUMAN,H3BND2_HUMAN	UPI000006F1D0	.	.	.	7/11	.	hmmpanther:PTHR14522	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGTCTTCCC	.	5	BLCA
SRCAP	0	.	GRCh37	16	30735633	30735633	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4888C>T	p.Pro1630Ser	p.P1630S	ENST00000262518	25/34	39	27	11	68	68	0	SRCAP,missense_variant,p.Pro1630Ser,ENST00000262518,;SRCAP,missense_variant,p.Pro1472Ser,ENST00000344771,;SRCAP,missense_variant,p.Pro1568Ser,ENST00000395059,;SRCAP,missense_variant,p.Pro1453Ser,ENST00000380361,;SRCAP,non_coding_transcript_exon_variant,,ENST00000483083,;	T	ENSG00000080603	ENST00000262518	Transcript	missense_variant	5273	4888	1630	P/S	Cca/Tca	.	.	.	1	SRCAP	HGNC	16974	protein_coding	YES	CCDS10689.2	ENSP00000262518	SRCAP_HUMAN	G1UI29_HUMAN,C9J4U4_HUMAN	UPI000059D368	.	.	probably_damaging(0.968)	25/34	.	hmmpanther:PTHR10799:SF581,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTTCCAGTT	.	5	BLCA
PRSS8	0	.	GRCh37	16	31143399	31143399	+	Silent	SNP	C	C	T	rs750432086	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.963G>A	p.%3D	p.L321L	ENST00000317508	6/6	8	5	3	16	16	0	PRSS8,synonymous_variant,p.%3D,ENST00000568261,;PRSS8,synonymous_variant,p.%3D,ENST00000317508,;PRSS8,downstream_gene_variant,,ENST00000567797,;KAT8,downstream_gene_variant,,ENST00000543774,;KAT8,downstream_gene_variant,,ENST00000537402,;KAT8,downstream_gene_variant,,ENST00000448516,;KAT8,downstream_gene_variant,,ENST00000219797,;PRSS8,downstream_gene_variant,,ENST00000567531,;RP11-388M20.2,downstream_gene_variant,,ENST00000563605,;PRSS8,downstream_gene_variant,,ENST00000567833,;KAT8,downstream_gene_variant,,ENST00000538768,;KAT8,downstream_gene_variant,,ENST00000573144,;PRSS8,downstream_gene_variant,,ENST00000564025,;	T	ENSG00000052344	ENST00000317508	Transcript	synonymous_variant	1227	963	321	L	ctG/ctA	rs750432086	.	.	-1	PRSS8	HGNC	9491	protein_coding	YES	CCDS45469.1	ENSP00000319730	PRSS8_HUMAN	.	UPI0000046DCB	.	.	.	6/6	.	hmmpanther:PTHR24253:SF0,hmmpanther:PTHR24253,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCAGCAA	.	2	BLCA
ZNF423	0	.	GRCh37	16	49660127	49660127	+	Missense_Mutation	SNP	G	G	C	rs370042590	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3531C>G	p.Phe1177Leu	p.F1177L	ENST00000561648	5/8	108	86	22	154	154	0	ZNF423,missense_variant,p.Phe1177Leu,ENST00000262383,;ZNF423,missense_variant,p.Phe1117Leu,ENST00000563137,;ZNF423,missense_variant,p.Phe1117Leu,ENST00000562520,;ZNF423,missense_variant,p.Phe1177Leu,ENST00000561648,;ZNF423,missense_variant,p.Phe1060Leu,ENST00000567169,;ZNF423,missense_variant,p.Phe1060Leu,ENST00000535559,;ZNF423,missense_variant,p.Phe1117Leu,ENST00000562871,;	C	ENSG00000102935	ENST00000561648	Transcript	missense_variant	3585	3531	1177	F/L	ttC/ttG	rs370042590	.	.	-1	ZNF423	HGNC	16762	protein_coding	YES	CCDS32445.1	ENSP00000455426	ZN423_HUMAN	F5H7S1_HUMAN,B3KNG7_HUMAN	UPI0000353ABC	.	deleterious(0)	probably_damaging(0.999)	5/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24385:SF49,hmmpanther:PTHR24385,PROSITE_patterns:PS00028,Pfam_domain:PF13894,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCGAAGGT	byFrequency|byCluster	5	BLCA
MMP2	0	.	GRCh37	16	55525729	55525729	+	Silent	SNP	C	C	G	rs200082849	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1197C>G	p.%3D	p.L399L	ENST00000219070	8/13	59	49	10	87	87	0	MMP2,synonymous_variant,p.%3D,ENST00000543485,;MMP2,synonymous_variant,p.%3D,ENST00000570308,;MMP2,synonymous_variant,p.%3D,ENST00000219070,;MMP2,synonymous_variant,p.%3D,ENST00000570283,;MMP2,synonymous_variant,p.%3D,ENST00000437642,;	G	ENSG00000087245	ENST00000219070	Transcript	synonymous_variant	1706	1197	399	L	ctC/ctG	rs200082849	.	.	1	MMP2	HGNC	7166	protein_coding	YES	CCDS10752.1	ENSP00000219070	MMP2_HUMAN	Q2EF79_HUMAN,H3BV48_HUMAN,H3BR66_HUMAN	UPI00000422C4	.	.	.	8/13	.	hmmpanther:PTHR10201:SF29,hmmpanther:PTHR10201,Gene3D:3.40.390.10,Pfam_domain:PF00413,SMART_domains:SM00235,Superfamily_domains:SSF55486	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCGTGGC	byFrequency|byCluster|by1000G	5	BLCA
OGFOD1	0	.	GRCh37	16	56501895	56501895	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865G>A	p.Glu289Lys	p.E289K	ENST00000566157	8/13	32	27	5	39	39	0	OGFOD1,missense_variant,p.Glu289Lys,ENST00000566157,;OGFOD1,missense_variant,p.Glu246Lys,ENST00000568397,;BBS2,intron_variant,,ENST00000564123,;OGFOD1,downstream_gene_variant,,ENST00000561646,;BBS2,downstream_gene_variant,,ENST00000564459,;OGFOD1,downstream_gene_variant,,ENST00000562150,;OGFOD1,downstream_gene_variant,,ENST00000568172,;OGFOD1,downstream_gene_variant,,ENST00000565209,;OGFOD1,3_prime_UTR_variant,,ENST00000336111,;OGFOD1,downstream_gene_variant,,ENST00000569802,;	A	ENSG00000087263	ENST00000566157	Transcript	missense_variant	988	865	289	E/K	Gaa/Aaa	.	.	.	1	OGFOD1	HGNC	25585	protein_coding	YES	CCDS10761.2	ENSP00000457258	OGFD1_HUMAN	H3BUA6_HUMAN,H3BP48_HUMAN	UPI0000049DA2	.	deleterious(0.02)	benign(0.063)	8/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12117,Pfam_domain:PF10637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGAAGAAAGT	.	3	BLCA
NLRC5	0	.	GRCh37	16	57057730	57057730	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389C>T	p.Ser130Leu	p.S130L	ENST00000262510	5/49	23	19	4	22	22	0	NLRC5,missense_variant,p.Ser130Leu,ENST00000308149,;NLRC5,missense_variant,p.Ser130Leu,ENST00000539144,;NLRC5,missense_variant,p.Ser130Leu,ENST00000436936,;NLRC5,missense_variant,p.Ser130Leu,ENST00000262510,;NLRC5,upstream_gene_variant,,ENST00000543030,;NLRC5,upstream_gene_variant,,ENST00000538805,;NLRC5,upstream_gene_variant,,ENST00000538110,;NLRC5,downstream_gene_variant,,ENST00000544641,;NLRC5,downstream_gene_variant,,ENST00000538059,;NLRC5,missense_variant,p.Ser130Leu,ENST00000539881,;NLRC5,downstream_gene_variant,,ENST00000538273,;NLRC5,upstream_gene_variant,,ENST00000536231,;NLRC5,upstream_gene_variant,,ENST00000545081,;	T	ENSG00000140853	ENST00000262510	Transcript	missense_variant	614	389	130	S/L	tCa/tTa	.	.	.	1	NLRC5	HGNC	29933	protein_coding	YES	CCDS10773.1	ENSP00000262510	NLRC5_HUMAN	F5H274_HUMAN,F5GYP0_HUMAN	UPI00001AEE94	.	deleterious(0.03)	benign(0.179)	5/49	.	hmmpanther:PTHR24106:SF69,hmmpanther:PTHR24106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GTCCTCACCCC	.	2	BLCA
PLEKHG4	0	.	GRCh37	16	67319084	67319084	+	Missense_Mutation	SNP	C	C	T	rs200287373	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2161C>T	p.Pro721Ser	p.P721S	ENST00000360461	12/21	25	18	6	47	47	0	PLEKHG4,missense_variant,p.Pro721Ser,ENST00000360461,;PLEKHG4,missense_variant,p.Pro640Ser,ENST00000450733,;PLEKHG4,missense_variant,p.Pro721Ser,ENST00000379344,;PLEKHG4,missense_variant,p.Pro721Ser,ENST00000427155,;KCTD19,downstream_gene_variant,,ENST00000304372,;PLEKHG4,downstream_gene_variant,,ENST00000565773,;KCTD19,downstream_gene_variant,,ENST00000562841,;PLEKHG4,downstream_gene_variant,,ENST00000567938,;PLEKHG4,downstream_gene_variant,,ENST00000565899,;PLEKHG4,upstream_gene_variant,,ENST00000569875,;PLEKHG4,downstream_gene_variant,,ENST00000562144,;PLEKHG4,downstream_gene_variant,,ENST00000562744,;PLEKHG4,3_prime_UTR_variant,,ENST00000563969,;PLEKHG4,intron_variant,,ENST00000393966,;KCTD19,downstream_gene_variant,,ENST00000570049,;KCTD19,downstream_gene_variant,,ENST00000566392,;PLEKHG4,upstream_gene_variant,,ENST00000562289,;PLEKHG4,upstream_gene_variant,,ENST00000567136,;KCTD19,downstream_gene_variant,,ENST00000569333,;	T	ENSG00000196155	ENST00000360461	Transcript	missense_variant	4696	2161	721	P/S	Cca/Tca	rs200287373	.	.	1	PLEKHG4	HGNC	24501	protein_coding	YES	CCDS32466.1	ENSP00000353646	PKHG4_HUMAN	H3BSU4_HUMAN,H3BQP9_HUMAN,H3BQE6_HUMAN,H3BPQ5_HUMAN,H3BME5_HUMAN,C5IFI8_HUMAN	UPI000013C774	.	tolerated(0.83)	benign(0.004)	12/21	.	hmmpanther:PTHR22826:SF110,hmmpanther:PTHR22826	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCCACCA	byCluster|by1000G	5	BLCA
EDC4	0	.	GRCh37	16	67915076	67915076	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2629G>C	p.Glu877Gln	p.E877Q	ENST00000358933	19/29	40	37	3	62	62	0	EDC4,missense_variant,p.Glu877Gln,ENST00000358933,;EDC4,upstream_gene_variant,,ENST00000577105,;NRN1L,upstream_gene_variant,,ENST00000576147,;NRN1L,upstream_gene_variant,,ENST00000339176,;NRN1L,upstream_gene_variant,,ENST00000576758,;EDC4,upstream_gene_variant,,ENST00000575033,;EDC4,upstream_gene_variant,,ENST00000573985,;CTC-479C5.10,upstream_gene_variant,,ENST00000572067,;AC040162.1,downstream_gene_variant,,ENST00000408599,;EDC4,downstream_gene_variant,,ENST00000574770,;EDC4,non_coding_transcript_exon_variant,,ENST00000577028,;EDC4,non_coding_transcript_exon_variant,,ENST00000576972,;EDC4,non_coding_transcript_exon_variant,,ENST00000573992,;EDC4,non_coding_transcript_exon_variant,,ENST00000572221,;EDC4,non_coding_transcript_exon_variant,,ENST00000572724,;EDC4,non_coding_transcript_exon_variant,,ENST00000575514,;EDC4,downstream_gene_variant,,ENST00000536072,;EDC4,downstream_gene_variant,,ENST00000572031,;EDC4,upstream_gene_variant,,ENST00000575507,;	C	ENSG00000038358	ENST00000358933	Transcript	missense_variant	2868	2629	877	E/Q	Gag/Cag	.	.	.	1	EDC4	HGNC	17157	protein_coding	YES	CCDS10849.1	ENSP00000351811	EDC4_HUMAN	.	UPI0000141377	.	deleterious(0.01)	probably_damaging(0.982)	19/29	.	hmmpanther:PTHR15598	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCTGAGCAA	.	2	BLCA
EDC4	0	.	GRCh37	16	67915412	67915412	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2802G>A	p.Met934Ile	p.M934I	ENST00000358933	21/29	37	29	8	59	59	0	EDC4,missense_variant,p.Met934Ile,ENST00000358933,;EDC4,upstream_gene_variant,,ENST00000577105,;NRN1L,upstream_gene_variant,,ENST00000576147,;NRN1L,upstream_gene_variant,,ENST00000339176,;NRN1L,upstream_gene_variant,,ENST00000576758,;EDC4,upstream_gene_variant,,ENST00000575033,;EDC4,upstream_gene_variant,,ENST00000573985,;CTC-479C5.10,upstream_gene_variant,,ENST00000572067,;AC040162.1,downstream_gene_variant,,ENST00000408599,;EDC4,downstream_gene_variant,,ENST00000574770,;EDC4,non_coding_transcript_exon_variant,,ENST00000576972,;EDC4,non_coding_transcript_exon_variant,,ENST00000573992,;EDC4,non_coding_transcript_exon_variant,,ENST00000572221,;EDC4,non_coding_transcript_exon_variant,,ENST00000575514,;EDC4,downstream_gene_variant,,ENST00000577028,;EDC4,downstream_gene_variant,,ENST00000536072,;EDC4,downstream_gene_variant,,ENST00000572031,;EDC4,upstream_gene_variant,,ENST00000575507,;EDC4,downstream_gene_variant,,ENST00000572724,;	A	ENSG00000038358	ENST00000358933	Transcript	missense_variant	3041	2802	934	M/I	atG/atA	COSM1194736	.	.	1	EDC4	HGNC	17157	protein_coding	YES	CCDS10849.1	ENSP00000351811	EDC4_HUMAN	.	UPI0000141377	.	deleterious(0.04)	benign(0.001)	21/29	.	hmmpanther:PTHR15598	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGGGATC	.	5	BLCA
CIRH1A	0	.	GRCh37	16	69196989	69196989	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1555C>T	p.His519Tyr	p.H519Y	ENST00000314423	14/17	127	100	27	166	166	0	CIRH1A,missense_variant,p.His519Tyr,ENST00000314423,;CIRH1A,missense_variant,p.His143Tyr,ENST00000567500,;CIRH1A,missense_variant,p.His519Tyr,ENST00000563094,;CIRH1A,missense_variant,p.His404Tyr,ENST00000352319,;CIRH1A,missense_variant,p.His533Tyr,ENST00000562237,;CIRH1A,upstream_gene_variant,,ENST00000567287,;	T	ENSG00000141076	ENST00000314423	Transcript	missense_variant	1732	1555	519	H/Y	Cac/Tac	.	.	.	1	CIRH1A	HGNC	1983	protein_coding	YES	CCDS10872.1	ENSP00000327179	CIR1A_HUMAN	J3KTR0_HUMAN,J3KSE6_HUMAN,H3BPD7_HUMAN	UPI0000037300	.	deleterious(0)	benign(0.004)	14/17	.	hmmpanther:PTHR22841,hmmpanther:PTHR22841:SF4,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF82171	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCACTGC	.	5	BLCA
WDR90	0	.	GRCh37	16	700265	700265	+	Silent	SNP	C	C	T	rs763723238	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>T	p.%3D	p.V97V	ENST00000293879	4/41	250	203	47	360	360	0	WDR90,synonymous_variant,p.%3D,ENST00000293879,;WDR90,synonymous_variant,p.%3D,ENST00000549091,;FAM195A,downstream_gene_variant,,ENST00000307650,;LA16c-349E10.1,downstream_gene_variant,,ENST00000573609,;AL022341.3,upstream_gene_variant,,ENST00000455294,;WDR90,upstream_gene_variant,,ENST00000552648,;WDR90,non_coding_transcript_exon_variant,,ENST00000552943,;WDR90,non_coding_transcript_exon_variant,,ENST00000549648,;WDR90,non_coding_transcript_exon_variant,,ENST00000420061,;FAM195A,downstream_gene_variant,,ENST00000575894,;WDR90,upstream_gene_variant,,ENST00000550593,;FAM195A,downstream_gene_variant,,ENST00000491999,;FAM195A,downstream_gene_variant,,ENST00000474840,;WDR90,upstream_gene_variant,,ENST00000546516,;	T	ENSG00000161996	ENST00000293879	Transcript	synonymous_variant	291	291	97	V	gtC/gtT	rs763723238	.	.	1	WDR90	HGNC	26960	protein_coding	YES	CCDS42092.1	ENSP00000293879	WDR90_HUMAN	.	UPI0000D67C48	.	.	.	4/41	.	Pfam_domain:PF05018	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAGTCATCCG	byFrequency	4	BLCA
CHST4	0	.	GRCh37	16	71571673	71571673	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1093G>C	p.Glu365Gln	p.E365Q	ENST00000338482	3/3	59	48	10	100	100	0	CHST4,missense_variant,p.Glu365Gln,ENST00000539698,;CHST4,missense_variant,p.Glu365Gln,ENST00000572450,;CHST4,missense_variant,p.Glu365Gln,ENST00000338482,;ZNF19,intron_variant,,ENST00000564225,;ZNF19,intron_variant,,ENST00000566202,;RP11-510M2.5,downstream_gene_variant,,ENST00000568523,;ZNF19,intron_variant,,ENST00000568446,;CHST4,non_coding_transcript_exon_variant,,ENST00000572693,;	C	ENSG00000140835	ENST00000338482	Transcript	missense_variant	1436	1093	365	E/Q	Gaa/Caa	COSM3888911	.	.	1	CHST4	HGNC	1972	protein_coding	YES	CCDS10902.1	ENSP00000341206	CHST4_HUMAN	.	UPI000006F41D	.	tolerated(0.09)	benign(0.021)	3/3	.	hmmpanther:PTHR10704:SF40,hmmpanther:PTHR10704,PIRSF_domain:PIRSF005883	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTGAACAA	.	5	BLCA
AP1G1	0	.	GRCh37	16	71779423	71779423	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1834C>G	p.Pro612Ala	p.P612A	ENST00000393512	19/24	114	100	13	173	172	0	AP1G1,missense_variant,p.Pro609Ala,ENST00000569748,;AP1G1,missense_variant,p.Pro34Ala,ENST00000564155,;AP1G1,missense_variant,p.Pro632Ala,ENST00000433195,;AP1G1,missense_variant,p.Pro609Ala,ENST00000299980,;AP1G1,missense_variant,p.Pro612Ala,ENST00000423132,;AP1G1,missense_variant,p.Pro612Ala,ENST00000393512,;AP1G1,downstream_gene_variant,,ENST00000562934,;AP1G1,3_prime_UTR_variant,,ENST00000565009,;AP1G1,non_coding_transcript_exon_variant,,ENST00000565642,;AP1G1,downstream_gene_variant,,ENST00000568327,;AP1G1,downstream_gene_variant,,ENST00000566179,;	C	ENSG00000166747	ENST00000393512	Transcript	missense_variant	2276	1834	612	P/A	Cca/Gca	.	.	.	-1	AP1G1	HGNC	555	protein_coding	YES	CCDS45522.1	ENSP00000377148	AP1G1_HUMAN	H3BV30_HUMAN,H3BS13_HUMAN,H3BRM7_HUMAN,H3BR36_HUMAN,H3BPN9_HUMAN,H3BN75_HUMAN,H3BN71_HUMAN,B3KNW1_HUMAN	UPI000016A4AD	.	tolerated(0.74)	benign(0.003)	19/24	.	PIRSF_domain:PIRSF037094,hmmpanther:PTHR22780,hmmpanther:PTHR22780:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGTGGAGCTG	.	4	BLCA
MLKL	0	.	GRCh37	16	74726289	74726289	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486G>A	p.%3D	p.L162L	ENST00000308807	3/11	43	37	6	66	66	0	MLKL,synonymous_variant,p.%3D,ENST00000573267,;MLKL,synonymous_variant,p.%3D,ENST00000308807,;MLKL,synonymous_variant,p.%3D,ENST00000306247,;MLKL,downstream_gene_variant,,ENST00000575686,;MLKL,upstream_gene_variant,,ENST00000571303,;	T	ENSG00000168404	ENST00000308807	Transcript	synonymous_variant	950	486	162	L	ctG/ctA	.	.	.	-1	MLKL	HGNC	26617	protein_coding	YES	CCDS32487.1	ENSP00000308351	MLKL_HUMAN	I3L4Z5_HUMAN,I3L2T9_HUMAN	UPI000004073C	.	.	.	3/11	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23257,hmmpanther:PTHR23257:SF347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGTCTCAGTGA	.	4	BLCA
ADAMTS18	0	.	GRCh37	16	77369704	77369704	+	Missense_Mutation	SNP	C	C	T	rs773401732	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1808G>A	p.Arg603Gln	p.R603Q	ENST00000282849	12/23	128	111	17	160	160	0	ADAMTS18,missense_variant,p.Arg603Gln,ENST00000282849,;	T	ENSG00000140873	ENST00000282849	Transcript	missense_variant	2227	1808	603	R/Q	cGg/cAg	rs773401732	.	.	-1	ADAMTS18	HGNC	17110	protein_coding	YES	CCDS10926.1	ENSP00000282849	ATS18_HUMAN	.	UPI0000233610	.	deleterious(0.03)	probably_damaging(0.966)	12/23	.	PROSITE_profiles:PS50092,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF167,Pfam_domain:PF00090,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895,Prints_domain:PR01857	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTCCGGGAA	byFrequency	4	BLCA
ATMIN	0	.	GRCh37	16	81078222	81078222	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2119G>C	p.Asp707His	p.D707H	ENST00000299575	4/4	128	102	25	201	201	0	ATMIN,missense_variant,p.Asp551His,ENST00000566488,;ATMIN,missense_variant,p.Asp551His,ENST00000564241,;ATMIN,missense_variant,p.Asp707His,ENST00000299575,;ATMIN,downstream_gene_variant,,ENST00000565237,;ATMIN,non_coding_transcript_exon_variant,,ENST00000539819,;ATMIN,downstream_gene_variant,,ENST00000562969,;	C	ENSG00000166454	ENST00000299575	Transcript	missense_variant	2143	2119	707	D/H	Gac/Cac	COSM1380040	.	.	1	ATMIN	HGNC	29034	protein_coding	YES	CCDS32494.1	ENSP00000299575	ATMIN_HUMAN	J3QRX7_HUMAN,D3DUL0_HUMAN	UPI00001B2485	.	deleterious(0.02)	probably_damaging(0.999)	4/4	.	hmmpanther:PTHR10593,hmmpanther:PTHR10593:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACAGACTTA	.	5	BLCA
SNAI3	0	.	GRCh37	16	88747913	88747913	+	Missense_Mutation	SNP	G	G	C	rs746319858	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286C>G	p.Arg96Gly	p.R96G	ENST00000332281	2/3	59	49	10	89	89	0	SNAI3,missense_variant,p.Arg96Gly,ENST00000332281,;SNAI3-AS1,intron_variant,,ENST00000563261,;SNAI3-AS1,upstream_gene_variant,,ENST00000596908,;SNAI3-AS1,upstream_gene_variant,,ENST00000567997,;	C	ENSG00000185669	ENST00000332281	Transcript	missense_variant	373	286	96	R/G	Cgg/Ggg	rs746319858	.	.	-1	SNAI3	HGNC	18411	protein_coding	YES	CCDS32505.1	ENSP00000327968	SNAI3_HUMAN	.	UPI0000197CFA	.	tolerated(0.4)	benign(0.003)	2/3	.	hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF400	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCCGAGGGT	byFrequency	5	BLCA
ZNF778	0	.	GRCh37	16	89294548	89294548	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1768G>A	p.Glu590Lys	p.E590K	ENST00000433976	6/6	66	50	16	113	113	0	ZNF778,missense_variant,p.Glu590Lys,ENST00000433976,;ZNF778,missense_variant,p.Glu548Lys,ENST00000306502,;ZNF778,downstream_gene_variant,,ENST00000564906,;RP11-46C24.6,intron_variant,,ENST00000563182,;ZNF778,downstream_gene_variant,,ENST00000565414,;ZNF778,downstream_gene_variant,,ENST00000567651,;	A	ENSG00000170100	ENST00000433976	Transcript	missense_variant	2100	1768	590	E/K	Gaa/Aaa	.	.	.	1	ZNF778	HGNC	26479	protein_coding	YES	CCDS45550.1	ENSP00000405289	ZN778_HUMAN	H3BUU4_HUMAN	UPI00001B6521	.	tolerated(0.45)	benign(0.099)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF116,hmmpanther:PTHR24381,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTATGAATGT	.	5	BLCA
FANCA	0	.	GRCh37	16	89842160	89842160	+	Missense_Mutation	SNP	C	C	G	rs748122887	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1890G>C	p.Glu630Asp	p.E630D	ENST00000389301	21/43	19	16	3	23	23	0	FANCA,missense_variant,p.Glu630Asp,ENST00000568369,;FANCA,missense_variant,p.Glu630Asp,ENST00000389301,;FANCA,non_coding_transcript_exon_variant,,ENST00000567284,;FANCA,3_prime_UTR_variant,,ENST00000567510,;	G	ENSG00000187741	ENST00000389301	Transcript	missense_variant	1921	1890	630	E/D	gaG/gaC	rs748122887	.	.	-1	FANCA	HGNC	3582	protein_coding	YES	CCDS32515.1	ENSP00000373952	FANCA_HUMAN	H3BT53_HUMAN	UPI0000520A1A	.	deleterious(0.04)	benign(0.217)	21/43	.	hmmpanther:PTHR12047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCTTCTCTTC	.	2	BLCA
TCF25	0	.	GRCh37	16	89940220	89940220	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145G>A	p.Gly49Arg	p.G49R	ENST00000263346	1/18	8	3	5	9	9	0	TCF25,missense_variant,p.Gly49Arg,ENST00000568412,;TCF25,missense_variant,p.Gly49Arg,ENST00000565196,;TCF25,missense_variant,p.Gly49Arg,ENST00000263346,;TCF25,missense_variant,p.Gly49Arg,ENST00000561958,;SPIRE2,downstream_gene_variant,,ENST00000378247,;SPIRE2,downstream_gene_variant,,ENST00000393062,;TCF25,non_coding_transcript_exon_variant,,ENST00000563032,;TCF25,upstream_gene_variant,,ENST00000563406,;TCF25,missense_variant,p.Gly49Arg,ENST00000564652,;TCF25,non_coding_transcript_exon_variant,,ENST00000561585,;SPIRE2,downstream_gene_variant,,ENST00000565628,;SPIRE2,downstream_gene_variant,,ENST00000569108,;SPIRE2,downstream_gene_variant,,ENST00000562029,;	A	ENSG00000141002	ENST00000263346	Transcript	missense_variant	201	145	49	G/R	Ggg/Agg	.	.	.	1	TCF25	HGNC	29181	protein_coding	YES	CCDS10987.1	ENSP00000263346	TCF25_HUMAN	.	UPI000012A80B	.	tolerated(0.86)	benign(0.003)	1/18	.	hmmpanther:PTHR22684:SF0,hmmpanther:PTHR22684	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCCGGGGGC	.	2	BLCA
MYH1	0	.	GRCh37	17	10415430	10415430	+	Silent	SNP	G	G	A	rs556155732	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1227C>T	p.%3D	p.V409V	ENST00000226207	13/40	234	201	33	279	279	0	MYH1,synonymous_variant,p.%3D,ENST00000226207,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;	A	ENSG00000109061	ENST00000226207	Transcript	synonymous_variant	1322	1227	409	V	gtC/gtT	rs556155732	.	.	-1	MYH1	HGNC	7567	protein_coding	YES	CCDS11155.1	ENSP00000226207	MYH1_HUMAN	.	UPI000013C891	.	.	.	13/40	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF264,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	A:0.0004	A:0	A:0	.	A:0.001	A:0	A:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCCGACCTT	byFrequency|by1000G	4	BLCA
DNAH9	0	.	GRCh37	17	11787059	11787059	+	Missense_Mutation	SNP	G	G	C	rs747765325	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10963G>C	p.Glu3655Gln	p.E3655Q	ENST00000262442	56/69	39	34	5	47	47	0	DNAH9,missense_variant,p.Glu3655Gln,ENST00000454412,;DNAH9,missense_variant,p.Glu3655Gln,ENST00000262442,;DNAH9,5_prime_UTR_variant,,ENST00000608377,;DNAH9,downstream_gene_variant,,ENST00000579703,;DNAH9,non_coding_transcript_exon_variant,,ENST00000396001,;DNAH9,downstream_gene_variant,,ENST00000580255,;DNAH9,upstream_gene_variant,,ENST00000581682,;	C	ENSG00000007174	ENST00000262442	Transcript	missense_variant	11031	10963	3655	E/Q	Gag/Cag	rs747765325	.	.	1	DNAH9	HGNC	2953	protein_coding	YES	CCDS11160.1	ENSP00000262442	DYH9_HUMAN	Q92865_HUMAN	UPI0000141BA2	.	.	benign(0.035)	56/69	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10676:SF36,hmmpanther:PTHR10676,Pfam_domain:PF12781	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTTGAGAAA	.	4	BLCA
ZNF18	0	.	GRCh37	17	11886701	11886701	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775G>C	p.Asp259His	p.D259H	ENST00000322748	8/9	66	54	11	115	115	0	ZNF18,missense_variant,p.Asp258His,ENST00000454073,;ZNF18,missense_variant,p.Asp259His,ENST00000322748,;ZNF18,missense_variant,p.Asp80His,ENST00000582607,;ZNF18,missense_variant,p.Asp229His,ENST00000580613,;ZNF18,missense_variant,p.Asp259His,ENST00000580306,;ZNF18,intron_variant,,ENST00000577671,;	G	ENSG00000154957	ENST00000322748	Transcript	missense_variant	1380	775	259	D/H	Gac/Cac	.	.	.	-1	ZNF18	HGNC	12969	protein_coding	YES	CCDS32568.1	ENSP00000315664	ZNF18_HUMAN	J3KSC1_HUMAN	UPI00000703B9	.	deleterious(0.01)	possibly_damaging(0.826)	8/9	.	Superfamily_domains:0044637,SMART_domains:SM00349,hmmpanther:PTHR10032:SF11,hmmpanther:PTHR10032,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGTCAGATT	.	5	BLCA
MAP2K4	0	.	GRCh37	17	12032558	12032558	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994G>A	p.Glu332Lys	p.E332K	ENST00000353533	9/11	48	39	8	69	69	0	MAP2K4,missense_variant,p.Glu332Lys,ENST00000353533,;MAP2K4,missense_variant,p.Glu343Lys,ENST00000415385,;MAP2K4,downstream_gene_variant,,ENST00000579089,;MAP2K4,downstream_gene_variant,,ENST00000581941,;MAP2K4,3_prime_UTR_variant,,ENST00000602375,;MAP2K4,3_prime_UTR_variant,,ENST00000602811,;MAP2K4,3_prime_UTR_variant,,ENST00000602686,;MAP2K4,3_prime_UTR_variant,,ENST00000602305,;MAP2K4,non_coding_transcript_exon_variant,,ENST00000585076,;MAP2K4,non_coding_transcript_exon_variant,,ENST00000536413,;MAP2K4,intron_variant,,ENST00000538465,;MAP2K4,intron_variant,,ENST00000602537,;	A	ENSG00000065559	ENST00000353533	Transcript	missense_variant	1057	994	332	E/K	Gag/Aag	.	.	.	1	MAP2K4	HGNC	6844	protein_coding	YES	CCDS11162.1	ENSP00000262445	MP2K4_HUMAN	J3QQR2_HUMAN,J3KTI6_HUMAN	UPI000012F48E	.	tolerated(0.29)	benign(0.113)	9/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24360:SF46,hmmpanther:PTHR24360,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGAGGAA	.	5	BLCA
MYOCD	0	.	GRCh37	17	12656593	12656593	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1988C>A	p.Ser663Ter	p.S663*	ENST00000425538	10/14	50	46	4	78	78	0	MYOCD,stop_gained,p.Ser663Ter,ENST00000343344,;MYOCD,stop_gained,p.Ser368Ter,ENST00000443061,;MYOCD,stop_gained,p.Ser663Ter,ENST00000425538,;AC005358.1,stop_gained,p.Ser567Ter,ENST00000609971,;MYOCD,non_coding_transcript_exon_variant,,ENST00000395988,;	A	ENSG00000141052	ENST00000425538	Transcript	stop_gained	2188	1988	663	S/*	tCa/tAa	.	.	.	1	MYOCD	HGNC	16067	protein_coding	YES	CCDS54091.1	ENSP00000401678	MYCD_HUMAN	.	UPI000022A2E2	.	.	.	10/14	.	hmmpanther:PTHR22793,hmmpanther:PTHR22793:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GCCCTCATCCT	.	2	BLCA
TEKT3	0	.	GRCh37	17	15215662	15215662	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015C>T	p.Gln339Ter	p.Q339*	ENST00000395930	7/9	84	67	16	128	128	0	TEKT3,stop_gained,p.Gln173Ter,ENST00000539245,;TEKT3,stop_gained,p.Gln339Ter,ENST00000395930,;TEKT3,stop_gained,p.Gln339Ter,ENST00000338696,;RNU6-799P,downstream_gene_variant,,ENST00000363567,;TEKT3,3_prime_UTR_variant,,ENST00000395931,;TEKT3,upstream_gene_variant,,ENST00000578011,;	A	ENSG00000125409	ENST00000395930	Transcript	stop_gained	1202	1015	339	Q/*	Caa/Taa	COSM3514472	.	.	-1	TEKT3	HGNC	14293	protein_coding	YES	CCDS11169.1	ENSP00000379263	TEKT3_HUMAN	F5H5M8_HUMAN,F5H4K1_HUMAN,F5H115_HUMAN,F5GZV8_HUMAN	UPI0000136BAB	.	.	.	7/9	.	hmmpanther:PTHR19960,hmmpanther:PTHR19960:SF24,Pfam_domain:PF03148	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAATTGATTCC	.	3	BLCA
NCOR1	0	.	GRCh37	17	15973811	15973811	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4181C>G	p.Ser1394Ter	p.S1394*	ENST00000268712	31/46	66	57	9	86	86	0	NCOR1,stop_gained,p.Ser25Ter,ENST00000395849,;NCOR1,stop_gained,p.Ser1410Ter,ENST00000395851,;NCOR1,stop_gained,p.Ser1394Ter,ENST00000268712,;NCOR1,5_prime_UTR_variant,,ENST00000395857,;NCOR1,non_coding_transcript_exon_variant,,ENST00000458113,;NCOR1,upstream_gene_variant,,ENST00000584872,;NCOR1,upstream_gene_variant,,ENST00000470782,;	C	ENSG00000141027	ENST00000268712	Transcript	stop_gained	4439	4181	1394	S/*	tCa/tGa	.	.	.	-1	NCOR1	HGNC	7672	protein_coding	YES	CCDS11175.1	ENSP00000268712	NCOR1_HUMAN	Q9NSZ0_HUMAN,C9JAP0_HUMAN,B4DJ25_HUMAN	UPI000013D7D5	.	.	.	31/46	.	hmmpanther:PTHR13992,hmmpanther:PTHR13992:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTGAGTTG	.	4	BLCA
CCDC144A	0	.	GRCh37	17	16667298	16667298	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3907G>T	p.Glu1303Ter	p.E1303*	ENST00000443444	15/27	50	46	4	72	72	0	CCDC144A,stop_gained,p.Glu1303Ter,ENST00000443444,;CCDC144A,stop_gained,p.Glu1303Ter,ENST00000360524,;CCDC144A,stop_gained,p.Glu1069Ter,ENST00000456009,;CCDC144A,stop_gained,p.Glu1303Ter,ENST00000399273,;RP11-219A15.1,stop_gained,p.Glu1303Ter,ENST00000448331,;CCDC144A,3_prime_UTR_variant,,ENST00000360495,;CCDC144A,non_coding_transcript_exon_variant,,ENST00000470068,;CCDC144A,non_coding_transcript_exon_variant,,ENST00000328495,;	T	ENSG00000170160	ENST00000443444	Transcript	stop_gained	4047	3907	1303	E/*	Gag/Tag	.	.	.	1	CCDC144A	HGNC	29072	protein_coding	YES	CCDS45621.1	ENSP00000439262	C144A_HUMAN	.	UPI0000F095D0	.	.	.	15/27	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22245,hmmpanther:PTHR22245:SF0,Pfam_domain:PF12001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	TAGCAGAGGTC	.	2	BLCA
COPS3	0	.	GRCh37	17	17150440	17150440	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1244C>T	p.Ser415Leu	p.S415L	ENST00000268717	12/12	107	97	9	159	159	0	COPS3,missense_variant,p.Ser43Leu,ENST00000579716,;COPS3,missense_variant,p.Ser337Leu,ENST00000439936,;COPS3,missense_variant,p.Ser415Leu,ENST00000268717,;COPS3,missense_variant,p.Ser395Leu,ENST00000539941,;AC055811.1,downstream_gene_variant,,ENST00000577389,;COPS3,3_prime_UTR_variant,,ENST00000578317,;COPS3,non_coding_transcript_exon_variant,,ENST00000486032,;COPS3,downstream_gene_variant,,ENST00000463097,;AC055811.5,downstream_gene_variant,,ENST00000423783,;	A	ENSG00000141030	ENST00000268717	Transcript	missense_variant	1351	1244	415	S/L	tCa/tTa	.	.	.	-1	COPS3	HGNC	2239	protein_coding	YES	CCDS11183.1	ENSP00000268717	CSN3_HUMAN	J3QKR0_HUMAN	UPI0000073FD1	.	tolerated(0.44)	benign(0)	12/12	.	hmmpanther:PTHR10758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTGAATCA	.	3	BLCA
FBXW10	0	.	GRCh37	17	18647716	18647716	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159G>C	p.Gln53His	p.Q53H	ENST00000395665	1/14	117	95	21	199	199	0	FBXW10,missense_variant,p.Gln53His,ENST00000301938,;FBXW10,missense_variant,p.Gln53His,ENST00000308799,;FBXW10,missense_variant,p.Gln53His,ENST00000395667,;FBXW10,missense_variant,p.Gln53His,ENST00000395665,;FBXW10,missense_variant,p.Gln53His,ENST00000574478,;	C	ENSG00000171931	ENST00000395665	Transcript	missense_variant	380	159	53	Q/H	caG/caC	.	.	.	1	FBXW10	HGNC	1211	protein_coding	YES	CCDS11199.3	ENSP00000379025	FBW10_HUMAN	.	UPI0000200B30	.	tolerated(0.07)	possibly_damaging(0.867)	1/14	.	hmmpanther:PTHR19872:SF7,hmmpanther:PTHR19872	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACAGAGGAG	.	4	BLCA
CLUH	0	.	GRCh37	17	2593934	2593934	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3884C>T	p.Ser1295Phe	p.S1295F	ENST00000570628	26/26	19	15	4	36	36	0	CLUH,missense_variant,p.Ser1295Phe,ENST00000435359,;CLUH,missense_variant,p.Ser1237Phe,ENST00000575014,;CLUH,missense_variant,p.Ser1295Phe,ENST00000538975,;CLUH,missense_variant,p.Ser1295Phe,ENST00000570628,;CLUH,downstream_gene_variant,,ENST00000574426,;RP11-74E22.6,downstream_gene_variant,,ENST00000608984,;CLUH,downstream_gene_variant,,ENST00000574166,;CLUH,downstream_gene_variant,,ENST00000573641,;CLUH,downstream_gene_variant,,ENST00000574210,;CLUH,downstream_gene_variant,,ENST00000572014,;	A	ENSG00000132361	ENST00000570628	Transcript	missense_variant	3990	3884	1295	S/F	tCc/tTc	.	.	.	-1	CLUH	HGNC	29094	protein_coding	YES	CCDS45572.1	ENSP00000458986	CLU_HUMAN	I3L3A3_HUMAN,I3L350_HUMAN,I3L318_HUMAN	UPI00004C8042	.	deleterious_low_confidence(0)	possibly_damaging(0.901)	26/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	GCTGGGAGCCC	.	4	BLCA
NOS2	0	.	GRCh37	17	26114739	26114739	+	Silent	SNP	G	G	A	rs776919338	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432C>T	p.%3D	p.I144I	ENST00000313735	5/27	87	66	21	135	135	0	NOS2,synonymous_variant,p.%3D,ENST00000313735,;	A	ENSG00000007171	ENST00000313735	Transcript	synonymous_variant	666	432	144	I	atC/atT	rs776919338	.	.	-1	NOS2	HGNC	7873	protein_coding	YES	CCDS11223.1	ENSP00000327251	NOS2_HUMAN	Q9UM94_HUMAN	UPI000011D645	.	.	.	5/27	.	Gene3D:3.90.340.10,Pfam_domain:PF02898,PIRSF_domain:PIRSF000333,Superfamily_domains:SSF56512	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E145K|c.433G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTCGATAGC	byFrequency	5	BLCA
SLC13A2	0	.	GRCh37	17	26818745	26818745	+	Intron	SNP	C	C	T	rs782114102	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903-3C>T	.	.	ENST00000444914	.	39	29	10	59	59	0	SLC13A2,splice_region_variant,,ENST00000537681,;SLC13A2,splice_region_variant,,ENST00000545060,;SLC13A2,splice_region_variant,,ENST00000314669,;SLC13A2,splice_region_variant,,ENST00000444914,;SLC13A2,splice_region_variant,,ENST00000541739,;SLC13A2,splice_region_variant,,ENST00000577903,;SLC13A2,splice_region_variant,,ENST00000459818,;SLC13A2,splice_region_variant,,ENST00000579281,;RP11-192H23.4,intron_variant,,ENST00000481916,;	T	ENSG00000007216	ENST00000444914	Transcript	splice_region_variant	.	.	.	.	.	rs782114102	.	.	1	SLC13A2	HGNC	10917	protein_coding	YES	CCDS54098.1	ENSP00000392411	.	.	UPI0001986446	.	.	.	.	5/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCAGGCT	.	4	BLCA
ERAL1	0	.	GRCh37	17	27188549	27188549	+	3'Flank	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000254928	.	40	30	10	66	66	0	ERAL1,downstream_gene_variant,,ENST00000580917,;ERAL1,downstream_gene_variant,,ENST00000583487,;ERAL1,downstream_gene_variant,,ENST00000254928,;MIR451B,non_coding_transcript_exon_variant,,ENST00000582320,;MIR451B,upstream_gene_variant,,ENST00000385059,;MIR451B,downstream_gene_variant,,ENST00000581873,;MIR451B,downstream_gene_variant,,ENST00000384886,;ERAL1,downstream_gene_variant,,ENST00000578001,;ERAL1,downstream_gene_variant,,ENST00000471992,;ERAL1,downstream_gene_variant,,ENST00000412138,;ERAL1,downstream_gene_variant,,ENST00000461894,;ERAL1,downstream_gene_variant,,ENST00000577942,;	A	ENSG00000132591	ENST00000254928	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	464	1	ERAL1	HGNC	3424	protein_coding	YES	CCDS11244.1	ENSP00000254928	ERAL1_HUMAN	.	UPI000006DECC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAGCTGGGG	.	5	BLCA
TAOK1	0	.	GRCh37	17	27809258	27809258	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>C	p.Asp203His	p.D203H	ENST00000261716	8/20	92	80	12	145	145	0	TAOK1,missense_variant,p.Asp203His,ENST00000261716,;TAOK1,missense_variant,p.Asp203His,ENST00000536202,;TAOK1,non_coding_transcript_exon_variant,,ENST00000577583,;	C	ENSG00000160551	ENST00000261716	Transcript	missense_variant	1126	607	203	D/H	Gat/Cat	.	.	.	1	TAOK1	HGNC	29259	protein_coding	YES	CCDS32601.1	ENSP00000261716	TAOK1_HUMAN	J3QS76_HUMAN	UPI000004A033	.	deleterious(0)	probably_damaging(0.993)	8/20	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF189,hmmpanther:PTHR24361,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATGATGGC	.	5	BLCA
CORO6	0	.	GRCh37	17	27946728	27946728	+	Missense_Mutation	SNP	C	C	G	rs768393522	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262G>C	p.Asp88His	p.D88H	ENST00000345068	3/11	89	63	26	148	148	0	CORO6,missense_variant,p.Asp88His,ENST00000584969,;CORO6,missense_variant,p.Asp88His,ENST00000345068,;CORO6,missense_variant,p.Asp88His,ENST00000388767,;CORO6,missense_variant,p.Asp88His,ENST00000445145,;CORO6,missense_variant,p.Asp88His,ENST00000492276,;CORO6,missense_variant,p.Asp88His,ENST00000580212,;CORO6,5_prime_UTR_variant,,ENST00000584602,;CORO6,upstream_gene_variant,,ENST00000456796,;ANKRD13B,downstream_gene_variant,,ENST00000394859,;RP11-68I3.2,intron_variant,,ENST00000581474,;RP11-68I3.10,downstream_gene_variant,,ENST00000582367,;CORO6,intron_variant,,ENST00000577909,;CORO6,non_coding_transcript_exon_variant,,ENST00000459686,;CORO6,intron_variant,,ENST00000467534,;CORO6,upstream_gene_variant,,ENST00000480954,;ANKRD13B,downstream_gene_variant,,ENST00000493506,;CORO6,upstream_gene_variant,,ENST00000469090,;ANKRD13B,downstream_gene_variant,,ENST00000487527,;ANKRD13B,downstream_gene_variant,,ENST00000488766,;CORO6,upstream_gene_variant,,ENST00000579388,;	G	ENSG00000167549	ENST00000345068	Transcript	missense_variant	476	262	88	D/H	Gac/Cac	rs768393522	.	.	-1	CORO6	HGNC	21356	protein_coding	YES	CCDS11252.2	ENSP00000344562	CORO6_HUMAN	K7ERF4_HUMAN,J3QRV4_HUMAN	UPI0000DA4C55	.	deleterious(0.04)	probably_damaging(0.94)	3/11	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,Pfam_domain:PF00400,hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF4,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTCAATAT	.	5	BLCA
NF1	0	.	GRCh37	17	29663696	29663696	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6191C>G	p.Ser2064Cys	p.S2064C	ENST00000358273	42/58	27	23	4	44	44	0	NF1,missense_variant,p.Ser2064Cys,ENST00000358273,;NF1,missense_variant,p.Ser1709Cys,ENST00000456735,;NF1,missense_variant,p.Ser2043Cys,ENST00000356175,;NF1,upstream_gene_variant,,ENST00000417592,;NF1,upstream_gene_variant,,ENST00000444181,;NF1,downstream_gene_variant,,ENST00000581113,;NF1,3_prime_UTR_variant,,ENST00000479536,;NF1,3_prime_UTR_variant,,ENST00000579081,;NF1,upstream_gene_variant,,ENST00000584328,;NF1,upstream_gene_variant,,ENST00000581790,;NF1,upstream_gene_variant,,ENST00000582892,;NF1,upstream_gene_variant,,ENST00000471572,;NF1,downstream_gene_variant,,ENST00000493220,;	G	ENSG00000196712	ENST00000358273	Transcript	missense_variant	6574	6191	2064	S/C	tCt/tGt	.	.	.	1	NF1	HGNC	7765	protein_coding	YES	CCDS42292.1	ENSP00000351015	NF1_HUMAN	Q9UMU3_HUMAN,Q4W6X4_HUMAN,K7EP94_HUMAN	UPI000012FFAE	.	deleterious(0)	probably_damaging(0.987)	42/58	.	hmmpanther:PTHR10194:SF60,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTATCTCCAA	.	2	BLCA
TMEM132E	0	.	GRCh37	17	32956194	32956194	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039G>A	p.Asp347Asn	p.D347N	ENST00000321639	5/10	21	16	5	46	46	0	TMEM132E,missense_variant,p.Asp347Asn,ENST00000321639,;	A	ENSG00000181291	ENST00000321639	Transcript	missense_variant	1367	1039	347	D/N	Gat/Aat	.	.	.	1	TMEM132E	HGNC	26991	protein_coding	YES	CCDS11283.1	ENSP00000316532	T132E_HUMAN	.	UPI000035960F	.	deleterious(0)	probably_damaging(0.989)	5/10	.	hmmpanther:PTHR13388:SF7,hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCGGGATGTG	.	2	BLCA
UNC45B	0	.	GRCh37	17	33486491	33486491	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906G>A	p.%3D	p.L302L	ENST00000268876	8/20	104	91	13	136	135	1	UNC45B,synonymous_variant,p.%3D,ENST00000378449,;UNC45B,synonymous_variant,p.%3D,ENST00000433649,;UNC45B,synonymous_variant,p.%3D,ENST00000268876,;UNC45B,synonymous_variant,p.%3D,ENST00000591048,;UNC45B,synonymous_variant,p.%3D,ENST00000394570,;RP11-799D4.3,downstream_gene_variant,,ENST00000585646,;	A	ENSG00000141161	ENST00000268876	Transcript	synonymous_variant	1003	906	302	L	ctG/ctA	.	.	.	1	UNC45B	HGNC	14304	protein_coding	YES	CCDS11292.1	ENSP00000268876	UN45B_HUMAN	.	UPI0000074455	.	.	.	8/20	.	hmmpanther:PTHR22904:SF299,hmmpanther:PTHR22904,Pfam_domain:PF11701,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTGCTCAA	.	4	BLCA
PIGW	0	.	GRCh37	17	34893290	34893290	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>T	p.Glu114Ter	p.E114*	ENST00000592983	2/2	111	83	28	170	170	0	PIGW,stop_gained,p.Glu114Ter,ENST00000328396,;PIGW,stop_gained,p.Glu114Ter,ENST00000592983,;PIGW,stop_gained,p.Glu114Ter,ENST00000429467,;MYO19,upstream_gene_variant,,ENST00000585818,;MYO19,upstream_gene_variant,,ENST00000544606,;MYO19,upstream_gene_variant,,ENST00000268852,;MYO19,upstream_gene_variant,,ENST00000431794,;MYO19,upstream_gene_variant,,ENST00000586007,;MYO19,upstream_gene_variant,,ENST00000585719,;MYO19,upstream_gene_variant,,ENST00000589404,;MYO19,upstream_gene_variant,,ENST00000586886,;MYO19,intron_variant,,ENST00000586879,;MYO19,intron_variant,,ENST00000590081,;MYO19,upstream_gene_variant,,ENST00000592380,;MYO19,upstream_gene_variant,,ENST00000588664,;MYO19,upstream_gene_variant,,ENST00000591794,;MYO19,upstream_gene_variant,,ENST00000586908,;	T	ENSG00000184886	ENST00000592983	Transcript	stop_gained	920	340	114	E/*	Gaa/Taa	.	.	.	1	PIGW	HGNC	23213	protein_coding	YES	CCDS11313.1	ENSP00000468778	PIGW_HUMAN	C9JLC8_HUMAN	UPI00001984EA	.	.	.	2/2	.	hmmpanther:PTHR20661,PIRSF_domain:PIRSF017321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTGAAAAA	.	5	BLCA
PIGW	0	.	GRCh37	17	34893414	34893414	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.464G>A	p.Arg155Lys	p.R155K	ENST00000592983	2/2	144	111	32	161	161	0	PIGW,missense_variant,p.Arg155Lys,ENST00000328396,;PIGW,missense_variant,p.Arg155Lys,ENST00000592983,;PIGW,missense_variant,p.Arg155Lys,ENST00000429467,;MYO19,upstream_gene_variant,,ENST00000585818,;MYO19,upstream_gene_variant,,ENST00000544606,;MYO19,upstream_gene_variant,,ENST00000268852,;MYO19,upstream_gene_variant,,ENST00000431794,;MYO19,upstream_gene_variant,,ENST00000586007,;MYO19,upstream_gene_variant,,ENST00000585719,;MYO19,upstream_gene_variant,,ENST00000589404,;MYO19,upstream_gene_variant,,ENST00000586886,;MYO19,intron_variant,,ENST00000586879,;MYO19,intron_variant,,ENST00000590081,;MYO19,upstream_gene_variant,,ENST00000592380,;MYO19,upstream_gene_variant,,ENST00000588664,;MYO19,upstream_gene_variant,,ENST00000591794,;MYO19,upstream_gene_variant,,ENST00000586908,;	A	ENSG00000184886	ENST00000592983	Transcript	missense_variant	1044	464	155	R/K	aGa/aAa	.	.	.	1	PIGW	HGNC	23213	protein_coding	YES	CCDS11313.1	ENSP00000468778	PIGW_HUMAN	C9JLC8_HUMAN	UPI00001984EA	.	deleterious(0)	possibly_damaging(0.677)	2/2	.	hmmpanther:PTHR20661,PIRSF_domain:PIRSF017321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAAGATTTG	.	5	BLCA
PIGW	0	.	GRCh37	17	34893934	34893934	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984G>C	p.Lys328Asn	p.K328N	ENST00000592983	2/2	73	61	11	114	114	0	PIGW,missense_variant,p.Lys328Asn,ENST00000328396,;PIGW,missense_variant,p.Lys328Asn,ENST00000592983,;MYO19,upstream_gene_variant,,ENST00000585818,;MYO19,upstream_gene_variant,,ENST00000544606,;MYO19,upstream_gene_variant,,ENST00000268852,;PIGW,downstream_gene_variant,,ENST00000429467,;MYO19,upstream_gene_variant,,ENST00000431794,;MYO19,upstream_gene_variant,,ENST00000586007,;MYO19,upstream_gene_variant,,ENST00000585719,;MYO19,upstream_gene_variant,,ENST00000589404,;MYO19,upstream_gene_variant,,ENST00000586886,;MYO19,intron_variant,,ENST00000586879,;MYO19,intron_variant,,ENST00000590081,;MYO19,upstream_gene_variant,,ENST00000592380,;MYO19,upstream_gene_variant,,ENST00000588664,;MYO19,upstream_gene_variant,,ENST00000591794,;MYO19,upstream_gene_variant,,ENST00000586908,;	C	ENSG00000184886	ENST00000592983	Transcript	missense_variant	1564	984	328	K/N	aaG/aaC	.	.	.	1	PIGW	HGNC	23213	protein_coding	YES	CCDS11313.1	ENSP00000468778	PIGW_HUMAN	C9JLC8_HUMAN	UPI00001984EA	.	deleterious(0.02)	possibly_damaging(0.673)	2/2	.	hmmpanther:PTHR20661,Pfam_domain:PF06423,PIRSF_domain:PIRSF017321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAAGAACCG	.	5	BLCA
DHRS11	0	.	GRCh37	17	34956605	34956605	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>C	p.Gln252His	p.Q252H	ENST00000251312	7/7	22	17	5	36	36	0	DHRS11,missense_variant,p.Gln173His,ENST00000590554,;DHRS11,missense_variant,p.Gln101His,ENST00000585376,;DHRS11,missense_variant,p.Gln252His,ENST00000251312,;DHRS11,downstream_gene_variant,,ENST00000491046,;MRM1,upstream_gene_variant,,ENST00000585770,;MRM1,upstream_gene_variant,,ENST00000250156,;DHRS11,downstream_gene_variant,,ENST00000394445,;DHRS11,non_coding_transcript_exon_variant,,ENST00000593204,;DHRS11,non_coding_transcript_exon_variant,,ENST00000586848,;DHRS11,downstream_gene_variant,,ENST00000590527,;	C	ENSG00000108272	ENST00000251312	Transcript	missense_variant	968	756	252	Q/H	caG/caC	.	.	.	1	DHRS11	HGNC	28639	protein_coding	YES	CCDS11315.2	ENSP00000251312	DHR11_HUMAN	K7EK68_HUMAN	UPI0000038A01	.	tolerated(0.54)	benign(0.002)	7/7	.	hmmpanther:PTHR24322,hmmpanther:PTHR24322:SF310	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCAGATGAG	.	5	BLCA
GPR179	0	.	GRCh37	17	36485023	36485023	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4429G>C	p.Glu1477Gln	p.E1477Q	ENST00000342292	11/11	95	69	26	129	129	0	GPR179,missense_variant,p.Glu1477Gln,ENST00000342292,;GPR179,upstream_gene_variant,,ENST00000584976,;	G	ENSG00000188888	ENST00000342292	Transcript	missense_variant	4450	4429	1477	E/Q	Gag/Cag	.	.	.	-1	GPR179	HGNC	31371	protein_coding	YES	CCDS42308.1	ENSP00000345060	GP179_HUMAN	.	UPI000041A9C2	.	deleterious(0.03)	possibly_damaging(0.859)	11/11	.	hmmpanther:PTHR32546:SF7,hmmpanther:PTHR32546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCTGCTT	.	5	BLCA
GPR179	0	.	GRCh37	17	36486351	36486351	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3101C>G	p.Ser1034Cys	p.S1034C	ENST00000342292	11/11	49	37	12	68	68	0	GPR179,missense_variant,p.Ser1034Cys,ENST00000342292,;GPR179,upstream_gene_variant,,ENST00000584976,;	C	ENSG00000188888	ENST00000342292	Transcript	missense_variant	3122	3101	1034	S/C	tCt/tGt	.	.	.	-1	GPR179	HGNC	31371	protein_coding	YES	CCDS42308.1	ENSP00000345060	GP179_HUMAN	.	UPI000041A9C2	.	deleterious(0)	probably_damaging(0.999)	11/11	.	hmmpanther:PTHR32546:SF7,hmmpanther:PTHR32546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACAGAGAGG	.	5	BLCA
ERBB2	0	.	GRCh37	17	37884151	37884151	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3622C>T	p.His1208Tyr	p.H1208Y	ENST00000269571	27/27	42	36	6	65	65	0	ERBB2,missense_variant,p.His1193Tyr,ENST00000541774,;ERBB2,missense_variant,p.His932Tyr,ENST00000445658,;ERBB2,missense_variant,p.His1208Tyr,ENST00000269571,;ERBB2,missense_variant,p.His1178Tyr,ENST00000406381,;ERBB2,missense_variant,p.His1178Tyr,ENST00000540147,;ERBB2,missense_variant,p.His1178Tyr,ENST00000584601,;ERBB2,3_prime_UTR_variant,,ENST00000584450,;ERBB2,downstream_gene_variant,,ENST00000580074,;MIEN1,downstream_gene_variant,,ENST00000577810,;ERBB2,downstream_gene_variant,,ENST00000582818,;MIEN1,downstream_gene_variant,,ENST00000394231,;MIR4728,downstream_gene_variant,,ENST00000580969,;ERBB2,upstream_gene_variant,,ENST00000584888,;MIEN1,downstream_gene_variant,,ENST00000474210,;ERBB2,3_prime_UTR_variant,,ENST00000578373,;MIEN1,downstream_gene_variant,,ENST00000582963,;ERBB2,downstream_gene_variant,,ENST00000583038,;ERBB2,downstream_gene_variant,,ENST00000578630,;MIEN1,downstream_gene_variant,,ENST00000469568,;MIEN1,downstream_gene_variant,,ENST00000498164,;	T	ENSG00000141736	ENST00000269571	Transcript	missense_variant	3781	3622	1208	H/Y	Cac/Tac	.	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	tolerated(0.25)	benign(0.125)	27/27	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF000619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCCCACCCT	.	4	BLCA
MED24	0	.	GRCh37	17	38185150	38185150	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1338G>C	p.Lys446Asn	p.K446N	ENST00000394128	14/26	56	40	15	86	86	0	MED24,missense_variant,p.Lys465Asn,ENST00000501516,;MED24,missense_variant,p.Lys396Asn,ENST00000535071,;MED24,missense_variant,p.Lys433Asn,ENST00000356271,;MED24,missense_variant,p.Lys446Asn,ENST00000394128,;MED24,missense_variant,p.Lys471Asn,ENST00000394126,;MED24,missense_variant,p.Lys387Asn,ENST00000580885,;MED24,missense_variant,p.Lys433Asn,ENST00000394127,;MED24,downstream_gene_variant,,ENST00000428757,;SNORD124,upstream_gene_variant,,ENST00000459577,;MED24,downstream_gene_variant,,ENST00000479829,;MED24,3_prime_UTR_variant,,ENST00000578901,;MED24,3_prime_UTR_variant,,ENST00000535508,;MED24,downstream_gene_variant,,ENST00000584077,;MED24,upstream_gene_variant,,ENST00000580921,;MED24,upstream_gene_variant,,ENST00000580720,;MED24,upstream_gene_variant,,ENST00000584782,;MED24,downstream_gene_variant,,ENST00000585249,;MED24,downstream_gene_variant,,ENST00000580008,;MED24,upstream_gene_variant,,ENST00000581058,;MED24,upstream_gene_variant,,ENST00000495586,;MED24,downstream_gene_variant,,ENST00000577488,;	G	ENSG00000008838	ENST00000394128	Transcript	missense_variant	1420	1338	446	K/N	aaG/aaC	.	.	.	-1	MED24	HGNC	22963	protein_coding	YES	CCDS11359.1	ENSP00000377686	MED24_HUMAN	J3QRH9_HUMAN,J3KSU0_HUMAN,F5H5K2_HUMAN	UPI000013677A	.	tolerated(0.2)	possibly_damaging(0.877)	14/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12898,hmmpanther:PTHR12898:SF1,Pfam_domain:PF11277	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTCTTCCC	.	5	BLCA
KRT23	0	.	GRCh37	17	39092489	39092489	+	Nonsense_Mutation	SNP	C	C	A	rs777177378	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>T	p.Glu123Ter	p.E123*	ENST00000209718	2/9	60	48	12	74	74	0	KRT23,stop_gained,p.Glu123Ter,ENST00000209718,;KRT23,stop_gained,p.Glu52Ter,ENST00000584517,;KRT23,intron_variant,,ENST00000436344,;KRT23,downstream_gene_variant,,ENST00000485751,;AC004231.2,intron_variant,,ENST00000418393,;KRT23,downstream_gene_variant,,ENST00000582283,;KRT23,downstream_gene_variant,,ENST00000585006,;KRT23,non_coding_transcript_exon_variant,,ENST00000582754,;KRT23,intron_variant,,ENST00000494691,;KRT23,intron_variant,,ENST00000462312,;	A	ENSG00000108244	ENST00000209718	Transcript	stop_gained	792	367	123	E/*	Gag/Tag	rs777177378	.	.	-1	KRT23	HGNC	6438	protein_coding	YES	CCDS11380.1	ENSP00000209718	K1C23_HUMAN	K7EPI0_HUMAN,I3L3Q6_HUMAN	UPI000013C66F	.	.	.	2/9	.	Pfam_domain:PF00038,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF163	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCATACT	.	5	BLCA
KRT33B	0	.	GRCh37	17	39525837	39525837	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>A	p.Glu56Lys	p.E56K	ENST00000251646	1/7	88	66	21	112	112	0	KRT33B,missense_variant,p.Glu56Lys,ENST00000251646,;	T	ENSG00000131738	ENST00000251646	Transcript	missense_variant	216	166	56	E/K	Gag/Aag	.	.	.	-1	KRT33B	HGNC	6451	protein_coding	YES	CCDS11389.1	ENSP00000251646	KT33B_HUMAN	.	UPI000012DAFE	.	deleterious(0)	probably_damaging(0.954)	1/7	.	Superfamily_domains:SSF64593,Pfam_domain:PF00038,hmmpanther:PTHR23239:SF99,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCGCTGC	.	5	BLCA
KRT34	0	.	GRCh37	17	39535670	39535670	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.937G>A	p.Glu313Lys	p.E313K	ENST00000394001	5/7	55	50	5	73	73	0	KRT34,missense_variant,p.Glu313Lys,ENST00000394001,;	T	ENSG00000131737	ENST00000394001	Transcript	missense_variant	968	937	313	E/K	Gag/Aag	.	.	.	-1	KRT34	HGNC	6452	protein_coding	YES	CCDS11390.1	ENSP00000377570	KRT34_HUMAN	.	UPI000013CD0C	.	deleterious(0.02)	possibly_damaging(0.654)	5/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF165,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GATCTCCGCCT	.	3	BLCA
KRT13	0	.	GRCh37	17	39659541	39659541	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733G>C	p.Glu245Gln	p.E245Q	ENST00000246635	3/8	102	85	16	141	141	0	KRT13,missense_variant,p.Glu245Gln,ENST00000246635,;KRT13,missense_variant,p.Glu138Gln,ENST00000590425,;KRT13,missense_variant,p.Glu152Gln,ENST00000587435,;KRT13,missense_variant,p.Glu245Gln,ENST00000587544,;KRT13,missense_variant,p.Glu245Gln,ENST00000336861,;AC019349.5,downstream_gene_variant,,ENST00000411759,;KRT13,downstream_gene_variant,,ENST00000587118,;KRT13,upstream_gene_variant,,ENST00000475217,;KRT13,splice_region_variant,,ENST00000468313,;KRT13,splice_region_variant,,ENST00000464634,;	G	ENSG00000171401	ENST00000246635	Transcript	missense_variant	780	733	245	E/Q	Gag/Cag	COSM3932594	.	.	-1	KRT13	HGNC	6415	protein_coding	YES	CCDS11396.1	ENSP00000246635	K1C13_HUMAN	K7ERE3_HUMAN,K7EMD9_HUMAN	UPI000013CBF6	.	deleterious(0)	probably_damaging(0.99)	3/8	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF121,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCTTCAT	.	5	BLCA
EIF1	0	.	GRCh37	17	39847095	39847095	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*17G>A	.	.	ENST00000469257	4/4	70	62	7	73	73	0	EIF1,3_prime_UTR_variant,,ENST00000469257,;EIF1,intron_variant,,ENST00000591776,;JUP,intron_variant,,ENST00000540235,;EIF1,downstream_gene_variant,,ENST00000586699,;EIF1,non_coding_transcript_exon_variant,,ENST00000469308,;EIF1,non_coding_transcript_exon_variant,,ENST00000310837,;EIF1,non_coding_transcript_exon_variant,,ENST00000482111,;EIF1,non_coding_transcript_exon_variant,,ENST00000462917,;	A	ENSG00000173812	ENST00000469257	Transcript	3_prime_UTR_variant	505	.	.	.	.	.	.	.	1	EIF1	HGNC	3249	protein_coding	YES	CCDS11403.1	ENSP00000419449	EIF1_HUMAN	Q6IAV3_HUMAN	UPI000000DC99	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACTGAAGCT	.	4	BLCA
STAT5A	0	.	GRCh37	17	40456553	40456553	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1263G>A	p.%3D	p.L421L	ENST00000345506	12/20	34	29	5	30	30	0	STAT5A,synonymous_variant,p.%3D,ENST00000546010,;STAT5A,synonymous_variant,p.%3D,ENST00000590949,;STAT5A,synonymous_variant,p.%3D,ENST00000452307,;STAT5A,synonymous_variant,p.%3D,ENST00000345506,;STAT5A,synonymous_variant,p.%3D,ENST00000588868,;STAT5A,downstream_gene_variant,,ENST00000590726,;STAT5A,upstream_gene_variant,,ENST00000587646,;STAT5A,non_coding_transcript_exon_variant,,ENST00000479417,;STAT5A,upstream_gene_variant,,ENST00000468096,;STAT5A,upstream_gene_variant,,ENST00000591556,;	A	ENSG00000126561	ENST00000345506	Transcript	synonymous_variant	1905	1263	421	L	ctG/ctA	.	.	.	1	STAT5A	HGNC	11366	protein_coding	YES	CCDS11424.1	ENSP00000341208	STA5A_HUMAN	K7EIF9_HUMAN,C9JVV6_HUMAN	UPI0000136075	.	.	.	12/20	.	hmmpanther:PTHR11801:SF42,hmmpanther:PTHR11801,Gene3D:2.60.40.630,Pfam_domain:PF02864,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACTGAAGAG	.	4	BLCA
TUBG1	0	.	GRCh37	17	40766868	40766868	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165G>A	p.Glu389Lys	p.E389K	ENST00000251413	11/11	94	74	19	131	131	0	TUBG1,missense_variant,p.Glu389Lys,ENST00000251413,;FAM134C,upstream_gene_variant,,ENST00000585894,;FAM134C,upstream_gene_variant,,ENST00000591547,;FAM134C,upstream_gene_variant,,ENST00000588423,;TUBG1,downstream_gene_variant,,ENST00000591509,;TUBG1,3_prime_UTR_variant,,ENST00000589688,;TUBG1,downstream_gene_variant,,ENST00000589613,;TUBG1,downstream_gene_variant,,ENST00000588056,;	A	ENSG00000131462	ENST00000251413	Transcript	missense_variant	1227	1165	389	E/K	Gag/Aag	.	.	.	1	TUBG1	HGNC	12417	protein_coding	YES	CCDS11433.1	ENSP00000251413	TBG1_HUMAN	.	UPI0000136A56	.	tolerated(0.98)	benign(0.007)	11/11	.	Prints_domain:PR01161,Superfamily_domains:SSF55307,SMART_domains:SM00865,Gene3D:1.10.287.600,Pfam_domain:PF03953,hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF62	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTCGAGAGA	.	5	BLCA
TUBG2	0	.	GRCh37	17	40818404	40818404	+	Missense_Mutation	SNP	G	G	A	rs574597874	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1060G>A	p.Ala354Thr	p.A354T	ENST00000251412	10/11	40	37	3	76	76	0	TUBG2,missense_variant,p.Ala354Thr,ENST00000251412,;PLEKHH3,downstream_gene_variant,,ENST00000412503,;PLEKHH3,downstream_gene_variant,,ENST00000591022,;PLEKHH3,downstream_gene_variant,,ENST00000293349,;PLEKHH3,downstream_gene_variant,,ENST00000456950,;TUBG2,non_coding_transcript_exon_variant,,ENST00000588870,;PLEKHH3,downstream_gene_variant,,ENST00000591476,;PLEKHH3,downstream_gene_variant,,ENST00000591196,;TUBG2,downstream_gene_variant,,ENST00000590396,;PLEKHH3,downstream_gene_variant,,ENST00000591490,;	A	ENSG00000037042	ENST00000251412	Transcript	missense_variant	1259	1060	354	A/T	Gcc/Acc	rs574597874,COSM187113	.	.	1	TUBG2	HGNC	12419	protein_coding	YES	CCDS32658.1	ENSP00000251412	TBG2_HUMAN	.	UPI0000136A5C	.	tolerated(0.11)	benign(0.084)	10/11	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF79,Pfam_domain:PF03953,Gene3D:3.30.1330.20,SMART_domains:SM00865,Superfamily_domains:SSF55307,Prints_domain:PR01164	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCGCCAGC	by1000G	2	BLCA
COA3	0	.	GRCh37	17	40950643	40950643	+	Silent	SNP	G	G	A	rs760925996	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57C>T	p.%3D	p.F19F	ENST00000328434	1/2	40	34	6	50	50	0	COA3,synonymous_variant,p.%3D,ENST00000328434,;WNK4,downstream_gene_variant,,ENST00000587745,;CNTD1,upstream_gene_variant,,ENST00000585355,;CNTD1,upstream_gene_variant,,ENST00000588527,;CNTD1,upstream_gene_variant,,ENST00000588408,;WNK4,downstream_gene_variant,,ENST00000246914,;CNTD1,upstream_gene_variant,,ENST00000591559,;COA3,synonymous_variant,p.%3D,ENST00000586680,;CNTD1,upstream_gene_variant,,ENST00000592166,;WNK4,downstream_gene_variant,,ENST00000592072,;WNK4,downstream_gene_variant,,ENST00000591448,;	A	ENSG00000183978	ENST00000328434	Transcript	synonymous_variant	80	57	19	F	ttC/ttT	rs760925996	.	.	-1	COA3	HGNC	24990	protein_coding	YES	CCDS32660.1	ENSP00000354762	COA3_HUMAN	K7EPV0_HUMAN	UPI000006DCB8	.	.	.	1/2	.	Pfam_domain:PF09813,hmmpanther:PTHR15642:SF2,hmmpanther:PTHR15642	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAGCGAACGG	.	4	BLCA
C17orf104	0	.	GRCh37	17	42744754	42744754	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1475G>A	p.Arg492Gln	p.R492Q	ENST00000409122	5/8	39	31	8	63	63	0	C17orf104,missense_variant,p.Arg326Gln,ENST00000409464,;C17orf104,missense_variant,p.Arg492Gln,ENST00000409122,;C17orf104,missense_variant,p.Arg492Gln,ENST00000359945,;C17orf104,downstream_gene_variant,,ENST00000425535,;C17orf104,downstream_gene_variant,,ENST00000432494,;C17orf104,downstream_gene_variant,,ENST00000456912,;C17orf104,upstream_gene_variant,,ENST00000472403,;	A	ENSG00000180336	ENST00000409122	Transcript	missense_variant	1617	1475	492	R/Q	cGa/cAa	COSM236367	.	.	1	C17orf104	HGNC	26670	protein_coding	YES	CCDS45703.2	ENSP00000386452	CQ104_HUMAN	C9JYK8_HUMAN,C9J4A2_HUMAN	UPI0001881A86	.	tolerated(0.95)	benign(0.016)	5/8	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATCGAAATC	.	5	BLCA
C1QL1	0	.	GRCh37	17	43045431	43045431	+	5'UTR	SNP	C	C	T	rs758757149	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-15G>A	.	.	ENST00000253407	1/2	22	19	3	22	22	0	C1QL1,5_prime_UTR_variant,,ENST00000253407,;	T	ENSG00000131094	ENST00000253407	Transcript	5_prime_UTR_variant	9	.	.	.	.	rs758757149	.	.	-1	C1QL1	HGNC	24182	protein_coding	YES	CCDS11492.1	ENSP00000253407	C1QRF_HUMAN	.	UPI0000126BF5	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCGGCGGCCG	byFrequency	2	BLCA
KAT7	0	.	GRCh37	17	47874175	47874175	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227G>C	p.Arg76Thr	p.R76T	ENST00000259021	3/15	111	86	24	122	122	0	KAT7,missense_variant,p.Arg76Thr,ENST00000259021,;KAT7,missense_variant,p.Arg76Thr,ENST00000509773,;KAT7,missense_variant,p.Arg76Thr,ENST00000424009,;KAT7,5_prime_UTR_variant,,ENST00000506533,;KAT7,5_prime_UTR_variant,,ENST00000435742,;KAT7,5_prime_UTR_variant,,ENST00000503935,;KAT7,intron_variant,,ENST00000510819,;KAT7,intron_variant,,ENST00000454930,;KAT7,non_coding_transcript_exon_variant,,ENST00000509124,;RP11-613C6.4,downstream_gene_variant,,ENST00000513669,;	C	ENSG00000136504	ENST00000259021	Transcript	missense_variant	507	227	76	R/T	aGa/aCa	.	.	.	1	KAT7	HGNC	17016	protein_coding	YES	CCDS11554.1	ENSP00000259021	KAT7_HUMAN	G3V125_HUMAN,B4DJ40_HUMAN,B4DGH8_HUMAN	UPI000006D3D5	.	deleterious_low_confidence(0.01)	benign(0.204)	3/15	.	hmmpanther:PTHR10615	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGAAGAGTGA	.	5	BLCA
CACNA1G	0	.	GRCh37	17	48704141	48704141	+	3'UTR	SNP	C	C	T	rs201658482	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29C>T	.	.	ENST00000359106	38/38	76	56	19	130	130	0	CACNA1G,3_prime_UTR_variant,,ENST00000358244,;CACNA1G,3_prime_UTR_variant,,ENST00000360761,;CACNA1G,3_prime_UTR_variant,,ENST00000354983,;CACNA1G,3_prime_UTR_variant,,ENST00000442258,;CACNA1G,3_prime_UTR_variant,,ENST00000359106,;CACNA1G,3_prime_UTR_variant,,ENST00000352832,;CACNA1G,3_prime_UTR_variant,,ENST00000429973,;CACNA1G,downstream_gene_variant,,ENST00000515165,;CACNA1G,downstream_gene_variant,,ENST00000513689,;CACNA1G,downstream_gene_variant,,ENST00000507510,;CACNA1G,downstream_gene_variant,,ENST00000514717,;CACNA1G,downstream_gene_variant,,ENST00000513964,;CACNA1G,downstream_gene_variant,,ENST00000515765,;CACNA1G,downstream_gene_variant,,ENST00000502264,;CACNA1G,downstream_gene_variant,,ENST00000514181,;CACNA1G,downstream_gene_variant,,ENST00000507336,;CACNA1G,downstream_gene_variant,,ENST00000510366,;CACNA1G,downstream_gene_variant,,ENST00000505165,;CACNA1G,downstream_gene_variant,,ENST00000510115,;CACNA1G,downstream_gene_variant,,ENST00000512389,;CACNA1G,downstream_gene_variant,,ENST00000514079,;CACNA1G,downstream_gene_variant,,ENST00000507896,;CACNA1G,downstream_gene_variant,,ENST00000515411,;CACNA1G,downstream_gene_variant,,ENST00000507609,;CACNA1G,downstream_gene_variant,,ENST00000503485,;CTB-22K21.2,downstream_gene_variant,,ENST00000502435,;CACNA1G,downstream_gene_variant,,ENST00000504076,;CACNA1G,downstream_gene_variant,,ENST00000511765,;CACNA1G,downstream_gene_variant,,ENST00000511768,;CACNA1G,downstream_gene_variant,,ENST00000503436,;CACNA1G,downstream_gene_variant,,ENST00000503607,;CACNA1G,downstream_gene_variant,,ENST00000506406,;	T	ENSG00000006283	ENST00000359106	Transcript	3_prime_UTR_variant	7163	.	.	.	.	rs201658482	.	.	1	CACNA1G	HGNC	1394	protein_coding	YES	CCDS45730.1	ENSP00000352011	CAC1G_HUMAN	.	UPI000012727A	.	.	.	38/38	.	.	.	.	.	.	.	.	.	T:0.0003	T:0.0004	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTCTCCAC	byCluster	5	BLCA
CA10	0	.	GRCh37	17	49825136	49825136	+	Missense_Mutation	SNP	G	G	A	rs772993232	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322C>T	p.Arg108Cys	p.R108C	ENST00000451037	4/9	83	67	16	95	95	0	CA10,missense_variant,p.Arg5Cys,ENST00000575097,;CA10,missense_variant,p.Arg108Cys,ENST00000285273,;CA10,missense_variant,p.Arg33Cys,ENST00000570565,;CA10,missense_variant,p.Arg114Cys,ENST00000340813,;CA10,missense_variant,p.Arg108Cys,ENST00000575181,;CA10,missense_variant,p.Arg108Cys,ENST00000451037,;CA10,missense_variant,p.Arg108Cys,ENST00000442502,;CA10,non_coding_transcript_exon_variant,,ENST00000571918,;CA10,3_prime_UTR_variant,,ENST00000571371,;	A	ENSG00000154975	ENST00000451037	Transcript	missense_variant	1263	322	108	R/C	Cgc/Tgc	rs772993232	.	.	-1	CA10	HGNC	1369	protein_coding	YES	CCDS32684.1	ENSP00000405388	CAH10_HUMAN	I3L375_HUMAN,B4DGL6_HUMAN	UPI000000167C	.	deleterious(0.01)	probably_damaging(0.999)	4/9	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952,hmmpanther:PTHR18952:SF91,Gene3D:3.10.200.10,Pfam_domain:PF00194,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGCGAAGGG	byFrequency	5	BLCA
ZNF232	0	.	GRCh37	17	5013128	5013128	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>T	p.Ser20Phe	p.S20F	ENST00000250076	3/5	46	38	7	76	76	0	ZNF232,missense_variant,p.Ser20Phe,ENST00000575898,;ZNF232,missense_variant,p.Ser20Phe,ENST00000250076,;ZNF232,5_prime_UTR_variant,,ENST00000416429,;AC012146.7,upstream_gene_variant,,ENST00000571138,;AC012146.7,upstream_gene_variant,,ENST00000570712,;AC012146.7,upstream_gene_variant,,ENST00000413077,;ZNF232,non_coding_transcript_exon_variant,,ENST00000575538,;ZNF232,3_prime_UTR_variant,,ENST00000570486,;ZNF232,3_prime_UTR_variant,,ENST00000573015,;ZNF232,intron_variant,,ENST00000571076,;ZNF232,intron_variant,,ENST00000574735,;ZNF232,upstream_gene_variant,,ENST00000572468,;	A	ENSG00000167840	ENST00000250076	Transcript	missense_variant	714	59	20	S/F	tCt/tTt	.	.	.	-1	ZNF232	HGNC	13026	protein_coding	YES	CCDS11068.1	ENSP00000250076	ZN232_HUMAN	.	UPI00001D69EB	.	tolerated_low_confidence(0.23)	possibly_damaging(0.683)	3/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCAGAAGGC	.	5	BLCA
RABEP1	0	.	GRCh37	17	5264613	5264613	+	Silent	SNP	C	C	G	rs187351051	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1206C>G	p.%3D	p.L402L	ENST00000262477	9/19	46	37	9	64	64	0	RABEP1,synonymous_variant,p.%3D,ENST00000408982,;RABEP1,synonymous_variant,p.%3D,ENST00000262477,;RABEP1,synonymous_variant,p.%3D,ENST00000341923,;RABEP1,synonymous_variant,p.%3D,ENST00000537505,;RABEP1,synonymous_variant,p.%3D,ENST00000574568,;RABEP1,synonymous_variant,p.%3D,ENST00000546142,;RP11-420A6.2,downstream_gene_variant,,ENST00000572792,;NUP88,non_coding_transcript_exon_variant,,ENST00000573169,;RABEP1,non_coding_transcript_exon_variant,,ENST00000575475,;NUP88,downstream_gene_variant,,ENST00000576708,;	G	ENSG00000029725	ENST00000262477	Transcript	synonymous_variant	1430	1206	402	L	ctC/ctG	rs187351051	.	.	1	RABEP1	HGNC	17677	protein_coding	YES	CCDS45592.1	ENSP00000262477	RABE1_HUMAN	.	UPI00000745A5	.	.	.	9/19	.	hmmpanther:PTHR31179:SF5,hmmpanther:PTHR31179	T:0.0008	T:0	T:0.0043	.	T:0	T:0.001	T:0	T:0	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCAGGAG	byFrequency|byCluster|by1000G	4	BLCA
NLRP1	0	.	GRCh37	17	5462056	5462056	+	Missense_Mutation	SNP	C	C	T	rs748825605	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1960G>A	p.Glu654Lys	p.E654K	ENST00000572272	4/17	65	55	9	112	112	0	NLRP1,missense_variant,p.Glu654Lys,ENST00000572272,;NLRP1,missense_variant,p.Glu654Lys,ENST00000345221,;NLRP1,missense_variant,p.Glu654Lys,ENST00000269280,;NLRP1,missense_variant,p.Glu654Lys,ENST00000354411,;NLRP1,missense_variant,p.Glu654Lys,ENST00000577119,;NLRP1,missense_variant,p.Glu654Lys,ENST00000262467,;NLRP1,non_coding_transcript_exon_variant,,ENST00000571307,;NLRP1,missense_variant,p.Glu654Lys,ENST00000544378,;NLRP1,missense_variant,p.Glu654Lys,ENST00000571451,;	T	ENSG00000091592	ENST00000572272	Transcript	missense_variant	1960	1960	654	E/K	Gaa/Aaa	rs748825605	.	.	-1	NLRP1	HGNC	14374	protein_coding	YES	CCDS42246.1	ENSP00000460475	NALP1_HUMAN	I3L2G5_HUMAN,I3L0S2_HUMAN	UPI0000038309	.	tolerated(0.55)	benign(0.015)	4/17	.	hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCCAAAT	byFrequency	5	BLCA
PRR11	0	.	GRCh37	17	57272757	57272757	+	Silent	SNP	G	G	A	rs772261765	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.810G>A	p.%3D	p.L270L	ENST00000262293	7/10	75	63	12	92	92	0	PRR11,synonymous_variant,p.%3D,ENST00000262293,;PRR11,downstream_gene_variant,,ENST00000578777,;CTD-2510F5.6,upstream_gene_variant,,ENST00000577660,;PRR11,upstream_gene_variant,,ENST00000582004,;PRR11,synonymous_variant,p.%3D,ENST00000578542,;PRR11,synonymous_variant,p.%3D,ENST00000580177,;	A	ENSG00000068489	ENST00000262293	Transcript	synonymous_variant	1122	810	270	L	ctG/ctA	rs772261765	.	.	1	PRR11	HGNC	25619	protein_coding	YES	CCDS11614.1	ENSP00000262293	PRR11_HUMAN	J3QRV0_HUMAN,J3QR53_HUMAN,D2SNZ4_HUMAN	UPI000006FA82	.	.	.	7/10	.	hmmpanther:PTHR23330	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTGAAACC	byFrequency	5	BLCA
SMG8	0	.	GRCh37	17	57290755	57290755	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2571G>A	p.%3D	p.R857R	ENST00000543872	4/5	106	65	41	120	119	0	SMG8,synonymous_variant,p.%3D,ENST00000543872,;SMG8,synonymous_variant,p.%3D,ENST00000300917,;CTD-2510F5.6,intron_variant,,ENST00000577660,;SMG8,intron_variant,,ENST00000582469,;SMG8,downstream_gene_variant,,ENST00000578922,;SMG8,downstream_gene_variant,,ENST00000580498,;SMG8,downstream_gene_variant,,ENST00000580798,;	A	ENSG00000167447	ENST00000543872	Transcript	synonymous_variant	2835	2571	857	R	cgG/cgA	.	.	.	1	SMG8	HGNC	25551	protein_coding	YES	CCDS11615.1	ENSP00000438748	SMG8_HUMAN	.	UPI000006CCB5	.	.	.	4/5	.	hmmpanther:PTHR13091,hmmpanther:PTHR13091:SF0,Pfam_domain:PF10220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCGGAGATT	.	5	BLCA
SMG8	0	.	GRCh37	17	57292276	57292276	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2889G>C	p.Glu963Asp	p.E963D	ENST00000543872	5/5	77	61	15	96	96	0	SMG8,missense_variant,p.Glu963Asp,ENST00000543872,;CTD-2510F5.6,missense_variant,p.Glu82Asp,ENST00000577660,;SMG8,missense_variant,p.Glu963Asp,ENST00000300917,;SMG8,3_prime_UTR_variant,,ENST00000582469,;SMG8,downstream_gene_variant,,ENST00000578922,;SMG8,downstream_gene_variant,,ENST00000580498,;SMG8,downstream_gene_variant,,ENST00000580798,;	C	ENSG00000167447	ENST00000543872	Transcript	missense_variant	3153	2889	963	E/D	gaG/gaC	.	.	.	1	SMG8	HGNC	25551	protein_coding	YES	CCDS11615.1	ENSP00000438748	SMG8_HUMAN	.	UPI000006CCB5	.	tolerated(0.46)	benign(0.107)	5/5	.	hmmpanther:PTHR13091,hmmpanther:PTHR13091:SF0,Pfam_domain:PF10220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGAGAGAGG	.	5	BLCA
USP32	0	.	GRCh37	17	58289393	58289393	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2171G>A	p.Arg724Lys	p.R724K	ENST00000300896	19/34	50	43	7	58	58	0	USP32,missense_variant,p.Arg721Lys,ENST00000590133,;USP32,missense_variant,p.Arg394Lys,ENST00000592339,;USP32,missense_variant,p.Arg724Lys,ENST00000300896,;USP32,downstream_gene_variant,,ENST00000591768,;USP32,upstream_gene_variant,,ENST00000585720,;	T	ENSG00000170832	ENST00000300896	Transcript	missense_variant	2366	2171	724	R/K	aGa/aAa	.	.	.	-1	USP32	HGNC	19143	protein_coding	YES	CCDS32697.1	ENSP00000300896	UBP32_HUMAN	Q86WP5_HUMAN,Q6IRT0_HUMAN,Q4VC15_HUMAN,K7EQL6_HUMAN	UPI0000047AF8	.	tolerated(0.43)	possibly_damaging(0.867)	19/34	.	hmmpanther:PTHR24006:SF392,hmmpanther:PTHR24006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGTCTATCT	.	4	BLCA
USP32	0	.	GRCh37	17	58289433	58289433	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2131G>T	p.Glu711Ter	p.E711*	ENST00000300896	19/34	69	60	8	84	84	0	USP32,stop_gained,p.Glu708Ter,ENST00000590133,;USP32,stop_gained,p.Glu381Ter,ENST00000592339,;USP32,stop_gained,p.Glu711Ter,ENST00000300896,;USP32,downstream_gene_variant,,ENST00000591768,;USP32,upstream_gene_variant,,ENST00000585720,;	A	ENSG00000170832	ENST00000300896	Transcript	stop_gained	2326	2131	711	E/*	Gag/Tag	COSM3795888	.	.	-1	USP32	HGNC	19143	protein_coding	YES	CCDS32697.1	ENSP00000300896	UBP32_HUMAN	Q86WP5_HUMAN,Q6IRT0_HUMAN,Q4VC15_HUMAN,K7EQL6_HUMAN	UPI0000047AF8	.	.	.	19/34	.	hmmpanther:PTHR24006:SF392,hmmpanther:PTHR24006	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCAGGCC	.	4	BLCA
APPBP2	0	.	GRCh37	17	58524943	58524943	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1757G>A	p.%3D	p.%3D	ENST00000083182	13/13	79	66	13	97	97	0	APPBP2,stop_retained_variant,p.%3D,ENST00000083182,;APPBP2,downstream_gene_variant,,ENST00000589341,;	T	ENSG00000062725	ENST00000083182	Transcript	stop_retained_variant	2045	1757	586	*	tGa/tAa	COSM561481	.	.	-1	APPBP2	HGNC	622	protein_coding	YES	CCDS32699.1	ENSP00000083182	APBP2_HUMAN	K7EIZ9_HUMAN	UPI000006D959	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTCAGCAG	.	4	BLCA
TBX4	0	.	GRCh37	17	59557476	59557476	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.817A>T	p.Ser273Cys	p.S273C	ENST00000240335	7/8	65	48	17	74	74	0	TBX4,missense_variant,p.Ser273Cys,ENST00000240335,;TBX4,missense_variant,p.Ser273Cys,ENST00000393853,;TBX4,downstream_gene_variant,,ENST00000589003,;TBX4,non_coding_transcript_exon_variant,,ENST00000586874,;TBX4,non_coding_transcript_exon_variant,,ENST00000589449,;TBX4,downstream_gene_variant,,ENST00000593249,;TBX4,non_coding_transcript_exon_variant,,ENST00000590174,;	T	ENSG00000121075	ENST00000240335	Transcript	missense_variant	862	817	273	S/C	Agc/Tgc	.	.	.	1	TBX4	HGNC	11603	protein_coding	YES	CCDS11629.1	ENSP00000240335	TBX4_HUMAN	K7EPY2_HUMAN	UPI000013CAA9	.	deleterious(0.01)	probably_damaging(0.986)	7/8	.	hmmpanther:PTHR11267:SF29,hmmpanther:PTHR11267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAAAAGCATC	.	5	BLCA
HELZ	0	.	GRCh37	17	65147255	65147255	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2263C>G	p.Gln755Glu	p.Q755E	ENST00000358691	18/33	92	76	16	110	110	0	HELZ,missense_variant,p.Gln756Glu,ENST00000580168,;HELZ,missense_variant,p.Gln755Glu,ENST00000358691,;HELZ,missense_variant,p.Gln756Glu,ENST00000579953,;	C	ENSG00000198265	ENST00000358691	Transcript	missense_variant	2430	2263	755	Q/E	Cag/Gag	.	.	.	-1	HELZ	HGNC	16878	protein_coding	YES	CCDS42374.1	ENSP00000351524	HELZ_HUMAN	J3KT20_HUMAN,J3KS59_HUMAN	UPI000013D7F5	.	tolerated(0.08)	benign(0.407)	18/33	.	hmmpanther:PTHR10887:SF9,hmmpanther:PTHR10887,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTGAAAGG	.	5	BLCA
SLC16A6	0	.	GRCh37	17	66265272	66265272	+	Missense_Mutation	SNP	C	C	T	rs782767113	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1537G>A	p.Glu513Lys	p.E513K	ENST00000327268	7/7	123	108	15	157	157	0	SLC16A6,missense_variant,p.Glu513Lys,ENST00000580666,;SLC16A6,missense_variant,p.Glu513Lys,ENST00000327268,;ARSG,intron_variant,,ENST00000448504,;SLC16A6,downstream_gene_variant,,ENST00000582867,;SLC16A6,downstream_gene_variant,,ENST00000583477,;ARSG,intron_variant,,ENST00000578726,;	T	ENSG00000108932	ENST00000327268	Transcript	missense_variant	1702	1537	513	E/K	Gag/Aag	rs782767113	.	.	-1	SLC16A6	HGNC	10927	protein_coding	YES	CCDS11675.1	ENSP00000319991	MOT7_HUMAN	J3KS02_HUMAN,A1L174_HUMAN	UPI00001AA3B9	.	deleterious_low_confidence(0.02)	benign(0.242)	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GTGCTCATTTT	.	3	BLCA
ALOX12	0	.	GRCh37	17	6903688	6903688	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.841C>T	p.%3D	p.L281L	ENST00000251535	7/14	114	82	32	153	153	0	ALOX12,synonymous_variant,p.%3D,ENST00000251535,;ALOX12,synonymous_variant,p.%3D,ENST00000480801,;AC027763.2,intron_variant,,ENST00000399541,;AC027763.2,intron_variant,,ENST00000575889,;AC027763.2,intron_variant,,ENST00000574377,;AC027763.2,intron_variant,,ENST00000575727,;AC027763.2,downstream_gene_variant,,ENST00000399540,;AC027763.2,downstream_gene_variant,,ENST00000573939,;RP11-589P10.7,intron_variant,,ENST00000572547,;AC027763.2,intron_variant,,ENST00000572385,;AC027763.2,intron_variant,,ENST00000571010,;AC027763.2,intron_variant,,ENST00000570562,;	T	ENSG00000108839	ENST00000251535	Transcript	synonymous_variant	894	841	281	L	Ctg/Ttg	.	.	.	1	ALOX12	HGNC	429	protein_coding	YES	CCDS11084.1	ENSP00000251535	LOX12_HUMAN	.	UPI000013CD03	.	.	.	7/14	.	Superfamily_domains:SSF48484,Pfam_domain:PF00305,Gene3D:3.10.450.60,hmmpanther:PTHR11771,hmmpanther:PTHR11771:SF4,PROSITE_profiles:PS51393	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGGAT	.	5	BLCA
C17orf49	0	.	GRCh37	17	6920652	6920652	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12C>G	.	.	ENST00000546495	6/6	31	25	6	51	51	0	C17orf49,3_prime_UTR_variant,,ENST00000546760,;C17orf49,3_prime_UTR_variant,,ENST00000546495,;RNASEK-C17orf49,3_prime_UTR_variant,,ENST00000547302,;C17orf49,3_prime_UTR_variant,,ENST00000552402,;C17orf49,3_prime_UTR_variant,,ENST00000552775,;C17orf49,3_prime_UTR_variant,,ENST00000439424,;RNASEK,downstream_gene_variant,,ENST00000570898,;RNASEK,downstream_gene_variant,,ENST00000552842,;AC027763.2,upstream_gene_variant,,ENST00000573939,;AC040977.1,upstream_gene_variant,,ENST00000593646,;RNASEK,downstream_gene_variant,,ENST00000402093,;RNASEK,downstream_gene_variant,,ENST00000552321,;AC027763.2,upstream_gene_variant,,ENST00000399541,;RNASEK,downstream_gene_variant,,ENST00000548577,;AC027763.2,upstream_gene_variant,,ENST00000399540,;AC027763.2,upstream_gene_variant,,ENST00000575727,;MIR497HG,downstream_gene_variant,,ENST00000385194,;MIR497HG,downstream_gene_variant,,ENST00000385056,;MIR497HG,non_coding_transcript_exon_variant,,ENST00000572453,;MIR497HG,non_coding_transcript_exon_variant,,ENST00000443997,;RP11-589P10.7,non_coding_transcript_exon_variant,,ENST00000572547,;C17orf49,non_coding_transcript_exon_variant,,ENST00000547709,;C17orf49,downstream_gene_variant,,ENST00000550038,;C17orf49,3_prime_UTR_variant,,ENST00000547747,;RNASEK-C17orf49,non_coding_transcript_exon_variant,,ENST00000549775,;C17orf49,non_coding_transcript_exon_variant,,ENST00000549857,;RNASEK-C17orf49,non_coding_transcript_exon_variant,,ENST00000547863,;RNASEK,downstream_gene_variant,,ENST00000549393,;RNASEK,downstream_gene_variant,,ENST00000546395,;AC027763.2,upstream_gene_variant,,ENST00000571010,;RNASEK,downstream_gene_variant,,ENST00000552176,;RNASEK,downstream_gene_variant,,ENST00000552039,;RNASEK,downstream_gene_variant,,ENST00000575822,;AC027763.2,upstream_gene_variant,,ENST00000570562,;RNASEK-C17orf49,downstream_gene_variant,,ENST00000607564,;	G	ENSG00000258315	ENST00000546495	Transcript	3_prime_UTR_variant	954	.	.	.	.	.	.	.	1	C17orf49	HGNC	28737	protein_coding	YES	CCDS45595.1	ENSP00000448598	BAP18_HUMAN	F8W1H0_HUMAN	UPI0000494405	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTCTGACC	.	2	BLCA
DLG4	0	.	GRCh37	17	7096379	7096379	+	Missense_Mutation	SNP	G	G	A	rs200038855	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1880C>T	p.Ser627Leu	p.S627L	ENST00000399510	19/22	73	62	11	119	118	1	DLG4,missense_variant,p.Ser584Leu,ENST00000399506,;DLG4,missense_variant,p.Ser581Leu,ENST00000302955,;DLG4,missense_variant,p.Ser627Leu,ENST00000399510,;DLG4,missense_variant,p.Ser45Leu,ENST00000491753,;DLG4,upstream_gene_variant,,ENST00000489885,;	A	ENSG00000132535	ENST00000399510	Transcript	missense_variant	2733	1880	627	S/L	tCg/tTg	rs200038855	.	.	-1	DLG4	HGNC	2903	protein_coding	YES	CCDS45599.1	ENSP00000382428	DLG4_HUMAN	Q3ZCU5_HUMAN,K7EKU8_HUMAN,K7EKP9_HUMAN,B9EGL1_HUMAN,B7Z647_HUMAN	UPI0000048D63	.	tolerated(0.15)	possibly_damaging(0.629)	19/22	.	PROSITE_profiles:PS50052,hmmpanther:PTHR23119:SF4,hmmpanther:PTHR23119,Gene3D:3.30.63.10,Pfam_domain:PF00625,SMART_domains:SM00072,PIRSF_domain:PIRSF001741,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	A:0	A:0.0006	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGACGACACA	byCluster	5	BLCA
DVL2	0	.	GRCh37	17	7132529	7132529	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882C>G	p.Ile294Met	p.I294M	ENST00000005340	8/15	91	67	24	116	116	0	DVL2,missense_variant,p.Ile288Met,ENST00000575458,;DVL2,missense_variant,p.Ile290Met,ENST00000575756,;DVL2,missense_variant,p.Ile294Met,ENST00000005340,;DVL2,missense_variant,p.Ile228Met,ENST00000574143,;ACADVL,downstream_gene_variant,,ENST00000542255,;ACADVL,downstream_gene_variant,,ENST00000579546,;ACADVL,downstream_gene_variant,,ENST00000356839,;ACADVL,downstream_gene_variant,,ENST00000543245,;ACADVL,downstream_gene_variant,,ENST00000350303,;DVL2,upstream_gene_variant,,ENST00000575086,;DVL2,non_coding_transcript_exon_variant,,ENST00000574642,;ACADVL,downstream_gene_variant,,ENST00000583074,;DVL2,non_coding_transcript_exon_variant,,ENST00000573354,;DVL2,non_coding_transcript_exon_variant,,ENST00000577154,;DVL2,non_coding_transcript_exon_variant,,ENST00000574591,;ACADVL,downstream_gene_variant,,ENST00000583848,;ACADVL,downstream_gene_variant,,ENST00000322910,;ACADVL,downstream_gene_variant,,ENST00000579391,;DVL2,downstream_gene_variant,,ENST00000576949,;DVL2,upstream_gene_variant,,ENST00000576840,;ACADVL,downstream_gene_variant,,ENST00000578033,;ACADVL,downstream_gene_variant,,ENST00000585203,;ACADVL,downstream_gene_variant,,ENST00000578711,;DVL2,downstream_gene_variant,,ENST00000576439,;DVL2,upstream_gene_variant,,ENST00000571745,;ACADVL,downstream_gene_variant,,ENST00000578809,;ACADVL,downstream_gene_variant,,ENST00000578319,;ACADVL,downstream_gene_variant,,ENST00000582450,;DVL2,upstream_gene_variant,,ENST00000576285,;ACADVL,downstream_gene_variant,,ENST00000579425,;ACADVL,downstream_gene_variant,,ENST00000583858,;ACADVL,downstream_gene_variant,,ENST00000583850,;DVL2,downstream_gene_variant,,ENST00000572285,;ACADVL,downstream_gene_variant,,ENST00000579894,;	C	ENSG00000004975	ENST00000005340	Transcript	missense_variant	1165	882	294	I/M	atC/atG	.	.	.	-1	DVL2	HGNC	3086	protein_coding	YES	CCDS11091.1	ENSP00000005340	DVL2_HUMAN	B4E2D6_HUMAN	UPI0000000DE9	.	deleterious(0)	probably_damaging(0.989)	8/15	.	Superfamily_domains:SSF50156,SMART_domains:SM00228,Gene3D:2.30.42.10,Pfam_domain:PF00595,hmmpanther:PTHR10878:SF8,hmmpanther:PTHR10878,PROSITE_profiles:PS50106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTAGATGCC	.	5	BLCA
GPRC5C	0	.	GRCh37	17	72436908	72436908	+	Silent	SNP	G	G	A	rs757684804	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1128G>A	p.%3D	p.Q376Q	ENST00000392627	2/4	35	31	4	53	53	0	GPRC5C,synonymous_variant,p.%3D,ENST00000392629,;GPRC5C,synonymous_variant,p.%3D,ENST00000342648,;GPRC5C,synonymous_variant,p.%3D,ENST00000392628,;GPRC5C,synonymous_variant,p.%3D,ENST00000392627,;GPRC5C,intron_variant,,ENST00000481232,;GPRC5C,intron_variant,,ENST00000581590,;GPRC5C,downstream_gene_variant,,ENST00000582444,;GPRC5C,downstream_gene_variant,,ENST00000582473,;GPRC5C,upstream_gene_variant,,ENST00000582873,;GPRC5C,upstream_gene_variant,,ENST00000577663,;GPRC5C,upstream_gene_variant,,ENST00000482723,;	A	ENSG00000170412	ENST00000392627	Transcript	synonymous_variant	2254	1128	376	Q	caG/caA	rs757684804	.	.	1	GPRC5C	HGNC	13309	protein_coding	YES	CCDS11699.1	ENSP00000376403	GPC5C_HUMAN	J9JIE0_HUMAN,J3QQN3_HUMAN	UPI0000231CB2	.	.	.	2/4	.	hmmpanther:PTHR14511,hmmpanther:PTHR14511:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGCAGAAGGG	byFrequency	3	BLCA
CTD-2006K23.2	0	.	GRCh37	17	72667651	72667651	+	3'Flank	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000582959	.	14	8	6	11	11	0	RAB37,5_prime_UTR_variant,,ENST00000402449,;RAB37,5_prime_UTR_variant,,ENST00000340415,;CTD-2006K23.2,downstream_gene_variant,,ENST00000582959,;RAB37,non_coding_transcript_exon_variant,,ENST00000392617,;	A	ENSG00000264659	ENST00000582959	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1200	-1	CTD-2006K23.2	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE	CCAGCGGAGCT	.	3	BLCA
SUMO2	0	.	GRCh37	17	73177191	73177191	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114A>G	p.%3D	p.T38T	ENST00000420826	2/4	59	55	3	60	60	0	SUMO2,synonymous_variant,p.%3D,ENST00000420826,;SUMO2,synonymous_variant,p.%3D,ENST00000314523,;SUMO2,5_prime_UTR_variant,,ENST00000578238,;	C	ENSG00000188612	ENST00000420826	Transcript	synonymous_variant	263	114	38	T	acA/acG	.	.	.	-1	SUMO2	HGNC	11125	protein_coding	YES	CCDS45774.1	ENSP00000405965	SUMO2_HUMAN	J3KRH1_HUMAN	UPI0000004177	.	.	.	2/4	.	PROSITE_profiles:PS50053,hmmpanther:PTHR10562:SF10,hmmpanther:PTHR10562,Gene3D:3.10.20.90,Pfam_domain:PF11976,SMART_domains:SM00213,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGGTGTATG	.	2	BLCA
CHRNB1	0	.	GRCh37	17	7351982	7351982	+	Missense_Mutation	SNP	G	G	A	rs202080837	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.695G>A	p.Arg232His	p.R232H	ENST00000306071	7/11	31	24	7	56	56	0	CHRNB1,missense_variant,p.Arg160His,ENST00000576360,;CHRNB1,missense_variant,p.Arg160His,ENST00000536404,;CHRNB1,missense_variant,p.Arg232His,ENST00000306071,;CHRNB1,intron_variant,,ENST00000570557,;FGF11,downstream_gene_variant,,ENST00000575082,;CHRNB1,downstream_gene_variant,,ENST00000572857,;FGF11,downstream_gene_variant,,ENST00000293829,;RP11-104H15.7,downstream_gene_variant,,ENST00000575310,;RP11-104H15.10,downstream_gene_variant,,ENST00000575331,;CHRNB1,non_coding_transcript_exon_variant,,ENST00000573209,;CHRNB1,downstream_gene_variant,,ENST00000574054,;	A	ENSG00000170175	ENST00000306071	Transcript	missense_variant	762	695	232	R/H	cGc/cAc	rs202080837,COSM2979095	.	.	1	CHRNB1	HGNC	1961	protein_coding	YES	CCDS11106.1	ENSP00000304290	ACHB_HUMAN	I3L535_HUMAN,B7Z5H1_HUMAN,B7Z2M6_HUMAN	UPI0000125257	.	tolerated(0.68)	benign(0.002)	7/11	.	Superfamily_domains:0038932,Gene3D:2.70.170.10,Pfam_domain:PF02931,TIGRFAM_domain:TIGR00860,hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF477	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGCGCCAGG	byCluster	5	BLCA
ITGB4	0	.	GRCh37	17	73739797	73739797	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2966G>C	p.Arg989Thr	p.R989T	ENST00000200181	26/40	48	43	5	34	34	0	ITGB4,missense_variant,p.Arg989Thr,ENST00000579662,;ITGB4,missense_variant,p.Arg989Thr,ENST00000450894,;ITGB4,missense_variant,p.Arg989Thr,ENST00000339591,;ITGB4,missense_variant,p.Arg989Thr,ENST00000449880,;ITGB4,missense_variant,p.Arg989Thr,ENST00000200181,;ITGB4,intron_variant,,ENST00000582629,;ITGB4,downstream_gene_variant,,ENST00000584558,;ITGB4,downstream_gene_variant,,ENST00000584374,;ITGB4,non_coding_transcript_exon_variant,,ENST00000584025,;ITGB4,downstream_gene_variant,,ENST00000580542,;	C	ENSG00000132470	ENST00000200181	Transcript	missense_variant	3153	2966	989	R/T	aGa/aCa	.	.	.	1	ITGB4	HGNC	6158	protein_coding	YES	CCDS11727.1	ENSP00000200181	ITB4_HUMAN	.	UPI00001AE5C0	.	tolerated(0.2)	benign(0.002)	26/40	.	hmmpanther:PTHR10082:SF6,hmmpanther:PTHR10082,Pfam_domain:PF03160,PIRSF_domain:PIRSF002513,SMART_domains:SM00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCAGAGACG	.	4	BLCA
GALK1	0	.	GRCh37	17	73759142	73759142	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.564C>T	p.%3D	p.F188F	ENST00000588479	4/8	32	29	3	51	51	0	GALK1,synonymous_variant,p.%3D,ENST00000437911,;GALK1,synonymous_variant,p.%3D,ENST00000225614,;GALK1,synonymous_variant,p.%3D,ENST00000588479,;GALK1,synonymous_variant,p.%3D,ENST00000592997,;GALK1,3_prime_UTR_variant,,ENST00000586244,;GALK1,3_prime_UTR_variant,,ENST00000587707,;GALK1,non_coding_transcript_exon_variant,,ENST00000592494,;GALK1,downstream_gene_variant,,ENST00000589030,;GALK1,upstream_gene_variant,,ENST00000586733,;GALK1,upstream_gene_variant,,ENST00000589643,;	A	ENSG00000108479	ENST00000588479	Transcript	synonymous_variant	1139	564	188	F	ttC/ttT	.	.	.	-1	GALK1	HGNC	4118	protein_coding	YES	CCDS11728.1	ENSP00000465930	GALK1_HUMAN	Q71UH7_HUMAN,C8CHJ6_HUMAN	UPI000012B056	.	.	.	4/8	.	hmmpanther:PTHR10457:SF6,hmmpanther:PTHR10457,TIGRFAM_domain:TIGR00131,Gene3D:3.30.230.10,Pfam_domain:PF00288,PIRSF_domain:PIRSF000530,Superfamily_domains:SSF54211,Prints_domain:PR00959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGATGAACTG	.	2	BLCA
H3F3B	0	.	GRCh37	17	73774795	73774795	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292G>T	p.Glu98Ter	p.E98*	ENST00000254810	4/4	68	40	28	90	90	0	H3F3B,stop_gained,p.Glu98Ter,ENST00000587560,;H3F3B,stop_gained,p.Glu98Ter,ENST00000254810,;H3F3B,stop_gained,p.Glu98Ter,ENST00000586270,;H3F3B,stop_gained,p.Glu98Ter,ENST00000589599,;H3F3B,stop_gained,p.Glu98Ter,ENST00000586607,;H3F3B,synonymous_variant,p.%3D,ENST00000592643,;H3F3B,synonymous_variant,p.%3D,ENST00000587171,;H3F3B,3_prime_UTR_variant,,ENST00000591890,;H3F3B,non_coding_transcript_exon_variant,,ENST00000593254,;H3F3B,non_coding_transcript_exon_variant,,ENST00000589417,;H3F3B,non_coding_transcript_exon_variant,,ENST00000586518,;H3F3B,non_coding_transcript_exon_variant,,ENST00000589949,;H3F3B,downstream_gene_variant,,ENST00000591893,;	A	ENSG00000132475	ENST00000254810	Transcript	stop_gained	425	292	98	E/*	Gaa/Taa	.	.	.	-1	H3F3B	HGNC	4765	protein_coding	YES	CCDS11729.1	ENSP00000254810	H33_HUMAN	K7EK07_HUMAN,B4E380_HUMAN,B2R4P9_HUMAN	UPI00000007B0	.	.	.	4/4	.	hmmpanther:PTHR11426,Gene3D:1.10.20.10,Pfam_domain:PF00125,SMART_domains:SM00428,Superfamily_domains:SSF47113,Prints_domain:PR00622,Prints_domain:PR00622	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTTCGCTAG	.	5	BLCA
RHBDF2	0	.	GRCh37	17	74468785	74468785	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2134C>T	p.Leu712Phe	p.L712F	ENST00000313080	18/19	33	24	9	38	38	0	RHBDF2,missense_variant,p.Leu683Phe,ENST00000591885,;RHBDF2,missense_variant,p.Leu683Phe,ENST00000389760,;RHBDF2,missense_variant,p.Leu70Phe,ENST00000591860,;RHBDF2,missense_variant,p.Leu712Phe,ENST00000313080,;AANAT,downstream_gene_variant,,ENST00000250615,;AANAT,downstream_gene_variant,,ENST00000585649,;AANAT,downstream_gene_variant,,ENST00000392492,;RHBDF2,non_coding_transcript_exon_variant,,ENST00000590168,;AANAT,downstream_gene_variant,,ENST00000587798,;RHBDF2,downstream_gene_variant,,ENST00000589582,;RHBDF2,downstream_gene_variant,,ENST00000587640,;	A	ENSG00000129667	ENST00000313080	Transcript	missense_variant	2408	2134	712	L/F	Ctc/Ttc	.	.	.	-1	RHBDF2	HGNC	20788	protein_coding	YES	CCDS32743.1	ENSP00000322775	RHDF2_HUMAN	K7EQT5_HUMAN,K7EPV3_HUMAN,K7ELA9_HUMAN,K7EJ10_HUMAN	UPI0000DBEF0D	.	deleterious(0)	probably_damaging(0.999)	18/19	.	hmmpanther:PTHR22936,hmmpanther:PTHR22936:SF10,Pfam_domain:PF01694,Gene3D:2xovA00,Superfamily_domains:SSF144091	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGAGAAAGA	.	5	BLCA
WRAP53	0	.	GRCh37	17	7592102	7592102	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136G>T	p.Glu46Ter	p.E46*	ENST00000316024	1/10	57	42	15	85	85	0	WRAP53,stop_gained,p.Glu46Ter,ENST00000534050,;WRAP53,stop_gained,p.Glu46Ter,ENST00000316024,;WRAP53,stop_gained,p.Glu46Ter,ENST00000431639,;WRAP53,stop_gained,p.Glu46Ter,ENST00000396463,;WRAP53,stop_gained,p.Glu46Ter,ENST00000457584,;TP53,upstream_gene_variant,,ENST00000420246,;TP53,upstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000269305,;TP53,upstream_gene_variant,,ENST00000509690,;TP53,upstream_gene_variant,,ENST00000514944,;TP53,upstream_gene_variant,,ENST00000445888,;TP53,upstream_gene_variant,,ENST00000503591,;TP53,upstream_gene_variant,,ENST00000455263,;RP11-199F11.2,upstream_gene_variant,,ENST00000571370,;WRAP53,stop_gained,p.Glu46Ter,ENST00000498311,;WRAP53,non_coding_transcript_exon_variant,,ENST00000467699,;TP53,upstream_gene_variant,,ENST00000505014,;	T	ENSG00000141499	ENST00000316024	Transcript	stop_gained	2484	136	46	E/*	Gaa/Taa	.	.	.	1	WRAP53	HGNC	25522	protein_coding	YES	CCDS11119.1	ENSP00000324203	WAP53_HUMAN	C6ZGR0_HUMAN	UPI000007261E	.	.	.	1/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCCGAAAGG	.	5	BLCA
DNAH17	0	.	GRCh37	17	76525703	76525703	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3358G>A	p.Asp1120Asn	p.D1120N	ENST00000389840	22/81	76	47	29	97	97	0	DNAH17,missense_variant,p.Asp1117Asn,ENST00000585328,;DNAH17,missense_variant,p.Asp1120Asn,ENST00000389840,;RN7SL454P,downstream_gene_variant,,ENST00000492744,;	T	ENSG00000187775	ENST00000389840	Transcript	missense_variant	3483	3358	1120	D/N	Gat/Aat	.	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	benign(0.005)	22/81	.	hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCATCATAGT	.	5	BLCA
CNTROB	0	.	GRCh37	17	7840088	7840088	+	Missense_Mutation	SNP	C	C	G	rs759220534	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.781C>G	p.Gln261Glu	p.Q261E	ENST00000380262	6/19	36	30	6	85	85	0	CNTROB,missense_variant,p.Gln261Glu,ENST00000565740,;CNTROB,missense_variant,p.Gln261Glu,ENST00000380255,;CNTROB,missense_variant,p.Gln261Glu,ENST00000380262,;CNTROB,missense_variant,p.Gln163Glu,ENST00000575408,;CNTROB,missense_variant,p.Gln261Glu,ENST00000563694,;CNTROB,downstream_gene_variant,,ENST00000570784,;CNTROB,downstream_gene_variant,,ENST00000570782,;TRAPPC1,upstream_gene_variant,,ENST00000572656,;TRAPPC1,upstream_gene_variant,,ENST00000540486,;TRAPPC1,upstream_gene_variant,,ENST00000303731,;TRAPPC1,upstream_gene_variant,,ENST00000571947,;CNTROB,downstream_gene_variant,,ENST00000576538,;CNTROB,3_prime_UTR_variant,,ENST00000571632,;CNTROB,3_prime_UTR_variant,,ENST00000571540,;CNTROB,non_coding_transcript_exon_variant,,ENST00000576587,;CNTROB,upstream_gene_variant,,ENST00000576922,;TRAPPC1,upstream_gene_variant,,ENST00000575639,;TRAPPC1,upstream_gene_variant,,ENST00000573989,;TRAPPC1,upstream_gene_variant,,ENST00000571739,;CNTROB,upstream_gene_variant,,ENST00000576723,;CNTROB,upstream_gene_variant,,ENST00000574430,;	G	ENSG00000170037	ENST00000380262	Transcript	missense_variant	1706	781	261	Q/E	Caa/Gaa	rs759220534	.	.	1	CNTROB	HGNC	29616	protein_coding	YES	CCDS32557.1	ENSP00000369614	CNTRB_HUMAN	I3L465_HUMAN,I3L1Z8_HUMAN,I3L1B0_HUMAN	UPI00005DB2E1	.	deleterious(0.01)	probably_damaging(0.95)	6/19	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTCAAGAG	.	5	BLCA
CTC1	0	.	GRCh37	17	8146437	8146437	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.63C>G	p.%3D	p.V21V	ENST00000315684	2/23	26	20	5	53	52	1	CTC1,synonymous_variant,p.%3D,ENST00000315684,;PFAS,upstream_gene_variant,,ENST00000585183,;CTC1,intron_variant,,ENST00000581671,;CTC1,synonymous_variant,p.%3D,ENST00000449476,;CTC1,non_coding_transcript_exon_variant,,ENST00000584842,;	C	ENSG00000178971	ENST00000315684	Transcript	synonymous_variant	71	63	21	V	gtC/gtG	.	.	.	-1	CTC1	HGNC	26169	protein_coding	YES	CCDS42259.1	ENSP00000313759	CTC1_HUMAN	.	UPI000041A9A9	.	.	.	2/23	.	hmmpanther:PTHR14865	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAAGACCTG	.	5	BLCA
MYH10	0	.	GRCh37	17	8384692	8384692	+	Missense_Mutation	SNP	C	C	T	rs199665530	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5212G>A	p.Glu1738Lys	p.E1738K	ENST00000360416	38/43	32	24	8	79	79	0	MYH10,missense_variant,p.Glu1728Lys,ENST00000396239,;MYH10,missense_variant,p.Glu1707Lys,ENST00000269243,;MYH10,missense_variant,p.Glu1723Lys,ENST00000379980,;MYH10,missense_variant,p.Glu1738Lys,ENST00000360416,;NDEL1,intron_variant,,ENST00000581679,;NDEL1,downstream_gene_variant,,ENST00000299734,;MYH10,non_coding_transcript_exon_variant,,ENST00000476737,;	T	ENSG00000133026	ENST00000360416	Transcript	missense_variant	5351	5212	1738	E/K	Gag/Aag	rs199665530,COSM162712	.	.	-1	MYH10	HGNC	7568	protein_coding	YES	CCDS58515.1	ENSP00000353590	MYH10_HUMAN	Q9UMG3_HUMAN,Q9UE82_HUMAN,Q9BWG0_HUMAN,G1UI33_HUMAN,E7ERA5_HUMAN,D3DTS1_HUMAN	UPI0000E24926	.	.	benign(0.32)	38/43	.	Pfam_domain:PF01576,hmmpanther:PTHR13140:SF328,hmmpanther:PTHR13140,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCGGCGT	byCluster	5	BLCA
GAS7	0	.	GRCh37	17	9862596	9862596	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.472-24G>A	.	.	ENST00000432992	.	20	17	3	24	24	0	GAS7,missense_variant,p.Asp10Asn,ENST00000583882,;GAS7,missense_variant,p.Asp10Asn,ENST00000580865,;GAS7,intron_variant,,ENST00000396115,;GAS7,intron_variant,,ENST00000579158,;GAS7,intron_variant,,ENST00000437099,;GAS7,intron_variant,,ENST00000540214,;GAS7,intron_variant,,ENST00000584146,;GAS7,intron_variant,,ENST00000432992,;GAS7,intron_variant,,ENST00000584389,;GAS7,intron_variant,,ENST00000323816,;GAS7,intron_variant,,ENST00000580043,;GAS7,intron_variant,,ENST00000585266,;GAS7,intron_variant,,ENST00000542249,;GAS7,intron_variant,,ENST00000578599,;GAS7,intron_variant,,ENST00000578655,;GAS7,intron_variant,,ENST00000580811,;GAS7,intron_variant,,ENST00000579140,;GAS7,upstream_gene_variant,,ENST00000581871,;	T	ENSG00000007237	ENST00000432992	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	GAS7	HGNC	4169	protein_coding	YES	CCDS11152.1	ENSP00000407552	GAS7_HUMAN	J3QS26_HUMAN,J3QLH8_HUMAN,J3KTK6_HUMAN,J3KTB1_HUMAN,J3KS47_HUMAN,B7Z1Q2_HUMAN	UPI00001B4B17	.	.	.	.	4/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACATCGTCAA	.	2	BLCA
PTPN2	0	.	GRCh37	18	12794399	12794399	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1126G>T	p.Glu376Ter	p.E376*	ENST00000309660	9/9	58	50	8	81	81	0	PTPN2,stop_gained,p.Glu376Ter,ENST00000309660,;PTPN2,stop_gained,p.Glu91Ter,ENST00000591901,;PTPN2,stop_gained,p.Glu135Ter,ENST00000587703,;PTPN2,stop_gained,p.Glu125Ter,ENST00000585666,;PTPN2,stop_gained,p.Glu399Ter,ENST00000591115,;PTPN2,stop_gained,p.Glu376Ter,ENST00000327283,;PTPN2,stop_gained,p.Glu347Ter,ENST00000591497,;PTPN2,intron_variant,,ENST00000353319,;	A	ENSG00000175354	ENST00000309660	Transcript	stop_gained	1220	1126	376	E/*	Gaa/Taa	.	.	.	-1	PTPN2	HGNC	9650	protein_coding	YES	CCDS11865.1	ENSP00000311857	PTN2_HUMAN	K7ER87_HUMAN,D3DUJ3_HUMAN	UPI000017284E	.	.	.	9/9	.	PIRSF_domain:PIRSF000926,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF200,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGTTCATTCT	.	4	BLCA
CEP192	0	.	GRCh37	18	13049486	13049486	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2696C>G	p.Ser899Ter	p.S899*	ENST00000506447	16/45	56	43	13	86	86	0	CEP192,stop_gained,p.Ser303Ter,ENST00000325971,;CEP192,stop_gained,p.Ser640Ter,ENST00000589596,;CEP192,stop_gained,p.Ser424Ter,ENST00000430049,;CEP192,stop_gained,p.Ser899Ter,ENST00000506447,;CEP192,stop_gained,p.Ser438Ter,ENST00000511820,;CEP192,stop_gained,p.Ser499Ter,ENST00000510237,;CEP192,3_prime_UTR_variant,,ENST00000513432,;	G	ENSG00000101639	ENST00000506447	Transcript	stop_gained	2776	2696	899	S/*	tCa/tGa	.	.	.	1	CEP192	HGNC	25515	protein_coding	YES	CCDS32792.2	ENSP00000427550	.	E9PF99_HUMAN	UPI0001B09235	.	.	.	16/45	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16029:SF10,hmmpanther:PTHR16029	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCAATTT	.	5	BLCA
TMEM241	0	.	GRCh37	18	20877957	20877957	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14G>A	.	.	ENST00000383233	15/15	50	40	9	80	80	0	TMEM241,3_prime_UTR_variant,,ENST00000383233,;TMEM241,intron_variant,,ENST00000450466,;TMEM241,downstream_gene_variant,,ENST00000542162,;TMEM241,non_coding_transcript_exon_variant,,ENST00000577448,;TMEM241,non_coding_transcript_exon_variant,,ENST00000475185,;TMEM241,intron_variant,,ENST00000578790,;TMEM241,3_prime_UTR_variant,,ENST00000473688,;TMEM241,3_prime_UTR_variant,,ENST00000460322,;TMEM241,3_prime_UTR_variant,,ENST00000477053,;TMEM241,non_coding_transcript_exon_variant,,ENST00000583048,;TMEM241,intron_variant,,ENST00000581444,;	T	ENSG00000134490	ENST00000383233	Transcript	3_prime_UTR_variant	958	.	.	.	.	.	.	.	-1	TMEM241	HGNC	31723	protein_coding	YES	CCDS11876.2	ENSP00000372720	TM241_HUMAN	.	UPI000022A6E0	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCTTGAC	.	5	BLCA
ZNF521	0	.	GRCh37	18	22671972	22671972	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3732G>A	p.%3D	p.L1244L	ENST00000361524	6/8	41	34	6	60	60	0	ZNF521,synonymous_variant,p.%3D,ENST00000538137,;ZNF521,synonymous_variant,p.%3D,ENST00000584787,;ZNF521,synonymous_variant,p.%3D,ENST00000361524,;ZNF521,3_prime_UTR_variant,,ENST00000399425,;	T	ENSG00000198795	ENST00000361524	Transcript	synonymous_variant	3881	3732	1244	L	ctG/ctA	.	.	.	-1	ZNF521	HGNC	24605	protein_coding	YES	CCDS32806.1	ENSP00000354794	ZN521_HUMAN	J3QRW6_HUMAN,J3KTI4_HUMAN,J3KT07_HUMAN,J3KSZ4_HUMAN	UPI000006F982	.	.	.	6/8	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13894,PROSITE_patterns:PS00028,hmmpanther:PTHR24385,hmmpanther:PTHR24385:SF32,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTATCAGGTG	.	5	BLCA
DSC2	0	.	GRCh37	18	28672097	28672097	+	Silent	SNP	C	C	T	rs140856220	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321G>A	p.%3D	p.K107K	ENST00000280904	3/16	40	33	7	58	58	0	DSC2,synonymous_variant,p.%3D,ENST00000251081,;DSC2,synonymous_variant,p.%3D,ENST00000280904,;	T	ENSG00000134755	ENST00000280904	Transcript	synonymous_variant	765	321	107	K	aaG/aaA	rs140856220	.	.	-1	DSC2	HGNC	3036	protein_coding	YES	CCDS11892.1	ENSP00000280904	DSC2_HUMAN	A9X9L1_HUMAN	UPI00001298F9	.	.	.	3/16	.	hmmpanther:PTHR24025,hmmpanther:PTHR24025:SF0,Gene3D:2.60.40.60,Pfam_domain:PF08758,SMART_domains:SM01055,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTTCTT	byCluster	5	BLCA
ZNF24	0	.	GRCh37	18	32917690	32917690	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Glu205Lys	p.E205K	ENST00000261332	4/4	91	85	5	160	160	0	ZNF24,missense_variant,p.Glu205Lys,ENST00000399061,;ZNF24,missense_variant,p.Glu205Lys,ENST00000261332,;ZNF24,3_prime_UTR_variant,,ENST00000589881,;ZNF24,downstream_gene_variant,,ENST00000590140,;ZNF24,downstream_gene_variant,,ENST00000593130,;ZNF24,downstream_gene_variant,,ENST00000589539,;	T	ENSG00000172466	ENST00000261332	Transcript	missense_variant	793	613	205	E/K	Gag/Aag	.	.	.	-1	ZNF24	HGNC	13032	protein_coding	YES	CCDS11912.1	ENSP00000261332	ZNF24_HUMAN	K7EQP8_HUMAN,K7EPZ8_HUMAN,K7EPL1_HUMAN	UPI000013D166	.	tolerated(0.63)	benign(0.009)	4/4	.	hmmpanther:PTHR23226:SF20,hmmpanther:PTHR23226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGCTCCTGCT	.	2	BLCA
PIAS2	0	.	GRCh37	18	44408028	44408028	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1402G>C	p.Asp468His	p.D468H	ENST00000585916	11/14	44	29	15	68	68	0	PIAS2,missense_variant,p.Asp468His,ENST00000324794,;PIAS2,missense_variant,p.Asp178His,ENST00000545673,;PIAS2,missense_variant,p.Asp468His,ENST00000585916,;PIAS2,3_prime_UTR_variant,,ENST00000398654,;PIAS2,non_coding_transcript_exon_variant,,ENST00000592212,;PIAS2,non_coding_transcript_exon_variant,,ENST00000590127,;	G	ENSG00000078043	ENST00000585916	Transcript	missense_variant	1402	1402	468	D/H	Gat/Cat	.	.	.	-1	PIAS2	HGNC	17311	protein_coding	YES	CCDS32824.1	ENSP00000465676	PIAS2_HUMAN	K7EJT4_HUMAN	UPI0000201CB9	.	deleterious(0)	possibly_damaging(0.562)	11/14	.	hmmpanther:PTHR10782,hmmpanther:PTHR10782:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCTACTT	.	5	BLCA
ACAA2	0	.	GRCh37	18	47311614	47311614	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1062G>T	p.%3D	p.L354L	ENST00000285093	9/10	46	36	10	81	81	0	ACAA2,synonymous_variant,p.%3D,ENST00000285093,;ACAA2,synonymous_variant,p.%3D,ENST00000587994,;ACAA2,synonymous_variant,p.%3D,ENST00000589432,;ACAA2,non_coding_transcript_exon_variant,,ENST00000591171,;	A	ENSG00000167315	ENST00000285093	Transcript	synonymous_variant	1538	1062	354	L	ctG/ctT	.	.	.	-1	ACAA2	HGNC	83	protein_coding	YES	CCDS11939.1	ENSP00000285093	THIM_HUMAN	K7ER88_HUMAN,K7EME0_HUMAN,K7EJB1_HUMAN,K7EJ68_HUMAN	UPI000006FECE	.	.	.	9/10	.	hmmpanther:PTHR18919,hmmpanther:PTHR18919:SF67,PROSITE_patterns:PS00737,Gene3D:3.40.47.10,Pfam_domain:PF02803,TIGRFAM_domain:TIGR01930,PIRSF_domain:PIRSF000429,Superfamily_domains:SSF53901	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCCCAGTGG	.	5	BLCA
SMAD4	0	.	GRCh37	18	48604632	48604632	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1454C>T	p.Ser485Leu	p.S485L	ENST00000342988	12/12	43	39	4	60	60	0	SMAD4,missense_variant,p.Ser485Leu,ENST00000342988,;SMAD4,missense_variant,p.Ser485Leu,ENST00000398417,;SMAD4,missense_variant,p.Ser389Leu,ENST00000588745,;SMAD4,downstream_gene_variant,,ENST00000593223,;SMAD4,non_coding_transcript_exon_variant,,ENST00000586253,;SMAD4,3_prime_UTR_variant,,ENST00000592186,;SMAD4,non_coding_transcript_exon_variant,,ENST00000591126,;SMAD4,downstream_gene_variant,,ENST00000590499,;	T	ENSG00000141646	ENST00000342988	Transcript	missense_variant	1992	1454	485	S/L	tCa/tTa	.	.	.	1	SMAD4	HGNC	6770	protein_coding	YES	CCDS11950.1	ENSP00000341551	SMAD4_HUMAN	Q9BYG6_HUMAN,K7ENG8_HUMAN,K7ENG1_HUMAN,K7EL18_HUMAN,K7EL15_HUMAN,K7EIJ2_HUMAN	UPI0000053431	.	tolerated(0.07)	probably_damaging(0.914)	12/12	.	PROSITE_profiles:PS51076,hmmpanther:PTHR13703,hmmpanther:PTHR13703:SF33,Pfam_domain:PF03166,Gene3D:2.60.200.10,SMART_domains:SM00524,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_1659del1659|28	MUTECT|MUSE	TCTGTCAGCTG	.	2	BLCA
MBD2	0	.	GRCh37	18	51731376	51731376	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694C>T	p.Gln232Ter	p.Q232*	ENST00000256429	2/7	126	96	30	148	147	0	MBD2,stop_gained,p.Gln232Ter,ENST00000398398,;MBD2,stop_gained,p.Gln232Ter,ENST00000256429,;MBD2,stop_gained,p.Gln232Ter,ENST00000583046,;MBD2,stop_gained,p.Gln6Ter,ENST00000578272,;	A	ENSG00000134046	ENST00000256429	Transcript	stop_gained	923	694	232	Q/*	Caa/Taa	.	.	.	-1	MBD2	HGNC	6917	protein_coding	YES	CCDS11953.1	ENSP00000256429	MBD2_HUMAN	Q69YZ5_HUMAN,O60535_HUMAN	UPI000003166A	.	.	.	2/7	.	hmmpanther:PTHR12396,hmmpanther:PTHR12396:SF2,Superfamily_domains:SSF54171	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTGATTGA	.	5	BLCA
CLUL1	0	.	GRCh37	18	641365	641365	+	Missense_Mutation	SNP	G	G	A	rs527661052	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1033G>A	p.Glu345Lys	p.E345K	ENST00000400606	7/9	54	43	11	60	60	0	CLUL1,missense_variant,p.Glu345Lys,ENST00000579494,;CLUL1,missense_variant,p.Glu370Lys,ENST00000581619,;CLUL1,missense_variant,p.Glu345Lys,ENST00000338387,;CLUL1,missense_variant,p.Glu345Lys,ENST00000400606,;CLUL1,missense_variant,p.Glu397Lys,ENST00000540035,;C18orf56,3_prime_UTR_variant,,ENST00000585033,;CLUL1,upstream_gene_variant,,ENST00000585155,;	A	ENSG00000079101	ENST00000400606	Transcript	missense_variant	1178	1033	345	E/K	Gag/Aag	rs527661052	.	.	1	CLUL1	HGNC	2096	protein_coding	YES	CCDS42405.1	ENSP00000383449	CLUL1_HUMAN	.	UPI00000499ED	.	deleterious(0.04)	benign(0.306)	7/9	.	hmmpanther:PTHR10970:SF2,hmmpanther:PTHR10970,Pfam_domain:PF01093,SMART_domains:SM00035	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGACGAGGCG	by1000G	5	BLCA
CDH19	0	.	GRCh37	18	64178814	64178814	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1567G>A	p.Asp523Asn	p.D523N	ENST00000262150	10/12	71	61	9	104	104	0	CDH19,missense_variant,p.Asp523Asn,ENST00000262150,;CDH19,intron_variant,,ENST00000540086,;CDH19,missense_variant,p.Asp523Asn,ENST00000579658,;	T	ENSG00000071991	ENST00000262150	Transcript	missense_variant	1860	1567	523	D/N	Gat/Aat	.	.	.	-1	CDH19	HGNC	1758	protein_coding	YES	CCDS11994.1	ENSP00000262150	CAD19_HUMAN	Q96KY9_HUMAN,J3QS15_HUMAN,F8VVI9_HUMAN	UPI0000048ECF	.	deleterious(0.04)	probably_damaging(1)	10/12	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF255,hmmpanther:PTHR24027,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTATCTATGA	.	4	BLCA
CCDC102B	0	.	GRCh37	18	66721302	66721302	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1470G>A	p.%3D	p.Q490Q	ENST00000360242	8/8	57	47	9	107	107	0	CCDC102B,synonymous_variant,p.%3D,ENST00000319445,;CCDC102B,synonymous_variant,p.%3D,ENST00000360242,;	A	ENSG00000150636	ENST00000360242	Transcript	synonymous_variant	1587	1470	490	Q	caG/caA	COSM1718331	.	.	1	CCDC102B	HGNC	26295	protein_coding	YES	CCDS11996.2	ENSP00000353377	C102B_HUMAN	J3QLG6_HUMAN,J3QL62_HUMAN,J3KRT2_HUMAN,J3KRG3_HUMAN,A1A4H1_HUMAN	UPI0000201E87	.	.	.	8/8	.	hmmpanther:PTHR13140:SF295,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCAGAGGTC	.	5	BLCA
SOCS6	0	.	GRCh37	18	67992188	67992188	+	Missense_Mutation	SNP	C	C	T	rs768568432	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.284C>T	p.Ser95Phe	p.S95F	ENST00000397942	2/2	68	59	9	73	73	0	SOCS6,missense_variant,p.Ser95Phe,ENST00000578377,;SOCS6,missense_variant,p.Ser95Phe,ENST00000397942,;SOCS6,missense_variant,p.Ser95Phe,ENST00000582322,;	T	ENSG00000170677	ENST00000397942	Transcript	missense_variant	600	284	95	S/F	tCt/tTt	rs768568432	.	.	1	SOCS6	HGNC	16833	protein_coding	YES	CCDS11998.1	ENSP00000381034	SOCS6_HUMAN	J3KTM7_HUMAN	UPI0000072C28	.	deleterious_low_confidence(0)	benign(0.1)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10385:SF25,hmmpanther:PTHR10385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCTGGGA	.	4	BLCA
NETO1	0	.	GRCh37	18	70532046	70532046	+	Nonsense_Mutation	SNP	C	C	A	rs757538270	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217G>T	p.Glu73Ter	p.E73*	ENST00000327305	3/11	47	36	10	82	82	0	NETO1,stop_gained,p.Glu73Ter,ENST00000327305,;NETO1,stop_gained,p.Glu72Ter,ENST00000397929,;NETO1,stop_gained,p.Glu72Ter,ENST00000299430,;NETO1,stop_gained,p.Glu69Ter,ENST00000579169,;NETO1,stop_gained,p.Glu73Ter,ENST00000583169,;RP11-676J15.1,upstream_gene_variant,,ENST00000580564,;RP11-676J15.1,upstream_gene_variant,,ENST00000578967,;NETO1,non_coding_transcript_exon_variant,,ENST00000580049,;NETO1,non_coding_transcript_exon_variant,,ENST00000579730,;NETO1,downstream_gene_variant,,ENST00000577184,;	A	ENSG00000166342	ENST00000327305	Transcript	stop_gained	875	217	73	E/*	Gaa/Taa	rs757538270	.	.	-1	NETO1	HGNC	13823	protein_coding	YES	CCDS12000.1	ENSP00000313088	NETO1_HUMAN	.	UPI000013E59E	.	.	.	3/11	.	Superfamily_domains:SSF49854,SMART_domains:SM00042,Pfam_domain:PF00431,Gene3D:2.60.120.290,hmmpanther:PTHR10127:SF315,hmmpanther:PTHR10127,PROSITE_profiles:PS01180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTATGA	.	5	BLCA
NFATC1	0	.	GRCh37	18	77221328	77221328	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1882G>A	p.Glu628Lys	p.E628K	ENST00000329101	7/10	45	40	5	53	53	0	NFATC1,missense_variant,p.Glu641Lys,ENST00000542384,;NFATC1,missense_variant,p.Glu628Lys,ENST00000586434,;NFATC1,missense_variant,p.Glu641Lys,ENST00000253506,;NFATC1,missense_variant,p.Glu628Lys,ENST00000329101,;NFATC1,missense_variant,p.Glu628Lys,ENST00000592223,;NFATC1,missense_variant,p.Glu641Lys,ENST00000427363,;NFATC1,missense_variant,p.Glu628Lys,ENST00000318065,;NFATC1,missense_variant,p.Glu169Lys,ENST00000545796,;NFATC1,missense_variant,p.Glu641Lys,ENST00000591814,;NFATC1,missense_variant,p.Glu169Lys,ENST00000397790,;NFATC1,synonymous_variant,p.%3D,ENST00000587635,;NFATC1,3_prime_UTR_variant,,ENST00000590313,;	A	ENSG00000131196	ENST00000329101	Transcript	missense_variant	1938	1882	628	E/K	Gag/Aag	.	.	.	1	NFATC1	HGNC	7775	protein_coding	YES	CCDS32850.1	ENSP00000327850	NFAC1_HUMAN	F5H4S8_HUMAN	UPI000002AF02	.	deleterious(0)	possibly_damaging(0.761)	7/10	.	hmmpanther:PTHR12533,hmmpanther:PTHR12533:SF5,Pfam_domain:PF01833,Gene3D:2.60.40.10,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCTGGGAGATG	.	3	BLCA
ADNP2	0	.	GRCh37	18	77896442	77896442	+	Missense_Mutation	SNP	G	G	A	rs145603867	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3146G>A	p.Arg1049His	p.R1049H	ENST00000262198	4/4	37	30	7	60	60	0	ADNP2,missense_variant,p.Arg1049His,ENST00000262198,;ADNP2,intron_variant,,ENST00000561195,;ADNP2,downstream_gene_variant,,ENST00000559951,;ADNP2,downstream_gene_variant,,ENST00000560561,;ADNP2,downstream_gene_variant,,ENST00000560752,;	A	ENSG00000101544	ENST00000262198	Transcript	missense_variant	3601	3146	1049	R/H	cGt/cAt	rs145603867	.	.	1	ADNP2	HGNC	23803	protein_coding	YES	CCDS32853.1	ENSP00000262198	ADNP2_HUMAN	H0YLN6_HUMAN	UPI0000071DEA	.	tolerated(0.3)	possibly_damaging(0.896)	4/4	.	hmmpanther:PTHR15740:SF2,hmmpanther:PTHR15740,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCCGTTCTT	byCluster	2	BLCA
PTPRM	0	.	GRCh37	18	8143645	8143645	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2168G>A	p.Gly723Glu	p.G723E	ENST00000580170	14/33	50	39	11	69	69	0	PTPRM,missense_variant,p.Gly723Glu,ENST00000332175,;PTPRM,missense_variant,p.Gly221Glu,ENST00000583289,;PTPRM,missense_variant,p.Gly723Glu,ENST00000400060,;PTPRM,missense_variant,p.Gly661Glu,ENST00000400053,;PTPRM,missense_variant,p.Gly510Glu,ENST00000444013,;PTPRM,missense_variant,p.Gly76Glu,ENST00000577468,;PTPRM,missense_variant,p.Gly723Glu,ENST00000580170,;PTPRM,splice_region_variant,,ENST00000577827,;	A	ENSG00000173482	ENST00000580170	Transcript	missense_variant	3205	2168	723	G/E	gGa/gAa	.	.	.	1	PTPRM	HGNC	9675	protein_coding	YES	CCDS58613.1	ENSP00000463325	PTPRM_HUMAN	Q49AC9_HUMAN	UPI00015CFC03	.	deleterious(0.03)	probably_damaging(0.987)	14/33	.	hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF206	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTCAGGAGCTG	.	4	BLCA
CDC37	0	.	GRCh37	19	10506702	10506702	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280G>C	p.Glu94Gln	p.E94Q	ENST00000222005	2/8	107	98	9	145	145	0	CDC37,missense_variant,p.Glu94Gln,ENST00000589629,;CDC37,missense_variant,p.Glu94Gln,ENST00000222005,;CDC37,missense_variant,p.Glu94Gln,ENST00000593124,;CDC37,upstream_gene_variant,,ENST00000589331,;CDC37,upstream_gene_variant,,ENST00000589625,;CDC37,3_prime_UTR_variant,,ENST00000588869,;CDC37,non_coding_transcript_exon_variant,,ENST00000591248,;CDC37,upstream_gene_variant,,ENST00000589755,;CDC37,upstream_gene_variant,,ENST00000590632,;CDC37,upstream_gene_variant,,ENST00000588498,;	G	ENSG00000105401	ENST00000222005	Transcript	missense_variant	334	280	94	E/Q	Gag/Cag	.	.	.	-1	CDC37	HGNC	1735	protein_coding	YES	CCDS12237.1	ENSP00000222005	CDC37_HUMAN	.	UPI000012723D	.	tolerated(0.2)	possibly_damaging(0.82)	2/8	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12800,hmmpanther:PTHR12800:SF3,Pfam_domain:PF03234,SMART_domains:SM01071	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCCTCCTTGC	.	3	BLCA
DNM2	0	.	GRCh37	19	10939861	10939861	+	Silent	SNP	C	C	T	rs755163979	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2208C>T	p.%3D	p.I736I	ENST00000389253	19/21	44	40	4	69	69	0	DNM2,synonymous_variant,p.%3D,ENST00000359692,;DNM2,synonymous_variant,p.%3D,ENST00000585892,;DNM2,synonymous_variant,p.%3D,ENST00000389253,;DNM2,synonymous_variant,p.%3D,ENST00000355667,;DNM2,synonymous_variant,p.%3D,ENST00000314646,;DNM2,synonymous_variant,p.%3D,ENST00000589106,;DNM2,synonymous_variant,p.%3D,ENST00000408974,;DNM2,upstream_gene_variant,,ENST00000591818,;TMED1,downstream_gene_variant,,ENST00000589638,;TMED1,downstream_gene_variant,,ENST00000588289,;TMED1,downstream_gene_variant,,ENST00000214869,;TMED1,downstream_gene_variant,,ENST00000591695,;TMED1,downstream_gene_variant,,ENST00000586835,;DNM2,non_coding_transcript_exon_variant,,ENST00000593203,;DNM2,non_coding_transcript_exon_variant,,ENST00000590806,;TMED1,downstream_gene_variant,,ENST00000591157,;DNM2,downstream_gene_variant,,ENST00000590787,;TMED1,downstream_gene_variant,,ENST00000588259,;	T	ENSG00000079805	ENST00000389253	Transcript	synonymous_variant	2320	2208	736	I	atC/atT	rs755163979,COSM171727	.	.	1	DNM2	HGNC	2974	protein_coding	YES	CCDS45969.1	ENSP00000373905	DYN2_HUMAN	Q8N1K8_HUMAN,K7EPK9_HUMAN	UPI000049A626	.	.	.	19/21	.	SMART_domains:SM00302,Pfam_domain:PF02212,hmmpanther:PTHR11566:SF23,hmmpanther:PTHR11566,PROSITE_profiles:PS51388	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	ATCATCGGTGA	.	3	BLCA
SWSAP1	0	.	GRCh37	19	11485452	11485452	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33C>G	p.%3D	p.L11L	ENST00000312423	1/2	18	11	7	33	32	0	SWSAP1,synonymous_variant,p.%3D,ENST00000312423,;EPOR,downstream_gene_variant,,ENST00000592375,;EPOR,downstream_gene_variant,,ENST00000222139,;CTD-2342J14.6,non_coding_transcript_exon_variant,,ENST00000590399,;EPOR,downstream_gene_variant,,ENST00000588681,;EPOR,downstream_gene_variant,,ENST00000586890,;EPOR,downstream_gene_variant,,ENST00000588859,;EPOR,downstream_gene_variant,,ENST00000590927,;EPOR,downstream_gene_variant,,ENST00000591958,;	G	ENSG00000173928	ENST00000312423	Transcript	synonymous_variant	92	33	11	L	ctC/ctG	.	.	.	1	SWSAP1	HGNC	26638	protein_coding	YES	CCDS12259.1	ENSP00000310008	SWAP1_HUMAN	.	UPI000013F2CE	.	.	.	1/2	.	Low_complexity_(Seg):seg,Gene3D:3.40.50.300,Pfam_domain:PF05729,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCGGTAC	.	5	BLCA
ZNF833P	0	.	GRCh37	19	11759247	11759247	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.366G>C	.	.	ENST00000344893	4/10	71	60	11	49	49	0	ZNF833P,non_coding_transcript_exon_variant,,ENST00000344893,;CTD-2006C1.6,non_coding_transcript_exon_variant,,ENST00000431363,;	C	ENSG00000197332	ENST00000344893	Transcript	non_coding_transcript_exon_variant	366	.	.	.	.	.	.	.	1	ZNF833P	HGNC	33819	lincRNA	YES	.	.	.	.	.	.	.	.	4/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGAAGAAACT	.	4	BLCA
CACNA1A	0	.	GRCh37	19	13476246	13476246	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669G>A	p.Met223Ile	p.M223I	ENST00000360228	5/47	25	21	4	36	36	0	CACNA1A,missense_variant,p.Met223Ile,ENST00000573710,;CACNA1A,missense_variant,p.Met223Ile,ENST00000360228,;CACNA1A,upstream_gene_variant,,ENST00000593160,;	T	ENSG00000141837	ENST00000360228	Transcript	missense_variant	669	669	223	M/I	atG/atA	.	.	.	-1	CACNA1A	HGNC	1388	protein_coding	YES	CCDS45998.1	ENSP00000353362	CAC1A_HUMAN	Q9UN69_HUMAN,Q9UHM9_HUMAN	UPI0000141565	.	.	benign(0.216)	5/47	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF59,Pfam_domain:PF00520,Superfamily_domains:SSF81324,Prints_domain:PR00167	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGATCATCGC	.	5	BLCA
CYP4F12	0	.	GRCh37	19	15794549	15794549	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894C>T	p.%3D	p.F298F	ENST00000550308	7/13	138	119	19	163	163	0	CYP4F12,synonymous_variant,p.%3D,ENST00000550308,;CYP4F12,synonymous_variant,p.%3D,ENST00000324632,;CYP4F12,downstream_gene_variant,,ENST00000551607,;CYP4F12,3_prime_UTR_variant,,ENST00000517734,;CYP4F12,non_coding_transcript_exon_variant,,ENST00000546608,;CYP4F12,non_coding_transcript_exon_variant,,ENST00000550627,;CYP4F12,non_coding_transcript_exon_variant,,ENST00000518629,;CYP4F12,downstream_gene_variant,,ENST00000430608,;CYP4F12,downstream_gene_variant,,ENST00000549622,;CYP4F12,downstream_gene_variant,,ENST00000546792,;CYP4F12,downstream_gene_variant,,ENST00000547332,;CYP4F12,downstream_gene_variant,,ENST00000547471,;CYP4F12,downstream_gene_variant,,ENST00000548237,;CYP4F12,downstream_gene_variant,,ENST00000451750,;CYP4F12,downstream_gene_variant,,ENST00000548435,;CYP4F12,downstream_gene_variant,,ENST00000548501,;	T	ENSG00000186204	ENST00000550308	Transcript	synonymous_variant	1274	894	298	F	ttC/ttT	COSM3529810	.	.	1	CYP4F12	HGNC	18857	protein_coding	YES	CCDS42517.1	ENSP00000448998	CP4FC_HUMAN	.	UPI000013D3F9	.	.	.	7/13	.	hmmpanther:PTHR24290,hmmpanther:PTHR24290:SF72,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTCATTGA	.	4	BLCA
CIB3	0	.	GRCh37	19	16284256	16284256	+	Missense_Mutation	SNP	C	C	G	rs147137999	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.31G>C	p.Glu11Gln	p.E11Q	ENST00000269878	1/6	79	53	26	112	112	0	CIB3,missense_variant,p.Glu11Gln,ENST00000379859,;CIB3,missense_variant,p.Glu11Gln,ENST00000269878,;CIB3,non_coding_transcript_exon_variant,,ENST00000541493,;CIB3,missense_variant,p.Glu11Gln,ENST00000597251,;	G	ENSG00000141977	ENST00000269878	Transcript	missense_variant	81	31	11	E/Q	Gag/Cag	rs147137999	.	.	-1	CIB3	HGNC	24580	protein_coding	YES	CCDS12340.1	ENSP00000269878	CIB3_HUMAN	.	UPI00000736D6	.	tolerated(0.14)	benign(0.018)	1/6	.	Superfamily_domains:SSF47473,Gene3D:1.10.238.10,hmmpanther:PTHR23056:SF34,hmmpanther:PTHR23056	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCGTGTG	byCluster	5	BLCA
MYO9B	0	.	GRCh37	19	17265157	17265157	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1131G>A	p.%3D	p.L377L	ENST00000595618	6/40	49	39	9	61	61	0	MYO9B,synonymous_variant,p.%3D,ENST00000595641,;MYO9B,synonymous_variant,p.%3D,ENST00000397274,;MYO9B,synonymous_variant,p.%3D,ENST00000595618,;MYO9B,synonymous_variant,p.%3D,ENST00000594824,;CTD-3032J10.2,intron_variant,,ENST00000599360,;CTD-3032J10.2,intron_variant,,ENST00000597216,;	A	ENSG00000099331	ENST00000595618	Transcript	synonymous_variant	1283	1131	377	L	ctG/ctA	.	.	.	1	MYO9B	HGNC	7609	protein_coding	YES	CCDS46010.1	ENSP00000471457	MYO9B_HUMAN	Q4LE74_HUMAN	UPI000020367C	.	.	.	6/40	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF306,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTGAAGCA	.	5	BLCA
SUGP2	0	.	GRCh37	19	19136127	19136127	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1030G>A	p.Asp344Asn	p.D344N	ENST00000601879	3/10	73	54	19	88	88	0	SUGP2,missense_variant,p.Asp344Asn,ENST00000452918,;SUGP2,missense_variant,p.Asp344Asn,ENST00000337018,;SUGP2,missense_variant,p.Asp344Asn,ENST00000601879,;SUGP2,missense_variant,p.Asp113Asn,ENST00000456085,;SUGP2,missense_variant,p.Asp358Asn,ENST00000600377,;SUGP2,downstream_gene_variant,,ENST00000594445,;SUGP2,downstream_gene_variant,,ENST00000598202,;SUGP2,missense_variant,p.Asp344Asn,ENST00000330854,;SUGP2,missense_variant,p.Asp344Asn,ENST00000594773,;SUGP2,missense_variant,p.Asp344Asn,ENST00000600239,;SUGP2,3_prime_UTR_variant,,ENST00000598240,;	T	ENSG00000064607	ENST00000601879	Transcript	missense_variant	1328	1030	344	D/N	Gat/Aat	.	.	.	-1	SUGP2	HGNC	18641	protein_coding	YES	CCDS12392.1	ENSP00000472286	SUGP2_HUMAN	M0R065_HUMAN	UPI000019825D	.	deleterious(0)	probably_damaging(1)	3/10	.	hmmpanther:PTHR23340:SF2,hmmpanther:PTHR23340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATCATCTT	.	5	BLCA
ZNF486	0	.	GRCh37	19	20308213	20308213	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694C>G	p.His232Asp	p.H232D	ENST00000335117	4/4	102	81	20	70	70	0	ZNF486,missense_variant,p.His232Asp,ENST00000335117,;CTC-260E6.6,intron_variant,,ENST00000586657,;CTC-260E6.6,intron_variant,,ENST00000593655,;CTC-260E6.6,intron_variant,,ENST00000585498,;	G	ENSG00000256229	ENST00000335117	Transcript	missense_variant	751	694	232	H/D	Cat/Gat	.	.	.	1	ZNF486	HGNC	20807	protein_coding	YES	CCDS46029.1	ENSP00000335042	ZN486_HUMAN	Q59FB0_HUMAN	UPI00002376E8	.	deleterious(0.02)	possibly_damaging(0.566)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF95,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACTCATACT	.	5	BLCA
ZNF738	0	.	GRCh37	19	21558738	21558738	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291G>A	p.%3D	p.K97K	ENST00000311015	4/5	67	47	20	77	77	0	ZNF738,synonymous_variant,p.%3D,ENST00000311015,;ZNF738,synonymous_variant,p.%3D,ENST00000380870,;ZNF738,synonymous_variant,p.%3D,ENST00000597810,;ZNF738,downstream_gene_variant,,ENST00000594245,;ZNF738,3_prime_UTR_variant,,ENST00000597492,;	A	ENSG00000172687	ENST00000311015	Transcript	synonymous_variant	502	291	97	K	aaG/aaA	.	.	.	1	ZNF738	HGNC	32469	protein_coding	YES	.	ENSP00000311957	ZN738_HUMAN	.	UPI000006D73F	.	.	.	4/5	.	hmmpanther:PTHR23232,hmmpanther:PTHR23232:SF45,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAAGAGACA	.	5	BLCA
ZNF99	0	.	GRCh37	19	22941482	22941482	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1229C>T	p.Ser410Leu	p.S410L	ENST00000596209	4/4	55	39	16	76	76	0	ZNF99,missense_variant,p.Ser319Leu,ENST00000397104,;ZNF99,missense_variant,p.Ser410Leu,ENST00000596209,;CTC-451A6.4,upstream_gene_variant,,ENST00000442497,;	A	ENSG00000213973	ENST00000596209	Transcript	missense_variant	1320	1229	410	S/L	tCa/tTa	.	.	.	-1	ZNF99	HGNC	13175	protein_coding	YES	CCDS59369.1	ENSP00000472969	.	M0R335_HUMAN	UPI0000426011	.	deleterious(0.01)	probably_damaging(0.999)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24375:SF102,hmmpanther:PTHR24375,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTGAGGAC	.	5	BLCA
ZNF724P	0	.	GRCh37	19	23405204	23405204	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1843G>A	p.Glu615Lys	p.E615K	ENST00000418100	4/4	20	17	3	24	24	0	ZNF724P,missense_variant,p.Glu615Lys,ENST00000418100,;ZNF724P,downstream_gene_variant,,ENST00000597537,;	T	ENSG00000196081	ENST00000418100	Transcript	missense_variant	1961	1843	615	E/K	Gaa/Aaa	.	.	.	-1	ZNF724P	HGNC	32460	protein_coding	YES	.	ENSP00000413411	ZN724_HUMAN	M0R3J2_HUMAN	UPI0000EE61E4	.	tolerated(0.07)	benign(0.409)	4/4	.	PROSITE_profiles:PS50157,Gene3D:3.30.160.60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTTCTACAG	.	2	BLCA
ZNF536	0	.	GRCh37	19	31038933	31038933	+	Missense_Mutation	SNP	C	C	T	rs140147461	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2407C>T	p.Arg803Trp	p.R803W	ENST00000355537	4/5	61	50	10	75	75	0	ZNF536,missense_variant,p.Arg803Trp,ENST00000585628,;ZNF536,missense_variant,p.Arg803Trp,ENST00000355537,;ZNF536,upstream_gene_variant,,ENST00000592773,;	T	ENSG00000198597	ENST00000355537	Transcript	missense_variant	2554	2407	803	R/W	Cgg/Tgg	rs140147461	.	.	1	ZNF536	HGNC	29025	protein_coding	YES	CCDS32984.1	ENSP00000347730	ZN536_HUMAN	K7EKT4_HUMAN,K7EJP8_HUMAN	UPI000006ED3E	.	deleterious(0)	probably_damaging(0.997)	4/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF5,Gene3D:3.30.160.60	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	T:0	T:0.0005	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATCGGGAG	byCluster|by1000G	5	BLCA
CHST8	0	.	GRCh37	19	34263621	34263621	+	Missense_Mutation	SNP	G	G	A	rs371114438	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.928G>A	p.Glu310Lys	p.E310K	ENST00000262622	4/4	40	34	6	60	60	0	CHST8,missense_variant,p.Glu310Lys,ENST00000438847,;CHST8,missense_variant,p.Glu310Lys,ENST00000262622,;CHST8,missense_variant,p.Glu310Lys,ENST00000434302,;CHST8,downstream_gene_variant,,ENST00000591231,;	A	ENSG00000124302	ENST00000262622	Transcript	missense_variant	1686	928	310	E/K	Gag/Aag	rs371114438	.	.	1	CHST8	HGNC	15993	protein_coding	YES	CCDS12433.1	ENSP00000262622	CHST8_HUMAN	K7ENM3_HUMAN	UPI000006F966	.	deleterious(0)	probably_damaging(0.999)	4/4	.	Pfam_domain:PF03567,hmmpanther:PTHR12137:SF7,hmmpanther:PTHR12137	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.F311F|c.933C>T|4	RADIA|MUTECT|MUSE|VARSCANS	TTCCCGAGTTC	byCluster	4	BLCA
ZNF302	0	.	GRCh37	19	35175908	35175908	+	Silent	SNP	C	C	T	rs774659582	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966C>T	p.%3D	p.F322F	ENST00000505242	5/5	38	28	9	69	68	0	ZNF302,synonymous_variant,p.%3D,ENST00000457781,;ZNF302,synonymous_variant,p.%3D,ENST00000423823,;ZNF302,synonymous_variant,p.%3D,ENST00000446502,;ZNF302,synonymous_variant,p.%3D,ENST00000505242,;ZNF302,3_prime_UTR_variant,,ENST00000505365,;ZNF302,downstream_gene_variant,,ENST00000506901,;ZNF302,downstream_gene_variant,,ENST00000505163,;ZNF302,downstream_gene_variant,,ENST00000507959,;ZNF302,downstream_gene_variant,,ENST00000509528,;ZNF302,downstream_gene_variant,,ENST00000502743,;ZNF302,non_coding_transcript_exon_variant,,ENST00000509196,;ZNF302,downstream_gene_variant,,ENST00000512455,;ZNF302,downstream_gene_variant,,ENST00000510002,;	T	ENSG00000089335	ENST00000505242	Transcript	synonymous_variant	1460	966	322	F	ttC/ttT	rs774659582	.	.	1	ZNF302	HGNC	13848	protein_coding	YES	CCDS46042.1	ENSP00000421028	ZN302_HUMAN	Q7Z4B9_HUMAN,D6RAM0_HUMAN	UPI0000001668	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF110,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCATTCA	byFrequency	5	BLCA
ZNF585A	0	.	GRCh37	19	37643204	37643204	+	Nonsense_Mutation	SNP	G	G	A	rs775555822	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1432C>T	p.Gln478Ter	p.Q478*	ENST00000292841	6/6	113	90	23	138	138	0	ZNF585A,stop_gained,p.Gln478Ter,ENST00000292841,;ZNF585A,stop_gained,p.Gln478Ter,ENST00000392157,;ZNF585A,stop_gained,p.Gln533Ter,ENST00000356958,;CTC-454I21.3,intron_variant,,ENST00000588873,;ZNF585A,intron_variant,,ENST00000355533,;ZNF585A,intron_variant,,ENST00000588723,;ZNF585A,intron_variant,,ENST00000587817,;CTC-454I21.3,downstream_gene_variant,,ENST00000590245,;	A	ENSG00000196967	ENST00000292841	Transcript	stop_gained	1930	1432	478	Q/*	Cag/Tag	rs775555822	.	.	-1	ZNF585A	HGNC	26305	protein_coding	YES	CCDS12499.1	ENSP00000292841	Z585A_HUMAN	.	UPI000007213F	.	.	.	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF105,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGAGTGA	.	5	BLCA
ZNF781	0	.	GRCh37	19	38159943	38159943	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*123C>G	.	.	ENST00000358582	4/4	17	12	5	22	22	0	ZNF781,3_prime_UTR_variant,,ENST00000590008,;ZNF781,3_prime_UTR_variant,,ENST00000358582,;ZFP30,intron_variant,,ENST00000587199,;ZFP30,intron_variant,,ENST00000589676,;ZFP30,intron_variant,,ENST00000586732,;ZNF781,downstream_gene_variant,,ENST00000593040,;	C	ENSG00000196381	ENST00000358582	Transcript	3_prime_UTR_variant	1856	.	.	.	.	.	.	.	-1	ZNF781	HGNC	26745	protein_coding	YES	CCDS12507.1	ENSP00000351391	ZN781_HUMAN	.	UPI0000351D6C	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTGATAGG	.	5	BLCA
ZNF607	0	.	GRCh37	19	38190635	38190635	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397C>G	p.Gln133Glu	p.Q133E	ENST00000355202	5/5	95	75	19	142	142	0	ZNF607,missense_variant,p.Gln132Glu,ENST00000395835,;ZNF607,missense_variant,p.Gln42Glu,ENST00000590670,;ZNF607,missense_variant,p.Gln133Glu,ENST00000355202,;ZNF607,downstream_gene_variant,,ENST00000591664,;ZNF607,3_prime_UTR_variant,,ENST00000586559,;CTD-2528L19.4,intron_variant,,ENST00000586606,;CTD-2528L19.4,intron_variant,,ENST00000585547,;CTD-2528L19.4,intron_variant,,ENST00000591114,;	C	ENSG00000198182	ENST00000355202	Transcript	missense_variant	993	397	133	Q/E	Caa/Gaa	.	.	.	-1	ZNF607	HGNC	28192	protein_coding	YES	CCDS33006.1	ENSP00000347338	ZN607_HUMAN	Q59G67_HUMAN,K7EN48_HUMAN	UPI000040BC07	.	tolerated(0.09)	benign(0.224)	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF249,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGATGTA	.	5	BLCA
ACTN4	0	.	GRCh37	19	39216366	39216366	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2013G>T	p.Glu671Asp	p.E671D	ENST00000252699	17/21	20	17	3	24	24	0	ACTN4,missense_variant,p.Glu452Asp,ENST00000390009,;ACTN4,missense_variant,p.Glu281Asp,ENST00000424234,;ACTN4,missense_variant,p.Glu107Asp,ENST00000440400,;ACTN4,missense_variant,p.Glu671Asp,ENST00000252699,;ACTN4,intron_variant,,ENST00000589528,;CAPN12,downstream_gene_variant,,ENST00000601953,;CAPN12,downstream_gene_variant,,ENST00000595177,;CAPN12,downstream_gene_variant,,ENST00000597987,;CAPN12,downstream_gene_variant,,ENST00000328867,;ACTN4,upstream_gene_variant,,ENST00000477174,;ACTN4,upstream_gene_variant,,ENST00000497637,;CAPN12,downstream_gene_variant,,ENST00000597716,;CAPN12,downstream_gene_variant,,ENST00000593700,;CAPN12,downstream_gene_variant,,ENST00000594552,;ACTN4,downstream_gene_variant,,ENST00000588618,;	T	ENSG00000130402	ENST00000252699	Transcript	missense_variant	2089	2013	671	E/D	gaG/gaT	.	.	.	1	ACTN4	HGNC	166	protein_coding	YES	CCDS12518.1	ENSP00000252699	ACTN4_HUMAN	Q96BG6_HUMAN	UPI0000125093	.	tolerated(0.15)	probably_damaging(0.971)	17/21	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF271,Gene3D:1.20.58.60,Pfam_domain:PF00435,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TAGGAGATCGG	.	2	BLCA
ZBTB7A	0	.	GRCh37	19	4048152	4048152	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1353C>T	p.%3D	p.Y451Y	ENST00000322357	3/3	56	47	9	61	61	0	ZBTB7A,synonymous_variant,p.%3D,ENST00000322357,;ZBTB7A,synonymous_variant,p.%3D,ENST00000601588,;AC016586.1,upstream_gene_variant,,ENST00000535853,;	A	ENSG00000178951	ENST00000322357	Transcript	synonymous_variant	1632	1353	451	Y	taC/taT	.	.	.	-1	ZBTB7A	HGNC	18078	protein_coding	YES	CCDS12119.1	ENSP00000323670	ZBT7A_HUMAN	.	UPI000006E9D9	.	.	.	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23229,hmmpanther:PTHR23229:SF69,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTCGTAGTT	.	5	BLCA
CYP2F1	0	.	GRCh37	19	41622169	41622169	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>C	p.Asp26His	p.D26H	ENST00000331105	2/10	131	105	25	160	159	0	CYP2F1,missense_variant,p.Asp26His,ENST00000331105,;CYP2F1,missense_variant,p.Asp26His,ENST00000532164,;CYP2F1,non_coding_transcript_exon_variant,,ENST00000531409,;CYP2F1,intron_variant,,ENST00000526093,;	C	ENSG00000197446	ENST00000331105	Transcript	missense_variant	148	76	26	D/H	Gat/Cat	.	.	.	1	CYP2F1	HGNC	2632	protein_coding	YES	CCDS12572.1	ENSP00000333534	CP2F1_HUMAN	.	UPI000013C622	.	tolerated(0.09)	benign(0.002)	2/10	.	hmmpanther:PTHR24300:SF15,hmmpanther:PTHR24300,Gene3D:1.10.630.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G28E|c.83G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGAGATAAG	.	5	BLCA
TMEM145	0	.	GRCh37	19	42819223	42819223	+	Missense_Mutation	SNP	G	G	C	rs184060663	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499G>C	p.Glu167Gln	p.E167Q	ENST00000301204	6/15	47	37	9	56	56	0	TMEM145,missense_variant,p.Glu191Gln,ENST00000598766,;TMEM145,missense_variant,p.Glu167Gln,ENST00000301204,;PRR19,downstream_gene_variant,,ENST00000341747,;PRR19,downstream_gene_variant,,ENST00000595750,;PRR19,downstream_gene_variant,,ENST00000499536,;PRR19,downstream_gene_variant,,ENST00000598490,;TMEM145,downstream_gene_variant,,ENST00000601020,;TMEM145,downstream_gene_variant,,ENST00000595775,;	C	ENSG00000167619	ENST00000301204	Transcript	missense_variant	540	499	167	E/Q	Gag/Cag	rs184060663	.	.	1	TMEM145	HGNC	26912	protein_coding	YES	CCDS12603.1	ENSP00000301204	TM145_HUMAN	.	UPI000013E6E6	.	tolerated(0.09)	possibly_damaging(0.751)	6/15	.	hmmpanther:PTHR23252,hmmpanther:PTHR23252:SF24,Pfam_domain:PF10192	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGATGAGTTT	byCluster|by1000G	5	BLCA
MEGF8	0	.	GRCh37	19	42865107	42865107	+	Missense_Mutation	SNP	G	G	C	rs772567593	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5468G>C	p.Gly1823Ala	p.G1823A	ENST00000334370	31/41	42	35	7	66	66	0	MEGF8,missense_variant,p.Gly1823Ala,ENST00000334370,;MEGF8,missense_variant,p.Gly1890Ala,ENST00000251268,;MEGF8,upstream_gene_variant,,ENST00000598762,;	C	ENSG00000105429	ENST00000334370	Transcript	missense_variant	6103	5468	1823	G/A	gGg/gCg	rs772567593	.	.	1	MEGF8	HGNC	3233	protein_coding	YES	CCDS12604.2	ENSP00000334219	MEGF8_HUMAN	.	UPI00003CF1A7	.	tolerated(0.3)	benign(0.016)	31/41	.	hmmpanther:PTHR10574:SF241,hmmpanther:PTHR10574,SMART_domains:SM00423,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTGGGGCCT	.	5	BLCA
ZNF404	0	.	GRCh37	19	44377300	44377300	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066G>C	p.Asp356His	p.D356H	ENST00000587539	3/3	36	27	9	64	64	0	ZNF404,missense_variant,p.Asp354His,ENST00000324394,;ZNF404,missense_variant,p.Asp356His,ENST00000587539,;	G	ENSG00000176222	ENST00000587539	Transcript	missense_variant	1066	1066	356	D/H	Gat/Cat	.	.	.	-1	ZNF404	HGNC	19417	protein_coding	YES	CCDS59394.1	ENSP00000466051	.	Q86WM5_HUMAN,K7ELF2_HUMAN	UPI00001D8172	.	deleterious(0)	possibly_damaging(0.468)	3/3	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF53,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAATCATAGA	.	5	BLCA
ZNF224	0	.	GRCh37	19	44610825	44610825	+	Missense_Mutation	SNP	C	C	T	rs767394305	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.512C>T	p.Ser171Leu	p.S171L	ENST00000336976	6/6	101	81	20	147	147	0	ZNF224,missense_variant,p.Ser171Leu,ENST00000336976,;ZNF224,downstream_gene_variant,,ENST00000591511,;AC084219.4,non_coding_transcript_exon_variant,,ENST00000592946,;ZNF224,non_coding_transcript_exon_variant,,ENST00000591551,;	T	ENSG00000267680	ENST00000336976	Transcript	missense_variant	766	512	171	S/L	tCa/tTa	rs767394305	.	.	1	ZNF224	HGNC	13017	protein_coding	YES	CCDS33046.1	ENSP00000337368	ZN224_HUMAN	Q9HCA8_HUMAN,K7ENI7_HUMAN,K7EL24_HUMAN,K7EJ30_HUMAN	UPI00002025B3	.	tolerated(0.32)	possibly_damaging(0.881)	6/6	.	hmmpanther:PTHR24377:SF254,hmmpanther:PTHR24377,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTCAGGAG	.	5	BLCA
ZNF112	0	.	GRCh37	19	44832328	44832328	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2000G>C	p.Cys667Ser	p.C667S	ENST00000337401	5/5	84	77	6	131	131	0	ZNF112,missense_variant,p.Cys684Ser,ENST00000536500,;ZNF112,missense_variant,p.Cys667Ser,ENST00000337401,;ZNF112,missense_variant,p.Cys661Ser,ENST00000354340,;ZNF112,downstream_gene_variant,,ENST00000587909,;CTC-512J12.6,downstream_gene_variant,,ENST00000588212,;ZNF112,downstream_gene_variant,,ENST00000590687,;ZNF112,downstream_gene_variant,,ENST00000588057,;ZNF112,downstream_gene_variant,,ENST00000592151,;	G	ENSG00000062370	ENST00000337401	Transcript	missense_variant	2089	2000	667	C/S	tGt/tCt	.	.	.	-1	ZNF112	HGNC	12892	protein_coding	YES	CCDS54276.1	ENSP00000337081	ZN112_HUMAN	Q9UFH1_HUMAN,K7ENS0_HUMAN,K7EN57_HUMAN	UPI000006EC70	.	deleterious(0)	probably_damaging(1)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF1,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCACATTTA	.	2	BLCA
RSPH6A	0	.	GRCh37	19	46303817	46303817	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1803C>T	p.%3D	p.I601I	ENST00000221538	5/6	19	11	8	31	30	0	RSPH6A,synonymous_variant,p.%3D,ENST00000600188,;RSPH6A,synonymous_variant,p.%3D,ENST00000597055,;RSPH6A,synonymous_variant,p.%3D,ENST00000221538,;	A	ENSG00000104941	ENST00000221538	Transcript	synonymous_variant	1946	1803	601	I	atC/atT	.	.	.	-1	RSPH6A	HGNC	14241	protein_coding	YES	CCDS12675.1	ENSP00000221538	RSH6A_HUMAN	M0R103_HUMAN	UPI0000037C58	.	.	.	5/6	.	hmmpanther:PTHR13159,hmmpanther:PTHR13159:SF1,Pfam_domain:PF04712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCATGATTTC	.	5	BLCA
NOVA2	0	.	GRCh37	19	46443157	46443157	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1443G>C	p.Gln481His	p.Q481H	ENST00000263257	4/4	34	25	8	62	62	0	NOVA2,missense_variant,p.Gln481His,ENST00000263257,;NOVA2,downstream_gene_variant,,ENST00000596784,;	G	ENSG00000104967	ENST00000263257	Transcript	missense_variant	1638	1443	481	Q/H	caG/caC	.	.	.	-1	NOVA2	HGNC	7887	protein_coding	YES	CCDS12679.1	ENSP00000263257	NOVA2_HUMAN	Q9HDB7_HUMAN,M0R1A0_HUMAN	UPI000006EBE8	.	deleterious(0)	probably_damaging(0.912)	4/4	.	hmmpanther:PTHR10288,hmmpanther:PTHR10288:SF141,Gene3D:3.30.1370.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCCCTGCTC	.	5	BLCA
PGLYRP1	0	.	GRCh37	19	46522604	46522604	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483G>A	p.%3D	p.L161L	ENST00000008938	3/3	19	15	4	36	36	0	PGLYRP1,synonymous_variant,p.%3D,ENST00000008938,;CCDC61,downstream_gene_variant,,ENST00000536603,;CCDC61,downstream_gene_variant,,ENST00000594087,;CCDC61,downstream_gene_variant,,ENST00000263284,;CCDC61,downstream_gene_variant,,ENST00000595358,;MIR769,downstream_gene_variant,,ENST00000390225,;CCDC61,intron_variant,,ENST00000601763,;CCDC61,downstream_gene_variant,,ENST00000596687,;CCDC61,downstream_gene_variant,,ENST00000599044,;	T	ENSG00000008438	ENST00000008938	Transcript	synonymous_variant	527	483	161	L	ctG/ctA	.	.	.	-1	PGLYRP1	HGNC	8904	protein_coding	YES	CCDS12680.1	ENSP00000008938	PGRP1_HUMAN	.	UPI0000131870	.	.	.	3/3	.	Superfamily_domains:SSF55846,SMART_domains:SM00701,PIRSF_domain:PIRSF037945,SMART_domains:SM00644,Pfam_domain:PF01510,Gene3D:3.40.80.10,hmmpanther:PTHR11022:SF32,hmmpanther:PTHR11022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTCAGGGC	.	5	BLCA
NUCB1	0	.	GRCh37	19	49422373	49422373	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903G>A	p.Met301Ile	p.M301I	ENST00000405315	9/13	21	15	6	24	24	0	NUCB1,missense_variant,p.Met301Ile,ENST00000263273,;NUCB1,missense_variant,p.Met301Ile,ENST00000405315,;NUCB1,missense_variant,p.Met301Ile,ENST00000407032,;NUCB1,missense_variant,p.Met271Ile,ENST00000424608,;NUCB1,downstream_gene_variant,,ENST00000452087,;NUCB1-AS1,upstream_gene_variant,,ENST00000416432,;NUCB1,intron_variant,,ENST00000485798,;NUCB1,non_coding_transcript_exon_variant,,ENST00000460125,;NUCB1,non_coding_transcript_exon_variant,,ENST00000492367,;NUCB1,non_coding_transcript_exon_variant,,ENST00000469291,;NUCB1,non_coding_transcript_exon_variant,,ENST00000465524,;	A	ENSG00000104805	ENST00000405315	Transcript	missense_variant	1237	903	301	M/I	atG/atA	.	.	.	1	NUCB1	HGNC	8043	protein_coding	YES	CCDS12740.1	ENSP00000385923	NUCB1_HUMAN	Q96BA4_HUMAN,C9JBD3_HUMAN,C9J3C1_HUMAN,B4DZX0_HUMAN,B3KUR6_HUMAN	UPI0000161F57	.	deleterious(0.03)	benign(0.085)	9/13	.	PROSITE_profiles:PS50222,hmmpanther:PTHR19237:SF21,hmmpanther:PTHR19237,Gene3D:1.10.238.10,Pfam_domain:PF13499,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGATGAAGAA	.	5	BLCA
NUCB1	0	.	GRCh37	19	49422541	49422541	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1000G>A	p.Glu334Lys	p.E334K	ENST00000405315	10/13	22	14	8	66	66	0	NUCB1,missense_variant,p.Glu334Lys,ENST00000263273,;NUCB1,missense_variant,p.Glu334Lys,ENST00000405315,;NUCB1,missense_variant,p.Glu334Lys,ENST00000407032,;NUCB1,downstream_gene_variant,,ENST00000452087,;NUCB1,downstream_gene_variant,,ENST00000424608,;NUCB1-AS1,upstream_gene_variant,,ENST00000416432,;NUCB1,intron_variant,,ENST00000485798,;NUCB1,splice_region_variant,,ENST00000492367,;NUCB1,splice_region_variant,,ENST00000469291,;NUCB1,splice_region_variant,,ENST00000465524,;NUCB1,downstream_gene_variant,,ENST00000460125,;	A	ENSG00000104805	ENST00000405315	Transcript	missense_variant	1334	1000	334	E/K	Gag/Aag	.	.	.	1	NUCB1	HGNC	8043	protein_coding	YES	CCDS12740.1	ENSP00000385923	NUCB1_HUMAN	Q96BA4_HUMAN,C9JBD3_HUMAN,C9J3C1_HUMAN,B4DZX0_HUMAN,B3KUR6_HUMAN	UPI0000161F57	.	tolerated(0.18)	benign(0.006)	10/13	.	hmmpanther:PTHR19237:SF21,hmmpanther:PTHR19237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGGGAGGTG	.	5	BLCA
HRC	0	.	GRCh37	19	49658529	49658529	+	5'UTR	SNP	C	C	G	rs778775506	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-35G>C	.	.	ENST00000252825	1/6	18	14	4	21	21	0	HRC,5_prime_UTR_variant,,ENST00000252825,;TRPM4,upstream_gene_variant,,ENST00000598691,;PPFIA3,downstream_gene_variant,,ENST00000334186,;HRC,upstream_gene_variant,,ENST00000595625,;PPFIA3,downstream_gene_variant,,ENST00000602897,;TRPM4,upstream_gene_variant,,ENST00000355712,;HRC,upstream_gene_variant,,ENST00000598858,;TRPM4,upstream_gene_variant,,ENST00000427978,;PPFIA3,downstream_gene_variant,,ENST00000602351,;TRPM4,upstream_gene_variant,,ENST00000252826,;PPFIA3,downstream_gene_variant,,ENST00000602848,;PPFIA3,downstream_gene_variant,,ENST00000602783,;TRPM4,upstream_gene_variant,,ENST00000598502,;TRPM4,upstream_gene_variant,,ENST00000598697,;TRPM4,upstream_gene_variant,,ENST00000599628,;TRPM4,upstream_gene_variant,,ENST00000595519,;TRPM4,upstream_gene_variant,,ENST00000596338,;PPFIA3,downstream_gene_variant,,ENST00000602655,;PPFIA3,downstream_gene_variant,,ENST00000602905,;HRC,upstream_gene_variant,,ENST00000595167,;	G	ENSG00000130528	ENST00000252825	Transcript	5_prime_UTR_variant	153	.	.	.	.	rs778775506	.	.	-1	HRC	HGNC	5178	protein_coding	YES	CCDS12759.1	ENSP00000252825	SRCH_HUMAN	.	UPI0000135F21	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTCTGCGG	.	4	BLCA
KLK6	0	.	GRCh37	19	51462293	51462293	+	3'UTR	SNP	C	C	G	rs371900034	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*127G>C	.	.	ENST00000376851	6/6	17	14	3	22	22	0	KLK6,3_prime_UTR_variant,,ENST00000310157,;KLK6,3_prime_UTR_variant,,ENST00000376851,;KLK6,3_prime_UTR_variant,,ENST00000391808,;KLK6,downstream_gene_variant,,ENST00000456750,;KLK6,downstream_gene_variant,,ENST00000424910,;KLK6,downstream_gene_variant,,ENST00000594641,;KLK6,downstream_gene_variant,,ENST00000376853,;CTB-147C22.8,intron_variant,,ENST00000601506,;CTB-147C22.8,downstream_gene_variant,,ENST00000594939,;KLK6,3_prime_UTR_variant,,ENST00000597379,;KLK6,downstream_gene_variant,,ENST00000599690,;KLK6,downstream_gene_variant,,ENST00000599881,;	G	ENSG00000167755	ENST00000376851	Transcript	3_prime_UTR_variant	1302	.	.	.	.	rs371900034	.	.	-1	KLK6	HGNC	6367	protein_coding	YES	CCDS12811.1	ENSP00000366047	KLK6_HUMAN	.	UPI000004CA06	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACGTCGCTGC	.	2	BLCA
KLK10	0	.	GRCh37	19	51520466	51520466	+	Nonsense_Mutation	SNP	G	G	A	rs760434630	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169C>T	p.Gln57Ter	p.Q57*	ENST00000309958	3/6	10	6	4	15	15	0	KLK10,stop_gained,p.Gln57Ter,ENST00000391805,;KLK10,stop_gained,p.Gln57Ter,ENST00000599077,;KLK10,stop_gained,p.Gln57Ter,ENST00000309958,;KLK10,stop_gained,p.Gln57Ter,ENST00000358789,;CTC-518B2.12,downstream_gene_variant,,ENST00000596286,;KLK10,5_prime_UTR_variant,,ENST00000601467,;KLK10,non_coding_transcript_exon_variant,,ENST00000599987,;	A	ENSG00000129451	ENST00000309958	Transcript	stop_gained	388	169	57	Q/*	Cag/Tag	rs760434630	.	.	-1	KLK10	HGNC	6358	protein_coding	YES	CCDS12817.1	ENSP00000311746	KLK10_HUMAN	M0R132_HUMAN	UPI000013CCB0	.	.	.	3/6	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24265,hmmpanther:PTHR24265:SF36,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGCTGCGAGC	byFrequency	3	BLCA
IGLON5	0	.	GRCh37	19	51827016	51827016	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259C>G	p.Leu87Val	p.L87V	ENST00000270642	3/8	36	29	7	66	66	0	IGLON5,missense_variant,p.Leu87Val,ENST00000270642,;	G	ENSG00000142549	ENST00000270642	Transcript	missense_variant	259	259	87	L/V	Ctg/Gtg	.	.	.	1	IGLON5	HGNC	34550	protein_coding	YES	CCDS46158.1	ENSP00000270642	IGLO5_HUMAN	.	UPI000058F1A8	.	deleterious(0)	probably_damaging(0.967)	3/8	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19831:SF9,hmmpanther:PTHR19831,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCGGCTGCTC	.	5	BLCA
PTPRS	0	.	GRCh37	19	5244386	5244386	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1096G>A	p.Glu366Lys	p.E366K	ENST00000357368	11/38	54	38	15	72	72	0	PTPRS,missense_variant,p.Glu353Lys,ENST00000353284,;PTPRS,missense_variant,p.Glu366Lys,ENST00000587303,;PTPRS,missense_variant,p.Glu367Lys,ENST00000372412,;PTPRS,missense_variant,p.Glu353Lys,ENST00000588012,;PTPRS,missense_variant,p.Glu362Lys,ENST00000262963,;PTPRS,missense_variant,p.Glu366Lys,ENST00000357368,;PTPRS,missense_variant,p.Glu353Lys,ENST00000592099,;PTPRS,missense_variant,p.Glu353Lys,ENST00000348075,;PTPRS,non_coding_transcript_exon_variant,,ENST00000588552,;	T	ENSG00000105426	ENST00000357368	Transcript	missense_variant	1330	1096	366	E/K	Gaa/Aaa	.	.	.	-1	PTPRS	HGNC	9681	protein_coding	YES	CCDS45930.1	ENSP00000349932	PTPRS_HUMAN	K7ESP0_HUMAN,K7ERX4_HUMAN	UPI000059D63E	.	tolerated(0.09)	possibly_damaging(0.746)	11/38	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR19134:SF204,hmmpanther:PTHR19134,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATATTCGATGA	.	5	BLCA
ZNF611	0	.	GRCh37	19	53209544	53209544	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.764G>C	p.Gly255Ala	p.G255A	ENST00000543227	6/6	142	109	33	156	156	0	ZNF611,missense_variant,p.Gly186Ala,ENST00000453741,;ZNF611,missense_variant,p.Gly255Ala,ENST00000543227,;ZNF611,missense_variant,p.Gly255Ala,ENST00000319783,;ZNF611,missense_variant,p.Gly186Ala,ENST00000595798,;ZNF611,missense_variant,p.Gly186Ala,ENST00000602162,;ZNF611,missense_variant,p.Gly255Ala,ENST00000540744,;ZNF611,downstream_gene_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000600943,;ZNF611,downstream_gene_variant,,ENST00000601643,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,downstream_gene_variant,,ENST00000597343,;ZNF611,downstream_gene_variant,,ENST00000598639,;ZNF611,downstream_gene_variant,,ENST00000598723,;	G	ENSG00000213020	ENST00000543227	Transcript	missense_variant	1039	764	255	G/A	gGa/gCa	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	tolerated(0.07)	benign(0.313)	6/6	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P252L|c.755C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCCTAAA	.	5	BLCA
CNOT3	0	.	GRCh37	19	54656052	54656052	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1695G>A	p.%3D	p.L565L	ENST00000406403	13/17	39	29	10	64	64	0	CNOT3,synonymous_variant,p.%3D,ENST00000457463,;CNOT3,synonymous_variant,p.%3D,ENST00000358389,;CNOT3,synonymous_variant,p.%3D,ENST00000406403,;CNOT3,synonymous_variant,p.%3D,ENST00000221232,;LENG1,downstream_gene_variant,,ENST00000222224,;CNOT3,downstream_gene_variant,,ENST00000440571,;CNOT3,upstream_gene_variant,,ENST00000471126,;CNOT3,non_coding_transcript_exon_variant,,ENST00000496327,;CNOT3,3_prime_UTR_variant,,ENST00000447684,;CNOT3,non_coding_transcript_exon_variant,,ENST00000482247,;CNOT3,upstream_gene_variant,,ENST00000489953,;	A	ENSG00000088038	ENST00000406403	Transcript	synonymous_variant	3298	1695	565	L	ctG/ctA	COSM4081195,COSM4081196	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	.	.	13/17	.	PIRSF_domain:PIRSF005290,hmmpanther:PTHR23326,hmmpanther:PTHR23326:SF1	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTGACCGA	.	5	BLCA
CNOT3	0	.	GRCh37	19	54657241	54657241	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2038-211G>A	.	.	ENST00000406403	.	44	34	10	53	52	0	CNOT3,stop_retained_variant,p.%3D,ENST00000358389,;CNOT3,intron_variant,,ENST00000457463,;CNOT3,intron_variant,,ENST00000406403,;CNOT3,intron_variant,,ENST00000221232,;LENG1,downstream_gene_variant,,ENST00000222224,;CNOT3,downstream_gene_variant,,ENST00000440571,;CNOT3,upstream_gene_variant,,ENST00000471126,;CNOT3,non_coding_transcript_exon_variant,,ENST00000496327,;CNOT3,3_prime_UTR_variant,,ENST00000447684,;CNOT3,intron_variant,,ENST00000482247,;CNOT3,intron_variant,,ENST00000489953,;	A	ENSG00000088038	ENST00000406403	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	.	.	.	15/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGAAAGC	.	5	BLCA
KIR3DX1	0	.	GRCh37	19	55046962	55046962	+	Missense_Mutation	SNP	G	G	A	rs766613914	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507G>A	p.Met169Ile	p.M169I	ENST00000221567	4/9	36	29	7	63	63	0	KIR3DX1,missense_variant,p.Met169Ile,ENST00000335056,;KIR3DX1,non_coding_transcript_exon_variant,,ENST00000482404,;KIR3DX1,missense_variant,p.Met169Ile,ENST00000221567,;KIR3DX1,intron_variant,,ENST00000465702,;KIR3DX1,intron_variant,,ENST00000446586,;KIR3DX1,intron_variant,,ENST00000471931,;KIR3DX1,intron_variant,,ENST00000434659,;KIR3DX1,intron_variant,,ENST00000447145,;	A	ENSG00000104970	ENST00000221567	Transcript	missense_variant	514	507	169	M/I	atG/atA	rs766613914	.	.	1	KIR3DX1	HGNC	25043	nonsense_mediated_decay	YES	.	ENSP00000221567	KI3X1_HUMAN	.	UPI0000DE238B	.	tolerated(0.43)	benign(0.031)	4/9	.	hmmpanther:PTHR11738:SF91,hmmpanther:PTHR11738,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGATGGAGGC	.	3	BLCA
KIR3DX1	0	.	GRCh37	19	55046971	55046971	+	Silent	SNP	G	G	A	rs376601560	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>A	p.%3D	p.G172G	ENST00000221567	4/9	38	31	7	66	66	0	KIR3DX1,synonymous_variant,p.%3D,ENST00000335056,;KIR3DX1,non_coding_transcript_exon_variant,,ENST00000482404,;KIR3DX1,synonymous_variant,p.%3D,ENST00000221567,;KIR3DX1,intron_variant,,ENST00000465702,;KIR3DX1,intron_variant,,ENST00000446586,;KIR3DX1,intron_variant,,ENST00000471931,;KIR3DX1,intron_variant,,ENST00000434659,;KIR3DX1,intron_variant,,ENST00000447145,;	A	ENSG00000104970	ENST00000221567	Transcript	synonymous_variant	523	516	172	G	ggG/ggA	rs376601560	.	.	1	KIR3DX1	HGNC	25043	nonsense_mediated_decay	YES	.	ENSP00000221567	KI3X1_HUMAN	.	UPI0000DE238B	.	.	.	4/9	.	hmmpanther:PTHR11738:SF91,hmmpanther:PTHR11738,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTGGGATCCA	.	3	BLCA
LILRA2	0	.	GRCh37	19	55087518	55087518	+	Silent	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1197C>G	p.%3D	p.L399L	ENST00000251377	7/9	89	70	19	108	108	0	LILRA2,synonymous_variant,p.%3D,ENST00000251376,;LILRA2,synonymous_variant,p.%3D,ENST00000391738,;LILRA2,synonymous_variant,p.%3D,ENST00000391737,;LILRA2,synonymous_variant,p.%3D,ENST00000251377,;LILRB1,intron_variant,,ENST00000418536,;LILRB1,intron_variant,,ENST00000448689,;LILRB1,intron_variant,,ENST00000396321,;LILRA2,downstream_gene_variant,,ENST00000439534,;LILRA2,upstream_gene_variant,,ENST00000472992,;LILRA2,downstream_gene_variant,,ENST00000495786,;	G	ENSG00000239998	ENST00000251377	Transcript	synonymous_variant	1330	1197	399	L	ctC/ctG	COSM1481493	.	.	1	LILRA2	HGNC	6603	protein_coding	YES	CCDS46179.1	ENSP00000251377	LIRA2_HUMAN	E9PDF4_HUMAN	UPI0000034C01	.	.	.	7/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11738:SF90,hmmpanther:PTHR11738,Gene3D:2.60.40.10,PIRSF_domain:PIRSF001979,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCAGCTC	.	5	BLCA
PPP6R1	0	.	GRCh37	19	55758297	55758297	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>A	p.Ala59Thr	p.A59T	ENST00000412770	2/24	23	11	12	33	32	1	PPP6R1,missense_variant,p.Ala59Thr,ENST00000412770,;PPP6R1,missense_variant,p.Ala59Thr,ENST00000592242,;PPP6R1,missense_variant,p.Ala59Thr,ENST00000587283,;PPP6R1,upstream_gene_variant,,ENST00000591602,;PPP6R1,upstream_gene_variant,,ENST00000591323,;	T	ENSG00000105063	ENST00000412770	Transcript	missense_variant	742	175	59	A/T	Gcc/Acc	.	.	.	-1	PPP6R1	HGNC	29195	protein_coding	YES	CCDS46186.1	ENSP00000414202	PP6R1_HUMAN	Q96ID3_HUMAN,K7EM28_HUMAN	UPI0000202C6D	.	tolerated(0.45)	benign(0.012)	2/24	.	hmmpanther:PTHR12634:SF13,hmmpanther:PTHR12634	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGGCCACCA	.	2	BLCA
ZNF582	0	.	GRCh37	19	56896385	56896385	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401A>G	p.Asn134Ser	p.N134S	ENST00000301310	5/5	108	85	22	140	140	0	ZNF582,missense_variant,p.Asn134Ser,ENST00000586929,;ZNF582,missense_variant,p.Asn134Ser,ENST00000301310,;ZNF582,intron_variant,,ENST00000589143,;ZNF582,downstream_gene_variant,,ENST00000589895,;AC006116.12,upstream_gene_variant,,ENST00000589671,;ZNF582,missense_variant,p.Asn134Ser,ENST00000593145,;ZNF582,missense_variant,p.Asn134Ser,ENST00000587778,;SLC25A36P1,upstream_gene_variant,,ENST00000590111,;	C	ENSG00000018869	ENST00000301310	Transcript	missense_variant	560	401	134	N/S	aAt/aGt	.	.	.	-1	ZNF582	HGNC	26421	protein_coding	YES	CCDS33121.1	ENSP00000301310	ZN582_HUMAN	B4DQZ9_HUMAN	UPI000006D278	.	tolerated(0.34)	benign(0.002)	5/5	.	hmmpanther:PTHR24381:SF115,hmmpanther:PTHR24381	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGATTTCCC	.	5	BLCA
LONP1	0	.	GRCh37	19	5696173	5696173	+	Missense_Mutation	SNP	G	G	C	rs746046624	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1905C>G	p.Phe635Leu	p.F635L	ENST00000360614	13/18	38	28	10	56	56	0	LONP1,missense_variant,p.Phe505Leu,ENST00000590729,;LONP1,missense_variant,p.Phe635Leu,ENST00000360614,;LONP1,missense_variant,p.Phe571Leu,ENST00000593119,;LONP1,missense_variant,p.Phe439Leu,ENST00000540670,;LONP1,missense_variant,p.Phe521Leu,ENST00000585374,;RPL36,downstream_gene_variant,,ENST00000577222,;RPL36,downstream_gene_variant,,ENST00000579649,;LONP1,downstream_gene_variant,,ENST00000590206,;LONP1,upstream_gene_variant,,ENST00000589473,;RPL36,downstream_gene_variant,,ENST00000347512,;RPL36,downstream_gene_variant,,ENST00000579446,;RPL36,downstream_gene_variant,,ENST00000394580,;LONP1,downstream_gene_variant,,ENST00000587365,;LONP1,3_prime_UTR_variant,,ENST00000590558,;LONP1,non_coding_transcript_exon_variant,,ENST00000587552,;LONP1,downstream_gene_variant,,ENST00000588589,;RPL36,downstream_gene_variant,,ENST00000590786,;	C	ENSG00000196365	ENST00000360614	Transcript	missense_variant	2063	1905	635	F/L	ttC/ttG	rs746046624	.	.	-1	LONP1	HGNC	9479	protein_coding	YES	CCDS12148.1	ENSP00000353826	LONM_HUMAN	K7EKE6_HUMAN,F5GZ27_HUMAN	UPI000012E7EF	.	deleterious(0)	probably_damaging(0.986)	13/18	.	HAMAP:MF_03120,hmmpanther:PTHR10046:SF23,hmmpanther:PTHR10046,Pfam_domain:PF00004,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00763,PIRSF_domain:PIRSF001174,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATGAACAG	.	5	BLCA
PEG3	0	.	GRCh37	19	57327067	57327067	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2743G>A	p.Glu915Lys	p.E915K	ENST00000326441	10/10	82	70	12	126	126	0	PEG3,missense_variant,p.Glu915Lys,ENST00000423103,;PEG3,missense_variant,p.Glu915Lys,ENST00000599577,;PEG3,missense_variant,p.Glu915Lys,ENST00000599534,;PEG3,missense_variant,p.Glu791Lys,ENST00000598410,;PEG3,missense_variant,p.Glu915Lys,ENST00000326441,;PEG3,missense_variant,p.Glu789Lys,ENST00000593695,;ZIM2,intron_variant,,ENST00000221722,;ZIM2,intron_variant,,ENST00000601070,;ZIM2,intron_variant,,ENST00000593711,;ZIM2,intron_variant,,ENST00000599935,;ZIM2,intron_variant,,ENST00000391708,;PEG3,downstream_gene_variant,,ENST00000600833,;PEG3,upstream_gene_variant,,ENST00000599565,;ZIM2,intron_variant,,ENST00000597281,;ZIM2,intron_variant,,ENST00000595671,;	T	ENSG00000198300	ENST00000326441	Transcript	missense_variant	3107	2743	915	E/K	Gag/Aag	.	.	.	-1	PEG3	HGNC	8826	protein_coding	YES	CCDS12948.1	ENSP00000326581	PEG3_HUMAN	M0QXG1_HUMAN	UPI000006D36D	.	deleterious(0.04)	benign(0.173)	10/10	.	hmmpanther:PTHR10032,hmmpanther:PTHR10032:SF78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACTCACCAG	.	4	BLCA
ZIM3	0	.	GRCh37	19	57646468	57646468	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237C>T	p.His413Tyr	p.H413Y	ENST00000269834	5/5	152	124	28	199	199	0	ZIM3,missense_variant,p.His413Tyr,ENST00000269834,;USP29,downstream_gene_variant,,ENST00000598197,;USP29,downstream_gene_variant,,ENST00000254181,;U3,upstream_gene_variant,,ENST00000516874,;	A	ENSG00000141946	ENST00000269834	Transcript	missense_variant	1623	1237	413	H/Y	Cat/Tat	.	.	.	-1	ZIM3	HGNC	16366	protein_coding	YES	CCDS33125.1	ENSP00000269834	ZIM3_HUMAN	.	UPI000013C3E0	.	deleterious(0)	probably_damaging(0.99)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF30,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATGAGTTT	.	5	BLCA
DUXA	0	.	GRCh37	19	57669783	57669783	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351C>T	p.%3D	p.I117I	ENST00000554048	4/6	65	54	11	84	84	0	DUXA,synonymous_variant,p.%3D,ENST00000554048,;	A	ENSG00000258873	ENST00000554048	Transcript	synonymous_variant	351	351	117	I	atC/atT	.	.	.	-1	DUXA	HGNC	32179	protein_coding	YES	CCDS33126.1	ENSP00000452398	DUXA_HUMAN	.	UPI0000198B7E	.	.	.	4/6	.	Superfamily_domains:SSF46689,SMART_domains:SM00389,Gene3D:1.10.10.60,Pfam_domain:PF00046,hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF312,PROSITE_profiles:PS50071	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTGATGAG	.	5	BLCA
ZNF274	0	.	GRCh37	19	58724514	58724514	+	3'UTR	SNP	C	C	G	rs777440572	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5C>G	.	.	ENST00000326804	9/9	29	26	3	32	32	0	ZNF274,3_prime_UTR_variant,,ENST00000424679,;ZNF274,3_prime_UTR_variant,,ENST00000345813,;ZNF274,3_prime_UTR_variant,,ENST00000326804,;ZNF274,non_coding_transcript_exon_variant,,ENST00000599438,;ZNF274,non_coding_transcript_exon_variant,,ENST00000597818,;ZNF274,non_coding_transcript_exon_variant,,ENST00000595146,;ZNF274,downstream_gene_variant,,ENST00000599081,;ZNF274,downstream_gene_variant,,ENST00000598143,;ZNF274,downstream_gene_variant,,ENST00000601156,;RPS15AP36,upstream_gene_variant,,ENST00000492022,;	G	ENSG00000171606	ENST00000326804	Transcript	3_prime_UTR_variant	2423	.	.	.	.	rs777440572	.	.	1	ZNF274	HGNC	13068	protein_coding	YES	.	ENSP00000321209	ZN274_HUMAN	M0QY30_HUMAN,M0QXW4_HUMAN	UPI000013D855	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTCAAGCC	byFrequency	4	BLCA
ZNF132	0	.	GRCh37	19	58944738	58944738	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2073C>G	p.%3D	p.L691L	ENST00000254166	3/3	79	67	12	121	120	0	ZNF132,synonymous_variant,p.%3D,ENST00000254166,;CTD-2619J13.17,upstream_gene_variant,,ENST00000594816,;ZNF132,non_coding_transcript_exon_variant,,ENST00000599148,;	C	ENSG00000131849	ENST00000254166	Transcript	synonymous_variant	2474	2073	691	L	ctC/ctG	.	.	.	-1	ZNF132	HGNC	12916	protein_coding	YES	CCDS12980.1	ENSP00000254166	ZN132_HUMAN	.	UPI0000366EAB	.	.	.	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF219,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGAAGAGTTT	.	5	BLCA
EMR1	0	.	GRCh37	19	6924748	6924748	+	Silent	SNP	C	C	G	rs770567929	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1851C>G	p.%3D	p.L617L	ENST00000312053	15/21	35	30	5	41	41	0	EMR1,synonymous_variant,p.%3D,ENST00000381404,;EMR1,synonymous_variant,p.%3D,ENST00000381407,;EMR1,synonymous_variant,p.%3D,ENST00000450315,;EMR1,synonymous_variant,p.%3D,ENST00000312053,;EMR1,intron_variant,,ENST00000250572,;	G	ENSG00000174837	ENST00000312053	Transcript	synonymous_variant	1888	1851	617	L	ctC/ctG	rs770567929,COSM3541148	.	.	1	EMR1	HGNC	3336	protein_coding	YES	CCDS12175.1	ENSP00000311545	EMR1_HUMAN	.	UPI0000203241	.	.	.	15/21	.	Prints_domain:PR00249,Superfamily_domains:SSF81321,Pfam_domain:PF00002,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF207,PROSITE_profiles:PS50261,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCGTCTT	byFrequency	2	BLCA
C19orf45	0	.	GRCh37	19	7566164	7566164	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.456C>T	p.%3D	p.F152F	ENST00000361664	2/9	25	18	6	20	19	0	C19orf45,synonymous_variant,p.%3D,ENST00000361664,;C19orf45,synonymous_variant,p.%3D,ENST00000596132,;C19orf45,synonymous_variant,p.%3D,ENST00000597207,;C19orf45,synonymous_variant,p.%3D,ENST00000601176,;PEX11G,upstream_gene_variant,,ENST00000593942,;C19orf45,synonymous_variant,p.%3D,ENST00000596524,;C19orf45,upstream_gene_variant,,ENST00000600112,;	T	ENSG00000198723	ENST00000361664	Transcript	synonymous_variant	597	456	152	F	ttC/ttT	COSM3541250	.	.	1	C19orf45	HGNC	24745	protein_coding	YES	CCDS12179.2	ENSP00000355241	CS045_HUMAN	M0R096_HUMAN,M0QYK1_HUMAN,M0QY34_HUMAN	UPI00001D83AB	.	.	.	2/9	.	Pfam_domain:PF15373	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTTCGACCG	.	5	BLCA
FCER2	0	.	GRCh37	19	7762141	7762141	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297G>A	p.%3D	p.Q99Q	ENST00000346664	6/11	65	50	14	93	93	0	FCER2,synonymous_variant,p.%3D,ENST00000593418,;FCER2,synonymous_variant,p.%3D,ENST00000597921,;FCER2,synonymous_variant,p.%3D,ENST00000346664,;FCER2,synonymous_variant,p.%3D,ENST00000360067,;FCER2,non_coding_transcript_exon_variant,,ENST00000598803,;FCER2,non_coding_transcript_exon_variant,,ENST00000597934,;FCER2,non_coding_transcript_exon_variant,,ENST00000597312,;	T	ENSG00000104921	ENST00000346664	Transcript	synonymous_variant	510	297	99	Q	caG/caA	.	.	.	-1	FCER2	HGNC	3612	protein_coding	YES	CCDS12184.1	ENSP00000264072	FCER2_HUMAN	.	UPI000002BEF3	.	.	.	6/11	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22802,hmmpanther:PTHR22802:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTGCTGTTC	.	5	BLCA
FBN3	0	.	GRCh37	19	8201331	8201331	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1286C>A	p.Ser429Tyr	p.S429Y	ENST00000600128	11/64	81	52	28	94	94	0	FBN3,missense_variant,p.Ser429Tyr,ENST00000600128,;FBN3,missense_variant,p.Ser429Tyr,ENST00000601739,;FBN3,missense_variant,p.Ser429Tyr,ENST00000270509,;	T	ENSG00000142449	ENST00000600128	Transcript	missense_variant	1701	1286	429	S/Y	tCc/tAc	.	.	.	-1	FBN3	HGNC	18794	protein_coding	YES	CCDS12196.1	ENSP00000470498	FBN3_HUMAN	.	UPI000013D88F	.	deleterious(0.03)	possibly_damaging(0.786)	11/64	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF0,Pfam_domain:PF00008,Gene3D:2.10.25.10,SMART_domains:SM00181,PIRSF_domain:PIRSF036312,SMART_domains:SM00179,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGGAAGGC	.	5	BLCA
MED16	0	.	GRCh37	19	872088	872088	+	Silent	SNP	G	G	A	rs761913910	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1936C>T	p.%3D	p.L646L	ENST00000325464	12/16	30	16	14	45	45	0	MED16,synonymous_variant,p.%3D,ENST00000395808,;MED16,synonymous_variant,p.%3D,ENST00000325464,;MED16,synonymous_variant,p.%3D,ENST00000312090,;MED16,synonymous_variant,p.%3D,ENST00000589119,;MED16,intron_variant,,ENST00000607471,;MED16,intron_variant,,ENST00000269814,;MED16,downstream_gene_variant,,ENST00000586017,;MED16,downstream_gene_variant,,ENST00000592943,;MED16,downstream_gene_variant,,ENST00000606828,;MED16,3_prime_UTR_variant,,ENST00000606248,;	A	ENSG00000175221	ENST00000325464	Transcript	synonymous_variant	2087	1936	646	L	Ctg/Ttg	rs761913910	.	.	-1	MED16	HGNC	17556	protein_coding	YES	CCDS12047.1	ENSP00000325612	MED16_HUMAN	K7EKX6_HUMAN,B9TX09_HUMAN	UPI0000141671	.	.	.	12/16	.	hmmpanther:PTHR13224:SF6,hmmpanther:PTHR13224,Pfam_domain:PF11635	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCAGAAAGC	byFrequency	5	BLCA
MUC16	0	.	GRCh37	19	9018439	9018439	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.37735C>G	p.Leu12579Val	p.L12579V	ENST00000397910	24/84	125	89	35	152	152	0	MUC16,missense_variant,p.Leu12579Val,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	missense_variant	37939	37735	12579	L/V	Ctg/Gtg	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	possibly_damaging(0.593)	24/84	.	Superfamily_domains:0047452,Pfam_domain:PF01390,Gene3D:1ivzA00,hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0,PROSITE_profiles:PS50024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCAGAGTCT	.	5	BLCA
MUC16	0	.	GRCh37	19	9057036	9057036	+	Missense_Mutation	SNP	G	G	C	rs777590485	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30410C>G	p.Ser10137Cys	p.S10137C	ENST00000397910	3/84	32	22	10	40	40	0	MUC16,missense_variant,p.Ser10137Cys,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	missense_variant	30614	30410	10137	S/C	tCt/tGt	rs777590485	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	benign(0.124)	3/84	.	hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAAGAGGGA	byFrequency	5	BLCA
MUC16	0	.	GRCh37	19	9059559	9059559	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27887C>G	p.Ser9296Cys	p.S9296C	ENST00000397910	3/84	110	98	12	155	154	1	MUC16,missense_variant,p.Ser9296Cys,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	missense_variant	28091	27887	9296	S/C	tCt/tGt	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	3/84	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTCAGAGATG	.	3	BLCA
MUC16	0	.	GRCh37	19	9065727	9065727	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21719C>G	p.Ser7240Ter	p.S7240*	ENST00000397910	3/84	153	109	44	158	158	0	MUC16,stop_gained,p.Ser7240Ter,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	stop_gained	21923	21719	7240	S/*	tCa/tGa	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	3/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S7242F|c.21725C>T|3,BUFFER|p.S2875F|c.8624C>T|3,BUFFER|p.S7242F|c.21725C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATTGACTCT	.	5	BLCA
ZNF426	0	.	GRCh37	19	9640120	9640120	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601C>T	p.Gln201Ter	p.Q201*	ENST00000535489	6/6	75	64	11	89	89	0	ZNF426,stop_gained,p.Gln201Ter,ENST00000535489,;ZNF426,stop_gained,p.Gln201Ter,ENST00000253115,;ZNF426,stop_gained,p.Gln163Ter,ENST00000593003,;ZNF426,3_prime_UTR_variant,,ENST00000589289,;	A	ENSG00000130818	ENST00000535489	Transcript	stop_gained	938	601	201	Q/*	Cag/Tag	.	.	.	-1	ZNF426	HGNC	20725	protein_coding	YES	CCDS12215.1	ENSP00000439017	ZN426_HUMAN	.	UPI0000072122	.	.	.	6/6	.	hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF85	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCTGATTAA	.	5	BLCA
COL11A1	0	.	GRCh37	1	103355070	103355070	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4405G>T	p.Glu1469Ter	p.E1469*	ENST00000370096	59/67	82	73	9	116	116	0	COL11A1,stop_gained,p.Glu1353Ter,ENST00000512756,;COL11A1,stop_gained,p.Glu1430Ter,ENST00000353414,;COL11A1,stop_gained,p.Glu1469Ter,ENST00000370096,;COL11A1,stop_gained,p.Glu1481Ter,ENST00000358392,;	A	ENSG00000060718	ENST00000370096	Transcript	stop_gained	4718	4405	1469	E/*	Gaa/Taa	COSM3470430,COSM3470431	.	.	-1	COL11A1	HGNC	2186	protein_coding	YES	CCDS778.1	ENSP00000359114	COBA1_HUMAN	Q4FAC4_HUMAN,B4DQZ0_HUMAN	UPI00002053EF	.	.	.	59/67	.	hmmpanther:PTHR24023:SF42,hmmpanther:PTHR24023,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTTCCCCTT	.	4	BLCA
PEX14	0	.	GRCh37	1	10690050	10690050	+	3'UTR	SNP	C	C	T	rs199687425	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6C>T	.	.	ENST00000356607	9/9	27	21	6	27	27	0	PEX14,3_prime_UTR_variant,,ENST00000538836,;PEX14,3_prime_UTR_variant,,ENST00000356607,;	T	ENSG00000142655	ENST00000356607	Transcript	3_prime_UTR_variant	1220	.	.	.	.	rs199687425	.	.	1	PEX14	HGNC	8856	protein_coding	YES	CCDS30582.1	ENSP00000349016	PEX14_HUMAN	F5H4J2_HUMAN	UPI000013170A	.	.	.	9/9	.	.	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0	T:0.0003	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCTGCGCCTG	byCluster|by1000G	2	BLCA
FNDC7	0	.	GRCh37	1	109270677	109270677	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1359C>T	p.%3D	p.F453F	ENST00000370017	7/13	115	86	29	141	140	1	FNDC7,synonymous_variant,p.%3D,ENST00000445274,;FNDC7,synonymous_variant,p.%3D,ENST00000370017,;FNDC7,synonymous_variant,p.%3D,ENST00000271311,;	T	ENSG00000143107	ENST00000370017	Transcript	synonymous_variant	1636	1359	453	F	ttC/ttT	.	.	.	1	FNDC7	HGNC	26668	protein_coding	YES	CCDS44185.1	ENSP00000359034	FNDC7_HUMAN	.	UPI000187497A	.	.	.	7/13	.	Superfamily_domains:SSF49265,Gene3D:2.60.40.10,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF177,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTTCATAAC	.	5	BLCA
AKNAD1	0	.	GRCh37	1	109395216	109395216	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71C>G	p.Ser24Cys	p.S24C	ENST00000370001	2/16	72	66	6	69	69	0	AKNAD1,missense_variant,p.Ser24Cys,ENST00000369994,;AKNAD1,missense_variant,p.Ser24Cys,ENST00000370001,;AKNAD1,missense_variant,p.Ser24Cys,ENST00000369995,;AKNAD1,intron_variant,,ENST00000357393,;SPATA42,upstream_gene_variant,,ENST00000369989,;SPATA42,upstream_gene_variant,,ENST00000417241,;AKNAD1,missense_variant,p.Ser24Cys,ENST00000472781,;AKNAD1,missense_variant,p.Ser24Cys,ENST00000461774,;AKNAD1,missense_variant,p.Ser24Cys,ENST00000474186,;	C	ENSG00000162641	ENST00000370001	Transcript	missense_variant	340	71	24	S/C	tCt/tGt	.	.	.	-1	AKNAD1	HGNC	28398	protein_coding	YES	CCDS791.2	ENSP00000359018	AKND1_HUMAN	.	UPI00004700A0	.	deleterious(0.02)	probably_damaging(0.935)	2/16	.	hmmpanther:PTHR21510:SF14,hmmpanther:PTHR21510	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCTGAGAGAGG	.	3	BLCA
WDR47	0	.	GRCh37	1	109553931	109553931	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.758C>T	p.Ser253Leu	p.S253L	ENST00000400794	5/15	151	113	37	240	240	0	WDR47,missense_variant,p.Ser246Leu,ENST00000369965,;WDR47,missense_variant,p.Ser253Leu,ENST00000400794,;WDR47,missense_variant,p.Ser246Leu,ENST00000369962,;WDR47,missense_variant,p.Ser218Leu,ENST00000361054,;WDR47,missense_variant,p.Ser218Leu,ENST00000357672,;WDR47,downstream_gene_variant,,ENST00000530772,;WDR47,downstream_gene_variant,,ENST00000531337,;WDR47,downstream_gene_variant,,ENST00000529074,;WDR47,downstream_gene_variant,,ENST00000528747,;	A	ENSG00000085433	ENST00000400794	Transcript	missense_variant	892	758	253	S/L	tCa/tTa	.	.	.	-1	WDR47	HGNC	29141	protein_coding	YES	CCDS44186.1	ENSP00000383599	WDR47_HUMAN	E9PKZ6_HUMAN	UPI0001639B05	.	deleterious(0)	probably_damaging(0.995)	5/15	.	hmmpanther:PTHR19863,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGACAGT	.	5	BLCA
SARS	0	.	GRCh37	1	109777857	109777857	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.773C>T	p.Ser258Phe	p.S258F	ENST00000234677	7/11	98	77	20	122	122	0	SARS,missense_variant,p.Ser258Phe,ENST00000234677,;SARS,missense_variant,p.Ser258Phe,ENST00000369923,;SARS,non_coding_transcript_exon_variant,,ENST00000477544,;SARS,non_coding_transcript_exon_variant,,ENST00000471705,;SARS,upstream_gene_variant,,ENST00000468588,;	T	ENSG00000031698	ENST00000234677	Transcript	missense_variant	848	773	258	S/F	tCt/tTt	.	.	.	1	SARS	HGNC	10537	protein_coding	YES	CCDS795.1	ENSP00000234677	SYSC_HUMAN	Q0VGA5_HUMAN	UPI000013C9B6	.	tolerated(0.1)	benign(0.021)	7/11	.	PROSITE_profiles:PS50862,hmmpanther:PTHR11778:SF0,hmmpanther:PTHR11778,Gene3D:3.30.930.10,TIGRFAM_domain:TIGR00414,Pfam_domain:PF00587,PIRSF_domain:PIRSF001529,Superfamily_domains:SSF55681	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAGTCTGATG	.	5	BLCA
CHIAP2	0	.	GRCh37	1	111826737	111826737	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1447C>T	.	.	ENST00000369743	7/9	16	13	3	14	14	0	CHIAP2,non_coding_transcript_exon_variant,,ENST00000369743,;CHIAP2,non_coding_transcript_exon_variant,,ENST00000456752,;CHIAP2,intron_variant,,ENST00000449687,;CHIAP2,non_coding_transcript_exon_variant,,ENST00000532686,;	T	ENSG00000203878	ENST00000369743	Transcript	non_coding_transcript_exon_variant	1447	.	.	.	.	.	.	.	1	CHIAP2	HGNC	44463	processed_transcript	YES	.	.	.	.	.	.	.	.	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	AAGCTCATGTT	.	3	BLCA
PIFO	0	.	GRCh37	1	111889669	111889669	+	Missense_Mutation	SNP	G	G	A	rs774777201	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157G>A	p.Asp53Asn	p.D53N	ENST00000369738	2/6	41	33	8	76	76	0	PIFO,missense_variant,p.Asp53Asn,ENST00000369737,;PIFO,missense_variant,p.Asp53Asn,ENST00000369738,;PIFO,splice_region_variant,,ENST00000484512,;PIFO,upstream_gene_variant,,ENST00000468395,;	A	ENSG00000173947	ENST00000369738	Transcript	missense_variant	522	157	53	D/N	Gat/Aat	rs774777201	.	.	1	PIFO	HGNC	27009	protein_coding	YES	CCDS833.1	ENSP00000358753	PIFO_HUMAN	.	UPI000019790E	.	deleterious(0.01)	benign(0.159)	2/6	.	hmmpanther:PTHR31508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCAGATGTG	.	5	BLCA
PIFO	0	.	GRCh37	1	111892843	111892843	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.505G>A	p.Glu169Lys	p.E169K	ENST00000369738	5/6	124	104	20	147	147	0	PIFO,missense_variant,p.Glu136Lys,ENST00000369737,;PIFO,missense_variant,p.Glu169Lys,ENST00000369738,;PIFO,splice_region_variant,,ENST00000484512,;PIFO,splice_region_variant,,ENST00000468395,;CHIAP3,downstream_gene_variant,,ENST00000423668,;	A	ENSG00000173947	ENST00000369738	Transcript	missense_variant	870	505	169	E/K	Gag/Aag	.	.	.	1	PIFO	HGNC	27009	protein_coding	YES	CCDS833.1	ENSP00000358753	PIFO_HUMAN	.	UPI000019790E	.	deleterious(0)	probably_damaging(0.999)	5/6	.	hmmpanther:PTHR31508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCTGAGGTA	.	4	BLCA
LRIG2	0	.	GRCh37	1	113657430	113657430	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2462C>G	p.Ser821Cys	p.S821C	ENST00000361127	15/18	92	80	12	108	108	0	LRIG2,missense_variant,p.Ser821Cys,ENST00000361127,;LRIG2,non_coding_transcript_exon_variant,,ENST00000466161,;LRIG2,non_coding_transcript_exon_variant,,ENST00000492207,;	G	ENSG00000198799	ENST00000361127	Transcript	missense_variant	2660	2462	821	S/C	tCt/tGt	.	.	.	1	LRIG2	HGNC	20889	protein_coding	YES	CCDS30808.1	ENSP00000355396	LRIG2_HUMAN	.	UPI000006F613	.	deleterious(0)	probably_damaging(0.999)	15/18	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24367:SF230,hmmpanther:PTHR24367	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCTTTGA	.	4	BLCA
MAGI3	0	.	GRCh37	1	114184792	114184792	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1620G>A	p.%3D	p.Q540Q	ENST00000307546	10/21	73	55	17	95	94	0	MAGI3,synonymous_variant,p.%3D,ENST00000369617,;MAGI3,synonymous_variant,p.%3D,ENST00000369615,;MAGI3,synonymous_variant,p.%3D,ENST00000307546,;MAGI3,synonymous_variant,p.%3D,ENST00000369611,;	A	ENSG00000081026	ENST00000307546	Transcript	synonymous_variant	1695	1620	540	Q	caG/caA	.	.	.	1	MAGI3	HGNC	29647	protein_coding	YES	CCDS44196.1	ENSP00000304604	MAGI3_HUMAN	.	UPI00004589AE	.	.	.	10/21	.	hmmpanther:PTHR10316:SF10,hmmpanther:PTHR10316	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCAGAATGG	.	5	BLCA
SPAG17	0	.	GRCh37	1	118609486	118609486	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2422G>A	p.Asp808Asn	p.D808N	ENST00000336338	18/49	64	48	15	89	89	0	SPAG17,missense_variant,p.Asp808Asn,ENST00000336338,;SPAG17,intron_variant,,ENST00000477444,;	T	ENSG00000155761	ENST00000336338	Transcript	missense_variant	2488	2422	808	D/N	Gat/Aat	.	.	.	-1	SPAG17	HGNC	26620	protein_coding	YES	CCDS899.1	ENSP00000337804	SPG17_HUMAN	A7LBF9_HUMAN	UPI00001601FD	.	deleterious(0)	probably_damaging(0.988)	18/49	.	hmmpanther:PTHR21963	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCAACAC	.	5	BLCA
ZNF697	0	.	GRCh37	1	120165535	120165535	+	Missense_Mutation	SNP	G	G	C	rs762184922	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1431C>G	p.Phe477Leu	p.F477L	ENST00000421812	3/3	14	9	5	22	22	0	ZNF697,missense_variant,p.Phe477Leu,ENST00000421812,;	C	ENSG00000143067	ENST00000421812	Transcript	missense_variant	1551	1431	477	F/L	ttC/ttG	rs762184922	.	.	-1	ZNF697	HGNC	32034	protein_coding	YES	CCDS44202.1	ENSP00000396857	ZN697_HUMAN	Q8N508_HUMAN	UPI0000DD78D7	.	tolerated(0.65)	probably_damaging(0.937)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF55,hmmpanther:PTHR24402,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTGGAGAAGTC	byFrequency	4	BLCA
VPS13D	0	.	GRCh37	1	12368508	12368508	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6460G>A	p.Asp2154Asn	p.D2154N	ENST00000358136	27/70	52	37	15	87	87	0	VPS13D,missense_variant,p.Asp2154Asn,ENST00000358136,;VPS13D,missense_variant,p.Asp977Asn,ENST00000011700,;VPS13D,missense_variant,p.Asp2154Asn,ENST00000356315,;VPS13D,non_coding_transcript_exon_variant,,ENST00000460333,;VPS13D,upstream_gene_variant,,ENST00000487188,;	A	ENSG00000048707	ENST00000358136	Transcript	missense_variant	6590	6460	2154	D/N	Gat/Aat	.	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	probably_damaging(0.99)	27/70	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTGGATTGC	.	5	BLCA
BCL9	0	.	GRCh37	1	147096275	147096275	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3796C>T	p.Pro1266Ser	p.P1266S	ENST00000234739	10/10	34	28	5	56	56	0	BCL9,missense_variant,p.Pro1266Ser,ENST00000234739,;	T	ENSG00000116128	ENST00000234739	Transcript	missense_variant	4536	3796	1266	P/S	Cct/Tct	.	.	.	1	BCL9	HGNC	1008	protein_coding	YES	CCDS30833.1	ENSP00000234739	BCL9_HUMAN	.	UPI000013C9B9	.	tolerated(0.27)	benign(0.019)	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15185,hmmpanther:PTHR15185:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	AGGGTCCTGGA	.	3	BLCA
GJA8	0	.	GRCh37	1	147380362	147380362	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280G>A	p.Gly94Arg	p.G94R	ENST00000240986	2/2	108	54	54	101	101	0	GJA8,missense_variant,p.Gly94Arg,ENST00000240986,;GJA8,missense_variant,p.Gly94Arg,ENST00000369235,;	A	ENSG00000121634	ENST00000240986	Transcript	missense_variant	333	280	94	G/R	Ggg/Agg	.	.	.	1	GJA8	HGNC	4281	protein_coding	YES	CCDS30834.1	ENSP00000240986	CXA8_HUMAN	.	UPI0000049BA0	.	deleterious(0)	probably_damaging(1)	2/2	.	Prints_domain:PR00206,Gene3D:2zw3A00,Pfam_domain:PF00029,hmmpanther:PTHR11984:SF19,hmmpanther:PTHR11984,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGTGGGGCAC	.	5	BLCA
OTUD7B	0	.	GRCh37	1	149937765	149937765	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541C>T	p.Gln181Ter	p.Q181*	ENST00000369135	5/12	32	26	6	29	29	0	OTUD7B,stop_gained,p.Gln181Ter,ENST00000417191,;OTUD7B,stop_gained,p.Gln181Ter,ENST00000369135,;OTUD7B,non_coding_transcript_exon_variant,,ENST00000479905,;	A	ENSG00000163113	ENST00000369135	Transcript	stop_gained	836	541	181	Q/*	Cag/Tag	.	.	.	-1	OTUD7B	HGNC	16683	protein_coding	YES	CCDS41389.1	ENSP00000358131	OTU7B_HUMAN	Q5SZ59_HUMAN	UPI000020415D	.	.	.	5/12	.	hmmpanther:PTHR13367,hmmpanther:PTHR13367:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTGAGAGG	.	5	BLCA
CGN	0	.	GRCh37	1	151495934	151495934	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165C>G	p.Gln389Glu	p.Q389E	ENST00000271636	6/21	196	90	105	157	157	0	CGN,missense_variant,p.Gln389Glu,ENST00000271636,;CGN,missense_variant,p.Gln98Glu,ENST00000416743,;CGN,downstream_gene_variant,,ENST00000427934,;CGN,downstream_gene_variant,,ENST00000505188,;CGN,downstream_gene_variant,,ENST00000502442,;SNORA44,downstream_gene_variant,,ENST00000517031,;CGN,upstream_gene_variant,,ENST00000464886,;	G	ENSG00000143375	ENST00000271636	Transcript	missense_variant	1298	1165	389	Q/E	Caa/Gaa	.	.	.	1	CGN	HGNC	17429	protein_coding	YES	CCDS999.1	ENSP00000271636	CING_HUMAN	A6PVU7_HUMAN,A2A3M4_HUMAN	UPI0000161C1E	.	tolerated(0.58)	benign(0.012)	6/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF280,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCCCAAGTT	.	5	BLCA
FLG	0	.	GRCh37	1	152281042	152281042	+	Missense_Mutation	SNP	G	G	C	rs760732380	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6320C>G	p.Ser2107Cys	p.S2107C	ENST00000368799	3/3	195	157	37	205	205	0	FLG,missense_variant,p.Ser2107Cys,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;FLG-AS1,upstream_gene_variant,,ENST00000392688,;	C	ENSG00000143631	ENST00000368799	Transcript	missense_variant	6356	6320	2107	S/C	tCt/tGt	rs760732380	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	possibly_damaging(0.7)	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCAGACTGT	.	5	BLCA
FLG	0	.	GRCh37	1	152282755	152282755	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4607G>C	p.Gly1536Ala	p.G1536A	ENST00000368799	3/3	340	291	48	352	352	0	FLG,missense_variant,p.Gly1536Ala,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;FLG-AS1,upstream_gene_variant,,ENST00000392688,;	G	ENSG00000143631	ENST00000368799	Transcript	missense_variant	4643	4607	1536	G/A	gGa/gCa	.	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	possibly_damaging(0.794)	3/3	.	hmmpanther:PTHR22571,hmmpanther:PTHR22571:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S1539R|c.4615A>C|5	RADIA|MUTECT|MUSE|VARSCANS	TGGGTCCTGAC	.	4	BLCA
FLG2	0	.	GRCh37	1	152327684	152327684	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2578C>T	p.Gln860Ter	p.Q860*	ENST00000388718	3/3	421	348	73	414	414	0	FLG2,stop_gained,p.Gln860Ter,ENST00000388718,;FLG-AS1,intron_variant,,ENST00000392688,;FLG-AS1,intron_variant,,ENST00000445097,;	A	ENSG00000143520	ENST00000388718	Transcript	stop_gained	2651	2578	860	Q/*	Caa/Taa	.	.	.	-1	FLG2	HGNC	33276	protein_coding	YES	CCDS30861.1	ENSP00000373370	FILA2_HUMAN	.	UPI00004E1DE5	.	.	.	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22571,hmmpanther:PTHR22571:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTTGACCAT	.	4	BLCA
NUP210L	0	.	GRCh37	1	154072563	154072563	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1876C>G	p.Leu626Val	p.L626V	ENST00000368559	14/40	88	70	17	142	142	0	NUP210L,missense_variant,p.Leu626Val,ENST00000368559,;NUP210L,missense_variant,p.Leu626Val,ENST00000271854,;MIR5698,downstream_gene_variant,,ENST00000577643,;	C	ENSG00000143552	ENST00000368559	Transcript	missense_variant	1948	1876	626	L/V	Ctt/Gtt	COSM423971	.	.	-1	NUP210L	HGNC	29915	protein_coding	YES	CCDS41399.1	ENSP00000357547	P210L_HUMAN	.	UPI000023724F	.	tolerated(0.28)	benign(0.019)	14/40	.	hmmpanther:PTHR23019:SF1,hmmpanther:PTHR23019	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAAGAGATT	.	5	BLCA
GBA	0	.	GRCh37	1	155210881	155210881	+	Missense_Mutation	SNP	C	C	T	rs759983265	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23G>A	p.Arg8Lys	p.R8K	ENST00000327247	2/12	44	36	8	83	83	0	GBA,missense_variant,p.Arg8Lys,ENST00000327247,;GBA,missense_variant,p.Arg8Lys,ENST00000368373,;GBA,missense_variant,p.Arg8Lys,ENST00000536770,;GBA,missense_variant,p.Arg8Lys,ENST00000427500,;GBA,intron_variant,,ENST00000428024,;AL713999.1,upstream_gene_variant,,ENST00000401290,;GBA,non_coding_transcript_exon_variant,,ENST00000493842,;GBA,non_coding_transcript_exon_variant,,ENST00000473570,;GBA,non_coding_transcript_exon_variant,,ENST00000470104,;GBA,non_coding_transcript_exon_variant,,ENST00000467918,;GBA,non_coding_transcript_exon_variant,,ENST00000484489,;GBA,upstream_gene_variant,,ENST00000491081,;GBA,upstream_gene_variant,,ENST00000497670,;GBA,upstream_gene_variant,,ENST00000478472,;GBA,upstream_gene_variant,,ENST00000460156,;	T	ENSG00000177628	ENST00000327247	Transcript	missense_variant	256	23	8	R/K	aGa/aAa	rs759983265	.	.	-1	GBA	HGNC	4177	protein_coding	YES	CCDS1102.1	ENSP00000314508	GLCM_HUMAN	Q9UQU9_HUMAN,J3KQG4_HUMAN	UPI0000073DCE	.	tolerated_low_confidence(0.35)	benign(0.001)	2/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTGGAA	byFrequency	5	BLCA
ARHGEF11	0	.	GRCh37	1	156933341	156933341	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>C	p.Asp337His	p.D337H	ENST00000368194	12/41	89	77	12	83	83	0	ARHGEF11,missense_variant,p.Asp297His,ENST00000361409,;ARHGEF11,missense_variant,p.Asp337His,ENST00000368194,;ARHGEF11,non_coding_transcript_exon_variant,,ENST00000486670,;ARHGEF11,downstream_gene_variant,,ENST00000483682,;	G	ENSG00000132694	ENST00000368194	Transcript	missense_variant	2049	1009	337	D/H	Gac/Cac	.	.	.	-1	ARHGEF11	HGNC	14580	protein_coding	YES	CCDS1163.1	ENSP00000357177	ARHGB_HUMAN	.	UPI00001D62A7	.	deleterious(0)	probably_damaging(0.992)	12/41	.	hmmpanther:PTHR22825:SF5,hmmpanther:PTHR22825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAGTCTTCCT	.	4	BLCA
FCRL3	0	.	GRCh37	1	157660198	157660198	+	Missense_Mutation	SNP	C	C	T	rs369176005	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1537G>A	p.Glu513Lys	p.E513K	ENST00000368184	9/15	77	72	4	91	91	0	FCRL3,missense_variant,p.Glu513Lys,ENST00000368186,;FCRL3,missense_variant,p.Glu513Lys,ENST00000368184,;RP11-367J7.3,upstream_gene_variant,,ENST00000453692,;FCRL3,non_coding_transcript_exon_variant,,ENST00000494724,;FCRL3,non_coding_transcript_exon_variant,,ENST00000473231,;FCRL3,non_coding_transcript_exon_variant,,ENST00000480682,;FCRL3,upstream_gene_variant,,ENST00000468507,;FCRL3,missense_variant,p.Glu513Lys,ENST00000485028,;FCRL3,missense_variant,p.Glu418Lys,ENST00000477837,;FCRL3,missense_variant,p.Glu519Lys,ENST00000492769,;	T	ENSG00000160856	ENST00000368184	Transcript	missense_variant	1829	1537	513	E/K	Gag/Aag	rs369176005	.	.	-1	FCRL3	HGNC	18506	protein_coding	YES	CCDS1167.1	ENSP00000357167	FCRL3_HUMAN	R4GNJ6_HUMAN	UPI000006D60E	.	tolerated(0.12)	benign(0.221)	9/15	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11481,hmmpanther:PTHR11481:SF35,Gene3D:2.60.40.10,Pfam_domain:PF13927,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCCTCGTGAT	byFrequency|byCluster	2	BLCA
OR10X1	0	.	GRCh37	1	158548928	158548928	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762C>T	p.%3D	p.F254F	ENST00000368150	1/1	97	90	6	119	119	0	OR10X1,synonymous_variant,p.%3D,ENST00000368150,;	A	ENSG00000186400	ENST00000368150	Transcript	synonymous_variant	762	762	254	F	ttC/ttT	.	.	.	-1	OR10X1	HGNC	14995	protein_coding	YES	CCDS30900.1	ENSP00000357132	O10X1_HUMAN	.	UPI000004CA20	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24242,hmmpanther:PTHR24242:SF195,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGTGAAGGC	.	2	BLCA
IFI16	0	.	GRCh37	1	158984714	158984714	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244C>G	p.Leu82Val	p.L82V	ENST00000368131	2/11	60	56	4	71	71	0	IFI16,missense_variant,p.Leu82Val,ENST00000295809,;IFI16,missense_variant,p.Leu82Val,ENST00000340979,;IFI16,missense_variant,p.Leu86Val,ENST00000430894,;IFI16,missense_variant,p.Leu82Val,ENST00000368132,;IFI16,missense_variant,p.Leu82Val,ENST00000368131,;IFI16,missense_variant,p.Leu82Val,ENST00000566111,;IFI16,missense_variant,p.Leu82Val,ENST00000448393,;IFI16,missense_variant,p.Leu82Val,ENST00000426592,;IFI16,missense_variant,p.Leu82Val,ENST00000359709,;IFI16,missense_variant,p.Leu82Val,ENST00000447473,;IFI16,upstream_gene_variant,,ENST00000567661,;IFI16,upstream_gene_variant,,ENST00000474473,;IFI16,non_coding_transcript_exon_variant,,ENST00000493884,;IFI16,non_coding_transcript_exon_variant,,ENST00000483916,;	G	ENSG00000163565	ENST00000368131	Transcript	missense_variant	534	244	82	L/V	Ctt/Gtt	.	.	.	1	IFI16	HGNC	5395	protein_coding	YES	CCDS1180.3	ENSP00000357113	IF16_HUMAN	H3BVE6_HUMAN,H3BR88_HUMAN,H3BR65_HUMAN,H3BM18_HUMAN	UPI00001412C9	.	deleterious(0)	probably_damaging(0.958)	2/11	.	PROSITE_profiles:PS50824,hmmpanther:PTHR12200:SF5,hmmpanther:PTHR12200,Pfam_domain:PF02758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACTCTTAAA	.	2	BLCA
IFI16	0	.	GRCh37	1	158990177	158990177	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1019G>C	p.Arg340Thr	p.R340T	ENST00000368131	6/11	70	45	25	50	50	0	IFI16,missense_variant,p.Arg340Thr,ENST00000295809,;IFI16,missense_variant,p.Arg340Thr,ENST00000340979,;IFI16,missense_variant,p.Arg288Thr,ENST00000430894,;IFI16,missense_variant,p.Arg340Thr,ENST00000368132,;IFI16,missense_variant,p.Arg340Thr,ENST00000368131,;IFI16,missense_variant,p.Arg182Thr,ENST00000474473,;IFI16,missense_variant,p.Arg340Thr,ENST00000448393,;IFI16,missense_variant,p.Arg284Thr,ENST00000359709,;IFI16,downstream_gene_variant,,ENST00000567661,;IFI16,downstream_gene_variant,,ENST00000426592,;IFI16,downstream_gene_variant,,ENST00000447473,;IFI16,non_coding_transcript_exon_variant,,ENST00000493884,;IFI16,non_coding_transcript_exon_variant,,ENST00000483916,;	C	ENSG00000163565	ENST00000368131	Transcript	missense_variant	1309	1019	340	R/T	aGa/aCa	.	.	.	1	IFI16	HGNC	5395	protein_coding	YES	CCDS1180.3	ENSP00000357113	IF16_HUMAN	H3BVE6_HUMAN,H3BR88_HUMAN,H3BR65_HUMAN,H3BM18_HUMAN	UPI00001412C9	.	tolerated(1)	possibly_damaging(0.801)	6/11	.	PROSITE_profiles:PS50834,hmmpanther:PTHR12200:SF5,hmmpanther:PTHR12200,Pfam_domain:PF02760,Gene3D:2.40.50.140,Superfamily_domains:SSF159141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATAGAGGAA	.	5	BLCA
CASQ1	0	.	GRCh37	1	160163635	160163635	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463G>C	p.Asp155His	p.D155H	ENST00000368078	3/11	69	60	9	62	62	0	CASQ1,missense_variant,p.Asp149His,ENST00000368079,;CASQ1,missense_variant,p.Asp155His,ENST00000368078,;CASQ1,upstream_gene_variant,,ENST00000467691,;CASQ1,splice_region_variant,,ENST00000481081,;	C	ENSG00000143318	ENST00000368078	Transcript	missense_variant	659	463	155	D/H	Gat/Cat	.	.	.	1	CASQ1	HGNC	1512	protein_coding	YES	CCDS1198.2	ENSP00000357057	CASQ1_HUMAN	C9JAC8_HUMAN	UPI0000204B81	.	deleterious(0)	probably_damaging(0.953)	3/11	.	hmmpanther:PTHR10033:SF9,hmmpanther:PTHR10033,Pfam_domain:PF01216,Gene3D:3.40.30.10,Superfamily_domains:SSF52833,Prints_domain:PR00312	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTGATGTA	.	4	BLCA
ITLN1	0	.	GRCh37	1	160846471	160846471	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925C>T	p.Leu309Phe	p.L309F	ENST00000326245	8/8	62	52	9	56	56	0	ITLN1,missense_variant,p.Leu309Phe,ENST00000326245,;ITLN1,downstream_gene_variant,,ENST00000464077,;ITLN1,downstream_gene_variant,,ENST00000487531,;	A	ENSG00000179914	ENST00000326245	Transcript	missense_variant	1041	925	309	L/F	Ctt/Ttt	.	.	.	-1	ITLN1	HGNC	18259	protein_coding	YES	CCDS1211.1	ENSP00000323587	ITLN1_HUMAN	.	UPI0000032AA3	.	tolerated(0.08)	probably_damaging(0.999)	8/8	.	hmmpanther:PTHR16146:SF38,hmmpanther:PTHR16146	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGAAGCACAG	.	5	BLCA
ARHGAP30	0	.	GRCh37	1	161018599	161018599	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2212G>A	p.Gly738Arg	p.G738R	ENST00000368013	12/12	182	156	25	183	183	0	ARHGAP30,missense_variant,p.Gly738Arg,ENST00000368013,;ARHGAP30,missense_variant,p.Gly561Arg,ENST00000368015,;ARHGAP30,intron_variant,,ENST00000368016,;USF1,upstream_gene_variant,,ENST00000435396,;USF1,upstream_gene_variant,,ENST00000368021,;USF1,upstream_gene_variant,,ENST00000534633,;USF1,upstream_gene_variant,,ENST00000368020,;ARHGAP30,3_prime_UTR_variant,,ENST00000490279,;ARHGAP30,non_coding_transcript_exon_variant,,ENST00000461003,;USF1,upstream_gene_variant,,ENST00000496363,;ARHGAP30,downstream_gene_variant,,ENST00000368018,;USF1,upstream_gene_variant,,ENST00000473969,;USF1,upstream_gene_variant,,ENST00000491629,;USF1,upstream_gene_variant,,ENST00000529476,;	T	ENSG00000186517	ENST00000368013	Transcript	missense_variant	2533	2212	738	G/R	Gga/Aga	.	.	.	-1	ARHGAP30	HGNC	27414	protein_coding	YES	CCDS30918.1	ENSP00000356992	RHG30_HUMAN	.	UPI0000160677	.	tolerated_low_confidence(0.33)	benign(0.01)	12/12	.	hmmpanther:PTHR15729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTCCTGGTT	.	4	BLCA
ADAMTS4	0	.	GRCh37	1	161163802	161163802	+	Missense_Mutation	SNP	C	C	G	rs765392088	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1471G>C	p.Asp491His	p.D491H	ENST00000367996	5/9	49	46	3	77	77	0	ADAMTS4,missense_variant,p.Asp491His,ENST00000367996,;ADAMTS4,downstream_gene_variant,,ENST00000367995,;NDUFS2,upstream_gene_variant,,ENST00000496133,;ADAMTS4,downstream_gene_variant,,ENST00000478394,;NDUFS2,upstream_gene_variant,,ENST00000479948,;	G	ENSG00000158859	ENST00000367996	Transcript	missense_variant	1900	1471	491	D/H	Gat/Cat	rs765392088	.	.	-1	ADAMTS4	HGNC	220	protein_coding	YES	CCDS1223.1	ENSP00000356975	ATS4_HUMAN	.	UPI000014194C	.	deleterious(0)	probably_damaging(0.999)	5/9	.	hmmpanther:PTHR13723:SF38,hmmpanther:PTHR13723,SMART_domains:SM00608	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCATCGGCCC	byFrequency	2	BLCA
CDK11A	0	.	GRCh37	1	1650862	1650862	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.260C>T	p.Pro87Leu	p.P87L	ENST00000404249	4/20	114	94	19	139	139	0	CDK11A,missense_variant,p.Pro53Leu,ENST00000356200,;CDK11A,missense_variant,p.Pro87Leu,ENST00000378635,;CDK11A,missense_variant,p.Pro87Leu,ENST00000357760,;CDK11A,missense_variant,p.Pro87Leu,ENST00000479362,;CDK11A,missense_variant,p.Pro87Leu,ENST00000404249,;CDK11A,missense_variant,p.Pro87Leu,ENST00000358779,;CDK11A,missense_variant,p.Pro53Leu,ENST00000378638,;CDK11A,missense_variant,p.Pro87Leu,ENST00000378633,;CDK11A,downstream_gene_variant,,ENST00000401096,;RP1-283E3.8,non_coding_transcript_exon_variant,,ENST00000598846,;CDK11A,missense_variant,p.Pro87Leu,ENST00000509982,;CDK11A,missense_variant,p.Pro87Leu,ENST00000460465,;CDK11A,non_coding_transcript_exon_variant,,ENST00000356937,;CDK11A,non_coding_transcript_exon_variant,,ENST00000498810,;CDK11A,downstream_gene_variant,,ENST00000487462,;	A	ENSG00000008128	ENST00000404249	Transcript	missense_variant	340	260	87	P/L	cCa/cTa	.	.	.	-1	CDK11A	HGNC	1730	protein_coding	YES	CCDS44042.1	ENSP00000384442	CD11A_HUMAN	Q5QPQ9_HUMAN,Q4VBY6_HUMAN	UPI000022B1E1	.	deleterious_low_confidence(0)	probably_damaging(0.936)	4/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGTGGTTTG	.	5	BLCA
F5	0	.	GRCh37	1	169494094	169494094	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5769C>T	p.%3D	p.I1923I	ENST00000367797	19/25	68	56	12	88	88	0	F5,synonymous_variant,p.%3D,ENST00000367796,;F5,synonymous_variant,p.%3D,ENST00000367797,;	A	ENSG00000198734	ENST00000367797	Transcript	synonymous_variant	5971	5769	1923	I	atC/atT	.	.	.	-1	F5	HGNC	3542	protein_coding	YES	CCDS1281.1	ENSP00000356771	FA5_HUMAN	Q8TD21_HUMAN,Q2HZZ1_HUMAN,Q1L610_HUMAN	UPI0000070F01	.	.	.	19/25	.	PROSITE_profiles:PS50022,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF597,Pfam_domain:PF00754,Gene3D:2.60.120.260,SMART_domains:SM00231,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTGATCTG	.	5	BLCA
F5	0	.	GRCh37	1	169510104	169510104	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4224G>C	p.Gln1408His	p.Q1408H	ENST00000367797	13/25	43	33	10	62	62	0	F5,missense_variant,p.Gln1413His,ENST00000367796,;F5,missense_variant,p.Gln1408His,ENST00000367797,;	G	ENSG00000198734	ENST00000367797	Transcript	missense_variant	4426	4224	1408	Q/H	caG/caC	.	.	.	-1	F5	HGNC	3542	protein_coding	YES	CCDS1281.1	ENSP00000356771	FA5_HUMAN	Q8TD21_HUMAN,Q2HZZ1_HUMAN,Q1L610_HUMAN	UPI0000070F01	.	tolerated_low_confidence(0.15)	benign(0.017)	13/25	.	hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF597	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCTGGTC	.	5	BLCA
DNM3	0	.	GRCh37	1	172113732	172113732	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1659+13304G>C	.	.	ENST00000358155	.	67	54	12	88	87	1	DNM3,intron_variant,,ENST00000367731,;DNM3,intron_variant,,ENST00000355305,;DNM3,intron_variant,,ENST00000358155,;DNM3,intron_variant,,ENST00000523513,;DNM3,intron_variant,,ENST00000520906,;MIR199A2,mature_miRNA_variant,,ENST00000385289,;DNM3OS,intron_variant,,ENST00000417354,;	C	ENSG00000197959	ENST00000358155	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	DNM3	HGNC	29125	protein_coding	YES	CCDS53431.1	ENSP00000350876	DYN3_HUMAN	E5RIK2_HUMAN	UPI0000251D91	.	.	.	.	14/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTGAACAG	.	5	BLCA
ATP13A2	0	.	GRCh37	1	17319020	17319020	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1806G>C	p.%3D	p.V602V	ENST00000326735	17/29	115	92	23	146	146	0	ATP13A2,synonymous_variant,p.%3D,ENST00000503552,;ATP13A2,synonymous_variant,p.%3D,ENST00000452699,;ATP13A2,synonymous_variant,p.%3D,ENST00000341676,;ATP13A2,synonymous_variant,p.%3D,ENST00000326735,;ATP13A2,upstream_gene_variant,,ENST00000502418,;ATP13A2,downstream_gene_variant,,ENST00000506174,;RP1-37C10.3,intron_variant,,ENST00000446261,;ATP13A2,downstream_gene_variant,,ENST00000502860,;ATP13A2,downstream_gene_variant,,ENST00000463860,;ATP13A2,upstream_gene_variant,,ENST00000466561,;ATP13A2,downstream_gene_variant,,ENST00000509392,;	G	ENSG00000159363	ENST00000326735	Transcript	synonymous_variant	1840	1806	602	V	gtG/gtC	.	.	.	-1	ATP13A2	HGNC	30213	protein_coding	YES	CCDS175.1	ENSP00000327214	AT132_HUMAN	Q8N4D4_HUMAN	UPI0000049724	.	.	.	17/29	.	hmmpanther:PTHR24093:SF86,hmmpanther:PTHR24093,Pfam_domain:PF12710,TIGRFAM_domain:TIGR01657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCACTGC	.	5	BLCA
SERPINC1	0	.	GRCh37	1	173886363	173886363	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.35G>C	p.Gly12Ala	p.G12A	ENST00000367698	1/7	15	11	3	15	15	0	SERPINC1,missense_variant,p.Gly12Ala,ENST00000367698,;RNA5SP67,upstream_gene_variant,,ENST00000516422,;SERPINC1,non_coding_transcript_exon_variant,,ENST00000494024,;SERPINC1,upstream_gene_variant,,ENST00000487183,;	G	ENSG00000117601	ENST00000367698	Transcript	missense_variant	154	35	12	G/A	gGa/gCa	.	.	.	-1	SERPINC1	HGNC	775	protein_coding	YES	CCDS1313.1	ENSP00000356671	ANT3_HUMAN	Q9UE54_HUMAN,Q9UBW9_HUMAN,Q8J001_HUMAN	UPI000002C0C1	.	tolerated_low_confidence(0.15)	benign(0.003)	1/7	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTTCCAGAG	.	5	BLCA
RC3H1	0	.	GRCh37	1	173947732	173947732	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.996G>C	p.Gln332His	p.Q332H	ENST00000367696	7/20	62	52	9	64	64	0	RC3H1,missense_variant,p.Gln332His,ENST00000367694,;RC3H1,missense_variant,p.Gln332His,ENST00000258349,;RC3H1,missense_variant,p.Gln332His,ENST00000367696,;RC3H1,downstream_gene_variant,,ENST00000484867,;	G	ENSG00000135870	ENST00000367696	Transcript	missense_variant	1348	996	332	Q/H	caG/caC	.	.	.	-1	RC3H1	HGNC	29434	protein_coding	YES	CCDS30940.1	ENSP00000356669	RC3H1_HUMAN	B9EGU6_HUMAN	UPI00001D7DA8	.	deleterious(0)	probably_damaging(0.998)	7/20	.	hmmpanther:PTHR13139,hmmpanther:PTHR13139:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCTGTGC	.	5	BLCA
TNN	0	.	GRCh37	1	175049448	175049448	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.934G>T	p.Glu312Ter	p.E312*	ENST00000239462	4/19	59	41	17	42	42	0	TNN,stop_gained,p.Glu312Ter,ENST00000239462,;	T	ENSG00000120332	ENST00000239462	Transcript	stop_gained	1047	934	312	E/*	Gag/Tag	.	.	.	1	TNN	HGNC	22942	protein_coding	YES	CCDS30943.1	ENSP00000239462	TENN_HUMAN	.	UPI00001D7DA9	.	.	.	4/19	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF167,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAAGGAGCAG	.	5	BLCA
PAPPA2	0	.	GRCh37	1	176671771	176671771	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3265T>G	p.Tyr1089Asp	p.Y1089D	ENST00000367662	9/23	59	29	30	48	48	0	PAPPA2,missense_variant,p.Tyr1089Asp,ENST00000367662,;	G	ENSG00000116183	ENST00000367662	Transcript	missense_variant	4429	3265	1089	Y/D	Tac/Gac	.	.	.	1	PAPPA2	HGNC	14615	protein_coding	YES	CCDS41438.1	ENSP00000356634	PAPP2_HUMAN	.	UPI000004A835	.	deleterious(0)	probably_damaging(0.999)	9/23	.	hmmpanther:PTHR19325:SF349,hmmpanther:PTHR19325,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCAGTACCAA	.	5	BLCA
RASAL2	0	.	GRCh37	1	178442459	178442459	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*85G>C	.	.	ENST00000367649	18/18	12	9	3	9	9	0	RASAL2,3_prime_UTR_variant,,ENST00000462775,;RASAL2,3_prime_UTR_variant,,ENST00000367649,;RASAL2,3_prime_UTR_variant,,ENST00000448150,;RASAL2,3_prime_UTR_variant,,ENST00000433130,;	C	ENSG00000075391	ENST00000367649	Transcript	3_prime_UTR_variant	4280	.	.	.	.	.	.	.	1	RASAL2	HGNC	9874	protein_coding	YES	CCDS1321.2	ENSP00000356621	NGAP_HUMAN	Q8IW42_HUMAN,Q6P4F9_HUMAN	UPI00019B254F	.	.	.	18/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTACAGAATGT	.	2	BLCA
TOR1AIP2	0	.	GRCh37	1	179815353	179815353	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1266C>G	p.%3D	p.L422L	ENST00000367612	6/6	91	62	29	99	99	0	TOR1AIP2,synonymous_variant,p.%3D,ENST00000609928,;TOR1AIP2,synonymous_variant,p.%3D,ENST00000367612,;	C	ENSG00000169905	ENST00000367612	Transcript	synonymous_variant	1654	1266	422	L	ctC/ctG	.	.	.	-1	TOR1AIP2	HGNC	24055	protein_coding	YES	CCDS1334.1	ENSP00000356584	TOIP2_HUMAN	.	UPI00000711A4	.	.	.	6/6	.	Pfam_domain:PF05609,hmmpanther:PTHR18843:SF2,hmmpanther:PTHR18843	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAGAGTAA	.	5	BLCA
ACBD6	0	.	GRCh37	1	180461406	180461406	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382C>G	p.Gln128Glu	p.Q128E	ENST00000367595	3/8	50	36	14	55	55	0	ACBD6,missense_variant,p.Gln128Glu,ENST00000367595,;	C	ENSG00000135847	ENST00000367595	Transcript	missense_variant	1070	382	128	Q/E	Cag/Gag	.	.	.	-1	ACBD6	HGNC	23339	protein_coding	YES	CCDS1339.1	ENSP00000356567	ACBD6_HUMAN	.	UPI0000039B39	.	tolerated(0.22)	possibly_damaging(0.701)	3/8	.	Gene3D:1.20.80.10,hmmpanther:PTHR24119,hmmpanther:PTHR24119:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTGAGGAT	.	5	BLCA
XPR1	0	.	GRCh37	1	180849374	180849374	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1971G>A	p.%3D	p.K657K	ENST00000367590	14/15	35	28	7	74	74	0	XPR1,synonymous_variant,p.%3D,ENST00000367589,;XPR1,synonymous_variant,p.%3D,ENST00000367590,;XPR1,downstream_gene_variant,,ENST00000464817,;	A	ENSG00000143324	ENST00000367590	Transcript	synonymous_variant	2169	1971	657	K	aaG/aaA	COSM900483	.	.	1	XPR1	HGNC	12827	protein_coding	YES	CCDS1340.1	ENSP00000356562	XPR1_HUMAN	.	UPI0000071111	.	.	.	14/15	.	hmmpanther:PTHR10783:SF4,hmmpanther:PTHR10783	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGAATCG	.	5	BLCA
MR1	0	.	GRCh37	1	181024377	181024377	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1002C>G	p.Ile334Met	p.I334M	ENST00000367580	6/6	97	82	15	124	124	0	MR1,missense_variant,p.Ile334Met,ENST00000367580,;MR1,missense_variant,p.Ile242Met,ENST00000282990,;MR1,missense_variant,p.Ile207Met,ENST00000434571,;MR1,missense_variant,p.Ile289Met,ENST00000367579,;MR1,non_coding_transcript_exon_variant,,ENST00000438435,;MR1,downstream_gene_variant,,ENST00000367578,;	G	ENSG00000153029	ENST00000367580	Transcript	missense_variant	1007	1002	334	I/M	atC/atG	.	.	.	1	MR1	HGNC	4975	protein_coding	YES	CCDS1342.1	ENSP00000356552	HMR1_HUMAN	.	UPI0000072BD9	.	tolerated(0.26)	benign(0.001)	6/6	.	hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCATCTACCT	.	5	BLCA
COLGALT2	0	.	GRCh37	1	183938560	183938560	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.675G>C	p.Lys225Asn	p.K225N	ENST00000361927	5/12	55	32	23	76	76	0	COLGALT2,missense_variant,p.Lys225Asn,ENST00000361927,;COLGALT2,missense_variant,p.Lys225Asn,ENST00000546159,;COLGALT2,upstream_gene_variant,,ENST00000367520,;	G	ENSG00000198756	ENST00000361927	Transcript	missense_variant	1047	675	225	K/N	aaG/aaC	.	.	.	-1	COLGALT2	HGNC	16790	protein_coding	YES	CCDS1360.1	ENSP00000354960	GT252_HUMAN	Q5SXQ5_HUMAN,B3KT92_HUMAN	UPI000007423A	.	tolerated(0.22)	benign(0.017)	5/12	.	Superfamily_domains:SSF53448,hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTCTTCCA	.	5	BLCA
COLGALT2	0	.	GRCh37	1	183938596	183938596	+	Missense_Mutation	SNP	C	C	G	rs370713646	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639G>C	p.Lys213Asn	p.K213N	ENST00000361927	5/12	38	23	15	60	60	0	COLGALT2,missense_variant,p.Lys213Asn,ENST00000361927,;COLGALT2,missense_variant,p.Lys213Asn,ENST00000546159,;COLGALT2,upstream_gene_variant,,ENST00000367520,;	G	ENSG00000198756	ENST00000361927	Transcript	missense_variant	1011	639	213	K/N	aaG/aaC	rs370713646	.	.	-1	COLGALT2	HGNC	16790	protein_coding	YES	CCDS1360.1	ENSP00000354960	GT252_HUMAN	Q5SXQ5_HUMAN,B3KT92_HUMAN	UPI000007423A	.	deleterious(0)	benign(0.141)	5/12	.	Superfamily_domains:SSF53448,hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF8	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTCCTCTTATA	byFrequency|byCluster	3	BLCA
C1orf21	0	.	GRCh37	1	184446658	184446658	+	Silent	SNP	C	C	T	rs148612527	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15C>T	p.%3D	p.S5S	ENST00000235307	2/6	54	48	6	40	40	0	C1orf21,synonymous_variant,p.%3D,ENST00000235307,;	T	ENSG00000116667	ENST00000235307	Transcript	synonymous_variant	450	15	5	S	tcC/tcT	rs148612527	.	.	1	C1orf21	HGNC	15494	protein_coding	YES	CCDS1362.1	ENSP00000235307	CA021_HUMAN	.	UPI0000071170	.	.	.	2/6	.	hmmpanther:PTHR14974,hmmpanther:PTHR14974:SF2,Pfam_domain:PF15389	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0002	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTCCGCCAA	byCluster|by1000G	2	BLCA
SWT1	0	.	GRCh37	1	185175868	185175868	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1945G>C	p.Glu649Gln	p.E649Q	ENST00000367500	13/19	49	45	4	65	65	0	SWT1,missense_variant,p.Glu649Gln,ENST00000367501,;SWT1,missense_variant,p.Glu649Gln,ENST00000367500,;	C	ENSG00000116668	ENST00000367500	Transcript	missense_variant	2110	1945	649	E/Q	Gag/Cag	.	.	.	1	SWT1	HGNC	16785	protein_coding	YES	CCDS1367.1	ENSP00000356470	SWT1_HUMAN	Q5TC96_HUMAN,B3KSB6_HUMAN	UPI000013D4C5	.	deleterious(0)	probably_damaging(0.948)	13/19	.	hmmpanther:PTHR16161,hmmpanther:PTHR16161:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTATTGAGAGC	.	3	BLCA
HMCN1	0	.	GRCh37	1	185956617	185956617	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2989C>G	p.Pro997Ala	p.P997A	ENST00000271588	20/107	121	108	13	126	126	0	HMCN1,missense_variant,p.Pro997Ala,ENST00000367492,;HMCN1,missense_variant,p.Pro997Ala,ENST00000271588,;HMCN1,non_coding_transcript_exon_variant,,ENST00000485744,;	G	ENSG00000143341	ENST00000271588	Transcript	missense_variant	3218	2989	997	P/A	Cca/Gca	.	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	probably_damaging(0.998)	20/107	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCATTCCAGTA	.	3	BLCA
UBE2T	0	.	GRCh37	1	202302415	202302415	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334C>G	p.Gln112Glu	p.Q112E	ENST00000367274	5/7	183	174	9	205	205	0	UBE2T,missense_variant,p.Gln112Glu,ENST00000367274,;UBE2T,non_coding_transcript_exon_variant,,ENST00000460852,;UBE2T,non_coding_transcript_exon_variant,,ENST00000487227,;	C	ENSG00000077152	ENST00000367274	Transcript	missense_variant	484	334	112	Q/E	Cag/Gag	.	.	.	-1	UBE2T	HGNC	25009	protein_coding	YES	CCDS1425.1	ENSP00000356243	UBE2T_HUMAN	.	UPI0000047FD7	.	deleterious(0.02)	probably_damaging(0.984)	5/7	.	Superfamily_domains:SSF54495,SMART_domains:SM00212,Pfam_domain:PF00179,Gene3D:3.10.110.10,hmmpanther:PTHR24067:SF59,hmmpanther:PTHR24067,PROSITE_profiles:PS50127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTGAATAG	.	2	BLCA
PLA2G2A	0	.	GRCh37	1	20304519	20304519	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.281G>C	p.Arg94Thr	p.R94T	ENST00000375111	5/6	52	49	3	62	62	0	PLA2G2A,missense_variant,p.Arg94Thr,ENST00000375111,;PLA2G2A,missense_variant,p.Arg94Thr,ENST00000400520,;PLA2G2A,non_coding_transcript_exon_variant,,ENST00000491964,;PLA2G2A,non_coding_transcript_exon_variant,,ENST00000496748,;PLA2G2A,non_coding_transcript_exon_variant,,ENST00000482011,;PLA2G2A,non_coding_transcript_exon_variant,,ENST00000469162,;PLA2G2A,downstream_gene_variant,,ENST00000461140,;	G	ENSG00000188257	ENST00000375111	Transcript	missense_variant	553	281	94	R/T	aGa/aCa	.	.	.	-1	PLA2G2A	HGNC	9031	protein_coding	YES	CCDS201.1	ENSP00000364252	PA2GA_HUMAN	.	UPI000002D1BF	.	tolerated(0.53)	benign(0.001)	5/6	.	hmmpanther:PTHR11716:SF44,hmmpanther:PTHR11716,Gene3D:1.20.90.10,Pfam_domain:PF00068,SMART_domains:SM00085,Superfamily_domains:SSF48619,Prints_domain:PR00389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGATTCTGCTC	.	2	BLCA
CR1	0	.	GRCh37	1	207669698	207669698	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86C>T	p.Ala29Val	p.A29V	ENST00000367049	1/47	14	11	3	30	30	0	CR1,missense_variant,p.Ala29Val,ENST00000367051,;CR1,missense_variant,p.Ala29Val,ENST00000400960,;CR1,missense_variant,p.Ala29Val,ENST00000367052,;CR1,missense_variant,p.Ala29Val,ENST00000367049,;CR1,missense_variant,p.Ala29Val,ENST00000534202,;CR1,missense_variant,p.Ala5Val,ENST00000529814,;CR1,missense_variant,p.Ala29Val,ENST00000367053,;CR1,non_coding_transcript_exon_variant,,ENST00000367050,;CR1,non_coding_transcript_exon_variant,,ENST00000434033,;CR1,non_coding_transcript_exon_variant,,ENST00000436595,;CR1,non_coding_transcript_exon_variant,,ENST00000450439,;CR1,non_coding_transcript_exon_variant,,ENST00000530487,;	T	ENSG00000203710	ENST00000367049	Transcript	missense_variant	86	86	29	A/V	gCg/gTg	.	.	.	1	CR1	HGNC	2334	protein_coding	YES	CCDS44308.1	ENSP00000356016	.	Q9UQR7_HUMAN,Q9HB99_HUMAN,E9PDY4_HUMAN,B4DPT3_HUMAN	UPI000040E8CF	.	deleterious_low_confidence(0)	possibly_damaging(0.546)	1/47	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-TM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGGCGGTTG	.	2	BLCA
C1orf86	0	.	GRCh37	1	2121157	2121158	+	Frame_Shift_Del	DEL	CA	CA	-	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	CA	CA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.533_534delTG	p.Val178AspfsTer?	p.V178Dfs*?	ENST00000378546	4/4	38	31	7	56	56	0	C1orf86,frameshift_variant,p.Val281AspfsTer?,ENST00000378545,;C1orf86,frameshift_variant,p.Val178AspfsTer?,ENST00000378546,;C1orf86,3_prime_UTR_variant,,ENST00000378543,;C1orf86,5_prime_UTR_variant,,ENST00000400919,;C1orf86,intron_variant,,ENST00000400918,;PRKCZ,downstream_gene_variant,,ENST00000400921,;PRKCZ,downstream_gene_variant,,ENST00000378567,;AL590822.2,upstream_gene_variant,,ENST00000597060,;PRKCZ,downstream_gene_variant,,ENST00000400920,;C1orf86,downstream_gene_variant,,ENST00000420515,;PRKCZ,downstream_gene_variant,,ENST00000461106,;C1orf86,non_coding_transcript_exon_variant,,ENST00000476803,;C1orf86,non_coding_transcript_exon_variant,,ENST00000401813,;C1orf86,non_coding_transcript_exon_variant,,ENST00000487186,;C1orf86,intron_variant,,ENST00000469733,;PRKCZ,downstream_gene_variant,,ENST00000479263,;C1orf86,frameshift_variant,p.Val178AspfsTer12,ENST00000414253,;C1orf86,3_prime_UTR_variant,,ENST00000440825,;C1orf86,3_prime_UTR_variant,,ENST00000428120,;C1orf86,non_coding_transcript_exon_variant,,ENST00000497675,;PRKCZ,downstream_gene_variant,,ENST00000478770,;PRKCZ,downstream_gene_variant,,ENST00000505322,;	-	ENSG00000162585	ENST00000378546	Transcript	frameshift_variant	558-559	533-534	178	V/X	gTG/g	.	.	.	-1	C1orf86	HGNC	26428	protein_coding	YES	CCDS38.2	ENSP00000367808	FAP20_HUMAN	.	UPI000155D483	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E279A|c.836A>C|3,BUFFER|p.E176A|c.527A>C|3	VARSCANI*|PINDEL	CCACGTCACGTCT	.	2	BLCA
RAB3GAP2	0	.	GRCh37	1	220364510	220364510	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1387C>G	p.Gln463Glu	p.Q463E	ENST00000358951	14/35	101	85	15	100	100	0	RAB3GAP2,missense_variant,p.Gln463Glu,ENST00000358951,;RAB3GAP2,intron_variant,,ENST00000478976,;	C	ENSG00000118873	ENST00000358951	Transcript	missense_variant	1504	1387	463	Q/E	Caa/Gaa	COSM3803951	.	.	-1	RAB3GAP2	HGNC	17168	protein_coding	YES	CCDS31028.1	ENSP00000351832	RBGPR_HUMAN	.	UPI0000072269	.	deleterious(0.02)	possibly_damaging(0.885)	14/35	.	Pfam_domain:PF14655,hmmpanther:PTHR12472	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATTGAGCTA	.	4	BLCA
RAB3GAP2	0	.	GRCh37	1	220440324	220440324	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115+5241C>G	.	.	ENST00000358951	.	69	62	7	41	41	0	RAB3GAP2,intron_variant,,ENST00000358951,;RAB3GAP2,non_coding_transcript_exon_variant,,ENST00000462353,;RAB3GAP2,intron_variant,,ENST00000478976,;RAB3GAP2,intron_variant,,ENST00000475769,;RAB3GAP2,intron_variant,,ENST00000474178,;RAB3GAP2,intron_variant,,ENST00000237724,;AURKAPS1,non_coding_transcript_exon_variant,,ENST00000451805,;	C	ENSG00000118873	ENST00000358951	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RAB3GAP2	HGNC	17168	protein_coding	YES	CCDS31028.1	ENSP00000351832	RBGPR_HUMAN	.	UPI0000072269	.	.	.	.	1/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCCAGAGATC	.	3	BLCA
MARC2	0	.	GRCh37	1	220921997	220921997	+	Missense_Mutation	SNP	C	C	T	rs769610751	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124C>T	p.Arg42Cys	p.R42C	ENST00000366913	1/8	13	2	11	12	12	0	MARC2,missense_variant,p.Arg42Cys,ENST00000366913,;MARC2,missense_variant,p.Arg42Cys,ENST00000359316,;MARC2,missense_variant,p.Arg42Cys,ENST00000469583,;	T	ENSG00000117791	ENST00000366913	Transcript	missense_variant	322	124	42	R/C	Cgc/Tgc	rs769610751	.	.	1	MARC2	HGNC	26064	protein_coding	YES	CCDS1525.1	ENSP00000355880	MOSC2_HUMAN	.	UPI000003ED29	.	deleterious(0.04)	unknown(0)	1/8	.	hmmpanther:PTHR14237:SF17,hmmpanther:PTHR14237,Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GGCGCCGCGCA	.	4	BLCA
SDE2	0	.	GRCh37	1	226180135	226180135	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484G>T	p.Glu162Ter	p.E162*	ENST00000272091	4/7	98	82	16	132	132	0	SDE2,stop_gained,p.Glu162Ter,ENST00000272091,;	A	ENSG00000143751	ENST00000272091	Transcript	stop_gained	503	484	162	E/*	Gag/Tag	.	.	.	-1	SDE2	HGNC	26643	protein_coding	YES	CCDS41473.1	ENSP00000272091	SDE2_HUMAN	.	UPI0000204007	.	.	.	4/7	.	hmmpanther:PTHR12786:SF1,hmmpanther:PTHR12786,Pfam_domain:PF13019	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCATGGC	.	5	BLCA
AGT	0	.	GRCh37	1	230841752	230841752	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1051T>C	p.Ser351Pro	p.S351P	ENST00000366667	3/5	78	57	21	106	106	0	AGT,missense_variant,p.Ser351Pro,ENST00000366667,;RP11-99J16__A.2,downstream_gene_variant,,ENST00000412344,;	G	ENSG00000135744	ENST00000366667	Transcript	missense_variant	1266	1051	351	S/P	Tct/Cct	.	.	.	-1	AGT	HGNC	333	protein_coding	YES	CCDS1585.1	ENSP00000355627	ANGT_HUMAN	B0ZBE2_HUMAN	UPI0000125B13	.	deleterious(0.02)	benign(0.031)	3/5	.	hmmpanther:PTHR11461:SF13,hmmpanther:PTHR11461,Gene3D:2.30.39.10,Pfam_domain:PF00079,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCAGAGGCAT	.	5	BLCA
GNPAT	0	.	GRCh37	1	231402031	231402031	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.933G>A	p.%3D	p.L311L	ENST00000366647	8/16	52	43	8	109	109	0	GNPAT,synonymous_variant,p.%3D,ENST00000366646,;GNPAT,synonymous_variant,p.%3D,ENST00000416000,;GNPAT,synonymous_variant,p.%3D,ENST00000366647,;GNPAT,downstream_gene_variant,,ENST00000436239,;GNPAT,non_coding_transcript_exon_variant,,ENST00000492459,;	A	ENSG00000116906	ENST00000366647	Transcript	synonymous_variant	1102	933	311	L	ctG/ctA	.	.	.	1	GNPAT	HGNC	4416	protein_coding	YES	CCDS1592.1	ENSP00000355607	GNPAT_HUMAN	Q71V38_HUMAN	UPI0000000A2A	.	.	.	8/16	.	Superfamily_domains:0039877,PIRSF_domain:PIRSF000437,PIRSF_domain:PIRSF500063,hmmpanther:PTHR12563:SF9,hmmpanther:PTHR12563	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCTGAAAGC	.	5	BLCA
EPHB2	0	.	GRCh37	1	23233234	23233234	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1923G>C	p.%3D	p.L641L	ENST00000374632	11/16	22	17	4	33	33	0	EPHB2,synonymous_variant,p.%3D,ENST00000374627,;EPHB2,synonymous_variant,p.%3D,ENST00000374632,;EPHB2,synonymous_variant,p.%3D,ENST00000400191,;EPHB2,synonymous_variant,p.%3D,ENST00000374630,;	C	ENSG00000133216	ENST00000374632	Transcript	synonymous_variant	1936	1923	641	L	ctG/ctC	.	.	.	1	EPHB2	HGNC	3393	protein_coding	YES	CCDS230.1	ENSP00000363763	EPHB2_HUMAN	.	UPI000016135C	.	.	.	11/16	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF123,PROSITE_patterns:PS00107,Pfam_domain:PF07714,Gene3D:3.30.200.20,PIRSF_domain:PIRSF000666,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTGAAGCT	.	5	BLCA
FMN2	0	.	GRCh37	1	240256741	240256741	+	Missense_Mutation	SNP	G	G	C	rs571454130	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332G>C	p.Lys444Asn	p.K444N	ENST00000319653	1/18	71	57	14	112	112	0	FMN2,missense_variant,p.Lys444Asn,ENST00000319653,;FMN2,intron_variant,,ENST00000447095,;	C	ENSG00000155816	ENST00000319653	Transcript	missense_variant	1562	1332	444	K/N	aaG/aaC	rs571454130	.	.	1	FMN2	HGNC	14074	protein_coding	YES	CCDS31069.2	ENSP00000318884	FMN2_HUMAN	Q96L17_HUMAN,B4DN09_HUMAN	UPI00015FA087	.	.	unknown(0)	1/18	.	hmmpanther:PTHR23213:SF185,hmmpanther:PTHR23213	C:0.0002	C:0	C:0	.	C:0	C:0	C:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCAAGAGGCG	by1000G	5	BLCA
GREM2	0	.	GRCh37	1	240656296	240656296	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.480G>A	p.%3D	p.V160V	ENST00000318160	2/2	52	41	11	75	75	0	GREM2,synonymous_variant,p.%3D,ENST00000318160,;	T	ENSG00000180875	ENST00000318160	Transcript	synonymous_variant	747	480	160	V	gtG/gtA	.	.	.	-1	GREM2	HGNC	17655	protein_coding	YES	CCDS31070.1	ENSP00000318650	GREM2_HUMAN	.	UPI000006F961	.	.	.	2/2	.	PROSITE_profiles:PS01225,hmmpanther:PTHR15283,hmmpanther:PTHR15283:SF2,Pfam_domain:PF03045,SMART_domains:SM00041,PIRSF_domain:PIRSF037254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTTCACGGA	.	5	BLCA
EXO1	0	.	GRCh37	1	242023908	242023908	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.846C>T	p.%3D	p.F282F	ENST00000366548	9/16	82	67	14	104	104	0	EXO1,synonymous_variant,p.%3D,ENST00000348581,;EXO1,synonymous_variant,p.%3D,ENST00000518483,;EXO1,synonymous_variant,p.%3D,ENST00000366548,;EXO1,downstream_gene_variant,,ENST00000437497,;EXO1,downstream_gene_variant,,ENST00000423131,;EXO1,non_coding_transcript_exon_variant,,ENST00000469419,;EXO1,downstream_gene_variant,,ENST00000493702,;	T	ENSG00000174371	ENST00000366548	Transcript	synonymous_variant	1439	846	282	F	ttC/ttT	.	.	.	1	EXO1	HGNC	3511	protein_coding	YES	CCDS1620.1	ENSP00000355506	EXO1_HUMAN	Q5T399_HUMAN	UPI000013DDA8	.	.	.	9/16	.	hmmpanther:PTHR11081:SF8,hmmpanther:PTHR11081,Superfamily_domains:SSF47807	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCCTCTA	.	5	BLCA
AKT3	0	.	GRCh37	1	243716087	243716087	+	Silent	SNP	G	G	A	rs530726609	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1107C>T	p.%3D	p.L369L	ENST00000366539	11/14	56	51	5	78	78	0	AKT3,synonymous_variant,p.%3D,ENST00000263826,;AKT3,synonymous_variant,p.%3D,ENST00000366539,;AKT3,synonymous_variant,p.%3D,ENST00000336199,;AKT3,synonymous_variant,p.%3D,ENST00000366540,;RP11-269F20.1,downstream_gene_variant,,ENST00000439849,;	A	ENSG00000117020	ENST00000366539	Transcript	synonymous_variant	1308	1107	369	L	ctC/ctT	rs530726609	.	.	-1	AKT3	HGNC	393	protein_coding	YES	CCDS31077.1	ENSP00000355497	AKT3_HUMAN	F8VS91_HUMAN	UPI00000335E8	.	.	.	11/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24352,hmmpanther:PTHR24352:SF29,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAAGAGAGTGT	by1000G	3	BLCA
EXTL1	0	.	GRCh37	1	26357081	26357081	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1096C>G	p.Leu366Val	p.L366V	ENST00000374280	4/11	41	36	5	59	59	0	EXTL1,missense_variant,p.Leu366Val,ENST00000374280,;EXTL1,non_coding_transcript_exon_variant,,ENST00000481377,;EXTL1,non_coding_transcript_exon_variant,,ENST00000484339,;EXTL1,upstream_gene_variant,,ENST00000470037,;	G	ENSG00000158008	ENST00000374280	Transcript	missense_variant	1963	1096	366	L/V	Ctg/Gtg	.	.	.	1	EXTL1	HGNC	3515	protein_coding	YES	CCDS271.1	ENSP00000363398	EXTL1_HUMAN	.	UPI000013DF48	.	deleterious(0)	probably_damaging(0.997)	4/11	.	hmmpanther:PTHR11062:SF8,hmmpanther:PTHR11062	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACTCTGGAG	.	4	BLCA
CEP85	0	.	GRCh37	1	26586208	26586208	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1256C>T	p.Ser419Phe	p.S419F	ENST00000252992	7/14	86	72	14	101	100	1	CEP85,missense_variant,p.Ser93Phe,ENST00000453146,;CEP85,missense_variant,p.Ser419Phe,ENST00000252992,;CEP85,missense_variant,p.Ser368Phe,ENST00000451429,;CEP85,downstream_gene_variant,,ENST00000480446,;CEP85,missense_variant,p.Ser419Phe,ENST00000476272,;RP11-231P20.5,downstream_gene_variant,,ENST00000603670,;	T	ENSG00000130695	ENST00000252992	Transcript	missense_variant	1387	1256	419	S/F	tCt/tTt	.	.	.	1	CEP85	HGNC	25309	protein_coding	YES	CCDS277.1	ENSP00000252992	CEP85_HUMAN	.	UPI0000231C37	.	deleterious(0.03)	possibly_damaging(0.459)	7/14	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31075,hmmpanther:PTHR31075:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTCTGAAG	.	5	BLCA
ARID1A	0	.	GRCh37	1	27087386	27087386	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1960G>A	p.Glu654Lys	p.E654K	ENST00000324856	5/20	41	33	8	84	84	0	ARID1A,missense_variant,p.Glu654Lys,ENST00000457599,;ARID1A,missense_variant,p.Glu271Lys,ENST00000374152,;ARID1A,missense_variant,p.Glu654Lys,ENST00000324856,;RN7SL501P,upstream_gene_variant,,ENST00000578818,;	A	ENSG00000117713	ENST00000324856	Transcript	missense_variant	2331	1960	654	E/K	Gaa/Aaa	.	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	unknown(0)	5/20	.	hmmpanther:PTHR12656,hmmpanther:PTHR12656:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGACAGAAGGA	.	5	BLCA
GPATCH3	0	.	GRCh37	1	27220757	27220757	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1021G>C	p.Asp341His	p.D341H	ENST00000361720	3/7	77	70	7	102	102	0	GPATCH3,missense_variant,p.Asp341His,ENST00000361720,;GPN2,upstream_gene_variant,,ENST00000431781,;GPATCH3,upstream_gene_variant,,ENST00000450844,;GPATCH3,upstream_gene_variant,,ENST00000445019,;GPN2,upstream_gene_variant,,ENST00000374135,;	G	ENSG00000198746	ENST00000361720	Transcript	missense_variant	1045	1021	341	D/H	Gat/Cat	COSM3804829	.	.	-1	GPATCH3	HGNC	25720	protein_coding	YES	CCDS290.1	ENSP00000354645	GPTC3_HUMAN	Q5JYG5_HUMAN,B4E015_HUMAN	UPI000003E830	.	deleterious(0)	probably_damaging(1)	3/7	.	hmmpanther:PTHR14390	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCATCAGTAT	.	4	BLCA
OPRD1	0	.	GRCh37	1	29189401	29189401	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725G>C	p.Ser242Thr	p.S242T	ENST00000234961	3/3	28	23	5	34	34	0	OPRD1,missense_variant,p.Ser242Thr,ENST00000234961,;RP1-212P9.2,upstream_gene_variant,,ENST00000443593,;	C	ENSG00000116329	ENST00000234961	Transcript	missense_variant	967	725	242	S/T	aGt/aCt	.	.	.	1	OPRD1	HGNC	8153	protein_coding	YES	CCDS329.1	ENSP00000234961	OPRD_HUMAN	.	UPI0000130D94	.	deleterious(0.04)	benign(0.002)	3/3	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50262,hmmpanther:PTHR24229,hmmpanther:PTHR24229:SF2,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGCAGTGTGC	.	5	BLCA
SRSF4	0	.	GRCh37	1	29475582	29475582	+	Missense_Mutation	SNP	C	C	G	rs182722124	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825G>C	p.Glu275Asp	p.E275D	ENST00000373795	6/6	283	259	24	380	380	0	SRSF4,missense_variant,p.Glu275Asp,ENST00000373795,;SRSF4,3_prime_UTR_variant,,ENST00000546138,;RP11-242O24.3,upstream_gene_variant,,ENST00000413004,;RP11-242O24.5,upstream_gene_variant,,ENST00000450108,;SRSF4,non_coding_transcript_exon_variant,,ENST00000466448,;	G	ENSG00000116350	ENST00000373795	Transcript	missense_variant	1060	825	275	E/D	gaG/gaC	rs182722124	.	.	-1	SRSF4	HGNC	10786	protein_coding	YES	CCDS333.1	ENSP00000362900	SRSF4_HUMAN	.	UPI00001358BF	.	tolerated_low_confidence(0.49)	benign(0.217)	6/6	.	hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF11	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATCTTCTCTTC	byCluster|by1000G	3	BLCA
SRSF4	0	.	GRCh37	1	29475690	29475690	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.717G>C	p.%3D	p.R239R	ENST00000373795	6/6	84	77	7	132	132	0	SRSF4,missense_variant,p.Glu138Gln,ENST00000546138,;SRSF4,synonymous_variant,p.%3D,ENST00000373795,;RP11-242O24.3,upstream_gene_variant,,ENST00000413004,;RP11-242O24.5,upstream_gene_variant,,ENST00000450108,;SRSF4,non_coding_transcript_exon_variant,,ENST00000466448,;	G	ENSG00000116350	ENST00000373795	Transcript	synonymous_variant	952	717	239	R	cgG/cgC	.	.	.	-1	SRSF4	HGNC	10786	protein_coding	YES	CCDS333.1	ENSP00000362900	SRSF4_HUMAN	.	UPI00001358BF	.	.	.	6/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGCTCCGACT	.	2	BLCA
TP73	0	.	GRCh37	1	3624168	3624168	+	Missense_Mutation	SNP	C	C	T	rs749787981	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.242C>T	p.Ser81Leu	p.S81L	ENST00000378295	4/14	77	66	11	97	97	0	TP73,missense_variant,p.Ser32Leu,ENST00000378288,;TP73,missense_variant,p.Ser81Leu,ENST00000604479,;TP73,missense_variant,p.Ser81Leu,ENST00000604074,;TP73,missense_variant,p.Ser81Leu,ENST00000354437,;TP73,missense_variant,p.Ser32Leu,ENST00000378285,;TP73,missense_variant,p.Ser81Leu,ENST00000603362,;TP73,missense_variant,p.Ser81Leu,ENST00000346387,;TP73,missense_variant,p.Ser81Leu,ENST00000378295,;TP73,missense_variant,p.Ser32Leu,ENST00000378280,;TP73,missense_variant,p.Ser81Leu,ENST00000357733,;TP73,missense_variant,p.Ser10Leu,ENST00000378290,;RP5-1092A11.2,downstream_gene_variant,,ENST00000416554,;TP73,non_coding_transcript_exon_variant,,ENST00000604194,;TP73,non_coding_transcript_exon_variant,,ENST00000603364,;	T	ENSG00000078900	ENST00000378295	Transcript	missense_variant	397	242	81	S/L	tCg/tTg	rs749787981	.	.	1	TP73	HGNC	12003	protein_coding	YES	CCDS49.1	ENSP00000367545	P73_HUMAN	B7Z3B4_HUMAN	UPI000002E988	.	deleterious(0.01)	benign(0.148)	4/14	.	hmmpanther:PTHR11447,hmmpanther:PTHR11447:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGGCCA	.	4	BLCA
MACF1	0	.	GRCh37	1	39752955	39752955	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1524-3C>T	.	.	ENST00000545844	.	61	46	15	111	111	0	MACF1,splice_region_variant,,ENST00000361689,;MACF1,splice_region_variant,,ENST00000564288,;MACF1,splice_region_variant,,ENST00000530262,;MACF1,splice_region_variant,,ENST00000539005,;MACF1,splice_region_variant,,ENST00000372915,;MACF1,splice_region_variant,,ENST00000317713,;MACF1,splice_region_variant,,ENST00000567887,;MACF1,splice_region_variant,,ENST00000545844,;MACF1,splice_region_variant,,ENST00000524432,;MACF1,downstream_gene_variant,,ENST00000536367,;MACF1,splice_region_variant,,ENST00000496804,;MACF1,splice_region_variant,,ENST00000484393,;MACF1,downstream_gene_variant,,ENST00000485063,;MACF1,downstream_gene_variant,,ENST00000472385,;	T	ENSG00000127603	ENST00000545844	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	.	.	14/93	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCAGGGT	.	4	BLCA
MACF1	0	.	GRCh37	1	39918000	39918000	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14414G>A	p.Arg4805Gln	p.R4805Q	ENST00000545844	82/94	64	51	13	108	108	0	MACF1,missense_variant,p.Arg3809Gln,ENST00000372925,;MACF1,missense_variant,p.Arg4805Gln,ENST00000361689,;MACF1,missense_variant,p.Arg5307Gln,ENST00000289893,;MACF1,missense_variant,p.Arg6864Gln,ENST00000564288,;MACF1,missense_variant,p.Arg4675Gln,ENST00000539005,;MACF1,missense_variant,p.Arg6763Gln,ENST00000372915,;MACF1,missense_variant,p.Arg4805Gln,ENST00000317713,;MACF1,missense_variant,p.Arg6901Gln,ENST00000567887,;MACF1,missense_variant,p.Arg4805Gln,ENST00000545844,;MACF1,upstream_gene_variant,,ENST00000360115,;MACF1,upstream_gene_variant,,ENST00000497964,;MACF1,upstream_gene_variant,,ENST00000487656,;	A	ENSG00000127603	ENST00000545844	Transcript	missense_variant	14522	14414	4805	R/Q	cGg/cAg	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	probably_damaging(0.999)	82/94	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Gene3D:1.20.58.60,Pfam_domain:PF00435	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCCGGCTTG	.	5	BLCA
PABPC4	0	.	GRCh37	1	40029381	40029381	+	Missense_Mutation	SNP	G	G	A	rs141523814	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1573C>T	p.Arg525Cys	p.R525C	ENST00000372858	12/16	57	39	18	58	58	0	PABPC4,missense_variant,p.Arg525Cys,ENST00000372858,;PABPC4,missense_variant,p.Arg480Cys,ENST00000372862,;PABPC4,missense_variant,p.Arg64Cys,ENST00000437136,;PABPC4,missense_variant,p.Arg218Cys,ENST00000527718,;PABPC4,missense_variant,p.Arg509Cys,ENST00000372857,;PABPC4,missense_variant,p.Arg496Cys,ENST00000372856,;PABPC4,missense_variant,p.Arg427Cys,ENST00000421687,;PABPC4,upstream_gene_variant,,ENST00000530186,;SNORA55,downstream_gene_variant,,ENST00000364587,;RP11-69E11.8,upstream_gene_variant,,ENST00000415255,;PABPC4,non_coding_transcript_exon_variant,,ENST00000468476,;PABPC4,non_coding_transcript_exon_variant,,ENST00000492468,;PABPC4,non_coding_transcript_exon_variant,,ENST00000525045,;PABPC4,non_coding_transcript_exon_variant,,ENST00000484555,;PABPC4,non_coding_transcript_exon_variant,,ENST00000477556,;PABPC4,downstream_gene_variant,,ENST00000470443,;PABPC4,downstream_gene_variant,,ENST00000461578,;PABPC4,downstream_gene_variant,,ENST00000513632,;PABPC4,downstream_gene_variant,,ENST00000483770,;PABPC4,upstream_gene_variant,,ENST00000482028,;PABPC4,downstream_gene_variant,,ENST00000525669,;PABPC4,downstream_gene_variant,,ENST00000525751,;	A	ENSG00000090621	ENST00000372858	Transcript	missense_variant	2023	1573	525	R/C	Cgc/Tgc	rs141523814	.	.	-1	PABPC4	HGNC	8557	protein_coding	YES	CCDS44115.1	ENSP00000361949	PABP4_HUMAN	B1ANR1_HUMAN	UPI00002057C5	.	deleterious(0.03)	benign(0.049)	12/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24011,hmmpanther:PTHR24011:SF265,TIGRFAM_domain:TIGR01628	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCGCGTGGCG	byCluster	5	BLCA
RLF	0	.	GRCh37	1	40668210	40668210	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.734C>G	p.Ser245Ter	p.S245*	ENST00000372771	5/8	51	44	7	66	66	0	RLF,stop_gained,p.Ser245Ter,ENST00000372771,;	G	ENSG00000117000	ENST00000372771	Transcript	stop_gained	761	734	245	S/*	tCa/tGa	.	.	.	1	RLF	HGNC	10025	protein_coding	YES	CCDS448.1	ENSP00000361857	RLF_HUMAN	.	UPI000013C9DA	.	.	.	5/8	.	hmmpanther:PTHR15507:SF18,hmmpanther:PTHR15507	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATTTCAAATG	.	4	BLCA
FOXJ3	0	.	GRCh37	1	42645371	42645371	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*10C>T	.	.	ENST00000372572	15/15	42	26	15	71	71	0	FOXJ3,3_prime_UTR_variant,,ENST00000372572,;FOXJ3,3_prime_UTR_variant,,ENST00000361776,;FOXJ3,3_prime_UTR_variant,,ENST00000372573,;FOXJ3,3_prime_UTR_variant,,ENST00000545068,;FOXJ3,3_prime_UTR_variant,,ENST00000361346,;FOXJ3,3_prime_UTR_variant,,ENST00000372571,;	A	ENSG00000198815	ENST00000372572	Transcript	3_prime_UTR_variant	2191	.	.	.	.	.	.	.	-1	FOXJ3	HGNC	29178	protein_coding	YES	CCDS30689.1	ENSP00000361653	FOXJ3_HUMAN	F6VXT0_HUMAN,C9JXI1_HUMAN	UPI000013D359	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGCAGAAACA	.	5	BLCA
KDM4A	0	.	GRCh37	1	44137182	44137182	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1370C>G	p.Ser457Cys	p.S457C	ENST00000372396	11/22	60	45	15	67	67	0	KDM4A,missense_variant,p.Ser457Cys,ENST00000372396,;KDM4A,downstream_gene_variant,,ENST00000463151,;KDM4A,downstream_gene_variant,,ENST00000472265,;KDM4A,downstream_gene_variant,,ENST00000485249,;	G	ENSG00000066135	ENST00000372396	Transcript	missense_variant	1504	1370	457	S/C	tCt/tGt	.	.	.	1	KDM4A	HGNC	22978	protein_coding	YES	CCDS491.1	ENSP00000361473	KDM4A_HUMAN	B4DGH3_HUMAN	UPI000013D35A	.	deleterious(0.01)	benign(0.109)	11/22	.	hmmpanther:PTHR10694:SF36,hmmpanther:PTHR10694	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTCTGACT	.	5	BLCA
BEST4	0	.	GRCh37	1	45250955	45250955	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.737C>G	p.Ser246Cys	p.S246C	ENST00000372207	6/9	19	15	4	36	36	0	BEST4,missense_variant,p.Ser246Cys,ENST00000372207,;RPS15AP11,upstream_gene_variant,,ENST00000594193,;RPS15AP11,upstream_gene_variant,,ENST00000455333,;	C	ENSG00000142959	ENST00000372207	Transcript	missense_variant	737	737	246	S/C	tCt/tGt	.	.	.	-1	BEST4	HGNC	17106	protein_coding	YES	CCDS514.1	ENSP00000361281	BEST4_HUMAN	.	UPI000006D85E	.	deleterious(0)	probably_damaging(0.997)	6/9	.	Pfam_domain:PF01062,hmmpanther:PTHR10736:SF3,hmmpanther:PTHR10736	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAAAGAGTAG	.	2	BLCA
MAST2	0	.	GRCh37	1	46295205	46295205	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420G>C	p.Met140Ile	p.M140I	ENST00000361297	3/29	53	41	11	84	84	0	MAST2,missense_variant,p.Met140Ile,ENST00000361297,;MAST2,missense_variant,p.Met140Ile,ENST00000372009,;MAST2,non_coding_transcript_exon_variant,,ENST00000470809,;	C	ENSG00000086015	ENST00000361297	Transcript	missense_variant	703	420	140	M/I	atG/atC	.	.	.	1	MAST2	HGNC	19035	protein_coding	YES	CCDS41326.1	ENSP00000354671	MAST2_HUMAN	Q9NT11_HUMAN	UPI0000458AEB	.	tolerated_low_confidence(0.06)	benign(0.057)	3/29	.	hmmpanther:PTHR24356:SF136,hmmpanther:PTHR24356	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAATGAGAAA	.	5	BLCA
CYP4Z1	0	.	GRCh37	1	47550566	47550566	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>G	p.Leu230Val	p.L230V	ENST00000334194	6/12	104	88	16	125	125	0	CYP4Z1,missense_variant,p.Leu230Val,ENST00000334194,;	G	ENSG00000186160	ENST00000334194	Transcript	missense_variant	691	688	230	L/V	Cta/Gta	.	.	.	1	CYP4Z1	HGNC	20583	protein_coding	YES	CCDS545.1	ENSP00000334246	CP4Z1_HUMAN	.	UPI00000477F8	.	tolerated(0.5)	possibly_damaging(0.874)	6/12	.	Superfamily_domains:SSF48264,Gene3D:1.10.630.10,Pfam_domain:PF00067,hmmpanther:PTHR24290,hmmpanther:PTHR24290:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	ATTTTCTACAT	.	3	BLCA
AJAP1	0	.	GRCh37	1	4834503	4834503	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1180C>T	p.Arg394Trp	p.R394W	ENST00000378191	5/6	56	45	11	106	105	1	AJAP1,missense_variant,p.Arg394Trp,ENST00000378191,;AJAP1,missense_variant,p.Arg394Trp,ENST00000378190,;	T	ENSG00000196581	ENST00000378191	Transcript	missense_variant	1561	1180	394	R/W	Cgg/Tgg	.	.	.	1	AJAP1	HGNC	30801	protein_coding	YES	CCDS54.1	ENSP00000367433	AJAP1_HUMAN	.	UPI00000728B8	.	deleterious(0)	benign(0.14)	5/6	.	hmmpanther:PTHR32422	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGATCGGCAT	.	5	BLCA
MROH7	0	.	GRCh37	1	55175868	55175868	+	3'UTR	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8G>T	.	.	ENST00000421030	24/24	24	17	7	26	26	0	MROH7,3_prime_UTR_variant,,ENST00000454855,;MROH7,3_prime_UTR_variant,,ENST00000409996,;MROH7,3_prime_UTR_variant,,ENST00000421030,;MROH7,3_prime_UTR_variant,,ENST00000440217,;MROH7,3_prime_UTR_variant,,ENST00000413188,;MROH7,3_prime_UTR_variant,,ENST00000440047,;MROH7,3_prime_UTR_variant,,ENST00000422659,;MROH7,non_coding_transcript_exon_variant,,ENST00000371287,;MROH7-TTC4,intron_variant,,ENST00000414150,;MROH7-TTC4,intron_variant,,ENST00000425300,;MROH7-TTC4,intron_variant,,ENST00000460155,;MROH7-TTC4,intron_variant,,ENST00000606515,;	T	ENSG00000184313	ENST00000421030	Transcript	3_prime_UTR_variant	4265	.	.	.	.	.	.	.	1	MROH7	HGNC	24802	protein_coding	YES	CCDS41342.2	ENSP00000396622	MROH7_HUMAN	C9K0L2_HUMAN,B7ZBM2_HUMAN	UPI000198C4E2	.	.	.	24/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTGAGCCC	.	5	BLCA
DHCR24	0	.	GRCh37	1	55319842	55319842	+	Missense_Mutation	SNP	C	C	A	rs75715411	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1086G>T	p.Lys362Asn	p.K362N	ENST00000371269	7/9	36	30	6	32	32	0	DHCR24,missense_variant,p.Lys146Asn,ENST00000537443,;DHCR24,missense_variant,p.Lys321Asn,ENST00000535035,;DHCR24,missense_variant,p.Lys362Asn,ENST00000371269,;DHCR24,upstream_gene_variant,,ENST00000436604,;	A	ENSG00000116133	ENST00000371269	Transcript	missense_variant	1185	1086	362	K/N	aaG/aaT	rs75715411	.	.	-1	DHCR24	HGNC	2859	protein_coding	YES	CCDS600.1	ENSP00000360316	DHC24_HUMAN	Q3LIE7_HUMAN,B7Z546_HUMAN	UPI00000335D4	.	deleterious(0.05)	possibly_damaging(0.456)	7/9	.	hmmpanther:PTHR10801:SF0,hmmpanther:PTHR10801	T:0.0018	T:0.0061	T:0.0014	.	T:0	T:0	T:0	T:0.0064	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GAGATCTTGGG	byFrequency|byCluster|by1000G	3	BLCA
C1orf87	0	.	GRCh37	1	60456431	60456431	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1555C>G	p.Gln519Glu	p.Q519E	ENST00000371201	12/12	280	219	61	347	347	0	C1orf87,missense_variant,p.Gln153Glu,ENST00000395552,;C1orf87,missense_variant,p.Gln519Glu,ENST00000371201,;C1orf87,missense_variant,p.Gln290Glu,ENST00000450089,;C1orf87,non_coding_transcript_exon_variant,,ENST00000486478,;C1orf87,non_coding_transcript_exon_variant,,ENST00000488027,;C1orf87,downstream_gene_variant,,ENST00000491817,;	C	ENSG00000162598	ENST00000371201	Transcript	missense_variant	1663	1555	519	Q/E	Cag/Gag	.	.	.	-1	C1orf87	HGNC	28547	protein_coding	YES	CCDS614.1	ENSP00000360244	CA087_HUMAN	.	UPI000006E066	.	tolerated(0.16)	benign(0.008)	12/12	.	Gene3D:1.10.238.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTGAGGGC	.	5	BLCA
ICMT	0	.	GRCh37	1	6285271	6285271	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724C>T	p.Arg242Ter	p.R242*	ENST00000343813	5/5	73	55	18	103	103	0	ICMT,stop_gained,p.Arg242Ter,ENST00000343813,;RNF207,downstream_gene_variant,,ENST00000377948,;RNF207,downstream_gene_variant,,ENST00000377939,;ICMT,upstream_gene_variant,,ENST00000495791,;ICMT,3_prime_UTR_variant,,ENST00000489498,;ICMT,3_prime_UTR_variant,,ENST00000474756,;RNF207,downstream_gene_variant,,ENST00000496676,;	A	ENSG00000116237	ENST00000343813	Transcript	stop_gained	753	724	242	R/*	Cga/Tga	.	.	.	-1	ICMT	HGNC	5350	protein_coding	YES	CCDS61.1	ENSP00000343552	ICMT_HUMAN	K7EQW0_HUMAN,B3KS61_HUMAN	UPI00000012C2	.	.	.	5/5	.	PROSITE_profiles:PS51564,hmmpanther:PTHR12714,Pfam_domain:PF04140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATCGCCACA	.	5	BLCA
IL12RB2	0	.	GRCh37	1	67786024	67786024	+	5'UTR	SNP	C	C	T	rs765685802	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28C>T	.	.	ENST00000262345	2/16	52	41	10	66	66	0	IL12RB2,5_prime_UTR_variant,,ENST00000541374,;IL12RB2,5_prime_UTR_variant,,ENST00000544434,;IL12RB2,5_prime_UTR_variant,,ENST00000262345,;IL12RB2,5_prime_UTR_variant,,ENST00000371000,;	T	ENSG00000081985	ENST00000262345	Transcript	5_prime_UTR_variant	613	.	.	.	.	rs765685802	.	.	1	IL12RB2	HGNC	5972	protein_coding	YES	CCDS638.1	ENSP00000262345	I12R2_HUMAN	.	UPI0000046B13	.	.	.	2/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAATACGGAGT	byFrequency	5	BLCA
SRSF11	0	.	GRCh37	1	70715728	70715728	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1116G>C	p.Arg372Ser	p.R372S	ENST00000370950	11/13	28	24	4	36	36	0	SRSF11,missense_variant,p.Arg372Ser,ENST00000405432,;SRSF11,missense_variant,p.Arg372Ser,ENST00000370951,;SRSF11,missense_variant,p.Arg312Ser,ENST00000370949,;SRSF11,missense_variant,p.Arg372Ser,ENST00000370950,;SRSF11,missense_variant,p.Arg379Ser,ENST00000395136,;SRSF11,splice_region_variant,,ENST00000484162,;SRSF11,splice_region_variant,,ENST00000460795,;SRSF11,splice_region_variant,,ENST00000463859,;SRSF11,splice_region_variant,,ENST00000489188,;SRSF11,non_coding_transcript_exon_variant,,ENST00000461935,;	C	ENSG00000116754	ENST00000370950	Transcript	missense_variant	1198	1116	372	R/S	agG/agC	.	.	.	1	SRSF11	HGNC	10782	protein_coding	YES	CCDS647.1	ENSP00000359988	SRS11_HUMAN	Q6N079_HUMAN	UPI00001358C5	.	deleterious(0)	unknown(0)	11/13	.	hmmpanther:PTHR32343,hmmpanther:PTHR32343:SF6,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTAGGAGGTA	.	4	BLCA
MSH4	0	.	GRCh37	1	76262775	76262775	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105C>G	p.%3D	p.L35L	ENST00000263187	1/20	22	16	6	37	37	0	MSH4,synonymous_variant,p.%3D,ENST00000263187,;RABGGTB,downstream_gene_variant,,ENST00000535300,;RABGGTB,downstream_gene_variant,,ENST00000319942,;RABGGTB,downstream_gene_variant,,ENST00000470201,;RABGGTB,downstream_gene_variant,,ENST00000496055,;RABGGTB,downstream_gene_variant,,ENST00000461653,;RABGGTB,downstream_gene_variant,,ENST00000491266,;RABGGTB,downstream_gene_variant,,ENST00000459697,;RABGGTB,downstream_gene_variant,,ENST00000485459,;RABGGTB,downstream_gene_variant,,ENST00000471759,;	G	ENSG00000057468	ENST00000263187	Transcript	synonymous_variant	209	105	35	L	ctC/ctG	.	.	.	1	MSH4	HGNC	7327	protein_coding	YES	CCDS670.1	ENSP00000263187	MSH4_HUMAN	Q5ZEZ0_HUMAN	UPI000006D934	.	.	.	1/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCCAGGA	.	5	BLCA
ZNF644	0	.	GRCh37	1	91406670	91406670	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241G>A	p.Asp81Asn	p.D81N	ENST00000370440	3/6	112	94	18	135	135	0	ZNF644,missense_variant,p.Asp81Asn,ENST00000370440,;ZNF644,missense_variant,p.Asp81Asn,ENST00000337393,;ZNF644,intron_variant,,ENST00000347275,;ZNF644,intron_variant,,ENST00000361321,;ZNF644,non_coding_transcript_exon_variant,,ENST00000498303,;ZNF644,intron_variant,,ENST00000467231,;	T	ENSG00000122482	ENST00000370440	Transcript	missense_variant	459	241	81	D/N	Gac/Aac	.	.	.	-1	ZNF644	HGNC	29222	protein_coding	YES	CCDS731.1	ENSP00000359469	ZN644_HUMAN	Q9NVH8_HUMAN,Q9H8J8_HUMAN,Q8NEI6_HUMAN	UPI000004A010	.	deleterious(0.04)	benign(0.005)	3/6	.	hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTCCTTTG	.	5	BLCA
BCAR3	0	.	GRCh37	1	94048270	94048270	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274C>G	p.Ser425Ter	p.S425*	ENST00000370244	9/14	42	31	10	67	67	0	BCAR3,stop_gained,p.Ser425Ter,ENST00000370243,;BCAR3,stop_gained,p.Ser101Ter,ENST00000539242,;BCAR3,stop_gained,p.Ser425Ter,ENST00000260502,;BCAR3,stop_gained,p.Ser334Ter,ENST00000370247,;BCAR3,stop_gained,p.Ser425Ter,ENST00000370244,;BCAR3,non_coding_transcript_exon_variant,,ENST00000466632,;	C	ENSG00000137936	ENST00000370244	Transcript	stop_gained	1563	1274	425	S/*	tCa/tGa	.	.	.	-1	BCAR3	HGNC	973	protein_coding	YES	CCDS745.1	ENSP00000359264	BCAR3_HUMAN	B3KNL6_HUMAN	UPI000000D971	.	.	.	9/14	.	hmmpanther:PTHR14247,hmmpanther:PTHR14247:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTGAGTTG	.	5	BLCA
ABCD3	0	.	GRCh37	1	94884133	94884133	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99C>A	p.%3D	p.L33L	ENST00000370214	1/23	9	6	3	10	10	0	ABCD3,synonymous_variant,p.%3D,ENST00000370214,;ABCD3,synonymous_variant,p.%3D,ENST00000454898,;ABCD3,synonymous_variant,p.%3D,ENST00000394233,;ABCD3,synonymous_variant,p.%3D,ENST00000315713,;ABCD3,5_prime_UTR_variant,,ENST00000536817,;ABCD3,upstream_gene_variant,,ENST00000468860,;	A	ENSG00000117528	ENST00000370214	Transcript	synonymous_variant	123	99	33	L	ctC/ctA	.	.	.	1	ABCD3	HGNC	67	protein_coding	YES	CCDS749.1	ENSP00000359233	ABCD3_HUMAN	F5GYC1_HUMAN	UPI000004C4C7	.	.	.	1/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11384:SF26,hmmpanther:PTHR11384,TIGRFAM_domain:TIGR00954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCGGCCT	.	2	BLCA
OVOL2	0	.	GRCh37	20	18022275	18022275	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414C>G	p.%3D	p.L138L	ENST00000278780	3/4	35	28	7	45	45	0	OVOL2,synonymous_variant,p.%3D,ENST00000278780,;OVOL2,non_coding_transcript_exon_variant,,ENST00000483661,;OVOL2,non_coding_transcript_exon_variant,,ENST00000486776,;OVOL2,non_coding_transcript_exon_variant,,ENST00000462208,;OVOL2,non_coding_transcript_exon_variant,,ENST00000494030,;	C	ENSG00000125850	ENST00000278780	Transcript	synonymous_variant	657	414	138	L	ctC/ctG	.	.	.	-1	OVOL2	HGNC	15804	protein_coding	YES	CCDS13132.1	ENSP00000278780	OVOL2_HUMAN	.	UPI000013C360	.	.	.	3/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR10032:SF193,hmmpanther:PTHR10032,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	CACTTGAGGTG	.	4	BLCA
ZNF133	0	.	GRCh37	20	18297080	18297080	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1582C>T	p.Arg528Ter	p.R528*	ENST00000377671	7/7	48	37	10	58	58	0	ZNF133,stop_gained,p.Arg434Ter,ENST00000535822,;ZNF133,stop_gained,p.Arg528Ter,ENST00000377671,;ZNF133,stop_gained,p.Arg529Ter,ENST00000316358,;ZNF133,stop_gained,p.Arg529Ter,ENST00000401790,;ZNF133,stop_gained,p.Arg532Ter,ENST00000396026,;ZNF133,stop_gained,p.Arg466Ter,ENST00000402618,;ZNF133,stop_gained,p.Arg434Ter,ENST00000538547,;ZNF133,downstream_gene_variant,,ENST00000360010,;ZNF133,downstream_gene_variant,,ENST00000425686,;ZNF133,downstream_gene_variant,,ENST00000434018,;RP4-568F9.3,upstream_gene_variant,,ENST00000436848,;ZNF133,non_coding_transcript_exon_variant,,ENST00000462170,;	T	ENSG00000125846	ENST00000377671	Transcript	stop_gained	2141	1582	528	R/*	Cga/Tga	.	.	.	1	ZNF133	HGNC	12917	protein_coding	YES	CCDS13134.1	ENSP00000366899	ZN133_HUMAN	F5H289_HUMAN	UPI00001AE6ED	.	.	.	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF119,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R524Q|c.1571G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGGCGAGGC	.	5	BLCA
NOP56	0	.	GRCh37	20	2638598	2638598	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1443G>C	p.Lys481Asn	p.K481N	ENST00000329276	12/12	132	103	28	172	172	0	NOP56,missense_variant,p.Lys481Asn,ENST00000329276,;NOP56,downstream_gene_variant,,ENST00000445139,;IDH3B,downstream_gene_variant,,ENST00000380851,;IDH3B,downstream_gene_variant,,ENST00000380843,;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,;SNORD110,downstream_gene_variant,,ENST00000408189,;SNORA51,downstream_gene_variant,,ENST00000606420,;SNORD57,downstream_gene_variant,,ENST00000448188,;SNORD56,downstream_gene_variant,,ENST00000413522,;NOP56,non_coding_transcript_exon_variant,,ENST00000467857,;NOP56,non_coding_transcript_exon_variant,,ENST00000466447,;NOP56,non_coding_transcript_exon_variant,,ENST00000492135,;NOP56,non_coding_transcript_exon_variant,,ENST00000462630,;IDH3B,downstream_gene_variant,,ENST00000474315,;IDH3B,downstream_gene_variant,,ENST00000462967,;NOP56,downstream_gene_variant,,ENST00000480992,;IDH3B,downstream_gene_variant,,ENST00000491065,;IDH3B,downstream_gene_variant,,ENST00000492240,;NOP56,downstream_gene_variant,,ENST00000480447,;IDH3B,downstream_gene_variant,,ENST00000488299,;NOP56,downstream_gene_variant,,ENST00000471023,;IDH3B,downstream_gene_variant,,ENST00000466999,;NOP56,downstream_gene_variant,,ENST00000484998,;NOP56,downstream_gene_variant,,ENST00000470143,;IDH3B,downstream_gene_variant,,ENST00000477689,;NOP56,downstream_gene_variant,,ENST00000496775,;NOP56,downstream_gene_variant,,ENST00000490753,;NOP56,downstream_gene_variant,,ENST00000494697,;NOP56,downstream_gene_variant,,ENST00000460258,;IDH3B,downstream_gene_variant,,ENST00000466494,;NOP56,downstream_gene_variant,,ENST00000469588,;IDH3B,downstream_gene_variant,,ENST00000479376,;NOP56,3_prime_UTR_variant,,ENST00000467196,;	C	ENSG00000101361	ENST00000329276	Transcript	missense_variant	1959	1443	481	K/N	aaG/aaC	.	.	.	1	NOP56	HGNC	15911	protein_coding	YES	CCDS13030.1	ENSP00000370589	NOP56_HUMAN	Q9BSN3_HUMAN	UPI000016A81D	.	deleterious(0)	benign(0.403)	12/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10894:SF0,hmmpanther:PTHR10894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AAAAAGAAGAA	.	3	BLCA
C20orf194	0	.	GRCh37	20	3324344	3324344	+	Missense_Mutation	SNP	G	G	C	rs768850665	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824C>G	p.Ser275Cys	p.S275C	ENST00000252032	9/37	268	226	41	370	370	0	C20orf194,missense_variant,p.Ser275Cys,ENST00000252032,;C20orf194,upstream_gene_variant,,ENST00000453730,;	C	ENSG00000088854	ENST00000252032	Transcript	missense_variant	892	824	275	S/C	tCt/tGt	rs768850665	.	.	-1	C20orf194	HGNC	17721	protein_coding	YES	CCDS42851.1	ENSP00000252032	CT194_HUMAN	Q3KQR5_HUMAN	UPI0000470A8D	.	deleterious(0)	probably_damaging(0.946)	9/37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GGCTAGAGATC	.	3	BLCA
CEP250	0	.	GRCh37	20	34092461	34092461	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6264G>C	p.Glu2088Asp	p.E2088D	ENST00000397527	30/35	34	25	9	65	65	0	CEP250,missense_variant,p.Glu576Asp,ENST00000422671,;CEP250,missense_variant,p.Glu2032Asp,ENST00000342580,;CEP250,missense_variant,p.Glu2088Asp,ENST00000397527,;CEP250,downstream_gene_variant,,ENST00000425525,;	C	ENSG00000126001	ENST00000397527	Transcript	missense_variant	6984	6264	2088	E/D	gaG/gaC	.	.	.	1	CEP250	HGNC	1859	protein_coding	YES	CCDS13255.1	ENSP00000380661	CP250_HUMAN	Q5JWS6_HUMAN,Q5JWS5_HUMAN,G1UI40_HUMAN	UPI000006FE8F	.	.	benign(0.205)	30/35	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23159,hmmpanther:PTHR23159:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGAGATAAG	.	5	BLCA
ATRN	0	.	GRCh37	20	3543082	3543082	+	Missense_Mutation	SNP	G	G	A	rs749496294	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1607G>A	p.Arg536Gln	p.R536Q	ENST00000262919	9/29	50	37	13	105	105	0	ATRN,missense_variant,p.Arg536Gln,ENST00000446916,;ATRN,missense_variant,p.Arg536Gln,ENST00000262919,;	A	ENSG00000088812	ENST00000262919	Transcript	missense_variant	1675	1607	536	R/Q	cGa/cAa	rs749496294	.	.	1	ATRN	HGNC	885	protein_coding	YES	CCDS13053.1	ENSP00000262919	ATRN_HUMAN	.	UPI000012661C	.	tolerated(0.09)	benign(0.073)	9/29	.	hmmpanther:PTHR10574:SF223,hmmpanther:PTHR10574,Pfam_domain:PF13418,Gene3D:1zgkA00,Superfamily_domains:0047741	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACCGATATG	byFrequency	5	BLCA
RBL1	0	.	GRCh37	20	35690595	35690595	+	Silent	SNP	G	G	A	rs764119167	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.975C>T	p.%3D	p.D325D	ENST00000373664	8/22	44	34	9	68	68	0	RBL1,synonymous_variant,p.%3D,ENST00000373664,;RBL1,synonymous_variant,p.%3D,ENST00000525052,;RBL1,synonymous_variant,p.%3D,ENST00000344359,;	A	ENSG00000080839	ENST00000373664	Transcript	synonymous_variant	1042	975	325	D	gaC/gaT	rs764119167	.	.	-1	RBL1	HGNC	9893	protein_coding	YES	CCDS13289.1	ENSP00000362768	RBL1_HUMAN	.	UPI000013D34E	.	.	.	8/22	.	hmmpanther:PTHR13742:SF20,hmmpanther:PTHR13742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G323G|c.969A>G|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGCGTCTGC	.	5	BLCA
SLC32A1	0	.	GRCh37	20	37356749	37356749	+	Missense_Mutation	SNP	G	G	A	rs776361290	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1045G>A	p.Val349Met	p.V349M	ENST00000217420	2/2	35	24	11	55	55	0	SLC32A1,missense_variant,p.Val349Met,ENST00000217420,;	A	ENSG00000101438	ENST00000217420	Transcript	missense_variant	1308	1045	349	V/M	Gtg/Atg	rs776361290	.	.	1	SLC32A1	HGNC	11018	protein_coding	YES	CCDS13307.1	ENSP00000217420	VIAAT_HUMAN	.	UPI0000043423	.	deleterious(0.01)	possibly_damaging(0.64)	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22950:SF221,hmmpanther:PTHR22950,Pfam_domain:PF01490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGCGTGCTC	.	5	BLCA
SERINC3	0	.	GRCh37	20	43135594	43135594	+	Silent	SNP	G	G	A	rs200749563	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657C>T	p.%3D	p.I219I	ENST00000342374	6/10	37	29	7	56	56	0	SERINC3,synonymous_variant,p.%3D,ENST00000541235,;SERINC3,synonymous_variant,p.%3D,ENST00000255175,;SERINC3,synonymous_variant,p.%3D,ENST00000342374,;SERINC3,upstream_gene_variant,,ENST00000411544,;	A	ENSG00000132824	ENST00000342374	Transcript	synonymous_variant	815	657	219	I	atC/atT	rs200749563	.	.	-1	SERINC3	HGNC	11699	protein_coding	YES	CCDS13333.1	ENSP00000340243	SERC3_HUMAN	Q5H936_HUMAN,B4DUE9_HUMAN	UPI0000136B4D	.	.	.	6/10	.	Transmembrane_helices:TMhelix,Pfam_domain:PF03348,hmmpanther:PTHR10383,hmmpanther:PTHR10383:SF13	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACAGATGAT	byCluster|by1000G	5	BLCA
EPPIN	0	.	GRCh37	20	44170629	44170629	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391+710C>G	.	.	ENST00000555685	.	11	8	3	10	10	0	EPPIN,3_prime_UTR_variant,,ENST00000336443,;EPPIN,3_prime_UTR_variant,,ENST00000354280,;EPPIN,3_prime_UTR_variant,,ENST00000409554,;EPPIN-WFDC6,intron_variant,,ENST00000504988,;EPPIN,intron_variant,,ENST00000555685,;WFDC6,upstream_gene_variant,,ENST00000600168,;WFDC6,upstream_gene_variant,,ENST00000372670,;WFDC6,upstream_gene_variant,,ENST00000372665,;EPPIN,non_coding_transcript_exon_variant,,ENST00000496898,;HSPD1P21,upstream_gene_variant,,ENST00000436541,;RP3-461P17.6,upstream_gene_variant,,ENST00000437445,;	C	ENSG00000101448	ENST00000555685	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	EPPIN	HGNC	15932	protein_coding	YES	CCDS56195.1	ENSP00000452085	EPPI_HUMAN	.	UPI0000E5A337	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGAGGAGGTA	.	2	BLCA
SULF2	0	.	GRCh37	20	46294034	46294034	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1906G>C	p.Glu636Gln	p.E636Q	ENST00000359930	14/21	98	79	19	150	149	1	SULF2,missense_variant,p.Glu636Gln,ENST00000359930,;SULF2,missense_variant,p.Glu636Gln,ENST00000361612,;SULF2,missense_variant,p.Glu636Gln,ENST00000467815,;SULF2,missense_variant,p.Glu636Gln,ENST00000484875,;SULF2,upstream_gene_variant,,ENST00000495544,;SULF2,upstream_gene_variant,,ENST00000433632,;	G	ENSG00000196562	ENST00000359930	Transcript	missense_variant	2758	1906	636	E/Q	Gaa/Caa	.	.	.	-1	SULF2	HGNC	20392	protein_coding	YES	CCDS13408.1	ENSP00000353007	SULF2_HUMAN	Q5BKT1_HUMAN,B1AMP9_HUMAN	UPI000003FFBA	.	deleterious(0.05)	probably_damaging(0.974)	14/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF67,Pfam_domain:PF12548,PIRSF_domain:PIRSF036665	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTTCAATCT	.	5	BLCA
KCNB1	0	.	GRCh37	20	47990230	47990230	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1867G>A	p.Glu623Lys	p.E623K	ENST00000371741	2/2	34	23	10	46	46	0	KCNB1,missense_variant,p.Glu623Lys,ENST00000371741,;	T	ENSG00000158445	ENST00000371741	Transcript	missense_variant	2034	1867	623	E/K	Gaa/Aaa	.	.	.	-1	KCNB1	HGNC	6231	protein_coding	YES	CCDS13418.1	ENSP00000360806	KCNB1_HUMAN	.	UPI000012DC80	.	tolerated_low_confidence(0.36)	benign(0.124)	2/2	.	Pfam_domain:PF03521	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTTCTGGGG	.	5	BLCA
DIDO1	0	.	GRCh37	20	61510987	61510987	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6321C>T	p.%3D	p.G2107G	ENST00000266070	16/16	167	126	41	262	262	0	DIDO1,synonymous_variant,p.%3D,ENST00000266070,;DIDO1,synonymous_variant,p.%3D,ENST00000395343,;	A	ENSG00000101191	ENST00000266070	Transcript	synonymous_variant	6647	6321	2107	G	ggC/ggT	.	.	.	-1	DIDO1	HGNC	2680	protein_coding	YES	CCDS33506.1	ENSP00000266070	DIDO1_HUMAN	.	UPI0000206380	.	.	.	16/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14914:SF7,hmmpanther:PTHR14914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCGGCCCTG	.	5	BLCA
BAGE2	0	.	GRCh37	21	11047567	11047567	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.688G>A	.	.	ENST00000470054	5/10	271	262	8	359	359	0	BAGE2,non_coding_transcript_exon_variant,,ENST00000470054,;BAGE2,non_coding_transcript_exon_variant,,ENST00000496773,;	T	ENSG00000187172	ENST00000470054	Transcript	non_coding_transcript_exon_variant	688	.	.	.	.	.	.	.	-1	BAGE2	HGNC	15723	processed_transcript	YES	.	.	.	.	.	.	.	.	5/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACACACTAGCA	.	2	BLCA
MRPL39	0	.	GRCh37	21	26966216	26966216	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756C>G	p.%3D	p.V252V	ENST00000307301	7/11	32	26	6	49	49	0	MRPL39,synonymous_variant,p.%3D,ENST00000419219,;MRPL39,synonymous_variant,p.%3D,ENST00000352957,;MRPL39,synonymous_variant,p.%3D,ENST00000307301,;	C	ENSG00000154719	ENST00000307301	Transcript	synonymous_variant	798	756	252	V	gtC/gtG	.	.	.	-1	MRPL39	HGNC	14027	protein_coding	YES	CCDS33522.1	ENSP00000305682	RM39_HUMAN	.	UPI00001AEAC0	.	.	.	7/11	.	Superfamily_domains:SSF55186,Gene3D:1tkeA03,hmmpanther:PTHR11451	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTGACTAT	.	5	BLCA
TIAM1	0	.	GRCh37	21	32513513	32513513	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3697G>C	p.Glu1233Gln	p.E1233Q	ENST00000286827	23/29	20	15	4	61	61	0	TIAM1,missense_variant,p.Glu1233Gln,ENST00000286827,;TIAM1,missense_variant,p.Glu1173Gln,ENST00000541036,;	G	ENSG00000156299	ENST00000286827	Transcript	missense_variant	4169	3697	1233	E/Q	Gag/Cag	.	.	.	-1	TIAM1	HGNC	11805	protein_coding	YES	CCDS13609.1	ENSP00000286827	TIAM1_HUMAN	C9JMB5_HUMAN	UPI000013DE6F	.	deleterious(0)	possibly_damaging(0.506)	23/29	.	Superfamily_domains:SSF48065,SMART_domains:SM00325,Pfam_domain:PF00621,Gene3D:1.20.900.10,hmmpanther:PTHR22826:SF88,hmmpanther:PTHR22826,PROSITE_profiles:PS50010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTCATTGA	.	5	BLCA
SYNJ1	0	.	GRCh37	21	34067402	34067402	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787G>A	p.Asp263Asn	p.D263N	ENST00000433931	5/32	100	67	32	179	179	0	SYNJ1,missense_variant,p.Asp263Asn,ENST00000382499,;SYNJ1,missense_variant,p.Asp224Asn,ENST00000429236,;SYNJ1,missense_variant,p.Asp224Asn,ENST00000382491,;SYNJ1,missense_variant,p.Asp224Asn,ENST00000322229,;SYNJ1,missense_variant,p.Asp263Asn,ENST00000433931,;SYNJ1,missense_variant,p.Asp224Asn,ENST00000357345,;SYNJ1,downstream_gene_variant,,ENST00000456084,;	T	ENSG00000159082	ENST00000433931	Transcript	missense_variant	795	787	263	D/N	Gat/Aat	.	.	.	-1	SYNJ1	HGNC	11503	protein_coding	YES	CCDS33539.2	ENSP00000409667	.	J3KQV8_HUMAN,C9J1Z6_HUMAN	UPI0001A47572	.	deleterious(0)	possibly_damaging(0.907)	5/32	.	Pfam_domain:PF02383,hmmpanther:PTHR11200:SF126,hmmpanther:PTHR11200,PROSITE_profiles:PS50275	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCATCAT	.	5	BLCA
SLC5A3	0	.	GRCh37	21	35468986	35468986	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489G>C	p.Asp497His	p.D497H	ENST00000608209	2/2	66	53	12	127	127	0	SLC5A3,missense_variant,p.Asp497His,ENST00000608209,;SLC5A3,missense_variant,p.Asp497His,ENST00000381151,;MRPS6,intron_variant,,ENST00000399312,;MRPS6,intron_variant,,ENST00000477091,;MRPS6,intron_variant,,ENST00000488492,;AP000320.7,intron_variant,,ENST00000362077,;	C	ENSG00000272962	ENST00000608209	Transcript	missense_variant	2001	1489	497	D/H	Gac/Cac	.	.	.	1	SLC5A3	Uniprot_gn	11038	protein_coding	YES	CCDS33549.1	ENSP00000477068	.	.	UPI00001359F3	.	tolerated(0.52)	benign(0.39)	2/2	.	hmmpanther:PTHR11819:SF123,hmmpanther:PTHR11819	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGTGACCAA	.	5	BLCA
RUNX1	0	.	GRCh37	21	36259161	36259161	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330G>C	p.Lys110Asn	p.K110N	ENST00000300305	3/8	26	20	6	61	61	0	RUNX1,missense_variant,p.Lys86Asn,ENST00000486278,;RUNX1,missense_variant,p.Lys98Asn,ENST00000399237,;RUNX1,missense_variant,p.Lys83Asn,ENST00000358356,;RUNX1,missense_variant,p.Lys98Asn,ENST00000325074,;RUNX1,missense_variant,p.Lys83Asn,ENST00000399240,;RUNX1,missense_variant,p.Lys83Asn,ENST00000344691,;RUNX1,missense_variant,p.Lys97Asn,ENST00000455571,;RUNX1,missense_variant,p.Lys110Asn,ENST00000437180,;RUNX1,missense_variant,p.Lys110Asn,ENST00000300305,;RUNX1,downstream_gene_variant,,ENST00000475045,;RUNX1,intron_variant,,ENST00000482318,;	G	ENSG00000159216	ENST00000300305	Transcript	missense_variant	775	330	110	K/N	aaG/aaC	COSM36064,COSM25127	.	.	-1	RUNX1	HGNC	10471	protein_coding	YES	CCDS13639.1	ENSP00000300305	RUNX1_HUMAN	.	UPI000015FE6A	.	deleterious(0)	probably_damaging(0.999)	3/8	.	PROSITE_profiles:PS51062,hmmpanther:PTHR11950,Pfam_domain:PF00853,Gene3D:2.60.40.720,PIRSF_domain:PIRSF009374,Superfamily_domains:SSF49417,Prints_domain:PR00967	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.K110R|c.329A>G|3,BUFFER|p.P113L|c.338C>T|4,BUFFER|p.R107C|c.319C>T|9	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGGTCTTGTT	.	5	BLCA
DOPEY2	0	.	GRCh37	21	37665798	37665798	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6826G>C	p.Asp2276His	p.D2276H	ENST00000399151	37/37	58	40	17	95	95	0	DOPEY2,missense_variant,p.Asp2276His,ENST00000399151,;SRSF9P1,downstream_gene_variant,,ENST00000399149,;	C	ENSG00000142197	ENST00000399151	Transcript	missense_variant	6911	6826	2276	D/H	Gat/Cat	.	.	.	1	DOPEY2	HGNC	1291	protein_coding	YES	CCDS13643.1	ENSP00000382104	DOP2_HUMAN	F8W8U9_HUMAN	UPI000013D876	.	deleterious(0.05)	benign(0.322)	37/37	.	hmmpanther:PTHR14042:SF23,hmmpanther:PTHR14042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACAGATAGC	.	5	BLCA
SIM2	0	.	GRCh37	21	38084900	38084900	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326C>T	p.Ser109Phe	p.S109F	ENST00000290399	3/11	64	46	18	103	103	0	SIM2,missense_variant,p.Ser12Phe,ENST00000483178,;SIM2,missense_variant,p.Ser47Phe,ENST00000431229,;SIM2,missense_variant,p.Ser109Phe,ENST00000430056,;SIM2,missense_variant,p.Ser109Phe,ENST00000290399,;SIM2,downstream_gene_variant,,ENST00000460783,;SIM2,non_coding_transcript_exon_variant,,ENST00000481185,;	T	ENSG00000159263	ENST00000290399	Transcript	missense_variant	939	326	109	S/F	tCt/tTt	.	.	.	1	SIM2	HGNC	10883	protein_coding	YES	CCDS13646.1	ENSP00000290399	SIM2_HUMAN	.	UPI000013599A	.	deleterious(0)	probably_damaging(0.997)	3/11	.	PROSITE_profiles:PS50112,hmmpanther:PTHR23043:SF19,hmmpanther:PTHR23043,Pfam_domain:PF00989,Gene3D:3.30.450.20,SMART_domains:SM00091,Superfamily_domains:SSF55785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTTCTGTCC	.	5	BLCA
C22orf29	0	.	GRCh37	22	19839740	19839740	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45C>G	p.Ile15Met	p.I15M	ENST00000405640	2/2	81	59	22	126	126	0	C22orf29,missense_variant,p.Ile15Met,ENST00000416337,;C22orf29,missense_variant,p.Ile15Met,ENST00000407472,;C22orf29,missense_variant,p.Ile15Met,ENST00000328554,;C22orf29,missense_variant,p.Ile15Met,ENST00000405640,;GNB1L,intron_variant,,ENST00000403325,;GNB1L,intron_variant,,ENST00000453108,;GNB1L,intron_variant,,ENST00000405009,;GNB1L,intron_variant,,ENST00000329517,;GNB1L,intron_variant,,ENST00000460402,;GNB1L,intron_variant,,ENST00000481086,;C22orf29,intron_variant,,ENST00000484072,;	C	ENSG00000215012	ENST00000405640	Transcript	missense_variant	714	45	15	I/M	atC/atG	COSM579493	.	.	-1	C22orf29	HGNC	26112	protein_coding	YES	CCDS13769.1	ENSP00000384924	BOP_HUMAN	C9J0V4_HUMAN	UPI0000207B8F	.	deleterious_low_confidence(0)	probably_damaging(0.986)	2/2	.	hmmpanther:PTHR15503:SF4,hmmpanther:PTHR15503	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCAGATGGG	.	5	BLCA
IGLV5-45	0	.	GRCh37	22	22730594	22730594	+	Missense_Mutation	SNP	C	C	G	rs761763804	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89C>G	p.Ser30Cys	p.S30C	ENST00000390296	2/2	56	46	9	100	100	0	IGLV5-45,missense_variant,p.Ser30Cys,ENST00000390296,;IGLV1-44,upstream_gene_variant,,ENST00000390297,;	G	ENSG00000211650	ENST00000390296	Transcript	missense_variant	117	89	30	S/C	tCt/tGt	rs761763804	.	.	1	IGLV5-45	HGNC	5924	IG_V_gene	YES	.	ENSP00000374831	.	Q5NV82_HUMAN	UPI000011A72F	.	deleterious(0)	probably_damaging(0.998)	2/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF147,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCTGCAT	byFrequency	5	BLCA
BCR	0	.	GRCh37	22	23524111	23524111	+	Missense_Mutation	SNP	G	G	C	rs545230412	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.964G>C	p.Glu322Gln	p.E322Q	ENST00000305877	1/23	17	10	7	29	29	0	BCR,missense_variant,p.Glu322Gln,ENST00000359540,;BCR,missense_variant,p.Glu322Gln,ENST00000305877,;BCR,missense_variant,p.Glu322Gln,ENST00000398512,;BCR,intron_variant,,ENST00000479188,;BCRP8,upstream_gene_variant,,ENST00000412037,;BCRP8,upstream_gene_variant,,ENST00000593306,;	C	ENSG00000186716	ENST00000305877	Transcript	missense_variant	1715	964	322	E/Q	Gag/Cag	rs545230412	.	.	1	BCR	HGNC	1014	protein_coding	YES	CCDS13806.1	ENSP00000303507	BCR_HUMAN	.	UPI000016A088	.	deleterious_low_confidence(0)	possibly_damaging(0.727)	1/23	.	hmmpanther:PTHR23182:SF3,hmmpanther:PTHR23182	C:0.0002	C:0	C:0	.	C:0	C:0.001	C:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTTTTGAGGAT	by1000G	4	BLCA
ZNF70	0	.	GRCh37	22	24086120	24086120	+	Missense_Mutation	SNP	C	C	T	rs202042749	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1208G>A	p.Arg403Gln	p.R403Q	ENST00000341976	2/2	120	95	24	158	158	0	ZNF70,missense_variant,p.Arg403Gln,ENST00000341976,;LL22NC03-N27C7.1,upstream_gene_variant,,ENST00000602816,;	T	ENSG00000187792	ENST00000341976	Transcript	missense_variant	1669	1208	403	R/Q	cGg/cAg	rs202042749	.	.	-1	ZNF70	HGNC	13140	protein_coding	YES	CCDS13812.1	ENSP00000339314	ZNF70_HUMAN	.	UPI0000001C98	.	deleterious(0.04)	benign(0.173)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF82,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGACCGGTGC	byCluster	5	BLCA
EIF4ENIF1	0	.	GRCh37	22	31859710	31859710	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.542G>C	p.Arg181Thr	p.R181T	ENST00000397525	5/19	55	42	13	74	74	0	EIF4ENIF1,missense_variant,p.Arg181Thr,ENST00000423097,;EIF4ENIF1,missense_variant,p.Arg181Thr,ENST00000397525,;EIF4ENIF1,missense_variant,p.Arg181Thr,ENST00000397523,;EIF4ENIF1,missense_variant,p.Arg181Thr,ENST00000330125,;EIF4ENIF1,intron_variant,,ENST00000344710,;EIF4ENIF1,downstream_gene_variant,,ENST00000397520,;EIF4ENIF1,downstream_gene_variant,,ENST00000397518,;RP11-247I13.8,splice_region_variant,,ENST00000439588,;RP11-247I13.11,splice_region_variant,,ENST00000464523,;RP11-247I13.11,splice_region_variant,,ENST00000483736,;DRG1,intron_variant,,ENST00000548143,;	G	ENSG00000184708	ENST00000397525	Transcript	missense_variant	766	542	181	R/T	aGa/aCa	.	.	.	-1	EIF4ENIF1	HGNC	16687	protein_coding	YES	CCDS13898.1	ENSP00000380659	4ET_HUMAN	B1AKL6_HUMAN,B1AKL5_HUMAN	UPI0000124F14	.	deleterious(0.03)	probably_damaging(0.994)	5/19	.	Low_complexity_(Seg):seg,Pfam_domain:PF10477,hmmpanther:PTHR12269	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTCTCAAG	.	5	BLCA
SFI1	0	.	GRCh37	22	31957369	31957369	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756C>G	p.%3D	p.L252L	ENST00000400288	8/33	20	17	3	22	22	0	SFI1,synonymous_variant,p.%3D,ENST00000400288,;SFI1,synonymous_variant,p.%3D,ENST00000400289,;SFI1,synonymous_variant,p.%3D,ENST00000414585,;SFI1,synonymous_variant,p.%3D,ENST00000432498,;SFI1,synonymous_variant,p.%3D,ENST00000443011,;SFI1,synonymous_variant,p.%3D,ENST00000540643,;SFI1,synonymous_variant,p.%3D,ENST00000443326,;SFI1,downstream_gene_variant,,ENST00000450787,;SFI1,synonymous_variant,p.%3D,ENST00000524296,;SFI1,non_coding_transcript_exon_variant,,ENST00000382162,;RP11-247I13.3,downstream_gene_variant,,ENST00000445477,;	G	ENSG00000198089	ENST00000400288	Transcript	synonymous_variant	861	756	252	L	ctC/ctG	.	.	.	1	SFI1	HGNC	29064	protein_coding	YES	CCDS43004.1	ENSP00000383145	SFI1_HUMAN	.	UPI00004703B1	.	.	.	8/33	.	hmmpanther:PTHR22028:SF2,hmmpanther:PTHR22028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCCAGGT	.	2	BLCA
APOL5	0	.	GRCh37	22	36122624	36122624	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509C>T	p.Ser170Leu	p.S170L	ENST00000249044	3/5	73	67	6	118	117	1	APOL5,missense_variant,p.Ser170Leu,ENST00000249044,;	T	ENSG00000128313	ENST00000249044	Transcript	missense_variant	509	509	170	S/L	tCa/tTa	.	.	.	1	APOL5	HGNC	14869	protein_coding	YES	CCDS13920.1	ENSP00000249044	APOL5_HUMAN	.	UPI0000125C99	.	tolerated(0.1)	possibly_damaging(0.463)	3/5	.	Low_complexity_(Seg):seg,Pfam_domain:PF05461,hmmpanther:PTHR14096:SF6,hmmpanther:PTHR14096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTCAGCAA	.	2	BLCA
CACNA1I	0	.	GRCh37	22	39966823	39966823	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66C>T	p.%3D	p.T22T	ENST00000402142	1/37	15	11	4	35	35	0	CACNA1I,synonymous_variant,p.%3D,ENST00000401624,;CACNA1I,synonymous_variant,p.%3D,ENST00000407673,;CACNA1I,synonymous_variant,p.%3D,ENST00000402142,;CACNA1I,synonymous_variant,p.%3D,ENST00000400164,;CACNA1I,synonymous_variant,p.%3D,ENST00000336649,;CACNA1I,synonymous_variant,p.%3D,ENST00000404898,;	T	ENSG00000100346	ENST00000402142	Transcript	synonymous_variant	66	66	22	T	acC/acT	.	.	.	1	CACNA1I	HGNC	1396	protein_coding	YES	CCDS46710.1	ENSP00000385019	CAC1I_HUMAN	.	UPI000012727D	.	.	.	1/37	.	hmmpanther:PTHR10037:SF202,hmmpanther:PTHR10037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCACCACGGA	.	5	BLCA
SGSM3	0	.	GRCh37	22	40801808	40801808	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774C>G	p.Tyr258Ter	p.Y258*	ENST00000248929	8/22	53	31	22	118	118	0	SGSM3,stop_gained,p.Tyr191Ter,ENST00000457767,;SGSM3,stop_gained,p.Tyr191Ter,ENST00000454798,;SGSM3,stop_gained,p.Tyr258Ter,ENST00000248929,;MKL1,downstream_gene_variant,,ENST00000402042,;MKL1,downstream_gene_variant,,ENST00000355630,;MKL1,downstream_gene_variant,,ENST00000396617,;SGSM3,upstream_gene_variant,,ENST00000427834,;MKL1,downstream_gene_variant,,ENST00000407029,;SGSM3,upstream_gene_variant,,ENST00000417424,;SGSM3,non_coding_transcript_exon_variant,,ENST00000485962,;SGSM3,non_coding_transcript_exon_variant,,ENST00000478085,;SGSM3,upstream_gene_variant,,ENST00000467915,;SGSM3,upstream_gene_variant,,ENST00000481408,;SGSM3,upstream_gene_variant,,ENST00000480830,;SGSM3,upstream_gene_variant,,ENST00000470518,;SGSM3,upstream_gene_variant,,ENST00000469719,;SGSM3,upstream_gene_variant,,ENST00000481028,;SGSM3,upstream_gene_variant,,ENST00000462457,;	G	ENSG00000100359	ENST00000248929	Transcript	stop_gained	963	774	258	Y/*	taC/taG	.	.	.	1	SGSM3	HGNC	25228	protein_coding	YES	CCDS14002.1	ENSP00000248929	SGSM3_HUMAN	B9A6J5_HUMAN,B0QY80_HUMAN	UPI0000035D8C	.	.	.	8/22	.	Superfamily_domains:SSF47923,Superfamily_domains:SSF47923,SMART_domains:SM00164,Pfam_domain:PF00566,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF209,PROSITE_profiles:PS50086	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTACCTGCC	.	5	BLCA
L3MBTL2	0	.	GRCh37	22	41626226	41626226	+	Nonsense_Mutation	SNP	G	G	T	rs765453159	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2089G>T	p.Glu697Ter	p.E697*	ENST00000216237	17/17	45	31	14	63	63	0	L3MBTL2,stop_gained,p.Glu697Ter,ENST00000216237,;CHADL,intron_variant,,ENST00000216241,;CHADL,intron_variant,,ENST00000417999,;CHADL,downstream_gene_variant,,ENST00000455425,;L3MBTL2,3_prime_UTR_variant,,ENST00000452106,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000479978,;L3MBTL2,non_coding_transcript_exon_variant,,ENST00000466589,;L3MBTL2,downstream_gene_variant,,ENST00000481902,;	T	ENSG00000100395	ENST00000216237	Transcript	stop_gained	2247	2089	697	E/*	Gag/Tag	rs765453159	.	.	1	L3MBTL2	HGNC	18594	protein_coding	YES	CCDS14011.1	ENSP00000216237	LMBL2_HUMAN	.	UPI000012E77E	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTCGAGAAC	byFrequency	5	BLCA
RANGAP1	0	.	GRCh37	22	41650329	41650329	+	Silent	SNP	G	G	A	rs775947617	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1243C>T	p.%3D	p.L415L	ENST00000455915	10/15	55	44	11	74	74	0	RANGAP1,synonymous_variant,p.%3D,ENST00000455915,;RANGAP1,synonymous_variant,p.%3D,ENST00000356244,;RANGAP1,synonymous_variant,p.%3D,ENST00000405486,;RANGAP1,synonymous_variant,p.%3D,ENST00000407260,;RANGAP1,downstream_gene_variant,,ENST00000446258,;	A	ENSG00000100401	ENST00000455915	Transcript	synonymous_variant	2713	1243	415	L	Ctg/Ttg	rs775947617	.	.	-1	RANGAP1	HGNC	9854	protein_coding	YES	CCDS14012.1	ENSP00000401470	RAGP1_HUMAN	Q9BSK3_HUMAN,Q8WUS7_HUMAN,B4E0U0_HUMAN,B0QYT6_HUMAN,B0QYT5_HUMAN,B0QYT4_HUMAN	UPI0000000DD9	.	.	.	10/15	.	hmmpanther:PTHR24113:SF5,hmmpanther:PTHR24113,Pfam_domain:PF07834	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCAGAATCT	.	5	BLCA
SREBF2	0	.	GRCh37	22	42263176	42263176	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430C>G	p.Gln144Glu	p.Q144E	ENST00000361204	2/19	42	34	7	44	44	0	SREBF2,missense_variant,p.Gln144Glu,ENST00000361204,;SREBF2,missense_variant,p.Gln144Glu,ENST00000424354,;	G	ENSG00000198911	ENST00000361204	Transcript	missense_variant	596	430	144	Q/E	Cag/Gag	.	.	.	1	SREBF2	HGNC	11290	protein_coding	YES	CCDS14023.1	ENSP00000354476	SRBP2_HUMAN	Q8NCY3_HUMAN	UPI00001678D0	.	tolerated(0.65)	benign(0.069)	2/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12565:SF6,hmmpanther:PTHR12565	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AAACTCAGCTG	.	4	BLCA
AFF3	0	.	GRCh37	2	100623091	100623091	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.948+3G>C	.	.	ENST00000356421	.	54	36	17	83	83	0	AFF3,splice_region_variant,,ENST00000409579,;AFF3,splice_region_variant,,ENST00000356421,;AFF3,splice_region_variant,,ENST00000317233,;AFF3,splice_region_variant,,ENST00000409236,;AFF3,downstream_gene_variant,,ENST00000416492,;AFF3,downstream_gene_variant,,ENST00000423966,;AFF3,downstream_gene_variant,,ENST00000441400,;AFF3,downstream_gene_variant,,ENST00000415384,;AFF3,downstream_gene_variant,,ENST00000440445,;AFF3,downstream_gene_variant,,ENST00000432037,;AFF3,downstream_gene_variant,,ENST00000424600,;AFF3,splice_region_variant,,ENST00000430789,;AFF3,non_coding_transcript_exon_variant,,ENST00000498090,;	G	ENSG00000144218	ENST00000356421	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	AFF3	HGNC	6473	protein_coding	YES	CCDS33258.1	ENSP00000348793	AFF3_HUMAN	.	UPI000041098C	.	.	.	.	6/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTCACCTC	.	5	BLCA
GRHL1	0	.	GRCh37	2	10095215	10095215	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192C>G	p.%3D	p.L64L	ENST00000324907	2/16	19	16	3	34	34	0	GRHL1,synonymous_variant,p.%3D,ENST00000405379,;GRHL1,synonymous_variant,p.%3D,ENST00000324907,;GRHL1,5_prime_UTR_variant,,ENST00000324883,;GRHL1,synonymous_variant,p.%3D,ENST00000472167,;GRHL1,synonymous_variant,p.%3D,ENST00000439493,;GRHL1,synonymous_variant,p.%3D,ENST00000464418,;GRHL1,non_coding_transcript_exon_variant,,ENST00000497403,;	G	ENSG00000134317	ENST00000324907	Transcript	synonymous_variant	328	192	64	L	ctC/ctG	.	.	.	1	GRHL1	HGNC	17923	protein_coding	YES	CCDS33144.2	ENSP00000324693	GRHL1_HUMAN	F8WFB0_HUMAN,C9JYY8_HUMAN	UPI00001E0586	.	.	.	2/16	.	hmmpanther:PTHR11037,hmmpanther:PTHR11037:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCTATGA	.	2	BLCA
GREB1	0	.	GRCh37	2	11758537	11758537	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3536C>T	p.Pro1179Leu	p.P1179L	ENST00000381486	22/33	9	5	4	16	16	0	GREB1,missense_variant,p.Pro1179Leu,ENST00000234142,;GREB1,missense_variant,p.Pro177Leu,ENST00000396123,;GREB1,missense_variant,p.Pro1179Leu,ENST00000381486,;GREB1,downstream_gene_variant,,ENST00000472040,;	T	ENSG00000196208	ENST00000381486	Transcript	missense_variant	3836	3536	1179	P/L	cCc/cTc	COSM4084390	.	.	1	GREB1	HGNC	24885	protein_coding	YES	CCDS42655.1	ENSP00000370896	GREB1_HUMAN	.	UPI0000163937	.	tolerated(0.52)	benign(0.001)	22/33	.	hmmpanther:PTHR15720,hmmpanther:PTHR15720:SF13	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGCCCCGGG	.	2	BLCA
GREB1	0	.	GRCh37	2	11780603	11780603	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23G>A	.	.	ENST00000381486	33/33	48	36	11	68	68	0	GREB1,3_prime_UTR_variant,,ENST00000234142,;GREB1,3_prime_UTR_variant,,ENST00000396123,;GREB1,3_prime_UTR_variant,,ENST00000381486,;	A	ENSG00000196208	ENST00000381486	Transcript	3_prime_UTR_variant	6173	.	.	.	.	.	.	.	1	GREB1	HGNC	24885	protein_coding	YES	CCDS42655.1	ENSP00000370896	GREB1_HUMAN	.	UPI0000163937	.	.	.	33/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTCTGAAGAG	.	3	BLCA
GREB1	0	.	GRCh37	2	11780624	11780624	+	3'UTR	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*44C>A	.	.	ENST00000381486	33/33	33	25	8	48	48	0	GREB1,3_prime_UTR_variant,,ENST00000234142,;GREB1,3_prime_UTR_variant,,ENST00000396123,;GREB1,3_prime_UTR_variant,,ENST00000381486,;	A	ENSG00000196208	ENST00000381486	Transcript	3_prime_UTR_variant	6194	.	.	.	.	.	.	.	1	GREB1	HGNC	24885	protein_coding	YES	CCDS42655.1	ENSP00000370896	GREB1_HUMAN	.	UPI0000163937	.	.	.	33/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGAGCCCTCAT	.	3	BLCA
GLI2	0	.	GRCh37	2	121726308	121726308	+	Missense_Mutation	SNP	C	C	T	rs774865060	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662C>T	p.Pro221Leu	p.P221L	ENST00000452319	6/14	68	49	19	111	111	0	GLI2,missense_variant,p.Pro221Leu,ENST00000452319,;GLI2,missense_variant,p.Pro221Leu,ENST00000361492,;GLI2,synonymous_variant,p.%3D,ENST00000360874,;GLI2,5_prime_UTR_variant,,ENST00000314490,;GLI2,non_coding_transcript_exon_variant,,ENST00000435313,;GLI2,3_prime_UTR_variant,,ENST00000433812,;GLI2,intron_variant,,ENST00000438299,;GLI2,intron_variant,,ENST00000341310,;GLI2,intron_variant,,ENST00000452692,;GLI2,intron_variant,,ENST00000437950,;GLI2,intron_variant,,ENST00000445186,;	T	ENSG00000074047	ENST00000452319	Transcript	missense_variant	722	662	221	P/L	cCg/cTg	rs774865060	.	.	1	GLI2	HGNC	4318	protein_coding	YES	CCDS33283.1	ENSP00000390436	GLI2_HUMAN	Q6RSW2_HUMAN,Q59FV5_HUMAN,Q1PSW9_HUMAN	UPI000053FCB4	.	deleterious(0)	probably_damaging(0.999)	6/14	.	hmmpanther:PTHR19818:SF73,hmmpanther:PTHR19818	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCCCGCGGG	byFrequency	5	BLCA
MAP3K2	0	.	GRCh37	2	128066254	128066254	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1541C>G	p.Ser514Ter	p.S514*	ENST00000409947	16/17	129	94	35	162	162	0	MAP3K2,stop_gained,p.Ser514Ter,ENST00000409947,;MAP3K2,stop_gained,p.Ser514Ter,ENST00000344908,;	C	ENSG00000169967	ENST00000409947	Transcript	stop_gained	1824	1541	514	S/*	tCa/tGa	.	.	.	-1	MAP3K2	HGNC	6854	protein_coding	YES	CCDS46404.1	ENSP00000387246	M3K2_HUMAN	Q96K88_HUMAN,F8W6K3_HUMAN	UPI0000208C78	.	.	.	16/17	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24360,hmmpanther:PTHR24360:SF37,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTGAGAGA	.	5	BLCA
LIMS2	0	.	GRCh37	2	128397642	128397642	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.950+3G>C	.	.	ENST00000324938	.	43	36	7	75	75	0	LIMS2,splice_region_variant,,ENST00000409254,;LIMS2,splice_region_variant,,ENST00000410038,;LIMS2,splice_region_variant,,ENST00000409455,;LIMS2,splice_region_variant,,ENST00000355119,;LIMS2,splice_region_variant,,ENST00000409286,;LIMS2,splice_region_variant,,ENST00000426981,;LIMS2,splice_region_variant,,ENST00000410011,;LIMS2,splice_region_variant,,ENST00000324938,;LIMS2,splice_region_variant,,ENST00000545738,;LIMS2,splice_region_variant,,ENST00000409754,;LIMS2,splice_region_variant,,ENST00000409808,;MYO7B,downstream_gene_variant,,ENST00000409816,;MYO7B,downstream_gene_variant,,ENST00000389524,;MYO7B,downstream_gene_variant,,ENST00000428314,;MYO7B,downstream_gene_variant,,ENST00000409090,;LIMS2,intron_variant,,ENST00000494613,;LIMS2,downstream_gene_variant,,ENST00000582671,;LIMS2,splice_region_variant,,ENST00000476932,;LIMS2,splice_region_variant,,ENST00000413578,;LIMS2,splice_region_variant,,ENST00000466410,;LIMS2,splice_region_variant,,ENST00000469300,;LIMS2,splice_region_variant,,ENST00000484252,;MYO7B,downstream_gene_variant,,ENST00000494959,;MYO7B,downstream_gene_variant,,ENST00000491278,;MYO7B,downstream_gene_variant,,ENST00000496841,;	G	ENSG00000072163	ENST00000324938	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	LIMS2	HGNC	16084	protein_coding	YES	CCDS2147.1	ENSP00000326888	LIMS2_HUMAN	Q9H058_HUMAN,Q9BV95_HUMAN,Q7Z4I5_HUMAN,A0PJ44_HUMAN	UPI00001B5BF3	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCACTTC	.	4	BLCA
NCKAP5	0	.	GRCh37	2	133540510	133540510	+	Nonsense_Mutation	SNP	C	C	A	rs376373106	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3874G>T	p.Glu1292Ter	p.E1292*	ENST00000409261	14/20	67	53	14	107	107	0	NCKAP5,stop_gained,p.Glu1292Ter,ENST00000409261,;NCKAP5,stop_gained,p.Glu1292Ter,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,upstream_gene_variant,,ENST00000473859,;	A	ENSG00000176771	ENST00000409261	Transcript	stop_gained	4248	3874	1292	E/*	Gaa/Taa	rs376373106	.	.	-1	NCKAP5	HGNC	29847	protein_coding	YES	CCDS46418.1	ENSP00000387128	NCKP5_HUMAN	C9JYL7_HUMAN	UPI0000E07A3F	.	.	.	14/20	.	hmmpanther:PTHR21740:SF0,hmmpanther:PTHR21740	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCGATGG	byCluster|by1000G	5	BLCA
MAP3K19	0	.	GRCh37	2	135739074	135739074	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3237C>T	p.%3D	p.L1079L	ENST00000375845	9/10	80	67	13	119	119	0	MAP3K19,missense_variant,p.Ser1147Leu,ENST00000392915,;MAP3K19,synonymous_variant,p.%3D,ENST00000392917,;MAP3K19,synonymous_variant,p.%3D,ENST00000375844,;MAP3K19,synonymous_variant,p.%3D,ENST00000375845,;MAP3K19,synonymous_variant,p.%3D,ENST00000437365,;MAP3K19,synonymous_variant,p.%3D,ENST00000358371,;MAP3K19,5_prime_UTR_variant,,ENST00000315513,;MAP3K19,intron_variant,,ENST00000392918,;MAP3K19,non_coding_transcript_exon_variant,,ENST00000478805,;	A	ENSG00000176601	ENST00000375845	Transcript	synonymous_variant	3268	3237	1079	L	ctC/ctT	COSM1305650,COSM1305649	.	.	-1	MAP3K19	HGNC	26249	protein_coding	YES	CCDS2176.2	ENSP00000365005	M3K19_HUMAN	H7C041_HUMAN,C9JGQ2_HUMAN,C9JEJ9_HUMAN	UPI00004F77F2	.	.	.	9/10	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF129,hmmpanther:PTHR24361,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGTGAGACC	.	5	BLCA
ZRANB3	0	.	GRCh37	2	135965399	135965399	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2614C>G	p.Leu872Val	p.L872V	ENST00000264159	19/21	31	27	4	31	31	0	ZRANB3,missense_variant,p.Leu870Val,ENST00000401392,;ZRANB3,missense_variant,p.Leu870Val,ENST00000536680,;ZRANB3,missense_variant,p.Leu872Val,ENST00000264159,;ZRANB3,non_coding_transcript_exon_variant,,ENST00000412849,;ZRANB3,3_prime_UTR_variant,,ENST00000403017,;ZRANB3,upstream_gene_variant,,ENST00000474919,;	C	ENSG00000121988	ENST00000264159	Transcript	missense_variant	2731	2614	872	L/V	Ctt/Gtt	.	.	.	-1	ZRANB3	HGNC	25249	protein_coding	YES	CCDS46419.1	ENSP00000264159	ZRAB3_HUMAN	.	UPI0000509F0C	.	tolerated(0.49)	benign(0.02)	19/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCAAGAAGTT	.	2	BLCA
LRP1B	0	.	GRCh37	2	141116408	141116408	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11239G>A	p.Asp3747Asn	p.D3747N	ENST00000389484	73/91	73	58	15	114	114	0	LRP1B,missense_variant,p.Asp3747Asn,ENST00000389484,;LRP1B,upstream_gene_variant,,ENST00000437977,;	T	ENSG00000168702	ENST00000389484	Transcript	missense_variant	12211	11239	3747	D/N	Gat/Aat	.	.	.	-1	LRP1B	HGNC	6693	protein_coding	YES	CCDS2182.1	ENSP00000374135	LRP1B_HUMAN	Q8WY27_HUMAN,Q8WY26_HUMAN,Q580W7_HUMAN,Q53TB8_HUMAN,Q53S76_HUMAN,Q53S73_HUMAN,Q53S26_HUMAN,Q53RL0_HUMAN,Q53RG4_HUMAN,Q53RA0_HUMAN,Q53QP5_HUMAN,Q53QM8_HUMAN,Q4ZG53_HUMAN,Q4ZFV5_HUMAN	UPI00001B045B	.	.	possibly_damaging(0.539)	73/91	.	PROSITE_profiles:PS50068,PROSITE_patterns:PS01209,Gene3D:4.10.400.10,SMART_domains:SM00192,Superfamily_domains:SSF57424	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATCTGAAT	.	5	BLCA
LRP1B	0	.	GRCh37	2	141215068	141215068	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9778G>C	p.Asp3260His	p.D3260H	ENST00000389484	61/91	85	68	17	139	138	0	LRP1B,missense_variant,p.Asp3260His,ENST00000389484,;	G	ENSG00000168702	ENST00000389484	Transcript	missense_variant	10750	9778	3260	D/H	Gat/Cat	COSM1285977	.	.	-1	LRP1B	HGNC	6693	protein_coding	YES	CCDS2182.1	ENSP00000374135	LRP1B_HUMAN	Q8WY27_HUMAN,Q8WY26_HUMAN,Q580W7_HUMAN,Q53TB8_HUMAN,Q53S76_HUMAN,Q53S73_HUMAN,Q53S26_HUMAN,Q53RL0_HUMAN,Q53RG4_HUMAN,Q53RA0_HUMAN,Q53QP5_HUMAN,Q53QM8_HUMAN,Q4ZG53_HUMAN,Q4ZFV5_HUMAN	UPI00001B045B	.	.	possibly_damaging(0.861)	61/91	.	Gene3D:2.120.10.30,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATATCTGTGA	.	5	BLCA
ZEB2	0	.	GRCh37	2	145147383	145147383	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3280G>C	p.Glu1094Gln	p.E1094Q	ENST00000558170	10/10	69	53	15	89	88	0	ZEB2,missense_variant,p.Glu1070Gln,ENST00000539609,;ZEB2,missense_variant,p.Glu1094Gln,ENST00000409487,;ZEB2,missense_variant,p.Glu1094Gln,ENST00000303660,;ZEB2,missense_variant,p.Glu1094Gln,ENST00000558170,;ZEB2,intron_variant,,ENST00000419938,;	G	ENSG00000169554	ENST00000558170	Transcript	missense_variant	4465	3280	1094	E/Q	Gag/Cag	COSM441196	.	.	-1	ZEB2	HGNC	14881	protein_coding	YES	CCDS2186.1	ENSP00000454157	ZEB2_HUMAN	U3KPV5_HUMAN,Q53TG0_HUMAN,Q53TD9_HUMAN,E7EUW9_HUMAN,E7ESP8_HUMAN,C9JUQ1_HUMAN,C9JU62_HUMAN,A0JP08_HUMAN	UPI00001359A2	.	deleterious(0.02)	probably_damaging(0.995)	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13919,hmmpanther:PTHR13919:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCTCGCGCT	.	5	BLCA
RBM43	0	.	GRCh37	2	152109296	152109296	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288T>C	p.%3D	p.S96S	ENST00000331426	3/4	92	75	16	129	128	1	RBM43,synonymous_variant,p.%3D,ENST00000331426,;	G	ENSG00000184898	ENST00000331426	Transcript	synonymous_variant	440	288	96	S	tcT/tcC	.	.	.	-1	RBM43	HGNC	24790	protein_coding	YES	CCDS2191.1	ENSP00000331211	RBM43_HUMAN	.	UPI00001C0E5F	.	.	.	3/4	.	PROSITE_profiles:PS50102,hmmpanther:PTHR15225:SF8,hmmpanther:PTHR15225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGAGAGAGAC	.	5	BLCA
RIF1	0	.	GRCh37	2	152320447	152320447	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4413A>C	p.Glu1471Asp	p.E1471D	ENST00000243326	29/35	46	35	11	65	65	0	RIF1,missense_variant,p.Glu1471Asp,ENST00000444746,;RIF1,missense_variant,p.Glu1471Asp,ENST00000453091,;RIF1,missense_variant,p.Glu1471Asp,ENST00000428287,;RIF1,missense_variant,p.Glu1471Asp,ENST00000243326,;RIF1,missense_variant,p.Glu1471Asp,ENST00000430328,;RIF1,upstream_gene_variant,,ENST00000454583,;	C	ENSG00000080345	ENST00000243326	Transcript	missense_variant	4896	4413	1471	E/D	gaA/gaC	.	.	.	1	RIF1	HGNC	23207	protein_coding	YES	CCDS2194.1	ENSP00000243326	RIF1_HUMAN	C9J1D6_HUMAN,B4DRJ4_HUMAN	UPI000023729F	.	tolerated(0.21)	possibly_damaging(0.665)	29/35	.	hmmpanther:PTHR22928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGAACAAAC	.	5	BLCA
NEB	0	.	GRCh37	2	152404175	152404175	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20235C>G	p.%3D	p.V6745V	ENST00000397345	132/182	17	11	6	46	46	0	NEB,synonymous_variant,p.%3D,ENST00000603639,;NEB,synonymous_variant,p.%3D,ENST00000172853,;NEB,synonymous_variant,p.%3D,ENST00000427231,;NEB,synonymous_variant,p.%3D,ENST00000397345,;NEB,synonymous_variant,p.%3D,ENST00000604864,;NEB,synonymous_variant,p.%3D,ENST00000413693,;NEB,synonymous_variant,p.%3D,ENST00000409198,;	C	ENSG00000183091	ENST00000397345	Transcript	synonymous_variant	20438	20235	6745	V	gtC/gtG	.	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	.	132/182	.	PROSITE_profiles:PS51216,hmmpanther:PTHR11039:SF37,hmmpanther:PTHR11039,Pfam_domain:PF00880,SMART_domains:SM00227	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTGACTTG	.	5	BLCA
NEB	0	.	GRCh37	2	152584365	152584365	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.134C>A	p.Ser45Ter	p.S45*	ENST00000397345	5/182	40	32	8	63	63	0	NEB,stop_gained,p.Ser45Ter,ENST00000603639,;NEB,stop_gained,p.Ser45Ter,ENST00000172853,;NEB,stop_gained,p.Ser45Ter,ENST00000427231,;NEB,stop_gained,p.Ser45Ter,ENST00000397345,;NEB,stop_gained,p.Ser45Ter,ENST00000604864,;NEB,stop_gained,p.Ser45Ter,ENST00000409198,;	T	ENSG00000183091	ENST00000397345	Transcript	stop_gained	337	134	45	S/*	tCa/tAa	.	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	.	5/182	.	hmmpanther:PTHR11039:SF37,hmmpanther:PTHR11039	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCTGATTGC	.	2	BLCA
PRPF40A	0	.	GRCh37	2	153537793	153537793	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.403G>C	p.Glu135Gln	p.E135Q	ENST00000410080	6/26	83	76	7	142	142	0	PRPF40A,missense_variant,p.Glu135Gln,ENST00000410080,;PRPF40A,missense_variant,p.Glu162Gln,ENST00000545856,;PRPF40A,missense_variant,p.Glu155Gln,ENST00000493468,;PRPF40A,intron_variant,,ENST00000448428,;PRPF40A,3_prime_UTR_variant,,ENST00000354363,;PRPF40A,non_coding_transcript_exon_variant,,ENST00000467114,;	G	ENSG00000196504	ENST00000410080	Transcript	missense_variant	945	403	135	E/Q	Gaa/Caa	.	.	.	-1	PRPF40A	HGNC	16463	protein_coding	YES	CCDS46430.1	ENSP00000386458	PR40A_HUMAN	Q4ZG51_HUMAN	UPI00015743D9	.	tolerated(0.44)	possibly_damaging(0.728)	6/26	.	PROSITE_profiles:PS50020,hmmpanther:PTHR11864:SF2,hmmpanther:PTHR11864,PROSITE_patterns:PS01159,Gene3D:2.20.70.10,Pfam_domain:PF00397,SMART_domains:SM00456,Superfamily_domains:SSF51045	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGTTTCAGTGT	.	3	BLCA
KCNJ3	0	.	GRCh37	2	155711634	155711634	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1315C>T	p.Arg439Ter	p.R439*	ENST00000295101	3/3	84	68	16	98	98	0	KCNJ3,stop_gained,p.Arg439Ter,ENST00000295101,;KCNJ3,downstream_gene_variant,,ENST00000544049,;KCNJ3,downstream_gene_variant,,ENST00000493505,;	T	ENSG00000162989	ENST00000295101	Transcript	stop_gained	1792	1315	439	R/*	Cga/Tga	.	.	.	1	KCNJ3	HGNC	6264	protein_coding	YES	CCDS2200.1	ENSP00000295101	IRK3_HUMAN	Q53R59_HUMAN	UPI000012D899	.	.	.	3/3	.	hmmpanther:PTHR11767:SF16,hmmpanther:PTHR11767,PIRSF_domain:PIRSF005465,Prints_domain:PR01327	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAACGAATA	.	5	BLCA
UPP2	0	.	GRCh37	2	158978037	158978037	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742G>A	p.Glu248Lys	p.E248K	ENST00000605860	8/10	93	68	25	166	165	0	UPP2,missense_variant,p.Glu191Lys,ENST00000005756,;UPP2,missense_variant,p.Glu248Lys,ENST00000605860,;UPP2,missense_variant,p.Glu248Lys,ENST00000409859,;UPP2,intron_variant,,ENST00000460456,;UPP2,upstream_gene_variant,,ENST00000489438,;	A	ENSG00000007001	ENST00000605860	Transcript	missense_variant	788	742	248	E/K	Gaa/Aaa	COSM258327	.	.	1	UPP2	HGNC	23061	protein_coding	YES	CCDS46435.1	ENSP00000474090	UPP2_HUMAN	.	UPI0000EE2DE7	.	tolerated(0.29)	benign(0.012)	8/10	.	hmmpanther:PTHR21234,hmmpanther:PTHR21234:SF13,Pfam_domain:PF01048,TIGRFAM_domain:TIGR01719,Gene3D:3.40.50.1580,Superfamily_domains:SSF53167	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAAAGAACTG	.	5	BLCA
UPP2	0	.	GRCh37	2	158978038	158978038	+	Missense_Mutation	SNP	A	A	T	rs756015559	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743A>T	p.Glu248Val	p.E248V	ENST00000605860	8/10	94	68	25	164	164	0	UPP2,missense_variant,p.Glu191Val,ENST00000005756,;UPP2,missense_variant,p.Glu248Val,ENST00000605860,;UPP2,missense_variant,p.Glu248Val,ENST00000409859,;UPP2,intron_variant,,ENST00000460456,;UPP2,upstream_gene_variant,,ENST00000489438,;	T	ENSG00000007001	ENST00000605860	Transcript	missense_variant	789	743	248	E/V	gAa/gTa	rs756015559	.	.	1	UPP2	HGNC	23061	protein_coding	YES	CCDS46435.1	ENSP00000474090	UPP2_HUMAN	.	UPI0000EE2DE7	.	deleterious(0.05)	benign(0.292)	8/10	.	hmmpanther:PTHR21234,hmmpanther:PTHR21234:SF13,Pfam_domain:PF01048,TIGRFAM_domain:TIGR01719,Gene3D:3.40.50.1580,Superfamily_domains:SSF53167	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAGAACTGT	.	5	BLCA
MARCH7	0	.	GRCh37	2	160585619	160585619	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86G>A	p.Arg29Lys	p.R29K	ENST00000259050	2/10	41	36	5	58	58	0	MARCH7,missense_variant,p.Arg29Lys,ENST00000421037,;MARCH7,missense_variant,p.Arg29Lys,ENST00000259050,;MARCH7,missense_variant,p.Arg29Lys,ENST00000539065,;MARCH7,missense_variant,p.Arg29Lys,ENST00000409175,;MARCH7,upstream_gene_variant,,ENST00000409591,;MARCH7,non_coding_transcript_exon_variant,,ENST00000473749,;	A	ENSG00000136536	ENST00000259050	Transcript	missense_variant	208	86	29	R/K	aGa/aAa	.	.	.	1	MARCH7	HGNC	17393	protein_coding	YES	CCDS2210.1	ENSP00000259050	MARH7_HUMAN	C9J159_HUMAN	UPI00000733EE	.	deleterious(0.05)	probably_damaging(0.983)	2/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14471:SF1,hmmpanther:PTHR14471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCAGAGGAA	.	4	BLCA
SCN3A	0	.	GRCh37	2	165947586	165947586	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5077G>C	p.Glu1693Gln	p.E1693Q	ENST00000283254	28/28	106	84	22	150	150	0	SCN3A,missense_variant,p.Glu1693Gln,ENST00000360093,;SCN3A,missense_variant,p.Glu1693Gln,ENST00000283254,;SCN3A,missense_variant,p.Glu176Gln,ENST00000540861,;SCN3A,missense_variant,p.Glu1644Gln,ENST00000409101,;AC013463.2,intron_variant,,ENST00000431341,;SCN3A,downstream_gene_variant,,ENST00000465043,;SCN3A,downstream_gene_variant,,ENST00000471697,;	G	ENSG00000153253	ENST00000283254	Transcript	missense_variant	5545	5077	1693	E/Q	Gag/Cag	.	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	tolerated(0.38)	probably_damaging(0.998)	28/28	.	hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTCAAAGT	.	5	BLCA
SCN3A	0	.	GRCh37	2	165948846	165948846	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4725G>A	p.%3D	p.L1575L	ENST00000283254	27/28	39	31	7	56	55	0	SCN3A,synonymous_variant,p.%3D,ENST00000283254,;SCN3A,synonymous_variant,p.%3D,ENST00000540861,;SCN3A,synonymous_variant,p.%3D,ENST00000360093,;SCN3A,synonymous_variant,p.%3D,ENST00000409101,;SCN3A,downstream_gene_variant,,ENST00000440431,;AC013463.2,downstream_gene_variant,,ENST00000431341,;SCN3A,non_coding_transcript_exon_variant,,ENST00000465043,;SCN3A,downstream_gene_variant,,ENST00000471697,;	T	ENSG00000153253	ENST00000283254	Transcript	synonymous_variant	5193	4725	1575	L	ctG/ctA	.	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	.	.	27/28	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Gene3D:1.20.120.350,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTCAGCAC	.	5	BLCA
LRP2	0	.	GRCh37	2	170097642	170097642	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3901G>A	p.Asp1301Asn	p.D1301N	ENST00000263816	25/79	51	42	8	65	65	0	LRP2,missense_variant,p.Asp1301Asn,ENST00000263816,;LRP2,missense_variant,p.Asp1164Asn,ENST00000443831,;	T	ENSG00000081479	ENST00000263816	Transcript	missense_variant	4187	3901	1301	D/N	Gat/Aat	.	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	probably_damaging(1)	25/79	.	PROSITE_profiles:PS50068,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF220,PROSITE_patterns:PS01209,Gene3D:4.10.400.10,Pfam_domain:PF00057,SMART_domains:SM00192,Superfamily_domains:SSF57424,Prints_domain:PR00261	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCATCACTCA	.	5	BLCA
LRP2	0	.	GRCh37	2	170150751	170150751	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.559G>C	p.Glu187Gln	p.E187Q	ENST00000263816	6/79	55	37	18	73	73	0	LRP2,missense_variant,p.Glu187Gln,ENST00000263816,;LRP2,missense_variant,p.Glu187Gln,ENST00000443831,;	G	ENSG00000081479	ENST00000263816	Transcript	missense_variant	845	559	187	E/Q	Gag/Cag	.	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	benign(0.05)	6/79	.	PROSITE_profiles:PS50068,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF220,Gene3D:4.10.400.10,Pfam_domain:PF00057,SMART_domains:SM00192,SMART_domains:SM00181,Superfamily_domains:SSF57424	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACTCATTGT	.	5	BLCA
LRP2	0	.	GRCh37	2	170175357	170175357	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225G>T	p.Gln75His	p.Q75H	ENST00000263816	3/79	37	32	5	61	61	0	LRP2,missense_variant,p.Gln75His,ENST00000263816,;LRP2,missense_variant,p.Gln75His,ENST00000443831,;	A	ENSG00000081479	ENST00000263816	Transcript	missense_variant	511	225	75	Q/H	caG/caT	.	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	benign(0.008)	3/79	.	PROSITE_profiles:PS50068,Gene3D:4.10.400.10,Pfam_domain:PF00057,SMART_domains:SM00192,SMART_domains:SM00181,Superfamily_domains:SSF57424	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACTCTGGCA	.	4	BLCA
UBR3	0	.	GRCh37	2	170885907	170885907	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4505C>G	p.Ser1502Cys	p.S1502C	ENST00000418381	31/39	67	58	9	92	92	0	UBR3,missense_variant,p.Ser323Cys,ENST00000392631,;UBR3,missense_variant,p.Ser564Cys,ENST00000392632,;UBR3,missense_variant,p.Ser1502Cys,ENST00000418381,;UBR3,missense_variant,p.Ser1502Cys,ENST00000272793,;UBR3,missense_variant,p.Ser202Cys,ENST00000439681,;UBR3,non_coding_transcript_exon_variant,,ENST00000465630,;UBR3,3_prime_UTR_variant,,ENST00000444475,;UBR3,3_prime_UTR_variant,,ENST00000430321,;UBR3,non_coding_transcript_exon_variant,,ENST00000474426,;	G	ENSG00000144357	ENST00000418381	Transcript	missense_variant	4505	4505	1502	S/C	tCt/tGt	.	.	.	1	UBR3	HGNC	30467	protein_coding	YES	CCDS2238.2	ENSP00000396068	UBR3_HUMAN	Q68DC1_HUMAN	UPI00015FA088	.	deleterious(0.04)	benign(0.417)	31/39	.	hmmpanther:PTHR21497,hmmpanther:PTHR21497:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCTGAGT	.	5	BLCA
TTN	0	.	GRCh37	2	179400511	179400511	+	Missense_Mutation	SNP	C	C	T	rs769704328	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100831G>A	p.Glu33611Lys	p.E33611K	ENST00000589042	358/363	40	33	7	73	73	0	TTN,missense_variant,p.Glu24671Lys,ENST00000359218,;TTN,missense_variant,p.Glu24546Lys,ENST00000460472,;TTN,missense_variant,p.Glu31970Lys,ENST00000591111,;TTN,missense_variant,p.Glu33611Lys,ENST00000589042,;TTN,missense_variant,p.Glu24738Lys,ENST00000342175,;TTN,missense_variant,p.Glu31043Lys,ENST00000342992,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000588716,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000589391,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000592182,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000592836,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000591466,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000591867,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000592689,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000585358,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000589842,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000450692,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000442329,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000431259,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000419746,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000588257,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000588244,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000591332,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000588804,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000585487,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589434,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000590040,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,upstream_gene_variant,,ENST00000438095,;TTN-AS1,downstream_gene_variant,,ENST00000585625,;TTN-AS1,downstream_gene_variant,,ENST00000587568,;TTN-AS1,upstream_gene_variant,,ENST00000415561,;TTN-AS1,downstream_gene_variant,,ENST00000587944,;TTN-AS1,downstream_gene_variant,,ENST00000589355,;TTN-AS1,downstream_gene_variant,,ENST00000604571,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	101056	100831	33611	E/K	Gaa/Aaa	rs769704328	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	358/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACTTCACCTC	.	5	BLCA
TTN	0	.	GRCh37	2	179469679	179469679	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54190+35C>G	.	.	ENST00000589042	.	73	60	13	97	97	0	TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000589042,;TTN,intron_variant,,ENST00000342992,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589234,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000586452,;	C	ENSG00000155657	ENST00000589042	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	.	280/362	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTGGATGCC	.	4	BLCA
TTN	0	.	GRCh37	2	179593656	179593656	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19109C>T	p.Ser6370Leu	p.S6370L	ENST00000589042	65/363	16	10	6	41	41	0	TTN,missense_variant,p.Ser5126Leu,ENST00000342992,;TTN,missense_variant,p.Ser6370Leu,ENST00000589042,;TTN,missense_variant,p.Ser6053Leu,ENST00000591111,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,upstream_gene_variant,,ENST00000582847,;RP11-171I2.1,downstream_gene_variant,,ENST00000590024,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	19334	19109	6370	S/L	tCa/tTa	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	65/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTGACTCA	.	5	BLCA
TTN	0	.	GRCh37	2	179658248	179658248	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1419G>C	p.Lys473Asn	p.K473N	ENST00000589042	9/363	80	67	13	133	132	1	TTN,missense_variant,p.Lys69Asn,ENST00000436599,;TTN,missense_variant,p.Lys473Asn,ENST00000360870,;TTN,missense_variant,p.Lys473Asn,ENST00000342992,;TTN,missense_variant,p.Lys473Asn,ENST00000342175,;TTN,missense_variant,p.Lys473Asn,ENST00000359218,;TTN,missense_variant,p.Lys473Asn,ENST00000589042,;TTN,missense_variant,p.Lys473Asn,ENST00000591111,;TTN,missense_variant,p.Lys473Asn,ENST00000460472,;TTN,downstream_gene_variant,,ENST00000470257,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	1644	1419	473	K/N	aaG/aaC	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	9/363	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF09042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGTCTTCTC	.	5	BLCA
SESTD1	0	.	GRCh37	2	179981401	179981401	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1641T>C	p.%3D	p.V547V	ENST00000428443	15/18	70	57	13	106	106	0	SESTD1,synonymous_variant,p.%3D,ENST00000428443,;SESTD1,synonymous_variant,p.%3D,ENST00000446758,;SESTD1,3_prime_UTR_variant,,ENST00000335289,;	G	ENSG00000187231	ENST00000428443	Transcript	synonymous_variant	1958	1641	547	V	gtT/gtC	.	.	.	-1	SESTD1	HGNC	18379	protein_coding	YES	CCDS33338.1	ENSP00000415332	SESD1_HUMAN	Q7Z6D3_HUMAN,C9JHW6_HUMAN,C9J4X8_HUMAN	UPI0000043424	.	.	.	15/18	.	Superfamily_domains:SSF46966,Gene3D:1.20.58.60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGCAACATC	.	5	BLCA
ZSWIM2	0	.	GRCh37	2	187692909	187692909	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1704G>C	p.Lys568Asn	p.K568N	ENST00000295131	9/9	42	32	10	67	67	0	ZSWIM2,missense_variant,p.Lys568Asn,ENST00000295131,;	G	ENSG00000163012	ENST00000295131	Transcript	missense_variant	1744	1704	568	K/N	aaG/aaC	.	.	.	-1	ZSWIM2	HGNC	30990	protein_coding	YES	CCDS33348.1	ENSP00000295131	ZSWM2_HUMAN	.	UPI000013E20D	.	tolerated(0.18)	benign(0.079)	9/9	.	hmmpanther:PTHR21540,hmmpanther:PTHR21540:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E565K|c.1693G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCTTGTT	.	5	BLCA
MYT1L	0	.	GRCh37	2	1891341	1891341	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2555G>C	p.Arg852Thr	p.R852T	ENST00000428368	17/25	78	73	5	164	164	0	MYT1L,missense_variant,p.Arg854Thr,ENST00000399161,;MYT1L,missense_variant,p.Arg852Thr,ENST00000428368,;MYT1L,3_prime_UTR_variant,,ENST00000602387,;MYT1L,non_coding_transcript_exon_variant,,ENST00000490585,;MYT1L,upstream_gene_variant,,ENST00000470954,;	G	ENSG00000186487	ENST00000428368	Transcript	missense_variant	3225	2555	852	R/T	aGa/aCa	COSM441977	.	.	-1	MYT1L	HGNC	7623	protein_coding	YES	CCDS46222.1	ENSP00000396103	MYT1L_HUMAN	.	UPI00004E55EA	.	deleterious(0.01)	possibly_damaging(0.669)	17/25	.	hmmpanther:PTHR10816:SF11,hmmpanther:PTHR10816,Pfam_domain:PF08474	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCGTCTTTCT	.	2	BLCA
DNAH7	0	.	GRCh37	2	196722155	196722155	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8360C>G	p.Ser2787Cys	p.S2787C	ENST00000312428	44/65	69	54	15	106	106	0	DNAH7,missense_variant,p.Ser2787Cys,ENST00000312428,;	C	ENSG00000118997	ENST00000312428	Transcript	missense_variant	8461	8360	2787	S/C	tCt/tGt	.	.	.	-1	DNAH7	HGNC	18661	protein_coding	YES	CCDS42794.1	ENSP00000311273	DYH7_HUMAN	C9JUY3_HUMAN	UPI0000141B95	.	deleterious(0)	probably_damaging(0.999)	44/65	.	hmmpanther:PTHR10676:SF138,hmmpanther:PTHR10676,Pfam_domain:PF12777	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTAGAAGCA	.	5	BLCA
SUMO1	0	.	GRCh37	2	203071986	203071986	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.296C>G	p.Ser99Ter	p.S99*	ENST00000392246	5/5	204	162	42	230	230	0	SUMO1,stop_gained,p.Ser99Ter,ENST00000392245,;SUMO1,stop_gained,p.Ser99Ter,ENST00000392246,;SUMO1,stop_gained,p.Ser75Ter,ENST00000409712,;SUMO1,stop_gained,p.Ser60Ter,ENST00000409498,;SUMO1,stop_gained,p.Ser60Ter,ENST00000409205,;SUMO1,stop_gained,p.Ser144Ter,ENST00000409368,;SUMO1,stop_gained,p.Ser74Ter,ENST00000392244,;SUMO1,3_prime_UTR_variant,,ENST00000409181,;SUMO1,non_coding_transcript_exon_variant,,ENST00000469034,;SUMO1,3_prime_UTR_variant,,ENST00000409627,;	C	ENSG00000116030	ENST00000392246	Transcript	stop_gained	453	296	99	S/*	tCa/tGa	.	.	.	-1	SUMO1	HGNC	12502	protein_coding	YES	CCDS2352.1	ENSP00000376077	SUMO1_HUMAN	B8ZZ67_HUMAN	UPI0000001227	.	.	.	5/5	.	hmmpanther:PTHR10562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTTGAATGA	.	5	BLCA
EEF1B2	0	.	GRCh37	2	207026170	207026170	+	Missense_Mutation	SNP	G	G	C	rs761155768	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304G>C	p.Asp102His	p.D102H	ENST00000392222	3/6	66	55	10	118	118	0	EEF1B2,missense_variant,p.Asp102His,ENST00000445505,;EEF1B2,missense_variant,p.Asp102His,ENST00000392221,;EEF1B2,missense_variant,p.Asp102His,ENST00000236957,;EEF1B2,missense_variant,p.Asp102His,ENST00000392222,;NDUFS1,upstream_gene_variant,,ENST00000440274,;NDUFS1,upstream_gene_variant,,ENST00000449699,;NDUFS1,upstream_gene_variant,,ENST00000423725,;NDUFS1,upstream_gene_variant,,ENST00000455934,;NDUFS1,upstream_gene_variant,,ENST00000457011,;NDUFS1,upstream_gene_variant,,ENST00000432169,;NDUFS1,upstream_gene_variant,,ENST00000454195,;NDUFS1,upstream_gene_variant,,ENST00000233190,;SNORD51,upstream_gene_variant,,ENST00000384320,;SNORA41,upstream_gene_variant,,ENST00000384675,;EEF1B2,3_prime_UTR_variant,,ENST00000455150,;EEF1B2,3_prime_UTR_variant,,ENST00000435123,;EEF1B2,3_prime_UTR_variant,,ENST00000415904,;EEF1B2,3_prime_UTR_variant,,ENST00000429769,;EEF1B2,upstream_gene_variant,,ENST00000482103,;EEF1B2,downstream_gene_variant,,ENST00000479587,;EEF1B2,downstream_gene_variant,,ENST00000460760,;NDUFS1,upstream_gene_variant,,ENST00000456284,;	C	ENSG00000114942	ENST00000392222	Transcript	missense_variant	679	304	102	D/H	Gac/Cac	rs761155768	.	.	1	EEF1B2	HGNC	3208	protein_coding	YES	CCDS2367.1	ENSP00000376056	EF1B_HUMAN	C9JZW3_HUMAN	UPI0000000C68	.	deleterious(0)	probably_damaging(0.988)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11595:SF23,hmmpanther:PTHR11595,PROSITE_patterns:PS00824	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATTGACCTC	.	4	BLCA
APOB	0	.	GRCh37	2	21238404	21238404	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3346G>T	p.Glu1116Ter	p.E1116*	ENST00000233242	22/29	38	28	10	50	50	0	APOB,stop_gained,p.Glu1116Ter,ENST00000233242,;	A	ENSG00000084674	ENST00000233242	Transcript	stop_gained	3474	3346	1116	E/*	Gaa/Taa	.	.	.	-1	APOB	HGNC	603	protein_coding	YES	CCDS1703.1	ENSP00000233242	APOB_HUMAN	S5FVK9_HUMAN,Q9UE53_HUMAN,Q9UE52_HUMAN,Q13828_HUMAN	UPI0000141B94	.	.	.	22/29	.	hmmpanther:PTHR13769,hmmpanther:PTHR13769:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCCTTTG	.	5	BLCA
ERBB4	0	.	GRCh37	2	212543806	212543806	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1593C>G	p.Ile531Met	p.I531M	ENST00000342788	13/28	18	12	5	30	30	0	ERBB4,missense_variant,p.Ile531Met,ENST00000402597,;ERBB4,missense_variant,p.Ile531Met,ENST00000436443,;ERBB4,missense_variant,p.Ile531Met,ENST00000260943,;ERBB4,missense_variant,p.Ile531Met,ENST00000342788,;ERBB4,non_coding_transcript_exon_variant,,ENST00000484594,;	C	ENSG00000178568	ENST00000342788	Transcript	missense_variant	1904	1593	531	I/M	atC/atG	.	.	.	-1	ERBB4	HGNC	3432	protein_coding	YES	CCDS2394.1	ENSP00000342235	ERBB4_HUMAN	Q580Q7_HUMAN,Q53T57_HUMAN,Q53R48_HUMAN,Q53R25_HUMAN,Q53QS8_HUMAN,Q4ZG14_HUMAN,E9PDR1_HUMAN	UPI00000499DF	.	deleterious(0.05)	benign(0.004)	13/28	.	hmmpanther:PTHR24416:SF90,hmmpanther:PTHR24416,Pfam_domain:PF14843,Gene3D:2.10.220.10,PIRSF_domain:PIRSF000619,SMART_domains:SM00261,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	ATGCAGATCCT	.	4	BLCA
GLB1L	0	.	GRCh37	2	220107897	220107897	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.212G>A	p.Arg71Gln	p.R71Q	ENST00000295759	3/17	56	36	19	105	105	0	GLB1L,missense_variant,p.Arg71Gln,ENST00000409640,;GLB1L,missense_variant,p.Arg71Gln,ENST00000295759,;GLB1L,missense_variant,p.Arg71Gln,ENST00000356283,;GLB1L,missense_variant,p.Arg4Gln,ENST00000440853,;GLB1L,missense_variant,p.Arg71Gln,ENST00000428427,;GLB1L,missense_variant,p.Arg71Gln,ENST00000392089,;STK16,upstream_gene_variant,,ENST00000409516,;STK16,upstream_gene_variant,,ENST00000409260,;STK16,upstream_gene_variant,,ENST00000409743,;STK16,upstream_gene_variant,,ENST00000409638,;GLB1L,downstream_gene_variant,,ENST00000432839,;GLB1L,downstream_gene_variant,,ENST00000424620,;STK16,upstream_gene_variant,,ENST00000396738,;GLB1L,upstream_gene_variant,,ENST00000497855,;STK16,upstream_gene_variant,,ENST00000486813,;GLB1L,3_prime_UTR_variant,,ENST00000447002,;GLB1L,non_coding_transcript_exon_variant,,ENST00000459951,;GLB1L,non_coding_transcript_exon_variant,,ENST00000467548,;STK16,upstream_gene_variant,,ENST00000496443,;GLB1L,upstream_gene_variant,,ENST00000471516,;STK16,upstream_gene_variant,,ENST00000475696,;STK16,upstream_gene_variant,,ENST00000475342,;STK16,upstream_gene_variant,,ENST00000478018,;STK16,upstream_gene_variant,,ENST00000461417,;STK16,upstream_gene_variant,,ENST00000496800,;STK16,upstream_gene_variant,,ENST00000491697,;	T	ENSG00000163521	ENST00000295759	Transcript	missense_variant	526	212	71	R/Q	cGa/cAa	.	.	.	-1	GLB1L	HGNC	28129	protein_coding	YES	CCDS2437.1	ENSP00000295759	GLB1L_HUMAN	C9JE41_HUMAN,C9J1Y9_HUMAN	UPI000003ED32	.	tolerated(0.2)	benign(0.025)	3/17	.	Prints_domain:PR00742,Superfamily_domains:SSF51445,PIRSF_domain:PIRSF006336,Gene3D:3.20.20.80,Pfam_domain:PF01301,hmmpanther:PTHR23421,hmmpanther:PTHR23421:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATCGCATC	.	5	BLCA
PTPRN	0	.	GRCh37	2	220172524	220172524	+	Silent	SNP	G	G	A	rs201862850	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156C>T	p.%3D	p.V52V	ENST00000295718	2/23	92	71	21	166	166	0	PTPRN,synonymous_variant,p.%3D,ENST00000409251,;PTPRN,synonymous_variant,p.%3D,ENST00000295718,;PTPRN,synonymous_variant,p.%3D,ENST00000440552,;PTPRN,5_prime_UTR_variant,,ENST00000442029,;PTPRN,5_prime_UTR_variant,,ENST00000412847,;PTPRN,5_prime_UTR_variant,,ENST00000423636,;PTPRN,5_prime_UTR_variant,,ENST00000451506,;PTPRN,5_prime_UTR_variant,,ENST00000446182,;AC114803.3,downstream_gene_variant,,ENST00000417355,;PTPRN,non_coding_transcript_exon_variant,,ENST00000468454,;PTPRN,3_prime_UTR_variant,,ENST00000606213,;PTPRN,non_coding_transcript_exon_variant,,ENST00000484986,;PTPRN,non_coding_transcript_exon_variant,,ENST00000462351,;PTPRN,non_coding_transcript_exon_variant,,ENST00000477819,;PTPRN,upstream_gene_variant,,ENST00000476930,;	A	ENSG00000054356	ENST00000295718	Transcript	synonymous_variant	397	156	52	V	gtC/gtT	rs201862850	.	.	-1	PTPRN	HGNC	9676	protein_coding	YES	CCDS2440.1	ENSP00000295718	PTPRN_HUMAN	Q96IA0_HUMAN,Q7KZS4_HUMAN,C9JJL7_HUMAN,C9JCQ0_HUMAN,C9J392_HUMAN	UPI0000132999	.	.	.	2/23	.	.	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATACAGACTTC	byCluster|by1000G	5	BLCA
GMPPA	0	.	GRCh37	2	220368919	220368919	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.604C>G	p.Gln202Glu	p.Q202E	ENST00000358215	7/13	29	22	7	64	64	0	GMPPA,missense_variant,p.Gln167Glu,ENST00000435316,;GMPPA,missense_variant,p.Gln202Glu,ENST00000373908,;GMPPA,missense_variant,p.Gln202Glu,ENST00000341142,;GMPPA,missense_variant,p.Gln202Glu,ENST00000358215,;GMPPA,missense_variant,p.Gln202Glu,ENST00000373917,;GMPPA,missense_variant,p.Gln202Glu,ENST00000313597,;GMPPA,downstream_gene_variant,,ENST00000455657,;AC053503.11,intron_variant,,ENST00000429882,;GMPPA,missense_variant,p.Gln202Glu,ENST00000443704,;GMPPA,non_coding_transcript_exon_variant,,ENST00000481170,;GMPPA,upstream_gene_variant,,ENST00000496536,;GMPPA,downstream_gene_variant,,ENST00000480506,;GMPPA,upstream_gene_variant,,ENST00000480034,;	G	ENSG00000144591	ENST00000358215	Transcript	missense_variant	973	604	202	Q/E	Cag/Gag	.	.	.	1	GMPPA	HGNC	22923	protein_coding	YES	CCDS2441.1	ENSP00000350949	GMPPA_HUMAN	C9JAH0_HUMAN,C9J255_HUMAN	UPI000006D41C	.	tolerated(0.39)	benign(0.009)	7/13	.	hmmpanther:PTHR22572,hmmpanther:PTHR22572:SF85,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTAATCAGCAG	.	2	BLCA
ARMC9	0	.	GRCh37	2	232100046	232100046	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.732C>G	p.%3D	p.V244V	ENST00000349938	8/21	18	11	7	45	45	0	ARMC9,synonymous_variant,p.%3D,ENST00000349938,;ARMC9,upstream_gene_variant,,ENST00000444285,;ARMC9,upstream_gene_variant,,ENST00000436339,;ARMC9,non_coding_transcript_exon_variant,,ENST00000469789,;ARMC9,non_coding_transcript_exon_variant,,ENST00000483477,;	G	ENSG00000135931	ENST00000349938	Transcript	synonymous_variant	926	732	244	V	gtC/gtG	.	.	.	1	ARMC9	HGNC	20730	protein_coding	YES	CCDS2484.1	ENSP00000258417	ARMC9_HUMAN	C9JW07_HUMAN	UPI00001AE7AC	.	.	.	8/21	.	hmmpanther:PTHR14881,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGTCACAGC	.	5	BLCA
B3GNT7	0	.	GRCh37	2	232262625	232262625	+	Silent	SNP	G	G	A	rs750337710	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195G>A	p.%3D	p.P65P	ENST00000287590	2/2	25	20	5	59	59	0	B3GNT7,synonymous_variant,p.%3D,ENST00000287590,;AC017104.6,downstream_gene_variant,,ENST00000415129,;AC017104.6,downstream_gene_variant,,ENST00000454416,;B3GNT7,non_coding_transcript_exon_variant,,ENST00000479618,;AC017104.6,downstream_gene_variant,,ENST00000418050,;	A	ENSG00000156966	ENST00000287590	Transcript	synonymous_variant	456	195	65	P	ccG/ccA	rs750337710,COSM243147	.	.	1	B3GNT7	HGNC	18811	protein_coding	YES	CCDS46540.1	ENSP00000287590	B3GN7_HUMAN	.	UPI000006D18A	.	.	.	2/2	.	hmmpanther:PTHR11214,hmmpanther:PTHR11214:SF93	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCCGAAAGA	byFrequency	5	BLCA
ALPI	0	.	GRCh37	2	233321360	233321360	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255G>A	p.%3D	p.E85E	ENST00000295463	3/11	17	13	4	15	15	0	ALPI,synonymous_variant,p.%3D,ENST00000295463,;ALPI,3_prime_UTR_variant,,ENST00000457560,;	A	ENSG00000163295	ENST00000295463	Transcript	synonymous_variant	332	255	85	E	gaG/gaA	.	.	.	1	ALPI	HGNC	437	protein_coding	YES	CCDS2492.1	ENSP00000295463	PPBI_HUMAN	.	UPI0000131FFE	.	.	.	3/11	.	hmmpanther:PTHR11596:SF30,hmmpanther:PTHR11596,Pfam_domain:PF00245,Gene3D:3.40.720.10,SMART_domains:SM00098,Superfamily_domains:SSF53649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGAGACGCC	.	5	BLCA
EIF4E2	0	.	GRCh37	2	233422658	233422658	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200G>C	p.Arg67Thr	p.R67T	ENST00000258416	3/7	56	41	15	85	85	0	EIF4E2,missense_variant,p.Arg67Thr,ENST00000409098,;EIF4E2,missense_variant,p.Arg67Thr,ENST00000258416,;EIF4E2,missense_variant,p.Arg67Thr,ENST00000409514,;EIF4E2,missense_variant,p.Arg67Thr,ENST00000409495,;EIF4E2,missense_variant,p.Arg62Thr,ENST00000454501,;EIF4E2,intron_variant,,ENST00000409167,;EIF4E2,intron_variant,,ENST00000409322,;EIF4E2,intron_variant,,ENST00000409394,;EIF4E2,downstream_gene_variant,,ENST00000479834,;EIF4E2,non_coding_transcript_exon_variant,,ENST00000498242,;EIF4E2,downstream_gene_variant,,ENST00000463074,;	C	ENSG00000135930	ENST00000258416	Transcript	missense_variant	873	200	67	R/T	aGa/aCa	.	.	.	1	EIF4E2	HGNC	3293	protein_coding	YES	CCDS2496.1	ENSP00000258416	IF4E2_HUMAN	Q53RG0_HUMAN	UPI0000073BFD	.	deleterious(0)	probably_damaging(0.978)	3/7	.	hmmpanther:PTHR11960:SF17,hmmpanther:PTHR11960,Gene3D:3.30.760.10,Pfam_domain:PF01652,Superfamily_domains:SSF55418	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGAGAACCC	.	5	BLCA
SAG	0	.	GRCh37	2	234243683	234243683	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882G>C	p.Arg294Ser	p.R294S	ENST00000409110	11/16	42	34	7	72	72	0	SAG,missense_variant,p.Arg294Ser,ENST00000409110,;SAG,missense_variant,p.Arg160Ser,ENST00000449594,;SAG,non_coding_transcript_exon_variant,,ENST00000483231,;SAG,non_coding_transcript_exon_variant,,ENST00000412969,;SAG,non_coding_transcript_exon_variant,,ENST00000473771,;SAG,non_coding_transcript_exon_variant,,ENST00000469222,;SAG,non_coding_transcript_exon_variant,,ENST00000476500,;SAG,non_coding_transcript_exon_variant,,ENST00000471884,;SAG,upstream_gene_variant,,ENST00000474220,;	C	ENSG00000130561	ENST00000409110	Transcript	missense_variant	1112	882	294	R/S	agG/agC	.	.	.	1	SAG	HGNC	10521	protein_coding	YES	CCDS46545.1	ENSP00000386444	ARRS_HUMAN	E7ESX4_HUMAN,A0FDN6_HUMAN	UPI000013CD8D	.	deleterious(0)	possibly_damaging(0.877)	11/16	.	hmmpanther:PTHR11792:SF15,hmmpanther:PTHR11792,Pfam_domain:PF02752,Gene3D:1g4mB02,SMART_domains:SM01017,Superfamily_domains:SSF81296,Prints_domain:PR00309	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAAGGAGAGG	.	2	BLCA
UBXN2A	0	.	GRCh37	2	24222660	24222660	+	Missense_Mutation	SNP	G	G	C	rs753336862	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.703G>C	p.Glu235Gln	p.E235Q	ENST00000309033	7/7	81	62	19	123	123	0	UBXN2A,missense_variant,p.Glu182Gln,ENST00000535786,;UBXN2A,missense_variant,p.Glu235Gln,ENST00000309033,;UBXN2A,missense_variant,p.Glu235Gln,ENST00000404924,;RN7SL610P,upstream_gene_variant,,ENST00000463845,;UBXN2A,non_coding_transcript_exon_variant,,ENST00000446425,;	C	ENSG00000173960	ENST00000309033	Transcript	missense_variant	947	703	235	E/Q	Gaa/Caa	rs753336862	.	.	1	UBXN2A	HGNC	27265	protein_coding	YES	CCDS1704.1	ENSP00000312107	UBX2A_HUMAN	.	UPI00001616AE	.	tolerated(0.06)	probably_damaging(1)	7/7	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50033,hmmpanther:PTHR23333,hmmpanther:PTHR23333:SF16,Pfam_domain:PF00789,Gene3D:3.10.20.90,SMART_domains:SM00166,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAAGAAGCA	byFrequency	5	BLCA
NCOA1	0	.	GRCh37	2	24933898	24933898	+	Silent	SNP	G	G	A	rs757335592	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2517G>A	p.%3D	p.A839A	ENST00000406961	14/23	42	33	9	50	50	0	NCOA1,synonymous_variant,p.%3D,ENST00000348332,;NCOA1,synonymous_variant,p.%3D,ENST00000407230,;NCOA1,synonymous_variant,p.%3D,ENST00000288599,;NCOA1,synonymous_variant,p.%3D,ENST00000406961,;NCOA1,synonymous_variant,p.%3D,ENST00000395856,;NCOA1,synonymous_variant,p.%3D,ENST00000538539,;NCOA1,synonymous_variant,p.%3D,ENST00000405141,;NCOA1,non_coding_transcript_exon_variant,,ENST00000486198,;	A	ENSG00000084676	ENST00000406961	Transcript	synonymous_variant	3169	2517	839	A	gcG/gcA	rs757335592,COSM574588,COSM574589	.	.	1	NCOA1	HGNC	7668	protein_coding	YES	CCDS1712.1	ENSP00000385216	NCOA1_HUMAN	.	UPI000006E1F7	.	.	.	14/23	.	hmmpanther:PTHR10684:SF1,hmmpanther:PTHR10684,PIRSF_domain:PIRSF038181	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGCGGTCAC	byFrequency	5	BLCA
CENPO	0	.	GRCh37	2	25016769	25016769	+	5'UTR	SNP	A	A	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-20A>C	.	.	ENST00000380834	2/8	59	48	11	85	85	0	CENPO,5_prime_UTR_variant,,ENST00000260662,;CENPO,5_prime_UTR_variant,,ENST00000380834,;CENPO,intron_variant,,ENST00000473706,;PTRHD1,upstream_gene_variant,,ENST00000328379,;CENPO,non_coding_transcript_exon_variant,,ENST00000473476,;CENPO,intron_variant,,ENST00000498362,;PTRHD1,upstream_gene_variant,,ENST00000492046,;PTRHD1,upstream_gene_variant,,ENST00000474668,;PTRHD1,upstream_gene_variant,,ENST00000480190,;PTRHD1,upstream_gene_variant,,ENST00000487316,;CENPO,non_coding_transcript_exon_variant,,ENST00000491031,;CENPO,non_coding_transcript_exon_variant,,ENST00000486527,;PTRHD1,upstream_gene_variant,,ENST00000467797,;	C	ENSG00000138092	ENST00000380834	Transcript	5_prime_UTR_variant	406	.	.	.	.	.	.	.	1	CENPO	HGNC	28152	protein_coding	YES	CCDS1714.1	ENSP00000370214	CENPO_HUMAN	.	UPI000006F5F6	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGGAAGGCC	.	5	BLCA
CENPO	0	.	GRCh37	2	25038510	25038510	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.479C>G	p.Pro160Arg	p.P160R	ENST00000380834	5/8	90	74	16	117	117	0	CENPO,missense_variant,p.Pro160Arg,ENST00000260662,;CENPO,missense_variant,p.Pro160Arg,ENST00000380834,;CENPO,missense_variant,p.Pro154Arg,ENST00000473706,;ADCY3,downstream_gene_variant,,ENST00000260600,;ADCY3,downstream_gene_variant,,ENST00000498288,;ADCY3,downstream_gene_variant,,ENST00000606682,;ADCY3,downstream_gene_variant,,ENST00000405392,;CENPO,non_coding_transcript_exon_variant,,ENST00000498362,;CENPO,non_coding_transcript_exon_variant,,ENST00000464156,;CENPO,upstream_gene_variant,,ENST00000395845,;CENPO,non_coding_transcript_exon_variant,,ENST00000491031,;ADCY3,downstream_gene_variant,,ENST00000485887,;CENPO,downstream_gene_variant,,ENST00000486527,;	G	ENSG00000138092	ENST00000380834	Transcript	missense_variant	904	479	160	P/R	cCc/cGc	.	.	.	1	CENPO	HGNC	28152	protein_coding	YES	CCDS1714.1	ENSP00000370214	CENPO_HUMAN	.	UPI000006F5F6	.	deleterious(0)	probably_damaging(0.996)	5/8	.	hmmpanther:PTHR14582,Pfam_domain:PF09496	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCCCCTGG	.	5	BLCA
C2orf16	0	.	GRCh37	2	27804562	27804562	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5123G>A	p.Arg1708Lys	p.R1708K	ENST00000408964	1/1	188	151	36	263	263	0	C2orf16,missense_variant,p.Arg1708Lys,ENST00000408964,;ZNF512,upstream_gene_variant,,ENST00000355467,;ZNF512,upstream_gene_variant,,ENST00000379717,;ZNF512,upstream_gene_variant,,ENST00000416005,;ZNF512,upstream_gene_variant,,ENST00000413371,;ZNF512,upstream_gene_variant,,ENST00000556601,;AC074091.1,downstream_gene_variant,,ENST00000408604,;RP11-158I13.2,upstream_gene_variant,,ENST00000505973,;ZNF512,upstream_gene_variant,,ENST00000494548,;ZNF512,upstream_gene_variant,,ENST00000461705,;	A	ENSG00000221843	ENST00000408964	Transcript	missense_variant	5174	5123	1708	R/K	aGa/aAa	COSM279372	.	.	1	C2orf16	HGNC	25275	protein_coding	YES	CCDS42666.1	ENSP00000386190	CB016_HUMAN	.	UPI0000D61179	.	tolerated(0.3)	benign(0.321)	1/1	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAGAGAAGAC	.	5	BLCA
CCDC88A	0	.	GRCh37	2	55543135	55543135	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3859G>C	p.Glu1287Gln	p.E1287Q	ENST00000336838	22/33	82	68	14	82	82	0	CCDC88A,missense_variant,p.Glu1287Gln,ENST00000413716,;CCDC88A,missense_variant,p.Glu333Gln,ENST00000412148,;CCDC88A,missense_variant,p.Glu1288Gln,ENST00000436346,;CCDC88A,missense_variant,p.Glu269Gln,ENST00000456975,;CCDC88A,missense_variant,p.Glu1288Gln,ENST00000263630,;CCDC88A,missense_variant,p.Glu1287Gln,ENST00000336838,;CCDC88A,missense_variant,p.Glu463Gln,ENST00000426576,;AC012358.8,intron_variant,,ENST00000608103,;AC012358.8,intron_variant,,ENST00000600219,;AC012358.8,intron_variant,,ENST00000594078,;AC012358.8,intron_variant,,ENST00000599475,;AC012358.8,intron_variant,,ENST00000599352,;AC012358.8,downstream_gene_variant,,ENST00000366287,;CCDC88A,non_coding_transcript_exon_variant,,ENST00000474059,;CCDC88A,non_coding_transcript_exon_variant,,ENST00000476903,;	G	ENSG00000115355	ENST00000336838	Transcript	missense_variant	4393	3859	1287	E/Q	Gaa/Caa	.	.	.	-1	CCDC88A	HGNC	25523	protein_coding	YES	CCDS46288.1	ENSP00000338728	GRDN_HUMAN	C9J225_HUMAN,B4DSN0_HUMAN	UPI00005B7220	.	tolerated(0.19)	probably_damaging(0.999)	22/33	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAATTCAGCTT	.	2	BLCA
CYP26B1	0	.	GRCh37	2	72360154	72360154	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1144G>C	p.Asp382His	p.D382H	ENST00000001146	5/6	27	24	3	66	66	0	CYP26B1,missense_variant,p.Asp191His,ENST00000412253,;CYP26B1,missense_variant,p.Asp307His,ENST00000546307,;CYP26B1,missense_variant,p.Asp382His,ENST00000001146,;CYP26B1,downstream_gene_variant,,ENST00000474509,;CYP26B1,downstream_gene_variant,,ENST00000461519,;	G	ENSG00000003137	ENST00000001146	Transcript	missense_variant	1348	1144	382	D/H	Gat/Cat	.	.	.	-1	CYP26B1	HGNC	20581	protein_coding	YES	CCDS1919.1	ENSP00000001146	CP26B_HUMAN	E7ER08_HUMAN	UPI000003DC62	.	deleterious(0)	probably_damaging(0.982)	5/6	.	hmmpanther:PTHR24288,hmmpanther:PTHR24288:SF9,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACATCAAGCT	.	2	BLCA
IGKC	0	.	GRCh37	2	89157152	89157152	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45G>A	p.Glu16Lys	p.E16K	ENST00000390237	1/1	15	12	3	14	14	0	IGKC,missense_variant,p.Glu16Lys,ENST00000390237,;IGKJ2,downstream_gene_variant,,ENST00000390241,;IGKJ5,downstream_gene_variant,,ENST00000390238,;IGKJ1,downstream_gene_variant,,ENST00000390242,;IGKJ4,downstream_gene_variant,,ENST00000390239,;IGKJ3,downstream_gene_variant,,ENST00000390240,;AC096579.7,non_coding_transcript_exon_variant,,ENST00000430694,;AC096579.7,intron_variant,,ENST00000418209,;AC096579.13,intron_variant,,ENST00000452230,;	T	ENSG00000211592	ENST00000390237	Transcript	missense_variant	45	46	16	E/K	Gag/Aag	.	.	.	-1	IGKC	HGNC	5716	IG_C_gene	YES	.	ENSP00000374777	IGKC_HUMAN	.	UPI0000F30373	.	deleterious(0.02)	benign(0.122)	1/1	.	Superfamily_domains:SSF48726,Gene3D:2.60.40.10,Pfam_domain:PF07654,hmmpanther:PTHR23266:SF79,hmmpanther:PTHR23266,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCATCAG	.	2	BLCA
KIDINS220	0	.	GRCh37	2	8926117	8926117	+	Silent	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1983C>T	p.%3D	p.V661V	ENST00000256707	17/30	24	18	6	51	51	0	KIDINS220,synonymous_variant,p.%3D,ENST00000427284,;KIDINS220,synonymous_variant,p.%3D,ENST00000489024,;KIDINS220,synonymous_variant,p.%3D,ENST00000418530,;KIDINS220,synonymous_variant,p.%3D,ENST00000256707,;KIDINS220,synonymous_variant,p.%3D,ENST00000473731,;KIDINS220,synonymous_variant,p.%3D,ENST00000496383,;KIDINS220,synonymous_variant,p.%3D,ENST00000319688,;KIDINS220,3_prime_UTR_variant,,ENST00000488729,;KIDINS220,downstream_gene_variant,,ENST00000474782,;	A	ENSG00000134313	ENST00000256707	Transcript	synonymous_variant	2165	1983	661	V	gtC/gtT	COSM1409894,COSM81347	.	.	-1	KIDINS220	HGNC	29508	protein_coding	YES	CCDS42650.1	ENSP00000256707	KDIS_HUMAN	F8WAY8_HUMAN	UPI0000208E08	.	.	.	17/30	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24116,hmmpanther:PTHR24116:SF5,Pfam_domain:PF07693	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATGACAAA	.	5	BLCA
IMPG2	0	.	GRCh37	3	100949913	100949913	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3310A>G	p.Ile1104Val	p.I1104V	ENST00000193391	16/19	150	130	20	156	155	0	IMPG2,missense_variant,p.Ile1104Val,ENST00000193391,;	C	ENSG00000081148	ENST00000193391	Transcript	missense_variant	3498	3310	1104	I/V	Atc/Gtc	.	.	.	-1	IMPG2	HGNC	18362	protein_coding	YES	CCDS2940.1	ENSP00000193391	IMPG2_HUMAN	F1T0J3_HUMAN	UPI000013C605	.	deleterious(0.02)	benign(0.053)	16/19	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12199:SF4,hmmpanther:PTHR12199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTGATGCCTA	.	4	BLCA
TATDN2	0	.	GRCh37	3	10290962	10290962	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78C>G	p.%3D	p.L26L	ENST00000287652	2/8	65	46	19	87	87	0	TATDN2,synonymous_variant,p.%3D,ENST00000448281,;TATDN2,synonymous_variant,p.%3D,ENST00000287652,;RP11-438J1.1,upstream_gene_variant,,ENST00000450534,;RP11-438J1.1,upstream_gene_variant,,ENST00000437082,;	G	ENSG00000157014	ENST00000287652	Transcript	synonymous_variant	1129	78	26	L	ctC/ctG	.	.	.	1	TATDN2	HGNC	28988	protein_coding	YES	CCDS33698.1	ENSP00000287652	TATD2_HUMAN	H7BZJ2_HUMAN	UPI000013DEC1	.	.	.	2/8	.	hmmpanther:PTHR10060,hmmpanther:PTHR10060:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCTCCGGGA	.	3	BLCA
TATDN2	0	.	GRCh37	3	10291002	10291002	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118C>G	p.Gln40Glu	p.Q40E	ENST00000287652	2/8	88	64	24	119	119	0	TATDN2,missense_variant,p.Gln40Glu,ENST00000448281,;TATDN2,missense_variant,p.Gln40Glu,ENST00000287652,;RP11-438J1.1,upstream_gene_variant,,ENST00000450534,;RP11-438J1.1,upstream_gene_variant,,ENST00000437082,;	G	ENSG00000157014	ENST00000287652	Transcript	missense_variant	1169	118	40	Q/E	Cag/Gag	.	.	.	1	TATDN2	HGNC	28988	protein_coding	YES	CCDS33698.1	ENSP00000287652	TATD2_HUMAN	H7BZJ2_HUMAN	UPI000013DEC1	.	tolerated_low_confidence(0.82)	benign(0.015)	2/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10060,hmmpanther:PTHR10060:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCAGAGG	.	5	BLCA
ATP2B2	0	.	GRCh37	3	10379904	10379904	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3376G>A	p.Gly1126Ser	p.G1126S	ENST00000360273	22/23	33	28	5	53	53	0	ATP2B2,missense_variant,p.Gly1112Ser,ENST00000343816,;ATP2B2,missense_variant,p.Gly1126Ser,ENST00000360273,;ATP2B2,missense_variant,p.Gly1081Ser,ENST00000383800,;ATP2B2,missense_variant,p.Gly1126Ser,ENST00000352432,;ATP2B2,missense_variant,p.Gly1081Ser,ENST00000397077,;ATP2B2,missense_variant,p.Gly982Ser,ENST00000452124,;ATP2B2,upstream_gene_variant,,ENST00000467702,;ATP2B2,missense_variant,p.Gly1081Ser,ENST00000460129,;	T	ENSG00000157087	ENST00000360273	Transcript	missense_variant	3815	3376	1126	G/S	Ggc/Agc	.	.	.	-1	ATP2B2	HGNC	815	protein_coding	YES	CCDS33701.1	ENSP00000353414	AT2B2_HUMAN	Q4J699_HUMAN,Q4J696_HUMAN	UPI00001261EF	.	deleterious(0.03)	probably_damaging(1)	22/23	.	Pfam_domain:PF12424	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGCCCCGCC	.	5	BLCA
CBLB	0	.	GRCh37	3	105377987	105377987	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2776G>C	p.Glu926Gln	p.E926Q	ENST00000264122	19/19	109	94	15	105	105	0	CBLB,missense_variant,p.Glu141Gln,ENST00000407712,;CBLB,missense_variant,p.Glu265Gln,ENST00000394030,;CBLB,missense_variant,p.Glu904Gln,ENST00000394027,;CBLB,missense_variant,p.Glu926Gln,ENST00000264122,;CBLB,non_coding_transcript_exon_variant,,ENST00000476370,;	G	ENSG00000114423	ENST00000264122	Transcript	missense_variant	3098	2776	926	E/Q	Gag/Cag	COSM1308348	.	.	-1	CBLB	HGNC	1542	protein_coding	YES	CCDS2948.1	ENSP00000264122	CBLB_HUMAN	C9JU85_HUMAN,B5MC15_HUMAN	UPI00001AE89F	.	tolerated_low_confidence(0.2)	benign(0.255)	19/19	.	hmmpanther:PTHR23007,hmmpanther:PTHR23007:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCAGGCC	.	4	BLCA
BBX	0	.	GRCh37	3	107497231	107497231	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2068G>C	p.Asp690His	p.D690H	ENST00000325805	13/18	80	52	28	97	97	0	BBX,missense_variant,p.Trp353Cys,ENST00000416476,;BBX,missense_variant,p.Asp690His,ENST00000415149,;BBX,missense_variant,p.Asp690His,ENST00000402543,;BBX,missense_variant,p.Asp690His,ENST00000325805,;BBX,missense_variant,p.Asp690His,ENST00000406780,;BBX,upstream_gene_variant,,ENST00000443253,;BBX,non_coding_transcript_exon_variant,,ENST00000473542,;	C	ENSG00000114439	ENST00000325805	Transcript	missense_variant	2355	2068	690	D/H	Gat/Cat	COSM4136460,COSM4136459	.	.	1	BBX	HGNC	14422	protein_coding	YES	CCDS46881.1	ENSP00000319974	BBX_HUMAN	Q9H6A7_HUMAN,C9K0D1_HUMAN,C9JZA0_HUMAN,C9JYU6_HUMAN,C9JSH4_HUMAN,C9JNU3_HUMAN,C9JIZ2_HUMAN,C9JE62_HUMAN,C9JC04_HUMAN,C9J8D0_HUMAN,C9J0J4_HUMAN,C9J067_HUMAN,C9IYS9_HUMAN	UPI000007315E	.	deleterious(0)	probably_damaging(0.914)	13/18	.	hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGGATGAA	.	5	BLCA
HRH1	0	.	GRCh37	3	11301018	11301018	+	Missense_Mutation	SNP	C	C	G	rs773317083	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.295C>G	p.Leu99Val	p.L99V	ENST00000397056	3/3	158	150	8	209	209	0	HRH1,missense_variant,p.Leu99Val,ENST00000431010,;HRH1,missense_variant,p.Leu99Val,ENST00000438284,;HRH1,missense_variant,p.Leu99Val,ENST00000397056,;HRH1,downstream_gene_variant,,ENST00000413416,;	G	ENSG00000196639	ENST00000397056	Transcript	missense_variant	486	295	99	L/V	Ctc/Gtc	rs773317083	.	.	1	HRH1	HGNC	5182	protein_coding	YES	CCDS2604.1	ENSP00000380247	HRH1_HUMAN	.	UPI0000050401	.	tolerated(1)	benign(0.401)	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249,hmmpanther:PTHR24249:SF244,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCTCTCTGC	.	2	BLCA
CD80	0	.	GRCh37	3	119256241	119256241	+	Missense_Mutation	SNP	G	G	C	rs757678560	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>G	p.Ser148Cys	p.S148C	ENST00000264246	4/7	60	51	9	33	33	0	CD80,missense_variant,p.Ser148Cys,ENST00000264246,;CD80,missense_variant,p.Ser148Cys,ENST00000383669,;CD80,missense_variant,p.Ser148Cys,ENST00000478182,;CD80,intron_variant,,ENST00000383668,;	C	ENSG00000121594	ENST00000264246	Transcript	missense_variant	806	443	148	S/C	tCt/tGt	rs757678560	.	.	-1	CD80	HGNC	1700	protein_coding	YES	CCDS2989.1	ENSP00000264246	CD80_HUMAN	Q6LCB7_HUMAN,A0N0P2_HUMAN	UPI000000D9F5	.	deleterious(0)	possibly_damaging(0.608)	4/7	.	Gene3D:2.60.40.10,Pfam_domain:PF08205,hmmpanther:PTHR25462:SF214,hmmpanther:PTHR25462,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCAGATATA	.	4	BLCA
IQCB1	0	.	GRCh37	3	121489208	121489208	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1781G>A	p.Gly594Glu	p.G594E	ENST00000310864	15/15	63	58	5	49	49	0	IQCB1,missense_variant,p.Gly461Glu,ENST00000349820,;IQCB1,missense_variant,p.Gly594Glu,ENST00000310864,;IQCB1,3_prime_UTR_variant,,ENST00000393650,;	T	ENSG00000173226	ENST00000310864	Transcript	missense_variant	1996	1781	594	G/E	gGa/gAa	.	.	.	-1	IQCB1	HGNC	28949	protein_coding	YES	CCDS33837.1	ENSP00000311505	IQCB1_HUMAN	C9JXD7_HUMAN,C9JVC4_HUMAN,C9J6Z7_HUMAN	UPI0000139154	.	deleterious(0)	probably_damaging(1)	15/15	.	hmmpanther:PTHR15673,hmmpanther:PTHR15673:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGTTCCACCA	.	3	BLCA
MYLK	0	.	GRCh37	3	123348513	123348513	+	Intron	SNP	A	A	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4962-40T>G	.	.	ENST00000360304	.	46	25	21	36	36	0	MYLK,intron_variant,,ENST00000360304,;MYLK,intron_variant,,ENST00000360772,;MYLK,intron_variant,,ENST00000346322,;MYLK,intron_variant,,ENST00000475616,;MYLK,intron_variant,,ENST00000359169,;MYLK,intron_variant,,ENST00000354792,;MYLK,upstream_gene_variant,,ENST00000418370,;MYLK-AS1,non_coding_transcript_exon_variant,,ENST00000485162,;MYLK-AS1,non_coding_transcript_exon_variant,,ENST00000463408,;MYLK-AS1,non_coding_transcript_exon_variant,,ENST00000470449,;MYLK,intron_variant,,ENST00000464489,;	C	ENSG00000065534	ENST00000360304	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MYLK	HGNC	7590	protein_coding	YES	CCDS46896.1	ENSP00000353452	MYLK_HUMAN	Q06S79_HUMAN,Q05B98_HUMAN,Q05B97_HUMAN,D6R9C2_HUMAN,B4DUE3_HUMAN	UPI000020A0AE	.	.	.	.	29/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAGAGGGCG	.	5	BLCA
KALRN	0	.	GRCh37	3	124175549	124175549	+	Silent	SNP	G	G	A	rs147099139	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3822G>A	p.%3D	p.E1274E	ENST00000240874	23/34	59	49	10	32	32	0	KALRN,synonymous_variant,p.%3D,ENST00000240874,;KALRN,synonymous_variant,p.%3D,ENST00000460856,;KALRN,synonymous_variant,p.%3D,ENST00000354186,;KALRN,synonymous_variant,p.%3D,ENST00000360013,;KALRN,non_coding_transcript_exon_variant,,ENST00000494648,;KALRN,non_coding_transcript_exon_variant,,ENST00000393501,;	A	ENSG00000160145	ENST00000240874	Transcript	synonymous_variant	3979	3822	1274	E	gaG/gaA	rs147099139	.	.	1	KALRN	HGNC	4814	protein_coding	YES	CCDS3027.1	ENSP00000240874	KALRN_HUMAN	.	UPI000012C095	.	.	.	23/34	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22826,hmmpanther:PTHR22826:SF49,Gene3D:1.20.900.10	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAGAGAAGCG	.	2	BLCA
PPARG	0	.	GRCh37	3	12458312	12458312	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929T>C	p.Phe310Ser	p.F310S	ENST00000287820	6/7	40	28	11	66	66	0	PPARG,missense_variant,p.Phe310Ser,ENST00000287820,;PPARG,missense_variant,p.Phe288Ser,ENST00000397026,;PPARG,missense_variant,p.Phe282Ser,ENST00000397010,;PPARG,missense_variant,p.Phe282Ser,ENST00000397012,;PPARG,missense_variant,p.Phe282Ser,ENST00000309576,;PPARG,missense_variant,p.Phe282Ser,ENST00000397015,;PPARG,intron_variant,,ENST00000397000,;PPARG,intron_variant,,ENST00000539812,;PPARG,3_prime_UTR_variant,,ENST00000396999,;PPARG,3_prime_UTR_variant,,ENST00000397023,;	C	ENSG00000132170	ENST00000287820	Transcript	missense_variant	1050	929	310	F/S	tTt/tCt	.	.	.	1	PPARG	HGNC	9236	protein_coding	YES	CCDS2609.1	ENSP00000287820	PPARG_HUMAN	Q9UEF6_HUMAN,Q6L9M1_HUMAN,E9PFJ1_HUMAN,E7EUD1_HUMAN,E7EU07_HUMAN,D2KUA6_HUMAN	UPI0000055911	.	deleterious(0)	probably_damaging(0.999)	6/7	.	hmmpanther:PTHR24082:SF14,hmmpanther:PTHR24082,Gene3D:1.10.565.10,Superfamily_domains:SSF48508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTTTCAGG	.	5	BLCA
HEG1	0	.	GRCh37	3	124739840	124739840	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048C>T	p.%3D	p.L350L	ENST00000311127	4/17	33	27	6	29	29	0	HEG1,synonymous_variant,p.%3D,ENST00000311127,;HEG1,upstream_gene_variant,,ENST00000477536,;	A	ENSG00000173706	ENST00000311127	Transcript	synonymous_variant	1116	1048	350	L	Ctg/Ttg	.	.	.	-1	HEG1	HGNC	29227	protein_coding	YES	CCDS46898.1	ENSP00000311502	HEG1_HUMAN	.	UPI00006C069B	.	.	.	4/17	.	hmmpanther:PTHR24037:SF2,hmmpanther:PTHR24037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCAGACTGA	.	5	BLCA
OSBPL11	0	.	GRCh37	3	125257297	125257297	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2022C>T	p.%3D	p.S674S	ENST00000296220	11/13	118	103	15	107	107	0	OSBPL11,synonymous_variant,p.%3D,ENST00000296220,;	A	ENSG00000144909	ENST00000296220	Transcript	synonymous_variant	2312	2022	674	S	tcC/tcT	.	.	.	-1	OSBPL11	HGNC	16397	protein_coding	YES	CCDS3033.1	ENSP00000296220	OSB11_HUMAN	Q9GZM0_HUMAN	UPI0000130E9C	.	.	.	11/13	.	hmmpanther:PTHR10972,hmmpanther:PTHR10972:SF46,Pfam_domain:PF01237,Superfamily_domains:0051579	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTGGATTC	.	4	BLCA
RUVBL1	0	.	GRCh37	3	127801372	127801372	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165G>T	p.Glu389Ter	p.E389*	ENST00000322623	10/11	91	84	7	79	79	0	RUVBL1,stop_gained,p.Glu389Ter,ENST00000322623,;RUVBL1,stop_gained,p.Glu200Ter,ENST00000478892,;RUVBL1,intron_variant,,ENST00000472125,;RUVBL1,intron_variant,,ENST00000417360,;RUVBL1,intron_variant,,ENST00000464873,;RUVBL1-AS1,downstream_gene_variant,,ENST00000485218,;RUVBL1,downstream_gene_variant,,ENST00000480616,;RUVBL1,downstream_gene_variant,,ENST00000478243,;RUVBL1,stop_gained,p.Glu116Ter,ENST00000585057,;RUVBL1,non_coding_transcript_exon_variant,,ENST00000582176,;	A	ENSG00000175792	ENST00000322623	Transcript	stop_gained	1265	1165	389	E/*	Gag/Tag	.	.	.	-1	RUVBL1	HGNC	10474	protein_coding	YES	CCDS3047.1	ENSP00000318297	RUVB1_HUMAN	J3QLR1_HUMAN	UPI0000044739	.	.	.	10/11	.	hmmpanther:PTHR11093,Pfam_domain:PF06068,Gene3D:1.10.8.60,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCTCCTCAC	.	3	BLCA
GATA2	0	.	GRCh37	3	128199904	128199904	+	Silent	SNP	G	G	A	rs534807053	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1401C>T	p.%3D	p.F467F	ENST00000341105	6/6	17	11	6	25	25	0	GATA2,synonymous_variant,p.%3D,ENST00000341105,;GATA2,synonymous_variant,p.%3D,ENST00000430265,;GATA2,synonymous_variant,p.%3D,ENST00000487848,;GATA2,non_coding_transcript_exon_variant,,ENST00000489987,;	A	ENSG00000179348	ENST00000341105	Transcript	synonymous_variant	1733	1401	467	F	ttC/ttT	rs534807053,COSM3587111	.	.	-1	GATA2	HGNC	4171	protein_coding	YES	CCDS3049.1	ENSP00000345681	GATA2_HUMAN	C9J965_HUMAN	UPI00000730CD	.	.	.	6/6	.	hmmpanther:PTHR10071:SF149,hmmpanther:PTHR10071,PIRSF_domain:PIRSF003027	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCCGAAGGA	by1000G	5	BLCA
TMCC1	0	.	GRCh37	3	129389575	129389575	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1109G>A	p.Arg370Lys	p.R370K	ENST00000393238	4/6	44	39	5	44	44	0	TMCC1,missense_variant,p.Arg191Lys,ENST00000329333,;TMCC1,missense_variant,p.Arg256Lys,ENST00000426664,;TMCC1,missense_variant,p.Arg46Lys,ENST00000432054,;TMCC1,missense_variant,p.Arg370Lys,ENST00000393238,;TMCC1,downstream_gene_variant,,ENST00000505616,;	T	ENSG00000172765	ENST00000393238	Transcript	missense_variant	1450	1109	370	R/K	aGa/aAa	.	.	.	-1	TMCC1	HGNC	29116	protein_coding	YES	CCDS33855.1	ENSP00000376930	TMCC1_HUMAN	Q8N4H2_HUMAN,Q6N039_HUMAN,E9PC87_HUMAN,D6RBT7_HUMAN	UPI0000197B80	.	tolerated(0.1)	benign(0.124)	4/6	.	Pfam_domain:PF10267,hmmpanther:PTHR17613,hmmpanther:PTHR17613:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCTGGGC	.	4	BLCA
TMCC1	0	.	GRCh37	3	129389916	129389916	+	Silent	SNP	G	G	A	rs759675425	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768C>T	p.%3D	p.D256D	ENST00000393238	4/6	259	215	43	216	216	0	TMCC1,synonymous_variant,p.%3D,ENST00000329333,;TMCC1,synonymous_variant,p.%3D,ENST00000426664,;TMCC1,synonymous_variant,p.%3D,ENST00000393238,;TMCC1,5_prime_UTR_variant,,ENST00000432054,;TMCC1,downstream_gene_variant,,ENST00000505616,;	A	ENSG00000172765	ENST00000393238	Transcript	synonymous_variant	1109	768	256	D	gaC/gaT	rs759675425,COSM4113404,COSM4113405	.	.	-1	TMCC1	HGNC	29116	protein_coding	YES	CCDS33855.1	ENSP00000376930	TMCC1_HUMAN	Q8N4H2_HUMAN,Q6N039_HUMAN,E9PC87_HUMAN,D6RBT7_HUMAN	UPI0000197B80	.	.	.	4/6	.	Pfam_domain:PF10267,hmmpanther:PTHR17613,hmmpanther:PTHR17613:SF11	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTCGTCCCG	.	4	BLCA
IQSEC1	0	.	GRCh37	3	12976945	12976945	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1610+3G>A	.	.	ENST00000273221	.	26	21	5	72	72	0	IQSEC1,splice_region_variant,,ENST00000429247,;IQSEC1,splice_region_variant,,ENST00000273221,;IQSEC1,splice_region_variant,,ENST00000450726,;IQSEC1,downstream_gene_variant,,ENST00000473088,;	T	ENSG00000144711	ENST00000273221	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	IQSEC1	HGNC	29112	protein_coding	YES	CCDS33703.1	ENSP00000273221	IQEC1_HUMAN	.	UPI00003E1F36	.	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTCACTTG	.	4	BLCA
RP11-93K22.13	0	.	GRCh37	3	129811026	129811026	+	Intron	SNP	G	G	A	rs764076460	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.158-316C>T	.	.	ENST00000514010	.	27	24	3	24	24	0	RP11-93K22.13,intron_variant,,ENST00000514010,;AC083906.2,upstream_gene_variant,,ENST00000578837,;ALG1L2,non_coding_transcript_exon_variant,,ENST00000503500,;ALG1L2,non_coding_transcript_exon_variant,,ENST00000507643,;ALG1L2,upstream_gene_variant,,ENST00000511726,;ALG1L2,non_coding_transcript_exon_variant,,ENST00000425059,;ALG1L2,non_coding_transcript_exon_variant,,ENST00000506370,;	A	ENSG00000248243	ENST00000514010	Transcript	intron_variant	.	.	.	.	.	rs764076460	.	.	-1	RP11-93K22.13	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCACGAGCGG	.	2	BLCA
DNAJC13	0	.	GRCh37	3	132175666	132175666	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1339C>G	p.Gln447Glu	p.Q447E	ENST00000260818	12/56	52	44	8	45	45	0	DNAJC13,missense_variant,p.Gln447Glu,ENST00000260818,;DNAJC13,non_coding_transcript_exon_variant,,ENST00000486798,;DNAJC13,non_coding_transcript_exon_variant,,ENST00000471925,;	G	ENSG00000138246	ENST00000260818	Transcript	missense_variant	1587	1339	447	Q/E	Cag/Gag	.	.	.	1	DNAJC13	HGNC	30343	protein_coding	YES	CCDS33857.1	ENSP00000260818	DJC13_HUMAN	.	UPI000022C1FD	.	tolerated(0.88)	benign(0.015)	12/56	.	Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCACTCAGCTT	.	2	BLCA
CEP63	0	.	GRCh37	3	134278167	134278167	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1849C>G	p.Leu617Val	p.L617V	ENST00000337090	14/15	114	108	6	134	134	0	CEP63,missense_variant,p.Leu617Val,ENST00000337090,;CEP63,missense_variant,p.Leu617Val,ENST00000513612,;CEP63,missense_variant,p.Leu617Val,ENST00000606977,;CEP63,intron_variant,,ENST00000383229,;CEP63,intron_variant,,ENST00000514678,;CEP63,intron_variant,,ENST00000354446,;CEP63,intron_variant,,ENST00000332047,;CEP63,downstream_gene_variant,,ENST00000504929,;CEP63,intron_variant,,ENST00000510625,;	G	ENSG00000182923	ENST00000337090	Transcript	missense_variant	2022	1849	617	L/V	Cta/Gta	.	.	.	1	CEP63	HGNC	25815	protein_coding	YES	CCDS3086.1	ENSP00000336524	CEP63_HUMAN	D6RAY6_HUMAN,D6R9Q4_HUMAN	UPI000006D2FD	.	deleterious(0.02)	benign(0.033)	14/15	.	hmmpanther:PTHR18875,hmmpanther:PTHR18875:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCTCTATGT	.	2	BLCA
FOXL2	0	.	GRCh37	3	138665349	138665349	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.216G>A	p.%3D	p.E72E	ENST00000330315	1/1	100	85	15	82	82	0	FOXL2,synonymous_variant,p.%3D,ENST00000330315,;C3orf72,upstream_gene_variant,,ENST00000383165,;RP11-548O1.3,upstream_gene_variant,,ENST00000483650,;RP11-548O1.3,upstream_gene_variant,,ENST00000495287,;RP11-548O1.3,upstream_gene_variant,,ENST00000477059,;C3orf72,upstream_gene_variant,,ENST00000470680,;C3orf72,upstream_gene_variant,,ENST00000498709,;	T	ENSG00000183770	ENST00000330315	Transcript	synonymous_variant	634	216	72	E	gaG/gaA	CD087432,CD025236,COSM1308650	.	.	-1	FOXL2	HGNC	1092	protein_coding	YES	CCDS3105.1	ENSP00000333188	FOXL2_HUMAN	Q53ZD3_HUMAN,Q4JHB7_HUMAN,Q4JHB5_HUMAN	UPI0000050DB3	.	.	.	1/1	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF105,Pfam_domain:PF00250,Gene3D:1.10.10.10,SMART_domains:SM00339,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	0,0,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTCCGC	.	4	BLCA
PLS1	0	.	GRCh37	3	142396880	142396880	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.504G>A	p.Met168Ile	p.M168I	ENST00000337777	6/16	54	35	19	51	51	0	PLS1,missense_variant,p.Met168Ile,ENST00000337777,;PLS1,missense_variant,p.Met168Ile,ENST00000457734,;PLS1,missense_variant,p.Met168Ile,ENST00000497002,;PLS1,missense_variant,p.Met89Ile,ENST00000476044,;RN7SKP25,downstream_gene_variant,,ENST00000362449,;	A	ENSG00000120756	ENST00000337777	Transcript	missense_variant	717	504	168	M/I	atG/atA	.	.	.	1	PLS1	HGNC	9090	protein_coding	YES	CCDS3125.1	ENSP00000336831	PLSI_HUMAN	C9JYI1_HUMAN,C9JVY2_HUMAN,C9JU08_HUMAN,C9JAM8_HUMAN,C9JAM3_HUMAN,C9J359_HUMAN,C9J0F3_HUMAN	UPI000013D59A	.	tolerated(0.18)	benign(0.006)	6/16	.	PROSITE_profiles:PS50021,hmmpanther:PTHR19961:SF27,hmmpanther:PTHR19961,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAAATGATCAA	.	5	BLCA
TM4SF4	0	.	GRCh37	3	149192627	149192627	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-38G>C	.	.	ENST00000305354	1/5	34	30	4	50	50	0	TM4SF4,5_prime_UTR_variant,,ENST00000465758,;TM4SF4,5_prime_UTR_variant,,ENST00000305354,;TM4SF4,upstream_gene_variant,,ENST00000463068,;	C	ENSG00000169903	ENST00000305354	Transcript	5_prime_UTR_variant	867	.	.	.	.	.	.	.	1	TM4SF4	HGNC	11856	protein_coding	YES	CCDS46932.1	ENSP00000305852	T4S4_HUMAN	.	UPI000013683D	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAGGAGCTT	.	4	BLCA
MLF1	0	.	GRCh37	3	158310291	158310291	+	Missense_Mutation	SNP	G	G	C	rs758949500	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164G>C	p.Arg55Thr	p.R55T	ENST00000392822	3/9	85	79	5	57	57	0	MLF1,missense_variant,p.Arg14Thr,ENST00000484955,;MLF1,missense_variant,p.Arg14Thr,ENST00000478894,;MLF1,missense_variant,p.Arg39Thr,ENST00000355893,;MLF1,missense_variant,p.Arg14Thr,ENST00000477042,;MLF1,missense_variant,p.Arg14Thr,ENST00000469452,;MLF1,missense_variant,p.Arg55Thr,ENST00000392822,;MLF1,missense_variant,p.Arg14Thr,ENST00000482628,;MLF1,missense_variant,p.Arg14Thr,ENST00000471745,;MLF1,missense_variant,p.Arg39Thr,ENST00000466246,;MLF1,missense_variant,p.Arg14Thr,ENST00000359117,;MLF1,intron_variant,,ENST00000491767,;MLF1,intron_variant,,ENST00000498592,;MLF1,non_coding_transcript_exon_variant,,ENST00000497004,;MLF1,3_prime_UTR_variant,,ENST00000487838,;MLF1,3_prime_UTR_variant,,ENST00000495452,;	C	ENSG00000178053	ENST00000392822	Transcript	missense_variant	431	164	55	R/T	aGa/aCa	rs758949500	.	.	1	MLF1	HGNC	7125	protein_coding	YES	CCDS56286.1	ENSP00000376568	MLF1_HUMAN	C9K0D3_HUMAN,C9JNE5_HUMAN	UPI000007134A	.	tolerated(0.09)	possibly_damaging(0.836)	3/9	.	Pfam_domain:PF10248,hmmpanther:PTHR13105,hmmpanther:PTHR13105:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGAAGAGACT	.	2	BLCA
SMC4	0	.	GRCh37	3	160143888	160143888	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2505G>C	p.Leu835Phe	p.L835F	ENST00000357388	17/24	209	195	14	200	200	0	SMC4,missense_variant,p.Leu835Phe,ENST00000344722,;SMC4,missense_variant,p.Leu810Phe,ENST00000469762,;SMC4,missense_variant,p.Leu835Phe,ENST00000462787,;SMC4,missense_variant,p.Leu835Phe,ENST00000357388,;SMC4,missense_variant,p.Leu835Phe,ENST00000360111,;SMC4,non_coding_transcript_exon_variant,,ENST00000462668,;RP11-432B6.3,intron_variant,,ENST00000483754,;SMC4,downstream_gene_variant,,ENST00000469858,;SMC4,upstream_gene_variant,,ENST00000488017,;SMC4,downstream_gene_variant,,ENST00000497203,;SMC4,upstream_gene_variant,,ENST00000486711,;	C	ENSG00000113810	ENST00000357388	Transcript	missense_variant	2956	2505	835	L/F	ttG/ttC	.	.	.	1	SMC4	HGNC	14013	protein_coding	YES	CCDS3189.1	ENSP00000349961	SMC4_HUMAN	C9JWF0_HUMAN,C9JVD8_HUMAN,C9JR83_HUMAN,C9JJ64_HUMAN,C9J9E4_HUMAN,C9J578_HUMAN,C9IYK2_HUMAN	UPI000006DA0A	.	deleterious(0)	possibly_damaging(0.616)	17/24	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18937,hmmpanther:PTHR18937:SF148,Gene3D:3.40.50.300,Pfam_domain:PF02463,PIRSF_domain:PIRSF005719	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATTTGAATGT	.	2	BLCA
MECOM	0	.	GRCh37	3	168834378	168834378	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.913G>A	p.Glu305Lys	p.E305K	ENST00000264674	8/17	167	147	20	165	165	0	MECOM,missense_variant,p.Glu241Lys,ENST00000472280,;MECOM,missense_variant,p.Glu240Lys,ENST00000460814,;MECOM,missense_variant,p.Glu240Lys,ENST00000464456,;MECOM,missense_variant,p.Glu428Lys,ENST00000494292,;MECOM,missense_variant,p.Glu240Lys,ENST00000468789,;MECOM,missense_variant,p.Glu241Lys,ENST00000433243,;MECOM,missense_variant,p.Glu240Lys,ENST00000392736,;MECOM,missense_variant,p.Glu305Lys,ENST00000264674,;MECOM,intron_variant,,ENST00000492586,;MECOM,downstream_gene_variant,,ENST00000461430,;	T	ENSG00000085276	ENST00000264674	Transcript	missense_variant	1052	913	305	E/K	Gag/Aag	COSM3589893,COSM3589892	.	.	-1	MECOM	HGNC	3498	protein_coding	YES	CCDS54670.1	ENSP00000264674	EVI1_HUMAN	Q9UBK3_HUMAN,Q8IU84_HUMAN,E9PGE9_HUMAN,E7EU48_HUMAN,E7ERX0_HUMAN,E7EPY2_HUMAN,D3DNP4_HUMAN	UPI00015D43FA	.	deleterious(0)	probably_damaging(0.993)	8/17	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24393,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCACAAA	.	4	BLCA
SLC2A2	0	.	GRCh37	3	170715650	170715650	+	3'UTR	SNP	C	C	T	rs772567944	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*42G>A	.	.	ENST00000314251	11/11	46	40	5	58	58	0	SLC2A2,3_prime_UTR_variant,,ENST00000314251,;SLC2A2,3_prime_UTR_variant,,ENST00000382808,;RNU1-70P,upstream_gene_variant,,ENST00000362618,;SLC2A2,3_prime_UTR_variant,,ENST00000469787,;SLC2A2,3_prime_UTR_variant,,ENST00000497642,;	T	ENSG00000163581	ENST00000314251	Transcript	3_prime_UTR_variant	1697	.	.	.	.	rs772567944	.	.	-1	SLC2A2	HGNC	11006	protein_coding	YES	CCDS3215.1	ENSP00000323568	GTR2_HUMAN	Q6PAU8_HUMAN,C9J0E8_HUMAN	UPI000004EC97	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGTTCCCTTA	byFrequency	2	BLCA
FNDC3B	0	.	GRCh37	3	172052792	172052792	+	Missense_Mutation	SNP	C	C	T	rs149280961	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1700C>T	p.Thr567Met	p.T567M	ENST00000336824	15/26	241	205	35	194	194	0	FNDC3B,missense_variant,p.Thr567Met,ENST00000416957,;FNDC3B,missense_variant,p.Thr567Met,ENST00000415807,;FNDC3B,missense_variant,p.Thr567Met,ENST00000336824,;FNDC3B,non_coding_transcript_exon_variant,,ENST00000494000,;FNDC3B,non_coding_transcript_exon_variant,,ENST00000469491,;	T	ENSG00000075420	ENST00000336824	Transcript	missense_variant	1799	1700	567	T/M	aCg/aTg	rs149280961	.	.	1	FNDC3B	HGNC	24670	protein_coding	YES	CCDS3217.1	ENSP00000338523	FND3B_HUMAN	.	UPI00001AE8B2	.	deleterious(0)	probably_damaging(0.999)	15/26	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900,hmmpanther:PTHR19900:SF54,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACGACGAGTC	byCluster|by1000G	4	BLCA
NCEH1	0	.	GRCh37	3	172428787	172428787	+	Silent	SNP	C	C	G	rs760453997	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84G>C	p.%3D	p.P28P	ENST00000538775	1/5	68	59	9	42	42	0	NCEH1,synonymous_variant,p.%3D,ENST00000538775,;NCEH1,synonymous_variant,p.%3D,ENST00000424772,;NCEH1,synonymous_variant,p.%3D,ENST00000273512,;NCEH1,5_prime_UTR_variant,,ENST00000543711,;NCEH1,5_prime_UTR_variant,,ENST00000475381,;NCEH1,synonymous_variant,p.%3D,ENST00000421723,;	G	ENSG00000144959	ENST00000538775	Transcript	synonymous_variant	222	84	28	P	ccG/ccC	rs760453997	.	.	-1	NCEH1	HGNC	29260	protein_coding	YES	CCDS54682.1	ENSP00000442464	.	F5H7K4_HUMAN	UPI000199A4B7	.	.	.	1/5	.	PIRSF_domain:PIRSF037251,hmmpanther:PTHR23024:SF108,hmmpanther:PTHR23024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTCGGCTC	byFrequency|byCluster	4	BLCA
TBC1D5	0	.	GRCh37	3	17446432	17446432	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298C>G	p.Gln100Glu	p.Q100E	ENST00000446818	7/24	46	42	4	80	80	0	TBC1D5,missense_variant,p.Gln52Glu,ENST00000429924,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000415814,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000429383,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000425944,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000428355,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000445294,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000446818,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000414349,;TBC1D5,missense_variant,p.Gln100Glu,ENST00000253692,;TBC1D5,downstream_gene_variant,,ENST00000507877,;TBC1D5,downstream_gene_variant,,ENST00000434420,;TBC1D5,downstream_gene_variant,,ENST00000446863,;TBC1D5,non_coding_transcript_exon_variant,,ENST00000443499,;TBC1D5,intron_variant,,ENST00000414318,;TBC1D5,downstream_gene_variant,,ENST00000444756,;TBC1D5,downstream_gene_variant,,ENST00000443386,;TBC1D5,downstream_gene_variant,,ENST00000497531,;TBC1D5,3_prime_UTR_variant,,ENST00000412981,;TBC1D5,3_prime_UTR_variant,,ENST00000452492,;TBC1D5,3_prime_UTR_variant,,ENST00000430169,;	C	ENSG00000131374	ENST00000446818	Transcript	missense_variant	562	298	100	Q/E	Caa/Gaa	.	.	.	-1	TBC1D5	HGNC	19166	protein_coding	YES	CCDS46770.1	ENSP00000402935	TBCD5_HUMAN	F2Z3C3_HUMAN,C9K0P2_HUMAN,C9JWX0_HUMAN,C9JW04_HUMAN,C9JNM0_HUMAN,C9JMP7_HUMAN,C9JIU4_HUMAN,C9JED7_HUMAN,C9JDR8_HUMAN,C9J397_HUMAN	UPI00017E10F6	.	tolerated(1)	benign(0.015)	7/24	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF220,Pfam_domain:PF00566,Gene3D:2qq8A02,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTGAGGAA	.	4	BLCA
PIK3CA	0	.	GRCh37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1633G>A	p.Glu545Lys	p.E545K	ENST00000263967	10/21	59	50	9	44	44	0	PIK3CA,missense_variant,p.Glu545Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1790	1633	545	E/K	Gag/Aag	rs104886003,COSM763,COSM27133,COSM125370,COSM295672	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.02)	probably_damaging(0.959)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	0,1,1,1,1	21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E545K|c.1633G>A|227,SITE|p.E545K|c.1633G>A|1153,CODON|p.T544N|c.1631C>A|3,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542K|c.1624G>A|115,BUFFER|p.E542K|c.1624G>A|758,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4,BUFFER|p.Q546K|c.1636C>A|119,BUFFER|p.Q546E|c.1636C>G|15,BUFFER|p.Q546K|c.1636C>A|18,BUFFER|p.Q546R|c.1637A>G|20,BUFFER|p.Q546P|c.1637A>C|22,BUFFER|p.Q546P|c.1637A>C|7,BUFFER|p.Q546L|c.1637A>T|8,BUFFER|p.Q546R|c.1637A>G|41,BUFFER|p.Q546H|c.1638G>T|7,BUFFER|p.E547K|c.1639G>A|11,BUFFER|p.E547G|c.1640A>G|5,BUFFER|p.E547G|c.1640A>G|5	RADIA|MUTECT|MUSE|VARSCANS	TCACTGAGCAG	byCluster	4	BLCA
ZNF639	0	.	GRCh37	3	179051361	179051361	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.609C>G	p.%3D	p.L203L	ENST00000326361	7/7	98	83	14	88	88	0	ZNF639,synonymous_variant,p.%3D,ENST00000496856,;ZNF639,synonymous_variant,p.%3D,ENST00000491818,;ZNF639,synonymous_variant,p.%3D,ENST00000466264,;ZNF639,synonymous_variant,p.%3D,ENST00000484866,;ZNF639,synonymous_variant,p.%3D,ENST00000326361,;ZNF639,downstream_gene_variant,,ENST00000481587,;ZNF639,downstream_gene_variant,,ENST00000494234,;RP11-255C15.4,upstream_gene_variant,,ENST00000610130,;ZNF639,non_coding_transcript_exon_variant,,ENST00000466663,;ZNF639,downstream_gene_variant,,ENST00000483460,;	G	ENSG00000121864	ENST00000326361	Transcript	synonymous_variant	1054	609	203	L	ctC/ctG	.	.	.	1	ZNF639	HGNC	30950	protein_coding	YES	CCDS3227.1	ENSP00000325634	ZN639_HUMAN	J3KR68_HUMAN,J3KR59_HUMAN,C9J3R1_HUMAN,C9IZP0_HUMAN	UPI000003EA4C	.	.	.	7/7	.	hmmpanther:PTHR24404:SF3,hmmpanther:PTHR24404,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTATAA	.	5	BLCA
PARL	0	.	GRCh37	3	183585733	183585733	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241C>T	p.Pro81Ser	p.P81S	ENST00000317096	2/10	130	89	41	121	121	0	PARL,missense_variant,p.Pro81Ser,ENST00000311101,;PARL,missense_variant,p.Pro42Ser,ENST00000449306,;PARL,missense_variant,p.Pro81Ser,ENST00000435888,;PARL,missense_variant,p.Pro81Ser,ENST00000317096,;PARL,missense_variant,p.Pro81Ser,ENST00000421484,;PARL,non_coding_transcript_exon_variant,,ENST00000469056,;	A	ENSG00000175193	ENST00000317096	Transcript	missense_variant	302	241	81	P/S	Cct/Tct	COSM419689	.	.	-1	PARL	HGNC	18253	protein_coding	YES	CCDS3248.1	ENSP00000325421	PARL_HUMAN	.	UPI00000711C6	.	tolerated(0.09)	benign(0.186)	2/10	.	hmmpanther:PTHR22936	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAGGAATCA	.	5	BLCA
ABCC5	0	.	GRCh37	3	183707101	183707101	+	Missense_Mutation	SNP	G	G	A	rs368494058	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200C>T	p.Ser67Phe	p.S67F	ENST00000334444	3/30	80	68	11	84	84	0	ABCC5,missense_variant,p.Ser67Phe,ENST00000427120,;ABCC5,missense_variant,p.Ser67Phe,ENST00000334444,;ABCC5,missense_variant,p.Ser67Phe,ENST00000437341,;ABCC5,missense_variant,p.Ser67Phe,ENST00000382494,;ABCC5,missense_variant,p.Ser67Phe,ENST00000265586,;ABCC5,missense_variant,p.Ser67Phe,ENST00000392579,;ABCC5,missense_variant,p.Ser67Phe,ENST00000437205,;ABCC5,missense_variant,p.Ser67Phe,ENST00000443376,;ABCC5,3_prime_UTR_variant,,ENST00000438979,;	A	ENSG00000114770	ENST00000334444	Transcript	missense_variant	441	200	67	S/F	tCt/tTt	rs368494058	.	.	-1	ABCC5	HGNC	56	protein_coding	YES	CCDS43176.1	ENSP00000333926	MRP5_HUMAN	C9JZL5_HUMAN	UPI000004A33C	.	deleterious_low_confidence(0.01)	benign(0.017)	3/30	.	hmmpanther:PTHR24223:SF196,hmmpanther:PTHR24223	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTGAGAATGC	byCluster	4	BLCA
VPS8	0	.	GRCh37	3	184633212	184633212	+	Missense_Mutation	SNP	C	C	T	rs774642024	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2332C>T	p.Arg778Trp	p.R778W	ENST00000437079	28/48	42	35	7	57	57	0	VPS8,missense_variant,p.Arg776Trp,ENST00000436792,;VPS8,missense_variant,p.Arg778Trp,ENST00000287546,;VPS8,missense_variant,p.Arg778Trp,ENST00000437079,;VPS8,missense_variant,p.Arg686Trp,ENST00000446204,;VPS8,upstream_gene_variant,,ENST00000463687,;VPS8,missense_variant,p.Arg15Trp,ENST00000452140,;VPS8,non_coding_transcript_exon_variant,,ENST00000492449,;VPS8,downstream_gene_variant,,ENST00000458721,;	T	ENSG00000156931	ENST00000437079	Transcript	missense_variant	2503	2332	778	R/W	Cgg/Tgg	rs774642024,COSM3590841,COSM3590842	.	.	1	VPS8	HGNC	29122	protein_coding	YES	CCDS46971.1	ENSP00000397879	VPS8_HUMAN	C9JPI1_HUMAN,C9JKL0_HUMAN,C9JIA0_HUMAN	UPI0000160BDC	.	deleterious(0)	probably_damaging(0.993)	28/48	.	hmmpanther:PTHR12816,hmmpanther:PTHR12816:SF19,Pfam_domain:PF12816	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCGGACT	.	5	BLCA
MAP3K13	0	.	GRCh37	3	185198096	185198096	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2578G>C	p.Glu860Gln	p.E860Q	ENST00000265026	13/14	85	61	23	83	83	0	MAP3K13,missense_variant,p.Glu860Gln,ENST00000424227,;MAP3K13,missense_variant,p.Glu716Gln,ENST00000535426,;MAP3K13,missense_variant,p.Glu716Gln,ENST00000443863,;MAP3K13,missense_variant,p.Glu653Gln,ENST00000446828,;MAP3K13,missense_variant,p.Glu860Gln,ENST00000265026,;TMEM41A,non_coding_transcript_exon_variant,,ENST00000475480,;TMEM41A,downstream_gene_variant,,ENST00000484062,;MAP3K13,3_prime_UTR_variant,,ENST00000438053,;TMEM41A,intron_variant,,ENST00000382227,;	C	ENSG00000073803	ENST00000265026	Transcript	missense_variant	2912	2578	860	E/Q	Gag/Cag	.	.	.	1	MAP3K13	HGNC	6852	protein_coding	YES	CCDS3270.1	ENSP00000265026	M3K13_HUMAN	C9JP65_HUMAN,C9J4W2_HUMAN	UPI000006CF91	.	deleterious_low_confidence(0)	possibly_damaging(0.761)	13/14	.	PIRSF_domain:PIRSF038165,PIRSF_domain:PIRSF500742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAAGAGGGA	.	5	BLCA
ST6GAL1	0	.	GRCh37	3	186793465	186793465	+	Silent	SNP	G	G	A	rs750161610	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1095G>A	p.%3D	p.T365T	ENST00000169298	8/8	64	52	11	65	65	0	ST6GAL1,synonymous_variant,p.%3D,ENST00000457772,;ST6GAL1,synonymous_variant,p.%3D,ENST00000169298,;ST6GAL1,synonymous_variant,p.%3D,ENST00000448044,;ST6GAL1,downstream_gene_variant,,ENST00000442023,;ST6GAL1,downstream_gene_variant,,ENST00000455441,;ST6GAL1,downstream_gene_variant,,ENST00000427315,;ST6GAL1,3_prime_UTR_variant,,ENST00000448449,;ST6GAL1,non_coding_transcript_exon_variant,,ENST00000470633,;	A	ENSG00000073849	ENST00000169298	Transcript	synonymous_variant	1769	1095	365	T	acG/acA	rs750161610,COSM1566516	.	.	1	ST6GAL1	HGNC	10860	protein_coding	YES	CCDS3285.1	ENSP00000169298	SIAT1_HUMAN	C9K0R8_HUMAN,C9JVK7_HUMAN,C9JTR0_HUMAN,C9JR47_HUMAN,C9JPG6_HUMAN,C9JKG0_HUMAN,C9JI90_HUMAN,C9JH16_HUMAN,C9JFM4_HUMAN,C9JAT4_HUMAN,C9J6X5_HUMAN,C9IYS8_HUMAN,B2R513_HUMAN	UPI000000D97B	.	.	.	8/8	.	PIRSF_domain:PIRSF005557,Pfam_domain:PF00777,hmmpanther:PTHR13713,hmmpanther:PTHR13713:SF34	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCACGATGGG	byFrequency	5	BLCA
SST	0	.	GRCh37	3	187386811	187386811	+	3'UTR	SNP	G	G	C	rs368829975	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*42C>G	.	.	ENST00000287641	2/2	54	49	5	56	56	0	SST,3_prime_UTR_variant,,ENST00000287641,;	C	ENSG00000157005	ENST00000287641	Transcript	3_prime_UTR_variant	501	.	.	.	.	rs368829975	.	.	-1	SST	HGNC	11329	protein_coding	YES	CCDS3288.1	ENSP00000287641	SMS_HUMAN	.	UPI0000135AE3	.	.	.	2/2	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGGCGAGGGA	byFrequency|byCluster	2	BLCA
LRRC15	0	.	GRCh37	3	194080221	194080221	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1570C>G	p.Leu524Val	p.L524V	ENST00000439944	2/2	54	47	7	49	49	0	LRRC15,missense_variant,p.Leu518Val,ENST00000347624,;LRRC15,missense_variant,p.Leu524Val,ENST00000439944,;LRRC15,missense_variant,p.Leu524Val,ENST00000428839,;	C	ENSG00000172061	ENST00000439944	Transcript	missense_variant	1570	1570	524	L/V	Ctg/Gtg	.	.	.	-1	LRRC15	HGNC	20818	protein_coding	YES	CCDS46984.1	ENSP00000389128	LRC15_HUMAN	.	UPI000153D75D	.	tolerated(0.29)	possibly_damaging(0.856)	2/2	.	hmmpanther:PTHR24369:SF15,hmmpanther:PTHR24369	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTCAGATCAG	.	4	BLCA
LSG1	0	.	GRCh37	3	194371635	194371635	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1394G>C	p.Arg465Thr	p.R465T	ENST00000265245	10/14	62	28	33	63	63	0	LSG1,missense_variant,p.Arg199Thr,ENST00000437613,;LSG1,missense_variant,p.Arg465Thr,ENST00000265245,;AC046143.2,downstream_gene_variant,,ENST00000582474,;LSG1,non_coding_transcript_exon_variant,,ENST00000461343,;LSG1,non_coding_transcript_exon_variant,,ENST00000466391,;LSG1,upstream_gene_variant,,ENST00000460584,;LSG1,upstream_gene_variant,,ENST00000475763,;	G	ENSG00000041802	ENST00000265245	Transcript	missense_variant	1709	1394	465	R/T	aGa/aCa	COSM1042742	.	.	-1	LSG1	HGNC	25652	protein_coding	YES	CCDS33922.1	ENSP00000265245	LSG1_HUMAN	.	UPI0000DBEEC1	.	deleterious(0)	possibly_damaging(0.883)	10/14	.	hmmpanther:PTHR11089:SF7,hmmpanther:PTHR11089,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCTCATC	.	5	BLCA
NRROS	0	.	GRCh37	3	196387289	196387289	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775C>G	p.His259Asp	p.H259D	ENST00000328557	3/3	79	74	5	97	97	0	NRROS,missense_variant,p.His259Asp,ENST00000328557,;PIGX,intron_variant,,ENST00000426755,;	G	ENSG00000174004	ENST00000328557	Transcript	missense_variant	978	775	259	H/D	Cac/Gac	.	.	.	1	NRROS	HGNC	24613	protein_coding	YES	CCDS3319.1	ENSP00000328625	NRROS_HUMAN	.	UPI000000DA7E	.	tolerated(0.26)	benign(0.065)	3/3	.	Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF245,PROSITE_profiles:PS51450	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCTCACAAC	.	2	BLCA
PAK2	0	.	GRCh37	3	196509551	196509551	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34C>G	p.Pro12Ala	p.P12A	ENST00000327134	2/15	197	183	13	167	167	0	PAK2,missense_variant,p.Pro12Ala,ENST00000327134,;RNU6-42P,downstream_gene_variant,,ENST00000384165,;	G	ENSG00000180370	ENST00000327134	Transcript	missense_variant	356	34	12	P/A	Cca/Gca	.	.	.	1	PAK2	HGNC	8591	protein_coding	YES	CCDS3321.1	ENSP00000314067	PAK2_HUMAN	H9XFB4_HUMAN	UPI0000141B02	.	deleterious_low_confidence(0.02)	probably_damaging(1)	2/15	.	hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF250	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D9D|c.27T>C|3,BUFFER|p.D9D|c.27T>C|3	MUTECT|MUSE	AGCCTCCAGCA	.	2	BLCA
KAT2B	0	.	GRCh37	3	20178502	20178502	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1818C>T	p.%3D	p.L606L	ENST00000263754	12/18	40	33	7	48	48	0	KAT2B,synonymous_variant,p.%3D,ENST00000263754,;MIR3135A,upstream_gene_variant,,ENST00000578460,;KAT2B,non_coding_transcript_exon_variant,,ENST00000468111,;	T	ENSG00000114166	ENST00000263754	Transcript	synonymous_variant	2273	1818	606	L	ctC/ctT	.	.	.	1	KAT2B	HGNC	8638	protein_coding	YES	CCDS2634.1	ENSP00000263754	KAT2B_HUMAN	.	UPI00002132DE	.	.	.	12/18	.	PROSITE_profiles:PS51186,hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF116,Gene3D:3.40.630.30,Pfam_domain:PF13508,PIRSF_domain:PIRSF003048,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCACATA	.	5	BLCA
GPD1L	0	.	GRCh37	3	32180162	32180162	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309C>G	p.Ile103Met	p.I103M	ENST00000282541	3/8	61	47	13	81	81	0	GPD1L,missense_variant,p.Ile64Met,ENST00000431009,;GPD1L,missense_variant,p.Ile103Met,ENST00000282541,;GPD1L,missense_variant,p.Ile64Met,ENST00000429432,;GPD1L,intron_variant,,ENST00000425459,;GPD1L,missense_variant,p.Ser44Cys,ENST00000428684,;	G	ENSG00000152642	ENST00000282541	Transcript	missense_variant	510	309	103	I/M	atC/atG	.	.	.	1	GPD1L	HGNC	28956	protein_coding	YES	CCDS33729.1	ENSP00000282541	GPD1L_HUMAN	C9K0P5_HUMAN,C9JFA7_HUMAN,B3KWN2_HUMAN	UPI000006E26D	.	deleterious(0.03)	possibly_damaging(0.506)	3/8	.	hmmpanther:PTHR11728,hmmpanther:PTHR11728:SF7,Gene3D:3.40.50.720,Pfam_domain:PF01210,TIGRFAM_domain:TIGR03376,PIRSF_domain:PIRSF000114,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCTGTGA	.	5	BLCA
CLASP2	0	.	GRCh37	3	33612275	33612275	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2734G>A	p.Glu912Lys	p.E912K	ENST00000468888	27/39	10	6	4	10	10	0	CLASP2,missense_variant,p.Glu392Lys,ENST00000307312,;CLASP2,missense_variant,p.Glu903Lys,ENST00000359576,;CLASP2,missense_variant,p.Glu670Lys,ENST00000461133,;CLASP2,missense_variant,p.Glu912Lys,ENST00000468888,;CLASP2,missense_variant,p.Glu911Lys,ENST00000399362,;CLASP2,missense_variant,p.Glu681Lys,ENST00000539981,;CLASP2,missense_variant,p.Glu691Lys,ENST00000480013,;CLASP2,downstream_gene_variant,,ENST00000475576,;CLASP2,non_coding_transcript_exon_variant,,ENST00000491045,;	T	ENSG00000163539	ENST00000468888	Transcript	missense_variant	2781	2734	912	E/K	Gaa/Aaa	.	.	.	-1	CLASP2	HGNC	17078	protein_coding	YES	.	ENSP00000419974	.	Q6N029_HUMAN,Q07A20_HUMAN,E7EW49_HUMAN,B2RTR1_HUMAN	UPI0001B7944B	.	deleterious(0.03)	probably_damaging(0.998)	27/39	.	hmmpanther:PTHR21567:SF30,hmmpanther:PTHR21567,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTTCAACTC	.	2	BLCA
DLEC1	0	.	GRCh37	3	38137415	38137415	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2149G>C	p.Glu717Gln	p.E717Q	ENST00000308059	14/37	53	39	13	105	105	0	DLEC1,missense_variant,p.Glu717Gln,ENST00000308059,;DLEC1,missense_variant,p.Glu717Gln,ENST00000346219,;DLEC1,missense_variant,p.Glu717Gln,ENST00000452631,;DLEC1,3_prime_UTR_variant,,ENST00000447130,;DLEC1,non_coding_transcript_exon_variant,,ENST00000440294,;	C	ENSG00000008226	ENST00000308059	Transcript	missense_variant	2170	2149	717	E/Q	Gag/Cag	.	.	.	1	DLEC1	HGNC	2899	protein_coding	YES	CCDS2672.2	ENSP00000308597	DLEC1_HUMAN	.	UPI00006EB134	.	tolerated(0.08)	benign(0.236)	14/37	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTAGAGGAA	.	5	BLCA
CX3CR1	0	.	GRCh37	3	39306963	39306963	+	Silent	SNP	C	C	T	rs778240643	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1134G>A	p.%3D	p.T378T	ENST00000358309	2/2	122	86	35	206	205	0	CX3CR1,synonymous_variant,p.%3D,ENST00000542107,;CX3CR1,synonymous_variant,p.%3D,ENST00000399220,;CX3CR1,synonymous_variant,p.%3D,ENST00000358309,;CX3CR1,synonymous_variant,p.%3D,ENST00000541347,;CX3CR1,downstream_gene_variant,,ENST00000435290,;CX3CR1,downstream_gene_variant,,ENST00000412814,;	T	ENSG00000168329	ENST00000358309	Transcript	synonymous_variant	1174	1134	378	T	acG/acA	rs778240643,COSM1617570,COSM1617569	.	.	-1	CX3CR1	HGNC	2558	protein_coding	YES	CCDS54571.1	ENSP00000351059	CX3C1_HUMAN	C9JN40_HUMAN,C9JLM2_HUMAN	UPI00004570E5	.	.	.	2/2	.	Prints_domain:PR01562,hmmpanther:PTHR24227:SF9,hmmpanther:PTHR24227	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCGTGTG	byFrequency	5	BLCA
SNRK	0	.	GRCh37	3	43381800	43381800	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753G>A	p.%3D	p.Q251Q	ENST00000296088	5/7	152	124	28	199	199	0	SNRK,synonymous_variant,p.%3D,ENST00000296088,;SNRK,synonymous_variant,p.%3D,ENST00000454177,;SNRK,synonymous_variant,p.%3D,ENST00000437827,;SNRK,synonymous_variant,p.%3D,ENST00000429705,;SNRK,upstream_gene_variant,,ENST00000468628,;SNRK,non_coding_transcript_exon_variant,,ENST00000484791,;SNRK,upstream_gene_variant,,ENST00000481892,;	A	ENSG00000163788	ENST00000296088	Transcript	synonymous_variant	1057	753	251	Q	caG/caA	.	.	.	1	SNRK	HGNC	30598	protein_coding	YES	CCDS43075.1	ENSP00000296088	SNRK_HUMAN	E7EUC4_HUMAN	UPI00000558E4	.	.	.	5/7	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343:SF135,hmmpanther:PTHR24343,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTACAGAGAGA	.	5	BLCA
SNRK	0	.	GRCh37	3	43381978	43381978	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931G>A	p.Asp311Asn	p.D311N	ENST00000296088	5/7	35	31	4	46	46	0	SNRK,missense_variant,p.Asp311Asn,ENST00000296088,;SNRK,missense_variant,p.Asp311Asn,ENST00000454177,;SNRK,missense_variant,p.Asp105Asn,ENST00000437827,;SNRK,missense_variant,p.Asp311Asn,ENST00000429705,;SNRK,upstream_gene_variant,,ENST00000468628,;SNRK,non_coding_transcript_exon_variant,,ENST00000484791,;SNRK,upstream_gene_variant,,ENST00000481892,;	A	ENSG00000163788	ENST00000296088	Transcript	missense_variant	1235	931	311	D/N	Gac/Aac	.	.	.	1	SNRK	HGNC	30598	protein_coding	YES	CCDS43075.1	ENSP00000296088	SNRK_HUMAN	E7EUC4_HUMAN	UPI00000558E4	.	deleterious(0.02)	possibly_damaging(0.597)	5/7	.	PROSITE_profiles:PS50030,hmmpanther:PTHR24343:SF135,hmmpanther:PTHR24343,Gene3D:1.10.8.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R310*|c.928C>T|4,BUFFER|p.R310*|c.928C>T|4	RADIA|MUTECT|MUSE	ATCGAGACGCC	.	3	BLCA
SNRK	0	.	GRCh37	3	43381990	43381990	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.943G>C	p.Glu315Gln	p.E315Q	ENST00000296088	5/7	32	26	6	40	40	0	SNRK,missense_variant,p.Glu315Gln,ENST00000296088,;SNRK,missense_variant,p.Glu315Gln,ENST00000454177,;SNRK,missense_variant,p.Glu109Gln,ENST00000437827,;SNRK,missense_variant,p.Glu315Gln,ENST00000429705,;SNRK,upstream_gene_variant,,ENST00000468628,;SNRK,non_coding_transcript_exon_variant,,ENST00000484791,;SNRK,upstream_gene_variant,,ENST00000481892,;	C	ENSG00000163788	ENST00000296088	Transcript	missense_variant	1247	943	315	E/Q	Gaa/Caa	.	.	.	1	SNRK	HGNC	30598	protein_coding	YES	CCDS43075.1	ENSP00000296088	SNRK_HUMAN	E7EUC4_HUMAN	UPI00000558E4	.	tolerated(0.12)	benign(0.028)	5/7	.	PROSITE_profiles:PS50030,hmmpanther:PTHR24343:SF135,hmmpanther:PTHR24343,Gene3D:1.10.8.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGTAGAGTAC	.	3	BLCA
TMEM42	0	.	GRCh37	3	44905724	44905724	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228G>A	p.%3D	p.V76V	ENST00000302392	2/3	71	55	15	117	117	0	TMEM42,synonymous_variant,p.%3D,ENST00000302392,;MIR564,downstream_gene_variant,,ENST00000385049,;TMEM42,non_coding_transcript_exon_variant,,ENST00000477126,;KIF15,intron_variant,,ENST00000422209,;	A	ENSG00000169964	ENST00000302392	Transcript	synonymous_variant	284	228	76	V	gtG/gtA	.	.	.	1	TMEM42	HGNC	28444	protein_coding	YES	CCDS2722.1	ENSP00000306564	TMM42_HUMAN	.	UPI00000702DF	.	.	.	2/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR31965:SF1,hmmpanther:PTHR31965,Superfamily_domains:0043518	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTGTGATGGC	.	5	BLCA
LZTFL1	0	.	GRCh37	3	45879475	45879475	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>C	p.Lys24Asn	p.K24N	ENST00000296135	2/10	39	33	6	59	59	0	LZTFL1,missense_variant,p.Lys7Asn,ENST00000536047,;LZTFL1,missense_variant,p.Lys7Asn,ENST00000445698,;LZTFL1,missense_variant,p.Lys24Asn,ENST00000296135,;LZTFL1,intron_variant,,ENST00000539217,;LZTFL1,upstream_gene_variant,,ENST00000440576,;LZTFL1,non_coding_transcript_exon_variant,,ENST00000472635,;LZTFL1,non_coding_transcript_exon_variant,,ENST00000492333,;LZTFL1,non_coding_transcript_exon_variant,,ENST00000490463,;LZTFL1,intron_variant,,ENST00000469874,;LZTFL1,3_prime_UTR_variant,,ENST00000418700,;LZTFL1,non_coding_transcript_exon_variant,,ENST00000480156,;LZTFL1,non_coding_transcript_exon_variant,,ENST00000495864,;LZTFL1,intron_variant,,ENST00000411866,;LZTFL1,intron_variant,,ENST00000448111,;	G	ENSG00000163818	ENST00000296135	Transcript	missense_variant	247	72	24	K/N	aaG/aaC	.	.	.	-1	LZTFL1	HGNC	6741	protein_coding	YES	CCDS2731.1	ENSP00000296135	LZTL1_HUMAN	C9J0R9_HUMAN	UPI0000073CE2	.	tolerated(0.12)	benign(0.108)	2/10	.	hmmpanther:PTHR21635:SF0,hmmpanther:PTHR21635,Pfam_domain:PF15294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTCTCTTTGA	.	5	BLCA
SETD2	0	.	GRCh37	3	47058588	47058588	+	Missense_Mutation	SNP	C	C	T	rs780004717	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7690G>A	p.Glu2564Lys	p.E2564K	ENST00000409792	21/21	69	51	18	75	75	0	SETD2,missense_variant,p.Glu2564Lys,ENST00000409792,;SETD2,3_prime_UTR_variant,,ENST00000445387,;SETD2,3_prime_UTR_variant,,ENST00000330022,;SETD2,3_prime_UTR_variant,,ENST00000431180,;NRADDP,downstream_gene_variant,,ENST00000437305,;	T	ENSG00000181555	ENST00000409792	Transcript	missense_variant	7733	7690	2564	E/K	Gag/Aag	rs780004717	.	.	-1	SETD2	HGNC	18420	protein_coding	YES	CCDS2749.2	ENSP00000386759	SETD2_HUMAN	C9JG86_HUMAN	UPI00017E10FB	.	deleterious_low_confidence(0)	probably_damaging(0.993)	21/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCTAATT	.	5	BLCA
COL7A1	0	.	GRCh37	3	48608565	48608565	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7133C>T	p.Ser2378Phe	p.S2378F	ENST00000328333	93/118	34	24	9	55	55	0	COL7A1,missense_variant,p.Ser2378Phe,ENST00000328333,;COL7A1,missense_variant,p.Ser43Phe,ENST00000422991,;COL7A1,missense_variant,p.Ser2346Phe,ENST00000454817,;COL7A1,non_coding_transcript_exon_variant,,ENST00000487017,;COL7A1,non_coding_transcript_exon_variant,,ENST00000462475,;COL7A1,upstream_gene_variant,,ENST00000467985,;COL7A1,upstream_gene_variant,,ENST00000474432,;COL7A1,upstream_gene_variant,,ENST00000459756,;	A	ENSG00000114270	ENST00000328333	Transcript	missense_variant	7241	7133	2378	S/F	tCc/tTc	.	.	.	-1	COL7A1	HGNC	2214	protein_coding	YES	CCDS2773.1	ENSP00000332371	CO7A1_HUMAN	.	UPI0000126D20	.	.	probably_damaging(0.949)	93/118	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGGGGAGCCC	.	5	BLCA
COL7A1	0	.	GRCh37	3	48616933	48616933	+	Missense_Mutation	SNP	G	G	A	rs201117625	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5251C>T	p.Arg1751Trp	p.R1751W	ENST00000328333	59/118	23	20	3	39	39	0	COL7A1,missense_variant,p.Arg1751Trp,ENST00000328333,;COL7A1,missense_variant,p.Arg1751Trp,ENST00000454817,;MIR711,upstream_gene_variant,,ENST00000390201,;COL7A1,non_coding_transcript_exon_variant,,ENST00000487017,;	A	ENSG00000114270	ENST00000328333	Transcript	missense_variant	5359	5251	1751	R/W	Cgg/Tgg	rs201117625	.	.	-1	COL7A1	HGNC	2214	protein_coding	YES	CCDS2773.1	ENSP00000332371	CO7A1_HUMAN	.	UPI0000126D20	.	.	unknown(0)	59/118	.	hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCCCGAAACC	.	2	BLCA
CCDC36	0	.	GRCh37	3	49282112	49282112	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478C>G	p.Leu160Val	p.L160V	ENST00000438782	6/8	79	57	22	84	84	0	CCDC36,missense_variant,p.Leu160Val,ENST00000438782,;CCDC36,missense_variant,p.Leu160Val,ENST00000296449,;CCDC36,missense_variant,p.Ile143Met,ENST00000366429,;CCDC36,missense_variant,p.Leu160Val,ENST00000452691,;CCDC36,missense_variant,p.Ile133Met,ENST00000451634,;	G	ENSG00000173421	ENST00000438782	Transcript	missense_variant	714	478	160	L/V	Ctc/Gtc	.	.	.	1	CCDC36	HGNC	27945	protein_coding	YES	CCDS33755.2	ENSP00000391788	CCD36_HUMAN	.	UPI0000209CD2	.	deleterious(0.03)	probably_damaging(0.993)	6/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATCTCAGT	.	5	BLCA
AMIGO3	0	.	GRCh37	3	49756422	49756422	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.477C>G	p.%3D	p.L159L	ENST00000535833	10/10	74	58	16	118	118	0	AMIGO3,synonymous_variant,p.%3D,ENST00000320431,;AMIGO3,synonymous_variant,p.%3D,ENST00000535833,;GMPPB,3_prime_UTR_variant,,ENST00000480687,;RNF123,intron_variant,,ENST00000327697,;RNF123,intron_variant,,ENST00000433785,;GMPPB,downstream_gene_variant,,ENST00000308375,;GMPPB,downstream_gene_variant,,ENST00000308388,;RNF123,intron_variant,,ENST00000497099,;RNF123,intron_variant,,ENST00000487805,;RNF123,intron_variant,,ENST00000457726,;RNF123,intron_variant,,ENST00000486102,;GMPPB,downstream_gene_variant,,ENST00000481959,;RNF123,downstream_gene_variant,,ENST00000444689,;GMPPB,downstream_gene_variant,,ENST00000495627,;RNF123,downstream_gene_variant,,ENST00000469978,;RNF123,upstream_gene_variant,,ENST00000498376,;	C	ENSG00000176020	ENST00000535833	Transcript	synonymous_variant	3928	477	159	L	ctC/ctG	.	.	.	-1	AMIGO3	HGNC	24075	protein_coding	YES	CCDS33759.1	ENSP00000439268	AMGO3_HUMAN	.	UPI00000622D6	.	.	.	10/10	.	Superfamily_domains:SSF52058,SMART_domains:SM00369,Gene3D:3.80.10.10,hmmpanther:PTHR24368,hmmpanther:PTHR24368:SF62,PROSITE_profiles:PS51450	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGAGCGC	.	5	BLCA
CAMKV	0	.	GRCh37	3	49898242	49898242	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.682G>C	p.Asp228His	p.D228H	ENST00000477224	8/11	102	80	21	165	164	1	CAMKV,missense_variant,p.Asp185His,ENST00000466940,;CAMKV,missense_variant,p.Asp228His,ENST00000463537,;CAMKV,missense_variant,p.Asp153His,ENST00000467248,;CAMKV,missense_variant,p.Asp228His,ENST00000488336,;CAMKV,missense_variant,p.Asp228His,ENST00000477224,;CAMKV,missense_variant,p.Asp200His,ENST00000296471,;CAMKV,downstream_gene_variant,,ENST00000480398,;TRAIP,upstream_gene_variant,,ENST00000482582,;TRAIP,upstream_gene_variant,,ENST00000469027,;TRAIP,upstream_gene_variant,,ENST00000331456,;TRAIP,upstream_gene_variant,,ENST00000482243,;RN7SL217P,downstream_gene_variant,,ENST00000584520,;CAMKV,downstream_gene_variant,,ENST00000498324,;TRAIP,upstream_gene_variant,,ENST00000473863,;CAMKV,3_prime_UTR_variant,,ENST00000466535,;CAMKV,3_prime_UTR_variant,,ENST00000487726,;CAMKV,non_coding_transcript_exon_variant,,ENST00000475665,;CAMKV,non_coding_transcript_exon_variant,,ENST00000483811,;CAMKV,non_coding_transcript_exon_variant,,ENST00000478149,;TRAIP,upstream_gene_variant,,ENST00000473195,;CAMKV,downstream_gene_variant,,ENST00000472895,;CAMKV,downstream_gene_variant,,ENST00000476105,;TRAIP,upstream_gene_variant,,ENST00000477546,;TRAIP,upstream_gene_variant,,ENST00000489948,;CAMKV,downstream_gene_variant,,ENST00000479704,;	G	ENSG00000164076	ENST00000477224	Transcript	missense_variant	1161	682	228	D/H	Gat/Cat	.	.	.	-1	CAMKV	HGNC	28788	protein_coding	YES	CCDS33762.1	ENSP00000419195	CAMKV_HUMAN	B4DM24_HUMAN	UPI000004184F	.	deleterious_low_confidence(0)	probably_damaging(0.962)	8/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24347,hmmpanther:PTHR24347:SF18,Gene3D:1.10.510.10,Pfam_domain:PF00069,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATAATCATCTT	.	3	BLCA
BHLHE40	0	.	GRCh37	3	5024862	5024862	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724G>C	p.Asp242His	p.D242H	ENST00000256495	5/5	53	47	6	73	73	0	BHLHE40,missense_variant,p.Asp242His,ENST00000256495,;BHLHE40-AS1,upstream_gene_variant,,ENST00000441386,;BHLHE40-AS1,upstream_gene_variant,,ENST00000434530,;BHLHE40-AS1,upstream_gene_variant,,ENST00000420832,;BHLHE40,non_coding_transcript_exon_variant,,ENST00000467610,;BHLHE40,downstream_gene_variant,,ENST00000460806,;	C	ENSG00000134107	ENST00000256495	Transcript	missense_variant	1327	724	242	D/H	Gac/Cac	.	.	.	1	BHLHE40	HGNC	1046	protein_coding	YES	CCDS2565.1	ENSP00000256495	BHE40_HUMAN	Q6IB83_HUMAN	UPI0000126923	.	deleterious(0.02)	probably_damaging(1)	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10985,hmmpanther:PTHR10985:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	ACACAGACAGT	.	2	BLCA
TMEM115	0	.	GRCh37	3	50396206	50396206	+	Nonsense_Mutation	SNP	C	C	A	rs587663416,rs769869967	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289G>T	p.Glu97Ter	p.E97*	ENST00000266025	1/2	66	48	17	66	66	0	TMEM115,stop_gained,p.Glu97Ter,ENST00000266025,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;CYB561D2,downstream_gene_variant,,ENST00000424512,;CACNA2D2,downstream_gene_variant,,ENST00000360963,;CYB561D2,downstream_gene_variant,,ENST00000418577,;CYB561D2,downstream_gene_variant,,ENST00000232508,;CACNA2D2,downstream_gene_variant,,ENST00000435965,;CACNA2D2,downstream_gene_variant,,ENST00000266039,;CACNA2D2,downstream_gene_variant,,ENST00000429770,;CACNA2D2,downstream_gene_variant,,ENST00000424201,;CYB561D2,downstream_gene_variant,,ENST00000425346,;CACNA2D2,downstream_gene_variant,,ENST00000423994,;CACNA2D2,downstream_gene_variant,,ENST00000395083,;CYB561D2,downstream_gene_variant,,ENST00000490926,;CACNA2D2,downstream_gene_variant,,ENST00000483620,;	A	ENSG00000126062	ENST00000266025	Transcript	stop_gained	836	289	97	E/*	Gag/Tag	rs587663416,rs769869967	.	.	-1	TMEM115	HGNC	30055	protein_coding	YES	CCDS2828.1	ENSP00000266025	TM115_HUMAN	.	UPI0000131B9A	.	.	.	1/2	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF144091,Pfam_domain:PF08551,hmmpanther:PTHR13377	T:0.0002	T:0,T:0	T:0.0014,T:0.0014	.	T:0,T:0	T:0,T:0	T:0,T:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCAAGG	by1000G	5	BLCA
RAD54L2	0	.	GRCh37	3	51679710	51679710	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2760G>A	p.%3D	p.L920L	ENST00000409535	17/22	17	11	5	25	25	0	RAD54L2,synonymous_variant,p.%3D,ENST00000296477,;RAD54L2,synonymous_variant,p.%3D,ENST00000432863,;RAD54L2,synonymous_variant,p.%3D,ENST00000409535,;RAD54L2,non_coding_transcript_exon_variant,,ENST00000487093,;RAD54L2,non_coding_transcript_exon_variant,,ENST00000461680,;	A	ENSG00000164080	ENST00000409535	Transcript	synonymous_variant	2885	2760	920	L	ttG/ttA	.	.	.	1	RAD54L2	HGNC	29123	protein_coding	YES	CCDS33765.2	ENSP00000386520	ARIP4_HUMAN	E7EU19_HUMAN	UPI000022C0AA	.	.	.	17/22	.	hmmpanther:PTHR10799:SF51,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTGAACGT	.	5	BLCA
PRKCD	0	.	GRCh37	3	53212465	53212465	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27C>T	p.%3D	p.F9F	ENST00000394729	2/18	41	25	16	42	42	0	PRKCD,synonymous_variant,p.%3D,ENST00000464818,;PRKCD,synonymous_variant,p.%3D,ENST00000487897,;PRKCD,synonymous_variant,p.%3D,ENST00000330452,;PRKCD,synonymous_variant,p.%3D,ENST00000394729,;PRKCD,synonymous_variant,p.%3D,ENST00000478843,;PRKCD,non_coding_transcript_exon_variant,,ENST00000477794,;	T	ENSG00000163932	ENST00000394729	Transcript	synonymous_variant	355	27	9	F	ttC/ttT	.	.	.	1	PRKCD	HGNC	9399	protein_coding	YES	CCDS2870.1	ENSP00000378217	KPCD_HUMAN	C9JZU8_HUMAN,C9J9P1_HUMAN,B4DFV1_HUMAN	UPI000000DA36	.	.	.	2/18	.	hmmpanther:PTHR24352,hmmpanther:PTHR24352:SF32,Gene3D:2.60.40.150,PIRSF_domain:PIRSF000551,PIRSF_domain:PIRSF501104,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTCAACTC	.	5	BLCA
ERC2	0	.	GRCh37	3	56026147	56026147	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2193G>A	p.%3D	p.E731E	ENST00000288221	11/18	123	98	24	171	171	0	ERC2,synonymous_variant,p.%3D,ENST00000492584,;ERC2,synonymous_variant,p.%3D,ENST00000288221,;ERC2,synonymous_variant,p.%3D,ENST00000460849,;	T	ENSG00000187672	ENST00000288221	Transcript	synonymous_variant	2449	2193	731	E	gaG/gaA	.	.	.	-1	ERC2	HGNC	31922	protein_coding	YES	CCDS46851.1	ENSP00000288221	ERC2_HUMAN	.	UPI00001C1572	.	.	.	11/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18861,hmmpanther:PTHR18861:SF3,Pfam_domain:PF10174	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATCTCCAG	.	5	BLCA
FLNB	0	.	GRCh37	3	58141727	58141727	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6906C>T	p.%3D	p.I2302I	ENST00000490882	42/47	60	49	11	67	67	0	FLNB,synonymous_variant,p.%3D,ENST00000429972,;FLNB,synonymous_variant,p.%3D,ENST00000295956,;FLNB,synonymous_variant,p.%3D,ENST00000358537,;FLNB,synonymous_variant,p.%3D,ENST00000490882,;FLNB,synonymous_variant,p.%3D,ENST00000348383,;FLNB,synonymous_variant,p.%3D,ENST00000493452,;FLNB,synonymous_variant,p.%3D,ENST00000419752,;FLNB,3_prime_UTR_variant,,ENST00000357272,;FLNB,downstream_gene_variant,,ENST00000466455,;FLNB,non_coding_transcript_exon_variant,,ENST00000468939,;FLNB,non_coding_transcript_exon_variant,,ENST00000481470,;FLNB,upstream_gene_variant,,ENST00000475487,;FLNB,downstream_gene_variant,,ENST00000470231,;FLNB,downstream_gene_variant,,ENST00000477629,;	T	ENSG00000136068	ENST00000490882	Transcript	synonymous_variant	7071	6906	2302	I	atC/atT	.	.	.	1	FLNB	HGNC	3755	protein_coding	YES	CCDS54599.1	ENSP00000420213	FLNB_HUMAN	.	UPI0001765F91	.	.	.	42/47	.	PROSITE_profiles:PS50194,hmmpanther:PTHR11915:SF238,hmmpanther:PTHR11915,Gene3D:2.60.40.10,Pfam_domain:PF00630,SMART_domains:SM00557,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACATCCCGGA	.	5	BLCA
ATXN7	0	.	GRCh37	3	63976462	63976462	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1609G>C	p.Asp537His	p.D537H	ENST00000398590	11/14	58	45	13	95	95	0	ATXN7,missense_variant,p.Asp537His,ENST00000398590,;ATXN7,missense_variant,p.Asp537His,ENST00000295900,;ATXN7,missense_variant,p.Asp392His,ENST00000484332,;ATXN7,missense_variant,p.Asp537His,ENST00000487717,;ATXN7,missense_variant,p.Asp537His,ENST00000538065,;ATXN7,non_coding_transcript_exon_variant,,ENST00000484668,;ATXN7,non_coding_transcript_exon_variant,,ENST00000477516,;ATXN7,non_coding_transcript_exon_variant,,ENST00000474112,;ATXN7,downstream_gene_variant,,ENST00000466529,;ATXN7,downstream_gene_variant,,ENST00000472569,;	C	ENSG00000163635	ENST00000398590	Transcript	missense_variant	2162	1609	537	D/H	Gac/Cac	COSM3824533,COSM3824532	.	.	1	ATXN7	HGNC	10560	protein_coding	YES	CCDS54603.1	ENSP00000381590	ATX7_HUMAN	Q9UPD8_HUMAN,Q8TEZ8_HUMAN,H0YAT6_HUMAN	UPI00001B07C4	.	deleterious(0)	probably_damaging(1)	11/14	.	hmmpanther:PTHR15117:SF2,hmmpanther:PTHR15117	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTGACTCC	.	5	BLCA
PSMD6	0	.	GRCh37	3	64004503	64004503	+	Silent	SNP	G	G	C	rs749757883	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708C>G	p.%3D	p.L236L	ENST00000295901	4/8	34	25	8	52	52	0	PSMD6,synonymous_variant,p.%3D,ENST00000394431,;PSMD6,synonymous_variant,p.%3D,ENST00000480205,;PSMD6,synonymous_variant,p.%3D,ENST00000492933,;PSMD6,synonymous_variant,p.%3D,ENST00000482510,;PSMD6,synonymous_variant,p.%3D,ENST00000295901,;PSMD6,downstream_gene_variant,,ENST00000497323,;PSMD6,downstream_gene_variant,,ENST00000478185,;RP11-245J9.6,upstream_gene_variant,,ENST00000605919,;RP11-245J9.4,downstream_gene_variant,,ENST00000462717,;PSMD6,non_coding_transcript_exon_variant,,ENST00000476464,;PSMD6,non_coding_transcript_exon_variant,,ENST00000497315,;PSMD6,non_coding_transcript_exon_variant,,ENST00000475036,;PSMD6,upstream_gene_variant,,ENST00000467853,;	C	ENSG00000163636	ENST00000295901	Transcript	synonymous_variant	849	708	236	L	ctC/ctG	rs749757883	.	.	-1	PSMD6	HGNC	9564	protein_coding	YES	CCDS2901.1	ENSP00000295901	PSMD6_HUMAN	.	UPI0000132787	.	.	.	4/8	.	hmmpanther:PTHR14145:SF1,hmmpanther:PTHR14145,Pfam_domain:PF10602	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTGAGATC	.	5	BLCA
GRM7	0	.	GRCh37	3	7494394	7494394	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1275G>A	p.Met425Ile	p.M425I	ENST00000357716	6/10	30	25	5	36	36	0	GRM7,missense_variant,p.Met425Ile,ENST00000402647,;GRM7,missense_variant,p.Met425Ile,ENST00000486284,;GRM7,missense_variant,p.Met82Ile,ENST00000445087,;GRM7,missense_variant,p.Met425Ile,ENST00000389336,;GRM7,missense_variant,p.Met425Ile,ENST00000357716,;GRM7,missense_variant,p.Met425Ile,ENST00000403881,;GRM7,non_coding_transcript_exon_variant,,ENST00000458641,;GRM7,missense_variant,p.Met425Ile,ENST00000389335,;GRM7,missense_variant,p.Met425Ile,ENST00000467425,;GRM7,missense_variant,p.Met425Ile,ENST00000440923,;GRM7,non_coding_transcript_exon_variant,,ENST00000463676,;	A	ENSG00000196277	ENST00000357716	Transcript	missense_variant	1549	1275	425	M/I	atG/atA	COSM170814	.	.	1	GRM7	HGNC	4599	protein_coding	YES	CCDS43042.1	ENSP00000350348	GRM7_HUMAN	C9JU97_HUMAN	UPI000004A7E3	.	deleterious(0.01)	benign(0.366)	6/10	.	hmmpanther:PTHR24060:SF104,hmmpanther:PTHR24060,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACATGAACAA	.	5	BLCA
GBE1	0	.	GRCh37	3	81810576	81810576	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93C>G	p.%3D	p.L31L	ENST00000429644	1/16	44	38	6	67	67	0	GBE1,synonymous_variant,p.%3D,ENST00000429644,;RP11-142L1.1,downstream_gene_variant,,ENST00000497946,;	C	ENSG00000114480	ENST00000429644	Transcript	synonymous_variant	737	93	31	L	ctC/ctG	.	.	.	-1	GBE1	HGNC	4180	protein_coding	YES	CCDS54612.1	ENSP00000410833	GLGB_HUMAN	.	UPI0000209A24	.	.	.	1/16	.	hmmpanther:PTHR10357,hmmpanther:PTHR10357:SF110,PIRSF_domain:PIRSF000463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCAGGAGTCT	.	4	BLCA
VGLL3	0	.	GRCh37	3	86996163	86996163	+	3'UTR	SNP	G	G	C	rs146179430	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11C>G	.	.	ENST00000398399	4/4	39	29	10	70	70	0	VGLL3,3_prime_UTR_variant,,ENST00000398399,;	C	ENSG00000206538	ENST00000398399	Transcript	3_prime_UTR_variant	1356	.	.	.	.	rs146179430	.	.	-1	VGLL3	HGNC	24327	protein_coding	YES	CCDS43110.1	ENSP00000381436	VGLL3_HUMAN	.	UPI0000197E88	.	.	.	4/4	.	.	T:0.0018	T:0.0061	T:0.0014	.	T:0	T:0	T:0	T:0.0048	T:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTAAGATTGT	byFrequency|byCluster|by1000G	5	BLCA
THUMPD3	0	.	GRCh37	3	9426307	9426307	+	Missense_Mutation	SNP	C	C	G	rs750491478	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1459C>G	p.Gln487Glu	p.Q487E	ENST00000345094	10/10	116	89	27	166	166	0	THUMPD3,missense_variant,p.Gln487Glu,ENST00000345094,;THUMPD3,missense_variant,p.Gln258Glu,ENST00000416603,;THUMPD3,missense_variant,p.Gln487Glu,ENST00000515662,;THUMPD3,missense_variant,p.Gln487Glu,ENST00000452837,;THUMPD3,downstream_gene_variant,,ENST00000441127,;SETD5-AS1,intron_variant,,ENST00000468186,;SETD5-AS1,downstream_gene_variant,,ENST00000520396,;SETD5-AS1,downstream_gene_variant,,ENST00000520447,;SETD5-AS1,downstream_gene_variant,,ENST00000521267,;SETD5-AS1,downstream_gene_variant,,ENST00000520629,;SETD5-AS1,downstream_gene_variant,,ENST00000523354,;SETD5-AS1,downstream_gene_variant,,ENST00000467069,;SETD5-AS1,downstream_gene_variant,,ENST00000521609,;SETD5-AS1,downstream_gene_variant,,ENST00000522525,;SETD5-AS1,downstream_gene_variant,,ENST00000519043,;THUMPD3,non_coding_transcript_exon_variant,,ENST00000464045,;THUMPD3,downstream_gene_variant,,ENST00000484006,;THUMPD3,downstream_gene_variant,,ENST00000461636,;	G	ENSG00000134077	ENST00000345094	Transcript	missense_variant	1793	1459	487	Q/E	Caa/Gaa	rs750491478	.	.	1	THUMPD3	HGNC	24493	protein_coding	YES	CCDS2573.1	ENSP00000339532	THUM3_HUMAN	C9JP31_HUMAN,C9J9V2_HUMAN	UPI000006E64E	.	tolerated(0.73)	benign(0.002)	10/10	.	hmmpanther:PTHR14911:SF12,hmmpanther:PTHR14911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCAAGCT	byFrequency	5	BLCA
SETD5	0	.	GRCh37	3	9515119	9515119	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3395C>T	p.Pro1132Leu	p.P1132L	ENST00000402198	20/23	22	19	3	27	27	0	SETD5,missense_variant,p.Pro1034Leu,ENST00000402466,;SETD5,missense_variant,p.Pro1151Leu,ENST00000407969,;SETD5,missense_variant,p.Pro1132Leu,ENST00000402198,;SETD5,missense_variant,p.Pro800Leu,ENST00000399686,;SETD5,missense_variant,p.Pro1132Leu,ENST00000406341,;SETD5,missense_variant,p.Pro1034Leu,ENST00000302463,;SETD5,downstream_gene_variant,,ENST00000421188,;SETD5,non_coding_transcript_exon_variant,,ENST00000479538,;SETD5,3_prime_UTR_variant,,ENST00000413704,;SETD5,non_coding_transcript_exon_variant,,ENST00000486465,;SETD5,non_coding_transcript_exon_variant,,ENST00000459941,;SETD5,non_coding_transcript_exon_variant,,ENST00000492939,;SETD5,non_coding_transcript_exon_variant,,ENST00000466242,;SETD5,non_coding_transcript_exon_variant,,ENST00000493918,;SETD5,upstream_gene_variant,,ENST00000466826,;	T	ENSG00000168137	ENST00000402198	Transcript	missense_variant	3830	3395	1132	P/L	cCa/cTa	.	.	.	1	SETD5	HGNC	25566	protein_coding	YES	CCDS46741.1	ENSP00000385852	SETD5_HUMAN	C9JLM1_HUMAN,C9JLA7_HUMAN,A8K0G4_HUMAN	UPI0000411FEE	.	deleterious(0)	probably_damaging(0.998)	20/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16286:SF11,hmmpanther:PTHR16286	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCCCATCTC	.	2	BLCA
SETD5	0	.	GRCh37	3	9516140	9516140	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3505C>T	p.Pro1169Ser	p.P1169S	ENST00000402198	21/23	57	44	13	85	85	0	SETD5,missense_variant,p.Pro1071Ser,ENST00000402466,;SETD5,missense_variant,p.Pro1188Ser,ENST00000407969,;SETD5,missense_variant,p.Pro1169Ser,ENST00000402198,;SETD5,missense_variant,p.Pro837Ser,ENST00000399686,;SETD5,missense_variant,p.Pro1169Ser,ENST00000406341,;SETD5,missense_variant,p.Pro1071Ser,ENST00000302463,;SETD5,downstream_gene_variant,,ENST00000421188,;SETD5,non_coding_transcript_exon_variant,,ENST00000479538,;SETD5,3_prime_UTR_variant,,ENST00000413704,;SETD5,non_coding_transcript_exon_variant,,ENST00000486465,;SETD5,non_coding_transcript_exon_variant,,ENST00000459941,;SETD5,non_coding_transcript_exon_variant,,ENST00000492939,;SETD5,non_coding_transcript_exon_variant,,ENST00000466242,;SETD5,non_coding_transcript_exon_variant,,ENST00000493918,;SETD5,upstream_gene_variant,,ENST00000466826,;	T	ENSG00000168137	ENST00000402198	Transcript	missense_variant	3940	3505	1169	P/S	Ccc/Tcc	.	.	.	1	SETD5	HGNC	25566	protein_coding	YES	CCDS46741.1	ENSP00000385852	SETD5_HUMAN	C9JLM1_HUMAN,C9JLA7_HUMAN,A8K0G4_HUMAN	UPI0000411FEE	.	tolerated(0.06)	probably_damaging(0.998)	21/23	.	hmmpanther:PTHR16286:SF11,hmmpanther:PTHR16286	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCCCACA	.	5	BLCA
CPOX	0	.	GRCh37	3	98304446	98304446	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011C>G	p.Ile337Met	p.I337M	ENST00000264193	5/7	94	87	7	123	123	0	CPOX,missense_variant,p.Ile337Met,ENST00000264193,;CPOX,non_coding_transcript_exon_variant,,ENST00000510489,;CPOX,downstream_gene_variant,,ENST00000513674,;CPOX,downstream_gene_variant,,ENST00000515041,;CPOX,upstream_gene_variant,,ENST00000512905,;	C	ENSG00000080819	ENST00000264193	Transcript	missense_variant	1230	1011	337	I/M	atC/atG	.	.	.	-1	CPOX	HGNC	2321	protein_coding	YES	CCDS2932.1	ENSP00000264193	HEM6_HUMAN	.	UPI0000073C93	.	deleterious(0)	probably_damaging(1)	5/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10755,hmmpanther:PTHR10755:SF0,PROSITE_patterns:PS01021,Pfam_domain:PF01218,Gene3D:3.40.1500.10,Superfamily_domains:SSF102886,Prints_domain:PR00073	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAAAGATACC	.	3	BLCA
EGF	0	.	GRCh37	4	110897215	110897215	+	Missense_Mutation	SNP	C	C	G	rs546483670	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1877C>G	p.Ser626Cys	p.S626C	ENST00000265171	13/24	103	85	17	156	156	0	EGF,missense_variant,p.Ser626Cys,ENST00000503392,;EGF,missense_variant,p.Ser626Cys,ENST00000265171,;EGF,missense_variant,p.Ser584Cys,ENST00000509793,;EGF,upstream_gene_variant,,ENST00000541061,;EGF,non_coding_transcript_exon_variant,,ENST00000502579,;EGF,upstream_gene_variant,,ENST00000509996,;EGF,upstream_gene_variant,,ENST00000511228,;	G	ENSG00000138798	ENST00000265171	Transcript	missense_variant	2322	1877	626	S/C	tCt/tGt	rs546483670	.	.	1	EGF	HGNC	3229	protein_coding	YES	CCDS3689.1	ENSP00000265171	EGF_HUMAN	Q6QBS2_HUMAN	UPI000013D5C8	.	deleterious(0.02)	possibly_damaging(0.678)	13/24	.	Superfamily_domains:SSF63825,PIRSF_domain:PIRSF001778,SMART_domains:SM00135,Gene3D:2.120.10.30,Pfam_domain:PF00058,hmmpanther:PTHR10529,PROSITE_profiles:PS51120	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTCTTCCC	byFrequency|by1000G	5	BLCA
NDST3	0	.	GRCh37	4	119163264	119163264	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2359C>G	p.Leu787Val	p.L787V	ENST00000296499	12/14	128	100	28	172	172	0	NDST3,missense_variant,p.Leu787Val,ENST00000296499,;NDST3,downstream_gene_variant,,ENST00000433996,;	G	ENSG00000164100	ENST00000296499	Transcript	missense_variant	2762	2359	787	L/V	Cta/Gta	.	.	.	1	NDST3	HGNC	7682	protein_coding	YES	CCDS3708.1	ENSP00000296499	NDST3_HUMAN	.	UPI0000071C44	.	deleterious(0)	probably_damaging(0.992)	12/14	.	hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF15,Pfam_domain:PF00685,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCTAGGA	.	5	BLCA
KIAA1109	0	.	GRCh37	4	123227107	123227107	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9748C>T	p.Arg3250Ter	p.R3250*	ENST00000264501	57/86	100	92	8	126	125	1	KIAA1109,stop_gained,p.Arg3250Ter,ENST00000455637,;KIAA1109,stop_gained,p.Arg3250Ter,ENST00000264501,;KIAA1109,stop_gained,p.Arg3250Ter,ENST00000388738,;KIAA1109,stop_gained,p.Arg1208Ter,ENST00000419325,;KIAA1109,upstream_gene_variant,,ENST00000438707,;KIAA1109,upstream_gene_variant,,ENST00000421930,;	T	ENSG00000138688	ENST00000264501	Transcript	stop_gained	10121	9748	3250	R/*	Cga/Tga	.	.	.	1	KIAA1109	HGNC	26953	protein_coding	YES	CCDS43267.1	ENSP00000264501	K1109_HUMAN	B3KN93_HUMAN	UPI0000DD87B4	.	.	.	57/86	.	hmmpanther:PTHR31640:SF1,hmmpanther:PTHR31640	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTCCGAGAA	.	2	BLCA
PGRMC2	0	.	GRCh37	4	129192450	129192450	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*21C>T	.	.	ENST00000520121	3/3	55	49	6	65	65	0	PGRMC2,3_prime_UTR_variant,,ENST00000512483,;PGRMC2,3_prime_UTR_variant,,ENST00000296425,;PGRMC2,3_prime_UTR_variant,,ENST00000394276,;PGRMC2,3_prime_UTR_variant,,ENST00000520121,;PGRMC2,3_prime_UTR_variant,,ENST00000503872,;PGRMC2,3_prime_UTR_variant,,ENST00000503588,;PGRMC2,downstream_gene_variant,,ENST00000509070,;	A	ENSG00000164040	ENST00000520121	Transcript	3_prime_UTR_variant	1732	.	.	.	.	.	.	.	-1	PGRMC2	HGNC	16089	protein_coding	YES	CCDS3739.2	ENSP00000429301	.	D3DNX8_HUMAN	UPI00001B2483	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTGACTTT	.	2	BLCA
PCDH10	0	.	GRCh37	4	134072396	134072396	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1101G>A	p.%3D	p.V367V	ENST00000264360	1/5	62	48	14	79	79	0	PCDH10,synonymous_variant,p.%3D,ENST00000264360,;RP11-9G1.3,upstream_gene_variant,,ENST00000509715,;RP11-9G1.3,upstream_gene_variant,,ENST00000505289,;PCDH10,upstream_gene_variant,,ENST00000511112,;	A	ENSG00000138650	ENST00000264360	Transcript	synonymous_variant	1927	1101	367	V	gtG/gtA	.	.	.	1	PCDH10	HGNC	13404	protein_coding	YES	CCDS34063.1	ENSP00000264360	PCD10_HUMAN	Q9NSR3_HUMAN	UPI0000161C61	.	.	.	1/5	.	Superfamily_domains:SSF49313,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24028:SF0,hmmpanther:PTHR24028,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGTGAGTGA	.	5	BLCA
BOD1L1	0	.	GRCh37	4	13603177	13603177	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5347G>A	p.Asp1783Asn	p.D1783N	ENST00000040738	10/26	197	164	33	265	265	0	BOD1L1,missense_variant,p.Asp1783Asn,ENST00000040738,;	T	ENSG00000038219	ENST00000040738	Transcript	missense_variant	5483	5347	1783	D/N	Gat/Aat	.	.	.	-1	BOD1L1	HGNC	31792	protein_coding	YES	CCDS3411.2	ENSP00000040738	BD1L1_HUMAN	.	UPI000066D9E3	.	.	probably_damaging(1)	10/26	.	hmmpanther:PTHR31532,hmmpanther:PTHR31532:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCATCATTCA	.	4	BLCA
LRBA	0	.	GRCh37	4	151773060	151773060	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3802C>G	p.Gln1268Glu	p.Q1268E	ENST00000357115	23/58	19	12	7	30	30	0	LRBA,missense_variant,p.Gln1268Glu,ENST00000535741,;LRBA,missense_variant,p.Gln1268Glu,ENST00000507224,;LRBA,missense_variant,p.Gln1268Glu,ENST00000357115,;LRBA,missense_variant,p.Gln1268Glu,ENST00000510413,;LRBA,upstream_gene_variant,,ENST00000509835,;LRBA,upstream_gene_variant,,ENST00000502839,;	C	ENSG00000198589	ENST00000357115	Transcript	missense_variant	4046	3802	1268	Q/E	Caa/Gaa	.	.	.	-1	LRBA	HGNC	1742	protein_coding	YES	CCDS3773.1	ENSP00000349629	LRBA_HUMAN	Q7KZN3_HUMAN	UPI000013E35C	.	tolerated_low_confidence(0.23)	benign(0.031)	23/58	.	hmmpanther:PTHR13743,hmmpanther:PTHR13743:SF64	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGGTTGAGGTG	.	2	BLCA
FBXW7	0	.	GRCh37	4	153273859	153273859	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502-2583G>A	.	.	ENST00000281708	.	20	14	6	33	33	0	FBXW7,synonymous_variant,p.%3D,ENST00000263981,;FBXW7,intron_variant,,ENST00000603548,;FBXW7,intron_variant,,ENST00000281708,;FBXW7,intron_variant,,ENST00000603841,;FBXW7,intron_variant,,ENST00000296555,;FBXW7,upstream_gene_variant,,ENST00000393956,;FBXW7,upstream_gene_variant,,ENST00000604822,;	T	ENSG00000109670	ENST00000281708	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	.	.	.	2/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTATCAAACC	.	5	BLCA
DCHS2	0	.	GRCh37	4	155157229	155157229	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7210G>A	p.Asp2404Asn	p.D2404N	ENST00000357232	25/25	104	96	7	129	129	0	DCHS2,missense_variant,p.Asp2404Asn,ENST00000357232,;	T	ENSG00000197410	ENST00000357232	Transcript	missense_variant	7210	7210	2404	D/N	Gat/Aat	.	.	.	-1	DCHS2	HGNC	23111	protein_coding	YES	CCDS3785.1	ENSP00000349768	PCD23_HUMAN	B3KT73_HUMAN	UPI000035B018	.	tolerated(0.15)	possibly_damaging(0.906)	25/25	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF257,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCATCACCTT	.	2	BLCA
DDX60L	0	.	GRCh37	4	169336860	169336860	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2817C>T	p.%3D	p.L939L	ENST00000260184	21/38	17	14	3	18	18	0	DDX60L,synonymous_variant,p.%3D,ENST00000511577,;DDX60L,synonymous_variant,p.%3D,ENST00000505890,;DDX60L,synonymous_variant,p.%3D,ENST00000505863,;DDX60L,synonymous_variant,p.%3D,ENST00000260184,;DDX60L,downstream_gene_variant,,ENST00000504793,;	A	ENSG00000181381	ENST00000260184	Transcript	synonymous_variant	3038	2817	939	L	ctC/ctT	.	.	.	-1	DDX60L	HGNC	26429	protein_coding	YES	CCDS47161.1	ENSP00000260184	DDX6L_HUMAN	D6RIU1_HUMAN,D6RBA2_HUMAN,D6RB62_HUMAN	UPI0001553B03	.	.	.	21/38	.	hmmpanther:PTHR11752,hmmpanther:PTHR11752:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGTTGAGACA	.	2	BLCA
PALLD	0	.	GRCh37	4	169819676	169819676	+	Silent	SNP	C	C	G	rs753753166	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2283C>G	p.%3D	p.L761L	ENST00000505667	14/22	32	26	6	60	60	0	PALLD,synonymous_variant,p.%3D,ENST00000510998,;PALLD,synonymous_variant,p.%3D,ENST00000507735,;PALLD,synonymous_variant,p.%3D,ENST00000393726,;PALLD,synonymous_variant,p.%3D,ENST00000335742,;PALLD,synonymous_variant,p.%3D,ENST00000261509,;PALLD,synonymous_variant,p.%3D,ENST00000505667,;PALLD,synonymous_variant,p.%3D,ENST00000512127,;CBR4,intron_variant,,ENST00000509108,;PALLD,non_coding_transcript_exon_variant,,ENST00000513187,;PALLD,non_coding_transcript_exon_variant,,ENST00000507699,;PALLD,non_coding_transcript_exon_variant,,ENST00000507325,;CBR4,intron_variant,,ENST00000510042,;PALLD,downstream_gene_variant,,ENST00000511611,;PALLD,upstream_gene_variant,,ENST00000511682,;	G	ENSG00000129116	ENST00000505667	Transcript	synonymous_variant	2456	2283	761	L	ctC/ctG	rs753753166	.	.	1	PALLD	HGNC	17068	protein_coding	YES	CCDS54818.1	ENSP00000425556	PALLD_HUMAN	Q4W5A6_HUMAN,D6RBH5_HUMAN,D6RBB1_HUMAN,D6R9Z5_HUMAN,D6R948_HUMAN	UPI000189A85C	.	.	.	14/22	.	hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF152	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTCATCAG	.	5	BLCA
NEIL3	0	.	GRCh37	4	178274579	178274579	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1157G>A	p.Gly386Glu	p.G386E	ENST00000264596	8/10	32	24	8	53	52	0	NEIL3,missense_variant,p.Gly386Glu,ENST00000264596,;RP11-376O6.2,intron_variant,,ENST00000506895,;NEIL3,3_prime_UTR_variant,,ENST00000513321,;	A	ENSG00000109674	ENST00000264596	Transcript	missense_variant	1275	1157	386	G/E	gGa/gAa	.	.	.	1	NEIL3	HGNC	24573	protein_coding	YES	CCDS3828.1	ENSP00000264596	NEIL3_HUMAN	.	UPI000013D53D	.	deleterious(0)	probably_damaging(1)	8/10	.	hmmpanther:PTHR22993,hmmpanther:PTHR22993:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTGGAACTA	.	5	BLCA
AGA	0	.	GRCh37	4	178363459	178363459	+	Missense_Mutation	SNP	G	G	C	rs756941180	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71C>G	p.Ser24Cys	p.S24C	ENST00000264595	1/9	34	26	7	46	46	0	AGA,missense_variant,p.Ser24Cys,ENST00000264595,;AGA,upstream_gene_variant,,ENST00000510635,;AGA,upstream_gene_variant,,ENST00000502310,;RP11-130F10.1,upstream_gene_variant,,ENST00000507023,;AGA,non_coding_transcript_exon_variant,,ENST00000506853,;AGA,non_coding_transcript_exon_variant,,ENST00000510955,;AGA,non_coding_transcript_exon_variant,,ENST00000511231,;	C	ENSG00000038002	ENST00000264595	Transcript	missense_variant	199	71	24	S/C	tCc/tGc	rs756941180	.	.	-1	AGA	HGNC	318	protein_coding	YES	CCDS3829.1	ENSP00000264595	ASPG_HUMAN	Q6LD43_HUMAN	UPI000013D53C	.	deleterious(0.05)	benign(0.013)	1/9	.	hmmpanther:PTHR10188,hmmpanther:PTHR10188:SF6,Pfam_domain:PF01112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTGGAGCAG	byFrequency	5	BLCA
SNX25	0	.	GRCh37	4	186180201	186180201	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222G>C	p.%3D	p.L74L	ENST00000504273	3/19	74	61	12	88	88	0	SNX25,synonymous_variant,p.%3D,ENST00000504273,;SNX25,synonymous_variant,p.%3D,ENST00000264694,;SNX25,non_coding_transcript_exon_variant,,ENST00000506896,;	C	ENSG00000109762	ENST00000504273	Transcript	synonymous_variant	516	222	74	L	ctG/ctC	.	.	.	1	SNX25	HGNC	21883	protein_coding	YES	CCDS34116.1	ENSP00000426255	SNX25_HUMAN	B3KTI8_HUMAN	UPI000020B7BB	.	.	.	3/19	.	PROSITE_profiles:PS51207,hmmpanther:PTHR22775:SF6,hmmpanther:PTHR22775,Pfam_domain:PF02194,SMART_domains:SM00313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACCTGAAAGC	.	5	BLCA
UFSP2	0	.	GRCh37	4	186339602	186339602	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326C>T	p.Ser109Leu	p.S109L	ENST00000264689	4/12	32	28	4	51	51	0	UFSP2,missense_variant,p.Ser109Leu,ENST00000264689,;UFSP2,missense_variant,p.Ser23Leu,ENST00000511485,;UFSP2,missense_variant,p.Ser103Leu,ENST00000505357,;UFSP2,upstream_gene_variant,,ENST00000509180,;Y_RNA,upstream_gene_variant,,ENST00000384502,;UFSP2,non_coding_transcript_exon_variant,,ENST00000502282,;UFSP2,missense_variant,p.Ser109Leu,ENST00000502428,;UFSP2,missense_variant,p.Ser109Leu,ENST00000510755,;UFSP2,3_prime_UTR_variant,,ENST00000514247,;	A	ENSG00000109775	ENST00000264689	Transcript	missense_variant	443	326	109	S/L	tCa/tTa	.	.	.	-1	UFSP2	HGNC	25640	protein_coding	YES	CCDS3842.1	ENSP00000264689	UFSP2_HUMAN	D6RA67_HUMAN	UPI000020B7C0	.	tolerated(0.35)	benign(0.021)	4/12	.	hmmpanther:PTHR13226:SF9,hmmpanther:PTHR13226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCTGATAAC	.	2	BLCA
TLR3	0	.	GRCh37	4	187005261	187005261	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2421C>G	p.Ile807Met	p.I807M	ENST00000296795	4/5	59	41	18	55	55	0	TLR3,missense_variant,p.Ile530Met,ENST00000504367,;TLR3,missense_variant,p.Ile807Met,ENST00000296795,;TLR3,downstream_gene_variant,,ENST00000513189,;TLR3,downstream_gene_variant,,ENST00000508051,;TLR3,non_coding_transcript_exon_variant,,ENST00000512264,;	G	ENSG00000164342	ENST00000296795	Transcript	missense_variant	2525	2421	807	I/M	atC/atG	COSM3602540	.	.	1	TLR3	HGNC	11849	protein_coding	YES	CCDS3846.1	ENSP00000296795	TLR3_HUMAN	E6Y0F1_HUMAN,Q1KMK2_HUMAN,E9PGH4_HUMAN	UPI0000049B3E	.	tolerated(0.49)	possibly_damaging(0.68)	4/5	.	PROSITE_profiles:PS50104,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF5,Pfam_domain:PF01582,Gene3D:3.40.50.10140,SMART_domains:SM00255,Superfamily_domains:SSF52200	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCAAAAG	.	5	BLCA
FAT1	0	.	GRCh37	4	187628101	187628101	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2881C>T	p.Gln961Ter	p.Q961*	ENST00000441802	2/27	89	78	11	128	128	0	FAT1,stop_gained,p.Gln961Ter,ENST00000441802,;FAT1,downstream_gene_variant,,ENST00000509647,;	A	ENSG00000083857	ENST00000441802	Transcript	stop_gained	3091	2881	961	Q/*	Cag/Tag	.	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	.	2/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCTGACCAG	.	4	BLCA
GPR125	0	.	GRCh37	4	22422440	22422440	+	Intron	SNP	G	G	A	rs764374448	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1809+69C>T	.	.	ENST00000334304	.	53	47	6	73	73	0	GPR125,3_prime_UTR_variant,,ENST00000502482,;GPR125,intron_variant,,ENST00000508133,;GPR125,intron_variant,,ENST00000334304,;GPR125,intron_variant,,ENST00000282943,;	A	ENSG00000152990	ENST00000334304	Transcript	intron_variant	.	.	.	.	.	rs764374448	.	.	-1	GPR125	HGNC	13839	protein_coding	YES	CCDS33964.1	ENSP00000334952	GP125_HUMAN	Q6JN45_HUMAN,D6RER4_HUMAN,D6RDX4_HUMAN	UPI00001D7735	.	.	.	.	12/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTGCGAAGCA	byFrequency	4	BLCA
DHX15	0	.	GRCh37	4	24578092	24578092	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.281C>G	p.Ser94Ter	p.S94*	ENST00000336812	2/14	76	63	13	109	109	0	DHX15,stop_gained,p.Ser94Ter,ENST00000336812,;DHX15,non_coding_transcript_exon_variant,,ENST00000511553,;DHX15,downstream_gene_variant,,ENST00000513092,;	C	ENSG00000109606	ENST00000336812	Transcript	stop_gained	438	281	94	S/*	tCa/tGa	COSM3825709	.	.	-1	DHX15	HGNC	2738	protein_coding	YES	CCDS33966.1	ENSP00000336741	DHX15_HUMAN	.	UPI000012907A	.	.	.	2/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18934:SF95,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTGAATGC	.	5	BLCA
ANAPC4	0	.	GRCh37	4	25391798	25391798	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>C	p.Glu186Gln	p.E186Q	ENST00000315368	8/29	58	42	15	79	79	0	ANAPC4,missense_variant,p.Glu186Gln,ENST00000510092,;ANAPC4,missense_variant,p.Glu186Gln,ENST00000315368,;ANAPC4,downstream_gene_variant,,ENST00000505991,;ANAPC4,3_prime_UTR_variant,,ENST00000505080,;ANAPC4,upstream_gene_variant,,ENST00000503805,;ANAPC4,upstream_gene_variant,,ENST00000507925,;	C	ENSG00000053900	ENST00000315368	Transcript	missense_variant	698	556	186	E/Q	Gag/Cag	COSM733655	.	.	1	ANAPC4	HGNC	19990	protein_coding	YES	CCDS3434.1	ENSP00000318775	APC4_HUMAN	D6RAP6_HUMAN	UPI000013D583	.	tolerated(0.28)	probably_damaging(0.959)	8/29	.	hmmpanther:PTHR13260,Gene3D:2.130.10.10,PIRSF_domain:PIRSF037303,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTGAGCTT	.	5	BLCA
SLC34A2	0	.	GRCh37	4	25677780	25677780	+	Silent	SNP	C	C	T	rs753853670	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1482C>T	p.%3D	p.F494F	ENST00000382051	13/13	29	22	7	27	27	0	SLC34A2,synonymous_variant,p.%3D,ENST00000503434,;SLC34A2,synonymous_variant,p.%3D,ENST00000382051,;SLC34A2,synonymous_variant,p.%3D,ENST00000504570,;RP11-302F12.1,upstream_gene_variant,,ENST00000496507,;	T	ENSG00000157765	ENST00000382051	Transcript	synonymous_variant	1532	1482	494	F	ttC/ttT	rs753853670	.	.	1	SLC34A2	HGNC	11020	protein_coding	YES	CCDS3435.1	ENSP00000371483	NPT2B_HUMAN	D6RBC0_HUMAN	UPI000013DF24	.	.	.	13/13	.	Transmembrane_helices:TMhelix,TIGRFAM_domain:TIGR01013,Pfam_domain:PF02690,hmmpanther:PTHR10010,hmmpanther:PTHR10010:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCAACAT	.	5	BLCA
REST	0	.	GRCh37	4	57797247	57797247	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2223G>A	p.%3D	p.Q741Q	ENST00000309042	4/4	271	209	62	411	411	0	REST,synonymous_variant,p.%3D,ENST00000309042,;REST,downstream_gene_variant,,ENST00000514063,;	A	ENSG00000084093	ENST00000309042	Transcript	synonymous_variant	2537	2223	741	Q	caG/caA	.	.	.	1	REST	HGNC	9966	protein_coding	YES	CCDS3509.1	ENSP00000311816	REST_HUMAN	.	UPI000013FBF6	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCAGAAGGA	.	5	BLCA
NOA1	0	.	GRCh37	4	57839436	57839436	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1393G>C	p.Asp465His	p.D465H	ENST00000264230	3/7	121	114	7	151	151	0	NOA1,missense_variant,p.Asp465His,ENST00000264230,;POLR2B,upstream_gene_variant,,ENST00000450656,;POLR2B,upstream_gene_variant,,ENST00000381227,;POLR2B,upstream_gene_variant,,ENST00000495311,;	G	ENSG00000084092	ENST00000264230	Transcript	missense_variant	2631	1393	465	D/H	Gac/Cac	.	.	.	-1	NOA1	HGNC	28473	protein_coding	YES	CCDS3510.1	ENSP00000264230	NOA1_HUMAN	.	UPI000006DAEE	.	deleterious(0.02)	probably_damaging(0.971)	3/7	.	PROSITE_profiles:PS51721,hmmpanther:PTHR11089,hmmpanther:PTHR11089:SF33,Pfam_domain:PF01926,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATGTCAAAGG	.	2	BLCA
UBA6	0	.	GRCh37	4	68511724	68511724	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327T>A	p.Tyr443Asn	p.Y443N	ENST00000322244	16/33	77	53	24	103	103	0	UBA6,missense_variant,p.Tyr443Asn,ENST00000322244,;UBA6,upstream_gene_variant,,ENST00000505673,;	T	ENSG00000033178	ENST00000322244	Transcript	missense_variant	1387	1327	443	Y/N	Tat/Aat	.	.	.	-1	UBA6	HGNC	25581	protein_coding	YES	CCDS3516.1	ENSP00000313454	UBA6_HUMAN	B3KSS1_HUMAN	UPI000004A4F7	.	deleterious(0)	probably_damaging(0.947)	16/33	.	hmmpanther:PTHR10953,hmmpanther:PTHR10953:SF141,Gene3D:3.40.50.720,TIGRFAM_domain:TIGR01408,Superfamily_domains:SSF69572	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATATCTAT	.	5	BLCA
TMPRSS11A	0	.	GRCh37	4	68777186	68777186	+	Silent	SNP	C	C	G	rs751520773	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1140G>C	p.%3D	p.L380L	ENST00000334830	10/10	53	39	14	89	89	0	TMPRSS11A,synonymous_variant,p.%3D,ENST00000508048,;TMPRSS11A,synonymous_variant,p.%3D,ENST00000334830,;TMPRSS11A,synonymous_variant,p.%3D,ENST00000513536,;TMPRSS11A,synonymous_variant,p.%3D,ENST00000396188,;UBA6-AS1,intron_variant,,ENST00000500538,;	G	ENSG00000187054	ENST00000334830	Transcript	synonymous_variant	1887	1140	380	L	ctG/ctC	rs751520773	.	.	-1	TMPRSS11A	HGNC	27954	protein_coding	YES	CCDS3519.1	ENSP00000334611	TM11A_HUMAN	.	UPI0000457217	.	.	.	10/10	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24256:SF37,hmmpanther:PTHR24256,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,PIRSF_domain:PIRSF037941,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGATC	.	5	BLCA
UGT2B4	0	.	GRCh37	4	70361310	70361310	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270C>T	p.%3D	p.I90I	ENST00000305107	1/6	29	25	4	51	51	0	UGT2B4,synonymous_variant,p.%3D,ENST00000305107,;UGT2B4,synonymous_variant,p.%3D,ENST00000512583,;UGT2B4,intron_variant,,ENST00000381096,;UGT2B4,downstream_gene_variant,,ENST00000510114,;UGT2B4,non_coding_transcript_exon_variant,,ENST00000506580,;UGT2B4,intron_variant,,ENST00000503836,;UGT2B4,intron_variant,,ENST00000502655,;	A	ENSG00000156096	ENST00000305107	Transcript	synonymous_variant	317	270	90	I	atC/atT	.	.	.	-1	UGT2B4	HGNC	12553	protein_coding	YES	CCDS43234.1	ENSP00000305221	UD2B4_HUMAN	D6RGY0_HUMAN	UPI000000087F	.	.	.	1/6	.	hmmpanther:PTHR11926:SF123,hmmpanther:PTHR11926,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCTTGATAAT	.	2	BLCA
FAM47E-STBD1	0	.	GRCh37	4	77230462	77230462	+	Missense_Mutation	SNP	C	C	G	rs775774867	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386C>G	p.Ser129Cys	p.S129C	ENST00000237642	2/2	33	27	6	55	55	0	FAM47E-STBD1,missense_variant,p.Ser129Cys,ENST00000237642,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000514140,;FAM47E-STBD1,5_prime_UTR_variant,,ENST00000539752,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000515604,;CCDC158,downstream_gene_variant,,ENST00000388914,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000514365,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000509377,;CCDC158,downstream_gene_variant,,ENST00000504667,;	G	ENSG00000118804	ENST00000237642	Transcript	missense_variant	1130	386	129	S/C	tCt/tGt	rs775774867	.	.	1	FAM47E-STBD1	HGNC	44667	protein_coding	YES	CCDS3578.1	ENSP00000237642	STBD1_HUMAN	B3KMK8_HUMAN	UPI000006DB9D	.	deleterious(0)	probably_damaging(0.991)	2/2	.	hmmpanther:PTHR15048,hmmpanther:PTHR15048:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCTGAGA	.	5	BLCA
AFAP1	0	.	GRCh37	4	7795489	7795489	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1331C>G	p.Thr444Arg	p.T444R	ENST00000420658	11/18	87	73	14	135	135	0	AFAP1,missense_variant,p.Thr444Arg,ENST00000382543,;AFAP1,missense_variant,p.Thr444Arg,ENST00000420658,;AFAP1,missense_variant,p.Thr444Arg,ENST00000360265,;AFAP1,missense_variant,p.Thr444Arg,ENST00000358461,;AFAP1,non_coding_transcript_exon_variant,,ENST00000508415,;AFAP1,non_coding_transcript_exon_variant,,ENST00000513842,;	C	ENSG00000196526	ENST00000420658	Transcript	missense_variant	1604	1331	444	T/R	aCa/aGa	.	.	.	-1	AFAP1	HGNC	24017	protein_coding	YES	CCDS47010.1	ENSP00000410689	AFAP1_HUMAN	.	UPI000048041E	.	deleterious(0.01)	possibly_damaging(0.774)	11/18	.	hmmpanther:PTHR14338,hmmpanther:PTHR14338:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTGTGGAC	.	4	BLCA
RASGEF1B	0	.	GRCh37	4	82366753	82366753	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.855G>T	p.Met285Ile	p.M285I	ENST00000264400	8/14	87	70	16	129	129	0	RASGEF1B,missense_variant,p.Met243Ile,ENST00000335927,;RASGEF1B,missense_variant,p.Met284Ile,ENST00000509081,;RASGEF1B,missense_variant,p.Met130Ile,ENST00000504863,;RASGEF1B,missense_variant,p.Met285Ile,ENST00000264400,;	A	ENSG00000138670	ENST00000264400	Transcript	missense_variant	1007	855	285	M/I	atG/atT	.	.	.	-1	RASGEF1B	HGNC	24881	protein_coding	YES	CCDS34022.1	ENSP00000264400	RGF1B_HUMAN	D6RE71_HUMAN,B4E121_HUMAN	UPI0000044685	.	tolerated(0.25)	benign(0.002)	8/14	.	Superfamily_domains:0041591,SMART_domains:SM00147,Gene3D:2ii0A02,Pfam_domain:PF00617,hmmpanther:PTHR23113:SF197,hmmpanther:PTHR23113,PROSITE_profiles:PS50009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAATCATTCT	.	5	BLCA
SEC31A	0	.	GRCh37	4	83795788	83795788	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.615C>G	p.Ile205Met	p.I205M	ENST00000395310	6/27	56	46	10	82	82	0	SEC31A,missense_variant,p.Ile205Met,ENST00000448323,;SEC31A,missense_variant,p.Ile205Met,ENST00000505984,;SEC31A,missense_variant,p.Ile205Met,ENST00000311785,;SEC31A,missense_variant,p.Ile205Met,ENST00000500777,;SEC31A,missense_variant,p.Ile205Met,ENST00000395310,;SEC31A,missense_variant,p.Ile205Met,ENST00000509142,;SEC31A,missense_variant,p.Ile176Met,ENST00000503058,;SEC31A,missense_variant,p.Ile205Met,ENST00000508502,;SEC31A,missense_variant,p.Ile205Met,ENST00000505472,;SEC31A,missense_variant,p.Ile205Met,ENST00000432794,;SEC31A,missense_variant,p.Ile205Met,ENST00000513858,;SEC31A,missense_variant,p.Ile205Met,ENST00000355196,;SEC31A,missense_variant,p.Ile200Met,ENST00000443462,;SEC31A,missense_variant,p.Ile205Met,ENST00000508479,;SEC31A,missense_variant,p.Ile205Met,ENST00000326950,;SEC31A,missense_variant,p.Ile205Met,ENST00000348405,;SEC31A,downstream_gene_variant,,ENST00000514326,;SEC31A,downstream_gene_variant,,ENST00000503210,;SEC31A,upstream_gene_variant,,ENST00000264405,;SEC31A,downstream_gene_variant,,ENST00000513323,;SEC31A,non_coding_transcript_exon_variant,,ENST00000436790,;SEC31A,downstream_gene_variant,,ENST00000507867,;SEC31A,downstream_gene_variant,,ENST00000510310,;SEC31A,downstream_gene_variant,,ENST00000506497,;SEC31A,downstream_gene_variant,,ENST00000511975,;SEC31A,downstream_gene_variant,,ENST00000507816,;SEC31A,downstream_gene_variant,,ENST00000507340,;	C	ENSG00000138674	ENST00000395310	Transcript	missense_variant	798	615	205	I/M	atC/atG	.	.	.	-1	SEC31A	HGNC	17052	protein_coding	YES	CCDS3596.1	ENSP00000378721	SC31A_HUMAN	U3KQC9_HUMAN,D6REC0_HUMAN,D6REA9_HUMAN,D6RE64_HUMAN,D6RCQ9_HUMAN,D6RBT0_HUMAN	UPI000003E7E1	.	deleterious(0)	benign(0.269)	6/27	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR13923:SF23,hmmpanther:PTHR13923,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTTTGATGAT	.	3	BLCA
GAK	0	.	GRCh37	4	844822	844822	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3559C>G	p.Gln1187Glu	p.Q1187E	ENST00000314167	26/28	76	57	19	146	146	0	GAK,missense_variant,p.Gln343Glu,ENST00000511980,;GAK,missense_variant,p.Gln1108Glu,ENST00000511163,;GAK,missense_variant,p.Gln1187Glu,ENST00000314167,;GAK,downstream_gene_variant,,ENST00000510799,;GAK,non_coding_transcript_exon_variant,,ENST00000509566,;GAK,non_coding_transcript_exon_variant,,ENST00000511345,;GAK,non_coding_transcript_exon_variant,,ENST00000515868,;GAK,non_coding_transcript_exon_variant,,ENST00000502799,;GAK,intron_variant,,ENST00000504668,;	C	ENSG00000178950	ENST00000314167	Transcript	missense_variant	3670	3559	1187	Q/E	Caa/Gaa	.	.	.	-1	GAK	HGNC	4113	protein_coding	YES	CCDS3340.1	ENSP00000314499	GAK_HUMAN	Q59HA5_HUMAN,D6RF16_HUMAN,D6RC24_HUMAN	UPI000012B04A	.	deleterious(0.04)	benign(0.018)	26/28	.	hmmpanther:PTHR23172:SF34,hmmpanther:PTHR23172,Gene3D:1.10.287.110,Superfamily_domains:SSF46565	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTGATTGG	.	5	BLCA
AGPAT9	0	.	GRCh37	4	84519201	84519201	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.997-3C>T	.	.	ENST00000395226	.	75	55	19	76	76	0	AGPAT9,splice_region_variant,,ENST00000395226,;AGPAT9,splice_region_variant,,ENST00000264409,;AGPAT9,upstream_gene_variant,,ENST00000509044,;AGPAT9,downstream_gene_variant,,ENST00000513683,;	T	ENSG00000138678	ENST00000395226	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	AGPAT9	HGNC	28157	protein_coding	YES	CCDS3606.1	ENSP00000378651	GPAT3_HUMAN	.	UPI000004B62F	.	.	.	.	10/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAGTAT	.	4	BLCA
KLHL8	0	.	GRCh37	4	88106495	88106495	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.673G>A	p.Glu225Lys	p.E225K	ENST00000273963	3/10	88	68	19	141	141	0	KLHL8,missense_variant,p.Glu225Lys,ENST00000512111,;KLHL8,missense_variant,p.Glu149Lys,ENST00000498875,;KLHL8,missense_variant,p.Glu225Lys,ENST00000273963,;KLHL8,intron_variant,,ENST00000545252,;KLHL8,intron_variant,,ENST00000425278,;KLHL8,intron_variant,,ENST00000504029,;KLHL8,intron_variant,,ENST00000505388,;KLHL8,intron_variant,,ENST00000506985,;	T	ENSG00000145332	ENST00000273963	Transcript	missense_variant	1015	673	225	E/K	Gaa/Aaa	.	.	.	-1	KLHL8	HGNC	18644	protein_coding	YES	CCDS3617.1	ENSP00000273963	KLHL8_HUMAN	Q49A95_HUMAN	UPI00001AE9B8	.	tolerated(0.47)	benign(0.056)	3/10	.	hmmpanther:PTHR24412:SF138,hmmpanther:PTHR24412,Pfam_domain:PF07707,SMART_domains:SM00875,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTCAATAT	.	5	BLCA
KLHL8	0	.	GRCh37	4	88106561	88106561	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>A	p.Glu203Lys	p.E203K	ENST00000273963	3/10	84	67	17	141	141	0	KLHL8,missense_variant,p.Glu203Lys,ENST00000512111,;KLHL8,missense_variant,p.Glu127Lys,ENST00000498875,;KLHL8,missense_variant,p.Glu203Lys,ENST00000273963,;KLHL8,intron_variant,,ENST00000545252,;KLHL8,intron_variant,,ENST00000425278,;KLHL8,intron_variant,,ENST00000504029,;KLHL8,intron_variant,,ENST00000505388,;KLHL8,intron_variant,,ENST00000506985,;	T	ENSG00000145332	ENST00000273963	Transcript	missense_variant	949	607	203	E/K	Gaa/Aaa	.	.	.	-1	KLHL8	HGNC	18644	protein_coding	YES	CCDS3617.1	ENSP00000273963	KLHL8_HUMAN	Q49A95_HUMAN	UPI00001AE9B8	.	deleterious(0.01)	possibly_damaging(0.744)	3/10	.	hmmpanther:PTHR24412:SF138,hmmpanther:PTHR24412,Pfam_domain:PF07707,SMART_domains:SM00875,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTCACACT	.	5	BLCA
EPB41L4A	0	.	GRCh37	5	111497279	111497279	+	3'Flank	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000261486	.	85	61	24	118	118	0	EPB41L4A,downstream_gene_variant,,ENST00000261486,;SNORA13,non_coding_transcript_exon_variant,,ENST00000458790,;EPB41L4A-AS1,intron_variant,,ENST00000508590,;EPB41L4A-AS1,intron_variant,,ENST00000427306,;EPB41L4A-AS1,intron_variant,,ENST00000442823,;EPB41L4A-AS1,intron_variant,,ENST00000413221,;EPB41L4A,intron_variant,,ENST00000507810,;EPB41L4A,downstream_gene_variant,,ENST00000509342,;	C	ENSG00000129595	ENST00000261486	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1039	-1	EPB41L4A	HGNC	13278	protein_coding	YES	CCDS43350.1	ENSP00000261486	E41LA_HUMAN	Q8NEH8_HUMAN	UPI000020C3F8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTTGATACC	.	5	BLCA
APC	0	.	GRCh37	5	112176962	112176962	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5671G>C	p.Glu1891Gln	p.E1891Q	ENST00000457016	16/16	49	46	3	61	61	0	APC,missense_variant,p.Glu1891Gln,ENST00000257430,;APC,missense_variant,p.Glu1891Gln,ENST00000457016,;APC,missense_variant,p.Glu1891Gln,ENST00000508376,;APC,downstream_gene_variant,,ENST00000507379,;APC,downstream_gene_variant,,ENST00000512211,;APC,downstream_gene_variant,,ENST00000504915,;APC,3_prime_UTR_variant,,ENST00000508624,;CTC-554D6.1,intron_variant,,ENST00000520401,;APC,downstream_gene_variant,,ENST00000502371,;APC,downstream_gene_variant,,ENST00000514164,;	C	ENSG00000134982	ENST00000457016	Transcript	missense_variant	6051	5671	1891	E/Q	Gag/Cag	.	.	.	1	APC	HGNC	583	protein_coding	YES	CCDS4107.1	ENSP00000413133	APC_HUMAN	Q9UM98_HUMAN,Q9P119_HUMAN,Q9HAW6_HUMAN,Q4LE70_HUMAN,E9PFT7_HUMAN,D6RFL6_HUMAN,B2ZRE1_HUMAN,A5HB97_HUMAN,A5HB96_HUMAN,A5HB95_HUMAN,A5HB94_HUMAN,A1YIQ7_HUMAN	UPI000013CF60	.	.	benign(0.306)	16/16	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12607,hmmpanther:PTHR12607:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AATCAGAGGCT	.	2	BLCA
DMXL1	0	.	GRCh37	5	118482547	118482547	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2585G>T	p.Gly862Val	p.G862V	ENST00000311085	16/43	44	33	11	58	58	0	DMXL1,missense_variant,p.Gly862Val,ENST00000539542,;DMXL1,missense_variant,p.Gly862Val,ENST00000311085,;DMXL1,non_coding_transcript_exon_variant,,ENST00000512281,;	T	ENSG00000172869	ENST00000311085	Transcript	missense_variant	2665	2585	862	G/V	gGa/gTa	.	.	.	1	DMXL1	HGNC	2937	protein_coding	YES	CCDS4125.1	ENSP00000309690	DMXL1_HUMAN	F1T0K4_HUMAN,E7EMZ0_HUMAN	UPI000013F0EC	.	tolerated(0.15)	benign(0.06)	16/43	.	hmmpanther:PTHR13950,hmmpanther:PTHR13950:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAATGGATTTT	.	5	BLCA
SLC6A18	0	.	GRCh37	5	1239639	1239639	+	Silent	SNP	C	C	T	rs137936927	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807C>T	p.%3D	p.F269F	ENST00000324642	6/12	59	47	12	97	96	1	SLC6A18,synonymous_variant,p.%3D,ENST00000324642,;SLC6A18,synonymous_variant,p.%3D,ENST00000296821,;	T	ENSG00000164363	ENST00000324642	Transcript	synonymous_variant	930	807	269	F	ttC/ttT	rs137936927	.	.	1	SLC6A18	HGNC	26441	protein_coding	YES	CCDS3860.1	ENSP00000323549	S6A18_HUMAN	.	UPI0000197EA2	.	.	.	6/12	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50267,hmmpanther:PTHR11616,hmmpanther:PTHR11616:SF109,Pfam_domain:PF00209,Superfamily_domains:0053687	.	.	.	.	.	.	.	T:0.0011	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTTCGGAGG	byFrequency|byCluster	5	BLCA
ACSL6	0	.	GRCh37	5	131323819	131323819	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753C>T	p.%3D	p.L251L	ENST00000379264	7/21	176	142	34	242	242	0	ACSL6,synonymous_variant,p.%3D,ENST00000379272,;ACSL6,synonymous_variant,p.%3D,ENST00000379240,;ACSL6,synonymous_variant,p.%3D,ENST00000544770,;ACSL6,synonymous_variant,p.%3D,ENST00000379246,;ACSL6,synonymous_variant,p.%3D,ENST00000543479,;ACSL6,synonymous_variant,p.%3D,ENST00000296869,;ACSL6,synonymous_variant,p.%3D,ENST00000379244,;ACSL6,synonymous_variant,p.%3D,ENST00000379249,;ACSL6,synonymous_variant,p.%3D,ENST00000434099,;ACSL6,synonymous_variant,p.%3D,ENST00000379264,;ACSL6,synonymous_variant,p.%3D,ENST00000431707,;ACSL6,synonymous_variant,p.%3D,ENST00000357096,;ACSL6,synonymous_variant,p.%3D,ENST00000379255,;ACSL6,downstream_gene_variant,,ENST00000419502,;ACSL6,downstream_gene_variant,,ENST00000441995,;ACSL6,downstream_gene_variant,,ENST00000430403,;ACSL6,downstream_gene_variant,,ENST00000416557,;ACSL6,downstream_gene_variant,,ENST00000414078,;ACSL6,synonymous_variant,p.%3D,ENST00000413683,;ACSL6,upstream_gene_variant,,ENST00000489047,;	A	ENSG00000164398	ENST00000379264	Transcript	synonymous_variant	862	753	251	L	ctC/ctT	.	.	.	-1	ACSL6	HGNC	16496	protein_coding	YES	CCDS34229.1	ENSP00000368566	ACSL6_HUMAN	G3V1S9_HUMAN,C9JPA5_HUMAN,C9JK59_HUMAN,C9J4I1_HUMAN,C9J3Z0_HUMAN,B3KV64_HUMAN	UPI00004BA928	.	.	.	7/21	.	hmmpanther:PTHR24096,hmmpanther:PTHR24096:SF125,Pfam_domain:PF00501,Gene3D:3.40.50.980,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATGAGGAT	.	5	BLCA
PCDHAC1	0	.	GRCh37	5	140308233	140308233	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1756G>A	p.Glu586Lys	p.E586K	ENST00000253807	1/4	78	62	15	139	139	0	PCDHAC1,missense_variant,p.Glu586Lys,ENST00000253807,;PCDHAC1,missense_variant,p.Glu586Lys,ENST00000409700,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA11,intron_variant,,ENST00000398640,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA12,intron_variant,,ENST00000398631,;PCDHA13,intron_variant,,ENST00000289272,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA9,intron_variant,,ENST00000532602,;PCDHA13,intron_variant,,ENST00000409494,;	A	ENSG00000248383	ENST00000253807	Transcript	missense_variant	1756	1756	586	E/K	Gag/Aag	.	.	.	1	PCDHAC1	HGNC	8676	protein_coding	YES	CCDS4241.1	ENSP00000253807	PCDC1_HUMAN	.	UPI000013CDF7	.	tolerated(0.29)	benign(0.424)	1/4	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF112,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGCAGAGGAT	.	5	BLCA
PCDHB8	0	.	GRCh37	5	140559515	140559515	+	Missense_Mutation	SNP	C	C	T	rs782519470	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1900C>T	p.Arg634Cys	p.R634C	ENST00000239444	1/1	57	41	16	110	110	0	PCDHB8,missense_variant,p.Arg634Cys,ENST00000239444,;PCDHB7,downstream_gene_variant,,ENST00000231137,;PCDHB16,upstream_gene_variant,,ENST00000361016,;	T	ENSG00000120322	ENST00000239444	Transcript	missense_variant	2145	1900	634	R/C	Cgc/Tgc	rs782519470,COSM3851493	.	.	1	PCDHB8	HGNC	8693	protein_coding	YES	CCDS4250.1	ENSP00000239444	PCDB8_HUMAN	.	UPI000013CA80	.	deleterious_low_confidence(0)	probably_damaging(0.999)	1/1	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF89,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGAGCGCGAC	byFrequency	5	BLCA
CAMK2A	0	.	GRCh37	5	149618304	149618304	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1025C>T	p.Ser342Leu	p.S342L	ENST00000398376	15/19	18	12	5	35	35	0	CAMK2A,missense_variant,p.Ser331Leu,ENST00000348628,;CAMK2A,missense_variant,p.Ser342Leu,ENST00000398376,;CAMK2A,non_coding_transcript_exon_variant,,ENST00000351010,;CAMK2A,non_coding_transcript_exon_variant,,ENST00000508662,;	A	ENSG00000070808	ENST00000398376	Transcript	missense_variant	1029	1025	342	S/L	tCa/tTa	.	.	.	-1	CAMK2A	HGNC	1460	protein_coding	YES	CCDS43387.1	ENSP00000381412	KCC2A_HUMAN	D6RHX9_HUMAN,D6RFJ0_HUMAN,A8K161_HUMAN	UPI0000161115	.	deleterious_low_confidence(0)	benign(0.002)	15/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24347:SF158,hmmpanther:PTHR24347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGAGGAT	.	5	BLCA
CCDC69	0	.	GRCh37	5	150584958	150584958	+	Intron	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124+3G>T	.	.	ENST00000355417	.	26	22	4	39	39	0	CCDC69,splice_region_variant,,ENST00000355417,;CCDC69,intron_variant,,ENST00000521308,;CCDC69,downstream_gene_variant,,ENST00000522179,;CCDC69,splice_region_variant,,ENST00000522964,;CCDC69,splice_region_variant,,ENST00000524344,;CCDC69,splice_region_variant,,ENST00000518189,;	A	ENSG00000198624	ENST00000355417	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	CCDC69	HGNC	24487	protein_coding	YES	CCDS4312.1	ENSP00000347586	CCD69_HUMAN	.	UPI000020CFF2	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	CTACTCACCTG	.	2	BLCA
HAND1	0	.	GRCh37	5	153857170	153857170	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>G	p.Ile133Met	p.I133M	ENST00000231121	1/2	63	47	15	74	74	0	HAND1,missense_variant,p.Ile133Met,ENST00000231121,;	C	ENSG00000113196	ENST00000231121	Transcript	missense_variant	655	399	133	I/M	atC/atG	.	.	.	-1	HAND1	HGNC	4807	protein_coding	YES	CCDS4327.1	ENSP00000231121	HAND1_HUMAN	.	UPI000012C083	.	deleterious(0)	probably_damaging(1)	1/2	.	Superfamily_domains:SSF47459,SMART_domains:SM00353,Gene3D:4.10.280.10,Pfam_domain:PF00010,hmmpanther:PTHR23349,hmmpanther:PTHR23349:SF3,PROSITE_profiles:PS50888	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCTTGATCTT	.	5	BLCA
GABRB2	0	.	GRCh37	5	160753407	160753407	+	Missense_Mutation	SNP	G	G	A	rs140795978	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1159C>T	p.Arg387Trp	p.R387W	ENST00000274547	10/11	92	76	16	118	118	0	GABRB2,missense_variant,p.Arg387Trp,ENST00000274547,;GABRB2,missense_variant,p.Arg387Trp,ENST00000393959,;GABRB2,intron_variant,,ENST00000517547,;GABRB2,intron_variant,,ENST00000520240,;GABRB2,intron_variant,,ENST00000353437,;GABRB2,intron_variant,,ENST00000517901,;	A	ENSG00000145864	ENST00000274547	Transcript	missense_variant	1377	1159	387	R/W	Cgg/Tgg	rs140795978,COSM449249	.	.	-1	GABRB2	HGNC	4082	protein_coding	YES	CCDS4355.1	ENSP00000274547	GBRB2_HUMAN	D1M715_HUMAN	UPI000002AA29	.	deleterious(0.02)	benign(0.206)	10/11	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF198,TIGRFAM_domain:TIGR00860,Pfam_domain:PF02932,Superfamily_domains:SSF90112	.	.	.	.	.	.	.	A:0.0002	A:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R387W|c.1159C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCCGTCTAG	byCluster	5	BLCA
GABRA1	0	.	GRCh37	5	161322788	161322788	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.973T>C	p.Phe325Leu	p.F325L	ENST00000428797	10/11	61	50	11	108	108	0	GABRA1,missense_variant,p.Phe325Leu,ENST00000444819,;GABRA1,missense_variant,p.Phe325Leu,ENST00000420560,;GABRA1,missense_variant,p.Phe325Leu,ENST00000393943,;GABRA1,missense_variant,p.Phe325Leu,ENST00000023897,;GABRA1,missense_variant,p.Phe325Leu,ENST00000437025,;GABRA1,missense_variant,p.Phe325Leu,ENST00000428797,;GABRA1,downstream_gene_variant,,ENST00000519542,;	C	ENSG00000022355	ENST00000428797	Transcript	missense_variant	1328	973	325	F/L	Ttc/Ctc	.	.	.	1	GABRA1	HGNC	4075	protein_coding	YES	CCDS4357.1	ENSP00000393097	GBRA1_HUMAN	E5RK60_HUMAN,E5RJS3_HUMAN	UPI000012AF95	.	deleterious(0.03)	probably_damaging(0.973)	10/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF23,Gene3D:1.20.58.390,Pfam_domain:PF02932,TIGRFAM_domain:TIGR00860,Superfamily_domains:SSF90112,Prints_domain:PR00253	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTGTTCTCA	.	5	BLCA
PLEKHG4B	0	.	GRCh37	5	163635	163635	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2380G>A	p.Glu794Lys	p.E794K	ENST00000283426	11/18	9	5	4	9	9	0	PLEKHG4B,missense_variant,p.Glu794Lys,ENST00000283426,;	A	ENSG00000153404	ENST00000283426	Transcript	missense_variant	2430	2380	794	E/K	Gag/Aag	.	.	.	1	PLEKHG4B	HGNC	29399	protein_coding	YES	CCDS34124.1	ENSP00000283426	PKH4B_HUMAN	.	UPI0000D615EE	.	tolerated(0.14)	benign(0.078)	11/18	.	hmmpanther:PTHR22826:SF119,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTGAGGAG	.	2	BLCA
RANBP17	0	.	GRCh37	5	170380643	170380643	+	Missense_Mutation	SNP	G	G	C	rs755224813	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1511G>C	p.Gly504Ala	p.G504A	ENST00000523189	13/28	46	43	3	89	89	0	RANBP17,missense_variant,p.Gly504Ala,ENST00000523189,;RANBP17,non_coding_transcript_exon_variant,,ENST00000520879,;RANBP17,non_coding_transcript_exon_variant,,ENST00000522380,;RANBP17,missense_variant,p.Gly504Ala,ENST00000519949,;RANBP17,missense_variant,p.Gly504Ala,ENST00000389118,;RANBP17,missense_variant,p.Gly504Ala,ENST00000519256,;RANBP17,missense_variant,p.Gly504Ala,ENST00000522533,;RANBP17,missense_variant,p.Gly504Ala,ENST00000522066,;RANBP17,missense_variant,p.Gly482Ala,ENST00000520864,;RANBP17,non_coding_transcript_exon_variant,,ENST00000521165,;	C	ENSG00000204764	ENST00000523189	Transcript	missense_variant	1675	1511	504	G/A	gGa/gCa	rs755224813,COSM737727	.	.	1	RANBP17	HGNC	14428	protein_coding	YES	CCDS34287.1	ENSP00000427975	RBP17_HUMAN	Q546R4_HUMAN,E5RHX1_HUMAN	UPI000000107C	.	tolerated(0.1)	benign(0.011)	13/28	.	Superfamily_domains:SSF48371,hmmpanther:PTHR12596,hmmpanther:PTHR12596:SF8	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTAGGAGGAA	.	2	BLCA
RANBP17	0	.	GRCh37	5	170380672	170380672	+	Nonsense_Mutation	SNP	G	G	T	rs373606129	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1540G>T	p.Glu514Ter	p.E514*	ENST00000523189	13/28	46	42	4	86	86	0	RANBP17,stop_gained,p.Glu514Ter,ENST00000523189,;RANBP17,non_coding_transcript_exon_variant,,ENST00000520879,;RANBP17,non_coding_transcript_exon_variant,,ENST00000522380,;RANBP17,stop_gained,p.Glu514Ter,ENST00000519949,;RANBP17,stop_gained,p.Glu514Ter,ENST00000389118,;RANBP17,stop_gained,p.Glu514Ter,ENST00000519256,;RANBP17,stop_gained,p.Glu514Ter,ENST00000522533,;RANBP17,stop_gained,p.Glu514Ter,ENST00000522066,;RANBP17,stop_gained,p.Glu492Ter,ENST00000520864,;RANBP17,non_coding_transcript_exon_variant,,ENST00000521165,;	T	ENSG00000204764	ENST00000523189	Transcript	stop_gained	1704	1540	514	E/*	Gag/Tag	rs373606129	.	.	1	RANBP17	HGNC	14428	protein_coding	YES	CCDS34287.1	ENSP00000427975	RBP17_HUMAN	Q546R4_HUMAN,E5RHX1_HUMAN	UPI000000107C	.	.	.	13/28	.	Superfamily_domains:SSF48371,hmmpanther:PTHR12596,hmmpanther:PTHR12596:SF8	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGATGAGCAT	byFrequency|byCluster	4	BLCA
RASGEF1C	0	.	GRCh37	5	179546350	179546350	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903C>A	p.%3D	p.I301I	ENST00000393371	7/13	50	34	16	62	62	0	RASGEF1C,synonymous_variant,p.%3D,ENST00000522500,;RASGEF1C,synonymous_variant,p.%3D,ENST00000361132,;RASGEF1C,synonymous_variant,p.%3D,ENST00000393371,;RASGEF1C,non_coding_transcript_exon_variant,,ENST00000519883,;RASGEF1C,upstream_gene_variant,,ENST00000519456,;RASGEF1C,synonymous_variant,p.%3D,ENST00000520209,;	T	ENSG00000146090	ENST00000393371	Transcript	synonymous_variant	1200	903	301	I	atC/atA	.	.	.	-1	RASGEF1C	HGNC	27400	protein_coding	YES	CCDS4452.1	ENSP00000377037	RGF1C_HUMAN	.	UPI0000037308	.	.	.	7/13	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113:SF186,hmmpanther:PTHR23113,Pfam_domain:PF00617,Gene3D:2ii0A02,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATGATGGC	.	5	BLCA
FLT4	0	.	GRCh37	5	180048837	180048837	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1725C>G	p.%3D	p.L575L	ENST00000261937	13/30	67	50	17	107	107	0	FLT4,synonymous_variant,p.%3D,ENST00000502649,;FLT4,synonymous_variant,p.%3D,ENST00000261937,;FLT4,synonymous_variant,p.%3D,ENST00000393347,;FLT4,upstream_gene_variant,,ENST00000512795,;FLT4,non_coding_transcript_exon_variant,,ENST00000424276,;FLT4,non_coding_transcript_exon_variant,,ENST00000507059,;FLT4,upstream_gene_variant,,ENST00000514810,;	C	ENSG00000037280	ENST00000261937	Transcript	synonymous_variant	1804	1725	575	L	ctC/ctG	.	.	.	-1	FLT4	HGNC	3767	protein_coding	YES	CCDS4457.1	ENSP00000261937	VGFR3_HUMAN	D6RFF2_HUMAN	UPI00001488E7	.	.	.	13/30	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF13895,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF49,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAGGAGCAC	.	5	BLCA
MTMR12	0	.	GRCh37	5	32276800	32276800	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130C>T	p.His44Tyr	p.H44Y	ENST00000382142	2/16	44	41	3	74	74	0	MTMR12,missense_variant,p.His44Tyr,ENST00000382142,;MTMR12,missense_variant,p.His44Tyr,ENST00000264934,;MTMR12,missense_variant,p.His44Tyr,ENST00000280285,;MTMR12,3_prime_UTR_variant,,ENST00000513622,;MTMR12,intron_variant,,ENST00000505419,;	A	ENSG00000150712	ENST00000382142	Transcript	missense_variant	301	130	44	H/Y	Cac/Tac	.	.	.	-1	MTMR12	HGNC	18191	protein_coding	YES	CCDS34138.1	ENSP00000371577	MTMRC_HUMAN	.	UPI00001678D2	.	tolerated(1)	benign(0.333)	2/16	.	hmmpanther:PTHR10807,hmmpanther:PTHR10807:SF37,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAAGTGAAGAG	.	2	BLCA
C5orf42	0	.	GRCh37	5	37165751	37165751	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7423G>C	p.Glu2475Gln	p.E2475Q	ENST00000425232	36/52	42	36	6	61	61	0	C5orf42,missense_variant,p.Glu2475Gln,ENST00000508244,;C5orf42,missense_variant,p.Glu2475Gln,ENST00000425232,;C5orf42,missense_variant,p.Glu166Gln,ENST00000511824,;C5orf42,missense_variant,p.Glu1523Gln,ENST00000514429,;C5orf42,missense_variant,p.Glu1355Gln,ENST00000274258,;C5orf42,upstream_gene_variant,,ENST00000511210,;C5orf42,missense_variant,p.Glu1479Gln,ENST00000509849,;C5orf42,downstream_gene_variant,,ENST00000511781,;C5orf42,upstream_gene_variant,,ENST00000510830,;	G	ENSG00000197603	ENST00000425232	Transcript	missense_variant	7654	7423	2475	E/Q	Gag/Cag	.	.	.	-1	C5orf42	HGNC	25801	protein_coding	YES	CCDS34146.2	ENSP00000389014	CE042_HUMAN	.	UPI0001AAB3EA	.	tolerated(0.39)	benign(0.245)	36/52	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14492,hmmpanther:PTHR14492:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCTTTCT	.	5	BLCA
MROH2B	0	.	GRCh37	5	41055864	41055864	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1013G>C	p.Arg338Thr	p.R338T	ENST00000399564	10/42	46	35	10	85	85	0	MROH2B,missense_variant,p.Arg338Thr,ENST00000399564,;MROH2B,intron_variant,,ENST00000506092,;MROH2B,non_coding_transcript_exon_variant,,ENST00000515297,;MROH2B,non_coding_transcript_exon_variant,,ENST00000508575,;MROH2B,upstream_gene_variant,,ENST00000503890,;	G	ENSG00000171495	ENST00000399564	Transcript	missense_variant	1464	1013	338	R/T	aGa/aCa	.	.	.	-1	MROH2B	HGNC	26857	protein_coding	YES	CCDS47202.1	ENSP00000382476	MRO2B_HUMAN	F5GZ06_HUMAN	UPI000020CA04	.	deleterious(0)	benign(0.223)	10/42	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF15,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAATCTTAAC	.	5	BLCA
ZNF131	0	.	GRCh37	5	43161417	43161417	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438G>C	p.Lys146Asn	p.K146N	ENST00000509634	4/7	50	37	13	73	72	0	ZNF131,missense_variant,p.Lys146Asn,ENST00000509634,;ZNF131,missense_variant,p.Lys146Asn,ENST00000399534,;ZNF131,missense_variant,p.Lys146Asn,ENST00000306938,;ZNF131,missense_variant,p.Lys146Asn,ENST00000515326,;ZNF131,missense_variant,p.Lys146Asn,ENST00000509156,;ZNF131,missense_variant,p.Lys146Asn,ENST00000505606,;ZNF131,missense_variant,p.Lys146Asn,ENST00000508259,;ZNF131,intron_variant,,ENST00000509931,;ZNF131,downstream_gene_variant,,ENST00000509341,;ZNF131,non_coding_transcript_exon_variant,,ENST00000504359,;ZNF131,missense_variant,p.Lys146Asn,ENST00000510026,;ZNF131,3_prime_UTR_variant,,ENST00000507218,;ZNF131,intron_variant,,ENST00000511736,;ZNF131,upstream_gene_variant,,ENST00000502623,;	C	ENSG00000172262	ENST00000509634	Transcript	missense_variant	894	438	146	K/N	aaG/aaC	.	.	.	1	ZNF131	HGNC	12915	protein_coding	YES	CCDS43313.1	ENSP00000421246	ZN131_HUMAN	D6RFI6_HUMAN,D6RBK1_HUMAN,D6RAT8_HUMAN,D6R9I2_HUMAN	UPI000013F57D	.	deleterious(0.01)	probably_damaging(0.997)	4/7	.	hmmpanther:PTHR10032:SF26,hmmpanther:PTHR10032	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAAGATTGC	.	5	BLCA
SLC9A3	0	.	GRCh37	5	476392	476392	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1992C>T	p.%3D	p.F664F	ENST00000264938	13/17	55	42	13	90	90	0	SLC9A3,synonymous_variant,p.%3D,ENST00000514375,;SLC9A3,synonymous_variant,p.%3D,ENST00000264938,;CTD-2228K2.5,upstream_gene_variant,,ENST00000510604,;CTD-2228K2.5,upstream_gene_variant,,ENST00000342584,;CTD-2228K2.7,non_coding_transcript_exon_variant,,ENST00000606319,;CTD-2228K2.7,non_coding_transcript_exon_variant,,ENST00000607286,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606288,;CTD-2228K2.7,upstream_gene_variant,,ENST00000607005,;CTD-2228K2.7,upstream_gene_variant,,ENST00000431004,;CTD-2228K2.5,upstream_gene_variant,,ENST00000510714,;EXOC3,downstream_gene_variant,,ENST00000509294,;CTD-2228K2.5,upstream_gene_variant,,ENST00000502511,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606107,;EXOC3,downstream_gene_variant,,ENST00000515601,;EXOC3,downstream_gene_variant,,ENST00000503889,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606074,;CTD-2228K2.7,upstream_gene_variant,,ENST00000534918,;SLC9A3,downstream_gene_variant,,ENST00000507407,;	A	ENSG00000066230	ENST00000264938	Transcript	synonymous_variant	2002	1992	664	F	ttC/ttT	.	.	.	-1	SLC9A3	HGNC	11073	protein_coding	YES	CCDS3855.1	ENSP00000264938	SL9A3_HUMAN	.	UPI000013D597	.	.	.	13/17	.	hmmpanther:PTHR10110:SF90,hmmpanther:PTHR10110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTGAAGGA	.	5	BLCA
PARP8	0	.	GRCh37	5	50073937	50073937	+	Silent	SNP	C	C	T	rs764522092	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553C>T	p.%3D	p.L185L	ENST00000281631	8/26	29	21	8	47	47	0	PARP8,synonymous_variant,p.%3D,ENST00000503750,;PARP8,synonymous_variant,p.%3D,ENST00000514067,;PARP8,synonymous_variant,p.%3D,ENST00000515175,;PARP8,synonymous_variant,p.%3D,ENST00000505697,;PARP8,synonymous_variant,p.%3D,ENST00000281631,;PARP8,synonymous_variant,p.%3D,ENST00000505554,;PARP8,5_prime_UTR_variant,,ENST00000514342,;PARP8,non_coding_transcript_exon_variant,,ENST00000511363,;PARP8,non_coding_transcript_exon_variant,,ENST00000503561,;PARP8,non_coding_transcript_exon_variant,,ENST00000503790,;PARP8,synonymous_variant,p.%3D,ENST00000515166,;	T	ENSG00000151883	ENST00000281631	Transcript	synonymous_variant	711	553	185	L	Ctg/Ttg	rs764522092	.	.	1	PARP8	HGNC	26124	protein_coding	YES	CCDS3954.1	ENSP00000281631	PARP8_HUMAN	D6RGZ9_HUMAN	UPI0000073D19	.	.	.	8/26	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21328,hmmpanther:PTHR21328:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGATCTGCAT	.	5	BLCA
ISL1	0	.	GRCh37	5	50685712	50685712	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711G>C	p.Lys237Asn	p.K237N	ENST00000230658	4/6	21	14	7	32	32	0	ISL1,missense_variant,p.Lys237Asn,ENST00000511384,;ISL1,missense_variant,p.Lys237Asn,ENST00000230658,;ISL1,non_coding_transcript_exon_variant,,ENST00000505475,;	C	ENSG00000016082	ENST00000230658	Transcript	missense_variant	1296	711	237	K/N	aaG/aaC	.	.	.	1	ISL1	HGNC	6132	protein_coding	YES	CCDS43314.1	ENSP00000230658	ISL1_HUMAN	.	UPI0000023E3A	.	deleterious(0)	probably_damaging(0.993)	4/6	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24204,PROSITE_patterns:PS00027,Gene3D:1.10.10.60,Pfam_domain:PF00046,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAAGAAGCG	.	5	BLCA
MOCS2	0	.	GRCh37	5	52404443	52404443	+	5'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-139G>C	.	.	ENST00000396954	2/7	30	24	6	47	47	0	MOCS2,missense_variant,p.Glu17Gln,ENST00000450852,;MOCS2,missense_variant,p.Glu17Gln,ENST00000510818,;MOCS2,missense_variant,p.Glu17Gln,ENST00000361377,;MOCS2,missense_variant,p.Glu17Gln,ENST00000584946,;MOCS2,missense_variant,p.Glu17Gln,ENST00000508922,;MOCS2,missense_variant,p.Glu12Gln,ENST00000527216,;MOCS2,missense_variant,p.Glu17Gln,ENST00000582677,;MOCS2,5_prime_UTR_variant,,ENST00000396954,;CTD-2366F13.1,upstream_gene_variant,,ENST00000499459,;CTD-2366F13.1,upstream_gene_variant,,ENST00000512301,;CTD-2366F13.1,upstream_gene_variant,,ENST00000502171,;MOCS2,non_coding_transcript_exon_variant,,ENST00000514553,;MOCS2,upstream_gene_variant,,ENST00000502402,;	G	ENSG00000164172	ENST00000396954	Transcript	5_prime_UTR_variant	540	.	.	.	.	.	.	.	-1	MOCS2	HGNC	7193	protein_coding	YES	CCDS3958.1	ENSP00000380157	MOC2B_HUMAN	.	UPI000000DB29	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATTTCAGCAC	.	5	BLCA
DHX29	0	.	GRCh37	5	54603428	54603428	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-27C>G	.	.	ENST00000251636	1/27	65	50	15	77	77	0	DHX29,5_prime_UTR_variant,,ENST00000251636,;DHX29,upstream_gene_variant,,ENST00000508346,;SKIV2L2,upstream_gene_variant,,ENST00000230640,;SKIV2L2,upstream_gene_variant,,ENST00000545714,;SKIV2L2,upstream_gene_variant,,ENST00000503165,;SKIV2L2,upstream_gene_variant,,ENST00000504997,;SKIV2L2,upstream_gene_variant,,ENST00000504388,;DHX29,non_coding_transcript_exon_variant,,ENST00000504778,;SKIV2L2,upstream_gene_variant,,ENST00000506750,;	C	ENSG00000067248	ENST00000251636	Transcript	5_prime_UTR_variant	123	.	.	.	.	.	.	.	-1	DHX29	HGNC	15815	protein_coding	YES	CCDS34158.1	ENSP00000251636	DHX29_HUMAN	.	UPI00001AE72C	.	.	.	1/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTCGCGGCC	.	2	BLCA
SKIV2L2	0	.	GRCh37	5	54649077	54649077	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1513G>C	p.Asp505His	p.D505H	ENST00000230640	14/27	89	68	20	111	111	0	SKIV2L2,missense_variant,p.Asp404His,ENST00000545714,;SKIV2L2,missense_variant,p.Asp505His,ENST00000230640,;SKIV2L2,3_prime_UTR_variant,,ENST00000506750,;RP11-506H20.2,downstream_gene_variant,,ENST00000605749,;	C	ENSG00000039123	ENST00000230640	Transcript	missense_variant	1767	1513	505	D/H	Gat/Cat	COSM1544294,COSM1544293	.	.	1	SKIV2L2	HGNC	18734	protein_coding	YES	CCDS3967.1	ENSP00000230640	SK2L2_HUMAN	.	UPI000020C772	.	deleterious(0)	probably_damaging(1)	14/27	.	PROSITE_profiles:PS51194,hmmpanther:PTHR11752,hmmpanther:PTHR11752:SF54,Pfam_domain:PF00271,Gene3D:3.40.50.300,PIRSF_domain:PIRSF005198,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTTGATGGG	.	5	BLCA
MAP3K1	0	.	GRCh37	5	56171087	56171087	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1915C>T	p.%3D	p.L639L	ENST00000399503	10/20	44	34	9	57	57	0	MAP3K1,synonymous_variant,p.%3D,ENST00000399503,;	T	ENSG00000095015	ENST00000399503	Transcript	synonymous_variant	1915	1915	639	L	Ctg/Ttg	.	.	.	1	MAP3K1	HGNC	6848	protein_coding	YES	CCDS43318.1	ENSP00000382423	M3K1_HUMAN	.	UPI000015153B	.	.	.	10/20	.	hmmpanther:PTHR24361:SF255,hmmpanther:PTHR24361,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGTTCTGTCA	.	5	BLCA
DIMT1	0	.	GRCh37	5	61694367	61694367	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>G	p.Phe139Leu	p.F139L	ENST00000199320	6/12	129	103	25	163	162	1	DIMT1,missense_variant,p.Phe139Leu,ENST00000199320,;DIMT1,missense_variant,p.Phe139Leu,ENST00000506390,;KIF2A,intron_variant,,ENST00000509663,;DIMT1,missense_variant,p.Phe139Leu,ENST00000514911,;DIMT1,non_coding_transcript_exon_variant,,ENST00000509182,;	C	ENSG00000086189	ENST00000199320	Transcript	missense_variant	578	417	139	F/L	ttC/ttG	.	.	.	-1	DIMT1	HGNC	30217	protein_coding	YES	CCDS3981.1	ENSP00000199320	DIM1_HUMAN	B4DRY2_HUMAN	UPI00001293E2	.	deleterious(0)	probably_damaging(0.985)	6/12	.	PROSITE_profiles:PS51689,hmmpanther:PTHR11727,TIGRFAM_domain:TIGR00755,Gene3D:3.40.50.150,Pfam_domain:PF00398,SMART_domains:SM00650,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTTGAAGAC	.	5	BLCA
FCHO2	0	.	GRCh37	5	72359714	72359714	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1392G>A	p.%3D	p.P464P	ENST00000430046	18/26	21	17	4	27	27	0	FCHO2,synonymous_variant,p.%3D,ENST00000512348,;FCHO2,synonymous_variant,p.%3D,ENST00000341845,;FCHO2,synonymous_variant,p.%3D,ENST00000430046,;FCHO2,non_coding_transcript_exon_variant,,ENST00000508431,;	A	ENSG00000157107	ENST00000430046	Transcript	synonymous_variant	1508	1392	464	P	ccG/ccA	.	.	.	1	FCHO2	HGNC	25180	protein_coding	YES	CCDS47230.1	ENSP00000393776	FCHO2_HUMAN	B4DEU7_HUMAN	UPI000019971A	.	.	.	18/26	.	hmmpanther:PTHR23065,hmmpanther:PTHR23065:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCCGAGGCC	.	4	BLCA
CMYA5	0	.	GRCh37	5	79034076	79034076	+	Missense_Mutation	SNP	G	G	A	rs769260361	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9488G>A	p.Gly3163Glu	p.G3163E	ENST00000446378	2/13	36	28	7	43	43	0	CMYA5,missense_variant,p.Gly3163Glu,ENST00000446378,;CMYA5,non_coding_transcript_exon_variant,,ENST00000506603,;	A	ENSG00000164309	ENST00000446378	Transcript	missense_variant	9519	9488	3163	G/E	gGa/gAa	rs769260361,COSM3618226,COSM3618225	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	benign(0.013)	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAAGGAGTTC	.	5	BLCA
ZFYVE16	0	.	GRCh37	5	79751510	79751510	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3608-1G>T	.	p.X1203_splice	ENST00000338008	.	68	57	11	87	87	0	ZFYVE16,splice_acceptor_variant,,ENST00000338008,;ZFYVE16,splice_acceptor_variant,,ENST00000505560,;ZFYVE16,splice_acceptor_variant,,ENST00000510158,;ZFYVE16,splice_acceptor_variant,,ENST00000511829,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000512907,;ZFYVE16,upstream_gene_variant,,ENST00000513789,;ZFYVE16,downstream_gene_variant,,ENST00000512558,;	T	ENSG00000039319	ENST00000338008	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ZFYVE16	HGNC	20756	protein_coding	YES	CCDS4050.1	ENSP00000337159	ZFY16_HUMAN	B3KXA7_HUMAN	UPI000013F4A0	.	.	.	.	10/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTATAGCATAT	.	4	BLCA
ACOT12	0	.	GRCh37	5	80681642	80681642	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131A>T	p.Glu44Val	p.E44V	ENST00000307624	2/15	24	21	3	27	27	0	ACOT12,missense_variant,p.Glu44Val,ENST00000307624,;ACOT12,missense_variant,p.Glu44Val,ENST00000513751,;	A	ENSG00000172497	ENST00000307624	Transcript	missense_variant	160	131	44	E/V	gAg/gTg	.	.	.	-1	ACOT12	HGNC	24436	protein_coding	YES	CCDS4055.1	ENSP00000303246	ACO12_HUMAN	.	UPI0000126D7B	.	deleterious(0)	probably_damaging(1)	2/15	.	hmmpanther:PTHR11049,hmmpanther:PTHR11049:SF3,Pfam_domain:PF03061,Gene3D:3.10.129.10,Superfamily_domains:SSF54637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTCTCAGCT	.	2	BLCA
ACOT12	0	.	GRCh37	5	80681643	80681643	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130G>C	p.Glu44Gln	p.E44Q	ENST00000307624	2/15	24	21	3	25	25	0	ACOT12,missense_variant,p.Glu44Gln,ENST00000307624,;ACOT12,missense_variant,p.Glu44Gln,ENST00000513751,;	G	ENSG00000172497	ENST00000307624	Transcript	missense_variant	159	130	44	E/Q	Gag/Cag	.	.	.	-1	ACOT12	HGNC	24436	protein_coding	YES	CCDS4055.1	ENSP00000303246	ACO12_HUMAN	.	UPI0000126D7B	.	deleterious(0)	probably_damaging(1)	2/15	.	hmmpanther:PTHR11049,hmmpanther:PTHR11049:SF3,Pfam_domain:PF03061,Gene3D:3.10.129.10,Superfamily_domains:SSF54637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCTCAGCTT	.	2	BLCA
VCAN	0	.	GRCh37	5	82835730	82835730	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6908G>A	p.Arg2303Lys	p.R2303K	ENST00000265077	8/15	57	50	7	87	87	0	VCAN,missense_variant,p.Arg2303Lys,ENST00000265077,;VCAN,missense_variant,p.Arg1316Lys,ENST00000343200,;VCAN,intron_variant,,ENST00000342785,;VCAN,intron_variant,,ENST00000502527,;VCAN,intron_variant,,ENST00000512590,;VCAN,downstream_gene_variant,,ENST00000513960,;VCAN-AS1,intron_variant,,ENST00000512090,;VCAN-AS1,downstream_gene_variant,,ENST00000513899,;VCAN,non_coding_transcript_exon_variant,,ENST00000513016,;VCAN,upstream_gene_variant,,ENST00000507162,;VCAN,downstream_gene_variant,,ENST00000515397,;	A	ENSG00000038427	ENST00000265077	Transcript	missense_variant	7473	6908	2303	R/K	aGa/aAa	.	.	.	1	VCAN	HGNC	2464	protein_coding	YES	CCDS4060.1	ENSP00000265077	CSPG2_HUMAN	.	UPI000013178B	.	tolerated(0.93)	benign(0.076)	8/15	.	hmmpanther:PTHR22804:SF6,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAACAGAATGG	.	4	BLCA
BRD9	0	.	GRCh37	5	887482	887482	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711G>A	p.Met237Ile	p.M237I	ENST00000467963	6/16	92	73	19	123	123	0	BRD9,missense_variant,p.Met237Ile,ENST00000467963,;BRD9,missense_variant,p.Met121Ile,ENST00000323510,;BRD9,missense_variant,p.Met121Ile,ENST00000489093,;BRD9,missense_variant,p.Met121Ile,ENST00000388890,;BRD9,missense_variant,p.Met121Ile,ENST00000435709,;BRD9,missense_variant,p.Met184Ile,ENST00000483173,;BRD9,upstream_gene_variant,,ENST00000519838,;BRD9,upstream_gene_variant,,ENST00000494422,;BRD9,3_prime_UTR_variant,,ENST00000489816,;BRD9,3_prime_UTR_variant,,ENST00000466684,;BRD9,3_prime_UTR_variant,,ENST00000495265,;BRD9,3_prime_UTR_variant,,ENST00000490814,;BRD9,non_coding_transcript_exon_variant,,ENST00000495794,;BRD9,downstream_gene_variant,,ENST00000487688,;BRD9,upstream_gene_variant,,ENST00000475706,;	T	ENSG00000028310	ENST00000467963	Transcript	missense_variant	878	711	237	M/I	atG/atA	.	.	.	-1	BRD9	HGNC	25818	protein_coding	YES	CCDS34127.2	ENSP00000419765	BRD9_HUMAN	.	UPI000020BEBE	.	deleterious(0.01)	benign(0.057)	6/16	.	Superfamily_domains:SSF47370,SMART_domains:SM00297,Gene3D:1.20.920.10,hmmpanther:PTHR22881,hmmpanther:PTHR22881:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGCTCATCAT	.	3	BLCA
CHD1	0	.	GRCh37	5	98217734	98217734	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2812C>G	p.Gln938Glu	p.Q938E	ENST00000284049	19/35	71	60	11	77	77	0	CHD1,missense_variant,p.Gln938Glu,ENST00000284049,;CHD1,non_coding_transcript_exon_variant,,ENST00000511628,;CHD1,downstream_gene_variant,,ENST00000505982,;	C	ENSG00000153922	ENST00000284049	Transcript	missense_variant	2962	2812	938	Q/E	Caa/Gaa	.	.	.	-1	CHD1	HGNC	1915	protein_coding	YES	CCDS34204.1	ENSP00000284049	CHD1_HUMAN	.	UPI000013DD75	.	deleterious(0)	probably_damaging(0.962)	19/35	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,hmmpanther:PTHR10799:SF535,hmmpanther:PTHR10799,PROSITE_profiles:PS51194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTGAATTA	.	4	BLCA
CHD1	0	.	GRCh37	5	98218870	98218872	+	In_Frame_Del	DEL	AAC	AAC	-	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	AAC	AAC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2638_2640delGTT	p.Val880del	p.V880del	ENST00000284049	18/35	35	24	11	49	49	0	CHD1,inframe_deletion,p.Val880del,ENST00000284049,;CHD1,non_coding_transcript_exon_variant,,ENST00000511628,;CHD1,non_coding_transcript_exon_variant,,ENST00000505982,;	-	ENSG00000153922	ENST00000284049	Transcript	inframe_deletion	2788-2790	2638-2640	880	V/-	GTT/-	.	.	.	-1	CHD1	HGNC	1915	protein_coding	YES	CCDS34204.1	ENSP00000284049	CHD1_HUMAN	.	UPI000013DD75	.	.	.	18/35	.	Superfamily_domains:SSF52540,SMART_domains:SM00490,Gene3D:3.40.50.300,Pfam_domain:PF00271,hmmpanther:PTHR10799:SF535,hmmpanther:PTHR10799,PROSITE_profiles:PS51194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAATATAACAACAG	.	3	BLCA
GPR6	0	.	GRCh37	6	110301403	110301403	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088G>A	p.%3D	p.%3D	ENST00000275169	1/1	90	69	21	93	93	0	GPR6,stop_retained_variant,p.%3D,ENST00000414000,;GPR6,stop_retained_variant,p.%3D,ENST00000275169,;	A	ENSG00000146360	ENST00000275169	Transcript	stop_retained_variant	1106	1088	363	*	tGa/tAa	.	.	.	1	GPR6	HGNC	4515	protein_coding	YES	CCDS5079.1	ENSP00000275169	GPR6_HUMAN	F1DAM6_HUMAN,E7EP76_HUMAN	UPI000000DA4A	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTGAAGGG	.	5	BLCA
WASF1	0	.	GRCh37	6	110421781	110421781	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624G>A	p.Glu542Lys	p.E542K	ENST00000392589	11/11	49	40	9	56	56	0	WASF1,missense_variant,p.Glu542Lys,ENST00000392586,;WASF1,missense_variant,p.Glu542Lys,ENST00000359451,;WASF1,missense_variant,p.Glu542Lys,ENST00000392588,;WASF1,missense_variant,p.Glu542Lys,ENST00000392587,;WASF1,missense_variant,p.Glu542Lys,ENST00000392589,;	T	ENSG00000112290	ENST00000392589	Transcript	missense_variant	2461	1624	542	E/K	Gaa/Aaa	.	.	.	-1	WASF1	HGNC	12732	protein_coding	YES	CCDS5080.1	ENSP00000376368	WASF1_HUMAN	Q5SZK5_HUMAN,Q5SZK4_HUMAN,Q5SZK3_HUMAN	UPI000003AC31	.	deleterious(0)	probably_damaging(0.98)	11/11	.	hmmpanther:PTHR12902	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATATTCAACAG	.	4	BLCA
FRK	0	.	GRCh37	6	116265446	116265446	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1101C>G	p.Ile367Met	p.I367M	ENST00000606080	6/8	78	65	12	118	118	0	FRK,missense_variant,p.Ile367Met,ENST00000606080,;FRK,missense_variant,p.Ile225Met,ENST00000538210,;	C	ENSG00000111816	ENST00000606080	Transcript	missense_variant	1548	1101	367	I/M	atC/atG	.	.	.	-1	FRK	HGNC	3955	protein_coding	YES	CCDS5103.1	ENSP00000476145	FRK_HUMAN	.	UPI000012AC35	.	tolerated(0.1)	benign(0.411)	6/8	.	Superfamily_domains:SSF56112,SMART_domains:SM00219,Pfam_domain:PF07714,Gene3D:1.10.510.10,hmmpanther:PTHR24418:SF22,hmmpanther:PTHR24418,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTAGATATT	.	5	BLCA
HIVEP1	0	.	GRCh37	6	12125927	12125927	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5899G>A	p.Asp1967Asn	p.D1967N	ENST00000379388	4/9	69	52	17	85	85	0	HIVEP1,missense_variant,p.Asp1967Asn,ENST00000379388,;HIVEP1,intron_variant,,ENST00000442081,;HIVEP1,upstream_gene_variant,,ENST00000541134,;HIVEP1,upstream_gene_variant,,ENST00000399469,;	A	ENSG00000095951	ENST00000379388	Transcript	missense_variant	6231	5899	1967	D/N	Gat/Aat	.	.	.	1	HIVEP1	HGNC	4920	protein_coding	YES	CCDS43426.1	ENSP00000368698	ZEP1_HUMAN	C9JZF8_HUMAN,C9JAW2_HUMAN,C9J2N3_HUMAN	UPI000020D52B	.	tolerated(0.32)	benign(0.032)	4/9	.	hmmpanther:PTHR23233:SF48,hmmpanther:PTHR23233	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATACTGATTGG	.	5	BLCA
SOGA3	0	.	GRCh37	6	127797104	127797104	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2067C>G	p.Ser689Arg	p.S689R	ENST00000556132	6/12	68	55	12	137	137	0	SOGA3,missense_variant,p.Ser689Arg,ENST00000525778,;SOGA3,missense_variant,p.Ser689Arg,ENST00000556132,;SOGA3,missense_variant,p.Ser689Arg,ENST00000465909,;SOGA3,missense_variant,p.Ser689Arg,ENST00000368268,;SOGA3,upstream_gene_variant,,ENST00000474293,;SOGA3,missense_variant,p.Ser36Arg,ENST00000473298,;SOGA3,missense_variant,p.Ser689Arg,ENST00000481848,;SOGA3,upstream_gene_variant,,ENST00000464495,;	C	ENSG00000214338	ENST00000556132	Transcript	missense_variant	2932	2067	689	S/R	agC/agG	.	.	.	-1	SOGA3	HGNC	21494	protein_coding	YES	CCDS43505.1	ENSP00000451768	SOGA3_HUMAN	A5PLQ8_HUMAN	UPI0000419273	.	tolerated(0.32)	benign(0.289)	6/12	.	hmmpanther:PTHR15742,hmmpanther:PTHR15742:SF2,Pfam_domain:PF11365	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCGCGCTGTC	.	5	BLCA
MED23	0	.	GRCh37	6	131926586	131926586	+	Missense_Mutation	SNP	C	C	T	rs757330070	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1407G>A	p.Met469Ile	p.M469I	ENST00000368068	14/29	27	23	4	51	51	0	MED23,missense_variant,p.Met110Ile,ENST00000545957,;MED23,missense_variant,p.Met469Ile,ENST00000368068,;MED23,missense_variant,p.Met475Ile,ENST00000354577,;MED23,missense_variant,p.Met475Ile,ENST00000403834,;MED23,missense_variant,p.Met469Ile,ENST00000368060,;MED23,missense_variant,p.Met475Ile,ENST00000540546,;MED23,missense_variant,p.Met475Ile,ENST00000368058,;MED23,missense_variant,p.Met475Ile,ENST00000368053,;MED23,intron_variant,,ENST00000539158,;	T	ENSG00000112282	ENST00000368068	Transcript	missense_variant	1587	1407	469	M/I	atG/atA	rs757330070	.	.	-1	MED23	HGNC	2372	protein_coding	YES	CCDS5147.1	ENSP00000357047	MED23_HUMAN	B9TX51_HUMAN	UPI000012855F	.	tolerated(0.15)	benign(0.174)	14/29	.	hmmpanther:PTHR12691,hmmpanther:PTHR12691:SF10,Pfam_domain:PF11573	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCATTCATCTG	.	2	BLCA
MED23	0	.	GRCh37	6	131926605	131926605	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1388G>C	p.Arg463Thr	p.R463T	ENST00000368068	14/29	26	23	3	43	43	0	MED23,missense_variant,p.Arg104Thr,ENST00000545957,;MED23,missense_variant,p.Arg463Thr,ENST00000368068,;MED23,missense_variant,p.Arg469Thr,ENST00000354577,;MED23,missense_variant,p.Arg469Thr,ENST00000403834,;MED23,missense_variant,p.Arg463Thr,ENST00000368060,;MED23,missense_variant,p.Arg469Thr,ENST00000540546,;MED23,missense_variant,p.Arg469Thr,ENST00000368058,;MED23,missense_variant,p.Arg469Thr,ENST00000368053,;MED23,intron_variant,,ENST00000539158,;	G	ENSG00000112282	ENST00000368068	Transcript	missense_variant	1568	1388	463	R/T	aGa/aCa	.	.	.	-1	MED23	HGNC	2372	protein_coding	YES	CCDS5147.1	ENSP00000357047	MED23_HUMAN	B9TX51_HUMAN	UPI000012855F	.	tolerated(0.61)	probably_damaging(0.994)	14/29	.	hmmpanther:PTHR12691,hmmpanther:PTHR12691:SF10,Pfam_domain:PF11573	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATTTCTTAGA	.	2	BLCA
NOL7	0	.	GRCh37	6	13620485	13620485	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546G>C	p.%3D	p.L182L	ENST00000451315	6/8	86	80	6	94	94	0	NOL7,synonymous_variant,p.%3D,ENST00000451315,;AL441883.1,synonymous_variant,p.%3D,ENST00000600057,;RANBP9,downstream_gene_variant,,ENST00000011619,;NOL7,downstream_gene_variant,,ENST00000420088,;RANBP9,downstream_gene_variant,,ENST00000539980,;NOL7,non_coding_transcript_exon_variant,,ENST00000474485,;RANBP9,downstream_gene_variant,,ENST00000469916,;	C	ENSG00000225921	ENST00000451315	Transcript	synonymous_variant	578	546	182	L	ctG/ctC	.	.	.	1	NOL7	HGNC	21040	protein_coding	YES	CCDS4528.1	ENSP00000405674	NOL7_HUMAN	.	UPI000007196C	.	.	.	6/8	.	hmmpanther:PTHR32337,Pfam_domain:PF08157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATCTGAGAGA	.	2	BLCA
BCLAF1	0	.	GRCh37	6	136596746	136596746	+	Silent	SNP	A	A	T	rs754957085	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1776T>A	p.%3D	p.I592I	ENST00000531224	6/13	119	107	11	163	163	0	BCLAF1,synonymous_variant,p.%3D,ENST00000529826,;BCLAF1,synonymous_variant,p.%3D,ENST00000527536,;BCLAF1,synonymous_variant,p.%3D,ENST00000392348,;BCLAF1,synonymous_variant,p.%3D,ENST00000530767,;BCLAF1,synonymous_variant,p.%3D,ENST00000531224,;BCLAF1,synonymous_variant,p.%3D,ENST00000353331,;BCLAF1,synonymous_variant,p.%3D,ENST00000527759,;BCLAF1,synonymous_variant,p.%3D,ENST00000527613,;BCLAF1,synonymous_variant,p.%3D,ENST00000534269,;BCLAF1,synonymous_variant,p.%3D,ENST00000530429,;BCLAF1,synonymous_variant,p.%3D,ENST00000532384,;BCLAF1,3_prime_UTR_variant,,ENST00000533621,;BCLAF1,upstream_gene_variant,,ENST00000476194,;BCLAF1,upstream_gene_variant,,ENST00000532076,;BCLAF1,upstream_gene_variant,,ENST00000534792,;BCLAF1,downstream_gene_variant,,ENST00000528229,;	T	ENSG00000029363	ENST00000531224	Transcript	synonymous_variant	2029	1776	592	I	atT/atA	rs754957085	.	.	-1	BCLAF1	HGNC	16863	protein_coding	YES	CCDS5177.1	ENSP00000435210	BCLF1_HUMAN	B0AZU3_HUMAN	UPI000006FCE7	.	.	.	6/13	.	Pfam_domain:PF15440,hmmpanther:PTHR15268,hmmpanther:PTHR15268:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTTAATGTG	.	4	BLCA
LTV1	0	.	GRCh37	6	144183372	144183372	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1055C>G	p.Ser352Cys	p.S352C	ENST00000367576	8/11	44	39	5	68	68	0	LTV1,missense_variant,p.Ser352Cys,ENST00000367576,;ZC2HC1B,upstream_gene_variant,,ENST00000539295,;ZC2HC1B,upstream_gene_variant,,ENST00000237275,;RP3-468K18.6,upstream_gene_variant,,ENST00000604280,;	G	ENSG00000135521	ENST00000367576	Transcript	missense_variant	1189	1055	352	S/C	tCt/tGt	.	.	.	1	LTV1	HGNC	21173	protein_coding	YES	CCDS5201.1	ENSP00000356548	LTV1_HUMAN	.	UPI0000039EA5	.	deleterious(0)	probably_damaging(0.997)	8/11	.	Pfam_domain:PF04180,hmmpanther:PTHR21531	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAATCTATTT	.	4	BLCA
SYNE1	0	.	GRCh37	6	152552568	152552568	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20997G>C	p.Met6999Ile	p.M6999I	ENST00000367255	114/146	65	51	14	110	110	0	SYNE1,missense_variant,p.Met1523Ile,ENST00000356820,;SYNE1,missense_variant,p.Met6928Ile,ENST00000448038,;SYNE1,missense_variant,p.Met6999Ile,ENST00000367255,;SYNE1,missense_variant,p.Met6928Ile,ENST00000423061,;SYNE1,missense_variant,p.Met6611Ile,ENST00000341594,;SYNE1,missense_variant,p.Met6999Ile,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000367256,;SYNE1,non_coding_transcript_exon_variant,,ENST00000409694,;	G	ENSG00000131018	ENST00000367255	Transcript	missense_variant	21599	20997	6999	M/I	atG/atC	.	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	benign(0.394)	114/146	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Gene3D:1.20.58.60,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATTCATTGC	.	5	BLCA
SYNE1	0	.	GRCh37	6	152787177	152787177	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1669G>A	p.Glu557Lys	p.E557K	ENST00000367255	17/146	49	41	8	56	56	0	SYNE1,missense_variant,p.Glu557Lys,ENST00000466159,;SYNE1,missense_variant,p.Glu564Lys,ENST00000423061,;SYNE1,missense_variant,p.Glu540Lys,ENST00000537750,;SYNE1,missense_variant,p.Glu557Lys,ENST00000367255,;SYNE1,missense_variant,p.Glu557Lys,ENST00000413186,;SYNE1,missense_variant,p.Glu564Lys,ENST00000341594,;SYNE1,missense_variant,p.Glu547Lys,ENST00000367248,;SYNE1,missense_variant,p.Glu124Lys,ENST00000495090,;SYNE1,missense_variant,p.Glu564Lys,ENST00000448038,;SYNE1,missense_variant,p.Glu557Lys,ENST00000367253,;SYNE1,missense_variant,p.Glu557Lys,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000535896,;SYNE1,non_coding_transcript_exon_variant,,ENST00000481502,;SYNE1,upstream_gene_variant,,ENST00000498751,;SYNE1,3_prime_UTR_variant,,ENST00000474655,;SYNE1,non_coding_transcript_exon_variant,,ENST00000468937,;SYNE1,non_coding_transcript_exon_variant,,ENST00000461872,;	T	ENSG00000131018	ENST00000367255	Transcript	missense_variant	2271	1669	557	E/K	Gag/Aag	COSM164730,COSM164731	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	probably_damaging(0.956)	17/146	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCATATT	.	5	BLCA
TULP4	0	.	GRCh37	6	158922810	158922810	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2115G>A	p.%3D	p.Q705Q	ENST00000367097	13/14	61	46	14	94	94	0	TULP4,synonymous_variant,p.%3D,ENST00000367097,;TULP4,intron_variant,,ENST00000367094,;	A	ENSG00000130338	ENST00000367097	Transcript	synonymous_variant	3472	2115	705	Q	caG/caA	.	.	.	1	TULP4	HGNC	15530	protein_coding	YES	CCDS34561.1	ENSP00000356064	TULP4_HUMAN	.	UPI000013CD76	.	.	.	13/14	.	hmmpanther:PTHR16517,hmmpanther:PTHR16517:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGCAGAGCAT	.	5	BLCA
FNDC1	0	.	GRCh37	6	159682278	159682278	+	Missense_Mutation	SNP	C	C	T	rs369189702	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5231C>T	p.Ser1744Leu	p.S1744L	ENST00000297267	19/23	51	41	9	51	51	0	FNDC1,missense_variant,p.Ser1681Leu,ENST00000340366,;FNDC1,missense_variant,p.Ser1744Leu,ENST00000297267,;FNDC1,missense_variant,p.Ser1640Leu,ENST00000329629,;	T	ENSG00000164694	ENST00000297267	Transcript	missense_variant	5431	5231	1744	S/L	tCg/tTg	rs369189702	.	.	1	FNDC1	HGNC	21184	protein_coding	YES	CCDS47512.1	ENSP00000297267	FNDC1_HUMAN	.	UPI0000579B80	.	deleterious(0)	probably_damaging(0.914)	19/23	.	PROSITE_profiles:PS50853,hmmpanther:PTHR23197:SF8,hmmpanther:PTHR23197,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTCGGTCT	byFrequency|byCluster	5	BLCA
ATXN1	0	.	GRCh37	6	16306794	16306794	+	Silent	SNP	G	G	C	rs377559897	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2214C>G	p.%3D	p.L738L	ENST00000244769	9/9	44	37	7	75	74	0	ATXN1,synonymous_variant,p.%3D,ENST00000244769,;ATXN1,synonymous_variant,p.%3D,ENST00000436367,;	C	ENSG00000124788	ENST00000244769	Transcript	synonymous_variant	3151	2214	738	L	ctC/ctG	rs377559897	.	.	-1	ATXN1	HGNC	10548	protein_coding	YES	CCDS34342.1	ENSP00000244769	ATX1_HUMAN	.	UPI000013CB8B	.	.	.	9/9	.	hmmpanther:PTHR13392:SF5,hmmpanther:PTHR13392	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAGAGAGCAT	byFrequency|byCluster	4	BLCA
PDE10A	0	.	GRCh37	6	165746585	165746585	+	Missense_Mutation	SNP	G	G	C	rs141939882	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2299C>G	p.Arg767Gly	p.R767G	ENST00000539869	22/22	50	42	7	70	70	0	PDE10A,missense_variant,p.Arg757Gly,ENST00000354448,;PDE10A,missense_variant,p.Arg767Gly,ENST00000539869,;PDE10A,missense_variant,p.Arg757Gly,ENST00000366882,;	C	ENSG00000112541	ENST00000539869	Transcript	missense_variant	2355	2299	767	R/G	Cga/Gga	rs141939882,COSM108379	.	.	-1	PDE10A	HGNC	8772	protein_coding	YES	CCDS47513.1	ENSP00000438284	PDE10_HUMAN	.	UPI000006F80E	.	deleterious(0.03)	benign(0.109)	22/22	.	hmmpanther:PTHR11347,hmmpanther:PTHR11347:SF79,Gene3D:1.10.1300.10,Superfamily_domains:SSF109604	.	.	.	.	.	.	.	.	.	not_provided	1,1	21499247	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTCGAATCA	byCluster	4	BLCA
KIF13A	0	.	GRCh37	6	17837139	17837139	+	Silent	SNP	C	C	T	rs201673713	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1125G>A	p.%3D	p.E375E	ENST00000259711	11/39	196	161	35	281	281	0	KIF13A,synonymous_variant,p.%3D,ENST00000378814,;KIF13A,synonymous_variant,p.%3D,ENST00000378826,;KIF13A,synonymous_variant,p.%3D,ENST00000259711,;KIF13A,synonymous_variant,p.%3D,ENST00000378816,;KIF13A,synonymous_variant,p.%3D,ENST00000378843,;	T	ENSG00000137177	ENST00000259711	Transcript	synonymous_variant	1231	1125	375	E	gaG/gaA	rs201673713	.	.	-1	KIF13A	HGNC	14566	protein_coding	YES	CCDS47381.1	ENSP00000259711	KI13A_HUMAN	.	UPI0000E20DA3	.	.	.	11/39	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115:SF289,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCTCGAC	byCluster	5	BLCA
NHLRC1	0	.	GRCh37	6	18122786	18122786	+	Missense_Mutation	SNP	C	C	G	rs771805307	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52G>C	p.Glu18Gln	p.E18Q	ENST00000340650	1/1	34	29	5	65	65	0	NHLRC1,missense_variant,p.Glu18Gln,ENST00000340650,;	G	ENSG00000187566	ENST00000340650	Transcript	missense_variant	66	52	18	E/Q	Gag/Cag	rs771805307,COSM3777348,COSM400031,COSM420968	.	.	-1	NHLRC1	HGNC	21576	protein_coding	YES	CCDS4542.1	ENSP00000345464	NHLC1_HUMAN	.	UPI0000198CE1	.	tolerated(0.06)	possibly_damaging(0.831)	1/1	.	hmmpanther:PTHR24104	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCGCGCA	.	4	BLCA
E2F3	0	.	GRCh37	6	20402595	20402595	+	Silent	SNP	C	C	T	rs746277803	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132C>T	p.%3D	p.F44F	ENST00000346618	1/7	20	15	5	41	41	0	E2F3,synonymous_variant,p.%3D,ENST00000346618,;E2F3,upstream_gene_variant,,ENST00000535432,;	T	ENSG00000112242	ENST00000346618	Transcript	synonymous_variant	198	132	44	F	ttC/ttT	rs746277803	.	.	1	E2F3	HGNC	3115	protein_coding	YES	CCDS4545.1	ENSP00000262904	E2F3_HUMAN	Q24JQ3_HUMAN	UPI0000129AC2	.	.	.	1/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12081:SF36,hmmpanther:PTHR12081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCTTCGCCGC	.	2	BLCA
HIST1H1C	0	.	GRCh37	6	26056283	26056283	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374G>A	p.Gly125Glu	p.G125E	ENST00000343677	1/1	89	75	14	154	153	1	HIST1H1C,missense_variant,p.Gly125Glu,ENST00000343677,;	T	ENSG00000187837	ENST00000343677	Transcript	missense_variant	417	374	125	G/E	gGa/gAa	.	.	.	-1	HIST1H1C	HGNC	4716	protein_coding	YES	CCDS4577.1	ENSP00000339566	H12_HUMAN	.	UPI0000001BD9	.	deleterious(0.01)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11467:SF23,hmmpanther:PTHR11467	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCCGCCC	.	5	BLCA
HIST1H2BK	0	.	GRCh37	6	27114509	27114509	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69G>A	p.%3D	p.Q23Q	ENST00000396891	1/2	160	143	16	200	200	0	HIST1H2BK,synonymous_variant,p.%3D,ENST00000356950,;HIST1H2BK,synonymous_variant,p.%3D,ENST00000396891,;HIST1H2AH,upstream_gene_variant,,ENST00000377459,;MIR3143,upstream_gene_variant,,ENST00000584253,;	T	ENSG00000197903	ENST00000396891	Transcript	synonymous_variant	111	69	23	Q	caG/caA	.	.	.	-1	HIST1H2BK	HGNC	13954	protein_coding	YES	CCDS4621.1	ENSP00000380100	H2B1K_HUMAN	.	UPI0000073CF8	.	.	.	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23428,Gene3D:1.10.20.10,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTGCGC	.	4	BLCA
ZNF184	0	.	GRCh37	6	27420074	27420074	+	Missense_Mutation	SNP	C	C	G	rs532717980	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1264G>C	p.Glu422Gln	p.E422Q	ENST00000211936	6/6	73	59	14	99	99	0	ZNF184,missense_variant,p.Glu422Gln,ENST00000211936,;ZNF184,missense_variant,p.Glu422Gln,ENST00000377419,;	G	ENSG00000096654	ENST00000211936	Transcript	missense_variant	1549	1264	422	E/Q	Gaa/Caa	rs532717980	.	.	-1	ZNF184	HGNC	12975	protein_coding	YES	CCDS4624.1	ENSP00000211936	ZN184_HUMAN	.	UPI000013C311	.	tolerated(0.1)	probably_damaging(0.97)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24375:SF108,hmmpanther:PTHR24375,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCATTGC	.	5	BLCA
HIST1H3I	0	.	GRCh37	6	27839706	27839706	+	Missense_Mutation	SNP	G	G	A	rs772596697	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.388C>T	p.Arg130Cys	p.R130C	ENST00000328488	1/1	138	122	16	234	234	0	HIST1H3I,missense_variant,p.Arg130Cys,ENST00000328488,;HIST1H1B,upstream_gene_variant,,ENST00000331442,;HIST1H4L,downstream_gene_variant,,ENST00000355981,;	A	ENSG00000182572	ENST00000328488	Transcript	missense_variant	394	388	130	R/C	Cgc/Tgc	rs772596697	.	.	-1	HIST1H3I	HGNC	4771	protein_coding	YES	CCDS4636.1	ENSP00000329554	H31_HUMAN	.	UPI00000003C7	.	tolerated_low_confidence(0.06)	possibly_damaging(0.765)	1/1	.	Prints_domain:PR00622,Superfamily_domains:SSF47113,SMART_domains:SM00428,Gene3D:1.10.20.10,Pfam_domain:PF00125,hmmpanther:PTHR11426	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGCGGCGCG	.	4	BLCA
ZSCAN9	0	.	GRCh37	6	28201012	28201012	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*56G>A	.	.	ENST00000425468	5/5	39	34	4	50	50	0	ZSCAN9,3_prime_UTR_variant,,ENST00000531979,;ZSCAN9,3_prime_UTR_variant,,ENST00000252207,;ZSCAN9,3_prime_UTR_variant,,ENST00000425468,;ZSCAN9,downstream_gene_variant,,ENST00000527436,;ZSCAN9,downstream_gene_variant,,ENST00000527844,;ZSCAN9,downstream_gene_variant,,ENST00000526391,;	A	ENSG00000137185	ENST00000425468	Transcript	3_prime_UTR_variant	1559	.	.	.	.	.	.	.	1	ZSCAN9	HGNC	12984	protein_coding	YES	CCDS56407.1	ENSP00000404074	ZSC9_HUMAN	E9PLJ4_HUMAN	UPI0000E09E19	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGGTTGAGACT	.	3	BLCA
SERPINB6	0	.	GRCh37	6	2948561	2948561	+	Missense_Mutation	SNP	G	G	C	rs200355535	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1102C>G	p.Leu368Val	p.L368V	ENST00000380520	6/6	27	21	6	51	51	0	SERPINB6,missense_variant,p.Leu368Val,ENST00000335686,;SERPINB6,missense_variant,p.Leu368Val,ENST00000380524,;SERPINB6,missense_variant,p.Leu368Val,ENST00000380546,;SERPINB6,missense_variant,p.Leu368Val,ENST00000380520,;SERPINB6,missense_variant,p.Leu368Val,ENST00000380539,;SERPINB6,missense_variant,p.Leu368Val,ENST00000380529,;	C	ENSG00000124570	ENST00000380520	Transcript	missense_variant	3097	1102	368	L/V	Ctc/Gtc	rs200355535	.	.	-1	SERPINB6	HGNC	8950	protein_coding	YES	CCDS4479.1	ENSP00000369891	SPB6_HUMAN	Q8IXH2_HUMAN	UPI000013FEA1	.	deleterious(0.02)	possibly_damaging(0.651)	6/6	.	hmmpanther:PTHR11461:SF69,hmmpanther:PTHR11461,Gene3D:2.30.39.10,Pfam_domain:PF00079,SMART_domains:SM00093,Superfamily_domains:SSF56574	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N365N|c.1095C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAGAGAATCC	byCluster|by1000G	5	BLCA
VARS2	0	.	GRCh37	6	30883179	30883179	+	Missense_Mutation	SNP	G	G	T	rs372389658	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.421G>T	p.Ala141Ser	p.A141S	ENST00000541562	4/30	108	85	23	162	162	0	VARS2,missense_variant,p.Ala111Ser,ENST00000321897,;VARS2,missense_variant,p.Ala111Ser,ENST00000421263,;VARS2,missense_variant,p.Ala111Ser,ENST00000416670,;VARS2,missense_variant,p.Ala111Ser,ENST00000428017,;VARS2,missense_variant,p.Ala141Ser,ENST00000541562,;VARS2,5_prime_UTR_variant,,ENST00000542001,;GTF2H4,downstream_gene_variant,,ENST00000376316,;GTF2H4,downstream_gene_variant,,ENST00000539324,;GTF2H4,downstream_gene_variant,,ENST00000453897,;GTF2H4,downstream_gene_variant,,ENST00000259895,;VARS2,non_coding_transcript_exon_variant,,ENST00000467717,;VARS2,upstream_gene_variant,,ENST00000476162,;VARS2,non_coding_transcript_exon_variant,,ENST00000477288,;GTF2H4,downstream_gene_variant,,ENST00000483318,;VARS2,upstream_gene_variant,,ENST00000469358,;VARS2,upstream_gene_variant,,ENST00000490699,;GTF2H4,downstream_gene_variant,,ENST00000475845,;GTF2H4,downstream_gene_variant,,ENST00000487746,;	T	ENSG00000137411	ENST00000541562	Transcript	missense_variant	502	421	141	A/S	Gct/Tct	rs372389658	.	.	1	VARS2	HGNC	21642	protein_coding	YES	CCDS54980.1	ENSP00000441000	SYVM_HUMAN	B7ZCJ6_HUMAN,A2ABL6_HUMAN	UPI0001BDAB0F	.	tolerated(0.26)	benign(0.166)	4/30	.	Superfamily_domains:SSF52374,Gene3D:3.40.50.620,TIGRFAM_domain:TIGR00422,hmmpanther:PTHR11946:SF71,hmmpanther:PTHR11946	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAGGCTGCC	.	5	BLCA
TNXB	0	.	GRCh37	6	32036356	32036356	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6031G>A	p.Glu2011Lys	p.E2011K	ENST00000375247	17/44	50	40	9	58	58	0	TNXB,missense_variant,p.Glu2011Lys,ENST00000375247,;TNXB,missense_variant,p.Glu2011Lys,ENST00000375244,;	T	ENSG00000168477	ENST00000375247	Transcript	missense_variant	6233	6031	2011	E/K	Gag/Aag	.	.	.	-1	TNXB	HGNC	11976	protein_coding	.	.	ENSP00000364396	TENX_HUMAN	Q9NPK8_HUMAN,Q9NPK7_HUMAN,B6RHJ5_HUMAN	UPI000174F11D	.	.	benign(0.31)	17/44	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR19143:SF190,hmmpanther:PTHR19143,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCTCGGGAA	.	5	BLCA
RNA5SP206	0	.	GRCh37	6	32050000	32050000	+	5'Flank	SNP	C	C	T	rs757095620	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000516703	.	24	17	7	42	42	0	TNXB,synonymous_variant,p.%3D,ENST00000375247,;TNXB,synonymous_variant,p.%3D,ENST00000375244,;RNA5SP206,upstream_gene_variant,,ENST00000516703,;	T	ENSG00000252512	ENST00000516703	Transcript	upstream_gene_variant	.	.	.	.	.	rs757095620	.	3595	-1	RNA5SP206	HGNC	43106	rRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCCCTCAGG	.	5	BLCA
BRD2	0	.	GRCh37	6	32942477	32942477	+	Missense_Mutation	SNP	C	C	G	rs757289131	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>G	p.Leu90Val	p.L90V	ENST00000395289	3/14	22	17	5	39	39	0	BRD2,missense_variant,p.Leu90Val,ENST00000395289,;BRD2,missense_variant,p.Leu96Val,ENST00000449025,;BRD2,missense_variant,p.Leu43Val,ENST00000449085,;BRD2,missense_variant,p.Leu90Val,ENST00000374825,;BRD2,missense_variant,p.Leu90Val,ENST00000607833,;BRD2,missense_variant,p.Leu90Val,ENST00000374831,;BRD2,missense_variant,p.Leu92Val,ENST00000456339,;BRD2,missense_variant,p.Leu90Val,ENST00000395287,;BRD2,5_prime_UTR_variant,,ENST00000443797,;BRD2,downstream_gene_variant,,ENST00000496118,;BRD2,upstream_gene_variant,,ENST00000606059,;XXbac-BPG181M17.6,upstream_gene_variant,,ENST00000580587,;BRD2-IT1,downstream_gene_variant,,ENST00000415875,;BRD2,downstream_gene_variant,,ENST00000580234,;BRD2,downstream_gene_variant,,ENST00000584808,;BRD2,downstream_gene_variant,,ENST00000581002,;BRD2,missense_variant,p.Leu90Val,ENST00000482914,;BRD2,missense_variant,p.Leu90Val,ENST00000495733,;BRD2,upstream_gene_variant,,ENST00000482838,;BRD2,upstream_gene_variant,,ENST00000481259,;BRD2,upstream_gene_variant,,ENST00000469132,;BRD2,upstream_gene_variant,,ENST00000464592,;BRD2,upstream_gene_variant,,ENST00000463639,;	G	ENSG00000204256	ENST00000395289	Transcript	missense_variant	1869	268	90	L/V	Ctg/Gtg	rs757289131	.	.	1	BRD2	HGNC	1103	protein_coding	YES	CCDS56420.1	ENSP00000378704	BRD2_HUMAN	U3KQA6_HUMAN	UPI0000227E6A	.	tolerated(0.06)	probably_damaging(0.989)	3/14	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF126,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTCTGTGG	byFrequency	5	BLCA
DAXX	0	.	GRCh37	6	33289517	33289517	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>C	p.Glu62Asp	p.E62D	ENST00000374542	2/8	218	172	46	308	308	0	DAXX,missense_variant,p.Glu62Asp,ENST00000374542,;DAXX,missense_variant,p.Glu62Asp,ENST00000453407,;DAXX,missense_variant,p.Glu62Asp,ENST00000446403,;DAXX,missense_variant,p.Glu62Asp,ENST00000266000,;DAXX,intron_variant,,ENST00000414083,;ZBTB22,upstream_gene_variant,,ENST00000431845,;ZBTB22,upstream_gene_variant,,ENST00000418724,;ZBTB22,upstream_gene_variant,,ENST00000441117,;DAXX,downstream_gene_variant,,ENST00000446511,;DAXX,non_coding_transcript_exon_variant,,ENST00000477162,;DAXX,intron_variant,,ENST00000468536,;DAXX,intron_variant,,ENST00000477370,;DAXX,downstream_gene_variant,,ENST00000494082,;DAXX,non_coding_transcript_exon_variant,,ENST00000498030,;DAXX,upstream_gene_variant,,ENST00000490173,;	G	ENSG00000204209	ENST00000374542	Transcript	missense_variant	391	186	62	E/D	gaG/gaC	.	.	.	-1	DAXX	HGNC	2681	protein_coding	YES	CCDS4776.1	ENSP00000363668	DAXX_HUMAN	Q5STR5_HUMAN,Q4VX54_HUMAN,A2AB94_HUMAN	UPI0000128ED8	.	tolerated(0.06)	benign(0.054)	2/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12766:SF6,hmmpanther:PTHR12766,Pfam_domain:PF03344	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTCTCCAG	.	5	BLCA
KCTD20	0	.	GRCh37	6	36438031	36438031	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157G>A	p.Glu53Lys	p.E53K	ENST00000373731	2/8	62	54	7	82	82	0	KCTD20,missense_variant,p.Glu53Lys,ENST00000460983,;KCTD20,missense_variant,p.Glu53Lys,ENST00000449081,;KCTD20,missense_variant,p.Glu53Lys,ENST00000498267,;KCTD20,missense_variant,p.Glu53Lys,ENST00000373731,;KCTD20,missense_variant,p.Glu53Lys,ENST00000483557,;KCTD20,5_prime_UTR_variant,,ENST00000544295,;KCTD20,5_prime_UTR_variant,,ENST00000536244,;KCTD20,intron_variant,,ENST00000474988,;KCTD20,missense_variant,p.Glu53Lys,ENST00000481911,;KCTD20,missense_variant,p.Glu53Lys,ENST00000265344,;	A	ENSG00000112078	ENST00000373731	Transcript	missense_variant	548	157	53	E/K	Gaa/Aaa	.	.	.	1	KCTD20	HGNC	21052	protein_coding	YES	CCDS4821.1	ENSP00000362836	KCD20_HUMAN	F5H3T3_HUMAN,C9JY11_HUMAN,C9J624_HUMAN,C9J5B3_HUMAN,B4DIP9_HUMAN	UPI00001AADF6	.	tolerated_low_confidence(0.06)	benign(0.01)	2/8	.	hmmpanther:PTHR21637,hmmpanther:PTHR21637:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAATGAAGGT	.	4	BLCA
ECI2	0	.	GRCh37	6	4126371	4126371	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.672G>A	p.%3D	p.L224L	ENST00000380118	6/10	29	23	5	46	46	0	ECI2,synonymous_variant,p.%3D,ENST00000380118,;ECI2,synonymous_variant,p.%3D,ENST00000380125,;ECI2,synonymous_variant,p.%3D,ENST00000465828,;ECI2,synonymous_variant,p.%3D,ENST00000413766,;ECI2,synonymous_variant,p.%3D,ENST00000361538,;C6orf201,intron_variant,,ENST00000333388,;C6orf201,intron_variant,,ENST00000380175,;ECI2,downstream_gene_variant,,ENST00000495548,;C6orf201,downstream_gene_variant,,ENST00000430835,;C6orf201,intron_variant,,ENST00000496987,;ECI2,splice_region_variant,,ENST00000380120,;ECI2,splice_region_variant,,ENST00000496241,;ECI2,non_coding_transcript_exon_variant,,ENST00000464583,;ECI2,non_coding_transcript_exon_variant,,ENST00000464057,;C6orf201,intron_variant,,ENST00000436110,;C6orf201,intron_variant,,ENST00000451679,;ECI2,intron_variant,,ENST00000478266,;C6orf201,intron_variant,,ENST00000427996,;ECI2,downstream_gene_variant,,ENST00000489086,;	T	ENSG00000198721	ENST00000380118	Transcript	synonymous_variant	709	672	224	L	ctG/ctA	.	.	.	-1	ECI2	HGNC	14601	protein_coding	YES	CCDS43420.2	ENSP00000369461	ECI2_HUMAN	C9J000_HUMAN,B4DLL3_HUMAN	UPI000004ECA9	.	.	.	6/10	.	hmmpanther:PTHR23310,hmmpanther:PTHR23310:SF55,Pfam_domain:PF00378,Gene3D:3.90.226.10,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCAGTAA	.	5	BLCA
GUCA1A	0	.	GRCh37	6	42147033	42147033	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498C>G	p.%3D	p.L166L	ENST00000394237	6/6	42	33	9	72	72	0	GUCA1A,synonymous_variant,p.%3D,ENST00000372958,;GUCA1A,synonymous_variant,p.%3D,ENST00000541991,;GUCA1A,synonymous_variant,p.%3D,ENST00000394237,;GUCA1A,synonymous_variant,p.%3D,ENST00000053469,;GUCA1A,downstream_gene_variant,,ENST00000418175,;	G	ENSG00000048545	ENST00000394237	Transcript	synonymous_variant	1474	498	166	L	ctC/ctG	.	.	.	1	GUCA1A	HGNC	4678	protein_coding	YES	CCDS4864.1	ENSP00000377784	GUC1A_HUMAN	A6PVH5_HUMAN	UPI0000001C22	.	.	.	6/6	.	Prints_domain:PR00450,Superfamily_domains:SSF47473,Gene3D:1.10.238.10,hmmpanther:PTHR23055:SF13,hmmpanther:PTHR23055,PROSITE_profiles:PS50222,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTCCTGGA	.	5	BLCA
PPP2R5D	0	.	GRCh37	6	42975936	42975936	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858-3C>G	.	.	ENST00000485511	.	122	101	21	191	191	0	PPP2R5D,splice_region_variant,,ENST00000461010,;PPP2R5D,splice_region_variant,,ENST00000485511,;PPP2R5D,splice_region_variant,,ENST00000394110,;PPP2R5D,splice_region_variant,,ENST00000470467,;PPP2R5D,splice_region_variant,,ENST00000472118,;PPP2R5D,upstream_gene_variant,,ENST00000486843,;MEA1,downstream_gene_variant,,ENST00000244711,;PPP2R5D,splice_region_variant,,ENST00000230402,;PPP2R5D,non_coding_transcript_exon_variant,,ENST00000467447,;PPP2R5D,upstream_gene_variant,,ENST00000482315,;	G	ENSG00000112640	ENST00000485511	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	PPP2R5D	HGNC	9312	protein_coding	YES	CCDS4878.1	ENSP00000417963	2A5D_HUMAN	.	UPI0000124E92	.	.	.	.	7/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCAGGTT	.	4	BLCA
GSTA3	0	.	GRCh37	6	52761523	52761523	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*81G>C	.	.	ENST00000211122	7/7	29	24	5	42	41	1	GSTA3,3_prime_UTR_variant,,ENST00000370968,;GSTA3,3_prime_UTR_variant,,ENST00000211122,;GSTA3,downstream_gene_variant,,ENST00000431899,;	G	ENSG00000174156	ENST00000211122	Transcript	3_prime_UTR_variant	816	.	.	.	.	.	.	.	-1	GSTA3	HGNC	4628	protein_coding	YES	CCDS4947.1	ENSP00000211122	GSTA3_HUMAN	Q5JW85_HUMAN	UPI000012BCA7	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACAATCAACAC	.	3	BLCA
EXOC2	0	.	GRCh37	6	553855	553855	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2120C>T	p.Ser707Leu	p.S707L	ENST00000230449	21/28	59	45	13	86	86	0	EXOC2,missense_variant,p.Ser707Leu,ENST00000230449,;EXOC2,missense_variant,p.Ser302Leu,ENST00000448181,;	A	ENSG00000112685	ENST00000230449	Transcript	missense_variant	2256	2120	707	S/L	tCa/tTa	COSM94260	.	.	-1	EXOC2	HGNC	24968	protein_coding	YES	CCDS34327.1	ENSP00000230449	EXOC2_HUMAN	Q2MDF5_HUMAN,G8JLK9_HUMAN	UPI000003E7E3	.	tolerated(0.36)	benign(0.014)	21/28	.	hmmpanther:PTHR13043	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACTGAGGTC	.	5	BLCA
DSP	0	.	GRCh37	6	7583213	7583213	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5718C>T	p.%3D	p.I1906I	ENST00000379802	24/24	50	41	8	86	86	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	6059	5718	1906	I	atC/atT	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGATCAAGAG	.	5	BLCA
DSP	0	.	GRCh37	6	7583435	7583435	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5940C>G	p.%3D	p.L1980L	ENST00000379802	24/24	24	20	4	38	38	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	G	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	6281	5940	1980	L	ctC/ctG	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Superfamily_domains:SSF75399,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCTATGA	.	5	BLCA
DSP	0	.	GRCh37	6	7583509	7583509	+	Missense_Mutation	SNP	C	C	T	rs749925817	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6014C>T	p.Ala2005Val	p.A2005V	ENST00000379802	24/24	30	23	6	44	44	0	DSP,missense_variant,p.Ala2005Val,ENST00000379802,;DSP,missense_variant,p.Ala1406Val,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	missense_variant	6355	6014	2005	A/V	gCt/gTt	rs749925817	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	benign(0.342)	24/24	.	Superfamily_domains:SSF75399,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGTTGCTTCTG	.	3	BLCA
DSP	0	.	GRCh37	6	7583532	7583532	+	Missense_Mutation	SNP	C	C	T	rs756529985	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6037C>T	p.Arg2013Trp	p.R2013W	ENST00000379802	24/24	38	31	6	39	39	0	DSP,missense_variant,p.Arg2013Trp,ENST00000379802,;DSP,missense_variant,p.Arg1414Trp,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	missense_variant	6378	6037	2013	R/W	Cgg/Tgg	rs756529985	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	possibly_damaging(0.895)	24/24	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCTTCGGGGT	byFrequency	3	BLCA
DSP	0	.	GRCh37	6	7583545	7583545	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6050C>T	p.Ser2017Phe	p.S2017F	ENST00000379802	24/24	38	30	8	38	38	0	DSP,missense_variant,p.Ser2017Phe,ENST00000379802,;DSP,missense_variant,p.Ser1418Phe,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	missense_variant	6391	6050	2017	S/F	tCt/tTt	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	benign(0.133)	24/24	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGATCTATCG	.	3	BLCA
DSP	0	.	GRCh37	6	7583774	7583774	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6279C>G	p.Ile2093Met	p.I2093M	ENST00000379802	24/24	135	111	24	161	161	0	DSP,missense_variant,p.Ile2093Met,ENST00000379802,;DSP,missense_variant,p.Ile1494Met,ENST00000418664,;	G	ENSG00000096696	ENST00000379802	Transcript	missense_variant	6620	6279	2093	I/M	atC/atG	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	benign(0.054)	24/24	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTATCACTGG	.	5	BLCA
DSP	0	.	GRCh37	6	7584134	7584134	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6639C>T	p.%3D	p.I2213I	ENST00000379802	24/24	66	59	7	81	81	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	6980	6639	2213	I	atC/atT	COSM160591	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G2212E|c.6635G>A|3	MUTECT|MUSE	GGAATCAGACA	.	2	BLCA
DSP	0	.	GRCh37	6	7584626	7584626	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7131C>A	p.%3D	p.I2377I	ENST00000379802	24/24	39	35	4	63	63	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	A	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	7472	7131	2377	I	atC/atA	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Pfam_domain:PF00681,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGATCATTGA	.	4	BLCA
DSP	0	.	GRCh37	6	7584710	7584710	+	Silent	SNP	C	C	T	rs191226040	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7215C>T	p.%3D	p.L2405L	ENST00000379802	24/24	58	43	15	70	70	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	7556	7215	2405	L	ctC/ctT	rs191226040	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Superfamily_domains:SSF75399,Pfam_domain:PF00681,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTCTCAGA	byCluster|by1000G	5	BLCA
DSP	0	.	GRCh37	6	7584878	7584878	+	Silent	SNP	C	C	T	rs771106689	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7383C>T	p.%3D	p.L2461L	ENST00000379802	24/24	63	48	14	81	81	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	7724	7383	2461	L	ctC/ctT	rs771106689	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Pfam_domain:PF00681,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K2458N|c.7374G>T|3	RADIA|MUTECT|MUSE	ACCCTCAGGAA	.	3	BLCA
DSP	0	.	GRCh37	6	7584896	7584896	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7401C>T	p.%3D	p.V2467V	ENST00000379802	24/24	66	50	16	76	76	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	7742	7401	2467	V	gtC/gtT	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Pfam_domain:PF00681,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGGTCATAGT	.	3	BLCA
DSP	0	.	GRCh37	6	7585036	7585036	+	Missense_Mutation	SNP	C	C	G	rs144377593	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7541C>G	p.Ser2514Cys	p.S2514C	ENST00000379802	24/24	75	56	19	75	75	0	DSP,missense_variant,p.Ser2514Cys,ENST00000379802,;DSP,missense_variant,p.Ser1915Cys,ENST00000418664,;	G	ENSG00000096696	ENST00000379802	Transcript	missense_variant	7882	7541	2514	S/C	tCc/tGc	rs144377593	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	probably_damaging(0.969)	24/24	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCCACCA	byCluster|by1000G	5	BLCA
DSP	0	.	GRCh37	6	7585151	7585151	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7656C>T	p.%3D	p.L2552L	ENST00000379802	24/24	53	38	14	78	78	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	T	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	7997	7656	2552	L	ctC/ctT	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Superfamily_domains:SSF75399,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCAGCCT	.	5	BLCA
DSP	0	.	GRCh37	6	7585226	7585226	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7731C>G	p.%3D	p.V2577V	ENST00000379802	24/24	62	39	22	84	84	0	DSP,synonymous_variant,p.%3D,ENST00000379802,;DSP,synonymous_variant,p.%3D,ENST00000418664,;	G	ENSG00000096696	ENST00000379802	Transcript	synonymous_variant	8072	7731	2577	V	gtC/gtG	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	.	24/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGTCAGCGA	.	5	BLCA
ZAN	0	.	GRCh37	7	100364724	100364724	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4704G>C	p.%3D	p.L1568L	ENST00000546292	24/46	43	24	18	76	76	0	ZAN,synonymous_variant,p.%3D,ENST00000546213,;ZAN,synonymous_variant,p.%3D,ENST00000546292,;ZAN,synonymous_variant,p.%3D,ENST00000542585,;ZAN,synonymous_variant,p.%3D,ENST00000538115,;ZAN,synonymous_variant,p.%3D,ENST00000421100,;ZAN,synonymous_variant,p.%3D,ENST00000349350,;ZAN,synonymous_variant,p.%3D,ENST00000427578,;ZAN,synonymous_variant,p.%3D,ENST00000348028,;ZAN,synonymous_variant,p.%3D,ENST00000449052,;ZAN,synonymous_variant,p.%3D,ENST00000443370,;	C	ENSG00000146839	ENST00000546292	Transcript	synonymous_variant	4852	4704	1568	L	ctG/ctC	.	.	.	1	ZAN	HGNC	12857	protein_coding	YES	.	ENSP00000445943	.	F5H0T8_HUMAN	UPI00004575C6	.	.	.	24/46	.	SMART_domains:SM00215,SMART_domains:SM00216,Pfam_domain:PF00094,hmmpanther:PTHR11339:SF221,hmmpanther:PTHR11339,PROSITE_profiles:PS51233	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTGACCCG	.	5	BLCA
ZAN	0	.	GRCh37	7	100392931	100392931	+	Missense_Mutation	SNP	C	C	G	rs370421043	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7963C>G	p.Arg2655Gly	p.R2655G	ENST00000546292	43/46	17	13	4	41	41	0	ZAN,missense_variant,p.Arg1118Gly,ENST00000546213,;ZAN,missense_variant,p.Arg2655Gly,ENST00000546292,;ZAN,3_prime_UTR_variant,,ENST00000542585,;ZAN,3_prime_UTR_variant,,ENST00000538115,;ZAN,synonymous_variant,p.%3D,ENST00000349350,;ZAN,synonymous_variant,p.%3D,ENST00000348028,;ZAN,3_prime_UTR_variant,,ENST00000421100,;ZAN,3_prime_UTR_variant,,ENST00000427578,;ZAN,3_prime_UTR_variant,,ENST00000449052,;ZAN,3_prime_UTR_variant,,ENST00000443370,;	G	ENSG00000146839	ENST00000546292	Transcript	missense_variant	8111	7963	2655	R/G	Cga/Gga	rs370421043	.	.	1	ZAN	HGNC	12857	protein_coding	YES	.	ENSP00000445943	.	F5H0T8_HUMAN	UPI00004575C6	.	.	unknown(0)	43/46	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCGAGAT	byFrequency|byCluster	5	BLCA
MUC3A	0	.	GRCh37	7	100608830	100608830	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2209G>A	p.Asp737Asn	p.D737N	ENST00000319509	7/11	40	31	8	62	62	0	MUC3A,missense_variant,p.Asp227Asn,ENST00000422757,;MUC3A,missense_variant,p.Asp737Asn,ENST00000319509,;MUC12,upstream_gene_variant,,ENST00000536621,;MUC12,upstream_gene_variant,,ENST00000379442,;RP11-395B7.2,non_coding_transcript_exon_variant,,ENST00000420080,;RP11-395B7.2,upstream_gene_variant,,ENST00000434775,;MUC3A,3_prime_UTR_variant,,ENST00000414964,;MUC3A,non_coding_transcript_exon_variant,,ENST00000483133,;RP11-395B7.2,non_coding_transcript_exon_variant,,ENST00000438198,;MUC3A,upstream_gene_variant,,ENST00000480291,;	A	ENSG00000169894	ENST00000319509	Transcript	missense_variant	2209	2209	737	D/N	Gac/Aac	.	.	.	1	MUC3A	HGNC	7513	protein_coding	YES	.	ENSP00000324834	.	J3QST7_HUMAN,I0CMK2_HUMAN,H9XFA8_HUMAN	UPI000198CE7F	.	tolerated(0.21)	benign(0.253)	7/11	.	hmmpanther:PTHR24041,hmmpanther:PTHR24041:SF22,SMART_domains:SM00181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGTGGACAAC	.	5	BLCA
MUC17	0	.	GRCh37	7	100676453	100676453	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1756G>C	p.Glu586Gln	p.E586Q	ENST00000306151	3/13	256	207	48	274	274	0	MUC17,missense_variant,p.Glu586Gln,ENST00000306151,;MUC17,missense_variant,p.Glu586Gln,ENST00000379439,;	C	ENSG00000169876	ENST00000306151	Transcript	missense_variant	1820	1756	586	E/Q	Gag/Cag	.	.	.	1	MUC17	HGNC	16800	protein_coding	YES	CCDS34711.1	ENSP00000302716	MUC17_HUMAN	A1A4F7_HUMAN	UPI0000D5BB56	.	.	probably_damaging(0.985)	3/13	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTGAGGCT	.	5	BLCA
SERPINE1	0	.	GRCh37	7	100771753	100771753	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.79C>T	p.Pro27Ser	p.P27S	ENST00000223095	2/9	43	33	9	55	55	0	SERPINE1,missense_variant,p.Pro27Ser,ENST00000223095,;SERPINE1,missense_variant,p.Pro27Ser,ENST00000445463,;	T	ENSG00000106366	ENST00000223095	Transcript	missense_variant	236	79	27	P/S	Ccc/Tcc	.	.	.	1	SERPINE1	HGNC	8583	protein_coding	YES	CCDS5711.1	ENSP00000223095	PAI1_HUMAN	B7ZAB0_HUMAN,B7Z1D9_HUMAN	UPI0000000CAB	.	tolerated(0.87)	benign(0)	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATCCCCCA	.	5	BLCA
PIK3CG	0	.	GRCh37	7	106523498	106523498	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2650G>C	p.Asp884His	p.D884H	ENST00000359195	8/11	189	150	39	249	249	0	PIK3CG,missense_variant,p.Asp157His,ENST00000473541,;PIK3CG,missense_variant,p.Asp884His,ENST00000496166,;PIK3CG,missense_variant,p.Asp884His,ENST00000359195,;PIK3CG,missense_variant,p.Asp884His,ENST00000440650,;PIK3CG,downstream_gene_variant,,ENST00000466738,;	C	ENSG00000105851	ENST00000359195	Transcript	missense_variant	2960	2650	884	D/H	Gac/Cac	.	.	.	1	PIK3CG	HGNC	8978	protein_coding	YES	CCDS5739.1	ENSP00000352121	PK3CG_HUMAN	Q24M88_HUMAN,E9PDN7_HUMAN	UPI00000746B8	.	tolerated(0.08)	benign(0.285)	8/11	.	PROSITE_profiles:PS50290,hmmpanther:PTHR10048,hmmpanther:PTHR10048:SF34,Gene3D:1.10.1070.11,Pfam_domain:PF00454,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAAAGACGCC	.	5	BLCA
IFRD1	0	.	GRCh37	7	112115600	112115600	+	3'UTR	SNP	C	C	G	rs762722107	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*26C>G	.	.	ENST00000403825	12/12	27	18	9	33	33	0	IFRD1,3_prime_UTR_variant,,ENST00000535603,;IFRD1,3_prime_UTR_variant,,ENST00000403825,;IFRD1,intron_variant,,ENST00000462155,;IFRD1,downstream_gene_variant,,ENST00000005558,;IFRD1,downstream_gene_variant,,ENST00000421296,;IFRD1,non_coding_transcript_exon_variant,,ENST00000489994,;IFRD1,downstream_gene_variant,,ENST00000470441,;	G	ENSG00000006652	ENST00000403825	Transcript	3_prime_UTR_variant	1643	.	.	.	.	rs762722107	.	.	1	IFRD1	HGNC	5456	protein_coding	YES	CCDS34736.1	ENSP00000384477	IFRD1_HUMAN	A4D0U1_HUMAN,Q75MS4_HUMAN,Q75M99_HUMAN,Q75M98_HUMAN,E9PMY4_HUMAN,C9JNM6_HUMAN,C9JLG5_HUMAN,C9JFH1_HUMAN,C9J7U6_HUMAN,C9J311_HUMAN,B7Z4L0_HUMAN	UPI00000304DC	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTCTAATT	byFrequency	5	BLCA
FOXP2	0	.	GRCh37	7	114210919	114210919	+	Missense_Mutation	SNP	C	C	T	rs770043745	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316C>T	p.Pro106Ser	p.P106S	ENST00000408937	4/18	100	82	18	121	121	0	FOXP2,missense_variant,p.Pro106Ser,ENST00000408937,;FOXP2,missense_variant,p.Pro105Ser,ENST00000390668,;FOXP2,intron_variant,,ENST00000452963,;FOXP2,intron_variant,,ENST00000360232,;FOXP2,intron_variant,,ENST00000378237,;FOXP2,intron_variant,,ENST00000393489,;FOXP2,intron_variant,,ENST00000393500,;FOXP2,intron_variant,,ENST00000393498,;FOXP2,intron_variant,,ENST00000403559,;FOXP2,intron_variant,,ENST00000393494,;FOXP2,intron_variant,,ENST00000350908,;FOXP2,intron_variant,,ENST00000393495,;FOXP2,non_coding_transcript_exon_variant,,ENST00000459666,;FOXP2,3_prime_UTR_variant,,ENST00000412402,;FOXP2,intron_variant,,ENST00000440349,;FOXP2,intron_variant,,ENST00000441290,;	T	ENSG00000128573	ENST00000408937	Transcript	missense_variant	690	316	106	P/S	Cct/Tct	rs770043745	.	.	1	FOXP2	HGNC	13875	protein_coding	YES	CCDS43635.1	ENSP00000386200	FOXP2_HUMAN	.	UPI000007412B	.	tolerated_low_confidence(0.26)	benign(0.188)	4/18	.	hmmpanther:PTHR25042:SF12,hmmpanther:PTHR25042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCATCCTCAC	.	5	BLCA
PTPRZ1	0	.	GRCh37	7	121676718	121676718	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5349C>T	p.%3D	p.I1783I	ENST00000393386	18/30	41	30	11	55	55	0	PTPRZ1,synonymous_variant,p.%3D,ENST00000449182,;PTPRZ1,synonymous_variant,p.%3D,ENST00000393386,;PTPRZ1,non_coding_transcript_exon_variant,,ENST00000470504,;PTPRZ1,downstream_gene_variant,,ENST00000468641,;PTPRZ1,downstream_gene_variant,,ENST00000483995,;PTPRZ1,downstream_gene_variant,,ENST00000489114,;	T	ENSG00000106278	ENST00000393386	Transcript	synonymous_variant	5760	5349	1783	I	atC/atT	.	.	.	1	PTPRZ1	HGNC	9685	protein_coding	YES	CCDS34740.1	ENSP00000377047	PTPRZ_HUMAN	.	UPI000020F9BB	.	.	.	18/30	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF214,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00194,Superfamily_domains:SSF52799,Prints_domain:PR00700	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATATCAATGC	.	5	BLCA
AASS	0	.	GRCh37	7	121773665	121773665	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.116G>A	p.Arg39Lys	p.R39K	ENST00000393376	1/23	57	46	11	64	64	0	AASS,missense_variant,p.Arg39Lys,ENST00000417368,;AASS,missense_variant,p.Arg39Lys,ENST00000393376,;AASS,intron_variant,,ENST00000473553,;AASS,missense_variant,p.Arg39Lys,ENST00000358954,;AASS,missense_variant,p.Arg39Lys,ENST00000431170,;	T	ENSG00000008311	ENST00000393376	Transcript	missense_variant	212	116	39	R/K	aGg/aAg	.	.	.	-1	AASS	HGNC	17366	protein_coding	YES	CCDS5783.1	ENSP00000377040	AASS_HUMAN	A4D0W4_HUMAN	UPI000004A105	.	deleterious(0)	probably_damaging(0.999)	1/23	.	hmmpanther:PTHR11133:SF11,hmmpanther:PTHR11133,Gene3D:3.40.50.1770,Pfam_domain:PF05222,SMART_domains:SM01003,Superfamily_domains:SSF52283	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCCCTTCTC	.	5	BLCA
CPA2	0	.	GRCh37	7	129929454	129929454	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1127C>G	p.Ser376Ter	p.S376*	ENST00000222481	11/11	75	63	11	86	86	0	CPA2,stop_gained,p.Ser376Ter,ENST00000222481,;CPA4,upstream_gene_variant,,ENST00000445470,;CPA4,upstream_gene_variant,,ENST00000492072,;CPA4,upstream_gene_variant,,ENST00000493259,;CPA4,upstream_gene_variant,,ENST00000486598,;CPA4,upstream_gene_variant,,ENST00000473956,;CPA4,upstream_gene_variant,,ENST00000222482,;CPA4,upstream_gene_variant,,ENST00000470542,;CPA4,upstream_gene_variant,,ENST00000474254,;CPA4,upstream_gene_variant,,ENST00000497388,;CPA4,upstream_gene_variant,,ENST00000490117,;	G	ENSG00000158516	ENST00000222481	Transcript	stop_gained	1182	1127	376	S/*	tCa/tGa	.	.	.	1	CPA2	HGNC	2297	protein_coding	YES	CCDS5817.2	ENSP00000222481	CBPA2_HUMAN	.	UPI00005A7711	.	.	.	11/11	.	hmmpanther:PTHR11705:SF50,hmmpanther:PTHR11705,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTACTCATTTG	.	5	BLCA
ZC3HAV1	0	.	GRCh37	7	138764853	138764853	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.834G>T	p.Gln278His	p.Q278H	ENST00000242351	4/13	97	65	31	142	141	0	ZC3HAV1,missense_variant,p.Gln278His,ENST00000471652,;ZC3HAV1,missense_variant,p.Gln278His,ENST00000464606,;ZC3HAV1,missense_variant,p.Gln278His,ENST00000242351,;ZC3HAV1,upstream_gene_variant,,ENST00000460845,;	A	ENSG00000105939	ENST00000242351	Transcript	missense_variant	1151	834	278	Q/H	caG/caT	.	.	.	-1	ZC3HAV1	HGNC	23721	protein_coding	YES	CCDS5851.1	ENSP00000242351	ZCCHV_HUMAN	.	UPI00001612AE	.	tolerated(0.11)	benign(0)	4/13	.	hmmpanther:PTHR14453,hmmpanther:PTHR14453:SF49	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGATCTGATC	.	5	BLCA
WEE2	0	.	GRCh37	7	141414074	141414074	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.408G>A	p.%3D	p.L136L	ENST00000397541	2/12	110	86	23	156	156	0	WEE2,synonymous_variant,p.%3D,ENST00000397541,;WEE2,upstream_gene_variant,,ENST00000493845,;WEE2-AS1,non_coding_transcript_exon_variant,,ENST00000488785,;WEE2-AS1,non_coding_transcript_exon_variant,,ENST00000471512,;WEE2-AS1,non_coding_transcript_exon_variant,,ENST00000478332,;WEE2-AS1,non_coding_transcript_exon_variant,,ENST00000462383,;WEE2-AS1,intron_variant,,ENST00000495800,;WEE2-AS1,intron_variant,,ENST00000459753,;WEE2-AS1,intron_variant,,ENST00000465110,;	A	ENSG00000214102	ENST00000397541	Transcript	synonymous_variant	814	408	136	L	ttG/ttA	.	.	.	1	WEE2	HGNC	19684	protein_coding	YES	CCDS43660.1	ENSP00000380675	WEE2_HUMAN	.	UPI000004E9D3	.	.	.	2/12	.	PIRSF_domain:PIRSF037281,hmmpanther:PTHR11042,hmmpanther:PTHR11042:SF75	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTGAAGCT	.	5	BLCA
TAS2R39	0	.	GRCh37	7	142881470	142881470	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.959G>A	p.Arg320Lys	p.R320K	ENST00000446620	1/1	22	16	6	17	17	0	TAS2R39,missense_variant,p.Arg320Lys,ENST00000446620,;	A	ENSG00000236398	ENST00000446620	Transcript	missense_variant	959	959	320	R/K	aGa/aAa	.	.	.	1	TAS2R39	HGNC	18886	protein_coding	YES	CCDS47729.1	ENSP00000405095	T2R39_HUMAN	Q50KL2_HUMAN	UPI00000620BE	.	deleterious(0.04)	benign(0.401)	1/1	.	Superfamily_domains:SSF81321,Pfam_domain:PF05296,hmmpanther:PTHR11394:SF40,hmmpanther:PTHR11394	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GAGAAGAGCCT	.	4	BLCA
CUL1	0	.	GRCh37	7	148457438	148457438	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639G>C	p.%3D	p.L213L	ENST00000325222	7/22	89	80	9	110	110	0	CUL1,synonymous_variant,p.%3D,ENST00000602748,;CUL1,synonymous_variant,p.%3D,ENST00000325222,;CUL1,synonymous_variant,p.%3D,ENST00000409469,;	C	ENSG00000055130	ENST00000325222	Transcript	synonymous_variant	918	639	213	L	ctG/ctC	.	.	.	1	CUL1	HGNC	2551	protein_coding	YES	CCDS34772.1	ENSP00000326804	CUL1_HUMAN	Q75MQ1_HUMAN,B3KU45_HUMAN,B3KTW0_HUMAN	UPI00001286E6	.	.	.	7/22	.	hmmpanther:PTHR11932,hmmpanther:PTHR11932:SF19,Gene3D:1.20.1310.10,Pfam_domain:PF00888,Superfamily_domains:SSF74788	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTGAATGA	.	4	BLCA
ZNF282	0	.	GRCh37	7	148921623	148921623	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1900G>A	p.Glu634Lys	p.E634K	ENST00000262085	8/8	37	24	12	21	21	0	ZNF282,missense_variant,p.Glu634Lys,ENST00000262085,;ZNF282,3_prime_UTR_variant,,ENST00000479907,;ZNF282,downstream_gene_variant,,ENST00000470381,;	A	ENSG00000170265	ENST00000262085	Transcript	missense_variant	2005	1900	634	E/K	Gag/Aag	.	.	.	1	ZNF282	HGNC	13076	protein_coding	YES	CCDS5895.1	ENSP00000262085	ZN282_HUMAN	Q86YG2_HUMAN	UPI000013D255	.	tolerated(0.08)	possibly_damaging(0.821)	8/8	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24375:SF21,hmmpanther:PTHR24375,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGCGAGTGC	.	5	BLCA
KMT2C	0	.	GRCh37	7	151845784	151845784	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13228G>A	p.Asp4410Asn	p.D4410N	ENST00000262189	52/59	42	37	5	81	81	0	KMT2C,missense_variant,p.Asp4467Asn,ENST00000355193,;KMT2C,missense_variant,p.Asp1027Asn,ENST00000424877,;KMT2C,missense_variant,p.Asp1971Asn,ENST00000360104,;KMT2C,missense_variant,p.Asp4410Asn,ENST00000262189,;KMT2C,downstream_gene_variant,,ENST00000418061,;KMT2C,downstream_gene_variant,,ENST00000485241,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	T	ENSG00000055609	ENST00000262189	Transcript	missense_variant	13447	13228	4410	D/N	Gat/Aat	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	probably_damaging(0.999)	52/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATCACCTT	.	4	BLCA
KMT2C	0	.	GRCh37	7	151880090	151880090	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5234C>G	p.Ser1745Ter	p.S1745*	ENST00000262189	35/59	137	107	30	170	169	0	KMT2C,stop_gained,p.Ser1745Ter,ENST00000355193,;KMT2C,stop_gained,p.Ser1745Ter,ENST00000262189,;KMT2C,upstream_gene_variant,,ENST00000558665,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	C	ENSG00000055609	ENST00000262189	Transcript	stop_gained	5453	5234	1745	S/*	tCa/tGa	COSM162520,COSM162521	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	35/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTGATTCT	.	5	BLCA
SHH	0	.	GRCh37	7	155596208	155596208	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775G>C	p.Glu259Gln	p.E259Q	ENST00000297261	3/3	13	8	5	16	16	0	SHH,missense_variant,p.Glu259Gln,ENST00000297261,;SHH,intron_variant,,ENST00000430104,;SHH,downstream_gene_variant,,ENST00000472308,;SHH,intron_variant,,ENST00000441114,;SHH,intron_variant,,ENST00000435425,;	G	ENSG00000164690	ENST00000297261	Transcript	missense_variant	926	775	259	E/Q	Gag/Cag	.	.	.	-1	SHH	HGNC	10848	protein_coding	YES	CCDS5942.1	ENSP00000297261	SHH_HUMAN	D9ZGF9_HUMAN	UPI0000135942	.	tolerated(0.17)	benign(0.026)	3/3	.	PROSITE_profiles:PS50817,hmmpanther:PTHR11889:SF36,hmmpanther:PTHR11889,Gene3D:2.170.16.10,Pfam_domain:PF01079,PIRSF_domain:PIRSF009400,SMART_domains:SM00306,Superfamily_domains:SSF51294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGCTCCCGCG	.	2	BLCA
ESYT2	0	.	GRCh37	7	158554234	158554234	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1330C>T	p.Leu444Phe	p.L444F	ENST00000251527	11/22	86	72	13	77	77	0	ESYT2,missense_variant,p.Leu444Phe,ENST00000251527,;ESYT2,missense_variant,p.Leu414Phe,ENST00000275418,;	A	ENSG00000117868	ENST00000251527	Transcript	missense_variant	1396	1330	444	L/F	Ctt/Ttt	.	.	.	-1	ESYT2	HGNC	22211	protein_coding	YES	CCDS34791.1	ENSP00000251527	ESYT2_HUMAN	.	UPI00002339BD	.	tolerated(0.08)	benign(0.067)	11/22	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,hmmpanther:PTHR10774,hmmpanther:PTHR10774:SF6,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATAAGACTAT	.	4	BLCA
STK31	0	.	GRCh37	7	23808778	23808778	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1581C>T	p.%3D	p.F527F	ENST00000355870	12/24	64	51	12	81	80	1	STK31,synonymous_variant,p.%3D,ENST00000428484,;STK31,synonymous_variant,p.%3D,ENST00000354639,;STK31,synonymous_variant,p.%3D,ENST00000355870,;STK31,synonymous_variant,p.%3D,ENST00000433467,;STK31,non_coding_transcript_exon_variant,,ENST00000478321,;STK31,non_coding_transcript_exon_variant,,ENST00000405627,;STK31,non_coding_transcript_exon_variant,,ENST00000476399,;	T	ENSG00000196335	ENST00000355870	Transcript	synonymous_variant	1700	1581	527	F	ttC/ttT	COSM3637543	.	.	1	STK31	HGNC	11407	protein_coding	YES	CCDS5386.1	ENSP00000348132	STK31_HUMAN	Q75MZ9_HUMAN,F8W6E7_HUMAN,E9PRQ0_HUMAN,C9JQW5_HUMAN,B3KY91_HUMAN	UPI0000167B73	.	.	.	12/24	.	hmmpanther:PTHR12302:SF0,hmmpanther:PTHR12302	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTCCAAAG	.	5	BLCA
STK31	0	.	GRCh37	7	23810741	23810741	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1831G>C	p.Glu611Gln	p.E611Q	ENST00000355870	14/24	68	55	13	97	97	0	STK31,missense_variant,p.Glu588Gln,ENST00000428484,;STK31,missense_variant,p.Glu588Gln,ENST00000354639,;STK31,missense_variant,p.Glu611Gln,ENST00000355870,;STK31,missense_variant,p.Glu611Gln,ENST00000433467,;STK31,splice_region_variant,,ENST00000478321,;STK31,splice_region_variant,,ENST00000405627,;STK31,non_coding_transcript_exon_variant,,ENST00000476399,;	C	ENSG00000196335	ENST00000355870	Transcript	missense_variant	1950	1831	611	E/Q	Gag/Cag	.	.	.	1	STK31	HGNC	11407	protein_coding	YES	CCDS5386.1	ENSP00000348132	STK31_HUMAN	Q75MZ9_HUMAN,F8W6E7_HUMAN,E9PRQ0_HUMAN,C9JQW5_HUMAN,B3KY91_HUMAN	UPI0000167B73	.	deleterious(0.04)	benign(0.303)	14/24	.	hmmpanther:PTHR12302:SF0,hmmpanther:PTHR12302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTGAGGTT	.	5	BLCA
TAX1BP1	0	.	GRCh37	7	27868398	27868398	+	Missense_Mutation	SNP	G	G	C	rs767505918	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2320G>C	p.Glu774Gln	p.E774Q	ENST00000396319	17/17	101	83	17	159	159	0	TAX1BP1,missense_variant,p.Glu311Gln,ENST00000457186,;TAX1BP1,missense_variant,p.Glu774Gln,ENST00000396319,;TAX1BP1,missense_variant,p.Glu575Gln,ENST00000433216,;TAX1BP1,missense_variant,p.Glu732Gln,ENST00000265393,;TAX1BP1,missense_variant,p.Glu732Gln,ENST00000543117,;TAX1BP1,missense_variant,p.Glu798Gln,ENST00000409980,;TAX1BP1,missense_variant,p.Glu58Gln,ENST00000488564,;JAZF1,downstream_gene_variant,,ENST00000430432,;JAZF1,downstream_gene_variant,,ENST00000283928,;JAZF1,downstream_gene_variant,,ENST00000447620,;JAZF1,downstream_gene_variant,,ENST00000427814,;TAX1BP1,non_coding_transcript_exon_variant,,ENST00000460059,;JAZF1,downstream_gene_variant,,ENST00000466516,;TAX1BP1,3_prime_UTR_variant,,ENST00000416801,;	C	ENSG00000106052	ENST00000396319	Transcript	missense_variant	2408	2320	774	E/Q	Gaa/Caa	rs767505918	.	.	1	TAX1BP1	HGNC	11575	protein_coding	YES	CCDS5415.1	ENSP00000379612	TAXB1_HUMAN	C9JBZ7_HUMAN,C9J7J4_HUMAN,A4D196_HUMAN	UPI00000723AD	.	deleterious(0.04)	possibly_damaging(0.53)	17/17	.	hmmpanther:PTHR31915,hmmpanther:PTHR31915:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGAAAGG	.	5	BLCA
CREB5	0	.	GRCh37	7	28725767	28725767	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.465-32603C>T	.	.	ENST00000357727	.	130	100	29	194	194	0	CREB5,5_prime_UTR_variant,,ENST00000396298,;CREB5,intron_variant,,ENST00000426500,;CREB5,intron_variant,,ENST00000357727,;CREB5,intron_variant,,ENST00000396300,;CREB5,intron_variant,,ENST00000409603,;CREB5,intron_variant,,ENST00000396299,;CREB5,non_coding_transcript_exon_variant,,ENST00000484383,;CREB5,intron_variant,,ENST00000461921,;CREB5,non_coding_transcript_exon_variant,,ENST00000468391,;	T	ENSG00000146592	ENST00000357727	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CREB5	HGNC	16844	protein_coding	YES	CCDS5417.1	ENSP00000350359	CREB5_HUMAN	H9KVC5_HUMAN,C9JN33_HUMAN	UPI0000457534	.	.	.	.	5/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCATGTT	.	5	BLCA
MTURN	0	.	GRCh37	7	30185805	30185805	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>T	p.Glu59Ter	p.E59*	ENST00000324453	2/3	60	42	17	86	86	0	MTURN,stop_gained,p.Glu26Ter,ENST00000455738,;MTURN,stop_gained,p.Glu59Ter,ENST00000324453,;MTURN,stop_gained,p.Glu26Ter,ENST00000324489,;MTURN,stop_gained,p.Glu59Ter,ENST00000415604,;MTURN,stop_gained,p.Glu42Ter,ENST00000434060,;MTURN,intron_variant,,ENST00000409688,;AC007036.4,downstream_gene_variant,,ENST00000415934,;	T	ENSG00000180354	ENST00000324453	Transcript	stop_gained	502	175	59	E/*	Gag/Tag	.	.	.	1	MTURN	HGNC	25457	protein_coding	YES	CCDS5425.2	ENSP00000324204	CG041_HUMAN	B4DH90_HUMAN	UPI0000073903	.	.	.	2/3	.	Pfam_domain:PF15167,hmmpanther:PTHR32008	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGTGAGAGC	.	5	BLCA
AOAH	0	.	GRCh37	7	36662829	36662829	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549A>G	p.%3D	p.K183K	ENST00000258749	7/21	44	38	6	54	54	0	AOAH,synonymous_variant,p.%3D,ENST00000535891,;AOAH,synonymous_variant,p.%3D,ENST00000431169,;AOAH,synonymous_variant,p.%3D,ENST00000258749,;AOAH,non_coding_transcript_exon_variant,,ENST00000543742,;	C	ENSG00000136250	ENST00000258749	Transcript	synonymous_variant	949	549	183	K	aaA/aaG	.	.	.	-1	AOAH	HGNC	548	protein_coding	YES	CCDS5448.1	ENSP00000258749	AOAH_HUMAN	.	UPI0000001291	.	.	.	7/21	.	hmmpanther:PTHR15010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATCTTTGAA	.	5	BLCA
SDK1	0	.	GRCh37	7	4116724	4116724	+	Silent	SNP	C	C	T	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3105C>T	p.%3D	p.L1035L	ENST00000404826	21/45	35	28	7	39	39	0	SDK1,synonymous_variant,p.%3D,ENST00000404826,;SDK1,synonymous_variant,p.%3D,ENST00000389531,;	T	ENSG00000146555	ENST00000404826	Transcript	synonymous_variant	3244	3105	1035	L	ctC/ctT	COSM3638658	.	.	1	SDK1	HGNC	19307	protein_coding	YES	CCDS34590.1	ENSP00000385899	SDK1_HUMAN	.	UPI0000DBEEC4	.	.	.	21/45	.	PROSITE_profiles:PS50853,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF36,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTCATC	.	5	BLCA
STK17A	0	.	GRCh37	7	43659295	43659295	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664G>A	p.Glu222Lys	p.E222K	ENST00000319357	4/7	75	59	15	134	134	0	STK17A,missense_variant,p.Glu222Lys,ENST00000319357,;STK17A,non_coding_transcript_exon_variant,,ENST00000462448,;COA1,intron_variant,,ENST00000415076,;COA1,intron_variant,,ENST00000446564,;COA1,intron_variant,,ENST00000446330,;STK17A,upstream_gene_variant,,ENST00000474211,;	A	ENSG00000164543	ENST00000319357	Transcript	missense_variant	843	664	222	E/K	Gaa/Aaa	.	.	.	1	STK17A	HGNC	11395	protein_coding	YES	CCDS5470.1	ENSP00000319192	ST17A_HUMAN	Q86UI9_HUMAN,Q75MK4_HUMAN	UPI00001405A1	.	deleterious(0)	probably_damaging(1)	4/7	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24342,hmmpanther:PTHR24342:SF6,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCGAGAAATT	.	5	BLCA
TBRG4	0	.	GRCh37	7	45145091	45145091	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684G>A	p.Met228Ile	p.M228I	ENST00000258770	3/11	117	95	22	189	189	0	TBRG4,missense_variant,p.Met228Ile,ENST00000361278,;TBRG4,missense_variant,p.Met228Ile,ENST00000258770,;TBRG4,missense_variant,p.Met228Ile,ENST00000494076,;TBRG4,missense_variant,p.Met228Ile,ENST00000395655,;TBRG4,missense_variant,p.Met174Ile,ENST00000461363,;TBRG4,missense_variant,p.Met193Ile,ENST00000478532,;TBRG4,downstream_gene_variant,,ENST00000475893,;TBRG4,downstream_gene_variant,,ENST00000495078,;TBRG4,downstream_gene_variant,,ENST00000482285,;TBRG4,upstream_gene_variant,,ENST00000483615,;SNORA5B,downstream_gene_variant,,ENST00000363786,;SNORA5A,upstream_gene_variant,,ENST00000384111,;SNORA5C,upstream_gene_variant,,ENST00000364902,;TBRG4,downstream_gene_variant,,ENST00000471142,;TBRG4,non_coding_transcript_exon_variant,,ENST00000477328,;TBRG4,non_coding_transcript_exon_variant,,ENST00000495973,;TBRG4,non_coding_transcript_exon_variant,,ENST00000488222,;TBRG4,upstream_gene_variant,,ENST00000484326,;TBRG4,upstream_gene_variant,,ENST00000478116,;TBRG4,upstream_gene_variant,,ENST00000482482,;	T	ENSG00000136270	ENST00000258770	Transcript	missense_variant	806	684	228	M/I	atG/atA	.	.	.	-1	TBRG4	HGNC	17443	protein_coding	YES	CCDS5501.1	ENSP00000258770	TBRG4_HUMAN	D3DVL7_HUMAN,C9J7P5_HUMAN,C9J618_HUMAN,C9J5A2_HUMAN,C9J347_HUMAN,B4DU42_HUMAN,B3KRS4_HUMAN	UPI0000071F89	.	tolerated(0.15)	benign(0.08)	3/11	.	hmmpanther:PTHR21228:SF26,hmmpanther:PTHR21228	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATCATGAC	.	5	BLCA
IGFBP1	0	.	GRCh37	7	45930194	45930194	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>A	p.Glu133Lys	p.E133K	ENST00000275525	2/4	56	49	7	74	74	0	IGFBP1,missense_variant,p.Glu133Lys,ENST00000468955,;IGFBP1,missense_variant,p.Glu133Lys,ENST00000275525,;IGFBP1,missense_variant,p.Glu133Lys,ENST00000457280,;	A	ENSG00000146678	ENST00000275525	Transcript	missense_variant	693	397	133	E/K	Gag/Aag	.	.	.	1	IGFBP1	HGNC	5469	protein_coding	YES	CCDS5504.1	ENSP00000275525	IBP1_HUMAN	C1K3N3_HUMAN	UPI000012D10E	.	deleterious(0.02)	benign(0.012)	2/4	.	hmmpanther:PTHR11551:SF6,hmmpanther:PTHR11551,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGAGGAGCTC	.	4	BLCA
ZNF713	0	.	GRCh37	7	56007770	56007770	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71C>T	.	.	ENST00000429591	4/4	17	12	5	24	24	0	ZNF713,3_prime_UTR_variant,,ENST00000429591,;MRPS17,intron_variant,,ENST00000426595,;	T	ENSG00000178665	ENST00000429591	Transcript	3_prime_UTR_variant	1402	.	.	.	.	.	.	.	1	ZNF713	HGNC	22043	protein_coding	YES	CCDS34639.1	ENSP00000416662	ZN713_HUMAN	.	UPI000007283F	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCATTCAATAT	.	4	BLCA
ASL	0	.	GRCh37	7	65557059	65557059	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129C>G	p.Leu377Val	p.L377V	ENST00000304874	15/17	76	65	10	112	112	0	ASL,missense_variant,p.Leu351Val,ENST00000380839,;ASL,missense_variant,p.Leu357Val,ENST00000395331,;ASL,missense_variant,p.Leu377Val,ENST00000304874,;AC068533.7,missense_variant,p.Leu146Val,ENST00000450043,;ASL,missense_variant,p.Leu377Val,ENST00000395332,;ASL,downstream_gene_variant,,ENST00000362000,;ASL,non_coding_transcript_exon_variant,,ENST00000464970,;ASL,intron_variant,,ENST00000488343,;ASL,non_coding_transcript_exon_variant,,ENST00000493708,;ASL,downstream_gene_variant,,ENST00000487982,;	G	ENSG00000126522	ENST00000304874	Transcript	missense_variant	1231	1129	377	L/V	Ctg/Gtg	.	.	.	1	ASL	HGNC	746	protein_coding	YES	CCDS5531.1	ENSP00000307188	ARLY_HUMAN	.	UPI0000001634	.	deleterious(0)	possibly_damaging(0.858)	15/17	.	HAMAP:MF_00006,hmmpanther:PTHR11444,hmmpanther:PTHR11444:SF3,TIGRFAM_domain:TIGR00838,Gene3D:1.20.200.10,Pfam_domain:PF14698,Superfamily_domains:SSF48557	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTACCTGGTC	.	4	BLCA
AUTS2	0	.	GRCh37	7	69064835	69064835	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>A	p.Ala66Thr	p.A66T	ENST00000342771	1/19	18	15	3	20	20	0	AUTS2,missense_variant,p.Ala66Thr,ENST00000342771,;AUTS2,missense_variant,p.Ala66Thr,ENST00000403018,;AUTS2,missense_variant,p.Ala66Thr,ENST00000406775,;RP5-942I16.1,upstream_gene_variant,,ENST00000436600,;	A	ENSG00000158321	ENST00000342771	Transcript	missense_variant	517	196	66	A/T	Gcc/Acc	.	.	.	1	AUTS2	HGNC	14262	protein_coding	YES	CCDS5539.1	ENSP00000344087	AUTS2_HUMAN	Q75MQ7_HUMAN,Q75MQ4_HUMAN,Q75MQ3_HUMAN,Q75MD7_HUMAN	UPI0000126665	.	tolerated_low_confidence(0.23)	benign(0.206)	1/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14429:SF5,hmmpanther:PTHR14429	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCCGCCCCG	.	2	BLCA
MLXIPL	0	.	GRCh37	7	73008651	73008651	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2393C>G	p.Ser798Ter	p.S798*	ENST00000313375	16/17	35	26	8	48	48	0	MLXIPL,stop_gained,p.Ser798Ter,ENST00000313375,;MLXIPL,stop_gained,p.Ser704Ter,ENST00000434326,;MLXIPL,stop_gained,p.Ser705Ter,ENST00000395189,;MLXIPL,stop_gained,p.Ser779Ter,ENST00000429400,;MLXIPL,stop_gained,p.Ser777Ter,ENST00000354613,;MLXIPL,stop_gained,p.Ser796Ter,ENST00000414749,;MLXIPL,downstream_gene_variant,,ENST00000453275,;MLXIPL,3_prime_UTR_variant,,ENST00000345114,;MLXIPL,downstream_gene_variant,,ENST00000467221,;MLXIPL,downstream_gene_variant,,ENST00000476404,;	C	ENSG00000009950	ENST00000313375	Transcript	stop_gained	2441	2393	798	S/*	tCa/tGa	.	.	.	-1	MLXIPL	HGNC	12744	protein_coding	YES	CCDS5553.1	ENSP00000320886	MLXPL_HUMAN	S5LSP3_HUMAN	UPI0000138F98	.	.	.	16/17	.	hmmpanther:PTHR15741:SF14,hmmpanther:PTHR15741	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGTGAGGTC	.	5	BLCA
SRCRB4D	0	.	GRCh37	7	76019351	76019351	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*25C>T	.	.	ENST00000275560	11/11	47	33	14	62	62	0	SRCRB4D,3_prime_UTR_variant,,ENST00000275560,;SRCRB4D,non_coding_transcript_exon_variant,,ENST00000492979,;	A	ENSG00000146700	ENST00000275560	Transcript	3_prime_UTR_variant	2101	.	.	.	.	.	.	.	-1	SRCRB4D	HGNC	14461	protein_coding	YES	CCDS5585.1	ENSP00000275560	SRB4D_HUMAN	.	UPI000006D197	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAGGTG	.	5	BLCA
CACNA2D1	0	.	GRCh37	7	81588617	81588617	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3133G>C	p.Asp1045His	p.D1045H	ENST00000356860	38/39	52	46	5	94	94	0	CACNA2D1,missense_variant,p.Asp1057His,ENST00000356253,;CACNA2D1,missense_variant,p.Asp1045His,ENST00000356860,;CACNA2D1,missense_variant,p.Asp257His,ENST00000535308,;CACNA2D1,downstream_gene_variant,,ENST00000469297,;	G	ENSG00000153956	ENST00000356860	Transcript	missense_variant	3472	3133	1045	D/H	Gat/Cat	.	.	.	-1	CACNA2D1	HGNC	1399	protein_coding	YES	CCDS5598.1	ENSP00000349320	CA2D1_HUMAN	Q9UDU5_HUMAN,Q9UDQ3_HUMAN,Q9UDL7_HUMAN,O95026_HUMAN	UPI00003674CD	.	tolerated(0.45)	possibly_damaging(0.853)	38/39	.	hmmpanther:PTHR10166,hmmpanther:PTHR10166:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACATCAGGCC	.	4	BLCA
AKAP9	0	.	GRCh37	7	91630939	91630939	+	Missense_Mutation	SNP	G	G	C	rs778811102	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1708G>C	p.Asp570His	p.D570H	ENST00000356239	8/50	41	32	9	70	70	0	AKAP9,missense_variant,p.Asp570His,ENST00000356239,;AKAP9,missense_variant,p.Asp582His,ENST00000359028,;AKAP9,missense_variant,p.Asp582His,ENST00000358100,;AKAP9,non_coding_transcript_exon_variant,,ENST00000493453,;	C	ENSG00000127914	ENST00000356239	Transcript	missense_variant	1941	1708	570	D/H	Gat/Cat	rs778811102	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.982)	8/50	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAAGATTTG	byCluster	5	BLCA
AKAP9	0	.	GRCh37	7	91631431	91631431	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2200G>A	p.Glu734Lys	p.E734K	ENST00000356239	8/50	38	26	12	67	67	0	AKAP9,missense_variant,p.Glu734Lys,ENST00000356239,;AKAP9,missense_variant,p.Glu746Lys,ENST00000359028,;AKAP9,missense_variant,p.Glu746Lys,ENST00000358100,;AKAP9,non_coding_transcript_exon_variant,,ENST00000493453,;	A	ENSG00000127914	ENST00000356239	Transcript	missense_variant	2433	2200	734	E/K	Gaa/Aaa	.	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.999)	8/50	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACAAGAAGAA	.	5	BLCA
AKAP9	0	.	GRCh37	7	91690718	91690718	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5746G>C	p.Glu1916Gln	p.E1916Q	ENST00000356239	23/50	36	32	4	38	38	0	AKAP9,missense_variant,p.Glu1916Gln,ENST00000356239,;AKAP9,missense_variant,p.Glu1928Gln,ENST00000359028,;AKAP9,missense_variant,p.Glu1928Gln,ENST00000358100,;AKAP9,non_coding_transcript_exon_variant,,ENST00000491695,;	C	ENSG00000127914	ENST00000356239	Transcript	missense_variant	5979	5746	1916	E/Q	Gag/Cag	.	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	possibly_damaging(0.904)	23/50	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTGGAGCTC	.	2	BLCA
AKAP9	0	.	GRCh37	7	91726008	91726008	+	Silent	SNP	G	G	A	rs753546371	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9735G>A	p.%3D	p.L3245L	ENST00000356239	41/50	45	38	6	73	73	0	AKAP9,synonymous_variant,p.%3D,ENST00000356239,;AKAP9,synonymous_variant,p.%3D,ENST00000359028,;AKAP9,synonymous_variant,p.%3D,ENST00000394534,;AKAP9,synonymous_variant,p.%3D,ENST00000358100,;AKAP9,non_coding_transcript_exon_variant,,ENST00000487258,;AKAP9,upstream_gene_variant,,ENST00000463118,;AKAP9,upstream_gene_variant,,ENST00000487692,;	A	ENSG00000127914	ENST00000356239	Transcript	synonymous_variant	9968	9735	3245	L	ctG/ctA	rs753546371	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	.	41/50	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTGAAGTT	byFrequency	5	BLCA
ANKIB1	0	.	GRCh37	7	92019317	92019317	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1939G>A	p.Glu647Lys	p.E647K	ENST00000265742	15/20	85	80	5	104	104	0	ANKIB1,missense_variant,p.Glu647Lys,ENST00000265742,;ANKIB1,3_prime_UTR_variant,,ENST00000422095,;	A	ENSG00000001629	ENST00000265742	Transcript	missense_variant	2315	1939	647	E/K	Gaa/Aaa	.	.	.	1	ANKIB1	HGNC	22215	protein_coding	YES	CCDS47639.1	ENSP00000265742	AKIB1_HUMAN	Q4VBX8_HUMAN,C9JZ63_HUMAN	UPI00001C1E7C	.	tolerated(0.17)	possibly_damaging(0.885)	15/20	.	hmmpanther:PTHR11685:SF95,hmmpanther:PTHR11685	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCATTGAAGAT	.	2	BLCA
COL1A2	0	.	GRCh37	7	94057038	94057038	+	Missense_Mutation	SNP	C	C	T	rs765271962	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3367C>T	p.Arg1123Cys	p.R1123C	ENST00000297268	49/52	40	32	7	72	72	0	COL1A2,missense_variant,p.Arg1123Cys,ENST00000297268,;COL1A2,non_coding_transcript_exon_variant,,ENST00000481570,;COL1A2,non_coding_transcript_exon_variant,,ENST00000464916,;COL1A2,downstream_gene_variant,,ENST00000469732,;COL1A2,downstream_gene_variant,,ENST00000478215,;COL1A2,downstream_gene_variant,,ENST00000488121,;COL1A2,downstream_gene_variant,,ENST00000492110,;COL1A2,downstream_gene_variant,,ENST00000497316,;	T	ENSG00000164692	ENST00000297268	Transcript	missense_variant	3838	3367	1123	R/C	Cgc/Tgc	rs765271962	.	.	1	COL1A2	HGNC	2198	protein_coding	YES	CCDS34682.1	ENSP00000297268	CO1A2_HUMAN	Q75N18_HUMAN,A2TIK1_HUMAN	UPI00003B0CFC	.	.	unknown(0)	49/52	.	hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF441	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGCTCA	byFrequency	5	BLCA
COL1A2	0	.	GRCh37	7	94059612	94059612	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4008A>G	p.%3D	p.P1336P	ENST00000297268	52/52	114	87	27	157	157	0	COL1A2,synonymous_variant,p.%3D,ENST00000297268,;COL1A2,non_coding_transcript_exon_variant,,ENST00000464916,;COL1A2,non_coding_transcript_exon_variant,,ENST00000481570,;COL1A2,downstream_gene_variant,,ENST00000488121,;COL1A2,downstream_gene_variant,,ENST00000492110,;COL1A2,downstream_gene_variant,,ENST00000469732,;COL1A2,downstream_gene_variant,,ENST00000478215,;	G	ENSG00000164692	ENST00000297268	Transcript	synonymous_variant	4479	4008	1336	P	ccA/ccG	.	.	.	1	COL1A2	HGNC	2198	protein_coding	YES	CCDS34682.1	ENSP00000297268	CO1A2_HUMAN	Q75N18_HUMAN,A2TIK1_HUMAN	UPI00003B0CFC	.	.	.	52/52	.	PROSITE_profiles:PS51461,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF441,Pfam_domain:PF01410,SMART_domains:SM00038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCCATCACG	.	5	BLCA
ZNF3	0	.	GRCh37	7	99669301	99669301	+	Missense_Mutation	SNP	G	G	C	rs770084334	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.806C>G	p.Ser269Cys	p.S269C	ENST00000303915	5/5	71	57	13	61	61	0	ZNF3,missense_variant,p.Ser269Cys,ENST00000303915,;ZNF3,missense_variant,p.Ser269Cys,ENST00000424697,;ZNF3,missense_variant,p.Ser269Cys,ENST00000299667,;ZNF3,intron_variant,,ENST00000413658,;ZNF3,downstream_gene_variant,,ENST00000415068,;ZNF3,downstream_gene_variant,,ENST00000428683,;ZNF3,downstream_gene_variant,,ENST00000441298,;ZNF3,downstream_gene_variant,,ENST00000412947,;ZNF3,downstream_gene_variant,,ENST00000449785,;ZNF3,downstream_gene_variant,,ENST00000292393,;ZNF3,non_coding_transcript_exon_variant,,ENST00000487620,;ZNF3,downstream_gene_variant,,ENST00000466121,;ZNF3,downstream_gene_variant,,ENST00000460331,;ZNF3,downstream_gene_variant,,ENST00000485892,;	C	ENSG00000166526	ENST00000303915	Transcript	missense_variant	1774	806	269	S/C	tCt/tGt	rs770084334	.	.	-1	ZNF3	HGNC	13089	protein_coding	YES	CCDS43619.1	ENSP00000306372	ZNF3_HUMAN	Q86U76_HUMAN,C9JK31_HUMAN,C9JIW8_HUMAN,C9JE35_HUMAN,C9J5S8_HUMAN	UPI000000D9B2	.	deleterious(0.01)	probably_damaging(0.962)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCAGAGCTA	.	5	BLCA
VPS13B	0	.	GRCh37	8	100454857	100454857	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3439G>C	p.Glu1147Gln	p.E1147Q	ENST00000358544	23/62	33	28	5	28	28	0	VPS13B,missense_variant,p.Glu1147Gln,ENST00000395996,;VPS13B,missense_variant,p.Glu1147Gln,ENST00000358544,;VPS13B,missense_variant,p.Glu1147Gln,ENST00000357162,;VPS13B,downstream_gene_variant,,ENST00000521037,;VPS13B,missense_variant,p.Glu1147Gln,ENST00000496144,;	C	ENSG00000132549	ENST00000358544	Transcript	missense_variant	3550	3439	1147	E/Q	Gaa/Caa	.	.	.	1	VPS13B	HGNC	2183	protein_coding	YES	CCDS6280.1	ENSP00000351346	VP13B_HUMAN	.	UPI00001D2D35	.	tolerated(0.09)	probably_damaging(0.942)	23/62	.	hmmpanther:PTHR12517,hmmpanther:PTHR12517:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TCCTTGAAGAA	.	2	BLCA
VPS13B	0	.	GRCh37	8	100791181	100791181	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7776G>A	p.%3D	p.V2592V	ENST00000358544	42/62	77	66	10	96	96	0	VPS13B,synonymous_variant,p.%3D,ENST00000358544,;VPS13B,synonymous_variant,p.%3D,ENST00000357162,;VPS13B,3_prime_UTR_variant,,ENST00000395996,;VPS13B,downstream_gene_variant,,ENST00000518569,;	A	ENSG00000132549	ENST00000358544	Transcript	synonymous_variant	7887	7776	2592	V	gtG/gtA	.	.	.	1	VPS13B	HGNC	2183	protein_coding	YES	CCDS6280.1	ENSP00000351346	VP13B_HUMAN	.	UPI00001D2D35	.	.	.	42/62	.	hmmpanther:PTHR12517,hmmpanther:PTHR12517:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCGTGATAGT	.	4	BLCA
PABPC1	0	.	GRCh37	8	101716565	101716565	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1872G>C	p.Gln624His	p.Q624H	ENST00000318607	14/15	175	129	45	235	235	0	PABPC1,missense_variant,p.Gln30His,ENST00000518293,;PABPC1,missense_variant,p.Gln579His,ENST00000519004,;PABPC1,missense_variant,p.Gln592His,ENST00000522387,;PABPC1,missense_variant,p.Gln157His,ENST00000520868,;PABPC1,missense_variant,p.Gln171His,ENST00000522658,;PABPC1,missense_variant,p.Gln124His,ENST00000517990,;PABPC1,missense_variant,p.Gln624His,ENST00000318607,;PABPC1,downstream_gene_variant,,ENST00000517403,;AP001205.1,downstream_gene_variant,,ENST00000579868,;PABPC1,downstream_gene_variant,,ENST00000519596,;PABPC1,3_prime_UTR_variant,,ENST00000523636,;PABPC1,downstream_gene_variant,,ENST00000519848,;PABPC1,downstream_gene_variant,,ENST00000519622,;PABPC1,downstream_gene_variant,,ENST00000518716,;	G	ENSG00000070756	ENST00000318607	Transcript	missense_variant	3001	1872	624	Q/H	caG/caC	.	.	.	-1	PABPC1	HGNC	8554	protein_coding	YES	CCDS6289.1	ENSP00000313007	PABP1_HUMAN	H0YB75_HUMAN,E7EQV3_HUMAN,E5RJM8_HUMAN,E5RJB9_HUMAN,E5RHG7_HUMAN,E5RH24_HUMAN,E5RGH3_HUMAN,E5RGC4_HUMAN,E5RFD8_HUMAN	UPI0000000BC4	.	tolerated(0.12)	benign(0.002)	14/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24011:SF239,hmmpanther:PTHR24011,Gene3D:1.10.1900.10,Superfamily_domains:SSF63570	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTCTGGGC	.	5	BLCA
GRHL2	0	.	GRCh37	8	102504985	102504985	+	5'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-13C>G	.	.	ENST00000251808	1/16	27	17	10	41	41	0	GRHL2,5_prime_UTR_variant,,ENST00000251808,;GRHL2,5_prime_UTR_variant,,ENST00000521085,;GRHL2,upstream_gene_variant,,ENST00000395927,;KB-1562D12.1,upstream_gene_variant,,ENST00000520268,;GRHL2,non_coding_transcript_exon_variant,,ENST00000472106,;	G	ENSG00000083307	ENST00000251808	Transcript	5_prime_UTR_variant	326	.	.	.	.	.	.	.	1	GRHL2	HGNC	2799	protein_coding	YES	CCDS34931.1	ENSP00000251808	GRHL2_HUMAN	.	UPI000013CD16	.	.	.	1/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTCATTGG	.	5	BLCA
UBR5	0	.	GRCh37	8	103284793	103284793	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6937G>C	p.Glu2313Gln	p.E2313Q	ENST00000520539	48/59	100	84	16	163	163	0	UBR5,missense_variant,p.Glu2313Gln,ENST00000520539,;UBR5,missense_variant,p.Glu2313Gln,ENST00000220959,;UBR5,missense_variant,p.Glu138Gln,ENST00000521566,;UBR5,missense_variant,p.Glu2307Gln,ENST00000521922,;UBR5,missense_variant,p.Glu42Gln,ENST00000518205,;UBR5,upstream_gene_variant,,ENST00000521767,;	G	ENSG00000104517	ENST00000520539	Transcript	missense_variant	7544	6937	2313	E/Q	Gag/Cag	.	.	.	-1	UBR5	HGNC	16806	protein_coding	YES	CCDS34933.1	ENSP00000429084	UBR5_HUMAN	Q49A65_HUMAN,E5RFK7_HUMAN,B3KML2_HUMAN	UPI0000129BCB	.	deleterious(0.02)	benign(0.012)	48/59	.	hmmpanther:PTHR11254:SF77,hmmpanther:PTHR11254,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACTCTAGAT	.	5	BLCA
CSMD3	0	.	GRCh37	8	113649141	113649141	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3620C>G	p.Ser1207Ter	p.S1207*	ENST00000297405	22/71	45	35	9	87	87	0	CSMD3,stop_gained,p.Ser1207Ter,ENST00000352409,;CSMD3,stop_gained,p.Ser1103Ter,ENST00000455883,;CSMD3,stop_gained,p.Ser1207Ter,ENST00000297405,;CSMD3,stop_gained,p.Ser547Ter,ENST00000339701,;CSMD3,stop_gained,p.Ser1167Ter,ENST00000343508,;	C	ENSG00000164796	ENST00000297405	Transcript	stop_gained	3865	3620	1207	S/*	tCa/tGa	.	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	.	.	22/71	.	PROSITE_profiles:PS50923,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGAGAAG	.	5	BLCA
COL14A1	0	.	GRCh37	8	121326259	121326259	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4544G>T	p.Gly1515Val	p.G1515V	ENST00000297848	38/48	59	48	11	86	86	0	COL14A1,missense_variant,p.Gly1515Val,ENST00000309791,;COL14A1,missense_variant,p.Gly1420Val,ENST00000247781,;COL14A1,missense_variant,p.Gly1515Val,ENST00000297848,;	T	ENSG00000187955	ENST00000297848	Transcript	missense_variant	4814	4544	1515	G/V	gGa/gTa	.	.	.	1	COL14A1	HGNC	2191	protein_coding	YES	CCDS34938.1	ENSP00000297848	COEA1_HUMAN	.	UPI000046D377	.	deleterious(0)	probably_damaging(1)	38/48	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22992:SF89,hmmpanther:PTHR22992,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAAGGAATGC	.	4	BLCA
TMEM65	0	.	GRCh37	8	125332377	125332377	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571C>G	p.Leu191Val	p.L191V	ENST00000297632	6/7	82	62	20	88	88	0	TMEM65,missense_variant,p.Leu191Val,ENST00000297632,;	C	ENSG00000164983	ENST00000297632	Transcript	missense_variant	1106	571	191	L/V	Ctc/Gtc	.	.	.	-1	TMEM65	HGNC	25203	protein_coding	YES	CCDS6348.1	ENSP00000297632	TMM65_HUMAN	.	UPI00003675D1	.	deleterious(0)	probably_damaging(0.942)	6/7	.	hmmpanther:PTHR21706,Pfam_domain:PF10507	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGAGATCAG	.	5	BLCA
OPLAH	0	.	GRCh37	8	145111642	145111642	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1723G>A	p.Glu575Lys	p.E575K	ENST00000426825	13/28	22	16	5	30	30	0	OPLAH,missense_variant,p.Glu575Lys,ENST00000426825,;OPLAH,non_coding_transcript_exon_variant,,ENST00000534424,;OPLAH,downstream_gene_variant,,ENST00000567871,;OPLAH,upstream_gene_variant,,ENST00000527993,;OPLAH,upstream_gene_variant,,ENST00000531027,;	T	ENSG00000178814	ENST00000426825	Transcript	missense_variant	1805	1723	575	E/K	Gag/Aag	.	.	.	-1	OPLAH	HGNC	8149	protein_coding	YES	.	ENSP00000475943	OPLA_HUMAN	.	UPI000035154E	.	deleterious(0.03)	benign(0.103)	13/28	.	hmmpanther:PTHR11365:SF2,hmmpanther:PTHR11365	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCAGTGC	.	5	BLCA
CPSF1	0	.	GRCh37	8	145625784	145625784	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790G>C	p.Asp264His	p.D264H	ENST00000349769	8/38	37	23	13	69	69	0	CPSF1,missense_variant,p.Asp264His,ENST00000349769,;CPSF1,downstream_gene_variant,,ENST00000531042,;MIR1234,upstream_gene_variant,,ENST00000408875,;CPSF1,non_coding_transcript_exon_variant,,ENST00000532560,;CPSF1,non_coding_transcript_exon_variant,,ENST00000531683,;CPSF1,upstream_gene_variant,,ENST00000533492,;CPSF1,upstream_gene_variant,,ENST00000529288,;CPSF1,upstream_gene_variant,,ENST00000527916,;CPSF1,upstream_gene_variant,,ENST00000527827,;	G	ENSG00000071894	ENST00000349769	Transcript	missense_variant	885	790	264	D/H	Gac/Cac	.	.	.	-1	CPSF1	HGNC	2324	protein_coding	YES	CCDS34966.1	ENSP00000339353	CPSF1_HUMAN	Q9C0J6_HUMAN,E9PIM1_HUMAN,D3DWL9_HUMAN	UPI00001282EE	.	deleterious(0)	probably_damaging(0.998)	8/38	.	hmmpanther:PTHR10644,hmmpanther:PTHR10644:SF2,Pfam_domain:PF10433	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGTCAAAGG	.	5	BLCA
TNFRSF10C	0	.	GRCh37	8	22972214	22972214	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.211G>A	p.Glu71Lys	p.E71K	ENST00000356864	3/5	58	41	17	69	69	0	TNFRSF10C,missense_variant,p.Glu71Lys,ENST00000356864,;TNFRSF10C,5_prime_UTR_variant,,ENST00000540813,;TNFRSF10C,non_coding_transcript_exon_variant,,ENST00000520607,;TNFRSF10C,synonymous_variant,p.%3D,ENST00000517558,;TNFRSF10C,non_coding_transcript_exon_variant,,ENST00000518135,;	A	ENSG00000173535	ENST00000356864	Transcript	missense_variant	743	211	71	E/K	Gag/Aag	.	.	.	1	TNFRSF10C	HGNC	11906	protein_coding	YES	CCDS6037.1	ENSP00000349324	TR10C_HUMAN	F5H6H7_HUMAN	UPI00001AF00A	.	tolerated(0.19)	benign(0.288)	3/5	.	PROSITE_profiles:PS50050,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF96,PROSITE_patterns:PS00652,Gene3D:2.10.50.10,Pfam_domain:PF00020,SMART_domains:SM00208,Superfamily_domains:SSF57586,Prints_domain:PR01956	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACAGAGGGT	.	5	BLCA
ZNF395	0	.	GRCh37	8	28218496	28218496	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146C>G	p.Ser49Cys	p.S49C	ENST00000344423	2/10	17	11	6	37	37	0	ZNF395,missense_variant,p.Ser49Cys,ENST00000520290,;ZNF395,missense_variant,p.Ser49Cys,ENST00000344423,;ZNF395,missense_variant,p.Ser49Cys,ENST00000521185,;ZNF395,missense_variant,p.Ser49Cys,ENST00000522795,;ZNF395,missense_variant,p.Ser49Cys,ENST00000521912,;ZNF395,missense_variant,p.Ser49Cys,ENST00000523202,;ZNF395,missense_variant,p.Ser49Cys,ENST00000523095,;ZNF395,downstream_gene_variant,,ENST00000517459,;ZNF395,downstream_gene_variant,,ENST00000519730,;FBXO16,synonymous_variant,p.%3D,ENST00000521548,;	C	ENSG00000186918	ENST00000344423	Transcript	missense_variant	278	146	49	S/C	tCt/tGt	.	.	.	-1	ZNF395	HGNC	18737	protein_coding	YES	CCDS6067.1	ENSP00000340494	ZN395_HUMAN	E5RH90_HUMAN,E5RGF1_HUMAN,E5RG59_HUMAN,E5RFV4_HUMAN	UPI0000073F08	.	tolerated(0.18)	benign(0.01)	2/10	.	hmmpanther:PTHR13006:SF6,hmmpanther:PTHR13006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCAGAGGTG	.	5	BLCA
TEX15	0	.	GRCh37	8	30704321	30704321	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2213G>T	p.Gly738Val	p.G738V	ENST00000256246	1/4	81	69	12	94	94	0	TEX15,missense_variant,p.Gly738Val,ENST00000256246,;TEX15,downstream_gene_variant,,ENST00000523186,;	A	ENSG00000133863	ENST00000256246	Transcript	missense_variant	2288	2213	738	G/V	gGa/gTa	.	.	.	-1	TEX15	HGNC	11738	protein_coding	YES	CCDS6080.1	ENSP00000256246	TEX15_HUMAN	D3DSV6_HUMAN	UPI000013CEF9	.	tolerated(0.06)	benign(0.346)	1/4	.	hmmpanther:PTHR22380,hmmpanther:PTHR22380:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTTCCTGTG	.	4	BLCA
RAB11FIP1	0	.	GRCh37	8	37734862	37734862	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579C>T	p.%3D	p.I193I	ENST00000330843	2/6	119	92	26	141	141	0	RAB11FIP1,synonymous_variant,p.%3D,ENST00000524118,;RAB11FIP1,synonymous_variant,p.%3D,ENST00000522727,;RAB11FIP1,synonymous_variant,p.%3D,ENST00000287263,;RAB11FIP1,synonymous_variant,p.%3D,ENST00000330843,;RAB11FIP1,upstream_gene_variant,,ENST00000523182,;RAB11FIP1,upstream_gene_variant,,ENST00000522774,;	A	ENSG00000156675	ENST00000330843	Transcript	synonymous_variant	592	579	193	I	atC/atT	.	.	.	-1	RAB11FIP1	HGNC	30265	protein_coding	YES	CCDS34882.1	ENSP00000331342	RFIP1_HUMAN	.	UPI0000D624B1	.	.	.	2/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15746,hmmpanther:PTHR15746:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGGGATGAT	.	5	BLCA
SMIM19	0	.	GRCh37	8	42407818	42407818	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*67C>T	.	.	ENST00000438528	4/4	26	19	7	40	40	0	SMIM19,3_prime_UTR_variant,,ENST00000414154,;SMIM19,3_prime_UTR_variant,,ENST00000490331,;SMIM19,3_prime_UTR_variant,,ENST00000417410,;SMIM19,3_prime_UTR_variant,,ENST00000438528,;SMIM19,downstream_gene_variant,,ENST00000518574,;SMIM19,downstream_gene_variant,,ENST00000416469,;RP11-503E24.3,upstream_gene_variant,,ENST00000607533,;SMIM19,downstream_gene_variant,,ENST00000529505,;SMIM19,3_prime_UTR_variant,,ENST00000498447,;	T	ENSG00000176209	ENST00000438528	Transcript	3_prime_UTR_variant	440	.	.	.	.	.	.	.	1	SMIM19	HGNC	25166	protein_coding	YES	CCDS6133.2	ENSP00000391549	SMI19_HUMAN	E5RKA7_HUMAN	UPI00002109C4	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAACAGCTT	.	2	BLCA
ST18	0	.	GRCh37	8	53062380	53062380	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1964C>T	p.Ala655Val	p.A655V	ENST00000276480	16/26	26	23	3	35	35	0	ST18,missense_variant,p.Ala655Val,ENST00000276480,;ST18,downstream_gene_variant,,ENST00000517580,;RP11-26M5.3,upstream_gene_variant,,ENST00000520496,;ST18,3_prime_UTR_variant,,ENST00000521824,;ST18,3_prime_UTR_variant,,ENST00000522251,;ST18,3_prime_UTR_variant,,ENST00000521582,;	A	ENSG00000147488	ENST00000276480	Transcript	missense_variant	2648	1964	655	A/V	gCa/gTa	.	.	.	-1	ST18	HGNC	18695	protein_coding	YES	CCDS6149.1	ENSP00000276480	ST18_HUMAN	E5RHS3_HUMAN	UPI0000046C30	.	tolerated(0.05)	probably_damaging(0.96)	16/26	.	hmmpanther:PTHR10816:SF9,hmmpanther:PTHR10816,Pfam_domain:PF08474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAATGCTGCA	.	2	BLCA
TCEA1	0	.	GRCh37	8	54934720	54934720	+	5'UTR	SNP	G	G	A	rs574717191	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-35C>T	.	.	ENST00000521604	1/10	42	31	11	72	72	0	TCEA1,5_prime_UTR_variant,,ENST00000396401,;TCEA1,5_prime_UTR_variant,,ENST00000522635,;TCEA1,5_prime_UTR_variant,,ENST00000521604,;TCEA1,upstream_gene_variant,,ENST00000520534,;TCEA1,upstream_gene_variant,,ENST00000518784,;TCEA1,non_coding_transcript_exon_variant,,ENST00000521086,;TCEA1,non_coding_transcript_exon_variant,,ENST00000517351,;TCEA1,intron_variant,,ENST00000522397,;TCEA1,upstream_gene_variant,,ENST00000521836,;TCEA1,5_prime_UTR_variant,,ENST00000518310,;TCEA1,5_prime_UTR_variant,,ENST00000519704,;	A	ENSG00000187735	ENST00000521604	Transcript	5_prime_UTR_variant	370	.	.	.	.	rs574717191	.	.	-1	TCEA1	HGNC	11612	protein_coding	YES	CCDS47858.1	ENSP00000428426	TCEA1_HUMAN	.	UPI0000136ABE	.	.	.	1/10	.	.	A:0.0006	A:0.0023	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCTGGCAAG	byFrequency|by1000G	2	BLCA
ARFGEF1	0	.	GRCh37	8	68112622	68112622	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5385+9G>A	.	.	ENST00000262215	.	36	28	7	55	55	0	ARFGEF1,missense_variant,p.Met636Ile,ENST00000518230,;ARFGEF1,intron_variant,,ENST00000518789,;ARFGEF1,intron_variant,,ENST00000262215,;ARFGEF1,intron_variant,,ENST00000520381,;CSPP1,downstream_gene_variant,,ENST00000262210,;CSPP1,downstream_gene_variant,,ENST00000412460,;CSPP1,downstream_gene_variant,,ENST00000519668,;ARFGEF1,intron_variant,,ENST00000517955,;ARFGEF1,intron_variant,,ENST00000522878,;CSPP1,downstream_gene_variant,,ENST00000521168,;ARFGEF1,non_coding_transcript_exon_variant,,ENST00000518290,;	T	ENSG00000066777	ENST00000262215	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ARFGEF1	HGNC	15772	protein_coding	YES	CCDS6199.1	ENSP00000262215	BIG1_HUMAN	E5RJN9_HUMAN,E5RJB2_HUMAN,E5RHZ1_HUMAN,B3KMS9_HUMAN	UPI000013D275	.	.	.	.	38/38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCATACT	.	5	BLCA
PREX2	0	.	GRCh37	8	68995622	68995622	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2026G>C	p.Glu676Gln	p.E676Q	ENST00000288368	18/40	43	32	11	58	58	0	PREX2,missense_variant,p.Glu676Gln,ENST00000288368,;RP11-403D15.2,intron_variant,,ENST00000526901,;PREX2,splice_region_variant,,ENST00000517617,;PREX2,splice_region_variant,,ENST00000529398,;	C	ENSG00000046889	ENST00000288368	Transcript	missense_variant	2303	2026	676	E/Q	Gag/Cag	COSM3925504,COSM1457992,COSM3925505,COSM1457993	.	.	1	PREX2	HGNC	22950	protein_coding	YES	CCDS6201.1	ENSP00000288368	PREX2_HUMAN	Q56UR8_HUMAN	UPI0000375435	.	deleterious(0.01)	probably_damaging(0.997)	18/40	.	hmmpanther:PTHR22829,hmmpanther:PTHR22829:SF1,Gene3D:2.30.42.10	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAAGAGAGTAA	.	2	BLCA
ZFHX4	0	.	GRCh37	8	77764240	77764240	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5083C>G	p.Gln1695Glu	p.Q1695E	ENST00000521891	10/11	52	43	9	64	64	0	ZFHX4,missense_variant,p.Gln1650Glu,ENST00000455469,;ZFHX4,missense_variant,p.Gln1669Glu,ENST00000518282,;ZFHX4,missense_variant,p.Gln1650Glu,ENST00000050961,;ZFHX4,missense_variant,p.Gln1695Glu,ENST00000521891,;ZFHX4,downstream_gene_variant,,ENST00000523625,;ZFHX4,downstream_gene_variant,,ENST00000522409,;ZFHX4,downstream_gene_variant,,ENST00000519536,;	G	ENSG00000091656	ENST00000521891	Transcript	missense_variant	5531	5083	1695	Q/E	Cag/Gag	COSM422060	.	.	1	ZFHX4	HGNC	30939	protein_coding	YES	CCDS47878.2	ENSP00000430497	.	Q9H7F3_HUMAN,Q86WW5_HUMAN,Q6DK57_HUMAN,G3V138_HUMAN,E5RI93_HUMAN,E5RHS1_HUMAN,E5RGK3_HUMAN,E5RG79_HUMAN	UPI0000424CC7	.	.	benign(0.092)	10/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24208:SF40,hmmpanther:PTHR24208	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATTCAGATG	.	5	BLCA
LRRCC1	0	.	GRCh37	8	86041430	86041430	+	Missense_Mutation	SNP	G	G	A	rs781161064	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1442G>A	p.Arg481Lys	p.R481K	ENST00000360375	10/19	135	112	23	174	174	0	LRRCC1,missense_variant,p.Arg481Lys,ENST00000360375,;LRRCC1,missense_variant,p.Arg461Lys,ENST00000414626,;LRRCC1,3_prime_UTR_variant,,ENST00000522770,;LRRCC1,3_prime_UTR_variant,,ENST00000517875,;LRRCC1,3_prime_UTR_variant,,ENST00000522567,;LRRCC1,intron_variant,,ENST00000523669,;	A	ENSG00000133739	ENST00000360375	Transcript	missense_variant	1591	1442	481	R/K	aGa/aAa	rs781161064	.	.	1	LRRCC1	HGNC	29373	protein_coding	YES	CCDS43750.1	ENSP00000353538	LRCC1_HUMAN	.	UPI000021002F	.	tolerated(1)	benign(0.001)	10/19	.	hmmpanther:PTHR10588:SF31,hmmpanther:PTHR10588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTAGAGAGA	.	4	BLCA
CA2	0	.	GRCh37	8	86392977	86392977	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742C>G	p.Gln248Glu	p.Q248E	ENST00000285379	7/7	32	21	11	51	51	0	CA2,missense_variant,p.Gln248Glu,ENST00000285379,;CA2,3_prime_UTR_variant,,ENST00000520127,;CA2,downstream_gene_variant,,ENST00000522742,;	G	ENSG00000104267	ENST00000285379	Transcript	missense_variant	972	742	248	Q/E	Cag/Gag	.	.	.	1	CA2	HGNC	1373	protein_coding	YES	CCDS6239.1	ENSP00000285379	CAH2_HUMAN	.	UPI0000110BA2	.	deleterious(0)	probably_damaging(1)	7/7	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952,hmmpanther:PTHR18952:SF90,Gene3D:3.10.200.10,Pfam_domain:PF00194,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCAGCCA	.	5	BLCA
ERI1	0	.	GRCh37	8	8887607	8887607	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*63C>G	.	.	ENST00000523898	8/8	30	26	4	48	48	0	ERI1,3_prime_UTR_variant,,ENST00000523898,;ERI1,3_prime_UTR_variant,,ENST00000250263,;ERI1,intron_variant,,ENST00000519292,;ERI1,intron_variant,,ENST00000520332,;ERI1,intron_variant,,ENST00000518663,;ERI1,intron_variant,,ENST00000522612,;	G	ENSG00000104626	ENST00000523898	Transcript	3_prime_UTR_variant	1792	.	.	.	.	.	.	.	1	ERI1	HGNC	23994	protein_coding	YES	CCDS5972.1	ENSP00000429615	ERI1_HUMAN	.	UPI00000746A1	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCTCATTGA	.	2	BLCA
RBM12B	0	.	GRCh37	8	94747019	94747019	+	Silent	SNP	G	G	A	rs772666570	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1620C>T	p.%3D	p.F540F	ENST00000399300	3/3	73	64	9	105	105	0	RBM12B,synonymous_variant,p.%3D,ENST00000399300,;RBM12B,synonymous_variant,p.%3D,ENST00000517700,;RBM12B,downstream_gene_variant,,ENST00000519109,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B,downstream_gene_variant,,ENST00000518597,;RBM12B,downstream_gene_variant,,ENST00000520560,;RBM12B,downstream_gene_variant,,ENST00000521947,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RBM12B,intron_variant,,ENST00000520961,;	A	ENSG00000183808	ENST00000399300	Transcript	synonymous_variant	1834	1620	540	F	ttC/ttT	rs772666570	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	.	.	3/3	.	hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTGAAGTT	.	4	BLCA
RBM12B	0	.	GRCh37	8	94747051	94747051	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1588C>T	p.Gln530Ter	p.Q530*	ENST00000399300	3/3	78	68	10	102	102	0	RBM12B,stop_gained,p.Gln530Ter,ENST00000399300,;RBM12B,stop_gained,p.Gln530Ter,ENST00000517700,;RBM12B,downstream_gene_variant,,ENST00000519109,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B,downstream_gene_variant,,ENST00000518597,;RBM12B,downstream_gene_variant,,ENST00000520560,;RBM12B,downstream_gene_variant,,ENST00000521947,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RBM12B,intron_variant,,ENST00000520961,;	A	ENSG00000183808	ENST00000399300	Transcript	stop_gained	1802	1588	530	Q/*	Cag/Tag	COSM1755824	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	.	.	3/3	.	hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TAGCTGATGTC	.	3	BLCA
RBM12B	0	.	GRCh37	8	94747101	94747101	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1538C>G	p.Ser513Ter	p.S513*	ENST00000399300	3/3	100	86	13	113	113	0	RBM12B,stop_gained,p.Ser513Ter,ENST00000399300,;RBM12B,stop_gained,p.Ser513Ter,ENST00000517700,;RBM12B,downstream_gene_variant,,ENST00000519109,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B,downstream_gene_variant,,ENST00000518597,;RBM12B,downstream_gene_variant,,ENST00000520560,;RBM12B,downstream_gene_variant,,ENST00000521947,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RBM12B,intron_variant,,ENST00000520961,;	C	ENSG00000183808	ENST00000399300	Transcript	stop_gained	1752	1538	513	S/*	tCa/tGa	.	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	.	.	3/3	.	hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTTTGAGTCA	.	3	BLCA
RBM12B	0	.	GRCh37	8	94747137	94747137	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1502C>T	p.Ser501Leu	p.S501L	ENST00000399300	3/3	120	97	23	132	132	0	RBM12B,missense_variant,p.Ser501Leu,ENST00000399300,;RBM12B,missense_variant,p.Ser501Leu,ENST00000517700,;RBM12B,downstream_gene_variant,,ENST00000519109,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B,downstream_gene_variant,,ENST00000518597,;RBM12B,downstream_gene_variant,,ENST00000520560,;RBM12B,downstream_gene_variant,,ENST00000521947,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RBM12B,intron_variant,,ENST00000520961,;	A	ENSG00000183808	ENST00000399300	Transcript	missense_variant	1716	1502	501	S/L	tCa/tTa	.	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	deleterious(0.02)	benign(0.352)	3/3	.	hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACGTGACTGT	.	5	BLCA
RBM12B	0	.	GRCh37	8	94747366	94747369	+	Frame_Shift_Del	DEL	GAAG	GAAG	AAA	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	GAAG	GAAG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1270_1273delCTTCinsTTT	p.Leu424PhefsTer22	p.L424Ffs*22	ENST00000399300	3/3	129	98	31	133	133	0	RBM12B,frameshift_variant,p.Leu424PhefsTer22,ENST00000399300,;RBM12B,frameshift_variant,p.Leu424PhefsTer22,ENST00000517700,;RBM12B,downstream_gene_variant,,ENST00000519109,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B-AS1,upstream_gene_variant,,ENST00000391680,;RBM12B,downstream_gene_variant,,ENST00000518597,;RBM12B,downstream_gene_variant,,ENST00000520560,;RBM12B,downstream_gene_variant,,ENST00000521947,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RBM12B,intron_variant,,ENST00000520961,;	AAA	ENSG00000183808	ENST00000399300	Transcript	frameshift_variant	1484-1487	1270-1273	424-425	LL/FX	CTTCtt/TTTtt	.	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	.	.	3/3	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,Pfam_domain:PF14259,hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	CAGCAAGAAGAAAGT	.	5	BLCA
RBM12B	0	.	GRCh37	8	94747515	94747515	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1124C>T	p.Ser375Leu	p.S375L	ENST00000399300	3/3	84	70	14	123	123	0	RBM12B,missense_variant,p.Ser375Leu,ENST00000399300,;RBM12B,missense_variant,p.Ser375Leu,ENST00000517700,;RBM12B,downstream_gene_variant,,ENST00000519109,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B-AS1,upstream_gene_variant,,ENST00000391680,;RBM12B,downstream_gene_variant,,ENST00000518597,;RBM12B,downstream_gene_variant,,ENST00000520560,;RBM12B,downstream_gene_variant,,ENST00000521947,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RBM12B,intron_variant,,ENST00000520961,;	A	ENSG00000183808	ENST00000399300	Transcript	missense_variant	1338	1124	375	S/L	tCa/tTa	.	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	tolerated(0.23)	benign(0)	3/3	.	Gene3D:3.30.70.330,hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTGATCTC	.	5	BLCA
RBM12B	0	.	GRCh37	8	94747639	94747639	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1000C>G	p.Leu334Val	p.L334V	ENST00000399300	3/3	67	61	6	86	86	0	RBM12B,missense_variant,p.Leu334Val,ENST00000399300,;RBM12B,missense_variant,p.Leu334Val,ENST00000517700,;RBM12B,downstream_gene_variant,,ENST00000519109,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B-AS1,upstream_gene_variant,,ENST00000391680,;RBM12B,downstream_gene_variant,,ENST00000518597,;RBM12B,downstream_gene_variant,,ENST00000520560,;RBM12B,downstream_gene_variant,,ENST00000521947,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RBM12B,intron_variant,,ENST00000520961,;	C	ENSG00000183808	ENST00000399300	Transcript	missense_variant	1214	1000	334	L/V	Ctg/Gtg	.	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	tolerated(0.5)	possibly_damaging(0.864)	3/3	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,Pfam_domain:PF14259,hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTCAGAGTCT	.	3	BLCA
RBM12B	0	.	GRCh37	8	94748436	94748436	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.203C>T	p.Ser68Phe	p.S68F	ENST00000399300	3/3	111	93	18	127	127	0	RBM12B,missense_variant,p.Ser68Phe,ENST00000519109,;RBM12B,missense_variant,p.Ser68Phe,ENST00000399300,;RBM12B,missense_variant,p.Ser68Phe,ENST00000517700,;RBM12B,missense_variant,p.Ser68Phe,ENST00000518597,;RBM12B,missense_variant,p.Ser68Phe,ENST00000520560,;RBM12B,missense_variant,p.Ser68Phe,ENST00000521947,;FAM92A1,downstream_gene_variant,,ENST00000518322,;RBM12B-AS1,upstream_gene_variant,,ENST00000391680,;RP11-10N23.4,downstream_gene_variant,,ENST00000517998,;RP11-10N23.5,upstream_gene_variant,,ENST00000523945,;RBM12B,intron_variant,,ENST00000520961,;	A	ENSG00000183808	ENST00000399300	Transcript	missense_variant	417	203	68	S/F	tCt/tTt	.	.	.	-1	RBM12B	HGNC	32310	protein_coding	YES	CCDS43755.1	ENSP00000382239	RB12B_HUMAN	E5RJW8_HUMAN,E5RJV8_HUMAN,E5RJ83_HUMAN,E5RHG1_HUMAN	UPI0000E9B14C	.	tolerated(0.51)	possibly_damaging(0.522)	3/3	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,Pfam_domain:PF14259,hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTACAGATGAA	.	4	BLCA
KIAA1429	0	.	GRCh37	8	95504025	95504025	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4921C>T	p.Gln1641Ter	p.Q1641*	ENST00000297591	22/24	76	64	11	117	117	0	KIAA1429,stop_gained,p.Gln1641Ter,ENST00000297591,;KIAA1429,3_prime_UTR_variant,,ENST00000437199,;KIAA1429,3_prime_UTR_variant,,ENST00000523263,;KIAA1429,non_coding_transcript_exon_variant,,ENST00000521080,;KIAA1429,intron_variant,,ENST00000517624,;KIAA1429,intron_variant,,ENST00000522263,;KIAA1429,upstream_gene_variant,,ENST00000522196,;	A	ENSG00000164944	ENST00000297591	Transcript	stop_gained	4997	4921	1641	Q/*	Cag/Tag	.	.	.	-1	KIAA1429	HGNC	24500	protein_coding	YES	CCDS34923.1	ENSP00000297591	VIR_HUMAN	.	UPI00001BBB23	.	.	.	22/24	.	hmmpanther:PTHR23185:SF0,hmmpanther:PTHR23185	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTGACGAA	.	4	BLCA
CCDC180	0	.	GRCh37	9	100105692	100105692	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2477G>C	p.Gly826Ala	p.G826A	ENST00000375202	33/51	51	37	14	70	70	0	CCDC180,missense_variant,p.Gly965Ala,ENST00000357054,;CCDC180,missense_variant,p.Gly826Ala,ENST00000375202,;CCDC180,missense_variant,p.Gly826Ala,ENST00000529487,;CCDC180,missense_variant,p.Gly823Ala,ENST00000411667,;CCDC180,3_prime_UTR_variant,,ENST00000395220,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000532526,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000375206,;CCDC180,non_coding_transcript_exon_variant,,ENST00000528678,;CCDC180,non_coding_transcript_exon_variant,,ENST00000460482,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000534123,;RP11-23J9.4,non_coding_transcript_exon_variant,,ENST00000529787,;CCDC180,intron_variant,,ENST00000530011,;CCDC180,non_coding_transcript_exon_variant,,ENST00000494917,;	C	ENSG00000197816	ENST00000375202	Transcript	missense_variant	3829	2477	826	G/A	gGa/gCa	.	.	.	1	CCDC180	HGNC	29303	protein_coding	YES	CCDS35077.2	ENSP00000364348	CC180_HUMAN	B7ZMG3_HUMAN	UPI00016277C6	.	deleterious(0)	benign(0.002)	33/51	.	hmmpanther:PTHR21444:SF14,hmmpanther:PTHR21444	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTGGAAACA	.	5	BLCA
LPPR1	0	.	GRCh37	9	104048463	104048463	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330G>A	p.%3D	p.L110L	ENST00000374874	4/8	55	45	9	77	77	0	LPPR1,synonymous_variant,p.%3D,ENST00000395056,;LPPR1,synonymous_variant,p.%3D,ENST00000374874,;LPPR1,downstream_gene_variant,,ENST00000456287,;LPPR1,non_coding_transcript_exon_variant,,ENST00000463206,;	A	ENSG00000148123	ENST00000374874	Transcript	synonymous_variant	769	330	110	L	ctG/ctA	.	.	.	1	LPPR1	Uniprot_gn	.	protein_coding	YES	CCDS6751.1	ENSP00000364008	LPPR1_HUMAN	M9MML5_HUMAN,B7Z8R9_HUMAN	UPI0000034FFA	.	.	.	4/8	.	hmmpanther:PTHR10165,hmmpanther:PTHR10165:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTGACCGG	.	5	BLCA
GRIN3A	0	.	GRCh37	9	104432516	104432516	+	Silent	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2178C>G	p.%3D	p.L726L	ENST00000361820	3/9	77	55	22	135	135	0	GRIN3A,synonymous_variant,p.%3D,ENST00000361820,;	C	ENSG00000198785	ENST00000361820	Transcript	synonymous_variant	2779	2178	726	L	ctC/ctG	COSM3952139	.	.	-1	GRIN3A	HGNC	16767	protein_coding	YES	CCDS6758.1	ENSP00000355155	NMD3A_HUMAN	.	UPI0000367661	.	.	.	3/9	.	SMART_domains:SM00079,Gene3D:1.10.287.70,Pfam_domain:PF00060,Pfam_domain:PF00497,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF163,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACAAGAGGGC	.	5	BLCA
FKBP15	0	.	GRCh37	9	115931946	115931946	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3043G>C	p.Glu1015Gln	p.E1015Q	ENST00000238256	26/28	23	19	4	25	25	0	FKBP15,missense_variant,p.Glu1015Gln,ENST00000238256,;FKBP15,missense_variant,p.Glu1040Gln,ENST00000446284,;	G	ENSG00000119321	ENST00000238256	Transcript	missense_variant	3161	3043	1015	E/Q	Gag/Cag	.	.	.	-1	FKBP15	HGNC	23397	protein_coding	YES	CCDS48007.1	ENSP00000238256	FKB15_HUMAN	B4DZS8_HUMAN	UPI000022D996	.	tolerated_low_confidence(0.05)	benign(0.099)	26/28	.	hmmpanther:PTHR18937,hmmpanther:PTHR18937:SF178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCTCAGCTT	.	3	BLCA
RNF183	0	.	GRCh37	9	116060489	116060489	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-25G>A	.	.	ENST00000478815	1/1	33	24	9	47	47	0	RNF183,5_prime_UTR_variant,,ENST00000297894,;RNF183,5_prime_UTR_variant,,ENST00000441031,;RNF183,5_prime_UTR_variant,,ENST00000416588,;RNF183,5_prime_UTR_variant,,ENST00000478815,;RNF183,downstream_gene_variant,,ENST00000443976,;RNF183,downstream_gene_variant,,ENST00000478493,;RNF183,downstream_gene_variant,,ENST00000489339,;	T	ENSG00000165188	ENST00000478815	Transcript	5_prime_UTR_variant	1557	.	.	.	.	.	.	.	-1	RNF183	HGNC	28721	protein_coding	YES	CCDS43866.1	ENSP00000419454	RN183_HUMAN	.	UPI0000140EAA	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCGCGGG	.	5	BLCA
ASTN2	0	.	GRCh37	9	119414050	119414050	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2676G>C	p.Lys892Asn	p.K892N	ENST00000361209	16/22	32	22	9	69	69	0	ASTN2,missense_variant,p.Lys939Asn,ENST00000373996,;ASTN2,missense_variant,p.Lys44Asn,ENST00000288520,;ASTN2,missense_variant,p.Lys666Asn,ENST00000373986,;ASTN2,missense_variant,p.Lys892Asn,ENST00000361209,;ASTN2,missense_variant,p.Lys943Asn,ENST00000313400,;ASTN2,5_prime_UTR_variant,,ENST00000358637,;ASTN2,5_prime_UTR_variant,,ENST00000341734,;ASTN2,5_prime_UTR_variant,,ENST00000361477,;	G	ENSG00000148219	ENST00000361209	Transcript	missense_variant	2808	2676	892	K/N	aaG/aaC	.	.	.	-1	ASTN2	HGNC	17021	protein_coding	YES	CCDS6815.1	ENSP00000354504	ASTN2_HUMAN	B7ZKP3_HUMAN,B2RCB6_HUMAN	UPI00002116D7	.	deleterious_low_confidence(0.03)	unknown(0)	16/22	.	hmmpanther:PTHR16592,SMART_domains:SM00457	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTTGCT	.	5	BLCA
NDUFA8	0	.	GRCh37	9	124914585	124914585	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154G>C	p.Asp52His	p.D52H	ENST00000373768	2/4	44	29	15	49	49	0	NDUFA8,missense_variant,p.Asp52His,ENST00000537618,;NDUFA8,missense_variant,p.Asp52His,ENST00000373768,;	G	ENSG00000119421	ENST00000373768	Transcript	missense_variant	296	154	52	D/H	Gat/Cat	.	.	.	-1	NDUFA8	HGNC	7692	protein_coding	YES	CCDS6835.1	ENSP00000362873	NDUA8_HUMAN	.	UPI000013CA3A	.	deleterious(0)	probably_damaging(0.995)	2/4	.	PIRSF_domain:PIRSF017016,hmmpanther:PTHR13344,hmmpanther:PTHR13344:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGATCTTTCT	.	5	BLCA
OR1Q1	0	.	GRCh37	9	125377337	125377337	+	Silent	SNP	C	C	T	rs771925852	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321C>T	p.%3D	p.F107F	ENST00000297913	1/1	140	107	33	155	155	0	OR1Q1,synonymous_variant,p.%3D,ENST00000297913,;RP11-64P14.7,intron_variant,,ENST00000431442,;RP11-64P14.7,upstream_gene_variant,,ENST00000419604,;	T	ENSG00000165202	ENST00000297913	Transcript	synonymous_variant	390	321	107	F	ttC/ttT	rs771925852,COSM3323501	.	.	1	OR1Q1	HGNC	8223	protein_coding	YES	CCDS35125.1	ENSP00000297913	OR1Q1_HUMAN	.	UPI000003CACD	.	.	.	1/1	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26451:SF92,hmmpanther:PTHR26451,PROSITE_profiles:PS50262,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTCGCCGT	byFrequency	5	BLCA
RALGPS1	0	.	GRCh37	9	129815197	129815197	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.462C>T	p.%3D	p.F154F	ENST00000259351	7/19	97	75	22	134	134	0	RALGPS1,synonymous_variant,p.%3D,ENST00000319107,;RALGPS1,synonymous_variant,p.%3D,ENST00000373436,;RALGPS1,synonymous_variant,p.%3D,ENST00000424082,;RALGPS1,synonymous_variant,p.%3D,ENST00000394022,;RALGPS1,synonymous_variant,p.%3D,ENST00000259351,;RALGPS1,synonymous_variant,p.%3D,ENST00000373434,;RALGPS1,non_coding_transcript_exon_variant,,ENST00000477700,;RALGPS1,non_coding_transcript_exon_variant,,ENST00000373439,;	T	ENSG00000136828	ENST00000259351	Transcript	synonymous_variant	729	462	154	F	ttC/ttT	.	.	.	1	RALGPS1	HGNC	16851	protein_coding	YES	CCDS35143.1	ENSP00000259351	RGPS1_HUMAN	.	UPI000006D3AF	.	.	.	7/19	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF180,Gene3D:2ii0A02,Pfam_domain:PF00617,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCTTCAGGCT	.	5	BLCA
LCN2	0	.	GRCh37	9	130911731	130911731	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-43-31C>T	.	.	ENST00000373017	.	50	43	7	72	72	0	LCN2,intron_variant,,ENST00000373017,;LCN2,upstream_gene_variant,,ENST00000373013,;LCN2,upstream_gene_variant,,ENST00000277480,;LCN2,upstream_gene_variant,,ENST00000540948,;LCN2,upstream_gene_variant,,ENST00000372998,;LCN2,non_coding_transcript_exon_variant,,ENST00000470902,;LCN2,upstream_gene_variant,,ENST00000494317,;LCN2,upstream_gene_variant,,ENST00000487719,;LCN2,upstream_gene_variant,,ENST00000488391,;	T	ENSG00000148346	ENST00000373017	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	LCN2	HGNC	6526	protein_coding	YES	CCDS6892.1	ENSP00000362108	NGAL_HUMAN	.	UPI000012FFEF	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCACTCG	.	4	BLCA
CERCAM	0	.	GRCh37	9	131198051	131198051	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1655C>A	p.Ser552Tyr	p.S552Y	ENST00000372838	12/13	18	15	3	24	24	0	CERCAM,missense_variant,p.Ser474Tyr,ENST00000372842,;CERCAM,missense_variant,p.Ser552Tyr,ENST00000372838,;RP11-339B21.10,downstream_gene_variant,,ENST00000610052,;CERCAM,downstream_gene_variant,,ENST00000472858,;CERCAM,downstream_gene_variant,,ENST00000487001,;CERCAM,downstream_gene_variant,,ENST00000463535,;	A	ENSG00000167123	ENST00000372838	Transcript	missense_variant	2053	1655	552	S/Y	tCc/tAc	.	.	.	1	CERCAM	HGNC	23723	protein_coding	YES	CCDS6901.2	ENSP00000361929	GT253_HUMAN	B7ZBT0_HUMAN,B7ZBS9_HUMAN,B7ZBS8_HUMAN	UPI000046FF85	.	deleterious(0)	probably_damaging(0.999)	12/13	.	hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACATCCTCTC	.	2	BLCA
SPTAN1	0	.	GRCh37	9	131356617	131356617	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3379G>A	p.Glu1127Lys	p.E1127K	ENST00000372739	24/57	26	15	10	46	46	0	SPTAN1,missense_variant,p.Glu1127Lys,ENST00000372739,;SPTAN1,missense_variant,p.Glu1127Lys,ENST00000358161,;SPTAN1,missense_variant,p.Glu1127Lys,ENST00000372731,;SPTAN1,non_coding_transcript_exon_variant,,ENST00000475367,;	A	ENSG00000197694	ENST00000372739	Transcript	missense_variant	3489	3379	1127	E/K	Gag/Aag	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	tolerated(0.13)	probably_damaging(0.988)	24/57	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Gene3D:1.20.58.60,Pfam_domain:PF00435,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTTGAGGTG	.	5	BLCA
MPDZ	0	.	GRCh37	9	13138005	13138005	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4151G>C	p.Gly1384Ala	p.G1384A	ENST00000541718	29/46	25	21	4	42	42	0	MPDZ,missense_variant,p.Gly1384Ala,ENST00000381022,;MPDZ,missense_variant,p.Gly1351Ala,ENST00000447879,;MPDZ,missense_variant,p.Gly320Ala,ENST00000545857,;MPDZ,missense_variant,p.Gly1384Ala,ENST00000319217,;MPDZ,missense_variant,p.Gly1398Ala,ENST00000546205,;MPDZ,missense_variant,p.Gly1384Ala,ENST00000381015,;MPDZ,missense_variant,p.Gly1351Ala,ENST00000536827,;MPDZ,missense_variant,p.Gly243Ala,ENST00000538841,;MPDZ,missense_variant,p.Gly1384Ala,ENST00000541718,;MPDZ,upstream_gene_variant,,ENST00000438511,;MPDZ,downstream_gene_variant,,ENST00000433359,;MPDZ,upstream_gene_variant,,ENST00000541093,;MPDZ,non_coding_transcript_exon_variant,,ENST00000540202,;MPDZ,missense_variant,p.Gly78Ala,ENST00000535169,;MPDZ,3_prime_UTR_variant,,ENST00000542806,;MPDZ,non_coding_transcript_exon_variant,,ENST00000319198,;MPDZ,non_coding_transcript_exon_variant,,ENST00000539508,;	G	ENSG00000107186	ENST00000541718	Transcript	missense_variant	4373	4151	1384	G/A	gGa/gCa	.	.	.	-1	MPDZ	HGNC	7208	protein_coding	YES	CCDS47951.1	ENSP00000439807	MPDZ_HUMAN	.	UPI00015367D3	.	deleterious(0.02)	probably_damaging(1)	29/46	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19964:SF10,hmmpanther:PTHR19964,Pfam_domain:PF00595,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTCCATTT	.	2	BLCA
MPDZ	0	.	GRCh37	9	13138106	13138106	+	Missense_Mutation	SNP	C	C	T	rs760781939	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4050G>A	p.Met1350Ile	p.M1350I	ENST00000541718	29/46	27	23	4	33	33	0	MPDZ,missense_variant,p.Met172Ile,ENST00000433359,;MPDZ,missense_variant,p.Met1350Ile,ENST00000381022,;MPDZ,missense_variant,p.Met1317Ile,ENST00000447879,;MPDZ,missense_variant,p.Met286Ile,ENST00000545857,;MPDZ,missense_variant,p.Met1350Ile,ENST00000319217,;MPDZ,missense_variant,p.Met1364Ile,ENST00000546205,;MPDZ,missense_variant,p.Met1350Ile,ENST00000381015,;MPDZ,missense_variant,p.Met1317Ile,ENST00000536827,;MPDZ,missense_variant,p.Met209Ile,ENST00000538841,;MPDZ,missense_variant,p.Met1350Ile,ENST00000541718,;MPDZ,upstream_gene_variant,,ENST00000438511,;MPDZ,upstream_gene_variant,,ENST00000541093,;MPDZ,non_coding_transcript_exon_variant,,ENST00000540202,;MPDZ,missense_variant,p.Met44Ile,ENST00000535169,;MPDZ,3_prime_UTR_variant,,ENST00000542806,;MPDZ,non_coding_transcript_exon_variant,,ENST00000319198,;MPDZ,non_coding_transcript_exon_variant,,ENST00000539508,;	T	ENSG00000107186	ENST00000541718	Transcript	missense_variant	4272	4050	1350	M/I	atG/atA	rs760781939	.	.	-1	MPDZ	HGNC	7208	protein_coding	YES	CCDS47951.1	ENSP00000439807	MPDZ_HUMAN	.	UPI00015367D3	.	tolerated(0.16)	benign(0.015)	29/46	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19964:SF10,hmmpanther:PTHR19964,Gene3D:2.30.42.10,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	TCAATCATATG	.	2	BLCA
DOLK	0	.	GRCh37	9	131709109	131709109	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>A	p.%3D	p.S158S	ENST00000372586	1/1	28	20	8	45	45	0	DOLK,synonymous_variant,p.%3D,ENST00000372586,;RP11-101E3.5,intron_variant,,ENST00000482796,;PHYHD1,downstream_gene_variant,,ENST00000421063,;PHYHD1,downstream_gene_variant,,ENST00000308941,;PHYHD1,downstream_gene_variant,,ENST00000419872,;PHYHD1,downstream_gene_variant,,ENST00000372592,;PHYHD1,downstream_gene_variant,,ENST00000353176,;PHYHD1,downstream_gene_variant,,ENST00000442837,;NUP188,upstream_gene_variant,,ENST00000372577,;NUP188,upstream_gene_variant,,ENST00000550219,;NUP188,upstream_gene_variant,,ENST00000491990,;PHYHD1,downstream_gene_variant,,ENST00000412476,;NUP188,upstream_gene_variant,,ENST00000464729,;	T	ENSG00000175283	ENST00000372586	Transcript	synonymous_variant	790	474	158	S	tcG/tcA	.	.	.	-1	DOLK	HGNC	23406	protein_coding	YES	CCDS6915.1	ENSP00000361667	DOLK_HUMAN	.	UPI0000001C36	.	.	.	1/1	.	hmmpanther:PTHR13205,hmmpanther:PTHR13205:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAACGAGTG	.	5	BLCA
NUP188	0	.	GRCh37	9	131767807	131767807	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4735C>G	p.Gln1579Glu	p.Q1579E	ENST00000372577	40/44	98	89	9	126	126	0	NUP188,missense_variant,p.Gln1579Glu,ENST00000372577,;SH3GLB2,downstream_gene_variant,,ENST00000372554,;SH3GLB2,downstream_gene_variant,,ENST00000372564,;SH3GLB2,downstream_gene_variant,,ENST00000416629,;SH3GLB2,downstream_gene_variant,,ENST00000417224,;SH3GLB2,downstream_gene_variant,,ENST00000372559,;RP11-167N5.5,upstream_gene_variant,,ENST00000594418,;SH3GLB2,downstream_gene_variant,,ENST00000461811,;SH3GLB2,downstream_gene_variant,,ENST00000455407,;SH3GLB2,downstream_gene_variant,,ENST00000479237,;NUP188,downstream_gene_variant,,ENST00000487952,;NUP188,downstream_gene_variant,,ENST00000477069,;SH3GLB2,downstream_gene_variant,,ENST00000483980,;	G	ENSG00000095319	ENST00000372577	Transcript	missense_variant	4756	4735	1579	Q/E	Cag/Gag	.	.	.	1	NUP188	HGNC	17859	protein_coding	YES	CCDS35156.1	ENSP00000361658	NU188_HUMAN	.	UPI000041A60F	.	deleterious(0.01)	possibly_damaging(0.84)	40/44	.	hmmpanther:PTHR31431,hmmpanther:PTHR31431:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGATCAGGTA	.	2	BLCA
NUP188	0	.	GRCh37	9	131768007	131768007	+	Silent	SNP	C	C	T	rs755350781	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4821C>T	p.%3D	p.F1607F	ENST00000372577	41/44	276	216	60	369	369	0	NUP188,synonymous_variant,p.%3D,ENST00000372577,;SH3GLB2,downstream_gene_variant,,ENST00000372554,;SH3GLB2,downstream_gene_variant,,ENST00000372564,;SH3GLB2,downstream_gene_variant,,ENST00000416629,;SH3GLB2,downstream_gene_variant,,ENST00000417224,;SH3GLB2,downstream_gene_variant,,ENST00000372559,;RP11-167N5.5,upstream_gene_variant,,ENST00000594418,;SH3GLB2,downstream_gene_variant,,ENST00000461811,;SH3GLB2,downstream_gene_variant,,ENST00000455407,;SH3GLB2,downstream_gene_variant,,ENST00000479237,;NUP188,downstream_gene_variant,,ENST00000487952,;NUP188,downstream_gene_variant,,ENST00000477069,;SH3GLB2,downstream_gene_variant,,ENST00000483980,;	T	ENSG00000095319	ENST00000372577	Transcript	synonymous_variant	4842	4821	1607	F	ttC/ttT	rs755350781,COSM455443	.	.	1	NUP188	HGNC	17859	protein_coding	YES	CCDS35156.1	ENSP00000361658	NU188_HUMAN	.	UPI000041A60F	.	.	.	41/44	.	hmmpanther:PTHR31431,hmmpanther:PTHR31431:SF1	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCGGGAC	byFrequency	5	BLCA
SH3GLB2	0	.	GRCh37	9	131783434	131783434	+	Silent	SNP	G	G	A	rs201505428	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270C>T	p.%3D	p.N90N	ENST00000372564	3/11	15	11	4	27	27	0	SH3GLB2,synonymous_variant,p.%3D,ENST00000372554,;SH3GLB2,synonymous_variant,p.%3D,ENST00000372564,;SH3GLB2,synonymous_variant,p.%3D,ENST00000416629,;SH3GLB2,synonymous_variant,p.%3D,ENST00000417224,;SH3GLB2,synonymous_variant,p.%3D,ENST00000372559,;SH3GLB2,synonymous_variant,p.%3D,ENST00000425236,;SH3GLB2,synonymous_variant,p.%3D,ENST00000416230,;SH3GLB2,non_coding_transcript_exon_variant,,ENST00000483980,;SH3GLB2,intron_variant,,ENST00000455407,;	A	ENSG00000148341	ENST00000372564	Transcript	synonymous_variant	416	270	90	N	aaC/aaT	rs201505428	.	.	-1	SH3GLB2	HGNC	10834	protein_coding	YES	CCDS6916.1	ENSP00000361645	SHLB2_HUMAN	.	UPI000006D1AE	.	.	.	3/11	.	PROSITE_profiles:PS51021,hmmpanther:PTHR10661,hmmpanther:PTHR10661:SF14,Pfam_domain:PF03114,Gene3D:1.20.1270.60,SMART_domains:SM00721,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCCCGTTGGT	byCluster	2	BLCA
CRAT	0	.	GRCh37	9	131864267	131864267	+	Missense_Mutation	SNP	C	C	G	rs780641174	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700G>C	p.Glu234Gln	p.E234Q	ENST00000318080	6/14	29	21	8	51	51	0	CRAT,missense_variant,p.Glu234Gln,ENST00000318080,;CRAT,upstream_gene_variant,,ENST00000455396,;RP11-247A12.1,downstream_gene_variant,,ENST00000434250,;CRAT,non_coding_transcript_exon_variant,,ENST00000464290,;CRAT,upstream_gene_variant,,ENST00000467343,;CRAT,3_prime_UTR_variant,,ENST00000458362,;CRAT,downstream_gene_variant,,ENST00000441796,;CRAT,downstream_gene_variant,,ENST00000415948,;	G	ENSG00000095321	ENST00000318080	Transcript	missense_variant	995	700	234	E/Q	Gag/Cag	rs780641174	.	.	-1	CRAT	HGNC	2342	protein_coding	YES	CCDS6919.1	ENSP00000315013	CACP_HUMAN	.	UPI000014021A	.	tolerated(0.23)	benign(0.299)	6/14	.	hmmpanther:PTHR22589,hmmpanther:PTHR22589:SF50,Pfam_domain:PF00755,Superfamily_domains:SSF52777	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCCAGCT	.	5	BLCA
PRRX2	0	.	GRCh37	9	132484580	132484580	+	Silent	SNP	C	C	G	rs768608876	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711C>G	p.%3D	p.L237L	ENST00000372469	4/4	32	22	10	40	40	0	PRRX2,synonymous_variant,p.%3D,ENST00000372469,;RP11-483H20.6,upstream_gene_variant,,ENST00000440413,;	G	ENSG00000167157	ENST00000372469	Transcript	synonymous_variant	938	711	237	L	ctC/ctG	rs768608876	.	.	1	PRRX2	HGNC	21338	protein_coding	YES	CCDS6926.1	ENSP00000361547	PRRX2_HUMAN	.	UPI0000131D13	.	.	.	4/4	.	Pfam_domain:PF03826,hmmpanther:PTHR24329:SF249,hmmpanther:PTHR24329,PROSITE_profiles:PS50803	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTCTCAAGGC	.	5	BLCA
ABL1	0	.	GRCh37	9	133750279	133750279	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1167G>A	p.%3D	p.L389L	ENST00000372348	7/11	63	49	14	109	109	0	ABL1,synonymous_variant,p.%3D,ENST00000318560,;ABL1,synonymous_variant,p.%3D,ENST00000372348,;	A	ENSG00000097007	ENST00000372348	Transcript	synonymous_variant	1541	1167	389	L	ctG/ctA	.	.	.	1	ABL1	HGNC	76	protein_coding	YES	CCDS35165.1	ENSP00000361423	ABL1_HUMAN	Q59FK4_HUMAN	UPI000013E4DE	.	.	.	7/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF87,PROSITE_patterns:PS00109,Gene3D:1.10.510.10,Pfam_domain:PF07714,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTGGTAGG	.	5	BLCA
NUP214	0	.	GRCh37	9	134106065	134106065	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6123G>C	p.Gln2041His	p.Q2041H	ENST00000359428	34/36	36	31	5	66	66	0	NUP214,missense_variant,p.Arg69Thr,ENST00000498010,;NUP214,missense_variant,p.Gln2042His,ENST00000451030,;NUP214,missense_variant,p.Gln2041His,ENST00000359428,;NUP214,missense_variant,p.Gln867His,ENST00000483497,;NUP214,missense_variant,p.Gln53His,ENST00000476004,;NUP214,missense_variant,p.Gln2031His,ENST00000411637,;NUP214,missense_variant,p.Gln29His,ENST00000528406,;NUP214,missense_variant,p.Glu949Gln,ENST00000453861,;NUP214,non_coding_transcript_exon_variant,,ENST00000496921,;NUP214,downstream_gene_variant,,ENST00000530491,;	C	ENSG00000126883	ENST00000359428	Transcript	missense_variant	6267	6123	2041	Q/H	caG/caC	.	.	.	1	NUP214	HGNC	8064	protein_coding	YES	CCDS6940.1	ENSP00000352400	NU214_HUMAN	H0YDI2_HUMAN,E9PS86_HUMAN	UPI00001BBB2F	.	.	possibly_damaging(0.891)	34/36	.	hmmpanther:PTHR23193,hmmpanther:PTHR23193:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	AGTCAGAATGC	.	2	BLCA
SARDH	0	.	GRCh37	9	136596520	136596520	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597C>G	p.%3D	p.L199L	ENST00000371872	4/21	35	28	7	65	65	0	SARDH,synonymous_variant,p.%3D,ENST00000439388,;SARDH,synonymous_variant,p.%3D,ENST00000298628,;SARDH,synonymous_variant,p.%3D,ENST00000371872,;SARDH,synonymous_variant,p.%3D,ENST00000371867,;SARDH,synonymous_variant,p.%3D,ENST00000427237,;SARDH,synonymous_variant,p.%3D,ENST00000422262,;	C	ENSG00000123453	ENST00000371872	Transcript	synonymous_variant	855	597	199	L	ctC/ctG	.	.	.	-1	SARDH	HGNC	10536	protein_coding	YES	CCDS6978.1	ENSP00000360938	SARDH_HUMAN	Q5SYV1_HUMAN,B4DPI2_HUMAN	UPI000006F076	.	.	.	4/21	.	hmmpanther:PTHR13847,hmmpanther:PTHR13847:SF18,Gene3D:3.30.9.10,Pfam_domain:PF01266,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTAGAGGTC	.	5	BLCA
SEC16A	0	.	GRCh37	9	139369010	139369010	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3058C>T	p.Gln1020Ter	p.Q1020*	ENST00000313050	1/30	29	22	6	29	29	0	SEC16A,stop_gained,p.Gln842Ter,ENST00000290037,;SEC16A,stop_gained,p.Gln1020Ter,ENST00000313050,;SEC16A,stop_gained,p.Gln842Ter,ENST00000431893,;SEC16A,stop_gained,p.Gln842Ter,ENST00000371706,;	A	ENSG00000148396	ENST00000313050	Transcript	stop_gained	3132	3058	1020	Q/*	Cag/Tag	.	.	.	-1	SEC16A	HGNC	29006	protein_coding	YES	CCDS55351.1	ENSP00000325827	.	J3KNL6_HUMAN,G1UI25_HUMAN,A0PJ75_HUMAN	UPI0000F0888B	.	.	.	1/30	.	hmmpanther:PTHR13402,hmmpanther:PTHR13402:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGAGAAG	.	5	BLCA
TPRN	0	.	GRCh37	9	140087082	140087082	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1787C>G	p.Ser596Cys	p.S596C	ENST00000409012	2/4	34	27	7	38	38	0	TPRN,missense_variant,p.Ser596Cys,ENST00000409012,;TPRN,missense_variant,p.Ser535Cys,ENST00000321773,;TPRN,missense_variant,p.Ser394Cys,ENST00000333046,;ANAPC2,upstream_gene_variant,,ENST00000323927,;SSNA1,downstream_gene_variant,,ENST00000322310,;SSNA1,downstream_gene_variant,,ENST00000464553,;SSNA1,downstream_gene_variant,,ENST00000459860,;TPRN,downstream_gene_variant,,ENST00000541945,;SSNA1,downstream_gene_variant,,ENST00000463511,;TPRN,non_coding_transcript_exon_variant,,ENST00000477345,;	C	ENSG00000176058	ENST00000409012	Transcript	missense_variant	1874	1787	596	S/C	tCc/tGc	.	.	.	-1	TPRN	HGNC	26894	protein_coding	YES	CCDS56594.1	ENSP00000387100	TPRN_HUMAN	Q86WR5_HUMAN	UPI0001722188	.	deleterious(0)	probably_damaging(0.999)	2/4	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21685:SF1,hmmpanther:PTHR21685,Pfam_domain:PF13914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAGGGAGCTC	.	5	BLCA
SLC34A3	0	.	GRCh37	9	140128102	140128102	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774C>T	p.%3D	p.I258I	ENST00000538474	8/13	75	70	5	143	143	0	SLC34A3,synonymous_variant,p.%3D,ENST00000361134,;SLC34A3,synonymous_variant,p.%3D,ENST00000538474,;RNF224,downstream_gene_variant,,ENST00000445101,;	T	ENSG00000198569	ENST00000538474	Transcript	synonymous_variant	998	774	258	I	atC/atT	.	.	.	1	SLC34A3	HGNC	20305	protein_coding	YES	CCDS7038.1	ENSP00000442397	NPT2C_HUMAN	D9N3A0_HUMAN	UPI00004577EA	.	.	.	8/13	.	hmmpanther:PTHR10010,hmmpanther:PTHR10010:SF22,TIGRFAM_domain:TIGR01013	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGATCATGAG	.	2	BLCA
PNPLA7	0	.	GRCh37	9	140438009	140438009	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.381G>C	p.Lys127Asn	p.K127N	ENST00000406427	6/35	31	24	7	36	36	0	PNPLA7,missense_variant,p.Lys102Asn,ENST00000277531,;PNPLA7,missense_variant,p.Lys93Asn,ENST00000434090,;PNPLA7,missense_variant,p.Lys127Asn,ENST00000406427,;AL365502.1,upstream_gene_variant,,ENST00000580317,;PNPLA7,missense_variant,p.Lys71Asn,ENST00000491019,;	G	ENSG00000130653	ENST00000406427	Transcript	missense_variant	718	381	127	K/N	aaG/aaC	COSM3942971,COSM3942970	.	.	-1	PNPLA7	HGNC	24768	protein_coding	YES	CCDS48070.1	ENSP00000384610	PLPL7_HUMAN	Q5T362_HUMAN	UPI0000E0C27D	.	tolerated(0.06)	possibly_damaging(0.877)	6/35	.	hmmpanther:PTHR14226:SF23,hmmpanther:PTHR14226	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCTTGAA	.	5	BLCA
ARRDC1	0	.	GRCh37	9	140509455	140509455	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237+3G>A	.	.	ENST00000371421	.	38	23	14	57	57	0	ARRDC1,splice_region_variant,,ENST00000371421,;EHMT1,upstream_gene_variant,,ENST00000334856,;ARRDC1,downstream_gene_variant,,ENST00000431925,;EHMT1,upstream_gene_variant,,ENST00000462484,;ARRDC1,downstream_gene_variant,,ENST00000419386,;C9orf37,downstream_gene_variant,,ENST00000371417,;EHMT1,upstream_gene_variant,,ENST00000460843,;ARRDC1,non_coding_transcript_exon_variant,,ENST00000491911,;ARRDC1,intron_variant,,ENST00000475658,;EHMT1,upstream_gene_variant,,ENST00000371394,;ARRDC1,downstream_gene_variant,,ENST00000471125,;ARRDC1,downstream_gene_variant,,ENST00000466367,;ARRDC1,downstream_gene_variant,,ENST00000495220,;ARRDC1,downstream_gene_variant,,ENST00000483563,;ARRDC1,downstream_gene_variant,,ENST00000497877,;ARRDC1,downstream_gene_variant,,ENST00000468983,;C9orf37,downstream_gene_variant,,ENST00000496793,;ARRDC1,downstream_gene_variant,,ENST00000461627,;	A	ENSG00000197070	ENST00000371421	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ARRDC1	HGNC	28633	protein_coding	YES	CCDS7049.1	ENSP00000360475	ARRD1_HUMAN	.	UPI0000072A1F	.	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTGAGTCG	.	4	BLCA
HAUS6	0	.	GRCh37	9	19058406	19058406	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2359C>G	p.Leu787Val	p.L787V	ENST00000380502	16/17	48	37	11	86	86	0	HAUS6,missense_variant,p.Leu651Val,ENST00000380496,;HAUS6,missense_variant,p.Leu787Val,ENST00000380502,;HAUS6,downstream_gene_variant,,ENST00000415524,;	C	ENSG00000147874	ENST00000380502	Transcript	missense_variant	2827	2359	787	L/V	Cta/Gta	COSM123536	.	.	-1	HAUS6	HGNC	25948	protein_coding	YES	CCDS6489.1	ENSP00000369871	HAUS6_HUMAN	Q5SYF9_HUMAN	UPI00000740C7	.	tolerated(0.18)	benign(0.163)	16/17	.	hmmpanther:PTHR16151	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTAGATGAC	.	5	BLCA
IFNW1	0	.	GRCh37	9	21141383	21141383	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187C>T	p.Gln63Ter	p.Q63*	ENST00000380229	1/1	77	67	10	138	138	0	IFNW1,stop_gained,p.Gln63Ter,ENST00000380229,;	A	ENSG00000177047	ENST00000380229	Transcript	stop_gained	762	187	63	Q/*	Cag/Tag	.	.	.	-1	IFNW1	HGNC	5448	protein_coding	YES	CCDS6496.1	ENSP00000369578	IFNW1_HUMAN	.	UPI000002C6DC	.	.	.	1/1	.	Prints_domain:PR00266,Superfamily_domains:SSF47266,SMART_domains:SM00076,Pfam_domain:PF00143,Gene3D:1.20.1250.10,hmmpanther:PTHR11691	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTGGGGGA	.	4	BLCA
IFNW1	0	.	GRCh37	9	21141551	21141551	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19C>T	p.%3D	p.L7L	ENST00000380229	1/1	56	49	7	77	77	0	IFNW1,synonymous_variant,p.%3D,ENST00000380229,;	A	ENSG00000177047	ENST00000380229	Transcript	synonymous_variant	594	19	7	L	Cta/Tta	.	.	.	-1	IFNW1	HGNC	5448	protein_coding	YES	CCDS6496.1	ENSP00000369578	IFNW1_HUMAN	.	UPI000002C6DC	.	.	.	1/1	.	hmmpanther:PTHR11691,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTAGAGGGA	.	2	BLCA
DDX58	0	.	GRCh37	9	32488167	32488167	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988G>C	p.Glu330Gln	p.E330Q	ENST00000379883	8/18	71	62	9	75	74	0	DDX58,missense_variant,p.Glu127Gln,ENST00000545044,;DDX58,missense_variant,p.Glu259Gln,ENST00000542096,;DDX58,missense_variant,p.Glu330Gln,ENST00000379883,;DDX58,missense_variant,p.Glu127Gln,ENST00000379868,;DDX58,missense_variant,p.Glu285Gln,ENST00000379882,;	G	ENSG00000107201	ENST00000379883	Transcript	missense_variant	1146	988	330	E/Q	Gag/Cag	.	.	.	-1	DDX58	HGNC	19102	protein_coding	YES	CCDS6526.1	ENSP00000369213	DDX58_HUMAN	A2A376_HUMAN	UPI000013C841	.	tolerated(0.26)	benign(0.067)	8/18	.	PROSITE_profiles:PS51192,hmmpanther:PTHR14074,hmmpanther:PTHR14074:SF16,Pfam_domain:PF00270,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTCAGCTG	.	5	BLCA
UBAP2	0	.	GRCh37	9	33973226	33973226	+	Missense_Mutation	SNP	C	C	T	rs142268445	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530G>A	p.Arg177His	p.R177H	ENST00000379238	7/29	107	88	18	156	156	0	UBAP2,missense_variant,p.Arg177His,ENST00000379238,;UBAP2,missense_variant,p.Arg54His,ENST00000421278,;UBAP2,missense_variant,p.Arg177His,ENST00000449054,;UBAP2,missense_variant,p.Arg177His,ENST00000360802,;UBAP2,intron_variant,,ENST00000379239,;UBAP2,intron_variant,,ENST00000418786,;UBAP2,intron_variant,,ENST00000412543,;UBAP2,intron_variant,,ENST00000539807,;OSTCP8,upstream_gene_variant,,ENST00000445117,;	T	ENSG00000137073	ENST00000379238	Transcript	missense_variant	648	530	177	R/H	cGt/cAt	rs142268445	.	.	-1	UBAP2	HGNC	14185	protein_coding	YES	CCDS6547.1	ENSP00000368540	UBAP2_HUMAN	Q5JV03_HUMAN	UPI0000140784	.	tolerated(0.11)	probably_damaging(0.98)	7/29	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16308,hmmpanther:PTHR16308:SF17	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCACGTCCA	byCluster	5	BLCA
KIF24	0	.	GRCh37	9	34257704	34257704	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1901G>C	p.Arg634Thr	p.R634T	ENST00000379166	11/13	38	29	9	41	41	0	KIF24,missense_variant,p.Arg500Thr,ENST00000345050,;KIF24,missense_variant,p.Arg634Thr,ENST00000379166,;KIF24,missense_variant,p.Arg634Thr,ENST00000402558,;KIF24,missense_variant,p.Arg500Thr,ENST00000379174,;	G	ENSG00000186638	ENST00000379166	Transcript	missense_variant	2021	1901	634	R/T	aGa/aCa	.	.	.	-1	KIF24	HGNC	19916	protein_coding	YES	CCDS6551.2	ENSP00000368464	KIF24_HUMAN	.	UPI00004F9D23	.	deleterious(0.01)	benign(0.412)	11/13	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCTGGAG	.	5	BLCA
DCTN3	0	.	GRCh37	9	34616067	34616067	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312G>A	p.%3D	p.V104V	ENST00000259632	4/7	40	30	10	44	44	0	DCTN3,synonymous_variant,p.%3D,ENST00000341694,;DCTN3,synonymous_variant,p.%3D,ENST00000378913,;DCTN3,synonymous_variant,p.%3D,ENST00000259632,;DCTN3,synonymous_variant,p.%3D,ENST00000477738,;DCTN3,3_prime_UTR_variant,,ENST00000447983,;DCTN3,intron_variant,,ENST00000378916,;DCTN3,intron_variant,,ENST00000421919,;DCTN3,downstream_gene_variant,,ENST00000378911,;RPP25L,upstream_gene_variant,,ENST00000297613,;RPP25L,upstream_gene_variant,,ENST00000378959,;DCTN3,non_coding_transcript_exon_variant,,ENST00000472074,;DCTN3,non_coding_transcript_exon_variant,,ENST00000479399,;DCTN3,upstream_gene_variant,,ENST00000472418,;DCTN3,upstream_gene_variant,,ENST00000481438,;	T	ENSG00000137100	ENST00000259632	Transcript	synonymous_variant	328	312	104	V	gtG/gtA	.	.	.	-1	DCTN3	HGNC	2713	protein_coding	YES	CCDS6560.1	ENSP00000259632	DCTN3_HUMAN	.	UPI0000072AE5	.	.	.	4/7	.	Pfam_domain:PF07426	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTCACCTG	.	5	BLCA
PIGO	0	.	GRCh37	9	35092728	35092728	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1156C>G	p.Gln386Glu	p.Q386E	ENST00000378617	7/11	41	28	12	56	56	0	PIGO,missense_variant,p.Gln386Glu,ENST00000341666,;PIGO,missense_variant,p.Gln386Glu,ENST00000361778,;PIGO,missense_variant,p.Gln386Glu,ENST00000298004,;PIGO,missense_variant,p.Gln386Glu,ENST00000378617,;RP11-182N22.8,upstream_gene_variant,,ENST00000431804,;PIGO,downstream_gene_variant,,ENST00000492770,;PIGO,upstream_gene_variant,,ENST00000491687,;PIGO,downstream_gene_variant,,ENST00000472208,;PIGO,non_coding_transcript_exon_variant,,ENST00000465745,;PIGO,non_coding_transcript_exon_variant,,ENST00000474436,;	C	ENSG00000165282	ENST00000378617	Transcript	missense_variant	1551	1156	386	Q/E	Cag/Gag	.	.	.	-1	PIGO	HGNC	23215	protein_coding	YES	CCDS6575.1	ENSP00000367880	PIGO_HUMAN	.	UPI0000048EF6	.	tolerated(0.22)	benign(0.416)	7/11	.	hmmpanther:PTHR23071	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTGAGTAG	.	5	BLCA
TESK1	0	.	GRCh37	9	35606242	35606242	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.350G>C	p.Gly117Ala	p.G117A	ENST00000336395	3/10	56	47	8	81	81	0	TESK1,missense_variant,p.Gly117Ala,ENST00000336395,;CD72,downstream_gene_variant,,ENST00000259633,;CD72,downstream_gene_variant,,ENST00000396757,;MIR4667,upstream_gene_variant,,ENST00000578933,;TESK1,non_coding_transcript_exon_variant,,ENST00000498522,;TESK1,upstream_gene_variant,,ENST00000480077,;CD72,downstream_gene_variant,,ENST00000490239,;TESK1,upstream_gene_variant,,ENST00000467424,;TESK1,upstream_gene_variant,,ENST00000463897,;	C	ENSG00000107140	ENST00000336395	Transcript	missense_variant	600	350	117	G/A	gGa/gCa	.	.	.	1	TESK1	HGNC	11731	protein_coding	YES	CCDS6580.1	ENSP00000338127	TESK1_HUMAN	Q8NFJ2_HUMAN,Q8NFE2_HUMAN,Q8NFE1_HUMAN,Q8N6A2_HUMAN,B4DQQ3_HUMAN	UPI0000074302	.	deleterious(0)	probably_damaging(1)	3/10	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23257:SF372,hmmpanther:PTHR23257,Gene3D:3.30.200.20,Pfam_domain:PF00069,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGGGAGTCT	.	5	BLCA
CCIN	0	.	GRCh37	9	36170156	36170156	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657C>G	p.Phe219Leu	p.F219L	ENST00000335119	1/1	47	37	9	47	47	0	CCIN,missense_variant,p.Phe219Leu,ENST00000335119,;	G	ENSG00000185972	ENST00000335119	Transcript	missense_variant	768	657	219	F/L	ttC/ttG	.	.	.	1	CCIN	HGNC	1568	protein_coding	YES	CCDS6599.1	ENSP00000334996	CALI_HUMAN	Q8WX35_HUMAN	UPI000006EB8E	.	tolerated(0.82)	benign(0.018)	1/1	.	SMART_domains:SM00875,Pfam_domain:PF07707,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF163	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTTCTTCAA	.	5	BLCA
PAX5	0	.	GRCh37	9	36966699	36966699	+	Silent	SNP	C	C	G	rs749437814	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627G>C	p.%3D	p.P209P	ENST00000358127	6/10	24	20	4	50	50	0	PAX5,synonymous_variant,p.%3D,ENST00000377852,;PAX5,synonymous_variant,p.%3D,ENST00000377847,;PAX5,synonymous_variant,p.%3D,ENST00000523145,;PAX5,synonymous_variant,p.%3D,ENST00000446742,;PAX5,synonymous_variant,p.%3D,ENST00000522003,;PAX5,synonymous_variant,p.%3D,ENST00000414447,;PAX5,synonymous_variant,p.%3D,ENST00000520154,;PAX5,synonymous_variant,p.%3D,ENST00000377853,;PAX5,synonymous_variant,p.%3D,ENST00000524340,;PAX5,synonymous_variant,p.%3D,ENST00000358127,;PAX5,synonymous_variant,p.%3D,ENST00000520281,;PAX5,synonymous_variant,p.%3D,ENST00000523241,;PAX5,intron_variant,,ENST00000522932,;PAX5,synonymous_variant,p.%3D,ENST00000377840,;PAX5,synonymous_variant,p.%3D,ENST00000523493,;PAX5,upstream_gene_variant,,ENST00000520083,;	G	ENSG00000196092	ENST00000358127	Transcript	synonymous_variant	702	627	209	P	ccG/ccC	rs749437814,COSM608901	.	.	-1	PAX5	HGNC	8619	protein_coding	YES	CCDS6607.1	ENSP00000350844	PAX5_HUMAN	E7ERK2_HUMAN,C0KTE1_HUMAN	UPI000013136C	.	.	.	6/10	.	hmmpanther:PTHR24329:SF259,hmmpanther:PTHR24329	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.?|c.605-?_1176+?del|3,CODON|p.?|c.605-?_1012+?del|3,CODON|p.?|c.47-?_1012+?del|7,CODON|p.?|c.47-?_780+?del|14,CODON|p.?|c.1-?_910+?del|3	SOMATICSNIPER|RADIA|MUTECT|VARSCANS	CCGTTCGGCAC	byFrequency	4	BLCA
FRMPD1	0	.	GRCh37	9	37733772	37733772	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168C>T	p.Leu390Phe	p.L390F	ENST00000539465	12/16	76	64	11	102	102	0	FRMPD1,missense_variant,p.Leu212Phe,ENST00000536622,;FRMPD1,missense_variant,p.Leu390Phe,ENST00000539465,;FRMPD1,missense_variant,p.Leu390Phe,ENST00000377765,;FRMPD1,missense_variant,p.Leu259Phe,ENST00000541302,;RP11-613M10.9,intron_variant,,ENST00000540557,;	T	ENSG00000070601	ENST00000539465	Transcript	missense_variant	1761	1168	390	L/F	Ctc/Ttc	.	.	.	1	FRMPD1	HGNC	29159	protein_coding	YES	CCDS6612.1	ENSP00000444411	FRPD1_HUMAN	F5H0G3_HUMAN	UPI000013D2CC	.	deleterious(0)	probably_damaging(0.915)	12/16	.	PROSITE_profiles:PS50057,hmmpanther:PTHR13436:SF4,hmmpanther:PTHR13436,Pfam_domain:PF00373,Gene3D:1.20.80.10,SMART_domains:SM00295,Superfamily_domains:SSF47031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATCCTCGGA	.	5	BLCA
GLIS3	0	.	GRCh37	9	3932366	3932366	+	Missense_Mutation	SNP	C	C	A	rs781689662	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1977G>T	p.Arg659Ser	p.R659S	ENST00000381971	6/11	85	71	14	76	76	0	GLIS3,missense_variant,p.Arg659Ser,ENST00000381971,;GLIS3,missense_variant,p.Arg504Ser,ENST00000324333,;GLIS3,non_coding_transcript_exon_variant,,ENST00000461870,;GLIS3,non_coding_transcript_exon_variant,,ENST00000464391,;GLIS3,downstream_gene_variant,,ENST00000469833,;GLIS3,non_coding_transcript_exon_variant,,ENST00000467497,;GLIS3,non_coding_transcript_exon_variant,,ENST00000463680,;	A	ENSG00000107249	ENST00000381971	Transcript	missense_variant	2571	1977	659	R/S	agG/agT	rs781689662	.	.	-1	GLIS3	HGNC	28510	protein_coding	YES	CCDS43784.1	ENSP00000371398	GLIS3_HUMAN	Q1PHK4_HUMAN,Q1PHJ8_HUMAN,Q1PHJ7_HUMAN,Q1PHJ2_HUMAN,Q1PHI3_HUMAN	UPI0000DA4C5E	.	deleterious(0)	probably_damaging(0.928)	6/11	.	hmmpanther:PTHR19818,hmmpanther:PTHR19818:SF71	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTTCCTTGC	.	4	BLCA
RCL1	0	.	GRCh37	9	4844670	4844670	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856G>A	p.Glu286Lys	p.E286K	ENST00000381750	7/9	70	57	12	74	74	0	RCL1,missense_variant,p.Glu286Lys,ENST00000381750,;RCL1,missense_variant,p.Glu100Lys,ENST00000441844,;RCL1,missense_variant,p.Glu100Lys,ENST00000381730,;RCL1,missense_variant,p.Glu100Lys,ENST00000448872,;RCL1,missense_variant,p.Glu128Lys,ENST00000442869,;RCL1,missense_variant,p.Glu100Lys,ENST00000381728,;RCL1,downstream_gene_variant,,ENST00000473230,;	A	ENSG00000120158	ENST00000381750	Transcript	missense_variant	1079	856	286	E/K	Gaa/Aaa	.	.	.	1	RCL1	HGNC	17687	protein_coding	YES	CCDS6456.1	ENSP00000371169	RCL1_HUMAN	Q5VZU3_HUMAN	UPI000013CA7B	.	deleterious(0)	probably_damaging(0.951)	7/9	.	hmmpanther:PTHR11096:SF1,hmmpanther:PTHR11096,Gene3D:3kgdA01,Pfam_domain:PF01137,TIGRFAM_domain:TIGR03400,Pfam_domain:PF05189,PIRSF_domain:PIRSF005378	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGAGGAAATC	.	4	BLCA
KDM4C	0	.	GRCh37	9	7011802	7011802	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1891G>C	p.Glu631Gln	p.E631Q	ENST00000381309	13/22	32	25	6	61	61	0	KDM4C,missense_variant,p.Glu631Gln,ENST00000381306,;KDM4C,missense_variant,p.Glu631Gln,ENST00000381309,;KDM4C,missense_variant,p.Glu653Gln,ENST00000535193,;KDM4C,missense_variant,p.Glu631Gln,ENST00000543771,;KDM4C,missense_variant,p.Glu450Gln,ENST00000536108,;KDM4C,missense_variant,p.Glu318Gln,ENST00000428870,;KDM4C,missense_variant,p.Glu376Gln,ENST00000442236,;KDM4C,upstream_gene_variant,,ENST00000420847,;KDM4C,3_prime_UTR_variant,,ENST00000438023,;	C	ENSG00000107077	ENST00000381309	Transcript	missense_variant	2456	1891	631	E/Q	Gag/Cag	.	.	.	1	KDM4C	HGNC	17071	protein_coding	YES	CCDS6471.1	ENSP00000370710	KDM4C_HUMAN	C9J879_HUMAN	UPI0000367602	.	deleterious(0)	possibly_damaging(0.886)	13/22	.	hmmpanther:PTHR10694:SF32,hmmpanther:PTHR10694	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTGAGCAA	.	5	BLCA
TRPM6	0	.	GRCh37	9	77365633	77365633	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5004C>G	p.%3D	p.L1668L	ENST00000360774	30/39	65	59	6	77	77	0	TRPM6,synonymous_variant,p.%3D,ENST00000451710,;TRPM6,synonymous_variant,p.%3D,ENST00000449912,;TRPM6,synonymous_variant,p.%3D,ENST00000376871,;TRPM6,synonymous_variant,p.%3D,ENST00000361255,;TRPM6,synonymous_variant,p.%3D,ENST00000376864,;TRPM6,synonymous_variant,p.%3D,ENST00000376872,;TRPM6,synonymous_variant,p.%3D,ENST00000360774,;	C	ENSG00000119121	ENST00000360774	Transcript	synonymous_variant	5242	5004	1668	L	ctC/ctG	.	.	.	-1	TRPM6	HGNC	17995	protein_coding	YES	CCDS6647.1	ENSP00000354006	TRPM6_HUMAN	.	UPI000006E041	.	.	.	30/39	.	hmmpanther:PTHR13800:SF15,hmmpanther:PTHR13800	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGCTGAGATC	.	3	BLCA
TRPM6	0	.	GRCh37	9	77386741	77386741	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3414C>A	p.%3D	p.L1138L	ENST00000360774	25/39	118	98	19	146	146	0	TRPM6,synonymous_variant,p.%3D,ENST00000451710,;TRPM6,synonymous_variant,p.%3D,ENST00000449912,;TRPM6,synonymous_variant,p.%3D,ENST00000361255,;TRPM6,synonymous_variant,p.%3D,ENST00000376864,;TRPM6,synonymous_variant,p.%3D,ENST00000360774,;TRPM6,intron_variant,,ENST00000376871,;TRPM6,intron_variant,,ENST00000376872,;	T	ENSG00000119121	ENST00000360774	Transcript	synonymous_variant	3652	3414	1138	L	ctC/ctA	.	.	.	-1	TRPM6	HGNC	17995	protein_coding	YES	CCDS6647.1	ENSP00000354006	TRPM6_HUMAN	.	UPI000006E041	.	.	.	25/39	.	hmmpanther:PTHR13800:SF15,hmmpanther:PTHR13800	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACTGAGGTA	.	5	BLCA
BICD2	0	.	GRCh37	9	95477685	95477685	+	Silent	SNP	G	G	A	rs370848787	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2319C>T	p.%3D	p.D773D	ENST00000356884	7/7	36	29	6	61	61	0	BICD2,synonymous_variant,p.%3D,ENST00000375512,;BICD2,synonymous_variant,p.%3D,ENST00000356884,;	A	ENSG00000185963	ENST00000356884	Transcript	synonymous_variant	2387	2319	773	D	gaC/gaT	rs370848787	.	.	-1	BICD2	HGNC	17208	protein_coding	YES	CCDS35064.1	ENSP00000349351	BICD2_HUMAN	.	UPI00001BBAF1	.	.	.	7/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31233,hmmpanther:PTHR31233:SF7,Pfam_domain:PF09730	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCGTCCTC	byFrequency|byCluster	5	BLCA
C9orf3	0	.	GRCh37	9	97847726	97847726	+	Intron	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5-1238G>T	.	.	ENST00000375315	.	34	26	7	68	68	0	C9orf3,intron_variant,,ENST00000297979,;C9orf3,intron_variant,,ENST00000428313,;C9orf3,intron_variant,,ENST00000375315,;C9orf3,downstream_gene_variant,,ENST00000424143,;C9orf3,downstream_gene_variant,,ENST00000445181,;C9orf3,downstream_gene_variant,,ENST00000433691,;C9orf3,downstream_gene_variant,,ENST00000425634,;MIR23B,downstream_gene_variant,,ENST00000384832,;MIR3074,downstream_gene_variant,,ENST00000384885,;MIR27B,upstream_gene_variant,,ENST00000385129,;C9orf3,intron_variant,,ENST00000471978,;C9orf3,intron_variant,,ENST00000463372,;C9orf3,intron_variant,,ENST00000468164,;C9orf3,downstream_gene_variant,,ENST00000489562,;C9orf3,downstream_gene_variant,,ENST00000479161,;C9orf3,downstream_gene_variant,,ENST00000462125,;C9orf3,intron_variant,,ENST00000478473,;	T	ENSG00000148120	ENST00000375315	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	C9orf3	HGNC	1361	protein_coding	YES	CCDS55328.1	ENSP00000364464	AMPO_HUMAN	B4DKZ8_HUMAN	UPI0000211ACC	.	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGATGACCTC	.	5	BLCA
CHRDL1	0	.	GRCh37	X	109964677	109964677	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.383T>C	p.Leu128Pro	p.L128P	ENST00000372042	5/12	183	78	104	137	137	0	CHRDL1,missense_variant,p.Leu128Pro,ENST00000372042,;CHRDL1,missense_variant,p.Leu121Pro,ENST00000372045,;CHRDL1,missense_variant,p.Leu127Pro,ENST00000218054,;CHRDL1,missense_variant,p.Leu127Pro,ENST00000444321,;CHRDL1,missense_variant,p.Leu127Pro,ENST00000394797,;CHRDL1,intron_variant,,ENST00000482160,;CHRDL1,intron_variant,,ENST00000434224,;	G	ENSG00000101938	ENST00000372042	Transcript	missense_variant	485	383	128	L/P	cTg/cCg	.	.	.	-1	CHRDL1	HGNC	29861	protein_coding	YES	CCDS48149.1	ENSP00000361112	CRDL1_HUMAN	Q59FB2_HUMAN,B3KRU6_HUMAN	UPI0000367765	.	deleterious(0)	possibly_damaging(0.721)	5/12	.	PROSITE_profiles:PS50184,hmmpanther:PTHR11339:SF249,hmmpanther:PTHR11339,Pfam_domain:PF00093,SMART_domains:SM00214,Superfamily_domains:SSF57603	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAACAGCTCT	.	5	BLCA
NKRF	0	.	GRCh37	X	118726496	118726496	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30-20G>C	.	.	ENST00000542113	.	15	3	12	12	12	0	NKRF,5_prime_UTR_variant,,ENST00000371527,;NKRF,intron_variant,,ENST00000304449,;NKRF,intron_variant,,ENST00000542113,;NKRF,upstream_gene_variant,,ENST00000487600,;	G	ENSG00000186416	ENST00000542113	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	NKRF	HGNC	19374	protein_coding	YES	CCDS55486.1	ENSP00000442308	NKRF_HUMAN	A3F769_HUMAN,A2I831_HUMAN,A2I829_HUMAN	UPI0000211E22	.	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	ATAATCTACAG	.	4	BLCA
UPF3B	0	.	GRCh37	X	118985779	118985779	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214C>G	p.Gln72Glu	p.Q72E	ENST00000276201	2/11	18	9	9	22	22	0	UPF3B,missense_variant,p.Gln72Glu,ENST00000345865,;UPF3B,missense_variant,p.Gln72Glu,ENST00000276201,;	C	ENSG00000125351	ENST00000276201	Transcript	missense_variant	284	214	72	Q/E	Caa/Gaa	.	.	.	-1	UPF3B	HGNC	20439	protein_coding	YES	CCDS14588.1	ENSP00000276201	REN3B_HUMAN	I3XIE4_HUMAN	UPI000006D21C	.	deleterious(0.01)	probably_damaging(0.963)	2/11	.	hmmpanther:PTHR13112,hmmpanther:PTHR13112:SF1,Pfam_domain:PF03467,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTGAAGAT	.	5	BLCA
TENM1	0	.	GRCh37	X	123525955	123525955	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5635A>C	p.Ile1879Leu	p.I1879L	ENST00000422452	28/32	82	78	4	54	54	0	TENM1,missense_variant,p.Ile1879Leu,ENST00000422452,;TENM1,missense_variant,p.Ile1872Leu,ENST00000371130,;STAG2,intron_variant,,ENST00000469481,;	G	ENSG00000009694	ENST00000422452	Transcript	missense_variant	5699	5635	1879	I/L	Att/Ctt	.	.	.	-1	TENM1	HGNC	8117	protein_coding	YES	CCDS55488.1	ENSP00000403954	TEN1_HUMAN	G3CAS6_HUMAN,B7ZMH4_HUMAN	UPI0000211B6A	.	tolerated(0.28)	benign(0.01)	28/32	.	hmmpanther:PTHR11219:SF7,hmmpanther:PTHR11219,TIGRFAM_domain:TIGR01643	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAAATAATTT	.	2	BLCA
AFF2	0	.	GRCh37	X	148068996	148068996	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3723C>T	p.%3D	p.H1241H	ENST00000370460	20/21	73	60	13	93	93	0	AFF2,synonymous_variant,p.%3D,ENST00000370460,;AFF2,synonymous_variant,p.%3D,ENST00000342251,;AFF2,synonymous_variant,p.%3D,ENST00000286437,;AFF2,synonymous_variant,p.%3D,ENST00000370457,;	T	ENSG00000155966	ENST00000370460	Transcript	synonymous_variant	4202	3723	1241	H	caC/caT	.	.	.	1	AFF2	HGNC	3776	protein_coding	YES	CCDS14684.1	ENSP00000359489	AFF2_HUMAN	.	UPI000049E130	.	.	.	20/21	.	hmmpanther:PTHR10528:SF13,hmmpanther:PTHR10528,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACCACATGGC	.	4	BLCA
CA5B	0	.	GRCh37	X	15800717	15800717	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.884C>G	p.Ser295Cys	p.S295C	ENST00000318636	8/8	28	16	12	44	44	0	CA5B,missense_variant,p.Ser295Cys,ENST00000318636,;CA5B,missense_variant,p.Ser295Cys,ENST00000454127,;	G	ENSG00000169239	ENST00000318636	Transcript	missense_variant	1020	884	295	S/C	tCc/tGc	.	.	.	1	CA5B	HGNC	1378	protein_coding	YES	CCDS14171.1	ENSP00000314099	CAH5B_HUMAN	C9JA11_HUMAN,C9IZP3_HUMAN	UPI0000126D58	.	deleterious(0)	probably_damaging(0.999)	8/8	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952:SF25,hmmpanther:PTHR18952,Gene3D:3.10.200.10,Pfam_domain:PF00194,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCATCCTTCC	.	5	BLCA
SYAP1	0	.	GRCh37	X	16773177	16773177	+	Missense_Mutation	SNP	G	G	C	rs371219398	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685G>C	p.Glu229Gln	p.E229Q	ENST00000380155	6/9	52	29	22	63	63	0	SYAP1,missense_variant,p.Glu229Gln,ENST00000380155,;	C	ENSG00000169895	ENST00000380155	Transcript	missense_variant	778	685	229	E/Q	Gag/Cag	rs371219398	.	.	1	SYAP1	HGNC	16273	protein_coding	YES	CCDS14177.1	ENSP00000369500	SYAP1_HUMAN	B4DHY7_HUMAN	UPI000006E658	.	tolerated(0.12)	possibly_damaging(0.501)	6/9	.	hmmpanther:PTHR16019:SF6,hmmpanther:PTHR16019	.	.	.	.	.	.	.	A:0.0003	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGGAGAAG	byCluster	5	BLCA
REPS2	0	.	GRCh37	X	17121838	17121838	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1517-3C>T	.	.	ENST00000357277	.	27	16	10	43	43	0	REPS2,splice_region_variant,,ENST00000380064,;REPS2,splice_region_variant,,ENST00000357277,;REPS2,splice_region_variant,,ENST00000303843,;REPS2,splice_region_variant,,ENST00000469714,;CBX1P2,upstream_gene_variant,,ENST00000453841,;	T	ENSG00000169891	ENST00000357277	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	REPS2	HGNC	9963	protein_coding	YES	CCDS14180.2	ENSP00000349824	REPS2_HUMAN	.	UPI00001BBB18	.	.	.	.	13/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCAGCTA	.	4	BLCA
BEND2	0	.	GRCh37	X	18230687	18230687	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.490G>C	p.Glu164Gln	p.E164Q	ENST00000380033	4/14	28	12	16	42	42	0	BEND2,missense_variant,p.Glu164Gln,ENST00000380030,;BEND2,missense_variant,p.Glu164Gln,ENST00000380033,;	G	ENSG00000177324	ENST00000380033	Transcript	missense_variant	623	490	164	E/Q	Gag/Cag	.	.	.	-1	BEND2	HGNC	28509	protein_coding	YES	CCDS14184.1	ENSP00000369372	BEND2_HUMAN	.	UPI000013FE0F	.	tolerated(0.26)	benign(0.01)	4/14	.	hmmpanther:PTHR16213,hmmpanther:PTHR16213:SF44	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACCTCTGGAG	.	5	BLCA
ATP6AP2	0	.	GRCh37	X	40456901	40456901	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519G>A	p.%3D	p.L173L	ENST00000378438	5/9	45	39	6	60	60	0	ATP6AP2,synonymous_variant,p.%3D,ENST00000378438,;ATP6AP2,synonymous_variant,p.%3D,ENST00000544975,;ATP6AP2,synonymous_variant,p.%3D,ENST00000535539,;ATP6AP2,synonymous_variant,p.%3D,ENST00000447485,;ATP6AP2,synonymous_variant,p.%3D,ENST00000436783,;ATP6AP2,intron_variant,,ENST00000423649,;ATP6AP2,intron_variant,,ENST00000535777,;ATP6AP2,non_coding_transcript_exon_variant,,ENST00000479120,;ATP6AP2,non_coding_transcript_exon_variant,,ENST00000486558,;	A	ENSG00000182220	ENST00000378438	Transcript	synonymous_variant	677	519	173	L	ctG/ctA	.	.	.	1	ATP6AP2	HGNC	18305	protein_coding	YES	CCDS14252.1	ENSP00000367697	RENR_HUMAN	B7Z413_HUMAN	UPI000006EC3F	.	.	.	5/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13351	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTGAGTAG	.	4	BLCA
DDX3X	0	.	GRCh37	X	41204702	41204702	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216G>T	p.Gly406Ter	p.G406*	ENST00000399959	12/17	34	31	3	62	62	0	DDX3X,stop_gained,p.Gly406Ter,ENST00000399959,;DDX3X,stop_gained,p.Gly390Ter,ENST00000457138,;DDX3X,3_prime_UTR_variant,,ENST00000542215,;DDX3X,intron_variant,,ENST00000441189,;RN7SL15P,downstream_gene_variant,,ENST00000582825,;DDX3X,non_coding_transcript_exon_variant,,ENST00000478993,;	T	ENSG00000215301	ENST00000399959	Transcript	stop_gained	2071	1216	406	G/*	Gga/Tga	.	.	.	1	DDX3X	HGNC	2745	protein_coding	YES	CCDS43931.1	ENSP00000382840	DDX3X_HUMAN	Q59GX6_HUMAN	UPI000013CB6D	.	.	.	12/17	.	hmmpanther:PTHR24031:SF195,hmmpanther:PTHR24031,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTAGGAAGA	.	2	BLCA
EFHC2	0	.	GRCh37	X	44089008	44089008	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1638C>T	p.%3D	p.L546L	ENST00000420999	11/15	44	36	8	54	54	0	EFHC2,synonymous_variant,p.%3D,ENST00000420999,;EFHC2,upstream_gene_variant,,ENST00000343571,;	A	ENSG00000183690	ENST00000420999	Transcript	synonymous_variant	1722	1638	546	L	ctC/ctT	.	.	.	-1	EFHC2	HGNC	26233	protein_coding	YES	CCDS55405.1	ENSP00000404232	EFHC2_HUMAN	.	UPI00000717F2	.	.	.	11/15	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12086,hmmpanther:PTHR12086:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTGAGGTT	.	5	BLCA
DUSP21	0	.	GRCh37	X	44703471	44703471	+	Silent	SNP	C	C	T	rs745699758	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93C>T	p.%3D	p.L31L	ENST00000339042	1/1	27	13	14	48	48	0	DUSP21,synonymous_variant,p.%3D,ENST00000339042,;	T	ENSG00000189037	ENST00000339042	Transcript	synonymous_variant	223	93	31	L	ctC/ctT	rs745699758	.	.	1	DUSP21	HGNC	20476	protein_coding	YES	CCDS14264.1	ENSP00000343244	DUS21_HUMAN	.	UPI00000342DF	.	.	.	1/1	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159,hmmpanther:PTHR10159:SF313,Gene3D:3.90.190.10,Pfam_domain:PF00782,SMART_domains:SM00195,Superfamily_domains:SSF52799,Prints_domain:PR01908,Prints_domain:PR01910	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TTTCTCAGCAA	byFrequency	4	BLCA
SSX5	0	.	GRCh37	X	48054495	48054495	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140G>C	p.Arg47Thr	p.R47T	ENST00000311798	3/9	18	11	7	42	42	0	SSX5,missense_variant,p.Arg47Thr,ENST00000311798,;SSX5,intron_variant,,ENST00000347757,;SSX5,intron_variant,,ENST00000376923,;SSX5,upstream_gene_variant,,ENST00000403001,;RP11-552E4.2,upstream_gene_variant,,ENST00000437312,;	G	ENSG00000165583	ENST00000311798	Transcript	missense_variant	193	140	47	R/T	aGa/aCa	.	.	.	-1	SSX5	HGNC	11339	protein_coding	YES	CCDS14288.1	ENSP00000312415	SSX5_HUMAN	.	UPI000013F201	.	deleterious_low_confidence(0)	benign(0.121)	3/9	.	hmmpanther:PTHR14112:SF4,hmmpanther:PTHR14112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTCTTCCC	.	5	BLCA
EDA	0	.	GRCh37	X	69253326	69253326	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.872G>C	p.Gly291Ala	p.G291A	ENST00000374552	7/8	46	23	22	50	50	0	EDA,missense_variant,p.Gly291Ala,ENST00000374553,;EDA,missense_variant,p.Gly288Ala,ENST00000524573,;EDA,missense_variant,p.Gly291Ala,ENST00000374552,;EDA,downstream_gene_variant,,ENST00000503592,;	C	ENSG00000158813	ENST00000374552	Transcript	missense_variant	1114	872	291	G/A	gGg/gCg	.	.	.	1	EDA	HGNC	3157	protein_coding	YES	CCDS14394.1	ENSP00000363680	EDA_HUMAN	D6RA95_HUMAN	UPI0000052244	.	deleterious_low_confidence(0)	probably_damaging(1)	7/8	.	PROSITE_profiles:PS50049,hmmpanther:PTHR24023:SF62,hmmpanther:PTHR24023,Gene3D:2.60.120.40,Pfam_domain:PF00229,Superfamily_domains:SSF49842	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCGGGGAGC	.	5	BLCA
SH3BGRL	0	.	GRCh37	X	80532491	80532491	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.%3D	p.K18K	ENST00000373212	2/4	18	13	5	31	31	0	SH3BGRL,synonymous_variant,p.%3D,ENST00000373212,;SH3BGRL,non_coding_transcript_exon_variant,,ENST00000474113,;SH3BGRL,non_coding_transcript_exon_variant,,ENST00000463546,;SH3BGRL,non_coding_transcript_exon_variant,,ENST00000481106,;	A	ENSG00000131171	ENST00000373212	Transcript	synonymous_variant	312	54	18	K	aaG/aaA	.	.	.	1	SH3BGRL	HGNC	10823	protein_coding	YES	CCDS14449.1	ENSP00000362308	SH3L1_HUMAN	D3DTE6_HUMAN,B0AZV6_HUMAN	UPI0000135938	.	.	.	2/4	.	hmmpanther:PTHR12232:SF5,hmmpanther:PTHR12232,Gene3D:3.40.30.10,Pfam_domain:PF04908,PIRSF_domain:PIRSF008142,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAAACA	.	5	BLCA
RPS6KA6	0	.	GRCh37	X	83361431	83361431	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1307C>T	p.Ser436Phe	p.S436F	ENST00000262752	15/22	19	10	9	20	20	0	RPS6KA6,missense_variant,p.Ser436Phe,ENST00000262752,;RPS6KA6,missense_variant,p.Ser436Phe,ENST00000543399,;RPS6KA6,non_coding_transcript_exon_variant,,ENST00000495332,;	A	ENSG00000072133	ENST00000262752	Transcript	missense_variant	1315	1307	436	S/F	tCc/tTc	.	.	.	-1	RPS6KA6	HGNC	10435	protein_coding	YES	CCDS14451.1	ENSP00000262752	KS6A6_HUMAN	.	UPI0000035B52	.	deleterious(0)	probably_damaging(0.995)	15/22	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF000606,Pfam_domain:PF00069,PROSITE_patterns:PS00107,hmmpanther:PTHR24351:SF49,hmmpanther:PTHR24351,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTAGGAGCCA	.	5	BLCA
USP9Y	0	.	GRCh37	Y	14847563	14847563	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.675C>T	p.%3D	p.L225L	ENST00000338981	8/46	10	7	3	20	20	0	USP9Y,synonymous_variant,p.%3D,ENST00000338981,;USP9Y,non_coding_transcript_exon_variant,,ENST00000426564,;	T	ENSG00000114374	ENST00000338981	Transcript	synonymous_variant	1620	675	225	L	ctC/ctT	.	.	.	1	USP9Y	HGNC	12633	protein_coding	YES	CCDS14781.1	ENSP00000342812	USP9Y_HUMAN	.	UPI00001AE67D	.	.	.	8/46	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GATCTCATCAA	.	2	BLCA
NLGN4Y	0	.	GRCh37	Y	16734319	16734319	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-A9T8-01A-11D-A391-08	TCGA-XF-A9T8-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.320C>T	p.Ser107Phe	p.S107F	ENST00000355905	2/6	38	21	17	65	65	0	NLGN4Y,missense_variant,p.Ser107Phe,ENST00000339174,;NLGN4Y,missense_variant,p.Ser107Phe,ENST00000382868,;NLGN4Y,missense_variant,p.Ser87Phe,ENST00000413217,;NLGN4Y,missense_variant,p.Ser107Phe,ENST00000355905,;NLGN4Y,missense_variant,p.Ser107Phe,ENST00000297967,;NLGN4Y,intron_variant,,ENST00000382872,;NLGN4Y,non_coding_transcript_exon_variant,,ENST00000471252,;NLGN4Y,non_coding_transcript_exon_variant,,ENST00000476359,;NLGN4Y,downstream_gene_variant,,ENST00000481089,;	T	ENSG00000165246	ENST00000355905	Transcript	missense_variant	572	320	107	S/F	tCt/tTt	.	.	.	1	NLGN4Y	HGNC	15529	protein_coding	YES	CCDS14788.1	ENSP00000348169	NLGNY_HUMAN	.	UPI000004770C	.	deleterious(0.01)	benign(0.06)	2/6	.	hmmpanther:PTHR11559,hmmpanther:PTHR11559:SF195,Gene3D:3.40.50.1820,Pfam_domain:PF00135,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTGCTG	.	5	BLCA
KCNMA1	0	.	GRCh37	10	78944630	78944630	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.647A>G	p.Gln216Arg	p.Q216R	ENST00000404857	4/28	53	47	6	53	53	0	KCNMA1,missense_variant,p.Gln216Arg,ENST00000404857,;KCNMA1,missense_variant,p.Gln77Arg,ENST00000604624,;KCNMA1,missense_variant,p.Gln151Arg,ENST00000372437,;KCNMA1,missense_variant,p.Gln216Arg,ENST00000406533,;KCNMA1,missense_variant,p.Gln216Arg,ENST00000354353,;KCNMA1,missense_variant,p.Gln190Arg,ENST00000457953,;KCNMA1,missense_variant,p.Gln153Arg,ENST00000372408,;KCNMA1,missense_variant,p.Gln216Arg,ENST00000372443,;KCNMA1,missense_variant,p.Gln167Arg,ENST00000372403,;KCNMA1,missense_variant,p.Gln216Arg,ENST00000286627,;KCNMA1,missense_variant,p.Gln216Arg,ENST00000404771,;KCNMA1,missense_variant,p.Gln216Arg,ENST00000372440,;KCNMA1,missense_variant,p.Gln190Arg,ENST00000372421,;KCNMA1,missense_variant,p.Gln216Arg,ENST00000286628,;	C	ENSG00000156113	ENST00000404857	Transcript	missense_variant	647	647	216	Q/R	cAg/cGg	.	.	.	-1	KCNMA1	HGNC	6284	protein_coding	YES	CCDS53545.1	ENSP00000385806	KCMA1_HUMAN	.	UPI00003519E8	.	tolerated(0.12)	possibly_damaging(0.782)	4/28	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10027:SF18,hmmpanther:PTHR10027,Gene3D:1.10.287.70,Superfamily_domains:SSF81324,Prints_domain:PR00169	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGATCTGTAAT	.	4	BLCA
TBC1D12	0	.	GRCh37	10	96269873	96269873	+	Silent	SNP	C	C	T	rs187502746	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1626C>T	p.%3D	p.A542A	ENST00000225235	8/13	62	58	3	63	63	0	TBC1D12,synonymous_variant,p.%3D,ENST00000225235,;TBC1D12,non_coding_transcript_exon_variant,,ENST00000485048,;	T	ENSG00000108239	ENST00000225235	Transcript	synonymous_variant	1736	1626	542	A	gcC/gcT	rs187502746	.	.	1	TBC1D12	HGNC	29082	protein_coding	YES	CCDS41553.1	ENSP00000225235	TBC12_HUMAN	B9A6L3_HUMAN	UPI00001C1ED6	.	.	.	8/13	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957:SF201,hmmpanther:PTHR22957,Pfam_domain:PF00566,Gene3D:2qq8A02,SMART_domains:SM00164,Superfamily_domains:SSF47923	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGCCAGTCT	byCluster|by1000G	2	BLCA
ATM	0	.	GRCh37	11	108117756	108117756	+	Missense_Mutation	SNP	A	A	G	rs587781511	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967A>G	p.Ile323Val	p.I323V	ENST00000278616	8/63	39	35	4	38	38	0	ATM,missense_variant,p.Ile323Val,ENST00000278616,;ATM,missense_variant,p.Ile323Val,ENST00000527805,;ATM,missense_variant,p.Ile323Val,ENST00000452508,;ATM,downstream_gene_variant,,ENST00000527891,;	G	ENSG00000149311	ENST00000278616	Transcript	missense_variant	1352	967	323	I/V	Ata/Gta	rs587781511,CM000651,COSM1739731,COSM1739730	.	.	1	ATM	HGNC	795	protein_coding	YES	CCDS31669.1	ENSP00000278616	ATM_HUMAN	M0QXY8_HUMAN,E9PRG7_HUMAN,E9PIN0_HUMAN	UPI0000DBEF44	.	deleterious(0.05)	benign(0.14)	8/63	.	Superfamily_domains:SSF48371,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF66	.	.	.	.	.	.	.	.	.	uncertain_significance	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGAGATAAGT	.	4	BLCA
FERMT3	0	.	GRCh37	11	63990660	63990660	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1823A>C	p.Gln608Pro	p.Q608P	ENST00000279227	14/15	44	39	5	52	52	0	FERMT3,missense_variant,p.Gln604Pro,ENST00000345728,;FERMT3,missense_variant,p.Gln608Pro,ENST00000279227,;FERMT3,missense_variant,p.Gln125Pro,ENST00000545896,;TRPT1,downstream_gene_variant,,ENST00000317459,;TRPT1,downstream_gene_variant,,ENST00000545812,;FERMT3,downstream_gene_variant,,ENST00000544997,;TRPT1,downstream_gene_variant,,ENST00000394546,;NUDT22,upstream_gene_variant,,ENST00000428347,;TRPT1,downstream_gene_variant,,ENST00000394547,;NUDT22,upstream_gene_variant,,ENST00000279206,;TRPT1,downstream_gene_variant,,ENST00000541278,;NUDT22,upstream_gene_variant,,ENST00000539325,;TRPT1,downstream_gene_variant,,ENST00000546133,;TRPT1,downstream_gene_variant,,ENST00000546089,;TRPT1,downstream_gene_variant,,ENST00000544286,;NUDT22,upstream_gene_variant,,ENST00000441250,;TRPT1,downstream_gene_variant,,ENST00000540472,;TRPT1,downstream_gene_variant,,ENST00000542040,;NUDT22,upstream_gene_variant,,ENST00000535000,;FERMT3,downstream_gene_variant,,ENST00000546255,;NUDT22,upstream_gene_variant,,ENST00000422364,;TRPT1,downstream_gene_variant,,ENST00000537907,;FERMT3,downstream_gene_variant,,ENST00000540957,;TRPT1,downstream_gene_variant,,ENST00000536234,;TRPT1,downstream_gene_variant,,ENST00000539595,;TRPT1,downstream_gene_variant,,ENST00000539436,;FERMT3,downstream_gene_variant,,ENST00000540554,;FERMT3,downstream_gene_variant,,ENST00000541326,;NUDT22,upstream_gene_variant,,ENST00000543358,;TRPT1,downstream_gene_variant,,ENST00000541928,;NUDT22,upstream_gene_variant,,ENST00000537707,;TRPT1,downstream_gene_variant,,ENST00000536158,;	C	ENSG00000149781	ENST00000279227	Transcript	missense_variant	1918	1823	608	Q/P	cAg/cCg	.	.	.	1	FERMT3	HGNC	23151	protein_coding	YES	CCDS8060.1	ENSP00000279227	URP2_HUMAN	F5H3I6_HUMAN,F5H1C6_HUMAN	UPI000019270B	.	deleterious(0.02)	probably_damaging(0.947)	14/15	.	hmmpanther:PTHR16160:SF1,hmmpanther:PTHR16160,Gene3D:2.30.29.30,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGGCAGGTGG	.	4	BLCA
DPP3	0	.	GRCh37	11	66272227	66272227	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2023C>G	p.Pro675Ala	p.P675A	ENST00000360510	17/18	58	54	4	53	53	0	DPP3,missense_variant,p.Pro675Ala,ENST00000453114,;DPP3,missense_variant,p.Pro675Ala,ENST00000360510,;DPP3,missense_variant,p.Pro645Ala,ENST00000530165,;DPP3,missense_variant,p.Pro675Ala,ENST00000541961,;DPP3,missense_variant,p.Pro694Ala,ENST00000532677,;DPP3,missense_variant,p.Pro695Ala,ENST00000531863,;CTD-3074O7.11,upstream_gene_variant,,ENST00000419755,;DPP3,non_coding_transcript_exon_variant,,ENST00000539085,;	G	ENSG00000254986	ENST00000360510	Transcript	missense_variant	2088	2023	675	P/A	Ccc/Gcc	.	.	.	1	DPP3	HGNC	3008	protein_coding	YES	CCDS8141.1	ENSP00000353701	DPP3_HUMAN	E9PQF2_HUMAN,E9PQ14_HUMAN,E9PPK9_HUMAN,E9PNX5_HUMAN	UPI000012983B	.	tolerated(1)	benign(0.01)	17/18	.	hmmpanther:PTHR23422,hmmpanther:PTHR23422:SF10,Pfam_domain:PF03571,PIRSF_domain:PIRSF007828	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCAGCCCAAC	.	2	BLCA
BAZ2A	0	.	GRCh37	12	56998514	56998514	+	Missense_Mutation	SNP	G	G	T	rs757528812	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2824C>A	p.Arg942Ser	p.R942S	ENST00000551812	15/29	26	22	3	15	15	0	BAZ2A,missense_variant,p.Arg912Ser,ENST00000379441,;BAZ2A,missense_variant,p.Arg910Ser,ENST00000179765,;BAZ2A,missense_variant,p.Arg942Ser,ENST00000551812,;BAZ2A,missense_variant,p.Arg940Ser,ENST00000549884,;BAZ2A,upstream_gene_variant,,ENST00000547453,;BAZ2A,upstream_gene_variant,,ENST00000549787,;BAZ2A,downstream_gene_variant,,ENST00000547650,;BAZ2A,downstream_gene_variant,,ENST00000549763,;BAZ2A,upstream_gene_variant,,ENST00000553222,;BAZ2A,non_coding_transcript_exon_variant,,ENST00000551759,;BAZ2A,downstream_gene_variant,,ENST00000548578,;	T	ENSG00000076108	ENST00000551812	Transcript	missense_variant	3018	2824	942	R/S	Cgc/Agc	rs757528812	.	.	-1	BAZ2A	HGNC	962	protein_coding	YES	CCDS44924.1	ENSP00000446880	BAZ2A_HUMAN	F8W053_HUMAN,F8VWQ3_HUMAN,F8VU39_HUMAN	UPI0000D4FED1	.	deleterious(0)	probably_damaging(0.985)	15/29	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCAGCGCAGGA	.	3	BLCA
CRYL1	0	.	GRCh37	13	21013753	21013753	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417G>T	p.Lys139Asn	p.K139N	ENST00000298248	4/8	45	42	3	52	51	1	CRYL1,missense_variant,p.Lys117Asn,ENST00000382812,;CRYL1,missense_variant,p.Lys139Asn,ENST00000298248,;CRYL1,non_coding_transcript_exon_variant,,ENST00000480748,;	A	ENSG00000165475	ENST00000298248	Transcript	missense_variant	480	417	139	K/N	aaG/aaT	.	.	.	-1	CRYL1	HGNC	18246	protein_coding	YES	CCDS41871.1	ENSP00000298248	CRYL1_HUMAN	.	UPI000013E4B3	.	deleterious_low_confidence(0.03)	possibly_damaging(0.876)	4/8	.	hmmpanther:PTHR23309,Pfam_domain:PF02737,Gene3D:3.40.50.720,PIRSF_domain:PIRSF000105,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATTGCTTCAC	.	2	BLCA
HTR2A	0	.	GRCh37	13	47466612	47466612	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.526G>A	p.Ala176Thr	p.A176T	ENST00000378688	2/3	245	226	19	217	217	0	HTR2A,missense_variant,p.Ala176Thr,ENST00000378688,;HTR2A,missense_variant,p.Ala176Thr,ENST00000542664,;HTR2A,missense_variant,p.Ala92Thr,ENST00000543956,;	T	ENSG00000102468	ENST00000378688	Transcript	missense_variant	658	526	176	A/T	Gcc/Acc	COSM469475	.	.	-1	HTR2A	HGNC	5293	protein_coding	YES	CCDS9405.1	ENSP00000367959	5HT2A_HUMAN	Q9P2Q9_HUMAN,B3VRC0_HUMAN,B3VRB5_HUMAN,B3VRB0_HUMAN	UPI000000126E	.	deleterious(0)	probably_damaging(0.987)	2/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24247:SF30,hmmpanther:PTHR24247,PROSITE_patterns:PS00237,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATGGCGACGT	.	2	BLCA
RB1	0	.	GRCh37	13	49030367	49030368	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1848dupA	p.Gly617ArgfsTer36	p.G617Rfs*36	ENST00000267163	19/27	49	43	6	38	38	0	RB1,frameshift_variant,p.Gly617ArgfsTer36,ENST00000267163,;RB1,non_coding_transcript_exon_variant,,ENST00000480491,;	A	ENSG00000139687	ENST00000267163	Transcript	frameshift_variant	1980-1981	1842-1843	614-615	-/X	-/A	.	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	19/27	.	hmmpanther:PTHR13742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S612P|c.1834T>C|3	VARSCANI*|PINDEL	CCAAAGAAAAA	.	2	BLCA
MEIS2	0	.	GRCh37	15	37242597	37242597	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.905C>A	p.Pro302Gln	p.P302Q	ENST00000561208	9/12	116	107	9	103	103	0	MEIS2,missense_variant,p.Pro302Gln,ENST00000424352,;MEIS2,missense_variant,p.Pro156Gln,ENST00000219869,;MEIS2,missense_variant,p.Pro302Gln,ENST00000559561,;MEIS2,missense_variant,p.Pro214Gln,ENST00000397620,;MEIS2,missense_variant,p.Pro161Gln,ENST00000607277,;MEIS2,missense_variant,p.Pro302Gln,ENST00000444725,;MEIS2,missense_variant,p.Pro214Gln,ENST00000397624,;MEIS2,missense_variant,p.Pro302Gln,ENST00000382766,;MEIS2,missense_variant,p.Pro289Gln,ENST00000559085,;MEIS2,missense_variant,p.Pro289Gln,ENST00000557796,;MEIS2,missense_variant,p.Pro302Gln,ENST00000561208,;MEIS2,missense_variant,p.Pro302Gln,ENST00000338564,;MEIS2,missense_variant,p.Pro289Gln,ENST00000340545,;MEIS2,3_prime_UTR_variant,,ENST00000560570,;MEIS2,intron_variant,,ENST00000314177,;	T	ENSG00000134138	ENST00000561208	Transcript	missense_variant	1324	905	302	P/Q	cCg/cAg	.	.	.	-1	MEIS2	HGNC	7001	protein_coding	YES	CCDS10044.1	ENSP00000453793	MEIS2_HUMAN	H0YKN2_HUMAN,H0YKE5_HUMAN	UPI000012EEBC	.	deleterious(0)	probably_damaging(0.998)	9/12	.	PROSITE_profiles:PS50071,hmmpanther:PTHR11850:SF47,hmmpanther:PTHR11850,Pfam_domain:PF05920,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GGTACGGATGC	.	3	BLCA
C15orf38-AP3S2	0	.	GRCh37	15	90451511	90451511	+	Splice_Site	SNP	C	C	T	rs573464283	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.301+1G>A	.	p.X101_splice	ENST00000398333	.	22	18	4	26	26	0	C15orf38-AP3S2,splice_donor_variant,,ENST00000398333,;C15orf38,splice_donor_variant,,ENST00000357484,;C15orf38,splice_donor_variant,,ENST00000460685,;C15orf38-AP3S2,splice_donor_variant,,ENST00000559629,;C15orf38-AP3S2,splice_donor_variant,,ENST00000558648,;C15orf38,upstream_gene_variant,,ENST00000560096,;C15orf38-AP3S2,upstream_gene_variant,,ENST00000560224,;	T	ENSG00000250021	ENST00000398333	Transcript	splice_donor_variant	.	.	.	.	.	rs573464283	.	.	-1	C15orf38-AP3S2	HGNC	38824	protein_coding	YES	CCDS55977.1	ENSP00000381377	.	.	UPI00005A6223	.	.	.	.	3/9	.	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTACTGTAG	by1000G	2	BLCA
TMIGD1	0	.	GRCh37	17	28656432	28656432	+	Silent	SNP	G	G	A	.	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198C>T	p.%3D	p.L66L	ENST00000328886	3/7	83	78	5	71	71	0	TMIGD1,synonymous_variant,p.%3D,ENST00000328886,;TMIGD1,synonymous_variant,p.%3D,ENST00000538566,;	A	ENSG00000182271	ENST00000328886	Transcript	synonymous_variant	271	198	66	L	ctC/ctT	COSM1381959	.	.	-1	TMIGD1	HGNC	32431	protein_coding	YES	CCDS32605.1	ENSP00000332404	TMIG1_HUMAN	.	UPI00001D6918	.	.	.	3/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCAGAGCAG	.	2	BLCA
CDK12	0	.	GRCh37	17	37667787	37667787	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2672C>T	p.Pro891Leu	p.P891L	ENST00000447079	8/14	36	33	3	45	45	0	CDK12,missense_variant,p.Pro891Leu,ENST00000447079,;CDK12,missense_variant,p.Pro890Leu,ENST00000584632,;CDK12,missense_variant,p.Pro891Leu,ENST00000430627,;	T	ENSG00000167258	ENST00000447079	Transcript	missense_variant	2705	2672	891	P/L	cCt/cTt	.	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	probably_damaging(1)	8/14	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24056:SF126,hmmpanther:PTHR24056,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R890H|c.2669G>A|5	MUTECT|MUSE	TCGCCCTTACA	.	2	BLCA
DNAH2	0	.	GRCh37	17	7689945	7689945	+	Missense_Mutation	SNP	C	C	A	rs554981099	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6406C>A	p.Leu2136Ile	p.L2136I	ENST00000572933	41/86	47	44	3	46	46	0	DNAH2,missense_variant,p.Leu2136Ile,ENST00000389173,;DNAH2,missense_variant,p.Leu2136Ile,ENST00000572933,;DNAH2,3_prime_UTR_variant,,ENST00000574518,;	A	ENSG00000183914	ENST00000572933	Transcript	missense_variant	7866	6406	2136	L/I	Ctc/Atc	rs554981099	.	.	1	DNAH2	HGNC	2948	protein_coding	YES	CCDS32551.1	ENSP00000458355	DYH2_HUMAN	.	UPI00005B2F0D	.	.	probably_damaging(0.999)	41/86	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF183,Gene3D:3.40.50.300,Pfam_domain:PF07728,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGACCTCAGC	byFrequency|byCluster	2	BLCA
ELSPBP1	0	.	GRCh37	19	48522984	48522984	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>A	p.Gly122Arg	p.G122R	ENST00000339841	5/7	47	39	7	55	55	0	ELSPBP1,missense_variant,p.Gly53Arg,ENST00000593782,;ELSPBP1,missense_variant,p.Gly122Arg,ENST00000339841,;ELSPBP1,missense_variant,p.Gly76Arg,ENST00000596043,;ELSPBP1,intron_variant,,ENST00000597519,;ELSPBP1,upstream_gene_variant,,ENST00000593413,;	A	ENSG00000169393	ENST00000339841	Transcript	missense_variant	542	364	122	G/R	Gga/Aga	.	.	.	1	ELSPBP1	HGNC	14417	protein_coding	YES	CCDS12708.1	ENSP00000340660	ESPB1_HUMAN	M0QZH6_HUMAN	UPI000013EA82	.	deleterious(0)	probably_damaging(0.999)	5/7	.	hmmpanther:PTHR22918:SF5,hmmpanther:PTHR22918,Gene3D:2.10.10.10,SMART_domains:SM00059,Superfamily_domains:SSF57440	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGGGGAAAT	.	5	BLCA
ATPAF1	0	.	GRCh37	1	47119538	47119538	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560T>A	p.Ile187Asn	p.I187N	ENST00000576409	5/9	47	44	3	47	47	0	ATPAF1,missense_variant,p.Ile13Asn,ENST00000542495,;ATPAF1,missense_variant,p.Ile76Asn,ENST00000532925,;ATPAF1,missense_variant,p.Ile164Asn,ENST00000371937,;ATPAF1,missense_variant,p.Ile164Asn,ENST00000574428,;ATPAF1,missense_variant,p.Ile187Asn,ENST00000329231,;ATPAF1,missense_variant,p.Ile187Asn,ENST00000576409,;ATPAF1,missense_variant,p.Ile78Asn,ENST00000526821,;ATPAF1,intron_variant,,ENST00000534216,;EFCAB14,downstream_gene_variant,,ENST00000544071,;ATPAF1,downstream_gene_variant,,ENST00000525633,;ATPAF1,splice_region_variant,,ENST00000474020,;ATPAF1,splice_region_variant,,ENST00000487193,;ATPAF1,splice_region_variant,,ENST00000529214,;	T	ENSG00000123472	ENST00000576409	Transcript	missense_variant	623	560	187	I/N	aTt/aAt	.	.	.	-1	ATPAF1	HGNC	18803	protein_coding	YES	CCDS541.2	ENSP00000460964	.	I3L448_HUMAN	UPI000222BB4E	.	deleterious(0)	probably_damaging(0.993)	5/9	.	Pfam_domain:PF06644,hmmpanther:PTHR13126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAAATCTGT	.	2	BLCA
VIT	0	.	GRCh37	2	37036046	37036046	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1821C>A	p.Asn607Lys	p.N607K	ENST00000379242	15/16	39	36	3	20	20	0	VIT,missense_variant,p.Asn544Lys,ENST00000404084,;VIT,missense_variant,p.Asn592Lys,ENST00000389975,;VIT,missense_variant,p.Asn607Lys,ENST00000379242,;VIT,missense_variant,p.Asn571Lys,ENST00000401530,;VIT,missense_variant,p.Asn570Lys,ENST00000379241,;VIT,missense_variant,p.Asn261Lys,ENST00000497382,;	A	ENSG00000205221	ENST00000379242	Transcript	missense_variant	2123	1821	607	N/K	aaC/aaA	.	.	.	1	VIT	HGNC	12697	protein_coding	YES	CCDS33180.1	ENSP00000368544	VITRN_HUMAN	C9J6F5_HUMAN	UPI000006E0F8	.	deleterious(0.01)	possibly_damaging(0.856)	15/16	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22992:SF3,hmmpanther:PTHR22992,Gene3D:3.40.50.410,Pfam_domain:PF00092,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCAACAAGAG	.	2	BLCA
PIK3CA	0	.	GRCh37	3	178952085	178952085	+	Missense_Mutation	SNP	A	A	G	rs121913279	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3140A>G	p.His1047Arg	p.H1047R	ENST00000263967	21/21	53	48	5	45	45	0	PIK3CA,missense_variant,p.His1047Arg,ENST00000263967,;RP11-245C23.3,downstream_gene_variant,,ENST00000609807,;	G	ENSG00000121879	ENST00000263967	Transcript	missense_variant	3297	3140	1047	H/R	cAt/cGt	rs121913279,COSM776,COSM775,COSM249874,COSM94987,COSM94986	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	tolerated(0.11)	possibly_damaging(0.529)	21/21	.	PROSITE_profiles:PS50290,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Gene3D:1.10.1070.11,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	pathogenic	0,1,1,1,1,1	25710561	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.H1047R|c.3140A>G|1687,SITE|p.H1047R|c.3140A>G|242,CODON|p.H1047Y|c.3139C>T|8,CODON|p.H1047Y|c.3139C>T|54,CODON|p.H1047L|c.3140A>T|236,CODON|p.H1047L|c.3140A>T|45,BUFFER|p.M1043I|c.3129G>T|4,BUFFER|p.M1043I|c.3129G>A|8,BUFFER|p.M1043I|c.3129G>T|45,BUFFER|p.M1043I|c.3129G>A|22,BUFFER|p.M1043I|c.3129G>C|4,BUFFER|p.M1043I|c.3129G>C|6,BUFFER|p.N1044D|c.3130A>G|4,BUFFER|p.N1044Y|c.3130A>T|3,BUFFER|p.N1044S|c.3131A>G|5,BUFFER|p.N1044S|c.3131A>G|3,BUFFER|p.N1044K|c.3132T>G|5,BUFFER|p.N1044K|c.3132T>A|15,BUFFER|p.N1044K|c.3132T>A|7,BUFFER|p.D1045N|c.3133G>A|6,BUFFER|p.A1046T|c.3136G>A|6,BUFFER|p.A1046E|c.3137C>A|3,BUFFER|p.H1047Q|c.3141T>G|4,BUFFER|p.H1048R|c.3143A>G|6,BUFFER|p.H1048R|c.3143A>G|3,BUFFER|p.G1049S|c.3145G>A|16,BUFFER|p.G1049R|c.3145G>C|29,BUFFER|p.G1049R|c.3145G>C|5,BUFFER|p.G1049A|c.3146G>C|3,BUFFER|p.G1049D|c.3146G>A|4,BUFFER|p.G1049G|c.3147T>C|10,BUFFER|p.G1050S|c.3148G>A|3,BUFFER|p.G1050D|c.3149G>A|3	MUTECT|VARSCANS	TGCACATCATG	byFrequency|byCluster	2	BLCA
FAT1	0	.	GRCh37	4	187542804	187542804	+	Missense_Mutation	SNP	G	G	A	rs545997047	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4936C>T	p.Pro1646Ser	p.P1646S	ENST00000441802	10/27	66	62	4	51	51	0	FAT1,missense_variant,p.Pro1646Ser,ENST00000441802,;	A	ENSG00000083857	ENST00000441802	Transcript	missense_variant	5146	4936	1646	P/S	Cca/Tca	rs545997047	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	possibly_damaging(0.449)	10/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATTGGTGGAC	by1000G	2	BLCA
PCDHGA3	0	.	GRCh37	5	140725811	140725811	+	Silent	SNP	C	C	T	rs375085778	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2211C>T	p.%3D	p.G737G	ENST00000253812	1/4	86	80	5	83	83	0	PCDHGA3,synonymous_variant,p.%3D,ENST00000253812,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB1,upstream_gene_variant,,ENST00000523390,;PCDHGA2,downstream_gene_variant,,ENST00000528330,;	T	ENSG00000254245	ENST00000253812	Transcript	synonymous_variant	2211	2211	737	G	ggC/ggT	rs375085778	.	.	1	PCDHGA3	HGNC	8701	protein_coding	YES	CCDS47290.1	ENSP00000253812	PCDG3_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000161C1A	.	.	.	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF75	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCGGCTCGCA	byCluster	2	BLCA
RNF145	0	.	GRCh37	5	158630573	158630573	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.143C>T	p.Pro48Leu	p.P48L	ENST00000518802	2/11	65	59	6	81	81	0	RNF145,missense_variant,p.Pro32Leu,ENST00000520638,;RNF145,missense_variant,p.Pro35Leu,ENST00000521606,;RNF145,missense_variant,p.Pro18Leu,ENST00000519865,;RNF145,missense_variant,p.Pro46Leu,ENST00000274542,;RNF145,missense_variant,p.Pro48Leu,ENST00000518802,;RNF145,missense_variant,p.Pro18Leu,ENST00000424310,;RNF145,non_coding_transcript_exon_variant,,ENST00000520548,;	A	ENSG00000145860	ENST00000518802	Transcript	missense_variant	293	143	48	P/L	cCa/cTa	.	.	.	-1	RNF145	HGNC	20853	protein_coding	YES	CCDS56393.1	ENSP00000430955	RN145_HUMAN	Q8NDT8_HUMAN,Q8NC08_HUMAN,Q8N783_HUMAN,Q6MZY8_HUMAN,B7Z249_HUMAN,B3KWZ2_HUMAN	UPI0001E8F5CB	.	deleterious(0)	probably_damaging(1)	2/11	.	Pfam_domain:PF13705	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTGGCACC	.	4	BLCA
HDAC2	0	.	GRCh37	6	114274541	114274541	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.539A>G	p.His180Arg	p.H180R	ENST00000519065	6/14	78	72	6	90	90	0	HDAC2,missense_variant,p.His150Arg,ENST00000519108,;HDAC2,missense_variant,p.His274Arg,ENST00000398283,;HDAC2,missense_variant,p.His150Arg,ENST00000368632,;HDAC2,missense_variant,p.His180Arg,ENST00000519065,;HDAC2,downstream_gene_variant,,ENST00000518690,;HDAC2,downstream_gene_variant,,ENST00000523240,;HDAC2,downstream_gene_variant,,ENST00000522371,;HDAC2,downstream_gene_variant,,ENST00000521163,;HDAC2,downstream_gene_variant,,ENST00000521610,;HDAC2,downstream_gene_variant,,ENST00000425835,;HDAC2,downstream_gene_variant,,ENST00000523628,;HDAC2,non_coding_transcript_exon_variant,,ENST00000523334,;HDAC2,upstream_gene_variant,,ENST00000520746,;HDAC2,downstream_gene_variant,,ENST00000518756,;	C	ENSG00000196591	ENST00000519065	Transcript	missense_variant	916	539	180	H/R	cAt/cGt	.	.	.	-1	HDAC2	HGNC	4853	protein_coding	YES	CCDS43493.2	ENSP00000430432	HDAC2_HUMAN	E5RK19_HUMAN,E5RJ04_HUMAN,E5RHE7_HUMAN,E5RH52_HUMAN,E5RGV4_HUMAN,E5RG37_HUMAN,E5RFI6_HUMAN,B3KRS5_HUMAN	UPI000020E11B	.	deleterious(0)	probably_damaging(0.988)	6/14	.	hmmpanther:PTHR10625:SF60,hmmpanther:PTHR10625,Pfam_domain:PF00850,Gene3D:3.40.800.20,PIRSF_domain:PIRSF037913,Superfamily_domains:SSF52768,Prints_domain:PR01270	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCATGATGA	.	2	BLCA
ZFHX4	0	.	GRCh37	8	77767349	77767349	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8192A>T	p.Asp2731Val	p.D2731V	ENST00000521891	10/11	30	27	3	22	22	0	ZFHX4,missense_variant,p.Asp2686Val,ENST00000455469,;ZFHX4,missense_variant,p.Asp2705Val,ENST00000518282,;ZFHX4,missense_variant,p.Asp2686Val,ENST00000050961,;ZFHX4,missense_variant,p.Asp2731Val,ENST00000521891,;ZFHX4,downstream_gene_variant,,ENST00000522409,;	T	ENSG00000091656	ENST00000521891	Transcript	missense_variant	8640	8192	2731	D/V	gAt/gTt	.	.	.	1	ZFHX4	HGNC	30939	protein_coding	YES	CCDS47878.2	ENSP00000430497	.	Q9H7F3_HUMAN,Q86WW5_HUMAN,Q6DK57_HUMAN,G3V138_HUMAN,E5RI93_HUMAN,E5RHS1_HUMAN,E5RGK3_HUMAN,E5RG79_HUMAN	UPI0000424CC7	.	.	probably_damaging(0.961)	10/11	.	hmmpanther:PTHR24208:SF40,hmmpanther:PTHR24208	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTGATTACC	.	2	BLCA
KDM4C	0	.	GRCh37	9	7103709	7103709	+	Missense_Mutation	SNP	G	G	A	rs781258037	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2449G>A	p.Val817Ile	p.V817I	ENST00000381309	18/22	44	41	3	40	40	0	KDM4C,missense_variant,p.Val817Ile,ENST00000381306,;KDM4C,missense_variant,p.Val817Ile,ENST00000381309,;KDM4C,missense_variant,p.Val161Ile,ENST00000420847,;KDM4C,missense_variant,p.Val504Ile,ENST00000428870,;KDM4C,missense_variant,p.Val562Ile,ENST00000442236,;KDM4C,synonymous_variant,p.%3D,ENST00000536108,;KDM4C,non_coding_transcript_exon_variant,,ENST00000495890,;KDM4C,upstream_gene_variant,,ENST00000490806,;	A	ENSG00000107077	ENST00000381309	Transcript	missense_variant	3014	2449	817	V/I	Gtt/Att	rs781258037	.	.	1	KDM4C	HGNC	17071	protein_coding	YES	CCDS6471.1	ENSP00000370710	KDM4C_HUMAN	C9J879_HUMAN	UPI0000367602	.	tolerated(0.28)	benign(0.014)	18/22	.	hmmpanther:PTHR10694:SF32,hmmpanther:PTHR10694,Pfam_domain:PF13832,SMART_domains:SM00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCGGGTTAAG	.	2	BLCA
DIAPH2	0	.	GRCh37	X	96171555	96171555	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-AAME-01A-12D-A42E-08	TCGA-XF-AAME-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.851T>G	p.Ile284Ser	p.I284S	ENST00000324765	8/27	32	29	3	37	37	0	DIAPH2,missense_variant,p.Ile280Ser,ENST00000373054,;DIAPH2,missense_variant,p.Ile284Ser,ENST00000355827,;DIAPH2,missense_variant,p.Ile284Ser,ENST00000324765,;DIAPH2,missense_variant,p.Ile284Ser,ENST00000373049,;DIAPH2,missense_variant,p.Ile284Ser,ENST00000373061,;	G	ENSG00000147202	ENST00000324765	Transcript	missense_variant	1198	851	284	I/S	aTt/aGt	.	.	.	1	DIAPH2	HGNC	2877	protein_coding	YES	CCDS14467.1	ENSP00000321348	DIAP2_HUMAN	.	UPI00001293C8	.	deleterious(0.01)	unknown(0)	8/27	.	PROSITE_profiles:PS51232,hmmpanther:PTHR23213:SF174,hmmpanther:PTHR23213,Pfam_domain:PF06371,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGCATTGTTG	.	3	BLCA
PRLHR	0	.	GRCh37	10	120353838	120353838	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.919G>A	p.Ala307Thr	p.A307T	ENST00000239032	2/2	60	38	21	42	42	0	PRLHR,missense_variant,p.Ala307Thr,ENST00000369169,;PRLHR,missense_variant,p.Ala307Thr,ENST00000239032,;	T	ENSG00000119973	ENST00000239032	Transcript	missense_variant	1058	919	307	A/T	Gcc/Acc	COSM4012034,COSM683120	.	.	-1	PRLHR	HGNC	4464	protein_coding	YES	CCDS7606.1	ENSP00000239032	PRLHR_HUMAN	.	UPI000013CA6F	.	deleterious(0.02)	possibly_damaging(0.905)	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24242,hmmpanther:PTHR24242:SF194,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01018	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATGGCGTGGG	.	5	BLCA
C10orf90	0	.	GRCh37	10	128193466	128193466	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.303G>T	p.%3D	p.A101A	ENST00000284694	3/9	95	50	45	59	59	0	C10orf90,synonymous_variant,p.%3D,ENST00000488181,;C10orf90,synonymous_variant,p.%3D,ENST00000356858,;C10orf90,synonymous_variant,p.%3D,ENST00000392694,;C10orf90,synonymous_variant,p.%3D,ENST00000432642,;C10orf90,synonymous_variant,p.%3D,ENST00000284694,;C10orf90,synonymous_variant,p.%3D,ENST00000454341,;C10orf90,synonymous_variant,p.%3D,ENST00000544758,;C10orf90,upstream_gene_variant,,ENST00000424927,;C10orf90,non_coding_transcript_exon_variant,,ENST00000368674,;C10orf90,3_prime_UTR_variant,,ENST00000463082,;	A	ENSG00000154493	ENST00000284694	Transcript	synonymous_variant	424	303	101	A	gcG/gcT	.	.	.	-1	C10orf90	HGNC	26563	protein_coding	YES	CCDS31310.1	ENSP00000284694	CJ090_HUMAN	S4R3N7_HUMAN,Q5T025_HUMAN	UPI00001D808F	.	.	.	3/9	.	hmmpanther:PTHR21553:SF10,hmmpanther:PTHR21553	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTAACGCAAA	.	5	BLCA
ADARB2	0	.	GRCh37	10	1405908	1405908	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.392T>C	p.Val131Ala	p.V131A	ENST00000381312	3/10	24	14	9	22	22	0	ADARB2,missense_variant,p.Val131Ala,ENST00000381312,;RP11-398B16.2,upstream_gene_variant,,ENST00000432987,;	G	ENSG00000185736	ENST00000381312	Transcript	missense_variant	718	392	131	V/A	gTg/gCg	.	.	.	-1	ADARB2	HGNC	227	protein_coding	YES	CCDS7058.1	ENSP00000370713	RED2_HUMAN	Q5VW43_HUMAN	UPI0000071776	.	tolerated(0.21)	probably_damaging(0.997)	3/10	.	PROSITE_profiles:PS50137,hmmpanther:PTHR10910:SF17,hmmpanther:PTHR10910,Pfam_domain:PF00035,Gene3D:3.30.160.20,SMART_domains:SM00358,Superfamily_domains:SSF54768	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGCACCAGC	.	5	BLCA
MSS51	0	.	GRCh37	10	75185672	75185672	+	Silent	SNP	T	T	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966A>T	p.%3D	p.T322T	ENST00000299432	5/7	50	34	16	24	24	0	MSS51,synonymous_variant,p.%3D,ENST00000372912,;MSS51,synonymous_variant,p.%3D,ENST00000299432,;AL353731.1,upstream_gene_variant,,ENST00000584907,;MSS51,missense_variant,p.Asn179Tyr,ENST00000487126,;RP11-345K20.2,upstream_gene_variant,,ENST00000440913,;	A	ENSG00000166343	ENST00000299432	Transcript	synonymous_variant	1032	966	322	T	acA/acT	.	.	.	-1	MSS51	HGNC	21000	protein_coding	YES	CCDS31221.1	ENSP00000299432	MSS51_HUMAN	.	UPI00004CA0F2	.	.	.	5/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGAATTGTGCC	.	5	BLCA
GRID1	0	.	GRCh37	10	87489308	87489308	+	Missense_Mutation	SNP	G	G	A	rs375277319	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1297C>T	p.Arg433Cys	p.R433C	ENST00000327946	9/16	73	49	24	43	43	0	GRID1,missense_variant,p.Arg4Cys,ENST00000536331,;GRID1,missense_variant,p.Arg433Cys,ENST00000327946,;GRID1,missense_variant,p.Arg433Cys,ENST00000464741,;	A	ENSG00000182771	ENST00000327946	Transcript	missense_variant	1383	1297	433	R/C	Cgc/Tgc	rs375277319	.	.	-1	GRID1	HGNC	4575	protein_coding	YES	CCDS31236.1	ENSP00000330148	GRID1_HUMAN	B7Z7L0_HUMAN	UPI00001D8051	.	deleterious(0.04)	benign(0.326)	9/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF108,Gene3D:3.40.190.10	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGCGGCTGC	byFrequency|byCluster	5	BLCA
RBP4	0	.	GRCh37	10	95353761	95353761	+	Silent	SNP	G	G	A	rs373070201	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387C>T	p.%3D	p.Y129Y	ENST00000371467	5/6	75	56	19	51	51	0	RBP4,synonymous_variant,p.%3D,ENST00000371464,;RBP4,synonymous_variant,p.%3D,ENST00000371469,;RBP4,synonymous_variant,p.%3D,ENST00000371467,;FFAR4,intron_variant,,ENST00000604414,;FFAR4,downstream_gene_variant,,ENST00000371481,;FFAR4,downstream_gene_variant,,ENST00000371483,;	A	ENSG00000138207	ENST00000371467	Transcript	synonymous_variant	707	387	129	Y	taC/taT	rs373070201,COSM1289428	.	.	-1	RBP4	HGNC	9922	protein_coding	YES	CCDS31249.1	ENSP00000360522	RET4_HUMAN	.	UPI0000044958	.	.	.	5/6	.	hmmpanther:PTHR11873,hmmpanther:PTHR11873:SF2,Gene3D:2.40.128.20,Pfam_domain:PF00061,PIRSF_domain:PIRSF036893,PIRSF_domain:PIRSF500204,Superfamily_domains:SSF50814,Prints_domain:PR01174,Prints_domain:PR00179	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTCGTAGTC	byFrequency|byCluster	5	BLCA
KBTBD3	0	.	GRCh37	11	105924764	105924764	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652G>A	p.Val218Ile	p.V218I	ENST00000526793	3/3	71	52	18	40	40	0	KBTBD3,missense_variant,p.Val218Ile,ENST00000531837,;KBTBD3,missense_variant,p.Val218Ile,ENST00000526793,;KBTBD3,missense_variant,p.Val139Ile,ENST00000534815,;KBTBD3,downstream_gene_variant,,ENST00000531482,;KBTBD3,downstream_gene_variant,,ENST00000532662,;KBTBD3,downstream_gene_variant,,ENST00000528483,;	T	ENSG00000182359	ENST00000526793	Transcript	missense_variant	812	652	218	V/I	Gtt/Att	.	.	.	-1	KBTBD3	HGNC	22934	protein_coding	YES	CCDS8334.1	ENSP00000436262	KBTB3_HUMAN	G3V161_HUMAN,E9PKJ3_HUMAN	UPI00001BDB79	.	deleterious(0.01)	benign(0.075)	3/3	.	PIRSF_domain:PIRSF037037,SMART_domains:SM00875,Pfam_domain:PF07707,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACAACTTTCA	.	5	BLCA
SLC37A2	0	.	GRCh37	11	124955360	124955360	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1318G>A	p.Gly440Ser	p.G440S	ENST00000308074	15/19	23	18	5	16	16	0	SLC37A2,missense_variant,p.Gly440Ser,ENST00000308074,;SLC37A2,missense_variant,p.Gly440Ser,ENST00000403796,;SLC37A2,missense_variant,p.Gly440Ser,ENST00000407458,;SLC37A2,3_prime_UTR_variant,,ENST00000298280,;SLC37A2,downstream_gene_variant,,ENST00000532000,;SLC37A2,non_coding_transcript_exon_variant,,ENST00000525837,;SLC37A2,non_coding_transcript_exon_variant,,ENST00000526405,;AP001007.1,upstream_gene_variant,,ENST00000354617,;	A	ENSG00000134955	ENST00000308074	Transcript	missense_variant	1350	1318	440	G/S	Ggc/Agc	.	.	.	1	SLC37A2	HGNC	20644	protein_coding	YES	CCDS31714.1	ENSP00000311833	SPX2_HUMAN	E9PRJ4_HUMAN,B7Z480_HUMAN	UPI000019AB60	.	deleterious(0)	probably_damaging(0.998)	15/19	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR11662:SF163,hmmpanther:PTHR11662,Gene3D:1.20.1250.20,PIRSF_domain:PIRSF002808,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACCGGCTCC	.	5	BLCA
MYOD1	0	.	GRCh37	11	17741269	17741269	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-61C>T	.	.	ENST00000250003	1/3	31	22	9	18	18	0	MYOD1,5_prime_UTR_variant,,ENST00000250003,;	T	ENSG00000129152	ENST00000250003	Transcript	5_prime_UTR_variant	155	.	.	.	.	.	.	.	1	MYOD1	HGNC	7611	protein_coding	YES	CCDS7826.1	ENSP00000250003	MYOD1_HUMAN	.	UPI000007280C	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTCCGGCCA	.	5	BLCA
SLC39A13	0	.	GRCh37	11	47436197	47436197	+	Intron	SNP	G	G	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787-131G>T	.	.	ENST00000362021	.	40	13	26	22	22	0	SLC39A13,3_prime_UTR_variant,,ENST00000524928,;SLC39A13,intron_variant,,ENST00000533076,;SLC39A13,intron_variant,,ENST00000354884,;SLC39A13,intron_variant,,ENST00000531865,;SLC39A13,intron_variant,,ENST00000362021,;SLC39A13,downstream_gene_variant,,ENST00000526614,;SLC39A13,downstream_gene_variant,,ENST00000527091,;PSMC3,downstream_gene_variant,,ENST00000530912,;PSMC3,downstream_gene_variant,,ENST00000602866,;SLC39A13,downstream_gene_variant,,ENST00000531974,;PSMC3,downstream_gene_variant,,ENST00000298852,;SLC39A13,downstream_gene_variant,,ENST00000531419,;SLC39A13,intron_variant,,ENST00000528979,;SLC39A13,intron_variant,,ENST00000527829,;SLC39A13,upstream_gene_variant,,ENST00000524886,;SLC39A13,downstream_gene_variant,,ENST00000529740,;	T	ENSG00000165915	ENST00000362021	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	SLC39A13	HGNC	20859	protein_coding	YES	CCDS44592.1	ENSP00000354689	S39AD_HUMAN	K4DIB5_HUMAN	UPI00004564C5	.	.	.	.	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TCTCTGCCATA	.	4	BLCA
OR51B5	0	.	GRCh37	11	5363992	5363992	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763G>T	p.Gly255Ter	p.G255*	ENST00000300773	1/1	59	39	20	34	34	0	OR51B5,stop_gained,p.Gly255Ter,ENST00000300773,;HBE1,intron_variant,,ENST00000396895,;HBG2,intron_variant,,ENST00000380252,;HBE1,intron_variant,,ENST00000380237,;HBG2,intron_variant,,ENST00000380259,;AC104389.28,intron_variant,,ENST00000420726,;AC104389.28,intron_variant,,ENST00000415970,;AC104389.28,intron_variant,,ENST00000420465,;AC104389.28,downstream_gene_variant,,ENST00000418729,;	A	ENSG00000242180	ENST00000300773	Transcript	stop_gained	818	763	255	G/*	Gga/Tga	.	.	.	-1	OR51B5	HGNC	19599	protein_coding	YES	CCDS31378.1	ENSP00000300773	O51B5_HUMAN	.	UPI000013E697	.	.	.	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF13853,hmmpanther:PTHR26450:SF135,hmmpanther:PTHR26450,PROSITE_profiles:PS50262,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATCCAATCA	.	5	BLCA
KRAS	0	.	GRCh37	12	25398284	25398284	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.35G>A	p.Gly12Asp	p.G12D	ENST00000256078	2/6	58	31	26	52	52	0	KRAS,missense_variant,p.Gly12Asp,ENST00000256078,;KRAS,missense_variant,p.Gly12Asp,ENST00000311936,;KRAS,missense_variant,p.Gly12Asp,ENST00000556131,;KRAS,missense_variant,p.Gly12Asp,ENST00000557334,;	T	ENSG00000133703	ENST00000256078	Transcript	missense_variant	99	35	12	G/D	gGt/gAt	CM087372,COSM520,COSM521,COSM522,COSM12657,COSM1140133,COSM1135366,COSM1140134	.	.	-1	KRAS	HGNC	6407	protein_coding	YES	CCDS8703.1	ENSP00000256078	RASK_HUMAN	Q9UM97_HUMAN,Q71SP6_HUMAN,P78460_HUMAN,L7RSL8_HUMAN,I1SRC5_HUMAN	UPI0000133132	.	deleterious(0)	benign(0.361)	2/6	.	Low_complexity_(Seg):seg,Prints_domain:PR00449,Superfamily_domains:SSF52540,SMART_domains:SM00175,SMART_domains:SM00176,SMART_domains:SM00174,SMART_domains:SM00173,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,hmmpanther:PTHR24070:SF186,hmmpanther:PTHR24070,PROSITE_profiles:PS51421	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.G12D|c.35G>A|10719,SITE|p.G12D|c.35G>A|342,CODON|p.G12E|c.35_36GT>AA|3,CODON|p.G12V|c.35_36GT>TC|6,CODON|p.G12W|c.34_36GGT>TGG|3,CODON|p.G12F|c.34_35GG>TT|46,CODON|p.G12Y|c.34_35GG>TA|3,CODON|p.G12I|c.34_35GG>AT|5,CODON|p.G12L|c.34_35GG>CT|8,CODON|p.G12G|c.36T>A|4,CODON|p.G12G|c.36T>C|7,CODON|p.G12V|c.35G>T|7138,CODON|p.G12V|c.35G>T|329,CODON|p.G12A|c.35G>C|1694,CODON|p.G12A|c.35G>C|39,BUFFER|p.G13_V14insG|c.39_40insGGC|3,BUFFER|p.G13D|c.38_39GC>AT|22,BUFFER|p.G13V|c.38_39GC>TT|6,BUFFER|p.V14I|c.40G>A|16,BUFFER|p.G13G|c.39C>T|7,BUFFER|p.G13G|c.39C>A|9,BUFFER|p.G13G|c.39C>G|3,BUFFER|p.G13V|c.38G>T|30,BUFFER|p.G13D|c.38G>A|3959,BUFFER|p.G13A|c.38G>C|30,BUFFER|p.G13D|c.38G>A|76,BUFFER|p.G13C|c.37G>T|276,BUFFER|p.G13S|c.37G>A|67,BUFFER|p.G13R|c.37G>C|50,BUFFER|p.G13C|c.37G>T|10,BUFFER|p.G12_G13insG|c.36_37insGGT|5,BUFFER|p.G12R|c.34G>C|1024,BUFFER|p.G12S|c.34G>A|1507,BUFFER|p.G12C|c.34G>T|3713,BUFFER|p.G12S|c.34G>A|27,BUFFER|p.G12C|c.34G>T|80,BUFFER|p.G12R|c.34G>C|101,BUFFER|p.A11V|c.32C>T|3,BUFFER|p.G10_A11insG|c.30_31insGGA|5,BUFFER|p.V8V|c.24A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCACCAGCT	.	5	BLCA
PKP2	0	.	GRCh37	12	32975425	32975425	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1947C>T	p.%3D	p.G649G	ENST00000070846	9/14	65	60	4	59	59	0	PKP2,synonymous_variant,p.%3D,ENST00000340811,;PKP2,synonymous_variant,p.%3D,ENST00000070846,;PKP2,non_coding_transcript_exon_variant,,ENST00000546498,;PKP2,non_coding_transcript_exon_variant,,ENST00000552612,;PKP2,upstream_gene_variant,,ENST00000549461,;	A	ENSG00000057294	ENST00000070846	Transcript	synonymous_variant	1972	1947	649	G	ggC/ggT	.	.	.	-1	PKP2	HGNC	9024	protein_coding	YES	CCDS8731.1	ENSP00000070846	PKP2_HUMAN	.	UPI000013C576	.	.	.	9/14	.	hmmpanther:PTHR10372,hmmpanther:PTHR10372:SF25,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGACTGCCAAA	.	2	BLCA
CCDC77	0	.	GRCh37	12	550091	550091	+	Missense_Mutation	SNP	G	G	T	rs778219509	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1249G>T	p.Val417Leu	p.V417L	ENST00000239830	12/13	72	45	27	56	56	0	CCDC77,missense_variant,p.Val385Leu,ENST00000540180,;CCDC77,missense_variant,p.Val417Leu,ENST00000239830,;CCDC77,missense_variant,p.Val385Leu,ENST00000412006,;CCDC77,missense_variant,p.Val385Leu,ENST00000543504,;CCDC77,missense_variant,p.Val385Leu,ENST00000422000,;CCDC77,intron_variant,,ENST00000537286,;CCDC77,downstream_gene_variant,,ENST00000540118,;	T	ENSG00000120647	ENST00000239830	Transcript	missense_variant	1428	1249	417	V/L	Gta/Tta	rs778219509	.	.	1	CCDC77	HGNC	28203	protein_coding	YES	CCDS8503.1	ENSP00000239830	CCD77_HUMAN	F5H5Q8_HUMAN,F5H0W5_HUMAN	UPI0000070D97	.	deleterious(0)	possibly_damaging(0.618)	12/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22091,hmmpanther:PTHR22091:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGTAGAA	byFrequency	5	BLCA
SCNN1A	0	.	GRCh37	12	6457364	6457364	+	Missense_Mutation	SNP	G	G	A	rs137852635	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1862C>T	p.Ser621Leu	p.S621L	ENST00000360168	12/12	41	24	16	42	42	0	SCNN1A,missense_variant,p.Ser262Leu,ENST00000540037,;SCNN1A,missense_variant,p.Ser585Leu,ENST00000543768,;SCNN1A,missense_variant,p.Ser562Leu,ENST00000228916,;SCNN1A,missense_variant,p.Ser584Leu,ENST00000358945,;SCNN1A,missense_variant,p.Ser621Leu,ENST00000360168,;SCNN1A,3_prime_UTR_variant,,ENST00000396966,;RN7SL391P,downstream_gene_variant,,ENST00000582559,;SCNN1A,non_coding_transcript_exon_variant,,ENST00000539953,;SCNN1A,downstream_gene_variant,,ENST00000457871,;SCNN1A,3_prime_UTR_variant,,ENST00000338748,;	A	ENSG00000111319	ENST00000360168	Transcript	missense_variant	2126	1862	621	S/L	tCg/tTg	CM993904,rs137852635	.	.	-1	SCNN1A	HGNC	10599	protein_coding	YES	CCDS53738.1	ENSP00000353292	SCNNA_HUMAN	Q6UP09_HUMAN,F5GXE6_HUMAN	UPI00001B07D7	.	deleterious(0)	probably_damaging(0.969)	12/12	.	hmmpanther:PTHR11690:SF124,hmmpanther:PTHR11690,Gene3D:1.10.287.770,Pfam_domain:PF00858,TIGRFAM_domain:TIGR00859,Prints_domain:PR01078	.	.	.	.	.	.	.	.	.	pathogenic	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACACCGAGGAG	byCluster	5	BLCA
SLC2A3	0	.	GRCh37	12	8086455	8086455	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59G>A	p.Gly20Asp	p.G20D	ENST00000075120	2/10	41	38	3	56	56	0	SLC2A3,missense_variant,p.Gly20Asp,ENST00000075120,;SLC2A3,intron_variant,,ENST00000544291,;SLC2A3,missense_variant,p.Gly20Asp,ENST00000544936,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000476634,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000486749,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000495813,;SLC2A3,non_coding_transcript_exon_variant,,ENST00000541671,;SLC2A3,upstream_gene_variant,,ENST00000479059,;SLC2A3,upstream_gene_variant,,ENST00000490763,;	T	ENSG00000059804	ENST00000075120	Transcript	missense_variant	300	59	20	G/D	gGc/gAc	.	.	.	-1	SLC2A3	HGNC	11007	protein_coding	YES	CCDS8586.1	ENSP00000075120	GTR3_HUMAN	.	UPI0000001C7D	.	deleterious(0)	probably_damaging(0.989)	2/10	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24063:SF322,hmmpanther:PTHR24063,TIGRFAM_domain:TIGR00879,Pfam_domain:PF00083,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGAGCCGATT	.	2	BLCA
LUM	0	.	GRCh37	12	91502714	91502714	+	Missense_Mutation	SNP	C	C	T	rs745337639	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43G>A	p.Gly15Ser	p.G15S	ENST00000266718	2/3	36	24	12	35	35	0	LUM,missense_variant,p.Gly15Ser,ENST00000266718,;LUM,intron_variant,,ENST00000546642,;LUM,intron_variant,,ENST00000548071,;	T	ENSG00000139329	ENST00000266718	Transcript	missense_variant	498	43	15	G/S	Ggt/Agt	rs745337639	.	.	-1	LUM	HGNC	6724	protein_coding	YES	CCDS9038.1	ENSP00000266718	LUM_HUMAN	.	UPI0000001C4D	.	tolerated(0.47)	benign(0.007)	2/3	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR24371:SF54,hmmpanther:PTHR24371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTACCACCAA	.	5	BLCA
KLF5	0	.	GRCh37	13	73649903	73649903	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1253A>G	p.Asp418Gly	p.D418G	ENST00000377687	4/4	65	41	24	66	66	0	KLF5,missense_variant,p.Asp418Gly,ENST00000377687,;KLF5,missense_variant,p.Asp327Gly,ENST00000539231,;KLF5,non_coding_transcript_exon_variant,,ENST00000464404,;	G	ENSG00000102554	ENST00000377687	Transcript	missense_variant	1789	1253	418	D/G	gAt/gGt	COSM1658870,COSM1212593	.	.	1	KLF5	HGNC	6349	protein_coding	YES	CCDS9448.1	ENSP00000366915	KLF5_HUMAN	Q5T6X2_HUMAN,B4DL96_HUMAN,A2TJX0_HUMAN	UPI0000000C89	.	deleterious(0)	probably_damaging(0.971)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR23223:SF144,hmmpanther:PTHR23223,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E419Q|c.1255G>C|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCGGATGAGC	.	5	BLCA
OR4K5	0	.	GRCh37	14	20388887	20388887	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.122G>A	p.Gly41Glu	p.G41E	ENST00000315915	1/1	209	164	44	206	206	0	OR4K5,missense_variant,p.Gly41Glu,ENST00000315915,;	A	ENSG00000176281	ENST00000315915	Transcript	missense_variant	147	122	41	G/E	gGa/gAa	.	.	.	1	OR4K5	HGNC	14745	protein_coding	YES	CCDS32024.1	ENSP00000319511	OR4K5_HUMAN	.	UPI0000061E9E	.	deleterious(0)	probably_damaging(1)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF46,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTGGGAAATC	.	5	BLCA
PTGER2	0	.	GRCh37	14	52781415	52781415	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.149G>A	p.Trp50Ter	p.W50*	ENST00000245457	1/2	15	10	5	25	25	0	PTGER2,stop_gained,p.Trp50Ter,ENST00000245457,;PTGER2,intron_variant,,ENST00000557436,;	A	ENSG00000125384	ENST00000245457	Transcript	stop_gained	303	149	50	W/*	tGg/tAg	.	.	.	1	PTGER2	HGNC	9594	protein_coding	YES	CCDS9708.1	ENSP00000245457	PE2R2_HUMAN	G3V2Y6_HUMAN	UPI000013CBA3	.	.	.	1/2	.	Low_complexity_(Seg):seg,Prints_domain:PR00581,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR11866:SF8,hmmpanther:PTHR11866,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCTGGCGGG	.	2	BLCA
ZFYVE26	0	.	GRCh37	14	68222855	68222855	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6596C>T	p.Pro2199Leu	p.P2199L	ENST00000347230	36/42	169	102	66	220	220	0	ZFYVE26,missense_variant,p.Pro45Leu,ENST00000557306,;ZFYVE26,missense_variant,p.Pro2199Leu,ENST00000347230,;ZFYVE26,downstream_gene_variant,,ENST00000555452,;RN7SL213P,upstream_gene_variant,,ENST00000463482,;ZFYVE26,3_prime_UTR_variant,,ENST00000554557,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000554783,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000394455,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000554523,;	A	ENSG00000072121	ENST00000347230	Transcript	missense_variant	6735	6596	2199	P/L	cCt/cTt	.	.	.	-1	ZFYVE26	HGNC	20761	protein_coding	YES	CCDS9788.1	ENSP00000251119	ZFY26_HUMAN	.	UPI00001FD735	.	deleterious(0)	possibly_damaging(0.882)	36/42	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGAGGACTC	.	5	BLCA
PPP4R4	0	.	GRCh37	14	94708167	94708167	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1019A>G	p.Tyr340Cys	p.Y340C	ENST00000304338	10/25	43	26	16	37	37	0	PPP4R4,missense_variant,p.Tyr340Cys,ENST00000304338,;	G	ENSG00000119698	ENST00000304338	Transcript	missense_variant	1173	1019	340	Y/C	tAt/tGt	.	.	.	1	PPP4R4	HGNC	23788	protein_coding	YES	CCDS9921.1	ENSP00000305924	PP4R4_HUMAN	G3V431_HUMAN,G3V422_HUMAN	UPI000016223B	.	deleterious(0)	probably_damaging(0.996)	10/25	.	hmmpanther:PTHR21467,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTATAAGA	.	5	BLCA
MBTPS1	0	.	GRCh37	16	84103573	84103573	+	Missense_Mutation	SNP	G	G	A	rs140160203	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1853C>T	p.Pro618Leu	p.P618L	ENST00000343411	14/23	114	9	105	105	105	0	MBTPS1,missense_variant,p.Pro618Leu,ENST00000343411,;MBTPS1,downstream_gene_variant,,ENST00000568051,;MBTPS1,downstream_gene_variant,,ENST00000569770,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000570064,;MBTPS1,downstream_gene_variant,,ENST00000564643,;MBTPS1,downstream_gene_variant,,ENST00000563231,;	A	ENSG00000140943	ENST00000343411	Transcript	missense_variant	2349	1853	618	P/L	cCg/cTg	rs140160203	.	.	-1	MBTPS1	HGNC	15456	protein_coding	YES	CCDS10941.1	ENSP00000344223	MBTP1_HUMAN	H3BV53_HUMAN	UPI0000033348	.	deleterious(0.03)	benign(0.116)	14/23	.	hmmpanther:PTHR10795:SF30,hmmpanther:PTHR10795	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCGCGGGGGA	byCluster	5	BLCA
DHX8	0	.	GRCh37	17	41598929	41598929	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3259G>A	p.Asp1087Asn	p.D1087N	ENST00000262415	21/23	94	71	22	53	53	0	DHX8,missense_variant,p.Asp1087Asn,ENST00000540306,;DHX8,missense_variant,p.Asp56Asn,ENST00000589898,;DHX8,missense_variant,p.Asp1087Asn,ENST00000262415,;DHX8,upstream_gene_variant,,ENST00000587574,;DHX8,non_coding_transcript_exon_variant,,ENST00000587044,;	A	ENSG00000067596	ENST00000262415	Transcript	missense_variant	3331	3259	1087	D/N	Gac/Aac	.	.	.	1	DHX8	HGNC	2749	protein_coding	YES	CCDS11464.1	ENSP00000262415	DHX8_HUMAN	.	UPI00001290D9	.	deleterious(0.04)	probably_damaging(0.958)	21/23	.	hmmpanther:PTHR18934:SF85,hmmpanther:PTHR18934,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAATGGACAGG	.	5	BLCA
FAM20A	0	.	GRCh37	17	66535530	66535530	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1309C>T	p.Arg437Ter	p.R437*	ENST00000592554	10/11	85	71	13	43	43	0	FAM20A,stop_gained,p.Arg437Ter,ENST00000592554,;PRKAR1A,intron_variant,,ENST00000588188,;AC079210.1,upstream_gene_variant,,ENST00000600820,;FAM20A,non_coding_transcript_exon_variant,,ENST00000226094,;FAM20A,downstream_gene_variant,,ENST00000592847,;FAM20A,3_prime_UTR_variant,,ENST00000590074,;FAM20A,3_prime_UTR_variant,,ENST00000590873,;FAM20A,non_coding_transcript_exon_variant,,ENST00000375556,;	A	ENSG00000108950	ENST00000592554	Transcript	stop_gained	2032	1309	437	R/*	Cga/Tga	.	.	.	-1	FAM20A	HGNC	23015	protein_coding	YES	CCDS11679.1	ENSP00000468308	FA20A_HUMAN	L8B8N7_HUMAN	UPI00001AE65B	.	.	.	10/11	.	Pfam_domain:PF06702,hmmpanther:PTHR12450:SF12,hmmpanther:PTHR12450	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTCGTCCGA	.	5	BLCA
ABCA9	0	.	GRCh37	17	67008197	67008197	+	Nonsense_Mutation	SNP	G	G	A	rs773986908	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3067C>T	p.Arg1023Ter	p.R1023*	ENST00000340001	23/39	85	67	17	42	42	0	ABCA9,stop_gained,p.Arg1023Ter,ENST00000370732,;ABCA9,stop_gained,p.Arg1023Ter,ENST00000453985,;ABCA9,stop_gained,p.Arg1023Ter,ENST00000340001,;ABCA9-AS1,non_coding_transcript_exon_variant,,ENST00000458677,;ABCA9,non_coding_transcript_exon_variant,,ENST00000492580,;	A	ENSG00000154258	ENST00000340001	Transcript	stop_gained	3279	3067	1023	R/*	Cga/Tga	rs773986908	.	.	-1	ABCA9	HGNC	39	protein_coding	YES	CCDS11681.1	ENSP00000342216	ABCA9_HUMAN	K7EJJ0_HUMAN	UPI00000747B1	.	.	.	23/39	.	Pfam_domain:PF12698,hmmpanther:PTHR19229:SF11,hmmpanther:PTHR19229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTCGGTACC	.	5	BLCA
RNF213	0	.	GRCh37	17	78328062	78328062	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10726+96G>A	.	.	ENST00000582970	.	14	7	7	11	11	0	RNF213,intron_variant,,ENST00000582970,;RNF213,intron_variant,,ENST00000336301,;RNF213,intron_variant,,ENST00000508628,;CTD-2047H16.4,non_coding_transcript_exon_variant,,ENST00000575034,;CTD-2047H16.4,downstream_gene_variant,,ENST00000572151,;RNF213,intron_variant,,ENST00000558116,;RNF213,upstream_gene_variant,,ENST00000560694,;	A	ENSG00000173821	ENST00000582970	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	.	.	35/67	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCAGGTTTC	.	5	BLCA
HGS	0	.	GRCh37	17	79663729	79663729	+	Frame_Shift_Del	DEL	G	G	-	rs201262915	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1660delG	p.Val554SerfsTer56	p.V554Sfs*56	ENST00000329138	17/22	63	49	14	21	21	0	HGS,frameshift_variant,p.Val223SerfsTer56,ENST00000571237,;HGS,frameshift_variant,p.Val554SerfsTer56,ENST00000329138,;HGS,upstream_gene_variant,,ENST00000575078,;HGS,upstream_gene_variant,,ENST00000573320,;HGS,downstream_gene_variant,,ENST00000572392,;RP13-1032I1.7,downstream_gene_variant,,ENST00000575312,;HGS,non_coding_transcript_exon_variant,,ENST00000571647,;HGS,non_coding_transcript_exon_variant,,ENST00000570355,;HGS,intron_variant,,ENST00000573949,;HGS,downstream_gene_variant,,ENST00000576498,;HGS,downstream_gene_variant,,ENST00000575058,;HGS,downstream_gene_variant,,ENST00000571885,;HGS,downstream_gene_variant,,ENST00000573080,;HGS,upstream_gene_variant,,ENST00000570652,;	-	ENSG00000185359	ENST00000329138	Transcript	frameshift_variant	1794	1659	553	T/X	acG/ac	rs201262915	.	.	1	HGS	HGNC	4897	protein_coding	YES	CCDS11784.1	ENSP00000331201	HGS_HUMAN	I3L2H4_HUMAN,I3L165_HUMAN	UPI000004493D	.	.	.	17/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13856,hmmpanther:PTHR13856:SF79,PIRSF_domain:PIRSF036956	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCAGACGGTCCA	byCluster	3	BLCA
AFG3L2	0	.	GRCh37	18	12351323	12351323	+	Missense_Mutation	SNP	C	C	A	rs777218796	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1408G>T	p.Asp470Tyr	p.D470Y	ENST00000269143	11/17	35	22	13	34	34	0	AFG3L2,missense_variant,p.Asp470Tyr,ENST00000269143,;AFG3L2,upstream_gene_variant,,ENST00000588893,;	A	ENSG00000141385	ENST00000269143	Transcript	missense_variant	1640	1408	470	D/Y	Gac/Tac	rs777218796,COSM986610	.	.	-1	AFG3L2	HGNC	315	protein_coding	YES	CCDS11859.1	ENSP00000269143	AFG32_HUMAN	D3DUJ0_HUMAN	UPI000013D7FF	.	deleterious(0)	probably_damaging(0.992)	11/17	.	HAMAP:MF_01458,hmmpanther:PTHR23076:SF45,hmmpanther:PTHR23076,Gene3D:3.40.50.300,Pfam_domain:PF00004,TIGRFAM_domain:TIGR01241,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTGTCGAAAC	byFrequency	3	BLCA
MYO5B	0	.	GRCh37	18	47365610	47365610	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4756G>T	p.Asp1586Tyr	p.D1586Y	ENST00000285039	36/40	74	46	28	100	100	0	MYO5B,missense_variant,p.Asp156Tyr,ENST00000592688,;MYO5B,missense_variant,p.Asp701Tyr,ENST00000324581,;MYO5B,missense_variant,p.Asp1586Tyr,ENST00000285039,;MYO5B,missense_variant,p.Asp704Tyr,ENST00000592779,;SCARNA17,intron_variant,,ENST00000589499,;RP11-886H22.1,upstream_gene_variant,,ENST00000590532,;	A	ENSG00000167306	ENST00000285039	Transcript	missense_variant	5056	4756	1586	D/Y	Gac/Tac	.	.	.	-1	MYO5B	HGNC	7603	protein_coding	YES	CCDS42436.1	ENSP00000285039	MYO5B_HUMAN	Q14782_HUMAN,Q0P656_HUMAN,K7EPI3_HUMAN	UPI00001D7B21	.	deleterious(0)	probably_damaging(0.999)	36/40	.	PROSITE_profiles:PS51126,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF356	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGTCAAAAT	.	5	BLCA
EPHX3	0	.	GRCh37	19	15338452	15338452	+	Silent	SNP	C	C	T	rs143850888	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879G>A	p.%3D	p.Q293Q	ENST00000221730	7/7	30	18	11	26	26	0	EPHX3,synonymous_variant,p.%3D,ENST00000435261,;EPHX3,synonymous_variant,p.%3D,ENST00000602233,;EPHX3,synonymous_variant,p.%3D,ENST00000221730,;EPHX3,downstream_gene_variant,,ENST00000594042,;	T	ENSG00000105131	ENST00000221730	Transcript	synonymous_variant	1100	879	293	Q	caG/caA	rs143850888	.	.	-1	EPHX3	HGNC	23760	protein_coding	YES	CCDS12327.1	ENSP00000221730	EPHX3_HUMAN	M0QX48_HUMAN	UPI000007047E	.	.	.	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10992:SF277,hmmpanther:PTHR10992,Pfam_domain:PF12697,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	T:0.0008	T:0.003	T:0	.	T:0	T:0	T:0	T:0.0036	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTCCTGGGG	byFrequency|byCluster|by1000G	5	BLCA
ZNF780A	0	.	GRCh37	19	40580440	40580440	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1912G>A	p.Gly638Ser	p.G638S	ENST00000455521	6/6	90	55	35	110	110	0	ZNF780A,missense_variant,p.Gly638Ser,ENST00000594395,;ZNF780A,missense_variant,p.Gly637Ser,ENST00000340963,;ZNF780A,missense_variant,p.Gly603Ser,ENST00000450241,;ZNF780A,missense_variant,p.Gly637Ser,ENST00000595687,;ZNF780A,missense_variant,p.Gly638Ser,ENST00000455521,;ZNF780A,intron_variant,,ENST00000414720,;ZNF780A,downstream_gene_variant,,ENST00000595773,;ZNF780A,downstream_gene_variant,,ENST00000599972,;AC005614.5,intron_variant,,ENST00000595508,;ZNF780A,downstream_gene_variant,,ENST00000601688,;ZNF780A,downstream_gene_variant,,ENST00000601715,;ZNF780A,downstream_gene_variant,,ENST00000599368,;	T	ENSG00000197782	ENST00000455521	Transcript	missense_variant	2060	1912	638	G/S	Ggt/Agt	.	.	.	-1	ZNF780A	HGNC	27603	protein_coding	YES	CCDS46079.1	ENSP00000400997	Z780A_HUMAN	.	UPI0001881B53	.	tolerated(0.06)	probably_damaging(0.961)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF124,Gene3D:3.30.160.60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCACCTGTGT	.	5	BLCA
CA11	0	.	GRCh37	19	49142241	49142241	+	Missense_Mutation	SNP	G	G	A	rs755381208	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865C>T	p.Arg289Trp	p.R289W	ENST00000084798	8/9	9	4	5	10	10	0	CA11,missense_variant,p.Arg76Trp,ENST00000596080,;CA11,missense_variant,p.Arg289Trp,ENST00000084798,;DBP,upstream_gene_variant,,ENST00000593500,;DBP,upstream_gene_variant,,ENST00000601104,;DBP,upstream_gene_variant,,ENST00000222122,;DBP,upstream_gene_variant,,ENST00000599385,;SEC1P,intron_variant,,ENST00000430145,;SEC1P,intron_variant,,ENST00000474419,;SEC1P,intron_variant,,ENST00000483163,;CA11,non_coding_transcript_exon_variant,,ENST00000599267,;CA11,upstream_gene_variant,,ENST00000594088,;DBP,upstream_gene_variant,,ENST00000594723,;SEC1P,intron_variant,,ENST00000521217,;	A	ENSG00000063180	ENST00000084798	Transcript	missense_variant	1545	865	289	R/W	Cgg/Tgg	rs755381208,COSM3773095	.	.	-1	CA11	HGNC	1370	protein_coding	YES	CCDS12729.1	ENSP00000084798	CAH11_HUMAN	.	UPI000004C652	.	deleterious(0)	probably_damaging(0.996)	8/9	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952,hmmpanther:PTHR18952:SF93,Gene3D:3.10.200.10,Pfam_domain:PF00194,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCCGGCTGT	.	2	BLCA
GJA5	0	.	GRCh37	1	147230326	147230326	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1021A>G	p.Lys341Glu	p.K341E	ENST00000271348	2/2	55	25	29	69	69	0	GJA5,missense_variant,p.Lys341Glu,ENST00000271348,;GJA5,missense_variant,p.Lys341Glu,ENST00000369237,;GJA5,downstream_gene_variant,,ENST00000430508,;RP11-433J22.2,intron_variant,,ENST00000428911,;	C	ENSG00000143140	ENST00000271348	Transcript	missense_variant	1183	1021	341	K/E	Aag/Gag	.	.	.	-1	GJA5	HGNC	4279	protein_coding	YES	CCDS929.1	ENSP00000271348	CXA5_HUMAN	.	UPI000013D8D2	.	tolerated(0.12)	unknown(0)	2/2	.	Low_complexity_(Seg):seg,Superfamily_domains:0049114	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCTTGTCAC	.	5	BLCA
BCAN	0	.	GRCh37	1	156615882	156615882	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36G>T	p.%3D	p.L12L	ENST00000329117	2/14	20	16	4	23	23	0	BCAN,synonymous_variant,p.%3D,ENST00000361588,;BCAN,synonymous_variant,p.%3D,ENST00000441358,;BCAN,synonymous_variant,p.%3D,ENST00000457777,;BCAN,synonymous_variant,p.%3D,ENST00000424639,;BCAN,synonymous_variant,p.%3D,ENST00000329117,;RP11-284F21.7,downstream_gene_variant,,ENST00000448869,;RP11-284F21.10,upstream_gene_variant,,ENST00000605886,;BCAN,synonymous_variant,p.%3D,ENST00000479949,;BCAN,upstream_gene_variant,,ENST00000491823,;	T	ENSG00000132692	ENST00000329117	Transcript	synonymous_variant	372	36	12	L	ctG/ctT	.	.	.	1	BCAN	HGNC	23059	protein_coding	YES	CCDS1149.1	ENSP00000331210	PGCB_HUMAN	Q9NT67_HUMAN,Q5T3I8_HUMAN,Q5T3I7_HUMAN,Q59F90_HUMAN	UPI000006F0E9	.	.	.	2/14	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR22804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GCCCTGGTCCT	.	2	BLCA
EPHA2	0	.	GRCh37	1	16464417	16464417	+	Frame_Shift_Del	DEL	G	G	-	rs150826389	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1243delC	p.Arg415AlafsTer8	p.R415Afs*8	ENST00000358432	5/17	56	39	17	46	46	0	EPHA2,frameshift_variant,p.Arg415AlafsTer8,ENST00000358432,;EPHA2,non_coding_transcript_exon_variant,,ENST00000480202,;EPHA2,upstream_gene_variant,,ENST00000462805,;	-	ENSG00000142627	ENST00000358432	Transcript	frameshift_variant	1398	1243	415	R/X	Cgc/gc	rs150826389,COSM1744888	.	.	-1	EPHA2	HGNC	3386	protein_coding	YES	CCDS169.1	ENSP00000351209	EPHA2_HUMAN	Q96HF4_HUMAN,Q8IZL0_HUMAN	UPI00000731AB	.	.	.	5/17	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF306,hmmpanther:PTHR24416,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	0,1	.	.	.	.	.	HIGH	.	deletion	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CATTGCGGGCCT	byCluster	3	BLCA
CAMSAP2	0	.	GRCh37	1	200818513	200818519	+	Frame_Shift_Del	DEL	AAATGAA	AAATGAA	-	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	AAATGAA	AAATGAA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2616_2622delAAATGAA	p.Asn873GlufsTer4	p.N873Efs*4	ENST00000358823	11/17	115	79	36	111	111	0	CAMSAP2,frameshift_variant,p.Asn857GlufsTer4,ENST00000413307,;CAMSAP2,frameshift_variant,p.Asn873GlufsTer4,ENST00000358823,;CAMSAP2,frameshift_variant,p.Asn884GlufsTer4,ENST00000236925,;CAMSAP2,intron_variant,,ENST00000447701,;	-	ENSG00000118200	ENST00000358823	Transcript	frameshift_variant	2886-2892	2616-2622	872-874	LNE/X	ttAAATGAA/tt	.	.	.	1	CAMSAP2	HGNC	29188	protein_coding	YES	CCDS1404.1	ENSP00000351684	CAMP2_HUMAN	.	UPI000020470D	.	.	.	11/17	.	hmmpanther:PTHR21595:SF1,hmmpanther:PTHR21595	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AACTTTAAATGAAGGAGA	.	3	BLCA
USP24	0	.	GRCh37	1	55562761	55562761	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5800C>T	p.Arg1934Ter	p.R1934*	ENST00000294383	49/68	48	31	17	42	42	0	USP24,stop_gained,p.Arg1774Ter,ENST00000407756,;USP24,stop_gained,p.Arg1934Ter,ENST00000294383,;USP24,upstream_gene_variant,,ENST00000482197,;	A	ENSG00000162402	ENST00000294383	Transcript	stop_gained	5800	5800	1934	R/*	Cga/Tga	.	.	.	-1	USP24	HGNC	12623	protein_coding	YES	CCDS44154.2	ENSP00000294383	UBP24_HUMAN	.	UPI000059CFDE	.	.	.	49/68	.	Pfam_domain:PF00443,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF349,PROSITE_profiles:PS50235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTCGCCCAT	.	5	BLCA
SERBP1	0	.	GRCh37	1	67895855	67895855	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.129G>A	p.%3D	p.G43G	ENST00000370995	1/8	71	67	4	67	67	0	SERBP1,synonymous_variant,p.%3D,ENST00000370994,;SERBP1,synonymous_variant,p.%3D,ENST00000361219,;SERBP1,synonymous_variant,p.%3D,ENST00000370990,;SERBP1,synonymous_variant,p.%3D,ENST00000370995,;SERBP1,upstream_gene_variant,,ENST00000490406,;	T	ENSG00000142864	ENST00000370995	Transcript	synonymous_variant	215	129	43	G	ggG/ggA	COSM1320929	.	.	-1	SERBP1	HGNC	17860	protein_coding	YES	CCDS30746.1	ENSP00000360034	PAIRB_HUMAN	.	UPI0000036970	.	.	.	1/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12299:SF22,hmmpanther:PTHR12299	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCCCCCGCC	.	2	BLCA
TNNI3K	0	.	GRCh37	1	75009717	75009717	+	3'UTR	SNP	C	C	T	rs201120366	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51C>T	.	.	ENST00000370891	27/27	8	4	4	11	11	0	TNNI3K,3_prime_UTR_variant,,ENST00000370891,;TNNI3K,3_prime_UTR_variant,,ENST00000326637,;FPGT-TNNI3K,downstream_gene_variant,,ENST00000557284,;TNNI3K,non_coding_transcript_exon_variant,,ENST00000465473,;	T	ENSG00000116783	ENST00000370891	Transcript	3_prime_UTR_variant	2878	.	.	.	.	rs201120366	.	.	1	TNNI3K	HGNC	19661	protein_coding	YES	.	ENSP00000359928	TNI3K_HUMAN	A6NHC7_HUMAN	UPI00005E2707	.	.	.	27/27	.	.	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCAACGATTC	byFrequency|byCluster|by1000G	2	BLCA
SIRPB1	0	.	GRCh37	20	1552529	1552529	+	Silent	SNP	G	G	A	rs371319948	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.588C>T	p.%3D	p.N196N	ENST00000381605	3/6	93	56	37	77	77	0	SIRPB1,synonymous_variant,p.%3D,ENST00000381605,;SIRPB1,synonymous_variant,p.%3D,ENST00000565076,;RP4-576H24.4,intron_variant,,ENST00000564763,;RP4-576H24.4,intron_variant,,ENST00000566961,;RP4-576H24.4,intron_variant,,ENST00000567028,;SIRPB1,intron_variant,,ENST00000262929,;SIRPB1,intron_variant,,ENST00000563840,;SIRPB1,intron_variant,,ENST00000381603,;SIRPB1,intron_variant,,ENST00000569629,;	A	ENSG00000101307	ENST00000381605	Transcript	synonymous_variant	653	588	196	N	aaC/aaT	rs371319948,COSM255608	.	.	-1	SIRPB1	HGNC	15928	protein_coding	YES	CCDS13019.1	ENSP00000371018	SIRB1_HUMAN	.	UPI000036700F	.	.	.	3/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00407,Pfam_domain:PF07654,Gene3D:2.60.40.10,hmmpanther:PTHR19971:SF6,hmmpanther:PTHR19971,PROSITE_profiles:PS50835	A:0.0008	A:0.0015	A:0	.	A:0	A:0	A:0.002	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCACGTTGGT	byFrequency|byCluster|by1000G	5	BLCA
KIF16B	0	.	GRCh37	20	16492112	16492112	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507C>T	p.%3D	p.T169T	ENST00000408042	6/23	98	53	45	86	86	0	KIF16B,synonymous_variant,p.%3D,ENST00000408042,;KIF16B,synonymous_variant,p.%3D,ENST00000354981,;KIF16B,synonymous_variant,p.%3D,ENST00000355755,;KIF16B,5_prime_UTR_variant,,ENST00000378003,;	A	ENSG00000089177	ENST00000408042	Transcript	synonymous_variant	665	507	169	T	acC/acT	.	.	.	-1	KIF16B	HGNC	15869	protein_coding	YES	CCDS56178.1	ENSP00000384164	KI16B_HUMAN	.	UPI00003BF77C	.	.	.	6/23	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF400,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGGTTTT	.	5	BLCA
SIRPA	0	.	GRCh37	20	1918064	1918064	+	Missense_Mutation	SNP	C	C	A	rs754624419	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1365C>A	p.Ser455Arg	p.S455R	ENST00000358771	8/8	42	24	17	49	49	0	SIRPA,missense_variant,p.Ser455Arg,ENST00000356025,;SIRPA,missense_variant,p.Ser459Arg,ENST00000400068,;SIRPA,missense_variant,p.Ser455Arg,ENST00000358771,;	A	ENSG00000198053	ENST00000358771	Transcript	missense_variant	1517	1365	455	S/R	agC/agA	rs754624419	.	.	1	SIRPA	HGNC	9662	protein_coding	YES	CCDS13022.1	ENSP00000351621	SHPS1_HUMAN	B4DP97_HUMAN	UPI0000073ADE	.	deleterious(0.03)	probably_damaging(0.944)	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCAGCATTCA	.	5	BLCA
EIF6	0	.	GRCh37	20	33872044	33872044	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.128C>A	p.Ser43Tyr	p.S43Y	ENST00000374450	3/7	76	44	32	73	73	0	EIF6,missense_variant,p.Ser43Tyr,ENST00000456600,;EIF6,missense_variant,p.Ser43Tyr,ENST00000374436,;EIF6,missense_variant,p.Ser43Tyr,ENST00000374450,;EIF6,missense_variant,p.Pro83Thr,ENST00000374443,;FAM83C,downstream_gene_variant,,ENST00000374408,;RP4-614O4.11,upstream_gene_variant,,ENST00000444717,;FAM83C-AS1,upstream_gene_variant,,ENST00000429167,;EIF6,non_coding_transcript_exon_variant,,ENST00000462894,;EIF6,missense_variant,p.Ser43Tyr,ENST00000447927,;EIF6,missense_variant,p.Pro83Thr,ENST00000415116,;EIF6,intron_variant,,ENST00000440766,;	T	ENSG00000242372	ENST00000374450	Transcript	missense_variant	393	128	43	S/Y	tCc/tAc	.	.	.	-1	EIF6	HGNC	6159	protein_coding	YES	CCDS13249.1	ENSP00000363574	IF6_HUMAN	B7ZBH1_HUMAN	UPI0000001224	.	deleterious(0.03)	benign(0.199)	3/7	.	Superfamily_domains:SSF55909,PIRSF_domain:PIRSF006413,SMART_domains:SM00654,TIGRFAM_domain:TIGR00323,Gene3D:3.75.10.10,Pfam_domain:PF01912,hmmpanther:PTHR10784,hmmpanther:PTHR10784:SF0,HAMAP:MF_00032	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCGGAGAGC	.	5	BLCA
SEMG2	0	.	GRCh37	20	43850875	43850875	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.602T>C	p.Leu201Pro	p.L201P	ENST00000372769	2/3	54	26	27	64	64	0	SEMG2,missense_variant,p.Leu201Pro,ENST00000372769,;	C	ENSG00000124157	ENST00000372769	Transcript	missense_variant	692	602	201	L/P	cTa/cCa	.	.	.	1	SEMG2	HGNC	10743	protein_coding	YES	CCDS13346.1	ENSP00000361855	SEMG2_HUMAN	.	UPI0000135845	.	tolerated(0.37)	probably_damaging(0.999)	2/3	.	hmmpanther:PTHR10547,hmmpanther:PTHR10547:SF6,Pfam_domain:PF05474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAACTAGTAG	.	5	BLCA
GNAZ	0	.	GRCh37	22	23438530	23438530	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648C>T	p.%3D	p.F216F	ENST00000248996	2/3	191	110	80	166	166	0	GNAZ,synonymous_variant,p.%3D,ENST00000248996,;RTDR1,intron_variant,,ENST00000216036,;GNAZ,downstream_gene_variant,,ENST00000492538,;	T	ENSG00000128266	ENST00000248996	Transcript	synonymous_variant	1314	648	216	F	ttC/ttT	.	.	.	1	GNAZ	HGNC	4395	protein_coding	YES	CCDS13804.1	ENSP00000248996	GNAZ_HUMAN	.	UPI0000001249	.	.	.	2/3	.	Superfamily_domains:SSF52540,SMART_domains:SM00275,Pfam_domain:PF00503,Gene3D:3.40.50.300,hmmpanther:PTHR10218:SF65,hmmpanther:PTHR10218	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCTTCGAGGG	.	5	BLCA
SLC25A12	0	.	GRCh37	2	172725255	172725255	+	Missense_Mutation	SNP	C	C	G	rs770856651	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145G>C	p.Asp49His	p.D49H	ENST00000422440	3/18	59	35	23	50	50	0	SLC25A12,missense_variant,p.Asp49His,ENST00000422440,;SLC25A12,5_prime_UTR_variant,,ENST00000392592,;SLC25A12,non_coding_transcript_exon_variant,,ENST00000472748,;SLC25A12,non_coding_transcript_exon_variant,,ENST00000464063,;SLC25A12,non_coding_transcript_exon_variant,,ENST00000484227,;SLC25A12,missense_variant,p.Asp49His,ENST00000263812,;SLC25A12,missense_variant,p.Asp49His,ENST00000426896,;SLC25A12,missense_variant,p.Asp45His,ENST00000475360,;	G	ENSG00000115840	ENST00000422440	Transcript	missense_variant	183	145	49	D/H	Gat/Cat	rs770856651	.	.	-1	SLC25A12	HGNC	10982	protein_coding	YES	CCDS33327.1	ENSP00000388658	CMC1_HUMAN	.	UPI0000070D4E	.	tolerated(0.08)	benign(0.322)	3/18	.	Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGATCATTAT	.	5	BLCA
AGFG1	0	.	GRCh37	2	228398355	228398355	+	Frame_Shift_Del	DEL	C	C	-	rs188342400	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.979delC	p.Gln327ArgfsTer31	p.Q327Rfs*31	ENST00000409979	8/14	94	69	25	84	84	0	AGFG1,frameshift_variant,p.Gln303ArgfsTer31,ENST00000409171,;AGFG1,frameshift_variant,p.Gln225ArgfsTer?,ENST00000456594,;AGFG1,frameshift_variant,p.Gln303ArgfsTer31,ENST00000409315,;AGFG1,frameshift_variant,p.Gln327ArgfsTer31,ENST00000409979,;AGFG1,frameshift_variant,p.Gln263ArgfsTer31,ENST00000373671,;AGFG1,frameshift_variant,p.Gln303ArgfsTer31,ENST00000310078,;AGFG1,upstream_gene_variant,,ENST00000458212,;	-	ENSG00000173744	ENST00000409979	Transcript	frameshift_variant	1247	977	326	S/X	tCc/tc	rs188342400	.	.	1	AGFG1	HGNC	5175	protein_coding	YES	CCDS46533.1	ENSP00000387282	.	.	UPI0001814801	.	.	.	8/14	.	hmmpanther:PTHR23180:SF232,hmmpanther:PTHR23180	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATACTTCCCAGA	byCluster|by1000G	3	BLCA
NDUFA10	0	.	GRCh37	2	240946758	240946758	+	Missense_Mutation	SNP	G	G	T	rs775699187	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.779C>A	p.Ala260Glu	p.A260E	ENST00000252711	7/10	19	14	5	18	18	0	NDUFA10,missense_variant,p.Ala290Glu,ENST00000307300,;NDUFA10,missense_variant,p.Gln193Lys,ENST00000443626,;NDUFA10,missense_variant,p.Ala260Glu,ENST00000404554,;NDUFA10,missense_variant,p.Ala31Glu,ENST00000444548,;NDUFA10,missense_variant,p.Ala260Glu,ENST00000252711,;NDUFA10,missense_variant,p.Ala23Glu,ENST00000448880,;NDUFA10,missense_variant,p.Ala25Glu,ENST00000419408,;NDUFA10,non_coding_transcript_exon_variant,,ENST00000476216,;NDUFA10,non_coding_transcript_exon_variant,,ENST00000485344,;	T	ENSG00000130414	ENST00000252711	Transcript	missense_variant	880	779	260	A/E	gCa/gAa	rs775699187	.	.	-1	NDUFA10	HGNC	7684	protein_coding	YES	CCDS2531.1	ENSP00000252711	NDUAA_HUMAN	Q53SW4_HUMAN,Q53QE8_HUMAN	UPI000013090A	.	tolerated(0.76)	benign(0.128)	7/10	.	hmmpanther:PTHR10513,hmmpanther:PTHR10513:SF15,Pfam_domain:PF01712,Gene3D:3.40.50.300,PIRSF_domain:PIRSF000543,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCTTGCAGAA	byFrequency	3	BLCA
PCBP1	0	.	GRCh37	2	70315530	70315530	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655C>G	p.Leu219Val	p.L219V	ENST00000303577	1/1	18	11	7	26	26	0	PCBP1,missense_variant,p.Leu219Val,ENST00000303577,;AC016700.2,upstream_gene_variant,,ENST00000455541,;PCBP1-AS1,intron_variant,,ENST00000596028,;PCBP1-AS1,intron_variant,,ENST00000452431,;PCBP1-AS1,upstream_gene_variant,,ENST00000421843,;PCBP1-AS1,upstream_gene_variant,,ENST00000456161,;PCBP1-AS1,upstream_gene_variant,,ENST00000457770,;PCBP1-AS1,upstream_gene_variant,,ENST00000425333,;PCBP1-AS1,upstream_gene_variant,,ENST00000609075,;PCBP1-AS1,upstream_gene_variant,,ENST00000434781,;PCBP1-AS1,upstream_gene_variant,,ENST00000449178,;PCBP1-AS1,upstream_gene_variant,,ENST00000429599,;PCBP1-AS1,upstream_gene_variant,,ENST00000437456,;PCBP1-AS1,upstream_gene_variant,,ENST00000422515,;PCBP1-AS1,upstream_gene_variant,,ENST00000413436,;PCBP1-AS1,upstream_gene_variant,,ENST00000432604,;PCBP1-AS1,upstream_gene_variant,,ENST00000366234,;PCBP1-AS1,upstream_gene_variant,,ENST00000444410,;PCBP1-AS1,upstream_gene_variant,,ENST00000435880,;PCBP1-AS1,upstream_gene_variant,,ENST00000594548,;PCBP1-AS1,upstream_gene_variant,,ENST00000458698,;PCBP1-AS1,upstream_gene_variant,,ENST00000595459,;PCBP1-AS1,upstream_gene_variant,,ENST00000458686,;PCBP1-AS1,upstream_gene_variant,,ENST00000599673,;PCBP1-AS1,upstream_gene_variant,,ENST00000457076,;PCBP1-AS1,upstream_gene_variant,,ENST00000418564,;PCBP1-AS1,upstream_gene_variant,,ENST00000420309,;PCBP1-AS1,upstream_gene_variant,,ENST00000416068,;PCBP1-AS1,upstream_gene_variant,,ENST00000439670,;PCBP1-AS1,upstream_gene_variant,,ENST00000610168,;PCBP1-AS1,upstream_gene_variant,,ENST00000439892,;PCBP1-AS1,upstream_gene_variant,,ENST00000423402,;PCBP1-AS1,upstream_gene_variant,,ENST00000596665,;PCBP1-AS1,upstream_gene_variant,,ENST00000413791,;PCBP1-AS1,upstream_gene_variant,,ENST00000437019,;PCBP1-AS1,upstream_gene_variant,,ENST00000601396,;PCBP1-AS1,upstream_gene_variant,,ENST00000425601,;PCBP1-AS1,upstream_gene_variant,,ENST00000413069,;PCBP1-AS1,upstream_gene_variant,,ENST00000419963,;PCBP1-AS1,upstream_gene_variant,,ENST00000416395,;PCBP1-AS1,upstream_gene_variant,,ENST00000415742,;PCBP1-AS1,upstream_gene_variant,,ENST00000415222,;PCBP1-AS1,upstream_gene_variant,,ENST00000411429,;PCBP1-AS1,upstream_gene_variant,,ENST00000442040,;PCBP1-AS1,upstream_gene_variant,,ENST00000444320,;PCBP1-AS1,upstream_gene_variant,,ENST00000418308,;PCBP1-AS1,upstream_gene_variant,,ENST00000596573,;PCBP1-AS1,upstream_gene_variant,,ENST00000421255,;PCBP1-AS1,upstream_gene_variant,,ENST00000415060,;	G	ENSG00000169564	ENST00000303577	Transcript	missense_variant	946	655	219	L/V	Cta/Gta	.	.	.	1	PCBP1	HGNC	8647	protein_coding	YES	CCDS1898.1	ENSP00000305556	PCBP1_HUMAN	Q53SS8_HUMAN	UPI000000029F	.	tolerated(0.08)	benign(0.15)	1/1	.	hmmpanther:PTHR10288:SF96,hmmpanther:PTHR10288	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCTAGAT	.	5	BLCA
DYSF	0	.	GRCh37	2	71780310	71780310	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1976T>C	p.Val659Ala	p.V659A	ENST00000410020	20/56	33	18	14	45	45	0	DYSF,missense_variant,p.Val658Ala,ENST00000409582,;DYSF,missense_variant,p.Val659Ala,ENST00000410020,;DYSF,missense_variant,p.Val628Ala,ENST00000409744,;DYSF,missense_variant,p.Val641Ala,ENST00000429174,;DYSF,missense_variant,p.Val658Ala,ENST00000409762,;DYSF,missense_variant,p.Val659Ala,ENST00000410041,;DYSF,missense_variant,p.Val673Ala,ENST00000409651,;DYSF,missense_variant,p.Val642Ala,ENST00000394120,;DYSF,missense_variant,p.Val642Ala,ENST00000409366,;DYSF,missense_variant,p.Val672Ala,ENST00000413539,;DYSF,missense_variant,p.Val641Ala,ENST00000258104,;	C	ENSG00000135636	ENST00000410020	Transcript	missense_variant	2117	1976	659	V/A	gTc/gCc	.	.	.	1	DYSF	HGNC	3097	protein_coding	YES	CCDS46328.1	ENSP00000386881	DYSF_HUMAN	A0FK00_HUMAN	UPI000171F710	.	deleterious(0.01)	possibly_damaging(0.64)	20/56	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGTCTTTG	.	5	BLCA
TTC31	0	.	GRCh37	2	74717852	74717852	+	Nonsense_Mutation	SNP	C	C	T	rs750883339	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.532C>T	p.Arg178Ter	p.R178*	ENST00000233623	5/13	16	10	5	9	9	0	TTC31,stop_gained,p.Arg34Ter,ENST00000442235,;TTC31,stop_gained,p.Arg178Ter,ENST00000410003,;TTC31,stop_gained,p.Arg178Ter,ENST00000233623,;TTC31,upstream_gene_variant,,ENST00000414247,;TTC31,non_coding_transcript_exon_variant,,ENST00000463189,;TTC31,3_prime_UTR_variant,,ENST00000424122,;TTC31,3_prime_UTR_variant,,ENST00000449459,;TTC31,non_coding_transcript_exon_variant,,ENST00000491252,;TTC31,non_coding_transcript_exon_variant,,ENST00000459957,;TTC31,non_coding_transcript_exon_variant,,ENST00000489152,;TTC31,non_coding_transcript_exon_variant,,ENST00000464241,;TTC31,upstream_gene_variant,,ENST00000487623,;	T	ENSG00000115282	ENST00000233623	Transcript	stop_gained	539	532	178	R/*	Cga/Tga	rs750883339	.	.	1	TTC31	HGNC	25759	protein_coding	YES	CCDS42701.1	ENSP00000233623	TTC31_HUMAN	G5E9H3_HUMAN	UPI0000D611C0	.	.	.	5/13	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22904,hmmpanther:PTHR22904:SF314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAAGCGACTC	.	2	BLCA
EIF5B	0	.	GRCh37	2	99995514	99995514	+	Silent	SNP	C	C	T	rs753098187	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1875C>T	p.%3D	p.N625N	ENST00000289371	11/24	22	15	6	31	31	0	EIF5B,synonymous_variant,p.%3D,ENST00000289371,;	T	ENSG00000158417	ENST00000289371	Transcript	synonymous_variant	2077	1875	625	N	aaC/aaT	rs753098187	.	.	1	EIF5B	HGNC	30793	protein_coding	YES	CCDS42721.1	ENSP00000289371	IF2P_HUMAN	D3DVI5_HUMAN	UPI0000207EC7	.	.	.	11/24	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF99	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTAAACACCGA	.	3	BLCA
TMPRSS7	0	.	GRCh37	3	111794202	111794202	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440C>T	p.%3D	p.I480I	ENST00000419127	13/16	94	90	4	89	89	0	TMPRSS7,synonymous_variant,p.%3D,ENST00000452346,;TMPRSS7,synonymous_variant,p.%3D,ENST00000419127,;TMPRSS7,3_prime_UTR_variant,,ENST00000435737,;	T	ENSG00000176040	ENST00000419127	Transcript	synonymous_variant	1522	1440	480	I	atC/atT	.	.	.	1	TMPRSS7	HGNC	30846	protein_coding	YES	CCDS43129.2	ENSP00000411645	TMPS7_HUMAN	.	UPI000192A2F1	.	.	.	13/16	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24256:SF17,hmmpanther:PTHR24256,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCATCATCGG	.	2	BLCA
NR1I2	0	.	GRCh37	3	119534285	119534285	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1170A>G	p.%3D	p.P390P	ENST00000337940	7/9	52	30	22	50	50	0	NR1I2,synonymous_variant,p.%3D,ENST00000337940,;NR1I2,synonymous_variant,p.%3D,ENST00000466380,;NR1I2,synonymous_variant,p.%3D,ENST00000393716,;NR1I2,splice_region_variant,,ENST00000493757,;NR1I2,downstream_gene_variant,,ENST00000474090,;	G	ENSG00000144852	ENST00000337940	Transcript	synonymous_variant	1218	1170	390	P	ccA/ccG	.	.	.	1	NR1I2	HGNC	7968	protein_coding	YES	CCDS2995.1	ENSP00000336528	NR1I2_HUMAN	J3KPQ3_HUMAN,F1DAL3_HUMAN,F1D8P9_HUMAN,B3KVM5_HUMAN	UPI000006EC88	.	.	.	7/9	.	hmmpanther:PTHR24082,hmmpanther:PTHR24082:SF39,Gene3D:1.10.565.10,Pfam_domain:PF00104,SMART_domains:SM00430,Superfamily_domains:SSF48508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCCAGGTGA	.	5	BLCA
SHOX2	0	.	GRCh37	3	157823797	157823797	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>A	p.Ala6Glu	p.A6E	ENST00000389589	1/6	35	20	15	35	35	0	SHOX2,missense_variant,p.Ala6Glu,ENST00000389589,;SHOX2,missense_variant,p.Ala6Glu,ENST00000483851,;SHOX2,missense_variant,p.Ala6Glu,ENST00000425436,;RSRC1,splice_region_variant,,ENST00000480820,;SHOX2,5_prime_UTR_variant,,ENST00000441443,;RSRC1,upstream_gene_variant,,ENST00000295930,;SHOX2,upstream_gene_variant,,ENST00000490689,;RSRC1,upstream_gene_variant,,ENST00000475278,;RSRC1,upstream_gene_variant,,ENST00000464171,;RSRC1,upstream_gene_variant,,ENST00000476899,;RSRC1,upstream_gene_variant,,ENST00000312179,;RSRC1,upstream_gene_variant,,ENST00000471994,;RSRC1,upstream_gene_variant,,ENST00000494002,;SHOX2,non_coding_transcript_exon_variant,,ENST00000554685,;RSRC1,upstream_gene_variant,,ENST00000471911,;RSRC1,upstream_gene_variant,,ENST00000468344,;RSRC1,upstream_gene_variant,,ENST00000480119,;	T	ENSG00000168779	ENST00000389589	Transcript	missense_variant	153	17	6	A/E	gCg/gAg	.	.	.	-1	SHOX2	HGNC	10854	protein_coding	YES	CCDS33884.2	ENSP00000374240	SHOX2_HUMAN	.	UPI0000169EC9	.	deleterious_low_confidence(0)	probably_damaging(0.999)	1/6	.	hmmpanther:PTHR24329:SF311,hmmpanther:PTHR24329	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAACGCCGTA	.	5	BLCA
DLEC1	0	.	GRCh37	3	38103714	38103714	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.728T>A	p.Val243Asp	p.V243D	ENST00000308059	4/37	53	25	27	61	61	0	DLEC1,missense_variant,p.Val243Asp,ENST00000308059,;DLEC1,missense_variant,p.Val243Asp,ENST00000346219,;DLEC1,missense_variant,p.Val243Asp,ENST00000452631,;DLEC1,upstream_gene_variant,,ENST00000469151,;DLEC1,non_coding_transcript_exon_variant,,ENST00000440294,;DLEC1,upstream_gene_variant,,ENST00000447130,;	A	ENSG00000008226	ENST00000308059	Transcript	missense_variant	749	728	243	V/D	gTc/gAc	.	.	.	1	DLEC1	HGNC	2899	protein_coding	YES	CCDS2672.2	ENSP00000308597	DLEC1_HUMAN	.	UPI00006EB134	.	tolerated(0.1)	benign(0.091)	4/37	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCGTCCAGA	.	5	BLCA
CTNNB1	0	.	GRCh37	3	41266137	41266137	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.134C>T	p.Ser45Phe	p.S45F	ENST00000349496	3/15	29	18	11	32	32	0	CTNNB1,missense_variant,p.Ser45Phe,ENST00000349496,;CTNNB1,missense_variant,p.Ser38Phe,ENST00000426215,;CTNNB1,missense_variant,p.Ser45Phe,ENST00000450969,;CTNNB1,missense_variant,p.Ser45Phe,ENST00000431914,;CTNNB1,missense_variant,p.Ser45Phe,ENST00000396185,;CTNNB1,missense_variant,p.Ser45Phe,ENST00000405570,;CTNNB1,missense_variant,p.Ser38Phe,ENST00000453024,;CTNNB1,missense_variant,p.Ser45Phe,ENST00000396183,;CTNNB1,missense_variant,p.Ser45Phe,ENST00000441708,;CTNNB1,downstream_gene_variant,,ENST00000433400,;CTNNB1,non_coding_transcript_exon_variant,,ENST00000488914,;	T	ENSG00000168036	ENST00000349496	Transcript	missense_variant	414	134	45	S/F	tCt/tTt	COSM5667,COSM5692,COSM5689,COSM6100	.	.	1	CTNNB1	HGNC	2514	protein_coding	YES	CCDS2694.1	ENSP00000344456	CTNB1_HUMAN	G9GAG7_HUMAN,E9PDF9_HUMAN,E7EV28_HUMAN,E7EMJ5_HUMAN,C9IZ65_HUMAN,B4DGU4_HUMAN	UPI000012862F	.	deleterious(0)	probably_damaging(0.954)	3/15	.	hmmpanther:PTHR23315,hmmpanther:PTHR23315:SF53	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S45F|c.134C>T|518,CODON|p.A5_A80del|c.14_241del228|3,CODON|p.A5_A80>D|c.14_241del228|7,CODON|p.A5_Q143del|c.14_430del417|5,CODON|p.W25_I140del|c.73_420del348|3,CODON|p.Q28_H134del|c.82_402del321|5,CODON|p.S45del|c.131_133delCTT|3,CODON|p.S45del|c.133_135delTCT|50,CODON|p.S45A|c.133T>G|15,CODON|p.S45P|c.133T>C|225,CODON|p.S45T|c.133T>A|4,CODON|p.S45del|c.134_136delCTC|4,CODON|p.S45Y|c.134C>A|27,CODON|p.S45C|c.134C>G|27,BUFFER|p.T41T|c.123C>T|3,BUFFER|p.T42fs*7|c.125_126delCA|3,BUFFER|p.T42I|c.125C>T|3,BUFFER|p.T42R|c.125C>G|5,BUFFER|p.T42T|c.126A>G|5,BUFFER|p.A43T|c.127G>A|4,BUFFER|p.A43V|c.128C>T|7,BUFFER|p.P44S|c.130C>T|5,BUFFER|p.P44A|c.130C>G|6,BUFFER|p.P44L|c.131C>T|3,BUFFER|p.S45S|c.135T>C|3,BUFFER|p.L46P|c.137T>C|3,BUFFER|p.L46L|c.138G>A|3,BUFFER|p.S47G|c.139A>G|6,BUFFER|p.S47N|c.140G>A|3,BUFFER|p.G48D|c.143G>A|9,BUFFER|p.K49E|c.145A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTCTGA	.	5	BLCA
ULK4	0	.	GRCh37	3	41877360	41877360	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1760C>T	p.Thr587Ile	p.T587I	ENST00000301831	18/37	121	66	55	127	127	0	ULK4,missense_variant,p.Thr587Ile,ENST00000301831,;ULK4,non_coding_transcript_exon_variant,,ENST00000460406,;	A	ENSG00000168038	ENST00000301831	Transcript	missense_variant	2223	1760	587	T/I	aCc/aTc	.	.	.	-1	ULK4	HGNC	15784	protein_coding	YES	CCDS43071.1	ENSP00000301831	ULK4_HUMAN	B3KSE5_HUMAN	UPI0000E8267C	.	deleterious(0.01)	benign(0.013)	18/37	.	hmmpanther:PTHR22983,hmmpanther:PTHR22983:SF14,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGGTGGCT	.	5	BLCA
GRIA2	0	.	GRCh37	4	158257894	158257894	+	Silent	SNP	G	G	T	rs575418041	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1839G>T	p.%3D	p.S613S	ENST00000296526	11/16	120	70	49	189	189	0	GRIA2,synonymous_variant,p.%3D,ENST00000264426,;GRIA2,synonymous_variant,p.%3D,ENST00000507898,;GRIA2,synonymous_variant,p.%3D,ENST00000393815,;GRIA2,synonymous_variant,p.%3D,ENST00000296526,;GRIA2,synonymous_variant,p.%3D,ENST00000449365,;GRIA2,upstream_gene_variant,,ENST00000510854,;GRIA2,synonymous_variant,p.%3D,ENST00000323661,;GRIA2,non_coding_transcript_exon_variant,,ENST00000471736,;	T	ENSG00000120251	ENST00000296526	Transcript	synonymous_variant	2164	1839	613	S	tcG/tcT	rs575418041	.	.	1	GRIA2	HGNC	4572	protein_coding	YES	CCDS3797.1	ENSP00000296526	GRIA2_HUMAN	D6RFM6_HUMAN,D6REK8_HUMAN,D6RDX5_HUMAN,D6RBV7_HUMAN,D6R9Z0_HUMAN,A8MT92_HUMAN	UPI000002AA8D	.	.	.	11/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF99,Pfam_domain:PF00060,Gene3D:1.10.287.70,SMART_domains:SM00079,Superfamily_domains:SSF81324	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTCGCCAAG	by1000G	5	BLCA
GABRA2	0	.	GRCh37	4	46390820	46390820	+	Intron	SNP	T	T	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-10-87A>T	.	.	ENST00000510861	.	11	6	5	21	21	0	GABRA2,5_prime_UTR_variant,,ENST00000356504,;GABRA2,intron_variant,,ENST00000503806,;GABRA2,intron_variant,,ENST00000510861,;GABRA2,intron_variant,,ENST00000515082,;GABRA2,intron_variant,,ENST00000507460,;GABRA2,intron_variant,,ENST00000506961,;GABRA2,intron_variant,,ENST00000381620,;GABRA2,intron_variant,,ENST00000540012,;GABRA2,intron_variant,,ENST00000514090,;GABRA2,upstream_gene_variant,,ENST00000507069,;RP11-436F23.1,upstream_gene_variant,,ENST00000502455,;GABRA2,upstream_gene_variant,,ENST00000509716,;GABRA2,intron_variant,,ENST00000514193,;GABRA2,upstream_gene_variant,,ENST00000513005,;GABRA2,upstream_gene_variant,,ENST00000510233,;	A	ENSG00000151834	ENST00000510861	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	GABRA2	HGNC	4076	protein_coding	YES	CCDS3471.1	ENSP00000421828	GBRA2_HUMAN	Q4W5L8_HUMAN,D6RBL7_HUMAN,D6RBK9_HUMAN,D6RB77_HUMAN	UPI000013DC88	.	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	CCTTTTAGTTA	.	3	BLCA
FAM170A	0	.	GRCh37	5	118968583	118968583	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.211G>A	p.Gly71Arg	p.G71R	ENST00000335286	2/5	45	27	18	35	35	0	FAM170A,missense_variant,p.Gly71Arg,ENST00000509264,;FAM170A,missense_variant,p.Gly71Arg,ENST00000515256,;FAM170A,missense_variant,p.Gly71Arg,ENST00000335286,;FAM170A,intron_variant,,ENST00000379555,;FAM170A,intron_variant,,ENST00000504819,;HSD17B4,intron_variant,,ENST00000515235,;	A	ENSG00000164334	ENST00000335286	Transcript	missense_variant	382	211	71	G/R	Gga/Aga	.	.	.	1	FAM170A	HGNC	27963	nonsense_mediated_decay	YES	CCDS43353.1	ENSP00000334285	F170A_HUMAN	.	UPI00001C1E37	.	tolerated(0.1)	possibly_damaging(0.589)	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAGTGGTAAG	.	5	BLCA
GRIA1	0	.	GRCh37	5	153026544	153026544	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307A>C	p.Thr103Pro	p.T103P	ENST00000518783	3/16	91	48	43	93	93	0	GRIA1,missense_variant,p.Thr24Pro,ENST00000521843,;GRIA1,missense_variant,p.Thr93Pro,ENST00000285900,;GRIA1,missense_variant,p.Thr103Pro,ENST00000518783,;GRIA1,missense_variant,p.Thr103Pro,ENST00000448073,;GRIA1,missense_variant,p.Thr93Pro,ENST00000340592,;GRIA1,intron_variant,,ENST00000518142,;GRIA1,non_coding_transcript_exon_variant,,ENST00000518862,;GRIA1,non_coding_transcript_exon_variant,,ENST00000520966,;GRIA1,non_coding_transcript_exon_variant,,ENST00000481559,;	C	ENSG00000155511	ENST00000518783	Transcript	missense_variant	334	307	103	T/P	Act/Cct	.	.	.	1	GRIA1	HGNC	4571	protein_coding	YES	CCDS58987.1	ENSP00000428994	GRIA1_HUMAN	.	UPI0001E8F433	.	deleterious(0.02)	probably_damaging(0.934)	3/16	.	Superfamily_domains:SSF53822,Pfam_domain:PF01094,Gene3D:3.40.50.2300,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAGGACTGTC	.	5	BLCA
CLINT1	0	.	GRCh37	5	157286050	157286050	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-72C>T	.	.	ENST00000523908	1/12	9	5	4	15	15	0	CLINT1,splice_region_variant,,ENST00000530742,;CLINT1,5_prime_UTR_variant,,ENST00000523094,;CLINT1,5_prime_UTR_variant,,ENST00000296951,;CLINT1,5_prime_UTR_variant,,ENST00000523908,;CLINT1,5_prime_UTR_variant,,ENST00000411809,;	A	ENSG00000113282	ENST00000523908	Transcript	5_prime_UTR_variant	102	.	.	.	.	.	.	.	-1	CLINT1	HGNC	23186	protein_coding	YES	CCDS56389.1	ENSP00000429824	EPN4_HUMAN	.	UPI00003E6460	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCGGGGCAG	.	2	BLCA
MAST4	0	.	GRCh37	5	66440990	66440990	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2877C>T	p.%3D	p.S959S	ENST00000403625	23/29	15	10	4	18	18	0	MAST4,synonymous_variant,p.%3D,ENST00000403666,;MAST4,synonymous_variant,p.%3D,ENST00000404260,;MAST4,synonymous_variant,p.%3D,ENST00000443808,;MAST4,synonymous_variant,p.%3D,ENST00000261569,;MAST4,synonymous_variant,p.%3D,ENST00000405643,;MAST4,synonymous_variant,p.%3D,ENST00000403625,;MAST4,downstream_gene_variant,,ENST00000485768,;	T	ENSG00000069020	ENST00000403625	Transcript	synonymous_variant	3172	2877	959	S	tcC/tcT	.	.	.	1	MAST4	HGNC	19037	protein_coding	YES	CCDS54861.1	ENSP00000385727	.	J3QT34_HUMAN	UPI000173A2B0	.	.	.	23/29	.	hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF139	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATCCAACTC	.	5	BLCA
AP3B1	0	.	GRCh37	5	77298758	77298758	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3253C>T	p.Arg1085Trp	p.R1085W	ENST00000255194	27/27	72	40	31	66	66	0	AP3B1,missense_variant,p.Arg1085Trp,ENST00000255194,;AP3B1,missense_variant,p.Arg1036Trp,ENST00000519295,;AP3B1,3_prime_UTR_variant,,ENST00000522901,;AP3B1,downstream_gene_variant,,ENST00000520122,;	A	ENSG00000132842	ENST00000255194	Transcript	missense_variant	3429	3253	1085	R/W	Cgg/Tgg	.	.	.	-1	AP3B1	HGNC	566	protein_coding	YES	CCDS4041.1	ENSP00000255194	AP3B1_HUMAN	E5RJ68_HUMAN	UPI00001AE77D	.	deleterious(0)	possibly_damaging(0.689)	27/27	.	hmmpanther:PTHR11134,hmmpanther:PTHR11134:SF10,PIRSF_domain:PIRSF037096,SMART_domains:SM01020	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCCGCAGCA	.	5	BLCA
RASGRF2	0	.	GRCh37	5	80404869	80404869	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1810T>C	p.Ser604Pro	p.S604P	ENST00000265080	13/27	51	35	16	42	42	0	RASGRF2,missense_variant,p.Ser604Pro,ENST00000265080,;CTD-2193P3.2,downstream_gene_variant,,ENST00000508993,;RASGRF2,missense_variant,p.Ser604Pro,ENST00000503795,;	C	ENSG00000113319	ENST00000265080	Transcript	missense_variant	1877	1810	604	S/P	Tcc/Ccc	.	.	.	1	RASGRF2	HGNC	9876	protein_coding	YES	CCDS4052.1	ENSP00000265080	RGRF2_HUMAN	Q68DX5_HUMAN	UPI0000047ABF	.	deleterious(0)	probably_damaging(0.939)	13/27	.	hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATTCCAAA	.	5	BLCA
NKAIN2	0	.	GRCh37	6	124979592	124979592	+	Intron	SNP	G	G	C	rs750768778	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474+60G>C	.	.	ENST00000368417	.	25	12	13	12	12	0	NKAIN2,synonymous_variant,p.%3D,ENST00000368416,;NKAIN2,intron_variant,,ENST00000368417,;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;	C	ENSG00000188580	ENST00000368417	Transcript	intron_variant	.	.	.	.	.	rs750768778	.	.	1	NKAIN2	HGNC	16443	protein_coding	YES	CCDS34526.1	ENSP00000357402	NKAI2_HUMAN	B3KNZ0_HUMAN,B0AZU5_HUMAN	UPI0000458919	.	.	.	.	4/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTGCGAACTC	.	2	BLCA
ZNF783	0	.	GRCh37	7	148963916	148963916	+	Missense_Mutation	SNP	G	G	A	rs776758993	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>A	p.Val143Met	p.V143M	ENST00000434415	3/6	123	75	47	141	141	0	ZNF783,missense_variant,p.Val143Met,ENST00000434415,;ZNF783,missense_variant,p.Val143Met,ENST00000378052,;ZNF783,missense_variant,p.Val143Met,ENST00000476295,;	A	ENSG00000204946	ENST00000434415	Transcript	missense_variant	590	427	143	V/M	Gtg/Atg	rs776758993	.	.	1	ZNF783	HGNC	27222	protein_coding	YES	CCDS56519.1	ENSP00000410890	.	C9J9J2_HUMAN	UPI0000ED938D	.	tolerated(0.09)	possibly_damaging(0.839)	3/6	.	Superfamily_domains:0044637,SMART_domains:SM00349,Pfam_domain:PF01352,hmmpanther:PTHR24390:SF40,hmmpanther:PTHR24390,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCCGTGACC	byFrequency	5	BLCA
NOS3	0	.	GRCh37	7	150698398	150698398	+	Frame_Shift_Del	DEL	G	G	-	.	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1319delG	p.Gly440AlafsTer64	p.G440Afs*64	ENST00000297494	11/27	82	57	25	46	46	0	NOS3,frameshift_variant,p.Gly440AlafsTer64,ENST00000467517,;NOS3,frameshift_variant,p.Gly440AlafsTer64,ENST00000484524,;NOS3,frameshift_variant,p.Gly234AlafsTer64,ENST00000461406,;NOS3,frameshift_variant,p.Gly440AlafsTer64,ENST00000297494,;NOS3,upstream_gene_variant,,ENST00000460603,;	-	ENSG00000164867	ENST00000297494	Transcript	frameshift_variant	1670	1313	438	R/X	aGg/ag	COSM1449231	.	.	1	NOS3	HGNC	7876	protein_coding	YES	CCDS5912.1	ENSP00000297494	NOS3_HUMAN	Q96P37_HUMAN,Q96J98_HUMAN,O14937_HUMAN,E7ESA7_HUMAN	UPI000013E417	.	.	.	11/27	.	hmmpanther:PTHR19384,hmmpanther:PTHR19384:SF66,Pfam_domain:PF02898,PIRSF_domain:PIRSF000333,Superfamily_domains:SSF56512	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	deletion	.	6	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.G440fs*64|c.1313delG|6	VARSCANI*|PINDEL	AGGCCAGGGGGG	.	2	BLCA
AGMO	0	.	GRCh37	7	15470660	15470660	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483A>G	p.%3D	p.R161R	ENST00000342526	4/13	61	31	29	47	47	0	AGMO,synonymous_variant,p.%3D,ENST00000342526,;	C	ENSG00000187546	ENST00000342526	Transcript	synonymous_variant	653	483	161	R	agA/agG	.	.	.	-1	AGMO	HGNC	33784	protein_coding	YES	CCDS34604.1	ENSP00000341662	ALKMO_HUMAN	.	UPI0000050343	.	.	.	4/13	.	hmmpanther:PTHR21624,Pfam_domain:PF04116	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A159S|c.475G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTGTCTCAG	.	5	BLCA
IKZF1	0	.	GRCh37	7	50468301	50468301	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1410G>A	p.%3D	p.G470G	ENST00000439701	7/7	25	9	16	21	21	0	IKZF1,synonymous_variant,p.%3D,ENST00000331340,;IKZF1,synonymous_variant,p.%3D,ENST00000349824,;IKZF1,synonymous_variant,p.%3D,ENST00000343574,;IKZF1,synonymous_variant,p.%3D,ENST00000346667,;IKZF1,synonymous_variant,p.%3D,ENST00000357364,;IKZF1,synonymous_variant,p.%3D,ENST00000438033,;IKZF1,synonymous_variant,p.%3D,ENST00000359197,;IKZF1,synonymous_variant,p.%3D,ENST00000439701,;IKZF1,3_prime_UTR_variant,,ENST00000440768,;IKZF1,downstream_gene_variant,,ENST00000426121,;IKZF1,non_coding_transcript_exon_variant,,ENST00000471793,;	A	ENSG00000185811	ENST00000439701	Transcript	synonymous_variant	1609	1410	470	G	ggG/ggA	.	.	.	1	IKZF1	HGNC	13176	protein_coding	YES	CCDS59055.1	ENSP00000413025	IKZF1_HUMAN	.	UPI000002ABBE	.	.	.	7/7	.	SMART_domains:SM00355,hmmpanther:PTHR24404,hmmpanther:PTHR24404:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.?|c.161-?_1560+?del|29	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGAGGGGAGCA	.	5	BLCA
MIOS	0	.	GRCh37	7	7612385	7612385	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279T>C	p.%3D	p.G93G	ENST00000340080	4/13	79	45	33	98	98	0	MIOS,synonymous_variant,p.%3D,ENST00000456533,;MIOS,synonymous_variant,p.%3D,ENST00000405785,;MIOS,synonymous_variant,p.%3D,ENST00000433635,;MIOS,synonymous_variant,p.%3D,ENST00000340080,;MIOS,downstream_gene_variant,,ENST00000433056,;MIOS,downstream_gene_variant,,ENST00000445169,;	C	ENSG00000164654	ENST00000340080	Transcript	synonymous_variant	700	279	93	G	ggT/ggC	.	.	.	1	MIOS	HGNC	21905	protein_coding	YES	CCDS43554.1	ENSP00000339881	MIO_HUMAN	C9JUE6_HUMAN,C9JTV2_HUMAN,C9JAQ1_HUMAN	UPI000020EB0B	.	.	.	4/13	.	hmmpanther:PTHR16453,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGGTCAAGA	.	5	BLCA
TNFRSF10A	0	.	GRCh37	8	23082527	23082527	+	Silent	SNP	C	C	T	rs200751584	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48G>A	p.%3D	p.V16V	ENST00000221132	1/10	15	1	14	15	15	0	TNFRSF10A,synonymous_variant,p.%3D,ENST00000221132,;TNFRSF10A,upstream_gene_variant,,ENST00000524158,;RP11-1149O23.3,intron_variant,,ENST00000517774,;RP11-1149O23.3,upstream_gene_variant,,ENST00000500853,;RP11-1149O23.4,downstream_gene_variant,,ENST00000511929,;RP11-1149O23.3,upstream_gene_variant,,ENST00000522600,;	T	ENSG00000104689	ENST00000221132	Transcript	synonymous_variant	113	48	16	V	gtG/gtA	rs200751584	.	.	-1	TNFRSF10A	HGNC	11904	protein_coding	YES	CCDS6039.1	ENSP00000221132	TR10A_HUMAN	E5RFH1_HUMAN	UPI000013C7A8	.	.	.	1/10	.	PIRSF_domain:PIRSF037867	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGTCACTGC	byCluster|by1000G	5	BLCA
TEX10	0	.	GRCh37	9	103111575	103111575	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71A>G	p.Lys24Arg	p.K24R	ENST00000374902	2/15	38	35	3	35	35	0	TEX10,missense_variant,p.Lys24Arg,ENST00000374902,;TEX10,missense_variant,p.Lys27Arg,ENST00000535814,;TEX10,intron_variant,,ENST00000537512,;TEX10,upstream_gene_variant,,ENST00000429235,;	C	ENSG00000136891	ENST00000374902	Transcript	missense_variant	248	71	24	K/R	aAg/aGg	.	.	.	-1	TEX10	HGNC	25988	protein_coding	YES	CCDS6748.1	ENSP00000364037	TEX10_HUMAN	.	UPI000013D052	.	tolerated(0.54)	benign(0.002)	2/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16056,hmmpanther:PTHR16056:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTAACTTGGGC	.	2	BLCA
ZNF462	0	.	GRCh37	9	109691914	109691914	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5721G>A	p.%3D	p.L1907L	ENST00000277225	3/13	31	16	14	32	32	0	ZNF462,synonymous_variant,p.%3D,ENST00000277225,;ZNF462,synonymous_variant,p.%3D,ENST00000457913,;ZNF462,synonymous_variant,p.%3D,ENST00000441147,;ZNF462,synonymous_variant,p.%3D,ENST00000374686,;ZNF462,intron_variant,,ENST00000472574,;ZNF462,upstream_gene_variant,,ENST00000542028,;ZNF462,intron_variant,,ENST00000480607,;ZNF462,upstream_gene_variant,,ENST00000497489,;ZNF462,upstream_gene_variant,,ENST00000479166,;ZNF462,upstream_gene_variant,,ENST00000469433,;ZNF462,upstream_gene_variant,,ENST00000471032,;	A	ENSG00000148143	ENST00000277225	Transcript	synonymous_variant	6010	5721	1907	L	ctG/ctA	.	.	.	1	ZNF462	HGNC	21684	protein_coding	YES	CCDS35096.1	ENSP00000277225	ZN462_HUMAN	U3KQ68_HUMAN,F5H0Z0_HUMAN	UPI0000470106	.	.	.	3/13	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24385:SF52,hmmpanther:PTHR24385,PROSITE_patterns:PS00028,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGACCTC	.	5	BLCA
PTPN3	0	.	GRCh37	9	112182795	112182795	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1222G>T	p.Glu408Ter	p.E408*	ENST00000374541	14/26	38	15	22	46	46	0	PTPN3,stop_gained,p.Glu232Ter,ENST00000446349,;PTPN3,stop_gained,p.Glu277Ter,ENST00000412145,;PTPN3,stop_gained,p.Glu254Ter,ENST00000262539,;PTPN3,stop_gained,p.Glu408Ter,ENST00000374541,;PTPN3,upstream_gene_variant,,ENST00000394827,;	A	ENSG00000070159	ENST00000374541	Transcript	stop_gained	1327	1222	408	E/*	Gaa/Taa	.	.	.	-1	PTPN3	HGNC	9655	protein_coding	YES	CCDS6776.1	ENSP00000363667	PTN3_HUMAN	B7Z8K9_HUMAN	UPI000013D2D2	.	.	.	14/26	.	hmmpanther:PTHR19134:SF248,hmmpanther:PTHR19134,PIRSF_domain:PIRSF000927	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTTTCCGTGA	.	5	BLCA
PTPN3	0	.	GRCh37	9	112182796	112182796	+	Silent	SNP	C	C	A	rs142732873	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1221G>T	p.%3D	p.T407T	ENST00000374541	14/26	38	15	22	46	46	0	PTPN3,synonymous_variant,p.%3D,ENST00000446349,;PTPN3,synonymous_variant,p.%3D,ENST00000412145,;PTPN3,synonymous_variant,p.%3D,ENST00000262539,;PTPN3,synonymous_variant,p.%3D,ENST00000374541,;PTPN3,upstream_gene_variant,,ENST00000394827,;	A	ENSG00000070159	ENST00000374541	Transcript	synonymous_variant	1326	1221	407	T	acG/acT	rs142732873	.	.	-1	PTPN3	HGNC	9655	protein_coding	YES	CCDS6776.1	ENSP00000363667	PTN3_HUMAN	B7Z8K9_HUMAN	UPI000013D2D2	.	.	.	14/26	.	hmmpanther:PTHR19134:SF248,hmmpanther:PTHR19134,PIRSF_domain:PIRSF000927	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTCCGTGAT	byFrequency|byCluster	5	BLCA
RXRA	0	.	GRCh37	9	137309085	137309085	+	Missense_Mutation	SNP	C	C	T	rs777558913	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.692C>T	p.Pro231Leu	p.P231L	ENST00000481739	5/10	47	34	13	49	48	1	RXRA,missense_variant,p.Pro231Leu,ENST00000481739,;RXRA,missense_variant,p.Pro134Leu,ENST00000540193,;RXRA,non_coding_transcript_exon_variant,,ENST00000356384,;	T	ENSG00000186350	ENST00000481739	Transcript	missense_variant	744	692	231	P/L	cCg/cTg	rs777558913,COSM247152	.	.	1	RXRA	HGNC	10477	protein_coding	YES	CCDS35172.1	ENSP00000419692	RXRA_HUMAN	Q6P3U7_HUMAN,F1D8Q5_HUMAN,B3KY83_HUMAN	UPI0000042A9A	.	deleterious(0)	probably_damaging(1)	5/10	.	Superfamily_domains:SSF48508,Gene3D:1.10.565.10,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF39	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGCCGGTGG	byFrequency	5	BLCA
SEC16A	0	.	GRCh37	9	139371086	139371086	+	Missense_Mutation	SNP	G	G	A	rs780590882	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.982C>T	p.Arg328Trp	p.R328W	ENST00000313050	1/30	33	17	16	38	38	0	SEC16A,missense_variant,p.Arg150Trp,ENST00000290037,;SEC16A,missense_variant,p.Arg328Trp,ENST00000313050,;SEC16A,missense_variant,p.Arg150Trp,ENST00000431893,;SEC16A,missense_variant,p.Arg150Trp,ENST00000371706,;	A	ENSG00000148396	ENST00000313050	Transcript	missense_variant	1056	982	328	R/W	Cgg/Tgg	rs780590882	.	.	-1	SEC16A	HGNC	29006	protein_coding	YES	CCDS55351.1	ENSP00000325827	.	J3KNL6_HUMAN,G1UI25_HUMAN,A0PJ75_HUMAN	UPI0000F0888B	.	tolerated(0.13)	benign(0.037)	1/30	.	hmmpanther:PTHR13402,hmmpanther:PTHR13402:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCCGGTGCT	.	5	BLCA
IFNA2	0	.	GRCh37	9	21384772	21384772	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.557G>A	p.Ser186Asn	p.S186N	ENST00000380206	1/1	103	58	44	117	117	0	IFNA2,missense_variant,p.Ser186Asn,ENST00000380206,;	T	ENSG00000188379	ENST00000380206	Transcript	missense_variant	625	557	186	S/N	aGt/aAt	.	.	.	-1	IFNA2	HGNC	5423	protein_coding	YES	CCDS6506.1	ENSP00000369554	IFNA2_HUMAN	Q6DJX8_HUMAN,Q16054_HUMAN	UPI0000034B3A	.	tolerated(0.42)	benign(0.197)	1/1	.	hmmpanther:PTHR11691:SF24,hmmpanther:PTHR11691,Gene3D:1.20.1250.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTACTTCTT	.	5	BLCA
KIAA2026	0	.	GRCh37	9	6007677	6007677	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111G>A	p.%3D	p.Q37Q	ENST00000399933	1/8	18	11	6	14	14	0	KIAA2026,synonymous_variant,p.%3D,ENST00000513355,;KIAA2026,synonymous_variant,p.%3D,ENST00000381461,;KIAA2026,synonymous_variant,p.%3D,ENST00000399933,;RANBP6,downstream_gene_variant,,ENST00000259569,;MIR4665,upstream_gene_variant,,ENST00000581132,;	T	ENSG00000183354	ENST00000399933	Transcript	synonymous_variant	111	111	37	Q	caG/caA	.	.	.	-1	KIAA2026	HGNC	23378	protein_coding	YES	.	ENSP00000382815	K2026_HUMAN	.	UPI0001533DB0	.	.	.	1/8	.	hmmpanther:PTHR31095:SF2,hmmpanther:PTHR31095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGTCTGGGC	.	5	BLCA
KANK1	0	.	GRCh37	9	738496	738497	+	Frame_Shift_Ins	INS	-	-	AGATG	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3546_3550dupAGATG	p.Ala1184GlufsTer45	p.A1184Efs*45	ENST00000382303	12/16	29	23	6	36	36	0	KANK1,frameshift_variant,p.Ala103GlufsTer45,ENST00000382286,;KANK1,frameshift_variant,p.Ala1026GlufsTer45,ENST00000382293,;KANK1,frameshift_variant,p.Ala1184GlufsTer45,ENST00000382303,;KANK1,frameshift_variant,p.Ala184GlufsTer45,ENST00000382289,;KANK1,frameshift_variant,p.Ala1184GlufsTer45,ENST00000382297,;KANK1,non_coding_transcript_exon_variant,,ENST00000489369,;KANK1,downstream_gene_variant,,ENST00000354485,;	AGATG	ENSG00000107104	ENST00000382303	Transcript	frameshift_variant	4197-4198	3545-3546	1182	L/LDX	tta/ttAGATGa	.	.	.	1	KANK1	HGNC	19309	protein_coding	YES	CCDS34976.1	ENSP00000371740	KANK1_HUMAN	Q8WUM7_HUMAN,Q53U93_HUMAN	UPI00001AF26E	.	.	.	12/16	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24168,hmmpanther:PTHR24168:SF19,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCTGTTAGATG	.	3	BLCA
TLR8	0	.	GRCh37	X	12939151	12939151	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1992G>A	p.%3D	p.A664A	ENST00000218032	2/2	33	2	31	30	30	0	TLR8,synonymous_variant,p.%3D,ENST00000311912,;TLR8,synonymous_variant,p.%3D,ENST00000218032,;	A	ENSG00000101916	ENST00000218032	Transcript	synonymous_variant	2079	1992	664	A	gcG/gcA	.	.	.	1	TLR8	HGNC	15632	protein_coding	YES	CCDS14152.1	ENSP00000218032	TLR8_HUMAN	Q8NC00_HUMAN,B4DLJ2_HUMAN	UPI000004BAFC	.	.	.	2/2	.	hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF227,Pfam_domain:PF13855,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGCGAGTCT	.	5	BLCA
ZNF275	0	.	GRCh37	X	152612855	152612855	+	Missense_Mutation	SNP	G	G	A	rs782516737	.	TCGA-XF-AAMH-01A-11D-A42E-08	TCGA-XF-AAMH-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.712G>A	p.Ala238Thr	p.A238T	ENST00000370251	4/5	51	5	46	32	31	0	ZNF275,missense_variant,p.Ala238Thr,ENST00000370251,;ZNF275,missense_variant,p.Ala268Thr,ENST00000440091,;ZNF275,missense_variant,p.Ala185Thr,ENST00000370249,;ZNF275,missense_variant,p.Ala238Thr,ENST00000421401,;snoU13,upstream_gene_variant,,ENST00000459572,;ZNF275,upstream_gene_variant,,ENST00000438239,;	A	ENSG00000063587	ENST00000370251	Transcript	missense_variant	889	712	238	A/T	Gcc/Acc	rs782516737,COSM4107656,COSM4107655	.	.	1	ZNF275	HGNC	13069	protein_coding	YES	.	ENSP00000359271	.	A6NFS0_HUMAN	UPI000059DBB5	.	tolerated(0.43)	possibly_damaging(0.477)	4/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24409,hmmpanther:PTHR24409:SF13,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTCGCCTGC	byFrequency	5	BLCA
FAM45A	0	.	GRCh37	10	120877094	120877094	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396G>A	p.%3D	p.K132K	ENST00000361432	4/9	139	100	38	151	151	0	FAM45A,synonymous_variant,p.%3D,ENST00000361432,;FAM45A,synonymous_variant,p.%3D,ENST00000535029,;FAM45A,intron_variant,,ENST00000544016,;FAM45A,non_coding_transcript_exon_variant,,ENST00000489988,;FAM45A,non_coding_transcript_exon_variant,,ENST00000487888,;FAM45A,non_coding_transcript_exon_variant,,ENST00000448258,;FAM45A,upstream_gene_variant,,ENST00000498549,;	A	ENSG00000119979	ENST00000361432	Transcript	synonymous_variant	422	396	132	K	aaG/aaA	.	.	.	1	FAM45A	HGNC	31793	protein_coding	YES	CCDS7609.1	ENSP00000354688	FA45A_HUMAN	.	UPI0000071DBA	.	.	.	4/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAAAGGGGAT	.	5	BLCA
DOCK1	0	.	GRCh37	10	128821529	128821529	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1330A>G	p.Thr444Ala	p.T444A	ENST00000280333	14/52	136	98	37	163	163	0	DOCK1,missense_variant,p.Thr444Ala,ENST00000280333,;RP11-223P11.2,intron_variant,,ENST00000420941,;RP11-223P11.3,intron_variant,,ENST00000594559,;RP11-223P11.3,intron_variant,,ENST00000594614,;RP11-223P11.3,intron_variant,,ENST00000601242,;RP11-223P11.3,intron_variant,,ENST00000599979,;RP11-223P11.3,intron_variant,,ENST00000601826,;RP11-223P11.3,intron_variant,,ENST00000595456,;RP11-223P11.3,downstream_gene_variant,,ENST00000432554,;RP11-223P11.3,downstream_gene_variant,,ENST00000608350,;	G	ENSG00000150760	ENST00000280333	Transcript	missense_variant	1439	1330	444	T/A	Aca/Gca	.	.	.	1	DOCK1	HGNC	2987	protein_coding	YES	.	ENSP00000280333	DOCK1_HUMAN	.	UPI0000246CA1	.	tolerated(0.06)	benign(0.054)	14/52	.	PROSITE_profiles:PS51650,hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF79,Pfam_domain:PF14429	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACAACAGCG	.	5	BLCA
MKI67	0	.	GRCh37	10	129911690	129911690	+	Splice_Site	SNP	C	C	T	rs751293626	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1656+1G>A	.	p.X552_splice	ENST00000368654	.	164	119	44	182	182	0	MKI67,splice_donor_variant,,ENST00000368654,;MKI67,splice_donor_variant,,ENST00000368653,;MKI67,downstream_gene_variant,,ENST00000478293,;MKI67,upstream_gene_variant,,ENST00000484853,;	T	ENSG00000148773	ENST00000368654	Transcript	splice_donor_variant	.	.	.	.	.	rs751293626	.	.	-1	MKI67	HGNC	7107	protein_coding	YES	CCDS7659.1	ENSP00000357643	KI67_HUMAN	.	UPI000013DB54	.	.	.	.	8/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCACCTTGA	.	5	BLCA
CACNB2	0	.	GRCh37	10	18828440	18828440	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1770C>A	p.His590Gln	p.H590Q	ENST00000324631	14/14	28	21	7	47	47	0	CACNB2,missense_variant,p.His340Gln,ENST00000377328,;CACNB2,missense_variant,p.His535Gln,ENST00000396576,;CACNB2,missense_variant,p.His536Gln,ENST00000377329,;CACNB2,missense_variant,p.His590Gln,ENST00000324631,;CACNB2,missense_variant,p.His542Gln,ENST00000377315,;CACNB2,missense_variant,p.His562Gln,ENST00000282343,;CACNB2,missense_variant,p.His538Gln,ENST00000377331,;CACNB2,missense_variant,p.His566Gln,ENST00000352115,;CACNB2,missense_variant,p.His497Gln,ENST00000377319,;RP11-499P20.2,intron_variant,,ENST00000425669,;RP11-499P20.2,downstream_gene_variant,,ENST00000436485,;	A	ENSG00000165995	ENST00000324631	Transcript	missense_variant	1830	1770	590	H/Q	caC/caA	.	.	.	1	CACNB2	HGNC	1402	protein_coding	YES	CCDS7125.1	ENSP00000320025	CACB2_HUMAN	.	UPI00001AEA80	.	tolerated_low_confidence(0.24)	probably_damaging(0.995)	14/14	.	hmmpanther:PTHR11824,hmmpanther:PTHR11824:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCACAGAGA	.	5	BLCA
CDH23	0	.	GRCh37	10	73326645	73326645	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.576G>A	p.%3D	p.E192E	ENST00000398809	7/14	24	14	10	39	38	0	CDH23,synonymous_variant,p.%3D,ENST00000398809,;CDH23,synonymous_variant,p.%3D,ENST00000398842,;CDH23,synonymous_variant,p.%3D,ENST00000224721,;CDH23,synonymous_variant,p.%3D,ENST00000461841,;CDH23,synonymous_variant,p.%3D,ENST00000299366,;CDH23,upstream_gene_variant,,ENST00000466757,;	A	ENSG00000107736	ENST00000398809	Transcript	synonymous_variant	966	576	192	E	gaG/gaA	.	.	.	1	CDH23	HGNC	13733	protein_coding	.	CCDS44429.1	ENSP00000381789	CAD23_HUMAN	.	UPI000015FC45	.	.	.	7/14	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF2,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGGAGCTGGA	.	5	BLCA
GATA3	0	.	GRCh37	10	8100728	8100728	+	Silent	SNP	C	C	T	rs199565632,rs776668722	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702C>T	p.%3D	p.F234F	ENST00000379328	3/6	41	27	13	38	38	0	GATA3,synonymous_variant,p.%3D,ENST00000346208,;GATA3,synonymous_variant,p.%3D,ENST00000379328,;GATA3,non_coding_transcript_exon_variant,,ENST00000461472,;GATA3,downstream_gene_variant,,ENST00000481743,;	T	ENSG00000107485	ENST00000379328	Transcript	synonymous_variant	1270	702	234	F	ttC/ttT	rs199565632,rs776668722,COSM1349268	.	.	1	GATA3	HGNC	4172	protein_coding	YES	CCDS31143.1	ENSP00000368632	GATA3_HUMAN	.	UPI000002AA34	.	.	.	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10071:SF106,hmmpanther:PTHR10071,PIRSF_domain:PIRSF003027	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	0,0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCCCCCC	byCluster|by1000G	5	BLCA
ZFYVE27	0	.	GRCh37	10	99511204	99511204	+	Missense_Mutation	SNP	T	T	A	rs371034247	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.876T>A	p.Phe292Leu	p.F292L	ENST00000356257	7/12	25	10	14	40	40	0	ZFYVE27,missense_variant,p.Phe169Leu,ENST00000370613,;ZFYVE27,missense_variant,p.Phe270Leu,ENST00000423811,;ZFYVE27,missense_variant,p.Phe255Leu,ENST00000337540,;ZFYVE27,missense_variant,p.Phe287Leu,ENST00000393677,;ZFYVE27,missense_variant,p.Phe287Leu,ENST00000359980,;ZFYVE27,missense_variant,p.Phe201Leu,ENST00000357540,;ZFYVE27,missense_variant,p.Phe287Leu,ENST00000453958,;ZFYVE27,missense_variant,p.Phe194Leu,ENST00000370610,;ZFYVE27,missense_variant,p.Phe292Leu,ENST00000356257,;ZFYVE27,downstream_gene_variant,,ENST00000481956,;	A	ENSG00000155256	ENST00000356257	Transcript	missense_variant	877	876	292	F/L	ttT/ttA	rs371034247	.	.	1	ZFYVE27	HGNC	26559	protein_coding	YES	CCDS31262.1	ENSP00000348593	ZFY27_HUMAN	.	UPI00003FE526	.	tolerated(0.12)	possibly_damaging(0.68)	7/12	.	hmmpanther:PTHR14543	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GAGTTTAAAGA	byFrequency|byCluster	4	BLCA
DCHS1	0	.	GRCh37	11	6655447	6655447	+	Missense_Mutation	SNP	G	G	A	rs574604458	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1888C>T	p.Arg630Cys	p.R630C	ENST00000299441	3/21	54	49	5	63	63	0	DCHS1,missense_variant,p.Arg630Cys,ENST00000299441,;RP11-732A19.6,intron_variant,,ENST00000526633,;	A	ENSG00000166341	ENST00000299441	Transcript	missense_variant	2300	1888	630	R/C	Cgc/Tgc	rs574604458	.	.	-1	DCHS1	HGNC	13681	protein_coding	YES	CCDS7771.1	ENSP00000299441	PCD16_HUMAN	.	UPI00001313B6	.	deleterious(0.01)	possibly_damaging(0.601)	3/21	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24027:SF294,hmmpanther:PTHR24027,PROSITE_profiles:PS50268	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATGCGGAATG	by1000G	3	BLCA
KCTD21	0	.	GRCh37	11	77885010	77885010	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.591G>T	p.Glu197Asp	p.E197D	ENST00000340067	2/2	111	96	14	116	116	0	KCTD21,missense_variant,p.Glu197Asp,ENST00000340067,;KCTD21,downstream_gene_variant,,ENST00000525447,;KCTD21,downstream_gene_variant,,ENST00000530018,;KCTD21,downstream_gene_variant,,ENST00000526208,;KCTD21,downstream_gene_variant,,ENST00000528776,;KCTD21,downstream_gene_variant,,ENST00000529350,;KCTD21-AS1,non_coding_transcript_exon_variant,,ENST00000523626,;KCTD21-AS1,non_coding_transcript_exon_variant,,ENST00000600795,;KCTD21-AS1,downstream_gene_variant,,ENST00000530261,;KCTD21-AS1,downstream_gene_variant,,ENST00000528468,;	A	ENSG00000188997	ENST00000340067	Transcript	missense_variant	870	591	197	E/D	gaG/gaT	.	.	.	-1	KCTD21	HGNC	27452	protein_coding	YES	CCDS31645.1	ENSP00000339340	KCD21_HUMAN	E9PRT1_HUMAN,E9PMS5_HUMAN,E9PM10_HUMAN,E9PK99_HUMAN,E9PJJ5_HUMAN	UPI000016193F	.	tolerated(0.2)	possibly_damaging(0.899)	2/2	.	hmmpanther:PTHR14499,hmmpanther:PTHR14499:SF57	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTCCTCTGG	.	4	BLCA
TENM4	0	.	GRCh37	11	78380675	78380675	+	Missense_Mutation	SNP	A	A	T	rs745513028	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6715T>A	p.Tyr2239Asn	p.Y2239N	ENST00000278550	32/34	121	80	41	114	114	0	TENM4,missense_variant,p.Tyr2239Asn,ENST00000278550,;TENM4,missense_variant,p.Tyr703Asn,ENST00000530738,;	T	ENSG00000149256	ENST00000278550	Transcript	missense_variant	7178	6715	2239	Y/N	Tat/Aat	rs745513028	.	.	-1	TENM4	HGNC	29945	protein_coding	YES	CCDS44688.1	ENSP00000278550	TEN4_HUMAN	G3CAT1_HUMAN	UPI0000DD8112	.	deleterious(0)	probably_damaging(0.961)	32/34	.	hmmpanther:PTHR11219:SF9,hmmpanther:PTHR11219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCATACCGTA	.	5	BLCA
ACACB	0	.	GRCh37	12	109671619	109671619	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4206C>T	p.%3D	p.A1402A	ENST00000338432	30/53	57	37	20	59	59	0	ACACB,synonymous_variant,p.%3D,ENST00000377854,;ACACB,synonymous_variant,p.%3D,ENST00000543201,;ACACB,synonymous_variant,p.%3D,ENST00000377848,;ACACB,synonymous_variant,p.%3D,ENST00000338432,;ACACB,synonymous_variant,p.%3D,ENST00000538526,;ACACB,upstream_gene_variant,,ENST00000542524,;	T	ENSG00000076555	ENST00000338432	Transcript	synonymous_variant	4325	4206	1402	A	gcC/gcT	.	.	.	1	ACACB	HGNC	85	protein_coding	YES	CCDS31898.1	ENSP00000341044	ACACB_HUMAN	F5H5C3_HUMAN,E9PEW7_HUMAN	UPI0000DBEEFB	.	.	.	30/53	.	hmmpanther:PTHR18866,hmmpanther:PTHR18866:SF84,Pfam_domain:PF08326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGCCCGCAC	.	5	BLCA
EP400	0	.	GRCh37	12	132466879	132466879	+	Missense_Mutation	SNP	G	G	C	rs200420978	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1785G>C	p.Lys595Asn	p.K595N	ENST00000389561	5/53	64	49	14	75	75	0	EP400,missense_variant,p.Lys594Asn,ENST00000389562,;EP400,missense_variant,p.Lys558Asn,ENST00000332482,;EP400,missense_variant,p.Lys595Asn,ENST00000389561,;EP400,missense_variant,p.Lys631Asn,ENST00000333577,;EP400,missense_variant,p.Lys595Asn,ENST00000330386,;	C	ENSG00000183495	ENST00000389561	Transcript	missense_variant	1894	1785	595	K/N	aaG/aaC	rs200420978	.	.	1	EP400	HGNC	11958	protein_coding	YES	CCDS31929.2	ENSP00000374212	EP400_HUMAN	.	UPI00004566BC	.	.	unknown(0)	5/53	.	hmmpanther:PTHR10799:SF599,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGAAGACTCA	byCluster	5	BLCA
NELL2	0	.	GRCh37	12	44902652	44902652	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*65G>C	.	.	ENST00000437801	21/21	19	15	4	16	16	0	NELL2,3_prime_UTR_variant,,ENST00000551601,;NELL2,3_prime_UTR_variant,,ENST00000333837,;NELL2,3_prime_UTR_variant,,ENST00000549027,;NELL2,3_prime_UTR_variant,,ENST00000429094,;NELL2,3_prime_UTR_variant,,ENST00000437801,;NELL2,3_prime_UTR_variant,,ENST00000452445,;NELL2,3_prime_UTR_variant,,ENST00000395487,;	G	ENSG00000184613	ENST00000437801	Transcript	3_prime_UTR_variant	3038	.	.	.	.	.	.	.	-1	NELL2	HGNC	7751	protein_coding	YES	CCDS44863.1	ENSP00000416341	NELL2_HUMAN	F8W1I8_HUMAN,F8W1A2_HUMAN,F8VRQ0_HUMAN	UPI000191537D	.	.	.	21/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTAACTTCTT	.	5	BLCA
KMT2D	0	.	GRCh37	12	49427498	49427502	+	Frame_Shift_Del	DEL	GTGCC	GTGCC	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	GTGCC	GTGCC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10986_10990delGGCAC	p.Met3662IlefsTer11	p.M3662Ifs*11	ENST00000301067	39/54	46	36	10	34	34	0	KMT2D,frameshift_variant,p.Met3662IlefsTer11,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000549799,;KMT2D,downstream_gene_variant,,ENST00000549743,;KMT2D,upstream_gene_variant,,ENST00000552391,;	-	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	10986-10990	10986-10990	3662-3664	MAL/IX	atGGCACta/atta	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	39/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	CAGGTAGTGCCATACC	.	2	BLCA
METTL7B	0	.	GRCh37	12	56077752	56077752	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.654C>T	p.%3D	p.S218S	ENST00000394252	2/2	60	43	16	92	92	0	METTL7B,synonymous_variant,p.%3D,ENST00000394252,;ITGA7,downstream_gene_variant,,ENST00000452168,;ITGA7,downstream_gene_variant,,ENST00000257879,;ITGA7,downstream_gene_variant,,ENST00000394230,;ITGA7,downstream_gene_variant,,ENST00000555728,;ITGA7,downstream_gene_variant,,ENST00000553804,;ITGA7,downstream_gene_variant,,ENST00000257880,;ITGA7,downstream_gene_variant,,ENST00000557555,;ITGA7,downstream_gene_variant,,ENST00000347027,;ITGA7,downstream_gene_variant,,ENST00000394229,;ITGA7,downstream_gene_variant,,ENST00000554327,;	T	ENSG00000170439	ENST00000394252	Transcript	synonymous_variant	863	654	218	S	tcC/tcT	COSM941354,COSM1586588	.	.	1	METTL7B	HGNC	28276	protein_coding	YES	CCDS8887.2	ENSP00000377796	MET7B_HUMAN	.	UPI00003D3047	.	.	.	2/2	.	Superfamily_domains:SSF53335,Gene3D:3.40.50.150,hmmpanther:PTHR10108,hmmpanther:PTHR10108:SF758	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.E169K|c.505G>A|3,CODON|p.E219K|c.655G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTCCGAAAT	.	5	BLCA
B4GALNT1	0	.	GRCh37	12	58022862	58022862	+	Silent	SNP	C	C	A	rs747840275	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.780G>T	p.%3D	p.R260R	ENST00000341156	7/11	18	12	6	34	34	0	B4GALNT1,synonymous_variant,p.%3D,ENST00000341156,;B4GALNT1,synonymous_variant,p.%3D,ENST00000418555,;B4GALNT1,intron_variant,,ENST00000449184,;B4GALNT1,downstream_gene_variant,,ENST00000548888,;SLC26A10,downstream_gene_variant,,ENST00000379218,;B4GALNT1,downstream_gene_variant,,ENST00000551220,;B4GALNT1,upstream_gene_variant,,ENST00000547741,;B4GALNT1,downstream_gene_variant,,ENST00000552350,;B4GALNT1,downstream_gene_variant,,ENST00000550764,;SLC26A10,downstream_gene_variant,,ENST00000320442,;SLC26A10,downstream_gene_variant,,ENST00000483647,;B4GALNT1,downstream_gene_variant,,ENST00000550943,;SLC26A10,downstream_gene_variant,,ENST00000490243,;B4GALNT1,3_prime_UTR_variant,,ENST00000552798,;B4GALNT1,3_prime_UTR_variant,,ENST00000549391,;B4GALNT1,non_coding_transcript_exon_variant,,ENST00000553142,;B4GALNT1,non_coding_transcript_exon_variant,,ENST00000552468,;SLC26A10,downstream_gene_variant,,ENST00000487816,;B4GALNT1,downstream_gene_variant,,ENST00000551925,;B4GALNT1,downstream_gene_variant,,ENST00000548487,;B4GALNT1,downstream_gene_variant,,ENST00000552219,;SLC26A10,downstream_gene_variant,,ENST00000474791,;SLC26A10,downstream_gene_variant,,ENST00000440686,;SLC26A10,downstream_gene_variant,,ENST00000474359,;	A	ENSG00000135454	ENST00000341156	Transcript	synonymous_variant	1365	780	260	R	cgG/cgT	rs747840275	.	.	-1	B4GALNT1	HGNC	4117	protein_coding	YES	CCDS8950.1	ENSP00000341562	B4GN1_HUMAN	F8VW33_HUMAN,F8VU35_HUMAN,F8VR44_HUMAN,F8TDK4_HUMAN	UPI0000126DD5	.	.	.	7/11	.	hmmpanther:PTHR15046,hmmpanther:PTHR15046:SF1,PIRSF_domain:PIRSF000474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACAGCCGAGG	byFrequency	5	BLCA
C1S	0	.	GRCh37	12	7177629	7177629	+	Missense_Mutation	SNP	C	C	T	rs373197181	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1741C>T	p.Arg581Cys	p.R581C	ENST00000406697	15/15	36	23	12	48	48	0	C1S,missense_variant,p.Arg581Cys,ENST00000328916,;C1S,missense_variant,p.Arg581Cys,ENST00000360817,;C1S,missense_variant,p.Arg581Cys,ENST00000406697,;C1S,missense_variant,p.Arg414Cys,ENST00000402681,;C1S,downstream_gene_variant,,ENST00000542978,;C1S,downstream_gene_variant,,ENST00000495061,;C1S,3_prime_UTR_variant,,ENST00000443875,;C1S,downstream_gene_variant,,ENST00000461983,;C1S,downstream_gene_variant,,ENST00000463798,;C1S,downstream_gene_variant,,ENST00000495053,;C1S,downstream_gene_variant,,ENST00000497061,;C1S,downstream_gene_variant,,ENST00000473545,;C1S,downstream_gene_variant,,ENST00000470326,;	T	ENSG00000182326	ENST00000406697	Transcript	missense_variant	2369	1741	581	R/C	Cgc/Tgc	rs373197181,COSM4044667	.	.	1	C1S	HGNC	1247	protein_coding	YES	CCDS31735.1	ENSP00000385035	C1S_HUMAN	F8WCZ6_HUMAN,F5H7T4_HUMAN,C9JY52_HUMAN,C9IZP8_HUMAN,B5MCV4_HUMAN	UPI0000126BF6	.	tolerated(0.18)	possibly_damaging(0.806)	15/15	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24265,hmmpanther:PTHR24265:SF24,Pfam_domain:PF00089,Gene3D:2.40.10.10,PIRSF_domain:PIRSF001155,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CTGTTCGCCTC	byFrequency|byCluster	4	BLCA
DUSP6	0	.	GRCh37	12	89744426	89744426	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.777C>T	p.%3D	p.P259P	ENST00000279488	2/3	149	115	33	128	128	0	DUSP6,synonymous_variant,p.%3D,ENST00000279488,;DUSP6,synonymous_variant,p.%3D,ENST00000547291,;DUSP6,intron_variant,,ENST00000308385,;DUSP6,downstream_gene_variant,,ENST00000548755,;DUSP6,non_coding_transcript_exon_variant,,ENST00000547140,;	A	ENSG00000139318	ENST00000279488	Transcript	synonymous_variant	2009	777	259	P	ccC/ccT	.	.	.	-1	DUSP6	HGNC	3072	protein_coding	YES	CCDS9033.1	ENSP00000279488	DUS6_HUMAN	F8VZA4_HUMAN	UPI000013ED2F	.	.	.	2/3	.	PROSITE_profiles:PS50054,hmmpanther:PTHR10159,hmmpanther:PTHR10159:SF45,Gene3D:3.90.190.10,Pfam_domain:PF00782,PIRSF_domain:PIRSF000939,SMART_domains:SM00195,Superfamily_domains:SSF52799,Prints_domain:PR01764	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGATGGGGAT	.	5	BLCA
SOX1	0	.	GRCh37	13	112722279	112722279	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307G>T	p.Glu103Ter	p.E103*	ENST00000330949	1/1	41	31	10	57	57	0	SOX1,stop_gained,p.Glu103Ter,ENST00000330949,;	T	ENSG00000182968	ENST00000330949	Transcript	stop_gained	367	307	103	E/*	Gag/Tag	.	.	.	1	SOX1	HGNC	11189	protein_coding	YES	CCDS9523.1	ENSP00000330218	SOX1_HUMAN	.	UPI0000190FB0	.	.	.	1/1	.	PROSITE_profiles:PS50118,hmmpanther:PTHR10270,hmmpanther:PTHR10270:SF40,Pfam_domain:PF00505,Gene3D:1.10.30.10,SMART_domains:SM00398,Superfamily_domains:SSF47095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGACGAGGCC	.	5	BLCA
TPTE2	0	.	GRCh37	13	19999122	19999122	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1431C>A	p.Phe477Leu	p.F477L	ENST00000400230	19/20	18	15	3	16	16	0	TPTE2,missense_variant,p.Phe477Leu,ENST00000382977,;TPTE2,missense_variant,p.Phe400Leu,ENST00000255310,;TPTE2,missense_variant,p.Phe366Leu,ENST00000457266,;TPTE2,missense_variant,p.Phe437Leu,ENST00000382975,;TPTE2,missense_variant,p.Phe437Leu,ENST00000382978,;TPTE2,missense_variant,p.Phe400Leu,ENST00000390680,;TPTE2,missense_variant,p.Phe366Leu,ENST00000400103,;TPTE2,missense_variant,p.Phe477Leu,ENST00000400230,;TPTE2,3_prime_UTR_variant,,ENST00000462409,;	T	ENSG00000132958	ENST00000400230	Transcript	missense_variant	1476	1431	477	F/L	ttC/ttA	.	.	.	-1	TPTE2	HGNC	17299	protein_coding	YES	CCDS45014.1	ENSP00000383089	TPTE2_HUMAN	.	UPI000040738D	.	deleterious(0)	possibly_damaging(0.7)	19/20	.	PROSITE_profiles:PS51182,hmmpanther:PTHR12305,Gene3D:1d5rA02,Pfam_domain:PF10409,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGAAGAAAAA	.	2	BLCA
CKAP2	0	.	GRCh37	13	53039686	53039686	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479+86G>C	.	.	ENST00000378037	.	19	16	3	15	15	0	CKAP2,3_prime_UTR_variant,,ENST00000378034,;CKAP2,intron_variant,,ENST00000378037,;CKAP2,intron_variant,,ENST00000490903,;CKAP2,intron_variant,,ENST00000258607,;CKAP2,downstream_gene_variant,,ENST00000480747,;CKAP2,downstream_gene_variant,,ENST00000468284,;	C	ENSG00000136108	ENST00000378037	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CKAP2	HGNC	1990	protein_coding	YES	CCDS41893.1	ENSP00000367276	CKAP2_HUMAN	C9J7Y4_HUMAN,C9J649_HUMAN	UPI000006DA2D	.	.	.	.	6/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTGAGAAAAT	.	2	BLCA
BTBD6	0	.	GRCh37	14	105716181	105716181	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630C>T	p.%3D	p.V210V	ENST00000392554	4/4	22	17	4	30	30	0	BTBD6,synonymous_variant,p.%3D,ENST00000536364,;BTBD6,synonymous_variant,p.%3D,ENST00000392554,;BTBD6,synonymous_variant,p.%3D,ENST00000537513,;BTBD6,synonymous_variant,p.%3D,ENST00000327471,;BTBD6,synonymous_variant,p.%3D,ENST00000463376,;BRF1,intron_variant,,ENST00000379937,;BRF1,intron_variant,,ENST00000546417,;BRF1,intron_variant,,ENST00000546474,;BRF1,intron_variant,,ENST00000327359,;BRF1,intron_variant,,ENST00000440513,;BRF1,upstream_gene_variant,,ENST00000550208,;BRF1,upstream_gene_variant,,ENST00000550375,;BRF1,downstream_gene_variant,,ENST00000550692,;BRF1,upstream_gene_variant,,ENST00000552127,;BRF1,upstream_gene_variant,,ENST00000392557,;BRF1,upstream_gene_variant,,ENST00000446501,;BRF1,upstream_gene_variant,,ENST00000551787,;BRF1,upstream_gene_variant,,ENST00000379932,;BTBD6,non_coding_transcript_exon_variant,,ENST00000392553,;	T	ENSG00000184887	ENST00000392554	Transcript	synonymous_variant	927	630	210	V	gtC/gtT	.	.	.	1	BTBD6	HGNC	19897	protein_coding	YES	CCDS10002.2	ENSP00000376337	BTBD6_HUMAN	F8VPC8_HUMAN	UPI00001FDD27	.	.	.	4/4	.	hmmpanther:PTHR24413:SF4,hmmpanther:PTHR24413,Pfam_domain:PF07707,SMART_domains:SM00875	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGTCATTGA	.	5	BLCA
KTN1	0	.	GRCh37	14	56133956	56133956	+	Intron	SNP	T	T	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3178-3T>G	.	.	ENST00000395314	.	68	42	25	53	53	0	KTN1,splice_region_variant,,ENST00000395308,;KTN1,splice_region_variant,,ENST00000553624,;KTN1,splice_region_variant,,ENST00000438792,;KTN1,splice_region_variant,,ENST00000395309,;KTN1,splice_region_variant,,ENST00000413890,;KTN1,splice_region_variant,,ENST00000555573,;KTN1,splice_region_variant,,ENST00000554507,;KTN1,splice_region_variant,,ENST00000395311,;KTN1,splice_region_variant,,ENST00000395314,;KTN1,splice_region_variant,,ENST00000416613,;KTN1,downstream_gene_variant,,ENST00000554570,;KTN1,splice_region_variant,,ENST00000555172,;KTN1,splice_region_variant,,ENST00000459737,;KTN1,upstream_gene_variant,,ENST00000334975,;KTN1,upstream_gene_variant,,ENST00000556631,;KTN1,upstream_gene_variant,,ENST00000555506,;	G	ENSG00000126777	ENST00000395314	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	KTN1	HGNC	6467	protein_coding	YES	CCDS41957.1	ENSP00000378725	KTN1_HUMAN	Q5GGW3_HUMAN,G3V5P0_HUMAN,G3V4L8_HUMAN,G3V475_HUMAN	UPI0000190F88	.	.	.	.	33/43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTTAGGAA	.	4	BLCA
TRMT5	0	.	GRCh37	14	61442367	61442367	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1270G>C	p.Asp424His	p.D424H	ENST00000261249	4/5	62	34	28	66	66	0	TRMT5,missense_variant,p.Asp424His,ENST00000261249,;TRMT5,downstream_gene_variant,,ENST00000555420,;TRMT5,downstream_gene_variant,,ENST00000553903,;RNU6-398P,downstream_gene_variant,,ENST00000384143,;RP11-193F5.1,intron_variant,,ENST00000553946,;RP11-193F5.4,upstream_gene_variant,,ENST00000556317,;	G	ENSG00000126814	ENST00000261249	Transcript	missense_variant	1655	1270	424	D/H	Gat/Cat	.	.	.	-1	TRMT5	HGNC	23141	protein_coding	YES	CCDS32092.1	ENSP00000261249	TRM5_HUMAN	.	UPI000016003D	.	tolerated(0.38)	benign(0.005)	4/5	.	Superfamily_domains:SSF53335,Gene3D:3.40.50.150,hmmpanther:PTHR23245:SF25,hmmpanther:PTHR23245,PROSITE_profiles:PS51684,HAMAP:MF_03152	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCATCTTTGG	.	5	BLCA
TRMT5	0	.	GRCh37	14	61442508	61442508	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129G>C	p.Glu377Gln	p.E377Q	ENST00000261249	4/5	94	68	26	84	84	0	TRMT5,missense_variant,p.Glu377Gln,ENST00000261249,;TRMT5,downstream_gene_variant,,ENST00000555420,;TRMT5,downstream_gene_variant,,ENST00000553903,;RNU6-398P,downstream_gene_variant,,ENST00000384143,;RP11-193F5.1,intron_variant,,ENST00000553946,;RP11-193F5.4,upstream_gene_variant,,ENST00000556317,;	G	ENSG00000126814	ENST00000261249	Transcript	missense_variant	1514	1129	377	E/Q	Gaa/Caa	.	.	.	-1	TRMT5	HGNC	23141	protein_coding	YES	CCDS32092.1	ENSP00000261249	TRM5_HUMAN	.	UPI000016003D	.	deleterious(0.04)	possibly_damaging(0.61)	4/5	.	Superfamily_domains:SSF53335,Gene3D:3.40.50.150,Pfam_domain:PF02475,hmmpanther:PTHR23245:SF25,hmmpanther:PTHR23245,PROSITE_profiles:PS51684,HAMAP:MF_03152	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCTTTTG	.	5	BLCA
BATF	0	.	GRCh37	14	75988998	75988998	+	5'UTR	SNP	G	G	C	rs192279420	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28G>C	.	.	ENST00000286639	1/3	26	21	5	35	35	0	BATF,5_prime_UTR_variant,,ENST00000286639,;BATF,5_prime_UTR_variant,,ENST00000555504,;BATF,intron_variant,,ENST00000555795,;	C	ENSG00000156127	ENST00000286639	Transcript	5_prime_UTR_variant	231	.	.	.	.	rs192279420	.	.	1	BATF	HGNC	958	protein_coding	YES	CCDS9843.1	ENSP00000286639	BATF_HUMAN	.	UPI0000073D64	.	.	.	1/3	.	.	C:0.0002	C:0	C:0	.	C:0.001	C:0	C:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCTGAGTGT	byCluster|by1000G	2	BLCA
IFT140	0	.	GRCh37	16	1642250	1642250	+	Missense_Mutation	SNP	C	C	A	rs139286030	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561G>T	p.Lys187Asn	p.K187N	ENST00000426508	6/31	72	50	22	83	83	0	IFT140,missense_variant,p.Lys187Asn,ENST00000426508,;LA16c-395F10.2,intron_variant,,ENST00000563162,;IFT140,non_coding_transcript_exon_variant,,ENST00000439987,;IFT140,intron_variant,,ENST00000397417,;	A	ENSG00000187535	ENST00000426508	Transcript	missense_variant	925	561	187	K/N	aaG/aaT	rs139286030	.	.	-1	IFT140	HGNC	29077	protein_coding	YES	CCDS10439.1	ENSP00000406012	IF140_HUMAN	Q9UG52_HUMAN,H3BTA5_HUMAN,H3BNC5_HUMAN	UPI0000073C64	.	tolerated(0.07)	benign(0.003)	6/31	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15722	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.0009	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTTCCA	byCluster|by1000G	5	BLCA
ZP2	0	.	GRCh37	16	21213484	21213484	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1228C>T	p.Gln410Ter	p.Q410*	ENST00000574002	12/20	33	27	6	33	33	0	ZP2,stop_gained,p.Gln410Ter,ENST00000574091,;ZP2,stop_gained,p.Gln410Ter,ENST00000219593,;ZP2,stop_gained,p.Gln410Ter,ENST00000574002,;AF001550.7,intron_variant,,ENST00000572747,;ZP2,non_coding_transcript_exon_variant,,ENST00000573114,;ZP2,downstream_gene_variant,,ENST00000572752,;ZP2,downstream_gene_variant,,ENST00000576162,;	A	ENSG00000103310	ENST00000574002	Transcript	stop_gained	1711	1228	410	Q/*	Cag/Tag	.	.	.	-1	ZP2	HGNC	13188	protein_coding	YES	CCDS10596.1	ENSP00000460971	ZP2_HUMAN	.	UPI000013C45C	.	.	.	12/20	.	PROSITE_profiles:PS51034,hmmpanther:PTHR23343:SF4,hmmpanther:PTHR23343,Pfam_domain:PF00100,SMART_domains:SM00241	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGACTGAGCCT	.	5	BLCA
KDM8	0	.	GRCh37	16	27226311	27226311	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894C>G	p.Ser298Arg	p.S298R	ENST00000441782	4/8	32	22	10	49	49	0	KDM8,missense_variant,p.Ser298Arg,ENST00000441782,;KDM8,missense_variant,p.Ser260Arg,ENST00000286096,;KDM8,missense_variant,p.Ser7Arg,ENST00000567735,;KDM8,intron_variant,,ENST00000380948,;KDM8,intron_variant,,ENST00000568965,;KDM8,downstream_gene_variant,,ENST00000562733,;KDM8,downstream_gene_variant,,ENST00000569329,;CTD-3203P2.1,non_coding_transcript_exon_variant,,ENST00000567108,;KDM8,non_coding_transcript_exon_variant,,ENST00000567785,;KDM8,non_coding_transcript_exon_variant,,ENST00000567366,;KDM8,downstream_gene_variant,,ENST00000562269,;KDM8,non_coding_transcript_exon_variant,,ENST00000568792,;KDM8,non_coding_transcript_exon_variant,,ENST00000563571,;KDM8,downstream_gene_variant,,ENST00000564961,;	G	ENSG00000155666	ENST00000441782	Transcript	missense_variant	1012	894	298	S/R	agC/agG	.	.	.	1	KDM8	HGNC	25840	protein_coding	YES	CCDS45448.1	ENSP00000398410	KDM8_HUMAN	H3BR76_HUMAN,H3BM39_HUMAN,B4DPM6_HUMAN	UPI00017A73AE	.	tolerated(0.23)	benign(0.005)	4/8	.	hmmpanther:PTHR12461:SF11,hmmpanther:PTHR12461,Pfam_domain:PF13621,Gene3D:1vrbA01,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCAGCAAATA	.	5	BLCA
CREBBP	0	.	GRCh37	16	3808853	3808853	+	Splice_Site	SNP	A	A	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3369+2T>A	.	p.X1123_splice	ENST00000262367	.	44	33	11	62	62	0	CREBBP,splice_donor_variant,,ENST00000262367,;CREBBP,splice_donor_variant,,ENST00000382070,;CREBBP,splice_donor_variant,,ENST00000570939,;	T	ENSG00000005339	ENST00000262367	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	.	.	17/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTTACTGGA	.	5	BLCA
ANKS3	0	.	GRCh37	16	4747337	4747337	+	Missense_Mutation	SNP	T	T	A	rs141320697	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1891A>T	p.Met631Leu	p.M631L	ENST00000304283	16/18	69	64	5	74	74	0	ANKS3,missense_variant,p.Met631Leu,ENST00000304283,;ANKS3,missense_variant,p.Met502Leu,ENST00000446014,;ANKS3,missense_variant,p.Met558Leu,ENST00000585773,;ANKS3,downstream_gene_variant,,ENST00000586605,;ANKS3,downstream_gene_variant,,ENST00000592421,;NUDT16L1,downstream_gene_variant,,ENST00000590460,;NUDT16L1,downstream_gene_variant,,ENST00000586252,;ANKS3,downstream_gene_variant,,ENST00000588513,;NUDT16L1,downstream_gene_variant,,ENST00000304301,;ANKS3,downstream_gene_variant,,ENST00000450067,;ANKS3,downstream_gene_variant,,ENST00000586166,;NUDT16L1,downstream_gene_variant,,ENST00000586536,;ANKS3,downstream_gene_variant,,ENST00000592698,;NUDT16L1,downstream_gene_variant,,ENST00000405142,;ANKS3,3_prime_UTR_variant,,ENST00000592077,;ANKS3,3_prime_UTR_variant,,ENST00000590193,;ANKS3,non_coding_transcript_exon_variant,,ENST00000591653,;ANKS3,non_coding_transcript_exon_variant,,ENST00000591185,;ANKS3,non_coding_transcript_exon_variant,,ENST00000589035,;ANKS3,non_coding_transcript_exon_variant,,ENST00000590803,;ANKS3,downstream_gene_variant,,ENST00000592068,;ANKS3,downstream_gene_variant,,ENST00000588398,;ANKS3,downstream_gene_variant,,ENST00000590730,;ANKS3,downstream_gene_variant,,ENST00000592840,;	A	ENSG00000168096	ENST00000304283	Transcript	missense_variant	2186	1891	631	M/L	Atg/Ttg	rs141320697	.	.	-1	ANKS3	HGNC	29422	protein_coding	YES	CCDS10520.1	ENSP00000304586	ANKS3_HUMAN	K7ERR7_HUMAN,K7ERF3_HUMAN,K7EQE0_HUMAN,K7EKD2_HUMAN,K7EJY2_HUMAN,D3DUE4_HUMAN	UPI00001C08FE	.	tolerated_low_confidence(0.28)	benign(0.003)	16/18	.	hmmpanther:PTHR24184:SF6,hmmpanther:PTHR24184	G:0.0004	G:0	G:0	.	G:0	G:0.002	G:0	C:0.0002	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCCATCTCAC	byFrequency|byCluster|by1000G	2	BLCA
NLRC5	0	.	GRCh37	16	57059520	57059520	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.665G>A	p.Arg222Lys	p.R222K	ENST00000262510	6/49	115	84	31	99	99	0	NLRC5,missense_variant,p.Arg222Lys,ENST00000308149,;NLRC5,missense_variant,p.Arg222Lys,ENST00000539144,;NLRC5,missense_variant,p.Arg222Lys,ENST00000436936,;NLRC5,missense_variant,p.Arg222Lys,ENST00000262510,;NLRC5,upstream_gene_variant,,ENST00000543030,;NLRC5,upstream_gene_variant,,ENST00000538805,;NLRC5,upstream_gene_variant,,ENST00000538110,;NLRC5,downstream_gene_variant,,ENST00000544641,;NLRC5,downstream_gene_variant,,ENST00000538059,;NLRC5,missense_variant,p.Arg222Lys,ENST00000539881,;NLRC5,downstream_gene_variant,,ENST00000538273,;NLRC5,upstream_gene_variant,,ENST00000536231,;NLRC5,upstream_gene_variant,,ENST00000545081,;	A	ENSG00000140853	ENST00000262510	Transcript	missense_variant	890	665	222	R/K	aGg/aAg	.	.	.	1	NLRC5	HGNC	29933	protein_coding	YES	CCDS10773.1	ENSP00000262510	NLRC5_HUMAN	F5H274_HUMAN,F5GYP0_HUMAN	UPI00001AEE94	.	tolerated(0.38)	benign(0.051)	6/49	.	PROSITE_profiles:PS50837,hmmpanther:PTHR24106:SF69,hmmpanther:PTHR24106,Pfam_domain:PF05729,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGAGGGTGA	.	5	BLCA
MBTPS1	0	.	GRCh37	16	84092935	84092935	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2803C>G	p.Pro935Ala	p.P935A	ENST00000343411	21/23	32	21	10	47	47	0	MBTPS1,missense_variant,p.Pro935Ala,ENST00000343411,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000561936,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000564049,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000570064,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000562886,;MBTPS1,upstream_gene_variant,,ENST00000562906,;	C	ENSG00000140943	ENST00000343411	Transcript	missense_variant	3299	2803	935	P/A	Cca/Gca	.	.	.	-1	MBTPS1	HGNC	15456	protein_coding	YES	CCDS10941.1	ENSP00000344223	MBTP1_HUMAN	H3BV53_HUMAN	UPI0000033348	.	deleterious(0.04)	benign(0.062)	21/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTGGCTTGG	.	5	BLCA
MBTPS1	0	.	GRCh37	16	84092936	84092936	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2802G>A	p.%3D	p.K934K	ENST00000343411	21/23	34	23	10	47	47	0	MBTPS1,synonymous_variant,p.%3D,ENST00000343411,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000561936,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000564049,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000570064,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000562886,;MBTPS1,upstream_gene_variant,,ENST00000562906,;	T	ENSG00000140943	ENST00000343411	Transcript	synonymous_variant	3298	2802	934	K	aaG/aaA	.	.	.	-1	MBTPS1	HGNC	15456	protein_coding	YES	CCDS10941.1	ENSP00000344223	MBTP1_HUMAN	H3BV53_HUMAN	UPI0000033348	.	.	.	21/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGGCTTGGC	.	5	BLCA
MYH1	0	.	GRCh37	17	10405120	10405120	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3220G>C	p.Glu1074Gln	p.E1074Q	ENST00000226207	25/40	43	33	10	49	49	0	MYH1,missense_variant,p.Glu1074Gln,ENST00000226207,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;	G	ENSG00000109061	ENST00000226207	Transcript	missense_variant	3315	3220	1074	E/Q	Gaa/Caa	COSM4063850	.	.	-1	MYH1	HGNC	7567	protein_coding	YES	CCDS11155.1	ENSP00000226207	MYH1_HUMAN	.	UPI000013C891	.	deleterious(0.02)	probably_damaging(1)	25/40	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF264,Pfam_domain:PF01576,Superfamily_domains:SSF90257,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTTTCTATAT	.	5	BLCA
GPR179	0	.	GRCh37	17	36483543	36483543	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5909C>A	p.Ser1970Tyr	p.S1970Y	ENST00000342292	11/11	30	19	11	38	38	0	GPR179,missense_variant,p.Ser1970Tyr,ENST00000342292,;MRPL45,downstream_gene_variant,,ENST00000312513,;GPR179,intron_variant,,ENST00000584976,;MRPL45,downstream_gene_variant,,ENST00000579911,;	T	ENSG00000188888	ENST00000342292	Transcript	missense_variant	5930	5909	1970	S/Y	tCt/tAt	.	.	.	-1	GPR179	HGNC	31371	protein_coding	YES	CCDS42308.1	ENSP00000345060	GP179_HUMAN	.	UPI000041A9C2	.	tolerated(0.38)	possibly_damaging(0.51)	11/11	.	hmmpanther:PTHR32546:SF7,hmmpanther:PTHR32546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGAGAGACG	.	5	BLCA
ABCC3	0	.	GRCh37	17	48745185	48745185	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1636-39C>T	.	.	ENST00000285238	.	19	15	4	16	16	0	ABCC3,missense_variant,p.His568Tyr,ENST00000427699,;ABCC3,intron_variant,,ENST00000285238,;ABCC3,downstream_gene_variant,,ENST00000513589,;ABCC3,upstream_gene_variant,,ENST00000503304,;ABCC3,intron_variant,,ENST00000502426,;ABCC3,intron_variant,,ENST00000505699,;ABCC3,downstream_gene_variant,,ENST00000571855,;ABCC3,downstream_gene_variant,,ENST00000515585,;ABCC3,downstream_gene_variant,,ENST00000515070,;	T	ENSG00000108846	ENST00000285238	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ABCC3	HGNC	54	protein_coding	YES	CCDS32681.1	ENSP00000285238	MRP3_HUMAN	Q96QA9_HUMAN,Q2M3C9_HUMAN	UPI000004B145	.	.	.	.	12/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCTCATTGG	.	2	BLCA
AKAP1	0	.	GRCh37	17	55184152	55184152	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327C>T	p.%3D	p.L443L	ENST00000337714	2/11	34	25	9	41	41	0	AKAP1,synonymous_variant,p.%3D,ENST00000314126,;AKAP1,synonymous_variant,p.%3D,ENST00000571629,;AKAP1,synonymous_variant,p.%3D,ENST00000337714,;AKAP1,synonymous_variant,p.%3D,ENST00000572557,;AKAP1,synonymous_variant,p.%3D,ENST00000539273,;AKAP1,intron_variant,,ENST00000576295,;AKAP1,downstream_gene_variant,,ENST00000575322,;AKAP1,downstream_gene_variant,,ENST00000574683,;AKAP1,downstream_gene_variant,,ENST00000575186,;AKAP1,downstream_gene_variant,,ENST00000576591,;AKAP1,downstream_gene_variant,,ENST00000573085,;AKAP1,downstream_gene_variant,,ENST00000572156,;AKAP1,downstream_gene_variant,,ENST00000572814,;AKAP1,downstream_gene_variant,,ENST00000570423,;AKAP1,synonymous_variant,p.%3D,ENST00000573326,;AKAP1,synonymous_variant,p.%3D,ENST00000481416,;	T	ENSG00000121057	ENST00000337714	Transcript	synonymous_variant	1560	1327	443	L	Ctg/Ttg	.	.	.	1	AKAP1	HGNC	367	protein_coding	YES	CCDS11594.1	ENSP00000337736	AKAP1_HUMAN	I3L3L9_HUMAN,I3L3K1_HUMAN,I3L364_HUMAN,I3L2N7_HUMAN,I3L2A2_HUMAN,I3L0K6_HUMAN	UPI0000125778	.	.	.	2/11	.	hmmpanther:PTHR12727	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCTGTCC	.	5	BLCA
AKAP1	0	.	GRCh37	17	55184265	55184265	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440C>G	p.Ile480Met	p.I480M	ENST00000337714	2/11	86	61	25	89	89	0	AKAP1,missense_variant,p.Ile480Met,ENST00000314126,;AKAP1,missense_variant,p.Ile480Met,ENST00000571629,;AKAP1,missense_variant,p.Ile480Met,ENST00000337714,;AKAP1,missense_variant,p.Ile480Met,ENST00000572557,;AKAP1,missense_variant,p.Ile480Met,ENST00000539273,;AKAP1,intron_variant,,ENST00000576295,;AKAP1,downstream_gene_variant,,ENST00000575322,;AKAP1,downstream_gene_variant,,ENST00000574683,;AKAP1,downstream_gene_variant,,ENST00000575186,;AKAP1,downstream_gene_variant,,ENST00000576591,;AKAP1,downstream_gene_variant,,ENST00000573085,;AKAP1,downstream_gene_variant,,ENST00000572156,;AKAP1,downstream_gene_variant,,ENST00000572814,;AKAP1,downstream_gene_variant,,ENST00000570423,;AKAP1,missense_variant,p.Ile62Met,ENST00000573326,;AKAP1,missense_variant,p.Ile480Met,ENST00000481416,;	G	ENSG00000121057	ENST00000337714	Transcript	missense_variant	1673	1440	480	I/M	atC/atG	.	.	.	1	AKAP1	HGNC	367	protein_coding	YES	CCDS11594.1	ENSP00000337736	AKAP1_HUMAN	I3L3L9_HUMAN,I3L3K1_HUMAN,I3L364_HUMAN,I3L2N7_HUMAN,I3L2A2_HUMAN,I3L0K6_HUMAN	UPI0000125778	.	tolerated(0.16)	benign(0.416)	2/11	.	hmmpanther:PTHR12727	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCATCCTGGT	.	5	BLCA
SEPT4	0	.	GRCh37	17	56603055	56603055	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583+1G>A	.	p.X195_splice	ENST00000457347	.	60	44	15	51	51	0	SEPT4,splice_donor_variant,,ENST00000579371,;SEPT4,splice_donor_variant,,ENST00000426861,;SEPT4,splice_donor_variant,,ENST00000583291,;SEPT4,splice_donor_variant,,ENST00000457347,;SEPT4,splice_donor_variant,,ENST00000580809,;SEPT4,splice_donor_variant,,ENST00000317256,;SEPT4,splice_donor_variant,,ENST00000583114,;SEPT4,splice_donor_variant,,ENST00000412945,;SEPT4,splice_donor_variant,,ENST00000577729,;SEPT4,splice_donor_variant,,ENST00000393086,;SEPT4,splice_donor_variant,,ENST00000317268,;SEPT4,splice_donor_variant,,ENST00000580844,;SEPT4,downstream_gene_variant,,ENST00000581607,;RP11-112H10.4,splice_region_variant,,ENST00000580589,;RP11-112H10.4,non_coding_transcript_exon_variant,,ENST00000580769,;RP11-112H10.4,non_coding_transcript_exon_variant,,ENST00000578022,;SEPT4,downstream_gene_variant,,ENST00000584528,;SEPT4,downstream_gene_variant,,ENST00000580740,;SEPT4,downstream_gene_variant,,ENST00000580791,;SEPT4,downstream_gene_variant,,ENST00000581921,;SEPT4,splice_donor_variant,,ENST00000581615,;SEPT4,splice_donor_variant,,ENST00000580796,;SEPT4,splice_donor_variant,,ENST00000583273,;SEPT4,splice_donor_variant,,ENST00000582270,;SEPT4,splice_donor_variant,,ENST00000584789,;SEPT4,splice_donor_variant,,ENST00000584488,;SEPT4,splice_donor_variant,,ENST00000577440,;SEPT4,splice_donor_variant,,ENST00000578131,;SEPT4,non_coding_transcript_exon_variant,,ENST00000585170,;SEPT4,downstream_gene_variant,,ENST00000582248,;SEPT4,downstream_gene_variant,,ENST00000582976,;SEPT4,downstream_gene_variant,,ENST00000578747,;	T	ENSG00000108387	ENST00000457347	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	SEPT4	HGNC	9165	protein_coding	YES	CCDS58582.1	ENSP00000402000	SEPT4_HUMAN	.	UPI00017A809C	.	.	.	.	5/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTACCTTCA	.	5	BLCA
TP53	0	.	GRCh37	17	7577085	7577085	+	Missense_Mutation	SNP	C	C	T	rs112431538	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>A	p.Glu285Lys	p.E285K	ENST00000269305	8/11	29	17	12	48	48	0	TP53,missense_variant,p.Glu285Lys,ENST00000420246,;TP53,missense_variant,p.Glu285Lys,ENST00000269305,;TP53,missense_variant,p.Glu153Lys,ENST00000509690,;TP53,missense_variant,p.Glu285Lys,ENST00000359597,;TP53,missense_variant,p.Glu285Lys,ENST00000445888,;TP53,missense_variant,p.Glu285Lys,ENST00000455263,;TP53,intron_variant,,ENST00000413465,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000514944,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	1043	853	285	E/K	Gag/Aag	CM995136,rs112431538,TP53_g.13833G>A,TP53_g.13833del,TP53_g.13833G>C,TP53_g.13833G>T,COSM44388,COSM10722,COSM45138,COSM45600,COSM137087,COSM254990,COSM3717625,COSM3932742,COSM1649345,COSM1649344	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(0.985)	8/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E285K|c.853G>A|19,SITE|p.E285K|c.853G>A|114,SITE|p.E285K|c.853G>A|5,SITE|p.E285K|c.853G>A|9,CODON|p.0?|c.1_1182del1182|6,CODON|p.E285E|c.855G>A|3,CODON|p.E285V|c.854A>T|3,CODON|p.E285G|c.854A>G|4,CODON|p.E285V|c.854A>T|17,CODON|p.E285V|c.854A>T|4,BUFFER|p.N288fs*13|c.859_872del14|17,BUFFER|p.N288S|c.863A>G|6,BUFFER|p.N288Y|c.862A>T|3,BUFFER|p.E287E|c.861G>A|5,BUFFER|p.E287K|c.859G>A|6,BUFFER|p.E287*|c.859G>T|3,BUFFER|p.E287*|c.859G>T|12,BUFFER|p.E286E|c.858A>G|3,BUFFER|p.E286G|c.857A>G|4,BUFFER|p.E286V|c.857A>T|9,BUFFER|p.E286G|c.857A>G|18,BUFFER|p.E286*|c.856G>T|17,BUFFER|p.E286K|c.856G>A|14,BUFFER|p.E286K|c.856G>A|10,BUFFER|p.E286K|c.856G>A|23,BUFFER|p.E286K|c.856G>A|75,BUFFER|p.E286Q|c.856G>C|6,BUFFER|p.E286*|c.856G>T|3,BUFFER|p.E285*|c.853G>T|5,BUFFER|p.E285*|c.853G>T|9,BUFFER|p.E285Q|c.853G>C|4,BUFFER|p.E285*|c.853G>T|25,BUFFER|p.T284T|c.852A>T|3,BUFFER|p.T284A|c.850A>G|3,BUFFER|p.T284P|c.850A>C|8,BUFFER|p.R283fs*62|c.847delC|3,BUFFER|p.R283P|c.848G>C|4,BUFFER|p.R283H|c.848G>A|12,BUFFER|p.R283L|c.848G>T|4,BUFFER|p.R283P|c.848G>C|24,BUFFER|p.R283C|c.847C>T|19,BUFFER|p.R282R|c.846G>A|4,BUFFER|p.R282Q|c.845G>A|5,BUFFER|p.R282Q|c.845G>A|26,BUFFER|p.R282L|c.845G>T|3,BUFFER|p.R282Q|c.845G>A|3,BUFFER|p.R282P|c.845G>C|17,BUFFER|p.R282W|c.843_844CC>TT|10,BUFFER|p.R282G|c.844C>G|5,BUFFER|p.R282W|c.844C>T|49,BUFFER|p.R282G|c.844C>G|3,BUFFER|p.R282R|c.844C>A|3,BUFFER|p.R282W|c.844C>T|86,BUFFER|p.R282G|c.844C>G|29,BUFFER|p.R282W|c.844C>T|450,BUFFER|p.R282W|c.844C>T|58,BUFFER|p.D281D|c.843C>T|5,BUFFER|p.D281E|c.843C>A|3,BUFFER|p.D281E|c.843C>G|20,BUFFER|p.D281E|c.843C>A|3,BUFFER|p.D281E|c.843C>A|12,BUFFER|p.D281V|c.842A>T|5,BUFFER|p.D281G|c.842A>G|10	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCCTCTGTGC	byCluster	5	BLCA
CEP192	0	.	GRCh37	18	13087598	13087598	+	Silent	SNP	T	T	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5946T>A	p.%3D	p.T1982T	ENST00000506447	32/45	101	74	26	81	81	0	CEP192,synonymous_variant,p.%3D,ENST00000325971,;CEP192,synonymous_variant,p.%3D,ENST00000430049,;CEP192,synonymous_variant,p.%3D,ENST00000506447,;CEP192,synonymous_variant,p.%3D,ENST00000511820,;CEP192,non_coding_transcript_exon_variant,,ENST00000507254,;CEP192,non_coding_transcript_exon_variant,,ENST00000540847,;CEP192,synonymous_variant,p.%3D,ENST00000510237,;CEP192,synonymous_variant,p.%3D,ENST00000589993,;CEP192,3_prime_UTR_variant,,ENST00000513432,;CEP192,intron_variant,,ENST00000508150,;	A	ENSG00000101639	ENST00000506447	Transcript	synonymous_variant	6026	5946	1982	T	acT/acA	.	.	.	1	CEP192	HGNC	25515	protein_coding	YES	CCDS32792.2	ENSP00000427550	.	E9PF99_HUMAN	UPI0001B09235	.	.	.	32/45	.	hmmpanther:PTHR16029:SF10,hmmpanther:PTHR16029	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAACTGTATA	.	5	BLCA
ATG4D	0	.	GRCh37	19	10659603	10659603	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859C>G	p.Leu287Val	p.L287V	ENST00000309469	6/10	40	31	8	30	30	0	ATG4D,missense_variant,p.Leu101Val,ENST00000586863,;ATG4D,missense_variant,p.Leu287Val,ENST00000309469,;ATG4D,missense_variant,p.Leu116Val,ENST00000587256,;ATG4D,intron_variant,,ENST00000540862,;ATG4D,downstream_gene_variant,,ENST00000586477,;ATG4D,upstream_gene_variant,,ENST00000585437,;KRI1,downstream_gene_variant,,ENST00000312962,;KRI1,downstream_gene_variant,,ENST00000361821,;ATG4D,upstream_gene_variant,,ENST00000588972,;RNU7-140P,downstream_gene_variant,,ENST00000459546,;MIR1238,upstream_gene_variant,,ENST00000408483,;ATG4D,missense_variant,p.Pro272Arg,ENST00000588857,;ATG4D,synonymous_variant,p.%3D,ENST00000588667,;ATG4D,3_prime_UTR_variant,,ENST00000586417,;ATG4D,non_coding_transcript_exon_variant,,ENST00000590096,;ATG4D,intron_variant,,ENST00000589753,;ATG4D,intron_variant,,ENST00000585752,;KRI1,downstream_gene_variant,,ENST00000536689,;KRI1,downstream_gene_variant,,ENST00000537363,;KRI1,downstream_gene_variant,,ENST00000478863,;	G	ENSG00000130734	ENST00000309469	Transcript	missense_variant	1032	859	287	L/V	Ctg/Gtg	.	.	.	1	ATG4D	HGNC	20789	protein_coding	YES	CCDS12241.1	ENSP00000311318	ATG4D_HUMAN	Q969K0_HUMAN,K7EKP6_HUMAN	UPI000000DCA0	.	tolerated(0.08)	possibly_damaging(0.863)	6/10	.	hmmpanther:PTHR22624,hmmpanther:PTHR22624:SF36,Pfam_domain:PF03416,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACGCCTGGTG	.	5	BLCA
PRKCSH	0	.	GRCh37	19	11559988	11559988	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1438A>C	p.Thr480Pro	p.T480P	ENST00000252455	16/18	49	39	10	44	44	0	PRKCSH,missense_variant,p.Thr477Pro,ENST00000587327,;PRKCSH,missense_variant,p.Thr480Pro,ENST00000589838,;PRKCSH,missense_variant,p.Thr477Pro,ENST00000412601,;PRKCSH,missense_variant,p.Thr477Pro,ENST00000591462,;PRKCSH,missense_variant,p.Thr487Pro,ENST00000592741,;PRKCSH,missense_variant,p.Thr480Pro,ENST00000252455,;ELAVL3,downstream_gene_variant,,ENST00000359227,;PRKCSH,upstream_gene_variant,,ENST00000591510,;PRKCSH,missense_variant,p.Thr152Pro,ENST00000586486,;PRKCSH,splice_region_variant,,ENST00000587290,;PRKCSH,splice_region_variant,,ENST00000592435,;PRKCSH,downstream_gene_variant,,ENST00000585325,;PRKCSH,downstream_gene_variant,,ENST00000592445,;PRKCSH,downstream_gene_variant,,ENST00000590098,;PRKCSH,downstream_gene_variant,,ENST00000589990,;PRKCSH,downstream_gene_variant,,ENST00000585540,;	C	ENSG00000130175	ENST00000252455	Transcript	missense_variant	1774	1438	480	T/P	Acc/Ccc	.	.	.	1	PRKCSH	HGNC	9411	protein_coding	YES	CCDS32911.1	ENSP00000252455	GLU2B_HUMAN	K7EPW7_HUMAN,K7EKX1_HUMAN,K7EJ70_HUMAN,K7EIP3_HUMAN	UPI000007007F	.	tolerated(0.07)	probably_damaging(0.91)	16/18	.	hmmpanther:PTHR12630,hmmpanther:PTHR12630:SF1,Pfam_domain:PF13015,Gene3D:2.70.130.10,Superfamily_domains:SSF50911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCACCACCGTG	.	4	BLCA
FBXW9	0	.	GRCh37	19	12805724	12805724	+	Silent	SNP	G	G	A	rs762766485	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438C>T	p.%3D	p.C146C	ENST00000393261	2/10	32	18	13	25	25	0	FBXW9,synonymous_variant,p.%3D,ENST00000393261,;FBXW9,synonymous_variant,p.%3D,ENST00000587955,;FBXW9,synonymous_variant,p.%3D,ENST00000380339,;FBXW9,intron_variant,,ENST00000544494,;TNPO2,downstream_gene_variant,,ENST00000356861,;TNPO2,downstream_gene_variant,,ENST00000441499,;TNPO2,downstream_gene_variant,,ENST00000450764,;TNPO2,downstream_gene_variant,,ENST00000425528,;FBXW9,intron_variant,,ENST00000587296,;	A	ENSG00000132004	ENST00000393261	Transcript	synonymous_variant	500	438	146	C	tgC/tgT	rs762766485	.	.	-1	FBXW9	HGNC	28136	protein_coding	YES	CCDS12278.2	ENSP00000376945	FBXW9_HUMAN	.	UPI0000203473	.	.	.	2/10	.	hmmpanther:PTHR22844:SF3,hmmpanther:PTHR22844,Gene3D:1.20.1280.50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAATGCAGGC	.	5	BLCA
ARRDC2	0	.	GRCh37	19	18119170	18119170	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51C>T	p.%3D	p.T17T	ENST00000222250	1/8	31	27	4	35	35	0	ARRDC2,synonymous_variant,p.%3D,ENST00000593560,;ARRDC2,synonymous_variant,p.%3D,ENST00000222250,;ARRDC2,intron_variant,,ENST00000379656,;ARRDC2,intron_variant,,ENST00000595712,;ARRDC2,intron_variant,,ENST00000608009,;ARRDC2,intron_variant,,ENST00000600788,;ARRDC2,non_coding_transcript_exon_variant,,ENST00000596105,;ARRDC2,non_coding_transcript_exon_variant,,ENST00000593460,;ARRDC2,upstream_gene_variant,,ENST00000594411,;	T	ENSG00000105643	ENST00000222250	Transcript	synonymous_variant	194	51	17	T	acC/acT	.	.	.	1	ARRDC2	HGNC	25225	protein_coding	YES	CCDS12370.1	ENSP00000222250	ARRD2_HUMAN	.	UPI000003F083	.	.	.	1/8	.	hmmpanther:PTHR11188:SF48,hmmpanther:PTHR11188,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGACCGCGGG	.	4	BLCA
ZNF225	0	.	GRCh37	19	44636612	44636612	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1845G>C	p.Gln615His	p.Q615H	ENST00000262894	5/5	41	31	9	45	45	0	ZNF225,missense_variant,p.Gln615His,ENST00000262894,;ZNF225,missense_variant,p.Gln615His,ENST00000590612,;ZNF225,3_prime_UTR_variant,,ENST00000592780,;ZNF225,downstream_gene_variant,,ENST00000589155,;ZNF225,downstream_gene_variant,,ENST00000592360,;	C	ENSG00000256294	ENST00000262894	Transcript	missense_variant	2125	1845	615	Q/H	caG/caC	.	.	.	1	ZNF225	HGNC	13018	protein_coding	YES	CCDS46100.1	ENSP00000262894	ZN225_HUMAN	K7ERU6_HUMAN,K7ENA2_HUMAN	UPI000016960F	.	tolerated(0.06)	benign(0.035)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24388,hmmpanther:PTHR24388:SF20,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCAGAGGGT	.	5	BLCA
MAMSTR	0	.	GRCh37	19	49216976	49216976	+	Missense_Mutation	SNP	C	C	T	rs745349713	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.961G>A	p.Asp321Asn	p.D321N	ENST00000318083	9/10	53	37	16	70	70	0	MAMSTR,missense_variant,p.Asp218Asn,ENST00000356751,;MAMSTR,missense_variant,p.Asp153Asn,ENST00000594582,;MAMSTR,missense_variant,p.Asp218Asn,ENST00000419611,;MAMSTR,missense_variant,p.Asp321Asn,ENST00000318083,;MAMSTR,missense_variant,p.Asp153Asn,ENST00000377367,;MAMSTR,downstream_gene_variant,,ENST00000595591,;MAMSTR,downstream_gene_variant,,ENST00000599703,;	T	ENSG00000176909	ENST00000318083	Transcript	missense_variant	1025	961	321	D/N	Gat/Aat	rs745349713,COSM3823558,COSM3823557	.	.	-1	MAMSTR	HGNC	26689	protein_coding	YES	CCDS46137.1	ENSP00000324175	MASTR_HUMAN	.	UPI000035E7CB	.	tolerated_low_confidence(0.14)	possibly_damaging(0.539)	9/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23251:SF1,hmmpanther:PTHR23251	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCATCAGGCT	.	5	BLCA
NR1H2	0	.	GRCh37	19	50881476	50881476	+	Silent	SNP	C	C	T	rs763195837	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252C>T	p.%3D	p.H84H	ENST00000253727	5/10	158	117	40	208	208	0	NR1H2,synonymous_variant,p.%3D,ENST00000253727,;NR1H2,synonymous_variant,p.%3D,ENST00000597130,;NR1H2,synonymous_variant,p.%3D,ENST00000598168,;NR1H2,synonymous_variant,p.%3D,ENST00000593926,;NR1H2,synonymous_variant,p.%3D,ENST00000597790,;NR1H2,synonymous_variant,p.%3D,ENST00000599105,;NR1H2,synonymous_variant,p.%3D,ENST00000597157,;NR1H2,5_prime_UTR_variant,,ENST00000542413,;NR1H2,intron_variant,,ENST00000411902,;NR1H2,downstream_gene_variant,,ENST00000600355,;NR1H2,synonymous_variant,p.%3D,ENST00000593532,;NR1H2,downstream_gene_variant,,ENST00000595730,;NR1H2,upstream_gene_variant,,ENST00000597085,;	T	ENSG00000131408	ENST00000253727	Transcript	synonymous_variant	487	252	84	H	caC/caT	rs763195837	.	.	1	NR1H2	HGNC	7965	protein_coding	YES	CCDS42593.1	ENSP00000253727	NR1H2_HUMAN	M0R3A7_HUMAN,M0R1V8_HUMAN,M0QZF5_HUMAN,M0QYE6_HUMAN,F1D8P7_HUMAN	UPI000013CDEE	.	.	.	5/10	.	Prints_domain:PR02034,SMART_domains:SM00399,hmmpanther:PTHR24082:SF110,hmmpanther:PTHR24082,PROSITE_profiles:PS51030	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCACGAGCT	byFrequency	5	BLCA
ZNF175	0	.	GRCh37	19	52091167	52091167	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1583A>G	p.Glu528Gly	p.E528G	ENST00000262259	5/5	33	25	7	43	43	0	ZNF175,missense_variant,p.Glu528Gly,ENST00000262259,;ZNF175,intron_variant,,ENST00000436511,;AC018755.1,downstream_gene_variant,,ENST00000301439,;ZNF175,downstream_gene_variant,,ENST00000600460,;	G	ENSG00000105497	ENST00000262259	Transcript	missense_variant	1941	1583	528	E/G	gAa/gGa	.	.	.	1	ZNF175	HGNC	12964	protein_coding	YES	CCDS12837.1	ENSP00000262259	ZN175_HUMAN	.	UPI000013C30A	.	deleterious(0)	probably_damaging(0.994)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF37,hmmpanther:PTHR24377,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGAGAAAGAC	.	5	BLCA
OR7D2	0	.	GRCh37	19	9296802	9296802	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345G>C	p.%3D	p.L115L	ENST00000344248	1/1	103	72	31	130	130	0	OR7D2,synonymous_variant,p.%3D,ENST00000344248,;TCEB1P29,upstream_gene_variant,,ENST00000588193,;	C	ENSG00000188000	ENST00000344248	Transcript	synonymous_variant	524	345	115	L	ctG/ctC	.	.	.	1	OR7D2	HGNC	8378	protein_coding	YES	CCDS32900.1	ENSP00000345563	OR7D2_HUMAN	.	UPI0000041C0C	.	.	.	1/1	.	Transmembrane_helices:TMhelix,Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,PROSITE_patterns:PS00237,hmmpanther:PTHR26451:SF157,hmmpanther:PTHR26451,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTGACCGT	.	5	BLCA
LRIF1	0	.	GRCh37	1	111492503	111492504	+	Frame_Shift_Del	DEL	CT	CT	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	CT	CT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1838_1839delAG	p.Glu613ValfsTer14	p.E613Vfs*14	ENST00000369763	3/4	106	92	14	95	95	0	LRIF1,frameshift_variant,p.Glu77ValfsTer14,ENST00000494675,;LRIF1,frameshift_variant,p.Glu613ValfsTer14,ENST00000369763,;LRIF1,frameshift_variant,p.Glu77ValfsTer14,ENST00000485275,;RP11-96K19.2,intron_variant,,ENST00000440689,;	-	ENSG00000121931	ENST00000369763	Transcript	frameshift_variant	2229-2230	1838-1839	613	E/X	gAG/g	.	.	.	-1	LRIF1	HGNC	30299	protein_coding	YES	CCDS30800.1	ENSP00000358778	LRIF1_HUMAN	.	UPI0000205296	.	.	.	3/4	.	hmmpanther:PTHR16131,hmmpanther:PTHR16131:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CATAAACTCTGTC	.	3	BLCA
HIPK1	0	.	GRCh37	1	114514536	114514536	+	Missense_Mutation	SNP	G	G	A	rs147397910	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3104G>A	p.Arg1035His	p.R1035H	ENST00000369558	15/16	47	30	17	64	64	0	HIPK1,missense_variant,p.Arg316His,ENST00000361587,;HIPK1,missense_variant,p.Arg1001His,ENST00000369561,;HIPK1,missense_variant,p.Arg990His,ENST00000369554,;HIPK1,missense_variant,p.Arg641His,ENST00000406344,;HIPK1,missense_variant,p.Arg1035His,ENST00000426820,;HIPK1,missense_variant,p.Arg641His,ENST00000369553,;HIPK1,missense_variant,p.Arg1035His,ENST00000369559,;HIPK1,missense_variant,p.Arg1035His,ENST00000369558,;HIPK1,missense_variant,p.Arg990His,ENST00000369555,;HIPK1,missense_variant,p.Arg661His,ENST00000340480,;	A	ENSG00000163349	ENST00000369558	Transcript	missense_variant	3336	3104	1035	R/H	cGc/cAc	rs147397910	.	.	1	HIPK1	HGNC	19006	protein_coding	YES	CCDS867.1	ENSP00000358571	HIPK1_HUMAN	D6RF28_HUMAN,D6RC95_HUMAN	UPI000000D74E	.	deleterious(0)	possibly_damaging(0.905)	15/16	.	.	.	.	.	.	.	.	.	A:0.0014	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAACGCGGGG	byFrequency|byCluster	5	BLCA
NEK7	0	.	GRCh37	1	198288670	198288670	+	3'UTR	SNP	G	G	C	rs777194355	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18G>C	.	.	ENST00000367385	10/10	21	18	3	17	17	0	NEK7,3_prime_UTR_variant,,ENST00000367385,;NEK7,downstream_gene_variant,,ENST00000538004,;NEK7,non_coding_transcript_exon_variant,,ENST00000493790,;	C	ENSG00000151414	ENST00000367385	Transcript	3_prime_UTR_variant	1269	.	.	.	.	rs777194355	.	.	1	NEK7	HGNC	13386	protein_coding	YES	CCDS1394.1	ENSP00000356355	NEK7_HUMAN	F8WAG2_HUMAN,F5H3U7_HUMAN,C9J1H8_HUMAN	UPI0000073180	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAAGAGTGT	.	2	BLCA
ADIPOR1	0	.	GRCh37	1	202910771	202910771	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1058A>T	p.Tyr353Phe	p.Y353F	ENST00000340990	8/8	62	47	14	57	57	0	ADIPOR1,missense_variant,p.Tyr353Phe,ENST00000436244,;ADIPOR1,missense_variant,p.Tyr353Phe,ENST00000340990,;ADIPOR1,downstream_gene_variant,,ENST00000367254,;ADIPOR1,downstream_gene_variant,,ENST00000426229,;ADIPOR1,downstream_gene_variant,,ENST00000417068,;ADIPOR1,non_coding_transcript_exon_variant,,ENST00000495562,;	A	ENSG00000159346	ENST00000340990	Transcript	missense_variant	1357	1058	353	Y/F	tAt/tTt	.	.	.	-1	ADIPOR1	HGNC	24040	protein_coding	YES	CCDS1430.1	ENSP00000341785	ADR1_HUMAN	C9JNM5_HUMAN,C9J0W7_HUMAN	UPI000003779A	.	deleterious(0)	possibly_damaging(0.536)	8/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20855,hmmpanther:PTHR20855:SF40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCATAGAAG	.	5	BLCA
ADIPOR1	0	.	GRCh37	1	202910772	202910772	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057T>A	p.Tyr353Asn	p.Y353N	ENST00000340990	8/8	60	46	14	57	57	0	ADIPOR1,missense_variant,p.Tyr353Asn,ENST00000436244,;ADIPOR1,missense_variant,p.Tyr353Asn,ENST00000340990,;ADIPOR1,downstream_gene_variant,,ENST00000367254,;ADIPOR1,downstream_gene_variant,,ENST00000426229,;ADIPOR1,downstream_gene_variant,,ENST00000417068,;ADIPOR1,non_coding_transcript_exon_variant,,ENST00000495562,;	T	ENSG00000159346	ENST00000340990	Transcript	missense_variant	1356	1057	353	Y/N	Tat/Aat	.	.	.	-1	ADIPOR1	HGNC	24040	protein_coding	YES	CCDS1430.1	ENSP00000341785	ADR1_HUMAN	C9JNM5_HUMAN,C9J0W7_HUMAN	UPI000003779A	.	deleterious(0)	benign(0.091)	8/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20855,hmmpanther:PTHR20855:SF40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCATAGAAGT	.	5	BLCA
ATP2B4	0	.	GRCh37	1	203668676	203668676	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.480C>G	p.Ile160Met	p.I160M	ENST00000357681	4/21	116	81	35	134	134	0	ATP2B4,missense_variant,p.Ile160Met,ENST00000341360,;ATP2B4,missense_variant,p.Ile160Met,ENST00000367218,;ATP2B4,missense_variant,p.Ile160Met,ENST00000391954,;ATP2B4,missense_variant,p.Ile160Met,ENST00000367219,;ATP2B4,missense_variant,p.Ile160Met,ENST00000357681,;	G	ENSG00000058668	ENST00000357681	Transcript	missense_variant	1603	480	160	I/M	atC/atG	.	.	.	1	ATP2B4	HGNC	817	protein_coding	YES	CCDS1440.1	ENSP00000350310	AT2B4_HUMAN	A1X4Q2_HUMAN	UPI000002A464	.	deleterious(0.01)	possibly_damaging(0.564)	4/21	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24093:SF276,hmmpanther:PTHR24093,Pfam_domain:PF00122,TIGRFAM_domain:TIGR01494,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATCATCGT	.	5	BLCA
STPG1	0	.	GRCh37	1	24696235	24696235	+	Silent	SNP	C	C	A	rs368913233	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.666G>T	p.%3D	p.T222T	ENST00000374409	7/9	123	98	24	139	139	0	STPG1,synonymous_variant,p.%3D,ENST00000374409,;STPG1,synonymous_variant,p.%3D,ENST00000438866,;STPG1,synonymous_variant,p.%3D,ENST00000440416,;STPG1,synonymous_variant,p.%3D,ENST00000003583,;STPG1,synonymous_variant,p.%3D,ENST00000337248,;STPG1,non_coding_transcript_exon_variant,,ENST00000468303,;STPG1,non_coding_transcript_exon_variant,,ENST00000497384,;	A	ENSG00000001460	ENST00000374409	Transcript	synonymous_variant	921	666	222	T	acG/acT	rs368913233	.	.	-1	STPG1	HGNC	28070	protein_coding	YES	CCDS55581.1	ENSP00000363530	STPG1_HUMAN	.	UPI0000049C6B	.	.	.	7/9	.	hmmpanther:PTHR21580,hmmpanther:PTHR21580:SF11	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGACGTCAG	byCluster|by1000G	5	BLCA
IDH3B	0	.	GRCh37	20	2641326	2641326	+	Intron	SNP	A	A	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531+17T>G	.	.	ENST00000380843	.	58	43	15	76	76	0	IDH3B,intron_variant,,ENST00000380843,;IDH3B,intron_variant,,ENST00000380851,;NOP56,downstream_gene_variant,,ENST00000329276,;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,;SNORD57,downstream_gene_variant,,ENST00000448188,;SNORD56,downstream_gene_variant,,ENST00000413522,;RP4-686C3.7,upstream_gene_variant,,ENST00000418739,;IDH3B,non_coding_transcript_exon_variant,,ENST00000462967,;IDH3B,non_coding_transcript_exon_variant,,ENST00000491065,;IDH3B,non_coding_transcript_exon_variant,,ENST00000488299,;IDH3B,intron_variant,,ENST00000474315,;IDH3B,upstream_gene_variant,,ENST00000477689,;NOP56,downstream_gene_variant,,ENST00000462630,;NOP56,downstream_gene_variant,,ENST00000480992,;IDH3B,upstream_gene_variant,,ENST00000492240,;NOP56,downstream_gene_variant,,ENST00000490753,;NOP56,downstream_gene_variant,,ENST00000480447,;NOP56,downstream_gene_variant,,ENST00000467857,;IDH3B,upstream_gene_variant,,ENST00000466494,;NOP56,downstream_gene_variant,,ENST00000471023,;NOP56,downstream_gene_variant,,ENST00000466447,;NOP56,downstream_gene_variant,,ENST00000492135,;IDH3B,upstream_gene_variant,,ENST00000466999,;NOP56,downstream_gene_variant,,ENST00000484998,;IDH3B,upstream_gene_variant,,ENST00000479376,;NOP56,downstream_gene_variant,,ENST00000467196,;	C	ENSG00000101365	ENST00000380843	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	IDH3B	HGNC	5385	protein_coding	YES	CCDS13032.1	ENSP00000370223	IDH3B_HUMAN	Q9UIC5_HUMAN,B4DU38_HUMAN	UPI000013CBC6	.	.	.	.	6/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCCAGTTTC	.	5	BLCA
DEFB123	0	.	GRCh37	20	30037909	30037909	+	Missense_Mutation	SNP	T	T	C	rs764299206	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136T>C	p.Cys46Arg	p.C46R	ENST00000376309	2/2	80	71	9	109	109	0	DEFB123,missense_variant,p.Cys46Arg,ENST00000376309,;	C	ENSG00000180424	ENST00000376309	Transcript	missense_variant	316	136	46	C/R	Tgc/Cgc	rs764299206	.	.	1	DEFB123	HGNC	18103	protein_coding	YES	CCDS13180.1	ENSP00000365486	DB123_HUMAN	Q5GRF8_HUMAN	UPI0000128D96	.	deleterious(0)	probably_damaging(0.989)	2/2	.	hmmpanther:PTHR15001,hmmpanther:PTHR15001:SF3,Pfam_domain:PF13841	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTTACTGCATA	.	3	BLCA
DEFB123	0	.	GRCh37	20	30037911	30037911	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138C>G	p.Cys46Trp	p.C46W	ENST00000376309	2/2	80	70	10	107	107	0	DEFB123,missense_variant,p.Cys46Trp,ENST00000376309,;	G	ENSG00000180424	ENST00000376309	Transcript	missense_variant	318	138	46	C/W	tgC/tgG	.	.	.	1	DEFB123	HGNC	18103	protein_coding	YES	CCDS13180.1	ENSP00000365486	DB123_HUMAN	Q5GRF8_HUMAN	UPI0000128D96	.	deleterious(0)	probably_damaging(0.989)	2/2	.	hmmpanther:PTHR15001,hmmpanther:PTHR15001:SF3,Pfam_domain:PF13841	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACTGCATAAA	.	3	BLCA
DEFB123	0	.	GRCh37	20	30037912	30037912	+	Missense_Mutation	SNP	A	A	T	rs774611937	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.139A>T	p.Ile47Leu	p.I47L	ENST00000376309	2/2	83	72	10	103	103	0	DEFB123,missense_variant,p.Ile47Leu,ENST00000376309,;	T	ENSG00000180424	ENST00000376309	Transcript	missense_variant	319	139	47	I/L	Ata/Tta	rs774611937	.	.	1	DEFB123	HGNC	18103	protein_coding	YES	CCDS13180.1	ENSP00000365486	DB123_HUMAN	Q5GRF8_HUMAN	UPI0000128D96	.	tolerated(0.8)	unknown(0)	2/2	.	hmmpanther:PTHR15001,hmmpanther:PTHR15001:SF3,Pfam_domain:PF13841	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTGCATAAAT	byFrequency	3	BLCA
RBL1	0	.	GRCh37	20	35668610	35668610	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1849C>G	p.Leu617Val	p.L617V	ENST00000373664	14/22	110	89	20	101	101	0	RBL1,missense_variant,p.Leu617Val,ENST00000373664,;RBL1,missense_variant,p.Leu617Val,ENST00000344359,;	C	ENSG00000080839	ENST00000373664	Transcript	missense_variant	1916	1849	617	L/V	Cta/Gta	.	.	.	-1	RBL1	HGNC	9893	protein_coding	YES	CCDS13289.1	ENSP00000362768	RBL1_HUMAN	.	UPI000013D34E	.	tolerated(0.34)	benign(0.008)	14/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13742:SF20,hmmpanther:PTHR13742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTAGAGGAG	.	5	BLCA
ZNF831	0	.	GRCh37	20	57766703	57766707	+	Frame_Shift_Del	DEL	GGGGC	GGGGC	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	GGGGC	GGGGC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631_635delGGCGG	p.Gly211ProfsTer88	p.G211Pfs*88	ENST00000371030	1/5	36	30	6	53	53	0	ZNF831,frameshift_variant,p.Gly211ProfsTer88,ENST00000371030,;	-	ENSG00000124203	ENST00000371030	Transcript	frameshift_variant	629-633	629-633	210-211	GG/X	gGGGGC/g	.	.	.	1	ZNF831	HGNC	16167	protein_coding	YES	CCDS42894.1	ENSP00000360069	ZN831_HUMAN	.	UPI00001D82E4	.	.	.	1/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF52	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GCGCCGGGGGCGGCCT	.	2	BLCA
SRMS	0	.	GRCh37	20	62178709	62178710	+	Frame_Shift_Del	DEL	GG	GG	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	GG	GG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107_108delCCinsA	p.Pro36GlnfsTer35	p.P36Qfs*35	ENST00000217188	1/8	32	25	7	36	36	0	SRMS,frameshift_variant,p.Pro36GlnfsTer35,ENST00000217188,;	T	ENSG00000125508	ENST00000217188	Transcript	frameshift_variant	148-149	107-108	36	P/X	cCC/cA	.	.	.	-1	SRMS	HGNC	11298	protein_coding	YES	CCDS13525.1	ENSP00000217188	SRMS_HUMAN	.	UPI000004F1F3	.	.	.	1/8	.	hmmpanther:PTHR24418:SF23,hmmpanther:PTHR24418,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL|VARSCANS*|SOMATICSNIPER*	AGTGTTGGGGTCC	.	4	BLCA
DONSON	0	.	GRCh37	21	34959902	34959902	+	Missense_Mutation	SNP	C	C	G	rs77196675	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>C	p.Asp110His	p.D110H	ENST00000303071	2/10	47	43	4	51	51	0	DONSON,missense_variant,p.Asp110His,ENST00000432378,;DONSON,missense_variant,p.Asp110His,ENST00000303113,;DONSON,missense_variant,p.Asp110His,ENST00000303071,;DONSON,missense_variant,p.Asp110His,ENST00000453626,;AP000304.12,intron_variant,,ENST00000429238,;DONSON,intron_variant,,ENST00000437395,;CRYZL1,downstream_gene_variant,,ENST00000445393,;CRYZL1,downstream_gene_variant,,ENST00000441940,;DONSON,upstream_gene_variant,,ENST00000440810,;CRYZL1,downstream_gene_variant,,ENST00000381554,;CRYZL1,downstream_gene_variant,,ENST00000381540,;CRYZL1,downstream_gene_variant,,ENST00000290244,;CRYZL1,downstream_gene_variant,,ENST00000480893,;DONSON,missense_variant,p.Asp110His,ENST00000457359,;DONSON,missense_variant,p.Asp3His,ENST00000442660,;DONSON,missense_variant,p.Asp110His,ENST00000417871,;DONSON,missense_variant,p.Asp3His,ENST00000444517,;CRYZL1,downstream_gene_variant,,ENST00000437996,;CRYZL1,downstream_gene_variant,,ENST00000452420,;CRYZL1,downstream_gene_variant,,ENST00000468349,;	G	ENSG00000159147	ENST00000303071	Transcript	missense_variant	395	328	110	D/H	Gat/Cat	rs77196675	.	.	-1	DONSON	HGNC	2993	protein_coding	YES	CCDS13632.1	ENSP00000307143	DONS_HUMAN	.	UPI00001296AD	.	deleterious(0.03)	benign(0.013)	2/10	.	hmmpanther:PTHR12972	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	AGAATCTAAAA	suspect|byCluster	2	BLCA
C2CD2	0	.	GRCh37	21	43319171	43319171	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1861A>C	p.Lys621Gln	p.K621Q	ENST00000380486	13/14	47	37	9	49	49	0	C2CD2,missense_variant,p.Lys107Gln,ENST00000449165,;C2CD2,missense_variant,p.Lys466Gln,ENST00000329623,;C2CD2,missense_variant,p.Lys621Gln,ENST00000380486,;C2CD2,non_coding_transcript_exon_variant,,ENST00000482186,;C2CD2,non_coding_transcript_exon_variant,,ENST00000482084,;C2CD2,downstream_gene_variant,,ENST00000467074,;	G	ENSG00000157617	ENST00000380486	Transcript	missense_variant	2103	1861	621	K/Q	Aag/Cag	.	.	.	-1	C2CD2	HGNC	1266	protein_coding	YES	CCDS42933.1	ENSP00000369853	CU025_HUMAN	.	UPI0000206BBE	.	deleterious(0)	probably_damaging(0.935)	13/14	.	hmmpanther:PTHR21119:SF6,hmmpanther:PTHR21119	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCTTTTTGG	.	5	BLCA
GPR45	0	.	GRCh37	2	105858930	105858930	+	Silent	SNP	C	C	T	rs267598822	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.615C>T	p.%3D	p.F205F	ENST00000258456	1/1	30	26	4	28	28	0	GPR45,synonymous_variant,p.%3D,ENST00000258456,;	T	ENSG00000135973	ENST00000258456	Transcript	synonymous_variant	731	615	205	F	ttC/ttT	rs267598822	.	.	1	GPR45	HGNC	4503	protein_coding	YES	CCDS2066.1	ENSP00000258456	GPR45_HUMAN	B5B0C1_HUMAN	UPI000013CFD3	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24245,hmmpanther:PTHR24245:SF4,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTTCGCGCC	.	2	BLCA
LPIN1	0	.	GRCh37	2	11964949	11964949	+	3'UTR	SNP	A	A	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*32A>T	.	.	ENST00000449576	22/22	15	7	8	25	25	0	LPIN1,3_prime_UTR_variant,,ENST00000396097,;LPIN1,3_prime_UTR_variant,,ENST00000449576,;LPIN1,3_prime_UTR_variant,,ENST00000396099,;LPIN1,3_prime_UTR_variant,,ENST00000256720,;LPIN1,3_prime_UTR_variant,,ENST00000404113,;LPIN1,3_prime_UTR_variant,,ENST00000425416,;LPIN1,non_coding_transcript_exon_variant,,ENST00000487576,;LPIN1,non_coding_transcript_exon_variant,,ENST00000475922,;	T	ENSG00000134324	ENST00000449576	Transcript	3_prime_UTR_variant	3013	.	.	.	.	.	.	.	1	LPIN1	HGNC	13345	protein_coding	YES	CCDS58699.1	ENSP00000397908	.	F5GY24_HUMAN,C9J278_HUMAN,C9IYP2_HUMAN,B4DGZ6_HUMAN	UPI0002064F62	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGCAGAGCC	.	2	BLCA
NCKAP5	0	.	GRCh37	2	133542765	133542765	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1619G>A	p.Cys540Tyr	p.C540Y	ENST00000409261	14/20	112	89	23	144	144	0	NCKAP5,missense_variant,p.Cys540Tyr,ENST00000409261,;NCKAP5,missense_variant,p.Cys540Tyr,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,upstream_gene_variant,,ENST00000473859,;	T	ENSG00000176771	ENST00000409261	Transcript	missense_variant	1993	1619	540	C/Y	tGc/tAc	.	.	.	-1	NCKAP5	HGNC	29847	protein_coding	YES	CCDS46418.1	ENSP00000387128	NCKP5_HUMAN	C9JYL7_HUMAN	UPI0000E07A3F	.	tolerated(0.56)	benign(0.016)	14/20	.	hmmpanther:PTHR21740:SF0,hmmpanther:PTHR21740	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCGCAACTT	.	5	BLCA
GPR155	0	.	GRCh37	2	175337920	175337920	+	Silent	SNP	G	G	T	rs772615917	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633C>A	p.%3D	p.L211L	ENST00000392552	3/16	69	63	6	84	84	0	GPR155,synonymous_variant,p.%3D,ENST00000295500,;GPR155,synonymous_variant,p.%3D,ENST00000392552,;GPR155,synonymous_variant,p.%3D,ENST00000392551,;	T	ENSG00000163328	ENST00000392552	Transcript	synonymous_variant	872	633	211	L	ctC/ctA	rs772615917	.	.	-1	GPR155	HGNC	22951	protein_coding	YES	CCDS2259.1	ENSP00000376335	GP155_HUMAN	.	UPI000013E262	.	.	.	3/16	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22829,Pfam_domain:PF03547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGCAGGAGTCC	.	3	BLCA
PDE1A	0	.	GRCh37	2	183387019	183387019	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85C>A	p.Gln29Lys	p.Q29K	ENST00000435564	1/15	48	38	9	64	64	0	PDE1A,missense_variant,p.Gln29Lys,ENST00000358139,;PDE1A,missense_variant,p.Gln29Lys,ENST00000456212,;PDE1A,missense_variant,p.Gln29Lys,ENST00000331935,;PDE1A,missense_variant,p.Gln29Lys,ENST00000410103,;PDE1A,missense_variant,p.Gln29Lys,ENST00000435564,;PDE1A,5_prime_UTR_variant,,ENST00000536095,;PDE1A,non_coding_transcript_exon_variant,,ENST00000462938,;PDE1A,non_coding_transcript_exon_variant,,ENST00000482782,;PDE1A,non_coding_transcript_exon_variant,,ENST00000495511,;	T	ENSG00000115252	ENST00000435564	Transcript	missense_variant	286	85	29	Q/K	Cag/Aag	.	.	.	-1	PDE1A	HGNC	8774	protein_coding	YES	CCDS2285.1	ENSP00000410309	PDE1A_HUMAN	Q9Y633_HUMAN,Q9Y246_HUMAN,Q9UNL9_HUMAN,Q53TB0_HUMAN,Q53T15_HUMAN,B7Z3A7_HUMAN	UPI0000001072	.	tolerated_low_confidence(0.43)	benign(0.006)	1/15	.	hmmpanther:PTHR11347:SF34,hmmpanther:PTHR11347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R30C|c.88C>T|3,BUFFER|p.R30C|c.88C>T|3,BUFFER|p.R30C|c.88C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTGCCACA	.	5	BLCA
COL4A4	0	.	GRCh37	2	227924263	227924263	+	Silent	SNP	G	G	A	rs374510402	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2241C>T	p.%3D	p.P747P	ENST00000396625	28/48	60	42	18	90	90	0	COL4A4,synonymous_variant,p.%3D,ENST00000329662,;COL4A4,synonymous_variant,p.%3D,ENST00000396625,;	A	ENSG00000081052	ENST00000396625	Transcript	synonymous_variant	2449	2241	747	P	ccC/ccT	rs374510402,COSM297273	.	.	-1	COL4A4	HGNC	2206	protein_coding	YES	CCDS42828.1	ENSP00000379866	CO4A4_HUMAN	.	UPI000013D987	.	.	.	28/48	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24021:SF5,hmmpanther:PTHR24021	A:0.0006	A:0.0015	A:0	.	A:0	A:0	A:0.001	A:0.0003	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCCGGGAGG	byFrequency|byCluster|by1000G	5	BLCA
PID1	0	.	GRCh37	2	229890309	229890309	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*39C>T	.	.	ENST00000392054	4/4	52	38	13	74	74	0	PID1,3_prime_UTR_variant,,ENST00000409462,;PID1,3_prime_UTR_variant,,ENST00000354069,;PID1,3_prime_UTR_variant,,ENST00000392055,;PID1,3_prime_UTR_variant,,ENST00000392054,;PID1,intron_variant,,ENST00000482518,;PID1,downstream_gene_variant,,ENST00000534952,;	A	ENSG00000153823	ENST00000392054	Transcript	3_prime_UTR_variant	1126	.	.	.	.	.	.	.	-1	PID1	HGNC	26084	protein_coding	YES	CCDS2471.1	ENSP00000375907	PCLI1_HUMAN	Q4ZG81_HUMAN	UPI00001C0AF7	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCCGTGACC	.	5	BLCA
SLC16A14	0	.	GRCh37	2	230911284	230911284	+	Silent	SNP	G	G	A	rs201216147	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.558C>T	p.%3D	p.Y186Y	ENST00000295190	4/5	50	47	3	45	45	0	SLC16A14,synonymous_variant,p.%3D,ENST00000412034,;SLC16A14,synonymous_variant,p.%3D,ENST00000457406,;SLC16A14,synonymous_variant,p.%3D,ENST00000295190,;	A	ENSG00000163053	ENST00000295190	Transcript	synonymous_variant	1017	558	186	Y	taC/taT	rs201216147,COSM1017576	.	.	-1	SLC16A14	HGNC	26417	protein_coding	YES	CCDS2473.1	ENSP00000295190	MOT14_HUMAN	C9JME4_HUMAN,C9JIV1_HUMAN,B3KNY7_HUMAN	UPI000004EE99	.	.	.	4/5	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11360:SF121,hmmpanther:PTHR11360,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCCGTACTC	byCluster|by1000G	2	BLCA
PLB1	0	.	GRCh37	2	28843193	28843193	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3377C>G	p.Ser1126Cys	p.S1126C	ENST00000327757	47/58	76	65	11	63	63	0	PLB1,missense_variant,p.Ser1115Cys,ENST00000422425,;PLB1,missense_variant,p.Ser1114Cys,ENST00000404858,;PLB1,missense_variant,p.Ser1126Cys,ENST00000327757,;PLB1,missense_variant,p.Ser91Cys,ENST00000541605,;PLB1,missense_variant,p.Ser150Cys,ENST00000444257,;PLB1,3_prime_UTR_variant,,ENST00000411743,;PLB1,upstream_gene_variant,,ENST00000473272,;PLB1,downstream_gene_variant,,ENST00000479065,;	G	ENSG00000163803	ENST00000327757	Transcript	missense_variant	3421	3377	1126	S/C	tCt/tGt	.	.	.	1	PLB1	HGNC	30041	protein_coding	YES	CCDS33168.1	ENSP00000330442	PLB1_HUMAN	.	UPI0000D6117C	.	deleterious(0)	probably_damaging(0.997)	47/58	.	hmmpanther:PTHR21325,hmmpanther:PTHR21325:SF1,Gene3D:3.40.50.1110,Pfam_domain:PF00657,Superfamily_domains:SSF52266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCTCTTGGA	.	5	BLCA
IGKV2-30	0	.	GRCh37	2	89544302	89544302	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322G>T	p.Val108Phe	p.V108F	ENST00000468494	2/2	112	100	12	163	163	0	IGKV2-30,missense_variant,p.Val108Phe,ENST00000468494,;	A	ENSG00000243238	ENST00000468494	Transcript	missense_variant	352	322	108	V/F	Gtt/Ttt	.	.	.	-1	IGKV2-30	HGNC	5785	IG_V_gene	YES	.	ENSP00000418138	.	.	UPI0000176EB9	.	tolerated(0.11)	benign(0.138)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267:SF134,hmmpanther:PTHR23267,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	CCCAACATCCT	.	2	BLCA
TMEM127	0	.	GRCh37	2	96930910	96930910	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210C>T	p.%3D	p.D70D	ENST00000258439	2/4	9	6	3	16	16	0	TMEM127,synonymous_variant,p.%3D,ENST00000258439,;TMEM127,synonymous_variant,p.%3D,ENST00000432959,;TMEM127,upstream_gene_variant,,ENST00000435268,;CIAO1,upstream_gene_variant,,ENST00000488633,;CIAO1,upstream_gene_variant,,ENST00000469320,;CIAO1,upstream_gene_variant,,ENST00000272402,;CIAO1,upstream_gene_variant,,ENST00000491394,;	A	ENSG00000135956	ENST00000258439	Transcript	synonymous_variant	467	210	70	D	gaC/gaT	.	.	.	-1	TMEM127	HGNC	26038	protein_coding	YES	CCDS2018.1	ENSP00000258439	TM127_HUMAN	C9J4H2_HUMAN	UPI000000D96F	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACACGTCGGA	.	2	BLCA
MORC1	0	.	GRCh37	3	108788599	108788599	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.695C>A	p.Pro232Gln	p.P232Q	ENST00000232603	9/28	51	46	5	47	47	0	MORC1,missense_variant,p.Pro232Gln,ENST00000483760,;MORC1,missense_variant,p.Pro232Gln,ENST00000232603,;	T	ENSG00000114487	ENST00000232603	Transcript	missense_variant	778	695	232	P/Q	cCa/cAa	COSM312916	.	.	-1	MORC1	HGNC	7198	protein_coding	YES	CCDS2955.1	ENSP00000232603	MORC1_HUMAN	.	UPI000013C964	.	deleterious(0)	possibly_damaging(0.907)	9/28	.	hmmpanther:PTHR23337,hmmpanther:PTHR23337:SF6,Superfamily_domains:SSF55874	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A233V|c.698C>T|3	MUTECT|MUSE|VARSCANS	TCGCTGGGAAA	.	3	BLCA
TFDP2	0	.	GRCh37	3	141678556	141678556	+	Silent	SNP	C	C	T	rs554349970	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011G>A	p.%3D	p.A337A	ENST00000489671	11/13	110	104	5	108	108	0	TFDP2,synonymous_variant,p.%3D,ENST00000479040,;TFDP2,synonymous_variant,p.%3D,ENST00000467072,;TFDP2,synonymous_variant,p.%3D,ENST00000499676,;TFDP2,synonymous_variant,p.%3D,ENST00000397991,;TFDP2,synonymous_variant,p.%3D,ENST00000474279,;TFDP2,synonymous_variant,p.%3D,ENST00000310282,;TFDP2,synonymous_variant,p.%3D,ENST00000489671,;TFDP2,synonymous_variant,p.%3D,ENST00000317104,;TFDP2,synonymous_variant,p.%3D,ENST00000495310,;TFDP2,synonymous_variant,p.%3D,ENST00000477292,;TFDP2,synonymous_variant,p.%3D,ENST00000486111,;TFDP2,downstream_gene_variant,,ENST00000478006,;TFDP2,downstream_gene_variant,,ENST00000497579,;TFDP2,downstream_gene_variant,,ENST00000467667,;TFDP2,3_prime_UTR_variant,,ENST00000487734,;	T	ENSG00000114126	ENST00000489671	Transcript	synonymous_variant	1442	1011	337	A	gcG/gcA	rs554349970	.	.	-1	TFDP2	HGNC	11751	protein_coding	YES	CCDS54650.1	ENSP00000420616	TFDP2_HUMAN	C9JTZ9_HUMAN,C9JNB6_HUMAN,C9JCY5_HUMAN,C9J5D5_HUMAN,C9J461_HUMAN	UPI0000136B56	.	.	.	11/13	.	hmmpanther:PTHR12548,hmmpanther:PTHR12548:SF5,Pfam_domain:PF08781,PIRSF_domain:PIRSF009404,Superfamily_domains:SSF144074	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.A337V|c.1010C>T|3	MUTECT|MUSE	GATTTCGCAAG	by1000G	2	BLCA
HTR3C	0	.	GRCh37	3	183777997	183777997	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1201G>C	p.Asp401His	p.D401H	ENST00000318351	9/9	54	34	20	52	52	0	HTR3C,missense_variant,p.Asp401His,ENST00000318351,;	C	ENSG00000178084	ENST00000318351	Transcript	missense_variant	1235	1201	401	D/H	Gat/Cat	.	.	.	1	HTR3C	HGNC	24003	protein_coding	YES	CCDS3250.1	ENSP00000322617	5HT3C_HUMAN	.	UPI00001402D6	.	tolerated(0.4)	benign(0.004)	9/9	.	hmmpanther:PTHR18945:SF409,hmmpanther:PTHR18945,Superfamily_domains:SSF90112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCAGATGGG	.	5	BLCA
MB21D2	0	.	GRCh37	3	192516720	192516720	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931C>G	p.Gln311Glu	p.Q311E	ENST00000392452	2/2	36	26	10	47	47	0	MB21D2,missense_variant,p.Gln311Glu,ENST00000392452,;	C	ENSG00000180611	ENST00000392452	Transcript	missense_variant	1252	931	311	Q/E	Cag/Gag	COSM348040,COSM350832	.	.	-1	MB21D2	HGNC	30438	protein_coding	YES	CCDS3302.2	ENSP00000376246	M21D2_HUMAN	A8K332_HUMAN	UPI000013FAFE	.	tolerated(0.19)	possibly_damaging(0.569)	2/2	.	Pfam_domain:PF03281,hmmpanther:PTHR10656,hmmpanther:PTHR10656:SF43	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q311E|c.931C>G|8,BUFFER|p.Q311*|c.931C>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTGATAGG	.	5	BLCA
NKTR	0	.	GRCh37	3	42676797	42676797	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1102G>A	p.Glu368Lys	p.E368K	ENST00000232978	12/17	48	30	17	67	67	0	NKTR,missense_variant,p.Glu368Lys,ENST00000232978,;RP4-613B23.1,intron_variant,,ENST00000445452,;RP4-613B23.1,intron_variant,,ENST00000434363,;RP4-613B23.1,intron_variant,,ENST00000438017,;NKTR,3_prime_UTR_variant,,ENST00000429888,;NKTR,non_coding_transcript_exon_variant,,ENST00000508351,;NKTR,non_coding_transcript_exon_variant,,ENST00000465584,;NKTR,non_coding_transcript_exon_variant,,ENST00000468735,;NKTR,non_coding_transcript_exon_variant,,ENST00000472258,;NKTR,non_coding_transcript_exon_variant,,ENST00000460807,;NKTR,non_coding_transcript_exon_variant,,ENST00000498730,;NKTR,downstream_gene_variant,,ENST00000464315,;NKTR,downstream_gene_variant,,ENST00000466553,;NKTR,downstream_gene_variant,,ENST00000472127,;	A	ENSG00000114857	ENST00000232978	Transcript	missense_variant	1290	1102	368	E/K	Gaa/Aaa	.	.	.	1	NKTR	HGNC	7833	protein_coding	YES	CCDS2702.1	ENSP00000232978	NKTR_HUMAN	.	UPI00001301FD	.	deleterious_low_confidence(0)	unknown(0)	12/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAGGAAATG	.	5	BLCA
RRP9	0	.	GRCh37	3	51967512	51967522	+	Missense_Mutation	DEL	GATAAGAGTGT	GATAAGAGTGT	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	GATAAGAGTGT	GATAAGAGTGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1428_*10delACACTCTTATC	.	.	ENST00000232888	15/15	15	10	5	24	24	0	RRP9,coding_sequence_variant,,ENST00000232888,;	-	ENSG00000114767	ENST00000232888	Transcript	coding_sequence_variant	1502-1512	1428-?	476-?	.	.	.	.	.	-1	RRP9	HGNC	16829	protein_coding	YES	CCDS2837.1	ENSP00000232888	U3IP2_HUMAN	.	UPI000006F889	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	AAGGAGGATAAGAGTGTCAGGA	.	2	BLCA
DNAH1	0	.	GRCh37	3	52418832	52418832	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8353G>A	p.Val2785Met	p.V2785M	ENST00000420323	53/78	11	5	6	17	17	0	DNAH1,missense_variant,p.Val2785Met,ENST00000420323,;DNAH1,upstream_gene_variant,,ENST00000480649,;DNAH1,non_coding_transcript_exon_variant,,ENST00000486752,;DNAH1,upstream_gene_variant,,ENST00000490713,;DNAH1,upstream_gene_variant,,ENST00000488988,;	A	ENSG00000114841	ENST00000420323	Transcript	missense_variant	8614	8353	2785	V/M	Gtg/Atg	.	.	.	1	DNAH1	HGNC	2940	protein_coding	YES	CCDS46842.1	ENSP00000401514	DYH1_HUMAN	.	UPI0001AE79D6	.	.	probably_damaging(0.991)	53/78	.	Superfamily_domains:SSF52540,Pfam_domain:PF12780,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGTCGGTGTCC	.	3	BLCA
CCDC66	0	.	GRCh37	3	56605255	56605257	+	In_Frame_Del	DEL	ATG	ATG	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	ATG	ATG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861_863delATG	p.Trp288del	p.W288del	ENST00000394672	7/18	76	47	29	79	79	0	CCDC66,inframe_deletion,p.Trp288del,ENST00000422222,;CCDC66,inframe_deletion,p.Trp288del,ENST00000394672,;CCDC66,inframe_deletion,p.Trp254del,ENST00000326595,;CCDC66,inframe_deletion,p.Trp288del,ENST00000436465,;CCDC66,downstream_gene_variant,,ENST00000538560,;CCDC66,intron_variant,,ENST00000484623,;CCDC66,downstream_gene_variant,,ENST00000442522,;CCDC66,downstream_gene_variant,,ENST00000472582,;CCDC66,downstream_gene_variant,,ENST00000460838,;CCDC66,inframe_deletion,p.Trp254del,ENST00000471681,;CCDC66,3_prime_UTR_variant,,ENST00000341455,;CCDC66,non_coding_transcript_exon_variant,,ENST00000484441,;CCDC66,non_coding_transcript_exon_variant,,ENST00000494672,;CCDC66,non_coding_transcript_exon_variant,,ENST00000482673,;CCDC66,downstream_gene_variant,,ENST00000434467,;	-	ENSG00000180376	ENST00000394672	Transcript	inframe_deletion	931-933	861-863	287-288	KW/K	aaATGg/aag	.	.	.	1	CCDC66	HGNC	27709	protein_coding	YES	CCDS46852.1	ENSP00000378167	CCD66_HUMAN	F8WCY0_HUMAN	UPI000020ADBC	.	.	.	7/18	.	hmmpanther:PTHR22736:SF1,hmmpanther:PTHR22736	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGAAAAATGGAATG	.	3	BLCA
C3orf67	0	.	GRCh37	3	58855933	58855933	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>G	p.Ser148Cys	p.S148C	ENST00000295966	8/16	33	15	18	55	55	0	C3orf67,missense_variant,p.Ser68Cys,ENST00000472469,;C3orf67,missense_variant,p.Ser148Cys,ENST00000482387,;C3orf67,missense_variant,p.Ser148Cys,ENST00000295966,;RP11-147N17.1,intron_variant,,ENST00000493123,;RP11-147N17.1,intron_variant,,ENST00000463703,;RP11-147N17.1,intron_variant,,ENST00000492031,;RP11-147N17.1,intron_variant,,ENST00000482372,;C3orf67,3_prime_UTR_variant,,ENST00000468415,;	C	ENSG00000163689	ENST00000295966	Transcript	missense_variant	947	443	148	S/C	tCt/tGt	.	.	.	-1	C3orf67	HGNC	24763	protein_coding	YES	CCDS33776.1	ENSP00000295966	CC067_HUMAN	.	UPI00001C098C	.	deleterious(0.02)	benign(0.162)	8/16	.	hmmpanther:PTHR12458:SF7,hmmpanther:PTHR12458	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCAGAGAGT	.	5	BLCA
ADAMTS9	0	.	GRCh37	3	64601059	64601059	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3127G>T	p.Val1043Phe	p.V1043F	ENST00000498707	21/40	62	37	25	80	80	0	ADAMTS9,missense_variant,p.Val99Phe,ENST00000481060,;ADAMTS9,missense_variant,p.Val1015Phe,ENST00000295903,;ADAMTS9,missense_variant,p.Val1043Phe,ENST00000498707,;ADAMTS9,non_coding_transcript_exon_variant,,ENST00000475557,;ADAMTS9,non_coding_transcript_exon_variant,,ENST00000482490,;	A	ENSG00000163638	ENST00000498707	Transcript	missense_variant	3470	3127	1043	V/F	Gtt/Ttt	COSM303994	.	.	-1	ADAMTS9	HGNC	13202	protein_coding	YES	CCDS2903.1	ENSP00000418735	ATS9_HUMAN	B4E0E4_HUMAN	UPI00000463F0	.	tolerated(0.05)	possibly_damaging(0.493)	21/40	.	PROSITE_profiles:PS50092,hmmpanther:PTHR13723:SF33,hmmpanther:PTHR13723,Gene3D:2.20.100.10,Pfam_domain:PF00090,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTAACTTTCT	.	5	BLCA
FNIP2	0	.	GRCh37	4	159789560	159789560	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1772A>T	p.His591Leu	p.H591L	ENST00000264433	13/17	27	19	8	46	46	0	FNIP2,missense_variant,p.His614Leu,ENST00000379346,;FNIP2,missense_variant,p.His614Leu,ENST00000512986,;FNIP2,missense_variant,p.His591Leu,ENST00000264433,;FNIP2,upstream_gene_variant,,ENST00000505130,;	T	ENSG00000052795	ENST00000264433	Transcript	missense_variant	1847	1772	591	H/L	cAc/cTc	.	.	.	1	FNIP2	HGNC	29280	protein_coding	YES	CCDS47155.1	ENSP00000264433	FNIP2_HUMAN	.	UPI00001C1E0A	.	tolerated(0.21)	benign(0)	13/17	.	hmmpanther:PTHR21634,hmmpanther:PTHR21634:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGACACAACC	.	5	BLCA
FAT1	0	.	GRCh37	4	187530334	187530335	+	Splice_Site	DEL	TA	TA	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	TA	TA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10206+2_10206+3delTA	.	p.X3402_splice	ENST00000441802	.	26	16	10	50	50	0	FAT1,splice_donor_variant,,ENST00000441802,;FAT1,downstream_gene_variant,,ENST00000508035,;	-	ENSG00000083857	ENST00000441802	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	.	.	16/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCACTTACCGTT	.	3	BLCA
EPHA5	0	.	GRCh37	4	66213848	66213866	+	Frame_Shift_Del	DEL	ACATCACTGGCAGAAGTAA	ACATCACTGGCAGAAGTAA	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	ACATCACTGGCAGAAGTAA	ACATCACTGGCAGAAGTAA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2564_2582delTTACTTCTGCCAGTGATGT	p.Phe855SerfsTer6	p.F855Sfs*6	ENST00000273854	15/18	58	42	16	75	75	0	EPHA5,frameshift_variant,p.Phe855SerfsTer6,ENST00000273854,;EPHA5,frameshift_variant,p.Phe856SerfsTer6,ENST00000511294,;EPHA5,frameshift_variant,p.Phe692SerfsTer6,ENST00000432638,;EPHA5,frameshift_variant,p.Phe833SerfsTer6,ENST00000354839,;	-	ENSG00000145242	ENST00000273854	Transcript	frameshift_variant	3165-3183	2564-2582	855-861	FTSASDV/X	tTTACTTCTGCCAGTGATGTc/tc	.	.	.	-1	EPHA5	HGNC	3389	protein_coding	YES	CCDS3513.1	ENSP00000273854	EPHA5_HUMAN	.	UPI000013D9D9	.	.	.	15/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF17,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000666,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTCCAGACATCACTGGCAGAAGTAAACTTT	.	3	BLCA
SHROOM3	0	.	GRCh37	4	77661352	77661352	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2026A>C	p.Ser676Arg	p.S676R	ENST00000296043	5/11	46	42	4	63	63	0	SHROOM3,missense_variant,p.Ser676Arg,ENST00000296043,;SHROOM3,intron_variant,,ENST00000469923,;SHROOM3,downstream_gene_variant,,ENST00000473602,;SHROOM3,downstream_gene_variant,,ENST00000481002,;SHROOM3,non_coding_transcript_exon_variant,,ENST00000486758,;	C	ENSG00000138771	ENST00000296043	Transcript	missense_variant	2979	2026	676	S/R	Agc/Cgc	.	.	.	1	SHROOM3	HGNC	30422	protein_coding	YES	CCDS3579.2	ENSP00000296043	SHRM3_HUMAN	.	UPI0000E5AC1C	.	deleterious(0.01)	possibly_damaging(0.708)	5/11	.	hmmpanther:PTHR15012:SF33,hmmpanther:PTHR15012	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GACACAGCAGC	.	3	BLCA
GRID2	0	.	GRCh37	4	94693316	94693316	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2691C>A	p.%3D	p.T897T	ENST00000282020	16/16	73	69	4	120	120	0	GRID2,synonymous_variant,p.%3D,ENST00000282020,;GRID2,synonymous_variant,p.%3D,ENST00000510992,;	A	ENSG00000152208	ENST00000282020	Transcript	synonymous_variant	2949	2691	897	T	acC/acA	.	.	.	1	GRID2	HGNC	4576	protein_coding	YES	CCDS3637.1	ENSP00000282020	GRID2_HUMAN	Q4W5S4_HUMAN,Q4W5L9_HUMAN,Q4W5F4_HUMAN,Q4W5B7_HUMAN,D6R976_HUMAN	UPI00001AEA78	.	.	.	16/16	.	hmmpanther:PTHR18966:SF109,hmmpanther:PTHR18966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TCCACCTCGTC	.	2	BLCA
ZNF622	0	.	GRCh37	5	16465345	16465345	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430C>A	p.Pro144Thr	p.P144T	ENST00000308683	1/6	107	72	35	73	73	0	ZNF622,missense_variant,p.Pro144Thr,ENST00000308683,;	T	ENSG00000173545	ENST00000308683	Transcript	missense_variant	557	430	144	P/T	Ccc/Acc	.	.	.	-1	ZNF622	HGNC	30958	protein_coding	YES	CCDS3886.1	ENSP00000310042	ZN622_HUMAN	.	UPI0000072102	.	tolerated(0.09)	possibly_damaging(0.839)	1/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTGGGAGACA	.	5	BLCA
ERAP2	0	.	GRCh37	5	96244818	96244818	+	Silent	SNP	C	C	A	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2166C>A	p.%3D	p.L722L	ENST00000437043	14/19	50	28	22	73	73	0	ERAP2,synonymous_variant,p.%3D,ENST00000379904,;ERAP2,synonymous_variant,p.%3D,ENST00000437043,;ERAP2,upstream_gene_variant,,ENST00000512869,;ERAP2,downstream_gene_variant,,ENST00000510373,;CTD-2260A17.2,intron_variant,,ENST00000501338,;ERAP2,3_prime_UTR_variant,,ENST00000513084,;ERAP2,non_coding_transcript_exon_variant,,ENST00000515387,;	A	ENSG00000164308	ENST00000437043	Transcript	synonymous_variant	2877	2166	722	L	ctC/ctA	COSM300186	.	.	1	ERAP2	HGNC	29499	protein_coding	YES	CCDS4086.1	ENSP00000400376	ERAP2_HUMAN	D6RGW0_HUMAN	UPI0000036336	.	.	.	14/19	.	hmmpanther:PTHR11533:SF166,hmmpanther:PTHR11533,Pfam_domain:PF11838	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACCTCAAGGT	.	5	BLCA
LIN28B	0	.	GRCh37	6	105405077	105405077	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-49G>A	.	.	ENST00000345080	1/4	47	36	10	67	67	0	LIN28B,5_prime_UTR_variant,,ENST00000345080,;	A	ENSG00000187772	ENST00000345080	Transcript	5_prime_UTR_variant	155	.	.	.	.	.	.	.	1	LIN28B	HGNC	32207	protein_coding	YES	CCDS34504.1	ENSP00000344401	LN28B_HUMAN	A7E2T3_HUMAN	UPI000035E7BD	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAAAGGGAAA	.	5	BLCA
ZBTB24	0	.	GRCh37	6	109803086	109803086	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.144C>T	p.%3D	p.F48F	ENST00000230122	2/7	90	74	16	107	107	0	ZBTB24,synonymous_variant,p.%3D,ENST00000230122,;	A	ENSG00000112365	ENST00000230122	Transcript	synonymous_variant	312	144	48	F	ttC/ttT	.	.	.	-1	ZBTB24	HGNC	21143	protein_coding	YES	CCDS34509.1	ENSP00000230122	ZBT24_HUMAN	.	UPI000013C924	.	.	.	2/7	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24375:SF3,hmmpanther:PTHR24375,Gene3D:3.30.710.10,Pfam_domain:PF00651,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCCGGAAATG	.	3	BLCA
LAMA4	0	.	GRCh37	6	112476781	112476781	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1945G>A	p.Asp649Asn	p.D649N	ENST00000230538	15/39	62	45	17	88	88	0	LAMA4,missense_variant,p.Asp649Asn,ENST00000230538,;LAMA4,missense_variant,p.Asp642Asn,ENST00000424408,;LAMA4,missense_variant,p.Asp642Asn,ENST00000522006,;LAMA4,missense_variant,p.Asp642Asn,ENST00000389463,;RP1-142L7.5,non_coding_transcript_exon_variant,,ENST00000588689,;RP1-142L7.5,intron_variant,,ENST00000585373,;RP1-142L7.5,intron_variant,,ENST00000425503,;LAMA4,missense_variant,p.Asp95Asn,ENST00000523765,;	T	ENSG00000112769	ENST00000230538	Transcript	missense_variant	2343	1945	649	D/N	Gac/Aac	.	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	tolerated(0.4)	benign(0.005)	15/39	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF174	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGGTCAGTGG	.	5	BLCA
ROS1	0	.	GRCh37	6	117663566	117663566	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4666G>A	p.Gly1556Arg	p.G1556R	ENST00000368508	28/43	83	60	23	68	67	0	ROS1,missense_variant,p.Gly1550Arg,ENST00000368507,;ROS1,missense_variant,p.Gly1556Arg,ENST00000368508,;GOPC,intron_variant,,ENST00000467125,;	T	ENSG00000047936	ENST00000368508	Transcript	missense_variant	4865	4666	1556	G/R	Gga/Aga	.	.	.	-1	ROS1	HGNC	10261	protein_coding	YES	CCDS5116.1	ENSP00000357494	ROS1_HUMAN	.	UPI000013D467	.	deleterious(0)	probably_damaging(1)	28/43	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF304,hmmpanther:PTHR24416,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTCCATTTT	.	5	BLCA
ENPP3	0	.	GRCh37	6	131958597	131958607	+	Splice_Site	DEL	TGCATTGTAAG	TGCATTGTAAG	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	TGCATTGTAAG	TGCATTGTAAG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.74_78+6delGCATTGTAAGT	.	p.X25_splice	ENST00000414305	2/26	52	45	7	73	73	0	ENPP3,splice_donor_variant,,ENST00000358229,;ENPP3,splice_donor_variant,,ENST00000427148,;ENPP3,splice_donor_variant,,ENST00000357639,;ENPP3,splice_donor_variant,,ENST00000543135,;ENPP3,splice_donor_variant,,ENST00000414305,;ENPP3,upstream_gene_variant,,ENST00000470930,;ENPP3,splice_donor_variant,,ENST00000427707,;ENPP3,splice_donor_variant,,ENST00000423831,;	-	ENSG00000154269	ENST00000414305	Transcript	splice_donor_variant	401-?	73-?	25-?	.	.	.	.	.	1	ENPP3	HGNC	3358	protein_coding	YES	CCDS5148.1	ENSP00000406261	ENPP3_HUMAN	Q9UNI4_HUMAN,Q9NQM9_HUMAN,Q9H515_HUMAN,F5GY67_HUMAN	UPI000013DD9F	.	.	.	2/26	2/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	ATAGCTTGCATTGTAAGTACAA	.	2	BLCA
SYNE1	0	.	GRCh37	6	152804295	152804295	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1275G>C	p.%3D	p.L425L	ENST00000367255	14/146	108	77	30	121	121	0	SYNE1,synonymous_variant,p.%3D,ENST00000466159,;SYNE1,synonymous_variant,p.%3D,ENST00000367248,;SYNE1,synonymous_variant,p.%3D,ENST00000423061,;SYNE1,synonymous_variant,p.%3D,ENST00000448038,;SYNE1,synonymous_variant,p.%3D,ENST00000537750,;SYNE1,synonymous_variant,p.%3D,ENST00000367255,;SYNE1,synonymous_variant,p.%3D,ENST00000413186,;SYNE1,synonymous_variant,p.%3D,ENST00000341594,;SYNE1,synonymous_variant,p.%3D,ENST00000367253,;SYNE1,synonymous_variant,p.%3D,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000535896,;SYNE1,non_coding_transcript_exon_variant,,ENST00000461872,;	G	ENSG00000131018	ENST00000367255	Transcript	synonymous_variant	1877	1275	425	L	ctG/ctC	.	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	.	14/146	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCAGGGC	.	5	BLCA
OR2J2	0	.	GRCh37	6	29142124	29142124	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.712G>T	p.Val238Leu	p.V238L	ENST00000377167	1/1	83	57	25	115	115	0	OR2J2,missense_variant,p.Val238Leu,ENST00000377167,;	T	ENSG00000204700	ENST00000377167	Transcript	missense_variant	814	712	238	V/L	Gtg/Ttg	.	.	.	1	OR2J2	HGNC	8260	protein_coding	YES	CCDS43434.1	ENSP00000366372	OR2J2_HUMAN	.	UPI000004B9D1	.	deleterious(0.02)	benign(0.03)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF207,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAGTGTTT	.	5	BLCA
TRERF1	0	.	GRCh37	6	42224567	42224567	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2479G>C	p.Glu827Gln	p.E827Q	ENST00000372922	12/18	37	27	9	52	52	0	TRERF1,missense_variant,p.Glu847Gln,ENST00000541110,;TRERF1,missense_variant,p.Glu744Gln,ENST00000340840,;TRERF1,missense_variant,p.Glu827Gln,ENST00000372922,;TRERF1,missense_variant,p.Glu744Gln,ENST00000372917,;TRERF1,missense_variant,p.Glu744Gln,ENST00000354325,;	G	ENSG00000124496	ENST00000372922	Transcript	missense_variant	3042	2479	827	E/Q	Gag/Cag	.	.	.	-1	TRERF1	HGNC	18273	protein_coding	YES	CCDS4867.1	ENSP00000362013	TREF1_HUMAN	.	UPI0000052952	.	deleterious(0.04)	possibly_damaging(0.728)	12/18	.	PROSITE_profiles:PS51156,hmmpanther:PTHR16089:SF19,hmmpanther:PTHR16089,Pfam_domain:PF01448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTCTCCACTG	.	5	BLCA
TRERF1	0	.	GRCh37	6	42224703	42224703	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2474G>C	p.Arg825Thr	p.R825T	ENST00000372922	11/18	50	44	5	77	77	0	TRERF1,missense_variant,p.Arg845Thr,ENST00000541110,;TRERF1,missense_variant,p.Arg742Thr,ENST00000340840,;TRERF1,missense_variant,p.Arg825Thr,ENST00000372922,;TRERF1,missense_variant,p.Arg742Thr,ENST00000372917,;TRERF1,missense_variant,p.Arg742Thr,ENST00000354325,;	G	ENSG00000124496	ENST00000372922	Transcript	missense_variant	3037	2474	825	R/T	aGa/aCa	.	.	.	-1	TRERF1	HGNC	18273	protein_coding	YES	CCDS4867.1	ENSP00000362013	TREF1_HUMAN	.	UPI0000052952	.	tolerated(0.09)	possibly_damaging(0.537)	11/18	.	PROSITE_profiles:PS51156,hmmpanther:PTHR16089:SF19,hmmpanther:PTHR16089,Pfam_domain:PF01448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACCTCTTTGC	.	3	BLCA
TRERF1	0	.	GRCh37	6	42224725	42224725	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2452G>C	p.Glu818Gln	p.E818Q	ENST00000372922	11/18	50	46	4	81	81	0	TRERF1,missense_variant,p.Glu838Gln,ENST00000541110,;TRERF1,missense_variant,p.Glu735Gln,ENST00000340840,;TRERF1,missense_variant,p.Glu818Gln,ENST00000372922,;TRERF1,missense_variant,p.Glu735Gln,ENST00000372917,;TRERF1,missense_variant,p.Glu735Gln,ENST00000354325,;	G	ENSG00000124496	ENST00000372922	Transcript	missense_variant	3015	2452	818	E/Q	Gaa/Caa	.	.	.	-1	TRERF1	HGNC	18273	protein_coding	YES	CCDS4867.1	ENSP00000362013	TREF1_HUMAN	.	UPI0000052952	.	deleterious(0.01)	possibly_damaging(0.728)	11/18	.	PROSITE_profiles:PS51156,hmmpanther:PTHR16089:SF19,hmmpanther:PTHR16089,Pfam_domain:PF01448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTTTCTAGTT	.	2	BLCA
TRERF1	0	.	GRCh37	6	42224820	42224820	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2357G>A	p.Arg786Lys	p.R786K	ENST00000372922	11/18	73	60	13	91	91	0	TRERF1,missense_variant,p.Arg806Lys,ENST00000541110,;TRERF1,missense_variant,p.Arg703Lys,ENST00000340840,;TRERF1,missense_variant,p.Arg786Lys,ENST00000372922,;TRERF1,missense_variant,p.Arg703Lys,ENST00000372917,;TRERF1,missense_variant,p.Arg703Lys,ENST00000354325,;	T	ENSG00000124496	ENST00000372922	Transcript	missense_variant	2920	2357	786	R/K	aGa/aAa	.	.	.	-1	TRERF1	HGNC	18273	protein_coding	YES	CCDS4867.1	ENSP00000362013	TREF1_HUMAN	.	UPI0000052952	.	deleterious(0.04)	benign(0.22)	11/18	.	PROSITE_profiles:PS51156,hmmpanther:PTHR16089:SF19,hmmpanther:PTHR16089,Pfam_domain:PF01448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATCTCAAG	.	5	BLCA
DEFB112	0	.	GRCh37	6	50011361	50011361	+	Missense_Mutation	SNP	G	G	T	rs144227676	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269C>A	p.Thr90Lys	p.T90K	ENST00000322246	2/2	63	44	19	53	52	0	DEFB112,missense_variant,p.Thr90Lys,ENST00000322246,;	T	ENSG00000180872	ENST00000322246	Transcript	missense_variant	269	269	90	T/K	aCg/aAg	rs144227676,COSM742638	.	.	-1	DEFB112	HGNC	18093	protein_coding	YES	CCDS34476.1	ENSP00000319126	DB112_HUMAN	.	UPI00005E4A71	.	tolerated(0.63)	possibly_damaging(0.557)	2/2	.	.	A:0.0034	A:0.0113	A:0.0029	.	A:0	A:0	A:0	A:0.0064	A:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCCGTAGGG	byFrequency|byCluster|by1000G	5	BLCA
SPACA1	0	.	GRCh37	6	88767426	88767426	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362G>A	p.Cys121Tyr	p.C121Y	ENST00000237201	3/7	36	33	3	49	49	0	SPACA1,missense_variant,p.Cys121Tyr,ENST00000237201,;SPACA1,upstream_gene_variant,,ENST00000462690,;SPACA1,upstream_gene_variant,,ENST00000462227,;	A	ENSG00000118434	ENST00000237201	Transcript	missense_variant	479	362	121	C/Y	tGt/tAt	.	.	.	1	SPACA1	HGNC	14967	protein_coding	YES	CCDS5014.1	ENSP00000237201	SACA1_HUMAN	.	UPI000003F5A0	.	deleterious(0)	probably_damaging(0.999)	3/7	.	hmmpanther:PTHR14997,hmmpanther:PTHR14997:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGATTGTGGCT	.	4	BLCA
THSD7A	0	.	GRCh37	7	11675950	11675950	+	Missense_Mutation	SNP	G	G	A	rs766750838	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.829C>T	p.Arg277Cys	p.R277C	ENST00000423059	2/28	119	77	41	120	120	0	THSD7A,missense_variant,p.Arg277Cys,ENST00000423059,;THSD7A,downstream_gene_variant,,ENST00000480061,;	A	ENSG00000005108	ENST00000423059	Transcript	missense_variant	1081	829	277	R/C	Cgc/Tgc	rs766750838,COSM744038	.	.	-1	THSD7A	HGNC	22207	protein_coding	YES	CCDS47543.1	ENSP00000406482	THS7A_HUMAN	.	UPI00006C0B74	.	deleterious(0.01)	possibly_damaging(0.816)	2/28	.	hmmpanther:PTHR11311,hmmpanther:PTHR11311:SF8	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCGCGTCTCC	.	5	BLCA
CTTNBP2	0	.	GRCh37	7	117385904	117385904	+	Silent	SNP	T	T	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3516A>T	p.%3D	p.L1172L	ENST00000160373	14/23	49	43	6	55	55	0	CTTNBP2,synonymous_variant,p.%3D,ENST00000435233,;CTTNBP2,synonymous_variant,p.%3D,ENST00000446636,;CTTNBP2,synonymous_variant,p.%3D,ENST00000160373,;CTTNBP2,3_prime_UTR_variant,,ENST00000441556,;	A	ENSG00000077063	ENST00000160373	Transcript	synonymous_variant	3608	3516	1172	L	ctA/ctT	.	.	.	-1	CTTNBP2	HGNC	15679	protein_coding	YES	CCDS5774.1	ENSP00000160373	CTTB2_HUMAN	Q20BG9_HUMAN,Q20BG7_HUMAN,C9JVQ6_HUMAN,C9JFC9_HUMAN,C9J720_HUMAN	UPI000006E94A	.	.	.	14/23	.	hmmpanther:PTHR24166:SF11,hmmpanther:PTHR24166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTCTAGTAG	.	4	BLCA
TRBV6-9	0	.	GRCh37	7	142104370	142104370	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.95T>A	p.Leu32Gln	p.L32Q	ENST00000390379	2/2	73	42	31	99	99	0	TRBV6-9,missense_variant,p.Leu32Gln,ENST00000390379,;TRBV7-8,upstream_gene_variant,,ENST00000390359,;	T	ENSG00000211732	ENST00000390379	Transcript	missense_variant	95	95	32	L/Q	cTg/cAg	.	.	.	-1	TRBV6-9	HGNC	12234	TR_V_gene	YES	.	ENSP00000374902	.	.	UPI000011DFD0	.	tolerated(0.31)	benign(0.212)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23268:SF18,hmmpanther:PTHR23268,Pfam_domain:PF07686,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTCAGGATG	.	5	BLCA
MTRNR2L6	0	.	GRCh37	7	142378869	142378869	+	3'Flank	SNP	T	T	C	rs757499259	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000604952	.	108	91	16	125	124	1	MTRNR2L6,downstream_gene_variant,,ENST00000604952,;TRBV25-1,missense_variant,p.Met46Thr,ENST00000390398,;	C	ENSG00000270672	ENST00000604952	Transcript	downstream_gene_variant	.	.	.	.	.	rs757499259	.	3319	1	MTRNR2L6	HGNC	37163	protein_coding	YES	CCDS64784.1	ENSP00000473686	HMN6_HUMAN	.	UPI0001DAD806	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCATGGGCC	.	4	BLCA
TAS2R41	0	.	GRCh37	7	143175355	143175355	+	Silent	SNP	G	G	T	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.390G>T	p.%3D	p.V130V	ENST00000408916	1/1	43	38	5	34	33	0	TAS2R41,synonymous_variant,p.%3D,ENST00000408916,;EPHA1-AS1,intron_variant,,ENST00000429289,;	T	ENSG00000221855	ENST00000408916	Transcript	synonymous_variant	390	390	130	V	gtG/gtT	COSM4153931	.	.	1	TAS2R41	HGNC	18883	protein_coding	YES	CCDS43663.1	ENSP00000386201	T2R41_HUMAN	.	UPI000000D823	.	.	.	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11394:SF32,hmmpanther:PTHR11394,Gene3D:1.20.1070.10,Pfam_domain:PF05296,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGTGCCCTG	.	4	BLCA
GALNTL5	0	.	GRCh37	7	151664463	151664463	+	Silent	SNP	A	A	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132A>C	p.%3D	p.S44S	ENST00000392800	2/9	30	17	13	42	42	0	GALNTL5,synonymous_variant,p.%3D,ENST00000431418,;GALNTL5,synonymous_variant,p.%3D,ENST00000392800,;GALNTL5,upstream_gene_variant,,ENST00000468278,;GALNTL5,synonymous_variant,p.%3D,ENST00000448366,;GALNTL5,synonymous_variant,p.%3D,ENST00000414073,;GALNTL5,synonymous_variant,p.%3D,ENST00000416269,;GALNTL5,synonymous_variant,p.%3D,ENST00000416062,;GALNTL5,synonymous_variant,p.%3D,ENST00000426341,;	C	ENSG00000106648	ENST00000392800	Transcript	synonymous_variant	386	132	44	S	tcA/tcC	.	.	.	1	GALNTL5	HGNC	21725	protein_coding	YES	CCDS5929.1	ENSP00000376548	GLTL5_HUMAN	.	UPI000013C82E	.	.	.	2/9	.	hmmpanther:PTHR11675:SF17,hmmpanther:PTHR11675	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTCAGCTTG	.	5	BLCA
KMT2C	0	.	GRCh37	7	151874111	151874112	+	Frame_Shift_Del	DEL	TT	TT	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	TT	TT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8426_8427delAAinsT	p.Lys2809IlefsTer14	p.K2809Ifs*14	ENST00000262189	38/59	102	78	24	126	126	0	KMT2C,frameshift_variant,p.Lys2809IlefsTer14,ENST00000355193,;KMT2C,frameshift_variant,p.Lys315IlefsTer14,ENST00000360104,;KMT2C,frameshift_variant,p.Lys2809IlefsTer14,ENST00000262189,;KMT2C,downstream_gene_variant,,ENST00000558665,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	frameshift_variant	8645-8646	8426-8427	2809	K/X	aAA/aT	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	38/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	TGAATGTTTATCA	.	5	BLCA
SOSTDC1	0	.	GRCh37	7	16502237	16502237	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.557A>G	p.Lys186Arg	p.K186R	ENST00000307068	2/2	211	117	94	149	149	0	SOSTDC1,missense_variant,p.Lys210Arg,ENST00000396652,;SOSTDC1,missense_variant,p.Lys186Arg,ENST00000307068,;	C	ENSG00000171243	ENST00000307068	Transcript	missense_variant	738	557	186	K/R	aAg/aGg	.	.	.	-1	SOSTDC1	HGNC	21748	protein_coding	YES	CCDS5360.1	ENSP00000304930	SOSD1_HUMAN	A4D125_HUMAN	UPI000004BA5E	.	tolerated(0.39)	probably_damaging(0.992)	2/2	.	hmmpanther:PTHR14903,hmmpanther:PTHR14903:SF5,Pfam_domain:PF05463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGGCTTGGCA	.	5	BLCA
ELMO1	0	.	GRCh37	7	37298953	37298953	+	Silent	SNP	A	A	C	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.246T>G	p.%3D	p.A82A	ENST00000310758	6/22	53	34	19	49	49	0	ELMO1,synonymous_variant,p.%3D,ENST00000442504,;ELMO1,synonymous_variant,p.%3D,ENST00000310758,;ELMO1,synonymous_variant,p.%3D,ENST00000455879,;ELMO1,synonymous_variant,p.%3D,ENST00000448602,;ELMO1,synonymous_variant,p.%3D,ENST00000455119,;	C	ENSG00000155849	ENST00000310758	Transcript	synonymous_variant	894	246	82	A	gcT/gcG	COSM1089427	.	.	-1	ELMO1	HGNC	16286	protein_coding	YES	CCDS5449.1	ENSP00000312185	ELMO1_HUMAN	C9JIW2_HUMAN,C9JB20_HUMAN,C9J5X3_HUMAN,B4DJV6_HUMAN,A4D1X5_HUMAN	UPI000006F687	.	.	.	6/22	.	hmmpanther:PTHR12771:SF23,hmmpanther:PTHR12771,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTGAGCCTT	.	5	BLCA
MMD2	0	.	GRCh37	7	4965126	4965126	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85C>A	p.Gln29Lys	p.Q29K	ENST00000404774	2/7	110	63	46	112	112	0	MMD2,missense_variant,p.Gln29Lys,ENST00000406755,;MMD2,missense_variant,p.Gln29Lys,ENST00000401401,;MMD2,missense_variant,p.Gln29Lys,ENST00000404774,;	T	ENSG00000136297	ENST00000404774	Transcript	missense_variant	280	85	29	Q/K	Cag/Aag	.	.	.	-1	MMD2	HGNC	30133	protein_coding	YES	CCDS47529.1	ENSP00000384690	PAQRA_HUMAN	.	UPI000016199F	.	tolerated(0.55)	benign(0.005)	2/7	.	hmmpanther:PTHR20855,hmmpanther:PTHR20855:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTGGTACC	.	5	BLCA
DAGLB	0	.	GRCh37	7	6474597	6474604	+	Frame_Shift_Del	DEL	AAGAGGGT	AAGAGGGT	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	AAGAGGGT	AAGAGGGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.467_474delACCCTCTT	p.Asp156GlyfsTer17	p.D156Gfs*17	ENST00000297056	4/15	94	61	33	90	90	0	DAGLB,frameshift_variant,p.Asp29GlyfsTer17,ENST00000428902,;DAGLB,frameshift_variant,p.Asp156GlyfsTer17,ENST00000297056,;DAGLB,frameshift_variant,p.Asp115GlyfsTer17,ENST00000436575,;DAGLB,intron_variant,,ENST00000421761,;DAGLB,intron_variant,,ENST00000425398,;DAGLB,intron_variant,,ENST00000432248,;DAGLB,downstream_gene_variant,,ENST00000479922,;DAGLB,intron_variant,,ENST00000454738,;	-	ENSG00000164535	ENST00000297056	Transcript	frameshift_variant	637-644	467-474	156-158	DPL/X	gACCCTCTT/g	.	.	.	-1	DAGLB	HGNC	28923	protein_coding	YES	CCDS5350.1	ENSP00000297056	DGLB_HUMAN	E7ET49_HUMAN,B3KR38_HUMAN	UPI000006E01F	.	.	.	4/15	.	hmmpanther:PTHR21493:SF8,hmmpanther:PTHR21493	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCCCCAAGAGGGTCAAAG	.	3	BLCA
PRKAR1B	0	.	GRCh37	7	720190	720190	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.348+3G>A	.	.	ENST00000406797	.	27	20	7	21	21	0	PRKAR1B,splice_region_variant,,ENST00000544935,;PRKAR1B,splice_region_variant,,ENST00000414568,;PRKAR1B,splice_region_variant,,ENST00000403562,;PRKAR1B,splice_region_variant,,ENST00000406797,;PRKAR1B,splice_region_variant,,ENST00000417852,;PRKAR1B,splice_region_variant,,ENST00000360274,;PRKAR1B,splice_region_variant,,ENST00000430040,;PRKAR1B,splice_region_variant,,ENST00000537384,;PRKAR1B,downstream_gene_variant,,ENST00000456696,;	T	ENSG00000188191	ENST00000406797	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	PRKAR1B	HGNC	9390	protein_coding	YES	CCDS34579.1	ENSP00000385749	KAP1_HUMAN	C9JSK5_HUMAN,C9J4C2_HUMAN,C9IZL8_HUMAN	UPI000021C478	.	.	.	.	3/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCACCTT	.	4	BLCA
BNIP3L	0	.	GRCh37	8	26238051	26238051	+	5'Flank	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000380629	.	30	22	8	62	62	0	BNIP3L,upstream_gene_variant,,ENST00000380629,;BNIP3L,upstream_gene_variant,,ENST00000523949,;BNIP3L,upstream_gene_variant,,ENST00000520409,;BNIP3L,upstream_gene_variant,,ENST00000523515,;SDAD1P1,non_coding_transcript_exon_variant,,ENST00000519902,;BNIP3L,upstream_gene_variant,,ENST00000520077,;SDAD1P1,non_coding_transcript_exon_variant,,ENST00000524156,;	G	ENSG00000104765	ENST00000380629	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2363	1	BNIP3L	HGNC	1085	protein_coding	YES	CCDS6050.1	ENSP00000370003	BNI3L_HUMAN	Q6IBV1_HUMAN,B4DTN1_HUMAN,B0AZS9_HUMAN	UPI000004CF4D	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACTCAAGCT	.	5	BLCA
BNIP3L	0	.	GRCh37	8	26238397	26238397	+	5'Flank	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000380629	.	83	49	34	103	103	0	BNIP3L,upstream_gene_variant,,ENST00000380629,;BNIP3L,upstream_gene_variant,,ENST00000523949,;BNIP3L,upstream_gene_variant,,ENST00000520409,;BNIP3L,upstream_gene_variant,,ENST00000523515,;SDAD1P1,non_coding_transcript_exon_variant,,ENST00000519902,;BNIP3L,upstream_gene_variant,,ENST00000520077,;SDAD1P1,non_coding_transcript_exon_variant,,ENST00000524156,;	T	ENSG00000104765	ENST00000380629	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2017	1	BNIP3L	HGNC	1085	protein_coding	YES	CCDS6050.1	ENSP00000370003	BNI3L_HUMAN	Q6IBV1_HUMAN,B4DTN1_HUMAN,B0AZS9_HUMAN	UPI000004CF4D	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCTTCTGTAG	.	5	BLCA
PXDNL	0	.	GRCh37	8	52321636	52321636	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2548G>A	p.Ala850Thr	p.A850T	ENST00000356297	17/23	29	24	5	38	38	0	PXDNL,missense_variant,p.Ala850Thr,ENST00000543296,;PXDNL,missense_variant,p.Ala850Thr,ENST00000356297,;PXDNL,upstream_gene_variant,,ENST00000522933,;PXDNL,missense_variant,p.Ala116Thr,ENST00000522628,;	T	ENSG00000147485	ENST00000356297	Transcript	missense_variant	2649	2548	850	A/T	Gcc/Acc	.	.	.	-1	PXDNL	HGNC	26359	protein_coding	YES	CCDS47855.1	ENSP00000348645	PXDNL_HUMAN	.	UPI0001AE6ED6	.	tolerated(0.18)	benign(0.004)	17/23	.	PROSITE_profiles:PS50292,hmmpanther:PTHR11475:SF38,hmmpanther:PTHR11475,Pfam_domain:PF03098,Superfamily_domains:SSF48113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCGGCGTGCC	.	4	BLCA
KCNB2	0	.	GRCh37	8	73479980	73479980	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11A>T	p.Lys4Met	p.K4M	ENST00000523207	2/3	102	75	26	95	95	0	KCNB2,missense_variant,p.Lys4Met,ENST00000523207,;	T	ENSG00000182674	ENST00000523207	Transcript	missense_variant	599	11	4	K/M	aAg/aTg	.	.	.	1	KCNB2	HGNC	6232	protein_coding	YES	CCDS6209.1	ENSP00000430846	KCNB2_HUMAN	.	UPI000012DC85	.	deleterious_low_confidence(0.02)	probably_damaging(0.962)	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAAAGGCTC	.	5	BLCA
SLC26A7	0	.	GRCh37	8	92375759	92375759	+	Missense_Mutation	SNP	T	T	C	rs776120600	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1481T>C	p.Met494Thr	p.M494T	ENST00000309536	13/19	87	58	29	72	72	0	SLC26A7,missense_variant,p.Met494Thr,ENST00000276609,;SLC26A7,missense_variant,p.Met494Thr,ENST00000309536,;SLC26A7,missense_variant,p.Met494Thr,ENST00000523719,;SLC26A7,non_coding_transcript_exon_variant,,ENST00000517930,;SLC26A7,non_coding_transcript_exon_variant,,ENST00000520249,;SLC26A7,3_prime_UTR_variant,,ENST00000522181,;	C	ENSG00000147606	ENST00000309536	Transcript	missense_variant	1701	1481	494	M/T	aTg/aCg	rs776120600	.	.	1	SLC26A7	HGNC	14467	protein_coding	YES	CCDS6255.1	ENSP00000309504	S26A7_HUMAN	E5RFH2_HUMAN	UPI0000046B1C	.	tolerated(0.58)	benign(0.001)	13/19	.	PROSITE_profiles:PS50801,hmmpanther:PTHR11814:SF75,hmmpanther:PTHR11814,Gene3D:3.30.750.24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAAATGGACA	.	5	BLCA
DOLK	0	.	GRCh37	9	131707839	131707839	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*127C>T	.	.	ENST00000372586	1/1	16	10	6	14	14	0	DOLK,3_prime_UTR_variant,,ENST00000372586,;RP11-101E3.5,intron_variant,,ENST00000482796,;PHYHD1,downstream_gene_variant,,ENST00000421063,;PHYHD1,downstream_gene_variant,,ENST00000308941,;PHYHD1,downstream_gene_variant,,ENST00000419872,;PHYHD1,downstream_gene_variant,,ENST00000372592,;PHYHD1,downstream_gene_variant,,ENST00000353176,;PHYHD1,downstream_gene_variant,,ENST00000442837,;NUP188,upstream_gene_variant,,ENST00000372577,;NUP188,upstream_gene_variant,,ENST00000550219,;NUP188,upstream_gene_variant,,ENST00000491990,;PHYHD1,downstream_gene_variant,,ENST00000487504,;PHYHD1,downstream_gene_variant,,ENST00000424503,;PHYHD1,downstream_gene_variant,,ENST00000412476,;NUP188,upstream_gene_variant,,ENST00000464729,;	A	ENSG00000175283	ENST00000372586	Transcript	3_prime_UTR_variant	2060	.	.	.	.	.	.	.	-1	DOLK	HGNC	23406	protein_coding	YES	CCDS6915.1	ENSP00000361667	DOLK_HUMAN	.	UPI0000001C36	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCTGAATCA	.	5	BLCA
REXO4	0	.	GRCh37	9	136277437	136277437	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892C>A	p.Pro298Thr	p.P298T	ENST00000371942	4/8	167	130	36	183	183	0	REXO4,missense_variant,p.Pro298Thr,ENST00000371942,;REXO4,intron_variant,,ENST00000371935,;REXO4,intron_variant,,ENST00000454825,;REXO4,downstream_gene_variant,,ENST00000445916,;REXO4,non_coding_transcript_exon_variant,,ENST00000478037,;REXO4,non_coding_transcript_exon_variant,,ENST00000494045,;ADAMTS13,upstream_gene_variant,,ENST00000485925,;	T	ENSG00000148300	ENST00000371942	Transcript	missense_variant	1092	892	298	P/T	Cct/Act	.	.	.	-1	REXO4	HGNC	12820	protein_coding	YES	CCDS6969.1	ENSP00000361010	REXO4_HUMAN	B4E331_HUMAN,B4DJ95_HUMAN	UPI00000373DC	.	deleterious(0)	probably_damaging(0.991)	4/8	.	hmmpanther:PTHR12801,hmmpanther:PTHR12801:SF49,Gene3D:3.30.420.10,Pfam_domain:PF00929,SMART_domains:SM00479,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAGGCCGAA	.	5	BLCA
LHX3	0	.	GRCh37	9	139092446	139092446	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.248G>C	p.Cys83Ser	p.C83S	ENST00000371746	2/6	23	19	4	34	34	0	LHX3,missense_variant,p.Cys83Ser,ENST00000371746,;LHX3,missense_variant,p.Cys78Ser,ENST00000371748,;	G	ENSG00000107187	ENST00000371746	Transcript	missense_variant	367	248	83	C/S	tGc/tCc	.	.	.	-1	LHX3	HGNC	6595	protein_coding	YES	CCDS6995.1	ENSP00000360811	LHX3_HUMAN	F1T0D9_HUMAN,F1T0D8_HUMAN	UPI000002AD3D	.	deleterious(0)	probably_damaging(0.977)	2/6	.	Superfamily_domains:SSF57716,SMART_domains:SM00132,Gene3D:2.10.110.10,Pfam_domain:PF00412,hmmpanther:PTHR24208,hmmpanther:PTHR24208:SF65,PROSITE_profiles:PS50023	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTGCAGTAA	.	4	BLCA
ZNF658	0	.	GRCh37	9	40773305	40773305	+	Missense_Mutation	SNP	G	G	T	rs146060713	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1970C>A	p.Pro657His	p.P657H	ENST00000602553	5/5	277	226	51	308	308	0	ZNF658,missense_variant,p.Pro657His,ENST00000377626,;ZNF658,missense_variant,p.Pro657His,ENST00000602553,;ZNF658,intron_variant,,ENST00000441795,;ZNF658,intron_variant,,ENST00000479710,;	T	ENSG00000196409	ENST00000602553	Transcript	missense_variant	2265	1970	657	P/H	cCc/cAc	rs146060713,COSM3657565	.	.	-1	ZNF658	HGNC	25226	protein_coding	YES	CCDS35023.1	ENSP00000473484	ZN658_HUMAN	B3KNB1_HUMAN	UPI000046D388	.	deleterious(0)	probably_damaging(0.999)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF256,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATAGGGTTTC	byCluster	4	BLCA
TRPM3	0	.	GRCh37	9	73164573	73164573	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3556G>A	p.Asp1186Asn	p.D1186N	ENST00000377110	24/25	31	17	14	41	41	0	TRPM3,missense_variant,p.Asp1186Asn,ENST00000377111,;TRPM3,missense_variant,p.Asp1058Asn,ENST00000377106,;TRPM3,missense_variant,p.Asp1048Asn,ENST00000360823,;TRPM3,missense_variant,p.Asp1048Asn,ENST00000358082,;TRPM3,missense_variant,p.Asp1058Asn,ENST00000396292,;TRPM3,missense_variant,p.Asp1035Asn,ENST00000396280,;TRPM3,missense_variant,p.Asp1213Asn,ENST00000423814,;TRPM3,missense_variant,p.Asp1045Asn,ENST00000408909,;TRPM3,missense_variant,p.Asp1190Asn,ENST00000357533,;TRPM3,missense_variant,p.Asp1186Asn,ENST00000377110,;TRPM3,missense_variant,p.Asp1045Asn,ENST00000377105,;TRPM3,missense_variant,p.Asp1045Asn,ENST00000396285,;	T	ENSG00000083067	ENST00000377110	Transcript	missense_variant	3800	3556	1186	D/N	Gat/Aat	.	.	.	-1	TRPM3	HGNC	17992	protein_coding	YES	CCDS43835.1	ENSP00000366314	TRPM3_HUMAN	.	UPI0001596895	.	deleterious(0.02)	probably_damaging(0.998)	24/25	.	hmmpanther:PTHR13800,hmmpanther:PTHR13800:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCATCGG	.	5	BLCA
PTPRD	0	.	GRCh37	9	8404587	8404587	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4160C>T	p.Ala1387Val	p.A1387V	ENST00000381196	33/43	37	32	5	61	61	0	PTPRD,missense_variant,p.Ala980Val,ENST00000397617,;PTPRD,missense_variant,p.Ala980Val,ENST00000486161,;PTPRD,missense_variant,p.Ala1365Val,ENST00000358503,;PTPRD,missense_variant,p.Ala1374Val,ENST00000360074,;PTPRD,missense_variant,p.Ala1387Val,ENST00000381196,;PTPRD,missense_variant,p.Ala980Val,ENST00000397606,;PTPRD,missense_variant,p.Ala1387Val,ENST00000356435,;PTPRD,missense_variant,p.Ala981Val,ENST00000355233,;PTPRD,missense_variant,p.Ala977Val,ENST00000397611,;PTPRD,missense_variant,p.Ala1387Val,ENST00000540109,;PTPRD,missense_variant,p.Ala977Val,ENST00000537002,;	A	ENSG00000153707	ENST00000381196	Transcript	missense_variant	4704	4160	1387	A/V	gCg/gTg	.	.	.	-1	PTPRD	HGNC	9668	protein_coding	YES	CCDS43786.1	ENSP00000370593	PTPRD_HUMAN	C9J6E4_HUMAN,B4DK48_HUMAN	UPI0000132990	.	deleterious(0)	possibly_damaging(0.626)	33/43	.	Superfamily_domains:SSF52799,SMART_domains:SM00194,Pfam_domain:PF00102,Gene3D:3.90.190.10,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF204,PROSITE_profiles:PS50055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.A1387A|c.4161G>A|3,CODON|p.A1387A|c.4161G>A|3,CODON|p.A858A|c.2574G>A|3,CODON|p.A981A|c.2943G>A|3	RADIA|MUTECT|MUSE|VARSCANS	CATTCGCGTAT	.	4	BLCA
SEMA4D	0	.	GRCh37	9	92017904	92017904	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.134C>A	p.Pro45Gln	p.P45Q	ENST00000450295	4/16	57	48	9	81	81	0	SEMA4D,missense_variant,p.Pro45Gln,ENST00000420681,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000450295,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000420987,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000438547,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000540475,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000343780,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000422704,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000433650,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000455551,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000339861,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000418828,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000356444,;SEMA4D,downstream_gene_variant,,ENST00000420670,;SEMA4D,downstream_gene_variant,,ENST00000464051,;SEMA4D,downstream_gene_variant,,ENST00000482128,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000429836,;SEMA4D,missense_variant,p.Pro45Gln,ENST00000537934,;	T	ENSG00000187764	ENST00000450295	Transcript	missense_variant	911	134	45	P/Q	cCa/cAa	.	.	.	-1	SEMA4D	HGNC	10732	protein_coding	YES	CCDS6685.1	ENSP00000416523	SEM4D_HUMAN	F5H044_HUMAN,C9JYS7_HUMAN,C9JFP1_HUMAN,C9JD54_HUMAN	UPI0000135A6C	.	deleterious(0.04)	benign(0.027)	4/16	.	Superfamily_domains:SSF101912,Gene3D:2.130.10.10,hmmpanther:PTHR11036:SF18,hmmpanther:PTHR11036,PROSITE_profiles:PS51004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTCTGGCTCA	.	5	BLCA
TEX13B	0	.	GRCh37	X	107224560	107224560	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.689C>T	p.Ala230Val	p.A230V	ENST00000302917	3/3	179	137	41	149	149	0	TEX13B,missense_variant,p.Ala230Val,ENST00000302917,;	A	ENSG00000170925	ENST00000302917	Transcript	missense_variant	782	689	230	A/V	gCa/gTa	.	.	.	-1	TEX13B	HGNC	11736	protein_coding	YES	CCDS14534.1	ENSP00000303777	TX13B_HUMAN	.	UPI0000042206	.	tolerated(0.3)	benign(0.051)	3/3	.	hmmpanther:PTHR23111,hmmpanther:PTHR23111:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTGCTACA	.	5	BLCA
GPR50	0	.	GRCh37	X	150349203	150349203	+	Missense_Mutation	SNP	C	C	A	rs747308998	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1148C>A	p.Ser383Tyr	p.S383Y	ENST00000218316	2/2	94	83	11	79	79	0	GPR50,missense_variant,p.Ser383Tyr,ENST00000218316,;AF003625.3,upstream_gene_variant,,ENST00000602313,;GPR50-AS1,upstream_gene_variant,,ENST00000454196,;	A	ENSG00000102195	ENST00000218316	Transcript	missense_variant	1217	1148	383	S/Y	tCt/tAt	rs747308998	.	.	1	GPR50	HGNC	4506	protein_coding	YES	CCDS44012.1	ENSP00000218316	MTR1L_HUMAN	.	UPI000013C755	.	deleterious_low_confidence(0)	possibly_damaging(0.903)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTCTGGCC	.	4	BLCA
MAGEA6	0	.	GRCh37	X	151870250	151870250	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.940G>C	p.Glu314Gln	p.E314Q	ENST00000329342	3/3	165	97	67	157	157	0	MAGEA6,missense_variant,p.Glu314Gln,ENST00000329342,;MAGEA6,downstream_gene_variant,,ENST00000412733,;MAGEA6,downstream_gene_variant,,ENST00000457643,;	C	ENSG00000197172	ENST00000329342	Transcript	missense_variant	1165	940	314	E/Q	Gag/Cag	.	.	.	1	MAGEA6	HGNC	6804	protein_coding	YES	CCDS14708.1	ENSP00000329199	MAGA6_HUMAN	E7EUF2_HUMAN,E7ETG4_HUMAN,B9A060_HUMAN	UPI000000D9B0	.	deleterious(0.01)	probably_damaging(0.998)	3/3	.	hmmpanther:PTHR11736:SF60,hmmpanther:PTHR11736	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGAAGAGTGA	.	5	BLCA
OPN1LW	0	.	GRCh37	X	153421925	153421925	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901C>A	p.Pro301Thr	p.P301T	ENST00000369951	5/6	436	376	60	427	427	0	OPN1LW,missense_variant,p.Pro301Thr,ENST00000369951,;OPN1LW,intron_variant,,ENST00000442922,;TEX28P2,downstream_gene_variant,,ENST00000369941,;OPN1LW,downstream_gene_variant,,ENST00000463296,;	A	ENSG00000102076	ENST00000369951	Transcript	missense_variant	961	901	301	P/T	Cct/Act	COSM3559677,COSM1557031,COSM1557030,COSM3559676	.	.	1	OPN1LW	HGNC	9936	protein_coding	YES	CCDS14742.1	ENSP00000358967	OPSR_HUMAN	.	UPI0000113560	.	tolerated(0.07)	probably_damaging(1)	5/6	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24240:SF17,hmmpanther:PTHR24240,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00238,Prints_domain:PR00575	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCACCCTTTG	.	4	BLCA
GPR64	0	.	GRCh37	X	19009041	19009041	+	Missense_Mutation	SNP	G	G	T	rs773705029	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2995C>A	p.Arg999Ser	p.R999S	ENST00000379869	29/29	138	101	37	149	149	0	GPR64,missense_variant,p.Arg880Ser,ENST00000340581,;GPR64,missense_variant,p.Arg969Ser,ENST00000357544,;GPR64,missense_variant,p.Arg999Ser,ENST00000379869,;GPR64,missense_variant,p.Arg977Ser,ENST00000360279,;GPR64,missense_variant,p.Arg983Ser,ENST00000379878,;GPR64,missense_variant,p.Arg975Ser,ENST00000379876,;GPR64,missense_variant,p.Arg948Ser,ENST00000379873,;GPR64,missense_variant,p.Arg996Ser,ENST00000357991,;GPR64,missense_variant,p.Arg985Ser,ENST00000356606,;GPR64,missense_variant,p.Arg983Ser,ENST00000354791,;	T	ENSG00000173698	ENST00000379869	Transcript	missense_variant	3159	2995	999	R/S	Cgt/Agt	rs773705029	.	.	-1	GPR64	HGNC	4516	protein_coding	YES	CCDS43923.1	ENSP00000369198	GPR64_HUMAN	.	UPI000021246C	.	deleterious_low_confidence(0.03)	probably_damaging(0.949)	29/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATACGGCCTT	byFrequency	5	BLCA
MAGEB18	0	.	GRCh37	X	26158023	26158023	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.921G>C	p.Leu307Phe	p.L307F	ENST00000325250	2/3	27	21	6	26	26	0	MAGEB18,missense_variant,p.Leu307Phe,ENST00000325250,;	C	ENSG00000176774	ENST00000325250	Transcript	missense_variant	1108	921	307	L/F	ttG/ttC	COSM4108791	.	.	1	MAGEB18	HGNC	28515	protein_coding	YES	CCDS14216.1	ENSP00000314543	MAGBI_HUMAN	.	UPI00001415E3	.	deleterious(0)	probably_damaging(0.953)	2/3	.	hmmpanther:PTHR11736,hmmpanther:PTHR11736:SF23	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTTGAGGGA	.	5	BLCA
GNL3L	0	.	GRCh37	X	54584888	54584892	+	Frame_Shift_Del	DEL	ATTGC	ATTGC	-	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	ATTGC	ATTGC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1467_1471delTTGCA	p.Cys490GlnfsTer11	p.C490Qfs*11	ENST00000336470	15/16	107	83	24	124	124	0	GNL3L,frameshift_variant,p.Cys490GlnfsTer11,ENST00000360845,;GNL3L,frameshift_variant,p.Cys490GlnfsTer11,ENST00000336470,;	-	ENSG00000130119	ENST00000336470	Transcript	frameshift_variant	1605-1609	1466-1470	489-490	YC/X	tATTGC/t	.	.	.	1	GNL3L	HGNC	25553	protein_coding	YES	CCDS14360.1	ENSP00000338573	GNL3L_HUMAN	.	UPI000006CF81	.	.	.	15/16	.	hmmpanther:PTHR11089,hmmpanther:PTHR11089:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTGGGTATTGCACCAA	.	3	BLCA
AMER1	0	.	GRCh37	X	63410258	63410258	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2909C>T	p.Pro970Leu	p.P970L	ENST00000330258	2/2	21	14	7	28	28	0	AMER1,missense_variant,p.Pro970Leu,ENST00000330258,;AMER1,intron_variant,,ENST00000374869,;AMER1,intron_variant,,ENST00000403336,;	A	ENSG00000184675	ENST00000330258	Transcript	missense_variant	3182	2909	970	P/L	cCa/cTa	.	.	.	-1	AMER1	HGNC	26837	protein_coding	YES	CCDS14377.2	ENSP00000329117	AMER1_HUMAN	.	UPI0000EDA0FC	.	tolerated(0.34)	benign(0.014)	2/2	.	hmmpanther:PTHR22237,hmmpanther:PTHR22237:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTGGCCCC	.	5	BLCA
OPHN1	0	.	GRCh37	X	67518914	67518914	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-AAMT-01A-11D-A42E-08	TCGA-XF-AAMT-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.179T>G	p.Phe60Cys	p.F60C	ENST00000355520	3/25	59	51	8	91	91	0	OPHN1,missense_variant,p.Phe60Cys,ENST00000355520,;OPHN1,missense_variant,p.Phe60Cys,ENST00000540071,;OPHN1,non_coding_transcript_exon_variant,,ENST00000486068,;	C	ENSG00000079482	ENST00000355520	Transcript	missense_variant	821	179	60	F/C	tTt/tGt	.	.	.	-1	OPHN1	HGNC	8148	protein_coding	YES	CCDS14388.1	ENSP00000347710	OPHN1_HUMAN	Q7Z2H1_HUMAN	UPI000003319E	.	deleterious(0)	probably_damaging(0.998)	3/25	.	hmmpanther:PTHR12552:SF2,hmmpanther:PTHR12552,Gene3D:1y2oA00,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGAAAATTTC	.	4	BLCA
CNNM2	0	.	GRCh37	10	104679621	104679621	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1384G>A	p.Glu462Lys	p.E462K	ENST00000369878	1/8	38	15	23	40	40	0	CNNM2,missense_variant,p.Glu462Lys,ENST00000369878,;CNNM2,missense_variant,p.Glu462Lys,ENST00000433628,;CNNM2,missense_variant,p.Glu462Lys,ENST00000369875,;RP11-724N1.1,downstream_gene_variant,,ENST00000610034,;	A	ENSG00000148842	ENST00000369878	Transcript	missense_variant	1572	1384	462	E/K	Gaa/Aaa	.	.	.	1	CNNM2	HGNC	103	protein_coding	YES	CCDS44474.1	ENSP00000358894	CNNM2_HUMAN	.	UPI0000231CA6	.	deleterious(0)	benign(0.035)	1/8	.	PROSITE_profiles:PS51371,hmmpanther:PTHR12064,hmmpanther:PTHR12064:SF22,Gene3D:3.10.580.10,Superfamily_domains:SSF54631	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGCGAAGCC	.	5	BLCA
NRAP	0	.	GRCh37	10	115402729	115402729	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1179C>G	p.Phe393Leu	p.F393L	ENST00000359988	12/42	100	49	50	91	91	0	NRAP,missense_variant,p.Phe393Leu,ENST00000369358,;NRAP,missense_variant,p.Phe393Leu,ENST00000359988,;NRAP,intron_variant,,ENST00000369360,;NRAP,intron_variant,,ENST00000360478,;	C	ENSG00000197893	ENST00000359988	Transcript	missense_variant	1424	1179	393	F/L	ttC/ttG	.	.	.	-1	NRAP	HGNC	7988	protein_coding	YES	CCDS7579.1	ENSP00000353078	NRAP_HUMAN	.	UPI00001F9739	.	tolerated(0.11)	probably_damaging(0.989)	12/42	.	SMART_domains:SM00227,hmmpanther:PTHR11039,PROSITE_profiles:PS51216	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTGAATTG	.	5	BLCA
C10orf118	0	.	GRCh37	10	115922804	115922804	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.224G>C	p.Gly75Ala	p.G75A	ENST00000369287	2/16	100	40	60	87	87	0	C10orf118,missense_variant,p.Gly75Ala,ENST00000369287,;C10orf118,missense_variant,p.Gly75Ala,ENST00000369285,;C10orf118,missense_variant,p.Gly75Ala,ENST00000369286,;	G	ENSG00000165813	ENST00000369287	Transcript	missense_variant	491	224	75	G/A	gGa/gCa	.	.	.	-1	C10orf118	HGNC	24349	protein_coding	YES	CCDS7587.1	ENSP00000358293	CJ118_HUMAN	Q496Y1_HUMAN	UPI00001D3EF5	.	tolerated_low_confidence(0.08)	benign(0.035)	2/16	.	hmmpanther:PTHR18911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCCACCA	.	5	BLCA
MCMBP	0	.	GRCh37	10	121595165	121595165	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1600G>C	p.Glu534Gln	p.E534Q	ENST00000360003	14/16	84	27	56	50	50	0	MCMBP,missense_variant,p.Glu534Gln,ENST00000360003,;MCMBP,missense_variant,p.Glu532Gln,ENST00000369077,;MCMBP,non_coding_transcript_exon_variant,,ENST00000466047,;	G	ENSG00000197771	ENST00000360003	Transcript	missense_variant	1770	1600	534	E/Q	Gag/Cag	.	.	.	-1	MCMBP	HGNC	25782	protein_coding	YES	CCDS7617.1	ENSP00000353098	MCMBP_HUMAN	.	UPI0000070023	.	tolerated(0.08)	benign(0.049)	14/16	.	hmmpanther:PTHR13489,hmmpanther:PTHR13489:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTCCTCCA	.	5	BLCA
C10orf120	0	.	GRCh37	10	124457657	124457657	+	Silent	SNP	C	C	T	rs781314088	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.600G>A	p.%3D	p.L200L	ENST00000329446	3/3	77	27	50	41	41	0	C10orf120,synonymous_variant,p.%3D,ENST00000329446,;C10orf120,intron_variant,,ENST00000432000,;	T	ENSG00000183559	ENST00000329446	Transcript	synonymous_variant	632	600	200	L	ctG/ctA	rs781314088	.	.	-1	C10orf120	HGNC	25707	protein_coding	YES	CCDS31302.1	ENSP00000331012	CJ120_HUMAN	.	UPI00001F89D1	.	.	.	3/3	.	hmmpanther:PTHR23231:SF14,hmmpanther:PTHR23231	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACCCAGGCC	.	5	BLCA
ITGA8	0	.	GRCh37	10	15726043	15726043	+	Missense_Mutation	SNP	C	C	G	rs149496502	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.528G>C	p.Gln176His	p.Q176H	ENST00000378076	4/30	125	90	34	77	77	0	ITGA8,missense_variant,p.Gln176His,ENST00000378076,;	G	ENSG00000077943	ENST00000378076	Transcript	missense_variant	882	528	176	Q/H	caG/caC	rs149496502	.	.	-1	ITGA8	HGNC	6144	protein_coding	YES	CCDS31155.1	ENSP00000367316	ITA8_HUMAN	.	UPI00001D80A0	.	tolerated(0.13)	probably_damaging(0.999)	4/30	.	PROSITE_profiles:PS51470,hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF5,Gene3D:3nigC00,Superfamily_domains:SSF69318	.	.	.	.	.	.	.	T:0.0005	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCTGAAT	byCluster	5	BLCA
FAM188A	0	.	GRCh37	10	15821080	15821080	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1249G>A	p.Asp417Asn	p.D417N	ENST00000277632	15/15	80	55	24	36	36	0	FAM188A,missense_variant,p.Asp417Asn,ENST00000277632,;FAM188A,missense_variant,p.Asp122Asn,ENST00000378036,;FAM188A,non_coding_transcript_exon_variant,,ENST00000476912,;FAM188A,non_coding_transcript_exon_variant,,ENST00000477891,;	T	ENSG00000148481	ENST00000277632	Transcript	missense_variant	1470	1249	417	D/N	Gat/Aat	.	.	.	-1	FAM188A	HGNC	23578	protein_coding	YES	CCDS7110.1	ENSP00000277632	F188A_HUMAN	.	UPI000006E7F1	.	tolerated(0.09)	probably_damaging(0.972)	15/15	.	hmmpanther:PTHR12473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCTGTCT	.	5	BLCA
ARMC3	0	.	GRCh37	10	23257415	23257415	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.913G>C	p.Asp305His	p.D305H	ENST00000298032	8/19	102	69	33	46	46	0	ARMC3,missense_variant,p.Asp305His,ENST00000409983,;ARMC3,missense_variant,p.Asp305His,ENST00000409049,;ARMC3,missense_variant,p.Asp305His,ENST00000298032,;ARMC3,missense_variant,p.Asp42His,ENST00000376528,;ARMC3,non_coding_transcript_exon_variant,,ENST00000484642,;ARMC3,non_coding_transcript_exon_variant,,ENST00000496741,;ARMC3,downstream_gene_variant,,ENST00000468003,;	C	ENSG00000165309	ENST00000298032	Transcript	missense_variant	997	913	305	D/H	Gat/Cat	.	.	.	1	ARMC3	HGNC	30964	protein_coding	YES	CCDS7142.1	ENSP00000298032	ARMC3_HUMAN	C9JC46_HUMAN,B4DXS3_HUMAN	UPI0000161785	.	deleterious(0.04)	possibly_damaging(0.737)	8/19	.	Superfamily_domains:SSF48371,Superfamily_domains:SSF48371,SMART_domains:SM00185,Pfam_domain:PF13646,Gene3D:1.25.10.10,hmmpanther:PTHR23315:SF48,hmmpanther:PTHR23315	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATGATCGT	.	5	BLCA
MYO3A	0	.	GRCh37	10	26434459	26434459	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2501G>C	p.Gly834Ala	p.G834A	ENST00000265944	22/35	75	52	23	40	40	0	MYO3A,missense_variant,p.Gly834Ala,ENST00000265944,;MYO3A,intron_variant,,ENST00000543632,;	C	ENSG00000095777	ENST00000265944	Transcript	missense_variant	2667	2501	834	G/A	gGa/gCa	.	.	.	1	MYO3A	HGNC	7601	protein_coding	YES	CCDS7148.1	ENSP00000265944	MYO3A_HUMAN	.	UPI000014140A	.	deleterious(0)	probably_damaging(0.971)	22/35	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,Pfam_domain:PF00063,hmmpanther:PTHR13140:SF348,hmmpanther:PTHR13140,PROSITE_profiles:PS51456	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGAAAGG	.	4	BLCA
YME1L1	0	.	GRCh37	10	27406597	27406597	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1798G>C	p.Glu600Gln	p.E600Q	ENST00000326799	16/20	182	124	57	130	130	0	YME1L1,missense_variant,p.Glu600Gln,ENST00000326799,;YME1L1,missense_variant,p.Glu510Gln,ENST00000375972,;YME1L1,missense_variant,p.Glu543Gln,ENST00000376016,;	G	ENSG00000136758	ENST00000326799	Transcript	missense_variant	1947	1798	600	E/Q	Gaa/Caa	.	.	.	-1	YME1L1	HGNC	12843	protein_coding	YES	CCDS7152.1	ENSP00000318480	YMEL1_HUMAN	.	UPI000013DBDD	.	deleterious(0)	probably_damaging(1)	16/20	.	HAMAP:MF_01458,hmmpanther:PTHR23076,hmmpanther:PTHR23076:SF37,Pfam_domain:PF01434,TIGRFAM_domain:TIGR01241,Superfamily_domains:SSF140990	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCATGAT	.	5	BLCA
SVIL	0	.	GRCh37	10	29821001	29821001	+	Missense_Mutation	SNP	C	C	G	rs769459540	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1939G>C	p.Glu647Gln	p.E647Q	ENST00000375398	11/40	192	135	57	92	92	0	SVIL,missense_variant,p.Glu647Gln,ENST00000355867,;SVIL,missense_variant,p.Glu647Gln,ENST00000375398,;SVIL,intron_variant,,ENST00000375400,;	G	ENSG00000197321	ENST00000375398	Transcript	missense_variant	2389	1939	647	E/Q	Gaa/Caa	rs769459540	.	.	-1	SVIL	HGNC	11480	protein_coding	YES	CCDS7164.1	ENSP00000364547	SVIL_HUMAN	Q569J5_HUMAN	UPI0000366678	.	deleterious(0.04)	possibly_damaging(0.679)	11/40	.	hmmpanther:PTHR11977,hmmpanther:PTHR11977:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCACCAG	.	5	BLCA
PITRM1	0	.	GRCh37	10	3180444	3180444	+	Silent	SNP	G	G	A	rs779150706	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3006C>T	p.%3D	p.L1002L	ENST00000380989	26/27	82	54	27	53	53	0	PITRM1,synonymous_variant,p.%3D,ENST00000380994,;PITRM1,synonymous_variant,p.%3D,ENST00000451104,;PITRM1,synonymous_variant,p.%3D,ENST00000380989,;PITRM1,synonymous_variant,p.%3D,ENST00000224949,;PITRM1,downstream_gene_variant,,ENST00000455371,;PFKP,downstream_gene_variant,,ENST00000381125,;PFKP,downstream_gene_variant,,ENST00000381075,;PITRM1,downstream_gene_variant,,ENST00000451454,;PFKP,downstream_gene_variant,,ENST00000433193,;PFKP,downstream_gene_variant,,ENST00000381072,;PITRM1-AS1,upstream_gene_variant,,ENST00000441377,;PITRM1-AS1,upstream_gene_variant,,ENST00000598280,;PITRM1-AS1,upstream_gene_variant,,ENST00000601046,;PITRM1,non_coding_transcript_exon_variant,,ENST00000490510,;PITRM1,non_coding_transcript_exon_variant,,ENST00000464395,;PITRM1-AS1,upstream_gene_variant,,ENST00000430356,;	A	ENSG00000107959	ENST00000380989	Transcript	synonymous_variant	3045	3006	1002	L	ctC/ctT	rs779150706	.	.	-1	PITRM1	HGNC	17663	protein_coding	YES	CCDS55699.1	ENSP00000370377	PREP_HUMAN	.	UPI00015E00B2	.	.	.	26/27	.	hmmpanther:PTHR11851,hmmpanther:PTHR11851:SF68,Superfamily_domains:SSF63411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAGGAGCTT	byFrequency	5	BLCA
ANKRD30A	0	.	GRCh37	10	37447345	37447345	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1656G>C	p.%3D	p.L552L	ENST00000361713	14/36	184	122	62	95	95	0	ANKRD30A,synonymous_variant,p.%3D,ENST00000374660,;ANKRD30A,synonymous_variant,p.%3D,ENST00000361713,;ANKRD30A,synonymous_variant,p.%3D,ENST00000602533,;	C	ENSG00000148513	ENST00000361713	Transcript	synonymous_variant	1755	1656	552	L	ctG/ctC	.	.	.	1	ANKRD30A	HGNC	17234	protein_coding	YES	CCDS7193.1	ENSP00000354432	AN30A_HUMAN	R4GNA2_HUMAN	UPI0000458879	.	.	.	14/36	.	hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGAAGGT	.	5	BLCA
C10orf10	0	.	GRCh37	10	45472912	45472912	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.567C>T	p.%3D	p.S189S	ENST00000298295	2/2	136	78	58	75	75	0	C10orf10,synonymous_variant,p.%3D,ENST00000298295,;RASSF4,intron_variant,,ENST00000427758,;RASSF4,intron_variant,,ENST00000428466,;RASSF4,intron_variant,,ENST00000334940,;RASSF4,intron_variant,,ENST00000374417,;RASSF4,intron_variant,,ENST00000340258,;C10orf10,downstream_gene_variant,,ENST00000448778,;RASSF4,intron_variant,,ENST00000462822,;C10orf10,intron_variant,,ENST00000496638,;RASSF4,intron_variant,,ENST00000472561,;RASSF4,intron_variant,,ENST00000483709,;RASSF4,intron_variant,,ENST00000489171,;RASSF4,upstream_gene_variant,,ENST00000465735,;	A	ENSG00000165507	ENST00000298295	Transcript	synonymous_variant	785	567	189	S	tcC/tcT	.	.	.	-1	C10orf10	HGNC	23355	protein_coding	YES	CCDS7210.1	ENSP00000298295	DEPP_HUMAN	.	UPI000006E55C	.	.	.	2/2	.	hmmpanther:PTHR15426,Pfam_domain:PF15343	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCGGGAGGC	.	5	BLCA
FRMPD2	0	.	GRCh37	10	49376698	49376698	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3477C>T	p.%3D	p.V1159V	ENST00000374201	27/29	107	19	87	71	71	0	FRMPD2,synonymous_variant,p.%3D,ENST00000374201,;FRMPD2,synonymous_variant,p.%3D,ENST00000474573,;FRMPD2,synonymous_variant,p.%3D,ENST00000407470,;FRMPD2,synonymous_variant,p.%3D,ENST00000305531,;FRMPD2,non_coding_transcript_exon_variant,,ENST00000463706,;FRMPD2,non_coding_transcript_exon_variant,,ENST00000491130,;	A	ENSG00000170324	ENST00000374201	Transcript	synonymous_variant	3780	3477	1159	V	gtC/gtT	.	.	.	-1	FRMPD2	HGNC	28572	protein_coding	YES	CCDS31195.1	ENSP00000363317	FRPD2_HUMAN	.	UPI0000D60F5F	.	.	.	27/29	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19964:SF42,hmmpanther:PTHR19964,Pfam_domain:PF00595,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGTGACTTC	.	5	BLCA
FAM208B	0	.	GRCh37	10	5798659	5798659	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6690C>T	p.%3D	p.I2230I	ENST00000328090	16/21	109	77	32	45	45	0	FAM208B,synonymous_variant,p.%3D,ENST00000328090,;FAM208B,upstream_gene_variant,,ENST00000459693,;FAM208B,upstream_gene_variant,,ENST00000487196,;	T	ENSG00000108021	ENST00000328090	Transcript	synonymous_variant	7315	6690	2230	I	atC/atT	.	.	.	1	FAM208B	HGNC	23484	protein_coding	YES	CCDS41485.1	ENSP00000328426	F208B_HUMAN	.	UPI00004589BB	.	.	.	16/21	.	hmmpanther:PTHR16207,hmmpanther:PTHR16207:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTAATCATCAT	.	3	BLCA
FAM208B	0	.	GRCh37	10	5798685	5798685	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6716C>T	p.Ser2239Leu	p.S2239L	ENST00000328090	16/21	104	67	36	51	51	0	FAM208B,missense_variant,p.Ser2239Leu,ENST00000328090,;FAM208B,upstream_gene_variant,,ENST00000459693,;FAM208B,upstream_gene_variant,,ENST00000487196,;	T	ENSG00000108021	ENST00000328090	Transcript	missense_variant	7341	6716	2239	S/L	tCa/tTa	COSM309571,COSM427706	.	.	1	FAM208B	HGNC	23484	protein_coding	YES	CCDS41485.1	ENSP00000328426	F208B_HUMAN	.	UPI00004589BB	.	deleterious(0.05)	benign(0.104)	16/21	.	hmmpanther:PTHR16207,hmmpanther:PTHR16207:SF10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TATATCATCAC	.	3	BLCA
ANK3	0	.	GRCh37	10	61829868	61829868	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10771G>A	p.Glu3591Lys	p.E3591K	ENST00000280772	37/44	185	117	67	82	82	0	ANK3,missense_variant,p.Glu3591Lys,ENST00000280772,;ANK3,intron_variant,,ENST00000373827,;ANK3,intron_variant,,ENST00000373820,;ANK3,intron_variant,,ENST00000355288,;ANK3,intron_variant,,ENST00000511043,;ANK3,intron_variant,,ENST00000503366,;	T	ENSG00000151150	ENST00000280772	Transcript	missense_variant	10963	10771	3591	E/K	Gaa/Aaa	.	.	.	-1	ANK3	HGNC	494	protein_coding	YES	CCDS7258.1	ENSP00000280772	ANK3_HUMAN	D6RFK6_HUMAN,D6RBY7_HUMAN,B1AQT1_HUMAN	UPI0000141BA9	.	.	probably_damaging(0.956)	37/44	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCATCAG	.	5	BLCA
JMJD1C	0	.	GRCh37	10	64974483	64974483	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1444G>T	p.Glu482Ter	p.E482*	ENST00000399262	8/26	224	141	83	160	160	0	JMJD1C,stop_gained,p.Glu263Ter,ENST00000399251,;JMJD1C,stop_gained,p.Glu482Ter,ENST00000399262,;JMJD1C,stop_gained,p.Glu300Ter,ENST00000542921,;JMJD1C,stop_gained,p.Glu263Ter,ENST00000402544,;JMJD1C,downstream_gene_variant,,ENST00000469152,;JMJD1C,downstream_gene_variant,,ENST00000489372,;	A	ENSG00000171988	ENST00000399262	Transcript	stop_gained	1663	1444	482	E/*	Gaa/Taa	COSM919509,COSM919508	.	.	-1	JMJD1C	HGNC	12313	protein_coding	YES	CCDS41532.1	ENSP00000382204	JHD2C_HUMAN	.	UPI0000198BEF	.	.	.	8/26	.	hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF6	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTCCTGAG	.	5	BLCA
UNC5B	0	.	GRCh37	10	73050727	73050727	+	Silent	SNP	C	C	T	rs754467526	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1155C>T	p.%3D	p.F385F	ENST00000335350	9/17	424	271	152	203	203	0	UNC5B,synonymous_variant,p.%3D,ENST00000335350,;UNC5B,synonymous_variant,p.%3D,ENST00000373192,;	T	ENSG00000107731	ENST00000335350	Transcript	synonymous_variant	1571	1155	385	F	ttC/ttT	rs754467526	.	.	1	UNC5B	HGNC	12568	protein_coding	YES	CCDS7309.1	ENSP00000334329	UNC5B_HUMAN	.	UPI000000D753	.	.	.	9/17	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR12582:SF6,hmmpanther:PTHR12582	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCGTGGT	byFrequency	5	BLCA
CDH23	0	.	GRCh37	10	73375361	73375361	+	Missense_Mutation	SNP	C	C	G	rs769117995	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.933C>G	p.Ile311Met	p.I311M	ENST00000398809	10/14	54	40	13	26	26	0	CDH23,missense_variant,p.Ile311Met,ENST00000398809,;CDH23,missense_variant,p.Ile311Met,ENST00000398842,;CDH23,missense_variant,p.Ile102Met,ENST00000466757,;CDH23,missense_variant,p.Ile316Met,ENST00000224721,;CDH23,missense_variant,p.Ile356Met,ENST00000461841,;CDH23,missense_variant,p.Ile356Met,ENST00000299366,;CDH23,upstream_gene_variant,,ENST00000470494,;	G	ENSG00000107736	ENST00000398809	Transcript	missense_variant	1323	933	311	I/M	atC/atG	rs769117995	.	.	1	CDH23	HGNC	13733	protein_coding	.	CCDS44429.1	ENSP00000381789	CAD23_HUMAN	.	UPI000015FC45	.	deleterious(0.02)	possibly_damaging(0.662)	10/14	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF2,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCCTGAC	byFrequency	5	BLCA
ANXA7	0	.	GRCh37	10	75157941	75157941	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.257G>C	p.Gly86Ala	p.G86A	ENST00000372919	3/14	38	20	17	16	16	0	ANXA7,missense_variant,p.Gly86Ala,ENST00000372919,;ANXA7,missense_variant,p.Gly86Ala,ENST00000394847,;ANXA7,missense_variant,p.Gly86Ala,ENST00000372921,;ANXA7,intron_variant,,ENST00000535178,;ANXA7,splice_region_variant,,ENST00000492380,;	G	ENSG00000138279	ENST00000372919	Transcript	missense_variant	314	257	86	G/A	gGa/gCa	.	.	.	-1	ANXA7	HGNC	545	protein_coding	YES	CCDS7326.1	ENSP00000362010	ANXA7_HUMAN	B9ZVT2_HUMAN	UPI000013DB45	.	tolerated(0.31)	possibly_damaging(0.794)	3/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10502:SF31,hmmpanther:PTHR10502	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCCGGGA	.	5	BLCA
ANXA7	0	.	GRCh37	10	75158007	75158007	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.191G>A	p.Gly64Glu	p.G64E	ENST00000372919	3/14	42	24	18	18	18	0	ANXA7,missense_variant,p.Gly64Glu,ENST00000372919,;ANXA7,missense_variant,p.Gly64Glu,ENST00000394847,;ANXA7,missense_variant,p.Gly64Glu,ENST00000372921,;ANXA7,5_prime_UTR_variant,,ENST00000535178,;ANXA7,non_coding_transcript_exon_variant,,ENST00000492380,;	T	ENSG00000138279	ENST00000372919	Transcript	missense_variant	248	191	64	G/E	gGa/gAa	.	.	.	-1	ANXA7	HGNC	545	protein_coding	YES	CCDS7326.1	ENSP00000362010	ANXA7_HUMAN	B9ZVT2_HUMAN	UPI000013DB45	.	tolerated(0.08)	unknown(0)	3/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10502:SF31,hmmpanther:PTHR10502	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCCAGGC	.	5	BLCA
SFTPA2	0	.	GRCh37	10	81319100	81319100	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140G>C	p.Arg47Thr	p.R47T	ENST00000372325	3/6	160	124	36	79	79	0	SFTPA2,missense_variant,p.Arg47Thr,ENST00000372325,;SFTPA2,missense_variant,p.Arg47Thr,ENST00000492049,;SFTPA2,missense_variant,p.Arg47Thr,ENST00000372327,;SFTPA2,missense_variant,p.Arg47Thr,ENST00000417041,;	G	ENSG00000185303	ENST00000372325	Transcript	missense_variant	225	140	47	R/T	aGa/aCa	.	.	.	-1	SFTPA2	HGNC	10799	protein_coding	YES	CCDS41540.1	ENSP00000361400	SFPA2_HUMAN	R4GMN3_HUMAN,B7Z4Y4_HUMAN	UPI000013CAFF	.	tolerated(0.06)	probably_damaging(0.957)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24024:SF13,hmmpanther:PTHR24024,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCTCTCCCG	.	4	BLCA
LIPK	0	.	GRCh37	10	90492004	90492004	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492G>A	p.%3D	p.K164K	ENST00000404190	4/9	118	50	68	87	87	0	LIPK,synonymous_variant,p.%3D,ENST00000404190,;KRT8P38,downstream_gene_variant,,ENST00000441370,;	A	ENSG00000204021	ENST00000404190	Transcript	synonymous_variant	492	492	164	K	aaG/aaA	.	.	.	1	LIPK	HGNC	23444	protein_coding	YES	CCDS44455.1	ENSP00000383900	LIPK_HUMAN	.	UPI00000497BC	.	.	.	4/9	.	hmmpanther:PTHR11005,hmmpanther:PTHR11005:SF15,Pfam_domain:PF00561,Gene3D:3.40.50.1820,PIRSF_domain:PIRSF000862,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGCGACT	.	5	BLCA
TBC1D12	0	.	GRCh37	10	96162370	96162370	+	5'UTR	SNP	G	G	A	rs762145762	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000225235	1/13	38	18	20	28	28	0	TBC1D12,5_prime_UTR_variant,,ENST00000225235,;	A	ENSG00000108239	ENST00000225235	Transcript	5_prime_UTR_variant	110	.	.	.	.	rs762145762	.	.	1	TBC1D12	HGNC	29082	protein_coding	YES	CCDS41553.1	ENSP00000225235	TBC12_HUMAN	B9A6L3_HUMAN	UPI00001C1ED6	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCAGATGGT	byFrequency	5	BLCA
NCAM1	0	.	GRCh37	11	113085174	113085174	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1177G>A	p.Asp393Asn	p.D393N	ENST00000524665	8/19	19	11	8	21	21	0	NCAM1,missense_variant,p.Asp379Asn,ENST00000534015,;NCAM1,missense_variant,p.Asp216Asn,ENST00000533760,;NCAM1,missense_variant,p.Asp393Asn,ENST00000524665,;NCAM1,missense_variant,p.Asp333Asn,ENST00000401611,;NCAM1,missense_variant,p.Asp324Asn,ENST00000316851,;NCAM1,non_coding_transcript_exon_variant,,ENST00000527506,;NCAM1,non_coding_transcript_exon_variant,,ENST00000397957,;NCAM1,non_coding_transcript_exon_variant,,ENST00000531044,;NCAM1,non_coding_transcript_exon_variant,,ENST00000529420,;NCAM1,non_coding_transcript_exon_variant,,ENST00000528742,;NCAM1,non_coding_transcript_exon_variant,,ENST00000531915,;NCAM1,intron_variant,,ENST00000526427,;	A	ENSG00000149294	ENST00000524665	Transcript	missense_variant	1177	1177	393	D/N	Gac/Aac	.	.	.	1	NCAM1	HGNC	7656	protein_coding	YES	.	ENSP00000474028	.	S4R389_HUMAN	UPI000333505F	.	deleterious(0)	probably_damaging(0.915)	8/19	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF34,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGGAGACCCC	.	2	BLCA
USP28	0	.	GRCh37	11	113711320	113711320	+	Silent	SNP	C	C	T	rs34802473	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.534G>A	p.%3D	p.Q178Q	ENST00000003302	5/25	54	23	31	42	42	0	USP28,synonymous_variant,p.%3D,ENST00000003302,;USP28,synonymous_variant,p.%3D,ENST00000537706,;USP28,synonymous_variant,p.%3D,ENST00000545540,;USP28,synonymous_variant,p.%3D,ENST00000260188,;USP28,synonymous_variant,p.%3D,ENST00000537642,;USP28,splice_region_variant,,ENST00000542033,;USP28,synonymous_variant,p.%3D,ENST00000540438,;	T	ENSG00000048028	ENST00000003302	Transcript	synonymous_variant	603	534	178	Q	caG/caA	rs34802473	.	.	-1	USP28	HGNC	12625	protein_coding	YES	CCDS31680.1	ENSP00000003302	UBP28_HUMAN	Q96SV4_HUMAN	UPI0000137A00	.	.	.	5/25	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF110,hmmpanther:PTHR24006,PROSITE_patterns:PS00972,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATACCTGAAT	.	5	BLCA
PSMA1	0	.	GRCh37	11	14526776	14526776	+	Missense_Mutation	SNP	C	C	G	rs759228621	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772G>C	p.Glu258Gln	p.E258Q	ENST00000418988	11/11	204	125	78	101	101	0	PSMA1,missense_variant,p.Glu252Gln,ENST00000396393,;PSMA1,missense_variant,p.Glu258Gln,ENST00000418988,;PSMA1,missense_variant,p.Glu227Gln,ENST00000530457,;PSMA1,missense_variant,p.Glu252Gln,ENST00000396394,;PSMA1,3_prime_UTR_variant,,ENST00000419365,;PSMA1,non_coding_transcript_exon_variant,,ENST00000524606,;PSMA1,3_prime_UTR_variant,,ENST00000555531,;PSMA1,non_coding_transcript_exon_variant,,ENST00000528307,;PSMA1,downstream_gene_variant,,ENST00000527632,;	G	ENSG00000129084	ENST00000418988	Transcript	missense_variant	1100	772	258	E/Q	Gaa/Caa	rs759228621	.	.	-1	PSMA1	HGNC	9530	protein_coding	YES	CCDS31431.1	ENSP00000414359	PSA1_HUMAN	F5GX11_HUMAN	UPI000002B1AC	.	tolerated(0.21)	benign(0.02)	11/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11599,hmmpanther:PTHR11599:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCATCAG	byFrequency	5	BLCA
ABCC8	0	.	GRCh37	11	17430001	17430001	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2758G>T	p.Glu920Ter	p.E920*	ENST00000389817	23/39	154	101	53	63	63	0	ABCC8,stop_gained,p.Glu920Ter,ENST00000389817,;ABCC8,stop_gained,p.Glu921Ter,ENST00000302539,;ABCC8,upstream_gene_variant,,ENST00000528374,;ABCC8,stop_gained,p.Glu910Ter,ENST00000527905,;ABCC8,non_coding_transcript_exon_variant,,ENST00000526921,;ABCC8,non_coding_transcript_exon_variant,,ENST00000529967,;ABCC8,downstream_gene_variant,,ENST00000531911,;ABCC8,upstream_gene_variant,,ENST00000524561,;ABCC8,upstream_gene_variant,,ENST00000531137,;ABCC8,downstream_gene_variant,,ENST00000530147,;	A	ENSG00000006071	ENST00000389817	Transcript	stop_gained	2827	2758	920	E/*	Gaa/Taa	.	.	.	-1	ABCC8	HGNC	59	protein_coding	YES	CCDS31437.1	ENSP00000374467	ABCC8_HUMAN	.	UPI0000DBEF32	.	.	.	23/39	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24223:SF187,hmmpanther:PTHR24223,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCATTCAGACC	.	5	BLCA
TPH1	0	.	GRCh37	11	18051117	18051117	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>A	p.Asp138Asn	p.D138N	ENST00000250018	4/10	345	223	122	142	142	0	TPH1,missense_variant,p.Asp148Asn,ENST00000528338,;TPH1,missense_variant,p.Asp138Asn,ENST00000250018,;TPH1,missense_variant,p.Asp138Asn,ENST00000341556,;TPH1,missense_variant,p.Asp138Asn,ENST00000417164,;	T	ENSG00000129167	ENST00000250018	Transcript	missense_variant	975	412	138	D/N	Gac/Aac	.	.	.	-1	TPH1	HGNC	12008	protein_coding	YES	CCDS7829.1	ENSP00000250018	TPH1_HUMAN	B3VS10_HUMAN,B3VS05_HUMAN,B3VS00_HUMAN,B3VRZ5_HUMAN,B3VRZ0_HUMAN,B3VRY5_HUMAN,B3VRY0_HUMAN,B3VRX5_HUMAN,B3VRX0_HUMAN,B3VRW5_HUMAN	UPI000013CC9C	.	deleterious(0)	probably_damaging(0.987)	4/10	.	PROSITE_profiles:PS51410,hmmpanther:PTHR11473,hmmpanther:PTHR11473:SF23,TIGRFAM_domain:TIGR01270,Pfam_domain:PF00351,Gene3D:1.10.800.10,PIRSF_domain:PIRSF000336,Superfamily_domains:SSF56534,Prints_domain:PR00372	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTGTCTTTGA	.	5	BLCA
SAAL1	0	.	GRCh37	11	18124839	18124839	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190G>A	p.Glu64Lys	p.E64K	ENST00000524803	2/12	187	127	59	125	125	0	SAAL1,missense_variant,p.Glu64Lys,ENST00000529318,;SAAL1,missense_variant,p.Glu57Lys,ENST00000532452,;SAAL1,missense_variant,p.Glu64Lys,ENST00000300013,;SAAL1,missense_variant,p.Glu64Lys,ENST00000530180,;SAAL1,missense_variant,p.Glu64Lys,ENST00000524803,;SAAL1,non_coding_transcript_exon_variant,,ENST00000530736,;SAAL1,non_coding_transcript_exon_variant,,ENST00000533851,;SAAL1,missense_variant,p.Glu64Lys,ENST00000531581,;HIGD1AP5,upstream_gene_variant,,ENST00000529959,;	T	ENSG00000166788	ENST00000524803	Transcript	missense_variant	240	190	64	E/K	Gag/Aag	.	.	.	-1	SAAL1	HGNC	25158	protein_coding	YES	CCDS31439.1	ENSP00000432487	SAAL1_HUMAN	G1UCX3_HUMAN	UPI00001F9E3B	.	deleterious(0.01)	possibly_damaging(0.794)	2/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23424:SF4,hmmpanther:PTHR23424	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTCCGTCA	.	5	BLCA
MRGPRX1	0	.	GRCh37	11	18955396	18955396	+	Silent	SNP	G	G	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.936C>T	p.%3D	p.I312I	ENST00000302797	1/1	126	75	51	56	56	0	MRGPRX1,synonymous_variant,p.%3D,ENST00000302797,;RP11-583F24.8,upstream_gene_variant,,ENST00000528646,;MRGPRX1,downstream_gene_variant,,ENST00000526914,;	A	ENSG00000170255	ENST00000302797	Transcript	synonymous_variant	1161	936	312	I	atC/atT	COSM3446086	.	.	-1	MRGPRX1	HGNC	17962	protein_coding	YES	CCDS7846.1	ENSP00000305766	MRGX1_HUMAN	.	UPI000003BCCF	.	.	.	1/1	.	hmmpanther:PTHR11334,hmmpanther:PTHR11334:SF22	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E311K|c.931G>A|3	RADIA|MUTECT|MUSE	TCCAGGATTTC	.	3	BLCA
MRGPRX1	0	.	GRCh37	11	18955407	18955407	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925C>T	p.Pro309Ser	p.P309S	ENST00000302797	1/1	118	75	43	53	53	0	MRGPRX1,missense_variant,p.Pro309Ser,ENST00000302797,;RP11-583F24.8,upstream_gene_variant,,ENST00000528646,;MRGPRX1,downstream_gene_variant,,ENST00000526914,;	A	ENSG00000170255	ENST00000302797	Transcript	missense_variant	1150	925	309	P/S	Cct/Tct	.	.	.	-1	MRGPRX1	HGNC	17962	protein_coding	YES	CCDS7846.1	ENSP00000305766	MRGX1_HUMAN	.	UPI000003BCCF	.	tolerated(0.09)	benign(0.08)	1/1	.	hmmpanther:PTHR11334,hmmpanther:PTHR11334:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E311K|c.931G>A|3	RADIA|MUTECT|MUSE	CTCAGGAAGCT	.	3	BLCA
TNNT3	0	.	GRCh37	11	1955621	1955621	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.426G>A	p.%3D	p.K142K	ENST00000278317	12/16	53	37	16	15	15	0	TNNT3,synonymous_variant,p.%3D,ENST00000381548,;TNNT3,synonymous_variant,p.%3D,ENST00000381557,;TNNT3,synonymous_variant,p.%3D,ENST00000453458,;TNNT3,synonymous_variant,p.%3D,ENST00000381589,;TNNT3,synonymous_variant,p.%3D,ENST00000446240,;TNNT3,synonymous_variant,p.%3D,ENST00000381558,;TNNT3,synonymous_variant,p.%3D,ENST00000360603,;TNNT3,synonymous_variant,p.%3D,ENST00000381563,;TNNT3,synonymous_variant,p.%3D,ENST00000397304,;TNNT3,synonymous_variant,p.%3D,ENST00000381561,;TNNT3,synonymous_variant,p.%3D,ENST00000381549,;TNNT3,synonymous_variant,p.%3D,ENST00000381579,;TNNT3,synonymous_variant,p.%3D,ENST00000397301,;TNNT3,synonymous_variant,p.%3D,ENST00000344578,;TNNT3,synonymous_variant,p.%3D,ENST00000278317,;TNNT3,non_coding_transcript_exon_variant,,ENST00000492075,;TNNT3,non_coding_transcript_exon_variant,,ENST00000493234,;TNNT3,upstream_gene_variant,,ENST00000473100,;	A	ENSG00000130595	ENST00000278317	Transcript	synonymous_variant	645	426	142	K	aaG/aaA	.	.	.	1	TNNT3	HGNC	11950	protein_coding	YES	CCDS7727.1	ENSP00000278317	TNNT3_HUMAN	.	UPI000013DB6C	.	.	.	12/16	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11521,hmmpanther:PTHR11521:SF4,Pfam_domain:PF00992,Superfamily_domains:SSF90250	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAAGAA	.	5	BLCA
LUZP2	0	.	GRCh37	11	24759795	24759795	+	Silent	SNP	C	C	T	rs771864324	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280C>T	p.%3D	p.L94L	ENST00000336930	4/12	113	70	42	57	57	0	LUZP2,synonymous_variant,p.%3D,ENST00000529015,;LUZP2,synonymous_variant,p.%3D,ENST00000336930,;LUZP2,synonymous_variant,p.%3D,ENST00000533227,;LUZP2,non_coding_transcript_exon_variant,,ENST00000531187,;LUZP2,non_coding_transcript_exon_variant,,ENST00000449567,;LUZP2,non_coding_transcript_exon_variant,,ENST00000405855,;	T	ENSG00000187398	ENST00000336930	Transcript	synonymous_variant	346	280	94	L	Ctg/Ttg	rs771864324	.	.	1	LUZP2	HGNC	23206	protein_coding	YES	CCDS31446.1	ENSP00000336817	LUZP2_HUMAN	.	UPI000019816C	.	.	.	4/12	.	Pfam_domain:PF15294,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22414	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCCTGCAA	.	5	BLCA
BBOX1	0	.	GRCh37	11	27114841	27114841	+	Missense_Mutation	SNP	G	G	C	rs753618329	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.461G>C	p.Gly154Ala	p.G154A	ENST00000263182	5/9	122	69	52	79	79	0	BBOX1,missense_variant,p.Gly154Ala,ENST00000525090,;BBOX1,missense_variant,p.Gly154Ala,ENST00000529202,;BBOX1,missense_variant,p.Gly154Ala,ENST00000263182,;BBOX1,missense_variant,p.Gly154Ala,ENST00000528583,;RP11-1L12.3,intron_variant,,ENST00000526061,;RP11-1L12.3,intron_variant,,ENST00000525302,;RP11-1L12.3,intron_variant,,ENST00000530430,;BBOX1,intron_variant,,ENST00000527505,;	C	ENSG00000129151	ENST00000263182	Transcript	missense_variant	829	461	154	G/A	gGa/gCa	rs753618329	.	.	1	BBOX1	HGNC	964	protein_coding	YES	CCDS7862.1	ENSP00000263182	BODG_HUMAN	Q1KLS6_HUMAN,E9PKC9_HUMAN	UPI0000126A4C	.	deleterious(0.01)	probably_damaging(0.999)	5/9	.	hmmpanther:PTHR10696,hmmpanther:PTHR10696:SF20,Pfam_domain:PF02668,Gene3D:3.60.130.10,TIGRFAM_domain:TIGR02409,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCGGAGCAT	.	5	BLCA
ELP4	0	.	GRCh37	11	31671767	31671767	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1141G>C	p.Glu381Gln	p.E381Q	ENST00000350638	9/10	79	47	31	45	45	0	ELP4,missense_variant,p.Glu382Gln,ENST00000379163,;ELP4,missense_variant,p.Glu381Gln,ENST00000395934,;ELP4,missense_variant,p.Glu381Gln,ENST00000350638,;Z83001.1,intron_variant,,ENST00000429821,;ELP4,3_prime_UTR_variant,,ENST00000474374,;	C	ENSG00000109911	ENST00000350638	Transcript	missense_variant	1176	1141	381	E/Q	Gag/Cag	.	.	.	1	ELP4	HGNC	1171	protein_coding	YES	CCDS7875.2	ENSP00000298937	ELP4_HUMAN	Q9H4R8_HUMAN	UPI0000074047	.	deleterious(0)	probably_damaging(0.997)	9/10	.	hmmpanther:PTHR12896:SF1,hmmpanther:PTHR12896,Pfam_domain:PF05625	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGAGGTA	.	5	BLCA
API5	0	.	GRCh37	11	43333604	43333604	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-74G>C	.	.	ENST00000531273	1/14	25	17	8	10	10	0	API5,5_prime_UTR_variant,,ENST00000455725,;API5,5_prime_UTR_variant,,ENST00000534695,;API5,5_prime_UTR_variant,,ENST00000378852,;API5,5_prime_UTR_variant,,ENST00000420461,;API5,5_prime_UTR_variant,,ENST00000531273,;API5,upstream_gene_variant,,ENST00000534600,;API5,non_coding_transcript_exon_variant,,ENST00000530300,;	C	ENSG00000166181	ENST00000531273	Transcript	5_prime_UTR_variant	66	.	.	.	.	.	.	.	1	API5	HGNC	594	protein_coding	YES	CCDS44572.1	ENSP00000431391	API5_HUMAN	.	UPI0000E229DE	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTGGAGAAG	.	5	BLCA
PTPRJ	0	.	GRCh37	11	48145334	48145334	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.786G>A	p.%3D	p.L262L	ENST00000418331	5/25	113	78	35	52	52	0	PTPRJ,synonymous_variant,p.%3D,ENST00000440289,;PTPRJ,synonymous_variant,p.%3D,ENST00000418331,;PTPRJ,downstream_gene_variant,,ENST00000527952,;PTPRJ,downstream_gene_variant,,ENST00000534219,;PTPRJ,downstream_gene_variant,,ENST00000526550,;	A	ENSG00000149177	ENST00000418331	Transcript	synonymous_variant	1138	786	262	L	ctG/ctA	.	.	.	1	PTPRJ	HGNC	9673	protein_coding	YES	CCDS7945.1	ENSP00000400010	PTPRJ_HUMAN	Q9NPR5_HUMAN	UPI00004564C8	.	.	.	5/25	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAAGCC	.	5	BLCA
OR4B1	0	.	GRCh37	11	48238598	48238598	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237C>T	p.%3D	p.F79F	ENST00000309562	1/1	274	182	92	106	106	0	OR4B1,synonymous_variant,p.%3D,ENST00000309562,;	T	ENSG00000175619	ENST00000309562	Transcript	synonymous_variant	255	237	79	F	ttC/ttT	COSM3447970	.	.	1	OR4B1	HGNC	8290	protein_coding	YES	CCDS31485.1	ENSP00000311605	OR4B1_HUMAN	.	UPI0000041BD9	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF23,hmmpanther:PTHR26451,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTCATCAT	.	5	BLCA
OR51V1	0	.	GRCh37	11	5221421	5221421	+	Silent	SNP	G	G	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.510C>A	p.%3D	p.I170I	ENST00000321255	1/1	123	76	47	71	71	0	OR51V1,synonymous_variant,p.%3D,ENST00000321255,;AC104389.16,upstream_gene_variant,,ENST00000418080,;	T	ENSG00000176742	ENST00000321255	Transcript	synonymous_variant	510	510	170	I	atC/atA	COSM3448541	.	.	-1	OR51V1	HGNC	19597	protein_coding	YES	CCDS31375.1	ENSP00000321729	O51V1_HUMAN	.	UPI0000140ADA	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26450:SF67,hmmpanther:PTHR26450,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACAGATGAT	.	5	BLCA
OR10AG1	0	.	GRCh37	11	55735289	55735289	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.651G>A	p.%3D	p.L217L	ENST00000312345	1/1	89	55	33	45	45	0	OR10AG1,synonymous_variant,p.%3D,ENST00000312345,;	T	ENSG00000174970	ENST00000312345	Transcript	synonymous_variant	702	651	217	L	ttG/ttA	COSM3449135	.	.	-1	OR10AG1	HGNC	19607	protein_coding	YES	CCDS31514.1	ENSP00000311477	O10AG_HUMAN	.	UPI000004B22B	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF159,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTCAAAAT	.	5	BLCA
LRRC55	0	.	GRCh37	11	56954784	56954784	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.856G>A	p.Glu286Lys	p.E286K	ENST00000497933	2/2	160	101	58	102	102	0	LRRC55,missense_variant,p.Glu286Lys,ENST00000497933,;	A	ENSG00000183908	ENST00000497933	Transcript	missense_variant	1003	856	286	E/K	Gag/Aag	.	.	.	1	LRRC55	HGNC	32324	protein_coding	YES	CCDS31539.1	ENSP00000419542	LRC55_HUMAN	.	UPI00001C0E6F	.	tolerated(0.14)	benign(0.359)	2/2	.	SMART_domains:SM00082,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF99	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAGGAG	.	5	BLCA
DDB1	0	.	GRCh37	11	61083760	61083760	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1407C>G	p.Ile469Met	p.I469M	ENST00000301764	12/27	405	276	129	209	209	0	DDB1,missense_variant,p.Ile252Met,ENST00000535174,;DDB1,missense_variant,p.Ile469Met,ENST00000301764,;DDB1,missense_variant,p.Ile188Met,ENST00000539739,;DDB1,missense_variant,p.Ile33Met,ENST00000537877,;DDB1,missense_variant,p.Ile120Met,ENST00000535967,;DDB1,intron_variant,,ENST00000450997,;DDB1,intron_variant,,ENST00000543658,;DDB1,upstream_gene_variant,,ENST00000535147,;DDB1,upstream_gene_variant,,ENST00000539332,;DDB1,non_coding_transcript_exon_variant,,ENST00000545930,;DDB1,intron_variant,,ENST00000538280,;DDB1,missense_variant,p.Ile469Met,ENST00000540166,;DDB1,non_coding_transcript_exon_variant,,ENST00000540784,;DDB1,upstream_gene_variant,,ENST00000414411,;DDB1,downstream_gene_variant,,ENST00000539712,;	C	ENSG00000167986	ENST00000301764	Transcript	missense_variant	1805	1407	469	I/M	atC/atG	.	.	.	-1	DDB1	HGNC	2717	protein_coding	YES	CCDS31576.1	ENSP00000301764	DDB1_HUMAN	F8WF81_HUMAN,F5H775_HUMAN,F5H6C5_HUMAN,F5H581_HUMAN,F5H2L3_HUMAN,F5H0Y5_HUMAN,F5GZY8_HUMAN,F5GZ34_HUMAN,F5GYG8_HUMAN	UPI0000000CB7	.	deleterious(0.01)	benign(0.424)	12/27	.	hmmpanther:PTHR10644,hmmpanther:PTHR10644:SF3,Pfam_domain:PF10433,Gene3D:2.130.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTGGATAAG	.	5	BLCA
AHNAK	0	.	GRCh37	11	62285506	62285506	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16383G>C	p.%3D	p.V5461V	ENST00000378024	5/5	179	99	79	66	66	0	AHNAK,synonymous_variant,p.%3D,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,upstream_gene_variant,,ENST00000525875,;	G	ENSG00000124942	ENST00000378024	Transcript	synonymous_variant	16658	16383	5461	V	gtG/gtC	.	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	.	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCACTTT	.	5	BLCA
AHNAK	0	.	GRCh37	11	62285805	62285805	+	Missense_Mutation	SNP	C	C	T	rs370134969	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16084G>A	p.Asp5362Asn	p.D5362N	ENST00000378024	5/5	123	75	47	70	70	0	AHNAK,missense_variant,p.Asp5362Asn,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,upstream_gene_variant,,ENST00000525875,;	T	ENSG00000124942	ENST00000378024	Transcript	missense_variant	16359	16084	5362	D/N	Gat/Aat	rs370134969	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	probably_damaging(0.987)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCTGGTG	.	5	BLCA
AHNAK	0	.	GRCh37	11	62286735	62286735	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15154G>C	p.Asp5052His	p.D5052H	ENST00000378024	5/5	543	363	180	280	280	0	AHNAK,missense_variant,p.Asp5052His,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,upstream_gene_variant,,ENST00000525875,;	G	ENSG00000124942	ENST00000378024	Transcript	missense_variant	15429	15154	5052	D/H	Gat/Cat	.	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	probably_damaging(1)	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCAATTT	.	5	BLCA
NUDT22	0	.	GRCh37	11	63996766	63996766	+	Silent	SNP	C	C	T	rs753276122	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627C>T	p.%3D	p.I209I	ENST00000279206	4/6	25	15	9	11	11	0	NUDT22,synonymous_variant,p.%3D,ENST00000428347,;NUDT22,synonymous_variant,p.%3D,ENST00000279206,;NUDT22,synonymous_variant,p.%3D,ENST00000441250,;DNAJC4,upstream_gene_variant,,ENST00000355040,;TRPT1,upstream_gene_variant,,ENST00000317459,;TRPT1,upstream_gene_variant,,ENST00000545812,;TRPT1,upstream_gene_variant,,ENST00000394547,;TRPT1,upstream_gene_variant,,ENST00000541278,;DNAJC4,upstream_gene_variant,,ENST00000321685,;TRPT1,upstream_gene_variant,,ENST00000546133,;TRPT1,upstream_gene_variant,,ENST00000546089,;TRPT1,upstream_gene_variant,,ENST00000544286,;TRPT1,upstream_gene_variant,,ENST00000394546,;DNAJC4,upstream_gene_variant,,ENST00000535246,;NUDT22,downstream_gene_variant,,ENST00000539325,;DNAJC4,upstream_gene_variant,,ENST00000321460,;RP11-783K16.14,non_coding_transcript_exon_variant,,ENST00000534988,;RP11-783K16.14,downstream_gene_variant,,ENST00000539963,;TRPT1,upstream_gene_variant,,ENST00000540472,;NUDT22,non_coding_transcript_exon_variant,,ENST00000543501,;NUDT22,non_coding_transcript_exon_variant,,ENST00000537094,;NUDT22,intron_variant,,ENST00000535000,;NUDT22,intron_variant,,ENST00000543358,;NUDT22,downstream_gene_variant,,ENST00000422364,;NUDT22,upstream_gene_variant,,ENST00000534929,;DNAJC4,upstream_gene_variant,,ENST00000537109,;TRPT1,upstream_gene_variant,,ENST00000536234,;NUDT22,upstream_gene_variant,,ENST00000545184,;TRPT1,upstream_gene_variant,,ENST00000539595,;DNAJC4,upstream_gene_variant,,ENST00000543685,;TRPT1,upstream_gene_variant,,ENST00000541928,;DNAJC4,upstream_gene_variant,,ENST00000542376,;DNAJC4,upstream_gene_variant,,ENST00000536006,;NUDT22,downstream_gene_variant,,ENST00000537707,;TRPT1,upstream_gene_variant,,ENST00000536158,;TRPT1,upstream_gene_variant,,ENST00000542040,;DNAJC4,upstream_gene_variant,,ENST00000538961,;TRPT1,upstream_gene_variant,,ENST00000537907,;DNAJC4,upstream_gene_variant,,ENST00000543791,;DNAJC4,upstream_gene_variant,,ENST00000540945,;TRPT1,upstream_gene_variant,,ENST00000539436,;	T	ENSG00000149761	ENST00000279206	Transcript	synonymous_variant	783	627	209	I	atC/atT	rs753276122	.	.	1	NUDT22	HGNC	28189	protein_coding	YES	CCDS8061.1	ENSP00000279206	NUD22_HUMAN	H0YGG2_HUMAN,F5H1N0_HUMAN	UPI000013DBC2	.	.	.	4/6	.	PROSITE_profiles:PS51462,hmmpanther:PTHR31835,hmmpanther:PTHR31835:SF1,Gene3D:3.90.79.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCGCCCG	byFrequency	5	BLCA
TSGA10IP	0	.	GRCh37	11	65721160	65721160	+	RNA	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1505G>T	.	.	ENST00000532620	5/8	53	30	23	17	17	0	TSGA10IP,non_coding_transcript_exon_variant,,ENST00000534740,;TSGA10IP,non_coding_transcript_exon_variant,,ENST00000533763,;TSGA10IP,non_coding_transcript_exon_variant,,ENST00000532620,;TSGA10IP,missense_variant,p.Arg425Ile,ENST00000608857,;	T	ENSG00000175513	ENST00000532620	Transcript	non_coding_transcript_exon_variant	1505	.	.	.	.	.	.	.	1	TSGA10IP	HGNC	26555	processed_transcript	YES	.	.	.	.	.	.	.	.	5/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCAGAGGGA	.	5	BLCA
ANO1	0	.	GRCh37	11	69970453	69970453	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.898-3C>T	.	.	ENST00000355303	.	68	46	21	20	20	0	ANO1,splice_region_variant,,ENST00000530480,;ANO1,splice_region_variant,,ENST00000531349,;ANO1,splice_region_variant,,ENST00000316296,;ANO1,splice_region_variant,,ENST00000538023,;ANO1,splice_region_variant,,ENST00000398543,;ANO1,splice_region_variant,,ENST00000530676,;ANO1,splice_region_variant,,ENST00000355303,;RP11-805J14.3,upstream_gene_variant,,ENST00000530525,;	T	ENSG00000131620	ENST00000355303	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ANO1	HGNC	21625	protein_coding	YES	CCDS44663.1	ENSP00000347454	ANO1_HUMAN	.	UPI000013CE03	.	.	.	.	8/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGCTC	.	4	BLCA
INPPL1	0	.	GRCh37	11	71946178	71946178	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2434G>C	p.Asp812His	p.D812H	ENST00000298229	22/28	108	69	38	62	62	0	INPPL1,missense_variant,p.Asp570His,ENST00000538751,;INPPL1,missense_variant,p.Asp570His,ENST00000541756,;INPPL1,missense_variant,p.Asp812His,ENST00000298229,;INPPL1,upstream_gene_variant,,ENST00000541752,;INPPL1,downstream_gene_variant,,ENST00000540329,;PHOX2A,downstream_gene_variant,,ENST00000298231,;INPPL1,upstream_gene_variant,,ENST00000320683,;PHOX2A,downstream_gene_variant,,ENST00000546310,;PHOX2A,downstream_gene_variant,,ENST00000544057,;INPPL1,non_coding_transcript_exon_variant,,ENST00000545355,;INPPL1,non_coding_transcript_exon_variant,,ENST00000541303,;INPPL1,intron_variant,,ENST00000535985,;INPPL1,downstream_gene_variant,,ENST00000538339,;INPPL1,downstream_gene_variant,,ENST00000544806,;INPPL1,downstream_gene_variant,,ENST00000542295,;INPPL1,downstream_gene_variant,,ENST00000537755,;	C	ENSG00000165458	ENST00000298229	Transcript	missense_variant	2638	2434	812	D/H	Gat/Cat	.	.	.	1	INPPL1	HGNC	6080	protein_coding	YES	CCDS8213.1	ENSP00000298229	SHIP2_HUMAN	H0YFZ4_HUMAN,F5H588_HUMAN,F5GYK9_HUMAN	UPI000013E4AF	.	deleterious(0)	possibly_damaging(0.838)	22/28	.	hmmpanther:PTHR11200:SF15,hmmpanther:PTHR11200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGATATC	.	5	BLCA
CCDC82	0	.	GRCh37	11	96092326	96092326	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1397G>C	p.Arg466Thr	p.R466T	ENST00000278520	8/9	42	21	21	29	29	0	CCDC82,missense_variant,p.Arg466Thr,ENST00000542662,;CCDC82,missense_variant,p.Arg466Thr,ENST00000278520,;CCDC82,missense_variant,p.Arg466Thr,ENST00000423339,;CCDC82,non_coding_transcript_exon_variant,,ENST00000545264,;	G	ENSG00000149231	ENST00000278520	Transcript	missense_variant	1826	1397	466	R/T	aGa/aCa	.	.	.	-1	CCDC82	HGNC	26282	protein_coding	YES	CCDS8307.1	ENSP00000278520	CCD82_HUMAN	F5H777_HUMAN,E9PMD6_HUMAN	UPI000007367A	.	tolerated(0.41)	benign(0.003)	8/9	.	hmmpanther:PTHR14689,hmmpanther:PTHR14689:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTCTGCCA	.	5	BLCA
SCYL2	0	.	GRCh37	12	100732781	100732781	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2621C>G	p.Ser874Cys	p.S874C	ENST00000360820	18/18	237	180	56	143	143	0	SCYL2,missense_variant,p.Ser874Cys,ENST00000360820,;SCYL2,downstream_gene_variant,,ENST00000549687,;SCYL2,downstream_gene_variant,,ENST00000548871,;SCYL2,downstream_gene_variant,,ENST00000547202,;SCYL2,downstream_gene_variant,,ENST00000547735,;	G	ENSG00000136021	ENST00000360820	Transcript	missense_variant	3058	2621	874	S/C	tCt/tGt	.	.	.	1	SCYL2	HGNC	19286	protein_coding	YES	CCDS9076.1	ENSP00000354061	SCYL2_HUMAN	F8VSC5_HUMAN,F8VPW3_HUMAN	UPI000004FD59	.	deleterious_low_confidence(0.04)	possibly_damaging(0.599)	18/18	.	hmmpanther:PTHR12984,hmmpanther:PTHR12984:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCTCCAA	.	5	BLCA
HSP90B1	0	.	GRCh37	12	104335404	104335404	+	Intron	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1231-3T>C	.	.	ENST00000299767	.	133	103	29	84	84	0	HSP90B1,splice_region_variant,,ENST00000299767,;HSP90B1,upstream_gene_variant,,ENST00000550595,;HSP90B1,splice_region_variant,,ENST00000548462,;HSP90B1,non_coding_transcript_exon_variant,,ENST00000550479,;HSP90B1,upstream_gene_variant,,ENST00000552051,;HSP90B1,upstream_gene_variant,,ENST00000551983,;	C	ENSG00000166598	ENST00000299767	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	HSP90B1	HGNC	12028	protein_coding	YES	CCDS9094.1	ENSP00000299767	ENPL_HUMAN	Q5CAQ5_HUMAN,F8W026_HUMAN,B4DHT9_HUMAN	UPI0000129FBA	.	.	.	.	9/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTTAGCTC	.	4	BLCA
KIAA1033	0	.	GRCh37	12	105508984	105508984	+	Missense_Mutation	SNP	G	G	C	rs769962639	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.344G>C	p.Gly115Ala	p.G115A	ENST00000332180	5/33	136	112	23	87	87	0	KIAA1033,missense_variant,p.Gly115Ala,ENST00000332180,;KIAA1033,5_prime_UTR_variant,,ENST00000548195,;KIAA1033,missense_variant,p.Gly115Ala,ENST00000550053,;KIAA1033,5_prime_UTR_variant,,ENST00000547404,;KIAA1033,non_coding_transcript_exon_variant,,ENST00000311317,;	C	ENSG00000136051	ENST00000332180	Transcript	missense_variant	431	344	115	G/A	gGt/gCt	rs769962639	.	.	1	KIAA1033	HGNC	29174	protein_coding	YES	CCDS41826.1	ENSP00000328062	WASH7_HUMAN	F8W1W1_HUMAN,F8VQX3_HUMAN,F8VNZ5_HUMAN	UPI00001C1F3B	.	tolerated(1)	benign(0.01)	5/33	.	hmmpanther:PTHR31409,hmmpanther:PTHR31409:SF0,Pfam_domain:PF14745	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAATGGTCTCT	.	4	BLCA
GCN1L1	0	.	GRCh37	12	120587840	120587840	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4317C>G	p.%3D	p.L1439L	ENST00000300648	35/58	59	50	8	36	36	0	GCN1L1,synonymous_variant,p.%3D,ENST00000300648,;GCN1L1,downstream_gene_variant,,ENST00000548132,;	C	ENSG00000089154	ENST00000300648	Transcript	synonymous_variant	4330	4317	1439	L	ctC/ctG	.	.	.	-1	GCN1L1	HGNC	4199	protein_coding	YES	CCDS41847.1	ENSP00000300648	GCN1L_HUMAN	B4DM32_HUMAN	UPI00001FBC69	.	.	.	35/58	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR23346,hmmpanther:PTHR23346:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAAAGAGGGC	.	4	BLCA
HNF1A	0	.	GRCh37	12	121431453	121431453	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657G>C	p.Glu219Asp	p.E219D	ENST00000257555	3/10	51	40	11	27	27	0	HNF1A,missense_variant,p.Glu219Asp,ENST00000541395,;HNF1A,missense_variant,p.Glu219Asp,ENST00000400024,;HNF1A,missense_variant,p.Glu219Asp,ENST00000402929,;HNF1A,missense_variant,p.Glu102Asp,ENST00000543427,;HNF1A,missense_variant,p.Glu219Asp,ENST00000544413,;HNF1A,missense_variant,p.Glu219Asp,ENST00000257555,;HNF1A,intron_variant,,ENST00000538626,;HNF1A,intron_variant,,ENST00000535955,;HNF1A,missense_variant,p.Glu267Asp,ENST00000560968,;HNF1A,missense_variant,p.Glu219Asp,ENST00000541924,;HNF1A,3_prime_UTR_variant,,ENST00000540108,;HNF1A,intron_variant,,ENST00000544574,;HNF1A,intron_variant,,ENST00000538646,;HNF1A,upstream_gene_variant,,ENST00000543255,;	C	ENSG00000135100	ENST00000257555	Transcript	missense_variant	883	657	219	E/D	gaG/gaC	.	.	.	1	HNF1A	HGNC	11621	protein_coding	YES	CCDS9209.1	ENSP00000257555	.	E0YMJ2_HUMAN,E0YMJ1_HUMAN,B8YNW1_HUMAN,B8YNU9_HUMAN	UPI000013CF6C	.	tolerated(0.21)	benign(0.004)	3/10	.	PROSITE_profiles:PS50071,hmmpanther:PTHR11568:SF4,hmmpanther:PTHR11568,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGAGAGGCA	.	5	BLCA
HIP1R	0	.	GRCh37	12	123338615	123338615	+	Silent	SNP	C	C	T	rs762232461	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.603C>T	p.%3D	p.I201I	ENST00000253083	8/32	184	98	85	120	120	0	HIP1R,synonymous_variant,p.%3D,ENST00000253083,;HIP1R,non_coding_transcript_exon_variant,,ENST00000452196,;HIP1R,non_coding_transcript_exon_variant,,ENST00000535831,;HIP1R,non_coding_transcript_exon_variant,,ENST00000536847,;HIP1R,non_coding_transcript_exon_variant,,ENST00000536772,;HIP1R,upstream_gene_variant,,ENST00000541712,;	T	ENSG00000130787	ENST00000253083	Transcript	synonymous_variant	728	603	201	I	atC/atT	rs762232461,COSM1299049	.	.	1	HIP1R	HGNC	18415	protein_coding	YES	CCDS31922.1	ENSP00000253083	HIP1R_HUMAN	B3KN98_HUMAN	UPI000012C72C	.	.	.	8/32	.	hmmpanther:PTHR10407,hmmpanther:PTHR10407:SF10,Pfam_domain:PF07651	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCGCCGT	byFrequency	5	BLCA
DNAH10	0	.	GRCh37	12	124349189	124349189	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6602T>C	p.Met2201Thr	p.M2201T	ENST00000409039	39/78	53	39	14	41	41	0	DNAH10,missense_variant,p.Met2201Thr,ENST00000409039,;DNAH10,3_prime_UTR_variant,,ENST00000497783,;	C	ENSG00000197653	ENST00000409039	Transcript	missense_variant	6627	6602	2201	M/T	aTg/aCg	.	.	.	1	DNAH10	HGNC	2941	protein_coding	YES	CCDS9255.2	ENSP00000386770	DYH10_HUMAN	.	UPI00014F7B89	.	.	probably_damaging(1)	39/78	.	hmmpanther:PTHR10676:SF135,hmmpanther:PTHR10676,Gene3D:3.40.50.300,Pfam_domain:PF07728,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACATGAATT	.	5	BLCA
CCDC92	0	.	GRCh37	12	124422156	124422156	+	Missense_Mutation	SNP	C	C	G	rs528091347	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>C	p.Glu149Gln	p.E149Q	ENST00000238156	5/5	129	90	39	86	86	0	CCDC92,missense_variant,p.Glu132Gln,ENST00000545135,;CCDC92,missense_variant,p.Glu149Gln,ENST00000238156,;CCDC92,missense_variant,p.Glu132Gln,ENST00000545891,;CCDC92,downstream_gene_variant,,ENST00000539551,;DNAH10,downstream_gene_variant,,ENST00000409039,;CCDC92,downstream_gene_variant,,ENST00000539761,;DNAH10OS,upstream_gene_variant,,ENST00000514254,;CCDC92,downstream_gene_variant,,ENST00000535556,;RP11-380L11.3,upstream_gene_variant,,ENST00000602292,;CCDC92,intron_variant,,ENST00000544798,;CCDC92,intron_variant,,ENST00000542348,;DNAH10,downstream_gene_variant,,ENST00000538983,;DNAH10,downstream_gene_variant,,ENST00000492261,;	G	ENSG00000119242	ENST00000238156	Transcript	missense_variant	800	445	149	E/Q	Gag/Cag	rs528091347,COSM385031	.	.	-1	CCDC92	HGNC	29563	protein_coding	YES	CCDS9256.1	ENSP00000238156	CCD92_HUMAN	F5H7P8_HUMAN,F5H2Z7_HUMAN,F5H285_HUMAN,B3KNQ0_HUMAN	UPI000006FF96	.	tolerated(0.6)	probably_damaging(0.999)	5/5	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14882:SF4,hmmpanther:PTHR14882	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCCAGCT	by1000G	5	BLCA
HEBP1	0	.	GRCh37	12	13128239	13128239	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*3G>A	.	.	ENST00000014930	4/4	112	78	33	80	80	0	HEBP1,3_prime_UTR_variant,,ENST00000014930,;SNORD88,downstream_gene_variant,,ENST00000408684,;RP11-392P7.6,intron_variant,,ENST00000542078,;RP11-392P7.6,intron_variant,,ENST00000545914,;RP11-392P7.6,intron_variant,,ENST00000543515,;RP11-392P7.6,intron_variant,,ENST00000536029,;RP11-392P7.6,upstream_gene_variant,,ENST00000499948,;RP11-392P7.6,upstream_gene_variant,,ENST00000607894,;HEBP1,downstream_gene_variant,,ENST00000540916,;	T	ENSG00000013583	ENST00000014930	Transcript	3_prime_UTR_variant	732	.	.	.	.	.	.	.	-1	HEBP1	HGNC	17176	protein_coding	YES	CCDS31749.1	ENSP00000014930	HEBP1_HUMAN	F5GWX2_HUMAN	UPI0000038D71	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGTCACTCA	.	5	BLCA
DDX51	0	.	GRCh37	12	132625036	132625036	+	Silent	SNP	G	G	A	rs748487633	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1605C>T	p.%3D	p.F535F	ENST00000397333	11/15	86	76	10	46	46	0	DDX51,synonymous_variant,p.%3D,ENST00000397333,;NOC4L,upstream_gene_variant,,ENST00000330579,;NOC4L,upstream_gene_variant,,ENST00000541954,;DDX51,non_coding_transcript_exon_variant,,ENST00000329073,;DDX51,non_coding_transcript_exon_variant,,ENST00000541489,;DDX51,non_coding_transcript_exon_variant,,ENST00000545991,;DDX51,upstream_gene_variant,,ENST00000462829,;DDX51,downstream_gene_variant,,ENST00000546058,;	A	ENSG00000185163	ENST00000397333	Transcript	synonymous_variant	1644	1605	535	F	ttC/ttT	rs748487633	.	.	-1	DDX51	HGNC	20082	protein_coding	YES	CCDS41865.1	ENSP00000380495	DDX51_HUMAN	.	UPI000049DD95	.	.	.	11/15	.	PROSITE_profiles:PS51194,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF68,Gene3D:3.40.50.300,Pfam_domain:PF00271,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGAGAACTC	byFrequency	4	BLCA
GOLGA3	0	.	GRCh37	12	133381425	133381425	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1474G>A	p.Glu492Lys	p.E492K	ENST00000204726	7/24	86	66	19	46	46	0	GOLGA3,missense_variant,p.Glu492Lys,ENST00000204726,;GOLGA3,missense_variant,p.Glu492Lys,ENST00000537452,;GOLGA3,missense_variant,p.Glu492Lys,ENST00000450791,;GOLGA3,missense_variant,p.Glu492Lys,ENST00000456883,;GOLGA3,missense_variant,p.Glu492Lys,ENST00000545875,;	T	ENSG00000090615	ENST00000204726	Transcript	missense_variant	2033	1474	492	E/K	Gag/Aag	.	.	.	-1	GOLGA3	HGNC	4426	protein_coding	YES	CCDS9281.1	ENSP00000204726	GOGA3_HUMAN	.	UPI0000190979	.	deleterious(0)	possibly_damaging(0.686)	7/24	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18902:SF20,hmmpanther:PTHR18902	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCCAGCA	.	5	BLCA
GUCY2C	0	.	GRCh37	12	14804398	14804398	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1653G>T	p.%3D	p.V551V	ENST00000261170	15/27	137	95	41	69	69	0	GUCY2C,synonymous_variant,p.%3D,ENST00000261170,;	A	ENSG00000070019	ENST00000261170	Transcript	synonymous_variant	1790	1653	551	V	gtG/gtT	.	.	.	-1	GUCY2C	HGNC	4688	protein_coding	YES	CCDS8664.1	ENSP00000261170	GUC2C_HUMAN	.	UPI000013D135	.	.	.	15/27	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11920:SF41,hmmpanther:PTHR11920,Pfam_domain:PF07714,Gene3D:3.30.200.20,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCACTGT	.	5	BLCA
PLCZ1	0	.	GRCh37	12	18876447	18876447	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165C>T	p.%3D	p.I55I	ENST00000266505	4/15	89	66	23	41	41	0	PLCZ1,synonymous_variant,p.%3D,ENST00000447925,;PLCZ1,synonymous_variant,p.%3D,ENST00000266505,;PLCZ1,5_prime_UTR_variant,,ENST00000541966,;PLCZ1,intron_variant,,ENST00000435379,;PLCZ1,intron_variant,,ENST00000539072,;PLCZ1,intron_variant,,ENST00000539875,;PLCZ1,intron_variant,,ENST00000543242,;PLCZ1,upstream_gene_variant,,ENST00000541695,;RP11-361I14.2,intron_variant,,ENST00000536931,;PLCZ1,non_coding_transcript_exon_variant,,ENST00000541109,;PLCZ1,intron_variant,,ENST00000545129,;PLCZ1,3_prime_UTR_variant,,ENST00000318197,;PLCZ1,3_prime_UTR_variant,,ENST00000539207,;PLCZ1,intron_variant,,ENST00000535429,;PLCZ1,upstream_gene_variant,,ENST00000540270,;	A	ENSG00000139151	ENST00000266505	Transcript	synonymous_variant	429	165	55	I	atC/atT	.	.	.	-1	PLCZ1	HGNC	19218	protein_coding	YES	CCDS8680.1	ENSP00000266505	PLCZ1_HUMAN	F5H828_HUMAN,F5H474_HUMAN,F5H3L4_HUMAN,F5H2Y6_HUMAN,F5GZK3_HUMAN	UPI000000D7E3	.	.	.	4/15	.	PROSITE_profiles:PS50222,hmmpanther:PTHR10336:SF29,hmmpanther:PTHR10336,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTGATTCT	.	5	BLCA
LRTM2	0	.	GRCh37	12	1943797	1943797	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023G>T	p.Lys341Asn	p.K341N	ENST00000543818	5/5	84	57	26	50	50	0	LRTM2,missense_variant,p.Lys341Asn,ENST00000535041,;LRTM2,missense_variant,p.Lys341Asn,ENST00000543818,;LRTM2,missense_variant,p.Lys341Asn,ENST00000299194,;CACNA2D4,intron_variant,,ENST00000585732,;CACNA2D4,intron_variant,,ENST00000587995,;CACNA2D4,intron_variant,,ENST00000586184,;CACNA2D4,intron_variant,,ENST00000382722,;CACNA2D4,intron_variant,,ENST00000588077,;CACNA2D4,intron_variant,,ENST00000585708,;LRTM2,downstream_gene_variant,,ENST00000546167,;LRTM2,downstream_gene_variant,,ENST00000543694,;LRTM2,non_coding_transcript_exon_variant,,ENST00000543730,;LRTM2,downstream_gene_variant,,ENST00000546157,;LRTM2,downstream_gene_variant,,ENST00000540378,;LRTM2,downstream_gene_variant,,ENST00000544489,;CACNA2D4,intron_variant,,ENST00000444595,;CACNA2D4,intron_variant,,ENST00000280663,;CACNA2D4,intron_variant,,ENST00000537784,;	T	ENSG00000166159	ENST00000543818	Transcript	missense_variant	1865	1023	341	K/N	aaG/aaT	.	.	.	1	LRTM2	HGNC	32443	protein_coding	YES	CCDS31726.1	ENSP00000446278	LRTM2_HUMAN	F5H2B4_HUMAN,F5GZY9_HUMAN	UPI00000714D3	.	deleterious(0)	possibly_damaging(0.893)	5/5	.	hmmpanther:PTHR24373:SF103,hmmpanther:PTHR24373	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGTACCA	.	5	BLCA
CACNA2D4	0	.	GRCh37	12	1993960	1993960	+	Missense_Mutation	SNP	C	C	G	rs375433022	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1246G>C	p.Glu416Gln	p.E416Q	ENST00000382722	11/38	44	34	9	27	27	0	CACNA2D4,missense_variant,p.Glu332Gln,ENST00000585732,;CACNA2D4,missense_variant,p.Glu416Gln,ENST00000587995,;CACNA2D4,missense_variant,p.Glu416Gln,ENST00000586184,;CACNA2D4,missense_variant,p.Glu416Gln,ENST00000382722,;CACNA2D4,missense_variant,p.Glu352Gln,ENST00000588077,;CACNA2D4,missense_variant,p.Glu352Gln,ENST00000585708,;CACNA2D4,missense_variant,p.Glu416Gln,ENST00000444595,;CACNA2D4,non_coding_transcript_exon_variant,,ENST00000590880,;CACNA2D4,non_coding_transcript_exon_variant,,ENST00000280663,;	G	ENSG00000151062	ENST00000382722	Transcript	missense_variant	1609	1246	416	E/Q	Gag/Cag	rs375433022,COSM356712,COSM356713	.	.	-1	CACNA2D4	HGNC	20202	protein_coding	YES	CCDS44785.1	ENSP00000372169	CA2D4_HUMAN	.	UPI0000E593D9	.	tolerated(0.14)	benign(0.082)	11/38	.	PROSITE_profiles:PS50234,hmmpanther:PTHR10166:SF26,hmmpanther:PTHR10166,Pfam_domain:PF13768,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	T:0.0003	T:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAAACA	byFrequency|byCluster	5	BLCA
SLCO1B3	0	.	GRCh37	12	21028355	21028355	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.914G>A	p.Arg305Lys	p.R305K	ENST00000381545	9/16	97	70	27	50	49	1	SLCO1B3,missense_variant,p.Arg305Lys,ENST00000553473,;SLCO1B3,missense_variant,p.Arg305Lys,ENST00000261196,;SLCO1B3,missense_variant,p.Arg129Lys,ENST00000544370,;LST3,missense_variant,p.Arg305Lys,ENST00000540229,;SLCO1B3,missense_variant,p.Arg305Lys,ENST00000381545,;SLCO1B7,intron_variant,,ENST00000554957,;LST3,intron_variant,,ENST00000381541,;SLCO1B3,downstream_gene_variant,,ENST00000540853,;	A	ENSG00000111700	ENST00000381545	Transcript	missense_variant	1133	914	305	R/K	aGa/aAa	.	.	.	1	SLCO1B3	HGNC	10961	protein_coding	YES	CCDS8684.1	ENSP00000370956	SO1B3_HUMAN	F5H8K0_HUMAN	UPI000013544A	.	tolerated(1)	benign(0.004)	9/16	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11388:SF89,hmmpanther:PTHR11388,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATAGAAATC	.	5	BLCA
PPFIBP1	0	.	GRCh37	12	27803008	27803008	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537G>C	p.Leu179Phe	p.L179F	ENST00000318304	7/29	91	52	38	61	61	0	PPFIBP1,missense_variant,p.Leu179Phe,ENST00000542629,;PPFIBP1,missense_variant,p.Leu7Phe,ENST00000540114,;PPFIBP1,missense_variant,p.Leu26Phe,ENST00000537927,;PPFIBP1,missense_variant,p.Leu179Phe,ENST00000318304,;PPFIBP1,missense_variant,p.Leu179Phe,ENST00000228425,;PPFIBP1,downstream_gene_variant,,ENST00000542187,;PPFIBP1,downstream_gene_variant,,ENST00000535047,;PPFIBP1,downstream_gene_variant,,ENST00000538433,;PPFIBP1,missense_variant,p.Leu179Phe,ENST00000545381,;PPFIBP1,upstream_gene_variant,,ENST00000534917,;	C	ENSG00000110841	ENST00000318304	Transcript	missense_variant	820	537	179	L/F	ttG/ttC	.	.	.	1	PPFIBP1	HGNC	9249	protein_coding	YES	CCDS55812.1	ENSP00000314724	LIPB1_HUMAN	F5H6Q7_HUMAN	UPI00004565E6	.	deleterious(0)	probably_damaging(0.995)	7/29	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTGAAGTT	.	5	BLCA
FOXM1	0	.	GRCh37	12	2968012	2968012	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2198C>T	p.Ser733Leu	p.S733L	ENST00000342628	10/10	89	57	31	49	49	0	FOXM1,missense_variant,p.Ser680Leu,ENST00000361953,;FOXM1,missense_variant,p.Ser733Leu,ENST00000342628,;FOXM1,missense_variant,p.Ser695Leu,ENST00000359843,;FOXM1,downstream_gene_variant,,ENST00000535350,;AC005841.1,upstream_gene_variant,,ENST00000382678,;Y_RNA,upstream_gene_variant,,ENST00000410561,;ITFG2,intron_variant,,ENST00000537710,;ITFG2,intron_variant,,ENST00000545509,;ITFG2,downstream_gene_variant,,ENST00000540300,;FOXM1,non_coding_transcript_exon_variant,,ENST00000536066,;FOXM1,downstream_gene_variant,,ENST00000366362,;	A	ENSG00000111206	ENST00000342628	Transcript	missense_variant	2312	2198	733	S/L	tCa/tTa	.	.	.	-1	FOXM1	HGNC	3818	protein_coding	YES	CCDS8516.1	ENSP00000342307	FOXM1_HUMAN	.	UPI000016B22B	.	tolerated(0.23)	benign(0.049)	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTGAGGGA	.	5	BLCA
KIF21A	0	.	GRCh37	12	39716623	39716623	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3518C>G	p.Ser1173Ter	p.S1173*	ENST00000361418	27/38	173	114	58	86	86	0	KIF21A,stop_gained,p.Ser521Ter,ENST00000552961,;KIF21A,stop_gained,p.Ser1173Ter,ENST00000361418,;KIF21A,stop_gained,p.Ser214Ter,ENST00000551264,;KIF21A,stop_gained,p.Ser1153Ter,ENST00000544797,;KIF21A,stop_gained,p.Ser1173Ter,ENST00000395670,;KIF21A,stop_gained,p.Ser1137Ter,ENST00000541463,;KIF21A,stop_gained,p.Ser1160Ter,ENST00000361961,;KIF21A,intron_variant,,ENST00000552475,;KIF21A,upstream_gene_variant,,ENST00000547745,;KIF21A,stop_gained,p.Ser424Ter,ENST00000547108,;	C	ENSG00000139116	ENST00000361418	Transcript	stop_gained	3534	3518	1173	S/*	tCa/tGa	.	.	.	-1	KIF21A	HGNC	19349	protein_coding	YES	CCDS53776.1	ENSP00000354878	KI21A_HUMAN	.	UPI0000212ED9	.	.	.	27/38	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF398	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGAAGCT	.	5	BLCA
PPHLN1	0	.	GRCh37	12	42835288	42835288	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1024+57C>G	.	.	ENST00000395568	.	77	45	32	55	55	0	PPHLN1,missense_variant,p.Gln361Glu,ENST00000358314,;PPHLN1,missense_variant,p.Gln342Glu,ENST00000449194,;PPHLN1,missense_variant,p.Gln379Glu,ENST00000549190,;PPHLN1,missense_variant,p.Gln313Glu,ENST00000552761,;PPHLN1,missense_variant,p.Gln368Glu,ENST00000395580,;PPHLN1,intron_variant,,ENST00000337898,;PPHLN1,intron_variant,,ENST00000395568,;PPHLN1,intron_variant,,ENST00000256678,;PPHLN1,intron_variant,,ENST00000317560,;PPHLN1,intron_variant,,ENST00000432191,;	G	ENSG00000134283	ENST00000395568	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	PPHLN1	HGNC	19369	protein_coding	YES	CCDS31777.1	ENSP00000378935	PPHLN_HUMAN	F8VWU8_HUMAN	UPI0000351A1E	.	.	.	.	10/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCAAGAT	.	5	BLCA
KDM5A	0	.	GRCh37	12	442760	442760	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1546G>A	p.Glu516Lys	p.E516K	ENST00000399788	12/28	154	95	59	91	91	0	KDM5A,missense_variant,p.Glu516Lys,ENST00000382815,;KDM5A,missense_variant,p.Glu135Lys,ENST00000544760,;KDM5A,missense_variant,p.Glu516Lys,ENST00000399788,;KDM5A,non_coding_transcript_exon_variant,,ENST00000544777,;KDM5A,upstream_gene_variant,,ENST00000540168,;	T	ENSG00000073614	ENST00000399788	Transcript	missense_variant	1909	1546	516	E/K	Gag/Aag	.	.	.	-1	KDM5A	HGNC	9886	protein_coding	YES	CCDS41736.1	ENSP00000382688	KDM5A_HUMAN	.	UPI0000DB2E73	.	tolerated(0.31)	benign(0.05)	12/28	.	PROSITE_profiles:PS51184,hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF17,Pfam_domain:PF02373,SMART_domains:SM00558,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCCTCCA	.	5	BLCA
ARID2	0	.	GRCh37	12	46231142	46231142	+	Silent	SNP	G	G	C	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1062G>C	p.%3D	p.L354L	ENST00000334344	9/21	232	158	74	104	104	0	ARID2,synonymous_variant,p.%3D,ENST00000334344,;ARID2,synonymous_variant,p.%3D,ENST00000422737,;ARID2,upstream_gene_variant,,ENST00000444670,;ARID2,non_coding_transcript_exon_variant,,ENST00000479608,;ARID2,non_coding_transcript_exon_variant,,ENST00000480128,;	C	ENSG00000189079	ENST00000334344	Transcript	synonymous_variant	1234	1062	354	L	ctG/ctC	COSM1746978	.	.	1	ARID2	HGNC	18037	protein_coding	YES	CCDS31783.1	ENSP00000335044	ARID2_HUMAN	Q96SQ4_HUMAN,F8WCU9_HUMAN	UPI00001D7973	.	.	.	9/21	.	hmmpanther:PTHR22970:SF14,hmmpanther:PTHR22970,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTGATGTT	.	5	BLCA
RPAP3	0	.	GRCh37	12	48084423	48084423	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546-1G>C	.	p.X182_splice	ENST00000005386	.	263	166	97	140	140	0	RPAP3,splice_acceptor_variant,,ENST00000432584,;RPAP3,splice_acceptor_variant,,ENST00000005386,;RPAP3,splice_acceptor_variant,,ENST00000380650,;	G	ENSG00000005175	ENST00000005386	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	RPAP3	HGNC	26151	protein_coding	YES	CCDS8753.1	ENSP00000005386	RPAP3_HUMAN	.	UPI0000035DAB	.	.	.	.	5/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATCTGCAA	.	5	BLCA
SLC48A1	0	.	GRCh37	12	48173996	48173997	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374dupT	p.Leu126AlafsTer11	p.L126Afs*11	ENST00000442218	3/3	77	57	20	30	30	0	SLC48A1,frameshift_variant,p.Leu126AlafsTer11,ENST00000442218,;SLC48A1,frameshift_variant,p.Leu69AlafsTer11,ENST00000442892,;SLC48A1,frameshift_variant,p.Leu69AlafsTer11,ENST00000547002,;HDAC7,downstream_gene_variant,,ENST00000552960,;HDAC7,downstream_gene_variant,,ENST00000380610,;HDAC7,downstream_gene_variant,,ENST00000354334,;SLC48A1,downstream_gene_variant,,ENST00000549243,;SLC48A1,downstream_gene_variant,,ENST00000548498,;HDAC7,downstream_gene_variant,,ENST00000080059,;HDAC7,downstream_gene_variant,,ENST00000548080,;HDAC7,downstream_gene_variant,,ENST00000427332,;AC004466.1,upstream_gene_variant,,ENST00000599515,;HDAC7,downstream_gene_variant,,ENST00000549883,;SLC48A1,downstream_gene_variant,,ENST00000461620,;SLC48A1,downstream_gene_variant,,ENST00000476104,;SLC48A1,3_prime_UTR_variant,,ENST00000551301,;HDAC7,downstream_gene_variant,,ENST00000477203,;HDAC7,downstream_gene_variant,,ENST00000548938,;HDAC7,downstream_gene_variant,,ENST00000459625,;HDAC7,downstream_gene_variant,,ENST00000470668,;HDAC7,downstream_gene_variant,,ENST00000547259,;	T	ENSG00000211584	ENST00000442218	Transcript	frameshift_variant	470-471	373-374	125	L/LX	ctg/cTtg	.	.	.	1	SLC48A1	HGNC	26035	protein_coding	YES	CCDS8755.2	ENSP00000415998	HRG1_HUMAN	F8VQX9_HUMAN	UPI00001FC0AF	.	.	.	3/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR31525,Prints_domain:PR02095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTTCCTGCTC	.	3	BLCA
GALNT8	0	.	GRCh37	12	4881658	4881658	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1809G>A	p.%3D	p.K603K	ENST00000252318	11/11	104	74	29	48	48	0	GALNT8,synonymous_variant,p.%3D,ENST00000252318,;GALNT8,intron_variant,,ENST00000542998,;GALNT8,downstream_gene_variant,,ENST00000535354,;	A	ENSG00000130035	ENST00000252318	Transcript	synonymous_variant	2146	1809	603	K	aaG/aaA	.	.	.	1	GALNT8	HGNC	4130	protein_coding	YES	CCDS8533.1	ENSP00000252318	GALT8_HUMAN	Q68VJ3_HUMAN	UPI0000070DEC	.	.	.	11/11	.	PROSITE_profiles:PS50231,hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF13,Gene3D:2.80.10.50,Pfam_domain:PF00652,SMART_domains:SM00458,Superfamily_domains:SSF50370	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGAAGAAGGA	.	5	BLCA
CERS5	0	.	GRCh37	12	50529517	50529517	+	Silent	SNP	G	G	A	rs776073108	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.870C>T	p.%3D	p.F290F	ENST00000317551	8/10	141	106	35	75	75	0	CERS5,synonymous_variant,p.%3D,ENST00000422340,;CERS5,synonymous_variant,p.%3D,ENST00000550919,;CERS5,synonymous_variant,p.%3D,ENST00000547800,;CERS5,synonymous_variant,p.%3D,ENST00000317551,;CERS5,synonymous_variant,p.%3D,ENST00000550547,;CERS5,synonymous_variant,p.%3D,ENST00000553122,;CERS5,splice_region_variant,,ENST00000547138,;RP4-605O3.4,intron_variant,,ENST00000548468,;CERS5,upstream_gene_variant,,ENST00000548942,;CERS5,synonymous_variant,p.%3D,ENST00000551697,;CERS5,splice_region_variant,,ENST00000542320,;CERS5,splice_region_variant,,ENST00000547787,;CERS5,splice_region_variant,,ENST00000551005,;CERS5,splice_region_variant,,ENST00000438450,;CERS5,splice_region_variant,,ENST00000380189,;CERS5,non_coding_transcript_exon_variant,,ENST00000546676,;CERS5,upstream_gene_variant,,ENST00000550079,;CERS5,upstream_gene_variant,,ENST00000546406,;CERS5,upstream_gene_variant,,ENST00000551757,;CERS5,downstream_gene_variant,,ENST00000549089,;	A	ENSG00000139624	ENST00000317551	Transcript	synonymous_variant	995	870	290	F	ttC/ttT	rs776073108	.	.	-1	CERS5	HGNC	23749	protein_coding	YES	CCDS8801.1	ENSP00000325485	CERS5_HUMAN	F8W1K4_HUMAN	UPI000007101F	.	.	.	8/10	.	PIRSF_domain:PIRSF005225,SMART_domains:SM00724,Pfam_domain:PF03798,hmmpanther:PTHR12560:SF8,hmmpanther:PTHR12560,PROSITE_profiles:PS50922,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCAGAATGG	.	5	BLCA
KRT6A	0	.	GRCh37	12	52884379	52884379	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1051G>A	p.Glu351Lys	p.E351K	ENST00000330722	5/9	316	202	114	170	170	0	KRT6A,missense_variant,p.Glu351Lys,ENST00000330722,;KRT6A,non_coding_transcript_exon_variant,,ENST00000549600,;KRT6A,non_coding_transcript_exon_variant,,ENST00000548735,;KRT6A,non_coding_transcript_exon_variant,,ENST00000549898,;KRT6A,non_coding_transcript_exon_variant,,ENST00000549754,;	T	ENSG00000205420	ENST00000330722	Transcript	missense_variant	1120	1051	351	E/K	Gag/Aag	.	.	.	-1	KRT6A	HGNC	6443	protein_coding	YES	CCDS41786.1	ENSP00000369317	K2C6A_HUMAN	.	UPI000013CD4C	.	deleterious(0)	probably_damaging(0.968)	5/9	.	Pfam_domain:PF00038,hmmpanther:PTHR23239:SF141,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCAGCCC	.	5	BLCA
CBX5	0	.	GRCh37	12	54645865	54645865	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.284C>T	p.Ser95Leu	p.S95L	ENST00000209875	3/5	294	196	98	161	161	0	CBX5,missense_variant,p.Ser95Leu,ENST00000209875,;CBX5,missense_variant,p.Ser95Leu,ENST00000550411,;CBX5,missense_variant,p.Ser95Leu,ENST00000439541,;CBX5,downstream_gene_variant,,ENST00000552562,;RN7SL390P,downstream_gene_variant,,ENST00000470634,;CBX5,non_coding_transcript_exon_variant,,ENST00000547872,;	A	ENSG00000094916	ENST00000209875	Transcript	missense_variant	421	284	95	S/L	tCa/tTa	.	.	.	-1	CBX5	HGNC	1555	protein_coding	YES	CCDS8875.1	ENSP00000209875	CBX5_HUMAN	F8VNY3_HUMAN	UPI00001271FC	.	tolerated(0.17)	benign(0)	3/5	.	hmmpanther:PTHR22812,hmmpanther:PTHR22812:SF85	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGAGAAA	.	5	BLCA
SMARCC2	0	.	GRCh37	12	56577956	56577956	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562+3G>A	.	.	ENST00000267064	.	91	52	38	44	44	0	SMARCC2,splice_region_variant,,ENST00000267064,;SMARCC2,splice_region_variant,,ENST00000550164,;SMARCC2,splice_region_variant,,ENST00000394023,;SMARCC2,splice_region_variant,,ENST00000347471,;RP11-977G19.5,intron_variant,,ENST00000553176,;SMARCC2,splice_region_variant,,ENST00000550859,;SMARCC2,splice_region_variant,,ENST00000552674,;SMARCC2,splice_region_variant,,ENST00000549757,;SMARCC2,splice_region_variant,,ENST00000552627,;SMARCC2,splice_region_variant,,ENST00000550519,;SMARCC2,non_coding_transcript_exon_variant,,ENST00000550150,;SMARCC2,upstream_gene_variant,,ENST00000548130,;SMARCC2,downstream_gene_variant,,ENST00000547356,;	T	ENSG00000139613	ENST00000267064	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SMARCC2	HGNC	11105	protein_coding	YES	CCDS8907.1	ENSP00000267064	SMRC2_HUMAN	F8VZW6_HUMAN	UPI0000071C4E	.	.	.	.	6/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCACCTT	.	4	BLCA
ARHGAP9	0	.	GRCh37	12	57866333	57866333	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2163G>A	p.%3D	p.L721L	ENST00000393791	18/18	97	61	35	42	42	0	ARHGAP9,synonymous_variant,p.%3D,ENST00000430041,;ARHGAP9,synonymous_variant,p.%3D,ENST00000550399,;ARHGAP9,synonymous_variant,p.%3D,ENST00000356411,;ARHGAP9,synonymous_variant,p.%3D,ENST00000393791,;ARHGAP9,synonymous_variant,p.%3D,ENST00000393797,;ARHGAP9,3_prime_UTR_variant,,ENST00000550288,;ARHGAP9,3_prime_UTR_variant,,ENST00000424809,;ARHGAP9,downstream_gene_variant,,ENST00000552604,;GLI1,downstream_gene_variant,,ENST00000228682,;ARHGAP9,downstream_gene_variant,,ENST00000551452,;ARHGAP9,downstream_gene_variant,,ENST00000552249,;GLI1,downstream_gene_variant,,ENST00000528467,;ARHGAP9,downstream_gene_variant,,ENST00000549602,;GLI1,downstream_gene_variant,,ENST00000543426,;ARHGAP9,downstream_gene_variant,,ENST00000548139,;GLI1,downstream_gene_variant,,ENST00000546141,;ARHGAP9,downstream_gene_variant,,ENST00000552066,;ARHGAP9,downstream_gene_variant,,ENST00000550130,;MARS,upstream_gene_variant,,ENST00000549133,;ARHGAP9,downstream_gene_variant,,ENST00000547200,;ARHGAP9,downstream_gene_variant,,ENST00000550454,;ARHGAP9,non_coding_transcript_exon_variant,,ENST00000550440,;ARHGAP9,non_coding_transcript_exon_variant,,ENST00000552953,;ARHGAP9,non_coding_transcript_exon_variant,,ENST00000546200,;ARHGAP9,downstream_gene_variant,,ENST00000546704,;ARHGAP9,downstream_gene_variant,,ENST00000551000,;ARHGAP9,downstream_gene_variant,,ENST00000552420,;ARHGAP9,downstream_gene_variant,,ENST00000551574,;ARHGAP9,downstream_gene_variant,,ENST00000547216,;ARHGAP9,downstream_gene_variant,,ENST00000548148,;	T	ENSG00000123329	ENST00000393791	Transcript	synonymous_variant	2302	2163	721	L	ctG/ctA	.	.	.	-1	ARHGAP9	HGNC	14130	protein_coding	YES	CCDS8941.2	ENSP00000377380	RHG09_HUMAN	F8VW89_HUMAN,F8VSD0_HUMAN,F8VR90_HUMAN,F8VQY5_HUMAN	UPI000007131B	.	.	.	18/18	.	PROSITE_profiles:PS50238,hmmpanther:PTHR23181,hmmpanther:PTHR23181:SF4,Gene3D:1.10.555.10,SMART_domains:SM00324,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCAGCTG	.	5	BLCA
SLC16A7	0	.	GRCh37	12	60165093	60165093	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.311C>A	p.Ser104Tyr	p.S104Y	ENST00000261187	3/5	313	196	116	159	159	0	SLC16A7,missense_variant,p.Ser5Tyr,ENST00000543448,;SLC16A7,missense_variant,p.Ser104Tyr,ENST00000552432,;SLC16A7,missense_variant,p.Ser104Tyr,ENST00000261187,;SLC16A7,missense_variant,p.Ser104Tyr,ENST00000548610,;SLC16A7,missense_variant,p.Ser104Tyr,ENST00000547379,;SLC16A7,missense_variant,p.Ser104Tyr,ENST00000552024,;SLC16A7,5_prime_UTR_variant,,ENST00000548444,;SLC16A7,downstream_gene_variant,,ENST00000547801,;SLC16A7,downstream_gene_variant,,ENST00000552405,;SLC16A7,3_prime_UTR_variant,,ENST00000549033,;SLC16A7,3_prime_UTR_variant,,ENST00000549928,;SLC16A7,downstream_gene_variant,,ENST00000546459,;	A	ENSG00000118596	ENST00000261187	Transcript	missense_variant	475	311	104	S/Y	tCc/tAc	COSM1990205	.	.	1	SLC16A7	HGNC	10928	protein_coding	YES	CCDS8961.1	ENSP00000261187	MOT2_HUMAN	F8W0N3_HUMAN,F8VS95_HUMAN,F5H843_HUMAN	UPI00000722FD	.	deleterious(0)	probably_damaging(0.991)	3/5	.	Superfamily_domains:SSF103473,TIGRFAM_domain:TIGR00892,Pfam_domain:PF07690,Gene3D:1.20.1250.20,hmmpanther:PTHR11360,hmmpanther:PTHR11360:SF25,PROSITE_profiles:PS50850,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCCTTTA	.	5	BLCA
HMGA2	0	.	GRCh37	12	66308734	66308734	+	Intron	SNP	C	C	T	rs149251955	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250-36429C>T	.	.	ENST00000403681	.	61	36	24	39	38	1	HMGA2,3_prime_UTR_variant,,ENST00000536545,;HMGA2,intron_variant,,ENST00000354636,;HMGA2,intron_variant,,ENST00000541363,;HMGA2,intron_variant,,ENST00000393577,;HMGA2,intron_variant,,ENST00000403681,;AC090673.2,intron_variant,,ENST00000601398,;HMGA2,intron_variant,,ENST00000539662,;	T	ENSG00000149948	ENST00000403681	Transcript	intron_variant	.	.	.	.	.	rs149251955	.	.	1	HMGA2	HGNC	5009	protein_coding	YES	CCDS44936.1	ENSP00000384026	HMGA2_HUMAN	Q8IZX8_HUMAN,B2KX87_HUMAN	UPI0000000CE6	.	.	.	.	3/4	.	T:0.0006	T:0.0008	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACAGGCGTGAG	byFrequency|by1000G	4	BLCA
LRRC10	0	.	GRCh37	12	70004086	70004086	+	Missense_Mutation	SNP	C	C	T	rs138855649	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.533G>A	p.Arg178Gln	p.R178Q	ENST00000361484	1/1	357	323	34	41	41	0	LRRC10,missense_variant,p.Arg178Gln,ENST00000361484,;	T	ENSG00000198812	ENST00000361484	Transcript	missense_variant	857	533	178	R/Q	cGg/cAg	rs138855649	.	.	-1	LRRC10	HGNC	20264	protein_coding	YES	CCDS31856.1	ENSP00000355166	LRC10_HUMAN	Q3KP57_HUMAN,Q3B873_HUMAN	UPI00001D79A1	.	tolerated(0.28)	benign(0)	1/1	.	Superfamily_domains:SSF52058,SMART_domains:SM00364,SMART_domains:SM00369,Pfam_domain:PF00560,Gene3D:3.80.10.10,hmmpanther:PTHR23155,PROSITE_profiles:PS51450	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAGCCGGTTG	byCluster	4	BLCA
KCNMB4	0	.	GRCh37	12	70794070	70794070	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418G>C	p.Glu140Gln	p.E140Q	ENST00000258111	2/3	297	217	80	121	121	0	KCNMB4,missense_variant,p.Glu140Gln,ENST00000258111,;KCNMB4,missense_variant,p.Glu28Gln,ENST00000531884,;	C	ENSG00000135643	ENST00000258111	Transcript	missense_variant	877	418	140	E/Q	Gag/Cag	.	.	.	1	KCNMB4	HGNC	6289	protein_coding	YES	CCDS8997.1	ENSP00000258111	KCMB4_HUMAN	.	UPI0000073E0E	.	tolerated(0.16)	benign(0.422)	2/3	.	Pfam_domain:PF03185,hmmpanther:PTHR10258,hmmpanther:PTHR10258:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAGATT	.	5	BLCA
ZFC3H1	0	.	GRCh37	12	72030746	72030746	+	Missense_Mutation	SNP	C	C	T	rs191798821	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1819G>A	p.Glu607Lys	p.E607K	ENST00000378743	8/35	213	100	113	67	67	0	ZFC3H1,missense_variant,p.Glu607Lys,ENST00000378743,;SNORA17,upstream_gene_variant,,ENST00000391159,;ZFC3H1,missense_variant,p.Glu607Lys,ENST00000552994,;ZFC3H1,upstream_gene_variant,,ENST00000546606,;	T	ENSG00000133858	ENST00000378743	Transcript	missense_variant	2178	1819	607	E/K	Gaa/Aaa	rs191798821	.	.	-1	ZFC3H1	HGNC	28328	protein_coding	YES	CCDS41813.1	ENSP00000368017	ZC3H1_HUMAN	.	UPI00003668E9	.	deleterious(0.03)	probably_damaging(0.986)	8/35	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21563	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCAGGTG	byCluster	5	BLCA
CAPS2	0	.	GRCh37	12	75693620	75693620	+	Missense_Mutation	SNP	G	G	A	rs556740394	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.908C>T	p.Ser303Leu	p.S303L	ENST00000409445	10/18	201	152	49	119	119	0	CAPS2,missense_variant,p.Ser303Leu,ENST00000409445,;CAPS2,missense_variant,p.Ser253Leu,ENST00000409799,;CAPS2,missense_variant,p.Ser71Leu,ENST00000393284,;CAPS2,intron_variant,,ENST00000442339,;CAPS2,downstream_gene_variant,,ENST00000552497,;CAPS2,downstream_gene_variant,,ENST00000551829,;RP11-560G2.1,downstream_gene_variant,,ENST00000549953,;RP11-560G2.1,downstream_gene_variant,,ENST00000534648,;CAPS2,non_coding_transcript_exon_variant,,ENST00000409004,;CAPS2,3_prime_UTR_variant,,ENST00000328705,;CAPS2,intron_variant,,ENST00000336815,;	A	ENSG00000180881	ENST00000409445	Transcript	missense_variant	1105	908	303	S/L	tCa/tTa	rs556740394,COSM3955151,COSM3955150	.	.	-1	CAPS2	HGNC	16471	protein_coding	YES	CCDS9008.2	ENSP00000386959	CAYP2_HUMAN	F8VZC3_HUMAN	UPI000006D783	.	deleterious(0.01)	possibly_damaging(0.839)	10/18	.	hmmpanther:PTHR10891:SF548,hmmpanther:PTHR10891	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCGTGATACG	.	5	BLCA
CLEC4C	0	.	GRCh37	12	7899978	7899978	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-34G>A	.	.	ENST00000542353	2/7	115	77	38	46	46	0	CLEC4C,5_prime_UTR_variant,,ENST00000542353,;CLEC4C,5_prime_UTR_variant,,ENST00000354629,;CLEC4C,5_prime_UTR_variant,,ENST00000360345,;CLEC4C,5_prime_UTR_variant,,ENST00000540085,;CLEC4C,upstream_gene_variant,,ENST00000543765,;	T	ENSG00000198178	ENST00000542353	Transcript	5_prime_UTR_variant	458	.	.	.	.	.	.	.	-1	CLEC4C	HGNC	13258	protein_coding	YES	CCDS8583.1	ENSP00000440428	CLC4C_HUMAN	H0YFH6_HUMAN	UPI000003C38D	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCTATCAGGTG	.	4	BLCA
NANOG	0	.	GRCh37	12	7947706	7947706	+	3'UTR	SNP	G	G	A	rs772613714	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15G>A	.	.	ENST00000229307	4/4	142	113	29	89	89	0	NANOG,3_prime_UTR_variant,,ENST00000229307,;NANOG,downstream_gene_variant,,ENST00000526286,;NANOG,downstream_gene_variant,,ENST00000541267,;NANOG,downstream_gene_variant,,ENST00000526434,;	A	ENSG00000111704	ENST00000229307	Transcript	3_prime_UTR_variant	1152	.	.	.	.	rs772613714	.	.	1	NANOG	HGNC	20857	protein_coding	YES	CCDS31736.1	ENSP00000229307	NANOG_HUMAN	J7H4F6_HUMAN,F5GZI2_HUMAN	UPI000013C8F5	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AAACTGATATT	byFrequency	2	BLCA
PPP1R12A	0	.	GRCh37	12	80200099	80200099	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1670G>A	p.Arg557Lys	p.R557K	ENST00000450142	13/25	205	164	40	123	123	0	PPP1R12A,missense_variant,p.Arg470Lys,ENST00000546369,;PPP1R12A,missense_variant,p.Arg557Lys,ENST00000261207,;PPP1R12A,missense_variant,p.Arg557Lys,ENST00000437004,;PPP1R12A,missense_variant,p.Arg557Lys,ENST00000547330,;PPP1R12A,missense_variant,p.Arg557Lys,ENST00000450142,;AC073569.1,intron_variant,,ENST00000598624,;PPP1R12A,intron_variant,,ENST00000547131,;PPP1R12A,intron_variant,,ENST00000553081,;PPP1R12A,intron_variant,,ENST00000550107,;PPP1R12A,downstream_gene_variant,,ENST00000550001,;PPP1R12A,upstream_gene_variant,,ENST00000550007,;	T	ENSG00000058272	ENST00000450142	Transcript	missense_variant	1937	1670	557	R/K	aGa/aAa	.	.	.	-1	PPP1R12A	HGNC	7618	protein_coding	YES	CCDS44947.1	ENSP00000389168	MYPT1_HUMAN	F8VW28_HUMAN	UPI0000073E69	.	tolerated(0.36)	benign(0.005)	13/25	.	hmmpanther:PTHR24179:SF20,hmmpanther:PTHR24179,PIRSF_domain:PIRSF038141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTCTACCA	.	4	BLCA
CCDC59	0	.	GRCh37	12	82752178	82752178	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-23G>A	.	.	ENST00000256151	1/4	45	24	21	29	29	0	CCDC59,5_prime_UTR_variant,,ENST00000256151,;METTL25,upstream_gene_variant,,ENST00000550058,;METTL25,upstream_gene_variant,,ENST00000248306,;CCDC59,upstream_gene_variant,,ENST00000552377,;METTL25,upstream_gene_variant,,ENST00000548200,;CCDC59,intron_variant,,ENST00000548126,;METTL25,upstream_gene_variant,,ENST00000547985,;CCDC59,upstream_gene_variant,,ENST00000552412,;METTL25,upstream_gene_variant,,ENST00000547357,;METTL25,upstream_gene_variant,,ENST00000548569,;CCDC59,non_coding_transcript_exon_variant,,ENST00000552606,;CCDC59,intron_variant,,ENST00000547758,;CCDC59,upstream_gene_variant,,ENST00000550589,;	T	ENSG00000133773	ENST00000256151	Transcript	5_prime_UTR_variant	390	.	.	.	.	.	.	.	-1	CCDC59	HGNC	25005	protein_coding	YES	CCDS9023.1	ENSP00000256151	TAP26_HUMAN	.	UPI0000034DFE	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCAGAAG	.	5	BLCA
FAM90A1	0	.	GRCh37	12	8374596	8374596	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1217C>G	p.Ser406Cys	p.S406C	ENST00000538603	7/7	77	57	19	46	46	0	FAM90A1,missense_variant,p.Ser406Cys,ENST00000538603,;FAM90A1,missense_variant,p.Ser406Cys,ENST00000307435,;FAM90A1,downstream_gene_variant,,ENST00000442295,;RP11-266K4.1,upstream_gene_variant,,ENST00000542600,;	C	ENSG00000171847	ENST00000538603	Transcript	missense_variant	1776	1217	406	S/C	tCc/tGc	.	.	.	-1	FAM90A1	HGNC	25526	protein_coding	YES	CCDS31738.1	ENSP00000445418	F90A1_HUMAN	.	UPI000013EC10	.	deleterious(0)	possibly_damaging(0.472)	7/7	.	hmmpanther:PTHR16035:SF8,hmmpanther:PTHR16035	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTGGAGCTC	.	5	BLCA
CLEC4D	0	.	GRCh37	12	8672821	8672821	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.385-1G>C	.	p.X129_splice	ENST00000299665	.	71	39	32	23	23	0	CLEC4D,splice_acceptor_variant,,ENST00000382064,;CLEC4D,splice_acceptor_variant,,ENST00000299665,;	C	ENSG00000166527	ENST00000299665	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	CLEC4D	HGNC	14554	protein_coding	YES	CCDS8593.1	ENSP00000299665	CLC4D_HUMAN	A6NHA5_HUMAN	UPI0000072EBB	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F130V|c.388T>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGAACTT	.	5	BLCA
CLEC4D	0	.	GRCh37	12	8672847	8672847	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.410G>A	p.Arg137Lys	p.R137K	ENST00000299665	5/6	91	58	33	44	44	0	CLEC4D,missense_variant,p.Arg137Lys,ENST00000382064,;CLEC4D,missense_variant,p.Arg137Lys,ENST00000299665,;	A	ENSG00000166527	ENST00000299665	Transcript	missense_variant	603	410	137	R/K	aGa/aAa	COSM550187	.	.	1	CLEC4D	HGNC	14554	protein_coding	YES	CCDS8593.1	ENSP00000299665	CLC4D_HUMAN	A6NHA5_HUMAN	UPI0000072EBB	.	tolerated(0.33)	benign(0.057)	5/6	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF11,hmmpanther:PTHR22802,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATAGACGGC	.	5	BLCA
PZP	0	.	GRCh37	12	9313684	9313684	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2817G>C	p.Leu939Phe	p.L939F	ENST00000261336	23/36	173	119	54	82	82	0	PZP,missense_variant,p.Leu725Phe,ENST00000381997,;PZP,missense_variant,p.Leu939Phe,ENST00000261336,;PZP,non_coding_transcript_exon_variant,,ENST00000539983,;PZP,non_coding_transcript_exon_variant,,ENST00000546197,;PZP,downstream_gene_variant,,ENST00000540995,;PZP,downstream_gene_variant,,ENST00000543108,;PZP,3_prime_UTR_variant,,ENST00000535230,;TPT1P12,upstream_gene_variant,,ENST00000448968,;	G	ENSG00000126838	ENST00000261336	Transcript	missense_variant	2846	2817	939	L/F	ttG/ttC	.	.	.	-1	PZP	HGNC	9750	protein_coding	YES	CCDS8600.1	ENSP00000261336	PZP_HUMAN	.	UPI000013D168	.	deleterious(0.01)	probably_damaging(0.991)	23/36	.	hmmpanther:PTHR11412,hmmpanther:PTHR11412:SF87	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCAAGGA	.	5	BLCA
CDK17	0	.	GRCh37	12	96692698	96692698	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664G>A	p.Glu222Lys	p.E222K	ENST00000261211	7/17	110	66	43	69	69	0	CDK17,missense_variant,p.Glu222Lys,ENST00000543119,;CDK17,missense_variant,p.Glu169Lys,ENST00000542666,;CDK17,missense_variant,p.Glu222Lys,ENST00000261211,;RNU4-24P,downstream_gene_variant,,ENST00000364565,;CDK17,non_coding_transcript_exon_variant,,ENST00000553042,;CDK17,upstream_gene_variant,,ENST00000550971,;CDK17,upstream_gene_variant,,ENST00000551484,;	T	ENSG00000059758	ENST00000261211	Transcript	missense_variant	1268	664	222	E/K	Gag/Aag	.	.	.	-1	CDK17	HGNC	8750	protein_coding	YES	CCDS9061.1	ENSP00000261211	CDK17_HUMAN	F8VZY6_HUMAN,F8VUX2_HUMAN,F8VQZ9_HUMAN	UPI000006F45A	.	deleterious(0)	possibly_damaging(0.818)	7/17	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR24056:SF128,hmmpanther:PTHR24056,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCTTTTA	.	5	BLCA
TPP2	0	.	GRCh37	13	103289587	103289587	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1834G>A	p.Glu612Lys	p.E612K	ENST00000376065	14/29	133	97	35	56	56	0	TPP2,missense_variant,p.Glu612Lys,ENST00000376052,;TPP2,missense_variant,p.Glu612Lys,ENST00000376065,;	A	ENSG00000134900	ENST00000376065	Transcript	missense_variant	1870	1834	612	E/K	Gag/Aag	.	.	.	1	TPP2	HGNC	12016	protein_coding	YES	CCDS9502.1	ENSP00000365233	TPP2_HUMAN	.	UPI0000001C91	.	tolerated(0.19)	possibly_damaging(0.887)	14/29	.	hmmpanther:PTHR10795	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACAGAGGTA	.	5	BLCA
SLC10A2	0	.	GRCh37	13	103701709	103701709	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.849C>G	p.%3D	p.L283L	ENST00000245312	5/6	167	123	43	62	62	0	SLC10A2,synonymous_variant,p.%3D,ENST00000245312,;	C	ENSG00000125255	ENST00000245312	Transcript	synonymous_variant	1446	849	283	L	ctC/ctG	.	.	.	-1	SLC10A2	HGNC	10906	protein_coding	YES	CCDS9506.1	ENSP00000245312	NTCP2_HUMAN	.	UPI000013CB9B	.	.	.	5/6	.	TIGRFAM_domain:TIGR00841,hmmpanther:PTHR10361,hmmpanther:PTHR10361:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTGAGCTC	.	5	BLCA
GPR12	0	.	GRCh37	13	27333462	27333462	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.503C>A	p.Ser168Tyr	p.S168Y	ENST00000405846	2/2	52	27	25	39	39	0	GPR12,missense_variant,p.Ser168Tyr,ENST00000405846,;GPR12,missense_variant,p.Ser168Tyr,ENST00000381436,;	T	ENSG00000132975	ENST00000405846	Transcript	missense_variant	725	503	168	S/Y	tCc/tAc	.	.	.	-1	GPR12	HGNC	4466	protein_coding	YES	CCDS9319.1	ENSP00000384932	GPR12_HUMAN	B4DG25_HUMAN,A8K2F5_HUMAN	UPI000003EC24	.	deleterious(0)	possibly_damaging(0.781)	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF8,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATGGAGGTC	.	5	BLCA
RXFP2	0	.	GRCh37	13	32376282	32376282	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2006-1G>C	.	p.X669_splice	ENST00000298386	.	87	59	28	53	53	0	RXFP2,splice_acceptor_variant,,ENST00000380314,;RXFP2,splice_acceptor_variant,,ENST00000298386,;	C	ENSG00000133105	ENST00000298386	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	RXFP2	HGNC	17318	protein_coding	YES	CCDS9342.1	ENSP00000298386	RXFP2_HUMAN	.	UPI0000049589	.	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCAGACACA	.	5	BLCA
FRY	0	.	GRCh37	13	32826051	32826051	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7207C>G	p.Leu2403Val	p.L2403V	ENST00000380250	50/61	129	63	66	76	76	0	FRY,missense_variant,p.Leu2403Val,ENST00000380250,;FRY,upstream_gene_variant,,ENST00000602645,;	G	ENSG00000073910	ENST00000380250	Transcript	missense_variant	7703	7207	2403	L/V	Ctg/Gtg	.	.	.	1	FRY	HGNC	20367	protein_coding	YES	CCDS41875.1	ENSP00000369600	FRY_HUMAN	Q96KW3_HUMAN,F5H4D2_HUMAN	UPI000046FD40	.	tolerated(0.12)	probably_damaging(0.998)	50/61	.	hmmpanther:PTHR12295,hmmpanther:PTHR12295:SF29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTGTGT	.	5	BLCA
PDS5B	0	.	GRCh37	13	33327482	33327482	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2749C>G	p.Gln917Glu	p.Q917E	ENST00000315596	25/35	234	114	120	102	102	0	PDS5B,missense_variant,p.Gln917Glu,ENST00000315596,;PDS5B,upstream_gene_variant,,ENST00000447833,;PDS5B,missense_variant,p.Gln917Glu,ENST00000450460,;	G	ENSG00000083642	ENST00000315596	Transcript	missense_variant	2935	2749	917	Q/E	Caa/Gaa	.	.	.	1	PDS5B	HGNC	20418	protein_coding	YES	CCDS41878.1	ENSP00000313851	PDS5B_HUMAN	.	UPI000006D4A9	.	tolerated(0.49)	benign(0.003)	25/35	.	hmmpanther:PTHR12663,hmmpanther:PTHR12663:SF1,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATCAAGTA	.	5	BLCA
CSNK1A1L	0	.	GRCh37	13	37678363	37678363	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*17G>A	.	.	ENST00000379800	1/1	135	77	58	45	45	0	CSNK1A1L,3_prime_UTR_variant,,ENST00000379800,;	T	ENSG00000180138	ENST00000379800	Transcript	3_prime_UTR_variant	1441	.	.	.	.	.	.	.	-1	CSNK1A1L	HGNC	20289	protein_coding	YES	CCDS9363.1	ENSP00000369126	KC1AL_HUMAN	.	UPI000003C95C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTGTTC	.	5	BLCA
FREM2	0	.	GRCh37	13	39263784	39263784	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2303C>T	p.Ser768Leu	p.S768L	ENST00000280481	1/24	112	74	38	59	59	0	FREM2,missense_variant,p.Ser768Leu,ENST00000280481,;	T	ENSG00000150893	ENST00000280481	Transcript	missense_variant	2519	2303	768	S/L	tCa/tTa	.	.	.	1	FREM2	HGNC	25396	protein_coding	YES	CCDS31960.1	ENSP00000280481	FREM2_HUMAN	.	UPI00005520B9	.	tolerated(0.11)	benign(0.011)	1/24	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGTCG	.	5	BLCA
AKAP11	0	.	GRCh37	13	42882732	42882732	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5260delC	p.His1754IlefsTer2	p.H1754Ifs*2	ENST00000025301	9/13	319	251	68	94	94	0	AKAP11,frameshift_variant,p.His1754IlefsTer2,ENST00000025301,;	-	ENSG00000023516	ENST00000025301	Transcript	frameshift_variant	5435	5260	1754	H/X	Cat/at	.	.	.	1	AKAP11	HGNC	369	protein_coding	YES	CCDS9383.1	ENSP00000025301	AKA11_HUMAN	Q6AI61_HUMAN	UPI0000125747	.	.	.	9/13	.	hmmpanther:PTHR10226,hmmpanther:PTHR10226:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTCATCATCTA	.	3	BLCA
EPSTI1	0	.	GRCh37	13	43462253	43462253	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*133C>G	.	.	ENST00000313640	13/13	37	30	7	8	8	0	EPSTI1,3_prime_UTR_variant,,ENST00000313640,;EPSTI1,3_prime_UTR_variant,,ENST00000313624,;EPSTI1,downstream_gene_variant,,ENST00000398762,;EPSTI1,non_coding_transcript_exon_variant,,ENST00000540470,;	C	ENSG00000133106	ENST00000313640	Transcript	3_prime_UTR_variant	1431	.	.	.	.	.	.	.	-1	EPSTI1	HGNC	16465	protein_coding	YES	CCDS31964.1	ENSP00000318982	ESIP1_HUMAN	F5H799_HUMAN	UPI0000074657	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACCTGATCTG	.	2	BLCA
CPB2	0	.	GRCh37	13	46638814	46638814	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>A	p.%3D	p.L255L	ENST00000181383	8/11	158	81	77	67	67	0	CPB2,synonymous_variant,p.%3D,ENST00000439329,;CPB2,synonymous_variant,p.%3D,ENST00000181383,;CPB2-AS1,intron_variant,,ENST00000415033,;CPB2-AS1,intron_variant,,ENST00000606243,;CPB2-AS1,intron_variant,,ENST00000606991,;CPB2-AS1,intron_variant,,ENST00000606351,;	T	ENSG00000080618	ENST00000181383	Transcript	synonymous_variant	782	765	255	L	ctG/ctA	.	.	.	-1	CPB2	HGNC	2300	protein_coding	YES	CCDS9401.1	ENSP00000181383	CBPB2_HUMAN	.	UPI000013C764	.	.	.	8/11	.	hmmpanther:PTHR11705:SF17,hmmpanther:PTHR11705,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187,Prints_domain:PR00765	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATTCAGGTC	.	5	BLCA
RB1	0	.	GRCh37	13	48881435	48881435	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.157G>T	p.Glu53Ter	p.E53*	ENST00000267163	2/27	144	107	36	69	69	0	RB1,stop_gained,p.Glu53Ter,ENST00000267163,;LINC00441,upstream_gene_variant,,ENST00000436963,;LINC00441,upstream_gene_variant,,ENST00000433480,;RB1,non_coding_transcript_exon_variant,,ENST00000525036,;RB1,intron_variant,,ENST00000467505,;	T	ENSG00000139687	ENST00000267163	Transcript	stop_gained	295	157	53	E/*	Gaa/Taa	COSM95157	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	2/27	.	hmmpanther:PTHR13742	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E54E|c.162A>G|3,BUFFER|p.E54E|c.162A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACAGAAGAA	.	5	BLCA
RB1	0	.	GRCh37	13	48954210	48954210	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411C>T	p.Gln471Ter	p.Q471*	ENST00000267163	15/27	41	27	14	28	28	0	RB1,stop_gained,p.Gln471Ter,ENST00000267163,;	T	ENSG00000139687	ENST00000267163	Transcript	stop_gained	1549	1411	471	Q/*	Caa/Taa	COSM29529	.	.	1	RB1	HGNC	9884	protein_coding	YES	CCDS31973.1	ENSP00000267163	RB_HUMAN	Q7KZ61_HUMAN,Q7KZ60_HUMAN,Q6LE82_HUMAN,Q6LE81_HUMAN,Q6LE80_HUMAN,Q6LE79_HUMAN,Q6LE77_HUMAN,Q6LE65_HUMAN,Q6DUF0_HUMAN,P78495_HUMAN,B4DRB3_HUMAN	UPI0000001C79	.	.	.	15/27	.	hmmpanther:PTHR13742,Pfam_domain:PF01858,Gene3D:1.10.472.10,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCATTCAAAAT	.	2	BLCA
LPAR6	0	.	GRCh37	13	48985593	48985593	+	Missense_Mutation	SNP	C	C	T	rs767102500	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967G>A	p.Glu323Lys	p.E323K	ENST00000378434	7/7	192	92	99	72	71	1	LPAR6,missense_variant,p.Glu323Lys,ENST00000345941,;LPAR6,missense_variant,p.Glu323Lys,ENST00000378434,;RB1,intron_variant,,ENST00000267163,;LPAR6,intron_variant,,ENST00000470937,;LPAR6,intron_variant,,ENST00000462781,;LPAR6,upstream_gene_variant,,ENST00000481832,;LPAR6,downstream_gene_variant,,ENST00000482024,;	T	ENSG00000139679	ENST00000378434	Transcript	missense_variant	2592	967	323	E/K	Gag/Aag	rs767102500	.	.	-1	LPAR6	HGNC	15520	protein_coding	YES	CCDS9410.1	ENSP00000367691	LPAR6_HUMAN	F2YGU4_HUMAN	UPI0000001083	.	tolerated(0.14)	benign(0.008)	7/7	.	hmmpanther:PTHR24232,hmmpanther:PTHR24232:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCTGCAC	byFrequency	5	BLCA
PCDH20	0	.	GRCh37	13	61987206	61987206	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1026C>G	p.%3D	p.V342V	ENST00000409186	5/5	184	103	81	65	65	0	PCDH20,synonymous_variant,p.%3D,ENST00000409204,;PCDH20,synonymous_variant,p.%3D,ENST00000409186,;	C	ENSG00000197991	ENST00000409186	Transcript	synonymous_variant	3132	1026	342	V	gtC/gtG	.	.	.	-1	PCDH20	HGNC	14257	protein_coding	YES	CCDS9442.2	ENSP00000386653	PCD20_HUMAN	B3KSZ7_HUMAN	UPI000007371F	.	.	.	5/5	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF24,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGACAGC	.	5	BLCA
BORA	0	.	GRCh37	13	73329354	73329354	+	Nonstop_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1680G>C	p.Ter560TyrextTer9	p.*560Yext*9	ENST00000390667	12/12	137	96	41	47	47	0	BORA,stop_lost,p.Ter560TyrextTer9,ENST00000390667,;BORA,stop_lost,p.Ter490TyrextTer9,ENST00000377815,;DIS3,downstream_gene_variant,,ENST00000545453,;DIS3,downstream_gene_variant,,ENST00000377767,;DIS3,downstream_gene_variant,,ENST00000377780,;DIS3,downstream_gene_variant,,ENST00000469339,;DIS3,downstream_gene_variant,,ENST00000490646,;	C	ENSG00000136122	ENST00000390667	Transcript	stop_lost	1777	1680	560	*/Y	taG/taC	.	.	.	1	BORA	HGNC	24724	protein_coding	YES	CCDS9446.1	ENSP00000375082	BORA_HUMAN	B5LMG6_HUMAN	UPI0000224003	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATAGAATGC	.	5	BLCA
SPRY2	0	.	GRCh37	13	80911179	80911179	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662G>A	p.Cys221Tyr	p.C221Y	ENST00000377102	2/2	128	86	41	58	58	0	SPRY2,missense_variant,p.Cys221Tyr,ENST00000377102,;SPRY2,missense_variant,p.Cys221Tyr,ENST00000377104,;SPRY2,missense_variant,p.Cys221Tyr,ENST00000540649,;	T	ENSG00000136158	ENST00000377102	Transcript	missense_variant	1640	662	221	C/Y	tGt/tAt	.	.	.	-1	SPRY2	HGNC	11270	protein_coding	YES	CCDS9463.1	ENSP00000366306	SPY2_HUMAN	.	UPI0000001301	.	deleterious(0.04)	probably_damaging(0.996)	2/2	.	PROSITE_profiles:PS51227,hmmpanther:PTHR12365:SF8,hmmpanther:PTHR12365,Pfam_domain:PF05210	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACACAGCAT	.	5	BLCA
GPC5	0	.	GRCh37	13	93518710	93518710	+	3'UTR	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18G>T	.	.	ENST00000377067	8/8	213	153	60	95	95	0	GPC5,3_prime_UTR_variant,,ENST00000377067,;	T	ENSG00000179399	ENST00000377067	Transcript	3_prime_UTR_variant	2109	.	.	.	.	.	.	.	1	GPC5	HGNC	4453	protein_coding	YES	CCDS9468.1	ENSP00000366267	GPC5_HUMAN	.	UPI0000001C85	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGACATA	.	5	BLCA
CKB	0	.	GRCh37	14	103986600	103986600	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.826C>T	p.His276Tyr	p.H276Y	ENST00000348956	7/8	67	42	25	43	43	0	CKB,missense_variant,p.His27Tyr,ENST00000555039,;CKB,missense_variant,p.His276Tyr,ENST00000348956,;CKB,missense_variant,p.His74Tyr,ENST00000553610,;CKB,downstream_gene_variant,,ENST00000557530,;CKB,downstream_gene_variant,,ENST00000553878,;RP11-600F24.7,downstream_gene_variant,,ENST00000568177,;CKB,3_prime_UTR_variant,,ENST00000554989,;CKB,3_prime_UTR_variant,,ENST00000553652,;CKB,non_coding_transcript_exon_variant,,ENST00000554282,;CKB,non_coding_transcript_exon_variant,,ENST00000553528,;CKB,non_coding_transcript_exon_variant,,ENST00000555366,;CKB,downstream_gene_variant,,ENST00000557569,;CKB,downstream_gene_variant,,ENST00000554426,;CKB,downstream_gene_variant,,ENST00000553994,;CKB,downstream_gene_variant,,ENST00000557287,;CKB,downstream_gene_variant,,ENST00000554705,;CKB,downstream_gene_variant,,ENST00000555770,;CKB,downstream_gene_variant,,ENST00000555659,;	A	ENSG00000166165	ENST00000348956	Transcript	missense_variant	1184	826	276	H/Y	Cac/Tac	.	.	.	-1	CKB	HGNC	1991	protein_coding	YES	CCDS9981.1	ENSP00000299198	KCRB_HUMAN	G3V4N7_HUMAN,G3V461_HUMAN	UPI000012DCBA	.	tolerated(0.07)	benign(0.264)	7/8	.	PROSITE_profiles:PS51510,hmmpanther:PTHR11547,Gene3D:3.30.590.10,Pfam_domain:PF00217,Superfamily_domains:SSF55931	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTGAGGGT	.	5	BLCA
CEP170B	0	.	GRCh37	14	105352817	105352817	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2241C>T	p.%3D	p.L747L	ENST00000414716	12/19	13	10	3	12	12	0	CEP170B,synonymous_variant,p.%3D,ENST00000414716,;CEP170B,synonymous_variant,p.%3D,ENST00000556508,;CEP170B,synonymous_variant,p.%3D,ENST00000418279,;CEP170B,synonymous_variant,p.%3D,ENST00000453495,;	T	ENSG00000099814	ENST00000414716	Transcript	synonymous_variant	2469	2241	747	L	ctC/ctT	.	.	.	1	CEP170B	HGNC	20362	protein_coding	YES	CCDS45175.1	ENSP00000404151	C170B_HUMAN	E9PFC1_HUMAN	UPI00001FDCF7	.	.	.	12/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15715,hmmpanther:PTHR15715:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCAGCGA	.	2	BLCA
POTEG	0	.	GRCh37	14	19553588	19553588	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172A>G	p.Arg58Gly	p.R58G	ENST00000409832	1/11	797	760	36	687	687	0	POTEG,missense_variant,p.Arg58Gly,ENST00000409832,;POTEG,missense_variant,p.Arg58Gly,ENST00000552966,;POTEG,missense_variant,p.Arg58Gly,ENST00000547889,;	G	ENSG00000222036	ENST00000409832	Transcript	missense_variant	224	172	58	R/G	Agg/Ggg	.	.	.	1	POTEG	HGNC	33896	protein_coding	YES	CCDS32018.1	ENSP00000386971	POTEG_HUMAN	.	UPI00004443FE	.	deleterious_low_confidence(0)	possibly_damaging(0.889)	1/11	.	hmmpanther:PTHR24118:SF43,hmmpanther:PTHR24118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACTCAGGAGC	.	2	BLCA
POTEM	0	.	GRCh37	14	20020049	20020049	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172A>G	p.Arg58Gly	p.R58G	ENST00000551509	1/11	334	308	26	277	276	1	POTEM,missense_variant,p.Arg58Gly,ENST00000551509,;POTEM,missense_variant,p.Arg58Gly,ENST00000547848,;POTEM,missense_variant,p.Arg58Gly,ENST00000547722,;	C	ENSG00000187537	ENST00000551509	Transcript	missense_variant	224	172	58	R/G	Agg/Ggg	.	.	.	-1	POTEM	HGNC	37096	protein_coding	YES	CCDS45076.1	ENSP00000452296	POTEM_HUMAN	.	UPI00006C1407	.	deleterious_low_confidence(0)	probably_damaging(0.916)	1/11	.	hmmpanther:PTHR24118,hmmpanther:PTHR24118:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCCTGAGTG	.	2	BLCA
METTL3	0	.	GRCh37	14	21967206	21967206	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1594G>C	p.Glu532Gln	p.E532Q	ENST00000298717	10/11	112	85	27	59	59	0	METTL3,missense_variant,p.Glu532Gln,ENST00000298717,;TOX4,3_prime_UTR_variant,,ENST00000262709,;TOX4,3_prime_UTR_variant,,ENST00000405508,;TOX4,downstream_gene_variant,,ENST00000448790,;METTL3,downstream_gene_variant,,ENST00000538267,;METTL3,downstream_gene_variant,,ENST00000377543,;METTL3,3_prime_UTR_variant,,ENST00000537163,;METTL3,3_prime_UTR_variant,,ENST00000543235,;METTL3,3_prime_UTR_variant,,ENST00000544248,;METTL3,3_prime_UTR_variant,,ENST00000539760,;METTL3,non_coding_transcript_exon_variant,,ENST00000544500,;METTL3,non_coding_transcript_exon_variant,,ENST00000396522,;TOX4,downstream_gene_variant,,ENST00000455393,;TOX4,downstream_gene_variant,,ENST00000476180,;METTL3,downstream_gene_variant,,ENST00000539910,;METTL3,downstream_gene_variant,,ENST00000536201,;METTL3,downstream_gene_variant,,ENST00000542054,;	G	ENSG00000165819	ENST00000298717	Transcript	missense_variant	1746	1594	532	E/Q	Gag/Cag	COSM3931905	.	.	-1	METTL3	HGNC	17563	protein_coding	YES	CCDS32044.1	ENSP00000298717	MTA70_HUMAN	B3KSH0_HUMAN	UPI000006CD69	.	deleterious(0)	probably_damaging(1)	10/11	.	PROSITE_profiles:PS51143,PROSITE_profiles:PS51563,hmmpanther:PTHR12829,Pfam_domain:PF05063,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACTCAATCT	.	5	BLCA
TRAV2	0	.	GRCh37	14	22180598	22180598	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45C>T	p.%3D	p.L15L	ENST00000390424	1/2	190	141	49	94	94	0	TRAV2,synonymous_variant,p.%3D,ENST00000390424,;AE000658.31,downstream_gene_variant,,ENST00000542992,;	T	ENSG00000211776	ENST00000390424	Transcript	synonymous_variant	55	45	15	L	ctC/ctT	.	.	.	1	TRAV2	HGNC	12116	TR_V_gene	YES	.	ENSP00000438195	.	.	UPI000011C701	.	.	.	1/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23267:SF129,hmmpanther:PTHR23267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCTCAA	.	5	BLCA
TRAV5	0	.	GRCh37	14	22217932	22217932	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283C>T	p.%3D	p.L95L	ENST00000390427	2/2	121	80	40	56	56	0	TRAV5,synonymous_variant,p.%3D,ENST00000390427,;RPL4P1,upstream_gene_variant,,ENST00000496596,;	T	ENSG00000211779	ENST00000390427	Transcript	synonymous_variant	295	283	95	L	Ctg/Ttg	.	.	.	1	TRAV5	HGNC	12143	TR_V_gene	YES	.	ENSP00000446355	.	.	UPI000011C704	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19433:SF64,hmmpanther:PTHR19433,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTGCGC	.	5	BLCA
MYH6	0	.	GRCh37	14	23872566	23872566	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.889G>C	p.Glu297Gln	p.E297Q	ENST00000405093	10/39	342	201	141	220	220	0	MYH6,missense_variant,p.Glu297Gln,ENST00000405093,;MYH6,missense_variant,p.Glu297Gln,ENST00000356287,;MYH6,non_coding_transcript_exon_variant,,ENST00000557461,;	G	ENSG00000197616	ENST00000405093	Transcript	missense_variant	960	889	297	E/Q	Gag/Cag	.	.	.	-1	MYH6	HGNC	7576	protein_coding	YES	CCDS9600.1	ENSP00000386041	MYH6_HUMAN	Q9UQV1_HUMAN,A8CLL2_HUMAN	UPI0000160969	.	deleterious(0.02)	possibly_damaging(0.669)	10/39	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF260,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCCGGCT	.	5	BLCA
PCK2	0	.	GRCh37	14	24567839	24567839	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616G>A	p.Asp206Asn	p.D206N	ENST00000216780	4/10	37	20	16	23	23	0	PCK2,missense_variant,p.Asp206Asn,ENST00000216780,;PCK2,missense_variant,p.Asp72Asn,ENST00000561286,;PCK2,missense_variant,p.Asp218Asn,ENST00000559250,;PCK2,missense_variant,p.Asp206Asn,ENST00000396973,;PCK2,missense_variant,p.Asp72Asn,ENST00000545054,;PCK2,missense_variant,p.Asp72Asn,ENST00000558096,;PCK2,missense_variant,p.Asp72Asn,ENST00000559837,;PCK2,missense_variant,p.Asp72Asn,ENST00000560736,;NRL,intron_variant,,ENST00000558280,;NRL,intron_variant,,ENST00000561028,;NRL,upstream_gene_variant,,ENST00000396997,;PCK2,upstream_gene_variant,,ENST00000559171,;PCK2,downstream_gene_variant,,ENST00000560657,;PCK2,missense_variant,p.Asp41Asn,ENST00000559503,;PCK2,non_coding_transcript_exon_variant,,ENST00000561050,;PCK2,non_coding_transcript_exon_variant,,ENST00000558674,;PCK2,downstream_gene_variant,,ENST00000560106,;PCK2,downstream_gene_variant,,ENST00000559584,;PCK2,upstream_gene_variant,,ENST00000557969,;	A	ENSG00000100889	ENST00000216780	Transcript	missense_variant	884	616	206	D/N	Gac/Aac	.	.	.	1	PCK2	HGNC	8725	protein_coding	YES	CCDS9609.1	ENSP00000216780	PCKGM_HUMAN	H0YNG4_HUMAN,H0YMU6_HUMAN,B4DW73_HUMAN	UPI000013C708	.	tolerated(0.1)	benign(0.383)	4/10	.	Superfamily_domains:SSF68923,PIRSF_domain:PIRSF001348,Gene3D:3.40.449.10,Pfam_domain:PF00821,hmmpanther:PTHR11561:SF3,hmmpanther:PTHR11561,HAMAP:MF_00452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTGACTTT	.	5	BLCA
LTB4R2	0	.	GRCh37	14	24780920	24780920	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1050G>A	p.%3D	p.E350E	ENST00000543919	2/2	82	48	34	33	33	0	LTB4R2,synonymous_variant,p.%3D,ENST00000543919,;LTB4R2,synonymous_variant,p.%3D,ENST00000533293,;LTB4R2,synonymous_variant,p.%3D,ENST00000528054,;LTB4R,5_prime_UTR_variant,,ENST00000345363,;LTB4R,intron_variant,,ENST00000553481,;LTB4R2,downstream_gene_variant,,ENST00000527924,;LTB4R,upstream_gene_variant,,ENST00000396782,;LTB4R2,downstream_gene_variant,,ENST00000530080,;CIDEB,upstream_gene_variant,,ENST00000554411,;CIDEB,upstream_gene_variant,,ENST00000336557,;CIDEB,upstream_gene_variant,,ENST00000258807,;NOP9,downstream_gene_variant,,ENST00000267425,;LTB4R,upstream_gene_variant,,ENST00000396789,;LTB4R,upstream_gene_variant,,ENST00000556141,;CIDEB,upstream_gene_variant,,ENST00000555817,;CIDEB,upstream_gene_variant,,ENST00000555471,;	A	ENSG00000213906	ENST00000543919	Transcript	synonymous_variant	1221	1050	350	E	gaG/gaA	.	.	.	1	LTB4R2	HGNC	19260	protein_coding	YES	CCDS9625.2	ENSP00000445772	LT4R2_HUMAN	E9PNJ6_HUMAN,E9PIC1_HUMAN	UPI000003C105	.	.	.	2/2	.	hmmpanther:PTHR24230,hmmpanther:PTHR24230:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGAGAAGGA	.	5	BLCA
RIPK3	0	.	GRCh37	14	24806655	24806655	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.912C>T	p.%3D	p.F304F	ENST00000216274	8/10	336	248	87	171	171	0	RIPK3,synonymous_variant,p.%3D,ENST00000216274,;ADCY4,upstream_gene_variant,,ENST00000396747,;RIPK3,upstream_gene_variant,,ENST00000554569,;ADCY4,upstream_gene_variant,,ENST00000561138,;ADCY4,upstream_gene_variant,,ENST00000554068,;ADCY4,upstream_gene_variant,,ENST00000418030,;ADCY4,upstream_gene_variant,,ENST00000310677,;ADCY4,upstream_gene_variant,,ENST00000559167,;RP11-934B9.3,upstream_gene_variant,,ENST00000555591,;RIPK3,downstream_gene_variant,,ENST00000554338,;ADCY4,upstream_gene_variant,,ENST00000558563,;ADCY4,upstream_gene_variant,,ENST00000558125,;RIPK3,3_prime_UTR_variant,,ENST00000554756,;RIPK3,downstream_gene_variant,,ENST00000557253,;ADCY4,upstream_gene_variant,,ENST00000554577,;RIPK3,downstream_gene_variant,,ENST00000557662,;ADCY4,upstream_gene_variant,,ENST00000554674,;RIPK3,downstream_gene_variant,,ENST00000557624,;ADCY4,upstream_gene_variant,,ENST00000557099,;ADCY4,upstream_gene_variant,,ENST00000557056,;ADCY4,upstream_gene_variant,,ENST00000554781,;	A	ENSG00000129465	ENST00000216274	Transcript	synonymous_variant	1131	912	304	F	ttC/ttT	.	.	.	-1	RIPK3	HGNC	10021	protein_coding	YES	CCDS9628.1	ENSP00000216274	RIPK3_HUMAN	.	UPI00000369E2	.	.	.	8/10	.	hmmpanther:PTHR23257:SF346,hmmpanther:PTHR23257	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAGGAAATC	.	5	BLCA
NYNRIN	0	.	GRCh37	14	24878243	24878243	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1243G>A	p.Glu415Lys	p.E415K	ENST00000382554	4/9	38	30	8	16	16	0	NYNRIN,missense_variant,p.Glu415Lys,ENST00000382554,;NYNRIN,upstream_gene_variant,,ENST00000554505,;	A	ENSG00000205978	ENST00000382554	Transcript	missense_variant	1561	1243	415	E/K	Gag/Aag	.	.	.	1	NYNRIN	HGNC	20165	protein_coding	YES	CCDS45090.1	ENSP00000371994	NYNRI_HUMAN	.	UPI0000251E63	.	deleterious_low_confidence(0)	possibly_damaging(0.505)	4/9	.	hmmpanther:PTHR12876,hmmpanther:PTHR12876:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTGGAGTGG	.	5	BLCA
NYNRIN	0	.	GRCh37	14	24885223	24885223	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4268C>T	p.Ser1423Phe	p.S1423F	ENST00000382554	9/9	127	98	29	58	58	0	NYNRIN,missense_variant,p.Ser1423Phe,ENST00000382554,;NYNRIN,downstream_gene_variant,,ENST00000554505,;	T	ENSG00000205978	ENST00000382554	Transcript	missense_variant	4586	4268	1423	S/F	tCc/tTc	.	.	.	1	NYNRIN	HGNC	20165	protein_coding	YES	CCDS45090.1	ENSP00000371994	NYNRI_HUMAN	.	UPI0000251E63	.	deleterious_low_confidence(0)	possibly_damaging(0.613)	9/9	.	Superfamily_domains:SSF53098,Gene3D:3.30.420.10,hmmpanther:PTHR12876,hmmpanther:PTHR12876:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCCCTTC	.	5	BLCA
FANCM	0	.	GRCh37	14	45623214	45623214	+	Missense_Mutation	SNP	C	C	T	rs765686151	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142C>T	p.Ser381Leu	p.S381L	ENST00000267430	6/23	140	66	74	96	96	0	FANCM,missense_variant,p.Ser381Leu,ENST00000556036,;FANCM,missense_variant,p.Ser355Leu,ENST00000542564,;FANCM,missense_variant,p.Ser381Leu,ENST00000267430,;FANCM,upstream_gene_variant,,ENST00000556250,;	T	ENSG00000187790	ENST00000267430	Transcript	missense_variant	1227	1142	381	S/L	tCa/tTa	rs765686151	.	.	1	FANCM	HGNC	23168	protein_coding	YES	CCDS32070.1	ENSP00000267430	FANCM_HUMAN	.	UPI000059F032	.	deleterious(0)	benign(0.251)	6/23	.	hmmpanther:PTHR14025,hmmpanther:PTHR14025:SF20,Gene3D:1wp9B03	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATCATTAT	.	5	BLCA
NIN	0	.	GRCh37	14	51196399	51196399	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5920C>G	p.His1974Asp	p.H1974D	ENST00000382041	29/30	27	22	5	12	12	0	NIN,missense_variant,p.His1974Asp,ENST00000245441,;NIN,missense_variant,p.His1974Asp,ENST00000382041,;NIN,missense_variant,p.His1465Asp,ENST00000389869,;NIN,missense_variant,p.His1465Asp,ENST00000530853,;NIN,missense_variant,p.His1261Asp,ENST00000382043,;NIN,missense_variant,p.His1974Asp,ENST00000453196,;NIN,missense_variant,p.His1974Asp,ENST00000530997,;NIN,3_prime_UTR_variant,,ENST00000389868,;NIN,3_prime_UTR_variant,,ENST00000324330,;NIN,3_prime_UTR_variant,,ENST00000476352,;NIN,3_prime_UTR_variant,,ENST00000485005,;NIN,upstream_gene_variant,,ENST00000555984,;	C	ENSG00000100503	ENST00000382041	Transcript	missense_variant	6111	5920	1974	H/D	Cat/Gat	.	.	.	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	deleterious(0.01)	benign(0.075)	29/30	.	hmmpanther:PTHR18905,hmmpanther:PTHR18905:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGCATGAGGGG	.	4	BLCA
TRIM9	0	.	GRCh37	14	51561040	51561040	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618G>T	p.Lys206Asn	p.K206N	ENST00000298355	1/10	39	31	8	37	37	0	TRIM9,missense_variant,p.Lys206Asn,ENST00000298355,;TRIM9,missense_variant,p.Lys206Asn,ENST00000360392,;TRIM9,missense_variant,p.Lys206Asn,ENST00000338969,;RP11-1140I5.1,downstream_gene_variant,,ENST00000554475,;	A	ENSG00000100505	ENST00000298355	Transcript	missense_variant	1740	618	206	K/N	aaG/aaT	.	.	.	-1	TRIM9	HGNC	16288	protein_coding	YES	CCDS9703.1	ENSP00000298355	TRIM9_HUMAN	.	UPI000006D630	.	deleterious(0)	benign(0.222)	1/10	.	PROSITE_profiles:PS50119,hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF289,SMART_domains:SM00336	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTGCTTGGC	.	5	BLCA
ERH	0	.	GRCh37	14	69847305	69847305	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>C	p.Glu89Gln	p.E89Q	ENST00000557016	4/4	131	89	42	75	75	0	ERH,missense_variant,p.Glu89Gln,ENST00000557016,;ERH,non_coding_transcript_exon_variant,,ENST00000216520,;ERH,non_coding_transcript_exon_variant,,ENST00000557697,;	G	ENSG00000100632	ENST00000557016	Transcript	missense_variant	659	265	89	E/Q	Gag/Cag	.	.	.	-1	ERH	HGNC	3447	protein_coding	YES	CCDS9794.1	ENSP00000451080	ERH_HUMAN	G3V279_HUMAN	UPI0000000284	.	tolerated(0.1)	benign(0.256)	4/4	.	hmmpanther:PTHR12373,hmmpanther:PTHR12373:SF1,Pfam_domain:PF01133,PIRSF_domain:PIRSF016393,Superfamily_domains:0053200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCTTTAA	.	5	BLCA
SLC8A3	0	.	GRCh37	14	70633746	70633746	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1394C>G	p.Ser465Cys	p.S465C	ENST00000381269	2/8	271	167	103	150	150	0	SLC8A3,missense_variant,p.Ser465Cys,ENST00000534137,;SLC8A3,missense_variant,p.Ser465Cys,ENST00000381269,;SLC8A3,missense_variant,p.Ser465Cys,ENST00000357887,;SLC8A3,missense_variant,p.Ser465Cys,ENST00000528359,;SLC8A3,missense_variant,p.Ser465Cys,ENST00000356921,;SLC8A3,missense_variant,p.Ser465Cys,ENST00000494208,;	C	ENSG00000100678	ENST00000381269	Transcript	missense_variant	2148	1394	465	S/C	tCc/tGc	.	.	.	-1	SLC8A3	HGNC	11070	protein_coding	YES	CCDS35498.1	ENSP00000370669	NAC3_HUMAN	Q86TQ9_HUMAN	UPI0000073C9A	.	deleterious(0.03)	benign(0.082)	2/8	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF7,Pfam_domain:PF03160,TIGRFAM_domain:TIGR00845,SMART_domains:SM00237,Superfamily_domains:SSF141072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACGGAGAAC	.	5	BLCA
ADAM21P1	0	.	GRCh37	14	70712772	70712772	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1747C>T	.	.	ENST00000530196	1/1	258	212	46	159	159	0	ADAM21P1,non_coding_transcript_exon_variant,,ENST00000530196,;ADAM21P1,non_coding_transcript_exon_variant,,ENST00000529267,;	A	ENSG00000235812	ENST00000530196	Transcript	non_coding_transcript_exon_variant	1747	.	.	.	.	.	.	.	-1	ADAM21P1	HGNC	19822	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTGAGAGT	.	4	BLCA
ADAM21	0	.	GRCh37	14	70925822	70925822	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1606C>T	p.Gln536Ter	p.Q536*	ENST00000603540	2/2	45	25	19	28	28	0	ADAM21,stop_gained,p.Gln536Ter,ENST00000603540,;ADAM21,stop_gained,p.Gln536Ter,ENST00000267499,;RP11-486O13.4,intron_variant,,ENST00000556646,;	T	ENSG00000139985	ENST00000603540	Transcript	stop_gained	1864	1606	536	Q/*	Cag/Tag	.	.	.	1	ADAM21	HGNC	200	protein_coding	YES	CCDS9804.1	ENSP00000474385	ADA21_HUMAN	.	UPI000013D756	.	.	.	2/2	.	SMART_domains:SM00608,Pfam_domain:PF08516,hmmpanther:PTHR11905:SF116,hmmpanther:PTHR11905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	ATTCTCAGGGA	.	4	BLCA
TTLL5	0	.	GRCh37	14	76219287	76219287	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1539C>G	p.%3D	p.L513L	ENST00000298832	18/32	198	123	74	106	106	0	TTLL5,synonymous_variant,p.%3D,ENST00000557636,;TTLL5,synonymous_variant,p.%3D,ENST00000554510,;TTLL5,synonymous_variant,p.%3D,ENST00000556893,;TTLL5,synonymous_variant,p.%3D,ENST00000298832,;TTLL5,non_coding_transcript_exon_variant,,ENST00000556976,;TTLL5,non_coding_transcript_exon_variant,,ENST00000555422,;TTLL5,non_coding_transcript_exon_variant,,ENST00000554148,;	G	ENSG00000119685	ENST00000298832	Transcript	synonymous_variant	1744	1539	513	L	ctC/ctG	.	.	.	1	TTLL5	HGNC	19963	protein_coding	YES	CCDS32124.1	ENSP00000298832	TTLL5_HUMAN	Q2TAY9_HUMAN,O95419_HUMAN	UPI00003FF22B	.	.	.	18/32	.	hmmpanther:PTHR12241:SF16,hmmpanther:PTHR12241	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCTTCCA	.	5	BLCA
VASH1	0	.	GRCh37	14	77245314	77245314	+	Missense_Mutation	SNP	G	G	A	rs762887343	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1051G>A	p.Glu351Lys	p.E351K	ENST00000167106	7/7	199	130	68	106	106	0	VASH1,missense_variant,p.Glu351Lys,ENST00000167106,;VASH1,5_prime_UTR_variant,,ENST00000554743,;RP11-488C13.7,non_coding_transcript_exon_variant,,ENST00000553758,;RP11-488C13.5,downstream_gene_variant,,ENST00000554058,;RP11-488C13.5,downstream_gene_variant,,ENST00000556072,;RP11-488C13.6,intron_variant,,ENST00000556368,;RP11-488C13.6,downstream_gene_variant,,ENST00000553507,;VASH1,downstream_gene_variant,,ENST00000556038,;	A	ENSG00000071246	ENST00000167106	Transcript	missense_variant	1684	1051	351	E/K	Gag/Aag	rs762887343	.	.	1	VASH1	HGNC	19964	protein_coding	YES	CCDS9851.1	ENSP00000167106	VASH1_HUMAN	.	UPI0000073F7C	.	tolerated(0.14)	benign(0.123)	7/7	.	hmmpanther:PTHR15750:SF3,hmmpanther:PTHR15750	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCCGAGCCC	byFrequency	5	BLCA
NRXN3	0	.	GRCh37	14	79175708	79175708	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251A>G	p.Tyr84Cys	p.Y84C	ENST00000554719	4/17	90	61	29	64	64	0	NRXN3,missense_variant,p.Tyr84Cys,ENST00000554719,;NRXN3,missense_variant,p.Tyr28Cys,ENST00000557081,;NRXN3,missense_variant,p.Tyr28Cys,ENST00000553631,;NRXN3,missense_variant,p.Tyr84Cys,ENST00000335750,;RP11-232C2.2,intron_variant,,ENST00000555680,;NRXN3,missense_variant,p.Tyr455Cys,ENST00000554738,;NRXN3,non_coding_transcript_exon_variant,,ENST00000556496,;	G	ENSG00000021645	ENST00000554719	Transcript	missense_variant	742	251	84	Y/C	tAc/tGc	COSM553850	.	.	1	NRXN3	HGNC	8010	protein_coding	YES	CCDS9870.1	ENSP00000451648	NRX3A_HUMAN	G3V4R9_HUMAN,G3V247_HUMAN	UPI0000167BBA	.	deleterious(0)	probably_damaging(0.996)	4/17	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF405,hmmpanther:PTHR10127,Gene3D:2.60.120.200,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTACATCA	.	5	BLCA
FOXN3	0	.	GRCh37	14	89656743	89656743	+	Missense_Mutation	SNP	C	C	T	rs749541932	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.796G>A	p.Glu266Lys	p.E266K	ENST00000345097	5/7	79	55	24	62	62	0	FOXN3,missense_variant,p.Glu116Lys,ENST00000553840,;FOXN3,missense_variant,p.Glu266Lys,ENST00000345097,;FOXN3,missense_variant,p.Glu117Lys,ENST00000553353,;FOXN3,missense_variant,p.Glu266Lys,ENST00000261302,;FOXN3,intron_variant,,ENST00000555353,;FOXN3,intron_variant,,ENST00000557258,;FOXN3,non_coding_transcript_exon_variant,,ENST00000555010,;FOXN3,upstream_gene_variant,,ENST00000556541,;FOXN3,intron_variant,,ENST00000557718,;	T	ENSG00000053254	ENST00000345097	Transcript	missense_variant	913	796	266	E/K	Gag/Aag	rs749541932	.	.	-1	FOXN3	HGNC	1928	protein_coding	YES	CCDS41977.1	ENSP00000343288	FOXN3_HUMAN	G3V5C7_HUMAN,G3V4N5_HUMAN,G3V3A7_HUMAN	UPI000003B451	.	tolerated(0.14)	benign(0.009)	5/7	.	hmmpanther:PTHR13962:SF12,hmmpanther:PTHR13962	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCAGGGG	.	5	BLCA
C14orf159	0	.	GRCh37	14	91655351	91655351	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1032C>T	p.%3D	p.F344F	ENST00000518868	12/17	84	47	36	45	45	0	C14orf159,synonymous_variant,p.%3D,ENST00000523816,;C14orf159,synonymous_variant,p.%3D,ENST00000428926,;C14orf159,synonymous_variant,p.%3D,ENST00000522322,;C14orf159,synonymous_variant,p.%3D,ENST00000523771,;C14orf159,synonymous_variant,p.%3D,ENST00000518868,;C14orf159,synonymous_variant,p.%3D,ENST00000517518,;C14orf159,synonymous_variant,p.%3D,ENST00000521077,;C14orf159,synonymous_variant,p.%3D,ENST00000520328,;C14orf159,synonymous_variant,p.%3D,ENST00000256324,;C14orf159,synonymous_variant,p.%3D,ENST00000525393,;C14orf159,synonymous_variant,p.%3D,ENST00000412671,;C14orf159,upstream_gene_variant,,ENST00000557303,;C14orf159,synonymous_variant,p.%3D,ENST00000523461,;C14orf159,synonymous_variant,p.%3D,ENST00000517306,;C14orf159,3_prime_UTR_variant,,ENST00000523837,;C14orf159,downstream_gene_variant,,ENST00000519994,;	T	ENSG00000133943	ENST00000518868	Transcript	synonymous_variant	1722	1032	344	F	ttC/ttT	.	.	.	1	C14orf159	HGNC	20498	protein_coding	YES	CCDS41979.1	ENSP00000428263	CN159_HUMAN	E5RK56_HUMAN,E5RK14_HUMAN,E5RJD1_HUMAN,E5RJ87_HUMAN,E5RJ62_HUMAN,E5RIU5_HUMAN,E5RIL4_HUMAN,E5RHG2_HUMAN,E5RGP9_HUMAN,E5RFT5_HUMAN	UPI000000CC60	.	.	.	12/17	.	PIRSF_domain:PIRSF037204,Pfam_domain:PF14336,hmmpanther:PTHR32022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCCCCAC	.	5	BLCA
TUBGCP5	0	.	GRCh37	15	22864359	22864359	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2317G>C	p.Asp773His	p.D773H	ENST00000283645	16/23	97	69	27	60	60	0	TUBGCP5,missense_variant,p.Asp773His,ENST00000283645,;TUBGCP5,missense_variant,p.Asp59His,ENST00000561214,;TUBGCP5,missense_variant,p.Asp773His,ENST00000453949,;TUBGCP5,downstream_gene_variant,,ENST00000559846,;TUBGCP5,non_coding_transcript_exon_variant,,ENST00000559534,;TUBGCP5,upstream_gene_variant,,ENST00000558915,;	C	ENSG00000153575	ENST00000283645	Transcript	missense_variant	2447	2317	773	D/H	Gat/Cat	.	.	.	1	TUBGCP5	HGNC	18600	protein_coding	YES	CCDS10008.1	ENSP00000283645	GCP5_HUMAN	.	UPI000012B2EE	.	tolerated(0.31)	benign(0.271)	16/23	.	hmmpanther:PTHR19302,hmmpanther:PTHR19302:SF33,Pfam_domain:PF04130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGATAGT	.	5	BLCA
OCA2	0	.	GRCh37	15	28171347	28171347	+	Missense_Mutation	SNP	C	C	T	rs756248244	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2005G>A	p.Asp669Asn	p.D669N	ENST00000354638	19/24	115	86	29	84	84	0	OCA2,missense_variant,p.Asp669Asn,ENST00000354638,;OCA2,missense_variant,p.Asp645Asn,ENST00000353809,;	T	ENSG00000104044	ENST00000354638	Transcript	missense_variant	2161	2005	669	D/N	Gat/Aat	rs756248244	.	.	-1	OCA2	HGNC	8101	protein_coding	YES	CCDS10020.1	ENSP00000346659	P_HUMAN	C9JDV3_HUMAN	UPI000013D158	.	deleterious(0.02)	probably_damaging(0.998)	19/24	.	hmmpanther:PTHR10283,hmmpanther:PTHR10283:SF67,Pfam_domain:PF03600	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCATGAA	.	5	BLCA
SLC12A6	0	.	GRCh37	15	34628825	34628825	+	Silent	SNP	C	C	T	rs779094623	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57G>A	p.%3D	p.P19P	ENST00000354181	2/26	156	125	31	65	65	0	SLC12A6,synonymous_variant,p.%3D,ENST00000560611,;SLC12A6,synonymous_variant,p.%3D,ENST00000561120,;SLC12A6,synonymous_variant,p.%3D,ENST00000558589,;SLC12A6,synonymous_variant,p.%3D,ENST00000397707,;SLC12A6,synonymous_variant,p.%3D,ENST00000559236,;SLC12A6,synonymous_variant,p.%3D,ENST00000558667,;SLC12A6,synonymous_variant,p.%3D,ENST00000354181,;SLC12A6,intron_variant,,ENST00000458406,;SLC12A6,intron_variant,,ENST00000397702,;SLC12A6,intron_variant,,ENST00000559484,;SLC12A6,synonymous_variant,p.%3D,ENST00000561080,;SLC12A6,synonymous_variant,p.%3D,ENST00000559664,;SLC12A6,intron_variant,,ENST00000559523,;	T	ENSG00000140199	ENST00000354181	Transcript	synonymous_variant	550	57	19	P	ccG/ccA	rs779094623	.	.	-1	SLC12A6	HGNC	10914	protein_coding	YES	CCDS58352.1	ENSP00000346112	S12A6_HUMAN	H0YNJ5_HUMAN,H0YKL8_HUMAN,H0YKJ2_HUMAN,H0YKE6_HUMAN	UPI0000135427	.	.	.	2/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTCGGTGT	byFrequency	5	BLCA
DISP2	0	.	GRCh37	15	40660725	40660725	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2412C>T	p.%3D	p.S804S	ENST00000267889	8/8	114	73	41	71	71	0	DISP2,synonymous_variant,p.%3D,ENST00000267889,;DISP2,upstream_gene_variant,,ENST00000558623,;LINC00594,upstream_gene_variant,,ENST00000561261,;RP11-64K12.4,downstream_gene_variant,,ENST00000558421,;DISP2,downstream_gene_variant,,ENST00000559721,;	T	ENSG00000140323	ENST00000267889	Transcript	synonymous_variant	2499	2412	804	S	agC/agT	.	.	.	1	DISP2	HGNC	19712	protein_coding	YES	CCDS10056.1	ENSP00000267889	DISP2_HUMAN	.	UPI0000160F9B	.	.	.	8/8	.	hmmpanther:PTHR10796:SF58,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAGCGGCCC	.	5	BLCA
DISP2	0	.	GRCh37	15	40660785	40660785	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2472C>G	p.Phe824Leu	p.F824L	ENST00000267889	8/8	57	40	17	43	43	0	DISP2,missense_variant,p.Phe824Leu,ENST00000267889,;DISP2,upstream_gene_variant,,ENST00000558623,;LINC00594,upstream_gene_variant,,ENST00000561261,;RP11-64K12.4,downstream_gene_variant,,ENST00000558421,;DISP2,downstream_gene_variant,,ENST00000559721,;	G	ENSG00000140323	ENST00000267889	Transcript	missense_variant	2559	2472	824	F/L	ttC/ttG	.	.	.	1	DISP2	HGNC	19712	protein_coding	YES	CCDS10056.1	ENSP00000267889	DISP2_HUMAN	.	UPI0000160F9B	.	deleterious(0)	probably_damaging(0.999)	8/8	.	hmmpanther:PTHR10796:SF58,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCTTCGA	.	5	BLCA
BAHD1	0	.	GRCh37	15	40756200	40756200	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1956C>G	p.%3D	p.L652L	ENST00000416165	4/7	64	33	30	40	40	0	BAHD1,synonymous_variant,p.%3D,ENST00000560846,;BAHD1,synonymous_variant,p.%3D,ENST00000416165,;BAHD1,synonymous_variant,p.%3D,ENST00000561234,;RP11-64K12.8,downstream_gene_variant,,ENST00000559730,;BAHD1,upstream_gene_variant,,ENST00000561464,;	G	ENSG00000140320	ENST00000416165	Transcript	synonymous_variant	2027	1956	652	L	ctC/ctG	.	.	.	1	BAHD1	HGNC	29153	protein_coding	YES	CCDS10058.1	ENSP00000396976	BAHD1_HUMAN	.	UPI000013D778	.	.	.	4/7	.	PROSITE_profiles:PS51038,hmmpanther:PTHR12505,Pfam_domain:PF01426,SMART_domains:SM00439	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.W653L|c.1958G>T|9	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCTGGGA	.	5	BLCA
RMDN3	0	.	GRCh37	15	41029865	41029865	+	Silent	SNP	G	G	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1185C>T	p.%3D	p.L395L	ENST00000260385	9/12	117	88	28	62	62	0	RMDN3,synonymous_variant,p.%3D,ENST00000338376,;RMDN3,synonymous_variant,p.%3D,ENST00000260385,;RMDN3,synonymous_variant,p.%3D,ENST00000558232,;RMDN3,downstream_gene_variant,,ENST00000560460,;RMDN3,downstream_gene_variant,,ENST00000558364,;RMDN3,downstream_gene_variant,,ENST00000558560,;RMDN3,3_prime_UTR_variant,,ENST00000558777,;RMDN3,non_coding_transcript_exon_variant,,ENST00000557831,;RMDN3,non_coding_transcript_exon_variant,,ENST00000560588,;RMDN3,non_coding_transcript_exon_variant,,ENST00000560779,;	A	ENSG00000137824	ENST00000260385	Transcript	synonymous_variant	2253	1185	395	L	ctC/ctT	COSM699917	.	.	-1	RMDN3	HGNC	25550	protein_coding	YES	CCDS10063.1	ENSP00000260385	RMD3_HUMAN	H0YLG5_HUMAN	UPI0000037778	.	.	.	9/12	.	hmmpanther:PTHR16056,hmmpanther:PTHR16056:SF11,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTGAGAGG	.	5	BLCA
PPP1R14D	0	.	GRCh37	15	41107939	41107939	+	Missense_Mutation	SNP	G	G	A	rs140774733	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.509C>T	p.Ser170Leu	p.S170L	ENST00000427255	5/5	43	24	19	32	32	0	PPP1R14D,missense_variant,p.Ser170Leu,ENST00000427255,;PPP1R14D,synonymous_variant,p.%3D,ENST00000299174,;ZFYVE19,downstream_gene_variant,,ENST00000561617,;ZFYVE19,downstream_gene_variant,,ENST00000570108,;ZFYVE19,downstream_gene_variant,,ENST00000566407,;ZFYVE19,downstream_gene_variant,,ENST00000564258,;ZFYVE19,downstream_gene_variant,,ENST00000355341,;ZFYVE19,downstream_gene_variant,,ENST00000336455,;ZFYVE19,downstream_gene_variant,,ENST00000299173,;ZFYVE19,downstream_gene_variant,,ENST00000570162,;ZFYVE19,downstream_gene_variant,,ENST00000563497,;ZFYVE19,downstream_gene_variant,,ENST00000560078,;ZFYVE19,downstream_gene_variant,,ENST00000569057,;ZFYVE19,downstream_gene_variant,,ENST00000561768,;	A	ENSG00000166143	ENST00000427255	Transcript	missense_variant	577	509	170	S/L	tCa/tTa	rs140774733	.	.	-1	PPP1R14D	HGNC	14953	protein_coding	YES	CCDS45230.1	ENSP00000398342	.	E9PAT1_HUMAN	UPI0000E59BD7	.	tolerated_low_confidence(0.35)	benign(0.307)	5/5	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGACTGAGCAG	byCluster	3	BLCA
TGM5	0	.	GRCh37	15	43548885	43548885	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.437-1G>C	.	p.X146_splice	ENST00000220420	.	180	137	43	93	93	0	TGM5,splice_acceptor_variant,,ENST00000220420,;TGM5,splice_acceptor_variant,,ENST00000349114,;	G	ENSG00000104055	ENST00000220420	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	TGM5	HGNC	11781	protein_coding	YES	CCDS32212.1	ENSP00000220420	TGM5_HUMAN	.	UPI0000136CCF	.	.	.	.	3/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCTAGGA	.	5	BLCA
FBN1	0	.	GRCh37	15	48729225	48729225	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6429C>T	p.%3D	p.I2143I	ENST00000316623	53/66	135	69	66	85	85	0	FBN1,synonymous_variant,p.%3D,ENST00000316623,;FBN1,synonymous_variant,p.%3D,ENST00000559133,;FBN1,3_prime_UTR_variant,,ENST00000537463,;FBN1,downstream_gene_variant,,ENST00000560820,;FBN1,upstream_gene_variant,,ENST00000560720,;	A	ENSG00000166147	ENST00000316623	Transcript	synonymous_variant	6885	6429	2143	I	atC/atT	.	.	.	-1	FBN1	HGNC	3603	protein_coding	YES	CCDS32232.1	ENSP00000325527	FBN1_HUMAN	Q75N89_HUMAN,Q75N88_HUMAN,H0YN80_HUMAN	UPI0000163B0B	.	.	.	53/66	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF22,PROSITE_patterns:PS00010,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,PIRSF_domain:PIRSF036312,SMART_domains:SM00181,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTGATGCA	.	5	BLCA
CGNL1	0	.	GRCh37	15	57744453	57744453	+	Missense_Mutation	SNP	G	G	A	rs777926702	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2020G>A	p.Glu674Lys	p.E674K	ENST00000281282	6/19	52	24	27	36	36	0	CGNL1,missense_variant,p.Glu674Lys,ENST00000281282,;	A	ENSG00000128849	ENST00000281282	Transcript	missense_variant	2098	2020	674	E/K	Gaa/Aaa	rs777926702	.	.	1	CGNL1	HGNC	25931	protein_coding	YES	CCDS10161.1	ENSP00000281282	CGNL1_HUMAN	.	UPI000019B4EF	.	tolerated(0.68)	benign(0.005)	6/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF357,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGAAAGT	.	5	BLCA
RNF111	0	.	GRCh37	15	59381927	59381927	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2639C>T	p.Ser880Leu	p.S880L	ENST00000559209	11/14	260	145	114	182	182	0	RNF111,missense_variant,p.Ser880Leu,ENST00000434298,;RNF111,missense_variant,p.Ser880Leu,ENST00000561186,;RNF111,missense_variant,p.Ser871Leu,ENST00000557998,;RNF111,missense_variant,p.Ser871Leu,ENST00000348370,;RNF111,missense_variant,p.Ser880Leu,ENST00000559209,;RNF111,upstream_gene_variant,,ENST00000560080,;RNF111,non_coding_transcript_exon_variant,,ENST00000560216,;RNF111,non_coding_transcript_exon_variant,,ENST00000560952,;RNF111,downstream_gene_variant,,ENST00000559077,;	T	ENSG00000157450	ENST00000559209	Transcript	missense_variant	2775	2639	880	S/L	tCa/tTa	.	.	.	1	RNF111	HGNC	17384	protein_coding	YES	CCDS58365.1	ENSP00000453872	RN111_HUMAN	H0YKS2_HUMAN	UPI0000EE4EBD	.	tolerated_low_confidence(0.12)	benign(0.258)	11/14	.	hmmpanther:PTHR13644,hmmpanther:PTHR13644:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCATTCA	.	5	BLCA
AC126323.1	0	.	GRCh37	15	62539297	62539297	+	5'Flank	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000408214	.	34	20	13	24	24	0	AC126323.1,upstream_gene_variant,,ENST00000408214,;hsa-mir-7162,non_coding_transcript_exon_variant,,ENST00000570077,;hsa-mir-7162,upstream_gene_variant,,ENST00000561706,;hsa-mir-7162,upstream_gene_variant,,ENST00000563606,;hsa-mir-7162,non_coding_transcript_exon_variant,,ENST00000429274,;hsa-mir-7162,non_coding_transcript_exon_variant,,ENST00000562306,;	T	ENSG00000221141	ENST00000408214	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	3650	-1	AC126323.1	Clone_based_ensembl_gene	.	miRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCCTCCCTCAA	.	4	BLCA
MAP2K5	0	.	GRCh37	15	67923241	67923241	+	Silent	SNP	G	G	A	rs746892344	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561G>A	p.%3D	p.P187P	ENST00000178640	9/22	68	46	21	44	44	0	MAP2K5,synonymous_variant,p.%3D,ENST00000395476,;MAP2K5,synonymous_variant,p.%3D,ENST00000178640,;MAP2K5,synonymous_variant,p.%3D,ENST00000439036,;MAP2K5,synonymous_variant,p.%3D,ENST00000354498,;MAP2K5,non_coding_transcript_exon_variant,,ENST00000559262,;MAP2K5,non_coding_transcript_exon_variant,,ENST00000560591,;MAP2K5,non_coding_transcript_exon_variant,,ENST00000558392,;HNRNPA1P5,downstream_gene_variant,,ENST00000558213,;	A	ENSG00000137764	ENST00000178640	Transcript	synonymous_variant	1188	561	187	P	ccG/ccA	rs746892344	.	.	1	MAP2K5	HGNC	6845	protein_coding	YES	CCDS10224.1	ENSP00000178640	MP2K5_HUMAN	H7BZL1_HUMAN	UPI0000072D4A	.	.	.	9/22	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24360:SF42,hmmpanther:PTHR24360,PROSITE_patterns:PS00107,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCCGAGTGG	.	5	BLCA
SKOR1	0	.	GRCh37	15	68126153	68126153	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2586C>G	p.Phe862Leu	p.F862L	ENST00000341418	15/15	97	70	26	82	82	0	SKOR1,missense_variant,p.Phe920Leu,ENST00000554240,;SKOR1,missense_variant,p.Phe931Leu,ENST00000554054,;SKOR1,missense_variant,p.Phe959Leu,ENST00000380035,;SKOR1,missense_variant,p.Phe862Leu,ENST00000341418,;SKOR1,missense_variant,p.Phe915Leu,ENST00000389002,;RP11-34F13.3,intron_variant,,ENST00000558889,;RP11-34F13.2,downstream_gene_variant,,ENST00000502156,;RP11-34F13.3,intron_variant,,ENST00000560577,;	G	ENSG00000188779	ENST00000341418	Transcript	missense_variant	2586	2586	862	F/L	ttC/ttG	.	.	.	1	SKOR1	HGNC	21326	protein_coding	YES	CCDS58374.1	ENSP00000343200	SKOR1_HUMAN	.	UPI00001987EE	.	deleterious_low_confidence(0)	benign(0.294)	15/15	.	hmmpanther:PTHR10005,hmmpanther:PTHR10005:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCAAGCC	.	5	BLCA
ITGA11	0	.	GRCh37	15	68649536	68649536	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.702G>A	p.%3D	p.Q234Q	ENST00000315757	7/30	66	43	22	30	30	0	ITGA11,synonymous_variant,p.%3D,ENST00000315757,;ITGA11,synonymous_variant,p.%3D,ENST00000423218,;ITGA11,non_coding_transcript_exon_variant,,ENST00000562826,;ITGA11,non_coding_transcript_exon_variant,,ENST00000568677,;ITGA11,non_coding_transcript_exon_variant,,ENST00000565868,;	T	ENSG00000137809	ENST00000315757	Transcript	synonymous_variant	789	702	234	Q	caG/caA	.	.	.	-1	ITGA11	HGNC	6136	protein_coding	YES	CCDS45291.1	ENSP00000327290	ITA11_HUMAN	.	UPI00001FE74D	.	.	.	7/30	.	PROSITE_profiles:PS50234,hmmpanther:PTHR23220:SF21,hmmpanther:PTHR23220,Pfam_domain:PF00092,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTGCTC	.	5	BLCA
GOLGA6B	0	.	GRCh37	15	72954863	72954863	+	Missense_Mutation	SNP	C	C	T	rs746249202	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1118C>T	p.Thr373Met	p.T373M	ENST00000421285	11/18	140	110	30	77	77	0	GOLGA6B,missense_variant,p.Thr373Met,ENST00000421285,;RN7SL853P,upstream_gene_variant,,ENST00000477951,;GOLGA6B,downstream_gene_variant,,ENST00000568532,;	T	ENSG00000215186	ENST00000421285	Transcript	missense_variant	1118	1118	373	T/M	aCg/aTg	rs746249202	.	.	1	GOLGA6B	HGNC	32205	protein_coding	YES	CCDS10245.2	ENSP00000408132	GOG6B_HUMAN	.	UPI0000D74C4D	.	tolerated(0.15)	benign(0.01)	11/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10881	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GAAGACGCTAC	byFrequency	2	BLCA
ABHD17C	0	.	GRCh37	15	81046550	81046550	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.829G>A	p.Glu277Lys	p.E277K	ENST00000258884	3/3	57	32	24	47	47	0	ABHD17C,missense_variant,p.Glu243Lys,ENST00000558464,;ABHD17C,missense_variant,p.Glu42Lys,ENST00000560609,;ABHD17C,missense_variant,p.Glu277Lys,ENST00000258884,;ABHD17C,non_coding_transcript_exon_variant,,ENST00000559506,;ABHD17C,downstream_gene_variant,,ENST00000560126,;	A	ENSG00000136379	ENST00000258884	Transcript	missense_variant	956	829	277	E/K	Gag/Aag	.	.	.	1	ABHD17C	HGNC	26925	protein_coding	YES	CCDS45323.1	ENSP00000258884	AB17C_HUMAN	H0YN98_HUMAN	UPI00001612A6	.	deleterious(0.01)	possibly_damaging(0.89)	3/3	.	hmmpanther:PTHR12277:SF55,hmmpanther:PTHR12277,Pfam_domain:PF12695,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATGAGGTC	.	5	BLCA
FSD2	0	.	GRCh37	15	83438620	83438620	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1284C>G	p.%3D	p.V428V	ENST00000334574	8/13	83	56	26	56	56	0	FSD2,synonymous_variant,p.%3D,ENST00000334574,;FSD2,intron_variant,,ENST00000541889,;	C	ENSG00000186628	ENST00000334574	Transcript	synonymous_variant	1466	1284	428	V	gtC/gtG	.	.	.	-1	FSD2	HGNC	18024	protein_coding	YES	CCDS45332.1	ENSP00000335651	FSD2_HUMAN	H0YLA8_HUMAN	UPI0000161097	.	.	.	8/13	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24099:SF6,hmmpanther:PTHR24099,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGACAGT	.	5	BLCA
FES	0	.	GRCh37	15	91436897	91436897	+	Missense_Mutation	SNP	C	C	T	rs777821171	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2059C>T	p.Arg687Trp	p.R687W	ENST00000328850	17/19	64	46	17	58	58	0	FES,missense_variant,p.Arg546Trp,ENST00000394302,;FES,missense_variant,p.Arg559Trp,ENST00000450438,;FES,missense_variant,p.Arg687Trp,ENST00000328850,;FES,missense_variant,p.Arg617Trp,ENST00000444422,;FES,missense_variant,p.Arg559Trp,ENST00000414248,;FES,missense_variant,p.Arg629Trp,ENST00000394300,;FES,downstream_gene_variant,,ENST00000448367,;FES,3_prime_UTR_variant,,ENST00000464684,;FES,downstream_gene_variant,,ENST00000462476,;FES,downstream_gene_variant,,ENST00000494259,;FES,downstream_gene_variant,,ENST00000497945,;FES,downstream_gene_variant,,ENST00000470152,;FES,downstream_gene_variant,,ENST00000496379,;	T	ENSG00000182511	ENST00000328850	Transcript	missense_variant	2201	2059	687	R/W	Cgg/Tgg	rs777821171	.	.	1	FES	HGNC	3657	protein_coding	YES	CCDS10365.1	ENSP00000331504	FES_HUMAN	Q4JFK7_HUMAN,H0YNN8_HUMAN,E9PGC7_HUMAN,E7EMJ7_HUMAN,C9J3W6_HUMAN	UPI0000001C30	.	deleterious(0)	probably_damaging(1)	17/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF197,PROSITE_patterns:PS00109,Pfam_domain:PF07714,Gene3D:1.10.510.10,SMART_domains:SM00219,PIRSF_domain:PIRSF000632,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCGGAAC	byFrequency	5	BLCA
SNX29	0	.	GRCh37	16	12172749	12172749	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1379C>T	p.Ser460Leu	p.S460L	ENST00000566228	11/21	17	5	12	14	14	0	SNX29,missense_variant,p.Ser460Leu,ENST00000566228,;SNX29,missense_variant,p.Ser75Leu,ENST00000323433,;SNX29,missense_variant,p.Ser94Leu,ENST00000563308,;SNX29,missense_variant,p.Ser75Leu,ENST00000306030,;RPS23P6,upstream_gene_variant,,ENST00000466136,;	T	ENSG00000048471	ENST00000566228	Transcript	missense_variant	1448	1379	460	S/L	tCa/tTa	.	.	.	1	SNX29	HGNC	30542	protein_coding	YES	CCDS10553.2	ENSP00000456480	SNX29_HUMAN	J3KNF2_HUMAN	UPI00000382F9	.	tolerated(0.06)	benign(0.05)	11/21	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCAGTGC	.	5	BLCA
TPSAB1	0	.	GRCh37	16	1291638	1291638	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.437C>G	p.Ser146Ter	p.S146*	ENST00000338844	4/6	32	19	12	23	23	0	TPSAB1,stop_gained,p.Ser146Ter,ENST00000338844,;TPSAB1,stop_gained,p.Ser153Ter,ENST00000461509,;TPSAB1,stop_gained,p.Ser84Ter,ENST00000561736,;TPSAB1,non_coding_transcript_exon_variant,,ENST00000562432,;	G	ENSG00000172236	ENST00000338844	Transcript	stop_gained	470	437	146	S/*	tCa/tGa	.	.	.	1	TPSAB1	HGNC	12019	protein_coding	YES	CCDS10431.1	ENSP00000343577	TRYB2_HUMAN,TRYB1_HUMAN	.	UPI0000137302	.	.	.	4/6	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24268,hmmpanther:PTHR24268:SF98,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S146S|c.438A>G|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCAGAGA	.	5	BLCA
RBBP6	0	.	GRCh37	16	24582458	24582458	+	Silent	SNP	A	A	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4071A>C	p.%3D	p.S1357S	ENST00000319715	18/18	43	25	18	43	43	0	RBBP6,synonymous_variant,p.%3D,ENST00000381039,;RBBP6,synonymous_variant,p.%3D,ENST00000319715,;RBBP6,synonymous_variant,p.%3D,ENST00000348022,;RBBP6,downstream_gene_variant,,ENST00000564314,;RBBP6,non_coding_transcript_exon_variant,,ENST00000562430,;RBBP6,downstream_gene_variant,,ENST00000570185,;	C	ENSG00000122257	ENST00000319715	Transcript	synonymous_variant	4503	4071	1357	S	tcA/tcC	.	.	.	1	RBBP6	HGNC	9889	protein_coding	YES	CCDS10621.1	ENSP00000317872	RBBP6_HUMAN	I3L3Y2_HUMAN,H3BUN0_HUMAN,H3BSK8_HUMAN	UPI00001A96B8	.	.	.	18/18	.	hmmpanther:PTHR15439:SF1,hmmpanther:PTHR15439	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATCAAATAT	.	5	BLCA
KDM8	0	.	GRCh37	16	27224909	27224909	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616G>A	p.Ala206Thr	p.A206T	ENST00000441782	3/8	119	49	69	134	134	0	KDM8,missense_variant,p.Ala206Thr,ENST00000441782,;KDM8,missense_variant,p.Ala168Thr,ENST00000286096,;KDM8,intron_variant,,ENST00000380948,;KDM8,intron_variant,,ENST00000568965,;KDM8,downstream_gene_variant,,ENST00000562733,;KDM8,downstream_gene_variant,,ENST00000569329,;KDM8,upstream_gene_variant,,ENST00000567735,;CTD-3203P2.1,non_coding_transcript_exon_variant,,ENST00000567108,;KDM8,non_coding_transcript_exon_variant,,ENST00000562269,;KDM8,upstream_gene_variant,,ENST00000567785,;KDM8,upstream_gene_variant,,ENST00000567366,;KDM8,upstream_gene_variant,,ENST00000568792,;KDM8,upstream_gene_variant,,ENST00000563571,;KDM8,downstream_gene_variant,,ENST00000564961,;	A	ENSG00000155666	ENST00000441782	Transcript	missense_variant	734	616	206	A/T	Gca/Aca	.	.	.	1	KDM8	HGNC	25840	protein_coding	YES	CCDS45448.1	ENSP00000398410	KDM8_HUMAN	H3BR76_HUMAN,H3BM39_HUMAN,B4DPM6_HUMAN	UPI00017A73AE	.	tolerated(0.28)	benign(0.012)	3/8	.	hmmpanther:PTHR12461:SF11,hmmpanther:PTHR12461	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAGCAAGG	.	5	BLCA
SETD1A	0	.	GRCh37	16	30977380	30977380	+	Silent	SNP	C	C	T	rs750394524	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2178C>T	p.%3D	p.Y726Y	ENST00000262519	8/19	86	39	47	75	75	0	SETD1A,synonymous_variant,p.%3D,ENST00000262519,;SETD1A,downstream_gene_variant,,ENST00000452917,;	T	ENSG00000099381	ENST00000262519	Transcript	synonymous_variant	2864	2178	726	Y	taC/taT	rs750394524	.	.	1	SETD1A	HGNC	29010	protein_coding	YES	CCDS32435.1	ENSP00000262519	SET1A_HUMAN	C9J2Z9_HUMAN	UPI00001C1FA9	.	.	.	8/19	.	hmmpanther:PTHR22884:SF295,hmmpanther:PTHR22884	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTACGGCTT	byFrequency	5	BLCA
MYLK3	0	.	GRCh37	16	46746605	46746605	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2069C>T	p.Ser690Leu	p.S690L	ENST00000394809	10/13	110	84	25	64	64	0	MYLK3,missense_variant,p.Ser349Leu,ENST00000536476,;MYLK3,missense_variant,p.Ser690Leu,ENST00000394809,;MYLK3,upstream_gene_variant,,ENST00000562104,;MYLK3,upstream_gene_variant,,ENST00000565182,;	A	ENSG00000140795	ENST00000394809	Transcript	missense_variant	2185	2069	690	S/L	tCa/tTa	.	.	.	-1	MYLK3	HGNC	29826	protein_coding	YES	CCDS10723.2	ENSP00000378288	MYLK3_HUMAN	.	UPI000059D380	.	deleterious(0)	probably_damaging(1)	10/13	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24347:SF45,hmmpanther:PTHR24347,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATGAGACA	.	5	BLCA
ZNF423	0	.	GRCh37	16	49669905	49669905	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3158C>G	p.Ser1053Cys	p.S1053C	ENST00000561648	4/8	50	43	6	16	16	0	ZNF423,missense_variant,p.Ser1053Cys,ENST00000262383,;ZNF423,missense_variant,p.Ser993Cys,ENST00000563137,;ZNF423,missense_variant,p.Ser993Cys,ENST00000562520,;ZNF423,missense_variant,p.Ser1053Cys,ENST00000561648,;ZNF423,missense_variant,p.Ser936Cys,ENST00000567169,;ZNF423,missense_variant,p.Ser936Cys,ENST00000535559,;ZNF423,missense_variant,p.Ser993Cys,ENST00000562871,;	C	ENSG00000102935	ENST00000561648	Transcript	missense_variant	3212	3158	1053	S/C	tCc/tGc	.	.	.	-1	ZNF423	HGNC	16762	protein_coding	YES	CCDS32445.1	ENSP00000455426	ZN423_HUMAN	F5H7S1_HUMAN,B3KNG7_HUMAN	UPI0000353ABC	.	deleterious_low_confidence(0.01)	possibly_damaging(0.864)	4/8	.	hmmpanther:PTHR24385:SF49,hmmpanther:PTHR24385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGAGGACGCC	.	4	BLCA
ZNF423	0	.	GRCh37	16	49670625	49670625	+	Missense_Mutation	SNP	C	C	T	rs748113449	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2438G>A	p.Ser813Asn	p.S813N	ENST00000561648	4/8	97	38	59	32	32	0	ZNF423,missense_variant,p.Ser813Asn,ENST00000262383,;ZNF423,missense_variant,p.Ser753Asn,ENST00000563137,;ZNF423,missense_variant,p.Ser753Asn,ENST00000562520,;ZNF423,missense_variant,p.Ser813Asn,ENST00000561648,;ZNF423,missense_variant,p.Ser696Asn,ENST00000567169,;ZNF423,missense_variant,p.Ser696Asn,ENST00000535559,;ZNF423,missense_variant,p.Ser753Asn,ENST00000562871,;	T	ENSG00000102935	ENST00000561648	Transcript	missense_variant	2492	2438	813	S/N	aGc/aAc	rs748113449	.	.	-1	ZNF423	HGNC	16762	protein_coding	YES	CCDS32445.1	ENSP00000455426	ZN423_HUMAN	F5H7S1_HUMAN,B3KNG7_HUMAN	UPI0000353ABC	.	tolerated(0.41)	benign(0.1)	4/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24385:SF49,hmmpanther:PTHR24385,PROSITE_patterns:PS00028,Pfam_domain:PF13912,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTGCTGCAG	byFrequency	5	BLCA
RBL2	0	.	GRCh37	16	53495763	53495763	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1456+1G>A	.	p.X486_splice	ENST00000262133	.	40	13	27	30	30	0	RBL2,splice_donor_variant,,ENST00000544545,;RBL2,splice_donor_variant,,ENST00000262133,;RBL2,splice_donor_variant,,ENST00000544405,;RBL2,splice_donor_variant,,ENST00000379935,;RBL2,splice_donor_variant,,ENST00000561512,;RBL2,upstream_gene_variant,,ENST00000562837,;RBL2,upstream_gene_variant,,ENST00000562850,;	A	ENSG00000103479	ENST00000262133	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	RBL2	HGNC	9894	protein_coding	YES	CCDS10748.1	ENSP00000262133	RBL2_HUMAN	J3KSF7_HUMAN	UPI000013D264	.	.	.	.	10/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAAGGTAAGG	.	5	BLCA
RBL2	0	.	GRCh37	16	53496559	53496559	+	Missense_Mutation	SNP	G	G	C	rs751815905	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1552G>C	p.Asp518His	p.D518H	ENST00000262133	11/22	54	15	39	39	39	0	RBL2,missense_variant,p.Asp302His,ENST00000544545,;RBL2,missense_variant,p.Asp518His,ENST00000262133,;RBL2,missense_variant,p.Asp444His,ENST00000544405,;RBL2,non_coding_transcript_exon_variant,,ENST00000379935,;RBL2,non_coding_transcript_exon_variant,,ENST00000561512,;RBL2,upstream_gene_variant,,ENST00000562837,;RBL2,upstream_gene_variant,,ENST00000562850,;	C	ENSG00000103479	ENST00000262133	Transcript	missense_variant	1689	1552	518	D/H	Gat/Cat	rs751815905	.	.	1	RBL2	HGNC	9894	protein_coding	YES	CCDS10748.1	ENSP00000262133	RBL2_HUMAN	J3KSF7_HUMAN	UPI000013D264	.	deleterious(0)	probably_damaging(0.999)	11/22	.	hmmpanther:PTHR13742,hmmpanther:PTHR13742:SF8,Gene3D:1.10.472.10,Pfam_domain:PF01858,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATGGATTTA	.	5	BLCA
OGFOD1	0	.	GRCh37	16	56485522	56485522	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3G>C	.	.	ENST00000566157	1/13	139	60	78	121	121	0	OGFOD1,5_prime_UTR_variant,,ENST00000566157,;OGFOD1,5_prime_UTR_variant,,ENST00000568397,;OGFOD1,5_prime_UTR_variant,,ENST00000562150,;OGFOD1,intron_variant,,ENST00000561646,;NUDT21,intron_variant,,ENST00000566340,;NUDT21,upstream_gene_variant,,ENST00000568822,;NUDT21,upstream_gene_variant,,ENST00000300291,;OGFOD1,non_coding_transcript_exon_variant,,ENST00000568172,;OGFOD1,5_prime_UTR_variant,,ENST00000565682,;OGFOD1,non_coding_transcript_exon_variant,,ENST00000569645,;OGFOD1,non_coding_transcript_exon_variant,,ENST00000563733,;OGFOD1,intron_variant,,ENST00000569802,;OGFOD1,intron_variant,,ENST00000336111,;NUDT21,upstream_gene_variant,,ENST00000567110,;	C	ENSG00000087263	ENST00000566157	Transcript	5_prime_UTR_variant	121	.	.	.	.	.	.	.	1	OGFOD1	HGNC	25585	protein_coding	YES	CCDS10761.2	ENSP00000457258	OGFD1_HUMAN	H3BUA6_HUMAN,H3BP48_HUMAN	UPI0000049DA2	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGAAGAGATG	.	5	BLCA
C16orf70	0	.	GRCh37	16	67159865	67159865	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151C>A	p.Pro51Thr	p.P51T	ENST00000219139	3/16	169	76	93	146	146	0	C16orf70,missense_variant,p.Pro51Thr,ENST00000563853,;C16orf70,missense_variant,p.Pro51Thr,ENST00000219139,;C16orf70,missense_variant,p.Pro51Thr,ENST00000569600,;C16orf70,intron_variant,,ENST00000566026,;C16orf70,intron_variant,,ENST00000569914,;C16orf70,non_coding_transcript_exon_variant,,ENST00000569683,;C16orf70,non_coding_transcript_exon_variant,,ENST00000569626,;	A	ENSG00000125149	ENST00000219139	Transcript	missense_variant	339	151	51	P/T	Cct/Act	.	.	.	1	C16orf70	HGNC	29564	protein_coding	YES	CCDS10828.1	ENSP00000219139	CP070_HUMAN	H3BSG0_HUMAN	UPI0000137911	.	deleterious(0)	probably_damaging(0.996)	3/16	.	hmmpanther:PTHR13465,Pfam_domain:PF03676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCCTCTA	.	5	BLCA
MTSS1L	0	.	GRCh37	16	70698045	70698045	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1779G>A	p.%3D	p.V593V	ENST00000338779	15/15	25	7	18	24	24	0	MTSS1L,synonymous_variant,p.%3D,ENST00000338779,;FLJ00418,5_prime_UTR_variant,,ENST00000597002,;IL34,downstream_gene_variant,,ENST00000288098,;IL34,downstream_gene_variant,,ENST00000429149,;IL34,downstream_gene_variant,,ENST00000566361,;	T	ENSG00000132613	ENST00000338779	Transcript	synonymous_variant	2054	1779	593	V	gtG/gtA	.	.	.	-1	MTSS1L	HGNC	25094	protein_coding	YES	CCDS32476.1	ENSP00000341171	MTSSL_HUMAN	.	UPI00001D627C	.	.	.	15/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15708:SF8,hmmpanther:PTHR15708	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCACAGG	.	5	BLCA
DNAH9	0	.	GRCh37	17	11607639	11607639	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5271C>G	p.%3D	p.L1757L	ENST00000262442	25/69	142	103	39	85	85	0	DNAH9,synonymous_variant,p.%3D,ENST00000454412,;DNAH9,synonymous_variant,p.%3D,ENST00000262442,;DNAH9,non_coding_transcript_exon_variant,,ENST00000583192,;	G	ENSG00000007174	ENST00000262442	Transcript	synonymous_variant	5339	5271	1757	L	ctC/ctG	.	.	.	1	DNAH9	HGNC	2953	protein_coding	YES	CCDS11160.1	ENSP00000262442	DYH9_HUMAN	Q92865_HUMAN	UPI0000141BA2	.	.	.	25/69	.	hmmpanther:PTHR10676:SF36,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCAAAAC	.	5	BLCA
MYO1C	0	.	GRCh37	17	1381931	1381931	+	Silent	SNP	G	G	A	rs753471375	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1191C>T	p.%3D	p.I397I	ENST00000359786	10/32	95	64	31	61	61	0	MYO1C,synonymous_variant,p.%3D,ENST00000438665,;MYO1C,synonymous_variant,p.%3D,ENST00000361007,;MYO1C,synonymous_variant,p.%3D,ENST00000575158,;MYO1C,synonymous_variant,p.%3D,ENST00000359786,;MYO1C,synonymous_variant,p.%3D,ENST00000545534,;MYO1C,downstream_gene_variant,,ENST00000575335,;MYO1C,downstream_gene_variant,,ENST00000570490,;MYO1C,downstream_gene_variant,,ENST00000570984,;MYO1C,downstream_gene_variant,,ENST00000573853,;MYO1C,downstream_gene_variant,,ENST00000574790,;MYO1C,downstream_gene_variant,,ENST00000571715,;MYO1C,downstream_gene_variant,,ENST00000573198,;MYO1C,downstream_gene_variant,,ENST00000571851,;MYO1C,downstream_gene_variant,,ENST00000576822,;MYO1C,upstream_gene_variant,,ENST00000571615,;MYO1C,upstream_gene_variant,,ENST00000573961,;	A	ENSG00000197879	ENST00000359786	Transcript	synonymous_variant	1516	1191	397	I	atC/atT	rs753471375	.	.	-1	MYO1C	HGNC	7597	protein_coding	YES	CCDS42226.1	ENSP00000352834	MYO1C_HUMAN	I3L4D4_HUMAN,I3L3Y6_HUMAN,I3L3F5_HUMAN,I3L204_HUMAN,I3L168_HUMAN	UPI0000200579	.	.	.	10/32	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF255,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTGATCTT	.	5	BLCA
WDR81	0	.	GRCh37	17	1631404	1631404	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3151C>G	p.Pro1051Ala	p.P1051A	ENST00000409644	1/10	21	15	5	9	9	0	WDR81,missense_variant,p.Pro1051Ala,ENST00000409644,;WDR81,5_prime_UTR_variant,,ENST00000309182,;WDR81,intron_variant,,ENST00000468539,;WDR81,intron_variant,,ENST00000419248,;WDR81,intron_variant,,ENST00000446363,;WDR81,intron_variant,,ENST00000455636,;WDR81,intron_variant,,ENST00000437219,;WDR81,intron_variant,,ENST00000418841,;WDR81,upstream_gene_variant,,ENST00000575206,;WDR81,upstream_gene_variant,,ENST00000545662,;RP11-961A15.1,intron_variant,,ENST00000576540,;WDR81,non_coding_transcript_exon_variant,,ENST00000464528,;WDR81,intron_variant,,ENST00000492901,;WDR81,upstream_gene_variant,,ENST00000495411,;WDR81,upstream_gene_variant,,ENST00000479966,;WDR81,upstream_gene_variant,,ENST00000474958,;	G	ENSG00000167716	ENST00000409644	Transcript	missense_variant	3151	3151	1051	P/A	Ccc/Gcc	.	.	.	1	WDR81	HGNC	26600	protein_coding	YES	CCDS54062.1	ENSP00000386609	WDR81_HUMAN	E9PDG3_HUMAN,C9JD20_HUMAN	UPI0001881A85	.	tolerated(0.57)	benign(0.029)	1/10	.	hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGATTCCCATG	.	3	BLCA
ATPAF2	0	.	GRCh37	17	17921749	17921749	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*114C>G	.	.	ENST00000474627	8/8	33	21	12	19	19	0	ATPAF2,3_prime_UTR_variant,,ENST00000581698,;ATPAF2,3_prime_UTR_variant,,ENST00000474627,;ATPAF2,intron_variant,,ENST00000585101,;LRRC48,downstream_gene_variant,,ENST00000313838,;ATPAF2,downstream_gene_variant,,ENST00000444058,;LRRC48,downstream_gene_variant,,ENST00000399187,;ATPAF2,downstream_gene_variant,,ENST00000469327,;LRRC48,downstream_gene_variant,,ENST00000583995,;ATPAF2,non_coding_transcript_exon_variant,,ENST00000496852,;ATPAF2,non_coding_transcript_exon_variant,,ENST00000467560,;ATPAF2,intron_variant,,ENST00000584205,;ATPAF2,intron_variant,,ENST00000462733,;ATPAF2,downstream_gene_variant,,ENST00000465337,;LRRC48,downstream_gene_variant,,ENST00000577477,;ATPAF2,downstream_gene_variant,,ENST00000488753,;LRRC48,downstream_gene_variant,,ENST00000490517,;LRRC48,downstream_gene_variant,,ENST00000583171,;	C	ENSG00000171953	ENST00000474627	Transcript	3_prime_UTR_variant	1139	.	.	.	.	.	.	.	-1	ATPAF2	HGNC	18802	protein_coding	YES	CCDS32585.1	ENSP00000417190	ATPF2_HUMAN	C9J2Q2_HUMAN	UPI00000720DC	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCTGAGGCC	.	5	BLCA
TOP3A	0	.	GRCh37	17	18194165	18194165	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458G>C	p.Trp486Cys	p.W486C	ENST00000321105	12/19	107	60	46	56	56	0	TOP3A,missense_variant,p.Trp461Cys,ENST00000580095,;TOP3A,missense_variant,p.Trp16Cys,ENST00000540524,;TOP3A,missense_variant,p.Trp486Cys,ENST00000321105,;TOP3A,missense_variant,p.Trp391Cys,ENST00000542570,;TOP3A,missense_variant,p.Trp22Cys,ENST00000582122,;TOP3A,3_prime_UTR_variant,,ENST00000581536,;TOP3A,3_prime_UTR_variant,,ENST00000582981,;TOP3A,3_prime_UTR_variant,,ENST00000584582,;TOP3A,non_coding_transcript_exon_variant,,ENST00000583804,;TOP3A,intron_variant,,ENST00000469739,;	G	ENSG00000177302	ENST00000321105	Transcript	missense_variant	1673	1458	486	W/C	tgG/tgC	.	.	.	-1	TOP3A	HGNC	11992	protein_coding	YES	CCDS11194.1	ENSP00000321636	TOP3A_HUMAN	B4DSJ0_HUMAN,A8K398_HUMAN	UPI00001371A0	.	deleterious(0)	probably_damaging(1)	12/19	.	hmmpanther:PTHR11390,hmmpanther:PTHR11390:SF23,Gene3D:2.70.20.10,Pfam_domain:PF01131,SMART_domains:SM00437,Superfamily_domains:SSF56712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCCAGTG	.	5	BLCA
SMCR8	0	.	GRCh37	17	18220896	18220896	+	Missense_Mutation	SNP	C	C	T	rs780272538	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1793C>T	p.Pro598Leu	p.P598L	ENST00000406438	1/2	76	49	27	49	49	0	SMCR8,missense_variant,p.Pro598Leu,ENST00000406438,;TOP3A,upstream_gene_variant,,ENST00000580095,;TOP3A,upstream_gene_variant,,ENST00000321105,;TOP3A,upstream_gene_variant,,ENST00000542570,;TOP3A,upstream_gene_variant,,ENST00000584887,;TOP3A,upstream_gene_variant,,ENST00000582230,;TOP3A,upstream_gene_variant,,ENST00000584669,;TOP3A,upstream_gene_variant,,ENST00000580713,;TOP3A,upstream_gene_variant,,ENST00000461127,;TOP3A,upstream_gene_variant,,ENST00000583328,;TOP3A,upstream_gene_variant,,ENST00000582981,;TOP3A,upstream_gene_variant,,ENST00000584582,;TOP3A,upstream_gene_variant,,ENST00000585031,;TOP3A,upstream_gene_variant,,ENST00000472959,;RPL21P121,downstream_gene_variant,,ENST00000439258,;RPL7AP65,downstream_gene_variant,,ENST00000418183,;	T	ENSG00000176994	ENST00000406438	Transcript	missense_variant	2273	1793	598	P/L	cCc/cTc	rs780272538	.	.	1	SMCR8	HGNC	17921	protein_coding	YES	CCDS11195.2	ENSP00000385025	SMCR8_HUMAN	.	UPI0000E0322D	.	tolerated(0.56)	benign(0)	1/2	.	hmmpanther:PTHR31334:SF1,hmmpanther:PTHR31334	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCCCTCCA	.	5	BLCA
SNORD3A	0	.	GRCh37	17	19091383	19091383	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.55G>A	.	.	ENST00000584923	1/1	454	402	52	267	267	0	SNORD3A,non_coding_transcript_exon_variant,,ENST00000365494,;SNORD3A,non_coding_transcript_exon_variant,,ENST00000584923,;SNORD3C,downstream_gene_variant,,ENST00000580533,;SNORD3C,downstream_gene_variant,,ENST00000362428,;	A	ENSG00000263934	ENST00000584923	Transcript	non_coding_transcript_exon_variant	55	.	.	.	.	.	.	.	1	SNORD3A	HGNC	33189	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTGAACGT	.	4	BLCA
AC006435.1	0	.	GRCh37	17	2310511	2310511	+	Silent	SNP	G	G	A	rs368828666	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261C>T	p.%3D	p.I87I	ENST00000609667	3/3	41	23	18	22	22	0	AC006435.1,synonymous_variant,p.%3D,ENST00000609667,;METTL16,non_coding_transcript_exon_variant,,ENST00000381977,;METTL16,non_coding_transcript_exon_variant,,ENST00000571332,;	A	ENSG00000205821	ENST00000609667	Transcript	synonymous_variant	341	261	87	I	atC/atT	rs368828666	.	.	-1	AC006435.1	Clone_based_ensembl_gene	.	protein_coding	YES	.	ENSP00000476359	.	Q4G0H6_HUMAN	UPI0000160EE0	.	.	.	3/3	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACGATGTC	byFrequency|byCluster	5	BLCA
KSR1	0	.	GRCh37	17	25950446	25950446	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1485C>G	.	.	ENST00000398988	22/22	40	22	17	25	25	0	KSR1,missense_variant,p.Ile56Met,ENST00000578981,;KSR1,3_prime_UTR_variant,,ENST00000580430,;KSR1,3_prime_UTR_variant,,ENST00000398988,;KSR1,3_prime_UTR_variant,,ENST00000582410,;KSR1,3_prime_UTR_variant,,ENST00000319524,;KSR1,downstream_gene_variant,,ENST00000268763,;KSR1,downstream_gene_variant,,ENST00000398982,;RP11-19P22.8,downstream_gene_variant,,ENST00000577746,;AC015688.3,missense_variant,p.Ile19Met,ENST00000584605,;AC015688.3,upstream_gene_variant,,ENST00000579290,;	G	ENSG00000141068	ENST00000398988	Transcript	3_prime_UTR_variant	4219	.	.	.	.	.	.	.	1	KSR1	HGNC	6465	protein_coding	YES	CCDS58532.1	ENSP00000381958	.	J3QSG8_HUMAN,J3QR75_HUMAN,J3QKR8_HUMAN,H7BYU0_HUMAN	UPI00005B2F0C	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCTCTTT	.	5	BLCA
SUPT6H	0	.	GRCh37	17	27014225	27014225	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2820C>G	p.%3D	p.L940L	ENST00000314616	22/37	180	112	68	101	101	0	SUPT6H,synonymous_variant,p.%3D,ENST00000314616,;SUPT6H,synonymous_variant,p.%3D,ENST00000347486,;SUPT6H,non_coding_transcript_exon_variant,,ENST00000581908,;SUPT6H,upstream_gene_variant,,ENST00000585230,;SUPT6H,upstream_gene_variant,,ENST00000583972,;	G	ENSG00000109111	ENST00000314616	Transcript	synonymous_variant	3103	2820	940	L	ctC/ctG	.	.	.	1	SUPT6H	HGNC	11470	protein_coding	YES	CCDS32596.1	ENSP00000319104	SPT6H_HUMAN	J3QS64_HUMAN	UPI000015FFA7	.	.	.	22/37	.	PIRSF_domain:PIRSF036947,Gene3D:3bzcA02,Pfam_domain:PF14635,hmmpanther:PTHR10145:SF6,hmmpanther:PTHR10145	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCAAGTT	.	5	BLCA
GPR179	0	.	GRCh37	17	36499513	36499513	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.160G>A	p.Glu54Lys	p.E54K	ENST00000342292	1/11	84	57	27	41	41	0	GPR179,missense_variant,p.Glu54Lys,ENST00000342292,;GPR179,non_coding_transcript_exon_variant,,ENST00000494542,;	T	ENSG00000188888	ENST00000342292	Transcript	missense_variant	181	160	54	E/K	Gag/Aag	.	.	.	-1	GPR179	HGNC	31371	protein_coding	YES	CCDS42308.1	ENSP00000345060	GP179_HUMAN	.	UPI000041A9C2	.	deleterious(0.05)	benign(0.091)	1/11	.	hmmpanther:PTHR32546:SF7,hmmpanther:PTHR32546,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCTAGGG	.	5	BLCA
ERBB2	0	.	GRCh37	17	37868208	37868208	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929C>T	p.Ser310Phe	p.S310F	ENST00000269571	8/27	353	235	118	167	167	0	ERBB2,missense_variant,p.Ser310Phe,ENST00000584450,;ERBB2,missense_variant,p.Ser280Phe,ENST00000540042,;ERBB2,missense_variant,p.Ser52Phe,ENST00000578502,;ERBB2,missense_variant,p.Ser295Phe,ENST00000541774,;ERBB2,missense_variant,p.Ser34Phe,ENST00000445658,;ERBB2,missense_variant,p.Ser280Phe,ENST00000578199,;ERBB2,missense_variant,p.Ser310Phe,ENST00000269571,;ERBB2,missense_variant,p.Ser280Phe,ENST00000406381,;ERBB2,missense_variant,p.Ser280Phe,ENST00000540147,;ERBB2,missense_variant,p.Ser280Phe,ENST00000584601,;ERBB2,downstream_gene_variant,,ENST00000578709,;ERBB2,upstream_gene_variant,,ENST00000582818,;ERBB2,downstream_gene_variant,,ENST00000584099,;ERBB2,missense_variant,p.Pro85Ser,ENST00000582648,;ERBB2,3_prime_UTR_variant,,ENST00000578373,;ERBB2,non_coding_transcript_exon_variant,,ENST00000584908,;ERBB2,non_coding_transcript_exon_variant,,ENST00000583038,;ERBB2,non_coding_transcript_exon_variant,,ENST00000582788,;ERBB2,downstream_gene_variant,,ENST00000583391,;	T	ENSG00000141736	ENST00000269571	Transcript	missense_variant	1088	929	310	S/F	tCc/tTc	COSM48358,COSM94225	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	deleterious(0)	probably_damaging(0.994)	8/27	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF137,Pfam_domain:PF00757,Gene3D:2.10.220.10,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S310F|c.929C>T|24,CODON|p.S310Y|c.929C>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGATCCTGCA	.	5	BLCA
HSPB9	0	.	GRCh37	17	40275082	40275082	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214G>A	p.Val72Met	p.V72M	ENST00000355067	1/1	160	108	52	109	109	0	HSPB9,missense_variant,p.Val72Met,ENST00000355067,;CTD-2132N18.3,intron_variant,,ENST00000592574,;RAB5C,downstream_gene_variant,,ENST00000346213,;RAB5C,downstream_gene_variant,,ENST00000547517,;RAB5C,downstream_gene_variant,,ENST00000393860,;KAT2A,upstream_gene_variant,,ENST00000225916,;RAB5C,downstream_gene_variant,,ENST00000551338,;CTD-2132N18.3,intron_variant,,ENST00000592248,;CTD-2132N18.3,intron_variant,,ENST00000585562,;KAT2A,upstream_gene_variant,,ENST00000465682,;	A	ENSG00000197723	ENST00000355067	Transcript	missense_variant	327	214	72	V/M	Gtg/Atg	.	.	.	1	HSPB9	HGNC	30589	protein_coding	YES	CCDS11418.1	ENSP00000347178	HSPB9_HUMAN	.	UPI00000375B4	.	deleterious(0.03)	possibly_damaging(0.601)	1/1	.	PROSITE_profiles:PS01031,hmmpanther:PTHR11527:SF111,hmmpanther:PTHR11527,Pfam_domain:PF00011,Superfamily_domains:SSF49764	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGTGGAT	.	5	BLCA
ATXN7L3	0	.	GRCh37	17	42275465	42275465	+	5'Flank	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000454077	.	131	84	46	60	60	0	ATXN7L3,5_prime_UTR_variant,,ENST00000590169,;ATXN7L3,5_prime_UTR_variant,,ENST00000589805,;ATXN7L3,5_prime_UTR_variant,,ENST00000587097,;ATXN7L3,5_prime_UTR_variant,,ENST00000389384,;ATXN7L3,upstream_gene_variant,,ENST00000591295,;ATXN7L3,upstream_gene_variant,,ENST00000454077,;ATXN7L3,upstream_gene_variant,,ENST00000590537,;CTB-175E5.7,upstream_gene_variant,,ENST00000586560,;ATXN7L3,intron_variant,,ENST00000593073,;ATXN7L3,upstream_gene_variant,,ENST00000587022,;ATXN7L3,upstream_gene_variant,,ENST00000589607,;ATXN7L3,upstream_gene_variant,,ENST00000591807,;ATXN7L3,upstream_gene_variant,,ENST00000586688,;	G	ENSG00000087152	ENST00000454077	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	27	-1	ATXN7L3	HGNC	25416	protein_coding	YES	CCDS45697.1	ENSP00000397259	AT7L3_HUMAN	K7ENZ2_HUMAN,K7EMZ3_HUMAN,K7EJK2_HUMAN,B4DKS1_HUMAN	UPI00001613AC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCTGACT	.	5	BLCA
LRRC37A4P	0	.	GRCh37	17	43592074	43592074	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3697G>A	.	.	ENST00000581296	7/12	212	195	17	171	170	0	RP11-798G7.5,intron_variant,,ENST00000253803,;LRRC37A4P,non_coding_transcript_exon_variant,,ENST00000579913,;LRRC37A4P,non_coding_transcript_exon_variant,,ENST00000581296,;LRRC37A4P,intron_variant,,ENST00000398305,;	T	ENSG00000214425	ENST00000581296	Transcript	non_coding_transcript_exon_variant	3697	.	.	.	.	.	.	.	-1	LRRC37A4P	HGNC	25479	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	7/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ACTTTCTAAAA	.	2	BLCA
MAPT	0	.	GRCh37	17	44049256	44049256	+	Silent	SNP	A	A	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165A>C	p.%3D	p.G55G	ENST00000344290	3/15	59	44	15	34	34	0	MAPT,synonymous_variant,p.%3D,ENST00000340799,;MAPT,synonymous_variant,p.%3D,ENST00000262410,;MAPT,synonymous_variant,p.%3D,ENST00000574436,;MAPT,synonymous_variant,p.%3D,ENST00000571987,;MAPT,synonymous_variant,p.%3D,ENST00000415613,;MAPT,synonymous_variant,p.%3D,ENST00000535772,;MAPT,synonymous_variant,p.%3D,ENST00000420682,;MAPT,synonymous_variant,p.%3D,ENST00000351559,;MAPT,synonymous_variant,p.%3D,ENST00000344290,;MAPT,synonymous_variant,p.%3D,ENST00000431008,;MAPT,5_prime_UTR_variant,,ENST00000347967,;MAPT,intron_variant,,ENST00000334239,;MAPT,intron_variant,,ENST00000446361,;MAPT,upstream_gene_variant,,ENST00000576518,;MAPT,intron_variant,,ENST00000570299,;MAPT,3_prime_UTR_variant,,ENST00000571311,;MAPT,upstream_gene_variant,,ENST00000572440,;	C	ENSG00000186868	ENST00000344290	Transcript	synonymous_variant	487	165	55	G	ggA/ggC	.	.	.	1	MAPT	HGNC	6893	protein_coding	YES	CCDS45715.1	ENSP00000340820	TAU_HUMAN	.	UPI0001AE66E9	.	.	.	3/15	.	hmmpanther:PTHR11501,hmmpanther:PTHR11501:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGGATCTGA	.	5	BLCA
MAPT	0	.	GRCh37	17	44073864	44073864	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1661C>A	p.Pro554His	p.P554H	ENST00000344290	11/15	58	33	25	31	31	0	MAPT,missense_variant,p.Pro161His,ENST00000334239,;MAPT,missense_variant,p.Pro190His,ENST00000340799,;MAPT,missense_variant,p.Pro536His,ENST00000262410,;MAPT,missense_variant,p.Pro161His,ENST00000446361,;MAPT,missense_variant,p.Pro219His,ENST00000574436,;MAPT,missense_variant,p.Pro536His,ENST00000571987,;MAPT,missense_variant,p.Pro554His,ENST00000415613,;MAPT,missense_variant,p.Pro219His,ENST00000535772,;MAPT,missense_variant,p.Pro150His,ENST00000576518,;MAPT,missense_variant,p.Pro190His,ENST00000420682,;MAPT,missense_variant,p.Pro219His,ENST00000351559,;MAPT,missense_variant,p.Pro554His,ENST00000344290,;MAPT,missense_variant,p.Pro219His,ENST00000431008,;MAPT,missense_variant,p.Pro125His,ENST00000347967,;STH,upstream_gene_variant,,ENST00000537309,;MAPT,non_coding_transcript_exon_variant,,ENST00000570299,;	A	ENSG00000186868	ENST00000344290	Transcript	missense_variant	1983	1661	554	P/H	cCc/cAc	.	.	.	1	MAPT	HGNC	6893	protein_coding	YES	CCDS45715.1	ENSP00000340820	TAU_HUMAN	.	UPI0001AE66E9	.	deleterious(0)	probably_damaging(0.999)	11/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11501,hmmpanther:PTHR11501:SF14,Prints_domain:PR01261	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACCCACCC	.	5	BLCA
HOXB6	0	.	GRCh37	17	46673712	46673712	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*63G>C	.	.	ENST00000484302	3/3	138	82	56	66	66	0	HOXB6,3_prime_UTR_variant,,ENST00000225648,;HOXB6,3_prime_UTR_variant,,ENST00000484302,;HOXB5,upstream_gene_variant,,ENST00000239151,;HOXB-AS3,intron_variant,,ENST00000481995,;HOXB-AS3,intron_variant,,ENST00000487849,;HOXB-AS3,intron_variant,,ENST00000467155,;HOXB-AS3,intron_variant,,ENST00000465846,;HOXB-AS3,intron_variant,,ENST00000474040,;HOXB-AS3,intron_variant,,ENST00000460041,;HOXB-AS3,intron_variant,,ENST00000477144,;HOXB-AS3,intron_variant,,ENST00000480872,;HOXB-AS3,intron_variant,,ENST00000429755,;HOXB-AS3,intron_variant,,ENST00000476204,;HOXB-AS3,intron_variant,,ENST00000474324,;HOXB-AS3,intron_variant,,ENST00000492897,;HOXB-AS3,upstream_gene_variant,,ENST00000466037,;HOXB3,intron_variant,,ENST00000552000,;HOXB6,downstream_gene_variant,,ENST00000490419,;HOXB6,downstream_gene_variant,,ENST00000470193,;	G	ENSG00000108511	ENST00000484302	Transcript	3_prime_UTR_variant	1361	.	.	.	.	.	.	.	-1	HOXB6	HGNC	5117	protein_coding	YES	CCDS11531.1	ENSP00000420009	HXB6_HUMAN	.	UPI000013C877	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCTCTGA	.	5	BLCA
HOXB6	0	.	GRCh37	17	46673804	46673804	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646G>A	p.Glu216Lys	p.E216K	ENST00000484302	3/3	346	231	114	160	160	0	HOXB6,missense_variant,p.Glu216Lys,ENST00000225648,;HOXB6,missense_variant,p.Glu216Lys,ENST00000484302,;HOXB5,upstream_gene_variant,,ENST00000239151,;HOXB-AS3,non_coding_transcript_exon_variant,,ENST00000466037,;HOXB-AS3,intron_variant,,ENST00000481995,;HOXB-AS3,intron_variant,,ENST00000487849,;HOXB-AS3,intron_variant,,ENST00000467155,;HOXB-AS3,intron_variant,,ENST00000465846,;HOXB-AS3,intron_variant,,ENST00000474040,;HOXB-AS3,intron_variant,,ENST00000460041,;HOXB-AS3,intron_variant,,ENST00000477144,;HOXB-AS3,intron_variant,,ENST00000480872,;HOXB-AS3,intron_variant,,ENST00000429755,;HOXB-AS3,intron_variant,,ENST00000476204,;HOXB-AS3,intron_variant,,ENST00000474324,;HOXB-AS3,intron_variant,,ENST00000492897,;HOXB3,intron_variant,,ENST00000552000,;HOXB6,downstream_gene_variant,,ENST00000490419,;HOXB6,downstream_gene_variant,,ENST00000470193,;	T	ENSG00000108511	ENST00000484302	Transcript	missense_variant	1269	646	216	E/K	Gag/Aag	COSM4067389	.	.	-1	HOXB6	HGNC	5117	protein_coding	YES	CCDS11531.1	ENSP00000420009	HXB6_HUMAN	.	UPI000013C877	.	deleterious_low_confidence(0.04)	unknown(0)	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24326:SF89,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCGGCAC	.	5	BLCA
B4GALNT2	0	.	GRCh37	17	47246118	47246118	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1351C>T	p.His451Tyr	p.H451Y	ENST00000300404	10/11	65	34	31	36	36	0	B4GALNT2,missense_variant,p.His365Tyr,ENST00000504681,;B4GALNT2,missense_variant,p.His451Tyr,ENST00000300404,;B4GALNT2,missense_variant,p.His391Tyr,ENST00000393354,;RP11-708H21.4,upstream_gene_variant,,ENST00000575159,;	T	ENSG00000167080	ENST00000300404	Transcript	missense_variant	1410	1351	451	H/Y	Cac/Tac	.	.	.	1	B4GALNT2	HGNC	24136	protein_coding	YES	CCDS11544.1	ENSP00000300404	B4GN2_HUMAN	Q8IVI2_HUMAN	UPI000013E655	.	tolerated(0.1)	possibly_damaging(0.874)	10/11	.	hmmpanther:PTHR15046:SF2,hmmpanther:PTHR15046,PIRSF_domain:PIRSF000474,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCACAAG	.	5	BLCA
MTMR4	0	.	GRCh37	17	56572730	56572730	+	Missense_Mutation	SNP	G	G	A	rs572156303	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2773C>T	p.Arg925Trp	p.R925W	ENST00000323456	16/19	146	96	49	53	53	0	MTMR4,missense_variant,p.Arg925Trp,ENST00000323456,;MTMR4,missense_variant,p.Arg868Trp,ENST00000579925,;MTMR4,upstream_gene_variant,,ENST00000578259,;	A	ENSG00000108389	ENST00000323456	Transcript	missense_variant	2898	2773	925	R/W	Cgg/Tgg	rs572156303	.	.	-1	MTMR4	HGNC	7452	protein_coding	YES	CCDS11608.1	ENSP00000325285	MTMR4_HUMAN	J3QRJ2_HUMAN	UPI00002010DE	.	deleterious_low_confidence(0)	probably_damaging(0.995)	16/19	.	hmmpanther:PTHR10807:SF64,hmmpanther:PTHR10807	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCCGAGGGG	by1000G	5	BLCA
SMG8	0	.	GRCh37	17	57287728	57287728	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316G>A	p.Glu106Lys	p.E106K	ENST00000543872	2/5	40	26	14	16	16	0	SMG8,missense_variant,p.Glu106Lys,ENST00000543872,;SMG8,missense_variant,p.Glu106Lys,ENST00000578922,;SMG8,missense_variant,p.Glu106Lys,ENST00000300917,;CTD-2510F5.6,intron_variant,,ENST00000577660,;SMG8,upstream_gene_variant,,ENST00000582469,;SMG8,intron_variant,,ENST00000580498,;SMG8,upstream_gene_variant,,ENST00000580798,;	A	ENSG00000167447	ENST00000543872	Transcript	missense_variant	580	316	106	E/K	Gag/Aag	.	.	.	1	SMG8	HGNC	25551	protein_coding	YES	CCDS11615.1	ENSP00000438748	SMG8_HUMAN	.	UPI000006CCB5	.	tolerated_low_confidence(0.32)	benign(0.002)	2/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13091,hmmpanther:PTHR13091:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCGAGGAC	.	5	BLCA
ACE	0	.	GRCh37	17	61560498	61560498	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1451C>A	p.Pro484His	p.P484H	ENST00000290866	9/25	285	175	110	159	159	0	ACE,missense_variant,p.Pro484His,ENST00000428043,;ACE,missense_variant,p.Pro484His,ENST00000290866,;ACE,intron_variant,,ENST00000538928,;ACE,upstream_gene_variant,,ENST00000490216,;ACE,upstream_gene_variant,,ENST00000582761,;ACE,upstream_gene_variant,,ENST00000290863,;ACE,upstream_gene_variant,,ENST00000413513,;ACE,downstream_gene_variant,,ENST00000582627,;ACE,upstream_gene_variant,,ENST00000421982,;ACE,intron_variant,,ENST00000584529,;ACE,downstream_gene_variant,,ENST00000583336,;ACE,3_prime_UTR_variant,,ENST00000582678,;ACE,upstream_gene_variant,,ENST00000582005,;ACE,upstream_gene_variant,,ENST00000578839,;ACE,upstream_gene_variant,,ENST00000584865,;ACE,downstream_gene_variant,,ENST00000580318,;ACE,upstream_gene_variant,,ENST00000579314,;ACE,upstream_gene_variant,,ENST00000579204,;ACE,upstream_gene_variant,,ENST00000579726,;ACE,upstream_gene_variant,,ENST00000577647,;ACE,downstream_gene_variant,,ENST00000579462,;	A	ENSG00000159640	ENST00000290866	Transcript	missense_variant	1475	1451	484	P/H	cCc/cAc	.	.	.	1	ACE	HGNC	2707	protein_coding	YES	CCDS11637.1	ENSP00000290866	ACE_HUMAN	Q3KRI5_HUMAN,D3DU13_HUMAN	UPI000002B8AD	.	tolerated(0.08)	probably_damaging(0.997)	9/25	.	hmmpanther:PTHR10514:SF19,hmmpanther:PTHR10514,Pfam_domain:PF01401,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCCCCCCTT	.	5	BLCA
RGS9	0	.	GRCh37	17	63156425	63156425	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280C>G	p.Leu94Val	p.L94V	ENST00000262406	4/19	205	126	79	114	114	0	RGS9,missense_variant,p.Leu94Val,ENST00000262406,;RGS9,missense_variant,p.Leu94Val,ENST00000443584,;RGS9,missense_variant,p.Leu94Val,ENST00000449996,;RGS9,non_coding_transcript_exon_variant,,ENST00000577186,;RGS9,missense_variant,p.Leu94Val,ENST00000584234,;RGS9,non_coding_transcript_exon_variant,,ENST00000581175,;RGS9,downstream_gene_variant,,ENST00000583473,;	G	ENSG00000108370	ENST00000262406	Transcript	missense_variant	347	280	94	L/V	Ctc/Gtc	.	.	.	1	RGS9	HGNC	10004	protein_coding	YES	CCDS42373.1	ENSP00000262406	RGS9_HUMAN	.	UPI000013382A	.	tolerated(0.17)	possibly_damaging(0.792)	4/19	.	PROSITE_profiles:PS50186,hmmpanther:PTHR10845:SF20,hmmpanther:PTHR10845,Gene3D:1.10.10.10,Pfam_domain:PF00610,SMART_domains:SM00049,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCTCAAG	.	5	BLCA
HELZ	0	.	GRCh37	17	65141988	65141988	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2640C>T	p.%3D	p.F880F	ENST00000358691	21/33	88	53	34	36	36	0	HELZ,synonymous_variant,p.%3D,ENST00000580168,;HELZ,synonymous_variant,p.%3D,ENST00000358691,;HELZ,synonymous_variant,p.%3D,ENST00000579953,;	A	ENSG00000198265	ENST00000358691	Transcript	synonymous_variant	2807	2640	880	F	ttC/ttT	.	.	.	-1	HELZ	HGNC	16878	protein_coding	YES	CCDS42374.1	ENSP00000351524	HELZ_HUMAN	J3KT20_HUMAN,J3KS59_HUMAN	UPI000013D7F5	.	.	.	21/33	.	hmmpanther:PTHR10887:SF9,hmmpanther:PTHR10887,Pfam_domain:PF13087,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATAGAAAAG	.	5	BLCA
C17orf77	0	.	GRCh37	17	72588299	72588299	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>G	p.%3D	p.L38L	ENST00000392620	3/3	104	70	33	75	75	0	C17orf77,synonymous_variant,p.%3D,ENST00000328023,;C17orf77,synonymous_variant,p.%3D,ENST00000392620,;C17orf77,synonymous_variant,p.%3D,ENST00000524389,;CD300LD,splice_region_variant,,ENST00000375352,;	G	ENSG00000182352	ENST00000392620	Transcript	synonymous_variant	476	114	38	L	ctC/ctG	.	.	.	1	C17orf77	HGNC	26480	protein_coding	YES	CCDS32721.1	ENSP00000376396	CQ077_HUMAN	E9PQI6_HUMAN	UPI00002001C6	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCACCTG	.	5	BLCA
HID1	0	.	GRCh37	17	72959943	72959943	+	Silent	SNP	G	G	A	rs533342753	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279C>T	p.%3D	p.I93I	ENST00000425042	3/19	93	56	36	39	39	0	HID1,synonymous_variant,p.%3D,ENST00000425042,;HID1,synonymous_variant,p.%3D,ENST00000581676,;HID1,intron_variant,,ENST00000530857,;HID1,upstream_gene_variant,,ENST00000318565,;HID1,non_coding_transcript_exon_variant,,ENST00000530904,;HID1,non_coding_transcript_exon_variant,,ENST00000532900,;HID1,non_coding_transcript_exon_variant,,ENST00000579818,;HID1,synonymous_variant,p.%3D,ENST00000534480,;HID1,non_coding_transcript_exon_variant,,ENST00000528902,;HID1,non_coding_transcript_exon_variant,,ENST00000525128,;HID1,upstream_gene_variant,,ENST00000532894,;HID1,upstream_gene_variant,,ENST00000583244,;	A	ENSG00000167861	ENST00000425042	Transcript	synonymous_variant	357	279	93	I	atC/atT	rs533342753	.	.	-1	HID1	HGNC	15736	protein_coding	YES	CCDS32726.1	ENSP00000413520	HID1_HUMAN	Q8NC03_HUMAN,B4E226_HUMAN	UPI00000746AC	.	.	.	3/19	.	Pfam_domain:PF12722,hmmpanther:PTHR21575,hmmpanther:PTHR21575:SF12	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACGATCTG	by1000G	5	BLCA
GALR2	0	.	GRCh37	17	74073168	74073168	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820C>T	p.Arg274Cys	p.R274C	ENST00000329003	2/2	37	22	15	25	25	0	GALR2,missense_variant,p.Arg274Cys,ENST00000329003,;ZACN,upstream_gene_variant,,ENST00000392503,;EXOC7,downstream_gene_variant,,ENST00000589210,;SRP68,upstream_gene_variant,,ENST00000307877,;SRP68,upstream_gene_variant,,ENST00000539137,;EXOC7,downstream_gene_variant,,ENST00000332065,;ZACN,upstream_gene_variant,,ENST00000334586,;SRP68,upstream_gene_variant,,ENST00000355113,;EXOC7,downstream_gene_variant,,ENST00000607838,;EXOC7,downstream_gene_variant,,ENST00000591724,;ZACN,intron_variant,,ENST00000591500,;SRP68,upstream_gene_variant,,ENST00000592704,;EXOC7,downstream_gene_variant,,ENST00000465252,;ZACN,upstream_gene_variant,,ENST00000421794,;SRP68,upstream_gene_variant,,ENST00000591272,;ZACN,upstream_gene_variant,,ENST00000590045,;ZACN,upstream_gene_variant,,ENST00000524242,;ZACN,upstream_gene_variant,,ENST00000425015,;	T	ENSG00000182687	ENST00000329003	Transcript	missense_variant	910	820	274	R/C	Cgc/Tgc	.	.	.	1	GALR2	HGNC	4133	protein_coding	YES	CCDS11739.1	ENSP00000329684	GALR2_HUMAN	.	UPI000004B247	.	deleterious(0)	probably_damaging(1)	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24230,hmmpanther:PTHR24230:SF13,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00663	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTTCGCATC	.	5	BLCA
TMC6	0	.	GRCh37	17	76120185	76120185	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967C>T	p.%3D	p.L323L	ENST00000590602	9/20	72	42	29	62	62	0	TMC6,synonymous_variant,p.%3D,ENST00000322914,;TMC6,synonymous_variant,p.%3D,ENST00000306591,;TMC6,synonymous_variant,p.%3D,ENST00000392467,;TMC6,synonymous_variant,p.%3D,ENST00000590602,;TMC6,synonymous_variant,p.%3D,ENST00000589553,;TMC6,5_prime_UTR_variant,,ENST00000322933,;TMC6,downstream_gene_variant,,ENST00000592063,;TMC6,downstream_gene_variant,,ENST00000592594,;TMC6,downstream_gene_variant,,ENST00000589271,;TMC6,upstream_gene_variant,,ENST00000591436,;TMC6,upstream_gene_variant,,ENST00000592076,;TMC6,upstream_gene_variant,,ENST00000590934,;TMC6,non_coding_transcript_exon_variant,,ENST00000593044,;TMC6,non_coding_transcript_exon_variant,,ENST00000588087,;TMC6,non_coding_transcript_exon_variant,,ENST00000585849,;TMC6,downstream_gene_variant,,ENST00000586126,;TMC6,downstream_gene_variant,,ENST00000591594,;TMC6,upstream_gene_variant,,ENST00000591756,;TMC6,downstream_gene_variant,,ENST00000586697,;TMC6,downstream_gene_variant,,ENST00000590162,;TMC6,downstream_gene_variant,,ENST00000588792,;TMC6,downstream_gene_variant,,ENST00000586271,;	A	ENSG00000141524	ENST00000590602	Transcript	synonymous_variant	1127	967	323	L	Ctg/Ttg	.	.	.	-1	TMC6	HGNC	18021	protein_coding	YES	CCDS32748.1	ENSP00000465261	TMC6_HUMAN	Q96I77_HUMAN,Q7L2M4_HUMAN,K7ERH0_HUMAN,K7ENM6_HUMAN,K7ENC4_HUMAN	UPI000013D819	.	.	.	9/20	.	hmmpanther:PTHR23302,hmmpanther:PTHR23302:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGGGGGC	.	5	BLCA
TMC6	0	.	GRCh37	17	76120740	76120740	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756C>G	p.%3D	p.L252L	ENST00000590602	8/20	41	26	15	14	14	0	TMC6,synonymous_variant,p.%3D,ENST00000322914,;TMC6,synonymous_variant,p.%3D,ENST00000306591,;TMC6,synonymous_variant,p.%3D,ENST00000392467,;TMC6,synonymous_variant,p.%3D,ENST00000590602,;TMC6,synonymous_variant,p.%3D,ENST00000589553,;TMC6,synonymous_variant,p.%3D,ENST00000589271,;TMC6,5_prime_UTR_variant,,ENST00000322933,;TMC6,downstream_gene_variant,,ENST00000592063,;TMC6,downstream_gene_variant,,ENST00000592594,;TMC6,upstream_gene_variant,,ENST00000591436,;TMC6,upstream_gene_variant,,ENST00000592076,;TMC6,upstream_gene_variant,,ENST00000590934,;TMC6,non_coding_transcript_exon_variant,,ENST00000593044,;TMC6,non_coding_transcript_exon_variant,,ENST00000588087,;TMC6,non_coding_transcript_exon_variant,,ENST00000586271,;TMC6,downstream_gene_variant,,ENST00000586126,;TMC6,downstream_gene_variant,,ENST00000591594,;TMC6,upstream_gene_variant,,ENST00000591756,;TMC6,downstream_gene_variant,,ENST00000586697,;TMC6,downstream_gene_variant,,ENST00000590162,;TMC6,upstream_gene_variant,,ENST00000585849,;TMC6,downstream_gene_variant,,ENST00000588792,;	C	ENSG00000141524	ENST00000590602	Transcript	synonymous_variant	916	756	252	L	ctC/ctG	.	.	.	-1	TMC6	HGNC	18021	protein_coding	YES	CCDS32748.1	ENSP00000465261	TMC6_HUMAN	Q96I77_HUMAN,Q7L2M4_HUMAN,K7ERH0_HUMAN,K7ENM6_HUMAN,K7ENC4_HUMAN	UPI000013D819	.	.	.	8/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23302,hmmpanther:PTHR23302:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTGAGAAA	.	5	BLCA
DNAH2	0	.	GRCh37	17	7667185	7667185	+	Missense_Mutation	SNP	G	G	C	rs748825403	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3015G>C	p.Glu1005Asp	p.E1005D	ENST00000572933	19/86	144	96	47	70	70	0	DNAH2,missense_variant,p.Glu1005Asp,ENST00000389173,;DNAH2,missense_variant,p.Glu1005Asp,ENST00000572933,;DNAH2,missense_variant,p.Glu76Asp,ENST00000574518,;	C	ENSG00000183914	ENST00000572933	Transcript	missense_variant	4475	3015	1005	E/D	gaG/gaC	rs748825403	.	.	1	DNAH2	HGNC	2948	protein_coding	YES	CCDS32551.1	ENSP00000458355	DYH2_HUMAN	.	UPI00005B2F0D	.	.	benign(0.012)	19/86	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF183	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGAGACAGT	.	5	BLCA
C1QTNF1	0	.	GRCh37	17	77044007	77044007	+	Missense_Mutation	SNP	G	G	A	rs546733985	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.683G>A	p.Arg228His	p.R228H	ENST00000339142	5/5	82	49	32	47	47	0	C1QTNF1,missense_variant,p.Arg238His,ENST00000354124,;C1QTNF1,missense_variant,p.Arg146His,ENST00000311661,;C1QTNF1,missense_variant,p.Arg228His,ENST00000392445,;C1QTNF1,missense_variant,p.Arg228His,ENST00000581774,;C1QTNF1,missense_variant,p.Arg228His,ENST00000583904,;C1QTNF1,missense_variant,p.Arg228His,ENST00000339142,;C1QTNF1,missense_variant,p.Arg146His,ENST00000578229,;C1QTNF1,missense_variant,p.Arg228His,ENST00000580454,;C1QTNF1,missense_variant,p.Arg228His,ENST00000580474,;C1QTNF1,missense_variant,p.Arg228His,ENST00000579760,;C1QTNF1,non_coding_transcript_exon_variant,,ENST00000582625,;	A	ENSG00000173918	ENST00000339142	Transcript	missense_variant	1238	683	228	R/H	cGc/cAc	rs546733985	.	.	1	C1QTNF1	HGNC	14324	protein_coding	YES	CCDS11761.1	ENSP00000340864	C1QT1_HUMAN	.	UPI0000035539	.	deleterious(0)	probably_damaging(0.999)	5/5	.	Superfamily_domains:SSF49842,SMART_domains:SM00110,Pfam_domain:PF00386,Gene3D:2.60.120.40,hmmpanther:PTHR24022:SF10,hmmpanther:PTHR24022,PROSITE_profiles:PS50871	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGACCGCAGCA	byCluster	5	BLCA
CNTROB	0	.	GRCh37	17	7836433	7836433	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36C>T	p.%3D	p.L12L	ENST00000380262	1/19	177	111	66	98	98	0	CNTROB,synonymous_variant,p.%3D,ENST00000570784,;CNTROB,synonymous_variant,p.%3D,ENST00000565740,;CNTROB,synonymous_variant,p.%3D,ENST00000570782,;CNTROB,synonymous_variant,p.%3D,ENST00000380255,;CNTROB,synonymous_variant,p.%3D,ENST00000380262,;CNTROB,synonymous_variant,p.%3D,ENST00000563694,;CNTROB,synonymous_variant,p.%3D,ENST00000576538,;CNTROB,5_prime_UTR_variant,,ENST00000575408,;KCNAB3,upstream_gene_variant,,ENST00000303790,;TRAPPC1,upstream_gene_variant,,ENST00000572656,;TRAPPC1,upstream_gene_variant,,ENST00000540486,;TRAPPC1,upstream_gene_variant,,ENST00000303731,;TRAPPC1,upstream_gene_variant,,ENST00000571947,;CNTROB,upstream_gene_variant,,ENST00000571632,;CNTROB,upstream_gene_variant,,ENST00000576922,;CNTROB,upstream_gene_variant,,ENST00000571540,;KCNAB3,upstream_gene_variant,,ENST00000570587,;TRAPPC1,upstream_gene_variant,,ENST00000575639,;TRAPPC1,upstream_gene_variant,,ENST00000573989,;TRAPPC1,upstream_gene_variant,,ENST00000571739,;KCNAB3,upstream_gene_variant,,ENST00000570852,;CNTROB,upstream_gene_variant,,ENST00000576587,;CNTROB,upstream_gene_variant,,ENST00000574430,;RP11-1099M24.7,upstream_gene_variant,,ENST00000573621,;	T	ENSG00000170037	ENST00000380262	Transcript	synonymous_variant	961	36	12	L	ctC/ctT	.	.	.	1	CNTROB	HGNC	29616	protein_coding	YES	CCDS32557.1	ENSP00000369614	CNTRB_HUMAN	I3L465_HUMAN,I3L1Z8_HUMAN,I3L1B0_HUMAN	UPI00005DB2E1	.	.	.	1/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCGGGGC	.	5	BLCA
BAIAP2	0	.	GRCh37	17	79079921	79079921	+	Missense_Mutation	SNP	G	G	A	rs762712608	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312G>A	p.Asp438Asn	p.D438N	ENST00000321300	11/15	10	7	3	8	8	0	BAIAP2,missense_variant,p.Asp438Asn,ENST00000428708,;BAIAP2,missense_variant,p.Asp438Asn,ENST00000435091,;BAIAP2,missense_variant,p.Asp438Asn,ENST00000321300,;BAIAP2,missense_variant,p.Asp471Asn,ENST00000575245,;BAIAP2,missense_variant,p.Asp301Asn,ENST00000416299,;BAIAP2,missense_variant,p.Asp438Asn,ENST00000575712,;BAIAP2,missense_variant,p.Asp360Asn,ENST00000392411,;BAIAP2,missense_variant,p.Asp120Asn,ENST00000572498,;BAIAP2,missense_variant,p.Asp438Asn,ENST00000321280,;BAIAP2,intron_variant,,ENST00000575841,;BAIAP2,downstream_gene_variant,,ENST00000572073,;BAIAP2,downstream_gene_variant,,ENST00000576756,;BAIAP2,downstream_gene_variant,,ENST00000573677,;BAIAP2,downstream_gene_variant,,ENST00000574027,;BAIAP2,3_prime_UTR_variant,,ENST00000572329,;BAIAP2,non_coding_transcript_exon_variant,,ENST00000576225,;BAIAP2,non_coding_transcript_exon_variant,,ENST00000576995,;BAIAP2,downstream_gene_variant,,ENST00000574804,;BAIAP2,downstream_gene_variant,,ENST00000577097,;	A	ENSG00000175866	ENST00000321300	Transcript	missense_variant	1405	1312	438	D/N	Gat/Aat	rs762712608	.	.	1	BAIAP2	HGNC	947	protein_coding	YES	CCDS11775.1	ENSP00000316338	BAIP2_HUMAN	I3L526_HUMAN,I3L327_HUMAN,I3L2M4_HUMAN,I3L1C8_HUMAN,I3L125_HUMAN,I3L113_HUMAN,I3L0Y9_HUMAN,I3L0M4_HUMAN	UPI000000D762	.	tolerated(0.48)	benign(0.004)	11/15	.	hmmpanther:PTHR14206:SF3,hmmpanther:PTHR14206	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGCGATGGC	byFrequency	2	BLCA
ASPSCR1	0	.	GRCh37	17	79943433	79943433	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324C>T	p.%3D	p.F108F	ENST00000306729	4/17	114	65	48	56	56	0	ASPSCR1,synonymous_variant,p.%3D,ENST00000579684,;ASPSCR1,synonymous_variant,p.%3D,ENST00000581484,;ASPSCR1,synonymous_variant,p.%3D,ENST00000580534,;ASPSCR1,synonymous_variant,p.%3D,ENST00000306739,;ASPSCR1,synonymous_variant,p.%3D,ENST00000306729,;ASPSCR1,synonymous_variant,p.%3D,ENST00000581647,;ASPSCR1,downstream_gene_variant,,ENST00000582019,;ASPSCR1,synonymous_variant,p.%3D,ENST00000583503,;ASPSCR1,synonymous_variant,p.%3D,ENST00000584454,;ASPSCR1,3_prime_UTR_variant,,ENST00000344865,;	T	ENSG00000169696	ENST00000306729	Transcript	synonymous_variant	421	324	108	F	ttC/ttT	.	.	.	1	ASPSCR1	HGNC	13825	protein_coding	YES	CCDS58611.1	ENSP00000306625	ASPC1_HUMAN	.	UPI000007263D	.	.	.	4/17	.	hmmpanther:PTHR23153:SF33,hmmpanther:PTHR23153	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTGTTC	.	5	BLCA
GPS1	0	.	GRCh37	17	80012789	80012789	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.745C>T	p.Gln249Ter	p.Q249*	ENST00000392358	5/13	106	67	39	61	61	0	GPS1,stop_gained,p.Gln249Ter,ENST00000392358,;GPS1,stop_gained,p.Gln209Ter,ENST00000578552,;GPS1,stop_gained,p.Gln193Ter,ENST00000320548,;GPS1,stop_gained,p.Gln249Ter,ENST00000355130,;GPS1,stop_gained,p.Gln213Ter,ENST00000306823,;GPS1,stop_gained,p.Gln193Ter,ENST00000585084,;DUS1L,downstream_gene_variant,,ENST00000538833,;DUS1L,downstream_gene_variant,,ENST00000542088,;GPS1,downstream_gene_variant,,ENST00000583641,;GPS1,downstream_gene_variant,,ENST00000583009,;DUS1L,downstream_gene_variant,,ENST00000306796,;RFNG,upstream_gene_variant,,ENST00000310496,;DUS1L,downstream_gene_variant,,ENST00000577574,;GPS1,downstream_gene_variant,,ENST00000581418,;GPS1,downstream_gene_variant,,ENST00000581578,;RFNG,upstream_gene_variant,,ENST00000578356,;GPS1,downstream_gene_variant,,ENST00000580716,;GPS1,downstream_gene_variant,,ENST00000583961,;GPS1,upstream_gene_variant,,ENST00000578168,;GPS1,downstream_gene_variant,,ENST00000582327,;DUS1L,downstream_gene_variant,,ENST00000354321,;RFNG,upstream_gene_variant,,ENST00000429557,;GPS1,downstream_gene_variant,,ENST00000583885,;RFNG,upstream_gene_variant,,ENST00000580928,;GPS1,downstream_gene_variant,,ENST00000584229,;GPS1,downstream_gene_variant,,ENST00000583983,;RFNG,upstream_gene_variant,,ENST00000584838,;GPS1,3_prime_UTR_variant,,ENST00000580141,;GPS1,3_prime_UTR_variant,,ENST00000584460,;GPS1,non_coding_transcript_exon_variant,,ENST00000392357,;RFNG,upstream_gene_variant,,ENST00000584515,;RFNG,upstream_gene_variant,,ENST00000582478,;GPS1,upstream_gene_variant,,ENST00000578279,;RFNG,upstream_gene_variant,,ENST00000580953,;DUS1L,downstream_gene_variant,,ENST00000578846,;GPS1,downstream_gene_variant,,ENST00000580627,;GPS1,upstream_gene_variant,,ENST00000583486,;RFNG,upstream_gene_variant,,ENST00000584463,;GPS1,downstream_gene_variant,,ENST00000578642,;RFNG,upstream_gene_variant,,ENST00000583784,;RFNG,upstream_gene_variant,,ENST00000578676,;DUS1L,downstream_gene_variant,,ENST00000584871,;DUS1L,downstream_gene_variant,,ENST00000579854,;DUS1L,downstream_gene_variant,,ENST00000580731,;DUS1L,downstream_gene_variant,,ENST00000578428,;GPS1,downstream_gene_variant,,ENST00000580723,;RFNG,upstream_gene_variant,,ENST00000580793,;GPS1,downstream_gene_variant,,ENST00000578392,;	T	ENSG00000169727	ENST00000392358	Transcript	stop_gained	1094	745	249	Q/*	Cag/Tag	.	.	.	1	GPS1	HGNC	4549	protein_coding	YES	CCDS11800.1	ENSP00000376167	CSN1_HUMAN	J3QS88_HUMAN,J3QL53_HUMAN,J3KTB0_HUMAN,J3KSA5_HUMAN,C9JFE4_HUMAN,A8K070_HUMAN	UPI0000231C2E	.	.	.	5/13	.	hmmpanther:PTHR14145:SF2,hmmpanther:PTHR14145,Pfam_domain:PF10602,Gene3D:1.25.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTGCAGAAT	.	5	BLCA
TBCD	0	.	GRCh37	17	80758804	80758804	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882G>A	p.%3D	p.R294R	ENST00000355528	9/39	112	74	38	59	59	0	TBCD,synonymous_variant,p.%3D,ENST00000539345,;TBCD,synonymous_variant,p.%3D,ENST00000355528,;TBCD,5_prime_UTR_variant,,ENST00000397466,;RP11-567O16.1,upstream_gene_variant,,ENST00000576836,;	A	ENSG00000141556	ENST00000355528	Transcript	synonymous_variant	1012	882	294	R	cgG/cgA	.	.	.	1	TBCD	HGNC	11581	protein_coding	YES	CCDS45818.1	ENSP00000347719	TBCD_HUMAN	I3L4D2_HUMAN,I3L439_HUMAN,I3L3H4_HUMAN,I3L1S3_HUMAN,I3L163_HUMAN,I3L131_HUMAN	UPI000020053F	.	.	.	9/39	.	hmmpanther:PTHR12658	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCGGAAGCT	.	5	BLCA
TUBB6	0	.	GRCh37	18	12325380	12325380	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592G>A	p.Glu198Lys	p.E198K	ENST00000317702	4/4	225	131	94	118	118	0	TUBB6,missense_variant,p.Glu161Lys,ENST00000590103,;TUBB6,missense_variant,p.Glu198Lys,ENST00000317702,;TUBB6,3_prime_UTR_variant,,ENST00000591208,;TUBB6,intron_variant,,ENST00000590967,;TUBB6,intron_variant,,ENST00000591909,;TUBB6,intron_variant,,ENST00000586691,;TUBB6,downstream_gene_variant,,ENST00000592683,;TUBB6,downstream_gene_variant,,ENST00000586653,;TUBB6,downstream_gene_variant,,ENST00000591463,;TUBB6,downstream_gene_variant,,ENST00000590693,;AFG3L2,downstream_gene_variant,,ENST00000269143,;TUBB6,3_prime_UTR_variant,,ENST00000586810,;TUBB6,non_coding_transcript_exon_variant,,ENST00000417736,;TUBB6,downstream_gene_variant,,ENST00000590388,;	A	ENSG00000176014	ENST00000317702	Transcript	missense_variant	826	592	198	E/K	Gag/Aag	.	.	.	1	TUBB6	HGNC	20776	protein_coding	YES	CCDS11858.1	ENSP00000318697	TBB6_HUMAN	K7ES63_HUMAN,K7EL29_HUMAN,B4E386_HUMAN,B3KS31_HUMAN	UPI0000072BFF	.	deleterious_low_confidence(0.03)	benign(0.283)	4/4	.	Prints_domain:PR01161,Superfamily_domains:SSF52490,SMART_domains:SM00864,Pfam_domain:PF00091,Gene3D:3.40.50.1440,hmmpanther:PTHR11588:SF88,hmmpanther:PTHR11588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGACGAGACC	.	5	BLCA
MC5R	0	.	GRCh37	18	13826052	13826052	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288C>T	p.%3D	p.I96I	ENST00000324750	1/1	106	73	33	65	65	0	MC5R,synonymous_variant,p.%3D,ENST00000324750,;MC5R,synonymous_variant,p.%3D,ENST00000589410,;AP001525.1,upstream_gene_variant,,ENST00000390194,;	T	ENSG00000176136	ENST00000324750	Transcript	synonymous_variant	510	288	96	I	atC/atT	.	.	.	1	MC5R	HGNC	6933	protein_coding	YES	CCDS11868.1	ENSP00000318077	MC5R_HUMAN	K7ER30_HUMAN	UPI0000050405	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR22750:SF5,hmmpanther:PTHR22750,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR01063	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCTACCT	.	5	BLCA
MC5R	0	.	GRCh37	18	13826334	13826334	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.570C>T	p.%3D	p.L190L	ENST00000324750	1/1	825	505	320	486	485	1	MC5R,synonymous_variant,p.%3D,ENST00000324750,;MC5R,downstream_gene_variant,,ENST00000589410,;AP001525.1,upstream_gene_variant,,ENST00000390194,;	T	ENSG00000176136	ENST00000324750	Transcript	synonymous_variant	792	570	190	L	ctC/ctT	.	.	.	1	MC5R	HGNC	6933	protein_coding	YES	CCDS11868.1	ENSP00000318077	MC5R_HUMAN	K7ER30_HUMAN	UPI0000050405	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR22750:SF5,hmmpanther:PTHR22750,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCATCTC	.	5	BLCA
MIB1	0	.	GRCh37	18	19358105	19358105	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678C>G	p.Phe226Leu	p.F226L	ENST00000261537	5/21	164	101	63	79	79	0	MIB1,missense_variant,p.Phe226Leu,ENST00000261537,;AC091038.1,downstream_gene_variant,,ENST00000582102,;MIB1,non_coding_transcript_exon_variant,,ENST00000578646,;	G	ENSG00000101752	ENST00000261537	Transcript	missense_variant	942	678	226	F/L	ttC/ttG	.	.	.	1	MIB1	HGNC	21086	protein_coding	YES	CCDS11871.1	ENSP00000261537	MIB1_HUMAN	B3KRA8_HUMAN	UPI000000D833	.	deleterious(0.05)	benign(0.006)	5/21	.	hmmpanther:PTHR24202,hmmpanther:PTHR24202:SF52	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTACAG	.	5	BLCA
ZNF521	0	.	GRCh37	18	22805860	22805860	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2022C>T	p.%3D	p.P674P	ENST00000361524	4/8	263	169	94	146	146	0	ZNF521,synonymous_variant,p.%3D,ENST00000538137,;ZNF521,synonymous_variant,p.%3D,ENST00000584787,;ZNF521,synonymous_variant,p.%3D,ENST00000361524,;ZNF521,upstream_gene_variant,,ENST00000577775,;ZNF521,downstream_gene_variant,,ENST00000577720,;ZNF521,downstream_gene_variant,,ENST00000577801,;ZNF521,downstream_gene_variant,,ENST00000580488,;ZNF521,downstream_gene_variant,,ENST00000583005,;ZNF521,downstream_gene_variant,,ENST00000581869,;ZNF521,downstream_gene_variant,,ENST00000579111,;ZNF521,synonymous_variant,p.%3D,ENST00000399425,;ZNF521,downstream_gene_variant,,ENST00000583398,;	A	ENSG00000198795	ENST00000361524	Transcript	synonymous_variant	2171	2022	674	P	ccC/ccT	.	.	.	-1	ZNF521	HGNC	24605	protein_coding	YES	CCDS32806.1	ENSP00000354794	ZN521_HUMAN	J3QRW6_HUMAN,J3KTI4_HUMAN,J3KT07_HUMAN,J3KSZ4_HUMAN	UPI000006F982	.	.	.	4/8	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF00096,PROSITE_patterns:PS00028,hmmpanther:PTHR24385,hmmpanther:PTHR24385:SF32,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTGGGGAA	.	5	BLCA
DSC2	0	.	GRCh37	18	28654728	28654728	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1809C>T	p.%3D	p.I603I	ENST00000280904	12/16	98	60	37	41	41	0	DSC2,synonymous_variant,p.%3D,ENST00000251081,;DSC2,synonymous_variant,p.%3D,ENST00000280904,;snoU13,downstream_gene_variant,,ENST00000459603,;	A	ENSG00000134755	ENST00000280904	Transcript	synonymous_variant	2253	1809	603	I	atC/atT	.	.	.	-1	DSC2	HGNC	3036	protein_coding	YES	CCDS11892.1	ENSP00000280904	DSC2_HUMAN	A9X9L1_HUMAN	UPI00001298F9	.	.	.	12/16	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24025,hmmpanther:PTHR24025:SF0,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATGGATAGG	.	5	BLCA
ASXL3	0	.	GRCh37	18	31324989	31324989	+	Missense_Mutation	SNP	C	C	G	rs369543627	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5177C>G	p.Ala1726Gly	p.A1726G	ENST00000269197	12/12	97	60	37	42	42	0	ASXL3,missense_variant,p.Ala1726Gly,ENST00000269197,;ASXL3,downstream_gene_variant,,ENST00000592288,;	G	ENSG00000141431	ENST00000269197	Transcript	missense_variant	5177	5177	1726	A/G	gCc/gGc	rs369543627	.	.	1	ASXL3	HGNC	29357	protein_coding	YES	CCDS45847.1	ENSP00000269197	ASXL3_HUMAN	K7EQY1_HUMAN	UPI000156D0F3	.	.	benign(0.008)	12/12	.	hmmpanther:PTHR13578:SF18,hmmpanther:PTHR13578	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGATGCCCTGA	byFrequency|byCluster	5	BLCA
MBD1	0	.	GRCh37	18	47799322	47799322	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1588G>A	p.Val530Ile	p.V530I	ENST00000590208	14/16	114	65	49	65	65	0	MBD1,missense_variant,p.Val461Ile,ENST00000588937,;MBD1,missense_variant,p.Val428Ile,ENST00000587605,;MBD1,missense_variant,p.Val461Ile,ENST00000269471,;MBD1,missense_variant,p.Val165Ile,ENST00000589541,;MBD1,missense_variant,p.Val555Ile,ENST00000585595,;MBD1,missense_variant,p.Val474Ile,ENST00000347968,;MBD1,missense_variant,p.Val530Ile,ENST00000269468,;MBD1,missense_variant,p.Val461Ile,ENST00000591535,;MBD1,missense_variant,p.Val499Ile,ENST00000398495,;MBD1,missense_variant,p.Val329Ile,ENST00000592060,;MBD1,missense_variant,p.Val530Ile,ENST00000590208,;MBD1,missense_variant,p.Val484Ile,ENST00000339998,;MBD1,missense_variant,p.Val474Ile,ENST00000398493,;MBD1,missense_variant,p.Val480Ile,ENST00000585672,;MBD1,missense_variant,p.Val555Ile,ENST00000457839,;MBD1,missense_variant,p.Val461Ile,ENST00000436910,;MBD1,missense_variant,p.Val481Ile,ENST00000353909,;MBD1,missense_variant,p.Val428Ile,ENST00000349085,;MBD1,missense_variant,p.Val530Ile,ENST00000382948,;MBD1,missense_variant,p.Val530Ile,ENST00000591416,;MBD1,missense_variant,p.Val428Ile,ENST00000398488,;MBD1,missense_variant,p.Val581Ile,ENST00000424334,;MBD1,downstream_gene_variant,,ENST00000589733,;MBD1,non_coding_transcript_exon_variant,,ENST00000586884,;MBD1,downstream_gene_variant,,ENST00000589867,;MBD1,downstream_gene_variant,,ENST00000586679,;MBD1,downstream_gene_variant,,ENST00000591661,;MBD1,downstream_gene_variant,,ENST00000590215,;MBD1,downstream_gene_variant,,ENST00000586118,;	T	ENSG00000141644	ENST00000590208	Transcript	missense_variant	1935	1588	530	V/I	Gta/Ata	.	.	.	-1	MBD1	HGNC	6916	protein_coding	YES	CCDS59320.1	ENSP00000468785	.	K7ESN0_HUMAN	UPI0001F995B6	.	tolerated_low_confidence(0.08)	benign(0.017)	14/16	.	hmmpanther:PTHR12396,hmmpanther:PTHR12396:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTACTGCCT	.	5	BLCA
MBD1	0	.	GRCh37	18	47799841	47799841	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1447G>T	p.Glu483Ter	p.E483*	ENST00000590208	13/16	118	80	37	64	64	0	MBD1,stop_gained,p.Glu508Ter,ENST00000585595,;MBD1,stop_gained,p.Glu427Ter,ENST00000347968,;MBD1,stop_gained,p.Glu483Ter,ENST00000269468,;MBD1,stop_gained,p.Glu452Ter,ENST00000398495,;MBD1,stop_gained,p.Glu483Ter,ENST00000590208,;MBD1,stop_gained,p.Glu427Ter,ENST00000398493,;MBD1,stop_gained,p.Glu433Ter,ENST00000585672,;MBD1,stop_gained,p.Glu508Ter,ENST00000457839,;MBD1,stop_gained,p.Glu434Ter,ENST00000353909,;MBD1,stop_gained,p.Glu483Ter,ENST00000382948,;MBD1,stop_gained,p.Glu483Ter,ENST00000591416,;MBD1,stop_gained,p.Glu534Ter,ENST00000424334,;MBD1,intron_variant,,ENST00000588937,;MBD1,intron_variant,,ENST00000587605,;MBD1,intron_variant,,ENST00000269471,;MBD1,intron_variant,,ENST00000589541,;MBD1,intron_variant,,ENST00000591535,;MBD1,intron_variant,,ENST00000592060,;MBD1,intron_variant,,ENST00000339998,;MBD1,intron_variant,,ENST00000436910,;MBD1,intron_variant,,ENST00000349085,;MBD1,intron_variant,,ENST00000398488,;MBD1,downstream_gene_variant,,ENST00000589733,;MBD1,downstream_gene_variant,,ENST00000589867,;MBD1,upstream_gene_variant,,ENST00000586884,;MBD1,downstream_gene_variant,,ENST00000586679,;MBD1,downstream_gene_variant,,ENST00000591661,;MBD1,downstream_gene_variant,,ENST00000590215,;MBD1,downstream_gene_variant,,ENST00000586118,;	A	ENSG00000141644	ENST00000590208	Transcript	stop_gained	1794	1447	483	E/*	Gag/Tag	.	.	.	-1	MBD1	HGNC	6916	protein_coding	YES	CCDS59320.1	ENSP00000468785	.	K7ESN0_HUMAN	UPI0001F995B6	.	.	.	13/16	.	hmmpanther:PTHR12396,hmmpanther:PTHR12396:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCCTGCG	.	5	BLCA
POLI	0	.	GRCh37	18	51820801	51820801	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2187G>T	p.Lys729Asn	p.K729N	ENST00000579534	10/10	73	42	30	32	32	0	POLI,missense_variant,p.Lys626Asn,ENST00000579434,;POLI,missense_variant,p.Lys650Asn,ENST00000406285,;POLI,missense_variant,p.Lys729Asn,ENST00000579534,;POLI,missense_variant,p.Lys603Asn,ENST00000217800,;POLI,intron_variant,,ENST00000579823,;POLI,downstream_gene_variant,,ENST00000582366,;POLI,3_prime_UTR_variant,,ENST00000585023,;POLI,downstream_gene_variant,,ENST00000581950,;POLI,downstream_gene_variant,,ENST00000577727,;POLI,downstream_gene_variant,,ENST00000577361,;	T	ENSG00000101751	ENST00000579534	Transcript	missense_variant	2330	2187	729	K/N	aaG/aaT	.	.	.	1	POLI	HGNC	9182	protein_coding	YES	CCDS11954.2	ENSP00000462664	POLI_HUMAN	J3QQZ8_HUMAN,J3KTN3_HUMAN,J3KSW2_HUMAN,J3KRS8_HUMAN,J3KRG0_HUMAN	UPI00004DDD95	.	deleterious(0)	possibly_damaging(0.791)	10/10	.	hmmpanther:PTHR11076:SF10,hmmpanther:PTHR11076	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGAGAGC	.	5	BLCA
CDH7	0	.	GRCh37	18	63547879	63547879	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2107G>C	p.Asp703His	p.D703H	ENST00000397968	12/12	225	142	83	103	103	0	CDH7,missense_variant,p.Asp703His,ENST00000397968,;CDH7,missense_variant,p.Asp703His,ENST00000323011,;	C	ENSG00000081138	ENST00000397968	Transcript	missense_variant	2533	2107	703	D/H	Gat/Cat	.	.	.	1	CDH7	HGNC	1766	protein_coding	YES	CCDS11993.1	ENSP00000381058	CADH7_HUMAN	.	UPI000013D269	.	deleterious(0)	benign(0.035)	12/12	.	hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF91,Gene3D:4.10.900.10,Pfam_domain:PF01049	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGATAAT	.	5	BLCA
LAMA1	0	.	GRCh37	18	6985581	6985581	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5441G>C	p.Arg1814Thr	p.R1814T	ENST00000389658	38/63	225	144	80	95	95	0	LAMA1,missense_variant,p.Arg1814Thr,ENST00000389658,;LAMA1,non_coding_transcript_exon_variant,,ENST00000579014,;	G	ENSG00000101680	ENST00000389658	Transcript	missense_variant	5535	5441	1814	R/T	aGa/aCa	.	.	.	-1	LAMA1	HGNC	6481	protein_coding	YES	CCDS32787.1	ENSP00000374309	LAMA1_HUMAN	Q7Z5W6_HUMAN,Q6P6D3_HUMAN	UPI00001C1FF9	.	tolerated(0.43)	benign(0.021)	38/63	.	hmmpanther:PTHR10574:SF38,hmmpanther:PTHR10574,Pfam_domain:PF06008	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCTTCCT	.	5	BLCA
HMHA1	0	.	GRCh37	19	1081901	1081901	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2506G>A	p.Glu836Lys	p.E836K	ENST00000539243	19/23	29	14	14	17	17	0	HMHA1,missense_variant,p.Glu820Lys,ENST00000313093,;HMHA1,missense_variant,p.Glu847Lys,ENST00000590214,;HMHA1,missense_variant,p.Glu455Lys,ENST00000590577,;HMHA1,missense_variant,p.Glu836Lys,ENST00000539243,;HMHA1,missense_variant,p.Glu824Lys,ENST00000586866,;HMHA1,missense_variant,p.Glu703Lys,ENST00000543365,;HMHA1,missense_variant,p.Glu688Lys,ENST00000536472,;POLR2E,downstream_gene_variant,,ENST00000586746,;HMHA1,upstream_gene_variant,,ENST00000591169,;POLR2E,downstream_gene_variant,,ENST00000590060,;HMHA1,upstream_gene_variant,,ENST00000590512,;HMHA1,3_prime_UTR_variant,,ENST00000587602,;HMHA1,non_coding_transcript_exon_variant,,ENST00000586937,;HMHA1,upstream_gene_variant,,ENST00000592297,;HMHA1,upstream_gene_variant,,ENST00000586378,;HMHA1,downstream_gene_variant,,ENST00000591293,;	A	ENSG00000180448	ENST00000539243	Transcript	missense_variant	2609	2506	836	E/K	Gag/Aag	.	.	.	1	HMHA1	HGNC	17102	protein_coding	YES	CCDS58637.1	ENSP00000439601	HMHA1_HUMAN	O78181_HUMAN	UPI0001AE63E1	.	deleterious(0)	probably_damaging(0.964)	19/23	.	PROSITE_profiles:PS50238,hmmpanther:PTHR15228:SF18,hmmpanther:PTHR15228,Gene3D:1.10.555.10,Pfam_domain:PF00620,SMART_domains:SM00324,Superfamily_domains:SSF48350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTCGAGCTG	.	5	BLCA
DNM2	0	.	GRCh37	19	10887858	10887863	+	In_Frame_Del	DEL	CGTCTT	CGTCTT	-	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	CGTCTT	CGTCTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.654_659delCGTCTT	p.Asp218_Leu220delinsGlu	p.D218_L220delinsE	ENST00000389253	5/21	98	61	37	58	58	0	DNM2,inframe_deletion,p.Asp218_Leu220delinsGlu,ENST00000355667,;DNM2,inframe_deletion,p.Asp218_Leu220delinsGlu,ENST00000359692,;DNM2,inframe_deletion,p.Asp218_Leu220delinsGlu,ENST00000314646,;DNM2,inframe_deletion,p.Asp218_Leu220delinsGlu,ENST00000585892,;DNM2,inframe_deletion,p.Asp218_Leu220delinsGlu,ENST00000408974,;DNM2,inframe_deletion,p.Asp218_Leu220delinsGlu,ENST00000389253,;DNM2,downstream_gene_variant,,ENST00000586939,;MIR4748,upstream_gene_variant,,ENST00000578076,;DNM2,non_coding_transcript_exon_variant,,ENST00000591819,;DNM2,downstream_gene_variant,,ENST00000591266,;DNM2,upstream_gene_variant,,ENST00000591118,;DNM2,downstream_gene_variant,,ENST00000587991,;DNM2,upstream_gene_variant,,ENST00000587485,;DNM2,non_coding_transcript_exon_variant,,ENST00000591701,;	-	ENSG00000079805	ENST00000389253	Transcript	inframe_deletion	766-771	654-659	218-220	DVL/E	gaCGTCTTg/gag	.	.	.	1	DNM2	HGNC	2974	protein_coding	YES	CCDS45969.1	ENSP00000373905	DYN2_HUMAN	Q8N1K8_HUMAN,K7EPK9_HUMAN	UPI000049A626	.	.	.	5/21	.	Prints_domain:PR00195,Superfamily_domains:SSF52540,SMART_domains:SM00053,Gene3D:3.40.50.300,Pfam_domain:PF01031,hmmpanther:PTHR11566:SF23,hmmpanther:PTHR11566,PROSITE_profiles:PS51718	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGGGACGTCTTGGAGA	.	3	BLCA
YIPF2	0	.	GRCh37	19	11034075	11034075	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.843C>G	p.Phe281Leu	p.F281L	ENST00000586748	9/10	112	74	37	72	72	0	YIPF2,missense_variant,p.Phe88Leu,ENST00000586575,;YIPF2,missense_variant,p.Phe281Leu,ENST00000586748,;YIPF2,missense_variant,p.Phe44Leu,ENST00000591872,;YIPF2,missense_variant,p.Ser138Cys,ENST00000589971,;YIPF2,missense_variant,p.Phe281Leu,ENST00000253031,;YIPF2,missense_variant,p.Phe242Leu,ENST00000590329,;YIPF2,missense_variant,p.Phe134Leu,ENST00000592646,;YIPF2,downstream_gene_variant,,ENST00000585858,;CARM1,downstream_gene_variant,,ENST00000327064,;YIPF2,downstream_gene_variant,,ENST00000587943,;YIPF2,downstream_gene_variant,,ENST00000588347,;CARM1,downstream_gene_variant,,ENST00000344150,;CARM1,downstream_gene_variant,,ENST00000586298,;YIPF2,downstream_gene_variant,,ENST00000588962,;CARM1,downstream_gene_variant,,ENST00000586221,;CARM1,downstream_gene_variant,,ENST00000592516,;YIPF2,downstream_gene_variant,,ENST00000592505,;CARM1,downstream_gene_variant,,ENST00000590699,;CARM1,downstream_gene_variant,,ENST00000586508,;	C	ENSG00000130733	ENST00000586748	Transcript	missense_variant	1016	843	281	F/L	ttC/ttG	.	.	.	-1	YIPF2	HGNC	28476	protein_coding	YES	CCDS12251.1	ENSP00000466055	YIPF2_HUMAN	K7ERW0_HUMAN,K7EM92_HUMAN,K7EL70_HUMAN,K7EJN9_HUMAN	UPI00000729B3	.	deleterious(0)	possibly_damaging(0.619)	9/10	.	hmmpanther:PTHR12822:SF3,hmmpanther:PTHR12822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGAAGAAGTA	.	3	BLCA
DOCK6	0	.	GRCh37	19	11313334	11313334	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5287G>A	p.Asp1763Asn	p.D1763N	ENST00000294618	42/48	250	148	101	123	123	0	DOCK6,missense_variant,p.Asp80Asn,ENST00000588666,;DOCK6,missense_variant,p.Asp1052Asn,ENST00000587656,;DOCK6,missense_variant,p.Asp1763Asn,ENST00000294618,;DOCK6,missense_variant,p.Asp1102Asn,ENST00000319867,;DOCK6,upstream_gene_variant,,ENST00000587734,;CTC-510F12.2,upstream_gene_variant,,ENST00000588634,;DOCK6,non_coding_transcript_exon_variant,,ENST00000586702,;DOCK6,downstream_gene_variant,,ENST00000592463,;KANK2,upstream_gene_variant,,ENST00000590400,;	T	ENSG00000130158	ENST00000294618	Transcript	missense_variant	5299	5287	1763	D/N	Gac/Aac	.	.	.	-1	DOCK6	HGNC	19189	protein_coding	YES	CCDS45975.1	ENSP00000294618	DOCK6_HUMAN	.	UPI000059D66F	.	deleterious(0)	probably_damaging(0.979)	42/48	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF65,PROSITE_profiles:PS51651	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTCACCGA	.	5	BLCA
DOCK6	0	.	GRCh37	19	11362826	11362826	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.476C>T	p.Ser159Phe	p.S159F	ENST00000294618	5/48	15	8	7	9	9	0	DOCK6,missense_variant,p.Ser159Phe,ENST00000294618,;DOCK6,non_coding_transcript_exon_variant,,ENST00000585609,;DOCK6,downstream_gene_variant,,ENST00000586482,;DOCK6,downstream_gene_variant,,ENST00000587572,;	A	ENSG00000130158	ENST00000294618	Transcript	missense_variant	488	476	159	S/F	tCt/tTt	.	.	.	-1	DOCK6	HGNC	19189	protein_coding	YES	CCDS45975.1	ENSP00000294618	DOCK6_HUMAN	.	UPI000059D66F	.	deleterious(0.05)	benign(0.078)	5/48	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF65	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCAGAAGCA	.	5	BLCA
CNN1	0	.	GRCh37	19	11660659	11660659	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*49C>G	.	.	ENST00000252456	7/7	73	47	25	56	56	0	CNN1,3_prime_UTR_variant,,ENST00000587087,;CNN1,3_prime_UTR_variant,,ENST00000252456,;CNN1,3_prime_UTR_variant,,ENST00000544952,;CNN1,3_prime_UTR_variant,,ENST00000592923,;CNN1,3_prime_UTR_variant,,ENST00000535659,;CNN1,intron_variant,,ENST00000588935,;ELOF1,downstream_gene_variant,,ENST00000586120,;ELOF1,downstream_gene_variant,,ENST00000586683,;ELOF1,downstream_gene_variant,,ENST00000252445,;ELOF1,downstream_gene_variant,,ENST00000591674,;ELOF1,downstream_gene_variant,,ENST00000589171,;ELOF1,downstream_gene_variant,,ENST00000591912,;CNN1,downstream_gene_variant,,ENST00000586059,;ELOF1,downstream_gene_variant,,ENST00000587806,;CNN1,downstream_gene_variant,,ENST00000586577,;CNN1,downstream_gene_variant,,ENST00000592338,;ELOF1,downstream_gene_variant,,ENST00000590700,;	G	ENSG00000130176	ENST00000252456	Transcript	3_prime_UTR_variant	1154	.	.	.	.	.	.	.	1	CNN1	HGNC	2155	protein_coding	YES	CCDS12263.1	ENSP00000252456	CNN1_HUMAN	K7ENC5_HUMAN,B7Z7E1_HUMAN	UPI0000127AE3	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCTTGGC	.	5	BLCA
CNN1	0	.	GRCh37	19	11660729	11660729	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*119C>T	.	.	ENST00000252456	7/7	26	17	9	11	11	0	CNN1,3_prime_UTR_variant,,ENST00000587087,;CNN1,3_prime_UTR_variant,,ENST00000252456,;CNN1,3_prime_UTR_variant,,ENST00000592923,;CNN1,3_prime_UTR_variant,,ENST00000535659,;CNN1,intron_variant,,ENST00000588935,;ELOF1,downstream_gene_variant,,ENST00000586120,;ELOF1,downstream_gene_variant,,ENST00000586683,;ELOF1,downstream_gene_variant,,ENST00000252445,;ELOF1,downstream_gene_variant,,ENST00000591674,;ELOF1,downstream_gene_variant,,ENST00000589171,;ELOF1,downstream_gene_variant,,ENST00000591912,;CNN1,downstream_gene_variant,,ENST00000544952,;CNN1,downstream_gene_variant,,ENST00000586059,;ELOF1,downstream_gene_variant,,ENST00000587806,;CNN1,downstream_gene_variant,,ENST00000586577,;CNN1,downstream_gene_variant,,ENST00000592338,;ELOF1,downstream_gene_variant,,ENST00000590700,;	T	ENSG00000130176	ENST00000252456	Transcript	3_prime_UTR_variant	1224	.	.	.	.	.	.	.	1	CNN1	HGNC	2155	protein_coding	YES	CCDS12263.1	ENSP00000252456	CNN1_HUMAN	K7ENC5_HUMAN,B7Z7E1_HUMAN	UPI0000127AE3	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTCAACCT	.	5	BLCA
FARSA	0	.	GRCh37	19	13035075	13035075	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1278G>A	p.%3D	p.L426L	ENST00000314606	12/13	125	92	33	75	75	0	FARSA,synonymous_variant,p.%3D,ENST00000593021,;FARSA,synonymous_variant,p.%3D,ENST00000588025,;FARSA,synonymous_variant,p.%3D,ENST00000314606,;FARSA,synonymous_variant,p.%3D,ENST00000423140,;FARSA,intron_variant,,ENST00000587488,;SYCE2,upstream_gene_variant,,ENST00000293695,;MIR5695,downstream_gene_variant,,ENST00000579717,;FARSA,3_prime_UTR_variant,,ENST00000586146,;FARSA,non_coding_transcript_exon_variant,,ENST00000588965,;FARSA,downstream_gene_variant,,ENST00000592662,;FARSA,downstream_gene_variant,,ENST00000586280,;	T	ENSG00000179115	ENST00000314606	Transcript	synonymous_variant	1297	1278	426	L	ctG/ctA	.	.	.	-1	FARSA	HGNC	3592	protein_coding	YES	CCDS12287.1	ENSP00000320309	SYFA_HUMAN	Q6IBR2_HUMAN	UPI0000136413	.	.	.	12/13	.	Superfamily_domains:SSF55681,Gene3D:3.30.930.10,Pfam_domain:PF01409,TIGRFAM_domain:TIGR00468,hmmpanther:PTHR11538:SF15,hmmpanther:PTHR11538,PROSITE_profiles:PS50862	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAGGCC	.	5	BLCA
MUM1	0	.	GRCh37	19	1376552	1376552	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113G>T	p.Glu705Ter	p.E705*	ENST00000344663	14/14	128	86	42	77	77	0	MUM1,stop_gained,p.Glu705Ter,ENST00000591806,;MUM1,stop_gained,p.Glu705Ter,ENST00000344663,;MUM1,stop_gained,p.Glu636Ter,ENST00000311401,;MUM1,3_prime_UTR_variant,,ENST00000415183,;AC004623.2,downstream_gene_variant,,ENST00000589673,;AC004623.2,downstream_gene_variant,,ENST00000587059,;MUM1,non_coding_transcript_exon_variant,,ENST00000588888,;MUM1,non_coding_transcript_exon_variant,,ENST00000591453,;MUM1,non_coding_transcript_exon_variant,,ENST00000586067,;MUM1,3_prime_UTR_variant,,ENST00000587460,;MUM1,non_coding_transcript_exon_variant,,ENST00000591627,;	T	ENSG00000160953	ENST00000344663	Transcript	stop_gained	2214	2113	705	E/*	Gag/Tag	.	.	.	1	MUM1	HGNC	29641	protein_coding	YES	CCDS12062.1	ENSP00000345789	.	K7EP97_HUMAN,K7END0_HUMAN,J3KNX4_HUMAN	UPI00001A95DB	.	.	.	14/14	.	hmmpanther:PTHR31333,hmmpanther:PTHR31333:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAGAGCGG	.	5	BLCA
C19orf53	0	.	GRCh37	19	13888913	13888913	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201G>A	p.Met67Ile	p.M67I	ENST00000588234	3/3	146	96	50	101	100	0	C19orf53,missense_variant,p.Met24Ile,ENST00000593274,;C19orf53,missense_variant,p.Met67Ile,ENST00000588234,;C19orf53,missense_variant,p.Met48Ile,ENST00000221576,;AC008686.1,downstream_gene_variant,,ENST00000397557,;MRI1,downstream_gene_variant,,ENST00000319545,;CTB-5E10.3,upstream_gene_variant,,ENST00000586894,;CTB-5E10.3,upstream_gene_variant,,ENST00000591826,;CTB-5E10.3,upstream_gene_variant,,ENST00000586297,;C19orf53,3_prime_UTR_variant,,ENST00000592760,;C19orf53,3_prime_UTR_variant,,ENST00000588841,;C19orf53,3_prime_UTR_variant,,ENST00000588858,;	A	ENSG00000104979	ENST00000588234	Transcript	missense_variant	511	201	67	M/I	atG/atA	.	.	.	1	C19orf53	HGNC	24991	protein_coding	YES	CCDS12298.1	ENSP00000465432	L10K_HUMAN	.	UPI000012E181	.	tolerated(0.11)	benign(0.22)	3/3	.	hmmpanther:PTHR16967,Pfam_domain:PF09495	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATGAAAGC	.	5	BLCA
CYP4F8	0	.	GRCh37	19	15740229	15740229	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3333C>T	.	.	ENST00000589787	9/9	12	9	3	9	9	0	CYP4F8,non_coding_transcript_exon_variant,,ENST00000589778,;CYP4F8,non_coding_transcript_exon_variant,,ENST00000441682,;CYP4F8,non_coding_transcript_exon_variant,,ENST00000589722,;CYP4F8,non_coding_transcript_exon_variant,,ENST00000325723,;CYP4F8,downstream_gene_variant,,ENST00000589019,;CYP4F8,downstream_gene_variant,,ENST00000443973,;CYP4F8,non_coding_transcript_exon_variant,,ENST00000590745,;CYP4F8,non_coding_transcript_exon_variant,,ENST00000585349,;CYP4F8,non_coding_transcript_exon_variant,,ENST00000589787,;CYP4F8,downstream_gene_variant,,ENST00000589927,;	T	ENSG00000186526	ENST00000589787	Transcript	non_coding_transcript_exon_variant	3333	.	.	.	.	.	.	.	1	CYP4F8	HGNC	2648	retained_intron	YES	.	.	.	.	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTTCAGATT	.	2	BLCA
ZNF90	0	.	GRCh37	19	20229375	20229375	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1012G>C	p.Glu338Gln	p.E338Q	ENST00000418063	4/4	114	69	45	56	56	0	ZNF90,missense_variant,p.Glu338Gln,ENST00000418063,;ZNF90,intron_variant,,ENST00000474284,;ZNF90,intron_variant,,ENST00000469078,;ZNF90,upstream_gene_variant,,ENST00000484032,;ZNF90,downstream_gene_variant,,ENST00000473524,;	C	ENSG00000213988	ENST00000418063	Transcript	missense_variant	1124	1012	338	E/Q	Gag/Cag	.	.	.	1	ZNF90	HGNC	13165	protein_coding	YES	CCDS46028.1	ENSP00000410466	ZNF90_HUMAN	.	UPI00002376E6	.	deleterious(0.01)	probably_damaging(0.918)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF92,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGAGAAA	.	5	BLCA
ZNF90	0	.	GRCh37	19	20229527	20229527	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1164G>C	p.Lys388Asn	p.K388N	ENST00000418063	4/4	59	38	20	35	35	0	ZNF90,missense_variant,p.Lys388Asn,ENST00000418063,;ZNF90,intron_variant,,ENST00000474284,;ZNF90,intron_variant,,ENST00000469078,;ZNF90,upstream_gene_variant,,ENST00000484032,;ZNF90,downstream_gene_variant,,ENST00000473524,;	C	ENSG00000213988	ENST00000418063	Transcript	missense_variant	1276	1164	388	K/N	aaG/aaC	.	.	.	1	ZNF90	HGNC	13165	protein_coding	YES	CCDS46028.1	ENSP00000410466	ZNF90_HUMAN	.	UPI00002376E6	.	deleterious(0.02)	possibly_damaging(0.728)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF92,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAAGATAAG	.	5	BLCA
ZNF430	0	.	GRCh37	19	21239683	21239683	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569C>G	p.Ser190Ter	p.S190*	ENST00000261560	5/5	71	47	24	50	50	0	ZNF430,stop_gained,p.Ser190Ter,ENST00000261560,;ZNF430,downstream_gene_variant,,ENST00000599548,;ZNF430,upstream_gene_variant,,ENST00000597922,;AC012627.1,downstream_gene_variant,,ENST00000578233,;	G	ENSG00000118620	ENST00000261560	Transcript	stop_gained	750	569	190	S/*	tCa/tGa	.	.	.	1	ZNF430	HGNC	20808	protein_coding	YES	CCDS32978.1	ENSP00000261560	ZN430_HUMAN	Q69YQ2_HUMAN,Q2NKJ9_HUMAN	UPI000020389E	.	.	.	5/5	.	hmmpanther:PTHR24384:SF41,hmmpanther:PTHR24384	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCAAATC	.	5	BLCA
ZNF675	0	.	GRCh37	19	23869830	23869830	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3+3G>A	.	.	ENST00000359788	.	157	108	48	74	74	0	ZNF675,splice_region_variant,,ENST00000359788,;ZNF675,splice_region_variant,,ENST00000601010,;ZNF675,splice_region_variant,,ENST00000601935,;ZNF675,splice_region_variant,,ENST00000596211,;ZNF675,splice_region_variant,,ENST00000600313,;ZNF675,splice_region_variant,,ENST00000599168,;ZNF675,upstream_gene_variant,,ENST00000599535,;ZNF675,splice_region_variant,,ENST00000597074,;	T	ENSG00000197372	ENST00000359788	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	ZNF675	HGNC	30768	protein_coding	YES	CCDS32981.1	ENSP00000352836	ZN675_HUMAN	M0R373_HUMAN	UPI0000203902	.	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCACCAT	.	4	BLCA
GNA15	0	.	GRCh37	19	3155896	3155896	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.690C>T	p.%3D	p.I230I	ENST00000262958	5/7	61	35	26	40	40	0	GNA15,synonymous_variant,p.%3D,ENST00000262958,;AC005264.2,upstream_gene_variant,,ENST00000587587,;GNA15,downstream_gene_variant,,ENST00000592455,;GNA15,downstream_gene_variant,,ENST00000586082,;	T	ENSG00000060558	ENST00000262958	Transcript	synonymous_variant	948	690	230	I	atC/atT	.	.	.	1	GNA15	HGNC	4383	protein_coding	YES	CCDS12104.1	ENSP00000262958	GNA15_HUMAN	.	UPI000013D36D	.	.	.	5/7	.	hmmpanther:PTHR10218,hmmpanther:PTHR10218:SF50,Pfam_domain:PF00503,Gene3D:3.40.50.300,SMART_domains:SM00275,Superfamily_domains:SSF52540,Prints_domain:PR00318	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCTACCT	.	5	BLCA
PDCD2L	0	.	GRCh37	19	34912448	34912448	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.822C>G	p.%3D	p.L274L	ENST00000246535	6/7	399	252	146	191	191	0	PDCD2L,synonymous_variant,p.%3D,ENST00000246535,;PDCD2L,5_prime_UTR_variant,,ENST00000587065,;CTD-2588C8.8,downstream_gene_variant,,ENST00000592220,;RN7SL154P,downstream_gene_variant,,ENST00000578043,;PDCD2L,non_coding_transcript_exon_variant,,ENST00000587385,;PDCD2L,non_coding_transcript_exon_variant,,ENST00000589589,;PDCD2L,non_coding_transcript_exon_variant,,ENST00000585821,;	G	ENSG00000126249	ENST00000246535	Transcript	synonymous_variant	869	822	274	L	ctC/ctG	.	.	.	1	PDCD2L	HGNC	28194	protein_coding	YES	CCDS12438.1	ENSP00000246535	PDD2L_HUMAN	U3KQL1_HUMAN	UPI0000038A65	.	.	.	6/7	.	hmmpanther:PTHR12298,Pfam_domain:PF04194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCTTTTT	.	5	BLCA
ZNF529	0	.	GRCh37	19	37038988	37038988	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.472C>G	p.Leu158Val	p.L158V	ENST00000591340	5/5	138	80	57	75	75	0	ZNF529,missense_variant,p.Leu158Val,ENST00000591340,;ZNF529,missense_variant,p.Leu53Val,ENST00000334116,;ZNF529,upstream_gene_variant,,ENST00000590656,;ZNF529,downstream_gene_variant,,ENST00000586115,;ZNF529,upstream_gene_variant,,ENST00000452073,;ZNF529,downstream_gene_variant,,ENST00000585960,;ZNF529,downstream_gene_variant,,ENST00000585983,;	C	ENSG00000186020	ENST00000591340	Transcript	missense_variant	631	472	158	L/V	Ctt/Gtt	.	.	.	-1	ZNF529	HGNC	29328	protein_coding	YES	CCDS54256.1	ENSP00000465578	ZN529_HUMAN	K7ESA1_HUMAN,K7ELR0_HUMAN,K7EKM0_HUMAN	UPI00002021C4	.	tolerated(0.05)	benign(0.008)	5/5	.	hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF123,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTAAGAGATT	.	5	BLCA
ZNF345	0	.	GRCh37	19	37368114	37368114	+	Missense_Mutation	SNP	G	G	C	rs768983421	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382G>C	p.Gly128Arg	p.G128R	ENST00000529555	2/2	166	110	56	83	83	0	ZNF345,missense_variant,p.Gly128Arg,ENST00000585396,;ZNF345,missense_variant,p.Gly128Arg,ENST00000589046,;ZNF345,missense_variant,p.Gly128Arg,ENST00000529555,;ZNF345,missense_variant,p.Gly128Arg,ENST00000420450,;ZNF345,intron_variant,,ENST00000526123,;ZNF345,intron_variant,,ENST00000586933,;ZNF345,downstream_gene_variant,,ENST00000331800,;ZNF345,downstream_gene_variant,,ENST00000532141,;ZNF345,downstream_gene_variant,,ENST00000586646,;ZNF345,intron_variant,,ENST00000525851,;ZNF345,intron_variant,,ENST00000432005,;ZNF345,intron_variant,,ENST00000534729,;ZNF345,intron_variant,,ENST00000529989,;	C	ENSG00000251247	ENST00000529555	Transcript	missense_variant	1170	382	128	G/R	Ggt/Cgt	rs768983421	.	.	1	ZNF345	HGNC	16367	protein_coding	YES	CCDS12497.1	ENSP00000431202	ZN345_HUMAN	K7EM63_HUMAN,K7EKZ8_HUMAN,F8W8R5_HUMAN,E9PLT7_HUMAN,B7Z4L5_HUMAN	UPI000013C364	.	tolerated(0.3)	benign(0.006)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF283,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTGGTAGT	byFrequency	5	BLCA
RYR1	0	.	GRCh37	19	39075595	39075595	+	Missense_Mutation	SNP	C	C	T	rs118192147	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14659C>T	p.His4887Tyr	p.H4887Y	ENST00000359596	102/106	79	57	22	37	37	0	RYR1,missense_variant,p.His4882Tyr,ENST00000355481,;RYR1,missense_variant,p.His4887Tyr,ENST00000359596,;RYR1,missense_variant,p.His4882Tyr,ENST00000360985,;MAP4K1,downstream_gene_variant,,ENST00000396857,;MAP4K1,downstream_gene_variant,,ENST00000589130,;MAP4K1,downstream_gene_variant,,ENST00000591517,;MAP4K1,downstream_gene_variant,,ENST00000586296,;MAP4K1,downstream_gene_variant,,ENST00000591921,;MAP4K1,downstream_gene_variant,,ENST00000593196,;MAP4K1,downstream_gene_variant,,ENST00000591210,;	T	ENSG00000196218	ENST00000359596	Transcript	missense_variant	14659	14659	4887	H/Y	Cac/Tac	CM073327,rs118192147	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	benign(0.126)	102/106	.	hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715,Pfam_domain:PF00520	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	.	17204937	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCACATG	byCluster	5	BLCA
EIF3K	0	.	GRCh37	19	39116716	39116716	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>C	p.Glu110Gln	p.E110Q	ENST00000248342	4/8	294	174	119	124	124	0	EIF3K,missense_variant,p.Glu77Gln,ENST00000591409,;EIF3K,missense_variant,p.Glu110Gln,ENST00000586513,;EIF3K,missense_variant,p.Glu23Gln,ENST00000589307,;EIF3K,missense_variant,p.Glu110Gln,ENST00000545173,;EIF3K,missense_variant,p.Glu23Gln,ENST00000538434,;EIF3K,missense_variant,p.Glu110Gln,ENST00000588934,;EIF3K,missense_variant,p.Glu110Gln,ENST00000592558,;EIF3K,missense_variant,p.Glu23Gln,ENST00000593149,;EIF3K,missense_variant,p.Glu110Gln,ENST00000248342,;EIF3K,non_coding_transcript_exon_variant,,ENST00000593062,;EIF3K,non_coding_transcript_exon_variant,,ENST00000588299,;EIF3K,non_coding_transcript_exon_variant,,ENST00000586932,;EIF3K,non_coding_transcript_exon_variant,,ENST00000588422,;	C	ENSG00000178982	ENST00000248342	Transcript	missense_variant	500	328	110	E/Q	Gag/Cag	.	.	.	1	EIF3K	HGNC	24656	protein_coding	YES	CCDS12517.1	ENSP00000248342	EIF3K_HUMAN	K7EK53_HUMAN	UPI000012D318	.	deleterious(0)	probably_damaging(0.968)	4/8	.	Superfamily_domains:SSF48371,Pfam_domain:PF10075,Gene3D:1rz4A01,hmmpanther:PTHR13022,HAMAP:MF_03010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGAGACC	.	5	BLCA
FBXO27	0	.	GRCh37	19	39521925	39521925	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.400G>T	p.Asp134Tyr	p.D134Y	ENST00000292853	3/6	86	55	31	61	61	0	FBXO27,missense_variant,p.Asp134Tyr,ENST00000509137,;FBXO27,missense_variant,p.Asp134Tyr,ENST00000292853,;FBXO27,missense_variant,p.Asp133Tyr,ENST00000600828,;FBXO27,incomplete_terminal_codon_variant,p.%3D,ENST00000593847,;FBXO27,upstream_gene_variant,,ENST00000598394,;CTB-189B5.3,non_coding_transcript_exon_variant,,ENST00000597303,;FBXO27,non_coding_transcript_exon_variant,,ENST00000594770,;FBXO27,non_coding_transcript_exon_variant,,ENST00000595166,;	A	ENSG00000161243	ENST00000292853	Transcript	missense_variant	520	400	134	D/Y	Gac/Tac	COSM3362845	.	.	-1	FBXO27	HGNC	18753	protein_coding	YES	CCDS12527.1	ENSP00000292853	FBX27_HUMAN	M0R1C3_HUMAN	UPI0000073006	.	deleterious(0.02)	probably_damaging(0.951)	3/6	.	PROSITE_profiles:PS51114,hmmpanther:PTHR12125,hmmpanther:PTHR12125:SF9,Pfam_domain:PF04300,Gene3D:2.60.120.260,Superfamily_domains:SSF49785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V137G|c.410T>G|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGTCCCCAC	.	5	BLCA
PLEKHG2	0	.	GRCh37	19	39914197	39914197	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2503G>A	p.Glu835Lys	p.E835K	ENST00000409794	18/19	23	16	7	9	9	0	PLEKHG2,missense_variant,p.Glu703Lys,ENST00000205135,;PLEKHG2,missense_variant,p.Glu806Lys,ENST00000425673,;PLEKHG2,missense_variant,p.Glu776Lys,ENST00000458508,;PLEKHG2,missense_variant,p.Glu44Lys,ENST00000600210,;PLEKHG2,missense_variant,p.Glu835Lys,ENST00000409794,;PLEKHG2,intron_variant,,ENST00000596443,;PLEKHG2,intron_variant,,ENST00000378550,;PLEKHG2,intron_variant,,ENST00000409797,;PLEKHG2,upstream_gene_variant,,ENST00000598238,;PLEKHG2,upstream_gene_variant,,ENST00000594161,;PLEKHG2,upstream_gene_variant,,ENST00000594124,;PLEKHG2,upstream_gene_variant,,ENST00000596339,;CTB-60E11.4,upstream_gene_variant,,ENST00000601124,;PLEKHG2,downstream_gene_variant,,ENST00000594307,;PLEKHG2,downstream_gene_variant,,ENST00000474449,;PLEKHG2,downstream_gene_variant,,ENST00000478523,;	A	ENSG00000090924	ENST00000409794	Transcript	missense_variant	3353	2503	835	E/K	Gag/Aag	.	.	.	1	PLEKHG2	HGNC	29515	protein_coding	YES	CCDS33022.2	ENSP00000386733	PKHG2_HUMAN	.	UPI00001C2028	.	deleterious_low_confidence(0)	probably_damaging(0.971)	18/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGCGGAGACT	.	3	BLCA
LGALS13	0	.	GRCh37	19	40098021	40098021	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*42C>G	.	.	ENST00000221797	4/4	84	53	30	51	51	0	LGALS13,3_prime_UTR_variant,,ENST00000221797,;LGALS13,downstream_gene_variant,,ENST00000600141,;LGALS13,non_coding_transcript_exon_variant,,ENST00000600546,;	G	ENSG00000105198	ENST00000221797	Transcript	3_prime_UTR_variant	507	.	.	.	.	.	.	.	1	LGALS13	HGNC	15449	protein_coding	YES	CCDS33024.1	ENSP00000221797	PP13_HUMAN	Q1M314_HUMAN	UPI0000032F23	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTACCT	.	5	BLCA
ANKRD24	0	.	GRCh37	19	4207244	4207244	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.472G>A	p.Gly158Ser	p.G158S	ENST00000600132	8/22	46	27	19	29	29	0	ANKRD24,missense_variant,p.Gly248Ser,ENST00000262970,;ANKRD24,missense_variant,p.Gly158Ser,ENST00000600132,;ANKRD24,missense_variant,p.Gly129Ser,ENST00000597689,;ANKRD24,missense_variant,p.Gly158Ser,ENST00000318934,;RN7SL84P,upstream_gene_variant,,ENST00000578969,;ANKRD24,upstream_gene_variant,,ENST00000595096,;ANKRD24,synonymous_variant,p.%3D,ENST00000595928,;	A	ENSG00000089847	ENST00000600132	Transcript	missense_variant	748	472	158	G/S	Ggt/Agt	.	.	.	1	ANKRD24	HGNC	29424	protein_coding	YES	CCDS45925.1	ENSP00000471252	ANR24_HUMAN	.	UPI000041F5A9	.	tolerated(0.67)	probably_damaging(0.934)	8/22	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24137,hmmpanther:PTHR24137:SF8,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTGGTGGC	.	5	BLCA
CIC	0	.	GRCh37	19	42793997	42793997	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1361-3C>T	.	.	ENST00000575354	.	17	8	9	10	10	0	CIC,splice_region_variant,,ENST00000575354,;CIC,splice_region_variant,,ENST00000572681,;CIC,splice_region_variant,,ENST00000160740,;CIC,upstream_gene_variant,,ENST00000576505,;CIC,upstream_gene_variant,,ENST00000573349,;CIC,downstream_gene_variant,,ENST00000575839,;CIC,upstream_gene_variant,,ENST00000575287,;CIC,upstream_gene_variant,,ENST00000571033,;	T	ENSG00000079432	ENST00000575354	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	.	.	8/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TCCCTCAGCTG	.	3	BLCA
ZNF227	0	.	GRCh37	19	44739864	44739864	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1281G>A	p.%3D	p.Q427Q	ENST00000313040	6/6	150	99	51	94	94	0	ZNF227,synonymous_variant,p.%3D,ENST00000589005,;ZNF227,synonymous_variant,p.%3D,ENST00000313040,;ZNF227,synonymous_variant,p.%3D,ENST00000391961,;ZNF227,downstream_gene_variant,,ENST00000588394,;ZNF235,downstream_gene_variant,,ENST00000589799,;ZNF227,downstream_gene_variant,,ENST00000586228,;ZNF227,downstream_gene_variant,,ENST00000588219,;ZNF227,downstream_gene_variant,,ENST00000589707,;ZNF235,intron_variant,,ENST00000592844,;	A	ENSG00000131115	ENST00000313040	Transcript	synonymous_variant	1486	1281	427	Q	caG/caA	.	.	.	1	ZNF227	HGNC	13020	protein_coding	YES	CCDS12636.1	ENSP00000321049	ZN227_HUMAN	Q86WM4_HUMAN,Q658S5_HUMAN,K7EIL7_HUMAN,B7Z5P9_HUMAN	UPI000000DC17	.	.	.	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF121,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCAGAGAGT	.	5	BLCA
QPCTL	0	.	GRCh37	19	46202132	46202132	+	Missense_Mutation	SNP	G	G	A	rs758628165	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.860G>A	p.Arg287His	p.R287H	ENST00000012049	5/7	220	134	85	105	105	0	QPCTL,missense_variant,p.Arg193His,ENST00000366382,;QPCTL,missense_variant,p.Arg287His,ENST00000012049,;QPCTL,non_coding_transcript_exon_variant,,ENST00000592769,;QPCTL,downstream_gene_variant,,ENST00000591606,;	A	ENSG00000011478	ENST00000012049	Transcript	missense_variant	1081	860	287	R/H	cGc/cAc	rs758628165	.	.	1	QPCTL	HGNC	25952	protein_coding	YES	CCDS12672.1	ENSP00000012049	QPCTL_HUMAN	.	UPI000013C51F	.	deleterious(0.01)	benign(0.155)	5/7	.	hmmpanther:PTHR12283,hmmpanther:PTHR12283:SF3,Gene3D:3.40.630.10,Pfam_domain:PF04389,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCCGCTGGT	byFrequency	5	BLCA
RSPH6A	0	.	GRCh37	19	46307533	46307533	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1630C>T	p.His544Tyr	p.H544Y	ENST00000221538	3/6	102	60	41	46	46	0	RSPH6A,missense_variant,p.His280Tyr,ENST00000600188,;RSPH6A,missense_variant,p.His544Tyr,ENST00000597055,;RSPH6A,missense_variant,p.His544Tyr,ENST00000221538,;	A	ENSG00000104941	ENST00000221538	Transcript	missense_variant	1773	1630	544	H/Y	Cac/Tac	.	.	.	-1	RSPH6A	HGNC	14241	protein_coding	YES	CCDS12675.1	ENSP00000221538	RSH6A_HUMAN	M0R103_HUMAN	UPI0000037C58	.	deleterious(0.01)	benign(0.151)	3/6	.	hmmpanther:PTHR13159,hmmpanther:PTHR13159:SF1,Pfam_domain:PF04712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGTGATGCA	.	5	BLCA
ZNF114	0	.	GRCh37	19	48789265	48789265	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384G>A	p.Met128Ile	p.M128I	ENST00000595607	6/6	140	85	54	69	69	0	ZNF114,missense_variant,p.Met128Ile,ENST00000600687,;ZNF114,missense_variant,p.Met128Ile,ENST00000315849,;ZNF114,missense_variant,p.Met128Ile,ENST00000595607,;ZNF114,missense_variant,p.Met94Ile,ENST00000597695,;ZNF114,downstream_gene_variant,,ENST00000594024,;ZNF114,downstream_gene_variant,,ENST00000595408,;ZNF114,downstream_gene_variant,,ENST00000601320,;ZNF114,downstream_gene_variant,,ENST00000598898,;	A	ENSG00000178150	ENST00000595607	Transcript	missense_variant	878	384	128	M/I	atG/atA	.	.	.	1	ZNF114	HGNC	12894	protein_coding	YES	CCDS12713.1	ENSP00000469998	ZN114_HUMAN	Q8N4J1_HUMAN	UPI000007282E	.	tolerated(0.48)	benign(0)	6/6	.	hmmpanther:PTHR24384:SF6,hmmpanther:PTHR24384	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATGAGGAA	.	5	BLCA
IRF3	0	.	GRCh37	19	50168100	50168100	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-5G>A	.	.	ENST00000601291	2/8	68	50	18	37	37	0	IRF3,5_prime_UTR_variant,,ENST00000596756,;IRF3,5_prime_UTR_variant,,ENST00000600911,;IRF3,5_prime_UTR_variant,,ENST00000593337,;IRF3,5_prime_UTR_variant,,ENST00000309877,;IRF3,5_prime_UTR_variant,,ENST00000601809,;IRF3,5_prime_UTR_variant,,ENST00000600453,;IRF3,5_prime_UTR_variant,,ENST00000601291,;IRF3,5_prime_UTR_variant,,ENST00000599223,;IRF3,5_prime_UTR_variant,,ENST00000597198,;IRF3,5_prime_UTR_variant,,ENST00000377139,;IRF3,5_prime_UTR_variant,,ENST00000598108,;IRF3,intron_variant,,ENST00000598808,;IRF3,intron_variant,,ENST00000596765,;IRF3,intron_variant,,ENST00000600022,;IRF3,intron_variant,,ENST00000599144,;IRF3,intron_variant,,ENST00000596822,;IRF3,intron_variant,,ENST00000593922,;IRF3,intron_variant,,ENST00000593818,;IRF3,intron_variant,,ENST00000601373,;IRF3,intron_variant,,ENST00000595034,;IRF3,upstream_gene_variant,,ENST00000442265,;BCL2L12,upstream_gene_variant,,ENST00000598306,;BCL2L12,upstream_gene_variant,,ENST00000246785,;IRF3,upstream_gene_variant,,ENST00000377135,;BCL2L12,upstream_gene_variant,,ENST00000594157,;BCL2L12,upstream_gene_variant,,ENST00000600947,;BCL2L12,upstream_gene_variant,,ENST00000246784,;BCL2L12,upstream_gene_variant,,ENST00000441864,;IRF3,intron_variant,,ENST00000597180,;IRF3,upstream_gene_variant,,ENST00000599680,;IRF3,upstream_gene_variant,,ENST00000602190,;IRF3,5_prime_UTR_variant,,ENST00000597636,;IRF3,non_coding_transcript_exon_variant,,ENST00000594387,;IRF3,upstream_gene_variant,,ENST00000597369,;IRF3,upstream_gene_variant,,ENST00000596788,;BCL2L12,upstream_gene_variant,,ENST00000598979,;BCL2L12,upstream_gene_variant,,ENST00000601168,;IRF3,upstream_gene_variant,,ENST00000595240,;IRF3,upstream_gene_variant,,ENST00000596644,;	T	ENSG00000126456	ENST00000601291	Transcript	5_prime_UTR_variant	176	.	.	.	.	.	.	.	-1	IRF3	HGNC	6118	protein_coding	YES	CCDS59409.1	ENSP00000471896	IRF3_HUMAN	Q71U93_HUMAN,M0R205_HUMAN,M0R0X9_HUMAN,M0R0R8_HUMAN,M0R007_HUMAN,M0QYX3_HUMAN,M0QXC8_HUMAN	UPI000013CBFE	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTCCGGCCT	.	5	BLCA
ZNF614	0	.	GRCh37	19	52519104	52519104	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1747C>T	p.Pro583Ser	p.P583S	ENST00000270649	5/5	208	138	69	138	138	0	ZNF614,missense_variant,p.Pro583Ser,ENST00000270649,;ZNF614,intron_variant,,ENST00000356322,;ZNF614,downstream_gene_variant,,ENST00000597952,;ZNF614,downstream_gene_variant,,ENST00000595189,;	A	ENSG00000142556	ENST00000270649	Transcript	missense_variant	2292	1747	583	P/S	Cct/Tct	.	.	.	-1	ZNF614	HGNC	24722	protein_coding	YES	CCDS12847.1	ENSP00000270649	ZN614_HUMAN	M0QYG4_HUMAN	UPI0000202ADA	.	tolerated_low_confidence(0.17)	benign(0.012)	5/5	.	hmmpanther:PTHR24381:SF110,hmmpanther:PTHR24381	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAAGGAAGGA	.	5	BLCA
ZNF331	0	.	GRCh37	19	54081188	54081188	+	Missense_Mutation	SNP	G	G	C	rs61741983	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1374G>C	p.Gln458His	p.Q458H	ENST00000253144	7/7	52	33	18	25	25	0	ZNF331,missense_variant,p.Gln458His,ENST00000512387,;ZNF331,missense_variant,p.Gln458His,ENST00000511593,;ZNF331,missense_variant,p.Gln458His,ENST00000411977,;ZNF331,missense_variant,p.Gln458His,ENST00000449416,;ZNF331,missense_variant,p.Gln458His,ENST00000513999,;ZNF331,missense_variant,p.Gln458His,ENST00000511154,;ZNF331,missense_variant,p.Gln458His,ENST00000253144,;ZNF331,downstream_gene_variant,,ENST00000502616,;ZNF331,downstream_gene_variant,,ENST00000505949,;ZNF331,downstream_gene_variant,,ENST00000514374,;ZNF331,downstream_gene_variant,,ENST00000502248,;ZNF331,downstream_gene_variant,,ENST00000511567,;ZNF331,downstream_gene_variant,,ENST00000509585,;ZNF331,downstream_gene_variant,,ENST00000509047,;ZNF331,downstream_gene_variant,,ENST00000505426,;ZNF331,downstream_gene_variant,,ENST00000514022,;ZNF331,downstream_gene_variant,,ENST00000504493,;ZNF331,downstream_gene_variant,,ENST00000513265,;	C	ENSG00000130844	ENST00000253144	Transcript	missense_variant	2707	1374	458	Q/H	caG/caC	rs61741983	.	.	1	ZNF331	HGNC	15489	protein_coding	YES	CCDS33102.1	ENSP00000253144	ZN331_HUMAN	Q8NBU2_HUMAN,Q71QC9_HUMAN,Q71QC6_HUMAN,Q71QC5_HUMAN,Q71QC3_HUMAN,Q6PK05_HUMAN,E7EWU7_HUMAN,E7EV14_HUMAN,E7ETJ5_HUMAN,E7ERM8_HUMAN,E7EPT0_HUMAN,E7EPG5_HUMAN,E7ENR0_HUMAN,D6RH27_HUMAN	UPI0000039DC3	.	deleterious(0.03)	benign(0.057)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF13,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	A:0.0078	A:0.0272	A:0	.	A:0	A:0.003	A:0	A:0.0175	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCAGAGGAT	byFrequency|byCluster|by1000G	4	BLCA
KIR2DL1	0	.	GRCh37	19	55286732	55286732	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486G>A	p.%3D	p.R162R	ENST00000336077	4/8	115	37	78	81	81	0	KIR2DL1,synonymous_variant,p.%3D,ENST00000336077,;KIR2DL1,synonymous_variant,p.%3D,ENST00000291633,;KIR2DL4,intron_variant,,ENST00000396284,;KIR3DL1,intron_variant,,ENST00000541392,;KIR3DL1,intron_variant,,ENST00000538269,;KIR3DL1,intron_variant,,ENST00000402254,;KIR2DL3,intron_variant,,ENST00000434419,;CTB-61M7.1,intron_variant,,ENST00000400864,;	A	ENSG00000125498	ENST00000336077	Transcript	synonymous_variant	526	486	162	R	agG/agA	.	.	.	1	KIR2DL1	HGNC	6329	protein_coding	YES	CCDS12904.1	ENSP00000336769	KI2L1_HUMAN	Q6H2H4_HUMAN,Q6H2H3_HUMAN,K7R1R8_HUMAN	UPI00001195F7	.	.	.	4/8	.	Superfamily_domains:SSF48726,SMART_domains:SM00409,Pfam_domain:PF00047,Gene3D:2.60.40.10,hmmpanther:PTHR11738,hmmpanther:PTHR11738:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGGGAAGG	.	5	BLCA
KIR2DS4	0	.	GRCh37	19	55349087	55349087	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.127G>T	p.Glu43Ter	p.E43*	ENST00000339924	3/8	400	267	133	243	243	0	KIR3DL1,intron_variant,,ENST00000402254,;KIR2DS4,stop_gained,p.Glu43Ter,ENST00000391729,;KIR2DS4,stop_gained,p.Glu43Ter,ENST00000339924,;	T	ENSG00000221957	ENST00000339924	Transcript	stop_gained	216	127	43	E/*	Gag/Tag	.	.	.	1	KIR2DS4	HGNC	6336	polymorphic_pseudogene	YES	.	ENSP00000340011	.	Q8NHJ0_HUMAN,K7QX36_HUMAN	.	.	.	.	3/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGAGACA	.	5	BLCA
ZNF667	0	.	GRCh37	19	56953763	56953763	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>A	p.Glu201Lys	p.E201K	ENST00000504904	7/7	216	146	70	137	137	0	ZNF667,missense_variant,p.Glu329Lys,ENST00000342634,;ZNF667,missense_variant,p.Glu201Lys,ENST00000292069,;ZNF667,missense_variant,p.Glu201Lys,ENST00000504904,;ZNF667,3_prime_UTR_variant,,ENST00000591790,;ZNF667,downstream_gene_variant,,ENST00000587555,;ZNF667,3_prime_UTR_variant,,ENST00000592189,;	T	ENSG00000198046	ENST00000504904	Transcript	missense_variant	1321	601	201	E/K	Gaa/Aaa	.	.	.	-1	ZNF667	HGNC	28854	protein_coding	YES	CCDS12944.1	ENSP00000439402	ZN667_HUMAN	K7ERY5_HUMAN,K7EIE0_HUMAN	UPI0000202CEE	.	tolerated(0.17)	benign(0.009)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24390,hmmpanther:PTHR24390:SF46,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTCATGGC	.	5	BLCA
PEG3	0	.	GRCh37	19	57335750	57335750	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>C	p.Glu92Gln	p.E92Q	ENST00000326441	4/10	163	108	55	73	73	0	PEG3,missense_variant,p.Glu92Gln,ENST00000423103,;PEG3,missense_variant,p.Glu92Gln,ENST00000599534,;PEG3,missense_variant,p.Glu92Gln,ENST00000326441,;PEG3,missense_variant,p.Glu92Gln,ENST00000599577,;ZIM2,5_prime_UTR_variant,,ENST00000221722,;ZIM2,5_prime_UTR_variant,,ENST00000601070,;ZIM2,5_prime_UTR_variant,,ENST00000593711,;ZIM2,5_prime_UTR_variant,,ENST00000391708,;PEG3,5_prime_UTR_variant,,ENST00000600833,;ZIM2,5_prime_UTR_variant,,ENST00000599935,;PEG3,5_prime_UTR_variant,,ENST00000598410,;PEG3,5_prime_UTR_variant,,ENST00000593695,;PEG3,downstream_gene_variant,,ENST00000594389,;ZIM2,upstream_gene_variant,,ENST00000593931,;PEG3,non_coding_transcript_exon_variant,,ENST00000596261,;PEG3,non_coding_transcript_exon_variant,,ENST00000594706,;ZIM2,5_prime_UTR_variant,,ENST00000597281,;ZIM2,5_prime_UTR_variant,,ENST00000595671,;	G	ENSG00000198300	ENST00000326441	Transcript	missense_variant	638	274	92	E/Q	Gag/Cag	.	.	.	-1	PEG3	HGNC	8826	protein_coding	YES	CCDS12948.1	ENSP00000326581	PEG3_HUMAN	M0QXG1_HUMAN	UPI000006D36D	.	deleterious(0)	probably_damaging(0.966)	4/10	.	PROSITE_profiles:PS50804,hmmpanther:PTHR10032,hmmpanther:PTHR10032:SF78,Pfam_domain:PF02023,SMART_domains:SM00431,Superfamily_domains:SSF47353	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAAGGA	.	5	BLCA
ACER1	0	.	GRCh37	19	6333602	6333602	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-40C>G	.	.	ENST00000301452	1/6	19	9	10	9	9	0	ACER1,5_prime_UTR_variant,,ENST00000301452,;	C	ENSG00000167769	ENST00000301452	Transcript	5_prime_UTR_variant	39	.	.	.	.	.	.	.	-1	ACER1	HGNC	18356	protein_coding	YES	CCDS12161.1	ENSP00000301452	ACER1_HUMAN	.	UPI000003FD52	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGGCAGAGAGA	.	3	BLCA
ARHGEF18	0	.	GRCh37	19	7518556	7518556	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1495C>A	p.Leu499Met	p.L499M	ENST00000359920	7/20	111	78	33	54	54	0	ARHGEF18,missense_variant,p.Leu499Met,ENST00000359920,;ARHGEF18,missense_variant,p.Leu144Met,ENST00000594665,;ARHGEF18,missense_variant,p.Leu341Met,ENST00000319670,;CTD-2207O23.3,missense_variant,p.Leu457Met,ENST00000593531,;	A	ENSG00000104880	ENST00000359920	Transcript	missense_variant	1748	1495	499	L/M	Ctg/Atg	.	.	.	1	ARHGEF18	HGNC	17090	protein_coding	YES	CCDS45946.1	ENSP00000352995	ARHGI_HUMAN	M0R125_HUMAN	UPI0000D6170D	.	tolerated(0.16)	probably_damaging(0.962)	7/20	.	PROSITE_profiles:PS50003,hmmpanther:PTHR22825,hmmpanther:PTHR22825:SF9,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCACCTGGAG	.	5	BLCA
MCOLN1	0	.	GRCh37	19	7591392	7591392	+	Missense_Mutation	SNP	G	G	C	rs139377969	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305G>C	p.Arg102Pro	p.R102P	ENST00000264079	3/14	184	101	83	111	111	0	MCOLN1,missense_variant,p.Arg102Pro,ENST00000264079,;MCOLN1,missense_variant,p.Arg102Pro,ENST00000601003,;MCOLN1,upstream_gene_variant,,ENST00000599334,;MCOLN1,non_coding_transcript_exon_variant,,ENST00000596008,;MCOLN1,non_coding_transcript_exon_variant,,ENST00000394321,;MCOLN1,non_coding_transcript_exon_variant,,ENST00000598406,;MCOLN1,upstream_gene_variant,,ENST00000594692,;MCOLN1,upstream_gene_variant,,ENST00000595860,;MCOLN1,downstream_gene_variant,,ENST00000596390,;	C	ENSG00000090674	ENST00000264079	Transcript	missense_variant	430	305	102	R/P	cGa/cCa	rs139377969	.	.	1	MCOLN1	HGNC	13356	protein_coding	YES	CCDS12180.1	ENSP00000264079	MCLN1_HUMAN	B4DFZ1_HUMAN	UPI00000377A2	.	deleterious(0)	possibly_damaging(0.551)	3/14	.	hmmpanther:PTHR12127,hmmpanther:PTHR12127:SF6	A:0.0006	A:0	A:0	.	A:0	A:0.003	A:0	A:0.0002	A:0.0007	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCCGACACC	byFrequency|byCluster|by1000G	5	BLCA
PNPLA6	0	.	GRCh37	19	7619840	7619840	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2726G>A	p.Arg909Gln	p.R909Q	ENST00000414982	24/34	29	20	8	15	15	0	PNPLA6,missense_variant,p.Arg861Gln,ENST00000450331,;PNPLA6,missense_variant,p.Arg899Gln,ENST00000600737,;PNPLA6,missense_variant,p.Arg834Gln,ENST00000545201,;PNPLA6,missense_variant,p.Arg861Gln,ENST00000221249,;PNPLA6,missense_variant,p.Arg909Gln,ENST00000414982,;PNPLA6,upstream_gene_variant,,ENST00000599947,;PNPLA6,downstream_gene_variant,,ENST00000594864,;PNPLA6,downstream_gene_variant,,ENST00000595889,;PNPLA6,downstream_gene_variant,,ENST00000599951,;PNPLA6,upstream_gene_variant,,ENST00000595352,;PNPLA6,downstream_gene_variant,,ENST00000599311,;PNPLA6,downstream_gene_variant,,ENST00000595176,;	A	ENSG00000032444	ENST00000414982	Transcript	missense_variant	2921	2726	909	R/Q	cGa/cAa	.	.	.	1	PNPLA6	HGNC	16268	protein_coding	YES	CCDS54206.1	ENSP00000407509	PLPL6_HUMAN	.	UPI0001AE63FF	.	deleterious(0.01)	possibly_damaging(0.674)	24/34	.	hmmpanther:PTHR14226:SF26,hmmpanther:PTHR14226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCGAGAGG	.	5	BLCA
CD209	0	.	GRCh37	19	7808072	7808072	+	Silent	SNP	G	G	A	rs749655694	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068C>T	p.%3D	p.C356C	ENST00000315599	7/7	409	274	135	219	219	0	CD209,missense_variant,p.Arg295Cys,ENST00000601256,;CD209,synonymous_variant,p.%3D,ENST00000315591,;CD209,synonymous_variant,p.%3D,ENST00000593660,;CD209,synonymous_variant,p.%3D,ENST00000204801,;CD209,synonymous_variant,p.%3D,ENST00000394161,;CD209,synonymous_variant,p.%3D,ENST00000394173,;CD209,synonymous_variant,p.%3D,ENST00000354397,;CD209,synonymous_variant,p.%3D,ENST00000301357,;CD209,synonymous_variant,p.%3D,ENST00000315599,;CD209,synonymous_variant,p.%3D,ENST00000602261,;CD209,synonymous_variant,p.%3D,ENST00000601951,;CD209,synonymous_variant,p.%3D,ENST00000593821,;	A	ENSG00000090659	ENST00000315599	Transcript	synonymous_variant	1091	1068	356	C	tgC/tgT	rs749655694	.	.	-1	CD209	HGNC	1641	protein_coding	YES	CCDS12186.1	ENSP00000315477	CD209_HUMAN	B4E2A8_HUMAN	UPI000003422C	.	.	.	7/7	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF205,hmmpanther:PTHR22802,PROSITE_patterns:PS00615,Gene3D:3.10.100.10,Pfam_domain:PF00059,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGCGCAGTC	.	5	BLCA
CD209	0	.	GRCh37	19	7809086	7809086	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.920C>G	p.Ser307Cys	p.S307C	ENST00000315599	6/7	117	73	44	66	65	1	CD209,missense_variant,p.Ser283Cys,ENST00000315591,;CD209,missense_variant,p.Ser237Cys,ENST00000593660,;CD209,missense_variant,p.Ser263Cys,ENST00000204801,;CD209,missense_variant,p.Ser146Cys,ENST00000394173,;CD209,missense_variant,p.Ser301Cys,ENST00000354397,;CD209,missense_variant,p.Ser171Cys,ENST00000301357,;CD209,missense_variant,p.Ser307Cys,ENST00000315599,;CD209,missense_variant,p.Ser215Cys,ENST00000602261,;CD209,missense_variant,p.Ser283Cys,ENST00000601951,;CD209,missense_variant,p.Ser171Cys,ENST00000593821,;CD209,splice_region_variant,,ENST00000394161,;CD209,intron_variant,,ENST00000601256,;	C	ENSG00000090659	ENST00000315599	Transcript	missense_variant	943	920	307	S/C	tCt/tGt	.	.	.	-1	CD209	HGNC	1641	protein_coding	YES	CCDS12186.1	ENSP00000315477	CD209_HUMAN	B4E2A8_HUMAN	UPI000003422C	.	deleterious(0)	probably_damaging(0.963)	6/7	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF205,hmmpanther:PTHR22802,Gene3D:3.10.100.10,Pfam_domain:PF00059,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TGGAAGACTGC	.	3	BLCA
CD209	0	.	GRCh37	19	7810478	7810478	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674C>T	p.Ala225Val	p.A225V	ENST00000315599	4/7	183	125	57	108	108	0	CD209,missense_variant,p.Ala201Val,ENST00000315591,;CD209,missense_variant,p.Ala201Val,ENST00000601256,;CD209,missense_variant,p.Ala181Val,ENST00000204801,;CD209,missense_variant,p.Ala225Val,ENST00000354397,;CD209,missense_variant,p.Ala225Val,ENST00000315599,;CD209,missense_variant,p.Ala201Val,ENST00000601951,;CD209,intron_variant,,ENST00000593660,;CD209,intron_variant,,ENST00000394161,;CD209,intron_variant,,ENST00000394173,;CD209,intron_variant,,ENST00000301357,;CD209,intron_variant,,ENST00000602261,;CD209,intron_variant,,ENST00000593821,;	A	ENSG00000090659	ENST00000315599	Transcript	missense_variant	697	674	225	A/V	gCa/gTa	.	.	.	-1	CD209	HGNC	1641	protein_coding	YES	CCDS12186.1	ENSP00000315477	CD209_HUMAN	B4E2A8_HUMAN	UPI000003422C	.	deleterious(0.02)	benign(0.012)	4/7	.	hmmpanther:PTHR22802:SF205,hmmpanther:PTHR22802,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTGCAGCC	.	5	BLCA
CD209	0	.	GRCh37	19	7810602	7810602	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550C>T	p.Pro184Ser	p.P184S	ENST00000315599	4/7	319	217	101	163	163	0	CD209,missense_variant,p.Pro160Ser,ENST00000315591,;CD209,missense_variant,p.Pro160Ser,ENST00000593660,;CD209,missense_variant,p.Pro160Ser,ENST00000601256,;CD209,missense_variant,p.Pro140Ser,ENST00000204801,;CD209,missense_variant,p.Pro184Ser,ENST00000354397,;CD209,missense_variant,p.Pro184Ser,ENST00000315599,;CD209,missense_variant,p.Pro160Ser,ENST00000601951,;CD209,intron_variant,,ENST00000394161,;CD209,intron_variant,,ENST00000394173,;CD209,intron_variant,,ENST00000301357,;CD209,intron_variant,,ENST00000602261,;CD209,intron_variant,,ENST00000593821,;RPL21P129,upstream_gene_variant,,ENST00000491732,;	A	ENSG00000090659	ENST00000315599	Transcript	missense_variant	573	550	184	P/S	Cca/Tca	.	.	.	-1	CD209	HGNC	1641	protein_coding	YES	CCDS12186.1	ENSP00000315477	CD209_HUMAN	B4E2A8_HUMAN	UPI000003422C	.	tolerated(0.11)	possibly_damaging(0.857)	4/7	.	hmmpanther:PTHR22802:SF205,hmmpanther:PTHR22802	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGGAAGCT	.	5	BLCA
CD209	0	.	GRCh37	19	7810937	7810937	+	Missense_Mutation	SNP	G	G	A	rs770974493	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.215C>T	p.Ser72Phe	p.S72F	ENST00000315599	4/7	222	158	64	125	125	0	CD209,missense_variant,p.Ser48Phe,ENST00000315591,;CD209,missense_variant,p.Ser48Phe,ENST00000593660,;CD209,missense_variant,p.Ser48Phe,ENST00000601256,;CD209,missense_variant,p.Ser28Phe,ENST00000204801,;CD209,missense_variant,p.Ser72Phe,ENST00000394161,;CD209,missense_variant,p.Ser72Phe,ENST00000394173,;CD209,missense_variant,p.Ser72Phe,ENST00000354397,;CD209,missense_variant,p.Ser28Phe,ENST00000301357,;CD209,missense_variant,p.Ser72Phe,ENST00000315599,;CD209,missense_variant,p.Ser72Phe,ENST00000602261,;CD209,missense_variant,p.Ser48Phe,ENST00000601951,;CD209,missense_variant,p.Ser28Phe,ENST00000593821,;RPL21P129,upstream_gene_variant,,ENST00000491732,;	A	ENSG00000090659	ENST00000315599	Transcript	missense_variant	238	215	72	S/F	tCc/tTc	rs770974493	.	.	-1	CD209	HGNC	1641	protein_coding	YES	CCDS12186.1	ENSP00000315477	CD209_HUMAN	B4E2A8_HUMAN	UPI000003422C	.	deleterious(0)	possibly_damaging(0.864)	4/7	.	hmmpanther:PTHR22802:SF205,hmmpanther:PTHR22802	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGATTGT	byFrequency	5	BLCA
MED16	0	.	GRCh37	19	884913	884913	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.975C>T	p.%3D	p.I325I	ENST00000325464	6/16	28	16	11	14	14	0	MED16,synonymous_variant,p.%3D,ENST00000395808,;MED16,synonymous_variant,p.%3D,ENST00000586017,;MED16,synonymous_variant,p.%3D,ENST00000325464,;MED16,synonymous_variant,p.%3D,ENST00000312090,;MED16,synonymous_variant,p.%3D,ENST00000607471,;MED16,synonymous_variant,p.%3D,ENST00000269814,;MED16,synonymous_variant,p.%3D,ENST00000592943,;MED16,synonymous_variant,p.%3D,ENST00000589119,;MED16,intron_variant,,ENST00000606828,;MED16,synonymous_variant,p.%3D,ENST00000606248,;MED16,downstream_gene_variant,,ENST00000592373,;	A	ENSG00000175221	ENST00000325464	Transcript	synonymous_variant	1126	975	325	I	atC/atT	.	.	.	-1	MED16	HGNC	17556	protein_coding	YES	CCDS12047.1	ENSP00000325612	MED16_HUMAN	K7EKX6_HUMAN,B9TX09_HUMAN	UPI0000141671	.	.	.	6/16	.	hmmpanther:PTHR13224:SF6,hmmpanther:PTHR13224,Pfam_domain:PF11635	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGAGATCTG	.	5	BLCA
OR1M1	0	.	GRCh37	19	9204840	9204840	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.920G>T	p.Arg307Ile	p.R307I	ENST00000429566	1/1	72	49	23	36	36	0	OR1M1,missense_variant,p.Arg307Ile,ENST00000429566,;	T	ENSG00000170929	ENST00000429566	Transcript	missense_variant	986	920	307	R/I	aGa/aTa	COSM3543762	.	.	1	OR1M1	HGNC	8220	protein_coding	YES	CCDS32896.1	ENSP00000401966	OR1M1_HUMAN	.	UPI0000041C29	.	deleterious(0.05)	possibly_damaging(0.653)	1/1	.	hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF295,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACAGAAAGA	.	5	BLCA
VCAM1	0	.	GRCh37	1	101186098	101186098	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131C>T	p.Ser44Leu	p.S44L	ENST00000294728	2/9	151	123	27	93	93	0	VCAM1,missense_variant,p.Ser44Leu,ENST00000347652,;VCAM1,missense_variant,p.Ser44Leu,ENST00000370115,;VCAM1,missense_variant,p.Ser44Leu,ENST00000294728,;VCAM1,missense_variant,p.Ser44Leu,ENST00000370119,;	T	ENSG00000162692	ENST00000294728	Transcript	missense_variant	232	131	44	S/L	tCa/tTa	.	.	.	1	VCAM1	HGNC	12663	protein_coding	YES	CCDS773.1	ENSP00000294728	VCAM1_HUMAN	Q68DC4_HUMAN,G0ZI12_HUMAN,G0ZFQ0_HUMAN,F8UV74_HUMAN,F8UU18_HUMAN,F2YYR6_HUMAN	UPI0000000E06	.	tolerated(0.29)	benign(0.175)	2/9	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726,Prints_domain:PR01472	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCATTGA	.	5	BLCA
CASZ1	0	.	GRCh37	1	10713833	10713833	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2281G>A	p.Gly761Arg	p.G761R	ENST00000377022	11/21	85	65	19	40	40	0	CASZ1,missense_variant,p.Gly761Arg,ENST00000344008,;CASZ1,missense_variant,p.Gly761Arg,ENST00000377022,;RP4-734G22.3,non_coding_transcript_exon_variant,,ENST00000606802,;CASZ1,non_coding_transcript_exon_variant,,ENST00000496432,;CASZ1,downstream_gene_variant,,ENST00000492173,;CASZ1,upstream_gene_variant,,ENST00000490176,;	T	ENSG00000130940	ENST00000377022	Transcript	missense_variant	2599	2281	761	G/R	Ggg/Agg	.	.	.	-1	CASZ1	HGNC	26002	protein_coding	YES	CCDS41246.1	ENSP00000366221	CASZ1_HUMAN	.	UPI0000EBB7D6	.	tolerated_low_confidence(0.36)	benign(0.098)	11/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12451	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCCAGCCT	.	5	BLCA
CASZ1	0	.	GRCh37	1	10714202	10714202	+	Missense_Mutation	SNP	C	C	T	rs139056324	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1912G>A	p.Asp638Asn	p.D638N	ENST00000377022	11/21	90	53	37	57	56	0	CASZ1,missense_variant,p.Asp638Asn,ENST00000344008,;CASZ1,missense_variant,p.Asp638Asn,ENST00000377022,;RP4-734G22.3,non_coding_transcript_exon_variant,,ENST00000606802,;CASZ1,non_coding_transcript_exon_variant,,ENST00000496432,;CASZ1,downstream_gene_variant,,ENST00000492173,;CASZ1,upstream_gene_variant,,ENST00000490176,;	T	ENSG00000130940	ENST00000377022	Transcript	missense_variant	2230	1912	638	D/N	Gat/Aat	rs139056324	.	.	-1	CASZ1	HGNC	26002	protein_coding	YES	CCDS41246.1	ENSP00000366221	CASZ1_HUMAN	.	UPI0000EBB7D6	.	deleterious(0.04)	probably_damaging(0.994)	11/21	.	hmmpanther:PTHR12451	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0018	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCGTCCT	byCluster|by1000G	5	BLCA
KCND3	0	.	GRCh37	1	112524315	112524315	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1034G>A	p.Gly345Asp	p.G345D	ENST00000315987	2/8	79	33	46	40	40	0	KCND3,missense_variant,p.Gly345Asp,ENST00000369697,;KCND3,missense_variant,p.Gly345Asp,ENST00000302127,;KCND3,missense_variant,p.Gly345Asp,ENST00000315987,;	T	ENSG00000171385	ENST00000315987	Transcript	missense_variant	1514	1034	345	G/D	gGc/gAc	.	.	.	-1	KCND3	HGNC	6239	protein_coding	YES	CCDS843.1	ENSP00000319591	KCND3_HUMAN	.	UPI000003050A	.	tolerated(0.32)	benign(0.001)	2/8	.	hmmpanther:PTHR11537:SF17,hmmpanther:PTHR11537,Pfam_domain:PF00520,Gene3D:1.10.287.70,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G345S|c.1033G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGCCCTTC	.	5	BLCA
DCLRE1B	0	.	GRCh37	1	114454317	114454317	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1103G>A	p.Arg368Lys	p.R368K	ENST00000369563	4/4	135	77	58	68	68	0	DCLRE1B,missense_variant,p.Arg368Lys,ENST00000369563,;DCLRE1B,non_coding_transcript_exon_variant,,ENST00000466480,;	A	ENSG00000118655	ENST00000369563	Transcript	missense_variant	1549	1103	368	R/K	aGa/aAa	.	.	.	1	DCLRE1B	HGNC	17641	protein_coding	YES	CCDS866.1	ENSP00000358576	DCR1B_HUMAN	.	UPI000006FBBC	.	tolerated(0.27)	benign(0.003)	4/4	.	hmmpanther:PTHR23240:SF5,hmmpanther:PTHR23240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACAGAGACT	.	5	BLCA
CLCN6	0	.	GRCh37	1	11893574	11893574	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1251C>G	p.%3D	p.V417V	ENST00000346436	14/23	116	96	20	80	80	0	CLCN6,synonymous_variant,p.%3D,ENST00000376487,;CLCN6,synonymous_variant,p.%3D,ENST00000346436,;CLCN6,synonymous_variant,p.%3D,ENST00000376496,;CLCN6,splice_region_variant,,ENST00000312413,;CLCN6,splice_region_variant,,ENST00000494028,;CLCN6,downstream_gene_variant,,ENST00000376492,;	G	ENSG00000011021	ENST00000346436	Transcript	synonymous_variant	1303	1251	417	V	gtC/gtG	.	.	.	1	CLCN6	HGNC	2024	protein_coding	YES	CCDS138.1	ENSP00000234488	CLCN6_HUMAN	.	UPI000013F2D3	.	.	.	14/23	.	Pfam_domain:PF00654,hmmpanther:PTHR11689,hmmpanther:PTHR11689:SF69	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTCACAGA	.	5	BLCA
TAS1R3	0	.	GRCh37	1	1266782	1266782	+	Silent	SNP	G	G	A	rs368625316	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57G>A	p.%3D	p.T19T	ENST00000339381	1/6	52	37	14	25	25	0	TAS1R3,synonymous_variant,p.%3D,ENST00000339381,;DVL1,downstream_gene_variant,,ENST00000378891,;GLTPD1,downstream_gene_variant,,ENST00000488011,;GLTPD1,downstream_gene_variant,,ENST00000343938,;DVL1,downstream_gene_variant,,ENST00000378888,;GLTPD1,downstream_gene_variant,,ENST00000464957,;	A	ENSG00000169962	ENST00000339381	Transcript	synonymous_variant	89	57	19	T	acG/acA	rs368625316	.	.	1	TAS1R3	HGNC	15661	protein_coding	YES	CCDS30556.1	ENSP00000344411	TS1R3_HUMAN	.	UPI0000051F47	.	.	.	1/6	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR24061,hmmpanther:PTHR24061:SF2	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGACGGGGGC	byFrequency|byCluster	5	BLCA
TAS1R3	0	.	GRCh37	1	1266858	1266858	+	Missense_Mutation	SNP	G	G	A	rs137986343	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133G>A	p.Glu45Lys	p.E45K	ENST00000339381	1/6	19	12	7	18	18	0	TAS1R3,missense_variant,p.Glu45Lys,ENST00000339381,;DVL1,downstream_gene_variant,,ENST00000378891,;GLTPD1,downstream_gene_variant,,ENST00000488011,;GLTPD1,downstream_gene_variant,,ENST00000343938,;DVL1,downstream_gene_variant,,ENST00000378888,;GLTPD1,downstream_gene_variant,,ENST00000464957,;	A	ENSG00000169962	ENST00000339381	Transcript	missense_variant	165	133	45	E/K	Gag/Aag	rs137986343,COSM3930303	.	.	1	TAS1R3	HGNC	15661	protein_coding	YES	CCDS30556.1	ENSP00000344411	TS1R3_HUMAN	.	UPI0000051F47	.	tolerated(0.96)	benign(0.024)	1/6	.	hmmpanther:PTHR24061,hmmpanther:PTHR24061:SF2,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	A:0.0002	A:0.0005	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGCGAGGCC	byFrequency|byCluster	5	BLCA
DVL1	0	.	GRCh37	1	1274001	1274001	+	Missense_Mutation	SNP	C	C	T	rs746424149	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165G>A	p.Asp389Asn	p.D389N	ENST00000378891	12/15	40	18	21	41	41	0	DVL1,missense_variant,p.Asp389Asn,ENST00000378891,;DVL1,missense_variant,p.Asp414Asn,ENST00000378888,;TAS1R3,downstream_gene_variant,,ENST00000339381,;DVL1,downstream_gene_variant,,ENST00000472445,;	T	ENSG00000107404	ENST00000378891	Transcript	missense_variant	1212	1165	389	D/N	Gac/Aac	rs746424149	.	.	-1	DVL1	HGNC	3084	protein_coding	YES	CCDS22.1	ENSP00000368169	DVL1_HUMAN	Q6PJD6_HUMAN,B7Z6B5_HUMAN,B7Z1E8_HUMAN	UPI000013D455	.	deleterious(0.02)	probably_damaging(0.981)	12/15	.	hmmpanther:PTHR10878:SF5,hmmpanther:PTHR10878,Gene3D:1.10.10.10,Superfamily_domains:SSF46785,Prints_domain:PR01761	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTCACTCT	.	5	BLCA
CELF3	0	.	GRCh37	1	151678705	151678705	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1121G>C	p.Arg374Thr	p.R374T	ENST00000290583	10/13	30	25	5	13	13	0	CELF3,missense_variant,p.Arg374Thr,ENST00000290583,;CELF3,missense_variant,p.Arg375Thr,ENST00000420342,;CELF3,missense_variant,p.Arg324Thr,ENST00000290585,;CELF3,missense_variant,p.Arg169Thr,ENST00000392706,;RIIAD1,upstream_gene_variant,,ENST00000326413,;AL589765.1,upstream_gene_variant,,ENST00000442233,;RP11-98D18.1,intron_variant,,ENST00000457548,;CELF3,non_coding_transcript_exon_variant,,ENST00000470688,;CELF3,downstream_gene_variant,,ENST00000479893,;CELF3,downstream_gene_variant,,ENST00000478829,;CELF3,downstream_gene_variant,,ENST00000419910,;	G	ENSG00000159409	ENST00000290583	Transcript	missense_variant	1915	1121	374	R/T	aGa/aCa	.	.	.	-1	CELF3	HGNC	11967	protein_coding	YES	CCDS1002.1	ENSP00000290583	CELF3_HUMAN	Q8IZ97_HUMAN	UPI000013F059	.	tolerated(0.12)	benign(0.05)	10/13	.	hmmpanther:PTHR24622:SF169,hmmpanther:PTHR24622,Gene3D:3.30.70.330	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCTTTGC	.	4	BLCA
ATP8B2	0	.	GRCh37	1	154317616	154317616	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2555T>C	p.Val852Ala	p.V852A	ENST00000368489	22/28	237	80	156	113	113	0	ATP8B2,missense_variant,p.Val852Ala,ENST00000368489,;ATP8B2,downstream_gene_variant,,ENST00000341822,;ATP8B2,downstream_gene_variant,,ENST00000426445,;ATP8B2,upstream_gene_variant,,ENST00000505882,;	C	ENSG00000143515	ENST00000368489	Transcript	missense_variant	2555	2555	852	V/A	gTc/gCc	.	.	.	1	ATP8B2	HGNC	13534	protein_coding	YES	CCDS1066.1	ENSP00000357475	AT8B2_HUMAN	Q6P3T1_HUMAN	UPI00001B92AB	.	deleterious(0)	possibly_damaging(0.517)	22/28	.	hmmpanther:PTHR24092:SF47,hmmpanther:PTHR24092,Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR01652,TIGRFAM_domain:TIGR01494,Pfam_domain:PF12710,Superfamily_domains:SSF56784,Prints_domain:PR00119	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGTCAGCA	.	5	BLCA
SYT11	0	.	GRCh37	1	155838469	155838469	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>C	p.Asp250His	p.D250H	ENST00000368324	2/4	77	64	13	31	31	0	SYT11,missense_variant,p.Asp250His,ENST00000368324,;SYT11,intron_variant,,ENST00000539162,;	C	ENSG00000132718	ENST00000368324	Transcript	missense_variant	1001	748	250	D/H	Gac/Cac	.	.	.	1	SYT11	HGNC	19239	protein_coding	YES	CCDS1122.1	ENSP00000357307	SYT11_HUMAN	B4DK40_HUMAN	UPI00002049CC	.	deleterious(0)	probably_damaging(1)	2/4	.	PROSITE_profiles:PS50004,hmmpanther:PTHR10024:SF115,hmmpanther:PTHR10024,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTGACCGC	.	5	BLCA
ETV3L	0	.	GRCh37	1	157062784	157062784	+	Missense_Mutation	SNP	G	G	C	rs372629674	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743C>G	p.Ser248Trp	p.S248W	ENST00000454449	5/5	37	30	7	13	13	0	ETV3L,missense_variant,p.Ser248Trp,ENST00000454449,;	C	ENSG00000253831	ENST00000454449	Transcript	missense_variant	1028	743	248	S/W	tCg/tGg	rs372629674	.	.	-1	ETV3L	HGNC	33834	protein_coding	YES	CCDS30893.1	ENSP00000430271	ETV3L_HUMAN	.	UPI000035E7AE	.	deleterious(0)	possibly_damaging(0.55)	5/5	.	hmmpanther:PTHR11849:SF163,hmmpanther:PTHR11849	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCGAGAGA	byFrequency|byCluster	2	BLCA
FCRL6	0	.	GRCh37	1	159778937	159778937	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.506G>C	p.Gly169Ala	p.G169A	ENST00000368106	4/10	109	96	12	50	50	0	FCRL6,missense_variant,p.Gly169Ala,ENST00000339348,;FCRL6,missense_variant,p.Gly176Ala,ENST00000321935,;FCRL6,missense_variant,p.Gly169Ala,ENST00000368106,;FCRL6,intron_variant,,ENST00000392235,;FCRL6,intron_variant,,ENST00000536257,;FCRL6,non_coding_transcript_exon_variant,,ENST00000540741,;FCRL6,downstream_gene_variant,,ENST00000541729,;	C	ENSG00000181036	ENST00000368106	Transcript	missense_variant	507	506	169	G/A	gGa/gCa	.	.	.	1	FCRL6	HGNC	31910	protein_coding	YES	CCDS30912.1	ENSP00000357086	FCRL6_HUMAN	.	UPI0000D62020	.	tolerated(0.95)	benign(0.057)	4/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11481,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCGGGAGCCA	.	4	BLCA
USP21	0	.	GRCh37	1	161130470	161130470	+	Missense_Mutation	SNP	G	G	C	rs762032221	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>C	p.Glu14Gln	p.E14Q	ENST00000368002	3/14	118	90	28	69	69	0	USP21,missense_variant,p.Glu14Gln,ENST00000368002,;USP21,missense_variant,p.Glu14Gln,ENST00000492950,;USP21,missense_variant,p.Glu14Gln,ENST00000479344,;USP21,missense_variant,p.Glu14Gln,ENST00000289865,;USP21,missense_variant,p.Glu14Gln,ENST00000368001,;UFC1,downstream_gene_variant,,ENST00000368003,;RP11-297K8.2,upstream_gene_variant,,ENST00000420498,;UFC1,downstream_gene_variant,,ENST00000473766,;UFC1,downstream_gene_variant,,ENST00000483191,;UFC1,downstream_gene_variant,,ENST00000482672,;UFC1,downstream_gene_variant,,ENST00000467540,;USP21,upstream_gene_variant,,ENST00000486299,;UFC1,downstream_gene_variant,,ENST00000463735,;USP21,upstream_gene_variant,,ENST00000493054,;USP21,upstream_gene_variant,,ENST00000482385,;USP21,upstream_gene_variant,,ENST00000485277,;USP21,upstream_gene_variant,,ENST00000487163,;	C	ENSG00000143258	ENST00000368002	Transcript	missense_variant	417	40	14	E/Q	Gag/Cag	rs762032221	.	.	1	USP21	HGNC	12620	protein_coding	YES	CCDS30920.1	ENSP00000356981	UBP21_HUMAN	.	UPI00001379FD	.	tolerated_low_confidence(0.2)	probably_damaging(0.95)	3/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGAGAGCCA	.	5	BLCA
UHMK1	0	.	GRCh37	1	162467949	162467949	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159C>T	p.%3D	p.L53L	ENST00000489294	1/8	26	21	5	23	23	0	UHMK1,synonymous_variant,p.%3D,ENST00000489294,;UHMK1,synonymous_variant,p.%3D,ENST00000538489,;UHMK1,intron_variant,,ENST00000545294,;UHMK1,non_coding_transcript_exon_variant,,ENST00000282169,;	T	ENSG00000152332	ENST00000489294	Transcript	synonymous_variant	317	159	53	L	ctC/ctT	.	.	.	1	UHMK1	HGNC	19683	protein_coding	YES	CCDS1239.1	ENSP00000420270	UHMK1_HUMAN	.	UPI000000DCCA	.	.	.	1/8	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23139,hmmpanther:PTHR23139:SF14,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCAAGCA	.	4	BLCA
RP5-1182A14.5	0	.	GRCh37	1	16945485	16945485	+	3'Flank	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000607700	.	231	213	18	142	142	0	CROCCP2,non_coding_transcript_exon_variant,,ENST00000540383,;CROCCP2,non_coding_transcript_exon_variant,,ENST00000412962,;RP5-1182A14.5,downstream_gene_variant,,ENST00000607700,;	T	ENSG00000271732	ENST00000607700	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1261	1	RP5-1182A14.5	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGCTCTGGGC	.	2	BLCA
C1orf112	0	.	GRCh37	1	169771854	169771854	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159G>A	p.%3D	p.R53R	ENST00000286031	4/24	96	72	24	57	57	0	C1orf112,synonymous_variant,p.%3D,ENST00000286031,;C1orf112,synonymous_variant,p.%3D,ENST00000456684,;C1orf112,synonymous_variant,p.%3D,ENST00000359326,;C1orf112,synonymous_variant,p.%3D,ENST00000413811,;C1orf112,non_coding_transcript_exon_variant,,ENST00000459772,;C1orf112,non_coding_transcript_exon_variant,,ENST00000466580,;C1orf112,non_coding_transcript_exon_variant,,ENST00000496973,;C1orf112,non_coding_transcript_exon_variant,,ENST00000481744,;C1orf112,non_coding_transcript_exon_variant,,ENST00000472795,;C1orf112,non_coding_transcript_exon_variant,,ENST00000498289,;	A	ENSG00000000460	ENST00000286031	Transcript	synonymous_variant	859	159	53	R	agG/agA	.	.	.	1	C1orf112	HGNC	25565	protein_coding	YES	CCDS1285.1	ENSP00000286031	CA112_HUMAN	.	UPI000006E467	.	.	.	4/24	.	hmmpanther:PTHR16071,hmmpanther:PTHR16071:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAAGGAATAT	.	5	BLCA
MST1L	0	.	GRCh37	1	17084309	17084309	+	RNA	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1693G>C	.	.	ENST00000389184	18/20	515	481	34	305	305	0	MST1L,non_coding_transcript_exon_variant,,ENST00000455405,;CROCC,intron_variant,,ENST00000466256,;MST1L,downstream_gene_variant,,ENST00000545160,;MST1L,downstream_gene_variant,,ENST00000544155,;MST1L,non_coding_transcript_exon_variant,,ENST00000442552,;MST1L,non_coding_transcript_exon_variant,,ENST00000389184,;	G	ENSG00000186715	ENST00000389184	Transcript	non_coding_transcript_exon_variant	1693	.	.	.	.	.	.	.	-1	MST1L	HGNC	7390	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	18/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCATTCAGGCG	.	2	BLCA
MROH9	0	.	GRCh37	1	170952562	170952562	+	Splice_Site	SNP	G	G	C	rs761520213	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.617-1G>C	.	p.X206_splice	ENST00000367759	.	49	38	11	16	16	0	MROH9,splice_acceptor_variant,,ENST00000367759,;MROH9,splice_acceptor_variant,,ENST00000367758,;	C	ENSG00000117501	ENST00000367759	Transcript	splice_acceptor_variant	.	.	.	.	.	rs761520213	.	.	1	MROH9	HGNC	26287	protein_coding	YES	CCDS53429.1	ENSP00000356733	MROH9_HUMAN	.	UPI0001B09232	.	.	.	.	8/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCAGATATT	byFrequency	5	BLCA
PIGC	0	.	GRCh37	1	172411277	172411277	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486C>G	p.Ile162Met	p.I162M	ENST00000367728	1/1	56	35	21	33	33	0	PIGC,missense_variant,p.Ile162Met,ENST00000367728,;PIGC,missense_variant,p.Ile162Met,ENST00000258324,;PIGC,missense_variant,p.Ile162Met,ENST00000344529,;C1orf105,intron_variant,,ENST00000367727,;C1orf105,upstream_gene_variant,,ENST00000488100,;PIGC,intron_variant,,ENST00000484368,;PIGC,downstream_gene_variant,,ENST00000478184,;	C	ENSG00000135845	ENST00000367728	Transcript	missense_variant	1950	486	162	I/M	atC/atG	.	.	.	-1	PIGC	HGNC	8960	protein_coding	YES	CCDS1302.1	ENSP00000356702	PIGC_HUMAN	.	UPI0000131AB1	.	tolerated(0.11)	benign(0.048)	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12982,Pfam_domain:PF06432,PIRSF_domain:PIRSF016104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAAGATGAG	.	5	BLCA
PAPPA2	0	.	GRCh37	1	176675521	176675521	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3392G>C	p.Gly1131Ala	p.G1131A	ENST00000367662	10/23	54	47	7	41	41	0	PAPPA2,missense_variant,p.Gly1131Ala,ENST00000367662,;	C	ENSG00000116183	ENST00000367662	Transcript	missense_variant	4556	3392	1131	G/A	gGa/gCa	.	.	.	1	PAPPA2	HGNC	14615	protein_coding	YES	CCDS41438.1	ENSP00000356634	PAPP2_HUMAN	.	UPI000004A835	.	tolerated(0.48)	benign(0.194)	10/23	.	hmmpanther:PTHR19325:SF349,hmmpanther:PTHR19325,TIGRFAM_domain:TIGR02232	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGATGGAGACC	.	3	BLCA
AXDND1	0	.	GRCh37	1	179348604	179348604	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>C	p.Glu190Gln	p.E190Q	ENST00000367618	6/26	77	60	16	75	75	0	AXDND1,missense_variant,p.Glu124Gln,ENST00000434088,;AXDND1,missense_variant,p.Glu190Gln,ENST00000367618,;AXDND1,missense_variant,p.Glu148Gln,ENST00000509175,;AXDND1,missense_variant,p.Glu190Gln,ENST00000457238,;AXDND1,downstream_gene_variant,,ENST00000511889,;AXDND1,non_coding_transcript_exon_variant,,ENST00000461179,;AXDND1,non_coding_transcript_exon_variant,,ENST00000510593,;AXDND1,missense_variant,p.Glu190Gln,ENST00000511157,;	C	ENSG00000162779	ENST00000367618	Transcript	missense_variant	955	568	190	E/Q	Gag/Cag	.	.	.	1	AXDND1	HGNC	26564	protein_coding	YES	CCDS30948.1	ENSP00000356590	AXDN1_HUMAN	D6REE1_HUMAN,D6RDY4_HUMAN,D6RCN1_HUMAN,D6RB87_HUMAN,D6R9B7_HUMAN	UPI000022AC91	.	tolerated(0.15)	possibly_damaging(0.727)	6/26	.	hmmpanther:PTHR23052	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTGGAGTGT	.	5	BLCA
TOR1AIP1	0	.	GRCh37	1	179887207	179887207	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1585G>C	p.Glu529Gln	p.E529Q	ENST00000606911	10/10	119	56	62	77	77	0	TOR1AIP1,missense_variant,p.Glu529Gln,ENST00000606911,;TOR1AIP1,missense_variant,p.Glu530Gln,ENST00000528443,;TOR1AIP1,missense_variant,p.Glu264Gln,ENST00000447964,;TOR1AIP1,missense_variant,p.Glu408Gln,ENST00000435319,;TOR1AIP1,missense_variant,p.Glu545Gln,ENST00000271583,;TOR1AIP1,downstream_gene_variant,,ENST00000527391,;TOR1AIP1,downstream_gene_variant,,ENST00000531630,;TOR1AIP1,downstream_gene_variant,,ENST00000474875,;	C	ENSG00000143337	ENST00000606911	Transcript	missense_variant	1776	1585	529	E/Q	Gaa/Caa	.	.	.	1	TOR1AIP1	HGNC	29456	protein_coding	YES	CCDS1335.1	ENSP00000476687	.	.	UPI0000203C95	.	deleterious(0)	probably_damaging(0.999)	10/10	.	hmmpanther:PTHR18843,hmmpanther:PTHR18843:SF3,Pfam_domain:PF05609	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTGAAGAA	.	5	BLCA
TOR1AIP1	0	.	GRCh37	1	179887380	179887380	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6G>A	.	.	ENST00000606911	10/10	50	25	25	22	22	0	TOR1AIP1,3_prime_UTR_variant,,ENST00000606911,;TOR1AIP1,3_prime_UTR_variant,,ENST00000528443,;TOR1AIP1,3_prime_UTR_variant,,ENST00000435319,;TOR1AIP1,3_prime_UTR_variant,,ENST00000271583,;TOR1AIP1,downstream_gene_variant,,ENST00000447964,;TOR1AIP1,downstream_gene_variant,,ENST00000527391,;TOR1AIP1,downstream_gene_variant,,ENST00000531630,;TOR1AIP1,downstream_gene_variant,,ENST00000474875,;	A	ENSG00000143337	ENST00000606911	Transcript	3_prime_UTR_variant	1949	.	.	.	.	.	.	.	1	TOR1AIP1	HGNC	29456	protein_coding	YES	CCDS1335.1	ENSP00000476687	.	.	UPI0000203C95	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGTGAGAGA	.	5	BLCA
QSOX1	0	.	GRCh37	1	180166064	180166064	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2136C>T	p.%3D	p.L712L	ENST00000367602	12/12	84	34	50	41	41	0	QSOX1,synonymous_variant,p.%3D,ENST00000367602,;QSOX1,intron_variant,,ENST00000443059,;QSOX1,intron_variant,,ENST00000367600,;	T	ENSG00000116260	ENST00000367602	Transcript	synonymous_variant	2210	2136	712	L	ctC/ctT	.	.	.	1	QSOX1	HGNC	9756	protein_coding	YES	CCDS1337.1	ENSP00000356574	QSOX1_HUMAN	.	UPI000004C63C	.	.	.	12/12	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22897,hmmpanther:PTHR22897:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCTGTGT	.	5	BLCA
MR1	0	.	GRCh37	1	181003155	181003155	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12G>A	p.%3D	p.L4L	ENST00000367580	1/6	79	61	17	56	56	0	MR1,synonymous_variant,p.%3D,ENST00000367580,;MR1,synonymous_variant,p.%3D,ENST00000282990,;MR1,synonymous_variant,p.%3D,ENST00000434571,;MR1,synonymous_variant,p.%3D,ENST00000367579,;MR1,non_coding_transcript_exon_variant,,ENST00000438435,;MR1,non_coding_transcript_exon_variant,,ENST00000486453,;MR1,upstream_gene_variant,,ENST00000367578,;	A	ENSG00000153029	ENST00000367580	Transcript	synonymous_variant	17	12	4	L	ctG/ctA	.	.	.	1	MR1	HGNC	4975	protein_coding	YES	CCDS1342.1	ENSP00000356552	HMR1_HUMAN	.	UPI0000072BD9	.	.	.	1/6	.	hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF141,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGATGGC	.	5	BLCA
CACNA1E	0	.	GRCh37	1	181741346	181741346	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5118C>T	p.%3D	p.F1706F	ENST00000367573	37/48	133	75	58	105	105	0	CACNA1E,synonymous_variant,p.%3D,ENST00000367567,;CACNA1E,synonymous_variant,p.%3D,ENST00000360108,;CACNA1E,synonymous_variant,p.%3D,ENST00000358338,;CACNA1E,synonymous_variant,p.%3D,ENST00000357570,;CACNA1E,synonymous_variant,p.%3D,ENST00000526775,;CACNA1E,synonymous_variant,p.%3D,ENST00000367570,;CACNA1E,synonymous_variant,p.%3D,ENST00000367573,;RNA5SP70,downstream_gene_variant,,ENST00000517168,;	T	ENSG00000198216	ENST00000367573	Transcript	synonymous_variant	5118	5118	1706	F	ttC/ttT	COSM331143	.	.	1	CACNA1E	HGNC	1392	protein_coding	YES	CCDS55664.1	ENSP00000356545	CAC1E_HUMAN	Q9UN68_HUMAN,Q9NYZ6_HUMAN,Q9NY05_HUMAN,E9PIE8_HUMAN	UPI00004588C2	.	.	.	37/48	.	Superfamily_domains:SSF81324,Pfam_domain:PF00520,hmmpanther:PTHR10037:SF57,hmmpanther:PTHR10037,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCATCTT	.	5	BLCA
CACNA1E	0	.	GRCh37	1	181767826	181767826	+	Silent	SNP	C	C	T	rs750465912	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6798C>T	p.%3D	p.I2266I	ENST00000367573	48/48	24	16	8	9	9	0	CACNA1E,synonymous_variant,p.%3D,ENST00000358338,;CACNA1E,synonymous_variant,p.%3D,ENST00000367567,;CACNA1E,synonymous_variant,p.%3D,ENST00000357570,;CACNA1E,synonymous_variant,p.%3D,ENST00000360108,;CACNA1E,synonymous_variant,p.%3D,ENST00000526775,;CACNA1E,synonymous_variant,p.%3D,ENST00000367573,;CACNA1E,synonymous_variant,p.%3D,ENST00000367570,;	T	ENSG00000198216	ENST00000367573	Transcript	synonymous_variant	6798	6798	2266	I	atC/atT	rs750465912,COSM3479886,COSM3479887,COSM3479885	.	.	1	CACNA1E	HGNC	1392	protein_coding	YES	CCDS55664.1	ENSP00000356545	CAC1E_HUMAN	Q9UN68_HUMAN,Q9NYZ6_HUMAN,Q9NY05_HUMAN,E9PIE8_HUMAN	UPI00004588C2	.	.	.	48/48	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCGGCTC	byFrequency	5	BLCA
TROVE2	0	.	GRCh37	1	193050546	193050546	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1139C>G	p.Ser380Cys	p.S380C	ENST00000367446	6/9	108	59	49	81	81	0	TROVE2,missense_variant,p.Ser380Cys,ENST00000367444,;TROVE2,missense_variant,p.Ser105Cys,ENST00000432079,;TROVE2,missense_variant,p.Ser105Cys,ENST00000416058,;TROVE2,missense_variant,p.Ser380Cys,ENST00000400968,;TROVE2,missense_variant,p.Ser380Cys,ENST00000367441,;TROVE2,missense_variant,p.Ser380Cys,ENST00000367446,;TROVE2,missense_variant,p.Ser380Cys,ENST00000367443,;TROVE2,missense_variant,p.Ser380Cys,ENST00000367445,;TROVE2,non_coding_transcript_exon_variant,,ENST00000460715,;	G	ENSG00000116747	ENST00000367446	Transcript	missense_variant	1349	1139	380	S/C	tCt/tGt	.	.	.	1	TROVE2	HGNC	11313	protein_coding	YES	CCDS1379.1	ENSP00000356416	RO60_HUMAN	G5E9R9_HUMAN,D6RDN1_HUMAN	UPI0000072E7F	.	deleterious(0.03)	probably_damaging(1)	6/9	.	hmmpanther:PTHR14202:SF0,hmmpanther:PTHR14202,Pfam_domain:PF09967,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCTATGA	.	5	BLCA
UBR4	0	.	GRCh37	1	19447887	19447887	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9937G>A	p.Glu3313Lys	p.E3313K	ENST00000375254	68/106	56	34	22	54	53	0	UBR4,missense_variant,p.Glu921Lys,ENST00000425413,;UBR4,missense_variant,p.Glu3313Lys,ENST00000375267,;UBR4,missense_variant,p.Glu1999Lys,ENST00000417040,;UBR4,missense_variant,p.Glu3313Lys,ENST00000375254,;UBR4,missense_variant,p.Glu3306Lys,ENST00000375217,;UBR4,missense_variant,p.Glu3289Lys,ENST00000375226,;UBR4,upstream_gene_variant,,ENST00000375218,;UBR4,downstream_gene_variant,,ENST00000475973,;	T	ENSG00000127481	ENST00000375254	Transcript	missense_variant	9965	9937	3313	E/K	Gag/Aag	COSM1500162	.	.	-1	UBR4	HGNC	30313	protein_coding	YES	CCDS189.1	ENSP00000364403	UBR4_HUMAN	Q96HY5_HUMAN	UPI000021276F	.	.	probably_damaging(0.972)	68/106	.	hmmpanther:PTHR21725	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCATCCA	.	5	BLCA
DENND1B	0	.	GRCh37	1	197704838	197704838	+	Intron	SNP	G	G	A	rs555292553	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83-20634C>T	.	.	ENST00000367396	.	49	35	14	42	42	0	DENND1B,5_prime_UTR_variant,,ENST00000235453,;DENND1B,intron_variant,,ENST00000422998,;DENND1B,intron_variant,,ENST00000367396,;DENND1B,upstream_gene_variant,,ENST00000400967,;DENND1B,non_coding_transcript_exon_variant,,ENST00000477581,;DENND1B,upstream_gene_variant,,ENST00000294738,;DENND1B,non_coding_transcript_exon_variant,,ENST00000495550,;DENND1B,non_coding_transcript_exon_variant,,ENST00000468589,;DENND1B,intron_variant,,ENST00000294737,;RP11-448G4.2,non_coding_transcript_exon_variant,,ENST00000447479,;	A	ENSG00000213047	ENST00000367396	Transcript	intron_variant	.	.	.	.	.	rs555292553	.	.	-1	DENND1B	HGNC	28404	protein_coding	YES	CCDS41452.2	ENSP00000356366	DEN1B_HUMAN	.	UPI0000227E74	.	.	.	.	2/15	.	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACCGACAGG	by1000G	5	BLCA
ELF3	0	.	GRCh37	1	201982361	201982361	+	Missense_Mutation	SNP	G	G	A	rs755079997	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.740G>A	p.Arg247Gln	p.R247Q	ENST00000359651	6/8	96	53	43	52	52	0	ELF3,missense_variant,p.Arg247Gln,ENST00000367284,;ELF3,missense_variant,p.Arg247Gln,ENST00000359651,;ELF3,missense_variant,p.Arg247Gln,ENST00000367283,;ELF3,downstream_gene_variant,,ENST00000446188,;RP11-510N19.5,intron_variant,,ENST00000504773,;RP11-465N4.4,upstream_gene_variant,,ENST00000419190,;ELF3,non_coding_transcript_exon_variant,,ENST00000490203,;ELF3,non_coding_transcript_exon_variant,,ENST00000470384,;ELF3,upstream_gene_variant,,ENST00000475698,;ELF3,downstream_gene_variant,,ENST00000479874,;ELF3,downstream_gene_variant,,ENST00000498017,;ELF3,downstream_gene_variant,,ENST00000495848,;	A	ENSG00000163435	ENST00000359651	Transcript	missense_variant	3932	740	247	R/Q	cGa/cAa	rs755079997,COSM1185697,COSM1185698	.	.	1	ELF3	HGNC	3318	protein_coding	YES	CCDS1419.1	ENSP00000352673	ELF3_HUMAN	.	UPI0000034E32	.	deleterious(0)	probably_damaging(0.996)	6/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF13	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAACGAGGCC	.	5	BLCA
SNRPE	0	.	GRCh37	1	203830750	203830750	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-38G>A	.	.	ENST00000414487	1/5	29	19	10	18	18	0	SNRPE,5_prime_UTR_variant,,ENST00000414487,;SNRPE,upstream_gene_variant,,ENST00000367208,;SNRPE,non_coding_transcript_exon_variant,,ENST00000470492,;SNRPE,non_coding_transcript_exon_variant,,ENST00000475035,;SNRPE,non_coding_transcript_exon_variant,,ENST00000483099,;SNRPE,upstream_gene_variant,,ENST00000469451,;	A	ENSG00000182004	ENST00000414487	Transcript	5_prime_UTR_variant	8	.	.	.	.	.	.	.	1	SNRPE	HGNC	11161	protein_coding	YES	CCDS30979.1	ENSP00000400591	RUXE_HUMAN	A6NHK2_HUMAN	UPI0000029B34	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCAGAGGCA	.	5	BLCA
LRRN2	0	.	GRCh37	1	204586919	204586919	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*60G>A	.	.	ENST00000367175	1/1	90	76	14	43	43	0	LRRN2,3_prime_UTR_variant,,ENST00000367177,;LRRN2,3_prime_UTR_variant,,ENST00000367176,;LRRN2,3_prime_UTR_variant,,ENST00000367175,;RP11-430C7.4,downstream_gene_variant,,ENST00000453895,;LRRN2,downstream_gene_variant,,ENST00000496057,;	T	ENSG00000170382	ENST00000367175	Transcript	3_prime_UTR_variant	4415	.	.	.	.	.	.	.	-1	LRRN2	HGNC	16914	protein_coding	YES	CCDS1448.1	ENSP00000356143	LRRN2_HUMAN	B3KM66_HUMAN	UPI000013E8AC	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTGCTTCTC	.	4	BLCA
PLA2G2F	0	.	GRCh37	1	20474750	20474750	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492C>T	p.%3D	p.L164L	ENST00000375102	5/5	130	69	61	66	66	0	PLA2G2F,synonymous_variant,p.%3D,ENST00000375102,;PLA2G2F,downstream_gene_variant,,ENST00000465062,;	T	ENSG00000158786	ENST00000375102	Transcript	synonymous_variant	594	492	164	L	ctC/ctT	.	.	.	1	PLA2G2F	HGNC	30040	protein_coding	YES	CCDS204.2	ENSP00000364243	PA2GF_HUMAN	.	UPI0000044C9D	.	.	.	5/5	.	hmmpanther:PTHR11716,hmmpanther:PTHR11716:SF8,Pfam_domain:PF00068,Gene3D:1.20.90.10,SMART_domains:SM00085,Superfamily_domains:SSF48619,Prints_domain:PR00389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCATGAA	.	5	BLCA
FAM71A	0	.	GRCh37	1	212798273	212798273	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.Met18Ile	p.M18I	ENST00000294829	1/1	57	29	28	25	25	0	FAM71A,missense_variant,p.Met18Ile,ENST00000294829,;ATF3,downstream_gene_variant,,ENST00000341491,;ATF3,downstream_gene_variant,,ENST00000366987,;RP11-338C15.5,non_coding_transcript_exon_variant,,ENST00000427949,;ATF3,downstream_gene_variant,,ENST00000492118,;	A	ENSG00000162771	ENST00000294829	Transcript	missense_variant	485	54	18	M/I	atG/atA	.	.	.	1	FAM71A	HGNC	26541	protein_coding	YES	CCDS1507.1	ENSP00000294829	FA71A_HUMAN	.	UPI000013E1C2	.	tolerated(0.11)	benign(0.012)	1/1	.	hmmpanther:PTHR22574:SF9,hmmpanther:PTHR22574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGAGCAT	.	5	BLCA
USH2A	0	.	GRCh37	1	215848734	215848734	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12519G>A	p.%3D	p.L4173L	ENST00000307340	63/72	116	97	19	67	67	0	USH2A,synonymous_variant,p.%3D,ENST00000366943,;USH2A,synonymous_variant,p.%3D,ENST00000307340,;	T	ENSG00000042781	ENST00000307340	Transcript	synonymous_variant	12906	12519	4173	L	ctG/ctA	.	.	.	-1	USH2A	HGNC	12601	protein_coding	YES	CCDS31025.1	ENSP00000305941	USH2A_HUMAN	.	UPI000034E5B6	.	.	.	63/72	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF170,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCAGCTC	.	5	BLCA
USH2A	0	.	GRCh37	1	215990453	215990453	+	Silent	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9456A>G	p.%3D	p.P3152P	ENST00000307340	48/72	163	157	6	85	85	0	USH2A,synonymous_variant,p.%3D,ENST00000366943,;USH2A,synonymous_variant,p.%3D,ENST00000307340,;	C	ENSG00000042781	ENST00000307340	Transcript	synonymous_variant	9843	9456	3152	P	ccA/ccG	.	.	.	-1	USH2A	HGNC	12601	protein_coding	YES	CCDS31025.1	ENSP00000305941	USH2A_HUMAN	.	UPI000034E5B6	.	.	.	48/72	.	SMART_domains:SM00060,Gene3D:2.60.40.10,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF170,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGCATGGATA	.	2	BLCA
FBXO28	0	.	GRCh37	1	224321828	224321828	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430G>T	p.Ala144Ser	p.A144S	ENST00000366862	3/5	37	17	20	19	19	0	FBXO28,missense_variant,p.Ala144Ser,ENST00000424254,;FBXO28,missense_variant,p.Ala144Ser,ENST00000366862,;FBXO28,non_coding_transcript_exon_variant,,ENST00000483773,;FBXO28,intron_variant,,ENST00000523990,;FBXO28,downstream_gene_variant,,ENST00000519894,;	T	ENSG00000143756	ENST00000366862	Transcript	missense_variant	473	430	144	A/S	Gct/Tct	.	.	.	1	FBXO28	HGNC	29046	protein_coding	YES	CCDS1539.1	ENSP00000355827	FBX28_HUMAN	B4E0H5_HUMAN	UPI000006F1C1	.	tolerated(0.23)	benign(0.294)	3/5	.	hmmpanther:PTHR13252	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTGCTGCT	.	5	BLCA
DEGS1	0	.	GRCh37	1	224378016	224378016	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820C>T	p.Pro274Ser	p.P274S	ENST00000323699	2/3	127	101	26	74	74	0	DEGS1,missense_variant,p.Pro253Ser,ENST00000415210,;DEGS1,missense_variant,p.Pro274Ser,ENST00000391877,;DEGS1,missense_variant,p.Pro274Ser,ENST00000323699,;DEGS1,non_coding_transcript_exon_variant,,ENST00000498813,;DEGS1,downstream_gene_variant,,ENST00000465848,;	T	ENSG00000143753	ENST00000323699	Transcript	missense_variant	986	820	274	P/S	Cca/Tca	.	.	.	1	DEGS1	HGNC	13709	protein_coding	YES	CCDS1540.1	ENSP00000316476	DEGS1_HUMAN	.	UPI000007137B	.	deleterious(0)	probably_damaging(0.989)	2/3	.	hmmpanther:PTHR12879,hmmpanther:PTHR12879:SF2,Pfam_domain:PF00487,PIRSF_domain:PIRSF017228	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCCACTG	.	5	BLCA
ADCK3	0	.	GRCh37	1	227170378	227170378	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.854-1G>C	.	p.X285_splice	ENST00000366779	.	119	94	24	76	76	0	ADCK3,splice_acceptor_variant,,ENST00000433743,;ADCK3,splice_acceptor_variant,,ENST00000366779,;ADCK3,splice_acceptor_variant,,ENST00000458507,;ADCK3,splice_acceptor_variant,,ENST00000366778,;ADCK3,splice_acceptor_variant,,ENST00000366777,;ADCK3,splice_acceptor_variant,,ENST00000485462,;ADCK3,non_coding_transcript_exon_variant,,ENST00000478406,;ADCK3,upstream_gene_variant,,ENST00000464693,;ADCK3,upstream_gene_variant,,ENST00000479852,;	C	ENSG00000163050	ENST00000366779	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ADCK3	HGNC	16812	protein_coding	YES	CCDS1557.1	ENSP00000355741	ADCK3_HUMAN	Q5T7A2_HUMAN,A1L377_HUMAN	UPI0000126D6B	.	.	.	.	11/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCAGATGAT	.	5	BLCA
OBSCN	0	.	GRCh37	1	228476442	228476442	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11479G>C	p.Glu3827Gln	p.E3827Q	ENST00000570156	43/116	124	101	22	97	97	0	OBSCN,missense_variant,p.Glu517Gln,ENST00000366707,;OBSCN,missense_variant,p.Glu517Gln,ENST00000366709,;OBSCN,missense_variant,p.Glu674Gln,ENST00000483539,;OBSCN,missense_variant,p.Glu3398Gln,ENST00000284548,;OBSCN,missense_variant,p.Glu2245Gln,ENST00000359599,;OBSCN,missense_variant,p.Glu3827Gln,ENST00000570156,;OBSCN,missense_variant,p.Glu3398Gln,ENST00000422127,;OBSCN,downstream_gene_variant,,ENST00000366706,;OBSCN,downstream_gene_variant,,ENST00000366704,;	C	ENSG00000154358	ENST00000570156	Transcript	missense_variant	11553	11479	3827	E/Q	Gag/Cag	.	.	.	1	OBSCN	HGNC	15719	protein_coding	YES	CCDS59204.1	ENSP00000455507	.	H3BPX2_HUMAN	UPI00027FCDB5	.	.	benign(0.179)	43/116	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF17,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGTGAGAGC	.	5	BLCA
PCNXL2	0	.	GRCh37	1	233344291	233344291	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2836C>G	p.Leu946Val	p.L946V	ENST00000258229	13/34	66	53	12	42	42	0	PCNXL2,missense_variant,p.Leu245Val,ENST00000430153,;PCNXL2,missense_variant,p.Leu115Val,ENST00000518351,;PCNXL2,missense_variant,p.Leu79Val,ENST00000488780,;PCNXL2,missense_variant,p.Leu946Val,ENST00000258229,;PCNXL2,3_prime_UTR_variant,,ENST00000475463,;PCNXL2,3_prime_UTR_variant,,ENST00000517808,;PCNXL2,non_coding_transcript_exon_variant,,ENST00000324142,;PCNXL2,downstream_gene_variant,,ENST00000519530,;	C	ENSG00000135749	ENST00000258229	Transcript	missense_variant	3071	2836	946	L/V	Cta/Gta	.	.	.	-1	PCNXL2	HGNC	8736	protein_coding	YES	CCDS44335.1	ENSP00000258229	PCX2_HUMAN	B3KNZ5_HUMAN	UPI0000F58F23	.	tolerated(0.07)	benign(0.292)	13/34	.	hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTAGAAACA	.	5	BLCA
LGALS8	0	.	GRCh37	1	236689279	236689279	+	5'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-92C>G	.	.	ENST00000526589	5/14	21	18	3	11	11	0	LGALS8,5_prime_UTR_variant,,ENST00000454943,;LGALS8,5_prime_UTR_variant,,ENST00000238181,;LGALS8,5_prime_UTR_variant,,ENST00000481485,;LGALS8,5_prime_UTR_variant,,ENST00000430527,;LGALS8,5_prime_UTR_variant,,ENST00000529489,;LGALS8,5_prime_UTR_variant,,ENST00000323938,;LGALS8,5_prime_UTR_variant,,ENST00000526634,;LGALS8,5_prime_UTR_variant,,ENST00000527974,;LGALS8,5_prime_UTR_variant,,ENST00000416919,;LGALS8,5_prime_UTR_variant,,ENST00000366584,;LGALS8,5_prime_UTR_variant,,ENST00000526589,;LGALS8,5_prime_UTR_variant,,ENST00000406509,;LGALS8,5_prime_UTR_variant,,ENST00000352231,;LGALS8,5_prime_UTR_variant,,ENST00000341872,;LGALS8,5_prime_UTR_variant,,ENST00000450372,;LGALS8,upstream_gene_variant,,ENST00000525042,;LGALS8-AS1,upstream_gene_variant,,ENST00000487567,;LGALS8-AS1,upstream_gene_variant,,ENST00000493812,;LGALS8,5_prime_UTR_variant,,ENST00000442397,;LGALS8,5_prime_UTR_variant,,ENST00000434231,;LGALS8,non_coding_transcript_exon_variant,,ENST00000528782,;LGALS8,non_coding_transcript_exon_variant,,ENST00000532826,;LGALS8,non_coding_transcript_exon_variant,,ENST00000366583,;LGALS8,non_coding_transcript_exon_variant,,ENST00000475670,;	G	ENSG00000116977	ENST00000526589	Transcript	5_prime_UTR_variant	429	.	.	.	.	.	.	.	1	LGALS8	HGNC	6569	protein_coding	YES	CCDS1611.1	ENSP00000435460	LEG8_HUMAN	Q5T3P9_HUMAN,E9PPL1_HUMAN,E9PJ77_HUMAN,B1ANM0_HUMAN	UPI0000169CE4	.	.	.	5/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCAGTTT	.	2	BLCA
RYR2	0	.	GRCh37	1	237666723	237666723	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2531G>C	p.Arg844Thr	p.R844T	ENST00000366574	22/105	86	53	33	41	41	0	RYR2,missense_variant,p.Arg828Thr,ENST00000542537,;RYR2,missense_variant,p.Arg844Thr,ENST00000366574,;RYR2,missense_variant,p.Arg842Thr,ENST00000360064,;	C	ENSG00000198626	ENST00000366574	Transcript	missense_variant	2848	2531	844	R/T	aGa/aCa	.	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	benign(0.02)	22/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAGAACTT	.	5	BLCA
E2F2	0	.	GRCh37	1	23847564	23847564	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579-1G>A	.	p.X193_splice	ENST00000361729	.	40	32	7	22	22	0	E2F2,splice_acceptor_variant,,ENST00000361729,;E2F2,upstream_gene_variant,,ENST00000487237,;	T	ENSG00000007968	ENST00000361729	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	E2F2	HGNC	3114	protein_coding	YES	CCDS236.1	ENSP00000355249	E2F2_HUMAN	.	UPI0000129AC1	.	.	.	.	3/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCTGGGA	.	5	BLCA
WDR64	0	.	GRCh37	1	241904945	241904945	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1419C>G	p.Ile473Met	p.I473M	ENST00000366552	11/27	68	43	24	35	35	0	WDR64,missense_variant,p.Ile473Met,ENST00000437684,;WDR64,missense_variant,p.Ile473Met,ENST00000366552,;WDR64,missense_variant,p.Ile244Met,ENST00000414635,;WDR64,missense_variant,p.Ile32Met,ENST00000472717,;WDR64,missense_variant,p.Ile473Met,ENST00000468967,;	G	ENSG00000162843	ENST00000366552	Transcript	missense_variant	1626	1419	473	I/M	atC/atG	.	.	.	1	WDR64	HGNC	26570	protein_coding	YES	.	ENSP00000355510	WDR64_HUMAN	D6RCR1_HUMAN	UPI0000519142	.	tolerated(0.05)	benign(0.196)	11/27	.	PROSITE_profiles:PS50294,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF138,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATCTGCTC	.	5	BLCA
ZNF695	0	.	GRCh37	1	247150744	247150744	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1073G>T	p.Gly358Val	p.G358V	ENST00000339986	4/4	57	45	12	39	39	0	ZNF695,missense_variant,p.Gly358Val,ENST00000339986,;ZNF695,intron_variant,,ENST00000487338,;ZNF695,intron_variant,,ENST00000498046,;ZNF695,intron_variant,,ENST00000366504,;ZNF695,intron_variant,,ENST00000479214,;ZNF670,intron_variant,,ENST00000474541,;ZNF695,intron_variant,,ENST00000491337,;ZNF670,intron_variant,,ENST00000465049,;	A	ENSG00000197472	ENST00000339986	Transcript	missense_variant	1221	1073	358	G/V	gGa/gTa	.	.	.	-1	ZNF695	HGNC	30954	protein_coding	YES	CCDS44344.1	ENSP00000341236	ZN695_HUMAN	.	UPI0000F734A8	.	deleterious(0.01)	probably_damaging(1)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF119,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTTTCCACAT	.	3	BLCA
ZNF496	0	.	GRCh37	1	247471861	247471861	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.922G>C	p.Glu308Gln	p.E308Q	ENST00000294753	8/9	156	125	31	109	109	0	ZNF496,missense_variant,p.Glu344Gln,ENST00000366498,;ZNF496,missense_variant,p.Glu233Gln,ENST00000461277,;ZNF496,missense_variant,p.Glu308Gln,ENST00000294753,;ZNF496,non_coding_transcript_exon_variant,,ENST00000462139,;	G	ENSG00000162714	ENST00000294753	Transcript	missense_variant	1387	922	308	E/Q	Gaa/Caa	.	.	.	-1	ZNF496	HGNC	23713	protein_coding	YES	CCDS1631.1	ENSP00000294753	ZN496_HUMAN	.	UPI000007025B	.	tolerated(0.08)	possibly_damaging(0.611)	8/9	.	hmmpanther:PTHR10032:SF212,hmmpanther:PTHR10032	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTACCT	.	5	BLCA
ARID1A	0	.	GRCh37	1	27059264	27059264	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1901C>G	p.Ser634Ter	p.S634*	ENST00000324856	4/20	137	70	67	100	100	0	ARID1A,stop_gained,p.Ser634Ter,ENST00000457599,;ARID1A,stop_gained,p.Ser251Ter,ENST00000374152,;ARID1A,stop_gained,p.Ser634Ter,ENST00000324856,;ARID1A,downstream_gene_variant,,ENST00000524572,;	G	ENSG00000117713	ENST00000324856	Transcript	stop_gained	2272	1901	634	S/*	tCa/tGa	COSM1296222	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	.	4/20	.	hmmpanther:PTHR12656,hmmpanther:PTHR12656:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Q633*|c.1897C>T|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGTCAAGAC	.	5	BLCA
TRNAU1AP	0	.	GRCh37	1	28907554	28907554	+	3'Flank	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000373830	.	134	69	64	77	77	0	TRNAU1AP,downstream_gene_variant,,ENST00000373830,;SNHG12,non_coding_transcript_exon_variant,,ENST00000384342,;SNORD99,upstream_gene_variant,,ENST00000408612,;SNHG12,upstream_gene_variant,,ENST00000384584,;SNHG12,upstream_gene_variant,,ENST00000384581,;SNHG12,intron_variant,,ENST00000475441,;SNHG12,intron_variant,,ENST00000531126,;SNHG12,intron_variant,,ENST00000483436,;SNHG12,intron_variant,,ENST00000488745,;TRNAU1AP,downstream_gene_variant,,ENST00000491577,;TRNAU1AP,downstream_gene_variant,,ENST00000484775,;TRNAU1AP,downstream_gene_variant,,ENST00000480930,;SNHG12,non_coding_transcript_exon_variant,,ENST00000474814,;SNHG12,non_coding_transcript_exon_variant,,ENST00000481368,;SNHG12,intron_variant,,ENST00000461448,;SNHG12,intron_variant,,ENST00000461832,;SNHG12,intron_variant,,ENST00000464115,;SNHG12,intron_variant,,ENST00000470977,;SNHG12,intron_variant,,ENST00000481220,;SNHG12,upstream_gene_variant,,ENST00000464612,;	C	ENSG00000180098	ENST00000373830	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	2503	1	TRNAU1AP	HGNC	30813	protein_coding	YES	CCDS324.1	ENSP00000362936	TSAP1_HUMAN	.	UPI00000437E6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTCGATAAG	.	5	BLCA
GMEB1	0	.	GRCh37	1	29037087	29037087	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954G>A	p.%3D	p.K318K	ENST00000294409	9/10	152	77	74	96	96	0	GMEB1,synonymous_variant,p.%3D,ENST00000294409,;GMEB1,synonymous_variant,p.%3D,ENST00000373816,;GMEB1,synonymous_variant,p.%3D,ENST00000361872,;GMEB1,non_coding_transcript_exon_variant,,ENST00000480454,;	A	ENSG00000162419	ENST00000294409	Transcript	synonymous_variant	1044	954	318	K	aaG/aaA	.	.	.	1	GMEB1	HGNC	4370	protein_coding	YES	CCDS327.1	ENSP00000294409	GMEB1_HUMAN	.	UPI000012B8AB	.	.	.	9/10	.	hmmpanther:PTHR10417,hmmpanther:PTHR10417:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCAAGAAGGT	.	5	BLCA
YTHDF2	0	.	GRCh37	1	29064063	29064063	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28-107C>T	.	.	ENST00000373812	.	21	11	10	11	11	0	YTHDF2,intron_variant,,ENST00000496288,;YTHDF2,intron_variant,,ENST00000373812,;YTHDF2,intron_variant,,ENST00000541996,;YTHDF2,intron_variant,,ENST00000474884,;YTHDF2,intron_variant,,ENST00000542507,;YTHDF2,non_coding_transcript_exon_variant,,ENST00000478283,;YTHDF2,upstream_gene_variant,,ENST00000468863,;YTHDF2,upstream_gene_variant,,ENST00000476976,;YTHDF2,upstream_gene_variant,,ENST00000475796,;	T	ENSG00000198492	ENST00000373812	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	YTHDF2	HGNC	31675	protein_coding	YES	CCDS41296.1	ENSP00000362918	YTHD2_HUMAN	S4R3J8_HUMAN	UPI0000034E25	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCGGGCC	.	4	BLCA
PUM1	0	.	GRCh37	1	31465320	31465320	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075C>T	p.Gln359Ter	p.Q359*	ENST00000426105	7/22	225	166	59	146	146	0	PUM1,stop_gained,p.Gln359Ter,ENST00000426105,;PUM1,stop_gained,p.Gln263Ter,ENST00000423018,;PUM1,stop_gained,p.Gln359Ter,ENST00000257075,;PUM1,stop_gained,p.Gln376Ter,ENST00000525843,;PUM1,stop_gained,p.Gln359Ter,ENST00000373747,;PUM1,stop_gained,p.Gln299Ter,ENST00000373742,;PUM1,stop_gained,p.Gln359Ter,ENST00000440538,;PUM1,stop_gained,p.Gln81Ter,ENST00000532678,;PUM1,stop_gained,p.Gln395Ter,ENST00000373741,;PUM1,stop_gained,p.Gln66Ter,ENST00000498419,;PUM1,intron_variant,,ENST00000424085,;PUM1,3_prime_UTR_variant,,ENST00000525948,;PUM1,intron_variant,,ENST00000526215,;PUM1,downstream_gene_variant,,ENST00000480602,;	A	ENSG00000134644	ENST00000426105	Transcript	stop_gained	1166	1075	359	Q/*	Cag/Tag	.	.	.	-1	PUM1	HGNC	14957	protein_coding	YES	CCDS44099.1	ENSP00000391723	PUM1_HUMAN	E9PL65_HUMAN	UPI0000203D8E	.	.	.	7/22	.	hmmpanther:PTHR12537,hmmpanther:PTHR12537:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTGAAGAG	.	5	BLCA
KIAA0319L	0	.	GRCh37	1	35900587	35900587	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3058G>A	p.Glu1020Lys	p.E1020K	ENST00000325722	21/21	64	34	30	32	32	0	KIAA0319L,missense_variant,p.Glu1020Lys,ENST00000325722,;KIAA0319L,missense_variant,p.Glu457Lys,ENST00000373266,;KIAA0319L,missense_variant,p.Glu1020Lys,ENST00000426982,;KIAA0319L,downstream_gene_variant,,ENST00000461312,;KIAA0319L,downstream_gene_variant,,ENST00000485551,;	T	ENSG00000142687	ENST00000325722	Transcript	missense_variant	3293	3058	1020	E/K	Gag/Aag	.	.	.	-1	KIAA0319L	HGNC	30071	protein_coding	YES	CCDS390.1	ENSP00000318406	K319L_HUMAN	E7EN73_HUMAN,C9JVB2_HUMAN,C9JQ56_HUMAN,C9J519_HUMAN,B1AN15_HUMAN	UPI000003F081	.	deleterious(0)	benign(0.341)	21/21	.	hmmpanther:PTHR10083:SF166,hmmpanther:PTHR10083	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCTCGGT	.	5	BLCA
TEKT2	0	.	GRCh37	1	36550832	36550832	+	Silent	SNP	G	G	A	rs770894403	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225G>A	p.%3D	p.K75K	ENST00000207457	3/10	83	49	33	55	55	0	TEKT2,synonymous_variant,p.%3D,ENST00000207457,;ADPRHL2,upstream_gene_variant,,ENST00000373178,;TEKT2,upstream_gene_variant,,ENST00000473120,;RP4-665N4.4,upstream_gene_variant,,ENST00000602765,;RP4-665N4.4,upstream_gene_variant,,ENST00000446354,;TEKT2,synonymous_variant,p.%3D,ENST00000469024,;RP4-665N4.4,upstream_gene_variant,,ENST00000437804,;	A	ENSG00000092850	ENST00000207457	Transcript	synonymous_variant	352	225	75	K	aaG/aaA	rs770894403	.	.	1	TEKT2	HGNC	11725	protein_coding	YES	CCDS401.1	ENSP00000207457	TEKT2_HUMAN	.	UPI0000001C3D	.	.	.	3/10	.	Pfam_domain:PF03148,hmmpanther:PTHR19960,hmmpanther:PTHR19960:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGGAGAT	.	5	BLCA
EXO5	0	.	GRCh37	1	40981299	40981299	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1083C>G	p.%3D	p.L361L	ENST00000372703	2/2	61	51	10	45	45	0	EXO5,synonymous_variant,p.%3D,ENST00000296380,;EXO5,synonymous_variant,p.%3D,ENST00000358527,;EXO5,synonymous_variant,p.%3D,ENST00000372703,;EXO5,downstream_gene_variant,,ENST00000419161,;EXO5,downstream_gene_variant,,ENST00000415550,;EXO5,downstream_gene_variant,,ENST00000420209,;EXO5,downstream_gene_variant,,ENST00000432259,;EXO5,downstream_gene_variant,,ENST00000418186,;EXO5,downstream_gene_variant,,ENST00000443729,;RP11-656D10.6,downstream_gene_variant,,ENST00000437060,;RP11-656D10.5,upstream_gene_variant,,ENST00000453437,;EXO5,downstream_gene_variant,,ENST00000471429,;	G	ENSG00000164002	ENST00000372703	Transcript	synonymous_variant	2157	1083	361	L	ctC/ctG	.	.	.	1	EXO5	HGNC	26115	protein_coding	YES	CCDS453.1	ENSP00000361788	EXO5_HUMAN	.	UPI00000722CF	.	.	.	2/2	.	hmmpanther:PTHR14464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCAGCTC	.	5	BLCA
HIVEP3	0	.	GRCh37	1	42041294	42041294	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5128G>C	p.Glu1710Gln	p.E1710Q	ENST00000372583	5/9	156	117	39	89	89	0	HIVEP3,missense_variant,p.Glu1710Gln,ENST00000429157,;HIVEP3,missense_variant,p.Glu1710Gln,ENST00000372584,;HIVEP3,missense_variant,p.Glu1710Gln,ENST00000247584,;HIVEP3,missense_variant,p.Glu1710Gln,ENST00000372583,;HIVEP3,non_coding_transcript_exon_variant,,ENST00000460604,;	G	ENSG00000127124	ENST00000372583	Transcript	missense_variant	6014	5128	1710	E/Q	Gag/Cag	.	.	.	-1	HIVEP3	HGNC	13561	protein_coding	YES	CCDS463.1	ENSP00000361664	ZEP3_HUMAN	.	UPI000013CC24	.	.	possibly_damaging(0.791)	5/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTTCTT	.	5	BLCA
SLC2A1	0	.	GRCh37	1	43392615	43392615	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*97C>T	.	.	ENST00000426263	10/10	25	19	6	22	22	0	SLC2A1,3_prime_UTR_variant,,ENST00000426263,;SLC2A1,downstream_gene_variant,,ENST00000439722,;SLC2A1,downstream_gene_variant,,ENST00000372500,;SLC2A1,downstream_gene_variant,,ENST00000415851,;SLC2A1,non_coding_transcript_exon_variant,,ENST00000475162,;	A	ENSG00000117394	ENST00000426263	Transcript	3_prime_UTR_variant	1755	.	.	.	.	.	.	.	-1	SLC2A1	HGNC	11005	protein_coding	YES	CCDS477.1	ENSP00000416293	GTR1_HUMAN	Q59GX2_HUMAN,B3KVN0_HUMAN	UPI00002058B9	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CGGCTGACATC	.	2	BLCA
BSND	0	.	GRCh37	1	55464937	55464937	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78G>A	p.Met26Ile	p.M26I	ENST00000371265	1/4	87	45	41	57	57	0	BSND,missense_variant,p.Met26Ile,ENST00000371265,;	A	ENSG00000162399	ENST00000371265	Transcript	missense_variant	332	78	26	M/I	atG/atA	.	.	.	1	BSND	HGNC	16512	protein_coding	YES	CCDS602.1	ENSP00000360312	BSND_HUMAN	Q5VU50_HUMAN	UPI000006DC8D	.	deleterious(0)	possibly_damaging(0.641)	1/4	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATGAGCCA	.	5	BLCA
USP24	0	.	GRCh37	1	55595163	55595163	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3622G>C	p.Ala1208Pro	p.A1208P	ENST00000294383	32/68	47	37	10	18	18	0	USP24,missense_variant,p.Ala1048Pro,ENST00000407756,;USP24,missense_variant,p.Ala1208Pro,ENST00000294383,;	G	ENSG00000162402	ENST00000294383	Transcript	missense_variant	3622	3622	1208	A/P	Gct/Cct	.	.	.	-1	USP24	HGNC	12623	protein_coding	YES	CCDS44154.2	ENSP00000294383	UBP24_HUMAN	.	UPI000059CFDE	.	deleterious(0.01)	probably_damaging(0.972)	32/68	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF349	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAGCTTTGA	.	5	BLCA
ITGB3BP	0	.	GRCh37	1	63920103	63920103	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492C>G	p.Ile164Met	p.I164M	ENST00000371092	7/10	76	63	13	59	59	0	ITGB3BP,missense_variant,p.Ile164Met,ENST00000371092,;ITGB3BP,missense_variant,p.Ile125Met,ENST00000271002,;ITGB3BP,missense_variant,p.Ile125Met,ENST00000283568,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000461681,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000460394,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000476508,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000462285,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000489863,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000463803,;ITGB3BP,downstream_gene_variant,,ENST00000465781,;ITGB3BP,downstream_gene_variant,,ENST00000460251,;ITGB3BP,missense_variant,p.Ile125Met,ENST00000489099,;	C	ENSG00000142856	ENST00000371092	Transcript	missense_variant	553	492	164	I/M	atC/atG	.	.	.	-1	ITGB3BP	HGNC	6157	protein_coding	YES	CCDS55603.1	ENSP00000360133	CENPR_HUMAN	D3DQ59_HUMAN	UPI0000470389	.	deleterious(0.01)	possibly_damaging(0.88)	7/10	.	hmmpanther:PTHR15581,hmmpanther:PTHR15581:SF0,Pfam_domain:PF06729,PIRSF_domain:PIRSF011860	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGAGATTCC	.	5	BLCA
CAMTA1	0	.	GRCh37	1	7826645	7826645	+	3'UTR	SNP	G	G	A	rs562054456	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*94G>A	.	.	ENST00000303635	23/23	31	28	3	19	19	0	CAMTA1,3_prime_UTR_variant,,ENST00000490905,;CAMTA1,3_prime_UTR_variant,,ENST00000303635,;CAMTA1,3_prime_UTR_variant,,ENST00000495233,;VAMP3,upstream_gene_variant,,ENST00000054666,;CAMTA1,downstream_gene_variant,,ENST00000439411,;CAMTA1,downstream_gene_variant,,ENST00000476864,;	A	ENSG00000171735	ENST00000303635	Transcript	3_prime_UTR_variant	5323	.	.	.	.	rs562054456	.	.	1	CAMTA1	HGNC	18806	protein_coding	YES	CCDS30576.1	ENSP00000306522	CMTA1_HUMAN	.	UPI00001C1D72	.	.	.	23/23	.	.	A:0.0006	A:0.0008	A:0	.	A:0.001	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACACGCACAC	byFrequency|by1000G	2	BLCA
C1orf52	0	.	GRCh37	1	85718273	85718273	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*39G>A	.	.	ENST00000471115	3/3	33	20	13	22	22	0	C1orf52,3_prime_UTR_variant,,ENST00000471115,;C1orf52,downstream_gene_variant,,ENST00000344356,;C1orf52,non_coding_transcript_exon_variant,,ENST00000294661,;C1orf52,downstream_gene_variant,,ENST00000493514,;	T	ENSG00000162642	ENST00000471115	Transcript	3_prime_UTR_variant	597	.	.	.	.	.	.	.	-1	C1orf52	HGNC	24871	protein_coding	YES	CCDS703.1	ENSP00000419417	CA052_HUMAN	.	UPI0000072AC0	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCAACAA	.	5	BLCA
SLC2A7	0	.	GRCh37	1	9083072	9083072	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.216C>T	p.%3D	p.L72L	ENST00000400906	3/12	182	87	95	100	100	0	SLC2A7,synonymous_variant,p.%3D,ENST00000400906,;	A	ENSG00000197241	ENST00000400906	Transcript	synonymous_variant	216	216	72	L	ctC/ctT	.	.	.	-1	SLC2A7	HGNC	13445	protein_coding	YES	CCDS98.2	ENSP00000383698	GTR7_HUMAN	.	UPI00001A73A8	.	.	.	3/12	.	Superfamily_domains:SSF103473,Pfam_domain:PF00083,TIGRFAM_domain:TIGR00879,hmmpanther:PTHR24063:SF227,hmmpanther:PTHR24063,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGAGCTT	.	5	BLCA
EVI5	0	.	GRCh37	1	92979317	92979317	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2329G>C	p.Glu777Gln	p.E777Q	ENST00000370331	18/18	139	77	62	89	89	0	EVI5,missense_variant,p.Glu788Gln,ENST00000543509,;EVI5,missense_variant,p.Glu777Gln,ENST00000540033,;EVI5,missense_variant,p.Glu777Gln,ENST00000370331,;	G	ENSG00000067208	ENST00000370331	Transcript	missense_variant	2339	2329	777	E/Q	Gag/Cag	.	.	.	-1	EVI5	HGNC	3501	protein_coding	YES	CCDS30774.1	ENSP00000359356	EVI5_HUMAN	.	UPI0000470AFE	.	tolerated_low_confidence(0.06)	benign(0.176)	18/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCACTAC	.	5	BLCA
CNN3	0	.	GRCh37	1	95368702	95368702	+	Silent	SNP	G	G	A	rs374270794	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222C>T	p.%3D	p.N74N	ENST00000370206	3/7	78	68	9	51	51	0	CNN3,synonymous_variant,p.%3D,ENST00000394202,;CNN3,synonymous_variant,p.%3D,ENST00000370206,;CNN3,synonymous_variant,p.%3D,ENST00000538964,;CNN3,synonymous_variant,p.%3D,ENST00000415017,;CNN3,synonymous_variant,p.%3D,ENST00000545882,;CNN3,non_coding_transcript_exon_variant,,ENST00000487539,;CNN3,non_coding_transcript_exon_variant,,ENST00000474409,;CNN3,upstream_gene_variant,,ENST00000461018,;	A	ENSG00000117519	ENST00000370206	Transcript	synonymous_variant	606	222	74	N	aaC/aaT	rs374270794,COSM4010741	.	.	-1	CNN3	HGNC	2157	protein_coding	YES	CCDS30775.1	ENSP00000359225	CNN3_HUMAN	Q9BWY6_HUMAN,E9PDU6_HUMAN,B4DFK6_HUMAN	UPI0000127B01	.	.	.	3/7	.	PROSITE_profiles:PS50021,hmmpanther:PTHR18959,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576,Prints_domain:PR00889	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTCGTTGAC	byFrequency|byCluster	4	BLCA
ESF1	0	.	GRCh37	20	13695424	13695424	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*97G>C	.	.	ENST00000202816	14/14	11	5	6	11	11	0	ESF1,3_prime_UTR_variant,,ENST00000202816,;	G	ENSG00000089048	ENST00000202816	Transcript	3_prime_UTR_variant	2761	.	.	.	.	.	.	.	-1	ESF1	HGNC	15898	protein_coding	YES	CCDS13117.1	ENSP00000202816	ESF1_HUMAN	.	UPI00001285C8	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGTTCTTGAA	.	3	BLCA
NDUFAF5	0	.	GRCh37	20	13765791	13765791	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.77G>A	p.Arg26His	p.R26H	ENST00000378106	1/11	32	23	9	18	18	0	NDUFAF5,missense_variant,p.Arg26His,ENST00000463598,;NDUFAF5,missense_variant,p.Arg26His,ENST00000378106,;ESF1,upstream_gene_variant,,ENST00000202816,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000481249,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000477732,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000485738,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000475968,;NDUFAF5,upstream_gene_variant,,ENST00000469177,;NDUFAF5,upstream_gene_variant,,ENST00000476536,;NDUFAF5,missense_variant,p.Arg26His,ENST00000378081,;	A	ENSG00000101247	ENST00000378106	Transcript	missense_variant	196	77	26	R/H	cGt/cAt	.	.	.	1	NDUFAF5	HGNC	15899	protein_coding	YES	CCDS13118.1	ENSP00000367346	NDUF5_HUMAN	.	UPI0000231C9F	.	tolerated(0.55)	benign(0.001)	1/11	.	hmmpanther:PTHR13090	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGTAGGG	.	5	BLCA
CRNKL1	0	.	GRCh37	20	20018015	20018015	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2331C>G	p.%3D	p.L777L	ENST00000377340	14/15	318	209	109	165	165	0	CRNKL1,synonymous_variant,p.%3D,ENST00000377327,;CRNKL1,synonymous_variant,p.%3D,ENST00000377340,;CRNKL1,synonymous_variant,p.%3D,ENST00000536226,;NAA20,downstream_gene_variant,,ENST00000310450,;NAA20,downstream_gene_variant,,ENST00000398602,;NAA20,downstream_gene_variant,,ENST00000334982,;CRNKL1,non_coding_transcript_exon_variant,,ENST00000521379,;NAA20,downstream_gene_variant,,ENST00000480550,;NAA20,downstream_gene_variant,,ENST00000463154,;NAA20,downstream_gene_variant,,ENST00000484480,;CRNKL1,3_prime_UTR_variant,,ENST00000490910,;CRNKL1,3_prime_UTR_variant,,ENST00000496549,;CRNKL1,non_coding_transcript_exon_variant,,ENST00000490258,;	C	ENSG00000101343	ENST00000377340	Transcript	synonymous_variant	2363	2331	777	L	ctC/ctG	.	.	.	-1	CRNKL1	HGNC	15762	protein_coding	YES	CCDS33446.1	ENSP00000366557	CRNL1_HUMAN	.	UPI00004A39A7	.	.	.	14/15	.	hmmpanther:PTHR11246,hmmpanther:PTHR11246:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATGAGTTT	.	5	BLCA
STK35	0	.	GRCh37	20	2097983	2097983	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1564G>C	p.Glu522Gln	p.E522Q	ENST00000381482	3/4	124	85	38	74	74	0	STK35,missense_variant,p.Glu522Gln,ENST00000381482,;STK35,missense_variant,p.Glu389Gln,ENST00000246032,;STK35,intron_variant,,ENST00000400064,;STK35,missense_variant,p.Glu383Gln,ENST00000493263,;	C	ENSG00000125834	ENST00000381482	Transcript	missense_variant	1835	1564	522	E/Q	Gaa/Caa	.	.	.	1	STK35	HGNC	16254	protein_coding	YES	CCDS13024.2	ENSP00000370891	STK35_HUMAN	.	UPI00003FCD67	.	tolerated(0.23)	benign(0.401)	3/4	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11042,hmmpanther:PTHR11042:SF59,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTGAACTT	.	5	BLCA
NOP56	0	.	GRCh37	20	2638800	2638800	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1645G>A	p.Glu549Lys	p.E549K	ENST00000329276	12/12	39	22	17	20	20	0	NOP56,missense_variant,p.Glu549Lys,ENST00000329276,;NOP56,downstream_gene_variant,,ENST00000445139,;IDH3B,downstream_gene_variant,,ENST00000380851,;IDH3B,downstream_gene_variant,,ENST00000380843,;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,;SNORD110,downstream_gene_variant,,ENST00000408189,;SNORA51,downstream_gene_variant,,ENST00000606420,;SNORD57,downstream_gene_variant,,ENST00000448188,;SNORD56,downstream_gene_variant,,ENST00000413522,;NOP56,non_coding_transcript_exon_variant,,ENST00000467857,;NOP56,non_coding_transcript_exon_variant,,ENST00000466447,;NOP56,non_coding_transcript_exon_variant,,ENST00000492135,;NOP56,non_coding_transcript_exon_variant,,ENST00000462630,;IDH3B,downstream_gene_variant,,ENST00000474315,;IDH3B,downstream_gene_variant,,ENST00000462967,;NOP56,downstream_gene_variant,,ENST00000480992,;IDH3B,downstream_gene_variant,,ENST00000491065,;IDH3B,downstream_gene_variant,,ENST00000492240,;NOP56,downstream_gene_variant,,ENST00000480447,;IDH3B,downstream_gene_variant,,ENST00000488299,;NOP56,downstream_gene_variant,,ENST00000471023,;IDH3B,downstream_gene_variant,,ENST00000466999,;NOP56,downstream_gene_variant,,ENST00000484998,;NOP56,downstream_gene_variant,,ENST00000470143,;IDH3B,downstream_gene_variant,,ENST00000477689,;NOP56,downstream_gene_variant,,ENST00000496775,;NOP56,downstream_gene_variant,,ENST00000490753,;NOP56,downstream_gene_variant,,ENST00000494697,;NOP56,downstream_gene_variant,,ENST00000460258,;IDH3B,downstream_gene_variant,,ENST00000466494,;NOP56,downstream_gene_variant,,ENST00000469588,;IDH3B,downstream_gene_variant,,ENST00000479376,;NOP56,3_prime_UTR_variant,,ENST00000467196,;	A	ENSG00000101361	ENST00000329276	Transcript	missense_variant	2161	1645	549	E/K	Gag/Aag	.	.	.	1	NOP56	HGNC	15911	protein_coding	YES	CCDS13030.1	ENSP00000370589	NOP56_HUMAN	Q9BSN3_HUMAN	UPI000016A81D	.	deleterious_low_confidence(0.02)	benign(0.292)	12/12	.	hmmpanther:PTHR10894:SF0,hmmpanther:PTHR10894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGGAGGCA	.	5	BLCA
C20orf112	0	.	GRCh37	20	31040091	31040091	+	Missense_Mutation	SNP	C	C	G	rs75184133	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1038G>C	p.Leu346Phe	p.L346F	ENST00000359676	7/8	117	81	35	62	62	0	C20orf112,missense_variant,p.Leu346Phe,ENST00000359676,;RP5-1184F4.5,intron_variant,,ENST00000442179,;C20orf112,downstream_gene_variant,,ENST00000475781,;	G	ENSG00000197183	ENST00000359676	Transcript	missense_variant	1181	1038	346	L/F	ttG/ttC	rs75184133,COSM3840742	.	.	-1	C20orf112	HGNC	16106	protein_coding	YES	CCDS13202.1	ENSP00000352704	CT112_HUMAN	.	UPI0000128600	.	deleterious(0.03)	benign(0.099)	7/8	.	hmmpanther:PTHR12449:SF16,hmmpanther:PTHR12449	T:0.0022	T:0.0083	T:0	.	T:0	T:0	T:0	T:0.0109	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAAGGC	byFrequency|byCluster|by1000G	4	BLCA
SUN5	0	.	GRCh37	20	31571699	31571699	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1041G>A	p.%3D	p.G347G	ENST00000356173	13/13	183	119	64	104	104	0	SUN5,synonymous_variant,p.%3D,ENST00000356173,;SUN5,synonymous_variant,p.%3D,ENST00000375523,;	T	ENSG00000167098	ENST00000356173	Transcript	synonymous_variant	1134	1041	347	G	ggG/ggA	.	.	.	-1	SUN5	HGNC	16252	protein_coding	YES	CCDS13209.1	ENSP00000348496	SUN5_HUMAN	.	UPI0000135D7C	.	.	.	13/13	.	PROSITE_profiles:PS51469,hmmpanther:PTHR12911:SF19,hmmpanther:PTHR12911,Pfam_domain:PF07738	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCCCCCA	.	5	BLCA
SLC4A11	0	.	GRCh37	20	3214842	3214842	+	Missense_Mutation	SNP	C	C	T	rs772271724	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.539G>A	p.Arg180Gln	p.R180Q	ENST00000380059	5/20	142	91	51	72	72	0	SLC4A11,missense_variant,p.Arg137Gln,ENST00000539553,;SLC4A11,missense_variant,p.Arg153Gln,ENST00000380056,;SLC4A11,missense_variant,p.Arg180Gln,ENST00000380059,;SLC4A11,downstream_gene_variant,,ENST00000437836,;SLC4A11,upstream_gene_variant,,ENST00000470631,;SLC4A11,upstream_gene_variant,,ENST00000488544,;SLC4A11,missense_variant,p.Arg118Gln,ENST00000474451,;	T	ENSG00000088836	ENST00000380059	Transcript	missense_variant	641	539	180	R/Q	cGg/cAg	rs772271724,COSM3423594,COSM3423593	.	.	-1	SLC4A11	HGNC	16438	protein_coding	YES	CCDS54445.1	ENSP00000369399	.	R9UQR4_HUMAN,R9UQ67_HUMAN,R9UQ64_HUMAN,R9UQ62_HUMAN,R9UQ58_HUMAN,R9UNY3_HUMAN	UPI00000738A5	.	tolerated(0.34)	possibly_damaging(0.812)	5/20	.	hmmpanther:PTHR11453:SF35,hmmpanther:PTHR11453,Superfamily_domains:SSF55804	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTCCGCAGC	.	5	BLCA
KCNS1	0	.	GRCh37	20	43726795	43726795	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618C>G	p.%3D	p.L206L	ENST00000306117	4/5	20	16	4	16	16	0	KCNS1,synonymous_variant,p.%3D,ENST00000537075,;KCNS1,synonymous_variant,p.%3D,ENST00000306117,;	C	ENSG00000124134	ENST00000306117	Transcript	synonymous_variant	1015	618	206	L	ctC/ctG	.	.	.	-1	KCNS1	HGNC	6300	protein_coding	YES	CCDS13342.1	ENSP00000307694	KCNS1_HUMAN	A2RUL8_HUMAN	UPI000012DCD1	.	.	.	4/5	.	Low_complexity_(Seg):seg,Gene3D:1.20.120.350,hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF61	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCCAGAGGCG	.	4	BLCA
PLTP	0	.	GRCh37	20	44540126	44540126	+	5'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-35C>T	.	.	ENST00000477313	1/15	46	26	20	30	30	0	PLTP,missense_variant,p.Ser9Phe,ENST00000542937,;PLTP,5_prime_UTR_variant,,ENST00000477313,;PLTP,intron_variant,,ENST00000372431,;PLTP,intron_variant,,ENST00000420868,;PLTP,intron_variant,,ENST00000354050,;PLTP,upstream_gene_variant,,ENST00000372420,;	A	ENSG00000100979	ENST00000477313	Transcript	5_prime_UTR_variant	561	.	.	.	.	.	.	.	-1	PLTP	HGNC	9093	protein_coding	YES	CCDS13386.1	ENSP00000417138	PLTP_HUMAN	.	UPI0000131C7C	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCAGGAGTTA	.	3	BLCA
ZNF335	0	.	GRCh37	20	44586517	44586517	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2304C>G	p.%3D	p.L768L	ENST00000322927	16/28	137	90	47	91	91	0	ZNF335,synonymous_variant,p.%3D,ENST00000322927,;ZNF335,synonymous_variant,p.%3D,ENST00000426788,;ZNF335,downstream_gene_variant,,ENST00000475002,;	C	ENSG00000198026	ENST00000322927	Transcript	synonymous_variant	2405	2304	768	L	ctC/ctG	.	.	.	-1	ZNF335	HGNC	15807	protein_coding	YES	CCDS13389.1	ENSP00000325326	ZN335_HUMAN	.	UPI0000001BC3	.	.	.	16/28	.	hmmpanther:PTHR24403:SF31,hmmpanther:PTHR24403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACAGAGCAA	.	5	BLCA
SLC35C2	0	.	GRCh37	20	44986356	44986356	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177C>G	p.Phe59Leu	p.F59L	ENST00000372227	3/10	101	75	26	64	64	0	SLC35C2,missense_variant,p.Phe88Leu,ENST00000543605,;SLC35C2,missense_variant,p.Phe59Leu,ENST00000424568,;SLC35C2,missense_variant,p.Phe59Leu,ENST00000372230,;SLC35C2,missense_variant,p.Phe59Leu,ENST00000317734,;SLC35C2,missense_variant,p.Phe59Leu,ENST00000243896,;SLC35C2,missense_variant,p.Phe59Leu,ENST00000372227,;SLC35C2,missense_variant,p.Phe59Leu,ENST00000420518,;SLC35C2,intron_variant,,ENST00000372229,;SLC35C2,intron_variant,,ENST00000484318,;SLC35C2,intron_variant,,ENST00000481809,;SLC35C2,downstream_gene_variant,,ENST00000484188,;SLC35C2,upstream_gene_variant,,ENST00000487729,;SLC35C2,upstream_gene_variant,,ENST00000493599,;SLC35C2,upstream_gene_variant,,ENST00000480329,;	C	ENSG00000080189	ENST00000372227	Transcript	missense_variant	718	177	59	F/L	ttC/ttG	.	.	.	-1	SLC35C2	HGNC	17117	protein_coding	YES	CCDS13396.1	ENSP00000361301	S35C2_HUMAN	.	UPI00000015E5	.	tolerated(1)	benign(0)	3/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11132:SF32,hmmpanther:PTHR11132	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGAGAAGAG	.	5	BLCA
NFATC2	0	.	GRCh37	20	50048947	50048947	+	Missense_Mutation	SNP	C	C	G	rs768990056	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2379G>C	p.Gln793His	p.Q793H	ENST00000396009	9/10	92	64	28	71	71	0	NFATC2,missense_variant,p.Gln793His,ENST00000396009,;NFATC2,missense_variant,p.Gln773His,ENST00000609943,;NFATC2,missense_variant,p.Gln793His,ENST00000371564,;NFATC2,missense_variant,p.Gln574His,ENST00000609507,;NFATC2,missense_variant,p.Gln574His,ENST00000610033,;NFATC2,missense_variant,p.Gln773His,ENST00000414705,;	G	ENSG00000101096	ENST00000396009	Transcript	missense_variant	2599	2379	793	Q/H	caG/caC	rs768990056	.	.	-1	NFATC2	HGNC	7776	protein_coding	YES	CCDS13437.1	ENSP00000379330	NFAC2_HUMAN	B5B2P4_HUMAN,B5B2P3_HUMAN	UPI0000167D0F	.	tolerated(0.11)	probably_damaging(0.993)	9/10	.	hmmpanther:PTHR12533:SF4,hmmpanther:PTHR12533	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCTGGCC	.	5	BLCA
FERMT1	0	.	GRCh37	20	6078252	6078252	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.876C>T	p.%3D	p.L292L	ENST00000217289	7/15	161	101	60	105	105	0	FERMT1,synonymous_variant,p.%3D,ENST00000536936,;FERMT1,synonymous_variant,p.%3D,ENST00000217289,;FERMT1,upstream_gene_variant,,ENST00000478194,;	A	ENSG00000101311	ENST00000217289	Transcript	synonymous_variant	1665	876	292	L	ctC/ctT	.	.	.	-1	FERMT1	HGNC	15889	protein_coding	YES	CCDS13098.1	ENSP00000217289	FERM1_HUMAN	Q5JWV4_HUMAN,G3V1L6_HUMAN	UPI00001285DD	.	.	.	7/15	.	hmmpanther:PTHR16160:SF12,hmmpanther:PTHR16160,Pfam_domain:PF00373,Gene3D:1.20.80.10,SMART_domains:SM00295,Superfamily_domains:SSF47031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATAGAGTTG	.	5	BLCA
LAMA5	0	.	GRCh37	20	60898905	60898905	+	Missense_Mutation	SNP	C	C	T	rs190401499	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5776G>A	p.Glu1926Lys	p.E1926K	ENST00000252999	44/80	21	11	10	14	14	0	LAMA5,missense_variant,p.Glu1926Lys,ENST00000252999,;LAMA5,downstream_gene_variant,,ENST00000497363,;LAMA5,non_coding_transcript_exon_variant,,ENST00000464134,;LAMA5,upstream_gene_variant,,ENST00000481120,;	T	ENSG00000130702	ENST00000252999	Transcript	missense_variant	5843	5776	1926	E/K	Gag/Aag	rs190401499	.	.	-1	LAMA5	HGNC	6485	protein_coding	YES	CCDS33502.1	ENSP00000252999	LAMA5_HUMAN	O75079_HUMAN	UPI0000161FDC	.	.	benign(0.062)	44/80	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF261,hmmpanther:PTHR10574,Pfam_domain:PF00053,Gene3D:2.10.25.10,SMART_domains:SM00180,Superfamily_domains:SSF57196	T:0.0008	T:0	T:0	.	T:0.004	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGGCGA	byFrequency|byCluster|by1000G	5	BLCA
SYNJ1	0	.	GRCh37	21	34051036	34051036	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1546G>A	p.Asp516Asn	p.D516N	ENST00000433931	12/32	144	106	37	83	83	0	SYNJ1,missense_variant,p.Asp516Asn,ENST00000382499,;SYNJ1,missense_variant,p.Asp480Asn,ENST00000429236,;SYNJ1,missense_variant,p.Asp480Asn,ENST00000382491,;SYNJ1,missense_variant,p.Asp477Asn,ENST00000322229,;SYNJ1,missense_variant,p.Asp516Asn,ENST00000433931,;SYNJ1,missense_variant,p.Asp477Asn,ENST00000357345,;	T	ENSG00000159082	ENST00000433931	Transcript	missense_variant	1554	1546	516	D/N	Gat/Aat	.	.	.	-1	SYNJ1	HGNC	11503	protein_coding	YES	CCDS33539.2	ENSP00000409667	.	J3KQV8_HUMAN,C9J1Z6_HUMAN	UPI0001A47572	.	deleterious(0)	probably_damaging(0.999)	12/32	.	hmmpanther:PTHR11200:SF126,hmmpanther:PTHR11200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCAATGG	.	5	BLCA
MX1	0	.	GRCh37	21	42824764	42824764	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1726G>A	p.Glu576Lys	p.E576K	ENST00000398600	18/19	369	274	94	187	187	0	MX1,missense_variant,p.Glu576Lys,ENST00000398600,;MX1,missense_variant,p.Glu553Lys,ENST00000288383,;MX1,missense_variant,p.Glu576Lys,ENST00000398598,;MX1,missense_variant,p.Glu576Lys,ENST00000455164,;MX1,downstream_gene_variant,,ENST00000491110,;MX1,downstream_gene_variant,,ENST00000486275,;	A	ENSG00000157601	ENST00000398600	Transcript	missense_variant	2751	1726	576	E/K	Gag/Aag	.	.	.	1	MX1	HGNC	7532	protein_coding	YES	CCDS13673.1	ENSP00000381601	MX1_HUMAN	H9KVD3_HUMAN,H9KVD0_HUMAN,H9KVC9_HUMAN,H9KVC7_HUMAN,H9KVC4_HUMAN,H9KVC3_HUMAN	UPI0000206F16	.	deleterious(0)	benign(0.303)	18/19	.	PROSITE_profiles:PS51388,hmmpanther:PTHR11566:SF51,hmmpanther:PTHR11566,Pfam_domain:PF02212,SMART_domains:SM00302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAGGAGATC	.	5	BLCA
TMEM191C	0	.	GRCh37	22	21828948	21828948	+	3'Flank	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000449424	.	28	17	11	17	17	0	TMEM191C,downstream_gene_variant,,ENST00000536718,;TMEM191C,downstream_gene_variant,,ENST00000449424,;TMEM191C,downstream_gene_variant,,ENST00000453397,;TMEM191C,downstream_gene_variant,,ENST00000456303,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000450651,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000470274,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000477296,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000462560,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000494740,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000486209,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000463608,;TMEM191C,downstream_gene_variant,,ENST00000425458,;TMEM191C,downstream_gene_variant,,ENST00000417708,;PI4KAP2,downstream_gene_variant,,ENST00000480319,;PI4KAP2,downstream_gene_variant,,ENST00000467443,;TMEM191C,downstream_gene_variant,,ENST00000427147,;TMEM191C,downstream_gene_variant,,ENST00000446867,;TMEM191C,downstream_gene_variant,,ENST00000456153,;TMEM191C,downstream_gene_variant,,ENST00000415764,;PI4KAP2,downstream_gene_variant,,ENST00000479693,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000546263,;PI4KAP2,non_coding_transcript_exon_variant,,ENST00000360806,;	T	ENSG00000206140	ENST00000449424	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	3390	1	TMEM191C	HGNC	33601	lincRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	TCAGTCATGTT	.	4	BLCA
POM121L9P	0	.	GRCh37	22	24658509	24658509	+	RNA	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2926C>A	.	.	ENST00000414583	6/7	36	17	18	37	37	0	POM121L9P,non_coding_transcript_exon_variant,,ENST00000414583,;POM121L9P,downstream_gene_variant,,ENST00000419222,;BCRP1,non_coding_transcript_exon_variant,,ENST00000444246,;	A	ENSG00000128262	ENST00000414583	Transcript	non_coding_transcript_exon_variant	2926	.	.	.	.	.	.	.	1	POM121L9P	HGNC	30080	processed_transcript	YES	.	.	.	.	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCATCAC	.	5	BLCA
PIWIL3	0	.	GRCh37	22	25150141	25150141	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.817C>G	p.Gln273Glu	p.Q273E	ENST00000332271	8/21	81	39	42	61	61	0	PIWIL3,missense_variant,p.Gln273Glu,ENST00000332271,;PIWIL3,missense_variant,p.Gln164Glu,ENST00000527701,;PIWIL3,missense_variant,p.Gln164Glu,ENST00000533313,;PIWIL3,non_coding_transcript_exon_variant,,ENST00000532537,;	C	ENSG00000184571	ENST00000332271	Transcript	missense_variant	1234	817	273	Q/E	Caa/Gaa	.	.	.	-1	PIWIL3	HGNC	18443	protein_coding	YES	CCDS33623.1	ENSP00000330031	PIWL3_HUMAN	.	UPI00002073D6	.	tolerated(0.17)	benign(0.005)	8/21	.	hmmpanther:PTHR22892:SF28,hmmpanther:PTHR22892,Superfamily_domains:SSF101690	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTGAAGAA	.	5	BLCA
PIK3IP1	0	.	GRCh37	22	31685334	31685334	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.554G>C	p.Gly185Ala	p.G185A	ENST00000215912	5/6	43	25	18	33	33	0	PIK3IP1,missense_variant,p.Gly106Ala,ENST00000487265,;PIK3IP1,missense_variant,p.Gly185Ala,ENST00000402249,;PIK3IP1,missense_variant,p.Gly185Ala,ENST00000215912,;PIK3IP1,intron_variant,,ENST00000441972,;PIK3IP1,downstream_gene_variant,,ENST00000443175,;RP3-400N23.6,upstream_gene_variant,,ENST00000440456,;PIK3IP1,non_coding_transcript_exon_variant,,ENST00000493034,;PIK3IP1,non_coding_transcript_exon_variant,,ENST00000480654,;	G	ENSG00000100100	ENST00000215912	Transcript	missense_variant	738	554	185	G/A	gGa/gCa	COSM444890	.	.	-1	PIK3IP1	HGNC	24942	protein_coding	YES	CCDS13893.1	ENSP00000215912	P3IP1_HUMAN	.	UPI000003F53C	.	deleterious(0)	probably_damaging(0.999)	5/6	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24272:SF0,hmmpanther:PTHR24272	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCGATG	.	5	BLCA
DEPDC5	0	.	GRCh37	22	32156646	32156646	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151C>G	p.Leu51Val	p.L51V	ENST00000382112	3/42	83	47	35	51	51	0	DEPDC5,missense_variant,p.Leu51Val,ENST00000382105,;DEPDC5,missense_variant,p.Leu51Val,ENST00000266091,;DEPDC5,missense_variant,p.Leu51Val,ENST00000400248,;DEPDC5,missense_variant,p.Leu51Val,ENST00000382112,;DEPDC5,missense_variant,p.Leu51Val,ENST00000400246,;DEPDC5,missense_variant,p.Leu51Val,ENST00000382111,;DEPDC5,missense_variant,p.Leu51Val,ENST00000400242,;DEPDC5,missense_variant,p.Leu51Val,ENST00000535622,;DEPDC5,missense_variant,p.Leu51Val,ENST00000536766,;DEPDC5,missense_variant,p.Leu51Val,ENST00000400249,;DEPDC5,downstream_gene_variant,,ENST00000437411,;RN7SL20P,downstream_gene_variant,,ENST00000488827,;DEPDC5,3_prime_UTR_variant,,ENST00000456178,;	G	ENSG00000100150	ENST00000382112	Transcript	missense_variant	221	151	51	L/V	Ctg/Gtg	.	.	.	1	DEPDC5	HGNC	18423	protein_coding	YES	CCDS46692.1	ENSP00000371546	DEPD5_HUMAN	C9JGS4_HUMAN,B4DGG3_HUMAN	UPI00004708D5	.	deleterious(0.02)	benign(0.076)	3/42	.	hmmpanther:PTHR13179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCTGCTT	.	5	BLCA
SOX10	0	.	GRCh37	22	38369569	38369569	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1334C>G	p.Ser445Ter	p.S445*	ENST00000396884	4/4	38	16	22	21	21	0	SOX10,stop_gained,p.Ser445Ter,ENST00000360880,;SOX10,stop_gained,p.Ser445Ter,ENST00000396884,;POLR2F,intron_variant,,ENST00000407936,;SOX10,intron_variant,,ENST00000446929,;POLR2F,intron_variant,,ENST00000405557,;SOX10,downstream_gene_variant,,ENST00000427770,;POLR2F,downstream_gene_variant,,ENST00000442738,;POLR2F,downstream_gene_variant,,ENST00000484894,;SOX10,downstream_gene_variant,,ENST00000470555,;POLR2F,intron_variant,,ENST00000443002,;	C	ENSG00000100146	ENST00000396884	Transcript	stop_gained	1617	1334	445	S/*	tCa/tGa	.	.	.	-1	SOX10	HGNC	11190	protein_coding	YES	CCDS13964.1	ENSP00000380093	SOX10_HUMAN	A6PVD3_HUMAN	UPI00001362AA	.	.	.	4/4	.	hmmpanther:PTHR10270:SF106,hmmpanther:PTHR10270	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTGAGGGG	.	5	BLCA
EP300	0	.	GRCh37	22	41551100	41551100	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3244C>T	p.Gln1082Ter	p.Q1082*	ENST00000263253	17/31	241	86	154	201	201	0	EP300,stop_gained,p.Gln1082Ter,ENST00000263253,;	T	ENSG00000100393	ENST00000263253	Transcript	stop_gained	4463	3244	1082	Q/*	Cag/Tag	.	.	.	1	EP300	HGNC	3373	protein_coding	YES	CCDS14010.1	ENSP00000263253	EP300_HUMAN	B5A250_HUMAN	UPI00001AE876	.	.	.	17/31	.	PROSITE_profiles:PS50014,hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF4,PROSITE_patterns:PS00633,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370,Prints_domain:PR00503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCAGCTT	.	5	BLCA
PNPLA3	0	.	GRCh37	22	44319842	44319842	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51C>A	p.Phe17Leu	p.F17L	ENST00000216180	1/9	17	5	12	21	21	0	PNPLA3,missense_variant,p.Phe17Leu,ENST00000216180,;PNPLA3,missense_variant,p.Phe17Leu,ENST00000423180,;PNPLA3,upstream_gene_variant,,ENST00000478713,;PNPLA3,missense_variant,p.Phe17Leu,ENST00000406117,;	A	ENSG00000100344	ENST00000216180	Transcript	missense_variant	224	51	17	F/L	ttC/ttA	.	.	.	1	PNPLA3	HGNC	18590	protein_coding	YES	CCDS14054.1	ENSP00000216180	PLPL3_HUMAN	U3N901_HUMAN	UPI000006CED5	.	deleterious(0.03)	possibly_damaging(0.469)	1/9	.	hmmpanther:PTHR12406,hmmpanther:PTHR12406:SF22,Pfam_domain:PF01734,Superfamily_domains:SSF52151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCCTGGG	.	5	BLCA
PKDREJ	0	.	GRCh37	22	46652706	46652706	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6514C>T	p.%3D	p.L2172L	ENST00000253255	1/1	91	37	53	66	66	0	PKDREJ,synonymous_variant,p.%3D,ENST00000253255,;	A	ENSG00000130943	ENST00000253255	Transcript	synonymous_variant	6514	6514	2172	L	Ctg/Ttg	.	.	.	-1	PKDREJ	HGNC	9015	protein_coding	YES	CCDS14073.1	ENSP00000253255	PKDRE_HUMAN	A6MW40_HUMAN	UPI0000031D01	.	.	.	1/1	.	hmmpanther:PTHR10877:SF113,hmmpanther:PTHR10877,Pfam_domain:PF08016,Prints_domain:PR01433	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACAGAATTA	.	5	BLCA
NPAS2	0	.	GRCh37	2	101606888	101606888	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1998C>T	p.%3D	p.F666F	ENST00000335681	18/21	76	48	27	38	38	0	NPAS2,synonymous_variant,p.%3D,ENST00000335681,;NPAS2,synonymous_variant,p.%3D,ENST00000542504,;NPAS2,synonymous_variant,p.%3D,ENST00000433408,;NPAS2,intron_variant,,ENST00000450763,;AC016738.4,downstream_gene_variant,,ENST00000452364,;NPAS2,upstream_gene_variant,,ENST00000490052,;NPAS2,non_coding_transcript_exon_variant,,ENST00000474550,;NPAS2,non_coding_transcript_exon_variant,,ENST00000495559,;	T	ENSG00000170485	ENST00000335681	Transcript	synonymous_variant	2283	1998	666	F	ttC/ttT	.	.	.	1	NPAS2	HGNC	7895	protein_coding	YES	CCDS2048.1	ENSP00000338283	NPAS2_HUMAN	A2I2P5_HUMAN	UPI0000163B27	.	.	.	18/21	.	hmmpanther:PTHR23042:SF4,hmmpanther:PTHR23042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCAGCCA	.	5	BLCA
RANBP2	0	.	GRCh37	2	109336129	109336129	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67C>T	p.Arg23Ter	p.R23*	ENST00000283195	1/29	20	16	4	9	9	0	RANBP2,stop_gained,p.Arg23Ter,ENST00000283195,;RANBP2,stop_gained,p.Arg23Ter,ENST00000425282,;	T	ENSG00000153201	ENST00000283195	Transcript	stop_gained	193	67	23	R/*	Cga/Tga	.	.	.	1	RANBP2	HGNC	9848	protein_coding	YES	CCDS2079.1	ENSP00000283195	RBP2_HUMAN	I1Z9D1_HUMAN	UPI0000207FB9	.	.	.	1/29	.	hmmpanther:PTHR23138,hmmpanther:PTHR23138:SF8,Gene3D:1.25.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGCCTCGACAG	.	3	BLCA
BUB1	0	.	GRCh37	2	111395467	111395467	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*74C>G	.	.	ENST00000302759	25/25	46	31	14	32	31	0	BUB1,3_prime_UTR_variant,,ENST00000409311,;BUB1,3_prime_UTR_variant,,ENST00000302759,;BUB1,3_prime_UTR_variant,,ENST00000535254,;BUB1,downstream_gene_variant,,ENST00000478175,;BUB1,downstream_gene_variant,,ENST00000466333,;AC114776.1,downstream_gene_variant,,ENST00000401483,;	C	ENSG00000169679	ENST00000302759	Transcript	3_prime_UTR_variant	3451	.	.	.	.	.	.	.	-1	BUB1	HGNC	1148	protein_coding	YES	CCDS33273.1	ENSP00000302530	BUB1_HUMAN	Q9BXX5_HUMAN,C9JRC7_HUMAN,C9JQA4_HUMAN,C9IYH4_HUMAN	UPI00000012C4	.	.	.	25/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATGAAAAA	.	5	BLCA
BUB1	0	.	GRCh37	2	111398939	111398939	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2728G>T	p.Asp910Tyr	p.D910Y	ENST00000302759	22/25	143	82	61	83	83	0	BUB1,missense_variant,p.Asp910Tyr,ENST00000302759,;BUB1,missense_variant,p.Asp890Tyr,ENST00000535254,;BUB1,intron_variant,,ENST00000409311,;BUB1,non_coding_transcript_exon_variant,,ENST00000478175,;BUB1,downstream_gene_variant,,ENST00000466333,;	A	ENSG00000169679	ENST00000302759	Transcript	missense_variant	2847	2728	910	D/Y	Gac/Tac	.	.	.	-1	BUB1	HGNC	1148	protein_coding	YES	CCDS33273.1	ENSP00000302530	BUB1_HUMAN	Q9BXX5_HUMAN,C9JRC7_HUMAN,C9JQA4_HUMAN,C9IYH4_HUMAN	UPI00000012C4	.	deleterious(0.01)	possibly_damaging(0.905)	22/25	.	PROSITE_profiles:PS50011,hmmpanther:PTHR14030:SF3,hmmpanther:PTHR14030,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTCATGCA	.	5	BLCA
ACOXL	0	.	GRCh37	2	111556604	111556604	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474C>T	p.%3D	p.F158F	ENST00000439055	7/18	190	117	72	109	109	0	ACOXL,synonymous_variant,p.%3D,ENST00000389811,;ACOXL,synonymous_variant,p.%3D,ENST00000340561,;ACOXL,synonymous_variant,p.%3D,ENST00000439055,;ACOXL,upstream_gene_variant,,ENST00000417074,;ACOXL,downstream_gene_variant,,ENST00000461340,;	T	ENSG00000153093	ENST00000439055	Transcript	synonymous_variant	698	474	158	F	ttC/ttT	.	.	.	1	ACOXL	HGNC	25621	protein_coding	YES	CCDS46389.1	ENSP00000407761	ACOXL_HUMAN	C9JQI3_HUMAN	UPI0001884BE2	.	.	.	7/18	.	hmmpanther:PTHR10909,hmmpanther:PTHR10909:SF187,Gene3D:2.40.110.10,PIRSF_domain:PIRSF000168,Superfamily_domains:SSF56645	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCATCGT	.	5	BLCA
SLC35F5	0	.	GRCh37	2	114500233	114500233	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.750+36G>C	.	.	ENST00000245680	.	110	71	39	47	47	0	SLC35F5,3_prime_UTR_variant,,ENST00000409342,;SLC35F5,intron_variant,,ENST00000245680,;SLC35F5,non_coding_transcript_exon_variant,,ENST00000498768,;SLC35F5,non_coding_transcript_exon_variant,,ENST00000460863,;SLC35F5,intron_variant,,ENST00000409106,;	G	ENSG00000115084	ENST00000245680	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SLC35F5	HGNC	23617	protein_coding	YES	CCDS2119.1	ENSP00000245680	S35F5_HUMAN	.	UPI000004C648	.	.	.	.	7/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCAAACA	.	5	BLCA
DPP10	0	.	GRCh37	2	116066898	116066898	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156C>T	p.%3D	p.L52L	ENST00000393147	2/26	90	63	26	49	49	0	DPP10,synonymous_variant,p.%3D,ENST00000393147,;DPP10,synonymous_variant,p.%3D,ENST00000393146,;DPP10,synonymous_variant,p.%3D,ENST00000410059,;DPP10,synonymous_variant,p.%3D,ENST00000310323,;DPP10,5_prime_UTR_variant,,ENST00000419287,;DPP10,5_prime_UTR_variant,,ENST00000409163,;DPP10,5_prime_UTR_variant,,ENST00000436732,;DPP10,non_coding_transcript_exon_variant,,ENST00000461250,;DPP10,non_coding_transcript_exon_variant,,ENST00000486885,;DPP10,intron_variant,,ENST00000429914,;	T	ENSG00000175497	ENST00000393147	Transcript	synonymous_variant	511	156	52	L	ctC/ctT	.	.	.	1	DPP10	HGNC	20823	protein_coding	YES	CCDS54388.1	ENSP00000376855	DPP10_HUMAN	J3KQK8_HUMAN,C9J4M8_HUMAN	UPI00015E0A22	.	.	.	2/26	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11731:SF21,hmmpanther:PTHR11731	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCATCAC	.	5	BLCA
WDR33	0	.	GRCh37	2	128477643	128477643	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1956C>A	p.Phe652Leu	p.F652L	ENST00000322313	16/22	98	66	32	49	49	0	WDR33,missense_variant,p.Phe652Leu,ENST00000322313,;	T	ENSG00000136709	ENST00000322313	Transcript	missense_variant	2115	1956	652	F/L	ttC/ttA	.	.	.	-1	WDR33	HGNC	25651	protein_coding	YES	CCDS2150.1	ENSP00000325377	WDR33_HUMAN	C9J8B4_HUMAN,B9A053_HUMAN	UPI000013D032	.	tolerated_low_confidence(0.36)	unknown(0)	16/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22836	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATGAATCC	.	5	BLCA
TRIB2	0	.	GRCh37	2	12858571	12858571	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138G>A	p.%3D	p.P46P	ENST00000155926	1/3	237	118	118	86	86	0	TRIB2,synonymous_variant,p.%3D,ENST00000405331,;TRIB2,synonymous_variant,p.%3D,ENST00000155926,;TRIB2,intron_variant,,ENST00000381465,;RP11-333O1.1,downstream_gene_variant,,ENST00000569860,;TRIB2,downstream_gene_variant,,ENST00000483034,;	A	ENSG00000071575	ENST00000155926	Transcript	synonymous_variant	1557	138	46	P	ccG/ccA	.	.	.	1	TRIB2	HGNC	30809	protein_coding	YES	CCDS1683.1	ENSP00000155926	TRIB2_HUMAN	F8WA18_HUMAN	UPI0000051C55	.	.	.	1/3	.	hmmpanther:PTHR22961,hmmpanther:PTHR22961:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCCGAGCCC	.	5	BLCA
ARHGEF4	0	.	GRCh37	2	131799445	131799445	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1395C>T	p.%3D	p.I465I	ENST00000326016	10/14	105	70	35	33	33	0	ARHGEF4,synonymous_variant,p.%3D,ENST00000326016,;ARHGEF4,synonymous_variant,p.%3D,ENST00000355771,;ARHGEF4,synonymous_variant,p.%3D,ENST00000392953,;ARHGEF4,synonymous_variant,p.%3D,ENST00000532720,;ARHGEF4,synonymous_variant,p.%3D,ENST00000525839,;ARHGEF4,synonymous_variant,p.%3D,ENST00000409303,;ARHGEF4,intron_variant,,ENST00000428230,;ARHGEF4,intron_variant,,ENST00000438985,;ARHGEF4,downstream_gene_variant,,ENST00000528247,;ARHGEF4,downstream_gene_variant,,ENST00000439368,;ARHGEF4,downstream_gene_variant,,ENST00000496764,;ARHGEF4,non_coding_transcript_exon_variant,,ENST00000490728,;ARHGEF4,non_coding_transcript_exon_variant,,ENST00000527365,;ARHGEF4,non_coding_transcript_exon_variant,,ENST00000525092,;	T	ENSG00000136002	ENST00000326016	Transcript	synonymous_variant	1914	1395	465	I	atC/atT	.	.	.	1	ARHGEF4	HGNC	684	protein_coding	YES	CCDS2165.1	ENSP00000316845	ARHG4_HUMAN	Q9NTG0_HUMAN,Q53TH6_HUMAN,Q53QF2_HUMAN	UPI00001417F6	.	.	.	10/14	.	Superfamily_domains:SSF48065,SMART_domains:SM00325,Pfam_domain:PF00621,Gene3D:1.20.900.10,hmmpanther:PTHR22826:SF116,hmmpanther:PTHR22826,PROSITE_profiles:PS50010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCAACGA	.	5	BLCA
ZRANB3	0	.	GRCh37	2	136072926	136072926	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.849+3G>A	.	.	ENST00000264159	.	41	27	14	16	16	0	ZRANB3,splice_region_variant,,ENST00000401392,;ZRANB3,splice_region_variant,,ENST00000536680,;ZRANB3,splice_region_variant,,ENST00000264159,;ZRANB3,splice_region_variant,,ENST00000452187,;ZRANB3,splice_region_variant,,ENST00000403017,;	T	ENSG00000121988	ENST00000264159	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	ZRANB3	HGNC	25249	protein_coding	YES	CCDS46419.1	ENSP00000264159	ZRAB3_HUMAN	.	UPI0000509F0C	.	.	.	.	7/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCACCTT	.	4	BLCA
THSD7B	0	.	GRCh37	2	138414422	138414422	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4171G>C	p.Asp1391His	p.D1391H	ENST00000272643	23/28	96	55	40	37	37	0	THSD7B,missense_variant,p.Asp1388His,ENST00000409968,;THSD7B,missense_variant,p.Asp1360His,ENST00000413152,;THSD7B,missense_variant,p.Asp1391His,ENST00000272643,;THSD7B,intron_variant,,ENST00000543459,;THSD7B,downstream_gene_variant,,ENST00000480352,;	C	ENSG00000144229	ENST00000272643	Transcript	missense_variant	4171	4171	1391	D/H	Gat/Cat	.	.	.	1	THSD7B	HGNC	29348	protein_coding	YES	.	ENSP00000272643	THS7B_HUMAN	.	UPI00015E0A18	.	deleterious(0.01)	unknown(0)	23/28	.	PROSITE_profiles:PS50092,hmmpanther:PTHR11311:SF7,hmmpanther:PTHR11311,Pfam_domain:PF00090,Gene3D:2.20.100.10,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTGATGGA	.	5	BLCA
LRP1B	0	.	GRCh37	2	141243003	141243003	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9334G>A	p.Glu3112Lys	p.E3112K	ENST00000389484	59/91	94	33	60	75	75	0	LRP1B,missense_variant,p.Glu3112Lys,ENST00000389484,;	T	ENSG00000168702	ENST00000389484	Transcript	missense_variant	10306	9334	3112	E/K	Gaa/Aaa	.	.	.	-1	LRP1B	HGNC	6693	protein_coding	YES	CCDS2182.1	ENSP00000374135	LRP1B_HUMAN	Q8WY27_HUMAN,Q8WY26_HUMAN,Q580W7_HUMAN,Q53TB8_HUMAN,Q53S76_HUMAN,Q53S73_HUMAN,Q53S26_HUMAN,Q53RL0_HUMAN,Q53RG4_HUMAN,Q53RA0_HUMAN,Q53QP5_HUMAN,Q53QM8_HUMAN,Q4ZG53_HUMAN,Q4ZFV5_HUMAN	UPI00001B045B	.	.	benign(0.292)	59/91	.	PROSITE_profiles:PS51120,Gene3D:2.120.10.30,SMART_domains:SM00135,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCAATGA	.	5	BLCA
CCDC148	0	.	GRCh37	2	159195284	159195284	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718C>G	p.Gln240Glu	p.Q240E	ENST00000283233	7/14	108	68	40	56	56	0	CCDC148,missense_variant,p.Gln249Glu,ENST00000409187,;CCDC148,missense_variant,p.Gln240Glu,ENST00000283233,;CCDC148,missense_variant,p.Gln240Glu,ENST00000409889,;CCDC148,missense_variant,p.Gln154Glu,ENST00000536771,;CCDC148,3_prime_UTR_variant,,ENST00000417066,;CCDC148,3_prime_UTR_variant,,ENST00000448656,;CCDC148,3_prime_UTR_variant,,ENST00000451554,;CCDC148,intron_variant,,ENST00000454257,;	C	ENSG00000153237	ENST00000283233	Transcript	missense_variant	1032	718	240	Q/E	Cag/Gag	.	.	.	-1	CCDC148	HGNC	25191	protein_coding	YES	CCDS33304.1	ENSP00000283233	CC148_HUMAN	.	UPI0000208F63	.	tolerated(0.31)	benign(0.388)	7/14	.	hmmpanther:PTHR21549:SF1,hmmpanther:PTHR21549	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGATATT	.	5	BLCA
TTN	0	.	GRCh37	2	179400910	179400910	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100564C>T	p.His33522Tyr	p.H33522Y	ENST00000589042	357/363	47	26	20	39	39	0	TTN,missense_variant,p.His24582Tyr,ENST00000359218,;TTN,missense_variant,p.His24457Tyr,ENST00000460472,;TTN,missense_variant,p.His31881Tyr,ENST00000591111,;TTN,missense_variant,p.His33522Tyr,ENST00000589042,;TTN,missense_variant,p.His24649Tyr,ENST00000342175,;TTN,missense_variant,p.His30954Tyr,ENST00000342992,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589434,;TTN-AS1,intron_variant,,ENST00000588716,;TTN-AS1,intron_variant,,ENST00000589391,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000592182,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592836,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000591466,;TTN-AS1,intron_variant,,ENST00000591867,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000585358,;TTN-AS1,intron_variant,,ENST00000589842,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000590040,;TTN-AS1,intron_variant,,ENST00000450692,;TTN-AS1,intron_variant,,ENST00000431259,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000588257,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000588244,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000588804,;TTN-AS1,intron_variant,,ENST00000585487,;TTN-AS1,upstream_gene_variant,,ENST00000438095,;RP11-65L3.4,upstream_gene_variant,,ENST00000604692,;TTN-AS1,downstream_gene_variant,,ENST00000585625,;TTN-AS1,downstream_gene_variant,,ENST00000587568,;TTN-AS1,upstream_gene_variant,,ENST00000415561,;TTN-AS1,downstream_gene_variant,,ENST00000587944,;TTN-AS1,downstream_gene_variant,,ENST00000589355,;TTN-AS1,downstream_gene_variant,,ENST00000442329,;TTN-AS1,downstream_gene_variant,,ENST00000604571,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	100789	100564	33522	H/Y	Cat/Tat	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	357/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGACCAG	.	5	BLCA
TTN	0	.	GRCh37	2	179622549	179622549	+	Silent	SNP	G	G	A	rs760613487	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10398C>T	p.%3D	p.S3466S	ENST00000589042	45/363	184	103	81	107	107	0	TTN,synonymous_variant,p.%3D,ENST00000359218,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,intron_variant,,ENST00000360870,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000342992,;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000590773,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000578746,;TTN-AS1,upstream_gene_variant,,ENST00000610005,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	10623	10398	3466	S	agC/agT	rs760613487	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	45/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGAAGCTGGG	.	5	BLCA
TTN	0	.	GRCh37	2	179641878	179641878	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4812C>T	p.%3D	p.I1604I	ENST00000589042	27/363	210	140	70	115	115	0	TTN,synonymous_variant,p.%3D,ENST00000360870,;TTN,synonymous_variant,p.%3D,ENST00000359218,;TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000342175,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,synonymous_variant,p.%3D,ENST00000460472,;RP11-88L24.4,non_coding_transcript_exon_variant,,ENST00000582038,;TTN-AS1,downstream_gene_variant,,ENST00000610005,;TTN-AS1,downstream_gene_variant,,ENST00000585451,;TTN-AS1,downstream_gene_variant,,ENST00000584485,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	5037	4812	1604	I	atC/atT	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	27/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGATTTT	.	5	BLCA
MFSD6	0	.	GRCh37	2	191301976	191301976	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1221G>A	p.%3D	p.E407E	ENST00000392328	3/8	82	52	30	42	42	0	MFSD6,synonymous_variant,p.%3D,ENST00000281416,;MFSD6,synonymous_variant,p.%3D,ENST00000392328,;MFSD6,upstream_gene_variant,,ENST00000434582,;MFSD6,downstream_gene_variant,,ENST00000417958,;MFSD6,downstream_gene_variant,,ENST00000432036,;MFSD6,downstream_gene_variant,,ENST00000445546,;	A	ENSG00000151690	ENST00000392328	Transcript	synonymous_variant	1545	1221	407	E	gaG/gaA	.	.	.	1	MFSD6	HGNC	24711	protein_coding	YES	CCDS2306.1	ENSP00000376141	MFSD6_HUMAN	C9JJH2_HUMAN,C9JAZ7_HUMAN,C9J134_HUMAN,C9IYL1_HUMAN,B7Z810_HUMAN,B7Z7Y2_HUMAN	UPI000022BD91	.	.	.	3/8	.	hmmpanther:PTHR16172:SF2,hmmpanther:PTHR16172	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGAGATCCC	.	5	BLCA
STAT4	0	.	GRCh37	2	191919232	191919232	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1235G>C	p.Gly412Ala	p.G412A	ENST00000392320	14/24	171	125	45	120	120	0	STAT4,missense_variant,p.Gly412Ala,ENST00000358470,;STAT4,missense_variant,p.Gly412Ala,ENST00000392320,;STAT4,non_coding_transcript_exon_variant,,ENST00000495849,;	G	ENSG00000138378	ENST00000392320	Transcript	missense_variant	1550	1235	412	G/A	gGa/gCa	.	.	.	-1	STAT4	HGNC	11365	protein_coding	YES	CCDS2310.1	ENSP00000376134	STAT4_HUMAN	Q53S87_HUMAN,Q53RU2_HUMAN,E9PBE2_HUMAN,C9JM11_HUMAN,C9JFG0_HUMAN,B7SIX5_HUMAN	UPI00000015F2	.	deleterious(0.01)	probably_damaging(0.96)	14/24	.	hmmpanther:PTHR11801,hmmpanther:PTHR11801:SF19,Gene3D:2.60.40.630,Pfam_domain:PF02864,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCCAGCA	.	5	BLCA
DNAH7	0	.	GRCh37	2	196699053	196699053	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8977C>A	p.Pro2993Thr	p.P2993T	ENST00000312428	48/65	178	133	45	78	78	0	DNAH7,missense_variant,p.Pro2993Thr,ENST00000312428,;DNAH7,non_coding_transcript_exon_variant,,ENST00000493844,;	T	ENSG00000118997	ENST00000312428	Transcript	missense_variant	9078	8977	2993	P/T	Cct/Act	COSM4089804	.	.	-1	DNAH7	HGNC	18661	protein_coding	YES	CCDS42794.1	ENSP00000311273	DYH7_HUMAN	C9JUY3_HUMAN	UPI0000141B95	.	deleterious(0)	probably_damaging(1)	48/65	.	hmmpanther:PTHR10676:SF138,hmmpanther:PTHR10676,Pfam_domain:PF12781	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTGAGGATCTA	.	4	BLCA
CCDC150	0	.	GRCh37	2	197540881	197540881	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1152G>C	p.Met384Ile	p.M384I	ENST00000389175	11/28	107	66	41	72	72	0	CCDC150,missense_variant,p.Met384Ile,ENST00000389175,;CCDC150,missense_variant,p.Met52Ile,ENST00000272831,;CCDC150,missense_variant,p.Met52Ile,ENST00000423093,;CCDC150,3_prime_UTR_variant,,ENST00000472405,;CCDC150,non_coding_transcript_exon_variant,,ENST00000498512,;CCDC150,non_coding_transcript_exon_variant,,ENST00000495513,;CCDC150,upstream_gene_variant,,ENST00000497159,;CCDC150,upstream_gene_variant,,ENST00000469429,;CCDC150,3_prime_UTR_variant,,ENST00000431807,;	C	ENSG00000144395	ENST00000389175	Transcript	missense_variant	1287	1152	384	M/I	atG/atC	.	.	.	1	CCDC150	HGNC	26834	protein_coding	YES	CCDS46478.1	ENSP00000373827	CC150_HUMAN	.	UPI0000DD7A7C	.	tolerated(0.15)	benign(0.053)	11/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGATGAC	.	5	BLCA
BMPR2	0	.	GRCh37	2	203417517	203417517	+	Missense_Mutation	SNP	G	G	C	rs757981921	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1492G>C	p.Glu498Gln	p.E498Q	ENST00000374580	11/13	222	76	145	69	69	0	BMPR2,missense_variant,p.Glu498Gln,ENST00000374574,;BMPR2,missense_variant,p.Glu498Gln,ENST00000374580,;	C	ENSG00000204217	ENST00000374580	Transcript	missense_variant	2031	1492	498	E/Q	Gag/Cag	rs757981921	.	.	1	BMPR2	HGNC	1078	protein_coding	YES	CCDS33361.1	ENSP00000363708	BMPR2_HUMAN	.	UPI0000126A3B	.	deleterious(0)	probably_damaging(0.999)	11/13	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255:SF63,hmmpanther:PTHR23255,Gene3D:1.10.510.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTGAGGAA	.	5	BLCA
PIKFYVE	0	.	GRCh37	2	209217435	209217435	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5773C>G	p.Gln1925Glu	p.Q1925E	ENST00000264380	39/42	113	43	70	65	65	0	PIKFYVE,missense_variant,p.Gln1925Glu,ENST00000264380,;	G	ENSG00000115020	ENST00000264380	Transcript	missense_variant	5931	5773	1925	Q/E	Cag/Gag	.	.	.	1	PIKFYVE	HGNC	23785	protein_coding	YES	CCDS2382.1	ENSP00000264380	FYV1_HUMAN	.	UPI0000366FD6	.	deleterious(0.02)	possibly_damaging(0.632)	39/42	.	Superfamily_domains:SSF56104,SMART_domains:SM00330,Pfam_domain:PF01504,Gene3D:2gk9B01,hmmpanther:PTHR11353:SF57,hmmpanther:PTHR11353,PROSITE_profiles:PS51455	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCAGAAC	.	5	BLCA
IKZF2	0	.	GRCh37	2	213914550	213914550	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.461A>G	p.Asn154Ser	p.N154S	ENST00000457361	5/8	41	18	23	35	35	0	IKZF2,missense_variant,p.Asn154Ser,ENST00000457361,;IKZF2,missense_variant,p.Asn154Ser,ENST00000434687,;IKZF2,missense_variant,p.Asn128Ser,ENST00000421754,;IKZF2,missense_variant,p.Asn128Ser,ENST00000451136,;IKZF2,missense_variant,p.Asn160Ser,ENST00000342002,;IKZF2,missense_variant,p.Asn128Ser,ENST00000374319,;IKZF2,missense_variant,p.Asn154Ser,ENST00000413091,;IKZF2,intron_variant,,ENST00000374327,;IKZF2,downstream_gene_variant,,ENST00000433134,;IKZF2,missense_variant,p.Asn154Ser,ENST00000431520,;IKZF2,3_prime_UTR_variant,,ENST00000453575,;IKZF2,3_prime_UTR_variant,,ENST00000439848,;IKZF2,3_prime_UTR_variant,,ENST00000412444,;IKZF2,3_prime_UTR_variant,,ENST00000374326,;	C	ENSG00000030419	ENST00000457361	Transcript	missense_variant	630	461	154	N/S	aAc/aGc	.	.	.	-1	IKZF2	HGNC	13177	protein_coding	YES	CCDS2395.1	ENSP00000410447	IKZF2_HUMAN	Q53SU9_HUMAN,Q53RV5_HUMAN,Q53QP1_HUMAN,E7EPU0_HUMAN	UPI000013D4DA	.	deleterious(0.05)	probably_damaging(0.996)	5/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24404:SF31,hmmpanther:PTHR24404,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGGTTGCCC	.	5	BLCA
FN1	0	.	GRCh37	2	216257848	216257848	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3875C>G	p.Ser1292Cys	p.S1292C	ENST00000354785	25/46	72	28	44	41	41	0	FN1,missense_variant,p.Ser1292Cys,ENST00000432072,;FN1,missense_variant,p.Ser1292Cys,ENST00000354785,;FN1,missense_variant,p.Ser8Cys,ENST00000456923,;FN1,missense_variant,p.Ser1292Cys,ENST00000323926,;FN1,intron_variant,,ENST00000357867,;FN1,intron_variant,,ENST00000421182,;FN1,intron_variant,,ENST00000443816,;FN1,intron_variant,,ENST00000346544,;FN1,intron_variant,,ENST00000345488,;FN1,intron_variant,,ENST00000336916,;FN1,intron_variant,,ENST00000359671,;FN1,intron_variant,,ENST00000357009,;FN1,intron_variant,,ENST00000446046,;FN1,intron_variant,,ENST00000356005,;FN1,non_coding_transcript_exon_variant,,ENST00000492816,;	C	ENSG00000115414	ENST00000354785	Transcript	missense_variant	4245	3875	1292	S/C	tCt/tGt	.	.	.	-1	FN1	HGNC	3778	protein_coding	YES	CCDS42814.1	ENSP00000346839	FINC_HUMAN	Q9H382_HUMAN,Q7L553_HUMAN,Q53S27_HUMAN,A6YID6_HUMAN	UPI0000E5A2B5	.	tolerated(0.07)	probably_damaging(0.981)	25/46	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19143:SF187,hmmpanther:PTHR19143,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGAGTTT	.	5	BLCA
FAM134A	0	.	GRCh37	2	220043729	220043729	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367C>A	p.Arg123Ser	p.R123S	ENST00000430297	2/9	178	70	107	162	162	0	FAM134A,missense_variant,p.Arg123Ser,ENST00000430297,;FAM134A,5_prime_UTR_variant,,ENST00000443757,;FAM134A,5_prime_UTR_variant,,ENST00000458520,;FAM134A,5_prime_UTR_variant,,ENST00000452022,;FAM134A,5_prime_UTR_variant,,ENST00000430747,;CNPPD1,upstream_gene_variant,,ENST00000451647,;CNPPD1,upstream_gene_variant,,ENST00000360507,;CNPPD1,upstream_gene_variant,,ENST00000409789,;FAM134A,upstream_gene_variant,,ENST00000420189,;CNPPD1,upstream_gene_variant,,ENST00000453038,;FAM134A,missense_variant,p.Arg123Ser,ENST00000273048,;FAM134A,non_coding_transcript_exon_variant,,ENST00000465672,;FAM134A,intron_variant,,ENST00000452293,;FAM134A,upstream_gene_variant,,ENST00000481925,;	A	ENSG00000144567	ENST00000430297	Transcript	missense_variant	503	367	123	R/S	Cgc/Agc	.	.	.	1	FAM134A	HGNC	28450	protein_coding	YES	CCDS2434.1	ENSP00000395249	F134A_HUMAN	C9JIF3_HUMAN,C9J3K5_HUMAN	UPI000013D996	.	deleterious(0.04)	possibly_damaging(0.792)	2/9	.	Pfam_domain:PF02453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGCTTT	.	5	BLCA
STK11IP	0	.	GRCh37	2	220479221	220479221	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2855C>T	p.Ser952Phe	p.S952F	ENST00000295641	23/25	41	19	22	55	55	0	STK11IP,missense_variant,p.Ser941Phe,ENST00000456909,;STK11IP,missense_variant,p.Ser41Phe,ENST00000447191,;STK11IP,missense_variant,p.Ser952Phe,ENST00000295641,;STK11IP,downstream_gene_variant,,ENST00000483319,;STK11IP,missense_variant,p.Ser134Phe,ENST00000413891,;STK11IP,non_coding_transcript_exon_variant,,ENST00000495941,;STK11IP,upstream_gene_variant,,ENST00000494777,;STK11IP,downstream_gene_variant,,ENST00000475396,;	T	ENSG00000144589	ENST00000295641	Transcript	missense_variant	2898	2855	952	S/F	tCc/tTc	.	.	.	1	STK11IP	HGNC	19184	protein_coding	YES	CCDS46521.1	ENSP00000295641	S11IP_HUMAN	C9JQV3_HUMAN	UPI0001AE7798	.	deleterious(0.01)	probably_damaging(0.994)	23/25	.	hmmpanther:PTHR15454:SF16,hmmpanther:PTHR15454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCCTTGG	.	5	BLCA
KIF1A	0	.	GRCh37	2	241689927	241689927	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2896C>T	p.Pro966Ser	p.P966S	ENST00000498729	28/50	39	14	25	42	42	0	KIF1A,missense_variant,p.Pro966Ser,ENST00000498729,;KIF1A,missense_variant,p.Pro865Ser,ENST00000320389,;KIF1A,missense_variant,p.Pro966Ser,ENST00000404283,;KIF1A,upstream_gene_variant,,ENST00000415042,;	A	ENSG00000130294	ENST00000498729	Transcript	missense_variant	3143	2896	966	P/S	Ccc/Tcc	.	.	.	-1	KIF1A	HGNC	888	protein_coding	YES	CCDS58757.1	ENSP00000438388	KIF1A_HUMAN	G1UI30_HUMAN,C9JBH1_HUMAN	UPI0002065B81	.	tolerated(0.17)	benign(0.046)	28/50	.	hmmpanther:PTHR24115:SF361,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGGGAACGG	.	5	BLCA
HDLBP	0	.	GRCh37	2	242186541	242186541	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1748C>T	p.Ser583Leu	p.S583L	ENST00000391975	15/28	36	13	23	32	32	0	HDLBP,missense_variant,p.Ser583Leu,ENST00000310931,;HDLBP,missense_variant,p.Ser550Leu,ENST00000427183,;HDLBP,missense_variant,p.Ser392Leu,ENST00000373292,;HDLBP,missense_variant,p.Ser583Leu,ENST00000391976,;HDLBP,missense_variant,p.Ser92Leu,ENST00000452931,;HDLBP,missense_variant,p.Ser583Leu,ENST00000391975,;HDLBP,upstream_gene_variant,,ENST00000427487,;AC104841.1,upstream_gene_variant,,ENST00000578965,;HDLBP,upstream_gene_variant,,ENST00000471294,;HDLBP,downstream_gene_variant,,ENST00000477477,;HDLBP,downstream_gene_variant,,ENST00000476807,;HDLBP,non_coding_transcript_exon_variant,,ENST00000460826,;HDLBP,non_coding_transcript_exon_variant,,ENST00000487169,;HDLBP,non_coding_transcript_exon_variant,,ENST00000488923,;HDLBP,downstream_gene_variant,,ENST00000498595,;HDLBP,upstream_gene_variant,,ENST00000459788,;HDLBP,upstream_gene_variant,,ENST00000479169,;	A	ENSG00000115677	ENST00000391975	Transcript	missense_variant	1976	1748	583	S/L	tCa/tTa	.	.	.	-1	HDLBP	HGNC	4857	protein_coding	YES	CCDS2547.1	ENSP00000375836	VIGLN_HUMAN	Q96CF6_HUMAN,C9JZI8_HUMAN,C9JT62_HUMAN,C9JQ82_HUMAN,C9JMQ6_HUMAN,C9JKQ5_HUMAN,C9JIZ1_HUMAN,C9JHZ8_HUMAN,C9JHS7_HUMAN,C9JHN6_HUMAN,C9JES8_HUMAN,C9JEJ8_HUMAN,C9JBS3_HUMAN,C9J5E5_HUMAN	UPI00001AEF85	.	tolerated(0.42)	benign(0.209)	15/28	.	PROSITE_profiles:PS50084,hmmpanther:PTHR10627:SF34,hmmpanther:PTHR10627,Gene3D:3.30.1370.10,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTGAATAG	.	5	BLCA
KIF3C	0	.	GRCh37	2	26151777	26151777	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*70C>T	.	.	ENST00000264712	8/8	35	20	14	19	19	0	KIF3C,3_prime_UTR_variant,,ENST00000264712,;KIF3C,3_prime_UTR_variant,,ENST00000405914,;KIF3C,downstream_gene_variant,,ENST00000496378,;KIF3C,3_prime_UTR_variant,,ENST00000455394,;KIF3C,3_prime_UTR_variant,,ENST00000417737,;	A	ENSG00000084731	ENST00000264712	Transcript	3_prime_UTR_variant	3032	.	.	.	.	.	.	.	-1	KIF3C	HGNC	6321	protein_coding	YES	CCDS1719.1	ENSP00000264712	KIF3C_HUMAN	.	UPI000013D55A	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CGGCAGATGAG	.	4	BLCA
RAB10	0	.	GRCh37	2	26332716	26332716	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268G>A	p.Asp90Asn	p.D90N	ENST00000264710	3/6	117	75	42	58	58	0	RAB10,missense_variant,p.Asp90Asn,ENST00000264710,;RAB10,non_coding_transcript_exon_variant,,ENST00000473035,;RAB10,non_coding_transcript_exon_variant,,ENST00000462003,;RAB10,intron_variant,,ENST00000495146,;	A	ENSG00000084733	ENST00000264710	Transcript	missense_variant	767	268	90	D/N	Gac/Aac	.	.	.	1	RAB10	HGNC	9759	protein_coding	YES	CCDS1720.1	ENSP00000264710	RAB10_HUMAN	Q9UL28_HUMAN,Q53T70_HUMAN,Q53SX4_HUMAN	UPI0000001263	.	deleterious(0)	probably_damaging(1)	3/6	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073:SF358,hmmpanther:PTHR24073,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00173,SMART_domains:SM00174,SMART_domains:SM00177,SMART_domains:SM00175,SMART_domains:SM00176,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATGACATC	.	5	BLCA
DHX57	0	.	GRCh37	2	39088479	39088479	+	Missense_Mutation	SNP	C	C	T	rs537520504	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1073G>A	p.Arg358Gln	p.R358Q	ENST00000295373	5/24	109	75	33	57	57	0	DHX57,missense_variant,p.Arg358Gln,ENST00000295373,;DHX57,downstream_gene_variant,,ENST00000417233,;AC018693.6,upstream_gene_variant,,ENST00000442829,;DHX57,non_coding_transcript_exon_variant,,ENST00000479345,;DHX57,upstream_gene_variant,,ENST00000492042,;DHX57,missense_variant,p.Arg256Gln,ENST00000457308,;DHX57,non_coding_transcript_exon_variant,,ENST00000474104,;DHX57,non_coding_transcript_exon_variant,,ENST00000460193,;	T	ENSG00000163214	ENST00000295373	Transcript	missense_variant	1200	1073	358	R/Q	cGa/cAa	rs537520504	.	.	-1	DHX57	HGNC	20086	protein_coding	YES	CCDS1800.1	ENSP00000295373	DHX57_HUMAN	C9J207_HUMAN,B4DKW2_HUMAN	UPI0000231C8C	.	deleterious(0)	probably_damaging(0.998)	5/24	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF106,Pfam_domain:PF05773	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATCGAATT	by1000G	5	BLCA
SLC8A1	0	.	GRCh37	2	40655747	40655747	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1674G>A	p.%3D	p.V558V	ENST00000403092	2/11	186	122	63	106	106	0	SLC8A1,synonymous_variant,p.%3D,ENST00000408028,;SLC8A1,synonymous_variant,p.%3D,ENST00000406785,;SLC8A1,synonymous_variant,p.%3D,ENST00000542024,;SLC8A1,synonymous_variant,p.%3D,ENST00000403092,;SLC8A1,synonymous_variant,p.%3D,ENST00000405269,;SLC8A1,synonymous_variant,p.%3D,ENST00000332839,;SLC8A1,synonymous_variant,p.%3D,ENST00000542756,;SLC8A1,synonymous_variant,p.%3D,ENST00000406391,;SLC8A1,synonymous_variant,p.%3D,ENST00000405901,;SLC8A1,synonymous_variant,p.%3D,ENST00000402441,;SLC8A1,downstream_gene_variant,,ENST00000448531,;SLC8A1,downstream_gene_variant,,ENST00000455476,;SLC8A1,downstream_gene_variant,,ENST00000417271,;SLC8A1,synonymous_variant,p.%3D,ENST00000407929,;	T	ENSG00000183023	ENST00000403092	Transcript	synonymous_variant	1708	1674	558	V	gtG/gtA	.	.	.	-1	SLC8A1	HGNC	11068	protein_coding	YES	CCDS1806.1	ENSP00000384763	NAC1_HUMAN	Q6LAJ9_HUMAN,Q6LAJ8_HUMAN,Q4QQH3_HUMAN,E9PCL8_HUMAN,E9PB98_HUMAN	UPI000012FC46	.	.	.	2/11	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF6,Pfam_domain:PF03160,TIGRFAM_domain:TIGR00845,SMART_domains:SM00237,Superfamily_domains:SSF141072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCACCTC	.	5	BLCA
BCL11A	0	.	GRCh37	2	60689190	60689190	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.857A>G	p.Glu286Gly	p.E286G	ENST00000335712	4/4	105	80	25	46	46	0	BCL11A,missense_variant,p.Glu252Gly,ENST00000538214,;BCL11A,missense_variant,p.Glu252Gly,ENST00000358510,;BCL11A,missense_variant,p.Glu286Gly,ENST00000356842,;BCL11A,missense_variant,p.Glu286Gly,ENST00000335712,;BCL11A,intron_variant,,ENST00000359629,;BCL11A,intron_variant,,ENST00000537768,;BCL11A,non_coding_transcript_exon_variant,,ENST00000477659,;BCL11A,intron_variant,,ENST00000489516,;BCL11A,intron_variant,,ENST00000492272,;BCL11A,upstream_gene_variant,,ENST00000479026,;	C	ENSG00000119866	ENST00000335712	Transcript	missense_variant	1085	857	286	E/G	gAg/gGg	.	.	.	-1	BCL11A	HGNC	13221	protein_coding	YES	CCDS1862.1	ENSP00000338774	BC11A_HUMAN	D6W5D9_HUMAN,Q53TS1_HUMAN,Q53TE8_HUMAN	UPI000013DC00	.	deleterious(0.03)	probably_damaging(0.985)	4/4	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATCTCTTCC	.	5	BLCA
TET3	0	.	GRCh37	2	74274067	74274067	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618G>C	p.Gln206His	p.Q206H	ENST00000409262	1/9	59	35	23	28	28	0	TET3,missense_variant,p.Gln206His,ENST00000409262,;TET3,missense_variant,p.Gln248His,ENST00000305799,;TET3,upstream_gene_variant,,ENST00000475405,;	C	ENSG00000187605	ENST00000409262	Transcript	missense_variant	618	618	206	Q/H	caG/caC	.	.	.	1	TET3	HGNC	28313	protein_coding	YES	CCDS46339.1	ENSP00000386869	TET3_HUMAN	K9JJH7_HUMAN	UPI0000DD79F5	.	deleterious(0.01)	possibly_damaging(0.867)	1/9	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGAGTGC	.	5	BLCA
SLC4A5	0	.	GRCh37	2	74474302	74474302	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1920C>T	p.%3D	p.F640F	ENST00000377634	19/31	265	172	93	121	121	0	SLC4A5,synonymous_variant,p.%3D,ENST00000377632,;SLC4A5,synonymous_variant,p.%3D,ENST00000425249,;SLC4A5,synonymous_variant,p.%3D,ENST00000359484,;SLC4A5,synonymous_variant,p.%3D,ENST00000358683,;SLC4A5,synonymous_variant,p.%3D,ENST00000423644,;SLC4A5,synonymous_variant,p.%3D,ENST00000394019,;SLC4A5,synonymous_variant,p.%3D,ENST00000346834,;SLC4A5,synonymous_variant,p.%3D,ENST00000377634,;SLC4A5,synonymous_variant,p.%3D,ENST00000357822,;SLC4A5,non_coding_transcript_exon_variant,,ENST00000483195,;RP11-287D1.3,3_prime_UTR_variant,,ENST00000451608,;SLC4A5,downstream_gene_variant,,ENST00000479776,;	A	ENSG00000188687	ENST00000377634	Transcript	synonymous_variant	2320	1920	640	F	ttC/ttT	.	.	.	-1	SLC4A5	HGNC	18168	protein_coding	YES	CCDS1936.1	ENSP00000366861	S4A5_HUMAN	Q9UDR3_HUMAN,Q53S35_HUMAN,Q53QY5_HUMAN,C9JW32_HUMAN,C9JU12_HUMAN,C9JNL6_HUMAN	UPI000013C97B	.	.	.	19/31	.	hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF20,Pfam_domain:PF00955,TIGRFAM_domain:TIGR00834	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGAGAAGCC	.	5	BLCA
FUNDC2P2	0	.	GRCh37	2	84517923	84517923	+	RNA	SNP	C	C	A	rs777881287	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.118C>A	.	.	ENST00000538499	1/1	42	31	11	32	32	0	FUNDC2P2,non_coding_transcript_exon_variant,,ENST00000331369,;FUNDC2P2,non_coding_transcript_exon_variant,,ENST00000538499,;FUNDC2P2,non_coding_transcript_exon_variant,,ENST00000443452,;	A	ENSG00000182814	ENST00000538499	Transcript	non_coding_transcript_exon_variant	118	.	.	.	.	rs777881287	.	.	1	FUNDC2P2	HGNC	17247	transcribed_processed_pseudogene	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCGCAAG	byFrequency	5	BLCA
IMMT	0	.	GRCh37	2	86371654	86371654	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2014C>G	p.Gln672Glu	p.Q672E	ENST00000410111	15/15	129	70	58	65	65	0	IMMT,missense_variant,p.Gln625Glu,ENST00000409051,;IMMT,missense_variant,p.Gln661Glu,ENST00000449247,;IMMT,missense_variant,p.Gln527Glu,ENST00000419070,;IMMT,missense_variant,p.Gln672Glu,ENST00000410111,;IMMT,missense_variant,p.Gln573Glu,ENST00000254636,;IMMT,missense_variant,p.Gln671Glu,ENST00000442664,;PTCD3,downstream_gene_variant,,ENST00000254630,;	C	ENSG00000132305	ENST00000410111	Transcript	missense_variant	2402	2014	672	Q/E	Cag/Gag	.	.	.	-1	IMMT	HGNC	6047	protein_coding	YES	CCDS46355.1	ENSP00000387262	IMMT_HUMAN	.	UPI0000073828	.	tolerated(0.6)	benign(0.102)	15/15	.	Low_complexity_(Seg):seg,Pfam_domain:PF09731,hmmpanther:PTHR15415,hmmpanther:PTHR15415:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGAGGTG	.	5	BLCA
IGKV1-9	0	.	GRCh37	2	89309936	89309936	+	Missense_Mutation	SNP	C	C	T	rs756494691	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19G>A	p.Ala7Thr	p.A7T	ENST00000493819	1/2	225	156	69	113	113	0	IGKV1-9,missense_variant,p.Ala7Thr,ENST00000493819,;	T	ENSG00000241755	ENST00000493819	Transcript	missense_variant	77	19	7	A/T	Gct/Act	rs756494691	.	.	-1	IGKV1-9	HGNC	5744	IG_V_gene	YES	.	ENSP00000419598	.	.	UPI00001148ED	.	tolerated(0.5)	benign(0.002)	1/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23267:SF122,hmmpanther:PTHR23267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGCGGGGA	byFrequency	5	BLCA
IGKV1-16	0	.	GRCh37	2	89399437	89399437	+	Missense_Mutation	SNP	G	G	A	rs557188901	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.266C>T	p.Ser89Phe	p.S89F	ENST00000479981	2/2	466	304	161	206	206	0	IGKV1-16,missense_variant,p.Ser89Phe,ENST00000479981,;	A	ENSG00000240864	ENST00000479981	Transcript	missense_variant	293	266	89	S/F	tCt/tTt	rs557188901	.	.	-1	IGKV1-16	HGNC	5732	IG_V_gene	YES	.	ENSP00000417344	.	.	UPI000173A597	.	deleterious(0.02)	benign(0.168)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23267,hmmpanther:PTHR23267:SF122,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00406,Superfamily_domains:SSF48726	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGATCCA	by1000G	5	BLCA
ASTL	0	.	GRCh37	2	96799204	96799204	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415C>T	p.Gln139Ter	p.Q139*	ENST00000342380	5/9	138	95	43	75	75	0	ASTL,stop_gained,p.Gln139Ter,ENST00000342380,;ASTL,downstream_gene_variant,,ENST00000470582,;	A	ENSG00000188886	ENST00000342380	Transcript	stop_gained	415	415	139	Q/*	Cag/Tag	.	.	.	-1	ASTL	HGNC	31704	protein_coding	YES	CCDS33249.1	ENSP00000343674	ASTL_HUMAN	.	UPI0000161978	.	.	.	5/9	.	Superfamily_domains:SSF55486,SMART_domains:SM00235,Gene3D:3.40.390.10,Pfam_domain:PF01400,hmmpanther:PTHR10127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGATAGG	.	5	BLCA
CNNM4	0	.	GRCh37	2	97426942	97426942	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.206C>T	p.Ser69Phe	p.S69F	ENST00000377075	1/7	64	49	14	31	31	0	CNNM4,missense_variant,p.Ser69Phe,ENST00000377075,;	T	ENSG00000158158	ENST00000377075	Transcript	missense_variant	304	206	69	S/F	tCc/tTc	.	.	.	1	CNNM4	HGNC	105	protein_coding	YES	CCDS2024.2	ENSP00000366275	CNNM4_HUMAN	.	UPI0000207C95	.	tolerated(0.61)	benign(0.006)	1/7	.	hmmpanther:PTHR12064:SF26,hmmpanther:PTHR12064	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGTCCGAGG	.	5	BLCA
LIPT1	0	.	GRCh37	2	99778643	99778643	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223G>C	p.Gly75Arg	p.G75R	ENST00000393477	4/4	185	109	75	89	89	0	LIPT1,missense_variant,p.Gly75Arg,ENST00000434566,;LIPT1,missense_variant,p.Gly75Arg,ENST00000449211,;LIPT1,missense_variant,p.Gly75Arg,ENST00000393473,;LIPT1,missense_variant,p.Gly75Arg,ENST00000415142,;LIPT1,missense_variant,p.Gly75Arg,ENST00000393474,;LIPT1,missense_variant,p.Gly75Arg,ENST00000393471,;LIPT1,missense_variant,p.Gly75Arg,ENST00000340066,;LIPT1,missense_variant,p.Gly75Arg,ENST00000393477,;MITD1,3_prime_UTR_variant,,ENST00000422537,;MRPL30,intron_variant,,ENST00000410042,;LIPT1,downstream_gene_variant,,ENST00000436234,;MITD1,intron_variant,,ENST00000487588,;C2orf15,intron_variant,,ENST00000424491,;	C	ENSG00000144182	ENST00000393477	Transcript	missense_variant	575	223	75	G/R	Ggt/Cgt	.	.	.	1	LIPT1	HGNC	29569	protein_coding	YES	CCDS2039.1	ENSP00000377118	LIPT_HUMAN	C9JW10_HUMAN,C9JUU5_HUMAN,C9J7C5_HUMAN,C9J6A9_HUMAN	UPI000003B004	.	deleterious(0)	probably_damaging(0.999)	4/4	.	hmmpanther:PTHR12561,hmmpanther:PTHR12561:SF2,Pfam_domain:PF03099,TIGRFAM_domain:TIGR00545,Gene3D:3.90.1550.10,Superfamily_domains:SSF55681	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAATTGGTAGG	.	5	BLCA
LYG2	0	.	GRCh37	2	99858936	99858936	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530C>G	p.Ser177Ter	p.S177*	ENST00000333017	6/6	261	174	87	96	96	0	LYG2,stop_gained,p.Ser177Ter,ENST00000409238,;LYG2,stop_gained,p.Ser177Ter,ENST00000333017,;LYG2,3_prime_UTR_variant,,ENST00000423800,;LYG2,downstream_gene_variant,,ENST00000409679,;LYG2,downstream_gene_variant,,ENST00000423306,;C2orf15,intron_variant,,ENST00000424491,;	C	ENSG00000185674	ENST00000333017	Transcript	stop_gained	643	530	177	S/*	tCa/tGa	.	.	.	-1	LYG2	HGNC	29615	protein_coding	YES	CCDS2042.1	ENSP00000327533	LYG2_HUMAN	C9JBA4_HUMAN	UPI0000049D92	.	.	.	6/6	.	hmmpanther:PTHR31698:SF4,hmmpanther:PTHR31698,Pfam_domain:PF01464,Gene3D:1.10.530.10,PIRSF_domain:PIRSF001065,Superfamily_domains:SSF53955,Prints_domain:PR00749	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTGAGAGA	.	5	BLCA
LYG2	0	.	GRCh37	2	99860364	99860364	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.520+98C>T	.	.	ENST00000333017	.	62	41	20	23	23	0	LYG2,3_prime_UTR_variant,,ENST00000409679,;LYG2,intron_variant,,ENST00000423800,;LYG2,intron_variant,,ENST00000409238,;LYG2,intron_variant,,ENST00000333017,;LYG2,downstream_gene_variant,,ENST00000423306,;C2orf15,intron_variant,,ENST00000424491,;	A	ENSG00000185674	ENST00000333017	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	LYG2	HGNC	29615	protein_coding	YES	CCDS2042.1	ENSP00000327533	LYG2_HUMAN	C9JBA4_HUMAN	UPI0000049D92	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGACCCC	.	5	BLCA
ATP2B2	0	.	GRCh37	3	10491240	10491240	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-13G>A	.	.	ENST00000360273	2/23	107	63	43	65	65	0	ATP2B2,5_prime_UTR_variant,,ENST00000343816,;ATP2B2,5_prime_UTR_variant,,ENST00000360273,;ATP2B2,5_prime_UTR_variant,,ENST00000383800,;ATP2B2,5_prime_UTR_variant,,ENST00000352432,;ATP2B2,5_prime_UTR_variant,,ENST00000397077,;ATP2B2,5_prime_UTR_variant,,ENST00000460129,;ATP2B2,non_coding_transcript_exon_variant,,ENST00000480680,;	T	ENSG00000157087	ENST00000360273	Transcript	5_prime_UTR_variant	427	.	.	.	.	.	.	.	-1	ATP2B2	HGNC	815	protein_coding	YES	CCDS33701.1	ENSP00000353414	AT2B2_HUMAN	Q4J699_HUMAN,Q4J696_HUMAN	UPI00001261EF	.	.	.	2/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGTCCTTGC	.	5	BLCA
PHLDB2	0	.	GRCh37	3	111604251	111604251	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327G>T	p.Glu443Ter	p.E443*	ENST00000431670	2/18	74	50	24	47	47	0	PHLDB2,stop_gained,p.Glu443Ter,ENST00000477695,;PHLDB2,stop_gained,p.Glu443Ter,ENST00000478922,;PHLDB2,stop_gained,p.Glu470Ter,ENST00000393923,;PHLDB2,stop_gained,p.Glu443Ter,ENST00000412622,;PHLDB2,stop_gained,p.Glu443Ter,ENST00000481953,;PHLDB2,stop_gained,p.Glu443Ter,ENST00000498699,;PHLDB2,stop_gained,p.Glu443Ter,ENST00000431670,;PHLDB2,stop_gained,p.Glu443Ter,ENST00000393925,;	T	ENSG00000144824	ENST00000431670	Transcript	stop_gained	1738	1327	443	E/*	Gag/Tag	.	.	.	1	PHLDB2	HGNC	29573	protein_coding	YES	CCDS46886.1	ENSP00000405405	PHLB2_HUMAN	Q8NEI7_HUMAN,Q659D2_HUMAN	UPI0000457152	.	.	.	2/18	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12156:SF17,hmmpanther:PTHR12156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R444*|c.1330C>T|4,BUFFER|p.R471*|c.1411C>T|4,BUFFER|p.R444*|c.1330C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATGGAGCGA	.	5	BLCA
FSTL1	0	.	GRCh37	3	120114578	120114578	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1221G>A	.	.	ENST00000295633	11/11	81	41	40	55	55	0	FSTL1,3_prime_UTR_variant,,ENST00000295633,;FSTL1,downstream_gene_variant,,ENST00000480823,;FSTL1,downstream_gene_variant,,ENST00000424703,;FSTL1,downstream_gene_variant,,ENST00000488318,;	T	ENSG00000163430	ENST00000295633	Transcript	3_prime_UTR_variant	2505	.	.	.	.	.	.	.	-1	FSTL1	HGNC	3972	protein_coding	YES	CCDS2998.1	ENSP00000295633	FSTL1_HUMAN	Q9BZQ0_HUMAN,C9J5G4_HUMAN	UPI00000422DB	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGATCAGAAC	.	5	BLCA
TIMP4	0	.	GRCh37	3	12198407	12198407	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>A	p.Asp89Asn	p.D89N	ENST00000287814	3/5	118	70	47	72	72	0	TIMP4,missense_variant,p.Asp89Asn,ENST00000287814,;SYN2,intron_variant,,ENST00000432424,;SYN2,intron_variant,,ENST00000426379,;SYN2,upstream_gene_variant,,ENST00000447752,;SYN2,upstream_gene_variant,,ENST00000425297,;SYN2,intron_variant,,ENST00000439861,;	T	ENSG00000157150	ENST00000287814	Transcript	missense_variant	776	265	89	D/N	Gat/Aat	.	.	.	-1	TIMP4	HGNC	11823	protein_coding	YES	CCDS2608.1	ENSP00000287814	TIMP4_HUMAN	.	UPI0000136FA3	.	deleterious(0.01)	benign(0.074)	3/5	.	PROSITE_profiles:PS50189,hmmpanther:PTHR11844:SF8,hmmpanther:PTHR11844,Pfam_domain:PF00965,Gene3D:2.40.50.120,SMART_domains:SM00206,Superfamily_domains:SSF50242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCCTTGA	.	5	BLCA
COL6A5	0	.	GRCh37	3	130187926	130187926	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7078G>C	p.Asp2360His	p.D2360H	ENST00000265379	38/42	50	33	16	22	22	0	COL6A5,missense_variant,p.Asp2360His,ENST00000432398,;COL6A5,missense_variant,p.Asp612His,ENST00000512836,;COL6A5,missense_variant,p.Asp195His,ENST00000512482,;COL6A5,missense_variant,p.Asp303His,ENST00000373157,;COL6A5,missense_variant,p.Asp2360His,ENST00000265379,;COL6A5,missense_variant,p.Asp2360His,ENST00000312481,;	C	ENSG00000172752	ENST00000265379	Transcript	missense_variant	7572	7078	2360	D/H	Gat/Cat	.	.	.	1	COL6A5	HGNC	26674	protein_coding	YES	.	ENSP00000265379	.	E9PAL5_HUMAN	UPI0002064ECE	.	deleterious(0)	possibly_damaging(0.897)	38/42	.	PROSITE_profiles:PS50234,Pfam_domain:PF00092,Gene3D:3.40.50.410,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTGATTTG	.	5	BLCA
DNAJC13	0	.	GRCh37	3	132226123	132226123	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5041G>A	p.Asp1681Asn	p.D1681N	ENST00000260818	43/56	161	110	51	90	90	0	DNAJC13,missense_variant,p.Asp1681Asn,ENST00000260818,;	A	ENSG00000138246	ENST00000260818	Transcript	missense_variant	5289	5041	1681	D/N	Gat/Aat	.	.	.	1	DNAJC13	HGNC	30343	protein_coding	YES	CCDS33857.1	ENSP00000260818	DJC13_HUMAN	.	UPI000022C1FD	.	tolerated(0.49)	benign(0.01)	43/56	.	hmmpanther:PTHR24078,hmmpanther:PTHR24078:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTGATCAT	.	5	BLCA
DNAJC13	0	.	GRCh37	3	132226195	132226195	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5113G>C	p.Glu1705Gln	p.E1705Q	ENST00000260818	43/56	204	140	63	114	114	0	DNAJC13,missense_variant,p.Glu1705Gln,ENST00000260818,;	C	ENSG00000138246	ENST00000260818	Transcript	missense_variant	5361	5113	1705	E/Q	Gag/Cag	.	.	.	1	DNAJC13	HGNC	30343	protein_coding	YES	CCDS33857.1	ENSP00000260818	DJC13_HUMAN	.	UPI000022C1FD	.	tolerated(0.18)	benign(0.041)	43/56	.	hmmpanther:PTHR24078,hmmpanther:PTHR24078:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTGGAGGTA	.	5	BLCA
NME9	0	.	GRCh37	3	138037058	138037058	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133G>A	p.Glu45Lys	p.E45K	ENST00000383180	6/12	83	49	34	44	44	0	NME9,missense_variant,p.Glu45Lys,ENST00000536478,;NME9,missense_variant,p.Glu45Lys,ENST00000317876,;NME9,missense_variant,p.Glu45Lys,ENST00000383180,;NME9,missense_variant,p.Glu67Lys,ENST00000475751,;NME9,missense_variant,p.Glu37Lys,ENST00000474690,;NME9,missense_variant,p.Glu67Lys,ENST00000333911,;NME9,intron_variant,,ENST00000341790,;NME9,intron_variant,,ENST00000484930,;NME9,missense_variant,p.Glu45Lys,ENST00000492993,;NME9,non_coding_transcript_exon_variant,,ENST00000478220,;NME9,downstream_gene_variant,,ENST00000488716,;	T	ENSG00000181322	ENST00000383180	Transcript	missense_variant	371	133	45	E/K	Gag/Aag	.	.	.	-1	NME9	HGNC	21343	protein_coding	YES	CCDS3099.1	ENSP00000372667	TXND6_HUMAN	.	UPI0000073EC5	.	tolerated(0.11)	probably_damaging(0.983)	6/12	.	hmmpanther:PTHR11349:SF48,hmmpanther:PTHR11349,Pfam_domain:PF00085,Gene3D:3.40.30.10,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCTCTGCCT	.	5	BLCA
TM4SF18	0	.	GRCh37	3	149040056	149040056	+	Missense_Mutation	SNP	G	G	A	rs201899022	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.578C>T	p.Ser193Leu	p.S193L	ENST00000296059	5/6	74	51	23	43	43	0	TM4SF18,missense_variant,p.Ser193Leu,ENST00000470080,;TM4SF18,missense_variant,p.Ser193Leu,ENST00000296059,;TM4SF18,downstream_gene_variant,,ENST00000474754,;RP11-206M11.7,intron_variant,,ENST00000489011,;TM4SF18,downstream_gene_variant,,ENST00000491182,;	A	ENSG00000163762	ENST00000296059	Transcript	missense_variant	844	578	193	S/L	tCa/tTa	rs201899022	.	.	-1	TM4SF18	HGNC	25181	protein_coding	YES	CCDS3142.1	ENSP00000296059	T4S18_HUMAN	C9J6Q4_HUMAN	UPI000006F129	.	deleterious(0.01)	probably_damaging(0.946)	5/6	.	hmmpanther:PTHR14198:SF14,hmmpanther:PTHR14198,Pfam_domain:PF05805	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAATAG	byCluster	5	BLCA
FAM194A	0	.	GRCh37	3	150421735	150421735	+	5'UTR	SNP	C	C	T	rs780990332	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-50G>A	.	.	ENST00000295910	1/14	51	37	14	26	26	0	FAM194A,5_prime_UTR_variant,,ENST00000491361,;FAM194A,5_prime_UTR_variant,,ENST00000295910,;FAM194A,5_prime_UTR_variant,,ENST00000498386,;FAM194A,upstream_gene_variant,,ENST00000474463,;RP11-103G8.2,intron_variant,,ENST00000471093,;RP11-103G8.2,upstream_gene_variant,,ENST00000463755,;RP11-103G8.2,upstream_gene_variant,,ENST00000475393,;	T	ENSG00000163645	ENST00000295910	Transcript	5_prime_UTR_variant	4	.	.	.	.	rs780990332	.	.	-1	FAM194A	HGNC	28602	protein_coding	YES	CCDS3151.2	ENSP00000295910	F194A_HUMAN	.	UPI000023281A	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCGGTCGGCTC	.	3	BLCA
FAM194A	0	.	GRCh37	3	150421742	150421742	+	5'Flank	SNP	C	C	T	rs554418787	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000295910	.	45	33	12	28	28	0	FAM194A,5_prime_UTR_variant,,ENST00000491361,;FAM194A,5_prime_UTR_variant,,ENST00000498386,;FAM194A,upstream_gene_variant,,ENST00000474463,;FAM194A,upstream_gene_variant,,ENST00000295910,;RP11-103G8.2,intron_variant,,ENST00000471093,;RP11-103G8.2,upstream_gene_variant,,ENST00000463755,;RP11-103G8.2,upstream_gene_variant,,ENST00000475393,;	T	ENSG00000163645	ENST00000295910	Transcript	upstream_gene_variant	.	.	.	.	.	rs554418787	.	4	-1	FAM194A	HGNC	28602	protein_coding	YES	CCDS3151.2	ENSP00000295910	F194A_HUMAN	.	UPI000023281A	.	.	.	.	.	.	A:0.0016	A:0.0008	A:0	.	A:0	A:0	A:0.0072	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTCTCGCGAG	byFrequency|by1000G	3	BLCA
GPR149	0	.	GRCh37	3	154147036	154147036	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369G>A	p.%3D	p.A123A	ENST00000389740	1/4	73	48	25	49	49	0	GPR149,synonymous_variant,p.%3D,ENST00000389740,;	T	ENSG00000174948	ENST00000389740	Transcript	synonymous_variant	469	369	123	A	gcG/gcA	.	.	.	-1	GPR149	HGNC	23627	protein_coding	YES	CCDS43162.1	ENSP00000374390	GP149_HUMAN	Q2MKA6_HUMAN	UPI00001AEEA9	.	.	.	1/4	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24229:SF32,hmmpanther:PTHR24229,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCGCCTT	.	5	BLCA
GFM1	0	.	GRCh37	3	158364638	158364638	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474C>A	p.%3D	p.V158V	ENST00000486715	4/18	95	61	34	36	36	0	GFM1,synonymous_variant,p.%3D,ENST00000264263,;GFM1,synonymous_variant,p.%3D,ENST00000478576,;GFM1,synonymous_variant,p.%3D,ENST00000486715,;LXN,intron_variant,,ENST00000482640,;GFM1,downstream_gene_variant,,ENST00000464732,;GFM1,synonymous_variant,p.%3D,ENST00000478254,;GFM1,upstream_gene_variant,,ENST00000478251,;	A	ENSG00000168827	ENST00000486715	Transcript	synonymous_variant	831	474	158	V	gtC/gtA	.	.	.	1	GFM1	HGNC	13780	protein_coding	YES	CCDS33885.1	ENSP00000419038	EFGM_HUMAN	E5KND5_HUMAN,C9JA25_HUMAN	UPI000006232D	.	.	.	4/18	.	Superfamily_domains:SSF52540,TIGRFAM_domain:TIGR00484,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00009,Gene3D:3.40.50.300,hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF66,HAMAP:MF_00054_B	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTCAATCG	.	5	BLCA
GALNT15	0	.	GRCh37	3	16254109	16254109	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1231C>A	p.Pro411Thr	p.P411T	ENST00000339732	6/10	67	46	20	43	43	0	GALNT15,missense_variant,p.Pro411Thr,ENST00000339732,;GALNT15,missense_variant,p.Pro411Thr,ENST00000437509,;GALNT15,upstream_gene_variant,,ENST00000489467,;GALNT15,downstream_gene_variant,,ENST00000430410,;	A	ENSG00000131386	ENST00000339732	Transcript	missense_variant	1734	1231	411	P/T	Ccc/Acc	.	.	.	1	GALNT15	HGNC	21531	protein_coding	YES	CCDS33711.1	ENSP00000344260	GLT15_HUMAN	B3KT16_HUMAN	UPI0000048F0D	.	deleterious(0)	probably_damaging(0.999)	6/10	.	hmmpanther:PTHR11675:SF36,hmmpanther:PTHR11675,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCCCTGC	.	5	BLCA
GALNT15	0	.	GRCh37	3	16254234	16254234	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1356C>T	p.%3D	p.F452F	ENST00000339732	6/10	108	68	40	73	73	0	GALNT15,synonymous_variant,p.%3D,ENST00000339732,;GALNT15,synonymous_variant,p.%3D,ENST00000437509,;GALNT15,non_coding_transcript_exon_variant,,ENST00000489467,;GALNT15,downstream_gene_variant,,ENST00000430410,;	T	ENSG00000131386	ENST00000339732	Transcript	synonymous_variant	1859	1356	452	F	ttC/ttT	.	.	.	1	GALNT15	HGNC	21531	protein_coding	YES	CCDS33711.1	ENSP00000344260	GLT15_HUMAN	B3KT16_HUMAN	UPI0000048F0D	.	.	.	6/10	.	hmmpanther:PTHR11675:SF36,hmmpanther:PTHR11675,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTACAA	.	5	BLCA
RFTN1	0	.	GRCh37	3	16411602	16411602	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011C>T	p.%3D	p.F337F	ENST00000334133	6/10	186	117	69	105	105	0	RFTN1,synonymous_variant,p.%3D,ENST00000432519,;RFTN1,synonymous_variant,p.%3D,ENST00000334133,;RFTN1,non_coding_transcript_exon_variant,,ENST00000483671,;	A	ENSG00000131378	ENST00000334133	Transcript	synonymous_variant	1284	1011	337	F	ttC/ttT	.	.	.	-1	RFTN1	HGNC	30278	protein_coding	YES	CCDS33712.1	ENSP00000334153	RFTN1_HUMAN	C9JRN3_HUMAN,C9JWQ9_HUMAN,C9JHG2_HUMAN,B4E1H7_HUMAN	UPI00001C1DE7	.	.	.	6/10	.	hmmpanther:PTHR17601:SF3,hmmpanther:PTHR17601,Pfam_domain:PF15250	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTAGAAGAC	.	5	BLCA
WDR49	0	.	GRCh37	3	167293719	167293719	+	Missense_Mutation	SNP	G	G	C	rs762695592	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.473C>G	p.Ser158Cys	p.S158C	ENST00000308378	4/15	192	122	69	92	92	0	WDR49,missense_variant,p.Ser223Cys,ENST00000472600,;WDR49,missense_variant,p.Ser211Cys,ENST00000453925,;WDR49,missense_variant,p.Ser158Cys,ENST00000308378,;WDR49,missense_variant,p.Ser499Cys,ENST00000479765,;WDR49,intron_variant,,ENST00000466760,;WDR49,upstream_gene_variant,,ENST00000476376,;WDR49,3_prime_UTR_variant,,ENST00000460448,;	C	ENSG00000174776	ENST00000308378	Transcript	missense_variant	779	473	158	S/C	tCt/tGt	rs762695592	.	.	-1	WDR49	HGNC	26587	protein_coding	YES	CCDS3201.1	ENSP00000311343	WDR49_HUMAN	.	UPI00000746AD	.	deleterious(0)	possibly_damaging(0.838)	4/15	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR22844:SF132,hmmpanther:PTHR22844,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATAGAATTG	byFrequency	5	BLCA
SLC2A2	0	.	GRCh37	3	170723895	170723895	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613-1G>C	.	p.X205_splice	ENST00000314251	.	65	47	17	22	22	0	SLC2A2,splice_acceptor_variant,,ENST00000314251,;SLC2A2,splice_acceptor_variant,,ENST00000461867,;SLC2A2,splice_acceptor_variant,,ENST00000382808,;SLC2A2,splice_acceptor_variant,,ENST00000469787,;SLC2A2,splice_acceptor_variant,,ENST00000497642,;SLC2A2,intron_variant,,ENST00000471379,;	G	ENSG00000163581	ENST00000314251	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	SLC2A2	HGNC	11006	protein_coding	YES	CCDS3215.1	ENSP00000323568	GTR2_HUMAN	Q6PAU8_HUMAN,C9J0E8_HUMAN	UPI000004EC97	.	.	.	.	5/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATCTGAAA	.	5	BLCA
TNIK	0	.	GRCh37	3	170828529	170828529	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2258G>A	p.Gly753Glu	p.G753E	ENST00000436636	19/33	12	6	6	17	17	0	TNIK,missense_variant,p.Gly724Glu,ENST00000470834,;TNIK,missense_variant,p.Gly669Glu,ENST00000341852,;TNIK,missense_variant,p.Gly753Glu,ENST00000436636,;TNIK,missense_variant,p.Gly669Glu,ENST00000475336,;TNIK,missense_variant,p.Gly698Glu,ENST00000538048,;TNIK,missense_variant,p.Gly698Glu,ENST00000488470,;TNIK,missense_variant,p.Gly724Glu,ENST00000369326,;TNIK,missense_variant,p.Gly753Glu,ENST00000284483,;TNIK,missense_variant,p.Gly698Glu,ENST00000460047,;TNIK,missense_variant,p.Gly724Glu,ENST00000357327,;MIR569,upstream_gene_variant,,ENST00000385228,;	T	ENSG00000154310	ENST00000436636	Transcript	missense_variant	2603	2258	753	G/E	gGa/gAa	.	.	.	-1	TNIK	HGNC	30765	protein_coding	YES	CCDS46956.1	ENSP00000399511	TNIK_HUMAN	.	UPI000003ABDF	.	deleterious(0)	probably_damaging(0.999)	19/33	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24361:SF196,hmmpanther:PTHR24361	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGATCCTGCT	.	3	BLCA
PIK3CA	0	.	GRCh37	3	178936082	178936082	+	Missense_Mutation	SNP	G	G	A	rs121913273	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624G>A	p.Glu542Lys	p.E542K	ENST00000263967	10/21	105	71	33	43	43	0	PIK3CA,missense_variant,p.Glu542Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1781	1624	542	E/K	Gaa/Aaa	rs121913273,COSM760,COSM17442,COSM125369,COSM326157	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.04)	probably_damaging(0.96)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	pathogenic	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E542K|c.1624G>A|115,SITE|p.E542K|c.1624G>A|758,BUFFER|p.D538D|c.1614T>C|4,BUFFER|p.D538D|c.1614T>C|4,BUFFER|p.P539S|c.1615C>T|3,BUFFER|p.P539R|c.1616C>G|19,BUFFER|p.P539P|c.1617T>C|7,BUFFER|p.P539P|c.1617T>C|7,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.T544N|c.1631C>A|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545K|c.1633G>A|227,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545K|c.1633G>A|1153,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTGAAATC	.	5	BLCA
EIF2B5	0	.	GRCh37	3	183862399	183862399	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2010C>T	p.%3D	p.F670F	ENST00000273783	15/16	69	46	23	37	37	0	EIF2B5,synonymous_variant,p.%3D,ENST00000273783,;EIF2B5,synonymous_variant,p.%3D,ENST00000444495,;EIF2B5,downstream_gene_variant,,ENST00000492773,;EIF2B5,downstream_gene_variant,,ENST00000479833,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000465218,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000492226,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000481054,;EIF2B5,non_coding_transcript_exon_variant,,ENST00000491144,;EIF2B5,downstream_gene_variant,,ENST00000432982,;EIF2B5,downstream_gene_variant,,ENST00000491008,;EIF2B5,downstream_gene_variant,,ENST00000479250,;EIF2B5,downstream_gene_variant,,ENST00000484154,;EIF2B5,downstream_gene_variant,,ENST00000493740,;EIF2B5,downstream_gene_variant,,ENST00000468748,;	T	ENSG00000145191	ENST00000273783	Transcript	synonymous_variant	2132	2010	670	F	ttC/ttT	.	.	.	1	EIF2B5	HGNC	3261	protein_coding	YES	CCDS3252.1	ENSP00000273783	EI2BE_HUMAN	C9JRD9_HUMAN	UPI000013D9CF	.	.	.	15/16	.	PROSITE_profiles:PS51363,Gene3D:1.25.40.180,Pfam_domain:PF02020,SMART_domains:SM00515,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTACCA	.	5	BLCA
DVL3	0	.	GRCh37	3	183885729	183885729	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1374C>T	p.%3D	p.F458F	ENST00000313143	13/15	94	57	37	68	68	0	DVL3,synonymous_variant,p.%3D,ENST00000313143,;DVL3,synonymous_variant,p.%3D,ENST00000431765,;EIF2B5,intron_variant,,ENST00000444495,;DVL3,downstream_gene_variant,,ENST00000423300,;DVL3,downstream_gene_variant,,ENST00000462665,;DVL3,non_coding_transcript_exon_variant,,ENST00000478247,;DVL3,downstream_gene_variant,,ENST00000467873,;DVL3,downstream_gene_variant,,ENST00000435708,;DVL3,downstream_gene_variant,,ENST00000478639,;	T	ENSG00000161202	ENST00000313143	Transcript	synonymous_variant	1622	1374	458	F	ttC/ttT	.	.	.	1	DVL3	HGNC	3087	protein_coding	YES	CCDS3253.1	ENSP00000316054	DVL3_HUMAN	Q8WVA8_HUMAN,C9K0P9_HUMAN	UPI00001299A9	.	.	.	13/15	.	PROSITE_profiles:PS50186,hmmpanther:PTHR10878:SF6,hmmpanther:PTHR10878,Gene3D:1.10.10.10,Pfam_domain:PF00610,SMART_domains:SM00049,Superfamily_domains:SSF46785,Prints_domain:PR01760	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCACGGA	.	5	BLCA
DVL3	0	.	GRCh37	3	183885783	183885783	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1428C>T	p.%3D	p.F476F	ENST00000313143	13/15	178	110	67	105	105	0	DVL3,synonymous_variant,p.%3D,ENST00000313143,;DVL3,synonymous_variant,p.%3D,ENST00000431765,;EIF2B5,intron_variant,,ENST00000444495,;DVL3,downstream_gene_variant,,ENST00000423300,;DVL3,downstream_gene_variant,,ENST00000462665,;DVL3,non_coding_transcript_exon_variant,,ENST00000478247,;DVL3,downstream_gene_variant,,ENST00000467873,;DVL3,downstream_gene_variant,,ENST00000435708,;DVL3,downstream_gene_variant,,ENST00000478639,;	T	ENSG00000161202	ENST00000313143	Transcript	synonymous_variant	1676	1428	476	F	ttC/ttT	.	.	.	1	DVL3	HGNC	3087	protein_coding	YES	CCDS3253.1	ENSP00000316054	DVL3_HUMAN	Q8WVA8_HUMAN,C9K0P9_HUMAN	UPI00001299A9	.	.	.	13/15	.	PROSITE_profiles:PS50186,hmmpanther:PTHR10878:SF6,hmmpanther:PTHR10878,Gene3D:1.10.10.10,Pfam_domain:PF00610,SMART_domains:SM00049,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCATCCG	.	5	BLCA
XXYLT1	0	.	GRCh37	3	194991365	194991365	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423C>T	p.%3D	p.F141F	ENST00000310380	1/4	25	14	11	20	20	0	XXYLT1,synonymous_variant,p.%3D,ENST00000310380,;ACAP2,downstream_gene_variant,,ENST00000326793,;XXYLT1,synonymous_variant,p.%3D,ENST00000455281,;	A	ENSG00000173950	ENST00000310380	Transcript	synonymous_variant	532	423	141	F	ttC/ttT	.	.	.	-1	XXYLT1	HGNC	26639	protein_coding	YES	CCDS43188.1	ENSP00000309640	XXLT1_HUMAN	.	UPI000003B10F	.	.	.	1/4	.	hmmpanther:PTHR12270,hmmpanther:PTHR12270:SF17,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCACGAAGTG	.	5	BLCA
ZDHHC19	0	.	GRCh37	3	195937533	195937533	+	Silent	SNP	G	G	A	rs750064079	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222C>T	p.%3D	p.F74F	ENST00000296326	2/8	107	74	33	60	60	0	ZDHHC19,synonymous_variant,p.%3D,ENST00000296326,;SLC51A,upstream_gene_variant,,ENST00000416660,;PCYT1A,downstream_gene_variant,,ENST00000441879,;ZDHHC19,non_coding_transcript_exon_variant,,ENST00000488508,;ZDHHC19,synonymous_variant,p.%3D,ENST00000438232,;ZDHHC19,synonymous_variant,p.%3D,ENST00000397544,;ZDHHC19,splice_region_variant,,ENST00000465519,;	A	ENSG00000163958	ENST00000296326	Transcript	synonymous_variant	302	222	74	F	ttC/ttT	rs750064079,COSM446257	.	.	-1	ZDHHC19	HGNC	20713	protein_coding	YES	CCDS43190.1	ENSP00000296326	ZDH19_HUMAN	B3KVI1_HUMAN	UPI00006BFF56	.	.	.	2/8	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR22883:SF7,hmmpanther:PTHR22883,Pfam_domain:PF01529	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTGAAGAA	.	5	BLCA
UBXN7	0	.	GRCh37	3	196089367	196089367	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1026G>A	p.%3D	p.E342E	ENST00000296328	9/11	224	151	72	92	92	0	UBXN7,synonymous_variant,p.%3D,ENST00000535858,;UBXN7,synonymous_variant,p.%3D,ENST00000428095,;UBXN7,synonymous_variant,p.%3D,ENST00000296328,;UBXN7,3_prime_UTR_variant,,ENST00000429160,;	T	ENSG00000163960	ENST00000296328	Transcript	synonymous_variant	1101	1026	342	E	gaG/gaA	.	.	.	-1	UBXN7	HGNC	29119	protein_coding	YES	CCDS43191.1	ENSP00000296328	UBXN7_HUMAN	F5GYB1_HUMAN,C9JD50_HUMAN,C9JAT7_HUMAN	UPI00001C1DEF	.	.	.	9/11	.	hmmpanther:PTHR23322:SF6,hmmpanther:PTHR23322,PIRSF_domain:PIRSF037991	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCTCTAC	.	5	BLCA
IQCG	0	.	GRCh37	3	197672512	197672512	+	5'UTR	SNP	C	C	T	rs756641348	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14G>A	.	.	ENST00000265239	3/12	73	46	27	33	33	0	IQCG,5_prime_UTR_variant,,ENST00000455191,;IQCG,5_prime_UTR_variant,,ENST00000265239,;IQCG,5_prime_UTR_variant,,ENST00000452735,;IQCG,5_prime_UTR_variant,,ENST00000453254,;IQCG,intron_variant,,ENST00000416896,;RPL35A,upstream_gene_variant,,ENST00000442341,;RPL35A,upstream_gene_variant,,ENST00000448864,;RPL35A,upstream_gene_variant,,ENST00000464167,;IQCG,non_coding_transcript_exon_variant,,ENST00000480302,;IQCG,non_coding_transcript_exon_variant,,ENST00000463651,;RPL35A,upstream_gene_variant,,ENST00000329092,;RPL35A,upstream_gene_variant,,ENST00000429437,;RPL35A,upstream_gene_variant,,ENST00000496582,;RPL35A,upstream_gene_variant,,ENST00000485439,;	T	ENSG00000114473	ENST00000265239	Transcript	5_prime_UTR_variant	412	.	.	.	.	rs756641348	.	.	-1	IQCG	HGNC	25251	protein_coding	YES	CCDS3331.1	ENSP00000265239	IQCG_HUMAN	C9JUC1_HUMAN,C9J6M9_HUMAN	UPI0000037D68	.	.	.	3/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCGTTAC	byFrequency	5	BLCA
NGLY1	0	.	GRCh37	3	25820067	25820067	+	Nonsense_Mutation	SNP	C	C	A	rs771648190	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.244G>T	p.Glu82Ter	p.E82*	ENST00000280700	2/12	130	78	52	78	78	0	NGLY1,stop_gained,p.Glu5Ter,ENST00000422724,;NGLY1,stop_gained,p.Glu82Ter,ENST00000280700,;NGLY1,stop_gained,p.Glu82Ter,ENST00000428257,;NGLY1,stop_gained,p.Glu5Ter,ENST00000427041,;NGLY1,stop_gained,p.Glu40Ter,ENST00000417874,;NGLY1,stop_gained,p.Glu82Ter,ENST00000396649,;NGLY1,stop_gained,p.Glu79Ter,ENST00000308710,;OXSM,upstream_gene_variant,,ENST00000452098,;NGLY1,splice_region_variant,,ENST00000474611,;NGLY1,splice_region_variant,,ENST00000461491,;OXSM,upstream_gene_variant,,ENST00000460195,;OXSM,upstream_gene_variant,,ENST00000464688,;NGLY1,downstream_gene_variant,,ENST00000463611,;NGLY1,stop_gained,p.Glu74Ter,ENST00000280699,;NGLY1,splice_region_variant,,ENST00000493324,;NGLY1,non_coding_transcript_exon_variant,,ENST00000478991,;	A	ENSG00000151092	ENST00000280700	Transcript	stop_gained	405	244	82	E/*	Gag/Tag	rs771648190	.	.	-1	NGLY1	HGNC	17646	protein_coding	YES	CCDS33719.1	ENSP00000280700	NGLY1_HUMAN	C9JU75_HUMAN	UPI0000001239	.	.	.	2/12	.	hmmpanther:PTHR12143,hmmpanther:PTHR12143:SF19,Pfam_domain:PF09409,SMART_domains:SM00580,Superfamily_domains:0052385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCTTCAA	byFrequency	5	BLCA
STAC	0	.	GRCh37	3	36527655	36527655	+	Missense_Mutation	SNP	G	G	A	rs199662305	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>A	p.Glu201Lys	p.E201K	ENST00000273183	5/11	234	154	80	138	138	0	STAC,missense_variant,p.Glu129Lys,ENST00000434649,;STAC,missense_variant,p.Glu201Lys,ENST00000273183,;STAC,missense_variant,p.Glu140Lys,ENST00000457375,;STAC,non_coding_transcript_exon_variant,,ENST00000476388,;STAC,3_prime_UTR_variant,,ENST00000427486,;STAC,upstream_gene_variant,,ENST00000473452,;	A	ENSG00000144681	ENST00000273183	Transcript	missense_variant	901	601	201	E/K	Gag/Aag	rs199662305,COSM583422	.	.	1	STAC	HGNC	11353	protein_coding	YES	CCDS2662.1	ENSP00000273183	STAC_HUMAN	B4DZ13_HUMAN	UPI0000136081	.	deleterious(0)	possibly_damaging(0.86)	5/11	.	hmmpanther:PTHR15135:SF3,hmmpanther:PTHR15135	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTACGAGACC	byFrequency|byCluster	5	BLCA
TRANK1	0	.	GRCh37	3	36898549	36898549	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2532C>G	p.%3D	p.L844L	ENST00000429976	12/23	95	55	40	32	32	0	TRANK1,synonymous_variant,p.%3D,ENST00000428977,;TRANK1,synonymous_variant,p.%3D,ENST00000301807,;TRANK1,synonymous_variant,p.%3D,ENST00000429976,;TRANK1,downstream_gene_variant,,ENST00000513141,;	C	ENSG00000168016	ENST00000429976	Transcript	synonymous_variant	2780	2532	844	L	ctC/ctG	.	.	.	-1	TRANK1	HGNC	29011	protein_coding	YES	CCDS46789.2	ENSP00000416168	TRNK1_HUMAN	B7WP88_HUMAN	UPI00017BE82B	.	.	.	12/23	.	hmmpanther:PTHR21529:SF5,hmmpanther:PTHR21529	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E296K|c.886G>A|3,BUFFER|p.E296K|c.886G>A|3,BUFFER|p.E846K|c.2536G>A|3	RADIA|MUTECT|MUSE	TCGAAGAGCTG	.	3	BLCA
SCN10A	0	.	GRCh37	3	38793964	38793964	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1501C>T	p.His501Tyr	p.H501Y	ENST00000449082	11/27	42	23	19	24	24	0	SCN10A,missense_variant,p.His501Tyr,ENST00000449082,;	A	ENSG00000185313	ENST00000449082	Transcript	missense_variant	1501	1501	501	H/Y	Cat/Tat	.	.	.	-1	SCN10A	HGNC	10582	protein_coding	YES	CCDS33736.1	ENSP00000390600	SCNAA_HUMAN	.	UPI0000209BDA	.	tolerated(0.17)	benign(0.029)	11/27	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGACTAG	.	5	BLCA
TTC21A	0	.	GRCh37	3	39178544	39178544	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3271G>A	p.Glu1091Lys	p.E1091K	ENST00000431162	24/29	83	54	28	37	37	0	TTC21A,missense_variant,p.Glu1043Lys,ENST00000440121,;TTC21A,missense_variant,p.Glu1092Lys,ENST00000301819,;TTC21A,missense_variant,p.Glu1091Lys,ENST00000431162,;CSRNP1,downstream_gene_variant,,ENST00000273153,;TTC21A,non_coding_transcript_exon_variant,,ENST00000490245,;TTC21A,non_coding_transcript_exon_variant,,ENST00000472866,;TTC21A,non_coding_transcript_exon_variant,,ENST00000493856,;TTC21A,downstream_gene_variant,,ENST00000465962,;TTC21A,downstream_gene_variant,,ENST00000481734,;TTC21A,missense_variant,p.Glu1084Lys,ENST00000430597,;TTC21A,downstream_gene_variant,,ENST00000473587,;TTC21A,upstream_gene_variant,,ENST00000460460,;	A	ENSG00000168026	ENST00000431162	Transcript	missense_variant	3405	3271	1091	E/K	Gag/Aag	.	.	.	1	TTC21A	HGNC	30761	protein_coding	YES	CCDS46800.1	ENSP00000398211	TT21A_HUMAN	.	UPI00015D46B9	.	tolerated(0.46)	benign(0.02)	24/29	.	hmmpanther:PTHR14699:SF2,hmmpanther:PTHR14699	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGAGAGC	.	4	BLCA
ZNF501	0	.	GRCh37	3	44776745	44776745	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*16G>C	.	.	ENST00000396048	3/3	79	49	30	37	37	0	ZNF501,3_prime_UTR_variant,,ENST00000396048,;KIAA1143,downstream_gene_variant,,ENST00000484437,;ZNF501,downstream_gene_variant,,ENST00000491543,;ZNF501,downstream_gene_variant,,ENST00000484233,;ZNF501,downstream_gene_variant,,ENST00000486486,;	C	ENSG00000186446	ENST00000396048	Transcript	3_prime_UTR_variant	1269	.	.	.	.	.	.	.	1	ZNF501	HGNC	23717	protein_coding	YES	CCDS2720.2	ENSP00000379363	ZN501_HUMAN	Q15923_HUMAN	UPI00005A76A1	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATGAGTAT	.	5	BLCA
MAP4	0	.	GRCh37	3	47951694	47951694	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1999+4613C>T	.	.	ENST00000360240	.	79	51	27	32	32	0	MAP4,missense_variant,p.Ala1423Val,ENST00000426837,;MAP4,missense_variant,p.Ala13Val,ENST00000383736,;MAP4,missense_variant,p.Ala13Val,ENST00000264724,;MAP4,intron_variant,,ENST00000360240,;MAP4,intron_variant,,ENST00000395734,;MAP4,intron_variant,,ENST00000383737,;MAP4,upstream_gene_variant,,ENST00000429422,;MAP4,intron_variant,,ENST00000482752,;	A	ENSG00000047849	ENST00000360240	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MAP4	HGNC	6862	protein_coding	YES	CCDS33750.1	ENSP00000353375	MAP4_HUMAN	.	UPI000020A6A4	.	.	.	.	8/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATAGGCCATT	.	5	BLCA
UQCRC1	0	.	GRCh37	3	48642088	48642088	+	Silent	SNP	C	C	T	rs746906806	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423G>A	p.%3D	p.P141P	ENST00000203407	4/13	55	32	23	25	25	0	UQCRC1,synonymous_variant,p.%3D,ENST00000203407,;UQCRC1,downstream_gene_variant,,ENST00000493806,;UQCRC1,missense_variant,p.Arg96Gln,ENST00000415995,;UQCRC1,3_prime_UTR_variant,,ENST00000412343,;UQCRC1,non_coding_transcript_exon_variant,,ENST00000467690,;UQCRC1,non_coding_transcript_exon_variant,,ENST00000472438,;UQCRC1,non_coding_transcript_exon_variant,,ENST00000463708,;UQCRC1,upstream_gene_variant,,ENST00000460105,;UQCRC1,upstream_gene_variant,,ENST00000480561,;UQCRC1,upstream_gene_variant,,ENST00000471189,;	T	ENSG00000010256	ENST00000203407	Transcript	synonymous_variant	840	423	141	P	ccG/ccA	rs746906806	.	.	-1	UQCRC1	HGNC	12585	protein_coding	YES	CCDS2774.1	ENSP00000203407	QCR1_HUMAN	B4DZB9_HUMAN	UPI000006DFD4	.	.	.	4/13	.	hmmpanther:PTHR11851:SF116,hmmpanther:PTHR11851,Pfam_domain:PF00675,Gene3D:3.30.830.10,Superfamily_domains:SSF63411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCGGCAG	byFrequency	5	BLCA
ARIH2	0	.	GRCh37	3	49011238	49011238	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.877delC	p.His293ThrfsTer35	p.H293Tfs*35	ENST00000356401	9/16	155	127	28	56	56	0	ARIH2,frameshift_variant,p.His293ThrfsTer35,ENST00000449376,;ARIH2,frameshift_variant,p.His293ThrfsTer35,ENST00000356401,;ARIH2,non_coding_transcript_exon_variant,,ENST00000495761,;ARIH2,non_coding_transcript_exon_variant,,ENST00000465217,;ARIH2,non_coding_transcript_exon_variant,,ENST00000490095,;ARIH2,downstream_gene_variant,,ENST00000483333,;ARIH2,downstream_gene_variant,,ENST00000498314,;ARIH2,3_prime_UTR_variant,,ENST00000452385,;ARIH2,non_coding_transcript_exon_variant,,ENST00000469038,;ARIH2,downstream_gene_variant,,ENST00000482342,;	-	ENSG00000177479	ENST00000356401	Transcript	frameshift_variant	1216	877	293	H/X	Cac/ac	.	.	.	1	ARIH2	HGNC	690	protein_coding	YES	CCDS2780.1	ENSP00000348769	ARI2_HUMAN	Q6IBL8_HUMAN,C9JZ71_HUMAN,C9JCL4_HUMAN,C9JBC5_HUMAN,C9JAU2_HUMAN	UPI0000125EDA	.	.	.	9/16	.	hmmpanther:PTHR11685,hmmpanther:PTHR11685:SF117,Gene3D:3.30.40.10,Pfam_domain:PF01485,SMART_domains:SM00647,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGTGCTCACACT	.	3	BLCA
ABHD14A	0	.	GRCh37	3	52011891	52011891	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.74T>C	p.Val25Ala	p.V25A	ENST00000273596	2/5	202	125	77	132	132	0	ABHD14A,missense_variant,p.Val20Ala,ENST00000494478,;ABHD14A,missense_variant,p.Val25Ala,ENST00000491470,;ABHD14A-ACY1,missense_variant,p.Val25Ala,ENST00000463937,;ABHD14A,missense_variant,p.Val90Ala,ENST00000497864,;ABHD14A,missense_variant,p.Val25Ala,ENST00000273596,;ACY1,5_prime_UTR_variant,,ENST00000458031,;ABHD14B,intron_variant,,ENST00000483233,;ABHD14B,upstream_gene_variant,,ENST00000361143,;ABHD14B,upstream_gene_variant,,ENST00000395008,;ABHD14B,upstream_gene_variant,,ENST00000461108,;RP11-155D18.14,upstream_gene_variant,,ENST00000489595,;ABHD14B,upstream_gene_variant,,ENST00000525795,;ABHD14B,upstream_gene_variant,,ENST00000315877,;ABHD14B,upstream_gene_variant,,ENST00000487005,;RP11-155D18.12,upstream_gene_variant,,ENST00000488257,;ABHD14A-ACY1,missense_variant,p.Val25Ala,ENST00000463721,;ABHD14A-ACY1,missense_variant,p.Val25Ala,ENST00000486081,;ABHD14A,non_coding_transcript_exon_variant,,ENST00000474575,;ABHD14A-ACY1,intron_variant,,ENST00000497128,;ABHD14B,upstream_gene_variant,,ENST00000473912,;	C	ENSG00000248487	ENST00000273596	Transcript	missense_variant	142	74	25	V/A	gTg/gCg	.	.	.	1	ABHD14A	HGNC	24538	protein_coding	YES	CCDS2843.1	ENSP00000273596	ABHEA_HUMAN	.	UPI000045711A	.	tolerated_low_confidence(0.11)	benign(0.001)	2/5	.	hmmpanther:PTHR10992,hmmpanther:PTHR10992:SF280	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTGTGGTAC	.	5	BLCA
ALAS1	0	.	GRCh37	3	52236745	52236745	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423delG	p.Glu143ArgfsTer14	p.E143Rfs*14	ENST00000394965	4/12	50	38	12	22	22	0	ALAS1,frameshift_variant,p.Glu143ArgfsTer14,ENST00000484952,;ALAS1,frameshift_variant,p.Glu143ArgfsTer14,ENST00000469224,;ALAS1,frameshift_variant,p.Glu143ArgfsTer14,ENST00000394965,;ALAS1,frameshift_variant,p.Glu143ArgfsTer14,ENST00000310271,;ALAS1,upstream_gene_variant,,ENST00000493402,;	-	ENSG00000023330	ENST00000394965	Transcript	frameshift_variant	782	422	141	R/X	aGg/ag	.	.	.	1	ALAS1	HGNC	396	protein_coding	YES	CCDS2847.1	ENSP00000378416	HEM1_HUMAN	Q5JAM2_HUMAN	UPI0000001230	.	.	.	4/12	.	hmmpanther:PTHR13693,hmmpanther:PTHR13693:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCGTGAGGAAAG	.	3	BLCA
STAB1	0	.	GRCh37	3	52555955	52555955	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6259C>T	p.Arg2087Cys	p.R2087C	ENST00000321725	58/69	61	46	14	36	36	0	STAB1,missense_variant,p.Arg2087Cys,ENST00000321725,;NT5DC2,downstream_gene_variant,,ENST00000459839,;NT5DC2,downstream_gene_variant,,ENST00000422318,;NT5DC2,downstream_gene_variant,,ENST00000307076,;NT5DC2,downstream_gene_variant,,ENST00000307092,;STAB1,upstream_gene_variant,,ENST00000469989,;NT5DC2,downstream_gene_variant,,ENST00000463947,;STAB1,non_coding_transcript_exon_variant,,ENST00000462741,;STAB1,non_coding_transcript_exon_variant,,ENST00000462681,;STAB1,non_coding_transcript_exon_variant,,ENST00000481626,;STAB1,downstream_gene_variant,,ENST00000461325,;NT5DC2,downstream_gene_variant,,ENST00000492555,;NT5DC2,downstream_gene_variant,,ENST00000479024,;NT5DC2,downstream_gene_variant,,ENST00000462261,;NT5DC2,downstream_gene_variant,,ENST00000478091,;NT5DC2,downstream_gene_variant,,ENST00000466112,;NT5DC2,downstream_gene_variant,,ENST00000469616,;	T	ENSG00000010327	ENST00000321725	Transcript	missense_variant	6335	6259	2087	R/C	Cgt/Tgt	.	.	.	1	STAB1	HGNC	18628	protein_coding	YES	CCDS33768.1	ENSP00000312946	STAB1_HUMAN	.	UPI0000140C12	.	tolerated(0.07)	possibly_damaging(0.582)	58/69	.	SMART_domains:SM00181,Gene3D:2gy5A03,PROSITE_patterns:PS01186,hmmpanther:PTHR24038:SF2,hmmpanther:PTHR24038,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGCCGTGTG	.	5	BLCA
NEK4	0	.	GRCh37	3	52799959	52799959	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610C>T	p.His204Tyr	p.H204Y	ENST00000233027	4/16	191	109	82	115	114	1	NEK4,missense_variant,p.His204Tyr,ENST00000233027,;NEK4,missense_variant,p.His115Tyr,ENST00000461689,;NEK4,missense_variant,p.His204Tyr,ENST00000383721,;NEK4,missense_variant,p.His115Tyr,ENST00000535191,;NEK4,downstream_gene_variant,,ENST00000496822,;	A	ENSG00000114904	ENST00000233027	Transcript	missense_variant	813	610	204	H/Y	Cat/Tat	.	.	.	-1	NEK4	HGNC	11399	protein_coding	YES	CCDS2863.1	ENSP00000233027	NEK4_HUMAN	.	UPI000013C96A	.	deleterious(0)	probably_damaging(0.999)	4/16	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF240,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGCTTCA	.	5	BLCA
ITIH4	0	.	GRCh37	3	52852289	52852289	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2163G>A	p.Met721Ile	p.M721I	ENST00000266041	19/24	88	66	22	39	39	0	ITIH4,missense_variant,p.Met691Ile,ENST00000346281,;ITIH4,missense_variant,p.Met721Ile,ENST00000266041,;ITIH4,missense_variant,p.Met549Ile,ENST00000441637,;ITIH4,missense_variant,p.Met726Ile,ENST00000485816,;ITIH4,missense_variant,p.Met691Ile,ENST00000406595,;ITIH4,downstream_gene_variant,,ENST00000434759,;ITIH4,downstream_gene_variant,,ENST00000471505,;ITIH4,downstream_gene_variant,,ENST00000484632,;ITIH4,downstream_gene_variant,,ENST00000467462,;RP5-966M1.6,3_prime_UTR_variant,,ENST00000468472,;ITIH4,non_coding_transcript_exon_variant,,ENST00000461966,;ITIH4,non_coding_transcript_exon_variant,,ENST00000491663,;ITIH4,non_coding_transcript_exon_variant,,ENST00000481977,;ITIH4,upstream_gene_variant,,ENST00000464000,;ITIH4,downstream_gene_variant,,ENST00000485894,;ITIH4,downstream_gene_variant,,ENST00000537897,;	T	ENSG00000055955	ENST00000266041	Transcript	missense_variant	2260	2163	721	M/I	atG/atA	.	.	.	-1	ITIH4	HGNC	6169	protein_coding	YES	CCDS2865.1	ENSP00000266041	ITIH4_HUMAN	.	UPI000013D6C3	.	tolerated(0.27)	benign(0)	19/24	.	hmmpanther:PTHR10338:SF98,hmmpanther:PTHR10338	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTCATGGT	.	5	BLCA
SLMAP	0	.	GRCh37	3	57898358	57898358	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1848G>C	p.%3D	p.L616L	ENST00000295951	18/22	93	58	35	48	48	0	SLMAP,synonymous_variant,p.%3D,ENST00000494088,;SLMAP,synonymous_variant,p.%3D,ENST00000449503,;SLMAP,synonymous_variant,p.%3D,ENST00000417128,;SLMAP,synonymous_variant,p.%3D,ENST00000438794,;SLMAP,synonymous_variant,p.%3D,ENST00000442599,;SLMAP,synonymous_variant,p.%3D,ENST00000416870,;SLMAP,synonymous_variant,p.%3D,ENST00000295952,;SLMAP,synonymous_variant,p.%3D,ENST00000495364,;SLMAP,synonymous_variant,p.%3D,ENST00000416658,;SLMAP,synonymous_variant,p.%3D,ENST00000428312,;SLMAP,synonymous_variant,p.%3D,ENST00000295951,;SLMAP,downstream_gene_variant,,ENST00000461354,;SLMAP,upstream_gene_variant,,ENST00000460223,;SLMAP,downstream_gene_variant,,ENST00000466255,;SLMAP,non_coding_transcript_exon_variant,,ENST00000472546,;SLMAP,non_coding_transcript_exon_variant,,ENST00000476471,;SLMAP,upstream_gene_variant,,ENST00000497084,;SLMAP,downstream_gene_variant,,ENST00000459654,;	C	ENSG00000163681	ENST00000295951	Transcript	synonymous_variant	3065	1848	616	L	ctG/ctC	.	.	.	1	SLMAP	HGNC	16643	protein_coding	YES	CCDS33774.1	ENSP00000295951	SLMAP_HUMAN	C9JA20_HUMAN,B7Z964_HUMAN	UPI000022C0E3	.	.	.	18/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18889,hmmpanther:PTHR18889:SF8,Pfam_domain:PF01920	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTGCAAAA	.	5	BLCA
ADAMTS9	0	.	GRCh37	3	64601703	64601703	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2957C>A	p.Pro986Gln	p.P986Q	ENST00000498707	20/40	421	248	173	230	230	0	ADAMTS9,missense_variant,p.Pro42Gln,ENST00000481060,;ADAMTS9,missense_variant,p.Pro958Gln,ENST00000295903,;ADAMTS9,missense_variant,p.Pro986Gln,ENST00000498707,;ADAMTS9,non_coding_transcript_exon_variant,,ENST00000475557,;ADAMTS9,non_coding_transcript_exon_variant,,ENST00000482490,;	T	ENSG00000163638	ENST00000498707	Transcript	missense_variant	3300	2957	986	P/Q	cCa/cAa	.	.	.	-1	ADAMTS9	HGNC	13202	protein_coding	YES	CCDS2903.1	ENSP00000418735	ATS9_HUMAN	B4E0E4_HUMAN	UPI00000463F0	.	deleterious(0)	probably_damaging(1)	20/40	.	hmmpanther:PTHR13723:SF33,hmmpanther:PTHR13723,SMART_domains:SM00209	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTGGTTTG	.	5	BLCA
FAM19A4	0	.	GRCh37	3	68802032	68802032	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>G	p.Gln90Glu	p.Q90E	ENST00000295569	4/6	124	86	38	56	56	0	FAM19A4,missense_variant,p.Gln90Glu,ENST00000295569,;FAM19A4,downstream_gene_variant,,ENST00000495737,;	C	ENSG00000163377	ENST00000295569	Transcript	missense_variant	761	268	90	Q/E	Caa/Gaa	.	.	.	-1	FAM19A4	HGNC	21591	protein_coding	YES	CCDS2907.1	ENSP00000295569	F19A4_HUMAN	C9JUW7_HUMAN	UPI0000071129	.	deleterious(0.04)	benign(0.036)	4/6	.	hmmpanther:PTHR31770:SF1,hmmpanther:PTHR31770,Pfam_domain:PF12020	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTGAGCCC	.	5	BLCA
EPHA3	0	.	GRCh37	3	89521651	89521651	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2728A>T	p.Ile910Phe	p.I910F	ENST00000336596	16/17	266	155	111	131	131	0	EPHA3,missense_variant,p.Ile910Phe,ENST00000494014,;EPHA3,missense_variant,p.Ile910Phe,ENST00000336596,;	T	ENSG00000044524	ENST00000336596	Transcript	missense_variant	2953	2728	910	I/F	Atc/Ttc	.	.	.	1	EPHA3	HGNC	3387	protein_coding	YES	CCDS2922.1	ENSP00000337451	EPHA3_HUMAN	.	UPI0000163BE4	.	tolerated(1)	benign(0.01)	16/17	.	hmmpanther:PTHR24416:SF18,hmmpanther:PTHR24416,Pfam_domain:PF07647,Gene3D:1.10.150.50,PIRSF_domain:PIRSF000666,SMART_domains:SM00454,Superfamily_domains:SSF56112,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATATCACT	.	5	BLCA
CMSS1	0	.	GRCh37	3	99881159	99881159	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238G>A	p.Asp80Asn	p.D80N	ENST00000421999	4/10	116	70	46	53	53	0	CMSS1,missense_variant,p.Asp62Asn,ENST00000489081,;CMSS1,missense_variant,p.Asp80Asn,ENST00000421999,;CMSS1,missense_variant,p.Asp36Asn,ENST00000478909,;CMSS1,upstream_gene_variant,,ENST00000497345,;CMSS1,downstream_gene_variant,,ENST00000463526,;CMSS1,3_prime_UTR_variant,,ENST00000491299,;CMSS1,upstream_gene_variant,,ENST00000479555,;	A	ENSG00000184220	ENST00000421999	Transcript	missense_variant	384	238	80	D/N	Gat/Aat	COSM3775424	.	.	1	CMSS1	HGNC	28666	protein_coding	YES	CCDS2935.1	ENSP00000410396	CMS1_HUMAN	D3DN44_HUMAN,C9IY68_HUMAN	UPI00001B0297	.	deleterious(0)	probably_damaging(0.99)	4/10	.	hmmpanther:PTHR24030,Pfam_domain:PF14617	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACTGATGTT	.	5	BLCA
ADH7	0	.	GRCh37	4	100350703	100350703	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>A	p.Glu56Lys	p.E56K	ENST00000476959	2/9	57	36	21	43	43	0	ADH7,missense_variant,p.Glu48Lys,ENST00000209665,;ADH7,missense_variant,p.Glu56Lys,ENST00000476959,;ADH7,missense_variant,p.Glu36Lys,ENST00000437033,;ADH7,5_prime_UTR_variant,,ENST00000482593,;ADH7,5_prime_UTR_variant,,ENST00000474027,;	T	ENSG00000196344	ENST00000476959	Transcript	missense_variant	196	166	56	E/K	Gaa/Aaa	.	.	.	-1	ADH7	HGNC	256	protein_coding	YES	CCDS54781.1	ENSP00000420269	ADH7_HUMAN	E9PFG0_HUMAN,C9JP14_HUMAN,B4DWS1_HUMAN	UPI00017A81B5	.	deleterious(0.02)	possibly_damaging(0.898)	2/9	.	hmmpanther:PTHR11695,hmmpanther:PTHR11695:SF406,Gene3D:3.90.180.10,Pfam_domain:PF08240,Superfamily_domains:SSF50129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCTTTAG	.	5	BLCA
EGF	0	.	GRCh37	4	110932475	110932475	+	Missense_Mutation	SNP	G	G	A	rs201803207	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3488G>A	p.Arg1163Gln	p.R1163Q	ENST00000265171	24/24	119	77	42	74	74	0	EGF,missense_variant,p.Arg1122Gln,ENST00000503392,;EGF,missense_variant,p.Arg1163Gln,ENST00000265171,;EGF,missense_variant,p.Arg1121Gln,ENST00000509793,;EGF,non_coding_transcript_exon_variant,,ENST00000509996,;EGF,non_coding_transcript_exon_variant,,ENST00000537316,;EGF,non_coding_transcript_exon_variant,,ENST00000544918,;EGF,intron_variant,,ENST00000540840,;	A	ENSG00000138798	ENST00000265171	Transcript	missense_variant	3933	3488	1163	R/Q	cGa/cAa	rs201803207,COSM1050033	.	.	1	EGF	HGNC	3229	protein_coding	YES	CCDS3689.1	ENSP00000265171	EGF_HUMAN	Q6QBS2_HUMAN	UPI000013D5C8	.	tolerated_low_confidence(0.39)	benign(0)	24/24	.	PIRSF_domain:PIRSF001778	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGCGAAGCT	byFrequency|byCluster|by1000G	5	BLCA
TRPC3	0	.	GRCh37	4	122800972	122800972	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2685G>C	p.Lys895Asn	p.K895N	ENST00000379645	12/12	97	72	25	93	93	0	TRPC3,missense_variant,p.Lys822Asn,ENST00000264811,;TRPC3,missense_variant,p.Lys767Asn,ENST00000513531,;TRPC3,missense_variant,p.Lys895Asn,ENST00000379645,;TRPC3,3_prime_UTR_variant,,ENST00000506449,;	G	ENSG00000138741	ENST00000379645	Transcript	missense_variant	2759	2685	895	K/N	aaG/aaC	.	.	.	-1	TRPC3	HGNC	12335	protein_coding	YES	CCDS47130.1	ENSP00000368966	TRPC3_HUMAN	Q4W5P7_HUMAN,D6R902_HUMAN	UPI00004C6F61	.	tolerated(0.05)	possibly_damaging(0.756)	12/12	.	hmmpanther:PTHR10117:SF8,hmmpanther:PTHR10117	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTTGTC	.	5	BLCA
ANKRD50	0	.	GRCh37	4	125590361	125590361	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4071G>C	p.Lys1357Asn	p.K1357N	ENST00000504087	4/5	190	139	50	130	130	0	ANKRD50,missense_variant,p.Lys1357Asn,ENST00000504087,;ANKRD50,missense_variant,p.Lys1178Asn,ENST00000515641,;	G	ENSG00000151458	ENST00000504087	Transcript	missense_variant	5109	4071	1357	K/N	aaG/aaC	.	.	.	-1	ANKRD50	HGNC	29223	protein_coding	YES	CCDS34060.1	ENSP00000425658	ANR50_HUMAN	Q8TB46_HUMAN	UPI00002377E8	.	deleterious(0.04)	benign(0.001)	4/5	.	hmmpanther:PTHR24151:SF1,hmmpanther:PTHR24151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTTCTT	.	5	BLCA
IL15	0	.	GRCh37	4	142654029	142654029	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28C>G	.	.	ENST00000296545	8/8	41	32	9	25	25	0	IL15,3_prime_UTR_variant,,ENST00000514653,;IL15,3_prime_UTR_variant,,ENST00000394159,;IL15,3_prime_UTR_variant,,ENST00000529613,;IL15,3_prime_UTR_variant,,ENST00000296545,;IL15,3_prime_UTR_variant,,ENST00000477265,;IL15,3_prime_UTR_variant,,ENST00000320650,;IL15,downstream_gene_variant,,ENST00000509249,;	G	ENSG00000164136	ENST00000296545	Transcript	3_prime_UTR_variant	1361	.	.	.	.	.	.	.	1	IL15	HGNC	5977	protein_coding	YES	CCDS3755.1	ENSP00000296545	IL15_HUMAN	.	UPI0000031AC7	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTTTCTGTTA	.	2	BLCA
FBXW7	0	.	GRCh37	4	153249370	153249370	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1408C>T	p.His470Tyr	p.H470Y	ENST00000281708	9/12	140	98	42	112	112	0	FBXW7,missense_variant,p.His470Tyr,ENST00000603548,;FBXW7,missense_variant,p.His390Tyr,ENST00000263981,;FBXW7,missense_variant,p.His352Tyr,ENST00000296555,;FBXW7,missense_variant,p.His294Tyr,ENST00000393956,;FBXW7,missense_variant,p.His470Tyr,ENST00000281708,;FBXW7,missense_variant,p.His470Tyr,ENST00000603841,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604069,;FBXW7,non_coding_transcript_exon_variant,,ENST00000603821,;FBXW7,upstream_gene_variant,,ENST00000604316,;	A	ENSG00000109670	ENST00000281708	Transcript	missense_variant	2638	1408	470	H/Y	Cat/Tat	.	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	tolerated(0.31)	benign(0.111)	9/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116,PROSITE_profiles:PS50082,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R473fs*4|c.1417_1418insA|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATGAAGAT	.	5	BLCA
FHDC1	0	.	GRCh37	4	153897386	153897386	+	Missense_Mutation	SNP	C	C	G	rs749594434	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2943C>G	p.Phe981Leu	p.F981L	ENST00000511601	12/12	43	32	11	20	20	0	FHDC1,missense_variant,p.Phe981Leu,ENST00000511601,;FHDC1,missense_variant,p.Phe981Leu,ENST00000260008,;	G	ENSG00000137460	ENST00000511601	Transcript	missense_variant	3131	2943	981	F/L	ttC/ttG	rs749594434	.	.	1	FHDC1	HGNC	29363	protein_coding	YES	CCDS34081.1	ENSP00000427567	FHDC1_HUMAN	.	UPI00001D7673	.	tolerated(1)	benign(0)	12/12	.	hmmpanther:PTHR23213:SF194,hmmpanther:PTHR23213	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAAGAA	.	5	BLCA
SFRP2	0	.	GRCh37	4	154709787	154709787	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201G>C	p.Glu67Asp	p.E67D	ENST00000274063	1/3	115	78	36	76	76	0	SFRP2,missense_variant,p.Glu67Asp,ENST00000274063,;	G	ENSG00000145423	ENST00000274063	Transcript	missense_variant	486	201	67	E/D	gaG/gaC	.	.	.	-1	SFRP2	HGNC	10777	protein_coding	YES	CCDS34082.1	ENSP00000274063	SFRP2_HUMAN	B3KSM5_HUMAN	UPI000004BE89	.	tolerated(0.45)	possibly_damaging(0.713)	1/3	.	PROSITE_profiles:PS50038,hmmpanther:PTHR11309:SF45,hmmpanther:PTHR11309,Gene3D:1ijyA00,Pfam_domain:PF01392,SMART_domains:SM00063,Superfamily_domains:SSF63501	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTCTCGTG	.	5	BLCA
FGA	0	.	GRCh37	4	155505852	155505852	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2025C>G	p.Ile675Met	p.I675M	ENST00000302053	6/6	95	65	30	64	64	0	FGA,missense_variant,p.Ile675Met,ENST00000302053,;FGA,downstream_gene_variant,,ENST00000403106,;	C	ENSG00000171560	ENST00000302053	Transcript	missense_variant	2104	2025	675	I/M	atC/atG	.	.	.	-1	FGA	HGNC	3661	protein_coding	YES	CCDS3787.1	ENSP00000306361	FIBA_HUMAN	Q86Z09_HUMAN	UPI000012A75A	.	deleterious(0)	probably_damaging(0.995)	6/6	.	Superfamily_domains:SSF56496,SMART_domains:SM00186,Pfam_domain:PF00147,Gene3D:3.90.215.10,hmmpanther:PTHR19143:SF172,hmmpanther:PTHR19143,PROSITE_profiles:PS51406	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGATCAA	.	5	BLCA
PALLD	0	.	GRCh37	4	169630220	169630220	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1543G>A	p.Asp515Asn	p.D515N	ENST00000505667	9/22	152	106	46	110	109	0	PALLD,missense_variant,p.Asp515Asn,ENST00000261509,;PALLD,missense_variant,p.Asp133Asn,ENST00000512127,;PALLD,missense_variant,p.Asp515Asn,ENST00000505667,;PALLD,missense_variant,p.Asp133Asn,ENST00000335742,;PALLD,upstream_gene_variant,,ENST00000510998,;	A	ENSG00000129116	ENST00000505667	Transcript	missense_variant	1716	1543	515	D/N	Gat/Aat	.	.	.	1	PALLD	HGNC	17068	protein_coding	YES	CCDS54818.1	ENSP00000425556	PALLD_HUMAN	Q4W5A6_HUMAN,D6RBH5_HUMAN,D6RBB1_HUMAN,D6R9Z5_HUMAN,D6R948_HUMAN	UPI000189A85C	.	deleterious(0)	probably_damaging(0.997)	9/22	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF152,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGATGCA	.	5	BLCA
TLR3	0	.	GRCh37	4	186997957	186997957	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.184C>G	p.Gln62Glu	p.Q62E	ENST00000296795	2/5	98	74	24	57	57	0	TLR3,missense_variant,p.Gln62Glu,ENST00000513189,;TLR3,missense_variant,p.Gln62Glu,ENST00000296795,;TLR3,upstream_gene_variant,,ENST00000504367,;TLR3,upstream_gene_variant,,ENST00000508051,;TLR3,upstream_gene_variant,,ENST00000512264,;	G	ENSG00000164342	ENST00000296795	Transcript	missense_variant	288	184	62	Q/E	Caa/Gaa	.	.	.	1	TLR3	HGNC	11849	protein_coding	YES	CCDS3846.1	ENSP00000296795	TLR3_HUMAN	E6Y0F1_HUMAN,Q1KMK2_HUMAN,E9PGH4_HUMAN	UPI0000049B3E	.	deleterious(0.04)	benign(0.038)	2/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF5,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATCAACTC	.	5	BLCA
POLN	0	.	GRCh37	4	2210146	2210146	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.282C>G	p.%3D	p.V94V	ENST00000511885	5/26	148	79	68	82	82	0	POLN,synonymous_variant,p.%3D,ENST00000511885,;POLN,synonymous_variant,p.%3D,ENST00000382865,;POLN,non_coding_transcript_exon_variant,,ENST00000506518,;POLN,non_coding_transcript_exon_variant,,ENST00000515357,;POLN,upstream_gene_variant,,ENST00000514858,;	C	ENSG00000130997	ENST00000511885	Transcript	synonymous_variant	636	282	94	V	gtC/gtG	.	.	.	-1	POLN	HGNC	18870	protein_coding	YES	CCDS3360.1	ENSP00000435506	DPOLN_HUMAN	.	UPI0000246FC3	.	.	.	5/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTGACACT	.	5	BLCA
SOD3	0	.	GRCh37	4	24801411	24801411	+	Missense_Mutation	SNP	C	C	T	rs753927993	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>T	p.Arg90Cys	p.R90C	ENST00000382120	2/2	12	7	5	10	10	0	SOD3,missense_variant,p.Arg90Cys,ENST00000382120,;SOD3,downstream_gene_variant,,ENST00000598411,;	T	ENSG00000109610	ENST00000382120	Transcript	missense_variant	473	268	90	R/C	Cgc/Tgc	rs753927993	.	.	1	SOD3	HGNC	11181	protein_coding	YES	CCDS3430.1	ENSP00000371554	SODE_HUMAN	M0R1V4_HUMAN	UPI000013C8A8	.	tolerated(0.06)	possibly_damaging(0.717)	2/2	.	Superfamily_domains:SSF49329,Gene3D:2.60.40.200,Pfam_domain:PF00080,hmmpanther:PTHR10003:SF36,hmmpanther:PTHR10003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCCCGCGCC	.	2	BLCA
ZBTB49	0	.	GRCh37	4	4303794	4303794	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231G>A	p.%3D	p.Q77Q	ENST00000337872	3/8	135	79	56	56	56	0	ZBTB49,synonymous_variant,p.%3D,ENST00000355834,;ZBTB49,synonymous_variant,p.%3D,ENST00000337872,;ZBTB49,synonymous_variant,p.%3D,ENST00000502918,;ZBTB49,5_prime_UTR_variant,,ENST00000538529,;ZBTB49,upstream_gene_variant,,ENST00000504302,;ZBTB49,synonymous_variant,p.%3D,ENST00000515012,;ZBTB49,intron_variant,,ENST00000503703,;ZBTB49,upstream_gene_variant,,ENST00000511458,;	A	ENSG00000168826	ENST00000337872	Transcript	synonymous_variant	352	231	77	Q	caG/caA	.	.	.	1	ZBTB49	HGNC	19883	protein_coding	YES	CCDS3375.1	ENSP00000338807	ZBT49_HUMAN	Q32MK9_HUMAN,D6RJ00_HUMAN	UPI000022C559	.	.	.	3/8	.	PROSITE_profiles:PS50097,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF104,Pfam_domain:PF00651,Gene3D:3.30.710.10,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCAGATCCT	.	5	BLCA
FRYL	0	.	GRCh37	4	48502189	48502189	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8641G>A	p.Glu2881Lys	p.E2881K	ENST00000358350	63/64	84	61	22	57	57	0	FRYL,missense_variant,p.Glu2881Lys,ENST00000358350,;FRYL,missense_variant,p.Glu2881Lys,ENST00000503238,;FRYL,missense_variant,p.Glu271Lys,ENST00000507873,;FRYL,missense_variant,p.Glu271Lys,ENST00000264319,;FRYL,missense_variant,p.Glu2881Lys,ENST00000537810,;FRYL,non_coding_transcript_exon_variant,,ENST00000512810,;FRYL,non_coding_transcript_exon_variant,,ENST00000503339,;	T	ENSG00000075539	ENST00000358350	Transcript	missense_variant	9246	8641	2881	E/K	Gaa/Aaa	.	.	.	-1	FRYL	HGNC	29127	protein_coding	YES	CCDS43227.1	ENSP00000351113	FRYL_HUMAN	.	UPI0000EBC149	.	tolerated(0.3)	benign(0.14)	63/64	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12295:SF9,hmmpanther:PTHR12295	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCTTTGA	.	5	BLCA
TMPRSS11D	0	.	GRCh37	4	68691546	68691546	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.999T>C	p.%3D	p.S333S	ENST00000283916	9/10	100	59	40	71	71	0	TMPRSS11D,synonymous_variant,p.%3D,ENST00000514868,;TMPRSS11D,synonymous_variant,p.%3D,ENST00000545541,;TMPRSS11D,synonymous_variant,p.%3D,ENST00000283916,;UBA6-AS1,intron_variant,,ENST00000500538,;TMPRSS11D,downstream_gene_variant,,ENST00000502573,;TMPRSS11D,non_coding_transcript_exon_variant,,ENST00000505533,;	G	ENSG00000153802	ENST00000283916	Transcript	synonymous_variant	1098	999	333	S	agT/agC	.	.	.	-1	TMPRSS11D	HGNC	24059	protein_coding	YES	CCDS3518.1	ENSP00000283916	TM11D_HUMAN	Q4W5K4_HUMAN,B4DL57_HUMAN	UPI000003FE66	.	.	.	9/10	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24256:SF36,hmmpanther:PTHR24256,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,PIRSF_domain:PIRSF037941,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTACTTAT	.	5	BLCA
UGT2B7	0	.	GRCh37	4	69978565	69978565	+	3'UTR	SNP	A	A	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*111A>G	.	.	ENST00000305231	6/6	12	9	3	10	10	0	UGT2B7,3_prime_UTR_variant,,ENST00000305231,;UGT2B7,3_prime_UTR_variant,,ENST00000508661,;UGT2B7,downstream_gene_variant,,ENST00000502942,;UGT2B7,downstream_gene_variant,,ENST00000509763,;	G	ENSG00000171234	ENST00000305231	Transcript	3_prime_UTR_variant	1747	.	.	.	.	.	.	.	1	UGT2B7	HGNC	12554	protein_coding	YES	CCDS3526.1	ENSP00000304811	UD2B7_HUMAN	Q9HCT7_HUMAN,Q5QKR3_HUMAN,D6RH08_HUMAN	UPI00000015EC	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAAAAAAGAA	.	2	BLCA
ENAM	0	.	GRCh37	4	71508608	71508608	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1465G>T	p.Asp489Tyr	p.D489Y	ENST00000396073	9/9	90	62	28	65	65	0	ENAM,missense_variant,p.Asp489Tyr,ENST00000396073,;ENAM,intron_variant,,ENST00000472903,;ENAM,downstream_gene_variant,,ENST00000472597,;	T	ENSG00000132464	ENST00000396073	Transcript	missense_variant	1746	1465	489	D/Y	Gat/Tat	.	.	.	1	ENAM	HGNC	3344	protein_coding	YES	CCDS3544.2	ENSP00000379383	ENAM_HUMAN	Q8NFB4_HUMAN	UPI000013CE60	.	deleterious(0)	probably_damaging(0.986)	9/9	.	Pfam_domain:PF15362,hmmpanther:PTHR16784:SF2,hmmpanther:PTHR16784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTGATCAA	.	5	BLCA
MAPK10	0	.	GRCh37	4	87028487	87028487	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255C>T	p.%3D	p.V85V	ENST00000359221	5/14	102	68	33	69	69	0	MAPK10,synonymous_variant,p.%3D,ENST00000512564,;MAPK10,synonymous_variant,p.%3D,ENST00000395169,;MAPK10,synonymous_variant,p.%3D,ENST00000512017,;MAPK10,synonymous_variant,p.%3D,ENST00000511167,;MAPK10,synonymous_variant,p.%3D,ENST00000395166,;MAPK10,synonymous_variant,p.%3D,ENST00000512689,;MAPK10,synonymous_variant,p.%3D,ENST00000395161,;MAPK10,synonymous_variant,p.%3D,ENST00000361569,;MAPK10,synonymous_variant,p.%3D,ENST00000506773,;MAPK10,synonymous_variant,p.%3D,ENST00000359221,;MAPK10,synonymous_variant,p.%3D,ENST00000509464,;MAPK10,synonymous_variant,p.%3D,ENST00000511328,;MAPK10,5_prime_UTR_variant,,ENST00000395160,;MAPK10,5_prime_UTR_variant,,ENST00000449047,;MAPK10,upstream_gene_variant,,ENST00000515400,;MAPK10,upstream_gene_variant,,ENST00000395157,;MAPK10,non_coding_transcript_exon_variant,,ENST00000486985,;MAPK10,non_coding_transcript_exon_variant,,ENST00000513839,;MAPK10,upstream_gene_variant,,ENST00000479377,;MAPK10,synonymous_variant,p.%3D,ENST00000310816,;MAPK10,non_coding_transcript_exon_variant,,ENST00000475679,;MAPK10,upstream_gene_variant,,ENST00000430389,;	A	ENSG00000109339	ENST00000359221	Transcript	synonymous_variant	782	255	85	V	gtC/gtT	.	.	.	-1	MAPK10	HGNC	6872	protein_coding	YES	CCDS34026.1	ENSP00000352157	MK10_HUMAN	D6RJF9_HUMAN,D6RFZ7_HUMAN,D6RFX8_HUMAN,D6RDG1_HUMAN,D6RCB1_HUMAN,D6RC26_HUMAN,D6RBH2_HUMAN,D6RAU3_HUMAN,D6RAJ0_HUMAN,D6R9C1_HUMAN,B3KR72_HUMAN,A8MWW6_HUMAN	UPI0000049042	.	.	.	5/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF162,hmmpanther:PTHR24055,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAGGACAGC	.	5	BLCA
APC	0	.	GRCh37	5	112102988	112102988	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.323G>C	p.Gly108Ala	p.G108A	ENST00000457016	4/16	160	96	63	89	89	0	APC,missense_variant,p.Gly108Ala,ENST00000257430,;APC,missense_variant,p.Gly118Ala,ENST00000507379,;APC,missense_variant,p.Gly108Ala,ENST00000457016,;APC,missense_variant,p.Gly108Ala,ENST00000508376,;APC,missense_variant,p.Gly108Ala,ENST00000512211,;APC,missense_variant,p.Gly108Ala,ENST00000509732,;APC,downstream_gene_variant,,ENST00000505350,;APC,missense_variant,p.Gly108Ala,ENST00000508624,;	C	ENSG00000134982	ENST00000457016	Transcript	missense_variant	703	323	108	G/A	gGa/gCa	.	.	.	1	APC	HGNC	583	protein_coding	YES	CCDS4107.1	ENSP00000413133	APC_HUMAN	Q9UM98_HUMAN,Q9P119_HUMAN,Q9HAW6_HUMAN,Q4LE70_HUMAN,E9PFT7_HUMAN,D6RFL6_HUMAN,B2ZRE1_HUMAN,A5HB97_HUMAN,A5HB96_HUMAN,A5HB95_HUMAN,A5HB94_HUMAN,A1YIQ7_HUMAN	UPI000013CF60	.	.	benign(0.059)	4/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12607,hmmpanther:PTHR12607:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTGGAGAGT	.	5	BLCA
MCC	0	.	GRCh37	5	112363149	112363149	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2910G>C	p.Lys970Asn	p.K970N	ENST00000408903	19/19	181	109	72	81	81	0	MCC,missense_variant,p.Lys780Asn,ENST00000302475,;MCC,missense_variant,p.Lys717Asn,ENST00000515367,;MCC,missense_variant,p.Lys970Asn,ENST00000408903,;MCC,non_coding_transcript_exon_variant,,ENST00000514701,;	G	ENSG00000171444	ENST00000408903	Transcript	missense_variant	3326	2910	970	K/N	aaG/aaC	.	.	.	-1	MCC	HGNC	6935	protein_coding	YES	CCDS43351.1	ENSP00000386227	CRCM_HUMAN	D6REY2_HUMAN	UPI00015E06EA	.	deleterious(0.05)	probably_damaging(0.985)	19/19	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23347,hmmpanther:PTHR23347:SF4,Pfam_domain:PF10506	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCTTTGC	.	5	BLCA
ZNF608	0	.	GRCh37	5	124080087	124080087	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.596G>T	p.Arg199Leu	p.R199L	ENST00000306315	1/9	118	82	36	53	53	0	ZNF608,missense_variant,p.Arg199Leu,ENST00000513986,;ZNF608,missense_variant,p.Arg199Leu,ENST00000509799,;ZNF608,missense_variant,p.Arg199Leu,ENST00000306315,;ZNF608,intron_variant,,ENST00000504926,;ZNF608,upstream_gene_variant,,ENST00000503896,;ZNF608,downstream_gene_variant,,ENST00000512940,;ZNF608,missense_variant,p.Arg199Leu,ENST00000505686,;	A	ENSG00000168916	ENST00000306315	Transcript	missense_variant	1032	596	199	R/L	cGa/cTa	.	.	.	-1	ZNF608	HGNC	29238	protein_coding	YES	CCDS34219.1	ENSP00000307746	ZN608_HUMAN	Q9UFL4_HUMAN,B3KPE6_HUMAN	UPI000013EB23	.	tolerated(0.4)	probably_damaging(0.994)	1/9	.	hmmpanther:PTHR21564,hmmpanther:PTHR21564:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCGGCTG	.	5	BLCA
SAR1B	0	.	GRCh37	5	133942505	133942505	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*135C>G	.	.	ENST00000402673	7/7	39	26	13	12	12	0	SAR1B,3_prime_UTR_variant,,ENST00000507419,;SAR1B,3_prime_UTR_variant,,ENST00000502539,;SAR1B,3_prime_UTR_variant,,ENST00000402673,;SAR1B,3_prime_UTR_variant,,ENST00000439578,;SAR1B,downstream_gene_variant,,ENST00000509730,;SAR1B,downstream_gene_variant,,ENST00000502286,;SAR1B,downstream_gene_variant,,ENST00000509937,;SAR1B,downstream_gene_variant,,ENST00000505758,;SAR1B,non_coding_transcript_exon_variant,,ENST00000508363,;SAR1B,downstream_gene_variant,,ENST00000503318,;	C	ENSG00000152700	ENST00000402673	Transcript	3_prime_UTR_variant	1011	.	.	.	.	.	.	.	-1	SAR1B	HGNC	10535	protein_coding	YES	CCDS4177.1	ENSP00000385432	SAR1B_HUMAN	Q9H029_HUMAN,D6RD69_HUMAN,D6RAA2_HUMAN,D6R9R5_HUMAN	UPI0000135569	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTGATTTA	.	5	BLCA
KDM3B	0	.	GRCh37	5	137727353	137727353	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2032C>T	p.His678Tyr	p.H678Y	ENST00000314358	8/24	151	99	52	49	49	0	KDM3B,missense_variant,p.His334Tyr,ENST00000394866,;KDM3B,missense_variant,p.His678Tyr,ENST00000314358,;KDM3B,intron_variant,,ENST00000542866,;KDM3B,3_prime_UTR_variant,,ENST00000510866,;KDM3B,intron_variant,,ENST00000507996,;	T	ENSG00000120733	ENST00000314358	Transcript	missense_variant	2232	2032	678	H/Y	Cac/Tac	.	.	.	1	KDM3B	HGNC	1337	protein_coding	YES	CCDS34242.1	ENSP00000326563	KDM3B_HUMAN	F5H275_HUMAN	UPI000020C6A8	.	tolerated_low_confidence(1)	benign(0.024)	8/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCACTCC	.	5	BLCA
DNAH5	0	.	GRCh37	5	13839557	13839557	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5790G>A	p.%3D	p.K1930K	ENST00000265104	35/79	69	47	22	51	51	0	DNAH5,synonymous_variant,p.%3D,ENST00000265104,;	T	ENSG00000039139	ENST00000265104	Transcript	synonymous_variant	5895	5790	1930	K	aaG/aaA	.	.	.	-1	DNAH5	HGNC	2950	protein_coding	YES	CCDS3882.1	ENSP00000265104	DYH5_HUMAN	O95496_HUMAN	UPI0000110101	.	.	.	35/79	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCTTGTC	.	5	BLCA
HARS	0	.	GRCh37	5	140056626	140056626	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.899G>C	p.Gly300Ala	p.G300A	ENST00000504156	9/13	408	254	153	192	192	0	HARS,missense_variant,p.Gly231Ala,ENST00000504366,;HARS,missense_variant,p.Gly105Ala,ENST00000448240,;HARS,missense_variant,p.Gly186Ala,ENST00000431330,;HARS,missense_variant,p.Gly300Ala,ENST00000504156,;HARS,missense_variant,p.Gly280Ala,ENST00000457527,;HARS,missense_variant,p.Gly190Ala,ENST00000507746,;HARS,missense_variant,p.Gly240Ala,ENST00000307633,;HARS,missense_variant,p.Gly226Ala,ENST00000415192,;HARS,missense_variant,p.Gly260Ala,ENST00000438307,;WDR55,downstream_gene_variant,,ENST00000358337,;DND1,upstream_gene_variant,,ENST00000542735,;WDR55,downstream_gene_variant,,ENST00000520764,;HARS,non_coding_transcript_exon_variant,,ENST00000506579,;HARS,upstream_gene_variant,,ENST00000509087,;WDR55,downstream_gene_variant,,ENST00000504897,;HARS,downstream_gene_variant,,ENST00000512396,;WDR55,downstream_gene_variant,,ENST00000511232,;HARS,downstream_gene_variant,,ENST00000518126,;WDR55,downstream_gene_variant,,ENST00000506393,;	G	ENSG00000170445	ENST00000504156	Transcript	missense_variant	1619	899	300	G/A	gGa/gCa	.	.	.	-1	HARS	HGNC	4816	protein_coding	YES	CCDS4237.1	ENSP00000425634	SYHC_HUMAN	D6RF05_HUMAN,B3KWE1_HUMAN	UPI00001364CE	.	tolerated(0.52)	benign(0.001)	9/13	.	PROSITE_profiles:PS50862,HAMAP:MF_00127,hmmpanther:PTHR11476,hmmpanther:PTHR11476:SF3,TIGRFAM_domain:TIGR00442,Pfam_domain:PF13393,Gene3D:3.30.930.10,PIRSF_domain:PIRSF001549,Superfamily_domains:SSF55681	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCCCAGG	.	5	BLCA
PCDHA12	0	.	GRCh37	5	140256594	140256594	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1537G>A	p.Glu513Lys	p.E513K	ENST00000398631	1/4	201	129	72	122	122	0	PCDHA12,missense_variant,p.Glu513Lys,ENST00000398631,;PCDHA11,intron_variant,,ENST00000398640,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA9,intron_variant,,ENST00000532602,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;	A	ENSG00000251664	ENST00000398631	Transcript	missense_variant	1537	1537	513	E/K	Gag/Aag	.	.	.	1	PCDHA12	HGNC	8666	protein_coding	YES	CCDS47285.1	ENSP00000381628	PCDAC_HUMAN	.	UPI00001273D5	.	deleterious_low_confidence(0.01)	possibly_damaging(0.774)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF76,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCGGAGAGC	.	5	BLCA
PCDHGA6	0	.	GRCh37	5	140755099	140755099	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1449G>A	p.%3D	p.Q483Q	ENST00000517434	1/4	236	148	88	121	121	0	PCDHGA6,synonymous_variant,p.%3D,ENST00000517434,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB2,intron_variant,,ENST00000522605,;	A	ENSG00000253731	ENST00000517434	Transcript	synonymous_variant	1449	1449	483	Q	caG/caA	.	.	.	1	PCDHGA6	HGNC	8704	protein_coding	YES	CCDS54926.1	ENSP00000429601	PCDG6_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000715C8	.	.	.	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF107,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCAGAACGC	.	5	BLCA
PCDHGA11	0	.	GRCh37	5	140801036	140801036	+	Missense_Mutation	SNP	G	G	A	rs767500900	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.242G>A	p.Arg81Gln	p.R81Q	ENST00000398587	1/4	177	111	66	89	89	0	PCDHGA11,missense_variant,p.Arg81Gln,ENST00000398587,;PCDHGA11,missense_variant,p.Arg81Gln,ENST00000518882,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGA10,intron_variant,,ENST00000398610,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGB7,intron_variant,,ENST00000398594,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGB8P,upstream_gene_variant,,ENST00000502926,;PCDHGB8P,upstream_gene_variant,,ENST00000507007,;	A	ENSG00000253873	ENST00000398587	Transcript	missense_variant	275	242	81	R/Q	cGa/cAa	rs767500900	.	.	1	PCDHGA11	HGNC	8698	protein_coding	YES	CCDS47294.1	ENSP00000381589	PCDGB_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI00000739DC	.	deleterious_low_confidence(0.04)	benign(0.257)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF84,Gene3D:2.60.40.60,Pfam_domain:PF08266,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGCGAAGCG	.	5	BLCA
PPP2R2B	0	.	GRCh37	5	145969708	145969708	+	Silent	SNP	C	C	T	rs762618595	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1143G>A	p.%3D	p.S381S	ENST00000336640	9/9	189	117	72	79	79	0	PPP2R2B,synonymous_variant,p.%3D,ENST00000394414,;PPP2R2B,synonymous_variant,p.%3D,ENST00000508545,;PPP2R2B,synonymous_variant,p.%3D,ENST00000504198,;PPP2R2B,synonymous_variant,p.%3D,ENST00000394411,;PPP2R2B,synonymous_variant,p.%3D,ENST00000453001,;PPP2R2B,synonymous_variant,p.%3D,ENST00000394409,;PPP2R2B,synonymous_variant,p.%3D,ENST00000394410,;PPP2R2B,synonymous_variant,p.%3D,ENST00000356826,;PPP2R2B,synonymous_variant,p.%3D,ENST00000394413,;PPP2R2B,synonymous_variant,p.%3D,ENST00000336640,;PPP2R2B,3_prime_UTR_variant,,ENST00000512984,;RNA5SP196,upstream_gene_variant,,ENST00000516984,;CTB-99A3.1,intron_variant,,ENST00000512730,;PPP2R2B,non_coding_transcript_exon_variant,,ENST00000530902,;PPP2R2B,3_prime_UTR_variant,,ENST00000512639,;	T	ENSG00000156475	ENST00000336640	Transcript	synonymous_variant	1374	1143	381	S	tcG/tcA	rs762618595	.	.	-1	PPP2R2B	HGNC	9305	protein_coding	YES	CCDS4283.1	ENSP00000336591	2ABB_HUMAN	.	UPI0000026156	.	.	.	9/9	.	hmmpanther:PTHR11871:SF1,hmmpanther:PTHR11871,PIRSF_domain:PIRSF037309	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCGAAGC	byFrequency	5	BLCA
JAKMIP2	0	.	GRCh37	5	146997502	146997502	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2318G>C	p.Arg773Thr	p.R773T	ENST00000265272	19/21	95	50	45	55	55	0	JAKMIP2,missense_variant,p.Arg773Thr,ENST00000265272,;JAKMIP2,missense_variant,p.Arg731Thr,ENST00000333010,;JAKMIP2,missense_variant,p.Arg752Thr,ENST00000507386,;	G	ENSG00000176049	ENST00000265272	Transcript	missense_variant	2786	2318	773	R/T	aGa/aCa	.	.	.	-1	JAKMIP2	HGNC	29067	protein_coding	YES	CCDS4285.1	ENSP00000265272	JKIP2_HUMAN	.	UPI000000D782	.	deleterious(0)	probably_damaging(0.962)	19/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18935,hmmpanther:PTHR18935:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCTCTCC	.	5	BLCA
THG1L	0	.	GRCh37	5	157158483	157158483	+	Missense_Mutation	SNP	C	C	G	rs779992697	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.35C>G	p.Ser12Cys	p.S12C	ENST00000231198	1/6	142	97	44	67	67	0	THG1L,missense_variant,p.Ser12Cys,ENST00000231198,;AC026407.1,downstream_gene_variant,,ENST00000599823,;THG1L,missense_variant,p.Ser12Cys,ENST00000521655,;	G	ENSG00000113272	ENST00000231198	Transcript	missense_variant	279	35	12	S/C	tCc/tGc	rs779992697	.	.	1	THG1L	HGNC	26053	protein_coding	YES	CCDS4341.1	ENSP00000231198	THG1_HUMAN	Q9H8R6_HUMAN	UPI0000073782	.	tolerated_low_confidence(0.72)	benign(0)	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGATTCCTTGG	byCluster	5	BLCA
WWC1	0	.	GRCh37	5	167855779	167855779	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1987C>T	p.Gln663Ter	p.Q663*	ENST00000521089	13/23	88	53	35	31	31	0	WWC1,stop_gained,p.Gln625Ter,ENST00000393895,;WWC1,stop_gained,p.Gln440Ter,ENST00000524228,;WWC1,stop_gained,p.Gln663Ter,ENST00000265293,;WWC1,stop_gained,p.Gln663Ter,ENST00000521089,;WWC1,upstream_gene_variant,,ENST00000524038,;WWC1,non_coding_transcript_exon_variant,,ENST00000524093,;WWC1,upstream_gene_variant,,ENST00000522140,;	T	ENSG00000113645	ENST00000521089	Transcript	stop_gained	1990	1987	663	Q/*	Cag/Tag	.	.	.	1	WWC1	HGNC	29435	protein_coding	YES	CCDS54945.1	ENSP00000427772	KIBRA_HUMAN	.	UPI00017A7149	.	.	.	13/23	.	hmmpanther:PTHR14791:SF22,hmmpanther:PTHR14791,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTCAGATT	.	5	BLCA
DOCK2	0	.	GRCh37	5	169143252	169143252	+	Silent	SNP	C	C	T	rs771332418	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1977C>T	p.%3D	p.I659I	ENST00000256935	20/52	128	93	34	65	65	0	DOCK2,synonymous_variant,p.%3D,ENST00000256935,;DOCK2,synonymous_variant,p.%3D,ENST00000520908,;DOCK2,5_prime_UTR_variant,,ENST00000540750,;DOCK2,upstream_gene_variant,,ENST00000520836,;DOCK2,synonymous_variant,p.%3D,ENST00000524185,;	T	ENSG00000134516	ENST00000256935	Transcript	synonymous_variant	2057	1977	659	I	atC/atT	rs771332418	.	.	1	DOCK2	HGNC	2988	protein_coding	YES	CCDS4371.1	ENSP00000256935	DOCK2_HUMAN	Q5XG91_HUMAN,B3KXW9_HUMAN	UPI00001A38CC	.	.	.	20/52	.	hmmpanther:PTHR23317:SF73,hmmpanther:PTHR23317,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCATGAT	.	5	BLCA
NSD1	0	.	GRCh37	5	176562542	176562542	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438C>T	p.%3D	p.I146I	ENST00000439151	2/23	153	92	61	74	74	0	NSD1,synonymous_variant,p.%3D,ENST00000361032,;NSD1,synonymous_variant,p.%3D,ENST00000439151,;NSD1,intron_variant,,ENST00000354179,;NSD1,intron_variant,,ENST00000508896,;NSD1,intron_variant,,ENST00000347982,;NSD1,intron_variant,,ENST00000511258,;NSD1,intron_variant,,ENST00000510954,;NSD1,non_coding_transcript_exon_variant,,ENST00000602285,;NSD1,downstream_gene_variant,,ENST00000512992,;	T	ENSG00000165671	ENST00000439151	Transcript	synonymous_variant	483	438	146	I	atC/atT	.	.	.	1	NSD1	HGNC	14234	protein_coding	YES	CCDS4412.1	ENSP00000395929	NSD1_HUMAN	Q9H6H8_HUMAN,Q9H6B5_HUMAN,Q96MN8_HUMAN,Q96DQ7_HUMAN,Q658U6_HUMAN,D6RE14_HUMAN,D6RBP3_HUMAN,D6RA90_HUMAN	UPI000006F9C6	.	.	.	2/23	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF312	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATCAAGAA	.	5	BLCA
F12	0	.	GRCh37	5	176832052	176832052	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529+3G>A	.	.	ENST00000253496	.	61	36	24	34	34	0	F12,splice_region_variant,,ENST00000253496,;GRK6,intron_variant,,ENST00000502598,;GRK6,intron_variant,,ENST00000506296,;PFN3,upstream_gene_variant,,ENST00000358571,;F12,upstream_gene_variant,,ENST00000514943,;F12,upstream_gene_variant,,ENST00000504406,;F12,upstream_gene_variant,,ENST00000502854,;F12,upstream_gene_variant,,ENST00000503736,;F12,upstream_gene_variant,,ENST00000510358,;	T	ENSG00000131187	ENST00000253496	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	F12	HGNC	3530	protein_coding	YES	CCDS34302.1	ENSP00000253496	FA12_HUMAN	Q96EF3_HUMAN	UPI000048055F	.	.	.	.	6/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCACCCT	.	4	BLCA
DBN1	0	.	GRCh37	5	176887463	176887463	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931G>T	p.Asp311Tyr	p.D311Y	ENST00000292385	11/15	213	126	86	123	123	0	DBN1,missense_variant,p.Asp309Tyr,ENST00000309007,;DBN1,missense_variant,p.Asp41Tyr,ENST00000393563,;DBN1,missense_variant,p.Asp311Tyr,ENST00000292385,;DBN1,missense_variant,p.Asp308Tyr,ENST00000477391,;DBN1,missense_variant,p.Asp309Tyr,ENST00000393565,;DBN1,missense_variant,p.Asp41Tyr,ENST00000512501,;PRR7,downstream_gene_variant,,ENST00000323249,;PRR7,downstream_gene_variant,,ENST00000510492,;PRR7,downstream_gene_variant,,ENST00000502922,;PRR7,downstream_gene_variant,,ENST00000507881,;DBN1,non_coding_transcript_exon_variant,,ENST00000467054,;DBN1,non_coding_transcript_exon_variant,,ENST00000472831,;	A	ENSG00000113758	ENST00000292385	Transcript	missense_variant	1541	931	311	D/Y	Gat/Tat	.	.	.	-1	DBN1	HGNC	2695	protein_coding	YES	CCDS4421.1	ENSP00000292385	DREB_HUMAN	F8W9Z3_HUMAN,D6RCR4_HUMAN	UPI0000457395	.	deleterious(0)	possibly_damaging(0.786)	11/15	.	hmmpanther:PTHR10829:SF1,hmmpanther:PTHR10829	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCACAGC	.	5	BLCA
RASGEF1C	0	.	GRCh37	5	179555520	179555520	+	Missense_Mutation	SNP	C	C	A	rs754069123	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529G>T	p.Asp177Tyr	p.D177Y	ENST00000393371	4/13	68	43	25	36	36	0	RASGEF1C,missense_variant,p.Asp26Tyr,ENST00000522500,;RASGEF1C,missense_variant,p.Asp177Tyr,ENST00000361132,;RASGEF1C,missense_variant,p.Asp177Tyr,ENST00000393371,;RASGEF1C,non_coding_transcript_exon_variant,,ENST00000519883,;RASGEF1C,missense_variant,p.Asp26Tyr,ENST00000520209,;	A	ENSG00000146090	ENST00000393371	Transcript	missense_variant	826	529	177	D/Y	Gac/Tac	rs754069123	.	.	-1	RASGEF1C	HGNC	27400	protein_coding	YES	CCDS4452.1	ENSP00000377037	RGF1C_HUMAN	.	UPI0000037308	.	deleterious(0)	probably_damaging(0.95)	4/13	.	hmmpanther:PTHR23113:SF186,hmmpanther:PTHR23113,Gene3D:2ii0A01,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTCGGCAC	byFrequency	5	BLCA
AGXT2	0	.	GRCh37	5	35003955	35003955	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1350G>A	p.%3D	p.R450R	ENST00000231420	13/14	140	84	56	69	69	0	AGXT2,synonymous_variant,p.%3D,ENST00000231420,;AGXT2,synonymous_variant,p.%3D,ENST00000510428,;AGXT2,non_coding_transcript_exon_variant,,ENST00000512135,;	T	ENSG00000113492	ENST00000231420	Transcript	synonymous_variant	1551	1350	450	R	cgG/cgA	.	.	.	-1	AGXT2	HGNC	14412	protein_coding	YES	CCDS3908.1	ENSP00000231420	AGT2_HUMAN	.	UPI0000125709	.	.	.	13/14	.	Superfamily_domains:SSF53383,PIRSF_domain:PIRSF000521,Gene3D:3.90.1150.10,hmmpanther:PTHR11986,hmmpanther:PTHR11986:SF58	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGAGGCCGACA	.	4	BLCA
ARL15	0	.	GRCh37	5	53409135	53409135	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.359G>C	p.Arg120Thr	p.R120T	ENST00000504924	4/5	86	56	29	32	32	0	ARL15,missense_variant,p.Arg120Thr,ENST00000507646,;ARL15,missense_variant,p.Arg120Thr,ENST00000504924,;ARL15,5_prime_UTR_variant,,ENST00000502271,;ARL15,non_coding_transcript_exon_variant,,ENST00000510591,;ARL15,non_coding_transcript_exon_variant,,ENST00000505630,;	G	ENSG00000185305	ENST00000504924	Transcript	missense_variant	453	359	120	R/T	aGa/aCa	.	.	.	-1	ARL15	HGNC	25945	protein_coding	YES	CCDS54850.1	ENSP00000433427	ARL15_HUMAN	R4GN67_HUMAN	UPI000006D66A	.	deleterious(0)	possibly_damaging(0.826)	4/5	.	PROSITE_profiles:PS51417,hmmpanther:PTHR11711,hmmpanther:PTHR11711:SF114,Gene3D:3.40.50.300,Pfam_domain:PF00025,SMART_domains:SM00177,SMART_domains:SM00178,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTAGCA	.	5	BLCA
IL31RA	0	.	GRCh37	5	55195898	55195898	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1007C>A	p.Ser336Tyr	p.S336Y	ENST00000447346	8/15	220	138	82	107	107	0	IL31RA,missense_variant,p.Ser336Tyr,ENST00000447346,;IL31RA,missense_variant,p.Ser194Tyr,ENST00000490985,;IL31RA,missense_variant,p.Ser336Tyr,ENST00000359040,;IL31RA,missense_variant,p.Ser317Tyr,ENST00000354961,;IL31RA,missense_variant,p.Ser336Tyr,ENST00000396836,;IL31RA,missense_variant,p.Ser317Tyr,ENST00000396834,;IL31RA,missense_variant,p.Ser194Tyr,ENST00000297015,;	A	ENSG00000164509	ENST00000447346	Transcript	missense_variant	1072	1007	336	S/Y	tCt/tAt	COSM1567652	.	.	1	IL31RA	HGNC	18969	protein_coding	YES	CCDS3970.2	ENSP00000415900	IL31R_HUMAN	.	UPI00001A41DC	.	tolerated(0.13)	benign(0.094)	8/15	.	hmmpanther:PTHR23036:SF83,hmmpanther:PTHR23036	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCTTATA	.	5	BLCA
ADCY2	0	.	GRCh37	5	7789816	7789816	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2531A>G	p.Glu844Gly	p.E844G	ENST00000338316	20/25	142	78	64	77	77	0	ADCY2,missense_variant,p.Glu844Gly,ENST00000338316,;ADCY2,missense_variant,p.Glu664Gly,ENST00000537121,;ADCY2,non_coding_transcript_exon_variant,,ENST00000382531,;ADCY2,synonymous_variant,p.%3D,ENST00000493243,;ADCY2,upstream_gene_variant,,ENST00000489501,;	G	ENSG00000078295	ENST00000338316	Transcript	missense_variant	2620	2531	844	E/G	gAg/gGg	.	.	.	1	ADCY2	HGNC	233	protein_coding	YES	CCDS3872.2	ENSP00000342952	ADCY2_HUMAN	Q7RTV6_HUMAN,Q71UM8_HUMAN,D6REB8_HUMAN	UPI000066D9F2	.	deleterious(0.01)	possibly_damaging(0.74)	20/25	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF253	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGGAGATAG	.	5	BLCA
CMYA5	0	.	GRCh37	5	79028228	79028228	+	Nonsense_Mutation	SNP	C	C	T	rs779531611	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3640C>T	p.Gln1214Ter	p.Q1214*	ENST00000446378	2/13	39	25	13	22	22	0	CMYA5,stop_gained,p.Gln1214Ter,ENST00000446378,;	T	ENSG00000164309	ENST00000446378	Transcript	stop_gained	3671	3640	1214	Q/*	Caa/Taa	rs779531611	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	.	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCAAGAA	byFrequency	5	BLCA
THBS4	0	.	GRCh37	5	79355285	79355285	+	Missense_Mutation	SNP	G	G	A	rs369507698	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.755G>A	p.Arg252Gln	p.R252Q	ENST00000350881	6/22	194	125	69	109	108	1	THBS4,missense_variant,p.Arg252Gln,ENST00000350881,;THBS4,missense_variant,p.Arg161Gln,ENST00000511733,;CTD-2201I18.1,intron_variant,,ENST00000503007,;THBS4,downstream_gene_variant,,ENST00000510218,;THBS4,downstream_gene_variant,,ENST00000513310,;	A	ENSG00000113296	ENST00000350881	Transcript	missense_variant	945	755	252	R/Q	cGa/cAa	rs369507698	.	.	1	THBS4	HGNC	11788	protein_coding	YES	CCDS4049.1	ENSP00000339730	TSP4_HUMAN	E7ES19_HUMAN	UPI000013D591	.	deleterious(0)	probably_damaging(0.99)	6/22	.	hmmpanther:PTHR10199:SF4,hmmpanther:PTHR10199,Pfam_domain:PF11598,Gene3D:1.20.5.10,Superfamily_domains:0053531	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGCGAAACA	byCluster|by1000G	5	BLCA
TMEM161B	0	.	GRCh37	5	87564640	87564640	+	5'UTR	SNP	G	G	A	rs374920665	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-100C>T	.	.	ENST00000296595	1/12	28	19	9	25	25	0	TMEM161B,5_prime_UTR_variant,,ENST00000296595,;TMEM161B,5_prime_UTR_variant,,ENST00000514135,;TMEM161B,5_prime_UTR_variant,,ENST00000509387,;TMEM161B,5_prime_UTR_variant,,ENST00000512429,;TMEM161B,upstream_gene_variant,,ENST00000506536,;TMEM161B-AS1,upstream_gene_variant,,ENST00000504922,;TMEM161B-AS1,upstream_gene_variant,,ENST00000510087,;TMEM161B-AS1,upstream_gene_variant,,ENST00000513011,;TMEM161B-AS1,upstream_gene_variant,,ENST00000496733,;TMEM161B-AS1,upstream_gene_variant,,ENST00000504769,;TMEM161B-AS1,upstream_gene_variant,,ENST00000501715,;TMEM161B-AS1,upstream_gene_variant,,ENST00000501869,;TMEM161B-AS1,upstream_gene_variant,,ENST00000504636,;TMEM161B-AS1,upstream_gene_variant,,ENST00000512724,;TMEM161B-AS1,upstream_gene_variant,,ENST00000506584,;TMEM161B-AS1,upstream_gene_variant,,ENST00000507736,;TMEM161B,non_coding_transcript_exon_variant,,ENST00000503194,;TMEM161B,non_coding_transcript_exon_variant,,ENST00000515477,;TMEM161B,non_coding_transcript_exon_variant,,ENST00000513487,;TMEM161B,non_coding_transcript_exon_variant,,ENST00000503755,;TMEM161B,5_prime_UTR_variant,,ENST00000510089,;TMEM161B,upstream_gene_variant,,ENST00000507872,;TMEM161B,upstream_gene_variant,,ENST00000511087,;	A	ENSG00000164180	ENST00000296595	Transcript	5_prime_UTR_variant	26	.	.	.	.	rs374920665	.	.	-1	TMEM161B	HGNC	28483	protein_coding	YES	CCDS4065.1	ENSP00000296595	T161B_HUMAN	D6RBE8_HUMAN,B7Z6T3_HUMAN	UPI000007229D	.	.	.	1/12	.	.	.	.	.	.	.	.	.	C:0.0007	C:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGAAAGA	.	5	BLCA
SCML4	0	.	GRCh37	6	108041859	108041859	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.973+48C>T	.	.	ENST00000369020	.	259	247	11	122	122	0	SCML4,3_prime_UTR_variant,,ENST00000369021,;SCML4,intron_variant,,ENST00000369025,;SCML4,intron_variant,,ENST00000369022,;SCML4,intron_variant,,ENST00000369020,;SCML4,downstream_gene_variant,,ENST00000479803,;SCML4,non_coding_transcript_exon_variant,,ENST00000473515,;SCML4,non_coding_transcript_exon_variant,,ENST00000476798,;SCML4,non_coding_transcript_exon_variant,,ENST00000459992,;SCML4,downstream_gene_variant,,ENST00000463507,;	A	ENSG00000146285	ENST00000369020	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SCML4	HGNC	21397	protein_coding	YES	CCDS5060.2	ENSP00000358016	SCML4_HUMAN	.	UPI0000EE1E57	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAAGGGCAAG	.	2	BLCA
REV3L	0	.	GRCh37	6	111694547	111694547	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5011C>T	p.Gln1671Ter	p.Q1671*	ENST00000358835	14/33	129	84	44	72	72	0	REV3L,stop_gained,p.Gln1593Ter,ENST00000435970,;REV3L,stop_gained,p.Gln1671Ter,ENST00000358835,;REV3L,stop_gained,p.Gln1671Ter,ENST00000368802,;REV3L,stop_gained,p.Gln1671Ter,ENST00000368805,;REV3L,3_prime_UTR_variant,,ENST00000434009,;REV3L,3_prime_UTR_variant,,ENST00000422377,;	A	ENSG00000009413	ENST00000358835	Transcript	stop_gained	5466	5011	1671	Q/*	Cag/Tag	.	.	.	-1	REV3L	HGNC	9968	protein_coding	YES	CCDS5091.2	ENSP00000351697	DPOLZ_HUMAN	Q9UID5_HUMAN,C4TNX2_HUMAN,C4TNX1_HUMAN,C4TNX0_HUMAN,C4B7Q4_HUMAN	UPI0000140023	.	.	.	14/33	.	hmmpanther:PTHR10322:SF16,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGATCAG	.	5	BLCA
EPB41L2	0	.	GRCh37	6	131191231	131191231	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2079G>C	p.Lys693Asn	p.K693N	ENST00000337057	15/20	125	88	37	63	63	0	EPB41L2,missense_variant,p.Lys623Asn,ENST00000527659,;EPB41L2,missense_variant,p.Lys71Asn,ENST00000524581,;EPB41L2,missense_variant,p.Lys92Asn,ENST00000527423,;EPB41L2,missense_variant,p.Lys236Asn,ENST00000456097,;EPB41L2,missense_variant,p.Lys623Asn,ENST00000530481,;EPB41L2,missense_variant,p.Lys693Asn,ENST00000337057,;EPB41L2,missense_variant,p.Lys145Asn,ENST00000525198,;EPB41L2,missense_variant,p.Lys693Asn,ENST00000368128,;EPB41L2,missense_variant,p.Lys623Asn,ENST00000529208,;EPB41L2,missense_variant,p.Lys623Asn,ENST00000527411,;EPB41L2,intron_variant,,ENST00000525193,;EPB41L2,intron_variant,,ENST00000392427,;EPB41L2,intron_variant,,ENST00000445890,;EPB41L2,intron_variant,,ENST00000528282,;EPB41L2,intron_variant,,ENST00000531410,;EPB41L2,intron_variant,,ENST00000527017,;EPB41L2,intron_variant,,ENST00000530757,;EPB41L2,intron_variant,,ENST00000525271,;EPB41L2,non_coding_transcript_exon_variant,,ENST00000533912,;EPB41L2,non_coding_transcript_exon_variant,,ENST00000534166,;EPB41L2,upstream_gene_variant,,ENST00000368126,;EPB41L2,upstream_gene_variant,,ENST00000452150,;	G	ENSG00000079819	ENST00000337057	Transcript	missense_variant	2261	2079	693	K/N	aaG/aaC	COSM3920728	.	.	-1	EPB41L2	HGNC	3379	protein_coding	YES	CCDS5141.1	ENSP00000338481	E41L2_HUMAN	E9PRG1_HUMAN,E9PQN0_HUMAN,E9PQD2_HUMAN,E9PJP4_HUMAN,E9PIG0_HUMAN	UPI0000129AF9	.	tolerated(0.07)	probably_damaging(0.977)	15/20	.	hmmpanther:PTHR23280:SF17,hmmpanther:PTHR23280,PIRSF_domain:PIRSF002304	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTTCTTCTC	.	5	BLCA
CTAGE9	0	.	GRCh37	6	132031178	132031178	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.980C>G	p.Ser327Cys	p.S327C	ENST00000314099	1/1	76	62	13	61	61	0	CTAGE9,missense_variant,p.Ser327Cys,ENST00000314099,;ENPP3,intron_variant,,ENST00000358229,;ENPP3,intron_variant,,ENST00000357639,;ENPP3,intron_variant,,ENST00000414305,;	C	ENSG00000236761	ENST00000314099	Transcript	missense_variant	1029	980	327	S/C	tCt/tGt	.	.	.	-1	CTAGE9	HGNC	37275	protein_coding	YES	CCDS47475.1	ENSP00000395587	CTGE9_HUMAN	.	UPI0000073347	.	tolerated(0.24)	probably_damaging(0.978)	1/1	.	hmmpanther:PTHR23158,hmmpanther:PTHR23158:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAAAGAAACA	.	4	BLCA
SIRT5	0	.	GRCh37	6	13599382	13599382	+	Missense_Mutation	SNP	C	C	G	rs201991505	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>G	p.Leu246Val	p.L246V	ENST00000606117	8/10	198	133	64	95	95	0	SIRT5,missense_variant,p.Leu138Val,ENST00000397350,;SIRT5,missense_variant,p.Leu246Val,ENST00000379262,;SIRT5,missense_variant,p.Leu228Val,ENST00000359782,;SIRT5,missense_variant,p.Leu246Val,ENST00000606117,;SIRT5,3_prime_UTR_variant,,ENST00000379250,;	G	ENSG00000124523	ENST00000606117	Transcript	missense_variant	1032	736	246	L/V	Cta/Gta	rs201991505	.	.	1	SIRT5	HGNC	14933	protein_coding	YES	CCDS4526.1	ENSP00000476228	SIR5_HUMAN	.	UPI0000073EB3	.	deleterious(0.01)	benign(0.295)	8/10	.	Superfamily_domains:SSF52467,Gene3D:3.40.50.1220,Pfam_domain:PF02146,hmmpanther:PTHR11085,hmmpanther:PTHR11085:SF13,HAMAP:MF_01121,PROSITE_profiles:PS50305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGTCTAGTG	byFrequency|byCluster	5	BLCA
MAP7	0	.	GRCh37	6	136710649	136710649	+	Missense_Mutation	SNP	C	C	G	rs763172340	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317G>C	p.Arg106Thr	p.R106T	ENST00000454590	5/19	166	111	55	67	67	0	MAP7,missense_variant,p.Arg69Thr,ENST00000544465,;MAP7,missense_variant,p.Arg106Thr,ENST00000454590,;MAP7,missense_variant,p.Arg84Thr,ENST00000354570,;MAP7,missense_variant,p.Arg106Thr,ENST00000438100,;MAP7,5_prime_UTR_variant,,ENST00000432797,;	G	ENSG00000135525	ENST00000454590	Transcript	missense_variant	435	317	106	R/T	aGa/aCa	rs763172340	.	.	-1	MAP7	HGNC	6869	protein_coding	YES	CCDS56455.1	ENSP00000414712	MAP7_HUMAN	.	UPI0001AE72EF	.	deleterious(0)	probably_damaging(0.998)	5/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15073,hmmpanther:PTHR15073:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTTGCA	.	5	BLCA
ECT2L	0	.	GRCh37	6	139202233	139202233	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1805C>T	p.Ser602Leu	p.S602L	ENST00000423192	14/21	87	53	33	35	35	0	ECT2L,missense_variant,p.Ser602Leu,ENST00000367682,;ECT2L,missense_variant,p.Ser533Leu,ENST00000541398,;ECT2L,missense_variant,p.Ser602Leu,ENST00000423192,;RP3-509I19.6,upstream_gene_variant,,ENST00000572284,;RP3-509I19.6,upstream_gene_variant,,ENST00000404494,;	T	ENSG00000203734	ENST00000423192	Transcript	missense_variant	1966	1805	602	S/L	tCa/tTa	.	.	.	1	ECT2L	HGNC	21118	protein_coding	YES	CCDS43508.1	ENSP00000387388	ECT2L_HUMAN	B7ZBI6_HUMAN	UPI0000E86804	.	deleterious(0)	probably_damaging(0.914)	14/21	.	Superfamily_domains:SSF48065,SMART_domains:SM00325,Gene3D:1.20.900.10,Pfam_domain:PF00621,hmmpanther:PTHR12673:SF70,hmmpanther:PTHR12673,PROSITE_profiles:PS50010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCAAACA	.	5	BLCA
STXBP5	0	.	GRCh37	6	147636838	147636838	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1590C>T	p.%3D	p.F530F	ENST00000321680	15/28	133	81	52	81	81	0	STXBP5,synonymous_variant,p.%3D,ENST00000321680,;STXBP5,synonymous_variant,p.%3D,ENST00000367480,;STXBP5,synonymous_variant,p.%3D,ENST00000179882,;STXBP5,synonymous_variant,p.%3D,ENST00000367481,;	T	ENSG00000164506	ENST00000321680	Transcript	synonymous_variant	1590	1590	530	F	ttC/ttT	.	.	.	1	STXBP5	HGNC	19665	protein_coding	YES	CCDS47499.1	ENSP00000321826	STXB5_HUMAN	.	UPI0000199FE0	.	.	.	15/28	.	Superfamily_domains:SSF50978,Superfamily_domains:SSF50978,Gene3D:2.130.10.10,hmmpanther:PTHR10241,hmmpanther:PTHR10241:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCAGCAA	.	5	BLCA
ZC3H12D	0	.	GRCh37	6	149795653	149795653	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27C>T	p.%3D	p.F9F	ENST00000409806	2/6	31	20	11	18	18	0	ZC3H12D,synonymous_variant,p.%3D,ENST00000416573,;ZC3H12D,synonymous_variant,p.%3D,ENST00000542614,;ZC3H12D,synonymous_variant,p.%3D,ENST00000409806,;ZC3H12D,synonymous_variant,p.%3D,ENST00000409948,;ZC3H12D,synonymous_variant,p.%3D,ENST00000389942,;ZC3H12D,non_coding_transcript_exon_variant,,ENST00000462655,;	A	ENSG00000178199	ENST00000409806	Transcript	synonymous_variant	346	27	9	F	ttC/ttT	.	.	.	-1	ZC3H12D	HGNC	21175	protein_coding	YES	.	ENSP00000386616	ZC12D_HUMAN	.	UPI00002377F7	.	.	.	2/6	.	hmmpanther:PTHR12876:SF11,hmmpanther:PTHR12876	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGAATTC	.	5	BLCA
LATS1	0	.	GRCh37	6	150004798	150004798	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1427C>T	p.Ser476Phe	p.S476F	ENST00000543571	4/8	335	219	115	141	141	0	LATS1,missense_variant,p.Ser476Phe,ENST00000253339,;LATS1,missense_variant,p.Ser476Phe,ENST00000392273,;LATS1,missense_variant,p.Ser476Phe,ENST00000543571,;LATS1,downstream_gene_variant,,ENST00000458696,;LATS1,non_coding_transcript_exon_variant,,ENST00000542747,;LATS1,3_prime_UTR_variant,,ENST00000441107,;LATS1,downstream_gene_variant,,ENST00000542720,;	A	ENSG00000131023	ENST00000543571	Transcript	missense_variant	1975	1427	476	S/F	tCt/tTt	.	.	.	-1	LATS1	HGNC	6514	protein_coding	YES	CCDS34551.1	ENSP00000437550	LATS1_HUMAN	.	UPI0000073DC2	.	deleterious_low_confidence(0.02)	benign(0.309)	4/8	.	hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF138	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCAGAGTGA	.	5	BLCA
LATS1	0	.	GRCh37	6	150004840	150004840	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1385C>G	p.Ser462Ter	p.S462*	ENST00000543571	4/8	391	261	129	190	190	0	LATS1,stop_gained,p.Ser462Ter,ENST00000253339,;LATS1,stop_gained,p.Ser462Ter,ENST00000392273,;LATS1,stop_gained,p.Ser462Ter,ENST00000543571,;LATS1,downstream_gene_variant,,ENST00000458696,;LATS1,non_coding_transcript_exon_variant,,ENST00000542747,;LATS1,3_prime_UTR_variant,,ENST00000441107,;LATS1,downstream_gene_variant,,ENST00000542720,;	C	ENSG00000131023	ENST00000543571	Transcript	stop_gained	1933	1385	462	S/*	tCa/tGa	.	.	.	-1	LATS1	HGNC	6514	protein_coding	YES	CCDS34551.1	ENSP00000437550	LATS1_HUMAN	.	UPI0000073DC2	.	.	.	4/8	.	hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF138	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTGACCTC	.	5	BLCA
WTAP	0	.	GRCh37	6	160163119	160163119	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.87-1G>C	.	p.X29_splice	ENST00000358372	.	103	71	32	43	43	0	WTAP,splice_acceptor_variant,,ENST00000358372,;WTAP,splice_acceptor_variant,,ENST00000337387,;SOD2,intron_variant,,ENST00000537657,;SOD2,intron_variant,,ENST00000546087,;WTAP,non_coding_transcript_exon_variant,,ENST00000462110,;	C	ENSG00000146457	ENST00000358372	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	WTAP	HGNC	16846	protein_coding	YES	CCDS5266.1	ENSP00000351141	FL2D_HUMAN	Q6AHX7_HUMAN	UPI0000070280	.	.	.	.	3/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTAGATGGA	.	5	BLCA
CDKAL1	0	.	GRCh37	6	20781488	20781488	+	Silent	SNP	C	C	T	rs759229185	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630C>T	p.%3D	p.I210I	ENST00000274695	8/16	151	104	47	72	72	0	CDKAL1,synonymous_variant,p.%3D,ENST00000274695,;CDKAL1,synonymous_variant,p.%3D,ENST00000378610,;CDKAL1,synonymous_variant,p.%3D,ENST00000378624,;RP3-348I23.2,intron_variant,,ENST00000421167,;	T	ENSG00000145996	ENST00000274695	Transcript	synonymous_variant	797	630	210	I	atC/atT	rs759229185	.	.	1	CDKAL1	HGNC	21050	protein_coding	YES	CCDS4546.1	ENSP00000274695	CDKAL_HUMAN	.	UPI000013DA21	.	.	.	8/16	.	hmmpanther:PTHR11918,hmmpanther:PTHR11918:SF45,PROSITE_patterns:PS01278,TIGRFAM_domain:TIGR00089,Pfam_domain:PF04055,Gene3D:2qgqB01,TIGRFAM_domain:TIGR01578,SMART_domains:SM00729,Superfamily_domains:SSF102114	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCAATAC	byFrequency	5	BLCA
HIST1H1E	0	.	GRCh37	6	26156588	26156588	+	5'UTR	SNP	C	C	G	rs779960268	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31C>G	.	.	ENST00000304218	1/1	139	89	50	65	65	0	HIST1H1E,5_prime_UTR_variant,,ENST00000304218,;HIST1H2BD,upstream_gene_variant,,ENST00000289316,;HIST1H2BD,upstream_gene_variant,,ENST00000377777,;	G	ENSG00000168298	ENST00000304218	Transcript	5_prime_UTR_variant	30	.	.	.	.	rs779960268	.	.	1	HIST1H1E	HGNC	4718	protein_coding	YES	CCDS4586.1	ENSP00000307705	H14_HUMAN	A3R0T8_HUMAN	UPI0000000DB9	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTCGAATT	byFrequency	5	BLCA
ABT1	0	.	GRCh37	6	26598303	26598303	+	Missense_Mutation	SNP	C	C	T	rs782567643	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.403C>T	p.Arg135Cys	p.R135C	ENST00000274849	2/3	80	47	33	39	39	0	ABT1,missense_variant,p.Arg135Cys,ENST00000274849,;	T	ENSG00000146109	ENST00000274849	Transcript	missense_variant	434	403	135	R/C	Cgc/Tgc	rs782567643	.	.	1	ABT1	HGNC	17369	protein_coding	YES	CCDS4616.1	ENSP00000274849	ABT1_HUMAN	.	UPI0000062314	.	deleterious(0)	probably_damaging(0.999)	2/3	.	hmmpanther:PTHR12311	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGGCGCAGC	byFrequency	5	BLCA
TRIM27	0	.	GRCh37	6	28879489	28879489	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.754G>A	p.Gly252Arg	p.G252R	ENST00000377199	4/8	122	83	39	53	53	0	TRIM27,missense_variant,p.Gly252Arg,ENST00000377199,;TRIM27,missense_variant,p.Gly252Arg,ENST00000377194,;TRIM27,upstream_gene_variant,,ENST00000414543,;RNU6-930P,upstream_gene_variant,,ENST00000390938,;TRIM27,non_coding_transcript_exon_variant,,ENST00000498117,;TRIM27,downstream_gene_variant,,ENST00000496091,;TRIM27,upstream_gene_variant,,ENST00000467742,;TRIM27,non_coding_transcript_exon_variant,,ENST00000481474,;	T	ENSG00000204713	ENST00000377199	Transcript	missense_variant	1111	754	252	G/R	Ggg/Agg	.	.	.	-1	TRIM27	HGNC	9975	protein_coding	YES	CCDS4654.1	ENSP00000366404	TRI27_HUMAN	Q9NZT8_HUMAN	UPI0000000DCE	.	tolerated(0.6)	probably_damaging(0.979)	4/8	.	hmmpanther:PTHR24103:SF271,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCCCAATGT	.	5	BLCA
RNF39	0	.	GRCh37	6	30040942	30040942	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674G>A	p.Arg225Lys	p.R225K	ENST00000244360	3/4	139	86	53	58	58	0	RNF39,missense_variant,p.Arg225Lys,ENST00000376751,;RNF39,missense_variant,p.Arg225Lys,ENST00000244360,;PPP1R11,downstream_gene_variant,,ENST00000376769,;PPP1R11,downstream_gene_variant,,ENST00000376763,;PPP1R11,downstream_gene_variant,,ENST00000376772,;PPP1R11,downstream_gene_variant,,ENST00000376765,;PPP1R11,downstream_gene_variant,,ENST00000376773,;PPP1R11,downstream_gene_variant,,ENST00000376758,;	T	ENSG00000204618	ENST00000244360	Transcript	missense_variant	772	674	225	R/K	aGa/aAa	.	.	.	-1	RNF39	HGNC	18064	protein_coding	YES	CCDS4673.1	ENSP00000244360	RNF39_HUMAN	Q96QB5_HUMAN	UPI000000D735	.	tolerated(0.36)	benign(0.157)	3/4	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF224,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.M222fs*5|c.664delA|3,BUFFER|p.M222fs*5|c.664delA|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGTCTATGA	.	5	BLCA
C6orf15	0	.	GRCh37	6	31079144	31079144	+	3'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14G>A	.	.	ENST00000259870	2/2	27	17	10	10	10	0	C6orf15,3_prime_UTR_variant,,ENST00000259870,;CDSN,downstream_gene_variant,,ENST00000376288,;PSORS1C1,upstream_gene_variant,,ENST00000259881,;PSORS1C1,upstream_gene_variant,,ENST00000467107,;PSORS1C1,upstream_gene_variant,,ENST00000479581,;PSORS1C1,upstream_gene_variant,,ENST00000493289,;PSORS1C1,upstream_gene_variant,,ENST00000548049,;PSORS1C1,upstream_gene_variant,,ENST00000552747,;PSORS1C1,upstream_gene_variant,,ENST00000550838,;	T	ENSG00000204542	ENST00000259870	Transcript	3_prime_UTR_variant	996	.	.	.	.	.	.	.	-1	C6orf15	HGNC	13927	protein_coding	YES	CCDS4693.1	ENSP00000259870	CF015_HUMAN	M1T2K5_HUMAN	UPI000000D748	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTTTCCCTCT	.	2	BLCA
BPHL	0	.	GRCh37	6	3119674	3119674	+	Intron	SNP	G	G	A	rs752051319	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107+593G>A	.	.	ENST00000380379	.	74	44	30	46	46	0	BPHL,5_prime_UTR_variant,,ENST00000380368,;BPHL,5_prime_UTR_variant,,ENST00000380375,;BPHL,5_prime_UTR_variant,,ENST00000434640,;BPHL,intron_variant,,ENST00000380379,;RIPK1,downstream_gene_variant,,ENST00000259808,;RIPK1,downstream_gene_variant,,ENST00000380409,;RIPK1,downstream_gene_variant,,ENST00000541791,;BPHL,3_prime_UTR_variant,,ENST00000424847,;BPHL,3_prime_UTR_variant,,ENST00000430655,;BPHL,intron_variant,,ENST00000479273,;BPHL,intron_variant,,ENST00000490918,;BPHL,intron_variant,,ENST00000433912,;	A	ENSG00000137274	ENST00000380379	Transcript	intron_variant	.	.	.	.	.	rs752051319	.	.	1	BPHL	HGNC	1094	protein_coding	YES	CCDS4483.2	ENSP00000369739	BPHL_HUMAN	.	UPI000000DC96	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTGATCTA	.	5	BLCA
HLA-B	0	.	GRCh37	6	31324681	31324681	+	Missense_Mutation	SNP	C	C	T	rs137854653	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.127G>A	p.Glu43Lys	p.E43K	ENST00000412585	2/8	118	75	43	52	52	0	HLA-B,missense_variant,p.Glu43Lys,ENST00000412585,;HLA-B,missense_variant,p.Glu54Lys,ENST00000434333,;HLA-B,non_coding_transcript_exon_variant,,ENST00000498007,;HLA-B,non_coding_transcript_exon_variant,,ENST00000474381,;HLA-B,upstream_gene_variant,,ENST00000481849,;HLA-B,upstream_gene_variant,,ENST00000463574,;HLA-B,upstream_gene_variant,,ENST00000497377,;XXbac-BPG248L24.12,non_coding_transcript_exon_variant,,ENST00000603274,;	T	ENSG00000234745	ENST00000412585	Transcript	missense_variant	156	127	43	E/K	Gag/Aag	rs137854653	.	.	-1	HLA-B	HGNC	4932	protein_coding	YES	CCDS34394.1	ENSP00000399168	1B73_HUMAN,1B07_HUMAN,1B42_HUMAN,1B67_HUMAN,1B81_HUMAN,1B48_HUMAN	T1R372_HUMAN,R4QQU0_HUMAN,N0A4A9_HUMAN,N0A0K3_HUMAN,M9XMA8_HUMAN,M9PAL2_HUMAN,M9P9U8_HUMAN,M9P9C4_HUMAN,M9P9A4_HUMAN,M9P990_HUMAN,M9P8G8_HUMAN,M1FXF1_HUMAN,M1FWX2_HUMAN,M1F4D0_HUMAN,E5FQ95_HUMAN,Q9UIP1_HUMAN,Q9TQC5_HUMAN,Q9TQC2_HUMAN,Q9TPU4_HUMAN,Q9GIM0_HUMAN,Q95IE1_HUMAN,Q95HL7_HUMAN,Q8SP64_HUMAN,Q8HWQ3_HUMAN,Q861E5_HUMAN,Q861D6_HUMAN,Q861D4_HUMAN,Q7YP17_HUMAN,Q7YNX2_HUMAN,Q7JGR7_HUMAN,Q710M8_HUMAN,Q710M7_HUMAN,Q70HJ6_HUMAN,Q709M5_HUMAN,Q6ZXT6_HUMAN,Q5QR88_HUMAN,Q5QR87_HUMAN,Q5QR86_HUMAN,Q5QR85_HUMAN,Q5QR84_HUMAN,Q5QR83_HUMAN,Q5QR76_HUMAN,Q5QR73_HUMAN,Q5QR69_HUMAN,Q5QR62_HUMAN,Q5QR60_HUMAN,Q5QR59_HUMAN,Q5QR58_HUMAN,Q5QR57_HUMAN,Q5QR48_HUMAN,Q5QR47_HUMAN,Q5QR46_HUMAN,Q5QR36_HUMAN,Q5QR34_HUMAN,Q5QR33_HUMAN,Q5QR31_HUMAN,Q5F311_HUMAN,Q53ZP0_HUMAN,Q29923_HUMAN,Q29843_HUMAN,Q256S0_HUMAN,O19782_HUMAN,O19746_HUMAN,O19644_HUMAN,O19638_HUMAN,O19563_HUMAN,L0RH50_HUMAN,L0BXM2_HUMAN,K9LCN4_HUMAN,K9L8E6_HUMAN,K7QT39_HUMAN,K7P5R9_HUMAN,K4JQY2_HUMAN,J9UP90_HUMAN,J9PWQ9_HUMAN,J9PW07_HUMAN,J7K017_HUMAN,J7F682_HUMAN,J7F577_HUMAN,I7A4E3_HUMAN,I6TRW4_HUMAN,I6RCX9_HUMAN,I6NXG0_HUMAN,I6NWI0_HUMAN,I6NVS4_HUMAN,I4EC43_HUMAN,I3VZ13_HUMAN,I3UI65_HUMAN,I3QHR8_HUMAN,I2B2Z4_HUMAN,I2B2W6_HUMAN,H9C5J4_HUMAN,H9BQ86_HUMAN,H9BQ83_HUMAN,H9BQ82_HUMAN,G9I2L1_HUMAN,G3D6I7_HUMAN,G1EPU3_HUMAN,G1EPN0_HUMAN,G1EPJ1_HUMAN,G1ENJ6_HUMAN,G1ENJ0_HUMAN,G1EMP0_HUMAN,G1EMK6_HUMAN,G0ZMJ0_HUMAN,G0ZMH5_HUMAN,G0Z8C9_HUMAN,G0WVB6_HUMAN,F8SKV9_HUMAN,F8RHF3_HUMAN,F6KRS1_HUMAN,F6KRR7_HUMAN,F6KRQ7_HUMAN,F4YU56_HUMAN,F4YTC4_HUMAN,F4NBP2_HUMAN,F4NBP0_HUMAN,F2X5W5_HUMAN,F2X5T3_HUMAN,F2VNN2_HUMAN,E9LY38_HUMAN,E7BYA5_HUMAN,E3SWI1_HUMAN,E3SWH9_HUMAN,E2GJN0_HUMAN,E2DH92_HUMAN,E2D5Q2_HUMAN,E2D5P9_HUMAN,E2D5N8_HUMAN,D9U3G7_HUMAN,D7NSR4_HUMAN,D5L9C9_HUMAN,D5FWA6_HUMAN,D5FI14_HUMAN,D5FHY1_HUMAN,D5FHV8_HUMAN,D5FHU6_HUMAN,D4HPL2_HUMAN,D4HPB9_HUMAN,D4HPB2_HUMAN,D4HP81_HUMAN,D3Y5Y4_HUMAN,D3U4B8_HUMAN,D2DL25_HUMAN,D2DKQ8_HUMAN,D2DKN8_HUMAN,D2DKN6_HUMAN,D2DKF7_HUMAN,D2DKF6_HUMAN,C9WEP9_HUMAN,C9WEN6_HUMAN,C9WD06_HUMAN,C9WCZ5_HUMAN,C9WCQ2_HUMAN,C9E1H2_HUMAN,C8CH80_HUMAN,C8CAX9_HUMAN,C7FDQ9_HUMAN,C6L830_HUMAN,C5JA70_HUMAN,C3VIU8_HUMAN,B9VWB1_HUMAN,B4DUK6_HUMAN,B2YG95_HUMAN,A7E1C3_HUMAN,A5PHP5_HUMAN,A2VC07_HUMAN	UPI0000000B17	.	deleterious_low_confidence(0.03)	probably_damaging(0.997)	2/8	.	hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF157,Gene3D:3.30.500.10,Pfam_domain:PF00129,Superfamily_domains:SSF54452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCCCCGC	byCluster	5	BLCA
LTA	0	.	GRCh37	6	31541102	31541102	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Asp84Asn	p.D84N	ENST00000454783	4/4	97	63	34	36	36	0	LTA,missense_variant,p.Asp84Asn,ENST00000418386,;LTA,missense_variant,p.Asp84Asn,ENST00000454783,;TNF,upstream_gene_variant,,ENST00000449264,;LTA,non_coding_transcript_exon_variant,,ENST00000471842,;LTA,non_coding_transcript_exon_variant,,ENST00000489638,;	A	ENSG00000226979	ENST00000454783	Transcript	missense_variant	508	250	84	D/N	Gac/Aac	COSM451205	.	.	1	LTA	HGNC	6709	protein_coding	YES	CCDS4701.1	ENSP00000403495	TNFB_HUMAN	Q5STV3_HUMAN,Q6WQV6_HUMAN,Q45NE9_HUMAN	UPI000000D744	.	tolerated(0.54)	probably_damaging(1)	4/4	.	Prints_domain:PR01234,Prints_domain:PR01236,Superfamily_domains:SSF49842,SMART_domains:SM00207,Pfam_domain:PF00229,Gene3D:2.60.120.40,hmmpanther:PTHR11471,hmmpanther:PTHR11471:SF9,PROSITE_profiles:PS50049	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACGGACCGT	.	5	BLCA
TUBB2A	0	.	GRCh37	6	3154828	3154828	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>A	p.Asp203Asn	p.D203N	ENST00000333628	4/4	353	235	117	196	196	0	TUBB2A,missense_variant,p.Asp203Asn,ENST00000333628,;BPHL,downstream_gene_variant,,ENST00000380368,;BPHL,downstream_gene_variant,,ENST00000380379,;BPHL,downstream_gene_variant,,ENST00000423798,;BPHL,downstream_gene_variant,,ENST00000380375,;BPHL,downstream_gene_variant,,ENST00000434640,;RP1-40E16.11,upstream_gene_variant,,ENST00000447644,;TUBB2A,non_coding_transcript_exon_variant,,ENST00000489942,;BPHL,downstream_gene_variant,,ENST00000464040,;BPHL,downstream_gene_variant,,ENST00000490918,;BPHL,downstream_gene_variant,,ENST00000488487,;BPHL,downstream_gene_variant,,ENST00000424847,;BPHL,downstream_gene_variant,,ENST00000430655,;BPHL,downstream_gene_variant,,ENST00000433912,;	T	ENSG00000137267	ENST00000333628	Transcript	missense_variant	670	607	203	D/N	Gat/Aat	COSM1643001	.	.	-1	TUBB2A	HGNC	12412	protein_coding	YES	CCDS4484.1	ENSP00000369703	TBB2A_HUMAN	.	UPI000000DC98	.	deleterious_low_confidence(0.01)	probably_damaging(1)	4/4	.	hmmpanther:PTHR11588:SF56,hmmpanther:PTHR11588,Pfam_domain:PF00091,Gene3D:3.40.50.1440,SMART_domains:SM00864,Superfamily_domains:SSF52490,Prints_domain:PR01161	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTATCAATGG	.	5	BLCA
LTB	0	.	GRCh37	6	31548475	31548475	+	3'UTR	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11G>T	.	.	ENST00000429299	4/4	86	62	23	38	38	0	LTB,3_prime_UTR_variant,,ENST00000446745,;LTB,3_prime_UTR_variant,,ENST00000429299,;TNF,downstream_gene_variant,,ENST00000449264,;LTB,non_coding_transcript_exon_variant,,ENST00000483972,;LTB,non_coding_transcript_exon_variant,,ENST00000482429,;	A	ENSG00000227507	ENST00000429299	Transcript	3_prime_UTR_variant	754	.	.	.	.	.	.	.	-1	LTB	HGNC	6711	protein_coding	YES	CCDS4703.1	ENSP00000410481	TNFC_HUMAN	Q5STB2_HUMAN	UPI000000D743	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCACTCATA	.	5	BLCA
EHMT2	0	.	GRCh37	6	31852419	31852419	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2603+3G>A	.	.	ENST00000375537	.	76	48	28	36	36	0	EHMT2,splice_region_variant,,ENST00000375537,;EHMT2,splice_region_variant,,ENST00000436026,;EHMT2,splice_region_variant,,ENST00000375528,;EHMT2,splice_region_variant,,ENST00000395728,;EHMT2,splice_region_variant,,ENST00000375530,;EHMT2-AS1,downstream_gene_variant,,ENST00000434689,;EHMT2,splice_region_variant,,ENST00000478491,;EHMT2,splice_region_variant,,ENST00000480912,;EHMT2,splice_region_variant,,ENST00000494816,;EHMT2,non_coding_transcript_exon_variant,,ENST00000461880,;EHMT2,downstream_gene_variant,,ENST00000477678,;	T	ENSG00000204371	ENST00000375537	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	EHMT2	HGNC	14129	protein_coding	YES	CCDS4725.1	ENSP00000364687	EHMT2_HUMAN	.	UPI000013D085	.	.	.	.	20/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCACAGC	.	5	BLCA
NELFE	0	.	GRCh37	6	31921542	31921542	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>C	p.Asp337His	p.D337H	ENST00000375429	10/11	203	137	66	93	93	0	NELFE,missense_variant,p.Asp344His,ENST00000375425,;NELFE,missense_variant,p.Asp307His,ENST00000444811,;NELFE,missense_variant,p.Asp337His,ENST00000375429,;NELFE,missense_variant,p.Asp332His,ENST00000441998,;CFB,downstream_gene_variant,,ENST00000483004,;NELFE,downstream_gene_variant,,ENST00000436289,;CFB,downstream_gene_variant,,ENST00000456570,;CFB,downstream_gene_variant,,ENST00000477310,;CFB,downstream_gene_variant,,ENST00000498317,;CFB,downstream_gene_variant,,ENST00000556679,;CFB,downstream_gene_variant,,ENST00000425368,;NELFE,downstream_gene_variant,,ENST00000426722,;NELFE,downstream_gene_variant,,ENST00000454913,;MIR1236,downstream_gene_variant,,ENST00000408340,;CFB,downstream_gene_variant,,ENST00000497841,;NELFE,non_coding_transcript_exon_variant,,ENST00000488426,;NELFE,non_coding_transcript_exon_variant,,ENST00000492185,;NELFE,non_coding_transcript_exon_variant,,ENST00000481121,;CFB,downstream_gene_variant,,ENST00000482312,;CFB,downstream_gene_variant,,ENST00000465750,;CFB,downstream_gene_variant,,ENST00000452035,;NELFE,downstream_gene_variant,,ENST00000492539,;NELFE,downstream_gene_variant,,ENST00000494956,;CFB,downstream_gene_variant,,ENST00000482886,;CFB,downstream_gene_variant,,ENST00000467360,;NELFE,downstream_gene_variant,,ENST00000491139,;CFB,downstream_gene_variant,,ENST00000461483,;CFB,downstream_gene_variant,,ENST00000467150,;	G	ENSG00000204356	ENST00000375429	Transcript	missense_variant	1236	1009	337	D/H	Gat/Cat	.	.	.	-1	NELFE	HGNC	13974	protein_coding	YES	CCDS4730.1	ENSP00000364578	NELFE_HUMAN	Q9BQJ6_HUMAN,A2ABK4_HUMAN,A2ABK2_HUMAN	UPI000000127D	.	deleterious(0.01)	unknown(0)	10/11	.	hmmpanther:PTHR17250:SF0,hmmpanther:PTHR17250	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCCAGCA	.	5	BLCA
NELFE	0	.	GRCh37	6	31921883	31921883	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.916G>A	p.Glu306Lys	p.E306K	ENST00000375429	9/11	77	59	18	26	26	0	NELFE,missense_variant,p.Glu313Lys,ENST00000375425,;NELFE,missense_variant,p.Glu276Lys,ENST00000444811,;NELFE,missense_variant,p.Glu306Lys,ENST00000375429,;NELFE,missense_variant,p.Glu301Lys,ENST00000441998,;CFB,downstream_gene_variant,,ENST00000483004,;NELFE,downstream_gene_variant,,ENST00000436289,;CFB,downstream_gene_variant,,ENST00000456570,;CFB,downstream_gene_variant,,ENST00000477310,;CFB,downstream_gene_variant,,ENST00000498317,;CFB,downstream_gene_variant,,ENST00000556679,;SKIV2L,upstream_gene_variant,,ENST00000375394,;CFB,downstream_gene_variant,,ENST00000425368,;NELFE,downstream_gene_variant,,ENST00000426722,;NELFE,downstream_gene_variant,,ENST00000454913,;MIR1236,downstream_gene_variant,,ENST00000408340,;CFB,downstream_gene_variant,,ENST00000497841,;NELFE,non_coding_transcript_exon_variant,,ENST00000488426,;NELFE,non_coding_transcript_exon_variant,,ENST00000492185,;NELFE,non_coding_transcript_exon_variant,,ENST00000481121,;CFB,downstream_gene_variant,,ENST00000482312,;CFB,downstream_gene_variant,,ENST00000465750,;CFB,downstream_gene_variant,,ENST00000452035,;NELFE,downstream_gene_variant,,ENST00000492539,;NELFE,downstream_gene_variant,,ENST00000494956,;CFB,downstream_gene_variant,,ENST00000482886,;CFB,downstream_gene_variant,,ENST00000467360,;NELFE,downstream_gene_variant,,ENST00000491139,;CFB,downstream_gene_variant,,ENST00000461483,;CFB,downstream_gene_variant,,ENST00000467150,;	T	ENSG00000204356	ENST00000375429	Transcript	missense_variant	1143	916	306	E/K	Gag/Aag	.	.	.	-1	NELFE	HGNC	13974	protein_coding	YES	CCDS4730.1	ENSP00000364578	NELFE_HUMAN	Q9BQJ6_HUMAN,A2ABK4_HUMAN,A2ABK2_HUMAN	UPI000000127D	.	deleterious(0.03)	unknown(0)	9/11	.	PROSITE_profiles:PS50102,hmmpanther:PTHR17250:SF0,hmmpanther:PTHR17250,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGACTCCATCT	.	3	BLCA
NELFE	0	.	GRCh37	6	31922575	31922575	+	Missense_Mutation	SNP	C	C	G	rs55821537	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499G>C	p.Asp167His	p.D167H	ENST00000375429	7/11	206	130	75	103	103	0	NELFE,missense_variant,p.Asp162His,ENST00000436289,;NELFE,missense_variant,p.Asp174His,ENST00000375425,;NELFE,missense_variant,p.Asp137His,ENST00000444811,;NELFE,missense_variant,p.Asp167His,ENST00000375429,;NELFE,missense_variant,p.Asp162His,ENST00000441998,;NELFE,missense_variant,p.Asp167His,ENST00000454913,;CFB,downstream_gene_variant,,ENST00000483004,;CFB,downstream_gene_variant,,ENST00000456570,;CFB,downstream_gene_variant,,ENST00000477310,;SKIV2L,upstream_gene_variant,,ENST00000544581,;CFB,downstream_gene_variant,,ENST00000498317,;CFB,downstream_gene_variant,,ENST00000556679,;SKIV2L,upstream_gene_variant,,ENST00000375394,;CFB,downstream_gene_variant,,ENST00000425368,;NELFE,downstream_gene_variant,,ENST00000426722,;MIR1236,downstream_gene_variant,,ENST00000408340,;SKIV2L,upstream_gene_variant,,ENST00000488648,;NELFE,3_prime_UTR_variant,,ENST00000492539,;NELFE,non_coding_transcript_exon_variant,,ENST00000488426,;NELFE,non_coding_transcript_exon_variant,,ENST00000492185,;NELFE,non_coding_transcript_exon_variant,,ENST00000481121,;SKIV2L,upstream_gene_variant,,ENST00000492900,;CFB,downstream_gene_variant,,ENST00000482312,;CFB,downstream_gene_variant,,ENST00000452035,;SKIV2L,upstream_gene_variant,,ENST00000474839,;SKIV2L,upstream_gene_variant,,ENST00000465703,;NELFE,downstream_gene_variant,,ENST00000494956,;CFB,downstream_gene_variant,,ENST00000467360,;NELFE,downstream_gene_variant,,ENST00000491139,;SKIV2L,upstream_gene_variant,,ENST00000461073,;	G	ENSG00000204356	ENST00000375429	Transcript	missense_variant	726	499	167	D/H	Gac/Cac	rs55821537	.	.	-1	NELFE	HGNC	13974	protein_coding	YES	CCDS4730.1	ENSP00000364578	NELFE_HUMAN	Q9BQJ6_HUMAN,A2ABK4_HUMAN,A2ABK2_HUMAN	UPI000000127D	.	deleterious_low_confidence(0.03)	possibly_damaging(0.85)	7/11	.	hmmpanther:PTHR17250:SF0,hmmpanther:PTHR17250	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTCAAAGC	byCluster	5	BLCA
AGER	0	.	GRCh37	6	32151075	32151075	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420+26G>A	.	.	ENST00000375076	.	71	46	25	35	35	0	AGER,missense_variant,p.Arg149Lys,ENST00000375056,;RNF5,missense_variant,p.Ser152Phe,ENST00000427134,;AGER,missense_variant,p.Arg149Lys,ENST00000438221,;AGER,intron_variant,,ENST00000450110,;AGER,intron_variant,,ENST00000375055,;AGER,intron_variant,,ENST00000375070,;AGER,intron_variant,,ENST00000375065,;AGER,intron_variant,,ENST00000375076,;AGER,intron_variant,,ENST00000375067,;AGER,intron_variant,,ENST00000375069,;PBX2,downstream_gene_variant,,ENST00000375050,;RNF5,downstream_gene_variant,,ENST00000375094,;AGER,downstream_gene_variant,,ENST00000538695,;XXbac-BPG300A18.13,downstream_gene_variant,,ENST00000559458,;RNF5,downstream_gene_variant,,ENST00000487940,;AGER,intron_variant,,ENST00000484849,;PBX2,downstream_gene_variant,,ENST00000496171,;PBX2,downstream_gene_variant,,ENST00000480254,;AGER,upstream_gene_variant,,ENST00000473619,;AGER,upstream_gene_variant,,ENST00000488669,;PBX2,downstream_gene_variant,,ENST00000495300,;PBX2,downstream_gene_variant,,ENST00000478678,;AGER,upstream_gene_variant,,ENST00000469940,;	T	ENSG00000204305	ENST00000375076	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	AGER	HGNC	320	protein_coding	YES	CCDS4746.1	ENSP00000364217	RAGE_HUMAN	Q9UQR5_HUMAN,Q3L1S0_HUMAN,Q101R2_HUMAN,E9LVY5_HUMAN,C0IP14_HUMAN	UPI00001330EF	.	.	.	.	4/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTACTT	.	4	BLCA
BRD2	0	.	GRCh37	6	32944218	32944218	+	Missense_Mutation	SNP	C	C	A	rs752511803	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.802C>A	p.Pro268Thr	p.P268T	ENST00000395289	6/14	98	56	41	44	44	0	BRD2,missense_variant,p.Pro268Thr,ENST00000395289,;BRD2,missense_variant,p.Pro274Thr,ENST00000449025,;BRD2,missense_variant,p.Pro221Thr,ENST00000449085,;BRD2,missense_variant,p.Pro268Thr,ENST00000374825,;BRD2,missense_variant,p.Pro268Thr,ENST00000607833,;BRD2,missense_variant,p.Pro268Thr,ENST00000374831,;BRD2,missense_variant,p.Pro11Thr,ENST00000606059,;BRD2,missense_variant,p.Pro148Thr,ENST00000443797,;BRD2,missense_variant,p.Pro270Thr,ENST00000456339,;BRD2,missense_variant,p.Pro268Thr,ENST00000395287,;BRD2,downstream_gene_variant,,ENST00000496118,;XXbac-BPG181M17.6,upstream_gene_variant,,ENST00000580587,;BRD2,downstream_gene_variant,,ENST00000580234,;BRD2,downstream_gene_variant,,ENST00000584808,;BRD2,downstream_gene_variant,,ENST00000581002,;BRD2,missense_variant,p.Pro268Thr,ENST00000495733,;BRD2,3_prime_UTR_variant,,ENST00000482914,;BRD2,non_coding_transcript_exon_variant,,ENST00000464592,;BRD2,upstream_gene_variant,,ENST00000482838,;BRD2,upstream_gene_variant,,ENST00000481259,;BRD2,upstream_gene_variant,,ENST00000469132,;BRD2,upstream_gene_variant,,ENST00000463639,;	A	ENSG00000204256	ENST00000395289	Transcript	missense_variant	2403	802	268	P/T	Cct/Act	rs752511803	.	.	1	BRD2	HGNC	1103	protein_coding	YES	CCDS56420.1	ENSP00000378704	BRD2_HUMAN	U3KQA6_HUMAN	UPI0000227E6A	.	tolerated(0.11)	benign(0.134)	6/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCTCCA	byFrequency	5	BLCA
C6orf1	0	.	GRCh37	6	34214471	34214471	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300C>G	p.%3D	p.L100L	ENST00000476320	5/5	54	34	20	34	34	0	C6orf1,synonymous_variant,p.%3D,ENST00000413013,;C6orf1,synonymous_variant,p.%3D,ENST00000481533,;C6orf1,synonymous_variant,p.%3D,ENST00000335352,;C6orf1,synonymous_variant,p.%3D,ENST00000476320,;C6orf1,synonymous_variant,p.%3D,ENST00000468145,;C6orf1,synonymous_variant,p.%3D,ENST00000394990,;HMGA1,downstream_gene_variant,,ENST00000347617,;HMGA1,downstream_gene_variant,,ENST00000395004,;HMGA1,downstream_gene_variant,,ENST00000401473,;HMGA1,downstream_gene_variant,,ENST00000311487,;HMGA1,downstream_gene_variant,,ENST00000374116,;HMGA1,downstream_gene_variant,,ENST00000447654,;HMGA1,downstream_gene_variant,,ENST00000478214,;C6orf1,non_coding_transcript_exon_variant,,ENST00000463083,;C6orf1,downstream_gene_variant,,ENST00000495581,;	C	ENSG00000186577	ENST00000476320	Transcript	synonymous_variant	983	300	100	L	ctC/ctG	.	.	.	-1	C6orf1	HGNC	1340	protein_coding	YES	CCDS4790.1	ENSP00000417604	CF001_HUMAN	G8JLJ3_HUMAN	UPI00001618A4	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATGGAGACC	.	5	BLCA
SRPK1	0	.	GRCh37	6	35856666	35856666	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228C>T	p.%3D	p.F76F	ENST00000373825	4/16	148	90	58	84	84	0	SRPK1,synonymous_variant,p.%3D,ENST00000423325,;SRPK1,synonymous_variant,p.%3D,ENST00000512445,;SRPK1,synonymous_variant,p.%3D,ENST00000361690,;SRPK1,synonymous_variant,p.%3D,ENST00000373825,;SRPK1,5_prime_UTR_variant,,ENST00000373822,;SRPK1,intron_variant,,ENST00000510290,;SRPK1,downstream_gene_variant,,ENST00000507909,;SRPK1,non_coding_transcript_exon_variant,,ENST00000373821,;SRPK1,3_prime_UTR_variant,,ENST00000508473,;SRPK1,non_coding_transcript_exon_variant,,ENST00000346162,;SRPK1,non_coding_transcript_exon_variant,,ENST00000513367,;	A	ENSG00000096063	ENST00000373825	Transcript	synonymous_variant	514	228	76	F	ttC/ttT	.	.	.	-1	SRPK1	HGNC	11305	protein_coding	YES	CCDS47415.1	ENSP00000362931	SRPK1_HUMAN	D6RBF8_HUMAN	UPI000020DBDD	.	.	.	4/16	.	Superfamily_domains:SSF56112,Gene3D:3.30.200.20,hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF101	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGAATAG	.	5	BLCA
KCTD20	0	.	GRCh37	6	36455075	36455075	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*123C>G	.	.	ENST00000373731	8/8	38	23	15	14	14	0	KCTD20,3_prime_UTR_variant,,ENST00000544295,;KCTD20,3_prime_UTR_variant,,ENST00000449081,;KCTD20,3_prime_UTR_variant,,ENST00000536244,;KCTD20,3_prime_UTR_variant,,ENST00000373731,;KCTD20,non_coding_transcript_exon_variant,,ENST00000474988,;KCTD20,3_prime_UTR_variant,,ENST00000265344,;KCTD20,3_prime_UTR_variant,,ENST00000481911,;	G	ENSG00000112078	ENST00000373731	Transcript	3_prime_UTR_variant	1774	.	.	.	.	.	.	.	1	KCTD20	HGNC	21052	protein_coding	YES	CCDS4821.1	ENSP00000362836	KCD20_HUMAN	F5H3T3_HUMAN,C9JY11_HUMAN,C9J624_HUMAN,C9J5B3_HUMAN,B4DIP9_HUMAN	UPI00001AADF6	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCTGCCA	.	5	BLCA
TBC1D22B	0	.	GRCh37	6	37247217	37247217	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251C>G	p.Ser84Cys	p.S84C	ENST00000373491	3/13	167	105	61	87	87	0	TBC1D22B,missense_variant,p.Ser84Cys,ENST00000373491,;	G	ENSG00000065491	ENST00000373491	Transcript	missense_variant	397	251	84	S/C	tCt/tGt	.	.	.	1	TBC1D22B	HGNC	21602	protein_coding	YES	CCDS4832.1	ENSP00000362590	TB22B_HUMAN	Q6P4C3_HUMAN,A8KA28_HUMAN	UPI00001C121F	.	deleterious(0.01)	possibly_damaging(0.682)	3/13	.	hmmpanther:PTHR22957:SF239,hmmpanther:PTHR22957	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTTTCC	.	5	BLCA
OARD1	0	.	GRCh37	6	41036642	41036642	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294G>C	p.Lys98Asn	p.K98N	ENST00000479950	5/6	88	54	33	45	45	0	OARD1,missense_variant,p.Lys98Asn,ENST00000424266,;OARD1,missense_variant,p.Lys98Asn,ENST00000479950,;OARD1,missense_variant,p.Lys98Asn,ENST00000488238,;OARD1,missense_variant,p.Lys98Asn,ENST00000463088,;OARD1,missense_variant,p.Lys98Asn,ENST00000468811,;OARD1,missense_variant,p.Lys59Asn,ENST00000486443,;OARD1,intron_variant,,ENST00000482515,;OARD1,intron_variant,,ENST00000480585,;OARD1,intron_variant,,ENST00000373154,;OARD1,intron_variant,,ENST00000244558,;OARD1,intron_variant,,ENST00000464633,;APOBEC2,downstream_gene_variant,,ENST00000244669,;OARD1,downstream_gene_variant,,ENST00000469104,;NFYA,upstream_gene_variant,,ENST00000353205,;OARD1,downstream_gene_variant,,ENST00000471367,;NFYA,upstream_gene_variant,,ENST00000341376,;OARD1,downstream_gene_variant,,ENST00000467234,;OARD1,intron_variant,,ENST00000482853,;OARD1,downstream_gene_variant,,ENST00000465893,;	G	ENSG00000124596	ENST00000479950	Transcript	missense_variant	608	294	98	K/N	aaG/aaC	.	.	.	-1	OARD1	HGNC	21257	protein_coding	YES	CCDS34445.1	ENSP00000420484	OARD1_HUMAN	C9JXC3_HUMAN,C9JNE2_HUMAN	UPI000007355C	.	tolerated(0.23)	benign(0.212)	5/6	.	PROSITE_profiles:PS51154,hmmpanther:PTHR12521,Pfam_domain:PF01661,Gene3D:3.40.220.10,SMART_domains:SM00506,Superfamily_domains:SSF52949	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCTTCTG	.	5	BLCA
PPP2R5D	0	.	GRCh37	6	42975000	42975000	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589G>A	p.Glu197Lys	p.E197K	ENST00000485511	5/16	231	154	76	135	135	0	PPP2R5D,missense_variant,p.Glu91Lys,ENST00000461010,;PPP2R5D,missense_variant,p.Glu197Lys,ENST00000485511,;PPP2R5D,missense_variant,p.Glu165Lys,ENST00000394110,;PPP2R5D,missense_variant,p.Glu117Lys,ENST00000470467,;PPP2R5D,missense_variant,p.Glu189Lys,ENST00000472118,;PPP2R5D,upstream_gene_variant,,ENST00000486843,;MEA1,downstream_gene_variant,,ENST00000244711,;PPP2R5D,3_prime_UTR_variant,,ENST00000230402,;PPP2R5D,non_coding_transcript_exon_variant,,ENST00000467447,;PPP2R5D,upstream_gene_variant,,ENST00000482315,;	A	ENSG00000112640	ENST00000485511	Transcript	missense_variant	768	589	197	E/K	Gag/Aag	.	.	.	1	PPP2R5D	HGNC	9312	protein_coding	YES	CCDS4878.1	ENSP00000417963	2A5D_HUMAN	.	UPI0000124E92	.	deleterious(0)	probably_damaging(0.986)	5/16	.	hmmpanther:PTHR10257:SF14,hmmpanther:PTHR10257,Pfam_domain:PF01603,PIRSF_domain:PIRSF028043,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCAGAGGAA	.	5	BLCA
SENP6	0	.	GRCh37	6	76412774	76412774	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2702C>G	p.Ser901Cys	p.S901C	ENST00000447266	19/24	212	135	77	114	114	0	SENP6,missense_variant,p.Ser894Cys,ENST00000370010,;SENP6,missense_variant,p.Ser901Cys,ENST00000370014,;SENP6,missense_variant,p.Ser901Cys,ENST00000447266,;SENP6,intron_variant,,ENST00000541192,;SENP6,intron_variant,,ENST00000503501,;	G	ENSG00000112701	ENST00000447266	Transcript	missense_variant	3180	2702	901	S/C	tCc/tGc	.	.	.	1	SENP6	HGNC	20944	protein_coding	YES	CCDS47454.1	ENSP00000402527	SENP6_HUMAN	H0Y4F4_HUMAN	UPI0000141B65	.	deleterious(0.03)	possibly_damaging(0.681)	19/24	.	PROSITE_profiles:PS50600,hmmpanther:PTHR12438:SF14,hmmpanther:PTHR12438	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCCACAC	.	5	BLCA
IBTK	0	.	GRCh37	6	82924503	82924503	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1645G>C	p.Glu549Gln	p.E549Q	ENST00000306270	12/29	134	89	44	76	76	0	IBTK,missense_variant,p.Glu549Gln,ENST00000510291,;IBTK,missense_variant,p.Glu549Gln,ENST00000306270,;IBTK,intron_variant,,ENST00000503631,;RNU6-130P,upstream_gene_variant,,ENST00000411112,;IBTK,3_prime_UTR_variant,,ENST00000503400,;IBTK,non_coding_transcript_exon_variant,,ENST00000369751,;IBTK,intron_variant,,ENST00000505222,;	G	ENSG00000005700	ENST00000306270	Transcript	missense_variant	2195	1645	549	E/Q	Gag/Cag	.	.	.	-1	IBTK	HGNC	17853	protein_coding	YES	CCDS34490.1	ENSP00000305721	IBTK_HUMAN	.	UPI000041929F	.	tolerated(0.31)	benign(0.011)	12/29	.	hmmpanther:PTHR22872,hmmpanther:PTHR22872:SF2,Gene3D:3.30.710.10,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCTTCAA	.	5	BLCA
TPBG	0	.	GRCh37	6	83074928	83074928	+	Missense_Mutation	SNP	G	G	A	rs201739068	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Glu84Lys	p.E84K	ENST00000369750	2/2	50	27	23	14	14	0	TPBG,missense_variant,p.Glu84Lys,ENST00000369750,;TPBG,missense_variant,p.Glu84Lys,ENST00000535040,;TPBG,missense_variant,p.Glu84Lys,ENST00000543496,;	A	ENSG00000146242	ENST00000369750	Transcript	missense_variant	867	250	84	E/K	Gag/Aag	rs201739068	.	.	1	TPBG	HGNC	12004	protein_coding	YES	CCDS4995.1	ENSP00000358765	TPBG_HUMAN	A8K555_HUMAN	UPI000004CAD5	.	tolerated(0.59)	benign(0.021)	2/2	.	hmmpanther:PTHR24364,Gene3D:3.80.10.10,Pfam_domain:PF01462,SMART_domains:SM00013,Superfamily_domains:SSF52058	C:0.0002	C:0	C:0	.	C:0	C:0.001	C:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACCGAGGTG	byCluster|by1000G	5	BLCA
DOPEY1	0	.	GRCh37	6	83843985	83843985	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2849C>T	p.Ser950Phe	p.S950F	ENST00000349129	19/39	76	49	26	46	46	0	DOPEY1,missense_variant,p.Ser931Phe,ENST00000237163,;DOPEY1,missense_variant,p.Ser941Phe,ENST00000369739,;DOPEY1,missense_variant,p.Ser950Phe,ENST00000349129,;DOPEY1,upstream_gene_variant,,ENST00000484282,;DOPEY1,non_coding_transcript_exon_variant,,ENST00000493541,;	T	ENSG00000083097	ENST00000349129	Transcript	missense_variant	3109	2849	950	S/F	tCt/tTt	.	.	.	1	DOPEY1	HGNC	21194	protein_coding	YES	CCDS4996.1	ENSP00000195654	DOP1_HUMAN	.	UPI00001C1574	.	deleterious(0.03)	benign(0.005)	19/39	.	hmmpanther:PTHR14042:SF22,hmmpanther:PTHR14042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCTTTTG	.	5	BLCA
MANEA	0	.	GRCh37	6	96034700	96034700	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.385G>C	p.Glu129Gln	p.E129Q	ENST00000358812	2/5	191	121	70	104	104	0	MANEA,missense_variant,p.Glu129Gln,ENST00000369293,;MANEA,missense_variant,p.Glu129Gln,ENST00000358812,;MANEA,upstream_gene_variant,,ENST00000474553,;	C	ENSG00000172469	ENST00000358812	Transcript	missense_variant	519	385	129	E/Q	Gag/Cag	.	.	.	1	MANEA	HGNC	21072	protein_coding	YES	CCDS5032.1	ENSP00000351669	MANEA_HUMAN	.	UPI000020DF99	.	deleterious(0.01)	benign(0.01)	2/5	.	hmmpanther:PTHR13572:SF1,hmmpanther:PTHR13572	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTAGAGCAT	.	5	BLCA
MUC3A	0	.	GRCh37	7	100608667	100608667	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2108-62C>G	.	.	ENST00000319509	.	72	55	16	30	30	0	MUC3A,intron_variant,,ENST00000422757,;MUC3A,intron_variant,,ENST00000319509,;MUC12,upstream_gene_variant,,ENST00000536621,;MUC12,upstream_gene_variant,,ENST00000379442,;RP11-395B7.2,non_coding_transcript_exon_variant,,ENST00000420080,;RP11-395B7.2,upstream_gene_variant,,ENST00000434775,;RP11-395B7.2,non_coding_transcript_exon_variant,,ENST00000438198,;MUC3A,intron_variant,,ENST00000483133,;MUC3A,intron_variant,,ENST00000414964,;MUC3A,upstream_gene_variant,,ENST00000480291,;	G	ENSG00000169894	ENST00000319509	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MUC3A	HGNC	7513	protein_coding	YES	.	ENSP00000324834	.	J3QST7_HUMAN,I0CMK2_HUMAN,H9XFA8_HUMAN	UPI000198CE7F	.	.	.	.	6/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATCAGGCC	.	5	BLCA
ZNHIT1	0	.	GRCh37	7	100866959	100866959	+	Missense_Mutation	SNP	G	G	C	rs781447148	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279G>C	p.Leu93Phe	p.L93F	ENST00000305105	4/5	144	96	47	88	88	0	ZNHIT1,missense_variant,p.Leu93Phe,ENST00000305105,;ZNHIT1,non_coding_transcript_exon_variant,,ENST00000461205,;ZNHIT1,non_coding_transcript_exon_variant,,ENST00000492315,;ZNHIT1,non_coding_transcript_exon_variant,,ENST00000485387,;	C	ENSG00000106400	ENST00000305105	Transcript	missense_variant	807	279	93	L/F	ttG/ttC	rs781447148	.	.	1	ZNHIT1	HGNC	21688	protein_coding	YES	CCDS5716.1	ENSP00000304593	ZNHI1_HUMAN	.	UPI0000073C91	.	tolerated(0.66)	possibly_damaging(0.68)	4/5	.	hmmpanther:PTHR13093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACTTGAGTGT	.	3	BLCA
ZNHIT1	0	.	GRCh37	7	100866969	100866969	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289G>A	p.Glu97Lys	p.E97K	ENST00000305105	4/5	144	97	47	82	82	0	ZNHIT1,missense_variant,p.Glu97Lys,ENST00000305105,;ZNHIT1,non_coding_transcript_exon_variant,,ENST00000461205,;ZNHIT1,non_coding_transcript_exon_variant,,ENST00000492315,;ZNHIT1,non_coding_transcript_exon_variant,,ENST00000485387,;	A	ENSG00000106400	ENST00000305105	Transcript	missense_variant	817	289	97	E/K	Gag/Aag	.	.	.	1	ZNHIT1	HGNC	21688	protein_coding	YES	CCDS5716.1	ENSP00000304593	ZNHI1_HUMAN	.	UPI0000073C91	.	tolerated(0.36)	benign(0.001)	4/5	.	hmmpanther:PTHR13093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGCCGAGGGC	.	3	BLCA
KMT2E	0	.	GRCh37	7	104750987	104750987	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3908C>G	p.Ser1303Ter	p.S1303*	ENST00000311117	25/27	175	110	64	89	89	0	KMT2E,stop_gained,p.Ser358Ter,ENST00000334914,;KMT2E,stop_gained,p.Ser1303Ter,ENST00000257745,;KMT2E,stop_gained,p.Ser1303Ter,ENST00000311117,;KMT2E,intron_variant,,ENST00000473063,;KMT2E,intron_variant,,ENST00000334877,;SRPK2,downstream_gene_variant,,ENST00000493638,;KMT2E,3_prime_UTR_variant,,ENST00000478079,;KMT2E,3_prime_UTR_variant,,ENST00000334884,;SRPK2,downstream_gene_variant,,ENST00000465072,;	G	ENSG00000005483	ENST00000311117	Transcript	stop_gained	4453	3908	1303	S/*	tCa/tGa	.	.	.	1	KMT2E	HGNC	18541	protein_coding	YES	CCDS34723.1	ENSP00000312379	KMT2E_HUMAN	O95038_HUMAN,C9JQ68_HUMAN,C9JNE1_HUMAN	UPI0000074133	.	.	.	25/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16286,hmmpanther:PTHR16286:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCAAATC	.	5	BLCA
HBP1	0	.	GRCh37	7	106841924	106841924	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*48C>G	.	.	ENST00000222574	11/11	84	51	32	31	31	0	HBP1,3_prime_UTR_variant,,ENST00000468410,;HBP1,3_prime_UTR_variant,,ENST00000222574,;HBP1,3_prime_UTR_variant,,ENST00000485846,;COG5,downstream_gene_variant,,ENST00000347053,;HBP1,downstream_gene_variant,,ENST00000607681,;COG5,downstream_gene_variant,,ENST00000297135,;HBP1,downstream_gene_variant,,ENST00000498408,;HBP1,downstream_gene_variant,,ENST00000461963,;HBP1,downstream_gene_variant,,ENST00000463202,;HBP1,downstream_gene_variant,,ENST00000463790,;	G	ENSG00000105856	ENST00000222574	Transcript	3_prime_UTR_variant	1779	.	.	.	.	.	.	.	1	HBP1	HGNC	23200	protein_coding	YES	CCDS5741.1	ENSP00000222574	HBP1_HUMAN	H7C4S2_HUMAN,C9JQU7_HUMAN,C9JPK6_HUMAN,C9JAW1_HUMAN,C9J8V6_HUMAN,C9J5U3_HUMAN,B4DJ36_HUMAN	UPI000006DC04	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCTTGAT	.	5	BLCA
NRCAM	0	.	GRCh37	7	107880462	107880462	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.47G>A	p.Arg16Lys	p.R16K	ENST00000379028	4/33	166	112	53	78	78	0	NRCAM,missense_variant,p.Arg16Lys,ENST00000379022,;NRCAM,missense_variant,p.Arg16Lys,ENST00000351718,;NRCAM,missense_variant,p.Arg16Lys,ENST00000417701,;NRCAM,missense_variant,p.Arg16Lys,ENST00000418239,;NRCAM,missense_variant,p.Arg16Lys,ENST00000419936,;NRCAM,missense_variant,p.Arg16Lys,ENST00000413765,;NRCAM,missense_variant,p.Arg16Lys,ENST00000456431,;NRCAM,missense_variant,p.Arg16Lys,ENST00000379024,;NRCAM,missense_variant,p.Arg16Lys,ENST00000379028,;NRCAM,missense_variant,p.Arg16Lys,ENST00000425651,;NRCAM,missense_variant,p.Arg16Lys,ENST00000442580,;	T	ENSG00000091129	ENST00000379028	Transcript	missense_variant	518	47	16	R/K	aGa/aAa	COSM3255573,COSM3255574,COSM3255572	.	.	-1	NRCAM	HGNC	7994	protein_coding	YES	CCDS47686.1	ENSP00000368314	NRCAM_HUMAN	C9JUR7_HUMAN,C9JF43_HUMAN,B3KRX0_HUMAN	UPI00005E2661	.	tolerated(1)	benign(0.04)	4/33	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCTGCCC	.	5	BLCA
PPP1R3A	0	.	GRCh37	7	113518601	113518601	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2546C>A	p.Ser849Ter	p.S849*	ENST00000284601	4/4	191	115	75	101	101	0	PPP1R3A,stop_gained,p.Ser849Ter,ENST00000284601,;PPP1R3A,downstream_gene_variant,,ENST00000449795,;PPP1R3A,downstream_gene_variant,,ENST00000284602,;	T	ENSG00000154415	ENST00000284601	Transcript	stop_gained	2615	2546	849	S/*	tCa/tAa	.	.	.	-1	PPP1R3A	HGNC	9291	protein_coding	YES	CCDS5759.1	ENSP00000284601	PPR3A_HUMAN	C9JZB3_HUMAN	UPI000013DDAA	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATGAGGAT	.	5	BLCA
CFTR	0	.	GRCh37	7	117282538	117282538	+	Missense_Mutation	SNP	C	C	T	rs76649725	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3764C>T	p.Ser1255Leu	p.S1255L	ENST00000003084	23/27	115	77	37	71	71	0	CFTR,missense_variant,p.Ser1225Leu,ENST00000426809,;CFTR,missense_variant,p.Ser1194Leu,ENST00000454343,;CFTR,missense_variant,p.Ser1255Leu,ENST00000003084,;AC000111.6,intron_variant,,ENST00000456270,;	T	ENSG00000001626	ENST00000003084	Transcript	missense_variant	3896	3764	1255	S/L	tCa/tTa	CM920186,CM980356,rs76649725,COSM598553	.	.	1	CFTR	HGNC	1884	protein_coding	YES	CCDS5773.1	ENSP00000003084	CFTR_HUMAN	Q9UML7_HUMAN,Q9UJ19_HUMAN,Q99989_HUMAN,Q6KEJ7_HUMAN,Q6KEJ4_HUMAN,Q6KEJ1_HUMAN,Q6KEI8_HUMAN,Q6KEI7_HUMAN,Q6KEI2_HUMAN,Q6KEH8_HUMAN,Q6KEH6_HUMAN,Q6KEH3_HUMAN,Q6KEG9_HUMAN,Q6KEG6_HUMAN,Q6KEG3_HUMAN,Q6KEF9_HUMAN,Q6KEF5_HUMAN,Q6KEE7_HUMAN,Q6KEE3_HUMAN,Q6KED8_HUMAN,Q6KED3_HUMAN,Q6KEC8_HUMAN,Q6KEC3_HUMAN,Q6KEB8_HUMAN,Q6KEB2_HUMAN,Q6KEA5_HUMAN,Q6KEA0_HUMAN,Q6KE95_HUMAN,Q5I6N7_HUMAN,Q5I6N6_HUMAN,Q5I6N5_HUMAN,Q5I6N4_HUMAN,Q5I6F9_HUMAN,C9J6L5_HUMAN,A4L9V0_HUMAN	UPI000013C4D4	.	tolerated(1)	benign(0.001)	23/27	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24223:SF19,hmmpanther:PTHR24223,Gene3D:3.40.50.300,Pfam_domain:PF00005,TIGRFAM_domain:TIGR01271,SMART_domains:SM00382,Superfamily_domains:SSF52540	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	not_provided,pathogenic	0,0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTATCAGCTT	byCluster|by1000G	5	BLCA
KDM7A	0	.	GRCh37	7	139801781	139801781	+	Silent	SNP	G	G	C	rs749949118	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1608C>G	p.%3D	p.L536L	ENST00000397560	12/20	259	182	76	148	148	0	KDM7A,synonymous_variant,p.%3D,ENST00000006967,;KDM7A,synonymous_variant,p.%3D,ENST00000397560,;KDM7A,synonymous_variant,p.%3D,ENST00000472616,;	C	ENSG00000006459	ENST00000397560	Transcript	synonymous_variant	1706	1608	536	L	ctC/ctG	rs749949118	.	.	-1	KDM7A	HGNC	22224	protein_coding	YES	CCDS43658.1	ENSP00000380692	KDM7_HUMAN	.	UPI000045761B	.	.	.	12/20	.	hmmpanther:PTHR23123,hmmpanther:PTHR23123:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTTTGAGGAC	byFrequency	3	BLCA
SSPO	0	.	GRCh37	7	149508800	149508800	+	RNA	SNP	C	C	T	rs767860297	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.9539C>T	.	.	ENST00000378016	67/109	132	86	46	66	66	0	SSPO,non_coding_transcript_exon_variant,,ENST00000378016,;SSPO,non_coding_transcript_exon_variant,,ENST00000481772,;SSPO,upstream_gene_variant,,ENST00000478854,;	T	ENSG00000197558	ENST00000378016	Transcript	non_coding_transcript_exon_variant	9539	.	.	.	.	rs767860297	.	.	1	SSPO	HGNC	21998	processed_transcript	YES	.	.	.	.	.	.	.	.	67/109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTGCGGAGG	.	5	BLCA
AHR	0	.	GRCh37	7	17378759	17378759	+	Missense_Mutation	SNP	G	G	C	rs138430398	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1310G>C	p.Gly437Ala	p.G437A	ENST00000242057	10/11	146	96	50	70	70	0	AHR,missense_variant,p.Gly437Ala,ENST00000242057,;AHR,non_coding_transcript_exon_variant,,ENST00000492120,;AHR,downstream_gene_variant,,ENST00000481944,;AHR,missense_variant,p.Gly437Ala,ENST00000463496,;	C	ENSG00000106546	ENST00000242057	Transcript	missense_variant	1953	1310	437	G/A	gGa/gCa	rs138430398,COSM421513	.	.	1	AHR	HGNC	348	protein_coding	YES	CCDS5366.1	ENSP00000242057	AHR_HUMAN	.	UPI0000125727	.	tolerated(0.5)	benign(0.003)	10/11	.	hmmpanther:PTHR10649:SF11,hmmpanther:PTHR10649	C:0.0002	C:0	C:0	.	C:0	C:0.001	C:0	C:0.0002	C:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTGGAAAAG	byCluster|by1000G	5	BLCA
AHR	0	.	GRCh37	7	17378976	17378976	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1527G>A	p.%3D	p.L509L	ENST00000242057	10/11	160	112	48	87	87	0	AHR,synonymous_variant,p.%3D,ENST00000242057,;AHR,non_coding_transcript_exon_variant,,ENST00000492120,;AHR,downstream_gene_variant,,ENST00000481944,;AHR,synonymous_variant,p.%3D,ENST00000463496,;	A	ENSG00000106546	ENST00000242057	Transcript	synonymous_variant	2170	1527	509	L	ctG/ctA	.	.	.	1	AHR	HGNC	348	protein_coding	YES	CCDS5366.1	ENSP00000242057	AHR_HUMAN	.	UPI0000125727	.	.	.	10/11	.	hmmpanther:PTHR10649:SF11,hmmpanther:PTHR10649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCCTGAAACA	.	3	BLCA
AHR	0	.	GRCh37	7	17378992	17378992	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1543G>T	p.Asp515Tyr	p.D515Y	ENST00000242057	10/11	156	111	45	98	98	0	AHR,missense_variant,p.Asp515Tyr,ENST00000242057,;AHR,non_coding_transcript_exon_variant,,ENST00000492120,;AHR,downstream_gene_variant,,ENST00000481944,;AHR,missense_variant,p.Asp515Tyr,ENST00000463496,;	T	ENSG00000106546	ENST00000242057	Transcript	missense_variant	2186	1543	515	D/Y	Gac/Tac	.	.	.	1	AHR	HGNC	348	protein_coding	YES	CCDS5366.1	ENSP00000242057	AHR_HUMAN	.	UPI0000125727	.	deleterious(0.02)	benign(0.243)	10/11	.	hmmpanther:PTHR10649:SF11,hmmpanther:PTHR10649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAATTGACCAG	.	3	BLCA
AHR	0	.	GRCh37	7	17379517	17379517	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2068G>A	p.Glu690Lys	p.E690K	ENST00000242057	10/11	165	104	60	85	85	0	AHR,missense_variant,p.Glu690Lys,ENST00000242057,;AHR,downstream_gene_variant,,ENST00000492120,;AHR,downstream_gene_variant,,ENST00000481944,;AHR,missense_variant,p.Glu690Lys,ENST00000463496,;	A	ENSG00000106546	ENST00000242057	Transcript	missense_variant	2711	2068	690	E/K	Gaa/Aaa	.	.	.	1	AHR	HGNC	348	protein_coding	YES	CCDS5366.1	ENSP00000242057	AHR_HUMAN	.	UPI0000125727	.	deleterious_low_confidence(0)	possibly_damaging(0.721)	10/11	.	hmmpanther:PTHR10649:SF11,hmmpanther:PTHR10649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTGAAATG	.	5	BLCA
IL6	0	.	GRCh37	7	22769210	22769210	+	Missense_Mutation	SNP	G	G	C	rs759359627	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.402G>C	p.Glu134Asp	p.E134D	ENST00000404625	5/6	134	75	59	72	72	0	IL6,missense_variant,p.Glu111Asp,ENST00000401630,;IL6,missense_variant,p.Glu188Asp,ENST00000420258,;IL6,missense_variant,p.Glu134Asp,ENST00000258743,;IL6,missense_variant,p.Glu58Asp,ENST00000401651,;IL6,missense_variant,p.Glu134Asp,ENST00000426291,;IL6,missense_variant,p.Glu134Asp,ENST00000406575,;IL6,missense_variant,p.Glu134Asp,ENST00000404625,;IL6,missense_variant,p.Glu58Asp,ENST00000407492,;AC073072.5,upstream_gene_variant,,ENST00000325042,;IL6,non_coding_transcript_exon_variant,,ENST00000485300,;IL6,non_coding_transcript_exon_variant,,ENST00000464710,;	C	ENSG00000136244	ENST00000404625	Transcript	missense_variant	861	402	134	E/D	gaG/gaC	rs759359627	.	.	1	IL6	HGNC	6018	protein_coding	YES	CCDS5375.1	ENSP00000385675	IL6_HUMAN	Q75MH2_HUMAN,H9C875_HUMAN,C9J5B0_HUMAN,B5MC21_HUMAN	UPI000002C4A6	.	tolerated(0.39)	benign(0.051)	5/6	.	Superfamily_domains:SSF47266,SMART_domains:SM00126,PIRSF_domain:PIRSF001935,Pfam_domain:PF00489,Gene3D:1.20.1250.10,hmmpanther:PTHR11457:SF0,hmmpanther:PTHR11457	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGAGAGTAG	byFrequency	5	BLCA
OSBPL3	0	.	GRCh37	7	24901270	24901270	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.989C>T	p.Ser330Phe	p.S330F	ENST00000313367	10/23	245	154	91	122	122	0	OSBPL3,missense_variant,p.Ser299Phe,ENST00000431825,;OSBPL3,missense_variant,p.Ser330Phe,ENST00000396429,;OSBPL3,missense_variant,p.Ser299Phe,ENST00000352860,;OSBPL3,missense_variant,p.Ser299Phe,ENST00000409069,;OSBPL3,missense_variant,p.Ser330Phe,ENST00000353930,;OSBPL3,missense_variant,p.Ser330Phe,ENST00000313367,;OSBPL3,missense_variant,p.Ser299Phe,ENST00000396431,;OSBPL3,missense_variant,p.Ser299Phe,ENST00000409555,;OSBPL3,missense_variant,p.Ser330Phe,ENST00000409452,;OSBPL3,missense_variant,p.Ser299Phe,ENST00000409863,;OSBPL3,missense_variant,p.Ser330Phe,ENST00000409759,;	A	ENSG00000070882	ENST00000313367	Transcript	missense_variant	1441	989	330	S/F	tCt/tTt	.	.	.	-1	OSBPL3	HGNC	16370	protein_coding	YES	CCDS5390.1	ENSP00000315410	OSBL3_HUMAN	C9JZ19_HUMAN,C9JEF2_HUMAN,C9J8P4_HUMAN	UPI0000001244	.	deleterious(0.01)	possibly_damaging(0.62)	10/23	.	hmmpanther:PTHR10972,hmmpanther:PTHR10972:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTAGAAAAC	.	5	BLCA
GNA12	0	.	GRCh37	7	2883515	2883515	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.281G>A	p.Arg94His	p.R94H	ENST00000275364	1/4	17	10	7	11	11	0	GNA12,missense_variant,p.Arg94His,ENST00000275364,;GNA12,missense_variant,p.Arg18His,ENST00000544127,;	T	ENSG00000146535	ENST00000275364	Transcript	missense_variant	444	281	94	R/H	cGc/cAc	.	.	.	-1	GNA12	HGNC	4380	protein_coding	YES	CCDS5335.1	ENSP00000275364	GNA12_HUMAN	.	UPI000013DA5B	.	deleterious(0.04)	probably_damaging(0.959)	1/4	.	Prints_domain:PR00440,Superfamily_domains:SSF47895,SMART_domains:SM00275,Gene3D:1.10.400.10,Pfam_domain:PF00503,hmmpanther:PTHR10218:SF130,hmmpanther:PTHR10218	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCGCGGAAC	.	5	BLCA
PLEKHA8	0	.	GRCh37	7	30087528	30087528	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394G>C	p.Asp132His	p.D132H	ENST00000449726	4/14	173	100	73	97	97	0	PLEKHA8,missense_variant,p.Asp132His,ENST00000258679,;PLEKHA8,missense_variant,p.Asp132His,ENST00000396257,;PLEKHA8,missense_variant,p.Asp158His,ENST00000440706,;PLEKHA8,missense_variant,p.Asp132His,ENST00000396259,;PLEKHA8,missense_variant,p.Asp132His,ENST00000449726,;PLEKHA8,non_coding_transcript_exon_variant,,ENST00000483799,;PLEKHA8,non_coding_transcript_exon_variant,,ENST00000498106,;	C	ENSG00000106086	ENST00000449726	Transcript	missense_variant	744	394	132	D/H	Gat/Cat	COSM1739316,COSM1739315	.	.	1	PLEKHA8	HGNC	30037	protein_coding	YES	CCDS56473.1	ENSP00000397947	PKHA8_HUMAN	.	UPI000020ECE0	.	tolerated(0.81)	benign(0.003)	4/14	.	hmmpanther:PTHR10219,hmmpanther:PTHR10219:SF16	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTAGATAAA	.	5	BLCA
GARS	0	.	GRCh37	7	30649204	30649204	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739G>C	p.Asp247His	p.D247H	ENST00000389266	7/17	317	210	107	197	197	0	GARS,missense_variant,p.Asp247His,ENST00000389266,;GARS,non_coding_transcript_exon_variant,,ENST00000478124,;GARS,upstream_gene_variant,,ENST00000484093,;	C	ENSG00000106105	ENST00000389266	Transcript	missense_variant	980	739	247	D/H	Gat/Cat	.	.	.	1	GARS	HGNC	4162	protein_coding	YES	CCDS43564.1	ENSP00000373918	SYG_HUMAN	Q75MN1_HUMAN	UPI00005A885C	.	deleterious(0)	possibly_damaging(0.846)	7/17	.	Superfamily_domains:SSF55681,TIGRFAM_domain:TIGR00389,Pfam_domain:PF00587,hmmpanther:PTHR10745,hmmpanther:PTHR10745:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTGATAAC	.	5	BLCA
AP5Z1	0	.	GRCh37	7	4823978	4823978	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.766G>A	p.Glu256Lys	p.E256K	ENST00000348624	6/17	30	19	11	10	10	0	AP5Z1,missense_variant,p.Glu256Lys,ENST00000348624,;AP5Z1,missense_variant,p.Glu256Lys,ENST00000401897,;MIR4656,downstream_gene_variant,,ENST00000579503,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000477680,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000496303,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000491375,;AP5Z1,upstream_gene_variant,,ENST00000477454,;AP5Z1,upstream_gene_variant,,ENST00000469614,;	A	ENSG00000242802	ENST00000348624	Transcript	missense_variant	860	766	256	E/K	Gag/Aag	.	.	.	1	AP5Z1	HGNC	22197	protein_coding	YES	CCDS47528.1	ENSP00000297562	AP5Z1_HUMAN	A4D1Z4_HUMAN	UPI00003E5903	.	tolerated(0.77)	benign(0.005)	6/17	.	hmmpanther:PTHR12181:SF29,hmmpanther:PTHR12181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S964S|c.2892C>T|4,BUFFER|p.S97S|c.291C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCCGAGGGC	.	5	BLCA
COBL	0	.	GRCh37	7	51098524	51098524	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489G>A	p.Asp497Asn	p.D497N	ENST00000265136	9/13	208	147	61	93	93	0	COBL,missense_variant,p.Asp473Asn,ENST00000452534,;COBL,missense_variant,p.Asp382Asn,ENST00000431948,;COBL,missense_variant,p.Asp497Asn,ENST00000265136,;COBL,missense_variant,p.Asp579Asn,ENST00000395542,;COBL,missense_variant,p.Asp389Asn,ENST00000445054,;COBL,non_coding_transcript_exon_variant,,ENST00000462395,;	T	ENSG00000106078	ENST00000265136	Transcript	missense_variant	1655	1489	497	D/N	Gat/Aat	.	.	.	-1	COBL	HGNC	22199	protein_coding	YES	CCDS34637.1	ENSP00000265136	COBL_HUMAN	C9J9X1_HUMAN	UPI00001A9480	.	deleterious(0.01)	possibly_damaging(0.894)	9/13	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21557,hmmpanther:PTHR21557:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCAAGTT	.	5	BLCA
POM121L12	0	.	GRCh37	7	53103863	53103863	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499C>T	p.Gln167Ter	p.Q167*	ENST00000408890	1/1	37	18	18	16	16	0	POM121L12,stop_gained,p.Gln167Ter,ENST00000408890,;	T	ENSG00000221900	ENST00000408890	Transcript	stop_gained	515	499	167	Q/*	Cag/Tag	.	.	.	1	POM121L12	HGNC	25369	protein_coding	YES	CCDS43584.1	ENSP00000386133	P1L12_HUMAN	.	UPI00001B6540	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23193,hmmpanther:PTHR23193:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A166T|c.496G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCCCAGGAG	.	5	BLCA
SLC29A4	0	.	GRCh37	7	5336708	5336708	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.761G>A	p.Arg254His	p.R254H	ENST00000396872	7/11	92	63	28	45	45	0	SLC29A4,missense_variant,p.Arg254His,ENST00000297195,;SLC29A4,missense_variant,p.Arg254His,ENST00000396872,;SLC29A4,missense_variant,p.Arg240His,ENST00000406453,;SLC29A4,upstream_gene_variant,,ENST00000439491,;	A	ENSG00000164638	ENST00000396872	Transcript	missense_variant	922	761	254	R/H	cGc/cAc	.	.	.	1	SLC29A4	HGNC	23097	protein_coding	YES	CCDS5340.1	ENSP00000380081	S29A4_HUMAN	C9IYM7_HUMAN	UPI0000051F6F	.	tolerated(0.11)	benign(0.048)	7/11	.	hmmpanther:PTHR10332:SF4,hmmpanther:PTHR10332,Pfam_domain:PF01733,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGCGCAGCC	.	5	BLCA
FBXL18	0	.	GRCh37	7	5529058	5529058	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2000+1804C>G	.	.	ENST00000382368	.	98	60	38	52	52	0	FBXL18,3_prime_UTR_variant,,ENST00000453700,;FBXL18,3_prime_UTR_variant,,ENST00000458142,;FBXL18,intron_variant,,ENST00000382368,;snoU13,downstream_gene_variant,,ENST00000458839,;FBXL18,intron_variant,,ENST00000415009,;	C	ENSG00000155034	ENST00000382368	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FBXL18	HGNC	21874	protein_coding	YES	CCDS43546.1	ENSP00000371805	FXL18_HUMAN	.	UPI000020EA59	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCAGGAGTTA	.	2	BLCA
FSCN1	0	.	GRCh37	7	5642908	5642908	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853C>G	p.Gln285Glu	p.Q285E	ENST00000382361	2/5	103	65	38	43	43	0	FSCN1,missense_variant,p.Gln285Glu,ENST00000382361,;FSCN1,missense_variant,p.Gln7Glu,ENST00000447103,;FSCN1,missense_variant,p.Gln7Glu,ENST00000444748,;FSCN1,missense_variant,p.Gln7Glu,ENST00000405801,;FSCN1,missense_variant,p.Gln264Glu,ENST00000340250,;FSCN1,non_coding_transcript_exon_variant,,ENST00000473330,;	G	ENSG00000075618	ENST00000382361	Transcript	missense_variant	967	853	285	Q/E	Cag/Gag	.	.	.	1	FSCN1	HGNC	11148	protein_coding	YES	CCDS5342.1	ENSP00000371798	FSCN1_HUMAN	Q96IH1_HUMAN,H7BYX5_HUMAN,C9JPH9_HUMAN,C9JFC0_HUMAN,B3KTM9_HUMAN	UPI000003F063	.	deleterious(0)	probably_damaging(0.994)	2/5	.	hmmpanther:PTHR10551,hmmpanther:PTHR10551:SF8,Gene3D:2.80.10.50,Pfam_domain:PF06268,PIRSF_domain:PIRSF005682,Superfamily_domains:SSF50405	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATCAGGAC	.	5	BLCA
PMS2CL	0	.	GRCh37	7	6777425	6777425	+	RNA	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.804C>G	.	.	ENST00000403974	2/6	128	77	50	45	45	0	PMS2CL,non_coding_transcript_exon_variant,,ENST00000431453,;PMS2CL,non_coding_transcript_exon_variant,,ENST00000486256,;PMS2CL,non_coding_transcript_exon_variant,,ENST00000403974,;	G	ENSG00000187953	ENST00000403974	Transcript	non_coding_transcript_exon_variant	804	.	.	.	.	.	.	.	1	PMS2CL	HGNC	30061	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTTCTGAGT	.	5	BLCA
CACNA2D1	0	.	GRCh37	7	81589093	81589093	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3019G>A	p.Glu1007Lys	p.E1007K	ENST00000356860	37/39	89	64	24	47	47	0	CACNA2D1,missense_variant,p.Glu1019Lys,ENST00000356253,;CACNA2D1,missense_variant,p.Glu1007Lys,ENST00000356860,;CACNA2D1,missense_variant,p.Glu219Lys,ENST00000535308,;CACNA2D1,downstream_gene_variant,,ENST00000469297,;	T	ENSG00000153956	ENST00000356860	Transcript	missense_variant	3358	3019	1007	E/K	Gag/Aag	.	.	.	-1	CACNA2D1	HGNC	1399	protein_coding	YES	CCDS5598.1	ENSP00000349320	CA2D1_HUMAN	Q9UDU5_HUMAN,Q9UDQ3_HUMAN,Q9UDL7_HUMAN,O95026_HUMAN	UPI00003674CD	.	deleterious(0.01)	benign(0.108)	37/39	.	hmmpanther:PTHR10166,hmmpanther:PTHR10166:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCAACCA	.	5	BLCA
STEAP4	0	.	GRCh37	7	87912158	87912158	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.782C>T	p.Pro261Leu	p.P261L	ENST00000380079	3/5	124	74	50	74	74	0	STEAP4,missense_variant,p.Pro261Leu,ENST00000380079,;STEAP4,missense_variant,p.Pro261Leu,ENST00000414498,;STEAP4,intron_variant,,ENST00000301959,;AC003991.3,non_coding_transcript_exon_variant,,ENST00000600908,;AC003991.3,intron_variant,,ENST00000595121,;AC003991.3,intron_variant,,ENST00000434733,;AC003991.3,intron_variant,,ENST00000447758,;	A	ENSG00000127954	ENST00000380079	Transcript	missense_variant	884	782	261	P/L	cCt/cTt	.	.	.	-1	STEAP4	HGNC	21923	protein_coding	YES	CCDS43611.1	ENSP00000369419	STEA4_HUMAN	.	UPI000003C39A	.	deleterious(0)	probably_damaging(0.999)	3/5	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14239,hmmpanther:PTHR14239:SF5,Pfam_domain:PF01794	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCAGGGAGG	.	5	BLCA
AKAP9	0	.	GRCh37	7	91667747	91667747	+	Missense_Mutation	SNP	G	G	C	rs535420032	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4353G>C	p.Met1451Ile	p.M1451I	ENST00000356239	17/50	70	49	21	37	37	0	AKAP9,missense_variant,p.Met1451Ile,ENST00000356239,;AKAP9,missense_variant,p.Met1463Ile,ENST00000359028,;AKAP9,missense_variant,p.Met1463Ile,ENST00000358100,;AKAP9,non_coding_transcript_exon_variant,,ENST00000493453,;AKAP9,upstream_gene_variant,,ENST00000484815,;	C	ENSG00000127914	ENST00000356239	Transcript	missense_variant	4586	4353	1451	M/I	atG/atC	rs535420032	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.993)	17/50	.	hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAATGAGTAT	by1000G	2	BLCA
ANKIB1	0	.	GRCh37	7	91972508	91972508	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.958G>A	p.Glu320Lys	p.E320K	ENST00000265742	6/20	63	43	20	40	40	0	ANKIB1,missense_variant,p.Glu320Lys,ENST00000265742,;ANKIB1,missense_variant,p.Glu20Lys,ENST00000413588,;ANKIB1,downstream_gene_variant,,ENST00000439883,;	A	ENSG00000001629	ENST00000265742	Transcript	missense_variant	1334	958	320	E/K	Gaa/Aaa	.	.	.	1	ANKIB1	HGNC	22215	protein_coding	YES	CCDS47639.1	ENSP00000265742	AKIB1_HUMAN	Q4VBX8_HUMAN,C9JZ63_HUMAN	UPI00001C1E7C	.	tolerated(0.16)	benign(0.021)	6/20	.	hmmpanther:PTHR11685:SF95,hmmpanther:PTHR11685	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATGAAATC	.	5	BLCA
CALCR	0	.	GRCh37	7	93063567	93063567	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1291G>C	p.Glu431Gln	p.E431Q	ENST00000359558	15/16	135	79	56	58	58	0	CALCR,missense_variant,p.Glu413Gln,ENST00000421592,;CALCR,missense_variant,p.Glu397Gln,ENST00000426151,;CALCR,missense_variant,p.Glu397Gln,ENST00000394441,;CALCR,missense_variant,p.Glu431Gln,ENST00000359558,;CALCR,missense_variant,p.Glu413Gln,ENST00000360249,;CALCR,splice_region_variant,,ENST00000415529,;CALCR,splice_region_variant,,ENST00000423724,;	G	ENSG00000004948	ENST00000359558	Transcript	missense_variant	1591	1291	431	E/Q	Gag/Cag	.	.	.	-1	CALCR	HGNC	1440	protein_coding	YES	CCDS55125.1	ENSP00000352561	.	.	UPI0001B8380B	.	deleterious(0.02)	benign(0.336)	15/16	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF84,PROSITE_patterns:PS00650,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCATTGT	.	5	BLCA
CASD1	0	.	GRCh37	7	94173797	94173797	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1431A>G	p.%3D	p.S477S	ENST00000297273	11/18	152	103	49	80	80	0	CASD1,synonymous_variant,p.%3D,ENST00000297273,;	G	ENSG00000127995	ENST00000297273	Transcript	synonymous_variant	1718	1431	477	S	tcA/tcG	.	.	.	1	CASD1	HGNC	16014	protein_coding	YES	CCDS5636.1	ENSP00000297273	CASD1_HUMAN	C9JDR3_HUMAN	UPI0000070404	.	.	.	11/18	.	hmmpanther:PTHR13533:SF8,hmmpanther:PTHR13533,Pfam_domain:PF07779	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCATACTT	.	5	BLCA
SLC25A13	0	.	GRCh37	7	95761052	95761052	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1594+3G>A	.	.	ENST00000416240	.	51	33	17	28	28	0	SLC25A13,splice_region_variant,,ENST00000265631,;SLC25A13,splice_region_variant,,ENST00000542654,;SLC25A13,splice_region_variant,,ENST00000416240,;	T	ENSG00000004864	ENST00000416240	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SLC25A13	HGNC	10983	protein_coding	YES	CCDS55130.1	ENSP00000400101	CMC2_HUMAN	Q75KX8_HUMAN	UPI0000001663	.	.	.	.	15/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCACCAG	.	4	BLCA
TRIM4	0	.	GRCh37	7	99506363	99506363	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.640G>C	p.Glu214Gln	p.E214Q	ENST00000355947	4/7	162	113	48	96	96	0	TRIM4,missense_variant,p.Glu188Gln,ENST00000349062,;TRIM4,missense_variant,p.Glu188Gln,ENST00000354241,;TRIM4,missense_variant,p.Glu90Gln,ENST00000447480,;TRIM4,missense_variant,p.Glu214Gln,ENST00000355947,;TRIM4,non_coding_transcript_exon_variant,,ENST00000496896,;	G	ENSG00000146833	ENST00000355947	Transcript	missense_variant	770	640	214	E/Q	Gag/Cag	.	.	.	-1	TRIM4	HGNC	16275	protein_coding	YES	CCDS5679.1	ENSP00000348216	TRIM4_HUMAN	B4DEC5_HUMAN	UPI000013DA79	.	deleterious(0)	possibly_damaging(0.862)	4/7	.	hmmpanther:PTHR24103:SF91,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCTTCTT	.	5	BLCA
SNX31	0	.	GRCh37	8	101586084	101586084	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*9C>G	.	.	ENST00000311812	14/14	101	49	52	52	52	0	SNX31,3_prime_UTR_variant,,ENST00000428383,;SNX31,3_prime_UTR_variant,,ENST00000518342,;SNX31,3_prime_UTR_variant,,ENST00000311812,;	C	ENSG00000174226	ENST00000311812	Transcript	3_prime_UTR_variant	1483	.	.	.	.	.	.	.	-1	SNX31	HGNC	28605	protein_coding	YES	CCDS6288.1	ENSP00000312368	SNX31_HUMAN	E5RJK2_HUMAN	UPI000004A790	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGAGAGCTT	.	5	BLCA
RAD21	0	.	GRCh37	8	117866528	117866528	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1117T>C	p.Phe373Leu	p.F373L	ENST00000297338	9/14	135	86	48	75	75	0	RAD21,missense_variant,p.Phe373Leu,ENST00000297338,;RAD21,downstream_gene_variant,,ENST00000517485,;RAD21,upstream_gene_variant,,ENST00000523986,;UTP23,downstream_gene_variant,,ENST00000517820,;RAD21,upstream_gene_variant,,ENST00000517749,;RAD21,upstream_gene_variant,,ENST00000518055,;RAD21,downstream_gene_variant,,ENST00000520992,;RAD21,downstream_gene_variant,,ENST00000523547,;	G	ENSG00000164754	ENST00000297338	Transcript	missense_variant	1405	1117	373	F/L	Ttt/Ctt	.	.	.	-1	RAD21	HGNC	9811	protein_coding	YES	CCDS6321.1	ENSP00000297338	RAD21_HUMAN	E5RJW1_HUMAN,E5RJK5_HUMAN,E5RIN7_HUMAN,E5RI01_HUMAN,E5RG18_HUMAN,E5RFZ5_HUMAN,E5RFV8_HUMAN	UPI0000133018	.	tolerated(0.36)	benign(0.375)	9/14	.	hmmpanther:PTHR12585:SF20,hmmpanther:PTHR12585	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAACAGTT	.	5	BLCA
ATAD2	0	.	GRCh37	8	124408588	124408588	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10C>T	p.Leu4Phe	p.L4F	ENST00000287394	1/28	33	24	8	13	13	0	ATAD2,missense_variant,p.Leu4Phe,ENST00000287394,;ATAD2,intron_variant,,ENST00000521903,;ATAD2,missense_variant,p.Leu4Phe,ENST00000517666,;ATAD2,missense_variant,p.Leu4Phe,ENST00000519124,;ATAD2,non_coding_transcript_exon_variant,,ENST00000521496,;IMPDH1P6,upstream_gene_variant,,ENST00000520656,;	A	ENSG00000156802	ENST00000287394	Transcript	missense_variant	118	10	4	L/F	Ctc/Ttc	.	.	.	-1	ATAD2	HGNC	30123	protein_coding	YES	CCDS6343.1	ENSP00000287394	ATAD2_HUMAN	.	UPI0000052A8C	.	deleterious_low_confidence(0)	probably_damaging(0.991)	1/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGAGAACCA	.	5	BLCA
KIAA0196	0	.	GRCh37	8	126093934	126093934	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.487G>A	p.Glu163Lys	p.E163K	ENST00000318410	5/29	149	80	68	74	74	0	KIAA0196,missense_variant,p.Glu15Lys,ENST00000523297,;KIAA0196,missense_variant,p.Glu15Lys,ENST00000517845,;KIAA0196,missense_variant,p.Glu163Lys,ENST00000318410,;KIAA0196,downstream_gene_variant,,ENST00000521109,;KIAA0196,downstream_gene_variant,,ENST00000519340,;KIAA0196,downstream_gene_variant,,ENST00000523397,;	T	ENSG00000164961	ENST00000318410	Transcript	missense_variant	837	487	163	E/K	Gag/Aag	.	.	.	-1	KIAA0196	HGNC	28984	protein_coding	YES	CCDS6355.1	ENSP00000318016	STRUM_HUMAN	Q53EL1_HUMAN,E7EQI7_HUMAN,E5RFU6_HUMAN	UPI000013943B	.	deleterious(0)	possibly_damaging(0.707)	5/29	.	hmmpanther:PTHR15691,Pfam_domain:PF10266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTCTGA	.	5	BLCA
PTP4A3	0	.	GRCh37	8	142441222	142441222	+	3'UTR	SNP	C	C	T	rs760814540	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*78C>T	.	.	ENST00000521578	6/6	42	30	12	17	17	0	PTP4A3,3_prime_UTR_variant,,ENST00000521578,;PTP4A3,3_prime_UTR_variant,,ENST00000329397,;PTP4A3,3_prime_UTR_variant,,ENST00000520105,;PTP4A3,3_prime_UTR_variant,,ENST00000349124,;PTP4A3,3_prime_UTR_variant,,ENST00000524028,;PTP4A3,downstream_gene_variant,,ENST00000523147,;CTD-3064M3.7,upstream_gene_variant,,ENST00000606664,;MROH5,downstream_gene_variant,,ENST00000521053,;MROH5,downstream_gene_variant,,ENST00000523857,;MROH5,downstream_gene_variant,,ENST00000430863,;	T	ENSG00000184489	ENST00000521578	Transcript	3_prime_UTR_variant	1545	.	.	.	.	rs760814540	.	.	1	PTP4A3	HGNC	9636	protein_coding	YES	CCDS6383.1	ENSP00000428976	TP4A3_HUMAN	E5RGR3_HUMAN	UPI000004981B	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCTGCCC	.	2	BLCA
PLEC	0	.	GRCh37	8	144994629	144994629	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9771G>A	p.%3D	p.L3257L	ENST00000322810	32/32	36	27	9	30	30	0	PLEC,synonymous_variant,p.%3D,ENST00000322810,;PLEC,synonymous_variant,p.%3D,ENST00000527096,;PLEC,synonymous_variant,p.%3D,ENST00000345136,;PLEC,synonymous_variant,p.%3D,ENST00000357649,;PLEC,synonymous_variant,p.%3D,ENST00000398774,;PLEC,synonymous_variant,p.%3D,ENST00000354589,;PLEC,synonymous_variant,p.%3D,ENST00000356346,;PLEC,synonymous_variant,p.%3D,ENST00000436759,;PLEC,synonymous_variant,p.%3D,ENST00000354958,;PLEC,downstream_gene_variant,,ENST00000527303,;	T	ENSG00000178209	ENST00000322810	Transcript	synonymous_variant	9941	9771	3257	L	ctG/ctA	.	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	.	32/32	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAGGGC	.	5	BLCA
PARP10	0	.	GRCh37	8	145058709	145058709	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458+3G>A	.	.	ENST00000313028	.	86	52	34	36	36	0	PARP10,splice_region_variant,,ENST00000313028,;PARP10,splice_region_variant,,ENST00000524918,;PARP10,splice_region_variant,,ENST00000525773,;PARP10,downstream_gene_variant,,ENST00000528914,;PARP10,downstream_gene_variant,,ENST00000525879,;PARP10,downstream_gene_variant,,ENST00000529842,;PARP10,downstream_gene_variant,,ENST00000529311,;PARP10,downstream_gene_variant,,ENST00000528625,;PARP10,downstream_gene_variant,,ENST00000532311,;PARP10,downstream_gene_variant,,ENST00000531537,;PARP10,downstream_gene_variant,,ENST00000313059,;PARP10,downstream_gene_variant,,ENST00000528136,;PARP10,downstream_gene_variant,,ENST00000531707,;PARP10,downstream_gene_variant,,ENST00000525486,;PARP10,downstream_gene_variant,,ENST00000530478,;PARP10,downstream_gene_variant,,ENST00000534737,;PARP10,downstream_gene_variant,,ENST00000532660,;PARP10,downstream_gene_variant,,ENST00000533665,;PARP10,splice_region_variant,,ENST00000527262,;PARP10,splice_region_variant,,ENST00000528963,;PARP10,upstream_gene_variant,,ENST00000526007,;PARP10,downstream_gene_variant,,ENST00000526985,;PARP10,downstream_gene_variant,,ENST00000528580,;	T	ENSG00000178685	ENST00000313028	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	PARP10	HGNC	25895	protein_coding	YES	CCDS34960.1	ENSP00000325618	PAR10_HUMAN	E9PSG8_HUMAN,E9PSE7_HUMAN,E9PQQ6_HUMAN,E9PPV8_HUMAN,E9PPU2_HUMAN,E9PM86_HUMAN,E9PLE8_HUMAN,E9PJI2_HUMAN,E9PIA6_HUMAN	UPI0000251FAB	.	.	.	.	5/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCACCCG	.	4	BLCA
PSD3	0	.	GRCh37	8	18729698	18729698	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.676C>G	p.Gln226Glu	p.Q226E	ENST00000327040	3/16	121	53	68	112	112	0	PSD3,missense_variant,p.Gln161Glu,ENST00000523619,;PSD3,missense_variant,p.Gln226Glu,ENST00000327040,;PSD3,missense_variant,p.Gln226Glu,ENST00000440756,;	C	ENSG00000156011	ENST00000327040	Transcript	missense_variant	779	676	226	Q/E	Cag/Gag	.	.	.	-1	PSD3	HGNC	19093	protein_coding	YES	CCDS43720.1	ENSP00000324127	PSD3_HUMAN	E5RJE4_HUMAN,E5RJ29_HUMAN	UPI0000210A46	.	deleterious_low_confidence(0.02)	benign(0.263)	3/16	.	hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGAGTGT	.	5	BLCA
PSD3	0	.	GRCh37	8	18730069	18730069	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305C>G	p.Ser102Cys	p.S102C	ENST00000327040	3/16	90	42	48	45	45	0	PSD3,missense_variant,p.Ser37Cys,ENST00000523619,;PSD3,missense_variant,p.Ser102Cys,ENST00000327040,;PSD3,missense_variant,p.Ser102Cys,ENST00000440756,;	C	ENSG00000156011	ENST00000327040	Transcript	missense_variant	408	305	102	S/C	tCt/tGt	.	.	.	-1	PSD3	HGNC	19093	protein_coding	YES	CCDS43720.1	ENSP00000324127	PSD3_HUMAN	E5RJE4_HUMAN,E5RJ29_HUMAN	UPI0000210A46	.	tolerated_low_confidence(0.05)	benign(0.009)	3/16	.	hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCAGAGTGG	.	5	BLCA
GFRA2	0	.	GRCh37	8	21552023	21552023	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>A	p.Gly409Arg	p.G409R	ENST00000524240	8/9	13	10	3	16	16	0	GFRA2,missense_variant,p.Gly409Arg,ENST00000517328,;GFRA2,missense_variant,p.Gly304Arg,ENST00000400782,;GFRA2,missense_variant,p.Gly409Arg,ENST00000524240,;GFRA2,missense_variant,p.Gly304Arg,ENST00000517892,;GFRA2,missense_variant,p.Gly276Arg,ENST00000518077,;GFRA2,3_prime_UTR_variant,,ENST00000306793,;	T	ENSG00000168546	ENST00000524240	Transcript	missense_variant	1876	1225	409	G/R	Ggg/Agg	.	.	.	-1	GFRA2	HGNC	4244	protein_coding	YES	CCDS47816.1	ENSP00000428518	GFRA2_HUMAN	E5RJ44_HUMAN,E5RGR6_HUMAN	UPI000000D9B1	.	tolerated(0.31)	possibly_damaging(0.793)	8/9	.	hmmpanther:PTHR10269,hmmpanther:PTHR10269:SF4,PIRSF_domain:PIRSF038071,Prints_domain:PR01318	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCCCCTGCT	.	2	BLCA
LGI3	0	.	GRCh37	8	22006323	22006323	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.997G>C	p.Glu333Gln	p.E333Q	ENST00000306317	8/8	32	10	22	28	28	0	LGI3,missense_variant,p.Glu333Gln,ENST00000306317,;LGI3,missense_variant,p.Glu309Gln,ENST00000424267,;LGI3,downstream_gene_variant,,ENST00000517694,;LGI3,non_coding_transcript_exon_variant,,ENST00000520124,;LGI3,downstream_gene_variant,,ENST00000518365,;	G	ENSG00000168481	ENST00000306317	Transcript	missense_variant	1287	997	333	E/Q	Gaa/Caa	.	.	.	-1	LGI3	HGNC	18711	protein_coding	YES	CCDS6025.1	ENSP00000302297	LGI3_HUMAN	.	UPI0000070742	.	deleterious(0)	probably_damaging(0.961)	8/8	.	PROSITE_profiles:PS50912,hmmpanther:PTHR24367,hmmpanther:PTHR24367:SF10,Pfam_domain:PF03736,Superfamily_domains:0046203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCTAGGT	.	5	BLCA
TUBBP1	0	.	GRCh37	8	30210560	30210560	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1172C>T	.	.	ENST00000518096	1/1	98	49	49	96	96	0	TUBBP1,non_coding_transcript_exon_variant,,ENST00000518096,;TUBBP1,non_coding_transcript_exon_variant,,ENST00000248151,;CTD-3107M8.2,upstream_gene_variant,,ENST00000519658,;	T	ENSG00000127589	ENST00000518096	Transcript	non_coding_transcript_exon_variant	1172	.	.	.	.	.	.	.	1	TUBBP1	HGNC	12414	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCCCCAACA	.	5	BLCA
KAT6A	0	.	GRCh37	8	41791399	41791399	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4339G>A	p.Glu1447Lys	p.E1447K	ENST00000396930	18/18	117	49	68	67	67	0	KAT6A,missense_variant,p.Glu1447Lys,ENST00000396930,;KAT6A,missense_variant,p.Glu1447Lys,ENST00000406337,;KAT6A,missense_variant,p.Glu1447Lys,ENST00000265713,;KAT6A,downstream_gene_variant,,ENST00000418721,;	T	ENSG00000083168	ENST00000396930	Transcript	missense_variant	4883	4339	1447	E/K	Gag/Aag	.	.	.	-1	KAT6A	HGNC	13013	protein_coding	YES	CCDS6124.1	ENSP00000380136	KAT6A_HUMAN	A5PKX7_HUMAN	UPI000013D666	.	.	unknown(0)	18/18	.	hmmpanther:PTHR10615:SF26,hmmpanther:PTHR10615	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCACAGT	.	5	BLCA
ST18	0	.	GRCh37	8	53025874	53025874	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3028G>A	p.Glu1010Lys	p.E1010K	ENST00000276480	26/26	177	115	62	79	79	0	ST18,missense_variant,p.Glu1010Lys,ENST00000276480,;ST18,3_prime_UTR_variant,,ENST00000521824,;ST18,3_prime_UTR_variant,,ENST00000522251,;ST18,3_prime_UTR_variant,,ENST00000521582,;ST18,downstream_gene_variant,,ENST00000518053,;	T	ENSG00000147488	ENST00000276480	Transcript	missense_variant	3712	3028	1010	E/K	Gaa/Aaa	.	.	.	-1	ST18	HGNC	18695	protein_coding	YES	CCDS6149.1	ENSP00000276480	ST18_HUMAN	E5RHS3_HUMAN	UPI0000046C30	.	deleterious(0)	probably_damaging(0.999)	26/26	.	hmmpanther:PTHR10816:SF9,hmmpanther:PTHR10816	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCAAAAT	.	5	BLCA
RB1CC1	0	.	GRCh37	8	53570023	53570023	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2366G>A	p.Gly789Glu	p.G789E	ENST00000025008	15/24	157	89	67	82	82	0	RB1CC1,missense_variant,p.Gly789Glu,ENST00000025008,;RB1CC1,missense_variant,p.Gly789Glu,ENST00000539297,;RB1CC1,missense_variant,p.Gly789Glu,ENST00000435644,;RB1CC1,intron_variant,,ENST00000521611,;RB1CC1,downstream_gene_variant,,ENST00000523594,;	T	ENSG00000023287	ENST00000025008	Transcript	missense_variant	2890	2366	789	G/E	gGa/gAa	.	.	.	-1	RB1CC1	HGNC	15574	protein_coding	YES	CCDS34892.1	ENSP00000025008	RBCC1_HUMAN	E5RH63_HUMAN,B4DGF9_HUMAN	UPI0000DBEF23	.	tolerated_low_confidence(0.08)	probably_damaging(1)	15/24	.	hmmpanther:PTHR13222:SF1,hmmpanther:PTHR13222	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCCAAAA	.	5	BLCA
RP1	0	.	GRCh37	8	55534023	55534023	+	Missense_Mutation	SNP	C	C	T	rs756961463	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.497C>T	p.Thr166Met	p.T166M	ENST00000220676	2/4	190	111	78	78	78	0	RP1,missense_variant,p.Thr166Met,ENST00000220676,;	T	ENSG00000104237	ENST00000220676	Transcript	missense_variant	645	497	166	T/M	aCg/aTg	rs756961463,COSM605749	.	.	1	RP1	HGNC	10263	protein_coding	YES	CCDS6160.1	ENSP00000220676	RP1_HUMAN	A0FDN2_HUMAN	UPI000013455B	.	tolerated(0.19)	benign(0.097)	2/4	.	Superfamily_domains:SSF89837,SMART_domains:SM00537,Gene3D:1mfwA00,hmmpanther:PTHR23005:SF4,hmmpanther:PTHR23005,PROSITE_profiles:PS50309	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.T166M|c.497C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGACGAGGC	.	5	BLCA
CHD7	0	.	GRCh37	8	61655219	61655219	+	Missense_Mutation	SNP	C	C	T	rs763637398	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1228C>T	p.Pro410Ser	p.P410S	ENST00000423902	2/38	157	119	38	62	62	0	CHD7,missense_variant,p.Pro410Ser,ENST00000423902,;CHD7,missense_variant,p.Pro410Ser,ENST00000524602,;CHD7,missense_variant,p.Pro410Ser,ENST00000525508,;CHD7,downstream_gene_variant,,ENST00000526846,;CHD7,intron_variant,,ENST00000527825,;CHD7,upstream_gene_variant,,ENST00000527900,;	T	ENSG00000171316	ENST00000423902	Transcript	missense_variant	1707	1228	410	P/S	Cct/Tct	rs763637398	.	.	1	CHD7	HGNC	20626	protein_coding	YES	CCDS47865.1	ENSP00000392028	CHD7_HUMAN	H0YDC1_HUMAN,E9PP20_HUMAN	UPI0000251DA6	.	.	possibly_damaging(0.641)	2/38	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF551	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCCTCCA	.	5	BLCA
TNKS	0	.	GRCh37	8	9413781	9413781	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.332C>T	p.Ser111Leu	p.S111L	ENST00000310430	1/27	159	73	86	115	114	1	TNKS,missense_variant,p.Ser111Leu,ENST00000520408,;TNKS,missense_variant,p.Ser111Leu,ENST00000310430,;TNKS,missense_variant,p.Ser111Leu,ENST00000522110,;RP11-375N15.2,non_coding_transcript_exon_variant,,ENST00000607598,;	T	ENSG00000173273	ENST00000310430	Transcript	missense_variant	358	332	111	S/L	tCa/tTa	.	.	.	1	TNKS	HGNC	11941	protein_coding	YES	CCDS5974.1	ENSP00000311579	TNKS1_HUMAN	Q59FX0_HUMAN,E7EQ52_HUMAN	UPI000013F00D	.	tolerated_low_confidence(0.06)	unknown(0)	1/27	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCATCTG	.	5	BLCA
DPY19L4	0	.	GRCh37	8	95774052	95774052	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.860A>T	p.Gln287Leu	p.Q287L	ENST00000414645	8/19	169	86	82	64	63	0	DPY19L4,missense_variant,p.Gln287Leu,ENST00000414645,;DPY19L4,missense_variant,p.Gln131Leu,ENST00000523020,;	T	ENSG00000156162	ENST00000414645	Transcript	missense_variant	959	860	287	Q/L	cAa/cTa	.	.	.	1	DPY19L4	HGNC	27829	protein_coding	YES	CCDS34924.1	ENSP00000389630	D19L4_HUMAN	.	UPI00001A9D7A	.	deleterious(0.01)	benign(0.16)	8/19	.	hmmpanther:PTHR31488:SF2,hmmpanther:PTHR31488,Pfam_domain:PF10034	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGCAAAGTG	.	5	BLCA
STK3	0	.	GRCh37	8	99786971	99786971	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187G>A	p.Glu63Lys	p.E63K	ENST00000523601	4/13	70	47	23	27	27	0	STK3,missense_variant,p.Glu63Lys,ENST00000523601,;STK3,missense_variant,p.Glu35Lys,ENST00000419617,;STK3,missense_variant,p.Glu35Lys,ENST00000518165,;STK3,missense_variant,p.Glu35Lys,ENST00000521649,;STK3,missense_variant,p.Glu35Lys,ENST00000424861,;	T	ENSG00000104375	ENST00000523601	Transcript	missense_variant	587	187	63	E/K	Gaa/Aaa	.	.	.	-1	STK3	HGNC	11406	protein_coding	YES	CCDS59108.1	ENSP00000429744	.	B3KYA7_HUMAN	UPI00004FB517	.	tolerated(0.07)	possibly_damaging(0.777)	4/13	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:3.30.200.20,Pfam_domain:PF00069,PROSITE_patterns:PS00107,hmmpanther:PTHR24361:SF247,hmmpanther:PTHR24361,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCTCCAA	.	5	BLCA
ABCA1	0	.	GRCh37	9	107591232	107591232	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2080C>T	p.Leu694Phe	p.L694F	ENST00000374736	15/50	72	45	27	31	31	0	ABCA1,missense_variant,p.Leu694Phe,ENST00000374736,;ABCA1,non_coding_transcript_exon_variant,,ENST00000494467,;	A	ENSG00000165029	ENST00000374736	Transcript	missense_variant	2475	2080	694	L/F	Ctt/Ttt	.	.	.	-1	ABCA1	HGNC	29	protein_coding	YES	CCDS6762.1	ENSP00000363868	ABCA1_HUMAN	Q9NS76_HUMAN,Q9NP93_HUMAN,Q9H002_HUMAN	UPI000013E441	.	tolerated(0.05)	possibly_damaging(0.737)	15/50	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR19229:SF34,hmmpanther:PTHR19229,Pfam_domain:PF12698	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAAGAAGAG	.	5	BLCA
KIAA0368	0	.	GRCh37	9	114148709	114148709	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4009delC	p.Gln1337LysfsTer20	p.Q1337Kfs*20	ENST00000259335	33/51	87	67	20	35	35	0	KIAA0368,frameshift_variant,p.Gln1159LysfsTer20,ENST00000338205,;KIAA0368,frameshift_variant,p.Gln1337LysfsTer20,ENST00000259335,;KIAA0368,5_prime_UTR_variant,,ENST00000374378,;	-	ENSG00000136813	ENST00000259335	Transcript	frameshift_variant	4009	4009	1337	Q/X	Caa/aa	.	.	.	-1	KIAA0368	HGNC	29020	protein_coding	YES	CCDS48006.1	ENSP00000259335	.	J3KN16_HUMAN	UPI0000DD7F7A	.	.	.	33/51	.	hmmpanther:PTHR23346,hmmpanther:PTHR23346:SF19,Gene3D:1.25.10.10,Pfam_domain:PF12755,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AATCTTGAAGAA	.	3	BLCA
ZFP37	0	.	GRCh37	9	115805223	115805223	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1675C>T	p.His559Tyr	p.H559Y	ENST00000374227	4/4	145	89	56	84	84	0	ZFP37,missense_variant,p.His574Tyr,ENST00000553380,;ZFP37,missense_variant,p.His560Tyr,ENST00000555206,;ZFP37,missense_variant,p.His559Tyr,ENST00000374227,;	A	ENSG00000136866	ENST00000374227	Transcript	missense_variant	1703	1675	559	H/Y	Cac/Tac	.	.	.	-1	ZFP37	HGNC	12863	protein_coding	YES	CCDS6787.1	ENSP00000363344	ZFP37_HUMAN	.	UPI000013D04B	.	tolerated(0.08)	probably_damaging(0.98)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF139,hmmpanther:PTHR24381,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTGAGACT	.	5	BLCA
TRIM32	0	.	GRCh37	9	119460715	119460715	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694G>A	p.Glu232Lys	p.E232K	ENST00000450136	2/2	66	41	25	28	28	0	TRIM32,missense_variant,p.Glu232Lys,ENST00000373983,;TRIM32,missense_variant,p.Glu232Lys,ENST00000450136,;ASTN2,intron_variant,,ENST00000373996,;ASTN2,intron_variant,,ENST00000373986,;ASTN2,intron_variant,,ENST00000361209,;ASTN2,intron_variant,,ENST00000313400,;ASTN2,intron_variant,,ENST00000361477,;TRIM32,downstream_gene_variant,,ENST00000411410,;	A	ENSG00000119401	ENST00000450136	Transcript	missense_variant	855	694	232	E/K	Gag/Aag	.	.	.	1	TRIM32	HGNC	16380	protein_coding	YES	CCDS6817.1	ENSP00000408292	TRI32_HUMAN	Q5JVY0_HUMAN	UPI000012CDB9	.	deleterious(0.03)	benign(0.09)	2/2	.	hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAGGTG	.	5	BLCA
PPAPDC3	0	.	GRCh37	9	134165483	134165483	+	Silent	SNP	G	G	A	rs768515508	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99G>A	p.%3D	p.P33P	ENST00000372264	1/2	42	26	15	18	18	0	PPAPDC3,synonymous_variant,p.%3D,ENST00000372264,;PPAPDC3,synonymous_variant,p.%3D,ENST00000372261,;	A	ENSG00000160539	ENST00000372264	Transcript	synonymous_variant	403	99	33	P	ccG/ccA	rs768515508	.	.	1	PPAPDC3	HGNC	28174	protein_coding	YES	CCDS6942.1	ENSP00000361338	PPAC3_HUMAN	.	UPI0000070B2A	.	.	.	1/2	.	hmmpanther:PTHR14969,hmmpanther:PTHR14969:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCGGAGCC	byFrequency	5	BLCA
NTNG2	0	.	GRCh37	9	135042134	135042134	+	5'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-85C>G	.	.	ENST00000393229	2/8	50	29	21	24	24	0	NTNG2,5_prime_UTR_variant,,ENST00000393228,;NTNG2,5_prime_UTR_variant,,ENST00000372179,;NTNG2,5_prime_UTR_variant,,ENST00000360670,;NTNG2,5_prime_UTR_variant,,ENST00000393229,;	G	ENSG00000196358	ENST00000393229	Transcript	5_prime_UTR_variant	692	.	.	.	.	.	.	.	1	NTNG2	HGNC	14288	protein_coding	YES	CCDS6946.1	ENSP00000376921	NTNG2_HUMAN	.	UPI0000367698	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCCATGC	.	5	BLCA
C9orf116	0	.	GRCh37	9	138387244	138387244	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29C>G	.	.	ENST00000429260	3/3	95	63	31	46	46	0	C9orf116,3_prime_UTR_variant,,ENST00000371791,;C9orf116,3_prime_UTR_variant,,ENST00000371789,;C9orf116,3_prime_UTR_variant,,ENST00000429260,;C9orf116,downstream_gene_variant,,ENST00000419770,;MRPS2,upstream_gene_variant,,ENST00000371785,;C9orf116,downstream_gene_variant,,ENST00000371786,;	C	ENSG00000160345	ENST00000429260	Transcript	3_prime_UTR_variant	461	.	.	.	.	.	.	.	-1	C9orf116	HGNC	28435	protein_coding	YES	CCDS43899.1	ENSP00000395281	CI116_HUMAN	.	UPI0000210EFC	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCAGAGGAC	.	5	BLCA
C9orf163	0	.	GRCh37	9	139379442	139379442	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.542G>C	p.Arg181Thr	p.R181T	ENST00000354376	1/1	49	30	19	20	20	0	C9orf163,missense_variant,p.Arg181Thr,ENST00000354376,;	C	ENSG00000196366	ENST00000354376	Transcript	missense_variant	1496	542	181	R/T	aGa/aCa	.	.	.	1	C9orf163	HGNC	26718	protein_coding	YES	CCDS7001.1	ENSP00000346345	CI163_HUMAN	.	UPI000006EC86	.	deleterious_low_confidence(0)	benign(0.402)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAAGAGCCA	.	5	BLCA
NOTCH1	0	.	GRCh37	9	139410068	139410068	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1770C>G	p.%3D	p.L590L	ENST00000277541	11/34	24	18	6	17	17	0	NOTCH1,synonymous_variant,p.%3D,ENST00000277541,;MIR4673,downstream_gene_variant,,ENST00000584777,;	C	ENSG00000148400	ENST00000277541	Transcript	synonymous_variant	1846	1770	590	L	ctC/ctG	.	.	.	-1	NOTCH1	HGNC	7881	protein_coding	YES	CCDS43905.1	ENSP00000277541	NOTC1_HUMAN	H9CXX2_HUMAN	UPI0000210F68	.	.	.	11/34	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24033:SF37,hmmpanther:PTHR24033,PROSITE_patterns:PS00010,PROSITE_patterns:PS00022,PROSITE_patterns:PS01186,Pfam_domain:PF00008,Gene3D:2.10.25.10,PIRSF_domain:PIRSF002279,SMART_domains:SM00181,SMART_domains:SM00179,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCAGAGGCA	.	5	BLCA
FBXW5	0	.	GRCh37	9	139836610	139836610	+	Silent	SNP	G	G	A	rs769664887	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984C>T	p.%3D	p.A328A	ENST00000325285	6/9	17	13	3	15	15	0	FBXW5,synonymous_variant,p.%3D,ENST00000325285,;FBXW5,synonymous_variant,p.%3D,ENST00000433269,;FBXW5,downstream_gene_variant,,ENST00000443788,;C8G,upstream_gene_variant,,ENST00000224181,;C8G,upstream_gene_variant,,ENST00000371634,;FBXW5,downstream_gene_variant,,ENST00000428398,;RP11-229P13.25,upstream_gene_variant,,ENST00000569497,;FBXW5,non_coding_transcript_exon_variant,,ENST00000483559,;FBXW5,non_coding_transcript_exon_variant,,ENST00000487794,;FBXW5,non_coding_transcript_exon_variant,,ENST00000459905,;FBXW5,downstream_gene_variant,,ENST00000491246,;FBXW5,downstream_gene_variant,,ENST00000480818,;C8G,upstream_gene_variant,,ENST00000465773,;C8G,upstream_gene_variant,,ENST00000484376,;RP11-229P13.2,downstream_gene_variant,,ENST00000395082,;	A	ENSG00000159069	ENST00000325285	Transcript	synonymous_variant	1064	984	328	A	gcC/gcT	rs769664887	.	.	-1	FBXW5	HGNC	13613	protein_coding	YES	CCDS7014.1	ENSP00000313034	FBXW5_HUMAN	.	UPI000006EC75	.	.	.	6/9	.	hmmpanther:PTHR20995,hmmpanther:PTHR20995:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCTCGGCCAC	byFrequency	2	BLCA
DENND4C	0	.	GRCh37	9	19371941	19371941	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5594-94C>G	.	.	ENST00000602925	.	99	65	33	49	49	0	DENND4C,intron_variant,,ENST00000361024,;DENND4C,intron_variant,,ENST00000380432,;DENND4C,intron_variant,,ENST00000434457,;DENND4C,intron_variant,,ENST00000602925,;DENND4C,intron_variant,,ENST00000380427,;RPS6,downstream_gene_variant,,ENST00000380384,;RPS6,downstream_gene_variant,,ENST00000315377,;RPS6,downstream_gene_variant,,ENST00000380394,;RP11-513M16.7,non_coding_transcript_exon_variant,,ENST00000609609,;RP11-513M16.8,upstream_gene_variant,,ENST00000609982,;RPS6,downstream_gene_variant,,ENST00000498815,;DENND4C,intron_variant,,ENST00000380437,;DENND4C,intron_variant,,ENST00000494124,;	G	ENSG00000137145	ENST00000602925	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	DENND4C	HGNC	26079	protein_coding	YES	CCDS6491.3	ENSP00000473565	.	R4GNB2_HUMAN	UPI0000EE421F	.	.	.	.	31/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTCAAATA	.	5	BLCA
IFNK	0	.	GRCh37	9	27524545	27524545	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.211G>A	p.Glu71Lys	p.E71K	ENST00000276943	1/2	157	101	56	82	82	0	IFNK,missense_variant,p.Glu71Lys,ENST00000276943,;MOB3B,intron_variant,,ENST00000262244,;	A	ENSG00000147896	ENST00000276943	Transcript	missense_variant	234	211	71	E/K	Gag/Aag	.	.	.	1	IFNK	HGNC	21714	protein_coding	YES	CCDS6521.1	ENSP00000276943	IFNK_HUMAN	.	UPI0000040ABD	.	deleterious(0.04)	probably_damaging(0.989)	1/2	.	hmmpanther:PTHR11691,hmmpanther:PTHR11691:SF6,Gene3D:1.20.1250.10,Pfam_domain:PF00143,SMART_domains:SM00076,Superfamily_domains:SSF47266,Prints_domain:PR00266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAAGAGTTT	.	5	BLCA
GNE	0	.	GRCh37	9	36236873	36236873	+	Missense_Mutation	SNP	G	G	A	rs771167726	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.818C>T	p.Ser273Leu	p.S273L	ENST00000396594	4/12	94	54	39	58	58	0	GNE,missense_variant,p.Ser242Leu,ENST00000539815,;GNE,missense_variant,p.Ser242Leu,ENST00000377902,;GNE,missense_variant,p.Ser237Leu,ENST00000543356,;GNE,missense_variant,p.Ser273Leu,ENST00000396594,;GNE,missense_variant,p.Ser242Leu,ENST00000447283,;GNE,intron_variant,,ENST00000539208,;CLTA,intron_variant,,ENST00000464497,;	A	ENSG00000159921	ENST00000396594	Transcript	missense_variant	930	818	273	S/L	tCa/tTa	rs771167726	.	.	-1	GNE	HGNC	23657	protein_coding	YES	CCDS47965.1	ENSP00000379839	GLCNE_HUMAN	.	UPI00002113D6	.	tolerated(0.07)	benign(0.218)	4/12	.	hmmpanther:PTHR18964:SF109,hmmpanther:PTHR18964,Gene3D:3.40.50.2000,TIGRFAM_domain:TIGR03568,Pfam_domain:PF02350,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATGAGATA	byFrequency	5	BLCA
FRMPD1	0	.	GRCh37	9	37745139	37745139	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3110C>T	p.Ser1037Phe	p.S1037F	ENST00000539465	16/16	176	109	66	114	114	0	FRMPD1,missense_variant,p.Ser1037Phe,ENST00000539465,;FRMPD1,missense_variant,p.Ser1037Phe,ENST00000377765,;FRMPD1,downstream_gene_variant,,ENST00000536622,;FRMPD1,downstream_gene_variant,,ENST00000541302,;RP11-613M10.9,intron_variant,,ENST00000540557,;	T	ENSG00000070601	ENST00000539465	Transcript	missense_variant	3703	3110	1037	S/F	tCt/tTt	COSM3433142	.	.	1	FRMPD1	HGNC	29159	protein_coding	YES	CCDS6612.1	ENSP00000444411	FRPD1_HUMAN	F5H0G3_HUMAN	UPI000013D2CC	.	deleterious_low_confidence(0.01)	possibly_damaging(0.553)	16/16	.	hmmpanther:PTHR13436:SF4,hmmpanther:PTHR13436	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTCAAG	.	5	BLCA
KIAA1432	0	.	GRCh37	9	5742887	5742887	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.920G>T	p.Gly307Val	p.G307V	ENST00000414202	9/26	111	71	40	54	54	0	KIAA1432,missense_variant,p.Gly228Val,ENST00000449720,;KIAA1432,missense_variant,p.Gly236Val,ENST00000545641,;KIAA1432,missense_variant,p.Gly228Val,ENST00000418622,;KIAA1432,missense_variant,p.Gly307Val,ENST00000251879,;KIAA1432,missense_variant,p.Gly228Val,ENST00000381532,;KIAA1432,missense_variant,p.Gly307Val,ENST00000414202,;KIAA1432,non_coding_transcript_exon_variant,,ENST00000276898,;	T	ENSG00000107036	ENST00000414202	Transcript	missense_variant	1111	920	307	G/V	gGa/gTa	.	.	.	1	KIAA1432	HGNC	17686	protein_coding	YES	CCDS34982.2	ENSP00000416696	RIC1_HUMAN	.	UPI00002110DE	.	deleterious(0)	probably_damaging(1)	9/26	.	hmmpanther:PTHR22746,hmmpanther:PTHR22746:SF10,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGGAGCTG	.	5	BLCA
ZNF484	0	.	GRCh37	9	95618147	95618147	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187G>T	p.Glu63Ter	p.E63*	ENST00000395506	3/4	213	122	91	102	102	0	ZNF484,stop_gained,p.Glu63Ter,ENST00000395506,;ZNF484,stop_gained,p.Glu25Ter,ENST00000395505,;ZNF484,stop_gained,p.Glu25Ter,ENST00000332591,;ZNF484,stop_gained,p.Glu61Ter,ENST00000375495,;ANKRD19P,intron_variant,,ENST00000473204,;	A	ENSG00000127081	ENST00000395506	Transcript	stop_gained	283	187	63	E/*	Gaa/Taa	.	.	.	-1	ZNF484	HGNC	23385	protein_coding	YES	CCDS59136.1	ENSP00000378882	ZN484_HUMAN	.	UPI00017A7C2E	.	.	.	3/4	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24377:SF144,hmmpanther:PTHR24377,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCCAAGC	.	5	BLCA
ARMCX1	0	.	GRCh37	X	100808511	100808511	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>A	p.Asp200Asn	p.D200N	ENST00000372829	4/4	182	48	134	86	86	0	ARMCX1,missense_variant,p.Asp200Asn,ENST00000372829,;	A	ENSG00000126947	ENST00000372829	Transcript	missense_variant	969	598	200	D/N	Gat/Aat	.	.	.	1	ARMCX1	HGNC	18073	protein_coding	YES	CCDS14487.1	ENSP00000361917	ARMX1_HUMAN	Q68D26_HUMAN	UPI00000411D9	.	tolerated(0.05)	probably_damaging(0.997)	4/4	.	Superfamily_domains:SSF48371,Pfam_domain:PF04826,hmmpanther:PTHR15712,hmmpanther:PTHR15712:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATGATATT	.	5	BLCA
COL4A6	0	.	GRCh37	X	107423779	107423779	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2100G>T	p.%3D	p.G700G	ENST00000372216	25/45	69	14	54	30	30	0	COL4A6,synonymous_variant,p.%3D,ENST00000394872,;COL4A6,synonymous_variant,p.%3D,ENST00000372216,;COL4A6,synonymous_variant,p.%3D,ENST00000334504,;COL4A6,synonymous_variant,p.%3D,ENST00000545689,;COL4A6,synonymous_variant,p.%3D,ENST00000538570,;	A	ENSG00000197565	ENST00000372216	Transcript	synonymous_variant	2201	2100	700	G	ggG/ggT	.	.	.	-1	COL4A6	HGNC	2208	protein_coding	YES	CCDS14541.1	ENSP00000361290	CO4A6_HUMAN	B4DU54_HUMAN	UPI000049E122	.	.	.	25/45	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF164,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCCCTGG	.	5	BLCA
TMEM164	0	.	GRCh37	X	109416667	109416667	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882G>C	p.Lys294Asn	p.K294N	ENST00000372073	7/7	53	13	40	32	32	0	TMEM164,missense_variant,p.Lys145Asn,ENST00000372072,;TMEM164,missense_variant,p.Lys294Asn,ENST00000372073,;TMEM164,missense_variant,p.Lys255Asn,ENST00000288381,;TMEM164,missense_variant,p.Lys294Asn,ENST00000372068,;TMEM164,non_coding_transcript_exon_variant,,ENST00000464177,;TMEM164,downstream_gene_variant,,ENST00000461715,;	C	ENSG00000157600	ENST00000372073	Transcript	missense_variant	1218	882	294	K/N	aaG/aaC	.	.	.	1	TMEM164	HGNC	26217	protein_coding	YES	CCDS14550.2	ENSP00000361143	TM164_HUMAN	.	UPI00004560FF	.	deleterious_low_confidence(0)	benign(0.416)	7/7	.	hmmpanther:PTHR20948:SF2,hmmpanther:PTHR20948	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGAAAAT	.	5	BLCA
ALG13	0	.	GRCh37	X	110951458	110951458	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.587C>T	p.Pro196Leu	p.P196L	ENST00000394780	4/27	66	58	8	21	21	0	ALG13,missense_variant,p.Pro196Leu,ENST00000394780,;ALG13,missense_variant,p.Pro92Leu,ENST00000251943,;ALG13,missense_variant,p.Pro196Leu,ENST00000486353,;ALG13,missense_variant,p.Pro92Leu,ENST00000495283,;ALG13,upstream_gene_variant,,ENST00000436609,;ALG13-AS1,intron_variant,,ENST00000430794,;ALG13,non_coding_transcript_exon_variant,,ENST00000471924,;ALG13,intron_variant,,ENST00000470704,;ALG13,intron_variant,,ENST00000487141,;	T	ENSG00000101901	ENST00000394780	Transcript	missense_variant	599	587	196	P/L	cCt/cTt	COSM3556875,COSM3556874	.	.	1	ALG13	HGNC	30881	protein_coding	YES	CCDS55477.1	ENSP00000378260	ALG13_HUMAN	D6RE84_HUMAN,D6RD27_HUMAN	UPI0000E5AFF9	.	tolerated_low_confidence(0.46)	benign(0)	4/27	.	hmmpanther:PTHR14730	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCCCTCTTA	.	2	BLCA
UTP14A	0	.	GRCh37	X	129058886	129058886	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1464G>A	p.%3D	p.Q488Q	ENST00000394422	12/15	165	46	119	96	96	0	UTP14A,synonymous_variant,p.%3D,ENST00000394422,;UTP14A,synonymous_variant,p.%3D,ENST00000371042,;UTP14A,synonymous_variant,p.%3D,ENST00000371051,;UTP14A,synonymous_variant,p.%3D,ENST00000427972,;UTP14A,synonymous_variant,p.%3D,ENST00000425117,;RP4-537K23.4,intron_variant,,ENST00000432062,;UTP14A,downstream_gene_variant,,ENST00000498179,;	A	ENSG00000156697	ENST00000394422	Transcript	synonymous_variant	1492	1464	488	Q	caG/caA	.	.	.	1	UTP14A	HGNC	10665	protein_coding	YES	CCDS14615.1	ENSP00000377944	UT14A_HUMAN	.	UPI0000072A7B	.	.	.	12/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14150:SF14,hmmpanther:PTHR14150,Pfam_domain:PF04615	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCAGAGAGA	.	5	BLCA
FAM127C	0	.	GRCh37	X	134156536	134156536	+	5'UTR	SNP	C	C	T	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-47G>A	.	.	ENST00000391440	1/1	32	7	25	17	17	0	FAM127C,5_prime_UTR_variant,,ENST00000391440,;	T	ENSG00000212747	ENST00000391440	Transcript	5_prime_UTR_variant	24	.	.	.	.	.	.	.	-1	FAM127C	HGNC	33156	protein_coding	YES	CCDS43996.1	ENSP00000375268	F127C_HUMAN	.	UPI00001613F2	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCGCCGG	.	5	BLCA
GPR112	0	.	GRCh37	X	135430771	135430771	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4906G>A	p.Ala1636Thr	p.A1636T	ENST00000394143	6/26	174	38	135	76	76	0	GPR112,missense_variant,p.Ala1573Thr,ENST00000287534,;GPR112,missense_variant,p.Ala1636Thr,ENST00000370652,;GPR112,missense_variant,p.Ala1636Thr,ENST00000394143,;GPR112,missense_variant,p.Ala1431Thr,ENST00000394141,;GPR112,missense_variant,p.Ala1431Thr,ENST00000412101,;	A	ENSG00000156920	ENST00000394143	Transcript	missense_variant	5197	4906	1636	A/T	Gca/Aca	.	.	.	1	GPR112	HGNC	18992	protein_coding	YES	CCDS35409.1	ENSP00000377699	GP112_HUMAN	.	UPI00004CEC5B	.	tolerated(0.05)	benign(0)	6/26	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGAGGCACCT	.	5	BLCA
HTATSF1	0	.	GRCh37	X	135593382	135593382	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1478G>A	p.Gly493Glu	p.G493E	ENST00000535601	10/10	64	13	51	21	21	0	HTATSF1,missense_variant,p.Gly493Glu,ENST00000218364,;HTATSF1,missense_variant,p.Gly493Glu,ENST00000535601,;	A	ENSG00000102241	ENST00000535601	Transcript	missense_variant	1900	1478	493	G/E	gGa/gAa	COSM1315237	.	.	1	HTATSF1	HGNC	5276	protein_coding	YES	CCDS14657.1	ENSP00000442699	HTSF1_HUMAN	Q5H919_HUMAN,Q5H918_HUMAN	UPI000006D876	.	tolerated_low_confidence(1)	benign(0.005)	10/10	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAGGATCTG	.	5	BLCA
CXorf40A	0	.	GRCh37	X	148627071	148627071	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-30+25G>C	.	.	ENST00000441248	.	16	5	11	9	9	0	CXorf40A,5_prime_UTR_variant,,ENST00000359293,;CXorf40A,intron_variant,,ENST00000434353,;CXorf40A,intron_variant,,ENST00000441248,;CXorf40A,intron_variant,,ENST00000423421,;CXorf40A,intron_variant,,ENST00000450602,;CXorf40A,intron_variant,,ENST00000431132,;CXorf40A,intron_variant,,ENST00000393985,;CXorf40A,intron_variant,,ENST00000423540,;CXorf40A,intron_variant,,ENST00000428236,;CXorf40A,intron_variant,,ENST00000514208,;CXorf40A,intron_variant,,ENST00000422892,;LINC00893,upstream_gene_variant,,ENST00000609314,;LINC00893,upstream_gene_variant,,ENST00000609161,;LINC00893,upstream_gene_variant,,ENST00000447209,;RP5-937E21.8,downstream_gene_variant,,ENST00000431993,;LINC00893,upstream_gene_variant,,ENST00000608616,;LINC00893,upstream_gene_variant,,ENST00000609651,;LINC00893,upstream_gene_variant,,ENST00000541582,;LINC00893,upstream_gene_variant,,ENST00000608355,;LINC00893,upstream_gene_variant,,ENST00000436708,;CXorf40A,downstream_gene_variant,,ENST00000448332,;	C	ENSG00000197620	ENST00000441248	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CXorf40A	HGNC	28089	protein_coding	YES	CCDS14687.1	ENSP00000423099	CX04A_HUMAN	S4R3T8_HUMAN,D6RH26_HUMAN,D6RA30_HUMAN	UPI0001D3B68B	.	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTGAGAGACA	.	3	BLCA
FLNA	0	.	GRCh37	X	153580035	153580035	+	Nonsense_Mutation	SNP	C	C	A	rs782129661	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6937G>T	p.Glu2313Ter	p.E2313*	ENST00000369850	43/48	38	12	26	24	24	0	FLNA,stop_gained,p.Glu2305Ter,ENST00000422373,;FLNA,stop_gained,p.Glu2305Ter,ENST00000360319,;FLNA,stop_gained,p.Glu446Ter,ENST00000369856,;FLNA,stop_gained,p.Glu253Ter,ENST00000444578,;FLNA,stop_gained,p.Glu2273Ter,ENST00000344736,;FLNA,stop_gained,p.Glu2313Ter,ENST00000369850,;FLNA,downstream_gene_variant,,ENST00000438732,;FLNA,intron_variant,,ENST00000498411,;FLNA,upstream_gene_variant,,ENST00000498491,;FLNA,3_prime_UTR_variant,,ENST00000420627,;FLNA,non_coding_transcript_exon_variant,,ENST00000490936,;FLNA,downstream_gene_variant,,ENST00000474072,;FLNA,downstream_gene_variant,,ENST00000466325,;FLNA,upstream_gene_variant,,ENST00000462590,;FLNA,downstream_gene_variant,,ENST00000415241,;FLNA,downstream_gene_variant,,ENST00000474358,;	A	ENSG00000196924	ENST00000369850	Transcript	stop_gained	7174	6937	2313	E/*	Gag/Tag	rs782129661,COSM126704	.	.	-1	FLNA	HGNC	3754	protein_coding	YES	CCDS48194.1	ENSP00000358866	FLNA_HUMAN	Q96C61_HUMAN,Q86TQ3_HUMAN,Q6NXF2_HUMAN,Q60FE5_HUMAN	UPI000013C596	.	.	.	43/48	.	PROSITE_profiles:PS50194,hmmpanther:PTHR11915:SF173,hmmpanther:PTHR11915,Gene3D:2.60.40.10,Pfam_domain:PF00630,SMART_domains:SM00557,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCGTTGA	byFrequency	4	BLCA
RBBP7	0	.	GRCh37	X	16887315	16887315	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177C>G	p.%3D	p.V59V	ENST00000380084	2/12	84	21	63	54	54	0	RBBP7,synonymous_variant,p.%3D,ENST00000493145,;RBBP7,synonymous_variant,p.%3D,ENST00000380084,;RBBP7,synonymous_variant,p.%3D,ENST00000404022,;RBBP7,synonymous_variant,p.%3D,ENST00000380087,;RBBP7,5_prime_UTR_variant,,ENST00000468092,;	C	ENSG00000102054	ENST00000380084	Transcript	synonymous_variant	422	177	59	V	gtC/gtG	.	.	.	-1	RBBP7	HGNC	9890	protein_coding	YES	CCDS56598.1	ENSP00000369424	RBBP7_HUMAN	Q5JNZ6_HUMAN,C9J7L0_HUMAN	UPI00001AE848	.	.	.	2/12	.	hmmpanther:PTHR22850,hmmpanther:PTHR22850:SF82	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATGACACG	.	5	BLCA
GPR64	0	.	GRCh37	X	19086862	19086862	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91C>T	p.His31Tyr	p.H31Y	ENST00000379869	3/29	161	33	128	93	93	0	GPR64,missense_variant,p.His31Tyr,ENST00000340581,;GPR64,missense_variant,p.His31Tyr,ENST00000357544,;GPR64,missense_variant,p.His31Tyr,ENST00000379869,;GPR64,missense_variant,p.His31Tyr,ENST00000360279,;GPR64,missense_variant,p.His31Tyr,ENST00000379878,;GPR64,missense_variant,p.His31Tyr,ENST00000379876,;GPR64,missense_variant,p.His31Tyr,ENST00000379873,;GPR64,missense_variant,p.His31Tyr,ENST00000357991,;GPR64,missense_variant,p.His31Tyr,ENST00000356606,;GPR64,missense_variant,p.His31Tyr,ENST00000354791,;	A	ENSG00000173698	ENST00000379869	Transcript	missense_variant	255	91	31	H/Y	Cat/Tat	.	.	.	-1	GPR64	HGNC	4516	protein_coding	YES	CCDS43923.1	ENSP00000369198	GPR64_HUMAN	.	UPI000021246C	.	deleterious_low_confidence(0)	benign(0.192)	3/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATGAAGAC	.	5	BLCA
PPP2R3B	0	.	GRCh37	X	299415	299415	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1501G>T	p.Asp501Tyr	p.D501Y	ENST00000390665	12/13	44	9	35	42	42	0	PPP2R3B,missense_variant,p.Asp501Tyr,ENST00000390665,;PPP2R3B,non_coding_transcript_exon_variant,,ENST00000479438,;PPP2R3B,non_coding_transcript_exon_variant,,ENST00000477110,;PPP2R3B,non_coding_transcript_exon_variant,,ENST00000468169,;PPP2R3B,downstream_gene_variant,,ENST00000477636,;PPP2R3B,downstream_gene_variant,,ENST00000484364,;	A	ENSG00000167393	ENST00000390665	Transcript	missense_variant	1520	1501	501	D/Y	Gac/Tac	.	.	.	-1	PPP2R3B	HGNC	13417	protein_coding	YES	CCDS14104.1	ENSP00000375080	P2R3B_HUMAN	Q96FD8_HUMAN	UPI00001BB8B8	.	deleterious(0)	probably_damaging(0.954)	12/13	.	hmmpanther:PTHR14095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTCCGAGA	.	5	BLCA
KDM6A	0	.	GRCh37	X	44970638	44970639	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4190dupC	p.Ser1398IlefsTer12	p.S1398Ifs*12	ENST00000377967	29/29	194	103	91	44	44	0	KDM6A,frameshift_variant,p.Ser1041IlefsTer12,ENST00000433797,;KDM6A,frameshift_variant,p.Ser996IlefsTer12,ENST00000414389,;KDM6A,frameshift_variant,p.Ser1319IlefsTer?,ENST00000543216,;KDM6A,frameshift_variant,p.Ser158IlefsTer12,ENST00000431196,;KDM6A,frameshift_variant,p.Ser1398IlefsTer12,ENST00000377967,;KDM6A,frameshift_variant,p.Ser1405IlefsTer12,ENST00000382899,;KDM6A,frameshift_variant,p.Ser1353IlefsTer12,ENST00000536777,;KDM6A,downstream_gene_variant,,ENST00000479423,;	C	ENSG00000147050	ENST00000377967	Transcript	frameshift_variant	4229-4230	4188-4189	1396-1397	-/X	-/C	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	29/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5	INDELOCATOR*|VARSCANI*|PINDEL	CCATTACCATC	.	3	BLCA
GSPT2	0	.	GRCh37	X	51488598	51488598	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1876G>C	p.Glu626Gln	p.E626Q	ENST00000340438	1/1	40	7	33	22	22	0	GSPT2,missense_variant,p.Glu626Gln,ENST00000340438,;	C	ENSG00000189369	ENST00000340438	Transcript	missense_variant	2118	1876	626	E/Q	Gag/Cag	.	.	.	1	GSPT2	HGNC	4622	protein_coding	YES	CCDS14336.1	ENSP00000341247	ERF3B_HUMAN	.	UPI0000073899	.	deleterious(0.02)	possibly_damaging(0.67)	1/1	.	hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF119	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGAGAAG	.	5	BLCA
HUWE1	0	.	GRCh37	X	53564591	53564591	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12063C>G	p.%3D	p.V4021V	ENST00000342160	77/83	36	9	27	8	8	0	HUWE1,synonymous_variant,p.%3D,ENST00000342160,;HUWE1,synonymous_variant,p.%3D,ENST00000427052,;HUWE1,synonymous_variant,p.%3D,ENST00000262854,;HUWE1,synonymous_variant,p.%3D,ENST00000426907,;HUWE1,non_coding_transcript_exon_variant,,ENST00000480438,;HUWE1,downstream_gene_variant,,ENST00000463852,;HUWE1,downstream_gene_variant,,ENST00000468322,;HUWE1,upstream_gene_variant,,ENST00000474971,;HUWE1,upstream_gene_variant,,ENST00000488459,;	C	ENSG00000086758	ENST00000342160	Transcript	synonymous_variant	12521	12063	4021	V	gtC/gtG	.	.	.	-1	HUWE1	HGNC	30892	protein_coding	YES	CCDS35301.1	ENSP00000340648	HUWE1_HUMAN	Q5H963_HUMAN	UPI00004A0DAC	.	.	.	77/83	.	hmmpanther:PTHR11254:SF67,hmmpanther:PTHR11254,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGACGGACATG	.	3	BLCA
XIST	0	.	GRCh37	X	73045181	73045181	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.14585C>G	.	.	ENST00000429829	6/6	57	16	40	31	31	0	XIST,non_coding_transcript_exon_variant,,ENST00000429829,;TSIX,non_coding_transcript_exon_variant,,ENST00000604411,;XIST,intron_variant,,ENST00000416330,;XIST,intron_variant,,ENST00000434839,;XIST,intron_variant,,ENST00000421322,;XIST,intron_variant,,ENST00000417942,;XIST,downstream_gene_variant,,ENST00000433732,;XIST,downstream_gene_variant,,ENST00000445814,;XIST,downstream_gene_variant,,ENST00000602587,;XIST,downstream_gene_variant,,ENST00000602863,;XIST,downstream_gene_variant,,ENST00000602495,;	C	ENSG00000229807	ENST00000429829	Transcript	non_coding_transcript_exon_variant	14585	.	.	.	.	.	.	.	-1	XIST	HGNC	12810	lincRNA	YES	.	.	.	.	.	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTGAAAGA	.	5	BLCA
ATP7A	0	.	GRCh37	X	77301812	77301812	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4248G>A	p.%3D	p.E1416E	ENST00000341514	23/23	170	50	119	91	91	0	ATP7A,synonymous_variant,p.%3D,ENST00000343533,;ATP7A,synonymous_variant,p.%3D,ENST00000350425,;ATP7A,synonymous_variant,p.%3D,ENST00000341514,;	A	ENSG00000165240	ENST00000341514	Transcript	synonymous_variant	4403	4248	1416	E	gaG/gaA	.	.	.	1	ATP7A	HGNC	869	protein_coding	YES	CCDS35339.1	ENSP00000345728	ATP7A_HUMAN	.	UPI000013E478	.	.	.	23/23	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACGAGAGTTA	.	5	BLCA
RPS6KA6	0	.	GRCh37	X	83372137	83372137	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN2-01A-11D-A42E-08	TCGA-XF-AAN2-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880C>G	p.Gln294Glu	p.Q294E	ENST00000262752	11/22	38	12	25	31	31	0	RPS6KA6,missense_variant,p.Gln294Glu,ENST00000262752,;RPS6KA6,missense_variant,p.Gln294Glu,ENST00000543399,;	C	ENSG00000072133	ENST00000262752	Transcript	missense_variant	888	880	294	Q/E	Caa/Gaa	.	.	.	-1	RPS6KA6	HGNC	10435	protein_coding	YES	CCDS14451.1	ENSP00000262752	KS6A6_HUMAN	.	UPI0000035B52	.	tolerated(0.17)	benign(0.091)	11/22	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF000606,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24351:SF49,hmmpanther:PTHR24351,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTGAGGCA	.	5	BLCA
C10orf2	0	.	GRCh37	10	102750229	102750229	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1521C>G	p.%3D	p.V507V	ENST00000311916	3/5	149	122	26	178	178	0	C10orf2,synonymous_variant,p.%3D,ENST00000311916,;C10orf2,synonymous_variant,p.%3D,ENST00000370228,;MRPL43,upstream_gene_variant,,ENST00000370241,;MRPL43,upstream_gene_variant,,ENST00000299179,;MRPL43,upstream_gene_variant,,ENST00000370236,;MRPL43,upstream_gene_variant,,ENST00000523148,;MRPL43,upstream_gene_variant,,ENST00000318364,;SEMA4G,downstream_gene_variant,,ENST00000210633,;MRPL43,upstream_gene_variant,,ENST00000448244,;MRPL43,upstream_gene_variant,,ENST00000342071,;MRPL43,upstream_gene_variant,,ENST00000477279,;MRPL43,upstream_gene_variant,,ENST00000318325,;MRPL43,upstream_gene_variant,,ENST00000370242,;MRPL43,upstream_gene_variant,,ENST00000370234,;RP11-108L7.4,upstream_gene_variant,,ENST00000447344,;C10orf2,non_coding_transcript_exon_variant,,ENST00000473656,;C10orf2,non_coding_transcript_exon_variant,,ENST00000476766,;SEMA4G,downstream_gene_variant,,ENST00000484128,;C10orf2,downstream_gene_variant,,ENST00000459764,;MRPL43,upstream_gene_variant,,ENST00000493646,;MRPL43,upstream_gene_variant,,ENST00000476012,;SEMA4G,downstream_gene_variant,,ENST00000521006,;MRPL43,upstream_gene_variant,,ENST00000487059,;	G	ENSG00000107815	ENST00000311916	Transcript	synonymous_variant	1706	1521	507	V	gtC/gtG	.	.	.	1	C10orf2	HGNC	1160	protein_coding	YES	CCDS7506.1	ENSP00000309595	PEO1_HUMAN	E5KSY5_HUMAN,Q9H6V3_HUMAN	UPI000006D9D6	.	.	.	3/5	.	PROSITE_profiles:PS51199,hmmpanther:PTHR12873,Gene3D:3.40.50.300,Pfam_domain:PF13481,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACGTCTATGA	.	5	BLCA
TCF7L2	0	.	GRCh37	10	114919695	114919695	+	Intron	SNP	G	G	A	rs12359833	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1319-683G>A	.	.	ENST00000543371	.	40	34	5	43	43	0	TCF7L2,synonymous_variant,p.%3D,ENST00000542695,;TCF7L2,synonymous_variant,p.%3D,ENST00000536810,;TCF7L2,synonymous_variant,p.%3D,ENST00000369386,;TCF7L2,synonymous_variant,p.%3D,ENST00000352065,;TCF7L2,synonymous_variant,p.%3D,ENST00000369397,;TCF7L2,synonymous_variant,p.%3D,ENST00000277945,;TCF7L2,synonymous_variant,p.%3D,ENST00000534894,;TCF7L2,synonymous_variant,p.%3D,ENST00000355995,;TCF7L2,intron_variant,,ENST00000538897,;TCF7L2,intron_variant,,ENST00000355717,;TCF7L2,intron_variant,,ENST00000369389,;TCF7L2,intron_variant,,ENST00000545257,;TCF7L2,intron_variant,,ENST00000543371,;TCF7L2,non_coding_transcript_exon_variant,,ENST00000476887,;TCF7L2,intron_variant,,ENST00000471569,;TCF7L2,intron_variant,,ENST00000466338,;TCF7L2,intron_variant,,ENST00000480888,;TCF7L2,upstream_gene_variant,,ENST00000494353,;TCF7L2,synonymous_variant,p.%3D,ENST00000470254,;	A	ENSG00000148737	ENST00000543371	Transcript	intron_variant	.	.	.	.	.	rs12359833	.	.	1	TCF7L2	HGNC	11641	protein_coding	YES	CCDS53577.1	ENSP00000444972	TF7L2_HUMAN	E2GH26_HUMAN,C6ZRJ8_HUMAN	UPI000002B4A6	.	.	.	.	12/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTAAGAAATG	byHapMap	4	BLCA
HABP2	0	.	GRCh37	10	115344005	115344005	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1336G>A	p.Glu446Lys	p.E446K	ENST00000351270	11/13	34	26	8	58	58	0	HABP2,missense_variant,p.Glu446Lys,ENST00000351270,;HABP2,missense_variant,p.Glu420Lys,ENST00000542051,;NRAP,downstream_gene_variant,,ENST00000369360,;NRAP,downstream_gene_variant,,ENST00000369358,;NRAP,downstream_gene_variant,,ENST00000360478,;HABP2,downstream_gene_variant,,ENST00000541666,;NRAP,downstream_gene_variant,,ENST00000359988,;	A	ENSG00000148702	ENST00000351270	Transcript	missense_variant	1432	1336	446	E/K	Gag/Aag	.	.	.	1	HABP2	HGNC	4798	protein_coding	YES	CCDS7577.1	ENSP00000277903	HABP2_HUMAN	.	UPI0000049411	.	deleterious(0)	probably_damaging(0.938)	11/13	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24272:SF5,hmmpanther:PTHR24272,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGAGTGAGTGC	.	3	BLCA
HABP2	0	.	GRCh37	10	115344018	115344018	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1349C>T	p.Ser450Phe	p.S450F	ENST00000351270	11/13	36	27	8	58	58	0	HABP2,missense_variant,p.Ser450Phe,ENST00000351270,;HABP2,missense_variant,p.Ser424Phe,ENST00000542051,;NRAP,downstream_gene_variant,,ENST00000369360,;NRAP,downstream_gene_variant,,ENST00000369358,;NRAP,downstream_gene_variant,,ENST00000360478,;HABP2,downstream_gene_variant,,ENST00000541666,;NRAP,downstream_gene_variant,,ENST00000359988,;	T	ENSG00000148702	ENST00000351270	Transcript	missense_variant	1445	1349	450	S/F	tCt/tTt	.	.	.	1	HABP2	HGNC	4798	protein_coding	YES	CCDS7577.1	ENSP00000277903	HABP2_HUMAN	.	UPI0000049411	.	deleterious(0)	probably_damaging(0.995)	11/13	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24272:SF5,hmmpanther:PTHR24272,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CATCTCTGGCT	.	3	BLCA
FAM160B1	0	.	GRCh37	10	116603614	116603614	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931G>C	p.Asp311His	p.D311H	ENST00000369248	7/17	41	28	13	60	60	0	FAM160B1,missense_variant,p.Asp311His,ENST00000369248,;FAM160B1,missense_variant,p.Asp311His,ENST00000369250,;	C	ENSG00000151553	ENST00000369248	Transcript	missense_variant	1266	931	311	D/H	Gac/Cac	.	.	.	1	FAM160B1	HGNC	29320	protein_coding	YES	CCDS31290.1	ENSP00000358251	F16B1_HUMAN	.	UPI0000160B10	.	deleterious(0.01)	possibly_damaging(0.676)	7/17	.	Pfam_domain:PF10257,hmmpanther:PTHR21705:SF2,hmmpanther:PTHR21705	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACAGACAGA	.	5	BLCA
HSPA12A	0	.	GRCh37	10	118434736	118434736	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1584C>G	p.Ile528Met	p.I528M	ENST00000369209	12/12	28	25	3	27	27	0	HSPA12A,missense_variant,p.Ile528Met,ENST00000369209,;RP11-498B4.5,downstream_gene_variant,,ENST00000433600,;C10orf82,upstream_gene_variant,,ENST00000588224,;	C	ENSG00000165868	ENST00000369209	Transcript	missense_variant	1689	1584	528	I/M	atC/atG	.	.	.	-1	HSPA12A	HGNC	19022	protein_coding	YES	CCDS41569.1	ENSP00000358211	HS12A_HUMAN	.	UPI00001B3DE3	.	deleterious(0)	probably_damaging(0.965)	12/12	.	hmmpanther:PTHR14187,hmmpanther:PTHR14187:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTTGATGAC	.	2	BLCA
UPF2	0	.	GRCh37	10	11994141	11994141	+	Missense_Mutation	SNP	C	C	G	rs530494975	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2958G>C	p.Lys986Asn	p.K986N	ENST00000356352	14/21	83	55	27	76	76	0	UPF2,missense_variant,p.Lys986Asn,ENST00000357604,;UPF2,missense_variant,p.Lys986Asn,ENST00000356352,;UPF2,missense_variant,p.Lys986Asn,ENST00000397053,;	G	ENSG00000151461	ENST00000356352	Transcript	missense_variant	3432	2958	986	K/N	aaG/aaC	rs530494975	.	.	-1	UPF2	HGNC	17854	protein_coding	YES	CCDS7086.1	ENSP00000348708	RENT2_HUMAN	B4DHP3_HUMAN	UPI0000070D5E	.	tolerated(0.07)	benign(0.396)	14/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12839,Gene3D:1.25.40.180,Pfam_domain:PF02854,SMART_domains:SM00543,Superfamily_domains:SSF48371	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATCTTTGG	by1000G	5	BLCA
TACC2	0	.	GRCh37	10	123842415	123842415	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.400C>T	p.Gln134Ter	p.Q134*	ENST00000369005	4/23	49	40	9	64	64	0	TACC2,stop_gained,p.Gln134Ter,ENST00000453444,;TACC2,stop_gained,p.Gln148Ter,ENST00000491540,;TACC2,stop_gained,p.Gln134Ter,ENST00000369005,;TACC2,stop_gained,p.Gln134Ter,ENST00000334433,;TACC2,stop_gained,p.Gln134Ter,ENST00000515603,;TACC2,stop_gained,p.Gln134Ter,ENST00000515273,;TACC2,intron_variant,,ENST00000358010,;TACC2,intron_variant,,ENST00000513429,;TACC2,downstream_gene_variant,,ENST00000498721,;	T	ENSG00000138162	ENST00000369005	Transcript	stop_gained	740	400	134	Q/*	Cag/Tag	.	.	.	1	TACC2	HGNC	11523	protein_coding	YES	CCDS7626.1	ENSP00000358001	TACC2_HUMAN	.	UPI0000246F6B	.	.	.	4/23	.	hmmpanther:PTHR13924,hmmpanther:PTHR13924:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTCCTCAGACT	.	3	BLCA
TACC2	0	.	GRCh37	10	123842421	123842421	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406C>G	p.Gln136Glu	p.Q136E	ENST00000369005	4/23	46	36	10	62	62	0	TACC2,missense_variant,p.Gln136Glu,ENST00000453444,;TACC2,missense_variant,p.Gln150Glu,ENST00000491540,;TACC2,missense_variant,p.Gln136Glu,ENST00000369005,;TACC2,missense_variant,p.Gln136Glu,ENST00000334433,;TACC2,missense_variant,p.Gln136Glu,ENST00000515603,;TACC2,missense_variant,p.Gln136Glu,ENST00000515273,;TACC2,intron_variant,,ENST00000358010,;TACC2,intron_variant,,ENST00000513429,;TACC2,downstream_gene_variant,,ENST00000498721,;	G	ENSG00000138162	ENST00000369005	Transcript	missense_variant	746	406	136	Q/E	Cag/Gag	.	.	.	1	TACC2	HGNC	11523	protein_coding	YES	CCDS7626.1	ENSP00000358001	TACC2_HUMAN	.	UPI0000246F6B	.	.	benign(0.184)	4/23	.	hmmpanther:PTHR13924,hmmpanther:PTHR13924:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGACTCAGTCT	.	3	BLCA
KIAA1217	0	.	GRCh37	10	24832487	24832487	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4288G>A	p.Asp1430Asn	p.D1430N	ENST00000376454	19/21	43	38	5	42	42	0	KIAA1217,missense_variant,p.Asp1430Asn,ENST00000376454,;KIAA1217,missense_variant,p.Asp1113Asn,ENST00000376451,;KIAA1217,intron_variant,,ENST00000396445,;KIAA1217,intron_variant,,ENST00000307544,;KIAA1217,intron_variant,,ENST00000396446,;KIAA1217,intron_variant,,ENST00000376452,;KIAA1217,intron_variant,,ENST00000376462,;KIAA1217,intron_variant,,ENST00000458595,;KIAA1217,non_coding_transcript_exon_variant,,ENST00000492009,;	A	ENSG00000120549	ENST00000376454	Transcript	missense_variant	4318	4288	1430	D/N	Gac/Aac	.	.	.	1	KIAA1217	HGNC	25428	protein_coding	YES	CCDS31165.1	ENSP00000365637	SKT_HUMAN	.	UPI000013EC2A	.	tolerated(0.1)	benign(0.208)	19/21	.	hmmpanther:PTHR22741,hmmpanther:PTHR22741:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGACTGACAAT	.	4	BLCA
LINC00264	0	.	GRCh37	10	26880331	26880331	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.566G>A	.	.	ENST00000412114	2/4	25	21	4	33	33	0	LINC00264,non_coding_transcript_exon_variant,,ENST00000412114,;	A	ENSG00000233261	ENST00000412114	Transcript	non_coding_transcript_exon_variant	566	.	.	.	.	.	.	.	1	LINC00264	HGNC	17776	lincRNA	YES	.	.	.	.	.	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGCTGAAACA	.	3	BLCA
RP11-85G18.6	0	.	GRCh37	10	27539728	27539728	+	RNA	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.997G>C	.	.	ENST00000574842	2/2	121	93	27	163	163	0	RP11-85G18.6,non_coding_transcript_exon_variant,,ENST00000574842,;LRRC37A6P,downstream_gene_variant,,ENST00000575554,;LRRC37A6P,downstream_gene_variant,,ENST00000574795,;LRRC37A6P,upstream_gene_variant,,ENST00000284414,;LRRC37A6P,non_coding_transcript_exon_variant,,ENST00000448648,;	C	ENSG00000262412	ENST00000574842	Transcript	non_coding_transcript_exon_variant	997	.	.	.	.	.	.	.	1	RP11-85G18.6	Clone_based_vega_gene	.	lincRNA	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATGATTTG	.	5	BLCA
FRMPD2	0	.	GRCh37	10	49452884	49452884	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318C>G	p.%3D	p.V106V	ENST00000374201	4/29	46	33	13	59	59	0	FRMPD2,synonymous_variant,p.%3D,ENST00000374201,;FRMPD2,intron_variant,,ENST00000407470,;FRMPD2,intron_variant,,ENST00000305531,;FRMPD2,non_coding_transcript_exon_variant,,ENST00000486151,;FRMPD2,non_coding_transcript_exon_variant,,ENST00000468556,;FRMPD2,downstream_gene_variant,,ENST00000492045,;	C	ENSG00000170324	ENST00000374201	Transcript	synonymous_variant	621	318	106	V	gtC/gtG	.	.	.	-1	FRMPD2	HGNC	28572	protein_coding	YES	CCDS31195.1	ENSP00000363317	FRPD2_HUMAN	.	UPI0000D60F5F	.	.	.	4/29	.	PROSITE_profiles:PS51377,SMART_domains:SM00750	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATAGACATG	.	5	BLCA
TTC18	0	.	GRCh37	10	75051149	75051149	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2284G>T	p.Glu762Ter	p.E762*	ENST00000310715	20/28	74	66	8	80	80	0	TTC18,stop_gained,p.Glu762Ter,ENST00000401621,;TTC18,stop_gained,p.Glu231Ter,ENST00000355577,;TTC18,stop_gained,p.Glu169Ter,ENST00000433268,;TTC18,stop_gained,p.Glu762Ter,ENST00000310715,;TTC18,stop_gained,p.Glu762Ter,ENST00000394865,;TTC18,intron_variant,,ENST00000340329,;TTC18,non_coding_transcript_exon_variant,,ENST00000493787,;TTC18,non_coding_transcript_exon_variant,,ENST00000495161,;TTC18,non_coding_transcript_exon_variant,,ENST00000462684,;	A	ENSG00000156042	ENST00000310715	Transcript	stop_gained	2405	2284	762	E/*	Gag/Tag	.	.	.	-1	TTC18	HGNC	30726	protein_coding	YES	CCDS7324.3	ENSP00000310829	.	.	UPI00001AEF7A	.	.	.	20/28	.	hmmpanther:PTHR23083,hmmpanther:PTHR23083:SF361,SMART_domains:SM00028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCATGAA	.	4	BLCA
MYOF	0	.	GRCh37	10	95069870	95069870	+	Missense_Mutation	SNP	G	G	C	rs747685413	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6054C>G	p.Phe2018Leu	p.F2018L	ENST00000359263	53/54	51	39	12	48	48	0	MYOF,missense_variant,p.Phe2008Leu,ENST00000371502,;MYOF,missense_variant,p.Phe2005Leu,ENST00000358334,;MYOF,missense_variant,p.Phe2018Leu,ENST00000371501,;MYOF,missense_variant,p.Phe2018Leu,ENST00000359263,;MYOF,3_prime_UTR_variant,,ENST00000463743,;	C	ENSG00000138119	ENST00000359263	Transcript	missense_variant	6054	6054	2018	F/L	ttC/ttG	rs747685413	.	.	-1	MYOF	HGNC	3656	protein_coding	YES	CCDS41551.1	ENSP00000352208	MYOF_HUMAN	.	UPI000012FBA1	.	deleterious(0.04)	possibly_damaging(0.694)	53/54	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGATGAACTT	.	5	BLCA
MYOF	0	.	GRCh37	10	95079754	95079754	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5473G>T	p.Glu1825Ter	p.E1825*	ENST00000359263	49/54	34	21	13	61	61	0	MYOF,stop_gained,p.Glu1815Ter,ENST00000371502,;MYOF,stop_gained,p.Glu1812Ter,ENST00000358334,;MYOF,stop_gained,p.Glu1825Ter,ENST00000371501,;MYOF,stop_gained,p.Glu1825Ter,ENST00000359263,;MYOF,downstream_gene_variant,,ENST00000485212,;MYOF,3_prime_UTR_variant,,ENST00000463743,;MYOF,downstream_gene_variant,,ENST00000474161,;	A	ENSG00000138119	ENST00000359263	Transcript	stop_gained	5473	5473	1825	E/*	Gaa/Taa	.	.	.	-1	MYOF	HGNC	3656	protein_coding	YES	CCDS41551.1	ENSP00000352208	MYOF_HUMAN	.	UPI000012FBA1	.	.	.	49/54	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF38,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCATTGC	.	5	BLCA
MUC2	0	.	GRCh37	11	1078358	1078358	+	Silent	SNP	C	C	T	rs369782821	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645C>T	p.%3D	p.P215P	ENST00000441003	5/49	38	31	6	61	61	0	MUC2,synonymous_variant,p.%3D,ENST00000441003,;MUC2,synonymous_variant,p.%3D,ENST00000359061,;	T	ENSG00000198788	ENST00000441003	Transcript	synonymous_variant	672	645	215	P	ccC/ccT	rs369782821	.	.	1	MUC2	HGNC	7512	protein_coding	YES	.	ENSP00000415183	.	Q9UMI9_HUMAN,Q9HBC6_HUMAN,H0Y2U6_HUMAN,E7EUV1_HUMAN	UPI00006C10F2	.	.	.	5/49	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51233,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF261	T:0.0004	T:0.0008	T:0.0014	.	T:0	T:0	T:0	T:0.0007	T:0.0005	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCCCGCATC	byFrequency|byCluster|by1000G	5	BLCA
HSPA8	0	.	GRCh37	11	122930538	122930538	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763G>T	p.Glu255Ter	p.E255*	ENST00000534624	5/9	55	49	6	52	52	0	HSPA8,stop_gained,p.Glu19Ter,ENST00000534319,;HSPA8,stop_gained,p.Glu236Ter,ENST00000526110,;HSPA8,stop_gained,p.Glu195Ter,ENST00000528292,;HSPA8,stop_gained,p.Glu255Ter,ENST00000453788,;HSPA8,stop_gained,p.Glu255Ter,ENST00000227378,;HSPA8,stop_gained,p.Glu255Ter,ENST00000532636,;HSPA8,stop_gained,p.Glu109Ter,ENST00000533540,;HSPA8,stop_gained,p.Glu255Ter,ENST00000534624,;HSPA8,downstream_gene_variant,,ENST00000525463,;HSPA8,downstream_gene_variant,,ENST00000525624,;HSPA8,downstream_gene_variant,,ENST00000532182,;HSPA8,downstream_gene_variant,,ENST00000534567,;HSPA8,downstream_gene_variant,,ENST00000530391,;HSPA8,downstream_gene_variant,,ENST00000527387,;HSPA8,upstream_gene_variant,,ENST00000524552,;HSPA8,downstream_gene_variant,,ENST00000524590,;HSPA8,upstream_gene_variant,,ENST00000526686,;SNORD14D,upstream_gene_variant,,ENST00000384390,;SNORD14E,upstream_gene_variant,,ENST00000364009,;SNORD14C,upstream_gene_variant,,ENST00000365382,;HSPA8,intron_variant,,ENST00000526862,;HSPA8,intron_variant,,ENST00000533238,;HSPA8,non_coding_transcript_exon_variant,,ENST00000527983,;HSPA8,non_coding_transcript_exon_variant,,ENST00000532780,;HSPA8,non_coding_transcript_exon_variant,,ENST00000532091,;HSPA8,downstream_gene_variant,,ENST00000531063,;HSPA8,downstream_gene_variant,,ENST00000532167,;	A	ENSG00000109971	ENST00000534624	Transcript	stop_gained	1040	763	255	E/*	Gag/Tag	.	.	.	-1	HSPA8	HGNC	5241	protein_coding	YES	CCDS8440.1	ENSP00000432083	HSP7C_HUMAN	Q9NZ87_HUMAN,Q96IS6_HUMAN,Q96H53_HUMAN,Q96BE0_HUMAN,E9PS65_HUMAN,E9PQQ4_HUMAN,E9PQK7_HUMAN,E9PPY6_HUMAN,E9PN89_HUMAN,E9PN25_HUMAN,E9PM13_HUMAN,E9PLF4_HUMAN,E9PK54_HUMAN,A8K7Q2_HUMAN	UPI0000000801	.	.	.	5/9	.	hmmpanther:PTHR19375,hmmpanther:PTHR19375:SF156,Pfam_domain:PF00012,Gene3D:3.90.640.10,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N256S|c.767A>G|5	MUTECT|MUSE|VARSCANS	GTTCTCACTGA	.	3	BLCA
FAM118B	0	.	GRCh37	11	126120446	126120446	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.385G>A	p.Glu129Lys	p.E129K	ENST00000533050	5/9	46	41	5	47	47	0	FAM118B,missense_variant,p.Glu129Lys,ENST00000528985,;FAM118B,missense_variant,p.Glu129Lys,ENST00000360194,;FAM118B,missense_variant,p.Glu129Lys,ENST00000533050,;FAM118B,missense_variant,p.Glu129Lys,ENST00000530043,;FAM118B,intron_variant,,ENST00000525338,;FAM118B,intron_variant,,ENST00000529731,;FAM118B,non_coding_transcript_exon_variant,,ENST00000525728,;	A	ENSG00000197798	ENST00000533050	Transcript	missense_variant	878	385	129	E/K	Gaa/Aaa	.	.	.	1	FAM118B	HGNC	26110	protein_coding	YES	CCDS8470.1	ENSP00000433343	F118B_HUMAN	E9PMW3_HUMAN	UPI000004A026	.	deleterious(0.03)	benign(0.293)	5/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATATGAAGTA	.	4	BLCA
ARHGAP32	0	.	GRCh37	11	128868268	128868268	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099G>C	p.Glu367Gln	p.E367Q	ENST00000310343	11/22	103	81	21	116	116	0	ARHGAP32,missense_variant,p.Glu293Gln,ENST00000524655,;ARHGAP32,missense_variant,p.Glu18Gln,ENST00000527272,;ARHGAP32,missense_variant,p.Glu18Gln,ENST00000392657,;ARHGAP32,missense_variant,p.Glu367Gln,ENST00000310343,;ARHGAP32,non_coding_transcript_exon_variant,,ENST00000526162,;ARHGAP32,non_coding_transcript_exon_variant,,ENST00000533509,;	G	ENSG00000134909	ENST00000310343	Transcript	missense_variant	1099	1099	367	E/Q	Gag/Cag	.	.	.	-1	ARHGAP32	HGNC	17399	protein_coding	YES	CCDS44769.1	ENSP00000310561	RHG32_HUMAN	I7H0B0_HUMAN	UPI000159C61F	.	tolerated(0.05)	probably_damaging(0.991)	11/22	.	hmmpanther:PTHR15729,hmmpanther:PTHR15729:SF9,Gene3D:1.10.555.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTTTCA	.	5	BLCA
TPH1	0	.	GRCh37	11	18054835	18054835	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.388G>C	p.Asp130His	p.D130H	ENST00000250018	3/10	153	124	29	145	145	0	TPH1,missense_variant,p.Asp140His,ENST00000528338,;TPH1,missense_variant,p.Asp130His,ENST00000250018,;TPH1,missense_variant,p.Asp130His,ENST00000341556,;TPH1,missense_variant,p.Asp130His,ENST00000417164,;	G	ENSG00000129167	ENST00000250018	Transcript	missense_variant	951	388	130	D/H	Gat/Cat	.	.	.	-1	TPH1	HGNC	12008	protein_coding	YES	CCDS7829.1	ENSP00000250018	TPH1_HUMAN	B3VS10_HUMAN,B3VS05_HUMAN,B3VS00_HUMAN,B3VRZ5_HUMAN,B3VRZ0_HUMAN,B3VRY5_HUMAN,B3VRY0_HUMAN,B3VRX5_HUMAN,B3VRX0_HUMAN,B3VRW5_HUMAN	UPI000013CC9C	.	deleterious(0)	probably_damaging(0.989)	3/10	.	PROSITE_profiles:PS51410,hmmpanther:PTHR11473,hmmpanther:PTHR11473:SF23,TIGRFAM_domain:TIGR01270,Pfam_domain:PF00351,Gene3D:1.10.800.10,PIRSF_domain:PIRSF000336,Superfamily_domains:SSF56534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCATCTAGTT	.	4	BLCA
CARS	0	.	GRCh37	11	3022397	3022397	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2443G>T	p.Glu815Ter	p.E815*	ENST00000380525	23/23	56	47	9	85	85	0	CARS,stop_gained,p.Glu732Ter,ENST00000397111,;CARS,stop_gained,p.Glu815Ter,ENST00000380525,;CARS,stop_gained,p.Glu722Ter,ENST00000397114,;CARS,3_prime_UTR_variant,,ENST00000278224,;CARS,3_prime_UTR_variant,,ENST00000401769,;CARS,non_coding_transcript_exon_variant,,ENST00000470221,;CARS,3_prime_UTR_variant,,ENST00000529772,;CARS,3_prime_UTR_variant,,ENST00000531387,;CARS,non_coding_transcript_exon_variant,,ENST00000484484,;CARS,non_coding_transcript_exon_variant,,ENST00000526890,;CARS,non_coding_transcript_exon_variant,,ENST00000466442,;	A	ENSG00000110619	ENST00000380525	Transcript	stop_gained	2513	2443	815	E/*	Gag/Tag	.	.	.	-1	CARS	HGNC	1493	protein_coding	YES	CCDS41600.1	ENSP00000369897	SYCC_HUMAN	.	UPI00004C4152	.	.	.	23/23	.	hmmpanther:PTHR10890,hmmpanther:PTHR10890:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCTGAG	.	5	BLCA
CHST1	0	.	GRCh37	11	45672396	45672396	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78C>T	p.%3D	p.F26F	ENST00000308064	4/4	31	21	10	46	46	0	CHST1,synonymous_variant,p.%3D,ENST00000308064,;RP11-495O11.1,upstream_gene_variant,,ENST00000525563,;CHST1,upstream_gene_variant,,ENST00000533673,;CHST1,downstream_gene_variant,,ENST00000531322,;	A	ENSG00000175264	ENST00000308064	Transcript	synonymous_variant	749	78	26	F	ttC/ttT	.	.	.	-1	CHST1	HGNC	1969	protein_coding	YES	CCDS7913.1	ENSP00000309270	CHST1_HUMAN	.	UPI0000073EA0	.	.	.	4/4	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10704:SF36,hmmpanther:PTHR10704,PIRSF_domain:PIRSF005883	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGTGAAGGT	.	5	BLCA
OR5AP2	0	.	GRCh37	11	56409882	56409882	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34C>G	p.Gln12Glu	p.Q12E	ENST00000302981	1/1	52	39	13	62	62	0	OR5AP2,missense_variant,p.Gln12Glu,ENST00000302981,;OR5AP2,missense_variant,p.Gln13Glu,ENST00000544374,;AP002517.1,downstream_gene_variant,,ENST00000584225,;	C	ENSG00000172464	ENST00000302981	Transcript	missense_variant	34	34	12	Q/E	Caa/Gaa	.	.	.	-1	OR5AP2	HGNC	15258	protein_coding	YES	CCDS31534.1	ENSP00000303111	O5AP2_HUMAN	.	UPI0000061EE6	.	tolerated(0.27)	benign(0.002)	1/1	.	hmmpanther:PTHR26452:SF151,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTGATTTC	.	5	BLCA
CLP1	0	.	GRCh37	11	57427173	57427173	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225G>C	p.%3D	p.L75L	ENST00000533682	2/3	45	34	11	65	65	0	CLP1,synonymous_variant,p.%3D,ENST00000302731,;CLP1,synonymous_variant,p.%3D,ENST00000533682,;CLP1,synonymous_variant,p.%3D,ENST00000525602,;CLP1,synonymous_variant,p.%3D,ENST00000529773,;CLP1,synonymous_variant,p.%3D,ENST00000529430,;CLP1,synonymous_variant,p.%3D,ENST00000533905,;	C	ENSG00000172409	ENST00000533682	Transcript	synonymous_variant	950	225	75	L	ctG/ctC	.	.	.	1	CLP1	HGNC	16999	protein_coding	YES	CCDS7964.1	ENSP00000434995	CLP1_HUMAN	E9PKV5_HUMAN,E9PJM4_HUMAN	UPI000012754A	.	.	.	2/3	.	HAMAP:MF_03035,hmmpanther:PTHR12755:SF6,hmmpanther:PTHR12755	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTGAGCGG	.	5	BLCA
OR9I1	0	.	GRCh37	11	57886509	57886509	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.408G>A	p.Met136Ile	p.M136I	ENST00000302610	1/1	29	24	5	36	36	0	OR9I1,missense_variant,p.Met136Ile,ENST00000302610,;OR9Q1,intron_variant,,ENST00000335397,;	T	ENSG00000172377	ENST00000302610	Transcript	missense_variant	408	408	136	M/I	atG/atA	.	.	.	-1	OR9I1	HGNC	14718	protein_coding	YES	CCDS31542.1	ENSP00000302606	OR9I1_HUMAN	.	UPI0000041B43	.	deleterious(0.02)	benign(0.023)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF232,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGATTCATGGC	.	4	BLCA
OR9Q2	0	.	GRCh37	11	57957998	57957998	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36C>T	p.%3D	p.F12F	ENST00000311591	1/1	36	28	8	36	36	0	OR9Q2,synonymous_variant,p.%3D,ENST00000311591,;	T	ENSG00000186513	ENST00000311591	Transcript	synonymous_variant	93	36	12	F	ttC/ttT	COSM1746343	.	.	1	OR9Q2	HGNC	15328	protein_coding	YES	CCDS31544.1	ENSP00000308714	OR9Q2_HUMAN	.	UPI0000061ECB	.	.	.	1/1	.	hmmpanther:PTHR26452:SF155,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCTTCCT	.	5	BLCA
GLYAT	0	.	GRCh37	11	58477188	58477188	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51G>C	.	.	ENST00000344743	6/6	29	25	4	28	28	0	GLYAT,3_prime_UTR_variant,,ENST00000529732,;GLYAT,3_prime_UTR_variant,,ENST00000344743,;GLYAT,intron_variant,,ENST00000586098,;GLYAT,downstream_gene_variant,,ENST00000278400,;	G	ENSG00000149124	ENST00000344743	Transcript	3_prime_UTR_variant	1084	.	.	.	.	.	.	.	-1	GLYAT	HGNC	13734	protein_coding	YES	CCDS7970.1	ENSP00000340200	GLYAT_HUMAN	.	UPI00003667C7	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCAAATT	.	2	BLCA
OR4D6	0	.	GRCh37	11	59224445	59224445	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12C>A	p.%3D	p.I4I	ENST00000300127	1/1	86	72	14	93	93	0	OR4D6,synonymous_variant,p.%3D,ENST00000300127,;	A	ENSG00000166884	ENST00000300127	Transcript	synonymous_variant	35	12	4	I	atC/atA	.	.	.	1	OR4D6	HGNC	15175	protein_coding	YES	CCDS31562.1	ENSP00000300127	OR4D6_HUMAN	.	UPI0000046487	.	.	.	1/1	.	hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF300,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCAACCA	.	5	BLCA
TAF6L	0	.	GRCh37	11	62554012	62554012	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1113G>C	p.Lys371Asn	p.K371N	ENST00000294168	11/11	10	6	4	16	16	0	TAF6L,missense_variant,p.Lys371Asn,ENST00000294168,;TMEM223,intron_variant,,ENST00000528367,;TMEM179B,upstream_gene_variant,,ENST00000526546,;TMEM179B,upstream_gene_variant,,ENST00000533861,;TMEM223,downstream_gene_variant,,ENST00000525631,;TMEM179B,upstream_gene_variant,,ENST00000333449,;TMEM223,downstream_gene_variant,,ENST00000307366,;RP11-727F15.12,non_coding_transcript_exon_variant,,ENST00000601484,;TMEM223,intron_variant,,ENST00000527073,;TMEM179B,upstream_gene_variant,,ENST00000532586,;TAF6L,downstream_gene_variant,,ENST00000533823,;TAF6L,downstream_gene_variant,,ENST00000531265,;TAF6L,downstream_gene_variant,,ENST00000524976,;TMEM179B,upstream_gene_variant,,ENST00000532345,;	C	ENSG00000162227	ENST00000294168	Transcript	missense_variant	1314	1113	371	K/N	aaG/aaC	.	.	.	1	TAF6L	HGNC	17305	protein_coding	YES	CCDS8035.1	ENSP00000294168	TAF6L_HUMAN	E9PP94_HUMAN,E9PLV8_HUMAN	UPI00000720C0	.	deleterious(0)	possibly_damaging(0.664)	11/11	.	hmmpanther:PTHR10221:SF9,hmmpanther:PTHR10221	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGAAGATGAA	.	3	BLCA
DPF2	0	.	GRCh37	11	65113460	65113460	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.835G>T	p.Asp279Tyr	p.D279Y	ENST00000528416	8/11	91	65	26	98	98	0	DPF2,missense_variant,p.Asp293Tyr,ENST00000252268,;DPF2,missense_variant,p.Asp279Tyr,ENST00000528416,;DPF2,synonymous_variant,p.%3D,ENST00000531989,;DPF2,intron_variant,,ENST00000415073,;DPF2,non_coding_transcript_exon_variant,,ENST00000532264,;DPF2,downstream_gene_variant,,ENST00000530993,;DPF2,non_coding_transcript_exon_variant,,ENST00000532052,;DPF2,non_coding_transcript_exon_variant,,ENST00000524666,;DPF2,non_coding_transcript_exon_variant,,ENST00000530973,;DPF2,downstream_gene_variant,,ENST00000532102,;DPF2,downstream_gene_variant,,ENST00000532492,;DPF2,downstream_gene_variant,,ENST00000444314,;	T	ENSG00000133884	ENST00000528416	Transcript	missense_variant	968	835	279	D/Y	Gac/Tac	.	.	.	1	DPF2	HGNC	9964	protein_coding	YES	CCDS8100.1	ENSP00000436901	REQU_HUMAN	.	UPI000000D90F	.	deleterious(0.01)	probably_damaging(0.993)	8/11	.	PROSITE_profiles:PS50016,hmmpanther:PTHR10615:SF13,hmmpanther:PTHR10615,Gene3D:3.30.40.10,SMART_domains:SM00249,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGGGACTCA	.	5	BLCA
FOSL1	0	.	GRCh37	11	65660635	65660635	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>T	p.Glu180Ter	p.E180*	ENST00000312562	4/4	19	16	3	21	21	0	FOSL1,stop_gained,p.Glu78Ter,ENST00000448083,;FOSL1,stop_gained,p.Glu144Ter,ENST00000531493,;FOSL1,stop_gained,p.Glu180Ter,ENST00000312562,;FOSL1,3_prime_UTR_variant,,ENST00000532401,;FOSL1,5_prime_UTR_variant,,ENST00000534222,;FIBP,upstream_gene_variant,,ENST00000357519,;CCDC85B,downstream_gene_variant,,ENST00000312579,;FIBP,upstream_gene_variant,,ENST00000338369,;FIBP,upstream_gene_variant,,ENST00000533045,;FIBP,upstream_gene_variant,,ENST00000426652,;FIBP,upstream_gene_variant,,ENST00000532229,;FIBP,upstream_gene_variant,,ENST00000532679,;FIBP,upstream_gene_variant,,ENST00000528937,;FIBP,upstream_gene_variant,,ENST00000533037,;FIBP,upstream_gene_variant,,ENST00000442885,;	A	ENSG00000175592	ENST00000312562	Transcript	stop_gained	725	538	180	E/*	Gag/Tag	.	.	.	-1	FOSL1	HGNC	13718	protein_coding	YES	CCDS8121.1	ENSP00000310170	FOSL1_HUMAN	.	UPI0000049C8A	.	.	.	4/4	.	hmmpanther:PTHR23351:SF6,hmmpanther:PTHR23351	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTCCTTGG	.	2	BLCA
POLD4	0	.	GRCh37	11	67120919	67120919	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-49C>G	.	.	ENST00000312419	1/4	10	6	4	16	16	0	POLD4,5_prime_UTR_variant,,ENST00000539074,;POLD4,5_prime_UTR_variant,,ENST00000312419,;POLD4,intron_variant,,ENST00000532830,;POLD4,intron_variant,,ENST00000529704,;AP003419.11,intron_variant,,ENST00000543494,;POLD4,5_prime_UTR_variant,,ENST00000531239,;POLD4,5_prime_UTR_variant,,ENST00000530584,;POLD4,non_coding_transcript_exon_variant,,ENST00000529000,;POLD4,non_coding_transcript_exon_variant,,ENST00000528087,;POLD4,non_coding_transcript_exon_variant,,ENST00000542982,;POLD4,non_coding_transcript_exon_variant,,ENST00000525255,;POLD4,non_coding_transcript_exon_variant,,ENST00000534515,;POLD4,intron_variant,,ENST00000524743,;POLD4,upstream_gene_variant,,ENST00000533429,;	C	ENSG00000175482	ENST00000312419	Transcript	5_prime_UTR_variant	99	.	.	.	.	.	.	.	-1	POLD4	HGNC	14106	protein_coding	YES	CCDS8158.1	ENSP00000311368	DPOD4_HUMAN	.	UPI0000129741	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGGAGAGACC	.	3	BLCA
CORO1B	0	.	GRCh37	11	67208697	67208697	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655G>T	p.Glu219Ter	p.E219*	ENST00000393893	7/12	92	74	18	117	117	0	CORO1B,stop_gained,p.Glu219Ter,ENST00000341356,;CORO1B,stop_gained,p.Glu219Ter,ENST00000453768,;CORO1B,stop_gained,p.Glu219Ter,ENST00000393893,;PTPRCAP,upstream_gene_variant,,ENST00000326294,;CORO1B,downstream_gene_variant,,ENST00000545016,;CORO1B,upstream_gene_variant,,ENST00000539970,;CORO1B,downstream_gene_variant,,ENST00000537010,;CORO1B,downstream_gene_variant,,ENST00000545736,;CORO1B,upstream_gene_variant,,ENST00000539724,;CORO1B,stop_gained,p.Glu219Ter,ENST00000537042,;	A	ENSG00000172725	ENST00000393893	Transcript	stop_gained	759	655	219	E/*	Gag/Tag	.	.	.	-1	CORO1B	HGNC	2253	protein_coding	YES	CCDS8164.1	ENSP00000377471	COR1B_HUMAN	.	UPI0000127C42	.	.	.	7/12	.	hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF16,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCATGAG	.	5	BLCA
FAM86C1	0	.	GRCh37	11	71511823	71511823	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1130G>C	.	.	ENST00000359244	5/5	20	16	4	35	35	0	FAM86C1,3_prime_UTR_variant,,ENST00000346333,;FAM86C1,3_prime_UTR_variant,,ENST00000359244,;FAM86C1,downstream_gene_variant,,ENST00000426628,;AP002495.1,downstream_gene_variant,,ENST00000581755,;CTD-2313N18.5,intron_variant,,ENST00000524714,;CTD-2313N18.5,intron_variant,,ENST00000511954,;FAM86C1,downstream_gene_variant,,ENST00000510443,;FAM86C1,downstream_gene_variant,,ENST00000528685,;FAM86C1,downstream_gene_variant,,ENST00000526393,;ALG1L9P,non_coding_transcript_exon_variant,,ENST00000532875,;	C	ENSG00000158483	ENST00000359244	Transcript	3_prime_UTR_variant	1651	.	.	.	.	.	.	.	1	FAM86C1	HGNC	25561	protein_coding	YES	CCDS41686.1	ENSP00000352182	FA86C_HUMAN	D6R9N2_HUMAN	UPI000013DF79	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTTTGAGAAA	.	4	BLCA
RAB6A	0	.	GRCh37	11	73429663	73429663	+	Intron	SNP	A	A	T	rs769442186	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289+167T>A	.	.	ENST00000310653	.	35	21	13	28	28	0	RAB6A,missense_variant,p.Ile95Asn,ENST00000336083,;RAB6A,missense_variant,p.Ile87Asn,ENST00000400470,;RAB6A,intron_variant,,ENST00000540771,;RAB6A,intron_variant,,ENST00000541973,;RAB6A,intron_variant,,ENST00000310653,;RAB6A,intron_variant,,ENST00000536566,;RAB6A,intron_variant,,ENST00000541588,;RP11-456I15.2,upstream_gene_variant,,ENST00000538624,;RAB6A,intron_variant,,ENST00000537446,;RAB6A,intron_variant,,ENST00000545625,;	T	ENSG00000175582	ENST00000310653	Transcript	intron_variant	.	.	.	.	.	rs769442186	.	.	-1	RAB6A	HGNC	9786	protein_coding	YES	CCDS8223.1	ENSP00000311449	RAB6A_HUMAN	Q9UL30_HUMAN	UPI000002B21A	.	.	.	.	4/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTGATATCA	.	5	BLCA
SYTL2	0	.	GRCh37	11	85438956	85438956	+	5'Flank	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000354566	.	27	22	4	17	17	0	SYTL2,missense_variant,p.Ser481Cys,ENST00000528231,;SYTL2,missense_variant,p.Ser481Cys,ENST00000389960,;SYTL2,missense_variant,p.Ser433Cys,ENST00000527523,;SYTL2,missense_variant,p.Ser39Cys,ENST00000359152,;SYTL2,missense_variant,p.Ser481Cys,ENST00000524452,;SYTL2,missense_variant,p.Ser482Cys,ENST00000316356,;SYTL2,5_prime_UTR_variant,,ENST00000525423,;SYTL2,upstream_gene_variant,,ENST00000530351,;SYTL2,upstream_gene_variant,,ENST00000354566,;SYTL2,upstream_gene_variant,,ENST00000389959,;	C	ENSG00000137501	ENST00000354566	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1445	-1	SYTL2	HGNC	15585	protein_coding	YES	CCDS31651.1	ENSP00000346576	SYTL2_HUMAN	Q9BQS1_HUMAN,E9PS39_HUMAN,E9PS29_HUMAN,E9PRW5_HUMAN,E9PK22_HUMAN	UPI0000352C78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTAGAACTG	.	4	BLCA
HSP90B1	0	.	GRCh37	12	104332181	104332181	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.919G>T	p.Asp307Tyr	p.D307Y	ENST00000299767	7/18	14	9	5	16	16	0	HSP90B1,missense_variant,p.Asp307Tyr,ENST00000299767,;HSP90B1,non_coding_transcript_exon_variant,,ENST00000548462,;HSP90B1,non_coding_transcript_exon_variant,,ENST00000550479,;HSP90B1,downstream_gene_variant,,ENST00000540297,;HSP90B1,upstream_gene_variant,,ENST00000551983,;	T	ENSG00000166598	ENST00000299767	Transcript	missense_variant	1101	919	307	D/Y	Gat/Tat	.	.	.	1	HSP90B1	HGNC	12028	protein_coding	YES	CCDS9094.1	ENSP00000299767	ENPL_HUMAN	Q5CAQ5_HUMAN,F8W026_HUMAN,B4DHT9_HUMAN	UPI0000129FBA	.	deleterious(0)	probably_damaging(0.936)	7/18	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,HAMAP:MF_00505,hmmpanther:PTHR11528,hmmpanther:PTHR11528:SF44,Pfam_domain:PF00183,PIRSF_domain:PIRSF002583	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTGATGAT	.	5	BLCA
KLRC3	0	.	GRCh37	12	10570948	10570948	+	Missense_Mutation	SNP	C	C	G	rs763099172	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481G>C	p.Glu161Gln	p.E161Q	ENST00000381903	4/6	135	106	28	87	87	0	KLRC3,missense_variant,p.Glu161Gln,ENST00000381904,;NKG2-E,missense_variant,p.Glu161Gln,ENST00000539033,;KLRC3,missense_variant,p.Glu161Gln,ENST00000396439,;KLRC3,missense_variant,p.Glu161Gln,ENST00000381903,;	G	ENSG00000205810	ENST00000381903	Transcript	missense_variant	481	481	161	E/Q	Gaa/Caa	rs763099172	.	.	-1	KLRC3	HGNC	6376	protein_coding	YES	CCDS31744.1	ENSP00000371328	NKG2E_HUMAN	.	UPI00001AF2AC	.	deleterious(0)	probably_damaging(0.993)	4/6	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22800:SF162,hmmpanther:PTHR22800,Pfam_domain:PF00059,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTTCTT	.	5	BLCA
MYO1H	0	.	GRCh37	12	109865341	109865341	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1851G>T	p.%3D	p.V617V	ENST00000310903	19/32	131	103	28	151	150	1	MYO1H,synonymous_variant,p.%3D,ENST00000431443,;MYO1H,synonymous_variant,p.%3D,ENST00000310903,;	T	ENSG00000174527	ENST00000310903	Transcript	synonymous_variant	1957	1851	617	V	gtG/gtT	.	.	.	1	MYO1H	HGNC	13879	protein_coding	YES	CCDS53826.1	ENSP00000439182	.	S4R387_HUMAN,F5H3C6_HUMAN	UPI0001AFF951	.	.	.	19/32	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,Pfam_domain:PF00063,hmmpanther:PTHR13140:SF353,hmmpanther:PTHR13140,PROSITE_profiles:PS51456	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGTGAGACG	.	5	BLCA
KCTD10	0	.	GRCh37	12	109889599	109889599	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743G>T	p.Arg248Leu	p.R248L	ENST00000228495	7/7	31	11	20	32	32	0	KCTD10,missense_variant,p.Arg67Leu,ENST00000542954,;KCTD10,missense_variant,p.Arg248Leu,ENST00000228495,;KCTD10,missense_variant,p.Arg67Leu,ENST00000535546,;KCTD10,missense_variant,p.Arg67Leu,ENST00000540355,;KCTD10,missense_variant,p.Arg67Leu,ENST00000540089,;KCTD10,missense_variant,p.Arg222Leu,ENST00000540411,;KCTD10,missense_variant,p.Arg67Leu,ENST00000424763,;MYO1H,downstream_gene_variant,,ENST00000431443,;KCTD10,downstream_gene_variant,,ENST00000542262,;KCTD10,downstream_gene_variant,,ENST00000542858,;MYO1H,downstream_gene_variant,,ENST00000310903,;RP11-256L11.3,upstream_gene_variant,,ENST00000539987,;KCTD10,non_coding_transcript_exon_variant,,ENST00000538161,;KCTD10,3_prime_UTR_variant,,ENST00000537165,;KCTD10,3_prime_UTR_variant,,ENST00000440541,;KCTD10,non_coding_transcript_exon_variant,,ENST00000540402,;KCTD10,non_coding_transcript_exon_variant,,ENST00000545759,;MYO1H,intron_variant,,ENST00000543960,;KCTD10,downstream_gene_variant,,ENST00000541077,;MYO1H,downstream_gene_variant,,ENST00000542268,;	A	ENSG00000110906	ENST00000228495	Transcript	missense_variant	1025	743	248	R/L	cGg/cTg	.	.	.	-1	KCTD10	HGNC	23236	protein_coding	YES	CCDS9128.1	ENSP00000228495	BACD3_HUMAN	F5H268_HUMAN,F5GY15_HUMAN,F5GWK6_HUMAN,B3KVY5_HUMAN	UPI000004DAE1	.	deleterious(0)	probably_damaging(0.998)	7/7	.	hmmpanther:PTHR11145,hmmpanther:PTHR11145:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATCCGGGCT	.	5	BLCA
FAM222A	0	.	GRCh37	12	110182014	110182014	+	Missense_Mutation	SNP	G	G	C	rs769832614	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.63G>C	p.Lys21Asn	p.K21N	ENST00000538780	2/3	19	16	3	22	22	0	FAM222A,missense_variant,p.Lys21Asn,ENST00000538780,;FAM222A,missense_variant,p.Lys21Asn,ENST00000358906,;FAM222A-AS1,intron_variant,,ENST00000541460,;FAM222A-AS1,intron_variant,,ENST00000541723,;	C	ENSG00000139438	ENST00000538780	Transcript	missense_variant	779	63	21	K/N	aaG/aaC	rs769832614	.	.	1	FAM222A	HGNC	25915	protein_coding	YES	CCDS9133.1	ENSP00000443292	F222A_HUMAN	.	UPI000013D712	.	deleterious(0)	benign(0.286)	2/3	.	hmmpanther:PTHR16070	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCAAGAGCCT	.	2	BLCA
TAOK3	0	.	GRCh37	12	118590151	118590151	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2416A>G	p.Met806Val	p.M806V	ENST00000392533	20/21	60	50	10	63	63	0	TAOK3,start_lost,p.Met1?,ENST00000536979,;TAOK3,missense_variant,p.Met806Val,ENST00000392533,;TAOK3,missense_variant,p.Met346Val,ENST00000537952,;TAOK3,missense_variant,p.Met806Val,ENST00000419821,;TAOK3,non_coding_transcript_exon_variant,,ENST00000543709,;TAOK3,non_coding_transcript_exon_variant,,ENST00000537305,;	C	ENSG00000135090	ENST00000392533	Transcript	missense_variant	2907	2416	806	M/V	Atg/Gtg	.	.	.	-1	TAOK3	HGNC	18133	protein_coding	YES	CCDS9188.1	ENSP00000376317	TAOK3_HUMAN	G3V1Q8_HUMAN,F5H7G4_HUMAN,F5H5E0_HUMAN,F5H5C7_HUMAN,F5H3L7_HUMAN,F5H005_HUMAN,F5GY38_HUMAN,F5GX96_HUMAN,F5GWV8_HUMAN	UPI000007231B	.	deleterious(0.01)	benign(0.01)	20/21	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24361:SF187,hmmpanther:PTHR24361	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCATTTCCT	.	5	BLCA
BCAT1	0	.	GRCh37	12	25047231	25047231	+	Nonsense_Mutation	SNP	G	G	C	rs778610149	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.293C>G	p.Ser98Ter	p.S98*	ENST00000539282	3/11	41	37	4	31	31	0	BCAT1,stop_gained,p.Ser85Ter,ENST00000538118,;BCAT1,stop_gained,p.Ser86Ter,ENST00000539780,;BCAT1,stop_gained,p.Ser98Ter,ENST00000539282,;BCAT1,stop_gained,p.Ser62Ter,ENST00000546285,;BCAT1,stop_gained,p.Ser62Ter,ENST00000342945,;BCAT1,stop_gained,p.Ser86Ter,ENST00000261192,;BCAT1,non_coding_transcript_exon_variant,,ENST00000544418,;	C	ENSG00000060982	ENST00000539282	Transcript	stop_gained	380	293	98	S/*	tCa/tGa	rs778610149	.	.	-1	BCAT1	HGNC	976	protein_coding	YES	CCDS53761.1	ENSP00000443459	BCAT1_HUMAN	.	UPI0001D27F89	.	.	.	3/11	.	hmmpanther:PTHR11825:SF29,hmmpanther:PTHR11825,Gene3D:3.30.470.10,TIGRFAM_domain:TIGR01123,PIRSF_domain:PIRSF006468,Superfamily_domains:SSF56752	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCTGATGAG	.	4	BLCA
ERGIC2	0	.	GRCh37	12	29523096	29523096	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166C>T	p.Gln56Ter	p.Q56*	ENST00000360150	3/14	68	42	26	52	52	0	ERGIC2,stop_gained,p.Gln56Ter,ENST00000552132,;ERGIC2,stop_gained,p.Gln38Ter,ENST00000550353,;ERGIC2,stop_gained,p.Gln56Ter,ENST00000546839,;ERGIC2,stop_gained,p.Gln56Ter,ENST00000360150,;ERGIC2,stop_gained,p.Gln56Ter,ENST00000552155,;ERGIC2,stop_gained,p.Gln56Ter,ENST00000548441,;	A	ENSG00000087502	ENST00000360150	Transcript	stop_gained	242	166	56	Q/*	Caa/Taa	.	.	.	-1	ERGIC2	HGNC	30208	protein_coding	YES	CCDS41765.1	ENSP00000353270	ERGI2_HUMAN	Q86TD3_HUMAN,F8VRW9_HUMAN,F8VR88_HUMAN,F8VPA6_HUMAN	UPI00000399A2	.	.	.	3/14	.	hmmpanther:PTHR10984:SF30,hmmpanther:PTHR10984,Pfam_domain:PF13850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGATATA	.	5	BLCA
TWF1	0	.	GRCh37	12	44196143	44196143	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228G>A	p.%3D	p.Q76Q	ENST00000548315	3/10	89	74	15	74	74	0	TWF1,synonymous_variant,p.%3D,ENST00000548315,;TWF1,synonymous_variant,p.%3D,ENST00000546662,;TWF1,synonymous_variant,p.%3D,ENST00000548403,;TWF1,synonymous_variant,p.%3D,ENST00000395510,;TWF1,synonymous_variant,p.%3D,ENST00000325127,;TWF1,5_prime_UTR_variant,,ENST00000546506,;TWF1,5_prime_UTR_variant,,ENST00000552521,;TWF1,non_coding_transcript_exon_variant,,ENST00000547564,;TWF1,3_prime_UTR_variant,,ENST00000550371,;TWF1,3_prime_UTR_variant,,ENST00000547459,;TWF1,downstream_gene_variant,,ENST00000547961,;TWF1,upstream_gene_variant,,ENST00000551789,;	T	ENSG00000151239	ENST00000548315	Transcript	synonymous_variant	232	228	76	Q	caG/caA	.	.	.	-1	TWF1	HGNC	9620	protein_coding	YES	CCDS55818.1	ENSP00000449428	TWF1_HUMAN	.	UPI00006E2264	.	.	.	3/10	.	PROSITE_profiles:PS51263,hmmpanther:PTHR13759:SF3,hmmpanther:PTHR13759,Gene3D:3.40.20.10,Pfam_domain:PF00241,SMART_domains:SM00102,Superfamily_domains:SSF55753	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTCTGAGA	.	5	BLCA
ANO6	0	.	GRCh37	12	45815023	45815023	+	Missense_Mutation	SNP	C	C	T	rs377413251	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2450C>T	p.Pro817Leu	p.P817L	ENST00000423947	19/21	24	16	7	22	22	0	ANO6,missense_variant,p.Pro778Leu,ENST00000441606,;ANO6,missense_variant,p.Pro796Leu,ENST00000320560,;ANO6,missense_variant,p.Pro817Leu,ENST00000423947,;ANO6,missense_variant,p.Pro796Leu,ENST00000435642,;ANO6,missense_variant,p.Pro796Leu,ENST00000425752,;ANO6,downstream_gene_variant,,ENST00000426898,;	T	ENSG00000177119	ENST00000423947	Transcript	missense_variant	2687	2450	817	P/L	cCg/cTg	rs377413251	.	.	1	ANO6	HGNC	25240	protein_coding	YES	CCDS55819.1	ENSP00000409126	ANO6_HUMAN	.	UPI000022935A	.	tolerated(0.08)	benign(0.009)	19/21	.	hmmpanther:PTHR12308:SF21,hmmpanther:PTHR12308,Pfam_domain:PF04547	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACCCGTACT	byFrequency|byCluster	5	BLCA
AKAP3	0	.	GRCh37	12	4736334	4736334	+	Silent	SNP	A	A	T	rs765921327	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1734T>A	p.%3D	p.I578I	ENST00000545990	5/6	88	71	17	57	57	0	AKAP3,synonymous_variant,p.%3D,ENST00000545990,;AKAP3,synonymous_variant,p.%3D,ENST00000228850,;AKAP3,downstream_gene_variant,,ENST00000540967,;AKAP3,downstream_gene_variant,,ENST00000536414,;RP11-500M8.7,intron_variant,,ENST00000536588,;	T	ENSG00000111254	ENST00000545990	Transcript	synonymous_variant	2259	1734	578	I	atT/atA	rs765921327	.	.	-1	AKAP3	HGNC	373	protein_coding	YES	CCDS8531.1	ENSP00000440994	AKAP3_HUMAN	F5H7P4_HUMAN,F5H2S4_HUMAN	UPI000013C8DF	.	.	.	5/6	.	hmmpanther:PTHR10226,hmmpanther:PTHR10226:SF9,Pfam_domain:PF05716,SMART_domains:SM00807	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTACAATGGG	byFrequency	5	BLCA
CCNT1	0	.	GRCh37	12	49087666	49087666	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1331C>T	p.Ser444Leu	p.S444L	ENST00000261900	9/9	56	44	12	67	67	0	CCNT1,missense_variant,p.Ser444Leu,ENST00000261900,;CCNT1,3_prime_UTR_variant,,ENST00000417344,;CCNT1,downstream_gene_variant,,ENST00000551989,;	A	ENSG00000129315	ENST00000261900	Transcript	missense_variant	1554	1331	444	S/L	tCa/tTa	.	.	.	-1	CCNT1	HGNC	1599	protein_coding	YES	CCDS8766.1	ENSP00000261900	CCNT1_HUMAN	.	UPI0000044259	.	deleterious(0.04)	benign(0.002)	9/9	.	hmmpanther:PTHR10026,hmmpanther:PTHR10026:SF42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAACCC	.	5	BLCA
LARP4	0	.	GRCh37	12	50831517	50831517	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.536-1G>T	.	p.X179_splice	ENST00000398473	.	36	21	15	23	23	0	LARP4,splice_acceptor_variant,,ENST00000522085,;LARP4,splice_acceptor_variant,,ENST00000293618,;LARP4,splice_acceptor_variant,,ENST00000429001,;LARP4,splice_acceptor_variant,,ENST00000518561,;LARP4,splice_acceptor_variant,,ENST00000398473,;LARP4,splice_acceptor_variant,,ENST00000548993,;LARP4,splice_acceptor_variant,,ENST00000550260,;LARP4,splice_acceptor_variant,,ENST00000347328,;LARP4,splice_acceptor_variant,,ENST00000518444,;LARP4,upstream_gene_variant,,ENST00000520064,;LARP4,downstream_gene_variant,,ENST00000551886,;LARP4,downstream_gene_variant,,ENST00000517559,;LARP4,upstream_gene_variant,,ENST00000521120,;	T	ENSG00000161813	ENST00000398473	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	LARP4	HGNC	24320	protein_coding	YES	CCDS41782.1	ENSP00000381490	LARP4_HUMAN	Q96J85_HUMAN,F8W1I4_HUMAN,F8VZ60_HUMAN,F8VXL0_HUMAN,F8VSA9_HUMAN,E5RJH8_HUMAN,E5RHZ8_HUMAN	UPI00002293C3	.	.	.	.	5/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCAGCTTCT	.	5	BLCA
KRT75	0	.	GRCh37	12	52822449	52822449	+	Missense_Mutation	SNP	G	G	A	rs777276211	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1114C>T	p.Arg372Cys	p.R372C	ENST00000252245	6/9	35	18	17	59	59	0	KRT75,missense_variant,p.Arg372Cys,ENST00000252245,;RP11-1020M18.10,downstream_gene_variant,,ENST00000548135,;	A	ENSG00000170454	ENST00000252245	Transcript	missense_variant	1335	1114	372	R/C	Cgc/Tgc	rs777276211	.	.	-1	KRT75	HGNC	24431	protein_coding	YES	CCDS8827.1	ENSP00000252245	K2C75_HUMAN	.	UPI000013CD4E	.	deleterious(0.01)	possibly_damaging(0.584)	6/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF111,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGCGGTTCA	byFrequency	5	BLCA
HNRNPA1	0	.	GRCh37	12	54676206	54676206	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519C>A	p.His173Gln	p.H173Q	ENST00000340913	5/11	43	35	8	35	34	1	HNRNPA1,missense_variant,p.His44Gln,ENST00000550482,;HNRNPA1,missense_variant,p.His173Gln,ENST00000546500,;HNRNPA1,missense_variant,p.His173Gln,ENST00000340913,;HNRNPA1,missense_variant,p.His173Gln,ENST00000330752,;HNRNPA1,missense_variant,p.His124Gln,ENST00000551702,;HNRNPA1,missense_variant,p.His173Gln,ENST00000547276,;HNRNPA1,missense_variant,p.His192Gln,ENST00000548688,;HNRNPA1,intron_variant,,ENST00000547708,;CBX5,upstream_gene_variant,,ENST00000209875,;HNRNPA1,downstream_gene_variant,,ENST00000550994,;RP11-968A15.8,intron_variant,,ENST00000553061,;RP11-968A15.2,downstream_gene_variant,,ENST00000547177,;HNRNPA1,upstream_gene_variant,,ENST00000551803,;HNRNPA1,missense_variant,p.His173Gln,ENST00000547566,;HNRNPA1,non_coding_transcript_exon_variant,,ENST00000547870,;HNRNPA1,upstream_gene_variant,,ENST00000551679,;HNRNPA1,upstream_gene_variant,,ENST00000551665,;	A	ENSG00000135486	ENST00000340913	Transcript	missense_variant	572	519	173	H/Q	caC/caA	.	.	.	1	HNRNPA1	HGNC	5031	protein_coding	YES	CCDS44909.1	ENSP00000341826	ROA1_HUMAN	F8VYN5_HUMAN	UPI0000161BF2	.	deleterious(0.01)	probably_damaging(0.985)	5/11	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012:SF309,hmmpanther:PTHR24012,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	GGCCACAACTG	.	2	BLCA
TESPA1	0	.	GRCh37	12	55356692	55356692	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.990C>G	p.%3D	p.L330L	ENST00000449076	9/11	26	21	5	26	26	0	TESPA1,synonymous_variant,p.%3D,ENST00000316577,;TESPA1,synonymous_variant,p.%3D,ENST00000531122,;TESPA1,synonymous_variant,p.%3D,ENST00000449076,;TESPA1,synonymous_variant,p.%3D,ENST00000532804,;TESPA1,synonymous_variant,p.%3D,ENST00000524622,;TESPA1,intron_variant,,ENST00000532757,;TESPA1,downstream_gene_variant,,ENST00000526532,;TESPA1,downstream_gene_variant,,ENST00000533446,;TESPA1,upstream_gene_variant,,ENST00000528240,;TESPA1,downstream_gene_variant,,ENST00000524668,;TESPA1,downstream_gene_variant,,ENST00000524959,;TESPA1,3_prime_UTR_variant,,ENST00000524923,;TESPA1,downstream_gene_variant,,ENST00000525978,;	C	ENSG00000135426	ENST00000449076	Transcript	synonymous_variant	1123	990	330	L	ctC/ctG	.	.	.	-1	TESPA1	HGNC	29109	protein_coding	YES	CCDS44913.1	ENSP00000400892	TESP1_HUMAN	E9PN46_HUMAN,E9PM24_HUMAN,E9PIT9_HUMAN,E9PIN8_HUMAN,E9PHY9_HUMAN,B4DHC1_HUMAN	UPI00001FC438	.	.	.	9/11	.	hmmpanther:PTHR17469:SF1,hmmpanther:PTHR17469	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGAGGAA	.	5	BLCA
SDR9C7	0	.	GRCh37	12	57323194	57323194	+	Missense_Mutation	SNP	C	C	G	rs756591404	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.704G>C	p.Gly235Ala	p.G235A	ENST00000293502	3/4	42	17	24	38	38	0	SDR9C7,missense_variant,p.Gly235Ala,ENST00000293502,;	G	ENSG00000170426	ENST00000293502	Transcript	missense_variant	848	704	235	G/A	gGa/gCa	rs756591404,COSM3463586	.	.	-1	SDR9C7	HGNC	29958	protein_coding	YES	CCDS8926.1	ENSP00000293502	DR9C7_HUMAN	.	UPI0000046169	.	deleterious(0)	probably_damaging(0.999)	3/4	.	hmmpanther:PTHR24316:SF276,hmmpanther:PTHR24316,Gene3D:3.40.50.720	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCCGTAG	.	5	BLCA
MARS	0	.	GRCh37	12	57909836	57909836	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2463+62C>T	.	.	ENST00000262027	.	16	11	5	28	28	0	MARS,missense_variant,p.Ser608Phe,ENST00000315473,;MARS,intron_variant,,ENST00000552914,;MARS,intron_variant,,ENST00000548944,;MARS,intron_variant,,ENST00000262027,;MARS,intron_variant,,ENST00000547665,;DDIT3,downstream_gene_variant,,ENST00000346473,;DDIT3,downstream_gene_variant,,ENST00000552740,;MBD6,upstream_gene_variant,,ENST00000548887,;DDIT3,downstream_gene_variant,,ENST00000551116,;MBD6,upstream_gene_variant,,ENST00000551351,;DDIT3,downstream_gene_variant,,ENST00000547526,;DDIT3,downstream_gene_variant,,ENST00000547303,;RNU6-594P,downstream_gene_variant,,ENST00000517056,;MIR616,downstream_gene_variant,,ENST00000385293,;RN7SL312P,downstream_gene_variant,,ENST00000582079,;MARS,downstream_gene_variant,,ENST00000447721,;MBD6,upstream_gene_variant,,ENST00000549231,;MARS,missense_variant,p.Ser97Phe,ENST00000551172,;MARS,3_prime_UTR_variant,,ENST00000545888,;MARS,intron_variant,,ENST00000537638,;MARS,intron_variant,,ENST00000552499,;MARS,downstream_gene_variant,,ENST00000549603,;MARS,downstream_gene_variant,,ENST00000549048,;MARS,downstream_gene_variant,,ENST00000548202,;MARS,downstream_gene_variant,,ENST00000546971,;MARS,downstream_gene_variant,,ENST00000548630,;MARS,downstream_gene_variant,,ENST00000551805,;	T	ENSG00000166986	ENST00000262027	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MARS	HGNC	6898	protein_coding	YES	CCDS8942.1	ENSP00000262027	SYMC_HUMAN	.	UPI0000136597	.	.	.	.	19/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATTTCCCTAA	.	2	BLCA
SRGAP1	0	.	GRCh37	12	64456769	64456769	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874G>C	p.Glu292Gln	p.E292Q	ENST00000355086	7/22	50	36	13	46	46	0	SRGAP1,missense_variant,p.Glu252Gln,ENST00000543397,;SRGAP1,missense_variant,p.Glu292Gln,ENST00000357825,;SRGAP1,missense_variant,p.Glu292Gln,ENST00000355086,;RP11-196H14.2,intron_variant,,ENST00000535594,;SRGAP1,non_coding_transcript_exon_variant,,ENST00000537556,;	C	ENSG00000196935	ENST00000355086	Transcript	missense_variant	1398	874	292	E/Q	Gaa/Caa	.	.	.	1	SRGAP1	HGNC	17382	protein_coding	YES	CCDS8967.1	ENSP00000347198	SRGP1_HUMAN	.	UPI00001A9CB9	.	tolerated(0.79)	benign(0.186)	7/22	.	hmmpanther:PTHR14166,hmmpanther:PTHR14166:SF15,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTGAAACC	.	5	BLCA
TBC1D15	0	.	GRCh37	12	72300887	72300887	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1320G>C	p.Leu440Phe	p.L440F	ENST00000550746	12/18	28	24	4	29	29	0	TBC1D15,missense_variant,p.Leu431Phe,ENST00000319106,;TBC1D15,missense_variant,p.Leu423Phe,ENST00000485960,;TBC1D15,missense_variant,p.Leu440Phe,ENST00000550746,;TBC1D15,missense_variant,p.Leu194Phe,ENST00000393309,;TBC1D15,non_coding_transcript_exon_variant,,ENST00000548679,;TBC1D15,3_prime_UTR_variant,,ENST00000462788,;TBC1D15,non_coding_transcript_exon_variant,,ENST00000479971,;TBC1D15,non_coding_transcript_exon_variant,,ENST00000483828,;	C	ENSG00000121749	ENST00000550746	Transcript	missense_variant	1384	1320	440	L/F	ttG/ttC	.	.	.	1	TBC1D15	HGNC	25694	protein_coding	YES	CCDS31858.1	ENSP00000448182	TBC15_HUMAN	Q9NSR4_HUMAN,F8VV61_HUMAN,A8K8E1_HUMAN	UPI000049DD7C	.	deleterious(0)	probably_damaging(1)	12/18	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF250,Gene3D:2qq8A02,Pfam_domain:PF00566,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTTTGATGAC	.	4	BLCA
NAV3	0	.	GRCh37	12	78513401	78513401	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3425C>T	p.Ser1142Leu	p.S1142L	ENST00000536525	15/39	29	21	8	45	45	0	NAV3,missense_variant,p.Ser1142Leu,ENST00000536525,;NAV3,missense_variant,p.Ser1142Leu,ENST00000397909,;NAV3,missense_variant,p.Ser1142Leu,ENST00000266692,;NAV3,missense_variant,p.Ser1142Leu,ENST00000228327,;NAV3,missense_variant,p.Ser214Leu,ENST00000552895,;NAV3,upstream_gene_variant,,ENST00000550788,;	T	ENSG00000067798	ENST00000536525	Transcript	missense_variant	3598	3425	1142	S/L	tCa/tTa	.	.	.	1	NAV3	HGNC	15998	protein_coding	YES	CCDS41815.1	ENSP00000446132	NAV3_HUMAN	F8VZV4_HUMAN	UPI00001FB1E8	.	deleterious(0)	benign(0.182)	15/39	.	hmmpanther:PTHR12784,hmmpanther:PTHR12784:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCAAAAT	.	5	BLCA
NANOG	0	.	GRCh37	12	7947715	7947715	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24C>G	.	.	ENST00000229307	4/4	120	84	36	76	76	0	NANOG,3_prime_UTR_variant,,ENST00000229307,;NANOG,downstream_gene_variant,,ENST00000526286,;NANOG,downstream_gene_variant,,ENST00000541267,;NANOG,downstream_gene_variant,,ENST00000526434,;	G	ENSG00000111704	ENST00000229307	Transcript	3_prime_UTR_variant	1161	.	.	.	.	.	.	.	1	NANOG	HGNC	20857	protein_coding	YES	CCDS31736.1	ENSP00000229307	NANOG_HUMAN	J7H4F6_HUMAN,F5GZI2_HUMAN	UPI000013C8F5	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TTACTCAATTT	.	3	BLCA
LUM	0	.	GRCh37	12	91497980	91497980	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.979G>C	p.Glu327Gln	p.E327Q	ENST00000266718	3/3	42	29	13	38	38	0	LUM,missense_variant,p.Glu327Gln,ENST00000266718,;LUM,non_coding_transcript_exon_variant,,ENST00000546642,;LUM,non_coding_transcript_exon_variant,,ENST00000548071,;	G	ENSG00000139329	ENST00000266718	Transcript	missense_variant	1434	979	327	E/Q	Gaa/Caa	.	.	.	-1	LUM	HGNC	6724	protein_coding	YES	CCDS9038.1	ENSP00000266718	LUM_HUMAN	.	UPI0000001C4D	.	tolerated(0.38)	benign(0.171)	3/3	.	hmmpanther:PTHR24371:SF54,hmmpanther:PTHR24371,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R330C|c.988C>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCATACA	.	5	BLCA
VEZT	0	.	GRCh37	12	95611642	95611642	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16G>C	p.Asp6His	p.D6H	ENST00000436874	1/12	26	21	5	47	47	0	VEZT,missense_variant,p.Asp6His,ENST00000551472,;VEZT,missense_variant,p.Asp6His,ENST00000552821,;VEZT,missense_variant,p.Asp6His,ENST00000549002,;VEZT,missense_variant,p.Asp6His,ENST00000436874,;VEZT,5_prime_UTR_variant,,ENST00000261219,;FGD6,upstream_gene_variant,,ENST00000546711,;VEZT,upstream_gene_variant,,ENST00000546445,;FGD6,upstream_gene_variant,,ENST00000549499,;VEZT,upstream_gene_variant,,ENST00000551311,;FGD6,upstream_gene_variant,,ENST00000343958,;VEZT,non_coding_transcript_exon_variant,,ENST00000552626,;VEZT,non_coding_transcript_exon_variant,,ENST00000551746,;VEZT,non_coding_transcript_exon_variant,,ENST00000549589,;VEZT,non_coding_transcript_exon_variant,,ENST00000552031,;VEZT,non_coding_transcript_exon_variant,,ENST00000553063,;VEZT,non_coding_transcript_exon_variant,,ENST00000546398,;VEZT,upstream_gene_variant,,ENST00000546365,;VEZT,upstream_gene_variant,,ENST00000547894,;VEZT,upstream_gene_variant,,ENST00000551356,;VEZT,upstream_gene_variant,,ENST00000546409,;VEZT,upstream_gene_variant,,ENST00000551902,;VEZT,upstream_gene_variant,,ENST00000550106,;VEZT,upstream_gene_variant,,ENST00000551695,;VEZT,missense_variant,p.Asp6His,ENST00000548371,;VEZT,missense_variant,p.Asp6His,ENST00000547611,;VEZT,missense_variant,p.Asp6His,ENST00000551039,;VEZT,missense_variant,p.Asp6His,ENST00000549624,;VEZT,missense_variant,p.Asp6His,ENST00000548455,;VEZT,missense_variant,p.Asp6His,ENST00000547997,;VEZT,missense_variant,p.Asp6His,ENST00000552660,;VEZT,missense_variant,p.Asp6His,ENST00000548838,;VEZT,missense_variant,p.Asp6His,ENST00000548245,;VEZT,missense_variant,p.Asp6His,ENST00000550803,;VEZT,missense_variant,p.Asp6His,ENST00000547484,;VEZT,missense_variant,p.Asp6His,ENST00000548822,;VEZT,missense_variant,p.Asp6His,ENST00000551994,;VEZT,missense_variant,p.Asp6His,ENST00000546557,;VEZT,non_coding_transcript_exon_variant,,ENST00000551792,;VEZT,non_coding_transcript_exon_variant,,ENST00000549192,;FGD6,upstream_gene_variant,,ENST00000451107,;	C	ENSG00000028203	ENST00000436874	Transcript	missense_variant	121	16	6	D/H	Gac/Cac	.	.	.	1	VEZT	HGNC	18258	protein_coding	YES	CCDS44954.1	ENSP00000410083	VEZA_HUMAN	.	UPI00001FB2EC	.	deleterious(0.02)	benign(0.02)	1/12	.	hmmpanther:PTHR15989:SF5,hmmpanther:PTHR15989	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTTTGACGAA	.	4	BLCA
ZMYM2	0	.	GRCh37	13	20579242	20579242	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1162G>C	p.Val388Leu	p.V388L	ENST00000382869	5/25	42	29	12	32	32	0	ZMYM2,missense_variant,p.Val301Leu,ENST00000382881,;ZMYM2,missense_variant,p.Val388Leu,ENST00000382869,;ZMYM2,missense_variant,p.Val388Leu,ENST00000382871,;ZMYM2,missense_variant,p.Val388Leu,ENST00000382874,;ZMYM2,upstream_gene_variant,,ENST00000382883,;	C	ENSG00000121741	ENST00000382869	Transcript	missense_variant	1413	1162	388	V/L	Gtt/Ctt	.	.	.	1	ZMYM2	HGNC	12989	protein_coding	YES	CCDS45016.1	ENSP00000372322	ZMYM2_HUMAN	.	UPI000013C318	.	tolerated(0.08)	possibly_damaging(0.895)	5/25	.	hmmpanther:PTHR11697:SF73,hmmpanther:PTHR11697,Pfam_domain:PF06467,SMART_domains:SM00746	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGTTGCT	.	5	BLCA
C1QTNF9	0	.	GRCh37	13	24895767	24895767	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.863C>G	p.Ser288Cys	p.S288C	ENST00000382071	4/4	44	32	12	64	64	0	C1QTNF9,missense_variant,p.Ser288Cys,ENST00000332018,;C1QTNF9,missense_variant,p.Ser288Cys,ENST00000382071,;AL359736.1,upstream_gene_variant,,ENST00000422229,;C1QTNF9-AS1,upstream_gene_variant,,ENST00000449656,;RP11-307N16.6,downstream_gene_variant,,ENST00000382141,;	G	ENSG00000240654	ENST00000382071	Transcript	missense_variant	948	863	288	S/C	tCt/tGt	COSM696944	.	.	1	C1QTNF9	HGNC	28732	protein_coding	YES	CCDS9306.1	ENSP00000371503	C1T9A_HUMAN	.	UPI000004F06F	.	deleterious(0)	probably_damaging(1)	4/4	.	Prints_domain:PR00007,Superfamily_domains:SSF49842,SMART_domains:SM00110,Pfam_domain:PF00386,Gene3D:2.60.120.40,hmmpanther:PTHR24022:SF73,hmmpanther:PTHR24022,PROSITE_profiles:PS50871	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCTCTGGCG	.	5	BLCA
CENPJ	0	.	GRCh37	13	25473695	25473695	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2853G>C	p.Gln951His	p.Q951H	ENST00000381884	9/17	37	27	9	39	39	0	CENPJ,missense_variant,p.Gln33His,ENST00000418179,;CENPJ,missense_variant,p.Gln951His,ENST00000381884,;CENPJ,missense_variant,p.Gln951His,ENST00000545981,;	G	ENSG00000151849	ENST00000381884	Transcript	missense_variant	3039	2853	951	Q/H	caG/caC	.	.	.	-1	CENPJ	HGNC	17272	protein_coding	YES	CCDS9310.1	ENSP00000371308	CENPJ_HUMAN	B3KVU9_HUMAN	UPI000013DC8A	.	tolerated(0.07)	benign(0.062)	9/17	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10331:SF19,hmmpanther:PTHR10331	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTGTTG	.	5	BLCA
ATP8A2	0	.	GRCh37	13	26436542	26436542	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3179G>T	p.Gly1060Val	p.G1060V	ENST00000381655	33/37	32	25	7	45	45	0	ATP8A2,missense_variant,p.Gly995Val,ENST00000255283,;ATP8A2,missense_variant,p.Gly1060Val,ENST00000381655,;ATP8A2,non_coding_transcript_exon_variant,,ENST00000491840,;ATP8A2,3_prime_UTR_variant,,ENST00000281620,;RP11-467D10.2,downstream_gene_variant,,ENST00000447435,;RP11-467D10.2,downstream_gene_variant,,ENST00000320572,;	T	ENSG00000132932	ENST00000381655	Transcript	missense_variant	3321	3179	1060	G/V	gGa/gTa	.	.	.	1	ATP8A2	HGNC	13533	protein_coding	YES	CCDS41873.1	ENSP00000371070	AT8A2_HUMAN	.	UPI0000229592	.	deleterious(0)	probably_damaging(0.998)	33/37	.	hmmpanther:PTHR24092:SF45,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAGGACAGG	.	5	BLCA
N4BP2L2	0	.	GRCh37	13	33017236	33017236	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1438G>C	p.Glu480Gln	p.E480Q	ENST00000399396	7/10	17	10	7	17	17	0	N4BP2L2,missense_variant,p.Glu465Gln,ENST00000504114,;N4BP2L2,missense_variant,p.Glu465Gln,ENST00000357505,;N4BP2L2,missense_variant,p.Glu480Gln,ENST00000399396,;N4BP2L2,intron_variant,,ENST00000446957,;N4BP2L2,downstream_gene_variant,,ENST00000505213,;N4BP2L2,non_coding_transcript_exon_variant,,ENST00000380121,;N4BP2L2,non_coding_transcript_exon_variant,,ENST00000503296,;N4BP2L2,downstream_gene_variant,,ENST00000473025,;N4BP2L2,non_coding_transcript_exon_variant,,ENST00000509076,;	G	ENSG00000244754	ENST00000399396	Transcript	missense_variant	1460	1438	480	E/Q	Gaa/Caa	.	.	.	-1	N4BP2L2	HGNC	26916	protein_coding	YES	CCDS45024.1	ENSP00000382328	N42L2_HUMAN	Q6ZV26_HUMAN,B4DPY1_HUMAN	UPI00015C73C2	.	tolerated(0.45)	benign(0.002)	7/10	.	hmmpanther:PTHR13308,hmmpanther:PTHR13308:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTCTAAGG	.	5	BLCA
EXOSC8	0	.	GRCh37	13	37580265	37580265	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358C>G	p.Gln120Glu	p.Q120E	ENST00000389704	7/11	34	26	7	49	49	0	EXOSC8,missense_variant,p.Gln120Glu,ENST00000389704,;SUPT20H,downstream_gene_variant,,ENST00000360252,;SUPT20H,downstream_gene_variant,,ENST00000356185,;SUPT20H,downstream_gene_variant,,ENST00000469488,;SUPT20H,downstream_gene_variant,,ENST00000350612,;EXOSC8,upstream_gene_variant,,ENST00000481013,;SUPT20H,downstream_gene_variant,,ENST00000464744,;SUPT20H,downstream_gene_variant,,ENST00000475892,;EXOSC8,non_coding_transcript_exon_variant,,ENST00000489088,;EXOSC8,non_coding_transcript_exon_variant,,ENST00000488779,;EXOSC8,non_coding_transcript_exon_variant,,ENST00000474661,;EXOSC8,non_coding_transcript_exon_variant,,ENST00000464235,;EXOSC8,downstream_gene_variant,,ENST00000488108,;EXOSC8,downstream_gene_variant,,ENST00000470423,;EXOSC8,3_prime_UTR_variant,,ENST00000239893,;EXOSC8,non_coding_transcript_exon_variant,,ENST00000490537,;EXOSC8,non_coding_transcript_exon_variant,,ENST00000495092,;SUPT20H,downstream_gene_variant,,ENST00000473871,;SUPT20H,downstream_gene_variant,,ENST00000484078,;SUPT20H,downstream_gene_variant,,ENST00000490716,;SUPT20H,downstream_gene_variant,,ENST00000495071,;SUPT20H,downstream_gene_variant,,ENST00000472948,;	G	ENSG00000120699	ENST00000389704	Transcript	missense_variant	623	358	120	Q/E	Cag/Gag	.	.	.	1	EXOSC8	HGNC	17035	protein_coding	YES	CCDS31958.1	ENSP00000374354	EXOS8_HUMAN	.	UPI000004A07D	.	tolerated(0.43)	benign(0.001)	7/11	.	hmmpanther:PTHR11097:SF9,hmmpanther:PTHR11097,Pfam_domain:PF01138,Gene3D:1e3hA01,Superfamily_domains:SSF54211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAATTCAGAAA	.	5	BLCA
VWA8	0	.	GRCh37	13	42259311	42259311	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4199C>G	p.Ser1400Ter	p.S1400*	ENST00000379310	35/45	40	32	8	38	38	0	VWA8,stop_gained,p.Ser1400Ter,ENST00000379310,;VWA8,downstream_gene_variant,,ENST00000478987,;	C	ENSG00000102763	ENST00000379310	Transcript	stop_gained	4268	4199	1400	S/*	tCa/tGa	.	.	.	-1	VWA8	HGNC	29071	protein_coding	YES	CCDS41881.1	ENSP00000368612	VWA8_HUMAN	.	UPI00001606AC	.	.	.	35/45	.	hmmpanther:PTHR21610,hmmpanther:PTHR21610:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATGATGTA	.	5	BLCA
CPB2	0	.	GRCh37	13	46627893	46627893	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1128G>C	p.Leu376Phe	p.L376F	ENST00000181383	11/11	41	34	7	54	54	0	CPB2,missense_variant,p.Leu339Phe,ENST00000439329,;CPB2,missense_variant,p.Leu376Phe,ENST00000181383,;ZC3H13,upstream_gene_variant,,ENST00000242848,;ZC3H13,upstream_gene_variant,,ENST00000428921,;ZC3H13,upstream_gene_variant,,ENST00000282007,;CPB2-AS1,intron_variant,,ENST00000415033,;CPB2-AS1,intron_variant,,ENST00000606243,;CPB2-AS1,intron_variant,,ENST00000606991,;CPB2-AS1,intron_variant,,ENST00000606351,;	G	ENSG00000080618	ENST00000181383	Transcript	missense_variant	1145	1128	376	L/F	ttG/ttC	.	.	.	-1	CPB2	HGNC	2300	protein_coding	YES	CCDS9401.1	ENSP00000181383	CBPB2_HUMAN	.	UPI000013C764	.	tolerated(0.07)	probably_damaging(0.975)	11/11	.	hmmpanther:PTHR11705:SF17,hmmpanther:PTHR11705,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGCCCAAATC	.	5	BLCA
CDADC1	0	.	GRCh37	13	49842084	49842084	+	Missense_Mutation	SNP	G	G	A	rs372035818	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.889G>A	p.Gly297Arg	p.G297R	ENST00000251108	5/10	69	49	19	82	82	0	CDADC1,missense_variant,p.Gly99Arg,ENST00000444959,;CDADC1,missense_variant,p.Gly297Arg,ENST00000251108,;CDADC1,downstream_gene_variant,,ENST00000429346,;CDADC1,downstream_gene_variant,,ENST00000538056,;CDADC1,downstream_gene_variant,,ENST00000466868,;CDADC1,downstream_gene_variant,,ENST00000496061,;CDADC1,downstream_gene_variant,,ENST00000484126,;	A	ENSG00000102543	ENST00000251108	Transcript	missense_variant	1002	889	297	G/R	Gga/Aga	rs372035818	.	.	1	CDADC1	HGNC	20299	protein_coding	YES	CCDS9415.1	ENSP00000251108	CDAC1_HUMAN	G8JLM2_HUMAN	UPI0000073EF4	.	deleterious(0.03)	benign(0.107)	5/10	.	hmmpanther:PTHR11086,hmmpanther:PTHR11086:SF14	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTCGGATTT	byFrequency|byCluster	5	BLCA
MYCBP2	0	.	GRCh37	13	77629765	77629765	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13461G>C	p.%3D	p.V4487V	ENST00000544440	80/83	63	49	14	46	46	0	MYCBP2,synonymous_variant,p.%3D,ENST00000357337,;MYCBP2,synonymous_variant,p.%3D,ENST00000429715,;MYCBP2,synonymous_variant,p.%3D,ENST00000544440,;MYCBP2,synonymous_variant,p.%3D,ENST00000407578,;	G	ENSG00000005810	ENST00000544440	Transcript	synonymous_variant	13479	13461	4487	V	gtG/gtC	.	.	.	-1	MYCBP2	HGNC	23386	protein_coding	YES	.	ENSP00000444596	MYCB2_HUMAN	.	UPI0000212757	.	.	.	80/83	.	hmmpanther:PTHR12846:SF14,hmmpanther:PTHR12846	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCACACC	.	5	BLCA
MIR541	0	.	GRCh37	14	101530878	101530878	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.47G>A	.	.	ENST00000401360	1/1	35	29	6	42	42	0	MIR541,non_coding_transcript_exon_variant,,ENST00000401360,;MIR154,downstream_gene_variant,,ENST00000385243,;MIR656,upstream_gene_variant,,ENST00000385224,;MIR409,upstream_gene_variant,,ENST00000362237,;MIR412,upstream_gene_variant,,ENST00000362142,;MIR369,upstream_gene_variant,,ENST00000362155,;MIR410,upstream_gene_variant,,ENST00000362222,;MIR496,downstream_gene_variant,,ENST00000385226,;MIR377,downstream_gene_variant,,ENST00000362145,;	A	ENSG00000216179	ENST00000401360	Transcript	non_coding_transcript_exon_variant	47	.	.	.	.	.	.	.	1	MIR541	HGNC	33650	miRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCACAGAATGG	.	3	BLCA
BRF1	0	.	GRCh37	14	105686426	105686426	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1357G>C	p.Asp453His	p.D453H	ENST00000546474	12/18	34	30	4	50	50	0	BRF1,missense_variant,p.Asp215His,ENST00000446501,;BRF1,missense_variant,p.Asp426His,ENST00000379937,;BRF1,missense_variant,p.Asp453His,ENST00000546474,;BRF1,missense_variant,p.Asp338His,ENST00000327359,;BRF1,missense_variant,p.Asp338His,ENST00000440513,;BRF1,missense_variant,p.Asp173His,ENST00000547562,;BRF1,missense_variant,p.Asp249His,ENST00000392557,;BRF1,5_prime_UTR_variant,,ENST00000547530,;BRF1,intron_variant,,ENST00000551787,;BRF1,intron_variant,,ENST00000379932,;BRF1,downstream_gene_variant,,ENST00000549655,;BRF1,downstream_gene_variant,,ENST00000552127,;BRF1,non_coding_transcript_exon_variant,,ENST00000549044,;BRF1,non_coding_transcript_exon_variant,,ENST00000547374,;BRF1,non_coding_transcript_exon_variant,,ENST00000547052,;	G	ENSG00000185024	ENST00000546474	Transcript	missense_variant	16317	1357	453	D/H	Gat/Cat	.	.	.	-1	BRF1	HGNC	11551	protein_coding	YES	CCDS10001.1	ENSP00000448323	TF3B_HUMAN	F8VXJ4_HUMAN,F8VWY1_HUMAN,F8VWT8_HUMAN,F8VQ19_HUMAN,B3KWA2_HUMAN	UPI0000136C55	.	deleterious(0.02)	probably_damaging(0.997)	12/18	.	hmmpanther:PTHR11618:SF4,hmmpanther:PTHR11618,Gene3D:1.20.5.650,Pfam_domain:PF07741	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCATCAATGC	.	4	BLCA
AJUBA	0	.	GRCh37	14	23445862	23445862	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168G>A	p.Asp390Asn	p.D390N	ENST00000262713	3/8	98	75	23	120	120	0	AJUBA,missense_variant,p.Asp390Asn,ENST00000361265,;AJUBA,missense_variant,p.Asp390Asn,ENST00000262713,;AJUBA,5_prime_UTR_variant,,ENST00000553911,;AJUBA,5_prime_UTR_variant,,ENST00000556731,;AJUBA,5_prime_UTR_variant,,ENST00000397388,;AJUBA,5_prime_UTR_variant,,ENST00000553592,;RP11-298I3.5,intron_variant,,ENST00000555074,;AJUBA,downstream_gene_variant,,ENST00000553736,;AJUBA,upstream_gene_variant,,ENST00000555479,;	T	ENSG00000129474	ENST00000262713	Transcript	missense_variant	1544	1168	390	D/N	Gat/Aat	.	.	.	-1	AJUBA	HGNC	20250	protein_coding	YES	CCDS9581.1	ENSP00000262713	AJUBA_HUMAN	G3V5F5_HUMAN,G3V481_HUMAN	UPI0000040AEC	.	deleterious(0)	probably_damaging(0.945)	3/8	.	Superfamily_domains:SSF57716,SMART_domains:SM00132,Gene3D:2.10.110.10,Pfam_domain:PF00412,hmmpanther:PTHR24219,hmmpanther:PTHR24219:SF7,PROSITE_profiles:PS50023	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATCTTCCT	.	5	BLCA
REC8	0	.	GRCh37	14	24642120	24642120	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138C>G	p.%3D	p.L46L	ENST00000311457	4/20	32	22	9	36	36	0	REC8,synonymous_variant,p.%3D,ENST00000311457,;REC8,synonymous_variant,p.%3D,ENST00000557806,;REC8,synonymous_variant,p.%3D,ENST00000559919,;REC8,5_prime_UTR_variant,,ENST00000560501,;REC8,non_coding_transcript_exon_variant,,ENST00000558782,;REC8,non_coding_transcript_exon_variant,,ENST00000557979,;REC8,non_coding_transcript_exon_variant,,ENST00000560032,;REC8,upstream_gene_variant,,ENST00000558697,;REC8,upstream_gene_variant,,ENST00000560823,;	G	ENSG00000100918	ENST00000311457	Transcript	synonymous_variant	737	138	46	L	ctC/ctG	.	.	.	1	REC8	HGNC	16879	protein_coding	YES	CCDS41932.1	ENSP00000308699	REC8_HUMAN	H0YMV7_HUMAN,H0YM87_HUMAN,H0YLK4_HUMAN	UPI000013C70B	.	.	.	4/20	.	hmmpanther:PTHR12585:SF27,hmmpanther:PTHR12585,Pfam_domain:PF04825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCAATTA	.	5	BLCA
REC8	0	.	GRCh37	14	24642246	24642246	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.264C>G	p.%3D	p.L88L	ENST00000311457	4/20	50	44	5	70	70	0	REC8,synonymous_variant,p.%3D,ENST00000311457,;REC8,synonymous_variant,p.%3D,ENST00000559919,;REC8,5_prime_UTR_variant,,ENST00000560501,;REC8,downstream_gene_variant,,ENST00000557806,;REC8,non_coding_transcript_exon_variant,,ENST00000558782,;REC8,non_coding_transcript_exon_variant,,ENST00000557979,;REC8,non_coding_transcript_exon_variant,,ENST00000560032,;REC8,upstream_gene_variant,,ENST00000558697,;REC8,upstream_gene_variant,,ENST00000560823,;	G	ENSG00000100918	ENST00000311457	Transcript	synonymous_variant	863	264	88	L	ctC/ctG	.	.	.	1	REC8	HGNC	16879	protein_coding	YES	CCDS41932.1	ENSP00000308699	REC8_HUMAN	H0YMV7_HUMAN,H0YM87_HUMAN,H0YLK4_HUMAN	UPI000013C70B	.	.	.	4/20	.	hmmpanther:PTHR12585:SF27,hmmpanther:PTHR12585,Pfam_domain:PF04825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACCTCGTGGG	.	3	BLCA
CMA1	0	.	GRCh37	14	24975333	24975333	+	Silent	SNP	C	C	G	rs150775967	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.501G>C	p.%3D	p.L167L	ENST00000250378	4/5	29	21	8	49	49	0	CMA1,synonymous_variant,p.%3D,ENST00000250378,;CMA1,synonymous_variant,p.%3D,ENST00000206446,;RP11-80A15.1,intron_variant,,ENST00000555109,;	G	ENSG00000092009	ENST00000250378	Transcript	synonymous_variant	531	501	167	L	ctG/ctC	rs150775967	.	.	-1	CMA1	HGNC	2097	protein_coding	YES	CCDS9630.1	ENSP00000250378	CMA1_HUMAN	Q4FEB5_HUMAN,Q3SY37_HUMAN	UPI000012EDED	.	.	.	4/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24271,hmmpanther:PTHR24271:SF17,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	T:0.0007	T:0.0005	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCAGCTT	byFrequency|byCluster	5	BLCA
LRFN5	0	.	GRCh37	14	42360855	42360855	+	Silent	SNP	C	C	T	rs770209727	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1788C>T	p.%3D	p.H596H	ENST00000298119	4/6	42	35	7	42	42	0	LRFN5,synonymous_variant,p.%3D,ENST00000298119,;LRFN5,intron_variant,,ENST00000554120,;LRFN5,intron_variant,,ENST00000554171,;	T	ENSG00000165379	ENST00000298119	Transcript	synonymous_variant	2977	1788	596	H	caC/caT	rs770209727,COSM2197066	.	.	1	LRFN5	HGNC	20360	protein_coding	YES	CCDS9678.1	ENSP00000298119	LRFN5_HUMAN	.	UPI000000DA1E	.	.	.	4/6	.	hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF3	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACACGAAGA	byFrequency	5	BLCA
NIN	0	.	GRCh37	14	51223275	51223275	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4473G>T	p.%3D	p.L1491L	ENST00000382041	18/30	33	22	11	26	26	0	NIN,synonymous_variant,p.%3D,ENST00000245441,;NIN,synonymous_variant,p.%3D,ENST00000324330,;NIN,synonymous_variant,p.%3D,ENST00000382041,;NIN,synonymous_variant,p.%3D,ENST00000389869,;NIN,synonymous_variant,p.%3D,ENST00000530853,;NIN,synonymous_variant,p.%3D,ENST00000453196,;NIN,synonymous_variant,p.%3D,ENST00000530997,;NIN,intron_variant,,ENST00000389868,;NIN,intron_variant,,ENST00000382043,;NIN,synonymous_variant,p.%3D,ENST00000476352,;	A	ENSG00000100503	ENST00000382041	Transcript	synonymous_variant	4664	4473	1491	L	ctG/ctT	.	.	.	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	.	.	18/30	.	hmmpanther:PTHR18905,hmmpanther:PTHR18905:SF11,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCAGCTC	.	5	BLCA
TRMT5	0	.	GRCh37	14	61442822	61442822	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.815A>G	p.Tyr272Cys	p.Y272C	ENST00000261249	4/5	67	51	15	67	67	0	TRMT5,missense_variant,p.Tyr272Cys,ENST00000261249,;TRMT5,downstream_gene_variant,,ENST00000555420,;TRMT5,downstream_gene_variant,,ENST00000553903,;RNU6-398P,downstream_gene_variant,,ENST00000384143,;RP11-193F5.1,intron_variant,,ENST00000553946,;RP11-193F5.4,upstream_gene_variant,,ENST00000556317,;	C	ENSG00000126814	ENST00000261249	Transcript	missense_variant	1200	815	272	Y/C	tAt/tGt	.	.	.	-1	TRMT5	HGNC	23141	protein_coding	YES	CCDS32092.1	ENSP00000261249	TRM5_HUMAN	.	UPI000016003D	.	deleterious(0)	probably_damaging(0.997)	4/5	.	Superfamily_domains:SSF53335,Gene3D:3.40.50.150,Pfam_domain:PF02475,hmmpanther:PTHR23245:SF25,hmmpanther:PTHR23245,PROSITE_profiles:PS51684,HAMAP:MF_03152	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCATAGGTG	.	5	BLCA
SRSF5	0	.	GRCh37	14	70235600	70235600	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283C>T	p.Arg95Ter	p.R95*	ENST00000553521	5/9	46	33	13	53	53	0	SRSF5,stop_gained,p.Arg95Ter,ENST00000554021,;SRSF5,stop_gained,p.Arg95Ter,ENST00000553521,;SRSF5,stop_gained,p.Arg92Ter,ENST00000553635,;SRSF5,stop_gained,p.Arg95Ter,ENST00000557154,;SRSF5,stop_gained,p.Arg95Ter,ENST00000553369,;SRSF5,stop_gained,p.Arg95Ter,ENST00000451983,;SRSF5,stop_gained,p.Arg95Ter,ENST00000553548,;SRSF5,stop_gained,p.Arg95Ter,ENST00000394366,;SRSF5,stop_gained,p.Arg95Ter,ENST00000555349,;SRSF5,non_coding_transcript_exon_variant,,ENST00000556587,;SRSF5,upstream_gene_variant,,ENST00000556647,;SRSF5,stop_gained,p.Arg95Ter,ENST00000555547,;SRSF5,non_coding_transcript_exon_variant,,ENST00000557460,;SRSF5,non_coding_transcript_exon_variant,,ENST00000554465,;SRSF5,non_coding_transcript_exon_variant,,ENST00000556184,;SRSF5,non_coding_transcript_exon_variant,,ENST00000556436,;SRSF5,upstream_gene_variant,,ENST00000554929,;SRSF5,downstream_gene_variant,,ENST00000555412,;SRSF5,downstream_gene_variant,,ENST00000557435,;SRSF5,upstream_gene_variant,,ENST00000556330,;	T	ENSG00000100650	ENST00000553521	Transcript	stop_gained	1736	283	95	R/*	Cga/Tga	COSM3497382,COSM3497381	.	.	1	SRSF5	HGNC	10787	protein_coding	YES	CCDS32109.1	ENSP00000452123	SRSF5_HUMAN	Q86U32_HUMAN,G3V5K8_HUMAN	UPI00001358C0	.	.	.	5/9	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF54928,hmmpanther:PTHR10548:SF81,hmmpanther:PTHR10548	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R95Q|c.284G>A|6,BUFFER|p.R95Q|c.284G>A|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCGAAAT	.	5	BLCA
COQ6	0	.	GRCh37	14	74422185	74422185	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330G>T	p.Met110Ile	p.M110I	ENST00000334571	3/12	67	52	15	76	76	0	COQ6,missense_variant,p.Met110Ile,ENST00000334571,;COQ6,missense_variant,p.Met110Ile,ENST00000554920,;COQ6,missense_variant,p.Met85Ile,ENST00000394026,;COQ6,intron_variant,,ENST00000238709,;COQ6,intron_variant,,ENST00000554320,;ENTPD5,downstream_gene_variant,,ENST00000557325,;COQ6,non_coding_transcript_exon_variant,,ENST00000555552,;COQ6,upstream_gene_variant,,ENST00000557780,;COQ6,stop_lost,p.Ter55LeuextTer18,ENST00000555196,;COQ6,non_coding_transcript_exon_variant,,ENST00000555511,;COQ6,non_coding_transcript_exon_variant,,ENST00000556300,;COQ6,non_coding_transcript_exon_variant,,ENST00000554193,;COQ6,non_coding_transcript_exon_variant,,ENST00000553922,;COQ6,intron_variant,,ENST00000554153,;COQ6,intron_variant,,ENST00000557584,;COQ6,intron_variant,,ENST00000555392,;COQ6,intron_variant,,ENST00000554341,;COQ6,intron_variant,,ENST00000553462,;COQ6,intron_variant,,ENST00000557205,;COQ6,upstream_gene_variant,,ENST00000553448,;COQ6,downstream_gene_variant,,ENST00000554217,;COQ6,upstream_gene_variant,,ENST00000556588,;	T	ENSG00000119723	ENST00000334571	Transcript	missense_variant	370	330	110	M/I	atG/atT	.	.	.	1	COQ6	HGNC	20233	protein_coding	YES	CCDS9823.1	ENSP00000333946	COQ6_HUMAN	G3V2W8_HUMAN	UPI0000127F00	.	tolerated(0.21)	benign(0.215)	3/12	.	hmmpanther:PTHR13789:SF5,hmmpanther:PTHR13789,TIGRFAM_domain:TIGR01988,Gene3D:3.50.50.60,TIGRFAM_domain:TIGR01989,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATGAGATA	.	5	BLCA
CCDC176	0	.	GRCh37	14	74516615	74516615	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1003C>G	p.Leu335Val	p.L335V	ENST00000394009	8/12	52	38	13	56	56	0	CCDC176,missense_variant,p.Leu60Val,ENST00000553773,;CCDC176,missense_variant,p.Leu335Val,ENST00000394009,;CCDC176,downstream_gene_variant,,ENST00000464394,;AC005484.5,non_coding_transcript_exon_variant,,ENST00000492026,;CCDC176,downstream_gene_variant,,ENST00000489323,;CCDC176,downstream_gene_variant,,ENST00000477986,;	G	ENSG00000119636	ENST00000394009	Transcript	missense_variant	1126	1003	335	L/V	Ctt/Gtt	.	.	.	1	CCDC176	HGNC	19855	protein_coding	YES	CCDS32119.2	ENSP00000377577	BBOF1_HUMAN	G3V488_HUMAN	UPI0000D4A9D0	.	tolerated(0.1)	possibly_damaging(0.747)	8/12	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14845:SF0,hmmpanther:PTHR14845	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTTCAG	.	5	BLCA
SERPINA12	0	.	GRCh37	14	94962911	94962911	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.704C>T	p.Ser235Leu	p.S235L	ENST00000341228	4/6	52	39	13	63	63	0	SERPINA12,missense_variant,p.Ser235Leu,ENST00000556881,;SERPINA12,missense_variant,p.Ser235Leu,ENST00000341228,;	A	ENSG00000165953	ENST00000341228	Transcript	missense_variant	1500	704	235	S/L	tCa/tTa	.	.	.	-1	SERPINA12	HGNC	18359	protein_coding	YES	CCDS9926.1	ENSP00000342109	SPA12_HUMAN	.	UPI000000D86C	.	deleterious(0.04)	benign(0.037)	4/6	.	hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF149,Pfam_domain:PF00079,Gene3D:2.30.39.10,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTGAACTG	.	5	BLCA
NDN	0	.	GRCh37	15	23931407	23931407	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.958G>A	p.Glu320Lys	p.E320K	ENST00000331837	1/1	39	33	6	48	48	0	NDN,missense_variant,p.Glu320Lys,ENST00000331837,;	T	ENSG00000182636	ENST00000331837	Transcript	missense_variant	1044	958	320	E/K	Gag/Aag	.	.	.	-1	NDN	HGNC	7675	protein_coding	YES	CCDS10014.1	ENSP00000332643	NECD_HUMAN	.	UPI000012FEF1	.	deleterious_low_confidence(0.01)	benign(0.254)	1/1	.	hmmpanther:PTHR11736,hmmpanther:PTHR11736:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCAGAGA	.	5	BLCA
SNORD109A	0	.	GRCh37	15	25287179	25287179	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.115C>T	.	.	ENST00000604135	1/1	18	12	6	38	38	0	SNORD109A,non_coding_transcript_exon_variant,,ENST00000459128,;SNORD109A,non_coding_transcript_exon_variant,,ENST00000604135,;RP11-701H24.10,intron_variant,,ENST00000552781,;	T	ENSG00000270246	ENST00000604135	Transcript	non_coding_transcript_exon_variant	115	.	.	.	.	.	.	.	1	SNORD109A	HGNC	32773	sense_intronic	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAATCTGAGG	.	2	BLCA
SNORD116-6	0	.	GRCh37	15	25310262	25310262	+	RNA	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.90G>A	.	.	ENST00000384711	1/1	173	132	40	180	180	0	SNORD116-6,non_coding_transcript_exon_variant,,ENST00000384711,;SNORD116-5,downstream_gene_variant,,ENST00000384462,;SNORD116-7,upstream_gene_variant,,ENST00000384404,;SNHG14,intron_variant,,ENST00000549804,;SNHG14,intron_variant,,ENST00000551077,;	A	ENSG00000207442	ENST00000384711	Transcript	non_coding_transcript_exon_variant	90	.	.	.	.	.	.	.	1	SNORD116-6	HGNC	33072	snoRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGAGGTC	.	5	BLCA
HERC2	0	.	GRCh37	15	28358394	28358394	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14055C>G	p.%3D	p.L4685L	ENST00000261609	92/93	19	14	5	32	32	0	HERC2,synonymous_variant,p.%3D,ENST00000261609,;HERC2,non_coding_transcript_exon_variant,,ENST00000562136,;HERC2,non_coding_transcript_exon_variant,,ENST00000566635,;HERC2,downstream_gene_variant,,ENST00000568206,;	C	ENSG00000128731	ENST00000261609	Transcript	synonymous_variant	14164	14055	4685	L	ctC/ctG	.	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	.	92/93	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308,Pfam_domain:PF00632,SMART_domains:SM00119,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACTTGAGAAG	.	5	BLCA
MEIS2	0	.	GRCh37	15	37329015	37329018	+	Frame_Shift_Del	DEL	TGTG	TGTG	-	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	TGTG	TGTG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.897_900delCACA	p.Thr300IlefsTer12	p.T300Ifs*12	ENST00000561208	8/12	91	70	21	78	78	0	MEIS2,frameshift_variant,p.Thr300IlefsTer12,ENST00000424352,;MEIS2,frameshift_variant,p.Thr154IlefsTer12,ENST00000219869,;MEIS2,frameshift_variant,p.Thr300IlefsTer12,ENST00000559561,;MEIS2,frameshift_variant,p.Thr212IlefsTer12,ENST00000397620,;MEIS2,frameshift_variant,p.Thr159IlefsTer12,ENST00000607277,;MEIS2,frameshift_variant,p.Thr300IlefsTer12,ENST00000444725,;MEIS2,frameshift_variant,p.Thr212IlefsTer12,ENST00000397624,;MEIS2,frameshift_variant,p.Thr300IlefsTer12,ENST00000382766,;MEIS2,frameshift_variant,p.Thr287IlefsTer12,ENST00000559085,;MEIS2,frameshift_variant,p.Thr287IlefsTer12,ENST00000557796,;MEIS2,frameshift_variant,p.Thr300IlefsTer12,ENST00000561208,;MEIS2,frameshift_variant,p.Thr300IlefsTer12,ENST00000338564,;MEIS2,frameshift_variant,p.Thr287IlefsTer12,ENST00000340545,;MEIS2,frameshift_variant,p.Thr300PhefsTer69,ENST00000314177,;MEIS2,splice_region_variant,,ENST00000560570,;MEIS2,non_coding_transcript_exon_variant,,ENST00000561163,;	-	ENSG00000134138	ENST00000561208	Transcript	frameshift_variant	1316-1319	897-900	299-300	LT/X	ctCACA/ct	.	.	.	-1	MEIS2	HGNC	7001	protein_coding	YES	CCDS10044.1	ENSP00000453793	MEIS2_HUMAN	H0YKN2_HUMAN,H0YKE5_HUMAN	UPI000012EEBC	.	.	.	8/12	.	PROSITE_profiles:PS50071,hmmpanther:PTHR11850:SF47,hmmpanther:PTHR11850,Pfam_domain:PF05920,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACTTACTGTGAGATG	.	3	BLCA
PAK6	0	.	GRCh37	15	40557007	40557007	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21G>A	p.%3D	p.K7K	ENST00000560346	4/11	52	42	9	68	68	0	PAK6,synonymous_variant,p.%3D,ENST00000558106,;PAK6,synonymous_variant,p.%3D,ENST00000560346,;PAK6,synonymous_variant,p.%3D,ENST00000453867,;PAK6,synonymous_variant,p.%3D,ENST00000558878,;PAK6,synonymous_variant,p.%3D,ENST00000561230,;PAK6,synonymous_variant,p.%3D,ENST00000455577,;PAK6,synonymous_variant,p.%3D,ENST00000558183,;PAK6,synonymous_variant,p.%3D,ENST00000559139,;PAK6,synonymous_variant,p.%3D,ENST00000560806,;PAK6,synonymous_variant,p.%3D,ENST00000260404,;PAK6,synonymous_variant,p.%3D,ENST00000542403,;PAK6,synonymous_variant,p.%3D,ENST00000558055,;PAK6,synonymous_variant,p.%3D,ENST00000441369,;PAK6,synonymous_variant,p.%3D,ENST00000560684,;PAK6,synonymous_variant,p.%3D,ENST00000559617,;PAK6,synonymous_variant,p.%3D,ENST00000560669,;PAK6,upstream_gene_variant,,ENST00000557926,;PAK6,upstream_gene_variant,,ENST00000559901,;RP11-133K1.2,missense_variant,p.Arg101Lys,ENST00000558658,;RP11-133K1.2,3_prime_UTR_variant,,ENST00000559435,;RP11-133K1.2,non_coding_transcript_exon_variant,,ENST00000559936,;RP11-133K1.2,non_coding_transcript_exon_variant,,ENST00000558965,;	A	ENSG00000137843	ENST00000560346	Transcript	synonymous_variant	604	21	7	K	aaG/aaA	.	.	.	1	PAK6	HGNC	16061	protein_coding	YES	CCDS10054.1	ENSP00000453858	PAK6_HUMAN	H0YMS4_HUMAN,H0YM99_HUMAN,H0YLZ9_HUMAN,H0YL16_HUMAN,H0YK91_HUMAN,H0YK74_HUMAN	UPI0000001C3B	.	.	.	4/11	.	hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF182,Gene3D:3.90.810.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGAAACG	.	5	BLCA
PLA2G4D	0	.	GRCh37	15	42375911	42375911	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535+3G>A	.	.	ENST00000290472	.	80	50	29	137	137	0	PLA2G4D,splice_region_variant,,ENST00000290472,;PLA2G4D,splice_region_variant,,ENST00000560132,;	T	ENSG00000159337	ENST00000290472	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	PLA2G4D	HGNC	30038	protein_coding	YES	CCDS32203.1	ENSP00000290472	PA24D_HUMAN	.	UPI00001FE2F2	.	.	.	.	7/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCACCTG	.	4	BLCA
CDAN1	0	.	GRCh37	15	43026468	43026468	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1213C>G	p.Leu405Val	p.L405V	ENST00000356231	7/28	47	38	9	59	59	0	CDAN1,missense_variant,p.Leu405Val,ENST00000356231,;CDAN1,downstream_gene_variant,,ENST00000563260,;TTBK2,downstream_gene_variant,,ENST00000267890,;CTD-2036P10.3,upstream_gene_variant,,ENST00000567456,;CDAN1,upstream_gene_variant,,ENST00000562465,;	C	ENSG00000140326	ENST00000356231	Transcript	missense_variant	1237	1213	405	L/V	Ctg/Gtg	.	.	.	-1	CDAN1	HGNC	1713	protein_coding	YES	CCDS32209.1	ENSP00000348564	CDAN1_HUMAN	H3BM60_HUMAN	UPI0000229BCB	.	deleterious(0)	probably_damaging(0.979)	7/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAGCTG	.	4	BLCA
CATSPER2	0	.	GRCh37	15	43932682	43932682	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401C>T	p.Ser134Phe	p.S134F	ENST00000321596	5/13	118	105	12	112	112	0	CATSPER2,missense_variant,p.Ser134Phe,ENST00000355438,;CATSPER2,missense_variant,p.Ser134Phe,ENST00000354127,;CATSPER2,missense_variant,p.Ser140Phe,ENST00000381761,;CATSPER2,missense_variant,p.Ser134Phe,ENST00000396879,;CATSPER2,missense_variant,p.Ser134Phe,ENST00000321596,;STRC,intron_variant,,ENST00000541030,;RNU6-610P,upstream_gene_variant,,ENST00000384264,;CATSPER2,missense_variant,p.Ser134Phe,ENST00000433380,;CATSPER2,non_coding_transcript_exon_variant,,ENST00000469461,;CATSPER2,non_coding_transcript_exon_variant,,ENST00000415968,;	A	ENSG00000166762	ENST00000321596	Transcript	missense_variant	601	401	134	S/F	tCc/tTc	.	.	.	-1	CATSPER2	HGNC	18810	protein_coding	YES	CCDS10099.1	ENSP00000321463	CTSR2_HUMAN	E7EX46_HUMAN,B8ZZQ9_HUMAN	UPI000006DE3A	.	tolerated(0.1)	benign(0.265)	5/13	.	Superfamily_domains:SSF81324,Gene3D:1.20.120.350,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTGGATTCC	.	4	BLCA
MFAP1	0	.	GRCh37	15	44097612	44097612	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099G>A	p.Asp367Asn	p.D367N	ENST00000267812	8/9	62	40	22	54	54	0	MFAP1,missense_variant,p.Asp367Asn,ENST00000267812,;SERF2,downstream_gene_variant,,ENST00000594896,;HYPK,downstream_gene_variant,,ENST00000406925,;HYPK,downstream_gene_variant,,ENST00000442995,;SERF2,downstream_gene_variant,,ENST00000600633,;HYPK,downstream_gene_variant,,ENST00000458412,;HYPK,downstream_gene_variant,,ENST00000497142,;HYPK,downstream_gene_variant,,ENST00000498605,;MFAP1,non_coding_transcript_exon_variant,,ENST00000484386,;SERF2,downstream_gene_variant,,ENST00000448830,;SERF2,downstream_gene_variant,,ENST00000409617,;	T	ENSG00000140259	ENST00000267812	Transcript	missense_variant	1332	1099	367	D/N	Gat/Aat	.	.	.	-1	MFAP1	HGNC	7032	protein_coding	YES	CCDS10105.1	ENSP00000267812	MFAP1_HUMAN	.	UPI000013D770	.	deleterious(0)	probably_damaging(0.98)	8/9	.	hmmpanther:PTHR15327,hmmpanther:PTHR15327:SF0,Pfam_domain:PF06991	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGATCCTCCA	.	5	BLCA
DMXL2	0	.	GRCh37	15	51768876	51768876	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6874C>G	p.Gln2292Glu	p.Q2292E	ENST00000543779	27/43	55	46	9	54	54	0	DMXL2,missense_variant,p.Gln1655Glu,ENST00000449909,;DMXL2,missense_variant,p.Gln2292Glu,ENST00000543779,;DMXL2,missense_variant,p.Gln417Glu,ENST00000560891,;DMXL2,missense_variant,p.Gln2291Glu,ENST00000251076,;RP11-707P17.1,intron_variant,,ENST00000561007,;	C	ENSG00000104093	ENST00000543779	Transcript	missense_variant	6964	6874	2292	Q/E	Caa/Gaa	.	.	.	-1	DMXL2	HGNC	2938	protein_coding	YES	CCDS53946.1	ENSP00000441858	DMXL2_HUMAN	.	UPI00001FE4C2	.	tolerated(0.15)	possibly_damaging(0.9)	27/43	.	hmmpanther:PTHR13950:SF11,hmmpanther:PTHR13950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TCCTTGATAAG	.	3	BLCA
MYO5C	0	.	GRCh37	15	52527932	52527932	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2897C>G	p.Ser966Ter	p.S966*	ENST00000261839	23/41	100	86	14	97	97	0	MYO5C,stop_gained,p.Ser966Ter,ENST00000261839,;MYO5C,3_prime_UTR_variant,,ENST00000443683,;MYO5C,3_prime_UTR_variant,,ENST00000558902,;MYO5C,3_prime_UTR_variant,,ENST00000560809,;MYO5C,downstream_gene_variant,,ENST00000559434,;	C	ENSG00000128833	ENST00000261839	Transcript	stop_gained	3059	2897	966	S/*	tCa/tGa	.	.	.	-1	MYO5C	HGNC	7604	protein_coding	YES	CCDS42036.1	ENSP00000261839	MYO5C_HUMAN	Q14783_HUMAN,H0YM93_HUMAN	UPI000013D20E	.	.	.	23/41	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF313,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCTGAATTA	.	4	BLCA
NEDD4	0	.	GRCh37	15	56132708	56132708	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3009delC	p.Phe1003LeufsTer8	p.F1003Lfs*8	ENST00000338963	14/22	48	40	8	40	40	0	NEDD4,frameshift_variant,p.Phe666LeufsTer8,ENST00000508871,;NEDD4,frameshift_variant,p.Phe656LeufsTer8,ENST00000435532,;NEDD4,frameshift_variant,p.Phe1003LeufsTer8,ENST00000338963,;NEDD4,frameshift_variant,p.Phe1075LeufsTer8,ENST00000508342,;NEDD4,frameshift_variant,p.Phe1059LeufsTer8,ENST00000506154,;NEDD4,3_prime_UTR_variant,,ENST00000503468,;	-	ENSG00000069869	ENST00000338963	Transcript	frameshift_variant	3309	3009	1003	F/X	ttC/tt	.	.	.	-1	NEDD4	HGNC	7727	protein_coding	YES	CCDS10156.1	ENSP00000345530	NEDD4_HUMAN	.	UPI00001418FE	.	.	.	14/22	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF282,Pfam_domain:PF00632,SMART_domains:SM00119,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCGGATGAAAAA	.	3	BLCA
NEDD4	0	.	GRCh37	15	56132822	56132822	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2983C>G	p.His995Asp	p.H995D	ENST00000338963	13/22	88	70	17	75	75	0	NEDD4,missense_variant,p.His658Asp,ENST00000508871,;NEDD4,missense_variant,p.His648Asp,ENST00000435532,;NEDD4,missense_variant,p.His995Asp,ENST00000338963,;NEDD4,missense_variant,p.His1067Asp,ENST00000508342,;NEDD4,missense_variant,p.His1051Asp,ENST00000506154,;NEDD4,3_prime_UTR_variant,,ENST00000503468,;	C	ENSG00000069869	ENST00000338963	Transcript	missense_variant	3283	2983	995	H/D	Cat/Gat	COSM138064	.	.	-1	NEDD4	HGNC	7727	protein_coding	YES	CCDS10156.1	ENSP00000345530	NEDD4_HUMAN	.	UPI00001418FE	.	deleterious(0)	probably_damaging(1)	13/22	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF282,Pfam_domain:PF00632,SMART_domains:SM00119,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGATAAA	.	5	BLCA
PPIB	0	.	GRCh37	15	64454242	64454242	+	Missense_Mutation	SNP	C	C	G	rs750682454	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>C	p.Glu83Gln	p.E83Q	ENST00000300026	2/5	259	202	56	240	240	0	PPIB,missense_variant,p.Glu83Gln,ENST00000300026,;CSNK1G1,downstream_gene_variant,,ENST00000303052,;SNX22,downstream_gene_variant,,ENST00000325881,;CSNK1G1,downstream_gene_variant,,ENST00000607537,;PPIB,intron_variant,,ENST00000558492,;PPIB,splice_region_variant,,ENST00000561048,;SNX22,downstream_gene_variant,,ENST00000557789,;SNX22,downstream_gene_variant,,ENST00000560997,;	G	ENSG00000166794	ENST00000300026	Transcript	missense_variant	466	247	83	E/Q	Gag/Cag	rs750682454	.	.	-1	PPIB	HGNC	9255	protein_coding	YES	CCDS10191.1	ENSP00000300026	PPIB_HUMAN	.	UPI0000072333	.	deleterious(0.02)	possibly_damaging(0.52)	2/5	.	PROSITE_profiles:PS50072,hmmpanther:PTHR11071:SF63,hmmpanther:PTHR11071,Gene3D:2.40.100.10,Pfam_domain:PF00160,Superfamily_domains:SSF50891	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCTCCTG	byFrequency	5	BLCA
C15orf27	0	.	GRCh37	15	76496185	76496185	+	Silent	SNP	C	C	G	rs748227369	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1125C>G	p.%3D	p.L375L	ENST00000388942	11/11	69	54	14	71	71	0	C15orf27,synonymous_variant,p.%3D,ENST00000388942,;C15orf27,3_prime_UTR_variant,,ENST00000561302,;C15orf27,3_prime_UTR_variant,,ENST00000484722,;C15orf27,non_coding_transcript_exon_variant,,ENST00000558249,;	G	ENSG00000169758	ENST00000388942	Transcript	synonymous_variant	1401	1125	375	L	ctC/ctG	rs748227369	.	.	1	C15orf27	HGNC	26763	protein_coding	YES	CCDS10289.2	ENSP00000373594	CO027_HUMAN	.	UPI0000DBEE67	.	.	.	11/11	.	hmmpanther:PTHR12305:SF45,hmmpanther:PTHR12305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCCTCAAACT	.	3	BLCA
C15orf27	0	.	GRCh37	15	76496191	76496191	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1131C>T	p.%3D	p.L377L	ENST00000388942	11/11	69	53	16	69	69	0	C15orf27,synonymous_variant,p.%3D,ENST00000388942,;C15orf27,3_prime_UTR_variant,,ENST00000561302,;C15orf27,3_prime_UTR_variant,,ENST00000484722,;C15orf27,non_coding_transcript_exon_variant,,ENST00000558249,;	T	ENSG00000169758	ENST00000388942	Transcript	synonymous_variant	1407	1131	377	L	ctC/ctT	.	.	.	1	C15orf27	HGNC	26763	protein_coding	YES	CCDS10289.2	ENSP00000373594	CO027_HUMAN	.	UPI0000DBEE67	.	.	.	11/11	.	hmmpanther:PTHR12305:SF45,hmmpanther:PTHR12305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAACTCGGCGG	.	3	BLCA
ADAMTSL3	0	.	GRCh37	15	84683327	84683327	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4007G>C	p.Arg1336Thr	p.R1336T	ENST00000286744	24/30	117	98	19	106	106	0	ADAMTSL3,missense_variant,p.Arg1336Thr,ENST00000286744,;ADAMTSL3,missense_variant,p.Arg1336Thr,ENST00000567476,;ADAMTSL3,non_coding_transcript_exon_variant,,ENST00000561483,;	C	ENSG00000156218	ENST00000286744	Transcript	missense_variant	4231	4007	1336	R/T	aGa/aCa	COSM965880	.	.	1	ADAMTSL3	HGNC	14633	protein_coding	YES	CCDS10326.1	ENSP00000286744	ATL3_HUMAN	.	UPI00001615A5	.	tolerated(0.11)	benign(0.012)	24/30	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR13723:SF169,hmmpanther:PTHR13723,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGAGAGGAG	.	5	BLCA
ATF7IP2	0	.	GRCh37	16	10567822	10567822	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1525G>C	p.Glu509Gln	p.E509Q	ENST00000396560	10/12	66	52	14	50	50	0	ATF7IP2,missense_variant,p.Glu509Gln,ENST00000396560,;ATF7IP2,missense_variant,p.Glu53Gln,ENST00000543967,;ATF7IP2,missense_variant,p.Glu509Gln,ENST00000356427,;ATF7IP2,intron_variant,,ENST00000396559,;ATF7IP2,intron_variant,,ENST00000324570,;ATF7IP2,3_prime_UTR_variant,,ENST00000535850,;ATF7IP2,3_prime_UTR_variant,,ENST00000568027,;ATF7IP2,non_coding_transcript_exon_variant,,ENST00000565450,;	C	ENSG00000166669	ENST00000396560	Transcript	missense_variant	1752	1525	509	E/Q	Gaa/Caa	.	.	.	1	ATF7IP2	HGNC	20397	protein_coding	YES	CCDS10540.1	ENSP00000379808	MCAF2_HUMAN	H3BUP1_HUMAN,H3BR07_HUMAN,H3BPC9_HUMAN,H3BNE6_HUMAN,B4DKH3_HUMAN	UPI00001FEDD8	.	deleterious(0)	probably_damaging(0.909)	10/12	.	hmmpanther:PTHR23210:SF6,hmmpanther:PTHR23210	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAAGAAGGC	.	5	BLCA
KIAA0430	0	.	GRCh37	16	15692735	15692735	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4960G>C	p.Glu1654Gln	p.E1654Q	ENST00000396368	26/27	37	24	13	38	38	0	KIAA0430,missense_variant,p.Glu1654Gln,ENST00000551742,;KIAA0430,missense_variant,p.Glu1651Gln,ENST00000602337,;KIAA0430,missense_variant,p.Glu1489Gln,ENST00000540441,;KIAA0430,missense_variant,p.Glu1342Gln,ENST00000344181,;KIAA0430,missense_variant,p.Glu1651Gln,ENST00000548025,;KIAA0430,missense_variant,p.Glu1654Gln,ENST00000396368,;C16orf45,intron_variant,,ENST00000565857,;KIAA0430,downstream_gene_variant,,ENST00000547936,;KIAA0430,3_prime_UTR_variant,,ENST00000551878,;KIAA0430,3_prime_UTR_variant,,ENST00000552553,;KIAA0430,non_coding_transcript_exon_variant,,ENST00000552771,;KIAA0430,non_coding_transcript_exon_variant,,ENST00000551579,;KIAA0430,downstream_gene_variant,,ENST00000549337,;	G	ENSG00000166783	ENST00000396368	Transcript	missense_variant	5167	4960	1654	E/Q	Gag/Cag	.	.	.	-1	KIAA0430	HGNC	29562	protein_coding	YES	CCDS10562.2	ENSP00000379654	MARF1_HUMAN	F8VRS5_HUMAN	UPI00006881BC	.	deleterious(0.03)	possibly_damaging(0.868)	26/27	.	hmmpanther:PTHR14379:SF3,hmmpanther:PTHR14379	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAAACT	.	5	BLCA
IFT140	0	.	GRCh37	16	1637244	1637244	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.964G>C	p.Glu322Gln	p.E322Q	ENST00000426508	9/31	52	42	10	79	79	0	IFT140,missense_variant,p.Glu322Gln,ENST00000426508,;LA16c-395F10.2,intron_variant,,ENST00000563162,;IFT140,non_coding_transcript_exon_variant,,ENST00000439987,;IFT140,intron_variant,,ENST00000397417,;IFT140,upstream_gene_variant,,ENST00000565298,;	G	ENSG00000187535	ENST00000426508	Transcript	missense_variant	1328	964	322	E/Q	Gag/Cag	.	.	.	-1	IFT140	HGNC	29077	protein_coding	YES	CCDS10439.1	ENSP00000406012	IF140_HUMAN	Q9UG52_HUMAN,H3BTA5_HUMAN,H3BNC5_HUMAN	UPI0000073C64	.	tolerated(0.09)	benign(0.212)	9/31	.	hmmpanther:PTHR15722,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAAAGC	.	5	BLCA
GP2	0	.	GRCh37	16	20329594	20329594	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1175C>T	p.Ser392Phe	p.S392F	ENST00000381362	8/12	74	46	27	75	75	0	GP2,missense_variant,p.Ser242Phe,ENST00000341642,;GP2,missense_variant,p.Ser392Phe,ENST00000381362,;GP2,missense_variant,p.Ser389Phe,ENST00000302555,;GP2,missense_variant,p.Ser245Phe,ENST00000381360,;GP2,downstream_gene_variant,,ENST00000575582,;GP2,downstream_gene_variant,,ENST00000572478,;GP2,downstream_gene_variant,,ENST00000572347,;GP2,downstream_gene_variant,,ENST00000573897,;GP2,downstream_gene_variant,,ENST00000574982,;	A	ENSG00000169347	ENST00000381362	Transcript	missense_variant	1252	1175	392	S/F	tCc/tTc	.	.	.	-1	GP2	HGNC	4441	protein_coding	YES	CCDS42128.1	ENSP00000370767	GP2_HUMAN	I3L2Z7_HUMAN	UPI000059D333	.	deleterious(0)	probably_damaging(0.987)	8/12	.	PROSITE_profiles:PS51034,hmmpanther:PTHR22962:SF129,hmmpanther:PTHR22962,PROSITE_patterns:PS00682,Pfam_domain:PF00100,SMART_domains:SM00241,Prints_domain:PR00023	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCGGGAGGTG	.	5	BLCA
TSC2	0	.	GRCh37	16	2131630	2131630	+	Silent	SNP	G	G	A	rs758114962	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3645G>A	p.%3D	p.P1215P	ENST00000219476	31/42	77	58	18	94	94	0	TSC2,synonymous_variant,p.%3D,ENST00000439673,;TSC2,synonymous_variant,p.%3D,ENST00000219476,;TSC2,synonymous_variant,p.%3D,ENST00000353929,;TSC2,synonymous_variant,p.%3D,ENST00000350773,;TSC2,synonymous_variant,p.%3D,ENST00000568454,;TSC2,synonymous_variant,p.%3D,ENST00000382538,;TSC2,synonymous_variant,p.%3D,ENST00000401874,;TSC2,upstream_gene_variant,,ENST00000569110,;TSC2,downstream_gene_variant,,ENST00000568366,;TSC2,3_prime_UTR_variant,,ENST00000439117,;TSC2,non_coding_transcript_exon_variant,,ENST00000497886,;TSC2,downstream_gene_variant,,ENST00000561695,;TSC2,upstream_gene_variant,,ENST00000569930,;TSC2,downstream_gene_variant,,ENST00000471143,;TSC2,downstream_gene_variant,,ENST00000483020,;	A	ENSG00000103197	ENST00000219476	Transcript	synonymous_variant	4275	3645	1215	P	ccG/ccA	rs758114962	.	.	1	TSC2	HGNC	12363	protein_coding	YES	CCDS10458.1	ENSP00000219476	TSC2_HUMAN	.	UPI000013C781	.	.	.	31/42	.	hmmpanther:PTHR10063,hmmpanther:PTHR10063:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCCGCTCAG	byFrequency	5	BLCA
CCNF	0	.	GRCh37	16	2503509	2503509	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1686C>T	p.%3D	p.L562L	ENST00000397066	15/17	26	18	8	40	40	0	CCNF,synonymous_variant,p.%3D,ENST00000397066,;RP11-715J22.4,downstream_gene_variant,,ENST00000566085,;RP11-715J22.4,downstream_gene_variant,,ENST00000565827,;RP11-715J22.3,upstream_gene_variant,,ENST00000561653,;CCNF,3_prime_UTR_variant,,ENST00000293968,;CCNF,downstream_gene_variant,,ENST00000564236,;	T	ENSG00000162063	ENST00000397066	Transcript	synonymous_variant	1774	1686	562	L	ctC/ctT	COSM159833	.	.	1	CCNF	HGNC	1591	protein_coding	YES	CCDS10467.1	ENSP00000380256	CCNF_HUMAN	.	UPI0000127595	.	.	.	15/17	.	hmmpanther:PTHR10177,hmmpanther:PTHR10177:SF183	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCAGCTC	.	5	BLCA
PRSS21	0	.	GRCh37	16	2871501	2871501	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.840G>A	p.Trp280Ter	p.W280*	ENST00000005995	6/6	18	13	4	22	22	0	PRSS21,stop_gained,p.Trp280Ter,ENST00000005995,;PRSS21,stop_gained,p.Trp222Ter,ENST00000574265,;PRSS21,stop_gained,p.Trp266Ter,ENST00000450020,;PRSS21,stop_gained,p.Trp278Ter,ENST00000455114,;PRSS21,3_prime_UTR_variant,,ENST00000574813,;PRSS21,intron_variant,,ENST00000575739,;PRSS21,downstream_gene_variant,,ENST00000571141,;PRSS21,downstream_gene_variant,,ENST00000575199,;PRSS21,downstream_gene_variant,,ENST00000577043,;PRSS21,downstream_gene_variant,,ENST00000570629,;PRSS21,downstream_gene_variant,,ENST00000570594,;LA16c-352F10.1,downstream_gene_variant,,ENST00000572664,;	A	ENSG00000007038	ENST00000005995	Transcript	stop_gained	882	840	280	W/*	tgG/tgA	.	.	.	1	PRSS21	HGNC	9485	protein_coding	YES	CCDS10478.1	ENSP00000005995	TEST_HUMAN	.	UPI000004813E	.	.	.	6/6	.	Superfamily_domains:SSF50494,SMART_domains:SM00020,Gene3D:2.40.10.10,Pfam_domain:PF00089,hmmpanther:PTHR24256:SF99,hmmpanther:PTHR24256,PROSITE_profiles:PS50240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTGGATCCA	.	5	BLCA
NLRC3	0	.	GRCh37	16	3615025	3615025	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154G>C	p.Glu52Gln	p.E52Q	ENST00000448023	2/19	12	5	6	26	26	0	NLRC3,missense_variant,p.Glu5Gln,ENST00000301749,;NLRC3,missense_variant,p.Glu22Gln,ENST00000324659,;NLRC3,missense_variant,p.Glu5Gln,ENST00000359128,;NLRC3,missense_variant,p.Glu52Gln,ENST00000448023,;NLRC3,non_coding_transcript_exon_variant,,ENST00000603128,;NLRC3,non_coding_transcript_exon_variant,,ENST00000419350,;NLRC3,non_coding_transcript_exon_variant,,ENST00000603055,;NLRC3,missense_variant,p.Glu52Gln,ENST00000603507,;	G	ENSG00000167984	ENST00000448023	Transcript	missense_variant	341	154	52	E/Q	Gag/Cag	.	.	.	-1	NLRC3	HGNC	29889	protein_coding	YES	.	ENSP00000414415	.	C9JLH9_HUMAN	UPI0000246E58	.	deleterious(0.01)	possibly_damaging(0.459)	2/19	.	hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CACCTCTTGCT	.	3	BLCA
CREBBP	0	.	GRCh37	16	3799671	3799671	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3793G>C	p.Asp1265His	p.D1265H	ENST00000262367	21/31	21	17	3	33	33	0	CREBBP,missense_variant,p.Asp33His,ENST00000573517,;CREBBP,missense_variant,p.Asp1265His,ENST00000262367,;CREBBP,missense_variant,p.Asp1227His,ENST00000382070,;CREBBP,missense_variant,p.Asp139His,ENST00000570939,;CREBBP,upstream_gene_variant,,ENST00000572569,;CREBBP,upstream_gene_variant,,ENST00000574740,;	G	ENSG00000005339	ENST00000262367	Transcript	missense_variant	4603	3793	1265	D/H	Gat/Cat	.	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	unknown(0)	21/31	.	hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	CTGATCCTTTG	.	4	BLCA
GPR97	0	.	GRCh37	16	57717997	57717997	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1035C>A	p.Phe345Leu	p.F345L	ENST00000333493	9/12	49	40	9	69	69	0	GPR97,missense_variant,p.Phe225Leu,ENST00000450388,;GPR97,missense_variant,p.Phe135Leu,ENST00000327655,;GPR97,missense_variant,p.Phe345Leu,ENST00000333493,;RP11-405F3.4,intron_variant,,ENST00000563062,;GPR97,intron_variant,,ENST00000569977,;GPR97,intron_variant,,ENST00000567991,;	A	ENSG00000182885	ENST00000333493	Transcript	missense_variant	1196	1035	345	F/L	ttC/ttA	.	.	.	1	GPR97	HGNC	13728	protein_coding	YES	CCDS10786.1	ENSP00000332900	GPR97_HUMAN	H3BS78_HUMAN,F8W8F7_HUMAN	UPI000003C9E1	.	tolerated(0.36)	benign(0.036)	9/12	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF267,Pfam_domain:PF00002,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCCACTA	.	5	BLCA
TMED6	0	.	GRCh37	16	69377382	69377382	+	Silent	SNP	G	G	A	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.651C>T	p.%3D	p.I217I	ENST00000288025	4/4	53	42	11	55	55	0	TMED6,synonymous_variant,p.%3D,ENST00000288025,;RP11-343C2.9,intron_variant,,ENST00000563634,;COG8,upstream_gene_variant,,ENST00000567493,;COG8,upstream_gene_variant,,ENST00000562595,;NIP7,downstream_gene_variant,,ENST00000569637,;NIP7,downstream_gene_variant,,ENST00000562523,;COG8,upstream_gene_variant,,ENST00000562081,;COG8,upstream_gene_variant,,ENST00000306875,;NIP7,downstream_gene_variant,,ENST00000254941,;NIP7,downstream_gene_variant,,ENST00000254940,;NIP7,downstream_gene_variant,,ENST00000567202,;RP11-343C2.7,intron_variant,,ENST00000570293,;RP11-343C2.7,intron_variant,,ENST00000564737,;NIP7,downstream_gene_variant,,ENST00000562131,;NIP7,downstream_gene_variant,,ENST00000565034,;TMED6,downstream_gene_variant,,ENST00000568748,;NIP7,downstream_gene_variant,,ENST00000563364,;	A	ENSG00000157315	ENST00000288025	Transcript	synonymous_variant	707	651	217	I	atC/atT	COSM1609563	.	.	-1	TMED6	HGNC	28331	protein_coding	YES	CCDS10878.1	ENSP00000288025	TMED6_HUMAN	.	UPI0000039E20	.	.	.	4/4	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22811:SF45,hmmpanther:PTHR22811,Pfam_domain:PF01105	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCAGGATCCC	.	5	BLCA
PHLPP2	0	.	GRCh37	16	71748751	71748751	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6-47C>G	.	.	ENST00000568954	.	13	10	3	17	17	0	PHLPP2,5_prime_UTR_variant,,ENST00000393524,;PHLPP2,intron_variant,,ENST00000567016,;PHLPP2,intron_variant,,ENST00000568954,;PHLPP2,upstream_gene_variant,,ENST00000356272,;PHLPP2,upstream_gene_variant,,ENST00000360429,;PHLPP2,intron_variant,,ENST00000538126,;	C	ENSG00000040199	ENST00000568954	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PHLPP2	HGNC	29149	protein_coding	YES	CCDS32479.1	ENSP00000457991	PHLP2_HUMAN	.	UPI0000229F5A	.	.	.	.	1/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGACTGAATTA	.	2	BLCA
KIAA0513	0	.	GRCh37	16	85111125	85111125	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669G>T	p.Lys223Asn	p.K223N	ENST00000566428	6/13	22	16	6	40	40	0	KIAA0513,missense_variant,p.Lys223Asn,ENST00000567328,;KIAA0513,missense_variant,p.Lys223Asn,ENST00000258180,;KIAA0513,missense_variant,p.Lys223Asn,ENST00000538274,;KIAA0513,missense_variant,p.Lys223Asn,ENST00000566428,;KIAA0513,missense_variant,p.Lys20Asn,ENST00000562580,;KIAA0513,upstream_gene_variant,,ENST00000562564,;	T	ENSG00000135709	ENST00000566428	Transcript	missense_variant	1300	669	223	K/N	aaG/aaT	.	.	.	1	KIAA0513	HGNC	29058	protein_coding	YES	CCDS32499.1	ENSP00000457408	K0513_HUMAN	.	UPI0000139A26	.	deleterious(0.01)	possibly_damaging(0.548)	6/13	.	hmmpanther:PTHR13663:SF2,hmmpanther:PTHR13663	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAAGAAGGA	.	5	BLCA
CDH15	0	.	GRCh37	16	89256738	89256738	+	Missense_Mutation	SNP	G	G	A	rs186344601	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066G>A	p.Glu356Lys	p.E356K	ENST00000289746	8/14	11	7	4	16	16	0	CDH15,missense_variant,p.Glu356Lys,ENST00000289746,;CDH15,downstream_gene_variant,,ENST00000524089,;	A	ENSG00000129910	ENST00000289746	Transcript	missense_variant	1131	1066	356	E/K	Gag/Aag	rs186344601,COSM704427	.	.	1	CDH15	HGNC	1754	protein_coding	YES	CCDS10976.1	ENSP00000289746	CAD15_HUMAN	.	UPI0000126DAF	.	tolerated(0.88)	benign(0.008)	8/14	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF67,PROSITE_profiles:PS50268	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGCTGAGCGG	byCluster|by1000G	3	BLCA
FANCA	0	.	GRCh37	16	89858916	89858916	+	Missense_Mutation	SNP	G	G	A	rs142620413	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1046C>T	p.Ala349Val	p.A349V	ENST00000389301	12/43	46	43	3	73	73	0	FANCA,missense_variant,p.Ala349Val,ENST00000568369,;FANCA,missense_variant,p.Ala349Val,ENST00000389301,;FANCA,3_prime_UTR_variant,,ENST00000567621,;FANCA,non_coding_transcript_exon_variant,,ENST00000566133,;FANCA,downstream_gene_variant,,ENST00000566409,;FANCA,upstream_gene_variant,,ENST00000563767,;	A	ENSG00000187741	ENST00000389301	Transcript	missense_variant	1077	1046	349	A/V	gCg/gTg	rs142620413	.	.	-1	FANCA	HGNC	3582	protein_coding	YES	CCDS32515.1	ENSP00000373952	FANCA_HUMAN	H3BT53_HUMAN	UPI0000520A1A	.	tolerated(0.14)	possibly_damaging(0.499)	12/43	.	hmmpanther:PTHR12047	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCGCGCAAAG	byCluster	2	BLCA
TCF25	0	.	GRCh37	16	89977038	89977038	+	Silent	SNP	C	C	T	rs759109053	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1839C>T	p.%3D	p.F613F	ENST00000263346	17/18	76	55	21	85	85	0	TCF25,missense_variant,p.Leu418Phe,ENST00000263347,;TCF25,missense_variant,p.Leu515Phe,ENST00000562256,;TCF25,missense_variant,p.Leu62Phe,ENST00000566283,;TCF25,synonymous_variant,p.%3D,ENST00000263346,;MC1R,upstream_gene_variant,,ENST00000555427,;TCF25,non_coding_transcript_exon_variant,,ENST00000564957,;TCF25,non_coding_transcript_exon_variant,,ENST00000565860,;TCF25,non_coding_transcript_exon_variant,,ENST00000567171,;RP11-566K11.7,non_coding_transcript_exon_variant,,ENST00000570217,;TCF25,non_coding_transcript_exon_variant,,ENST00000570116,;TCF25,downstream_gene_variant,,ENST00000563484,;MC1R,upstream_gene_variant,,ENST00000539976,;	T	ENSG00000141002	ENST00000263346	Transcript	synonymous_variant	1895	1839	613	F	ttC/ttT	rs759109053	.	.	1	TCF25	HGNC	29181	protein_coding	YES	CCDS10987.1	ENSP00000263346	TCF25_HUMAN	.	UPI000012A80B	.	.	.	17/18	.	hmmpanther:PTHR22684:SF0,hmmpanther:PTHR22684	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCTTCCG	.	5	BLCA
ZNF624	0	.	GRCh37	17	16525749	16525749	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2451C>G	p.Phe817Leu	p.F817L	ENST00000311331	6/6	69	57	12	87	87	0	ZNF624,missense_variant,p.Phe817Leu,ENST00000311331,;ZNF624,non_coding_transcript_exon_variant,,ENST00000579528,;AC005822.1,upstream_gene_variant,,ENST00000414124,;	C	ENSG00000197566	ENST00000311331	Transcript	missense_variant	2543	2451	817	F/L	ttC/ttG	.	.	.	-1	ZNF624	HGNC	29254	protein_coding	YES	CCDS11180.1	ENSP00000310472	ZN624_HUMAN	J3QKY7_HUMAN,C9J5H1_HUMAN	UPI0000456A22	.	deleterious(0)	probably_damaging(0.989)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF207,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTTCTGAAGGC	.	4	BLCA
RAI1	0	.	GRCh37	17	17699109	17699109	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2847G>A	p.Met949Ile	p.M949I	ENST00000353383	3/6	28	22	5	47	47	0	RAI1,missense_variant,p.Met949Ile,ENST00000353383,;RAI1,missense_variant,p.Met949Ile,ENST00000261641,;RAI1,upstream_gene_variant,,ENST00000583166,;RAI1,downstream_gene_variant,,ENST00000471135,;RAI1,downstream_gene_variant,,ENST00000395774,;	A	ENSG00000108557	ENST00000353383	Transcript	missense_variant	3316	2847	949	M/I	atG/atA	.	.	.	1	RAI1	HGNC	9834	protein_coding	YES	CCDS11188.1	ENSP00000323074	RAI1_HUMAN	J3QLL5_HUMAN,A8MXE8_HUMAN	UPI0000200AAF	.	tolerated(0.79)	benign(0.008)	3/6	.	hmmpanther:PTHR14955:SF6,hmmpanther:PTHR14955	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATGAAGCC	.	5	BLCA
DHRS7B	0	.	GRCh37	17	21094372	21094372	+	Missense_Mutation	SNP	C	C	T	rs536195532	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.884C>T	p.Ser295Phe	p.S295F	ENST00000395511	7/7	99	75	23	149	148	1	DHRS7B,missense_variant,p.Ser280Phe,ENST00000579303,;DHRS7B,missense_variant,p.Ser295Phe,ENST00000395511,;DHRS7B,missense_variant,p.Ser95Phe,ENST00000583388,;DHRS7B,intron_variant,,ENST00000581463,;DHRS7B,3_prime_UTR_variant,,ENST00000578426,;DHRS7B,non_coding_transcript_exon_variant,,ENST00000346603,;	T	ENSG00000109016	ENST00000395511	Transcript	missense_variant	1204	884	295	S/F	tCc/tTc	rs536195532	.	.	1	DHRS7B	HGNC	24547	protein_coding	YES	CCDS11215.1	ENSP00000378887	DRS7B_HUMAN	J3QKT1_HUMAN	UPI00000739CB	.	tolerated(0.71)	benign(0.009)	7/7	.	hmmpanther:PTHR24322,hmmpanther:PTHR24322:SF325,PIRSF_domain:PIRSF000126,Superfamily_domains:SSF51735	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCCTTGG	by1000G	5	BLCA
PIGS	0	.	GRCh37	17	26888470	26888470	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646G>C	p.Glu216Gln	p.E216Q	ENST00000308360	6/12	26	22	4	38	38	0	PIGS,missense_variant,p.Glu208Gln,ENST00000395346,;PIGS,missense_variant,p.Glu216Gln,ENST00000308360,;PIGS,missense_variant,p.Glu155Gln,ENST00000543734,;PIGS,non_coding_transcript_exon_variant,,ENST00000465444,;PIGS,intron_variant,,ENST00000580968,;PIGS,downstream_gene_variant,,ENST00000584413,;PIGS,3_prime_UTR_variant,,ENST00000268758,;PIGS,non_coding_transcript_exon_variant,,ENST00000577620,;PIGS,non_coding_transcript_exon_variant,,ENST00000582615,;RP11-192H23.4,intron_variant,,ENST00000481916,;PIGS,intron_variant,,ENST00000584080,;PIGS,downstream_gene_variant,,ENST00000582721,;PIGS,downstream_gene_variant,,ENST00000577594,;PIGS,upstream_gene_variant,,ENST00000484580,;PIGS,upstream_gene_variant,,ENST00000492429,;PIGS,upstream_gene_variant,,ENST00000487231,;PIGS,downstream_gene_variant,,ENST00000583631,;	G	ENSG00000087111	ENST00000308360	Transcript	missense_variant	1022	646	216	E/Q	Gag/Cag	.	.	.	-1	PIGS	HGNC	14937	protein_coding	YES	CCDS11235.1	ENSP00000309430	PIGS_HUMAN	Q9BVC1_HUMAN,Q96IR5_HUMAN,F5H019_HUMAN	UPI000013D7D9	.	deleterious(0.01)	benign(0.079)	6/12	.	Pfam_domain:PF10510,hmmpanther:PTHR21072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTCTCAGCGC	.	3	BLCA
PIPOX	0	.	GRCh37	17	27382114	27382114	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.841G>A	p.Glu281Lys	p.E281K	ENST00000323372	6/8	47	37	10	114	114	0	PIPOX,missense_variant,p.Glu281Lys,ENST00000323372,;PIPOX,downstream_gene_variant,,ENST00000469082,;PIPOX,downstream_gene_variant,,ENST00000466889,;PIPOX,non_coding_transcript_exon_variant,,ENST00000580241,;PIPOX,non_coding_transcript_exon_variant,,ENST00000484308,;PIPOX,non_coding_transcript_exon_variant,,ENST00000583215,;PIPOX,downstream_gene_variant,,ENST00000419875,;PIPOX,downstream_gene_variant,,ENST00000580383,;PIPOX,downstream_gene_variant,,ENST00000577182,;	A	ENSG00000179761	ENST00000323372	Transcript	missense_variant	1167	841	281	E/K	Gag/Aag	.	.	.	1	PIPOX	HGNC	17804	protein_coding	YES	CCDS11248.1	ENSP00000317721	SOX_HUMAN	K7EK30_HUMAN,K7EJU8_HUMAN	UPI00001410B0	.	deleterious(0.01)	benign(0.269)	6/8	.	hmmpanther:PTHR10961:SF7,hmmpanther:PTHR10961,Gene3D:3.30.9.10,Pfam_domain:PF01266,TIGRFAM_domain:TIGR01377,Superfamily_domains:SSF54373	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGAGGAG	.	5	BLCA
ATAD5	0	.	GRCh37	17	29162668	29162668	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1569G>C	p.Arg523Ser	p.R523S	ENST00000321990	2/23	113	85	27	109	109	0	ATAD5,missense_variant,p.Arg523Ser,ENST00000321990,;CTD-2349P21.11,intron_variant,,ENST00000580873,;ATAD5,missense_variant,p.Arg523Ser,ENST00000578295,;ATAD5,non_coding_transcript_exon_variant,,ENST00000585133,;CTD-2349P21.1,downstream_gene_variant,,ENST00000490847,;	C	ENSG00000176208	ENST00000321990	Transcript	missense_variant	1947	1569	523	R/S	agG/agC	.	.	.	1	ATAD5	HGNC	25752	protein_coding	YES	CCDS11260.1	ENSP00000313171	ATAD5_HUMAN	.	UPI0000071E9E	.	deleterious(0.01)	benign(0.013)	2/23	.	hmmpanther:PTHR15828:SF1,hmmpanther:PTHR15828	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAGGAAAAC	.	5	BLCA
NF1	0	.	GRCh37	17	29554250	29554250	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2266C>T	p.Gln756Ter	p.Q756*	ENST00000358273	19/58	46	34	12	51	51	0	NF1,stop_gained,p.Gln422Ter,ENST00000456735,;NF1,stop_gained,p.Gln756Ter,ENST00000358273,;NF1,stop_gained,p.Gln756Ter,ENST00000356175,;NF1,downstream_gene_variant,,ENST00000431387,;NF1,stop_gained,p.Gln790Ter,ENST00000579081,;NF1,3_prime_UTR_variant,,ENST00000495910,;NF1,non_coding_transcript_exon_variant,,ENST00000493220,;	T	ENSG00000196712	ENST00000358273	Transcript	stop_gained	2649	2266	756	Q/*	Cag/Tag	COSM24579,COSM1302615	.	.	1	NF1	HGNC	7765	protein_coding	YES	CCDS42292.1	ENSP00000351015	NF1_HUMAN	Q9UMU3_HUMAN,Q4W6X4_HUMAN,K7EP94_HUMAN	UPI000012FFAE	.	.	.	19/58	.	hmmpanther:PTHR10194:SF60,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTCAGAAA	.	5	BLCA
OR1A1	0	.	GRCh37	17	3119639	3119639	+	Missense_Mutation	SNP	C	C	A	rs546921641	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.725C>A	p.Ser242Tyr	p.S242Y	ENST00000304094	1/1	86	65	21	132	132	0	OR1A1,missense_variant,p.Ser242Tyr,ENST00000304094,;	A	ENSG00000172146	ENST00000304094	Transcript	missense_variant	725	725	242	S/Y	tCc/tAc	rs546921641	.	.	1	OR1A1	HGNC	8179	protein_coding	YES	CCDS11022.1	ENSP00000305207	OR1A1_HUMAN	.	UPI000013E937	.	deleterious(0)	possibly_damaging(0.905)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF319,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321,Prints_domain:PR00245	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCCCACC	by1000G	5	BLCA
GSG2	0	.	GRCh37	17	3629108	3629108	+	Missense_Mutation	SNP	A	A	C	rs760706485	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1879A>C	p.Ser627Arg	p.S627R	ENST00000325418	1/1	60	50	10	55	55	0	GSG2,missense_variant,p.Ser627Arg,ENST00000325418,;ITGAE,intron_variant,,ENST00000263087,;ITGAE,downstream_gene_variant,,ENST00000574026,;CTD-3195I5.4,upstream_gene_variant,,ENST00000575043,;CTD-3195I5.3,downstream_gene_variant,,ENST00000571741,;ITGAE,intron_variant,,ENST00000571185,;ITGAE,upstream_gene_variant,,ENST00000570360,;ITGAE,upstream_gene_variant,,ENST00000572179,;ITGAE,intron_variant,,ENST00000570415,;	C	ENSG00000177602	ENST00000325418	Transcript	missense_variant	1898	1879	627	S/R	Agc/Cgc	rs760706485	.	.	1	GSG2	HGNC	19682	protein_coding	YES	CCDS11036.1	ENSP00000325290	HASP_HUMAN	.	UPI0000141654	.	deleterious(0)	probably_damaging(0.995)	1/1	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24419:SF20,hmmpanther:PTHR24419,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAGAGCATT	.	5	BLCA
ERBB2	0	.	GRCh37	17	37868208	37868208	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929C>T	p.Ser310Phe	p.S310F	ENST00000269571	8/27	143	109	34	157	157	0	ERBB2,missense_variant,p.Ser310Phe,ENST00000584450,;ERBB2,missense_variant,p.Ser280Phe,ENST00000540042,;ERBB2,missense_variant,p.Ser52Phe,ENST00000578502,;ERBB2,missense_variant,p.Ser295Phe,ENST00000541774,;ERBB2,missense_variant,p.Ser34Phe,ENST00000445658,;ERBB2,missense_variant,p.Ser280Phe,ENST00000578199,;ERBB2,missense_variant,p.Ser310Phe,ENST00000269571,;ERBB2,missense_variant,p.Ser280Phe,ENST00000406381,;ERBB2,missense_variant,p.Ser280Phe,ENST00000540147,;ERBB2,missense_variant,p.Ser280Phe,ENST00000584601,;ERBB2,downstream_gene_variant,,ENST00000578709,;ERBB2,upstream_gene_variant,,ENST00000582818,;ERBB2,downstream_gene_variant,,ENST00000584099,;ERBB2,missense_variant,p.Pro85Ser,ENST00000582648,;ERBB2,3_prime_UTR_variant,,ENST00000578373,;ERBB2,non_coding_transcript_exon_variant,,ENST00000584908,;ERBB2,non_coding_transcript_exon_variant,,ENST00000583038,;ERBB2,non_coding_transcript_exon_variant,,ENST00000582788,;ERBB2,downstream_gene_variant,,ENST00000583391,;	T	ENSG00000141736	ENST00000269571	Transcript	missense_variant	1088	929	310	S/F	tCc/tTc	COSM48358,COSM94225	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	deleterious(0)	probably_damaging(0.994)	8/27	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF137,Pfam_domain:PF00757,Gene3D:2.10.220.10,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S310F|c.929C>T|24,CODON|p.S310Y|c.929C>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGATCCTGCA	.	5	BLCA
ACLY	0	.	GRCh37	17	40042427	40042427	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2010C>T	p.%3D	p.L670L	ENST00000352035	18/29	163	123	39	175	175	0	ACLY,synonymous_variant,p.%3D,ENST00000353196,;ACLY,synonymous_variant,p.%3D,ENST00000590151,;ACLY,synonymous_variant,p.%3D,ENST00000352035,;ACLY,synonymous_variant,p.%3D,ENST00000537919,;ACLY,synonymous_variant,p.%3D,ENST00000393896,;	A	ENSG00000131473	ENST00000352035	Transcript	synonymous_variant	2141	2010	670	L	ctC/ctT	.	.	.	-1	ACLY	HGNC	115	protein_coding	YES	CCDS11412.1	ENSP00000253792	ACLY_HUMAN	Q4LE36_HUMAN,K7ESG8_HUMAN,K7EIE7_HUMAN	UPI000013CDF3	.	.	.	18/29	.	Superfamily_domains:SSF48256,PIRSF_domain:PIRSF036511,Gene3D:3.40.50.261,Pfam_domain:PF00549,PROSITE_patterns:PS01216,hmmpanther:PTHR23118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTGAGCTC	.	5	BLCA
VAT1	0	.	GRCh37	17	41168055	41168055	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23G>C	.	.	ENST00000355653	6/6	193	154	39	169	169	0	VAT1,3_prime_UTR_variant,,ENST00000587173,;VAT1,3_prime_UTR_variant,,ENST00000420567,;VAT1,3_prime_UTR_variant,,ENST00000355653,;IFI35,downstream_gene_variant,,ENST00000438323,;VAT1,downstream_gene_variant,,ENST00000587147,;VAT1,downstream_gene_variant,,ENST00000587062,;IFI35,downstream_gene_variant,,ENST00000415816,;VAT1,downstream_gene_variant,,ENST00000589828,;VAT1,downstream_gene_variant,,ENST00000590924,;VAT1,downstream_gene_variant,,ENST00000589709,;IFI35,downstream_gene_variant,,ENST00000536969,;VAT1,3_prime_UTR_variant,,ENST00000592388,;IFI35,downstream_gene_variant,,ENST00000538473,;IFI35,downstream_gene_variant,,ENST00000534876,;IFI35,downstream_gene_variant,,ENST00000246911,;IFI35,downstream_gene_variant,,ENST00000546325,;IFI35,downstream_gene_variant,,ENST00000396722,;	G	ENSG00000108828	ENST00000355653	Transcript	3_prime_UTR_variant	1301	.	.	.	.	.	.	.	-1	VAT1	HGNC	16919	protein_coding	YES	CCDS11451.1	ENSP00000347872	VAT1_HUMAN	K7ERT7_HUMAN,K7ER81_HUMAN,K7ENX2_HUMAN,B3KUF8_HUMAN,B0AZP7_HUMAN	UPI000006DA93	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTCTCTAGGG	.	4	BLCA
ZNF594	0	.	GRCh37	17	5087431	5087431	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121G>A	p.Glu41Lys	p.E41K	ENST00000399604	1/1	105	95	10	109	109	0	ZNF594,missense_variant,p.Glu41Lys,ENST00000575779,;ZNF594,missense_variant,p.Glu41Lys,ENST00000399604,;ZNF594,missense_variant,p.Glu41Lys,ENST00000576772,;	T	ENSG00000180626	ENST00000399604	Transcript	missense_variant	262	121	41	E/K	Gag/Aag	.	.	.	-1	ZNF594	HGNC	29392	protein_coding	YES	CCDS42241.1	ENSP00000382513	ZN594_HUMAN	I3L508_HUMAN	UPI00001C1FDF	.	deleterious(0.05)	benign(0.067)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTCCTCAGAAT	.	3	BLCA
NLRP1	0	.	GRCh37	17	5487267	5487267	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11G>C	p.Gly4Ala	p.G4A	ENST00000572272	1/17	10	7	3	10	10	0	NLRP1,missense_variant,p.Gly4Ala,ENST00000572272,;NLRP1,missense_variant,p.Gly4Ala,ENST00000345221,;NLRP1,missense_variant,p.Gly4Ala,ENST00000269280,;NLRP1,missense_variant,p.Gly4Ala,ENST00000354411,;NLRP1,missense_variant,p.Gly4Ala,ENST00000577119,;NLRP1,missense_variant,p.Gly4Ala,ENST00000262467,;NLRP1,missense_variant,p.Gly4Ala,ENST00000576905,;NLRP1,non_coding_transcript_exon_variant,,ENST00000571307,;NLRP1,downstream_gene_variant,,ENST00000572143,;NLRP1,missense_variant,p.Gly4Ala,ENST00000544378,;NLRP1,missense_variant,p.Gly4Ala,ENST00000571451,;	G	ENSG00000091592	ENST00000572272	Transcript	missense_variant	11	11	4	G/A	gGa/gCa	.	.	.	-1	NLRP1	HGNC	14374	protein_coding	YES	CCDS42246.1	ENSP00000460475	NALP1_HUMAN	I3L2G5_HUMAN,I3L0S2_HUMAN	UPI0000038309	.	tolerated(0.12)	possibly_damaging(0.714)	1/17	.	PROSITE_profiles:PS50824,hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF13,Gene3D:1.10.533.10,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTCCGCCA	.	2	BLCA
MSI2	0	.	GRCh37	17	55339521	55339521	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280A>G	p.Lys94Glu	p.K94E	ENST00000284073	5/14	74	60	14	92	92	0	MSI2,missense_variant,p.Lys90Glu,ENST00000579590,;MSI2,missense_variant,p.Lys94Glu,ENST00000284073,;MSI2,missense_variant,p.Lys72Glu,ENST00000416426,;MSI2,missense_variant,p.Lys90Glu,ENST00000322684,;MSI2,non_coding_transcript_exon_variant,,ENST00000582453,;MSI2,non_coding_transcript_exon_variant,,ENST00000581523,;MSI2,non_coding_transcript_exon_variant,,ENST00000579531,;MSI2,3_prime_UTR_variant,,ENST00000581776,;MSI2,non_coding_transcript_exon_variant,,ENST00000584476,;MSI2,non_coding_transcript_exon_variant,,ENST00000579483,;	G	ENSG00000153944	ENST00000284073	Transcript	missense_variant	489	280	94	K/E	Aaa/Gaa	.	.	.	1	MSI2	HGNC	18585	protein_coding	YES	CCDS11596.1	ENSP00000284073	MSI2H_HUMAN	.	UPI0000070D73	.	deleterious(0)	probably_damaging(0.998)	5/14	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF324,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCAAAGTT	.	5	BLCA
OR4D2	0	.	GRCh37	17	56247408	56247408	+	Missense_Mutation	SNP	G	G	A	rs147819968	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.392G>A	p.Arg131His	p.R131H	ENST00000545221	1/1	64	45	19	87	87	0	OR4D2,missense_variant,p.Arg131His,ENST00000545221,;	A	ENSG00000255713	ENST00000545221	Transcript	missense_variant	392	392	131	R/H	cGc/cAc	rs147819968	.	.	1	OR4D2	HGNC	8294	protein_coding	YES	CCDS32688.1	ENSP00000441354	OR4D2_HUMAN	.	UPI0000000DB3	.	tolerated(1)	benign(0)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF315,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0.0018	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCCGCTATG	byCluster|by1000G	5	BLCA
TRIM37	0	.	GRCh37	17	57076725	57076725	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*13G>C	.	.	ENST00000262294	24/24	76	63	12	67	67	0	TRIM37,3_prime_UTR_variant,,ENST00000393065,;TRIM37,3_prime_UTR_variant,,ENST00000376149,;TRIM37,3_prime_UTR_variant,,ENST00000262294,;TRIM37,intron_variant,,ENST00000583945,;TRIM37,intron_variant,,ENST00000393066,;TRIM37,intron_variant,,ENST00000585287,;TRIM37,3_prime_UTR_variant,,ENST00000577554,;	G	ENSG00000108395	ENST00000262294	Transcript	3_prime_UTR_variant	3168	.	.	.	.	.	.	.	-1	TRIM37	HGNC	7523	protein_coding	YES	CCDS32694.1	ENSP00000262294	TRI37_HUMAN	B3KMU3_HUMAN,A8K0V9_HUMAN	UPI0000167B57	.	.	.	24/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTTCTCTTGAT	.	3	BLCA
TRIM37	0	.	GRCh37	17	57076776	57076776	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2857G>T	p.Asp953Tyr	p.D953Y	ENST00000262294	24/24	116	98	18	115	115	0	TRIM37,missense_variant,p.Asp43Tyr,ENST00000583945,;TRIM37,missense_variant,p.Asp919Tyr,ENST00000393065,;TRIM37,missense_variant,p.Asp953Tyr,ENST00000393066,;TRIM37,missense_variant,p.Asp792Tyr,ENST00000376149,;TRIM37,missense_variant,p.Asp106Tyr,ENST00000585287,;TRIM37,missense_variant,p.Asp953Tyr,ENST00000262294,;TRIM37,3_prime_UTR_variant,,ENST00000577554,;	A	ENSG00000108395	ENST00000262294	Transcript	missense_variant	3117	2857	953	D/Y	Gat/Tat	.	.	.	-1	TRIM37	HGNC	7523	protein_coding	YES	CCDS32694.1	ENSP00000262294	TRI37_HUMAN	B3KMU3_HUMAN,A8K0V9_HUMAN	UPI0000167B57	.	deleterious_low_confidence(0)	benign(0.328)	24/24	.	hmmpanther:PTHR24103:SF229,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGATCTTCAG	.	3	BLCA
TRIM37	0	.	GRCh37	17	57076800	57076800	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2833G>C	p.Asp945His	p.D945H	ENST00000262294	24/24	92	81	11	101	101	0	TRIM37,missense_variant,p.Asp35His,ENST00000583945,;TRIM37,missense_variant,p.Asp911His,ENST00000393065,;TRIM37,missense_variant,p.Asp945His,ENST00000393066,;TRIM37,missense_variant,p.Asp784His,ENST00000376149,;TRIM37,missense_variant,p.Asp98His,ENST00000585287,;TRIM37,missense_variant,p.Asp945His,ENST00000262294,;TRIM37,3_prime_UTR_variant,,ENST00000577554,;	G	ENSG00000108395	ENST00000262294	Transcript	missense_variant	3093	2833	945	D/H	Gat/Cat	.	.	.	-1	TRIM37	HGNC	7523	protein_coding	YES	CCDS32694.1	ENSP00000262294	TRI37_HUMAN	B3KMU3_HUMAN,A8K0V9_HUMAN	UPI0000167B57	.	deleterious_low_confidence(0.02)	benign(0.396)	24/24	.	hmmpanther:PTHR24103:SF229,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCATCAGGAA	.	3	BLCA
TRIM37	0	.	GRCh37	17	57076821	57076821	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2813-1G>A	.	p.X938_splice	ENST00000262294	.	69	60	9	73	73	0	TRIM37,splice_acceptor_variant,,ENST00000583945,;TRIM37,splice_acceptor_variant,,ENST00000393065,;TRIM37,splice_acceptor_variant,,ENST00000393066,;TRIM37,splice_acceptor_variant,,ENST00000376149,;TRIM37,splice_acceptor_variant,,ENST00000585287,;TRIM37,splice_acceptor_variant,,ENST00000262294,;TRIM37,splice_acceptor_variant,,ENST00000577554,;	T	ENSG00000108395	ENST00000262294	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	TRIM37	HGNC	7523	protein_coding	YES	CCDS32694.1	ENSP00000262294	TRI37_HUMAN	B3KMU3_HUMAN,A8K0V9_HUMAN	UPI0000167B57	.	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGTATCTATGA	.	3	BLCA
ACE	0	.	GRCh37	17	61571015	61571015	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3131G>A	p.Ser1044Asn	p.S1044N	ENST00000290866	20/25	22	18	4	28	28	0	ACE,missense_variant,p.Ser470Asn,ENST00000490216,;ACE,missense_variant,p.Ser1044Asn,ENST00000428043,;ACE,missense_variant,p.Ser1044Asn,ENST00000290866,;ACE,missense_variant,p.Ser470Asn,ENST00000290863,;ACE,missense_variant,p.Ser470Asn,ENST00000413513,;ACE,missense_variant,p.Ser290Asn,ENST00000421982,;ACE,intron_variant,,ENST00000582761,;ACE,upstream_gene_variant,,ENST00000579409,;ACE,intron_variant,,ENST00000577418,;ACE,missense_variant,p.Ser470Asn,ENST00000577647,;ACE,3_prime_UTR_variant,,ENST00000578839,;ACE,3_prime_UTR_variant,,ENST00000579314,;ACE,non_coding_transcript_exon_variant,,ENST00000584865,;ACE,downstream_gene_variant,,ENST00000582005,;ACE,upstream_gene_variant,,ENST00000582244,;ACE,downstream_gene_variant,,ENST00000583645,;ACE,downstream_gene_variant,,ENST00000579204,;ACE,upstream_gene_variant,,ENST00000578679,;	A	ENSG00000159640	ENST00000290866	Transcript	missense_variant	3155	3131	1044	S/N	aGc/aAc	COSM982601,COSM1589051	.	.	1	ACE	HGNC	2707	protein_coding	YES	CCDS11637.1	ENSP00000290866	ACE_HUMAN	Q3KRI5_HUMAN,D3DU13_HUMAN	UPI000002B8AD	.	tolerated(0.43)	benign(0.001)	20/25	.	hmmpanther:PTHR10514:SF19,hmmpanther:PTHR10514,Pfam_domain:PF01401,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCAGCGACG	.	2	BLCA
PSMC5	0	.	GRCh37	17	61907789	61907789	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.480G>C	p.Glu160Asp	p.E160D	ENST00000310144	6/12	41	30	11	44	44	0	PSMC5,missense_variant,p.Glu152Asp,ENST00000581882,;PSMC5,missense_variant,p.Glu83Asp,ENST00000579708,;PSMC5,missense_variant,p.Glu152Asp,ENST00000375812,;PSMC5,missense_variant,p.Glu152Asp,ENST00000585123,;PSMC5,missense_variant,p.Glu160Asp,ENST00000310144,;PSMC5,missense_variant,p.Glu152Asp,ENST00000580864,;PSMC5,missense_variant,p.Glu152Asp,ENST00000581842,;PSMC5,missense_variant,p.Glu152Asp,ENST00000584320,;PSMC5,missense_variant,p.Glu141Asp,ENST00000582130,;SMARCD2,downstream_gene_variant,,ENST00000323347,;SMARCD2,downstream_gene_variant,,ENST00000448276,;SMARCD2,downstream_gene_variant,,ENST00000225742,;FTSJ3,upstream_gene_variant,,ENST00000580272,;FTSJ3,upstream_gene_variant,,ENST00000581209,;FTSJ3,upstream_gene_variant,,ENST00000585145,;SMARCD2,downstream_gene_variant,,ENST00000450364,;FTSJ3,upstream_gene_variant,,ENST00000427159,;FTSJ3,upstream_gene_variant,,ENST00000584574,;FTSJ3,upstream_gene_variant,,ENST00000580295,;PSMC5,downstream_gene_variant,,ENST00000582420,;PSMC5,missense_variant,p.Glu15Asp,ENST00000584880,;PSMC5,missense_variant,p.Glu141Asp,ENST00000584536,;PSMC5,3_prime_UTR_variant,,ENST00000585242,;PSMC5,non_coding_transcript_exon_variant,,ENST00000578570,;PSMC5,non_coding_transcript_exon_variant,,ENST00000579031,;PSMC5,non_coding_transcript_exon_variant,,ENST00000581764,;PSMC5,non_coding_transcript_exon_variant,,ENST00000579147,;SMARCD2,downstream_gene_variant,,ENST00000584483,;PSMC5,downstream_gene_variant,,ENST00000580265,;FTSJ3,upstream_gene_variant,,ENST00000579569,;FTSJ3,upstream_gene_variant,,ENST00000582476,;SMARCD2,downstream_gene_variant,,ENST00000584400,;FTSJ3,upstream_gene_variant,,ENST00000584193,;PSMC5,downstream_gene_variant,,ENST00000583283,;PSMC5,upstream_gene_variant,,ENST00000584657,;FTSJ3,upstream_gene_variant,,ENST00000577263,;SMARCD2,downstream_gene_variant,,ENST00000578234,;PSMC5,upstream_gene_variant,,ENST00000580063,;SMARCD2,downstream_gene_variant,,ENST00000581832,;FTSJ3,upstream_gene_variant,,ENST00000580290,;	C	ENSG00000087191	ENST00000310144	Transcript	missense_variant	788	480	160	E/D	gaG/gaC	.	.	.	1	PSMC5	HGNC	9552	protein_coding	YES	CCDS11645.1	ENSP00000310572	PRS8_HUMAN	J3QSA9_HUMAN,J3QLH6_HUMAN,J3KRP2_HUMAN	UPI00000219DE	.	deleterious(0.02)	probably_damaging(0.968)	6/12	.	hmmpanther:PTHR23073,hmmpanther:PTHR23073:SF12,TIGRFAM_domain:TIGR01242,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGAGATCAA	.	5	BLCA
ABCA9	0	.	GRCh37	17	66981075	66981075	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4330C>G	p.Leu1444Val	p.L1444V	ENST00000340001	34/39	65	54	10	81	81	0	ABCA9,missense_variant,p.Leu1406Val,ENST00000453985,;ABCA9,missense_variant,p.Leu1444Val,ENST00000340001,;ABCA9,intron_variant,,ENST00000370732,;ABCA9,downstream_gene_variant,,ENST00000482072,;ABCA9,downstream_gene_variant,,ENST00000460872,;	C	ENSG00000154258	ENST00000340001	Transcript	missense_variant	4542	4330	1444	L/V	Ctg/Gtg	.	.	.	-1	ABCA9	HGNC	39	protein_coding	YES	CCDS11681.1	ENSP00000342216	ABCA9_HUMAN	K7EJJ0_HUMAN	UPI00000747B1	.	deleterious(0)	probably_damaging(0.986)	34/39	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Pfam_domain:PF00005,Gene3D:3.40.50.300,hmmpanther:PTHR19229:SF11,hmmpanther:PTHR19229,PROSITE_profiles:PS50893	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAAGCA	.	5	BLCA
ABCA10	0	.	GRCh37	17	67161150	67161150	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3237C>T	p.%3D	p.F1079F	ENST00000269081	27/40	43	36	7	38	38	0	ABCA10,synonymous_variant,p.%3D,ENST00000269081,;ABCA10,3_prime_UTR_variant,,ENST00000416101,;ABCA10,non_coding_transcript_exon_variant,,ENST00000519732,;ABCA10,synonymous_variant,p.%3D,ENST00000523419,;ABCA10,3_prime_UTR_variant,,ENST00000522406,;ABCA10,3_prime_UTR_variant,,ENST00000518929,;	A	ENSG00000154263	ENST00000269081	Transcript	synonymous_variant	4147	3237	1079	F	ttC/ttT	.	.	.	-1	ABCA10	HGNC	30	protein_coding	YES	CCDS11684.1	ENSP00000269081	ABCAA_HUMAN	K7ERP5_HUMAN	UPI000013D7F6	.	.	.	27/40	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR19229:SF120,hmmpanther:PTHR19229,Pfam_domain:PF12698	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATGAAAAT	.	5	BLCA
ABCA5	0	.	GRCh37	17	67285399	67285399	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1821C>G	p.Ile607Met	p.I607M	ENST00000392676	14/39	25	19	6	35	35	0	ABCA5,missense_variant,p.Ile607Met,ENST00000392676,;ABCA5,missense_variant,p.Ile607Met,ENST00000588877,;ABCA5,missense_variant,p.Ile607Met,ENST00000392677,;ABCA5,missense_variant,p.Ile607Met,ENST00000593153,;ABCA5,missense_variant,p.Ile278Met,ENST00000586995,;ABCA5,upstream_gene_variant,,ENST00000591234,;	C	ENSG00000154265	ENST00000392676	Transcript	missense_variant	1886	1821	607	I/M	atC/atG	.	.	.	-1	ABCA5	HGNC	35	protein_coding	YES	CCDS11685.1	ENSP00000376443	ABCA5_HUMAN	K7EQ50_HUMAN,K7EPM3_HUMAN,K7EMV2_HUMAN,K7EJW6_HUMAN	UPI000013DD9E	.	deleterious(0)	probably_damaging(0.943)	14/39	.	PROSITE_profiles:PS50893,hmmpanther:PTHR19229:SF100,hmmpanther:PTHR19229,Gene3D:3.40.50.300,Pfam_domain:PF00005,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTGATAGT	.	5	BLCA
NEURL4	0	.	GRCh37	17	7224101	7224101	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3502C>T	p.%3D	p.L1168L	ENST00000399464	21/29	67	47	20	60	60	0	NEURL4,synonymous_variant,p.%3D,ENST00000570460,;NEURL4,synonymous_variant,p.%3D,ENST00000571887,;NEURL4,synonymous_variant,p.%3D,ENST00000315614,;NEURL4,synonymous_variant,p.%3D,ENST00000399464,;NEURL4,upstream_gene_variant,,ENST00000574120,;NEURL4,synonymous_variant,p.%3D,ENST00000573186,;NEURL4,non_coding_transcript_exon_variant,,ENST00000572029,;NEURL4,downstream_gene_variant,,ENST00000576485,;RP11-542C16.2,upstream_gene_variant,,ENST00000315601,;NEURL4,downstream_gene_variant,,ENST00000571243,;NEURL4,downstream_gene_variant,,ENST00000573651,;NEURL4,upstream_gene_variant,,ENST00000572680,;NEURL4,downstream_gene_variant,,ENST00000571508,;NEURL4,upstream_gene_variant,,ENST00000576794,;NEURL4,downstream_gene_variant,,ENST00000576966,;RP11-542C16.2,upstream_gene_variant,,ENST00000575474,;	A	ENSG00000215041	ENST00000399464	Transcript	synonymous_variant	3518	3502	1168	L	Ctg/Ttg	.	.	.	-1	NEURL4	HGNC	34410	protein_coding	YES	CCDS42251.1	ENSP00000382390	NEUL4_HUMAN	.	UPI000020081C	.	.	.	21/29	.	PROSITE_profiles:PS51065,hmmpanther:PTHR12429:SF2,hmmpanther:PTHR12429,Pfam_domain:PF07177,SMART_domains:SM00588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCAGAGGTT	.	2	BLCA
KIF19	0	.	GRCh37	17	72350546	72350546	+	Missense_Mutation	SNP	G	G	C	rs372963418	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2554G>C	p.Glu852Gln	p.E852Q	ENST00000389916	18/20	11	8	3	13	13	0	KIF19,missense_variant,p.Glu852Gln,ENST00000389916,;AC103809.2,upstream_gene_variant,,ENST00000599136,;BTBD17,downstream_gene_variant,,ENST00000375366,;KIF19,downstream_gene_variant,,ENST00000551294,;KIF19,downstream_gene_variant,,ENST00000549637,;KIF19,downstream_gene_variant,,ENST00000359939,;KIF19,downstream_gene_variant,,ENST00000547389,;	C	ENSG00000196169	ENST00000389916	Transcript	missense_variant	2692	2554	852	E/Q	Gag/Cag	rs372963418	.	.	1	KIF19	HGNC	26735	protein_coding	YES	CCDS32718.2	ENSP00000374566	KIF19_HUMAN	.	UPI0000F0A553	.	deleterious(0.02)	possibly_damaging(0.652)	18/20	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF402	.	.	.	.	.	.	.	A:0.0003	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGGCGAGGCC	byFrequency|byCluster	2	BLCA
KIAA0195	0	.	GRCh37	17	73491001	73491001	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2614G>C	p.Glu872Gln	p.E872Q	ENST00000314256	20/32	135	105	30	165	165	0	KIAA0195,missense_variant,p.Glu523Gln,ENST00000579208,;KIAA0195,missense_variant,p.Glu872Gln,ENST00000314256,;KIAA0195,missense_variant,p.Glu882Gln,ENST00000375248,;KIAA0195,downstream_gene_variant,,ENST00000580918,;KIAA0195,downstream_gene_variant,,ENST00000578853,;KIAA0195,upstream_gene_variant,,ENST00000577245,;KIAA0195,upstream_gene_variant,,ENST00000577247,;KIAA0195,downstream_gene_variant,,ENST00000581252,;KIAA0195,upstream_gene_variant,,ENST00000584694,;AC100787.1,upstream_gene_variant,,ENST00000579379,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000585105,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581723,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581085,;KIAA0195,downstream_gene_variant,,ENST00000580849,;KIAA0195,upstream_gene_variant,,ENST00000579898,;KIAA0195,downstream_gene_variant,,ENST00000583071,;KIAA0195,downstream_gene_variant,,ENST00000583296,;KIAA0195,downstream_gene_variant,,ENST00000579241,;KIAA0195,upstream_gene_variant,,ENST00000581453,;KIAA0195,downstream_gene_variant,,ENST00000580441,;KIAA0195,upstream_gene_variant,,ENST00000581867,;KIAA0195,downstream_gene_variant,,ENST00000578624,;KIAA0195,upstream_gene_variant,,ENST00000577194,;KIAA0195,downstream_gene_variant,,ENST00000582843,;	C	ENSG00000177728	ENST00000314256	Transcript	missense_variant	3008	2614	872	E/Q	Gag/Cag	.	.	.	1	KIAA0195	HGNC	28983	protein_coding	YES	CCDS32732.1	ENSP00000313885	K0195_HUMAN	J3QS17_HUMAN,J3QRT3_HUMAN,J3QLM7_HUMAN,J3KT63_HUMAN,J3KRU7_HUMAN	UPI0000139439	.	deleterious(0)	probably_damaging(0.999)	20/32	.	hmmpanther:PTHR13219:SF6,hmmpanther:PTHR13219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGAGACA	.	5	BLCA
CHRNB1	0	.	GRCh37	17	7350839	7350839	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.480C>T	p.%3D	p.F160F	ENST00000306071	6/11	38	28	9	58	58	0	CHRNB1,synonymous_variant,p.%3D,ENST00000570557,;CHRNB1,synonymous_variant,p.%3D,ENST00000536404,;CHRNB1,synonymous_variant,p.%3D,ENST00000576360,;CHRNB1,synonymous_variant,p.%3D,ENST00000306071,;FGF11,downstream_gene_variant,,ENST00000575235,;FGF11,downstream_gene_variant,,ENST00000575082,;FGF11,downstream_gene_variant,,ENST00000293829,;FGF11,downstream_gene_variant,,ENST00000575398,;CHRNB1,downstream_gene_variant,,ENST00000572857,;FGF11,downstream_gene_variant,,ENST00000572907,;RP11-104H15.8,upstream_gene_variant,,ENST00000576615,;RP11-104H15.7,downstream_gene_variant,,ENST00000575310,;RP11-104H15.10,downstream_gene_variant,,ENST00000575331,;CHRNB1,non_coding_transcript_exon_variant,,ENST00000573209,;CHRNB1,downstream_gene_variant,,ENST00000574054,;FGF11,downstream_gene_variant,,ENST00000576328,;	T	ENSG00000170175	ENST00000306071	Transcript	synonymous_variant	547	480	160	F	ttC/ttT	.	.	.	1	CHRNB1	HGNC	1961	protein_coding	YES	CCDS11106.1	ENSP00000304290	ACHB_HUMAN	I3L535_HUMAN,B7Z5H1_HUMAN,B7Z2M6_HUMAN	UPI0000125257	.	.	.	6/11	.	Prints_domain:PR00252,Superfamily_domains:0038932,Gene3D:2.70.170.10,Pfam_domain:PF02931,TIGRFAM_domain:TIGR00860,PROSITE_patterns:PS00236,hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF477	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCGACTG	.	5	BLCA
ACOX1	0	.	GRCh37	17	73949678	73949678	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798G>T	p.%3D	p.V266V	ENST00000293217	7/14	43	32	11	52	52	0	ACOX1,synonymous_variant,p.%3D,ENST00000537812,;ACOX1,synonymous_variant,p.%3D,ENST00000301608,;ACOX1,synonymous_variant,p.%3D,ENST00000293217,;ACOX1,downstream_gene_variant,,ENST00000588176,;ACOX1,upstream_gene_variant,,ENST00000588968,;ACOX1,upstream_gene_variant,,ENST00000587927,;ACOX1,downstream_gene_variant,,ENST00000591857,;ACOX1,3_prime_UTR_variant,,ENST00000573078,;ACOX1,3_prime_UTR_variant,,ENST00000572047,;ACOX1,non_coding_transcript_exon_variant,,ENST00000589744,;ACOX1,downstream_gene_variant,,ENST00000589301,;	A	ENSG00000161533	ENST00000293217	Transcript	synonymous_variant	1088	798	266	V	gtG/gtT	.	.	.	-1	ACOX1	HGNC	119	protein_coding	YES	CCDS11734.1	ENSP00000293217	ACOX1_HUMAN	.	UPI000013E0F5	.	.	.	7/14	.	hmmpanther:PTHR10909:SF263,hmmpanther:PTHR10909,PIRSF_domain:PIRSF000168	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCACGTA	.	5	BLCA
RNF157	0	.	GRCh37	17	74151721	74151721	+	Silent	SNP	G	G	A	rs751409766	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1620C>T	p.%3D	p.I540I	ENST00000269391	15/19	14	7	7	19	19	0	RNF157,synonymous_variant,p.%3D,ENST00000591355,;RNF157,synonymous_variant,p.%3D,ENST00000269391,;RNF157,synonymous_variant,p.%3D,ENST00000319945,;RNF157-AS1,downstream_gene_variant,,ENST00000592748,;RNF157-AS1,downstream_gene_variant,,ENST00000585542,;RNF157-AS1,downstream_gene_variant,,ENST00000590137,;RNF157-AS1,downstream_gene_variant,,ENST00000586661,;RNF157-AS1,downstream_gene_variant,,ENST00000586627,;RNF157,non_coding_transcript_exon_variant,,ENST00000592869,;RNF157,upstream_gene_variant,,ENST00000589317,;	A	ENSG00000141576	ENST00000269391	Transcript	synonymous_variant	1753	1620	540	I	atC/atT	rs751409766	.	.	-1	RNF157	HGNC	29402	protein_coding	YES	CCDS32740.1	ENSP00000269391	RN157_HUMAN	.	UPI00001C1FDD	.	.	.	15/19	.	hmmpanther:PTHR22996:SF1,hmmpanther:PTHR22996	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGCGATGTA	.	5	BLCA
KDM6B	0	.	GRCh37	17	7752197	7752197	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2591C>G	p.Ser864Cys	p.S864C	ENST00000254846	11/22	20	13	7	31	31	0	KDM6B,missense_variant,p.Ser864Cys,ENST00000448097,;KDM6B,missense_variant,p.Ser864Cys,ENST00000254846,;KDM6B,downstream_gene_variant,,ENST00000570632,;KDM6B,downstream_gene_variant,,ENST00000575521,;KDM6B,downstream_gene_variant,,ENST00000571047,;	G	ENSG00000132510	ENST00000254846	Transcript	missense_variant	2980	2591	864	S/C	tCt/tGt	.	.	.	1	KDM6B	HGNC	29012	protein_coding	YES	CCDS32552.1	ENSP00000254846	KDM6B_HUMAN	D3DTQ7_HUMAN	UPI00006C175B	.	.	possibly_damaging(0.843)	11/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14017,hmmpanther:PTHR14017:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCTGCTT	.	2	BLCA
TMEM107	0	.	GRCh37	17	8076758	8076758	+	3'Flank	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000316425	.	66	50	15	81	81	0	TMEM107,3_prime_UTR_variant,,ENST00000449985,;TMEM107,downstream_gene_variant,,ENST00000316425,;TMEM107,downstream_gene_variant,,ENST00000431792,;TMEM107,downstream_gene_variant,,ENST00000533070,;TMEM107,downstream_gene_variant,,ENST00000532998,;TMEM107,downstream_gene_variant,,ENST00000437139,;SNORD118,downstream_gene_variant,,ENST00000363593,;RP11-599B13.7,upstream_gene_variant,,ENST00000581248,;TMEM107,downstream_gene_variant,,ENST00000417073,;TMEM107,downstream_gene_variant,,ENST00000526920,;TMEM107,downstream_gene_variant,,ENST00000529756,;	T	ENSG00000179029	ENST00000316425	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	561	-1	TMEM107	HGNC	28128	protein_coding	YES	CCDS11132.1	ENSP00000314116	TM107_HUMAN	.	UPI00001BBB36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGTGATCGT	.	5	BLCA
TBCD	0	.	GRCh37	17	80885817	80885817	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2646G>C	p.%3D	p.L882L	ENST00000355528	30/39	30	23	6	50	50	0	TBCD,synonymous_variant,p.%3D,ENST00000539345,;TBCD,synonymous_variant,p.%3D,ENST00000355528,;TBCD,downstream_gene_variant,,ENST00000576760,;TBCD,upstream_gene_variant,,ENST00000577051,;TBCD,downstream_gene_variant,,ENST00000574975,;TBCD,downstream_gene_variant,,ENST00000574422,;TBCD,downstream_gene_variant,,ENST00000571618,;TBCD,upstream_gene_variant,,ENST00000576603,;TBCD,non_coding_transcript_exon_variant,,ENST00000574818,;TBCD,non_coding_transcript_exon_variant,,ENST00000571796,;TBCD,non_coding_transcript_exon_variant,,ENST00000570679,;TBCD,upstream_gene_variant,,ENST00000576677,;TBCD,upstream_gene_variant,,ENST00000573364,;TBCD,downstream_gene_variant,,ENST00000574886,;TBCD,upstream_gene_variant,,ENST00000575132,;	C	ENSG00000141556	ENST00000355528	Transcript	synonymous_variant	2776	2646	882	L	ctG/ctC	.	.	.	1	TBCD	HGNC	11581	protein_coding	YES	CCDS45818.1	ENSP00000347719	TBCD_HUMAN	I3L4D2_HUMAN,I3L439_HUMAN,I3L3H4_HUMAN,I3L1S3_HUMAN,I3L163_HUMAN,I3L131_HUMAN	UPI000020053F	.	.	.	30/39	.	hmmpanther:PTHR12658,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTGACACT	.	5	BLCA
MFSD6L	0	.	GRCh37	17	8701533	8701533	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906C>G	p.Ile302Met	p.I302M	ENST00000329805	1/1	39	33	6	44	44	0	MFSD6L,missense_variant,p.Ile302Met,ENST00000329805,;PIK3R6,downstream_gene_variant,,ENST00000311434,;PIK3R6,downstream_gene_variant,,ENST00000452122,;PIK3R6,downstream_gene_variant,,ENST00000583984,;	C	ENSG00000185156	ENST00000329805	Transcript	missense_variant	1135	906	302	I/M	atC/atG	.	.	.	-1	MFSD6L	HGNC	26656	protein_coding	YES	CCDS11146.1	ENSP00000330051	MFS6L_HUMAN	.	UPI0000141B5F	.	deleterious(0)	probably_damaging(0.954)	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR16172:SF22,hmmpanther:PTHR16172,Pfam_domain:PF13347,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTGATGCC	.	5	BLCA
RBBP8	0	.	GRCh37	18	20602122	20602122	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2485G>C	p.Glu829Gln	p.E829Q	ENST00000399722	18/19	119	88	30	135	135	0	RBBP8,missense_variant,p.Glu7Gln,ENST00000581687,;RBBP8,missense_variant,p.Glu829Gln,ENST00000399722,;RBBP8,missense_variant,p.Glu253Asp,ENST00000583057,;RBBP8,missense_variant,p.Glu834Gln,ENST00000360790,;RBBP8,missense_variant,p.Glu796Asp,ENST00000399725,;RBBP8,missense_variant,p.Glu829Gln,ENST00000327155,;Y_RNA,upstream_gene_variant,,ENST00000411091,;	C	ENSG00000101773	ENST00000399722	Transcript	missense_variant	2836	2485	829	E/Q	Gaa/Caa	COSM987027,COSM987028	.	.	1	RBBP8	HGNC	9891	protein_coding	YES	CCDS11875.1	ENSP00000382628	COM1_HUMAN	J3QRM0_HUMAN,J3QLW6_HUMAN,J3QLH2_HUMAN,J3QL93_HUMAN,J3KSA4_HUMAN,F6Q6H0_HUMAN	UPI000013D1A9	.	tolerated(0.19)	probably_damaging(0.98)	18/19	.	hmmpanther:PTHR15107,hmmpanther:PTHR15107:SF2,Pfam_domain:PF08573	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGAGAAAAG	.	5	BLCA
ZNF521	0	.	GRCh37	18	22671936	22671936	+	Silent	SNP	G	G	A	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3768C>T	p.%3D	p.F1256F	ENST00000361524	6/8	21	15	6	36	36	0	ZNF521,synonymous_variant,p.%3D,ENST00000538137,;ZNF521,synonymous_variant,p.%3D,ENST00000584787,;ZNF521,synonymous_variant,p.%3D,ENST00000361524,;ZNF521,3_prime_UTR_variant,,ENST00000399425,;	A	ENSG00000198795	ENST00000361524	Transcript	synonymous_variant	3917	3768	1256	F	ttC/ttT	COSM708262	.	.	-1	ZNF521	HGNC	24605	protein_coding	YES	CCDS32806.1	ENSP00000354794	ZN521_HUMAN	J3QRW6_HUMAN,J3KTI4_HUMAN,J3KT07_HUMAN,J3KSZ4_HUMAN	UPI000006F982	.	.	.	6/8	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13894,hmmpanther:PTHR24385,hmmpanther:PTHR24385:SF32,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTGAAGGT	.	5	BLCA
WBP11P1	0	.	GRCh37	18	30093538	30093538	+	RNA	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1913C>T	.	.	ENST00000567636	1/1	179	149	30	191	191	0	WBP11P1,non_coding_transcript_exon_variant,,ENST00000567636,;WBP11P1,non_coding_transcript_exon_variant,,ENST00000562560,;	T	ENSG00000260389	ENST00000567636	Transcript	non_coding_transcript_exon_variant	1913	.	.	.	.	.	.	.	1	WBP11P1	HGNC	26250	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTAATCCCAAG	.	4	BLCA
WBP11P1	0	.	GRCh37	18	30093692	30093692	+	RNA	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2067C>G	.	.	ENST00000567636	1/1	33	27	6	34	34	0	WBP11P1,non_coding_transcript_exon_variant,,ENST00000567636,;WBP11P1,non_coding_transcript_exon_variant,,ENST00000562560,;	G	ENSG00000260389	ENST00000567636	Transcript	non_coding_transcript_exon_variant	2067	.	.	.	.	.	.	.	1	WBP11P1	HGNC	26250	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCTCAGTAC	.	2	BLCA
MYOM1	0	.	GRCh37	18	3134823	3134823	+	Splice_Site	SNP	C	C	T	rs751133841	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2210-1G>A	.	p.X737_splice	ENST00000356443	.	27	21	6	36	36	0	MYOM1,splice_acceptor_variant,,ENST00000356443,;MYOM1,splice_acceptor_variant,,ENST00000400569,;MYOM1,splice_acceptor_variant,,ENST00000261606,;MYOM1,downstream_gene_variant,,ENST00000577294,;	T	ENSG00000101605	ENST00000356443	Transcript	splice_acceptor_variant	.	.	.	.	.	rs751133841	.	.	-1	MYOM1	HGNC	7613	protein_coding	YES	CCDS45824.1	ENSP00000348821	MYOM1_HUMAN	.	UPI000022A657	.	.	.	.	15/37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATATCTGAGA	.	2	BLCA
MYOM1	0	.	GRCh37	18	3135713	3135713	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2041G>C	p.Glu681Gln	p.E681Q	ENST00000356443	15/38	18	10	8	34	34	0	MYOM1,missense_variant,p.Glu681Gln,ENST00000356443,;MYOM1,missense_variant,p.Glu681Gln,ENST00000400569,;MYOM1,missense_variant,p.Glu681Gln,ENST00000261606,;MYOM1,non_coding_transcript_exon_variant,,ENST00000577294,;	G	ENSG00000101605	ENST00000356443	Transcript	missense_variant	2375	2041	681	E/Q	Gaa/Caa	.	.	.	-1	MYOM1	HGNC	7613	protein_coding	YES	CCDS45824.1	ENSP00000348821	MYOM1_HUMAN	.	UPI000022A657	.	tolerated(0.16)	benign(0.082)	15/38	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900:SF36,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTGTTC	.	5	BLCA
C18orf25	0	.	GRCh37	18	43820140	43820140	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.885G>C	p.%3D	p.L295L	ENST00000282059	3/5	29	23	6	20	20	0	C18orf25,synonymous_variant,p.%3D,ENST00000282059,;C18orf25,intron_variant,,ENST00000321319,;C18orf25,downstream_gene_variant,,ENST00000588730,;	C	ENSG00000152242	ENST00000282059	Transcript	synonymous_variant	1259	885	295	L	ctG/ctC	.	.	.	1	C18orf25	HGNC	28172	protein_coding	YES	CCDS42430.1	ENSP00000282059	CR025_HUMAN	Q5BIX2_HUMAN,K7ER64_HUMAN,K7EQH1_HUMAN	UPI000013DCB6	.	.	.	3/5	.	hmmpanther:PTHR13644	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGAATGC	.	5	BLCA
DCC	0	.	GRCh37	18	50866268	50866268	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2350G>A	p.Glu784Lys	p.E784K	ENST00000442544	15/29	22	17	5	25	25	0	DCC,missense_variant,p.Glu439Lys,ENST00000581580,;DCC,missense_variant,p.Glu784Lys,ENST00000442544,;DCC,missense_variant,p.Glu632Lys,ENST00000412726,;DCC,missense_variant,p.Glu718Lys,ENST00000304775,;	A	ENSG00000187323	ENST00000442544	Transcript	missense_variant	2966	2350	784	E/K	Gag/Aag	.	.	.	1	DCC	HGNC	2701	protein_coding	YES	CCDS11952.1	ENSP00000389140	DCC_HUMAN	J3QQJ6_HUMAN	UPI00001AEDC6	.	deleterious(0)	possibly_damaging(0.698)	15/29	.	PROSITE_profiles:PS50853,hmmpanther:PTHR10489:SF68,hmmpanther:PTHR10489,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGAGAGG	.	5	BLCA
SOCS6	0	.	GRCh37	18	67993556	67993556	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*44G>C	.	.	ENST00000397942	2/2	21	15	6	22	22	0	SOCS6,3_prime_UTR_variant,,ENST00000397942,;SOCS6,3_prime_UTR_variant,,ENST00000582322,;SOCS6,downstream_gene_variant,,ENST00000578377,;	C	ENSG00000170677	ENST00000397942	Transcript	3_prime_UTR_variant	1968	.	.	.	.	.	.	.	1	SOCS6	HGNC	16833	protein_coding	YES	CCDS11998.1	ENSP00000381034	SOCS6_HUMAN	J3KTM7_HUMAN	UPI0000072C28	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAAGAGATT	.	5	BLCA
KANK2	0	.	GRCh37	19	11277266	11277266	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2548G>A	p.Glu850Lys	p.E850K	ENST00000432929	13/13	47	43	4	64	64	0	KANK2,missense_variant,p.Glu850Lys,ENST00000589359,;KANK2,missense_variant,p.Glu842Lys,ENST00000355150,;KANK2,missense_variant,p.Glu850Lys,ENST00000432929,;KANK2,missense_variant,p.Glu842Lys,ENST00000586659,;KANK2,missense_variant,p.Glu212Lys,ENST00000588787,;KANK2,downstream_gene_variant,,ENST00000589894,;KANK2,non_coding_transcript_exon_variant,,ENST00000587317,;	T	ENSG00000197256	ENST00000432929	Transcript	missense_variant	2909	2548	850	E/K	Gag/Aag	.	.	.	-1	KANK2	HGNC	29300	protein_coding	YES	CCDS54219.1	ENSP00000395650	KANK2_HUMAN	Q9NXX5_HUMAN,K7ES05_HUMAN,K7ERU2_HUMAN,K7EL48_HUMAN	UPI00003B5C5D	.	tolerated(0.19)	probably_damaging(0.995)	13/13	.	hmmpanther:PTHR24168:SF0,hmmpanther:PTHR24168	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTCTCGTCAT	.	3	BLCA
ZNF625	0	.	GRCh37	19	12255998	12255998	+	3'Flank	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000439556	.	47	36	11	29	29	0	ZNF625,3_prime_UTR_variant,,ENST00000455799,;ZNF625,3_prime_UTR_variant,,ENST00000355738,;ZNF625,intron_variant,,ENST00000414892,;ZNF625,intron_variant,,ENST00000542938,;ZNF20,upstream_gene_variant,,ENST00000600335,;ZNF20,upstream_gene_variant,,ENST00000418866,;ZNF625,downstream_gene_variant,,ENST00000439556,;ZNF20,upstream_gene_variant,,ENST00000334213,;ZNF20,upstream_gene_variant,,ENST00000480477,;CTC-359D24.3,upstream_gene_variant,,ENST00000472362,;ZNF625-ZNF20,intron_variant,,ENST00000434822,;ZNF625-ZNF20,intron_variant,,ENST00000430024,;ZNF20,upstream_gene_variant,,ENST00000454949,;ZNF20,upstream_gene_variant,,ENST00000478942,;CTC-359D24.3,upstream_gene_variant,,ENST00000486612,;	G	ENSG00000257591	ENST00000439556	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	82	-1	ZNF625	HGNC	30571	protein_coding	YES	CCDS12269.2	ENSP00000394380	ZN625_HUMAN	.	UPI0000EE608F	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	GCTGTCAAATG	.	4	BLCA
FBXW9	0	.	GRCh37	19	12807343	12807343	+	Nonsense_Mutation	SNP	G	G	T	rs746891816	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.53C>A	p.Ser18Ter	p.S18*	ENST00000393261	1/10	42	33	9	63	63	0	FBXW9,stop_gained,p.Ser18Ter,ENST00000393261,;FBXW9,stop_gained,p.Ser18Ter,ENST00000587955,;FBXW9,stop_gained,p.Ser18Ter,ENST00000380339,;FBXW9,5_prime_UTR_variant,,ENST00000544494,;TNPO2,downstream_gene_variant,,ENST00000589149,;TNPO2,downstream_gene_variant,,ENST00000356861,;TNPO2,downstream_gene_variant,,ENST00000592287,;TNPO2,downstream_gene_variant,,ENST00000441499,;TNPO2,downstream_gene_variant,,ENST00000425528,;TNPO2,downstream_gene_variant,,ENST00000450764,;TNPO2,downstream_gene_variant,,ENST00000588216,;FBXW9,stop_gained,p.Ser18Ter,ENST00000587296,;	T	ENSG00000132004	ENST00000393261	Transcript	stop_gained	115	53	18	S/*	tCg/tAg	rs746891816,COSM1148075	.	.	-1	FBXW9	HGNC	28136	protein_coding	YES	CCDS12278.2	ENSP00000376945	FBXW9_HUMAN	.	UPI0000203473	.	.	.	1/10	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCCGAGTCA	byFrequency	5	BLCA
TNPO2	0	.	GRCh37	19	12829901	12829901	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267C>T	p.%3D	p.I89I	ENST00000425528	5/26	76	58	18	121	121	0	TNPO2,synonymous_variant,p.%3D,ENST00000356861,;TNPO2,synonymous_variant,p.%3D,ENST00000592287,;TNPO2,synonymous_variant,p.%3D,ENST00000441499,;TNPO2,synonymous_variant,p.%3D,ENST00000425528,;TNPO2,synonymous_variant,p.%3D,ENST00000450764,;TNPO2,synonymous_variant,p.%3D,ENST00000588216,;TNPO2,downstream_gene_variant,,ENST00000589337,;TNPO2,downstream_gene_variant,,ENST00000590781,;TNPO2,non_coding_transcript_exon_variant,,ENST00000589956,;TNPO2,synonymous_variant,p.%3D,ENST00000586775,;TNPO2,synonymous_variant,p.%3D,ENST00000585886,;TNPO2,synonymous_variant,p.%3D,ENST00000587654,;TNPO2,non_coding_transcript_exon_variant,,ENST00000588484,;TNPO2,upstream_gene_variant,,ENST00000588151,;	A	ENSG00000105576	ENST00000425528	Transcript	synonymous_variant	625	267	89	I	atC/atT	.	.	.	-1	TNPO2	HGNC	19998	protein_coding	YES	CCDS45991.1	ENSP00000407182	TNPO2_HUMAN	K7ESC1_HUMAN,K7ENW1_HUMAN,K7EMA3_HUMAN	UPI000013F0EA	.	.	.	5/26	.	Superfamily_domains:SSF48371,SMART_domains:SM00913,Gene3D:1.25.10.10,Pfam_domain:PF03810,hmmpanther:PTHR10527:SF17,hmmpanther:PTHR10527	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGATGAA	.	5	BLCA
JUNB	0	.	GRCh37	19	12903692	12903692	+	3'UTR	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*63G>A	.	.	ENST00000302754	1/1	12	7	5	9	9	0	JUNB,3_prime_UTR_variant,,ENST00000302754,;PRDX2,downstream_gene_variant,,ENST00000301522,;PRDX2,downstream_gene_variant,,ENST00000334482,;CTD-2659N19.10,upstream_gene_variant,,ENST00000585496,;HOOK2,intron_variant,,ENST00000589765,;PRDX2,downstream_gene_variant,,ENST00000466174,;HOOK2,upstream_gene_variant,,ENST00000593143,;	A	ENSG00000171223	ENST00000302754	Transcript	3_prime_UTR_variant	1383	.	.	.	.	.	.	.	1	JUNB	HGNC	6205	protein_coding	YES	CCDS12280.1	ENSP00000303315	JUNB_HUMAN	Q5U079_HUMAN	UPI000012DACF	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACTGGGGTCC	.	2	BLCA
KLF1	0	.	GRCh37	19	12996300	12996300	+	Silent	SNP	G	G	A	rs746668810	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744C>T	p.%3D	p.L248L	ENST00000264834	2/3	11	8	3	11	11	0	KLF1,synonymous_variant,p.%3D,ENST00000264834,;DNASE2,upstream_gene_variant,,ENST00000538460,;DNASE2,upstream_gene_variant,,ENST00000592506,;DNASE2,upstream_gene_variant,,ENST00000222219,;CTD-2265O21.7,downstream_gene_variant,,ENST00000592400,;	A	ENSG00000105610	ENST00000264834	Transcript	synonymous_variant	785	744	248	L	ctC/ctT	rs746668810	.	.	-1	KLF1	HGNC	6345	protein_coding	YES	CCDS12285.1	ENSP00000264834	KLF1_HUMAN	B9UZC3_HUMAN	UPI000012DED2	.	.	.	2/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF135	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCCCCGAGTCC	.	2	BLCA
BRD4	0	.	GRCh37	19	15366361	15366361	+	Silent	SNP	C	C	T	rs201603972	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1794G>A	p.%3D	p.T598T	ENST00000263377	10/20	98	74	24	107	107	0	BRD4,synonymous_variant,p.%3D,ENST00000371835,;BRD4,synonymous_variant,p.%3D,ENST00000263377,;BRD4,synonymous_variant,p.%3D,ENST00000360016,;BRD4,downstream_gene_variant,,ENST00000594841,;BRD4,downstream_gene_variant,,ENST00000602230,;BRD4,upstream_gene_variant,,ENST00000595926,;BRD4,downstream_gene_variant,,ENST00000594842,;	T	ENSG00000141867	ENST00000263377	Transcript	synonymous_variant	2016	1794	598	T	acG/acA	rs201603972	.	.	-1	BRD4	HGNC	13575	protein_coding	YES	CCDS12328.1	ENSP00000263377	BRD4_HUMAN	Q96HN0_HUMAN,M0R0H4_HUMAN,M0QZD9_HUMAN	UPI0000126ACE	.	.	.	10/20	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF143	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATACGTGGG	.	5	BLCA
SIN3B	0	.	GRCh37	19	16976382	16976382	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1641C>G	p.Ile547Met	p.I547M	ENST00000379803	12/20	19	13	6	22	22	0	SIN3B,missense_variant,p.Ile105Met,ENST00000595541,;SIN3B,missense_variant,p.Ile515Met,ENST00000248054,;SIN3B,missense_variant,p.Ile547Met,ENST00000379803,;SIN3B,downstream_gene_variant,,ENST00000596638,;SIN3B,non_coding_transcript_exon_variant,,ENST00000599880,;SIN3B,upstream_gene_variant,,ENST00000595900,;SIN3B,non_coding_transcript_exon_variant,,ENST00000594372,;SIN3B,upstream_gene_variant,,ENST00000602204,;	G	ENSG00000127511	ENST00000379803	Transcript	missense_variant	1655	1641	547	I/M	atC/atG	.	.	.	1	SIN3B	HGNC	19354	protein_coding	YES	CCDS32946.1	ENSP00000369131	SIN3B_HUMAN	.	UPI0000425EFA	.	deleterious(0)	possibly_damaging(0.841)	12/20	.	hmmpanther:PTHR12346,hmmpanther:PTHR12346:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCATCTATGG	.	3	BLCA
MAP1S	0	.	GRCh37	19	17836875	17836875	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.682G>T	p.Glu228Ter	p.E228*	ENST00000324096	5/7	20	16	3	22	22	0	MAP1S,stop_gained,p.Glu202Ter,ENST00000544059,;MAP1S,stop_gained,p.Glu228Ter,ENST00000324096,;MAP1S,intron_variant,,ENST00000597735,;MAP1S,downstream_gene_variant,,ENST00000594625,;MAP1S,downstream_gene_variant,,ENST00000600186,;MAP1S,upstream_gene_variant,,ENST00000597000,;CTD-3149D2.4,downstream_gene_variant,,ENST00000595363,;MAP1S,intron_variant,,ENST00000597681,;MAP1S,downstream_gene_variant,,ENST00000594340,;MAP1S,upstream_gene_variant,,ENST00000598756,;MAP1S,downstream_gene_variant,,ENST00000599494,;MAP1S,downstream_gene_variant,,ENST00000601544,;MAP1S,downstream_gene_variant,,ENST00000595338,;MAP1S,downstream_gene_variant,,ENST00000597067,;MAP1S,downstream_gene_variant,,ENST00000598916,;MAP1S,3_prime_UTR_variant,,ENST00000594212,;MAP1S,downstream_gene_variant,,ENST00000596637,;MAP1S,downstream_gene_variant,,ENST00000593593,;MAP1S,downstream_gene_variant,,ENST00000600608,;MAP1S,downstream_gene_variant,,ENST00000594365,;MAP1S,downstream_gene_variant,,ENST00000598769,;	T	ENSG00000130479	ENST00000324096	Transcript	stop_gained	833	682	228	E/*	Gag/Tag	.	.	.	1	MAP1S	HGNC	15715	protein_coding	YES	CCDS32954.1	ENSP00000325313	MAP1S_HUMAN	.	UPI00002036F9	.	.	.	5/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13843	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTGGAGCCC	.	4	BLCA
ZNF99	0	.	GRCh37	19	22940047	22940047	+	3'Flank	SNP	T	T	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000596209	.	62	42	20	88	88	0	ZNF99,synonymous_variant,p.%3D,ENST00000397104,;ZNF99,downstream_gene_variant,,ENST00000596209,;CTC-451A6.4,upstream_gene_variant,,ENST00000442497,;	G	ENSG00000213973	ENST00000596209	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	69	-1	ZNF99	HGNC	13175	protein_coding	YES	CCDS59369.1	ENSP00000472969	.	M0R335_HUMAN	UPI0000426011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCCTAAGGG	.	5	BLCA
ZNF556	0	.	GRCh37	19	2877614	2877614	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.658G>A	p.Glu220Lys	p.E220K	ENST00000307635	4/4	44	32	12	47	46	1	ZNF556,missense_variant,p.Glu219Lys,ENST00000586426,;ZNF556,missense_variant,p.Glu220Lys,ENST00000307635,;ZNF556,downstream_gene_variant,,ENST00000586470,;AC006130.4,upstream_gene_variant,,ENST00000586202,;	A	ENSG00000172000	ENST00000307635	Transcript	missense_variant	745	658	220	E/K	Gaa/Aaa	.	.	.	1	ZNF556	HGNC	25669	protein_coding	YES	CCDS12097.1	ENSP00000302603	ZN556_HUMAN	.	UPI000006DA0F	.	tolerated(0.32)	benign(0.063)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF142,hmmpanther:PTHR24381,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAACAT	.	4	BLCA
ZNF556	0	.	GRCh37	19	2877835	2877835	+	Silent	SNP	G	G	A	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879G>A	p.%3D	p.G293G	ENST00000307635	4/4	46	40	6	26	26	0	ZNF556,synonymous_variant,p.%3D,ENST00000586426,;ZNF556,synonymous_variant,p.%3D,ENST00000307635,;ZNF556,downstream_gene_variant,,ENST00000586470,;AC006130.4,upstream_gene_variant,,ENST00000586202,;	A	ENSG00000172000	ENST00000307635	Transcript	synonymous_variant	966	879	293	G	ggG/ggA	COSM3531949	.	.	1	ZNF556	HGNC	25669	protein_coding	YES	CCDS12097.1	ENSP00000302603	ZN556_HUMAN	.	UPI000006DA0F	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF142,hmmpanther:PTHR24381,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13912,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGGGAAAGC	.	4	BLCA
ZNF556	0	.	GRCh37	19	2878053	2878053	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1097G>C	p.Arg366Thr	p.R366T	ENST00000307635	4/4	24	17	7	31	31	0	ZNF556,missense_variant,p.Arg365Thr,ENST00000586426,;ZNF556,missense_variant,p.Arg366Thr,ENST00000307635,;ZNF556,downstream_gene_variant,,ENST00000586470,;AC006130.4,upstream_gene_variant,,ENST00000586202,;	C	ENSG00000172000	ENST00000307635	Transcript	missense_variant	1184	1097	366	R/T	aGa/aCa	COSM1392303	.	.	1	ZNF556	HGNC	25669	protein_coding	YES	CCDS12097.1	ENSP00000302603	ZN556_HUMAN	.	UPI000006DA0F	.	tolerated(0.09)	benign(0.119)	4/4	.	hmmpanther:PTHR24381:SF142,hmmpanther:PTHR24381,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTAGAGAGA	.	5	BLCA
UQCRFS1	0	.	GRCh37	19	29698779	29698779	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.501C>G	p.Phe167Leu	p.F167L	ENST00000304863	2/2	116	83	33	131	131	0	UQCRFS1,missense_variant,p.Phe167Leu,ENST00000304863,;	C	ENSG00000169021	ENST00000304863	Transcript	missense_variant	924	501	167	F/L	ttC/ttG	.	.	.	-1	UQCRFS1	HGNC	12587	protein_coding	YES	CCDS12415.1	ENSP00000306397	UCRI_HUMAN	.	UPI000013E9D6	.	deleterious(0.02)	benign(0.203)	2/2	.	hmmpanther:PTHR10134,hmmpanther:PTHR10134:SF4,Gene3D:2.102.10.10,TIGRFAM_domain:TIGR01416,Superfamily_domains:SSF50022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTGAAAGC	.	5	BLCA
MAP4K1	0	.	GRCh37	19	39086336	39086336	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2213C>G	p.Pro738Arg	p.P738R	ENST00000591517	28/32	14	10	4	22	22	0	MAP4K1,missense_variant,p.Pro738Arg,ENST00000396857,;MAP4K1,missense_variant,p.Pro734Arg,ENST00000589130,;MAP4K1,missense_variant,p.Pro738Arg,ENST00000591517,;MAP4K1,missense_variant,p.Pro442Arg,ENST00000591921,;MAP4K1,intron_variant,,ENST00000586296,;MAP4K1,downstream_gene_variant,,ENST00000423454,;CTB-186G2.1,upstream_gene_variant,,ENST00000589557,;MAP4K1,non_coding_transcript_exon_variant,,ENST00000593196,;MAP4K1,non_coding_transcript_exon_variant,,ENST00000588938,;MAP4K1,upstream_gene_variant,,ENST00000591210,;MAP4K1,downstream_gene_variant,,ENST00000585583,;	C	ENSG00000104814	ENST00000591517	Transcript	missense_variant	2242	2213	738	P/R	cCa/cGa	.	.	.	-1	MAP4K1	HGNC	6863	protein_coding	YES	CCDS59385.1	ENSP00000465039	M4K1_HUMAN	.	UPI00000747ED	.	tolerated(0.1)	probably_damaging(1)	28/32	.	PROSITE_profiles:PS50219,hmmpanther:PTHR24361:SF88,hmmpanther:PTHR24361,Pfam_domain:PF00780,PIRSF_domain:PIRSF038172,SMART_domains:SM00036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGACTGGGGAC	.	2	BLCA
PLD3	0	.	GRCh37	19	40872383	40872383	+	5'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8G>C	.	.	ENST00000409587	3/13	35	27	7	39	39	0	PLD3,5_prime_UTR_variant,,ENST00000598962,;PLD3,5_prime_UTR_variant,,ENST00000594908,;PLD3,5_prime_UTR_variant,,ENST00000602131,;PLD3,5_prime_UTR_variant,,ENST00000409419,;PLD3,5_prime_UTR_variant,,ENST00000359274,;PLD3,5_prime_UTR_variant,,ENST00000409587,;PLD3,5_prime_UTR_variant,,ENST00000409735,;PLD3,5_prime_UTR_variant,,ENST00000599685,;PLD3,5_prime_UTR_variant,,ENST00000409281,;PLD3,5_prime_UTR_variant,,ENST00000392032,;PLD3,5_prime_UTR_variant,,ENST00000600948,;PLD3,5_prime_UTR_variant,,ENST00000596682,;PLD3,5_prime_UTR_variant,,ENST00000356508,;PLD3,upstream_gene_variant,,ENST00000599353,;PLD3,downstream_gene_variant,,ENST00000600479,;PLD3,downstream_gene_variant,,ENST00000594085,;PLD3,non_coding_transcript_exon_variant,,ENST00000493006,;PLD3,non_coding_transcript_exon_variant,,ENST00000485448,;PLD3,non_coding_transcript_exon_variant,,ENST00000464586,;PLD3,upstream_gene_variant,,ENST00000492243,;PLD3,upstream_gene_variant,,ENST00000480030,;	C	ENSG00000105223	ENST00000409587	Transcript	5_prime_UTR_variant	390	.	.	.	.	.	.	.	1	PLD3	HGNC	17158	protein_coding	YES	CCDS33027.1	ENSP00000387050	PLD3_HUMAN	M0R2E7_HUMAN,M0R1F7_HUMAN,M0QZK2_HUMAN,M0QY94_HUMAN,M0QX99_HUMAN,M0QX50_HUMAN,E2QRG1_HUMAN,E2QRD3_HUMAN	UPI000004FA75	.	.	.	3/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTGAGGGA	.	5	BLCA
PRX	0	.	GRCh37	19	40901822	40901822	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2437G>C	p.Glu813Gln	p.E813Q	ENST00000324001	7/7	54	44	9	61	61	0	PRX,missense_variant,p.Glu813Gln,ENST00000324001,;PRX,3_prime_UTR_variant,,ENST00000291825,;	G	ENSG00000105227	ENST00000324001	Transcript	missense_variant	2708	2437	813	E/Q	Gag/Cag	COSM349590	.	.	-1	PRX	HGNC	13797	protein_coding	YES	CCDS33028.1	ENSP00000326018	PRAX_HUMAN	.	UPI000044CC1A	.	tolerated(0.28)	possibly_damaging(0.607)	7/7	.	hmmpanther:PTHR23348:SF39,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCTGCCC	.	5	BLCA
PRX	0	.	GRCh37	19	40902083	40902083	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2176G>C	p.Glu726Gln	p.E726Q	ENST00000324001	7/7	147	115	32	138	138	0	PRX,missense_variant,p.Glu726Gln,ENST00000324001,;PRX,3_prime_UTR_variant,,ENST00000291825,;	G	ENSG00000105227	ENST00000324001	Transcript	missense_variant	2447	2176	726	E/Q	Gag/Cag	.	.	.	-1	PRX	HGNC	13797	protein_coding	YES	CCDS33028.1	ENSP00000326018	PRAX_HUMAN	.	UPI000044CC1A	.	deleterious(0.01)	possibly_damaging(0.607)	7/7	.	hmmpanther:PTHR23348:SF39,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCTCTGGGA	.	5	BLCA
PRX	0	.	GRCh37	19	40902485	40902485	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1774G>C	p.Glu592Gln	p.E592Q	ENST00000324001	7/7	158	120	38	186	186	0	PRX,missense_variant,p.Glu592Gln,ENST00000324001,;PRX,3_prime_UTR_variant,,ENST00000291825,;	G	ENSG00000105227	ENST00000324001	Transcript	missense_variant	2045	1774	592	E/Q	Gag/Cag	.	.	.	-1	PRX	HGNC	13797	protein_coding	YES	CCDS33028.1	ENSP00000326018	PRAX_HUMAN	.	UPI000044CC1A	.	tolerated(0.06)	possibly_damaging(0.607)	7/7	.	hmmpanther:PTHR23348:SF39,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCAGGCA	.	5	BLCA
IRGC	0	.	GRCh37	19	44223768	44223768	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1058G>A	p.Gly353Asp	p.G353D	ENST00000244314	2/2	32	27	5	30	30	0	IRGC,missense_variant,p.Gly353Asp,ENST00000244314,;IRGC,downstream_gene_variant,,ENST00000596627,;	A	ENSG00000124449	ENST00000244314	Transcript	missense_variant	1257	1058	353	G/D	gGc/gAc	.	.	.	1	IRGC	HGNC	28835	protein_coding	YES	CCDS12629.1	ENSP00000244314	IIGP5_HUMAN	J7NNX4_HUMAN	UPI000011DFC0	.	tolerated(0.23)	probably_damaging(0.985)	2/2	.	hmmpanther:PTHR32341:SF7,hmmpanther:PTHR32341	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGACGGCGCCA	.	4	BLCA
AP2S1	0	.	GRCh37	19	47349385	47349385	+	Silent	SNP	G	G	T	rs376700130	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18C>A	p.%3D	p.L6L	ENST00000263270	2/5	26	19	7	33	33	0	AP2S1,synonymous_variant,p.%3D,ENST00000263270,;AP2S1,synonymous_variant,p.%3D,ENST00000601498,;AP2S1,synonymous_variant,p.%3D,ENST00000352203,;AP2S1,synonymous_variant,p.%3D,ENST00000599990,;AP2S1,synonymous_variant,p.%3D,ENST00000601649,;AP2S1,5_prime_UTR_variant,,ENST00000597020,;AP2S1,intron_variant,,ENST00000593442,;AP2S1,non_coding_transcript_exon_variant,,ENST00000597421,;	T	ENSG00000042753	ENST00000263270	Transcript	synonymous_variant	244	18	6	L	ctC/ctA	rs376700130	.	.	-1	AP2S1	HGNC	565	protein_coding	YES	CCDS33062.1	ENSP00000263270	AP2S1_HUMAN	M0QZ21_HUMAN	UPI0000000C79	.	.	.	2/5	.	hmmpanther:PTHR11753:SF6,hmmpanther:PTHR11753,Pfam_domain:PF01217,Gene3D:3.30.450.60,PIRSF_domain:PIRSF015588,Superfamily_domains:SSF64356	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TGGATGAGGAT	byFrequency|byCluster	3	BLCA
AP2S1	0	.	GRCh37	19	47349397	47349397	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6C>G	p.Ile2Met	p.I2M	ENST00000263270	2/5	25	19	5	28	28	0	AP2S1,missense_variant,p.Ile2Met,ENST00000263270,;AP2S1,missense_variant,p.Ile18Met,ENST00000601498,;AP2S1,missense_variant,p.Ile2Met,ENST00000352203,;AP2S1,missense_variant,p.Ile4Met,ENST00000599990,;AP2S1,missense_variant,p.Ile2Met,ENST00000601649,;AP2S1,5_prime_UTR_variant,,ENST00000597020,;AP2S1,intron_variant,,ENST00000593442,;AP2S1,splice_region_variant,,ENST00000597421,;	C	ENSG00000042753	ENST00000263270	Transcript	missense_variant	232	6	2	I/M	atC/atG	COSM418154	.	.	-1	AP2S1	HGNC	565	protein_coding	YES	CCDS33062.1	ENSP00000263270	AP2S1_HUMAN	M0QZ21_HUMAN	UPI0000000C79	.	tolerated(0.15)	probably_damaging(0.954)	2/5	.	hmmpanther:PTHR11753:SF6,hmmpanther:PTHR11753,Pfam_domain:PF01217,Gene3D:3.30.450.60,PIRSF_domain:PIRSF015588,Superfamily_domains:SSF64356	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AAGCGGATCTG	.	3	BLCA
ELSPBP1	0	.	GRCh37	19	48525485	48525485	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.573G>C	p.Lys191Asn	p.K191N	ENST00000339841	6/7	85	54	31	90	90	0	ELSPBP1,missense_variant,p.Lys44Asn,ENST00000593413,;ELSPBP1,missense_variant,p.Lys43Asn,ENST00000597519,;ELSPBP1,missense_variant,p.Lys122Asn,ENST00000593782,;ELSPBP1,missense_variant,p.Lys191Asn,ENST00000339841,;ELSPBP1,missense_variant,p.Lys145Asn,ENST00000596043,;	C	ENSG00000169393	ENST00000339841	Transcript	missense_variant	751	573	191	K/N	aaG/aaC	.	.	.	1	ELSPBP1	HGNC	14417	protein_coding	YES	CCDS12708.1	ENSP00000340660	ESPB1_HUMAN	M0QZH6_HUMAN	UPI000013EA82	.	tolerated(0.05)	probably_damaging(0.911)	6/7	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51092,hmmpanther:PTHR22918:SF5,hmmpanther:PTHR22918,PROSITE_patterns:PS00023,Gene3D:2.10.10.10,Pfam_domain:PF00040,SMART_domains:SM00059,Superfamily_domains:SSF57440,Prints_domain:PR00013	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAAGAATTA	.	5	BLCA
ELSPBP1	0	.	GRCh37	19	48525589	48525589	+	Intron	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5G>A	.	.	ENST00000339841	6/7	52	31	21	49	49	0	ELSPBP1,splice_region_variant,,ENST00000593413,;ELSPBP1,splice_region_variant,,ENST00000597519,;ELSPBP1,splice_region_variant,,ENST00000339841,;ELSPBP1,3_prime_UTR_variant,,ENST00000593782,;ELSPBP1,downstream_gene_variant,,ENST00000596043,;	A	ENSG00000169393	ENST00000339841	Transcript	splice_region_variant	855	.	.	.	.	.	.	.	1	ELSPBP1	HGNC	14417	protein_coding	YES	CCDS12708.1	ENSP00000340660	ESPB1_HUMAN	M0QZH6_HUMAN	UPI000013EA82	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTGAGGTG	.	5	BLCA
TMC4	0	.	GRCh37	19	54664722	54664722	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1884C>T	p.%3D	p.I628I	ENST00000376591	13/15	19	16	3	10	10	0	TMC4,synonymous_variant,p.%3D,ENST00000376591,;TMC4,synonymous_variant,p.%3D,ENST00000301187,;TMC4,synonymous_variant,p.%3D,ENST00000416963,;LENG1,upstream_gene_variant,,ENST00000222224,;TMC4,downstream_gene_variant,,ENST00000476013,;TMC4,downstream_gene_variant,,ENST00000479750,;TMC4,non_coding_transcript_exon_variant,,ENST00000465790,;TMC4,upstream_gene_variant,,ENST00000449860,;TMC4,upstream_gene_variant,,ENST00000494594,;TMC4,downstream_gene_variant,,ENST00000497518,;TMC4,downstream_gene_variant,,ENST00000468343,;TMC4,downstream_gene_variant,,ENST00000495398,;	A	ENSG00000167608	ENST00000376591	Transcript	synonymous_variant	2016	1884	628	I	atC/atT	.	.	.	-1	TMC4	HGNC	22998	protein_coding	YES	CCDS46174.1	ENSP00000365776	TMC4_HUMAN	C9JFU4_HUMAN	UPI000040C55F	.	.	.	13/15	.	hmmpanther:PTHR23302,hmmpanther:PTHR23302:SF36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCAGATGGA	.	2	BLCA
PNPLA6	0	.	GRCh37	19	7614810	7614810	+	Silent	SNP	C	C	T	rs778970098	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1653C>T	p.%3D	p.F551F	ENST00000414982	16/34	31	24	6	41	41	0	PNPLA6,synonymous_variant,p.%3D,ENST00000450331,;PNPLA6,synonymous_variant,p.%3D,ENST00000600737,;PNPLA6,synonymous_variant,p.%3D,ENST00000545201,;PNPLA6,synonymous_variant,p.%3D,ENST00000221249,;PNPLA6,synonymous_variant,p.%3D,ENST00000414982,;PNPLA6,non_coding_transcript_exon_variant,,ENST00000594864,;PNPLA6,non_coding_transcript_exon_variant,,ENST00000595889,;PNPLA6,non_coding_transcript_exon_variant,,ENST00000599311,;PNPLA6,non_coding_transcript_exon_variant,,ENST00000595176,;PNPLA6,upstream_gene_variant,,ENST00000599951,;	T	ENSG00000032444	ENST00000414982	Transcript	synonymous_variant	1848	1653	551	F	ttC/ttT	rs778970098	.	.	1	PNPLA6	HGNC	16268	protein_coding	YES	CCDS54206.1	ENSP00000407509	PLPL6_HUMAN	.	UPI0001AE63FF	.	.	.	16/34	.	Superfamily_domains:SSF51206,SMART_domains:SM00100,Gene3D:2.60.120.10,Pfam_domain:PF00027,hmmpanther:PTHR14226:SF26,hmmpanther:PTHR14226,PROSITE_profiles:PS50042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTCGTGCT	byFrequency	5	BLCA
FBN3	0	.	GRCh37	19	8145968	8145968	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7372C>T	p.Gln2458Ter	p.Q2458*	ENST00000600128	59/64	37	33	4	62	62	0	FBN3,stop_gained,p.Gln2458Ter,ENST00000600128,;FBN3,stop_gained,p.Gln2458Ter,ENST00000601739,;FBN3,stop_gained,p.Gln2458Ter,ENST00000270509,;FBN3,upstream_gene_variant,,ENST00000595036,;	A	ENSG00000142449	ENST00000600128	Transcript	stop_gained	7787	7372	2458	Q/*	Cag/Tag	.	.	.	-1	FBN3	HGNC	18794	protein_coding	YES	CCDS12196.1	ENSP00000470498	FBN3_HUMAN	.	UPI000013D88F	.	.	.	59/64	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF0,PROSITE_patterns:PS01187,Pfam_domain:PF07645,Gene3D:2.10.25.10,SMART_domains:SM00181,PIRSF_domain:PIRSF036312,SMART_domains:SM00179,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAACTGACAGT	.	3	BLCA
MUC16	0	.	GRCh37	19	9059418	9059418	+	Nonsense_Mutation	SNP	G	G	C	rs750811163	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28028C>G	p.Ser9343Ter	p.S9343*	ENST00000397910	3/84	66	47	18	98	98	0	MUC16,stop_gained,p.Ser9343Ter,ENST00000397910,;	C	ENSG00000181143	ENST00000397910	Transcript	stop_gained	28232	28028	9343	S/*	tCa/tGa	rs750811163,COSM3542271,COSM3542270	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	.	3/84	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGATGAC	.	5	BLCA
OR7D4	0	.	GRCh37	19	9324990	9324990	+	Missense_Mutation	SNP	G	G	A	rs746009560	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.524C>T	p.Pro175Leu	p.P175L	ENST00000308682	1/1	45	42	3	59	59	0	OR7D4,missense_variant,p.Pro175Leu,ENST00000308682,;	A	ENSG00000174667	ENST00000308682	Transcript	missense_variant	553	524	175	P/L	cCg/cTg	rs746009560,COSM180297	.	.	-1	OR7D4	HGNC	8380	protein_coding	YES	CCDS32901.1	ENSP00000310488	OR7D4_HUMAN	.	UPI00000472B5	.	deleterious(0.02)	possibly_damaging(0.573)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF131,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E173K|c.517G>A|3	MUTECT|MUSE	AATGCGGAATC	byFrequency|byCluster	2	BLCA
COL11A1	0	.	GRCh37	1	103471422	103471422	+	Missense_Mutation	SNP	G	G	A	rs534777436	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1817C>T	p.Pro606Leu	p.P606L	ENST00000370096	18/67	76	52	23	73	73	0	COL11A1,missense_variant,p.Pro490Leu,ENST00000512756,;COL11A1,missense_variant,p.Pro567Leu,ENST00000353414,;COL11A1,missense_variant,p.Pro606Leu,ENST00000370096,;COL11A1,missense_variant,p.Pro618Leu,ENST00000358392,;COL11A1,downstream_gene_variant,,ENST00000427239,;COL11A1,non_coding_transcript_exon_variant,,ENST00000461720,;COL11A1,upstream_gene_variant,,ENST00000475980,;	A	ENSG00000060718	ENST00000370096	Transcript	missense_variant	2130	1817	606	P/L	cCg/cTg	rs534777436	.	.	-1	COL11A1	HGNC	2186	protein_coding	YES	CCDS778.1	ENSP00000359114	COBA1_HUMAN	Q4FAC4_HUMAN,B4DQZ0_HUMAN	UPI00002053EF	.	.	unknown(0)	18/67	.	hmmpanther:PTHR24023:SF42,hmmpanther:PTHR24023,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCCGGAAGT	byCluster	5	BLCA
CD101	0	.	GRCh37	1	117554289	117554289	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.542C>G	p.Ser181Cys	p.S181C	ENST00000256652	3/10	40	28	11	56	56	0	CD101,missense_variant,p.Ser181Cys,ENST00000369470,;CD101,missense_variant,p.Ser181Cys,ENST00000256652,;	G	ENSG00000134256	ENST00000256652	Transcript	missense_variant	600	542	181	S/C	tCt/tGt	.	.	.	1	CD101	HGNC	5949	protein_coding	YES	CCDS891.1	ENSP00000256652	IGSF2_HUMAN	.	UPI000013CF1F	.	deleterious(0)	probably_damaging(0.996)	3/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12207:SF20,hmmpanther:PTHR12207,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTGTCA	.	5	BLCA
ZBTB7B	0	.	GRCh37	1	154988705	154988705	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1266G>C	p.Lys422Asn	p.K422N	ENST00000417934	5/5	25	18	7	31	31	0	ZBTB7B,missense_variant,p.Lys388Asn,ENST00000535420,;ZBTB7B,missense_variant,p.Lys388Asn,ENST00000368426,;ZBTB7B,missense_variant,p.Lys388Asn,ENST00000292176,;ZBTB7B,missense_variant,p.Lys422Asn,ENST00000417934,;DCST2,downstream_gene_variant,,ENST00000368424,;ZBTB7B,downstream_gene_variant,,ENST00000461530,;ZBTB7B,downstream_gene_variant,,ENST00000483226,;ZBTB7B,downstream_gene_variant,,ENST00000487542,;DCST2,downstream_gene_variant,,ENST00000485982,;DCST2,downstream_gene_variant,,ENST00000368423,;DCST2,downstream_gene_variant,,ENST00000467991,;	C	ENSG00000160685	ENST00000417934	Transcript	missense_variant	1535	1266	422	K/N	aaG/aaC	COSM463080	.	.	1	ZBTB7B	HGNC	18668	protein_coding	YES	CCDS58030.1	ENSP00000406286	ZBT7B_HUMAN	.	UPI0001A5EB6F	.	deleterious(0)	probably_damaging(0.985)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF129,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.K388N|c.1164G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAAGCTGAA	.	5	BLCA
ASH1L	0	.	GRCh37	1	155451168	155451168	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1493G>T	p.Gly498Val	p.G498V	ENST00000392403	3/28	68	61	7	91	91	0	ASH1L,missense_variant,p.Gly498Val,ENST00000368346,;ASH1L,missense_variant,p.Gly498Val,ENST00000392403,;ASH1L,downstream_gene_variant,,ENST00000548830,;	A	ENSG00000116539	ENST00000392403	Transcript	missense_variant	1972	1493	498	G/V	gGa/gTa	.	.	.	-1	ASH1L	HGNC	19088	protein_coding	YES	CCDS1113.2	ENSP00000376204	ASH1L_HUMAN	.	UPI0000DACAC8	.	deleterious_low_confidence(0)	probably_damaging(0.95)	3/28	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF311	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTTCCTTCA	.	4	BLCA
C1orf85	0	.	GRCh37	1	156264264	156264264	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.471G>C	p.Trp157Cys	p.W157C	ENST00000362007	3/6	43	30	13	62	62	0	C1orf85,missense_variant,p.Trp157Cys,ENST00000362007,;TMEM79,downstream_gene_variant,,ENST00000405535,;TMEM79,downstream_gene_variant,,ENST00000357501,;VHLL,downstream_gene_variant,,ENST00000339922,;TMEM79,downstream_gene_variant,,ENST00000456810,;C1orf85,upstream_gene_variant,,ENST00000481050,;TMEM79,downstream_gene_variant,,ENST00000295694,;TMEM79,downstream_gene_variant,,ENST00000463670,;C1orf85,upstream_gene_variant,,ENST00000497831,;TMEM79,downstream_gene_variant,,ENST00000495881,;C1orf85,upstream_gene_variant,,ENST00000482579,;C1orf85,upstream_gene_variant,,ENST00000480968,;TMEM79,downstream_gene_variant,,ENST00000485135,;C1orf85,missense_variant,p.Glu86Gln,ENST00000476177,;C1orf85,missense_variant,p.Trp71Cys,ENST00000368264,;C1orf85,non_coding_transcript_exon_variant,,ENST00000479084,;C1orf85,non_coding_transcript_exon_variant,,ENST00000497955,;C1orf85,non_coding_transcript_exon_variant,,ENST00000484214,;C1orf85,intron_variant,,ENST00000472870,;C1orf85,upstream_gene_variant,,ENST00000461597,;	G	ENSG00000198715	ENST00000362007	Transcript	missense_variant	498	471	157	W/C	tgG/tgC	COSM424120	.	.	-1	C1orf85	HGNC	29436	protein_coding	YES	CCDS1139.1	ENSP00000354553	NCUG1_HUMAN	.	UPI00000361F7	.	deleterious(0)	probably_damaging(1)	3/6	.	hmmpanther:PTHR31981:SF1,hmmpanther:PTHR31981,Pfam_domain:PF15065	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCCAAGA	.	5	BLCA
IFI16	0	.	GRCh37	1	158984723	158984723	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253G>C	p.Glu85Gln	p.E85Q	ENST00000368131	2/11	65	48	17	64	64	0	IFI16,missense_variant,p.Glu85Gln,ENST00000295809,;IFI16,missense_variant,p.Glu85Gln,ENST00000340979,;IFI16,missense_variant,p.Glu89Gln,ENST00000430894,;IFI16,missense_variant,p.Glu85Gln,ENST00000368132,;IFI16,missense_variant,p.Glu85Gln,ENST00000368131,;IFI16,missense_variant,p.Glu85Gln,ENST00000448393,;IFI16,missense_variant,p.Glu85Gln,ENST00000426592,;IFI16,missense_variant,p.Glu85Gln,ENST00000359709,;IFI16,missense_variant,p.Glu85Gln,ENST00000447473,;IFI16,upstream_gene_variant,,ENST00000567661,;IFI16,downstream_gene_variant,,ENST00000566111,;IFI16,upstream_gene_variant,,ENST00000474473,;IFI16,non_coding_transcript_exon_variant,,ENST00000493884,;IFI16,non_coding_transcript_exon_variant,,ENST00000483916,;	C	ENSG00000163565	ENST00000368131	Transcript	missense_variant	543	253	85	E/Q	Gaa/Caa	.	.	.	1	IFI16	HGNC	5395	protein_coding	YES	CCDS1180.3	ENSP00000357113	IF16_HUMAN	H3BVE6_HUMAN,H3BR88_HUMAN,H3BR65_HUMAN,H3BM18_HUMAN	UPI00001412C9	.	deleterious(0.04)	possibly_damaging(0.71)	2/11	.	PROSITE_profiles:PS50824,hmmpanther:PTHR12200:SF5,hmmpanther:PTHR12200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAAGAAAAG	.	5	BLCA
USP21	0	.	GRCh37	1	161132742	161132742	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927C>G	p.%3D	p.L309L	ENST00000368002	7/14	31	25	6	41	41	0	USP21,synonymous_variant,p.%3D,ENST00000289865,;USP21,synonymous_variant,p.%3D,ENST00000368001,;USP21,synonymous_variant,p.%3D,ENST00000368002,;PPOX,upstream_gene_variant,,ENST00000367999,;PPOX,upstream_gene_variant,,ENST00000352210,;USP21,downstream_gene_variant,,ENST00000479344,;PPOX,upstream_gene_variant,,ENST00000544598,;UFC1,downstream_gene_variant,,ENST00000368003,;PPOX,upstream_gene_variant,,ENST00000432542,;USP21,downstream_gene_variant,,ENST00000492950,;PPOX,upstream_gene_variant,,ENST00000535223,;RP11-297K8.2,upstream_gene_variant,,ENST00000420498,;UFC1,downstream_gene_variant,,ENST00000473766,;PPOX,upstream_gene_variant,,ENST00000490768,;PPOX,upstream_gene_variant,,ENST00000497522,;PPOX,upstream_gene_variant,,ENST00000470607,;USP21,downstream_gene_variant,,ENST00000486299,;PPOX,upstream_gene_variant,,ENST00000495483,;UFC1,downstream_gene_variant,,ENST00000483191,;UFC1,downstream_gene_variant,,ENST00000467540,;PPOX,upstream_gene_variant,,ENST00000462866,;USP21,upstream_gene_variant,,ENST00000493054,;USP21,non_coding_transcript_exon_variant,,ENST00000482385,;USP21,non_coding_transcript_exon_variant,,ENST00000487163,;PPOX,upstream_gene_variant,,ENST00000468968,;USP21,upstream_gene_variant,,ENST00000485277,;PPOX,upstream_gene_variant,,ENST00000539753,;PPOX,upstream_gene_variant,,ENST00000479246,;	G	ENSG00000143258	ENST00000368002	Transcript	synonymous_variant	1304	927	309	L	ctC/ctG	.	.	.	1	USP21	HGNC	12620	protein_coding	YES	CCDS30920.1	ENSP00000356981	UBP21_HUMAN	.	UPI00001379FD	.	.	.	7/14	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF365,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCATGGA	.	5	BLCA
DDR2	0	.	GRCh37	1	162729612	162729612	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.698C>T	p.Thr233Ile	p.T233I	ENST00000367922	9/19	43	30	12	51	51	0	DDR2,missense_variant,p.Thr233Ile,ENST00000367921,;DDR2,missense_variant,p.Thr233Ile,ENST00000367922,;DDR2,downstream_gene_variant,,ENST00000415555,;DDR2,downstream_gene_variant,,ENST00000446985,;	T	ENSG00000162733	ENST00000367922	Transcript	missense_variant	1136	698	233	T/I	aCc/aTc	.	.	.	1	DDR2	HGNC	2731	protein_coding	YES	CCDS1241.1	ENSP00000356899	DDR2_HUMAN	Q5T245_HUMAN,Q5T244_HUMAN	UPI000013E1B4	.	deleterious(0)	probably_damaging(0.917)	9/19	.	hmmpanther:PTHR24416:SF297,hmmpanther:PTHR24416	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTGACCGATG	.	5	BLCA
CLCNKA	0	.	GRCh37	1	16357015	16357015	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1468G>C	p.Glu490Gln	p.E490Q	ENST00000331433	15/20	40	35	5	68	68	0	CLCNKA,missense_variant,p.Glu490Gln,ENST00000331433,;CLCNKA,missense_variant,p.Glu490Gln,ENST00000420078,;CLCNKA,missense_variant,p.Glu447Gln,ENST00000439316,;CLCNKA,missense_variant,p.Glu490Gln,ENST00000375692,;CLCNKA,non_coding_transcript_exon_variant,,ENST00000464764,;CLCNKA,downstream_gene_variant,,ENST00000491433,;CLCNKA,downstream_gene_variant,,ENST00000495784,;RP11-5P18.10,downstream_gene_variant,,ENST00000447882,;	C	ENSG00000186510	ENST00000331433	Transcript	missense_variant	1487	1468	490	E/Q	Gag/Cag	.	.	.	1	CLCNKA	HGNC	2026	protein_coding	YES	CCDS167.1	ENSP00000332771	CLCKA_HUMAN	.	UPI0000127993	.	deleterious(0)	probably_damaging(1)	15/20	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11689,hmmpanther:PTHR11689:SF78,Gene3D:1otsB00,Pfam_domain:PF00654,Superfamily_domains:SSF81340,Prints_domain:PR00762	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTGAGCTG	.	4	BLCA
EPHA2	0	.	GRCh37	1	16458911	16458912	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2076dupT	p.Glu693Ter	p.E693*	ENST00000358432	12/17	64	48	16	70	70	0	EPHA2,frameshift_variant,p.Glu693Ter,ENST00000358432,;EPHA2,downstream_gene_variant,,ENST00000480202,;EPHA2,downstream_gene_variant,,ENST00000462805,;	A	ENSG00000142627	ENST00000358432	Transcript	frameshift_variant	2231-2232	2076-2077	692-693	-/X	-/T	.	.	.	-1	EPHA2	HGNC	3386	protein_coding	YES	CCDS169.1	ENSP00000351209	EPHA2_HUMAN	Q96HF4_HUMAN,Q8IZL0_HUMAN	UPI00000731AB	.	.	.	12/17	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF306,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,SMART_domains:SM00219,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF56112,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTACTCAGTGA	.	3	BLCA
RC3H1	0	.	GRCh37	1	173952641	173952641	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507C>T	p.%3D	p.L169L	ENST00000367696	4/20	73	54	19	68	68	0	RC3H1,synonymous_variant,p.%3D,ENST00000367694,;RC3H1,synonymous_variant,p.%3D,ENST00000258349,;RC3H1,synonymous_variant,p.%3D,ENST00000367696,;RC3H1,upstream_gene_variant,,ENST00000484867,;	A	ENSG00000135870	ENST00000367696	Transcript	synonymous_variant	859	507	169	L	ctC/ctT	.	.	.	-1	RC3H1	HGNC	29434	protein_coding	YES	CCDS30940.1	ENSP00000356669	RC3H1_HUMAN	B9EGU6_HUMAN	UPI00001D7DA8	.	.	.	4/20	.	hmmpanther:PTHR13139,hmmpanther:PTHR13139:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATGAGCTC	.	5	BLCA
PADI1	0	.	GRCh37	1	17552596	17552596	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595C>T	p.Leu199Phe	p.L199F	ENST00000375471	6/16	46	26	19	52	52	0	PADI1,missense_variant,p.Leu199Phe,ENST00000375471,;PADI1,non_coding_transcript_exon_variant,,ENST00000483501,;	T	ENSG00000142623	ENST00000375471	Transcript	missense_variant	687	595	199	L/F	Ctt/Ttt	COSM2154997	.	.	1	PADI1	HGNC	18367	protein_coding	YES	CCDS178.1	ENSP00000364620	PADI1_HUMAN	B4DQP2_HUMAN,B4DDP3_HUMAN	UPI000013D8A2	.	deleterious(0)	probably_damaging(0.989)	6/16	.	hmmpanther:PTHR10837,hmmpanther:PTHR10837:SF9,Pfam_domain:PF08527,PIRSF_domain:PIRSF001247,Superfamily_domains:0044952	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAAGCTTGTC	.	5	BLCA
HMCN1	0	.	GRCh37	1	185833601	185833601	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340-1G>T	.	p.X114_splice	ENST00000271588	.	53	43	9	60	60	0	HMCN1,splice_acceptor_variant,,ENST00000367492,;HMCN1,splice_acceptor_variant,,ENST00000271588,;	T	ENSG00000143341	ENST00000271588	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	.	.	2/106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAACAGGGTGG	.	5	BLCA
CFHR3	0	.	GRCh37	1	196749052	196749052	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379G>A	p.Val127Ile	p.V127I	ENST00000367425	3/6	43	32	11	66	66	0	CFHR3,missense_variant,p.Val127Ile,ENST00000471440,;CFHR3,missense_variant,p.Val127Ile,ENST00000367425,;CFHR3,missense_variant,p.Val127Ile,ENST00000391985,;CFHR3,missense_variant,p.Val127Ile,ENST00000367427,;	A	ENSG00000116785	ENST00000367425	Transcript	missense_variant	471	379	127	V/I	Gtt/Att	.	.	.	1	CFHR3	HGNC	16980	protein_coding	YES	CCDS30958.1	ENSP00000356395	FHR3_HUMAN	.	UPI000012A73C	.	tolerated(1)	benign(0.357)	3/6	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF310,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T130M|c.389C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACAGTTACA	.	5	BLCA
PPP2R5A	0	.	GRCh37	1	212515547	212515547	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498C>G	p.Phe166Leu	p.F166L	ENST00000261461	4/13	97	73	24	111	111	0	PPP2R5A,missense_variant,p.Phe109Leu,ENST00000537030,;PPP2R5A,missense_variant,p.Phe166Leu,ENST00000261461,;PPP2R5A,non_coding_transcript_exon_variant,,ENST00000498129,;PPP2R5A,non_coding_transcript_exon_variant,,ENST00000479259,;	G	ENSG00000066027	ENST00000261461	Transcript	missense_variant	1072	498	166	F/L	ttC/ttG	.	.	.	1	PPP2R5A	HGNC	9309	protein_coding	YES	CCDS1503.1	ENSP00000261461	2A5A_HUMAN	.	UPI0000124E90	.	tolerated(0.06)	benign(0.142)	4/13	.	hmmpanther:PTHR10257,hmmpanther:PTHR10257:SF6,Pfam_domain:PF01603,PIRSF_domain:PIRSF028043,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTTGAG	.	5	BLCA
SMYD2	0	.	GRCh37	1	214507533	214507533	+	Intron	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1113-10C>A	.	.	ENST00000366957	.	32	21	10	35	35	0	SMYD2,intron_variant,,ENST00000415093,;SMYD2,intron_variant,,ENST00000416415,;SMYD2,intron_variant,,ENST00000366957,;SMYD2,non_coding_transcript_exon_variant,,ENST00000491455,;SMYD2,intron_variant,,ENST00000460580,;SMYD2,downstream_gene_variant,,ENST00000484459,;SMYD2,non_coding_transcript_exon_variant,,ENST00000471645,;	A	ENSG00000143499	ENST00000366957	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	SMYD2	HGNC	20982	protein_coding	YES	CCDS31022.1	ENSP00000355924	SMYD2_HUMAN	I6L9H7_HUMAN	UPI0000205E5F	.	.	.	.	10/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCTTGTT	.	5	BLCA
HEATR1	0	.	GRCh37	1	236749123	236749123	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2046G>T	p.Lys682Asn	p.K682N	ENST00000366582	16/45	41	37	4	23	23	0	HEATR1,missense_variant,p.Lys682Asn,ENST00000366581,;HEATR1,missense_variant,p.Lys682Asn,ENST00000366582,;	A	ENSG00000119285	ENST00000366582	Transcript	missense_variant	2161	2046	682	K/N	aaG/aaT	.	.	.	-1	HEATR1	HGNC	25517	protein_coding	YES	CCDS31066.1	ENSP00000355541	HEAT1_HUMAN	Q6P664_HUMAN	UPI000013D4D4	.	tolerated(0.12)	benign(0.014)	16/45	.	Superfamily_domains:SSF48371,hmmpanther:PTHR13457:SF1,hmmpanther:PTHR13457	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	ACCATCTTTAA	.	2	BLCA
WDR64	0	.	GRCh37	1	241907726	241907726	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1472A>G	p.Tyr491Cys	p.Y491C	ENST00000366552	12/27	87	59	27	59	59	0	WDR64,missense_variant,p.Tyr491Cys,ENST00000437684,;WDR64,missense_variant,p.Tyr491Cys,ENST00000366552,;WDR64,missense_variant,p.Tyr262Cys,ENST00000414635,;WDR64,missense_variant,p.Tyr50Cys,ENST00000472717,;WDR64,missense_variant,p.Tyr491Cys,ENST00000468967,;	G	ENSG00000162843	ENST00000366552	Transcript	missense_variant	1679	1472	491	Y/C	tAc/tGc	.	.	.	1	WDR64	HGNC	26570	protein_coding	YES	.	ENSP00000355510	WDR64_HUMAN	D6RCR1_HUMAN	UPI0000519142	.	deleterious(0)	probably_damaging(0.999)	12/27	.	PROSITE_profiles:PS50294,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF138,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTATACCAGA	.	5	BLCA
SDCCAG8	0	.	GRCh37	1	243589797	243589797	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1922G>C	p.Arg641Thr	p.R641T	ENST00000366541	16/18	56	28	27	51	51	0	SDCCAG8,missense_variant,p.Arg598Thr,ENST00000355875,;SDCCAG8,missense_variant,p.Arg496Thr,ENST00000343783,;SDCCAG8,missense_variant,p.Arg342Thr,ENST00000435549,;SDCCAG8,missense_variant,p.Arg641Thr,ENST00000366541,;SDCCAG8,non_coding_transcript_exon_variant,,ENST00000463042,;	C	ENSG00000054282	ENST00000366541	Transcript	missense_variant	2040	1922	641	R/T	aGa/aCa	COSM906610	.	.	1	SDCCAG8	HGNC	10671	protein_coding	YES	CCDS31075.1	ENSP00000355499	SDCG8_HUMAN	A6NCS9_HUMAN	UPI000000D77E	.	deleterious(0)	probably_damaging(0.999)	16/18	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAAATG	.	5	BLCA
OR2M5	0	.	GRCh37	1	248309280	248309280	+	Missense_Mutation	SNP	C	C	G	rs754285740	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.831C>G	p.Phe277Leu	p.F277L	ENST00000366476	1/1	136	111	24	113	113	0	OR2M5,missense_variant,p.Phe277Leu,ENST00000366476,;	G	ENSG00000162727	ENST00000366476	Transcript	missense_variant	831	831	277	F/L	ttC/ttG	rs754285740	.	.	1	OR2M5	HGNC	19576	protein_coding	YES	CCDS31105.1	ENSP00000355432	OR2M5_HUMAN	.	UPI00001612E2	.	deleterious(0.02)	possibly_damaging(0.766)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF28,hmmpanther:PTHR26453,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTCTACAC	byFrequency	5	BLCA
OR2M4	0	.	GRCh37	1	248402797	248402797	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.567C>A	p.Cys189Ter	p.C189*	ENST00000306687	1/1	146	98	47	124	124	0	OR2M4,stop_gained,p.Cys189Ter,ENST00000306687,;	A	ENSG00000171180	ENST00000306687	Transcript	stop_gained	567	567	189	C/*	tgC/tgA	.	.	.	1	OR2M4	HGNC	8270	protein_coding	YES	CCDS31108.1	ENSP00000306688	OR2M4_HUMAN	.	UPI000004B233	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF91,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGCACAGA	.	5	BLCA
OR14I1	0	.	GRCh37	1	248845405	248845405	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201G>T	p.Leu67Phe	p.L67F	ENST00000342623	1/1	39	33	5	48	48	0	OR14I1,missense_variant,p.Leu67Phe,ENST00000342623,;	A	ENSG00000189181	ENST00000342623	Transcript	missense_variant	225	201	67	L/F	ttG/ttT	.	.	.	-1	OR14I1	HGNC	19575	protein_coding	YES	CCDS31125.1	ENSP00000339726	O14I1_HUMAN	.	UPI0000199BC9	.	deleterious(0)	probably_damaging(0.957)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF68,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGATCCAAAAC	.	5	BLCA
CEP104	0	.	GRCh37	1	3732014	3732014	+	Silent	SNP	C	C	T	rs200742076	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2730G>A	p.%3D	p.P910P	ENST00000378230	22/22	16	12	4	24	24	0	CEP104,synonymous_variant,p.%3D,ENST00000378230,;CEP104,downstream_gene_variant,,ENST00000438539,;CEP104,non_coding_transcript_exon_variant,,ENST00000484420,;	T	ENSG00000116198	ENST00000378230	Transcript	synonymous_variant	3055	2730	910	P	ccG/ccA	rs200742076,COSM426203	.	.	-1	CEP104	HGNC	24866	protein_coding	YES	CCDS30571.1	ENSP00000367476	CE104_HUMAN	.	UPI0000139AA8	.	.	.	22/22	.	.	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTTCGGGGT	byCluster|by1000G	2	BLCA
MACF1	0	.	GRCh37	1	39757600	39757600	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1819G>C	p.Glu607Gln	p.E607Q	ENST00000545844	16/94	26	23	3	48	48	0	MACF1,missense_variant,p.Glu607Gln,ENST00000361689,;MACF1,missense_variant,p.Glu602Gln,ENST00000564288,;MACF1,missense_variant,p.Glu756Gln,ENST00000530262,;MACF1,missense_variant,p.Glu607Gln,ENST00000539005,;MACF1,missense_variant,p.Glu607Gln,ENST00000372915,;MACF1,missense_variant,p.Glu607Gln,ENST00000317713,;MACF1,missense_variant,p.Glu639Gln,ENST00000567887,;MACF1,missense_variant,p.Glu607Gln,ENST00000545844,;MACF1,missense_variant,p.Glu565Gln,ENST00000524432,;MACF1,missense_variant,p.Glu767Gln,ENST00000496804,;MACF1,downstream_gene_variant,,ENST00000484393,;	C	ENSG00000127603	ENST00000545844	Transcript	missense_variant	1927	1819	607	E/Q	Gag/Cag	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	possibly_damaging(0.854)	16/94	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,Gene3D:1.20.58.60,hmmpanther:PTHR11915:SF37,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCAGAGTGG	.	2	BLCA
CAP1	0	.	GRCh37	1	40525816	40525816	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190G>C	p.Glu64Gln	p.E64Q	ENST00000372797	3/13	35	30	5	32	32	0	CAP1,missense_variant,p.Glu64Gln,ENST00000372805,;CAP1,missense_variant,p.Glu64Gln,ENST00000427843,;CAP1,missense_variant,p.Glu64Gln,ENST00000421589,;CAP1,missense_variant,p.Glu64Gln,ENST00000449311,;CAP1,missense_variant,p.Glu64Gln,ENST00000420216,;CAP1,missense_variant,p.Glu63Gln,ENST00000340450,;CAP1,missense_variant,p.Glu64Gln,ENST00000417287,;CAP1,missense_variant,p.Glu63Gln,ENST00000372802,;CAP1,missense_variant,p.Glu63Gln,ENST00000372798,;CAP1,missense_variant,p.Glu64Gln,ENST00000372797,;CAP1,missense_variant,p.Glu64Gln,ENST00000414281,;CAP1,missense_variant,p.Glu64Gln,ENST00000424977,;CAP1,missense_variant,p.Glu64Gln,ENST00000372792,;CAP1,missense_variant,p.Glu63Gln,ENST00000435719,;CAP1,intron_variant,,ENST00000414893,;CAP1,downstream_gene_variant,,ENST00000446031,;	C	ENSG00000131236	ENST00000372797	Transcript	missense_variant	751	190	64	E/Q	Gag/Cag	.	.	.	1	CAP1	HGNC	20040	protein_coding	YES	CCDS41309.1	ENSP00000361883	CAP1_HUMAN	Q5T0R8_HUMAN,Q5T0R7_HUMAN,Q5T0R6_HUMAN,Q5T0R5_HUMAN,Q5T0R4_HUMAN,Q5T0R3_HUMAN,Q5T0R2_HUMAN,Q5T0R1_HUMAN	UPI000013CDDF	.	tolerated(0.57)	benign(0.144)	3/13	.	Superfamily_domains:0043456,Pfam_domain:PF01213,hmmpanther:PTHR10652:SF1,hmmpanther:PTHR10652	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTAAAGAGATT	.	2	BLCA
STIL	0	.	GRCh37	1	47717290	47717290	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3385C>A	p.Leu1129Ile	p.L1129I	ENST00000371877	17/17	95	56	38	133	133	0	STIL,missense_variant,p.Leu1128Ile,ENST00000337817,;STIL,missense_variant,p.Leu1111Ile,ENST00000396221,;STIL,missense_variant,p.Leu1129Ile,ENST00000371877,;STIL,missense_variant,p.Leu1128Ile,ENST00000360380,;STIL,missense_variant,p.Leu1128Ile,ENST00000243182,;	T	ENSG00000123473	ENST00000371877	Transcript	missense_variant	3533	3385	1129	L/I	Ctc/Atc	.	.	.	-1	STIL	HGNC	10879	protein_coding	YES	CCDS41329.1	ENSP00000360944	STIL_HUMAN	.	UPI00002042D5	.	deleterious(0)	probably_damaging(0.999)	17/17	.	hmmpanther:PTHR15128,hmmpanther:PTHR15128:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGAGTCCAT	.	5	BLCA
ZCCHC11	0	.	GRCh37	1	52991445	52991445	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508G>A	p.Asp170Asn	p.D170N	ENST00000257177	2/30	149	111	38	145	145	0	ZCCHC11,missense_variant,p.Asp170Asn,ENST00000355809,;ZCCHC11,missense_variant,p.Asp170Asn,ENST00000257177,;ZCCHC11,missense_variant,p.Asp170Asn,ENST00000371544,;ZCCHC11,missense_variant,p.Asp170Asn,ENST00000528642,;ZCCHC11,intron_variant,,ENST00000484723,;ZCCHC11,downstream_gene_variant,,ENST00000470626,;ZCCHC11,downstream_gene_variant,,ENST00000524582,;ZCCHC11,non_coding_transcript_exon_variant,,ENST00000371541,;ZCCHC11,missense_variant,p.Asp170Asn,ENST00000473856,;	T	ENSG00000134744	ENST00000257177	Transcript	missense_variant	653	508	170	D/N	Gac/Aac	.	.	.	-1	ZCCHC11	HGNC	28981	protein_coding	YES	CCDS30715.1	ENSP00000257177	TUT4_HUMAN	H0YEY0_HUMAN,E9PQS7_HUMAN,E9PJN7_HUMAN	UPI00001D7D0C	.	tolerated_low_confidence(0.3)	benign(0.087)	2/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTCTTTCA	.	5	BLCA
LRRC40	0	.	GRCh37	1	70646808	70646808	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.622G>A	p.Glu208Lys	p.E208K	ENST00000370952	5/15	43	34	8	46	46	0	LRRC40,missense_variant,p.Glu208Lys,ENST00000370952,;RN7SL242P,upstream_gene_variant,,ENST00000491451,;	T	ENSG00000066557	ENST00000370952	Transcript	missense_variant	702	622	208	E/K	Gaa/Aaa	.	.	.	-1	LRRC40	HGNC	26004	protein_coding	YES	CCDS646.1	ENSP00000359990	LRC40_HUMAN	.	UPI000004A0A0	.	tolerated(0.73)	benign(0.001)	5/15	.	Superfamily_domains:SSF52058,SMART_domains:SM00364,SMART_domains:SM00369,Pfam_domain:PF13855,Gene3D:3.80.10.10,hmmpanther:PTHR23155:SF424,hmmpanther:PTHR23155,PROSITE_profiles:PS51450,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTCATTAC	.	5	BLCA
ACADM	0	.	GRCh37	1	76215151	76215151	+	Silent	SNP	C	C	T	rs749692458	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768C>T	p.%3D	p.F256F	ENST00000420607	9/12	85	61	24	105	105	0	ACADM,synonymous_variant,p.%3D,ENST00000370841,;ACADM,synonymous_variant,p.%3D,ENST00000541113,;ACADM,synonymous_variant,p.%3D,ENST00000370834,;ACADM,synonymous_variant,p.%3D,ENST00000420607,;ACADM,synonymous_variant,p.%3D,ENST00000543667,;ACADM,upstream_gene_variant,,ENST00000481374,;ACADM,3_prime_UTR_variant,,ENST00000526129,;ACADM,3_prime_UTR_variant,,ENST00000532509,;ACADM,3_prime_UTR_variant,,ENST00000526196,;ACADM,3_prime_UTR_variant,,ENST00000525808,;ACADM,3_prime_UTR_variant,,ENST00000530953,;ACADM,3_prime_UTR_variant,,ENST00000534334,;ACADM,non_coding_transcript_exon_variant,,ENST00000532207,;ACADM,non_coding_transcript_exon_variant,,ENST00000526930,;ACADM,non_coding_transcript_exon_variant,,ENST00000529059,;ACADM,upstream_gene_variant,,ENST00000528016,;RP4-682C21.2,upstream_gene_variant,,ENST00000320606,;RP4-682C21.2,upstream_gene_variant,,ENST00000444241,;	T	ENSG00000117054	ENST00000420607	Transcript	synonymous_variant	776	768	256	F	ttC/ttT	rs749692458,COSM912148	.	.	1	ACADM	HGNC	89	protein_coding	YES	CCDS44165.1	ENSP00000409612	ACADM_HUMAN	B4DVB1_HUMAN,B4DJE7_HUMAN	UPI0000EE3287	.	.	.	9/12	.	hmmpanther:PTHR10909,hmmpanther:PTHR10909:SF240,Gene3D:2.40.110.10,Superfamily_domains:SSF56645	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F252F|c.756C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCGAAGA	byFrequency	5	BLCA
LPHN2	0	.	GRCh37	1	82445561	82445561	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2979T>G	p.Ile993Met	p.I993M	ENST00000319517	16/20	30	21	8	34	34	0	LPHN2,missense_variant,p.Ile1006Met,ENST00000370730,;LPHN2,missense_variant,p.Ile1006Met,ENST00000335786,;LPHN2,missense_variant,p.Ile993Met,ENST00000370713,;LPHN2,missense_variant,p.Ile1006Met,ENST00000370717,;LPHN2,missense_variant,p.Ile1006Met,ENST00000370727,;LPHN2,missense_variant,p.Ile1006Met,ENST00000370725,;LPHN2,missense_variant,p.Ile993Met,ENST00000319517,;LPHN2,missense_variant,p.Ile1006Met,ENST00000271029,;LPHN2,missense_variant,p.Ile1006Met,ENST00000370728,;LPHN2,missense_variant,p.Ile993Met,ENST00000359929,;LPHN2,missense_variant,p.Ile993Met,ENST00000370715,;LPHN2,missense_variant,p.Ile993Met,ENST00000370723,;LPHN2,missense_variant,p.Ile931Met,ENST00000370721,;LPHN2,missense_variant,p.Ile993Met,ENST00000394879,;LPHN2,missense_variant,p.Ile874Met,ENST00000449420,;LPHN2,upstream_gene_variant,,ENST00000402328,;LPHN2,intron_variant,,ENST00000469377,;LPHN2,upstream_gene_variant,,ENST00000472424,;LPHN2,upstream_gene_variant,,ENST00000498776,;LPHN2,upstream_gene_variant,,ENST00000464775,;	G	ENSG00000117114	ENST00000319517	Transcript	missense_variant	3195	2979	993	I/M	atT/atG	.	.	.	1	LPHN2	HGNC	18582	protein_coding	YES	CCDS689.1	ENSP00000322270	LPHN2_HUMAN	.	UPI000005046B	.	deleterious(0.02)	benign(0.065)	16/20	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011:SF61,hmmpanther:PTHR12011,Pfam_domain:PF00002,Superfamily_domains:SSF81321,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATTATCTT	.	5	BLCA
ZNF644	0	.	GRCh37	1	91404729	91404729	+	Missense_Mutation	SNP	C	C	G	rs773736700	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2182G>C	p.Glu728Gln	p.E728Q	ENST00000370440	3/6	96	82	13	107	107	0	ZNF644,missense_variant,p.Glu728Gln,ENST00000370440,;ZNF644,missense_variant,p.Glu728Gln,ENST00000337393,;ZNF644,intron_variant,,ENST00000347275,;ZNF644,intron_variant,,ENST00000361321,;ZNF644,intron_variant,,ENST00000467231,;ZNF644,downstream_gene_variant,,ENST00000498303,;ZNF644,upstream_gene_variant,,ENST00000479798,;	G	ENSG00000122482	ENST00000370440	Transcript	missense_variant	2400	2182	728	E/Q	Gaa/Caa	rs773736700,COSM913150	.	.	-1	ZNF644	HGNC	29222	protein_coding	YES	CCDS731.1	ENSP00000359469	ZN644_HUMAN	Q9NVH8_HUMAN,Q9H8J8_HUMAN,Q8NEI6_HUMAN	UPI000004A010	.	tolerated(0.34)	benign(0.014)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF180	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCTTTTG	.	5	BLCA
ZNF644	0	.	GRCh37	1	91405095	91405095	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1816G>C	p.Glu606Gln	p.E606Q	ENST00000370440	3/6	122	100	22	110	110	0	ZNF644,missense_variant,p.Glu606Gln,ENST00000370440,;ZNF644,missense_variant,p.Glu606Gln,ENST00000337393,;ZNF644,intron_variant,,ENST00000347275,;ZNF644,intron_variant,,ENST00000361321,;ZNF644,intron_variant,,ENST00000467231,;ZNF644,downstream_gene_variant,,ENST00000498303,;ZNF644,upstream_gene_variant,,ENST00000479798,;	G	ENSG00000122482	ENST00000370440	Transcript	missense_variant	2034	1816	606	E/Q	Gag/Cag	.	.	.	-1	ZNF644	HGNC	29222	protein_coding	YES	CCDS731.1	ENSP00000359469	ZN644_HUMAN	Q9NVH8_HUMAN,Q9H8J8_HUMAN,Q8NEI6_HUMAN	UPI000004A010	.	deleterious(0.03)	possibly_damaging(0.864)	3/6	.	hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF180,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTCCGTGT	.	5	BLCA
JAG1	0	.	GRCh37	20	10625521	10625521	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2334C>G	p.Ile778Met	p.I778M	ENST00000254958	18/26	72	54	18	118	118	0	JAG1,missense_variant,p.Ile619Met,ENST00000423891,;JAG1,missense_variant,p.Ile778Met,ENST00000254958,;JAG1,downstream_gene_variant,,ENST00000488480,;	C	ENSG00000101384	ENST00000254958	Transcript	missense_variant	2850	2334	778	I/M	atC/atG	.	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	deleterious(0.01)	benign(0.258)	18/26	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,PROSITE_patterns:PS00022,PROSITE_patterns:PS01186,Gene3D:2.10.25.10,SMART_domains:SM00181,SMART_domains:SM00179,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACAGATGGG	.	5	BLCA
NKX2-4	0	.	GRCh37	20	21376858	21376858	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>A	p.%3D	p.A252A	ENST00000351817	2/2	12	8	4	9	9	0	NKX2-4,synonymous_variant,p.%3D,ENST00000351817,;RP11-227D2.3,upstream_gene_variant,,ENST00000552439,;RP11-227D2.3,upstream_gene_variant,,ENST00000419666,;	T	ENSG00000125816	ENST00000351817	Transcript	synonymous_variant	1385	756	252	A	gcG/gcA	.	.	.	-1	NKX2-4	HGNC	7837	protein_coding	YES	CCDS42855.1	ENSP00000345147	NKX24_HUMAN	.	UPI00001AE6EC	.	.	.	2/2	.	hmmpanther:PTHR24340:SF25,hmmpanther:PTHR24340,Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCGCCGCCTT	.	2	BLCA
CBFA2T2	0	.	GRCh37	20	32232507	32232507	+	3'UTR	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*55G>C	.	.	ENST00000346541	12/12	20	16	4	21	21	0	CBFA2T2,3_prime_UTR_variant,,ENST00000543126,;CBFA2T2,3_prime_UTR_variant,,ENST00000397800,;CBFA2T2,3_prime_UTR_variant,,ENST00000375279,;CBFA2T2,3_prime_UTR_variant,,ENST00000346541,;CBFA2T2,3_prime_UTR_variant,,ENST00000342704,;CBFA2T2,3_prime_UTR_variant,,ENST00000492345,;CBFA2T2,3_prime_UTR_variant,,ENST00000359606,;	C	ENSG00000078699	ENST00000346541	Transcript	3_prime_UTR_variant	2407	.	.	.	.	.	.	.	1	CBFA2T2	HGNC	1536	protein_coding	YES	CCDS13221.1	ENSP00000262653	MTG8R_HUMAN	Q68DC6_HUMAN,D1LYX4_HUMAN,B4DFM9_HUMAN,A2A2D9_HUMAN	UPI0000073E07	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGCTGAGGGA	.	4	BLCA
TRPC4AP	0	.	GRCh37	20	33595366	33595366	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1673G>A	p.Arg558Gln	p.R558Q	ENST00000252015	14/19	29	22	7	41	41	0	TRPC4AP,missense_variant,p.Arg160Gln,ENST00000539834,;TRPC4AP,missense_variant,p.Arg550Gln,ENST00000451813,;TRPC4AP,missense_variant,p.Arg558Gln,ENST00000252015,;TRPC4AP,missense_variant,p.Arg519Gln,ENST00000432634,;	T	ENSG00000100991	ENST00000252015	Transcript	missense_variant	1763	1673	558	R/Q	cGa/cAa	.	.	.	-1	TRPC4AP	HGNC	16181	protein_coding	YES	CCDS13246.1	ENSP00000252015	TP4AP_HUMAN	.	UPI000004FADD	.	deleterious(0.01)	probably_damaging(0.991)	14/19	.	hmmpanther:PTHR31743,hmmpanther:PTHR31743:SF1,Pfam_domain:PF12463,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCGCTTC	.	5	BLCA
CEP250	0	.	GRCh37	20	34060495	34060495	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1051-3C>T	.	.	ENST00000397527	.	66	44	22	77	77	0	CEP250,splice_region_variant,,ENST00000425934,;CEP250,splice_region_variant,,ENST00000342580,;CEP250,splice_region_variant,,ENST00000397527,;CEP250,downstream_gene_variant,,ENST00000397524,;CEP250,upstream_gene_variant,,ENST00000425096,;RP3-477O4.14,downstream_gene_variant,,ENST00000416260,;RP3-477O4.14,downstream_gene_variant,,ENST00000444933,;RP3-477O4.14,downstream_gene_variant,,ENST00000453914,;CEP250,splice_region_variant,,ENST00000461386,;CEP250,splice_region_variant,,ENST00000474829,;	T	ENSG00000126001	ENST00000397527	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CEP250	HGNC	1859	protein_coding	YES	CCDS13255.1	ENSP00000380661	CP250_HUMAN	Q5JWS6_HUMAN,Q5JWS5_HUMAN,G1UI40_HUMAN	UPI000006FE8F	.	.	.	.	11/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCAGGTC	.	4	BLCA
SLA2	0	.	GRCh37	20	35242756	35242757	+	Frame_Shift_Ins	INS	-	-	GG	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.615_616dupCC	p.Leu206ProfsTer4	p.L206Pfs*4	ENST00000262866	7/8	122	103	19	125	125	0	SLA2,frameshift_variant,p.Thr190LeufsTer57,ENST00000360672,;SLA2,frameshift_variant,p.Leu206ProfsTer4,ENST00000262866,;C20orf24,downstream_gene_variant,,ENST00000344795,;TGIF2-C20orf24,downstream_gene_variant,,ENST00000558530,;C20orf24,downstream_gene_variant,,ENST00000373852,;C20orf24,downstream_gene_variant,,ENST00000342422,;C20orf24,downstream_gene_variant,,ENST00000494506,;C20orf24,downstream_gene_variant,,ENST00000492721,;C20orf24,downstream_gene_variant,,ENST00000483815,;	GG	ENSG00000101082	ENST00000262866	Transcript	frameshift_variant	1039-1040	616-617	206	L/PX	cta/cCCta	.	.	.	-1	SLA2	HGNC	17329	protein_coding	YES	CCDS13282.1	ENSP00000262866	SLAP2_HUMAN	.	UPI000004B142	.	.	.	7/8	.	hmmpanther:PTHR22820,hmmpanther:PTHR22820:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGGTAGGGGT	.	3	BLCA
SOGA1	0	.	GRCh37	20	35444668	35444668	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1177G>C	p.Glu393Gln	p.E393Q	ENST00000237536	5/15	46	39	6	69	69	0	SOGA1,missense_variant,p.Glu393Gln,ENST00000237536,;SOGA1,missense_variant,p.Glu155Gln,ENST00000279034,;SOGA1,missense_variant,p.Glu155Gln,ENST00000357779,;SOGA1,5_prime_UTR_variant,,ENST00000456801,;SOGA1,missense_variant,p.Glu7Gln,ENST00000465671,;	G	ENSG00000149639	ENST00000237536	Transcript	missense_variant	1519	1177	393	E/Q	Gag/Cag	.	.	.	-1	SOGA1	HGNC	16111	protein_coding	YES	CCDS54459.1	ENSP00000237536	SOGA1_HUMAN	I3L0I1_HUMAN,F2FB34_HUMAN	UPI0000E5A319	.	deleterious(0)	probably_damaging(0.999)	5/15	.	hmmpanther:PTHR15742:SF1,hmmpanther:PTHR15742,Pfam_domain:PF11365	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCCTTTG	.	5	BLCA
TOP1	0	.	GRCh37	20	39721171	39721171	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674C>T	p.Pro225Leu	p.P225L	ENST00000361337	9/21	56	43	13	81	81	0	TOP1,missense_variant,p.Pro225Leu,ENST00000361337,;	T	ENSG00000198900	ENST00000361337	Transcript	missense_variant	924	674	225	P/L	cCa/cTa	.	.	.	1	TOP1	HGNC	11986	protein_coding	YES	CCDS13312.1	ENSP00000354522	TOP1_HUMAN	Q9BVT2_HUMAN	UPI000004F0B1	.	deleterious(0.01)	probably_damaging(1)	9/21	.	hmmpanther:PTHR10290,hmmpanther:PTHR10290:SF1,Pfam_domain:PF02919,Gene3D:2.170.11.10,Superfamily_domains:SSF56741	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTCCAGTAT	.	5	BLCA
SYCP2	0	.	GRCh37	20	58482421	58482421	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1031A>T	p.Glu344Val	p.E344V	ENST00000357552	15/45	24	16	8	19	19	0	SYCP2,missense_variant,p.Glu344Val,ENST00000446834,;SYCP2,missense_variant,p.Glu344Val,ENST00000357552,;SYCP2,missense_variant,p.Glu344Val,ENST00000371001,;SYCP2,downstream_gene_variant,,ENST00000471331,;SYCP2,splice_region_variant,,ENST00000461538,;	A	ENSG00000196074	ENST00000357552	Transcript	missense_variant	1257	1031	344	E/V	gAa/gTa	.	.	.	-1	SYCP2	HGNC	11490	protein_coding	YES	CCDS13482.1	ENSP00000350162	SYCP2_HUMAN	A2A341_HUMAN	UPI0000135683	.	deleterious(0)	probably_damaging(0.999)	15/45	.	hmmpanther:PTHR15607,hmmpanther:PTHR15607:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTTCAATG	.	5	BLCA
SYCP2	0	.	GRCh37	20	58482422	58482422	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1030G>T	p.Glu344Ter	p.E344*	ENST00000357552	15/45	24	16	8	19	19	0	SYCP2,stop_gained,p.Glu344Ter,ENST00000446834,;SYCP2,stop_gained,p.Glu344Ter,ENST00000357552,;SYCP2,stop_gained,p.Glu344Ter,ENST00000371001,;SYCP2,downstream_gene_variant,,ENST00000471331,;SYCP2,non_coding_transcript_exon_variant,,ENST00000461538,;	A	ENSG00000196074	ENST00000357552	Transcript	stop_gained	1256	1030	344	E/*	Gaa/Taa	.	.	.	-1	SYCP2	HGNC	11490	protein_coding	YES	CCDS13482.1	ENSP00000350162	SYCP2_HUMAN	A2A341_HUMAN	UPI0000135683	.	.	.	15/45	.	hmmpanther:PTHR15607,hmmpanther:PTHR15607:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCAATGC	.	5	BLCA
DOPEY2	0	.	GRCh37	21	37618360	37618360	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4082C>G	p.Ser1361Ter	p.S1361*	ENST00000399151	19/37	49	36	13	61	61	0	DOPEY2,stop_gained,p.Ser1361Ter,ENST00000399151,;DOPEY2,upstream_gene_variant,,ENST00000463668,;	G	ENSG00000142197	ENST00000399151	Transcript	stop_gained	4167	4082	1361	S/*	tCa/tGa	.	.	.	1	DOPEY2	HGNC	1291	protein_coding	YES	CCDS13643.1	ENSP00000382104	DOP2_HUMAN	F8W8U9_HUMAN	UPI000013D876	.	.	.	19/37	.	hmmpanther:PTHR14042:SF23,hmmpanther:PTHR14042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCAGTGG	.	5	BLCA
HLCS	0	.	GRCh37	21	38309113	38309113	+	Missense_Mutation	SNP	G	G	A	rs142524025	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632C>T	p.Thr211Met	p.T211M	ENST00000399120	5/12	38	32	6	41	41	0	HLCS,missense_variant,p.Thr211Met,ENST00000399120,;HLCS,missense_variant,p.Thr211Met,ENST00000336648,;HLCS,downstream_gene_variant,,ENST00000427746,;HLCS,downstream_gene_variant,,ENST00000419461,;HLCS,downstream_gene_variant,,ENST00000448340,;	A	ENSG00000159267	ENST00000399120	Transcript	missense_variant	1863	632	211	T/M	aCg/aTg	rs142524025	.	.	-1	HLCS	HGNC	4976	protein_coding	YES	CCDS13647.1	ENSP00000382071	BPL1_HUMAN	C9JD75_HUMAN,C9JCQ9_HUMAN	UPI0000126A8C	.	tolerated(0.09)	benign(0.125)	5/12	.	hmmpanther:PTHR12835,hmmpanther:PTHR12835:SF6	.	.	.	.	.	.	.	A:0	A:0.0003	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCCGTCCAC	byCluster	4	BLCA
TTC3	0	.	GRCh37	21	38522391	38522391	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2132G>A	p.Gly711Glu	p.G711E	ENST00000399017	24/46	79	64	15	73	73	0	TTC3,missense_variant,p.Gly693Glu,ENST00000438055,;TTC3,missense_variant,p.Gly711Glu,ENST00000418766,;TTC3,missense_variant,p.Gly401Glu,ENST00000540756,;TTC3,missense_variant,p.Gly711Glu,ENST00000354749,;TTC3,missense_variant,p.Gly75Glu,ENST00000414818,;TTC3,missense_variant,p.Gly711Glu,ENST00000355666,;TTC3,missense_variant,p.Gly711Glu,ENST00000450533,;TTC3,missense_variant,p.Gly711Glu,ENST00000399017,;TTC3,upstream_gene_variant,,ENST00000411496,;TTC3,non_coding_transcript_exon_variant,,ENST00000479930,;TTC3,non_coding_transcript_exon_variant,,ENST00000481605,;TTC3,non_coding_transcript_exon_variant,,ENST00000485402,;TTC3,upstream_gene_variant,,ENST00000487711,;TTC3,non_coding_transcript_exon_variant,,ENST00000476784,;	A	ENSG00000182670	ENST00000399017	Transcript	missense_variant	4879	2132	711	G/E	gGa/gAa	.	.	.	1	TTC3	HGNC	12393	protein_coding	YES	CCDS13651.1	ENSP00000381981	TTC3_HUMAN	E9PMS7_HUMAN,E9PMP8_HUMAN	UPI00001B043E	.	tolerated(1)	benign(0.069)	24/46	.	hmmpanther:PTHR17550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAAGGAATAT	.	5	BLCA
MX1	0	.	GRCh37	21	42824625	42824625	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1587G>C	p.Gln529His	p.Q529H	ENST00000398600	18/19	81	68	12	100	100	0	MX1,missense_variant,p.Gln529His,ENST00000398600,;MX1,missense_variant,p.Gln506His,ENST00000288383,;MX1,missense_variant,p.Gln529His,ENST00000398598,;MX1,missense_variant,p.Gln529His,ENST00000455164,;MX1,non_coding_transcript_exon_variant,,ENST00000491110,;MX1,downstream_gene_variant,,ENST00000486275,;	C	ENSG00000157601	ENST00000398600	Transcript	missense_variant	2612	1587	529	Q/H	caG/caC	.	.	.	1	MX1	HGNC	7532	protein_coding	YES	CCDS13673.1	ENSP00000381601	MX1_HUMAN	H9KVD3_HUMAN,H9KVD0_HUMAN,H9KVC9_HUMAN,H9KVC7_HUMAN,H9KVC4_HUMAN,H9KVC3_HUMAN	UPI0000206F16	.	deleterious(0.05)	benign(0.286)	18/19	.	hmmpanther:PTHR11566:SF51,hmmpanther:PTHR11566,Pfam_domain:PF01031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACAGATTGT	.	5	BLCA
XKR3	0	.	GRCh37	22	17288968	17288969	+	5'UTR	INS	-	-	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6_-5insA	.	.	ENST00000331428	2/4	50	44	6	53	53	0	XKR3,5_prime_UTR_variant,,ENST00000331428,;	T	ENSG00000172967	ENST00000331428	Transcript	5_prime_UTR_variant	98-99	.	.	.	.	.	.	.	-1	XKR3	HGNC	28778	protein_coding	YES	CCDS42975.1	ENSP00000331704	XKR3_HUMAN	.	UPI000013EFAE	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCTCAGGGTG	.	3	BLCA
MTMR3	0	.	GRCh37	22	30374437	30374437	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10G>C	p.Glu4Gln	p.E4Q	ENST00000401950	4/20	56	42	13	49	49	0	MTMR3,missense_variant,p.Glu4Gln,ENST00000445401,;MTMR3,missense_variant,p.Glu4Gln,ENST00000406629,;MTMR3,missense_variant,p.Glu4Gln,ENST00000333027,;MTMR3,missense_variant,p.Glu4Gln,ENST00000351488,;MTMR3,missense_variant,p.Glu4Gln,ENST00000401950,;MTMR3,5_prime_UTR_variant,,ENST00000323630,;MTMR3,non_coding_transcript_exon_variant,,ENST00000415511,;MTMR3,non_coding_transcript_exon_variant,,ENST00000495098,;MTMR3,non_coding_transcript_exon_variant,,ENST00000480776,;	C	ENSG00000100330	ENST00000401950	Transcript	missense_variant	352	10	4	E/Q	Gag/Cag	.	.	.	1	MTMR3	HGNC	7451	protein_coding	YES	CCDS13870.1	ENSP00000384651	MTMR3_HUMAN	Q9UPM2_HUMAN,G5E953_HUMAN,C9JLU3_HUMAN	UPI0000073EF2	.	deleterious(0)	probably_damaging(0.999)	4/20	.	hmmpanther:PTHR10807:SF66,hmmpanther:PTHR10807	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGAAGAGACT	.	5	BLCA
EIF4ENIF1	0	.	GRCh37	22	31837807	31837807	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2504T>G	p.Leu835Arg	p.L835R	ENST00000397525	17/19	25	16	9	18	18	0	EIF4ENIF1,missense_variant,p.Leu490Arg,ENST00000382180,;EIF4ENIF1,missense_variant,p.Leu661Arg,ENST00000344710,;EIF4ENIF1,missense_variant,p.Leu835Arg,ENST00000397525,;EIF4ENIF1,missense_variant,p.Leu811Arg,ENST00000397523,;EIF4ENIF1,missense_variant,p.Leu835Arg,ENST00000330125,;EIF4ENIF1,downstream_gene_variant,,ENST00000418321,;EIF4ENIF1,upstream_gene_variant,,ENST00000441289,;EIF4ENIF1,3_prime_UTR_variant,,ENST00000445424,;EIF4ENIF1,non_coding_transcript_exon_variant,,ENST00000495101,;DRG1,intron_variant,,ENST00000548143,;EIF4ENIF1,downstream_gene_variant,,ENST00000475437,;EIF4ENIF1,downstream_gene_variant,,ENST00000487671,;	C	ENSG00000184708	ENST00000397525	Transcript	missense_variant	2728	2504	835	L/R	cTg/cGg	.	.	.	-1	EIF4ENIF1	HGNC	16687	protein_coding	YES	CCDS13898.1	ENSP00000380659	4ET_HUMAN	B1AKL6_HUMAN,B1AKL5_HUMAN	UPI0000124F14	.	deleterious(0)	benign(0.17)	17/19	.	hmmpanther:PTHR12269	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	GGGCCAGCATC	.	4	BLCA
CACNG2	0	.	GRCh37	22	37098448	37098448	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174G>C	p.Met58Ile	p.M58I	ENST00000300105	1/4	94	75	18	98	98	0	CACNG2,missense_variant,p.Met58Ile,ENST00000300105,;RP1-293L6.1,upstream_gene_variant,,ENST00000430281,;	G	ENSG00000166862	ENST00000300105	Transcript	missense_variant	1156	174	58	M/I	atG/atC	.	.	.	-1	CACNG2	HGNC	1406	protein_coding	YES	CCDS13931.1	ENSP00000300105	CCG2_HUMAN	.	UPI00001272AC	.	deleterious(0.02)	benign(0.234)	1/4	.	hmmpanther:PTHR12107:SF1,hmmpanther:PTHR12107,Pfam_domain:PF00822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGTCATAAC	.	5	BLCA
TNRC6B	0	.	GRCh37	22	40697304	40697304	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4087C>G	p.Gln1363Glu	p.Q1363E	ENST00000454349	15/23	11	7	3	17	17	0	TNRC6B,missense_variant,p.Gln1363Glu,ENST00000454349,;TNRC6B,missense_variant,p.Gln1049Glu,ENST00000446273,;TNRC6B,missense_variant,p.Gln559Glu,ENST00000402203,;TNRC6B,missense_variant,p.Gln559Glu,ENST00000301923,;TNRC6B,missense_variant,p.Gln1253Glu,ENST00000335727,;TNRC6B,downstream_gene_variant,,ENST00000497559,;TNRC6B,non_coding_transcript_exon_variant,,ENST00000467658,;	G	ENSG00000100354	ENST00000454349	Transcript	missense_variant	4298	4087	1363	Q/E	Caa/Gaa	.	.	.	1	TNRC6B	HGNC	29190	protein_coding	YES	CCDS54533.1	ENSP00000401946	TNR6B_HUMAN	.	UPI00017A6F19	.	deleterious(0)	benign(0.062)	15/23	.	hmmpanther:PTHR13020,hmmpanther:PTHR13020:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCTTCAAACC	.	3	BLCA
ACO2	0	.	GRCh37	22	41895736	41895736	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43C>G	p.Leu15Val	p.L15V	ENST00000216254	2/18	211	164	47	219	219	0	ACO2,missense_variant,p.Leu15Val,ENST00000216254,;ACO2,missense_variant,p.Leu15Val,ENST00000396512,;ACO2,intron_variant,,ENST00000471094,;	G	ENSG00000100412	ENST00000216254	Transcript	missense_variant	65	43	15	L/V	Ctg/Gtg	.	.	.	1	ACO2	HGNC	118	protein_coding	YES	CCDS14017.1	ENSP00000216254	ACON_HUMAN	B4DZ08_HUMAN,B4DEC3_HUMAN	UPI000003CA3B	.	tolerated_low_confidence(0.09)	benign(0.049)	2/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTCTGGGT	.	5	BLCA
PACSIN2	0	.	GRCh37	22	43267410	43267410	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1414G>A	p.Gly472Arg	p.G472R	ENST00000263246	11/11	30	23	7	47	47	0	PACSIN2,missense_variant,p.Gly472Arg,ENST00000263246,;PACSIN2,missense_variant,p.Gly472Arg,ENST00000403744,;PACSIN2,missense_variant,p.Gly472Arg,ENST00000402229,;PACSIN2,missense_variant,p.Gly431Arg,ENST00000337959,;PACSIN2,missense_variant,p.Gly431Arg,ENST00000407585,;PACSIN2,intron_variant,,ENST00000507586,;	T	ENSG00000100266	ENST00000263246	Transcript	missense_variant	1616	1414	472	G/R	Ggg/Agg	.	.	.	-1	PACSIN2	HGNC	8571	protein_coding	YES	CCDS43023.1	ENSP00000263246	PACN2_HUMAN	B0QYG9_HUMAN,B0QYG7_HUMAN	UPI00001311CA	.	deleterious(0.01)	probably_damaging(1)	11/11	.	PROSITE_profiles:PS50002,hmmpanther:PTHR10959:SF2,hmmpanther:PTHR10959,Gene3D:2.30.30.40,Pfam_domain:PF14604,SMART_domains:SM00326,Superfamily_domains:SSF50044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCCCGTTGT	.	5	BLCA
EFCAB6	0	.	GRCh37	22	44112839	44112839	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.771G>A	p.%3D	p.E257E	ENST00000262726	9/32	68	49	18	37	37	0	EFCAB6,synonymous_variant,p.%3D,ENST00000262726,;EFCAB6,synonymous_variant,p.%3D,ENST00000358439,;EFCAB6,synonymous_variant,p.%3D,ENST00000356087,;EFCAB6,synonymous_variant,p.%3D,ENST00000396231,;EFCAB6,non_coding_transcript_exon_variant,,ENST00000404038,;	T	ENSG00000186976	ENST00000262726	Transcript	synonymous_variant	1025	771	257	E	gaG/gaA	COSM1034905	.	.	-1	EFCAB6	HGNC	24204	protein_coding	YES	CCDS14049.1	ENSP00000262726	EFCB6_HUMAN	.	UPI0000225CD7	.	.	.	9/32	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATTCTCCAA	.	5	BLCA
ARHGEF4	0	.	GRCh37	2	131802939	131802939	+	Intron	SNP	C	C	G	rs776450332	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1844-3C>G	.	.	ENST00000326016	.	16	12	4	25	25	0	ARHGEF4,splice_region_variant,,ENST00000326016,;ARHGEF4,splice_region_variant,,ENST00000355771,;ARHGEF4,splice_region_variant,,ENST00000392953,;ARHGEF4,splice_region_variant,,ENST00000532720,;ARHGEF4,splice_region_variant,,ENST00000525839,;ARHGEF4,splice_region_variant,,ENST00000409303,;ARHGEF4,intron_variant,,ENST00000428230,;ARHGEF4,intron_variant,,ENST00000438985,;FAM168B,downstream_gene_variant,,ENST00000409185,;ARHGEF4,downstream_gene_variant,,ENST00000528247,;ARHGEF4,downstream_gene_variant,,ENST00000439368,;ARHGEF4,splice_region_variant,,ENST00000490728,;ARHGEF4,downstream_gene_variant,,ENST00000527365,;ARHGEF4,downstream_gene_variant,,ENST00000525092,;	G	ENSG00000136002	ENST00000326016	Transcript	splice_region_variant	.	.	.	.	.	rs776450332	.	.	1	ARHGEF4	HGNC	684	protein_coding	YES	CCDS2165.1	ENSP00000316845	ARHG4_HUMAN	Q9NTG0_HUMAN,Q53TH6_HUMAN,Q53QF2_HUMAN	UPI00001417F6	.	.	.	.	12/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE	TTCCTCAGGCT	.	3	BLCA
UBXN4	0	.	GRCh37	2	136499499	136499499	+	5'UTR	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>T	.	.	ENST00000272638	1/13	13	8	5	16	16	0	UBXN4,5_prime_UTR_variant,,ENST00000272638,;UBXN4,5_prime_UTR_variant,,ENST00000415164,;UBXN4,upstream_gene_variant,,ENST00000467065,;UBXN4,5_prime_UTR_variant,,ENST00000426921,;UBXN4,5_prime_UTR_variant,,ENST00000416538,;	T	ENSG00000144224	ENST00000272638	Transcript	5_prime_UTR_variant	311	.	.	.	.	.	.	.	1	UBXN4	HGNC	14860	protein_coding	YES	CCDS42761.1	ENSP00000272638	UBXN4_HUMAN	B3KTD5_HUMAN	UPI0000074226	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGCGATGCT	.	5	BLCA
STK39	0	.	GRCh37	2	169023827	169023827	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412A>T	p.Met138Leu	p.M138L	ENST00000355999	3/18	45	39	5	37	37	0	STK39,missense_variant,p.Met138Leu,ENST00000355999,;	A	ENSG00000198648	ENST00000355999	Transcript	missense_variant	1118	412	138	M/L	Atg/Ttg	COSM3569577,COSM3569576	.	.	-1	STK39	HGNC	17717	protein_coding	YES	CCDS42770.1	ENSP00000348278	STK39_HUMAN	.	UPI000013D46D	.	tolerated(0.16)	possibly_damaging(0.844)	3/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF201,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCATGACCA	.	4	BLCA
NFE2L2	0	.	GRCh37	2	178098945	178098956	+	In_Frame_Del	DEL	GACTTACTCCAA	GACTTACTCCAA	-	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	GACTTACTCCAA	GACTTACTCCAA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89_100delTTGGAGTAAGTC	p.Leu30_Ser33del	p.L30_S33del	ENST00000397062	2/5	43	31	12	43	43	0	NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000449627,;NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000423513,;NFE2L2,inframe_deletion,p.Leu30_Ser33del,ENST00000397062,;NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000446151,;NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000588123,;NFE2L2,inframe_deletion,p.Leu29_Ser32del,ENST00000586532,;NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000421929,;NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000464747,;NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000448782,;NFE2L2,inframe_deletion,p.Leu14_Ser17del,ENST00000397063,;NFE2L2,intron_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	-	ENSG00000116044	ENST00000397062	Transcript	inframe_deletion	644-655	89-100	30-34	LGVSR/R	cTTGGAGTAAGTCga/cga	.	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	.	.	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R34P|c.101G>C|3,CODON|p.R34Q|c.101G>A|11,CODON|p.R34G|c.100C>G|11,CODON|p.G31E|c.92G>A|5,CODON|p.G31A|c.92G>C|7,BUFFER|p.L30R|c.89T>G|7,BUFFER|p.L30F|c.88C>T|6,BUFFER|p.D29G|c.86A>G|11,BUFFER|p.D29H|c.85G>C|12,BUFFER|p.D29N|c.85G>A|3,BUFFER|p.D29Y|c.85G>T|4,BUFFER|p.D27G|c.80A>G|3	INDELOCATOR*|VARSCANI*|PINDEL	CTTCTCGACTTACTCCAAGATCT	.	3	BLCA
TTN	0	.	GRCh37	2	179566962	179566962	+	Silent	SNP	C	C	A	rs367901929	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30444G>T	p.%3D	p.S10148S	ENST00000589042	108/363	39	28	10	34	34	0	TTN,synonymous_variant,p.%3D,ENST00000414766,;TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000431752,;TTN-AS1,intron_variant,,ENST00000589830,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	30669	30444	10148	S	tcG/tcT	rs367901929,COSM1133604,COSM1645620	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	108/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0	T:0.0001	likely_benign	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACCGAGTA	byCluster|by1000G	5	BLCA
TTN	0	.	GRCh37	2	179577827	179577827	+	Missense_Mutation	SNP	G	G	T	rs765386562	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27034C>A	p.Pro9012Thr	p.P9012T	ENST00000589042	93/363	31	23	7	31	31	0	TTN,missense_variant,p.Pro7768Thr,ENST00000342992,;TTN,missense_variant,p.Pro9012Thr,ENST00000589042,;TTN,missense_variant,p.Pro8695Thr,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000431752,;TTN-AS1,intron_variant,,ENST00000589830,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	27259	27034	9012	P/T	Cct/Act	rs765386562	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	93/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAAGGAGCAC	.	5	BLCA
CWC22	0	.	GRCh37	2	180819034	180819034	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1587C>T	p.%3D	p.F529F	ENST00000410053	16/20	22	16	6	23	23	0	CWC22,synonymous_variant,p.%3D,ENST00000404136,;CWC22,synonymous_variant,p.%3D,ENST00000410053,;CWC22,synonymous_variant,p.%3D,ENST00000295749,;	A	ENSG00000163510	ENST00000410053	Transcript	synonymous_variant	1887	1587	529	F	ttC/ttT	.	.	.	-1	CWC22	HGNC	29322	protein_coding	YES	CCDS46465.1	ENSP00000387006	CWC22_HUMAN	B7WP74_HUMAN	UPI00001C1DAE	.	.	.	16/20	.	PROSITE_profiles:PS51366,hmmpanther:PTHR18034:SF3,hmmpanther:PTHR18034,Pfam_domain:PF02847,SMART_domains:SM00544	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTGAATAT	.	5	BLCA
PDE1A	0	.	GRCh37	2	183291395	183291395	+	Intron	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.101+95608G>T	.	.	ENST00000435564	.	35	32	3	55	55	0	PDE1A,5_prime_UTR_variant,,ENST00000351439,;PDE1A,5_prime_UTR_variant,,ENST00000409365,;PDE1A,intron_variant,,ENST00000456212,;PDE1A,intron_variant,,ENST00000331935,;PDE1A,intron_variant,,ENST00000410103,;PDE1A,intron_variant,,ENST00000358139,;PDE1A,intron_variant,,ENST00000435564,;PDE1A,intron_variant,,ENST00000536095,;PDE1A,intron_variant,,ENST00000462938,;PDE1A,intron_variant,,ENST00000482782,;PDE1A,intron_variant,,ENST00000495511,;	A	ENSG00000115252	ENST00000435564	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PDE1A	HGNC	8774	protein_coding	YES	CCDS2285.1	ENSP00000410309	PDE1A_HUMAN	Q9Y633_HUMAN,Q9Y246_HUMAN,Q9UNL9_HUMAN,Q53TB0_HUMAN,Q53T15_HUMAN,B7Z3A7_HUMAN	UPI0000001072	.	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCACTCCAGAA	.	3	BLCA
ZNF804A	0	.	GRCh37	2	185802325	185802325	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2202G>A	p.%3D	p.Q734Q	ENST00000302277	4/4	56	42	14	41	41	0	ZNF804A,synonymous_variant,p.%3D,ENST00000302277,;	A	ENSG00000170396	ENST00000302277	Transcript	synonymous_variant	2796	2202	734	Q	caG/caA	.	.	.	1	ZNF804A	HGNC	21711	protein_coding	YES	CCDS2291.1	ENSP00000303252	Z804A_HUMAN	.	UPI00001B4B18	.	.	.	4/4	.	hmmpanther:PTHR17614:SF13,hmmpanther:PTHR17614	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCAGGATCA	.	5	BLCA
PMS1	0	.	GRCh37	2	190728613	190728613	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2001G>T	p.Lys667Asn	p.K667N	ENST00000441310	10/13	88	69	19	98	98	0	PMS1,missense_variant,p.Lys606Asn,ENST00000424307,;PMS1,missense_variant,p.Lys667Asn,ENST00000441310,;PMS1,missense_variant,p.Lys55Asn,ENST00000452382,;PMS1,missense_variant,p.Lys491Asn,ENST00000432292,;PMS1,missense_variant,p.Lys628Asn,ENST00000409823,;PMS1,missense_variant,p.Lys491Asn,ENST00000418224,;PMS1,intron_variant,,ENST00000447232,;PMS1,intron_variant,,ENST00000409593,;PMS1,non_coding_transcript_exon_variant,,ENST00000424059,;PMS1,non_coding_transcript_exon_variant,,ENST00000421722,;PMS1,non_coding_transcript_exon_variant,,ENST00000483293,;PMS1,missense_variant,p.Lys628Asn,ENST00000450931,;PMS1,3_prime_UTR_variant,,ENST00000342075,;	T	ENSG00000064933	ENST00000441310	Transcript	missense_variant	2234	2001	667	K/N	aaG/aaT	.	.	.	1	PMS1	HGNC	9121	protein_coding	YES	CCDS2302.1	ENSP00000406490	PMS1_HUMAN	Q5FBZ2_HUMAN,C9JKP0_HUMAN,C9JF76_HUMAN,C9J4L1_HUMAN,B7ZAA0_HUMAN	UPI00000405F5	.	deleterious(0.02)	probably_damaging(0.984)	10/13	.	hmmpanther:PTHR10073,hmmpanther:PTHR10073:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAAGTTAAA	.	5	BLCA
DNAH7	0	.	GRCh37	2	196852856	196852857	+	Frame_Shift_Del	DEL	CT	CT	-	rs756123132	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	CT	CT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1450_1451delAG	p.Ser484CysfsTer5	p.S484Cfs*5	ENST00000312428	13/65	47	41	6	62	62	0	DNAH7,frameshift_variant,p.Ser484CysfsTer5,ENST00000312428,;	-	ENSG00000118997	ENST00000312428	Transcript	frameshift_variant	1551-1552	1450-1451	484	S/X	AGt/t	rs756123132	.	.	-1	DNAH7	HGNC	18661	protein_coding	YES	CCDS42794.1	ENSP00000311273	DYH7_HUMAN	C9JUY3_HUMAN	UPI0000141B95	.	.	.	13/65	.	hmmpanther:PTHR10676:SF138,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCCACACTCTCTT	byFrequency	3	BLCA
CPO	0	.	GRCh37	2	207824402	207824402	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420G>C	p.Arg140Ser	p.R140S	ENST00000272852	5/9	48	40	7	61	61	0	CPO,missense_variant,p.Arg140Ser,ENST00000272852,;	C	ENSG00000144410	ENST00000272852	Transcript	missense_variant	466	420	140	R/S	agG/agC	.	.	.	1	CPO	HGNC	21011	protein_coding	YES	CCDS2372.1	ENSP00000272852	CBPO_HUMAN	.	UPI0000047AEF	.	tolerated(0.11)	benign(0.014)	5/9	.	Superfamily_domains:SSF53187,SMART_domains:SM00631,Pfam_domain:PF00246,Gene3D:3.40.630.10,hmmpanther:PTHR11705,hmmpanther:PTHR11705:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTAGGAACCT	.	5	BLCA
SMARCAL1	0	.	GRCh37	2	217279962	217279962	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.535C>T	p.His179Tyr	p.H179Y	ENST00000357276	3/18	46	41	4	59	59	0	SMARCAL1,missense_variant,p.His179Tyr,ENST00000357276,;SMARCAL1,missense_variant,p.His179Tyr,ENST00000358207,;SMARCAL1,missense_variant,p.His78Tyr,ENST00000427645,;SMARCAL1,missense_variant,p.His43Tyr,ENST00000392128,;SMARCAL1,downstream_gene_variant,,ENST00000425815,;SMARCAL1,downstream_gene_variant,,ENST00000434435,;SMARCAL1,upstream_gene_variant,,ENST00000412913,;SMARCAL1,downstream_gene_variant,,ENST00000444508,;SMARCAL1,downstream_gene_variant,,ENST00000430374,;AC098820.2,upstream_gene_variant,,ENST00000457694,;SMARCAL1,downstream_gene_variant,,ENST00000496037,;	T	ENSG00000138375	ENST00000357276	Transcript	missense_variant	865	535	179	H/Y	Cat/Tat	.	.	.	1	SMARCAL1	HGNC	11102	protein_coding	YES	CCDS2403.1	ENSP00000349823	SMAL1_HUMAN	C9JP32_HUMAN,C9JHQ1_HUMAN,C9J8F8_HUMAN,C9J6I8_HUMAN	UPI000000DA30	.	tolerated(0.37)	benign(0.002)	3/18	.	hmmpanther:PTHR10799:SF571,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCATTCC	.	4	BLCA
ARPC2	0	.	GRCh37	2	219114619	219114619	+	Nonsense_Mutation	SNP	G	G	T	rs757612121	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>T	p.Glu285Ter	p.E285*	ENST00000295685	9/10	13	9	4	18	18	0	ARPC2,stop_gained,p.Glu285Ter,ENST00000315717,;ARPC2,stop_gained,p.Glu285Ter,ENST00000295685,;ARPC2,stop_gained,p.Glu100Ter,ENST00000456575,;ARPC2,non_coding_transcript_exon_variant,,ENST00000487321,;ARPC2,non_coding_transcript_exon_variant,,ENST00000477992,;ARPC2,downstream_gene_variant,,ENST00000478612,;ARPC2,non_coding_transcript_exon_variant,,ENST00000470146,;	T	ENSG00000163466	ENST00000295685	Transcript	stop_gained	1114	853	285	E/*	Gag/Tag	rs757612121,COSM3938914	.	.	1	ARPC2	HGNC	705	protein_coding	YES	CCDS2410.1	ENSP00000295685	ARPC2_HUMAN	Q53R19_HUMAN,C9JTV5_HUMAN	UPI0000125D3D	.	.	.	9/10	.	hmmpanther:PTHR12058,Pfam_domain:PF04045	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGCCGAGAAA	byFrequency	3	BLCA
PAX3	0	.	GRCh37	2	223086084	223086084	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.815C>A	p.Ala272Glu	p.A272E	ENST00000392069	6/10	108	83	25	117	117	0	PAX3,missense_variant,p.Ala272Glu,ENST00000392070,;PAX3,missense_variant,p.Ala272Glu,ENST00000336840,;PAX3,missense_variant,p.Ala272Glu,ENST00000392069,;PAX3,missense_variant,p.Ala272Glu,ENST00000344493,;PAX3,missense_variant,p.Ala271Glu,ENST00000409551,;PAX3,missense_variant,p.Ala272Glu,ENST00000350526,;PAX3,non_coding_transcript_exon_variant,,ENST00000464706,;PAX3,non_coding_transcript_exon_variant,,ENST00000555548,;	T	ENSG00000135903	ENST00000392069	Transcript	missense_variant	1181	815	272	A/E	gCa/gAa	.	.	.	-1	PAX3	HGNC	8617	protein_coding	YES	CCDS2448.1	ENSP00000375921	PAX3_HUMAN	.	UPI00001A8BF0	.	deleterious(0.01)	benign(0.057)	6/10	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24329:SF307,hmmpanther:PTHR24329,PROSITE_patterns:PS00027,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGCACGG	.	5	BLCA
TRIP12	0	.	GRCh37	2	230656916	230656916	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3943G>T	p.Glu1315Ter	p.E1315*	ENST00000283943	27/41	125	90	35	115	115	0	TRIP12,stop_gained,p.Glu1315Ter,ENST00000283943,;TRIP12,stop_gained,p.Glu1045Ter,ENST00000389045,;TRIP12,stop_gained,p.Glu1363Ter,ENST00000389044,;TRIP12,downstream_gene_variant,,ENST00000543084,;TRIP12,non_coding_transcript_exon_variant,,ENST00000470302,;TRIP12,non_coding_transcript_exon_variant,,ENST00000495322,;TRIP12,downstream_gene_variant,,ENST00000461189,;	A	ENSG00000153827	ENST00000283943	Transcript	stop_gained	4122	3943	1315	E/*	Gaa/Taa	.	.	.	-1	TRIP12	HGNC	12306	protein_coding	YES	CCDS33391.1	ENSP00000283943	TRIPC_HUMAN	Q57Z94_HUMAN,F8W9P3_HUMAN,C9JSX9_HUMAN,C9JLJ5_HUMAN	UPI000013739D	.	.	.	27/41	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF73,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCATCAT	.	5	BLCA
TRIP12	0	.	GRCh37	2	230661311	230661311	+	Missense_Mutation	SNP	G	G	C	rs144526249	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3587C>G	p.Ser1196Cys	p.S1196C	ENST00000283943	24/41	34	26	8	43	43	0	TRIP12,missense_variant,p.Ser1196Cys,ENST00000283943,;TRIP12,missense_variant,p.Ser926Cys,ENST00000389045,;TRIP12,missense_variant,p.Ser1244Cys,ENST00000389044,;TRIP12,downstream_gene_variant,,ENST00000543084,;TRIP12,non_coding_transcript_exon_variant,,ENST00000461189,;TRIP12,upstream_gene_variant,,ENST00000470302,;TRIP12,upstream_gene_variant,,ENST00000495322,;	C	ENSG00000153827	ENST00000283943	Transcript	missense_variant	3766	3587	1196	S/C	tCt/tGt	rs144526249	.	.	-1	TRIP12	HGNC	12306	protein_coding	YES	CCDS33391.1	ENSP00000283943	TRIPC_HUMAN	Q57Z94_HUMAN,F8W9P3_HUMAN,C9JSX9_HUMAN,C9JLJ5_HUMAN	UPI000013739D	.	tolerated(0.84)	benign(0)	24/41	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF73	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S1195fs*24|c.3583delT|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGAAGAA	byCluster	5	BLCA
TRIP12	0	.	GRCh37	2	230661446	230661446	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3452C>G	p.Ser1151Ter	p.S1151*	ENST00000283943	24/41	52	43	8	67	67	0	TRIP12,stop_gained,p.Ser1151Ter,ENST00000283943,;TRIP12,stop_gained,p.Ser881Ter,ENST00000389045,;TRIP12,stop_gained,p.Ser1199Ter,ENST00000389044,;TRIP12,3_prime_UTR_variant,,ENST00000543084,;TRIP12,non_coding_transcript_exon_variant,,ENST00000461189,;TRIP12,upstream_gene_variant,,ENST00000470302,;TRIP12,upstream_gene_variant,,ENST00000495322,;	C	ENSG00000153827	ENST00000283943	Transcript	stop_gained	3631	3452	1151	S/*	tCa/tGa	.	.	.	-1	TRIP12	HGNC	12306	protein_coding	YES	CCDS33391.1	ENSP00000283943	TRIPC_HUMAN	Q57Z94_HUMAN,F8W9P3_HUMAN,C9JSX9_HUMAN,C9JLJ5_HUMAN	UPI000013739D	.	.	.	24/41	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF73	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATCTGACTCT	.	5	BLCA
UGT1A8	0	.	GRCh37	2	234669649	234669650	+	Intron	DEL	AG	AG	-	rs774744039	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	AG	AG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.868-6025_868-6024delAG	.	.	ENST00000609767	.	92	69	23	101	101	0	UGT1A8,frameshift_variant,p.Glu241GlyfsTer16,ENST00000608383,;UGT1A8,frameshift_variant,p.Glu241GlyfsTer16,ENST00000360418,;UGT1A1,frameshift_variant,p.Glu241GlyfsTer16,ENST00000305208,;UGT1A10,intron_variant,,ENST00000373445,;UGT1A4,intron_variant,,ENST00000373409,;UGT1A6,intron_variant,,ENST00000305139,;UGT1A3,intron_variant,,ENST00000482026,;UGT1A6,intron_variant,,ENST00000373424,;UGT1A8,intron_variant,,ENST00000608381,;UGT1A7,intron_variant,,ENST00000373426,;UGT1A8,intron_variant,,ENST00000609637,;UGT1A8,intron_variant,,ENST00000609767,;UGT1A5,intron_variant,,ENST00000373414,;UGT1A6,intron_variant,,ENST00000406651,;UGT1A10,intron_variant,,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;UGT1A9,intron_variant,,ENST00000354728,;UGT1A6,downstream_gene_variant,,ENST00000480628,;UGT1A6,intron_variant,,ENST00000446481,;UGT1A4,intron_variant,,ENST00000450233,;UGT1A6,intron_variant,,ENST00000484784,;	-	ENSG00000241635	ENST00000609767	Transcript	intron_variant	.	.	.	.	.	rs774744039	.	.	1	UGT1A8	HGNC	12540	protein_coding	YES	CCDS2509.1	ENSP00000476805	.	Q8WX91_HUMAN,A9UKC8_HUMAN,A7E1U5_HUMAN,Q5DT01_HUMAN	UPI0000001045	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCCTTCAGAGAGA	byFrequency	3	BLCA
PER2	0	.	GRCh37	2	239157733	239157733	+	Silent	SNP	C	C	T	rs548759609	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3588G>A	p.%3D	p.T1196T	ENST00000254657	22/23	123	88	35	198	198	0	PER2,synonymous_variant,p.%3D,ENST00000254657,;PER2,3_prime_UTR_variant,,ENST00000254658,;AC096574.4,intron_variant,,ENST00000456601,;	T	ENSG00000132326	ENST00000254657	Transcript	synonymous_variant	3868	3588	1196	T	acG/acA	rs548759609	.	.	-1	PER2	HGNC	8846	protein_coding	YES	CCDS2528.1	ENSP00000254657	PER2_HUMAN	Q6DT41_HUMAN,E9PD89_HUMAN	UPI000013161D	.	.	.	22/23	.	hmmpanther:PTHR11269,hmmpanther:PTHR11269:SF9,Pfam_domain:PF12114	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCCCGTCTG	by1000G	5	BLCA
BRE	0	.	GRCh37	2	28352178	28352178	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.611C>T	p.Ser204Phe	p.S204F	ENST00000344773	7/13	99	85	14	114	114	0	BRE,missense_variant,p.Ser204Phe,ENST00000361704,;BRE,missense_variant,p.Ser204Phe,ENST00000344773,;BRE,missense_variant,p.Ser204Phe,ENST00000379632,;BRE,missense_variant,p.Ser204Phe,ENST00000342045,;BRE,missense_variant,p.Ser204Phe,ENST00000379629,;BRE,missense_variant,p.Ser204Phe,ENST00000379624,;	T	ENSG00000158019	ENST00000344773	Transcript	missense_variant	749	611	204	S/F	tCt/tTt	.	.	.	1	BRE	HGNC	1106	protein_coding	YES	CCDS1764.1	ENSP00000343412	BRE_HUMAN	C9J2G0_HUMAN	UPI0000072A9C	.	tolerated(0.22)	possibly_damaging(0.649)	7/13	.	hmmpanther:PTHR15189:SF7,hmmpanther:PTHR15189,Pfam_domain:PF06113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCTGTTA	.	4	BLCA
NLRC4	0	.	GRCh37	2	32475708	32475708	+	Missense_Mutation	SNP	C	C	G	rs144123569	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>C	p.Glu409Gln	p.E409Q	ENST00000404025	5/10	15	11	4	25	25	0	NLRC4,missense_variant,p.Glu409Gln,ENST00000402280,;NLRC4,missense_variant,p.Glu409Gln,ENST00000360906,;NLRC4,missense_variant,p.Glu409Gln,ENST00000404025,;NLRC4,intron_variant,,ENST00000342905,;	G	ENSG00000091106	ENST00000404025	Transcript	missense_variant	1714	1225	409	E/Q	Gaa/Caa	rs144123569,COSM257527,COSM3372760	.	.	-1	NLRC4	HGNC	16412	protein_coding	YES	CCDS33174.1	ENSP00000385090	NLRC4_HUMAN	.	UPI0000126FAD	.	tolerated(0.8)	benign(0.003)	5/10	.	hmmpanther:PTHR10044:SF97,hmmpanther:PTHR10044	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F408F|c.1224C>T|3	MUTECT|MUSE	CAGTTCGAAAT	byCluster|by1000G	2	BLCA
PREPL	0	.	GRCh37	2	44565657	44565657	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988G>C	p.Asp330His	p.D330H	ENST00000409936	8/15	31	24	6	45	45	0	PREPL,missense_variant,p.Asp330His,ENST00000378520,;PREPL,missense_variant,p.Asp330His,ENST00000409936,;PREPL,missense_variant,p.Asp241His,ENST00000409957,;PREPL,missense_variant,p.Asp330His,ENST00000260648,;PREPL,missense_variant,p.Asp241His,ENST00000541738,;PREPL,missense_variant,p.Asp241His,ENST00000409411,;PREPL,missense_variant,p.Asp330His,ENST00000409272,;PREPL,missense_variant,p.Asp330His,ENST00000410081,;PREPL,intron_variant,,ENST00000378511,;PREPL,missense_variant,p.Asp330His,ENST00000425263,;PREPL,missense_variant,p.Asp330His,ENST00000426481,;	G	ENSG00000138078	ENST00000409936	Transcript	missense_variant	1426	988	330	D/H	Gat/Cat	COSM442939,COSM1531875	.	.	-1	PREPL	HGNC	30228	protein_coding	YES	CCDS33190.1	ENSP00000386543	PPCEL_HUMAN	C9JMT4_HUMAN	UPI0000208358	.	tolerated(0.13)	possibly_damaging(0.593)	8/15	.	hmmpanther:PTHR11757,hmmpanther:PTHR11757:SF3,Pfam_domain:PF02897,Superfamily_domains:SSF50993	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATCAGCCG	.	5	BLCA
STON1-GTF2A1L	0	.	GRCh37	2	48808786	48808786	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1014C>T	p.%3D	p.F338F	ENST00000394754	2/11	84	60	23	74	74	0	STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000309827,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000394754,;STON1,synonymous_variant,p.%3D,ENST00000406226,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000402114,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000405008,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000394751,;STON1,synonymous_variant,p.%3D,ENST00000404752,;STON1,synonymous_variant,p.%3D,ENST00000309835,;STON1,upstream_gene_variant,,ENST00000444932,;	T	ENSG00000068781	ENST00000394754	Transcript	synonymous_variant	1128	1014	338	F	ttC/ttT	.	.	.	1	STON1-GTF2A1L	HGNC	30651	protein_coding	YES	CCDS1840.1	ENSP00000378236	.	Q53S48_HUMAN	UPI000013C976	.	.	.	2/11	.	PROSITE_profiles:PS51070,hmmpanther:PTHR11998,hmmpanther:PTHR11998:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCAGTGT	.	5	BLCA
CCDC88A	0	.	GRCh37	2	55549772	55549772	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3051G>C	p.Gln1017His	p.Q1017H	ENST00000336838	18/33	113	85	28	107	107	0	CCDC88A,missense_variant,p.Gln1017His,ENST00000413716,;CCDC88A,missense_variant,p.Gln63His,ENST00000412148,;CCDC88A,missense_variant,p.Gln1018His,ENST00000436346,;CCDC88A,missense_variant,p.Gln1018His,ENST00000263630,;CCDC88A,missense_variant,p.Gln1017His,ENST00000336838,;CCDC88A,missense_variant,p.Gln193His,ENST00000426576,;CCDC88A,intron_variant,,ENST00000456975,;AC012358.8,intron_variant,,ENST00000608103,;AC012358.8,intron_variant,,ENST00000600219,;AC012358.8,intron_variant,,ENST00000594078,;AC012358.8,intron_variant,,ENST00000599475,;AC012358.8,intron_variant,,ENST00000599352,;CCDC88A,upstream_gene_variant,,ENST00000474059,;	G	ENSG00000115355	ENST00000336838	Transcript	missense_variant	3585	3051	1017	Q/H	caG/caC	COSM721486,COSM1149167	.	.	-1	CCDC88A	HGNC	25523	protein_coding	YES	CCDS46288.1	ENSP00000338728	GRDN_HUMAN	C9J225_HUMAN,B4DSN0_HUMAN	UPI00005B7220	.	tolerated(0.12)	benign(0.029)	18/33	.	hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF30	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTCTGTAC	.	5	BLCA
KIAA1841	0	.	GRCh37	2	61345206	61345206	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1983G>C	p.Met661Ile	p.M661I	ENST00000402291	20/22	24	16	8	29	29	0	KIAA1841,missense_variant,p.Met661Ile,ENST00000402291,;KIAA1841,missense_variant,p.Met661Ile,ENST00000295031,;KIAA1841,missense_variant,p.Met661Ile,ENST00000453873,;KIAA1841,missense_variant,p.Met661Ile,ENST00000356719,;KIAA1841,non_coding_transcript_exon_variant,,ENST00000488322,;KIAA1841,non_coding_transcript_exon_variant,,ENST00000462959,;KIAA1841,3_prime_UTR_variant,,ENST00000453186,;KIAA1841,non_coding_transcript_exon_variant,,ENST00000471625,;	C	ENSG00000162929	ENST00000402291	Transcript	missense_variant	2224	1983	661	M/I	atG/atC	.	.	.	1	KIAA1841	HGNC	29387	protein_coding	YES	CCDS46296.1	ENSP00000385579	K1841_HUMAN	.	UPI0000197410	.	tolerated(0.18)	benign(0.001)	20/22	.	hmmpanther:PTHR20946:SF0,hmmpanther:PTHR20946	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGAGATT	.	5	BLCA
USP34	0	.	GRCh37	2	61431701	61431701	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9190G>T	p.Asp3064Tyr	p.D3064Y	ENST00000398571	73/80	126	115	11	124	124	0	USP34,missense_variant,p.Asp824Tyr,ENST00000411912,;USP34,missense_variant,p.Asp3064Tyr,ENST00000398571,;USP34,upstream_gene_variant,,ENST00000436269,;RP11-493E12.2,downstream_gene_variant,,ENST00000609422,;USP34,non_coding_transcript_exon_variant,,ENST00000476716,;USP34,downstream_gene_variant,,ENST00000467128,;USP34,downstream_gene_variant,,ENST00000472689,;USP34,non_coding_transcript_exon_variant,,ENST00000463046,;	A	ENSG00000115464	ENST00000398571	Transcript	missense_variant	9267	9190	3064	D/Y	Gat/Tat	.	.	.	-1	USP34	HGNC	20066	protein_coding	YES	CCDS42686.1	ENSP00000381577	UBP34_HUMAN	.	UPI0000410E09	.	deleterious(0)	probably_damaging(0.962)	73/80	.	Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAATCATGGG	.	3	BLCA
GCFC2	0	.	GRCh37	2	75899075	75899075	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1956+1G>A	.	p.X652_splice	ENST00000321027	.	91	74	16	81	81	0	GCFC2,splice_donor_variant,,ENST00000321027,;GCFC2,splice_donor_variant,,ENST00000427862,;GCFC2,splice_donor_variant,,ENST00000409857,;GCFC2,splice_donor_variant,,ENST00000541687,;MRPL19,intron_variant,,ENST00000453233,;MRPL19,intron_variant,,ENST00000358788,;GCFC2,upstream_gene_variant,,ENST00000492826,;MRPL19,downstream_gene_variant,,ENST00000492255,;MRPL19,downstream_gene_variant,,ENST00000409374,;RP11-342K6.2,downstream_gene_variant,,ENST00000604219,;GCFC2,splice_donor_variant,,ENST00000470197,;GCFC2,splice_donor_variant,,ENST00000472230,;	T	ENSG00000005436	ENST00000321027	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	GCFC2	HGNC	1317	protein_coding	YES	CCDS1961.1	ENSP00000318690	GCFC2_HUMAN	B3KUM5_HUMAN,A4UHR0_HUMAN	UPI000013C96B	.	.	.	.	14/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCACCTTTA	.	4	BLCA
VWA3B	0	.	GRCh37	2	98804452	98804452	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1326G>C	p.Lys442Asn	p.K442N	ENST00000477737	10/28	38	28	10	36	36	0	VWA3B,missense_variant,p.Lys292Asn,ENST00000451075,;VWA3B,missense_variant,p.Lys442Asn,ENST00000477737,;VWA3B,missense_variant,p.Lys442Asn,ENST00000435344,;VWA3B,upstream_gene_variant,,ENST00000489968,;VWA3B,missense_variant,p.Lys442Asn,ENST00000433678,;VWA3B,3_prime_UTR_variant,,ENST00000422503,;VWA3B,non_coding_transcript_exon_variant,,ENST00000409460,;VWA3B,intron_variant,,ENST00000416277,;VWA3B,intron_variant,,ENST00000448638,;VWA3B,intron_variant,,ENST00000432242,;VWA3B,upstream_gene_variant,,ENST00000466852,;	C	ENSG00000168658	ENST00000477737	Transcript	missense_variant	1530	1326	442	K/N	aaG/aaC	.	.	.	1	VWA3B	HGNC	28385	protein_coding	YES	CCDS42718.1	ENSP00000417955	VWA3B_HUMAN	Q53RD3_HUMAN	UPI0000E9B173	.	deleterious(0)	probably_damaging(0.998)	10/28	.	hmmpanther:PTHR10338,hmmpanther:PTHR10338:SF104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGACAGT	.	5	BLCA
GCSAM	0	.	GRCh37	3	111842515	111842515	+	Missense_Mutation	SNP	C	C	G	rs769756753	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.330G>C	p.Glu110Asp	p.E110D	ENST00000484193	6/6	48	36	12	60	60	0	GCSAM,missense_variant,p.Glu110Asp,ENST00000484193,;GCSAM,missense_variant,p.Glu108Asp,ENST00000308910,;GCSAM,missense_variant,p.Glu91Asp,ENST00000488580,;GCSAM,missense_variant,p.Glu93Asp,ENST00000460387,;GCSAM,missense_variant,p.Glu91Asp,ENST00000487901,;C3orf52,downstream_gene_variant,,ENST00000430855,;C3orf52,intron_variant,,ENST00000467942,;GCSAM,3_prime_UTR_variant,,ENST00000470085,;GCSAM,3_prime_UTR_variant,,ENST00000495418,;C3orf52,intron_variant,,ENST00000480282,;	G	ENSG00000174500	ENST00000484193	Transcript	missense_variant	464	330	110	E/D	gaG/gaC	rs769756753,COSM3585354	.	.	-1	GCSAM	HGNC	20253	protein_coding	YES	CCDS54622.1	ENSP00000419485	GCSAM_HUMAN	C9JY41_HUMAN,C9IY73_HUMAN	UPI000042262E	.	deleterious(0)	probably_damaging(0.98)	6/6	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCTCATA	.	5	BLCA
KIAA1407	0	.	GRCh37	3	113775407	113775407	+	5'UTR	SNP	C	C	A	rs750660546	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-94G>T	.	.	ENST00000295878	1/17	14	10	4	9	9	0	KIAA1407,5_prime_UTR_variant,,ENST00000295878,;KIAA1407,5_prime_UTR_variant,,ENST00000491000,;QTRTD1,intron_variant,,ENST00000472599,;QTRTD1,upstream_gene_variant,,ENST00000485050,;QTRTD1,upstream_gene_variant,,ENST00000479882,;KIAA1407,upstream_gene_variant,,ENST00000545063,;KIAA1407,upstream_gene_variant,,ENST00000483766,;QTRTD1,upstream_gene_variant,,ENST00000493014,;QTRTD1,upstream_gene_variant,,ENST00000281273,;KIAA1407,upstream_gene_variant,,ENST00000480588,;QTRTD1,upstream_gene_variant,,ENST00000466050,;QTRTD1,upstream_gene_variant,,ENST00000490183,;KIAA1407,upstream_gene_variant,,ENST00000481358,;KIAA1407,upstream_gene_variant,,ENST00000463695,;KIAA1407,upstream_gene_variant,,ENST00000460813,;QTRTD1,upstream_gene_variant,,ENST00000460163,;QTRTD1,upstream_gene_variant,,ENST00000488665,;	A	ENSG00000163617	ENST00000295878	Transcript	5_prime_UTR_variant	54	.	.	.	.	rs750660546	.	.	-1	KIAA1407	HGNC	29272	protein_coding	YES	CCDS2977.1	ENSP00000295878	K1407_HUMAN	.	UPI00000732E9	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCCTCCGCCCG	.	3	BLCA
UPK1B	0	.	GRCh37	3	118922881	118922881	+	3'UTR	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*67C>G	.	.	ENST00000264234	8/8	13	8	5	23	23	0	UPK1B,3_prime_UTR_variant,,ENST00000264234,;UPK1B,3_prime_UTR_variant,,ENST00000460625,;UPK1B,3_prime_UTR_variant,,ENST00000497685,;	G	ENSG00000114638	ENST00000264234	Transcript	3_prime_UTR_variant	999	.	.	.	.	.	.	.	1	UPK1B	HGNC	12578	protein_coding	YES	CCDS2985.1	ENSP00000264234	UPK1B_HUMAN	E7ETN9_HUMAN,C9J6N2_HUMAN,C9J027_HUMAN	UPI000013D4E8	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCTCTCCTA	.	2	BLCA
ARHGAP31	0	.	GRCh37	3	119133187	119133187	+	Missense_Mutation	SNP	C	C	A	rs760373610	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2411C>A	p.Pro804Gln	p.P804Q	ENST00000264245	12/12	46	34	12	42	42	0	ARHGAP31,missense_variant,p.Pro804Gln,ENST00000264245,;	A	ENSG00000031081	ENST00000264245	Transcript	missense_variant	2943	2411	804	P/Q	cCg/cAg	rs760373610	.	.	1	ARHGAP31	HGNC	29216	protein_coding	YES	CCDS43135.1	ENSP00000264245	RHG31_HUMAN	.	UPI00001C1DFD	.	deleterious(0.01)	probably_damaging(0.931)	12/12	.	hmmpanther:PTHR15729:SF3,hmmpanther:PTHR15729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCCCGGAAA	byFrequency	5	BLCA
PPP2R3A	0	.	GRCh37	3	135825088	135825088	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3253G>C	p.Asp1085His	p.D1085H	ENST00000264977	13/14	22	19	3	40	40	0	PPP2R3A,missense_variant,p.Asp349His,ENST00000490467,;PPP2R3A,missense_variant,p.Asp1085His,ENST00000264977,;PPP2R3A,missense_variant,p.Asp464His,ENST00000334546,;PPP2R3A,non_coding_transcript_exon_variant,,ENST00000469270,;	C	ENSG00000073711	ENST00000264977	Transcript	missense_variant	3870	3253	1085	D/H	Gac/Cac	.	.	.	1	PPP2R3A	HGNC	9307	protein_coding	YES	CCDS3087.1	ENSP00000264977	P2R3A_HUMAN	.	UPI0000124EAC	.	deleterious(0)	probably_damaging(0.998)	13/14	.	hmmpanther:PTHR14095,hmmpanther:PTHR14095:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCAGACTGG	.	2	BLCA
C3orf20	0	.	GRCh37	3	14746102	14746102	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1137C>G	p.Phe379Leu	p.F379L	ENST00000253697	7/17	112	89	23	138	138	0	C3orf20,missense_variant,p.Phe257Leu,ENST00000435614,;C3orf20,missense_variant,p.Phe257Leu,ENST00000412910,;C3orf20,missense_variant,p.Phe379Leu,ENST00000253697,;C3orf20,non_coding_transcript_exon_variant,,ENST00000495387,;	G	ENSG00000131379	ENST00000253697	Transcript	missense_variant	1589	1137	379	F/L	ttC/ttG	.	.	.	1	C3orf20	HGNC	25320	protein_coding	YES	CCDS33706.1	ENSP00000253697	CC020_HUMAN	.	UPI000013CDE9	.	tolerated(0.16)	probably_damaging(0.999)	7/17	.	Pfam_domain:PF14977,hmmpanther:PTHR23093,hmmpanther:PTHR23093:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTATGA	.	5	BLCA
MME	0	.	GRCh37	3	154898202	154898202	+	Missense_Mutation	SNP	G	G	A	rs201935217	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2207G>A	p.Arg736His	p.R736H	ENST00000460393	23/23	192	176	16	189	189	0	MME,missense_variant,p.Arg736His,ENST00000360490,;MME,missense_variant,p.Arg736His,ENST00000460393,;MME,missense_variant,p.Arg736His,ENST00000492661,;MME,missense_variant,p.Arg736His,ENST00000493237,;MME,missense_variant,p.Arg736His,ENST00000462745,;MME-AS1,intron_variant,,ENST00000484721,;MME,non_coding_transcript_exon_variant,,ENST00000493888,;	A	ENSG00000196549	ENST00000460393	Transcript	missense_variant	2327	2207	736	R/H	cGc/cAc	rs201935217	.	.	1	MME	HGNC	7154	protein_coding	YES	CCDS3172.1	ENSP00000418525	NEP_HUMAN	C9JR96_HUMAN,C9JDZ3_HUMAN,C9J9X7_HUMAN,C9IYX7_HUMAN	UPI0000033C41	.	tolerated(0.13)	benign(0)	23/23	.	Superfamily_domains:SSF55486,Gene3D:3.40.390.10,Pfam_domain:PF01431,hmmpanther:PTHR11733:SF114,hmmpanther:PTHR11733	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCCGCAAGA	byFrequency|byCluster	2	BLCA
SI	0	.	GRCh37	3	164756871	164756871	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2296G>A	p.Glu766Lys	p.E766K	ENST00000264382	20/48	37	29	8	30	30	0	SI,missense_variant,p.Glu766Lys,ENST00000264382,;	T	ENSG00000090402	ENST00000264382	Transcript	missense_variant	2359	2296	766	E/K	Gaa/Aaa	.	.	.	-1	SI	HGNC	10856	protein_coding	YES	CCDS3196.1	ENSP00000264382	SUIS_HUMAN	.	UPI000022C287	.	tolerated(0.06)	possibly_damaging(0.513)	20/48	.	Superfamily_domains:SSF51011,Pfam_domain:PF01055,hmmpanther:PTHR22762,hmmpanther:PTHR22762:SF66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCATAAT	.	5	BLCA
PRKCI	0	.	GRCh37	3	169999702	169999702	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1013G>A	p.Gly338Glu	p.G338E	ENST00000295797	11/18	152	120	31	152	152	0	PRKCI,missense_variant,p.Gly338Glu,ENST00000295797,;PRKCI,non_coding_transcript_exon_variant,,ENST00000482353,;PRKCI,downstream_gene_variant,,ENST00000493761,;PRKCI,downstream_gene_variant,,ENST00000488541,;	A	ENSG00000163558	ENST00000295797	Transcript	missense_variant	1318	1013	338	G/E	gGa/gAa	.	.	.	1	PRKCI	HGNC	9404	protein_coding	YES	CCDS3212.2	ENSP00000295797	KPCI_HUMAN	.	UPI000020A798	.	deleterious(0)	probably_damaging(1)	11/18	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF000554,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24357:SF60,hmmpanther:PTHR24357,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAGGAGACC	.	5	BLCA
C3orf70	0	.	GRCh37	3	184800814	184800814	+	Missense_Mutation	SNP	G	G	A	rs775400044	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.734C>T	p.Thr245Met	p.T245M	ENST00000335012	2/2	73	64	9	102	102	0	C3orf70,missense_variant,p.Thr245Met,ENST00000335012,;	A	ENSG00000187068	ENST00000335012	Transcript	missense_variant	925	734	245	T/M	aCg/aTg	rs775400044	.	.	-1	C3orf70	HGNC	33731	protein_coding	YES	CCDS33900.1	ENSP00000334974	CC070_HUMAN	.	UPI000016128B	.	deleterious_low_confidence(0.01)	probably_damaging(0.994)	2/2	.	hmmpanther:PTHR31785:SF2,hmmpanther:PTHR31785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTATCGTTTCA	.	4	BLCA
ATP13A4	0	.	GRCh37	3	193130133	193130133	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3042C>G	p.Ile1014Met	p.I1014M	ENST00000342695	27/30	152	119	33	157	157	0	ATP13A4,missense_variant,p.Ile30Met,ENST00000400270,;ATP13A4,missense_variant,p.Ile995Met,ENST00000392443,;ATP13A4,missense_variant,p.Ile1014Met,ENST00000342695,;ATP13A4,non_coding_transcript_exon_variant,,ENST00000482964,;ATP13A4,3_prime_UTR_variant,,ENST00000450950,;ATP13A4,3_prime_UTR_variant,,ENST00000428352,;	C	ENSG00000127249	ENST00000342695	Transcript	missense_variant	3365	3042	1014	I/M	atC/atG	.	.	.	-1	ATP13A4	HGNC	25422	protein_coding	YES	CCDS3304.2	ENSP00000339182	AT134_HUMAN	.	UPI0000520D50	.	tolerated(0.22)	benign(0.005)	27/30	.	hmmpanther:PTHR24093:SF279,hmmpanther:PTHR24093,TIGRFAM_domain:TIGR01657,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGAGATGCT	.	5	BLCA
RARB	0	.	GRCh37	3	25502708	25502708	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.182C>A	p.Ser61Tyr	p.S61Y	ENST00000330688	2/8	73	55	17	64	64	0	RARB,missense_variant,p.Ser61Tyr,ENST00000330688,;RARB,missense_variant,p.Ser68Tyr,ENST00000404969,;RARB,missense_variant,p.Ser68Tyr,ENST00000383772,;RARB,5_prime_UTR_variant,,ENST00000458646,;RARB,5_prime_UTR_variant,,ENST00000437042,;RARB,non_coding_transcript_exon_variant,,ENST00000489694,;RARB,non_coding_transcript_exon_variant,,ENST00000462272,;RARB,non_coding_transcript_exon_variant,,ENST00000479097,;RARB,non_coding_transcript_exon_variant,,ENST00000480001,;	A	ENSG00000077092	ENST00000330688	Transcript	missense_variant	603	182	61	S/Y	tCt/tAt	.	.	.	1	RARB	HGNC	9865	protein_coding	YES	CCDS2642.1	ENSP00000332296	RARB_HUMAN	Q5QHG3_HUMAN,F1D8S6_HUMAN	UPI000002B2CB	.	deleterious(0.02)	benign(0.367)	2/8	.	Low_complexity_(Seg):seg,Prints_domain:PR01292,hmmpanther:PTHR24082:SF114,hmmpanther:PTHR24082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCTGAGG	.	5	BLCA
GLB1	0	.	GRCh37	3	33058246	33058246	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1434G>C	p.Glu478Asp	p.E478D	ENST00000307363	14/16	125	103	22	126	126	0	GLB1,missense_variant,p.Glu448Asp,ENST00000399402,;GLB1,missense_variant,p.Glu478Asp,ENST00000307363,;GLB1,missense_variant,p.Glu347Asp,ENST00000307377,;GLB1,missense_variant,p.Glu526Asp,ENST00000445488,;GLB1,non_coding_transcript_exon_variant,,ENST00000497796,;GLB1,non_coding_transcript_exon_variant,,ENST00000461475,;GLB1,non_coding_transcript_exon_variant,,ENST00000467571,;GLB1,downstream_gene_variant,,ENST00000482097,;GLB1,downstream_gene_variant,,ENST00000473477,;	G	ENSG00000170266	ENST00000307363	Transcript	missense_variant	1579	1434	478	E/D	gaG/gaC	.	.	.	-1	GLB1	HGNC	4298	protein_coding	YES	CCDS43061.1	ENSP00000306920	BGAL_HUMAN	C9JF15_HUMAN,C9J539_HUMAN	UPI0000E5A543	.	deleterious(0)	probably_damaging(0.998)	14/16	.	Superfamily_domains:SSF49785,PIRSF_domain:PIRSF006336,hmmpanther:PTHR23421,hmmpanther:PTHR23421:SF61	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTCTCTAC	.	5	BLCA
ARPP21	0	.	GRCh37	3	35835348	35835348	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2340G>C	p.%3D	p.L780L	ENST00000458225	20/20	34	29	5	41	41	0	ARPP21,synonymous_variant,p.%3D,ENST00000337271,;ARPP21,synonymous_variant,p.%3D,ENST00000458225,;ARPP21,synonymous_variant,p.%3D,ENST00000187397,;ARPP21,synonymous_variant,p.%3D,ENST00000417925,;ARPP21,synonymous_variant,p.%3D,ENST00000444190,;ARPP21,non_coding_transcript_exon_variant,,ENST00000476052,;ARPP21,downstream_gene_variant,,ENST00000463970,;ARPP21,downstream_gene_variant,,ENST00000473138,;ARPP21,3_prime_UTR_variant,,ENST00000457165,;	C	ENSG00000172995	ENST00000458225	Transcript	synonymous_variant	2565	2340	780	L	ctG/ctC	.	.	.	1	ARPP21	HGNC	16968	protein_coding	YES	CCDS58823.1	ENSP00000414351	ARP21_HUMAN	C9JTX6_HUMAN,C9JTF2_HUMAN,C9JQQ6_HUMAN,C9JI74_HUMAN,C9J5R1_HUMAN,C9J2U3_HUMAN	UPI0000209B3D	.	.	.	20/20	.	hmmpanther:PTHR15672:SF14,hmmpanther:PTHR15672	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTGATTGG	.	2	BLCA
TCAIM	0	.	GRCh37	3	44402978	44402978	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287C>G	p.Ser96Cys	p.S96C	ENST00000342649	4/11	70	59	11	62	62	0	TCAIM,missense_variant,p.Ser96Cys,ENST00000342649,;TCAIM,missense_variant,p.Ser96Cys,ENST00000417237,;TCAIM,downstream_gene_variant,,ENST00000396078,;TCAIM,downstream_gene_variant,,ENST00000383746,;TCAIM,non_coding_transcript_exon_variant,,ENST00000494638,;TCAIM,non_coding_transcript_exon_variant,,ENST00000444602,;TCAIM,missense_variant,p.Ser96Cys,ENST00000417768,;TCAIM,missense_variant,p.Ser96Cys,ENST00000431657,;TCAIM,missense_variant,p.Ser96Cys,ENST00000412611,;TCAIM,non_coding_transcript_exon_variant,,ENST00000462230,;	G	ENSG00000179152	ENST00000342649	Transcript	missense_variant	714	287	96	S/C	tCc/tGc	COSM3916072	.	.	1	TCAIM	HGNC	25241	protein_coding	YES	CCDS2712.1	ENSP00000341539	TCAIM_HUMAN	.	UPI0000140156	.	tolerated(0.11)	possibly_damaging(0.455)	4/11	.	hmmpanther:PTHR31596,hmmpanther:PTHR31596:SF1,Pfam_domain:PF14687	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCCTCCG	.	5	BLCA
CCDC66	0	.	GRCh37	3	56649180	56649180	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1591G>C	p.Glu531Gln	p.E531Q	ENST00000394672	12/18	36	27	8	49	49	0	CCDC66,missense_variant,p.Glu487Gln,ENST00000422222,;CCDC66,missense_variant,p.Glu531Gln,ENST00000394672,;CCDC66,missense_variant,p.Glu497Gln,ENST00000326595,;CCDC66,missense_variant,p.Glu531Gln,ENST00000436465,;CCDC66,non_coding_transcript_exon_variant,,ENST00000484623,;CCDC66,3_prime_UTR_variant,,ENST00000471681,;CCDC66,3_prime_UTR_variant,,ENST00000341455,;CCDC66,non_coding_transcript_exon_variant,,ENST00000468108,;CCDC66,upstream_gene_variant,,ENST00000480884,;CCDC66,upstream_gene_variant,,ENST00000476142,;FAM208A,downstream_gene_variant,,ENST00000459993,;	C	ENSG00000180376	ENST00000394672	Transcript	missense_variant	1661	1591	531	E/Q	Gag/Cag	.	.	.	1	CCDC66	HGNC	27709	protein_coding	YES	CCDS46852.1	ENSP00000378167	CCD66_HUMAN	F8WCY0_HUMAN	UPI000020ADBC	.	deleterious(0.05)	possibly_damaging(0.477)	12/18	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF15236,hmmpanther:PTHR22736:SF1,hmmpanther:PTHR22736	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATGAGCTA	.	5	BLCA
GABRR3	0	.	GRCh37	3	97744436	97744436	+	RNA	SNP	A	A	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.330T>C	.	.	ENST00000470589	3/6	30	25	5	26	26	0	GABRR3,non_coding_transcript_exon_variant,,ENST00000470589,;GABRR3,synonymous_variant,p.%3D,ENST00000472788,;	G	ENSG00000183185	ENST00000470589	Transcript	non_coding_transcript_exon_variant	330	.	.	.	.	.	.	.	-1	GABRR3	HGNC	17969	retained_intron	YES	.	.	.	.	.	.	.	.	3/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F72F|c.216C>T|4	MUTECT|MUSE	GCGAAATCGTT	.	2	BLCA
ST3GAL6	0	.	GRCh37	3	98512581	98512581	+	Silent	SNP	C	C	T	rs557024529	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.972C>T	p.%3D	p.L324L	ENST00000394162	11/11	57	46	11	52	52	0	ST3GAL6,synonymous_variant,p.%3D,ENST00000394162,;ST3GAL6,synonymous_variant,p.%3D,ENST00000483910,;ST3GAL6,synonymous_variant,p.%3D,ENST00000265261,;DCBLD2,downstream_gene_variant,,ENST00000326840,;DCBLD2,downstream_gene_variant,,ENST00000326857,;ST3GAL6,non_coding_transcript_exon_variant,,ENST00000474595,;ST3GAL6,non_coding_transcript_exon_variant,,ENST00000491912,;ST3GAL6,non_coding_transcript_exon_variant,,ENST00000462152,;ST3GAL6,downstream_gene_variant,,ENST00000477899,;ST3GAL6,downstream_gene_variant,,ENST00000493953,;ST3GAL6,3_prime_UTR_variant,,ENST00000497621,;ST3GAL6,3_prime_UTR_variant,,ENST00000469105,;ST3GAL6,3_prime_UTR_variant,,ENST00000486249,;	T	ENSG00000064225	ENST00000394162	Transcript	synonymous_variant	1439	972	324	L	ctC/ctT	rs557024529	.	.	1	ST3GAL6	HGNC	18080	protein_coding	YES	CCDS2933.1	ENSP00000377717	SIA10_HUMAN	C9JXM2_HUMAN,C9JWJ3_HUMAN,C9J0E2_HUMAN	UPI0000073CE3	.	.	.	11/11	.	hmmpanther:PTHR13713:SF8,hmmpanther:PTHR13713,Pfam_domain:PF00777,PIRSF_domain:PIRSF005557	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCGTAAT	by1000G	5	BLCA
PRRT3	0	.	GRCh37	3	9990556	9990556	+	Missense_Mutation	SNP	G	G	A	rs569295912	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057C>T	p.Arg353Trp	p.R353W	ENST00000412055	3/4	56	43	13	60	60	0	PRRT3,missense_variant,p.Arg353Trp,ENST00000411976,;PRRT3,missense_variant,p.Arg353Trp,ENST00000412055,;CRELD1,downstream_gene_variant,,ENST00000435417,;CRELD1,downstream_gene_variant,,ENST00000452070,;CRELD1,downstream_gene_variant,,ENST00000383811,;CRELD1,downstream_gene_variant,,ENST00000326434,;CRELD1,downstream_gene_variant,,ENST00000397170,;PRRT3-AS1,intron_variant,,ENST00000431558,;CRELD1,downstream_gene_variant,,ENST00000489674,;PRRT3,missense_variant,p.Arg353Trp,ENST00000295984,;CRELD1,downstream_gene_variant,,ENST00000482691,;	A	ENSG00000163704	ENST00000412055	Transcript	missense_variant	1187	1057	353	R/W	Cgg/Tgg	rs569295912,COSM447148	.	.	-1	PRRT3	HGNC	26591	protein_coding	YES	CCDS43049.1	ENSP00000392511	PRRT3_HUMAN	.	UPI000019962A	.	deleterious(0)	probably_damaging(1)	3/4	.	hmmpanther:PTHR21712,hmmpanther:PTHR21712:SF27	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCCGCTGGG	by1000G	4	BLCA
ADH4	0	.	GRCh37	4	100048496	100048496	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.844-1G>A	.	p.X282_splice	ENST00000265512	.	31	22	9	33	33	0	ADH4,splice_acceptor_variant,,ENST00000265512,;ADH4,splice_acceptor_variant,,ENST00000423445,;ADH4,splice_acceptor_variant,,ENST00000508393,;ADH4,splice_acceptor_variant,,ENST00000505590,;ADH4,downstream_gene_variant,,ENST00000504125,;ADH4,downstream_gene_variant,,ENST00000512499,;RP11-696N14.1,intron_variant,,ENST00000500358,;ADH4,splice_acceptor_variant,,ENST00000506705,;ADH4,intron_variant,,ENST00000509471,;ADH4,downstream_gene_variant,,ENST00000503416,;	T	ENSG00000198099	ENST00000265512	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	ADH4	HGNC	252	protein_coding	YES	CCDS34032.1	ENSP00000265512	ADH4_HUMAN	.	UPI00001AE8DE	.	.	.	.	6/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTGTGA	.	5	BLCA
FGFRL1	0	.	GRCh37	4	1016163	1016163	+	Silent	SNP	G	G	A	rs748603105	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252G>A	p.%3D	p.L84L	ENST00000398484	4/8	9	6	3	10	10	0	FGFRL1,synonymous_variant,p.%3D,ENST00000264748,;FGFRL1,synonymous_variant,p.%3D,ENST00000398484,;FGFRL1,synonymous_variant,p.%3D,ENST00000507339,;FGFRL1,synonymous_variant,p.%3D,ENST00000504138,;FGFRL1,synonymous_variant,p.%3D,ENST00000510644,;FGFRL1,downstream_gene_variant,,ENST00000512174,;	A	ENSG00000127418	ENST00000398484	Transcript	synonymous_variant	832	252	84	L	ctG/ctA	rs748603105	.	.	1	FGFRL1	HGNC	3693	protein_coding	YES	CCDS3344.1	ENSP00000381498	FGRL1_HUMAN	D6REM7_HUMAN,D6RBN8_HUMAN,A0PJ49_HUMAN	UPI000003ED0B	.	.	.	4/8	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19890:SF5,hmmpanther:PTHR19890,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCTGAAGGT	.	2	BLCA
INPP4B	0	.	GRCh37	4	143094902	143094902	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1242C>T	p.%3D	p.L414L	ENST00000513000	17/27	57	47	9	76	76	0	INPP4B,synonymous_variant,p.%3D,ENST00000511838,;INPP4B,synonymous_variant,p.%3D,ENST00000508116,;INPP4B,synonymous_variant,p.%3D,ENST00000509777,;INPP4B,synonymous_variant,p.%3D,ENST00000514525,;INPP4B,synonymous_variant,p.%3D,ENST00000262992,;INPP4B,synonymous_variant,p.%3D,ENST00000513000,;INPP4B,synonymous_variant,p.%3D,ENST00000308502,;INPP4B,synonymous_variant,p.%3D,ENST00000510812,;INPP4B,missense_variant,p.Ser407Leu,ENST00000512630,;	A	ENSG00000109452	ENST00000513000	Transcript	synonymous_variant	1676	1242	414	L	ctC/ctT	.	.	.	-1	INPP4B	HGNC	6075	protein_coding	YES	CCDS3757.1	ENSP00000425487	INP4B_HUMAN	E9PCZ3_HUMAN,D6RJC3_HUMAN,D6RE59_HUMAN,D6R9J5_HUMAN	UPI000013D37A	.	.	.	17/27	.	hmmpanther:PTHR12187:SF3,hmmpanther:PTHR12187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGCTGAGAAC	.	3	BLCA
INPP4B	0	.	GRCh37	4	143094936	143094936	+	Missense_Mutation	SNP	G	G	A	rs778253517	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1208C>T	p.Ser403Leu	p.S403L	ENST00000513000	17/27	69	57	12	69	69	0	INPP4B,missense_variant,p.Ser218Leu,ENST00000511838,;INPP4B,missense_variant,p.Ser403Leu,ENST00000508116,;INPP4B,missense_variant,p.Ser403Leu,ENST00000509777,;INPP4B,missense_variant,p.Ser274Leu,ENST00000514525,;INPP4B,missense_variant,p.Ser403Leu,ENST00000262992,;INPP4B,missense_variant,p.Ser403Leu,ENST00000513000,;INPP4B,missense_variant,p.Ser403Leu,ENST00000308502,;INPP4B,missense_variant,p.Ser403Leu,ENST00000510812,;INPP4B,missense_variant,p.His396Tyr,ENST00000512630,;	A	ENSG00000109452	ENST00000513000	Transcript	missense_variant	1642	1208	403	S/L	tCa/tTa	rs778253517	.	.	-1	INPP4B	HGNC	6075	protein_coding	YES	CCDS3757.1	ENSP00000425487	INP4B_HUMAN	E9PCZ3_HUMAN,D6RJC3_HUMAN,D6RE59_HUMAN,D6R9J5_HUMAN	UPI000013D37A	.	tolerated(0.14)	probably_damaging(0.987)	17/27	.	hmmpanther:PTHR12187:SF3,hmmpanther:PTHR12187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTGAATAG	.	5	BLCA
RNF175	0	.	GRCh37	4	154636767	154636767	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678C>T	p.%3D	p.I226I	ENST00000347063	7/9	19	15	4	26	26	0	RNF175,synonymous_variant,p.%3D,ENST00000274068,;RNF175,synonymous_variant,p.%3D,ENST00000347063,;RNF175,downstream_gene_variant,,ENST00000508248,;RP11-153M7.5,upstream_gene_variant,,ENST00000505051,;RNF175,downstream_gene_variant,,ENST00000508967,;RNF175,downstream_gene_variant,,ENST00000506505,;RNF175,3_prime_UTR_variant,,ENST00000503694,;RNF175,3_prime_UTR_variant,,ENST00000513656,;	A	ENSG00000145428	ENST00000347063	Transcript	synonymous_variant	1051	678	226	I	atC/atT	.	.	.	-1	RNF175	HGNC	27735	protein_coding	YES	CCDS47149.1	ENSP00000340979	RN175_HUMAN	.	UPI0001AE7525	.	.	.	7/9	.	hmmpanther:PTHR13407:SF2,hmmpanther:PTHR13407,Pfam_domain:PF13639,Gene3D:3.30.40.10,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCACAGATATT	.	4	BLCA
GRIA2	0	.	GRCh37	4	158256915	158256915	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1359C>T	p.%3D	p.I453I	ENST00000296526	10/16	50	41	9	37	37	0	GRIA2,synonymous_variant,p.%3D,ENST00000393815,;GRIA2,synonymous_variant,p.%3D,ENST00000296526,;GRIA2,synonymous_variant,p.%3D,ENST00000264426,;GRIA2,synonymous_variant,p.%3D,ENST00000507898,;GRIA2,synonymous_variant,p.%3D,ENST00000449365,;GRIA2,synonymous_variant,p.%3D,ENST00000323661,;GRIA2,non_coding_transcript_exon_variant,,ENST00000471736,;	T	ENSG00000120251	ENST00000296526	Transcript	synonymous_variant	1684	1359	453	I	atC/atT	COSM3601394,COSM3601393	.	.	1	GRIA2	HGNC	4572	protein_coding	YES	CCDS3797.1	ENSP00000296526	GRIA2_HUMAN	D6RFM6_HUMAN,D6REK8_HUMAN,D6RDX5_HUMAN,D6RBV7_HUMAN,D6R9Z0_HUMAN,A8MT92_HUMAN	UPI000002AA8D	.	.	.	10/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF99,Gene3D:3.40.190.10,Pfam_domain:PF10613,SMART_domains:SM00918,SMART_domains:SM00079,Superfamily_domains:SSF53850	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.I453I|c.1359C>T|3,SITE|p.I453I|c.1359C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATCGCCAA	.	5	BLCA
RXFP1	0	.	GRCh37	4	159520487	159520487	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.296C>A	p.Ser99Tyr	p.S99Y	ENST00000307765	4/18	34	23	11	58	58	0	RXFP1,missense_variant,p.Ser18Tyr,ENST00000448688,;RXFP1,missense_variant,p.Ser66Tyr,ENST00000470033,;RXFP1,missense_variant,p.Ser99Tyr,ENST00000307765,;RXFP1,missense_variant,p.Ser18Tyr,ENST00000460056,;RXFP1,missense_variant,p.Ser99Tyr,ENST00000343542,;RXFP1,missense_variant,p.Ser99Tyr,ENST00000423548,;RXFP1,missense_variant,p.Ser99Tyr,ENST00000471616,;RXFP1,missense_variant,p.Ser99Tyr,ENST00000342048,;	A	ENSG00000171509	ENST00000307765	Transcript	missense_variant	547	296	99	S/Y	tCt/tAt	.	.	.	1	RXFP1	HGNC	19718	protein_coding	YES	CCDS43276.1	ENSP00000303248	RXFP1_HUMAN	Q4W5D9_HUMAN,E9PCA3_HUMAN	UPI000013EC4B	.	tolerated(0.98)	benign(0.041)	4/18	.	hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTTCTGTGC	.	5	BLCA
TRIM60	0	.	GRCh37	4	165962632	165962632	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1408G>C	p.Glu470Gln	p.E470Q	ENST00000512596	3/3	45	33	12	40	40	0	TRIM60,missense_variant,p.Glu470Gln,ENST00000341062,;TRIM60,missense_variant,p.Glu470Gln,ENST00000512596,;TRIM60,missense_variant,p.Glu470Gln,ENST00000508504,;TRIM60,downstream_gene_variant,,ENST00000507119,;RP11-366M4.17,upstream_gene_variant,,ENST00000508621,;	C	ENSG00000176979	ENST00000512596	Transcript	missense_variant	1624	1408	470	E/Q	Gaa/Caa	.	.	.	1	TRIM60	HGNC	21162	protein_coding	YES	CCDS3808.1	ENSP00000421142	TRI60_HUMAN	D6RAS2_HUMAN	UPI000006DAAD	.	deleterious(0.01)	probably_damaging(0.969)	3/3	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF304,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGAAAGA	.	5	BLCA
IRF2	0	.	GRCh37	4	185320153	185320153	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610G>C	p.Glu204Gln	p.E204Q	ENST00000393593	7/9	50	36	14	65	65	0	IRF2,missense_variant,p.Glu61Gln,ENST00000502750,;IRF2,missense_variant,p.Glu138Gln,ENST00000505067,;IRF2,missense_variant,p.Glu204Gln,ENST00000393593,;	G	ENSG00000168310	ENST00000393593	Transcript	missense_variant	818	610	204	E/Q	Gag/Cag	COSM364643	.	.	-1	IRF2	HGNC	6117	protein_coding	YES	CCDS3835.1	ENSP00000377218	IRF2_HUMAN	K4DIA5_HUMAN,D6RB08_HUMAN,D6R9N5_HUMAN	UPI000012D888	.	deleterious(0)	probably_damaging(0.994)	7/9	.	PIRSF_domain:PIRSF038196,hmmpanther:PTHR11949,hmmpanther:PTHR11949:SF22	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTACAA	.	5	BLCA
FAT1	0	.	GRCh37	4	187531117	187531118	+	Nonsense_Mutation	INS	-	-	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9905dupA	p.Tyr3302Ter	p.Y3302*	ENST00000441802	15/27	34	28	6	32	32	0	FAT1,stop_gained,p.Tyr3302Ter,ENST00000441802,;FAT1,non_coding_transcript_exon_variant,,ENST00000508035,;	T	ENSG00000083857	ENST00000441802	Transcript	stop_gained	10115-10116	9905-9906	3302	Y/*	tac/taAc	.	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	.	15/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GTTAGGTAATA	.	2	BLCA
FAT1	0	.	GRCh37	4	187534472	187534473	+	Frame_Shift_Ins	INS	-	-	G	rs749145480	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9253dupC	p.Leu3085ProfsTer2	p.L3085Pfs*2	ENST00000441802	13/27	48	42	6	50	50	0	FAT1,frameshift_variant,p.Leu3085ProfsTer2,ENST00000441802,;FAT1,upstream_gene_variant,,ENST00000508035,;	G	ENSG00000083857	ENST00000441802	Transcript	frameshift_variant	9463-9464	9253-9254	3085	L/PX	ctt/cCtt	rs749145480	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	.	13/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GATCAAGGGGG	.	3	BLCA
WHSC1	0	.	GRCh37	4	1906030	1906030	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685A>G	p.Lys229Glu	p.K229E	ENST00000382895	5/24	61	46	14	78	78	0	WHSC1,missense_variant,p.Lys229Glu,ENST00000508803,;WHSC1,missense_variant,p.Lys229Glu,ENST00000382892,;WHSC1,missense_variant,p.Lys229Glu,ENST00000503128,;WHSC1,missense_variant,p.Lys229Glu,ENST00000398261,;WHSC1,missense_variant,p.Lys229Glu,ENST00000420906,;WHSC1,missense_variant,p.Lys229Glu,ENST00000382895,;WHSC1,missense_variant,p.Lys229Glu,ENST00000382891,;WHSC1,missense_variant,p.Lys229Glu,ENST00000514045,;WHSC1,missense_variant,p.Lys229Glu,ENST00000509115,;WHSC1,missense_variant,p.Lys229Glu,ENST00000436793,;WHSC1,downstream_gene_variant,,ENST00000515806,;WHSC1,downstream_gene_variant,,ENST00000507820,;WHSC1,missense_variant,p.Lys229Glu,ENST00000312087,;WHSC1,missense_variant,p.Lys229Glu,ENST00000353275,;WHSC1,missense_variant,p.Lys229Glu,ENST00000512700,;WHSC1,non_coding_transcript_exon_variant,,ENST00000508355,;	G	ENSG00000109685	ENST00000382895	Transcript	missense_variant	1116	685	229	K/E	Aaa/Gaa	.	.	.	1	WHSC1	HGNC	12766	protein_coding	YES	CCDS33940.1	ENSP00000372351	NSD2_HUMAN	D6RIS1_HUMAN,D6RFE7_HUMAN,D6R9V2_HUMAN	UPI0000073F57	.	deleterious(0)	probably_damaging(0.999)	5/24	.	PROSITE_profiles:PS50812,hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF293,Gene3D:2.30.30.160,Pfam_domain:PF00855,SMART_domains:SM00293,Superfamily_domains:SSF63748	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCCAAAGTG	.	5	BLCA
CCDC96	0	.	GRCh37	4	7043969	7043969	+	Missense_Mutation	SNP	G	G	T	rs533110978	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.697C>A	p.Arg233Ser	p.R233S	ENST00000310085	1/1	44	32	12	51	51	0	CCDC96,missense_variant,p.Arg233Ser,ENST00000310085,;TADA2B,intron_variant,,ENST00000506692,;TADA2B,upstream_gene_variant,,ENST00000310074,;TADA2B,upstream_gene_variant,,ENST00000512388,;RP11-367J11.2,intron_variant,,ENST00000500031,;	T	ENSG00000173013	ENST00000310085	Transcript	missense_variant	760	697	233	R/S	Cgt/Agt	rs533110978	.	.	-1	CCDC96	HGNC	26900	protein_coding	YES	CCDS3395.1	ENSP00000309285	CCD96_HUMAN	.	UPI00000705C9	.	deleterious(0.01)	possibly_damaging(0.691)	1/1	.	hmmpanther:PTHR15654,hmmpanther:PTHR15654:SF1	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAACGGTACT	by1000G	5	BLCA
HTN1	0	.	GRCh37	4	70918827	70918827	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.34C>G	p.Leu12Val	p.L12V	ENST00000511674	2/5	59	48	11	64	64	0	HTN1,missense_variant,p.Leu12Val,ENST00000511674,;HTN1,missense_variant,p.Leu12Val,ENST00000246896,;HTN1,non_coding_transcript_exon_variant,,ENST00000506754,;HTN1,non_coding_transcript_exon_variant,,ENST00000503645,;	G	ENSG00000126550	ENST00000511674	Transcript	missense_variant	105	34	12	L/V	Ctc/Gtc	.	.	.	1	HTN1	HGNC	5283	protein_coding	YES	CCDS3534.1	ENSP00000424501	HIS1_HUMAN	.	UPI000012C745	.	deleterious_low_confidence(0)	possibly_damaging(0.801)	2/5	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR15057,hmmpanther:PTHR15057:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCTCATG	.	5	BLCA
LMNB1	0	.	GRCh37	5	126156751	126156751	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1310C>T	p.Ser437Leu	p.S437L	ENST00000261366	7/11	91	75	16	89	89	0	LMNB1,missense_variant,p.Ser437Leu,ENST00000261366,;LMNB1,downstream_gene_variant,,ENST00000395354,;LMNB1,non_coding_transcript_exon_variant,,ENST00000460265,;LMNB1,non_coding_transcript_exon_variant,,ENST00000494185,;LMNB1,non_coding_transcript_exon_variant,,ENST00000504788,;LMNB1,downstream_gene_variant,,ENST00000472034,;LMNB1,non_coding_transcript_exon_variant,,ENST00000512460,;	T	ENSG00000113368	ENST00000261366	Transcript	missense_variant	1671	1310	437	S/L	tCa/tTa	.	.	.	1	LMNB1	HGNC	6637	protein_coding	YES	CCDS4140.1	ENSP00000261366	LMNB1_HUMAN	E9PBF6_HUMAN	UPI000013D170	.	deleterious(0.01)	probably_damaging(0.925)	7/11	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF74853,Gene3D:2.60.40.1260,Pfam_domain:PF00932,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCAGCCA	.	4	BLCA
H2AFY	0	.	GRCh37	5	134705239	134705239	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334G>A	p.Glu112Lys	p.E112K	ENST00000511689	4/9	73	59	14	92	92	0	H2AFY,missense_variant,p.Glu112Lys,ENST00000510038,;H2AFY,missense_variant,p.Glu112Lys,ENST00000304332,;H2AFY,missense_variant,p.Glu112Lys,ENST00000312469,;H2AFY,missense_variant,p.Glu112Lys,ENST00000511689,;H2AFY,intron_variant,,ENST00000423969,;H2AFY,non_coding_transcript_exon_variant,,ENST00000506532,;H2AFY,non_coding_transcript_exon_variant,,ENST00000508785,;H2AFY,non_coding_transcript_exon_variant,,ENST00000360597,;H2AFY,non_coding_transcript_exon_variant,,ENST00000513210,;H2AFY,non_coding_transcript_exon_variant,,ENST00000508120,;H2AFY,missense_variant,p.Glu112Lys,ENST00000506671,;H2AFY,non_coding_transcript_exon_variant,,ENST00000506218,;H2AFY,non_coding_transcript_exon_variant,,ENST00000507868,;H2AFY,non_coding_transcript_exon_variant,,ENST00000504197,;	T	ENSG00000113648	ENST00000511689	Transcript	missense_variant	928	334	112	E/K	Gag/Aag	.	.	.	-1	H2AFY	HGNC	4740	protein_coding	YES	CCDS4185.1	ENSP00000423563	H2AY_HUMAN	.	UPI00000723ED	.	deleterious(0.04)	probably_damaging(0.995)	4/9	.	hmmpanther:PTHR23430,hmmpanther:PTHR23430:SF20,Gene3D:1.10.20.10,PIRSF_domain:PIRSF037942,SMART_domains:SM00414,Superfamily_domains:SSF47113,Prints_domain:PR00620	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCGGGGT	.	5	BLCA
C5orf20	0	.	GRCh37	5	134782763	134782763	+	Silent	SNP	C	C	T	rs142525704	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36G>A	p.%3D	p.S12S	ENST00000503143	1/1	30	25	5	37	37	0	C5orf20,synonymous_variant,p.%3D,ENST00000503143,;TIFAB,3_prime_UTR_variant,,ENST00000537858,;CTB-138E5.1,upstream_gene_variant,,ENST00000510230,;	T	ENSG00000251380	ENST00000503143	Transcript	synonymous_variant	276	36	12	S	tcG/tcA	rs142525704	.	.	-1	C5orf20	HGNC	24459	protein_coding	YES	CCDS4186.1	ENSP00000421871	DCNP1_HUMAN	.	UPI000006FF8B	.	.	.	1/1	.	.	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCGAGTT	byCluster	4	BLCA
SLC25A48	0	.	GRCh37	5	135188251	135188251	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.163-1G>T	.	p.X55_splice	ENST00000412661	.	76	57	18	70	70	0	SLC25A48,splice_acceptor_variant,,ENST00000420621,;SLC25A48,splice_acceptor_variant,,ENST00000433282,;SLC25A48,splice_acceptor_variant,,ENST00000412661,;SLC25A48,splice_acceptor_variant,,ENST00000274513,;SLC25A48,intron_variant,,ENST00000425402,;SLC25A48,splice_acceptor_variant,,ENST00000462340,;	T	ENSG00000145832	ENST00000412661	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	SLC25A48	HGNC	30451	protein_coding	YES	CCDS43366.2	ENSP00000413049	S2548_HUMAN	.	UPI000006FF97	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F56F|c.168C>T|3,BUFFER|p.F56F|c.168C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGATGTT	.	5	BLCA
TRPC7	0	.	GRCh37	5	135601982	135601982	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1271A>C	p.Tyr424Ser	p.Y424S	ENST00000513104	5/12	91	68	23	123	123	0	TRPC7,missense_variant,p.Tyr369Ser,ENST00000502753,;TRPC7,missense_variant,p.Tyr363Ser,ENST00000378459,;TRPC7,missense_variant,p.Tyr424Ser,ENST00000513104,;TRPC7,missense_variant,p.Tyr308Ser,ENST00000426057,;TRPC7,missense_variant,p.Tyr363Ser,ENST00000355180,;TRPC7,missense_variant,p.Tyr308Ser,ENST00000352189,;TRPC7,3_prime_UTR_variant,,ENST00000503275,;TRPC7,intron_variant,,ENST00000514963,;	G	ENSG00000069018	ENST00000513104	Transcript	missense_variant	1554	1271	424	Y/S	tAc/tCc	.	.	.	-1	TRPC7	HGNC	20754	protein_coding	YES	CCDS47267.2	ENSP00000426070	TRPC7_HUMAN	.	UPI000004F27A	.	tolerated(0.1)	benign(0.001)	5/12	.	TIGRFAM_domain:TIGR00870,hmmpanther:PTHR10117,hmmpanther:PTHR10117:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGGTAGTCT	.	5	BLCA
TRPC7	0	.	GRCh37	5	135692793	135692793	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283G>A	p.Glu95Lys	p.E95K	ENST00000513104	2/12	85	73	12	77	77	0	TRPC7,missense_variant,p.Glu95Lys,ENST00000502753,;TRPC7,missense_variant,p.Glu95Lys,ENST00000378459,;TRPC7,missense_variant,p.Glu95Lys,ENST00000513104,;TRPC7,missense_variant,p.Glu95Lys,ENST00000426057,;TRPC7,missense_variant,p.Glu95Lys,ENST00000355180,;TRPC7,missense_variant,p.Glu95Lys,ENST00000352189,;TRPC7,missense_variant,p.Glu95Lys,ENST00000514963,;TRPC7,missense_variant,p.Glu95Lys,ENST00000503275,;	T	ENSG00000069018	ENST00000513104	Transcript	missense_variant	566	283	95	E/K	Gag/Aag	.	.	.	-1	TRPC7	HGNC	20754	protein_coding	YES	CCDS47267.2	ENSP00000426070	TRPC7_HUMAN	.	UPI000004F27A	.	tolerated(0.14)	possibly_damaging(0.67)	2/12	.	Superfamily_domains:SSF48403,SMART_domains:SM00248,TIGRFAM_domain:TIGR00870,Pfam_domain:PF12796,Gene3D:1.25.40.20,hmmpanther:PTHR10117,hmmpanther:PTHR10117:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCGTGA	.	4	BLCA
KIF20A	0	.	GRCh37	5	137518338	137518338	+	Missense_Mutation	SNP	G	G	A	rs374761244	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.578G>A	p.Gly193Asp	p.G193D	ENST00000394894	6/19	34	31	3	44	44	0	KIF20A,missense_variant,p.Gly193Asp,ENST00000504621,;KIF20A,missense_variant,p.Gly175Asp,ENST00000508792,;KIF20A,missense_variant,p.Gly193Asp,ENST00000394894,;BRD8,upstream_gene_variant,,ENST00000254900,;BRD8,upstream_gene_variant,,ENST00000455658,;BRD8,upstream_gene_variant,,ENST00000402931,;BRD8,upstream_gene_variant,,ENST00000411594,;BRD8,upstream_gene_variant,,ENST00000430331,;BRD8,upstream_gene_variant,,ENST00000454473,;BRD8,upstream_gene_variant,,ENST00000418329,;BRD8,upstream_gene_variant,,ENST00000230901,;KIF20A,downstream_gene_variant,,ENST00000513276,;BRD8,upstream_gene_variant,,ENST00000441656,;BRD8,upstream_gene_variant,,ENST00000425764,;KIF20A,downstream_gene_variant,,ENST00000503417,;BRD8,upstream_gene_variant,,ENST00000471437,;BRD8,upstream_gene_variant,,ENST00000432618,;BRD8,upstream_gene_variant,,ENST00000515254,;BRD8,upstream_gene_variant,,ENST00000512140,;BRD8,upstream_gene_variant,,ENST00000450756,;BRD8,upstream_gene_variant,,ENST00000428808,;KIF20A,upstream_gene_variant,,ENST00000502338,;KIF20A,downstream_gene_variant,,ENST00000511638,;	A	ENSG00000112984	ENST00000394894	Transcript	missense_variant	804	578	193	G/D	gGc/gAc	rs374761244	.	.	1	KIF20A	HGNC	9787	protein_coding	YES	CCDS4199.1	ENSP00000378356	KI20A_HUMAN	D6RBN1_HUMAN,D6R9E4_HUMAN	UPI0000000CCE	.	tolerated(0.19)	benign(0.015)	6/19	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF352,hmmpanther:PTHR24115,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAAGGCCAAC	byFrequency|byCluster	2	BLCA
KDM3B	0	.	GRCh37	5	137726903	137726903	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1582C>A	p.Gln528Lys	p.Q528K	ENST00000314358	8/24	40	29	11	58	58	0	KDM3B,missense_variant,p.Gln184Lys,ENST00000394866,;KDM3B,missense_variant,p.Gln528Lys,ENST00000314358,;KDM3B,intron_variant,,ENST00000542866,;KDM3B,3_prime_UTR_variant,,ENST00000510866,;KDM3B,intron_variant,,ENST00000507996,;	A	ENSG00000120733	ENST00000314358	Transcript	missense_variant	1782	1582	528	Q/K	Caa/Aaa	.	.	.	1	KDM3B	HGNC	1337	protein_coding	YES	CCDS34242.1	ENSP00000326563	KDM3B_HUMAN	F5H275_HUMAN	UPI000020C6A8	.	deleterious_low_confidence(0)	probably_damaging(0.93)	8/24	.	hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCAATGC	.	5	BLCA
PCDHA5	0	.	GRCh37	5	140203412	140203412	+	Silent	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2052C>T	p.%3D	p.G684G	ENST00000529859	1/4	54	40	14	75	75	0	PCDHA5,synonymous_variant,p.%3D,ENST00000529619,;PCDHA5,synonymous_variant,p.%3D,ENST00000378126,;PCDHA5,synonymous_variant,p.%3D,ENST00000529859,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA6,upstream_gene_variant,,ENST00000527624,;PCDHA6,upstream_gene_variant,,ENST00000529310,;	T	ENSG00000204965	ENST00000529859	Transcript	synonymous_variant	2052	2052	684	G	ggC/ggT	COSM3850936,COSM3850937,COSM3850935	.	.	1	PCDHA5	HGNC	8671	protein_coding	YES	CCDS54917.1	ENSP00000436557	PCDA5_HUMAN	.	UPI00001273CD	.	.	.	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF111	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGGCGCTGT	.	5	BLCA
PCDHA6	0	.	GRCh37	5	140209293	140209293	+	Silent	SNP	C	C	T	rs782385691,rs782706109	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1617C>T	p.%3D	p.D539D	ENST00000529310	1/4	102	75	26	131	131	0	PCDHA6,synonymous_variant,p.%3D,ENST00000529310,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA7,upstream_gene_variant,,ENST00000378125,;PCDHA7,upstream_gene_variant,,ENST00000525929,;	T	ENSG00000081842	ENST00000529310	Transcript	synonymous_variant	1731	1617	539	D	gaC/gaT	rs782385691,rs782706109	.	.	1	PCDHA6	HGNC	8672	protein_coding	YES	CCDS47281.1	ENSP00000433378	PCDA6_HUMAN	.	UPI00001273CE	.	.	.	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF83,hmmpanther:PTHR24028,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCGACGCGGG	byFrequency	4	BLCA
PCDHB5	0	.	GRCh37	5	140517078	140517078	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2062T>C	p.Tyr688His	p.Y688H	ENST00000231134	1/1	115	85	29	125	125	0	PCDHB5,missense_variant,p.Tyr688His,ENST00000231134,;	C	ENSG00000113209	ENST00000231134	Transcript	missense_variant	2279	2062	688	Y/H	Tac/Cac	.	.	.	1	PCDHB5	HGNC	8690	protein_coding	YES	CCDS4247.1	ENSP00000231134	PCDB5_HUMAN	.	UPI00001273E1	.	deleterious_low_confidence(0.03)	benign(0.144)	1/1	.	hmmpanther:PTHR24028:SF64,hmmpanther:PTHR24028,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTCTACCTG	.	5	BLCA
PCDHGA2	0	.	GRCh37	5	140720341	140720341	+	Silent	SNP	C	C	T	rs750438014	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1803C>T	p.%3D	p.N601N	ENST00000394576	1/4	83	60	23	100	100	0	PCDHGA2,synonymous_variant,p.%3D,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA3,upstream_gene_variant,,ENST00000253812,;PCDHGA2,non_coding_transcript_exon_variant,,ENST00000528330,;	T	ENSG00000081853	ENST00000394576	Transcript	synonymous_variant	1803	1803	601	N	aaC/aaT	rs750438014	.	.	1	PCDHGA2	HGNC	8700	protein_coding	YES	CCDS47289.1	ENSP00000378077	PCDG2_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000072E67	.	.	.	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF109,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAACGCCTG	byFrequency	5	BLCA
PCDHGC3	0	.	GRCh37	5	140856200	140856200	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.517G>A	p.Glu173Lys	p.E173K	ENST00000308177	1/4	42	34	8	38	38	0	PCDHGC3,missense_variant,p.Glu173Lys,ENST00000308177,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGA10,intron_variant,,ENST00000398610,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA12,intron_variant,,ENST00000252085,;PCDHGA11,intron_variant,,ENST00000398587,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA11,intron_variant,,ENST00000518882,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGB7,intron_variant,,ENST00000398594,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;RN7SL68P,upstream_gene_variant,,ENST00000488078,;	A	ENSG00000240184	ENST00000308177	Transcript	missense_variant	621	517	173	E/K	Gag/Aag	.	.	.	1	PCDHGC3	HGNC	8716	protein_coding	YES	CCDS4261.1	ENSP00000312070	PCDGK_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000006F34F	.	tolerated(0.25)	possibly_damaging(0.577)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF70,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTATGAGCTG	.	5	BLCA
LARS	0	.	GRCh37	5	145502111	145502111	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3136G>C	p.Asp1046His	p.D1046H	ENST00000394434	30/32	55	41	14	53	53	0	LARS,missense_variant,p.Asp1046His,ENST00000394434,;LARS,missense_variant,p.Asp1000His,ENST00000545646,;LARS,missense_variant,p.Asp1019His,ENST00000274562,;LARS,missense_variant,p.Asp992His,ENST00000510191,;RP11-118M9.3,downstream_gene_variant,,ENST00000514002,;LARS,non_coding_transcript_exon_variant,,ENST00000506231,;LARS,downstream_gene_variant,,ENST00000508709,;	G	ENSG00000133706	ENST00000394434	Transcript	missense_variant	3303	3136	1046	D/H	Gat/Cat	.	.	.	-1	LARS	HGNC	6512	protein_coding	YES	CCDS34265.1	ENSP00000377954	SYLC_HUMAN	Q9NVC0_HUMAN,Q9NPU8_HUMAN,Q9HAM7_HUMAN,Q2TU79_HUMAN,B4DJ10_HUMAN,B3KXA9_HUMAN	UPI0000037316	.	deleterious(0.01)	benign(0.027)	30/32	.	hmmpanther:PTHR11946:SF51,hmmpanther:PTHR11946,TIGRFAM_domain:TIGR00395	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATCTTCTG	.	5	BLCA
TNIP1	0	.	GRCh37	5	150411896	150411896	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1828C>A	p.Gln610Lys	p.Q610K	ENST00000389378	17/18	21	17	3	27	27	0	TNIP1,missense_variant,p.Gln557Lys,ENST00000520931,;TNIP1,missense_variant,p.Gln610Lys,ENST00000389378,;TNIP1,missense_variant,p.Gln610Lys,ENST00000521591,;TNIP1,missense_variant,p.Gln610Lys,ENST00000518977,;TNIP1,missense_variant,p.Gln546Lys,ENST00000523200,;TNIP1,missense_variant,p.Gln610Lys,ENST00000523338,;TNIP1,missense_variant,p.Gln610Lys,ENST00000315050,;TNIP1,missense_variant,p.Gln610Lys,ENST00000522226,;TNIP1,intron_variant,,ENST00000517504,;TNIP1,intron_variant,,ENST00000524280,;GPX3,downstream_gene_variant,,ENST00000517973,;GPX3,downstream_gene_variant,,ENST00000520059,;GPX3,downstream_gene_variant,,ENST00000521632,;GPX3,downstream_gene_variant,,ENST00000388825,;GPX3,downstream_gene_variant,,ENST00000521650,;TNIP1,non_coding_transcript_exon_variant,,ENST00000521423,;TNIP1,3_prime_UTR_variant,,ENST00000519339,;TNIP1,non_coding_transcript_exon_variant,,ENST00000522574,;GPX3,downstream_gene_variant,,ENST00000520597,;TNIP1,downstream_gene_variant,,ENST00000517329,;	T	ENSG00000145901	ENST00000389378	Transcript	missense_variant	2417	1828	610	Q/K	Cag/Aag	.	.	.	-1	TNIP1	HGNC	16903	protein_coding	YES	CCDS34280.1	ENSP00000374029	TNIP1_HUMAN	E7EWG2_HUMAN,E7EW68_HUMAN,E7EW15_HUMAN,B7Z5B0_HUMAN,A4F1X2_HUMAN,A4F1W8_HUMAN	UPI000000DCDC	.	deleterious_low_confidence(0.04)	probably_damaging(0.968)	17/18	.	hmmpanther:PTHR31882:SF3,hmmpanther:PTHR31882	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R606Q|c.1817G>A|3	RADIA|MUTECT|MUSE|VARSCANS	GCTCTGATTTG	.	4	BLCA
TNIP1	0	.	GRCh37	5	150441747	150441747	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298C>G	p.Pro100Ala	p.P100A	ENST00000389378	4/18	38	29	9	37	37	0	TNIP1,missense_variant,p.Pro47Ala,ENST00000522100,;TNIP1,missense_variant,p.Pro100Ala,ENST00000518977,;TNIP1,missense_variant,p.Pro100Ala,ENST00000523200,;TNIP1,missense_variant,p.Pro100Ala,ENST00000523338,;TNIP1,missense_variant,p.Pro47Ala,ENST00000520931,;TNIP1,missense_variant,p.Pro100Ala,ENST00000524280,;TNIP1,missense_variant,p.Pro100Ala,ENST00000315050,;TNIP1,missense_variant,p.Pro100Ala,ENST00000522226,;TNIP1,missense_variant,p.Pro100Ala,ENST00000520695,;TNIP1,missense_variant,p.Pro100Ala,ENST00000389378,;TNIP1,missense_variant,p.Pro100Ala,ENST00000521001,;TNIP1,missense_variant,p.Pro100Ala,ENST00000521591,;TNIP1,missense_variant,p.Pro47Ala,ENST00000519339,;	C	ENSG00000145901	ENST00000389378	Transcript	missense_variant	887	298	100	P/A	Ccc/Gcc	.	.	.	-1	TNIP1	HGNC	16903	protein_coding	YES	CCDS34280.1	ENSP00000374029	TNIP1_HUMAN	E7EWG2_HUMAN,E7EW68_HUMAN,E7EW15_HUMAN,B7Z5B0_HUMAN,A4F1X2_HUMAN,A4F1W8_HUMAN	UPI000000DCDC	.	tolerated(0.15)	benign(0.002)	4/18	.	hmmpanther:PTHR31882:SF3,hmmpanther:PTHR31882	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGGGAGATG	.	5	BLCA
ITGA2	0	.	GRCh37	5	52344486	52344486	+	Silent	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516C>G	p.%3D	p.L172L	ENST00000296585	6/30	127	91	35	129	129	0	ITGA2,synonymous_variant,p.%3D,ENST00000296585,;ITGA2,synonymous_variant,p.%3D,ENST00000510722,;ITGA2,synonymous_variant,p.%3D,ENST00000509960,;ITGA2,synonymous_variant,p.%3D,ENST00000509814,;ITGA2,3_prime_UTR_variant,,ENST00000513685,;ITGA2,intron_variant,,ENST00000503810,;	G	ENSG00000164171	ENST00000296585	Transcript	synonymous_variant	659	516	172	L	ctC/ctG	.	.	.	1	ITGA2	HGNC	6137	protein_coding	YES	CCDS3957.1	ENSP00000296585	ITA2_HUMAN	Q71V33_HUMAN,G3LGR5_HUMAN,F1C629_HUMAN,F1C627_HUMAN,E7ESP4_HUMAN	UPI0000169C36	.	.	.	6/30	.	Superfamily_domains:SSF53300,SMART_domains:SM00327,hmmpanther:PTHR23220,hmmpanther:PTHR23220:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCATAGA	.	5	BLCA
PDE4D	0	.	GRCh37	5	59064365	59064365	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.455+124630C>G	.	.	ENST00000340635	.	115	80	34	110	110	0	PDE4D,5_prime_UTR_variant,,ENST00000507116,;PDE4D,5_prime_UTR_variant,,ENST00000502575,;PDE4D,intron_variant,,ENST00000546160,;PDE4D,intron_variant,,ENST00000340635,;PDE4D,intron_variant,,ENST00000502484,;PDE4D,intron_variant,,ENST00000405053,;PDE4D,intron_variant,,ENST00000512069,;PDE4D,intron_variant,,ENST00000514231,;PDE4D,upstream_gene_variant,,ENST00000309641,;	C	ENSG00000113448	ENST00000340635	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PDE4D	HGNC	8783	protein_coding	YES	CCDS47213.1	ENSP00000345502	PDE4D_HUMAN	D6RHE0_HUMAN	UPI0000050EB1	.	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCAAGAATCC	.	5	BLCA
TNPO1	0	.	GRCh37	5	72151662	72151662	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267G>C	p.Gln89His	p.Q89H	ENST00000337273	4/25	30	24	6	32	32	0	TNPO1,missense_variant,p.Gln81His,ENST00000506351,;TNPO1,missense_variant,p.Gln81His,ENST00000447967,;TNPO1,missense_variant,p.Gln89His,ENST00000337273,;TNPO1,intron_variant,,ENST00000454282,;TNPO1,intron_variant,,ENST00000523768,;TNPO1,non_coding_transcript_exon_variant,,ENST00000513944,;TNPO1,non_coding_transcript_exon_variant,,ENST00000506528,;TNPO1,non_coding_transcript_exon_variant,,ENST00000509030,;TNPO1,non_coding_transcript_exon_variant,,ENST00000515483,;TNPO1,intron_variant,,ENST00000511754,;TNPO1,intron_variant,,ENST00000518279,;TNPO1,missense_variant,p.Gln89His,ENST00000520850,;	C	ENSG00000083312	ENST00000337273	Transcript	missense_variant	693	267	89	Q/H	caG/caC	.	.	.	1	TNPO1	HGNC	6401	protein_coding	YES	CCDS43329.1	ENSP00000336712	TNPO1_HUMAN	S4R398_HUMAN	UPI000020CAB6	.	tolerated(0.33)	benign(0)	4/25	.	Superfamily_domains:SSF48371,SMART_domains:SM00913,Gene3D:1.25.10.10,Pfam_domain:PF03810,hmmpanther:PTHR10527:SF21,hmmpanther:PTHR10527,PROSITE_profiles:PS50166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCAGAACTT	.	5	BLCA
TMEM174	0	.	GRCh37	5	72469436	72469436	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366C>T	p.%3D	p.F122F	ENST00000296776	1/2	61	47	14	70	70	0	TMEM174,synonymous_variant,p.%3D,ENST00000296776,;TMEM174,non_coding_transcript_exon_variant,,ENST00000511737,;	T	ENSG00000164325	ENST00000296776	Transcript	synonymous_variant	415	366	122	F	ttC/ttT	.	.	.	1	TMEM174	HGNC	28187	protein_coding	YES	CCDS4018.1	ENSP00000296776	TM174_HUMAN	.	UPI0000037779	.	.	.	1/2	.	hmmpanther:PTHR31020,Pfam_domain:PF15029	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCACTGG	.	5	BLCA
SERINC5	0	.	GRCh37	5	79441966	79441966	+	Silent	SNP	G	G	A	rs368333548	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1185C>T	p.%3D	p.F395F	ENST00000512721	11/12	71	61	10	83	83	0	SERINC5,synonymous_variant,p.%3D,ENST00000509193,;SERINC5,synonymous_variant,p.%3D,ENST00000507668,;SERINC5,synonymous_variant,p.%3D,ENST00000512972,;SERINC5,synonymous_variant,p.%3D,ENST00000512721,;CTC-458I2.2,downstream_gene_variant,,ENST00000511484,;	A	ENSG00000164300	ENST00000512721	Transcript	synonymous_variant	1342	1185	395	F	ttC/ttT	rs368333548,COSM3920419,COSM3920418	.	.	-1	SERINC5	HGNC	18825	protein_coding	YES	CCDS54874.1	ENSP00000420863	SERC5_HUMAN	.	UPI000004E86E	.	.	.	11/12	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10383,hmmpanther:PTHR10383:SF16,Pfam_domain:PF03348	.	.	.	.	.	.	.	A:0.0003	A:0	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AACACGAAGTG	byFrequency|byCluster	3	BLCA
TTC37	0	.	GRCh37	5	94861310	94861310	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1202C>A	p.Ser401Ter	p.S401*	ENST00000358746	14/43	219	161	58	208	208	0	TTC37,stop_gained,p.Ser353Ter,ENST00000514952,;TTC37,stop_gained,p.Ser401Ter,ENST00000358746,;RNU6-308P,downstream_gene_variant,,ENST00000390957,;TTC37,downstream_gene_variant,,ENST00000504421,;TTC37,stop_gained,p.Ser19Ter,ENST00000513232,;TTC37,intron_variant,,ENST00000505578,;TTC37,upstream_gene_variant,,ENST00000507805,;TTC37,downstream_gene_variant,,ENST00000503279,;	T	ENSG00000198677	ENST00000358746	Transcript	stop_gained	1501	1202	401	S/*	tCa/tAa	.	.	.	-1	TTC37	HGNC	23639	protein_coding	YES	CCDS4072.1	ENSP00000351596	TTC37_HUMAN	D6RDA0_HUMAN	UPI00000709BD	.	.	.	14/43	.	PROSITE_profiles:PS50005,PROSITE_profiles:PS50293,hmmpanther:PTHR15704,Pfam_domain:PF13181,Superfamily_domains:SSF81901,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAATGAACCT	.	5	BLCA
GCNT2	0	.	GRCh37	6	10586763	10586763	+	Intron	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.926-34821G>C	.	.	ENST00000379597	.	93	66	27	130	130	0	GCNT2,missense_variant,p.Glu181Gln,ENST00000265012,;GCNT2,intron_variant,,ENST00000495262,;GCNT2,intron_variant,,ENST00000316170,;GCNT2,intron_variant,,ENST00000379597,;GCNT2,intron_variant,,ENST00000410107,;GCNT2,intron_variant,,ENST00000459872,;GCNT2,intron_variant,,ENST00000397423,;GCNT2,intron_variant,,ENST00000489225,;GCNT2,intron_variant,,ENST00000475577,;GCNT2,intron_variant,,ENST00000474518,;GCNT2,intron_variant,,ENST00000489819,;GCNT2,intron_variant,,ENST00000485764,;GCNT2,intron_variant,,ENST00000461400,;	C	ENSG00000111846	ENST00000379597	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	GCNT2	HGNC	4204	protein_coding	YES	CCDS34338.1	ENSP00000368917	GNT2A_HUMAN	Q8N7N7_HUMAN,Q08M29_HUMAN	UPI000006E705	.	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTGAGGTT	.	5	BLCA
EPB41L2	0	.	GRCh37	6	131277388	131277388	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238C>A	p.Pro80Thr	p.P80T	ENST00000337057	2/20	76	60	15	82	82	0	EPB41L2,missense_variant,p.Pro80Thr,ENST00000525193,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000527659,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000392427,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000445890,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000528282,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000532499,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000530481,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000337057,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000531356,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000526983,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000530707,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000525271,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000368128,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000529208,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000529709,;EPB41L2,missense_variant,p.Pro80Thr,ENST00000527411,;EPB41L2,intron_variant,,ENST00000530148,;EPB41L2,intron_variant,,ENST00000526333,;EPB41L2,intron_variant,,ENST00000528179,;	T	ENSG00000079819	ENST00000337057	Transcript	missense_variant	420	238	80	P/T	Cca/Aca	.	.	.	-1	EPB41L2	HGNC	3379	protein_coding	YES	CCDS5141.1	ENSP00000338481	E41L2_HUMAN	E9PRG1_HUMAN,E9PQN0_HUMAN,E9PQD2_HUMAN,E9PJP4_HUMAN,E9PIG0_HUMAN	UPI0000129AF9	.	tolerated(0.2)	probably_damaging(0.991)	2/20	.	PIRSF_domain:PIRSF002304	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATGGCGGTA	.	5	BLCA
BCLAF1	0	.	GRCh37	6	136597038	136597038	+	Missense_Mutation	SNP	G	G	C	rs752325261	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1625C>G	p.Ser542Cys	p.S542C	ENST00000531224	5/13	193	164	28	231	231	0	BCLAF1,missense_variant,p.Ser542Cys,ENST00000529826,;BCLAF1,missense_variant,p.Ser542Cys,ENST00000527536,;BCLAF1,missense_variant,p.Ser540Cys,ENST00000392348,;BCLAF1,missense_variant,p.Ser369Cys,ENST00000530767,;BCLAF1,missense_variant,p.Ser542Cys,ENST00000531224,;BCLAF1,missense_variant,p.Ser540Cys,ENST00000353331,;BCLAF1,missense_variant,p.Ser540Cys,ENST00000527759,;BCLAF1,missense_variant,p.Ser542Cys,ENST00000527613,;BCLAF1,missense_variant,p.Ser367Cys,ENST00000534269,;BCLAF1,missense_variant,p.Ser540Cys,ENST00000530429,;BCLAF1,missense_variant,p.Ser542Cys,ENST00000532384,;BCLAF1,3_prime_UTR_variant,,ENST00000533621,;BCLAF1,upstream_gene_variant,,ENST00000476194,;BCLAF1,upstream_gene_variant,,ENST00000532076,;BCLAF1,upstream_gene_variant,,ENST00000534792,;BCLAF1,downstream_gene_variant,,ENST00000528229,;	C	ENSG00000029363	ENST00000531224	Transcript	missense_variant	1878	1625	542	S/C	tCt/tGt	rs752325261	.	.	-1	BCLAF1	HGNC	16863	protein_coding	YES	CCDS5177.1	ENSP00000435210	BCLF1_HUMAN	B0AZU3_HUMAN	UPI000006FCE7	.	deleterious(0.02)	possibly_damaging(0.843)	5/13	.	Pfam_domain:PF15440,hmmpanther:PTHR15268,hmmpanther:PTHR15268:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTGAGAATCA	.	4	BLCA
ZBTB2	0	.	GRCh37	6	151686828	151686828	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1373C>G	p.Ser458Cys	p.S458C	ENST00000325144	3/3	40	32	8	57	57	0	ZBTB2,missense_variant,p.Ser458Cys,ENST00000325144,;	C	ENSG00000181472	ENST00000325144	Transcript	missense_variant	1514	1373	458	S/C	tCc/tGc	.	.	.	-1	ZBTB2	HGNC	20868	protein_coding	YES	CCDS5231.1	ENSP00000323183	ZBTB2_HUMAN	Q658W5_HUMAN	UPI00000728EE	.	tolerated_low_confidence(0.07)	possibly_damaging(0.819)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24399,hmmpanther:PTHR24399:SF0,Pfam_domain:PF00096,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTGGAGAAT	.	5	BLCA
CNKSR3	0	.	GRCh37	6	154732250	154732250	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1097G>A	p.Gly366Glu	p.G366E	ENST00000607772	11/13	54	38	15	61	61	0	CNKSR3,missense_variant,p.Gly366Glu,ENST00000607772,;CNKSR3,missense_variant,p.Gly191Glu,ENST00000433165,;CNKSR3,missense_variant,p.Gly128Glu,ENST00000424998,;CNKSR3,missense_variant,p.Gly286Glu,ENST00000479339,;CNKSR3,downstream_gene_variant,,ENST00000454664,;	T	ENSG00000153721	ENST00000607772	Transcript	missense_variant	1642	1097	366	G/E	gGa/gAa	.	.	.	-1	CNKSR3	HGNC	23034	protein_coding	YES	CCDS5246.1	ENSP00000475915	CNKR3_HUMAN	C9JN62_HUMAN,C9IZX4_HUMAN	UPI000020D0EA	.	tolerated(0.62)	benign(0.16)	11/13	.	hmmpanther:PTHR12844,hmmpanther:PTHR12844:SF19,Pfam_domain:PF06663	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCCATAA	.	5	BLCA
EZR	0	.	GRCh37	6	159188083	159188083	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624C>T	p.Arg542Ter	p.R542*	ENST00000367075	14/14	85	63	22	115	115	0	EZR,stop_gained,p.Arg542Ter,ENST00000337147,;EZR,stop_gained,p.Arg510Ter,ENST00000392177,;EZR,stop_gained,p.Arg542Ter,ENST00000367075,;SYTL3,downstream_gene_variant,,ENST00000367081,;SYTL3,downstream_gene_variant,,ENST00000297239,;SYTL3,downstream_gene_variant,,ENST00000360448,;MIR3918,upstream_gene_variant,,ENST00000581555,;	A	ENSG00000092820	ENST00000367075	Transcript	stop_gained	1793	1624	542	R/*	Cga/Tga	.	.	.	-1	EZR	HGNC	12691	protein_coding	YES	CCDS5258.1	ENSP00000356042	EZRI_HUMAN	B7Z9R6_HUMAN	UPI0000167BA1	.	.	.	14/14	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23281,hmmpanther:PTHR23281:SF19,Pfam_domain:PF00769,PIRSF_domain:PIRSF002305,Superfamily_domains:0036951,Prints_domain:PR00661	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTCGGGCCT	.	5	BLCA
NHLRC1	0	.	GRCh37	6	18122076	18122076	+	Silent	SNP	A	A	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762T>C	p.%3D	p.T254T	ENST00000340650	1/1	27	23	4	37	37	0	NHLRC1,synonymous_variant,p.%3D,ENST00000340650,;	G	ENSG00000187566	ENST00000340650	Transcript	synonymous_variant	776	762	254	T	acT/acC	.	.	.	-1	NHLRC1	HGNC	21576	protein_coding	YES	CCDS4542.1	ENSP00000345464	NHLC1_HUMAN	.	UPI0000198CE1	.	.	.	1/1	.	PROSITE_profiles:PS51125,hmmpanther:PTHR24104,Gene3D:2.120.10.30,Superfamily_domains:SSF101898	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTCAGTTCT	.	4	BLCA
OR2W1	0	.	GRCh37	6	29012688	29012688	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>C	p.Asp89His	p.D89H	ENST00000377175	1/1	58	44	13	65	65	0	OR2W1,missense_variant,p.Asp89His,ENST00000377175,;	G	ENSG00000204704	ENST00000377175	Transcript	missense_variant	330	265	89	D/H	Gat/Cat	.	.	.	-1	OR2W1	HGNC	8281	protein_coding	YES	CCDS4656.1	ENSP00000366380	OR2W1_HUMAN	.	UPI000003FF8A	.	deleterious(0.03)	benign(0.01)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF169,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATCAGGTC	.	5	BLCA
TRIM31	0	.	GRCh37	6	30071884	30071884	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1019C>G	p.Ser340Cys	p.S340C	ENST00000376734	8/9	158	121	37	181	181	0	TRIM31,missense_variant,p.Ser340Cys,ENST00000376734,;TRIM31,missense_variant,p.Ser340Cys,ENST00000540829,;TRIM31-AS1,upstream_gene_variant,,ENST00000440874,;TRIM31,downstream_gene_variant,,ENST00000485864,;TRIM31,non_coding_transcript_exon_variant,,ENST00000484583,;TRIM31,non_coding_transcript_exon_variant,,ENST00000468264,;TRIM31,non_coding_transcript_exon_variant,,ENST00000471695,;TRIM31,downstream_gene_variant,,ENST00000480808,;	C	ENSG00000204616	ENST00000376734	Transcript	missense_variant	1145	1019	340	S/C	tCt/tGt	.	.	.	-1	TRIM31	HGNC	16289	protein_coding	YES	CCDS34374.1	ENSP00000365924	TRI31_HUMAN	Q2L6J1_HUMAN	UPI00001B0109	.	tolerated(0.08)	benign(0.326)	8/9	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGAAGAT	.	5	BLCA
TNXB	0	.	GRCh37	6	32036316	32036316	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6071G>C	p.Gly2024Ala	p.G2024A	ENST00000375247	17/44	27	19	8	37	37	0	TNXB,missense_variant,p.Gly2024Ala,ENST00000375247,;TNXB,missense_variant,p.Gly2024Ala,ENST00000375244,;	G	ENSG00000168477	ENST00000375247	Transcript	missense_variant	6273	6071	2024	G/A	gGa/gCa	COSM1288561,COSM1288560	.	.	-1	TNXB	HGNC	11976	protein_coding	.	.	ENSP00000364396	TENX_HUMAN	Q9NPK8_HUMAN,Q9NPK7_HUMAN,B6RHJ5_HUMAN	UPI000174F11D	.	.	benign(0.04)	17/44	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR19143:SF190,hmmpanther:PTHR19143,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCCATTC	.	5	BLCA
HLA-DRA	0	.	GRCh37	6	32410273	32410273	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131C>T	p.Ser44Leu	p.S44L	ENST00000395388	2/5	85	69	16	131	131	0	HLA-DRA,missense_variant,p.Ser44Leu,ENST00000374982,;HLA-DRA,missense_variant,p.Ser44Leu,ENST00000395388,;	T	ENSG00000204287	ENST00000395388	Transcript	missense_variant	240	131	44	S/L	tCa/tTa	.	.	.	1	HLA-DRA	HGNC	4947	protein_coding	YES	CCDS4750.1	ENSP00000378786	DRA_HUMAN	Q29868_HUMAN,O19720_HUMAN,O19670_HUMAN,A1A436_HUMAN	UPI000000160D	.	deleterious(0.01)	benign(0.015)	2/5	.	Superfamily_domains:SSF54452,SMART_domains:SM00920,Gene3D:3.10.320.10,Pfam_domain:PF00993,hmmpanther:PTHR19944,hmmpanther:PTHR19944:SF47	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAATCAGGCG	.	4	BLCA
HLA-DQB2	0	.	GRCh37	6	32725587	32725587	+	Intron	SNP	G	G	A	rs761941061	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.647-506C>T	.	.	ENST00000411527	.	12	8	4	19	19	0	HLA-DQB2,synonymous_variant,p.%3D,ENST00000437316,;HLA-DQB2,synonymous_variant,p.%3D,ENST00000435145,;HLA-DQB2,intron_variant,,ENST00000427449,;HLA-DQB2,intron_variant,,ENST00000411527,;	A	ENSG00000232629	ENST00000411527	Transcript	intron_variant	.	.	.	.	.	rs761941061	.	.	-1	HLA-DQB2	HGNC	4945	protein_coding	YES	CCDS56419.1	ENSP00000390431	DQB2_HUMAN	.	UPI0000457414	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L237L|c.711G>C|5	MUTECT|SOMATICSNIPER|MUSE	AGCCCGAGGAA	byFrequency	3	BLCA
RPS18	0	.	GRCh37	6	33244009	33244009	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.348G>C	p.Lys116Asn	p.K116N	ENST00000439602	5/6	33	27	5	50	50	0	RPS18,missense_variant,p.Lys46Asn,ENST00000474973,;RPS18,missense_variant,p.Lys116Asn,ENST00000439602,;VPS52,upstream_gene_variant,,ENST00000436044,;VPS52,upstream_gene_variant,,ENST00000482399,;WDR46,downstream_gene_variant,,ENST00000444176,;WDR46,downstream_gene_variant,,ENST00000374617,;VPS52,upstream_gene_variant,,ENST00000445902,;B3GALT4,upstream_gene_variant,,ENST00000451237,;RPS18,non_coding_transcript_exon_variant,,ENST00000476222,;VPS52,upstream_gene_variant,,ENST00000478934,;VPS52,upstream_gene_variant,,ENST00000464425,;WDR46,downstream_gene_variant,,ENST00000461951,;VPS52,upstream_gene_variant,,ENST00000463486,;B3GALT4,upstream_gene_variant,,ENST00000606990,;RPS18,non_coding_transcript_exon_variant,,ENST00000496813,;RPS18,non_coding_transcript_exon_variant,,ENST00000490191,;RPS18,non_coding_transcript_exon_variant,,ENST00000474626,;RPS18,non_coding_transcript_exon_variant,,ENST00000472218,;RPS18,non_coding_transcript_exon_variant,,ENST00000479802,;WDR46,downstream_gene_variant,,ENST00000473611,;WDR46,downstream_gene_variant,,ENST00000489905,;	C	ENSG00000231500	ENST00000439602	Transcript	missense_variant	458	348	116	K/N	aaG/aaC	COSM3873125	.	.	1	RPS18	HGNC	10401	protein_coding	YES	CCDS4771.1	ENSP00000393241	RS18_HUMAN	Q5GGW2_HUMAN,J3JS69_HUMAN	UPI00000040B5	.	deleterious(0.01)	possibly_damaging(0.89)	5/6	.	PROSITE_profiles:PS50159,HAMAP:MF_01315,hmmpanther:PTHR10871,Gene3D:4.10.910.10,Pfam_domain:PF00416,PIRSF_domain:PIRSF002134,Superfamily_domains:SSF46946	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGATTCG	.	5	BLCA
KIF6	0	.	GRCh37	6	39563915	39563915	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.761C>T	p.Ser254Leu	p.S254L	ENST00000287152	7/23	39	34	5	47	47	0	KIF6,missense_variant,p.Ser41Leu,ENST00000441975,;KIF6,missense_variant,p.Ser254Leu,ENST00000287152,;KIF6,missense_variant,p.Ser93Leu,ENST00000373213,;KIF6,missense_variant,p.Ser254Leu,ENST00000373215,;KIF6,missense_variant,p.Ser254Leu,ENST00000373216,;KIF6,missense_variant,p.Ser254Leu,ENST00000538893,;KIF6,missense_variant,p.Ser146Leu,ENST00000458470,;	A	ENSG00000164627	ENST00000287152	Transcript	missense_variant	856	761	254	S/L	tCa/tTa	.	.	.	-1	KIF6	HGNC	21202	protein_coding	YES	CCDS4844.1	ENSP00000287152	KIF6_HUMAN	.	UPI0000457436	.	deleterious(0)	probably_damaging(1)	7/23	.	Prints_domain:PR00380,Superfamily_domains:SSF52540,SMART_domains:SM00129,Gene3D:3.40.850.10,Pfam_domain:PF00225,PROSITE_patterns:PS00411,hmmpanther:PTHR24115:SF194,hmmpanther:PTHR24115,PROSITE_profiles:PS50067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTGAACCA	.	4	BLCA
TCTE1	0	.	GRCh37	6	44254250	44254250	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297G>C	p.Gln99His	p.Q99H	ENST00000371505	3/5	58	45	13	72	72	0	TCTE1,missense_variant,p.Gln99His,ENST00000371505,;TCTE1,5_prime_UTR_variant,,ENST00000371503,;TMEM151B,intron_variant,,ENST00000438774,;TCTE1,upstream_gene_variant,,ENST00000371504,;RP11-444E17.6,intron_variant,,ENST00000505802,;	G	ENSG00000146221	ENST00000371505	Transcript	missense_variant	420	297	99	Q/H	caG/caC	.	.	.	-1	TCTE1	HGNC	11693	protein_coding	YES	CCDS4910.1	ENSP00000360560	TCTE1_HUMAN	.	UPI0000160BC0	.	tolerated(0.33)	benign(0.008)	3/5	.	hmmpanther:PTHR24107,hmmpanther:PTHR24107:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCTGCTT	.	5	BLCA
TINAG	0	.	GRCh37	6	54173587	54173587	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.239T>C	p.Leu80Ser	p.L80S	ENST00000259782	1/11	89	66	23	112	112	0	TINAG,missense_variant,p.Leu76Ser,ENST00000370869,;TINAG,missense_variant,p.Leu62Ser,ENST00000370864,;TINAG,missense_variant,p.Leu80Ser,ENST00000259782,;TINAG,non_coding_transcript_exon_variant,,ENST00000486436,;	C	ENSG00000137251	ENST00000259782	Transcript	missense_variant	335	239	80	L/S	tTg/tCg	.	.	.	1	TINAG	HGNC	14599	protein_coding	YES	CCDS4955.1	ENSP00000259782	TINAG_HUMAN	B1AQ11_HUMAN	UPI000013D078	.	deleterious(0)	benign(0.309)	1/11	.	SMART_domains:SM00201,Pfam_domain:PF01033,hmmpanther:PTHR12411:SF274,hmmpanther:PTHR12411,PROSITE_profiles:PS50958	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGTTGTGCT	.	5	BLCA
CNR1	0	.	GRCh37	6	88853780	88853780	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1214G>A	p.Arg405Gln	p.R405Q	ENST00000537554	2/2	46	41	5	69	69	0	CNR1,missense_variant,p.Arg405Gln,ENST00000369499,;CNR1,missense_variant,p.Arg405Gln,ENST00000428600,;CNR1,missense_variant,p.Arg405Gln,ENST00000535130,;CNR1,missense_variant,p.Arg344Gln,ENST00000549716,;CNR1,missense_variant,p.Arg405Gln,ENST00000369501,;CNR1,missense_variant,p.Arg372Gln,ENST00000468898,;CNR1,missense_variant,p.Arg405Gln,ENST00000537554,;CNR1,missense_variant,p.Arg405Gln,ENST00000549890,;CNR1,3_prime_UTR_variant,,ENST00000362094,;CNR1,downstream_gene_variant,,ENST00000551417,;	T	ENSG00000118432	ENST00000537554	Transcript	missense_variant	4777	1214	405	R/Q	cGa/cAa	COSM1446358	.	.	-1	CNR1	HGNC	2159	protein_coding	YES	CCDS5015.1	ENSP00000441046	CNR1_HUMAN	S5TLS4_HUMAN,Q9BYY6_HUMAN,F8W187_HUMAN	UPI00000008AA	.	deleterious(0.01)	probably_damaging(0.996)	2/2	.	hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF10,Gene3D:1.20.1070.10,PIRSF_domain:PIRSF037995,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR00362	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTGTCGCAGG	.	2	BLCA
LAMB1	0	.	GRCh37	7	107594060	107594060	+	Silent	SNP	G	G	C	rs138741168	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2994C>G	p.%3D	p.L998L	ENST00000222399	22/34	62	37	24	61	61	0	LAMB1,synonymous_variant,p.%3D,ENST00000393561,;LAMB1,synonymous_variant,p.%3D,ENST00000222399,;LAMB1,non_coding_transcript_exon_variant,,ENST00000476039,;LAMB1,upstream_gene_variant,,ENST00000479448,;	C	ENSG00000091136	ENST00000222399	Transcript	synonymous_variant	3225	2994	998	L	ctC/ctG	rs138741168	.	.	-1	LAMB1	HGNC	6486	protein_coding	YES	CCDS5750.1	ENSP00000222399	LAMB1_HUMAN	Q75MC8_HUMAN,E9PCS6_HUMAN	UPI00001AE63F	.	.	.	22/34	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF233,hmmpanther:PTHR10574,PROSITE_patterns:PS01248,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00181,SMART_domains:SM00180,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTGAGACA	.	5	BLCA
LAMB1	0	.	GRCh37	7	107594154	107594154	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2900C>A	p.Ser967Ter	p.S967*	ENST00000222399	22/34	84	50	34	74	74	0	LAMB1,stop_gained,p.Ser991Ter,ENST00000393561,;LAMB1,stop_gained,p.Ser967Ter,ENST00000222399,;LAMB1,upstream_gene_variant,,ENST00000476039,;LAMB1,upstream_gene_variant,,ENST00000479448,;	T	ENSG00000091136	ENST00000222399	Transcript	stop_gained	3131	2900	967	S/*	tCa/tAa	.	.	.	-1	LAMB1	HGNC	6486	protein_coding	YES	CCDS5750.1	ENSP00000222399	LAMB1_HUMAN	Q75MC8_HUMAN,E9PCS6_HUMAN	UPI00001AE63F	.	.	.	22/34	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF233,hmmpanther:PTHR10574,PROSITE_patterns:PS01248,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00180,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGATGGA	.	5	BLCA
ARL4A	0	.	GRCh37	7	12728200	12728200	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321G>A	p.%3D	p.R107R	ENST00000396663	2/2	43	25	17	34	34	0	ARL4A,synonymous_variant,p.%3D,ENST00000404894,;ARL4A,synonymous_variant,p.%3D,ENST00000396664,;ARL4A,synonymous_variant,p.%3D,ENST00000396662,;ARL4A,synonymous_variant,p.%3D,ENST00000396663,;ARL4A,synonymous_variant,p.%3D,ENST00000356797,;ARL4A,downstream_gene_variant,,ENST00000439721,;CTD-2320J21.1,downstream_gene_variant,,ENST00000604949,;	A	ENSG00000122644	ENST00000396663	Transcript	synonymous_variant	803	321	107	R	agG/agA	.	.	.	1	ARL4A	HGNC	695	protein_coding	YES	CCDS5359.1	ENSP00000379898	ARL4A_HUMAN	C9J7Q9_HUMAN	UPI000005273E	.	.	.	2/2	.	PROSITE_profiles:PS51417,hmmpanther:PTHR11711:SF139,hmmpanther:PTHR11711,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,Pfam_domain:PF00025,SMART_domains:SM00177,SMART_domains:SM00178,SMART_domains:SM00175,SMART_domains:SM00173,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAGGATGGA	.	5	BLCA
RBM28	0	.	GRCh37	7	127983807	127983807	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.41C>T	p.Ser14Leu	p.S14L	ENST00000223073	1/19	22	18	4	12	12	0	RBM28,missense_variant,p.Ser14Leu,ENST00000478061,;RBM28,missense_variant,p.Ser14Leu,ENST00000459726,;RBM28,missense_variant,p.Ser14Leu,ENST00000223073,;RBM28,missense_variant,p.Ser14Leu,ENST00000415472,;RNU7-27P,upstream_gene_variant,,ENST00000459281,;	A	ENSG00000106344	ENST00000223073	Transcript	missense_variant	156	41	14	S/L	tCg/tTg	.	.	.	-1	RBM28	HGNC	21863	protein_coding	YES	CCDS5801.1	ENSP00000223073	RBM28_HUMAN	.	UPI000006FFF1	.	deleterious(0)	possibly_damaging(0.764)	1/19	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Pfam_domain:PF00076,Gene3D:3.30.70.330,hmmpanther:PTHR24622:SF163,hmmpanther:PTHR24622,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCCGAGGGC	.	2	BLCA
FAM71F1	0	.	GRCh37	7	128355598	128355598	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103G>A	p.Glu35Lys	p.E35K	ENST00000315184	1/7	53	34	19	56	56	0	FAM71F1,missense_variant,p.Glu35Lys,ENST00000315184,;FAM71F1,intron_variant,,ENST00000485070,;FAM71F1,upstream_gene_variant,,ENST00000466842,;FAM71F1,non_coding_transcript_exon_variant,,ENST00000483459,;FAM71F1,intron_variant,,ENST00000469348,;FAM71F1,missense_variant,p.Glu35Lys,ENST00000471558,;FAM71F1,intron_variant,,ENST00000484425,;FAM71F1,intron_variant,,ENST00000493738,;	A	ENSG00000135248	ENST00000315184	Transcript	missense_variant	156	103	35	E/K	Gaa/Aaa	.	.	.	1	FAM71F1	HGNC	30704	protein_coding	YES	CCDS5804.1	ENSP00000326652	F71F1_HUMAN	H7C4R1_HUMAN	UPI000006D961	.	tolerated_low_confidence(0.79)	benign(0.015)	1/7	.	hmmpanther:PTHR22574:SF10,hmmpanther:PTHR22574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGAAGAATTC	.	5	BLCA
WDR91	0	.	GRCh37	7	134891901	134891901	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565C>G	p.Gln189Glu	p.Q189E	ENST00000354475	4/15	81	72	9	56	56	0	WDR91,missense_variant,p.Gln189Glu,ENST00000354475,;WDR91,missense_variant,p.Gln189Glu,ENST00000344400,;WDR91,missense_variant,p.Gln154Glu,ENST00000423565,;AC009542.2,downstream_gene_variant,,ENST00000595902,;WDR91,upstream_gene_variant,,ENST00000485942,;WDR91,non_coding_transcript_exon_variant,,ENST00000466182,;	C	ENSG00000105875	ENST00000354475	Transcript	missense_variant	597	565	189	Q/E	Caa/Gaa	.	.	.	-1	WDR91	HGNC	24997	protein_coding	YES	CCDS34758.1	ENSP00000346466	WDR91_HUMAN	.	UPI000006F2DE	.	tolerated(0.28)	benign(0.01)	4/15	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13083	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTGAACCT	.	4	BLCA
OR2A2	0	.	GRCh37	7	143807033	143807033	+	Missense_Mutation	SNP	G	G	A	rs763818273	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358G>A	p.Asp120Asn	p.D120N	ENST00000408979	1/1	114	97	17	113	113	0	OR2A2,missense_variant,p.Asp120Asn,ENST00000408979,;	A	ENSG00000221989	ENST00000408979	Transcript	missense_variant	427	358	120	D/N	Gat/Aat	rs763818273,COSM3635485	.	.	1	OR2A2	HGNC	8230	protein_coding	YES	CCDS43671.1	ENSP00000386209	OR2A2_HUMAN	.	UPI0000061E70	.	deleterious(0)	probably_damaging(0.988)	1/1	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,PROSITE_patterns:PS00237,hmmpanther:PTHR26453:SF82,hmmpanther:PTHR26453,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTATGATAGG	.	5	BLCA
SSPO	0	.	GRCh37	7	149477916	149477916	+	RNA	SNP	G	G	A	rs770473754	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1687G>A	.	.	ENST00000378016	13/109	24	19	4	24	24	0	SSPO,non_coding_transcript_exon_variant,,ENST00000378016,;SSPO,non_coding_transcript_exon_variant,,ENST00000262089,;SSPO,intron_variant,,ENST00000486824,;SSPO,downstream_gene_variant,,ENST00000465080,;SSPO,upstream_gene_variant,,ENST00000477518,;SSPO,upstream_gene_variant,,ENST00000493502,;	A	ENSG00000197558	ENST00000378016	Transcript	non_coding_transcript_exon_variant	1687	.	.	.	.	rs770473754	.	.	1	SSPO	HGNC	21998	processed_transcript	YES	.	.	.	.	.	.	.	.	13/109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGCCGAGTGT	byFrequency	5	BLCA
FASTK	0	.	GRCh37	7	150773875	150773875	+	Silent	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1587C>G	p.%3D	p.L529L	ENST00000297532	10/10	16	12	4	9	9	0	FASTK,synonymous_variant,p.%3D,ENST00000297532,;FASTK,synonymous_variant,p.%3D,ENST00000353841,;FASTK,synonymous_variant,p.%3D,ENST00000482571,;FASTK,3_prime_UTR_variant,,ENST00000540185,;SLC4A2,downstream_gene_variant,,ENST00000413384,;TMUB1,downstream_gene_variant,,ENST00000392818,;SLC4A2,downstream_gene_variant,,ENST00000485713,;SLC4A2,downstream_gene_variant,,ENST00000392826,;TMUB1,downstream_gene_variant,,ENST00000488752,;TMUB1,downstream_gene_variant,,ENST00000297533,;SLC4A2,downstream_gene_variant,,ENST00000310317,;SLC4A2,downstream_gene_variant,,ENST00000461735,;TMUB1,downstream_gene_variant,,ENST00000482202,;TMUB1,downstream_gene_variant,,ENST00000462940,;TMUB1,downstream_gene_variant,,ENST00000476627,;RP11-148K1.12,upstream_gene_variant,,ENST00000485974,;FASTK,non_coding_transcript_exon_variant,,ENST00000489884,;SLC4A2,downstream_gene_variant,,ENST00000482697,;FASTK,downstream_gene_variant,,ENST00000496663,;FASTK,downstream_gene_variant,,ENST00000461979,;FASTK,downstream_gene_variant,,ENST00000478477,;FASTK,non_coding_transcript_exon_variant,,ENST00000460980,;FASTK,non_coding_transcript_exon_variant,,ENST00000466855,;FASTK,non_coding_transcript_exon_variant,,ENST00000483953,;FASTK,non_coding_transcript_exon_variant,,ENST00000482806,;FASTK,non_coding_transcript_exon_variant,,ENST00000469237,;FASTK,non_coding_transcript_exon_variant,,ENST00000465272,;FASTK,non_coding_transcript_exon_variant,,ENST00000467237,;SLC4A2,downstream_gene_variant,,ENST00000472204,;SLC4A2,downstream_gene_variant,,ENST00000460010,;FASTK,downstream_gene_variant,,ENST00000478883,;FASTK,downstream_gene_variant,,ENST00000459800,;SLC4A2,downstream_gene_variant,,ENST00000469467,;SLC4A2,downstream_gene_variant,,ENST00000493040,;	C	ENSG00000164896	ENST00000297532	Transcript	synonymous_variant	1665	1587	529	L	ctC/ctG	.	.	.	-1	FASTK	HGNC	24676	protein_coding	YES	CCDS5918.1	ENSP00000297532	FASTK_HUMAN	.	UPI0000000CBA	.	.	.	10/10	.	PROSITE_profiles:PS51286,hmmpanther:PTHR21228,hmmpanther:PTHR21228:SF4,Pfam_domain:PF08373,SMART_domains:SM00952	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCTTGAGCTG	.	5	BLCA
DNAH11	0	.	GRCh37	7	21934407	21934407	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12938T>C	p.Leu4313Pro	p.L4313P	ENST00000328843	79/83	21	12	9	20	20	0	DNAH11,missense_variant,p.Leu4313Pro,ENST00000328843,;DNAH11,missense_variant,p.Leu4306Pro,ENST00000409508,;DNAH11,non_coding_transcript_exon_variant,,ENST00000479878,;	C	ENSG00000105877	ENST00000328843	Transcript	missense_variant	12969	12938	4313	L/P	cTg/cCg	.	.	.	1	DNAH11	HGNC	2942	protein_coding	YES	.	ENSP00000330671	DYH11_HUMAN	Q75MY1_HUMAN,Q75KM7_HUMAN,O95705_HUMAN,O43352_HUMAN,O15433_HUMAN	UPI000041AC4D	.	.	probably_damaging(1)	79/83	.	hmmpanther:PTHR10676:SF227,hmmpanther:PTHR10676,Pfam_domain:PF03028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAACTGGACC	.	5	BLCA
KLHL7	0	.	GRCh37	7	23183567	23183567	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.716C>G	p.Ser239Ter	p.S239*	ENST00000339077	6/11	120	62	58	74	74	0	KLHL7,stop_gained,p.Ser191Ter,ENST00000409689,;KLHL7,stop_gained,p.Ser163Ter,ENST00000539124,;KLHL7,stop_gained,p.Ser239Ter,ENST00000339077,;KLHL7,stop_gained,p.Ser217Ter,ENST00000322231,;KLHL7,stop_gained,p.Ser217Ter,ENST00000545443,;KLHL7,stop_gained,p.Ser7Ter,ENST00000414163,;KLHL7,stop_gained,p.Ser14Ter,ENST00000542558,;KLHL7,downstream_gene_variant,,ENST00000459661,;KLHL7,downstream_gene_variant,,ENST00000479288,;KLHL7,3_prime_UTR_variant,,ENST00000521082,;	G	ENSG00000122550	ENST00000339077	Transcript	stop_gained	959	716	239	S/*	tCa/tGa	.	.	.	1	KLHL7	HGNC	15646	protein_coding	YES	CCDS34609.1	ENSP00000343273	KLHL7_HUMAN	E5RFN1_HUMAN,B7Z4N7_HUMAN,B7Z3P9_HUMAN	UPI0000037B12	.	.	.	6/11	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF151,Pfam_domain:PF07707,SMART_domains:SM00875,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATCAAAGA	.	5	BLCA
HNRNPA2B1	0	.	GRCh37	7	26232149	26232149	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1049G>A	p.Arg350Lys	p.R350K	ENST00000354667	11/12	166	107	58	138	138	0	HNRNPA2B1,missense_variant,p.Arg350Lys,ENST00000354667,;HNRNPA2B1,missense_variant,p.Arg338Lys,ENST00000356674,;HNRNPA2B1,upstream_gene_variant,,ENST00000476233,;HNRNPA2B1,missense_variant,p.Arg350Lys,ENST00000360787,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000490912,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000463181,;HNRNPA2B1,downstream_gene_variant,,ENST00000495810,;	T	ENSG00000122566	ENST00000354667	Transcript	missense_variant	1218	1049	350	R/K	aGg/aAg	.	.	.	-1	HNRNPA2B1	HGNC	5033	protein_coding	YES	CCDS43557.1	ENSP00000346694	ROA2_HUMAN	.	UPI000002F091	.	tolerated_low_confidence(0.29)	benign(0.02)	11/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24012:SF329,hmmpanther:PTHR24012	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCTCCTCCCA	.	5	BLCA
SNX10	0	.	GRCh37	7	26386037	26386037	+	Intron	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-23-3C>T	.	.	ENST00000338523	.	85	68	17	70	70	0	SNX10,splice_region_variant,,ENST00000338523,;SNX10,splice_region_variant,,ENST00000416246,;SNX10,splice_region_variant,,ENST00000446848,;SNX10,splice_region_variant,,ENST00000412416,;SNX10,splice_region_variant,,ENST00000396376,;	T	ENSG00000086300	ENST00000338523	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	SNX10	HGNC	14974	protein_coding	YES	CCDS5399.1	ENSP00000343709	SNX10_HUMAN	Q75MY3_HUMAN,Q75MD2_HUMAN,G5E9H5_HUMAN	UPI000003E7DF	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCAGATT	.	4	BLCA
TBRG4	0	.	GRCh37	7	45148632	45148632	+	Missense_Mutation	SNP	C	C	T	rs776163137	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205G>A	p.Glu69Lys	p.E69K	ENST00000258770	2/11	58	49	8	58	58	0	TBRG4,missense_variant,p.Glu69Lys,ENST00000361278,;TBRG4,missense_variant,p.Glu69Lys,ENST00000475893,;TBRG4,missense_variant,p.Glu69Lys,ENST00000495078,;TBRG4,missense_variant,p.Glu69Lys,ENST00000482285,;TBRG4,missense_variant,p.Glu69Lys,ENST00000258770,;TBRG4,missense_variant,p.Glu69Lys,ENST00000494076,;TBRG4,missense_variant,p.Glu69Lys,ENST00000395655,;TBRG4,missense_variant,p.Glu15Lys,ENST00000461363,;TBRG4,missense_variant,p.Glu69Lys,ENST00000478532,;TBRG4,upstream_gene_variant,,ENST00000483615,;SNORA5B,upstream_gene_variant,,ENST00000363786,;SNORA5A,upstream_gene_variant,,ENST00000384111,;SNORA5C,upstream_gene_variant,,ENST00000364902,;TBRG4,non_coding_transcript_exon_variant,,ENST00000471142,;TBRG4,upstream_gene_variant,,ENST00000484326,;TBRG4,upstream_gene_variant,,ENST00000477328,;TBRG4,upstream_gene_variant,,ENST00000495973,;TBRG4,upstream_gene_variant,,ENST00000488222,;	T	ENSG00000136270	ENST00000258770	Transcript	missense_variant	327	205	69	E/K	Gag/Aag	rs776163137	.	.	-1	TBRG4	HGNC	17443	protein_coding	YES	CCDS5501.1	ENSP00000258770	TBRG4_HUMAN	D3DVL7_HUMAN,C9J7P5_HUMAN,C9J618_HUMAN,C9J5A2_HUMAN,C9J347_HUMAN,B4DU42_HUMAN,B3KRS4_HUMAN	UPI0000071F89	.	tolerated(0.22)	benign(0.018)	2/11	.	hmmpanther:PTHR21228:SF26,hmmpanther:PTHR21228	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCTATGT	byFrequency	5	BLCA
TNS3	0	.	GRCh37	7	47408374	47408374	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1869C>T	p.%3D	p.V623V	ENST00000398879	17/31	59	36	23	74	74	0	TNS3,synonymous_variant,p.%3D,ENST00000398879,;TNS3,synonymous_variant,p.%3D,ENST00000311160,;TNS3,synonymous_variant,p.%3D,ENST00000457718,;TNS3,synonymous_variant,p.%3D,ENST00000355730,;TNS3,downstream_gene_variant,,ENST00000450444,;TNS3,downstream_gene_variant,,ENST00000469470,;	A	ENSG00000136205	ENST00000398879	Transcript	synonymous_variant	2236	1869	623	V	gtC/gtT	.	.	.	-1	TNS3	HGNC	21616	protein_coding	YES	CCDS5506.2	ENSP00000381854	TENS3_HUMAN	C9JWN9_HUMAN,C9JTD0_HUMAN	UPI00001AE9DA	.	.	.	17/31	.	hmmpanther:PTHR12305:SF41,hmmpanther:PTHR12305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTGGACGAG	.	5	BLCA
ABCA13	0	.	GRCh37	7	48316034	48316034	+	Silent	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6771G>T	p.%3D	p.L2257L	ENST00000435803	17/62	29	24	5	10	10	0	ABCA13,synonymous_variant,p.%3D,ENST00000435803,;ABCA13,downstream_gene_variant,,ENST00000417403,;	T	ENSG00000179869	ENST00000435803	Transcript	synonymous_variant	6795	6771	2257	L	ctG/ctT	.	.	.	1	ABCA13	HGNC	14638	protein_coding	YES	CCDS47584.1	ENSP00000411096	ABCAD_HUMAN	.	UPI00001A95EA	.	.	.	17/62	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTGAGAAG	.	4	BLCA
ABCA13	0	.	GRCh37	7	48353826	48353826	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9682-3C>G	.	.	ENST00000435803	.	24	16	7	23	23	0	ABCA13,splice_region_variant,,ENST00000435803,;ABCA13,splice_region_variant,,ENST00000484268,;	G	ENSG00000179869	ENST00000435803	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ABCA13	HGNC	14638	protein_coding	YES	CCDS47584.1	ENSP00000411096	ABCAD_HUMAN	.	UPI00001A95EA	.	.	.	.	25/61	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAGGTT	.	4	BLCA
RAC1	0	.	GRCh37	7	6441986	6441986	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.545G>A	p.Arg182Gln	p.R182Q	ENST00000356142	7/7	55	28	27	53	53	0	RAC1,missense_variant,p.Arg182Gln,ENST00000356142,;RAC1,missense_variant,p.Arg163Gln,ENST00000348035,;RAC1,non_coding_transcript_exon_variant,,ENST00000488373,;RAC1,non_coding_transcript_exon_variant,,ENST00000497741,;RAC1,non_coding_transcript_exon_variant,,ENST00000495499,;RAC1,non_coding_transcript_exon_variant,,ENST00000473564,;	A	ENSG00000136238	ENST00000356142	Transcript	missense_variant	742	545	182	R/Q	cGa/cAa	.	.	.	1	RAC1	HGNC	9801	protein_coding	YES	CCDS5349.1	ENSP00000348461	RAC1_HUMAN	A4D2P0_HUMAN	UPI000002B20E	.	tolerated(0.09)	benign(0.042)	7/7	.	PROSITE_profiles:PS51420,hmmpanther:PTHR24072:SF107,hmmpanther:PTHR24072,Gene3D:3.40.50.300,Pfam_domain:PF00071,SMART_domains:SM00175,SMART_domains:SM00174,SMART_domains:SM00173,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGAGGCC	.	5	BLCA
ZNF12	0	.	GRCh37	7	6730897	6730897	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1676C>T	p.Ser559Phe	p.S559F	ENST00000405858	5/5	45	37	8	31	31	0	ZNF12,missense_variant,p.Ser559Phe,ENST00000405858,;ZNF12,missense_variant,p.Ser485Phe,ENST00000404360,;ZNF12,missense_variant,p.Ser521Phe,ENST00000342651,;AC073343.2,upstream_gene_variant,,ENST00000577401,;AC073343.13,intron_variant,,ENST00000366167,;	A	ENSG00000164631	ENST00000405858	Transcript	missense_variant	2218	1676	559	S/F	tCt/tTt	.	.	.	-1	ZNF12	HGNC	12902	protein_coding	YES	CCDS47538.1	ENSP00000385939	ZNF12_HUMAN	.	UPI000020EAF7	.	tolerated(0.32)	probably_damaging(1)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF85,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGAGAGAAG	.	5	BLCA
CALN1	0	.	GRCh37	7	71252747	71252747	+	3'UTR	SNP	T	T	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*13A>G	.	.	ENST00000395275	7/7	25	13	12	12	12	0	CALN1,3_prime_UTR_variant,,ENST00000395276,;CALN1,3_prime_UTR_variant,,ENST00000395275,;CALN1,3_prime_UTR_variant,,ENST00000329008,;CALN1,downstream_gene_variant,,ENST00000431984,;CALN1,downstream_gene_variant,,ENST00000405452,;CALN1,downstream_gene_variant,,ENST00000412588,;	C	ENSG00000183166	ENST00000395275	Transcript	3_prime_UTR_variant	1188	.	.	.	.	.	.	.	-1	CALN1	HGNC	13248	protein_coding	YES	CCDS47603.1	ENSP00000378690	CABP8_HUMAN	Q86UM7_HUMAN,Q86UL5_HUMAN,Q75MW5_HUMAN,Q75MP5_HUMAN,Q75MI2_HUMAN,E9PFU3_HUMAN,A4D1Z1_HUMAN	UPI0000D4B903	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGCTGGCGG	.	5	BLCA
POM121	0	.	GRCh37	7	72410419	72410419	+	Missense_Mutation	SNP	C	C	G	rs782488425	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.680C>G	p.Ser227Trp	p.S227W	ENST00000395270	11/16	152	107	44	143	143	0	POM121,missense_variant,p.Ser227Trp,ENST00000446813,;POM121,missense_variant,p.Ser227Trp,ENST00000257622,;POM121,missense_variant,p.Ser492Trp,ENST00000434423,;POM121,missense_variant,p.Ser227Trp,ENST00000358357,;POM121,missense_variant,p.Ser227Trp,ENST00000395270,;	G	ENSG00000196313	ENST00000395270	Transcript	missense_variant	1721	680	227	S/W	tCg/tGg	rs782488425	.	.	1	POM121	HGNC	19702	protein_coding	YES	CCDS59059.1	ENSP00000378687	P121A_HUMAN	A8MY32_HUMAN	UPI000013DA6B	.	tolerated(0.24)	probably_damaging(0.959)	11/16	.	hmmpanther:PTHR23193:SF5,hmmpanther:PTHR23193,Pfam_domain:PF15229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCGAATT	.	4	BLCA
TBL2	0	.	GRCh37	7	72985536	72985536	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861C>T	p.%3D	p.F287F	ENST00000305632	6/7	26	12	13	33	33	0	TBL2,synonymous_variant,p.%3D,ENST00000432538,;TBL2,synonymous_variant,p.%3D,ENST00000305632,;TBL2,downstream_gene_variant,,ENST00000452475,;TBL2,non_coding_transcript_exon_variant,,ENST00000459913,;TBL2,downstream_gene_variant,,ENST00000465279,;TBL2,downstream_gene_variant,,ENST00000468669,;TBL2,downstream_gene_variant,,ENST00000476136,;TBL2,downstream_gene_variant,,ENST00000479892,;TBL2,3_prime_UTR_variant,,ENST00000450285,;TBL2,3_prime_UTR_variant,,ENST00000426966,;TBL2,3_prime_UTR_variant,,ENST00000424598,;TBL2,3_prime_UTR_variant,,ENST00000417008,;TBL2,3_prime_UTR_variant,,ENST00000433464,;TBL2,non_coding_transcript_exon_variant,,ENST00000488915,;TBL2,downstream_gene_variant,,ENST00000496056,;TBL2,downstream_gene_variant,,ENST00000437521,;TBL2,downstream_gene_variant,,ENST00000435792,;TBL2,downstream_gene_variant,,ENST00000458466,;TBL2,downstream_gene_variant,,ENST00000495885,;TBL2,downstream_gene_variant,,ENST00000452125,;TBL2,downstream_gene_variant,,ENST00000469518,;	A	ENSG00000106638	ENST00000305632	Transcript	synonymous_variant	1103	861	287	F	ttC/ttT	.	.	.	-1	TBL2	HGNC	11586	protein_coding	YES	CCDS5551.1	ENSP00000307260	TBL2_HUMAN	F2Z3G3_HUMAN,B4DY59_HUMAN	UPI0000048EF4	.	.	.	6/7	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR22847:SF380,hmmpanther:PTHR22847,Pfam_domain:PF00400,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGAGAAAGC	.	5	BLCA
Y_RNA	0	.	GRCh37	7	75145115	75145115	+	5'Flank	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000364004	.	80	70	10	59	59	0	Y_RNA,upstream_gene_variant,,ENST00000364004,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000430602,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000422064,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000437568,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000418756,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000394921,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000533167,;PMS2P3,downstream_gene_variant,,ENST00000438326,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000301956,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000275580,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000434405,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000529061,;	G	ENSG00000200874	ENST00000364004	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	2665	-1	Y_RNA	RFAM	.	misc_RNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CACCTCCACTC	.	2	BLCA
Y_RNA	0	.	GRCh37	7	75145501	75145501	+	5'Flank	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000364004	.	71	54	17	73	73	0	Y_RNA,upstream_gene_variant,,ENST00000364004,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000430602,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000422064,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000437568,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000418756,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000394921,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000533167,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000438326,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000301956,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000275580,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000434405,;PMS2P3,non_coding_transcript_exon_variant,,ENST00000529061,;	T	ENSG00000200874	ENST00000364004	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	3051	-1	Y_RNA	RFAM	.	misc_RNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCCTCCT	.	5	BLCA
MAGI2	0	.	GRCh37	7	77885265	77885265	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2042G>C	p.Arg681Pro	p.R681P	ENST00000354212	10/22	41	37	4	29	29	0	MAGI2,missense_variant,p.Arg513Pro,ENST00000536571,;MAGI2,missense_variant,p.Arg518Pro,ENST00000535697,;MAGI2,missense_variant,p.Arg681Pro,ENST00000354212,;MAGI2,missense_variant,p.Arg681Pro,ENST00000419488,;MAGI2,missense_variant,p.Arg681Pro,ENST00000522391,;MAGI2,non_coding_transcript_exon_variant,,ENST00000519748,;MAGI2,non_coding_transcript_exon_variant,,ENST00000520379,;	G	ENSG00000187391	ENST00000354212	Transcript	missense_variant	2296	2042	681	R/P	cGa/cCa	COSM3640761,COSM3640762	.	.	-1	MAGI2	HGNC	18957	protein_coding	YES	CCDS5594.1	ENSP00000346151	MAGI2_HUMAN	.	UPI00001615D2	.	deleterious(0)	probably_damaging(0.999)	10/22	.	hmmpanther:PTHR10316:SF27,hmmpanther:PTHR10316,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCGATGG	.	4	BLCA
ABCB4	0	.	GRCh37	7	87049354	87049354	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2354G>A	p.Arg785Lys	p.R785K	ENST00000265723	19/28	80	62	17	121	121	0	ABCB4,missense_variant,p.Arg785Lys,ENST00000453593,;ABCB4,missense_variant,p.Arg785Lys,ENST00000265723,;ABCB4,missense_variant,p.Arg785Lys,ENST00000358400,;ABCB4,missense_variant,p.Arg785Lys,ENST00000545634,;ABCB4,missense_variant,p.Arg785Lys,ENST00000359206,;ABCB4,downstream_gene_variant,,ENST00000469770,;	T	ENSG00000005471	ENST00000265723	Transcript	missense_variant	2466	2354	785	R/K	aGa/aAa	COSM3833412	.	.	-1	ABCB4	HGNC	45	protein_coding	YES	CCDS5606.1	ENSP00000265723	MDR3_HUMAN	Q75MQ5_HUMAN,I7D7J8_HUMAN,I7CY13_HUMAN,I7CAJ8_HUMAN,E7EQI1_HUMAN,A8HT68_HUMAN,A7J1S3_HUMAN,A7J1S1_HUMAN,A7J1Q4_HUMAN	UPI000013D66B	.	tolerated(1)	benign(0.001)	19/28	.	PROSITE_profiles:PS50929,hmmpanther:PTHR24221:SF172,hmmpanther:PTHR24221,Pfam_domain:PF00664,Gene3D:2hydA01,Superfamily_domains:SSF90123	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCTGGTG	.	5	BLCA
RUNDC3B	0	.	GRCh37	7	87407138	87407138	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874C>A	p.Leu292Ile	p.L292I	ENST00000338056	9/12	56	28	28	47	47	0	RUNDC3B,missense_variant,p.Leu292Ile,ENST00000338056,;RUNDC3B,missense_variant,p.Leu275Ile,ENST00000394654,;RUNDC3B,missense_variant,p.Leu275Ile,ENST00000493037,;RUNDC3B,non_coding_transcript_exon_variant,,ENST00000312373,;	A	ENSG00000105784	ENST00000338056	Transcript	missense_variant	1285	874	292	L/I	Ctt/Att	.	.	.	1	RUNDC3B	HGNC	30286	protein_coding	YES	CCDS5609.1	ENSP00000337732	RUN3B_HUMAN	.	UPI0000071425	.	deleterious(0.01)	benign(0.391)	9/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22835:SF124,hmmpanther:PTHR22835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R293*|c.877C>T|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TACGACTTCGA	.	5	BLCA
SAMD9	0	.	GRCh37	7	92733362	92733362	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2049C>G	p.Phe683Leu	p.F683L	ENST00000379958	3/3	156	131	25	106	106	0	SAMD9,missense_variant,p.Phe683Leu,ENST00000446617,;SAMD9,missense_variant,p.Phe683Leu,ENST00000379958,;	C	ENSG00000205413	ENST00000379958	Transcript	missense_variant	2319	2049	683	F/L	ttC/ttG	.	.	.	-1	SAMD9	HGNC	1348	protein_coding	YES	CCDS34680.1	ENSP00000369292	SAMD9_HUMAN	C9JKF1_HUMAN	UPI0000038BC6	.	deleterious(0)	probably_damaging(0.989)	3/3	.	hmmpanther:PTHR16155:SF17,hmmpanther:PTHR16155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGATAGAAGTC	.	4	BLCA
LMTK2	0	.	GRCh37	7	97788696	97788696	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.616G>C	p.Glu206Gln	p.E206Q	ENST00000297293	6/14	82	66	15	60	60	0	LMTK2,missense_variant,p.Glu206Gln,ENST00000297293,;	C	ENSG00000164715	ENST00000297293	Transcript	missense_variant	909	616	206	E/Q	Gaa/Caa	.	.	.	1	LMTK2	HGNC	17880	protein_coding	YES	CCDS5654.1	ENSP00000297293	LMTK2_HUMAN	.	UPI000014F277	.	deleterious(0.02)	possibly_damaging(0.777)	6/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF265,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTAGAAGCG	.	5	BLCA
UBR5	0	.	GRCh37	8	103291096	103291096	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6246G>A	p.%3D	p.G2082G	ENST00000520539	44/59	180	109	70	138	138	0	UBR5,synonymous_variant,p.%3D,ENST00000520539,;UBR5,synonymous_variant,p.%3D,ENST00000220959,;UBR5,synonymous_variant,p.%3D,ENST00000521922,;UBR5,upstream_gene_variant,,ENST00000521566,;	T	ENSG00000104517	ENST00000520539	Transcript	synonymous_variant	6853	6246	2082	G	ggG/ggA	.	.	.	-1	UBR5	HGNC	16806	protein_coding	YES	CCDS34933.1	ENSP00000429084	UBR5_HUMAN	Q49A65_HUMAN,E5RFK7_HUMAN,B3KML2_HUMAN	UPI0000129BCB	.	.	.	44/59	.	hmmpanther:PTHR11254:SF77,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTCCCACT	.	5	BLCA
DCSTAMP	0	.	GRCh37	8	105368467	105368467	+	3'UTR	SNP	C	C	T	rs760216940	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*41C>T	.	.	ENST00000297581	4/4	26	10	15	24	24	0	DCSTAMP,3_prime_UTR_variant,,ENST00000297581,;DCSTAMP,downstream_gene_variant,,ENST00000517991,;DCSTAMP,non_coding_transcript_exon_variant,,ENST00000518051,;DCSTAMP,non_coding_transcript_exon_variant,,ENST00000520080,;DPYS,intron_variant,,ENST00000521601,;	T	ENSG00000164935	ENST00000297581	Transcript	3_prime_UTR_variant	1503	.	.	.	.	rs760216940	.	.	1	DCSTAMP	HGNC	18549	protein_coding	YES	CCDS6301.1	ENSP00000297581	DCSTP_HUMAN	.	UPI000003BCB5	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCTCTTC	.	5	BLCA
RAD21	0	.	GRCh37	8	117868915	117868915	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.784G>T	p.Asp262Tyr	p.D262Y	ENST00000297338	7/14	124	66	58	85	85	0	RAD21,missense_variant,p.Asp262Tyr,ENST00000297338,;RAD21,downstream_gene_variant,,ENST00000517485,;RAD21,upstream_gene_variant,,ENST00000518055,;RAD21,downstream_gene_variant,,ENST00000520992,;RAD21,upstream_gene_variant,,ENST00000523986,;RAD21,downstream_gene_variant,,ENST00000523547,;	A	ENSG00000164754	ENST00000297338	Transcript	missense_variant	1072	784	262	D/Y	Gac/Tac	.	.	.	-1	RAD21	HGNC	9811	protein_coding	YES	CCDS6321.1	ENSP00000297338	RAD21_HUMAN	E5RJW1_HUMAN,E5RJK5_HUMAN,E5RIN7_HUMAN,E5RI01_HUMAN,E5RG18_HUMAN,E5RFZ5_HUMAN,E5RFV8_HUMAN	UPI0000133018	.	deleterious(0)	benign(0.423)	7/14	.	hmmpanther:PTHR12585:SF20,hmmpanther:PTHR12585	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCGTCATGTG	.	5	BLCA
COL14A1	0	.	GRCh37	8	121216077	121216077	+	Missense_Mutation	SNP	C	C	G	rs749156062	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1007C>G	p.Ser336Cys	p.S336C	ENST00000297848	9/48	34	25	9	29	29	0	COL14A1,missense_variant,p.Ser93Cys,ENST00000523142,;COL14A1,missense_variant,p.Ser336Cys,ENST00000309791,;COL14A1,missense_variant,p.Ser336Cys,ENST00000537875,;COL14A1,missense_variant,p.Ser149Cys,ENST00000434620,;COL14A1,missense_variant,p.Ser241Cys,ENST00000247781,;COL14A1,missense_variant,p.Ser336Cys,ENST00000297848,;COL14A1,non_coding_transcript_exon_variant,,ENST00000432943,;COL14A1,missense_variant,p.Ser336Cys,ENST00000498051,;	G	ENSG00000187955	ENST00000297848	Transcript	missense_variant	1277	1007	336	S/C	tCt/tGt	rs749156062	.	.	1	COL14A1	HGNC	2191	protein_coding	YES	CCDS34938.1	ENSP00000297848	COEA1_HUMAN	.	UPI000046D377	.	deleterious(0.03)	benign(0.443)	9/48	.	hmmpanther:PTHR22992:SF89,hmmpanther:PTHR22992,Gene3D:3.40.50.410,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCTAGAG	.	5	BLCA
FAM91A1	0	.	GRCh37	8	124801928	124801928	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1354C>G	p.Leu452Val	p.L452V	ENST00000334705	15/24	80	61	19	55	55	0	FAM91A1,missense_variant,p.Leu452Val,ENST00000334705,;FAM91A1,missense_variant,p.Leu452Val,ENST00000521166,;FAM91A1,3_prime_UTR_variant,,ENST00000519721,;FAM91A1,downstream_gene_variant,,ENST00000517912,;FAM91A1,downstream_gene_variant,,ENST00000521704,;	G	ENSG00000176853	ENST00000334705	Transcript	missense_variant	1600	1354	452	L/V	Ctg/Gtg	.	.	.	1	FAM91A1	HGNC	26306	protein_coding	YES	CCDS6346.2	ENSP00000335082	F91A1_HUMAN	H0YC80_HUMAN	UPI0000E5AF4E	.	deleterious(0.01)	probably_damaging(0.967)	15/24	.	Pfam_domain:PF14648	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTTCTGCGT	.	5	BLCA
TG	0	.	GRCh37	8	133898888	133898888	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1271C>T	p.Pro424Leu	p.P424L	ENST00000220616	9/48	155	111	44	133	133	0	TG,missense_variant,p.Pro424Leu,ENST00000220616,;TG,missense_variant,p.Pro424Leu,ENST00000377869,;TG,downstream_gene_variant,,ENST00000523901,;TG,downstream_gene_variant,,ENST00000520769,;	T	ENSG00000042832	ENST00000220616	Transcript	missense_variant	1311	1271	424	P/L	cCa/cTa	.	.	.	1	TG	HGNC	11764	protein_coding	YES	CCDS34944.1	ENSP00000220616	THYG_HUMAN	Q9NYM1_HUMAN,Q9NYD9_HUMAN,E5RG33_HUMAN	UPI000013C79F	.	tolerated(0.14)	benign(0.009)	9/48	.	PIRSF_domain:PIRSF001831	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCCCAATGG	.	5	BLCA
SLC7A2	0	.	GRCh37	8	17422581	17422581	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2023A>T	p.Ile675Phe	p.I675F	ENST00000004531	12/12	32	27	5	33	33	0	SLC7A2,missense_variant,p.Ile635Phe,ENST00000522656,;SLC7A2,missense_variant,p.Ile635Phe,ENST00000494857,;SLC7A2,missense_variant,p.Ile674Phe,ENST00000470360,;SLC7A2,missense_variant,p.Ile674Phe,ENST00000398090,;SLC7A2,missense_variant,p.Ile675Phe,ENST00000004531,;	T	ENSG00000003989	ENST00000004531	Transcript	missense_variant	2071	2023	675	I/F	Att/Ttt	COSM1635712,COSM1635711	.	.	1	SLC7A2	HGNC	11060	protein_coding	YES	CCDS55203.1	ENSP00000004531	CTR2_HUMAN	.	UPI0001A336A4	.	tolerated(0.82)	benign(0.003)	12/12	.	hmmpanther:PTHR11785:SF242,hmmpanther:PTHR11785	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCCATTCAA	.	2	BLCA
ZNF596	0	.	GRCh37	8	195300	195300	+	Nonsense_Mutation	SNP	G	G	A	rs574812154	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453G>A	p.Trp151Ter	p.W151*	ENST00000398612	6/6	56	41	14	55	55	0	ZNF596,stop_gained,p.Trp81Ter,ENST00000320552,;ZNF596,stop_gained,p.Trp151Ter,ENST00000308811,;ZNF596,stop_gained,p.Trp151Ter,ENST00000398612,;ZNF596,downstream_gene_variant,,ENST00000521145,;ZNF596,downstream_gene_variant,,ENST00000518320,;ZNF596,downstream_gene_variant,,ENST00000521270,;ZNF596,downstream_gene_variant,,ENST00000518414,;ZNF596,downstream_gene_variant,,ENST00000522866,;ZNF596,downstream_gene_variant,,ENST00000521238,;ZNF596,3_prime_UTR_variant,,ENST00000523162,;ZNF596,non_coding_transcript_exon_variant,,ENST00000523418,;ZNF596,downstream_gene_variant,,ENST00000523333,;	A	ENSG00000172748	ENST00000398612	Transcript	stop_gained	836	453	151	W/*	tgG/tgA	rs574812154	.	.	1	ZNF596	HGNC	27268	protein_coding	YES	CCDS5951.2	ENSP00000381613	ZN596_HUMAN	E5RJH7_HUMAN,E5RIL8_HUMAN,E5RHT8_HUMAN	UPI0000160DBF	.	.	.	6/6	.	hmmpanther:PTHR24381:SF133,hmmpanther:PTHR24381,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	C:0.0002	C:0	C:0	.	C:0.001	C:0	C:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTGGTTATC	by1000G	5	BLCA
PPP3CC	0	.	GRCh37	8	22332573	22332573	+	Silent	SNP	G	G	A	rs747232518	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156G>A	p.%3D	p.L52L	ENST00000397775	2/15	35	31	4	49	49	0	PPP3CC,synonymous_variant,p.%3D,ENST00000240139,;PPP3CC,synonymous_variant,p.%3D,ENST00000522000,;PPP3CC,synonymous_variant,p.%3D,ENST00000518852,;PPP3CC,synonymous_variant,p.%3D,ENST00000397775,;PPP3CC,synonymous_variant,p.%3D,ENST00000289963,;PPP3CC,upstream_gene_variant,,ENST00000522034,;	A	ENSG00000120910	ENST00000397775	Transcript	synonymous_variant	430	156	52	L	ctG/ctA	rs747232518	.	.	1	PPP3CC	HGNC	9316	protein_coding	YES	CCDS59093.1	ENSP00000380878	PP2BC_HUMAN	E5RJH4_HUMAN	UPI00017A7ABA	.	.	.	2/15	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF186,Gene3D:3.60.21.10,SMART_domains:SM00156,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CGACTGGAAGA	.	3	BLCA
TNFRSF10A	0	.	GRCh37	8	23049303	23049303	+	Missense_Mutation	SNP	C	C	G	rs751666555	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1311G>C	p.Glu437Asp	p.E437D	ENST00000221132	10/10	39	26	12	59	59	0	TNFRSF10A,missense_variant,p.Glu437Asp,ENST00000221132,;RP11-1149O23.2,downstream_gene_variant,,ENST00000518308,;TNFRSF10A,downstream_gene_variant,,ENST00000519862,;	G	ENSG00000104689	ENST00000221132	Transcript	missense_variant	1376	1311	437	E/D	gaG/gaC	rs751666555	.	.	-1	TNFRSF10A	HGNC	11904	protein_coding	YES	CCDS6039.1	ENSP00000221132	TR10A_HUMAN	E5RFH1_HUMAN	UPI000013C7A8	.	tolerated(0.1)	probably_damaging(0.929)	10/10	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50017,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF41,Pfam_domain:PF00531,Gene3D:1.10.533.10,PIRSF_domain:PIRSF037867,SMART_domains:SM00005,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTCTTC	byFrequency	5	BLCA
ADRA1A	0	.	GRCh37	8	26722154	26722154	+	Silent	SNP	G	G	A	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333C>T	p.%3D	p.T111T	ENST00000380586	1/3	24	19	5	55	55	0	ADRA1A,synonymous_variant,p.%3D,ENST00000380573,;ADRA1A,synonymous_variant,p.%3D,ENST00000276393,;ADRA1A,synonymous_variant,p.%3D,ENST00000380586,;ADRA1A,synonymous_variant,p.%3D,ENST00000380572,;ADRA1A,synonymous_variant,p.%3D,ENST00000354550,;ADRA1A,synonymous_variant,p.%3D,ENST00000380587,;ADRA1A,synonymous_variant,p.%3D,ENST00000380581,;ADRA1A,synonymous_variant,p.%3D,ENST00000358857,;ADRA1A,synonymous_variant,p.%3D,ENST00000380582,;ADRA1A,synonymous_variant,p.%3D,ENST00000519229,;ADRA1A,synonymous_variant,p.%3D,ENST00000521711,;ADRA1A,synonymous_variant,p.%3D,ENST00000519096,;	A	ENSG00000120907	ENST00000380586	Transcript	synonymous_variant	769	333	111	T	acC/acT	COSM1489202,COSM1489204,COSM1489203,COSM1489206,COSM1489205	.	.	-1	ADRA1A	HGNC	277	protein_coding	YES	CCDS34869.1	ENSP00000369960	ADA1A_HUMAN	Q7KYZ9_HUMAN,B0ZBD3_HUMAN	UPI000066DA42	.	.	.	1/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24248,hmmpanther:PTHR24248:SF16,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGCGGTGCA	.	5	BLCA
NRG1	0	.	GRCh37	8	32505696	32505696	+	Intron	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502+31293C>G	.	.	ENST00000356819	.	59	44	15	69	69	0	NRG1,missense_variant,p.Gln114Glu,ENST00000523041,;NRG1,missense_variant,p.Gln154Glu,ENST00000520502,;NRG1,intron_variant,,ENST00000338921,;NRG1,intron_variant,,ENST00000520407,;NRG1,intron_variant,,ENST00000287842,;NRG1,intron_variant,,ENST00000523079,;NRG1,intron_variant,,ENST00000521670,;NRG1,intron_variant,,ENST00000519301,;NRG1,intron_variant,,ENST00000356819,;NRG1,intron_variant,,ENST00000341377,;NRG1,intron_variant,,ENST00000518206,;NRG1,intron_variant,,ENST00000518104,;NRG1,intron_variant,,ENST00000523534,;NRG1,intron_variant,,ENST00000405005,;NRG1,intron_variant,,ENST00000287845,;NRG1,intron_variant,,ENST00000522569,;	G	ENSG00000157168	ENST00000356819	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	NRG1	HGNC	7997	protein_coding	YES	CCDS6083.1	ENSP00000349275	NRG1_HUMAN	Q7RTW5_HUMAN,B7Z168_HUMAN	UPI000013DED7	.	.	.	.	5/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCAAGTT	.	5	BLCA
RPS20	0	.	GRCh37	8	56986656	56986656	+	Silent	SNP	G	G	A	rs778397691	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66C>T	p.%3D	p.I22I	ENST00000519807	2/6	143	72	71	129	129	0	RPS20,synonymous_variant,p.%3D,ENST00000523936,;RPS20,synonymous_variant,p.%3D,ENST00000521262,;RPS20,synonymous_variant,p.%3D,ENST00000518875,;RPS20,synonymous_variant,p.%3D,ENST00000519807,;RPS20,synonymous_variant,p.%3D,ENST00000009589,;RPS20,synonymous_variant,p.%3D,ENST00000519606,;RPS20,5_prime_UTR_variant,,ENST00000524349,;RPS20,intron_variant,,ENST00000520627,;SNORD54,upstream_gene_variant,,ENST00000459159,;CTA-397H3.3,upstream_gene_variant,,ENST00000521403,;RPS20,non_coding_transcript_exon_variant,,ENST00000520490,;RPS20,non_coding_transcript_exon_variant,,ENST00000519369,;RPS20,non_coding_transcript_exon_variant,,ENST00000521289,;	A	ENSG00000008988	ENST00000519807	Transcript	synonymous_variant	192	66	22	I	atC/atT	rs778397691	.	.	-1	RPS20	HGNC	10405	protein_coding	YES	CCDS55231.1	ENSP00000429374	RS20_HUMAN	.	UPI000022D6C1	.	.	.	2/6	.	Prints_domain:PR00971,Superfamily_domains:SSF54999,TIGRFAM_domain:TIGR01046,Pfam_domain:PF00338,Gene3D:2vqeJ00,hmmpanther:PTHR11700,HAMAP:MF_00508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGTGATTCG	.	5	BLCA
CPA6	0	.	GRCh37	8	68334800	68334800	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1253G>T	p.Cys418Phe	p.C418F	ENST00000297770	11/11	158	93	64	102	102	0	CPA6,missense_variant,p.Cys174Phe,ENST00000297769,;CPA6,missense_variant,p.Cys418Phe,ENST00000297770,;CPA6,3_prime_UTR_variant,,ENST00000479862,;	A	ENSG00000165078	ENST00000297770	Transcript	missense_variant	1469	1253	418	C/F	tGt/tTt	.	.	.	-1	CPA6	HGNC	17245	protein_coding	YES	CCDS6200.1	ENSP00000297770	CBPA6_HUMAN	.	UPI000003984E	.	deleterious(0)	probably_damaging(1)	11/11	.	hmmpanther:PTHR11705:SF18,hmmpanther:PTHR11705,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTACAGGTG	.	5	BLCA
KCNS2	0	.	GRCh37	8	99440705	99440705	+	Silent	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498C>T	p.%3D	p.L166L	ENST00000287042	2/2	29	22	7	35	35	0	KCNS2,synonymous_variant,p.%3D,ENST00000287042,;KCNS2,synonymous_variant,p.%3D,ENST00000521839,;STK3,intron_variant,,ENST00000517832,;	T	ENSG00000156486	ENST00000287042	Transcript	synonymous_variant	848	498	166	L	ctC/ctT	.	.	.	1	KCNS2	HGNC	6301	protein_coding	YES	CCDS6279.1	ENSP00000287042	KCNS2_HUMAN	.	UPI0000001653	.	.	.	2/2	.	hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF60	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCGGCAA	.	5	BLCA
TGFBR1	0	.	GRCh37	9	101908873	101908873	+	Nonsense_Mutation	SNP	C	C	T	rs200595614	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237C>T	p.Arg413Ter	p.R413*	ENST00000374994	7/9	107	91	16	170	170	0	TGFBR1,stop_gained,p.Arg344Ter,ENST00000550253,;TGFBR1,stop_gained,p.Arg417Ter,ENST00000552516,;TGFBR1,stop_gained,p.Arg336Ter,ENST00000374990,;TGFBR1,stop_gained,p.Arg413Ter,ENST00000374994,;RNA5SP290,upstream_gene_variant,,ENST00000517133,;TGFBR1,intron_variant,,ENST00000549766,;	T	ENSG00000106799	ENST00000374994	Transcript	stop_gained	1354	1237	413	R/*	Cga/Tga	rs200595614,COSM1458899	.	.	1	TGFBR1	HGNC	11772	protein_coding	YES	CCDS6738.1	ENSP00000364133	TGFR1_HUMAN	Q5T7S2_HUMAN,F8VVC4_HUMAN,B4DY26_HUMAN	UPI000011D62A	.	.	.	7/9	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23255:SF61,hmmpanther:PTHR23255,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCTCGACGA	.	4	BLCA
TLR4	0	.	GRCh37	9	120475509	120475509	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1103C>A	p.Ser368Ter	p.S368*	ENST00000355622	3/3	90	47	43	68	68	0	TLR4,stop_gained,p.Ser368Ter,ENST00000355622,;TLR4,stop_gained,p.Ser328Ter,ENST00000394487,;TLR4,non_coding_transcript_exon_variant,,ENST00000472304,;TLR4,downstream_gene_variant,,ENST00000490685,;	A	ENSG00000136869	ENST00000355622	Transcript	stop_gained	1204	1103	368	S/*	tCa/tAa	COSM455247	.	.	1	TLR4	HGNC	11850	protein_coding	YES	CCDS6818.1	ENSP00000363089	TLR4_HUMAN	K9MSZ3_HUMAN,D0EWT7_HUMAN	UPI0000137057	.	.	.	3/3	.	hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF230,Gene3D:3.80.10.10,PIRSF_domain:PIRSF037595,Superfamily_domains:0046394,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCAGAAG	.	5	BLCA
OLFML2A	0	.	GRCh37	9	127570148	127570148	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1257G>A	p.Met419Ile	p.M419I	ENST00000373580	7/8	62	27	35	66	66	0	OLFML2A,missense_variant,p.Met205Ile,ENST00000288815,;OLFML2A,missense_variant,p.Met419Ile,ENST00000373580,;OLFML2A,downstream_gene_variant,,ENST00000331715,;	A	ENSG00000185585	ENST00000373580	Transcript	missense_variant	1257	1257	419	M/I	atG/atA	.	.	.	1	OLFML2A	HGNC	27270	protein_coding	YES	CCDS6857.2	ENSP00000362682	OLM2A_HUMAN	.	UPI00001B6546	.	deleterious(0)	benign(0.072)	7/8	.	PROSITE_profiles:PS51132,hmmpanther:PTHR23192,hmmpanther:PTHR23192:SF29,Pfam_domain:PF02191,SMART_domains:SM00284	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGAAGGA	.	5	BLCA
FCN1	0	.	GRCh37	9	137801707	137801707	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.918G>C	p.Trp306Cys	p.W306C	ENST00000371806	9/9	67	22	45	66	66	0	FCN1,missense_variant,p.Trp306Cys,ENST00000371806,;	G	ENSG00000085265	ENST00000371806	Transcript	missense_variant	1010	918	306	W/C	tgG/tgC	COSM3655503	.	.	-1	FCN1	HGNC	3623	protein_coding	YES	CCDS6985.1	ENSP00000360871	FCN1_HUMAN	Q92531_HUMAN	UPI000012A5A7	.	deleterious(0)	probably_damaging(1)	9/9	.	Superfamily_domains:SSF56496,SMART_domains:SM00186,Pfam_domain:PF00147,Gene3D:4.10.530.10,hmmpanther:PTHR19143:SF165,hmmpanther:PTHR19143,PROSITE_profiles:PS51406	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCCAGTT	.	5	BLCA
MAN1B1	0	.	GRCh37	9	139983355	139983355	+	Missense_Mutation	SNP	G	G	A	rs777414894	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.363G>A	p.Met121Ile	p.M121I	ENST00000371589	3/13	131	46	85	118	118	0	MAN1B1,missense_variant,p.Met95Ile,ENST00000535144,;MAN1B1,missense_variant,p.Met118Ile,ENST00000540346,;MAN1B1,missense_variant,p.Met121Ile,ENST00000371589,;MAN1B1,intron_variant,,ENST00000542372,;MAN1B1,upstream_gene_variant,,ENST00000474902,;UAP1L1,downstream_gene_variant,,ENST00000409858,;UAP1L1,downstream_gene_variant,,ENST00000360271,;AL807752.1,upstream_gene_variant,,ENST00000596585,;MAN1B1,missense_variant,p.Met126Ile,ENST00000544448,;MAN1B1,3_prime_UTR_variant,,ENST00000545539,;MAN1B1,non_coding_transcript_exon_variant,,ENST00000371587,;MAN1B1,downstream_gene_variant,,ENST00000545096,;UAP1L1,downstream_gene_variant,,ENST00000474787,;	A	ENSG00000177239	ENST00000371589	Transcript	missense_variant	436	363	121	M/I	atG/atA	rs777414894	.	.	1	MAN1B1	HGNC	6823	protein_coding	YES	CCDS7029.1	ENSP00000360645	MA1B1_HUMAN	Q8N2P4_HUMAN,B3KQC5_HUMAN	UPI0000169E6E	.	tolerated(0.53)	benign(0.005)	3/13	.	hmmpanther:PTHR11742:SF7,hmmpanther:PTHR11742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAGGCC	.	5	BLCA
CCDC171	0	.	GRCh37	9	15920369	15920369	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3702G>C	p.Leu1234Phe	p.L1234F	ENST00000380701	25/26	73	43	30	84	84	0	CCDC171,missense_variant,p.Leu1234Phe,ENST00000380701,;CCDC171,non_coding_transcript_exon_variant,,ENST00000498725,;CCDC171,non_coding_transcript_exon_variant,,ENST00000470191,;CCDC171,non_coding_transcript_exon_variant,,ENST00000486641,;CCDC171,downstream_gene_variant,,ENST00000472806,;	C	ENSG00000164989	ENST00000380701	Transcript	missense_variant	4030	3702	1234	L/F	ttG/ttC	.	.	.	1	CCDC171	HGNC	29828	protein_coding	YES	CCDS6481.1	ENSP00000370077	CC171_HUMAN	Q8NCV3_HUMAN	UPI000021C44B	.	deleterious(0.01)	probably_damaging(0.999)	25/26	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTGAAATC	.	5	BLCA
HAUS6	0	.	GRCh37	9	19058349	19058349	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2416C>G	p.Pro806Ala	p.P806A	ENST00000380502	16/17	88	70	18	84	84	0	HAUS6,missense_variant,p.Pro670Ala,ENST00000380496,;HAUS6,missense_variant,p.Pro806Ala,ENST00000380502,;HAUS6,downstream_gene_variant,,ENST00000415524,;	C	ENSG00000147874	ENST00000380502	Transcript	missense_variant	2884	2416	806	P/A	Cct/Gct	.	.	.	-1	HAUS6	HGNC	25948	protein_coding	YES	CCDS6489.1	ENSP00000369871	HAUS6_HUMAN	Q5SYF9_HUMAN	UPI00000740C7	.	tolerated(0.19)	possibly_damaging(0.544)	16/17	.	hmmpanther:PTHR16151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATAGGACTAT	.	5	BLCA
HAUS6	0	.	GRCh37	9	19089537	19089537	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457G>C	p.Glu153Gln	p.E153Q	ENST00000380502	5/17	30	21	9	19	19	0	HAUS6,missense_variant,p.Glu17Gln,ENST00000380496,;HAUS6,missense_variant,p.Glu153Gln,ENST00000380502,;Y_RNA,upstream_gene_variant,,ENST00000364248,;	G	ENSG00000147874	ENST00000380502	Transcript	missense_variant	925	457	153	E/Q	Gag/Cag	.	.	.	-1	HAUS6	HGNC	25948	protein_coding	YES	CCDS6489.1	ENSP00000369871	HAUS6_HUMAN	Q5SYF9_HUMAN	UPI00000740C7	.	deleterious(0.02)	benign(0.203)	5/17	.	hmmpanther:PTHR16151,Pfam_domain:PF14661	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTACAA	.	5	BLCA
GDA	0	.	GRCh37	9	74825605	74825605	+	Missense_Mutation	SNP	G	G	C	rs745926375	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387G>C	p.Arg129Ser	p.R129S	ENST00000238018	4/15	43	17	26	44	44	0	GDA,missense_variant,p.Arg129Ser,ENST00000358399,;GDA,missense_variant,p.Arg55Ser,ENST00000545168,;GDA,missense_variant,p.Arg87Ser,ENST00000376986,;GDA,missense_variant,p.Arg104Ser,ENST00000376989,;GDA,missense_variant,p.Arg129Ser,ENST00000238018,;GDA,upstream_gene_variant,,ENST00000414671,;GDA,splice_region_variant,,ENST00000477618,;GDA,missense_variant,p.Arg129Ser,ENST00000475764,;	C	ENSG00000119125	ENST00000238018	Transcript	missense_variant	570	387	129	R/S	agG/agC	rs745926375	.	.	1	GDA	HGNC	4212	protein_coding	YES	CCDS56576.1	ENSP00000238018	GUAD_HUMAN	Q5SZC3_HUMAN,B4DIP8_HUMAN,B3KUM3_HUMAN	UPI000015828B	.	tolerated(0.12)	benign(0.33)	4/15	.	hmmpanther:PTHR11271:SF6,hmmpanther:PTHR11271,Pfam_domain:PF01979,Gene3D:3.20.20.140,TIGRFAM_domain:TIGR02967,Superfamily_domains:SSF51556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGAGGAGAAC	byFrequency	5	BLCA
WNK2	0	.	GRCh37	9	96021516	96021516	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2686G>T	p.Ala896Ser	p.A896S	ENST00000297954	11/30	20	11	9	33	33	0	WNK2,missense_variant,p.Ala892Ser,ENST00000432730,;WNK2,missense_variant,p.Ala508Ser,ENST00000427277,;WNK2,missense_variant,p.Ala508Ser,ENST00000349097,;WNK2,missense_variant,p.Ala500Ser,ENST00000411624,;WNK2,missense_variant,p.Ala896Ser,ENST00000297954,;WNK2,missense_variant,p.Ala896Ser,ENST00000395477,;WNK2,3_prime_UTR_variant,,ENST00000395475,;WNK2,5_prime_UTR_variant,,ENST00000356055,;WNK2,upstream_gene_variant,,ENST00000448251,;WNK2,downstream_gene_variant,,ENST00000448039,;WNK2,non_coding_transcript_exon_variant,,ENST00000464625,;WNK2,upstream_gene_variant,,ENST00000478583,;	T	ENSG00000165238	ENST00000297954	Transcript	missense_variant	2686	2686	896	A/S	Gcc/Tcc	.	.	.	1	WNK2	HGNC	14542	protein_coding	YES	.	ENSP00000297954	WNK2_HUMAN	.	UPI0000236D76	.	.	probably_damaging(0.968)	11/30	.	hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF10,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGCCCTG	.	5	BLCA
STAG2	0	.	GRCh37	X	123190006	123190006	+	Missense_Mutation	SNP	G	G	C	rs773224655	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>C	p.Asp409His	p.D409H	ENST00000218089	14/35	70	56	13	80	80	0	STAG2,missense_variant,p.Asp409His,ENST00000371160,;STAG2,missense_variant,p.Asp340His,ENST00000354548,;STAG2,missense_variant,p.Asp409His,ENST00000371157,;STAG2,missense_variant,p.Asp409His,ENST00000371144,;STAG2,missense_variant,p.Asp409His,ENST00000455404,;STAG2,missense_variant,p.Asp409His,ENST00000218089,;STAG2,missense_variant,p.Asp409His,ENST00000371145,;STAG2,non_coding_transcript_exon_variant,,ENST00000483575,;STAG2,non_coding_transcript_exon_variant,,ENST00000466748,;STAG2,non_coding_transcript_exon_variant,,ENST00000471107,;STAG2,intron_variant,,ENST00000469481,;	C	ENSG00000101972	ENST00000218089	Transcript	missense_variant	1735	1225	409	D/H	Gat/Cat	rs773224655,COSM1176887,COSM1176886	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	deleterious(0)	probably_damaging(1)	14/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGATTGT	byFrequency	5	BLCA
DCAF12L2	0	.	GRCh37	X	125299030	125299030	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.878G>T	p.Ser293Ile	p.S293I	ENST00000538699	2/2	76	57	19	104	104	0	DCAF12L2,missense_variant,p.Ser293Ile,ENST00000538699,;DCAF12L2,missense_variant,p.Ser293Ile,ENST00000360028,;	A	ENSG00000198354	ENST00000538699	Transcript	missense_variant	959	878	293	S/I	aGc/aTc	.	.	.	-1	DCAF12L2	HGNC	32950	protein_coding	YES	CCDS43991.1	ENSP00000441489	DC122_HUMAN	.	UPI0000197594	.	tolerated(0.06)	possibly_damaging(0.812)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19860,hmmpanther:PTHR19860:SF8,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGTGCTCCGG	.	5	BLCA
GPR112	0	.	GRCh37	X	135488065	135488065	+	Frame_Shift_Del	DEL	T	T	-	rs771931957	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8874delT	p.Phe2958LeufsTer6	p.F2958Lfs*6	ENST00000394143	23/26	176	145	31	171	171	0	GPR112,frameshift_variant,p.Phe2711LeufsTer6,ENST00000287534,;GPR112,frameshift_variant,p.Phe2958LeufsTer6,ENST00000370652,;GPR112,frameshift_variant,p.Phe2958LeufsTer6,ENST00000394143,;GPR112,frameshift_variant,p.Phe2753LeufsTer6,ENST00000394141,;GPR112,frameshift_variant,p.Phe2753LeufsTer6,ENST00000412101,;	-	ENSG00000156920	ENST00000394143	Transcript	frameshift_variant	9160	8869	2957	F/X	Ttt/tt	rs771931957	.	.	1	GPR112	HGNC	18992	protein_coding	YES	CCDS35409.1	ENSP00000377699	GP112_HUMAN	.	UPI00004CEC5B	.	.	.	23/26	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF225,Pfam_domain:PF00002,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTGCATTTTTT	.	3	BLCA
ZIC3	0	.	GRCh37	X	136649666	136649666	+	Silent	SNP	C	C	T	rs760583163	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.816C>T	p.%3D	p.F272F	ENST00000287538	1/3	37	32	4	65	65	0	ZIC3,synonymous_variant,p.%3D,ENST00000287538,;ZIC3,synonymous_variant,p.%3D,ENST00000370606,;RP1-137H15.2,upstream_gene_variant,,ENST00000442841,;RP1-137H15.2,upstream_gene_variant,,ENST00000456631,;ZIC3,upstream_gene_variant,,ENST00000478471,;	T	ENSG00000156925	ENST00000287538	Transcript	synonymous_variant	1366	816	272	F	ttC/ttT	rs760583163	.	.	1	ZIC3	HGNC	12874	protein_coding	YES	CCDS14663.1	ENSP00000287538	ZIC3_HUMAN	.	UPI000013C3DD	.	.	.	1/3	.	hmmpanther:PTHR19818,hmmpanther:PTHR19818:SF25,Gene3D:3.30.160.60,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCAGCAC	.	4	BLCA
FGF13	0	.	GRCh37	X	137715050	137715050	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729G>T	p.%3D	p.L243L	ENST00000370603	6/6	178	137	41	171	171	0	FGF13,synonymous_variant,p.%3D,ENST00000441825,;FGF13,synonymous_variant,p.%3D,ENST00000541469,;FGF13,synonymous_variant,p.%3D,ENST00000370603,;FGF13,synonymous_variant,p.%3D,ENST00000315930,;FGF13,synonymous_variant,p.%3D,ENST00000305414,;FGF13,downstream_gene_variant,,ENST00000436198,;FGF13,downstream_gene_variant,,ENST00000455663,;	A	ENSG00000129682	ENST00000370603	Transcript	synonymous_variant	729	729	243	L	ctG/ctT	.	.	.	-1	FGF13	HGNC	3670	protein_coding	YES	CCDS55513.1	ENSP00000359635	FGF13_HUMAN	Q9Y643_HUMAN,B1B1H9_HUMAN,B1AK17_HUMAN	UPI00001484B4	.	.	.	6/6	.	hmmpanther:PTHR11486:SF75,hmmpanther:PTHR11486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGTTCAGCAC	.	5	BLCA
GPM6B	0	.	GRCh37	X	13791096	13791096	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891C>A	p.Ser297Arg	p.S297R	ENST00000316715	8/8	68	50	17	78	78	0	GPM6B,missense_variant,p.Ser153Arg,ENST00000472735,;GPM6B,missense_variant,p.Ser297Arg,ENST00000316715,;GPM6B,missense_variant,p.Ser271Arg,ENST00000493677,;GPM6B,3_prime_UTR_variant,,ENST00000454189,;GPM6B,downstream_gene_variant,,ENST00000355135,;GPM6B,downstream_gene_variant,,ENST00000398361,;GPM6B,downstream_gene_variant,,ENST00000356942,;GPM6B,downstream_gene_variant,,ENST00000495211,;OFD1,downstream_gene_variant,,ENST00000380550,;OFD1,downstream_gene_variant,,ENST00000340096,;OFD1,downstream_gene_variant,,ENST00000380567,;OFD1,downstream_gene_variant,,ENST00000464463,;OFD1,downstream_gene_variant,,ENST00000474705,;OFD1,downstream_gene_variant,,ENST00000490265,;	T	ENSG00000046653	ENST00000316715	Transcript	missense_variant	1329	891	297	S/R	agC/agA	.	.	.	-1	GPM6B	HGNC	4461	protein_coding	YES	CCDS35206.1	ENSP00000316861	GPM6B_HUMAN	C9JZE8_HUMAN,C9J8H8_HUMAN,B7Z613_HUMAN	UPI00000721CA	.	tolerated(0.29)	possibly_damaging(0.542)	8/8	.	hmmpanther:PTHR11683,hmmpanther:PTHR11683:SF10,Pfam_domain:PF01275	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTGCTCGC	.	5	BLCA
MTMR1	0	.	GRCh37	X	149901029	149901029	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883C>T	p.His295Tyr	p.H295Y	ENST00000544228	9/15	38	30	7	38	38	0	MTMR1,missense_variant,p.His295Tyr,ENST00000542156,;MTMR1,missense_variant,p.His201Tyr,ENST00000541925,;MTMR1,missense_variant,p.His295Tyr,ENST00000451863,;MTMR1,missense_variant,p.His295Tyr,ENST00000370390,;MTMR1,missense_variant,p.His182Tyr,ENST00000538506,;MTMR1,missense_variant,p.His295Tyr,ENST00000544228,;MTMR1,missense_variant,p.His303Tyr,ENST00000445323,;MTMR1,downstream_gene_variant,,ENST00000493995,;MTMR1,downstream_gene_variant,,ENST00000429965,;MTMR1,downstream_gene_variant,,ENST00000438018,;MTMR1,downstream_gene_variant,,ENST00000490316,;MTMR1,downstream_gene_variant,,ENST00000439546,;MTMR1,downstream_gene_variant,,ENST00000436701,;MTMR1,downstream_gene_variant,,ENST00000434699,;MTMR1,missense_variant,p.His295Tyr,ENST00000485376,;MTMR1,missense_variant,p.His194Tyr,ENST00000488357,;MTMR1,downstream_gene_variant,,ENST00000493480,;MTMR1,upstream_gene_variant,,ENST00000370387,;	T	ENSG00000063601	ENST00000544228	Transcript	missense_variant	1004	883	295	H/Y	Cat/Tat	.	.	.	1	MTMR1	HGNC	7449	protein_coding	YES	CCDS14695.1	ENSP00000440534	MTMR1_HUMAN	F8W8S8_HUMAN,F8W764_HUMAN,E9PIH9_HUMAN,B7Z3D5_HUMAN	UPI0000167F8A	.	deleterious(0)	possibly_damaging(0.808)	9/15	.	PROSITE_profiles:PS51339,hmmpanther:PTHR10807:SF40,hmmpanther:PTHR10807,Gene3D:3.90.190.10,Pfam_domain:PF06602,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGATTCATCCG	.	4	BLCA
FLNA	0	.	GRCh37	X	153577882	153577882	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7604T>C	p.Val2535Ala	p.V2535A	ENST00000369850	47/48	78	57	20	120	120	0	FLNA,missense_variant,p.Val2527Ala,ENST00000422373,;FLNA,missense_variant,p.Val2527Ala,ENST00000360319,;FLNA,missense_variant,p.Val668Ala,ENST00000369856,;FLNA,missense_variant,p.Val2495Ala,ENST00000344736,;FLNA,missense_variant,p.Val2535Ala,ENST00000369850,;FLNA,downstream_gene_variant,,ENST00000438732,;FLNA,downstream_gene_variant,,ENST00000444578,;FLNA,non_coding_transcript_exon_variant,,ENST00000498491,;FLNA,intron_variant,,ENST00000498411,;FLNA,3_prime_UTR_variant,,ENST00000420627,;FLNA,non_coding_transcript_exon_variant,,ENST00000462590,;FLNA,non_coding_transcript_exon_variant,,ENST00000490936,;FLNA,downstream_gene_variant,,ENST00000474072,;FLNA,downstream_gene_variant,,ENST00000466325,;FLNA,downstream_gene_variant,,ENST00000415241,;FLNA,downstream_gene_variant,,ENST00000474358,;	G	ENSG00000196924	ENST00000369850	Transcript	missense_variant	7841	7604	2535	V/A	gTa/gCa	.	.	.	-1	FLNA	HGNC	3754	protein_coding	YES	CCDS48194.1	ENSP00000358866	FLNA_HUMAN	Q96C61_HUMAN,Q86TQ3_HUMAN,Q6NXF2_HUMAN,Q60FE5_HUMAN	UPI000013C596	.	deleterious(0)	benign(0.259)	47/48	.	hmmpanther:PTHR11915:SF173,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTACAAAC	.	5	BLCA
RAB39B	0	.	GRCh37	X	154493369	154493369	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205G>A	p.Glu69Lys	p.E69K	ENST00000369454	1/2	22	16	6	45	45	0	RAB39B,missense_variant,p.Glu69Lys,ENST00000369454,;	T	ENSG00000155961	ENST00000369454	Transcript	missense_variant	506	205	69	E/K	Gag/Aag	.	.	.	-1	RAB39B	HGNC	16499	protein_coding	YES	CCDS14766.1	ENSP00000358466	RB39B_HUMAN	.	UPI00000412A6	.	deleterious(0)	benign(0.241)	1/2	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073:SF395,hmmpanther:PTHR24073,Pfam_domain:PF00071,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,SMART_domains:SM00174,SMART_domains:SM00176,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	CCTCTCTTGAC	.	4	BLCA
RAB39B	0	.	GRCh37	X	154493423	154493423	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151G>A	p.Glu51Lys	p.E51K	ENST00000369454	1/2	44	33	11	68	68	0	RAB39B,missense_variant,p.Glu51Lys,ENST00000369454,;	T	ENSG00000155961	ENST00000369454	Transcript	missense_variant	452	151	51	E/K	Gag/Aag	.	.	.	-1	RAB39B	HGNC	16499	protein_coding	YES	CCDS14766.1	ENSP00000358466	RB39B_HUMAN	.	UPI00000412A6	.	deleterious(0.01)	possibly_damaging(0.804)	1/2	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073:SF395,hmmpanther:PTHR24073,Pfam_domain:PF00071,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,SMART_domains:SM00174,SMART_domains:SM00176,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCCACCA	.	5	BLCA
GTPBP6	0	.	GRCh37	X	221792	221792	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813C>T	p.%3D	p.V271V	ENST00000326153	6/7	24	20	4	21	21	0	GTPBP6,synonymous_variant,p.%3D,ENST00000400701,;GTPBP6,synonymous_variant,p.%3D,ENST00000326153,;PLCXD1,downstream_gene_variant,,ENST00000381657,;PLCXD1,downstream_gene_variant,,ENST00000399012,;PLCXD1,downstream_gene_variant,,ENST00000381663,;GTPBP6,non_coding_transcript_exon_variant,,ENST00000485332,;	A	ENSG00000178605	ENST00000326153	Transcript	synonymous_variant	813	813	271	V	gtC/gtT	.	.	.	-1	GTPBP6	HGNC	30189	protein_coding	YES	.	ENSP00000316598	GTPB6_HUMAN	Q8N2Q6_HUMAN,H0Y2S1_HUMAN	UPI0000246E6A	.	.	.	6/7	.	hmmpanther:PTHR10229,hmmpanther:PTHR10229:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGATGACCCT	.	3	BLCA
PRKX	0	.	GRCh37	X	3573363	3573363	+	Silent	SNP	C	C	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.426G>T	p.%3D	p.G142G	ENST00000262848	3/9	41	35	6	71	71	0	PRKX,synonymous_variant,p.%3D,ENST00000262848,;PRKX-AS1,upstream_gene_variant,,ENST00000414074,;PRKX,non_coding_transcript_exon_variant,,ENST00000425240,;	A	ENSG00000183943	ENST00000262848	Transcript	synonymous_variant	781	426	142	G	ggG/ggT	.	.	.	-1	PRKX	HGNC	9441	protein_coding	YES	CCDS14125.1	ENSP00000262848	PRKX_HUMAN	.	UPI000000D998	.	.	.	3/9	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24353,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCGCCCCCG	.	4	BLCA
CASK	0	.	GRCh37	X	41413129	41413129	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1882G>A	p.Asp628Asn	p.D628N	ENST00000378166	21/27	40	32	8	54	54	0	CASK,missense_variant,p.Asp599Asn,ENST00000421587,;CASK,missense_variant,p.Asp605Asn,ENST00000442742,;CASK,missense_variant,p.Asp628Asn,ENST00000378166,;CASK,missense_variant,p.Asp628Asn,ENST00000318588,;CASK,missense_variant,p.Asp220Asn,ENST00000378179,;CASK,missense_variant,p.Asp628Asn,ENST00000378163,;CASK,missense_variant,p.Asp616Asn,ENST00000361962,;CASK,missense_variant,p.Asp616Asn,ENST00000378158,;CASK,missense_variant,p.Asp83Asn,ENST00000378168,;CASK,non_coding_transcript_exon_variant,,ENST00000472704,;	T	ENSG00000147044	ENST00000378166	Transcript	missense_variant	1909	1882	628	D/N	Gat/Aat	.	.	.	-1	CASK	HGNC	1497	protein_coding	YES	CCDS14257.1	ENSP00000367408	CSKP_HUMAN	.	UPI000013DA91	.	deleterious(0)	probably_damaging(1)	21/27	.	Superfamily_domains:SSF50044,SMART_domains:SM00326,Pfam_domain:PF07653,Gene3D:2.30.30.40,hmmpanther:PTHR23122,hmmpanther:PTHR23122:SF40,PROSITE_profiles:PS50002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCATCCTTGG	.	5	BLCA
NONO	0	.	GRCh37	X	70517696	70517696	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039G>C	p.Glu347Gln	p.E347Q	ENST00000276079	9/12	13	9	4	20	20	0	NONO,missense_variant,p.Glu209Gln,ENST00000418921,;NONO,missense_variant,p.Glu347Gln,ENST00000373841,;NONO,missense_variant,p.Glu347Gln,ENST00000276079,;NONO,missense_variant,p.Glu347Gln,ENST00000373856,;NONO,missense_variant,p.Glu258Gln,ENST00000535149,;ITGB1BP2,upstream_gene_variant,,ENST00000373829,;NONO,downstream_gene_variant,,ENST00000420903,;NONO,downstream_gene_variant,,ENST00000454976,;ITGB1BP2,upstream_gene_variant,,ENST00000538820,;NONO,downstream_gene_variant,,ENST00000413858,;NONO,non_coding_transcript_exon_variant,,ENST00000490044,;NONO,non_coding_transcript_exon_variant,,ENST00000474431,;NONO,non_coding_transcript_exon_variant,,ENST00000473525,;NONO,intron_variant,,ENST00000472185,;NONO,downstream_gene_variant,,ENST00000471419,;NONO,downstream_gene_variant,,ENST00000486613,;ITGB1BP2,upstream_gene_variant,,ENST00000483897,;AL590762.1,upstream_gene_variant,,ENST00000536900,;	C	ENSG00000147140	ENST00000276079	Transcript	missense_variant	1244	1039	347	E/Q	Gag/Cag	.	.	.	1	NONO	HGNC	7871	protein_coding	YES	CCDS14410.1	ENSP00000276079	NONO_HUMAN	C9JJ13_HUMAN,C9IZL7_HUMAN	UPI000002EFDD	.	tolerated(0.11)	benign(0.245)	9/12	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23189:SF15,hmmpanther:PTHR23189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGAAGAGCGC	.	3	BLCA
NONO	0	.	GRCh37	X	70517719	70517719	+	Silent	SNP	G	G	A	novel	.	TCGA-XF-AAN5-01A-11D-A42E-08	TCGA-XF-AAN5-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1062G>A	p.%3D	p.E354E	ENST00000276079	9/12	19	14	5	25	25	0	NONO,synonymous_variant,p.%3D,ENST00000418921,;NONO,synonymous_variant,p.%3D,ENST00000373841,;NONO,synonymous_variant,p.%3D,ENST00000276079,;NONO,synonymous_variant,p.%3D,ENST00000373856,;NONO,synonymous_variant,p.%3D,ENST00000535149,;ITGB1BP2,upstream_gene_variant,,ENST00000373829,;NONO,downstream_gene_variant,,ENST00000420903,;NONO,downstream_gene_variant,,ENST00000454976,;ITGB1BP2,upstream_gene_variant,,ENST00000538820,;NONO,downstream_gene_variant,,ENST00000413858,;NONO,non_coding_transcript_exon_variant,,ENST00000490044,;NONO,non_coding_transcript_exon_variant,,ENST00000474431,;NONO,non_coding_transcript_exon_variant,,ENST00000473525,;NONO,intron_variant,,ENST00000472185,;NONO,downstream_gene_variant,,ENST00000471419,;NONO,downstream_gene_variant,,ENST00000486613,;ITGB1BP2,upstream_gene_variant,,ENST00000483897,;AL590762.1,upstream_gene_variant,,ENST00000536900,;	A	ENSG00000147140	ENST00000276079	Transcript	synonymous_variant	1267	1062	354	E	gaG/gaA	.	.	.	1	NONO	HGNC	7871	protein_coding	YES	CCDS14410.1	ENSP00000276079	NONO_HUMAN	C9JJ13_HUMAN,C9IZL7_HUMAN	UPI000002EFDD	.	.	.	9/12	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23189:SF15,hmmpanther:PTHR23189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAAGAGATGCG	.	3	BLCA
CNNM1	0	.	GRCh37	10	101124191	101124191	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2046G>T	p.Glu682Asp	p.E682D	ENST00000356713	5/11	13	9	4	16	16	0	CNNM1,missense_variant,p.Glu317Asp,ENST00000370534,;CNNM1,missense_variant,p.Glu611Asp,ENST00000446890,;CNNM1,missense_variant,p.Glu611Asp,ENST00000370528,;CNNM1,missense_variant,p.Glu682Asp,ENST00000356713,;CNNM1,upstream_gene_variant,,ENST00000488090,;	T	ENSG00000119946	ENST00000356713	Transcript	missense_variant	2335	2046	682	E/D	gaG/gaT	COSM4010916,COSM4010915	.	.	1	CNNM1	HGNC	102	protein_coding	YES	CCDS7478.2	ENSP00000349147	CNNM1_HUMAN	F2YHU6_HUMAN,B3KPD2_HUMAN	UPI0000E19A44	.	deleterious(0)	probably_damaging(0.96)	5/11	.	hmmpanther:PTHR12064:SF28,hmmpanther:PTHR12064,Gene3D:2.60.120.10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGAGGTTGG	.	2	BLCA
CWF19L1	0	.	GRCh37	10	101992904	101992904	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*80G>A	.	.	ENST00000354105	14/14	26	14	12	19	19	0	CWF19L1,3_prime_UTR_variant,,ENST00000354105,;CWF19L1,downstream_gene_variant,,ENST00000370379,;CHUK,upstream_gene_variant,,ENST00000370397,;SNORA12,downstream_gene_variant,,ENST00000391162,;RP11-316M21.6,intron_variant,,ENST00000444359,;CWF19L1,non_coding_transcript_exon_variant,,ENST00000468709,;CWF19L1,non_coding_transcript_exon_variant,,ENST00000482452,;CWF19L1,non_coding_transcript_exon_variant,,ENST00000478047,;	T	ENSG00000095485	ENST00000354105	Transcript	3_prime_UTR_variant	1784	.	.	.	.	.	.	.	-1	CWF19L1	HGNC	25613	protein_coding	YES	CCDS7489.1	ENSP00000326411	C19L1_HUMAN	D3DR67_HUMAN	UPI0000070B3E	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCAAAAA	.	4	BLCA
WNT8B	0	.	GRCh37	10	102242180	102242180	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.663G>A	p.%3D	p.L221L	ENST00000343737	6/6	30	17	12	33	33	0	WNT8B,synonymous_variant,p.%3D,ENST00000343737,;SEC31B,downstream_gene_variant,,ENST00000370345,;SEC31B,downstream_gene_variant,,ENST00000462434,;SEC31B,downstream_gene_variant,,ENST00000469546,;SEC31B,downstream_gene_variant,,ENST00000479697,;SEC31B,downstream_gene_variant,,ENST00000485800,;SEC31B,downstream_gene_variant,,ENST00000492667,;SEC31B,downstream_gene_variant,,ENST00000482456,;	A	ENSG00000075290	ENST00000343737	Transcript	synonymous_variant	791	663	221	L	ctG/ctA	COSM3686476	.	.	1	WNT8B	HGNC	12789	protein_coding	YES	CCDS7494.1	ENSP00000340677	WNT8B_HUMAN	.	UPI000013D6C5	.	.	.	6/6	.	hmmpanther:PTHR12027:SF94,hmmpanther:PTHR12027,Pfam_domain:PF00110,SMART_domains:SM00097	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGCAGGG	.	5	BLCA
HIF1AN	0	.	GRCh37	10	102296305	102296305	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315G>A	p.%3D	p.E105E	ENST00000299163	2/8	56	37	19	72	72	0	HIF1AN,synonymous_variant,p.%3D,ENST00000299163,;HIF1AN,5_prime_UTR_variant,,ENST00000533589,;HIF1AN,non_coding_transcript_exon_variant,,ENST00000528044,;HIF1AN,3_prime_UTR_variant,,ENST00000526476,;HIF1AN,non_coding_transcript_exon_variant,,ENST00000478787,;	A	ENSG00000166135	ENST00000299163	Transcript	synonymous_variant	415	315	105	E	gaG/gaA	.	.	.	1	HIF1AN	HGNC	17113	protein_coding	YES	CCDS7498.1	ENSP00000299163	HIF1N_HUMAN	E9PL41_HUMAN	UPI000006D2A7	.	.	.	2/8	.	hmmpanther:PTHR12461,hmmpanther:PTHR12461:SF19,Gene3D:1vrbA01,Pfam_domain:PF13621,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGAGAAGAA	.	5	BLCA
C10orf95	0	.	GRCh37	10	104211275	104211275	+	5'UTR	SNP	G	G	A	rs781000936	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-50C>T	.	.	ENST00000239125	1/2	10	6	4	15	15	0	C10orf95,5_prime_UTR_variant,,ENST00000239125,;RP11-18I14.10,non_coding_transcript_exon_variant,,ENST00000494270,;RP11-18I14.10,non_coding_transcript_exon_variant,,ENST00000492465,;RP11-18I14.10,intron_variant,,ENST00000596366,;RP11-18I14.10,intron_variant,,ENST00000473970,;RP11-18I14.10,intron_variant,,ENST00000594818,;RP11-18I14.10,downstream_gene_variant,,ENST00000596045,;RP11-18I14.10,upstream_gene_variant,,ENST00000597488,;RP11-18I14.10,upstream_gene_variant,,ENST00000598368,;	A	ENSG00000120055	ENST00000239125	Transcript	5_prime_UTR_variant	26	.	.	.	.	rs781000936	.	.	-1	C10orf95	HGNC	25880	protein_coding	YES	CCDS7534.1	ENSP00000239125	CJ095_HUMAN	.	UPI00000728B4	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCTTGAGCTG	.	3	BLCA
CNNM2	0	.	GRCh37	10	104678995	104678995	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.758T>C	p.Leu253Pro	p.L253P	ENST00000369878	1/8	25	18	7	58	58	0	CNNM2,missense_variant,p.Leu253Pro,ENST00000369878,;CNNM2,missense_variant,p.Leu253Pro,ENST00000433628,;CNNM2,missense_variant,p.Leu253Pro,ENST00000369875,;RP11-724N1.1,downstream_gene_variant,,ENST00000610034,;	C	ENSG00000148842	ENST00000369878	Transcript	missense_variant	946	758	253	L/P	cTg/cCg	.	.	.	1	CNNM2	HGNC	103	protein_coding	YES	CCDS44474.1	ENSP00000358894	CNNM2_HUMAN	.	UPI0000231CA6	.	tolerated(0.06)	benign(0.383)	1/8	.	hmmpanther:PTHR12064,hmmpanther:PTHR12064:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTGCTGCCCT	.	5	BLCA
CNNM2	0	.	GRCh37	10	104836820	104836820	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2511G>C	p.Leu837Phe	p.L837F	ENST00000369878	8/8	73	38	35	107	107	0	CNNM2,missense_variant,p.Leu837Phe,ENST00000369878,;CNNM2,missense_variant,p.Leu815Phe,ENST00000433628,;CNNM2,downstream_gene_variant,,ENST00000475511,;	C	ENSG00000148842	ENST00000369878	Transcript	missense_variant	2699	2511	837	L/F	ttG/ttC	.	.	.	1	CNNM2	HGNC	103	protein_coding	YES	CCDS44474.1	ENSP00000358894	CNNM2_HUMAN	.	UPI0000231CA6	.	tolerated(0.1)	benign(0.174)	8/8	.	hmmpanther:PTHR12064,hmmpanther:PTHR12064:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTGACTCT	.	5	BLCA
PDCD11	0	.	GRCh37	10	105185020	105185020	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3043G>A	p.Glu1015Lys	p.E1015K	ENST00000369797	20/36	59	30	28	59	59	0	PDCD11,missense_variant,p.Glu1015Lys,ENST00000369797,;PDCD11,downstream_gene_variant,,ENST00000490787,;	A	ENSG00000148843	ENST00000369797	Transcript	missense_variant	3137	3043	1015	E/K	Gag/Aag	.	.	.	1	PDCD11	HGNC	13408	protein_coding	YES	CCDS31276.1	ENSP00000358812	RRP5_HUMAN	.	UPI00001C1ED1	.	deleterious(0.04)	possibly_damaging(0.619)	20/36	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23270,hmmpanther:PTHR23270:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATGAGGAT	.	5	BLCA
OBFC1	0	.	GRCh37	10	105657358	105657358	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.701C>T	p.Ser234Phe	p.S234F	ENST00000224950	7/10	55	33	21	55	55	0	OBFC1,missense_variant,p.Ser234Phe,ENST00000224950,;OBFC1,missense_variant,p.Ser234Phe,ENST00000369764,;OBFC1,non_coding_transcript_exon_variant,,ENST00000466828,;OBFC1,non_coding_transcript_exon_variant,,ENST00000472951,;	A	ENSG00000107960	ENST00000224950	Transcript	missense_variant	869	701	234	S/F	tCt/tTt	.	.	.	-1	OBFC1	HGNC	26200	protein_coding	YES	CCDS7552.1	ENSP00000224950	STN1_HUMAN	.	UPI000013C85A	.	deleterious(0.03)	probably_damaging(0.99)	7/10	.	hmmpanther:PTHR13989:SF11,hmmpanther:PTHR13989,Pfam_domain:PF09170,PIRSF_domain:PIRSF036950,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.V232V|c.696G>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAAGACTCC	.	5	BLCA
ADD3	0	.	GRCh37	10	111879014	111879014	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763C>T	p.Leu255Phe	p.L255F	ENST00000356080	7/15	86	63	23	109	109	0	ADD3,missense_variant,p.Leu255Phe,ENST00000360162,;ADD3,missense_variant,p.Leu255Phe,ENST00000356080,;ADD3,missense_variant,p.Leu255Phe,ENST00000277900,;ADD3,intron_variant,,ENST00000486014,;ADD3,upstream_gene_variant,,ENST00000492162,;ADD3,upstream_gene_variant,,ENST00000488104,;ADD3,downstream_gene_variant,,ENST00000496517,;ADD3,downstream_gene_variant,,ENST00000468251,;ADD3,downstream_gene_variant,,ENST00000468345,;ADD3,upstream_gene_variant,,ENST00000472568,;ADD3,downstream_gene_variant,,ENST00000497125,;ADD3,downstream_gene_variant,,ENST00000484622,;ADD3,upstream_gene_variant,,ENST00000488837,;ADD3,downstream_gene_variant,,ENST00000475954,;	T	ENSG00000148700	ENST00000356080	Transcript	missense_variant	1130	763	255	L/F	Ctt/Ttt	.	.	.	1	ADD3	HGNC	245	protein_coding	YES	CCDS7561.1	ENSP00000348381	ADDG_HUMAN	Q5VU08_HUMAN	UPI0000125505	.	deleterious(0)	probably_damaging(0.943)	7/15	.	hmmpanther:PTHR10672,hmmpanther:PTHR10672:SF5,Gene3D:3.40.225.10,Pfam_domain:PF00596,SMART_domains:SM01007,Superfamily_domains:SSF53639	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCTTCTT	.	5	BLCA
ACSL5	0	.	GRCh37	10	114169272	114169272	+	Silent	SNP	C	C	T	rs147933269	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708C>T	p.%3D	p.I236I	ENST00000356116	7/21	51	37	14	83	83	0	ACSL5,synonymous_variant,p.%3D,ENST00000356116,;ACSL5,synonymous_variant,p.%3D,ENST00000354273,;ACSL5,synonymous_variant,p.%3D,ENST00000433418,;ACSL5,synonymous_variant,p.%3D,ENST00000354655,;ACSL5,synonymous_variant,p.%3D,ENST00000393081,;ACSL5,upstream_gene_variant,,ENST00000369410,;RP11-324O2.3,upstream_gene_variant,,ENST00000449782,;RP11-324O2.6,downstream_gene_variant,,ENST00000424422,;RP11-324O2.3,upstream_gene_variant,,ENST00000594870,;RP11-324O2.3,upstream_gene_variant,,ENST00000598447,;ACSL5,downstream_gene_variant,,ENST00000479936,;ACSL5,upstream_gene_variant,,ENST00000467340,;ACSL5,upstream_gene_variant,,ENST00000495539,;	T	ENSG00000197142	ENST00000356116	Transcript	synonymous_variant	820	708	236	I	atC/atT	rs147933269	.	.	1	ACSL5	HGNC	16526	protein_coding	YES	CCDS7572.1	ENSP00000348429	ACSL5_HUMAN	.	UPI000003ED0C	.	.	.	7/21	.	hmmpanther:PTHR24096,hmmpanther:PTHR24096:SF143,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	T:0.0002	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATCGCCAT	byCluster	5	BLCA
ACSL5	0	.	GRCh37	10	114169284	114169284	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720C>T	p.%3D	p.I240I	ENST00000356116	7/21	56	45	10	89	89	0	ACSL5,synonymous_variant,p.%3D,ENST00000356116,;ACSL5,synonymous_variant,p.%3D,ENST00000354273,;ACSL5,synonymous_variant,p.%3D,ENST00000433418,;ACSL5,synonymous_variant,p.%3D,ENST00000354655,;ACSL5,synonymous_variant,p.%3D,ENST00000393081,;ACSL5,upstream_gene_variant,,ENST00000369410,;RP11-324O2.3,upstream_gene_variant,,ENST00000449782,;RP11-324O2.6,downstream_gene_variant,,ENST00000424422,;RP11-324O2.3,upstream_gene_variant,,ENST00000594870,;RP11-324O2.3,upstream_gene_variant,,ENST00000598447,;ACSL5,downstream_gene_variant,,ENST00000479936,;ACSL5,upstream_gene_variant,,ENST00000467340,;ACSL5,upstream_gene_variant,,ENST00000495539,;	T	ENSG00000197142	ENST00000356116	Transcript	synonymous_variant	832	720	240	I	atC/atT	.	.	.	1	ACSL5	HGNC	16526	protein_coding	YES	CCDS7572.1	ENSP00000348429	ACSL5_HUMAN	.	UPI000003ED0C	.	.	.	7/21	.	hmmpanther:PTHR24096,hmmpanther:PTHR24096:SF143,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATCTGTGA	.	5	BLCA
NHLRC2	0	.	GRCh37	10	115636514	115636514	+	Nonsense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.566T>A	p.Leu189Ter	p.L189*	ENST00000369301	3/11	60	37	22	69	69	0	NHLRC2,stop_gained,p.Leu189Ter,ENST00000369301,;	A	ENSG00000196865	ENST00000369301	Transcript	stop_gained	778	566	189	L/*	tTa/tAa	.	.	.	1	NHLRC2	HGNC	24731	protein_coding	YES	CCDS7585.1	ENSP00000358307	NHLC2_HUMAN	.	UPI0000071EAF	.	.	.	3/11	.	PROSITE_profiles:PS51352,hmmpanther:PTHR13833:SF13,hmmpanther:PTHR13833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTTATATA	.	5	BLCA
RAB11FIP2	0	.	GRCh37	10	119799876	119799876	+	Missense_Mutation	SNP	G	G	A	rs772615369	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.554C>T	p.Ser185Phe	p.S185F	ENST00000355624	2/5	74	46	28	107	107	0	RAB11FIP2,missense_variant,p.Ser185Phe,ENST00000369199,;RAB11FIP2,missense_variant,p.Ser185Phe,ENST00000355624,;RP11-354M20.3,intron_variant,,ENST00000451610,;RP11-354M20.3,intron_variant,,ENST00000417968,;RAB11FIP2,upstream_gene_variant,,ENST00000483413,;	A	ENSG00000107560	ENST00000355624	Transcript	missense_variant	994	554	185	S/F	tCt/tTt	rs772615369	.	.	-1	RAB11FIP2	HGNC	29152	protein_coding	YES	CCDS7602.1	ENSP00000347839	RFIP2_HUMAN	.	UPI0000073B4B	.	deleterious(0)	probably_damaging(0.994)	2/5	.	hmmpanther:PTHR15746,hmmpanther:PTHR15746:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAAGAC	byFrequency	5	BLCA
FAM204A	0	.	GRCh37	10	120095835	120095835	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93C>A	p.Asn31Lys	p.N31K	ENST00000369183	3/9	59	39	20	100	100	0	FAM204A,missense_variant,p.Asn31Lys,ENST00000369183,;FAM204A,missense_variant,p.Asn31Lys,ENST00000369170,;FAM204A,missense_variant,p.Asn31Lys,ENST00000369172,;FAM204A,non_coding_transcript_exon_variant,,ENST00000469758,;FAM204A,missense_variant,p.Asn31Lys,ENST00000470476,;FAM204A,non_coding_transcript_exon_variant,,ENST00000490048,;FAM204A,non_coding_transcript_exon_variant,,ENST00000487269,;	T	ENSG00000165669	ENST00000369183	Transcript	missense_variant	353	93	31	N/K	aaC/aaA	.	.	.	-1	FAM204A	HGNC	25794	protein_coding	YES	CCDS7605.1	ENSP00000358183	F204A_HUMAN	Q5T374_HUMAN	UPI0000073C7E	.	tolerated(0.43)	benign(0.397)	3/9	.	hmmpanther:PTHR14386:SF1,hmmpanther:PTHR14386	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTAAGTTAAG	.	5	BLCA
FGFR2	0	.	GRCh37	10	123263301	123263301	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1442+3G>A	.	.	ENST00000457416	.	68	47	20	62	62	0	FGFR2,splice_region_variant,,ENST00000336553,;FGFR2,splice_region_variant,,ENST00000429361,;FGFR2,splice_region_variant,,ENST00000369058,;FGFR2,splice_region_variant,,ENST00000351936,;FGFR2,splice_region_variant,,ENST00000369060,;FGFR2,splice_region_variant,,ENST00000346997,;FGFR2,splice_region_variant,,ENST00000369061,;FGFR2,splice_region_variant,,ENST00000360144,;FGFR2,splice_region_variant,,ENST00000358487,;FGFR2,splice_region_variant,,ENST00000356226,;FGFR2,splice_region_variant,,ENST00000369056,;FGFR2,splice_region_variant,,ENST00000357555,;FGFR2,splice_region_variant,,ENST00000478859,;FGFR2,splice_region_variant,,ENST00000369059,;FGFR2,splice_region_variant,,ENST00000457416,;FGFR2,splice_region_variant,,ENST00000604236,;	T	ENSG00000066468	ENST00000457416	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	FGFR2	HGNC	3689	protein_coding	YES	CCDS7620.2	ENSP00000410294	FGFR2_HUMAN	Q9UMB0_HUMAN,Q9UEH2_HUMAN,D3DRD6_HUMAN	UPI000002A99A	.	.	.	.	10/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTCACTTA	.	4	BLCA
TACC2	0	.	GRCh37	10	123845469	123845469	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3454G>A	p.Glu1152Lys	p.E1152K	ENST00000369005	4/23	30	23	7	27	27	0	TACC2,missense_variant,p.Glu1152Lys,ENST00000369005,;TACC2,missense_variant,p.Glu1152Lys,ENST00000453444,;TACC2,missense_variant,p.Glu1152Lys,ENST00000334433,;TACC2,missense_variant,p.Glu1152Lys,ENST00000515603,;TACC2,missense_variant,p.Glu1152Lys,ENST00000515273,;TACC2,intron_variant,,ENST00000513429,;TACC2,intron_variant,,ENST00000358010,;TACC2,downstream_gene_variant,,ENST00000491540,;	A	ENSG00000138162	ENST00000369005	Transcript	missense_variant	3794	3454	1152	E/K	Gaa/Aaa	.	.	.	1	TACC2	HGNC	11523	protein_coding	YES	CCDS7626.1	ENSP00000358001	TACC2_HUMAN	.	UPI0000246F6B	.	.	benign(0.045)	4/23	.	hmmpanther:PTHR13924,hmmpanther:PTHR13924:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGGAGAAGCT	.	3	BLCA
TACC2	0	.	GRCh37	10	123845480	123845480	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3465G>A	p.%3D	p.L1155L	ENST00000369005	4/23	25	19	6	28	28	0	TACC2,synonymous_variant,p.%3D,ENST00000369005,;TACC2,synonymous_variant,p.%3D,ENST00000453444,;TACC2,synonymous_variant,p.%3D,ENST00000334433,;TACC2,synonymous_variant,p.%3D,ENST00000515603,;TACC2,synonymous_variant,p.%3D,ENST00000515273,;TACC2,intron_variant,,ENST00000513429,;TACC2,intron_variant,,ENST00000358010,;TACC2,downstream_gene_variant,,ENST00000491540,;	A	ENSG00000138162	ENST00000369005	Transcript	synonymous_variant	3805	3465	1155	L	ttG/ttA	.	.	.	1	TACC2	HGNC	11523	protein_coding	YES	CCDS7626.1	ENSP00000358001	TACC2_HUMAN	.	UPI0000246F6B	.	.	.	4/23	.	hmmpanther:PTHR13924,hmmpanther:PTHR13924:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTTTGAGTTG	.	3	BLCA
DMBT1	0	.	GRCh37	10	124396641	124396641	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6371-3C>T	.	.	ENST00000368909	.	38	24	14	52	52	0	DMBT1,splice_region_variant,,ENST00000368956,;DMBT1,splice_region_variant,,ENST00000359586,;DMBT1,splice_region_variant,,ENST00000330163,;DMBT1,splice_region_variant,,ENST00000344338,;DMBT1,splice_region_variant,,ENST00000368955,;DMBT1,splice_region_variant,,ENST00000368909,;DMBT1,splice_region_variant,,ENST00000338354,;	T	ENSG00000187908	ENST00000368909	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	DMBT1	HGNC	2926	protein_coding	YES	CCDS44490.1	ENSP00000357905	DMBT1_HUMAN	B6V682_HUMAN	UPI000047021C	.	.	.	.	50/52	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATCAGACC	.	4	BLCA
CTBP2	0	.	GRCh37	10	126727647	126727647	+	5'UTR	SNP	C	C	T	rs111586839	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-24G>A	.	.	ENST00000494626	3/11	39	26	12	46	46	0	CTBP2,5_prime_UTR_variant,,ENST00000494626,;CTBP2,5_prime_UTR_variant,,ENST00000531469,;CTBP2,5_prime_UTR_variant,,ENST00000411419,;CTBP2,5_prime_UTR_variant,,ENST00000337195,;CTBP2,5_prime_UTR_variant,,ENST00000530884,;CTBP2,non_coding_transcript_exon_variant,,ENST00000460976,;CTBP2,non_coding_transcript_exon_variant,,ENST00000476817,;	T	ENSG00000175029	ENST00000494626	Transcript	5_prime_UTR_variant	360	.	.	.	.	rs111586839	.	.	-1	CTBP2	HGNC	2495	protein_coding	.	CCDS7643.1	ENSP00000436285	CTBP2_HUMAN	.	UPI0000128639	.	.	.	3/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCAGATC	byCluster	5	BLCA
EDRF1	0	.	GRCh37	10	127424309	127424309	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1594G>A	p.Asp532Asn	p.D532N	ENST00000356792	13/25	59	41	18	69	69	0	EDRF1,missense_variant,p.Asp532Asn,ENST00000356792,;EDRF1,missense_variant,p.Asp498Asn,ENST00000337623,;EDRF1,upstream_gene_variant,,ENST00000368813,;EDRF1,missense_variant,p.Asp532Asn,ENST00000368815,;EDRF1,missense_variant,p.Asp532Asn,ENST00000419769,;EDRF1,3_prime_UTR_variant,,ENST00000530795,;EDRF1,3_prime_UTR_variant,,ENST00000481600,;EDRF1,non_coding_transcript_exon_variant,,ENST00000525091,;	A	ENSG00000107938	ENST00000356792	Transcript	missense_variant	1826	1594	532	D/N	Gat/Aat	.	.	.	1	EDRF1	HGNC	24640	protein_coding	YES	CCDS55733.1	ENSP00000349244	EDRF1_HUMAN	.	UPI00005CA2E3	.	deleterious(0)	possibly_damaging(0.615)	13/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15000:SF1,hmmpanther:PTHR15000	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGATGAA	.	5	BLCA
DHX32	0	.	GRCh37	10	127525279	127525279	+	Missense_Mutation	SNP	C	C	T	rs368995976	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2209G>A	p.Glu737Lys	p.E737K	ENST00000284690	11/11	39	25	14	74	74	0	DHX32,missense_variant,p.Glu656Lys,ENST00000284688,;DHX32,missense_variant,p.Glu361Lys,ENST00000368721,;DHX32,missense_variant,p.Glu737Lys,ENST00000284690,;BCCIP,intron_variant,,ENST00000299130,;BCCIP,intron_variant,,ENST00000429863,;BCCIP,intron_variant,,ENST00000368759,;BCCIP,downstream_gene_variant,,ENST00000278100,;	T	ENSG00000089876	ENST00000284690	Transcript	missense_variant	2700	2209	737	E/K	Gaa/Aaa	rs368995976	.	.	-1	DHX32	HGNC	16717	protein_coding	YES	CCDS7652.1	ENSP00000284690	DHX32_HUMAN	.	UPI00000467F4	.	deleterious(0.04)	benign(0.391)	11/11	.	.	.	.	.	.	.	.	.	G:0.0007	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCAGTTT	byFrequency|byCluster	5	BLCA
DHX32	0	.	GRCh37	10	127542672	127542672	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.950C>T	p.Ser317Leu	p.S317L	ENST00000284690	4/11	72	59	12	121	121	0	DHX32,missense_variant,p.Ser317Leu,ENST00000284690,;DHX32,5_prime_UTR_variant,,ENST00000368721,;DHX32,intron_variant,,ENST00000284688,;BCCIP,downstream_gene_variant,,ENST00000368759,;	A	ENSG00000089876	ENST00000284690	Transcript	missense_variant	1441	950	317	S/L	tCa/tTa	.	.	.	-1	DHX32	HGNC	16717	protein_coding	YES	CCDS7652.1	ENSP00000284690	DHX32_HUMAN	.	UPI00000467F4	.	tolerated(0.41)	benign(0)	4/11	.	hmmpanther:PTHR18934:SF88,hmmpanther:PTHR18934,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATGAACAT	.	5	BLCA
DHX32	0	.	GRCh37	10	127548420	127548420	+	Missense_Mutation	SNP	G	G	A	rs752456171	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601C>T	p.Leu201Phe	p.L201F	ENST00000284690	3/11	72	41	31	74	74	0	DHX32,missense_variant,p.Leu201Phe,ENST00000284688,;DHX32,missense_variant,p.Leu201Phe,ENST00000284690,;DHX32,upstream_gene_variant,,ENST00000368721,;	A	ENSG00000089876	ENST00000284690	Transcript	missense_variant	1092	601	201	L/F	Ctt/Ttt	rs752456171	.	.	-1	DHX32	HGNC	16717	protein_coding	YES	CCDS7652.1	ENSP00000284690	DHX32_HUMAN	.	UPI00000467F4	.	deleterious(0)	probably_damaging(0.999)	3/11	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51192,hmmpanther:PTHR18934:SF88,hmmpanther:PTHR18934,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTAAGAAGTC	.	5	BLCA
C10orf90	0	.	GRCh37	10	128192820	128192820	+	Missense_Mutation	SNP	C	C	T	rs764588711	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949G>A	p.Glu317Lys	p.E317K	ENST00000284694	3/9	42	29	13	80	80	0	C10orf90,missense_variant,p.Glu270Lys,ENST00000356858,;C10orf90,missense_variant,p.Glu270Lys,ENST00000392694,;C10orf90,missense_variant,p.Glu317Lys,ENST00000432642,;C10orf90,missense_variant,p.Glu317Lys,ENST00000284694,;C10orf90,missense_variant,p.Glu317Lys,ENST00000454341,;C10orf90,missense_variant,p.Glu414Lys,ENST00000544758,;C10orf90,downstream_gene_variant,,ENST00000488181,;C10orf90,upstream_gene_variant,,ENST00000424927,;C10orf90,non_coding_transcript_exon_variant,,ENST00000368674,;C10orf90,downstream_gene_variant,,ENST00000463082,;	T	ENSG00000154493	ENST00000284694	Transcript	missense_variant	1070	949	317	E/K	Gaa/Aaa	rs764588711	.	.	-1	C10orf90	HGNC	26563	protein_coding	YES	CCDS31310.1	ENSP00000284694	CJ090_HUMAN	S4R3N7_HUMAN,Q5T025_HUMAN	UPI00001D808F	.	tolerated(0.55)	benign(0.003)	3/9	.	hmmpanther:PTHR21553:SF10,hmmpanther:PTHR21553	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCGCTTA	.	5	BLCA
SEPHS1	0	.	GRCh37	10	13361074	13361074	+	3'UTR	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*68G>C	.	.	ENST00000327347	9/9	16	8	7	15	15	0	SEPHS1,3_prime_UTR_variant,,ENST00000545675,;SEPHS1,3_prime_UTR_variant,,ENST00000378614,;SEPHS1,3_prime_UTR_variant,,ENST00000537130,;SEPHS1,3_prime_UTR_variant,,ENST00000327347,;	G	ENSG00000086475	ENST00000327347	Transcript	3_prime_UTR_variant	1623	.	.	.	.	.	.	.	-1	SEPHS1	HGNC	19685	protein_coding	YES	CCDS7098.1	ENSP00000367893	SPS1_HUMAN	Q5T5U7_HUMAN,Q5T5U6_HUMAN	UPI0000135E82	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGTCTTTAA	.	5	BLCA
BNIP3	0	.	GRCh37	10	133784195	133784195	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.486G>A	p.%3D	p.L162L	ENST00000368636	5/6	18	14	4	35	35	0	BNIP3,synonymous_variant,p.%3D,ENST00000368636,;BNIP3,synonymous_variant,p.%3D,ENST00000540159,;	T	ENSG00000176171	ENST00000368636	Transcript	synonymous_variant	611	486	162	L	ctG/ctA	.	.	.	-1	BNIP3	HGNC	1084	protein_coding	YES	CCDS7663.1	ENSP00000357625	BNIP3_HUMAN	Q6NVY4_HUMAN,Q66K24_HUMAN,B4DHJ7_HUMAN	UPI00001301A0	.	.	.	5/6	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR15186:SF4,hmmpanther:PTHR15186,Pfam_domain:PF06553	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCAGAAA	.	5	BLCA
TUBGCP2	0	.	GRCh37	10	135106725	135106725	+	Missense_Mutation	SNP	G	G	A	rs750583240	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.926C>T	p.Ser309Phe	p.S309F	ENST00000543663	7/18	44	35	9	56	56	0	TUBGCP2,missense_variant,p.Ser281Phe,ENST00000252936,;TUBGCP2,missense_variant,p.Ser151Phe,ENST00000417178,;TUBGCP2,missense_variant,p.Ser281Phe,ENST00000368563,;TUBGCP2,missense_variant,p.Ser309Phe,ENST00000543663,;TUBGCP2,upstream_gene_variant,,ENST00000368562,;RP11-122K13.12,downstream_gene_variant,,ENST00000424450,;TUBGCP2,missense_variant,p.Ser281Phe,ENST00000482278,;TUBGCP2,downstream_gene_variant,,ENST00000487796,;	A	ENSG00000130640	ENST00000543663	Transcript	missense_variant	966	926	309	S/F	tCt/tTt	rs750583240	.	.	-1	TUBGCP2	HGNC	18599	protein_coding	YES	CCDS58105.1	ENSP00000446093	GCP2_HUMAN	B3KTU7_HUMAN	UPI00020651C0	.	deleterious(0.04)	probably_damaging(0.952)	7/18	.	hmmpanther:PTHR19302,hmmpanther:PTHR19302:SF13,Pfam_domain:PF04130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGACTTC	.	5	BLCA
PRPF18	0	.	GRCh37	10	13629004	13629004	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-83C>T	.	.	ENST00000378572	1/10	36	21	15	52	52	0	PRPF18,5_prime_UTR_variant,,ENST00000417658,;PRPF18,5_prime_UTR_variant,,ENST00000378572,;PRPF18,5_prime_UTR_variant,,ENST00000320054,;RP11-295P9.2,downstream_gene_variant,,ENST00000445338,;	T	ENSG00000165630	ENST00000378572	Transcript	5_prime_UTR_variant	78	.	.	.	.	.	.	.	1	PRPF18	HGNC	17351	protein_coding	YES	CCDS7100.1	ENSP00000367835	PRP18_HUMAN	M0QXX3_HUMAN	UPI0000070C82	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTCAGTGG	.	5	BLCA
FRMD4A	0	.	GRCh37	10	13699030	13699030	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2559G>A	p.%3D	p.L853L	ENST00000357447	22/25	10	4	6	17	17	0	FRMD4A,synonymous_variant,p.%3D,ENST00000357447,;FRMD4A,synonymous_variant,p.%3D,ENST00000358621,;FRMD4A,synonymous_variant,p.%3D,ENST00000378503,;RP11-295P9.3,downstream_gene_variant,,ENST00000601460,;FRMD4A,non_coding_transcript_exon_variant,,ENST00000495956,;RP11-295P9.3,intron_variant,,ENST00000593351,;RP11-295P9.3,downstream_gene_variant,,ENST00000599639,;FRMD4A,upstream_gene_variant,,ENST00000475325,;RP11-295P9.3,downstream_gene_variant,,ENST00000600511,;RP11-295P9.3,downstream_gene_variant,,ENST00000600249,;RP11-295P9.3,downstream_gene_variant,,ENST00000593358,;RP11-295P9.3,downstream_gene_variant,,ENST00000601758,;RP11-295P9.3,downstream_gene_variant,,ENST00000596499,;RP11-295P9.3,downstream_gene_variant,,ENST00000596235,;RP11-295P9.3,downstream_gene_variant,,ENST00000430721,;RP11-295P9.3,downstream_gene_variant,,ENST00000594575,;RP11-295P9.3,downstream_gene_variant,,ENST00000419851,;RP11-295P9.3,downstream_gene_variant,,ENST00000597920,;RP11-295P9.3,downstream_gene_variant,,ENST00000598625,;	T	ENSG00000151474	ENST00000357447	Transcript	synonymous_variant	2928	2559	853	L	ctG/ctA	.	.	.	-1	FRMD4A	HGNC	25491	protein_coding	YES	CCDS7101.1	ENSP00000350032	FRM4A_HUMAN	F8WAN4_HUMAN	UPI0000366665	.	.	.	22/25	.	hmmpanther:PTHR23281:SF12,hmmpanther:PTHR23281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTCCAGGCT	.	2	BLCA
STAM	0	.	GRCh37	10	17686366	17686366	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28G>A	p.Asp10Asn	p.D10N	ENST00000377524	1/14	29	24	5	29	29	0	STAM,missense_variant,p.Asp10Asn,ENST00000377524,;STAM,5_prime_UTR_variant,,ENST00000540523,;STAM,5_prime_UTR_variant,,ENST00000377500,;RP11-390B4.5,upstream_gene_variant,,ENST00000563601,;STAM,missense_variant,p.Asp10Asn,ENST00000445846,;	A	ENSG00000136738	ENST00000377524	Transcript	missense_variant	243	28	10	D/N	Gat/Aat	.	.	.	1	STAM	HGNC	11357	protein_coding	YES	CCDS7122.1	ENSP00000366746	STAM1_HUMAN	C9J1E5_HUMAN,B4DZT2_HUMAN,A6NMU3_HUMAN	UPI000006E278	.	tolerated(0.07)	benign(0.036)	1/14	.	hmmpanther:PTHR13856:SF26,hmmpanther:PTHR13856,Pfam_domain:PF00790,Gene3D:1.25.40.90,SMART_domains:SM00288,Superfamily_domains:SSF48464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTCGATCAG	.	4	BLCA
CACNB2	0	.	GRCh37	10	18807291	18807291	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.831G>A	p.%3D	p.V277V	ENST00000324631	8/14	74	48	26	99	99	0	CACNB2,synonymous_variant,p.%3D,ENST00000396576,;CACNB2,synonymous_variant,p.%3D,ENST00000377329,;CACNB2,synonymous_variant,p.%3D,ENST00000324631,;CACNB2,synonymous_variant,p.%3D,ENST00000377315,;CACNB2,synonymous_variant,p.%3D,ENST00000282343,;CACNB2,synonymous_variant,p.%3D,ENST00000377331,;CACNB2,synonymous_variant,p.%3D,ENST00000352115,;CACNB2,synonymous_variant,p.%3D,ENST00000377319,;CACNB2,intron_variant,,ENST00000377328,;RP11-499P20.2,intron_variant,,ENST00000425669,;	A	ENSG00000165995	ENST00000324631	Transcript	synonymous_variant	891	831	277	V	gtG/gtA	.	.	.	1	CACNB2	HGNC	1402	protein_coding	YES	CCDS7125.1	ENSP00000320025	CACB2_HUMAN	.	UPI00001AEA80	.	.	.	8/14	.	hmmpanther:PTHR11824,hmmpanther:PTHR11824:SF9,Gene3D:3.40.50.300,Superfamily_domains:SSF50044,Prints_domain:PR01626	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGTGGTACC	.	5	BLCA
SPAG6	0	.	GRCh37	10	22675808	22675808	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>A	p.Glu200Lys	p.E200K	ENST00000376624	5/11	51	33	17	82	82	0	SPAG6,missense_variant,p.Glu200Lys,ENST00000313311,;SPAG6,missense_variant,p.Glu200Lys,ENST00000376624,;SPAG6,missense_variant,p.Glu276Lys,ENST00000376603,;SPAG6,missense_variant,p.Glu175Lys,ENST00000538630,;SPAG6,intron_variant,,ENST00000456231,;SPAG6,intron_variant,,ENST00000376601,;SPAG6,downstream_gene_variant,,ENST00000435326,;RP11-301N24.3,intron_variant,,ENST00000422675,;SPAG6,intron_variant,,ENST00000488555,;SPAG6,upstream_gene_variant,,ENST00000487973,;SPAG6,upstream_gene_variant,,ENST00000490361,;	A	ENSG00000077327	ENST00000376624	Transcript	missense_variant	740	598	200	E/K	Gag/Aag	.	.	.	1	SPAG6	HGNC	11215	protein_coding	YES	CCDS7139.1	ENSP00000365811	SPAG6_HUMAN	.	UPI0000073ED7	.	deleterious(0)	probably_damaging(1)	5/11	.	hmmpanther:PTHR23314,hmmpanther:PTHR23314:SF1,Pfam_domain:PF00514,Gene3D:1.25.10.10,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCAGAGTTA	.	5	BLCA
SVIL	0	.	GRCh37	10	29813430	29813430	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2557C>T	p.Gln853Ter	p.Q853*	ENST00000375398	16/40	79	48	31	91	91	0	SVIL,stop_gained,p.Gln853Ter,ENST00000355867,;SVIL,stop_gained,p.Gln427Ter,ENST00000375400,;SVIL,stop_gained,p.Gln853Ter,ENST00000375398,;SVIL,upstream_gene_variant,,ENST00000535393,;SVIL,upstream_gene_variant,,ENST00000464984,;	A	ENSG00000197321	ENST00000375398	Transcript	stop_gained	3007	2557	853	Q/*	Cag/Tag	.	.	.	-1	SVIL	HGNC	11480	protein_coding	YES	CCDS7164.1	ENSP00000364547	SVIL_HUMAN	Q569J5_HUMAN	UPI0000366678	.	.	.	16/40	.	hmmpanther:PTHR11977,hmmpanther:PTHR11977:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGAGTTT	.	5	BLCA
ITGB1	0	.	GRCh37	10	33199212	33199212	+	Silent	SNP	G	G	A	rs780160126	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2103C>T	p.%3D	p.F701F	ENST00000396033	14/16	55	40	15	55	55	0	ITGB1,synonymous_variant,p.%3D,ENST00000423113,;ITGB1,synonymous_variant,p.%3D,ENST00000374956,;ITGB1,synonymous_variant,p.%3D,ENST00000396033,;ITGB1,synonymous_variant,p.%3D,ENST00000302278,;ITGB1,upstream_gene_variant,,ENST00000488427,;ITGB1,intron_variant,,ENST00000494395,;	A	ENSG00000150093	ENST00000396033	Transcript	synonymous_variant	2239	2103	701	F	ttC/ttT	rs780160126	.	.	-1	ITGB1	HGNC	6153	protein_coding	YES	CCDS7174.1	ENSP00000379350	ITB1_HUMAN	Q5T3E6_HUMAN,Q5T3E5_HUMAN,Q5T3E4_HUMAN,E9PQJ2_HUMAN,E9PLR6_HUMAN,E7ERX5_HUMAN,E7EQW5_HUMAN,C9JPK5_HUMAN,C9JJP8_HUMAN	UPI0000070EEB	.	.	.	14/16	.	Superfamily_domains:0039775,PIRSF_domain:PIRSF002512,Pfam_domain:PF07965,hmmpanther:PTHR10082,hmmpanther:PTHR10082:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATAGAACCA	.	5	BLCA
ITGB1	0	.	GRCh37	10	33218752	33218752	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374C>T	p.Ser125Leu	p.S125L	ENST00000396033	4/16	117	83	33	156	156	0	ITGB1,missense_variant,p.Ser125Leu,ENST00000437302,;ITGB1,missense_variant,p.Ser125Leu,ENST00000534049,;ITGB1,missense_variant,p.Ser128Leu,ENST00000488494,;ITGB1,missense_variant,p.Ser125Leu,ENST00000396033,;ITGB1,missense_variant,p.Ser125Leu,ENST00000374956,;ITGB1,missense_variant,p.Ser125Leu,ENST00000302278,;ITGB1,missense_variant,p.Ser125Leu,ENST00000423113,;ITGB1,missense_variant,p.Ser68Leu,ENST00000474568,;ITGB1,missense_variant,p.Ser125Leu,ENST00000480226,;ITGB1,incomplete_terminal_codon_variant,p.%3D,ENST00000475184,;ITGB1,downstream_gene_variant,,ENST00000414670,;ITGB1,downstream_gene_variant,,ENST00000528877,;ITGB1,downstream_gene_variant,,ENST00000493758,;ITGB1,downstream_gene_variant,,ENST00000472147,;ITGB1,downstream_gene_variant,,ENST00000417122,;ITGB1,intron_variant,,ENST00000484088,;ITGB1,downstream_gene_variant,,ENST00000464001,;	A	ENSG00000150093	ENST00000396033	Transcript	missense_variant	510	374	125	S/L	tCa/tTa	.	.	.	-1	ITGB1	HGNC	6153	protein_coding	YES	CCDS7174.1	ENSP00000379350	ITB1_HUMAN	Q5T3E6_HUMAN,Q5T3E5_HUMAN,Q5T3E4_HUMAN,E9PQJ2_HUMAN,E9PLR6_HUMAN,E7ERX5_HUMAN,E7EQW5_HUMAN,C9JPK5_HUMAN,C9JJP8_HUMAN	UPI0000070EEB	.	tolerated(0.06)	benign(0.385)	4/16	.	Prints_domain:PR01186,PIRSF_domain:PIRSF002512,SMART_domains:SM00187,Pfam_domain:PF00362,hmmpanther:PTHR10082,hmmpanther:PTHR10082:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGATCTT	.	5	BLCA
NRP1	0	.	GRCh37	10	33619647	33619647	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237C>T	p.%3D	p.D79D	ENST00000265371	3/18	20	12	8	35	35	0	NRP1,synonymous_variant,p.%3D,ENST00000395995,;NRP1,synonymous_variant,p.%3D,ENST00000374867,;NRP1,synonymous_variant,p.%3D,ENST00000265371,;NRP1,synonymous_variant,p.%3D,ENST00000374816,;NRP1,synonymous_variant,p.%3D,ENST00000374822,;NRP1,synonymous_variant,p.%3D,ENST00000432372,;NRP1,synonymous_variant,p.%3D,ENST00000374823,;NRP1,synonymous_variant,p.%3D,ENST00000374821,;NRP1,5_prime_UTR_variant,,ENST00000374875,;	A	ENSG00000099250	ENST00000265371	Transcript	synonymous_variant	763	237	79	D	gaC/gaT	.	.	.	-1	NRP1	HGNC	8004	protein_coding	YES	CCDS7177.1	ENSP00000265371	NRP1_HUMAN	Q9H2E0_HUMAN,Q9H2D9_HUMAN,Q9H2D8_HUMAN,Q9H2D7_HUMAN,Q7Z5M2_HUMAN	UPI000013D60A	.	.	.	3/18	.	PROSITE_profiles:PS01180,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF616,Pfam_domain:PF00431,Gene3D:2.60.120.290,SMART_domains:SM00042,PIRSF_domain:PIRSF036960,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTGTCCTC	.	5	BLCA
FZD8	0	.	GRCh37	10	35929995	35929995	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.363C>T	p.%3D	p.L121L	ENST00000374694	1/1	20	11	9	29	29	0	FZD8,synonymous_variant,p.%3D,ENST00000374694,;MIR4683,downstream_gene_variant,,ENST00000579659,;	A	ENSG00000177283	ENST00000374694	Transcript	synonymous_variant	368	363	121	L	ctC/ctT	.	.	.	-1	FZD8	HGNC	4046	protein_coding	YES	CCDS7192.1	ENSP00000363826	FZD8_HUMAN	.	UPI0000047F3B	.	.	.	1/1	.	PROSITE_profiles:PS50038,hmmpanther:PTHR11309:SF77,hmmpanther:PTHR11309,Pfam_domain:PF01392,Gene3D:1ijyA00,SMART_domains:SM00063,Superfamily_domains:SSF63501	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCATGAGCGG	.	5	BLCA
KLF6	0	.	GRCh37	10	3823941	3823941	+	Missense_Mutation	SNP	C	C	T	rs762548312	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>A	p.Asp190Asn	p.D190N	ENST00000497571	2/4	59	39	20	69	69	0	KLF6,missense_variant,p.Asp190Asn,ENST00000469435,;KLF6,missense_variant,p.Asp190Asn,ENST00000542957,;KLF6,missense_variant,p.Asp190Asn,ENST00000497571,;KLF6,intron_variant,,ENST00000173785,;KLF6,upstream_gene_variant,,ENST00000461124,;KLF6,upstream_gene_variant,,ENST00000492125,;KLF6,downstream_gene_variant,,ENST00000380946,;	T	ENSG00000067082	ENST00000497571	Transcript	missense_variant	829	568	190	D/N	Gat/Aat	rs762548312,COSM3790764,COSM3790765	.	.	-1	KLF6	HGNC	2235	protein_coding	YES	CCDS7060.1	ENSP00000419923	KLF6_HUMAN	Q7Z3W8_HUMAN	UPI00000015BD	.	deleterious(0.05)	possibly_damaging(0.868)	2/4	.	hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF139	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCGCCAT	.	5	BLCA
KLF6	0	.	GRCh37	10	3827273	3827273	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-67C>T	.	.	ENST00000497571	1/4	14	6	7	17	17	0	KLF6,5_prime_UTR_variant,,ENST00000469435,;KLF6,5_prime_UTR_variant,,ENST00000542957,;KLF6,5_prime_UTR_variant,,ENST00000497571,;KLF6,non_coding_transcript_exon_variant,,ENST00000380946,;KLF6,upstream_gene_variant,,ENST00000173785,;KLF6,upstream_gene_variant,,ENST00000461124,;KLF6,upstream_gene_variant,,ENST00000492125,;	A	ENSG00000067082	ENST00000497571	Transcript	5_prime_UTR_variant	195	.	.	.	.	.	.	.	-1	KLF6	HGNC	2235	protein_coding	YES	CCDS7060.1	ENSP00000419923	KLF6_HUMAN	Q7Z3W8_HUMAN	UPI00000015BD	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCGAAAGT	.	5	BLCA
OR13A1	0	.	GRCh37	10	45799433	45799433	+	Silent	SNP	G	G	A	rs367646648	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438C>T	p.%3D	p.H146H	ENST00000553795	4/4	24	17	7	28	28	0	OR13A1,synonymous_variant,p.%3D,ENST00000374401,;OR13A1,synonymous_variant,p.%3D,ENST00000553795,;OR13A1,synonymous_variant,p.%3D,ENST00000536058,;	A	ENSG00000256574	ENST00000553795	Transcript	synonymous_variant	747	438	146	H	caC/caT	rs367646648	.	.	-1	OR13A1	HGNC	14772	protein_coding	YES	CCDS31188.1	ENSP00000451950	O13A1_HUMAN	.	UPI000003FE0F	.	.	.	4/4	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF81,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE|VARSCANS	AGCGGGTGGCA	byCluster	3	BLCA
SYT15	0	.	GRCh37	10	46959938	46959938	+	3'Flank	SNP	T	T	C	rs782361612	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000374321	.	19	15	4	36	36	0	SYT15,splice_region_variant,,ENST00000503753,;SYT15,splice_region_variant,,ENST00000374325,;SYT15,splice_region_variant,,ENST00000374328,;SYT15,3_prime_UTR_variant,,ENST00000374323,;SYT15,downstream_gene_variant,,ENST00000374321,;RP11-38L15.3,intron_variant,,ENST00000506914,;SYT15,splice_region_variant,,ENST00000449358,;	C	ENSG00000204176	ENST00000374321	Transcript	downstream_gene_variant	.	.	.	.	.	rs782361612	.	1996	-1	SYT15	HGNC	17167	protein_coding	YES	CCDS44376.1	ENSP00000363441	SYT15_HUMAN	.	UPI00001AA161	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAATCTCAC	.	5	BLCA
ZNF488	0	.	GRCh37	10	48371472	48371472	+	Missense_Mutation	SNP	G	G	A	rs782055982	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.940G>A	p.Glu314Lys	p.E314K	ENST00000395702	2/2	57	40	16	84	84	0	ZNF488,missense_variant,p.Glu314Lys,ENST00000395702,;ZNF488,missense_variant,p.Glu207Lys,ENST00000586537,;ZNF488,3_prime_UTR_variant,,ENST00000494156,;ZNF488,downstream_gene_variant,,ENST00000444585,;ZNF488,downstream_gene_variant,,ENST00000442001,;ZNF488,downstream_gene_variant,,ENST00000433077,;ZNF488,downstream_gene_variant,,ENST00000436850,;ZNF488,downstream_gene_variant,,ENST00000412534,;ZNF488,downstream_gene_variant,,ENST00000425196,;	A	ENSG00000165388	ENST00000395702	Transcript	missense_variant	1167	940	314	E/K	Gaa/Aaa	rs782055982,COSM2144085	.	.	1	ZNF488	HGNC	23535	protein_coding	YES	CCDS7217.1	ENSP00000379054	ZN488_HUMAN	Q05CE0_HUMAN,A2AH66_HUMAN,A2AH65_HUMAN,A2AH64_HUMAN,A2AH63_HUMAN,A2AH62_HUMAN,A2AH61_HUMAN	UPI00000736CF	.	deleterious(0.01)	benign(0.157)	2/2	.	Superfamily_domains:SSF57667,hmmpanther:PTHR16516,hmmpanther:PTHR16516:SF1	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGAAGAG	.	5	BLCA
MAPK8	0	.	GRCh37	10	49634019	49634019	+	Silent	SNP	C	C	T	rs748759491	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.777C>T	p.%3D	p.Y259Y	ENST00000374189	8/12	68	50	18	92	92	0	MAPK8,synonymous_variant,p.%3D,ENST00000374182,;MAPK8,synonymous_variant,p.%3D,ENST00000360332,;MAPK8,synonymous_variant,p.%3D,ENST00000374176,;MAPK8,synonymous_variant,p.%3D,ENST00000374179,;MAPK8,synonymous_variant,p.%3D,ENST00000374189,;MAPK8,intron_variant,,ENST00000395611,;MAPK8,downstream_gene_variant,,ENST00000374174,;MAPK8,non_coding_transcript_exon_variant,,ENST00000482840,;MAPK8,non_coding_transcript_exon_variant,,ENST00000469879,;MAPK8,upstream_gene_variant,,ENST00000459755,;MAPK8,non_coding_transcript_exon_variant,,ENST00000469110,;MAPK8,non_coding_transcript_exon_variant,,ENST00000471272,;	T	ENSG00000107643	ENST00000374189	Transcript	synonymous_variant	958	777	259	Y	taC/taT	rs748759491	.	.	1	MAPK8	HGNC	6881	protein_coding	YES	CCDS7224.1	ENSP00000363304	MK08_HUMAN	C9J762_HUMAN	UPI000012F17A	.	.	.	8/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF162,hmmpanther:PTHR24055,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTACGTTGA	.	5	BLCA
AKR1C2	0	.	GRCh37	10	5041412	5041412	+	Missense_Mutation	SNP	C	C	T	rs782733376	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>A	p.Asp143Asn	p.D143N	ENST00000380753	4/9	78	56	21	81	81	0	AKR1C2,missense_variant,p.Asp143Asn,ENST00000604507,;AKR1C2,missense_variant,p.Asp143Asn,ENST00000380753,;AKR1C2,missense_variant,p.Asp143Asn,ENST00000407674,;AKR1C2,intron_variant,,ENST00000421196,;AKR1C2,downstream_gene_variant,,ENST00000455190,;RP11-499O7.7,downstream_gene_variant,,ENST00000451575,;RP11-499O7.7,downstream_gene_variant,,ENST00000440414,;AKR1C2,downstream_gene_variant,,ENST00000604184,;AKR1C2,non_coding_transcript_exon_variant,,ENST00000460124,;	T	ENSG00000151632	ENST00000380753	Transcript	missense_variant	615	427	143	D/N	Gat/Aat	rs782733376	.	.	-1	AKR1C2	HGNC	385	protein_coding	YES	CCDS7062.1	ENSP00000370129	AK1C2_HUMAN	S4R3P0_HUMAN	UPI0000111D9F	.	tolerated(0.13)	benign(0.078)	4/9	.	Superfamily_domains:SSF51430,PIRSF_domain:PIRSF000097,Pfam_domain:PF00248,Gene3D:3.20.20.100,hmmpanther:PTHR11732:SF153,hmmpanther:PTHR11732	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATCCACTG	.	4	BLCA
PRKG1	0	.	GRCh37	10	52834309	52834309	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-42C>T	.	.	ENST00000373980	1/18	8	5	3	11	11	0	PRKG1,5_prime_UTR_variant,,ENST00000373980,;PRKG1,intron_variant,,ENST00000401604,;PRKG1,intron_variant,,ENST00000373985,;	T	ENSG00000185532	ENST00000373980	Transcript	5_prime_UTR_variant	376	.	.	.	.	.	.	.	1	PRKG1	HGNC	9414	protein_coding	YES	CCDS7244.1	ENSP00000363092	KGP1_HUMAN	.	UPI000012DDCD	.	.	.	1/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGACGCGGAGC	.	2	BLCA
PCDH15	0	.	GRCh37	10	55600179	55600179	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3884G>A	p.Gly1295Glu	p.G1295E	ENST00000361849	29/34	50	39	11	73	73	0	PCDH15,missense_variant,p.Gly1224Glu,ENST00000437009,;PCDH15,missense_variant,p.Gly1273Glu,ENST00000395433,;PCDH15,missense_variant,p.Gly1302Glu,ENST00000395445,;PCDH15,missense_variant,p.Gly1295Glu,ENST00000320301,;PCDH15,missense_variant,p.Gly906Glu,ENST00000409834,;PCDH15,missense_variant,p.Gly1258Glu,ENST00000395432,;PCDH15,missense_variant,p.Gly1295Glu,ENST00000361849,;PCDH15,missense_variant,p.Gly1295Glu,ENST00000395438,;PCDH15,missense_variant,p.Gly1300Glu,ENST00000414778,;PCDH15,missense_variant,p.Gly1295Glu,ENST00000395430,;PCDH15,missense_variant,p.Gly1302Glu,ENST00000373965,;PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000395440,;PCDH15,intron_variant,,ENST00000395446,;PCDH15,intron_variant,,ENST00000395442,;PCDH15,non_coding_transcript_exon_variant,,ENST00000495484,;PCDH15,non_coding_transcript_exon_variant,,ENST00000463095,;PCDH15,stop_gained,p.Trp318Ter,ENST00000414367,;PCDH15,3_prime_UTR_variant,,ENST00000448885,;PCDH15,3_prime_UTR_variant,,ENST00000373956,;	T	ENSG00000150275	ENST00000361849	Transcript	missense_variant	4279	3884	1295	G/E	gGa/gAa	.	.	.	-1	PCDH15	HGNC	14674	protein_coding	YES	CCDS44404.1	ENSP00000354950	.	A2A3E7_HUMAN,A2A3D9_HUMAN	UPI0000EE048B	.	tolerated(0.08)	probably_damaging(0.997)	29/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCCATGC	.	5	BLCA
BICC1	0	.	GRCh37	10	60558877	60558877	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1590T>G	p.Ile530Met	p.I530M	ENST00000373886	12/21	76	56	20	94	94	0	BICC1,missense_variant,p.Ile530Met,ENST00000373886,;BICC1,missense_variant,p.Ile156Met,ENST00000263103,;	G	ENSG00000122870	ENST00000373886	Transcript	missense_variant	1594	1590	530	I/M	atT/atG	.	.	.	1	BICC1	HGNC	19351	protein_coding	YES	CCDS31206.1	ENSP00000362993	BICC1_HUMAN	.	UPI000059D156	.	tolerated(0.1)	possibly_damaging(0.83)	12/21	.	hmmpanther:PTHR10627,hmmpanther:PTHR10627:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATTTTGTT	.	5	BLCA
PHYHIPL	0	.	GRCh37	10	61005259	61005259	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1039G>A	p.Glu347Lys	p.E347K	ENST00000373880	5/5	62	46	16	81	81	0	PHYHIPL,missense_variant,p.Glu321Lys,ENST00000373878,;PHYHIPL,missense_variant,p.Glu347Lys,ENST00000373880,;FAM13C,downstream_gene_variant,,ENST00000419214,;FAM13C,downstream_gene_variant,,ENST00000468840,;FAM13C,downstream_gene_variant,,ENST00000373868,;FAM13C,downstream_gene_variant,,ENST00000277705,;FAM13C,downstream_gene_variant,,ENST00000442566,;FAM13C,downstream_gene_variant,,ENST00000373867,;FAM13C,downstream_gene_variant,,ENST00000489341,;PHYHIPL,3_prime_UTR_variant,,ENST00000486074,;FAM13C,downstream_gene_variant,,ENST00000513059,;	A	ENSG00000165443	ENST00000373880	Transcript	missense_variant	1303	1039	347	E/K	Gaa/Aaa	.	.	.	1	PHYHIPL	HGNC	29378	protein_coding	YES	CCDS7254.1	ENSP00000362987	PHIPL_HUMAN	.	UPI0000199879	.	tolerated(0.22)	benign(0.206)	5/5	.	hmmpanther:PTHR15698:SF6,hmmpanther:PTHR15698	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGAAATC	.	5	BLCA
CCDC6	0	.	GRCh37	10	61552372	61552372	+	3'UTR	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*303T>G	.	.	ENST00000263102	9/9	22	12	10	17	17	0	CCDC6,3_prime_UTR_variant,,ENST00000263102,;CCDC6,non_coding_transcript_exon_variant,,ENST00000491922,;	C	ENSG00000108091	ENST00000263102	Transcript	3_prime_UTR_variant	1960	.	.	.	.	.	.	.	-1	CCDC6	HGNC	18782	protein_coding	YES	CCDS7257.1	ENSP00000263102	CCDC6_HUMAN	.	UPI000035B25A	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGGCCAAGCAA	.	4	BLCA
RHOBTB1	0	.	GRCh37	10	62670718	62670718	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223G>A	p.Glu75Lys	p.E75K	ENST00000337910	4/11	32	26	6	32	32	0	RHOBTB1,missense_variant,p.Glu75Lys,ENST00000337910,;RHOBTB1,missense_variant,p.Glu75Lys,ENST00000357917,;RNU2-72P,downstream_gene_variant,,ENST00000411175,;	T	ENSG00000072422	ENST00000337910	Transcript	missense_variant	561	223	75	E/K	Gaa/Aaa	.	.	.	-1	RHOBTB1	HGNC	18738	protein_coding	YES	CCDS7261.1	ENSP00000338671	RHBT1_HUMAN	Q567T3_HUMAN	UPI000000D9B7	.	tolerated(0.13)	probably_damaging(0.998)	4/11	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51420,hmmpanther:PTHR24072,hmmpanther:PTHR24072:SF120,Pfam_domain:PF00071,Gene3D:3.40.50.300,SMART_domains:SM00174,SMART_domains:SM00173,SMART_domains:SM00175,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCATCAA	.	4	BLCA
ARID5B	0	.	GRCh37	10	63845621	63845621	+	Missense_Mutation	SNP	G	G	A	rs757763429	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1360G>A	p.Glu454Lys	p.E454K	ENST00000279873	9/10	121	91	30	146	146	0	ARID5B,missense_variant,p.Glu454Lys,ENST00000279873,;ARID5B,missense_variant,p.Glu211Lys,ENST00000309334,;	A	ENSG00000150347	ENST00000279873	Transcript	missense_variant	1770	1360	454	E/K	Gaa/Aaa	rs757763429,COSM919380	.	.	1	ARID5B	HGNC	17362	protein_coding	YES	CCDS31208.1	ENSP00000279873	ARI5B_HUMAN	.	UPI00001606F0	.	tolerated(0.09)	probably_damaging(0.952)	9/10	.	hmmpanther:PTHR13964,hmmpanther:PTHR13964:SF22	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAGAAAAA	.	5	BLCA
ARID5B	0	.	GRCh37	10	63852474	63852474	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3252G>A	p.%3D	p.G1084G	ENST00000279873	10/10	53	35	17	61	61	0	ARID5B,synonymous_variant,p.%3D,ENST00000279873,;ARID5B,synonymous_variant,p.%3D,ENST00000309334,;	A	ENSG00000150347	ENST00000279873	Transcript	synonymous_variant	3662	3252	1084	G	ggG/ggA	.	.	.	1	ARID5B	HGNC	17362	protein_coding	YES	CCDS31208.1	ENSP00000279873	ARI5B_HUMAN	.	UPI00001606F0	.	.	.	10/10	.	hmmpanther:PTHR13964,hmmpanther:PTHR13964:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGGGAGCCT	.	5	BLCA
HERC4	0	.	GRCh37	10	69832712	69832712	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154G>A	p.Asp52Asn	p.D52N	ENST00000395198	3/26	101	74	26	122	122	0	HERC4,missense_variant,p.Asp52Asn,ENST00000373700,;HERC4,missense_variant,p.Asp52Asn,ENST00000492996,;HERC4,missense_variant,p.Asp52Asn,ENST00000513996,;HERC4,missense_variant,p.Asp52Asn,ENST00000412272,;HERC4,missense_variant,p.Asp52Asn,ENST00000395187,;HERC4,missense_variant,p.Asp52Asn,ENST00000395198,;HERC4,downstream_gene_variant,,ENST00000506515,;HERC4,non_coding_transcript_exon_variant,,ENST00000505760,;HERC4,non_coding_transcript_exon_variant,,ENST00000395185,;HERC4,downstream_gene_variant,,ENST00000515753,;HERC4,missense_variant,p.Asp52Asn,ENST00000473533,;HERC4,missense_variant,p.Asp49Asn,ENST00000427635,;	T	ENSG00000148634	ENST00000395198	Transcript	missense_variant	402	154	52	D/N	Gat/Aat	.	.	.	-1	HERC4	HGNC	24521	protein_coding	YES	CCDS41533.1	ENSP00000378624	HERC4_HUMAN	D6RFK9_HUMAN	UPI00004C6F56	.	tolerated(0.07)	benign(0.344)	3/26	.	PROSITE_profiles:PS50012,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF290,Pfam_domain:PF00415,Gene3D:2.130.10.30,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCATCATCCA	.	3	BLCA
HERC4	0	.	GRCh37	10	69832715	69832715	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151G>A	p.Asp51Asn	p.D51N	ENST00000395198	3/26	100	74	26	122	122	0	HERC4,missense_variant,p.Asp51Asn,ENST00000373700,;HERC4,missense_variant,p.Asp51Asn,ENST00000492996,;HERC4,missense_variant,p.Asp51Asn,ENST00000513996,;HERC4,missense_variant,p.Asp51Asn,ENST00000412272,;HERC4,missense_variant,p.Asp51Asn,ENST00000395187,;HERC4,missense_variant,p.Asp51Asn,ENST00000395198,;HERC4,downstream_gene_variant,,ENST00000506515,;HERC4,non_coding_transcript_exon_variant,,ENST00000505760,;HERC4,non_coding_transcript_exon_variant,,ENST00000395185,;HERC4,downstream_gene_variant,,ENST00000515753,;HERC4,missense_variant,p.Asp51Asn,ENST00000473533,;HERC4,missense_variant,p.Asp48Asn,ENST00000427635,;	T	ENSG00000148634	ENST00000395198	Transcript	missense_variant	399	151	51	D/N	Gat/Aat	.	.	.	-1	HERC4	HGNC	24521	protein_coding	YES	CCDS41533.1	ENSP00000378624	HERC4_HUMAN	D6RFK9_HUMAN	UPI00004C6F56	.	tolerated(0.33)	benign(0.002)	3/26	.	PROSITE_profiles:PS50012,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF290,Gene3D:2.130.10.30,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCATCCAGAA	.	3	BLCA
RUFY2	0	.	GRCh37	10	70105601	70105601	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1850C>T	p.Ser617Phe	p.S617F	ENST00000388768	18/18	94	65	29	119	119	0	RUFY2,missense_variant,p.Ser172Phe,ENST00000265865,;RUFY2,missense_variant,p.Ser617Phe,ENST00000388768,;RUFY2,missense_variant,p.Ser582Phe,ENST00000602465,;RUFY2,intron_variant,,ENST00000463210,;HNRNPH3,downstream_gene_variant,,ENST00000354695,;HNRNPH3,downstream_gene_variant,,ENST00000441000,;HNRNPH3,downstream_gene_variant,,ENST00000265866,;RUFY2,non_coding_transcript_exon_variant,,ENST00000484083,;RUFY2,non_coding_transcript_exon_variant,,ENST00000473398,;HNRNPH3,downstream_gene_variant,,ENST00000478698,;HNRNPH3,downstream_gene_variant,,ENST00000490442,;HNRNPH3,downstream_gene_variant,,ENST00000491200,;HNRNPH3,downstream_gene_variant,,ENST00000469172,;HNRNPH3,downstream_gene_variant,,ENST00000481819,;HNRNPH3,downstream_gene_variant,,ENST00000480987,;RUFY2,missense_variant,p.Ser596Phe,ENST00000466493,;RUFY2,non_coding_transcript_exon_variant,,ENST00000466187,;	A	ENSG00000204130	ENST00000388768	Transcript	missense_variant	2177	1850	617	S/F	tCt/tTt	.	.	.	-1	RUFY2	HGNC	19761	protein_coding	YES	CCDS41534.1	ENSP00000373420	RUFY2_HUMAN	.	UPI000046FD20	.	deleterious(0)	possibly_damaging(0.755)	18/18	.	PROSITE_profiles:PS50178,hmmpanther:PTHR22835:SF104,hmmpanther:PTHR22835,Gene3D:3.30.40.10,Pfam_domain:PF01363,SMART_domains:SM00064,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAAGAAGGC	.	5	BLCA
CCAR1	0	.	GRCh37	10	70516155	70516155	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1751C>A	p.Ser584Ter	p.S584*	ENST00000265872	14/25	36	24	12	31	31	0	CCAR1,stop_gained,p.Ser569Ter,ENST00000535016,;CCAR1,stop_gained,p.Ser558Ter,ENST00000543225,;CCAR1,stop_gained,p.Ser569Ter,ENST00000539539,;CCAR1,stop_gained,p.Ser569Ter,ENST00000543719,;CCAR1,stop_gained,p.Ser584Ter,ENST00000265872,;CCAR1,stop_gained,p.Ser389Ter,ENST00000536012,;CCAR1,upstream_gene_variant,,ENST00000543706,;SNORD98,downstream_gene_variant,,ENST00000408255,;MIR1254-1,upstream_gene_variant,,ENST00000408257,;CCAR1,non_coding_transcript_exon_variant,,ENST00000483264,;CCAR1,3_prime_UTR_variant,,ENST00000543229,;CCAR1,intron_variant,,ENST00000540210,;CCAR1,intron_variant,,ENST00000541012,;CCAR1,intron_variant,,ENST00000479143,;CCAR1,upstream_gene_variant,,ENST00000539250,;	A	ENSG00000060339	ENST00000265872	Transcript	stop_gained	1870	1751	584	S/*	tCa/tAa	COSM539685	.	.	1	CCAR1	HGNC	24236	protein_coding	YES	CCDS7282.1	ENSP00000265872	CCAR1_HUMAN	F5H7M9_HUMAN,F5H3I8_HUMAN,F5H1H2_HUMAN	UPI000004D30A	.	.	.	14/25	.	Pfam_domain:PF14443,hmmpanther:PTHR14304:SF13,hmmpanther:PTHR14304	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCTCAGAGT	.	5	BLCA
STOX1	0	.	GRCh37	10	70646055	70646055	+	Missense_Mutation	SNP	G	G	A	rs185277023	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2503G>A	p.Glu835Lys	p.E835K	ENST00000298596	3/4	75	52	22	108	108	0	STOX1,missense_variant,p.Glu835Lys,ENST00000298596,;STOX1,missense_variant,p.Glu725Lys,ENST00000421961,;STOX1,missense_variant,p.Glu835Lys,ENST00000399169,;STOX1,intron_variant,,ENST00000399162,;STOX1,intron_variant,,ENST00000399165,;	A	ENSG00000165730	ENST00000298596	Transcript	missense_variant	2586	2503	835	E/K	Gaa/Aaa	rs185277023	.	.	1	STOX1	HGNC	23508	protein_coding	YES	CCDS41535.1	ENSP00000298596	STOX1_HUMAN	C9JRL1_HUMAN	UPI00004B59B0	.	tolerated(0.09)	benign(0.029)	3/4	.	hmmpanther:PTHR22437,hmmpanther:PTHR22437:SF1	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0003	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTACGAAGAA	byCluster|by1000G	5	BLCA
VPS26A	0	.	GRCh37	10	70928242	70928242	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.728-3C>T	.	.	ENST00000373382	.	75	50	25	86	86	0	VPS26A,splice_region_variant,,ENST00000373382,;VPS26A,splice_region_variant,,ENST00000541711,;VPS26A,splice_region_variant,,ENST00000546041,;VPS26A,splice_region_variant,,ENST00000263559,;VPS26A,intron_variant,,ENST00000395098,;VPS26A,intron_variant,,ENST00000489794,;VPS26A,splice_region_variant,,ENST00000467852,;VPS26A,splice_region_variant,,ENST00000490696,;VPS26A,upstream_gene_variant,,ENST00000497022,;VPS26A,splice_region_variant,,ENST00000489656,;	T	ENSG00000122958	ENST00000373382	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	VPS26A	HGNC	12711	protein_coding	YES	CCDS7286.1	ENSP00000362480	VP26A_HUMAN	G3V1N8_HUMAN	UPI0000138BC6	.	.	.	.	8/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGGTG	.	4	BLCA
HK1	0	.	GRCh37	10	71103636	71103636	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.129C>T	p.%3D	p.I43I	ENST00000404387	3/19	87	59	28	111	111	0	HK1,synonymous_variant,p.%3D,ENST00000436817,;HK1,synonymous_variant,p.%3D,ENST00000448642,;HK1,synonymous_variant,p.%3D,ENST00000450646,;HK1,synonymous_variant,p.%3D,ENST00000359426,;HK1,synonymous_variant,p.%3D,ENST00000360289,;HK1,synonymous_variant,p.%3D,ENST00000298649,;HK1,synonymous_variant,p.%3D,ENST00000421088,;HK1,synonymous_variant,p.%3D,ENST00000404387,;HK1,non_coding_transcript_exon_variant,,ENST00000493591,;HK1,non_coding_transcript_exon_variant,,ENST00000494253,;HK1,non_coding_transcript_exon_variant,,ENST00000483077,;HK1,non_coding_transcript_exon_variant,,ENST00000476368,;HK1,non_coding_transcript_exon_variant,,ENST00000483054,;HK1,downstream_gene_variant,,ENST00000480047,;HK1,downstream_gene_variant,,ENST00000464803,;	T	ENSG00000156515	ENST00000404387	Transcript	synonymous_variant	129	129	43	I	atC/atT	COSM3978741,COSM3978743,COSM3978742,COSM3978744	.	.	1	HK1	HGNC	4922	protein_coding	YES	CCDS7289.1	ENSP00000384774	HXK1_HUMAN	P78542_HUMAN,B1AR61_HUMAN	UPI000013E945	.	.	.	3/19	.	Pfam_domain:PF00349,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATCATGAC	.	5	BLCA
MCU	0	.	GRCh37	10	74594131	74594131	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165C>T	p.%3D	p.I55I	ENST00000373053	2/8	59	39	20	57	57	0	MCU,missense_variant,p.Ser19Leu,ENST00000604152,;MCU,synonymous_variant,p.%3D,ENST00000536019,;MCU,synonymous_variant,p.%3D,ENST00000373053,;MCU,synonymous_variant,p.%3D,ENST00000357157,;MCU,3_prime_UTR_variant,,ENST00000604679,;MCU,3_prime_UTR_variant,,ENST00000604372,;MCU,3_prime_UTR_variant,,ENST00000605597,;MCU,3_prime_UTR_variant,,ENST00000603649,;	T	ENSG00000156026	ENST00000373053	Transcript	synonymous_variant	186	165	55	I	atC/atT	.	.	.	1	MCU	HGNC	23526	protein_coding	YES	CCDS7317.1	ENSP00000362144	MCU_HUMAN	.	UPI000006F233	.	.	.	2/8	.	hmmpanther:PTHR13462,hmmpanther:PTHR13462:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATCGCTTC	.	5	BLCA
USP54	0	.	GRCh37	10	75290495	75290495	+	Missense_Mutation	SNP	C	C	T	rs369153358	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1414G>A	p.Asp472Asn	p.D472N	ENST00000339859	12/23	41	27	14	68	68	0	USP54,missense_variant,p.Asp322Asn,ENST00000428547,;USP54,missense_variant,p.Asp472Asn,ENST00000319786,;USP54,missense_variant,p.Asp472Asn,ENST00000339859,;USP54,missense_variant,p.Asp472Asn,ENST00000408019,;USP54,5_prime_UTR_variant,,ENST00000394811,;RNU6-883P,upstream_gene_variant,,ENST00000384597,;USP54,non_coding_transcript_exon_variant,,ENST00000497106,;USP54,upstream_gene_variant,,ENST00000480210,;USP54,missense_variant,p.Asp33Asn,ENST00000418501,;USP54,missense_variant,p.Asp270Asn,ENST00000424265,;USP54,non_coding_transcript_exon_variant,,ENST00000498143,;USP54,intron_variant,,ENST00000466048,;	T	ENSG00000166348	ENST00000339859	Transcript	missense_variant	1515	1414	472	D/N	Gat/Aat	rs369153358,COSM427894	.	.	-1	USP54	HGNC	23513	protein_coding	YES	CCDS7329.2	ENSP00000345216	UBP54_HUMAN	.	UPI0000DFF136	.	deleterious(0.03)	possibly_damaging(0.834)	12/23	.	hmmpanther:PTHR22975,hmmpanther:PTHR22975:SF5	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCGCCTT	byFrequency|byCluster	5	BLCA
ZSWIM8	0	.	GRCh37	10	75552335	75552335	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2038G>A	p.Glu680Lys	p.E680K	ENST00000398706	10/26	32	23	9	33	33	0	ZSWIM8,missense_variant,p.Glu20Lys,ENST00000603187,;ZSWIM8,missense_variant,p.Glu680Lys,ENST00000604729,;ZSWIM8,missense_variant,p.Glu680Lys,ENST00000604524,;ZSWIM8,missense_variant,p.Glu680Lys,ENST00000605216,;ZSWIM8,missense_variant,p.Glu680Lys,ENST00000398706,;ZSWIM8,intron_variant,,ENST00000603114,;ZSWIM8,upstream_gene_variant,,ENST00000604754,;ZSWIM8,upstream_gene_variant,,ENST00000412198,;ZSWIM8-AS1,downstream_gene_variant,,ENST00000456638,;ZSWIM8,non_coding_transcript_exon_variant,,ENST00000431225,;ZSWIM8,downstream_gene_variant,,ENST00000451629,;ZSWIM8,upstream_gene_variant,,ENST00000425051,;ZSWIM8,upstream_gene_variant,,ENST00000489234,;ZSWIM8,upstream_gene_variant,,ENST00000487278,;ZSWIM8,missense_variant,p.Glu299Lys,ENST00000492395,;ZSWIM8,missense_variant,p.Glu680Lys,ENST00000433366,;RP11-574K11.31,downstream_gene_variant,,ENST00000603027,;RP11-574K11.31,downstream_gene_variant,,ENST00000603706,;	A	ENSG00000214655	ENST00000398706	Transcript	missense_variant	2255	2038	680	E/K	Gag/Aag	.	.	.	1	ZSWIM8	HGNC	23528	protein_coding	YES	CCDS44440.1	ENSP00000381693	ZSWM8_HUMAN	.	UPI0000ED938E	.	tolerated_low_confidence(0.22)	benign(0.188)	10/26	.	hmmpanther:PTHR22619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAGCCT	.	5	BLCA
VCL	0	.	GRCh37	10	75857015	75857015	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1797C>T	p.%3D	p.F599F	ENST00000211998	13/22	61	39	22	128	128	0	VCL,synonymous_variant,p.%3D,ENST00000436396,;VCL,synonymous_variant,p.%3D,ENST00000211998,;VCL,synonymous_variant,p.%3D,ENST00000372755,;VCL,intron_variant,,ENST00000417648,;VCL,intron_variant,,ENST00000478896,;	T	ENSG00000035403	ENST00000211998	Transcript	synonymous_variant	1891	1797	599	F	ttC/ttT	.	.	.	1	VCL	HGNC	12665	protein_coding	YES	CCDS7341.1	ENSP00000211998	VINC_HUMAN	Q5JQ13_HUMAN	UPI0000167B54	.	.	.	13/22	.	hmmpanther:PTHR18914:SF22,hmmpanther:PTHR18914,Gene3D:1.20.120.230,Pfam_domain:PF01044,Superfamily_domains:SSF47220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCAGCGA	.	5	BLCA
VDAC2	0	.	GRCh37	10	76982014	76982014	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.634G>A	p.Asp212Asn	p.D212N	ENST00000313132	9/11	74	51	23	83	83	0	VDAC2,missense_variant,p.Asp197Asn,ENST00000298468,;VDAC2,missense_variant,p.Asp197Asn,ENST00000332211,;VDAC2,missense_variant,p.Asp197Asn,ENST00000447677,;VDAC2,missense_variant,p.Asp197Asn,ENST00000543351,;VDAC2,missense_variant,p.Asp158Asn,ENST00000535553,;VDAC2,missense_variant,p.Asp212Asn,ENST00000313132,;VDAC2,downstream_gene_variant,,ENST00000413289,;VDAC2,downstream_gene_variant,,ENST00000344036,;VDAC2,non_coding_transcript_exon_variant,,ENST00000472137,;VDAC2,non_coding_transcript_exon_variant,,ENST00000498394,;VDAC2,downstream_gene_variant,,ENST00000468285,;VDAC2,downstream_gene_variant,,ENST00000481876,;VDAC2,downstream_gene_variant,,ENST00000470745,;VDAC2,downstream_gene_variant,,ENST00000475142,;	A	ENSG00000165637	ENST00000313132	Transcript	missense_variant	883	634	212	D/N	Gat/Aat	.	.	.	1	VDAC2	HGNC	12672	protein_coding	YES	CCDS53544.1	ENSP00000361635	VDAC2_HUMAN	A2A3S1_HUMAN	UPI00004589C0	.	tolerated(0.19)	benign(0.024)	9/11	.	hmmpanther:PTHR11743,hmmpanther:PTHR11743:SF12,Pfam_domain:PF01459,Gene3D:2.40.160.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAATGATGGG	.	5	BLCA
KCNMA1	0	.	GRCh37	10	78647264	78647264	+	Silent	SNP	G	G	A	rs200321180	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3420C>T	p.%3D	p.I1140I	ENST00000404857	28/28	35	27	8	46	46	0	KCNMA1,synonymous_variant,p.%3D,ENST00000404857,;KCNMA1,synonymous_variant,p.%3D,ENST00000406533,;KCNMA1,synonymous_variant,p.%3D,ENST00000372408,;KCNMA1,synonymous_variant,p.%3D,ENST00000372403,;KCNMA1,synonymous_variant,p.%3D,ENST00000372440,;KCNMA1,synonymous_variant,p.%3D,ENST00000286628,;KCNMA1,synonymous_variant,p.%3D,ENST00000604624,;KCNMA1,synonymous_variant,p.%3D,ENST00000372437,;KCNMA1,synonymous_variant,p.%3D,ENST00000354353,;KCNMA1,synonymous_variant,p.%3D,ENST00000457953,;KCNMA1,synonymous_variant,p.%3D,ENST00000372443,;KCNMA1,synonymous_variant,p.%3D,ENST00000286627,;KCNMA1,synonymous_variant,p.%3D,ENST00000434208,;KCNMA1,synonymous_variant,p.%3D,ENST00000404771,;KCNMA1,synonymous_variant,p.%3D,ENST00000372421,;RP11-443A13.5,upstream_gene_variant,,ENST00000429850,;RP11-443A13.5,upstream_gene_variant,,ENST00000595702,;RP11-443A13.5,upstream_gene_variant,,ENST00000458661,;RP11-443A13.5,upstream_gene_variant,,ENST00000609102,;KCNMA1,non_coding_transcript_exon_variant,,ENST00000468471,;	A	ENSG00000156113	ENST00000404857	Transcript	synonymous_variant	3420	3420	1140	I	atC/atT	rs200321180	.	.	-1	KCNMA1	HGNC	6284	protein_coding	YES	CCDS53545.1	ENSP00000385806	KCMA1_HUMAN	.	UPI00003519E8	.	.	.	28/28	.	hmmpanther:PTHR10027:SF18,hmmpanther:PTHR10027	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGTGATGAC	byFrequency|byCluster	4	BLCA
DLG5	0	.	GRCh37	10	79614113	79614113	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552G>A	p.%3D	p.L184L	ENST00000372391	4/32	43	30	13	40	39	0	DLG5,synonymous_variant,p.%3D,ENST00000372388,;DLG5,synonymous_variant,p.%3D,ENST00000372391,;DLG5,synonymous_variant,p.%3D,ENST00000468332,;DLG5,intron_variant,,ENST00000475613,;	T	ENSG00000151208	ENST00000372391	Transcript	synonymous_variant	558	552	184	L	ctG/ctA	.	.	.	-1	DLG5	HGNC	2904	protein_coding	YES	CCDS7353.2	ENSP00000361467	DLG5_HUMAN	.	UPI0000470041	.	.	.	4/32	.	hmmpanther:PTHR13865,Pfam_domain:PF04822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCAGCCT	.	5	BLCA
TAF3	0	.	GRCh37	10	8055697	8055697	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2572C>G	p.Arg858Gly	p.R858G	ENST00000344293	6/7	59	41	18	87	87	0	TAF3,missense_variant,p.Arg858Gly,ENST00000344293,;	G	ENSG00000165632	ENST00000344293	Transcript	missense_variant	2778	2572	858	R/G	Cga/Gga	COSM920708	.	.	1	TAF3	HGNC	17303	protein_coding	YES	CCDS41487.1	ENSP00000340271	TAF3_HUMAN	.	UPI00004588FA	.	deleterious(0.01)	benign(0)	6/7	.	hmmpanther:PTHR12321:SF34,hmmpanther:PTHR12321,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATCCGAGAT	.	5	BLCA
GATA3	0	.	GRCh37	10	8115953	8115969	+	Frame_Shift_Del	DEL	CCACCCCTCCAGCATGG	CCACCCCTCCAGCATGG	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	CCACCCCTCCAGCATGG	CCACCCCTCCAGCATGG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1302_1318delCCACCCCTCCAGCATGG	p.Pro436ArgfsTer66	p.P436Rfs*66	ENST00000379328	6/6	25	20	5	46	46	0	GATA3,frameshift_variant,p.Pro435ArgfsTer66,ENST00000346208,;GATA3,frameshift_variant,p.Pro436ArgfsTer66,ENST00000379328,;GATA3,non_coding_transcript_exon_variant,,ENST00000461472,;	-	ENSG00000107485	ENST00000379328	Transcript	frameshift_variant	1870-1886	1302-1318	434-440	HHPSSMV/HX	caCCACCCCTCCAGCATGGtc/catc	.	.	.	1	GATA3	HGNC	4172	protein_coding	YES	CCDS31143.1	ENSP00000368632	GATA3_HUMAN	.	UPI000002AA34	.	.	.	6/6	.	hmmpanther:PTHR10071:SF106,hmmpanther:PTHR10071,PIRSF_domain:PIRSF003027	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA*|PINDEL|VARSCANS*	ACCACACCACCCCTCCAGCATGGTCACC	.	3	BLCA
WAPAL	0	.	GRCh37	10	88213043	88213043	+	Silent	SNP	C	C	A	rs143872928	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2883G>T	p.%3D	p.A961A	ENST00000298767	14/19	55	38	17	66	66	0	WAPAL,synonymous_variant,p.%3D,ENST00000298767,;WAPAL,synonymous_variant,p.%3D,ENST00000372075,;WAPAL,synonymous_variant,p.%3D,ENST00000263070,;WAPAL,non_coding_transcript_exon_variant,,ENST00000495124,;	A	ENSG00000062650	ENST00000298767	Transcript	synonymous_variant	3356	2883	961	A	gcG/gcT	rs143872928	.	.	-1	WAPAL	HGNC	23293	protein_coding	YES	CCDS7375.1	ENSP00000298767	WAPL_HUMAN	B3Y1W2_HUMAN,B2RTX8_HUMAN	UPI00001AE41A	.	.	.	14/19	.	PROSITE_profiles:PS51271,hmmpanther:PTHR22100:SF13,hmmpanther:PTHR22100,Pfam_domain:PF07814,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAGCGCTGT	byCluster	5	BLCA
MMRN2	0	.	GRCh37	10	88717329	88717329	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000372027	1/7	58	38	20	56	56	0	MMRN2,5_prime_UTR_variant,,ENST00000372027,;MMRN2,intron_variant,,ENST00000474994,;MMRN2,intron_variant,,ENST00000609457,;SNCG,upstream_gene_variant,,ENST00000372017,;MMRN2,upstream_gene_variant,,ENST00000610081,;SNCG,upstream_gene_variant,,ENST00000348795,;SNCG,upstream_gene_variant,,ENST00000465679,;SNCG,upstream_gene_variant,,ENST00000483064,;MMRN2,non_coding_transcript_exon_variant,,ENST00000608753,;MMRN2,upstream_gene_variant,,ENST00000608090,;	T	ENSG00000173269	ENST00000372027	Transcript	5_prime_UTR_variant	292	.	.	.	.	.	.	.	-1	MMRN2	HGNC	19888	protein_coding	YES	CCDS7379.1	ENSP00000361097	MMRN2_HUMAN	R4GMY6_HUMAN	UPI000013F046	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCAGCCT	.	5	BLCA
MINPP1	0	.	GRCh37	10	89265069	89265069	+	Missense_Mutation	SNP	G	G	A	rs777297327	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>A	p.Asp133Asn	p.D133N	ENST00000371996	1/5	16	12	4	23	23	0	MINPP1,missense_variant,p.Asp133Asn,ENST00000371996,;MINPP1,missense_variant,p.Asp133Asn,ENST00000371994,;MINPP1,upstream_gene_variant,,ENST00000536010,;	A	ENSG00000107789	ENST00000371996	Transcript	missense_variant	438	397	133	D/N	Gac/Aac	rs777297327	.	.	1	MINPP1	HGNC	7102	protein_coding	YES	CCDS7384.1	ENSP00000361064	MINP1_HUMAN	B4E394_HUMAN	UPI0000035984	.	tolerated(0.69)	benign(0.005)	1/5	.	hmmpanther:PTHR20963,hmmpanther:PTHR20963:SF8,Pfam_domain:PF00328,Gene3D:3.40.50.1240,PIRSF_domain:PIRSF000894,Superfamily_domains:SSF53254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGACTGG	.	5	BLCA
ANKRD22	0	.	GRCh37	10	90611520	90611520	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-156G>A	.	.	ENST00000371930	1/6	15	11	4	10	10	0	ANKRD22,5_prime_UTR_variant,,ENST00000371930,;	T	ENSG00000152766	ENST00000371930	Transcript	5_prime_UTR_variant	56	.	.	.	.	.	.	.	-1	ANKRD22	HGNC	28321	protein_coding	YES	CCDS7390.1	ENSP00000360998	ANR22_HUMAN	.	UPI000013DCF6	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGTCAGTGC	.	4	BLCA
CH25H	0	.	GRCh37	10	90966817	90966817	+	Missense_Mutation	SNP	G	G	A	rs765385895	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233C>T	p.Ser78Leu	p.S78L	ENST00000371852	1/1	10	5	5	21	21	0	CH25H,missense_variant,p.Ser78Leu,ENST00000371852,;	A	ENSG00000138135	ENST00000371852	Transcript	missense_variant	255	233	78	S/L	tCg/tTg	rs765385895	.	.	-1	CH25H	HGNC	1907	protein_coding	YES	CCDS7400.1	ENSP00000360918	CH25H_HUMAN	.	UPI0000073DCF	.	tolerated(0.3)	benign(0.01)	1/1	.	hmmpanther:PTHR11863,hmmpanther:PTHR11863:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGGCGAGAAG	.	3	BLCA
IFIT5	0	.	GRCh37	10	91174473	91174473	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-83G>A	.	.	ENST00000371795	1/2	10	6	4	15	15	0	IFIT5,5_prime_UTR_variant,,ENST00000371795,;LIPA,upstream_gene_variant,,ENST00000371837,;IFIT5,upstream_gene_variant,,ENST00000416601,;	A	ENSG00000152778	ENST00000371795	Transcript	5_prime_UTR_variant	131	.	.	.	.	.	.	.	1	IFIT5	HGNC	13328	protein_coding	YES	CCDS7403.1	ENSP00000360860	IFIT5_HUMAN	.	UPI000012D3E6	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCGCGCGGCT	.	3	BLCA
FGFBP3	0	.	GRCh37	10	93667983	93667983	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744C>T	p.%3D	p.L248L	ENST00000311575	2/2	23	15	8	34	34	0	FGFBP3,synonymous_variant,p.%3D,ENST00000311575,;RP11-402D21.2,non_coding_transcript_exon_variant,,ENST00000610263,;	A	ENSG00000174721	ENST00000311575	Transcript	synonymous_variant	908	744	248	L	ctC/ctT	.	.	.	-1	FGFBP3	HGNC	23428	protein_coding	YES	CCDS7418.1	ENSP00000339067	FGFP3_HUMAN	.	UPI000007169B	.	.	.	2/2	.	hmmpanther:PTHR15258:SF3,hmmpanther:PTHR15258,Pfam_domain:PF06473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAGGGA	.	5	BLCA
BTAF1	0	.	GRCh37	10	93786955	93786955	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5304G>A	p.%3D	p.Q1768Q	ENST00000265990	37/38	78	54	23	111	111	0	BTAF1,synonymous_variant,p.%3D,ENST00000544642,;BTAF1,synonymous_variant,p.%3D,ENST00000265990,;	A	ENSG00000095564	ENST00000265990	Transcript	synonymous_variant	5612	5304	1768	Q	caG/caA	.	.	.	1	BTAF1	HGNC	17307	protein_coding	YES	CCDS7419.1	ENSP00000265990	BTAF1_HUMAN	Q8N6J1_HUMAN,Q2M1V9_HUMAN,B4E0W6_HUMAN	UPI0000136782	.	.	.	37/38	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,hmmpanther:PTHR10799:SF225,hmmpanther:PTHR10799,PROSITE_profiles:PS51194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAAATT	.	5	BLCA
MYOF	0	.	GRCh37	10	95083068	95083075	+	Frame_Shift_Del	DEL	TGGCCCCA	TGGCCCCA	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	TGGCCCCA	TGGCCCCA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5312_5319delTGGGGCCA	p.Leu1771SerfsTer41	p.L1771Sfs*41	ENST00000359263	47/54	64	40	24	78	78	0	MYOF,frameshift_variant,p.Leu1758SerfsTer41,ENST00000358334,;MYOF,frameshift_variant,p.Leu1771SerfsTer41,ENST00000371501,;MYOF,frameshift_variant,p.Leu1771SerfsTer41,ENST00000359263,;MYOF,intron_variant,,ENST00000371502,;MYOF,downstream_gene_variant,,ENST00000485212,;MYOF,non_coding_transcript_exon_variant,,ENST00000474161,;MYOF,intron_variant,,ENST00000463743,;	-	ENSG00000138119	ENST00000359263	Transcript	frameshift_variant	5312-5319	5312-5319	1771-1773	LGP/X	tTGGGGCCA/t	.	.	.	-1	MYOF	HGNC	3656	protein_coding	YES	CCDS41551.1	ENSP00000352208	MYOF_HUMAN	.	UPI000012FBA1	.	.	.	47/54	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF38,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCCTGGTGGCCCCAAACTC	.	3	BLCA
LGI1	0	.	GRCh37	10	95552497	95552497	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.504-3C>T	.	.	ENST00000371418	.	87	65	21	88	88	0	LGI1,splice_region_variant,,ENST00000542308,;LGI1,splice_region_variant,,ENST00000371413,;LGI1,splice_region_variant,,ENST00000371418,;	T	ENSG00000108231	ENST00000371418	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	LGI1	HGNC	6572	protein_coding	YES	CCDS7431.1	ENSP00000360472	LGI1_HUMAN	.	UPI0000048F03	.	.	.	.	5/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGGGA	.	4	BLCA
PLCE1	0	.	GRCh37	10	95790940	95790940	+	Missense_Mutation	SNP	G	G	A	rs767766247	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.137G>A	p.Arg46Gln	p.R46Q	ENST00000371380	1/32	60	36	23	69	69	0	PLCE1,missense_variant,p.Arg46Gln,ENST00000371380,;PLCE1,missense_variant,p.Arg46Gln,ENST00000260766,;	A	ENSG00000138193	ENST00000371380	Transcript	missense_variant	372	137	46	R/Q	cGa/cAa	rs767766247,COSM1585245,COSM921643	.	.	1	PLCE1	HGNC	17175	protein_coding	YES	CCDS41552.1	ENSP00000360431	PLCE1_HUMAN	B7ZM61_HUMAN	UPI00001F93EE	.	tolerated_low_confidence(1)	benign(0)	1/32	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.R46Q|c.137G>A|3,SITE|p.R46Q|c.137G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGACGAAGTG	.	5	BLCA
PLCE1	0	.	GRCh37	10	95791143	95791143	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340C>T	p.Gln114Ter	p.Q114*	ENST00000371380	1/32	82	59	23	90	90	0	PLCE1,stop_gained,p.Gln114Ter,ENST00000371380,;PLCE1,stop_gained,p.Gln114Ter,ENST00000260766,;	T	ENSG00000138193	ENST00000371380	Transcript	stop_gained	575	340	114	Q/*	Cag/Tag	.	.	.	1	PLCE1	HGNC	17175	protein_coding	YES	CCDS41552.1	ENSP00000360431	PLCE1_HUMAN	B7ZM61_HUMAN	UPI00001F93EE	.	.	.	1/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCAGCAT	.	5	BLCA
PLCE1	0	.	GRCh37	10	96013946	96013946	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3280-1G>T	.	p.X1094_splice	ENST00000371380	.	41	24	17	65	65	0	PLCE1,splice_acceptor_variant,,ENST00000371380,;PLCE1,splice_acceptor_variant,,ENST00000260766,;PLCE1,splice_acceptor_variant,,ENST00000371375,;PLCE1,splice_acceptor_variant,,ENST00000371385,;	T	ENSG00000138193	ENST00000371380	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	PLCE1	HGNC	17175	protein_coding	YES	CCDS41552.1	ENSP00000360431	PLCE1_HUMAN	B7ZM61_HUMAN	UPI00001F93EE	.	.	.	.	8/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGGGTGA	.	5	BLCA
TBC1D12	0	.	GRCh37	10	96162368	96162368	+	5'UTR	SNP	C	C	T	rs776687705	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3C>T	.	.	ENST00000225235	1/13	21	14	6	25	25	0	TBC1D12,5_prime_UTR_variant,,ENST00000225235,;	T	ENSG00000108239	ENST00000225235	Transcript	5_prime_UTR_variant	108	.	.	.	.	rs776687705	.	.	1	TBC1D12	HGNC	29082	protein_coding	YES	CCDS41553.1	ENSP00000225235	TBC12_HUMAN	B9A6L3_HUMAN	UPI00001C1ED6	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCCAGATG	byFrequency	5	BLCA
TBC1D12	0	.	GRCh37	10	96162370	96162370	+	5'UTR	SNP	G	G	A	rs762145762	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000225235	1/13	22	13	8	25	25	0	TBC1D12,5_prime_UTR_variant,,ENST00000225235,;	A	ENSG00000108239	ENST00000225235	Transcript	5_prime_UTR_variant	110	.	.	.	.	rs762145762	.	.	1	TBC1D12	HGNC	29082	protein_coding	YES	CCDS41553.1	ENSP00000225235	TBC12_HUMAN	B9A6L3_HUMAN	UPI00001C1ED6	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCAGATGGT	byFrequency	5	BLCA
CYP2C18	0	.	GRCh37	10	96443451	96443451	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-126G>A	.	.	ENST00000285979	1/9	18	14	4	14	14	0	CYP2C18,5_prime_UTR_variant,,ENST00000339022,;CYP2C18,5_prime_UTR_variant,,ENST00000285979,;CYP2C19,upstream_gene_variant,,ENST00000464755,;	A	ENSG00000108242	ENST00000285979	Transcript	5_prime_UTR_variant	74	.	.	.	.	.	.	.	1	CYP2C18	HGNC	2620	protein_coding	YES	CCDS7435.1	ENSP00000285979	CP2CI_HUMAN	Q16750_HUMAN	UPI000013DE1D	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAGAGAGATT	.	4	BLCA
PDLIM1	0	.	GRCh37	10	97023660	97023660	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.494C>T	p.Ser165Leu	p.S165L	ENST00000329399	4/7	41	25	16	28	28	0	PDLIM1,missense_variant,p.Ser165Leu,ENST00000329399,;PDLIM1,non_coding_transcript_exon_variant,,ENST00000493949,;PDLIM1,non_coding_transcript_exon_variant,,ENST00000477757,;	A	ENSG00000107438	ENST00000329399	Transcript	missense_variant	603	494	165	S/L	tCa/tTa	.	.	.	-1	PDLIM1	HGNC	2067	protein_coding	YES	CCDS7441.1	ENSP00000360305	PDLI1_HUMAN	.	UPI00001314CB	.	tolerated(0.11)	benign(0.082)	4/7	.	hmmpanther:PTHR24214:SF5,hmmpanther:PTHR24214	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGACTCC	.	5	BLCA
ZNF518A	0	.	GRCh37	10	97916770	97916770	+	RNA	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1548G>A	.	.	ENST00000534948	6/7	114	82	32	128	128	0	ZNF518A,non_coding_transcript_exon_variant,,ENST00000478086,;ZNF518A,non_coding_transcript_exon_variant,,ENST00000567632,;ZNF518A,non_coding_transcript_exon_variant,,ENST00000534948,;ZNF518A,intron_variant,,ENST00000563195,;ZNF518A,intron_variant,,ENST00000442635,;ZNF518A,intron_variant,,ENST00000316045,;ZNF518A,downstream_gene_variant,,ENST00000488700,;ZNF518A,non_coding_transcript_exon_variant,,ENST00000371192,;	A	ENSG00000177853	ENST00000534948	Transcript	non_coding_transcript_exon_variant	1548	.	.	.	.	.	.	.	1	ZNF518A	HGNC	29009	processed_transcript	YES	.	.	.	.	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATGAAATT	.	5	BLCA
BLNK	0	.	GRCh37	10	97983672	97983672	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435G>A	p.%3D	p.E145E	ENST00000224337	6/17	81	57	23	108	108	0	BLNK,synonymous_variant,p.%3D,ENST00000427367,;BLNK,synonymous_variant,p.%3D,ENST00000224337,;BLNK,synonymous_variant,p.%3D,ENST00000413476,;BLNK,synonymous_variant,p.%3D,ENST00000371176,;BLNK,non_coding_transcript_exon_variant,,ENST00000472763,;BLNK,intron_variant,,ENST00000467799,;	T	ENSG00000095585	ENST00000224337	Transcript	synonymous_variant	577	435	145	E	gaG/gaA	.	.	.	-1	BLNK	HGNC	14211	protein_coding	YES	CCDS7446.1	ENSP00000224337	BLNK_HUMAN	Q2MD56_HUMAN	UPI000006FDD6	.	.	.	6/17	.	hmmpanther:PTHR14098:SF3,hmmpanther:PTHR14098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTCTGA	.	5	BLCA
BLNK	0	.	GRCh37	10	97987223	97987223	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.304G>A	p.Glu102Lys	p.E102K	ENST00000224337	5/17	62	37	24	94	94	0	BLNK,missense_variant,p.Glu102Lys,ENST00000427367,;BLNK,missense_variant,p.Glu102Lys,ENST00000224337,;BLNK,missense_variant,p.Glu102Lys,ENST00000413476,;BLNK,missense_variant,p.Glu102Lys,ENST00000371176,;BLNK,missense_variant,p.Glu102Lys,ENST00000467799,;BLNK,non_coding_transcript_exon_variant,,ENST00000472763,;	T	ENSG00000095585	ENST00000224337	Transcript	missense_variant	446	304	102	E/K	Gag/Aag	.	.	.	-1	BLNK	HGNC	14211	protein_coding	YES	CCDS7446.1	ENSP00000224337	BLNK_HUMAN	Q2MD56_HUMAN	UPI000006FDD6	.	deleterious(0)	benign(0.435)	5/17	.	hmmpanther:PTHR14098:SF3,hmmpanther:PTHR14098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCTACTG	.	5	BLCA
BLNK	0	.	GRCh37	10	98031256	98031256	+	5'UTR	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-101C>G	.	.	ENST00000224337	1/17	19	15	4	24	24	0	BLNK,5_prime_UTR_variant,,ENST00000427367,;BLNK,5_prime_UTR_variant,,ENST00000224337,;BLNK,5_prime_UTR_variant,,ENST00000413476,;BLNK,5_prime_UTR_variant,,ENST00000371176,;BLNK,upstream_gene_variant,,ENST00000495266,;BLNK,5_prime_UTR_variant,,ENST00000467799,;	C	ENSG00000095585	ENST00000224337	Transcript	5_prime_UTR_variant	42	.	.	.	.	.	.	.	-1	BLNK	HGNC	14211	protein_coding	YES	CCDS7446.1	ENSP00000224337	BLNK_HUMAN	Q2MD56_HUMAN	UPI000006FDD6	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCAAGGGTTCC	.	4	BLCA
TLL2	0	.	GRCh37	10	98240136	98240152	+	Frame_Shift_Del	DEL	GCTTGGTCCAGTCTCTG	GCTTGGTCCAGTCTCTG	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	GCTTGGTCCAGTCTCTG	GCTTGGTCCAGTCTCTG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240_256delCAGAGACTGGACCAAGC	p.Arg81AspfsTer13	p.R81Dfs*13	ENST00000357947	2/21	118	96	22	136	136	0	TLL2,frameshift_variant,p.Arg81AspfsTer13,ENST00000357947,;TLL2,non_coding_transcript_exon_variant,,ENST00000469598,;	-	ENSG00000095587	ENST00000357947	Transcript	frameshift_variant	466-482	240-256	80-86	ARDWTKQ/AX	gcCAGAGACTGGACCAAGCag/gcag	.	.	.	-1	TLL2	HGNC	11844	protein_coding	YES	CCDS7449.1	ENSP00000350630	TLL2_HUMAN	.	UPI0000073AEE	.	.	.	2/21	.	PIRSF_domain:PIRSF001199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTGTCTGCTTGGTCCAGTCTCTGGCTTT	.	3	BLCA
RRP12	0	.	GRCh37	10	99140623	99140623	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1466C>T	p.Ser489Phe	p.S489F	ENST00000370992	13/34	33	24	8	42	42	0	RRP12,missense_variant,p.Ser207Phe,ENST00000536831,;RRP12,missense_variant,p.Ser428Phe,ENST00000414986,;RRP12,missense_variant,p.Ser389Phe,ENST00000315563,;RRP12,missense_variant,p.Ser489Phe,ENST00000370992,;RRP12,upstream_gene_variant,,ENST00000490815,;	A	ENSG00000052749	ENST00000370992	Transcript	missense_variant	1578	1466	489	S/F	tCc/tTc	.	.	.	-1	RRP12	HGNC	29100	protein_coding	YES	CCDS7457.1	ENSP00000360031	RRP12_HUMAN	.	UPI000013E51C	.	tolerated(0.72)	benign(0.003)	13/34	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,Pfam_domain:PF08161,hmmpanther:PTHR21576:SF2,hmmpanther:PTHR21576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACGGAGCTC	.	5	BLCA
PI4K2A	0	.	GRCh37	10	99400495	99400495	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-5G>A	.	.	ENST00000370631	1/9	20	14	6	18	18	0	PI4K2A,5_prime_UTR_variant,,ENST00000370631,;PI4K2A,intron_variant,,ENST00000370649,;PI4K2A,intron_variant,,ENST00000555577,;	A	ENSG00000155252	ENST00000370631	Transcript	5_prime_UTR_variant	53	.	.	.	.	.	.	.	1	PI4K2A	HGNC	30031	protein_coding	YES	CCDS7469.1	ENSP00000359665	P4K2A_HUMAN	.	UPI0000071D95	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGAGGGA	.	5	BLCA
SFRP5	0	.	GRCh37	10	99527399	99527400	+	In_Frame_Ins	INS	-	-	CAT	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.825_826insATG	p.Gln275_Leu276insMet	p.Q275_L276insM	ENST00000266066	3/3	48	30	18	62	62	0	SFRP5,inframe_insertion,p.Gln275_Leu276insMet,ENST00000266066,;	CAT	ENSG00000120057	ENST00000266066	Transcript	inframe_insertion	944-945	825-826	275-276	-/M	-/ATG	.	.	.	-1	SFRP5	HGNC	10779	protein_coding	YES	CCDS7472.1	ENSP00000266066	SFRP5_HUMAN	.	UPI000013D6CB	.	.	.	3/3	.	PROSITE_profiles:PS50189,hmmpanther:PTHR11309:SF85,hmmpanther:PTHR11309,Gene3D:2.40.50.120,Pfam_domain:PF01759,SMART_domains:SM00643,Superfamily_domains:SSF50242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGCAGCTGTC	.	3	BLCA
MMP27	0	.	GRCh37	11	102562529	102562529	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1510C>T	p.His504Tyr	p.H504Y	ENST00000260229	10/10	63	51	12	67	67	0	MMP27,missense_variant,p.His504Tyr,ENST00000260229,;	A	ENSG00000137675	ENST00000260229	Transcript	missense_variant	1602	1510	504	H/Y	Cat/Tat	.	.	.	-1	MMP27	HGNC	14250	protein_coding	YES	CCDS8319.1	ENSP00000260229	MMP27_HUMAN	.	UPI00001AE7D3	.	tolerated_low_confidence(0.38)	benign(0.001)	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATGAACAA	.	5	BLCA
MMP1	0	.	GRCh37	11	102668772	102668772	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52C>T	p.His18Tyr	p.H18Y	ENST00000315274	1/10	13	6	7	34	34	0	MMP1,missense_variant,p.His18Tyr,ENST00000315274,;WTAPP1,non_coding_transcript_exon_variant,,ENST00000525739,;WTAPP1,non_coding_transcript_exon_variant,,ENST00000371455,;WTAPP1,non_coding_transcript_exon_variant,,ENST00000544704,;	A	ENSG00000196611	ENST00000315274	Transcript	missense_variant	120	52	18	H/Y	Cac/Tac	.	.	.	-1	MMP1	HGNC	7155	protein_coding	YES	CCDS8322.1	ENSP00000322788	MMP1_HUMAN	Q96DZ4_HUMAN,B4DN15_HUMAN,A5GZ69_HUMAN	UPI00000422BA	.	tolerated(1)	benign(0.007)	1/10	.	hmmpanther:PTHR10201,hmmpanther:PTHR10201:SF127,PIRSF_domain:PIRSF001191	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GCTGTGAGACA	.	4	BLCA
CASP1	0	.	GRCh37	11	104905094	104905094	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115G>A	p.Glu39Lys	p.E39K	ENST00000533400	2/9	208	148	60	285	285	0	CASP1,missense_variant,p.Glu39Lys,ENST00000436863,;CASP1,missense_variant,p.Glu39Lys,ENST00000393136,;CASP1,missense_variant,p.Glu23Lys,ENST00000527979,;CASP1,missense_variant,p.Glu39Lys,ENST00000593315,;CASP1,missense_variant,p.Glu39Lys,ENST00000533400,;CASP1,missense_variant,p.Glu39Lys,ENST00000598974,;CASP1,missense_variant,p.Glu39Lys,ENST00000525825,;CASP1,5_prime_UTR_variant,,ENST00000528974,;CASP1,intron_variant,,ENST00000415981,;CASP1,intron_variant,,ENST00000353247,;CASP1,intron_variant,,ENST00000446369,;CASP1,intron_variant,,ENST00000531166,;CASP1,intron_variant,,ENST00000526568,;CASP1,intron_variant,,ENST00000534497,;CASP1,intron_variant,,ENST00000594519,;CASP1,upstream_gene_variant,,ENST00000532439,;CASP1,missense_variant,p.Glu39Lys,ENST00000529871,;CASP1,non_coding_transcript_exon_variant,,ENST00000532520,;CASP1,non_coding_transcript_exon_variant,,ENST00000526511,;CASP1,upstream_gene_variant,,ENST00000528424,;	T	ENSG00000137752	ENST00000533400	Transcript	missense_variant	151	115	39	E/K	Gag/Aag	.	.	.	-1	CASP1	HGNC	1499	protein_coding	YES	CCDS8330.1	ENSP00000433138	CASP1_HUMAN	.	UPI000003AEF8	.	deleterious(0.04)	probably_damaging(0.981)	2/9	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50209,hmmpanther:PTHR10454:SF34,hmmpanther:PTHR10454,Gene3D:1.10.533.10,Pfam_domain:PF00619,SMART_domains:SM00114,PIRSF_domain:PIRSF038001,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCTTCCT	.	5	BLCA
AMPD3	0	.	GRCh37	11	10517192	10517192	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1369G>A	p.Glu457Lys	p.E457K	ENST00000396554	9/15	21	17	4	22	22	0	AMPD3,missense_variant,p.Glu448Lys,ENST00000396553,;AMPD3,missense_variant,p.Glu457Lys,ENST00000396554,;AMPD3,missense_variant,p.Glu448Lys,ENST00000529507,;AMPD3,missense_variant,p.Glu455Lys,ENST00000528723,;AMPD3,missense_variant,p.Glu289Lys,ENST00000444303,;AMPD3,upstream_gene_variant,,ENST00000530864,;AMPD3,missense_variant,p.Glu448Lys,ENST00000529834,;AMPD3,3_prime_UTR_variant,,ENST00000534047,;AMPD3,downstream_gene_variant,,ENST00000533116,;AMPD3,upstream_gene_variant,,ENST00000529744,;	A	ENSG00000133805	ENST00000396554	Transcript	missense_variant	1710	1369	457	E/K	Gag/Aag	.	.	.	1	AMPD3	HGNC	470	protein_coding	YES	CCDS7802.1	ENSP00000379802	AMPD3_HUMAN	E9PPG2_HUMAN,E9PLK6_HUMAN	UPI0000161AFD	.	deleterious(0.03)	benign(0.004)	9/15	.	hmmpanther:PTHR11359:SF2,hmmpanther:PTHR11359,Pfam_domain:PF00962,TIGRFAM_domain:TIGR01429,Gene3D:3.20.20.140,PIRSF_domain:PIRSF001251,Superfamily_domains:SSF51556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCCTGAGGAG	.	4	BLCA
AASDHPPT	0	.	GRCh37	11	105950348	105950348	+	Missense_Mutation	SNP	G	G	A	rs750664593	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338G>A	p.Gly113Glu	p.G113E	ENST00000278618	2/6	65	50	15	81	81	0	AASDHPPT,missense_variant,p.Gly113Glu,ENST00000278618,;AASDHPPT,missense_variant,p.Gly48Glu,ENST00000524411,;AASDHPPT,missense_variant,p.Gly48Glu,ENST00000533423,;KBTBD3,upstream_gene_variant,,ENST00000526793,;KBTBD3,upstream_gene_variant,,ENST00000534815,;KBTBD3,upstream_gene_variant,,ENST00000531837,;KBTBD3,upstream_gene_variant,,ENST00000532662,;AASDHPPT,missense_variant,p.Gly113Glu,ENST00000525660,;KBTBD3,upstream_gene_variant,,ENST00000526805,;KBTBD3,upstream_gene_variant,,ENST00000528483,;	A	ENSG00000149313	ENST00000278618	Transcript	missense_variant	560	338	113	G/E	gGa/gAa	rs750664593	.	.	1	AASDHPPT	HGNC	14235	protein_coding	YES	CCDS31664.1	ENSP00000278618	ADPPT_HUMAN	E9PNF3_HUMAN,E9PLW6_HUMAN	UPI0000034CAD	.	deleterious(0)	probably_damaging(0.998)	2/6	.	Superfamily_domains:SSF56214,Gene3D:3.90.470.20,hmmpanther:PTHR12215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAGGAGACT	.	5	BLCA
GUCY1A2	0	.	GRCh37	11	106810726	106810741	+	Frame_Shift_Del	DEL	TGACTCCAGAGTGGCC	TGACTCCAGAGTGGCC	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	TGACTCCAGAGTGGCC	TGACTCCAGAGTGGCC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.651_666delGGCCACTCTGGAGTCA	p.Gln217HisfsTer32	p.Q217Hfs*32	ENST00000282249	4/9	81	67	14	103	103	0	GUCY1A2,frameshift_variant,p.Gln217HisfsTer32,ENST00000282249,;GUCY1A2,frameshift_variant,p.Gln217HisfsTer32,ENST00000526355,;GUCY1A2,frameshift_variant,p.Gln217HisfsTer32,ENST00000347596,;	-	ENSG00000152402	ENST00000282249	Transcript	frameshift_variant	1041-1056	651-666	217-222	QATLES/X	caGGCCACTCTGGAGTCA/ca	.	.	.	-1	GUCY1A2	HGNC	4684	protein_coding	YES	CCDS58170.1	ENSP00000282249	GCYA2_HUMAN	.	UPI000002A79C	.	.	.	4/9	.	hmmpanther:PTHR11920:SF276,hmmpanther:PTHR11920,Gene3D:3sj5A00,Pfam_domain:PF07700,Superfamily_domains:SSF111126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGATGGTGACTCCAGAGTGGCCTGTTT	.	3	BLCA
EIF4G2	0	.	GRCh37	11	10825530	10825530	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618G>A	p.%3D	p.K206K	ENST00000526148	8/22	64	41	23	74	74	0	EIF4G2,synonymous_variant,p.%3D,ENST00000531416,;EIF4G2,synonymous_variant,p.%3D,ENST00000525681,;EIF4G2,synonymous_variant,p.%3D,ENST00000396525,;EIF4G2,synonymous_variant,p.%3D,ENST00000532082,;EIF4G2,synonymous_variant,p.%3D,ENST00000339995,;EIF4G2,synonymous_variant,p.%3D,ENST00000526148,;EIF4G2,synonymous_variant,p.%3D,ENST00000524932,;EIF4G2,downstream_gene_variant,,ENST00000527526,;EIF4G2,upstream_gene_variant,,ENST00000531180,;EIF4G2,downstream_gene_variant,,ENST00000530702,;EIF4G2,upstream_gene_variant,,ENST00000528839,;EIF4G2,downstream_gene_variant,,ENST00000527419,;EIF4G2,downstream_gene_variant,,ENST00000532570,;EIF4G2,downstream_gene_variant,,ENST00000530211,;SNORD97,upstream_gene_variant,,ENST00000459187,;RP11-685M7.5,downstream_gene_variant,,ENST00000532365,;EIF4G2,downstream_gene_variant,,ENST00000531507,;EIF4G2,upstream_gene_variant,,ENST00000534272,;EIF4G2,downstream_gene_variant,,ENST00000525995,;EIF4G2,upstream_gene_variant,,ENST00000532120,;EIF4G2,downstream_gene_variant,,ENST00000525972,;EIF4G2,non_coding_transcript_exon_variant,,ENST00000527015,;EIF4G2,non_coding_transcript_exon_variant,,ENST00000532349,;EIF4G2,non_coding_transcript_exon_variant,,ENST00000532383,;EIF4G2,intron_variant,,ENST00000531647,;EIF4G2,downstream_gene_variant,,ENST00000534246,;EIF4G2,downstream_gene_variant,,ENST00000533485,;EIF4G2,upstream_gene_variant,,ENST00000534470,;EIF4G2,upstream_gene_variant,,ENST00000525606,;EIF4G2,downstream_gene_variant,,ENST00000528562,;EIF4G2,downstream_gene_variant,,ENST00000534605,;EIF4G2,upstream_gene_variant,,ENST00000530564,;EIF4G2,downstream_gene_variant,,ENST00000532152,;	T	ENSG00000110321	ENST00000526148	Transcript	synonymous_variant	1129	618	206	K	aaG/aaA	.	.	.	-1	EIF4G2	HGNC	3297	protein_coding	YES	CCDS31428.1	ENSP00000433664	.	Q59G42_HUMAN,Q2TU89_HUMAN,H0YEN8_HUMAN,H0YEC5_HUMAN,H0YDC0_HUMAN,H0YD99_HUMAN,H0YD77_HUMAN,H0YCF8_HUMAN,D3DQV9_HUMAN,B4DZF2_HUMAN	UPI000013C8BE	.	.	.	8/22	.	hmmpanther:PTHR23253,Gene3D:1.25.40.180,Pfam_domain:PF02854,SMART_domains:SM00543,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCTTGAT	.	5	BLCA
POU2AF1	0	.	GRCh37	11	111229643	111229643	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.17C>T	p.Pro6Leu	p.P6L	ENST00000393067	2/5	15	8	7	37	37	0	POU2AF1,missense_variant,p.Ala8Val,ENST00000531398,;POU2AF1,missense_variant,p.Pro6Leu,ENST00000393067,;POU2AF1,splice_region_variant,,ENST00000530793,;POU2AF1,splice_region_variant,,ENST00000525584,;POU2AF1,splice_region_variant,,ENST00000525662,;POU2AF1,downstream_gene_variant,,ENST00000526535,;POU2AF1,downstream_gene_variant,,ENST00000525499,;	A	ENSG00000110777	ENST00000393067	Transcript	missense_variant	532	17	6	P/L	cCc/cTc	.	.	.	-1	POU2AF1	HGNC	9211	protein_coding	YES	CCDS31675.1	ENSP00000376786	OBF1_HUMAN	.	UPI000011D77C	.	tolerated_low_confidence(0.1)	benign(0.051)	2/5	.	hmmpanther:PTHR15363:SF3,hmmpanther:PTHR15363,Pfam_domain:PF09310	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGGCTGTG	.	5	BLCA
DIXDC1	0	.	GRCh37	11	111853085	111853085	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.791C>T	p.Ser264Phe	p.S264F	ENST00000440460	7/21	32	19	12	36	36	0	DIXDC1,missense_variant,p.Ser264Phe,ENST00000440460,;DIXDC1,missense_variant,p.Ser53Phe,ENST00000315253,;DIXDC1,non_coding_transcript_exon_variant,,ENST00000530411,;DIXDC1,non_coding_transcript_exon_variant,,ENST00000524385,;DIXDC1,non_coding_transcript_exon_variant,,ENST00000389821,;DIXDC1,non_coding_transcript_exon_variant,,ENST00000524609,;	T	ENSG00000150764	ENST00000440460	Transcript	missense_variant	1088	791	264	S/F	tCt/tTt	.	.	.	1	DIXDC1	HGNC	23695	protein_coding	YES	.	ENSP00000394352	.	J3KQC9_HUMAN	UPI00015E0094	.	tolerated(0.72)	benign(0.003)	7/21	.	hmmpanther:PTHR10878,hmmpanther:PTHR10878:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATCTCGAG	.	5	BLCA
NCAM1	0	.	GRCh37	11	113073155	113073155	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.284C>T	p.Ser95Phe	p.S95F	ENST00000524665	2/19	18	15	3	15	15	0	NCAM1,missense_variant,p.Ser81Phe,ENST00000534015,;NCAM1,missense_variant,p.Ser95Phe,ENST00000524665,;NCAM1,missense_variant,p.Ser35Phe,ENST00000401611,;NCAM1,missense_variant,p.Ser26Phe,ENST00000316851,;NCAM1,5_prime_UTR_variant,,ENST00000533760,;NCAM1,non_coding_transcript_exon_variant,,ENST00000527506,;NCAM1,non_coding_transcript_exon_variant,,ENST00000397957,;NCAM1,non_coding_transcript_exon_variant,,ENST00000531044,;NCAM1,non_coding_transcript_exon_variant,,ENST00000529420,;NCAM1,non_coding_transcript_exon_variant,,ENST00000529356,;NCAM1,non_coding_transcript_exon_variant,,ENST00000531915,;NCAM1,non_coding_transcript_exon_variant,,ENST00000525973,;NCAM1,intron_variant,,ENST00000528742,;NCAM1,intron_variant,,ENST00000526427,;	T	ENSG00000149294	ENST00000524665	Transcript	missense_variant	284	284	95	S/F	tCc/tTc	.	.	.	1	NCAM1	HGNC	7656	protein_coding	YES	.	ENSP00000474028	.	S4R389_HUMAN	UPI000333505F	.	deleterious(0)	probably_damaging(0.959)	2/19	.	Prints_domain:PR01838,Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF34,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAGTCCAAAT	.	4	BLCA
C11orf71	0	.	GRCh37	11	114270854	114270854	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200G>A	p.Arg67Gln	p.R67Q	ENST00000325636	1/2	26	17	9	52	52	0	C11orf71,missense_variant,p.Arg67Gln,ENST00000325636,;RBM7,5_prime_UTR_variant,,ENST00000540163,;RBM7,upstream_gene_variant,,ENST00000544582,;RBM7,upstream_gene_variant,,ENST00000375490,;RBM7,upstream_gene_variant,,ENST00000545678,;RBM7,upstream_gene_variant,,ENST00000541475,;RBM7,upstream_gene_variant,,ENST00000542140,;RP11-212D19.4,upstream_gene_variant,,ENST00000544347,;RBM7,upstream_gene_variant,,ENST00000538134,;RBM7,upstream_gene_variant,,ENST00000544313,;	T	ENSG00000180425	ENST00000325636	Transcript	missense_variant	286	200	67	R/Q	cGa/cAa	.	.	.	-1	C11orf71	HGNC	25937	protein_coding	YES	CCDS8369.2	ENSP00000325508	CK071_HUMAN	.	UPI000037830C	.	deleterious_low_confidence(0.01)	probably_damaging(0.992)	1/2	.	hmmpanther:PTHR16445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACTCGACGG	.	2	BLCA
SIDT2	0	.	GRCh37	11	117054792	117054792	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.805G>A	p.Glu269Lys	p.E269K	ENST00000324225	8/26	23	20	3	33	33	0	SIDT2,missense_variant,p.Glu269Lys,ENST00000324225,;SIDT2,missense_variant,p.Glu269Lys,ENST00000278951,;SIDT2,missense_variant,p.Glu269Lys,ENST00000431081,;SIDT2,missense_variant,p.Glu119Lys,ENST00000524842,;SIDT2,downstream_gene_variant,,ENST00000532960,;SIDT2,downstream_gene_variant,,ENST00000531353,;SIDT2,splice_region_variant,,ENST00000530948,;SIDT2,intron_variant,,ENST00000525339,;SIDT2,splice_region_variant,,ENST00000531255,;SIDT2,upstream_gene_variant,,ENST00000524988,;SIDT2,downstream_gene_variant,,ENST00000528397,;SIDT2,upstream_gene_variant,,ENST00000527654,;SIDT2,upstream_gene_variant,,ENST00000529441,;SIDT2,upstream_gene_variant,,ENST00000526813,;	A	ENSG00000149577	ENST00000324225	Transcript	missense_variant	1336	805	269	E/K	Gaa/Aaa	.	.	.	1	SIDT2	HGNC	24272	protein_coding	YES	CCDS31682.1	ENSP00000314023	SIDT2_HUMAN	G3V172_HUMAN,E9PPN9_HUMAN,E9PME7_HUMAN,E9PMC3_HUMAN	UPI000004BA68	.	tolerated(0.52)	benign(0.006)	8/26	.	hmmpanther:PTHR12185,hmmpanther:PTHR12185:SF16,Pfam_domain:PF13965	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGATGAACCG	.	2	BLCA
AMICA1	0	.	GRCh37	11	118083203	118083203	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.117G>A	p.%3D	p.L39L	ENST00000356289	3/10	48	35	13	64	64	0	AMICA1,synonymous_variant,p.%3D,ENST00000292067,;AMICA1,synonymous_variant,p.%3D,ENST00000533261,;AMICA1,synonymous_variant,p.%3D,ENST00000525565,;AMICA1,synonymous_variant,p.%3D,ENST00000356289,;AMICA1,5_prime_UTR_variant,,ENST00000524477,;AMICA1,5_prime_UTR_variant,,ENST00000526620,;AMICA1,5_prime_UTR_variant,,ENST00000526595,;AMICA1,non_coding_transcript_exon_variant,,ENST00000534294,;AMICA1,non_coding_transcript_exon_variant,,ENST00000529164,;AMICA1,intron_variant,,ENST00000527877,;AMICA1,upstream_gene_variant,,ENST00000531536,;HSPE1P18,upstream_gene_variant,,ENST00000517602,;	T	ENSG00000160593	ENST00000356289	Transcript	synonymous_variant	291	117	39	L	ctG/ctA	.	.	.	-1	AMICA1	HGNC	19084	protein_coding	YES	CCDS41723.1	ENSP00000348635	JAML1_HUMAN	Q496M1_HUMAN,E9PNS8_HUMAN,E9PJJ4_HUMAN	UPI000000D82D	.	.	.	3/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13869,hmmpanther:PTHR13869:SF22,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCAGAGC	.	5	BLCA
AMICA1	0	.	GRCh37	11	118083760	118083760	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44-484G>A	.	.	ENST00000356289	.	22	17	5	19	19	0	AMICA1,5_prime_UTR_variant,,ENST00000292067,;AMICA1,intron_variant,,ENST00000533261,;AMICA1,intron_variant,,ENST00000525565,;AMICA1,intron_variant,,ENST00000526620,;AMICA1,intron_variant,,ENST00000356289,;AMICA1,upstream_gene_variant,,ENST00000524477,;AMICA1,5_prime_UTR_variant,,ENST00000526595,;AMICA1,intron_variant,,ENST00000534294,;AMICA1,intron_variant,,ENST00000527877,;AMICA1,intron_variant,,ENST00000529164,;AMICA1,upstream_gene_variant,,ENST00000531536,;HSPE1P18,upstream_gene_variant,,ENST00000517602,;	T	ENSG00000160593	ENST00000356289	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	AMICA1	HGNC	19084	protein_coding	YES	CCDS41723.1	ENSP00000348635	JAML1_HUMAN	Q496M1_HUMAN,E9PNS8_HUMAN,E9PJJ4_HUMAN	UPI000000D82D	.	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGATTCTGGCT	.	4	BLCA
BCL9L	0	.	GRCh37	11	118772165	118772165	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2287C>T	p.Pro763Ser	p.P763S	ENST00000334801	6/8	41	26	14	63	63	0	BCL9L,missense_variant,p.Pro763Ser,ENST00000334801,;CXCR5,downstream_gene_variant,,ENST00000292174,;BCL9L,non_coding_transcript_exon_variant,,ENST00000526143,;BCL9L,intron_variant,,ENST00000526514,;BCL9L,intron_variant,,ENST00000530293,;BCL9L,downstream_gene_variant,,ENST00000527266,;	A	ENSG00000186174	ENST00000334801	Transcript	missense_variant	3252	2287	763	P/S	Cca/Tca	.	.	.	-1	BCL9L	HGNC	23688	protein_coding	YES	CCDS8403.1	ENSP00000335320	BCL9L_HUMAN	E9PNR0_HUMAN	UPI0000192102	.	.	benign(0.003)	6/8	.	hmmpanther:PTHR15185,hmmpanther:PTHR15185:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTGGGTCCA	.	5	BLCA
TRAPPC4	0	.	GRCh37	11	118889476	118889476	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-30G>A	.	.	ENST00000533632	1/5	99	74	24	135	135	0	TRAPPC4,5_prime_UTR_variant,,ENST00000533632,;TRAPPC4,5_prime_UTR_variant,,ENST00000533058,;TRAPPC4,5_prime_UTR_variant,,ENST00000528230,;TRAPPC4,5_prime_UTR_variant,,ENST00000359005,;TRAPPC4,5_prime_UTR_variant,,ENST00000434101,;TRAPPC4,5_prime_UTR_variant,,ENST00000525303,;CCDC84,downstream_gene_variant,,ENST00000334418,;RPS25,upstream_gene_variant,,ENST00000527673,;MIR3656,upstream_gene_variant,,ENST00000577421,;RPS25,upstream_gene_variant,,ENST00000528547,;CCDC84,downstream_gene_variant,,ENST00000580556,;TRAPPC4,upstream_gene_variant,,ENST00000526141,;TRAPPC4,non_coding_transcript_exon_variant,,ENST00000531290,;TRAPPC4,non_coding_transcript_exon_variant,,ENST00000527680,;TRAPPC4,non_coding_transcript_exon_variant,,ENST00000447216,;TRAPPC4,upstream_gene_variant,,ENST00000525079,;TRAPPC4,upstream_gene_variant,,ENST00000533012,;TRAPPC4,upstream_gene_variant,,ENST00000524797,;CCDC84,downstream_gene_variant,,ENST00000526463,;CCDC84,downstream_gene_variant,,ENST00000532132,;RPS25,upstream_gene_variant,,ENST00000527853,;RPS25,upstream_gene_variant,,ENST00000532567,;RPS25,upstream_gene_variant,,ENST00000527791,;TRAPPC4,upstream_gene_variant,,ENST00000533149,;CCDC84,downstream_gene_variant,,ENST00000533787,;CCDC84,downstream_gene_variant,,ENST00000527356,;CCDC84,downstream_gene_variant,,ENST00000583842,;RPS25,upstream_gene_variant,,ENST00000524864,;	A	ENSG00000196655	ENST00000533632	Transcript	5_prime_UTR_variant	335	.	.	.	.	.	.	.	1	TRAPPC4	HGNC	19943	protein_coding	YES	CCDS8407.1	ENSP00000436005	TPPC4_HUMAN	G3V1A0_HUMAN	UPI0000052E23	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTGAATAC	.	5	BLCA
SLC37A4	0	.	GRCh37	11	118900133	118900133	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54G>A	.	.	ENST00000357590	3/12	11	6	5	13	13	0	SLC37A4,5_prime_UTR_variant,,ENST00000538950,;SLC37A4,5_prime_UTR_variant,,ENST00000357590,;SLC37A4,5_prime_UTR_variant,,ENST00000330775,;SLC37A4,5_prime_UTR_variant,,ENST00000545985,;TRAPPC4,downstream_gene_variant,,ENST00000533058,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000525102,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000527992,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000526626,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000525039,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000530407,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000534384,;SLC37A4,upstream_gene_variant,,ENST00000529510,;SLC37A4,upstream_gene_variant,,ENST00000525372,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000532085,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000525787,;SLC37A4,non_coding_transcript_exon_variant,,ENST00000532888,;SLC37A4,upstream_gene_variant,,ENST00000526275,;SLC37A4,upstream_gene_variant,,ENST00000524428,;	T	ENSG00000137700	ENST00000357590	Transcript	5_prime_UTR_variant	388	.	.	.	.	.	.	.	-1	SLC37A4	HGNC	4061	protein_coding	YES	.	ENSP00000476176	.	U3KQS2_HUMAN	UPI0003903FB9	.	.	.	3/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGTTCCTGCT	.	3	BLCA
H2AFX	0	.	GRCh37	11	118965872	118965872	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233G>A	p.Arg78Gln	p.R78Q	ENST00000530167	1/1	112	81	30	170	170	0	H2AFX,missense_variant,p.Arg78Gln,ENST00000530167,;HMBS,downstream_gene_variant,,ENST00000392841,;HMBS,downstream_gene_variant,,ENST00000542729,;HMBS,downstream_gene_variant,,ENST00000546302,;HMBS,downstream_gene_variant,,ENST00000442944,;HMBS,downstream_gene_variant,,ENST00000539986,;HMBS,downstream_gene_variant,,ENST00000535253,;DPAGT1,downstream_gene_variant,,ENST00000409993,;HMBS,downstream_gene_variant,,ENST00000543090,;HMBS,downstream_gene_variant,,ENST00000278715,;DPAGT1,downstream_gene_variant,,ENST00000354202,;HMBS,downstream_gene_variant,,ENST00000544387,;HMBS,downstream_gene_variant,,ENST00000537841,;DPAGT1,downstream_gene_variant,,ENST00000432443,;HMBS,downstream_gene_variant,,ENST00000534956,;H2AFX,missense_variant,p.Arg78Gln,ENST00000375167,;HMBS,downstream_gene_variant,,ENST00000535793,;HMBS,downstream_gene_variant,,ENST00000542345,;DPAGT1,downstream_gene_variant,,ENST00000525456,;DPAGT1,downstream_gene_variant,,ENST00000442480,;HMBS,downstream_gene_variant,,ENST00000544360,;HMBS,downstream_gene_variant,,ENST00000543543,;DPAGT1,downstream_gene_variant,,ENST00000530052,;DPAGT1,downstream_gene_variant,,ENST00000392834,;DPAGT1,downstream_gene_variant,,ENST00000524658,;DPAGT1,downstream_gene_variant,,ENST00000481084,;HMBS,downstream_gene_variant,,ENST00000539045,;DPAGT1,downstream_gene_variant,,ENST00000461999,;HMBS,downstream_gene_variant,,ENST00000542822,;HMBS,downstream_gene_variant,,ENST00000542044,;HMBS,downstream_gene_variant,,ENST00000546226,;DPAGT1,downstream_gene_variant,,ENST00000414373,;DPAGT1,downstream_gene_variant,,ENST00000533687,;HMBS,downstream_gene_variant,,ENST00000545621,;HMBS,downstream_gene_variant,,ENST00000544182,;	T	ENSG00000188486	ENST00000530167	Transcript	missense_variant	306	233	78	R/Q	cGa/cAa	COSM3791240	.	.	-1	H2AFX	HGNC	4739	protein_coding	YES	CCDS8410.1	ENSP00000434024	H2AX_HUMAN	.	UPI0000048D69	.	deleterious_low_confidence(0)	probably_damaging(0.971)	1/1	.	hmmpanther:PTHR23430:SF19,hmmpanther:PTHR23430,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00414,Superfamily_domains:SSF47113,Prints_domain:PR00620	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTCGCGTC	.	5	BLCA
MCAM	0	.	GRCh37	11	119181522	119181522	+	Silent	SNP	G	G	A	rs372892369	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1737C>T	p.%3D	p.L579L	ENST00000264036	14/16	71	50	21	101	101	0	MCAM,synonymous_variant,p.%3D,ENST00000264036,;MCAM,3_prime_UTR_variant,,ENST00000392814,;CBL,downstream_gene_variant,,ENST00000264033,;MCAM,non_coding_transcript_exon_variant,,ENST00000524940,;MCAM,non_coding_transcript_exon_variant,,ENST00000528976,;MCAM,downstream_gene_variant,,ENST00000530144,;MCAM,downstream_gene_variant,,ENST00000530706,;MCAM,downstream_gene_variant,,ENST00000529686,;MCAM,downstream_gene_variant,,ENST00000529257,;MCAM,downstream_gene_variant,,ENST00000534522,;MCAM,downstream_gene_variant,,ENST00000526992,;MCAM,downstream_gene_variant,,ENST00000525555,;MCAM,downstream_gene_variant,,ENST00000529295,;MCAM,downstream_gene_variant,,ENST00000528502,;MCAM,non_coding_transcript_exon_variant,,ENST00000525586,;MCAM,non_coding_transcript_exon_variant,,ENST00000528533,;MCAM,downstream_gene_variant,,ENST00000530937,;MCAM,downstream_gene_variant,,ENST00000530006,;MCAM,downstream_gene_variant,,ENST00000526190,;	A	ENSG00000076706	ENST00000264036	Transcript	synonymous_variant	1752	1737	579	L	ctC/ctT	rs372892369	.	.	-1	MCAM	HGNC	6934	protein_coding	YES	CCDS31690.1	ENSP00000264036	MUC18_HUMAN	.	UPI000013D4A8	.	.	.	14/16	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11973:SF18,hmmpanther:PTHR11973	.	.	.	.	.	.	.	C:0.0002	C:0.0003	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATAGAGGAC	byFrequency|byCluster	5	BLCA
ARHGEF12	0	.	GRCh37	11	120317138	120317138	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1372G>A	p.Glu458Lys	p.E458K	ENST00000397843	17/41	49	25	23	47	47	0	ARHGEF12,missense_variant,p.Glu355Lys,ENST00000532993,;ARHGEF12,missense_variant,p.Glu458Lys,ENST00000397843,;ARHGEF12,missense_variant,p.Glu439Lys,ENST00000356641,;ARHGEF12,non_coding_transcript_exon_variant,,ENST00000525960,;ARHGEF12,non_coding_transcript_exon_variant,,ENST00000528225,;ARHGEF12,non_coding_transcript_exon_variant,,ENST00000529970,;ARHGEF12,upstream_gene_variant,,ENST00000525222,;ARHGEF12,upstream_gene_variant,,ENST00000532823,;	A	ENSG00000196914	ENST00000397843	Transcript	missense_variant	1538	1372	458	E/K	Gag/Aag	.	.	.	1	ARHGEF12	HGNC	14193	protein_coding	YES	CCDS41727.1	ENSP00000380942	ARHGC_HUMAN	E9PMR6_HUMAN	UPI00000708ED	.	deleterious(0)	benign(0.444)	17/41	.	Superfamily_domains:SSF48097,Pfam_domain:PF09128,hmmpanther:PTHR22825,hmmpanther:PTHR22825:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTGAGGAT	.	5	BLCA
ARHGEF12	0	.	GRCh37	11	120346102	120346102	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3163G>A	p.Asp1055Asn	p.D1055N	ENST00000397843	33/41	121	87	33	143	143	0	ARHGEF12,missense_variant,p.Asp952Asn,ENST00000532993,;ARHGEF12,missense_variant,p.Asp1055Asn,ENST00000397843,;ARHGEF12,missense_variant,p.Asp1036Asn,ENST00000356641,;ARHGEF12,non_coding_transcript_exon_variant,,ENST00000529970,;ARHGEF12,upstream_gene_variant,,ENST00000528681,;ARHGEF12,downstream_gene_variant,,ENST00000531616,;ARHGEF12,upstream_gene_variant,,ENST00000526067,;	A	ENSG00000196914	ENST00000397843	Transcript	missense_variant	3329	3163	1055	D/N	Gat/Aat	.	.	.	1	ARHGEF12	HGNC	14193	protein_coding	YES	CCDS41727.1	ENSP00000380942	ARHGC_HUMAN	E9PMR6_HUMAN	UPI00000708ED	.	deleterious(0)	benign(0.348)	33/41	.	Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30,hmmpanther:PTHR22825,hmmpanther:PTHR22825:SF8,PROSITE_profiles:PS50003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATGATAGA	.	5	BLCA
SORL1	0	.	GRCh37	11	121416040	121416040	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1953C>T	p.%3D	p.F651F	ENST00000260197	14/48	66	49	17	82	82	0	SORL1,synonymous_variant,p.%3D,ENST00000260197,;SORL1,non_coding_transcript_exon_variant,,ENST00000532451,;	T	ENSG00000137642	ENST00000260197	Transcript	synonymous_variant	2082	1953	651	F	ttC/ttT	.	.	.	1	SORL1	HGNC	11185	protein_coding	YES	CCDS8436.1	ENSP00000260197	SORL_HUMAN	E9PS32_HUMAN,E9PPB3_HUMAN	UPI000013D0B1	.	.	.	14/48	.	hmmpanther:PTHR12106,hmmpanther:PTHR12106:SF20,SMART_domains:SM00602	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCAAACG	.	5	BLCA
MUC5AC	0	.	GRCh37	11	1221139	1221139	+	RNA	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3255C>T	.	.	ENST00000358378	18/19	22	14	8	19	19	0	MUC5AC,non_coding_transcript_exon_variant,,ENST00000358378,;	T	ENSG00000215182	ENST00000358378	Transcript	non_coding_transcript_exon_variant	3255	.	.	.	.	.	.	.	1	MUC5AC	HGNC	7515	processed_transcript	.	.	.	.	.	.	.	.	.	18/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTCCTCGGA	.	5	BLCA
MICAL2	0	.	GRCh37	11	12246219	12246219	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1541-1G>A	.	p.X514_splice	ENST00000256194	.	28	19	9	38	38	0	MICAL2,splice_acceptor_variant,,ENST00000379612,;MICAL2,splice_acceptor_variant,,ENST00000256194,;MICAL2,splice_acceptor_variant,,ENST00000527546,;MICAL2,splice_acceptor_variant,,ENST00000342902,;MICAL2,splice_acceptor_variant,,ENST00000537344,;MICAL2,upstream_gene_variant,,ENST00000529562,;MICAL2,upstream_gene_variant,,ENST00000526475,;MICAL2,splice_acceptor_variant,,ENST00000528931,;MICAL2,splice_acceptor_variant,,ENST00000530691,;MICAL2,non_coding_transcript_exon_variant,,ENST00000533219,;	A	ENSG00000133816	ENST00000256194	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	MICAL2	HGNC	24693	protein_coding	YES	CCDS7809.1	ENSP00000256194	MICA2_HUMAN	E9PRE0_HUMAN,E9PNC3_HUMAN,E9PL42_HUMAN,E9PKI3_HUMAN,E9PJB0_HUMAN	UPI000000DA92	.	.	.	.	12/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGCAGAGTCA	.	3	BLCA
MICAL2	0	.	GRCh37	11	12246248	12246248	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1569G>A	p.%3D	p.L523L	ENST00000256194	13/28	26	16	9	38	38	0	MICAL2,synonymous_variant,p.%3D,ENST00000379612,;MICAL2,synonymous_variant,p.%3D,ENST00000256194,;MICAL2,synonymous_variant,p.%3D,ENST00000527546,;MICAL2,synonymous_variant,p.%3D,ENST00000342902,;MICAL2,synonymous_variant,p.%3D,ENST00000537344,;MICAL2,upstream_gene_variant,,ENST00000529562,;MICAL2,upstream_gene_variant,,ENST00000526475,;MICAL2,non_coding_transcript_exon_variant,,ENST00000528931,;MICAL2,non_coding_transcript_exon_variant,,ENST00000530691,;MICAL2,non_coding_transcript_exon_variant,,ENST00000533219,;	A	ENSG00000133816	ENST00000256194	Transcript	synonymous_variant	1857	1569	523	L	ctG/ctA	.	.	.	1	MICAL2	HGNC	24693	protein_coding	YES	CCDS7809.1	ENSP00000256194	MICA2_HUMAN	E9PRE0_HUMAN,E9PNC3_HUMAN,E9PL42_HUMAN,E9PKI3_HUMAN,E9PJB0_HUMAN	UPI000000DA92	.	.	.	13/28	.	Superfamily_domains:SSF47576,SMART_domains:SM00033,Pfam_domain:PF00307,Gene3D:1.10.418.10,hmmpanther:PTHR11915:SF239,hmmpanther:PTHR11915,PROSITE_profiles:PS50021	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTGACCTG	.	5	BLCA
OR10S1	0	.	GRCh37	11	123848254	123848254	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145A>G	p.Ser49Gly	p.S49G	ENST00000531945	1/1	25	20	5	41	41	0	OR10S1,missense_variant,p.Ser49Gly,ENST00000531945,;	C	ENSG00000196248	ENST00000531945	Transcript	missense_variant	235	145	49	S/G	Agc/Ggc	.	.	.	-1	OR10S1	HGNC	14807	protein_coding	YES	CCDS31701.1	ENSP00000431914	O10S1_HUMAN	.	UPI00001A7787	.	deleterious(0.04)	benign(0.003)	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF205,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGCTGTAGA	.	5	BLCA
VWA5A	0	.	GRCh37	11	123989307	123989307	+	Silent	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537A>T	p.%3D	p.T179T	ENST00000456829	6/19	52	43	9	72	72	0	VWA5A,synonymous_variant,p.%3D,ENST00000392744,;VWA5A,synonymous_variant,p.%3D,ENST00000456829,;VWA5A,synonymous_variant,p.%3D,ENST00000449321,;VWA5A,synonymous_variant,p.%3D,ENST00000360334,;VWA5A,synonymous_variant,p.%3D,ENST00000361352,;VWA5A,synonymous_variant,p.%3D,ENST00000392748,;VWA5A,downstream_gene_variant,,ENST00000533623,;	T	ENSG00000110002	ENST00000456829	Transcript	synonymous_variant	788	537	179	T	acA/acT	.	.	.	1	VWA5A	HGNC	6658	protein_coding	YES	CCDS8444.1	ENSP00000407726	VMA5A_HUMAN	.	UPI0000158B80	.	.	.	6/19	.	hmmpanther:PTHR10338:SF100,hmmpanther:PTHR10338	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACACACTCAG	.	2	BLCA
SIAE	0	.	GRCh37	11	124543546	124543546	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59G>A	p.Arg20Lys	p.R20K	ENST00000263593	1/10	18	11	6	18	18	0	SIAE,missense_variant,p.Arg20Lys,ENST00000263593,;SIAE,5_prime_UTR_variant,,ENST00000545756,;SPA17,upstream_gene_variant,,ENST00000227135,;SPA17,upstream_gene_variant,,ENST00000532692,;SIAE,intron_variant,,ENST00000525730,;SPA17,upstream_gene_variant,,ENST00000529498,;SPA17,upstream_gene_variant,,ENST00000524614,;SIAE,non_coding_transcript_exon_variant,,ENST00000436137,;SIAE,upstream_gene_variant,,ENST00000533613,;	T	ENSG00000110013	ENST00000263593	Transcript	missense_variant	232	59	20	R/K	aGa/aAa	.	.	.	-1	SIAE	HGNC	18187	protein_coding	YES	CCDS8449.1	ENSP00000263593	SIAE_HUMAN	.	UPI0000073B2D	.	tolerated(0.3)	benign(0.002)	1/10	.	hmmpanther:PTHR22901	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTCTGTCG	.	5	BLCA
ROBO3	0	.	GRCh37	11	124750313	124750313	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3959-1G>A	.	p.X1320_splice	ENST00000397801	.	19	5	13	24	24	0	ROBO3,splice_acceptor_variant,,ENST00000543966,;ROBO3,splice_acceptor_variant,,ENST00000538940,;ROBO3,splice_acceptor_variant,,ENST00000397801,;ROBO4,downstream_gene_variant,,ENST00000306534,;ROBO4,downstream_gene_variant,,ENST00000533054,;RP11-664I21.5,upstream_gene_variant,,ENST00000524453,;ROBO3,splice_acceptor_variant,,ENST00000525482,;ROBO3,downstream_gene_variant,,ENST00000531075,;ROBO3,downstream_gene_variant,,ENST00000528144,;ROBO3,downstream_gene_variant,,ENST00000531545,;ROBO3,downstream_gene_variant,,ENST00000532472,;ROBO3,downstream_gene_variant,,ENST00000528820,;ROBO3,downstream_gene_variant,,ENST00000526551,;ROBO3,splice_acceptor_variant,,ENST00000525304,;ROBO3,splice_acceptor_variant,,ENST00000527196,;ROBO3,splice_acceptor_variant,,ENST00000529658,;ROBO3,splice_acceptor_variant,,ENST00000527245,;ROBO3,splice_acceptor_variant,,ENST00000525448,;ROBO3,splice_acceptor_variant,,ENST00000524971,;ROBO3,downstream_gene_variant,,ENST00000534598,;ROBO3,downstream_gene_variant,,ENST00000528068,;ROBO3,downstream_gene_variant,,ENST00000530647,;ROBO4,downstream_gene_variant,,ENST00000534407,;ROBO3,downstream_gene_variant,,ENST00000531119,;ROBO3,downstream_gene_variant,,ENST00000531888,;	A	ENSG00000154134	ENST00000397801	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ROBO3	HGNC	13433	protein_coding	YES	CCDS44755.1	ENSP00000380903	ROBO3_HUMAN	Q9H7C7_HUMAN,Q96HH0_HUMAN,F5H0K7_HUMAN	UPI000035AA82	.	.	.	.	26/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGAAGAG	.	5	BLCA
APLP2	0	.	GRCh37	11	129997685	129997685	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1246G>A	p.Glu416Lys	p.E416K	ENST00000263574	9/18	21	16	5	35	35	0	APLP2,missense_variant,p.Glu416Lys,ENST00000338167,;APLP2,missense_variant,p.Glu416Lys,ENST00000263574,;APLP2,missense_variant,p.Glu187Lys,ENST00000345598,;APLP2,missense_variant,p.Glu204Lys,ENST00000539648,;APLP2,missense_variant,p.Glu360Lys,ENST00000528499,;APLP2,missense_variant,p.Glu323Lys,ENST00000543137,;APLP2,missense_variant,p.Glu426Lys,ENST00000278756,;APLP2,3_prime_UTR_variant,,ENST00000533616,;	A	ENSG00000084234	ENST00000263574	Transcript	missense_variant	1318	1246	416	E/K	Gag/Aag	.	.	.	1	APLP2	HGNC	598	protein_coding	YES	CCDS8486.1	ENSP00000263574	APLP2_HUMAN	Q9UED0_HUMAN	UPI0000125CAE	.	deleterious(0.01)	possibly_damaging(0.904)	9/18	.	Superfamily_domains:0043391,Pfam_domain:PF12925,hmmpanther:PTHR23103:SF14,hmmpanther:PTHR23103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCAGAGCTT	.	5	BLCA
C11orf58	0	.	GRCh37	11	16760328	16760328	+	Translation_Start_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000228136	1/5	43	29	14	58	58	0	C11orf58,start_lost,p.Met1?,ENST00000528634,;C11orf58,start_lost,p.Met1?,ENST00000524439,;C11orf58,start_lost,p.Met1?,ENST00000525684,;C11orf58,start_lost,p.Met1?,ENST00000228136,;C11orf58,5_prime_UTR_variant,,ENST00000422258,;SOX6,intron_variant,,ENST00000525259,;C11orf58,intron_variant,,ENST00000527893,;SOX6,upstream_gene_variant,,ENST00000524520,;C11orf58,non_coding_transcript_exon_variant,,ENST00000525256,;SOX6,upstream_gene_variant,,ENST00000530378,;	A	ENSG00000110696	ENST00000228136	Transcript	start_lost	381	3	1	M/I	atG/atA	.	.	.	1	C11orf58	HGNC	16990	protein_coding	YES	CCDS7822.1	ENSP00000228136	SMAP_HUMAN	E3W975_HUMAN	UPI000006FA0C	.	deleterious_low_confidence(0)	possibly_damaging(0.649)	1/5	.	hmmpanther:PTHR22175,hmmpanther:PTHR22175:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATGAGTGC	.	5	BLCA
C11orf58	0	.	GRCh37	11	16769643	16769643	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.148-1G>A	.	p.X50_splice	ENST00000228136	.	72	53	19	98	98	0	C11orf58,splice_acceptor_variant,,ENST00000528634,;C11orf58,splice_acceptor_variant,,ENST00000524439,;C11orf58,splice_acceptor_variant,,ENST00000228136,;C11orf58,splice_acceptor_variant,,ENST00000422258,;C11orf58,intron_variant,,ENST00000525684,;C11orf58,splice_acceptor_variant,,ENST00000527893,;C11orf58,splice_acceptor_variant,,ENST00000525256,;C11orf58,splice_acceptor_variant,,ENST00000525106,;C11orf58,non_coding_transcript_exon_variant,,ENST00000524461,;C11orf58,upstream_gene_variant,,ENST00000531658,;	A	ENSG00000110696	ENST00000228136	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	C11orf58	HGNC	16990	protein_coding	YES	CCDS7822.1	ENSP00000228136	SMAP_HUMAN	E3W975_HUMAN	UPI000006FA0C	.	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATAGAAAGA	.	5	BLCA
PIK3C2A	0	.	GRCh37	11	17143799	17143799	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2593G>A	p.Glu865Lys	p.E865K	ENST00000265970	14/32	95	66	28	129	129	0	PIK3C2A,missense_variant,p.Glu485Lys,ENST00000540361,;PIK3C2A,missense_variant,p.Glu865Lys,ENST00000265970,;PIK3C2A,intron_variant,,ENST00000531428,;	T	ENSG00000011405	ENST00000265970	Transcript	missense_variant	2593	2593	865	E/K	Gaa/Aaa	.	.	.	-1	PIK3C2A	HGNC	8971	protein_coding	YES	CCDS7824.1	ENSP00000265970	P3C2A_HUMAN	L7RRS0_HUMAN,F5H2B0_HUMAN,E9PPP3_HUMAN	UPI000013D6B3	.	tolerated(0.25)	probably_damaging(0.977)	14/32	.	Superfamily_domains:SSF48371,SMART_domains:SM00145,Gene3D:1.25.40.70,hmmpanther:PTHR10048:SF28,hmmpanther:PTHR10048,PROSITE_profiles:PS51545	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCTAAGT	.	5	BLCA
PIK3C2A	0	.	GRCh37	11	17190906	17190906	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.383C>T	p.Ser128Leu	p.S128L	ENST00000265970	1/32	68	38	30	86	86	0	PIK3C2A,missense_variant,p.Ser128Leu,ENST00000265970,;PIK3C2A,missense_variant,p.Ser128Leu,ENST00000532035,;PIK3C2A,intron_variant,,ENST00000540361,;PIK3C2A,intron_variant,,ENST00000531428,;PIK3C2A,missense_variant,p.Ser128Leu,ENST00000533645,;	A	ENSG00000011405	ENST00000265970	Transcript	missense_variant	383	383	128	S/L	tCa/tTa	.	.	.	-1	PIK3C2A	HGNC	8971	protein_coding	YES	CCDS7824.1	ENSP00000265970	P3C2A_HUMAN	L7RRS0_HUMAN,F5H2B0_HUMAN,E9PPP3_HUMAN	UPI000013D6B3	.	deleterious_low_confidence(0.01)	probably_damaging(0.917)	1/32	.	hmmpanther:PTHR10048:SF28,hmmpanther:PTHR10048	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTGAAAAG	.	5	BLCA
USH1C	0	.	GRCh37	11	17530958	17530958	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1958G>A	p.Ser653Asn	p.S653N	ENST00000005226	18/27	33	21	12	36	36	0	USH1C,missense_variant,p.Ser653Asn,ENST00000005226,;USH1C,intron_variant,,ENST00000527720,;USH1C,intron_variant,,ENST00000318024,;USH1C,intron_variant,,ENST00000527020,;USH1C,intron_variant,,ENST00000529563,;USH1C,intron_variant,,ENST00000526313,;	T	ENSG00000006611	ENST00000005226	Transcript	missense_variant	1958	1958	653	S/N	aGt/aAt	.	.	.	-1	USH1C	HGNC	12597	protein_coding	YES	CCDS7825.1	ENSP00000005226	USH1C_HUMAN	.	UPI00001D965A	.	tolerated_low_confidence(0.4)	benign(0.022)	18/27	.	hmmpanther:PTHR23116:SF32,hmmpanther:PTHR23116	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCACTGTGG	.	5	BLCA
SAAL1	0	.	GRCh37	11	18111997	18111997	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457C>T	p.%3D	p.L153L	ENST00000524803	5/12	45	33	12	43	43	0	SAAL1,synonymous_variant,p.%3D,ENST00000529318,;SAAL1,synonymous_variant,p.%3D,ENST00000300013,;SAAL1,synonymous_variant,p.%3D,ENST00000530180,;SAAL1,synonymous_variant,p.%3D,ENST00000524803,;SAAL1,synonymous_variant,p.%3D,ENST00000531751,;SAAL1,intron_variant,,ENST00000532452,;SAAL1,upstream_gene_variant,,ENST00000530436,;SAAL1,non_coding_transcript_exon_variant,,ENST00000533851,;SAAL1,upstream_gene_variant,,ENST00000534721,;SAAL1,downstream_gene_variant,,ENST00000530736,;SAAL1,synonymous_variant,p.%3D,ENST00000531581,;SAAL1,non_coding_transcript_exon_variant,,ENST00000528002,;SAAL1,upstream_gene_variant,,ENST00000531216,;	A	ENSG00000166788	ENST00000524803	Transcript	synonymous_variant	507	457	153	L	Ctg/Ttg	.	.	.	-1	SAAL1	HGNC	25158	protein_coding	YES	CCDS31439.1	ENSP00000432487	SAAL1_HUMAN	G1UCX3_HUMAN	UPI00001F9E3B	.	.	.	5/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23424:SF4,hmmpanther:PTHR23424,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	CAGCAGAGTAG	.	4	BLCA
TNNI2	0	.	GRCh37	11	1862727	1862727	+	Silent	SNP	C	C	T	rs753322831	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495C>T	p.%3D	p.I165I	ENST00000381906	8/8	42	32	10	67	67	0	TNNI2,synonymous_variant,p.%3D,ENST00000252898,;TNNI2,synonymous_variant,p.%3D,ENST00000381905,;TNNI2,synonymous_variant,p.%3D,ENST00000381911,;TNNI2,synonymous_variant,p.%3D,ENST00000381906,;SYT8,downstream_gene_variant,,ENST00000535046,;SYT8,downstream_gene_variant,,ENST00000341958,;SYT8,downstream_gene_variant,,ENST00000381978,;SYT8,downstream_gene_variant,,ENST00000381968,;SYT8,downstream_gene_variant,,ENST00000479276,;TNNI2,downstream_gene_variant,,ENST00000468473,;SYT8,downstream_gene_variant,,ENST00000424556,;SYT8,downstream_gene_variant,,ENST00000479089,;SYT8,downstream_gene_variant,,ENST00000494431,;SYT8,downstream_gene_variant,,ENST00000490707,;SYT8,downstream_gene_variant,,ENST00000464897,;	T	ENSG00000130598	ENST00000381906	Transcript	synonymous_variant	564	495	165	I	atC/atT	rs753322831,COSM3868931	.	.	1	TNNI2	HGNC	11946	protein_coding	YES	CCDS31333.1	ENSP00000371331	TNNI2_HUMAN	.	UPI0000001605	.	.	.	8/8	.	hmmpanther:PTHR13738:SF2,hmmpanther:PTHR13738	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCGAGGA	byFrequency	5	BLCA
E2F8	0	.	GRCh37	11	19259595	19259595	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>A	p.Glu34Lys	p.E34K	ENST00000527884	3/13	64	43	20	95	95	0	E2F8,missense_variant,p.Glu34Lys,ENST00000532666,;E2F8,missense_variant,p.Glu34Lys,ENST00000527884,;E2F8,missense_variant,p.Glu34Lys,ENST00000250024,;RP11-428C19.4,intron_variant,,ENST00000527978,;	T	ENSG00000129173	ENST00000527884	Transcript	missense_variant	333	100	34	E/K	Gag/Aag	.	.	.	-1	E2F8	HGNC	24727	protein_coding	YES	CCDS7849.1	ENSP00000434199	E2F8_HUMAN	E9PMT9_HUMAN	UPI00001F9E94	.	deleterious(0.01)	benign(0.309)	3/13	.	hmmpanther:PTHR12081,hmmpanther:PTHR12081:SF40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCTGCCA	.	5	BLCA
NELL1	0	.	GRCh37	11	21594897	21594897	+	Missense_Mutation	SNP	G	G	C	rs768127044	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2324G>C	p.Arg775Pro	p.R775P	ENST00000357134	19/20	120	95	24	118	118	0	NELL1,missense_variant,p.Arg718Pro,ENST00000325319,;NELL1,missense_variant,p.Arg775Pro,ENST00000357134,;NELL1,missense_variant,p.Arg803Pro,ENST00000298925,;NELL1,missense_variant,p.Arg728Pro,ENST00000532434,;NELL1,non_coding_transcript_exon_variant,,ENST00000529218,;	C	ENSG00000165973	ENST00000357134	Transcript	missense_variant	2476	2324	775	R/P	cGg/cCg	rs768127044,COSM1756749	.	.	1	NELL1	HGNC	7750	protein_coding	YES	CCDS7855.1	ENSP00000349654	NELL1_HUMAN	K9UUD5_HUMAN	UPI000013E53D	.	deleterious(0)	possibly_damaging(0.889)	19/20	.	hmmpanther:PTHR24042,hmmpanther:PTHR24042:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCACGGCTTA	byCluster	5	BLCA
TSPAN32	0	.	GRCh37	11	2339171	2339171	+	3'UTR	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*17G>C	.	.	ENST00000182290	10/10	20	15	5	16	16	0	TSPAN32,3_prime_UTR_variant,,ENST00000182290,;TSPAN32,3_prime_UTR_variant,,ENST00000381121,;TSPAN32,3_prime_UTR_variant,,ENST00000451520,;TSPAN32,downstream_gene_variant,,ENST00000381117,;RNU6-878P,upstream_gene_variant,,ENST00000384578,;TSPAN32,non_coding_transcript_exon_variant,,ENST00000486011,;TSPAN32,downstream_gene_variant,,ENST00000484523,;TSPAN32,downstream_gene_variant,,ENST00000479508,;TSPAN32,downstream_gene_variant,,ENST00000483227,;TSPAN32,3_prime_UTR_variant,,ENST00000339046,;TSPAN32,3_prime_UTR_variant,,ENST00000446063,;TSPAN32,non_coding_transcript_exon_variant,,ENST00000493924,;TSPAN32,non_coding_transcript_exon_variant,,ENST00000461200,;TSPAN32,downstream_gene_variant,,ENST00000484104,;TSPAN32,downstream_gene_variant,,ENST00000493948,;TSPAN32,downstream_gene_variant,,ENST00000498313,;	C	ENSG00000064201	ENST00000182290	Transcript	3_prime_UTR_variant	1117	.	.	.	.	.	.	.	1	TSPAN32	HGNC	13410	protein_coding	YES	CCDS7733.1	ENSP00000182290	TSN32_HUMAN	.	UPI000013198B	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTGGGCTGCA	.	2	BLCA
TSSC4	0	.	GRCh37	11	2424301	2424301	+	Silent	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438A>C	p.%3D	p.S146S	ENST00000333256	3/3	12	9	3	15	15	0	TSSC4,synonymous_variant,p.%3D,ENST00000451491,;TSSC4,synonymous_variant,p.%3D,ENST00000496468,;TSSC4,synonymous_variant,p.%3D,ENST00000437110,;TSSC4,synonymous_variant,p.%3D,ENST00000380992,;TSSC4,synonymous_variant,p.%3D,ENST00000440813,;TSSC4,synonymous_variant,p.%3D,ENST00000380996,;TSSC4,synonymous_variant,p.%3D,ENST00000333256,;TRPM5,downstream_gene_variant,,ENST00000533060,;TRPM5,downstream_gene_variant,,ENST00000533881,;TSSC4,downstream_gene_variant,,ENST00000435795,;TSSC4,downstream_gene_variant,,ENST00000485682,;TRPM5,downstream_gene_variant,,ENST00000528453,;TRPM5,downstream_gene_variant,,ENST00000452833,;TRPM5,downstream_gene_variant,,ENST00000155858,;AC124057.5,upstream_gene_variant,,ENST00000433035,;TSSC4,upstream_gene_variant,,ENST00000467308,;	C	ENSG00000184281	ENST00000333256	Transcript	synonymous_variant	881	438	146	S	tcA/tcC	.	.	.	1	TSSC4	HGNC	12386	protein_coding	YES	CCDS7735.1	ENSP00000331087	TSSC4_HUMAN	E9PME3_HUMAN,E9PL88_HUMAN,C9JHT9_HUMAN,C9JDU0_HUMAN	UPI0000161FA5	.	.	.	3/3	.	Low_complexity_(Seg):seg,Pfam_domain:PF15264,hmmpanther:PTHR13445,hmmpanther:PTHR13445:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTCACCAAG	.	2	BLCA
ANO3	0	.	GRCh37	11	26682070	26682070	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*79G>A	.	.	ENST00000256737	27/27	29	20	9	35	35	0	ANO3,3_prime_UTR_variant,,ENST00000531568,;ANO3,3_prime_UTR_variant,,ENST00000525139,;ANO3,3_prime_UTR_variant,,ENST00000256737,;ANO3,3_prime_UTR_variant,,ENST00000537978,;	A	ENSG00000134343	ENST00000256737	Transcript	3_prime_UTR_variant	3877	.	.	.	.	.	.	.	1	ANO3	HGNC	14004	protein_coding	YES	CCDS31447.1	ENSP00000256737	ANO3_HUMAN	E9PQ79_HUMAN,B7Z3F5_HUMAN,B7Z3A8_HUMAN	UPI00001F9ED8	.	.	.	27/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ATCTAGGAGGA	.	4	BLCA
CARS	0	.	GRCh37	11	3026633	3026633	+	Missense_Mutation	SNP	C	C	T	rs766036181	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2180G>A	p.Arg727Lys	p.R727K	ENST00000380525	20/23	92	63	29	123	123	0	CARS,missense_variant,p.Arg644Lys,ENST00000278224,;CARS,missense_variant,p.Arg644Lys,ENST00000397111,;CARS,missense_variant,p.Arg727Lys,ENST00000380525,;CARS,missense_variant,p.Arg634Lys,ENST00000397114,;CARS,missense_variant,p.Arg657Lys,ENST00000401769,;CARS,non_coding_transcript_exon_variant,,ENST00000470221,;CARS,3_prime_UTR_variant,,ENST00000529772,;CARS,3_prime_UTR_variant,,ENST00000531387,;CARS,non_coding_transcript_exon_variant,,ENST00000484484,;CARS,non_coding_transcript_exon_variant,,ENST00000526890,;CARS,non_coding_transcript_exon_variant,,ENST00000466442,;	T	ENSG00000110619	ENST00000380525	Transcript	missense_variant	2250	2180	727	R/K	aGa/aAa	rs766036181	.	.	-1	CARS	HGNC	1493	protein_coding	YES	CCDS41600.1	ENSP00000369897	SYCC_HUMAN	.	UPI00004C4152	.	tolerated(0.52)	benign(0.02)	20/23	.	hmmpanther:PTHR10890,hmmpanther:PTHR10890:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCTGTCT	.	5	BLCA
HIPK3	0	.	GRCh37	11	33308963	33308963	+	Missense_Mutation	SNP	C	C	T	rs142299107	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1003C>T	p.Arg335Trp	p.R335W	ENST00000303296	2/17	99	44	55	158	158	0	HIPK3,missense_variant,p.Arg335Trp,ENST00000525975,;HIPK3,missense_variant,p.Arg335Trp,ENST00000456517,;HIPK3,missense_variant,p.Arg335Trp,ENST00000379016,;HIPK3,missense_variant,p.Arg335Trp,ENST00000303296,;HIPK3,downstream_gene_variant,,ENST00000531504,;	T	ENSG00000110422	ENST00000303296	Transcript	missense_variant	1308	1003	335	R/W	Cgg/Tgg	rs142299107	.	.	1	HIPK3	HGNC	4915	protein_coding	YES	CCDS7884.1	ENSP00000304226	HIPK3_HUMAN	E9PKD7_HUMAN	UPI000006D7F8	.	deleterious(0)	probably_damaging(0.999)	2/17	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR24058:SF29,hmmpanther:PTHR24058,PROSITE_profiles:PS50011	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCGGCAG	byCluster|by1000G	5	BLCA
ZNF195	0	.	GRCh37	11	3381506	3381506	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.732C>T	p.%3D	p.F244F	ENST00000399602	6/6	48	35	13	54	54	0	ZNF195,synonymous_variant,p.%3D,ENST00000528410,;ZNF195,synonymous_variant,p.%3D,ENST00000526601,;ZNF195,synonymous_variant,p.%3D,ENST00000429541,;ZNF195,synonymous_variant,p.%3D,ENST00000354599,;ZNF195,synonymous_variant,p.%3D,ENST00000399602,;ZNF195,synonymous_variant,p.%3D,ENST00000343338,;ZNF195,synonymous_variant,p.%3D,ENST00000005082,;ZNF195,3_prime_UTR_variant,,ENST00000438262,;ZNF195,intron_variant,,ENST00000528796,;ZNF195,downstream_gene_variant,,ENST00000529678,;ZNF195,downstream_gene_variant,,ENST00000534569,;ZNF195,downstream_gene_variant,,ENST00000533036,;ZNF195,downstream_gene_variant,,ENST00000427810,;ZNF195,downstream_gene_variant,,ENST00000528636,;ZNF195,downstream_gene_variant,,ENST00000524857,;ZNF195,downstream_gene_variant,,ENST00000330692,;ZNF195,downstream_gene_variant,,ENST00000530643,;ZNF195,downstream_gene_variant,,ENST00000526540,;ZNF195,downstream_gene_variant,,ENST00000529228,;ZNF195,downstream_gene_variant,,ENST00000526598,;ZNF195,downstream_gene_variant,,ENST00000528218,;ZNF195,downstream_gene_variant,,ENST00000529789,;ZNF195,downstream_gene_variant,,ENST00000525313,;	A	ENSG00000005801	ENST00000399602	Transcript	synonymous_variant	859	732	244	F	ttC/ttT	.	.	.	-1	ZNF195	HGNC	12986	protein_coding	YES	CCDS44522.1	ENSP00000382511	ZN195_HUMAN	.	UPI0000D6258D	.	.	.	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF87,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CATTTGAAAGG	.	4	BLCA
ABTB2	0	.	GRCh37	11	34226212	34226212	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.909C>T	p.%3D	p.F303F	ENST00000435224	2/17	19	10	9	45	45	0	ABTB2,synonymous_variant,p.%3D,ENST00000435224,;ABTB2,synonymous_variant,p.%3D,ENST00000298992,;ABTB2,non_coding_transcript_exon_variant,,ENST00000530814,;	A	ENSG00000166016	ENST00000435224	Transcript	synonymous_variant	1334	909	303	F	ttC/ttT	.	.	.	-1	ABTB2	HGNC	23842	protein_coding	YES	CCDS7890.2	ENSP00000410157	ABTB2_HUMAN	.	UPI0001DD21BB	.	.	.	2/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAAGTA	.	5	BLCA
CAT	0	.	GRCh37	11	34477673	34477673	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.827C>T	p.Ser276Phe	p.S276F	ENST00000241052	7/13	26	14	12	63	63	0	CAT,missense_variant,p.Ser276Phe,ENST00000241052,;CAT,upstream_gene_variant,,ENST00000528104,;CAT,upstream_gene_variant,,ENST00000530343,;	T	ENSG00000121691	ENST00000241052	Transcript	missense_variant	916	827	276	S/F	tCc/tTc	.	.	.	1	CAT	HGNC	1516	protein_coding	YES	CCDS7891.1	ENSP00000241052	CATA_HUMAN	Q8TAK2_HUMAN	UPI000002F090	.	deleterious(0)	probably_damaging(0.99)	7/13	.	Superfamily_domains:SSF56634,SMART_domains:SM01060,PIRSF_domain:PIRSF038928,Gene3D:2.40.180.10,Pfam_domain:PF00199,hmmpanther:PTHR11465,PROSITE_profiles:PS51402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCCTGGA	.	5	BLCA
FJX1	0	.	GRCh37	11	35640755	35640755	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571G>A	p.Glu191Lys	p.E191K	ENST00000317811	1/1	10	7	3	25	25	0	FJX1,missense_variant,p.Glu191Lys,ENST00000317811,;FJX1,upstream_gene_variant,,ENST00000532914,;	A	ENSG00000179431	ENST00000317811	Transcript	missense_variant	1021	571	191	E/K	Gag/Aag	COSM415613,COSM415614	.	.	1	FJX1	HGNC	17166	protein_coding	YES	CCDS44570.1	ENSP00000400223	FJX1_HUMAN	.	UPI0000062321	.	deleterious(0)	probably_damaging(0.98)	1/1	.	Prints_domain:PR02072,hmmpanther:PTHR13147,hmmpanther:PTHR13147:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGCGAGGCC	.	2	BLCA
TRIM44	0	.	GRCh37	11	35685175	35685175	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>A	p.%3D	p.E172E	ENST00000299413	1/5	30	23	7	52	52	0	TRIM44,synonymous_variant,p.%3D,ENST00000299413,;RP1-276E15.1,downstream_gene_variant,,ENST00000525573,;	A	ENSG00000166326	ENST00000299413	Transcript	synonymous_variant	823	516	172	E	gaG/gaA	COSM1321696	.	.	1	TRIM44	HGNC	19016	protein_coding	YES	CCDS31461.1	ENSP00000299413	TRI44_HUMAN	.	UPI00000725C5	.	.	.	1/5	.	hmmpanther:PTHR24103:SF104,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGAGAGAGT	.	2	BLCA
TRAF6	0	.	GRCh37	11	36520052	36520052	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435G>A	p.%3D	p.L145L	ENST00000526995	3/7	75	58	16	80	80	0	TRAF6,synonymous_variant,p.%3D,ENST00000348124,;TRAF6,synonymous_variant,p.%3D,ENST00000526995,;TRAF6,upstream_gene_variant,,ENST00000529150,;	T	ENSG00000175104	ENST00000526995	Transcript	synonymous_variant	682	435	145	L	ctG/ctA	.	.	.	-1	TRAF6	HGNC	12036	protein_coding	YES	CCDS7901.1	ENSP00000433623	TRAF6_HUMAN	.	UPI000000D924	.	.	.	3/7	.	hmmpanther:PTHR10131,hmmpanther:PTHR10131:SF52,Gene3D:1k2fA02,PIRSF_domain:PIRSF015614,Superfamily_domains:SSF49599	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCAGTTC	.	5	BLCA
CHRNA10	0	.	GRCh37	11	3690514	3690514	+	Nonsense_Mutation	SNP	G	G	A	rs768300880	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274C>T	p.Arg92Ter	p.R92*	ENST00000250699	3/5	23	16	7	26	26	0	CHRNA10,stop_gained,p.Arg92Ter,ENST00000250699,;CHRNA10,5_prime_UTR_variant,,ENST00000534359,;NUP98,downstream_gene_variant,,ENST00000533346,;ART1,downstream_gene_variant,,ENST00000250693,;Y_RNA,upstream_gene_variant,,ENST00000363331,;CHRNA10,non_coding_transcript_exon_variant,,ENST00000493827,;CHRNA10,3_prime_UTR_variant,,ENST00000526599,;	A	ENSG00000129749	ENST00000250699	Transcript	stop_gained	346	274	92	R/*	Cga/Tga	rs768300880,COSM1638830	.	.	-1	CHRNA10	HGNC	13800	protein_coding	YES	CCDS7745.1	ENSP00000250699	ACH10_HUMAN	.	UPI0000038CF1	.	.	.	3/5	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF428,Pfam_domain:PF02931,TIGRFAM_domain:TIGR00860,Gene3D:2.70.170.10,Superfamily_domains:0038932,Prints_domain:PR00252	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCATCGTAGGT	byFrequency	5	BLCA
NUP98	0	.	GRCh37	11	3721970	3721970	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3612C>T	p.%3D	p.L1204L	ENST00000324932	24/33	63	42	21	61	61	0	NUP98,synonymous_variant,p.%3D,ENST00000429801,;NUP98,synonymous_variant,p.%3D,ENST00000324932,;NUP98,synonymous_variant,p.%3D,ENST00000359171,;NUP98,synonymous_variant,p.%3D,ENST00000355260,;NUP98,upstream_gene_variant,,ENST00000488828,;NUP98,non_coding_transcript_exon_variant,,ENST00000483285,;NUP98,intron_variant,,ENST00000529063,;	A	ENSG00000110713	ENST00000324932	Transcript	synonymous_variant	4033	3612	1204	L	ctC/ctT	.	.	.	-1	NUP98	HGNC	8068	protein_coding	YES	CCDS7746.1	ENSP00000316032	NUP98_HUMAN	Q9HDC8_HUMAN	UPI000013CD36	.	.	.	24/33	.	hmmpanther:PTHR23198,hmmpanther:PTHR23198:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTGAGCTC	.	5	BLCA
PKP3	0	.	GRCh37	11	399033	399033	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1110C>T	p.%3D	p.F370F	ENST00000331563	5/13	34	23	11	39	39	0	PKP3,synonymous_variant,p.%3D,ENST00000331563,;PKP3,downstream_gene_variant,,ENST00000528036,;PKP3,downstream_gene_variant,,ENST00000531857,;PKP3,downstream_gene_variant,,ENST00000533249,;PKP3,downstream_gene_variant,,ENST00000527442,;PKP3,downstream_gene_variant,,ENST00000534401,;PKP3,downstream_gene_variant,,ENST00000530695,;PKP3,non_coding_transcript_exon_variant,,ENST00000526971,;PKP3,downstream_gene_variant,,ENST00000524646,;PKP3,downstream_gene_variant,,ENST00000533069,;	T	ENSG00000184363	ENST00000331563	Transcript	synonymous_variant	1186	1110	370	F	ttC/ttT	.	.	.	1	PKP3	HGNC	9025	protein_coding	YES	CCDS7695.1	ENSP00000331678	PKP3_HUMAN	E9PRW6_HUMAN,E9PQ15_HUMAN,E9PKC4_HUMAN,E9PJR7_HUMAN	UPI0000034ACC	.	.	.	5/13	.	PROSITE_profiles:PS50176,hmmpanther:PTHR10372:SF1,hmmpanther:PTHR10372,Pfam_domain:PF00514,Gene3D:1.25.10.10,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAACCA	.	5	BLCA
TSPAN18	0	.	GRCh37	11	44950827	44950827	+	3'UTR	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*98G>T	.	.	ENST00000340160	9/9	18	13	5	24	24	0	TSPAN18,3_prime_UTR_variant,,ENST00000520358,;TSPAN18,3_prime_UTR_variant,,ENST00000340160,;TSPAN18,intron_variant,,ENST00000518429,;TP53I11,downstream_gene_variant,,ENST00000395648,;TP53I11,downstream_gene_variant,,ENST00000525680,;TP53I11,downstream_gene_variant,,ENST00000533940,;TP53I11,downstream_gene_variant,,ENST00000308212,;TSPAN18,non_coding_transcript_exon_variant,,ENST00000520245,;TSPAN18,non_coding_transcript_exon_variant,,ENST00000521990,;TSPAN18,non_coding_transcript_exon_variant,,ENST00000517621,;TSPAN18,non_coding_transcript_exon_variant,,ENST00000520278,;TP53I11,intron_variant,,ENST00000354556,;TP53I11,downstream_gene_variant,,ENST00000532253,;	T	ENSG00000157570	ENST00000340160	Transcript	3_prime_UTR_variant	1084	.	.	.	.	.	.	.	1	TSPAN18	HGNC	20660	protein_coding	YES	CCDS7910.1	ENSP00000339820	TSN18_HUMAN	E9PPB7_HUMAN	UPI000004A4F4	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGGGAGAAG	.	5	BLCA
SLC35C1	0	.	GRCh37	11	45827632	45827632	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280C>T	p.%3D	p.L94L	ENST00000314134	1/2	28	16	12	51	51	0	SLC35C1,synonymous_variant,p.%3D,ENST00000442528,;SLC35C1,synonymous_variant,p.%3D,ENST00000530471,;SLC35C1,synonymous_variant,p.%3D,ENST00000456334,;SLC35C1,synonymous_variant,p.%3D,ENST00000314134,;SLC35C1,downstream_gene_variant,,ENST00000526817,;	T	ENSG00000181830	ENST00000314134	Transcript	synonymous_variant	1676	280	94	L	Ctg/Ttg	.	.	.	1	SLC35C1	HGNC	20197	protein_coding	YES	CCDS7914.1	ENSP00000313318	FUCT1_HUMAN	Q96K20_HUMAN,E9PS26_HUMAN,E9PPI4_HUMAN,B3KQH0_HUMAN	UPI000012A5BB	.	.	.	1/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11132:SF36,hmmpanther:PTHR11132,Pfam_domain:PF00892	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCTGGCC	.	5	BLCA
CRY2	0	.	GRCh37	11	45892456	45892456	+	Missense_Mutation	SNP	C	C	T	rs769583067	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1676C>T	p.Ser559Leu	p.S559L	ENST00000443527	10/12	22	15	7	16	16	0	CRY2,missense_variant,p.Ser559Leu,ENST00000443527,;CRY2,missense_variant,p.Ser477Leu,ENST00000417225,;CRY2,non_coding_transcript_exon_variant,,ENST00000488962,;CRY2,downstream_gene_variant,,ENST00000525110,;CRY2,downstream_gene_variant,,ENST00000495237,;CRY2,downstream_gene_variant,,ENST00000496667,;	T	ENSG00000121671	ENST00000443527	Transcript	missense_variant	1698	1676	559	S/L	tCg/tTg	rs769583067	.	.	1	CRY2	HGNC	2385	protein_coding	YES	CCDS7915.2	ENSP00000406751	.	B4DZD6_HUMAN,B4DIJ2_HUMAN,A2I2P1_HUMAN	UPI000174F724	.	tolerated(0.22)	benign(0)	10/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11455,hmmpanther:PTHR11455:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCGAGCC	byFrequency	5	BLCA
F2	0	.	GRCh37	11	46748283	46748283	+	Silent	SNP	C	C	T	rs765684282	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1026C>T	p.%3D	p.F342F	ENST00000311907	9/14	48	36	12	40	40	0	F2,synonymous_variant,p.%3D,ENST00000530231,;F2,synonymous_variant,p.%3D,ENST00000311907,;F2,downstream_gene_variant,,ENST00000442468,;F2,downstream_gene_variant,,ENST00000490274,;	T	ENSG00000180210	ENST00000311907	Transcript	synonymous_variant	1082	1026	342	F	ttC/ttT	rs765684282	.	.	1	F2	HGNC	3535	protein_coding	YES	CCDS31476.1	ENSP00000308541	THRB_HUMAN	Q8TD58_HUMAN,Q86WA1_HUMAN	UPI0000136ECD	.	.	.	9/14	.	hmmpanther:PTHR24254,hmmpanther:PTHR24254:SF8,Gene3D:4.10.140.10,Pfam_domain:PF09396,PIRSF_domain:PIRSF001149,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCGAGAA	byFrequency	5	BLCA
C11orf49	0	.	GRCh37	11	47179409	47179409	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.693G>A	p.%3D	p.Q231Q	ENST00000378615	7/9	125	88	37	160	160	0	C11orf49,synonymous_variant,p.%3D,ENST00000526827,;C11orf49,synonymous_variant,p.%3D,ENST00000536126,;C11orf49,synonymous_variant,p.%3D,ENST00000278460,;C11orf49,synonymous_variant,p.%3D,ENST00000543718,;C11orf49,synonymous_variant,p.%3D,ENST00000395460,;C11orf49,synonymous_variant,p.%3D,ENST00000378615,;C11orf49,synonymous_variant,p.%3D,ENST00000378618,;C11orf49,non_coding_transcript_exon_variant,,ENST00000525953,;C11orf49,non_coding_transcript_exon_variant,,ENST00000527234,;C11orf49,non_coding_transcript_exon_variant,,ENST00000527268,;C11orf49,non_coding_transcript_exon_variant,,ENST00000534581,;C11orf49,downstream_gene_variant,,ENST00000529980,;C11orf49,3_prime_UTR_variant,,ENST00000525895,;C11orf49,3_prime_UTR_variant,,ENST00000534249,;C11orf49,3_prime_UTR_variant,,ENST00000527784,;C11orf49,3_prime_UTR_variant,,ENST00000528488,;C11orf49,downstream_gene_variant,,ENST00000527667,;C11orf49,downstream_gene_variant,,ENST00000525279,;	A	ENSG00000149179	ENST00000378615	Transcript	synonymous_variant	721	693	231	Q	caG/caA	.	.	.	1	C11orf49	HGNC	28720	protein_coding	YES	CCDS31480.1	ENSP00000367878	CK049_HUMAN	E9PI28_HUMAN	UPI0000070A8D	.	.	.	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCAGAGACT	.	5	BLCA
C11orf49	0	.	GRCh37	11	47179444	47179444	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.728C>T	p.Ser243Leu	p.S243L	ENST00000378615	7/9	83	62	21	141	141	0	C11orf49,missense_variant,p.Ser169Leu,ENST00000526827,;C11orf49,missense_variant,p.Ser146Leu,ENST00000536126,;C11orf49,missense_variant,p.Ser243Leu,ENST00000278460,;C11orf49,missense_variant,p.Ser159Leu,ENST00000543718,;C11orf49,missense_variant,p.Ser243Leu,ENST00000395460,;C11orf49,missense_variant,p.Ser243Leu,ENST00000378615,;C11orf49,missense_variant,p.Ser243Leu,ENST00000378618,;C11orf49,non_coding_transcript_exon_variant,,ENST00000525953,;C11orf49,non_coding_transcript_exon_variant,,ENST00000527234,;C11orf49,non_coding_transcript_exon_variant,,ENST00000527268,;C11orf49,non_coding_transcript_exon_variant,,ENST00000534581,;C11orf49,downstream_gene_variant,,ENST00000529980,;C11orf49,3_prime_UTR_variant,,ENST00000525895,;C11orf49,3_prime_UTR_variant,,ENST00000534249,;C11orf49,3_prime_UTR_variant,,ENST00000527784,;C11orf49,3_prime_UTR_variant,,ENST00000528488,;C11orf49,downstream_gene_variant,,ENST00000527667,;C11orf49,downstream_gene_variant,,ENST00000525279,;	T	ENSG00000149179	ENST00000378615	Transcript	missense_variant	756	728	243	S/L	tCa/tTa	.	.	.	1	C11orf49	HGNC	28720	protein_coding	YES	CCDS31480.1	ENSP00000367878	CK049_HUMAN	E9PI28_HUMAN	UPI0000070A8D	.	deleterious(0.01)	benign(0.407)	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTCTCAAAGC	.	3	BLCA
ARFGAP2	0	.	GRCh37	11	47198177	47198177	+	Silent	SNP	G	G	A	rs758556816	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.81C>T	p.%3D	p.F27F	ENST00000524782	2/16	34	28	6	41	41	0	ARFGAP2,synonymous_variant,p.%3D,ENST00000527927,;ARFGAP2,synonymous_variant,p.%3D,ENST00000524782,;ARFGAP2,synonymous_variant,p.%3D,ENST00000525314,;ARFGAP2,synonymous_variant,p.%3D,ENST00000530596,;ARFGAP2,synonymous_variant,p.%3D,ENST00000526342,;ARFGAP2,synonymous_variant,p.%3D,ENST00000426335,;ARFGAP2,synonymous_variant,p.%3D,ENST00000525398,;ARFGAP2,synonymous_variant,p.%3D,ENST00000528444,;ARFGAP2,5_prime_UTR_variant,,ENST00000319543,;ARFGAP2,5_prime_UTR_variant,,ENST00000419701,;PACSIN3,downstream_gene_variant,,ENST00000530513,;PACSIN3,downstream_gene_variant,,ENST00000298838,;PACSIN3,downstream_gene_variant,,ENST00000539589,;PACSIN3,downstream_gene_variant,,ENST00000525725,;PACSIN3,downstream_gene_variant,,ENST00000533686,;PACSIN3,downstream_gene_variant,,ENST00000531226,;PACSIN3,downstream_gene_variant,,ENST00000528462,;PACSIN3,downstream_gene_variant,,ENST00000528201,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000395449,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000533939,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000531750,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000529599,;ARFGAP2,synonymous_variant,p.%3D,ENST00000529455,;ARFGAP2,synonymous_variant,p.%3D,ENST00000532438,;ARFGAP2,synonymous_variant,p.%3D,ENST00000528041,;ARFGAP2,synonymous_variant,p.%3D,ENST00000533243,;ARFGAP2,synonymous_variant,p.%3D,ENST00000524586,;ARFGAP2,3_prime_UTR_variant,,ENST00000529439,;ARFGAP2,3_prime_UTR_variant,,ENST00000528708,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000527097,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000528072,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000530794,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000524727,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000526185,;ARFGAP2,intron_variant,,ENST00000532478,;ARFGAP2,upstream_gene_variant,,ENST00000526948,;PACSIN3,downstream_gene_variant,,ENST00000532457,;	A	ENSG00000149182	ENST00000524782	Transcript	synonymous_variant	310	81	27	F	ttC/ttT	rs758556816	.	.	-1	ARFGAP2	HGNC	13504	protein_coding	YES	CCDS7926.1	ENSP00000434442	ARFG2_HUMAN	B7Z9M7_HUMAN	UPI000006F4C6	.	.	.	2/16	.	PROSITE_profiles:PS50115,hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF194,Pfam_domain:PF01412,SMART_domains:SM00105,Superfamily_domains:SSF57863,Prints_domain:PR00405	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGTCGAAACA	.	3	BLCA
PACSIN3	0	.	GRCh37	11	47200518	47200518	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.964G>A	p.Glu322Lys	p.E322K	ENST00000539589	9/11	74	54	20	73	73	0	PACSIN3,missense_variant,p.Glu322Lys,ENST00000298838,;PACSIN3,missense_variant,p.Glu322Lys,ENST00000539589,;PACSIN3,missense_variant,p.Glu45Lys,ENST00000533686,;PACSIN3,missense_variant,p.Glu322Lys,ENST00000528462,;ARFGAP2,upstream_gene_variant,,ENST00000527927,;ARFGAP2,upstream_gene_variant,,ENST00000319543,;PACSIN3,downstream_gene_variant,,ENST00000530513,;ARFGAP2,upstream_gene_variant,,ENST00000524782,;ARFGAP2,upstream_gene_variant,,ENST00000525314,;ARFGAP2,upstream_gene_variant,,ENST00000530596,;ARFGAP2,upstream_gene_variant,,ENST00000419701,;ARFGAP2,upstream_gene_variant,,ENST00000526342,;ARFGAP2,upstream_gene_variant,,ENST00000426335,;PACSIN3,downstream_gene_variant,,ENST00000525725,;ARFGAP2,upstream_gene_variant,,ENST00000525398,;PACSIN3,downstream_gene_variant,,ENST00000531226,;PACSIN3,downstream_gene_variant,,ENST00000524509,;ARFGAP2,upstream_gene_variant,,ENST00000528444,;PACSIN3,downstream_gene_variant,,ENST00000528201,;PACSIN3,downstream_gene_variant,,ENST00000530405,;ARFGAP2,upstream_gene_variant,,ENST00000395449,;ARFGAP2,upstream_gene_variant,,ENST00000533939,;ARFGAP2,upstream_gene_variant,,ENST00000531750,;ARFGAP2,upstream_gene_variant,,ENST00000529599,;PACSIN3,3_prime_UTR_variant,,ENST00000532457,;ARFGAP2,upstream_gene_variant,,ENST00000527097,;ARFGAP2,upstream_gene_variant,,ENST00000529439,;ARFGAP2,upstream_gene_variant,,ENST00000529455,;ARFGAP2,upstream_gene_variant,,ENST00000532478,;ARFGAP2,upstream_gene_variant,,ENST00000528072,;ARFGAP2,upstream_gene_variant,,ENST00000528708,;ARFGAP2,upstream_gene_variant,,ENST00000530794,;ARFGAP2,upstream_gene_variant,,ENST00000532438,;ARFGAP2,upstream_gene_variant,,ENST00000528041,;ARFGAP2,upstream_gene_variant,,ENST00000533243,;ARFGAP2,upstream_gene_variant,,ENST00000524727,;ARFGAP2,upstream_gene_variant,,ENST00000524586,;ARFGAP2,upstream_gene_variant,,ENST00000526185,;	T	ENSG00000165912	ENST00000539589	Transcript	missense_variant	1307	964	322	E/K	Gag/Aag	.	.	.	-1	PACSIN3	HGNC	8572	protein_coding	YES	CCDS31481.1	ENSP00000440945	PACN3_HUMAN	E9PQ12_HUMAN,E9PNM9_HUMAN,E9PJ75_HUMAN,E9PJ33_HUMAN,E9PIZ6_HUMAN	UPI0000034CB1	.	tolerated(0.39)	benign(0.106)	9/11	.	hmmpanther:PTHR10959:SF1,hmmpanther:PTHR10959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCATCAG	.	5	BLCA
DDB2	0	.	GRCh37	11	47256380	47256380	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775G>C	p.Ala259Pro	p.A259P	ENST00000256996	6/10	29	19	10	41	41	0	DDB2,missense_variant,p.Ala195Pro,ENST00000378603,;DDB2,missense_variant,p.Ala259Pro,ENST00000256996,;DDB2,intron_variant,,ENST00000378601,;DDB2,intron_variant,,ENST00000378600,;ACP2,downstream_gene_variant,,ENST00000256997,;ACP2,downstream_gene_variant,,ENST00000529444,;ACP2,downstream_gene_variant,,ENST00000527256,;ACP2,downstream_gene_variant,,ENST00000534752,;ACP2,downstream_gene_variant,,ENST00000534448,;	C	ENSG00000134574	ENST00000256996	Transcript	missense_variant	970	775	259	A/P	Gcc/Ccc	.	.	.	1	DDB2	HGNC	2718	protein_coding	YES	CCDS7927.1	ENSP00000256996	DDB2_HUMAN	.	UPI000000D90C	.	deleterious(0)	probably_damaging(1)	6/10	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR15169:SF0,hmmpanther:PTHR15169,PROSITE_patterns:PS00678,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGCCACA	.	4	BLCA
MYBPC3	0	.	GRCh37	11	47359053	47359053	+	Missense_Mutation	SNP	G	G	A	rs748443032	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2491C>T	p.His831Tyr	p.H831Y	ENST00000545968	25/35	56	34	21	57	57	0	MYBPC3,missense_variant,p.His831Tyr,ENST00000545968,;MYBPC3,missense_variant,p.His830Tyr,ENST00000256993,;MYBPC3,missense_variant,p.His831Tyr,ENST00000399249,;MYBPC3,missense_variant,p.Ser808Leu,ENST00000544791,;	A	ENSG00000134571	ENST00000545968	Transcript	missense_variant	2546	2491	831	H/Y	Cat/Tat	rs748443032	.	.	-1	MYBPC3	HGNC	7551	protein_coding	YES	CCDS53621.1	ENSP00000442795	MYPC3_HUMAN	B6D426_HUMAN	UPI000006EEAA	.	tolerated(1)	benign(0.002)	25/35	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900,hmmpanther:PTHR19900:SF52,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATGACTCA	.	5	BLCA
FNBP4	0	.	GRCh37	11	47745605	47745605	+	Silent	SNP	G	G	A	rs756905405	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2439C>T	p.%3D	p.L813L	ENST00000263773	14/17	46	39	7	50	50	0	FNBP4,synonymous_variant,p.%3D,ENST00000263773,;snoU13,upstream_gene_variant,,ENST00000516638,;Y_RNA,downstream_gene_variant,,ENST00000363220,;FNBP4,non_coding_transcript_exon_variant,,ENST00000532646,;FNBP4,non_coding_transcript_exon_variant,,ENST00000526109,;FNBP4,downstream_gene_variant,,ENST00000531394,;FNBP4,downstream_gene_variant,,ENST00000525792,;FNBP4,non_coding_transcript_exon_variant,,ENST00000530207,;	A	ENSG00000109920	ENST00000263773	Transcript	synonymous_variant	2452	2439	813	L	ctC/ctT	rs756905405	.	.	-1	FNBP4	HGNC	19752	protein_coding	YES	CCDS41644.1	ENSP00000263773	FNBP4_HUMAN	.	UPI0000DBEF37	.	.	.	14/17	.	hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF186	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CTATAGAGAAC	.	4	BLCA
HBG1	0	.	GRCh37	11	5264345	5264345	+	3'Flank	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000330597	.	11	8	3	14	14	0	HBG1,downstream_gene_variant,,ENST00000330597,;CTD-2643I7.1,downstream_gene_variant,,ENST00000564523,;HBBP1,non_coding_transcript_exon_variant,,ENST00000454892,;HBBP1,non_coding_transcript_exon_variant,,ENST00000433329,;	G	ENSG00000213934	ENST00000330597	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	4968	-1	HBG1	HGNC	4831	protein_coding	YES	CCDS7754.1	ENSP00000327431	HBG1_HUMAN	D9YZU8_HUMAN	UPI00000711A9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGTTCTCAGG	.	2	BLCA
OR8J3	0	.	GRCh37	11	55904873	55904873	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322A>T	p.Ile108Phe	p.I108F	ENST00000301529	1/1	102	77	25	162	162	0	OR8J3,missense_variant,p.Ile108Phe,ENST00000301529,;OR5BN1P,upstream_gene_variant,,ENST00000532955,;	A	ENSG00000167822	ENST00000301529	Transcript	missense_variant	322	322	108	I/F	Att/Ttt	.	.	.	-1	OR8J3	HGNC	15312	protein_coding	YES	CCDS31520.1	ENSP00000301529	OR8J3_HUMAN	.	UPI0000061E99	.	deleterious(0)	possibly_damaging(0.707)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF209,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACAATAAAGA	.	5	BLCA
OR8U1	0	.	GRCh37	11	56143126	56143126	+	Silent	SNP	G	G	A	rs760506000	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27G>A	p.%3D	p.A9A	ENST00000302270	1/1	41	27	13	80	80	0	OR8U1,synonymous_variant,p.%3D,ENST00000302270,;	A	ENSG00000172199	ENST00000302270	Transcript	synonymous_variant	27	27	9	A	gcG/gcA	rs760506000,COSM82270,COSM1354634	.	.	1	OR8U1	HGNC	19611	protein_coding	YES	CCDS41647.1	ENSP00000304188	OR8U1_HUMAN	.	UPI0000061EEF	.	.	.	1/1	.	hmmpanther:PTHR26452:SF107,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A9V|c.26C>T|9	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGCGACAGA	byFrequency	5	BLCA
OR5R1	0	.	GRCh37	11	56184755	56184755	+	Missense_Mutation	SNP	T	T	A	rs141438285	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954A>T	p.Leu318Phe	p.L318F	ENST00000312253	1/1	40	29	11	35	35	0	OR5R1,missense_variant,p.Leu318Phe,ENST00000312253,;OR5AL1,downstream_gene_variant,,ENST00000327258,;OR5AL1,downstream_gene_variant,,ENST00000440231,;	A	ENSG00000174942	ENST00000312253	Transcript	missense_variant	954	954	318	L/F	ttA/ttT	rs141438285,COSM297065	.	.	-1	OR5R1	HGNC	14841	protein_coding	YES	CCDS31530.1	ENSP00000308595	OR5R1_HUMAN	.	UPI000004B225	.	tolerated_low_confidence(0.09)	benign(0.001)	1/1	.	.	.	.	.	.	.	.	.	A:0	A:0.0004	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTTAAAAA	byCluster	5	BLCA
SSRP1	0	.	GRCh37	11	57102539	57102539	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54+3G>A	.	.	ENST00000278412	.	327	213	114	417	417	0	SSRP1,splice_region_variant,,ENST00000278412,;SSRP1,intron_variant,,ENST00000526696,;SSRP1,intron_variant,,ENST00000529002,;P2RX3,upstream_gene_variant,,ENST00000263314,;P2RX3,upstream_gene_variant,,ENST00000533436,;SSRP1,splice_region_variant,,ENST00000293880,;	T	ENSG00000149136	ENST00000278412	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SSRP1	HGNC	11327	protein_coding	YES	CCDS7952.1	ENSP00000278412	SSRP1_HUMAN	E9PPZ7_HUMAN,E9PMD4_HUMAN	UPI000013601D	.	.	.	.	2/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCACCAT	.	4	BLCA
P2RX3	0	.	GRCh37	11	57118274	57118274	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744C>T	p.%3D	p.D248D	ENST00000263314	8/12	30	22	8	42	42	0	P2RX3,synonymous_variant,p.%3D,ENST00000263314,;P2RX3,downstream_gene_variant,,ENST00000534820,;	T	ENSG00000109991	ENST00000263314	Transcript	synonymous_variant	778	744	248	D	gaC/gaT	.	.	.	1	P2RX3	HGNC	8534	protein_coding	YES	CCDS7953.1	ENSP00000263314	P2RX3_HUMAN	H0YDR6_HUMAN	UPI00000342EB	.	.	.	8/12	.	hmmpanther:PTHR10125,hmmpanther:PTHR10125:SF8,PROSITE_patterns:PS01212,Gene3D:3h9vA02,TIGRFAM_domain:TIGR00863,Pfam_domain:PF00864	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCGACTTGGA	.	2	BLCA
ZDHHC5	0	.	GRCh37	11	57466626	57466626	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1718C>T	p.Ser573Leu	p.S573L	ENST00000287169	11/12	83	55	27	113	113	0	ZDHHC5,missense_variant,p.Ser573Leu,ENST00000287169,;ZDHHC5,missense_variant,p.Ser520Leu,ENST00000527985,;MED19,downstream_gene_variant,,ENST00000337672,;MED19,downstream_gene_variant,,ENST00000431606,;ZDHHC5,downstream_gene_variant,,ENST00000529447,;ZDHHC5,non_coding_transcript_exon_variant,,ENST00000529480,;	T	ENSG00000156599	ENST00000287169	Transcript	missense_variant	3080	1718	573	S/L	tCa/tTa	COSM3666422	.	.	1	ZDHHC5	HGNC	18472	protein_coding	YES	CCDS7965.1	ENSP00000287169	ZDHC5_HUMAN	E9PMA5_HUMAN,E9PJ97_HUMAN	UPI0000049DA3	.	tolerated(0.23)	benign(0.081)	11/12	.	hmmpanther:PTHR12349,hmmpanther:PTHR12349:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCAGTCAACAC	.	3	BLCA
ZDHHC5	0	.	GRCh37	11	57466638	57466638	+	Missense_Mutation	SNP	C	C	T	rs555314929	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1730C>T	p.Ser577Leu	p.S577L	ENST00000287169	11/12	80	52	27	115	114	0	ZDHHC5,missense_variant,p.Ser577Leu,ENST00000287169,;ZDHHC5,missense_variant,p.Ser524Leu,ENST00000527985,;MED19,downstream_gene_variant,,ENST00000337672,;MED19,downstream_gene_variant,,ENST00000431606,;ZDHHC5,downstream_gene_variant,,ENST00000529447,;ZDHHC5,non_coding_transcript_exon_variant,,ENST00000529480,;	T	ENSG00000156599	ENST00000287169	Transcript	missense_variant	3092	1730	577	S/L	tCg/tTg	rs555314929	.	.	1	ZDHHC5	HGNC	18472	protein_coding	YES	CCDS7965.1	ENSP00000287169	ZDHC5_HUMAN	E9PMA5_HUMAN,E9PJ97_HUMAN	UPI0000049DA3	.	tolerated(0.06)	probably_damaging(0.968)	11/12	.	hmmpanther:PTHR12349,hmmpanther:PTHR12349:SF3	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGCTCGGGCC	by1000G	3	BLCA
OR5B21	0	.	GRCh37	11	58275328	58275328	+	Missense_Mutation	SNP	C	C	T	rs200518896	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251G>A	p.Arg84Gln	p.R84Q	ENST00000360374	1/1	23	16	7	29	29	0	OR5B21,missense_variant,p.Arg84Gln,ENST00000360374,;RP11-655C2.3,upstream_gene_variant,,ENST00000531715,;RP11-655C2.3,upstream_gene_variant,,ENST00000527054,;RP11-655C2.3,upstream_gene_variant,,ENST00000528978,;	T	ENSG00000198283	ENST00000360374	Transcript	missense_variant	251	251	84	R/Q	cGg/cAg	rs200518896,COSM543770	.	.	-1	OR5B21	HGNC	19616	protein_coding	YES	CCDS31552.1	ENSP00000353537	OR5BL_HUMAN	.	UPI000015FCAA	.	tolerated_low_confidence(0.09)	benign(0)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF288,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACCGCAAT	byFrequency|byCluster	5	BLCA
DTX4	0	.	GRCh37	11	58956718	58956718	+	Missense_Mutation	SNP	G	G	A	rs376061897	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1081G>A	p.Val361Ile	p.V361I	ENST00000227451	4/9	17	12	4	13	13	0	DTX4,missense_variant,p.Val361Ile,ENST00000227451,;DTX4,missense_variant,p.Val255Ile,ENST00000532982,;DTX4,non_coding_transcript_exon_variant,,ENST00000531902,;	A	ENSG00000110042	ENST00000227451	Transcript	missense_variant	1185	1081	361	V/I	Gtc/Atc	rs376061897,COSM1354971,COSM1354970	.	.	1	DTX4	HGNC	29151	protein_coding	YES	CCDS44612.1	ENSP00000227451	DTX4_HUMAN	.	UPI00001C1F00	.	tolerated(0.14)	benign(0.1)	4/9	.	hmmpanther:PTHR12622:SF5,hmmpanther:PTHR12622	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCCGTCAGC	byFrequency|byCluster	5	BLCA
MS4A3	0	.	GRCh37	11	59837729	59837729	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23G>A	.	.	ENST00000278865	7/7	33	28	5	39	39	0	MS4A3,3_prime_UTR_variant,,ENST00000395032,;MS4A3,3_prime_UTR_variant,,ENST00000358152,;MS4A3,3_prime_UTR_variant,,ENST00000278865,;MS4A3,downstream_gene_variant,,ENST00000534744,;MS4A3,3_prime_UTR_variant,,ENST00000525686,;MS4A3,non_coding_transcript_exon_variant,,ENST00000528952,;	A	ENSG00000149516	ENST00000278865	Transcript	3_prime_UTR_variant	741	.	.	.	.	.	.	.	1	MS4A3	HGNC	7317	protein_coding	YES	CCDS31567.1	ENSP00000278865	MS4A3_HUMAN	.	UPI000006E45E	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTGAGAGC	.	2	BLCA
MS4A2	0	.	GRCh37	11	59856233	59856233	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6G>A	.	.	ENST00000278888	1/7	78	50	28	97	97	0	MS4A2,5_prime_UTR_variant,,ENST00000524868,;MS4A2,5_prime_UTR_variant,,ENST00000278888,;MS4A2,non_coding_transcript_exon_variant,,ENST00000440896,;	A	ENSG00000149534	ENST00000278888	Transcript	5_prime_UTR_variant	97	.	.	.	.	.	.	.	1	MS4A2	HGNC	7316	protein_coding	YES	CCDS7980.1	ENSP00000278888	FCERB_HUMAN	E9PLJ1_HUMAN	UPI0000038E6F	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATGAAAAA	.	5	BLCA
MS4A14	0	.	GRCh37	11	60183000	60183000	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.658G>A	p.Glu220Lys	p.E220K	ENST00000531783	6/6	82	52	30	92	92	0	MS4A14,missense_variant,p.Glu170Lys,ENST00000395005,;MS4A14,missense_variant,p.Glu220Lys,ENST00000531783,;MS4A14,missense_variant,p.Glu75Lys,ENST00000531787,;MS4A14,missense_variant,p.Glu187Lys,ENST00000300187,;MS4A14,3_prime_UTR_variant,,ENST00000395001,;MS4A14,3_prime_UTR_variant,,ENST00000527841,;MS4A14,3_prime_UTR_variant,,ENST00000525397,;MS4A14,3_prime_UTR_variant,,ENST00000530662,;	A	ENSG00000166928	ENST00000531783	Transcript	missense_variant	749	658	220	E/K	Gag/Aag	.	.	.	1	MS4A14	HGNC	30706	protein_coding	YES	CCDS58136.1	ENSP00000433761	.	E9PJE3_HUMAN	UPI0001F77AC2	.	tolerated(0.1)	benign(0.243)	6/6	.	hmmpanther:PTHR23320:SF10,hmmpanther:PTHR23320	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGAGTTT	.	5	BLCA
PHRF1	0	.	GRCh37	11	609451	609451	+	Missense_Mutation	SNP	C	C	T	rs374402221	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3992C>T	p.Ser1331Leu	p.S1331L	ENST00000416188	14/18	14	11	3	16	16	0	PHRF1,missense_variant,p.Ser1332Leu,ENST00000264555,;PHRF1,missense_variant,p.Ser1330Leu,ENST00000413872,;PHRF1,missense_variant,p.Ser1328Leu,ENST00000533464,;PHRF1,missense_variant,p.Ser1331Leu,ENST00000416188,;IRF7,downstream_gene_variant,,ENST00000330243,;IRF7,downstream_gene_variant,,ENST00000397566,;IRF7,downstream_gene_variant,,ENST00000348655,;IRF7,downstream_gene_variant,,ENST00000525445,;IRF7,downstream_gene_variant,,ENST00000397570,;IRF7,downstream_gene_variant,,ENST00000397562,;IRF7,downstream_gene_variant,,ENST00000397574,;PHRF1,missense_variant,p.Ser1332Leu,ENST00000534320,;IRF7,downstream_gene_variant,,ENST00000527160,;IRF7,downstream_gene_variant,,ENST00000532326,;IRF7,downstream_gene_variant,,ENST00000531912,;IRF7,downstream_gene_variant,,ENST00000528413,;IRF7,downstream_gene_variant,,ENST00000532096,;IRF7,downstream_gene_variant,,ENST00000532788,;IRF7,downstream_gene_variant,,ENST00000469048,;IRF7,downstream_gene_variant,,ENST00000533182,;PHRF1,downstream_gene_variant,,ENST00000532550,;IRF7,downstream_gene_variant,,ENST00000525750,;	T	ENSG00000070047	ENST00000416188	Transcript	missense_variant	4085	3992	1331	S/L	tCg/tTg	rs374402221,COSM3869697,COSM3869696	.	.	1	PHRF1	HGNC	24351	protein_coding	YES	CCDS44507.1	ENSP00000410626	PHRF1_HUMAN	.	UPI000189A834	.	tolerated(0.41)	benign(0.008)	14/18	.	hmmpanther:PTHR15242:SF1,hmmpanther:PTHR15242	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	T:0.0002	T:0	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTTCGCAGC	byFrequency|byCluster|by1000G	2	BLCA
VWCE	0	.	GRCh37	11	61049325	61049325	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720C>T	p.%3D	p.T240T	ENST00000335613	7/20	56	32	24	68	68	0	VWCE,synonymous_variant,p.%3D,ENST00000335613,;VWCE,3_prime_UTR_variant,,ENST00000301770,;VWCE,downstream_gene_variant,,ENST00000538579,;VWCE,downstream_gene_variant,,ENST00000535599,;	A	ENSG00000167992	ENST00000335613	Transcript	synonymous_variant	1107	720	240	T	acC/acT	.	.	.	-1	VWCE	HGNC	26487	protein_coding	YES	CCDS8002.1	ENSP00000334186	VWCE_HUMAN	B4DY31_HUMAN	UPI000013E751	.	.	.	7/20	.	PROSITE_profiles:PS50026,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF250,PROSITE_patterns:PS00010,PROSITE_patterns:PS01187,Pfam_domain:PF07645,Gene3D:2.10.25.10,SMART_domains:SM00181,SMART_domains:SM00179,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACGGTGTT	.	5	BLCA
DAGLA	0	.	GRCh37	11	61511607	61511607	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2775C>T	p.%3D	p.S925S	ENST00000257215	20/20	30	23	7	39	39	0	DAGLA,synonymous_variant,p.%3D,ENST00000257215,;RP11-467L20.10,downstream_gene_variant,,ENST00000541891,;RP11-467L20.10,downstream_gene_variant,,ENST00000536405,;DAGLA,3_prime_UTR_variant,,ENST00000540717,;	T	ENSG00000134780	ENST00000257215	Transcript	synonymous_variant	2891	2775	925	S	agC/agT	.	.	.	1	DAGLA	HGNC	1165	protein_coding	YES	CCDS31578.1	ENSP00000257215	DGLA_HUMAN	.	UPI00001678B3	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAGCAAGAG	.	5	BLCA
MYRF	0	.	GRCh37	11	61539044	61539044	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813G>A	p.%3D	p.L271L	ENST00000278836	6/27	87	53	34	113	113	0	MYRF,synonymous_variant,p.%3D,ENST00000278836,;MYRF,synonymous_variant,p.%3D,ENST00000265460,;MYRF,upstream_gene_variant,,ENST00000327797,;TMEM258,intron_variant,,ENST00000535042,;MYRF,downstream_gene_variant,,ENST00000537766,;	A	ENSG00000124920	ENST00000278836	Transcript	synonymous_variant	909	813	271	L	ctG/ctA	.	.	.	1	MYRF	HGNC	1181	protein_coding	YES	CCDS44622.1	ENSP00000278836	MRF_HUMAN	.	UPI0000D45F7B	.	.	.	6/27	.	hmmpanther:PTHR13029,hmmpanther:PTHR13029:SF16,PROSITE_profiles:PS51517	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTGAATGG	.	5	BLCA
FADS2	0	.	GRCh37	11	61624494	61624494	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>A	p.%3D	p.K252K	ENST00000278840	6/12	56	46	10	83	83	0	FADS2,synonymous_variant,p.%3D,ENST00000278840,;FADS2,synonymous_variant,p.%3D,ENST00000521849,;FADS2,synonymous_variant,p.%3D,ENST00000355484,;FADS2,synonymous_variant,p.%3D,ENST00000521571,;FADS2,synonymous_variant,p.%3D,ENST00000257261,;FADS2,synonymous_variant,p.%3D,ENST00000522056,;FADS2,non_coding_transcript_exon_variant,,ENST00000523235,;FADS2,upstream_gene_variant,,ENST00000522359,;	A	ENSG00000134824	ENST00000278840	Transcript	synonymous_variant	1386	756	252	K	aaG/aaA	.	.	.	1	FADS2	HGNC	3575	protein_coding	YES	CCDS8012.1	ENSP00000278840	FADS2_HUMAN	F5H622_HUMAN,E5RGZ5_HUMAN,E5RGD8_HUMAN,B3KVS0_HUMAN	UPI000003405E	.	.	.	6/12	.	PIRSF_domain:PIRSF015921,Pfam_domain:PF00487,hmmpanther:PTHR19353,hmmpanther:PTHR19353:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGAAGCT	.	5	BLCA
ASRGL1	0	.	GRCh37	11	62124466	62124466	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.341A>T	p.His114Leu	p.H114L	ENST00000415229	4/7	42	27	14	91	90	1	ASRGL1,missense_variant,p.His114Leu,ENST00000415229,;ASRGL1,missense_variant,p.His114Leu,ENST00000301776,;ASRGL1,5_prime_UTR_variant,,ENST00000535727,;ASRGL1,non_coding_transcript_exon_variant,,ENST00000526096,;ASRGL1,upstream_gene_variant,,ENST00000528206,;ASRGL1,synonymous_variant,p.%3D,ENST00000534183,;ASRGL1,synonymous_variant,p.%3D,ENST00000529226,;ASRGL1,non_coding_transcript_exon_variant,,ENST00000534571,;	T	ENSG00000162174	ENST00000415229	Transcript	missense_variant	556	341	114	H/L	cAt/cTt	.	.	.	1	ASRGL1	HGNC	16448	protein_coding	YES	CCDS8019.1	ENSP00000400057	ASGL1_HUMAN	Q9BRH2_HUMAN	UPI000004BF00	.	deleterious(0)	probably_damaging(0.997)	4/7	.	hmmpanther:PTHR10188,hmmpanther:PTHR10188:SF18,Pfam_domain:PF01112,Superfamily_domains:SSF56235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTCATTGCT	.	5	BLCA
AHNAK	0	.	GRCh37	11	62288785	62288785	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13104C>T	p.%3D	p.L4368L	ENST00000378024	5/5	201	144	56	236	236	0	AHNAK,synonymous_variant,p.%3D,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;AHNAK,upstream_gene_variant,,ENST00000525875,;	A	ENSG00000124942	ENST00000378024	Transcript	synonymous_variant	13379	13104	4368	L	ctC/ctT	COSM415498	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	.	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTGAGTTT	.	5	BLCA
EML3	0	.	GRCh37	11	62370717	62370717	+	Missense_Mutation	SNP	C	C	T	rs5792263	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2260G>A	p.Asp754Asn	p.D754N	ENST00000394773	20/22	30	18	12	34	34	0	EML3,missense_variant,p.Asp755Asn,ENST00000278845,;EML3,missense_variant,p.Asp726Asn,ENST00000494176,;EML3,missense_variant,p.Asp754Asn,ENST00000394773,;EML3,missense_variant,p.Asp754Asn,ENST00000529309,;EML3,missense_variant,p.Asp748Asn,ENST00000394776,;EML3,missense_variant,p.Asp5Asn,ENST00000439994,;EML3,missense_variant,p.Asp537Asn,ENST00000531557,;MTA2,upstream_gene_variant,,ENST00000524902,;MTA2,upstream_gene_variant,,ENST00000527204,;MTA2,upstream_gene_variant,,ENST00000278823,;RP11-831H9.3,upstream_gene_variant,,ENST00000532626,;EML3,downstream_gene_variant,,ENST00000438258,;EML3,splice_region_variant,,ENST00000460939,;EML3,splice_region_variant,,ENST00000533165,;EML3,splice_region_variant,,ENST00000494448,;EML3,downstream_gene_variant,,ENST00000526116,;EML3,downstream_gene_variant,,ENST00000462626,;EML3,downstream_gene_variant,,ENST00000483199,;MTA2,upstream_gene_variant,,ENST00000532239,;EML3,downstream_gene_variant,,ENST00000524518,;MTA2,upstream_gene_variant,,ENST00000526844,;	T	ENSG00000149499	ENST00000394773	Transcript	missense_variant	2568	2260	754	D/N	Gac/Aac	rs5792263	.	.	-1	EML3	HGNC	26666	protein_coding	YES	CCDS8023.2	ENSP00000378254	EMAL3_HUMAN	G3V195_HUMAN,E9PJV5_HUMAN,C9J6V3_HUMAN	UPI0000228E33	.	tolerated(0.12)	benign(0.094)	20/22	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF15,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50998,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGTCCCCTG	.	5	BLCA
INTS5	0	.	GRCh37	11	62416367	62416367	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1185G>A	p.%3D	p.V395V	ENST00000330574	2/2	26	19	7	42	42	0	INTS5,synonymous_variant,p.%3D,ENST00000330574,;GANAB,upstream_gene_variant,,ENST00000525994,;GANAB,upstream_gene_variant,,ENST00000356638,;GANAB,upstream_gene_variant,,ENST00000534779,;RP11-831H9.11,downstream_gene_variant,,ENST00000528405,;GANAB,upstream_gene_variant,,ENST00000540933,;GANAB,upstream_gene_variant,,ENST00000346178,;GANAB,upstream_gene_variant,,ENST00000534419,;GANAB,upstream_gene_variant,,ENST00000529737,;GANAB,upstream_gene_variant,,ENST00000534613,;GANAB,upstream_gene_variant,,ENST00000532402,;GANAB,upstream_gene_variant,,ENST00000526210,;GANAB,upstream_gene_variant,,ENST00000526392,;	T	ENSG00000185085	ENST00000330574	Transcript	synonymous_variant	1238	1185	395	V	gtG/gtA	.	.	.	-1	INTS5	HGNC	29352	protein_coding	YES	CCDS8027.1	ENSP00000327889	INT5_HUMAN	.	UPI0000161948	.	.	.	2/2	.	Pfam_domain:PF14838,hmmpanther:PTHR31697,hmmpanther:PTHR31697:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCACCAG	.	5	BLCA
GNG3	0	.	GRCh37	11	62476409	62476409	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*131C>T	.	.	ENST00000294117	3/3	14	9	5	26	26	0	GNG3,3_prime_UTR_variant,,ENST00000294117,;BSCL2,5_prime_UTR_variant,,ENST00000528874,;BSCL2,intron_variant,,ENST00000524862,;BSCL2,intron_variant,,ENST00000433053,;BSCL2,intron_variant,,ENST00000405837,;BSCL2,intron_variant,,ENST00000530009,;BSCL2,intron_variant,,ENST00000464544,;BSCL2,intron_variant,,ENST00000532818,;BSCL2,intron_variant,,ENST00000531524,;BSCL2,upstream_gene_variant,,ENST00000421906,;BSCL2,upstream_gene_variant,,ENST00000403550,;BSCL2,upstream_gene_variant,,ENST00000360796,;BSCL2,upstream_gene_variant,,ENST00000407022,;HNRNPUL2,downstream_gene_variant,,ENST00000301785,;BSCL2,upstream_gene_variant,,ENST00000525000,;BSCL2,upstream_gene_variant,,ENST00000533982,;BSCL2,upstream_gene_variant,,ENST00000278893,;BSCL2,upstream_gene_variant,,ENST00000448568,;BSCL2,upstream_gene_variant,,ENST00000537604,;BSCL2,upstream_gene_variant,,ENST00000530900,;HNRNPUL2-BSCL2,intron_variant,,ENST00000403734,;BSCL2,upstream_gene_variant,,ENST00000301781,;BSCL2,upstream_gene_variant,,ENST00000413908,;	T	ENSG00000162188	ENST00000294117	Transcript	3_prime_UTR_variant	618	.	.	.	.	.	.	.	1	GNG3	HGNC	4405	protein_coding	YES	CCDS8032.1	ENSP00000294117	GBG3_HUMAN	.	UPI00000011D8	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GTTATCTGAAG	.	3	BLCA
HNRNPUL2	0	.	GRCh37	11	62489607	62489607	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1341G>A	p.%3D	p.K447K	ENST00000301785	7/14	54	34	20	81	81	0	HNRNPUL2,synonymous_variant,p.%3D,ENST00000301785,;HNRNPUL2-BSCL2,synonymous_variant,p.%3D,ENST00000403734,;HNRNPUL2,downstream_gene_variant,,ENST00000540127,;	T	ENSG00000214753	ENST00000301785	Transcript	synonymous_variant	1534	1341	447	K	aaG/aaA	.	.	.	-1	HNRNPUL2	HGNC	25451	protein_coding	YES	CCDS41659.1	ENSP00000301785	HNRL2_HUMAN	.	UPI0000161949	.	.	.	7/14	.	hmmpanther:PTHR12381:SF43,hmmpanther:PTHR12381	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTCTTGGG	.	5	BLCA
STX5	0	.	GRCh37	11	62592946	62592946	+	Silent	SNP	C	C	T	rs769388541	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.489G>A	p.%3D	p.Q163Q	ENST00000294179	6/11	89	57	32	107	107	0	STX5,synonymous_variant,p.%3D,ENST00000541317,;STX5,synonymous_variant,p.%3D,ENST00000431400,;STX5,synonymous_variant,p.%3D,ENST00000294179,;STX5,synonymous_variant,p.%3D,ENST00000394690,;STX5,synonymous_variant,p.%3D,ENST00000377897,;STX5,synonymous_variant,p.%3D,ENST00000491231,;STX5,3_prime_UTR_variant,,ENST00000492066,;STX5,downstream_gene_variant,,ENST00000486437,;STX5,downstream_gene_variant,,ENST00000488303,;	T	ENSG00000162236	ENST00000294179	Transcript	synonymous_variant	643	489	163	Q	caG/caA	rs769388541	.	.	-1	STX5	HGNC	11440	protein_coding	YES	CCDS8038.2	ENSP00000294179	STX5_HUMAN	B4DKR0_HUMAN	UPI00001FA9B0	.	.	.	6/11	.	hmmpanther:PTHR19957:SF3,hmmpanther:PTHR19957,Pfam_domain:PF00804,Gene3D:1.20.58.70,Superfamily_domains:SSF47661	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCTGGCT	byFrequency	5	BLCA
CCDC88B	0	.	GRCh37	11	64122766	64122766	+	Silent	SNP	C	C	T	rs772540469	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4200C>T	p.%3D	p.F1400F	ENST00000356786	25/27	11	8	3	13	13	0	CCDC88B,missense_variant,p.Ser505Phe,ENST00000359902,;CCDC88B,synonymous_variant,p.%3D,ENST00000301897,;CCDC88B,synonymous_variant,p.%3D,ENST00000356786,;RPS6KA4,upstream_gene_variant,,ENST00000294261,;RPS6KA4,upstream_gene_variant,,ENST00000334205,;RPS6KA4,upstream_gene_variant,,ENST00000528057,;RPS6KA4,upstream_gene_variant,,ENST00000530504,;CCDC88B,non_coding_transcript_exon_variant,,ENST00000463837,;CCDC88B,non_coding_transcript_exon_variant,,ENST00000473405,;CCDC88B,non_coding_transcript_exon_variant,,ENST00000494080,;CCDC88B,non_coding_transcript_exon_variant,,ENST00000479965,;CCDC88B,upstream_gene_variant,,ENST00000472524,;CCDC88B,downstream_gene_variant,,ENST00000494566,;CCDC88B,downstream_gene_variant,,ENST00000492980,;RPS6KA4,upstream_gene_variant,,ENST00000528355,;RPS6KA4,upstream_gene_variant,,ENST00000530383,;RPS6KA4,upstream_gene_variant,,ENST00000531659,;	T	ENSG00000168071	ENST00000356786	Transcript	synonymous_variant	4244	4200	1400	F	ttC/ttT	rs772540469	.	.	1	CCDC88B	HGNC	26757	protein_coding	YES	CCDS8072.2	ENSP00000349238	CC88B_HUMAN	.	UPI00001FAAA6	.	.	.	25/27	.	hmmpanther:PTHR18947:SF29,hmmpanther:PTHR18947	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGTTCCCGGT	byFrequency	2	BLCA
PYGM	0	.	GRCh37	11	64517909	64517909	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2116G>A	p.Glu706Lys	p.E706K	ENST00000164139	17/20	116	77	38	156	156	0	PYGM,missense_variant,p.Glu706Lys,ENST00000164139,;PYGM,missense_variant,p.Glu618Lys,ENST00000377432,;RASGRP2,upstream_gene_variant,,ENST00000354024,;PYGM,downstream_gene_variant,,ENST00000462303,;PYGM,downstream_gene_variant,,ENST00000460413,;PYGM,upstream_gene_variant,,ENST00000483742,;	T	ENSG00000068976	ENST00000164139	Transcript	missense_variant	2515	2116	706	E/K	Gag/Aag	COSM1475722	.	.	-1	PYGM	HGNC	9726	protein_coding	YES	CCDS8079.1	ENSP00000164139	PYGM_HUMAN	.	UPI000013C5AC	.	tolerated(0.19)	possibly_damaging(0.633)	17/20	.	Superfamily_domains:SSF53756,PIRSF_domain:PIRSF000460,TIGRFAM_domain:TIGR02093,Pfam_domain:PF00343,Gene3D:3.40.50.2000,hmmpanther:PTHR11468:SF1,hmmpanther:PTHR11468	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCTCCCG	.	5	BLCA
SF1	0	.	GRCh37	11	64537076	64537076	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.860A>G	p.Asn287Ser	p.N287S	ENST00000377387	6/13	105	71	34	117	117	0	SF1,missense_variant,p.Asn162Ser,ENST00000227503,;SF1,missense_variant,p.Asn162Ser,ENST00000377390,;SF1,missense_variant,p.Asn47Ser,ENST00000422298,;SF1,missense_variant,p.Asn162Ser,ENST00000377394,;SF1,missense_variant,p.Asn162Ser,ENST00000334944,;SF1,missense_variant,p.Asn287Ser,ENST00000377387,;SF1,missense_variant,p.Asn136Ser,ENST00000433274,;SF1,upstream_gene_variant,,ENST00000443908,;SF1,downstream_gene_variant,,ENST00000432725,;SF1,upstream_gene_variant,,ENST00000486867,;SF1,upstream_gene_variant,,ENST00000413725,;SF1,non_coding_transcript_exon_variant,,ENST00000489544,;SF1,non_coding_transcript_exon_variant,,ENST00000496969,;SF1,3_prime_UTR_variant,,ENST00000448404,;SF1,non_coding_transcript_exon_variant,,ENST00000486960,;SF1,upstream_gene_variant,,ENST00000477596,;SF1,downstream_gene_variant,,ENST00000482693,;SF1,downstream_gene_variant,,ENST00000413951,;	C	ENSG00000168066	ENST00000377387	Transcript	missense_variant	937	860	287	N/S	aAc/aGc	.	.	.	-1	SF1	HGNC	12950	protein_coding	YES	CCDS53661.1	ENSP00000366604	SF01_HUMAN	Q14821_HUMAN,C9J792_HUMAN,B4DX42_HUMAN	UPI0000074300	.	deleterious(0)	possibly_damaging(0.854)	6/13	.	PROSITE_profiles:PS50084,hmmpanther:PTHR11208,hmmpanther:PTHR11208:SF45,Gene3D:3.30.1370.10,Pfam_domain:PF00013,SMART_domains:SM00322,Superfamily_domains:SSF54791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTGTTCCCT	.	5	BLCA
CDC42BPG	0	.	GRCh37	11	64603002	64603002	+	Missense_Mutation	SNP	C	C	T	rs147422193	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1850G>A	p.Arg617Gln	p.R617Q	ENST00000342711	15/37	43	31	12	74	74	0	CDC42BPG,missense_variant,p.Arg617Gln,ENST00000342711,;CDC42BPG,upstream_gene_variant,,ENST00000491280,;CDC42BPG,upstream_gene_variant,,ENST00000468512,;CDC42BPG,upstream_gene_variant,,ENST00000480767,;	T	ENSG00000171219	ENST00000342711	Transcript	missense_variant	1850	1850	617	R/Q	cGa/cAa	rs147422193	.	.	-1	CDC42BPG	HGNC	29829	protein_coding	YES	CCDS31601.1	ENSP00000345133	MRCKG_HUMAN	.	UPI000047C9E2	.	tolerated(0.25)	benign(0.007)	15/37	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF22	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCGCAGG	byCluster|by1000G	5	BLCA
EHD1	0	.	GRCh37	11	64627711	64627711	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.600C>T	p.%3D	p.F200F	ENST00000320631	3/5	45	30	14	59	59	0	EHD1,synonymous_variant,p.%3D,ENST00000359393,;EHD1,synonymous_variant,p.%3D,ENST00000421510,;EHD1,synonymous_variant,p.%3D,ENST00000320631,;EHD1,synonymous_variant,p.%3D,ENST00000433803,;EHD1,synonymous_variant,p.%3D,ENST00000455148,;EHD1,non_coding_transcript_exon_variant,,ENST00000466015,;EHD1,upstream_gene_variant,,ENST00000484846,;EHD1,upstream_gene_variant,,ENST00000498472,;	A	ENSG00000110047	ENST00000320631	Transcript	synonymous_variant	855	600	200	F	ttC/ttT	.	.	.	-1	EHD1	HGNC	3242	protein_coding	YES	CCDS8084.1	ENSP00000320516	EHD1_HUMAN	C9JIJ3_HUMAN,C9JDQ8_HUMAN,C9J2Z4_HUMAN,C9IZH1_HUMAN,B2R5U3_HUMAN	UPI0000129E22	.	.	.	3/5	.	PROSITE_profiles:PS51718,hmmpanther:PTHR11216,hmmpanther:PTHR11216:SF60,Pfam_domain:PF00350,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGAGAACTC	.	5	BLCA
ATG2A	0	.	GRCh37	11	64669549	64669549	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4004G>T	p.Gly1335Val	p.G1335V	ENST00000377264	29/41	69	45	23	104	104	0	ATG2A,missense_variant,p.Gly1139Val,ENST00000418259,;ATG2A,missense_variant,p.Gly1335Val,ENST00000377264,;ATG2A,missense_variant,p.Gly1337Val,ENST00000421419,;ATG2A,upstream_gene_variant,,ENST00000472525,;	A	ENSG00000110046	ENST00000377264	Transcript	missense_variant	4117	4004	1335	G/V	gGc/gTc	.	.	.	-1	ATG2A	HGNC	29028	protein_coding	YES	CCDS31602.1	ENSP00000366475	ATG2A_HUMAN	B4DV45_HUMAN	UPI00001C1F21	.	tolerated(0.53)	benign(0.006)	29/41	.	hmmpanther:PTHR13190,hmmpanther:PTHR13190:SF18,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGCCAGCA	.	5	BLCA
ATG2A	0	.	GRCh37	11	64669550	64669550	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4003G>T	p.Gly1335Cys	p.G1335C	ENST00000377264	29/41	69	43	25	105	105	0	ATG2A,missense_variant,p.Gly1139Cys,ENST00000418259,;ATG2A,missense_variant,p.Gly1335Cys,ENST00000377264,;ATG2A,missense_variant,p.Gly1337Cys,ENST00000421419,;ATG2A,upstream_gene_variant,,ENST00000472525,;	A	ENSG00000110046	ENST00000377264	Transcript	missense_variant	4116	4003	1335	G/C	Ggc/Tgc	.	.	.	-1	ATG2A	HGNC	29028	protein_coding	YES	CCDS31602.1	ENSP00000366475	ATG2A_HUMAN	B4DV45_HUMAN	UPI00001C1F21	.	tolerated(0.21)	possibly_damaging(0.469)	29/41	.	hmmpanther:PTHR13190,hmmpanther:PTHR13190:SF18,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCCAGCAG	.	5	BLCA
TIGD3	0	.	GRCh37	11	65123297	65123297	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18G>A	p.%3D	p.K6K	ENST00000309880	2/2	35	25	10	41	41	0	TIGD3,synonymous_variant,p.%3D,ENST00000309880,;DPF2,downstream_gene_variant,,ENST00000531989,;DPF2,downstream_gene_variant,,ENST00000252268,;DPF2,downstream_gene_variant,,ENST00000415073,;DPF2,downstream_gene_variant,,ENST00000528416,;DPF2,downstream_gene_variant,,ENST00000524666,;DPF2,downstream_gene_variant,,ENST00000532052,;	A	ENSG00000173825	ENST00000309880	Transcript	synonymous_variant	225	18	6	K	aaG/aaA	.	.	.	1	TIGD3	HGNC	18334	protein_coding	YES	CCDS8101.1	ENSP00000308354	TIGD3_HUMAN	.	UPI000013EF51	.	.	.	2/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50960,hmmpanther:PTHR19303:SF163,hmmpanther:PTHR19303,Pfam_domain:PF04218,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAAGAAGAA	.	5	BLCA
MALAT1	0	.	GRCh37	11	65269230	65269230	+	RNA	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.3998G>T	.	.	ENST00000534336	1/1	39	27	12	38	38	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;MALAT1,upstream_gene_variant,,ENST00000508832,;	T	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	3998	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCAGGAGAA	.	5	BLCA
MALAT1	0	.	GRCh37	11	65270170	65270170	+	RNA	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.4938G>A	.	.	ENST00000534336	1/1	18	10	8	25	25	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000508832,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;AP000769.7,upstream_gene_variant,,ENST00000602344,;	A	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	4938	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGAGAAA	.	5	BLCA
MALAT1	0	.	GRCh37	11	65272453	65272453	+	RNA	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.7221C>T	.	.	ENST00000534336	1/1	19	11	8	26	26	0	MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,downstream_gene_variant,,ENST00000508832,;MALAT1,downstream_gene_variant,,ENST00000544868,;	T	ENSG00000251562	ENST00000534336	Transcript	non_coding_transcript_exon_variant	7221	.	.	.	.	.	.	.	1	MALAT1	HGNC	29665	lincRNA	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCCAGTT	.	5	BLCA
LTBP3	0	.	GRCh37	11	65314387	65314387	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2112C>T	p.%3D	p.I704I	ENST00000301873	15/28	73	51	21	84	84	0	LTBP3,synonymous_variant,p.%3D,ENST00000527339,;LTBP3,synonymous_variant,p.%3D,ENST00000526927,;LTBP3,synonymous_variant,p.%3D,ENST00000301873,;LTBP3,synonymous_variant,p.%3D,ENST00000530866,;LTBP3,synonymous_variant,p.%3D,ENST00000322147,;LTBP3,synonymous_variant,p.%3D,ENST00000536982,;LTBP3,synonymous_variant,p.%3D,ENST00000532932,;LTBP3,upstream_gene_variant,,ENST00000530785,;LTBP3,upstream_gene_variant,,ENST00000529189,;LTBP3,3_prime_UTR_variant,,ENST00000528516,;LTBP3,downstream_gene_variant,,ENST00000527792,;LTBP3,upstream_gene_variant,,ENST00000525443,;LTBP3,downstream_gene_variant,,ENST00000529764,;LTBP3,downstream_gene_variant,,ENST00000528966,;LTBP3,upstream_gene_variant,,ENST00000529582,;	A	ENSG00000168056	ENST00000301873	Transcript	synonymous_variant	2381	2112	704	I	atC/atT	.	.	.	-1	LTBP3	HGNC	6716	protein_coding	YES	CCDS44647.1	ENSP00000301873	LTBP3_HUMAN	Q9P0Z7_HUMAN,E9PR84_HUMAN,E9PKW1_HUMAN	UPI00003667EB	.	.	.	15/28	.	hmmpanther:PTHR24034,hmmpanther:PTHR24034:SF35,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGTCGATGTC	.	5	BLCA
KAT5	0	.	GRCh37	11	65480190	65480190	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.179-47C>T	.	.	ENST00000341318	.	37	22	15	36	36	0	KAT5,5_prime_UTR_variant,,ENST00000534650,;KAT5,intron_variant,,ENST00000530446,;KAT5,intron_variant,,ENST00000531880,;KAT5,intron_variant,,ENST00000352980,;KAT5,intron_variant,,ENST00000341318,;KAT5,intron_variant,,ENST00000528198,;KAT5,intron_variant,,ENST00000377046,;KAT5,intron_variant,,ENST00000530605,;KAT5,intron_variant,,ENST00000534104,;RNASEH2C,downstream_gene_variant,,ENST00000308418,;KAT5,upstream_gene_variant,,ENST00000534681,;KAT5,non_coding_transcript_exon_variant,,ENST00000525204,;KAT5,intron_variant,,ENST00000534293,;KAT5,intron_variant,,ENST00000527544,;KAT5,intron_variant,,ENST00000532042,;KAT5,upstream_gene_variant,,ENST00000533441,;RNASEH2C,downstream_gene_variant,,ENST00000534482,;	T	ENSG00000172977	ENST00000341318	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	KAT5	HGNC	5275	protein_coding	YES	CCDS8110.1	ENSP00000340330	KAT5_HUMAN	E9PMG8_HUMAN,E9PJI1_HUMAN	UPI00001D3EFB	.	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGTCTCATA	.	5	BLCA
KAT5	0	.	GRCh37	11	65486404	65486404	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1485C>T	p.%3D	p.L495L	ENST00000341318	12/13	39	26	12	55	55	0	KAT5,synonymous_variant,p.%3D,ENST00000530446,;KAT5,synonymous_variant,p.%3D,ENST00000352980,;KAT5,synonymous_variant,p.%3D,ENST00000341318,;KAT5,synonymous_variant,p.%3D,ENST00000534650,;KAT5,synonymous_variant,p.%3D,ENST00000377046,;KAT5,synonymous_variant,p.%3D,ENST00000533596,;RNASEH2C,3_prime_UTR_variant,,ENST00000308418,;KAT5,downstream_gene_variant,,ENST00000531880,;KAT5,downstream_gene_variant,,ENST00000528198,;RNASEH2C,downstream_gene_variant,,ENST00000527610,;RNASEH2C,downstream_gene_variant,,ENST00000528220,;KAT5,downstream_gene_variant,,ENST00000534104,;KAT5,downstream_gene_variant,,ENST00000534681,;KAT5,downstream_gene_variant,,ENST00000534293,;RNASEH2C,3_prime_UTR_variant,,ENST00000531596,;KAT5,non_coding_transcript_exon_variant,,ENST00000525600,;RNASEH2C,intron_variant,,ENST00000533698,;RNASEH2C,intron_variant,,ENST00000534482,;KAT5,downstream_gene_variant,,ENST00000527544,;KAT5,downstream_gene_variant,,ENST00000533441,;RNASEH2C,downstream_gene_variant,,ENST00000530192,;	T	ENSG00000172977	ENST00000341318	Transcript	synonymous_variant	1719	1485	495	L	ctC/ctT	.	.	.	1	KAT5	HGNC	5275	protein_coding	YES	CCDS8110.1	ENSP00000340330	KAT5_HUMAN	E9PMG8_HUMAN,E9PJI1_HUMAN	UPI00001D3EFB	.	.	.	12/13	.	hmmpanther:PTHR10615,Pfam_domain:PF01853,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAATCT	.	5	BLCA
CATSPER1	0	.	GRCh37	11	65789307	65789307	+	Silent	SNP	G	G	A	rs754679017,rs780701695	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1473C>T	p.%3D	p.Y491Y	ENST00000312106	3/12	57	45	12	80	80	0	CATSPER1,synonymous_variant,p.%3D,ENST00000312106,;CATSPER1,upstream_gene_variant,,ENST00000529244,;	A	ENSG00000175294	ENST00000312106	Transcript	synonymous_variant	1611	1473	491	Y	taC/taT	rs754679017,rs780701695	.	.	-1	CATSPER1	HGNC	17116	protein_coding	YES	CCDS8127.1	ENSP00000309052	CTSR1_HUMAN	.	UPI000045651C	.	.	.	3/12	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF81324,Gene3D:1.20.120.350,Pfam_domain:PF00520,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCACGTAGAT	byFrequency	5	BLCA
B3GNT1	0	.	GRCh37	11	66114512	66114512	+	Missense_Mutation	SNP	C	C	T	rs766114704	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.505G>A	p.Asp169Asn	p.D169N	ENST00000311181	1/2	22	18	4	25	25	0	B3GNT1,missense_variant,p.Asp169Asn,ENST00000311181,;BRMS1,upstream_gene_variant,,ENST00000359957,;BRMS1,upstream_gene_variant,,ENST00000524699,;RP11-867G23.8,upstream_gene_variant,,ENST00000531602,;BRMS1,upstream_gene_variant,,ENST00000530756,;BRMS1,upstream_gene_variant,,ENST00000425825,;RP11-867G23.8,upstream_gene_variant,,ENST00000581155,;RP11-867G23.8,upstream_gene_variant,,ENST00000580881,;BRMS1,upstream_gene_variant,,ENST00000529544,;BRMS1,upstream_gene_variant,,ENST00000530238,;BRMS1,upstream_gene_variant,,ENST00000534617,;BRMS1,upstream_gene_variant,,ENST00000527375,;BRMS1,upstream_gene_variant,,ENST00000525127,;	T	ENSG00000174684	ENST00000311181	Transcript	missense_variant	652	505	169	D/N	Gac/Aac	rs766114704	.	.	-1	B3GNT1	HGNC	15685	protein_coding	YES	CCDS8136.1	ENSP00000309096	B3GN1_HUMAN	B4DGI0_HUMAN	UPI00000358A1	.	tolerated(0.15)	benign(0.056)	1/2	.	hmmpanther:PTHR12270:SF20,hmmpanther:PTHR12270,Pfam_domain:PF13896	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGGGTCGGGCA	.	3	BLCA
SLC29A2	0	.	GRCh37	11	66131785	66131785	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1170C>G	p.Phe390Leu	p.F390L	ENST00000357440	11/12	15	9	6	23	23	0	SLC29A2,missense_variant,p.Pro346Ala,ENST00000311161,;SLC29A2,missense_variant,p.Phe390Leu,ENST00000546034,;SLC29A2,missense_variant,p.Phe390Leu,ENST00000544554,;SLC29A2,missense_variant,p.Phe390Leu,ENST00000357440,;RP11-867G23.8,downstream_gene_variant,,ENST00000531602,;RP11-867G23.8,intron_variant,,ENST00000580881,;SLC29A2,3_prime_UTR_variant,,ENST00000540386,;SLC29A2,3_prime_UTR_variant,,ENST00000541567,;	C	ENSG00000174669	ENST00000357440	Transcript	missense_variant	1399	1170	390	F/L	ttC/ttG	.	.	.	-1	SLC29A2	HGNC	11004	protein_coding	YES	CCDS8137.1	ENSP00000350024	S29A2_HUMAN	.	UPI000013F0E7	.	deleterious(0.01)	probably_damaging(0.998)	11/12	.	hmmpanther:PTHR10332:SF8,hmmpanther:PTHR10332,Pfam_domain:PF01733,TIGRFAM_domain:TIGR00939,PIRSF_domain:PIRSF016379,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGGGAAGAG	.	5	BLCA
BBS1	0	.	GRCh37	11	66299200	66299200	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1682C>T	p.Ser561Leu	p.S561L	ENST00000318312	16/17	66	43	22	94	94	0	BBS1,missense_variant,p.Ser561Leu,ENST00000318312,;BBS1,missense_variant,p.Ser464Leu,ENST00000455748,;CTD-3074O7.11,missense_variant,p.Ser598Leu,ENST00000419755,;BBS1,missense_variant,p.Ser432Leu,ENST00000393994,;ZDHHC24,intron_variant,,ENST00000526986,;CTD-3074O7.12,downstream_gene_variant,,ENST00000602427,;BBS1,downstream_gene_variant,,ENST00000529766,;BBS1,3_prime_UTR_variant,,ENST00000526760,;BBS1,non_coding_transcript_exon_variant,,ENST00000529955,;ZDHHC24,intron_variant,,ENST00000534073,;BBS1,downstream_gene_variant,,ENST00000527959,;	T	ENSG00000174483	ENST00000318312	Transcript	missense_variant	1733	1682	561	S/L	tCa/tTa	.	.	.	1	BBS1	HGNC	966	protein_coding	YES	CCDS8142.1	ENSP00000317469	BBS1_HUMAN	E9PQD9_HUMAN,E9PPR3_HUMAN	UPI0000073430	.	deleterious(0)	possibly_damaging(0.65)	16/17	.	hmmpanther:PTHR20870:SF0,hmmpanther:PTHR20870	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCAGACA	.	5	BLCA
RBM14	0	.	GRCh37	11	66393026	66393026	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1679C>T	p.Ser560Phe	p.S560F	ENST00000310137	2/3	32	21	10	56	56	0	RBM14,missense_variant,p.Ser560Phe,ENST00000310137,;RBM14-RBM4,intron_variant,,ENST00000412278,;RBM4,intron_variant,,ENST00000514361,;RBM4,intron_variant,,ENST00000503028,;RBM14-RBM4,intron_variant,,ENST00000500635,;RBM14,intron_variant,,ENST00000393979,;RBM14,intron_variant,,ENST00000409738,;RBM14,downstream_gene_variant,,ENST00000443702,;RBM14,downstream_gene_variant,,ENST00000409372,;RBM14-RBM4,intron_variant,,ENST00000511114,;RBM14,downstream_gene_variant,,ENST00000496694,;RBM14,downstream_gene_variant,,ENST00000461478,;RBM14-RBM4,intron_variant,,ENST00000421355,;	T	ENSG00000239306	ENST00000310137	Transcript	missense_variant	1818	1679	560	S/F	tCc/tTc	.	.	.	1	RBM14	HGNC	14219	protein_coding	YES	CCDS8147.1	ENSP00000311747	RBM14_HUMAN	B4DNG4_HUMAN	UPI0000073D46	.	deleterious(0)	unknown(0)	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGTCCATGT	.	5	BLCA
RBM4	0	.	GRCh37	11	66407395	66407395	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213G>A	p.%3D	p.K71K	ENST00000409406	1/3	134	97	36	171	171	0	RBM4,synonymous_variant,p.%3D,ENST00000503028,;RBM4,synonymous_variant,p.%3D,ENST00000398692,;RBM4,synonymous_variant,p.%3D,ENST00000409406,;RBM4,synonymous_variant,p.%3D,ENST00000408993,;RBM4,synonymous_variant,p.%3D,ENST00000506523,;RBM4,synonymous_variant,p.%3D,ENST00000532968,;RBM4,synonymous_variant,p.%3D,ENST00000510173,;RBM4,synonymous_variant,p.%3D,ENST00000483858,;RBM4,synonymous_variant,p.%3D,ENST00000396053,;RBM4,synonymous_variant,p.%3D,ENST00000530235,;RBM4,synonymous_variant,p.%3D,ENST00000310092,;RBM4,synonymous_variant,p.%3D,ENST00000578778,;RBM14-RBM4,intron_variant,,ENST00000412278,;RBM4,intron_variant,,ENST00000514361,;RBM14-RBM4,intron_variant,,ENST00000500635,;RBM4,non_coding_transcript_exon_variant,,ENST00000528039,;RBM14-RBM4,downstream_gene_variant,,ENST00000511114,;RBM4,upstream_gene_variant,,ENST00000515838,;RBM14-RBM4,3_prime_UTR_variant,,ENST00000421355,;	A	ENSG00000173933	ENST00000409406	Transcript	synonymous_variant	990	213	71	K	aaG/aaA	.	.	.	1	RBM4	HGNC	9901	protein_coding	YES	CCDS41676.1	ENSP00000386894	RBM4_HUMAN	.	UPI0000073FC1	.	.	.	1/3	.	Superfamily_domains:SSF54928,Gene3D:3.30.70.330,hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF242,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAAGAATAA	.	5	BLCA
C11orf80	0	.	GRCh37	11	66589118	66589118	+	Silent	SNP	C	C	T	rs781557258	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1341C>T	p.%3D	p.V447V	ENST00000360962	12/17	23	16	7	20	20	0	C11orf80,synonymous_variant,p.%3D,ENST00000360962,;C11orf80,synonymous_variant,p.%3D,ENST00000532565,;C11orf80,synonymous_variant,p.%3D,ENST00000525449,;C11orf80,synonymous_variant,p.%3D,ENST00000527634,;C11orf80,synonymous_variant,p.%3D,ENST00000540737,;C11orf80,synonymous_variant,p.%3D,ENST00000346672,;C11orf80,synonymous_variant,p.%3D,ENST00000531415,;C11orf80,upstream_gene_variant,,ENST00000526270,;C11orf80,3_prime_UTR_variant,,ENST00000532727,;C11orf80,non_coding_transcript_exon_variant,,ENST00000526718,;C11orf80,intron_variant,,ENST00000533143,;	T	ENSG00000173715	ENST00000360962	Transcript	synonymous_variant	1348	1341	447	V	gtC/gtT	rs781557258	.	.	1	C11orf80	HGNC	26197	protein_coding	YES	CCDS53664.1	ENSP00000354227	CK080_HUMAN	E9PIE7_HUMAN	UPI0001711D28	.	.	.	12/17	.	Pfam_domain:PF15091,hmmpanther:PTHR14652	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGTCTATAC	.	5	BLCA
PC	0	.	GRCh37	11	66636338	66636338	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1001C>T	p.Thr334Met	p.T334M	ENST00000393960	10/23	41	28	12	53	53	0	PC,missense_variant,p.Thr294Met,ENST00000524491,;PC,missense_variant,p.Thr334Met,ENST00000355677,;PC,missense_variant,p.Thr334Met,ENST00000393960,;PC,missense_variant,p.Thr334Met,ENST00000393958,;PC,missense_variant,p.Thr334Met,ENST00000393955,;PC,downstream_gene_variant,,ENST00000531614,;PC,downstream_gene_variant,,ENST00000528403,;	A	ENSG00000173599	ENST00000393960	Transcript	missense_variant	1283	1001	334	T/M	aCg/aTg	.	.	.	-1	PC	HGNC	8636	protein_coding	YES	CCDS8152.1	ENSP00000377532	PYC_HUMAN	E9PS68_HUMAN	UPI0000132BC4	.	deleterious(0)	probably_damaging(1)	10/23	.	Superfamily_domains:SSF56059,PIRSF_domain:PIRSF001594,Gene3D:3.30.470.20,Pfam_domain:PF02786,TIGRFAM_domain:TIGR01235,hmmpanther:PTHR18866,PROSITE_profiles:PS50979,PROSITE_profiles:PS50975	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGACCGTGTGC	.	4	BLCA
ANKRD13D	0	.	GRCh37	11	67068389	67068389	+	Intron	SNP	G	G	A	rs762164354	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1074-72G>A	.	.	ENST00000511455	.	19	12	7	13	13	0	ANKRD13D,5_prime_UTR_variant,,ENST00000515828,;ANKRD13D,intron_variant,,ENST00000511455,;ANKRD13D,intron_variant,,ENST00000447274,;ANKRD13D,intron_variant,,ENST00000308440,;ANKRD13D,intron_variant,,ENST00000514166,;SSH3,upstream_gene_variant,,ENST00000308127,;SSH3,upstream_gene_variant,,ENST00000308298,;SSH3,upstream_gene_variant,,ENST00000376757,;ANKRD13D,intron_variant,,ENST00000508422,;SSH3,upstream_gene_variant,,ENST00000534112,;ANKRD13D,upstream_gene_variant,,ENST00000504236,;SSH3,upstream_gene_variant,,ENST00000532181,;ANKRD13D,intron_variant,,ENST00000506119,;ANKRD13D,intron_variant,,ENST00000508417,;ANKRD13D,intron_variant,,ENST00000512231,;ANKRD13D,intron_variant,,ENST00000513750,;ANKRD13D,intron_variant,,ENST00000507915,;ANKRD13D,downstream_gene_variant,,ENST00000504186,;SSH3,upstream_gene_variant,,ENST00000532881,;ANKRD13D,downstream_gene_variant,,ENST00000506531,;SSH3,upstream_gene_variant,,ENST00000532600,;	A	ENSG00000172932	ENST00000511455	Transcript	intron_variant	.	.	.	.	.	rs762164354	.	.	1	ANKRD13D	HGNC	27880	protein_coding	YES	CCDS31616.2	ENSP00000427130	AN13D_HUMAN	B3KND9_HUMAN	UPI00001981D2	.	.	.	.	10/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACGAACCA	byFrequency	5	BLCA
SSH3	0	.	GRCh37	11	67075660	67075660	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901G>A	p.Glu301Lys	p.E301K	ENST00000308127	9/14	68	48	19	78	78	0	SSH3,missense_variant,p.Glu301Lys,ENST00000308127,;SSH3,missense_variant,p.Glu53Lys,ENST00000527821,;SSH3,missense_variant,p.Glu301Lys,ENST00000376757,;SSH3,intron_variant,,ENST00000308298,;SSH3,non_coding_transcript_exon_variant,,ENST00000529224,;SSH3,non_coding_transcript_exon_variant,,ENST00000532181,;SSH3,upstream_gene_variant,,ENST00000531495,;SSH3,downstream_gene_variant,,ENST00000534112,;SSH3,upstream_gene_variant,,ENST00000525913,;SSH3,3_prime_UTR_variant,,ENST00000532881,;SSH3,downstream_gene_variant,,ENST00000532600,;	A	ENSG00000172830	ENST00000308127	Transcript	missense_variant	1079	901	301	E/K	Gag/Aag	.	.	.	1	SSH3	HGNC	30581	protein_coding	YES	CCDS8157.1	ENSP00000312081	SSH3_HUMAN	.	UPI0000038D01	.	deleterious(0)	probably_damaging(0.99)	9/14	.	hmmpanther:PTHR10159:SF107,hmmpanther:PTHR10159,Gene3D:1.10.10.60,Pfam_domain:PF08766,Superfamily_domains:0042580	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGGAGCTG	.	5	BLCA
GPR152	0	.	GRCh37	11	67220094	67220094	+	Silent	SNP	G	G	A	rs531715668	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.102C>T	p.%3D	p.V34V	ENST00000312457	1/1	9	5	4	31	31	0	GPR152,synonymous_variant,p.%3D,ENST00000312457,;CABP4,5_prime_UTR_variant,,ENST00000438189,;CABP4,upstream_gene_variant,,ENST00000325656,;CABP4,non_coding_transcript_exon_variant,,ENST00000542025,;CABP4,non_coding_transcript_exon_variant,,ENST00000538060,;CABP4,upstream_gene_variant,,ENST00000542233,;CABP4,non_coding_transcript_exon_variant,,ENST00000545040,;CABP4,upstream_gene_variant,,ENST00000545777,;	A	ENSG00000175514	ENST00000312457	Transcript	synonymous_variant	107	102	34	V	gtC/gtT	rs531715668	.	.	-1	GPR152	HGNC	23622	protein_coding	YES	CCDS8165.1	ENSP00000310255	GP152_HUMAN	.	UPI000003B364	.	.	.	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11334:SF1,hmmpanther:PTHR11334,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAAGACCGT	by1000G	2	BLCA
PITPNM1	0	.	GRCh37	11	67267429	67267429	+	Missense_Mutation	SNP	C	C	T	rs143525313	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1019G>A	p.Arg340Gln	p.R340Q	ENST00000356404	7/24	61	40	21	72	72	0	PITPNM1,missense_variant,p.Arg340Gln,ENST00000436757,;PITPNM1,missense_variant,p.Arg340Gln,ENST00000356404,;PITPNM1,missense_variant,p.Arg340Gln,ENST00000534749,;PITPNM1,downstream_gene_variant,,ENST00000532703,;PITPNM1,downstream_gene_variant,,ENST00000524901,;PITPNM1,downstream_gene_variant,,ENST00000528559,;PITPNM1,downstream_gene_variant,,ENST00000533391,;PITPNM1,non_coding_transcript_exon_variant,,ENST00000525521,;PITPNM1,non_coding_transcript_exon_variant,,ENST00000530381,;PITPNM1,upstream_gene_variant,,ENST00000525568,;PITPNM1,downstream_gene_variant,,ENST00000527527,;PITPNM1,downstream_gene_variant,,ENST00000527103,;PITPNM1,downstream_gene_variant,,ENST00000529203,;PITPNM1,upstream_gene_variant,,ENST00000526602,;PITPNM1,upstream_gene_variant,,ENST00000527370,;	T	ENSG00000110697	ENST00000356404	Transcript	missense_variant	1245	1019	340	R/Q	cGa/cAa	rs143525313	.	.	-1	PITPNM1	HGNC	9003	protein_coding	YES	CCDS31620.1	ENSP00000348772	PITM1_HUMAN	E9PSD1_HUMAN,E9PNU6_HUMAN,E9PMZ6_HUMAN,E9PMS0_HUMAN	UPI00001FAD31	.	tolerated(0.08)	probably_damaging(0.999)	7/24	.	hmmpanther:PTHR10658,hmmpanther:PTHR10658:SF40	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCGGGCA	byCluster|by1000G	5	BLCA
ALDH3B2	0	.	GRCh37	11	67430480	67430480	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*206G>A	.	.	ENST00000349015	10/10	8	5	3	9	9	0	ALDH3B2,3_prime_UTR_variant,,ENST00000349015,;ALDH3B2,3_prime_UTR_variant,,ENST00000530069,;ALDH3B2,downstream_gene_variant,,ENST00000525827,;ALDH3B2,downstream_gene_variant,,ENST00000528756,;ALDH3B2,downstream_gene_variant,,ENST00000531248,;ALDH3B2,downstream_gene_variant,,ENST00000533962,;ALDH3B2,downstream_gene_variant,,ENST00000531881,;ALDH3B2,downstream_gene_variant,,ENST00000534425,;	T	ENSG00000132746	ENST00000349015	Transcript	3_prime_UTR_variant	1803	.	.	.	.	.	.	.	-1	ALDH3B2	HGNC	411	protein_coding	YES	CCDS31622.1	ENSP00000255084	AL3B2_HUMAN	E9PKY9_HUMAN,E9PJV0_HUMAN	UPI000013CE83	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCTTGGC	.	2	BLCA
OR10A5	0	.	GRCh37	11	6867594	6867594	+	Silent	SNP	C	C	G	rs753626566	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681C>G	p.%3D	p.L227L	ENST00000299454	1/1	123	74	48	160	160	0	OR10A5,synonymous_variant,p.%3D,ENST00000379831,;OR10A5,synonymous_variant,p.%3D,ENST00000299454,;RP11-560B16.5,upstream_gene_variant,,ENST00000530632,;	G	ENSG00000166363	ENST00000299454	Transcript	synonymous_variant	712	681	227	L	ctC/ctG	rs753626566	.	.	1	OR10A5	HGNC	15131	protein_coding	YES	CCDS7773.1	ENSP00000299454	O10A5_HUMAN	.	UPI000004C155	.	.	.	1/1	.	Superfamily_domains:SSF81321,Pfam_domain:PF13853,Gene3D:1.20.1070.10,hmmpanther:PTHR26453:SF90,hmmpanther:PTHR26453,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCAAGAT	.	5	BLCA
DEAF1	0	.	GRCh37	11	687942	687942	+	Silent	SNP	G	G	A	rs140896747	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633C>T	p.%3D	p.S211S	ENST00000382409	4/12	43	27	15	47	47	0	DEAF1,synonymous_variant,p.%3D,ENST00000382409,;DEAF1,synonymous_variant,p.%3D,ENST00000338675,;DEAF1,non_coding_transcript_exon_variant,,ENST00000525626,;DEAF1,non_coding_transcript_exon_variant,,ENST00000528864,;DEAF1,non_coding_transcript_exon_variant,,ENST00000524786,;DEAF1,downstream_gene_variant,,ENST00000529727,;DEAF1,upstream_gene_variant,,ENST00000530813,;DEAF1,3_prime_UTR_variant,,ENST00000529717,;DEAF1,upstream_gene_variant,,ENST00000527170,;	A	ENSG00000177030	ENST00000382409	Transcript	synonymous_variant	1118	633	211	S	agC/agT	rs140896747	.	.	-1	DEAF1	HGNC	14677	protein_coding	YES	CCDS31327.1	ENSP00000371846	DEAF1_HUMAN	.	UPI00001290E6	.	.	.	4/12	.	PROSITE_profiles:PS50864,hmmpanther:PTHR10237,Gene3D:3.10.390.10,Pfam_domain:PF01342,SMART_domains:SM00258,Superfamily_domains:SSF63763	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCCGCTGAT	byCluster	5	BLCA
ANO1	0	.	GRCh37	11	69978125	69978125	+	Missense_Mutation	SNP	G	G	A	rs367716754	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>A	p.Ala400Thr	p.A400T	ENST00000355303	11/26	12	9	3	18	18	0	ANO1,missense_variant,p.Ala265Thr,ENST00000530480,;ANO1,missense_variant,p.Ala135Thr,ENST00000531349,;ANO1,missense_variant,p.Ala372Thr,ENST00000316296,;ANO1,missense_variant,p.Ala400Thr,ENST00000538023,;ANO1,missense_variant,p.Ala284Thr,ENST00000398543,;ANO1,missense_variant,p.Ala284Thr,ENST00000530676,;ANO1,missense_variant,p.Ala400Thr,ENST00000355303,;RP11-805J14.3,intron_variant,,ENST00000530525,;	A	ENSG00000131620	ENST00000355303	Transcript	missense_variant	1503	1198	400	A/T	Gcc/Acc	rs367716754	.	.	1	ANO1	HGNC	21625	protein_coding	YES	CCDS44663.1	ENSP00000347454	ANO1_HUMAN	.	UPI000013CE03	.	deleterious(0.01)	benign(0.311)	11/26	.	hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF13,Pfam_domain:PF04547	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCGCGCCAGC	byCluster|by1000G	2	BLCA
EPS8L2	0	.	GRCh37	11	709566	709566	+	Missense_Mutation	SNP	C	C	G	rs746324962	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58C>G	p.Arg20Gly	p.R20G	ENST00000533256	4/22	22	17	5	25	25	0	EPS8L2,missense_variant,p.Arg20Gly,ENST00000527199,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000318562,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000530636,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000526198,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000534755,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000533500,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000531348,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000524763,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000533256,;TMEM80,downstream_gene_variant,,ENST00000526170,;AP006621.9,intron_variant,,ENST00000527021,;DEAF1,upstream_gene_variant,,ENST00000525626,;DEAF1,upstream_gene_variant,,ENST00000526857,;EPS8L2,missense_variant,p.Arg20Gly,ENST00000526909,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000529680,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000530093,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000527807,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000529346,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000530118,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000526380,;	G	ENSG00000177106	ENST00000533256	Transcript	missense_variant	433	58	20	R/G	Cgg/Ggg	rs746324962	.	.	1	EPS8L2	HGNC	21296	protein_coding	YES	CCDS31328.1	ENSP00000435585	ES8L2_HUMAN	E9PNY4_HUMAN,E9PNT0_HUMAN,E9PN68_HUMAN,E9PLN2_HUMAN,E9PLH1_HUMAN	UPI000006226C	.	deleterious(0.01)	possibly_damaging(0.601)	4/22	.	hmmpanther:PTHR12287,hmmpanther:PTHR12287:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGCCGGTCC	.	5	BLCA
EPS8L2	0	.	GRCh37	11	710447	710447	+	Silent	SNP	C	C	T	rs781464231	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126C>T	p.%3D	p.S42S	ENST00000533256	5/22	56	43	13	88	88	0	EPS8L2,synonymous_variant,p.%3D,ENST00000318562,;EPS8L2,synonymous_variant,p.%3D,ENST00000530636,;EPS8L2,synonymous_variant,p.%3D,ENST00000526198,;EPS8L2,synonymous_variant,p.%3D,ENST00000534755,;EPS8L2,synonymous_variant,p.%3D,ENST00000533500,;EPS8L2,synonymous_variant,p.%3D,ENST00000531348,;EPS8L2,synonymous_variant,p.%3D,ENST00000524763,;EPS8L2,synonymous_variant,p.%3D,ENST00000533256,;EPS8L2,downstream_gene_variant,,ENST00000527199,;AP006621.9,intron_variant,,ENST00000527021,;DEAF1,upstream_gene_variant,,ENST00000525626,;DEAF1,upstream_gene_variant,,ENST00000526857,;EPS8L2,3_prime_UTR_variant,,ENST00000526909,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000530093,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000527807,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000529346,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000530118,;EPS8L2,downstream_gene_variant,,ENST00000529680,;EPS8L2,downstream_gene_variant,,ENST00000526380,;	T	ENSG00000177106	ENST00000533256	Transcript	synonymous_variant	501	126	42	S	tcC/tcT	rs781464231	.	.	1	EPS8L2	HGNC	21296	protein_coding	YES	CCDS31328.1	ENSP00000435585	ES8L2_HUMAN	E9PNY4_HUMAN,E9PNT0_HUMAN,E9PN68_HUMAN,E9PLN2_HUMAN,E9PLH1_HUMAN	UPI000006226C	.	.	.	5/22	.	hmmpanther:PTHR12287,hmmpanther:PTHR12287:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTCCAACGT	.	5	BLCA
KRTAP5-9	0	.	GRCh37	11	71259826	71259826	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.123C>A	p.Cys41Ter	p.C41*	ENST00000528743	1/1	122	95	27	188	188	0	KRTAP5-9,stop_gained,p.Cys41Ter,ENST00000528743,;	A	ENSG00000254997	ENST00000528743	Transcript	stop_gained	361	123	41	C/*	tgC/tgA	.	.	.	1	KRTAP5-9	HGNC	23604	protein_coding	YES	CCDS53677.1	ENSP00000431443	KRA59_HUMAN	.	UPI000012E079	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23262:SF23,hmmpanther:PTHR23262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGCTGCAA	.	5	BLCA
IL18BP	0	.	GRCh37	11	71710165	71710165	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-866G>A	.	.	ENST00000404792	1/5	54	38	16	89	89	0	IL18BP,5_prime_UTR_variant,,ENST00000497194,;IL18BP,5_prime_UTR_variant,,ENST00000404792,;IL18BP,intron_variant,,ENST00000393705,;IL18BP,intron_variant,,ENST00000531053,;IL18BP,intron_variant,,ENST00000393703,;IL18BP,intron_variant,,ENST00000337131,;RNF121,downstream_gene_variant,,ENST00000361756,;NUMA1,downstream_gene_variant,,ENST00000393695,;RNF121,downstream_gene_variant,,ENST00000530137,;NUMA1,downstream_gene_variant,,ENST00000541584,;NUMA1,downstream_gene_variant,,ENST00000351960,;IL18BP,upstream_gene_variant,,ENST00000393707,;RNF121,downstream_gene_variant,,ENST00000533380,;NUMA1,downstream_gene_variant,,ENST00000358965,;IL18BP,upstream_gene_variant,,ENST00000260049,;RNF121,downstream_gene_variant,,ENST00000545854,;RNF121,downstream_gene_variant,,ENST00000393713,;IL18BP,intron_variant,,ENST00000531777,;IL18BP,intron_variant,,ENST00000414358,;IL18BP,intron_variant,,ENST00000525932,;RNF121,downstream_gene_variant,,ENST00000490867,;IL18BP,intron_variant,,ENST00000343898,;RNF121,downstream_gene_variant,,ENST00000525243,;RNF121,downstream_gene_variant,,ENST00000526549,;RNF121,downstream_gene_variant,,ENST00000530655,;IL18BP,upstream_gene_variant,,ENST00000534583,;NUMA1,downstream_gene_variant,,ENST00000540626,;RNF121,downstream_gene_variant,,ENST00000532379,;	A	ENSG00000137496	ENST00000404792	Transcript	5_prime_UTR_variant	57	.	.	.	.	.	.	.	1	IL18BP	HGNC	5987	protein_coding	YES	CCDS8206.2	ENSP00000384212	I18BP_HUMAN	Q9UNH2_HUMAN	UPI000000DA78	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTAGCCGAC	.	5	BLCA
ANAPC15	0	.	GRCh37	11	71821176	71821176	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276G>A	p.Met92Ile	p.M92I	ENST00000227618	5/6	91	57	34	96	96	0	ANAPC15,missense_variant,p.Met7Ile,ENST00000502597,;ANAPC15,missense_variant,p.Met104Ile,ENST00000537644,;ANAPC15,missense_variant,p.Met92Ile,ENST00000227618,;ANAPC15,missense_variant,p.Met92Ile,ENST00000545944,;ANAPC15,missense_variant,p.Met92Ile,ENST00000543587,;ANAPC15,missense_variant,p.Met92Ile,ENST00000543050,;ANAPC15,missense_variant,p.Met92Ile,ENST00000545680,;ANAPC15,missense_variant,p.Met92Ile,ENST00000535503,;ANAPC15,missense_variant,p.Met92Ile,ENST00000542531,;ANAPC15,missense_variant,p.Met92Ile,ENST00000538393,;ANAPC15,missense_variant,p.Met92Ile,ENST00000535234,;ANAPC15,missense_variant,p.Met92Ile,ENST00000538919,;LRTOMT,3_prime_UTR_variant,,ENST00000435085,;LRTOMT,3_prime_UTR_variant,,ENST00000307198,;LRTOMT,3_prime_UTR_variant,,ENST00000419228,;ANAPC15,downstream_gene_variant,,ENST00000438939,;LRTOMT,downstream_gene_variant,,ENST00000439209,;ANAPC15,downstream_gene_variant,,ENST00000545333,;ANAPC15,downstream_gene_variant,,ENST00000539395,;ANAPC15,non_coding_transcript_exon_variant,,ENST00000543015,;ANAPC15,missense_variant,p.Met92Ile,ENST00000538117,;LRTOMT,3_prime_UTR_variant,,ENST00000544409,;LRTOMT,3_prime_UTR_variant,,ENST00000427369,;FOLR3,upstream_gene_variant,,ENST00000542161,;LRTOMT,downstream_gene_variant,,ENST00000541899,;	T	ENSG00000110200	ENST00000227618	Transcript	missense_variant	502	276	92	M/I	atG/atA	.	.	.	-1	ANAPC15	HGNC	24531	protein_coding	YES	CCDS8210.1	ENSP00000227618	APC15_HUMAN	F5H2T3_HUMAN,F5GXB9_HUMAN	UPI000002356F	.	deleterious(0.03)	benign(0.121)	5/6	.	Pfam_domain:PF15243,hmmpanther:PTHR22526,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCATCTC	.	5	BLCA
INPPL1	0	.	GRCh37	11	71939442	71939442	+	Silent	SNP	C	C	T	rs754321111	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297C>T	p.%3D	p.I99I	ENST00000298229	3/28	52	28	24	45	45	0	INPPL1,synonymous_variant,p.%3D,ENST00000298229,;INPPL1,5_prime_UTR_variant,,ENST00000538751,;INPPL1,5_prime_UTR_variant,,ENST00000541756,;INPPL1,downstream_gene_variant,,ENST00000540973,;INPPL1,upstream_gene_variant,,ENST00000540329,;INPPL1,downstream_gene_variant,,ENST00000543234,;INPPL1,upstream_gene_variant,,ENST00000537656,;INPPL1,non_coding_transcript_exon_variant,,ENST00000541544,;INPPL1,upstream_gene_variant,,ENST00000538339,;INPPL1,upstream_gene_variant,,ENST00000537755,;INPPL1,upstream_gene_variant,,ENST00000544806,;INPPL1,upstream_gene_variant,,ENST00000541303,;INPPL1,upstream_gene_variant,,ENST00000542295,;	T	ENSG00000165458	ENST00000298229	Transcript	synonymous_variant	501	297	99	I	atC/atT	rs754321111	.	.	1	INPPL1	HGNC	6080	protein_coding	YES	CCDS8213.1	ENSP00000298229	SHIP2_HUMAN	H0YFZ4_HUMAN,F5H588_HUMAN,F5GYK9_HUMAN	UPI000013E4AF	.	.	.	3/28	.	Prints_domain:PR00401,Superfamily_domains:SSF55550,SMART_domains:SM00252,Pfam_domain:PF00017,Gene3D:3.30.505.10,hmmpanther:PTHR11200:SF15,hmmpanther:PTHR11200,PROSITE_profiles:PS50001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCGGCCT	byFrequency	5	BLCA
EPS8L2	0	.	GRCh37	11	726349	726349	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1799A>T	p.Lys600Ile	p.K600I	ENST00000533256	20/22	13	10	3	16	16	0	EPS8L2,missense_variant,p.Lys600Ile,ENST00000318562,;EPS8L2,missense_variant,p.Lys600Ile,ENST00000530636,;EPS8L2,missense_variant,p.Lys616Ile,ENST00000526198,;EPS8L2,missense_variant,p.Lys600Ile,ENST00000533256,;AP006621.9,intron_variant,,ENST00000527021,;EPS8L2,upstream_gene_variant,,ENST00000524973,;EPS8L2,upstream_gene_variant,,ENST00000534449,;EPS8L2,3_prime_UTR_variant,,ENST00000528770,;EPS8L2,3_prime_UTR_variant,,ENST00000526909,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000531393,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000527832,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000534679,;EPS8L2,downstream_gene_variant,,ENST00000524474,;EPS8L2,downstream_gene_variant,,ENST00000526651,;EPS8L2,downstream_gene_variant,,ENST00000532545,;EPS8L2,downstream_gene_variant,,ENST00000533816,;EPS8L2,downstream_gene_variant,,ENST00000529346,;EPS8L2,downstream_gene_variant,,ENST00000531471,;EPS8L2,upstream_gene_variant,,ENST00000534027,;EPS8L2,downstream_gene_variant,,ENST00000530452,;	T	ENSG00000177106	ENST00000533256	Transcript	missense_variant	2174	1799	600	K/I	aAa/aTa	.	.	.	1	EPS8L2	HGNC	21296	protein_coding	YES	CCDS31328.1	ENSP00000435585	ES8L2_HUMAN	E9PNY4_HUMAN,E9PNT0_HUMAN,E9PN68_HUMAN,E9PLN2_HUMAN,E9PLH1_HUMAN	UPI000006226C	.	deleterious(0.04)	benign(0.022)	20/22	.	hmmpanther:PTHR12287,hmmpanther:PTHR12287:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGGAAAATCA	.	2	BLCA
UCP3	0	.	GRCh37	11	73714966	73714966	+	Missense_Mutation	SNP	G	G	A	rs779791876	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.730C>T	p.Arg244Trp	p.R244W	ENST00000314032	6/7	62	39	23	50	50	0	UCP3,missense_variant,p.Arg244Trp,ENST00000314032,;UCP3,missense_variant,p.Arg244Trp,ENST00000426995,;UCP3,missense_variant,p.Arg142Trp,ENST00000348534,;UCP3,downstream_gene_variant,,ENST00000544614,;UCP3,upstream_gene_variant,,ENST00000545271,;	A	ENSG00000175564	ENST00000314032	Transcript	missense_variant	1283	730	244	R/W	Cgg/Tgg	rs779791876	.	.	-1	UCP3	HGNC	12519	protein_coding	YES	CCDS8229.1	ENSP00000323740	UCP3_HUMAN	F5H3N5_HUMAN	UPI000003021D	.	deleterious(0)	probably_damaging(1)	6/7	.	PROSITE_profiles:PS50920,hmmpanther:PTHR24089:SF176,hmmpanther:PTHR24089,Gene3D:1okcA00,Pfam_domain:PF00153,Superfamily_domains:0048588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACCGGGTCT	byFrequency	5	BLCA
C2CD3	0	.	GRCh37	11	73768464	73768464	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5077C>T	p.Gln1693Ter	p.Q1693*	ENST00000313663	25/31	73	45	27	89	89	0	C2CD3,stop_gained,p.Gln501Ter,ENST00000414160,;C2CD3,stop_gained,p.Gln1693Ter,ENST00000313663,;C2CD3,stop_gained,p.Gln1693Ter,ENST00000334126,;C2CD3,non_coding_transcript_exon_variant,,ENST00000542484,;C2CD3,stop_gained,p.Gln449Ter,ENST00000442398,;	A	ENSG00000168014	ENST00000313663	Transcript	stop_gained	5304	5077	1693	Q/*	Caa/Taa	.	.	.	-1	C2CD3	HGNC	24564	protein_coding	YES	CCDS31636.1	ENSP00000323339	C2CD3_HUMAN	.	UPI0000D62650	.	.	.	25/31	.	hmmpanther:PTHR21254,hmmpanther:PTHR21254:SF1,Pfam_domain:PF00168,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTGAAAAT	.	5	BLCA
XRRA1	0	.	GRCh37	11	74556274	74556274	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1747G>A	p.Glu583Lys	p.E583K	ENST00000340360	16/19	25	16	9	35	35	0	XRRA1,missense_variant,p.Glu308Lys,ENST00000321448,;XRRA1,missense_variant,p.Glu496Lys,ENST00000527087,;XRRA1,missense_variant,p.Glu583Lys,ENST00000340360,;RNF169,downstream_gene_variant,,ENST00000527301,;RNF169,downstream_gene_variant,,ENST00000299563,;RN7SL239P,upstream_gene_variant,,ENST00000490061,;XRRA1,downstream_gene_variant,,ENST00000530280,;XRRA1,missense_variant,p.Glu139Lys,ENST00000530562,;XRRA1,3_prime_UTR_variant,,ENST00000531449,;XRRA1,3_prime_UTR_variant,,ENST00000531849,;XRRA1,non_coding_transcript_exon_variant,,ENST00000431210,;	T	ENSG00000166435	ENST00000340360	Transcript	missense_variant	2079	1747	583	E/K	Gag/Aag	.	.	.	-1	XRRA1	HGNC	18868	protein_coding	YES	CCDS44680.1	ENSP00000339918	XRRA1_HUMAN	E9PJ58_HUMAN	UPI0001572CC6	.	tolerated(0.15)	benign(0.008)	16/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22710	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAACTCTAAAT	.	2	BLCA
TALDO1	0	.	GRCh37	11	763429	763429	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547G>A	p.Val183Met	p.V183M	ENST00000319006	5/8	104	75	29	146	146	0	TALDO1,missense_variant,p.Val183Met,ENST00000319006,;TALDO1,missense_variant,p.Val183Met,ENST00000528097,;PDDC1,downstream_gene_variant,,ENST00000526325,;PDDC1,downstream_gene_variant,,ENST00000397472,;PDDC1,downstream_gene_variant,,ENST00000528309,;PDDC1,downstream_gene_variant,,ENST00000465313,;PDDC1,downstream_gene_variant,,ENST00000526650,;PDDC1,downstream_gene_variant,,ENST00000319863,;TALDO1,upstream_gene_variant,,ENST00000532202,;TALDO1,3_prime_UTR_variant,,ENST00000530440,;TALDO1,3_prime_UTR_variant,,ENST00000528070,;TALDO1,upstream_gene_variant,,ENST00000530666,;PDDC1,downstream_gene_variant,,ENST00000354286,;TALDO1,downstream_gene_variant,,ENST00000530119,;TALDO1,downstream_gene_variant,,ENST00000533796,;	A	ENSG00000177156	ENST00000319006	Transcript	missense_variant	700	547	183	V/M	Gtg/Atg	.	.	.	1	TALDO1	HGNC	11559	protein_coding	YES	CCDS7712.1	ENSP00000321259	TALDO_HUMAN	Q9UMF8_HUMAN,B4DID5_HUMAN	UPI00001114B0	.	deleterious(0)	probably_damaging(0.998)	5/8	.	Superfamily_domains:SSF51569,Gene3D:3.20.20.70,Pfam_domain:PF00923,TIGRFAM_domain:TIGR00874,hmmpanther:PTHR10683,hmmpanther:PTHR10683:SF6,HAMAP:MF_00492	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGTGTGACC	.	5	BLCA
NLRP10	0	.	GRCh37	11	7981782	7981782	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1377G>A	p.%3D	p.K459K	ENST00000328600	2/2	106	78	28	116	116	0	NLRP10,synonymous_variant,p.%3D,ENST00000328600,;NLRP10,downstream_gene_variant,,ENST00000526590,;	T	ENSG00000182261	ENST00000328600	Transcript	synonymous_variant	1539	1377	459	K	aaG/aaA	.	.	.	-1	NLRP10	HGNC	21464	protein_coding	YES	CCDS7784.1	ENSP00000327763	NAL10_HUMAN	E9PPY0_HUMAN	UPI0000167F6C	.	.	.	2/2	.	hmmpanther:PTHR24106:SF103,hmmpanther:PTHR24106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCTTGAT	.	5	BLCA
PIDD	0	.	GRCh37	11	799982	799982	+	Silent	SNP	C	C	A	rs149669006	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2307G>T	p.%3D	p.G769G	ENST00000347755	15/16	22	18	4	32	32	0	PIDD,synonymous_variant,p.%3D,ENST00000347755,;PIDD,synonymous_variant,p.%3D,ENST00000411829,;SLC25A22,upstream_gene_variant,,ENST00000526152,;SLC25A22,upstream_gene_variant,,ENST00000533385,;SLC25A22,upstream_gene_variant,,ENST00000531214,;SLC25A22,upstream_gene_variant,,ENST00000527723,;SLC25A22,upstream_gene_variant,,ENST00000528936,;SLC25A22,upstream_gene_variant,,ENST00000320230,;SLC25A22,upstream_gene_variant,,ENST00000529066,;SLC25A22,upstream_gene_variant,,ENST00000530360,;SLC25A22,upstream_gene_variant,,ENST00000531437,;SLC25A22,upstream_gene_variant,,ENST00000481290,;SLC25A22,upstream_gene_variant,,ENST00000528606,;SLC25A22,upstream_gene_variant,,ENST00000531534,;SLC25A22,upstream_gene_variant,,ENST00000532484,;SLC25A22,upstream_gene_variant,,ENST00000531514,;SLC25A22,upstream_gene_variant,,ENST00000456706,;PIDD,intron_variant,,ENST00000527812,;PIDD,downstream_gene_variant,,ENST00000534649,;PIDD,downstream_gene_variant,,ENST00000528122,;PIDD,3_prime_UTR_variant,,ENST00000531286,;PIDD,3_prime_UTR_variant,,ENST00000525028,;PIDD,3_prime_UTR_variant,,ENST00000524486,;PIDD,non_coding_transcript_exon_variant,,ENST00000527357,;PIDD,non_coding_transcript_exon_variant,,ENST00000534525,;SLC25A22,upstream_gene_variant,,ENST00000532459,;SLC25A22,upstream_gene_variant,,ENST00000529351,;SLC25A22,upstream_gene_variant,,ENST00000527127,;SLC25A22,upstream_gene_variant,,ENST00000524891,;SLC25A22,upstream_gene_variant,,ENST00000532361,;SLC25A22,upstream_gene_variant,,ENST00000525010,;SLC25A22,upstream_gene_variant,,ENST00000527734,;SLC25A22,upstream_gene_variant,,ENST00000525644,;	A	ENSG00000177595	ENST00000347755	Transcript	synonymous_variant	2449	2307	769	G	ggG/ggT	rs149669006	.	.	-1	PIDD	HGNC	16491	protein_coding	YES	CCDS7716.1	ENSP00000337797	PIDD_HUMAN	.	UPI000045644A	.	.	.	15/16	.	.	G:0.0008	G:0	G:0.0014	.	G:0	G:0.003	G:0	G:0	G:0.0008	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAGCCCCCCG	byFrequency|byCluster|by1000G	4	BLCA
PIDD	0	.	GRCh37	11	804211	804211	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.178C>T	p.Gln60Ter	p.Q60*	ENST00000347755	2/16	24	17	7	40	40	0	PIDD,stop_gained,p.Gln60Ter,ENST00000347755,;PIDD,stop_gained,p.Gln60Ter,ENST00000411829,;PIDD,non_coding_transcript_exon_variant,,ENST00000534649,;PIDD,upstream_gene_variant,,ENST00000528122,;PIDD,upstream_gene_variant,,ENST00000527812,;PIDD,downstream_gene_variant,,ENST00000530911,;PIDD,stop_gained,p.Gln60Ter,ENST00000524486,;PIDD,stop_gained,p.Gln60Ter,ENST00000525028,;PIDD,non_coding_transcript_exon_variant,,ENST00000527357,;PIDD,non_coding_transcript_exon_variant,,ENST00000534525,;PIDD,upstream_gene_variant,,ENST00000531286,;	A	ENSG00000177595	ENST00000347755	Transcript	stop_gained	320	178	60	Q/*	Cag/Tag	.	.	.	-1	PIDD	HGNC	16491	protein_coding	YES	CCDS7716.1	ENSP00000337797	PIDD_HUMAN	.	UPI000045644A	.	.	.	2/16	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGCAGAG	.	5	BLCA
PCF11	0	.	GRCh37	11	82877515	82877515	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1576G>A	p.Ala526Thr	p.A526T	ENST00000298281	5/16	67	49	17	90	90	0	PCF11,missense_variant,p.Ala526Thr,ENST00000298281,;PCF11,missense_variant,p.Ala526Thr,ENST00000530660,;PCF11,missense_variant,p.Ala526Thr,ENST00000530304,;PCF11,upstream_gene_variant,,ENST00000530906,;PCF11,downstream_gene_variant,,ENST00000533018,;	A	ENSG00000165494	ENST00000298281	Transcript	missense_variant	2028	1576	526	A/T	Gct/Act	.	.	.	1	PCF11	HGNC	30097	protein_coding	YES	CCDS44689.1	ENSP00000298281	PCF11_HUMAN	E9PKN0_HUMAN	UPI00001BB2B7	.	tolerated(0.22)	benign(0.007)	5/16	.	hmmpanther:PTHR15921:SF3,hmmpanther:PTHR15921	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGCTAAG	.	5	BLCA
PCF11	0	.	GRCh37	11	82892982	82892982	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4254C>T	p.%3D	p.L1418L	ENST00000298281	13/16	16	10	6	22	22	0	PCF11,synonymous_variant,p.%3D,ENST00000298281,;PCF11,downstream_gene_variant,,ENST00000530906,;RP11-727A23.11,downstream_gene_variant,,ENST00000602322,;RP11-727A23.5,downstream_gene_variant,,ENST00000602381,;RP11-727A23.4,intron_variant,,ENST00000528133,;PCF11,non_coding_transcript_exon_variant,,ENST00000528336,;	T	ENSG00000165494	ENST00000298281	Transcript	synonymous_variant	4706	4254	1418	L	ctC/ctT	.	.	.	1	PCF11	HGNC	30097	protein_coding	YES	CCDS44689.1	ENSP00000298281	PCF11_HUMAN	E9PKN0_HUMAN	UPI00001BB2B7	.	.	.	13/16	.	hmmpanther:PTHR15921:SF3,hmmpanther:PTHR15921	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCAAAAC	.	5	BLCA
CCDC90B	0	.	GRCh37	11	82989774	82989774	+	Nonsense_Mutation	SNP	G	G	A	rs538799582	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319C>T	p.Gln107Ter	p.Q107*	ENST00000529689	3/9	66	53	12	94	94	0	CCDC90B,stop_gained,p.Gln107Ter,ENST00000529073,;CCDC90B,stop_gained,p.Gln6Ter,ENST00000525503,;CCDC90B,stop_gained,p.Gln107Ter,ENST00000529689,;CCDC90B,stop_gained,p.Gln98Ter,ENST00000455220,;CCDC90B,stop_gained,p.Gln6Ter,ENST00000529611,;CCDC90B,stop_gained,p.Gln34Ter,ENST00000527495,;CCDC90B,intron_variant,,ENST00000525916,;CCDC90B,stop_gained,p.Gln107Ter,ENST00000534753,;CCDC90B,stop_gained,p.Gln107Ter,ENST00000260054,;CCDC90B,3_prime_UTR_variant,,ENST00000527025,;CCDC90B,non_coding_transcript_exon_variant,,ENST00000526631,;CCDC90B,intron_variant,,ENST00000526265,;CCDC90B,intron_variant,,ENST00000529312,;CCDC90B,intron_variant,,ENST00000529856,;CCDC90B,intron_variant,,ENST00000529745,;CCDC90B,intron_variant,,ENST00000533761,;CCDC90B,intron_variant,,ENST00000528149,;CCDC90B,intron_variant,,ENST00000530253,;	A	ENSG00000137500	ENST00000529689	Transcript	stop_gained	754	319	107	Q/*	Caa/Taa	rs538799582	.	.	-1	CCDC90B	HGNC	28108	protein_coding	YES	CCDS8266.1	ENSP00000434724	CC90B_HUMAN	B3KP87_HUMAN	UPI0000037C9A	.	.	.	3/9	.	hmmpanther:PTHR14360,hmmpanther:PTHR14360:SF13,Pfam_domain:PF07798	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTGAGCTT	by1000G	5	BLCA
CD151	0	.	GRCh37	11	836799	836799	+	Silent	SNP	C	C	T	rs775816996	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307C>T	p.%3D	p.L103L	ENST00000397420	5/9	34	24	9	39	39	0	CD151,synonymous_variant,p.%3D,ENST00000528011,;CD151,synonymous_variant,p.%3D,ENST00000397420,;CD151,synonymous_variant,p.%3D,ENST00000322008,;CD151,synonymous_variant,p.%3D,ENST00000527341,;CD151,synonymous_variant,p.%3D,ENST00000524748,;CD151,synonymous_variant,p.%3D,ENST00000397421,;CD151,synonymous_variant,p.%3D,ENST00000530320,;CD151,synonymous_variant,p.%3D,ENST00000526693,;CD151,intron_variant,,ENST00000529810,;CD151,downstream_gene_variant,,ENST00000528867,;EFCAB4A,downstream_gene_variant,,ENST00000528542,;EFCAB4A,downstream_gene_variant,,ENST00000525077,;CD151,downstream_gene_variant,,ENST00000525718,;CD151,downstream_gene_variant,,ENST00000526439,;CD151,downstream_gene_variant,,ENST00000525333,;EFCAB4A,downstream_gene_variant,,ENST00000450448,;POLR2L,downstream_gene_variant,,ENST00000322028,;AP006621.8,upstream_gene_variant,,ENST00000532946,;CD151,upstream_gene_variant,,ENST00000525181,;CD151,synonymous_variant,p.%3D,ENST00000530726,;CD151,non_coding_transcript_exon_variant,,ENST00000532045,;CD151,non_coding_transcript_exon_variant,,ENST00000526661,;CD151,downstream_gene_variant,,ENST00000531999,;CD151,downstream_gene_variant,,ENST00000530155,;POLR2L,downstream_gene_variant,,ENST00000534030,;EFCAB4A,downstream_gene_variant,,ENST00000527763,;CD151,upstream_gene_variant,,ENST00000532075,;EFCAB4A,downstream_gene_variant,,ENST00000528694,;EFCAB4A,downstream_gene_variant,,ENST00000530688,;CD151,downstream_gene_variant,,ENST00000525868,;	T	ENSG00000177697	ENST00000397420	Transcript	synonymous_variant	556	307	103	L	Ctg/Ttg	rs775816996	.	.	1	CD151	HGNC	1630	protein_coding	YES	CCDS7719.1	ENSP00000380565	CD151_HUMAN	K4DIB7_HUMAN,E9PSA1_HUMAN,E9PP93_HUMAN,E9PLZ6_HUMAN,E9PK37_HUMAN,E9PJE8_HUMAN,E9PJC8_HUMAN	UPI00001507D8	.	.	.	5/9	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR19282,hmmpanther:PTHR19282:SF167,Pfam_domain:PF00335,PIRSF_domain:PIRSF002419,Prints_domain:PR00259	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTGCTGGAG	.	5	BLCA
DLG2	0	.	GRCh37	11	83874536	83874536	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592G>A	p.Glu198Lys	p.E198K	ENST00000376104	9/28	64	39	24	71	71	0	DLG2,missense_variant,p.Glu32Lys,ENST00000330014,;DLG2,missense_variant,p.Glu93Lys,ENST00000532653,;DLG2,missense_variant,p.Glu60Lys,ENST00000531015,;DLG2,missense_variant,p.Glu42Lys,ENST00000418306,;DLG2,missense_variant,p.Glu93Lys,ENST00000524982,;DLG2,missense_variant,p.Glu132Lys,ENST00000280241,;DLG2,missense_variant,p.Glu93Lys,ENST00000398309,;DLG2,missense_variant,p.Glu198Lys,ENST00000376104,;DLG2,missense_variant,p.Glu132Lys,ENST00000398301,;DLG2,missense_variant,p.Glu10Lys,ENST00000398299,;DLG2,missense_variant,p.Glu198Lys,ENST00000543673,;DLG2,5_prime_UTR_variant,,ENST00000537455,;DLG2,5_prime_UTR_variant,,ENST00000376106,;DLG2,non_coding_transcript_exon_variant,,ENST00000524941,;DLG2,non_coding_transcript_exon_variant,,ENST00000527466,;DLG2,3_prime_UTR_variant,,ENST00000529401,;DLG2,non_coding_transcript_exon_variant,,ENST00000529111,;	T	ENSG00000150672	ENST00000376104	Transcript	missense_variant	904	592	198	E/K	Gaa/Aaa	COSM172930	.	.	-1	DLG2	HGNC	2901	protein_coding	YES	CCDS44690.1	ENSP00000365272	DLG2_HUMAN	F8W750_HUMAN,E9PQT9_HUMAN	UPI0000E59399	.	tolerated(0.22)	probably_damaging(0.981)	9/28	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF50156,PIRSF_domain:PIRSF001741,Gene3D:2.30.42.10,Pfam_domain:PF10608,hmmpanther:PTHR23119:SF6,hmmpanther:PTHR23119	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTCAATTT	.	5	BLCA
SYTL2	0	.	GRCh37	11	85456705	85456705	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>A	p.Glu122Lys	p.E122K	ENST00000528231	3/18	80	55	24	97	97	0	SYTL2,missense_variant,p.Glu122Lys,ENST00000528231,;SYTL2,missense_variant,p.Glu122Lys,ENST00000389960,;SYTL2,missense_variant,p.Glu74Lys,ENST00000527523,;SYTL2,missense_variant,p.Glu122Lys,ENST00000524452,;SYTL2,missense_variant,p.Glu122Lys,ENST00000316356,;SYTL2,non_coding_transcript_exon_variant,,ENST00000438197,;	T	ENSG00000137501	ENST00000528231	Transcript	missense_variant	642	364	122	E/K	Gaa/Aaa	.	.	.	-1	SYTL2	HGNC	15585	protein_coding	.	CCDS53688.1	ENSP00000431701	SYTL2_HUMAN	Q9BQS1_HUMAN,E9PS39_HUMAN,E9PS29_HUMAN,E9PRW5_HUMAN,E9PK22_HUMAN	UPI0001AADE5A	.	deleterious(0.04)	benign(0.297)	3/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10024:SF10,hmmpanther:PTHR10024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCTTCTTCTG	.	3	BLCA
PICALM	0	.	GRCh37	11	85722085	85722085	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753C>T	p.%3D	p.L251L	ENST00000393346	7/20	26	18	7	41	41	0	PICALM,synonymous_variant,p.%3D,ENST00000532317,;PICALM,synonymous_variant,p.%3D,ENST00000393346,;PICALM,synonymous_variant,p.%3D,ENST00000356360,;PICALM,synonymous_variant,p.%3D,ENST00000528398,;PICALM,synonymous_variant,p.%3D,ENST00000526033,;PICALM,downstream_gene_variant,,ENST00000525162,;PICALM,downstream_gene_variant,,ENST00000528256,;PICALM,downstream_gene_variant,,ENST00000531930,;PICALM,3_prime_UTR_variant,,ENST00000534412,;PICALM,non_coding_transcript_exon_variant,,ENST00000531771,;PICALM,downstream_gene_variant,,ENST00000531558,;PICALM,downstream_gene_variant,,ENST00000532041,;	A	ENSG00000073921	ENST00000393346	Transcript	synonymous_variant	902	753	251	L	ctC/ctT	.	.	.	-1	PICALM	HGNC	15514	protein_coding	YES	CCDS8272.1	ENSP00000377015	PICAL_HUMAN	E9PLJ8_HUMAN,E9PKP6_HUMAN,E9PI56_HUMAN	UPI00001AE879	.	.	.	7/20	.	hmmpanther:PTHR22951:SF16,hmmpanther:PTHR22951,Pfam_domain:PF07651,Gene3D:1hf8A02,Superfamily_domains:SSF89009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTTTGAGGAA	.	3	BLCA
PICALM	0	.	GRCh37	11	85722097	85722097	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.741C>T	p.%3D	p.I247I	ENST00000393346	7/20	33	21	11	49	49	0	PICALM,synonymous_variant,p.%3D,ENST00000532317,;PICALM,synonymous_variant,p.%3D,ENST00000393346,;PICALM,synonymous_variant,p.%3D,ENST00000356360,;PICALM,synonymous_variant,p.%3D,ENST00000528398,;PICALM,synonymous_variant,p.%3D,ENST00000526033,;PICALM,downstream_gene_variant,,ENST00000525162,;PICALM,downstream_gene_variant,,ENST00000528256,;PICALM,downstream_gene_variant,,ENST00000531930,;PICALM,3_prime_UTR_variant,,ENST00000534412,;PICALM,non_coding_transcript_exon_variant,,ENST00000531771,;PICALM,downstream_gene_variant,,ENST00000531558,;PICALM,downstream_gene_variant,,ENST00000532041,;	A	ENSG00000073921	ENST00000393346	Transcript	synonymous_variant	890	741	247	I	atC/atT	.	.	.	-1	PICALM	HGNC	15514	protein_coding	YES	CCDS8272.1	ENSP00000377015	PICAL_HUMAN	E9PLJ8_HUMAN,E9PKP6_HUMAN,E9PI56_HUMAN	UPI00001AE879	.	.	.	7/20	.	hmmpanther:PTHR22951:SF16,hmmpanther:PTHR22951,Pfam_domain:PF07651,Gene3D:1hf8A02,Superfamily_domains:SSF89009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTGAGATTCT	.	3	BLCA
EED	0	.	GRCh37	11	85956265	85956265	+	5'UTR	SNP	G	G	A	rs778900242	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7G>A	.	.	ENST00000263360	1/12	26	21	5	36	36	0	EED,5_prime_UTR_variant,,ENST00000263360,;EED,5_prime_UTR_variant,,ENST00000327320,;EED,5_prime_UTR_variant,,ENST00000351625,;EED,5_prime_UTR_variant,,ENST00000528180,;EED,upstream_gene_variant,,ENST00000534595,;EED,upstream_gene_variant,,ENST00000525244,;	A	ENSG00000074266	ENST00000263360	Transcript	5_prime_UTR_variant	680	.	.	.	.	rs778900242	.	.	1	EED	HGNC	3188	protein_coding	YES	CCDS8273.1	ENSP00000263360	EED_HUMAN	E9PMU3_HUMAN	UPI00000E88CF	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCGGAGGAA	byFrequency	5	BLCA
C11orf73	0	.	GRCh37	11	86048553	86048553	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401C>T	p.Ser134Leu	p.S134L	ENST00000278483	3/5	112	75	37	122	122	0	C11orf73,missense_variant,p.Ser134Leu,ENST00000278483,;C11orf73,missense_variant,p.Ser134Leu,ENST00000533986,;C11orf73,non_coding_transcript_exon_variant,,ENST00000530208,;C11orf73,non_coding_transcript_exon_variant,,ENST00000531485,;C11orf73,downstream_gene_variant,,ENST00000532270,;C11orf73,3_prime_UTR_variant,,ENST00000528004,;	T	ENSG00000149196	ENST00000278483	Transcript	missense_variant	627	401	134	S/L	tCa/tTa	COSM1298715	.	.	1	C11orf73	HGNC	26938	protein_coding	YES	CCDS8275.1	ENSP00000278483	HIKES_HUMAN	.	UPI000006CF46	.	deleterious(0.03)	benign(0.122)	3/5	.	hmmpanther:PTHR12925:SF0,hmmpanther:PTHR12925,Pfam_domain:PF05603	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCAGTTG	.	5	BLCA
CCDC81	0	.	GRCh37	11	86106410	86106410	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.590G>A	p.Arg197Lys	p.R197K	ENST00000445632	5/15	31	21	10	60	60	0	CCDC81,missense_variant,p.Arg59Lys,ENST00000531271,;CCDC81,missense_variant,p.Arg197Lys,ENST00000445632,;CCDC81,missense_variant,p.Arg107Lys,ENST00000354755,;CCDC81,5_prime_UTR_variant,,ENST00000528728,;CCDC81,5_prime_UTR_variant,,ENST00000278487,;CCDC81,non_coding_transcript_exon_variant,,ENST00000530845,;CCDC81,non_coding_transcript_exon_variant,,ENST00000529603,;CCDC81,non_coding_transcript_exon_variant,,ENST00000532215,;CCDC81,non_coding_transcript_exon_variant,,ENST00000532466,;	A	ENSG00000149201	ENST00000445632	Transcript	missense_variant	862	590	197	R/K	aGa/aAa	.	.	.	1	CCDC81	HGNC	26281	protein_coding	YES	CCDS53691.1	ENSP00000415528	CCD81_HUMAN	B4DQN0_HUMAN	UPI0000E5BE97	.	tolerated(0.19)	benign(0.267)	5/15	.	hmmpanther:PTHR14362,hmmpanther:PTHR14362:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCAGAGAGG	.	5	BLCA
RPL27A	0	.	GRCh37	11	8705854	8705854	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.143+226C>T	.	.	ENST00000314138	.	120	85	34	140	140	0	RPL27A,5_prime_UTR_variant,,ENST00000530913,;RPL27A,intron_variant,,ENST00000525981,;RPL27A,intron_variant,,ENST00000314138,;RPL27A,intron_variant,,ENST00000526562,;RPL27A,intron_variant,,ENST00000531978,;RPL27A,intron_variant,,ENST00000524496,;RPL27A,intron_variant,,ENST00000530022,;RPL27A,intron_variant,,ENST00000532359,;SNORA3,non_coding_transcript_exon_variant,,ENST00000364113,;SNORA45,upstream_gene_variant,,ENST00000391305,;RP11-152H18.4,downstream_gene_variant,,ENST00000534169,;RPL27A,upstream_gene_variant,,ENST00000531102,;RPL27A,non_coding_transcript_exon_variant,,ENST00000530585,;RPL27A,intron_variant,,ENST00000534599,;RPL27A,downstream_gene_variant,,ENST00000529227,;	T	ENSG00000166441	ENST00000314138	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RPL27A	HGNC	10329	protein_coding	YES	CCDS7790.1	ENSP00000346015	RL27A_HUMAN	Q9BQQ5_HUMAN,E9PJD9_HUMAN	UPI0000161BF5	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATTCACTGG	.	5	BLCA
CHORDC1	0	.	GRCh37	11	89935658	89935658	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.914G>A	p.Arg305Lys	p.R305K	ENST00000320585	11/11	62	40	22	67	67	0	CHORDC1,missense_variant,p.Arg286Lys,ENST00000457199,;CHORDC1,missense_variant,p.Arg117Lys,ENST00000529726,;CHORDC1,missense_variant,p.Arg117Lys,ENST00000529987,;CHORDC1,missense_variant,p.Arg305Lys,ENST00000320585,;CHORDC1,3_prime_UTR_variant,,ENST00000525317,;CHORDC1,non_coding_transcript_exon_variant,,ENST00000533724,;	T	ENSG00000110172	ENST00000320585	Transcript	missense_variant	1324	914	305	R/K	aGa/aAa	.	.	.	-1	CHORDC1	HGNC	14525	protein_coding	YES	CCDS8289.1	ENSP00000319255	CHRD1_HUMAN	E9PHZ2_HUMAN	UPI000013F1A2	.	tolerated(0.78)	benign(0.006)	11/11	.	PROSITE_profiles:PS51203,hmmpanther:PTHR12621:SF9,hmmpanther:PTHR12621,Pfam_domain:PF04969,Gene3D:2.60.40.790,Superfamily_domains:SSF49764	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCTCATA	.	5	BLCA
NRIP3	0	.	GRCh37	11	9005035	9005035	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*57G>A	.	.	ENST00000309166	7/7	17	13	4	39	39	0	NRIP3,3_prime_UTR_variant,,ENST00000309166,;NRIP3,intron_variant,,ENST00000534759,;NRIP3,downstream_gene_variant,,ENST00000531090,;NRIP3,downstream_gene_variant,,ENST00000531142,;NRIP3,downstream_gene_variant,,ENST00000525100,;	T	ENSG00000175352	ENST00000309166	Transcript	3_prime_UTR_variant	897	.	.	.	.	.	.	.	-1	NRIP3	HGNC	1167	protein_coding	YES	CCDS31422.1	ENSP00000310205	NRIP3_HUMAN	B7Z3Y4_HUMAN	UPI000004B7A9	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTATCT	.	5	BLCA
FAT3	0	.	GRCh37	11	92533191	92533191	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7012C>T	p.His2338Tyr	p.H2338Y	ENST00000298047	9/27	49	33	16	59	59	0	FAT3,missense_variant,p.His2338Tyr,ENST00000298047,;FAT3,missense_variant,p.His2338Tyr,ENST00000409404,;FAT3,missense_variant,p.His2188Tyr,ENST00000525166,;	T	ENSG00000165323	ENST00000298047	Transcript	missense_variant	7029	7012	2338	H/Y	Cac/Tac	.	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	probably_damaging(0.988)	9/27	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCACATA	.	5	BLCA
KIAA1731	0	.	GRCh37	11	93465617	93465617	+	3'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000325212	.	39	25	14	50	50	0	KIAA1731,downstream_gene_variant,,ENST00000531404,;KIAA1731,downstream_gene_variant,,ENST00000344196,;KIAA1731,downstream_gene_variant,,ENST00000325212,;KIAA1731,downstream_gene_variant,,ENST00000411936,;KIAA1731,downstream_gene_variant,,ENST00000531700,;TAF1D,downstream_gene_variant,,ENST00000448108,;SNORA8,non_coding_transcript_exon_variant,,ENST00000384574,;SNORA1,upstream_gene_variant,,ENST00000384107,;MIR1304,downstream_gene_variant,,ENST00000408243,;SNORD5,downstream_gene_variant,,ENST00000459342,;SNORA32,upstream_gene_variant,,ENST00000384072,;SNORA40,downstream_gene_variant,,ENST00000388090,;SNORD6,upstream_gene_variant,,ENST00000365444,;SNORA18,downstream_gene_variant,,ENST00000384416,;SNORA25,upstream_gene_variant,,ENST00000384384,;TAF1D,intron_variant,,ENST00000546088,;TAF1D,intron_variant,,ENST00000530089,;TAF1D,downstream_gene_variant,,ENST00000532235,;TAF1D,non_coding_transcript_exon_variant,,ENST00000530769,;TAF1D,non_coding_transcript_exon_variant,,ENST00000534079,;TAF1D,intron_variant,,ENST00000540232,;TAF1D,intron_variant,,ENST00000393259,;TAF1D,intron_variant,,ENST00000526015,;TAF1D,intron_variant,,ENST00000323981,;TAF1D,intron_variant,,ENST00000529435,;TAF1D,intron_variant,,ENST00000527169,;TAF1D,intron_variant,,ENST00000525928,;TAF1D,downstream_gene_variant,,ENST00000533794,;TAF1D,downstream_gene_variant,,ENST00000528734,;TAF1D,downstream_gene_variant,,ENST00000527068,;TAF1D,downstream_gene_variant,,ENST00000534770,;TAF1D,downstream_gene_variant,,ENST00000529794,;TAF1D,upstream_gene_variant,,ENST00000529900,;	A	ENSG00000166004	ENST00000325212	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	2095	1	KIAA1731	HGNC	29366	protein_coding	YES	CCDS44708.1	ENSP00000316681	K1731_HUMAN	E9PM20_HUMAN	UPI0000251F0E	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTGAACAC	.	5	BLCA
TAF1D	0	.	GRCh37	11	93471396	93471396	+	Missense_Mutation	SNP	C	C	T	rs781293988	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338G>A	p.Arg113Lys	p.R113K	ENST00000448108	3/6	110	68	42	139	139	0	TAF1D,missense_variant,p.Arg113Lys,ENST00000448108,;TAF1D,3_prime_UTR_variant,,ENST00000532455,;C11orf54,upstream_gene_variant,,ENST00000530620,;C11orf54,upstream_gene_variant,,ENST00000528099,;C11orf54,upstream_gene_variant,,ENST00000533585,;C11orf54,upstream_gene_variant,,ENST00000530279,;C11orf54,upstream_gene_variant,,ENST00000331239,;TAF1D,downstream_gene_variant,,ENST00000527690,;C11orf54,upstream_gene_variant,,ENST00000527003,;C11orf54,upstream_gene_variant,,ENST00000531650,;C11orf54,upstream_gene_variant,,ENST00000540113,;C11orf54,upstream_gene_variant,,ENST00000528288,;C11orf54,upstream_gene_variant,,ENST00000354421,;SNORD5,upstream_gene_variant,,ENST00000459342,;SNORA40,upstream_gene_variant,,ENST00000388090,;SNORA18,upstream_gene_variant,,ENST00000384416,;MIR1304,upstream_gene_variant,,ENST00000408243,;TAF1D,intron_variant,,ENST00000532235,;TAF1D,upstream_gene_variant,,ENST00000530089,;TAF1D,upstream_gene_variant,,ENST00000546088,;C11orf54,upstream_gene_variant,,ENST00000531516,;TAF1D,missense_variant,p.Arg113Lys,ENST00000323981,;TAF1D,missense_variant,p.Arg113Lys,ENST00000527169,;TAF1D,missense_variant,p.Arg113Lys,ENST00000526015,;TAF1D,3_prime_UTR_variant,,ENST00000534770,;TAF1D,non_coding_transcript_exon_variant,,ENST00000527068,;TAF1D,upstream_gene_variant,,ENST00000533794,;TAF1D,upstream_gene_variant,,ENST00000528734,;TAF1D,upstream_gene_variant,,ENST00000540232,;TAF1D,upstream_gene_variant,,ENST00000529794,;TAF1D,upstream_gene_variant,,ENST00000529435,;TAF1D,downstream_gene_variant,,ENST00000529508,;TAF1D,upstream_gene_variant,,ENST00000393259,;TAF1D,upstream_gene_variant,,ENST00000530769,;TAF1D,upstream_gene_variant,,ENST00000525928,;	T	ENSG00000166012	ENST00000448108	Transcript	missense_variant	989	338	113	R/K	aGa/aAa	rs781293988	.	.	-1	TAF1D	HGNC	28759	protein_coding	YES	CCDS8293.1	ENSP00000410409	TAF1D_HUMAN	H0YG36_HUMAN	UPI000006D0AF	.	tolerated(0.64)	benign(0.01)	3/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14562,Pfam_domain:PF15333	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCTCCTT	.	5	BLCA
IPO7	0	.	GRCh37	11	9438653	9438653	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684G>T	p.Trp228Cys	p.W228C	ENST00000379719	6/25	123	90	33	166	166	0	IPO7,missense_variant,p.Trp228Cys,ENST00000379719,;IPO7,downstream_gene_variant,,ENST00000527431,;IPO7,upstream_gene_variant,,ENST00000531235,;IPO7,downstream_gene_variant,,ENST00000528833,;	T	ENSG00000205339	ENST00000379719	Transcript	missense_variant	826	684	228	W/C	tgG/tgT	.	.	.	1	IPO7	HGNC	9852	protein_coding	YES	CCDS31425.1	ENSP00000369042	IPO7_HUMAN	E9PLB2_HUMAN,B3KQG6_HUMAN,B3KNG9_HUMAN	UPI0000072C06	.	deleterious(0)	probably_damaging(1)	6/25	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,Pfam_domain:PF08506,hmmpanther:PTHR10997,hmmpanther:PTHR10997:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATGGATAGA	.	5	BLCA
WEE1	0	.	GRCh37	11	9597468	9597468	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.610A>G	p.Ser204Gly	p.S204G	ENST00000450114	2/11	77	52	25	71	71	0	WEE1,missense_variant,p.Ser204Gly,ENST00000450114,;WEE1,5_prime_UTR_variant,,ENST00000299613,;WEE1,upstream_gene_variant,,ENST00000524612,;snoU13,upstream_gene_variant,,ENST00000458785,;RN7SL56P,upstream_gene_variant,,ENST00000470034,;WEE1,non_coding_transcript_exon_variant,,ENST00000524549,;	G	ENSG00000166483	ENST00000450114	Transcript	missense_variant	863	610	204	S/G	Agc/Ggc	.	.	.	1	WEE1	HGNC	12761	protein_coding	YES	CCDS7800.1	ENSP00000402084	WEE1_HUMAN	E9PRU3_HUMAN	UPI0000138EF4	.	tolerated(0.26)	benign(0.002)	2/11	.	hmmpanther:PTHR11042:SF72,hmmpanther:PTHR11042,PIRSF_domain:PIRSF037281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCCAGCTCT	.	5	BLCA
SWAP70	0	.	GRCh37	11	9715729	9715729	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136C>T	p.Pro46Ser	p.P46S	ENST00000318950	2/12	110	66	44	150	150	0	SWAP70,missense_variant,p.Pro46Ser,ENST00000447399,;SWAP70,missense_variant,p.Pro46Ser,ENST00000318950,;SWAP70,missense_variant,p.Pro46Ser,ENST00000526358,;SWAP70,non_coding_transcript_exon_variant,,ENST00000531814,;SWAP70,non_coding_transcript_exon_variant,,ENST00000524817,;	T	ENSG00000133789	ENST00000318950	Transcript	missense_variant	239	136	46	P/S	Cct/Tct	.	.	.	1	SWAP70	HGNC	17070	protein_coding	YES	CCDS31426.1	ENSP00000315630	SWP70_HUMAN	E9PJM7_HUMAN	UPI0000073652	.	deleterious(0.04)	probably_damaging(1)	2/12	.	Superfamily_domains:SSF47473,hmmpanther:PTHR14383,hmmpanther:PTHR14383:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCCTCAT	.	5	BLCA
UHRF1BP1L	0	.	GRCh37	12	100478344	100478344	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>A	p.Val400Ile	p.V400I	ENST00000279907	10/21	79	47	32	92	92	0	UHRF1BP1L,missense_variant,p.Val50Ile,ENST00000551973,;UHRF1BP1L,missense_variant,p.Val50Ile,ENST00000551980,;UHRF1BP1L,missense_variant,p.Val50Ile,ENST00000545232,;UHRF1BP1L,missense_variant,p.Val400Ile,ENST00000279907,;UHRF1BP1L,missense_variant,p.Val400Ile,ENST00000356828,;UHRF1BP1L,intron_variant,,ENST00000550544,;UHRF1BP1L,intron_variant,,ENST00000548045,;	T	ENSG00000111647	ENST00000279907	Transcript	missense_variant	1411	1198	400	V/I	Gtt/Att	.	.	.	-1	UHRF1BP1L	HGNC	29102	protein_coding	YES	CCDS31882.1	ENSP00000279907	UH1BL_HUMAN	F8W665_HUMAN,F8VWX2_HUMAN	UPI0000160563	.	tolerated(0.25)	benign(0.211)	10/21	.	hmmpanther:PTHR22774:SF13,hmmpanther:PTHR22774	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAACGTTGC	.	5	BLCA
WNK1	0	.	GRCh37	12	1005690	1005690	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6037G>A	p.Asp2013Asn	p.D2013N	ENST00000315939	24/28	66	42	23	75	75	0	WNK1,missense_variant,p.Asp2013Asn,ENST00000315939,;WNK1,missense_variant,p.Asp1765Asn,ENST00000535572,;WNK1,missense_variant,p.Asp1606Asn,ENST00000340908,;WNK1,missense_variant,p.Asp2511Asn,ENST00000530271,;WNK1,missense_variant,p.Asp2273Asn,ENST00000537687,;WNK1,upstream_gene_variant,,ENST00000544559,;WNK1,upstream_gene_variant,,ENST00000543065,;WNK1,upstream_gene_variant,,ENST00000542424,;WNK1,upstream_gene_variant,,ENST00000537603,;	A	ENSG00000060237	ENST00000315939	Transcript	missense_variant	6680	6037	2013	D/N	Gac/Aac	.	.	.	1	WNK1	HGNC	14540	protein_coding	YES	CCDS8506.1	ENSP00000313059	WNK1_HUMAN	Q96CZ6_HUMAN	UPI000013CD65	.	deleterious(0)	probably_damaging(0.926)	24/28	.	hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGACCCG	.	5	BLCA
ANO4	0	.	GRCh37	12	101472986	101472986	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1223A>G	p.Glu408Gly	p.E408G	ENST00000392979	14/27	87	52	35	116	116	0	ANO4,missense_variant,p.Glu10Gly,ENST00000550015,;ANO4,missense_variant,p.Glu10Gly,ENST00000299222,;ANO4,missense_variant,p.Glu443Gly,ENST00000392977,;ANO4,missense_variant,p.Glu408Gly,ENST00000392979,;ANO4,intron_variant,,ENST00000548940,;	G	ENSG00000151572	ENST00000392979	Transcript	missense_variant	1584	1223	408	E/G	gAg/gGg	.	.	.	1	ANO4	HGNC	23837	protein_coding	YES	CCDS31884.1	ENSP00000376705	ANO4_HUMAN	.	UPI0000198E2E	.	deleterious(0.01)	possibly_damaging(0.69)	14/27	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF28,Pfam_domain:PF04547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGAGTTTT	.	5	BLCA
ANO4	0	.	GRCh37	12	101514311	101514311	+	Missense_Mutation	SNP	C	C	T	rs774274653	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2479C>T	p.Arg827Cys	p.R827C	ENST00000392979	25/27	58	36	21	57	57	0	ANO4,missense_variant,p.Arg382Cys,ENST00000550015,;ANO4,missense_variant,p.Arg382Cys,ENST00000299222,;ANO4,missense_variant,p.Arg862Cys,ENST00000392977,;ANO4,missense_variant,p.Arg827Cys,ENST00000392979,;	T	ENSG00000151572	ENST00000392979	Transcript	missense_variant	2840	2479	827	R/C	Cgt/Tgt	rs774274653	.	.	1	ANO4	HGNC	23837	protein_coding	YES	CCDS31884.1	ENSP00000376705	ANO4_HUMAN	.	UPI0000198E2E	.	deleterious(0)	probably_damaging(1)	25/27	.	hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF28,Pfam_domain:PF04547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTACCGTGAC	byFrequency	5	BLCA
OLR1	0	.	GRCh37	12	10324631	10324631	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46G>A	p.Asp16Asn	p.D16N	ENST00000309539	1/6	40	32	8	45	45	0	OLR1,missense_variant,p.Asp16Asn,ENST00000432556,;OLR1,missense_variant,p.Asp16Asn,ENST00000544577,;OLR1,missense_variant,p.Asp16Asn,ENST00000545927,;OLR1,missense_variant,p.Asp16Asn,ENST00000309539,;TMEM52B,intron_variant,,ENST00000381923,;OLR1,upstream_gene_variant,,ENST00000538873,;OLR1,upstream_gene_variant,,ENST00000538745,;OLR1,upstream_gene_variant,,ENST00000543993,;OLR1,upstream_gene_variant,,ENST00000539518,;OLR1,upstream_gene_variant,,ENST00000543414,;OLR1,upstream_gene_variant,,ENST00000339968,;TMEM52B,intron_variant,,ENST00000334148,;TMEM52B,intron_variant,,ENST00000545924,;	T	ENSG00000173391	ENST00000309539	Transcript	missense_variant	107	46	16	D/N	Gat/Aat	.	.	.	-1	OLR1	HGNC	8133	protein_coding	YES	CCDS8618.1	ENSP00000309124	OLR1_HUMAN	J3QTI8_HUMAN,F5H7N8_HUMAN,F5H3G7_HUMAN,F5H0N6_HUMAN,F5H001_HUMAN	UPI000004A917	.	deleterious(0.03)	possibly_damaging(0.798)	1/6	.	hmmpanther:PTHR22800,hmmpanther:PTHR22800:SF146	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCAGGCT	.	5	BLCA
HSP90B1	0	.	GRCh37	12	104326612	104326612	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.303G>A	p.%3D	p.L101L	ENST00000299767	4/18	87	61	25	81	81	0	HSP90B1,synonymous_variant,p.%3D,ENST00000299767,;HSP90B1,synonymous_variant,p.%3D,ENST00000549334,;MIR3652,downstream_gene_variant,,ENST00000579335,;RP11-642P15.1,upstream_gene_variant,,ENST00000548897,;RP11-642P15.1,upstream_gene_variant,,ENST00000388789,;HSP90B1,3_prime_UTR_variant,,ENST00000540297,;HSP90B1,non_coding_transcript_exon_variant,,ENST00000548462,;HSP90B1,downstream_gene_variant,,ENST00000548622,;	A	ENSG00000166598	ENST00000299767	Transcript	synonymous_variant	485	303	101	L	ctG/ctA	.	.	.	1	HSP90B1	HGNC	12028	protein_coding	YES	CCDS9094.1	ENSP00000299767	ENPL_HUMAN	Q5CAQ5_HUMAN,F8W026_HUMAN,B4DHT9_HUMAN	UPI0000129FBA	.	.	.	4/18	.	HAMAP:MF_00505,hmmpanther:PTHR11528,hmmpanther:PTHR11528:SF44,PROSITE_patterns:PS00298,Gene3D:3.30.565.10,Pfam_domain:PF13589,PIRSF_domain:PIRSF002583,SMART_domains:SM00387,Superfamily_domains:SSF55874,Prints_domain:PR00775	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E103*|c.307G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTGAGAGA	.	5	BLCA
HCFC2	0	.	GRCh37	12	104487278	104487278	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1399T>A	p.Ser467Thr	p.S467T	ENST00000229330	10/15	71	55	16	90	90	0	HCFC2,missense_variant,p.Ser467Thr,ENST00000229330,;HCFC2,non_coding_transcript_exon_variant,,ENST00000550335,;HCFC2,3_prime_UTR_variant,,ENST00000544223,;HCFC2,upstream_gene_variant,,ENST00000552343,;	A	ENSG00000111727	ENST00000229330	Transcript	missense_variant	1503	1399	467	S/T	Tct/Act	COSM3810834	.	.	1	HCFC2	HGNC	24972	protein_coding	YES	CCDS9097.1	ENSP00000229330	HCFC2_HUMAN	F8VU09_HUMAN	UPI000006CF31	.	tolerated(0.13)	benign(0.02)	10/15	.	hmmpanther:PTHR23244:SF288,hmmpanther:PTHR23244,SMART_domains:SM00060	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCATCTTTG	.	5	BLCA
SLC41A2	0	.	GRCh37	12	105238299	105238299	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1487C>T	p.Ser496Phe	p.S496F	ENST00000258538	9/10	88	66	22	101	101	0	SLC41A2,missense_variant,p.Ser496Phe,ENST00000258538,;	A	ENSG00000136052	ENST00000258538	Transcript	missense_variant	1615	1487	496	S/F	tCt/tTt	.	.	.	-1	SLC41A2	HGNC	31045	protein_coding	YES	CCDS9100.2	ENSP00000258538	S41A2_HUMAN	C9JYJ7_HUMAN,C9JKF2_HUMAN,C9JIL4_HUMAN,C9JDQ2_HUMAN,C9JCR2_HUMAN,C9JA64_HUMAN	UPI00001FB431	.	deleterious(0.02)	possibly_damaging(0.702)	9/10	.	hmmpanther:PTHR16228,hmmpanther:PTHR16228:SF25,Gene3D:2zy9B03,Pfam_domain:PF01769,Superfamily_domains:0054748	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAAAGAAGTA	.	5	BLCA
MVK	0	.	GRCh37	12	110032979	110032979	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1032C>T	p.%3D	p.L344L	ENST00000228510	10/11	40	30	10	65	65	0	MVK,synonymous_variant,p.%3D,ENST00000539696,;MVK,synonymous_variant,p.%3D,ENST00000392727,;MVK,synonymous_variant,p.%3D,ENST00000228510,;MVK,synonymous_variant,p.%3D,ENST00000539575,;MVK,synonymous_variant,p.%3D,ENST00000541384,;MVK,3_prime_UTR_variant,,ENST00000537237,;MVK,3_prime_UTR_variant,,ENST00000447878,;MVK,non_coding_transcript_exon_variant,,ENST00000540353,;	T	ENSG00000110921	ENST00000228510	Transcript	synonymous_variant	1108	1032	344	L	ctC/ctT	.	.	.	1	MVK	HGNC	7530	protein_coding	YES	CCDS9132.1	ENSP00000228510	KIME_HUMAN	F5H092_HUMAN,F5GXC0_HUMAN,B7Z1C2_HUMAN,B2RDU6_HUMAN	UPI000012DE5B	.	.	.	10/11	.	hmmpanther:PTHR10457:SF4,hmmpanther:PTHR10457,Pfam_domain:PF08544,Gene3D:3.30.70.890,Superfamily_domains:SSF55060,Prints_domain:PR00959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAAGCC	.	5	BLCA
ATP2A2	0	.	GRCh37	12	110783062	110783062	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2616C>T	p.%3D	p.F872F	ENST00000539276	18/20	103	71	32	159	159	0	ATP2A2,synonymous_variant,p.%3D,ENST00000395494,;ATP2A2,synonymous_variant,p.%3D,ENST00000548169,;ATP2A2,synonymous_variant,p.%3D,ENST00000308664,;ATP2A2,synonymous_variant,p.%3D,ENST00000539276,;ATP2A2,upstream_gene_variant,,ENST00000553144,;ATP2A2,3_prime_UTR_variant,,ENST00000377685,;ATP2A2,upstream_gene_variant,,ENST00000313432,;ATP2A2,downstream_gene_variant,,ENST00000547792,;	T	ENSG00000174437	ENST00000539276	Transcript	synonymous_variant	2725	2616	872	F	ttC/ttT	.	.	.	1	ATP2A2	HGNC	812	protein_coding	YES	CCDS9144.1	ENSP00000440045	AT2A2_HUMAN	.	UPI0000001C3A	.	.	.	18/20	.	hmmpanther:PTHR24093:SF234,hmmpanther:PTHR24093,Pfam_domain:PF00689,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCCTACA	.	5	BLCA
ATP2A2	0	.	GRCh37	12	110783848	110783848	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2784G>A	p.%3D	p.E928E	ENST00000539276	19/20	77	51	25	82	82	0	ATP2A2,synonymous_variant,p.%3D,ENST00000395494,;ATP2A2,synonymous_variant,p.%3D,ENST00000548169,;ATP2A2,synonymous_variant,p.%3D,ENST00000308664,;ATP2A2,synonymous_variant,p.%3D,ENST00000539276,;ATP2A2,upstream_gene_variant,,ENST00000553144,;ATP2A2,3_prime_UTR_variant,,ENST00000377685,;ATP2A2,non_coding_transcript_exon_variant,,ENST00000313432,;ATP2A2,downstream_gene_variant,,ENST00000547792,;	A	ENSG00000174437	ENST00000539276	Transcript	synonymous_variant	2893	2784	928	E	gaG/gaA	.	.	.	1	ATP2A2	HGNC	812	protein_coding	YES	CCDS9144.1	ENSP00000440045	AT2A2_HUMAN	.	UPI0000001C3A	.	.	.	19/20	.	hmmpanther:PTHR24093:SF234,hmmpanther:PTHR24093,Pfam_domain:PF00689,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGAGAACAT	.	5	BLCA
TAS2R31	0	.	GRCh37	12	11183117	11183117	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.818C>T	p.Ser273Leu	p.S273L	ENST00000390675	1/1	129	124	5	234	233	1	TAS2R31,missense_variant,p.Ser273Leu,ENST00000390675,;AC018630.1,upstream_gene_variant,,ENST00000601123,;PRR4,intron_variant,,ENST00000539853,;PRR4,intron_variant,,ENST00000541977,;PRR4,intron_variant,,ENST00000535024,;TAS2R14,intron_variant,,ENST00000381852,;PRR4,intron_variant,,ENST00000536668,;PRR4,intron_variant,,ENST00000536086,;PRR4,intron_variant,,ENST00000534923,;PRR4,intron_variant,,ENST00000541456,;	A	ENSG00000256436	ENST00000390675	Transcript	missense_variant	890	818	273	S/L	tCa/tTa	.	.	.	-1	TAS2R31	HGNC	19113	protein_coding	YES	CCDS53747.1	ENSP00000375093	T2R31_HUMAN	.	UPI000000D820	.	tolerated(0.13)	possibly_damaging(0.539)	1/1	.	hmmpanther:PTHR11394:SF54,hmmpanther:PTHR11394,Gene3D:1.20.1070.10,Pfam_domain:PF05296,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGATTGAAGGA	.	2	BLCA
BRAP	0	.	GRCh37	12	112119478	112119478	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406G>A	p.Glu136Lys	p.E136K	ENST00000419234	3/12	68	48	20	78	78	0	BRAP,missense_variant,p.Glu136Lys,ENST00000419234,;BRAP,missense_variant,p.Glu106Lys,ENST00000327551,;BRAP,5_prime_UTR_variant,,ENST00000539060,;ACAD10,upstream_gene_variant,,ENST00000392636,;ACAD10,upstream_gene_variant,,ENST00000549590,;ACAD10,upstream_gene_variant,,ENST00000515283,;ACAD10,upstream_gene_variant,,ENST00000313698,;ACAD10,upstream_gene_variant,,ENST00000514615,;ACAD10,upstream_gene_variant,,ENST00000455480,;ACAD10,upstream_gene_variant,,ENST00000552965,;ACAD10,upstream_gene_variant,,ENST00000413681,;ACAD10,upstream_gene_variant,,ENST00000509936,;ACAD10,upstream_gene_variant,,ENST00000507135,;ACAD10,upstream_gene_variant,,ENST00000511915,;	T	ENSG00000089234	ENST00000419234	Transcript	missense_variant	600	406	136	E/K	Gaa/Aaa	.	.	.	-1	BRAP	HGNC	1099	protein_coding	YES	CCDS9154.1	ENSP00000403524	BRAP_HUMAN	Q59H81_HUMAN,J3KNN7_HUMAN	UPI00001AF597	.	deleterious(0)	probably_damaging(0.983)	3/12	.	hmmpanther:PTHR24007	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCAACTG	.	5	BLCA
HECTD4	0	.	GRCh37	12	112617169	112617169	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10582C>G	p.Leu3528Val	p.L3528V	ENST00000550722	63/76	14	8	6	23	23	0	HECTD4,missense_variant,p.Leu3252Val,ENST00000430131,;HECTD4,missense_variant,p.Leu3528Val,ENST00000550722,;HECTD4,missense_variant,p.Leu3502Val,ENST00000377560,;HECTD4,upstream_gene_variant,,ENST00000548588,;	C	ENSG00000173064	ENST00000550722	Transcript	missense_variant	10978	10582	3528	L/V	Ctg/Gtg	.	.	.	-1	HECTD4	HGNC	26611	protein_coding	YES	.	ENSP00000449784	.	F8VWT9_HUMAN,F8VU57_HUMAN	UPI00020CE513	.	.	probably_damaging(0.933)	63/76	.	hmmpanther:PTHR11254:SF286,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCAGAACCT	.	5	BLCA
HECTD4	0	.	GRCh37	12	112696389	112696389	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2601G>T	p.%3D	p.L867L	ENST00000550722	20/76	62	42	19	71	71	0	HECTD4,synonymous_variant,p.%3D,ENST00000430131,;HECTD4,synonymous_variant,p.%3D,ENST00000550722,;HECTD4,synonymous_variant,p.%3D,ENST00000377560,;RP3-521E19.2,non_coding_transcript_exon_variant,,ENST00000547401,;HECTD4,non_coding_transcript_exon_variant,,ENST00000547352,;HECTD4,non_coding_transcript_exon_variant,,ENST00000311694,;	A	ENSG00000173064	ENST00000550722	Transcript	synonymous_variant	2997	2601	867	L	ctG/ctT	.	.	.	-1	HECTD4	HGNC	26611	protein_coding	YES	.	ENSP00000449784	.	F8VWT9_HUMAN,F8VU57_HUMAN	UPI00020CE513	.	.	.	20/76	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAAGCAGCAA	.	5	BLCA
OAS1	0	.	GRCh37	12	113346556	113346556	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396C>T	p.%3D	p.L132L	ENST00000445409	2/6	60	34	26	76	76	0	OAS1,synonymous_variant,p.%3D,ENST00000452357,;OAS1,synonymous_variant,p.%3D,ENST00000445409,;OAS1,synonymous_variant,p.%3D,ENST00000202917,;OAS1,synonymous_variant,p.%3D,ENST00000550689,;OAS1,synonymous_variant,p.%3D,ENST00000553185,;OAS1,synonymous_variant,p.%3D,ENST00000551241,;OAS1,intron_variant,,ENST00000550883,;RP1-71H24.1,intron_variant,,ENST00000552784,;OAS1,non_coding_transcript_exon_variant,,ENST00000549820,;	T	ENSG00000089127	ENST00000445409	Transcript	synonymous_variant	653	396	132	L	ctC/ctT	.	.	.	1	OAS1	HGNC	8086	protein_coding	YES	CCDS31905.1	ENSP00000388001	OAS1_HUMAN	Q1P9K4_HUMAN	UPI00005B2E03	.	.	.	2/6	.	hmmpanther:PTHR11258:SF13,hmmpanther:PTHR11258,Gene3D:3.30.460.10,Superfamily_domains:SSF81301	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCAGCTT	.	5	BLCA
OAS2	0	.	GRCh37	12	113444321	113444321	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1572C>T	p.%3D	p.F524F	ENST00000342315	8/11	121	82	39	159	158	0	OAS2,synonymous_variant,p.%3D,ENST00000392583,;OAS2,synonymous_variant,p.%3D,ENST00000342315,;OAS2,downstream_gene_variant,,ENST00000552756,;RP1-71H24.1,intron_variant,,ENST00000552784,;OAS2,downstream_gene_variant,,ENST00000548941,;	T	ENSG00000111335	ENST00000342315	Transcript	synonymous_variant	1786	1572	524	F	ttC/ttT	COSM163047	.	.	1	OAS2	HGNC	8087	protein_coding	YES	CCDS31906.1	ENSP00000342278	OAS2_HUMAN	.	UPI000013CB0B	.	.	.	8/11	.	Superfamily_domains:SSF81301,Pfam_domain:PF10421,Gene3D:1px5A02,hmmpanther:PTHR11258:SF3,hmmpanther:PTHR11258	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCACAGT	.	5	BLCA
DDX54	0	.	GRCh37	12	113610263	113610263	+	Missense_Mutation	SNP	G	G	A	rs750011642	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1174C>T	p.Leu392Phe	p.L392F	ENST00000314045	11/20	23	17	6	34	34	0	DDX54,missense_variant,p.Leu392Phe,ENST00000306014,;DDX54,missense_variant,p.Leu392Phe,ENST00000314045,;DDX54,downstream_gene_variant,,ENST00000552375,;DDX54,downstream_gene_variant,,ENST00000551344,;DDX54,downstream_gene_variant,,ENST00000546869,;	A	ENSG00000123064	ENST00000314045	Transcript	missense_variant	1202	1174	392	L/F	Ctc/Ttc	rs750011642	.	.	-1	DDX54	HGNC	20084	protein_coding	YES	CCDS44984.1	ENSP00000323858	DDX54_HUMAN	F8VRX4_HUMAN	UPI000006F3A5	.	deleterious(0)	probably_damaging(0.928)	11/20	.	PROSITE_profiles:PS51194,hmmpanther:PTHR24031:SF71,hmmpanther:PTHR24031,Gene3D:3.40.50.300,Pfam_domain:PF00271,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGAGAGTGG	.	5	BLCA
DDX54	0	.	GRCh37	12	113612498	113612498	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015G>A	p.Asp339Asn	p.D339N	ENST00000314045	10/20	27	16	11	45	45	0	DDX54,missense_variant,p.Asp339Asn,ENST00000306014,;DDX54,missense_variant,p.Asp339Asn,ENST00000314045,;DDX54,downstream_gene_variant,,ENST00000552375,;Y_RNA,downstream_gene_variant,,ENST00000364338,;DDX54,downstream_gene_variant,,ENST00000551344,;DDX54,downstream_gene_variant,,ENST00000546869,;	T	ENSG00000123064	ENST00000314045	Transcript	missense_variant	1043	1015	339	D/N	Gac/Aac	.	.	.	-1	DDX54	HGNC	20084	protein_coding	YES	CCDS44984.1	ENSP00000323858	DDX54_HUMAN	F8VRX4_HUMAN	UPI000006F3A5	.	tolerated(0.1)	benign(0.064)	10/20	.	PROSITE_profiles:PS51194,hmmpanther:PTHR24031:SF71,hmmpanther:PTHR24031,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCCTGGG	.	5	BLCA
SLC8B1	0	.	GRCh37	12	113737648	113737648	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1689C>T	p.%3D	p.F563F	ENST00000552014	17/17	46	31	14	62	62	0	SLC8B1,synonymous_variant,p.%3D,ENST00000552014,;SLC8B1,synonymous_variant,p.%3D,ENST00000202831,;SLC8B1,synonymous_variant,p.%3D,ENST00000549069,;SLC8B1,synonymous_variant,p.%3D,ENST00000550047,;SLC8B1,synonymous_variant,p.%3D,ENST00000546737,;TPCN1,downstream_gene_variant,,ENST00000541517,;TPCN1,downstream_gene_variant,,ENST00000392569,;TPCN1,downstream_gene_variant,,ENST00000335509,;TPCN1,downstream_gene_variant,,ENST00000550785,;TPCN1,downstream_gene_variant,,ENST00000546787,;SLC8B1,3_prime_UTR_variant,,ENST00000550672,;SLC8B1,non_coding_transcript_exon_variant,,ENST00000552565,;TPCN1,downstream_gene_variant,,ENST00000552077,;TPCN1,downstream_gene_variant,,ENST00000551127,;	A	ENSG00000089060	ENST00000552014	Transcript	synonymous_variant	2205	1689	563	F	ttC/ttT	.	.	.	-1	SLC8B1	HGNC	26175	protein_coding	YES	CCDS31909.1	ENSP00000447091	NCKX6_HUMAN	F8VWW9_HUMAN,F8VTU4_HUMAN,F8VR99_HUMAN	UPI000004FA44	.	.	.	17/17	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12266,hmmpanther:PTHR12266:SF0,Pfam_domain:PF01699	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTAGAAGAG	.	5	BLCA
SLC8B1	0	.	GRCh37	12	113737681	113737681	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1656C>T	p.%3D	p.L552L	ENST00000552014	17/17	43	29	13	63	63	0	SLC8B1,synonymous_variant,p.%3D,ENST00000552014,;SLC8B1,synonymous_variant,p.%3D,ENST00000202831,;SLC8B1,synonymous_variant,p.%3D,ENST00000549069,;SLC8B1,synonymous_variant,p.%3D,ENST00000550047,;SLC8B1,synonymous_variant,p.%3D,ENST00000546737,;TPCN1,downstream_gene_variant,,ENST00000541517,;TPCN1,downstream_gene_variant,,ENST00000392569,;TPCN1,downstream_gene_variant,,ENST00000335509,;TPCN1,downstream_gene_variant,,ENST00000550785,;TPCN1,downstream_gene_variant,,ENST00000546787,;SLC8B1,3_prime_UTR_variant,,ENST00000550672,;SLC8B1,non_coding_transcript_exon_variant,,ENST00000552565,;TPCN1,downstream_gene_variant,,ENST00000552077,;TPCN1,downstream_gene_variant,,ENST00000551127,;	A	ENSG00000089060	ENST00000552014	Transcript	synonymous_variant	2172	1656	552	L	ctC/ctT	COSM1298946	.	.	-1	SLC8B1	HGNC	26175	protein_coding	YES	CCDS31909.1	ENSP00000447091	NCKX6_HUMAN	F8VWW9_HUMAN,F8VTU4_HUMAN,F8VR99_HUMAN	UPI000004FA44	.	.	.	17/17	.	hmmpanther:PTHR12266,hmmpanther:PTHR12266:SF0,Pfam_domain:PF01699	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGCTG	.	5	BLCA
TAOK3	0	.	GRCh37	12	118693378	118693378	+	5'UTR	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6G>T	.	.	ENST00000392533	3/21	99	67	32	128	128	0	TAOK3,5_prime_UTR_variant,,ENST00000541878,;TAOK3,5_prime_UTR_variant,,ENST00000541786,;TAOK3,5_prime_UTR_variant,,ENST00000392533,;TAOK3,5_prime_UTR_variant,,ENST00000542532,;TAOK3,5_prime_UTR_variant,,ENST00000542902,;TAOK3,5_prime_UTR_variant,,ENST00000539872,;TAOK3,5_prime_UTR_variant,,ENST00000535570,;TAOK3,5_prime_UTR_variant,,ENST00000541186,;TAOK3,5_prime_UTR_variant,,ENST00000419821,;TAOK3,downstream_gene_variant,,ENST00000542692,;	A	ENSG00000135090	ENST00000392533	Transcript	5_prime_UTR_variant	486	.	.	.	.	.	.	.	-1	TAOK3	HGNC	18133	protein_coding	YES	CCDS9188.1	ENSP00000376317	TAOK3_HUMAN	G3V1Q8_HUMAN,F5H7G4_HUMAN,F5H5E0_HUMAN,F5H5C7_HUMAN,F5H3L7_HUMAN,F5H005_HUMAN,F5GY38_HUMAN,F5GX96_HUMAN,F5GWV8_HUMAN	UPI000007231B	.	.	.	3/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGGCCAGTA	.	5	BLCA
RPLP0	0	.	GRCh37	12	120636693	120636693	+	Silent	SNP	G	G	A	rs553386311	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429C>T	p.%3D	p.I143I	ENST00000551150	4/7	35	18	17	54	54	0	RPLP0,synonymous_variant,p.%3D,ENST00000551150,;RPLP0,synonymous_variant,p.%3D,ENST00000550856,;RPLP0,synonymous_variant,p.%3D,ENST00000547191,;RPLP0,synonymous_variant,p.%3D,ENST00000228306,;RPLP0,synonymous_variant,p.%3D,ENST00000392514,;RPLP0,synonymous_variant,p.%3D,ENST00000547211,;RPLP0,synonymous_variant,p.%3D,ENST00000313104,;RPLP0,synonymous_variant,p.%3D,ENST00000546989,;RPLP0,intron_variant,,ENST00000546990,;RPLP0,downstream_gene_variant,,ENST00000551914,;RPLP0,upstream_gene_variant,,ENST00000552292,;GCN1L1,upstream_gene_variant,,ENST00000300648,;RPLP0,downstream_gene_variant,,ENST00000550423,;PXN-AS1,upstream_gene_variant,,ENST00000539446,;PXN-AS1,upstream_gene_variant,,ENST00000542265,;PXN-AS1,upstream_gene_variant,,ENST00000542314,;PXN-AS1,upstream_gene_variant,,ENST00000535200,;PXN-AS1,upstream_gene_variant,,ENST00000538804,;RPLP0,non_coding_transcript_exon_variant,,ENST00000550296,;RPLP0,downstream_gene_variant,,ENST00000551336,;RPLP0,synonymous_variant,p.%3D,ENST00000547173,;RPLP0,splice_region_variant,,ENST00000547475,;RPLP0,splice_region_variant,,ENST00000551258,;RPLP0,3_prime_UTR_variant,,ENST00000549098,;RPLP0,non_coding_transcript_exon_variant,,ENST00000546564,;RPLP0,non_coding_transcript_exon_variant,,ENST00000552902,;RPLP0,non_coding_transcript_exon_variant,,ENST00000552461,;RPLP0,non_coding_transcript_exon_variant,,ENST00000548495,;RPLP0,non_coding_transcript_exon_variant,,ENST00000548568,;RPLP0,downstream_gene_variant,,ENST00000551783,;RPLP0,downstream_gene_variant,,ENST00000548551,;RPLP0,upstream_gene_variant,,ENST00000551217,;RPLP0,downstream_gene_variant,,ENST00000549242,;	A	ENSG00000089157	ENST00000551150	Transcript	synonymous_variant	745	429	143	I	atC/atT	rs553386311	.	.	-1	RPLP0	HGNC	10371	protein_coding	YES	CCDS9193.1	ENSP00000449328	RLA0_HUMAN	F8VU65_HUMAN	UPI0000134221	.	.	.	4/7	.	hmmpanther:PTHR21141:SF3,hmmpanther:PTHR21141	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGTGATACC	by1000G	5	BLCA
PLA2G1B	0	.	GRCh37	12	120763674	120763674	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.184G>A	p.Glu62Lys	p.E62K	ENST00000308366	2/4	60	40	20	70	70	0	PLA2G1B,missense_variant,p.Glu62Lys,ENST00000308366,;PLA2G1B,missense_variant,p.Glu62Lys,ENST00000423423,;PLA2G1B,missense_variant,p.Glu33Lys,ENST00000549767,;	T	ENSG00000170890	ENST00000308366	Transcript	missense_variant	220	184	62	E/K	Gaa/Aaa	.	.	.	-1	PLA2G1B	HGNC	9030	protein_coding	YES	CCDS9195.1	ENSP00000312286	PA21B_HUMAN	F8W062_HUMAN	UPI0000048FD9	.	deleterious(0.02)	benign(0.362)	2/4	.	Prints_domain:PR00389,Superfamily_domains:SSF48619,SMART_domains:SM00085,Pfam_domain:PF00068,Gene3D:1.20.90.10,hmmpanther:PTHR11716:SF4,hmmpanther:PTHR11716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTCATCCA	.	5	BLCA
AL021546.6	0	.	GRCh37	12	120876279	120876279	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130G>A	p.%3D	p.E44E	ENST00000551806	2/5	62	40	22	87	87	0	AL021546.6,synonymous_variant,p.%3D,ENST00000551806,;COX6A1,synonymous_variant,p.%3D,ENST00000229379,;COX6A1,non_coding_transcript_exon_variant,,ENST00000550009,;COX6A1,upstream_gene_variant,,ENST00000549525,;	A	ENSG00000111780	ENST00000551806	Transcript	synonymous_variant	130	132	44	E	gaG/gaA	.	.	.	1	AL021546.6	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000450281	.	J3KMY1_HUMAN	UPI00020CE455	.	.	.	2/5	.	Gene3D:1v54G00,Pfam_domain:PF02046,Superfamily_domains:0041783	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGAGAGACC	.	5	BLCA
P2RX7	0	.	GRCh37	12	121622338	121622338	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1521C>T	p.%3D	p.I507I	ENST00000546057	13/13	21	15	6	31	31	0	P2RX7,synonymous_variant,p.%3D,ENST00000535250,;P2RX7,synonymous_variant,p.%3D,ENST00000546057,;P2RX7,synonymous_variant,p.%3D,ENST00000328963,;P2RX7,synonymous_variant,p.%3D,ENST00000541446,;RP11-340F14.5,upstream_gene_variant,,ENST00000569999,;P2RX7,non_coding_transcript_exon_variant,,ENST00000443520,;P2RX7,3_prime_UTR_variant,,ENST00000539606,;P2RX7,3_prime_UTR_variant,,ENST00000541022,;P2RX7,3_prime_UTR_variant,,ENST00000538011,;P2RX7,3_prime_UTR_variant,,ENST00000261826,;P2RX7,3_prime_UTR_variant,,ENST00000541564,;P2RX7,3_prime_UTR_variant,,ENST00000537312,;P2RX7,3_prime_UTR_variant,,ENST00000535600,;P2RX7,3_prime_UTR_variant,,ENST00000541716,;P2RX7,non_coding_transcript_exon_variant,,ENST00000539695,;	T	ENSG00000089041	ENST00000546057	Transcript	synonymous_variant	1664	1521	507	I	atC/atT	.	.	.	1	P2RX7	HGNC	8537	protein_coding	YES	CCDS9213.1	ENSP00000442349	.	K4K1I8_HUMAN	UPI000016865E	.	.	.	13/13	.	Prints_domain:PR01314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATCACCAC	.	5	BLCA
B3GNT4	0	.	GRCh37	12	122691734	122691734	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.936G>A	p.%3D	p.L312L	ENST00000324189	3/3	41	31	10	57	57	0	B3GNT4,synonymous_variant,p.%3D,ENST00000535274,;B3GNT4,synonymous_variant,p.%3D,ENST00000546192,;B3GNT4,synonymous_variant,p.%3D,ENST00000324189,;DIABLO,downstream_gene_variant,,ENST00000540535,;DIABLO,downstream_gene_variant,,ENST00000474004,;DIABLO,downstream_gene_variant,,ENST00000541656,;DIABLO,downstream_gene_variant,,ENST00000353548,;DIABLO,downstream_gene_variant,,ENST00000464942,;DIABLO,downstream_gene_variant,,ENST00000413918,;DIABLO,downstream_gene_variant,,ENST00000541273,;DIABLO,downstream_gene_variant,,ENST00000446652,;DIABLO,downstream_gene_variant,,ENST00000439489,;DIABLO,downstream_gene_variant,,ENST00000267169,;LRRC43,downstream_gene_variant,,ENST00000425921,;LRRC43,downstream_gene_variant,,ENST00000339777,;DIABLO,downstream_gene_variant,,ENST00000443649,;B3GNT4,intron_variant,,ENST00000545141,;LRRC43,downstream_gene_variant,,ENST00000537733,;B3GNT4,downstream_gene_variant,,ENST00000538257,;B3GNT4,downstream_gene_variant,,ENST00000537991,;DIABLO,downstream_gene_variant,,ENST00000342392,;RP11-512M8.5,downstream_gene_variant,,ENST00000535844,;	A	ENSG00000176383	ENST00000324189	Transcript	synonymous_variant	1292	936	312	L	ctG/ctA	.	.	.	1	B3GNT4	HGNC	15683	protein_coding	YES	CCDS9227.1	ENSP00000319636	B3GN4_HUMAN	.	UPI0000051E30	.	.	.	3/3	.	hmmpanther:PTHR11214:SF27,hmmpanther:PTHR11214,Pfam_domain:PF01762	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGAGGCG	.	5	BLCA
RSRC2	0	.	GRCh37	12	122999739	122999739	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.638T>G	p.Phe213Cys	p.F213C	ENST00000331738	6/10	50	34	16	88	88	0	RSRC2,missense_variant,p.Phe213Cys,ENST00000331738,;RSRC2,missense_variant,p.Phe154Cys,ENST00000344591,;RSRC2,missense_variant,p.Phe165Cys,ENST00000354654,;RSRC2,downstream_gene_variant,,ENST00000526560,;RSRC2,upstream_gene_variant,,ENST00000392442,;RSRC2,downstream_gene_variant,,ENST00000532186,;RSRC2,downstream_gene_variant,,ENST00000527461,;RSRC2,missense_variant,p.Phe144Cys,ENST00000528263,;RSRC2,3_prime_UTR_variant,,ENST00000527399,;RSRC2,3_prime_UTR_variant,,ENST00000532695,;RSRC2,3_prime_UTR_variant,,ENST00000433877,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527173,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525335,;RSRC2,non_coding_transcript_exon_variant,,ENST00000524399,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527796,;RSRC2,downstream_gene_variant,,ENST00000531639,;RSRC2,downstream_gene_variant,,ENST00000525387,;	C	ENSG00000111011	ENST00000331738	Transcript	missense_variant	784	638	213	F/C	tTt/tGt	.	.	.	-1	RSRC2	HGNC	30559	protein_coding	YES	CCDS31920.1	ENSP00000330188	RSRC2_HUMAN	.	UPI00001FB8BB	.	tolerated_low_confidence(0.06)	unknown(0)	6/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF88	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTAAATCTT	.	5	BLCA
LRP6	0	.	GRCh37	12	12318085	12318085	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1690G>A	p.Glu564Lys	p.E564K	ENST00000261349	8/23	76	49	27	111	111	0	LRP6,missense_variant,p.Glu564Lys,ENST00000543091,;LRP6,missense_variant,p.Glu564Lys,ENST00000261349,;LRP6,missense_variant,p.Glu429Lys,ENST00000538239,;BCL2L14,intron_variant,,ENST00000298566,;	T	ENSG00000070018	ENST00000261349	Transcript	missense_variant	1767	1690	564	E/K	Gag/Aag	.	.	.	-1	LRP6	HGNC	6698	protein_coding	YES	CCDS8647.1	ENSP00000261349	LRP6_HUMAN	F5H0Z3_HUMAN,B3KQA9_HUMAN	UPI00001FB66C	.	tolerated(0.23)	benign(0.045)	8/23	.	Superfamily_domains:SSF63825,SMART_domains:SM00135,PIRSF_domain:PIRSF036314,Gene3D:2.120.10.30,hmmpanther:PTHR10529:SF109,hmmpanther:PTHR10529,PROSITE_profiles:PS51120	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTGCAC	.	5	BLCA
CCDC62	0	.	GRCh37	12	123281860	123281860	+	Missense_Mutation	SNP	G	G	C	rs775259284	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.779G>C	p.Arg260Thr	p.R260T	ENST00000253079	7/13	25	16	9	45	45	0	CCDC62,missense_variant,p.Arg21Thr,ENST00000537566,;CCDC62,missense_variant,p.Arg260Thr,ENST00000392441,;CCDC62,missense_variant,p.Arg260Thr,ENST00000253079,;CCDC62,missense_variant,p.Arg21Thr,ENST00000392440,;CCDC62,missense_variant,p.Arg260Thr,ENST00000341952,;	C	ENSG00000130783	ENST00000253079	Transcript	missense_variant	1123	779	260	R/T	aGa/aCa	rs775259284	.	.	1	CCDC62	HGNC	30723	protein_coding	YES	CCDS9238.1	ENSP00000253079	CCD62_HUMAN	.	UPI0000366924	.	deleterious(0.01)	possibly_damaging(0.773)	7/13	.	hmmpanther:PTHR18937:SF187,hmmpanther:PTHR18937	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAGAGAAA	.	5	BLCA
MPHOSPH9	0	.	GRCh37	12	123645359	123645359	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2963G>A	p.Gly988Glu	p.G988E	ENST00000392425	19/20	62	45	17	80	80	0	MPHOSPH9,missense_variant,p.Gly988Glu,ENST00000302349,;MPHOSPH9,missense_variant,p.Gly1110Glu,ENST00000541076,;MPHOSPH9,missense_variant,p.Gly175Glu,ENST00000541603,;MPHOSPH9,missense_variant,p.Gly1140Glu,ENST00000606320,;MPHOSPH9,missense_variant,p.Gly988Glu,ENST00000392425,;MPHOSPH9,downstream_gene_variant,,ENST00000606321,;MPHOSPH9,upstream_gene_variant,,ENST00000544217,;MPHOSPH9,3_prime_UTR_variant,,ENST00000606704,;MPHOSPH9,3_prime_UTR_variant,,ENST00000302373,;MPHOSPH9,3_prime_UTR_variant,,ENST00000539024,;MPHOSPH9,3_prime_UTR_variant,,ENST00000545556,;MPHOSPH9,non_coding_transcript_exon_variant,,ENST00000545974,;MPHOSPH9,downstream_gene_variant,,ENST00000538250,;MPHOSPH9,downstream_gene_variant,,ENST00000607619,;MPHOSPH9,downstream_gene_variant,,ENST00000536198,;	T	ENSG00000051825	ENST00000392425	Transcript	missense_variant	3070	2963	988	G/E	gGa/gAa	.	.	.	-1	MPHOSPH9	HGNC	7215	protein_coding	YES	.	ENSP00000376220	MPP9_HUMAN	.	UPI00001D62B9	.	deleterious(0)	probably_damaging(1)	19/20	.	hmmpanther:PTHR14926:SF1,hmmpanther:PTHR14926	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCGTCCTCCA	.	3	BLCA
MPHOSPH9	0	.	GRCh37	12	123645376	123645376	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2946G>A	p.%3D	p.R982R	ENST00000392425	19/20	62	46	16	82	82	0	MPHOSPH9,synonymous_variant,p.%3D,ENST00000302349,;MPHOSPH9,synonymous_variant,p.%3D,ENST00000541076,;MPHOSPH9,synonymous_variant,p.%3D,ENST00000541603,;MPHOSPH9,synonymous_variant,p.%3D,ENST00000606320,;MPHOSPH9,synonymous_variant,p.%3D,ENST00000392425,;MPHOSPH9,downstream_gene_variant,,ENST00000606321,;MPHOSPH9,3_prime_UTR_variant,,ENST00000606704,;MPHOSPH9,3_prime_UTR_variant,,ENST00000302373,;MPHOSPH9,3_prime_UTR_variant,,ENST00000539024,;MPHOSPH9,3_prime_UTR_variant,,ENST00000545556,;MPHOSPH9,non_coding_transcript_exon_variant,,ENST00000545974,;MPHOSPH9,downstream_gene_variant,,ENST00000538250,;MPHOSPH9,downstream_gene_variant,,ENST00000607619,;MPHOSPH9,downstream_gene_variant,,ENST00000536198,;	T	ENSG00000051825	ENST00000392425	Transcript	synonymous_variant	3053	2946	982	R	agG/agA	.	.	.	-1	MPHOSPH9	HGNC	7215	protein_coding	YES	.	ENSP00000376220	MPP9_HUMAN	.	UPI00001D62B9	.	.	.	19/20	.	hmmpanther:PTHR14926:SF1,hmmpanther:PTHR14926	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCATCCTGCT	.	3	BLCA
ATP6V0A2	0	.	GRCh37	12	124228405	124228405	+	Missense_Mutation	SNP	G	G	A	rs199698721	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1112G>A	p.Arg371His	p.R371H	ENST00000330342	10/20	156	116	39	178	178	0	ATP6V0A2,missense_variant,p.Arg241His,ENST00000504192,;ATP6V0A2,missense_variant,p.Arg371His,ENST00000330342,;ATP6V0A2,non_coding_transcript_exon_variant,,ENST00000536426,;ATP6V0A2,non_coding_transcript_exon_variant,,ENST00000545059,;	A	ENSG00000185344	ENST00000330342	Transcript	missense_variant	1360	1112	371	R/H	cGc/cAc	rs199698721	.	.	1	ATP6V0A2	HGNC	18481	protein_coding	YES	CCDS9254.1	ENSP00000332247	VPP2_HUMAN	F5H847_HUMAN,F5H5F3_HUMAN,B4DQF7_HUMAN	UPI00001AFC09	.	deleterious(0.02)	probably_damaging(0.991)	10/20	.	hmmpanther:PTHR11629,hmmpanther:PTHR11629:SF22,Pfam_domain:PF01496,PIRSF_domain:PIRSF001293	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCCGCACCA	byFrequency|byCluster	5	BLCA
DNAH10	0	.	GRCh37	12	124399462	124399462	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10284G>A	p.%3D	p.R3428R	ENST00000409039	61/78	14	11	3	13	13	0	DNAH10,synonymous_variant,p.%3D,ENST00000409039,;DNAH10,downstream_gene_variant,,ENST00000540041,;CCDC92,downstream_gene_variant,,ENST00000542348,;	A	ENSG00000197653	ENST00000409039	Transcript	synonymous_variant	10309	10284	3428	R	cgG/cgA	.	.	.	1	DNAH10	HGNC	2941	protein_coding	YES	CCDS9255.2	ENSP00000386770	DYH10_HUMAN	.	UPI00014F7B89	.	.	.	61/78	.	hmmpanther:PTHR10676:SF135,hmmpanther:PTHR10676,Pfam_domain:PF12781	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCCGGGCCAG	.	2	BLCA
UBC	0	.	GRCh37	12	125398084	125398084	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234A>G	p.%3D	p.Q78Q	ENST00000536769	1/1	159	100	59	261	261	0	UBC,synonymous_variant,p.%3D,ENST00000546271,;UBC,synonymous_variant,p.%3D,ENST00000540700,;UBC,synonymous_variant,p.%3D,ENST00000546120,;UBC,synonymous_variant,p.%3D,ENST00000536769,;UBC,synonymous_variant,p.%3D,ENST00000538617,;UBC,synonymous_variant,p.%3D,ENST00000541645,;UBC,synonymous_variant,p.%3D,ENST00000339647,;UBC,synonymous_variant,p.%3D,ENST00000535131,;UBC,synonymous_variant,p.%3D,ENST00000541272,;UBC,synonymous_variant,p.%3D,ENST00000535859,;UBC,synonymous_variant,p.%3D,ENST00000540351,;UBC,downstream_gene_variant,,ENST00000542416,;MIR5188,upstream_gene_variant,,ENST00000583467,;UBC,non_coding_transcript_exon_variant,,ENST00000544481,;UBC,downstream_gene_variant,,ENST00000536661,;	C	ENSG00000150991	ENST00000536769	Transcript	synonymous_variant	1811	234	78	Q	caA/caG	.	.	.	-1	UBC	HGNC	12468	protein_coding	YES	CCDS9260.1	ENSP00000441543	UBC_HUMAN	Q9UFQ0_HUMAN,Q96C32_HUMAN,Q5PY61_HUMAN,M0R1V7_HUMAN,J3QSA3_HUMAN,J3QS39_HUMAN,J3QKN0_HUMAN,F5H747_HUMAN,F5H6Q2_HUMAN,F5H388_HUMAN,F5H2Z3_HUMAN,F5H265_HUMAN,F5H041_HUMAN,F5GZ39_HUMAN,F5GYU3_HUMAN,F5GXK7_HUMAN,A8CGI2_HUMAN	UPI000013DC28	.	.	.	1/1	.	PROSITE_profiles:PS50053,hmmpanther:PTHR10666,hmmpanther:PTHR10666:SF94,Gene3D:3.10.20.90,SMART_domains:SM00213,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATTTGCAT	.	5	BLCA
AACS	0	.	GRCh37	12	125626835	125626835	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*60C>T	.	.	ENST00000316519	18/18	22	12	10	19	19	0	AACS,3_prime_UTR_variant,,ENST00000261686,;AACS,3_prime_UTR_variant,,ENST00000545511,;AACS,3_prime_UTR_variant,,ENST00000543665,;AACS,3_prime_UTR_variant,,ENST00000316543,;AACS,3_prime_UTR_variant,,ENST00000316519,;AACS,downstream_gene_variant,,ENST00000539251,;	T	ENSG00000081760	ENST00000316519	Transcript	3_prime_UTR_variant	2285	.	.	.	.	.	.	.	1	AACS	HGNC	21298	protein_coding	YES	CCDS9263.1	ENSP00000324842	AACS_HUMAN	Q9H7A6_HUMAN,F5H6X9_HUMAN,F5H4V2_HUMAN,F5H3E3_HUMAN,F5GYN1_HUMAN	UPI0000049787	.	.	.	18/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCAAGAA	.	5	BLCA
APOLD1	0	.	GRCh37	12	12940451	12940451	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705G>A	p.%3D	p.E235E	ENST00000326765	2/2	47	28	19	81	81	0	APOLD1,synonymous_variant,p.%3D,ENST00000356591,;APOLD1,synonymous_variant,p.%3D,ENST00000326765,;APOLD1,intron_variant,,ENST00000534843,;APOLD1,intron_variant,,ENST00000588943,;APOLD1,intron_variant,,ENST00000540583,;	A	ENSG00000178878	ENST00000326765	Transcript	synonymous_variant	775	705	235	E	gaG/gaA	.	.	.	1	APOLD1	HGNC	25268	protein_coding	YES	CCDS44833.1	ENSP00000324277	APLD1_HUMAN	.	UPI0000D4A841	.	.	.	2/2	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14096:SF1,hmmpanther:PTHR14096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGAGAGCCT	.	5	BLCA
TMEM132D	0	.	GRCh37	12	130184543	130184543	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.780C>T	p.%3D	p.S260S	ENST00000422113	2/9	52	34	17	59	59	0	TMEM132D,synonymous_variant,p.%3D,ENST00000422113,;RP11-174M13.2,upstream_gene_variant,,ENST00000544036,;	A	ENSG00000151952	ENST00000422113	Transcript	synonymous_variant	1107	780	260	S	tcC/tcT	COSM369267	.	.	-1	TMEM132D	HGNC	29411	protein_coding	YES	CCDS9266.1	ENSP00000408581	T132D_HUMAN	.	UPI000023759C	.	.	.	2/9	.	hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.I257I|c.771C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCGGACTC	.	5	BLCA
TMEM132D	0	.	GRCh37	12	130184781	130184781	+	Missense_Mutation	SNP	C	C	T	rs777401628	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.542G>A	p.Gly181Asp	p.G181D	ENST00000422113	2/9	26	21	5	28	28	0	TMEM132D,missense_variant,p.Gly181Asp,ENST00000422113,;RP11-174M13.2,upstream_gene_variant,,ENST00000544036,;	T	ENSG00000151952	ENST00000422113	Transcript	missense_variant	869	542	181	G/D	gGc/gAc	rs777401628	.	.	-1	TMEM132D	HGNC	29411	protein_coding	YES	CCDS9266.1	ENSP00000408581	T132D_HUMAN	.	UPI000023759C	.	deleterious(0)	possibly_damaging(0.877)	2/9	.	hmmpanther:PTHR13388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGCCCCGC	.	5	BLCA
PIWIL1	0	.	GRCh37	12	130856036	130856036	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2479C>T	p.Arg827Cys	p.R827C	ENST00000245255	21/21	107	69	37	141	141	0	PIWIL1,missense_variant,p.Arg827Cys,ENST00000245255,;PIWIL1,downstream_gene_variant,,ENST00000541480,;	T	ENSG00000125207	ENST00000245255	Transcript	missense_variant	2751	2479	827	R/C	Cgt/Tgt	.	.	.	1	PIWIL1	HGNC	9007	protein_coding	YES	CCDS9268.1	ENSP00000245255	PIWL1_HUMAN	F5H889_HUMAN,F5H3U6_HUMAN,F5H2F7_HUMAN,F5GZL9_HUMAN,F5GYG0_HUMAN,F5GWW4_HUMAN	UPI000007059F	.	deleterious(0)	probably_damaging(1)	21/21	.	Superfamily_domains:SSF53098,SMART_domains:SM00950,Pfam_domain:PF02171,Gene3D:3.30.420.10,hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF31,PROSITE_profiles:PS50822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCGTGTT	.	5	BLCA
GPRC5D	0	.	GRCh37	12	13103165	13103165	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154C>T	p.Gln52Ter	p.Q52*	ENST00000228887	1/3	39	24	15	51	51	0	GPRC5D,stop_gained,p.Gln52Ter,ENST00000228887,;GPRC5D,stop_gained,p.Gln52Ter,ENST00000541128,;GPRC5D,stop_gained,p.Gln52Ter,ENST00000396333,;RP11-392P7.6,intron_variant,,ENST00000540198,;RP11-392P7.6,intron_variant,,ENST00000394742,;RP11-392P7.6,intron_variant,,ENST00000542078,;RP11-392P7.6,intron_variant,,ENST00000545914,;RP11-392P7.6,intron_variant,,ENST00000543515,;RP11-392P7.6,intron_variant,,ENST00000536029,;RP11-392P7.6,downstream_gene_variant,,ENST00000538231,;	A	ENSG00000111291	ENST00000228887	Transcript	stop_gained	154	154	52	Q/*	Caa/Taa	.	.	.	-1	GPRC5D	HGNC	13310	protein_coding	YES	CCDS8658.1	ENSP00000228887	GPC5D_HUMAN	F5GWX9_HUMAN	UPI0000050482	.	.	.	1/3	.	hmmpanther:PTHR14511,hmmpanther:PTHR14511:SF10,Pfam_domain:PF00003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTGGATCT	.	5	BLCA
GPR133	0	.	GRCh37	12	131621527	131621527	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2404A>C	p.Ile802Leu	p.I802L	ENST00000261654	23/25	74	52	21	77	77	0	GPR133,missense_variant,p.Ile321Leu,ENST00000543617,;GPR133,missense_variant,p.Ile488Leu,ENST00000376682,;GPR133,missense_variant,p.Ile834Leu,ENST00000535015,;GPR133,missense_variant,p.Ile802Leu,ENST00000261654,;GPR133,missense_variant,p.Ile156Leu,ENST00000335486,;GPR133,non_coding_transcript_exon_variant,,ENST00000540207,;GPR133,non_coding_transcript_exon_variant,,ENST00000537489,;GPR133,non_coding_transcript_exon_variant,,ENST00000446583,;	C	ENSG00000111452	ENST00000261654	Transcript	missense_variant	2963	2404	802	I/L	Ata/Cta	.	.	.	1	GPR133	HGNC	19893	protein_coding	YES	CCDS9272.1	ENSP00000261654	GP133_HUMAN	F5H4Y0_HUMAN,B2CKK9_HUMAN	UPI0000241C7A	.	tolerated(0.07)	possibly_damaging(0.609)	23/25	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF216,PROSITE_patterns:PS00650,Pfam_domain:PF00002,Superfamily_domains:SSF81321,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTCATATTC	.	5	BLCA
ULK1	0	.	GRCh37	12	132380193	132380193	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159C>T	p.%3D	p.L53L	ENST00000321867	2/28	28	20	7	37	37	0	ULK1,synonymous_variant,p.%3D,ENST00000321867,;	T	ENSG00000177169	ENST00000321867	Transcript	synonymous_variant	510	159	53	L	ctC/ctT	.	.	.	1	ULK1	HGNC	12558	protein_coding	YES	CCDS9274.1	ENSP00000324560	ULK1_HUMAN	F5H4E9_HUMAN,F5H1S7_HUMAN,F5GZQ0_HUMAN	UPI00001FB0D9	.	.	.	2/28	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24348:SF19,hmmpanther:PTHR24348,Pfam_domain:PF00069,Gene3D:3.30.200.20,PIRSF_domain:PIRSF000580,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCGCCAA	.	5	BLCA
GOLGA3	0	.	GRCh37	12	133367876	133367876	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2473G>A	p.Glu825Lys	p.E825K	ENST00000204726	12/24	171	114	57	240	240	0	GOLGA3,missense_variant,p.Glu825Lys,ENST00000204726,;GOLGA3,missense_variant,p.Glu825Lys,ENST00000537452,;GOLGA3,missense_variant,p.Glu825Lys,ENST00000450791,;GOLGA3,missense_variant,p.Glu825Lys,ENST00000456883,;GOLGA3,missense_variant,p.Glu825Lys,ENST00000545875,;	T	ENSG00000090615	ENST00000204726	Transcript	missense_variant	3032	2473	825	E/K	Gaa/Aaa	.	.	.	-1	GOLGA3	HGNC	4426	protein_coding	YES	CCDS9281.1	ENSP00000204726	GOGA3_HUMAN	.	UPI0000190979	.	deleterious(0.02)	possibly_damaging(0.759)	12/24	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18902:SF20,hmmpanther:PTHR18902	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTCCACCT	.	5	BLCA
FBXL14	0	.	GRCh37	12	1675904	1675904	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*10G>A	.	.	ENST00000339235	2/2	62	45	16	95	95	0	FBXL14,3_prime_UTR_variant,,ENST00000339235,;WNT5B,intron_variant,,ENST00000545811,;WNT5B,intron_variant,,ENST00000539198,;	T	ENSG00000171823	ENST00000339235	Transcript	3_prime_UTR_variant	1366	.	.	.	.	.	.	.	-1	FBXL14	HGNC	28624	protein_coding	YES	CCDS8509.1	ENSP00000344855	FXL14_HUMAN	.	UPI000006DA06	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTCCCCTC	.	5	BLCA
FBXL14	0	.	GRCh37	12	1702075	1702075	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1158C>T	p.%3D	p.L386L	ENST00000339235	1/2	49	33	16	89	89	0	FBXL14,synonymous_variant,p.%3D,ENST00000339235,;WNT5B,intron_variant,,ENST00000537031,;WNT5B,intron_variant,,ENST00000545811,;WNT5B,intron_variant,,ENST00000539198,;FBXL14,splice_region_variant,,ENST00000543278,;	A	ENSG00000171823	ENST00000339235	Transcript	synonymous_variant	1257	1158	386	L	ctC/ctT	.	.	.	-1	FBXL14	HGNC	28624	protein_coding	YES	CCDS8509.1	ENSP00000344855	FXL14_HUMAN	.	UPI000006DA06	.	.	.	1/2	.	Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR23125:SF276,hmmpanther:PTHR23125	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTGAGTAC	.	5	BLCA
PDE3A	0	.	GRCh37	12	20806983	20806983	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3028G>T	p.Gly1010Trp	p.G1010W	ENST00000359062	15/16	55	36	19	71	71	0	PDE3A,missense_variant,p.Gly1010Trp,ENST00000359062,;PDE3A,non_coding_transcript_exon_variant,,ENST00000544307,;	T	ENSG00000172572	ENST00000359062	Transcript	missense_variant	3068	3028	1010	G/W	Ggg/Tgg	.	.	.	1	PDE3A	HGNC	8778	protein_coding	YES	CCDS31754.1	ENSP00000351957	PDE3A_HUMAN	.	UPI000014175F	.	deleterious(0)	possibly_damaging(0.833)	15/16	.	hmmpanther:PTHR11347:SF104,hmmpanther:PTHR11347,Pfam_domain:PF00233,Gene3D:1.10.1300.10,Superfamily_domains:SSF109604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTGGGGCCT	.	5	BLCA
CASC1	0	.	GRCh37	12	25347884	25347884	+	Intron	SNP	G	G	A	rs748087059	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3+126C>T	.	.	ENST00000395987	.	53	31	21	59	59	0	CASC1,missense_variant,p.Ser38Leu,ENST00000354189,;CASC1,intron_variant,,ENST00000395987,;CASC1,intron_variant,,ENST00000537577,;CASC1,intron_variant,,ENST00000395990,;CASC1,intron_variant,,ENST00000554347,;CASC1,intron_variant,,ENST00000320267,;CASC1,intron_variant,,ENST00000545133,;LYRM5,upstream_gene_variant,,ENST00000556927,;LYRM5,upstream_gene_variant,,ENST00000557540,;LYRM5,upstream_gene_variant,,ENST00000381356,;LYRM5,upstream_gene_variant,,ENST00000556402,;LYRM5,upstream_gene_variant,,ENST00000556351,;LYRM5,upstream_gene_variant,,ENST00000556198,;LYRM5,upstream_gene_variant,,ENST00000556885,;LYRM5,upstream_gene_variant,,ENST00000553788,;LYRM5,upstream_gene_variant,,ENST00000555711,;LYRM5,upstream_gene_variant,,ENST00000554266,;CASC1,intron_variant,,ENST00000557684,;LYRM5,upstream_gene_variant,,ENST00000555151,;CASC1,intron_variant,,ENST00000554533,;CASC1,intron_variant,,ENST00000555240,;CASC1,intron_variant,,ENST00000556547,;CASC1,intron_variant,,ENST00000556467,;	A	ENSG00000118307	ENST00000395987	Transcript	intron_variant	.	.	.	.	.	rs748087059	.	.	-1	CASC1	HGNC	29599	protein_coding	YES	CCDS31759.2	ENSP00000379310	.	G3V3G6_HUMAN,F8W8F9_HUMAN	UPI00001FB7A4	.	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATGAGTTA	byFrequency	5	BLCA
ITPR2	0	.	GRCh37	12	26634089	26634089	+	Missense_Mutation	SNP	C	C	T	rs757432129	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6098G>A	p.Arg2033Gln	p.R2033Q	ENST00000381340	43/57	37	26	10	66	66	0	ITPR2,missense_variant,p.Arg2033Gln,ENST00000381340,;ITPR2,3_prime_UTR_variant,,ENST00000451599,;	T	ENSG00000123104	ENST00000381340	Transcript	missense_variant	6515	6098	2033	R/Q	cGa/cAa	rs757432129,COSM938220	.	.	-1	ITPR2	HGNC	6181	protein_coding	YES	CCDS41764.1	ENSP00000370744	ITPR2_HUMAN	I1VE21_HUMAN	UPI00001FB7D2	.	tolerated(0.06)	benign(0.026)	43/57	.	hmmpanther:PTHR13715,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTCGGTAT	byFrequency	5	BLCA
PPFIBP1	0	.	GRCh37	12	27800727	27800727	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423T>C	p.%3D	p.L141L	ENST00000318304	6/29	83	57	26	100	100	0	PPFIBP1,synonymous_variant,p.%3D,ENST00000535047,;PPFIBP1,synonymous_variant,p.%3D,ENST00000542629,;PPFIBP1,synonymous_variant,p.%3D,ENST00000318304,;PPFIBP1,synonymous_variant,p.%3D,ENST00000228425,;PPFIBP1,5_prime_UTR_variant,,ENST00000538433,;PPFIBP1,5_prime_UTR_variant,,ENST00000537927,;PPFIBP1,intron_variant,,ENST00000540114,;PPFIBP1,downstream_gene_variant,,ENST00000542187,;PPFIBP1,synonymous_variant,p.%3D,ENST00000545381,;	C	ENSG00000110841	ENST00000318304	Transcript	synonymous_variant	706	423	141	L	ctT/ctC	.	.	.	1	PPFIBP1	HGNC	9249	protein_coding	YES	CCDS55812.1	ENSP00000314724	LIPB1_HUMAN	F5H6Q7_HUMAN	UPI00004565E6	.	.	.	6/29	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTTGAAGA	.	5	BLCA
KLHL42	0	.	GRCh37	12	27933906	27933906	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643G>A	p.Glu215Lys	p.E215K	ENST00000381271	1/3	14	7	6	25	25	0	KLHL42,missense_variant,p.Glu215Lys,ENST00000381271,;KLHL42,missense_variant,p.Glu37Lys,ENST00000543254,;RP11-860B13.1,non_coding_transcript_exon_variant,,ENST00000545904,;KLHL42,missense_variant,p.Glu215Lys,ENST00000539176,;	A	ENSG00000087448	ENST00000381271	Transcript	missense_variant	954	643	215	E/K	Gag/Aag	.	.	.	1	KLHL42	HGNC	29252	protein_coding	YES	CCDS31763.1	ENSP00000370671	KLH42_HUMAN	B2RNT7_HUMAN	UPI0000185FB1	.	tolerated(0.17)	benign(0.057)	1/3	.	hmmpanther:PTHR24412:SF54,hmmpanther:PTHR24412,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGGGAGCCC	.	5	BLCA
FAR2	0	.	GRCh37	12	29469859	29469859	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1041C>T	p.%3D	p.F347F	ENST00000536681	9/12	180	119	60	250	250	0	FAR2,synonymous_variant,p.%3D,ENST00000547116,;FAR2,synonymous_variant,p.%3D,ENST00000536681,;FAR2,synonymous_variant,p.%3D,ENST00000182377,;FAR2,upstream_gene_variant,,ENST00000551193,;RP11-996F15.2,intron_variant,,ENST00000553105,;	T	ENSG00000064763	ENST00000536681	Transcript	synonymous_variant	1287	1041	347	F	ttC/ttT	.	.	.	1	FAR2	HGNC	25531	protein_coding	YES	CCDS8717.1	ENSP00000443291	FACR2_HUMAN	F8VV73_HUMAN,F8VPF2_HUMAN	UPI0000041260	.	.	.	9/12	.	hmmpanther:PTHR11011:SF23,hmmpanther:PTHR11011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCACATC	.	5	BLCA
IPO8	0	.	GRCh37	12	30816492	30816492	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1525G>A	p.Asp509Asn	p.D509N	ENST00000256079	14/25	49	29	20	53	53	0	IPO8,missense_variant,p.Asp509Asn,ENST00000256079,;IPO8,missense_variant,p.Asp304Asn,ENST00000544829,;	T	ENSG00000133704	ENST00000256079	Transcript	missense_variant	1864	1525	509	D/N	Gat/Aat	.	.	.	-1	IPO8	HGNC	9853	protein_coding	YES	CCDS8719.1	ENSP00000256079	IPO8_HUMAN	F5H009_HUMAN,F5GXT5_HUMAN	UPI000013CEE9	.	deleterious(0.02)	possibly_damaging(0.623)	14/25	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR10997:SF26,hmmpanther:PTHR10997	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATCTTCAA	.	5	BLCA
DDX11	0	.	GRCh37	12	31242394	31242394	+	Missense_Mutation	SNP	C	C	T	rs549481531	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.850C>T	p.Arg284Cys	p.R284C	ENST00000407793	8/27	47	30	17	64	64	0	DDX11,missense_variant,p.Arg255Cys,ENST00000438391,;DDX11,missense_variant,p.Arg284Cys,ENST00000350437,;DDX11,missense_variant,p.Arg284Cys,ENST00000542838,;DDX11,missense_variant,p.Arg284Cys,ENST00000545668,;DDX11,missense_variant,p.Arg258Cys,ENST00000228264,;DDX11,missense_variant,p.Arg284Cys,ENST00000407793,;DDX11,3_prime_UTR_variant,,ENST00000251758,;DDX11,downstream_gene_variant,,ENST00000544652,;DDX11,downstream_gene_variant,,ENST00000415475,;DDX11,downstream_gene_variant,,ENST00000535317,;DDX11,non_coding_transcript_exon_variant,,ENST00000545717,;DDX11,upstream_gene_variant,,ENST00000539673,;DDX11,missense_variant,p.Arg258Cys,ENST00000540935,;DDX11,missense_variant,p.Arg284Cys,ENST00000539049,;DDX11,3_prime_UTR_variant,,ENST00000542244,;DDX11,3_prime_UTR_variant,,ENST00000435753,;DDX11,non_coding_transcript_exon_variant,,ENST00000535158,;DDX11,non_coding_transcript_exon_variant,,ENST00000542242,;DDX11,non_coding_transcript_exon_variant,,ENST00000536265,;DDX11,non_coding_transcript_exon_variant,,ENST00000543026,;DDX11,intron_variant,,ENST00000538345,;DDX11,intron_variant,,ENST00000542129,;DDX11,upstream_gene_variant,,ENST00000543511,;DDX11,downstream_gene_variant,,ENST00000543756,;DDX11,upstream_gene_variant,,ENST00000536580,;	T	ENSG00000013573	ENST00000407793	Transcript	missense_variant	1101	850	284	R/C	Cgc/Tgc	rs549481531	.	.	1	DDX11	HGNC	2736	protein_coding	YES	CCDS44856.1	ENSP00000384703	DDX11_HUMAN	F5GXJ8_HUMAN	UPI000006F88F	.	deleterious(0.02)	probably_damaging(0.998)	8/27	.	PROSITE_profiles:PS51193,hmmpanther:PTHR11472,hmmpanther:PTHR11472:SF35,Pfam_domain:PF06733,TIGRFAM_domain:TIGR00604,SMART_domains:SM00488	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGACCGCTGT	by1000G	5	BLCA
DDX11	0	.	GRCh37	12	31256816	31256816	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2762G>A	p.Cys921Tyr	p.C921Y	ENST00000407793	27/27	33	22	10	57	57	0	DDX11,missense_variant,p.Cys921Tyr,ENST00000545668,;DDX11,missense_variant,p.Cys921Tyr,ENST00000407793,;DDX11,3_prime_UTR_variant,,ENST00000350437,;DDX11,3_prime_UTR_variant,,ENST00000539702,;DDX11,3_prime_UTR_variant,,ENST00000542838,;DDX11,3_prime_UTR_variant,,ENST00000228264,;DDX11,3_prime_UTR_variant,,ENST00000251758,;DDX11,downstream_gene_variant,,ENST00000539673,;DDX11,3_prime_UTR_variant,,ENST00000545115,;DDX11,3_prime_UTR_variant,,ENST00000435753,;DDX11,3_prime_UTR_variant,,ENST00000539049,;DDX11,non_coding_transcript_exon_variant,,ENST00000536265,;DDX11,downstream_gene_variant,,ENST00000542661,;DDX11,downstream_gene_variant,,ENST00000542777,;DDX11,downstream_gene_variant,,ENST00000537136,;DDX11,downstream_gene_variant,,ENST00000538345,;DDX11,downstream_gene_variant,,ENST00000539699,;DDX11,downstream_gene_variant,,ENST00000538740,;RP11-551L14.7,downstream_gene_variant,,ENST00000605711,;	A	ENSG00000013573	ENST00000407793	Transcript	missense_variant	3013	2762	921	C/Y	tGc/tAc	.	.	.	1	DDX11	HGNC	2736	protein_coding	YES	CCDS44856.1	ENSP00000384703	DDX11_HUMAN	F5GXJ8_HUMAN	UPI000006F88F	.	tolerated_low_confidence(1)	benign(0)	27/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGCCCGC	.	5	BLCA
DDX11	0	.	GRCh37	12	31256874	31256874	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2820G>A	p.%3D	p.V940V	ENST00000407793	27/27	14	11	3	19	19	0	DDX11,synonymous_variant,p.%3D,ENST00000545668,;DDX11,synonymous_variant,p.%3D,ENST00000407793,;DDX11,3_prime_UTR_variant,,ENST00000350437,;DDX11,3_prime_UTR_variant,,ENST00000539702,;DDX11,3_prime_UTR_variant,,ENST00000542838,;DDX11,3_prime_UTR_variant,,ENST00000228264,;DDX11,3_prime_UTR_variant,,ENST00000251758,;DDX11,downstream_gene_variant,,ENST00000539673,;DDX11,3_prime_UTR_variant,,ENST00000545115,;DDX11,3_prime_UTR_variant,,ENST00000435753,;DDX11,3_prime_UTR_variant,,ENST00000539049,;DDX11,non_coding_transcript_exon_variant,,ENST00000536265,;DDX11,downstream_gene_variant,,ENST00000542661,;DDX11,downstream_gene_variant,,ENST00000542777,;DDX11,downstream_gene_variant,,ENST00000537136,;DDX11,downstream_gene_variant,,ENST00000538345,;DDX11,downstream_gene_variant,,ENST00000539699,;DDX11,downstream_gene_variant,,ENST00000538740,;RP11-551L14.7,downstream_gene_variant,,ENST00000605711,;	A	ENSG00000013573	ENST00000407793	Transcript	synonymous_variant	3071	2820	940	V	gtG/gtA	.	.	.	1	DDX11	HGNC	2736	protein_coding	YES	CCDS44856.1	ENSP00000384703	DDX11_HUMAN	F5GXJ8_HUMAN	UPI000006F88F	.	.	.	27/27	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGGTGAAACC	.	2	BLCA
KIAA1551	0	.	GRCh37	12	32134198	32134198	+	Missense_Mutation	SNP	A	A	T	rs766387944	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309A>T	p.Gln103His	p.Q103H	ENST00000312561	4/6	56	43	13	82	82	0	KIAA1551,missense_variant,p.Gln103His,ENST00000312561,;KIAA1551,missense_variant,p.Gln103His,ENST00000381054,;KIAA1551,downstream_gene_variant,,ENST00000540924,;KIAA1551,intron_variant,,ENST00000535596,;KIAA1551,intron_variant,,ENST00000541981,;KIAA1551,intron_variant,,ENST00000397578,;	T	ENSG00000174718	ENST00000312561	Transcript	missense_variant	723	309	103	Q/H	caA/caT	rs766387944,COSM468275	.	.	1	KIAA1551	HGNC	25559	protein_coding	YES	CCDS8725.2	ENSP00000310338	K1551_HUMAN	J3KPI3_HUMAN,F5H488_HUMAN	UPI0000577B2F	.	deleterious(0.01)	probably_damaging(0.996)	4/6	.	hmmpanther:PTHR21604	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACAACTAAC	.	5	BLCA
KIAA1551	0	.	GRCh37	12	32145556	32145556	+	3'UTR	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*87A>G	.	.	ENST00000312561	6/6	20	14	6	39	39	0	KIAA1551,3_prime_UTR_variant,,ENST00000312561,;KIAA1551,non_coding_transcript_exon_variant,,ENST00000535596,;KIAA1551,non_coding_transcript_exon_variant,,ENST00000541981,;KIAA1551,non_coding_transcript_exon_variant,,ENST00000397578,;KIAA1551,non_coding_transcript_exon_variant,,ENST00000543763,;	G	ENSG00000174718	ENST00000312561	Transcript	3_prime_UTR_variant	5745	.	.	.	.	.	.	.	1	KIAA1551	HGNC	25559	protein_coding	YES	CCDS8725.2	ENSP00000310338	K1551_HUMAN	J3KPI3_HUMAN,F5H488_HUMAN	UPI0000577B2F	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCCATGATA	.	5	BLCA
FGD4	0	.	GRCh37	12	32751518	32751518	+	Nonsense_Mutation	SNP	C	C	T	rs759095061	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>T	p.Gln230Ter	p.Q230*	ENST00000427716	5/17	133	91	42	157	157	0	FGD4,stop_gained,p.Gln137Ter,ENST00000546442,;FGD4,stop_gained,p.Gln315Ter,ENST00000531134,;FGD4,stop_gained,p.Gln230Ter,ENST00000427716,;FGD4,stop_gained,p.Gln342Ter,ENST00000525053,;FGD4,stop_gained,p.Gln367Ter,ENST00000534526,;FGD4,splice_region_variant,,ENST00000381025,;FGD4,splice_region_variant,,ENST00000266482,;FGD4,stop_gained,p.Gln60Ter,ENST00000494977,;FGD4,stop_gained,p.Gln230Ter,ENST00000395740,;FGD4,stop_gained,p.Gln230Ter,ENST00000493087,;FGD4,splice_region_variant,,ENST00000551984,;	T	ENSG00000139132	ENST00000427716	Transcript	stop_gained	1112	688	230	Q/*	Cag/Tag	rs759095061	.	.	1	FGD4	HGNC	19125	protein_coding	YES	CCDS8727.1	ENSP00000394487	FGD4_HUMAN	J3KSS3_HUMAN,F8W1R0_HUMAN	UPI000004CCA6	.	.	.	5/17	.	PROSITE_profiles:PS50010,hmmpanther:PTHR12673:SF98,hmmpanther:PTHR12673,Pfam_domain:PF00621,Gene3D:1.20.900.10,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGATCAGGTA	byFrequency	5	BLCA
SLC2A13	0	.	GRCh37	12	40422151	40422151	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.877G>A	p.Asp293Asn	p.D293N	ENST00000280871	3/10	85	60	24	103	103	0	SLC2A13,missense_variant,p.Asp293Asn,ENST00000380858,;SLC2A13,missense_variant,p.Asp293Asn,ENST00000280871,;	T	ENSG00000151229	ENST00000280871	Transcript	missense_variant	928	877	293	D/N	Gat/Aat	COSM693242	.	.	-1	SLC2A13	HGNC	15956	protein_coding	YES	CCDS8736.2	ENSP00000280871	MYCT_HUMAN	.	UPI000066D913	.	tolerated(0.28)	benign(0.101)	3/10	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50850,hmmpanther:PTHR24063:SF303,hmmpanther:PTHR24063,Pfam_domain:PF00083,TIGRFAM_domain:TIGR00879,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATCATATT	.	5	BLCA
PDZRN4	0	.	GRCh37	12	41966336	41966336	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1755G>A	p.%3D	p.K585K	ENST00000402685	10/10	38	25	13	39	39	0	PDZRN4,synonymous_variant,p.%3D,ENST00000298919,;PDZRN4,synonymous_variant,p.%3D,ENST00000539469,;PDZRN4,synonymous_variant,p.%3D,ENST00000402685,;PDZRN4,non_coding_transcript_exon_variant,,ENST00000548316,;	A	ENSG00000165966	ENST00000402685	Transcript	synonymous_variant	1763	1755	585	K	aaG/aaA	.	.	.	1	PDZRN4	HGNC	30552	protein_coding	YES	CCDS53777.1	ENSP00000384197	PZRN4_HUMAN	B3KT02_HUMAN	UPI0000D621D0	.	.	.	10/10	.	hmmpanther:PTHR15545:SF6,hmmpanther:PTHR15545	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAAGAGAGA	.	5	BLCA
PRICKLE1	0	.	GRCh37	12	42858305	42858305	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1531C>T	p.His511Tyr	p.H511Y	ENST00000455697	7/8	79	51	28	96	96	0	PRICKLE1,missense_variant,p.His511Tyr,ENST00000345127,;PRICKLE1,missense_variant,p.His511Tyr,ENST00000455697,;PRICKLE1,missense_variant,p.His511Tyr,ENST00000445766,;PRICKLE1,missense_variant,p.His511Tyr,ENST00000552240,;PRICKLE1,missense_variant,p.His511Tyr,ENST00000548696,;PRICKLE1,downstream_gene_variant,,ENST00000551050,;PRICKLE1,downstream_gene_variant,,ENST00000552108,;PPHLN1,downstream_gene_variant,,ENST00000317560,;RP11-328C8.4,intron_variant,,ENST00000547824,;	A	ENSG00000139174	ENST00000455697	Transcript	missense_variant	1817	1531	511	H/Y	Cat/Tat	.	.	.	-1	PRICKLE1	HGNC	17019	protein_coding	YES	CCDS8742.1	ENSP00000401060	PRIC1_HUMAN	Q687H4_HUMAN,Q687H3_HUMAN,F8W1Q8_HUMAN,F8W1J1_HUMAN,F8VUG8_HUMAN	UPI000013D6F5	.	deleterious(0.04)	benign(0.155)	7/8	.	hmmpanther:PTHR24211,hmmpanther:PTHR24211:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATGATTAT	.	5	BLCA
ARID2	0	.	GRCh37	12	46245816	46245816	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3910C>T	p.%3D	p.L1304L	ENST00000334344	15/21	28	14	14	38	38	0	ARID2,synonymous_variant,p.%3D,ENST00000334344,;ARID2,synonymous_variant,p.%3D,ENST00000444670,;ARID2,synonymous_variant,p.%3D,ENST00000422737,;ARID2,upstream_gene_variant,,ENST00000457135,;ARID2,non_coding_transcript_exon_variant,,ENST00000479608,;	T	ENSG00000189079	ENST00000334344	Transcript	synonymous_variant	4082	3910	1304	L	Cta/Tta	.	.	.	1	ARID2	HGNC	18037	protein_coding	YES	CCDS31783.1	ENSP00000335044	ARID2_HUMAN	Q96SQ4_HUMAN,F8WCU9_HUMAN	UPI00001D7973	.	.	.	15/21	.	hmmpanther:PTHR22970:SF14,hmmpanther:PTHR22970	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGTCTACCT	.	5	BLCA
SCAF11	0	.	GRCh37	12	46318626	46318626	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3791T>A	p.Met1264Lys	p.M1264K	ENST00000369367	12/15	33	19	14	42	42	0	SCAF11,missense_variant,p.Met949Lys,ENST00000465950,;SCAF11,missense_variant,p.Met1264Lys,ENST00000369367,;SCAF11,missense_variant,p.Met1264Lys,ENST00000419565,;SCAF11,missense_variant,p.Met1072Lys,ENST00000549162,;SCAF11,downstream_gene_variant,,ENST00000484275,;SCAF11,upstream_gene_variant,,ENST00000547654,;SCAF11,upstream_gene_variant,,ENST00000550629,;SCAF11,downstream_gene_variant,,ENST00000547018,;SCAF11,upstream_gene_variant,,ENST00000550893,;SCAF11,downstream_gene_variant,,ENST00000547950,;	T	ENSG00000139218	ENST00000369367	Transcript	missense_variant	4025	3791	1264	M/K	aTg/aAg	.	.	.	-1	SCAF11	HGNC	10784	protein_coding	YES	CCDS8748.2	ENSP00000358374	SCAFB_HUMAN	F8VXG7_HUMAN	UPI0000D481F2	.	deleterious(0)	benign(0.397)	12/15	.	hmmpanther:PTHR15242:SF3,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGCATGAGG	.	5	BLCA
SLC38A2	0	.	GRCh37	12	46764322	46764322	+	Missense_Mutation	SNP	A	A	G	rs776764111	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287T>C	p.Met96Thr	p.M96T	ENST00000256689	4/16	90	63	27	122	122	0	SLC38A2,missense_variant,p.Met96Thr,ENST00000256689,;RP11-474P2.2,upstream_gene_variant,,ENST00000550319,;SLC38A2,non_coding_transcript_exon_variant,,ENST00000551405,;SLC38A2,non_coding_transcript_exon_variant,,ENST00000547252,;SLC38A2,upstream_gene_variant,,ENST00000548870,;SLC38A2,intron_variant,,ENST00000549258,;SLC38A2,downstream_gene_variant,,ENST00000553252,;	G	ENSG00000134294	ENST00000256689	Transcript	missense_variant	732	287	96	M/T	aTg/aCg	rs776764111	.	.	-1	SLC38A2	HGNC	13448	protein_coding	YES	CCDS8749.1	ENSP00000256689	S38A2_HUMAN	.	UPI000000121A	.	deleterious(0)	probably_damaging(0.944)	4/16	.	hmmpanther:PTHR22950,hmmpanther:PTHR22950:SF207,Pfam_domain:PF01490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCCATGGCA	byFrequency	5	BLCA
KDM5A	0	.	GRCh37	12	472224	472224	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.577G>A	p.Glu193Lys	p.E193K	ENST00000399788	5/28	87	60	27	109	109	0	KDM5A,missense_variant,p.Glu193Lys,ENST00000382815,;KDM5A,missense_variant,p.Glu193Lys,ENST00000399788,;KDM5A,intron_variant,,ENST00000544760,;KDM5A,downstream_gene_variant,,ENST00000536014,;KDM5A,downstream_gene_variant,,ENST00000535014,;	T	ENSG00000073614	ENST00000399788	Transcript	missense_variant	940	577	193	E/K	Gag/Aag	.	.	.	-1	KDM5A	HGNC	9886	protein_coding	YES	CCDS41736.1	ENSP00000382688	KDM5A_HUMAN	.	UPI0000DB2E73	.	tolerated(1)	benign(0.024)	5/28	.	hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCCACTT	.	5	BLCA
AMIGO2	0	.	GRCh37	12	47472633	47472633	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.153C>T	p.%3D	p.I51I	ENST00000266581	2/2	80	65	14	94	94	0	AMIGO2,synonymous_variant,p.%3D,ENST00000266581,;AMIGO2,synonymous_variant,p.%3D,ENST00000429635,;AMIGO2,synonymous_variant,p.%3D,ENST00000550413,;AMIGO2,synonymous_variant,p.%3D,ENST00000321382,;PCED1B,upstream_gene_variant,,ENST00000546455,;	A	ENSG00000139211	ENST00000266581	Transcript	synonymous_variant	620	153	51	I	atC/atT	COSM3792609	.	.	-1	AMIGO2	HGNC	24073	protein_coding	YES	CCDS8751.1	ENSP00000266581	AMGO2_HUMAN	B3KS95_HUMAN	UPI000000DC21	.	.	.	2/2	.	hmmpanther:PTHR24368,hmmpanther:PTHR24368:SF209,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACGATGTC	.	5	BLCA
PFKM	0	.	GRCh37	12	48501229	48501229	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73C>T	p.Gln25Ter	p.Q25*	ENST00000340802	2/25	102	61	41	154	154	0	PFKM,stop_gained,p.Gln25Ter,ENST00000546755,;PFKM,stop_gained,p.Gln25Ter,ENST00000340802,;PFKM,stop_gained,p.Gln25Ter,ENST00000548288,;PFKM,stop_gained,p.Gln25Ter,ENST00000552792,;PFKM,stop_gained,p.Gln25Ter,ENST00000549366,;PFKM,intron_variant,,ENST00000549003,;PFKM,intron_variant,,ENST00000549941,;PFKM,intron_variant,,ENST00000550924,;PFKM,intron_variant,,ENST00000550345,;PFKM,intron_variant,,ENST00000550257,;SENP1,upstream_gene_variant,,ENST00000551798,;SENP1,upstream_gene_variant,,ENST00000339976,;SENP1,upstream_gene_variant,,ENST00000004980,;SENP1,upstream_gene_variant,,ENST00000549518,;SENP1,upstream_gene_variant,,ENST00000551330,;SENP1,upstream_gene_variant,,ENST00000448372,;PFKM,stop_gained,p.Gln25Ter,ENST00000547581,;SENP1,upstream_gene_variant,,ENST00000547181,;SENP1,upstream_gene_variant,,ENST00000549882,;SENP1,upstream_gene_variant,,ENST00000552189,;	T	ENSG00000152556	ENST00000340802	Transcript	stop_gained	297	73	25	Q/*	Cag/Tag	.	.	.	1	PFKM	HGNC	8877	protein_coding	YES	CCDS53786.1	ENSP00000345771	K6PF_HUMAN	Q7KYX9_HUMAN,P78457_HUMAN,F8W1J8_HUMAN,F8VZQ1_HUMAN,F8VYK8_HUMAN,F8VW30_HUMAN,F8VUB8_HUMAN,F8VSL1_HUMAN,F8VNX2_HUMAN	UPI0000D621DC	.	.	.	2/25	.	PIRSF_domain:PIRSF000533	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGAGA	.	5	BLCA
RND1	0	.	GRCh37	12	49259502	49259502	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49G>A	p.Val17Ile	p.V17I	ENST00000309739	1/5	29	19	9	30	30	0	RND1,missense_variant,p.Val17Ile,ENST00000309739,;RND1,upstream_gene_variant,,ENST00000550607,;RND1,missense_variant,p.Val17Ile,ENST00000551243,;RND1,upstream_gene_variant,,ENST00000553260,;	T	ENSG00000172602	ENST00000309739	Transcript	missense_variant	180	49	17	V/I	Gtt/Att	.	.	.	-1	RND1	HGNC	18314	protein_coding	YES	CCDS8771.1	ENSP00000308461	RND1_HUMAN	H0YHG7_HUMAN	UPI000013388D	.	deleterious(0.04)	probably_damaging(0.97)	1/5	.	Prints_domain:PR00449,Superfamily_domains:SSF52540,SMART_domains:SM00175,SMART_domains:SM00174,SMART_domains:SM00173,TIGRFAM_domain:TIGR00231,Gene3D:3.40.50.300,Pfam_domain:PF00071,hmmpanther:PTHR24072,hmmpanther:PTHR24072:SF23,PROSITE_profiles:PS51420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAACGAGCT	.	5	BLCA
KMT2D	0	.	GRCh37	12	49427957	49427957	+	Nonsense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10633A>T	p.Lys3545Ter	p.K3545*	ENST00000301067	38/54	68	47	21	125	125	0	KMT2D,stop_gained,p.Lys3545Ter,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000549799,;KMT2D,downstream_gene_variant,,ENST00000549743,;KMT2D,upstream_gene_variant,,ENST00000552391,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	10633	10633	3545	K/*	Aag/Tag	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	38/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R3547H|c.10640G>A|3,BUFFER|p.R3277H|c.9830G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTTGGCAC	.	5	BLCA
KMT2D	0	.	GRCh37	12	49446744	49446744	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066C>T	p.Gln356Ter	p.Q356*	ENST00000301067	8/54	101	73	28	109	109	0	KMT2D,stop_gained,p.Gln356Ter,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000547610,;	A	ENSG00000167548	ENST00000301067	Transcript	stop_gained	1066	1066	356	Q/*	Cag/Tag	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	8/54	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTGACCTC	.	5	BLCA
LIMA1	0	.	GRCh37	12	50586323	50586323	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1055A>G	p.Glu352Gly	p.E352G	ENST00000394943	9/11	44	32	12	55	55	0	LIMA1,missense_variant,p.Glu191Gly,ENST00000552909,;LIMA1,missense_variant,p.Glu351Gly,ENST00000341247,;LIMA1,missense_variant,p.Glu352Gly,ENST00000394943,;LIMA1,missense_variant,p.Glu49Gly,ENST00000552491,;LIMA1,missense_variant,p.Glu49Gly,ENST00000547825,;LIMA1,missense_variant,p.Glu192Gly,ENST00000552783,;LIMA1,missense_variant,p.Glu191Gly,ENST00000552823,;RP3-405J10.3,upstream_gene_variant,,ENST00000552061,;LIMA1,non_coding_transcript_exon_variant,,ENST00000552008,;LIMA1,intron_variant,,ENST00000552338,;LIMA1,missense_variant,p.Glu351Gly,ENST00000552720,;LIMA1,downstream_gene_variant,,ENST00000552045,;	C	ENSG00000050405	ENST00000394943	Transcript	missense_variant	1165	1055	352	E/G	gAg/gGg	.	.	.	-1	LIMA1	HGNC	24636	protein_coding	YES	CCDS44877.1	ENSP00000378400	LIMA1_HUMAN	Q59FE8_HUMAN,F8VVQ7_HUMAN,F8VTU2_HUMAN	UPI0000EE6469	.	deleterious(0)	possibly_damaging(0.616)	9/11	.	hmmpanther:PTHR24206,hmmpanther:PTHR24206:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACCTCACTC	.	5	BLCA
LIMA1	0	.	GRCh37	12	50616033	50616033	+	Missense_Mutation	SNP	G	G	A	rs749831700	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.401C>T	p.Pro134Leu	p.P134L	ENST00000394943	4/11	70	47	23	72	72	0	LIMA1,missense_variant,p.Pro134Leu,ENST00000341247,;LIMA1,missense_variant,p.Pro134Leu,ENST00000394943,;LIMA1,5_prime_UTR_variant,,ENST00000552909,;LIMA1,5_prime_UTR_variant,,ENST00000552783,;LIMA1,5_prime_UTR_variant,,ENST00000552823,;LIMA1,downstream_gene_variant,,ENST00000551691,;LIMA1,downstream_gene_variant,,ENST00000550592,;RP3-405J10.4,intron_variant,,ENST00000551284,;LIMA1,non_coding_transcript_exon_variant,,ENST00000550611,;LIMA1,upstream_gene_variant,,ENST00000552008,;LIMA1,missense_variant,p.Pro134Leu,ENST00000552720,;LIMA1,upstream_gene_variant,,ENST00000551486,;RP3-405J10.2,upstream_gene_variant,,ENST00000548666,;	A	ENSG00000050405	ENST00000394943	Transcript	missense_variant	511	401	134	P/L	cCt/cTt	rs749831700	.	.	-1	LIMA1	HGNC	24636	protein_coding	YES	CCDS44877.1	ENSP00000378400	LIMA1_HUMAN	Q59FE8_HUMAN,F8VVQ7_HUMAN,F8VTU2_HUMAN	UPI0000EE6469	.	deleterious(0.01)	benign(0.126)	4/11	.	hmmpanther:PTHR24206,hmmpanther:PTHR24206:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCAGGAGGT	.	5	BLCA
TMPRSS12	0	.	GRCh37	12	51236848	51236848	+	Missense_Mutation	SNP	C	C	T	rs774035677	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.101C>T	p.Ser34Leu	p.S34L	ENST00000398458	1/5	17	9	7	11	11	0	TMPRSS12,missense_variant,p.Ser34Leu,ENST00000398458,;TMPRSS12,missense_variant,p.Ser34Leu,ENST00000551456,;RN7SL519P,upstream_gene_variant,,ENST00000497925,;RP11-60E8.3,downstream_gene_variant,,ENST00000605614,;	T	ENSG00000186452	ENST00000398458	Transcript	missense_variant	133	101	34	S/L	tCg/tTg	rs774035677	.	.	1	TMPRSS12	HGNC	28779	protein_coding	YES	CCDS44881.1	ENSP00000381476	TMPSC_HUMAN	.	UPI000019741B	.	tolerated_low_confidence(0.2)	benign(0.028)	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCGCCGG	.	5	BLCA
AC078864.1	0	.	GRCh37	12	52501354	52501354	+	3'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000582209	.	18	11	7	20	20	0	AC078864.1,downstream_gene_variant,,ENST00000582209,;OR7E47P,non_coding_transcript_exon_variant,,ENST00000546981,;OR7E47P,non_coding_transcript_exon_variant,,ENST00000546390,;RP1-288H2.2,upstream_gene_variant,,ENST00000547538,;OR7E47P,non_coding_transcript_exon_variant,,ENST00000548970,;	A	ENSG00000265009	ENST00000582209	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	3064	-1	AC078864.1	Clone_based_ensembl_gene	.	miRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCAGATGAC	.	2	BLCA
KRT86	0	.	GRCh37	12	52700054	52700054	+	Missense_Mutation	SNP	G	G	A	rs121909129	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237G>A	p.Glu413Lys	p.E413K	ENST00000293525	7/9	67	59	8	89	89	0	KRT86,missense_variant,p.Glu413Lys,ENST00000293525,;KRT86,missense_variant,p.Glu413Lys,ENST00000423955,;KRT86,missense_variant,p.Glu413Lys,ENST00000544024,;KRT86,downstream_gene_variant,,ENST00000553310,;RP11-845M18.6,downstream_gene_variant,,ENST00000552441,;	A	ENSG00000170442	ENST00000293525	Transcript	missense_variant	1289	1237	413	E/K	Gag/Aag	rs121909129,CM970853,HIFD_KRT86:c.1237G>A	.	.	1	KRT86	HGNC	6463	protein_coding	YES	CCDS41785.1	ENSP00000293525	KRT86_HUMAN	U3KPR1_HUMAN,Q9NSB0_HUMAN,Q8NFV1_HUMAN,Q8N120_HUMAN	UPI000006E57E	.	deleterious(0.02)	possibly_damaging(0.485)	7/9	.	hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF143,Pfam_domain:PF00038,Gene3D:1.20.5.170	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,0	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGGCGAGGAG	byCluster	4	BLCA
KRT83	0	.	GRCh37	12	52713036	52713036	+	Missense_Mutation	SNP	G	G	A	rs200690744	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.497C>T	p.Thr166Ile	p.T166I	ENST00000293670	2/9	97	64	33	134	134	0	KRT83,missense_variant,p.Thr166Ile,ENST00000293670,;AC121757.1,downstream_gene_variant,,ENST00000594763,;	A	ENSG00000170523	ENST00000293670	Transcript	missense_variant	560	497	166	T/I	aCt/aTt	rs200690744,COSM3812309	.	.	-1	KRT83	HGNC	6460	protein_coding	YES	CCDS8823.1	ENSP00000293670	KRT83_HUMAN	Q8NFV1_HUMAN,Q8N120_HUMAN	UPI0000070AF2	.	deleterious(0.01)	possibly_damaging(0.853)	2/9	.	hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF143,Pfam_domain:PF00038	C:0.0038	C:0	C:0	.	C:0	C:0	C:0.0194	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGTCTCG	byFrequency|byCluster|by1000G	5	BLCA
KRT79	0	.	GRCh37	12	53218026	53218026	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.976G>A	p.Ala326Thr	p.A326T	ENST00000330553	5/9	56	37	19	80	80	0	KRT79,missense_variant,p.Ala326Thr,ENST00000330553,;KRT79,upstream_gene_variant,,ENST00000549255,;KRT79,non_coding_transcript_exon_variant,,ENST00000546453,;	T	ENSG00000185640	ENST00000330553	Transcript	missense_variant	1011	976	326	A/T	Gcc/Acc	.	.	.	-1	KRT79	HGNC	28930	protein_coding	YES	CCDS8839.1	ENSP00000328358	K2C79_HUMAN	.	UPI0000198204	.	deleterious(0.04)	benign(0.043)	5/9	.	Pfam_domain:PF00038,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF138	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGGCAATCA	.	5	BLCA
KRT8	0	.	GRCh37	12	53298815	53298815	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.39-4C>T	.	.	ENST00000552150	.	8	5	3	16	16	0	KRT8,splice_region_variant,,ENST00000546826,;KRT8,splice_region_variant,,ENST00000548998,;KRT8,splice_region_variant,,ENST00000546897,;KRT8,splice_region_variant,,ENST00000552551,;KRT8,splice_region_variant,,ENST00000546542,;KRT8,splice_region_variant,,ENST00000552150,;KRT8,5_prime_UTR_variant,,ENST00000547413,;KRT8,5_prime_UTR_variant,,ENST00000293308,;KRT8,upstream_gene_variant,,ENST00000546900,;KRT8,upstream_gene_variant,,ENST00000547176,;KRT8,non_coding_transcript_exon_variant,,ENST00000550170,;KRT8,non_coding_transcript_exon_variant,,ENST00000546583,;KRT8,upstream_gene_variant,,ENST00000549176,;KRT8,upstream_gene_variant,,ENST00000547031,;	A	ENSG00000170421	ENST00000552150	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	KRT8	HGNC	6446	protein_coding	YES	CCDS58234.1	ENSP00000449404	K2C8_HUMAN	Q969I0_HUMAN,Q7L4M3_HUMAN,F8VUG2_HUMAN,F8VRG4_HUMAN,F8VP67_HUMAN	UPI0001892789	.	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTAGAAGGA	.	2	BLCA
KRT18	0	.	GRCh37	12	53342857	53342857	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-101G>A	.	.	ENST00000388835	1/7	20	12	7	35	35	0	KRT18,5_prime_UTR_variant,,ENST00000388835,;KRT8,intron_variant,,ENST00000546826,;KRT8,intron_variant,,ENST00000552551,;KRT8,intron_variant,,ENST00000546897,;KRT8,intron_variant,,ENST00000548998,;KRT18,intron_variant,,ENST00000388837,;KRT18,intron_variant,,ENST00000550600,;AC107016.2,upstream_gene_variant,,ENST00000581256,;KRT8,intron_variant,,ENST00000549198,;KRT8,intron_variant,,ENST00000551318,;KRT8,intron_variant,,ENST00000552877,;KRT18,upstream_gene_variant,,ENST00000548015,;KRT18,upstream_gene_variant,,ENST00000546656,;KRT18,upstream_gene_variant,,ENST00000549078,;KRT8,downstream_gene_variant,,ENST00000546921,;KRT18,upstream_gene_variant,,ENST00000548496,;AC107016.1,downstream_gene_variant,,ENST00000432903,;	A	ENSG00000111057	ENST00000388835	Transcript	5_prime_UTR_variant	110	.	.	.	.	.	.	.	1	KRT18	HGNC	6430	protein_coding	YES	CCDS31809.1	ENSP00000373487	K1C18_HUMAN	I6L965_HUMAN	UPI000004284B	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGCGGGGCC	.	5	BLCA
KRT18	0	.	GRCh37	12	53344175	53344175	+	Missense_Mutation	SNP	G	G	T	rs11551626	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481G>T	p.Ala161Ser	p.A161S	ENST00000388835	2/7	341	223	117	394	394	0	KRT18,missense_variant,p.Ala161Ser,ENST00000388835,;KRT18,missense_variant,p.Ala161Ser,ENST00000388837,;KRT18,missense_variant,p.Ala161Ser,ENST00000550600,;KRT8,upstream_gene_variant,,ENST00000546826,;KRT8,upstream_gene_variant,,ENST00000552551,;KRT8,upstream_gene_variant,,ENST00000546897,;KRT8,upstream_gene_variant,,ENST00000548998,;AC107016.2,upstream_gene_variant,,ENST00000581256,;KRT8,upstream_gene_variant,,ENST00000549198,;KRT8,upstream_gene_variant,,ENST00000551318,;KRT8,upstream_gene_variant,,ENST00000552877,;KRT18,non_coding_transcript_exon_variant,,ENST00000548015,;KRT18,non_coding_transcript_exon_variant,,ENST00000549078,;KRT18,upstream_gene_variant,,ENST00000546656,;KRT8,upstream_gene_variant,,ENST00000546921,;KRT18,upstream_gene_variant,,ENST00000548496,;AC107016.1,downstream_gene_variant,,ENST00000432903,;	T	ENSG00000111057	ENST00000388835	Transcript	missense_variant	691	481	161	A/S	Gct/Tct	rs11551626	.	.	1	KRT18	HGNC	6430	protein_coding	YES	CCDS31809.1	ENSP00000373487	K1C18_HUMAN	I6L965_HUMAN	UPI000004284B	.	deleterious(0.04)	probably_damaging(0.933)	2/7	.	hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF35,Pfam_domain:PF00038,Prints_domain:PR01248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGCTGAT	.	5	BLCA
TENC1	0	.	GRCh37	12	53453676	53453676	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2281G>A	p.Asp761Asn	p.D761N	ENST00000314276	18/29	37	27	10	36	36	0	TENC1,missense_variant,p.Asp627Asn,ENST00000379902,;TENC1,missense_variant,p.Asp751Asn,ENST00000546602,;TENC1,missense_variant,p.Asp751Asn,ENST00000549700,;TENC1,missense_variant,p.Asp761Asn,ENST00000314276,;TENC1,missense_variant,p.Asp741Asn,ENST00000451358,;TENC1,missense_variant,p.Asp751Asn,ENST00000314250,;TENC1,missense_variant,p.Asp751Asn,ENST00000552570,;TENC1,downstream_gene_variant,,ENST00000602335,;SPRYD3,downstream_gene_variant,,ENST00000301463,;TENC1,non_coding_transcript_exon_variant,,ENST00000549311,;TENC1,upstream_gene_variant,,ENST00000551583,;TENC1,upstream_gene_variant,,ENST00000550660,;TENC1,downstream_gene_variant,,ENST00000549789,;TENC1,upstream_gene_variant,,ENST00000550048,;TENC1,upstream_gene_variant,,ENST00000552168,;TENC1,upstream_gene_variant,,ENST00000546772,;TENC1,downstream_gene_variant,,ENST00000547223,;TENC1,downstream_gene_variant,,ENST00000546759,;TENC1,downstream_gene_variant,,ENST00000549498,;TENC1,downstream_gene_variant,,ENST00000551693,;	A	ENSG00000111077	ENST00000314276	Transcript	missense_variant	2476	2281	761	D/N	Gac/Aac	.	.	.	1	TENC1	HGNC	19737	protein_coding	YES	CCDS8842.1	ENSP00000319756	TENC1_HUMAN	.	UPI000013F790	.	tolerated(0.05)	benign(0.433)	18/29	.	hmmpanther:PTHR12583,hmmpanther:PTHR12583:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGACTAC	.	5	BLCA
PFDN5	0	.	GRCh37	12	53689709	53689709	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159G>A	p.%3D	p.L53L	ENST00000551018	2/6	20	13	7	34	34	0	PFDN5,synonymous_variant,p.%3D,ENST00000334478,;PFDN5,synonymous_variant,p.%3D,ENST00000551018,;PFDN5,synonymous_variant,p.%3D,ENST00000549759,;PFDN5,intron_variant,,ENST00000550846,;PFDN5,intron_variant,,ENST00000351500,;C12orf10,upstream_gene_variant,,ENST00000549488,;ESPL1,downstream_gene_variant,,ENST00000552462,;ESPL1,downstream_gene_variant,,ENST00000257934,;C12orf10,upstream_gene_variant,,ENST00000548632,;C12orf10,upstream_gene_variant,,ENST00000267103,;RP11-680A11.5,downstream_gene_variant,,ENST00000550263,;PFDN5,synonymous_variant,p.%3D,ENST00000243040,;PFDN5,non_coding_transcript_exon_variant,,ENST00000549995,;PFDN5,non_coding_transcript_exon_variant,,ENST00000547228,;PFDN5,non_coding_transcript_exon_variant,,ENST00000552341,;PFDN5,non_coding_transcript_exon_variant,,ENST00000550069,;PFDN5,non_coding_transcript_exon_variant,,ENST00000551223,;PFDN5,non_coding_transcript_exon_variant,,ENST00000550513,;PFDN5,intron_variant,,ENST00000547130,;PFDN5,intron_variant,,ENST00000552742,;PFDN5,intron_variant,,ENST00000550880,;C12orf10,upstream_gene_variant,,ENST00000551670,;PFDN5,upstream_gene_variant,,ENST00000553171,;ESPL1,downstream_gene_variant,,ENST00000549154,;C12orf10,upstream_gene_variant,,ENST00000548845,;PFDN5,upstream_gene_variant,,ENST00000550964,;C12orf10,upstream_gene_variant,,ENST00000551131,;PFDN5,upstream_gene_variant,,ENST00000552548,;ESPL1,downstream_gene_variant,,ENST00000552671,;PFDN5,upstream_gene_variant,,ENST00000548984,;	A	ENSG00000123349	ENST00000551018	Transcript	synonymous_variant	436	159	53	L	ctG/ctA	.	.	.	1	PFDN5	HGNC	8869	protein_coding	YES	CCDS8853.1	ENSP00000447942	PFD5_HUMAN	.	UPI00000009FD	.	.	.	2/6	.	HAMAP:MF_00308,hmmpanther:PTHR12674,Pfam_domain:PF02996,Gene3D:1.10.287.370,TIGRFAM_domain:TIGR00293,Superfamily_domains:SSF46579	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCTGAACAA	.	2	BLCA
CALCOCO1	0	.	GRCh37	12	54106774	54106774	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1898+110C>T	.	.	ENST00000550804	.	11	7	4	17	17	0	CALCOCO1,3_prime_UTR_variant,,ENST00000548263,;CALCOCO1,intron_variant,,ENST00000262059,;CALCOCO1,intron_variant,,ENST00000430117,;CALCOCO1,intron_variant,,ENST00000546443,;CALCOCO1,intron_variant,,ENST00000550804,;CALCOCO1,downstream_gene_variant,,ENST00000549935,;CALCOCO1,downstream_gene_variant,,ENST00000552282,;CALCOCO1,downstream_gene_variant,,ENST00000549613,;	A	ENSG00000012822	ENST00000550804	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	CALCOCO1	HGNC	29306	protein_coding	YES	CCDS8864.1	ENSP00000449960	CACO1_HUMAN	F8W0X2_HUMAN,F8VZI3_HUMAN,F8VWP8_HUMAN,F8VUB3_HUMAN,F8VRQ9_HUMAN,F8VQE3_HUMAN,F8VPN1_HUMAN	UPI0000037D7A	.	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGCTGAGGCC	.	3	BLCA
CBX5	0	.	GRCh37	12	54645879	54645879	+	Silent	SNP	C	C	T	rs550533022	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>A	p.%3D	p.R90R	ENST00000209875	3/5	144	101	43	159	159	0	CBX5,synonymous_variant,p.%3D,ENST00000209875,;CBX5,synonymous_variant,p.%3D,ENST00000552562,;CBX5,synonymous_variant,p.%3D,ENST00000550411,;CBX5,synonymous_variant,p.%3D,ENST00000439541,;RN7SL390P,downstream_gene_variant,,ENST00000470634,;CBX5,non_coding_transcript_exon_variant,,ENST00000547872,;	T	ENSG00000094916	ENST00000209875	Transcript	synonymous_variant	407	270	90	R	agG/agA	rs550533022	.	.	-1	CBX5	HGNC	1555	protein_coding	YES	CCDS8875.1	ENSP00000209875	CBX5_HUMAN	F8VNY3_HUMAN	UPI00001271FC	.	.	.	3/5	.	hmmpanther:PTHR22812,hmmpanther:PTHR22812:SF85	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCCTCTT	by1000G	5	BLCA
RDH5	0	.	GRCh37	12	56115081	56115081	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.113C>T	p.Ser38Leu	p.S38L	ENST00000257895	2/5	74	48	26	98	98	0	RDH5,missense_variant,p.Ser38Leu,ENST00000548082,;RDH5,missense_variant,p.Ser38Leu,ENST00000257895,;RDH5,splice_region_variant,,ENST00000547072,;RDH5,5_prime_UTR_variant,,ENST00000552930,;RP11-644F5.10,intron_variant,,ENST00000549424,;RP11-644F5.10,intron_variant,,ENST00000550412,;CD63,downstream_gene_variant,,ENST00000552164,;CD63,downstream_gene_variant,,ENST00000420846,;BLOC1S1,downstream_gene_variant,,ENST00000548556,;CD63,downstream_gene_variant,,ENST00000548898,;CD63,downstream_gene_variant,,ENST00000548160,;BLOC1S1,downstream_gene_variant,,ENST00000547076,;BLOC1S1,downstream_gene_variant,,ENST00000549147,;CD63,downstream_gene_variant,,ENST00000549117,;CD63,downstream_gene_variant,,ENST00000257857,;CD63,downstream_gene_variant,,ENST00000551173,;CD63,downstream_gene_variant,,ENST00000552692,;BLOC1S1,downstream_gene_variant,,ENST00000257899,;BLOC1S1,downstream_gene_variant,,ENST00000548925,;BLOC1S1,downstream_gene_variant,,ENST00000551926,;CD63,downstream_gene_variant,,ENST00000546939,;CD63,downstream_gene_variant,,ENST00000550776,;CD63,downstream_gene_variant,,ENST00000552754,;CD63,downstream_gene_variant,,ENST00000552067,;RDH5,intron_variant,,ENST00000553160,;RDH5,missense_variant,p.Ser35Leu,ENST00000548123,;RDH5,splice_region_variant,,ENST00000553187,;RDH5,splice_region_variant,,ENST00000548486,;RDH5,splice_region_variant,,ENST00000547301,;RDH5,non_coding_transcript_exon_variant,,ENST00000550608,;RP11-644F5.10,intron_variant,,ENST00000551946,;CD63,downstream_gene_variant,,ENST00000550050,;CD63,downstream_gene_variant,,ENST00000555199,;CD63,downstream_gene_variant,,ENST00000548117,;BLOC1S1,downstream_gene_variant,,ENST00000553100,;RDH5,upstream_gene_variant,,ENST00000551444,;	T	ENSG00000135437	ENST00000257895	Transcript	missense_variant	265	113	38	S/L	tCa/tTa	.	.	.	1	RDH5	HGNC	9940	protein_coding	YES	CCDS31829.1	ENSP00000257895	RDH1_HUMAN	F8VVC7_HUMAN,F8VUB9_HUMAN,B4DDS2_HUMAN	UPI0000034C0B	.	deleterious(0.02)	probably_damaging(0.976)	2/5	.	Prints_domain:PR00081,Superfamily_domains:SSF51735,Pfam_domain:PF00106,Gene3D:3.40.50.720,hmmpanther:PTHR24316:SF285,hmmpanther:PTHR24316	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCAGGCT	.	5	BLCA
ERBB3	0	.	GRCh37	12	56478817	56478817	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.273G>A	p.Met91Ile	p.M91I	ENST00000267101	3/28	66	50	16	112	112	0	ERBB3,missense_variant,p.Met91Ile,ENST00000549282,;ERBB3,missense_variant,p.Met32Ile,ENST00000415288,;ERBB3,missense_variant,p.Met32Ile,ENST00000549061,;ERBB3,missense_variant,p.Met91Ile,ENST00000267101,;ERBB3,missense_variant,p.Met32Ile,ENST00000549672,;ERBB3,missense_variant,p.Met91Ile,ENST00000411731,;ERBB3,intron_variant,,ENST00000450146,;ERBB3,missense_variant,p.Met91Ile,ENST00000551242,;ERBB3,missense_variant,p.Met91Ile,ENST00000551085,;ERBB3,non_coding_transcript_exon_variant,,ENST00000546884,;ERBB3,intron_variant,,ENST00000550869,;ERBB3,upstream_gene_variant,,ENST00000549472,;ERBB3,upstream_gene_variant,,ENST00000551176,;ERBB3,upstream_gene_variant,,ENST00000546748,;	A	ENSG00000065361	ENST00000267101	Transcript	missense_variant	713	273	91	M/I	atG/atA	COSM1299640,COSM1299638,COSM1299636,COSM122890,COSM1299639,COSM1299637	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	tolerated(0.23)	benign(0.082)	3/28	.	hmmpanther:PTHR24416:SF88,hmmpanther:PTHR24416,Gene3D:3.80.20.20,Pfam_domain:PF01030,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGAATGA	.	5	BLCA
ERBB3	0	.	GRCh37	12	56490899	56490899	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2345C>T	p.Ser782Phe	p.S782F	ENST00000267101	20/28	60	40	20	75	75	0	ERBB3,missense_variant,p.Ser23Phe,ENST00000553131,;ERBB3,missense_variant,p.Ser723Phe,ENST00000415288,;ERBB3,missense_variant,p.Ser139Phe,ENST00000450146,;ERBB3,missense_variant,p.Ser782Phe,ENST00000267101,;ERBB3,intron_variant,,ENST00000550070,;RP11-603J24.9,upstream_gene_variant,,ENST00000548861,;ERBB3,upstream_gene_variant,,ENST00000549832,;ERBB3,missense_variant,p.Ser782Phe,ENST00000551085,;ERBB3,intron_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;ERBB3,downstream_gene_variant,,ENST00000549644,;ERBB3,downstream_gene_variant,,ENST00000550828,;ERBB3,downstream_gene_variant,,ENST00000549205,;ERBB3,upstream_gene_variant,,ENST00000552691,;ERBB3,upstream_gene_variant,,ENST00000548709,;	T	ENSG00000065361	ENST00000267101	Transcript	missense_variant	2785	2345	782	S/F	tCt/tTt	.	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	deleterious(0)	possibly_damaging(0.872)	20/28	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF88,hmmpanther:PTHR24416,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000619,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCTCTGC	.	5	BLCA
PA2G4	0	.	GRCh37	12	56504454	56504454	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820G>A	p.Asp274Asn	p.D274N	ENST00000303305	9/13	60	42	17	50	50	0	PA2G4,missense_variant,p.Asp274Asn,ENST00000303305,;PA2G4,missense_variant,p.Asp274Asn,ENST00000552766,;PA2G4,downstream_gene_variant,,ENST00000553057,;RP11-603J24.9,downstream_gene_variant,,ENST00000548861,;PA2G4,downstream_gene_variant,,ENST00000551061,;RP11-603J24.17,intron_variant,,ENST00000548595,;PA2G4,non_coding_transcript_exon_variant,,ENST00000552266,;PA2G4,downstream_gene_variant,,ENST00000550166,;PA2G4,downstream_gene_variant,,ENST00000552528,;	A	ENSG00000170515	ENST00000303305	Transcript	missense_variant	1239	820	274	D/N	Gat/Aat	.	.	.	1	PA2G4	HGNC	8550	protein_coding	YES	CCDS8902.1	ENSP00000302886	PA2G4_HUMAN	Q6PIN5_HUMAN,F8VZ69_HUMAN,A8K6Y1_HUMAN	UPI0000049B6B	.	tolerated(0.28)	benign(0.002)	9/13	.	Superfamily_domains:SSF46785,Gene3D:1.10.10.10,TIGRFAM_domain:TIGR00495,hmmpanther:PTHR10804:SF83,hmmpanther:PTHR10804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTGATGCC	.	5	BLCA
ESYT1	0	.	GRCh37	12	56527631	56527631	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1447T>C	p.Tyr483His	p.Y483H	ENST00000541590	13/32	60	47	13	78	78	0	ESYT1,missense_variant,p.Tyr483His,ENST00000267113,;ESYT1,missense_variant,p.Tyr483His,ENST00000394048,;ESYT1,missense_variant,p.Tyr483His,ENST00000541590,;ESYT1,downstream_gene_variant,,ENST00000551790,;RP11-603J24.5,upstream_gene_variant,,ENST00000549438,;RP11-603J24.5,upstream_gene_variant,,ENST00000550947,;ESYT1,downstream_gene_variant,,ENST00000550986,;ESYT1,upstream_gene_variant,,ENST00000550878,;ESYT1,upstream_gene_variant,,ENST00000551112,;ESYT1,downstream_gene_variant,,ENST00000550179,;ESYT1,upstream_gene_variant,,ENST00000547667,;	C	ENSG00000139641	ENST00000541590	Transcript	missense_variant	1500	1447	483	Y/H	Tac/Cac	.	.	.	1	ESYT1	HGNC	29534	protein_coding	YES	CCDS53801.1	ENSP00000445952	ESYT1_HUMAN	F8VZB1_HUMAN	UPI0000D720B2	.	tolerated(0.07)	probably_damaging(0.999)	13/32	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,Pfam_domain:PF00168,hmmpanther:PTHR10774,hmmpanther:PTHR10774:SF26,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTCTACCTG	.	5	BLCA
SMARCC2	0	.	GRCh37	12	56581078	56581078	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124G>A	p.Glu42Lys	p.E42K	ENST00000267064	2/28	84	55	29	97	97	0	SMARCC2,missense_variant,p.Glu42Lys,ENST00000267064,;SMARCC2,missense_variant,p.Glu42Lys,ENST00000550164,;SMARCC2,missense_variant,p.Glu42Lys,ENST00000394023,;SMARCC2,missense_variant,p.Glu42Lys,ENST00000347471,;RP11-977G19.5,intron_variant,,ENST00000553176,;SMARCC2,non_coding_transcript_exon_variant,,ENST00000550859,;SMARCC2,missense_variant,p.Glu42Lys,ENST00000552674,;SMARCC2,missense_variant,p.Glu42Lys,ENST00000550519,;SMARCC2,non_coding_transcript_exon_variant,,ENST00000550150,;SMARCC2,non_coding_transcript_exon_variant,,ENST00000547356,;SMARCC2,upstream_gene_variant,,ENST00000549757,;SMARCC2,upstream_gene_variant,,ENST00000552627,;	T	ENSG00000139613	ENST00000267064	Transcript	missense_variant	211	124	42	E/K	Gaa/Aaa	.	.	.	-1	SMARCC2	HGNC	11105	protein_coding	YES	CCDS8907.1	ENSP00000267064	SMRC2_HUMAN	F8VZW6_HUMAN	UPI0000071C4E	.	deleterious(0)	benign(0.292)	2/28	.	hmmpanther:PTHR12802:SF38,hmmpanther:PTHR12802	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCAGCTT	.	5	BLCA
ANKRD52	0	.	GRCh37	12	56646861	56646861	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1110C>T	p.%3D	p.I370I	ENST00000267116	11/28	13	10	3	12	12	0	ANKRD52,synonymous_variant,p.%3D,ENST00000267116,;ANKRD52,downstream_gene_variant,,ENST00000551023,;ANKRD52,downstream_gene_variant,,ENST00000548081,;	A	ENSG00000139645	ENST00000267116	Transcript	synonymous_variant	1232	1110	370	I	atC/atT	.	.	.	-1	ANKRD52	HGNC	26614	protein_coding	YES	CCDS44920.1	ENSP00000267116	ANR52_HUMAN	.	UPI0000237861	.	.	.	11/28	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24158:SF17,hmmpanther:PTHR24158,Gene3D:1.25.40.20,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCATGGATGCC	.	2	BLCA
PAN2	0	.	GRCh37	12	56716401	56716401	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2647G>A	p.Glu883Lys	p.E883K	ENST00000425394	18/26	41	24	16	72	72	0	PAN2,missense_variant,p.Glu883Lys,ENST00000425394,;PAN2,missense_variant,p.Glu879Lys,ENST00000440411,;PAN2,missense_variant,p.Glu882Lys,ENST00000257931,;PAN2,missense_variant,p.Glu883Lys,ENST00000548043,;PAN2,downstream_gene_variant,,ENST00000547572,;PAN2,upstream_gene_variant,,ENST00000549090,;PAN2,splice_region_variant,,ENST00000547226,;PAN2,splice_region_variant,,ENST00000551359,;PAN2,non_coding_transcript_exon_variant,,ENST00000552630,;PAN2,downstream_gene_variant,,ENST00000550555,;PAN2,downstream_gene_variant,,ENST00000548982,;PAN2,downstream_gene_variant,,ENST00000552868,;PAN2,downstream_gene_variant,,ENST00000549073,;PAN2,upstream_gene_variant,,ENST00000550028,;PAN2,upstream_gene_variant,,ENST00000553230,;PAN2,downstream_gene_variant,,ENST00000549348,;PAN2,upstream_gene_variant,,ENST00000547100,;PAN2,downstream_gene_variant,,ENST00000547994,;	T	ENSG00000135473	ENST00000425394	Transcript	missense_variant	3024	2647	883	E/K	Gag/Aag	.	.	.	-1	PAN2	HGNC	20074	protein_coding	YES	CCDS44922.1	ENSP00000401721	PAN2_HUMAN	F8VXK8_HUMAN	UPI0000577D0A	.	tolerated(0.09)	probably_damaging(0.999)	18/26	.	PROSITE_profiles:PS50235,hmmpanther:PTHR15728,hmmpanther:PTHR15728:SF0,Pfam_domain:PF13423,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCCTTGC	.	5	BLCA
PAN2	0	.	GRCh37	12	56716989	56716989	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2362G>A	p.Glu788Lys	p.E788K	ENST00000425394	17/26	86	56	30	116	116	0	PAN2,missense_variant,p.Glu788Lys,ENST00000425394,;PAN2,missense_variant,p.Glu784Lys,ENST00000440411,;PAN2,missense_variant,p.Glu787Lys,ENST00000257931,;PAN2,missense_variant,p.Glu788Lys,ENST00000548043,;PAN2,downstream_gene_variant,,ENST00000547572,;PAN2,upstream_gene_variant,,ENST00000549090,;PAN2,non_coding_transcript_exon_variant,,ENST00000547226,;PAN2,non_coding_transcript_exon_variant,,ENST00000551359,;PAN2,non_coding_transcript_exon_variant,,ENST00000549348,;PAN2,downstream_gene_variant,,ENST00000550555,;PAN2,downstream_gene_variant,,ENST00000548982,;PAN2,upstream_gene_variant,,ENST00000552630,;PAN2,downstream_gene_variant,,ENST00000552868,;PAN2,downstream_gene_variant,,ENST00000549073,;PAN2,upstream_gene_variant,,ENST00000550028,;PAN2,upstream_gene_variant,,ENST00000553230,;PAN2,upstream_gene_variant,,ENST00000547100,;PAN2,downstream_gene_variant,,ENST00000547518,;PAN2,downstream_gene_variant,,ENST00000547994,;	T	ENSG00000135473	ENST00000425394	Transcript	missense_variant	2739	2362	788	E/K	Gaa/Aaa	.	.	.	-1	PAN2	HGNC	20074	protein_coding	YES	CCDS44922.1	ENSP00000401721	PAN2_HUMAN	F8VXK8_HUMAN	UPI0000577D0A	.	tolerated(0.53)	benign(0.031)	17/26	.	PROSITE_profiles:PS50235,hmmpanther:PTHR15728,hmmpanther:PTHR15728:SF0,Pfam_domain:PF13423	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TAGTTCCTTCC	.	3	BLCA
IL23A	0	.	GRCh37	12	56732769	56732769	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-60G>A	.	.	ENST00000228534	1/4	17	11	6	14	14	0	IL23A,5_prime_UTR_variant,,ENST00000228534,;PAN2,upstream_gene_variant,,ENST00000257931,;PAN2,upstream_gene_variant,,ENST00000440411,;STAT2,downstream_gene_variant,,ENST00000557235,;STAT2,downstream_gene_variant,,ENST00000314128,;STAT2,downstream_gene_variant,,ENST00000556539,;	A	ENSG00000110944	ENST00000228534	Transcript	5_prime_UTR_variant	107	.	.	.	.	.	.	.	1	IL23A	HGNC	15488	protein_coding	YES	CCDS8916.1	ENSP00000228534	IL23A_HUMAN	.	UPI0000034E42	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGATTCC	.	5	BLCA
TIMELESS	0	.	GRCh37	12	56826150	56826150	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.687+3G>A	.	.	ENST00000553532	.	82	26	56	119	119	0	TIMELESS,splice_region_variant,,ENST00000553532,;TIMELESS,splice_region_variant,,ENST00000554616,;TIMELESS,splice_region_variant,,ENST00000229201,;	T	ENSG00000111602	ENST00000553532	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	TIMELESS	HGNC	11813	protein_coding	YES	CCDS8918.1	ENSP00000450607	TIM_HUMAN	.	UPI000013C8EA	.	.	.	.	7/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCACCTG	.	4	BLCA
ATP5B	0	.	GRCh37	12	57038822	57038822	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.311-83G>A	.	.	ENST00000262030	.	84	60	24	94	94	0	ATP5B,intron_variant,,ENST00000552104,;ATP5B,intron_variant,,ENST00000552959,;ATP5B,intron_variant,,ENST00000553007,;ATP5B,intron_variant,,ENST00000552919,;ATP5B,intron_variant,,ENST00000262030,;ATP5B,intron_variant,,ENST00000551020,;ATP5B,upstream_gene_variant,,ENST00000551570,;SNORD59A,non_coding_transcript_exon_variant,,ENST00000384304,;ATP5B,intron_variant,,ENST00000547808,;ATP5B,intron_variant,,ENST00000548647,;ATP5B,intron_variant,,ENST00000548474,;ATP5B,upstream_gene_variant,,ENST00000547250,;ATP5B,upstream_gene_variant,,ENST00000550162,;	T	ENSG00000110955	ENST00000262030	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ATP5B	HGNC	830	protein_coding	YES	CCDS8924.1	ENSP00000262030	ATPB_HUMAN	Q0QEN7_HUMAN	UPI000012644E	.	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTACCTAAA	.	5	BLCA
PTGES3	0	.	GRCh37	12	57081748	57081748	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2+34G>A	.	.	ENST00000262033	.	25	19	6	29	29	0	PTGES3,intron_variant,,ENST00000448157,;PTGES3,intron_variant,,ENST00000414274,;PTGES3,intron_variant,,ENST00000262033,;PTGES3,intron_variant,,ENST00000436399,;PTGES3,intron_variant,,ENST00000456859,;PTGES3,non_coding_transcript_exon_variant,,ENST00000537473,;	T	ENSG00000110958	ENST00000262033	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PTGES3	HGNC	16049	protein_coding	YES	CCDS31836.1	ENSP00000262033	TEBP_HUMAN	.	UPI0000052BAE	.	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCGGCGA	.	5	BLCA
LRP1	0	.	GRCh37	12	57605709	57605709	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13259-1G>T	.	p.X4420_splice	ENST00000243077	.	59	39	20	75	75	0	LRP1,splice_acceptor_variant,,ENST00000243077,;NXPH4,upstream_gene_variant,,ENST00000349394,;LRP1,splice_acceptor_variant,,ENST00000556356,;NXPH4,upstream_gene_variant,,ENST00000556415,;	T	ENSG00000123384	ENST00000243077	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	LRP1	HGNC	6692	protein_coding	YES	CCDS8932.1	ENSP00000243077	LRP1_HUMAN	Q6LBN5_HUMAN,Q6LAF4_HUMAN	UPI00001B044F	.	.	.	.	86/88	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCAGATATA	.	5	BLCA
LRP1	0	.	GRCh37	12	57605719	57605719	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13268C>T	p.Ser4423Phe	p.S4423F	ENST00000243077	87/89	64	48	15	84	84	0	LRP1,missense_variant,p.Ser4423Phe,ENST00000243077,;NXPH4,upstream_gene_variant,,ENST00000349394,;LRP1,non_coding_transcript_exon_variant,,ENST00000556356,;NXPH4,upstream_gene_variant,,ENST00000556415,;	T	ENSG00000123384	ENST00000243077	Transcript	missense_variant	13734	13268	4423	S/F	tCc/tTc	.	.	.	1	LRP1	HGNC	6692	protein_coding	YES	CCDS8932.1	ENSP00000243077	LRP1_HUMAN	Q6LBN5_HUMAN,Q6LAF4_HUMAN	UPI00001B044F	.	.	benign(0.06)	87/89	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCCATCC	.	5	BLCA
MARS	0	.	GRCh37	12	57898012	57898012	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1298C>T	p.Pro433Leu	p.P433L	ENST00000262027	11/21	69	53	15	85	85	0	MARS,missense_variant,p.Pro199Leu,ENST00000315473,;MARS,missense_variant,p.Pro433Leu,ENST00000262027,;MARS,intron_variant,,ENST00000548944,;MARS,downstream_gene_variant,,ENST00000552371,;MARS,non_coding_transcript_exon_variant,,ENST00000447721,;MARS,missense_variant,p.Pro433Leu,ENST00000537638,;MARS,3_prime_UTR_variant,,ENST00000545888,;MARS,non_coding_transcript_exon_variant,,ENST00000549603,;MARS,non_coding_transcript_exon_variant,,ENST00000549827,;MARS,downstream_gene_variant,,ENST00000551892,;	T	ENSG00000166986	ENST00000262027	Transcript	missense_variant	1432	1298	433	P/L	cCt/cTt	.	.	.	1	MARS	HGNC	6898	protein_coding	YES	CCDS8942.1	ENSP00000262027	SYMC_HUMAN	.	UPI0000136597	.	deleterious(0.01)	probably_damaging(0.945)	11/21	.	Superfamily_domains:SSF57770,TIGRFAM_domain:TIGR00398,Gene3D:2.170.220.10,Pfam_domain:PF09334,hmmpanther:PTHR11946,hmmpanther:PTHR11946:SF69,HAMAP:MF_00098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGCCTCAGT	.	5	BLCA
PIP4K2C	0	.	GRCh37	12	57984998	57984998	+	5'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000354947	.	31	24	7	20	20	0	PIP4K2C,5_prime_UTR_variant,,ENST00000422156,;PIP4K2C,5_prime_UTR_variant,,ENST00000540759,;PIP4K2C,upstream_gene_variant,,ENST00000550465,;KIF5A,downstream_gene_variant,,ENST00000455537,;PIP4K2C,upstream_gene_variant,,ENST00000354947,;PIP4K2C,upstream_gene_variant,,ENST00000551772,;PIP4K2C,upstream_gene_variant,,ENST00000550360,;PIP4K2C,upstream_gene_variant,,ENST00000550095,;	A	ENSG00000166908	ENST00000354947	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	59	1	PIP4K2C	HGNC	23786	protein_coding	YES	CCDS8946.1	ENSP00000347032	PI42C_HUMAN	F8VU68_HUMAN	UPI000003F553	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGTGAGCGC	.	2	BLCA
C12orf61	0	.	GRCh37	12	62996670	62996670	+	3'UTR	SNP	G	G	A	rs547874438	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*53C>T	.	.	ENST00000408887	1/1	19	13	6	34	34	0	C12orf61,3_prime_UTR_variant,,ENST00000408887,;MIRLET7I,upstream_gene_variant,,ENST00000362309,;RP11-631N16.2,intron_variant,,ENST00000550290,;	A	ENSG00000221949	ENST00000408887	Transcript	3_prime_UTR_variant	545	.	.	.	.	rs547874438	.	.	-1	C12orf61	HGNC	26364	protein_coding	YES	CCDS8964.1	ENSP00000386169	CL061_HUMAN	.	UPI000006E6E2	.	.	.	1/1	.	.	A:0.0006	A:0.0023	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCACGCGTCG	byFrequency|by1000G	2	BLCA
PLEKHG6	0	.	GRCh37	12	6421357	6421357	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-36G>A	.	.	ENST00000396988	2/16	70	50	20	76	76	0	PLEKHG6,5_prime_UTR_variant,,ENST00000011684,;PLEKHG6,5_prime_UTR_variant,,ENST00000396988,;PLEKHG6,5_prime_UTR_variant,,ENST00000536531,;PLEKHG6,upstream_gene_variant,,ENST00000449001,;PLEKHG6,non_coding_transcript_exon_variant,,ENST00000538208,;	A	ENSG00000008323	ENST00000396988	Transcript	5_prime_UTR_variant	195	.	.	.	.	.	.	.	1	PLEKHG6	HGNC	25562	protein_coding	YES	CCDS8541.1	ENSP00000380185	PKHG6_HUMAN	.	UPI000013EFF6	.	.	.	2/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAGATATG	.	5	BLCA
PLEKHG6	0	.	GRCh37	12	6422844	6422844	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.188C>T	p.Ser63Phe	p.S63F	ENST00000396988	3/16	63	43	19	69	69	0	PLEKHG6,missense_variant,p.Ser63Phe,ENST00000011684,;PLEKHG6,missense_variant,p.Ser63Phe,ENST00000396988,;PLEKHG6,missense_variant,p.Ser63Phe,ENST00000536531,;PLEKHG6,missense_variant,p.Ser31Phe,ENST00000449001,;PLEKHG6,upstream_gene_variant,,ENST00000543000,;PLEKHG6,downstream_gene_variant,,ENST00000538208,;	T	ENSG00000008323	ENST00000396988	Transcript	missense_variant	418	188	63	S/F	tCt/tTt	.	.	.	1	PLEKHG6	HGNC	25562	protein_coding	YES	CCDS8541.1	ENSP00000380185	PKHG6_HUMAN	.	UPI000013EFF6	.	deleterious_low_confidence(0.03)	benign(0.006)	3/16	.	hmmpanther:PTHR22825:SF13,hmmpanther:PTHR22825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCTGGCC	.	5	BLCA
TBK1	0	.	GRCh37	12	64858190	64858190	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305C>G	p.Ser102Cys	p.S102C	ENST00000331710	4/21	84	59	24	109	109	0	TBK1,missense_variant,p.Ser102Cys,ENST00000331710,;TBK1,missense_variant,p.Ser102Cys,ENST00000538890,;TBK1,downstream_gene_variant,,ENST00000539810,;TBK1,downstream_gene_variant,,ENST00000540417,;	G	ENSG00000183735	ENST00000331710	Transcript	missense_variant	644	305	102	S/C	tCt/tGt	.	.	.	1	TBK1	HGNC	11584	protein_coding	YES	CCDS8968.1	ENSP00000329967	TBK1_HUMAN	F5H206_HUMAN,F5H1A3_HUMAN,F5GZI4_HUMAN,B4E164_HUMAN	UPI0000035B47	.	deleterious(0.01)	possibly_damaging(0.705)	4/21	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22969,hmmpanther:PTHR22969:SF14,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTAATG	.	5	BLCA
GNS	0	.	GRCh37	12	65130818	65130818	+	Missense_Mutation	SNP	C	C	T	rs751200375	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1064G>A	p.Arg355Gln	p.R355Q	ENST00000258145	9/14	41	28	13	59	59	0	GNS,missense_variant,p.Arg387Gln,ENST00000543646,;GNS,missense_variant,p.Arg355Gln,ENST00000258145,;GNS,missense_variant,p.Arg299Gln,ENST00000418919,;GNS,missense_variant,p.Arg175Gln,ENST00000540196,;GNS,missense_variant,p.Arg335Gln,ENST00000542058,;GNS,downstream_gene_variant,,ENST00000545273,;GNS,non_coding_transcript_exon_variant,,ENST00000541781,;	T	ENSG00000135677	ENST00000258145	Transcript	missense_variant	1235	1064	355	R/Q	cGa/cAa	rs751200375	.	.	-1	GNS	HGNC	4422	protein_coding	YES	CCDS8970.1	ENSP00000258145	GNS_HUMAN	F5H4C6_HUMAN	UPI0000000CC8	.	deleterious(0.01)	probably_damaging(0.992)	9/14	.	Superfamily_domains:SSF53649,PIRSF_domain:PIRSF036666,Pfam_domain:PF00884,Gene3D:3.40.720.10,hmmpanther:PTHR10342:SF212,hmmpanther:PTHR10342	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCGAACC	.	5	BLCA
ZNF384	0	.	GRCh37	12	6787501	6787501	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478G>A	p.Val160Ile	p.V160I	ENST00000396801	6/11	35	22	13	54	54	0	ZNF384,missense_variant,p.Val160Ile,ENST00000540915,;ZNF384,missense_variant,p.Val144Ile,ENST00000535485,;ZNF384,missense_variant,p.Val160Ile,ENST00000361959,;ZNF384,missense_variant,p.Val160Ile,ENST00000396801,;ZNF384,missense_variant,p.Val144Ile,ENST00000319770,;ZNF384,missense_variant,p.Val160Ile,ENST00000396799,;ZNF384,missense_variant,p.Val160Ile,ENST00000417772,;ZNF384,missense_variant,p.Val105Ile,ENST00000355772,;ZNF384,missense_variant,p.Val160Ile,ENST00000396795,;ZNF384,missense_variant,p.Val144Ile,ENST00000436774,;ZNF384,downstream_gene_variant,,ENST00000542351,;ZNF384,downstream_gene_variant,,ENST00000544482,;ZNF384,downstream_gene_variant,,ENST00000538829,;ZNF384,non_coding_transcript_exon_variant,,ENST00000542519,;ZNF384,downstream_gene_variant,,ENST00000537248,;ZNF384,downstream_gene_variant,,ENST00000542605,;ZNF384,upstream_gene_variant,,ENST00000537383,;	T	ENSG00000126746	ENST00000396801	Transcript	missense_variant	686	478	160	V/I	Gtt/Att	.	.	.	-1	ZNF384	HGNC	11955	protein_coding	YES	CCDS44817.1	ENSP00000380019	ZN384_HUMAN	F5H3Z9_HUMAN,F5H105_HUMAN,F5H0D6_HUMAN,F5GYZ1_HUMAN,D3DUR9_HUMAN,B4DQU6_HUMAN,A9X425_HUMAN	UPI00001AE6F8	.	deleterious(0.02)	benign(0.358)	6/11	.	hmmpanther:PTHR11389:SF332,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACAACCTGCA	.	2	BLCA
SLC35E3	0	.	GRCh37	12	69140517	69140517	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.360C>T	p.%3D	p.F120F	ENST00000398004	1/5	80	49	30	118	118	0	SLC35E3,synonymous_variant,p.%3D,ENST00000398004,;NUP107,downstream_gene_variant,,ENST00000229179,;NUP107,downstream_gene_variant,,ENST00000378905,;NUP107,downstream_gene_variant,,ENST00000539906,;SLC35E3,upstream_gene_variant,,ENST00000319429,;NUP107,downstream_gene_variant,,ENST00000535718,;	T	ENSG00000175782	ENST00000398004	Transcript	synonymous_variant	632	360	120	F	ttC/ttT	.	.	.	1	SLC35E3	HGNC	20864	protein_coding	YES	CCDS41808.1	ENSP00000381089	S35E3_HUMAN	.	UPI0000048F4D	.	.	.	1/5	.	hmmpanther:PTHR11132:SF47,hmmpanther:PTHR11132	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCTGCTA	.	5	BLCA
CPM	0	.	GRCh37	12	69250228	69250228	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1321T>C	p.Phe441Leu	p.F441L	ENST00000551568	9/9	68	53	15	82	82	0	CPM,missense_variant,p.Phe441Leu,ENST00000338356,;CPM,missense_variant,p.Phe441Leu,ENST00000546373,;CPM,missense_variant,p.Phe441Leu,ENST00000551568,;CPM,intron_variant,,ENST00000551897,;CPM,missense_variant,p.Phe33Leu,ENST00000546556,;	G	ENSG00000135678	ENST00000551568	Transcript	missense_variant	1382	1321	441	F/L	Ttc/Ctc	COSM942915	.	.	-1	CPM	HGNC	2311	protein_coding	YES	CCDS8987.1	ENSP00000448517	CBPM_HUMAN	H0YHG6_HUMAN,F8W111_HUMAN,F8VVI6_HUMAN	UPI00001271D4	.	tolerated_low_confidence(0.41)	benign(0.001)	9/9	.	hmmpanther:PTHR11532,hmmpanther:PTHR11532:SF53	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGAATATGT	.	5	BLCA
RAB3IP	0	.	GRCh37	12	70133538	70133538	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-89C>T	.	.	ENST00000550536	1/11	11	6	5	17	17	0	RAB3IP,5_prime_UTR_variant,,ENST00000362025,;RAB3IP,5_prime_UTR_variant,,ENST00000550536,;RAB3IP,intron_variant,,ENST00000549760,;RAB3IP,intron_variant,,ENST00000483530,;RAB3IP,intron_variant,,ENST00000247833,;RAB3IP,intron_variant,,ENST00000378815,;RAB3IP,intron_variant,,ENST00000325555,;RP11-588G21.2,upstream_gene_variant,,ENST00000501387,;RP11-588G21.2,upstream_gene_variant,,ENST00000501300,;RAB3IP,5_prime_UTR_variant,,ENST00000552199,;RAB3IP,5_prime_UTR_variant,,ENST00000378809,;RAB3IP,intron_variant,,ENST00000417413,;	T	ENSG00000127328	ENST00000550536	Transcript	5_prime_UTR_variant	369	.	.	.	.	.	.	.	1	RAB3IP	HGNC	16508	protein_coding	YES	CCDS8993.1	ENSP00000447300	RAB3I_HUMAN	F8VNX9_HUMAN	UPI000006EB02	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTCGCCCCGA	.	3	BLCA
CNOT2	0	.	GRCh37	12	70671981	70671981	+	5'UTR	SNP	G	G	A	rs753647248	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-26G>A	.	.	ENST00000229195	2/16	33	23	10	51	51	0	CNOT2,5_prime_UTR_variant,,ENST00000551043,;CNOT2,5_prime_UTR_variant,,ENST00000552483,;CNOT2,5_prime_UTR_variant,,ENST00000552231,;CNOT2,5_prime_UTR_variant,,ENST00000550160,;CNOT2,5_prime_UTR_variant,,ENST00000229195,;CNOT2,5_prime_UTR_variant,,ENST00000550194,;CNOT2,5_prime_UTR_variant,,ENST00000551132,;CNOT2,5_prime_UTR_variant,,ENST00000552915,;CNOT2,5_prime_UTR_variant,,ENST00000551873,;CNOT2,5_prime_UTR_variant,,ENST00000418359,;CNOT2,5_prime_UTR_variant,,ENST00000547780,;CNOT2,5_prime_UTR_variant,,ENST00000548159,;CNOT2,5_prime_UTR_variant,,ENST00000550641,;CNOT2,5_prime_UTR_variant,,ENST00000547867,;CNOT2,5_prime_UTR_variant,,ENST00000549750,;CNOT2,non_coding_transcript_exon_variant,,ENST00000552422,;CNOT2,non_coding_transcript_exon_variant,,ENST00000553078,;CNOT2,non_coding_transcript_exon_variant,,ENST00000549443,;CNOT2,5_prime_UTR_variant,,ENST00000553020,;CNOT2,5_prime_UTR_variant,,ENST00000548599,;CNOT2,5_prime_UTR_variant,,ENST00000551661,;CNOT2,5_prime_UTR_variant,,ENST00000548741,;CNOT2,5_prime_UTR_variant,,ENST00000552319,;CNOT2,non_coding_transcript_exon_variant,,ENST00000547321,;CNOT2,non_coding_transcript_exon_variant,,ENST00000548021,;CNOT2,non_coding_transcript_exon_variant,,ENST00000551179,;	A	ENSG00000111596	ENST00000229195	Transcript	5_prime_UTR_variant	554	.	.	.	.	rs753647248	.	.	1	CNOT2	HGNC	7878	protein_coding	YES	CCDS31857.1	ENSP00000229195	CNOT2_HUMAN	F8VWH8_HUMAN,F8VVY1_HUMAN,F8VUB4_HUMAN,F8VRS2_HUMAN,F8VQD8_HUMAN,F8VPX5_HUMAN,F8VP97_HUMAN	UPI0000052E12	.	.	.	2/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCGGTACTG	.	5	BLCA
TRHDE	0	.	GRCh37	12	73056843	73056843	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2943C>T	p.%3D	p.F981F	ENST00000261180	19/19	79	59	19	82	82	0	TRHDE,synonymous_variant,p.%3D,ENST00000261180,;	T	ENSG00000072657	ENST00000261180	Transcript	synonymous_variant	3039	2943	981	F	ttC/ttT	.	.	.	1	TRHDE	HGNC	30748	protein_coding	YES	CCDS9004.1	ENSP00000261180	TRHDE_HUMAN	.	UPI0000136D52	.	.	.	19/19	.	Pfam_domain:PF11838,hmmpanther:PTHR11533,hmmpanther:PTHR11533:SF40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCATGAA	.	5	BLCA
CD163L1	0	.	GRCh37	12	7521963	7521963	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4029G>A	p.%3D	p.V1343V	ENST00000313599	15/20	99	69	30	146	146	0	CD163L1,synonymous_variant,p.%3D,ENST00000416109,;CD163L1,synonymous_variant,p.%3D,ENST00000313599,;CD163L1,synonymous_variant,p.%3D,ENST00000396630,;CD163L1,upstream_gene_variant,,ENST00000539726,;CD163L1,non_coding_transcript_exon_variant,,ENST00000545597,;CD163L1,upstream_gene_variant,,ENST00000543841,;CD163L1,upstream_gene_variant,,ENST00000546182,;	T	ENSG00000177675	ENST00000313599	Transcript	synonymous_variant	4087	4029	1343	V	gtG/gtA	.	.	.	-1	CD163L1	HGNC	30375	protein_coding	YES	CCDS8577.1	ENSP00000315945	C163B_HUMAN	F5H7R7_HUMAN	UPI000013F5AD	.	.	.	15/20	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331:SF260,hmmpanther:PTHR19331,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCACGCC	.	5	BLCA
CD163L1	0	.	GRCh37	12	7522104	7522104	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3888G>A	p.%3D	p.L1296L	ENST00000313599	15/20	61	42	18	84	84	0	CD163L1,synonymous_variant,p.%3D,ENST00000416109,;CD163L1,synonymous_variant,p.%3D,ENST00000313599,;CD163L1,synonymous_variant,p.%3D,ENST00000396630,;CD163L1,upstream_gene_variant,,ENST00000539726,;CD163L1,upstream_gene_variant,,ENST00000545597,;CD163L1,upstream_gene_variant,,ENST00000543841,;CD163L1,upstream_gene_variant,,ENST00000546182,;	T	ENSG00000177675	ENST00000313599	Transcript	synonymous_variant	3946	3888	1296	L	ctG/ctA	.	.	.	-1	CD163L1	HGNC	30375	protein_coding	YES	CCDS8577.1	ENSP00000315945	C163B_HUMAN	F5H7R7_HUMAN	UPI000013F5AD	.	.	.	15/20	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331:SF260,hmmpanther:PTHR19331,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCAGGGC	.	5	BLCA
OTOGL	0	.	GRCh37	12	80747215	80747215	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5491G>A	p.Glu1831Lys	p.E1831K	ENST00000458043	45/58	9	5	4	16	16	0	OTOGL,missense_variant,p.Glu1831Lys,ENST00000458043,;OTOGL,missense_variant,p.Glu274Lys,ENST00000298820,;OTOGL,missense_variant,p.Glu1819Lys,ENST00000547103,;OTOGL,upstream_gene_variant,,ENST00000546620,;OTOGL,upstream_gene_variant,,ENST00000550182,;OTOGL,upstream_gene_variant,,ENST00000551340,;	A	ENSG00000165899	ENST00000458043	Transcript	missense_variant	5497	5491	1831	E/K	Gaa/Aaa	.	.	.	1	OTOGL	HGNC	26901	protein_coding	YES	.	ENSP00000400895	.	E2QRK2_HUMAN	UPI0001D089C5	.	deleterious(0)	probably_damaging(0.999)	45/58	.	Superfamily_domains:SSF57567,Gene3D:2.10.25.10,hmmpanther:PTHR11339:SF225,hmmpanther:PTHR11339	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAGAGAAGAC	.	2	BLCA
C3AR1	0	.	GRCh37	12	8212503	8212503	+	Silent	SNP	G	G	A	rs776176515	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279C>T	p.%3D	p.F93F	ENST00000307637	2/2	33	22	10	51	51	0	C3AR1,synonymous_variant,p.%3D,ENST00000307637,;C3AR1,synonymous_variant,p.%3D,ENST00000546241,;FOXJ2,downstream_gene_variant,,ENST00000162391,;	A	ENSG00000171860	ENST00000307637	Transcript	synonymous_variant	483	279	93	F	ttC/ttT	rs776176515	.	.	-1	C3AR1	HGNC	1319	protein_coding	YES	CCDS8588.1	ENSP00000302079	C3AR_HUMAN	F5GZE6_HUMAN,A8K2H7_HUMAN	UPI0000001066	.	.	.	2/2	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24225:SF4,hmmpanther:PTHR24225,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAGGAACCT	byFrequency	5	BLCA
WNK1	0	.	GRCh37	12	863095	863095	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>A	p.Glu122Lys	p.E122K	ENST00000315939	1/28	11	6	5	15	15	0	WNK1,missense_variant,p.Glu122Lys,ENST00000315939,;WNK1,missense_variant,p.Glu122Lys,ENST00000535572,;WNK1,missense_variant,p.Glu122Lys,ENST00000447667,;WNK1,missense_variant,p.Glu122Lys,ENST00000530271,;WNK1,missense_variant,p.Glu122Lys,ENST00000537687,;	A	ENSG00000060237	ENST00000315939	Transcript	missense_variant	1007	364	122	E/K	Gaa/Aaa	.	.	.	1	WNK1	HGNC	14540	protein_coding	YES	CCDS8506.1	ENSP00000313059	WNK1_HUMAN	Q96CZ6_HUMAN	UPI000013CD65	.	tolerated(0.11)	unknown(0)	1/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	ACCGGGAAGAG	.	2	BLCA
CEP290	0	.	GRCh37	12	88462324	88462324	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6110C>T	p.Ser2037Leu	p.S2037L	ENST00000552810	44/54	30	17	13	42	42	0	CEP290,missense_variant,p.Ser2037Leu,ENST00000552810,;CEP290,missense_variant,p.Ser1097Leu,ENST00000397838,;CEP290,missense_variant,p.Ser2039Leu,ENST00000309041,;CEP290,missense_variant,p.Ser1097Leu,ENST00000547691,;	A	ENSG00000198707	ENST00000552810	Transcript	missense_variant	6454	6110	2037	S/L	tCa/tTa	.	.	.	-1	CEP290	HGNC	29021	protein_coding	YES	CCDS55858.1	ENSP00000448012	CE290_HUMAN	.	UPI0000D60D15	.	.	possibly_damaging(0.705)	44/54	.	hmmpanther:PTHR18879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTTGAAAAC	.	2	BLCA
POC1B	0	.	GRCh37	12	89819052	89819052	+	Silent	SNP	C	C	T	rs762745144	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1218G>A	p.%3D	p.T406T	ENST00000313546	11/12	93	60	33	104	104	0	POC1B,synonymous_variant,p.%3D,ENST00000393179,;POC1B,synonymous_variant,p.%3D,ENST00000549035,;POC1B,synonymous_variant,p.%3D,ENST00000313546,;POC1B,3_prime_UTR_variant,,ENST00000541909,;POC1B,3_prime_UTR_variant,,ENST00000378528,;POC1B,downstream_gene_variant,,ENST00000549504,;POC1B,non_coding_transcript_exon_variant,,ENST00000546740,;POC1B,3_prime_UTR_variant,,ENST00000548715,;POC1B,3_prime_UTR_variant,,ENST00000547496,;POC1B,non_coding_transcript_exon_variant,,ENST00000549591,;	T	ENSG00000139323	ENST00000313546	Transcript	synonymous_variant	1347	1218	406	T	acG/acA	rs762745144	.	.	-1	POC1B	HGNC	30836	protein_coding	YES	CCDS31869.1	ENSP00000323302	POC1B_HUMAN	Q8IU52_HUMAN,F8VX21_HUMAN,A0MNP0_HUMAN	UPI000006E6B9	.	.	.	11/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCGTGGT	.	5	BLCA
DCN	0	.	GRCh37	12	91545560	91545560	+	Missense_Mutation	SNP	C	C	G	rs771882946	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>C	p.Leu252Phe	p.L252F	ENST00000052754	7/8	43	27	16	49	49	0	DCN,missense_variant,p.Leu143Phe,ENST00000228329,;DCN,missense_variant,p.Leu105Phe,ENST00000546391,;DCN,missense_variant,p.Leu252Phe,ENST00000052754,;DCN,missense_variant,p.Leu143Phe,ENST00000420120,;DCN,missense_variant,p.Leu252Phe,ENST00000552962,;DCN,missense_variant,p.Leu252Phe,ENST00000393155,;DCN,missense_variant,p.Leu105Phe,ENST00000425043,;DCN,missense_variant,p.Leu22Phe,ENST00000550758,;DCN,missense_variant,p.Leu105Phe,ENST00000547568,;DCN,intron_variant,,ENST00000456569,;DCN,intron_variant,,ENST00000441303,;DCN,intron_variant,,ENST00000303320,;	G	ENSG00000011465	ENST00000052754	Transcript	missense_variant	1258	756	252	L/F	ttG/ttC	rs771882946	.	.	-1	DCN	HGNC	2705	protein_coding	YES	CCDS9039.1	ENSP00000052754	PGS2_HUMAN	Q6FH10_HUMAN,F8VXZ8_HUMAN,F8VX58_HUMAN,F8VWU0_HUMAN,F8VUF6_HUMAN	UPI000013187E	.	deleterious(0)	probably_damaging(1)	7/8	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51450,hmmpanther:PTHR24369:SF5,hmmpanther:PTHR24369,Gene3D:3.80.10.10,Pfam_domain:PF13855,SMART_domains:SM00369,PIRSF_domain:PIRSF002490,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCAATCC	byFrequency	5	BLCA
EEA1	0	.	GRCh37	12	93221770	93221770	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1322G>A	p.Arg441Lys	p.R441K	ENST00000322349	12/29	92	68	23	116	116	0	EEA1,missense_variant,p.Arg441Lys,ENST00000322349,;EEA1,3_prime_UTR_variant,,ENST00000418984,;	T	ENSG00000102189	ENST00000322349	Transcript	missense_variant	1587	1322	441	R/K	aGa/aAa	.	.	.	-1	EEA1	HGNC	3185	protein_coding	YES	CCDS31874.1	ENSP00000317955	EEA1_HUMAN	.	UPI000013C754	.	tolerated(0.09)	possibly_damaging(0.816)	12/29	.	hmmpanther:PTHR23164:SF2,hmmpanther:PTHR23164	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTCTCTGT	.	5	BLCA
CCDC41	0	.	GRCh37	12	94761689	94761690	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1223dupT	p.Leu408PhefsTer9	p.L408Ffs*9	ENST00000397809	11/17	115	82	33	116	116	0	CCDC41,frameshift_variant,p.Leu375PhefsTer9,ENST00000397807,;CCDC41,frameshift_variant,p.Leu408PhefsTer9,ENST00000397809,;CCDC41,frameshift_variant,p.Leu408PhefsTer9,ENST00000339839,;CCDC41,downstream_gene_variant,,ENST00000547575,;CCDC41,downstream_gene_variant,,ENST00000549352,;CCDC41,frameshift_variant,p.Leu375PhefsTer9,ENST00000547232,;	A	ENSG00000173588	ENST00000397809	Transcript	frameshift_variant	1773-1774	1223-1224	408	L/FX	ttg/ttTg	.	.	.	-1	CCDC41	HGNC	17966	protein_coding	YES	CCDS41820.1	ENSP00000380911	.	J3KNW7_HUMAN,H0YHH5_HUMAN	UPI0000D4BD6F	.	.	.	11/17	.	hmmpanther:PTHR23170,hmmpanther:PTHR23170:SF2,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCTCCAAATC	.	3	BLCA
VEZT	0	.	GRCh37	12	95676227	95676227	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1135C>T	p.Gln379Ter	p.Q379*	ENST00000436874	8/12	130	89	40	171	171	0	VEZT,stop_gained,p.Gln335Ter,ENST00000397792,;VEZT,stop_gained,p.Gln331Ter,ENST00000261219,;VEZT,stop_gained,p.Gln379Ter,ENST00000436874,;VEZT,non_coding_transcript_exon_variant,,ENST00000356859,;VEZT,non_coding_transcript_exon_variant,,ENST00000546398,;VEZT,non_coding_transcript_exon_variant,,ENST00000550106,;VEZT,intron_variant,,ENST00000551695,;VEZT,3_prime_UTR_variant,,ENST00000547611,;VEZT,3_prime_UTR_variant,,ENST00000547997,;VEZT,3_prime_UTR_variant,,ENST00000552660,;VEZT,3_prime_UTR_variant,,ENST00000551994,;VEZT,non_coding_transcript_exon_variant,,ENST00000552827,;VEZT,non_coding_transcript_exon_variant,,ENST00000549192,;VEZT,intron_variant,,ENST00000548371,;VEZT,intron_variant,,ENST00000548838,;CBX3P5,downstream_gene_variant,,ENST00000552017,;	T	ENSG00000028203	ENST00000436874	Transcript	stop_gained	1240	1135	379	Q/*	Caa/Taa	.	.	.	1	VEZT	HGNC	18258	protein_coding	YES	CCDS44954.1	ENSP00000410083	VEZA_HUMAN	.	UPI00001FB2EC	.	.	.	8/12	.	Pfam_domain:PF12632,hmmpanther:PTHR15989:SF5,hmmpanther:PTHR15989	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCAAGGT	.	5	BLCA
METAP2	0	.	GRCh37	12	95867917	95867917	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-39C>T	.	.	ENST00000323666	1/11	20	16	4	31	31	0	METAP2,5_prime_UTR_variant,,ENST00000323666,;METAP2,5_prime_UTR_variant,,ENST00000546753,;METAP2,upstream_gene_variant,,ENST00000261220,;METAP2,upstream_gene_variant,,ENST00000551840,;METAP2,upstream_gene_variant,,ENST00000550777,;METAP2,upstream_gene_variant,,ENST00000553151,;METAP2,upstream_gene_variant,,ENST00000549502,;METAP2,5_prime_UTR_variant,,ENST00000535095,;METAP2,upstream_gene_variant,,ENST00000549136,;	T	ENSG00000111142	ENST00000323666	Transcript	5_prime_UTR_variant	191	.	.	.	.	.	.	.	1	METAP2	HGNC	16672	protein_coding	YES	CCDS9052.1	ENSP00000325312	MAP2_HUMAN	.	UPI000004493E	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCTCGCCGC	.	4	BLCA
WNK1	0	.	GRCh37	12	970200	970200	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1642G>C	p.Glu548Gln	p.E548Q	ENST00000315939	7/28	186	126	59	243	243	0	WNK1,missense_variant,p.Glu548Gln,ENST00000315939,;WNK1,missense_variant,p.Glu141Gln,ENST00000340908,;WNK1,missense_variant,p.Glu548Gln,ENST00000530271,;WNK1,missense_variant,p.Glu548Gln,ENST00000537687,;WNK1,missense_variant,p.Glu548Gln,ENST00000535572,;WNK1,upstream_gene_variant,,ENST00000535698,;WNK1,upstream_gene_variant,,ENST00000545285,;WNK1,upstream_gene_variant,,ENST00000544965,;WNK1,non_coding_transcript_exon_variant,,ENST00000540360,;WNK1,downstream_gene_variant,,ENST00000538787,;	C	ENSG00000060237	ENST00000315939	Transcript	missense_variant	2285	1642	548	E/Q	Gaa/Caa	.	.	.	1	WNK1	HGNC	14540	protein_coding	YES	CCDS8506.1	ENSP00000313059	WNK1_HUMAN	Q96CZ6_HUMAN	UPI000013CD65	.	deleterious(0)	unknown(0)	7/28	.	hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF46,Gene3D:3.10.20.90	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTGAAGGT	.	5	BLCA
C12orf55	0	.	GRCh37	12	97051880	97051880	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5321C>T	p.Ser1774Leu	p.S1774L	ENST00000524981	37/68	60	39	21	53	53	0	C12orf55,missense_variant,p.Ser1774Leu,ENST00000524981,;C12orf55,non_coding_transcript_exon_variant,,ENST00000342887,;	T	ENSG00000188596	ENST00000524981	Transcript	missense_variant	5344	5321	1774	S/L	tCa/tTa	.	.	.	1	C12orf55	HGNC	26456	protein_coding	YES	.	ENSP00000431759	.	R4GNI2_HUMAN,E9PJL5_HUMAN	UPI0001F77A4D	.	deleterious(0)	possibly_damaging(0.448)	37/68	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCACAGT	.	5	BLCA
SLC25A3	0	.	GRCh37	12	98995237	98995237	+	Silent	SNP	C	C	T	rs370219231	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1020C>T	p.%3D	p.F340F	ENST00000228318	8/8	89	60	29	91	91	0	SLC25A3,synonymous_variant,p.%3D,ENST00000548847,;SLC25A3,synonymous_variant,p.%3D,ENST00000549338,;SLC25A3,synonymous_variant,p.%3D,ENST00000401722,;SLC25A3,synonymous_variant,p.%3D,ENST00000551917,;SLC25A3,synonymous_variant,p.%3D,ENST00000188376,;SLC25A3,synonymous_variant,p.%3D,ENST00000552981,;SLC25A3,synonymous_variant,p.%3D,ENST00000228318,;SLC25A3,downstream_gene_variant,,ENST00000550695,;SLC25A3,downstream_gene_variant,,ENST00000547534,;SLC25A3,downstream_gene_variant,,ENST00000548046,;SNORA53,downstream_gene_variant,,ENST00000391141,;AC013283.1,upstream_gene_variant,,ENST00000408698,;SLC25A3,3_prime_UTR_variant,,ENST00000551123,;SLC25A3,non_coding_transcript_exon_variant,,ENST00000547869,;SLC25A3,non_coding_transcript_exon_variant,,ENST00000548480,;SLC25A3,non_coding_transcript_exon_variant,,ENST00000546766,;SLC25A3,downstream_gene_variant,,ENST00000547444,;SLC25A3,downstream_gene_variant,,ENST00000547908,;	T	ENSG00000075415	ENST00000228318	Transcript	synonymous_variant	1140	1020	340	F	ttC/ttT	rs370219231	.	.	1	SLC25A3	HGNC	10989	protein_coding	YES	CCDS9066.1	ENSP00000228318	MPCP_HUMAN	Q6MZF9_HUMAN,F8VZL5_HUMAN,F8VWR4_HUMAN	UPI000012F45B	.	.	.	8/8	.	hmmpanther:PTHR24089:SF173,hmmpanther:PTHR24089,Pfam_domain:PF00153	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCAGACT	.	5	BLCA
IKBIP	0	.	GRCh37	12	99007426	99007426	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.990A>G	p.%3D	p.T330T	ENST00000342502	3/3	108	76	32	125	125	0	IKBIP,synonymous_variant,p.%3D,ENST00000342502,;IKBIP,synonymous_variant,p.%3D,ENST00000420861,;IKBIP,3_prime_UTR_variant,,ENST00000393042,;	C	ENSG00000166130	ENST00000342502	Transcript	synonymous_variant	1402	990	330	T	acA/acG	.	.	.	-1	IKBIP	HGNC	26430	protein_coding	.	CCDS9067.1	ENSP00000343471	IKIP_HUMAN	.	UPI00001FB351	.	.	.	3/3	.	hmmpanther:PTHR21734	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATTGTTAA	.	5	BLCA
ARGLU1	0	.	GRCh37	13	107220239	107220239	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.29C>T	p.Ser10Phe	p.S10F	ENST00000400198	1/4	20	11	8	28	28	0	ARGLU1,missense_variant,p.Ser10Phe,ENST00000400198,;ARGLU1,upstream_gene_variant,,ENST00000360629,;	A	ENSG00000134884	ENST00000400198	Transcript	missense_variant	274	29	10	S/F	tCc/tTc	.	.	.	-1	ARGLU1	HGNC	25482	protein_coding	YES	CCDS41906.1	ENSP00000383059	ARGL1_HUMAN	.	UPI00000373ED	.	deleterious_low_confidence(0)	unknown(0)	1/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31711	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGGGACGAG	.	5	BLCA
ARGLU1	0	.	GRCh37	13	107220273	107220273	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-6G>A	.	.	ENST00000400198	1/4	18	10	8	23	23	0	ARGLU1,5_prime_UTR_variant,,ENST00000400198,;ARGLU1,upstream_gene_variant,,ENST00000360629,;	T	ENSG00000134884	ENST00000400198	Transcript	5_prime_UTR_variant	240	.	.	.	.	.	.	.	-1	ARGLU1	HGNC	25482	protein_coding	YES	CCDS41906.1	ENSP00000383059	ARGL1_HUMAN	.	UPI00000373ED	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTCCGGGAG	.	5	BLCA
IRS2	0	.	GRCh37	13	110437768	110437768	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633G>A	p.%3D	p.K211K	ENST00000375856	1/2	14	9	5	23	23	0	IRS2,synonymous_variant,p.%3D,ENST00000375856,;	T	ENSG00000185950	ENST00000375856	Transcript	synonymous_variant	1148	633	211	K	aaG/aaA	.	.	.	-1	IRS2	HGNC	6126	protein_coding	YES	CCDS9510.1	ENSP00000365016	IRS2_HUMAN	Q9UP29_HUMAN,Q8TF73_HUMAN	UPI000006E4A8	.	.	.	1/2	.	PROSITE_profiles:PS51064,hmmpanther:PTHR10614,hmmpanther:PTHR10614:SF7,Gene3D:2.30.29.30,Pfam_domain:PF02174,SMART_domains:SM00310,Superfamily_domains:SSF50729,Prints_domain:PR00628	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCTTGCT	.	5	BLCA
ARHGEF7	0	.	GRCh37	13	111767876	111767876	+	Translation_Start_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000375741	1/20	10	6	4	22	22	0	ARHGEF7,start_lost,p.Met1?,ENST00000375739,;ARHGEF7,start_lost,p.Met1?,ENST00000375741,;ARHGEF7,start_lost,p.Met1?,ENST00000317133,;ARHGEF7,start_lost,p.Met1?,ENST00000370623,;ARHGEF7,5_prime_UTR_variant,,ENST00000449979,;ARHGEF7-AS2,intron_variant,,ENST00000425094,;ARHGEF7,non_coding_transcript_exon_variant,,ENST00000422836,;ARHGEF7,intron_variant,,ENST00000483540,;	A	ENSG00000102606	ENST00000375741	Transcript	start_lost	253	3	1	M/I	atG/atA	.	.	.	1	ARHGEF7	HGNC	15607	protein_coding	YES	CCDS45068.1	ENSP00000364893	ARHG7_HUMAN	Q5ZEZ3_HUMAN,E7EUY6_HUMAN,C9JDI6_HUMAN,C9JAD7_HUMAN,B1ANY6_HUMAN	UPI00002132CC	.	deleterious_low_confidence(0)	possibly_damaging(0.621)	1/20	.	Gene3D:1.10.418.10,hmmpanther:PTHR22826:SF94,hmmpanther:PTHR22826,PROSITE_profiles:PS50021	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGATGAATTC	.	2	BLCA
PCID2	0	.	GRCh37	13	113862471	113862471	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.36+442G>A	.	.	ENST00000246505	.	23	16	7	48	48	0	PCID2,5_prime_UTR_variant,,ENST00000375457,;PCID2,intron_variant,,ENST00000337344,;PCID2,intron_variant,,ENST00000246505,;PCID2,intron_variant,,ENST00000375477,;PCID2,intron_variant,,ENST00000375479,;CUL4A,upstream_gene_variant,,ENST00000375441,;CUL4A,upstream_gene_variant,,ENST00000375440,;PCID2,upstream_gene_variant,,ENST00000375459,;CUL4A,upstream_gene_variant,,ENST00000326335,;CUL4A,upstream_gene_variant,,ENST00000451881,;PCID2,intron_variant,,ENST00000480971,;PCID2,intron_variant,,ENST00000484641,;PCID2,intron_variant,,ENST00000475433,;PCID2,intron_variant,,ENST00000491548,;CUL4A,upstream_gene_variant,,ENST00000494985,;CUL4A,upstream_gene_variant,,ENST00000463426,;CUL4A,upstream_gene_variant,,ENST00000474116,;CUL4A,upstream_gene_variant,,ENST00000498562,;CUL4A,upstream_gene_variant,,ENST00000488558,;	T	ENSG00000126226	ENST00000246505	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PCID2	HGNC	25653	protein_coding	YES	CCDS58302.1	ENSP00000246505	PCID2_HUMAN	.	UPI00001AEF24	.	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGCGCT	.	5	BLCA
ZMYM2	0	.	GRCh37	13	20567734	20567734	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.522C>T	p.%3D	p.I174I	ENST00000382869	3/25	110	78	31	153	153	0	ZMYM2,synonymous_variant,p.%3D,ENST00000382869,;ZMYM2,synonymous_variant,p.%3D,ENST00000382871,;ZMYM2,synonymous_variant,p.%3D,ENST00000382874,;ZMYM2,intron_variant,,ENST00000382881,;	T	ENSG00000121741	ENST00000382869	Transcript	synonymous_variant	773	522	174	I	atC/atT	.	.	.	1	ZMYM2	HGNC	12989	protein_coding	YES	CCDS45016.1	ENSP00000372322	ZMYM2_HUMAN	.	UPI000013C318	.	.	.	3/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATCACCAC	.	5	BLCA
ATP12A	0	.	GRCh37	13	25264855	25264855	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.795G>A	p.%3D	p.L265L	ENST00000218548	7/23	144	102	42	184	184	0	ATP12A,synonymous_variant,p.%3D,ENST00000218548,;ATP12A,synonymous_variant,p.%3D,ENST00000381946,;	A	ENSG00000075673	ENST00000218548	Transcript	synonymous_variant	1128	795	265	L	ctG/ctA	.	.	.	1	ATP12A	HGNC	13816	protein_coding	YES	CCDS53858.1	ENSP00000218548	AT12A_HUMAN	.	UPI000006D1DE	.	.	.	7/23	.	hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF282,Pfam_domain:PF00122,TIGRFAM_domain:TIGR01106,Gene3D:2.70.150.10,Superfamily_domains:0049471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGGAAGG	.	5	BLCA
FLT1	0	.	GRCh37	13	28886137	28886137	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3485T>A	p.Val1162Glu	p.V1162E	ENST00000282397	26/30	53	38	14	77	77	0	FLT1,missense_variant,p.Val185Glu,ENST00000543394,;FLT1,missense_variant,p.Val380Glu,ENST00000540678,;FLT1,missense_variant,p.Val1162Glu,ENST00000282397,;	T	ENSG00000102755	ENST00000282397	Transcript	missense_variant	3737	3485	1162	V/E	gTa/gAa	.	.	.	-1	FLT1	HGNC	3763	protein_coding	YES	CCDS9330.1	ENSP00000282397	VGFR1_HUMAN	S5U0M6_HUMAN,S5TRK2_HUMAN,L7RSL3_HUMAN,H9N1E8_HUMAN,H9N1E7_HUMAN	UPI000013DCDD	.	tolerated(0.06)	probably_damaging(0.999)	26/30	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF126,Gene3D:1.10.510.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTACATTT	.	5	BLCA
TEX26	0	.	GRCh37	13	31543138	31543138	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763A>T	p.Thr255Ser	p.T255S	ENST00000380473	6/7	54	32	22	64	64	0	TEX26,missense_variant,p.Thr255Ser,ENST00000380473,;RP11-252M21.6,downstream_gene_variant,,ENST00000433788,;TEX26,intron_variant,,ENST00000530916,;TEX26,3_prime_UTR_variant,,ENST00000531960,;	T	ENSG00000175664	ENST00000380473	Transcript	missense_variant	776	763	255	T/S	Act/Tct	.	.	.	1	TEX26	HGNC	28622	protein_coding	YES	CCDS9339.1	ENSP00000369840	TEX26_HUMAN	.	UPI0000070D41	.	tolerated(0.69)	benign(0.082)	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTACTTCC	.	5	BLCA
RXFP2	0	.	GRCh37	13	32371471	32371471	+	Silent	SNP	C	C	T	rs764033056	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1920C>T	p.%3D	p.F640F	ENST00000298386	17/18	64	41	22	89	89	0	RXFP2,synonymous_variant,p.%3D,ENST00000380314,;RXFP2,synonymous_variant,p.%3D,ENST00000298386,;	T	ENSG00000133105	ENST00000298386	Transcript	synonymous_variant	1991	1920	640	F	ttC/ttT	rs764033056	.	.	1	RXFP2	HGNC	17318	protein_coding	YES	CCDS9342.1	ENSP00000298386	RXFP2_HUMAN	.	UPI0000049589	.	.	.	17/18	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF226,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTCTTTTT	.	5	BLCA
FRY	0	.	GRCh37	13	32752364	32752364	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2472G>A	p.Trp824Ter	p.W824*	ENST00000380250	21/61	55	35	20	70	70	0	FRY,stop_gained,p.Trp824Ter,ENST00000380250,;	A	ENSG00000073910	ENST00000380250	Transcript	stop_gained	2968	2472	824	W/*	tgG/tgA	.	.	.	1	FRY	HGNC	20367	protein_coding	YES	CCDS41875.1	ENSP00000369600	FRY_HUMAN	Q96KW3_HUMAN,F5H4D2_HUMAN	UPI000046FD40	.	.	.	21/61	.	hmmpanther:PTHR12295,hmmpanther:PTHR12295:SF29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GAATGGAACGC	.	4	BLCA
BRCA2	0	.	GRCh37	13	32968826	32968826	+	Missense_Mutation	SNP	G	G	A	rs574271678	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9257G>A	p.Gly3086Glu	p.G3086E	ENST00000544455	25/28	81	63	18	83	83	0	BRCA2,missense_variant,p.Gly3086Glu,ENST00000544455,;BRCA2,missense_variant,p.Gly3086Glu,ENST00000380152,;BRCA2,missense_variant,p.Gly72Glu,ENST00000470094,;BRCA2,upstream_gene_variant,,ENST00000533776,;	A	ENSG00000139618	ENST00000544455	Transcript	missense_variant	9484	9257	3086	G/E	gGa/gAa	rs574271678	.	.	1	BRCA2	HGNC	1101	protein_coding	YES	CCDS9344.1	ENSP00000439902	BRCA2_HUMAN	Q9H4L3_HUMAN,Q8IU82_HUMAN,Q8IU77_HUMAN,Q8IU64_HUMAN,K4K7W0_HUMAN,K4JXT6_HUMAN,K4JTT2_HUMAN,E9PIQ1_HUMAN	UPI00001FCBCC	.	deleterious(0)	probably_damaging(1)	25/28	.	hmmpanther:PTHR11289:SF0,hmmpanther:PTHR11289,Pfam_domain:PF09104,Gene3D:2.40.50.140,PIRSF_domain:PIRSF002397,Superfamily_domains:SSF50249	C:0.0002	C:0	C:0	.	C:0	C:0	C:0.001	.	.	uncertain_significance	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTAGGACTTG	byCluster|by1000G	5	BLCA
N4BP2L2	0	.	GRCh37	13	33101633	33101633	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>T	p.Ser20Leu	p.S20L	ENST00000399396	3/10	52	39	12	65	65	0	N4BP2L2,missense_variant,p.Ser5Leu,ENST00000504114,;N4BP2L2,missense_variant,p.Ser5Leu,ENST00000357505,;N4BP2L2,missense_variant,p.Ser20Leu,ENST00000399396,;N4BP2L2,synonymous_variant,p.%3D,ENST00000446957,;N4BP2L2,synonymous_variant,p.%3D,ENST00000267068,;N4BP2L2,synonymous_variant,p.%3D,ENST00000505213,;N4BP2L2,non_coding_transcript_exon_variant,,ENST00000475731,;N4BP2L2,non_coding_transcript_exon_variant,,ENST00000512755,;N4BP2L2,non_coding_transcript_exon_variant,,ENST00000511143,;N4BP2L2,upstream_gene_variant,,ENST00000503814,;	A	ENSG00000244754	ENST00000399396	Transcript	missense_variant	81	59	20	S/L	tCa/tTa	.	.	.	-1	N4BP2L2	HGNC	26916	protein_coding	YES	CCDS45024.1	ENSP00000382328	N42L2_HUMAN	Q6ZV26_HUMAN,B4DPY1_HUMAN	UPI00015C73C2	.	deleterious_low_confidence(0)	probably_damaging(0.958)	3/10	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTGAACAC	.	5	BLCA
STARD13	0	.	GRCh37	13	33703593	33703593	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1221C>T	p.%3D	p.P407P	ENST00000336934	5/14	50	31	18	59	59	0	STARD13,synonymous_variant,p.%3D,ENST00000567873,;STARD13,synonymous_variant,p.%3D,ENST00000336934,;STARD13,synonymous_variant,p.%3D,ENST00000255486,;STARD13,synonymous_variant,p.%3D,ENST00000399365,;	A	ENSG00000133121	ENST00000336934	Transcript	synonymous_variant	1338	1221	407	P	ccC/ccT	.	.	.	-1	STARD13	HGNC	19164	protein_coding	YES	CCDS9348.1	ENSP00000338785	STA13_HUMAN	B3KT04_HUMAN,B2R789_HUMAN	UPI000006226E	.	.	.	5/14	.	hmmpanther:PTHR12659:SF6,hmmpanther:PTHR12659	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTGGGGAA	.	5	BLCA
SMAD9	0	.	GRCh37	13	37453596	37453596	+	Silent	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231G>C	p.%3D	p.G77G	ENST00000379826	2/7	30	21	9	37	37	0	SMAD9,synonymous_variant,p.%3D,ENST00000350148,;SMAD9,synonymous_variant,p.%3D,ENST00000379826,;SMAD9,synonymous_variant,p.%3D,ENST00000399275,;SMAD9,downstream_gene_variant,,ENST00000483941,;	G	ENSG00000120693	ENST00000379826	Transcript	synonymous_variant	574	231	77	G	ggG/ggC	.	.	.	-1	SMAD9	HGNC	6774	protein_coding	YES	CCDS45032.1	ENSP00000369154	SMAD9_HUMAN	.	UPI0000135A85	.	.	.	2/7	.	Superfamily_domains:0040928,SMART_domains:SM00523,Pfam_domain:PF03165,Gene3D:1ozjA00,hmmpanther:PTHR13703:SF37,hmmpanther:PTHR13703,PROSITE_profiles:PS51075	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCGCCCGTC	.	5	BLCA
SUPT20H	0	.	GRCh37	13	37603948	37603948	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.947A>G	p.Lys316Arg	p.K316R	ENST00000350612	13/26	36	21	14	56	56	0	SUPT20H,missense_variant,p.Lys316Arg,ENST00000350612,;SUPT20H,missense_variant,p.Lys317Arg,ENST00000360252,;SUPT20H,missense_variant,p.Lys317Arg,ENST00000464744,;SUPT20H,missense_variant,p.Lys317Arg,ENST00000356185,;SUPT20H,missense_variant,p.Lys316Arg,ENST00000475892,;SUPT20H,intron_variant,,ENST00000542180,;SUPT20H,upstream_gene_variant,,ENST00000469488,;AL138706.1,downstream_gene_variant,,ENST00000408173,;SUPT20H,intron_variant,,ENST00000490602,;SUPT20H,upstream_gene_variant,,ENST00000466563,;SUPT20H,upstream_gene_variant,,ENST00000476539,;SUPT20H,missense_variant,p.Lys304Arg,ENST00000490716,;SUPT20H,non_coding_transcript_exon_variant,,ENST00000493537,;SUPT20H,intron_variant,,ENST00000495071,;SUPT20H,upstream_gene_variant,,ENST00000478911,;SUPT20H,upstream_gene_variant,,ENST00000484078,;	C	ENSG00000102710	ENST00000350612	Transcript	missense_variant	1168	947	316	K/R	aAg/aGg	.	.	.	-1	SUPT20H	HGNC	20596	protein_coding	YES	CCDS31959.1	ENSP00000218894	SP20H_HUMAN	.	UPI00004566E3	.	tolerated(0.28)	benign(0.002)	13/26	.	hmmpanther:PTHR13526,hmmpanther:PTHR13526:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGACTTTTCC	.	5	BLCA
NAA16	0	.	GRCh37	13	41943408	41943408	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1936A>C	p.Lys646Gln	p.K646Q	ENST00000379406	15/20	71	46	25	60	60	0	NAA16,missense_variant,p.Lys646Gln,ENST00000379406,;NAA16,non_coding_transcript_exon_variant,,ENST00000497143,;NAA16,non_coding_transcript_exon_variant,,ENST00000463114,;NAA16,non_coding_transcript_exon_variant,,ENST00000495148,;NAA16,upstream_gene_variant,,ENST00000477452,;NAA16,downstream_gene_variant,,ENST00000497727,;NAA16,downstream_gene_variant,,ENST00000464857,;	C	ENSG00000172766	ENST00000379406	Transcript	missense_variant	2260	1936	646	K/Q	Aaa/Caa	.	.	.	1	NAA16	HGNC	26164	protein_coding	YES	CCDS9379.1	ENSP00000368716	NAA16_HUMAN	A4FU51_HUMAN	UPI00001B559E	.	deleterious(0.02)	possibly_damaging(0.649)	15/20	.	PIRSF_domain:PIRSF000422,Pfam_domain:PF12569,hmmpanther:PTHR22767:SF5,hmmpanther:PTHR22767	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAAAATTA	.	5	BLCA
NUFIP1	0	.	GRCh37	13	45563222	45563222	+	Missense_Mutation	SNP	G	G	A	rs781382296	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.350C>T	p.Ser117Leu	p.S117L	ENST00000379161	1/10	28	16	12	36	36	0	NUFIP1,missense_variant,p.Ser117Leu,ENST00000379161,;GPALPP1,upstream_gene_variant,,ENST00000379151,;GPALPP1,upstream_gene_variant,,ENST00000361121,;RP11-321C24.1,intron_variant,,ENST00000437748,;GPALPP1,upstream_gene_variant,,ENST00000479068,;GPALPP1,upstream_gene_variant,,ENST00000497558,;	A	ENSG00000083635	ENST00000379161	Transcript	missense_variant	397	350	117	S/L	tCg/tTg	rs781382296	.	.	-1	NUFIP1	HGNC	8057	protein_coding	YES	CCDS9393.1	ENSP00000368459	NUFP1_HUMAN	.	UPI000013C768	.	tolerated_low_confidence(0.06)	benign(0.015)	1/10	.	hmmpanther:PTHR13309	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCACGATGTG	.	5	BLCA
KCNRG	0	.	GRCh37	13	50589677	50589677	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48C>T	p.%3D	p.F16F	ENST00000312942	1/2	71	48	23	92	92	0	KCNRG,synonymous_variant,p.%3D,ENST00000360473,;KCNRG,synonymous_variant,p.%3D,ENST00000312942,;TRIM13,3_prime_UTR_variant,,ENST00000378182,;TRIM13,downstream_gene_variant,,ENST00000378183,;TRIM13,downstream_gene_variant,,ENST00000420995,;TRIM13,downstream_gene_variant,,ENST00000356017,;TRIM13,downstream_gene_variant,,ENST00000457662,;TRIM13,downstream_gene_variant,,ENST00000442421,;TRIM13,downstream_gene_variant,,ENST00000298772,;TRIM13,intron_variant,,ENST00000478111,;TRIM13,intron_variant,,ENST00000474805,;	T	ENSG00000198553	ENST00000312942	Transcript	synonymous_variant	288	48	16	F	ttC/ttT	.	.	.	1	KCNRG	HGNC	18893	protein_coding	YES	CCDS9424.1	ENSP00000324191	KCNRG_HUMAN	.	UPI000000D8AF	.	.	.	1/2	.	hmmpanther:PTHR14499:SF5,hmmpanther:PTHR14499,Pfam_domain:PF02214,Gene3D:3.30.710.10,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTCACGAC	.	5	BLCA
INTS6	0	.	GRCh37	13	52025078	52025078	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339+83G>A	.	.	ENST00000311234	.	30	23	7	45	45	0	INTS6,3_prime_UTR_variant,,ENST00000442263,;INTS6,intron_variant,,ENST00000398119,;INTS6,intron_variant,,ENST00000311234,;INTS6,intron_variant,,ENST00000485178,;INTS6,intron_variant,,ENST00000463928,;INTS6,intron_variant,,ENST00000483288,;INTS6,intron_variant,,ENST00000488009,;INTS6,intron_variant,,ENST00000491189,;INTS6,intron_variant,,ENST00000425000,;INTS6,intron_variant,,ENST00000420668,;INTS6-AS1,upstream_gene_variant,,ENST00000597745,;INTS6-AS1,upstream_gene_variant,,ENST00000601572,;INTS6-AS1,upstream_gene_variant,,ENST00000596050,;INTS6-AS1,upstream_gene_variant,,ENST00000602089,;INTS6-AS1,upstream_gene_variant,,ENST00000594604,;INTS6-AS1,upstream_gene_variant,,ENST00000593709,;INTS6-AS1,upstream_gene_variant,,ENST00000598905,;INTS6-AS1,upstream_gene_variant,,ENST00000598864,;INTS6-AS1,upstream_gene_variant,,ENST00000594358,;INTS6-AS1,upstream_gene_variant,,ENST00000593672,;INTS6-AS1,upstream_gene_variant,,ENST00000595424,;INTS6-AS1,upstream_gene_variant,,ENST00000434512,;INTS6-AS1,upstream_gene_variant,,ENST00000600477,;INTS6-AS1,upstream_gene_variant,,ENST00000594488,;INTS6-AS1,upstream_gene_variant,,ENST00000594959,;INTS6-AS1,upstream_gene_variant,,ENST00000596180,;INTS6-AS1,upstream_gene_variant,,ENST00000595997,;INTS6-AS1,upstream_gene_variant,,ENST00000593429,;INTS6-AS1,upstream_gene_variant,,ENST00000601318,;INTS6-AS1,upstream_gene_variant,,ENST00000595435,;INTS6-AS1,upstream_gene_variant,,ENST00000593928,;INTS6-AS1,upstream_gene_variant,,ENST00000601034,;INTS6-AS1,upstream_gene_variant,,ENST00000599315,;INTS6-AS1,upstream_gene_variant,,ENST00000596303,;INTS6,intron_variant,,ENST00000491723,;INTS6,intron_variant,,ENST00000461515,;INTS6,intron_variant,,ENST00000486195,;RPS4XP16,upstream_gene_variant,,ENST00000595905,;RPS4XP16,upstream_gene_variant,,ENST00000596904,;INTS6,non_coding_transcript_exon_variant,,ENST00000478566,;INTS6,intron_variant,,ENST00000469430,;INTS6,intron_variant,,ENST00000491997,;	T	ENSG00000102786	ENST00000311234	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	INTS6	HGNC	14879	protein_coding	YES	CCDS9428.1	ENSP00000310260	INT6_HUMAN	G5E9X1_HUMAN,C9K0V7_HUMAN,C9JVX2_HUMAN,C9J885_HUMAN,C9J0C6_HUMAN,B3KQH5_HUMAN	UPI0000030C84	.	.	.	.	3/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCATGTT	.	5	BLCA
ALG11	0	.	GRCh37	13	52602636	52602636	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1389C>T	p.%3D	p.I463I	ENST00000521508	4/4	66	44	21	81	81	0	ALG11,synonymous_variant,p.%3D,ENST00000521508,;UTP14C,5_prime_UTR_variant,,ENST00000521776,;ALG11,3_prime_UTR_variant,,ENST00000523764,;ALG11,non_coding_transcript_exon_variant,,ENST00000519151,;	T	ENSG00000253710	ENST00000521508	Transcript	synonymous_variant	1394	1389	463	I	atC/atT	.	.	.	1	ALG11	HGNC	32456	protein_coding	YES	CCDS31977.1	ENSP00000430236	ALG11_HUMAN	.	UPI000044C60E	.	.	.	4/4	.	hmmpanther:PTHR12526:SF23,hmmpanther:PTHR12526,Pfam_domain:PF00534,Gene3D:3.40.50.2000,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATCAGAAA	.	5	BLCA
KLF5	0	.	GRCh37	13	73636119	73636119	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382G>A	p.Glu128Lys	p.E128K	ENST00000377687	2/4	143	91	52	165	165	0	KLF5,missense_variant,p.Glu128Lys,ENST00000377687,;KLF5,missense_variant,p.Glu37Lys,ENST00000539231,;KLF5,non_coding_transcript_exon_variant,,ENST00000476859,;KLF5,non_coding_transcript_exon_variant,,ENST00000477333,;	A	ENSG00000102554	ENST00000377687	Transcript	missense_variant	918	382	128	E/K	Gaa/Aaa	.	.	.	1	KLF5	HGNC	6349	protein_coding	YES	CCDS9448.1	ENSP00000366915	KLF5_HUMAN	Q5T6X2_HUMAN,B4DL96_HUMAN,A2TJX0_HUMAN	UPI0000000C89	.	tolerated(1)	possibly_damaging(0.899)	2/4	.	hmmpanther:PTHR23223:SF144,hmmpanther:PTHR23223	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTGAAGGG	.	5	BLCA
KLF5	0	.	GRCh37	13	73636220	73636220	+	Silent	SNP	C	C	T	rs747783347	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483C>T	p.%3D	p.I161I	ENST00000377687	2/4	59	39	19	97	97	0	KLF5,synonymous_variant,p.%3D,ENST00000377687,;KLF5,synonymous_variant,p.%3D,ENST00000539231,;KLF5,non_coding_transcript_exon_variant,,ENST00000476859,;KLF5,non_coding_transcript_exon_variant,,ENST00000477333,;	T	ENSG00000102554	ENST00000377687	Transcript	synonymous_variant	1019	483	161	I	atC/atT	rs747783347,COSM1514579	.	.	1	KLF5	HGNC	6349	protein_coding	YES	CCDS9448.1	ENSP00000366915	KLF5_HUMAN	Q5T6X2_HUMAN,B4DL96_HUMAN,A2TJX0_HUMAN	UPI0000000C89	.	.	.	2/4	.	hmmpanther:PTHR23223:SF144,hmmpanther:PTHR23223	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCAAGAC	.	5	BLCA
TBC1D4	0	.	GRCh37	13	76055665	76055665	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.239G>A	p.Arg80Gln	p.R80Q	ENST00000377636	1/21	18	14	4	18	18	0	TBC1D4,missense_variant,p.Arg80Gln,ENST00000377625,;TBC1D4,missense_variant,p.Arg80Gln,ENST00000431480,;TBC1D4,missense_variant,p.Arg80Gln,ENST00000377636,;TBC1D4,5_prime_UTR_variant,,ENST00000425511,;	T	ENSG00000136111	ENST00000377636	Transcript	missense_variant	586	239	80	R/Q	cGa/cAa	.	.	.	-1	TBC1D4	HGNC	19165	protein_coding	YES	CCDS41901.1	ENSP00000366863	TBCD4_HUMAN	.	UPI00001AE7B3	.	tolerated(0.2)	probably_damaging(0.997)	1/21	.	Gene3D:2.30.29.30,SMART_domains:SM00462,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCTCGGGCC	.	2	BLCA
CLN5	0	.	GRCh37	13	77566371	77566371	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.285C>T	p.%3D	p.G95G	ENST00000377453	1/4	8	5	3	8	8	0	CLN5,synonymous_variant,p.%3D,ENST00000377453,;CLN5,non_coding_transcript_exon_variant,,ENST00000485938,;FBXL3,downstream_gene_variant,,ENST00000485797,;DHX9P1,downstream_gene_variant,,ENST00000436565,;	T	ENSG00000102805	ENST00000377453	Transcript	synonymous_variant	1577	285	95	G	ggC/ggT	.	.	.	1	CLN5	HGNC	2076	protein_coding	YES	CCDS9456.1	ENSP00000366673	CLN5_HUMAN	B4E1V6_HUMAN	UPI0000127AD8	.	.	.	1/4	.	hmmpanther:PTHR15380:SF0,hmmpanther:PTHR15380	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGGGCATCCC	.	2	BLCA
MYCBP2	0	.	GRCh37	13	77742611	77742611	+	Silent	SNP	G	G	A	rs771024491	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5952C>T	p.%3D	p.V1984V	ENST00000544440	40/83	52	36	15	84	83	0	MYCBP2,synonymous_variant,p.%3D,ENST00000357337,;MYCBP2,synonymous_variant,p.%3D,ENST00000544440,;MYCBP2,synonymous_variant,p.%3D,ENST00000407578,;MYCBP2,5_prime_UTR_variant,,ENST00000360084,;	A	ENSG00000005810	ENST00000544440	Transcript	synonymous_variant	5970	5952	1984	V	gtC/gtT	rs771024491	.	.	-1	MYCBP2	HGNC	23386	protein_coding	YES	.	ENSP00000444596	MYCB2_HUMAN	.	UPI0000212757	.	.	.	40/83	.	hmmpanther:PTHR12846:SF14,hmmpanther:PTHR12846	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATGACAGC	byFrequency	5	BLCA
POU4F1	0	.	GRCh37	13	79175801	79175801	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>A	p.Glu337Lys	p.E337K	ENST00000377208	2/2	24	16	8	19	19	0	POU4F1,missense_variant,p.Glu337Lys,ENST00000377208,;RNF219-AS1,intron_variant,,ENST00000430549,;RNF219-AS1,intron_variant,,ENST00000560584,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000607860,;RP11-52L5.6,downstream_gene_variant,,ENST00000607269,;	T	ENSG00000152192	ENST00000377208	Transcript	missense_variant	1221	1009	337	E/K	Gag/Aag	.	.	.	-1	POU4F1	HGNC	9218	protein_coding	YES	CCDS31996.1	ENSP00000366413	PO4F1_HUMAN	.	UPI000013DCAA	.	deleterious(0)	unknown(0)	2/2	.	PROSITE_profiles:PS51179,hmmpanther:PTHR11636,hmmpanther:PTHR11636:SF42,Gene3D:1.10.10.60,Pfam_domain:PF00157,SMART_domains:SM00352,Superfamily_domains:SSF47413	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGGCCT	.	5	BLCA
MIR17HG	0	.	GRCh37	13	92003372	92003372	+	RNA	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1561G>A	.	.	ENST00000582141	2/2	183	122	60	276	276	0	MIR17HG,mature_miRNA_variant,,ENST00000362279,;MIR17HG,non_coding_transcript_exon_variant,,ENST00000581816,;MIR17HG,intron_variant,,ENST00000400282,;MIR17HG,downstream_gene_variant,,ENST00000362310,;MIR17HG,upstream_gene_variant,,ENST00000385233,;MIR17HG,downstream_gene_variant,,ENST00000384878,;MIR17HG,downstream_gene_variant,,ENST00000385012,;MIR17HG,upstream_gene_variant,,ENST00000384829,;MIR17HG,non_coding_transcript_exon_variant,,ENST00000582141,;	A	ENSG00000215417	ENST00000582141	Transcript	non_coding_transcript_exon_variant	1561	.	.	.	.	.	.	.	1	MIR17HG	HGNC	23564	retained_intron	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATGAGCAC	.	5	BLCA
GPR180	0	.	GRCh37	13	95271755	95271755	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720G>A	p.Met240Ile	p.M240I	ENST00000376958	5/9	61	42	19	72	72	0	GPR180,missense_variant,p.Met240Ile,ENST00000376958,;	A	ENSG00000152749	ENST00000376958	Transcript	missense_variant	745	720	240	M/I	atG/atA	.	.	.	1	GPR180	HGNC	28899	protein_coding	YES	CCDS9472.1	ENSP00000366157	GP180_HUMAN	.	UPI00001969C8	.	tolerated(0.2)	benign(0.009)	5/9	.	Pfam_domain:PF10192,hmmpanther:PTHR23252:SF26,hmmpanther:PTHR23252	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATGGGAAG	.	5	BLCA
ABCC4	0	.	GRCh37	13	95858815	95858815	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1132G>C	p.Glu378Gln	p.E378Q	ENST00000376887	8/31	57	39	18	79	79	0	ABCC4,missense_variant,p.Glu378Gln,ENST00000431522,;ABCC4,missense_variant,p.Glu378Gln,ENST00000376887,;ABCC4,missense_variant,p.Glu378Gln,ENST00000412704,;ABCC4,missense_variant,p.Glu303Gln,ENST00000536256,;ABCC4,3_prime_UTR_variant,,ENST00000538287,;snoU13,upstream_gene_variant,,ENST00000459449,;	G	ENSG00000125257	ENST00000376887	Transcript	missense_variant	1247	1132	378	E/Q	Gag/Cag	.	.	.	-1	ABCC4	HGNC	55	protein_coding	YES	CCDS9474.1	ENSP00000366084	MRP4_HUMAN	Q8IUA3_HUMAN	UPI00001A36E6	.	deleterious(0.01)	possibly_damaging(0.606)	8/31	.	Superfamily_domains:SSF90123,Gene3D:2hydA01,hmmpanther:PTHR24223,hmmpanther:PTHR24223:SF205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCTGACA	.	5	BLCA
DNAJC3	0	.	GRCh37	13	96409922	96409922	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.418G>A	p.Glu140Lys	p.E140K	ENST00000602402	5/12	48	28	20	59	59	0	DNAJC3,missense_variant,p.Glu140Lys,ENST00000602402,;DNAJC3,intron_variant,,ENST00000376795,;	A	ENSG00000102580	ENST00000602402	Transcript	missense_variant	535	418	140	E/K	Gaa/Aaa	.	.	.	1	DNAJC3	HGNC	9439	protein_coding	YES	CCDS9479.1	ENSP00000473631	DNJC3_HUMAN	A8KA82_HUMAN	UPI000006F088	.	deleterious(0.05)	benign(0.021)	5/12	.	PROSITE_profiles:PS50293,hmmpanther:PTHR24078:SF165,hmmpanther:PTHR24078,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGAAGAA	.	5	BLCA
UGGT2	0	.	GRCh37	13	96543179	96543179	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2895C>T	p.%3D	p.F965F	ENST00000376747	25/39	39	29	10	38	38	0	UGGT2,synonymous_variant,p.%3D,ENST00000376747,;UGGT2,non_coding_transcript_exon_variant,,ENST00000491509,;UGGT2,non_coding_transcript_exon_variant,,ENST00000463054,;	A	ENSG00000102595	ENST00000376747	Transcript	synonymous_variant	2966	2895	965	F	ttC/ttT	.	.	.	-1	UGGT2	HGNC	15664	protein_coding	YES	CCDS9480.1	ENSP00000365938	UGGG2_HUMAN	.	UPI00001FC9AA	.	.	.	25/39	.	hmmpanther:PTHR11226:SF1,hmmpanther:PTHR11226,Pfam_domain:PF06427	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTGAAGAA	.	5	BLCA
HS6ST3	0	.	GRCh37	13	96743557	96743557	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441G>A	p.%3D	p.V147V	ENST00000376705	1/2	19	10	8	25	25	0	HS6ST3,synonymous_variant,p.%3D,ENST00000376705,;	A	ENSG00000185352	ENST00000376705	Transcript	synonymous_variant	465	441	147	V	gtG/gtA	.	.	.	1	HS6ST3	HGNC	19134	protein_coding	YES	CCDS9481.1	ENSP00000365895	H6ST3_HUMAN	B3KX95_HUMAN	UPI00001AF933	.	.	.	1/2	.	hmmpanther:PTHR12812,hmmpanther:PTHR12812:SF3,Pfam_domain:PF03567,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACGTGATCGT	.	5	BLCA
FARP1	0	.	GRCh37	13	99083377	99083377	+	Silent	SNP	G	G	A	rs775621884	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1986G>A	p.%3D	p.E662E	ENST00000319562	18/27	21	10	11	37	37	0	FARP1,synonymous_variant,p.%3D,ENST00000319562,;FARP1,synonymous_variant,p.%3D,ENST00000376586,;FARP1,synonymous_variant,p.%3D,ENST00000423063,;FARP1,synonymous_variant,p.%3D,ENST00000595437,;FARP1,synonymous_variant,p.%3D,ENST00000596256,;FARP1-AS1,downstream_gene_variant,,ENST00000432229,;FARP1,upstream_gene_variant,,ENST00000597777,;	A	ENSG00000152767	ENST00000319562	Transcript	synonymous_variant	2251	1986	662	E	gaG/gaA	rs775621884	.	.	1	FARP1	HGNC	3591	protein_coding	YES	CCDS9487.1	ENSP00000322926	FARP1_HUMAN	M0QYB0_HUMAN	UPI000007052C	.	.	.	18/27	.	PROSITE_profiles:PS50010,hmmpanther:PTHR12673,hmmpanther:PTHR12673:SF105,Gene3D:1.20.900.10,Pfam_domain:PF00621,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGAACTT	.	5	BLCA
SLC15A1	0	.	GRCh37	13	99336874	99336874	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*104C>T	.	.	ENST00000376503	23/23	30	17	13	31	31	0	SLC15A1,3_prime_UTR_variant,,ENST00000376503,;	A	ENSG00000088386	ENST00000376503	Transcript	3_prime_UTR_variant	2287	.	.	.	.	.	.	.	-1	SLC15A1	HGNC	10920	protein_coding	YES	CCDS9489.1	ENSP00000365686	S15A1_HUMAN	B2CQT6_HUMAN	UPI000013166F	.	.	.	23/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGAAGTC	.	5	BLCA
GPR18	0	.	GRCh37	13	99907631	99907631	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.496G>A	p.Asp166Asn	p.D166N	ENST00000340807	3/3	48	28	19	69	69	0	GPR18,missense_variant,p.Asp166Asn,ENST00000340807,;GPR18,missense_variant,p.Asp166Asn,ENST00000397473,;GPR18,missense_variant,p.Asp166Asn,ENST00000397470,;UBAC2,intron_variant,,ENST00000376440,;UBAC2,intron_variant,,ENST00000355700,;UBAC2,intron_variant,,ENST00000403766,;GPR18,downstream_gene_variant,,ENST00000416594,;UBAC2,intron_variant,,ENST00000473091,;UBAC2,intron_variant,,ENST00000494576,;UBAC2,intron_variant,,ENST00000468067,;	T	ENSG00000125245	ENST00000340807	Transcript	missense_variant	1053	496	166	D/N	Gac/Aac	.	.	.	-1	GPR18	HGNC	4472	protein_coding	YES	CCDS9491.1	ENSP00000343428	GPR18_HUMAN	Q5JUH9_HUMAN,H9NIM1_HUMAN	UPI0000050424	.	tolerated(0.53)	benign(0.03)	3/3	.	Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,hmmpanther:PTHR24232:SF1,hmmpanther:PTHR24232,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGTCTTTAT	.	5	BLCA
DYNC1H1	0	.	GRCh37	14	102460545	102460545	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3040G>A	p.Glu1014Lys	p.E1014K	ENST00000360184	12/78	147	94	52	187	187	0	DYNC1H1,missense_variant,p.Glu1014Lys,ENST00000360184,;	A	ENSG00000197102	ENST00000360184	Transcript	missense_variant	3204	3040	1014	E/K	Gag/Aag	.	.	.	1	DYNC1H1	HGNC	2961	protein_coding	YES	CCDS9966.1	ENSP00000348965	DYHC1_HUMAN	Q92862_HUMAN,B4DSR6_HUMAN	UPI00001B515A	.	.	benign(0.01)	12/78	.	hmmpanther:PTHR10676:SF28,hmmpanther:PTHR10676	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTGAGGAA	.	5	BLCA
HSP90AA1	0	.	GRCh37	14	102552222	102552222	+	Silent	SNP	G	G	A	rs577315542	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768C>T	p.%3D	p.F256F	ENST00000334701	4/12	75	47	28	105	105	0	HSP90AA1,synonymous_variant,p.%3D,ENST00000334701,;HSP90AA1,synonymous_variant,p.%3D,ENST00000216281,;HSP90AA1,intron_variant,,ENST00000441629,;HSP90AA1,intron_variant,,ENST00000553585,;HSP90AA1,intron_variant,,ENST00000554401,;HSP90AA1,downstream_gene_variant,,ENST00000556554,;HSP90AA1,upstream_gene_variant,,ENST00000555662,;HSP90AA1,upstream_gene_variant,,ENST00000560130,;HSP90AA1,upstream_gene_variant,,ENST00000557089,;HSP90AA1,downstream_gene_variant,,ENST00000557234,;	A	ENSG00000080824	ENST00000334701	Transcript	synonymous_variant	1050	768	256	F	ttC/ttT	rs577315542	.	.	-1	HSP90AA1	HGNC	5253	protein_coding	YES	CCDS32160.1	ENSP00000335153	HS90A_HUMAN	Q96HX7_HUMAN,Q8TBA7_HUMAN,Q86SX1_HUMAN,K9JA46_HUMAN	UPI0000408144	.	.	.	4/12	.	HAMAP:MF_00505,hmmpanther:PTHR11528,Pfam_domain:PF02518,Gene3D:3.30.565.10,PIRSF_domain:PIRSF002583,SMART_domains:SM00387,Superfamily_domains:SSF55874,Prints_domain:PR00775	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACCGAACTG	by1000G	5	BLCA
EXOC3L4	0	.	GRCh37	14	103571389	103571389	+	Silent	SNP	C	C	T	rs780785493	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1446C>T	p.%3D	p.I482I	ENST00000380069	6/11	22	14	7	42	42	0	EXOC3L4,synonymous_variant,p.%3D,ENST00000380069,;EXOC3L4,downstream_gene_variant,,ENST00000559116,;EXOC3L4,upstream_gene_variant,,ENST00000560304,;EXOC3L4,3_prime_UTR_variant,,ENST00000559661,;EXOC3L4,non_coding_transcript_exon_variant,,ENST00000560925,;EXOC3L4,upstream_gene_variant,,ENST00000559693,;EXOC3L4,downstream_gene_variant,,ENST00000560102,;	T	ENSG00000205436	ENST00000380069	Transcript	synonymous_variant	1522	1446	482	I	atC/atT	rs780785493	.	.	1	EXOC3L4	HGNC	20120	protein_coding	YES	CCDS32163.1	ENSP00000369409	EX3L4_HUMAN	.	UPI0000425FC1	.	.	.	6/11	.	hmmpanther:PTHR21292:SF14,hmmpanther:PTHR21292,Pfam_domain:PF06046	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCAACGC	.	5	BLCA
ADSSL1	0	.	GRCh37	14	105206143	105206143	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595G>A	p.Glu199Lys	p.E199K	ENST00000332972	5/13	77	64	13	78	78	0	ADSSL1,missense_variant,p.Glu199Lys,ENST00000332972,;ADSSL1,missense_variant,p.Glu156Lys,ENST00000330877,;ADSSL1,upstream_gene_variant,,ENST00000554657,;ADSSL1,missense_variant,p.Arg193Lys,ENST00000553540,;ADSSL1,synonymous_variant,p.%3D,ENST00000555486,;ADSSL1,non_coding_transcript_exon_variant,,ENST00000557582,;ADSSL1,upstream_gene_variant,,ENST00000555884,;ADSSL1,upstream_gene_variant,,ENST00000554281,;ADSSL1,upstream_gene_variant,,ENST00000553580,;ADSSL1,upstream_gene_variant,,ENST00000557271,;	A	ENSG00000185100	ENST00000332972	Transcript	missense_variant	754	595	199	E/K	Gag/Aag	.	.	.	1	ADSSL1	HGNC	20093	protein_coding	YES	CCDS9991.1	ENSP00000333019	PURA1_HUMAN	G3V5D8_HUMAN,B3KTV4_HUMAN	UPI00001D6A2D	.	tolerated(0.49)	benign(0.433)	5/13	.	HAMAP:MF_00011,hmmpanther:PTHR11846:SF2,hmmpanther:PTHR11846,Gene3D:1.10.300.10,TIGRFAM_domain:TIGR00184,Pfam_domain:PF00709,SMART_domains:SM00788,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAAGAGGGG	.	5	BLCA
ADSSL1	0	.	GRCh37	14	105207471	105207471	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813C>T	p.%3D	p.I271I	ENST00000332972	8/13	53	38	15	63	63	0	ADSSL1,synonymous_variant,p.%3D,ENST00000332972,;ADSSL1,synonymous_variant,p.%3D,ENST00000330877,;ADSSL1,upstream_gene_variant,,ENST00000555674,;ADSSL1,upstream_gene_variant,,ENST00000556623,;ADSSL1,upstream_gene_variant,,ENST00000554657,;ADSSL1,3_prime_UTR_variant,,ENST00000555486,;ADSSL1,3_prime_UTR_variant,,ENST00000553540,;ADSSL1,non_coding_transcript_exon_variant,,ENST00000557582,;ADSSL1,upstream_gene_variant,,ENST00000555884,;ADSSL1,upstream_gene_variant,,ENST00000554281,;ADSSL1,upstream_gene_variant,,ENST00000553580,;ADSSL1,upstream_gene_variant,,ENST00000557271,;	T	ENSG00000185100	ENST00000332972	Transcript	synonymous_variant	972	813	271	I	atC/atT	.	.	.	1	ADSSL1	HGNC	20093	protein_coding	YES	CCDS9991.1	ENSP00000333019	PURA1_HUMAN	G3V5D8_HUMAN,B3KTV4_HUMAN	UPI00001D6A2D	.	.	.	8/13	.	HAMAP:MF_00011,hmmpanther:PTHR11846:SF2,hmmpanther:PTHR11846,TIGRFAM_domain:TIGR00184,Gene3D:2v40A01,Pfam_domain:PF00709,SMART_domains:SM00788,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGATCAGACC	.	5	BLCA
AKT1	0	.	GRCh37	14	105242030	105242030	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394G>A	p.Glu132Lys	p.E132K	ENST00000554581	4/13	50	31	18	71	71	0	AKT1,missense_variant,p.Glu132Lys,ENST00000407796,;AKT1,missense_variant,p.Glu70Lys,ENST00000555380,;AKT1,missense_variant,p.Glu70Lys,ENST00000544168,;AKT1,missense_variant,p.Glu132Lys,ENST00000554581,;AKT1,missense_variant,p.Glu132Lys,ENST00000402615,;AKT1,missense_variant,p.Glu132Lys,ENST00000349310,;AKT1,missense_variant,p.Glu132Lys,ENST00000554848,;AKT1,missense_variant,p.Glu132Lys,ENST00000555528,;AKT1,upstream_gene_variant,,ENST00000555458,;AKT1,downstream_gene_variant,,ENST00000555926,;AKT1,upstream_gene_variant,,ENST00000554192,;AKT1,upstream_gene_variant,,ENST00000554585,;AKT1,non_coding_transcript_exon_variant,,ENST00000554826,;AKT1,non_coding_transcript_exon_variant,,ENST00000557552,;AKT1,upstream_gene_variant,,ENST00000556836,;AKT1,upstream_gene_variant,,ENST00000553506,;	T	ENSG00000142208	ENST00000554581	Transcript	missense_variant	1875	394	132	E/K	Gaa/Aaa	.	.	.	-1	AKT1	HGNC	391	protein_coding	YES	CCDS9994.1	ENSP00000451828	AKT1_HUMAN	B0LPE5_HUMAN,Q9BV07_HUMAN,G3V4I6_HUMAN,G3V3K5_HUMAN,B7Z5R1_HUMAN,B3KXD7_HUMAN	UPI0000070813	.	tolerated(0.33)	benign(0.04)	4/13	.	hmmpanther:PTHR24352,hmmpanther:PTHR24352:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAGCCC	.	5	BLCA
AHNAK2	0	.	GRCh37	14	105405653	105405653	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16135G>T	p.Asp5379Tyr	p.D5379Y	ENST00000333244	7/7	29	21	8	36	36	0	AHNAK2,missense_variant,p.Asp5379Tyr,ENST00000333244,;AHNAK2,missense_variant,p.Asp377Tyr,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	A	ENSG00000185567	ENST00000333244	Transcript	missense_variant	16255	16135	5379	D/Y	Gat/Tat	COSM953829,COSM953828	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	probably_damaging(0.974)	7/7	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATCTTCCC	.	5	BLCA
AHNAK2	0	.	GRCh37	14	105410601	105410601	+	Silent	SNP	C	C	T	rs368299595	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11187G>A	p.%3D	p.L3729L	ENST00000333244	7/7	285	196	88	369	369	0	AHNAK2,synonymous_variant,p.%3D,ENST00000333244,;AHNAK2,intron_variant,,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	T	ENSG00000185567	ENST00000333244	Transcript	synonymous_variant	11307	11187	3729	L	ttG/ttA	rs368299595	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	.	7/7	.	hmmpanther:PTHR23348:SF37,hmmpanther:PTHR23348	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	T:0.0019	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE	ATCTTCAAACT	byFrequency|byCluster|by1000G	3	BLCA
AHNAK2	0	.	GRCh37	14	105410960	105410960	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10828G>T	p.Ala3610Ser	p.A3610S	ENST00000333244	7/7	197	133	63	267	267	0	AHNAK2,missense_variant,p.Ala3610Ser,ENST00000333244,;AHNAK2,intron_variant,,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	A	ENSG00000185567	ENST00000333244	Transcript	missense_variant	10948	10828	3610	A/S	Gcc/Tcc	.	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	possibly_damaging(0.567)	7/7	.	hmmpanther:PTHR23348:SF37,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGGCCTGGA	.	5	BLCA
AHNAK2	0	.	GRCh37	14	105410961	105410961	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10827G>C	p.Gln3609His	p.Q3609H	ENST00000333244	7/7	196	133	62	268	268	0	AHNAK2,missense_variant,p.Gln3609His,ENST00000333244,;AHNAK2,intron_variant,,ENST00000557457,;AHNAK2,non_coding_transcript_exon_variant,,ENST00000555122,;	G	ENSG00000185567	ENST00000333244	Transcript	missense_variant	10947	10827	3609	Q/H	caG/caC	.	.	.	-1	AHNAK2	HGNC	20125	protein_coding	YES	CCDS45177.1	ENSP00000353114	AHNK2_HUMAN	.	UPI00015BB2CA	.	.	benign(0.387)	7/7	.	hmmpanther:PTHR23348:SF37,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGCCTGGAC	.	5	BLCA
PACS2	0	.	GRCh37	14	105818719	105818719	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.212C>T	p.Ser71Phe	p.S71F	ENST00000458164	3/25	88	64	23	152	152	0	PACS2,missense_variant,p.Ser71Phe,ENST00000447393,;PACS2,missense_variant,p.Ser71Phe,ENST00000325438,;PACS2,missense_variant,p.Ser4Phe,ENST00000430725,;PACS2,missense_variant,p.Ser4Phe,ENST00000546915,;PACS2,missense_variant,p.Ser71Phe,ENST00000458164,;PACS2,intron_variant,,ENST00000547217,;PACS2,upstream_gene_variant,,ENST00000552138,;PACS2,downstream_gene_variant,,ENST00000548265,;	T	ENSG00000179364	ENST00000458164	Transcript	missense_variant	387	212	71	S/F	tCc/tTc	.	.	.	1	PACS2	HGNC	23794	protein_coding	YES	CCDS45178.2	ENSP00000399732	PACS2_HUMAN	F8W0V0_HUMAN,F8W0B1_HUMAN	UPI0000E56F01	.	deleterious(0)	probably_damaging(0.988)	3/25	.	hmmpanther:PTHR13280:SF15,hmmpanther:PTHR13280	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCCAAAC	.	5	BLCA
OR4N2	0	.	GRCh37	14	20296144	20296144	+	Silent	SNP	T	T	C	rs149414780	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537T>C	p.%3D	p.C179C	ENST00000315947	1/1	304	270	34	424	424	0	OR4N2,synonymous_variant,p.%3D,ENST00000315947,;OR4N2,synonymous_variant,p.%3D,ENST00000568211,;OR4N2,downstream_gene_variant,,ENST00000557677,;OR4N2,downstream_gene_variant,,ENST00000557414,;	C	ENSG00000176294	ENST00000315947	Transcript	synonymous_variant	537	537	179	C	tgT/tgC	rs149414780	.	.	1	OR4N2	HGNC	14742	protein_coding	YES	CCDS32022.1	ENSP00000319601	OR4N2_HUMAN	H3BTD8_HUMAN,G3V4W1_HUMAN,G3V3W5_HUMAN	UPI000004A5DF	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF155,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	C:0.0004	C:0.0015	C:0	.	C:0	C:0	C:0	C:0.0002	C:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTGTGATGT	byFrequency|byCluster|by1000G	4	BLCA
OR4N2	0	.	GRCh37	14	20296157	20296157	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550G>C	p.Val184Leu	p.V184L	ENST00000315947	1/1	304	267	37	405	405	0	OR4N2,missense_variant,p.Val184Leu,ENST00000315947,;OR4N2,3_prime_UTR_variant,,ENST00000568211,;OR4N2,downstream_gene_variant,,ENST00000557677,;OR4N2,downstream_gene_variant,,ENST00000557414,;	C	ENSG00000176294	ENST00000315947	Transcript	missense_variant	550	550	184	V/L	Gtc/Ctc	.	.	.	1	OR4N2	HGNC	14742	protein_coding	YES	CCDS32022.1	ENSP00000319601	OR4N2_HUMAN	H3BTD8_HUMAN,G3V4W1_HUMAN,G3V3W5_HUMAN	UPI000004A5DF	.	tolerated(0.32)	benign(0.181)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF155,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACAGGTCATC	.	4	BLCA
RPGRIP1	0	.	GRCh37	14	21762908	21762908	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158T>A	p.Leu53His	p.L53H	ENST00000400017	2/24	37	27	10	37	37	0	RPGRIP1,missense_variant,p.Leu53His,ENST00000400017,;RPGRIP1,missense_variant,p.Leu53His,ENST00000556336,;RPGRIP1,missense_variant,p.Leu53His,ENST00000557771,;RPGRIP1,missense_variant,p.Leu53His,ENST00000206660,;	A	ENSG00000092200	ENST00000400017	Transcript	missense_variant	158	158	53	L/H	cTt/cAt	.	.	.	1	RPGRIP1	HGNC	13436	protein_coding	YES	CCDS45080.1	ENSP00000382895	RPGR1_HUMAN	.	UPI0000071B81	.	deleterious(0)	probably_damaging(1)	2/24	.	hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGACTTCGCG	.	5	BLCA
RPGRIP1	0	.	GRCh37	14	21762930	21762930	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180G>A	p.%3D	p.V60V	ENST00000400017	2/24	30	19	11	30	30	0	RPGRIP1,synonymous_variant,p.%3D,ENST00000400017,;RPGRIP1,synonymous_variant,p.%3D,ENST00000556336,;RPGRIP1,synonymous_variant,p.%3D,ENST00000557771,;RPGRIP1,synonymous_variant,p.%3D,ENST00000206660,;	A	ENSG00000092200	ENST00000400017	Transcript	synonymous_variant	180	180	60	V	gtG/gtA	.	.	.	1	RPGRIP1	HGNC	13436	protein_coding	YES	CCDS45080.1	ENSP00000382895	RPGR1_HUMAN	.	UPI0000071B81	.	.	.	2/24	.	hmmpanther:PTHR14240,hmmpanther:PTHR14240:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGTGAAGGA	.	5	BLCA
TRAV21	0	.	GRCh37	14	22521230	22521230	+	Missense_Mutation	SNP	C	C	T	rs762806352	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251C>T	p.Ser84Leu	p.S84L	ENST00000390449	2/2	19	12	7	22	22	0	TRAV21,missense_variant,p.Ser84Leu,ENST00000390449,;	T	ENSG00000211801	ENST00000390449	Transcript	missense_variant	258	251	84	S/L	tCg/tTg	rs762806352	.	.	1	TRAV21	HGNC	12118	TR_V_gene	YES	.	ENSP00000452526	.	.	UPI000011D124	.	tolerated(1)	benign(0.047)	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19433:SF52,hmmpanther:PTHR19433,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCGCTGG	byFrequency	5	BLCA
LRP10	0	.	GRCh37	14	23346570	23346570	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1976G>A	p.Arg659Gln	p.R659Q	ENST00000359591	7/7	67	56	11	100	100	0	LRP10,missense_variant,p.Arg659Gln,ENST00000359591,;LRP10,intron_variant,,ENST00000551466,;LRP10,intron_variant,,ENST00000546834,;LRP10,intron_variant,,ENST00000470660,;LRP10,downstream_gene_variant,,ENST00000553002,;	A	ENSG00000197324	ENST00000359591	Transcript	missense_variant	2667	1976	659	R/Q	cGa/cAa	.	.	.	1	LRP10	HGNC	14553	protein_coding	YES	CCDS9578.1	ENSP00000352601	LRP10_HUMAN	Q6IAK3_HUMAN,Q66K21_HUMAN,Q5I0F9_HUMAN	UPI000000CC06	.	tolerated(0.09)	probably_damaging(0.978)	7/7	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGCGAGGCC	.	5	BLCA
AP1G2	0	.	GRCh37	14	24035838	24035838	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262C>A	p.Leu88Met	p.L88M	ENST00000308724	2/21	87	58	28	144	144	0	AP1G2,missense_variant,p.Leu88Met,ENST00000308724,;AP1G2,missense_variant,p.Leu88Met,ENST00000556843,;AP1G2,missense_variant,p.Leu88Met,ENST00000557189,;AP1G2,missense_variant,p.Leu88Met,ENST00000397120,;JPH4,downstream_gene_variant,,ENST00000544177,;AP1G2,upstream_gene_variant,,ENST00000554477,;JPH4,downstream_gene_variant,,ENST00000397118,;JPH4,downstream_gene_variant,,ENST00000356300,;RP11-66N24.3,non_coding_transcript_exon_variant,,ENST00000555968,;AP1G2,non_coding_transcript_exon_variant,,ENST00000556277,;AP1G2,upstream_gene_variant,,ENST00000555118,;AP1G2,upstream_gene_variant,,ENST00000555510,;AP1G2,non_coding_transcript_exon_variant,,ENST00000554069,;AP1G2,non_coding_transcript_exon_variant,,ENST00000557482,;AP1G2,non_coding_transcript_exon_variant,,ENST00000553629,;AP1G2,intron_variant,,ENST00000556943,;AP1G2,intron_variant,,ENST00000556743,;AP1G2,intron_variant,,ENST00000535852,;AP1G2,intron_variant,,ENST00000460049,;AP1G2,intron_variant,,ENST00000553756,;AP1G2,intron_variant,,ENST00000557619,;AP1G2,intron_variant,,ENST00000555896,;AP1G2,intron_variant,,ENST00000465445,;AP1G2,upstream_gene_variant,,ENST00000556741,;AP1G2,upstream_gene_variant,,ENST00000555789,;AP1G2,upstream_gene_variant,,ENST00000554312,;AP1G2,downstream_gene_variant,,ENST00000553685,;AP1G2,downstream_gene_variant,,ENST00000554816,;AP1G2,upstream_gene_variant,,ENST00000557132,;AP1G2,upstream_gene_variant,,ENST00000557162,;AP1G2,upstream_gene_variant,,ENST00000555974,;AP1G2,upstream_gene_variant,,ENST00000554977,;AP1G2,upstream_gene_variant,,ENST00000554554,;AP1G2,upstream_gene_variant,,ENST00000556966,;AP1G2,upstream_gene_variant,,ENST00000554982,;AP1G2,upstream_gene_variant,,ENST00000556152,;	T	ENSG00000213983	ENST00000308724	Transcript	missense_variant	1018	262	88	L/M	Ctg/Atg	.	.	.	-1	AP1G2	HGNC	556	protein_coding	YES	CCDS9602.1	ENSP00000312442	AP1G2_HUMAN	Q86U41_HUMAN,Q86U03_HUMAN,G3V532_HUMAN,G3V3Z2_HUMAN,G3V2V9_HUMAN	UPI0000124FE8	.	deleterious(0)	probably_damaging(1)	2/21	.	hmmpanther:PTHR22780:SF22,hmmpanther:PTHR22780,Pfam_domain:PF01602,Gene3D:1.25.10.10,PIRSF_domain:PIRSF037094,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCAGGTAGC	.	5	BLCA
DHRS4	0	.	GRCh37	14	24422949	24422949	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-49C>T	.	.	ENST00000313250	1/8	23	15	7	31	31	0	DHRS4,5_prime_UTR_variant,,ENST00000313250,;DHRS4,5_prime_UTR_variant,,ENST00000558263,;DHRS4,upstream_gene_variant,,ENST00000558581,;DHRS4,upstream_gene_variant,,ENST00000543741,;DHRS4,upstream_gene_variant,,ENST00000382761,;DHRS4,upstream_gene_variant,,ENST00000397075,;DHRS4,upstream_gene_variant,,ENST00000308178,;DHRS4,upstream_gene_variant,,ENST00000421831,;DHRS4,upstream_gene_variant,,ENST00000397074,;DHRS4,upstream_gene_variant,,ENST00000559632,;DHRS4,upstream_gene_variant,,ENST00000397073,;DHRS4-AS1,non_coding_transcript_exon_variant,,ENST00000553454,;DHRS4-AS1,intron_variant,,ENST00000558423,;DHRS4-AS1,intron_variant,,ENST00000555045,;DHRS4-AS1,intron_variant,,ENST00000556379,;DHRS4-AS1,upstream_gene_variant,,ENST00000399886,;DHRS4-AS1,intron_variant,,ENST00000554036,;	T	ENSG00000157326	ENST00000313250	Transcript	5_prime_UTR_variant	155	.	.	.	.	.	.	.	1	DHRS4	HGNC	16985	protein_coding	YES	CCDS9605.1	ENSP00000326219	DHRS4_HUMAN	H0YLE1_HUMAN	UPI000003F541	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACTCTGTCA	.	5	BLCA
DHRS4	0	.	GRCh37	14	24424358	24424358	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243G>A	p.%3D	p.L81L	ENST00000313250	2/8	41	26	14	52	52	0	DHRS4,synonymous_variant,p.%3D,ENST00000558581,;DHRS4,synonymous_variant,p.%3D,ENST00000543741,;DHRS4,synonymous_variant,p.%3D,ENST00000382761,;DHRS4,synonymous_variant,p.%3D,ENST00000313250,;DHRS4,synonymous_variant,p.%3D,ENST00000558263,;DHRS4,synonymous_variant,p.%3D,ENST00000397075,;DHRS4,synonymous_variant,p.%3D,ENST00000308178,;DHRS4,synonymous_variant,p.%3D,ENST00000421831,;DHRS4,synonymous_variant,p.%3D,ENST00000397074,;DHRS4,synonymous_variant,p.%3D,ENST00000559632,;DHRS4,synonymous_variant,p.%3D,ENST00000397073,;DHRS4-AS1,intron_variant,,ENST00000558423,;DHRS4-AS1,upstream_gene_variant,,ENST00000553454,;DHRS4-AS1,upstream_gene_variant,,ENST00000555045,;DHRS4-AS1,upstream_gene_variant,,ENST00000556379,;DHRS4-AS1,upstream_gene_variant,,ENST00000399886,;DHRS4-AS1,upstream_gene_variant,,ENST00000554036,;	A	ENSG00000157326	ENST00000313250	Transcript	synonymous_variant	446	243	81	L	ctG/ctA	.	.	.	1	DHRS4	HGNC	16985	protein_coding	YES	CCDS9605.1	ENSP00000326219	DHRS4_HUMAN	H0YLE1_HUMAN	UPI000003F541	.	.	.	2/8	.	hmmpanther:PTHR24322:SF198,hmmpanther:PTHR24322,Pfam_domain:PF13561,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAGCGT	.	5	BLCA
LRRC16B	0	.	GRCh37	14	24531738	24531738	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2530G>A	p.Glu844Lys	p.E844K	ENST00000342740	28/40	138	100	37	151	151	0	LRRC16B,missense_variant,p.Glu844Lys,ENST00000342740,;LRRC16B,5_prime_UTR_variant,,ENST00000334420,;LRRC16B,non_coding_transcript_exon_variant,,ENST00000560349,;LRRC16B,non_coding_transcript_exon_variant,,ENST00000559694,;LRRC16B,downstream_gene_variant,,ENST00000561354,;	A	ENSG00000186648	ENST00000342740	Transcript	missense_variant	2684	2530	844	E/K	Gag/Aag	COSM1748774	.	.	1	LRRC16B	HGNC	20272	protein_coding	YES	CCDS32054.1	ENSP00000340467	LR16B_HUMAN	.	UPI0000DBEF11	.	deleterious(0)	benign(0.37)	28/40	.	hmmpanther:PTHR24112,hmmpanther:PTHR24112:SF32	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGAGATC	.	5	BLCA
PCK2	0	.	GRCh37	14	24566303	24566303	+	Missense_Mutation	SNP	G	G	A	rs768931197	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.232G>A	p.Glu78Lys	p.E78K	ENST00000216780	2/10	62	43	19	81	81	0	PCK2,missense_variant,p.Glu78Lys,ENST00000216780,;PCK2,missense_variant,p.Glu90Lys,ENST00000559250,;PCK2,missense_variant,p.Glu78Lys,ENST00000396973,;PCK2,5_prime_UTR_variant,,ENST00000545054,;PCK2,5_prime_UTR_variant,,ENST00000558096,;PCK2,5_prime_UTR_variant,,ENST00000559837,;PCK2,5_prime_UTR_variant,,ENST00000560736,;NRL,intron_variant,,ENST00000558280,;PCK2,intron_variant,,ENST00000561286,;NRL,intron_variant,,ENST00000561028,;NRL,upstream_gene_variant,,ENST00000396997,;PCK2,upstream_gene_variant,,ENST00000559171,;PCK2,downstream_gene_variant,,ENST00000560657,;PCK2,3_prime_UTR_variant,,ENST00000560106,;PCK2,3_prime_UTR_variant,,ENST00000559584,;PCK2,non_coding_transcript_exon_variant,,ENST00000561050,;PCK2,non_coding_transcript_exon_variant,,ENST00000558674,;PCK2,upstream_gene_variant,,ENST00000559503,;	A	ENSG00000100889	ENST00000216780	Transcript	missense_variant	500	232	78	E/K	Gag/Aag	rs768931197,COSM348914,COSM348915	.	.	1	PCK2	HGNC	8725	protein_coding	YES	CCDS9609.1	ENSP00000216780	PCKGM_HUMAN	H0YNG4_HUMAN,H0YMU6_HUMAN,B4DW73_HUMAN	UPI000013C708	.	tolerated(0.18)	benign(0.187)	2/10	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF68923,PIRSF_domain:PIRSF001348,Gene3D:3.40.449.10,Pfam_domain:PF00821,hmmpanther:PTHR11561:SF3,hmmpanther:PTHR11561,HAMAP:MF_00452	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGAGCAG	byFrequency	5	BLCA
IRF9	0	.	GRCh37	14	24635086	24635086	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1022C>T	p.Pro341Leu	p.P341L	ENST00000396864	8/9	25	14	11	53	53	0	IRF9,missense_variant,p.Pro341Leu,ENST00000396864,;IRF9,missense_variant,p.Pro157Leu,ENST00000324076,;IRF9,synonymous_variant,p.%3D,ENST00000557894,;IRF9,downstream_gene_variant,,ENST00000559284,;IRF9,downstream_gene_variant,,ENST00000560275,;RP11-468E2.4,3_prime_UTR_variant,,ENST00000558468,;IRF9,3_prime_UTR_variant,,ENST00000561342,;IRF9,non_coding_transcript_exon_variant,,ENST00000561415,;IRF9,non_coding_transcript_exon_variant,,ENST00000560311,;IRF9,downstream_gene_variant,,ENST00000561412,;IRF9,downstream_gene_variant,,ENST00000560365,;IRF9,downstream_gene_variant,,ENST00000560852,;IRF9,downstream_gene_variant,,ENST00000560542,;IRF9,downstream_gene_variant,,ENST00000561009,;IRF9,downstream_gene_variant,,ENST00000559863,;IRF9,downstream_gene_variant,,ENST00000559229,;	T	ENSG00000213928	ENST00000396864	Transcript	missense_variant	1309	1022	341	P/L	cCc/cTc	.	.	.	1	IRF9	HGNC	6131	protein_coding	YES	CCDS9615.1	ENSP00000380073	IRF9_HUMAN	.	UPI000012D8C2	.	deleterious(0.04)	probably_damaging(1)	8/9	.	hmmpanther:PTHR11949:SF21,hmmpanther:PTHR11949,Gene3D:2.60.200.10,Pfam_domain:PF10401,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCCCCCAC	.	5	BLCA
REC8	0	.	GRCh37	14	24641691	24641691	+	5'UTR	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-71T>C	.	.	ENST00000311457	2/20	11	3	8	13	13	0	REC8,5_prime_UTR_variant,,ENST00000311457,;REC8,5_prime_UTR_variant,,ENST00000559919,;REC8,intron_variant,,ENST00000557806,;REC8,upstream_gene_variant,,ENST00000560501,;REC8,non_coding_transcript_exon_variant,,ENST00000557979,;REC8,non_coding_transcript_exon_variant,,ENST00000560032,;REC8,upstream_gene_variant,,ENST00000558782,;REC8,upstream_gene_variant,,ENST00000558697,;	C	ENSG00000100918	ENST00000311457	Transcript	5_prime_UTR_variant	529	.	.	.	.	.	.	.	1	REC8	HGNC	16879	protein_coding	YES	CCDS41932.1	ENSP00000308699	REC8_HUMAN	H0YMV7_HUMAN,H0YM87_HUMAN,H0YLK4_HUMAN	UPI000013C70B	.	.	.	2/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTGTGCCCT	.	2	BLCA
TINF2	0	.	GRCh37	14	24709776	24709776	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.910G>A	p.Glu304Lys	p.E304K	ENST00000267415	6/9	33	25	8	69	69	0	TINF2,missense_variant,p.Glu304Lys,ENST00000267415,;TINF2,missense_variant,p.Glu90Lys,ENST00000538777,;TINF2,missense_variant,p.Glu304Lys,ENST00000399423,;TINF2,missense_variant,p.Glu269Lys,ENST00000540705,;TINF2,3_prime_UTR_variant,,ENST00000558566,;TINF2,3_prime_UTR_variant,,ENST00000559019,;TINF2,intron_variant,,ENST00000559969,;GMPR2,downstream_gene_variant,,ENST00000560139,;GMPR2,downstream_gene_variant,,ENST00000559479,;GMPR2,downstream_gene_variant,,ENST00000559943,;GMPR2,downstream_gene_variant,,ENST00000399440,;GMPR2,downstream_gene_variant,,ENST00000559409,;GMPR2,downstream_gene_variant,,ENST00000558279,;GMPR2,downstream_gene_variant,,ENST00000559836,;GMPR2,downstream_gene_variant,,ENST00000558788,;TINF2,downstream_gene_variant,,ENST00000557921,;GMPR2,downstream_gene_variant,,ENST00000559910,;GMPR2,downstream_gene_variant,,ENST00000558748,;GMPR2,downstream_gene_variant,,ENST00000558483,;GMPR2,downstream_gene_variant,,ENST00000355299,;TINF2,upstream_gene_variant,,ENST00000560019,;GMPR2,downstream_gene_variant,,ENST00000561035,;GMPR2,downstream_gene_variant,,ENST00000420554,;GMPR2,downstream_gene_variant,,ENST00000558932,;GMPR2,downstream_gene_variant,,ENST00000559104,;GMPR2,downstream_gene_variant,,ENST00000456667,;GMPR2,downstream_gene_variant,,ENST00000558865,;TINF2,downstream_gene_variant,,ENST00000558476,;GMPR2,downstream_gene_variant,,ENST00000348719,;GMPR2,downstream_gene_variant,,ENST00000557854,;TINF2,downstream_gene_variant,,ENST00000558510,;GMPR2,downstream_gene_variant,,ENST00000558701,;GMPR2,downstream_gene_variant,,ENST00000560517,;TINF2,non_coding_transcript_exon_variant,,ENST00000557915,;TINF2,downstream_gene_variant,,ENST00000559549,;TINF2,downstream_gene_variant,,ENST00000557830,;GMPR2,downstream_gene_variant,,ENST00000558007,;GMPR2,downstream_gene_variant,,ENST00000559102,;GMPR2,downstream_gene_variant,,ENST00000559606,;TINF2,downstream_gene_variant,,ENST00000559147,;GMPR2,downstream_gene_variant,,ENST00000561038,;GMPR2,downstream_gene_variant,,ENST00000559287,;TINF2,upstream_gene_variant,,ENST00000558703,;GMPR2,downstream_gene_variant,,ENST00000558760,;GMPR2,downstream_gene_variant,,ENST00000561130,;	T	ENSG00000092330	ENST00000267415	Transcript	missense_variant	1252	910	304	E/K	Gag/Aag	.	.	.	-1	TINF2	HGNC	11824	protein_coding	YES	CCDS41936.1	ENSP00000267415	TINF2_HUMAN	Q86TZ8_HUMAN,H0YKA6_HUMAN,B3W5Q7_HUMAN	UPI0000136FAB	.	tolerated_low_confidence(0.19)	possibly_damaging(0.486)	6/9	.	hmmpanther:PTHR15512:SF0,hmmpanther:PTHR15512	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCAGGCT	.	5	BLCA
TINF2	0	.	GRCh37	14	24711153	24711153	+	Silent	SNP	C	C	T	rs145115622	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240G>A	p.%3D	p.L80L	ENST00000267415	2/9	39	32	7	52	52	0	TINF2,synonymous_variant,p.%3D,ENST00000267415,;TINF2,synonymous_variant,p.%3D,ENST00000399423,;TINF2,synonymous_variant,p.%3D,ENST00000558566,;TINF2,synonymous_variant,p.%3D,ENST00000559969,;TINF2,5_prime_UTR_variant,,ENST00000538777,;TINF2,5_prime_UTR_variant,,ENST00000558476,;TINF2,intron_variant,,ENST00000557921,;TINF2,intron_variant,,ENST00000540705,;TINF2,intron_variant,,ENST00000559019,;GMPR2,downstream_gene_variant,,ENST00000560139,;GMPR2,downstream_gene_variant,,ENST00000559479,;GMPR2,downstream_gene_variant,,ENST00000559943,;GMPR2,downstream_gene_variant,,ENST00000399440,;GMPR2,downstream_gene_variant,,ENST00000559836,;GMPR2,downstream_gene_variant,,ENST00000558788,;GMPR2,downstream_gene_variant,,ENST00000559910,;GMPR2,downstream_gene_variant,,ENST00000558748,;GMPR2,downstream_gene_variant,,ENST00000558483,;GMPR2,downstream_gene_variant,,ENST00000355299,;TINF2,upstream_gene_variant,,ENST00000560019,;GMPR2,downstream_gene_variant,,ENST00000561035,;GMPR2,downstream_gene_variant,,ENST00000420554,;GMPR2,downstream_gene_variant,,ENST00000558932,;GMPR2,downstream_gene_variant,,ENST00000559104,;GMPR2,downstream_gene_variant,,ENST00000456667,;GMPR2,downstream_gene_variant,,ENST00000558865,;GMPR2,downstream_gene_variant,,ENST00000348719,;GMPR2,downstream_gene_variant,,ENST00000557854,;TINF2,intron_variant,,ENST00000558510,;GMPR2,downstream_gene_variant,,ENST00000560517,;TINF2,non_coding_transcript_exon_variant,,ENST00000557830,;TINF2,non_coding_transcript_exon_variant,,ENST00000559147,;TINF2,upstream_gene_variant,,ENST00000559549,;GMPR2,downstream_gene_variant,,ENST00000558007,;GMPR2,downstream_gene_variant,,ENST00000559606,;GMPR2,downstream_gene_variant,,ENST00000561038,;TINF2,upstream_gene_variant,,ENST00000557915,;GMPR2,downstream_gene_variant,,ENST00000559287,;TINF2,upstream_gene_variant,,ENST00000558703,;GMPR2,downstream_gene_variant,,ENST00000561130,;	T	ENSG00000092330	ENST00000267415	Transcript	synonymous_variant	582	240	80	L	ctG/ctA	rs145115622	.	.	-1	TINF2	HGNC	11824	protein_coding	YES	CCDS41936.1	ENSP00000267415	TINF2_HUMAN	Q86TZ8_HUMAN,H0YKA6_HUMAN,B3W5Q7_HUMAN	UPI0000136FAB	.	.	.	2/9	.	hmmpanther:PTHR15512:SF0,hmmpanther:PTHR15512,Pfam_domain:PF14973	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCAGGAC	by1000G	5	BLCA
LTB4R2	0	.	GRCh37	14	24780261	24780261	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391C>T	p.Arg131Trp	p.R131W	ENST00000543919	2/2	11	5	6	15	15	0	LTB4R2,missense_variant,p.Arg131Trp,ENST00000527924,;LTB4R2,missense_variant,p.Arg131Trp,ENST00000530080,;LTB4R2,missense_variant,p.Arg131Trp,ENST00000543919,;LTB4R2,missense_variant,p.Arg131Trp,ENST00000533293,;LTB4R2,missense_variant,p.Arg162Trp,ENST00000528054,;CIDEB,5_prime_UTR_variant,,ENST00000336557,;CIDEB,5_prime_UTR_variant,,ENST00000258807,;LTB4R,upstream_gene_variant,,ENST00000396782,;CIDEB,upstream_gene_variant,,ENST00000556756,;CIDEB,upstream_gene_variant,,ENST00000554411,;LTB4R,upstream_gene_variant,,ENST00000345363,;LTB4R,upstream_gene_variant,,ENST00000553481,;NOP9,downstream_gene_variant,,ENST00000557362,;NOP9,downstream_gene_variant,,ENST00000267425,;LTB4R,upstream_gene_variant,,ENST00000396789,;LTB4R,upstream_gene_variant,,ENST00000556141,;CIDEB,non_coding_transcript_exon_variant,,ENST00000555817,;CIDEB,upstream_gene_variant,,ENST00000555471,;	T	ENSG00000213906	ENST00000543919	Transcript	missense_variant	562	391	131	R/W	Cgg/Tgg	.	.	.	1	LTB4R2	HGNC	19260	protein_coding	YES	CCDS9625.2	ENSP00000445772	LT4R2_HUMAN	E9PNJ6_HUMAN,E9PIC1_HUMAN	UPI000003C105	.	deleterious(0.04)	probably_damaging(0.96)	2/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50262,hmmpanther:PTHR24230,hmmpanther:PTHR24230:SF8,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01476	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCCTCGGCTG	.	3	BLCA
LTB4R	0	.	GRCh37	14	24785132	24785132	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.275T>G	p.Leu92Arg	p.L92R	ENST00000396789	2/2	56	33	22	85	85	0	LTB4R,missense_variant,p.Leu92Arg,ENST00000396782,;LTB4R,missense_variant,p.Leu92Arg,ENST00000345363,;LTB4R,missense_variant,p.Leu92Arg,ENST00000553481,;LTB4R,missense_variant,p.Leu92Arg,ENST00000396789,;LTB4R,5_prime_UTR_variant,,ENST00000556141,;LTB4R2,downstream_gene_variant,,ENST00000527924,;LTB4R2,downstream_gene_variant,,ENST00000530080,;LTB4R2,downstream_gene_variant,,ENST00000543919,;CIDEB,upstream_gene_variant,,ENST00000336557,;CIDEB,upstream_gene_variant,,ENST00000258807,;LTB4R2,downstream_gene_variant,,ENST00000533293,;ADCY4,downstream_gene_variant,,ENST00000554068,;ADCY4,downstream_gene_variant,,ENST00000418030,;LTB4R2,downstream_gene_variant,,ENST00000528054,;ADCY4,downstream_gene_variant,,ENST00000310677,;CIDEB,upstream_gene_variant,,ENST00000555817,;ADCY4,downstream_gene_variant,,ENST00000555684,;ADCY4,downstream_gene_variant,,ENST00000554577,;ADCY4,downstream_gene_variant,,ENST00000561200,;ADCY4,downstream_gene_variant,,ENST00000545213,;ADCY4,downstream_gene_variant,,ENST00000557056,;ADCY4,downstream_gene_variant,,ENST00000560635,;ADCY4,downstream_gene_variant,,ENST00000554781,;	G	ENSG00000213903	ENST00000396789	Transcript	missense_variant	2000	275	92	L/R	cTg/cGg	.	.	.	1	LTB4R	HGNC	6713	protein_coding	YES	CCDS9626.1	ENSP00000380008	LT4R1_HUMAN	G3V4Q5_HUMAN,G3V244_HUMAN	UPI000003C106	.	deleterious(0)	probably_damaging(0.993)	2/2	.	Transmembrane_helices:TMhelix,Prints_domain:PR01476,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR24230:SF51,hmmpanther:PTHR24230,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCCTGTGTC	.	5	BLCA
ADCY4	0	.	GRCh37	14	24799063	24799063	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1217+3G>A	.	.	ENST00000310677	.	89	60	29	77	77	0	ADCY4,splice_region_variant,,ENST00000396747,;ADCY4,splice_region_variant,,ENST00000554068,;ADCY4,splice_region_variant,,ENST00000418030,;ADCY4,splice_region_variant,,ENST00000310677,;ADCY4,upstream_gene_variant,,ENST00000556932,;ADCY4,downstream_gene_variant,,ENST00000561138,;ADCY4,downstream_gene_variant,,ENST00000559167,;RP11-934B9.3,downstream_gene_variant,,ENST00000555591,;ADCY4,downstream_gene_variant,,ENST00000558563,;ADCY4,downstream_gene_variant,,ENST00000558125,;ADCY4,splice_region_variant,,ENST00000554577,;ADCY4,splice_region_variant,,ENST00000557056,;ADCY4,splice_region_variant,,ENST00000545213,;ADCY4,splice_region_variant,,ENST00000554781,;ADCY4,upstream_gene_variant,,ENST00000554959,;ADCY4,downstream_gene_variant,,ENST00000554674,;ADCY4,downstream_gene_variant,,ENST00000557099,;	T	ENSG00000129467	ENST00000310677	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	ADCY4	HGNC	235	protein_coding	YES	CCDS9627.1	ENSP00000312126	ADCY4_HUMAN	Q96KY6_HUMAN,Q86TZ7_HUMAN,H0YN72_HUMAN,H0YLM0_HUMAN	UPI00000398CC	.	.	.	.	9/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCACCCT	.	4	BLCA
ADCY4	0	.	GRCh37	14	24799153	24799153	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1130G>A	p.Gly377Glu	p.G377E	ENST00000310677	9/26	66	48	18	65	65	0	ADCY4,missense_variant,p.Gly70Glu,ENST00000396747,;ADCY4,missense_variant,p.Gly377Glu,ENST00000554068,;ADCY4,missense_variant,p.Gly377Glu,ENST00000418030,;ADCY4,missense_variant,p.Gly377Glu,ENST00000310677,;ADCY4,upstream_gene_variant,,ENST00000556932,;ADCY4,downstream_gene_variant,,ENST00000561138,;ADCY4,downstream_gene_variant,,ENST00000559167,;RP11-934B9.3,downstream_gene_variant,,ENST00000555591,;ADCY4,downstream_gene_variant,,ENST00000558563,;ADCY4,downstream_gene_variant,,ENST00000558125,;ADCY4,stop_gained,p.Trp202Ter,ENST00000557056,;ADCY4,missense_variant,p.Glu388Lys,ENST00000554781,;ADCY4,non_coding_transcript_exon_variant,,ENST00000554577,;ADCY4,non_coding_transcript_exon_variant,,ENST00000545213,;ADCY4,upstream_gene_variant,,ENST00000554959,;ADCY4,downstream_gene_variant,,ENST00000554674,;ADCY4,downstream_gene_variant,,ENST00000557099,;	T	ENSG00000129467	ENST00000310677	Transcript	missense_variant	1244	1130	377	G/E	gGa/gAa	.	.	.	-1	ADCY4	HGNC	235	protein_coding	YES	CCDS9627.1	ENSP00000312126	ADCY4_HUMAN	Q96KY6_HUMAN,Q86TZ7_HUMAN,H0YN72_HUMAN,H0YLM0_HUMAN	UPI00000398CC	.	deleterious(0)	probably_damaging(1)	9/26	.	PROSITE_profiles:PS50125,hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF286,PROSITE_patterns:PS00452,Gene3D:3.30.70.1230,Pfam_domain:PF00211,SMART_domains:SM00044,Superfamily_domains:SSF55073	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCCACAC	.	5	BLCA
NYNRIN	0	.	GRCh37	14	24885987	24885987	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5032G>A	p.Glu1678Lys	p.E1678K	ENST00000382554	9/9	19	15	4	33	33	0	NYNRIN,missense_variant,p.Glu1678Lys,ENST00000382554,;NYNRIN,downstream_gene_variant,,ENST00000554505,;	A	ENSG00000205978	ENST00000382554	Transcript	missense_variant	5350	5032	1678	E/K	Gag/Aag	.	.	.	1	NYNRIN	HGNC	20165	protein_coding	YES	CCDS45090.1	ENSP00000371994	NYNRI_HUMAN	.	UPI0000251E63	.	deleterious(0)	probably_damaging(0.91)	9/9	.	Superfamily_domains:SSF53098,Gene3D:3.30.420.10,hmmpanther:PTHR12876,hmmpanther:PTHR12876:SF2,PROSITE_profiles:PS50994	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTGGAGGCA	.	4	BLCA
HECTD1	0	.	GRCh37	14	31675067	31675067	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76A>C	p.Ile26Leu	p.I26L	ENST00000399332	2/43	70	51	19	74	74	0	HECTD1,missense_variant,p.Ile26Leu,ENST00000399332,;HECTD1,missense_variant,p.Ile26Leu,ENST00000553700,;HECTD1,missense_variant,p.Ile26Leu,ENST00000556224,;HECTD1,non_coding_transcript_exon_variant,,ENST00000556474,;HECTD1,non_coding_transcript_exon_variant,,ENST00000553616,;	G	ENSG00000092148	ENST00000399332	Transcript	missense_variant	565	76	26	I/L	Ata/Cta	.	.	.	-1	HECTD1	HGNC	20157	protein_coding	YES	CCDS41939.1	ENSP00000382269	HECD1_HUMAN	G3V4V5_HUMAN	UPI0000E8AC98	.	deleterious(0.01)	benign(0.326)	2/43	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF75	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTATTAGTT	.	5	BLCA
RP11-596D21.1	0	.	GRCh37	14	31765267	31765267	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.496+534C>T	.	.	ENST00000551799	.	36	30	5	59	59	0	HEATR5A,missense_variant,p.Asp1823Asn,ENST00000543095,;HEATR5A,missense_variant,p.Asp1817Asn,ENST00000389961,;HEATR5A,missense_variant,p.Asp1376Asn,ENST00000538864,;HEATR5A,missense_variant,p.Asp1742Asn,ENST00000439348,;HEATR5A,missense_variant,p.Asp1530Asn,ENST00000439727,;RP11-596D21.1,intron_variant,,ENST00000551799,;HEATR5A,non_coding_transcript_exon_variant,,ENST00000551414,;	T	ENSG00000257831	ENST00000551799	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RP11-596D21.1	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCATCAACTA	.	2	BLCA
NUBPL	0	.	GRCh37	14	32031351	32031351	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>A	p.%3D	p.P62P	ENST00000281081	2/11	17	9	7	25	25	0	NUBPL,synonymous_variant,p.%3D,ENST00000550649,;NUBPL,synonymous_variant,p.%3D,ENST00000550005,;NUBPL,synonymous_variant,p.%3D,ENST00000551314,;NUBPL,synonymous_variant,p.%3D,ENST00000281081,;CTD-2213F21.3,upstream_gene_variant,,ENST00000548096,;CTD-2213F21.4,upstream_gene_variant,,ENST00000547093,;NUBPL,non_coding_transcript_exon_variant,,ENST00000548937,;NUBPL,non_coding_transcript_exon_variant,,ENST00000550355,;NUBPL,downstream_gene_variant,,ENST00000552814,;NUBPL,synonymous_variant,p.%3D,ENST00000552489,;NUBPL,synonymous_variant,p.%3D,ENST00000547839,;NUBPL,synonymous_variant,p.%3D,ENST00000549838,;	A	ENSG00000151413	ENST00000281081	Transcript	synonymous_variant	231	186	62	P	ccG/ccA	.	.	.	1	NUBPL	HGNC	20278	protein_coding	YES	CCDS41940.1	ENSP00000281081	NUBPL_HUMAN	F8W061_HUMAN,B3KSK2_HUMAN	UPI00003669AB	.	.	.	2/11	.	hmmpanther:PTHR23264,hmmpanther:PTHR23264:SF4,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACCGATAGA	.	5	BLCA
INSM2	0	.	GRCh37	14	36004547	36004547	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1089G>A	p.%3D	p.A363A	ENST00000307169	1/1	37	26	11	62	62	0	INSM2,synonymous_variant,p.%3D,ENST00000307169,;RALGAPA1,downstream_gene_variant,,ENST00000389698,;RALGAPA1,downstream_gene_variant,,ENST00000382366,;RALGAPA1,downstream_gene_variant,,ENST00000554573,;RALGAPA1,downstream_gene_variant,,ENST00000554259,;RALGAPA1,downstream_gene_variant,,ENST00000258840,;RALGAPA1,downstream_gene_variant,,ENST00000307138,;RALGAPA1,downstream_gene_variant,,ENST00000556106,;	A	ENSG00000168348	ENST00000307169	Transcript	synonymous_variant	1300	1089	363	A	gcG/gcA	.	.	.	1	INSM2	HGNC	17539	protein_coding	YES	CCDS9657.1	ENSP00000306523	INSM2_HUMAN	.	UPI000013EBD6	.	.	.	1/1	.	hmmpanther:PTHR15065:SF3,hmmpanther:PTHR15065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGCGGATCA	.	5	BLCA
MIPOL1	0	.	GRCh37	14	37969153	37969153	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1072C>T	p.Gln358Ter	p.Q358*	ENST00000327441	13/14	59	37	22	58	58	0	MIPOL1,stop_gained,p.Gln327Ter,ENST00000556451,;MIPOL1,stop_gained,p.Gln177Ter,ENST00000536774,;MIPOL1,stop_gained,p.Gln358Ter,ENST00000327441,;MIPOL1,stop_gained,p.Gln358Ter,ENST00000537471,;MIPOL1,stop_gained,p.Gln358Ter,ENST00000396294,;MIPOL1,stop_gained,p.Gln327Ter,ENST00000545536,;MIPOL1,stop_gained,p.Gln327Ter,ENST00000539062,;MIPOL1,missense_variant,p.Ser179Leu,ENST00000555870,;	T	ENSG00000151338	ENST00000327441	Transcript	stop_gained	1538	1072	358	Q/*	Cag/Tag	.	.	.	1	MIPOL1	HGNC	21460	protein_coding	YES	CCDS9664.1	ENSP00000333539	MIPO1_HUMAN	G5EA54_HUMAN,G3V3K8_HUMAN,G3V2C4_HUMAN	UPI00000701B8	.	.	.	13/14	.	hmmpanther:PTHR22089	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATCAGTTT	.	5	BLCA
FOXA1	0	.	GRCh37	14	38061362	38061362	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.627G>A	p.%3D	p.Q209Q	ENST00000250448	2/2	37	23	14	81	81	0	FOXA1,synonymous_variant,p.%3D,ENST00000540786,;FOXA1,synonymous_variant,p.%3D,ENST00000250448,;TTC6,upstream_gene_variant,,ENST00000556845,;FOXA1,non_coding_transcript_exon_variant,,ENST00000545425,;FOXA1,downstream_gene_variant,,ENST00000557418,;FOXA1,downstream_gene_variant,,ENST00000554607,;FOXA1,downstream_gene_variant,,ENST00000553751,;	T	ENSG00000129514	ENST00000250448	Transcript	synonymous_variant	689	627	209	Q	caG/caA	.	.	.	-1	FOXA1	HGNC	5021	protein_coding	YES	CCDS9665.1	ENSP00000250448	FOXA1_HUMAN	B7ZAP5_HUMAN	UPI000013CCBA	.	.	.	2/2	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829:SF132,hmmpanther:PTHR11829,Gene3D:1.10.10.10,Pfam_domain:PF00250,SMART_domains:SM00339,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCTGCCG	.	5	BLCA
CLEC14A	0	.	GRCh37	14	38724627	38724627	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>A	p.Ala201Thr	p.A201T	ENST00000342213	1/1	77	44	32	112	111	1	CLEC14A,missense_variant,p.Ala201Thr,ENST00000342213,;	T	ENSG00000176435	ENST00000342213	Transcript	missense_variant	948	601	201	A/T	Gcc/Acc	.	.	.	-1	CLEC14A	HGNC	19832	protein_coding	YES	CCDS9667.1	ENSP00000353013	CLC14_HUMAN	.	UPI000000CBD4	.	tolerated(0.34)	benign(0.104)	1/1	.	hmmpanther:PTHR24838:SF258,hmmpanther:PTHR24838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGGCGCTGT	.	5	BLCA
LRFN5	0	.	GRCh37	14	42356035	42356035	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207A>C	p.Lys69Asn	p.K69N	ENST00000298119	3/6	59	39	20	64	64	0	LRFN5,missense_variant,p.Lys69Asn,ENST00000298119,;LRFN5,missense_variant,p.Lys69Asn,ENST00000554120,;LRFN5,missense_variant,p.Lys69Asn,ENST00000554171,;	C	ENSG00000165379	ENST00000298119	Transcript	missense_variant	1396	207	69	K/N	aaA/aaC	.	.	.	1	LRFN5	HGNC	20360	protein_coding	YES	CCDS9678.1	ENSP00000298119	LRFN5_HUMAN	.	UPI000000DA1E	.	tolerated(0.13)	probably_damaging(0.983)	3/6	.	Superfamily_domains:SSF52058,Gene3D:3.80.10.10,Pfam_domain:PF13306,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAAGATTT	.	5	BLCA
CDKL1	0	.	GRCh37	14	50798855	50798855	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.969+125G>A	.	.	ENST00000395834	.	25	16	9	24	24	0	ATP5S,missense_variant,p.Ser201Phe,ENST00000358473,;CDKL1,3_prime_UTR_variant,,ENST00000534267,;CDKL1,3_prime_UTR_variant,,ENST00000216378,;CDKL1,intron_variant,,ENST00000525911,;CDKL1,intron_variant,,ENST00000395834,;RP11-247L20.4,upstream_gene_variant,,ENST00000555403,;CDKL1,downstream_gene_variant,,ENST00000356146,;	T	ENSG00000100490	ENST00000395834	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	CDKL1	HGNC	1781	protein_coding	YES	CCDS9699.1	ENSP00000379176	CDKL1_HUMAN	.	UPI000013C6E9	.	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGATCCTATG	.	5	BLCA
CDKL1	0	.	GRCh37	14	50798883	50798883	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.969+97C>T	.	.	ENST00000395834	.	32	20	12	39	39	0	ATP5S,missense_variant,p.Met210Ile,ENST00000358473,;CDKL1,3_prime_UTR_variant,,ENST00000534267,;CDKL1,3_prime_UTR_variant,,ENST00000216378,;CDKL1,intron_variant,,ENST00000525911,;CDKL1,intron_variant,,ENST00000395834,;RP11-247L20.4,upstream_gene_variant,,ENST00000555403,;CDKL1,downstream_gene_variant,,ENST00000356146,;	A	ENSG00000100490	ENST00000395834	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	CDKL1	HGNC	1781	protein_coding	YES	CCDS9699.1	ENSP00000379176	CDKL1_HUMAN	.	UPI000013C6E9	.	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATGAGGAT	.	5	BLCA
GMFB	0	.	GRCh37	14	54950433	54950433	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.56G>C	p.Arg19Thr	p.R19T	ENST00000358056	2/7	71	52	18	92	92	0	GMFB,missense_variant,p.Arg31Thr,ENST00000553333,;GMFB,missense_variant,p.Arg19Thr,ENST00000358056,;GMFB,missense_variant,p.Arg19Thr,ENST00000554908,;GMFB,non_coding_transcript_exon_variant,,ENST00000553566,;GMFB,missense_variant,p.Arg19Thr,ENST00000554247,;GMFB,non_coding_transcript_exon_variant,,ENST00000554163,;GMFB,non_coding_transcript_exon_variant,,ENST00000554682,;GMFB,non_coding_transcript_exon_variant,,ENST00000553952,;	G	ENSG00000197045	ENST00000358056	Transcript	missense_variant	325	56	19	R/T	aGa/aCa	.	.	.	-1	GMFB	HGNC	4373	protein_coding	YES	CCDS9718.1	ENSP00000350757	GMFB_HUMAN	.	UPI0000161C06	.	deleterious(0.04)	benign(0.398)	2/7	.	PROSITE_profiles:PS51263,hmmpanther:PTHR11249:SF3,hmmpanther:PTHR11249,Pfam_domain:PF00241,Gene3D:3.40.20.10,PIRSF_domain:PIRSF001788,SMART_domains:SM00102,Superfamily_domains:SSF55753	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCTCAGC	.	5	BLCA
FBXO34	0	.	GRCh37	14	55818006	55818006	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.898G>A	p.Gly300Arg	p.G300R	ENST00000313833	2/2	84	55	29	120	120	0	FBXO34,missense_variant,p.Gly300Arg,ENST00000440021,;FBXO34,missense_variant,p.Gly300Arg,ENST00000313833,;FBXO34,intron_variant,,ENST00000557647,;FBXO34,downstream_gene_variant,,ENST00000555087,;FBXO34,downstream_gene_variant,,ENST00000554940,;FBXO34,missense_variant,p.Gly166Arg,ENST00000555280,;	A	ENSG00000178974	ENST00000313833	Transcript	missense_variant	1143	898	300	G/R	Ggg/Agg	.	.	.	1	FBXO34	HGNC	20201	protein_coding	YES	CCDS32086.1	ENSP00000313159	FBX34_HUMAN	G3V2U9_HUMAN	UPI00001FD5AD	.	deleterious(0)	probably_damaging(1)	2/2	.	hmmpanther:PTHR16271:SF11,hmmpanther:PTHR16271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTGGGAGC	.	5	BLCA
FBXO34	0	.	GRCh37	14	55819051	55819051	+	Missense_Mutation	SNP	G	G	A	rs535237309	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1943G>A	p.Arg648Gln	p.R648Q	ENST00000313833	2/2	68	46	21	77	77	0	FBXO34,missense_variant,p.Arg648Gln,ENST00000440021,;FBXO34,missense_variant,p.Arg648Gln,ENST00000313833,;FBXO34,intron_variant,,ENST00000557647,;FBXO34,downstream_gene_variant,,ENST00000555087,;FBXO34,downstream_gene_variant,,ENST00000554940,;FBXO34,missense_variant,p.Arg514Gln,ENST00000555280,;	A	ENSG00000178974	ENST00000313833	Transcript	missense_variant	2188	1943	648	R/Q	cGa/cAa	rs535237309,COSM1748896	.	.	1	FBXO34	HGNC	20201	protein_coding	YES	CCDS32086.1	ENSP00000313159	FBX34_HUMAN	G3V2U9_HUMAN	UPI00001FD5AD	.	deleterious(0.02)	benign(0.203)	2/2	.	hmmpanther:PTHR16271:SF11,hmmpanther:PTHR16271	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCCGATGGC	by1000G	5	BLCA
ATG14	0	.	GRCh37	14	55844744	55844744	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044G>A	p.%3D	p.V348V	ENST00000247178	8/10	40	29	11	48	48	0	ATG14,synonymous_variant,p.%3D,ENST00000247178,;ATG14,non_coding_transcript_exon_variant,,ENST00000558189,;	T	ENSG00000126775	ENST00000247178	Transcript	synonymous_variant	1080	1044	348	V	gtG/gtA	.	.	.	-1	ATG14	HGNC	19962	protein_coding	YES	CCDS32087.1	ENSP00000247178	BAKOR_HUMAN	.	UPI00001FD5B2	.	.	.	8/10	.	hmmpanther:PTHR13664,hmmpanther:PTHR13664:SF0,Pfam_domain:PF10186	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCACTGC	.	5	BLCA
TMEM260	0	.	GRCh37	14	57082698	57082698	+	Silent	SNP	C	C	T	rs748970453	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894C>T	p.%3D	p.F298F	ENST00000261556	8/16	103	71	32	109	109	0	TMEM260,synonymous_variant,p.%3D,ENST00000261556,;TMEM260,synonymous_variant,p.%3D,ENST00000538838,;TMEM260,5_prime_UTR_variant,,ENST00000536419,;TMEM260,non_coding_transcript_exon_variant,,ENST00000553335,;TMEM260,synonymous_variant,p.%3D,ENST00000556422,;TMEM260,synonymous_variant,p.%3D,ENST00000555905,;TMEM260,synonymous_variant,p.%3D,ENST00000539559,;TMEM260,3_prime_UTR_variant,,ENST00000555497,;TMEM260,3_prime_UTR_variant,,ENST00000556929,;TMEM260,non_coding_transcript_exon_variant,,ENST00000556648,;TMEM260,non_coding_transcript_exon_variant,,ENST00000557626,;TMEM260,downstream_gene_variant,,ENST00000557657,;	T	ENSG00000070269	ENST00000261556	Transcript	synonymous_variant	1016	894	298	F	ttC/ttT	rs748970453	.	.	1	TMEM260	HGNC	20185	protein_coding	YES	CCDS9727.2	ENSP00000261556	TM260_HUMAN	G3V4Y3_HUMAN,B3KN73_HUMAN	UPI00001FD5D2	.	.	.	8/16	.	hmmpanther:PTHR16214	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E295K|c.883G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCAACAT	.	5	BLCA
OTX2	0	.	GRCh37	14	57268423	57268423	+	3'UTR	SNP	A	A	T	rs772006682	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*30T>A	.	.	ENST00000339475	5/5	51	35	15	61	61	0	OTX2,3_prime_UTR_variant,,ENST00000339475,;OTX2,downstream_gene_variant,,ENST00000554845,;OTX2,downstream_gene_variant,,ENST00000408990,;OTX2,downstream_gene_variant,,ENST00000554559,;OTX2,downstream_gene_variant,,ENST00000555006,;OTX2,downstream_gene_variant,,ENST00000555804,;OTX2,downstream_gene_variant,,ENST00000554788,;RP11-1085N6.6,upstream_gene_variant,,ENST00000602485,;	T	ENSG00000165588	ENST00000339475	Transcript	3_prime_UTR_variant	1201	.	.	.	.	rs772006682	.	.	-1	OTX2	HGNC	8522	protein_coding	YES	CCDS9728.1	ENSP00000343819	OTX2_HUMAN	G3V3P9_HUMAN,F1T0D1_HUMAN	UPI000000161B	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAAAATCACC	byFrequency	5	BLCA
NAA30	0	.	GRCh37	14	57858277	57858277	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.602C>T	p.Ser201Leu	p.S201L	ENST00000556492	2/5	91	61	30	110	110	0	NAA30,missense_variant,p.Ser201Leu,ENST00000556492,;NAA30,intron_variant,,ENST00000298406,;NAA30,intron_variant,,ENST00000555166,;NAA30,intron_variant,,ENST00000554703,;	T	ENSG00000139977	ENST00000556492	Transcript	missense_variant	756	602	201	S/L	tCg/tTg	COSM3814972	.	.	1	NAA30	HGNC	19844	protein_coding	YES	CCDS32088.1	ENSP00000452521	NAA30_HUMAN	B4DK34_HUMAN	UPI0000161013	.	tolerated(0.11)	benign(0.003)	2/5	.	hmmpanther:PTHR23091,hmmpanther:PTHR23091:SF209	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCGGGCA	.	5	BLCA
C14orf37	0	.	GRCh37	14	58563469	58563469	+	Missense_Mutation	SNP	C	C	T	rs148257737	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2062G>A	p.Glu688Lys	p.E688K	ENST00000267485	5/8	28	21	6	30	30	0	C14orf37,missense_variant,p.Glu688Lys,ENST00000267485,;RP11-349A22.2,upstream_gene_variant,,ENST00000555466,;	T	ENSG00000139971	ENST00000267485	Transcript	missense_variant	2257	2062	688	E/K	Gag/Aag	rs148257737	.	.	-1	C14orf37	HGNC	19846	protein_coding	YES	CCDS32089.1	ENSP00000267485	CN037_HUMAN	.	UPI000000CC37	.	deleterious(0.05)	possibly_damaging(0.502)	5/8	.	hmmpanther:PTHR21585:SF0,hmmpanther:PTHR21585	.	.	.	.	.	.	.	T:0.0005	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCGAGGG	byCluster	5	BLCA
C14orf37	0	.	GRCh37	14	58605593	58605593	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484G>A	p.Glu162Lys	p.E162K	ENST00000267485	2/8	45	36	9	43	43	0	C14orf37,missense_variant,p.Glu162Lys,ENST00000267485,;C14orf37,non_coding_transcript_exon_variant,,ENST00000557175,;C14orf37,non_coding_transcript_exon_variant,,ENST00000334342,;C14orf37,downstream_gene_variant,,ENST00000554218,;UBA52P3,upstream_gene_variant,,ENST00000491303,;	T	ENSG00000139971	ENST00000267485	Transcript	missense_variant	679	484	162	E/K	Gaa/Aaa	.	.	.	-1	C14orf37	HGNC	19846	protein_coding	YES	CCDS32089.1	ENSP00000267485	CN037_HUMAN	.	UPI000000CC37	.	tolerated(0.08)	possibly_damaging(0.486)	2/8	.	hmmpanther:PTHR21585:SF0,hmmpanther:PTHR21585	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCCTCCT	.	5	BLCA
ACTR10	0	.	GRCh37	14	58675802	58675802	+	Missense_Mutation	SNP	C	C	T	rs772399098	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319C>T	p.Arg107Cys	p.R107C	ENST00000254286	4/13	90	61	29	118	118	0	ACTR10,missense_variant,p.Arg107Cys,ENST00000254286,;C14orf37,intron_variant,,ENST00000554218,;ACTR10,missense_variant,p.Arg107Cys,ENST00000555229,;ACTR10,missense_variant,p.Arg107Cys,ENST00000554402,;ACTR10,missense_variant,p.Arg107Cys,ENST00000545307,;ACTR10,missense_variant,p.Arg107Cys,ENST00000555337,;ACTR10,3_prime_UTR_variant,,ENST00000556748,;ACTR10,3_prime_UTR_variant,,ENST00000556243,;ACTR10,non_coding_transcript_exon_variant,,ENST00000556312,;ACTR10,upstream_gene_variant,,ENST00000557711,;ACTR10,upstream_gene_variant,,ENST00000556694,;	T	ENSG00000131966	ENST00000254286	Transcript	missense_variant	399	319	107	R/C	Cgt/Tgt	rs772399098	.	.	1	ACTR10	HGNC	17372	protein_coding	YES	CCDS32090.1	ENSP00000254286	ARP10_HUMAN	Q86SY7_HUMAN	UPI0000126067	.	deleterious(0)	possibly_damaging(0.79)	4/13	.	hmmpanther:PTHR11937:SF14,hmmpanther:PTHR11937,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCGTGTT	byFrequency	5	BLCA
SIX1	0	.	GRCh37	14	61113204	61113204	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652G>A	p.Glu218Lys	p.E218K	ENST00000247182	2/2	59	45	13	75	75	0	SIX1,missense_variant,p.Glu218Lys,ENST00000247182,;SIX1,missense_variant,p.Glu45Lys,ENST00000554986,;RP11-1042B17.5,downstream_gene_variant,,ENST00000555871,;SIX1,3_prime_UTR_variant,,ENST00000555955,;SIX1,3_prime_UTR_variant,,ENST00000553535,;	T	ENSG00000126778	ENST00000247182	Transcript	missense_variant	925	652	218	E/K	Gag/Aag	COSM3361177	.	.	-1	SIX1	HGNC	10887	protein_coding	YES	CCDS9748.1	ENSP00000247182	SIX1_HUMAN	.	UPI00001359BA	.	tolerated(0.23)	benign(0.017)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10390:SF13,hmmpanther:PTHR10390	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCTTCTG	.	5	BLCA
SIX1	0	.	GRCh37	14	61115425	61115425	+	Silent	SNP	G	G	A	rs758128766	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483C>T	p.%3D	p.T161T	ENST00000247182	1/2	40	21	18	66	66	0	SIX1,synonymous_variant,p.%3D,ENST00000247182,;SIX1,intron_variant,,ENST00000554986,;SIX1,intron_variant,,ENST00000555955,;SIX1,intron_variant,,ENST00000553535,;SIX1,downstream_gene_variant,,ENST00000555627,;	A	ENSG00000126778	ENST00000247182	Transcript	synonymous_variant	756	483	161	T	acC/acT	rs758128766	.	.	-1	SIX1	HGNC	10887	protein_coding	YES	CCDS9748.1	ENSP00000247182	SIX1_HUMAN	.	UPI00001359BA	.	.	.	1/2	.	PROSITE_profiles:PS50071,hmmpanther:PTHR10390:SF13,hmmpanther:PTHR10390,PROSITE_patterns:PS00027,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGGTGGC	byFrequency	5	BLCA
SYNE2	0	.	GRCh37	14	64626110	64626110	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16044C>A	p.Cys5348Ter	p.C5348*	ENST00000358025	87/116	59	48	11	76	76	0	SYNE2,stop_gained,p.Cys5265Ter,ENST00000554584,;SYNE2,stop_gained,p.Cys1733Ter,ENST00000394768,;SYNE2,stop_gained,p.Cys5348Ter,ENST00000344113,;SYNE2,stop_gained,p.Cys1733Ter,ENST00000357395,;SYNE2,stop_gained,p.Cys5348Ter,ENST00000358025,;SYNE2,stop_gained,p.Cys1982Ter,ENST00000555002,;ESR2,intron_variant,,ENST00000556275,;ESR2,intron_variant,,ENST00000542956,;SYNE2,stop_gained,p.Cys310Ter,ENST00000555612,;SYNE2,non_coding_transcript_exon_variant,,ENST00000557024,;SYNE2,upstream_gene_variant,,ENST00000553289,;	A	ENSG00000054654	ENST00000358025	Transcript	stop_gained	16274	16044	5348	C/*	tgC/tgA	.	.	.	1	SYNE2	HGNC	17084	protein_coding	YES	CCDS9761.2	ENSP00000350719	SYNE2_HUMAN	Q6MZP0_HUMAN,G3V5D3_HUMAN,G3V403_HUMAN	UPI00003677E5	.	.	.	87/116	.	hmmpanther:PTHR11915:SF264,hmmpanther:PTHR11915,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGCCCCTC	.	5	BLCA
HSPA2	0	.	GRCh37	14	65007491	65007491	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-77G>A	.	.	ENST00000247207	1/1	16	10	6	15	15	0	HSPA2,5_prime_UTR_variant,,ENST00000247207,;HSPA2,intron_variant,,ENST00000394709,;RP11-973N13.4,upstream_gene_variant,,ENST00000554918,;HSPA2,non_coding_transcript_exon_variant,,ENST00000554883,;RP11-973N13.5,upstream_gene_variant,,ENST00000555669,;	A	ENSG00000126803	ENST00000247207	Transcript	5_prime_UTR_variant	306	.	.	.	.	.	.	.	1	HSPA2	HGNC	5235	protein_coding	YES	CCDS9766.1	ENSP00000247207	HSP72_HUMAN	.	UPI000012CC6A	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTCGAGGTG	.	5	BLCA
SPTB	0	.	GRCh37	14	65233459	65233459	+	Silent	SNP	G	G	A	rs751673185	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6330C>T	p.%3D	p.T2110T	ENST00000389722	31/35	113	56	57	157	157	0	SPTB,stop_gained,p.Arg2094Ter,ENST00000389720,;SPTB,synonymous_variant,p.%3D,ENST00000389721,;SPTB,synonymous_variant,p.%3D,ENST00000556626,;SPTB,synonymous_variant,p.%3D,ENST00000553938,;SPTB,synonymous_variant,p.%3D,ENST00000389722,;SPTB,synonymous_variant,p.%3D,ENST00000542895,;SPTB,upstream_gene_variant,,ENST00000342835,;SPTB,downstream_gene_variant,,ENST00000542694,;	A	ENSG00000070182	ENST00000389722	Transcript	synonymous_variant	6384	6330	2110	T	acC/acT	rs751673185	.	.	-1	SPTB	HGNC	11274	protein_coding	YES	CCDS32099.1	ENSP00000374372	SPTB1_HUMAN	Q71VG2_HUMAN,Q71VG1_HUMAN,Q71VG0_HUMAN,Q71VF9_HUMAN,Q71VF8_HUMAN,Q59FP5_HUMAN,O14726_HUMAN,O14725_HUMAN	UPI000053030D	.	.	.	31/35	.	hmmpanther:PTHR11915:SF248,hmmpanther:PTHR11915,SMART_domains:SM00150,PIRSF_domain:PIRSF002297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTCGGTGGC	byFrequency	5	BLCA
FNTB	0	.	GRCh37	14	65453668	65453668	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4G>A	.	.	ENST00000246166	1/12	27	20	7	55	55	0	FNTB,5_prime_UTR_variant,,ENST00000246166,;FNTB,intron_variant,,ENST00000447296,;CHURC1-FNTB,intron_variant,,ENST00000549987,;CHURC1-FNTB,intron_variant,,ENST00000553743,;FNTB,intron_variant,,ENST00000542227,;FNTB,non_coding_transcript_exon_variant,,ENST00000555372,;FNTB,upstream_gene_variant,,ENST00000555742,;CHURC1-FNTB,intron_variant,,ENST00000551823,;CHURC1-FNTB,intron_variant,,ENST00000552941,;	A	ENSG00000257365	ENST00000246166	Transcript	5_prime_UTR_variant	231	.	.	.	.	.	.	.	1	FNTB	HGNC	3785	protein_coding	YES	CCDS9769.1	ENSP00000246166	FNTB_HUMAN	Q86TX8_HUMAN,B4DJ86_HUMAN,B3KSC2_HUMAN	UPI0000111EF4	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTGATCAT	.	5	BLCA
FUT8	0	.	GRCh37	14	66096237	66096237	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.510C>T	p.%3D	p.L170L	ENST00000360689	6/11	83	57	26	123	123	0	FUT8,synonymous_variant,p.%3D,ENST00000394585,;FUT8,synonymous_variant,p.%3D,ENST00000360689,;FUT8,synonymous_variant,p.%3D,ENST00000557164,;FUT8,synonymous_variant,p.%3D,ENST00000358307,;FUT8,synonymous_variant,p.%3D,ENST00000394586,;FUT8,synonymous_variant,p.%3D,ENST00000342677,;	T	ENSG00000033170	ENST00000360689	Transcript	synonymous_variant	2237	510	170	L	ctC/ctT	.	.	.	1	FUT8	HGNC	4019	protein_coding	YES	CCDS9775.1	ENSP00000353910	FUT8_HUMAN	Q546E0_HUMAN,G3V5Z4_HUMAN,G3V5E3_HUMAN,G3V530_HUMAN,G3V509_HUMAN,G3V4A8_HUMAN	UPI000000DCC9	.	.	.	6/11	.	hmmpanther:PTHR13132,PIRSF_domain:PIRSF000472	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAGTCA	.	5	BLCA
MPP5	0	.	GRCh37	14	67768807	67768807	+	Missense_Mutation	SNP	G	G	A	rs369975260	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.773G>A	p.Arg258His	p.R258H	ENST00000261681	6/15	107	77	29	111	111	0	MPP5,missense_variant,p.Arg224His,ENST00000555925,;MPP5,missense_variant,p.Arg258His,ENST00000261681,;ATP6V1D,intron_variant,,ENST00000554087,;	A	ENSG00000072415	ENST00000261681	Transcript	missense_variant	1434	773	258	R/H	cGt/cAt	rs369975260	.	.	1	MPP5	HGNC	18669	protein_coding	YES	CCDS9779.1	ENSP00000261681	MPP5_HUMAN	G3V2H1_HUMAN	UPI0000046FB9	.	tolerated(0.11)	probably_damaging(0.955)	6/15	.	PROSITE_profiles:PS50106,hmmpanther:PTHR23122:SF32,hmmpanther:PTHR23122,Gene3D:2.30.42.10,Pfam_domain:PF00595,Superfamily_domains:SSF50156	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTCGTATAG	byCluster|by1000G	5	BLCA
ATP6V1D	0	.	GRCh37	14	67826422	67826422	+	5'UTR	SNP	G	G	A	rs370286919	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7C>T	.	.	ENST00000216442	1/9	46	33	13	65	65	0	ATP6V1D,5_prime_UTR_variant,,ENST00000553687,;ATP6V1D,5_prime_UTR_variant,,ENST00000555012,;ATP6V1D,5_prime_UTR_variant,,ENST00000555431,;ATP6V1D,5_prime_UTR_variant,,ENST00000554236,;ATP6V1D,5_prime_UTR_variant,,ENST00000555474,;ATP6V1D,5_prime_UTR_variant,,ENST00000216442,;EIF2S1,upstream_gene_variant,,ENST00000466499,;EIF2S1,upstream_gene_variant,,ENST00000557310,;EIF2S1,upstream_gene_variant,,ENST00000256383,;ATP6V1D,5_prime_UTR_variant,,ENST00000556058,;ATP6V1D,5_prime_UTR_variant,,ENST00000554087,;ATP6V1D,non_coding_transcript_exon_variant,,ENST00000555335,;ATP6V1D,non_coding_transcript_exon_variant,,ENST00000557244,;EIF2S1,upstream_gene_variant,,ENST00000556724,;	A	ENSG00000100554	ENST00000216442	Transcript	5_prime_UTR_variant	545	.	.	.	.	rs370286919	.	.	-1	ATP6V1D	HGNC	13527	protein_coding	YES	CCDS9780.1	ENSP00000216442	VATD_HUMAN	H0YJH8_HUMAN,G3V5S7_HUMAN,G3V341_HUMAN,G3V2S6_HUMAN	UPI000013818E	.	.	.	1/9	.	.	.	.	.	.	.	.	.	C:0	C:0.0002	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACGATAAC	byFrequency|byCluster	5	BLCA
RDH12	0	.	GRCh37	14	68196014	68196014	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765C>T	p.%3D	p.V255V	ENST00000551171	8/9	75	51	24	108	108	0	RDH12,synonymous_variant,p.%3D,ENST00000539142,;RDH12,synonymous_variant,p.%3D,ENST00000551171,;RDH12,synonymous_variant,p.%3D,ENST00000267502,;ZFYVE26,non_coding_transcript_exon_variant,,ENST00000394455,;RDH12,non_coding_transcript_exon_variant,,ENST00000552873,;	T	ENSG00000139988	ENST00000551171	Transcript	synonymous_variant	1089	765	255	V	gtC/gtT	.	.	.	1	RDH12	HGNC	19977	protein_coding	YES	CCDS9787.1	ENSP00000449079	RDH12_HUMAN	.	UPI0000071827	.	.	.	8/9	.	hmmpanther:PTHR24316,hmmpanther:PTHR24316:SF256,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTCAAGAC	.	5	BLCA
RAD51B	0	.	GRCh37	14	68352699	68352699	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.566T>A	p.Leu189Gln	p.L189Q	ENST00000487270	6/11	138	97	41	181	181	0	RAD51B,missense_variant,p.Leu189Gln,ENST00000471583,;RAD51B,missense_variant,p.Leu189Gln,ENST00000488612,;RAD51B,missense_variant,p.Leu189Gln,ENST00000390683,;RAD51B,missense_variant,p.Leu189Gln,ENST00000487861,;RAD51B,missense_variant,p.Leu189Gln,ENST00000487270,;RAD51B,non_coding_transcript_exon_variant,,ENST00000553734,;RAD51B,non_coding_transcript_exon_variant,,ENST00000553595,;RAD51B,non_coding_transcript_exon_variant,,ENST00000555907,;RAD51B,upstream_gene_variant,,ENST00000469165,;RAD51B,upstream_gene_variant,,ENST00000460526,;RAD51B,upstream_gene_variant,,ENST00000492236,;RAD51B,upstream_gene_variant,,ENST00000478014,;RAD51B,upstream_gene_variant,,ENST00000497460,;RAD51B,upstream_gene_variant,,ENST00000554244,;RAD51B,3_prime_UTR_variant,,ENST00000479335,;RAD51B,non_coding_transcript_exon_variant,,ENST00000474051,;	A	ENSG00000182185	ENST00000487270	Transcript	missense_variant	614	566	189	L/Q	cTa/cAa	.	.	.	1	RAD51B	HGNC	9822	protein_coding	YES	CCDS9789.1	ENSP00000419471	RA51B_HUMAN	G3V4W9_HUMAN,C9J5S9_HUMAN	UPI0000073AB0	.	deleterious(0.03)	benign(0.142)	6/11	.	PROSITE_profiles:PS50162,hmmpanther:PTHR22942,hmmpanther:PTHR22942:SF15,Gene3D:3.40.50.300,Pfam_domain:PF08423,PIRSF_domain:PIRSF005856,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTCTACAAA	.	5	BLCA
ZFP36L1	0	.	GRCh37	14	69256573	69256573	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694C>T	p.%3D	p.L232L	ENST00000439696	2/2	109	72	36	130	130	0	ZFP36L1,synonymous_variant,p.%3D,ENST00000336440,;ZFP36L1,synonymous_variant,p.%3D,ENST00000439696,;ZFP36L1,3_prime_UTR_variant,,ENST00000555997,;ZFP36L1,downstream_gene_variant,,ENST00000557022,;ZFP36L1,downstream_gene_variant,,ENST00000408913,;ZFP36L1,downstream_gene_variant,,ENST00000553375,;ZFP36L1,downstream_gene_variant,,ENST00000557086,;	A	ENSG00000185650	ENST00000439696	Transcript	synonymous_variant	996	694	232	L	Ctg/Ttg	.	.	.	-1	ZFP36L1	HGNC	1107	protein_coding	YES	CCDS9791.1	ENSP00000388402	TISB_HUMAN	G3V2D5_HUMAN,B4E1N3_HUMAN,B4DG15_HUMAN	UPI0000136FBC	.	.	.	2/2	.	hmmpanther:PTHR12547,hmmpanther:PTHR12547:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCAGAATAG	.	5	BLCA
ZFP36L1	0	.	GRCh37	14	69259669	69259669	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14C>T	.	.	ENST00000439696	1/2	73	51	21	102	102	0	ZFP36L1,missense_variant,p.Ala65Val,ENST00000553375,;ZFP36L1,5_prime_UTR_variant,,ENST00000336440,;ZFP36L1,5_prime_UTR_variant,,ENST00000439696,;ZFP36L1,intron_variant,,ENST00000557022,;ZFP36L1,intron_variant,,ENST00000557086,;ZFP36L1,downstream_gene_variant,,ENST00000408913,;ZFP36L1,upstream_gene_variant,,ENST00000555997,;	A	ENSG00000185650	ENST00000439696	Transcript	5_prime_UTR_variant	289	.	.	.	.	.	.	.	-1	ZFP36L1	HGNC	1107	protein_coding	YES	CCDS9791.1	ENSP00000388402	TISB_HUMAN	G3V2D5_HUMAN,B4E1N3_HUMAN,B4DG15_HUMAN	UPI0000136FBC	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCGCGCGAGC	.	5	BLCA
DCAF5	0	.	GRCh37	14	69589074	69589074	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218G>A	p.Gly73Glu	p.G73E	ENST00000341516	2/9	47	28	18	54	54	0	DCAF5,missense_variant,p.Gly73Glu,ENST00000557386,;DCAF5,missense_variant,p.Gly73Glu,ENST00000341516,;DCAF5,missense_variant,p.Gly73Glu,ENST00000389997,;DCAF5,5_prime_UTR_variant,,ENST00000554215,;DCAF5,5_prime_UTR_variant,,ENST00000554681,;DCAF5,5_prime_UTR_variant,,ENST00000556847,;DCAF5,upstream_gene_variant,,ENST00000553293,;DCAF5,non_coding_transcript_exon_variant,,ENST00000553943,;DCAF5,intron_variant,,ENST00000556111,;	T	ENSG00000139990	ENST00000341516	Transcript	missense_variant	366	218	73	G/E	gGa/gAa	COSM1607889	.	.	-1	DCAF5	HGNC	20224	protein_coding	YES	CCDS32106.1	ENSP00000341351	DCAF5_HUMAN	Q8NCX5_HUMAN	UPI00001C1F66	.	deleterious(0.01)	probably_damaging(0.927)	2/9	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR15574,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCCTCCT	.	5	BLCA
SLC8A3	0	.	GRCh37	14	70634149	70634149	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.991G>A	p.Asp331Asn	p.D331N	ENST00000381269	2/8	73	53	20	96	96	0	SLC8A3,missense_variant,p.Asp331Asn,ENST00000534137,;SLC8A3,missense_variant,p.Asp331Asn,ENST00000381269,;SLC8A3,missense_variant,p.Asp331Asn,ENST00000357887,;SLC8A3,missense_variant,p.Asp331Asn,ENST00000528359,;SLC8A3,missense_variant,p.Asp331Asn,ENST00000356921,;SLC8A3,missense_variant,p.Asp331Asn,ENST00000494208,;	T	ENSG00000100678	ENST00000381269	Transcript	missense_variant	1745	991	331	D/N	Gac/Aac	.	.	.	-1	SLC8A3	HGNC	11070	protein_coding	YES	CCDS35498.1	ENSP00000370669	NAC3_HUMAN	Q86TQ9_HUMAN	UPI0000073C9A	.	deleterious(0)	benign(0.355)	2/8	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF7,TIGRFAM_domain:TIGR00845	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAGTCCTTCT	.	5	BLCA
ACOT1	0	.	GRCh37	14	74004501	74004501	+	Missense_Mutation	SNP	G	G	A	rs746571011	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376G>A	p.Glu126Lys	p.E126K	ENST00000311148	1/3	12	7	5	27	27	0	ACOT1,missense_variant,p.Glu126Lys,ENST00000557556,;ACOT1,missense_variant,p.Glu126Lys,ENST00000311148,;HEATR4,intron_variant,,ENST00000553558,;HEATR4,intron_variant,,ENST00000560393,;HEATR4,intron_variant,,ENST00000563329,;HEATR4,intron_variant,,ENST00000334988,;NT5CP2,downstream_gene_variant,,ENST00000553305,;	A	ENSG00000184227	ENST00000311148	Transcript	missense_variant	684	376	126	E/K	Gag/Aag	rs746571011	.	.	1	ACOT1	HGNC	33128	protein_coding	YES	CCDS32117.1	ENSP00000311224	ACOT1_HUMAN	E9KL42_HUMAN	UPI000000CC4B	.	deleterious(0.02)	benign(0.029)	1/3	.	hmmpanther:PTHR10824,hmmpanther:PTHR10824:SF5,Pfam_domain:PF04775,PIRSF_domain:PIRSF016521,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCACGAGCGC	.	3	BLCA
ELMSAN1	0	.	GRCh37	14	74206641	74206641	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71C>T	p.Ala24Val	p.A24V	ENST00000286523	2/12	38	27	11	68	68	0	ELMSAN1,missense_variant,p.Ala24Val,ENST00000435371,;ELMSAN1,missense_variant,p.Ala24Val,ENST00000423556,;ELMSAN1,missense_variant,p.Ala24Val,ENST00000286523,;ELMSAN1,missense_variant,p.Ala24Val,ENST00000421708,;ELMSAN1,missense_variant,p.Ala24Val,ENST00000394071,;ELMSAN1,downstream_gene_variant,,ENST00000486739,;ELMSAN1,upstream_gene_variant,,ENST00000451078,;	A	ENSG00000156030	ENST00000286523	Transcript	missense_variant	854	71	24	A/V	gCt/gTt	.	.	.	-1	ELMSAN1	HGNC	19853	protein_coding	YES	CCDS9819.1	ENSP00000286523	EMSA1_HUMAN	F6RU81_HUMAN,C9JYU7_HUMAN	UPI00001FD815	.	tolerated_low_confidence(0.11)	benign(0.019)	2/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16089:SF24,hmmpanther:PTHR16089	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGAGCTGGT	.	5	BLCA
ENTPD5	0	.	GRCh37	14	74438604	74438604	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1035A>G	p.%3D	p.E345E	ENST00000334696	14/16	88	56	32	113	113	0	ENTPD5,synonymous_variant,p.%3D,ENST00000334696,;ENTPD5,synonymous_variant,p.%3D,ENST00000555829,;ENTPD5,synonymous_variant,p.%3D,ENST00000557325,;ENTPD5,downstream_gene_variant,,ENST00000553284,;	C	ENSG00000187097	ENST00000334696	Transcript	synonymous_variant	1355	1035	345	E	gaA/gaG	.	.	.	-1	ENTPD5	HGNC	3367	protein_coding	YES	CCDS9825.1	ENSP00000335246	ENTP5_HUMAN	G3V450_HUMAN	UPI0000052B69	.	.	.	14/16	.	hmmpanther:PTHR11782,hmmpanther:PTHR11782:SF35,Pfam_domain:PF01150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTTTCATA	.	5	BLCA
FLVCR2	0	.	GRCh37	14	76045315	76045315	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000238667	1/10	38	25	12	46	46	0	FLVCR2,5_prime_UTR_variant,,ENST00000238667,;AC007182.6,non_coding_transcript_exon_variant,,ENST00000455232,;FLVCR2,upstream_gene_variant,,ENST00000554496,;FLVCR2,upstream_gene_variant,,ENST00000555385,;	A	ENSG00000119686	ENST00000238667	Transcript	5_prime_UTR_variant	356	.	.	.	.	.	.	.	1	FLVCR2	HGNC	20105	protein_coding	YES	CCDS9844.1	ENSP00000238667	FLVC2_HUMAN	G3V391_HUMAN	UPI0000073CD6	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGCGATGGT	.	5	BLCA
IRF2BPL	0	.	GRCh37	14	77491854	77491854	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2282G>A	p.Gly761Glu	p.G761E	ENST00000238647	1/1	58	38	20	86	86	0	IRF2BPL,missense_variant,p.Gly761Glu,ENST00000238647,;	T	ENSG00000119669	ENST00000238647	Transcript	missense_variant	3181	2282	761	G/E	gGa/gAa	.	.	.	-1	IRF2BPL	HGNC	14282	protein_coding	YES	CCDS9854.1	ENSP00000238647	I2BPL_HUMAN	.	UPI00000738BA	.	deleterious(0)	unknown(0)	1/1	.	hmmpanther:PTHR10816:SF14,hmmpanther:PTHR10816,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCCGCTG	.	5	BLCA
ALKBH1	0	.	GRCh37	14	78140405	78140405	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.920C>A	p.Ala307Glu	p.A307E	ENST00000216489	6/6	46	30	15	50	50	0	ALKBH1,missense_variant,p.Ala307Glu,ENST00000216489,;ALKBH1,3_prime_UTR_variant,,ENST00000557057,;ALKBH1,downstream_gene_variant,,ENST00000555100,;	T	ENSG00000100601	ENST00000216489	Transcript	missense_variant	936	920	307	A/E	gCa/gAa	.	.	.	-1	ALKBH1	HGNC	17911	protein_coding	YES	CCDS32127.1	ENSP00000216489	ALKB1_HUMAN	.	UPI000012585D	.	tolerated(0.69)	benign(0.102)	6/6	.	Pfam_domain:PF13532,hmmpanther:PTHR16557,PROSITE_profiles:PS51471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTGCCTCT	.	5	BLCA
ADCK1	0	.	GRCh37	14	78325524	78325524	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325G>A	p.Glu109Lys	p.E109K	ENST00000238561	4/11	57	37	20	77	77	0	ADCK1,missense_variant,p.Glu109Lys,ENST00000557501,;ADCK1,missense_variant,p.Glu109Lys,ENST00000238561,;ADCK1,intron_variant,,ENST00000341211,;ADCK1,missense_variant,p.Glu109Lys,ENST00000393639,;ADCK1,3_prime_UTR_variant,,ENST00000556048,;	A	ENSG00000063761	ENST00000238561	Transcript	missense_variant	424	325	109	E/K	Gag/Aag	.	.	.	1	ADCK1	HGNC	19038	protein_coding	YES	CCDS9869.1	ENSP00000238561	ADCK1_HUMAN	.	UPI000014035F	.	tolerated(0.71)	benign(0.006)	4/11	.	hmmpanther:PTHR10566:SF58,hmmpanther:PTHR10566	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCAGAGGAG	.	5	BLCA
CEP128	0	.	GRCh37	14	81251329	81251329	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2121G>A	p.%3D	p.V707V	ENST00000555265	15/25	117	80	37	165	165	0	CEP128,synonymous_variant,p.%3D,ENST00000555265,;CEP128,synonymous_variant,p.%3D,ENST00000281129,;CEP128,synonymous_variant,p.%3D,ENST00000554502,;	T	ENSG00000100629	ENST00000555265	Transcript	synonymous_variant	2497	2121	707	V	gtG/gtA	COSM553825	.	.	-1	CEP128	HGNC	20359	protein_coding	YES	CCDS32130.1	ENSP00000451162	CE128_HUMAN	Q9NS50_HUMAN,Q9HCB0_HUMAN,Q86TS1_HUMAN,G3V3U2_HUMAN,G3V3F4_HUMAN	UPI000022982E	.	.	.	15/25	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18937:SF149,hmmpanther:PTHR18937	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCACACT	.	5	BLCA
SEL1L	0	.	GRCh37	14	81954277	81954277	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1405C>T	p.%3D	p.L469L	ENST00000336735	15/21	45	29	15	56	56	0	SEL1L,synonymous_variant,p.%3D,ENST00000336735,;SEL1L,downstream_gene_variant,,ENST00000555923,;SEL1L,upstream_gene_variant,,ENST00000554293,;	A	ENSG00000071537	ENST00000336735	Transcript	synonymous_variant	1522	1405	469	L	Cta/Tta	.	.	.	-1	SEL1L	HGNC	10717	protein_coding	YES	CCDS9876.1	ENSP00000337053	SE1L1_HUMAN	.	UPI0000135746	.	.	.	15/21	.	hmmpanther:PTHR11102:SF55,hmmpanther:PTHR11102,Pfam_domain:PF08238,Gene3D:1.25.40.10,SMART_domains:SM00671,Superfamily_domains:SSF81901	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTAGATCAT	.	5	BLCA
GPR65	0	.	GRCh37	14	88477782	88477782	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.591C>T	p.%3D	p.V197V	ENST00000267549	2/2	59	42	16	75	75	0	GPR65,synonymous_variant,p.%3D,ENST00000267549,;RP11-300J18.2,intron_variant,,ENST00000554433,;	T	ENSG00000140030	ENST00000267549	Transcript	synonymous_variant	1149	591	197	V	gtC/gtT	.	.	.	1	GPR65	HGNC	4517	protein_coding	YES	CCDS9879.1	ENSP00000267549	PSYR_HUMAN	B5B0C2_HUMAN	UPI000007422C	.	.	.	2/2	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24232,hmmpanther:PTHR24232:SF36,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGTCACCAT	.	5	BLCA
KCNK10	0	.	GRCh37	14	88737227	88737227	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.53-7332G>A	.	.	ENST00000319231	.	45	28	16	48	48	0	KCNK10,5_prime_UTR_variant,,ENST00000312350,;KCNK10,intron_variant,,ENST00000556282,;KCNK10,intron_variant,,ENST00000319231,;KCNK10,intron_variant,,ENST00000340700,;	T	ENSG00000100433	ENST00000319231	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	KCNK10	HGNC	6273	protein_coding	YES	CCDS9881.1	ENSP00000312811	KCNKA_HUMAN	.	UPI000002A697	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCAGAGT	.	5	BLCA
SPATA7	0	.	GRCh37	14	88895772	88895772	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993G>C	p.Glu331Asp	p.E331D	ENST00000393545	8/12	68	49	18	90	90	0	SPATA7,missense_variant,p.Glu299Asp,ENST00000356583,;SPATA7,missense_variant,p.Glu331Asp,ENST00000045347,;SPATA7,missense_variant,p.Glu331Asp,ENST00000393545,;SPATA7,missense_variant,p.Glu299Asp,ENST00000556553,;SPATA7,upstream_gene_variant,,ENST00000554802,;SPATA7,downstream_gene_variant,,ENST00000555401,;SPATA7,upstream_gene_variant,,ENST00000556406,;SPATA7,downstream_gene_variant,,ENST00000553885,;SPATA7,non_coding_transcript_exon_variant,,ENST00000556666,;SPATA7,non_coding_transcript_exon_variant,,ENST00000553626,;SPATA7,downstream_gene_variant,,ENST00000553908,;SPATA7,upstream_gene_variant,,ENST00000553303,;SPATA7,downstream_gene_variant,,ENST00000557248,;SPATA7,downstream_gene_variant,,ENST00000556870,;SPATA7,downstream_gene_variant,,ENST00000555515,;SPATA7,downstream_gene_variant,,ENST00000555534,;	C	ENSG00000042317	ENST00000393545	Transcript	missense_variant	1282	993	331	E/D	gaG/gaC	.	.	.	1	SPATA7	HGNC	20423	protein_coding	YES	CCDS9883.1	ENSP00000377176	SPAT7_HUMAN	.	UPI00000712C7	.	tolerated(0.27)	benign(0.018)	8/12	.	Pfam_domain:PF15244,hmmpanther:PTHR14917	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGAGATTAA	.	5	BLCA
EML5	0	.	GRCh37	14	89082485	89082485	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5897+1G>C	.	p.X1966_splice	ENST00000554922	.	60	46	13	76	76	0	EML5,splice_donor_variant,,ENST00000352093,;EML5,splice_donor_variant,,ENST00000380664,;EML5,splice_donor_variant,,ENST00000554922,;ZC3H14,downstream_gene_variant,,ENST00000336693,;ZC3H14,downstream_gene_variant,,ENST00000555755,;ZC3H14,downstream_gene_variant,,ENST00000318308,;ZC3H14,downstream_gene_variant,,ENST00000555792,;ZC3H14,downstream_gene_variant,,ENST00000393514,;ZC3H14,downstream_gene_variant,,ENST00000302216,;ZC3H14,downstream_gene_variant,,ENST00000251038,;ZC3H14,downstream_gene_variant,,ENST00000555900,;EML5,downstream_gene_variant,,ENST00000555823,;ZC3H14,downstream_gene_variant,,ENST00000359301,;ZC3H14,downstream_gene_variant,,ENST00000556945,;ZC3H14,downstream_gene_variant,,ENST00000557607,;ZC3H14,downstream_gene_variant,,ENST00000556000,;ZC3H14,downstream_gene_variant,,ENST00000406216,;ZC3H14,downstream_gene_variant,,ENST00000555851,;EML5,splice_donor_variant,,ENST00000553973,;EML5,splice_donor_variant,,ENST00000553526,;ZC3H14,downstream_gene_variant,,ENST00000557491,;ZC3H14,downstream_gene_variant,,ENST00000554020,;	G	ENSG00000165521	ENST00000554922	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	EML5	HGNC	18197	protein_coding	YES	CCDS45148.1	ENSP00000451998	EMAL5_HUMAN	.	UPI00001C0438	.	.	.	.	43/43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTAACCTGCA	.	5	BLCA
KCNK13	0	.	GRCh37	14	90651124	90651124	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1004G>A	p.Ser335Asn	p.S335N	ENST00000282146	2/2	68	49	19	70	70	0	KCNK13,missense_variant,p.Ser335Asn,ENST00000282146,;	A	ENSG00000152315	ENST00000282146	Transcript	missense_variant	1445	1004	335	S/N	aGt/aAt	.	.	.	1	KCNK13	HGNC	6275	protein_coding	YES	CCDS9889.1	ENSP00000282146	KCNKD_HUMAN	B5TJL8_HUMAN	UPI0000127A55	.	tolerated(0.08)	probably_damaging(0.938)	2/2	.	hmmpanther:PTHR11003:SF57,hmmpanther:PTHR11003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAGTGACA	.	5	BLCA
RPS6KA5	0	.	GRCh37	14	91341662	91341662	+	Nonsense_Mutation	SNP	G	G	A	rs747371219	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1879C>T	p.Arg627Ter	p.R627*	ENST00000261991	15/17	79	65	14	94	94	0	RPS6KA5,stop_gained,p.Arg627Ter,ENST00000261991,;RPS6KA5,stop_gained,p.Arg548Ter,ENST00000536315,;RPS6KA5,3_prime_UTR_variant,,ENST00000556178,;	A	ENSG00000100784	ENST00000261991	Transcript	stop_gained	2053	1879	627	R/*	Cga/Tga	rs747371219	.	.	-1	RPS6KA5	HGNC	10434	protein_coding	YES	CCDS9893.1	ENSP00000261991	KS6A5_HUMAN	Q9UG98_HUMAN,B7Z2Y5_HUMAN	UPI0000031C30	.	.	.	15/17	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF000606,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24351:SF42,hmmpanther:PTHR24351,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R627Q|c.1880G>A|3,CODON|p.R627Q|c.1880G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTCGGTCAT	byFrequency	5	BLCA
C14orf159	0	.	GRCh37	14	91639689	91639689	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513G>A	p.Met171Ile	p.M171I	ENST00000518868	9/17	43	23	20	80	80	0	C14orf159,missense_variant,p.Met166Ile,ENST00000523816,;C14orf159,missense_variant,p.Met166Ile,ENST00000428926,;C14orf159,missense_variant,p.Met166Ile,ENST00000522322,;C14orf159,missense_variant,p.Met166Ile,ENST00000523771,;C14orf159,missense_variant,p.Met171Ile,ENST00000519950,;C14orf159,missense_variant,p.Met171Ile,ENST00000518868,;C14orf159,missense_variant,p.Met171Ile,ENST00000517518,;C14orf159,missense_variant,p.Met171Ile,ENST00000521077,;C14orf159,missense_variant,p.Met166Ile,ENST00000520328,;C14orf159,missense_variant,p.Met171Ile,ENST00000522170,;C14orf159,missense_variant,p.Met171Ile,ENST00000256324,;C14orf159,missense_variant,p.Met42Ile,ENST00000525393,;C14orf159,missense_variant,p.Met171Ile,ENST00000412671,;C14orf159,downstream_gene_variant,,ENST00000521064,;C14orf159,downstream_gene_variant,,ENST00000518871,;C14orf159,downstream_gene_variant,,ENST00000523894,;C14orf159,downstream_gene_variant,,ENST00000521334,;C14orf159,intron_variant,,ENST00000518649,;C14orf159,missense_variant,p.Met156Ile,ENST00000523461,;C14orf159,missense_variant,p.Met73Ile,ENST00000517306,;C14orf159,stop_retained_variant,p.%3D,ENST00000519994,;C14orf159,3_prime_UTR_variant,,ENST00000523837,;C14orf159,upstream_gene_variant,,ENST00000520130,;	A	ENSG00000133943	ENST00000518868	Transcript	missense_variant	1203	513	171	M/I	atG/atA	.	.	.	1	C14orf159	HGNC	20498	protein_coding	YES	CCDS41979.1	ENSP00000428263	CN159_HUMAN	E5RK56_HUMAN,E5RK14_HUMAN,E5RJD1_HUMAN,E5RJ87_HUMAN,E5RJ62_HUMAN,E5RIU5_HUMAN,E5RIL4_HUMAN,E5RHG2_HUMAN,E5RGP9_HUMAN,E5RFT5_HUMAN	UPI000000CC60	.	deleterious(0.01)	possibly_damaging(0.568)	9/17	.	Superfamily_domains:0054510,PIRSF_domain:PIRSF037204,Pfam_domain:PF07286,hmmpanther:PTHR32022	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGATGAGGCC	.	5	BLCA
UBR7	0	.	GRCh37	14	93685641	93685641	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894G>A	p.%3D	p.K298K	ENST00000013070	8/11	38	23	14	52	52	0	UBR7,synonymous_variant,p.%3D,ENST00000013070,;UBR7,synonymous_variant,p.%3D,ENST00000416753,;UBR7,intron_variant,,ENST00000555329,;UBR7,intron_variant,,ENST00000553857,;UBR7,downstream_gene_variant,,ENST00000555113,;UBR7,downstream_gene_variant,,ENST00000554232,;UBR7,downstream_gene_variant,,ENST00000556871,;RP11-371E8.4,downstream_gene_variant,,ENST00000557048,;UBR7,3_prime_UTR_variant,,ENST00000553674,;RP11-85G20.1,downstream_gene_variant,,ENST00000469219,;	A	ENSG00000012963	ENST00000013070	Transcript	synonymous_variant	1130	894	298	K	aaG/aaA	.	.	.	1	UBR7	HGNC	20344	protein_coding	YES	CCDS9909.1	ENSP00000013070	UBR7_HUMAN	.	UPI00000373D9	.	.	.	8/11	.	hmmpanther:PTHR13513	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAAAGAAAGA	.	5	BLCA
SERPINA4	0	.	GRCh37	14	95030219	95030219	+	Missense_Mutation	SNP	G	G	A	rs775822256	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.400G>A	p.Gly134Arg	p.G134R	ENST00000557004	2/5	63	46	16	93	93	0	SERPINA4,missense_variant,p.Gly134Arg,ENST00000555095,;SERPINA4,missense_variant,p.Gly134Arg,ENST00000298841,;SERPINA4,missense_variant,p.Gly134Arg,ENST00000557004,;SERPINA5,intron_variant,,ENST00000554220,;SERPINA5,intron_variant,,ENST00000553780,;	A	ENSG00000100665	ENST00000557004	Transcript	missense_variant	821	400	134	G/R	Ggg/Agg	rs775822256	.	.	1	SERPINA4	HGNC	8948	protein_coding	YES	CCDS9927.1	ENSP00000450838	KAIN_HUMAN	.	UPI000000CBEF	.	tolerated(0.47)	benign(0.003)	2/5	.	hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF157,Gene3D:3.30.497.10,Pfam_domain:PF00079,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGGGCTG	byFrequency	5	BLCA
GLRX5	0	.	GRCh37	14	96000057	96000057	+	5'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000331334	.	22	16	5	21	21	0	GLRX5,upstream_gene_variant,,ENST00000557731,;GLRX5,upstream_gene_variant,,ENST00000331334,;SCARNA13,upstream_gene_variant,,ENST00000516672,;SNHG10,non_coding_transcript_exon_variant,,ENST00000554169,;SNHG10,intron_variant,,ENST00000553559,;SNHG10,intron_variant,,ENST00000555866,;SNHG10,intron_variant,,ENST00000500370,;GLRX5,non_coding_transcript_exon_variant,,ENST00000553672,;	A	ENSG00000182512	ENST00000331334	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	873	1	GLRX5	HGNC	20134	protein_coding	YES	CCDS9936.1	ENSP00000328570	GLRX5_HUMAN	.	UPI000000DC2E	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTGAGGAT	.	5	BLCA
TCL6	0	.	GRCh37	14	96129928	96129928	+	RNA	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.336A>G	.	.	ENST00000467865	1/5	27	22	5	47	47	0	TCL6,non_coding_transcript_exon_variant,,ENST00000352367,;TCL6,non_coding_transcript_exon_variant,,ENST00000483087,;TCL6,non_coding_transcript_exon_variant,,ENST00000467865,;TCL6,intron_variant,,ENST00000459662,;RP11-1070N10.6,non_coding_transcript_exon_variant,,ENST00000495847,;RP11-1070N10.6,non_coding_transcript_exon_variant,,ENST00000461160,;RP11-1070N10.6,non_coding_transcript_exon_variant,,ENST00000553913,;RP11-1070N10.6,non_coding_transcript_exon_variant,,ENST00000488933,;TCL6,non_coding_transcript_exon_variant,,ENST00000357168,;TCL6,non_coding_transcript_exon_variant,,ENST00000484207,;TCL6,non_coding_transcript_exon_variant,,ENST00000497248,;TCL6,upstream_gene_variant,,ENST00000486671,;	G	ENSG00000187621	ENST00000467865	Transcript	non_coding_transcript_exon_variant	336	.	.	.	.	.	.	.	1	TCL6	HGNC	13463	lincRNA	YES	.	.	.	.	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAACAGAAAG	.	4	BLCA
BDKRB1	0	.	GRCh37	14	96730442	96730442	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423C>T	p.%3D	p.H141H	ENST00000216629	3/3	76	57	19	81	81	0	BDKRB1,synonymous_variant,p.%3D,ENST00000216629,;BDKRB1,synonymous_variant,p.%3D,ENST00000553356,;RP11-404P21.8,downstream_gene_variant,,ENST00000553811,;RP11-404P21.3,intron_variant,,ENST00000553638,;BDKRB1,upstream_gene_variant,,ENST00000557122,;RP11-404P21.8,downstream_gene_variant,,ENST00000555847,;	T	ENSG00000100739	ENST00000216629	Transcript	synonymous_variant	1029	423	141	H	caC/caT	.	.	.	1	BDKRB1	HGNC	1029	protein_coding	YES	CCDS9943.1	ENSP00000216629	BKRB1_HUMAN	.	UPI0000000348	.	.	.	3/3	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR24228,hmmpanther:PTHR24228:SF4,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCACCCTAT	.	5	BLCA
ALDH1A3	0	.	GRCh37	15	101432792	101432792	+	Silent	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423C>G	p.%3D	p.L141L	ENST00000329841	4/13	66	38	28	86	86	0	ALDH1A3,synonymous_variant,p.%3D,ENST00000561338,;ALDH1A3,synonymous_variant,p.%3D,ENST00000329841,;ALDH1A3,intron_variant,,ENST00000346623,;RP11-66B24.4,downstream_gene_variant,,ENST00000560351,;ALDH1A3,downstream_gene_variant,,ENST00000560555,;ALDH1A3,intron_variant,,ENST00000558033,;	G	ENSG00000184254	ENST00000329841	Transcript	synonymous_variant	955	423	141	L	ctC/ctG	.	.	.	1	ALDH1A3	HGNC	409	protein_coding	YES	CCDS10389.1	ENSP00000332256	AL1A3_HUMAN	.	UPI00001AFAF8	.	.	.	4/13	.	hmmpanther:PTHR11699,hmmpanther:PTHR11699:SF154,Pfam_domain:PF00171,Gene3D:3.40.605.10,Superfamily_domains:SSF53720	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCAGATA	.	5	BLCA
CHSY1	0	.	GRCh37	15	101717508	101717508	+	3'UTR	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*85A>T	.	.	ENST00000254190	3/3	19	11	7	20	20	0	CHSY1,3_prime_UTR_variant,,ENST00000254190,;CHSY1,non_coding_transcript_exon_variant,,ENST00000543813,;CHSY1,downstream_gene_variant,,ENST00000561414,;CHSY1,downstream_gene_variant,,ENST00000560766,;	A	ENSG00000131873	ENST00000254190	Transcript	3_prime_UTR_variant	2970	.	.	.	.	.	.	.	-1	CHSY1	HGNC	17198	protein_coding	YES	CCDS10390.1	ENSP00000254190	CHSS1_HUMAN	.	UPI000000DB6C	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTATACGGA	.	5	BLCA
SNRPA1	0	.	GRCh37	15	101827113	101827113	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459A>G	p.%3D	p.K153K	ENST00000254193	5/9	155	107	48	172	172	0	SNRPA1,synonymous_variant,p.%3D,ENST00000254193,;SNRPA1,synonymous_variant,p.%3D,ENST00000559686,;SNRPA1,splice_region_variant,,ENST00000560496,;SNRPA1,splice_region_variant,,ENST00000540017,;SNRPA1,splice_region_variant,,ENST00000394082,;SNRPA1,downstream_gene_variant,,ENST00000558020,;SNRPA1,downstream_gene_variant,,ENST00000560856,;SNRPA1,downstream_gene_variant,,ENST00000560987,;SNRPA1,synonymous_variant,p.%3D,ENST00000559309,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000558059,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000560433,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000560383,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000558036,;SNRPA1,upstream_gene_variant,,ENST00000560307,;	C	ENSG00000131876	ENST00000254193	Transcript	synonymous_variant	532	459	153	K	aaA/aaG	.	.	.	-1	SNRPA1	HGNC	11152	protein_coding	YES	CCDS10391.1	ENSP00000254193	RU2A_HUMAN	Q9UEN1_HUMAN,H0YLR3_HUMAN	UPI000006DD72	.	.	.	5/9	.	hmmpanther:PTHR10552,Pfam_domain:PF14580,Gene3D:3.80.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTACTTTTAG	.	5	BLCA
TM2D3	0	.	GRCh37	15	102182546	102182546	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*136G>A	.	.	ENST00000333202	6/6	16	11	5	19	19	0	TM2D3,3_prime_UTR_variant,,ENST00000347970,;TM2D3,3_prime_UTR_variant,,ENST00000561373,;TM2D3,3_prime_UTR_variant,,ENST00000333202,;TM2D3,intron_variant,,ENST00000558129,;TM2D3,intron_variant,,ENST00000428002,;TM2D3,intron_variant,,ENST00000559107,;TM2D3,3_prime_UTR_variant,,ENST00000560013,;TM2D3,non_coding_transcript_exon_variant,,ENST00000559891,;TM2D3,downstream_gene_variant,,ENST00000558677,;TM2D3,downstream_gene_variant,,ENST00000560910,;TM2D3,downstream_gene_variant,,ENST00000559024,;	T	ENSG00000184277	ENST00000333202	Transcript	3_prime_UTR_variant	886	.	.	.	.	.	.	.	-1	TM2D3	HGNC	24128	protein_coding	YES	CCDS10393.1	ENSP00000330433	TM2D3_HUMAN	B3KT51_HUMAN	UPI00001B02BE	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATCTTACC	.	5	BLCA
TUBGCP5	0	.	GRCh37	15	22845788	22845788	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649G>A	p.Glu217Lys	p.E217K	ENST00000283645	7/23	27	19	8	20	20	0	TUBGCP5,missense_variant,p.Glu217Lys,ENST00000283645,;TUBGCP5,missense_variant,p.Glu217Lys,ENST00000453949,;TUBGCP5,missense_variant,p.Glu129Lys,ENST00000558664,;TUBGCP5,upstream_gene_variant,,ENST00000559846,;	A	ENSG00000153575	ENST00000283645	Transcript	missense_variant	779	649	217	E/K	Gaa/Aaa	.	.	.	1	TUBGCP5	HGNC	18600	protein_coding	YES	CCDS10008.1	ENSP00000283645	GCP5_HUMAN	.	UPI000012B2EE	.	tolerated(0.12)	possibly_damaging(0.474)	7/23	.	hmmpanther:PTHR19302,hmmpanther:PTHR19302:SF33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTGGAACAT	.	5	BLCA
NIPA1	0	.	GRCh37	15	23048760	23048760	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*69G>A	.	.	ENST00000337435	5/5	31	25	6	49	49	0	NIPA1,3_prime_UTR_variant,,ENST00000538684,;NIPA1,3_prime_UTR_variant,,ENST00000561183,;NIPA1,3_prime_UTR_variant,,ENST00000337435,;NIPA1,3_prime_UTR_variant,,ENST00000437912,;NIPA1,3_prime_UTR_variant,,ENST00000559448,;NIPA1,downstream_gene_variant,,ENST00000560069,;NIPA1,downstream_gene_variant,,ENST00000557930,;	T	ENSG00000170113	ENST00000337435	Transcript	3_prime_UTR_variant	1084	.	.	.	.	.	.	.	-1	NIPA1	HGNC	17043	protein_coding	YES	CCDS10011.1	ENSP00000337452	NIPA1_HUMAN	Q3SYP4_HUMAN	UPI00001D9756	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TACTTCACATC	.	2	BLCA
UBE3A	0	.	GRCh37	15	25585264	25585264	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2475G>A	p.Met825Ile	p.M825I	ENST00000397954	10/11	52	40	11	88	88	0	UBE3A,missense_variant,p.Met802Ile,ENST00000566215,;UBE3A,missense_variant,p.Met825Ile,ENST00000397954,;UBE3A,missense_variant,p.Met802Ile,ENST00000438097,;UBE3A,missense_variant,p.Met802Ile,ENST00000428984,;UBE3A,missense_variant,p.Met822Ile,ENST00000232165,;SNHG14,intron_variant,,ENST00000554726,;SNHG14,downstream_gene_variant,,ENST00000452731,;	T	ENSG00000114062	ENST00000397954	Transcript	missense_variant	2475	2475	825	M/I	atG/atA	COSM3794037	.	.	-1	UBE3A	HGNC	12496	protein_coding	YES	CCDS45192.1	ENSP00000381045	UBE3A_HUMAN	Q9UBN9_HUMAN,Q9H2G0_HUMAN,Q96GR7_HUMAN	UPI0000161F3B	.	deleterious(0.01)	benign(0.309)	10/11	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF301,Pfam_domain:PF00632,SMART_domains:SM00119,PIRSF_domain:PIRSF037201,Superfamily_domains:SSF56204	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATCATCTT	.	5	BLCA
HERC2	0	.	GRCh37	15	28566523	28566523	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57G>A	p.%3D	p.L19L	ENST00000261609	2/93	46	35	11	84	84	0	HERC2,synonymous_variant,p.%3D,ENST00000261609,;HERC2,non_coding_transcript_exon_variant,,ENST00000563945,;HERC2,synonymous_variant,p.%3D,ENST00000564734,;	T	ENSG00000128731	ENST00000261609	Transcript	synonymous_variant	166	57	19	L	ttG/ttA	.	.	.	-1	HERC2	HGNC	4868	protein_coding	YES	CCDS10021.1	ENSP00000261609	HERC2_HUMAN	.	UPI00004578F7	.	.	.	2/93	.	hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|MUSE|VARSCANS	GTTTTCAACCA	.	3	BLCA
TJP1	0	.	GRCh37	15	30058731	30058731	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>A	p.%3D	p.K109K	ENST00000346128	5/28	49	37	11	64	64	0	TJP1,synonymous_variant,p.%3D,ENST00000356107,;TJP1,synonymous_variant,p.%3D,ENST00000558447,;TJP1,synonymous_variant,p.%3D,ENST00000400011,;TJP1,synonymous_variant,p.%3D,ENST00000495972,;TJP1,synonymous_variant,p.%3D,ENST00000346128,;TJP1,synonymous_variant,p.%3D,ENST00000545208,;	T	ENSG00000104067	ENST00000346128	Transcript	synonymous_variant	802	327	109	K	aaG/aaA	.	.	.	-1	TJP1	HGNC	11827	protein_coding	YES	CCDS42007.1	ENSP00000281537	ZO1_HUMAN	.	UPI000013DC83	.	.	.	5/28	.	PROSITE_profiles:PS50106,hmmpanther:PTHR13865,hmmpanther:PTHR13865:SF25,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTTCCT	.	5	BLCA
RASGRP1	0	.	GRCh37	15	38808494	38808494	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.579G>A	p.%3D	p.K193K	ENST00000310803	6/17	37	27	9	51	51	0	RASGRP1,synonymous_variant,p.%3D,ENST00000558164,;RASGRP1,synonymous_variant,p.%3D,ENST00000450598,;RASGRP1,synonymous_variant,p.%3D,ENST00000539159,;RASGRP1,synonymous_variant,p.%3D,ENST00000558432,;RASGRP1,synonymous_variant,p.%3D,ENST00000310803,;RASGRP1,synonymous_variant,p.%3D,ENST00000561180,;RASGRP1,synonymous_variant,p.%3D,ENST00000559830,;RASGRP1,downstream_gene_variant,,ENST00000558418,;RASGRP1,synonymous_variant,p.%3D,ENST00000414708,;RASGRP1,upstream_gene_variant,,ENST00000560425,;	T	ENSG00000172575	ENST00000310803	Transcript	synonymous_variant	757	579	193	K	aaG/aaA	.	.	.	-1	RASGRP1	HGNC	9878	protein_coding	YES	CCDS45222.1	ENSP00000310244	GRP1_HUMAN	H0YNG8_HUMAN,H0YN83_HUMAN,H0YKP8_HUMAN,F5H514_HUMAN	UPI000006FE1C	.	.	.	6/17	.	hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF174,Gene3D:2ii0A01,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTCTTGCT	.	5	BLCA
C15orf54	0	.	GRCh37	15	39544723	39544723	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387G>A	p.Trp129Ter	p.W129*	ENST00000318578	2/2	76	50	26	106	106	0	C15orf54,stop_gained,p.Trp129Ter,ENST00000318578,;C15orf54,stop_gained,p.Trp129Ter,ENST00000561223,;RP11-624L4.1,intron_variant,,ENST00000561058,;RP11-624L4.1,intron_variant,,ENST00000558209,;RP11-624L4.1,intron_variant,,ENST00000560484,;	A	ENSG00000175746	ENST00000318578	Transcript	stop_gained	755	387	129	W/*	tgG/tgA	.	.	.	1	C15orf54	HGNC	33797	protein_coding	YES	CCDS10049.1	ENSP00000323686	CO054_HUMAN	.	UPI00000717BB	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTGGAAGAA	.	5	BLCA
EIF2AK4	0	.	GRCh37	15	40322574	40322574	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4576C>T	p.His1526Tyr	p.H1526Y	ENST00000263791	35/39	21	16	5	24	24	0	EIF2AK4,missense_variant,p.His1304Tyr,ENST00000560855,;EIF2AK4,missense_variant,p.His1498Tyr,ENST00000382727,;EIF2AK4,missense_variant,p.His1526Tyr,ENST00000263791,;EIF2AK4,upstream_gene_variant,,ENST00000558823,;EIF2AK4,non_coding_transcript_exon_variant,,ENST00000558557,;EIF2AK4,non_coding_transcript_exon_variant,,ENST00000558629,;EIF2AK4,downstream_gene_variant,,ENST00000559032,;	T	ENSG00000128829	ENST00000263791	Transcript	missense_variant	4619	4576	1526	H/Y	Cat/Tat	.	.	.	1	EIF2AK4	HGNC	19687	protein_coding	YES	CCDS42016.1	ENSP00000263791	E2AK4_HUMAN	.	UPI0000160791	.	tolerated(0.12)	possibly_damaging(0.733)	35/39	.	Pfam_domain:PF12745,PIRSF_domain:PIRSF000660	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AAATCCATGGA	.	3	BLCA
C15orf52	0	.	GRCh37	15	40627559	40627559	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1405G>A	p.Glu469Lys	p.E469K	ENST00000559313	11/11	49	32	17	56	56	0	C15orf52,missense_variant,p.Glu259Lys,ENST00000397536,;C15orf52,missense_variant,p.Glu469Lys,ENST00000559313,;C15orf52,downstream_gene_variant,,ENST00000558858,;C15orf52,downstream_gene_variant,,ENST00000560922,;RNA5SP392,upstream_gene_variant,,ENST00000516905,;C15orf52,downstream_gene_variant,,ENST00000557973,;C15orf52,non_coding_transcript_exon_variant,,ENST00000382688,;C15orf52,downstream_gene_variant,,ENST00000558912,;	T	ENSG00000188549	ENST00000559313	Transcript	missense_variant	1421	1405	469	E/K	Gag/Aag	.	.	.	-1	C15orf52	HGNC	33488	protein_coding	YES	CCDS10055.2	ENSP00000453969	CO052_HUMAN	H0YM82_HUMAN,H0YK65_HUMAN	UPI00001C0AEA	.	tolerated(0.44)	benign(0.013)	11/11	.	hmmpanther:PTHR15635,hmmpanther:PTHR15635:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCAGCCT	.	5	BLCA
DISP2	0	.	GRCh37	15	40660944	40660944	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2631G>A	p.Met877Ile	p.M877I	ENST00000267889	8/8	31	22	9	50	50	0	DISP2,missense_variant,p.Met877Ile,ENST00000267889,;DISP2,upstream_gene_variant,,ENST00000558623,;LINC00594,upstream_gene_variant,,ENST00000561261,;RP11-64K12.4,downstream_gene_variant,,ENST00000558421,;DISP2,downstream_gene_variant,,ENST00000559721,;	A	ENSG00000140323	ENST00000267889	Transcript	missense_variant	2718	2631	877	M/I	atG/atA	.	.	.	1	DISP2	HGNC	19712	protein_coding	YES	CCDS10056.1	ENSP00000267889	DISP2_HUMAN	.	UPI0000160F9B	.	tolerated(0.57)	benign(0.037)	8/8	.	hmmpanther:PTHR10796:SF58,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGATGGC	.	5	BLCA
DNAJC17	0	.	GRCh37	15	41068784	41068784	+	Missense_Mutation	SNP	C	C	T	rs755263192	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>A	p.Glu113Lys	p.E113K	ENST00000220496	5/11	65	39	25	76	76	0	DNAJC17,missense_variant,p.Glu113Lys,ENST00000220496,;C15orf62,downstream_gene_variant,,ENST00000344320,;DNAJC17,downstream_gene_variant,,ENST00000561044,;DNAJC17,missense_variant,p.Glu113Lys,ENST00000559310,;DNAJC17,missense_variant,p.Glu113Lys,ENST00000561018,;DNAJC17,3_prime_UTR_variant,,ENST00000560645,;DNAJC17,3_prime_UTR_variant,,ENST00000559238,;DNAJC17,non_coding_transcript_exon_variant,,ENST00000560301,;DNAJC17,non_coding_transcript_exon_variant,,ENST00000558769,;DNAJC17,intron_variant,,ENST00000560065,;DNAJC17,upstream_gene_variant,,ENST00000561110,;	T	ENSG00000104129	ENST00000220496	Transcript	missense_variant	368	337	113	E/K	Gag/Aag	rs755263192	.	.	-1	DNAJC17	HGNC	25556	protein_coding	YES	CCDS10065.1	ENSP00000220496	DJC17_HUMAN	.	UPI00000375AE	.	tolerated(0.29)	benign(0.242)	5/11	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24078:SF153,hmmpanther:PTHR24078	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCACTCT	.	5	BLCA
RHOV	0	.	GRCh37	15	41165917	41165917	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.232C>T	p.Pro78Ser	p.P78S	ENST00000220507	2/3	76	55	20	106	106	0	RHOV,missense_variant,p.Pro78Ser,ENST00000220507,;AC025166.1,upstream_gene_variant,,ENST00000582049,;	A	ENSG00000104140	ENST00000220507	Transcript	missense_variant	382	232	78	P/S	Ccg/Tcg	.	.	.	-1	RHOV	HGNC	18313	protein_coding	YES	CCDS10068.1	ENSP00000220507	RHOV_HUMAN	.	UPI00000412A5	.	deleterious(0.01)	possibly_damaging(0.484)	2/3	.	Prints_domain:PR00449,Superfamily_domains:SSF52540,SMART_domains:SM00175,SMART_domains:SM00174,SMART_domains:SM00173,TIGRFAM_domain:TIGR00231,Pfam_domain:PF00071,Gene3D:3.40.50.300,hmmpanther:PTHR24072:SF144,hmmpanther:PTHR24072,PROSITE_profiles:PS51420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCGGAGCTC	.	5	BLCA
MAPKBP1	0	.	GRCh37	15	42067506	42067506	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33G>A	p.%3D	p.R11R	ENST00000456763	2/32	43	32	10	56	56	0	MAPKBP1,synonymous_variant,p.%3D,ENST00000457542,;MAPKBP1,synonymous_variant,p.%3D,ENST00000456763,;MAPKBP1,synonymous_variant,p.%3D,ENST00000221214,;MAPKBP1,synonymous_variant,p.%3D,ENST00000510535,;MAPKBP1,synonymous_variant,p.%3D,ENST00000514566,;MAPKBP1,5_prime_UTR_variant,,ENST00000260357,;RP11-107F6.3,upstream_gene_variant,,ENST00000562063,;RP11-107F6.3,upstream_gene_variant,,ENST00000607504,;MAPKBP1,upstream_gene_variant,,ENST00000507762,;MAPKBP1,synonymous_variant,p.%3D,ENST00000512970,;MAPKBP1,synonymous_variant,p.%3D,ENST00000505373,;MAPKBP1,non_coding_transcript_exon_variant,,ENST00000502292,;MAPKBP1,upstream_gene_variant,,ENST00000505061,;	A	ENSG00000137802	ENST00000456763	Transcript	synonymous_variant	229	33	11	R	cgG/cgA	.	.	.	1	MAPKBP1	HGNC	29536	protein_coding	YES	CCDS45239.1	ENSP00000393099	MABP1_HUMAN	D6R9F7_HUMAN	UPI00002375CB	.	.	.	2/32	.	hmmpanther:PTHR22847:SF326,hmmpanther:PTHR22847	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCGGATCAA	.	5	BLCA
SPTBN5	0	.	GRCh37	15	42173397	42173397	+	Silent	SNP	C	C	T	rs774839902	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2493G>A	p.%3D	p.L831L	ENST00000320955	13/68	43	33	9	64	64	0	SPTBN5,synonymous_variant,p.%3D,ENST00000320955,;	T	ENSG00000137877	ENST00000320955	Transcript	synonymous_variant	2721	2493	831	L	ctG/ctA	rs774839902	.	.	-1	SPTBN5	HGNC	15680	protein_coding	YES	CCDS61599.1	ENSP00000317790	SPTN5_HUMAN	.	UPI0000E59BE4	.	.	.	13/68	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF249,SMART_domains:SM00150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCAGGCT	.	5	BLCA
SPTBN5	0	.	GRCh37	15	42185583	42185583	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.113C>T	p.Ser38Phe	p.S38F	ENST00000320955	2/68	30	19	11	50	50	0	SPTBN5,missense_variant,p.Ser38Phe,ENST00000320955,;RP11-23P13.7,downstream_gene_variant,,ENST00000605942,;RP11-23P13.6,non_coding_transcript_exon_variant,,ENST00000309874,;RP11-23P13.6,intron_variant,,ENST00000564432,;RP11-23P13.6,upstream_gene_variant,,ENST00000562920,;RP11-23P13.6,upstream_gene_variant,,ENST00000568861,;	A	ENSG00000137877	ENST00000320955	Transcript	missense_variant	341	113	38	S/F	tCt/tTt	.	.	.	-1	SPTBN5	HGNC	15680	protein_coding	YES	CCDS61599.1	ENSP00000317790	SPTN5_HUMAN	.	UPI0000E59BE4	.	.	probably_damaging(0.986)	2/68	.	Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGAGAGTCC	.	5	BLCA
PLA2G4D	0	.	GRCh37	15	42361110	42361110	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2260G>C	p.Gly754Arg	p.G754R	ENST00000290472	20/20	9	6	3	23	23	0	PLA2G4D,missense_variant,p.Gly754Arg,ENST00000290472,;PLA2G4D,non_coding_transcript_exon_variant,,ENST00000560932,;	G	ENSG00000159337	ENST00000290472	Transcript	missense_variant	2355	2260	754	G/R	Ggt/Cgt	.	.	.	-1	PLA2G4D	HGNC	30038	protein_coding	YES	CCDS32203.1	ENSP00000290472	PA24D_HUMAN	.	UPI00001FE2F2	.	tolerated(0.31)	benign(0.008)	20/20	.	PROSITE_profiles:PS51210,hmmpanther:PTHR10728,hmmpanther:PTHR10728:SF25,Gene3D:3.40.1090.10,SMART_domains:SM00022,Superfamily_domains:SSF52151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCACCCTGGA	.	2	BLCA
CAPN3	0	.	GRCh37	15	42684901	42684901	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1010C>T	p.Ser337Phe	p.S337F	ENST00000397163	7/24	20	16	3	26	26	0	CAPN3,missense_variant,p.Ser337Phe,ENST00000397163,;CAPN3,missense_variant,p.Ser289Phe,ENST00000349748,;CAPN3,missense_variant,p.Ser250Phe,ENST00000356316,;CAPN3,missense_variant,p.Ser337Phe,ENST00000318023,;CAPN3,missense_variant,p.Ser337Phe,ENST00000357568,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000549793,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000466369,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000483208,;RP11-164J13.1,non_coding_transcript_exon_variant,,ENST00000495723,;	T	ENSG00000092529	ENST00000397163	Transcript	missense_variant	1229	1010	337	S/F	tCt/tTt	.	.	.	1	CAPN3	HGNC	1480	protein_coding	YES	CCDS45245.1	ENSP00000380349	CAN3_HUMAN	H3BS30_HUMAN	UPI000000103F	.	deleterious(0)	probably_damaging(0.998)	7/24	.	Superfamily_domains:SSF54001,SMART_domains:SM00230,Gene3D:3.90.70.10,Pfam_domain:PF00648,hmmpanther:PTHR10183:SF49,hmmpanther:PTHR10183,PROSITE_profiles:PS50203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTACTCTGTCA	.	4	BLCA
SPG11	0	.	GRCh37	15	44914075	44914075	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2502G>A	p.%3D	p.L834L	ENST00000261866	14/40	32	23	9	55	55	0	SPG11,synonymous_variant,p.%3D,ENST00000535302,;SPG11,synonymous_variant,p.%3D,ENST00000261866,;SPG11,synonymous_variant,p.%3D,ENST00000558319,;SPG11,synonymous_variant,p.%3D,ENST00000427534,;SPG11,downstream_gene_variant,,ENST00000559193,;SPG11,upstream_gene_variant,,ENST00000558989,;SPG11,upstream_gene_variant,,ENST00000560435,;	T	ENSG00000104133	ENST00000261866	Transcript	synonymous_variant	2519	2502	834	L	ctG/ctA	.	.	.	-1	SPG11	HGNC	11226	protein_coding	YES	CCDS10112.1	ENSP00000261866	SPTCS_HUMAN	H0YN96_HUMAN,C4B7M3_HUMAN	UPI0000456840	.	.	.	14/40	.	hmmpanther:PTHR13650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCAGGAA	.	5	BLCA
DUOX2	0	.	GRCh37	15	45404840	45404840	+	Silent	SNP	G	G	A	rs766784546	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237C>T	p.%3D	p.P79P	ENST00000603300	4/34	42	33	8	86	86	0	DUOX2,synonymous_variant,p.%3D,ENST00000603300,;DUOX2,synonymous_variant,p.%3D,ENST00000389039,;DUOXA2,upstream_gene_variant,,ENST00000323030,;DUOXA1,downstream_gene_variant,,ENST00000267803,;DUOXA1,downstream_gene_variant,,ENST00000559014,;DUOXA1,downstream_gene_variant,,ENST00000430224,;DUOXA1,downstream_gene_variant,,ENST00000558996,;DUOX2,non_coding_transcript_exon_variant,,ENST00000558383,;DUOXA2,upstream_gene_variant,,ENST00000350243,;DUOXA2,upstream_gene_variant,,ENST00000491993,;	A	ENSG00000140279	ENST00000603300	Transcript	synonymous_variant	440	237	79	P	ccC/ccT	rs766784546	.	.	-1	DUOX2	HGNC	13273	protein_coding	YES	CCDS10117.1	ENSP00000475084	DUOX2_HUMAN	S6B490_HUMAN	UPI000013D775	.	.	.	4/34	.	PROSITE_profiles:PS50292,Pfam_domain:PF03098,Superfamily_domains:SSF48113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTGGGCAG	.	5	BLCA
SHF	0	.	GRCh37	15	45460030	45460030	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*115C>T	.	.	ENST00000290894	8/8	13	8	5	13	13	0	SHF,3_prime_UTR_variant,,ENST00000560734,;SHF,3_prime_UTR_variant,,ENST00000318390,;SHF,3_prime_UTR_variant,,ENST00000560540,;SHF,3_prime_UTR_variant,,ENST00000458022,;SHF,3_prime_UTR_variant,,ENST00000290894,;SHF,downstream_gene_variant,,ENST00000558294,;SHF,downstream_gene_variant,,ENST00000559566,;DUOX1,downstream_gene_variant,,ENST00000389037,;DUOX1,downstream_gene_variant,,ENST00000561166,;SHF,downstream_gene_variant,,ENST00000558685,;SHF,downstream_gene_variant,,ENST00000561239,;DUOX1,downstream_gene_variant,,ENST00000321429,;SHF,downstream_gene_variant,,ENST00000560471,;CTD-2651B20.1,upstream_gene_variant,,ENST00000558039,;RP11-519G16.2,upstream_gene_variant,,ENST00000560034,;DUOX1,downstream_gene_variant,,ENST00000561220,;	A	ENSG00000138606	ENST00000290894	Transcript	3_prime_UTR_variant	1882	.	.	.	.	.	.	.	-1	SHF	HGNC	25116	protein_coding	YES	CCDS10120.2	ENSP00000290894	SHF_HUMAN	H0YNF2_HUMAN	UPI00001402D9	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGGATCCC	.	5	BLCA
SLC28A2	0	.	GRCh37	15	45555265	45555265	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269C>T	p.Ala90Val	p.A90V	ENST00000347644	5/18	41	27	14	56	56	0	SLC28A2,missense_variant,p.Ala78Val,ENST00000560438,;SLC28A2,missense_variant,p.Ala90Val,ENST00000347644,;CTD-2651B20.3,intron_variant,,ENST00000560344,;CTD-2651B20.3,intron_variant,,ENST00000561404,;SLC28A2,missense_variant,p.Ala3Val,ENST00000559924,;	T	ENSG00000137860	ENST00000347644	Transcript	missense_variant	334	269	90	A/V	gCt/gTt	.	.	.	1	SLC28A2	HGNC	11002	protein_coding	YES	CCDS10121.1	ENSP00000315006	S28A2_HUMAN	.	UPI000013D0D5	.	tolerated(0.3)	benign(0.424)	5/18	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10590,hmmpanther:PTHR10590:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATGCTGCCT	.	5	BLCA
FBN1	0	.	GRCh37	15	48756210	48756210	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4951G>A	p.Glu1651Lys	p.E1651K	ENST00000316623	41/66	21	11	10	31	31	0	FBN1,missense_variant,p.Glu1651Lys,ENST00000316623,;FBN1,missense_variant,p.Glu87Lys,ENST00000559133,;FBN1,3_prime_UTR_variant,,ENST00000537463,;	T	ENSG00000166147	ENST00000316623	Transcript	missense_variant	5407	4951	1651	E/K	Gaa/Aaa	.	.	.	-1	FBN1	HGNC	3603	protein_coding	YES	CCDS32232.1	ENSP00000325527	FBN1_HUMAN	Q75N89_HUMAN,Q75N88_HUMAN,H0YN80_HUMAN	UPI0000163B0B	.	.	probably_damaging(0.983)	41/66	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF22,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,PIRSF_domain:PIRSF036312,SMART_domains:SM00181,Superfamily_domains:SSF57196,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCATTCA	.	5	BLCA
SHC4	0	.	GRCh37	15	49148278	49148278	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1114C>T	p.His372Tyr	p.H372Y	ENST00000332408	8/12	63	46	17	98	98	0	SHC4,missense_variant,p.His372Tyr,ENST00000332408,;SHC4,missense_variant,p.His86Tyr,ENST00000537958,;SHC4,missense_variant,p.His86Tyr,ENST00000558220,;SHC4,missense_variant,p.His129Tyr,ENST00000396535,;SHC4,missense_variant,p.His86Tyr,ENST00000557797,;	A	ENSG00000185634	ENST00000332408	Transcript	missense_variant	1543	1114	372	H/Y	Cat/Tat	.	.	.	-1	SHC4	HGNC	16743	protein_coding	YES	CCDS10130.1	ENSP00000329668	SHC4_HUMAN	H0YLZ2_HUMAN,F5H5M1_HUMAN,B3KWT2_HUMAN,B3KWE9_HUMAN	UPI00001B00C8	.	deleterious(0.02)	benign(0.006)	8/12	.	hmmpanther:PTHR10337,hmmpanther:PTHR10337:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATGATCTT	.	5	BLCA
GABPB1	0	.	GRCh37	15	50581731	50581731	+	Missense_Mutation	SNP	T	T	C	rs375555413	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.868A>G	p.Thr290Ala	p.T290A	ENST00000220429	7/9	80	58	22	76	76	0	GABPB1,missense_variant,p.Thr277Ala,ENST00000560825,;GABPB1,missense_variant,p.Thr278Ala,ENST00000380877,;GABPB1,missense_variant,p.Thr290Ala,ENST00000429662,;GABPB1,missense_variant,p.Thr290Ala,ENST00000220429,;GABPB1,missense_variant,p.Thr214Ala,ENST00000543881,;GABPB1,missense_variant,p.Thr116Ala,ENST00000561010,;GABPB1,missense_variant,p.Thr278Ala,ENST00000359031,;GABPB1,missense_variant,p.Thr278Ala,ENST00000396464,;	C	ENSG00000104064	ENST00000220429	Transcript	missense_variant	1037	868	290	T/A	Acc/Gcc	rs375555413	.	.	-1	GABPB1	HGNC	4074	protein_coding	YES	CCDS32239.1	ENSP00000220429	GABP1_HUMAN	H0YNZ0_HUMAN,F5H7I4_HUMAN	UPI000012AFB3	.	tolerated(0.2)	benign(0.049)	7/9	.	hmmpanther:PTHR24193:SF0,hmmpanther:PTHR24193	.	.	.	.	.	.	.	C:0	C:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGGTTGGAA	.	5	BLCA
TRPM7	0	.	GRCh37	15	50916422	50916422	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1381A>T	p.Asn461Tyr	p.N461Y	ENST00000313478	12/39	79	53	26	85	85	0	TRPM7,missense_variant,p.Asn461Tyr,ENST00000560955,;TRPM7,missense_variant,p.Asn461Tyr,ENST00000313478,;TRPM7,upstream_gene_variant,,ENST00000560638,;	A	ENSG00000092439	ENST00000313478	Transcript	missense_variant	1663	1381	461	N/Y	Aat/Tat	.	.	.	-1	TRPM7	HGNC	17994	protein_coding	YES	CCDS42035.1	ENSP00000320239	TRPM7_HUMAN	.	UPI0000071CBA	.	tolerated(0.17)	probably_damaging(0.911)	12/39	.	hmmpanther:PTHR13800:SF8,hmmpanther:PTHR13800	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATTTTCAA	.	5	BLCA
GLDN	0	.	GRCh37	15	51634106	51634106	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225G>A	p.%3D	p.A75A	ENST00000335449	1/10	19	12	7	27	27	0	GLDN,synonymous_variant,p.%3D,ENST00000335449,;CYP19A1,upstream_gene_variant,,ENST00000396404,;CYP19A1,upstream_gene_variant,,ENST00000405011,;CYP19A1,upstream_gene_variant,,ENST00000453807,;CYP19A1,upstream_gene_variant,,ENST00000557858,;CYP19A1,upstream_gene_variant,,ENST00000396402,;CYP19A1,upstream_gene_variant,,ENST00000558328,;CYP19A1,upstream_gene_variant,,ENST00000561075,;CYP19A1,upstream_gene_variant,,ENST00000559980,;CYP19A1,upstream_gene_variant,,ENST00000492852,;GLDN,non_coding_transcript_exon_variant,,ENST00000560215,;GLDN,non_coding_transcript_exon_variant,,ENST00000558286,;CYP19A1,upstream_gene_variant,,ENST00000439712,;GLDN,upstream_gene_variant,,ENST00000560690,;CYP19A1,upstream_gene_variant,,ENST00000557934,;	A	ENSG00000186417	ENST00000335449	Transcript	synonymous_variant	281	225	75	A	gcG/gcA	.	.	.	1	GLDN	HGNC	29514	protein_coding	YES	CCDS10140.2	ENSP00000335196	GLDN_HUMAN	.	UPI000015FAA3	.	.	.	1/10	.	hmmpanther:PTHR23192,hmmpanther:PTHR23192:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCGCGCCGCG	.	5	BLCA
DMXL2	0	.	GRCh37	15	51787314	51787314	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4690G>A	p.Glu1564Lys	p.E1564K	ENST00000543779	19/43	51	28	22	67	67	0	DMXL2,missense_variant,p.Glu928Lys,ENST00000449909,;DMXL2,missense_variant,p.Glu1564Lys,ENST00000543779,;DMXL2,missense_variant,p.Glu1564Lys,ENST00000251076,;RP11-707P17.1,intron_variant,,ENST00000561007,;	T	ENSG00000104093	ENST00000543779	Transcript	missense_variant	4780	4690	1564	E/K	Gag/Aag	.	.	.	-1	DMXL2	HGNC	2938	protein_coding	YES	CCDS53946.1	ENSP00000441858	DMXL2_HUMAN	.	UPI00001FE4C2	.	deleterious(0)	probably_damaging(0.998)	19/43	.	Pfam_domain:PF12234,hmmpanther:PTHR13950:SF11,hmmpanther:PTHR13950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCATCTA	.	5	BLCA
DMXL2	0	.	GRCh37	15	51830605	51830605	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1150G>T	p.Gly384Ter	p.G384*	ENST00000543779	10/43	66	41	25	57	57	0	DMXL2,stop_gained,p.Gly384Ter,ENST00000449909,;DMXL2,stop_gained,p.Gly384Ter,ENST00000543779,;DMXL2,stop_gained,p.Gly384Ter,ENST00000251076,;	A	ENSG00000104093	ENST00000543779	Transcript	stop_gained	1240	1150	384	G/*	Gga/Tga	.	.	.	-1	DMXL2	HGNC	2938	protein_coding	YES	CCDS53946.1	ENSP00000441858	DMXL2_HUMAN	.	UPI00001FE4C2	.	.	.	10/43	.	hmmpanther:PTHR13950:SF11,hmmpanther:PTHR13950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTCCATCAT	.	5	BLCA
LYSMD2	0	.	GRCh37	15	52017042	52017042	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550G>C	p.Asp184His	p.D184H	ENST00000267838	2/3	47	34	12	70	70	0	LYSMD2,missense_variant,p.Asp77His,ENST00000558126,;LYSMD2,missense_variant,p.Asp93His,ENST00000454181,;LYSMD2,missense_variant,p.Asp93His,ENST00000560491,;LYSMD2,missense_variant,p.Asp184His,ENST00000267838,;SCG3,downstream_gene_variant,,ENST00000542355,;SCG3,downstream_gene_variant,,ENST00000220478,;	G	ENSG00000140280	ENST00000267838	Transcript	missense_variant	1065	550	184	D/H	Gac/Cac	.	.	.	-1	LYSMD2	HGNC	28571	protein_coding	YES	CCDS10143.1	ENSP00000267838	LYSM2_HUMAN	.	UPI000007469F	.	deleterious(0)	probably_damaging(1)	2/3	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR20932:SF4,hmmpanther:PTHR20932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGTCAAGTC	.	5	BLCA
RSL24D1	0	.	GRCh37	15	55489079	55489079	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10G>A	p.Glu4Lys	p.E4K	ENST00000260443	1/6	23	14	9	43	43	0	RSL24D1,missense_variant,p.Glu4Lys,ENST00000260443,;RSL24D1,upstream_gene_variant,,ENST00000569386,;RSL24D1,intron_variant,,ENST00000564344,;RSL24D1,upstream_gene_variant,,ENST00000565854,;RSL24D1,upstream_gene_variant,,ENST00000562895,;RSL24D1,missense_variant,p.Glu4Lys,ENST00000562993,;	T	ENSG00000137876	ENST00000260443	Transcript	missense_variant	187	10	4	E/K	Gaa/Aaa	.	.	.	-1	RSL24D1	HGNC	18479	protein_coding	YES	CCDS10152.1	ENSP00000260443	RLP24_HUMAN	.	UPI0000073C55	.	deleterious(0.01)	benign(0.091)	1/6	.	hmmpanther:PTHR10792:SF8,hmmpanther:PTHR10792,Pfam_domain:PF01246,Gene3D:2.30.170.20,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCGATAC	.	5	BLCA
PIGB	0	.	GRCh37	15	55642995	55642995	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1222C>T	p.Gln408Ter	p.Q408*	ENST00000164305	10/12	105	72	32	122	122	0	PIGB,stop_gained,p.Gln408Ter,ENST00000164305,;PIGB,stop_gained,p.Gln213Ter,ENST00000539642,;CCPG1,intron_variant,,ENST00000564663,;CCPG1,downstream_gene_variant,,ENST00000568543,;CCPG1,downstream_gene_variant,,ENST00000310958,;CCPG1,downstream_gene_variant,,ENST00000425574,;CCPG1,downstream_gene_variant,,ENST00000442196,;PIGB,non_coding_transcript_exon_variant,,ENST00000569823,;DYX1C1-CCPG1,downstream_gene_variant,,ENST00000565113,;CCPG1,upstream_gene_variant,,ENST00000563294,;PIGB,stop_gained,p.Gln79Ter,ENST00000565502,;PIGB,3_prime_UTR_variant,,ENST00000565367,;PIGB,non_coding_transcript_exon_variant,,ENST00000563742,;PIGB,non_coding_transcript_exon_variant,,ENST00000565402,;PIGB,upstream_gene_variant,,ENST00000562751,;	T	ENSG00000069943	ENST00000164305	Transcript	stop_gained	1513	1222	408	Q/*	Caa/Taa	.	.	.	1	PIGB	HGNC	8959	protein_coding	YES	CCDS61641.1	ENSP00000164305	PIGB_HUMAN	F5H1S1_HUMAN	UPI0000072A05	.	.	.	10/12	.	Pfam_domain:PF03901,hmmpanther:PTHR22760:SF4,hmmpanther:PTHR22760	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCAACGA	.	5	BLCA
PRTG	0	.	GRCh37	15	55964750	55964750	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1934C>T	p.Thr645Ile	p.T645I	ENST00000389286	11/20	32	22	10	40	40	0	PRTG,missense_variant,p.Thr645Ile,ENST00000389286,;PRTG,missense_variant,p.Thr180Ile,ENST00000561465,;	A	ENSG00000166450	ENST00000389286	Transcript	missense_variant	1982	1934	645	T/I	aCa/aTa	COSM314505	.	.	-1	PRTG	HGNC	26373	protein_coding	YES	CCDS42040.1	ENSP00000373937	PRTG_HUMAN	H0YKD6_HUMAN	UPI00001555A7	.	tolerated(0.15)	benign(0.148)	11/20	.	Prints_domain:PR00014,Superfamily_domains:SSF49265,SMART_domains:SM00060,Gene3D:2.60.40.10,Pfam_domain:PF00041,hmmpanther:PTHR10489:SF20,hmmpanther:PTHR10489,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGTGTCC	.	5	BLCA
SLTM	0	.	GRCh37	15	59175842	59175842	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2979G>A	p.Met993Ile	p.M993I	ENST00000380516	20/21	129	84	44	180	180	0	SLTM,missense_variant,p.Met559Ile,ENST00000432750,;SLTM,missense_variant,p.Met993Ile,ENST00000380516,;SLTM,missense_variant,p.Met59Ile,ENST00000560494,;SLTM,missense_variant,p.Met562Ile,ENST00000536328,;RNF111,intron_variant,,ENST00000559757,;SLTM,downstream_gene_variant,,ENST00000557791,;SLTM,3_prime_UTR_variant,,ENST00000492526,;SLTM,3_prime_UTR_variant,,ENST00000557924,;SLTM,non_coding_transcript_exon_variant,,ENST00000558052,;SLTM,non_coding_transcript_exon_variant,,ENST00000493062,;SLTM,downstream_gene_variant,,ENST00000560695,;	T	ENSG00000137776	ENST00000380516	Transcript	missense_variant	3067	2979	993	M/I	atG/atA	.	.	.	-1	SLTM	HGNC	20709	protein_coding	YES	CCDS10168.2	ENSP00000369887	SLTM_HUMAN	H0YKH2_HUMAN,A8K5V8_HUMAN	UPI0000039EA4	.	tolerated(0.08)	benign(0.168)	20/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15683,hmmpanther:PTHR15683:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTATCATGCC	.	5	BLCA
MYO1E	0	.	GRCh37	15	59445812	59445812	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3057G>T	p.Lys1019Asn	p.K1019N	ENST00000288235	26/28	42	28	13	57	57	0	MYO1E,missense_variant,p.Lys10Asn,ENST00000559412,;MYO1E,missense_variant,p.Lys1019Asn,ENST00000288235,;AC092757.1,upstream_gene_variant,,ENST00000408169,;	A	ENSG00000157483	ENST00000288235	Transcript	missense_variant	3457	3057	1019	K/N	aaG/aaT	.	.	.	-1	MYO1E	HGNC	7599	protein_coding	YES	CCDS32254.1	ENSP00000288235	MYO1E_HUMAN	Q4KMR3_HUMAN	UPI00001FE590	.	tolerated(1)	benign(0.001)	26/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGACCTTGAG	.	5	BLCA
NARG2	0	.	GRCh37	15	60715874	60715874	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2908G>A	p.Glu970Lys	p.E970K	ENST00000261520	16/16	27	14	13	48	48	0	NARG2,missense_variant,p.Glu970Lys,ENST00000261520,;NARG2,missense_variant,p.Glu833Lys,ENST00000439632,;NARG2,non_coding_transcript_exon_variant,,ENST00000561124,;NARG2,3_prime_UTR_variant,,ENST00000558181,;NARG2,non_coding_transcript_exon_variant,,ENST00000558121,;	T	ENSG00000128915	ENST00000261520	Transcript	missense_variant	3143	2908	970	E/K	Gaa/Aaa	.	.	.	-1	NARG2	HGNC	29885	protein_coding	YES	CCDS10176.1	ENSP00000261520	NARG2_HUMAN	H0YMX6_HUMAN,H0YL35_HUMAN,H0YK97_HUMAN,H0YK14_HUMAN,G3V0H6_HUMAN,B3KXT2_HUMAN	UPI00001A828C	.	tolerated(0.39)	possibly_damaging(0.471)	16/16	.	hmmpanther:PTHR14633:SF3,hmmpanther:PTHR14633	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCAACTT	.	5	BLCA
HERC1	0	.	GRCh37	15	63956777	63956777	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8572C>T	p.His2858Tyr	p.H2858Y	ENST00000443617	43/78	27	18	9	36	36	0	HERC1,missense_variant,p.His2858Tyr,ENST00000443617,;	A	ENSG00000103657	ENST00000443617	Transcript	missense_variant	8660	8572	2858	H/Y	Cat/Tat	.	.	.	-1	HERC1	HGNC	4867	protein_coding	YES	CCDS45277.1	ENSP00000390158	HERC1_HUMAN	H0YL74_HUMAN,H0YL07_HUMAN,H0YKW7_HUMAN	UPI0000212760	.	.	benign(0.263)	43/78	.	hmmpanther:PTHR22870:SF156,hmmpanther:PTHR22870	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTATGATCCA	.	2	BLCA
SNX22	0	.	GRCh37	15	64446161	64446161	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420G>A	p.%3D	p.L140L	ENST00000325881	6/7	86	55	30	114	114	0	SNX22,synonymous_variant,p.%3D,ENST00000325881,;PPIB,downstream_gene_variant,,ENST00000300026,;PPIB,downstream_gene_variant,,ENST00000558492,;SNX22,3_prime_UTR_variant,,ENST00000558466,;SNX22,non_coding_transcript_exon_variant,,ENST00000560945,;SNX22,non_coding_transcript_exon_variant,,ENST00000560607,;SNX22,non_coding_transcript_exon_variant,,ENST00000561334,;SNX22,non_coding_transcript_exon_variant,,ENST00000557789,;SNX22,non_coding_transcript_exon_variant,,ENST00000560997,;	A	ENSG00000157734	ENST00000325881	Transcript	synonymous_variant	479	420	140	L	ctG/ctA	.	.	.	1	SNX22	HGNC	16315	protein_coding	YES	CCDS10190.1	ENSP00000323435	SNX22_HUMAN	Q8WUS9_HUMAN	UPI0000135B52	.	.	.	6/7	.	hmmpanther:PTHR15813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGAGCTT	.	5	BLCA
DENND4A	0	.	GRCh37	15	66030256	66030256	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.829G>A	p.Glu277Lys	p.E277K	ENST00000443035	7/33	15	7	8	14	14	0	DENND4A,missense_variant,p.Glu277Lys,ENST00000564674,;DENND4A,missense_variant,p.Glu277Lys,ENST00000443035,;DENND4A,missense_variant,p.Glu277Lys,ENST00000431932,;RAB11A,intron_variant,,ENST00000569304,;DENND4A,non_coding_transcript_exon_variant,,ENST00000568515,;	T	ENSG00000174485	ENST00000443035	Transcript	missense_variant	1045	829	277	E/K	Gaa/Aaa	.	.	.	-1	DENND4A	HGNC	24321	protein_coding	YES	CCDS53949.1	ENSP00000391167	MYCPP_HUMAN	.	UPI000013EDF7	.	deleterious(0)	probably_damaging(0.929)	7/33	.	hmmpanther:PTHR12296:SF16,hmmpanther:PTHR12296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCATAAA	.	5	BLCA
RAB11A	0	.	GRCh37	15	66161948	66161948	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25G>A	p.Asp9Asn	p.D9N	ENST00000261890	1/5	64	51	13	75	75	0	RAB11A,missense_variant,p.Asp9Asn,ENST00000261890,;RAB11A,missense_variant,p.Asp9Asn,ENST00000564910,;RAB11A,missense_variant,p.Asp9Asn,ENST00000435304,;RAB11A,missense_variant,p.Asp9Asn,ENST00000565075,;RAB11A,missense_variant,p.Asp9Asn,ENST00000566233,;RAB11A,missense_variant,p.Asp9Asn,ENST00000569896,;RAB11A,upstream_gene_variant,,ENST00000567671,;RAB11A,intron_variant,,ENST00000569304,;RAB11A,intron_variant,,ENST00000568850,;	A	ENSG00000103769	ENST00000261890	Transcript	missense_variant	153	25	9	D/N	Gac/Aac	.	.	.	1	RAB11A	HGNC	9760	protein_coding	YES	CCDS10212.1	ENSP00000261890	RB11A_HUMAN	H3BN38_HUMAN	UPI0000029ED1	.	tolerated_low_confidence(0.07)	benign(0.392)	1/5	.	PROSITE_profiles:PS51419,hmmpanther:PTHR24073:SF313,hmmpanther:PTHR24073,Gene3D:3.40.50.300,SMART_domains:SM00173,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTACGACTAC	.	5	BLCA
SMAD3	0	.	GRCh37	15	67457304	67457304	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278G>A	p.Arg93Gln	p.R93Q	ENST00000327367	2/9	94	58	36	117	117	0	SMAD3,missense_variant,p.Asp75Asn,ENST00000559092,;SMAD3,missense_variant,p.Arg93Gln,ENST00000327367,;SMAD3,missense_variant,p.Arg49Gln,ENST00000439724,;SMAD3,5_prime_UTR_variant,,ENST00000558739,;SMAD3,5_prime_UTR_variant,,ENST00000558894,;SMAD3,5_prime_UTR_variant,,ENST00000540846,;SMAD3,5_prime_UTR_variant,,ENST00000559460,;SMAD3,5_prime_UTR_variant,,ENST00000560175,;SMAD3,upstream_gene_variant,,ENST00000558428,;SMAD3,upstream_gene_variant,,ENST00000558827,;SMAD3,upstream_gene_variant,,ENST00000537194,;SMAD3,non_coding_transcript_exon_variant,,ENST00000559937,;	A	ENSG00000166949	ENST00000327367	Transcript	missense_variant	588	278	93	R/Q	cGa/cAa	COSM434193,COSM1478300	.	.	1	SMAD3	HGNC	6769	protein_coding	YES	CCDS10222.1	ENSP00000332973	SMAD3_HUMAN	Q68DS8_HUMAN,H3BP09_HUMAN,H0YNV1_HUMAN,H0YMP2_HUMAN,H0YL71_HUMAN,H0YKE2_HUMAN	UPI0000023A91	.	deleterious(0)	probably_damaging(0.974)	2/9	.	Superfamily_domains:0040928,SMART_domains:SM00523,Gene3D:1ozjA00,Pfam_domain:PF03165,hmmpanther:PTHR13703:SF25,hmmpanther:PTHR13703,PROSITE_profiles:PS51075	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGCGATGGC	.	5	BLCA
SKOR1	0	.	GRCh37	15	68118604	68118604	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.996C>T	p.%3D	p.I332I	ENST00000341418	5/15	56	39	17	67	67	0	SKOR1,synonymous_variant,p.%3D,ENST00000554054,;SKOR1,synonymous_variant,p.%3D,ENST00000380035,;SKOR1,synonymous_variant,p.%3D,ENST00000389002,;SKOR1,synonymous_variant,p.%3D,ENST00000554240,;SKOR1,synonymous_variant,p.%3D,ENST00000341418,;	T	ENSG00000188779	ENST00000341418	Transcript	synonymous_variant	996	996	332	I	atC/atT	.	.	.	1	SKOR1	HGNC	21326	protein_coding	YES	CCDS58374.1	ENSP00000343200	SKOR1_HUMAN	.	UPI00001987EE	.	.	.	5/15	.	hmmpanther:PTHR10005,hmmpanther:PTHR10005:SF8,Pfam_domain:PF02437,Gene3D:3.10.260.20,Superfamily_domains:SSF46955	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCTCGTC	.	5	BLCA
CLN6	0	.	GRCh37	15	68504028	68504028	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.471C>T	p.%3D	p.L157L	ENST00000249806	4/7	101	72	29	146	146	0	CLN6,synonymous_variant,p.%3D,ENST00000538696,;CLN6,synonymous_variant,p.%3D,ENST00000564752,;CLN6,synonymous_variant,p.%3D,ENST00000249806,;CLN6,intron_variant,,ENST00000565471,;RP11-315D16.2,intron_variant,,ENST00000562767,;CLN6,intron_variant,,ENST00000566347,;CLN6,intron_variant,,ENST00000418702,;CLN6,non_coding_transcript_exon_variant,,ENST00000563917,;CLN6,intron_variant,,ENST00000567060,;CLN6,downstream_gene_variant,,ENST00000564846,;	A	ENSG00000128973	ENST00000249806	Transcript	synonymous_variant	629	471	157	L	ctC/ctT	.	.	.	-1	CLN6	HGNC	2077	protein_coding	YES	CCDS10227.1	ENSP00000249806	CLN6_HUMAN	.	UPI000006D91F	.	.	.	4/7	.	hmmpanther:PTHR16244,Pfam_domain:PF15156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTGAGATT	.	5	BLCA
ANP32A	0	.	GRCh37	15	69080151	69080151	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162C>T	p.%3D	p.L54L	ENST00000465139	2/7	88	66	22	125	125	0	ANP32A,synonymous_variant,p.%3D,ENST00000560303,;ANP32A,synonymous_variant,p.%3D,ENST00000465139,;ANP32A,non_coding_transcript_exon_variant,,ENST00000495764,;ANP32A,non_coding_transcript_exon_variant,,ENST00000267918,;ANP32A,non_coding_transcript_exon_variant,,ENST00000483551,;ANP32A,synonymous_variant,p.%3D,ENST00000409628,;ANP32A,non_coding_transcript_exon_variant,,ENST00000561430,;ANP32A,non_coding_transcript_exon_variant,,ENST00000495420,;ANP32A,upstream_gene_variant,,ENST00000480858,;	A	ENSG00000140350	ENST00000465139	Transcript	synonymous_variant	306	162	54	L	ctC/ctT	.	.	.	-1	ANP32A	HGNC	13233	protein_coding	YES	CCDS45292.1	ENSP00000417864	AN32A_HUMAN	Q08AJ6_HUMAN	UPI0000125027	.	.	.	2/7	.	PROSITE_profiles:PS51450,hmmpanther:PTHR11375:SF1,hmmpanther:PTHR11375,Pfam_domain:PF14580,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTGAGGCC	.	5	BLCA
KIF23	0	.	GRCh37	15	69737138	69737138	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2389C>T	p.Gln797Ter	p.Q797*	ENST00000260363	19/23	72	50	21	97	97	0	KIF23,stop_gained,p.Gln797Ter,ENST00000260363,;KIF23,stop_gained,p.Gln510Ter,ENST00000537891,;KIF23,stop_gained,p.Gln510Ter,ENST00000558585,;KIF23,stop_gained,p.Gln693Ter,ENST00000352331,;KIF23,stop_gained,p.Gln693Ter,ENST00000559279,;KIF23,intron_variant,,ENST00000395392,;KIF23,non_coding_transcript_exon_variant,,ENST00000560125,;KIF23,non_coding_transcript_exon_variant,,ENST00000558303,;KIF23,intron_variant,,ENST00000561089,;KIF23,upstream_gene_variant,,ENST00000559944,;	T	ENSG00000137807	ENST00000260363	Transcript	stop_gained	2506	2389	797	Q/*	Caa/Taa	.	.	.	1	KIF23	HGNC	6392	protein_coding	YES	CCDS32278.1	ENSP00000260363	KIF23_HUMAN	.	UPI0000072141	.	.	.	19/23	.	hmmpanther:PTHR24115:SF88,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAACCT	.	4	BLCA
UACA	0	.	GRCh37	15	70959768	70959768	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3255G>A	p.%3D	p.V1085V	ENST00000322954	16/19	86	55	30	109	109	0	UACA,synonymous_variant,p.%3D,ENST00000379983,;UACA,synonymous_variant,p.%3D,ENST00000539319,;UACA,synonymous_variant,p.%3D,ENST00000322954,;UACA,synonymous_variant,p.%3D,ENST00000560441,;UACA,downstream_gene_variant,,ENST00000558758,;UACA,upstream_gene_variant,,ENST00000560831,;UACA,downstream_gene_variant,,ENST00000558308,;UACA,downstream_gene_variant,,ENST00000559290,;UACA,downstream_gene_variant,,ENST00000560523,;	T	ENSG00000137831	ENST00000322954	Transcript	synonymous_variant	3441	3255	1085	V	gtG/gtA	.	.	.	-1	UACA	HGNC	15947	protein_coding	YES	CCDS10235.1	ENSP00000314556	UACA_HUMAN	.	UPI000006DCF3	.	.	.	16/19	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24196,hmmpanther:PTHR24196:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCACATT	.	5	BLCA
MYO9A	0	.	GRCh37	15	72180354	72180354	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5246C>T	p.Ser1749Leu	p.S1749L	ENST00000356056	27/42	59	43	16	73	73	0	MYO9A,missense_variant,p.Ser599Leu,ENST00000561618,;MYO9A,missense_variant,p.Ser1749Leu,ENST00000356056,;MYO9A,missense_variant,p.Ser1730Leu,ENST00000444904,;MYO9A,missense_variant,p.Ser1820Leu,ENST00000424560,;MYO9A,missense_variant,p.Ser1749Leu,ENST00000564571,;MYO9A,downstream_gene_variant,,ENST00000563542,;MYO9A,non_coding_transcript_exon_variant,,ENST00000563071,;	A	ENSG00000066933	ENST00000356056	Transcript	missense_variant	5719	5246	1749	S/L	tCa/tTa	.	.	.	-1	MYO9A	HGNC	7608	protein_coding	YES	CCDS10239.1	ENSP00000348349	MYO9A_HUMAN	H3BSU8_HUMAN,H3BMS3_HUMAN	UPI000013D213	.	tolerated(0.33)	benign(0.002)	27/42	.	hmmpanther:PTHR13140:SF9,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTGAATCT	.	5	BLCA
MYO9A	0	.	GRCh37	15	72193624	72193624	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3058C>T	p.Leu1020Phe	p.L1020F	ENST00000356056	23/42	32	19	13	43	43	0	MYO9A,missense_variant,p.Leu1020Phe,ENST00000424560,;MYO9A,missense_variant,p.Leu1020Phe,ENST00000564571,;MYO9A,missense_variant,p.Leu640Phe,ENST00000566885,;MYO9A,missense_variant,p.Leu1020Phe,ENST00000356056,;MYO9A,missense_variant,p.Leu1001Phe,ENST00000444904,;MYO9A,upstream_gene_variant,,ENST00000561618,;MYO9A,non_coding_transcript_exon_variant,,ENST00000563542,;MYO9A,downstream_gene_variant,,ENST00000566744,;MYO9A,upstream_gene_variant,,ENST00000568781,;	A	ENSG00000066933	ENST00000356056	Transcript	missense_variant	3531	3058	1020	L/F	Ctc/Ttc	.	.	.	-1	MYO9A	HGNC	7608	protein_coding	YES	CCDS10239.1	ENSP00000348349	MYO9A_HUMAN	H3BSU8_HUMAN,H3BMS3_HUMAN	UPI000013D213	.	deleterious(0)	probably_damaging(0.986)	23/42	.	hmmpanther:PTHR13140:SF9,hmmpanther:PTHR13140,SMART_domains:SM00015,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGAGCACCT	.	5	BLCA
HEXA	0	.	GRCh37	15	72643403	72643403	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.672+71G>A	.	.	ENST00000268097	.	16	12	4	14	14	0	HEXA,intron_variant,,ENST00000566304,;HEXA,intron_variant,,ENST00000268097,;HEXA,intron_variant,,ENST00000429918,;HEXA,intron_variant,,ENST00000567159,;HEXA,intron_variant,,ENST00000457859,;RP11-106M3.3,non_coding_transcript_exon_variant,,ENST00000570175,;HEXA,intron_variant,,ENST00000569509,;RP11-106M3.2,intron_variant,,ENST00000379915,;HEXA,intron_variant,,ENST00000563762,;HEXA,intron_variant,,ENST00000566672,;HEXA,intron_variant,,ENST00000568777,;HEXA,intron_variant,,ENST00000567411,;HEXA,intron_variant,,ENST00000567027,;HEXA,intron_variant,,ENST00000569410,;HEXA,downstream_gene_variant,,ENST00000563908,;HEXA,downstream_gene_variant,,ENST00000568260,;	T	ENSG00000213614	ENST00000268097	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	HEXA	HGNC	4878	protein_coding	YES	CCDS10243.1	ENSP00000268097	HEXA_HUMAN	H3BS10_HUMAN,G3XL83_HUMAN	UPI000013D798	.	.	.	.	6/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGTTCTTGCC	.	4	BLCA
NEO1	0	.	GRCh37	15	73428253	73428253	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900G>A	p.%3D	p.L300L	ENST00000339362	6/30	32	18	14	47	47	0	NEO1,synonymous_variant,p.%3D,ENST00000261908,;NEO1,synonymous_variant,p.%3D,ENST00000558964,;NEO1,synonymous_variant,p.%3D,ENST00000339362,;NEO1,synonymous_variant,p.%3D,ENST00000560262,;NEO1,upstream_gene_variant,,ENST00000560328,;	A	ENSG00000067141	ENST00000339362	Transcript	synonymous_variant	1347	900	300	L	ctG/ctA	.	.	.	1	NEO1	HGNC	7754	protein_coding	YES	CCDS10247.1	ENSP00000341198	NEO1_HUMAN	.	UPI000013D221	.	.	.	6/30	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF55,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGGCAGG	.	5	BLCA
CCDC33	0	.	GRCh37	15	74536335	74536335	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.31G>A	p.Asp11Asn	p.D11N	ENST00000398814	2/19	53	33	19	78	78	0	CCDC33,missense_variant,p.Asp11Asn,ENST00000398814,;CCDC33,intron_variant,,ENST00000321288,;	A	ENSG00000140481	ENST00000398814	Transcript	missense_variant	462	31	11	D/N	Gac/Aac	.	.	.	1	CCDC33	HGNC	26552	protein_coding	YES	CCDS42058.1	ENSP00000381795	CCD33_HUMAN	.	UPI0000E671FE	.	tolerated(0.83)	benign(0)	2/19	.	hmmpanther:PTHR21623,hmmpanther:PTHR21623:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGACCCA	.	5	BLCA
CCDC33	0	.	GRCh37	15	74573083	74573083	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.964C>T	p.Gln322Ter	p.Q322*	ENST00000398814	9/19	38	30	8	58	58	0	CCDC33,stop_gained,p.Gln525Ter,ENST00000321288,;CCDC33,stop_gained,p.Gln203Ter,ENST00000558659,;CCDC33,stop_gained,p.Gln322Ter,ENST00000398814,;	T	ENSG00000140481	ENST00000398814	Transcript	stop_gained	1395	964	322	Q/*	Cag/Tag	.	.	.	1	CCDC33	HGNC	26552	protein_coding	YES	CCDS42058.1	ENSP00000381795	CCD33_HUMAN	.	UPI0000E671FE	.	.	.	9/19	.	hmmpanther:PTHR21623,hmmpanther:PTHR21623:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTACCAGAAG	.	5	BLCA
SEMA7A	0	.	GRCh37	15	74703302	74703302	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1664C>T	p.Ser555Phe	p.S555F	ENST00000261918	14/14	65	53	11	103	103	0	SEMA7A,missense_variant,p.Ser555Phe,ENST00000261918,;SEMA7A,missense_variant,p.Ser390Phe,ENST00000542748,;SEMA7A,missense_variant,p.Ser541Phe,ENST00000543145,;SEMA7A,downstream_gene_variant,,ENST00000569617,;	A	ENSG00000138623	ENST00000261918	Transcript	missense_variant	2213	1664	555	S/F	tCc/tTc	.	.	.	-1	SEMA7A	HGNC	10741	protein_coding	YES	CCDS10262.1	ENSP00000261918	SEM7A_HUMAN	H3BMF9_HUMAN,F5GYX3_HUMAN,B3KMH6_HUMAN	UPI00000312F0	.	deleterious(0)	benign(0.407)	14/14	.	PROSITE_profiles:PS50835,hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF67,Gene3D:2.60.40.10,Pfam_domain:PF13895,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGGGAAACC	.	5	BLCA
PPCDC	0	.	GRCh37	15	75335847	75335847	+	Silent	SNP	C	C	T	rs769528026	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201C>T	p.%3D	p.V67V	ENST00000342932	3/6	15	6	8	24	24	0	PPCDC,synonymous_variant,p.%3D,ENST00000342932,;PPCDC,synonymous_variant,p.%3D,ENST00000568649,;PPCDC,5_prime_UTR_variant,,ENST00000563393,;PPCDC,5_prime_UTR_variant,,ENST00000569562,;PPCDC,intron_variant,,ENST00000567336,;PPCDC,intron_variant,,ENST00000564923,;PPCDC,downstream_gene_variant,,ENST00000562095,;PPCDC,non_coding_transcript_exon_variant,,ENST00000568207,;PPCDC,non_coding_transcript_exon_variant,,ENST00000562192,;PPCDC,non_coding_transcript_exon_variant,,ENST00000564953,;	T	ENSG00000138621	ENST00000342932	Transcript	synonymous_variant	345	201	67	V	gtC/gtT	rs769528026	.	.	1	PPCDC	HGNC	28107	protein_coding	YES	CCDS10275.1	ENSP00000343190	COAC_HUMAN	H3BU63_HUMAN,H3BU34_HUMAN,H3BPW5_HUMAN	UPI000013D223	.	.	.	3/6	.	hmmpanther:PTHR14359,Gene3D:3.40.50.1950,Pfam_domain:PF02441,Superfamily_domains:SSF52507	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGTCACCCT	byFrequency	5	BLCA
SIN3A	0	.	GRCh37	15	75702225	75702225	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1269T>A	p.Asn423Lys	p.N423K	ENST00000394947	8/21	88	68	19	112	112	0	SIN3A,missense_variant,p.Asn423Lys,ENST00000394949,;SIN3A,missense_variant,p.Asn423Lys,ENST00000394947,;SIN3A,missense_variant,p.Asn423Lys,ENST00000360439,;SIN3A,downstream_gene_variant,,ENST00000568431,;SIN3A,downstream_gene_variant,,ENST00000564778,;SIN3A,downstream_gene_variant,,ENST00000562776,;	T	ENSG00000169375	ENST00000394947	Transcript	missense_variant	1584	1269	423	N/K	aaT/aaA	.	.	.	-1	SIN3A	HGNC	19353	protein_coding	YES	CCDS10279.1	ENSP00000378402	SIN3A_HUMAN	H3BT34_HUMAN,H3BQ88_HUMAN,H3BQ76_HUMAN,H3BP90_HUMAN,H3BNZ3_HUMAN,H3BNA0_HUMAN	UPI000013EAD4	.	tolerated(0.25)	benign(0.056)	8/21	.	hmmpanther:PTHR12346,hmmpanther:PTHR12346:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCCATTCTG	.	5	BLCA
SNX33	0	.	GRCh37	15	75941612	75941612	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169G>A	p.Glu57Lys	p.E57K	ENST00000308527	1/2	41	28	13	66	66	0	SNX33,missense_variant,p.Glu57Lys,ENST00000308527,;SNX33,upstream_gene_variant,,ENST00000569152,;IMP3,upstream_gene_variant,,ENST00000314852,;IMP3,upstream_gene_variant,,ENST00000565349,;	A	ENSG00000173548	ENST00000308527	Transcript	missense_variant	1366	169	57	E/K	Gag/Aag	.	.	.	1	SNX33	HGNC	28468	protein_coding	YES	CCDS10283.1	ENSP00000311427	SNX33_HUMAN	.	UPI0000073AC2	.	deleterious(0.01)	benign(0.055)	1/2	.	Superfamily_domains:SSF50044,PIRSF_domain:PIRSF027744,SMART_domains:SM00326,Pfam_domain:PF14604,Gene3D:2.30.30.40,hmmpanther:PTHR10555:SF121,hmmpanther:PTHR10555,PROSITE_profiles:PS50002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTGGAGATC	.	5	BLCA
SNX33	0	.	GRCh37	15	75941899	75941899	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.456C>A	p.%3D	p.P152P	ENST00000308527	1/2	44	29	15	42	42	0	SNX33,synonymous_variant,p.%3D,ENST00000308527,;SNX33,upstream_gene_variant,,ENST00000569152,;IMP3,upstream_gene_variant,,ENST00000314852,;IMP3,upstream_gene_variant,,ENST00000565349,;	A	ENSG00000173548	ENST00000308527	Transcript	synonymous_variant	1653	456	152	P	ccC/ccA	.	.	.	1	SNX33	HGNC	28468	protein_coding	YES	CCDS10283.1	ENSP00000311427	SNX33_HUMAN	.	UPI0000073AC2	.	.	.	1/2	.	PIRSF_domain:PIRSF027744,hmmpanther:PTHR10555:SF121,hmmpanther:PTHR10555	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCCCAGCCA	.	5	BLCA
FBXO22	0	.	GRCh37	15	76196962	76196962	+	Missense_Mutation	SNP	G	G	A	rs750180280	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>A	p.Glu91Lys	p.E91K	ENST00000308275	2/7	52	39	13	49	49	0	FBXO22,missense_variant,p.Glu91Lys,ENST00000308275,;FBXO22,missense_variant,p.Glu91Lys,ENST00000453211,;FBXO22,missense_variant,p.Glu85Lys,ENST00000565036,;FBXO22,5_prime_UTR_variant,,ENST00000569054,;FBXO22,intron_variant,,ENST00000540507,;UBE2Q2,downstream_gene_variant,,ENST00000561851,;UBE2Q2,downstream_gene_variant,,ENST00000569423,;UBE2Q2,downstream_gene_variant,,ENST00000426727,;UBE2Q2,downstream_gene_variant,,ENST00000267938,;UBE2Q2,downstream_gene_variant,,ENST00000338677,;FBXO22,non_coding_transcript_exon_variant,,ENST00000565131,;FBXO22,missense_variant,p.Glu91Lys,ENST00000569749,;FBXO22,intron_variant,,ENST00000569022,;	A	ENSG00000167196	ENST00000308275	Transcript	missense_variant	376	271	91	E/K	Gag/Aag	rs750180280	.	.	1	FBXO22	HGNC	13593	protein_coding	YES	CCDS10287.1	ENSP00000307833	FBX22_HUMAN	H3BUC1_HUMAN,H3BTR7_HUMAN,H3BRE0_HUMAN	UPI0000049FDF	.	tolerated(0.06)	benign(0.003)	2/7	.	hmmpanther:PTHR14939:SF4,hmmpanther:PTHR14939	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAGGAGCTT	.	5	BLCA
IDH3A	0	.	GRCh37	15	78458491	78458491	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865-1G>A	.	p.X289_splice	ENST00000299518	.	63	40	23	81	81	0	IDH3A,splice_acceptor_variant,,ENST00000559205,;IDH3A,splice_acceptor_variant,,ENST00000299518,;IDH3A,splice_acceptor_variant,,ENST00000561366,;IDH3A,splice_acceptor_variant,,ENST00000558554,;IDH3A,splice_acceptor_variant,,ENST00000441490,;IDH3A,downstream_gene_variant,,ENST00000559881,;IDH3A,downstream_gene_variant,,ENST00000559186,;ACSBG1,downstream_gene_variant,,ENST00000541759,;IDH3A,downstream_gene_variant,,ENST00000561279,;ACSBG1,downstream_gene_variant,,ENST00000560817,;ACSBG1,downstream_gene_variant,,ENST00000258873,;IDH3A,splice_acceptor_variant,,ENST00000558535,;IDH3A,splice_acceptor_variant,,ENST00000559889,;IDH3A,splice_acceptor_variant,,ENST00000560667,;IDH3A,splice_acceptor_variant,,ENST00000558933,;IDH3A,splice_acceptor_variant,,ENST00000559803,;IDH3A,splice_acceptor_variant,,ENST00000558602,;IDH3A,non_coding_transcript_exon_variant,,ENST00000558016,;IDH3A,downstream_gene_variant,,ENST00000558509,;IDH3A,upstream_gene_variant,,ENST00000557960,;IDH3A,downstream_gene_variant,,ENST00000560396,;IDH3A,downstream_gene_variant,,ENST00000559865,;IDH3A,downstream_gene_variant,,ENST00000559106,;ACSBG1,downstream_gene_variant,,ENST00000560124,;	A	ENSG00000166411	ENST00000299518	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	IDH3A	HGNC	5384	protein_coding	YES	CCDS10297.1	ENSP00000299518	IDH3A_HUMAN	H0YM64_HUMAN,H0YLI6_HUMAN,H0YKD0_HUMAN,B7Z9J8_HUMAN,B4DJB4_HUMAN	UPI000012D1AC	.	.	.	.	9/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTAGGTTCA	.	5	BLCA
ARNT2	0	.	GRCh37	15	80843544	80843544	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882G>A	p.Met294Ile	p.M294I	ENST00000303329	9/19	109	70	38	118	118	0	ARNT2,missense_variant,p.Met294Ile,ENST00000303329,;ARNT2,missense_variant,p.Met68Ile,ENST00000525103,;ARNT2,missense_variant,p.Met283Ile,ENST00000533983,;ARNT2,missense_variant,p.Met283Ile,ENST00000527771,;RP11-379K22.2,downstream_gene_variant,,ENST00000558208,;ARNT2,non_coding_transcript_exon_variant,,ENST00000558849,;	A	ENSG00000172379	ENST00000303329	Transcript	missense_variant	1047	882	294	M/I	atG/atA	.	.	.	1	ARNT2	HGNC	16876	protein_coding	YES	CCDS32307.1	ENSP00000307479	ARNT2_HUMAN	H0YKW1_HUMAN	UPI00001FEA05	.	tolerated(0.18)	benign(0.004)	9/19	.	Prints_domain:PR00785,hmmpanther:PTHR23042,hmmpanther:PTHR23042:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATGACCAT	.	5	BLCA
ARNT2	0	.	GRCh37	15	80889678	80889678	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*3639G>A	.	.	ENST00000303329	19/19	37	24	13	47	47	0	ARNT2,3_prime_UTR_variant,,ENST00000303329,;ARNT2,3_prime_UTR_variant,,ENST00000533983,;ARNT2,downstream_gene_variant,,ENST00000527771,;	A	ENSG00000172379	ENST00000303329	Transcript	3_prime_UTR_variant	5958	.	.	.	.	.	.	.	1	ARNT2	HGNC	16876	protein_coding	YES	CCDS32307.1	ENSP00000307479	ARNT2_HUMAN	H0YKW1_HUMAN	UPI00001FEA05	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTAGGAATAA	.	5	BLCA
EFTUD1	0	.	GRCh37	15	82444225	82444225	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2570A>C	p.Lys857Thr	p.K857T	ENST00000268206	18/20	60	37	22	80	80	0	EFTUD1,missense_variant,p.Lys806Thr,ENST00000359445,;EFTUD1,missense_variant,p.Lys857Thr,ENST00000268206,;EFTUD1,downstream_gene_variant,,ENST00000561340,;	G	ENSG00000140598	ENST00000268206	Transcript	missense_variant	2739	2570	857	K/T	aAa/aCa	.	.	.	-1	EFTUD1	HGNC	25789	protein_coding	YES	CCDS42071.1	ENSP00000268206	ETUD1_HUMAN	H0YNW8_HUMAN	UPI00001FEA35	.	tolerated(0.47)	benign(0.001)	18/20	.	Superfamily_domains:SSF54211,Gene3D:3.30.230.10,hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTTTTGAA	.	5	BLCA
HOMER2	0	.	GRCh37	15	83518517	83518517	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015G>A	p.Asp339Asn	p.D339N	ENST00000304231	9/9	22	14	8	34	34	0	HOMER2,missense_variant,p.Asp339Asn,ENST00000304231,;HOMER2,missense_variant,p.Asp328Asn,ENST00000450735,;HOMER2,missense_variant,p.Asp284Asn,ENST00000426485,;HOMER2,missense_variant,p.Asp273Asn,ENST00000399166,;HOMER2,upstream_gene_variant,,ENST00000558090,;HOMER2,downstream_gene_variant,,ENST00000558817,;HOMER2,downstream_gene_variant,,ENST00000561345,;HOMER2,non_coding_transcript_exon_variant,,ENST00000558552,;	T	ENSG00000103942	ENST00000304231	Transcript	missense_variant	1208	1015	339	D/N	Gac/Aac	.	.	.	-1	HOMER2	HGNC	17513	protein_coding	YES	CCDS45334.1	ENSP00000305632	HOME2_HUMAN	.	UPI000006D53F	.	tolerated(0.06)	benign(0.265)	9/9	.	hmmpanther:PTHR10918:SF2,hmmpanther:PTHR10918	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGTCGTCAA	.	2	BLCA
AKAP13	0	.	GRCh37	15	86076849	86076849	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.216C>A	p.%3D	p.L72L	ENST00000361243	4/37	68	48	19	78	78	0	AKAP13,synonymous_variant,p.%3D,ENST00000560302,;AKAP13,synonymous_variant,p.%3D,ENST00000394518,;AKAP13,synonymous_variant,p.%3D,ENST00000559362,;AKAP13,synonymous_variant,p.%3D,ENST00000361243,;	A	ENSG00000170776	ENST00000361243	Transcript	synonymous_variant	297	216	72	L	ctC/ctA	.	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	.	.	4/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCTGTGC	.	5	BLCA
AKAP13	0	.	GRCh37	15	86077054	86077054	+	Missense_Mutation	SNP	A	A	G	rs767360299	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.421A>G	p.Arg141Gly	p.R141G	ENST00000361243	4/37	36	27	9	67	67	0	AKAP13,missense_variant,p.Arg141Gly,ENST00000560302,;AKAP13,missense_variant,p.Arg141Gly,ENST00000394518,;AKAP13,missense_variant,p.Arg141Gly,ENST00000559362,;AKAP13,missense_variant,p.Arg141Gly,ENST00000361243,;	G	ENSG00000170776	ENST00000361243	Transcript	missense_variant	502	421	141	R/G	Agg/Ggg	rs767360299	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	deleterious(0)	probably_damaging(0.996)	4/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCAGGCAC	.	5	BLCA
AKAP13	0	.	GRCh37	15	86207988	86207988	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5004+2T>C	.	p.X1668_splice	ENST00000361243	.	54	38	16	52	52	0	AKAP13,splice_donor_variant,,ENST00000559486,;AKAP13,splice_donor_variant,,ENST00000394518,;AKAP13,splice_donor_variant,,ENST00000559362,;AKAP13,splice_donor_variant,,ENST00000361243,;RP11-815J21.4,intron_variant,,ENST00000558980,;AKAP13,splice_donor_variant,,ENST00000560676,;AKAP13,splice_donor_variant,,ENST00000560579,;	C	ENSG00000170776	ENST00000361243	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	.	.	.	13/36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGGTAAGTC	.	5	BLCA
AKAP13	0	.	GRCh37	15	86284583	86284583	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7927G>A	p.Glu2643Lys	p.E2643K	ENST00000361243	35/37	13	9	4	14	14	0	AKAP13,missense_variant,p.Glu2639Lys,ENST00000394518,;AKAP13,missense_variant,p.Glu2643Lys,ENST00000361243,;AKAP13,missense_variant,p.Glu884Lys,ENST00000394510,;RP11-158M2.3,downstream_gene_variant,,ENST00000558375,;AKAP13,non_coding_transcript_exon_variant,,ENST00000560579,;AKAP13,downstream_gene_variant,,ENST00000559391,;	A	ENSG00000170776	ENST00000361243	Transcript	missense_variant	8008	7927	2643	E/K	Gag/Aag	.	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	deleterious(0.03)	benign(0.059)	35/37	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GGGAGGAGCTC	.	4	BLCA
RLBP1	0	.	GRCh37	15	89753481	89753481	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*35C>T	.	.	ENST00000268125	9/9	53	42	11	78	78	0	RLBP1,3_prime_UTR_variant,,ENST00000268125,;RLBP1,3_prime_UTR_variant,,ENST00000563254,;RLBP1,downstream_gene_variant,,ENST00000567787,;	A	ENSG00000140522	ENST00000268125	Transcript	3_prime_UTR_variant	1429	.	.	.	.	.	.	.	-1	RLBP1	HGNC	10024	protein_coding	YES	CCDS32324.1	ENSP00000268125	RLBP1_HUMAN	.	UPI0000000C59	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGAGATTCT	.	5	BLCA
PLIN1	0	.	GRCh37	15	90212778	90212778	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724G>A	p.Glu242Lys	p.E242K	ENST00000300055	6/9	37	21	16	48	48	0	PLIN1,missense_variant,p.Glu242Lys,ENST00000430628,;PLIN1,missense_variant,p.Glu242Lys,ENST00000300055,;PLIN1,upstream_gene_variant,,ENST00000560330,;	T	ENSG00000166819	ENST00000300055	Transcript	missense_variant	890	724	242	E/K	Gag/Aag	.	.	.	-1	PLIN1	HGNC	9076	protein_coding	YES	CCDS10353.1	ENSP00000300055	PLIN1_HUMAN	.	UPI000013E61C	.	tolerated(1)	benign(0.006)	6/9	.	hmmpanther:PTHR14024,hmmpanther:PTHR14024:SF23,Pfam_domain:PF03036,PIRSF_domain:PIRSF036881	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCCAGGG	.	5	BLCA
ANPEP	0	.	GRCh37	15	90340848	90340848	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2115C>T	p.%3D	p.F705F	ENST00000300060	15/21	85	57	28	121	121	0	ANPEP,synonymous_variant,p.%3D,ENST00000300060,;ANPEP,non_coding_transcript_exon_variant,,ENST00000558177,;ANPEP,non_coding_transcript_exon_variant,,ENST00000559761,;ANPEP,upstream_gene_variant,,ENST00000558740,;ANPEP,downstream_gene_variant,,ENST00000560030,;	A	ENSG00000166825	ENST00000300060	Transcript	synonymous_variant	2429	2115	705	F	ttC/ttT	.	.	.	-1	ANPEP	HGNC	500	protein_coding	YES	CCDS10356.1	ENSP00000300060	AMPN_HUMAN	Q8IVL7_HUMAN,Q71E46_HUMAN,H0YM04_HUMAN,H0YKT6_HUMAN,B4DV63_HUMAN,B4DP96_HUMAN	UPI00001AECCF	.	.	.	15/21	.	hmmpanther:PTHR11533:SF149,hmmpanther:PTHR11533,Pfam_domain:PF11838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTGAAGTA	.	5	BLCA
SEMA4B	0	.	GRCh37	15	90766835	90766835	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906C>T	p.%3D	p.S302S	ENST00000411539	8/14	24	15	9	31	31	0	SEMA4B,synonymous_variant,p.%3D,ENST00000379122,;SEMA4B,synonymous_variant,p.%3D,ENST00000559074,;SEMA4B,synonymous_variant,p.%3D,ENST00000411539,;SEMA4B,synonymous_variant,p.%3D,ENST00000332496,;SEMA4B,upstream_gene_variant,,ENST00000559247,;SEMA4B,downstream_gene_variant,,ENST00000558051,;SEMA4B,downstream_gene_variant,,ENST00000561085,;SEMA4B,upstream_gene_variant,,ENST00000559983,;SEMA4B,3_prime_UTR_variant,,ENST00000560089,;SEMA4B,non_coding_transcript_exon_variant,,ENST00000558065,;SEMA4B,non_coding_transcript_exon_variant,,ENST00000558975,;SEMA4B,downstream_gene_variant,,ENST00000558848,;SEMA4B,downstream_gene_variant,,ENST00000559300,;SEMA4B,upstream_gene_variant,,ENST00000560993,;SEMA4B,upstream_gene_variant,,ENST00000561252,;SEMA4B,upstream_gene_variant,,ENST00000561321,;	T	ENSG00000185033	ENST00000411539	Transcript	synonymous_variant	1166	906	302	S	tcC/tcT	.	.	.	1	SEMA4B	HGNC	10730	protein_coding	YES	CCDS45347.1	ENSP00000394720	.	Q4VBY2_HUMAN,J3KNP4_HUMAN,H0YMR1_HUMAN,H0YMD6_HUMAN,H0YLN3_HUMAN	UPI0000197391	.	.	.	8/14	.	PROSITE_profiles:PS51004,hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF14,Gene3D:2.130.10.10,Pfam_domain:PF01403,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTCCTTCCT	.	5	BLCA
IQGAP1	0	.	GRCh37	15	91020385	91020385	+	Silent	SNP	C	C	T	rs745492072	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3027C>T	p.%3D	p.L1009L	ENST00000268182	25/38	79	53	26	98	98	0	IQGAP1,synonymous_variant,p.%3D,ENST00000560738,;IQGAP1,synonymous_variant,p.%3D,ENST00000268182,;IQGAP1,downstream_gene_variant,,ENST00000560020,;IQGAP1,downstream_gene_variant,,ENST00000560733,;IQGAP1,downstream_gene_variant,,ENST00000560373,;IQGAP1,downstream_gene_variant,,ENST00000558003,;	T	ENSG00000140575	ENST00000268182	Transcript	synonymous_variant	3151	3027	1009	L	ctC/ctT	rs745492072	.	.	1	IQGAP1	HGNC	6110	protein_coding	YES	CCDS10362.1	ENSP00000268182	IQGA1_HUMAN	H0YKA5_HUMAN	UPI000012D863	.	.	.	25/38	.	Superfamily_domains:SSF48350,SMART_domains:SM00323,hmmpanther:PTHR14149,hmmpanther:PTHR14149:SF15,PROSITE_profiles:PS50018	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCTACAA	.	5	BLCA
FES	0	.	GRCh37	15	91428765	91428765	+	Missense_Mutation	SNP	C	C	T	rs770735267	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337C>T	p.Arg113Cys	p.R113C	ENST00000328850	3/19	24	20	4	25	25	0	FES,missense_variant,p.Arg113Cys,ENST00000443697,;FES,missense_variant,p.Arg113Cys,ENST00000559355,;FES,missense_variant,p.Arg113Cys,ENST00000452243,;FES,missense_variant,p.Arg113Cys,ENST00000328850,;FES,missense_variant,p.Arg113Cys,ENST00000444422,;FES,intron_variant,,ENST00000450438,;FES,intron_variant,,ENST00000394300,;FES,intron_variant,,ENST00000414248,;FES,intron_variant,,ENST00000394302,;FURIN,downstream_gene_variant,,ENST00000268171,;FES,downstream_gene_variant,,ENST00000416779,;FES,upstream_gene_variant,,ENST00000448367,;FES,missense_variant,p.Arg113Cys,ENST00000464684,;FES,3_prime_UTR_variant,,ENST00000470152,;FES,non_coding_transcript_exon_variant,,ENST00000497945,;FES,upstream_gene_variant,,ENST00000494259,;FURIN,downstream_gene_variant,,ENST00000558794,;FES,upstream_gene_variant,,ENST00000462476,;FES,downstream_gene_variant,,ENST00000481665,;FES,upstream_gene_variant,,ENST00000496379,;	T	ENSG00000182511	ENST00000328850	Transcript	missense_variant	479	337	113	R/C	Cgc/Tgc	rs770735267	.	.	1	FES	HGNC	3657	protein_coding	YES	CCDS10365.1	ENSP00000331504	FES_HUMAN	Q4JFK7_HUMAN,H0YNN8_HUMAN,E9PGC7_HUMAN,E7EMJ7_HUMAN,C9J3W6_HUMAN	UPI0000001C30	.	deleterious(0)	possibly_damaging(0.768)	3/19	.	hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF197,PIRSF_domain:PIRSF000632,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	AGCTTCGCAAG	byFrequency	3	BLCA
SV2B	0	.	GRCh37	15	91769832	91769832	+	Silent	SNP	C	C	T	rs777632691	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339C>T	p.%3D	p.F113F	ENST00000394232	2/13	25	15	9	48	48	0	SV2B,synonymous_variant,p.%3D,ENST00000330276,;SV2B,synonymous_variant,p.%3D,ENST00000394232,;SV2B,intron_variant,,ENST00000545111,;SV2B,intron_variant,,ENST00000557291,;SV2B,synonymous_variant,p.%3D,ENST00000557410,;	T	ENSG00000185518	ENST00000394232	Transcript	synonymous_variant	809	339	113	F	ttC/ttT	rs777632691	.	.	1	SV2B	HGNC	16874	protein_coding	YES	CCDS10370.1	ENSP00000377779	SV2B_HUMAN	.	UPI000006FCF1	.	.	.	2/13	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24065,hmmpanther:PTHR24065:SF1,Gene3D:1.20.1250.20,TIGRFAM_domain:TIGR01299,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCGTCTT	byFrequency	5	BLCA
CHD2	0	.	GRCh37	15	93467556	93467556	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.68C>T	p.Ser23Leu	p.S23L	ENST00000394196	3/39	54	38	16	70	70	0	CHD2,missense_variant,p.Ser23Leu,ENST00000557381,;CHD2,missense_variant,p.Ser23Leu,ENST00000556722,;CHD2,missense_variant,p.Ser23Leu,ENST00000420239,;CHD2,missense_variant,p.Ser36Leu,ENST00000536619,;CHD2,missense_variant,p.Ser23Leu,ENST00000394196,;CHD2,non_coding_transcript_exon_variant,,ENST00000556930,;CHD2,non_coding_transcript_exon_variant,,ENST00000309818,;CHD2,non_coding_transcript_exon_variant,,ENST00000556270,;	T	ENSG00000173575	ENST00000394196	Transcript	missense_variant	1136	68	23	S/L	tCa/tTa	.	.	.	1	CHD2	HGNC	1917	protein_coding	YES	CCDS10374.2	ENSP00000377747	CHD2_HUMAN	Q6AI05_HUMAN,Q3YLD6_HUMAN,Q3YLD5_HUMAN,G3V4S8_HUMAN,G3V418_HUMAN	UPI0000E8A85C	.	deleterious_low_confidence(0)	unknown(0)	3/39	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF538	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCAGCCT	.	5	BLCA
CHD2	0	.	GRCh37	15	93467697	93467697	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209C>T	p.Ser70Leu	p.S70L	ENST00000394196	3/39	91	70	21	123	123	0	CHD2,missense_variant,p.Ser70Leu,ENST00000557381,;CHD2,missense_variant,p.Ser70Leu,ENST00000556722,;CHD2,missense_variant,p.Ser70Leu,ENST00000420239,;CHD2,missense_variant,p.Ser83Leu,ENST00000536619,;CHD2,missense_variant,p.Ser70Leu,ENST00000394196,;CHD2,non_coding_transcript_exon_variant,,ENST00000556930,;CHD2,non_coding_transcript_exon_variant,,ENST00000309818,;CHD2,non_coding_transcript_exon_variant,,ENST00000556270,;	T	ENSG00000173575	ENST00000394196	Transcript	missense_variant	1277	209	70	S/L	tCa/tTa	.	.	.	1	CHD2	HGNC	1917	protein_coding	YES	CCDS10374.2	ENSP00000377747	CHD2_HUMAN	Q6AI05_HUMAN,Q3YLD6_HUMAN,Q3YLD5_HUMAN,G3V4S8_HUMAN,G3V418_HUMAN	UPI0000E8A85C	.	tolerated(0.16)	unknown(0)	3/39	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF538	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAATCAGCAG	.	5	BLCA
NR2F2	0	.	GRCh37	15	96880727	96880727	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1121C>G	p.Ser374Cys	p.S374C	ENST00000394166	3/3	151	105	46	229	229	0	NR2F2,missense_variant,p.Ser221Cys,ENST00000453270,;NR2F2,missense_variant,p.Ser374Cys,ENST00000394166,;NR2F2,missense_variant,p.Ser241Cys,ENST00000421109,;NR2F2,missense_variant,p.Ser221Cys,ENST00000394171,;NR2F2,downstream_gene_variant,,ENST00000559679,;MIR1469,downstream_gene_variant,,ENST00000410719,;	G	ENSG00000185551	ENST00000394166	Transcript	missense_variant	2510	1121	374	S/C	tCc/tGc	.	.	.	1	NR2F2	HGNC	7976	protein_coding	YES	CCDS10375.1	ENSP00000377721	COT2_HUMAN	H3BTC2_HUMAN,F1D8R0_HUMAN	UPI000000052E	.	deleterious(0.02)	probably_damaging(0.992)	3/3	.	hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF45,Pfam_domain:PF00104,Gene3D:1.10.565.10,SMART_domains:SM00430,Superfamily_domains:SSF48508,Prints_domain:PR01282,Prints_domain:PR00398	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCCTCCT	.	5	BLCA
TXNDC11	0	.	GRCh37	16	11815500	11815500	+	Silent	SNP	G	G	A	rs773219698	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726C>T	p.%3D	p.F242F	ENST00000283033	5/12	18	13	5	32	32	0	TXNDC11,synonymous_variant,p.%3D,ENST00000356957,;TXNDC11,synonymous_variant,p.%3D,ENST00000575591,;TXNDC11,synonymous_variant,p.%3D,ENST00000283033,;TXNDC11,non_coding_transcript_exon_variant,,ENST00000573174,;TXNDC11,missense_variant,p.Ser16Leu,ENST00000571882,;TXNDC11,missense_variant,p.Ser138Leu,ENST00000576969,;	A	ENSG00000153066	ENST00000283033	Transcript	synonymous_variant	874	726	242	F	ttC/ttT	rs773219698	.	.	-1	TXNDC11	HGNC	28030	protein_coding	YES	CCDS32387.1	ENSP00000283033	TXD11_HUMAN	.	UPI000006FCC0	.	.	.	5/12	.	hmmpanther:PTHR18929,hmmpanther:PTHR18929:SF57	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTGAACTC	.	5	BLCA
CACNA1H	0	.	GRCh37	16	1261225	1261225	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4281C>T	p.%3D	p.L1427L	ENST00000348261	22/35	56	40	16	74	74	0	CACNA1H,synonymous_variant,p.%3D,ENST00000562079,;CACNA1H,synonymous_variant,p.%3D,ENST00000348261,;CACNA1H,synonymous_variant,p.%3D,ENST00000564231,;CACNA1H,synonymous_variant,p.%3D,ENST00000565831,;CACNA1H,synonymous_variant,p.%3D,ENST00000358590,;CACNA1H,synonymous_variant,p.%3D,ENST00000569107,;CACNA1H,upstream_gene_variant,,ENST00000564927,;RP11-616M22.3,upstream_gene_variant,,ENST00000564700,;CACNA1H,non_coding_transcript_exon_variant,,ENST00000569953,;	T	ENSG00000196557	ENST00000348261	Transcript	synonymous_variant	4529	4281	1427	L	ctC/ctT	.	.	.	1	CACNA1H	HGNC	1395	protein_coding	YES	CCDS45375.1	ENSP00000334198	CAC1H_HUMAN	Q9NYY7_HUMAN,Q9NYY6_HUMAN	UPI000012727B	.	.	.	22/35	.	Superfamily_domains:SSF81324,Pfam_domain:PF00520,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCAGGCC	.	5	BLCA
MPG	0	.	GRCh37	16	129645	129645	+	Silent	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.261G>T	p.%3D	p.G87G	ENST00000219431	3/5	10	7	3	9	9	0	MPG,synonymous_variant,p.%3D,ENST00000436333,;MPG,synonymous_variant,p.%3D,ENST00000356432,;MPG,synonymous_variant,p.%3D,ENST00000397817,;MPG,synonymous_variant,p.%3D,ENST00000219431,;RHBDF1,upstream_gene_variant,,ENST00000454039,;RHBDF1,upstream_gene_variant,,ENST00000450643,;MPG,non_coding_transcript_exon_variant,,ENST00000475280,;RHBDF1,upstream_gene_variant,,ENST00000472390,;NPRL3,downstream_gene_variant,,ENST00000463178,;	T	ENSG00000103152	ENST00000219431	Transcript	synonymous_variant	492	261	87	G	ggG/ggT	.	.	.	1	MPG	HGNC	7211	protein_coding	YES	CCDS32346.1	ENSP00000219431	3MG_HUMAN	Q1W6H1_HUMAN,A2IDA3_HUMAN	UPI000002A2C0	.	.	.	3/5	.	hmmpanther:PTHR10429,hmmpanther:PTHR10429:SF0,Gene3D:1ewnA00,TIGRFAM_domain:TIGR00567,Superfamily_domains:SSF50486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGGGTTGGA	.	2	BLCA
MYH11	0	.	GRCh37	16	15812202	15812202	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5286G>A	p.Met1762Ile	p.M1762I	ENST00000396324	38/42	60	37	22	86	86	0	MYH11,missense_variant,p.Met1755Ile,ENST00000576790,;MYH11,missense_variant,p.Met1755Ile,ENST00000300036,;MYH11,missense_variant,p.Met1762Ile,ENST00000396324,;MYH11,missense_variant,p.Met1762Ile,ENST00000452625,;NDE1,intron_variant,,ENST00000572967,;NDE1,intron_variant,,ENST00000573694,;NDE1,intron_variant,,ENST00000396355,;NDE1,intron_variant,,ENST00000342673,;NDE1,intron_variant,,ENST00000396354,;NDE1,upstream_gene_variant,,ENST00000571896,;NDE1,upstream_gene_variant,,ENST00000572503,;MYH11,non_coding_transcript_exon_variant,,ENST00000576164,;MYH11,non_coding_transcript_exon_variant,,ENST00000571275,;	T	ENSG00000133392	ENST00000396324	Transcript	missense_variant	5374	5286	1762	M/I	atG/atA	.	.	.	-1	MYH11	HGNC	7569	protein_coding	YES	CCDS45423.1	ENSP00000379616	MYH11_HUMAN	Q68D89_HUMAN,Q66K75_HUMAN	UPI00005B7237	.	.	benign(0.002)	38/42	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF01576,hmmpanther:PTHR13140:SF335,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGCTCATGGC	.	5	BLCA
MRPS34	0	.	GRCh37	16	1822520	1822520	+	Intron	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.365-6C>T	.	.	ENST00000397375	.	69	46	22	76	76	0	MRPS34,missense_variant,p.Ser127Leu,ENST00000177742,;MRPS34,splice_region_variant,,ENST00000397375,;SPSB3,downstream_gene_variant,,ENST00000301717,;MAPK8IP3,downstream_gene_variant,,ENST00000356010,;EME2,upstream_gene_variant,,ENST00000568449,;NME3,upstream_gene_variant,,ENST00000564628,;SPSB3,downstream_gene_variant,,ENST00000566339,;MAPK8IP3,downstream_gene_variant,,ENST00000250894,;EME2,upstream_gene_variant,,ENST00000307394,;NME3,upstream_gene_variant,,ENST00000219302,;NME3,upstream_gene_variant,,ENST00000563498,;MRPS34,splice_region_variant,,ENST00000569585,;NME3,upstream_gene_variant,,ENST00000567271,;NME3,upstream_gene_variant,,ENST00000568561,;SPSB3,downstream_gene_variant,,ENST00000567868,;NME3,upstream_gene_variant,,ENST00000566600,;NME3,upstream_gene_variant,,ENST00000561637,;EME2,upstream_gene_variant,,ENST00000564182,;NME3,upstream_gene_variant,,ENST00000563367,;SPSB3,downstream_gene_variant,,ENST00000564709,;SPSB3,downstream_gene_variant,,ENST00000563668,;NME3,upstream_gene_variant,,ENST00000563854,;SPSB3,downstream_gene_variant,,ENST00000563741,;MAPK8IP3,downstream_gene_variant,,ENST00000566064,;NME3,upstream_gene_variant,,ENST00000564252,;EME2,upstream_gene_variant,,ENST00000565326,;NME3,upstream_gene_variant,,ENST00000565379,;EME2,upstream_gene_variant,,ENST00000570069,;EME2,upstream_gene_variant,,ENST00000561903,;EME2,upstream_gene_variant,,ENST00000561564,;MAPK8IP3,downstream_gene_variant,,ENST00000563868,;SPSB3,downstream_gene_variant,,ENST00000569380,;MAPK8IP3,downstream_gene_variant,,ENST00000564868,;	A	ENSG00000074071	ENST00000397375	Transcript	splice_region_variant	.	.	.	.	.	COSM2128066	.	.	-1	MRPS34	HGNC	16618	protein_coding	YES	CCDS10444.1	ENSP00000380531	RT34_HUMAN	.	UPI0000049FE2	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATGAAGAA	.	5	BLCA
EME2	0	.	GRCh37	16	1826238	1826238	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1139G>A	p.%3D	p.%3D	ENST00000568449	8/8	44	32	11	64	64	0	EME2,stop_retained_variant,p.%3D,ENST00000568449,;EME2,stop_retained_variant,p.%3D,ENST00000307394,;SPSB3,downstream_gene_variant,,ENST00000301717,;MRPS34,upstream_gene_variant,,ENST00000397375,;NME3,upstream_gene_variant,,ENST00000564628,;SPSB3,downstream_gene_variant,,ENST00000566339,;SPSB3,downstream_gene_variant,,ENST00000569769,;MRPS34,upstream_gene_variant,,ENST00000177742,;NME3,upstream_gene_variant,,ENST00000219302,;NME3,upstream_gene_variant,,ENST00000563498,;EME2,stop_retained_variant,p.%3D,ENST00000564182,;EME2,stop_retained_variant,p.%3D,ENST00000561903,;EME2,non_coding_transcript_exon_variant,,ENST00000570069,;SPSB3,downstream_gene_variant,,ENST00000564070,;NME3,upstream_gene_variant,,ENST00000568561,;SPSB3,downstream_gene_variant,,ENST00000565550,;SPSB3,downstream_gene_variant,,ENST00000567868,;NME3,upstream_gene_variant,,ENST00000566600,;NME3,upstream_gene_variant,,ENST00000561637,;NME3,upstream_gene_variant,,ENST00000563367,;SPSB3,downstream_gene_variant,,ENST00000564709,;SPSB3,downstream_gene_variant,,ENST00000563668,;NME3,upstream_gene_variant,,ENST00000563854,;SPSB3,downstream_gene_variant,,ENST00000563741,;SPSB3,downstream_gene_variant,,ENST00000563705,;SPSB3,downstream_gene_variant,,ENST00000568416,;NME3,upstream_gene_variant,,ENST00000564252,;EME2,downstream_gene_variant,,ENST00000565326,;NME3,upstream_gene_variant,,ENST00000565379,;EME2,downstream_gene_variant,,ENST00000561564,;MRPS34,upstream_gene_variant,,ENST00000569585,;SPSB3,downstream_gene_variant,,ENST00000569380,;	A	ENSG00000197774	ENST00000568449	Transcript	stop_retained_variant	1160	1139	380	*	tGa/tAa	.	.	.	1	EME2	HGNC	27289	protein_coding	YES	CCDS58404.1	ENSP00000457353	EME2_HUMAN	.	UPI0000F57C10	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTGACCAC	.	5	BLCA
SMG1	0	.	GRCh37	16	18908222	18908222	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.149G>A	p.Arg50Lys	p.R50K	ENST00000446231	2/63	21	13	8	32	32	0	SMG1,missense_variant,p.Arg24Lys,ENST00000563836,;SMG1,missense_variant,p.Arg24Lys,ENST00000532700,;SMG1,missense_variant,p.Arg24Lys,ENST00000565224,;SMG1,missense_variant,p.Arg20Lys,ENST00000561947,;SMG1,missense_variant,p.Arg50Lys,ENST00000446231,;SMG1,missense_variant,p.Arg50Lys,ENST00000389467,;SMG1,5_prime_UTR_variant,,ENST00000569122,;SMG1,upstream_gene_variant,,ENST00000565324,;	T	ENSG00000157106	ENST00000446231	Transcript	missense_variant	562	149	50	R/K	aGa/aAa	.	.	.	-1	SMG1	HGNC	30045	protein_coding	YES	CCDS45430.1	ENSP00000402515	SMG1_HUMAN	H3BPS6_HUMAN	UPI00004F8E22	.	tolerated_low_confidence(0.86)	benign(0.096)	2/63	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF59	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTCTATCT	.	2	BLCA
SYT17	0	.	GRCh37	16	19195467	19195467	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949C>T	p.Gln317Ter	p.Q317*	ENST00000355377	5/8	131	93	38	181	181	0	SYT17,stop_gained,p.Gln256Ter,ENST00000562034,;SYT17,stop_gained,p.Gln256Ter,ENST00000568115,;SYT17,stop_gained,p.Gln317Ter,ENST00000355377,;SYT17,stop_gained,p.Gln313Ter,ENST00000562711,;SYT17,downstream_gene_variant,,ENST00000566261,;SYT17,downstream_gene_variant,,ENST00000570264,;SYT17,stop_gained,p.Gln82Ter,ENST00000565183,;SYT17,downstream_gene_variant,,ENST00000562274,;	T	ENSG00000103528	ENST00000355377	Transcript	stop_gained	1347	949	317	Q/*	Cag/Tag	.	.	.	1	SYT17	HGNC	24119	protein_coding	YES	CCDS10575.1	ENSP00000347538	SYT17_HUMAN	H3BSP0_HUMAN,H3BRH9_HUMAN,H3BMD4_HUMAN	UPI000007297F	.	.	.	5/8	.	hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF189,Gene3D:2.60.40.150,Superfamily_domains:SSF49562,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCAGGTA	.	5	BLCA
HS3ST6	0	.	GRCh37	16	1961955	1961955	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.572C>A	p.Ala191Asp	p.A191D	ENST00000443547	2/2	36	24	11	37	37	0	HS3ST6,missense_variant,p.Ala222Asp,ENST00000293937,;HS3ST6,missense_variant,p.Ala191Asp,ENST00000443547,;HS3ST6,missense_variant,p.Ala239Asp,ENST00000454677,;	T	ENSG00000162040	ENST00000443547	Transcript	missense_variant	572	572	191	A/D	gCc/gAc	.	.	.	-1	HS3ST6	HGNC	14178	protein_coding	YES	CCDS45381.1	ENSP00000390354	.	C9JH64_HUMAN	UPI0000E02544	.	deleterious(0)	probably_damaging(0.999)	2/2	.	hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF7,Gene3D:3.40.50.300,Pfam_domain:PF00685,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACGGCGCTC	.	5	BLCA
DNAH3	0	.	GRCh37	16	21170712	21170712	+	Silent	SNP	C	C	T	rs199539962	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51G>A	p.%3D	p.P17P	ENST00000261383	1/62	76	51	24	113	112	0	DNAH3,synonymous_variant,p.%3D,ENST00000261383,;DNAH3,synonymous_variant,p.%3D,ENST00000415178,;TMEM159,intron_variant,,ENST00000451578,;TMEM159,intron_variant,,ENST00000577162,;TMEM159,intron_variant,,ENST00000572599,;TMEM159,intron_variant,,ENST00000261388,;TMEM159,intron_variant,,ENST00000233047,;TMEM159,intron_variant,,ENST00000572258,;TMEM159,intron_variant,,ENST00000574092,;TMEM159,intron_variant,,ENST00000573487,;	T	ENSG00000158486	ENST00000261383	Transcript	synonymous_variant	51	51	17	P	ccG/ccA	rs199539962	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	.	.	1/62	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCCCGGATG	.	5	BLCA
TSC2	0	.	GRCh37	16	2130215	2130215	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3447C>T	p.%3D	p.F1149F	ENST00000219476	30/42	111	81	30	154	154	0	TSC2,synonymous_variant,p.%3D,ENST00000439673,;TSC2,synonymous_variant,p.%3D,ENST00000219476,;TSC2,synonymous_variant,p.%3D,ENST00000353929,;TSC2,synonymous_variant,p.%3D,ENST00000350773,;TSC2,synonymous_variant,p.%3D,ENST00000568454,;TSC2,synonymous_variant,p.%3D,ENST00000382538,;TSC2,synonymous_variant,p.%3D,ENST00000401874,;TSC2,upstream_gene_variant,,ENST00000569110,;TSC2,downstream_gene_variant,,ENST00000568366,;TSC2,3_prime_UTR_variant,,ENST00000439117,;TSC2,non_coding_transcript_exon_variant,,ENST00000497886,;TSC2,downstream_gene_variant,,ENST00000561695,;TSC2,upstream_gene_variant,,ENST00000569930,;TSC2,downstream_gene_variant,,ENST00000471143,;TSC2,downstream_gene_variant,,ENST00000483020,;	T	ENSG00000103197	ENST00000219476	Transcript	synonymous_variant	4077	3447	1149	F	ttC/ttT	.	.	.	1	TSC2	HGNC	12363	protein_coding	YES	CCDS10458.1	ENSP00000219476	TSC2_HUMAN	.	UPI000013C781	.	.	.	30/42	.	hmmpanther:PTHR10063,hmmpanther:PTHR10063:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTCCTGGG	.	5	BLCA
PKD1	0	.	GRCh37	16	2153751	2153751	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8307C>T	p.%3D	p.L2769L	ENST00000262304	23/46	32	21	10	46	46	0	PKD1,synonymous_variant,p.%3D,ENST00000262304,;PKD1,synonymous_variant,p.%3D,ENST00000567946,;PKD1,synonymous_variant,p.%3D,ENST00000423118,;PKD1,downstream_gene_variant,,ENST00000483024,;PKD1,downstream_gene_variant,,ENST00000488185,;PKD1,non_coding_transcript_exon_variant,,ENST00000561991,;PKD1,upstream_gene_variant,,ENST00000566784,;PKD1,downstream_gene_variant,,ENST00000564865,;PKD1,upstream_gene_variant,,ENST00000570193,;PKD1,downstream_gene_variant,,ENST00000483558,;PKD1,downstream_gene_variant,,ENST00000473780,;PKD1,upstream_gene_variant,,ENST00000475889,;PKD1,upstream_gene_variant,,ENST00000566905,;PKD1,synonymous_variant,p.%3D,ENST00000487932,;PKD1,non_coding_transcript_exon_variant,,ENST00000415938,;PKD1,non_coding_transcript_exon_variant,,ENST00000486339,;PKD1,non_coding_transcript_exon_variant,,ENST00000496574,;PKD1,non_coding_transcript_exon_variant,,ENST00000562297,;PKD1,non_coding_transcript_exon_variant,,ENST00000483731,;PKD1,non_coding_transcript_exon_variant,,ENST00000480227,;PKD1,downstream_gene_variant,,ENST00000568591,;PKD1,downstream_gene_variant,,ENST00000565639,;PKD1,upstream_gene_variant,,ENST00000570253,;PKD1,upstream_gene_variant,,ENST00000483814,;PKD1,downstream_gene_variant,,ENST00000564890,;PKD1,downstream_gene_variant,,ENST00000569983,;PKD1,upstream_gene_variant,,ENST00000469851,;PKD1,upstream_gene_variant,,ENST00000474088,;PKD1,upstream_gene_variant,,ENST00000471603,;	A	ENSG00000008710	ENST00000262304	Transcript	synonymous_variant	8516	8307	2769	L	ctC/ctT	.	.	.	-1	PKD1	HGNC	9008	protein_coding	YES	CCDS32369.1	ENSP00000262304	PKD1_HUMAN	O75276_HUMAN	UPI00001B0454	.	.	.	23/46	.	PROSITE_profiles:PS51111,hmmpanther:PTHR10877:SF123,hmmpanther:PTHR10877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGTTGAGCAC	.	5	BLCA
EEF2K	0	.	GRCh37	16	22261995	22261995	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429G>A	p.Met143Ile	p.M143I	ENST00000263026	5/18	25	17	8	37	37	0	EEF2K,missense_variant,p.Met143Ile,ENST00000263026,;EEF2K,missense_variant,p.Met143Ile,ENST00000568269,;	A	ENSG00000103319	ENST00000263026	Transcript	missense_variant	903	429	143	M/I	atG/atA	.	.	.	1	EEF2K	HGNC	24615	protein_coding	YES	CCDS10604.1	ENSP00000263026	EF2K_HUMAN	.	UPI000013D387	.	deleterious(0)	probably_damaging(0.999)	5/18	.	PROSITE_profiles:PS51158,hmmpanther:PTHR14187,Pfam_domain:PF02816,PIRSF_domain:PIRSF038139,SMART_domains:SM00811,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAATGAGGGA	.	5	BLCA
POLR3E	0	.	GRCh37	16	22316519	22316519	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.79C>T	p.%3D	p.L27L	ENST00000299853	3/21	64	44	20	102	102	0	POLR3E,synonymous_variant,p.%3D,ENST00000564883,;POLR3E,synonymous_variant,p.%3D,ENST00000565358,;POLR3E,synonymous_variant,p.%3D,ENST00000299853,;POLR3E,synonymous_variant,p.%3D,ENST00000564209,;POLR3E,synonymous_variant,p.%3D,ENST00000359210,;POLR3E,5_prime_UTR_variant,,ENST00000563024,;POLR3E,intron_variant,,ENST00000418581,;POLR3E,non_coding_transcript_exon_variant,,ENST00000564256,;POLR3E,synonymous_variant,p.%3D,ENST00000564750,;POLR3E,synonymous_variant,p.%3D,ENST00000561494,;POLR3E,non_coding_transcript_exon_variant,,ENST00000564061,;POLR3E,non_coding_transcript_exon_variant,,ENST00000567022,;POLR3E,non_coding_transcript_exon_variant,,ENST00000563766,;POLR3E,upstream_gene_variant,,ENST00000565551,;	T	ENSG00000058600	ENST00000299853	Transcript	synonymous_variant	246	79	27	L	Cta/Tta	.	.	.	1	POLR3E	HGNC	30347	protein_coding	YES	CCDS10605.1	ENSP00000299853	RPC5_HUMAN	H3BSI5_HUMAN,H3BRY1_HUMAN,H3BNJ0_HUMAN	UPI000006D8F8	.	.	.	3/21	.	hmmpanther:PTHR12069,Pfam_domain:PF04801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTATCTATTT	.	5	BLCA
POLR3E	0	.	GRCh37	16	22330196	22330196	+	Silent	SNP	C	C	T	rs758131420	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.915C>T	p.%3D	p.I305I	ENST00000299853	13/21	47	28	19	75	75	0	POLR3E,synonymous_variant,p.%3D,ENST00000418581,;POLR3E,synonymous_variant,p.%3D,ENST00000299853,;POLR3E,synonymous_variant,p.%3D,ENST00000564209,;POLR3E,synonymous_variant,p.%3D,ENST00000359210,;POLR3E,synonymous_variant,p.%3D,ENST00000569757,;POLR3E,3_prime_UTR_variant,,ENST00000564750,;POLR3E,non_coding_transcript_exon_variant,,ENST00000564061,;POLR3E,non_coding_transcript_exon_variant,,ENST00000569787,;POLR3E,downstream_gene_variant,,ENST00000565551,;	T	ENSG00000058600	ENST00000299853	Transcript	synonymous_variant	1082	915	305	I	atC/atT	rs758131420	.	.	1	POLR3E	HGNC	30347	protein_coding	YES	CCDS10605.1	ENSP00000299853	RPC5_HUMAN	H3BSI5_HUMAN,H3BRY1_HUMAN,H3BNJ0_HUMAN	UPI000006D8F8	.	.	.	13/21	.	hmmpanther:PTHR12069,Pfam_domain:PF04801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCGATTC	.	5	BLCA
MLST8	0	.	GRCh37	16	2258510	2258510	+	Missense_Mutation	SNP	C	C	G	rs767448333	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.758C>G	p.Ser253Cys	p.S253C	ENST00000569417	8/9	80	56	24	111	111	0	MLST8,missense_variant,p.Ser253Cys,ENST00000397124,;MLST8,missense_variant,p.Ser253Cys,ENST00000564088,;MLST8,missense_variant,p.Ser253Cys,ENST00000301724,;MLST8,missense_variant,p.Ser259Cys,ENST00000562352,;MLST8,missense_variant,p.Ser253Cys,ENST00000569417,;MLST8,missense_variant,p.Ser253Cys,ENST00000565250,;MLST8,missense_variant,p.Ser252Cys,ENST00000382450,;MLST8,3_prime_UTR_variant,,ENST00000301725,;MLST8,downstream_gene_variant,,ENST00000562479,;MLST8,downstream_gene_variant,,ENST00000569457,;BRICD5,downstream_gene_variant,,ENST00000328540,;MLST8,downstream_gene_variant,,ENST00000563179,;PGP,downstream_gene_variant,,ENST00000333503,;BRICD5,downstream_gene_variant,,ENST00000566018,;BRICD5,downstream_gene_variant,,ENST00000562360,;AC009065.3,upstream_gene_variant,,ENST00000517149,;RP11-304L19.8,upstream_gene_variant,,ENST00000561544,;MLST8,downstream_gene_variant,,ENST00000565926,;MLST8,downstream_gene_variant,,ENST00000561651,;MLST8,downstream_gene_variant,,ENST00000562844,;MLST8,downstream_gene_variant,,ENST00000564319,;MLST8,downstream_gene_variant,,ENST00000562043,;MLST8,3_prime_UTR_variant,,ENST00000565687,;MLST8,3_prime_UTR_variant,,ENST00000566835,;MLST8,non_coding_transcript_exon_variant,,ENST00000562239,;MLST8,non_coding_transcript_exon_variant,,ENST00000568194,;MLST8,non_coding_transcript_exon_variant,,ENST00000562392,;MLST8,non_coding_transcript_exon_variant,,ENST00000565330,;MLST8,non_coding_transcript_exon_variant,,ENST00000568542,;MLST8,non_coding_transcript_exon_variant,,ENST00000563067,;MLST8,downstream_gene_variant,,ENST00000563107,;BRICD5,downstream_gene_variant,,ENST00000566795,;MLST8,downstream_gene_variant,,ENST00000566653,;MLST8,downstream_gene_variant,,ENST00000569848,;MLST8,downstream_gene_variant,,ENST00000567282,;MLST8,downstream_gene_variant,,ENST00000567623,;MLST8,downstream_gene_variant,,ENST00000570224,;PGP,downstream_gene_variant,,ENST00000562001,;MLST8,downstream_gene_variant,,ENST00000564294,;MLST8,downstream_gene_variant,,ENST00000564679,;MLST8,downstream_gene_variant,,ENST00000562851,;MLST8,downstream_gene_variant,,ENST00000567928,;MLST8,downstream_gene_variant,,ENST00000565717,;MLST8,downstream_gene_variant,,ENST00000565269,;	G	ENSG00000167965	ENST00000569417	Transcript	missense_variant	1112	758	253	S/C	tCc/tGc	rs767448333	.	.	1	MLST8	HGNC	24825	protein_coding	YES	CCDS10462.2	ENSP00000456405	LST8_HUMAN	H3BQ74_HUMAN,H3BN58_HUMAN	UPI000006D8E8	.	deleterious(0)	possibly_damaging(0.765)	8/9	.	PROSITE_profiles:PS50294,PROSITE_profiles:PS50082,hmmpanther:PTHR19842,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCCTGA	byFrequency	5	BLCA
PALB2	0	.	GRCh37	16	23646997	23646997	+	Silent	SNP	C	C	T	rs761771287	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.870G>A	p.%3D	p.E290E	ENST00000261584	4/13	95	66	29	124	124	0	PALB2,synonymous_variant,p.%3D,ENST00000261584,;PALB2,downstream_gene_variant,,ENST00000561514,;PALB2,3_prime_UTR_variant,,ENST00000568219,;PALB2,intron_variant,,ENST00000565038,;PALB2,downstream_gene_variant,,ENST00000567003,;	T	ENSG00000083093	ENST00000261584	Transcript	synonymous_variant	1023	870	290	E	gaG/gaA	rs761771287,COSM3507842	.	.	-1	PALB2	HGNC	26144	protein_coding	YES	CCDS32406.1	ENSP00000261584	PALB2_HUMAN	.	UPI000000DA86	.	.	.	4/13	.	hmmpanther:PTHR14662:SF2,hmmpanther:PTHR14662	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGCCTCCAA	.	5	BLCA
ERN2	0	.	GRCh37	16	23706646	23706646	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1819C>T	p.Arg607Trp	p.R607W	ENST00000256797	15/22	13	9	4	20	20	0	ERN2,missense_variant,p.Arg507Trp,ENST00000457008,;ERN2,missense_variant,p.Arg607Trp,ENST00000256797,;PLK1,downstream_gene_variant,,ENST00000300093,;ERN2,upstream_gene_variant,,ENST00000562458,;ERN2,3_prime_UTR_variant,,ENST00000562562,;PLK1,downstream_gene_variant,,ENST00000562272,;	A	ENSG00000134398	ENST00000256797	Transcript	missense_variant	1988	1819	607	R/W	Cgg/Tgg	.	.	.	-1	ERN2	HGNC	16942	protein_coding	YES	CCDS32407.1	ENSP00000256797	ERN2_HUMAN	.	UPI000041A8F8	.	deleterious(0)	possibly_damaging(0.799)	15/22	.	PROSITE_profiles:PS50011,hmmpanther:PTHR13954:SF9,hmmpanther:PTHR13954,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCGCCGAACCA	.	4	BLCA
LCMT1	0	.	GRCh37	16	25123189	25123189	+	5'UTR	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-16A>G	.	.	ENST00000399069	1/11	13	8	5	16	16	0	LCMT1,5_prime_UTR_variant,,ENST00000399069,;LCMT1,5_prime_UTR_variant,,ENST00000380966,;LCMT1,upstream_gene_variant,,ENST00000570981,;RP11-449H11.1,upstream_gene_variant,,ENST00000569920,;RP11-449H11.1,upstream_gene_variant,,ENST00000563176,;RP11-449H11.1,upstream_gene_variant,,ENST00000563962,;LCMT1,intron_variant,,ENST00000577157,;LCMT1,5_prime_UTR_variant,,ENST00000564011,;LCMT1,5_prime_UTR_variant,,ENST00000380962,;	G	ENSG00000205629	ENST00000399069	Transcript	5_prime_UTR_variant	140	.	.	.	.	.	.	.	1	LCMT1	HGNC	17557	protein_coding	YES	CCDS45445.1	ENSP00000382021	LCMT1_HUMAN	I3L2Q8_HUMAN	UPI0000000C29	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	CTCCCAGGAAC	.	4	BLCA
NSMCE1	0	.	GRCh37	16	27246532	27246532	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225C>T	p.%3D	p.V75V	ENST00000361439	3/8	22	18	4	36	36	0	NSMCE1,synonymous_variant,p.%3D,ENST00000564342,;NSMCE1,synonymous_variant,p.%3D,ENST00000563273,;NSMCE1,synonymous_variant,p.%3D,ENST00000563900,;NSMCE1,synonymous_variant,p.%3D,ENST00000361439,;NSMCE1,upstream_gene_variant,,ENST00000562039,;NSMCE1,downstream_gene_variant,,ENST00000567710,;NSMCE1,upstream_gene_variant,,ENST00000565384,;NSMCE1,downstream_gene_variant,,ENST00000563512,;NSMCE1,3_prime_UTR_variant,,ENST00000569236,;NSMCE1,3_prime_UTR_variant,,ENST00000566087,;NSMCE1,non_coding_transcript_exon_variant,,ENST00000565070,;NSMCE1,non_coding_transcript_exon_variant,,ENST00000561960,;	A	ENSG00000169189	ENST00000361439	Transcript	synonymous_variant	325	225	75	V	gtC/gtT	.	.	.	-1	NSMCE1	HGNC	29897	protein_coding	YES	CCDS10628.2	ENSP00000355077	NSE1_HUMAN	H3BSL0_HUMAN,H3BR73_HUMAN,H3BN81_HUMAN	UPI0000035D91	.	.	.	3/8	.	hmmpanther:PTHR20973:SF0,hmmpanther:PTHR20973,Pfam_domain:PF07574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCGTGACTCC	.	4	BLCA
GTF3C1	0	.	GRCh37	16	27481564	27481564	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4679C>T	p.Ser1560Leu	p.S1560L	ENST00000356183	31/37	91	58	32	139	138	0	GTF3C1,missense_variant,p.Ser1560Leu,ENST00000356183,;GTF3C1,missense_variant,p.Ser1560Leu,ENST00000561623,;GTF3C1,intron_variant,,ENST00000569653,;GTF3C1,non_coding_transcript_exon_variant,,ENST00000567843,;GTF3C1,3_prime_UTR_variant,,ENST00000571886,;GTF3C1,non_coding_transcript_exon_variant,,ENST00000569394,;GTF3C1,downstream_gene_variant,,ENST00000564664,;GTF3C1,upstream_gene_variant,,ENST00000562609,;	A	ENSG00000077235	ENST00000356183	Transcript	missense_variant	4695	4679	1560	S/L	tCa/tTa	.	.	.	-1	GTF3C1	HGNC	4664	protein_coding	YES	CCDS32414.1	ENSP00000348510	TF3C1_HUMAN	Q7Z7H4_HUMAN,I3L1Z3_HUMAN	UPI00001FF123	.	deleterious(0.04)	possibly_damaging(0.663)	31/37	.	hmmpanther:PTHR15180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTGAAAAG	.	5	BLCA
SH2B1	0	.	GRCh37	16	28878658	28878658	+	Missense_Mutation	SNP	C	C	T	rs754082502	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.946C>T	p.Arg316Trp	p.R316W	ENST00000322610	5/11	182	110	72	256	256	0	SH2B1,missense_variant,p.Arg316Trp,ENST00000395532,;SH2B1,missense_variant,p.Arg6Trp,ENST00000545570,;SH2B1,missense_variant,p.Arg316Trp,ENST00000322610,;SH2B1,missense_variant,p.Arg316Trp,ENST00000359285,;SH2B1,missense_variant,p.Arg316Trp,ENST00000337120,;SH2B1,5_prime_UTR_variant,,ENST00000561629,;SH2B1,intron_variant,,ENST00000566176,;SH2B1,intron_variant,,ENST00000538342,;SH2B1,intron_variant,,ENST00000567536,;SH2B1,downstream_gene_variant,,ENST00000563591,;SH2B1,upstream_gene_variant,,ENST00000569651,;SH2B1,downstream_gene_variant,,ENST00000566209,;RP11-22P6.2,upstream_gene_variant,,ENST00000567731,;SH2B1,intron_variant,,ENST00000563674,;SH2B1,upstream_gene_variant,,ENST00000569471,;	T	ENSG00000178188	ENST00000322610	Transcript	missense_variant	1385	946	316	R/W	Cgg/Tgg	rs754082502	.	.	1	SH2B1	HGNC	30417	protein_coding	YES	CCDS53996.1	ENSP00000321221	SH2B1_HUMAN	H3BVF6_HUMAN,H3BTK4_HUMAN	UPI00001AF36C	.	deleterious(0)	probably_damaging(0.99)	5/11	.	hmmpanther:PTHR10872:SF3,hmmpanther:PTHR10872,Gene3D:2.30.29.30,Pfam_domain:PF00169,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCGGCCC	.	5	BLCA
RABEP2	0	.	GRCh37	16	28935728	28935728	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>A	p.%3D	p.L90L	ENST00000358201	2/13	36	24	11	58	58	0	RABEP2,synonymous_variant,p.%3D,ENST00000567483,;RABEP2,synonymous_variant,p.%3D,ENST00000568703,;RABEP2,synonymous_variant,p.%3D,ENST00000358201,;RABEP2,synonymous_variant,p.%3D,ENST00000357573,;RABEP2,intron_variant,,ENST00000544477,;RABEP2,intron_variant,,ENST00000566762,;RABEP2,upstream_gene_variant,,ENST00000561501,;RABEP2,non_coding_transcript_exon_variant,,ENST00000562475,;RABEP2,non_coding_transcript_exon_variant,,ENST00000561803,;RABEP2,non_coding_transcript_exon_variant,,ENST00000564473,;RABEP2,synonymous_variant,p.%3D,ENST00000563577,;RABEP2,non_coding_transcript_exon_variant,,ENST00000564579,;RABEP2,non_coding_transcript_exon_variant,,ENST00000562590,;RABEP2,non_coding_transcript_exon_variant,,ENST00000570030,;	T	ENSG00000177548	ENST00000358201	Transcript	synonymous_variant	859	270	90	L	ctG/ctA	.	.	.	-1	RABEP2	HGNC	24817	protein_coding	YES	CCDS42140.1	ENSP00000350934	RABE2_HUMAN	H3BU67_HUMAN,H3BNR8_HUMAN,H3BNR2_HUMAN	UPI0000367822	.	.	.	2/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31179:SF6,hmmpanther:PTHR31179,Pfam_domain:PF03528	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCAGGAT	.	5	BLCA
SNX29P2	0	.	GRCh37	16	29367157	29367157	+	RNA	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.983G>A	.	.	ENST00000398878	7/13	31	18	13	47	47	0	SNX29P2,non_coding_transcript_exon_variant,,ENST00000398878,;SNX29P2,non_coding_transcript_exon_variant,,ENST00000604430,;SNX29P2,upstream_gene_variant,,ENST00000356328,;SNX29P2,non_coding_transcript_exon_variant,,ENST00000509141,;SNX29P2,non_coding_transcript_exon_variant,,ENST00000507381,;SNX29P2,upstream_gene_variant,,ENST00000502626,;SNX29P2,non_coding_transcript_exon_variant,,ENST00000603801,;	A	ENSG00000198106	ENST00000398878	Transcript	non_coding_transcript_exon_variant	983	.	.	.	.	.	.	.	1	SNX29P2	HGNC	31914	lincRNA	YES	.	.	.	.	.	.	.	.	7/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGCAAGC	.	5	BLCA
KIF22	0	.	GRCh37	16	29816583	29816596	+	Splice_Site	DEL	GGCAAACATCCTGG	GGCAAACATCCTGG	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	GGCAAACATCCTGG	GGCAAACATCCTGG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1951_1964delGCAAACATCCTGGG	p.Ala651SerfsTer?	p.X651_splice	ENST00000160827	14/14	88	77	11	161	161	0	KIF22,splice_acceptor_variant,p.Ala597SerfsTer?,ENST00000569382,;KIF22,splice_acceptor_variant,p.Ala583SerfsTer?,ENST00000561482,;KIF22,splice_acceptor_variant,p.Ala583SerfsTer?,ENST00000400751,;KIF22,splice_acceptor_variant,p.Ala651SerfsTer?,ENST00000160827,;MAZ,upstream_gene_variant,,ENST00000562594,;MAZ,upstream_gene_variant,,ENST00000545521,;MAZ,upstream_gene_variant,,ENST00000566906,;MAZ,upstream_gene_variant,,ENST00000569978,;MAZ,upstream_gene_variant,,ENST00000568544,;MAZ,upstream_gene_variant,,ENST00000563012,;KIF22,downstream_gene_variant,,ENST00000400750,;MAZ,upstream_gene_variant,,ENST00000568282,;MAZ,upstream_gene_variant,,ENST00000562557,;MAZ,upstream_gene_variant,,ENST00000219782,;MAZ,upstream_gene_variant,,ENST00000562337,;MAZ,upstream_gene_variant,,ENST00000563402,;MAZ,upstream_gene_variant,,ENST00000568411,;MAZ,upstream_gene_variant,,ENST00000567444,;MAZ,upstream_gene_variant,,ENST00000322945,;AC009133.20,downstream_gene_variant,,ENST00000569039,;AC009133.15,downstream_gene_variant,,ENST00000566537,;AC009133.14,downstream_gene_variant,,ENST00000569981,;AC009133.14,downstream_gene_variant,,ENST00000563806,;KIF22,splice_acceptor_variant,,ENST00000568312,;KIF22,non_coding_transcript_exon_variant,,ENST00000565736,;MAZ,upstream_gene_variant,,ENST00000561855,;MAZ,upstream_gene_variant,,ENST00000565777,;	-	ENSG00000079616	ENST00000160827	Transcript	splice_acceptor_variant	?-2003	?-1963	?-655	.	.	.	.	.	1	KIF22	HGNC	6391	protein_coding	YES	CCDS10653.1	ENSP00000160827	KIF22_HUMAN	Q14985_HUMAN,H3BTH5_HUMAN,H3BQB9_HUMAN	UPI00000012C0	.	.	.	14/14	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTTGCAGGCAAACATCCTGGGTCTC	.	3	BLCA
ASPHD1	0	.	GRCh37	16	29913196	29913196	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.904G>C	p.Glu302Gln	p.E302Q	ENST00000308748	1/3	26	16	10	38	38	0	ASPHD1,missense_variant,p.Glu302Gln,ENST00000308748,;ASPHD1,missense_variant,p.Glu21Gln,ENST00000483405,;ASPHD1,missense_variant,p.Glu21Gln,ENST00000563177,;SEZ6L2,upstream_gene_variant,,ENST00000308713,;SEZ6L2,upstream_gene_variant,,ENST00000346932,;SEZ6L2,upstream_gene_variant,,ENST00000537485,;SEZ6L2,upstream_gene_variant,,ENST00000350527,;KCTD13,downstream_gene_variant,,ENST00000568000,;SEZ6L2,upstream_gene_variant,,ENST00000568380,;KCTD13,downstream_gene_variant,,ENST00000568995,;SEZ6L2,upstream_gene_variant,,ENST00000562159,;ASPHD1,missense_variant,p.Glu302Gln,ENST00000566693,;ASPHD1,missense_variant,p.Glu302Gln,ENST00000414952,;KCTD13,downstream_gene_variant,,ENST00000566842,;KCTD13,downstream_gene_variant,,ENST00000308768,;	C	ENSG00000174939	ENST00000308748	Transcript	missense_variant	1156	904	302	E/Q	Gag/Cag	.	.	.	1	ASPHD1	HGNC	27380	protein_coding	YES	CCDS10660.1	ENSP00000311447	ASPH1_HUMAN	I3L2Y2_HUMAN,I3L2A5_HUMAN	UPI0000197DF0	.	tolerated(0.51)	probably_damaging(0.91)	1/3	.	hmmpanther:PTHR12366,hmmpanther:PTHR12366:SF3,Pfam_domain:PF05118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTCGAGGGC	.	5	BLCA
HIRIP3	0	.	GRCh37	16	30005376	30005376	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1090G>A	p.Asp364Asn	p.D364N	ENST00000279392	4/7	61	45	16	58	58	0	HIRIP3,missense_variant,p.Asp364Asn,ENST00000279392,;HIRIP3,intron_variant,,ENST00000564026,;INO80E,upstream_gene_variant,,ENST00000563197,;TAOK2,downstream_gene_variant,,ENST00000279394,;INO80E,upstream_gene_variant,,ENST00000567254,;INO80E,upstream_gene_variant,,ENST00000304516,;INO80E,upstream_gene_variant,,ENST00000567705,;HIRIP3,downstream_gene_variant,,ENST00000566471,;INO80E,upstream_gene_variant,,ENST00000563040,;HIRIP3,intron_variant,,ENST00000563680,;HIRIP3,intron_variant,,ENST00000563053,;INO80E,upstream_gene_variant,,ENST00000567987,;INO80E,upstream_gene_variant,,ENST00000568043,;HIRIP3,downstream_gene_variant,,ENST00000568880,;INO80E,upstream_gene_variant,,ENST00000540562,;TAOK2,downstream_gene_variant,,ENST00000570844,;INO80E,upstream_gene_variant,,ENST00000569957,;INO80E,upstream_gene_variant,,ENST00000567065,;INO80E,upstream_gene_variant,,ENST00000380503,;HIRIP3,downstream_gene_variant,,ENST00000565996,;INO80E,upstream_gene_variant,,ENST00000562441,;	T	ENSG00000149929	ENST00000279392	Transcript	missense_variant	1921	1090	364	D/N	Gac/Aac	.	.	.	-1	HIRIP3	HGNC	4917	protein_coding	YES	CCDS10664.1	ENSP00000279392	HIRP3_HUMAN	B3KQL0_HUMAN	UPI000013DBC9	.	deleterious(0.01)	probably_damaging(0.989)	4/7	.	hmmpanther:PTHR15410,hmmpanther:PTHR15410:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGTCACTTT	.	5	BLCA
GDPD3	0	.	GRCh37	16	30123693	30123693	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>T	p.%3D	p.F139F	ENST00000406256	5/10	68	40	28	74	74	0	GDPD3,synonymous_variant,p.%3D,ENST00000406256,;MAPK3,downstream_gene_variant,,ENST00000395202,;MAPK3,downstream_gene_variant,,ENST00000263025,;MAPK3,downstream_gene_variant,,ENST00000484663,;GDPD3,upstream_gene_variant,,ENST00000566613,;MAPK3,downstream_gene_variant,,ENST00000322266,;MAPK3,downstream_gene_variant,,ENST00000478356,;MAPK3,downstream_gene_variant,,ENST00000395200,;MAPK3,downstream_gene_variant,,ENST00000395199,;MAPK3,downstream_gene_variant,,ENST00000403394,;RP11-455F5.4,downstream_gene_variant,,ENST00000566190,;MAPK3,downstream_gene_variant,,ENST00000494643,;GDPD3,non_coding_transcript_exon_variant,,ENST00000360688,;MAPK3,downstream_gene_variant,,ENST00000473431,;MAPK3,downstream_gene_variant,,ENST00000466521,;MAPK3,downstream_gene_variant,,ENST00000461737,;MAPK3,downstream_gene_variant,,ENST00000485579,;MAPK3,downstream_gene_variant,,ENST00000490298,;GDPD3,upstream_gene_variant,,ENST00000565704,;GDPD3,upstream_gene_variant,,ENST00000566434,;	A	ENSG00000102886	ENST00000406256	Transcript	synonymous_variant	795	417	139	F	ttC/ttT	.	.	.	-1	GDPD3	HGNC	28638	protein_coding	YES	CCDS10671.2	ENSP00000384363	GDPD3_HUMAN	.	UPI00001FFEC4	.	.	.	5/10	.	PROSITE_profiles:PS51704,hmmpanther:PTHR23344:SF12,hmmpanther:PTHR23344,Pfam_domain:PF03009,Gene3D:3.20.20.190,Superfamily_domains:SSF51695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGGAACAG	.	5	BLCA
PAQR4	0	.	GRCh37	16	3019837	3019837	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.162G>A	p.%3D	p.T54T	ENST00000318782	1/3	21	16	4	36	36	0	PAQR4,synonymous_variant,p.%3D,ENST00000572687,;PAQR4,synonymous_variant,p.%3D,ENST00000293978,;PAQR4,synonymous_variant,p.%3D,ENST00000318782,;PAQR4,intron_variant,,ENST00000576565,;PKMYT1,intron_variant,,ENST00000431515,;KREMEN2,downstream_gene_variant,,ENST00000303746,;PKMYT1,downstream_gene_variant,,ENST00000262300,;PAQR4,upstream_gene_variant,,ENST00000574988,;PKMYT1,downstream_gene_variant,,ENST00000575040,;PKMYT1,downstream_gene_variant,,ENST00000573944,;PKMYT1,downstream_gene_variant,,ENST00000440027,;KREMEN2,downstream_gene_variant,,ENST00000571007,;KREMEN2,downstream_gene_variant,,ENST00000319500,;KREMEN2,downstream_gene_variant,,ENST00000572045,;KREMEN2,downstream_gene_variant,,ENST00000575885,;PKMYT1,downstream_gene_variant,,ENST00000574730,;KREMEN2,downstream_gene_variant,,ENST00000575769,;PKMYT1,downstream_gene_variant,,ENST00000574385,;PKMYT1,intron_variant,,ENST00000571102,;PKMYT1,downstream_gene_variant,,ENST00000574333,;PKMYT1,upstream_gene_variant,,ENST00000572832,;PKMYT1,downstream_gene_variant,,ENST00000575981,;PKMYT1,downstream_gene_variant,,ENST00000574680,;PKMYT1,downstream_gene_variant,,ENST00000382240,;	A	ENSG00000162073	ENST00000318782	Transcript	synonymous_variant	592	162	54	T	acG/acA	COSM417051	.	.	1	PAQR4	HGNC	26386	protein_coding	YES	CCDS10485.1	ENSP00000321804	PAQR4_HUMAN	I3L1A2_HUMAN	UPI0000072F38	.	.	.	1/3	.	Transmembrane_helices:TMhelix,Pfam_domain:PF03006,hmmpanther:PTHR20855,hmmpanther:PTHR20855:SF30	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACACGCACGG	.	3	BLCA
PAQR4	0	.	GRCh37	16	3019841	3019841	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>A	p.Gly56Arg	p.G56R	ENST00000318782	1/3	21	16	5	37	37	0	PAQR4,missense_variant,p.Gly56Arg,ENST00000572687,;PAQR4,missense_variant,p.Gly56Ser,ENST00000293978,;PAQR4,missense_variant,p.Gly56Arg,ENST00000318782,;PAQR4,intron_variant,,ENST00000576565,;PKMYT1,intron_variant,,ENST00000431515,;KREMEN2,downstream_gene_variant,,ENST00000303746,;PKMYT1,downstream_gene_variant,,ENST00000262300,;PAQR4,upstream_gene_variant,,ENST00000574988,;PKMYT1,downstream_gene_variant,,ENST00000575040,;PKMYT1,downstream_gene_variant,,ENST00000573944,;PKMYT1,downstream_gene_variant,,ENST00000440027,;KREMEN2,downstream_gene_variant,,ENST00000571007,;KREMEN2,downstream_gene_variant,,ENST00000319500,;KREMEN2,downstream_gene_variant,,ENST00000572045,;KREMEN2,downstream_gene_variant,,ENST00000575885,;PKMYT1,downstream_gene_variant,,ENST00000574730,;KREMEN2,downstream_gene_variant,,ENST00000575769,;PKMYT1,downstream_gene_variant,,ENST00000574385,;PKMYT1,intron_variant,,ENST00000571102,;PKMYT1,downstream_gene_variant,,ENST00000574333,;PKMYT1,upstream_gene_variant,,ENST00000572832,;PKMYT1,downstream_gene_variant,,ENST00000575981,;PKMYT1,downstream_gene_variant,,ENST00000574680,;PKMYT1,downstream_gene_variant,,ENST00000382240,;	A	ENSG00000162073	ENST00000318782	Transcript	missense_variant	596	166	56	G/R	Ggg/Agg	.	.	.	1	PAQR4	HGNC	26386	protein_coding	YES	CCDS10485.1	ENSP00000321804	PAQR4_HUMAN	I3L1A2_HUMAN	UPI0000072F38	.	deleterious(0.01)	benign(0.229)	1/3	.	Transmembrane_helices:TMhelix,Pfam_domain:PF03006,hmmpanther:PTHR20855,hmmpanther:PTHR20855:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCACGGTGAG	.	3	BLCA
CORO1A	0	.	GRCh37	16	30198783	30198783	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.717C>T	p.%3D	p.F239F	ENST00000219150	6/11	14	9	5	45	45	0	CORO1A,synonymous_variant,p.%3D,ENST00000219150,;CORO1A,synonymous_variant,p.%3D,ENST00000565497,;CORO1A,synonymous_variant,p.%3D,ENST00000563778,;CORO1A,synonymous_variant,p.%3D,ENST00000570244,;CORO1A,synonymous_variant,p.%3D,ENST00000570045,;CORO1A,downstream_gene_variant,,ENST00000569970,;CORO1A,downstream_gene_variant,,ENST00000569203,;CORO1A,downstream_gene_variant,,ENST00000561815,;RP11-455F5.5,upstream_gene_variant,,ENST00000566144,;RP11-455F5.5,upstream_gene_variant,,ENST00000568506,;RP11-455F5.5,upstream_gene_variant,,ENST00000567153,;CORO1A,downstream_gene_variant,,ENST00000564446,;CORO1A,downstream_gene_variant,,ENST00000566619,;CORO1A,downstream_gene_variant,,ENST00000569469,;CORO1A,non_coding_transcript_exon_variant,,ENST00000567034,;CORO1A,non_coding_transcript_exon_variant,,ENST00000568763,;CORO1A,non_coding_transcript_exon_variant,,ENST00000564768,;CORO1A,downstream_gene_variant,,ENST00000561849,;CORO1A,upstream_gene_variant,,ENST00000562129,;CORO1A,downstream_gene_variant,,ENST00000568982,;	T	ENSG00000102879	ENST00000219150	Transcript	synonymous_variant	1022	717	239	F	ttC/ttT	.	.	.	1	CORO1A	HGNC	2252	protein_coding	YES	CCDS10673.1	ENSP00000219150	COR1A_HUMAN	H3BU76_HUMAN,H3BRJ0_HUMAN,H3BNA2_HUMAN	UPI00000413AE	.	.	.	6/11	.	hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF18,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE	GGCTTCAGCCG	.	3	BLCA
ZNF689	0	.	GRCh37	16	30620894	30620894	+	Missense_Mutation	SNP	C	C	T	rs755217893	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>A	p.Ala91Thr	p.A91T	ENST00000287461	2/3	58	46	11	105	105	0	ZNF689,missense_variant,p.Ala91Thr,ENST00000287461,;RP11-146F11.5,downstream_gene_variant,,ENST00000563540,;ZNF689,non_coding_transcript_exon_variant,,ENST00000565710,;ZNF689,non_coding_transcript_exon_variant,,ENST00000565440,;ZNF689,non_coding_transcript_exon_variant,,ENST00000566673,;ZNF689,non_coding_transcript_exon_variant,,ENST00000563304,;ZNF689,upstream_gene_variant,,ENST00000564262,;	T	ENSG00000156853	ENST00000287461	Transcript	missense_variant	609	271	91	A/T	Gct/Act	rs755217893	.	.	-1	ZNF689	HGNC	25173	protein_coding	YES	CCDS10686.1	ENSP00000287461	ZN689_HUMAN	.	UPI000006CDAD	.	tolerated(0.44)	benign(0.094)	2/3	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGCCGGTT	byFrequency	5	BLCA
RNF40	0	.	GRCh37	16	30779477	30779477	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1605A>G	p.%3D	p.P535P	ENST00000324685	13/20	70	41	28	85	85	0	RNF40,synonymous_variant,p.%3D,ENST00000563683,;RNF40,synonymous_variant,p.%3D,ENST00000357890,;RNF40,synonymous_variant,p.%3D,ENST00000324685,;RNF40,synonymous_variant,p.%3D,ENST00000402121,;RNF40,downstream_gene_variant,,ENST00000566811,;RNF40,downstream_gene_variant,,ENST00000565995,;RNF40,downstream_gene_variant,,ENST00000565931,;RNF40,downstream_gene_variant,,ENST00000563909,;RNF40,upstream_gene_variant,,ENST00000567365,;RNF40,non_coding_transcript_exon_variant,,ENST00000564260,;RNF40,non_coding_transcript_exon_variant,,ENST00000493683,;RNF40,downstream_gene_variant,,ENST00000566703,;	G	ENSG00000103549	ENST00000324685	Transcript	synonymous_variant	2040	1605	535	P	ccA/ccG	.	.	.	1	RNF40	HGNC	16867	protein_coding	YES	CCDS10691.1	ENSP00000325677	BRE1B_HUMAN	I3L332_HUMAN,H3BUL6_HUMAN,H3BS50_HUMAN,H3BQ99_HUMAN,B4E313_HUMAN	UPI000013D2CF	.	.	.	13/20	.	hmmpanther:PTHR23163,hmmpanther:PTHR23163:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCCAGAGGA	.	5	BLCA
PRSS36	0	.	GRCh37	16	31150602	31150602	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2425G>A	p.Glu809Lys	p.E809K	ENST00000268281	15/15	37	21	15	29	29	0	PRSS36,missense_variant,p.Glu706Lys,ENST00000418068,;PRSS36,missense_variant,p.Glu809Lys,ENST00000268281,;PRSS36,missense_variant,p.Glu804Lys,ENST00000569305,;PRSS8,upstream_gene_variant,,ENST00000568261,;PRSS8,upstream_gene_variant,,ENST00000567797,;PRSS8,upstream_gene_variant,,ENST00000317508,;PRSS8,upstream_gene_variant,,ENST00000567531,;PRSS36,3_prime_UTR_variant,,ENST00000571878,;PRSS36,non_coding_transcript_exon_variant,,ENST00000562368,;PRSS36,downstream_gene_variant,,ENST00000563693,;PRSS8,upstream_gene_variant,,ENST00000567833,;PRSS8,upstream_gene_variant,,ENST00000564025,;	T	ENSG00000178226	ENST00000268281	Transcript	missense_variant	2484	2425	809	E/K	Gag/Aag	.	.	.	-1	PRSS36	HGNC	26906	protein_coding	YES	CCDS32436.1	ENSP00000268281	POLS2_HUMAN	B4DNP1_HUMAN	UPI00001FFF6A	.	tolerated(0.06)	possibly_damaging(0.824)	15/15	.	Superfamily_domains:SSF50494,PIRSF_domain:PIRSF037933	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTCCCA	.	5	BLCA
PYDC1	0	.	GRCh37	16	31228159	31228159	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.191A>G	p.Tyr64Cys	p.Y64C	ENST00000302964	1/2	31	23	8	52	52	0	PYDC1,missense_variant,p.Tyr64Cys,ENST00000302964,;TRIM72,intron_variant,,ENST00000322122,;PYDC1,upstream_gene_variant,,ENST00000568383,;	C	ENSG00000169900	ENST00000302964	Transcript	missense_variant	522	191	64	Y/C	tAc/tGc	.	.	.	-1	PYDC1	HGNC	30261	protein_coding	YES	CCDS10710.1	ENSP00000304336	PYDC1_HUMAN	.	UPI0000034E14	.	deleterious(0)	probably_damaging(0.981)	1/2	.	PROSITE_profiles:PS50824,hmmpanther:PTHR10454:SF130,hmmpanther:PTHR10454,Pfam_domain:PF02758,Gene3D:1.10.533.10,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	CTGCGTAGTCC	.	4	BLCA
ZSCAN10	0	.	GRCh37	16	3142294	3142294	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255G>A	p.%3D	p.K85K	ENST00000252463	2/5	49	35	13	49	49	0	ZSCAN10,synonymous_variant,p.%3D,ENST00000576985,;ZSCAN10,synonymous_variant,p.%3D,ENST00000576483,;ZSCAN10,synonymous_variant,p.%3D,ENST00000252463,;ZSCAN10,5_prime_UTR_variant,,ENST00000575108,;ZSCAN10,intron_variant,,ENST00000572548,;ZSCAN10,intron_variant,,ENST00000538082,;ZSCAN10,intron_variant,,ENST00000572431,;ZSCAN10,downstream_gene_variant,,ENST00000573931,;ZSCAN10,non_coding_transcript_exon_variant,,ENST00000571903,;ZSCAN10,downstream_gene_variant,,ENST00000577059,;	T	ENSG00000130182	ENST00000252463	Transcript	synonymous_variant	343	255	85	K	aaG/aaA	.	.	.	-1	ZSCAN10	HGNC	12997	protein_coding	YES	CCDS10493.1	ENSP00000252463	ZSC10_HUMAN	I3L1J3_HUMAN,I3L0Q3_HUMAN	UPI000006F1B0	.	.	.	2/5	.	SMART_domains:SM00431	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTCTTGCC	.	5	BLCA
ZNF263	0	.	GRCh37	16	3338459	3338459	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.775C>G	p.His259Asp	p.H259D	ENST00000219069	5/6	35	26	8	43	43	0	ZNF263,missense_variant,p.His259Asp,ENST00000219069,;ZNF263,synonymous_variant,p.%3D,ENST00000575823,;ZNF263,intron_variant,,ENST00000538765,;ZNF263,intron_variant,,ENST00000574253,;ZNF263,downstream_gene_variant,,ENST00000573578,;ZNF263,downstream_gene_variant,,ENST00000572748,;ZNF263,upstream_gene_variant,,ENST00000574674,;ZNF263,upstream_gene_variant,,ENST00000575332,;	G	ENSG00000006194	ENST00000219069	Transcript	missense_variant	1651	775	259	H/D	Cac/Gac	.	.	.	1	ZNF263	HGNC	13056	protein_coding	YES	CCDS10499.1	ENSP00000219069	ZN263_HUMAN	B4DI05_HUMAN	UPI000013C33A	.	tolerated(0.34)	benign(0.006)	5/6	.	PROSITE_profiles:PS50805,hmmpanther:PTHR23226:SF50,hmmpanther:PTHR23226,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCACATT	.	5	BLCA
SLX4	0	.	GRCh37	16	3639732	3639732	+	Missense_Mutation	SNP	C	C	T	rs759828401	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3907G>A	p.Glu1303Lys	p.E1303K	ENST00000294008	12/15	74	48	25	128	127	0	SLX4,missense_variant,p.Glu1303Lys,ENST00000294008,;	T	ENSG00000188827	ENST00000294008	Transcript	missense_variant	4548	3907	1303	E/K	Gaa/Aaa	rs759828401	.	.	-1	SLX4	HGNC	23845	protein_coding	YES	CCDS10506.2	ENSP00000294008	SLX4_HUMAN	.	UPI000050D2C5	.	tolerated(0.21)	benign(0.006)	12/15	.	hmmpanther:PTHR21541	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCGTTCC	.	5	BLCA
CREBBP	0	.	GRCh37	16	3799627	3799627	+	Splice_Site	SNP	C	C	T	rs200782888	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3836+1G>A	.	p.X1279_splice	ENST00000262367	.	37	25	12	34	34	0	CREBBP,splice_donor_variant,,ENST00000573517,;CREBBP,splice_donor_variant,,ENST00000262367,;CREBBP,splice_donor_variant,,ENST00000382070,;CREBBP,splice_donor_variant,,ENST00000570939,;CREBBP,upstream_gene_variant,,ENST00000572569,;CREBBP,upstream_gene_variant,,ENST00000574740,;	T	ENSG00000005339	ENST00000262367	Transcript	splice_donor_variant	.	.	.	.	.	rs200782888,CS056749,COSM166411	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	.	.	21/30	.	.	.	.	.	.	.	.	.	.	pathogenic	0,0,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.?|c.3836+1G>A|4	RADIA|MUTECT|MUSE	ACTTACGGTTC	byCluster	3	BLCA
TMEM8A	0	.	GRCh37	16	424378	424378	+	Missense_Mutation	SNP	G	G	C	rs370270045	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1598C>G	p.Thr533Arg	p.T533R	ENST00000431232	10/13	28	21	7	34	34	0	TMEM8A,missense_variant,p.Thr340Arg,ENST00000250930,;TMEM8A,missense_variant,p.Thr81Arg,ENST00000448854,;TMEM8A,missense_variant,p.Thr40Arg,ENST00000424078,;TMEM8A,missense_variant,p.Thr533Arg,ENST00000431232,;MRPL28,upstream_gene_variant,,ENST00000447696,;MRPL28,upstream_gene_variant,,ENST00000450882,;MRPL28,upstream_gene_variant,,ENST00000429738,;MRPL28,upstream_gene_variant,,ENST00000389675,;MRPL28,upstream_gene_variant,,ENST00000441883,;MRPL28,upstream_gene_variant,,ENST00000199706,;TMEM8A,downstream_gene_variant,,ENST00000427313,;TMEM8A,downstream_gene_variant,,ENST00000476735,;TMEM8A,non_coding_transcript_exon_variant,,ENST00000467452,;MRPL28,upstream_gene_variant,,ENST00000483764,;MRPL28,upstream_gene_variant,,ENST00000469744,;MRPL28,upstream_gene_variant,,ENST00000481453,;TMEM8A,downstream_gene_variant,,ENST00000475348,;MRPL28,upstream_gene_variant,,ENST00000461550,;	C	ENSG00000129925	ENST00000431232	Transcript	missense_variant	1759	1598	533	T/R	aCg/aGg	rs370270045	.	.	-1	TMEM8A	HGNC	17205	protein_coding	YES	CCDS10407.1	ENSP00000401338	TMM8A_HUMAN	K4DI83_HUMAN,C9J8D7_HUMAN	UPI000013CCD4	.	deleterious(0)	probably_damaging(0.98)	10/13	.	PROSITE_profiles:PS50026,hmmpanther:PTHR14319:SF7,hmmpanther:PTHR14319	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCCGTGCAG	byCluster|by1000G	5	BLCA
GLIS2	0	.	GRCh37	16	4382411	4382411	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130G>A	p.Asp44Asn	p.D44N	ENST00000262366	3/8	24	20	4	27	27	0	GLIS2,missense_variant,p.Asp44Asn,ENST00000262366,;GLIS2,missense_variant,p.Asp44Asn,ENST00000433375,;PAM16,intron_variant,,ENST00000577031,;AC005356.1,upstream_gene_variant,,ENST00000576080,;RP11-295D4.1,downstream_gene_variant,,ENST00000574705,;	A	ENSG00000126603	ENST00000262366	Transcript	missense_variant	951	130	44	D/N	Gat/Aat	.	.	.	1	GLIS2	HGNC	29450	protein_coding	YES	CCDS10511.1	ENSP00000262366	GLIS2_HUMAN	B3KTH4_HUMAN	UPI000013D29C	.	deleterious(0)	possibly_damaging(0.54)	3/8	.	hmmpanther:PTHR19818:SF11,hmmpanther:PTHR19818	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGGATGAC	.	4	BLCA
C16orf71	0	.	GRCh37	16	4797450	4797450	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1387C>T	p.Gln463Ter	p.Q463*	ENST00000299320	9/10	41	28	12	68	68	0	C16orf71,stop_gained,p.Gln480Ter,ENST00000590191,;C16orf71,stop_gained,p.Gln463Ter,ENST00000299320,;ZNF500,downstream_gene_variant,,ENST00000545009,;ZNF500,downstream_gene_variant,,ENST00000219478,;ZNF500,downstream_gene_variant,,ENST00000588942,;RP11-127I20.7,intron_variant,,ENST00000588099,;ZNF500,downstream_gene_variant,,ENST00000591026,;C16orf71,non_coding_transcript_exon_variant,,ENST00000586256,;ZNF500,downstream_gene_variant,,ENST00000589422,;	T	ENSG00000166246	ENST00000299320	Transcript	stop_gained	1865	1387	463	Q/*	Cag/Tag	.	.	.	1	C16orf71	HGNC	25081	protein_coding	YES	CCDS10521.1	ENSP00000299320	CP071_HUMAN	K7ENX3_HUMAN	UPI000013E57E	.	.	.	9/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCAGGCC	.	5	BLCA
LONP2	0	.	GRCh37	16	48311287	48311287	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280A>G	p.Asn427Ser	p.N427S	ENST00000285737	8/15	61	42	19	54	54	0	LONP2,missense_variant,p.Asn383Ser,ENST00000535754,;LONP2,missense_variant,p.Asn427Ser,ENST00000285737,;LONP2,missense_variant,p.Asn383Ser,ENST00000416006,;LONP2,missense_variant,p.Asn132Ser,ENST00000570174,;LONP2,3_prime_UTR_variant,,ENST00000566755,;	G	ENSG00000102910	ENST00000285737	Transcript	missense_variant	1373	1280	427	N/S	aAc/aGc	.	.	.	1	LONP2	HGNC	20598	protein_coding	YES	CCDS10734.1	ENSP00000285737	LONP2_HUMAN	Q9BU35_HUMAN	UPI000000DCD1	.	tolerated(0.26)	benign(0.068)	8/15	.	HAMAP:MF_03121,hmmpanther:PTHR10046,hmmpanther:PTHR10046:SF24,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00763,Pfam_domain:PF00004,SMART_domains:SM00382,PIRSF_domain:PIRSF001174,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCAACGGCT	.	5	BLCA
SEPT12	0	.	GRCh37	16	4833481	4833481	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708C>T	p.%3D	p.I236I	ENST00000268231	7/10	66	51	15	95	95	0	SEPT12,synonymous_variant,p.%3D,ENST00000268231,;SEPT12,synonymous_variant,p.%3D,ENST00000396693,;SMIM22,upstream_gene_variant,,ENST00000589327,;SMIM22,upstream_gene_variant,,ENST00000589721,;SEPT12,downstream_gene_variant,,ENST00000591624,;SEPT12,downstream_gene_variant,,ENST00000591861,;SEPT12,synonymous_variant,p.%3D,ENST00000587603,;SEPT12,intron_variant,,ENST00000588241,;SEPT12,downstream_gene_variant,,ENST00000590303,;SEPT12,downstream_gene_variant,,ENST00000590741,;SMIM22,upstream_gene_variant,,ENST00000591004,;	A	ENSG00000140623	ENST00000268231	Transcript	synonymous_variant	972	708	236	I	atC/atT	.	.	.	-1	SEPT12	HGNC	26348	protein_coding	YES	CCDS10522.1	ENSP00000268231	SEP12_HUMAN	K7EP92_HUMAN	UPI000007422A	.	.	.	7/10	.	Superfamily_domains:SSF52540,PIRSF_domain:PIRSF006698,Pfam_domain:PF00735,hmmpanther:PTHR18884,hmmpanther:PTHR18884:SF66,PROSITE_profiles:PS51719	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAGGATTTT	.	5	BLCA
LONP2	0	.	GRCh37	16	48381519	48381519	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2040G>A	p.%3D	p.E680E	ENST00000285737	13/15	55	36	19	77	77	0	LONP2,synonymous_variant,p.%3D,ENST00000535754,;LONP2,synonymous_variant,p.%3D,ENST00000285737,;LONP2,synonymous_variant,p.%3D,ENST00000565867,;LONP2,upstream_gene_variant,,ENST00000564259,;LONP2,3_prime_UTR_variant,,ENST00000416006,;LONP2,3_prime_UTR_variant,,ENST00000566755,;	A	ENSG00000102910	ENST00000285737	Transcript	synonymous_variant	2133	2040	680	E	gaG/gaA	.	.	.	1	LONP2	HGNC	20598	protein_coding	YES	CCDS10734.1	ENSP00000285737	LONP2_HUMAN	Q9BU35_HUMAN	UPI000000DCD1	.	.	.	13/15	.	HAMAP:MF_03121,hmmpanther:PTHR10046,hmmpanther:PTHR10046:SF24,Gene3D:3.30.230.10,TIGRFAM_domain:TIGR00763,Pfam_domain:PF05362,PIRSF_domain:PIRSF001174,Superfamily_domains:SSF54211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGAGGGCCA	.	5	BLCA
ADCY7	0	.	GRCh37	16	50344595	50344595	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2161-3C>T	.	.	ENST00000394697	.	34	20	14	52	52	0	ADCY7,splice_region_variant,,ENST00000254235,;ADCY7,splice_region_variant,,ENST00000394697,;ADCY7,downstream_gene_variant,,ENST00000537579,;BRD7,downstream_gene_variant,,ENST00000562383,;ADCY7,downstream_gene_variant,,ENST00000538642,;ADCY7,downstream_gene_variant,,ENST00000566433,;ADCY7,downstream_gene_variant,,ENST00000570187,;ADCY7,upstream_gene_variant,,ENST00000568930,;ADCY7,downstream_gene_variant,,ENST00000567277,;	T	ENSG00000121281	ENST00000394697	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ADCY7	HGNC	238	protein_coding	YES	CCDS10741.1	ENSP00000378187	ADCY7_HUMAN	I3L3Q5_HUMAN	UPI000004C5DB	.	.	.	.	18/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGTAC	.	4	BLCA
CHD9	0	.	GRCh37	16	53265649	53265649	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2464G>A	p.Glu822Lys	p.E822K	ENST00000566029	10/39	40	29	11	44	44	0	CHD9,missense_variant,p.Glu822Lys,ENST00000566029,;CHD9,missense_variant,p.Glu348Lys,ENST00000565803,;CHD9,missense_variant,p.Glu822Lys,ENST00000447540,;CHD9,missense_variant,p.Glu822Lys,ENST00000564845,;CHD9,missense_variant,p.Glu822Lys,ENST00000398510,;CHD9,non_coding_transcript_exon_variant,,ENST00000564255,;CHD9,upstream_gene_variant,,ENST00000219084,;CHD9,upstream_gene_variant,,ENST00000569225,;	A	ENSG00000177200	ENST00000566029	Transcript	missense_variant	2673	2464	822	E/K	Gaa/Aaa	.	.	.	1	CHD9	HGNC	25701	protein_coding	YES	CCDS45485.1	ENSP00000457466	CHD9_HUMAN	H3BV31_HUMAN,H3BSP3_HUMAN,H3BRU9_HUMAN	UPI00001FF1A0	.	.	benign(0.143)	10/39	.	Superfamily_domains:SSF52540,Superfamily_domains:SSF54160,SMART_domains:SM00298,Pfam_domain:PF00385,Gene3D:2.40.50.40,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF48,PROSITE_profiles:PS50013	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATAGAAGAG	.	5	BLCA
CHD9	0	.	GRCh37	16	53276901	53276901	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3027C>T	p.%3D	p.L1009L	ENST00000566029	13/39	66	45	21	90	90	0	CHD9,synonymous_variant,p.%3D,ENST00000566029,;CHD9,synonymous_variant,p.%3D,ENST00000564845,;CHD9,synonymous_variant,p.%3D,ENST00000565803,;CHD9,synonymous_variant,p.%3D,ENST00000447540,;CHD9,synonymous_variant,p.%3D,ENST00000398510,;CHD9,upstream_gene_variant,,ENST00000565119,;CHD9,non_coding_transcript_exon_variant,,ENST00000219084,;CHD9,non_coding_transcript_exon_variant,,ENST00000564255,;CHD9,non_coding_transcript_exon_variant,,ENST00000569225,;	T	ENSG00000177200	ENST00000566029	Transcript	synonymous_variant	3236	3027	1009	L	ctC/ctT	.	.	.	1	CHD9	HGNC	25701	protein_coding	YES	CCDS45485.1	ENSP00000457466	CHD9_HUMAN	H3BV31_HUMAN,H3BSP3_HUMAN,H3BRU9_HUMAN	UPI00001FF1A0	.	.	.	13/39	.	Superfamily_domains:SSF52540,SMART_domains:SM00487,Pfam_domain:PF00176,Gene3D:3.40.50.300,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF48,PROSITE_profiles:PS51192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCTTAGA	.	5	BLCA
CHD9	0	.	GRCh37	16	53276919	53276919	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3045C>T	p.%3D	p.L1015L	ENST00000566029	13/39	51	34	17	75	75	0	CHD9,synonymous_variant,p.%3D,ENST00000566029,;CHD9,synonymous_variant,p.%3D,ENST00000564845,;CHD9,synonymous_variant,p.%3D,ENST00000565803,;CHD9,synonymous_variant,p.%3D,ENST00000447540,;CHD9,synonymous_variant,p.%3D,ENST00000398510,;CHD9,upstream_gene_variant,,ENST00000565119,;CHD9,non_coding_transcript_exon_variant,,ENST00000219084,;CHD9,non_coding_transcript_exon_variant,,ENST00000564255,;CHD9,non_coding_transcript_exon_variant,,ENST00000569225,;	T	ENSG00000177200	ENST00000566029	Transcript	synonymous_variant	3254	3045	1015	L	ctC/ctT	.	.	.	1	CHD9	HGNC	25701	protein_coding	YES	CCDS45485.1	ENSP00000457466	CHD9_HUMAN	H3BV31_HUMAN,H3BSP3_HUMAN,H3BRU9_HUMAN	UPI00001FF1A0	.	.	.	13/39	.	Superfamily_domains:SSF52540,SMART_domains:SM00487,Pfam_domain:PF00176,Gene3D:3.40.50.300,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF48,PROSITE_profiles:PS51192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAACTCATGAA	.	3	BLCA
CHD9	0	.	GRCh37	16	53307581	53307581	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4761A>G	p.%3D	p.V1587V	ENST00000566029	23/39	29	17	12	36	36	0	CHD9,synonymous_variant,p.%3D,ENST00000566029,;CHD9,synonymous_variant,p.%3D,ENST00000447540,;CHD9,synonymous_variant,p.%3D,ENST00000564845,;CHD9,synonymous_variant,p.%3D,ENST00000398510,;CHD9,non_coding_transcript_exon_variant,,ENST00000219084,;	G	ENSG00000177200	ENST00000566029	Transcript	synonymous_variant	4970	4761	1587	V	gtA/gtG	.	.	.	1	CHD9	HGNC	25701	protein_coding	YES	CCDS45485.1	ENSP00000457466	CHD9_HUMAN	H3BV31_HUMAN,H3BSP3_HUMAN,H3BRU9_HUMAN	UPI00001FF1A0	.	.	.	23/39	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF48	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTAAAAAC	.	5	BLCA
CAPNS2	0	.	GRCh37	16	55601488	55601489	+	3'UTR	DEL	TG	TG	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	TG	TG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*73_*74delTG	.	.	ENST00000457326	1/1	33	24	9	30	30	0	CAPNS2,3_prime_UTR_variant,,ENST00000457326,;LPCAT2,intron_variant,,ENST00000262134,;LPCAT2,intron_variant,,ENST00000565056,;LPCAT2,intron_variant,,ENST00000563095,;LPCAT2,intron_variant,,ENST00000566915,;	-	ENSG00000256812	ENST00000457326	Transcript	3_prime_UTR_variant	905-906	.	.	.	.	.	.	.	1	CAPNS2	HGNC	16371	protein_coding	YES	CCDS54010.1	ENSP00000400882	CPNS2_HUMAN	.	UPI0000071268	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AGTTGCTGATACC	.	3	BLCA
SLC6A2	0	.	GRCh37	16	55690754	55690754	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.148G>A	p.Asp50Asn	p.D50N	ENST00000219833	1/14	54	35	18	56	56	0	SLC6A2,missense_variant,p.Asp50Asn,ENST00000568529,;SLC6A2,missense_variant,p.Asp50Asn,ENST00000561820,;SLC6A2,missense_variant,p.Asp50Asn,ENST00000566163,;SLC6A2,missense_variant,p.Asp50Asn,ENST00000379906,;SLC6A2,missense_variant,p.Asp50Asn,ENST00000219833,;SLC6A2,missense_variant,p.Asp50Asn,ENST00000568943,;SLC6A2,missense_variant,p.Asp50Asn,ENST00000568655,;SLC6A2,missense_variant,p.Asp50Asn,ENST00000414754,;	A	ENSG00000103546	ENST00000219833	Transcript	missense_variant	199	148	50	D/N	Gac/Aac	.	.	.	1	SLC6A2	HGNC	11048	protein_coding	YES	CCDS54011.1	ENSP00000219833	SC6A2_HUMAN	Q9Y6W9_HUMAN,H3BMY5_HUMAN	UPI00000734FD	.	tolerated(0.57)	benign(0)	1/14	.	hmmpanther:PTHR11616,hmmpanther:PTHR11616:SF37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGCGACGGC	.	5	BLCA
SLC6A2	0	.	GRCh37	16	55735772	55735772	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1759-3C>T	.	.	ENST00000219833	.	26	19	6	56	56	0	SLC6A2,splice_region_variant,,ENST00000566163,;SLC6A2,splice_region_variant,,ENST00000379906,;SLC6A2,splice_region_variant,,ENST00000219833,;SLC6A2,splice_region_variant,,ENST00000574918,;SLC6A2,splice_region_variant,,ENST00000568943,;SLC6A2,splice_region_variant,,ENST00000414754,;SLC6A2,splice_region_variant,,ENST00000567238,;SLC6A2,intron_variant,,ENST00000561820,;	T	ENSG00000103546	ENST00000219833	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	SLC6A2	HGNC	11048	protein_coding	YES	CCDS54011.1	ENSP00000219833	SC6A2_HUMAN	Q9Y6W9_HUMAN,H3BMY5_HUMAN	UPI00000734FD	.	.	.	.	12/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCAGAGA	.	4	BLCA
BBS2	0	.	GRCh37	16	56533796	56533796	+	Missense_Mutation	SNP	G	G	A	rs768215650	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1421C>T	p.Ser474Leu	p.S474L	ENST00000245157	12/17	73	61	12	114	114	0	BBS2,missense_variant,p.Ser474Leu,ENST00000245157,;BBS2,missense_variant,p.Ser474Leu,ENST00000568104,;BBS2,upstream_gene_variant,,ENST00000564459,;BBS2,non_coding_transcript_exon_variant,,ENST00000566410,;BBS2,downstream_gene_variant,,ENST00000561951,;BBS2,missense_variant,p.Ser40Leu,ENST00000561877,;BBS2,3_prime_UTR_variant,,ENST00000562012,;BBS2,non_coding_transcript_exon_variant,,ENST00000566452,;BBS2,non_coding_transcript_exon_variant,,ENST00000566495,;BBS2,non_coding_transcript_exon_variant,,ENST00000562813,;BBS2,non_coding_transcript_exon_variant,,ENST00000565781,;BBS2,non_coding_transcript_exon_variant,,ENST00000569192,;BBS2,non_coding_transcript_exon_variant,,ENST00000566210,;BBS2,downstream_gene_variant,,ENST00000561853,;BBS2,downstream_gene_variant,,ENST00000569342,;BBS2,downstream_gene_variant,,ENST00000562059,;	A	ENSG00000125124	ENST00000245157	Transcript	missense_variant	1842	1421	474	S/L	tCg/tTg	rs768215650	.	.	-1	BBS2	HGNC	967	protein_coding	YES	CCDS32451.1	ENSP00000245157	BBS2_HUMAN	Q8ND60_HUMAN,J3QLW0_HUMAN	UPI0000167B72	.	tolerated(1)	benign(0)	12/17	.	PIRSF_domain:PIRSF013684,Pfam_domain:PF14782,hmmpanther:PTHR32465,hmmpanther:PTHR32465:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGTCGATTCA	.	3	BLCA
BBS2	0	.	GRCh37	16	56533809	56533809	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1408C>T	p.His470Tyr	p.H470Y	ENST00000245157	12/17	72	58	13	109	109	0	BBS2,missense_variant,p.His470Tyr,ENST00000245157,;BBS2,missense_variant,p.His470Tyr,ENST00000568104,;BBS2,upstream_gene_variant,,ENST00000564459,;BBS2,non_coding_transcript_exon_variant,,ENST00000566410,;BBS2,downstream_gene_variant,,ENST00000561951,;BBS2,missense_variant,p.His36Tyr,ENST00000561877,;BBS2,3_prime_UTR_variant,,ENST00000562012,;BBS2,non_coding_transcript_exon_variant,,ENST00000566452,;BBS2,non_coding_transcript_exon_variant,,ENST00000566495,;BBS2,non_coding_transcript_exon_variant,,ENST00000562813,;BBS2,non_coding_transcript_exon_variant,,ENST00000565781,;BBS2,non_coding_transcript_exon_variant,,ENST00000569192,;BBS2,non_coding_transcript_exon_variant,,ENST00000566210,;BBS2,downstream_gene_variant,,ENST00000561853,;BBS2,downstream_gene_variant,,ENST00000569342,;BBS2,downstream_gene_variant,,ENST00000562059,;	A	ENSG00000125124	ENST00000245157	Transcript	missense_variant	1829	1408	470	H/Y	Cat/Tat	.	.	.	-1	BBS2	HGNC	967	protein_coding	YES	CCDS32451.1	ENSP00000245157	BBS2_HUMAN	Q8ND60_HUMAN,J3QLW0_HUMAN	UPI0000167B72	.	deleterious(0.02)	benign(0.238)	12/17	.	PIRSF_domain:PIRSF013684,Pfam_domain:PF14782,hmmpanther:PTHR32465,hmmpanther:PTHR32465:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACATGAAACT	.	3	BLCA
CX3CL1	0	.	GRCh37	16	57415981	57415981	+	Silent	SNP	G	G	A	rs570505447	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231G>A	p.%3D	p.P77P	ENST00000006053	3/3	49	34	15	58	58	0	CX3CL1,missense_variant,p.Arg37Gln,ENST00000564948,;CX3CL1,synonymous_variant,p.%3D,ENST00000006053,;CX3CL1,synonymous_variant,p.%3D,ENST00000565912,;CX3CL1,synonymous_variant,p.%3D,ENST00000563383,;	A	ENSG00000006210	ENST00000006053	Transcript	synonymous_variant	342	231	77	P	ccG/ccA	rs570505447	.	.	1	CX3CL1	HGNC	10647	protein_coding	YES	CCDS10779.1	ENSP00000006053	X3CL1_HUMAN	J3QRA1_HUMAN,A0N0N7_HUMAN	UPI0000040685	.	.	.	3/3	.	Prints_domain:PR01721,Superfamily_domains:SSF54117,SMART_domains:SM00199,Gene3D:2.40.50.40,Pfam_domain:PF00048,hmmpanther:PTHR12015:SF81,hmmpanther:PTHR12015	C:0.0002	C:0	C:0.0014	.	C:0	C:0	C:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCCGAAGGA	by1000G	5	BLCA
POLR2C	0	.	GRCh37	16	57496613	57496613	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-24G>A	.	.	ENST00000219252	1/9	9	6	3	8	8	0	POLR2C,5_prime_UTR_variant,,ENST00000219252,;COQ9,downstream_gene_variant,,ENST00000563391,;COQ9,downstream_gene_variant,,ENST00000567933,;COQ9,downstream_gene_variant,,ENST00000262507,;COQ9,downstream_gene_variant,,ENST00000565964,;COQ9,downstream_gene_variant,,ENST00000564655,;COQ9,downstream_gene_variant,,ENST00000567072,;COQ9,downstream_gene_variant,,ENST00000563166,;POLR2C,non_coding_transcript_exon_variant,,ENST00000564651,;AC009052.12,non_coding_transcript_exon_variant,,ENST00000567090,;POLR2C,5_prime_UTR_variant,,ENST00000562599,;POLR2C,non_coding_transcript_exon_variant,,ENST00000563115,;POLR2C,non_coding_transcript_exon_variant,,ENST00000567982,;POLR2C,non_coding_transcript_exon_variant,,ENST00000562953,;COQ9,downstream_gene_variant,,ENST00000569980,;POLR2C,upstream_gene_variant,,ENST00000563589,;COQ9,downstream_gene_variant,,ENST00000564115,;POLR2C,upstream_gene_variant,,ENST00000564626,;	A	ENSG00000102978	ENST00000219252	Transcript	5_prime_UTR_variant	315	.	.	.	.	.	.	.	1	POLR2C	HGNC	9189	protein_coding	YES	CCDS10782.1	ENSP00000219252	RPB3_HUMAN	Q6FGR6_HUMAN	UPI00000012C1	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACGCGGAGGC	.	2	BLCA
PRSS54	0	.	GRCh37	16	58324966	58324966	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.160C>A	p.Pro54Thr	p.P54T	ENST00000219301	4/7	37	26	11	45	45	0	PRSS54,missense_variant,p.Pro54Thr,ENST00000569727,;PRSS54,missense_variant,p.Pro54Thr,ENST00000219301,;PRSS54,missense_variant,p.Pro54Thr,ENST00000567164,;PRSS54,intron_variant,,ENST00000569079,;PRSS54,intron_variant,,ENST00000543437,;GINS3,upstream_gene_variant,,ENST00000567400,;GINS3,upstream_gene_variant,,ENST00000564814,;GINS3,upstream_gene_variant,,ENST00000561952,;GINS3,upstream_gene_variant,,ENST00000568468,;	T	ENSG00000103023	ENST00000219301	Transcript	missense_variant	555	160	54	P/T	Ccg/Acg	.	.	.	-1	PRSS54	HGNC	26336	protein_coding	YES	CCDS32463.1	ENSP00000219301	PRS54_HUMAN	H3BQS7_HUMAN,H3BNY0_HUMAN,F5H6C6_HUMAN	UPI0000199F24	.	deleterious(0)	probably_damaging(1)	4/7	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24275:SF47,hmmpanther:PTHR24275,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACGGGAACT	.	5	BLCA
CNOT1	0	.	GRCh37	16	58565906	58565906	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6133C>T	p.Arg2045Trp	p.R2045W	ENST00000317147	42/49	91	65	25	93	93	0	CNOT1,missense_variant,p.Arg425Trp,ENST00000568917,;CNOT1,missense_variant,p.Arg2045Trp,ENST00000317147,;CNOT1,missense_variant,p.Arg896Trp,ENST00000245138,;CNOT1,missense_variant,p.Arg2040Trp,ENST00000569240,;CNOT1,missense_variant,p.Arg2040Trp,ENST00000567188,;CNOT1,non_coding_transcript_exon_variant,,ENST00000563130,;CNOT1,upstream_gene_variant,,ENST00000570139,;	A	ENSG00000125107	ENST00000317147	Transcript	missense_variant	6466	6133	2045	R/W	Cgg/Tgg	COSM972005	.	.	-1	CNOT1	HGNC	7877	protein_coding	YES	CCDS10799.1	ENSP00000320949	CNOT1_HUMAN	H3BUY8_HUMAN,H3BT18_HUMAN,H3BPF1_HUMAN,B7Z6X2_HUMAN,B3KS60_HUMAN	UPI00001FF2F6	.	deleterious(0)	probably_damaging(1)	42/49	.	hmmpanther:PTHR13162:SF8,hmmpanther:PTHR13162,Pfam_domain:PF04054	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCCGATGGG	.	5	BLCA
CNOT1	0	.	GRCh37	16	58633272	58633272	+	5'UTR	SNP	C	C	T	rs779281048	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000317147	2/49	40	28	12	67	67	0	CNOT1,5_prime_UTR_variant,,ENST00000569020,;CNOT1,5_prime_UTR_variant,,ENST00000317147,;CNOT1,5_prime_UTR_variant,,ENST00000569240,;CNOT1,5_prime_UTR_variant,,ENST00000441024,;CNOT1,5_prime_UTR_variant,,ENST00000565697,;CNOT1,5_prime_UTR_variant,,ENST00000564557,;CNOT1,downstream_gene_variant,,ENST00000568158,;CNOT1,5_prime_UTR_variant,,ENST00000567188,;CNOT1,5_prime_UTR_variant,,ENST00000565605,;CNOT1,non_coding_transcript_exon_variant,,ENST00000569916,;CTA-331F8.1,upstream_gene_variant,,ENST00000566916,;	T	ENSG00000125107	ENST00000317147	Transcript	5_prime_UTR_variant	303	.	.	.	.	rs779281048	.	.	-1	CNOT1	HGNC	7877	protein_coding	YES	CCDS10799.1	ENSP00000320949	CNOT1_HUMAN	H3BUY8_HUMAN,H3BT18_HUMAN,H3BPF1_HUMAN,B7Z6X2_HUMAN,B3KS60_HUMAN	UPI00001FF2F6	.	.	.	2/49	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGAGCCCGGC	.	2	BLCA
CAPN15	0	.	GRCh37	16	602974	602974	+	Missense_Mutation	SNP	G	G	A	rs149246709	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3016G>A	p.Asp1006Asn	p.D1006N	ENST00000219611	13/14	39	28	11	47	47	0	CAPN15,missense_variant,p.Asp1006Asn,ENST00000219611,;CAPN15,missense_variant,p.Asp44Asn,ENST00000566977,;CAPN15,downstream_gene_variant,,ENST00000568988,;LA16c-366D1.3,intron_variant,,ENST00000565879,;CAPN15,non_coding_transcript_exon_variant,,ENST00000565010,;	A	ENSG00000103326	ENST00000219611	Transcript	missense_variant	3379	3016	1006	D/N	Gac/Aac	rs149246709	.	.	1	CAPN15	HGNC	11182	protein_coding	YES	CCDS10410.1	ENSP00000219611	CAN15_HUMAN	H3BR03_HUMAN	UPI0000071B68	.	tolerated(0.12)	probably_damaging(0.97)	13/14	.	hmmpanther:PTHR10183:SF279,hmmpanther:PTHR10183	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0005	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACCGACAGC	byCluster|by1000G	5	BLCA
C16orf11	0	.	GRCh37	16	613462	613462	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168G>A	p.Met56Ile	p.M56I	ENST00000409413	2/3	48	33	15	65	65	0	C16orf11,missense_variant,p.Met56Ile,ENST00000409413,;NHLRC4,upstream_gene_variant,,ENST00000424439,;NHLRC4,upstream_gene_variant,,ENST00000540585,;PIGQ,upstream_gene_variant,,ENST00000409527,;PIGQ,upstream_gene_variant,,ENST00000293874,;	A	ENSG00000161992	ENST00000409413	Transcript	missense_variant	447	168	56	M/I	atG/atA	.	.	.	1	C16orf11	HGNC	14139	protein_coding	YES	CCDS45365.1	ENSP00000386499	CP011_HUMAN	.	UPI000006F4B0	.	deleterious(0)	probably_damaging(0.999)	2/3	.	Pfam_domain:PF15269,hmmpanther:PTHR14678,hmmpanther:PTHR14678:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATGAAGTA	.	5	BLCA
CA7	0	.	GRCh37	16	66884542	66884542	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>A	p.Gly113Ser	p.G113S	ENST00000338437	3/7	34	25	8	49	49	0	CA7,missense_variant,p.Gly57Ser,ENST00000394069,;CA7,missense_variant,p.Gly113Ser,ENST00000338437,;NAE1,intron_variant,,ENST00000561579,;RP11-61A14.1,intron_variant,,ENST00000551187,;CA7,intron_variant,,ENST00000548332,;	A	ENSG00000168748	ENST00000338437	Transcript	missense_variant	446	337	113	G/S	Ggc/Agc	.	.	.	1	CA7	HGNC	1381	protein_coding	YES	CCDS10821.1	ENSP00000345659	CAH7_HUMAN	.	UPI000000D814	.	tolerated(0.12)	possibly_damaging(0.776)	3/7	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952:SF26,hmmpanther:PTHR18952,PROSITE_patterns:PS00162,Pfam_domain:PF00194,Gene3D:3.10.200.10,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGACGGCAAG	.	5	BLCA
LRRC29	0	.	GRCh37	16	67241862	67241862	+	Silent	SNP	G	G	A	rs569126198	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>T	p.%3D	p.L139L	ENST00000409037	3/5	35	26	9	55	55	0	LRRC29,synonymous_variant,p.%3D,ENST00000409037,;LRRC29,synonymous_variant,p.%3D,ENST00000393992,;LRRC29,synonymous_variant,p.%3D,ENST00000409509,;LRRC29,synonymous_variant,p.%3D,ENST00000424285,;LRRC29,synonymous_variant,p.%3D,ENST00000433915,;LRRC29,synonymous_variant,p.%3D,ENST00000341546,;ELMO3,downstream_gene_variant,,ENST00000477898,;LRRC29,downstream_gene_variant,,ENST00000447579,;ELMO3,downstream_gene_variant,,ENST00000393997,;AC040160.1,downstream_gene_variant,,ENST00000454102,;ELMO3,downstream_gene_variant,,ENST00000360833,;LRRC29,downstream_gene_variant,,ENST00000462169,;LRRC29,downstream_gene_variant,,ENST00000485549,;	A	ENSG00000125122	ENST00000409037	Transcript	synonymous_variant	1314	417	139	L	ctC/ctT	rs569126198	.	.	-1	LRRC29	HGNC	13605	protein_coding	YES	CCDS32465.1	ENSP00000387318	LRC29_HUMAN	C9JSY0_HUMAN	UPI0000049C46	.	.	.	3/5	.	hmmpanther:PTHR23125,hmmpanther:PTHR23125:SF52,Pfam_domain:PF13516,Gene3D:3.80.10.10,SMART_domains:SM00367,Superfamily_domains:SSF52047	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAGTCG	by1000G	5	BLCA
FHOD1	0	.	GRCh37	16	67263848	67263848	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3260C>T	p.Ser1087Phe	p.S1087F	ENST00000258201	21/22	44	30	13	51	51	0	FHOD1,missense_variant,p.Ser1087Phe,ENST00000258201,;TMEM208,downstream_gene_variant,,ENST00000304800,;LRRC29,upstream_gene_variant,,ENST00000433915,;TMEM208,downstream_gene_variant,,ENST00000563953,;LRRC29,upstream_gene_variant,,ENST00000393992,;TMEM208,downstream_gene_variant,,ENST00000565201,;LRRC29,upstream_gene_variant,,ENST00000409509,;LRRC29,upstream_gene_variant,,ENST00000447579,;LRRC29,upstream_gene_variant,,ENST00000424285,;AC040160.1,upstream_gene_variant,,ENST00000454102,;LRRC29,upstream_gene_variant,,ENST00000341546,;TMEM208,downstream_gene_variant,,ENST00000563426,;LRRC29,upstream_gene_variant,,ENST00000485549,;LRRC29,upstream_gene_variant,,ENST00000462169,;FHOD1,non_coding_transcript_exon_variant,,ENST00000567752,;FHOD1,non_coding_transcript_exon_variant,,ENST00000569085,;FHOD1,downstream_gene_variant,,ENST00000567561,;FHOD1,downstream_gene_variant,,ENST00000561922,;TMEM208,downstream_gene_variant,,ENST00000564649,;TMEM208,downstream_gene_variant,,ENST00000563168,;FHOD1,downstream_gene_variant,,ENST00000568595,;FHOD1,downstream_gene_variant,,ENST00000567509,;TMEM208,downstream_gene_variant,,ENST00000564087,;TMEM208,downstream_gene_variant,,ENST00000566486,;FHOD1,downstream_gene_variant,,ENST00000566006,;TMEM208,downstream_gene_variant,,ENST00000567193,;FHOD1,downstream_gene_variant,,ENST00000562266,;FHOD1,downstream_gene_variant,,ENST00000569888,;TMEM208,downstream_gene_variant,,ENST00000562235,;TMEM208,downstream_gene_variant,,ENST00000561586,;TMEM208,downstream_gene_variant,,ENST00000563271,;	A	ENSG00000135723	ENST00000258201	Transcript	missense_variant	3508	3260	1087	S/F	tCc/tTc	.	.	.	-1	FHOD1	HGNC	17905	protein_coding	YES	CCDS10834.1	ENSP00000258201	FHOD1_HUMAN	.	UPI000013CFB9	.	tolerated(0.32)	benign(0.003)	21/22	.	hmmpanther:PTHR23213:SF189,hmmpanther:PTHR23213	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTGGAGGGC	.	5	BLCA
FHOD1	0	.	GRCh37	16	67281320	67281320	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7C>T	.	.	ENST00000258201	1/22	21	13	8	19	19	0	FHOD1,5_prime_UTR_variant,,ENST00000258201,;SLC9A5,intron_variant,,ENST00000566345,;SLC9A5,upstream_gene_variant,,ENST00000299798,;SLC9A5,upstream_gene_variant,,ENST00000561472,;FHOD1,5_prime_UTR_variant,,ENST00000561922,;FHOD1,non_coding_transcript_exon_variant,,ENST00000567752,;SLC9A5,intron_variant,,ENST00000564704,;SLC9A5,upstream_gene_variant,,ENST00000564812,;SLC9A5,upstream_gene_variant,,ENST00000563723,;SLC9A5,upstream_gene_variant,,ENST00000566638,;	A	ENSG00000135723	ENST00000258201	Transcript	5_prime_UTR_variant	242	.	.	.	.	.	.	.	-1	FHOD1	HGNC	17905	protein_coding	YES	CCDS10834.1	ENSP00000258201	FHOD1_HUMAN	.	UPI000013CFB9	.	.	.	1/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGCGGCC	.	5	BLCA
KCTD19	0	.	GRCh37	16	67354746	67354746	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46C>T	p.His16Tyr	p.H16Y	ENST00000304372	2/16	45	33	12	61	60	0	KCTD19,missense_variant,p.His11Tyr,ENST00000567976,;KCTD19,missense_variant,p.His16Tyr,ENST00000304372,;KCTD19,missense_variant,p.His11Tyr,ENST00000566295,;RN7SKP118,downstream_gene_variant,,ENST00000364331,;KCTD19,non_coding_transcript_exon_variant,,ENST00000561625,;KCTD19,upstream_gene_variant,,ENST00000562860,;KCTD19,synonymous_variant,p.%3D,ENST00000562721,;KCTD19,non_coding_transcript_exon_variant,,ENST00000570049,;KCTD19,non_coding_transcript_exon_variant,,ENST00000566392,;KCTD19,non_coding_transcript_exon_variant,,ENST00000568736,;KCTD19,non_coding_transcript_exon_variant,,ENST00000569333,;	A	ENSG00000168676	ENST00000304372	Transcript	missense_variant	102	46	16	H/Y	Cat/Tat	.	.	.	-1	KCTD19	HGNC	24753	protein_coding	YES	CCDS42179.1	ENSP00000305702	KCD19_HUMAN	J3KSZ9_HUMAN,H3BVC0_HUMAN	UPI00001D7875	.	tolerated(0.14)	benign(0.194)	2/16	.	hmmpanther:PTHR14499:SF20,hmmpanther:PTHR14499,Gene3D:3.30.710.10,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATGAAACA	.	5	BLCA
NFATC3	0	.	GRCh37	16	68225039	68225039	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2467T>C	p.Ser823Pro	p.S823P	ENST00000346183	9/10	141	99	41	184	184	0	NFATC3,missense_variant,p.Ser823Pro,ENST00000346183,;NFATC3,missense_variant,p.Ser823Pro,ENST00000329524,;NFATC3,missense_variant,p.Ser808Pro,ENST00000570212,;NFATC3,missense_variant,p.Ser823Pro,ENST00000575270,;NFATC3,missense_variant,p.Ser823Pro,ENST00000349223,;NFATC3,missense_variant,p.Ser808Pro,ENST00000562926,;SNORA48,downstream_gene_variant,,ENST00000391143,;NFATC3,non_coding_transcript_exon_variant,,ENST00000566301,;NFATC3,non_coding_transcript_exon_variant,,ENST00000563288,;NFATC3,non_coding_transcript_exon_variant,,ENST00000563796,;NFATC3,non_coding_transcript_exon_variant,,ENST00000563319,;NFATC3,non_coding_transcript_exon_variant,,ENST00000569766,;NFATC3,non_coding_transcript_exon_variant,,ENST00000567152,;NFATC3,non_coding_transcript_exon_variant,,ENST00000535127,;NFATC3,3_prime_UTR_variant,,ENST00000539828,;NFATC3,non_coding_transcript_exon_variant,,ENST00000379165,;NFATC3,non_coding_transcript_exon_variant,,ENST00000549350,;NFATC3,non_coding_transcript_exon_variant,,ENST00000553077,;	C	ENSG00000072736	ENST00000346183	Transcript	missense_variant	2491	2467	823	S/P	Tct/Cct	.	.	.	1	NFATC3	HGNC	7777	protein_coding	YES	CCDS10860.1	ENSP00000300659	NFAC3_HUMAN	B5B2S4_HUMAN,B5B2S1_HUMAN	UPI0000000C21	.	deleterious_low_confidence(0.02)	possibly_damaging(0.809)	9/10	.	hmmpanther:PTHR12533:SF6,hmmpanther:PTHR12533	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCCTCTAGT	.	5	BLCA
PLA2G15	0	.	GRCh37	16	68279276	68279276	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54G>A	.	.	ENST00000219345	1/6	9	6	3	21	21	0	PLA2G15,5_prime_UTR_variant,,ENST00000444212,;PLA2G15,5_prime_UTR_variant,,ENST00000565744,;PLA2G15,5_prime_UTR_variant,,ENST00000566188,;PLA2G15,5_prime_UTR_variant,,ENST00000413021,;PLA2G15,5_prime_UTR_variant,,ENST00000564827,;PLA2G15,5_prime_UTR_variant,,ENST00000219345,;PLA2G15,upstream_gene_variant,,ENST00000568082,;PLA2G15,upstream_gene_variant,,ENST00000568599,;PLA2G15,5_prime_UTR_variant,,ENST00000566978,;PLA2G15,upstream_gene_variant,,ENST00000562966,;	A	ENSG00000103066	ENST00000219345	Transcript	5_prime_UTR_variant	30	.	.	.	.	.	.	.	1	PLA2G15	HGNC	17163	protein_coding	YES	CCDS10864.1	ENSP00000219345	PAG15_HUMAN	.	UPI00000359EF	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGGCGAGAGC	.	2	BLCA
PRMT7	0	.	GRCh37	16	68386284	68386284	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1547C>T	p.Ser516Leu	p.S516L	ENST00000339507	15/19	48	13	34	70	70	0	PRMT7,missense_variant,p.Ser466Leu,ENST00000441236,;PRMT7,missense_variant,p.Ser516Leu,ENST00000339507,;PRMT7,missense_variant,p.Ser368Leu,ENST00000348497,;PRMT7,missense_variant,p.Ser466Leu,ENST00000449359,;PRMT7,downstream_gene_variant,,ENST00000566708,;PRMT7,missense_variant,p.Ser516Leu,ENST00000568975,;PRMT7,non_coding_transcript_exon_variant,,ENST00000565356,;PRMT7,non_coding_transcript_exon_variant,,ENST00000563608,;PRMT7,non_coding_transcript_exon_variant,,ENST00000567542,;PRMT7,upstream_gene_variant,,ENST00000568463,;PRMT7,downstream_gene_variant,,ENST00000566687,;	T	ENSG00000132600	ENST00000339507	Transcript	missense_variant	2377	1547	516	S/L	tCg/tTg	COSM3795031	.	.	1	PRMT7	HGNC	25557	protein_coding	YES	CCDS10866.1	ENSP00000343103	ANM7_HUMAN	H3BSS9_HUMAN,H3BRQ9_HUMAN,H3BRD3_HUMAN,H3BPZ8_HUMAN,H3BNS2_HUMAN	UPI0000041857	.	tolerated(0.15)	benign(0.002)	15/19	.	PROSITE_profiles:PS51678,hmmpanther:PTHR11006:SF4,hmmpanther:PTHR11006,Gene3D:2.70.160.11,PIRSF_domain:PIRSF036946,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGCTGC	.	5	BLCA
CDH3	0	.	GRCh37	16	68719222	68719222	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1539C>T	p.%3D	p.I513I	ENST00000264012	11/16	48	30	17	58	58	0	CDH3,synonymous_variant,p.%3D,ENST00000429102,;CDH3,synonymous_variant,p.%3D,ENST00000581171,;CDH3,synonymous_variant,p.%3D,ENST00000264012,;CDH3,3_prime_UTR_variant,,ENST00000542274,;CDH3,upstream_gene_variant,,ENST00000567674,;CDH3,downstream_gene_variant,,ENST00000569036,;HSPE1P5,upstream_gene_variant,,ENST00000561489,;	T	ENSG00000062038	ENST00000264012	Transcript	synonymous_variant	2083	1539	513	I	atC/atT	.	.	.	1	CDH3	HGNC	1762	protein_coding	YES	CCDS10868.1	ENSP00000264012	CADH3_HUMAN	J3KTE9_HUMAN	UPI0000161BFF	.	.	.	11/16	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF267,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCTATGA	.	5	BLCA
CDH1	0	.	GRCh37	16	68835706	68835706	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297G>A	p.%3D	p.L99L	ENST00000261769	3/16	51	31	20	66	66	0	CDH1,synonymous_variant,p.%3D,ENST00000422392,;CDH1,synonymous_variant,p.%3D,ENST00000261769,;CDH1,non_coding_transcript_exon_variant,,ENST00000564676,;CDH1,non_coding_transcript_exon_variant,,ENST00000564745,;CDH1,non_coding_transcript_exon_variant,,ENST00000562836,;CDH1,synonymous_variant,p.%3D,ENST00000561751,;CDH1,synonymous_variant,p.%3D,ENST00000566612,;CDH1,synonymous_variant,p.%3D,ENST00000566510,;	A	ENSG00000039068	ENST00000261769	Transcript	synonymous_variant	488	297	99	L	ttG/ttA	.	.	.	1	CDH1	HGNC	1748	protein_coding	YES	CCDS10869.1	ENSP00000261769	CADH1_HUMAN	B3GN61_HUMAN	UPI00000341EF	.	.	.	3/16	.	hmmpanther:PTHR24027:SF252,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Pfam_domain:PF08758,SMART_domains:SM01055,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTGGTCTA	.	5	BLCA
CHTF8	0	.	GRCh37	16	69154525	69154525	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169C>T	p.His57Tyr	p.H57Y	ENST00000448552	4/4	61	45	16	65	65	0	CHTF8,missense_variant,p.His57Tyr,ENST00000448552,;CHTF8,missense_variant,p.His40Tyr,ENST00000567763,;CHTF8,missense_variant,p.His80Tyr,ENST00000522497,;CHTF8,missense_variant,p.His57Tyr,ENST00000398235,;CHTF8,3_prime_UTR_variant,,ENST00000519520,;CHTF8,3_prime_UTR_variant,,ENST00000520529,;CHTF8,3_prime_UTR_variant,,ENST00000522091,;CHTF8,5_prime_UTR_variant,,ENST00000306585,;CHTF8,intron_variant,,ENST00000518041,;CHTF8,intron_variant,,ENST00000523421,;HAS3,downstream_gene_variant,,ENST00000219322,;HAS3,downstream_gene_variant,,ENST00000306560,;CHTF8,upstream_gene_variant,,ENST00000574807,;CHTF8,start_lost,p.His1?,ENST00000519534,;	A	ENSG00000168802	ENST00000448552	Transcript	missense_variant	291	169	57	H/Y	Cat/Tat	.	.	.	-1	CHTF8	HGNC	24353	protein_coding	YES	CCDS42185.1	ENSP00000408367	CTF8_HUMAN	J3KSJ7_HUMAN	UPI00006C2067	.	deleterious(0)	probably_damaging(1)	4/4	.	Pfam_domain:PF09696	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATATGATGCC	.	5	BLCA
TERF2	0	.	GRCh37	16	69390657	69390657	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*144G>A	.	.	ENST00000603068	10/10	8	5	3	12	12	0	TERF2,3_prime_UTR_variant,,ENST00000603068,;TERF2,3_prime_UTR_variant,,ENST00000254942,;TERF2,3_prime_UTR_variant,,ENST00000566051,;RP11-343C2.9,upstream_gene_variant,,ENST00000563634,;TMED6,upstream_gene_variant,,ENST00000288025,;TERF2,downstream_gene_variant,,ENST00000567130,;	T	ENSG00000132604	ENST00000603068	Transcript	3_prime_UTR_variant	1772	.	.	.	.	.	.	.	-1	TERF2	HGNC	11729	protein_coding	YES	.	ENSP00000474453	TERF2_HUMAN	.	UPI0000137364	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGATCACGCC	.	2	BLCA
TERF2	0	.	GRCh37	16	69418596	69418596	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>A	p.Glu123Lys	p.E123K	ENST00000603068	3/10	77	54	23	93	93	0	TERF2,missense_variant,p.Glu123Lys,ENST00000603068,;TERF2,missense_variant,p.Glu2Lys,ENST00000566257,;TERF2,missense_variant,p.Glu44Lys,ENST00000566750,;TERF2,missense_variant,p.Glu20Lys,ENST00000567841,;TERF2,missense_variant,p.Glu165Lys,ENST00000254942,;TERF2,missense_variant,p.Glu165Lys,ENST00000567296,;TERF2,upstream_gene_variant,,ENST00000569542,;TERF2,non_coding_transcript_exon_variant,,ENST00000569611,;TERF2,3_prime_UTR_variant,,ENST00000569280,;	T	ENSG00000132604	ENST00000603068	Transcript	missense_variant	492	367	123	E/K	Gag/Aag	.	.	.	-1	TERF2	HGNC	11729	protein_coding	YES	.	ENSP00000474453	TERF2_HUMAN	.	UPI0000137364	.	deleterious(0)	probably_damaging(0.977)	3/10	.	hmmpanther:PTHR21717:SF13,hmmpanther:PTHR21717,Pfam_domain:PF08558,Gene3D:1.25.40.210,PIRSF_domain:PIRSF038016,Superfamily_domains:SSF63600	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCCATAT	.	5	BLCA
NFAT5	0	.	GRCh37	16	69687136	69687136	+	Intron	SNP	C	C	T	rs760970942	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.813-3C>T	.	.	ENST00000432919	.	44	35	9	51	51	0	NFAT5,splice_region_variant,,ENST00000567239,;NFAT5,splice_region_variant,,ENST00000432919,;NFAT5,splice_region_variant,,ENST00000354436,;NFAT5,splice_region_variant,,ENST00000349945,;NFAT5,splice_region_variant,,ENST00000393742,;NFAT5,splice_region_variant,,ENST00000566899,;NFAT5,intron_variant,,ENST00000565301,;NFAT5,splice_region_variant,,ENST00000426654,;NFAT5,splice_region_variant,,ENST00000567990,;NFAT5,upstream_gene_variant,,ENST00000563474,;	T	ENSG00000102908	ENST00000432919	Transcript	splice_region_variant	.	.	.	.	.	rs760970942	.	.	1	NFAT5	HGNC	7774	protein_coding	YES	CCDS45518.1	ENSP00000396538	NFAT5_HUMAN	.	UPI000049DE1B	.	.	.	.	4/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAGAAC	byFrequency	4	BLCA
COG4	0	.	GRCh37	16	70517762	70517762	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1821C>T	p.%3D	p.L607L	ENST00000323786	14/19	37	21	16	72	72	0	COG4,synonymous_variant,p.%3D,ENST00000323786,;FUK,downstream_gene_variant,,ENST00000571514,;COG4,upstream_gene_variant,,ENST00000565715,;FUK,downstream_gene_variant,,ENST00000288078,;FUK,downstream_gene_variant,,ENST00000378912,;COG4,3_prime_UTR_variant,,ENST00000482252,;COG4,3_prime_UTR_variant,,ENST00000564415,;COG4,non_coding_transcript_exon_variant,,ENST00000564315,;COG4,non_coding_transcript_exon_variant,,ENST00000530314,;COG4,non_coding_transcript_exon_variant,,ENST00000526700,;FUK,downstream_gene_variant,,ENST00000464499,;FUK,downstream_gene_variant,,ENST00000485034,;FUK,downstream_gene_variant,,ENST00000498702,;	A	ENSG00000103051	ENST00000323786	Transcript	synonymous_variant	1843	1821	607	L	ctC/ctT	.	.	.	-1	COG4	HGNC	18620	protein_coding	YES	CCDS10892.2	ENSP00000315775	.	J3KRB5_HUMAN,J3KNI1_HUMAN,B4DDL2_HUMAN	UPI000059D3B0	.	.	.	14/19	.	hmmpanther:PTHR24016:SF0,hmmpanther:PTHR24016	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAAGAGGTC	.	5	BLCA
SF3B3	0	.	GRCh37	16	70594423	70594423	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2062G>A	p.Asp688Asn	p.D688N	ENST00000302516	16/26	51	31	19	56	56	0	SF3B3,missense_variant,p.Asp688Asn,ENST00000302516,;SF3B3,non_coding_transcript_exon_variant,,ENST00000568539,;SF3B3,downstream_gene_variant,,ENST00000568291,;SF3B3,upstream_gene_variant,,ENST00000562722,;SF3B3,downstream_gene_variant,,ENST00000567635,;SF3B3,upstream_gene_variant,,ENST00000563739,;SF3B3,downstream_gene_variant,,ENST00000567250,;	A	ENSG00000189091	ENST00000302516	Transcript	missense_variant	2273	2062	688	D/N	Gat/Aat	.	.	.	1	SF3B3	HGNC	10770	protein_coding	YES	CCDS10894.1	ENSP00000305790	SF3B3_HUMAN	J3QRB2_HUMAN,J3QL37_HUMAN,I3L4G7_HUMAN,H3BMB0_HUMAN,B3KM77_HUMAN	UPI0000167878	.	deleterious(0.01)	probably_damaging(0.989)	16/26	.	hmmpanther:PTHR10644,hmmpanther:PTHR10644:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGATACT	.	5	BLCA
SF3B3	0	.	GRCh37	16	70602973	70602973	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3193G>A	p.Glu1065Lys	p.E1065K	ENST00000302516	23/26	15	12	3	29	29	0	SF3B3,missense_variant,p.Glu1065Lys,ENST00000302516,;SF3B3,downstream_gene_variant,,ENST00000562722,;SF3B3,upstream_gene_variant,,ENST00000565990,;SF3B3,downstream_gene_variant,,ENST00000563739,;	A	ENSG00000189091	ENST00000302516	Transcript	missense_variant	3404	3193	1065	E/K	Gaa/Aaa	COSM704313	.	.	1	SF3B3	HGNC	10770	protein_coding	YES	CCDS10894.1	ENSP00000305790	SF3B3_HUMAN	J3QRB2_HUMAN,J3QL37_HUMAN,I3L4G7_HUMAN,H3BMB0_HUMAN,B3KM77_HUMAN	UPI0000167878	.	tolerated(0.09)	benign(0.099)	23/26	.	hmmpanther:PTHR10644,hmmpanther:PTHR10644:SF1,Pfam_domain:PF03178	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGATGAAGTA	.	2	BLCA
HYDIN	0	.	GRCh37	16	70884408	70884408	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12594G>T	p.Arg4198Ser	p.R4198S	ENST00000393567	74/86	22	12	10	33	33	0	HYDIN,missense_variant,p.Arg4198Ser,ENST00000393567,;RNU6ATAC25P,upstream_gene_variant,,ENST00000408798,;HYDIN,3_prime_UTR_variant,,ENST00000378856,;	A	ENSG00000157423	ENST00000393567	Transcript	missense_variant	12745	12594	4198	R/S	agG/agT	.	.	.	-1	HYDIN	HGNC	19368	protein_coding	YES	CCDS59269.1	ENSP00000377197	HYDIN_HUMAN	K0A1M3_HUMAN,I1Z9D0_HUMAN,F5H8I6_HUMAN,F5GXK3_HUMAN	UPI0001FEF4F9	.	.	benign(0.008)	74/86	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CCTGTCCTGTC	.	2	BLCA
WDR90	0	.	GRCh37	16	712803	712803	+	Missense_Mutation	SNP	G	G	A	rs200411070	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4270G>A	p.Glu1424Lys	p.E1424K	ENST00000293879	34/41	9	3	6	20	20	0	WDR90,missense_variant,p.Glu1426Lys,ENST00000549091,;WDR90,missense_variant,p.Glu1424Lys,ENST00000293879,;WDR90,upstream_gene_variant,,ENST00000547944,;WDR90,upstream_gene_variant,,ENST00000551100,;WDR90,downstream_gene_variant,,ENST00000550739,;WDR90,upstream_gene_variant,,ENST00000546896,;WDR90,upstream_gene_variant,,ENST00000315764,;WDR90,non_coding_transcript_exon_variant,,ENST00000548603,;WDR90,upstream_gene_variant,,ENST00000547543,;WDR90,downstream_gene_variant,,ENST00000548844,;WDR90,non_coding_transcript_exon_variant,,ENST00000549024,;WDR90,non_coding_transcript_exon_variant,,ENST00000547407,;WDR90,non_coding_transcript_exon_variant,,ENST00000552683,;WDR90,non_coding_transcript_exon_variant,,ENST00000546516,;WDR90,intron_variant,,ENST00000552728,;WDR90,upstream_gene_variant,,ENST00000548448,;WDR90,downstream_gene_variant,,ENST00000550902,;WDR90,downstream_gene_variant,,ENST00000546923,;WDR90,downstream_gene_variant,,ENST00000552943,;WDR90,upstream_gene_variant,,ENST00000553080,;	A	ENSG00000161996	ENST00000293879	Transcript	missense_variant	4270	4270	1424	E/K	Gag/Aag	rs200411070	.	.	1	WDR90	HGNC	26960	protein_coding	YES	CCDS42092.1	ENSP00000293879	WDR90_HUMAN	.	UPI0000D67C48	.	deleterious(0.02)	probably_damaging(0.919)	34/41	.	PROSITE_profiles:PS50294,hmmpanther:PTHR13720:SF10,hmmpanther:PTHR13720,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCCGAGGGC	byFrequency|byCluster	2	BLCA
ZNF23	0	.	GRCh37	16	71482947	71482947	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981G>A	p.%3D	p.Q327Q	ENST00000393539	6/6	52	38	14	62	62	0	ZNF23,synonymous_variant,p.%3D,ENST00000428724,;ZNF23,synonymous_variant,p.%3D,ENST00000393539,;ZNF23,synonymous_variant,p.%3D,ENST00000357254,;ZNF23,synonymous_variant,p.%3D,ENST00000417828,;ZNF23,synonymous_variant,p.%3D,ENST00000564528,;ZNF23,3_prime_UTR_variant,,ENST00000358700,;ZNF23,3_prime_UTR_variant,,ENST00000497160,;ZNF23,downstream_gene_variant,,ENST00000565718,;ZNF23,downstream_gene_variant,,ENST00000567340,;ZNF23,non_coding_transcript_exon_variant,,ENST00000539742,;AC010547.9,3_prime_UTR_variant,,ENST00000561908,;ZNF23,non_coding_transcript_exon_variant,,ENST00000576258,;	T	ENSG00000167377	ENST00000393539	Transcript	synonymous_variant	1795	981	327	Q	caG/caA	.	.	.	-1	ZNF23	HGNC	13023	protein_coding	YES	CCDS10900.1	ENSP00000377171	ZNF23_HUMAN	Q8NDP5_HUMAN,H3BPE6_HUMAN	UPI000013C406	.	.	.	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24377:SF180,hmmpanther:PTHR24377,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCTGATG	.	5	BLCA
RHOT2	0	.	GRCh37	16	720957	720957	+	Silent	SNP	G	G	A	rs772622845	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705G>A	p.%3D	p.R235R	ENST00000315082	10/19	31	22	9	34	34	0	RHOT2,synonymous_variant,p.%3D,ENST00000315082,;RHOT2,synonymous_variant,p.%3D,ENST00000563134,;RHOT2,upstream_gene_variant,,ENST00000569197,;WDR90,downstream_gene_variant,,ENST00000547944,;WDR90,downstream_gene_variant,,ENST00000551100,;RHBDL1,upstream_gene_variant,,ENST00000561556,;RHBDL1,upstream_gene_variant,,ENST00000352681,;WDR90,downstream_gene_variant,,ENST00000315764,;WDR90,downstream_gene_variant,,ENST00000549091,;WDR90,downstream_gene_variant,,ENST00000293879,;WDR90,downstream_gene_variant,,ENST00000546896,;RHOT2,downstream_gene_variant,,ENST00000561929,;RHOT2,non_coding_transcript_exon_variant,,ENST00000569943,;WDR90,downstream_gene_variant,,ENST00000547543,;RHOT2,3_prime_UTR_variant,,ENST00000570280,;RHOT2,3_prime_UTR_variant,,ENST00000562333,;RHOT2,3_prime_UTR_variant,,ENST00000561983,;RHOT2,3_prime_UTR_variant,,ENST00000563637,;RHOT2,non_coding_transcript_exon_variant,,ENST00000569358,;RHOT2,non_coding_transcript_exon_variant,,ENST00000568950,;RHOT2,non_coding_transcript_exon_variant,,ENST00000569675,;RHOT2,non_coding_transcript_exon_variant,,ENST00000602564,;RHOT2,non_coding_transcript_exon_variant,,ENST00000567017,;RHOT2,non_coding_transcript_exon_variant,,ENST00000567589,;RHOT2,non_coding_transcript_exon_variant,,ENST00000563776,;RHOT2,non_coding_transcript_exon_variant,,ENST00000566965,;RHOT2,non_coding_transcript_exon_variant,,ENST00000568636,;WDR90,downstream_gene_variant,,ENST00000548448,;RHOT2,downstream_gene_variant,,ENST00000566214,;RHOT2,downstream_gene_variant,,ENST00000570092,;RHOT2,downstream_gene_variant,,ENST00000569706,;RHBDL1,upstream_gene_variant,,ENST00000450775,;WDR90,downstream_gene_variant,,ENST00000553080,;RHOT2,upstream_gene_variant,,ENST00000564659,;RHOT2,downstream_gene_variant,,ENST00000562708,;WDR90,downstream_gene_variant,,ENST00000552728,;WDR90,downstream_gene_variant,,ENST00000549024,;WDR90,downstream_gene_variant,,ENST00000547407,;RHOT2,upstream_gene_variant,,ENST00000562957,;RHOT2,downstream_gene_variant,,ENST00000562598,;RHOT2,upstream_gene_variant,,ENST00000565004,;RHOT2,upstream_gene_variant,,ENST00000561711,;	A	ENSG00000140983	ENST00000315082	Transcript	synonymous_variant	819	705	235	R	agG/agA	rs772622845	.	.	1	RHOT2	HGNC	21169	protein_coding	YES	CCDS10417.1	ENSP00000321971	MIRO2_HUMAN	.	UPI000007310B	.	.	.	10/19	.	hmmpanther:PTHR24072:SF70,hmmpanther:PTHR24072,Gene3D:1.10.238.10,Pfam_domain:PF08356,PIRSF_domain:PIRSF037488,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGAACGT	.	5	BLCA
ADAT1	0	.	GRCh37	16	75654610	75654610	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.88G>A	p.Glu30Lys	p.E30K	ENST00000307921	3/11	37	26	11	48	48	0	ADAT1,missense_variant,p.Glu30Lys,ENST00000307921,;ADAT1,missense_variant,p.Glu30Lys,ENST00000567281,;ADAT1,missense_variant,p.Glu30Lys,ENST00000564657,;ADAT1,downstream_gene_variant,,ENST00000562374,;ADAT1,non_coding_transcript_exon_variant,,ENST00000565109,;ADAT1,missense_variant,p.Glu30Lys,ENST00000568001,;ADAT1,missense_variant,p.Glu30Lys,ENST00000566445,;	T	ENSG00000065457	ENST00000307921	Transcript	missense_variant	234	88	30	E/K	Gag/Aag	.	.	.	-1	ADAT1	HGNC	228	protein_coding	YES	CCDS10922.1	ENSP00000310015	ADAT1_HUMAN	H3BU72_HUMAN,H3BP18_HUMAN	UPI000006FD70	.	deleterious(0)	probably_damaging(0.997)	3/11	.	hmmpanther:PTHR10910,SMART_domains:SM00552	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCATGGT	.	5	BLCA
MON1B	0	.	GRCh37	16	77228934	77228934	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1178C>T	p.Ser393Leu	p.S393L	ENST00000248248	4/6	25	20	5	31	31	0	MON1B,missense_variant,p.Ser393Leu,ENST00000248248,;MON1B,missense_variant,p.Ser247Leu,ENST00000545553,;MON1B,missense_variant,p.Ser284Leu,ENST00000439557,;MON1B,intron_variant,,ENST00000320859,;MON1B,downstream_gene_variant,,ENST00000567291,;SYCE1L,upstream_gene_variant,,ENST00000378644,;MON1B,downstream_gene_variant,,ENST00000563612,;MON1B,downstream_gene_variant,,ENST00000563279,;MON1B,downstream_gene_variant,,ENST00000569610,;MON1B,non_coding_transcript_exon_variant,,ENST00000566455,;MON1B,downstream_gene_variant,,ENST00000564006,;MON1B,downstream_gene_variant,,ENST00000566963,;	T	ENSG00000103111	ENST00000248248	Transcript	missense_variant	1528	1178	393	S/L	tCa/tTa	.	.	.	1	MON1B	HGNC	25020	protein_coding	YES	CCDS10925.1	ENSP00000248248	MON1B_HUMAN	H3BUX9_HUMAN,H3BU99_HUMAN,H3BR21_HUMAN,H3BPL8_HUMAN	UPI0000072AD7	.	tolerated_low_confidence(0.27)	benign(0.002)	4/6	.	Pfam_domain:PF03164,hmmpanther:PTHR13027:SF13,hmmpanther:PTHR13027,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCTCATCAG	.	3	BLCA
WWOX	0	.	GRCh37	16	78466502	78466502	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.909C>T	p.%3D	p.F303F	ENST00000566780	8/9	92	68	23	113	113	0	WWOX,synonymous_variant,p.%3D,ENST00000408984,;WWOX,synonymous_variant,p.%3D,ENST00000566780,;WWOX,intron_variant,,ENST00000406884,;WWOX,intron_variant,,ENST00000539474,;WWOX,intron_variant,,ENST00000402655,;WWOX,downstream_gene_variant,,ENST00000562639,;WWOX,3_prime_UTR_variant,,ENST00000569332,;	T	ENSG00000186153	ENST00000566780	Transcript	synonymous_variant	1275	909	303	F	ttC/ttT	.	.	.	1	WWOX	HGNC	12799	protein_coding	YES	CCDS42196.1	ENSP00000457230	WWOX_HUMAN	.	UPI000004C797	.	.	.	8/9	.	hmmpanther:PTHR24310:SF30,hmmpanther:PTHR24310,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCTCCAA	.	5	BLCA
RP11-303E16.5	0	.	GRCh37	16	81087559	81087559	+	5'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000562450	.	14	9	5	22	22	0	C16orf46,3_prime_UTR_variant,,ENST00000378611,;RP11-303E16.5,upstream_gene_variant,,ENST00000562450,;RP11-303E16.8,non_coding_transcript_exon_variant,,ENST00000564536,;	A	ENSG00000261141	ENST00000562450	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	1347	1	RP11-303E16.5	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTGACTCT	.	5	BLCA
PLCG2	0	.	GRCh37	16	81934286	81934286	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1263C>T	p.%3D	p.F421F	ENST00000359376	14/33	26	20	6	36	36	0	PLCG2,synonymous_variant,p.%3D,ENST00000359376,;PLCG2,downstream_gene_variant,,ENST00000563193,;PLCG2,non_coding_transcript_exon_variant,,ENST00000562605,;PLCG2,non_coding_transcript_exon_variant,,ENST00000570198,;PLCG2,non_coding_transcript_exon_variant,,ENST00000567980,;PLCG2,intron_variant,,ENST00000563375,;	T	ENSG00000197943	ENST00000359376	Transcript	synonymous_variant	1477	1263	421	F	ttC/ttT	.	.	.	1	PLCG2	HGNC	9066	protein_coding	YES	CCDS42204.1	ENSP00000352336	PLCG2_HUMAN	H3BQV5_HUMAN	UPI00001411F7	.	.	.	14/33	.	Superfamily_domains:SSF51695,PIRSF_domain:PIRSF000952,SMART_domains:SM00148,Gene3D:3.20.20.190,Pfam_domain:PF00388,hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF25,PROSITE_profiles:PS50007	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCAAGGA	.	5	BLCA
MBTPS1	0	.	GRCh37	16	84115402	84115402	+	Silent	SNP	G	G	A	rs192281331	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1398C>T	p.%3D	p.L466L	ENST00000343411	11/23	46	34	12	72	72	0	MBTPS1,synonymous_variant,p.%3D,ENST00000343411,;MBTPS1,downstream_gene_variant,,ENST00000570012,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000565863,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000569770,;MBTPS1,3_prime_UTR_variant,,ENST00000563231,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000564643,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000562788,;	A	ENSG00000140943	ENST00000343411	Transcript	synonymous_variant	1894	1398	466	L	ctC/ctT	rs192281331	.	.	-1	MBTPS1	HGNC	15456	protein_coding	YES	CCDS10941.1	ENSP00000344223	MBTP1_HUMAN	H3BV53_HUMAN	UPI0000033348	.	.	.	11/23	.	Superfamily_domains:SSF52743,Pfam_domain:PF00082,Gene3D:3.40.50.200,hmmpanther:PTHR10795:SF30,hmmpanther:PTHR10795	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATCGAGCTT	byCluster|by1000G	5	BLCA
MBTPS1	0	.	GRCh37	16	84118642	84118642	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1232C>T	p.Ser411Leu	p.S411L	ENST00000343411	10/23	38	29	8	53	53	0	MBTPS1,missense_variant,p.Ser411Leu,ENST00000343411,;MBTPS1,downstream_gene_variant,,ENST00000570012,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000565863,;MBTPS1,non_coding_transcript_exon_variant,,ENST00000569770,;MBTPS1,intron_variant,,ENST00000563231,;MBTPS1,upstream_gene_variant,,ENST00000564643,;MBTPS1,upstream_gene_variant,,ENST00000562788,;	A	ENSG00000140943	ENST00000343411	Transcript	missense_variant	1728	1232	411	S/L	tCa/tTa	COSM383888	.	.	-1	MBTPS1	HGNC	15456	protein_coding	YES	CCDS10941.1	ENSP00000344223	MBTP1_HUMAN	H3BV53_HUMAN	UPI0000033348	.	deleterious(0)	probably_damaging(1)	10/23	.	Prints_domain:PR00723,Superfamily_domains:SSF52743,Pfam_domain:PF00082,Gene3D:3.40.50.200,hmmpanther:PTHR10795:SF30,hmmpanther:PTHR10795	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.S411*|c.1232C>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTGAGAGG	.	5	BLCA
SLC7A5	0	.	GRCh37	16	87902640	87902640	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389T>C	p.Phe130Ser	p.F130S	ENST00000261622	1/10	21	16	5	34	34	0	SLC7A5,missense_variant,p.Phe130Ser,ENST00000261622,;	G	ENSG00000103257	ENST00000261622	Transcript	missense_variant	455	389	130	F/S	tTc/tCc	.	.	.	-1	SLC7A5	HGNC	11063	protein_coding	YES	CCDS10964.1	ENSP00000261622	LAT1_HUMAN	.	UPI000000D9ED	.	deleterious(0)	probably_damaging(1)	1/10	.	hmmpanther:PTHR11785,hmmpanther:PTHR11785:SF232,TIGRFAM_domain:TIGR00911,Pfam_domain:PF13520,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGGAAGGCG	.	5	BLCA
ZNF778	0	.	GRCh37	16	89293680	89293680	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.900A>G	p.%3D	p.V300V	ENST00000433976	6/6	31	24	7	42	42	0	ZNF778,synonymous_variant,p.%3D,ENST00000433976,;ZNF778,synonymous_variant,p.%3D,ENST00000306502,;ZNF778,downstream_gene_variant,,ENST00000564906,;RP11-46C24.6,intron_variant,,ENST00000563182,;ZNF778,3_prime_UTR_variant,,ENST00000567651,;ZNF778,downstream_gene_variant,,ENST00000565414,;	G	ENSG00000170100	ENST00000433976	Transcript	synonymous_variant	1232	900	300	V	gtA/gtG	.	.	.	1	ZNF778	HGNC	26479	protein_coding	YES	CCDS45550.1	ENSP00000405289	ZN778_HUMAN	H3BUU4_HUMAN	UPI00001B6521	.	.	.	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF116,hmmpanther:PTHR24381,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTAAGAAT	.	5	BLCA
FANCA	0	.	GRCh37	16	89849436	89849436	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1545G>A	p.%3D	p.K515K	ENST00000389301	16/43	26	18	8	31	31	0	FANCA,synonymous_variant,p.%3D,ENST00000568369,;FANCA,synonymous_variant,p.%3D,ENST00000389301,;FANCA,upstream_gene_variant,,ENST00000567284,;FANCA,upstream_gene_variant,,ENST00000567510,;	T	ENSG00000187741	ENST00000389301	Transcript	synonymous_variant	1576	1545	515	K	aaG/aaA	.	.	.	-1	FANCA	HGNC	3582	protein_coding	YES	CCDS32515.1	ENSP00000373952	FANCA_HUMAN	H3BT53_HUMAN	UPI0000520A1A	.	.	.	16/43	.	hmmpanther:PTHR12047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGTGTCTTGGC	.	5	BLCA
GRIN2A	0	.	GRCh37	16	9934515	9934515	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1640C>G	p.Ser547Cys	p.S547C	ENST00000396573	8/14	56	37	19	66	66	0	GRIN2A,missense_variant,p.Ser547Cys,ENST00000396573,;GRIN2A,missense_variant,p.Ser547Cys,ENST00000404927,;GRIN2A,missense_variant,p.Ser390Cys,ENST00000535259,;GRIN2A,missense_variant,p.Ser547Cys,ENST00000330684,;GRIN2A,missense_variant,p.Ser547Cys,ENST00000396575,;GRIN2A,missense_variant,p.Ser547Cys,ENST00000562109,;	C	ENSG00000183454	ENST00000396573	Transcript	missense_variant	1950	1640	547	S/C	tCt/tGt	.	.	.	-1	GRIN2A	HGNC	4585	protein_coding	YES	CCDS10539.1	ENSP00000379818	NMDE1_HUMAN	Q547U9_HUMAN	UPI000000D7AB	.	deleterious(0)	probably_damaging(0.999)	8/14	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF107,Gene3D:3.40.190.10,Pfam_domain:PF00497,SMART_domains:SM00079,Superfamily_domains:SSF53850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCAGAAGGT	.	5	BLCA
SCO1	0	.	GRCh37	17	10600878	10600878	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54G>A	.	.	ENST00000255390	1/6	11	7	4	18	18	0	SCO1,5_prime_UTR_variant,,ENST00000255390,;SCO1,upstream_gene_variant,,ENST00000577427,;ADPRM,upstream_gene_variant,,ENST00000379774,;TMEM220,downstream_gene_variant,,ENST00000580787,;SCO1,intron_variant,,ENST00000582053,;ADPRM,upstream_gene_variant,,ENST00000527582,;ADPRM,upstream_gene_variant,,ENST00000468843,;SCO1,upstream_gene_variant,,ENST00000577335,;SCO1,upstream_gene_variant,,ENST00000579396,;	T	ENSG00000133028	ENST00000255390	Transcript	5_prime_UTR_variant	8	.	.	.	.	.	.	.	-1	SCO1	HGNC	10603	protein_coding	YES	CCDS11158.1	ENSP00000255390	SCO1_HUMAN	K7EMB5_HUMAN,J3QR42_HUMAN	UPI000013566A	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCGTTCCGCTT	.	3	BLCA
DNAH9	0	.	GRCh37	17	11711175	11711175	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8547C>T	p.%3D	p.I2849I	ENST00000262442	44/69	41	29	12	37	37	0	DNAH9,synonymous_variant,p.%3D,ENST00000454412,;DNAH9,synonymous_variant,p.%3D,ENST00000262442,;	T	ENSG00000007174	ENST00000262442	Transcript	synonymous_variant	8615	8547	2849	I	atC/atT	.	.	.	1	DNAH9	HGNC	2953	protein_coding	YES	CCDS11160.1	ENSP00000262442	DYH9_HUMAN	Q92865_HUMAN	UPI0000141BA2	.	.	.	44/69	.	hmmpanther:PTHR10676:SF36,hmmpanther:PTHR10676,Gene3D:3.40.50.300,Pfam_domain:PF12780,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCACACT	.	5	BLCA
COX10	0	.	GRCh37	17	13972856	13972856	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-67G>A	.	.	ENST00000261643	1/7	9	6	3	17	17	0	COX10,5_prime_UTR_variant,,ENST00000261643,;COX10,5_prime_UTR_variant,,ENST00000429152,;COX10,upstream_gene_variant,,ENST00000537334,;COX10,upstream_gene_variant,,ENST00000536205,;COX10-AS1,upstream_gene_variant,,ENST00000449363,;COX10-AS1,upstream_gene_variant,,ENST00000602743,;COX10-AS1,upstream_gene_variant,,ENST00000602539,;COX10,upstream_gene_variant,,ENST00000581931,;COX10,upstream_gene_variant,,ENST00000580561,;	A	ENSG00000006695	ENST00000261643	Transcript	5_prime_UTR_variant	11	.	.	.	.	.	.	.	1	COX10	HGNC	2260	protein_coding	YES	CCDS11166.1	ENSP00000261643	COX10_HUMAN	B4DFR1_HUMAN	UPI000013D1C8	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGGCGGCGCC	.	2	BLCA
HS3ST3B1	0	.	GRCh37	17	14204961	14204961	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126C>T	p.%3D	p.V42V	ENST00000360954	1/2	22	12	9	34	34	0	HS3ST3B1,synonymous_variant,p.%3D,ENST00000360954,;RP11-214O1.1,upstream_gene_variant,,ENST00000571192,;RP11-214O1.2,upstream_gene_variant,,ENST00000583262,;HS3ST3B1,synonymous_variant,p.%3D,ENST00000466596,;	T	ENSG00000125430	ENST00000360954	Transcript	synonymous_variant	562	126	42	V	gtC/gtT	.	.	.	1	HS3ST3B1	HGNC	5198	protein_coding	YES	CCDS11167.1	ENSP00000354213	HS3SB_HUMAN	.	UPI0000038167	.	.	.	1/2	.	hmmpanther:PTHR10605,hmmpanther:PTHR10605:SF9,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGTCTGGCT	.	5	BLCA
TRIM16	0	.	GRCh37	17	15532330	15532330	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294G>A	p.Glu432Lys	p.E432K	ENST00000578237	11/11	30	17	13	53	53	0	TRIM16,missense_variant,p.Glu432Lys,ENST00000336708,;TRIM16,missense_variant,p.Glu216Lys,ENST00000577886,;TRIM16,missense_variant,p.Glu185Lys,ENST00000577446,;TRIM16,missense_variant,p.Glu302Lys,ENST00000416464,;TRIM16,missense_variant,p.Glu432Lys,ENST00000578237,;TRIM16,synonymous_variant,p.%3D,ENST00000579219,;RP11-385D13.1,intron_variant,,ENST00000455584,;TRIM16,downstream_gene_variant,,ENST00000580110,;TRIM16,downstream_gene_variant,,ENST00000577372,;TRIM16,downstream_gene_variant,,ENST00000578744,;TRIM16,downstream_gene_variant,,ENST00000473540,;TRIM16,non_coding_transcript_exon_variant,,ENST00000577326,;TRIM16,downstream_gene_variant,,ENST00000473368,;	T	ENSG00000221926	ENST00000578237	Transcript	missense_variant	2150	1294	432	E/K	Gag/Aag	.	.	.	-1	TRIM16	HGNC	17241	protein_coding	YES	CCDS11171.1	ENSP00000463188	TRI16_HUMAN	K7ENN8_HUMAN,J3QKY5_HUMAN	UPI000013C874	.	deleterious(0)	probably_damaging(0.973)	11/11	.	Prints_domain:PR01407,Superfamily_domains:SSF49899,SMART_domains:SM00449,Pfam_domain:PF00622,hmmpanther:PTHR24103:SF86,hmmpanther:PTHR24103,PROSITE_profiles:PS50188	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCAAAAT	.	5	BLCA
NCOR1	0	.	GRCh37	17	16075235	16075235	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317C>T	p.Ser106Leu	p.S106L	ENST00000268712	4/46	32	21	10	39	39	0	NCOR1,missense_variant,p.Ser106Leu,ENST00000582357,;NCOR1,missense_variant,p.Ser106Leu,ENST00000395851,;NCOR1,missense_variant,p.Ser106Leu,ENST00000430577,;NCOR1,missense_variant,p.Ser106Leu,ENST00000436828,;NCOR1,missense_variant,p.Ser106Leu,ENST00000411510,;NCOR1,missense_variant,p.Ser106Leu,ENST00000268712,;NCOR1,intron_variant,,ENST00000395848,;NCOR1,3_prime_UTR_variant,,ENST00000460276,;NCOR1,non_coding_transcript_exon_variant,,ENST00000585296,;NCOR1,intron_variant,,ENST00000579974,;	A	ENSG00000141027	ENST00000268712	Transcript	missense_variant	575	317	106	S/L	tCg/tTg	.	.	.	-1	NCOR1	HGNC	7672	protein_coding	YES	CCDS11175.1	ENSP00000268712	NCOR1_HUMAN	Q9NSZ0_HUMAN,C9JAP0_HUMAN,B4DJ25_HUMAN	UPI000013D7D5	.	.	possibly_damaging(0.895)	4/46	.	hmmpanther:PTHR13992,hmmpanther:PTHR13992:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTCGATTCC	.	5	BLCA
TRPV2	0	.	GRCh37	17	16321046	16321046	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.64G>T	p.Gly22Cys	p.G22C	ENST00000338560	2/15	60	46	14	87	87	0	TRPV2,missense_variant,p.Gly22Cys,ENST00000338560,;TRPV2,5_prime_UTR_variant,,ENST00000577397,;TRPV2,upstream_gene_variant,,ENST00000455666,;RP11-138I1.2,upstream_gene_variant,,ENST00000580996,;	T	ENSG00000187688	ENST00000338560	Transcript	missense_variant	463	64	22	G/C	Ggc/Tgc	.	.	.	1	TRPV2	HGNC	18082	protein_coding	YES	CCDS32576.1	ENSP00000342222	TRPV2_HUMAN	J3QKR1_HUMAN	UPI0000032F4E	.	deleterious(0.02)	possibly_damaging(0.867)	2/15	.	hmmpanther:PTHR10582,hmmpanther:PTHR10582:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGGCTCT	.	5	BLCA
WDR81	0	.	GRCh37	17	1638927	1638927	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5241C>T	p.%3D	p.V1747V	ENST00000409644	8/10	37	24	13	52	52	0	WDR81,synonymous_variant,p.%3D,ENST00000419248,;WDR81,synonymous_variant,p.%3D,ENST00000446363,;WDR81,synonymous_variant,p.%3D,ENST00000545662,;WDR81,synonymous_variant,p.%3D,ENST00000309182,;WDR81,synonymous_variant,p.%3D,ENST00000437219,;WDR81,synonymous_variant,p.%3D,ENST00000409644,;WDR81,downstream_gene_variant,,ENST00000468539,;WDR81,downstream_gene_variant,,ENST00000575206,;WDR81,downstream_gene_variant,,ENST00000455636,;WDR81,downstream_gene_variant,,ENST00000418841,;RP11-961A15.1,intron_variant,,ENST00000576540,;WDR81,non_coding_transcript_exon_variant,,ENST00000464528,;WDR81,downstream_gene_variant,,ENST00000495411,;WDR81,downstream_gene_variant,,ENST00000479966,;WDR81,downstream_gene_variant,,ENST00000492901,;WDR81,downstream_gene_variant,,ENST00000474958,;	T	ENSG00000167716	ENST00000409644	Transcript	synonymous_variant	5241	5241	1747	V	gtC/gtT	.	.	.	1	WDR81	HGNC	26600	protein_coding	YES	CCDS54062.1	ENSP00000386609	WDR81_HUMAN	E9PDG3_HUMAN,C9JD20_HUMAN	UPI0001881A85	.	.	.	8/10	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF314,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTCATGCC	.	5	BLCA
ZNF287	0	.	GRCh37	17	16456513	16456513	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.943G>A	p.Asp315Asn	p.D315N	ENST00000395824	6/6	71	51	20	72	72	0	ZNF287,missense_variant,p.Asp315Asn,ENST00000395824,;ZNF287,missense_variant,p.Asp315Asn,ENST00000395825,;RP1-77H15.1,downstream_gene_variant,,ENST00000580311,;ZNF287,non_coding_transcript_exon_variant,,ENST00000498796,;	T	ENSG00000141040	ENST00000395824	Transcript	missense_variant	1561	943	315	D/N	Gat/Aat	.	.	.	-1	ZNF287	HGNC	13502	protein_coding	YES	CCDS11179.2	ENSP00000379168	ZN287_HUMAN	C9JAV4_HUMAN	UPI0000200A57	.	tolerated(0.12)	benign(0.154)	6/6	.	hmmpanther:PTHR24402:SF201,hmmpanther:PTHR24402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATCATATT	.	5	BLCA
DRG2	0	.	GRCh37	17	18010519	18010519	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1060G>A	p.Glu354Lys	p.E354K	ENST00000225729	13/13	24	17	7	27	27	0	DRG2,missense_variant,p.Glu354Lys,ENST00000225729,;DRG2,missense_variant,p.Gly160Glu,ENST00000583355,;DRG2,3_prime_UTR_variant,,ENST00000395726,;MYO15A,upstream_gene_variant,,ENST00000205890,;DRG2,3_prime_UTR_variant,,ENST00000467099,;DRG2,3_prime_UTR_variant,,ENST00000580055,;DRG2,non_coding_transcript_exon_variant,,ENST00000582528,;DRG2,non_coding_transcript_exon_variant,,ENST00000497744,;DRG2,non_coding_transcript_exon_variant,,ENST00000482564,;DRG2,downstream_gene_variant,,ENST00000582314,;	A	ENSG00000108591	ENST00000225729	Transcript	missense_variant	1198	1060	354	E/K	Gag/Aag	.	.	.	1	DRG2	HGNC	3030	protein_coding	YES	CCDS11191.1	ENSP00000225729	DRG2_HUMAN	.	UPI000012987D	.	tolerated(0.34)	benign(0.158)	13/13	.	hmmpanther:PTHR11702,hmmpanther:PTHR11702:SF26,Pfam_domain:PF02824,Superfamily_domains:SSF81271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCATGGAGCAT	.	4	BLCA
MYO15A	0	.	GRCh37	17	18045449	18045449	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5706G>A	p.%3D	p.L1902L	ENST00000205890	24/66	63	51	11	80	80	0	MYO15A,synonymous_variant,p.%3D,ENST00000205890,;snoU13,upstream_gene_variant,,ENST00000459354,;MYO15A,non_coding_transcript_exon_variant,,ENST00000412324,;MYO15A,upstream_gene_variant,,ENST00000578999,;	A	ENSG00000091536	ENST00000205890	Transcript	synonymous_variant	6044	5706	1902	L	ctG/ctA	.	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	.	24/66	.	Superfamily_domains:SSF52540,SMART_domains:SM00015,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF351,PROSITE_profiles:PS50096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCCTGAATCT	.	5	BLCA
MYO15A	0	.	GRCh37	17	18057115	18057115	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7993C>T	p.Pro2665Ser	p.P2665S	ENST00000205890	43/66	27	19	7	44	44	0	MYO15A,missense_variant,p.Pro2665Ser,ENST00000205890,;MYO15A,5_prime_UTR_variant,,ENST00000418233,;MYO15A,upstream_gene_variant,,ENST00000585180,;MYO15A,upstream_gene_variant,,ENST00000578472,;MYO15A,upstream_gene_variant,,ENST00000556535,;MYO15A,upstream_gene_variant,,ENST00000557190,;MYO15A,upstream_gene_variant,,ENST00000557655,;MYO15A,upstream_gene_variant,,ENST00000445289,;MYO15A,downstream_gene_variant,,ENST00000578999,;MYO15A,upstream_gene_variant,,ENST00000433411,;MYO15A,upstream_gene_variant,,ENST00000536811,;	T	ENSG00000091536	ENST00000205890	Transcript	missense_variant	8331	7993	2665	P/S	Cct/Tct	.	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	unknown(0)	43/66	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCCCCTGAG	.	5	BLCA
MYO15A	0	.	GRCh37	17	18064645	18064645	+	Missense_Mutation	SNP	G	G	A	rs373695303	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9401G>A	p.Arg3134Gln	p.R3134Q	ENST00000205890	57/66	37	25	12	34	34	0	MYO15A,missense_variant,p.Arg26Gln,ENST00000451725,;MYO15A,missense_variant,p.Arg398Gln,ENST00000418233,;MYO15A,missense_variant,p.Arg3134Gln,ENST00000205890,;MYO15A,missense_variant,p.Arg88Gln,ENST00000578472,;MYO15A,missense_variant,p.Arg39Gln,ENST00000579848,;MYO15A,missense_variant,p.Arg88Gln,ENST00000556535,;MYO15A,non_coding_transcript_exon_variant,,ENST00000557190,;MYO15A,3_prime_UTR_variant,,ENST00000557655,;MYO15A,non_coding_transcript_exon_variant,,ENST00000445289,;MYO15A,non_coding_transcript_exon_variant,,ENST00000473013,;MYO15A,non_coding_transcript_exon_variant,,ENST00000433411,;MYO15A,upstream_gene_variant,,ENST00000578575,;MYO15A,downstream_gene_variant,,ENST00000536811,;	A	ENSG00000091536	ENST00000205890	Transcript	missense_variant	9739	9401	3134	R/Q	cGa/cAa	rs373695303	.	.	1	MYO15A	HGNC	7594	protein_coding	YES	CCDS42271.1	ENSP00000205890	MYO15_HUMAN	K7EQV1_HUMAN,G3V4G3_HUMAN	UPI0000E59E6E	.	.	unknown(0)	57/66	.	SMART_domains:SM00139,Pfam_domain:PF00784,PROSITE_profiles:PS51016	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGCGAGGCT	byFrequency|byCluster	5	BLCA
GRAP	0	.	GRCh37	17	18927627	18927627	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369G>A	p.%3D	p.E123E	ENST00000284154	4/5	19	10	8	19	19	0	GRAP,synonymous_variant,p.%3D,ENST00000395635,;GRAP,synonymous_variant,p.%3D,ENST00000284154,;GRAP,intron_variant,,ENST00000573099,;SLC5A10,downstream_gene_variant,,ENST00000417251,;SLC5A10,downstream_gene_variant,,ENST00000395647,;SLC5A10,downstream_gene_variant,,ENST00000395643,;SLC5A10,downstream_gene_variant,,ENST00000395642,;SLC5A10,downstream_gene_variant,,ENST00000395645,;SLC5A10,downstream_gene_variant,,ENST00000317977,;GRAP,3_prime_UTR_variant,,ENST00000583020,;SLC5A10,downstream_gene_variant,,ENST00000584658,;	T	ENSG00000154016	ENST00000284154	Transcript	synonymous_variant	1080	369	123	E	gaG/gaA	.	.	.	-1	GRAP	HGNC	4562	protein_coding	YES	CCDS11202.1	ENSP00000284154	GRAP_HUMAN	K7EKU7_HUMAN,A8MW78_HUMAN	UPI000012BA7E	.	.	.	4/5	.	Superfamily_domains:SSF55550,SMART_domains:SM00252,Pfam_domain:PF00017,Gene3D:3.30.505.10,hmmpanther:PTHR22820,hmmpanther:PTHR22820:SF26,PROSITE_profiles:PS50001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCTCCTC	.	5	BLCA
TBC1D3P5	0	.	GRCh37	17	25748725	25748725	+	RNA	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.626C>G	.	.	ENST00000586223	6/13	19	13	6	25	25	0	TBC1D3P5,non_coding_transcript_exon_variant,,ENST00000586223,;TBC1D3P5,intron_variant,,ENST00000581469,;TBC1D3P5,non_coding_transcript_exon_variant,,ENST00000579401,;	G	ENSG00000266433	ENST00000586223	Transcript	non_coding_transcript_exon_variant	626	.	.	.	.	.	.	.	1	TBC1D3P5	HGNC	43567	processed_transcript	YES	.	.	.	.	.	.	.	.	6/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAACAGCAA	.	5	BLCA
SUPT6H	0	.	GRCh37	17	27026824	27026824	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4474G>A	p.Glu1492Lys	p.E1492K	ENST00000314616	33/37	135	101	34	150	150	0	SUPT6H,missense_variant,p.Glu1492Lys,ENST00000314616,;SUPT6H,missense_variant,p.Glu1492Lys,ENST00000347486,;PROCA1,downstream_gene_variant,,ENST00000581289,;PROCA1,downstream_gene_variant,,ENST00000301039,;PROCA1,downstream_gene_variant,,ENST00000439862,;PROCA1,downstream_gene_variant,,ENST00000415329,;PROCA1,downstream_gene_variant,,ENST00000422880,;PROCA1,downstream_gene_variant,,ENST00000584073,;PROCA1,downstream_gene_variant,,ENST00000579650,;PROCA1,downstream_gene_variant,,ENST00000578097,;SUPT6H,non_coding_transcript_exon_variant,,ENST00000583340,;SUPT6H,non_coding_transcript_exon_variant,,ENST00000581510,;PROCA1,downstream_gene_variant,,ENST00000495203,;SUPT6H,downstream_gene_variant,,ENST00000580471,;PROCA1,downstream_gene_variant,,ENST00000473751,;	A	ENSG00000109111	ENST00000314616	Transcript	missense_variant	4757	4474	1492	E/K	Gag/Aag	.	.	.	1	SUPT6H	HGNC	11470	protein_coding	YES	CCDS32596.1	ENSP00000319104	SPT6H_HUMAN	J3QS64_HUMAN	UPI000015FFA7	.	deleterious(0.02)	benign(0.146)	33/37	.	PIRSF_domain:PIRSF036947,Pfam_domain:PF14633,hmmpanther:PTHR10145:SF6,hmmpanther:PTHR10145	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCAGAGGGA	.	5	BLCA
TLCD1	0	.	GRCh37	17	27052356	27052356	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326G>A	p.Arg109Gln	p.R109Q	ENST00000292090	3/4	58	39	19	80	80	0	TLCD1,missense_variant,p.Arg62Gln,ENST00000394933,;TLCD1,missense_variant,p.Arg109Gln,ENST00000292090,;TLCD1,missense_variant,p.Arg38Gln,ENST00000580518,;RPL23A,downstream_gene_variant,,ENST00000472628,;RPL23A,downstream_gene_variant,,ENST00000394938,;TLCD1,upstream_gene_variant,,ENST00000581236,;NEK8,upstream_gene_variant,,ENST00000268766,;NEK8,upstream_gene_variant,,ENST00000579060,;RPL23A,downstream_gene_variant,,ENST00000394935,;RPL23A,downstream_gene_variant,,ENST00000422514,;RPL23A,downstream_gene_variant,,ENST00000578181,;RPL23A,downstream_gene_variant,,ENST00000355731,;NEK8,upstream_gene_variant,,ENST00000579671,;RPL23A,downstream_gene_variant,,ENST00000496182,;SNORD42A,downstream_gene_variant,,ENST00000459584,;SNORD4B,downstream_gene_variant,,ENST00000459083,;SNORD4A,downstream_gene_variant,,ENST00000459174,;SNORD42B,downstream_gene_variant,,ENST00000458893,;AC010761.14,upstream_gene_variant,,ENST00000587898,;AC010761.8,upstream_gene_variant,,ENST00000582718,;NEK8,upstream_gene_variant,,ENST00000593261,;RPL23A,downstream_gene_variant,,ENST00000582736,;NEK8,upstream_gene_variant,,ENST00000581000,;RPL23A,downstream_gene_variant,,ENST00000580755,;NEK8,upstream_gene_variant,,ENST00000543014,;NEK8,upstream_gene_variant,,ENST00000584342,;	T	ENSG00000160606	ENST00000292090	Transcript	missense_variant	437	326	109	R/Q	cGa/cAa	.	.	.	-1	TLCD1	HGNC	25177	protein_coding	YES	CCDS11242.1	ENSP00000292090	TLCD1_HUMAN	K7ELX5_HUMAN	UPI000006DF3D	.	tolerated(0.08)	benign(0.041)	3/4	.	SMART_domains:SM00724,Pfam_domain:PF03798,hmmpanther:PTHR13439:SF5,hmmpanther:PTHR13439,PROSITE_profiles:PS50922	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCGCGTC	.	5	BLCA
TAOK1	0	.	GRCh37	17	27822611	27822611	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.865G>A	p.Val289Met	p.V289M	ENST00000261716	11/20	90	65	25	124	124	0	TAOK1,missense_variant,p.Val289Met,ENST00000261716,;TAOK1,missense_variant,p.Val289Met,ENST00000536202,;TAOK1,non_coding_transcript_exon_variant,,ENST00000577583,;	A	ENSG00000160551	ENST00000261716	Transcript	missense_variant	1384	865	289	V/M	Gtg/Atg	.	.	.	1	TAOK1	HGNC	29259	protein_coding	YES	CCDS32601.1	ENSP00000261716	TAOK1_HUMAN	J3QS76_HUMAN	UPI000004A033	.	deleterious(0)	possibly_damaging(0.868)	11/20	.	hmmpanther:PTHR24361:SF189,hmmpanther:PTHR24361,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACCGTGTTA	.	5	BLCA
CORO6	0	.	GRCh37	17	27943841	27943841	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>A	p.Glu295Lys	p.E295K	ENST00000345068	8/11	85	57	28	104	104	0	CORO6,missense_variant,p.Glu295Lys,ENST00000584969,;CORO6,missense_variant,p.Glu61Lys,ENST00000456796,;CORO6,missense_variant,p.Glu295Lys,ENST00000345068,;CORO6,missense_variant,p.Glu295Lys,ENST00000388767,;CORO6,missense_variant,p.Glu295Lys,ENST00000445145,;CORO6,missense_variant,p.Glu255Lys,ENST00000580212,;ANKRD13B,downstream_gene_variant,,ENST00000579719,;CORO6,downstream_gene_variant,,ENST00000584602,;CORO6,downstream_gene_variant,,ENST00000492276,;ANKRD13B,downstream_gene_variant,,ENST00000394859,;RP11-68I3.2,intron_variant,,ENST00000581474,;RP11-68I3.10,downstream_gene_variant,,ENST00000582367,;CORO6,non_coding_transcript_exon_variant,,ENST00000577909,;CORO6,3_prime_UTR_variant,,ENST00000480954,;CORO6,non_coding_transcript_exon_variant,,ENST00000469090,;CORO6,non_coding_transcript_exon_variant,,ENST00000459686,;CORO6,non_coding_transcript_exon_variant,,ENST00000467534,;CORO6,non_coding_transcript_exon_variant,,ENST00000579388,;ANKRD13B,downstream_gene_variant,,ENST00000493506,;ANKRD13B,downstream_gene_variant,,ENST00000487527,;ANKRD13B,downstream_gene_variant,,ENST00000488766,;	T	ENSG00000167549	ENST00000345068	Transcript	missense_variant	1097	883	295	E/K	Gag/Aag	.	.	.	-1	CORO6	HGNC	21356	protein_coding	YES	CCDS11252.2	ENSP00000344562	CORO6_HUMAN	K7ERF4_HUMAN,J3QRV4_HUMAN	UPI0000DA4C55	.	deleterious(0)	probably_damaging(0.985)	8/11	.	Superfamily_domains:SSF50978,Gene3D:2.130.10.10,Pfam_domain:PF08954,hmmpanther:PTHR10856,hmmpanther:PTHR10856:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCAAAGT	.	5	BLCA
CPD	0	.	GRCh37	17	28788233	28788233	+	Silent	SNP	C	C	T	rs780725012	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3534C>T	p.%3D	p.I1178I	ENST00000225719	18/21	133	104	28	118	118	0	CPD,synonymous_variant,p.%3D,ENST00000543464,;CPD,synonymous_variant,p.%3D,ENST00000225719,;CPD,intron_variant,,ENST00000584221,;CPD,non_coding_transcript_exon_variant,,ENST00000584051,;CPD,intron_variant,,ENST00000579502,;CPD,downstream_gene_variant,,ENST00000580396,;CPD,downstream_gene_variant,,ENST00000584050,;	T	ENSG00000108582	ENST00000225719	Transcript	synonymous_variant	3610	3534	1178	I	atC/atT	rs780725012	.	.	1	CPD	HGNC	2301	protein_coding	YES	CCDS11257.1	ENSP00000225719	CBPD_HUMAN	.	UPI000000DAF7	.	.	.	18/21	.	hmmpanther:PTHR11532:SF40,hmmpanther:PTHR11532,Gene3D:3.40.630.10,Pfam_domain:PF00246,SMART_domains:SM00631,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATCACAGT	.	5	BLCA
RAP1GAP2	0	.	GRCh37	17	2908728	2908748	+	Splice_Site	DEL	CCAGAAGGTAGGACACTCTTC	CCAGAAGGTAGGACACTCTTC	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	CCAGAAGGTAGGACACTCTTC	CCAGAAGGTAGGACACTCTTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1267_1272+15delCAGAAGGTAGGACACTCTTCC	.	p.X423_splice	ENST00000254695	15/25	85	69	16	126	126	0	RAP1GAP2,splice_donor_variant,,ENST00000540393,;RAP1GAP2,splice_donor_variant,,ENST00000366401,;RAP1GAP2,splice_donor_variant,,ENST00000542807,;RAP1GAP2,splice_donor_variant,,ENST00000254695,;RAP1GAP2,splice_donor_variant,,ENST00000574515,;RAP1GAP2,upstream_gene_variant,,ENST00000575979,;	-	ENSG00000132359	ENST00000254695	Transcript	splice_donor_variant	1356-?	1266-?	422-?	.	.	.	.	.	1	RAP1GAP2	HGNC	29176	protein_coding	YES	CCDS45573.1	ENSP00000254695	RPGP2_HUMAN	.	UPI0000D622A3	.	.	.	15/25	15/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CGTTTTCCAGAAGGTAGGACACTCTTCCTTCT	.	3	BLCA
ATAD5	0	.	GRCh37	17	29220978	29220978	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5107C>T	p.Gln1703Ter	p.Q1703*	ENST00000321990	21/23	83	57	26	81	81	0	ATAD5,stop_gained,p.Gln1703Ter,ENST00000321990,;TEFM,downstream_gene_variant,,ENST00000579183,;	T	ENSG00000176208	ENST00000321990	Transcript	stop_gained	5485	5107	1703	Q/*	Caa/Taa	.	.	.	1	ATAD5	HGNC	25752	protein_coding	YES	CCDS11260.1	ENSP00000313171	ATAD5_HUMAN	.	UPI0000071E9E	.	.	.	21/23	.	hmmpanther:PTHR15828:SF1,hmmpanther:PTHR15828	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAAAGC	.	5	BLCA
TEFM	0	.	GRCh37	17	29233238	29233238	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-22G>A	.	.	ENST00000581216	1/4	34	20	14	46	46	0	TEFM,5_prime_UTR_variant,,ENST00000580840,;TEFM,5_prime_UTR_variant,,ENST00000581216,;ADAP2,upstream_gene_variant,,ENST00000583688,;TEFM,5_prime_UTR_variant,,ENST00000306049,;TEFM,non_coding_transcript_exon_variant,,ENST00000541382,;	T	ENSG00000172171	ENST00000581216	Transcript	5_prime_UTR_variant	601	.	.	.	.	.	.	.	-1	TEFM	HGNC	26223	protein_coding	YES	CCDS42291.1	ENSP00000462963	TEFM_HUMAN	.	UPI00000708D5	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGTCCAGTC	.	5	BLCA
OR3A1	0	.	GRCh37	17	3195643	3195643	+	Silent	SNP	G	G	A	rs144484709	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234C>T	p.%3D	p.S78S	ENST00000323404	1/1	35	24	10	53	53	0	OR3A1,synonymous_variant,p.%3D,ENST00000323404,;RP11-64J4.2,intron_variant,,ENST00000573901,;RP11-64J4.2,intron_variant,,ENST00000576166,;RP11-64J4.2,intron_variant,,ENST00000573491,;	A	ENSG00000180090	ENST00000323404	Transcript	synonymous_variant	234	234	78	S	agC/agT	rs144484709,COSM4065456	.	.	-1	OR3A1	HGNC	8282	protein_coding	YES	CCDS11023.1	ENSP00000313803	OR3A1_HUMAN	.	UPI00001410CA	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF90,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGACGCTGAT	byCluster	5	BLCA
ACACA	0	.	GRCh37	17	35545343	35545343	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4650G>A	p.%3D	p.L1550L	ENST00000353139	39/56	35	26	9	56	56	0	ACACA,synonymous_variant,p.%3D,ENST00000591119,;ACACA,synonymous_variant,p.%3D,ENST00000360679,;ACACA,synonymous_variant,p.%3D,ENST00000353139,;ACACA,synonymous_variant,p.%3D,ENST00000394406,;ACACA,synonymous_variant,p.%3D,ENST00000335166,;ACACA,upstream_gene_variant,,ENST00000592427,;ACACA,non_coding_transcript_exon_variant,,ENST00000586621,;	T	ENSG00000132142	ENST00000353139	Transcript	synonymous_variant	5132	4650	1550	L	ctG/ctA	.	.	.	-1	ACACA	HGNC	84	protein_coding	YES	CCDS42302.1	ENSP00000344789	ACACA_HUMAN	Q7Z5W8_HUMAN,K7EII5_HUMAN,K4DID9_HUMAN,B4DWK9_HUMAN,B4DK31_HUMAN,B4DIW1_HUMAN,B2ZZ90_HUMAN,A8MYL5_HUMAN	UPI00002263AC	.	.	.	39/56	.	hmmpanther:PTHR18866:SF89,hmmpanther:PTHR18866,Pfam_domain:PF08326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCAGTTC	.	5	BLCA
DUSP14	0	.	GRCh37	17	35872428	35872428	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.Met18Ile	p.M18I	ENST00000487847	2/2	32	22	10	33	33	0	DUSP14,missense_variant,p.Met18Ile,ENST00000394386,;DUSP14,missense_variant,p.Met18Ile,ENST00000394389,;DUSP14,missense_variant,p.Met18Ile,ENST00000487847,;SYNRG,downstream_gene_variant,,ENST00000339208,;SYNRG,downstream_gene_variant,,ENST00000346661,;SYNRG,downstream_gene_variant,,ENST00000590102,;	A	ENSG00000161326	ENST00000487847	Transcript	missense_variant	1032	54	18	M/I	atG/atA	COSM1302712	.	.	1	DUSP14	HGNC	17007	protein_coding	YES	CCDS11320.1	ENSP00000466299	DUS14_HUMAN	Q6FI36_HUMAN	UPI0000129965	.	tolerated(0.4)	benign(0.017)	2/2	.	Superfamily_domains:SSF52799,hmmpanther:PTHR10159:SF117,hmmpanther:PTHR10159	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CGGATGATTTC	.	4	BLCA
DDX52	0	.	GRCh37	17	36002187	36002187	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238G>A	p.Glu80Lys	p.E80K	ENST00000349699	2/15	122	89	32	153	153	0	DDX52,missense_variant,p.Glu80Lys,ENST00000349699,;DDX52,5_prime_UTR_variant,,ENST00000394367,;RP11-697E22.2,upstream_gene_variant,,ENST00000586163,;RP11-697E22.2,upstream_gene_variant,,ENST00000586950,;DDX52,missense_variant,p.Glu80Lys,ENST00000587431,;DDX52,missense_variant,p.Glu80Lys,ENST00000460080,;DDX52,missense_variant,p.Glu80Lys,ENST00000488402,;DDX52,non_coding_transcript_exon_variant,,ENST00000592520,;DDX52,non_coding_transcript_exon_variant,,ENST00000491963,;	T	ENSG00000141141	ENST00000349699	Transcript	missense_variant	282	238	80	E/K	Gaa/Aaa	.	.	.	-1	DDX52	HGNC	20038	protein_coding	YES	CCDS11323.1	ENSP00000268854	DDX52_HUMAN	A8MTP9_HUMAN	UPI0000046805	.	tolerated(0.43)	benign(0.001)	2/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24031:SF33,hmmpanther:PTHR24031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCAGTTA	.	5	BLCA
LASP1	0	.	GRCh37	17	37070604	37070604	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384G>A	p.%3D	p.K128K	ENST00000318008	5/7	13	7	6	16	16	0	LASP1,synonymous_variant,p.%3D,ENST00000433206,;LASP1,synonymous_variant,p.%3D,ENST00000435347,;LASP1,synonymous_variant,p.%3D,ENST00000318008,;LASP1,synonymous_variant,p.%3D,ENST00000419929,;LASP1,upstream_gene_variant,,ENST00000579123,;RP1-56K13.3,downstream_gene_variant,,ENST00000580121,;LASP1,3_prime_UTR_variant,,ENST00000443937,;LASP1,3_prime_UTR_variant,,ENST00000585841,;LASP1,non_coding_transcript_exon_variant,,ENST00000581485,;	A	ENSG00000002834	ENST00000318008	Transcript	synonymous_variant	715	384	128	K	aaG/aaA	.	.	.	1	LASP1	HGNC	6513	protein_coding	YES	CCDS11331.1	ENSP00000325240	LASP1_HUMAN	C9J9W2_HUMAN	UPI0000046841	.	.	.	5/7	.	PROSITE_profiles:PS51216,hmmpanther:PTHR11039,Pfam_domain:PF00880,SMART_domains:SM00227	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAGCCG	.	5	BLCA
RPL19	0	.	GRCh37	17	37357472	37357472	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12C>T	p.%3D	p.L4L	ENST00000225430	2/6	54	41	13	90	90	0	RPL19,synonymous_variant,p.%3D,ENST00000225430,;RPL19,synonymous_variant,p.%3D,ENST00000585199,;RPL19,synonymous_variant,p.%3D,ENST00000579260,;RPL19,synonymous_variant,p.%3D,ENST00000582193,;RPL19,splice_region_variant,,ENST00000579374,;CACNB1,upstream_gene_variant,,ENST00000344140,;CACNB1,upstream_gene_variant,,ENST00000394303,;CACNB1,upstream_gene_variant,,ENST00000394310,;RPL19,non_coding_transcript_exon_variant,,ENST00000580333,;RPL19,upstream_gene_variant,,ENST00000577741,;RPL19,upstream_gene_variant,,ENST00000577759,;	T	ENSG00000108298	ENST00000225430	Transcript	synonymous_variant	74	12	4	L	ctC/ctT	.	.	.	1	RPL19	HGNC	10312	protein_coding	YES	CCDS42312.1	ENSP00000225430	RL19_HUMAN	Q8IWR8_HUMAN,J3KTE4_HUMAN	UPI00000289B2	.	.	.	2/6	.	HAMAP:MF_01475,hmmpanther:PTHR10722,Pfam_domain:PF01280,Gene3D:1vq8P01,Superfamily_domains:0037541	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTCAGGCT	.	5	BLCA
CDK12	0	.	GRCh37	17	37619172	37619172	+	Missense_Mutation	SNP	C	C	T	rs759485356	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.848C>T	p.Ser283Leu	p.S283L	ENST00000447079	1/14	60	45	14	84	84	0	CDK12,missense_variant,p.Ser283Leu,ENST00000447079,;CDK12,missense_variant,p.Ser283Leu,ENST00000584632,;CDK12,missense_variant,p.Ser283Leu,ENST00000430627,;	T	ENSG00000167258	ENST00000447079	Transcript	missense_variant	881	848	283	S/L	tCg/tTg	rs759485356,COSM560501	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	unknown(0)	1/14	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCGGCCT	.	5	BLCA
CDK12	0	.	GRCh37	17	37619230	37619230	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.906C>T	p.%3D	p.V302V	ENST00000447079	1/14	27	17	10	59	59	0	CDK12,synonymous_variant,p.%3D,ENST00000447079,;CDK12,synonymous_variant,p.%3D,ENST00000584632,;CDK12,synonymous_variant,p.%3D,ENST00000430627,;	T	ENSG00000167258	ENST00000447079	Transcript	synonymous_variant	939	906	302	V	gtC/gtT	.	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	.	1/14	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTCAGTCC	.	5	BLCA
CDK12	0	.	GRCh37	17	37687209	37687209	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4113G>A	p.%3D	p.V1371V	ENST00000447079	14/14	35	25	10	53	53	0	CDK12,synonymous_variant,p.%3D,ENST00000447079,;CDK12,synonymous_variant,p.%3D,ENST00000430627,;CDK12,downstream_gene_variant,,ENST00000584632,;CDK12,non_coding_transcript_exon_variant,,ENST00000584336,;CDK12,intron_variant,,ENST00000559663,;	A	ENSG00000167258	ENST00000447079	Transcript	synonymous_variant	4146	4113	1371	V	gtG/gtA	.	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGAAGAA	.	5	BLCA
KRT20	0	.	GRCh37	17	39041105	39041105	+	Silent	SNP	C	C	T	rs149399441	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333G>A	p.%3D	p.P111P	ENST00000167588	1/8	37	23	14	49	49	0	KRT20,synonymous_variant,p.%3D,ENST00000167588,;KRT20,non_coding_transcript_exon_variant,,ENST00000482529,;	T	ENSG00000171431	ENST00000167588	Transcript	synonymous_variant	375	333	111	P	ccG/ccA	rs149399441	.	.	-1	KRT20	HGNC	20412	protein_coding	YES	CCDS11379.1	ENSP00000167588	K1C20_HUMAN	.	UPI000012DAF1	.	.	.	1/8	.	Pfam_domain:PF00038,hmmpanther:PTHR23239:SF149,hmmpanther:PTHR23239	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGGGGC	byCluster	5	BLCA
KRTAP1-5	0	.	GRCh37	17	39183179	39183179	+	Missense_Mutation	SNP	C	C	T	rs751317094,rs766745380	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229G>A	p.Glu77Lys	p.E77K	ENST00000361883	1/1	50	36	13	74	74	0	KRTAP1-5,missense_variant,p.Glu77Lys,ENST00000361883,;KRTAP1-4,downstream_gene_variant,,ENST00000377747,;	T	ENSG00000221852	ENST00000361883	Transcript	missense_variant	276	229	77	E/K	Gag/Aag	rs751317094,rs766745380	.	.	-1	KRTAP1-5	HGNC	16777	protein_coding	YES	CCDS42321.1	ENSP00000355302	KRA15_HUMAN	.	UPI00000707CB	.	tolerated(0.9)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,Pfam_domain:PF01500,hmmpanther:PTHR23262:SF9,hmmpanther:PTHR23262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCACAGC	.	5	BLCA
KRT31	0	.	GRCh37	17	39551521	39551521	+	Silent	SNP	G	G	A	rs189521593	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.852C>T	p.%3D	p.I284I	ENST00000251645	5/7	73	48	24	93	93	0	KRT31,synonymous_variant,p.%3D,ENST00000251645,;	A	ENSG00000094796	ENST00000251645	Transcript	synonymous_variant	905	852	284	I	atC/atT	rs189521593,COSM1302806,COSM1302805	.	.	-1	KRT31	HGNC	6448	protein_coding	YES	CCDS11391.1	ENSP00000251645	K1H1_HUMAN	Q16275_HUMAN	UPI000006F564	.	.	.	5/7	.	Coiled-coils_(Ncoils):Coil,Prints_domain:PR01248,Pfam_domain:PF00038,Gene3D:1.20.5.170,hmmpanther:PTHR23239:SF99,hmmpanther:PTHR23239	A:0.0006	A:0	A:0	.	A:0.003	A:0	A:0	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTCGATCTC	byFrequency|byCluster|by1000G	5	BLCA
KRT37	0	.	GRCh37	17	39577231	39577231	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1249T>C	p.Cys417Arg	p.C417R	ENST00000225550	7/7	13	10	3	17	17	0	KRT37,missense_variant,p.Cys417Arg,ENST00000225550,;AC003958.2,intron_variant,,ENST00000432258,;	G	ENSG00000108417	ENST00000225550	Transcript	missense_variant	1249	1249	417	C/R	Tgc/Cgc	.	.	.	-1	KRT37	HGNC	6455	protein_coding	YES	CCDS32653.1	ENSP00000225550	KRT37_HUMAN	.	UPI000000DC9A	.	deleterious(0.02)	possibly_damaging(0.831)	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF148	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTGCAGGGGA	.	2	BLCA
KRT13	0	.	GRCh37	17	39658504	39658504	+	Intron	DEL	A	A	-	rs769059353	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1244+122delT	.	.	ENST00000246635	.	37	24	13	24	24	0	KRT13,3_prime_UTR_variant,,ENST00000587544,;KRT13,intron_variant,,ENST00000246635,;KRT13,intron_variant,,ENST00000336861,;KRT13,downstream_gene_variant,,ENST00000590425,;KRT13,downstream_gene_variant,,ENST00000587435,;AC019349.5,intron_variant,,ENST00000411759,;KRT13,downstream_gene_variant,,ENST00000587118,;KRT13,upstream_gene_variant,,ENST00000475217,;KRT13,3_prime_UTR_variant,,ENST00000464634,;KRT13,intron_variant,,ENST00000468313,;	-	ENSG00000171401	ENST00000246635	Transcript	intron_variant	.	.	.	.	.	rs769059353	.	.	-1	KRT13	HGNC	6415	protein_coding	YES	CCDS11396.1	ENSP00000246635	K1C13_HUMAN	K7ERE3_HUMAN,K7EMD9_HUMAN	UPI000013CBF6	.	.	.	.	6/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCCGTAAAGTC	byCluster	3	BLCA
KRT15	0	.	GRCh37	17	39675064	39675064	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16C>T	p.%3D	p.L6L	ENST00000254043	1/8	91	63	28	103	103	0	KRT15,synonymous_variant,p.%3D,ENST00000393976,;KRT15,synonymous_variant,p.%3D,ENST00000254043,;KRT15,5_prime_UTR_variant,,ENST00000393974,;KRT15,intron_variant,,ENST00000458290,;KRT15,upstream_gene_variant,,ENST00000393981,;KRT19,downstream_gene_variant,,ENST00000361566,;KRT15,intron_variant,,ENST00000470004,;KRT15,intron_variant,,ENST00000497016,;KRT15,intron_variant,,ENST00000463447,;KRT15,intron_variant,,ENST00000474031,;KRT15,upstream_gene_variant,,ENST00000586794,;KRT19,downstream_gene_variant,,ENST00000468880,;	A	ENSG00000171346	ENST00000254043	Transcript	synonymous_variant	3602	16	6	L	Ctg/Ttg	.	.	.	-1	KRT15	HGNC	6421	protein_coding	YES	CCDS11398.1	ENSP00000254043	K1C15_HUMAN	.	UPI000013CE0E	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAAATG	.	5	BLCA
KRT19	0	.	GRCh37	17	39680241	39680246	+	In_Frame_Del	DEL	GGCAGC	GGCAGC	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	GGCAGC	GGCAGC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952_957delGCTGCC	p.Ala318_Ala319del	p.A318_A319del	ENST00000361566	6/6	48	37	11	56	56	0	KRT19,inframe_deletion,p.Ala142_Ala143del,ENST00000593096,;KRT19,inframe_deletion,p.Ala318_Ala319del,ENST00000361566,;KRT15,upstream_gene_variant,,ENST00000393976,;KRT15,upstream_gene_variant,,ENST00000254043,;KRT15,upstream_gene_variant,,ENST00000393974,;KRT15,upstream_gene_variant,,ENST00000458290,;KRT19,downstream_gene_variant,,ENST00000455635,;KRT19,non_coding_transcript_exon_variant,,ENST00000471565,;KRT19,non_coding_transcript_exon_variant,,ENST00000468880,;KRT19,downstream_gene_variant,,ENST00000479031,;KRT15,upstream_gene_variant,,ENST00000470004,;KRT15,upstream_gene_variant,,ENST00000497016,;KRT15,upstream_gene_variant,,ENST00000463447,;KRT19,downstream_gene_variant,,ENST00000462611,;KRT15,upstream_gene_variant,,ENST00000474031,;	-	ENSG00000171345	ENST00000361566	Transcript	inframe_deletion	1013-1018	952-957	318-319	AA/-	GCTGCC/-	.	.	.	-1	KRT19	HGNC	6436	protein_coding	YES	CCDS11399.1	ENSP00000355124	K1C19_HUMAN	K7EMS3_HUMAN	UPI000006D379	.	.	.	6/6	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF107,Gene3D:1.20.5.170,Pfam_domain:PF00038,Superfamily_domains:SSF64593,Prints_domain:PR01248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTCCAAGGCAGCTTTCT	.	3	BLCA
KRT17	0	.	GRCh37	17	39780589	39780589	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173C>T	p.Ser58Phe	p.S58F	ENST00000311208	1/8	50	32	18	52	52	0	KRT17,missense_variant,p.Ser43Phe,ENST00000577817,;KRT17,missense_variant,p.Ser58Phe,ENST00000311208,;JUP,intron_variant,,ENST00000540235,;KRT17,intron_variant,,ENST00000463128,;KRT17,upstream_gene_variant,,ENST00000590038,;KRT42P,downstream_gene_variant,,ENST00000398469,;KRT42P,downstream_gene_variant,,ENST00000438131,;KRT17,non_coding_transcript_exon_variant,,ENST00000491673,;KRT42P,downstream_gene_variant,,ENST00000587335,;KRT17,upstream_gene_variant,,ENST00000493253,;KRT42P,downstream_gene_variant,,ENST00000458343,;	A	ENSG00000128422	ENST00000311208	Transcript	missense_variant	241	173	58	S/F	tCc/tTc	.	.	.	-1	KRT17	HGNC	6427	protein_coding	YES	CCDS11402.1	ENSP00000308452	K1C17_HUMAN	K7ESE1_HUMAN,B4E2P9_HUMAN	UPI0000148FD6	.	tolerated(0.21)	possibly_damaging(0.831)	1/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23239:SF91,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGGAGTAG	.	5	BLCA
ACLY	0	.	GRCh37	17	40025731	40025731	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3047C>T	p.Ser1016Leu	p.S1016L	ENST00000352035	26/29	59	42	17	90	90	0	ACLY,missense_variant,p.Ser1006Leu,ENST00000353196,;ACLY,missense_variant,p.Ser1016Leu,ENST00000590151,;ACLY,missense_variant,p.Ser1016Leu,ENST00000352035,;ACLY,missense_variant,p.Ser745Leu,ENST00000537919,;ACLY,missense_variant,p.Ser1006Leu,ENST00000393896,;KLHL11,upstream_gene_variant,,ENST00000319121,;ACLY,non_coding_transcript_exon_variant,,ENST00000588779,;	A	ENSG00000131473	ENST00000352035	Transcript	missense_variant	3178	3047	1016	S/L	tCg/tTg	.	.	.	-1	ACLY	HGNC	115	protein_coding	YES	CCDS11412.1	ENSP00000253792	ACLY_HUMAN	Q4LE36_HUMAN,K7ESG8_HUMAN,K7EIE7_HUMAN	UPI000013CDF3	.	deleterious(0)	possibly_damaging(0.756)	26/29	.	Superfamily_domains:SSF48256,PIRSF_domain:PIRSF036511,Pfam_domain:PF00285,Gene3D:1.10.230.10,hmmpanther:PTHR23118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTCGAGGTG	.	5	BLCA
HSPB9	0	.	GRCh37	17	40275305	40275305	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.437G>A	p.Arg146Lys	p.R146K	ENST00000355067	1/1	58	43	15	71	71	0	HSPB9,missense_variant,p.Arg146Lys,ENST00000355067,;CTD-2132N18.3,intron_variant,,ENST00000592574,;RAB5C,downstream_gene_variant,,ENST00000346213,;RAB5C,downstream_gene_variant,,ENST00000547517,;RAB5C,downstream_gene_variant,,ENST00000393860,;KAT2A,upstream_gene_variant,,ENST00000225916,;RAB5C,downstream_gene_variant,,ENST00000551338,;CTD-2132N18.3,intron_variant,,ENST00000592248,;CTD-2132N18.3,intron_variant,,ENST00000585562,;KAT2A,upstream_gene_variant,,ENST00000465682,;	A	ENSG00000197723	ENST00000355067	Transcript	missense_variant	550	437	146	R/K	aGa/aAa	.	.	.	1	HSPB9	HGNC	30589	protein_coding	YES	CCDS11418.1	ENSP00000347178	HSPB9_HUMAN	.	UPI00000375B4	.	tolerated(0.47)	benign(0.002)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGAGACTCG	.	5	BLCA
STAT5B	0	.	GRCh37	17	40353671	40353671	+	3'UTR	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*85C>G	.	.	ENST00000293328	19/19	8	5	3	14	14	0	STAT5B,3_prime_UTR_variant,,ENST00000293328,;STAT5B,downstream_gene_variant,,ENST00000498674,;	C	ENSG00000173757	ENST00000293328	Transcript	3_prime_UTR_variant	2618	.	.	.	.	.	.	.	-1	STAT5B	HGNC	11367	protein_coding	YES	CCDS11423.1	ENSP00000293328	STA5B_HUMAN	C9J4I3_HUMAN	UPI000006F059	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAAAAGAGAAG	.	2	BLCA
PSMC3IP	0	.	GRCh37	17	40729545	40729545	+	Silent	SNP	C	C	T	rs539283944	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69G>A	p.%3D	p.Q23Q	ENST00000393795	2/8	21	13	8	31	31	0	PSMC3IP,synonymous_variant,p.%3D,ENST00000253789,;PSMC3IP,synonymous_variant,p.%3D,ENST00000393795,;PSMC3IP,5_prime_UTR_variant,,ENST00000590760,;PSMC3IP,5_prime_UTR_variant,,ENST00000587209,;FAM134C,downstream_gene_variant,,ENST00000585894,;MLX,downstream_gene_variant,,ENST00000346833,;FAM134C,downstream_gene_variant,,ENST00000543197,;FAM134C,downstream_gene_variant,,ENST00000309428,;MLX,downstream_gene_variant,,ENST00000435881,;MLX,downstream_gene_variant,,ENST00000246912,;PSMC3IP,synonymous_variant,p.%3D,ENST00000588544,;PSMC3IP,synonymous_variant,p.%3D,ENST00000590931,;PSMC3IP,synonymous_variant,p.%3D,ENST00000586337,;PSMC3IP,non_coding_transcript_exon_variant,,ENST00000587268,;PSMC3IP,non_coding_transcript_exon_variant,,ENST00000589505,;MLX,downstream_gene_variant,,ENST00000588320,;FAM134C,downstream_gene_variant,,ENST00000586870,;MLX,downstream_gene_variant,,ENST00000590050,;FAM134C,downstream_gene_variant,,ENST00000589797,;	T	ENSG00000131470	ENST00000393795	Transcript	synonymous_variant	178	69	23	Q	caG/caA	rs539283944,COSM560692	.	.	-1	PSMC3IP	HGNC	17928	protein_coding	YES	CCDS45688.1	ENSP00000377384	HOP2_HUMAN	K7ERB6_HUMAN	UPI000007142B	.	.	.	2/8	.	hmmpanther:PTHR15938,Gene3D:1.10.10.10,Pfam_domain:PF07106	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTTCTGCTC	by1000G	5	BLCA
FAM134C	0	.	GRCh37	17	40735518	40735518	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808C>T	p.Gln270Ter	p.Q270*	ENST00000309428	7/9	21	14	7	40	40	0	FAM134C,stop_gained,p.Gln270Ter,ENST00000309428,;FAM134C,stop_gained,p.Gln173Ter,ENST00000585894,;FAM134C,stop_gained,p.Gln75Ter,ENST00000543197,;FAM134C,downstream_gene_variant,,ENST00000591547,;FAM134C,downstream_gene_variant,,ENST00000588423,;FAM134C,splice_region_variant,,ENST00000589797,;FAM134C,splice_region_variant,,ENST00000589007,;FAM134C,splice_region_variant,,ENST00000586870,;FAM134C,downstream_gene_variant,,ENST00000585726,;FAM134C,downstream_gene_variant,,ENST00000590035,;FAM134C,downstream_gene_variant,,ENST00000586796,;FAM134C,downstream_gene_variant,,ENST00000593251,;	A	ENSG00000141699	ENST00000309428	Transcript	stop_gained	868	808	270	Q/*	Cag/Tag	.	.	.	-1	FAM134C	HGNC	27258	protein_coding	YES	CCDS11432.1	ENSP00000309432	F134C_HUMAN	K7EQI9_HUMAN,K7ENZ6_HUMAN,K7EJ42_HUMAN,B3KR75_HUMAN	UPI0000171C73	.	.	.	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCTGAGGAC	.	2	BLCA
CNTNAP1	0	.	GRCh37	17	40850999	40850999	+	3'UTR	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71A>T	.	.	ENST00000264638	24/24	14	10	4	28	28	0	CNTNAP1,3_prime_UTR_variant,,ENST00000264638,;EZH1,downstream_gene_variant,,ENST00000592743,;EZH1,downstream_gene_variant,,ENST00000590078,;EZH1,downstream_gene_variant,,ENST00000585893,;EZH1,downstream_gene_variant,,ENST00000428826,;EZH1,downstream_gene_variant,,ENST00000435174,;EZH1,downstream_gene_variant,,ENST00000415827,;CTD-3193K9.3,intron_variant,,ENST00000592440,;EZH1,downstream_gene_variant,,ENST00000590783,;CNTNAP1,3_prime_UTR_variant,,ENST00000591662,;EZH1,downstream_gene_variant,,ENST00000588897,;EZH1,downstream_gene_variant,,ENST00000586714,;EZH1,downstream_gene_variant,,ENST00000585550,;EZH1,downstream_gene_variant,,ENST00000586103,;EZH1,downstream_gene_variant,,ENST00000591330,;EZH1,downstream_gene_variant,,ENST00000585912,;	T	ENSG00000108797	ENST00000264638	Transcript	3_prime_UTR_variant	4443	.	.	.	.	.	.	.	1	CNTNAP1	HGNC	8011	protein_coding	YES	CCDS11436.1	ENSP00000264638	CNTP1_HUMAN	.	UPI00001285F6	.	.	.	24/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTATCAGGGAC	.	2	BLCA
ANKFY1	0	.	GRCh37	17	4098363	4098363	+	Missense_Mutation	SNP	C	C	T	rs370516432	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1408G>A	p.Val470Met	p.V470M	ENST00000570535	10/25	32	19	13	47	47	0	ANKFY1,missense_variant,p.Val428Met,ENST00000433651,;ANKFY1,missense_variant,p.Val428Met,ENST00000341657,;ANKFY1,missense_variant,p.Val428Met,ENST00000574367,;ANKFY1,missense_variant,p.Val470Met,ENST00000570535,;Y_RNA,downstream_gene_variant,,ENST00000384660,;ANKFY1,upstream_gene_variant,,ENST00000573722,;ANKFY1,3_prime_UTR_variant,,ENST00000572412,;ANKFY1,non_coding_transcript_exon_variant,,ENST00000570934,;ANKFY1,downstream_gene_variant,,ENST00000573250,;	T	ENSG00000185722	ENST00000570535	Transcript	missense_variant	1525	1408	470	V/M	Gtg/Atg	rs370516432	.	.	-1	ANKFY1	HGNC	20763	protein_coding	YES	CCDS58502.1	ENSP00000459943	ANFY1_HUMAN	I3L1Z9_HUMAN	UPI00003FECB0	.	deleterious(0.01)	possibly_damaging(0.686)	10/25	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24189,Gene3D:1.25.40.20,SMART_domains:SM00248	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCACGGGGA	byFrequency|byCluster	5	BLCA
AOC3	0	.	GRCh37	17	41003215	41003215	+	5'UTR	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-146T>C	.	.	ENST00000308423	1/4	14	8	6	16	16	0	AOC3,5_prime_UTR_variant,,ENST00000308423,;AOC3,upstream_gene_variant,,ENST00000591562,;AOC3,upstream_gene_variant,,ENST00000588033,;AOC2,downstream_gene_variant,,ENST00000253799,;AOC3,upstream_gene_variant,,ENST00000592999,;AOC2,downstream_gene_variant,,ENST00000452774,;AOC3,upstream_gene_variant,,ENST00000587330,;	C	ENSG00000131471	ENST00000308423	Transcript	5_prime_UTR_variant	15	.	.	.	.	.	.	.	1	AOC3	HGNC	550	protein_coding	YES	CCDS11444.1	ENSP00000312326	AOC3_HUMAN	Q9UEU7_HUMAN,K7ESB3_HUMAN,K7EQZ5_HUMAN,K7EL47_HUMAN	UPI00000009FC	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTTAGTCC	.	5	BLCA
ANKFY1	0	.	GRCh37	17	4100772	4100772	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1125C>T	p.%3D	p.Y375Y	ENST00000570535	8/25	30	18	11	37	37	0	ANKFY1,synonymous_variant,p.%3D,ENST00000433651,;ANKFY1,synonymous_variant,p.%3D,ENST00000574367,;ANKFY1,synonymous_variant,p.%3D,ENST00000341657,;ANKFY1,synonymous_variant,p.%3D,ENST00000570535,;Y_RNA,downstream_gene_variant,,ENST00000384660,;ANKFY1,3_prime_UTR_variant,,ENST00000572412,;ANKFY1,non_coding_transcript_exon_variant,,ENST00000573250,;ANKFY1,non_coding_transcript_exon_variant,,ENST00000570934,;	A	ENSG00000185722	ENST00000570535	Transcript	synonymous_variant	1242	1125	375	Y	taC/taT	.	.	.	-1	ANKFY1	HGNC	20763	protein_coding	YES	CCDS58502.1	ENSP00000459943	ANFY1_HUMAN	I3L1Z9_HUMAN	UPI00003FECB0	.	.	.	8/25	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24189,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGTACAA	.	5	BLCA
ETV4	0	.	GRCh37	17	41610079	41610079	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774G>A	p.%3D	p.V258V	ENST00000319349	8/13	28	20	7	60	60	0	ETV4,synonymous_variant,p.%3D,ENST00000591713,;ETV4,synonymous_variant,p.%3D,ENST00000319349,;ETV4,synonymous_variant,p.%3D,ENST00000545954,;ETV4,synonymous_variant,p.%3D,ENST00000393664,;ETV4,synonymous_variant,p.%3D,ENST00000545089,;ETV4,synonymous_variant,p.%3D,ENST00000538265,;DHX8,intron_variant,,ENST00000589898,;ETV4,upstream_gene_variant,,ENST00000586826,;ETV4,downstream_gene_variant,,ENST00000585508,;ETV4,downstream_gene_variant,,ENST00000590236,;ETV4,downstream_gene_variant,,ENST00000587151,;	T	ENSG00000175832	ENST00000319349	Transcript	synonymous_variant	1073	774	258	V	gtG/gtA	.	.	.	-1	ETV4	HGNC	3493	protein_coding	YES	CCDS11465.1	ENSP00000321835	ETV4_HUMAN	K7EMW0_HUMAN	UPI0000000236	.	.	.	8/13	.	hmmpanther:PTHR11849:SF181,hmmpanther:PTHR11849,Pfam_domain:PF04621	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATCACCAC	.	5	BLCA
G6PC3	0	.	GRCh37	17	42153170	42153170	+	Missense_Mutation	SNP	C	C	T	rs201700844	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.800C>T	p.Ser267Phe	p.S267F	ENST00000269097	6/6	54	33	21	49	49	0	G6PC3,missense_variant,p.Ser267Phe,ENST00000269097,;G6PC3,missense_variant,p.Ser231Phe,ENST00000591696,;G6PC3,3_prime_UTR_variant,,ENST00000590253,;HDAC5,downstream_gene_variant,,ENST00000393622,;HDAC5,downstream_gene_variant,,ENST00000225983,;HDAC5,downstream_gene_variant,,ENST00000586802,;HDAC5,downstream_gene_variant,,ENST00000336057,;G6PC3,3_prime_UTR_variant,,ENST00000585361,;G6PC3,3_prime_UTR_variant,,ENST00000588558,;G6PC3,non_coding_transcript_exon_variant,,ENST00000590639,;G6PC3,downstream_gene_variant,,ENST00000585962,;G6PC3,downstream_gene_variant,,ENST00000593115,;HDAC5,downstream_gene_variant,,ENST00000586339,;	T	ENSG00000141349	ENST00000269097	Transcript	missense_variant	1031	800	267	S/F	tCt/tTt	rs201700844	.	.	1	G6PC3	HGNC	24861	protein_coding	YES	CCDS11476.1	ENSP00000269097	G6PC3_HUMAN	K7EQ13_HUMAN,K7ENK1_HUMAN	UPI00000734E8	.	tolerated(0.75)	benign(0.069)	6/6	.	hmmpanther:PTHR12591:SF2,hmmpanther:PTHR12591,PIRSF_domain:PIRSF000905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCTCCCT	byCluster	5	BLCA
UBTF	0	.	GRCh37	17	42287600	42287600	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1518T>C	p.%3D	p.N506N	ENST00000302904	15/21	132	88	44	165	165	0	UBTF,synonymous_variant,p.%3D,ENST00000529373,;UBTF,synonymous_variant,p.%3D,ENST00000393606,;UBTF,synonymous_variant,p.%3D,ENST00000302904,;UBTF,synonymous_variant,p.%3D,ENST00000529383,;UBTF,synonymous_variant,p.%3D,ENST00000436088,;UBTF,synonymous_variant,p.%3D,ENST00000533177,;UBTF,synonymous_variant,p.%3D,ENST00000526094,;UBTF,synonymous_variant,p.%3D,ENST00000527034,;UBTF,synonymous_variant,p.%3D,ENST00000343638,;UBTF,downstream_gene_variant,,ENST00000530828,;CTB-175E5.7,intron_variant,,ENST00000586560,;UBTF,downstream_gene_variant,,ENST00000529042,;UBTF,upstream_gene_variant,,ENST00000529947,;UBTF,upstream_gene_variant,,ENST00000531368,;	G	ENSG00000108312	ENST00000302904	Transcript	synonymous_variant	2011	1518	506	N	aaT/aaC	.	.	.	-1	UBTF	HGNC	12511	protein_coding	YES	CCDS11480.1	ENSP00000302640	UBF1_HUMAN	Q9BQR2_HUMAN,E9PLT2_HUMAN,B4DLB0_HUMAN	UPI000013797C	.	.	.	15/21	.	PROSITE_profiles:PS50118,hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF142,Pfam_domain:PF14887,Gene3D:1.10.30.10,SMART_domains:SM00398,Superfamily_domains:SSF47095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTCATTCTG	.	5	BLCA
KIF18B	0	.	GRCh37	17	43004422	43004422	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2301G>A	p.Met767Ile	p.M767I	ENST00000593135	14/16	17	11	6	22	22	0	KIF18B,missense_variant,p.Met767Ile,ENST00000593135,;KIF18B,missense_variant,p.Met788Ile,ENST00000590129,;KIF18B,missense_variant,p.Met779Ile,ENST00000438933,;KIF18B,missense_variant,p.Met779Ile,ENST00000587309,;KIF18B,missense_variant,p.Met770Ile,ENST00000339151,;	T	ENSG00000186185	ENST00000593135	Transcript	missense_variant	2399	2301	767	M/I	atG/atA	.	.	.	-1	KIF18B	HGNC	27102	protein_coding	YES	CCDS45709.2	ENSP00000465992	KI18B_HUMAN	.	UPI000192C418	.	tolerated(0.11)	benign(0.045)	14/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCATGGT	.	5	BLCA
KIF18B	0	.	GRCh37	17	43011904	43011904	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.658A>G	p.Thr220Ala	p.T220A	ENST00000593135	5/16	16	11	4	20	19	0	KIF18B,missense_variant,p.Thr220Ala,ENST00000593135,;KIF18B,missense_variant,p.Thr229Ala,ENST00000590129,;KIF18B,missense_variant,p.Thr220Ala,ENST00000438933,;KIF18B,missense_variant,p.Thr220Ala,ENST00000587309,;KIF18B,missense_variant,p.Thr220Ala,ENST00000339151,;KIF18B,upstream_gene_variant,,ENST00000585687,;	C	ENSG00000186185	ENST00000593135	Transcript	missense_variant	756	658	220	T/A	Act/Gct	.	.	.	-1	KIF18B	HGNC	27102	protein_coding	YES	CCDS45709.2	ENSP00000465992	KI18B_HUMAN	.	UPI000192C418	.	deleterious(0.04)	benign(0.133)	5/16	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF414,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540,Prints_domain:PR00380	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N218N|c.654C>T|3	RADIA|MUTECT|MUSE	GGAAGTCGCGT	.	3	BLCA
HEXIM1	0	.	GRCh37	17	43226634	43226634	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.77A>T	p.Glu26Val	p.E26V	ENST00000332499	1/1	90	58	31	137	137	0	HEXIM1,missense_variant,p.Glu26Val,ENST00000332499,;AC002117.1,downstream_gene_variant,,ENST00000589950,;AC002117.1,downstream_gene_variant,,ENST00000452741,;	T	ENSG00000186834	ENST00000332499	Transcript	missense_variant	1951	77	26	E/V	gAa/gTa	.	.	.	1	HEXIM1	HGNC	24953	protein_coding	YES	CCDS11495.1	ENSP00000328773	HEXI1_HUMAN	.	UPI000006E405	.	deleterious_low_confidence(0)	benign(0.155)	1/1	.	hmmpanther:PTHR13469,hmmpanther:PTHR13469:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGGAAGAGC	.	5	BLCA
KANSL1	0	.	GRCh37	17	44111634	44111634	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2559G>A	p.%3D	p.R853R	ENST00000262419	11/15	46	32	13	46	46	0	KANSL1,synonymous_variant,p.%3D,ENST00000393476,;KANSL1,synonymous_variant,p.%3D,ENST00000575318,;KANSL1,synonymous_variant,p.%3D,ENST00000574590,;KANSL1,synonymous_variant,p.%3D,ENST00000432791,;KANSL1,synonymous_variant,p.%3D,ENST00000262419,;KANSL1,synonymous_variant,p.%3D,ENST00000572904,;RP11-669E14.6,upstream_gene_variant,,ENST00000570454,;KANSL1,non_coding_transcript_exon_variant,,ENST00000576870,;KANSL1,non_coding_transcript_exon_variant,,ENST00000576137,;KANSL1,non_coding_transcript_exon_variant,,ENST00000572218,;KANSL1,upstream_gene_variant,,ENST00000573682,;KANSL1,upstream_gene_variant,,ENST00000574963,;KANSL1,downstream_gene_variant,,ENST00000572679,;KANSL1,downstream_gene_variant,,ENST00000573286,;	T	ENSG00000120071	ENST00000262419	Transcript	synonymous_variant	3030	2559	853	R	agG/agA	.	.	.	-1	KANSL1	HGNC	24565	protein_coding	YES	CCDS11503.1	ENSP00000262419	KANL1_HUMAN	I3L243_HUMAN,I3L233_HUMAN	UPI0001AE66EA	.	.	.	11/15	.	hmmpanther:PTHR22443:SF14,hmmpanther:PTHR22443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCTCCT	.	5	BLCA
KANSL1	0	.	GRCh37	17	44159890	44159890	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1450G>A	p.Glu484Lys	p.E484K	ENST00000262419	4/15	25	18	7	36	36	0	KANSL1,missense_variant,p.Glu484Lys,ENST00000432791,;KANSL1,missense_variant,p.Glu484Lys,ENST00000262419,;KANSL1,missense_variant,p.Glu484Lys,ENST00000572904,;KANSL1,missense_variant,p.Glu484Lys,ENST00000575318,;KANSL1,missense_variant,p.Glu484Lys,ENST00000574590,;KANSL1,5_prime_UTR_variant,,ENST00000393476,;KANSL1,non_coding_transcript_exon_variant,,ENST00000577114,;	T	ENSG00000120071	ENST00000262419	Transcript	missense_variant	1921	1450	484	E/K	Gag/Aag	.	.	.	-1	KANSL1	HGNC	24565	protein_coding	YES	CCDS11503.1	ENSP00000262419	KANL1_HUMAN	I3L243_HUMAN,I3L233_HUMAN	UPI0001AE66EA	.	tolerated(0.1)	possibly_damaging(0.736)	4/15	.	hmmpanther:PTHR22443:SF14,hmmpanther:PTHR22443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCTCCCCAA	.	2	BLCA
SPNS2	0	.	GRCh37	17	4439674	4439674	+	Silent	SNP	C	C	T	rs772518473	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1560C>T	p.%3D	p.L520L	ENST00000329078	11/13	36	23	13	71	71	0	SPNS2,synonymous_variant,p.%3D,ENST00000329078,;SPNS2,intron_variant,,ENST00000571386,;MYBBP1A,downstream_gene_variant,,ENST00000573723,;MYBBP1A,downstream_gene_variant,,ENST00000381556,;MYBBP1A,downstream_gene_variant,,ENST00000573116,;MYBBP1A,downstream_gene_variant,,ENST00000254718,;MYBBP1A,downstream_gene_variant,,ENST00000572759,;SPNS2,non_coding_transcript_exon_variant,,ENST00000570641,;SPNS2,non_coding_transcript_exon_variant,,ENST00000571668,;SPNS2,non_coding_transcript_exon_variant,,ENST00000573990,;SPNS2,non_coding_transcript_exon_variant,,ENST00000576635,;SPNS2,intron_variant,,ENST00000573106,;SPNS2,upstream_gene_variant,,ENST00000570979,;MYBBP1A,downstream_gene_variant,,ENST00000575662,;MYBBP1A,downstream_gene_variant,,ENST00000574167,;MYBBP1A,downstream_gene_variant,,ENST00000574547,;MYBBP1A,downstream_gene_variant,,ENST00000571368,;MYBBP1A,downstream_gene_variant,,ENST00000574934,;	T	ENSG00000183018	ENST00000329078	Transcript	synonymous_variant	1770	1560	520	L	ctC/ctT	rs772518473	.	.	1	SPNS2	HGNC	26992	protein_coding	YES	CCDS42237.1	ENSP00000333292	SPNS2_HUMAN	.	UPI00001C1FCB	.	.	.	11/13	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50850,hmmpanther:PTHR24001,hmmpanther:PTHR24001:SF1,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCGCCAC	.	5	BLCA
LRRC37A2	0	.	GRCh37	17	44626317	44626317	+	Missense_Mutation	SNP	G	G	A	rs772184684	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3812G>A	p.Arg1271Lys	p.R1271K	ENST00000576629	10/15	140	128	12	218	218	0	LRRC37A2,missense_variant,p.Arg1271Lys,ENST00000576629,;LRRC37A2,missense_variant,p.Arg1271Lys,ENST00000333412,;ARL17A,intron_variant,,ENST00000337845,;ARL17A,intron_variant,,ENST00000573185,;ARL17A,intron_variant,,ENST00000445552,;ARL17A,intron_variant,,ENST00000329240,;ARL17A,downstream_gene_variant,,ENST00000570550,;LRRC37A2,non_coding_transcript_exon_variant,,ENST00000572638,;	A	ENSG00000238083	ENST00000576629	Transcript	missense_variant	4307	3812	1271	R/K	aGa/aAa	rs772184684	.	.	1	LRRC37A2	HGNC	32404	protein_coding	YES	CCDS42353.1	ENSP00000459551	L37A2_HUMAN	.	UPI0000E59258	.	tolerated(0.65)	benign(0.043)	10/15	.	hmmpanther:PTHR23045	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGACAGATGGA	.	3	BLCA
NPEPPS	0	.	GRCh37	17	45669341	45669341	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280C>T	p.Ser427Phe	p.S427F	ENST00000322157	11/23	37	31	6	47	47	0	NPEPPS,missense_variant,p.Ser124Phe,ENST00000527360,;NPEPPS,missense_variant,p.Ser423Phe,ENST00000530173,;NPEPPS,missense_variant,p.Ser427Phe,ENST00000322157,;NPEPPS,missense_variant,p.Ser110Phe,ENST00000527964,;NPEPPS,missense_variant,p.Ser347Phe,ENST00000544660,;NPEPPS,non_coding_transcript_exon_variant,,ENST00000525037,;NPEPPS,non_coding_transcript_exon_variant,,ENST00000534814,;NPEPPS,synonymous_variant,p.%3D,ENST00000530514,;NPEPPS,3_prime_UTR_variant,,ENST00000527298,;NPEPPS,non_coding_transcript_exon_variant,,ENST00000602788,;NPEPPS,non_coding_transcript_exon_variant,,ENST00000529602,;NPEPPS,non_coding_transcript_exon_variant,,ENST00000525021,;NPEPPS,non_coding_transcript_exon_variant,,ENST00000533538,;NPEPPS,upstream_gene_variant,,ENST00000534807,;	T	ENSG00000141279	ENST00000322157	Transcript	missense_variant	1517	1280	427	S/F	tCt/tTt	.	.	.	1	NPEPPS	HGNC	7900	protein_coding	YES	CCDS45721.1	ENSP00000320324	PSA_HUMAN	E9PJ74_HUMAN,B7Z1H4_HUMAN	UPI0000140D51	.	deleterious(0.01)	possibly_damaging(0.835)	11/23	.	hmmpanther:PTHR11533,hmmpanther:PTHR11533:SF163,Gene3D:1.10.390.10,Pfam_domain:PF01433,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCATCTGAGG	.	2	BLCA
SP2	0	.	GRCh37	17	45993860	45993860	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.423C>A	p.Ser141Arg	p.S141R	ENST00000376741	3/7	57	35	22	76	76	0	SP2,missense_variant,p.Ser141Arg,ENST00000376741,;AC003665.1,intron_variant,,ENST00000411573,;AC003665.1,intron_variant,,ENST00000433001,;AC003665.1,intron_variant,,ENST00000451140,;AC003665.1,intron_variant,,ENST00000585280,;	A	ENSG00000167182	ENST00000376741	Transcript	missense_variant	560	423	141	S/R	agC/agA	.	.	.	1	SP2	HGNC	11207	protein_coding	YES	CCDS11521.2	ENSP00000365931	SP2_HUMAN	.	UPI00005A7765	.	deleterious(0.01)	benign(0.005)	3/7	.	hmmpanther:PTHR23235,hmmpanther:PTHR23235:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAGCAATTC	.	5	BLCA
CBX1	0	.	GRCh37	17	46152423	46152423	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358G>A	p.Glu120Lys	p.E120K	ENST00000393408	4/5	94	67	27	126	126	0	CBX1,missense_variant,p.Glu120Lys,ENST00000393408,;CBX1,missense_variant,p.Glu124Lys,ENST00000402583,;CBX1,missense_variant,p.Glu120Lys,ENST00000225603,;CBX1,missense_variant,p.Glu120Lys,ENST00000495350,;CBX1,missense_variant,p.Glu120Lys,ENST00000581003,;CBX1,downstream_gene_variant,,ENST00000444685,;	T	ENSG00000108468	ENST00000393408	Transcript	missense_variant	839	358	120	E/K	Gag/Aag	COSM436777	.	.	-1	CBX1	HGNC	1551	protein_coding	YES	CCDS11525.1	ENSP00000377060	CBX1_HUMAN	Q6IBN6_HUMAN,K7ELA4_HUMAN,J3KS05_HUMAN,C9JWS9_HUMAN	UPI0000021A5B	.	deleterious(0.02)	probably_damaging(0.999)	4/5	.	PROSITE_profiles:PS50013,hmmpanther:PTHR22812,hmmpanther:PTHR22812:SF88,Gene3D:2.40.50.40,Pfam_domain:PF01393,SMART_domains:SM00298,SMART_domains:SM00300,Superfamily_domains:SSF54160	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCTCCGGCT	.	5	BLCA
HOXB1	0	.	GRCh37	17	46607716	46607716	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.551A>C	p.Lys184Thr	p.K184T	ENST00000239174	1/2	22	15	7	30	30	0	HOXB1,missense_variant,p.Lys184Thr,ENST00000239174,;HOXB1,missense_variant,p.Lys184Thr,ENST00000577092,;	G	ENSG00000120094	ENST00000239174	Transcript	missense_variant	644	551	184	K/T	aAg/aCg	.	.	.	-1	HOXB1	HGNC	5111	protein_coding	YES	CCDS32675.1	ENSP00000355140	HXB1_HUMAN	.	UPI0000163BFF	.	deleterious(0)	probably_damaging(0.997)	1/2	.	hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF167	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACCTTCATC	.	5	BLCA
HOXB1	0	.	GRCh37	17	46607978	46607978	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289C>T	p.Gln97Ter	p.Q97*	ENST00000239174	1/2	89	60	29	114	114	0	HOXB1,stop_gained,p.Gln97Ter,ENST00000239174,;HOXB1,stop_gained,p.Gln97Ter,ENST00000577092,;	A	ENSG00000120094	ENST00000239174	Transcript	stop_gained	382	289	97	Q/*	Cag/Tag	.	.	.	-1	HOXB1	HGNC	5111	protein_coding	YES	CCDS32675.1	ENSP00000355140	HXB1_HUMAN	.	UPI0000163BFF	.	.	.	1/2	.	hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF167	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTGAGAAG	.	5	BLCA
CALCOCO2	0	.	GRCh37	17	46919234	46919234	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165G>T	p.Trp55Cys	p.W55C	ENST00000448105	2/14	58	42	16	58	58	0	CALCOCO2,missense_variant,p.Trp55Cys,ENST00000416445,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000448105,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000570513,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000258947,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000505071,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000509415,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000509507,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000502761,;CALCOCO2,5_prime_UTR_variant,,ENST00000513119,;CALCOCO2,intron_variant,,ENST00000507076,;CALCOCO2,intron_variant,,ENST00000508679,;CALCOCO2,non_coding_transcript_exon_variant,,ENST00000511697,;CALCOCO2,non_coding_transcript_exon_variant,,ENST00000372317,;CALCOCO2,missense_variant,p.Trp55Cys,ENST00000576582,;CALCOCO2,non_coding_transcript_exon_variant,,ENST00000503463,;CALCOCO2,non_coding_transcript_exon_variant,,ENST00000510356,;CALCOCO2,non_coding_transcript_exon_variant,,ENST00000575560,;	T	ENSG00000136436	ENST00000448105	Transcript	missense_variant	220	165	55	W/C	tgG/tgT	.	.	.	1	CALCOCO2	HGNC	29912	protein_coding	YES	CCDS58559.1	ENSP00000398523	CACO2_HUMAN	D6REB0_HUMAN,D6RBF9_HUMAN	UPI00017A7779	.	deleterious(0.02)	possibly_damaging(0.5)	2/14	.	hmmpanther:PTHR31915:SF2,hmmpanther:PTHR31915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTGGATTGG	.	5	BLCA
SNF8	0	.	GRCh37	17	47007863	47007863	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.751G>C	p.Glu251Gln	p.E251Q	ENST00000502492	8/8	24	20	4	24	24	0	SNF8,missense_variant,p.Glu250Gln,ENST00000290330,;SNF8,missense_variant,p.Glu251Gln,ENST00000502492,;UBE2Z,downstream_gene_variant,,ENST00000360943,;AC091133.1,upstream_gene_variant,,ENST00000435491,;SNF8,non_coding_transcript_exon_variant,,ENST00000514089,;SNF8,3_prime_UTR_variant,,ENST00000509989,;SNF8,3_prime_UTR_variant,,ENST00000509995,;SNF8,3_prime_UTR_variant,,ENST00000573795,;SNF8,3_prime_UTR_variant,,ENST00000510558,;SNF8,non_coding_transcript_exon_variant,,ENST00000504000,;SNF8,non_coding_transcript_exon_variant,,ENST00000515572,;UBE2Z,downstream_gene_variant,,ENST00000506271,;SNF8,downstream_gene_variant,,ENST00000514929,;SNF8,downstream_gene_variant,,ENST00000576353,;UBE2Z,downstream_gene_variant,,ENST00000506498,;UBE2Z,downstream_gene_variant,,ENST00000504684,;UBE2Z,downstream_gene_variant,,ENST00000513342,;SNF8,downstream_gene_variant,,ENST00000507302,;	G	ENSG00000159210	ENST00000502492	Transcript	missense_variant	1134	751	251	E/Q	Gag/Cag	.	.	.	-1	SNF8	HGNC	17028	protein_coding	YES	CCDS11541.1	ENSP00000421380	SNF8_HUMAN	D6RJ86_HUMAN	UPI0000071826	.	deleterious_low_confidence(0.03)	benign(0.295)	8/8	.	Gene3D:1.10.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCAGCTG	.	2	BLCA
ZNF652	0	.	GRCh37	17	47394625	47394625	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463G>A	p.Glu155Lys	p.E155K	ENST00000362063	2/6	100	67	32	111	111	0	ZNF652,missense_variant,p.Glu155Lys,ENST00000362063,;ZNF652,missense_variant,p.Glu155Lys,ENST00000430262,;ZNF652,intron_variant,,ENST00000508237,;	T	ENSG00000198740	ENST00000362063	Transcript	missense_variant	782	463	155	E/K	Gag/Aag	.	.	.	-1	ZNF652	HGNC	29147	protein_coding	YES	CCDS32677.1	ENSP00000354686	ZN652_HUMAN	.	UPI000006D93D	.	tolerated(0.24)	benign(0.015)	2/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24382:SF21,hmmpanther:PTHR24382	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCTTCCT	.	5	BLCA
MINK1	0	.	GRCh37	17	4789836	4789836	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.864C>T	p.%3D	p.F288F	ENST00000355280	10/32	77	50	26	98	98	0	MINK1,synonymous_variant,p.%3D,ENST00000355280,;MINK1,synonymous_variant,p.%3D,ENST00000347992,;MINK1,synonymous_variant,p.%3D,ENST00000453408,;RN7SL784P,downstream_gene_variant,,ENST00000577319,;MINK1,synonymous_variant,p.%3D,ENST00000571207,;MINK1,3_prime_UTR_variant,,ENST00000574453,;MINK1,non_coding_transcript_exon_variant,,ENST00000572330,;MINK1,downstream_gene_variant,,ENST00000577021,;	T	ENSG00000141503	ENST00000355280	Transcript	synonymous_variant	1060	864	288	F	ttC/ttT	.	.	.	1	MINK1	HGNC	17565	protein_coding	YES	CCDS45588.1	ENSP00000347427	MINK1_HUMAN	Q9HBM9_HUMAN,Q8NG69_HUMAN	UPI00001678BB	.	.	.	10/32	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF196,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCATCCG	.	5	BLCA
GP1BA	0	.	GRCh37	17	4837513	4837513	+	Silent	SNP	C	C	T	rs748793531	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1614C>T	p.%3D	p.L538L	ENST00000329125	2/2	70	44	26	93	93	0	GP1BA,synonymous_variant,p.%3D,ENST00000329125,;SLC25A11,downstream_gene_variant,,ENST00000576951,;SLC25A11,downstream_gene_variant,,ENST00000225665,;SLC25A11,downstream_gene_variant,,ENST00000544061,;SLC25A11,downstream_gene_variant,,ENST00000570543,;SLC25A11,downstream_gene_variant,,ENST00000574710,;	T	ENSG00000185245	ENST00000329125	Transcript	synonymous_variant	1689	1614	538	L	ctC/ctT	rs748793531	.	.	1	GP1BA	HGNC	4439	protein_coding	YES	CCDS54068.1	ENSP00000329380	GP1BA_HUMAN	A5CKE2_HUMAN,E7ES66_HUMAN,E5FY30_HUMAN,E0D854_HUMAN,E0D852_HUMAN	UPI0001CB792B	.	.	.	2/2	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCTTCTG	.	5	BLCA
SLC25A11	0	.	GRCh37	17	4842182	4842182	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>A	p.Asp113Asn	p.D113N	ENST00000225665	3/8	36	22	14	36	36	0	SLC25A11,missense_variant,p.Asp102Asn,ENST00000576951,;SLC25A11,missense_variant,p.Asp113Asn,ENST00000225665,;SLC25A11,missense_variant,p.Asp62Asn,ENST00000544061,;RNF167,upstream_gene_variant,,ENST00000575111,;RNF167,upstream_gene_variant,,ENST00000576965,;RNF167,upstream_gene_variant,,ENST00000576452,;RNF167,upstream_gene_variant,,ENST00000571816,;RNF167,upstream_gene_variant,,ENST00000570328,;RNF167,upstream_gene_variant,,ENST00000576229,;RNF167,upstream_gene_variant,,ENST00000572382,;RNF167,upstream_gene_variant,,ENST00000573404,;RNF167,upstream_gene_variant,,ENST00000572430,;GP1BA,downstream_gene_variant,,ENST00000329125,;RNF167,upstream_gene_variant,,ENST00000262482,;RNF167,upstream_gene_variant,,ENST00000571365,;RNF167,upstream_gene_variant,,ENST00000570492,;SLC25A11,non_coding_transcript_exon_variant,,ENST00000574710,;RNF167,upstream_gene_variant,,ENST00000572554,;SLC25A11,upstream_gene_variant,,ENST00000570543,;RNF167,upstream_gene_variant,,ENST00000575400,;RNF167,upstream_gene_variant,,ENST00000575524,;	T	ENSG00000108528	ENST00000225665	Transcript	missense_variant	678	337	113	D/N	Gat/Aat	.	.	.	-1	SLC25A11	HGNC	10981	protein_coding	YES	CCDS11059.1	ENSP00000225665	M2OM_HUMAN	Q6IBH0_HUMAN	UPI00000738E8	.	tolerated(0.29)	benign(0.003)	3/8	.	hmmpanther:PTHR24089:SF86,hmmpanther:PTHR24089,Gene3D:1okcA00,Superfamily_domains:0048588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCAGCCC	.	5	BLCA
ANKRD40	0	.	GRCh37	17	48776767	48776767	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.771T>A	p.Asn257Lys	p.N257K	ENST00000285243	3/5	76	56	20	68	68	0	ANKRD40,missense_variant,p.Asn257Lys,ENST00000285243,;ANKRD40,downstream_gene_variant,,ENST00000513072,;RP11-294J22.6,downstream_gene_variant,,ENST00000574246,;Y_RNA,downstream_gene_variant,,ENST00000364470,;ANKRD40,downstream_gene_variant,,ENST00000507114,;	T	ENSG00000154945	ENST00000285243	Transcript	missense_variant	1041	771	257	N/K	aaT/aaA	.	.	.	-1	ANKRD40	HGNC	28233	protein_coding	YES	CCDS11572.1	ENSP00000285243	ANR40_HUMAN	K7ERW4_HUMAN,A8IK34_HUMAN	UPI000006F76F	.	deleterious(0)	benign(0.081)	3/5	.	hmmpanther:PTHR24192,hmmpanther:PTHR24192:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATATTAAA	.	5	BLCA
ANKRD40	0	.	GRCh37	17	48777109	48777109	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429G>A	p.Met143Ile	p.M143I	ENST00000285243	3/5	48	35	13	63	63	0	ANKRD40,missense_variant,p.Met65Ile,ENST00000513072,;ANKRD40,missense_variant,p.Met143Ile,ENST00000285243,;RP11-294J22.6,downstream_gene_variant,,ENST00000574246,;Y_RNA,downstream_gene_variant,,ENST00000364470,;ANKRD40,downstream_gene_variant,,ENST00000507114,;	T	ENSG00000154945	ENST00000285243	Transcript	missense_variant	699	429	143	M/I	atG/atA	.	.	.	-1	ANKRD40	HGNC	28233	protein_coding	YES	CCDS11572.1	ENSP00000285243	ANR40_HUMAN	K7ERW4_HUMAN,A8IK34_HUMAN	UPI000006F76F	.	tolerated(0.46)	benign(0)	3/5	.	hmmpanther:PTHR24192,hmmpanther:PTHR24192:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTGCATCTG	.	5	BLCA
CAMTA2	0	.	GRCh37	17	4883865	4883865	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.821C>T	p.Ser274Phe	p.S274F	ENST00000414043	9/23	52	39	13	92	92	0	CAMTA2,missense_variant,p.Ser251Phe,ENST00000348066,;CAMTA2,missense_variant,p.Ser274Phe,ENST00000414043,;CAMTA2,missense_variant,p.Ser253Phe,ENST00000381311,;CAMTA2,missense_variant,p.Ser251Phe,ENST00000358183,;CAMTA2,missense_variant,p.Ser256Phe,ENST00000572543,;CAMTA2,missense_variant,p.Ser250Phe,ENST00000361571,;CAMTA2,downstream_gene_variant,,ENST00000574606,;CAMTA2,upstream_gene_variant,,ENST00000572326,;CAMTA2,downstream_gene_variant,,ENST00000571831,;CAMTA2,upstream_gene_variant,,ENST00000575365,;CAMTA2,3_prime_UTR_variant,,ENST00000574951,;CAMTA2,3_prime_UTR_variant,,ENST00000573004,;CAMTA2,upstream_gene_variant,,ENST00000575192,;CAMTA2,downstream_gene_variant,,ENST00000575580,;	A	ENSG00000108509	ENST00000414043	Transcript	missense_variant	975	821	274	S/F	tCt/tTt	.	.	.	-1	CAMTA2	HGNC	18807	protein_coding	YES	CCDS54072.1	ENSP00000412886	CMTA2_HUMAN	.	UPI0001892BAE	.	deleterious(0)	probably_damaging(0.998)	9/23	.	hmmpanther:PTHR23335,hmmpanther:PTHR23335:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGAGAGATG	.	5	BLCA
TOB1	0	.	GRCh37	17	48941033	48941033	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346G>A	p.Asp116Asn	p.D116N	ENST00000499247	2/2	77	47	30	87	87	0	TOB1,missense_variant,p.Asp116Asn,ENST00000499247,;TOB1,missense_variant,p.Asp116Asn,ENST00000268957,;TOB1-AS1,upstream_gene_variant,,ENST00000416263,;TOB1-AS1,upstream_gene_variant,,ENST00000514358,;TOB1-AS1,upstream_gene_variant,,ENST00000523470,;TOB1,non_coding_transcript_exon_variant,,ENST00000509385,;	T	ENSG00000141232	ENST00000499247	Transcript	missense_variant	780	346	116	D/N	Gat/Aat	.	.	.	-1	TOB1	HGNC	11979	protein_coding	YES	CCDS11576.1	ENSP00000427695	TOB1_HUMAN	.	UPI00001370FB	.	deleterious(0.01)	benign(0.01)	2/2	.	hmmpanther:PTHR17537,hmmpanther:PTHR17537:SF6,Superfamily_domains:SSF160696,Prints_domain:PR00310	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATTATCATCCA	.	5	BLCA
NUP88	0	.	GRCh37	17	5322865	5322865	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.106C>T	p.Pro36Ser	p.P36S	ENST00000573584	1/17	75	56	18	76	76	0	NUP88,missense_variant,p.Pro36Ser,ENST00000573584,;RPAIN,upstream_gene_variant,,ENST00000536255,;RPAIN,upstream_gene_variant,,ENST00000381209,;RPAIN,upstream_gene_variant,,ENST00000381208,;RPAIN,upstream_gene_variant,,ENST00000574003,;NUP88,upstream_gene_variant,,ENST00000225696,;RPAIN,upstream_gene_variant,,ENST00000327154,;NUP88,upstream_gene_variant,,ENST00000572809,;RPAIN,upstream_gene_variant,,ENST00000405578,;NUP88,non_coding_transcript_exon_variant,,ENST00000572019,;NUP88,missense_variant,p.Pro36Ser,ENST00000572290,;NUP88,non_coding_transcript_exon_variant,,ENST00000574867,;RPAIN,upstream_gene_variant,,ENST00000575599,;RPAIN,upstream_gene_variant,,ENST00000571043,;RPAIN,upstream_gene_variant,,ENST00000573126,;RPAIN,upstream_gene_variant,,ENST00000539417,;RPAIN,upstream_gene_variant,,ENST00000570883,;RPAIN,upstream_gene_variant,,ENST00000571613,;RPAIN,upstream_gene_variant,,ENST00000571558,;RPAIN,upstream_gene_variant,,ENST00000575112,;RPAIN,upstream_gene_variant,,ENST00000572174,;RPAIN,upstream_gene_variant,,ENST00000573577,;RPAIN,upstream_gene_variant,,ENST00000575711,;	A	ENSG00000108559	ENST00000573584	Transcript	missense_variant	616	106	36	P/S	Cca/Tca	.	.	.	-1	NUP88	HGNC	8067	protein_coding	YES	CCDS11070.1	ENSP00000458954	NUP88_HUMAN	I3L245_HUMAN	UPI0000130894	.	tolerated(0.3)	benign(0.002)	1/17	.	hmmpanther:PTHR13257:SF0,hmmpanther:PTHR13257,Pfam_domain:PF10168	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTGGACTCT	.	5	BLCA
TMEM100	0	.	GRCh37	17	53798237	53798237	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195C>T	p.%3D	p.F65F	ENST00000575734	4/4	61	47	13	86	86	0	TMEM100,synonymous_variant,p.%3D,ENST00000575734,;TMEM100,synonymous_variant,p.%3D,ENST00000571679,;TMEM100,synonymous_variant,p.%3D,ENST00000424486,;TMEM100,downstream_gene_variant,,ENST00000570586,;TMEM100,downstream_gene_variant,,ENST00000575685,;TMEM100,downstream_gene_variant,,ENST00000575806,;	A	ENSG00000166292	ENST00000575734	Transcript	synonymous_variant	1004	195	65	F	ttC/ttT	.	.	.	-1	TMEM100	HGNC	25607	protein_coding	YES	CCDS11587.1	ENSP00000465638	TM100_HUMAN	.	UPI000004A0C2	.	.	.	4/4	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR16100,hmmpanther:PTHR16100:SF2,Pfam_domain:PF15099	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGATGAAGAC	.	5	BLCA
SCPEP1	0	.	GRCh37	17	55055498	55055498	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-23G>A	.	.	ENST00000262288	1/13	23	8	14	14	14	0	SCPEP1,5_prime_UTR_variant,,ENST00000572710,;SCPEP1,5_prime_UTR_variant,,ENST00000262288,;SCPEP1,5_prime_UTR_variant,,ENST00000575395,;RP5-1107A17.4,upstream_gene_variant,,ENST00000572877,;SCPEP1,non_coding_transcript_exon_variant,,ENST00000573823,;SCPEP1,non_coding_transcript_exon_variant,,ENST00000571345,;SCPEP1,upstream_gene_variant,,ENST00000571898,;SCPEP1,5_prime_UTR_variant,,ENST00000575423,;SCPEP1,5_prime_UTR_variant,,ENST00000572591,;SCPEP1,upstream_gene_variant,,ENST00000576154,;	A	ENSG00000121064	ENST00000262288	Transcript	5_prime_UTR_variant	33	.	.	.	.	.	.	.	1	SCPEP1	HGNC	29507	protein_coding	YES	CCDS11593.1	ENSP00000262288	RISC_HUMAN	I3L506_HUMAN	UPI0000038BD2	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGATGCT	.	5	BLCA
VEZF1	0	.	GRCh37	17	56060382	56060382	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.406T>G	p.Leu136Val	p.L136V	ENST00000581208	2/6	52	34	18	46	46	0	VEZF1,missense_variant,p.Leu136Val,ENST00000581208,;VEZF1,missense_variant,p.Leu127Val,ENST00000584396,;VEZF1,5_prime_UTR_variant,,ENST00000583932,;VEZF1,upstream_gene_variant,,ENST00000258963,;	C	ENSG00000136451	ENST00000581208	Transcript	missense_variant	447	406	136	L/V	Ttg/Gtg	.	.	.	-1	VEZF1	HGNC	12949	protein_coding	YES	CCDS32687.1	ENSP00000462337	VEZF1_HUMAN	.	UPI000013D01B	.	tolerated(0.14)	probably_damaging(0.978)	2/6	.	hmmpanther:PTHR11389:SF319,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACAAGATGC	.	5	BLCA
BZRAP1	0	.	GRCh37	17	56395643	56395643	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1870G>A	p.Glu624Lys	p.E624K	ENST00000343736	14/32	46	23	23	72	72	0	BZRAP1,missense_variant,p.Glu624Lys,ENST00000355701,;BZRAP1,missense_variant,p.Glu624Lys,ENST00000343736,;BZRAP1,missense_variant,p.Glu564Lys,ENST00000268893,;BZRAP1,downstream_gene_variant,,ENST00000583624,;	T	ENSG00000005379	ENST00000343736	Transcript	missense_variant	2034	1870	624	E/K	Gag/Aag	.	.	.	-1	BZRAP1	HGNC	16831	protein_coding	YES	CCDS11605.1	ENSP00000345824	RIMB1_HUMAN	.	UPI000013D7E3	.	deleterious(0)	possibly_damaging(0.766)	14/32	.	hmmpanther:PTHR14234:SF20,hmmpanther:PTHR14234	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAGGTG	.	5	BLCA
TEX14	0	.	GRCh37	17	56649438	56649438	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3699C>T	p.%3D	p.I1233I	ENST00000240361	25/33	91	55	35	111	111	0	TEX14,synonymous_variant,p.%3D,ENST00000349033,;TEX14,synonymous_variant,p.%3D,ENST00000389934,;TEX14,synonymous_variant,p.%3D,ENST00000240361,;TEX14,synonymous_variant,p.%3D,ENST00000581147,;TEX14,3_prime_UTR_variant,,ENST00000582740,;	A	ENSG00000121101	ENST00000240361	Transcript	synonymous_variant	3785	3699	1233	I	atC/atT	.	.	.	-1	TEX14	HGNC	11737	protein_coding	YES	CCDS56042.1	ENSP00000240361	TEX14_HUMAN	.	UPI0000DAC9CA	.	.	.	25/33	.	hmmpanther:PTHR23060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGTGATACT	.	5	BLCA
CLTC	0	.	GRCh37	17	57743856	57743856	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1798C>T	p.%3D	p.L600L	ENST00000269122	12/32	53	33	20	74	74	0	CLTC,synonymous_variant,p.%3D,ENST00000269122,;CLTC,synonymous_variant,p.%3D,ENST00000393043,;CLTC,intron_variant,,ENST00000579456,;CLTC,upstream_gene_variant,,ENST00000579815,;CLTC,non_coding_transcript_exon_variant,,ENST00000466513,;CLTC,downstream_gene_variant,,ENST00000483176,;	T	ENSG00000141367	ENST00000269122	Transcript	synonymous_variant	2072	1798	600	L	Cta/Tta	.	.	.	1	CLTC	HGNC	2092	protein_coding	YES	CCDS32696.1	ENSP00000269122	CLH1_HUMAN	Q49AL0_HUMAN	UPI0000127ABD	.	.	.	12/32	.	PROSITE_profiles:PS50236,hmmpanther:PTHR10292:SF7,hmmpanther:PTHR10292,Pfam_domain:PF00637,PIRSF_domain:PIRSF002290,SMART_domains:SM00299,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATTCTAGGC	.	5	BLCA
VMP1	0	.	GRCh37	17	57915729	57915729	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048C>T	p.His350Tyr	p.H350Y	ENST00000262291	11/12	31	24	7	44	44	0	VMP1,missense_variant,p.His253Tyr,ENST00000536180,;VMP1,missense_variant,p.His294Tyr,ENST00000545362,;VMP1,missense_variant,p.His350Tyr,ENST00000262291,;VMP1,missense_variant,p.His169Tyr,ENST00000591877,;VMP1,missense_variant,p.His216Tyr,ENST00000537567,;VMP1,missense_variant,p.His158Tyr,ENST00000539763,;MIR21,upstream_gene_variant,,ENST00000362134,;VMP1,non_coding_transcript_exon_variant,,ENST00000591782,;VMP1,non_coding_transcript_exon_variant,,ENST00000588617,;VMP1,3_prime_UTR_variant,,ENST00000592619,;VMP1,non_coding_transcript_exon_variant,,ENST00000587470,;VMP1,non_coding_transcript_exon_variant,,ENST00000592790,;	T	ENSG00000062716	ENST00000262291	Transcript	missense_variant	1358	1048	350	H/Y	Cac/Tac	.	.	.	1	VMP1	HGNC	29559	protein_coding	YES	CCDS11619.1	ENSP00000262291	VMP1_HUMAN	K7ENU2_HUMAN,K7EMI0_HUMAN,K7EM96_HUMAN,K7EK01_HUMAN,D3DU01_HUMAN,B4DVV9_HUMAN	UPI0000037791	.	deleterious(0)	probably_damaging(0.953)	11/12	.	hmmpanther:PTHR10281:SF1,hmmpanther:PTHR10281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCACCAC	.	5	BLCA
VMP1	0	.	GRCh37	17	57917349	57917349	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*77G>A	.	.	ENST00000262291	12/12	27	20	7	22	22	0	VMP1,3_prime_UTR_variant,,ENST00000536180,;VMP1,3_prime_UTR_variant,,ENST00000545362,;VMP1,3_prime_UTR_variant,,ENST00000262291,;VMP1,3_prime_UTR_variant,,ENST00000591877,;VMP1,3_prime_UTR_variant,,ENST00000537567,;VMP1,3_prime_UTR_variant,,ENST00000539763,;MIR21,upstream_gene_variant,,ENST00000362134,;VMP1,non_coding_transcript_exon_variant,,ENST00000591782,;VMP1,non_coding_transcript_exon_variant,,ENST00000588617,;VMP1,3_prime_UTR_variant,,ENST00000592619,;VMP1,non_coding_transcript_exon_variant,,ENST00000587470,;VMP1,non_coding_transcript_exon_variant,,ENST00000592790,;	A	ENSG00000062716	ENST00000262291	Transcript	3_prime_UTR_variant	1608	.	.	.	.	.	.	.	1	VMP1	HGNC	29559	protein_coding	YES	CCDS11619.1	ENSP00000262291	VMP1_HUMAN	K7ENU2_HUMAN,K7EMI0_HUMAN,K7EM96_HUMAN,K7EK01_HUMAN,D3DU01_HUMAN,B4DVV9_HUMAN	UPI0000037791	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAAGGAAAAT	.	5	BLCA
RPS6KB1	0	.	GRCh37	17	58011538	58011538	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.696G>A	p.%3D	p.V232V	ENST00000225577	8/15	58	44	14	81	81	0	RPS6KB1,synonymous_variant,p.%3D,ENST00000406116,;RPS6KB1,synonymous_variant,p.%3D,ENST00000225577,;RPS6KB1,synonymous_variant,p.%3D,ENST00000443572,;RPS6KB1,synonymous_variant,p.%3D,ENST00000393021,;RPS6KB1,3_prime_UTR_variant,,ENST00000472940,;RPS6KB1,non_coding_transcript_exon_variant,,ENST00000587622,;RPS6KB1,non_coding_transcript_exon_variant,,ENST00000590928,;RPS6KB1,downstream_gene_variant,,ENST00000489824,;	A	ENSG00000108443	ENST00000225577	Transcript	synonymous_variant	717	696	232	V	gtG/gtA	.	.	.	1	RPS6KB1	HGNC	10436	protein_coding	YES	CCDS11621.1	ENSP00000225577	KS6B1_HUMAN	K7EIM2_HUMAN,B4DLT4_HUMAN	UPI000013C873	.	.	.	8/15	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24351:SF48,hmmpanther:PTHR24351,Gene3D:1.10.510.10,Pfam_domain:PF00069,PIRSF_domain:PIRSF000605,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTGAAACT	.	5	BLCA
MED13	0	.	GRCh37	17	60112827	60112827	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613C>T	p.Gln205Ter	p.Q205*	ENST00000397786	4/30	74	50	24	78	78	0	MED13,stop_gained,p.Gln205Ter,ENST00000397786,;Y_RNA,upstream_gene_variant,,ENST00000363972,;MED13,upstream_gene_variant,,ENST00000580896,;MED13,upstream_gene_variant,,ENST00000578132,;MED13,upstream_gene_variant,,ENST00000581994,;	A	ENSG00000108510	ENST00000397786	Transcript	stop_gained	690	613	205	Q/*	Caa/Taa	.	.	.	-1	MED13	HGNC	22474	protein_coding	YES	CCDS42366.1	ENSP00000380888	MED13_HUMAN	.	UPI0000D7D6F6	.	.	.	4/30	.	hmmpanther:PTHR12950:SF22,hmmpanther:PTHR12950,Pfam_domain:PF11597	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTGAAATG	.	5	BLCA
TANC2	0	.	GRCh37	17	61497604	61497604	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4261G>A	p.Glu1421Lys	p.E1421K	ENST00000424789	25/25	21	15	6	28	28	0	TANC2,missense_variant,p.Glu1431Lys,ENST00000389520,;TANC2,missense_variant,p.Glu1421Lys,ENST00000424789,;TANC2,3_prime_UTR_variant,,ENST00000583356,;RP11-269G24.3,intron_variant,,ENST00000583552,;TANC2,downstream_gene_variant,,ENST00000579541,;	A	ENSG00000170921	ENST00000424789	Transcript	missense_variant	4265	4261	1421	E/K	Gaa/Aaa	.	.	.	1	TANC2	HGNC	30212	protein_coding	YES	CCDS45754.1	ENSP00000387593	TANC2_HUMAN	.	UPI00015D57DF	.	deleterious_low_confidence(0)	benign(0.024)	25/25	.	hmmpanther:PTHR24166:SF21,hmmpanther:PTHR24166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGTTGAAAAT	.	2	BLCA
TANC2	0	.	GRCh37	17	61498589	61498589	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5246A>G	p.His1749Arg	p.H1749R	ENST00000424789	25/25	108	74	33	172	172	0	TANC2,missense_variant,p.His1759Arg,ENST00000389520,;TANC2,missense_variant,p.His1749Arg,ENST00000424789,;TANC2,3_prime_UTR_variant,,ENST00000583356,;RP11-269G24.3,intron_variant,,ENST00000583552,;	G	ENSG00000170921	ENST00000424789	Transcript	missense_variant	5250	5246	1749	H/R	cAt/cGt	.	.	.	1	TANC2	HGNC	30212	protein_coding	YES	CCDS45754.1	ENSP00000387593	TANC2_HUMAN	.	UPI00015D57DF	.	deleterious_low_confidence(0.05)	possibly_damaging(0.777)	25/25	.	hmmpanther:PTHR24166:SF21,hmmpanther:PTHR24166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCGCATTTAA	.	5	BLCA
DDX42	0	.	GRCh37	17	61883973	61883973	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.805C>T	p.Arg269Trp	p.R269W	ENST00000578681	9/19	59	36	23	87	87	0	DDX42,missense_variant,p.Arg269Trp,ENST00000389924,;DDX42,missense_variant,p.Arg269Trp,ENST00000578681,;DDX42,missense_variant,p.Arg269Trp,ENST00000583590,;DDX42,missense_variant,p.Arg150Trp,ENST00000359353,;DDX42,missense_variant,p.Arg269Trp,ENST00000457800,;DDX42,3_prime_UTR_variant,,ENST00000577940,;DDX42,3_prime_UTR_variant,,ENST00000584261,;DDX42,non_coding_transcript_exon_variant,,ENST00000584010,;DDX42,downstream_gene_variant,,ENST00000579511,;DDX42,downstream_gene_variant,,ENST00000578137,;DDX42,upstream_gene_variant,,ENST00000578593,;DDX42,upstream_gene_variant,,ENST00000581477,;DDX42,downstream_gene_variant,,ENST00000577978,;	T	ENSG00000198231	ENST00000578681	Transcript	missense_variant	1406	805	269	R/W	Cgg/Tgg	COSM982690	.	.	1	DDX42	HGNC	18676	protein_coding	YES	CCDS32704.1	ENSP00000464050	DDX42_HUMAN	J3QRI2_HUMAN,B3KMI4_HUMAN	UPI000017DA3D	.	deleterious(0)	probably_damaging(0.999)	9/19	.	PROSITE_profiles:PS51195,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF125,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCGGAAA	.	5	BLCA
DDX42	0	.	GRCh37	17	61890786	61890786	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1874C>T	p.Ser625Phe	p.S625F	ENST00000578681	16/19	36	24	12	66	66	0	DDX42,missense_variant,p.Ser625Phe,ENST00000389924,;DDX42,missense_variant,p.Ser625Phe,ENST00000578681,;DDX42,missense_variant,p.Ser625Phe,ENST00000583590,;DDX42,missense_variant,p.Ser506Phe,ENST00000359353,;DDX42,missense_variant,p.Ser625Phe,ENST00000457800,;DDX42,upstream_gene_variant,,ENST00000582985,;DDX42,non_coding_transcript_exon_variant,,ENST00000584951,;DDX42,non_coding_transcript_exon_variant,,ENST00000578593,;DDX42,non_coding_transcript_exon_variant,,ENST00000584010,;DDX42,upstream_gene_variant,,ENST00000579539,;DDX42,downstream_gene_variant,,ENST00000581477,;DDX42,downstream_gene_variant,,ENST00000577940,;DDX42,upstream_gene_variant,,ENST00000581767,;	T	ENSG00000198231	ENST00000578681	Transcript	missense_variant	2475	1874	625	S/F	tCt/tTt	.	.	.	1	DDX42	HGNC	18676	protein_coding	YES	CCDS32704.1	ENSP00000464050	DDX42_HUMAN	J3QRI2_HUMAN,B3KMI4_HUMAN	UPI000017DA3D	.	deleterious(0)	benign(0.241)	16/19	.	PROSITE_profiles:PS51194,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF125,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTCTAAGG	.	5	BLCA
SCN4A	0	.	GRCh37	17	62020265	62020265	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4209G>A	p.%3D	p.K1403K	ENST00000435607	23/24	62	41	20	92	92	0	SCN4A,synonymous_variant,p.%3D,ENST00000435607,;SCN4A,synonymous_variant,p.%3D,ENST00000578147,;	T	ENSG00000007314	ENST00000435607	Transcript	synonymous_variant	4286	4209	1403	K	aaG/aaA	.	.	.	-1	SCN4A	HGNC	10591	protein_coding	YES	CCDS45761.1	ENSP00000396320	SCN4A_HUMAN	Q9H3L9_HUMAN	UPI0000201254	.	.	.	23/24	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF193,Pfam_domain:PF00520,Gene3D:1.20.120.350,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCTTGAG	.	5	BLCA
ERN1	0	.	GRCh37	17	62141358	62141364	+	Frame_Shift_Del	DEL	AGTAATT	AGTAATT	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	AGTAATT	AGTAATT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1069_1075delAATTACT	p.Asn357GlyfsTer3	p.N357Gfs*3	ENST00000433197	10/22	22	19	3	33	33	0	ERN1,frameshift_variant,p.Asn357GlyfsTer3,ENST00000433197,;ERN1,downstream_gene_variant,,ENST00000577567,;ERN1,non_coding_transcript_exon_variant,,ENST00000583896,;ERN1,downstream_gene_variant,,ENST00000579249,;	-	ENSG00000178607	ENST00000433197	Transcript	frameshift_variant	1165-1171	1069-1075	357-359	NYW/X	AATTACTgg/gg	.	.	.	-1	ERN1	HGNC	3449	protein_coding	YES	CCDS45762.1	ENSP00000401445	ERN1_HUMAN	.	UPI0000201263	.	.	.	10/22	.	hmmpanther:PTHR13954:SF10,hmmpanther:PTHR13954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GAAGCCAGTAATTCCTCA	.	2	BLCA
DDX5	0	.	GRCh37	17	62499353	62499353	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763G>A	p.Asp255Asn	p.D255N	ENST00000225792	7/13	117	91	26	131	131	0	DDX5,missense_variant,p.Asp255Asn,ENST00000578804,;DDX5,missense_variant,p.Asp41Asn,ENST00000579996,;DDX5,missense_variant,p.Asp176Asn,ENST00000450599,;DDX5,missense_variant,p.Asp93Asn,ENST00000577787,;DDX5,missense_variant,p.Asp255Asn,ENST00000225792,;DDX5,downstream_gene_variant,,ENST00000584279,;DDX5,downstream_gene_variant,,ENST00000583212,;CEP95,upstream_gene_variant,,ENST00000553412,;DDX5,downstream_gene_variant,,ENST00000581806,;DDX5,downstream_gene_variant,,ENST00000583239,;DDX5,downstream_gene_variant,,ENST00000579091,;CEP95,upstream_gene_variant,,ENST00000556440,;DDX5,downstream_gene_variant,,ENST00000578190,;CEP95,upstream_gene_variant,,ENST00000581056,;DDX5,downstream_gene_variant,,ENST00000581697,;DDX5,downstream_gene_variant,,ENST00000585060,;CEP95,upstream_gene_variant,,ENST00000580188,;DDX5,downstream_gene_variant,,ENST00000585111,;DDX5,downstream_gene_variant,,ENST00000577922,;MIR3064,upstream_gene_variant,,ENST00000581130,;MIR5047,upstream_gene_variant,,ENST00000579212,;DDX5,upstream_gene_variant,,ENST00000580026,;DDX5,downstream_gene_variant,,ENST00000584500,;DDX5,downstream_gene_variant,,ENST00000583699,;DDX5,upstream_gene_variant,,ENST00000581237,;DDX5,upstream_gene_variant,,ENST00000578491,;DDX5,3_prime_UTR_variant,,ENST00000540698,;DDX5,3_prime_UTR_variant,,ENST00000578400,;DDX5,3_prime_UTR_variant,,ENST00000581693,;DDX5,non_coding_transcript_exon_variant,,ENST00000584549,;DDX5,non_coding_transcript_exon_variant,,ENST00000579461,;DDX5,non_coding_transcript_exon_variant,,ENST00000582326,;DDX5,non_coding_transcript_exon_variant,,ENST00000583894,;DDX5,non_coding_transcript_exon_variant,,ENST00000581551,;DDX5,non_coding_transcript_exon_variant,,ENST00000581230,;DDX5,non_coding_transcript_exon_variant,,ENST00000583201,;DDX5,downstream_gene_variant,,ENST00000585223,;CEP95,upstream_gene_variant,,ENST00000579860,;DDX5,upstream_gene_variant,,ENST00000578758,;CEP95,upstream_gene_variant,,ENST00000553956,;DDX5,downstream_gene_variant,,ENST00000583562,;DDX5,upstream_gene_variant,,ENST00000585317,;	T	ENSG00000108654	ENST00000225792	Transcript	missense_variant	1165	763	255	D/N	Gat/Aat	.	.	.	-1	DDX5	HGNC	2746	protein_coding	YES	CCDS11659.1	ENSP00000225792	DDX5_HUMAN	J3QS97_HUMAN,J3QRQ7_HUMAN,J3QRN5_HUMAN,J3QR62_HUMAN,J3QLG9_HUMAN,J3QKN9_HUMAN,J3KTQ4_HUMAN,J3KRZ1_HUMAN,J3KRX8_HUMAN	UPI000003B456	.	deleterious(0)	probably_damaging(0.95)	7/13	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031:SF182,hmmpanther:PTHR24031,Gene3D:3.40.50.300,Pfam_domain:PF00270,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATATCAAGCA	.	5	BLCA
DDX5	0	.	GRCh37	17	62499939	62499939	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.489G>A	p.%3D	p.E163E	ENST00000225792	5/13	61	40	20	66	66	0	DDX5,synonymous_variant,p.%3D,ENST00000578804,;DDX5,synonymous_variant,p.%3D,ENST00000581697,;DDX5,synonymous_variant,p.%3D,ENST00000577787,;DDX5,synonymous_variant,p.%3D,ENST00000225792,;DDX5,synonymous_variant,p.%3D,ENST00000577922,;DDX5,splice_region_variant,,ENST00000450599,;DDX5,downstream_gene_variant,,ENST00000584279,;DDX5,downstream_gene_variant,,ENST00000583212,;CEP95,upstream_gene_variant,,ENST00000553412,;DDX5,downstream_gene_variant,,ENST00000581806,;DDX5,downstream_gene_variant,,ENST00000583239,;DDX5,downstream_gene_variant,,ENST00000579091,;CEP95,upstream_gene_variant,,ENST00000556440,;DDX5,downstream_gene_variant,,ENST00000578190,;CEP95,upstream_gene_variant,,ENST00000581056,;DDX5,downstream_gene_variant,,ENST00000585060,;CEP95,upstream_gene_variant,,ENST00000580188,;DDX5,upstream_gene_variant,,ENST00000579996,;DDX5,downstream_gene_variant,,ENST00000585111,;MIR3064,upstream_gene_variant,,ENST00000581130,;MIR5047,upstream_gene_variant,,ENST00000579212,;DDX5,upstream_gene_variant,,ENST00000580026,;DDX5,downstream_gene_variant,,ENST00000584500,;DDX5,downstream_gene_variant,,ENST00000583699,;DDX5,upstream_gene_variant,,ENST00000581237,;DDX5,upstream_gene_variant,,ENST00000578491,;DDX5,3_prime_UTR_variant,,ENST00000540698,;DDX5,3_prime_UTR_variant,,ENST00000581693,;DDX5,non_coding_transcript_exon_variant,,ENST00000584549,;DDX5,non_coding_transcript_exon_variant,,ENST00000583894,;DDX5,non_coding_transcript_exon_variant,,ENST00000583562,;DDX5,non_coding_transcript_exon_variant,,ENST00000581230,;DDX5,intron_variant,,ENST00000578400,;DDX5,downstream_gene_variant,,ENST00000585223,;CEP95,upstream_gene_variant,,ENST00000579860,;DDX5,upstream_gene_variant,,ENST00000579461,;DDX5,upstream_gene_variant,,ENST00000578758,;CEP95,upstream_gene_variant,,ENST00000553956,;DDX5,upstream_gene_variant,,ENST00000582326,;DDX5,upstream_gene_variant,,ENST00000581551,;DDX5,upstream_gene_variant,,ENST00000583201,;DDX5,upstream_gene_variant,,ENST00000585317,;	T	ENSG00000108654	ENST00000225792	Transcript	synonymous_variant	891	489	163	E	gaG/gaA	.	.	.	-1	DDX5	HGNC	2746	protein_coding	YES	CCDS11659.1	ENSP00000225792	DDX5_HUMAN	J3QS97_HUMAN,J3QRQ7_HUMAN,J3QRN5_HUMAN,J3QR62_HUMAN,J3QLG9_HUMAN,J3QKN9_HUMAN,J3KTQ4_HUMAN,J3KRZ1_HUMAN,J3KRX8_HUMAN	UPI000003B456	.	.	.	5/13	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031:SF182,hmmpanther:PTHR24031,Gene3D:3.40.50.300,Pfam_domain:PF00270,SMART_domains:SM00487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTCTAG	.	5	BLCA
CEP95	0	.	GRCh37	17	62522265	62522265	+	Missense_Mutation	SNP	G	G	A	rs781835053	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099G>A	p.Glu367Lys	p.E367K	ENST00000556440	10/20	59	40	18	60	60	0	CEP95,missense_variant,p.Glu367Lys,ENST00000556440,;CEP95,missense_variant,p.Glu203Lys,ENST00000553412,;CEP95,upstream_gene_variant,,ENST00000583457,;CEP95,downstream_gene_variant,,ENST00000580188,;AC009994.2,downstream_gene_variant,,ENST00000579926,;CEP95,non_coding_transcript_exon_variant,,ENST00000577476,;CEP95,3_prime_UTR_variant,,ENST00000553956,;CEP95,non_coding_transcript_exon_variant,,ENST00000579117,;CEP95,upstream_gene_variant,,ENST00000584857,;CEP95,upstream_gene_variant,,ENST00000579637,;CEP95,downstream_gene_variant,,ENST00000579860,;CEP95,downstream_gene_variant,,ENST00000577960,;CEP95,upstream_gene_variant,,ENST00000579478,;	A	ENSG00000258890	ENST00000556440	Transcript	missense_variant	1609	1099	367	E/K	Gaa/Aaa	rs781835053,COSM259976,COSM259977	.	.	1	CEP95	HGNC	25141	protein_coding	YES	CCDS45763.1	ENSP00000450461	CEP95_HUMAN	K7ENV0_HUMAN,B4DMD2_HUMAN	UPI000006F4B3	.	deleterious(0.01)	benign(0.081)	10/20	.	hmmpanther:PTHR22545:SF0,hmmpanther:PTHR22545	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAAGAATTA	.	5	BLCA
SMURF2	0	.	GRCh37	17	62576975	62576975	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.704C>T	p.Ser235Leu	p.S235L	ENST00000262435	8/19	102	69	33	120	120	0	SMURF2,missense_variant,p.Ser222Leu,ENST00000585301,;SMURF2,missense_variant,p.Ser235Leu,ENST00000262435,;SMURF2,intron_variant,,ENST00000578200,;SMURF2,3_prime_UTR_variant,,ENST00000578386,;SMURF2,3_prime_UTR_variant,,ENST00000582081,;	A	ENSG00000108854	ENST00000262435	Transcript	missense_variant	892	704	235	S/L	tCa/tTa	.	.	.	-1	SMURF2	HGNC	16809	protein_coding	YES	CCDS32707.1	ENSP00000262435	SMUF2_HUMAN	Q96DE7_HUMAN	UPI00001361C5	.	tolerated(0.08)	benign(0.133)	8/19	.	hmmpanther:PTHR11254:SF300,hmmpanther:PTHR11254,PIRSF_domain:PIRSF001569	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTGACCTG	.	5	BLCA
hsa-mir-6080	0	.	GRCh37	17	62782800	62782800	+	5'Flank	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000400873	.	19	16	3	26	26	0	PLEKHM1P,non_coding_transcript_exon_variant,,ENST00000578036,;PLEKHM1P,non_coding_transcript_exon_variant,,ENST00000582986,;hsa-mir-6080,upstream_gene_variant,,ENST00000579125,;hsa-mir-6080,upstream_gene_variant,,ENST00000400873,;PLEKHM1P,non_coding_transcript_exon_variant,,ENST00000582201,;	T	ENSG00000215769	ENST00000400873	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	4683	-1	hsa-mir-6080	miRBase	.	processed_transcript	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAATTCAATCA	.	2	BLCA
AMZ2P1	0	.	GRCh37	17	62964481	62964481	+	RNA	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1612G>A	.	.	ENST00000430983	5/5	44	28	15	32	32	0	AMZ2P1,non_coding_transcript_exon_variant,,ENST00000430983,;AMZ2P1,non_coding_transcript_exon_variant,,ENST00000397713,;AMZ2P1,non_coding_transcript_exon_variant,,ENST00000565833,;	T	ENSG00000214174	ENST00000430983	Transcript	non_coding_transcript_exon_variant	1612	.	.	.	.	.	.	.	-1	AMZ2P1	HGNC	26491	processed_transcript	YES	.	.	.	.	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCAATCC	.	5	BLCA
MAP2K6	0	.	GRCh37	17	67411085	67411085	+	5'UTR	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-41A>C	.	.	ENST00000590474	1/12	41	36	5	65	65	0	MAP2K6,5_prime_UTR_variant,,ENST00000590474,;MAP2K6,5_prime_UTR_variant,,ENST00000359094,;MAP2K6,non_coding_transcript_exon_variant,,ENST00000586641,;	C	ENSG00000108984	ENST00000590474	Transcript	5_prime_UTR_variant	247	.	.	.	.	.	.	.	1	MAP2K6	HGNC	6846	protein_coding	YES	CCDS11686.1	ENSP00000468348	MP2K6_HUMAN	K7ELM6_HUMAN,A8K3Y2_HUMAN	UPI000012F492	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCAAAGTCTT	.	4	BLCA
C17orf49	0	.	GRCh37	17	6919820	6919820	+	Silent	SNP	G	G	A	rs756124967	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225G>A	p.%3D	p.Q75Q	ENST00000546495	4/6	87	52	35	119	119	0	C17orf49,synonymous_variant,p.%3D,ENST00000546760,;C17orf49,synonymous_variant,p.%3D,ENST00000546495,;RNASEK-C17orf49,synonymous_variant,p.%3D,ENST00000547302,;C17orf49,synonymous_variant,p.%3D,ENST00000552402,;C17orf49,synonymous_variant,p.%3D,ENST00000552775,;C17orf49,synonymous_variant,p.%3D,ENST00000439424,;RNASEK,downstream_gene_variant,,ENST00000570898,;RNASEK,downstream_gene_variant,,ENST00000552842,;AC027763.2,upstream_gene_variant,,ENST00000573939,;AC040977.1,upstream_gene_variant,,ENST00000593646,;RNASEK,downstream_gene_variant,,ENST00000402093,;AC027763.2,upstream_gene_variant,,ENST00000574377,;RNASEK,downstream_gene_variant,,ENST00000552321,;AC027763.2,upstream_gene_variant,,ENST00000399541,;RNASEK,downstream_gene_variant,,ENST00000548577,;AC027763.2,upstream_gene_variant,,ENST00000575889,;AC027763.2,upstream_gene_variant,,ENST00000399540,;AC027763.2,upstream_gene_variant,,ENST00000575727,;MIR497HG,downstream_gene_variant,,ENST00000385194,;MIR497HG,downstream_gene_variant,,ENST00000385056,;MIR497HG,non_coding_transcript_exon_variant,,ENST00000572453,;MIR497HG,intron_variant,,ENST00000443997,;RP11-589P10.7,intron_variant,,ENST00000572547,;C17orf49,non_coding_transcript_exon_variant,,ENST00000550038,;C17orf49,non_coding_transcript_exon_variant,,ENST00000547709,;C17orf49,synonymous_variant,p.%3D,ENST00000547747,;RNASEK-C17orf49,non_coding_transcript_exon_variant,,ENST00000549775,;C17orf49,non_coding_transcript_exon_variant,,ENST00000549857,;RNASEK-C17orf49,non_coding_transcript_exon_variant,,ENST00000547863,;RNASEK,downstream_gene_variant,,ENST00000549393,;RNASEK,downstream_gene_variant,,ENST00000546395,;AC027763.2,upstream_gene_variant,,ENST00000571010,;RNASEK,downstream_gene_variant,,ENST00000552176,;RNASEK,downstream_gene_variant,,ENST00000552039,;RNASEK,downstream_gene_variant,,ENST00000575822,;AC027763.2,upstream_gene_variant,,ENST00000570562,;AC027763.2,upstream_gene_variant,,ENST00000572385,;RNASEK-C17orf49,downstream_gene_variant,,ENST00000607564,;	A	ENSG00000258315	ENST00000546495	Transcript	synonymous_variant	588	225	75	Q	caG/caA	rs756124967	.	.	1	C17orf49	HGNC	28737	protein_coding	YES	CCDS45595.1	ENSP00000448598	BAP18_HUMAN	F8W1H0_HUMAN	UPI0000494405	.	.	.	4/6	.	hmmpanther:PTHR21397,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCAGATAAA	.	5	BLCA
ACADVL	0	.	GRCh37	17	7127670	7127670	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1632C>T	p.%3D	p.L544L	ENST00000543245	17/21	11	8	3	37	37	0	ACADVL,stop_gained,p.Gln102Ter,ENST00000579546,;ACADVL,synonymous_variant,p.%3D,ENST00000542255,;ACADVL,synonymous_variant,p.%3D,ENST00000356839,;ACADVL,synonymous_variant,p.%3D,ENST00000543245,;ACADVL,synonymous_variant,p.%3D,ENST00000350303,;DLG4,upstream_gene_variant,,ENST00000399510,;ACADVL,downstream_gene_variant,,ENST00000584103,;DVL2,downstream_gene_variant,,ENST00000575458,;DVL2,downstream_gene_variant,,ENST00000575756,;DVL2,downstream_gene_variant,,ENST00000575086,;DVL2,downstream_gene_variant,,ENST00000005340,;DVL2,downstream_gene_variant,,ENST00000574143,;ACADVL,downstream_gene_variant,,ENST00000583312,;ACADVL,downstream_gene_variant,,ENST00000579886,;MIR324,upstream_gene_variant,,ENST00000362183,;ACADVL,non_coding_transcript_exon_variant,,ENST00000583074,;DVL2,downstream_gene_variant,,ENST00000574642,;ACADVL,downstream_gene_variant,,ENST00000577857,;ACADVL,downstream_gene_variant,,ENST00000581562,;ACADVL,stop_gained,p.Gln166Ter,ENST00000583858,;ACADVL,3_prime_UTR_variant,,ENST00000322910,;ACADVL,non_coding_transcript_exon_variant,,ENST00000579391,;ACADVL,non_coding_transcript_exon_variant,,ENST00000585203,;ACADVL,non_coding_transcript_exon_variant,,ENST00000578711,;ACADVL,non_coding_transcript_exon_variant,,ENST00000582450,;ACADVL,non_coding_transcript_exon_variant,,ENST00000578319,;ACADVL,non_coding_transcript_exon_variant,,ENST00000578809,;ACADVL,non_coding_transcript_exon_variant,,ENST00000579425,;ACADVL,non_coding_transcript_exon_variant,,ENST00000583850,;ACADVL,non_coding_transcript_exon_variant,,ENST00000579894,;ACADVL,upstream_gene_variant,,ENST00000583848,;ACADVL,downstream_gene_variant,,ENST00000578421,;DVL2,downstream_gene_variant,,ENST00000573354,;ACADVL,downstream_gene_variant,,ENST00000582379,;ACADVL,downstream_gene_variant,,ENST00000579286,;DVL2,downstream_gene_variant,,ENST00000576840,;ACADVL,downstream_gene_variant,,ENST00000580263,;ACADVL,downstream_gene_variant,,ENST00000577191,;DVL2,downstream_gene_variant,,ENST00000577154,;ACADVL,upstream_gene_variant,,ENST00000578033,;ACADVL,downstream_gene_variant,,ENST00000578269,;DVL2,downstream_gene_variant,,ENST00000571745,;DVL2,downstream_gene_variant,,ENST00000574591,;ACADVL,downstream_gene_variant,,ENST00000582356,;DVL2,downstream_gene_variant,,ENST00000576285,;ACADVL,downstream_gene_variant,,ENST00000583760,;ACADVL,downstream_gene_variant,,ENST00000577433,;ACADVL,downstream_gene_variant,,ENST00000582166,;ACADVL,downstream_gene_variant,,ENST00000578824,;ACADVL,downstream_gene_variant,,ENST00000580365,;DVL2,downstream_gene_variant,,ENST00000572285,;ACADVL,downstream_gene_variant,,ENST00000578579,;ACADVL,downstream_gene_variant,,ENST00000582056,;ACADVL,downstream_gene_variant,,ENST00000581378,;	T	ENSG00000072778	ENST00000543245	Transcript	synonymous_variant	1653	1632	544	L	ctC/ctT	.	.	.	1	ACADVL	HGNC	92	protein_coding	YES	CCDS58509.1	ENSP00000438689	ACADV_HUMAN	B3KPA6_HUMAN	UPI0002064F84	.	.	.	17/21	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGTCTCAGCGG	.	3	BLCA
GABARAP	0	.	GRCh37	17	7145617	7145617	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33C>T	p.%3D	p.F11F	ENST00000302386	1/4	35	21	14	61	61	0	GABARAP,synonymous_variant,p.%3D,ENST00000302386,;GABARAP,synonymous_variant,p.%3D,ENST00000573928,;PHF23,upstream_gene_variant,,ENST00000454255,;GABARAP,upstream_gene_variant,,ENST00000571129,;PHF23,upstream_gene_variant,,ENST00000570899,;CTDNEP1,downstream_gene_variant,,ENST00000576613,;PHF23,upstream_gene_variant,,ENST00000572789,;PHF23,upstream_gene_variant,,ENST00000574323,;CTDNEP1,downstream_gene_variant,,ENST00000575783,;GABARAP,upstream_gene_variant,,ENST00000571253,;PHF23,upstream_gene_variant,,ENST00000574236,;CTDNEP1,downstream_gene_variant,,ENST00000574322,;PHF23,upstream_gene_variant,,ENST00000573826,;CTDNEP1,downstream_gene_variant,,ENST00000572043,;PHF23,upstream_gene_variant,,ENST00000320316,;GABARAP,upstream_gene_variant,,ENST00000577035,;CTDNEP1,downstream_gene_variant,,ENST00000571409,;CTDNEP1,downstream_gene_variant,,ENST00000573600,;CTDNEP1,downstream_gene_variant,,ENST00000318988,;CTDNEP1,downstream_gene_variant,,ENST00000570828,;PHF23,upstream_gene_variant,,ENST00000571362,;PHF23,upstream_gene_variant,,ENST00000576955,;PHF23,upstream_gene_variant,,ENST00000574407,;PHF23,upstream_gene_variant,,ENST00000570753,;PHF23,upstream_gene_variant,,ENST00000574899,;GABARAP,synonymous_variant,p.%3D,ENST00000570856,;CTD-2545G14.7,intron_variant,,ENST00000570760,;RP1-4G17.5,downstream_gene_variant,,ENST00000577138,;CTDNEP1,downstream_gene_variant,,ENST00000570385,;CTDNEP1,downstream_gene_variant,,ENST00000574205,;CTDNEP1,downstream_gene_variant,,ENST00000570484,;CTDNEP1,downstream_gene_variant,,ENST00000570380,;	A	ENSG00000170296	ENST00000302386	Transcript	synonymous_variant	473	33	11	F	ttC/ttT	.	.	.	-1	GABARAP	HGNC	4067	protein_coding	YES	CCDS11092.1	ENSP00000306866	GBRAP_HUMAN	Q6IAW1_HUMAN,I3L236_HUMAN	UPI00000215FE	.	.	.	1/4	.	hmmpanther:PTHR10969,hmmpanther:PTHR10969:SF20,Gene3D:3.10.20.90,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCGAACGG	.	5	BLCA
TTYH2	0	.	GRCh37	17	72256357	72256357	+	3'UTR	SNP	C	C	T	rs367818073	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*9C>T	.	.	ENST00000269346	14/14	48	36	11	91	91	0	TTYH2,3_prime_UTR_variant,,ENST00000529107,;TTYH2,3_prime_UTR_variant,,ENST00000269346,;TTYH2,3_prime_UTR_variant,,ENST00000441391,;CTD-2514K5.4,intron_variant,,ENST00000583018,;TTYH2,downstream_gene_variant,,ENST00000526858,;	T	ENSG00000141540	ENST00000269346	Transcript	3_prime_UTR_variant	1688	.	.	.	.	rs367818073	.	.	1	TTYH2	HGNC	13877	protein_coding	YES	CCDS32717.1	ENSP00000269346	TTYH2_HUMAN	.	UPI00002001AA	.	.	.	14/14	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCGGGGG	byFrequency|byCluster	5	BLCA
NEURL4	0	.	GRCh37	17	7232399	7232399	+	Missense_Mutation	SNP	C	C	T	rs569858150	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233G>A	p.Arg78Gln	p.R78Q	ENST00000399464	1/29	26	19	6	28	28	0	NEURL4,missense_variant,p.Arg78Gln,ENST00000570460,;NEURL4,missense_variant,p.Arg63Gln,ENST00000571887,;NEURL4,missense_variant,p.Arg78Gln,ENST00000399464,;NEURL4,missense_variant,p.Arg78Gln,ENST00000315614,;NEURL4,upstream_gene_variant,,ENST00000576485,;NEURL4,upstream_gene_variant,,ENST00000576966,;NEURL4,upstream_gene_variant,,ENST00000571243,;NEURL4,upstream_gene_variant,,ENST00000573186,;NEURL4,upstream_gene_variant,,ENST00000573651,;AC026954.6,upstream_gene_variant,,ENST00000429771,;	T	ENSG00000215041	ENST00000399464	Transcript	missense_variant	249	233	78	R/Q	cGa/cAa	rs569858150	.	.	-1	NEURL4	HGNC	34410	protein_coding	YES	CCDS42251.1	ENSP00000382390	NEUL4_HUMAN	.	UPI000020081C	.	tolerated(0.59)	possibly_damaging(0.77)	1/29	.	PROSITE_profiles:PS51065,hmmpanther:PTHR12429:SF2,hmmpanther:PTHR12429,Pfam_domain:PF07177,SMART_domains:SM00588,Superfamily_domains:SSF49899	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCGGCTC	by1000G	5	BLCA
SLC9A3R1	0	.	GRCh37	17	72758289	72758289	+	Missense_Mutation	SNP	C	C	T	rs766158601	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.580C>T	p.Arg194Trp	p.R194W	ENST00000262613	2/6	47	35	12	54	54	0	SLC9A3R1,missense_variant,p.Arg38Trp,ENST00000413388,;SLC9A3R1,missense_variant,p.Arg194Trp,ENST00000262613,;SLC9A3R1,intron_variant,,ENST00000583369,;SLC9A3R1,upstream_gene_variant,,ENST00000578958,;SLC9A3R1,upstream_gene_variant,,ENST00000581356,;	T	ENSG00000109062	ENST00000262613	Transcript	missense_variant	775	580	194	R/W	Cgg/Tgg	rs766158601	.	.	1	SLC9A3R1	HGNC	11075	protein_coding	YES	CCDS11705.1	ENSP00000262613	NHRF1_HUMAN	B3KY21_HUMAN	UPI0000072521	.	deleterious(0)	probably_damaging(0.916)	2/6	.	Superfamily_domains:SSF50156,PIRSF_domain:PIRSF037866,SMART_domains:SM00228,Pfam_domain:PF00595,Gene3D:2.30.42.10,hmmpanther:PTHR14191:SF7,hmmpanther:PTHR14191,PROSITE_profiles:PS50106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTCCGGGCC	byFrequency	5	BLCA
ICT1	0	.	GRCh37	17	73016661	73016661	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>A	p.Asp149Asn	p.D149N	ENST00000301585	5/6	45	24	21	54	54	0	ICT1,missense_variant,p.Asp149Asn,ENST00000301585,;ICT1,missense_variant,p.Asp156Asn,ENST00000584208,;ICT1,3_prime_UTR_variant,,ENST00000580800,;ICT1,non_coding_transcript_exon_variant,,ENST00000583772,;	A	ENSG00000167862	ENST00000301585	Transcript	missense_variant	458	445	149	D/N	Gat/Aat	COSM1303322	.	.	1	ICT1	HGNC	5359	protein_coding	YES	CCDS11711.1	ENSP00000301585	ICT1_HUMAN	.	UPI0000000DF2	.	deleterious(0.02)	benign(0.151)	5/6	.	hmmpanther:PTHR11075,Gene3D:2jvaA00,Pfam_domain:PF00472,Superfamily_domains:0039326	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGATTGC	.	5	BLCA
ICT1	0	.	GRCh37	17	73016687	73016687	+	Missense_Mutation	SNP	G	G	A	rs770515306	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.471G>A	p.Met157Ile	p.M157I	ENST00000301585	5/6	56	42	13	63	63	0	ICT1,missense_variant,p.Met157Ile,ENST00000301585,;ICT1,missense_variant,p.Met164Ile,ENST00000584208,;ICT1,non_coding_transcript_exon_variant,,ENST00000583772,;ICT1,downstream_gene_variant,,ENST00000580800,;	A	ENSG00000167862	ENST00000301585	Transcript	missense_variant	484	471	157	M/I	atG/atA	rs770515306	.	.	1	ICT1	HGNC	5359	protein_coding	YES	CCDS11711.1	ENSP00000301585	ICT1_HUMAN	.	UPI0000000DF2	.	tolerated(0.31)	benign(0.042)	5/6	.	hmmpanther:PTHR11075,Gene3D:2jvaA00,Pfam_domain:PF00472,Superfamily_domains:0039326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATGATCAC	.	5	BLCA
TMEM102	0	.	GRCh37	17	7339832	7339832	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.534G>A	p.%3D	p.E178E	ENST00000323206	3/3	40	22	18	61	61	0	TMEM102,synonymous_variant,p.%3D,ENST00000396568,;TMEM102,synonymous_variant,p.%3D,ENST00000323206,;FGF11,upstream_gene_variant,,ENST00000575235,;FGF11,upstream_gene_variant,,ENST00000575082,;FGF11,upstream_gene_variant,,ENST00000293829,;FGF11,upstream_gene_variant,,ENST00000575398,;FGF11,upstream_gene_variant,,ENST00000572907,;RP11-104H15.9,downstream_gene_variant,,ENST00000570444,;RP11-104H15.8,downstream_gene_variant,,ENST00000576615,;RP11-104H15.7,intron_variant,,ENST00000575310,;RP11-104H15.10,upstream_gene_variant,,ENST00000575331,;FGF11,upstream_gene_variant,,ENST00000576328,;	A	ENSG00000181284	ENST00000323206	Transcript	synonymous_variant	807	534	178	E	gaG/gaA	.	.	.	1	TMEM102	HGNC	26722	protein_coding	YES	CCDS11104.1	ENSP00000315387	TM102_HUMAN	.	UPI000000DB5A	.	.	.	3/3	.	hmmpanther:PTHR10656:SF11,hmmpanther:PTHR10656	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGGAGAGCGA	.	5	BLCA
TSEN54	0	.	GRCh37	17	73520479	73520479	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1567G>A	p.Asp523Asn	p.D523N	ENST00000333213	11/11	68	46	22	105	105	0	TSEN54,missense_variant,p.Asp523Asn,ENST00000333213,;TSEN54,3_prime_UTR_variant,,ENST00000545228,;LLGL2,upstream_gene_variant,,ENST00000167462,;LLGL2,upstream_gene_variant,,ENST00000375227,;LLGL2,upstream_gene_variant,,ENST00000580578,;LLGL2,upstream_gene_variant,,ENST00000579392,;LLGL2,upstream_gene_variant,,ENST00000392550,;LLGL2,upstream_gene_variant,,ENST00000578363,;TSEN54,downstream_gene_variant,,ENST00000580013,;TSEN54,non_coding_transcript_exon_variant,,ENST00000579449,;TSEN54,non_coding_transcript_exon_variant,,ENST00000577197,;TSEN54,downstream_gene_variant,,ENST00000583173,;TSEN54,downstream_gene_variant,,ENST00000583818,;TSEN54,downstream_gene_variant,,ENST00000578415,;	A	ENSG00000182173	ENST00000333213	Transcript	missense_variant	1603	1567	523	D/N	Gat/Aat	.	.	.	1	TSEN54	HGNC	27561	protein_coding	YES	CCDS11724.1	ENSP00000327487	SEN54_HUMAN	E7EN92_HUMAN	UPI00001C1FD2	.	deleterious(0.02)	benign(0.079)	11/11	.	hmmpanther:PTHR21027	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGGATGTG	.	5	BLCA
CHRNB1	0	.	GRCh37	17	7360041	7360041	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1505G>A	p.%3D	p.%3D	ENST00000306071	11/11	42	23	18	37	37	0	CHRNB1,stop_retained_variant,p.%3D,ENST00000576360,;CHRNB1,stop_retained_variant,p.%3D,ENST00000536404,;CHRNB1,stop_retained_variant,p.%3D,ENST00000306071,;CHRNB1,stop_retained_variant,p.%3D,ENST00000575379,;CHRNB1,downstream_gene_variant,,ENST00000570557,;ZBTB4,downstream_gene_variant,,ENST00000311403,;ZBTB4,downstream_gene_variant,,ENST00000380599,;CHRNB1,downstream_gene_variant,,ENST00000573209,;	A	ENSG00000170175	ENST00000306071	Transcript	stop_retained_variant	1572	1505	502	*	tGa/tAa	.	.	.	1	CHRNB1	HGNC	1961	protein_coding	YES	CCDS11106.1	ENSP00000304290	ACHB_HUMAN	I3L535_HUMAN,B7Z5H1_HUMAN,B7Z2M6_HUMAN	UPI0000125257	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTGAAGAC	.	5	BLCA
ITGB4	0	.	GRCh37	17	73723841	73723841	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.374C>A	p.Pro125Gln	p.P125Q	ENST00000200181	5/40	37	23	13	59	59	0	ITGB4,missense_variant,p.Pro125Gln,ENST00000579662,;ITGB4,missense_variant,p.Pro125Gln,ENST00000450894,;ITGB4,missense_variant,p.Pro125Gln,ENST00000339591,;ITGB4,missense_variant,p.Pro125Gln,ENST00000449880,;ITGB4,missense_variant,p.Pro125Gln,ENST00000200181,;ITGB4,upstream_gene_variant,,ENST00000582629,;ITGB4,non_coding_transcript_exon_variant,,ENST00000584558,;ITGB4,upstream_gene_variant,,ENST00000584374,;ITGB4,non_coding_transcript_exon_variant,,ENST00000580542,;	A	ENSG00000132470	ENST00000200181	Transcript	missense_variant	561	374	125	P/Q	cCa/cAa	.	.	.	1	ITGB4	HGNC	6158	protein_coding	YES	CCDS11727.1	ENSP00000200181	ITB4_HUMAN	.	UPI00001AE5C0	.	deleterious(0)	probably_damaging(1)	5/40	.	hmmpanther:PTHR10082:SF6,hmmpanther:PTHR10082,Pfam_domain:PF00362,PIRSF_domain:PIRSF002513,SMART_domains:SM00187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGCCACTGG	.	5	BLCA
EVPL	0	.	GRCh37	17	74005257	74005257	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4029G>A	p.%3D	p.K1343K	ENST00000301607	22/22	82	55	27	125	124	1	EVPL,synonymous_variant,p.%3D,ENST00000586740,;EVPL,synonymous_variant,p.%3D,ENST00000301607,;EVPL,upstream_gene_variant,,ENST00000589231,;CDK3,downstream_gene_variant,,ENST00000448471,;CDK3,downstream_gene_variant,,ENST00000425876,;EVPL,non_coding_transcript_exon_variant,,ENST00000587569,;TEN1-CDK3,downstream_gene_variant,,ENST00000567351,;EVPL,downstream_gene_variant,,ENST00000593037,;TEN1-CDK3,downstream_gene_variant,,ENST00000569284,;	T	ENSG00000167880	ENST00000301607	Transcript	synonymous_variant	4283	4029	1343	K	aaG/aaA	.	.	.	-1	EVPL	HGNC	3503	protein_coding	YES	CCDS11737.1	ENSP00000301607	EVPL_HUMAN	K7EQ87_HUMAN	UPI000013E730	.	.	.	22/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23169,hmmpanther:PTHR23169:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCTTCTG	.	5	BLCA
EVPL	0	.	GRCh37	17	74019643	74019643	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>T	p.%3D	p.L97L	ENST00000301607	3/22	32	21	11	45	45	0	EVPL,synonymous_variant,p.%3D,ENST00000586740,;EVPL,synonymous_variant,p.%3D,ENST00000301607,;EVPL,non_coding_transcript_exon_variant,,ENST00000587569,;	A	ENSG00000167880	ENST00000301607	Transcript	synonymous_variant	545	291	97	L	ctC/ctT	.	.	.	-1	EVPL	HGNC	3503	protein_coding	YES	CCDS11737.1	ENSP00000301607	EVPL_HUMAN	K7EQ87_HUMAN	UPI000013E730	.	.	.	3/22	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23169,hmmpanther:PTHR23169:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAGGTC	.	5	BLCA
SRP68	0	.	GRCh37	17	74057230	74057230	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.715G>A	p.Glu239Lys	p.E239K	ENST00000307877	6/16	98	59	39	199	199	0	SRP68,missense_variant,p.Glu239Lys,ENST00000307877,;SRP68,missense_variant,p.Glu138Lys,ENST00000355113,;SRP68,missense_variant,p.Glu201Lys,ENST00000539137,;SRP68,downstream_gene_variant,,ENST00000585539,;SRP68,3_prime_UTR_variant,,ENST00000592704,;SRP68,downstream_gene_variant,,ENST00000591272,;SRP68,downstream_gene_variant,,ENST00000587864,;SRP68,upstream_gene_variant,,ENST00000590833,;	T	ENSG00000167881	ENST00000307877	Transcript	missense_variant	877	715	239	E/K	Gag/Aag	.	.	.	-1	SRP68	HGNC	11302	protein_coding	YES	CCDS11738.1	ENSP00000312066	SRP68_HUMAN	Q96K97_HUMAN,F5H5Y3_HUMAN	UPI000006EAEC	.	deleterious(0)	probably_damaging(0.994)	6/16	.	hmmpanther:PTHR12860,Gene3D:1.25.40.10,PIRSF_domain:PIRSF038995	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCTTCCA	.	5	BLCA
POLR2A	0	.	GRCh37	17	7416557	7416557	+	Silent	SNP	A	A	G	rs530512828	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4974A>G	p.%3D	p.S1658S	ENST00000322644	29/29	37	26	10	37	37	0	POLR2A,synonymous_variant,p.%3D,ENST00000322644,;POLR2A,downstream_gene_variant,,ENST00000576553,;POLR2A,downstream_gene_variant,,ENST00000573603,;	G	ENSG00000181222	ENST00000322644	Transcript	synonymous_variant	5373	4974	1658	S	tcA/tcG	rs530512828	.	.	1	POLR2A	HGNC	9187	protein_coding	YES	CCDS32548.1	ENSP00000314949	RPB1_HUMAN	.	UPI0000140EB9	.	.	.	29/29	.	Low_complexity_(Seg):seg,PROSITE_patterns:PS00115,Pfam_domain:PF05001,Pfam_domain:PF05001,Prints_domain:PR01217	G:0.0004	G:0	G:0	.	G:0	G:0	G:0.002	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACTCACCCAC	byFrequency|byCluster|by1000G	2	BLCA
QRICH2	0	.	GRCh37	17	74274245	74274245	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4444C>T	p.Arg1482Trp	p.R1482W	ENST00000262765	15/19	52	37	15	76	76	0	QRICH2,missense_variant,p.Arg1482Trp,ENST00000262765,;QRICH2,missense_variant,p.Arg130Trp,ENST00000532549,;QRICH2,intron_variant,,ENST00000447564,;QRICH2,3_prime_UTR_variant,,ENST00000524722,;	A	ENSG00000129646	ENST00000262765	Transcript	missense_variant	4624	4444	1482	R/W	Cgg/Tgg	.	.	.	-1	QRICH2	HGNC	25326	protein_coding	YES	CCDS32741.1	ENSP00000262765	QRIC2_HUMAN	.	UPI000006FECD	.	deleterious(0.02)	possibly_damaging(0.448)	15/19	.	hmmpanther:PTHR23343,hmmpanther:PTHR23343:SF78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCGAGGGA	.	5	BLCA
QRICH2	0	.	GRCh37	17	74276791	74276791	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3907G>A	p.Glu1303Lys	p.E1303K	ENST00000262765	10/19	57	42	14	63	63	0	QRICH2,missense_variant,p.Glu311Lys,ENST00000447564,;QRICH2,missense_variant,p.Glu1303Lys,ENST00000262765,;QRICH2,upstream_gene_variant,,ENST00000532549,;QRICH2,3_prime_UTR_variant,,ENST00000524722,;	T	ENSG00000129646	ENST00000262765	Transcript	missense_variant	4087	3907	1303	E/K	Gag/Aag	.	.	.	-1	QRICH2	HGNC	25326	protein_coding	YES	CCDS32741.1	ENSP00000262765	QRIC2_HUMAN	.	UPI000006FECD	.	deleterious(0)	probably_damaging(0.997)	10/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23343,hmmpanther:PTHR23343:SF78	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCAGAC	.	5	BLCA
TNFSF12	0	.	GRCh37	17	7460504	7460504	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.498+285C>T	.	.	ENST00000557233	.	54	31	22	78	78	0	TNFSF12,missense_variant,p.Ser196Leu,ENST00000293825,;TNFSF12-TNFSF13,intron_variant,,ENST00000293826,;TNFSF12,intron_variant,,ENST00000557233,;TNFSF13,upstream_gene_variant,,ENST00000396545,;TNFSF13,upstream_gene_variant,,ENST00000436057,;SENP3,upstream_gene_variant,,ENST00000321337,;TNFSF13,upstream_gene_variant,,ENST00000438470,;TNFSF13,upstream_gene_variant,,ENST00000380535,;TNFSF13,upstream_gene_variant,,ENST00000483039,;TNFSF13,upstream_gene_variant,,ENST00000396542,;TNFSF13,upstream_gene_variant,,ENST00000349228,;TNFSF13,upstream_gene_variant,,ENST00000338784,;TNFSF12,non_coding_transcript_exon_variant,,ENST00000462619,;TNFSF12,non_coding_transcript_exon_variant,,ENST00000462811,;SENP3,upstream_gene_variant,,ENST00000578868,;TNFSF12,3_prime_UTR_variant,,ENST00000322272,;	T	ENSG00000239697	ENST00000557233	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	TNFSF12	HGNC	11927	protein_coding	YES	CCDS11108.1	ENSP00000451451	TNF12_HUMAN	Q6U6I7_HUMAN,K7EJ28_HUMAN	UPI00000740F1	.	.	.	.	6/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCAGCCA	.	5	BLCA
METTL23	0	.	GRCh37	17	74729144	74729144	+	Missense_Mutation	SNP	C	C	T	rs148873333	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169C>T	p.His57Tyr	p.H57Y	ENST00000341249	3/5	13	9	4	20	20	0	METTL23,missense_variant,p.His57Tyr,ENST00000588783,;METTL23,missense_variant,p.His57Tyr,ENST00000588563,;METTL23,missense_variant,p.His57Tyr,ENST00000586738,;RP11-318A15.7,missense_variant,p.His29Tyr,ENST00000587459,;METTL23,missense_variant,p.His57Tyr,ENST00000592849,;METTL23,missense_variant,p.His57Tyr,ENST00000341249,;METTL23,missense_variant,p.His57Tyr,ENST00000589977,;METTL23,5_prime_UTR_variant,,ENST00000590964,;METTL23,5_prime_UTR_variant,,ENST00000588822,;METTL23,5_prime_UTR_variant,,ENST00000591571,;METTL23,5_prime_UTR_variant,,ENST00000588302,;METTL23,5_prime_UTR_variant,,ENST00000588964,;METTL23,5_prime_UTR_variant,,ENST00000586752,;METTL23,intron_variant,,ENST00000586200,;SRSF2,downstream_gene_variant,,ENST00000392485,;MFSD11,upstream_gene_variant,,ENST00000336509,;MFSD11,upstream_gene_variant,,ENST00000586622,;SRSF2,downstream_gene_variant,,ENST00000508921,;MFSD11,upstream_gene_variant,,ENST00000588460,;SRSF2,downstream_gene_variant,,ENST00000358156,;SRSF2,downstream_gene_variant,,ENST00000583836,;MFSD11,upstream_gene_variant,,ENST00000593181,;MFSD11,upstream_gene_variant,,ENST00000591864,;MFSD11,upstream_gene_variant,,ENST00000587661,;MFSD11,upstream_gene_variant,,ENST00000355954,;MFSD11,upstream_gene_variant,,ENST00000586689,;MFSD11,upstream_gene_variant,,ENST00000590393,;SRSF2,downstream_gene_variant,,ENST00000359995,;MIR636,downstream_gene_variant,,ENST00000384825,;METTL23,non_coding_transcript_exon_variant,,ENST00000589581,;SRSF2,downstream_gene_variant,,ENST00000589919,;SRSF2,downstream_gene_variant,,ENST00000582449,;SRSF2,downstream_gene_variant,,ENST00000592676,;SRSF2,downstream_gene_variant,,ENST00000585202,;SRSF2,downstream_gene_variant,,ENST00000586778,;SRSF2,downstream_gene_variant,,ENST00000452355,;	T	ENSG00000181038	ENST00000341249	Transcript	missense_variant	501	169	57	H/Y	Cac/Tac	rs148873333	.	.	1	METTL23	HGNC	26988	protein_coding	YES	CCDS45787.1	ENSP00000341543	MET23_HUMAN	K7EPT5_HUMAN,K7EPR8_HUMAN,K7ENU9_HUMAN,K7EL83_HUMAN,K7EK32_HUMAN,H9ZYJ0_HUMAN	UPI000016111D	.	tolerated(0.06)	benign(0.005)	3/5	.	hmmpanther:PTHR14614:SF2,hmmpanther:PTHR14614,Pfam_domain:PF10294,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	G:0.0002	G:0	G:0	.	G:0	G:0.001	G:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCTCACTGT	by1000G	3	BLCA
RP11-318A15.7	0	.	GRCh37	17	74734388	74734388	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.263G>A	p.Gly88Glu	p.G88E	ENST00000587459	2/2	26	17	9	33	33	0	RP11-318A15.7,missense_variant,p.Gly88Glu,ENST00000587459,;MFSD11,5_prime_UTR_variant,,ENST00000336509,;MFSD11,5_prime_UTR_variant,,ENST00000586622,;MFSD11,5_prime_UTR_variant,,ENST00000588460,;MFSD11,5_prime_UTR_variant,,ENST00000590514,;MFSD11,5_prime_UTR_variant,,ENST00000593181,;MFSD11,5_prime_UTR_variant,,ENST00000591864,;MFSD11,5_prime_UTR_variant,,ENST00000587661,;MFSD11,5_prime_UTR_variant,,ENST00000355954,;MFSD11,5_prime_UTR_variant,,ENST00000586689,;MFSD11,5_prime_UTR_variant,,ENST00000590393,;SRSF2,upstream_gene_variant,,ENST00000392485,;SRSF2,upstream_gene_variant,,ENST00000508921,;METTL23,downstream_gene_variant,,ENST00000590964,;METTL23,downstream_gene_variant,,ENST00000588783,;METTL23,downstream_gene_variant,,ENST00000586200,;METTL23,downstream_gene_variant,,ENST00000588563,;METTL23,downstream_gene_variant,,ENST00000586738,;METTL23,downstream_gene_variant,,ENST00000588822,;SRSF2,upstream_gene_variant,,ENST00000358156,;SRSF2,upstream_gene_variant,,ENST00000583836,;METTL23,downstream_gene_variant,,ENST00000591571,;METTL23,downstream_gene_variant,,ENST00000588302,;METTL23,downstream_gene_variant,,ENST00000592849,;METTL23,downstream_gene_variant,,ENST00000588964,;METTL23,downstream_gene_variant,,ENST00000586752,;SRSF2,upstream_gene_variant,,ENST00000359995,;METTL23,downstream_gene_variant,,ENST00000341249,;METTL23,downstream_gene_variant,,ENST00000589977,;MIR636,upstream_gene_variant,,ENST00000384825,;MFSD11,5_prime_UTR_variant,,ENST00000588031,;MFSD11,5_prime_UTR_variant,,ENST00000588670,;SRSF2,upstream_gene_variant,,ENST00000589919,;SRSF2,upstream_gene_variant,,ENST00000582449,;MFSD11,upstream_gene_variant,,ENST00000588768,;SRSF2,upstream_gene_variant,,ENST00000592676,;SRSF2,upstream_gene_variant,,ENST00000585202,;METTL23,downstream_gene_variant,,ENST00000589581,;SRSF2,upstream_gene_variant,,ENST00000586778,;MFSD11,upstream_gene_variant,,ENST00000585584,;SRSF2,upstream_gene_variant,,ENST00000452355,;	A	ENSG00000267168	ENST00000587459	Transcript	missense_variant	263	263	88	G/E	gGa/gAa	.	.	.	1	RP11-318A15.7	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000466829	.	K7EN84_HUMAN	UPI0002841198	.	tolerated_low_confidence(0.11)	benign(0.258)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAGGAGAGC	.	5	BLCA
USP36	0	.	GRCh37	17	76794544	76794544	+	Silent	SNP	C	C	T	rs752003990	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3330G>A	p.%3D	p.V1110V	ENST00000542802	20/21	58	42	16	82	82	0	USP36,synonymous_variant,p.%3D,ENST00000449938,;USP36,synonymous_variant,p.%3D,ENST00000542802,;USP36,synonymous_variant,p.%3D,ENST00000592231,;USP36,synonymous_variant,p.%3D,ENST00000312010,;USP36,synonymous_variant,p.%3D,ENST00000588130,;USP36,upstream_gene_variant,,ENST00000592326,;USP36,synonymous_variant,p.%3D,ENST00000589225,;USP36,synonymous_variant,p.%3D,ENST00000587010,;USP36,synonymous_variant,p.%3D,ENST00000587379,;USP36,upstream_gene_variant,,ENST00000591052,;USP36,downstream_gene_variant,,ENST00000588086,;	T	ENSG00000055483	ENST00000542802	Transcript	synonymous_variant	3774	3330	1110	V	gtG/gtA	rs752003990	.	.	-1	USP36	HGNC	20062	protein_coding	YES	CCDS32755.1	ENSP00000441214	UBP36_HUMAN	K7ERC1_HUMAN,K7EQS0_HUMAN,K7EPT1_HUMAN,K7ELT3_HUMAN,K7EJI3_HUMAN	UPI00000398BB	.	.	.	20/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGTCACAGA	.	5	BLCA
ENGASE	0	.	GRCh37	17	77077004	77077004	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724-3C>T	.	.	ENST00000579016	.	40	30	10	48	48	0	ENGASE,splice_region_variant,,ENST00000579016,;ENGASE,splice_region_variant,,ENST00000311595,;ENGASE,splice_region_variant,,ENST00000539857,;ENGASE,upstream_gene_variant,,ENST00000585160,;ENGASE,upstream_gene_variant,,ENST00000584568,;ENGASE,splice_region_variant,,ENST00000578419,;ENGASE,splice_region_variant,,ENST00000300682,;ENGASE,upstream_gene_variant,,ENST00000579809,;ENGASE,upstream_gene_variant,,ENST00000583041,;ENGASE,upstream_gene_variant,,ENST00000577783,;ENGASE,upstream_gene_variant,,ENST00000583646,;	T	ENSG00000167280	ENST00000579016	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ENGASE	HGNC	24622	protein_coding	YES	CCDS42394.1	ENSP00000462333	ENASE_HUMAN	.	UPI000006CF27	.	.	.	.	5/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGCTG	.	4	BLCA
ENGASE	0	.	GRCh37	17	77082025	77082042	+	In_Frame_Del	DEL	CTGCCAGCCTGCTGGCCC	CTGCCAGCCTGCTGGCCC	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	CTGCCAGCCTGCTGGCCC	CTGCCAGCCTGCTGGCCC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1828_1845delGCCAGCCTGCTGGCCCCT	p.Ala610_Pro615del	p.A610_P615del	ENST00000579016	14/14	43	36	7	41	41	0	ENGASE,inframe_deletion,p.Ala610_Pro615del,ENST00000579016,;RBFOX3,downstream_gene_variant,,ENST00000415831,;ENGASE,downstream_gene_variant,,ENST00000311595,;RBFOX3,downstream_gene_variant,,ENST00000582043,;RBFOX3,downstream_gene_variant,,ENST00000583458,;RBFOX3,downstream_gene_variant,,ENST00000453134,;RBFOX3,downstream_gene_variant,,ENST00000580155,;ENGASE,downstream_gene_variant,,ENST00000539857,;ENGASE,downstream_gene_variant,,ENST00000585160,;ENGASE,downstream_gene_variant,,ENST00000584568,;ENGASE,3_prime_UTR_variant,,ENST00000300682,;ENGASE,non_coding_transcript_exon_variant,,ENST00000579809,;RBFOX3,downstream_gene_variant,,ENST00000581393,;ENGASE,downstream_gene_variant,,ENST00000583041,;ENGASE,downstream_gene_variant,,ENST00000578419,;ENGASE,downstream_gene_variant,,ENST00000577783,;RBFOX3,downstream_gene_variant,,ENST00000578998,;ENGASE,downstream_gene_variant,,ENST00000583646,;	-	ENSG00000167280	ENST00000579016	Transcript	inframe_deletion	1826-1843	1826-1843	609-615	AASLLAP/A	gCTGCCAGCCTGCTGGCCCct/gct	.	.	.	1	ENGASE	HGNC	24622	protein_coding	YES	CCDS42394.1	ENSP00000462333	ENASE_HUMAN	.	UPI000006CF27	.	.	.	14/14	.	hmmpanther:PTHR13246:SF0,hmmpanther:PTHR13246	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	TGGACGCTGCCAGCCTGCTGGCCCCTCTG	.	2	BLCA
ENGASE	0	.	GRCh37	17	77082219	77082219	+	Missense_Mutation	SNP	C	C	T	rs376807981	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2020C>T	p.Pro674Ser	p.P674S	ENST00000579016	14/14	33	17	16	44	44	0	ENGASE,missense_variant,p.Pro674Ser,ENST00000579016,;RBFOX3,downstream_gene_variant,,ENST00000415831,;ENGASE,downstream_gene_variant,,ENST00000311595,;RBFOX3,downstream_gene_variant,,ENST00000582043,;RBFOX3,downstream_gene_variant,,ENST00000583458,;RBFOX3,downstream_gene_variant,,ENST00000453134,;RBFOX3,downstream_gene_variant,,ENST00000580155,;ENGASE,downstream_gene_variant,,ENST00000539857,;ENGASE,downstream_gene_variant,,ENST00000585160,;ENGASE,downstream_gene_variant,,ENST00000584568,;ENGASE,3_prime_UTR_variant,,ENST00000300682,;ENGASE,non_coding_transcript_exon_variant,,ENST00000579809,;RBFOX3,downstream_gene_variant,,ENST00000581393,;ENGASE,downstream_gene_variant,,ENST00000583041,;ENGASE,downstream_gene_variant,,ENST00000578419,;ENGASE,downstream_gene_variant,,ENST00000577783,;RBFOX3,downstream_gene_variant,,ENST00000578998,;ENGASE,downstream_gene_variant,,ENST00000583646,;	T	ENSG00000167280	ENST00000579016	Transcript	missense_variant	2020	2020	674	P/S	Ccg/Tcg	rs376807981	.	.	1	ENGASE	HGNC	24622	protein_coding	YES	CCDS42394.1	ENSP00000462333	ENASE_HUMAN	.	UPI000006CF27	.	tolerated(0.12)	benign(0.004)	14/14	.	hmmpanther:PTHR13246:SF0,hmmpanther:PTHR13246	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCCGGGC	byCluster	5	BLCA
KDM6B	0	.	GRCh37	17	7752197	7752197	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2591C>T	p.Ser864Phe	p.S864F	ENST00000254846	11/22	35	22	12	53	53	0	KDM6B,missense_variant,p.Ser864Phe,ENST00000448097,;KDM6B,missense_variant,p.Ser864Phe,ENST00000254846,;KDM6B,downstream_gene_variant,,ENST00000570632,;KDM6B,downstream_gene_variant,,ENST00000575521,;KDM6B,downstream_gene_variant,,ENST00000571047,;	T	ENSG00000132510	ENST00000254846	Transcript	missense_variant	2980	2591	864	S/F	tCt/tTt	.	.	.	1	KDM6B	HGNC	29012	protein_coding	YES	CCDS32552.1	ENSP00000254846	KDM6B_HUMAN	D3DTQ7_HUMAN	UPI00006C175B	.	.	possibly_damaging(0.683)	11/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14017,hmmpanther:PTHR14017:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCTGCTT	.	5	BLCA
CARD14	0	.	GRCh37	17	78165203	78165203	+	Missense_Mutation	SNP	G	G	A	rs369150206	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1171G>A	p.Glu391Lys	p.E391K	ENST00000573882	10/23	64	45	18	65	65	0	CARD14,missense_variant,p.Glu154Lys,ENST00000392434,;CARD14,missense_variant,p.Glu391Lys,ENST00000570421,;CARD14,missense_variant,p.Glu391Lys,ENST00000573882,;CARD14,missense_variant,p.Glu391Lys,ENST00000344227,;CARD14,non_coding_transcript_exon_variant,,ENST00000573754,;CARD14,upstream_gene_variant,,ENST00000574148,;CARD14,missense_variant,p.Arg368Gln,ENST00000575500,;CARD14,missense_variant,p.Glu188Lys,ENST00000571450,;CARD14,non_coding_transcript_exon_variant,,ENST00000571861,;CARD14,downstream_gene_variant,,ENST00000572838,;CARD14,upstream_gene_variant,,ENST00000575666,;	A	ENSG00000141527	ENST00000573882	Transcript	missense_variant	1707	1171	391	E/K	Gag/Aag	rs369150206	.	.	1	CARD14	HGNC	16446	protein_coding	YES	CCDS11768.1	ENSP00000458715	CAR14_HUMAN	I3L4Q8_HUMAN,I3L1Z7_HUMAN	UPI000013D81B	.	deleterious(0)	possibly_damaging(0.856)	10/23	.	hmmpanther:PTHR14559,hmmpanther:PTHR14559:SF1	A:0.0002	A:0	A:0	.	A:0	A:0	A:0.001	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTCGAGCTG	byCluster|by1000G	5	BLCA
RNF213	0	.	GRCh37	17	78332248	78332248	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11023C>T	p.%3D	p.L3675L	ENST00000582970	37/68	43	29	13	66	66	0	RNF213,synonymous_variant,p.%3D,ENST00000336301,;RNF213,synonymous_variant,p.%3D,ENST00000582970,;RNF213,synonymous_variant,p.%3D,ENST00000508628,;CTD-2047H16.4,intron_variant,,ENST00000572151,;CTD-2047H16.4,intron_variant,,ENST00000575034,;RNF213,non_coding_transcript_exon_variant,,ENST00000560694,;RNF213,non_coding_transcript_exon_variant,,ENST00000558116,;RNF213,upstream_gene_variant,,ENST00000558488,;	T	ENSG00000173821	ENST00000582970	Transcript	synonymous_variant	11166	11023	3675	L	Ctg/Ttg	.	.	.	1	RNF213	HGNC	14539	protein_coding	YES	CCDS58606.1	ENSP00000464087	RN213_HUMAN	H3BLU6_HUMAN	UPI0001D3BDB1	.	.	.	37/68	.	hmmpanther:PTHR22605,hmmpanther:PTHR22605:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCTGAAC	.	5	BLCA
RPTOR	0	.	GRCh37	17	78820340	78820340	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280G>A	p.Arg427Gln	p.R427Q	ENST00000306801	11/34	54	42	12	54	54	0	RPTOR,missense_variant,p.Arg242Gln,ENST00000537330,;RPTOR,missense_variant,p.Arg427Gln,ENST00000544334,;RPTOR,missense_variant,p.Arg427Gln,ENST00000306801,;RPTOR,non_coding_transcript_exon_variant,,ENST00000575542,;RPTOR,non_coding_transcript_exon_variant,,ENST00000577161,;RPTOR,3_prime_UTR_variant,,ENST00000574767,;	A	ENSG00000141564	ENST00000306801	Transcript	missense_variant	1642	1280	427	R/Q	cGa/cAa	.	.	.	1	RPTOR	HGNC	30287	protein_coding	YES	CCDS11773.1	ENSP00000307272	RPTOR_HUMAN	Q6DKI0_HUMAN	UPI000007000F	.	deleterious(0.01)	benign(0.241)	11/34	.	hmmpanther:PTHR12848,Superfamily_domains:SSF48371,Prints_domain:PR01547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G423G|c.1269C>T|3,BUFFER|p.G238G|c.714C>T|3	RADIA|MUTECT|MUSE	GAACCGAAACC	.	3	BLCA
GUCY2D	0	.	GRCh37	17	7907398	7907398	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.950C>T	p.Ser317Phe	p.S317F	ENST00000254854	3/20	38	23	15	51	51	0	GUCY2D,missense_variant,p.Ser317Phe,ENST00000254854,;	T	ENSG00000132518	ENST00000254854	Transcript	missense_variant	1100	950	317	S/F	tCt/tTt	.	.	.	1	GUCY2D	HGNC	4689	protein_coding	YES	CCDS11127.1	ENSP00000254854	GUC2D_HUMAN	.	UPI0000128C1C	.	tolerated(0.06)	benign(0.232)	3/20	.	hmmpanther:PTHR11920:SF228,hmmpanther:PTHR11920,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCTGAAG	.	5	BLCA
SLC38A10	0	.	GRCh37	17	79219529	79219529	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3187C>T	p.Gln1063Ter	p.Q1063*	ENST00000374759	16/16	30	20	9	28	28	0	SLC38A10,stop_gained,p.Gln1063Ter,ENST00000374759,;SLC38A10,downstream_gene_variant,,ENST00000576151,;SLC38A10,downstream_gene_variant,,ENST00000540966,;C17orf89,downstream_gene_variant,,ENST00000431388,;C17orf89,downstream_gene_variant,,ENST00000576002,;C17orf89,downstream_gene_variant,,ENST00000573173,;SLC38A10,non_coding_transcript_exon_variant,,ENST00000539643,;SLC38A10,downstream_gene_variant,,ENST00000542075,;C17orf89,downstream_gene_variant,,ENST00000577158,;C17orf89,downstream_gene_variant,,ENST00000573090,;	A	ENSG00000157637	ENST00000374759	Transcript	stop_gained	3571	3187	1063	Q/*	Cag/Tag	.	.	.	-1	SLC38A10	HGNC	28237	protein_coding	YES	CCDS42397.1	ENSP00000363891	S38AA_HUMAN	F5H3T4_HUMAN	UPI000066DA6A	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGACCCT	.	5	BLCA
ACTG1	0	.	GRCh37	17	79478429	79478429	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.587G>A	p.Arg196Gln	p.R196Q	ENST00000575842	3/5	63	36	27	95	95	0	ACTG1,missense_variant,p.Arg196Gln,ENST00000575994,;ACTG1,missense_variant,p.Arg196Gln,ENST00000575842,;ACTG1,missense_variant,p.Arg187Gln,ENST00000571691,;ACTG1,missense_variant,p.Arg196Gln,ENST00000573283,;ACTG1,missense_variant,p.Arg196Gln,ENST00000331925,;ACTG1,missense_variant,p.Arg196Gln,ENST00000575087,;ACTG1,missense_variant,p.Arg196Gln,ENST00000575659,;ACTG1,downstream_gene_variant,,ENST00000571721,;ACTG1,downstream_gene_variant,,ENST00000570382,;AC139149.1,upstream_gene_variant,,ENST00000584254,;RP13-766D20.2,upstream_gene_variant,,ENST00000430912,;ACTG1,missense_variant,p.Arg196Gln,ENST00000576544,;ACTG1,3_prime_UTR_variant,,ENST00000572105,;ACTG1,non_coding_transcript_exon_variant,,ENST00000576214,;ACTG1,non_coding_transcript_exon_variant,,ENST00000576209,;ACTG1,non_coding_transcript_exon_variant,,ENST00000576917,;ACTG1,non_coding_transcript_exon_variant,,ENST00000574671,;RP13-766D20.1,upstream_gene_variant,,ENST00000448147,;	T	ENSG00000184009	ENST00000575842	Transcript	missense_variant	1014	587	196	R/Q	cGa/cAa	.	.	.	-1	ACTG1	HGNC	144	protein_coding	YES	CCDS11782.1	ENSP00000458162	ACTG_HUMAN	Q9UE89_HUMAN,Q96FU6_HUMAN,Q96DE1_HUMAN,Q6PJ43_HUMAN,Q562Z7_HUMAN,I3L3R2_HUMAN,I3L3I0_HUMAN,I3L1U9_HUMAN,B4E3A4_HUMAN,B3KWQ3_HUMAN,A5GZ75_HUMAN,A4UCT3_HUMAN,A1E282_HUMAN	UPI0000000C38	.	deleterious_low_confidence(0.01)	benign(0.079)	3/5	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF187,Pfam_domain:PF00022,Gene3D:3.90.640.10,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGCTCA	.	5	BLCA
HGS	0	.	GRCh37	17	79660731	79660731	+	Silent	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.789G>C	p.%3D	p.L263L	ENST00000329138	10/22	8	4	4	9	9	0	HGS,synonymous_variant,p.%3D,ENST00000329138,;HGS,synonymous_variant,p.%3D,ENST00000572392,;HGS,downstream_gene_variant,,ENST00000571518,;HGS,upstream_gene_variant,,ENST00000571237,;HGS,downstream_gene_variant,,ENST00000577012,;HGS,non_coding_transcript_exon_variant,,ENST00000575058,;HGS,upstream_gene_variant,,ENST00000573949,;HGS,downstream_gene_variant,,ENST00000576498,;HGS,upstream_gene_variant,,ENST00000571885,;HGS,downstream_gene_variant,,ENST00000573080,;HGS,downstream_gene_variant,,ENST00000576087,;HGS,downstream_gene_variant,,ENST00000576393,;HGS,upstream_gene_variant,,ENST00000571647,;HGS,upstream_gene_variant,,ENST00000570355,;	C	ENSG00000185359	ENST00000329138	Transcript	synonymous_variant	924	789	263	L	ctG/ctC	.	.	.	1	HGS	HGNC	4897	protein_coding	YES	CCDS11784.1	ENSP00000331201	HGS_HUMAN	I3L2H4_HUMAN,I3L165_HUMAN	UPI000004493D	.	.	.	10/22	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50330,hmmpanther:PTHR13856,hmmpanther:PTHR13856:SF79,PIRSF_domain:PIRSF036956	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCTGCAGCT	.	2	BLCA
TMEM107	0	.	GRCh37	17	8076888	8076888	+	3'Flank	SNP	G	G	A	rs374791151	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000316425	.	30	23	7	37	37	0	TMEM107,3_prime_UTR_variant,,ENST00000449985,;TMEM107,downstream_gene_variant,,ENST00000316425,;TMEM107,downstream_gene_variant,,ENST00000431792,;TMEM107,downstream_gene_variant,,ENST00000533070,;TMEM107,downstream_gene_variant,,ENST00000532998,;TMEM107,downstream_gene_variant,,ENST00000437139,;SNORD118,non_coding_transcript_exon_variant,,ENST00000363593,;RP11-599B13.7,upstream_gene_variant,,ENST00000581248,;TMEM107,downstream_gene_variant,,ENST00000417073,;TMEM107,downstream_gene_variant,,ENST00000526920,;TMEM107,downstream_gene_variant,,ENST00000529756,;	A	ENSG00000179029	ENST00000316425	Transcript	downstream_gene_variant	.	.	.	.	.	rs374791151	.	431	-1	TMEM107	HGNC	28128	protein_coding	YES	CCDS11132.1	ENSP00000314116	TM107_HUMAN	.	UPI00001BBB36	.	.	.	.	.	.	.	.	.	.	.	.	.	A:0	A:0.0005	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAAGGATTAT	byFrequency|byCluster	5	BLCA
PFAS	0	.	GRCh37	17	8157370	8157370	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115G>A	p.Glu39Lys	p.E39K	ENST00000314666	2/28	62	47	15	78	78	0	PFAS,missense_variant,p.Glu39Lys,ENST00000314666,;PFAS,missense_variant,p.Glu39Lys,ENST00000585183,;PFAS,missense_variant,p.Glu39Lys,ENST00000581242,;PFAS,missense_variant,p.Glu39Lys,ENST00000584044,;PFAS,5_prime_UTR_variant,,ENST00000545834,;PFAS,missense_variant,p.Glu39Lys,ENST00000580356,;	A	ENSG00000178921	ENST00000314666	Transcript	missense_variant	248	115	39	E/K	Gaa/Aaa	.	.	.	1	PFAS	HGNC	8863	protein_coding	YES	CCDS11136.1	ENSP00000313490	PUR4_HUMAN	Q9BR56_HUMAN,Q6P4B4_HUMAN,J3QSH6_HUMAN,J3QL39_HUMAN,J3KTL4_HUMAN,F5GWT9_HUMAN	UPI00001A95E5	.	deleterious(0)	probably_damaging(1)	2/28	.	Superfamily_domains:SSF82697,TIGRFAM_domain:TIGR01735,hmmpanther:PTHR10099:SF1,hmmpanther:PTHR10099	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTGAACTG	.	5	BLCA
ARHGEF15	0	.	GRCh37	17	8219200	8219200	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1549C>T	p.Gln517Ter	p.Q517*	ENST00000361926	8/16	34	13	21	53	53	0	ARHGEF15,stop_gained,p.Gln517Ter,ENST00000421050,;ARHGEF15,stop_gained,p.Gln517Ter,ENST00000361926,;ARHGEF15,downstream_gene_variant,,ENST00000583529,;ARHGEF15,downstream_gene_variant,,ENST00000579439,;AC135178.7,downstream_gene_variant,,ENST00000458568,;ARHGEF15,upstream_gene_variant,,ENST00000582060,;ARHGEF15,downstream_gene_variant,,ENST00000581809,;ARHGEF15,downstream_gene_variant,,ENST00000578286,;ARHGEF15,downstream_gene_variant,,ENST00000455564,;	T	ENSG00000198844	ENST00000361926	Transcript	stop_gained	1659	1549	517	Q/*	Cag/Tag	.	.	.	1	ARHGEF15	HGNC	15590	protein_coding	YES	CCDS11139.1	ENSP00000355026	ARHGF_HUMAN	J3QS60_HUMAN,J3KT46_HUMAN	UPI000013D2C0	.	.	.	8/16	.	Superfamily_domains:SSF48065,SMART_domains:SM00325,Gene3D:1.20.900.10,Pfam_domain:PF00621,hmmpanther:PTHR12845,hmmpanther:PTHR12845:SF7,PROSITE_profiles:PS50010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTATCAGGAG	.	5	BLCA
KRBA2	0	.	GRCh37	17	8273318	8273318	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Gly205Arg	p.G205R	ENST00000331336	2/2	129	86	43	160	160	0	KRBA2,missense_variant,p.Gly205Arg,ENST00000331336,;KRBA2,missense_variant,p.Gly123Arg,ENST00000396267,;RP11-849F2.5,intron_variant,,ENST00000580537,;RP11-849F2.5,intron_variant,,ENST00000583963,;RP11-849F2.7,3_prime_UTR_variant,,ENST00000582471,;	T	ENSG00000184619	ENST00000331336	Transcript	missense_variant	619	613	205	G/R	Gga/Aga	.	.	.	-1	KRBA2	HGNC	26989	protein_coding	YES	CCDS11141.1	ENSP00000328017	KRBA2_HUMAN	A8MX02_HUMAN	UPI000023766D	.	deleterious(0.03)	possibly_damaging(0.697)	2/2	.	hmmpanther:PTHR24559:SF163,hmmpanther:PTHR24559	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTCCAATAC	.	5	BLCA
KRBA2	0	.	GRCh37	17	8273399	8273399	+	Missense_Mutation	SNP	G	G	A	rs773828886	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.532C>T	p.His178Tyr	p.H178Y	ENST00000331336	2/2	134	82	52	188	188	0	KRBA2,missense_variant,p.His178Tyr,ENST00000331336,;KRBA2,missense_variant,p.His96Tyr,ENST00000396267,;RP11-849F2.5,intron_variant,,ENST00000580537,;RP11-849F2.5,intron_variant,,ENST00000583963,;RP11-849F2.7,3_prime_UTR_variant,,ENST00000582471,;	A	ENSG00000184619	ENST00000331336	Transcript	missense_variant	538	532	178	H/Y	Cat/Tat	rs773828886	.	.	-1	KRBA2	HGNC	26989	protein_coding	YES	CCDS11141.1	ENSP00000328017	KRBA2_HUMAN	A8MX02_HUMAN	UPI000023766D	.	deleterious(0.01)	possibly_damaging(0.827)	2/2	.	hmmpanther:PTHR24559:SF163,hmmpanther:PTHR24559	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATGAGTAG	.	5	BLCA
KRBA2	0	.	GRCh37	17	8273673	8273673	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.258G>A	p.%3D	p.Q86Q	ENST00000331336	2/2	62	42	20	65	65	0	KRBA2,synonymous_variant,p.%3D,ENST00000331336,;KRBA2,synonymous_variant,p.%3D,ENST00000396267,;RP11-849F2.5,intron_variant,,ENST00000580537,;RP11-849F2.5,intron_variant,,ENST00000583963,;RP11-849F2.7,3_prime_UTR_variant,,ENST00000582471,;	T	ENSG00000184619	ENST00000331336	Transcript	synonymous_variant	264	258	86	Q	caG/caA	.	.	.	-1	KRBA2	HGNC	26989	protein_coding	YES	CCDS11141.1	ENSP00000328017	KRBA2_HUMAN	A8MX02_HUMAN	UPI000023766D	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCTGAGG	.	5	BLCA
MYH10	0	.	GRCh37	17	8383586	8383586	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5439G>A	p.%3D	p.K1813K	ENST00000360416	40/43	57	37	19	113	113	0	MYH10,synonymous_variant,p.%3D,ENST00000396239,;MYH10,synonymous_variant,p.%3D,ENST00000269243,;MYH10,synonymous_variant,p.%3D,ENST00000379980,;MYH10,synonymous_variant,p.%3D,ENST00000360416,;NDEL1,intron_variant,,ENST00000299734,;NDEL1,intron_variant,,ENST00000581679,;MYH10,non_coding_transcript_exon_variant,,ENST00000476737,;	T	ENSG00000133026	ENST00000360416	Transcript	synonymous_variant	5578	5439	1813	K	aaG/aaA	.	.	.	-1	MYH10	HGNC	7568	protein_coding	YES	CCDS58515.1	ENSP00000353590	MYH10_HUMAN	Q9UMG3_HUMAN,Q9UE82_HUMAN,Q9BWG0_HUMAN,G1UI33_HUMAN,E7ERA5_HUMAN,D3DTS1_HUMAN	UPI0000E24926	.	.	.	40/43	.	Pfam_domain:PF01576,hmmpanther:PTHR13140:SF328,hmmpanther:PTHR13140,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCTTCTG	.	5	BLCA
PIK3R6	0	.	GRCh37	17	8738654	8738654	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.581C>T	p.Ser194Phe	p.S194F	ENST00000311434	8/21	14	10	4	21	21	0	PIK3R6,missense_variant,p.Ser194Phe,ENST00000311434,;PIK3R6,non_coding_transcript_exon_variant,,ENST00000434064,;PIK3R6,3_prime_UTR_variant,,ENST00000452122,;PIK3R6,3_prime_UTR_variant,,ENST00000583984,;	A	ENSG00000174083	ENST00000311434	Transcript	missense_variant	821	581	194	S/F	tCc/tTc	.	.	.	-1	PIK3R6	HGNC	27101	protein_coding	YES	.	ENSP00000475670	PI3R6_HUMAN	U3KQ99_HUMAN	UPI00015DFB1F	.	tolerated(0.33)	possibly_damaging(0.882)	8/21	.	hmmpanther:PTHR15593,hmmpanther:PTHR15593:SF1,Pfam_domain:PF10486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGGGAGACC	.	5	BLCA
PIEZO2	0	.	GRCh37	18	10697863	10697863	+	Missense_Mutation	SNP	C	C	T	rs764616937	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6371G>A	p.Arg2124Gln	p.R2124Q	ENST00000503781	41/52	28	14	13	58	58	0	PIEZO2,missense_variant,p.Arg2149Gln,ENST00000580640,;PIEZO2,missense_variant,p.Arg2124Gln,ENST00000503781,;PIEZO2,missense_variant,p.Arg81Gln,ENST00000538948,;PIEZO2,missense_variant,p.Arg2124Gln,ENST00000302079,;PIEZO2,5_prime_UTR_variant,,ENST00000285141,;PIEZO2,3_prime_UTR_variant,,ENST00000582913,;	T	ENSG00000154864	ENST00000503781	Transcript	missense_variant	6371	6371	2124	R/Q	cGa/cAa	rs764616937,COSM2883287	.	.	-1	PIEZO2	HGNC	26270	protein_coding	YES	.	ENSP00000421377	PIEZ2_HUMAN	J3KSM7_HUMAN	UPI0001B3CB29	.	tolerated(0.08)	benign(0.01)	41/52	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13167,hmmpanther:PTHR13167:SF24	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCGGGTG	byFrequency	5	BLCA
TUBB6	0	.	GRCh37	18	12308792	12308792	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164C>T	p.Ser55Leu	p.S55L	ENST00000317702	2/4	21	11	10	45	45	0	TUBB6,missense_variant,p.Ser55Leu,ENST00000592683,;TUBB6,missense_variant,p.Ser55Leu,ENST00000586653,;TUBB6,missense_variant,p.Ser55Leu,ENST00000590967,;TUBB6,missense_variant,p.Ser55Leu,ENST00000591208,;TUBB6,missense_variant,p.Ser55Leu,ENST00000590103,;TUBB6,missense_variant,p.Ser55Leu,ENST00000590693,;TUBB6,missense_variant,p.Ser55Leu,ENST00000591909,;TUBB6,missense_variant,p.Ser55Leu,ENST00000317702,;TUBB6,intron_variant,,ENST00000591463,;TUBB6,upstream_gene_variant,,ENST00000586691,;RNU6-170P,upstream_gene_variant,,ENST00000362832,;TUBB6,missense_variant,p.Ser55Leu,ENST00000586810,;TUBB6,missense_variant,p.Ser55Leu,ENST00000590388,;TUBB6,splice_region_variant,,ENST00000417736,;TUBB6,splice_region_variant,,ENST00000587204,;	T	ENSG00000176014	ENST00000317702	Transcript	missense_variant	398	164	55	S/L	tCg/tTg	.	.	.	1	TUBB6	HGNC	20776	protein_coding	YES	CCDS11858.1	ENSP00000318697	TBB6_HUMAN	K7ES63_HUMAN,K7EL29_HUMAN,B4E386_HUMAN,B3KS31_HUMAN	UPI0000072BFF	.	deleterious_low_confidence(0.05)	benign(0.007)	2/4	.	Prints_domain:PR01161,Prints_domain:PR01163,Superfamily_domains:SSF52490,SMART_domains:SM00864,Pfam_domain:PF00091,Gene3D:3.40.50.1440,hmmpanther:PTHR11588:SF88,hmmpanther:PTHR11588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTCATCGTGTG	.	4	BLCA
MIB1	0	.	GRCh37	18	19348694	19348694	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.512G>A	p.Gly171Glu	p.G171E	ENST00000261537	3/21	15	8	6	14	14	0	MIB1,missense_variant,p.Gly171Glu,ENST00000261537,;MIB1,non_coding_transcript_exon_variant,,ENST00000578646,;	A	ENSG00000101752	ENST00000261537	Transcript	missense_variant	776	512	171	G/E	gGa/gAa	.	.	.	1	MIB1	HGNC	21086	protein_coding	YES	CCDS11871.1	ENSP00000261537	MIB1_HUMAN	B3KRA8_HUMAN	UPI000000D833	.	deleterious(0.03)	probably_damaging(0.995)	3/21	.	PROSITE_profiles:PS51416,hmmpanther:PTHR24202,hmmpanther:PTHR24202:SF52,Pfam_domain:PF06701,Superfamily_domains:0053823	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	TGGAGGAAATG	.	4	BLCA
TTC39C	0	.	GRCh37	18	21660720	21660720	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632C>T	p.Ser211Phe	p.S211F	ENST00000317571	5/14	52	36	16	95	95	0	TTC39C,missense_variant,p.Ser211Phe,ENST00000317571,;TTC39C,missense_variant,p.Ser150Phe,ENST00000304621,;RP11-403A21.3,intron_variant,,ENST00000578443,;TTC39C,non_coding_transcript_exon_variant,,ENST00000578150,;	T	ENSG00000168234	ENST00000317571	Transcript	missense_variant	868	632	211	S/F	tCt/tTt	.	.	.	1	TTC39C	HGNC	26595	protein_coding	YES	CCDS45839.1	ENSP00000323645	TT39C_HUMAN	J3QKX7_HUMAN	UPI0000EF8875	.	deleterious(0.03)	benign(0.435)	5/14	.	Pfam_domain:PF10300,hmmpanther:PTHR31859	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGAGTCTCTGA	.	3	BLCA
TTC39C	0	.	GRCh37	18	21660722	21660722	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.634C>T	p.%3D	p.L212L	ENST00000317571	5/14	51	35	16	95	95	0	TTC39C,synonymous_variant,p.%3D,ENST00000317571,;TTC39C,synonymous_variant,p.%3D,ENST00000304621,;RP11-403A21.3,intron_variant,,ENST00000578443,;TTC39C,non_coding_transcript_exon_variant,,ENST00000578150,;	T	ENSG00000168234	ENST00000317571	Transcript	synonymous_variant	870	634	212	L	Ctg/Ttg	.	.	.	1	TTC39C	HGNC	26595	protein_coding	YES	CCDS45839.1	ENSP00000323645	TT39C_HUMAN	J3QKX7_HUMAN	UPI0000EF8875	.	.	.	5/14	.	Pfam_domain:PF10300,hmmpanther:PTHR31859	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGTCTCTGAAC	.	3	BLCA
ZNF521	0	.	GRCh37	18	22642656	22642656	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*20G>A	.	.	ENST00000361524	8/8	71	54	17	73	73	0	ZNF521,3_prime_UTR_variant,,ENST00000538137,;ZNF521,3_prime_UTR_variant,,ENST00000584787,;ZNF521,3_prime_UTR_variant,,ENST00000361524,;ZNF521,3_prime_UTR_variant,,ENST00000399425,;	T	ENSG00000198795	ENST00000361524	Transcript	3_prime_UTR_variant	4105	.	.	.	.	.	.	.	-1	ZNF521	HGNC	24605	protein_coding	YES	CCDS32806.1	ENSP00000354794	ZN521_HUMAN	J3QRW6_HUMAN,J3KTI4_HUMAN,J3KT07_HUMAN,J3KSZ4_HUMAN	UPI000006F982	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCCTTGAG	.	5	BLCA
AQP4	0	.	GRCh37	18	24436286	24436286	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.861A>G	p.%3D	p.V287V	ENST00000383168	5/5	171	110	60	209	209	0	AQP4,synonymous_variant,p.%3D,ENST00000383168,;AQP4,synonymous_variant,p.%3D,ENST00000440832,;AQP4,synonymous_variant,p.%3D,ENST00000581374,;AQP4,downstream_gene_variant,,ENST00000578776,;AQP4-AS1,intron_variant,,ENST00000582605,;AQP4-AS1,intron_variant,,ENST00000579964,;AQP4,non_coding_transcript_exon_variant,,ENST00000583022,;AQP4,downstream_gene_variant,,ENST00000383170,;AQP4,downstream_gene_variant,,ENST00000584088,;	C	ENSG00000171885	ENST00000383168	Transcript	synonymous_variant	990	861	287	V	gtA/gtG	.	.	.	-1	AQP4	HGNC	637	protein_coding	YES	CCDS11889.1	ENSP00000372654	AQP4_HUMAN	F1DSG4_HUMAN,B4DHF5_HUMAN	UPI0000125D1F	.	.	.	5/5	.	hmmpanther:PTHR19139,hmmpanther:PTHR19139:SF34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTCTACCTG	.	5	BLCA
DSC1	0	.	GRCh37	18	28737383	28737383	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.302G>A	p.Arg101Lys	p.R101K	ENST00000257198	3/16	39	25	14	46	46	0	DSC1,missense_variant,p.Arg101Lys,ENST00000257198,;DSC1,missense_variant,p.Arg101Lys,ENST00000257197,;RP11-408H20.2,intron_variant,,ENST00000581836,;	T	ENSG00000134765	ENST00000257198	Transcript	missense_variant	564	302	101	R/K	aGa/aAa	.	.	.	-1	DSC1	HGNC	3035	protein_coding	YES	CCDS11894.1	ENSP00000257198	DSC1_HUMAN	.	UPI000006DF10	.	tolerated(1)	benign(0.002)	3/16	.	hmmpanther:PTHR24025:SF8,hmmpanther:PTHR24025,Gene3D:2.60.40.60,Pfam_domain:PF08758,SMART_domains:SM01055,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCCGTCTCTGA	.	4	BLCA
DSC1	0	.	GRCh37	18	28737511	28737511	+	Silent	SNP	C	C	G	rs767775240	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174G>C	p.%3D	p.S58S	ENST00000257198	3/16	45	30	15	49	49	0	DSC1,synonymous_variant,p.%3D,ENST00000257198,;DSC1,synonymous_variant,p.%3D,ENST00000257197,;RP11-408H20.2,intron_variant,,ENST00000581836,;	G	ENSG00000134765	ENST00000257198	Transcript	synonymous_variant	436	174	58	S	tcG/tcC	rs767775240,COSM3796360,COSM3796359	.	.	-1	DSC1	HGNC	3035	protein_coding	YES	CCDS11894.1	ENSP00000257198	DSC1_HUMAN	.	UPI000006DF10	.	.	.	3/16	.	hmmpanther:PTHR24025:SF8,hmmpanther:PTHR24025,Gene3D:2.60.40.60,Pfam_domain:PF08758,SMART_domains:SM01055,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGCCGACTT	byFrequency	5	BLCA
TRAPPC8	0	.	GRCh37	18	29511438	29511438	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.206A>G	p.Lys69Arg	p.K69R	ENST00000283351	2/29	53	36	16	86	86	0	TRAPPC8,missense_variant,p.Lys15Arg,ENST00000582539,;TRAPPC8,missense_variant,p.Lys69Arg,ENST00000582513,;TRAPPC8,missense_variant,p.Lys69Arg,ENST00000283351,;TRAPPC8,missense_variant,p.Lys44Arg,ENST00000578658,;TRAPPC8,non_coding_transcript_exon_variant,,ENST00000584876,;TRAPPC8,missense_variant,p.Lys69Arg,ENST00000580104,;	C	ENSG00000153339	ENST00000283351	Transcript	missense_variant	542	206	69	K/R	aAg/aGg	.	.	.	-1	TRAPPC8	HGNC	29169	protein_coding	YES	CCDS11901.1	ENSP00000283351	TPPC8_HUMAN	J3QQJ5_HUMAN,J3QKL6_HUMAN	UPI0000052E22	.	tolerated(1)	benign(0.003)	2/29	.	hmmpanther:PTHR12975,hmmpanther:PTHR12975:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATCTTCAAA	.	5	BLCA
TRAPPC8	0	.	GRCh37	18	29522643	29522643	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85G>A	p.Glu29Lys	p.E29K	ENST00000283351	1/29	14	11	3	19	19	0	TRAPPC8,missense_variant,p.Glu29Lys,ENST00000582513,;TRAPPC8,missense_variant,p.Glu29Lys,ENST00000283351,;TRAPPC8,intron_variant,,ENST00000582539,;TRAPPC8,upstream_gene_variant,,ENST00000578658,;RP11-326K13.4,non_coding_transcript_exon_variant,,ENST00000580420,;TRAPPC8,non_coding_transcript_exon_variant,,ENST00000584876,;TRAPPC8,intron_variant,,ENST00000577426,;TRAPPC8,missense_variant,p.Glu29Lys,ENST00000580104,;	T	ENSG00000153339	ENST00000283351	Transcript	missense_variant	421	85	29	E/K	Gag/Aag	.	.	.	-1	TRAPPC8	HGNC	29169	protein_coding	YES	CCDS11901.1	ENSP00000283351	TPPC8_HUMAN	J3QQJ5_HUMAN,J3QKL6_HUMAN	UPI0000052E22	.	deleterious(0.01)	possibly_damaging(0.676)	1/29	.	hmmpanther:PTHR12975,hmmpanther:PTHR12975:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCTCGGCTT	.	2	BLCA
ASXL3	0	.	GRCh37	18	31251800	31251800	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.685C>T	p.His229Tyr	p.H229Y	ENST00000269197	7/12	15	11	4	13	13	0	ASXL3,missense_variant,p.His229Tyr,ENST00000269197,;ASXL3,downstream_gene_variant,,ENST00000586596,;ASXL3,downstream_gene_variant,,ENST00000590189,;ASXL3,missense_variant,p.His230Tyr,ENST00000592288,;ASXL3,downstream_gene_variant,,ENST00000593235,;ASXL3,downstream_gene_variant,,ENST00000592541,;	T	ENSG00000141431	ENST00000269197	Transcript	missense_variant	685	685	229	H/Y	Cac/Tac	.	.	.	1	ASXL3	HGNC	29357	protein_coding	YES	CCDS45847.1	ENSP00000269197	ASXL3_HUMAN	K7EQY1_HUMAN	UPI000156D0F3	.	.	probably_damaging(0.993)	7/12	.	hmmpanther:PTHR13578:SF18,hmmpanther:PTHR13578	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GTCAGCACTTA	.	4	BLCA
ASXL3	0	.	GRCh37	18	31326230	31326230	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6418C>T	p.Gln2140Ter	p.Q2140*	ENST00000269197	12/12	84	63	20	109	109	0	ASXL3,stop_gained,p.Gln2140Ter,ENST00000269197,;ASXL3,downstream_gene_variant,,ENST00000592288,;	T	ENSG00000141431	ENST00000269197	Transcript	stop_gained	6418	6418	2140	Q/*	Cag/Tag	.	.	.	1	ASXL3	HGNC	29357	protein_coding	YES	CCDS45847.1	ENSP00000269197	ASXL3_HUMAN	K7EQY1_HUMAN	UPI000156D0F3	.	.	.	12/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13578:SF18,hmmpanther:PTHR13578	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAGAAA	.	5	BLCA
TPGS2	0	.	GRCh37	18	34376852	34376852	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.819G>A	p.%3D	p.Q273Q	ENST00000334295	7/7	72	50	22	95	95	0	TPGS2,synonymous_variant,p.%3D,ENST00000334295,;TPGS2,synonymous_variant,p.%3D,ENST00000593035,;TPGS2,synonymous_variant,p.%3D,ENST00000383056,;TPGS2,intron_variant,,ENST00000590842,;TPGS2,intron_variant,,ENST00000587382,;TPGS2,intron_variant,,ENST00000587129,;TPGS2,intron_variant,,ENST00000591906,;TPGS2,downstream_gene_variant,,ENST00000589049,;TPGS2,intron_variant,,ENST00000590652,;TPGS2,intron_variant,,ENST00000590258,;TPGS2,downstream_gene_variant,,ENST00000590500,;TPGS2,downstream_gene_variant,,ENST00000591823,;TPGS2,downstream_gene_variant,,ENST00000590692,;TPGS2,downstream_gene_variant,,ENST00000585635,;	T	ENSG00000134779	ENST00000334295	Transcript	synonymous_variant	1247	819	273	Q	caG/caA	.	.	.	-1	TPGS2	HGNC	24561	protein_coding	YES	CCDS32817.1	ENSP00000335144	TPGS2_HUMAN	.	UPI0000201C11	.	.	.	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCTGGCC	.	5	BLCA
TPGS2	0	.	GRCh37	18	34408738	34408738	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8C>T	.	.	ENST00000334295	1/7	26	16	10	37	37	0	TPGS2,5_prime_UTR_variant,,ENST00000334295,;TPGS2,5_prime_UTR_variant,,ENST00000587129,;TPGS2,5_prime_UTR_variant,,ENST00000588909,;TPGS2,5_prime_UTR_variant,,ENST00000589049,;TPGS2,5_prime_UTR_variant,,ENST00000590842,;TPGS2,5_prime_UTR_variant,,ENST00000590337,;TPGS2,5_prime_UTR_variant,,ENST00000593035,;TPGS2,5_prime_UTR_variant,,ENST00000383056,;KIAA1328,upstream_gene_variant,,ENST00000543923,;KIAA1328,upstream_gene_variant,,ENST00000587139,;TPGS2,upstream_gene_variant,,ENST00000587382,;KIAA1328,upstream_gene_variant,,ENST00000280020,;KIAA1328,upstream_gene_variant,,ENST00000435985,;KIAA1328,upstream_gene_variant,,ENST00000591619,;KIAA1328,upstream_gene_variant,,ENST00000592521,;TPGS2,5_prime_UTR_variant,,ENST00000590692,;TPGS2,5_prime_UTR_variant,,ENST00000585635,;TPGS2,5_prime_UTR_variant,,ENST00000587207,;TPGS2,non_coding_transcript_exon_variant,,ENST00000587511,;TPGS2,non_coding_transcript_exon_variant,,ENST00000591648,;KIAA1328,upstream_gene_variant,,ENST00000592611,;TPGS2,upstream_gene_variant,,ENST00000591823,;KIAA1328,upstream_gene_variant,,ENST00000590617,;	A	ENSG00000134779	ENST00000334295	Transcript	5_prime_UTR_variant	421	.	.	.	.	.	.	.	-1	TPGS2	HGNC	24561	protein_coding	YES	CCDS32817.1	ENSP00000335144	TPGS2_HUMAN	.	UPI0000201C11	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCGCGACCGC	.	5	BLCA
TGIF1	0	.	GRCh37	18	3452266	3452266	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289G>A	p.Glu97Lys	p.E97K	ENST00000330513	1/3	9	4	5	32	32	0	TGIF1,missense_variant,p.Glu97Lys,ENST00000330513,;TGIF1,intron_variant,,ENST00000345133,;TGIF1,intron_variant,,ENST00000577543,;TGIF1,intron_variant,,ENST00000401449,;TGIF1,intron_variant,,ENST00000551541,;TGIF1,intron_variant,,ENST00000552383,;TGIF1,intron_variant,,ENST00000549780,;TGIF1,intron_variant,,ENST00000343820,;TGIF1,intron_variant,,ENST00000546979,;TGIF1,intron_variant,,ENST00000548489,;TGIF1,intron_variant,,ENST00000405385,;TGIF1,intron_variant,,ENST00000551402,;TGIF1,intron_variant,,ENST00000407501,;TGIF1,intron_variant,,ENST00000549546,;TGIF1,intron_variant,,ENST00000549253,;TGIF1,intron_variant,,ENST00000550958,;TGIF1,upstream_gene_variant,,ENST00000472042,;TGIF1,upstream_gene_variant,,ENST00000551333,;TGIF1,upstream_gene_variant,,ENST00000549468,;TGIF1,upstream_gene_variant,,ENST00000400167,;TGIF1,downstream_gene_variant,,ENST00000551557,;	A	ENSG00000177426	ENST00000330513	Transcript	missense_variant	592	289	97	E/K	Gag/Aag	.	.	.	1	TGIF1	HGNC	11776	protein_coding	YES	CCDS11834.1	ENSP00000327959	TGIF1_HUMAN	F8VZH2_HUMAN,F8VXG3_HUMAN,F8VX54_HUMAN,F8VWK5_HUMAN,F8VW34_HUMAN,F8VVS9_HUMAN,F8VUY0_HUMAN	UPI0000140386	.	tolerated_low_confidence(0.22)	benign(0)	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCGGAGCTG	.	2	BLCA
SLC14A1	0	.	GRCh37	18	43310411	43310411	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294G>A	p.Met98Ile	p.M98I	ENST00000436407	2/9	50	35	15	59	59	0	SLC14A1,missense_variant,p.Met42Ile,ENST00000589700,;SLC14A1,missense_variant,p.Met98Ile,ENST00000436407,;SLC14A1,missense_variant,p.Met42Ile,ENST00000586142,;SLC14A1,missense_variant,p.Met42Ile,ENST00000586951,;SLC14A1,missense_variant,p.Met98Ile,ENST00000589891,;SLC14A1,missense_variant,p.Met42Ile,ENST00000321925,;SLC14A1,missense_variant,p.Met42Ile,ENST00000586056,;SLC14A1,missense_variant,p.Met98Ile,ENST00000415427,;SLC14A1,intron_variant,,ENST00000589322,;SLC14A1,intron_variant,,ENST00000535474,;SLC14A1,intron_variant,,ENST00000587601,;SLC14A1,intron_variant,,ENST00000590246,;SLC14A1,intron_variant,,ENST00000402943,;SLC14A1,intron_variant,,ENST00000502059,;SLC14A1,upstream_gene_variant,,ENST00000590377,;RP11-116O18.3,intron_variant,,ENST00000589510,;RP11-116O18.3,downstream_gene_variant,,ENST00000586213,;SLC14A1,non_coding_transcript_exon_variant,,ENST00000591943,;SLC14A1,missense_variant,p.Met98Ile,ENST00000588179,;SLC14A1,upstream_gene_variant,,ENST00000591642,;	A	ENSG00000141469	ENST00000436407	Transcript	missense_variant	841	294	98	M/I	atG/atA	.	.	.	1	SLC14A1	HGNC	10918	protein_coding	YES	CCDS45860.1	ENSP00000390637	UT1_HUMAN	G0W2N5_HUMAN,Q96KQ5_HUMAN,Q8WXW8_HUMAN,Q71UV7_HUMAN,M0QYS8_HUMAN,M0QX00_HUMAN,K7ESL3_HUMAN,K7ELI3_HUMAN,K7EL30_HUMAN,K7EKN6_HUMAN,K7EJ54_HUMAN,J7FHA1_HUMAN,G3K397_HUMAN,F5GWS2_HUMAN,B4DFJ8_HUMAN	UPI0000201C67	.	deleterious(0.02)	possibly_damaging(0.891)	2/9	.	hmmpanther:PTHR10464,Gene3D:1.10.3430.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATGAAAGA	.	5	BLCA
EPG5	0	.	GRCh37	18	43490547	43490547	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4144G>A	p.Glu1382Lys	p.E1382K	ENST00000282041	23/44	66	47	19	88	88	0	EPG5,missense_variant,p.Glu1382Lys,ENST00000282041,;EPG5,non_coding_transcript_exon_variant,,ENST00000585906,;EPG5,missense_variant,p.Glu257Lys,ENST00000587884,;EPG5,missense_variant,p.Glu257Lys,ENST00000592272,;EPG5,missense_variant,p.Glu257Lys,ENST00000590884,;EPG5,non_coding_transcript_exon_variant,,ENST00000587974,;	T	ENSG00000152223	ENST00000282041	Transcript	missense_variant	4179	4144	1382	E/K	Gag/Aag	.	.	.	-1	EPG5	HGNC	29331	protein_coding	YES	CCDS11926.2	ENSP00000282041	EPG5_HUMAN	Q9BYJ3_HUMAN,Q9BTI0_HUMAN	UPI00004F6F8A	.	tolerated(0.39)	possibly_damaging(0.533)	23/44	.	hmmpanther:PTHR31139,hmmpanther:PTHR31139:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCTGGCA	.	5	BLCA
SMAD2	0	.	GRCh37	18	45368137	45368137	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*61G>A	.	.	ENST00000402690	11/11	17	11	6	21	21	0	SMAD2,3_prime_UTR_variant,,ENST00000402690,;SMAD2,3_prime_UTR_variant,,ENST00000356825,;SMAD2,3_prime_UTR_variant,,ENST00000262160,;SMAD2,3_prime_UTR_variant,,ENST00000586040,;SMAD2,downstream_gene_variant,,ENST00000591214,;	T	ENSG00000175387	ENST00000402690	Transcript	3_prime_UTR_variant	1860	.	.	.	.	.	.	.	-1	SMAD2	HGNC	6768	protein_coding	YES	CCDS11934.1	ENSP00000384449	SMAD2_HUMAN	Q53XR6_HUMAN,K7ESI8_HUMAN,K7ERC7_HUMAN,K7EL92_HUMAN,K7EJX0_HUMAN	UPI0000032EE7	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACACAATGC	.	5	BLCA
MYO5B	0	.	GRCh37	18	47375979	47375979	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4273A>C	p.Lys1425Gln	p.K1425Q	ENST00000285039	32/40	203	127	75	259	259	0	MYO5B,missense_variant,p.Lys540Gln,ENST00000324581,;MYO5B,missense_variant,p.Lys1425Gln,ENST00000285039,;MYO5B,missense_variant,p.Lys543Gln,ENST00000592779,;MYO5B,5_prime_UTR_variant,,ENST00000592688,;SCARNA17,intron_variant,,ENST00000589499,;	G	ENSG00000167306	ENST00000285039	Transcript	missense_variant	4573	4273	1425	K/Q	Aag/Cag	.	.	.	-1	MYO5B	HGNC	7603	protein_coding	YES	CCDS42436.1	ENSP00000285039	MYO5B_HUMAN	Q14782_HUMAN,Q0P656_HUMAN,K7EPI3_HUMAN	UPI00001D7B21	.	deleterious(0)	probably_damaging(0.999)	32/40	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF356	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTTTTTGA	.	5	BLCA
TMX3	0	.	GRCh37	18	66344331	66344331	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1204G>A	p.Asp402Asn	p.D402N	ENST00000299608	16/16	70	50	19	97	97	0	TMX3,missense_variant,p.Asp402Asn,ENST00000299608,;TMX3,non_coding_transcript_exon_variant,,ENST00000566135,;TMX3,3_prime_UTR_variant,,ENST00000564631,;TMX3,non_coding_transcript_exon_variant,,ENST00000578816,;	T	ENSG00000166479	ENST00000299608	Transcript	missense_variant	1521	1204	402	D/N	Gat/Aat	.	.	.	-1	TMX3	HGNC	24718	protein_coding	YES	CCDS32840.1	ENSP00000299608	TMX3_HUMAN	.	UPI000004A093	.	deleterious_low_confidence(0.01)	possibly_damaging(0.58)	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCTGTGT	.	5	BLCA
ZADH2	0	.	GRCh37	18	72913888	72913888	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.617C>T	p.Ser206Phe	p.S206F	ENST00000322342	2/2	193	135	58	226	226	0	ZADH2,missense_variant,p.Ser83Phe,ENST00000581620,;ZADH2,missense_variant,p.Ser206Phe,ENST00000322342,;ZADH2,missense_variant,p.Ser83Phe,ENST00000537114,;ZADH2,missense_variant,p.Ser83Phe,ENST00000582437,;	A	ENSG00000180011	ENST00000322342	Transcript	missense_variant	907	617	206	S/F	tCt/tTt	.	.	.	-1	ZADH2	HGNC	28697	protein_coding	YES	CCDS12008.1	ENSP00000323678	ZADH2_HUMAN	J3QQQ7_HUMAN,J3KTQ8_HUMAN,B4DZ91_HUMAN	UPI00000350AF	.	deleterious(0)	probably_damaging(0.997)	2/2	.	hmmpanther:PTHR11695:SF264,hmmpanther:PTHR11695,Gene3D:3.40.50.720,Pfam_domain:PF00107,SMART_domains:SM00829,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCAGAAGAG	.	5	BLCA
SMIM21	0	.	GRCh37	18	73130866	73130866	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135A>C	p.Glu45Asp	p.E45D	ENST00000579022	2/3	60	39	20	60	60	0	SMIM21,missense_variant,p.Glu45Asp,ENST00000584508,;SMIM21,missense_variant,p.Glu45Asp,ENST00000579022,;RP11-321M21.3,3_prime_UTR_variant,,ENST00000578340,;SMIM21,intron_variant,,ENST00000382638,;RP11-321M21.3,non_coding_transcript_exon_variant,,ENST00000579386,;	G	ENSG00000206026	ENST00000579022	Transcript	missense_variant	275	135	45	E/D	gaA/gaC	.	.	.	-1	SMIM21	HGNC	27598	protein_coding	YES	CCDS32845.1	ENSP00000462106	SMI21_HUMAN	.	UPI00001B64CE	.	tolerated_low_confidence(0.49)	benign(0.005)	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTTTCAAA	.	5	BLCA
ZNF236	0	.	GRCh37	18	74625763	74625763	+	Silent	SNP	G	G	A	rs201491986	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2964G>A	p.%3D	p.S988S	ENST00000253159	18/31	38	27	11	51	51	0	ZNF236,synonymous_variant,p.%3D,ENST00000320610,;ZNF236,synonymous_variant,p.%3D,ENST00000253159,;ZNF236,synonymous_variant,p.%3D,ENST00000543926,;ZNF236,non_coding_transcript_exon_variant,,ENST00000581450,;	A	ENSG00000130856	ENST00000253159	Transcript	synonymous_variant	3162	2964	988	S	tcG/tcA	rs201491986	.	.	1	ZNF236	HGNC	13028	protein_coding	YES	CCDS42447.1	ENSP00000253159	ZN236_HUMAN	.	UPI0000F6DCCB	.	.	.	18/31	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24396,hmmpanther:PTHR24396:SF15,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0.0013	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTCGCACAC	byFrequency|byCluster	5	BLCA
CTDP1	0	.	GRCh37	18	77474547	77474547	+	Missense_Mutation	SNP	G	G	C	rs774687256	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1087G>C	p.Glu363Gln	p.E363Q	ENST00000299543	8/13	47	33	13	63	63	0	CTDP1,missense_variant,p.Glu295Gln,ENST00000591598,;CTDP1,missense_variant,p.Glu363Gln,ENST00000075430,;CTDP1,missense_variant,p.Glu363Gln,ENST00000299543,;	C	ENSG00000060069	ENST00000299543	Transcript	missense_variant	1234	1087	363	E/Q	Gag/Cag	rs774687256	.	.	1	CTDP1	HGNC	2498	protein_coding	YES	CCDS12017.1	ENSP00000299543	CTDP1_HUMAN	K7EPW4_HUMAN	UPI000013C57B	.	deleterious(0.01)	possibly_damaging(0.772)	8/13	.	hmmpanther:PTHR23081:SF0,hmmpanther:PTHR23081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGAGGGG	.	5	BLCA
ANKRD12	0	.	GRCh37	18	9257983	9257983	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4718C>T	p.Ser1573Leu	p.S1573L	ENST00000262126	9/13	28	17	10	64	64	0	ANKRD12,missense_variant,p.Ser1573Leu,ENST00000262126,;ANKRD12,missense_variant,p.Ser1550Leu,ENST00000383440,;ANKRD12,missense_variant,p.Ser1550Leu,ENST00000400020,;ANKRD12,downstream_gene_variant,,ENST00000546007,;RP11-888D10.4,upstream_gene_variant,,ENST00000609701,;RP11-21J18.1,downstream_gene_variant,,ENST00000578850,;ANKRD12,downstream_gene_variant,,ENST00000359158,;	T	ENSG00000101745	ENST00000262126	Transcript	missense_variant	4958	4718	1573	S/L	tCa/tTa	.	.	.	1	ANKRD12	HGNC	29135	protein_coding	YES	CCDS11843.1	ENSP00000262126	ANR12_HUMAN	J3QRX3_HUMAN	UPI0000073327	.	tolerated_low_confidence(0.19)	benign(0.003)	9/13	.	hmmpanther:PTHR24149:SF7,hmmpanther:PTHR24149	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCACCAA	.	5	BLCA
RDH8	0	.	GRCh37	19	10127761	10127761	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192G>C	p.Lys64Asn	p.K64N	ENST00000591589	2/6	13	10	3	19	19	0	RDH8,missense_variant,p.Lys64Asn,ENST00000591589,;RDH8,missense_variant,p.Lys44Asn,ENST00000171214,;RDH8,upstream_gene_variant,,ENST00000587782,;RDH8,upstream_gene_variant,,ENST00000589570,;	C	ENSG00000080511	ENST00000591589	Transcript	missense_variant	381	192	64	K/N	aaG/aaC	COSM4073701,COSM4073702	.	.	1	RDH8	HGNC	14423	protein_coding	YES	CCDS12223.2	ENSP00000466058	.	K7ELF7_HUMAN	UPI000059D661	.	deleterious(0.01)	possibly_damaging(0.749)	2/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24322,hmmpanther:PTHR24322:SF259,Pfam_domain:PF00106,Gene3D:3.40.50.720,PIRSF_domain:PIRSF000095,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGAAGAAGGA	.	2	BLCA
ANGPTL6	0	.	GRCh37	19	10206671	10206671	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569G>A	p.Gly190Asp	p.G190D	ENST00000253109	2/6	10	7	3	13	13	0	ANGPTL6,missense_variant,p.Gly190Asp,ENST00000253109,;ANGPTL6,missense_variant,p.Gly190Asp,ENST00000589181,;ANGPTL6,missense_variant,p.Gly190Asp,ENST00000592641,;C19orf66,downstream_gene_variant,,ENST00000593131,;C19orf66,downstream_gene_variant,,ENST00000591813,;C19orf66,downstream_gene_variant,,ENST00000397881,;C19orf66,downstream_gene_variant,,ENST00000253110,;ANGPTL6,non_coding_transcript_exon_variant,,ENST00000586910,;C19orf66,downstream_gene_variant,,ENST00000585919,;C19orf66,downstream_gene_variant,,ENST00000586730,;C19orf66,downstream_gene_variant,,ENST00000587710,;	T	ENSG00000130812	ENST00000253109	Transcript	missense_variant	808	569	190	G/D	gGc/gAc	.	.	.	-1	ANGPTL6	HGNC	23140	protein_coding	YES	CCDS12224.1	ENSP00000253109	ANGL6_HUMAN	.	UPI000004BA54	.	tolerated(0.4)	benign(0.003)	2/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19143:SF169,hmmpanther:PTHR19143	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCGCCCGCG	.	2	BLCA
EIF3G	0	.	GRCh37	19	10226172	10226172	+	Silent	SNP	G	G	A	rs749165063	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930C>T	p.%3D	p.L310L	ENST00000253108	10/11	33	20	12	51	51	0	EIF3G,synonymous_variant,p.%3D,ENST00000593054,;EIF3G,synonymous_variant,p.%3D,ENST00000253108,;EIF3G,downstream_gene_variant,,ENST00000589454,;PPAN,downstream_gene_variant,,ENST00000393793,;PPAN,downstream_gene_variant,,ENST00000253107,;EIF3G,downstream_gene_variant,,ENST00000587146,;P2RY11,downstream_gene_variant,,ENST00000321826,;PPAN-P2RY11,downstream_gene_variant,,ENST00000393796,;PPAN-P2RY11,downstream_gene_variant,,ENST00000428358,;PPAN,downstream_gene_variant,,ENST00000556468,;EIF3G,downstream_gene_variant,,ENST00000588709,;PPAN,downstream_gene_variant,,ENST00000444703,;P2RY11,downstream_gene_variant,,ENST00000471843,;EIF3G,downstream_gene_variant,,ENST00000587168,;EIF3G,non_coding_transcript_exon_variant,,ENST00000590158,;EIF3G,downstream_gene_variant,,ENST00000586151,;EIF3G,downstream_gene_variant,,ENST00000590647,;EIF3G,downstream_gene_variant,,ENST00000587590,;PPAN,downstream_gene_variant,,ENST00000468881,;EIF3G,downstream_gene_variant,,ENST00000590940,;EIF3G,downstream_gene_variant,,ENST00000587681,;EIF3G,downstream_gene_variant,,ENST00000589458,;EIF3G,downstream_gene_variant,,ENST00000589009,;PPAN,downstream_gene_variant,,ENST00000486482,;EIF3G,downstream_gene_variant,,ENST00000587993,;EIF3G,downstream_gene_variant,,ENST00000593066,;EIF3G,downstream_gene_variant,,ENST00000593095,;EIF3G,downstream_gene_variant,,ENST00000589674,;EIF3G,downstream_gene_variant,,ENST00000592485,;	A	ENSG00000130811	ENST00000253108	Transcript	synonymous_variant	973	930	310	L	ctC/ctT	rs749165063	.	.	-1	EIF3G	HGNC	3274	protein_coding	YES	CCDS12227.1	ENSP00000253108	EIF3G_HUMAN	.	UPI000012D2FE	.	.	.	10/11	.	HAMAP:MF_03006,PROSITE_profiles:PS50102,hmmpanther:PTHR10352,Gene3D:3.30.70.330,PIRSF_domain:PIRSF037949,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGTTGAGGAT	.	5	BLCA
ICAM5	0	.	GRCh37	19	10404529	10404529	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1621C>T	p.Arg541Cys	p.R541C	ENST00000221980	7/11	53	36	17	83	83	0	ICAM5,missense_variant,p.Arg541Cys,ENST00000221980,;ICAM5,downstream_gene_variant,,ENST00000587398,;CTD-2369P2.8,upstream_gene_variant,,ENST00000589379,;ICAM5,downstream_gene_variant,,ENST00000586004,;ICAM5,non_coding_transcript_exon_variant,,ENST00000586480,;ICAM5,downstream_gene_variant,,ENST00000588912,;	T	ENSG00000105376	ENST00000221980	Transcript	missense_variant	1684	1621	541	R/C	Cgt/Tgt	.	.	.	1	ICAM5	HGNC	5348	protein_coding	YES	CCDS12233.1	ENSP00000221980	ICAM5_HUMAN	K7EIL3_HUMAN	UPI000013C7E4	.	deleterious(0.04)	possibly_damaging(0.79)	7/11	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13771:SF6,hmmpanther:PTHR13771,Gene3D:2.60.40.10,Pfam_domain:PF13895,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTGCGTGTG	.	5	BLCA
POLR2E	0	.	GRCh37	19	1094035	1094035	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>A	p.Asp34Asn	p.D34N	ENST00000215587	2/8	23	15	7	42	42	0	POLR2E,missense_variant,p.Asp34Asn,ENST00000215587,;POLR2E,missense_variant,p.Asp34Asn,ENST00000586746,;POLR2E,upstream_gene_variant,,ENST00000585838,;POLR2E,non_coding_transcript_exon_variant,,ENST00000586817,;POLR2E,non_coding_transcript_exon_variant,,ENST00000591709,;POLR2E,non_coding_transcript_exon_variant,,ENST00000592597,;POLR2E,intron_variant,,ENST00000589737,;POLR2E,intron_variant,,ENST00000591767,;POLR2E,upstream_gene_variant,,ENST00000586215,;	T	ENSG00000099817	ENST00000215587	Transcript	missense_variant	384	100	34	D/N	Gac/Aac	.	.	.	-1	POLR2E	HGNC	9192	protein_coding	YES	CCDS12056.1	ENSP00000215587	RPAB1_HUMAN	E5KT65_HUMAN,B4DJ89_HUMAN	UPI000013C68D	.	tolerated(0.51)	benign(0.012)	2/8	.	hmmpanther:PTHR10535,Gene3D:1dzfA01,Pfam_domain:PF03871,PIRSF_domain:PIRSF000747,Superfamily_domains:0036684	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGGTCAAGCT	.	3	BLCA
POLR2E	0	.	GRCh37	19	1094041	1094041	+	Missense_Mutation	SNP	C	C	T	rs764372975	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.94G>A	p.Glu32Lys	p.E32K	ENST00000215587	2/8	24	17	6	41	41	0	POLR2E,missense_variant,p.Glu32Lys,ENST00000215587,;POLR2E,missense_variant,p.Glu32Lys,ENST00000586746,;POLR2E,upstream_gene_variant,,ENST00000585838,;POLR2E,non_coding_transcript_exon_variant,,ENST00000586817,;POLR2E,non_coding_transcript_exon_variant,,ENST00000591709,;POLR2E,non_coding_transcript_exon_variant,,ENST00000592597,;POLR2E,intron_variant,,ENST00000589737,;POLR2E,intron_variant,,ENST00000591767,;POLR2E,upstream_gene_variant,,ENST00000586215,;	T	ENSG00000099817	ENST00000215587	Transcript	missense_variant	378	94	32	E/K	Gag/Aag	rs764372975	.	.	-1	POLR2E	HGNC	9192	protein_coding	YES	CCDS12056.1	ENSP00000215587	RPAB1_HUMAN	E5KT65_HUMAN,B4DJ89_HUMAN	UPI000013C68D	.	deleterious(0)	possibly_damaging(0.783)	2/8	.	hmmpanther:PTHR10535,Gene3D:1dzfA01,Pfam_domain:PF03871,PIRSF_domain:PIRSF000747,Superfamily_domains:0036684	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGCTCGTCCT	.	3	BLCA
DOCK6	0	.	GRCh37	19	11353980	11353980	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1340C>G	p.Ser447Cys	p.S447C	ENST00000294618	12/48	9	5	4	13	13	0	DOCK6,missense_variant,p.Ser447Cys,ENST00000294618,;C19orf80,downstream_gene_variant,,ENST00000252453,;C19orf80,downstream_gene_variant,,ENST00000587543,;C19orf80,downstream_gene_variant,,ENST00000591200,;DOCK6,downstream_gene_variant,,ENST00000585609,;DOCK6,upstream_gene_variant,,ENST00000591750,;	C	ENSG00000130158	ENST00000294618	Transcript	missense_variant	1352	1340	447	S/C	tCt/tGt	.	.	.	-1	DOCK6	HGNC	19189	protein_coding	YES	CCDS45975.1	ENSP00000294618	DOCK6_HUMAN	.	UPI000059D66F	.	deleterious(0.01)	possibly_damaging(0.662)	12/48	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF65	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGCCAGAGAAG	.	2	BLCA
CCDC151	0	.	GRCh37	19	11533491	11533491	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1155C>T	p.%3D	p.F385F	ENST00000356392	9/13	26	20	5	30	30	0	CCDC151,synonymous_variant,p.%3D,ENST00000591179,;CCDC151,synonymous_variant,p.%3D,ENST00000356392,;CCDC151,synonymous_variant,p.%3D,ENST00000586836,;CCDC151,synonymous_variant,p.%3D,ENST00000545100,;RGL3,upstream_gene_variant,,ENST00000380456,;RGL3,upstream_gene_variant,,ENST00000567431,;RGL3,upstream_gene_variant,,ENST00000567080,;RGL3,upstream_gene_variant,,ENST00000393423,;RGL3,upstream_gene_variant,,ENST00000561570,;CCDC151,3_prime_UTR_variant,,ENST00000591345,;RGL3,upstream_gene_variant,,ENST00000453604,;RGL3,upstream_gene_variant,,ENST00000569439,;RGL3,upstream_gene_variant,,ENST00000563726,;RGL3,upstream_gene_variant,,ENST00000568420,;RGL3,upstream_gene_variant,,ENST00000562663,;	A	ENSG00000198003	ENST00000356392	Transcript	synonymous_variant	1243	1155	385	F	ttC/ttT	.	.	.	-1	CCDC151	HGNC	28303	protein_coding	YES	CCDS42501.1	ENSP00000348757	CC151_HUMAN	K7EPK8_HUMAN,B7ZMB9_HUMAN	UPI000040CC83	.	.	.	9/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21694:SF1,hmmpanther:PTHR21694	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGCGAAGGT	.	5	BLCA
CCDC151	0	.	GRCh37	19	11541766	11541766	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319C>T	p.Arg107Cys	p.R107C	ENST00000356392	2/13	125	77	47	188	188	0	CCDC151,missense_variant,p.Arg107Cys,ENST00000356392,;CCDC151,missense_variant,p.Arg53Cys,ENST00000545100,;CCDC151,missense_variant,p.Arg107Cys,ENST00000591179,;CCDC151,5_prime_UTR_variant,,ENST00000586836,;PRKCSH,upstream_gene_variant,,ENST00000587509,;PRKCSH,upstream_gene_variant,,ENST00000591946,;PRKCSH,upstream_gene_variant,,ENST00000588269,;PRKCSH,upstream_gene_variant,,ENST00000412601,;PRKCSH,upstream_gene_variant,,ENST00000593101,;PRKCSH,upstream_gene_variant,,ENST00000592741,;PRKCSH,upstream_gene_variant,,ENST00000591462,;PRKCSH,upstream_gene_variant,,ENST00000587327,;PRKCSH,upstream_gene_variant,,ENST00000589126,;PRKCSH,upstream_gene_variant,,ENST00000252455,;PRKCSH,upstream_gene_variant,,ENST00000593104,;PRKCSH,upstream_gene_variant,,ENST00000593053,;CCDC151,3_prime_UTR_variant,,ENST00000591345,;CCDC151,non_coding_transcript_exon_variant,,ENST00000593281,;	A	ENSG00000198003	ENST00000356392	Transcript	missense_variant	407	319	107	R/C	Cgc/Tgc	.	.	.	-1	CCDC151	HGNC	28303	protein_coding	YES	CCDS42501.1	ENSP00000348757	CC151_HUMAN	K7EPK8_HUMAN,B7ZMB9_HUMAN	UPI000040CC83	.	deleterious(0)	probably_damaging(0.91)	2/13	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21694:SF1,hmmpanther:PTHR21694	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGCGGAGCT	.	5	BLCA
MAN2B1	0	.	GRCh37	19	12767796	12767796	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1494C>T	p.%3D	p.I498I	ENST00000456935	12/24	9	5	4	29	29	0	MAN2B1,synonymous_variant,p.%3D,ENST00000221363,;MAN2B1,synonymous_variant,p.%3D,ENST00000456935,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000595880,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000495617,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000433513,;MAN2B1,synonymous_variant,p.%3D,ENST00000593686,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000466794,;MAN2B1,downstream_gene_variant,,ENST00000462144,;MAN2B1,upstream_gene_variant,,ENST00000596591,;MAN2B1,downstream_gene_variant,,ENST00000465830,;	A	ENSG00000104774	ENST00000456935	Transcript	synonymous_variant	1535	1494	498	I	atC/atT	.	.	.	-1	MAN2B1	HGNC	6826	protein_coding	YES	CCDS32919.1	ENSP00000395473	MA2B1_HUMAN	B4E0K9_HUMAN	UPI00000559EC	.	.	.	12/24	.	hmmpanther:PTHR11607:SF3,hmmpanther:PTHR11607,Gene3D:2.60.40.1180,Superfamily_domains:SSF74650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ATGCTGATGTT	.	2	BLCA
MAN2B1	0	.	GRCh37	19	12774193	12774193	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.847C>T	p.Arg283Cys	p.R283C	ENST00000456935	6/24	53	38	15	72	71	1	MAN2B1,missense_variant,p.Arg283Cys,ENST00000221363,;MAN2B1,missense_variant,p.Arg283Cys,ENST00000456935,;MAN2B1,downstream_gene_variant,,ENST00000486847,;WDR83OS,downstream_gene_variant,,ENST00000222190,;MAN2B1,downstream_gene_variant,,ENST00000598876,;CTD-2192J16.24,downstream_gene_variant,,ENST00000597961,;WDR83OS,downstream_gene_variant,,ENST00000598732,;WDR83OS,downstream_gene_variant,,ENST00000596731,;WDR83,upstream_gene_variant,,ENST00000418543,;MAN2B1,upstream_gene_variant,,ENST00000495617,;MAN2B1,downstream_gene_variant,,ENST00000596512,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000466794,;MAN2B1,non_coding_transcript_exon_variant,,ENST00000462144,;WDR83,upstream_gene_variant,,ENST00000546754,;WDR83,upstream_gene_variant,,ENST00000548381,;MAN2B1,upstream_gene_variant,,ENST00000465830,;MAN2B1,downstream_gene_variant,,ENST00000600281,;WDR83,upstream_gene_variant,,ENST00000553179,;	A	ENSG00000104774	ENST00000456935	Transcript	missense_variant	888	847	283	R/C	Cgc/Tgc	COSM3891566	.	.	-1	MAN2B1	HGNC	6826	protein_coding	YES	CCDS32919.1	ENSP00000395473	MA2B1_HUMAN	B4E0K9_HUMAN	UPI00000559EC	.	tolerated(0.05)	possibly_damaging(0.762)	6/24	.	hmmpanther:PTHR11607:SF3,hmmpanther:PTHR11607,Pfam_domain:PF01074,Gene3D:3.20.110.10,Superfamily_domains:SSF88713	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGAGGGT	.	5	BLCA
RTBDN	0	.	GRCh37	19	12939527	12939527	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.405G>A	p.%3D	p.L135L	ENST00000322912	5/7	59	37	21	91	91	0	RTBDN,missense_variant,p.Cys62Tyr,ENST00000393233,;RTBDN,synonymous_variant,p.%3D,ENST00000586969,;RTBDN,synonymous_variant,p.%3D,ENST00000589681,;RTBDN,synonymous_variant,p.%3D,ENST00000585384,;RTBDN,synonymous_variant,p.%3D,ENST00000322912,;RTBDN,synonymous_variant,p.%3D,ENST00000458671,;RTBDN,synonymous_variant,p.%3D,ENST00000589808,;RTBDN,synonymous_variant,p.%3D,ENST00000592204,;RTBDN,synonymous_variant,p.%3D,ENST00000589567,;RTBDN,synonymous_variant,p.%3D,ENST00000590404,;RTBDN,synonymous_variant,p.%3D,ENST00000589272,;RTBDN,downstream_gene_variant,,ENST00000587549,;RTBDN,downstream_gene_variant,,ENST00000591512,;CTD-2265O21.3,intron_variant,,ENST00000588469,;HOOK2,intron_variant,,ENST00000589765,;	T	ENSG00000132026	ENST00000322912	Transcript	synonymous_variant	723	405	135	L	ctG/ctA	.	.	.	-1	RTBDN	HGNC	30310	protein_coding	YES	CCDS12283.1	ENSP00000326253	RTBDN_HUMAN	K7EN64_HUMAN,K7EKV3_HUMAN,K7EIS2_HUMAN	UPI000006D823	.	.	.	5/7	.	Low_complexity_(Seg):seg,Pfam_domain:PF03024,hmmpanther:PTHR10517	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCGCAGGCG	.	5	BLCA
RAD23A	0	.	GRCh37	19	13059013	13059013	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.257C>T	p.Ser86Leu	p.S86L	ENST00000586534	3/9	33	25	8	45	45	0	RAD23A,missense_variant,p.Ser86Leu,ENST00000316856,;RAD23A,missense_variant,p.Ser86Leu,ENST00000592268,;RAD23A,missense_variant,p.Ser86Leu,ENST00000586534,;RAD23A,5_prime_UTR_variant,,ENST00000541222,;RAD23A,upstream_gene_variant,,ENST00000590881,;CALR,downstream_gene_variant,,ENST00000586760,;CALR,downstream_gene_variant,,ENST00000316448,;CTC-425F1.4,upstream_gene_variant,,ENST00000589120,;RAD23A,non_coding_transcript_exon_variant,,ENST00000588826,;RAD23A,missense_variant,p.Ser86Leu,ENST00000591499,;RAD23A,missense_variant,p.Ser86Leu,ENST00000593114,;RAD23A,non_coding_transcript_exon_variant,,ENST00000588329,;RAD23A,upstream_gene_variant,,ENST00000591467,;CALR,downstream_gene_variant,,ENST00000586967,;CALR,downstream_gene_variant,,ENST00000586803,;RAD23A,upstream_gene_variant,,ENST00000586375,;	T	ENSG00000179262	ENST00000586534	Transcript	missense_variant	318	257	86	S/L	tCa/tTa	.	.	.	1	RAD23A	HGNC	9812	protein_coding	YES	CCDS12289.1	ENSP00000467024	RD23A_HUMAN	K7ENJ0_HUMAN,B4DDJ7_HUMAN	UPI000000D7F7	.	tolerated(0.15)	benign(0.047)	3/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10621,hmmpanther:PTHR10621:SF3,TIGRFAM_domain:TIGR00601	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAGCAC	.	5	BLCA
OR7C2	0	.	GRCh37	19	15053034	15053034	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.734C>T	p.Ser245Leu	p.S245L	ENST00000248072	1/1	62	39	22	94	94	0	OR7C2,missense_variant,p.Ser245Leu,ENST00000248072,;	T	ENSG00000127529	ENST00000248072	Transcript	missense_variant	734	734	245	S/L	tCa/tTa	.	.	.	1	OR7C2	HGNC	8374	protein_coding	YES	CCDS12320.1	ENSP00000248072	OR7C2_HUMAN	.	UPI0000041E80	.	tolerated_low_confidence(0.14)	benign(0.042)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF307,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGTGG	.	5	BLCA
ILVBL	0	.	GRCh37	19	15230323	15230323	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820C>A	p.Gln274Lys	p.Q274K	ENST00000263383	8/16	34	27	7	33	33	0	ILVBL,missense_variant,p.Gln57Lys,ENST00000598709,;ILVBL,missense_variant,p.Gln167Lys,ENST00000534378,;ILVBL,missense_variant,p.Gln274Lys,ENST00000263383,;ILVBL,downstream_gene_variant,,ENST00000527093,;SYDE1,downstream_gene_variant,,ENST00000600252,;ILVBL,downstream_gene_variant,,ENST00000533747,;SYDE1,downstream_gene_variant,,ENST00000342784,;ILVBL,downstream_gene_variant,,ENST00000600984,;SYDE1,downstream_gene_variant,,ENST00000600440,;AC003956.1,upstream_gene_variant,,ENST00000598450,;ILVBL,non_coding_transcript_exon_variant,,ENST00000531635,;ILVBL,3_prime_UTR_variant,,ENST00000533148,;ILVBL,non_coding_transcript_exon_variant,,ENST00000533086,;ILVBL,upstream_gene_variant,,ENST00000534806,;ILVBL,upstream_gene_variant,,ENST00000596093,;ILVBL,upstream_gene_variant,,ENST00000524779,;ILVBL,upstream_gene_variant,,ENST00000525880,;	T	ENSG00000105135	ENST00000263383	Transcript	missense_variant	960	820	274	Q/K	Cag/Aag	.	.	.	-1	ILVBL	HGNC	6041	protein_coding	YES	CCDS12325.1	ENSP00000263383	ILVBL_HUMAN	M0R1B5_HUMAN,M0R026_HUMAN,M0QZX5_HUMAN,E9PL44_HUMAN,E9PJS0_HUMAN	UPI000007055E	.	tolerated(0.24)	benign(0.058)	8/16	.	Superfamily_domains:SSF52467,Gene3D:3.40.50.1220,Pfam_domain:PF00205,hmmpanther:PTHR18968:SF127,hmmpanther:PTHR18968	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCGCTGAACCT	.	3	BLCA
NOTCH3	0	.	GRCh37	19	15298144	15298144	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1612G>A	p.Glu538Lys	p.E538K	ENST00000263388	11/33	18	12	6	29	29	0	NOTCH3,missense_variant,p.Glu538Lys,ENST00000263388,;NOTCH3,missense_variant,p.Glu537Lys,ENST00000601011,;	T	ENSG00000074181	ENST00000263388	Transcript	missense_variant	1688	1612	538	E/K	Gag/Aag	.	.	.	-1	NOTCH3	HGNC	7883	protein_coding	YES	CCDS12326.1	ENSP00000263388	NOTC3_HUMAN	.	UPI000013D3FA	.	tolerated(0.06)	probably_damaging(0.997)	11/33	.	Superfamily_domains:SSF57196,SMART_domains:SM00181,PIRSF_domain:PIRSF002279,SMART_domains:SM00179,Gene3D:2gy5A03,Pfam_domain:PF00008,PROSITE_patterns:PS00022,PROSITE_patterns:PS01186,hmmpanther:PTHR24033,hmmpanther:PTHR24033:SF47,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCAAAGC	.	5	BLCA
AKAP8	0	.	GRCh37	19	15465709	15465709	+	3'UTR	SNP	G	G	A	rs760473339	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*17C>T	.	.	ENST00000269701	14/14	58	34	23	95	95	0	AKAP8,3_prime_UTR_variant,,ENST00000269701,;AKAP8,3_prime_UTR_variant,,ENST00000598597,;	A	ENSG00000105127	ENST00000269701	Transcript	3_prime_UTR_variant	2157	.	.	.	.	rs760473339	.	.	-1	AKAP8	HGNC	378	protein_coding	YES	CCDS12329.1	ENSP00000269701	AKAP8_HUMAN	Q9UG73_HUMAN	UPI000012575C	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTGGAACAG	.	5	BLCA
RASAL3	0	.	GRCh37	19	15562670	15562670	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2972C>T	p.Thr991Met	p.T991M	ENST00000343625	18/18	39	25	14	50	50	0	RASAL3,missense_variant,p.Thr425Met,ENST00000599694,;RASAL3,missense_variant,p.Thr991Met,ENST00000343625,;RASAL3,3_prime_UTR_variant,,ENST00000609274,;WIZ,upstream_gene_variant,,ENST00000596159,;WIZ,upstream_gene_variant,,ENST00000389282,;WIZ,upstream_gene_variant,,ENST00000263381,;MIR1470,downstream_gene_variant,,ENST00000600745,;RASAL3,downstream_gene_variant,,ENST00000595098,;RASAL3,non_coding_transcript_exon_variant,,ENST00000602101,;RASAL3,downstream_gene_variant,,ENST00000597025,;	A	ENSG00000105122	ENST00000343625	Transcript	missense_variant	3058	2972	991	T/M	aCg/aTg	.	.	.	-1	RASAL3	HGNC	26129	protein_coding	YES	CCDS46006.1	ENSP00000341905	RASL3_HUMAN	.	UPI0000197831	.	tolerated_low_confidence(0.11)	benign(0.2)	18/18	.	hmmpanther:PTHR10194:SF82,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGCGTCCTT	.	5	BLCA
RASAL3	0	.	GRCh37	19	15563582	15563582	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2715G>A	p.%3D	p.Q905Q	ENST00000343625	16/18	9	4	4	8	8	0	RASAL3,synonymous_variant,p.%3D,ENST00000343625,;RASAL3,synonymous_variant,p.%3D,ENST00000609274,;RASAL3,intron_variant,,ENST00000599694,;WIZ,upstream_gene_variant,,ENST00000596159,;WIZ,upstream_gene_variant,,ENST00000389282,;WIZ,upstream_gene_variant,,ENST00000263381,;MIR1470,downstream_gene_variant,,ENST00000600745,;RASAL3,downstream_gene_variant,,ENST00000608577,;RASAL3,downstream_gene_variant,,ENST00000595098,;RASAL3,non_coding_transcript_exon_variant,,ENST00000602101,;RASAL3,downstream_gene_variant,,ENST00000597025,;	T	ENSG00000105122	ENST00000343625	Transcript	synonymous_variant	2801	2715	905	Q	caG/caA	.	.	.	-1	RASAL3	HGNC	26129	protein_coding	YES	CCDS46006.1	ENSP00000341905	RASL3_HUMAN	.	UPI0000197831	.	.	.	16/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10194:SF82,hmmpanther:PTHR10194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTTTCTGCTC	.	2	BLCA
CYP4F3	0	.	GRCh37	19	15760829	15760829	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.754G>A	p.Asp252Asn	p.D252N	ENST00000221307	7/13	107	78	29	137	137	0	CYP4F3,missense_variant,p.Asp252Asn,ENST00000585846,;CYP4F3,missense_variant,p.Asp252Asn,ENST00000221307,;CYP4F3,missense_variant,p.Asp252Asn,ENST00000591058,;CYP4F3,missense_variant,p.Asp252Asn,ENST00000586182,;CYP4F3,missense_variant,p.Asp14Asn,ENST00000592424,;CYP4F3,non_coding_transcript_exon_variant,,ENST00000592279,;CYP4F3,downstream_gene_variant,,ENST00000587360,;CYP4F3,downstream_gene_variant,,ENST00000609670,;	A	ENSG00000186529	ENST00000221307	Transcript	missense_variant	801	754	252	D/N	Gat/Aat	COSM565011	.	.	1	CYP4F3	HGNC	2646	protein_coding	YES	CCDS12332.1	ENSP00000221307	CP4F3_HUMAN	B7Z5A8_HUMAN	UPI0000052BE3	.	tolerated(0.2)	benign(0.021)	7/13	.	hmmpanther:PTHR24290:SF46,hmmpanther:PTHR24290,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTGATGGG	.	5	BLCA
CYP4F3	0	.	GRCh37	19	15760928	15760928	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>A	p.Asp285Asn	p.D285N	ENST00000221307	7/13	68	44	23	100	100	0	CYP4F3,missense_variant,p.Asp285Asn,ENST00000585846,;CYP4F3,missense_variant,p.Asp285Asn,ENST00000221307,;CYP4F3,missense_variant,p.Asp285Asn,ENST00000591058,;CYP4F3,missense_variant,p.Asp285Asn,ENST00000586182,;CYP4F3,missense_variant,p.Asp47Asn,ENST00000592424,;CYP4F3,non_coding_transcript_exon_variant,,ENST00000592279,;CYP4F3,downstream_gene_variant,,ENST00000587360,;CYP4F3,downstream_gene_variant,,ENST00000609670,;	A	ENSG00000186529	ENST00000221307	Transcript	missense_variant	900	853	285	D/N	Gac/Aac	.	.	.	1	CYP4F3	HGNC	2646	protein_coding	YES	CCDS12332.1	ENSP00000221307	CP4F3_HUMAN	B7Z5A8_HUMAN	UPI0000052BE3	.	tolerated(0.09)	benign(0.073)	7/13	.	hmmpanther:PTHR24290:SF46,hmmpanther:PTHR24290,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGATGACTTC	.	5	BLCA
TCF3	0	.	GRCh37	19	1615467	1615467	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1639G>A	p.Glu547Lys	p.E547K	ENST00000262965	18/19	66	49	16	89	89	0	TCF3,missense_variant,p.Glu547Lys,ENST00000262965,;TCF3,missense_variant,p.Glu72Lys,ENST00000592628,;TCF3,missense_variant,p.Glu97Lys,ENST00000593064,;TCF3,missense_variant,p.Glu551Lys,ENST00000395423,;TCF3,missense_variant,p.Glu56Lys,ENST00000587425,;TCF3,intron_variant,,ENST00000588136,;TCF3,intron_variant,,ENST00000585731,;TCF3,intron_variant,,ENST00000590684,;TCF3,intron_variant,,ENST00000344749,;TCF3,intron_variant,,ENST00000453954,;TCF3,downstream_gene_variant,,ENST00000586410,;TCF3,downstream_gene_variant,,ENST00000590436,;RNU6-1223P,downstream_gene_variant,,ENST00000517124,;TCF3,missense_variant,p.Gly44Glu,ENST00000592395,;TCF3,missense_variant,p.Gly44Glu,ENST00000586164,;TCF3,missense_variant,p.Gly75Glu,ENST00000585855,;TCF3,downstream_gene_variant,,ENST00000590605,;	T	ENSG00000071564	ENST00000262965	Transcript	missense_variant	1984	1639	547	E/K	Gag/Aag	.	.	.	-1	TCF3	HGNC	11633	protein_coding	YES	CCDS12074.1	ENSP00000262965	TFE2_HUMAN	Q6PJU3_HUMAN,K7EPS2_HUMAN,K7ENI0_HUMAN,K7EKB9_HUMAN,B1NYC3_HUMAN	UPI0000136C80	.	deleterious(0)	benign(0.297)	18/19	.	hmmpanther:PTHR11793,hmmpanther:PTHR11793:SF7,Superfamily_domains:SSF47459	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCCCGCT	.	5	BLCA
MYO9B	0	.	GRCh37	19	17283681	17283681	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2049C>T	p.%3D	p.F683F	ENST00000595618	13/40	30	19	11	82	82	0	MYO9B,synonymous_variant,p.%3D,ENST00000595641,;MYO9B,synonymous_variant,p.%3D,ENST00000397274,;MYO9B,synonymous_variant,p.%3D,ENST00000595618,;MYO9B,synonymous_variant,p.%3D,ENST00000594824,;MYO9B,synonymous_variant,p.%3D,ENST00000594971,;MYO9B,upstream_gene_variant,,ENST00000602177,;CTD-3032J10.4,downstream_gene_variant,,ENST00000594678,;CTD-3032J10.2,upstream_gene_variant,,ENST00000599360,;CTD-3032J10.2,upstream_gene_variant,,ENST00000597216,;MYO9B,non_coding_transcript_exon_variant,,ENST00000598101,;	T	ENSG00000099331	ENST00000595618	Transcript	synonymous_variant	2201	2049	683	F	ttC/ttT	.	.	.	1	MYO9B	HGNC	7609	protein_coding	YES	CCDS46010.1	ENSP00000471457	MYO9B_HUMAN	Q4LE74_HUMAN	UPI000020367C	.	.	.	13/40	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF306,Pfam_domain:PF00063,SMART_domains:SM00242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTCCGCTG	.	5	BLCA
GTPBP3	0	.	GRCh37	19	17450306	17450306	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.968C>T	p.Pro323Leu	p.P323L	ENST00000358792	6/8	46	29	17	66	66	0	GTPBP3,missense_variant,p.Pro313Leu,ENST00000361619,;GTPBP3,missense_variant,p.Pro291Leu,ENST00000324894,;GTPBP3,missense_variant,p.Pro323Leu,ENST00000358792,;GTPBP3,missense_variant,p.Pro291Leu,ENST00000600625,;ANO8,upstream_gene_variant,,ENST00000159087,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000598038,;GTPBP3,downstream_gene_variant,,ENST00000596218,;GTPBP3,downstream_gene_variant,,ENST00000595951,;GTPBP3,downstream_gene_variant,,ENST00000595381,;GTPBP3,downstream_gene_variant,,ENST00000600995,;GTPBP3,downstream_gene_variant,,ENST00000596941,;GTPBP3,downstream_gene_variant,,ENST00000598532,;GTPBP3,downstream_gene_variant,,ENST00000593297,;GTPBP3,downstream_gene_variant,,ENST00000596166,;GTPBP3,downstream_gene_variant,,ENST00000594345,;GTPBP3,3_prime_UTR_variant,,ENST00000600610,;GTPBP3,3_prime_UTR_variant,,ENST00000598493,;GTPBP3,3_prime_UTR_variant,,ENST00000594018,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000596125,;GTPBP3,non_coding_transcript_exon_variant,,ENST00000602056,;GTPBP3,downstream_gene_variant,,ENST00000602165,;GTPBP3,downstream_gene_variant,,ENST00000594703,;GTPBP3,downstream_gene_variant,,ENST00000601983,;GTPBP3,downstream_gene_variant,,ENST00000599329,;GTPBP3,downstream_gene_variant,,ENST00000596001,;ANO8,upstream_gene_variant,,ENST00000597643,;GTPBP3,upstream_gene_variant,,ENST00000595194,;GTPBP3,downstream_gene_variant,,ENST00000601261,;ANO8,upstream_gene_variant,,ENST00000600711,;GTPBP3,downstream_gene_variant,,ENST00000601213,;GTPBP3,downstream_gene_variant,,ENST00000599429,;	T	ENSG00000130299	ENST00000358792	Transcript	missense_variant	1025	968	323	P/L	cCa/cTa	.	.	.	1	GTPBP3	HGNC	14880	protein_coding	YES	CCDS32950.1	ENSP00000351644	GTPB3_HUMAN	.	UPI000059D6A7	.	deleterious(0.03)	possibly_damaging(0.755)	6/8	.	PROSITE_profiles:PS51709,HAMAP:MF_00379,hmmpanther:PTHR11649,hmmpanther:PTHR11649:SF56,Gene3D:1xzpA02,TIGRFAM_domain:TIGR00231,Pfam_domain:PF01926,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCCCAGTCG	.	5	BLCA
ATP8B3	0	.	GRCh37	19	1811633	1811633	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103C>T	p.Gln35Ter	p.Q35*	ENST00000310127	2/29	13	6	7	33	33	0	ATP8B3,stop_gained,p.Gln35Ter,ENST00000310127,;ATP8B3,stop_gained,p.Gln35Ter,ENST00000587160,;ATP8B3,stop_gained,p.Gln35Ter,ENST00000539485,;ATP8B3,5_prime_UTR_variant,,ENST00000526092,;ATP8B3,5_prime_UTR_variant,,ENST00000525591,;ATP8B3,upstream_gene_variant,,ENST00000533993,;REXO1,downstream_gene_variant,,ENST00000170168,;MIR1909,downstream_gene_variant,,ENST00000411312,;CTB-31O20.3,upstream_gene_variant,,ENST00000586259,;ATP8B3,stop_gained,p.Gln35Ter,ENST00000531925,;REXO1,downstream_gene_variant,,ENST00000587404,;REXO1,downstream_gene_variant,,ENST00000590936,;REXO1,downstream_gene_variant,,ENST00000586291,;	A	ENSG00000130270	ENST00000310127	Transcript	stop_gained	342	103	35	Q/*	Cag/Tag	.	.	.	-1	ATP8B3	HGNC	13535	protein_coding	YES	CCDS45901.1	ENSP00000311336	AT8B3_HUMAN	.	UPI0000074660	.	.	.	2/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCCTGAGTCA	.	3	BLCA
REXO1	0	.	GRCh37	19	1828430	1828430	+	Missense_Mutation	SNP	G	G	A	rs766572646	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358C>T	p.Arg120Cys	p.R120C	ENST00000170168	2/16	16	11	5	25	25	0	REXO1,missense_variant,p.Arg120Cys,ENST00000170168,;CTB-31O20.4,downstream_gene_variant,,ENST00000587741,;CTB-31O20.4,downstream_gene_variant,,ENST00000593201,;REXO1,non_coding_transcript_exon_variant,,ENST00000587524,;CTB-31O20.4,downstream_gene_variant,,ENST00000590823,;	A	ENSG00000079313	ENST00000170168	Transcript	missense_variant	453	358	120	R/C	Cgc/Tgc	rs766572646	.	.	-1	REXO1	HGNC	24616	protein_coding	YES	CCDS32866.1	ENSP00000170168	REXO1_HUMAN	.	UPI0000202F63	.	deleterious(0.03)	benign(0.361)	2/16	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGCGGTGCT	.	5	BLCA
FKBP8	0	.	GRCh37	19	18652507	18652507	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>A	p.Glu92Lys	p.E92K	ENST00000608443	2/9	35	19	15	42	42	0	FKBP8,missense_variant,p.Glu92Lys,ENST00000544835,;FKBP8,missense_variant,p.Glu121Lys,ENST00000453489,;FKBP8,missense_variant,p.Glu92Lys,ENST00000594844,;FKBP8,missense_variant,p.Glu92Lys,ENST00000608443,;FKBP8,missense_variant,p.Glu92Lys,ENST00000610101,;FKBP8,missense_variant,p.Glu92Lys,ENST00000599540,;FKBP8,missense_variant,p.Glu92Lys,ENST00000597960,;FKBP8,missense_variant,p.Glu92Lys,ENST00000222308,;FKBP8,missense_variant,p.Glu92Lys,ENST00000597547,;FKBP8,missense_variant,p.Glu92Lys,ENST00000596558,;FKBP8,missense_variant,p.Glu92Lys,ENST00000597611,;FKBP8,upstream_gene_variant,,ENST00000596015,;FKBP8,upstream_gene_variant,,ENST00000606531,;FKBP8,downstream_gene_variant,,ENST00000609656,;FKBP8,missense_variant,p.Glu92Lys,ENST00000601844,;FKBP8,upstream_gene_variant,,ENST00000596494,;	T	ENSG00000105701	ENST00000608443	Transcript	missense_variant	474	274	92	E/K	Gag/Aag	.	.	.	-1	FKBP8	HGNC	3724	protein_coding	YES	CCDS32961.1	ENSP00000476767	.	M0R2Q6_HUMAN,M0R2K9_HUMAN,M0R1S6_HUMAN,M0R1Q0_HUMAN,B2R8G6_HUMAN	UPI000020376E	.	deleterious(0.01)	benign(0.144)	2/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10516:SF271,hmmpanther:PTHR10516	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCTTCTG	.	5	BLCA
UPF1	0	.	GRCh37	19	18963847	18963847	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1024A>T	p.Ile342Phe	p.I342F	ENST00000262803	7/24	75	49	26	92	92	0	UPF1,missense_variant,p.Ile342Phe,ENST00000599848,;UPF1,missense_variant,p.Ile342Phe,ENST00000262803,;UPF1,downstream_gene_variant,,ENST00000598209,;UPF1,downstream_gene_variant,,ENST00000601981,;UPF1,downstream_gene_variant,,ENST00000600310,;UPF1,downstream_gene_variant,,ENST00000600868,;UPF1,downstream_gene_variant,,ENST00000594504,;UPF1,downstream_gene_variant,,ENST00000600012,;UPF1,downstream_gene_variant,,ENST00000598471,;UPF1,non_coding_transcript_exon_variant,,ENST00000601689,;UPF1,upstream_gene_variant,,ENST00000594243,;	T	ENSG00000005007	ENST00000262803	Transcript	missense_variant	1296	1024	342	I/F	Atc/Ttc	.	.	.	1	UPF1	HGNC	9962	protein_coding	YES	CCDS12386.1	ENSP00000262803	RENT1_HUMAN	B3KY55_HUMAN	UPI0000001C89	.	deleterious(0.03)	benign(0.076)	7/24	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF340	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAATCGCC	.	5	BLCA
SUGP1	0	.	GRCh37	19	19390135	19390135	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1415G>A	p.Trp472Ter	p.W472*	ENST00000247001	10/14	16	11	4	28	28	0	SUGP1,stop_gained,p.Trp472Ter,ENST00000247001,;SUGP1,3_prime_UTR_variant,,ENST00000587119,;SUGP1,3_prime_UTR_variant,,ENST00000588731,;SUGP1,3_prime_UTR_variant,,ENST00000589144,;SUGP1,non_coding_transcript_exon_variant,,ENST00000591007,;SUGP1,non_coding_transcript_exon_variant,,ENST00000592188,;	T	ENSG00000105705	ENST00000247001	Transcript	stop_gained	1763	1415	472	W/*	tGg/tAg	.	.	.	-1	SUGP1	HGNC	18643	protein_coding	YES	CCDS12399.1	ENSP00000247001	SUGP1_HUMAN	U3KPX0_HUMAN,K7ESM0_HUMAN,B3KS44_HUMAN	UPI00001B6B07	.	.	.	10/14	.	hmmpanther:PTHR23340,hmmpanther:PTHR23340:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCCCACAGC	.	5	BLCA
ZNF66	0	.	GRCh37	19	20959146	20959146	+	5'Flank	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000344519	.	40	26	14	40	40	0	ZNF66,5_prime_UTR_variant,,ENST00000594534,;ZNF66,5_prime_UTR_variant,,ENST00000360204,;ZNF66,upstream_gene_variant,,ENST00000344519,;	T	ENSG00000160229	ENST00000344519	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	85	1	ZNF66	HGNC	13135	protein_coding	YES	.	ENSP00000461425	ZNF66_HUMAN	.	UPI00025A2C0A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCACTGC	.	5	BLCA
ZNF493	0	.	GRCh37	19	21605967	21605967	+	Nonsense_Mutation	SNP	C	C	G	rs776732025	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.506C>G	p.Ser169Ter	p.S169*	ENST00000392288	4/4	129	89	40	131	131	0	ZNF493,stop_gained,p.Ser41Ter,ENST00000355504,;ZNF493,stop_gained,p.Ser169Ter,ENST00000392288,;ZNF493,downstream_gene_variant,,ENST00000596302,;CTD-2561J22.3,intron_variant,,ENST00000600810,;ZNF493,downstream_gene_variant,,ENST00000598152,;	G	ENSG00000196268	ENST00000392288	Transcript	stop_gained	615	506	169	S/*	tCa/tGa	rs776732025	.	.	1	ZNF493	HGNC	23708	protein_coding	YES	CCDS42536.1	ENSP00000376110	ZN493_HUMAN	.	UPI000022ABBF	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF247,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATTCAAATA	.	5	BLCA
ZNF43	0	.	GRCh37	19	21991775	21991775	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1064C>T	p.Ser355Leu	p.S355L	ENST00000354959	4/4	64	42	22	68	68	0	ZNF43,missense_variant,p.Ser349Leu,ENST00000595461,;ZNF43,missense_variant,p.Ser355Leu,ENST00000354959,;ZNF43,missense_variant,p.Ser349Leu,ENST00000594012,;ZNF43,missense_variant,p.Ser349Leu,ENST00000598381,;ZNF43,downstream_gene_variant,,ENST00000599906,;ZNF43,downstream_gene_variant,,ENST00000598288,;ZNF43,downstream_gene_variant,,ENST00000596899,;	A	ENSG00000198521	ENST00000354959	Transcript	missense_variant	1234	1064	355	S/L	tCa/tTa	.	.	.	-1	ZNF43	HGNC	13109	protein_coding	YES	CCDS12413.2	ENSP00000347045	ZNF43_HUMAN	M0R0T7_HUMAN,M0QYJ6_HUMAN,M0QXI2_HUMAN	UPI00001BD957	.	deleterious(0.03)	benign(0.126)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF220,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTGAGAAC	.	5	BLCA
C19orf35	0	.	GRCh37	19	2276270	2276270	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.831C>T	p.%3D	p.F277F	ENST00000342063	4/4	11	5	6	10	10	0	C19orf35,synonymous_variant,p.%3D,ENST00000342063,;OAZ1,downstream_gene_variant,,ENST00000602676,;OAZ1,downstream_gene_variant,,ENST00000322297,;OAZ1,downstream_gene_variant,,ENST00000583542,;OAZ1,downstream_gene_variant,,ENST00000582888,;OAZ1,downstream_gene_variant,,ENST00000588673,;C19orf35,intron_variant,,ENST00000590316,;OAZ1,downstream_gene_variant,,ENST00000592727,;OAZ1,downstream_gene_variant,,ENST00000593012,;OAZ1,downstream_gene_variant,,ENST00000589739,;OAZ1,downstream_gene_variant,,ENST00000590943,;OAZ1,downstream_gene_variant,,ENST00000586054,;OAZ1,downstream_gene_variant,,ENST00000589361,;OAZ1,downstream_gene_variant,,ENST00000592787,;OAZ1,downstream_gene_variant,,ENST00000581150,;	A	ENSG00000188305	ENST00000342063	Transcript	synonymous_variant	925	831	277	F	ttC/ttT	.	.	.	-1	C19orf35	HGNC	24793	protein_coding	YES	CCDS12087.1	ENSP00000345102	CS035_HUMAN	.	UPI00001C0E91	.	.	.	4/4	.	hmmpanther:PTHR22972,hmmpanther:PTHR22972:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CACACGAACTC	.	3	BLCA
ZNF91	0	.	GRCh37	19	23544609	23544609	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1172C>T	p.Ser391Leu	p.S391L	ENST00000300619	4/4	53	33	19	108	108	0	ZNF91,missense_variant,p.Ser359Leu,ENST00000397082,;ZNF91,missense_variant,p.Ser391Leu,ENST00000300619,;ZNF91,intron_variant,,ENST00000599743,;ZNF91,downstream_gene_variant,,ENST00000595533,;ZNF91,intron_variant,,ENST00000596989,;ZNF91,upstream_gene_variant,,ENST00000593341,;ZNF91,upstream_gene_variant,,ENST00000599281,;ZNF91,upstream_gene_variant,,ENST00000596528,;	A	ENSG00000167232	ENST00000300619	Transcript	missense_variant	1378	1172	391	S/L	tCa/tTa	.	.	.	-1	ZNF91	HGNC	13166	protein_coding	YES	CCDS42541.1	ENSP00000300619	ZNF91_HUMAN	M0R186_HUMAN	UPI00002038F9	.	tolerated(0.05)	benign(0.307)	4/4	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF100,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTGAGAGT	.	5	BLCA
ZNF675	0	.	GRCh37	19	23837214	23837214	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.521G>A	p.Cys174Tyr	p.C174Y	ENST00000359788	4/4	33	20	13	32	32	0	ZNF675,missense_variant,p.Cys174Tyr,ENST00000359788,;ZNF675,incomplete_terminal_codon_variant,p.%3D,ENST00000599535,;ZNF675,intron_variant,,ENST00000601935,;ZNF675,intron_variant,,ENST00000596211,;ZNF675,intron_variant,,ENST00000600313,;ZNF675,downstream_gene_variant,,ENST00000601010,;ZNF675,non_coding_transcript_exon_variant,,ENST00000600299,;ZNF675,downstream_gene_variant,,ENST00000597074,;	T	ENSG00000197372	ENST00000359788	Transcript	missense_variant	690	521	174	C/Y	tGt/tAt	.	.	.	-1	ZNF675	HGNC	30768	protein_coding	YES	CCDS32981.1	ENSP00000352836	ZN675_HUMAN	M0R373_HUMAN	UPI0000203902	.	deleterious(0.05)	benign(0.008)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF115,Pfam_domain:PF00096,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTACATTTG	.	5	BLCA
LMNB2	0	.	GRCh37	19	2438447	2438447	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484G>A	p.Glu162Lys	p.E162K	ENST00000325327	3/12	18	10	8	25	25	0	LMNB2,missense_variant,p.Glu142Lys,ENST00000582871,;LMNB2,missense_variant,p.Glu162Lys,ENST00000325327,;LMNB2,upstream_gene_variant,,ENST00000532465,;LMNB2,upstream_gene_variant,,ENST00000527409,;LMNB2,upstream_gene_variant,,ENST00000534495,;LMNB2,upstream_gene_variant,,ENST00000490554,;	T	ENSG00000176619	ENST00000325327	Transcript	missense_variant	547	484	162	E/K	Gag/Aag	.	.	.	-1	LMNB2	HGNC	6638	protein_coding	YES	CCDS12090.2	ENSP00000327054	.	J9JID7_HUMAN	UPI000059D625	.	tolerated(0.62)	possibly_damaging(0.562)	3/12	.	hmmpanther:PTHR23239:SF152,hmmpanther:PTHR23239,Pfam_domain:PF00038	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCACCT	.	5	BLCA
ZNF507	0	.	GRCh37	19	32845726	32845726	+	Nonsense_Mutation	SNP	C	C	T	rs563902319	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1990C>T	p.Arg664Ter	p.R664*	ENST00000311921	2/6	48	32	15	74	74	0	ZNF507,stop_gained,p.Arg664Ter,ENST00000355898,;ZNF507,stop_gained,p.Arg664Ter,ENST00000311921,;ZNF507,stop_gained,p.Arg664Ter,ENST00000544431,;ZNF507,non_coding_transcript_exon_variant,,ENST00000587084,;	T	ENSG00000168813	ENST00000311921	Transcript	stop_gained	2182	1990	664	R/*	Cga/Tga	rs563902319	.	.	1	ZNF507	HGNC	23783	protein_coding	YES	CCDS32985.1	ENSP00000312277	ZN507_HUMAN	.	UPI0000202010	.	.	.	2/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF193,hmmpanther:PTHR24402,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCGACAG	by1000G	5	BLCA
MIER2	0	.	GRCh37	19	334451	334451	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192G>A	p.%3D	p.S64S	ENST00000264819	3/14	67	52	15	80	80	0	MIER2,synonymous_variant,p.%3D,ENST00000264819,;MIER2,non_coding_transcript_exon_variant,,ENST00000592722,;MIER2,non_coding_transcript_exon_variant,,ENST00000586994,;MIER2,non_coding_transcript_exon_variant,,ENST00000587966,;	T	ENSG00000105556	ENST00000264819	Transcript	synonymous_variant	203	192	64	S	tcG/tcA	.	.	.	-1	MIER2	HGNC	29210	protein_coding	YES	CCDS32855.1	ENSP00000264819	MIER2_HUMAN	.	UPI00001AE8C2	.	.	.	3/14	.	hmmpanther:PTHR10865,hmmpanther:PTHR10865:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCGAGGC	.	5	BLCA
WTIP	0	.	GRCh37	19	34983944	34983944	+	Nonsense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772A>T	p.Arg258Ter	p.R258*	ENST00000590071	3/8	65	44	21	84	84	0	WTIP,stop_gained,p.Arg258Ter,ENST00000590071,;WTIP,stop_gained,p.Arg74Ter,ENST00000585928,;WTIP,stop_gained,p.Arg482Ter,ENST00000270288,;	T	ENSG00000142279	ENST00000590071	Transcript	stop_gained	1109	772	258	R/*	Aga/Tga	.	.	.	1	WTIP	HGNC	20964	protein_coding	YES	CCDS59375.1	ENSP00000466953	WTIP_HUMAN	.	UPI00006C19C5	.	.	.	3/8	.	PROSITE_profiles:PS50023,hmmpanther:PTHR24219:SF6,hmmpanther:PTHR24219,Pfam_domain:PF00412,Gene3D:2.10.110.10,SMART_domains:SM00132,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGGAGACGA	.	5	BLCA
TBXA2R	0	.	GRCh37	19	3600291	3600291	+	Silent	SNP	G	G	A	rs745841580	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.342C>T	p.%3D	p.F114F	ENST00000411851	2/4	23	12	11	39	39	0	TBXA2R,synonymous_variant,p.%3D,ENST00000589966,;TBXA2R,synonymous_variant,p.%3D,ENST00000411851,;TBXA2R,synonymous_variant,p.%3D,ENST00000375190,;TBXA2R,upstream_gene_variant,,ENST00000587717,;	A	ENSG00000006638	ENST00000411851	Transcript	synonymous_variant	556	342	114	F	ttC/ttT	rs745841580	.	.	-1	TBXA2R	HGNC	11608	protein_coding	YES	CCDS54198.1	ENSP00000393333	TA2R_HUMAN	Q05C92_HUMAN	UPI00000711C4	.	.	.	2/4	.	Prints_domain:PR01788,Prints_domain:PR00429,Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,Pfam_domain:PF00001,hmmpanther:PTHR11866:SF5,hmmpanther:PTHR11866,PROSITE_profiles:PS50262,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAAGAAGAT	.	5	BLCA
HAUS5	0	.	GRCh37	19	36106037	36106037	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313A>G	p.Thr105Ala	p.T105A	ENST00000203166	5/19	11	6	5	10	10	0	HAUS5,missense_variant,p.Thr105Ala,ENST00000203166,;HAUS5,missense_variant,p.Thr105Ala,ENST00000379045,;HAUS5,upstream_gene_variant,,ENST00000590994,;AC002115.9,upstream_gene_variant,,ENST00000589603,;HAUS5,missense_variant,p.Thr105Ala,ENST00000587439,;HAUS5,3_prime_UTR_variant,,ENST00000592291,;HAUS5,3_prime_UTR_variant,,ENST00000424522,;HAUS5,non_coding_transcript_exon_variant,,ENST00000428854,;HAUS5,non_coding_transcript_exon_variant,,ENST00000585968,;HAUS5,upstream_gene_variant,,ENST00000430749,;HAUS5,downstream_gene_variant,,ENST00000588570,;	G	ENSG00000249115	ENST00000203166	Transcript	missense_variant	338	313	105	T/A	Act/Gct	.	.	.	1	HAUS5	HGNC	29130	protein_coding	YES	CCDS42550.1	ENSP00000439056	HAUS5_HUMAN	.	UPI0000169F45	.	tolerated(0.47)	benign(0.014)	5/19	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF14817	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAGACACTGAG	.	3	BLCA
COX6B1	0	.	GRCh37	19	36142139	36142139	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7C>T	.	.	ENST00000246554	2/4	21	16	4	46	46	0	COX6B1,5_prime_UTR_variant,,ENST00000392201,;COX6B1,5_prime_UTR_variant,,ENST00000246554,;COX6B1,5_prime_UTR_variant,,ENST00000592141,;COX6B1,upstream_gene_variant,,ENST00000590618,;	T	ENSG00000126267	ENST00000246554	Transcript	5_prime_UTR_variant	186	.	.	.	.	.	.	.	1	COX6B1	HGNC	2280	protein_coding	YES	CCDS12469.1	ENSP00000246554	CX6B1_HUMAN	.	UPI00000527BE	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCAGCAC	.	5	BLCA
PSENEN	0	.	GRCh37	19	36236834	36236834	+	Translation_Start_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000587708	2/4	56	40	16	57	57	0	PSENEN,start_lost,p.Met1?,ENST00000222266,;PSENEN,start_lost,p.Met1?,ENST00000587708,;PSENEN,start_lost,p.Met1?,ENST00000591949,;U2AF1L4,upstream_gene_variant,,ENST00000378975,;LIN37,upstream_gene_variant,,ENST00000301159,;IGFLR1,upstream_gene_variant,,ENST00000586140,;IGFLR1,upstream_gene_variant,,ENST00000246532,;IGFLR1,upstream_gene_variant,,ENST00000344990,;U2AF1L4,upstream_gene_variant,,ENST00000292879,;U2AF1L4,upstream_gene_variant,,ENST00000412391,;LIN37,upstream_gene_variant,,ENST00000587751,;IGFLR1,upstream_gene_variant,,ENST00000588992,;IGFLR1,upstream_gene_variant,,ENST00000592889,;IGFLR1,upstream_gene_variant,,ENST00000592537,;IGFLR1,upstream_gene_variant,,ENST00000591277,;AC002398.11,downstream_gene_variant,,ENST00000591091,;AC002398.11,downstream_gene_variant,,ENST00000585365,;LIN37,upstream_gene_variant,,ENST00000591076,;U2AF1L4,upstream_gene_variant,,ENST00000588100,;AC002398.9,start_lost,p.Met1?,ENST00000591613,;U2AF1L4,upstream_gene_variant,,ENST00000585554,;U2AF1L4,upstream_gene_variant,,ENST00000591084,;U2AF1L4,upstream_gene_variant,,ENST00000586476,;U2AF1L4,upstream_gene_variant,,ENST00000587987,;U2AF1L4,upstream_gene_variant,,ENST00000600296,;U2AF1L4,upstream_gene_variant,,ENST00000590135,;U2AF1L4,upstream_gene_variant,,ENST00000594792,;IGFLR1,upstream_gene_variant,,ENST00000588018,;U2AF1L4,upstream_gene_variant,,ENST00000592913,;U2AF1L4,upstream_gene_variant,,ENST00000591057,;LIN37,upstream_gene_variant,,ENST00000587108,;IGFLR1,upstream_gene_variant,,ENST00000589175,;U2AF1L4,upstream_gene_variant,,ENST00000587886,;U2AF1L4,upstream_gene_variant,,ENST00000589429,;U2AF1L4,upstream_gene_variant,,ENST00000601236,;AD000671.6,upstream_gene_variant,,ENST00000589807,;U2AF1L4,upstream_gene_variant,,ENST00000591855,;U2AF1L4,upstream_gene_variant,,ENST00000590650,;U2AF1L4,upstream_gene_variant,,ENST00000588980,;U2AF1L4,upstream_gene_variant,,ENST00000588892,;IGFLR1,upstream_gene_variant,,ENST00000592693,;U2AF1L4,upstream_gene_variant,,ENST00000585771,;LIN37,upstream_gene_variant,,ENST00000595455,;LIN37,upstream_gene_variant,,ENST00000590706,;LIN37,upstream_gene_variant,,ENST00000592871,;	A	ENSG00000205155	ENST00000587708	Transcript	start_lost	686	3	1	M/I	atG/atA	.	.	.	1	PSENEN	HGNC	30100	protein_coding	YES	CCDS12474.1	ENSP00000468411	PEN2_HUMAN	K7ERS5_HUMAN	UPI000006FFC1	.	deleterious(0.01)	probably_damaging(0.926)	2/4	.	hmmpanther:PTHR16318	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATGAACCT	.	5	BLCA
PSENEN	0	.	GRCh37	19	36236879	36236879	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48G>A	p.%3D	p.R16R	ENST00000587708	2/4	38	28	10	46	46	0	PSENEN,synonymous_variant,p.%3D,ENST00000222266,;PSENEN,synonymous_variant,p.%3D,ENST00000587708,;PSENEN,synonymous_variant,p.%3D,ENST00000591949,;U2AF1L4,upstream_gene_variant,,ENST00000378975,;LIN37,upstream_gene_variant,,ENST00000301159,;IGFLR1,upstream_gene_variant,,ENST00000586140,;IGFLR1,upstream_gene_variant,,ENST00000246532,;IGFLR1,upstream_gene_variant,,ENST00000344990,;U2AF1L4,upstream_gene_variant,,ENST00000292879,;U2AF1L4,upstream_gene_variant,,ENST00000412391,;LIN37,upstream_gene_variant,,ENST00000587751,;IGFLR1,upstream_gene_variant,,ENST00000588992,;IGFLR1,upstream_gene_variant,,ENST00000592889,;IGFLR1,upstream_gene_variant,,ENST00000592537,;IGFLR1,upstream_gene_variant,,ENST00000591277,;AC002398.11,downstream_gene_variant,,ENST00000591091,;AC002398.11,downstream_gene_variant,,ENST00000585365,;LIN37,upstream_gene_variant,,ENST00000591076,;U2AF1L4,upstream_gene_variant,,ENST00000588100,;AC002398.9,synonymous_variant,p.%3D,ENST00000591613,;U2AF1L4,upstream_gene_variant,,ENST00000585554,;U2AF1L4,upstream_gene_variant,,ENST00000591084,;U2AF1L4,upstream_gene_variant,,ENST00000586476,;U2AF1L4,upstream_gene_variant,,ENST00000587987,;U2AF1L4,upstream_gene_variant,,ENST00000600296,;U2AF1L4,upstream_gene_variant,,ENST00000590135,;U2AF1L4,upstream_gene_variant,,ENST00000594792,;IGFLR1,upstream_gene_variant,,ENST00000588018,;U2AF1L4,upstream_gene_variant,,ENST00000592913,;U2AF1L4,upstream_gene_variant,,ENST00000591057,;LIN37,upstream_gene_variant,,ENST00000587108,;IGFLR1,upstream_gene_variant,,ENST00000589175,;U2AF1L4,upstream_gene_variant,,ENST00000587886,;U2AF1L4,upstream_gene_variant,,ENST00000589429,;U2AF1L4,upstream_gene_variant,,ENST00000601236,;AD000671.6,upstream_gene_variant,,ENST00000589807,;U2AF1L4,upstream_gene_variant,,ENST00000591855,;U2AF1L4,upstream_gene_variant,,ENST00000590650,;U2AF1L4,upstream_gene_variant,,ENST00000588980,;U2AF1L4,upstream_gene_variant,,ENST00000588892,;IGFLR1,upstream_gene_variant,,ENST00000592693,;U2AF1L4,upstream_gene_variant,,ENST00000585771,;LIN37,upstream_gene_variant,,ENST00000595455,;LIN37,upstream_gene_variant,,ENST00000590706,;LIN37,upstream_gene_variant,,ENST00000592871,;	A	ENSG00000205155	ENST00000587708	Transcript	synonymous_variant	731	48	16	R	cgG/cgA	.	.	.	1	PSENEN	HGNC	30100	protein_coding	YES	CCDS12474.1	ENSP00000468411	PEN2_HUMAN	K7ERS5_HUMAN	UPI000006FFC1	.	.	.	2/4	.	hmmpanther:PTHR16318,Pfam_domain:PF10251	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TGCCGGAAGTA	.	2	BLCA
ZNF571	0	.	GRCh37	19	38055618	38055618	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1712C>T	p.Ser571Leu	p.S571L	ENST00000328550	4/5	76	36	40	67	67	0	ZNF571,missense_variant,p.Ser571Leu,ENST00000593133,;ZNF571,missense_variant,p.Ser571Leu,ENST00000358744,;ZNF571,missense_variant,p.Ser571Leu,ENST00000451802,;ZNF571,missense_variant,p.Ser571Leu,ENST00000328550,;ZNF571,intron_variant,,ENST00000590751,;ZNF540,intron_variant,,ENST00000592533,;ZNF571,downstream_gene_variant,,ENST00000590390,;ZNF571-AS1,intron_variant,,ENST00000586013,;ZNF571-AS1,intron_variant,,ENST00000589750,;ZNF571-AS1,intron_variant,,ENST00000587121,;ZNF571-AS1,intron_variant,,ENST00000591430,;ZNF571-AS1,intron_variant,,ENST00000590838,;ZNF571-AS1,intron_variant,,ENST00000586139,;ZNF571-AS1,intron_variant,,ENST00000585578,;ZNF571-AS1,intron_variant,,ENST00000589802,;ZNF571-AS1,intron_variant,,ENST00000592392,;ZNF571-AS1,downstream_gene_variant,,ENST00000588382,;	A	ENSG00000180479	ENST00000328550	Transcript	missense_variant	1812	1712	571	S/L	tCa/tTa	.	.	.	-1	ZNF571	HGNC	25000	protein_coding	YES	CCDS12505.1	ENSP00000333660	ZN571_HUMAN	.	UPI000020220A	.	deleterious(0.04)	benign(0.081)	4/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF141,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTGAGCCA	.	5	BLCA
SPINT2	0	.	GRCh37	19	38782620	38782640	+	In_Frame_Del	DEL	CTGGTGAAGAACACATATGTC	CTGGTGAAGAACACATATGTC	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	CTGGTGAAGAACACATATGTC	CTGGTGAAGAACACATATGTC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736_756delGTGAAGAACACATATGTCCTG	p.Val246_Leu252del	p.V246_L252del	ENST00000301244	7/7	30	22	8	22	22	0	SPINT2,inframe_deletion,p.Val196_Leu202del,ENST00000587090,;SPINT2,inframe_deletion,p.Val100_Leu106del,ENST00000587334,;SPINT2,inframe_deletion,p.Val189_Leu195del,ENST00000454580,;SPINT2,inframe_deletion,p.Val246_Leu252del,ENST00000301244,;CTB-102L5.4,intron_variant,,ENST00000591889,;CTB-102L5.4,intron_variant,,ENST00000587519,;SPINT2,downstream_gene_variant,,ENST00000592007,;SPINT2,downstream_gene_variant,,ENST00000590510,;SPINT2,downstream_gene_variant,,ENST00000590738,;SPINT2,downstream_gene_variant,,ENST00000587516,;Y_RNA,upstream_gene_variant,,ENST00000363339,;SPINT2,non_coding_transcript_exon_variant,,ENST00000585357,;SPINT2,downstream_gene_variant,,ENST00000590210,;SPINT2,downstream_gene_variant,,ENST00000589749,;	-	ENSG00000167642	ENST00000301244	Transcript	inframe_deletion	1168-1188	733-753	245-251	LVKNTYV/-	CTGGTGAAGAACACATATGTC/-	.	.	.	1	SPINT2	HGNC	11247	protein_coding	YES	CCDS12510.1	ENSP00000301244	SPIT2_HUMAN	K7EM91_HUMAN,K7EKC8_HUMAN,K7EJS4_HUMAN	UPI0000135E8E	.	.	.	7/7	.	hmmpanther:PTHR10083,hmmpanther:PTHR10083:SF177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	VARSCANI*|PINDEL	GAGCAGCTGGTGAAGAACACATATGTCCTGTG	.	2	BLCA
C19orf33	0	.	GRCh37	19	38794891	38794891	+	5'UTR	SNP	C	C	T	rs771799308	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11C>T	.	.	ENST00000301246	1/4	25	21	4	9	9	0	C19orf33,5_prime_UTR_variant,,ENST00000588605,;C19orf33,5_prime_UTR_variant,,ENST00000301246,;CTB-102L5.4,intron_variant,,ENST00000591889,;CTB-102L5.4,intron_variant,,ENST00000587519,;YIF1B,downstream_gene_variant,,ENST00000592246,;YIF1B,downstream_gene_variant,,ENST00000337679,;YIF1B,downstream_gene_variant,,ENST00000592694,;YIF1B,downstream_gene_variant,,ENST00000329420,;YIF1B,downstream_gene_variant,,ENST00000339413,;YIF1B,downstream_gene_variant,,ENST00000589247,;YIF1B,downstream_gene_variant,,ENST00000588002,;YIF1B,downstream_gene_variant,,ENST00000591784,;YIF1B,downstream_gene_variant,,ENST00000587039,;YIF1B,downstream_gene_variant,,ENST00000392124,;YIF1B,downstream_gene_variant,,ENST00000591755,;YIF1B,downstream_gene_variant,,ENST00000587361,;C19orf33,non_coding_transcript_exon_variant,,ENST00000589986,;YIF1B,downstream_gene_variant,,ENST00000589151,;YIF1B,downstream_gene_variant,,ENST00000586319,;C19orf33,upstream_gene_variant,,ENST00000591852,;YIF1B,downstream_gene_variant,,ENST00000589644,;YIF1B,downstream_gene_variant,,ENST00000585563,;	T	ENSG00000167644	ENST00000301246	Transcript	5_prime_UTR_variant	91	.	.	.	.	rs771799308	.	.	1	C19orf33	HGNC	16668	protein_coding	YES	CCDS12511.1	ENSP00000301246	IMUP_HUMAN	.	UPI000006DC1A	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTTCTCTTA	.	4	BLCA
SPRED3	0	.	GRCh37	19	38882717	38882717	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309G>A	p.%3D	p.Q103Q	ENST00000338502	2/5	93	40	53	72	72	0	SPRED3,synonymous_variant,p.%3D,ENST00000587947,;SPRED3,synonymous_variant,p.%3D,ENST00000338502,;SPRED3,synonymous_variant,p.%3D,ENST00000586301,;SPRED3,synonymous_variant,p.%3D,ENST00000587013,;GGN,upstream_gene_variant,,ENST00000334928,;GGN,upstream_gene_variant,,ENST00000586599,;GGN,upstream_gene_variant,,ENST00000587676,;SPRED3,non_coding_transcript_exon_variant,,ENST00000587564,;GGN,upstream_gene_variant,,ENST00000591809,;SPRED3,synonymous_variant,p.%3D,ENST00000586958,;SPRED3,non_coding_transcript_exon_variant,,ENST00000590962,;GGN,upstream_gene_variant,,ENST00000585737,;	A	ENSG00000188766	ENST00000338502	Transcript	synonymous_variant	412	309	103	Q	caG/caA	.	.	.	1	SPRED3	HGNC	31041	protein_coding	YES	CCDS42560.1	ENSP00000345405	SPRE3_HUMAN	K7EPT9_HUMAN	UPI000040BCE3	.	.	.	2/5	.	PROSITE_profiles:PS50229,hmmpanther:PTHR11202,hmmpanther:PTHR11202:SF19,Gene3D:2.30.29.30,Pfam_domain:PF00568,SMART_domains:SM00461,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCAGAAGAG	.	5	BLCA
RYR1	0	.	GRCh37	19	38980823	38980823	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5922G>A	p.%3D	p.R1974R	ENST00000359596	36/106	53	40	13	38	38	0	RYR1,synonymous_variant,p.%3D,ENST00000355481,;RYR1,synonymous_variant,p.%3D,ENST00000360985,;RYR1,synonymous_variant,p.%3D,ENST00000359596,;	A	ENSG00000196218	ENST00000359596	Transcript	synonymous_variant	5922	5922	1974	R	cgG/cgA	.	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	.	36/106	.	hmmpanther:PTHR13715:SF15,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCGGAGCCG	.	5	BLCA
RYR1	0	.	GRCh37	19	38997018	38997018	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8616+1G>T	.	p.X2872_splice	ENST00000359596	.	44	19	25	55	55	0	RYR1,splice_donor_variant,,ENST00000355481,;RYR1,splice_donor_variant,,ENST00000360985,;RYR1,splice_donor_variant,,ENST00000359596,;RYR1,splice_donor_variant,,ENST00000594335,;	T	ENSG00000196218	ENST00000359596	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	RYR1	HGNC	10483	protein_coding	YES	CCDS33011.1	ENSP00000352608	RYR1_HUMAN	O75591_HUMAN,B4DET7_HUMAN	UPI0000D7E62F	.	.	.	.	55/105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGTGAGA	.	5	BLCA
EEF2	0	.	GRCh37	19	3979425	3979425	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1615G>A	p.Glu539Lys	p.E539K	ENST00000309311	11/15	59	41	17	81	80	1	EEF2,missense_variant,p.Glu539Lys,ENST00000309311,;EEF2,upstream_gene_variant,,ENST00000600794,;SNORD37,downstream_gene_variant,,ENST00000384048,;EEF2,downstream_gene_variant,,ENST00000600720,;EEF2,non_coding_transcript_exon_variant,,ENST00000596417,;EEF2,downstream_gene_variant,,ENST00000598436,;EEF2,downstream_gene_variant,,ENST00000598182,;EEF2,downstream_gene_variant,,ENST00000594885,;	T	ENSG00000167658	ENST00000309311	Transcript	missense_variant	1704	1615	539	E/K	Gag/Aag	.	.	.	-1	EEF2	HGNC	3214	protein_coding	YES	CCDS12117.1	ENSP00000307940	EF2_HUMAN	Q8TA90_HUMAN,B4DMC6_HUMAN	UPI00001649F3	.	deleterious(0.04)	probably_damaging(0.915)	11/15	.	hmmpanther:PTHR23115:SF103,hmmpanther:PTHR23115,Pfam_domain:PF14492,Gene3D:3.30.70.870,Superfamily_domains:SSF54980	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCGATGA	.	5	BLCA
LRFN1	0	.	GRCh37	19	39804608	39804608	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1369C>T	p.Gln457Ter	p.Q457*	ENST00000248668	1/2	72	58	14	64	64	0	LRFN1,stop_gained,p.Gln457Ter,ENST00000248668,;CTC-246B18.8,downstream_gene_variant,,ENST00000601911,;	A	ENSG00000128011	ENST00000248668	Transcript	stop_gained	1369	1369	457	Q/*	Cag/Tag	.	.	.	-1	LRFN1	HGNC	29290	protein_coding	YES	CCDS46071.1	ENSP00000248668	LRFN1_HUMAN	.	UPI00001A5C55	.	.	.	1/2	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR24373:SF34,hmmpanther:PTHR24373,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTGAACCT	.	5	BLCA
GMFG	0	.	GRCh37	19	39819205	39819205	+	Intron	SNP	C	C	T	rs751027176	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358-17G>A	.	.	ENST00000597595	.	24	10	14	34	34	0	GMFG,3_prime_UTR_variant,,ENST00000598034,;GMFG,intron_variant,,ENST00000594700,;GMFG,intron_variant,,ENST00000253054,;GMFG,intron_variant,,ENST00000597595,;GMFG,intron_variant,,ENST00000602185,;GMFG,intron_variant,,ENST00000601387,;GMFG,intron_variant,,ENST00000600322,;GMFG,intron_variant,,ENST00000595636,;GMFG,intron_variant,,ENST00000596583,;GMFG,intron_variant,,ENST00000601731,;GMFG,intron_variant,,ENST00000595207,;GMFG,downstream_gene_variant,,ENST00000598218,;	T	ENSG00000130755	ENST00000597595	Transcript	intron_variant	.	.	.	.	.	rs751027176	.	.	-1	GMFG	HGNC	4374	protein_coding	YES	CCDS12532.1	ENSP00000472249	GMFG_HUMAN	Q6IB37_HUMAN,M0R1D2_HUMAN,M0R0C1_HUMAN	UPI0000001631	.	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTCTCGGC	.	5	BLCA
MED29	0	.	GRCh37	19	39882100	39882100	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.101C>T	p.Ser34Leu	p.S34L	ENST00000315588	1/4	29	22	6	30	30	0	MED29,missense_variant,p.Ser13Leu,ENST00000594368,;MED29,missense_variant,p.Ser13Leu,ENST00000599213,;MED29,missense_variant,p.Ser34Leu,ENST00000315588,;MED29,missense_variant,p.Ser13Leu,ENST00000596297,;PAF1,upstream_gene_variant,,ENST00000221265,;PAF1,upstream_gene_variant,,ENST00000595564,;PAF1,upstream_gene_variant,,ENST00000221266,;PAF1,upstream_gene_variant,,ENST00000595379,;MED29,missense_variant,p.Ser34Leu,ENST00000599417,;MED29,missense_variant,p.Ser13Leu,ENST00000600973,;PAF1,upstream_gene_variant,,ENST00000416728,;PAF1,upstream_gene_variant,,ENST00000598594,;PAF1,upstream_gene_variant,,ENST00000597365,;PAF1,upstream_gene_variant,,ENST00000595797,;PAF1,upstream_gene_variant,,ENST00000598127,;	T	ENSG00000063322	ENST00000315588	Transcript	missense_variant	150	101	34	S/L	tCa/tTa	.	.	.	1	MED29	HGNC	23074	protein_coding	YES	CCDS33021.1	ENSP00000314343	.	B4DUA7_HUMAN,B4DN56_HUMAN,B4DGM4_HUMAN	UPI00001D81AE	.	deleterious_low_confidence(0)	benign(0.307)	1/4	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCAGCTG	.	5	BLCA
PRX	0	.	GRCh37	19	40904595	40904595	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313C>T	p.%3D	p.L105L	ENST00000324001	6/7	48	24	23	49	49	0	PRX,synonymous_variant,p.%3D,ENST00000324001,;PRX,synonymous_variant,p.%3D,ENST00000291825,;	A	ENSG00000105227	ENST00000324001	Transcript	synonymous_variant	584	313	105	L	Ctg/Ttg	.	.	.	-1	PRX	HGNC	13797	protein_coding	YES	CCDS33028.1	ENSP00000326018	PRAX_HUMAN	.	UPI000044CC1A	.	.	.	6/7	.	hmmpanther:PTHR23348:SF39,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCAGGTCCC	.	5	BLCA
SPTBN4	0	.	GRCh37	19	41008817	41008817	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1339G>A	p.Glu447Lys	p.E447K	ENST00000352632	11/36	79	62	17	82	82	0	SPTBN4,missense_variant,p.Glu447Lys,ENST00000338932,;SPTBN4,missense_variant,p.Glu447Lys,ENST00000352632,;SPTBN4,missense_variant,p.Glu447Lys,ENST00000598249,;SPTBN4,missense_variant,p.Glu447Lys,ENST00000595535,;SPTBN4,missense_variant,p.Glu447Lys,ENST00000344104,;SPTBN4,downstream_gene_variant,,ENST00000598775,;	A	ENSG00000160460	ENST00000352632	Transcript	missense_variant	1425	1339	447	E/K	Gag/Aag	.	.	.	1	SPTBN4	HGNC	14896	protein_coding	YES	CCDS12559.1	ENSP00000263373	SPTN4_HUMAN	.	UPI0000135DBB	.	deleterious(0)	possibly_damaging(0.67)	11/36	.	hmmpanther:PTHR11915:SF232,hmmpanther:PTHR11915,Gene3D:1.20.58.60,Pfam_domain:PF00435,PIRSF_domain:PIRSF002297,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAATGAGAAC	.	5	BLCA
ITPKC	0	.	GRCh37	19	41223935	41223935	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895G>A	p.Glu299Lys	p.E299K	ENST00000263370	1/7	72	38	33	63	63	0	ITPKC,missense_variant,p.Glu299Lys,ENST00000263370,;ADCK4,intron_variant,,ENST00000594084,;ADCK4,upstream_gene_variant,,ENST00000593723,;ADCK4,upstream_gene_variant,,ENST00000243583,;ADCK4,upstream_gene_variant,,ENST00000595254,;ADCK4,upstream_gene_variant,,ENST00000600707,;ADCK4,upstream_gene_variant,,ENST00000450541,;ADCK4,upstream_gene_variant,,ENST00000594720,;ADCK4,upstream_gene_variant,,ENST00000600080,;ADCK4,upstream_gene_variant,,ENST00000594490,;ADCK4,upstream_gene_variant,,ENST00000324464,;ADCK4,upstream_gene_variant,,ENST00000601967,;ADCK4,upstream_gene_variant,,ENST00000596357,;ADCK4,upstream_gene_variant,,ENST00000599643,;ADCK4,upstream_gene_variant,,ENST00000596455,;ADCK4,upstream_gene_variant,,ENST00000601451,;ADCK4,upstream_gene_variant,,ENST00000601304,;ADCK4,upstream_gene_variant,,ENST00000593544,;	A	ENSG00000086544	ENST00000263370	Transcript	missense_variant	928	895	299	E/K	Gag/Aag	.	.	.	1	ITPKC	HGNC	14897	protein_coding	YES	CCDS12563.1	ENSP00000263370	IP3KC_HUMAN	.	UPI000006E1AC	.	deleterious_low_confidence(0.01)	benign(0.014)	1/7	.	hmmpanther:PTHR12400,hmmpanther:PTHR12400:SF26,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTGAGGAT	.	5	BLCA
C19orf54	0	.	GRCh37	19	41250013	41250013	+	Silent	SNP	G	G	A	rs752470382	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.606C>T	p.%3D	p.L202L	ENST00000378313	4/6	35	26	9	43	43	0	C19orf54,synonymous_variant,p.%3D,ENST00000378313,;C19orf54,intron_variant,,ENST00000596940,;C19orf54,intron_variant,,ENST00000470681,;C19orf54,intron_variant,,ENST00000598352,;C19orf54,intron_variant,,ENST00000598729,;C19orf54,intron_variant,,ENST00000598485,;C19orf54,intron_variant,,ENST00000339153,;ITPKC,downstream_gene_variant,,ENST00000263370,;C19orf54,downstream_gene_variant,,ENST00000600139,;C19orf54,upstream_gene_variant,,ENST00000594163,;C19orf54,synonymous_variant,p.%3D,ENST00000469741,;C19orf54,intron_variant,,ENST00000597507,;C19orf54,intron_variant,,ENST00000596809,;ITPKC,downstream_gene_variant,,ENST00000597003,;	A	ENSG00000188493	ENST00000378313	Transcript	synonymous_variant	726	606	202	L	ctC/ctT	rs752470382	.	.	-1	C19orf54	HGNC	24758	protein_coding	YES	CCDS12564.2	ENSP00000367564	CS054_HUMAN	.	UPI00001B64AB	.	.	.	4/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACGAGGTC	.	5	BLCA
CYP2F1	0	.	GRCh37	19	41622400	41622400	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.212G>A	p.Gly71Glu	p.G71E	ENST00000331105	3/10	131	104	27	126	126	0	CYP2F1,missense_variant,p.Gly71Glu,ENST00000331105,;CYP2F1,missense_variant,p.Gly71Glu,ENST00000532164,;CYP2F1,non_coding_transcript_exon_variant,,ENST00000531409,;CYP2F1,non_coding_transcript_exon_variant,,ENST00000526093,;	A	ENSG00000197446	ENST00000331105	Transcript	missense_variant	284	212	71	G/E	gGa/gAa	.	.	.	1	CYP2F1	HGNC	2632	protein_coding	YES	CCDS12572.1	ENSP00000333534	CP2F1_HUMAN	.	UPI000013C622	.	deleterious(0)	probably_damaging(1)	3/10	.	hmmpanther:PTHR24300:SF15,hmmpanther:PTHR24300,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGGACCCA	.	5	BLCA
TMEM91	0	.	GRCh37	19	41884272	41884272	+	Missense_Mutation	SNP	G	G	A	rs200961973	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58G>A	p.Glu20Lys	p.E20K	ENST00000392002	2/4	71	35	36	71	71	0	TMEM91,missense_variant,p.Glu20Lys,ENST00000413014,;TMEM91,missense_variant,p.Glu20Lys,ENST00000447302,;TMEM91,missense_variant,p.Glu77Lys,ENST00000604123,;TMEM91,missense_variant,p.Glu20Lys,ENST00000356385,;TMEM91,missense_variant,p.Glu20Lys,ENST00000342187,;TMEM91,missense_variant,p.Glu20Lys,ENST00000542945,;TMEM91,missense_variant,p.Glu20Lys,ENST00000544232,;BCKDHA,missense_variant,p.Glu20Lys,ENST00000595085,;TMEM91,missense_variant,p.Glu6Lys,ENST00000546050,;TMEM91,missense_variant,p.Glu20Lys,ENST00000537354,;CTC-435M10.3,missense_variant,p.Glu20Lys,ENST00000540732,;TMEM91,missense_variant,p.Glu20Lys,ENST00000436170,;TMEM91,missense_variant,p.Glu20Lys,ENST00000392002,;TMEM91,missense_variant,p.Glu20Lys,ENST00000539627,;TMEM91,upstream_gene_variant,,ENST00000546362,;TMEM91,upstream_gene_variant,,ENST00000535712,;CTC-435M10.3,intron_variant,,ENST00000604424,;	A	ENSG00000142046	ENST00000392002	Transcript	missense_variant	718	58	20	E/K	Gag/Aag	rs200961973	.	.	1	TMEM91	HGNC	32393	protein_coding	YES	CCDS42571.1	ENSP00000375859	TMM91_HUMAN	F8W6Q6_HUMAN,F5H665_HUMAN	UPI00001C11CE	.	deleterious_low_confidence(0.03)	benign(0.036)	2/4	.	hmmpanther:PTHR14768	A:0.0004	A:0.0015	A:0	.	A:0	A:0	A:0	A:0.0005	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGTGAGACC	byFrequency|byCluster|by1000G	5	BLCA
CEA	0	.	GRCh37	19	42213653	42213653	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.119C>T	p.Ser40Phe	p.S40F	ENST00000598976	2/3	195	94	101	163	163	0	CEA,missense_variant,p.Ser40Phe,ENST00000598976,;CEACAM5,missense_variant,p.Ser40Phe,ENST00000398599,;CEACAM5,missense_variant,p.Ser40Phe,ENST00000221992,;CEACAM5,missense_variant,p.Ser7Phe,ENST00000595403,;CEACAM5,missense_variant,p.Ser40Phe,ENST00000405816,;CEA,intron_variant,,ENST00000435837,;CEACAM5,upstream_gene_variant,,ENST00000595113,;CEACAM7,upstream_gene_variant,,ENST00000599715,;CEACAM5,non_coding_transcript_exon_variant,,ENST00000460121,;CEACAM5,non_coding_transcript_exon_variant,,ENST00000596606,;	T	ENSG00000267881	ENST00000598976	Transcript	missense_variant	239	119	40	S/F	tCc/tTc	.	.	.	1	CEA	Uniprot_gn	.	protein_coding	YES	.	ENSP00000469421	.	Q7KZ28_HUMAN,M0QXV9_HUMAN	UPI0002A4737D	.	deleterious(0)	probably_damaging(0.984)	2/3	.	hmmpanther:PTHR19955:SF113,hmmpanther:PTHR19955,Gene3D:2.60.40.10,Pfam_domain:PF07686,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAATCCACGC	.	5	BLCA
DEDD2	0	.	GRCh37	19	42703717	42703717	+	Missense_Mutation	SNP	C	C	T	rs372748160	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.854G>A	p.Arg285Gln	p.R285Q	ENST00000595337	5/5	51	26	25	44	44	0	DEDD2,missense_variant,p.Arg280Gln,ENST00000336034,;DEDD2,missense_variant,p.Arg285Gln,ENST00000595337,;DEDD2,missense_variant,p.Arg285Gln,ENST00000596251,;DEDD2,downstream_gene_variant,,ENST00000598727,;DEDD2,non_coding_transcript_exon_variant,,ENST00000593804,;DEDD2,non_coding_transcript_exon_variant,,ENST00000601135,;DEDD2,downstream_gene_variant,,ENST00000602075,;DEDD2,downstream_gene_variant,,ENST00000593561,;DEDD2,downstream_gene_variant,,ENST00000600559,;POU2F2,upstream_gene_variant,,ENST00000532176,;DEDD2,downstream_gene_variant,,ENST00000602201,;DEDD2,downstream_gene_variant,,ENST00000598090,;DEDD2,downstream_gene_variant,,ENST00000598415,;	T	ENSG00000160570	ENST00000595337	Transcript	missense_variant	942	854	285	R/Q	cGa/cAa	rs372748160	.	.	-1	DEDD2	HGNC	24450	protein_coding	YES	CCDS12597.1	ENSP00000470082	DEDD2_HUMAN	M0QYK9_HUMAN	UPI0000046657	.	deleterious(0.01)	probably_damaging(0.953)	5/5	.	hmmpanther:PTHR15205,hmmpanther:PTHR15205:SF1	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCGCAGG	byFrequency|byCluster	5	BLCA
CIC	0	.	GRCh37	19	42796593	42796593	+	Silent	SNP	C	C	T	rs777009226	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3150C>T	p.%3D	p.P1050P	ENST00000575354	13/20	40	18	22	41	41	0	CIC,synonymous_variant,p.%3D,ENST00000575354,;CIC,synonymous_variant,p.%3D,ENST00000572681,;CIC,synonymous_variant,p.%3D,ENST00000160740,;PAFAH1B3,downstream_gene_variant,,ENST00000262890,;CIC,upstream_gene_variant,,ENST00000576505,;CIC,upstream_gene_variant,,ENST00000573349,;PAFAH1B3,downstream_gene_variant,,ENST00000538771,;PAFAH1B3,downstream_gene_variant,,ENST00000595530,;PAFAH1B3,downstream_gene_variant,,ENST00000596265,;PAFAH1B3,downstream_gene_variant,,ENST00000594989,;CIC,upstream_gene_variant,,ENST00000575287,;CIC,upstream_gene_variant,,ENST00000571033,;	T	ENSG00000079432	ENST00000575354	Transcript	synonymous_variant	3190	3150	1050	P	ccC/ccT	rs777009226	.	.	1	CIC	HGNC	14214	protein_coding	YES	CCDS12601.1	ENSP00000458663	CIC_HUMAN	.	UPI000013C5A0	.	.	.	13/20	.	hmmpanther:PTHR13059:SF11,hmmpanther:PTHR13059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCCGCCTT	byFrequency	5	BLCA
PSG1	0	.	GRCh37	19	43372081	43372081	+	3'UTR	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*134A>T	.	.	ENST00000244296	5/5	38	28	10	35	35	0	PSG1,3_prime_UTR_variant,,ENST00000244296,;PSG1,intron_variant,,ENST00000595356,;PSG1,intron_variant,,ENST00000312439,;PSG1,intron_variant,,ENST00000436291,;PSG1,intron_variant,,ENST00000595124,;PSG1,intron_variant,,ENST00000403380,;PSG1,downstream_gene_variant,,ENST00000597058,;PSG1,downstream_gene_variant,,ENST00000595930,;PSG1,intron_variant,,ENST00000602039,;	A	ENSG00000231924	ENST00000244296	Transcript	3_prime_UTR_variant	1553	.	.	.	.	.	.	.	-1	PSG1	HGNC	9514	protein_coding	YES	CCDS12612.1	ENSP00000244296	PSG1_HUMAN	Q9UMI0_HUMAN,M0QY44_HUMAN	UPI0000001071	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTGTTAAAG	.	5	BLCA
PHLDB3	0	.	GRCh37	19	44008120	44008120	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151G>A	p.Glu51Lys	p.E51K	ENST00000292140	2/16	37	17	20	45	45	0	PHLDB3,missense_variant,p.Glu51Lys,ENST00000601646,;PHLDB3,missense_variant,p.Glu51Lys,ENST00000599242,;PHLDB3,missense_variant,p.Glu51Lys,ENST00000292140,;PHLDB3,missense_variant,p.Glu51Lys,ENST00000594808,;ETHE1,downstream_gene_variant,,ENST00000292147,;ETHE1,downstream_gene_variant,,ENST00000600651,;PHLDB3,non_coding_transcript_exon_variant,,ENST00000596902,;ETHE1,downstream_gene_variant,,ENST00000594342,;ETHE1,downstream_gene_variant,,ENST00000598330,;	T	ENSG00000176531	ENST00000292140	Transcript	missense_variant	512	151	51	E/K	Gag/Aag	.	.	.	-1	PHLDB3	HGNC	30499	protein_coding	YES	CCDS12621.2	ENSP00000292140	PHLB3_HUMAN	M0R3I7_HUMAN,M0R038_HUMAN	UPI00015C725F	.	deleterious(0.04)	benign(0.343)	2/16	.	hmmpanther:PTHR12156,hmmpanther:PTHR12156:SF15,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAGCTC	.	5	BLCA
ZNF283	0	.	GRCh37	19	44351783	44351783	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1030G>A	p.Glu344Lys	p.E344K	ENST00000324461	7/7	93	51	42	52	52	0	ZNF283,missense_variant,p.Glu344Lys,ENST00000324461,;ZNF283,missense_variant,p.Glu205Lys,ENST00000588797,;	A	ENSG00000167637	ENST00000324461	Transcript	missense_variant	1327	1030	344	E/K	Gag/Aag	.	.	.	1	ZNF283	HGNC	13077	protein_coding	YES	CCDS46097.1	ENSP00000327314	ZN283_HUMAN	K7ESH0_HUMAN,K7EL69_HUMAN	UPI000155B91C	.	tolerated(0.06)	benign(0.059)	7/7	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF63,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTGAGAAA	.	5	BLCA
ZNF221	0	.	GRCh37	19	44470884	44470884	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1230G>A	p.%3D	p.L410L	ENST00000251269	6/6	122	90	31	105	105	0	ZNF221,synonymous_variant,p.%3D,ENST00000592350,;ZNF221,synonymous_variant,p.%3D,ENST00000587682,;ZNF221,synonymous_variant,p.%3D,ENST00000251269,;ZNF155,upstream_gene_variant,,ENST00000590411,;ZNF221,downstream_gene_variant,,ENST00000591168,;	A	ENSG00000159905	ENST00000251269	Transcript	synonymous_variant	1558	1230	410	L	ttG/ttA	.	.	.	1	ZNF221	HGNC	13014	protein_coding	YES	CCDS12633.1	ENSP00000251269	ZN221_HUMAN	Q16646_HUMAN,K7EIT6_HUMAN	UPI000013CCF3	.	.	.	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24388:SF3,hmmpanther:PTHR24388,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTGAACCA	.	5	BLCA
CEACAM19	0	.	GRCh37	19	45184496	45184496	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.707-3C>T	.	.	ENST00000403660	.	24	12	11	13	13	0	CEACAM19,splice_region_variant,,ENST00000403660,;CEACAM19,splice_region_variant,,ENST00000358777,;CTB-171A8.1,intron_variant,,ENST00000590796,;CEACAM19,splice_region_variant,,ENST00000480278,;CEACAM19,splice_region_variant,,ENST00000459648,;	T	ENSG00000186567	ENST00000403660	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CEACAM19	HGNC	31951	protein_coding	YES	CCDS12641.1	ENSP00000384887	CEA19_HUMAN	K7ESK4_HUMAN,K7EK61_HUMAN	UPI0000048F4A	.	.	.	.	5/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCAGGTG	.	4	BLCA
CLASRP	0	.	GRCh37	19	45555366	45555366	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.137G>A	p.Arg46Gln	p.R46Q	ENST00000221455	3/21	67	39	28	62	62	0	CLASRP,missense_variant,p.Arg46Gln,ENST00000588936,;CLASRP,missense_variant,p.Arg46Gln,ENST00000221455,;CLASRP,missense_variant,p.Arg46Gln,ENST00000544944,;CLASRP,intron_variant,,ENST00000391953,;RNU6-611P,downstream_gene_variant,,ENST00000384276,;CLASRP,missense_variant,p.Arg46Gln,ENST00000391952,;CLASRP,missense_variant,p.Arg27Gln,ENST00000587112,;CLASRP,non_coding_transcript_exon_variant,,ENST00000592056,;CLASRP,intron_variant,,ENST00000591410,;CLASRP,upstream_gene_variant,,ENST00000588016,;	A	ENSG00000104859	ENST00000221455	Transcript	missense_variant	235	137	46	R/Q	cGa/cAa	.	.	.	1	CLASRP	HGNC	17731	protein_coding	YES	CCDS12652.2	ENSP00000221455	CLASR_HUMAN	K7EKC9_HUMAN	UPI000020262D	.	tolerated(0.08)	possibly_damaging(0.897)	3/21	.	hmmpanther:PTHR13161,hmmpanther:PTHR13161:SF4,Pfam_domain:PF09750	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGAGCTT	.	5	BLCA
ZNF296	0	.	GRCh37	19	45574784	45574784	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*75C>T	.	.	ENST00000303809	3/3	29	20	8	33	33	0	ZNF296,3_prime_UTR_variant,,ENST00000303809,;CLASRP,downstream_gene_variant,,ENST00000391953,;CLASRP,downstream_gene_variant,,ENST00000221455,;CLASRP,downstream_gene_variant,,ENST00000591904,;CLASRP,downstream_gene_variant,,ENST00000544944,;CTB-179K24.3,downstream_gene_variant,,ENST00000586744,;CLASRP,downstream_gene_variant,,ENST00000587472,;CLASRP,downstream_gene_variant,,ENST00000592876,;CLASRP,downstream_gene_variant,,ENST00000588070,;CLASRP,downstream_gene_variant,,ENST00000585432,;CLASRP,downstream_gene_variant,,ENST00000585615,;CLASRP,downstream_gene_variant,,ENST00000391952,;	A	ENSG00000170684	ENST00000303809	Transcript	3_prime_UTR_variant	1718	.	.	.	.	.	.	.	-1	ZNF296	HGNC	15981	protein_coding	YES	CCDS12653.1	ENSP00000302770	ZN296_HUMAN	Q8NEY2_HUMAN,Q8IX33_HUMAN	UPI000013C363	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGAGAAGGC	.	5	BLCA
KLC3	0	.	GRCh37	19	45852765	45852765	+	Missense_Mutation	SNP	G	G	A	rs759945535	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Glu350Lys	p.E350K	ENST00000391946	8/13	69	52	16	76	76	0	KLC3,missense_variant,p.Glu364Lys,ENST00000470402,;KLC3,missense_variant,p.Glu350Lys,ENST00000589373,;KLC3,missense_variant,p.Glu350Lys,ENST00000391946,;KLC3,missense_variant,p.Glu349Lys,ENST00000585434,;ERCC2,downstream_gene_variant,,ENST00000391941,;ERCC2,downstream_gene_variant,,ENST00000391944,;ERCC2,downstream_gene_variant,,ENST00000391945,;KLC3,downstream_gene_variant,,ENST00000589837,;KLC3,downstream_gene_variant,,ENST00000590063,;KLC3,downstream_gene_variant,,ENST00000494686,;ERCC2,downstream_gene_variant,,ENST00000588652,;ERCC2,downstream_gene_variant,,ENST00000587376,;ERCC2,downstream_gene_variant,,ENST00000391942,;	A	ENSG00000104892	ENST00000391946	Transcript	missense_variant	1150	1048	350	E/K	Gag/Aag	rs759945535	.	.	1	KLC3	HGNC	20717	protein_coding	YES	CCDS12660.2	ENSP00000375810	KLC3_HUMAN	K7ELP9_HUMAN,K7EL76_HUMAN	UPI000007022B	.	tolerated(0.08)	possibly_damaging(0.644)	8/13	.	PROSITE_profiles:PS50293,PROSITE_profiles:PS50005,hmmpanther:PTHR19959:SF125,hmmpanther:PTHR19959,Gene3D:1.25.40.10,Pfam_domain:PF13424,SMART_domains:SM00028,Superfamily_domains:SSF48452,Prints_domain:PR00381	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTGAGGAC	.	5	BLCA
ERCC2	0	.	GRCh37	19	45856356	45856356	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1816G>C	p.Glu606Gln	p.E606Q	ENST00000391945	19/23	51	34	17	65	65	0	ERCC2,missense_variant,p.Glu582Gln,ENST00000391941,;ERCC2,missense_variant,p.Glu528Gln,ENST00000391944,;ERCC2,missense_variant,p.Glu606Gln,ENST00000391945,;KLC3,downstream_gene_variant,,ENST00000470402,;KLC3,downstream_gene_variant,,ENST00000589373,;KLC3,downstream_gene_variant,,ENST00000589837,;KLC3,downstream_gene_variant,,ENST00000391946,;KLC3,downstream_gene_variant,,ENST00000585434,;ERCC2,non_coding_transcript_exon_variant,,ENST00000588652,;ERCC2,non_coding_transcript_exon_variant,,ENST00000391942,;ERCC2,downstream_gene_variant,,ENST00000587376,;	G	ENSG00000104884	ENST00000391945	Transcript	missense_variant	1894	1816	606	E/Q	Gag/Cag	.	.	.	-1	ERCC2	HGNC	3434	protein_coding	YES	CCDS33049.1	ENSP00000375809	ERCC2_HUMAN	K7EIT8_HUMAN,A8MX75_HUMAN	UPI0000139012	.	deleterious(0)	probably_damaging(0.999)	19/23	.	hmmpanther:PTHR11472:SF1,hmmpanther:PTHR11472,Pfam_domain:PF13307,TIGRFAM_domain:TIGR00604,SMART_domains:SM00491,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCGGACA	.	5	BLCA
PPP1R13L	0	.	GRCh37	19	45883359	45883359	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*89C>T	.	.	ENST00000418234	13/13	68	37	31	65	65	0	PPP1R13L,3_prime_UTR_variant,,ENST00000418234,;PPP1R13L,3_prime_UTR_variant,,ENST00000591986,;PPP1R13L,3_prime_UTR_variant,,ENST00000360957,;PPP1R13L,intron_variant,,ENST00000589371,;PPP1R13L,non_coding_transcript_exon_variant,,ENST00000587270,;PPP1R13L,downstream_gene_variant,,ENST00000589858,;	A	ENSG00000104881	ENST00000418234	Transcript	3_prime_UTR_variant	2655	.	.	.	.	.	.	.	-1	PPP1R13L	HGNC	18838	protein_coding	YES	CCDS33050.1	ENSP00000403902	IASPP_HUMAN	K7EPP1_HUMAN,K7EN03_HUMAN	UPI00001400F1	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCAGATAAA	.	5	BLCA
PPP1R13L	0	.	GRCh37	19	45901532	45901532	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45G>A	p.Met15Ile	p.M15I	ENST00000418234	2/13	70	40	30	58	58	0	PPP1R13L,missense_variant,p.Met15Ile,ENST00000592134,;PPP1R13L,missense_variant,p.Met15Ile,ENST00000418234,;PPP1R13L,missense_variant,p.Met15Ile,ENST00000593226,;PPP1R13L,missense_variant,p.Met15Ile,ENST00000360957,;PPP1R13L,non_coding_transcript_exon_variant,,ENST00000585905,;	T	ENSG00000104881	ENST00000418234	Transcript	missense_variant	124	45	15	M/I	atG/atA	.	.	.	-1	PPP1R13L	HGNC	18838	protein_coding	YES	CCDS33050.1	ENSP00000403902	IASPP_HUMAN	K7EPP1_HUMAN,K7EN03_HUMAN	UPI00001400F1	.	deleterious_low_confidence(0.05)	benign(0.001)	2/13	.	hmmpanther:PTHR24164,hmmpanther:PTHR24164:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTCATGTC	.	5	BLCA
GPR4	0	.	GRCh37	19	46094386	46094386	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.739C>T	p.Arg247Cys	p.R247C	ENST00000323040	2/2	72	41	30	65	65	0	GPR4,missense_variant,p.Arg247Cys,ENST00000323040,;OPA3,intron_variant,,ENST00000544371,;GPR4,downstream_gene_variant,,ENST00000591614,;	A	ENSG00000177464	ENST00000323040	Transcript	missense_variant	1684	739	247	R/C	Cgc/Tgc	.	.	.	-1	GPR4	HGNC	4497	protein_coding	YES	CCDS12669.1	ENSP00000319744	GPR4_HUMAN	.	UPI0000050428	.	deleterious(0)	probably_damaging(0.995)	2/2	.	Prints_domain:PR01147,Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,hmmpanther:PTHR24232:SF42,hmmpanther:PTHR24232,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGGGACA	.	5	BLCA
GIPR	0	.	GRCh37	19	46180341	46180341	+	Silent	SNP	C	C	T	rs767895891	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768C>T	p.%3D	p.F256F	ENST00000590918	8/14	35	29	6	37	37	0	GIPR,synonymous_variant,p.%3D,ENST00000304207,;GIPR,synonymous_variant,p.%3D,ENST00000590918,;GIPR,synonymous_variant,p.%3D,ENST00000263281,;MIR642A,downstream_gene_variant,,ENST00000385039,;GIPR,upstream_gene_variant,,ENST00000593127,;GIPR,synonymous_variant,p.%3D,ENST00000585889,;GIPR,downstream_gene_variant,,ENST00000588816,;GIPR,upstream_gene_variant,,ENST00000591224,;	T	ENSG00000010310	ENST00000590918	Transcript	synonymous_variant	867	768	256	F	ttC/ttT	rs767895891	.	.	1	GIPR	HGNC	4271	protein_coding	YES	CCDS12671.1	ENSP00000467494	GIPR_HUMAN	Q4VBP1_HUMAN	UPI00000503FD	.	.	.	8/14	.	PROSITE_profiles:PS50261,hmmpanther:PTHR12011:SF256,hmmpanther:PTHR12011,Pfam_domain:PF00002,Superfamily_domains:SSF81321,Prints_domain:PR00249,Prints_domain:PR01129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACTTCCGCTA	.	2	BLCA
SIX5	0	.	GRCh37	19	46271321	46271321	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.782G>A	p.Gly261Glu	p.G261E	ENST00000317578	1/3	15	7	7	28	28	0	SIX5,missense_variant,p.Gly189Glu,ENST00000560160,;SIX5,missense_variant,p.Gly261Glu,ENST00000317578,;SIX5,synonymous_variant,p.%3D,ENST00000560168,;DMPK,downstream_gene_variant,,ENST00000593574,;DMPK,downstream_gene_variant,,ENST00000597660,;DMPK,downstream_gene_variant,,ENST00000291270,;DMPK,downstream_gene_variant,,ENST00000458663,;DMPK,downstream_gene_variant,,ENST00000600757,;DMPK,downstream_gene_variant,,ENST00000447742,;DMPK,downstream_gene_variant,,ENST00000354227,;AC074212.3,downstream_gene_variant,,ENST00000457052,;DMPK,downstream_gene_variant,,ENST00000343373,;AC074212.6,non_coding_transcript_exon_variant,,ENST00000590076,;AC074212.5,intron_variant,,ENST00000559756,;AC074212.6,upstream_gene_variant,,ENST00000591530,;AC074212.6,upstream_gene_variant,,ENST00000586498,;AC074212.6,upstream_gene_variant,,ENST00000586251,;AC074212.5,upstream_gene_variant,,ENST00000592217,;DMPK,downstream_gene_variant,,ENST00000588522,;DMPK,downstream_gene_variant,,ENST00000600370,;DMPK,downstream_gene_variant,,ENST00000598272,;DMPK,downstream_gene_variant,,ENST00000596686,;	T	ENSG00000177045	ENST00000317578	Transcript	missense_variant	1164	782	261	G/E	gGa/gAa	.	.	.	-1	SIX5	HGNC	10891	protein_coding	YES	CCDS12673.1	ENSP00000316842	SIX5_HUMAN	.	UPI0000366E2B	.	tolerated(0.05)	benign(0.274)	1/3	.	SMART_domains:SM00389,hmmpanther:PTHR10390:SF32,hmmpanther:PTHR10390	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	CGCCTCCGGCC	.	4	BLCA
EMP3	0	.	GRCh37	19	48832733	48832733	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306C>T	p.%3D	p.L102L	ENST00000270221	4/5	53	23	29	52	52	0	EMP3,synonymous_variant,p.%3D,ENST00000597279,;EMP3,synonymous_variant,p.%3D,ENST00000594198,;EMP3,synonymous_variant,p.%3D,ENST00000593437,;EMP3,synonymous_variant,p.%3D,ENST00000270221,;EMP3,synonymous_variant,p.%3D,ENST00000596315,;TMEM143,downstream_gene_variant,,ENST00000541566,;TMEM143,downstream_gene_variant,,ENST00000293261,;EMP3,downstream_gene_variant,,ENST00000599704,;TMEM143,downstream_gene_variant,,ENST00000436660,;TMEM143,downstream_gene_variant,,ENST00000377431,;TMEM143,downstream_gene_variant,,ENST00000435956,;EMP3,3_prime_UTR_variant,,ENST00000599255,;EMP3,non_coding_transcript_exon_variant,,ENST00000597057,;TMEM143,downstream_gene_variant,,ENST00000600816,;EMP3,downstream_gene_variant,,ENST00000597529,;	T	ENSG00000142227	ENST00000270221	Transcript	synonymous_variant	607	306	102	L	ctC/ctT	.	.	.	1	EMP3	HGNC	3335	protein_coding	YES	CCDS12715.1	ENSP00000270221	EMP3_HUMAN	M0R1L9_HUMAN,M0QZ66_HUMAN,M0QXS0_HUMAN	UPI0000129EAB	.	.	.	4/5	.	Transmembrane_helices:TMhelix,Pfam_domain:PF00822,hmmpanther:PTHR10671,hmmpanther:PTHR10671:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTGCCA	.	5	BLCA
EMP3	0	.	GRCh37	19	48833652	48833652	+	Silent	SNP	C	C	T	rs760017422	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.417C>T	p.%3D	p.F139F	ENST00000270221	5/5	82	59	23	59	59	0	EMP3,missense_variant,p.Arg119Cys,ENST00000593437,;EMP3,synonymous_variant,p.%3D,ENST00000597279,;EMP3,synonymous_variant,p.%3D,ENST00000270221,;EMP3,synonymous_variant,p.%3D,ENST00000596315,;TMEM143,downstream_gene_variant,,ENST00000541566,;TMEM143,downstream_gene_variant,,ENST00000293261,;EMP3,downstream_gene_variant,,ENST00000594198,;EMP3,downstream_gene_variant,,ENST00000599704,;TMEM143,downstream_gene_variant,,ENST00000436660,;TMEM143,downstream_gene_variant,,ENST00000377431,;TMEM143,downstream_gene_variant,,ENST00000435956,;EMP3,3_prime_UTR_variant,,ENST00000599255,;EMP3,non_coding_transcript_exon_variant,,ENST00000597057,;TMEM143,downstream_gene_variant,,ENST00000600816,;EMP3,downstream_gene_variant,,ENST00000597529,;	T	ENSG00000142227	ENST00000270221	Transcript	synonymous_variant	718	417	139	F	ttC/ttT	rs760017422	.	.	1	EMP3	HGNC	3335	protein_coding	YES	CCDS12715.1	ENSP00000270221	EMP3_HUMAN	M0R1L9_HUMAN,M0QZ66_HUMAN,M0QXS0_HUMAN	UPI0000129EAB	.	.	.	5/5	.	Transmembrane_helices:TMhelix,Prints_domain:PR01453,Pfam_domain:PF00822,hmmpanther:PTHR10671,hmmpanther:PTHR10671:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCGCCCT	.	5	BLCA
RPL18	0	.	GRCh37	19	49119376	49119376	+	Silent	SNP	G	G	A	rs753994101	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.381C>T	p.%3D	p.A127A	ENST00000549920	5/7	57	41	15	65	65	0	RPL18,synonymous_variant,p.%3D,ENST00000549273,;RPL18,synonymous_variant,p.%3D,ENST00000550973,;RPL18,synonymous_variant,p.%3D,ENST00000084795,;RPL18,synonymous_variant,p.%3D,ENST00000549920,;RPL18,synonymous_variant,p.%3D,ENST00000546623,;RPL18,synonymous_variant,p.%3D,ENST00000552588,;RPL18,intron_variant,,ENST00000550645,;SPHK2,upstream_gene_variant,,ENST00000340932,;FAM83E,upstream_gene_variant,,ENST00000593772,;SPHK2,upstream_gene_variant,,ENST00000245222,;SPHK2,upstream_gene_variant,,ENST00000598088,;SPHK2,upstream_gene_variant,,ENST00000601712,;SPHK2,upstream_gene_variant,,ENST00000600537,;FAM83E,upstream_gene_variant,,ENST00000263266,;AC022154.7,downstream_gene_variant,,ENST00000594850,;AC022154.7,downstream_gene_variant,,ENST00000600303,;AC022154.7,downstream_gene_variant,,ENST00000598735,;FAM83E,upstream_gene_variant,,ENST00000599126,;FAM83E,upstream_gene_variant,,ENST00000595110,;RPL18,3_prime_UTR_variant,,ENST00000549370,;RPL18,non_coding_transcript_exon_variant,,ENST00000552705,;RPL18,non_coding_transcript_exon_variant,,ENST00000551749,;RPL18,non_coding_transcript_exon_variant,,ENST00000547892,;RPL18,non_coding_transcript_exon_variant,,ENST00000549533,;RPL18,non_coding_transcript_exon_variant,,ENST00000552347,;RPL18,intron_variant,,ENST00000547897,;RPL18,downstream_gene_variant,,ENST00000552851,;SPHK2,upstream_gene_variant,,ENST00000426514,;RPL18,downstream_gene_variant,,ENST00000550671,;	A	ENSG00000063177	ENST00000549920	Transcript	synonymous_variant	774	381	127	A	gcC/gcT	rs753994101	.	.	-1	RPL18	HGNC	10310	protein_coding	YES	CCDS12726.1	ENSP00000447001	RL18_HUMAN	Q0QEW2_HUMAN,G3V203_HUMAN,F8VUA6_HUMAN	UPI0000161C16	.	.	.	5/7	.	Superfamily_domains:SSF52080,Gene3D:3.100.10.10,hmmpanther:PTHR10934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGGGCCAG	byFrequency	5	BLCA
FUT2	0	.	GRCh37	19	49207110	49207110	+	Silent	SNP	G	G	A	rs755503079	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.897G>A	p.%3D	p.T299T	ENST00000425340	2/2	101	58	43	114	114	0	FUT2,synonymous_variant,p.%3D,ENST00000425340,;FUT2,synonymous_variant,p.%3D,ENST00000391876,;FUT2,downstream_gene_variant,,ENST00000522966,;	A	ENSG00000176920	ENST00000425340	Transcript	synonymous_variant	1014	897	299	T	acG/acA	rs755503079	.	.	1	FUT2	HGNC	4013	protein_coding	YES	CCDS33069.1	ENSP00000387498	FUT2_HUMAN	Q7KZZ1_HUMAN,E7EW73_HUMAN,A8K2L2_HUMAN	UPI00000338F5	.	.	.	2/2	.	hmmpanther:PTHR11927:SF2,hmmpanther:PTHR11927,Pfam_domain:PF01531	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCACGGGCGG	byFrequency	5	BLCA
HSD17B14	0	.	GRCh37	19	49334996	49334996	+	Missense_Mutation	SNP	C	C	T	rs775465888	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298G>A	p.Glu100Lys	p.E100K	ENST00000263278	5/9	42	33	9	81	79	1	HSD17B14,missense_variant,p.Glu64Lys,ENST00000595764,;HSD17B14,missense_variant,p.Glu100Lys,ENST00000263278,;HSD17B14,intron_variant,,ENST00000599157,;	T	ENSG00000087076	ENST00000263278	Transcript	missense_variant	565	298	100	E/K	Gag/Aag	rs775465888	.	.	-1	HSD17B14	HGNC	23238	protein_coding	YES	CCDS12736.1	ENSP00000263278	DHB14_HUMAN	.	UPI000004FACC	.	deleterious(0.01)	benign(0.361)	5/9	.	hmmpanther:PTHR24316:SF290,hmmpanther:PTHR24316,Gene3D:3.40.50.720,Pfam_domain:PF00106,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAGGCC	.	5	BLCA
PLEKHA4	0	.	GRCh37	19	49356985	49356985	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280A>T	p.Gln427Leu	p.Q427L	ENST00000263265	12/20	21	9	12	24	24	0	PLEKHA4,missense_variant,p.Gln82Leu,ENST00000594195,;PLEKHA4,missense_variant,p.Gln402Leu,ENST00000355496,;PLEKHA4,missense_variant,p.Gln427Leu,ENST00000263265,;PLEKHA4,5_prime_UTR_variant,,ENST00000595867,;PLEKHA4,upstream_gene_variant,,ENST00000597406,;	A	ENSG00000105559	ENST00000263265	Transcript	missense_variant	1836	1280	427	Q/L	cAg/cTg	.	.	.	-1	PLEKHA4	HGNC	14339	protein_coding	YES	CCDS12737.1	ENSP00000263265	PKHA4_HUMAN	M0R2K5_HUMAN,M0QXJ3_HUMAN	UPI00000721A6	.	deleterious(0)	possibly_damaging(0.694)	12/20	.	hmmpanther:PTHR12752	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCCTGCAAG	.	5	BLCA
PPP1R15A	0	.	GRCh37	19	49377554	49377554	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1064A>C	p.Asp355Ala	p.D355A	ENST00000200453	2/3	78	34	43	69	69	0	PPP1R15A,missense_variant,p.Asp355Ala,ENST00000200453,;PPP1R15A,upstream_gene_variant,,ENST00000600406,;	C	ENSG00000087074	ENST00000200453	Transcript	missense_variant	1333	1064	355	D/A	gAt/gCt	.	.	.	1	PPP1R15A	HGNC	14375	protein_coding	YES	CCDS12738.1	ENSP00000200453	PR15A_HUMAN	.	UPI000006F652	.	deleterious(0.02)	benign(0.026)	2/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16489,hmmpanther:PTHR16489:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAAGATGAGG	.	5	BLCA
PPFIA3	0	.	GRCh37	19	49631305	49631305	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175C>T	p.Arg59Trp	p.R59W	ENST00000334186	2/30	31	17	13	22	22	0	PPFIA3,missense_variant,p.Arg59Trp,ENST00000334186,;PPFIA3,missense_variant,p.Arg59Trp,ENST00000602351,;PPFIA3,missense_variant,p.Arg59Trp,ENST00000602509,;PPFIA3,missense_variant,p.Arg59Trp,ENST00000602655,;PPFIA3,non_coding_transcript_exon_variant,,ENST00000602492,;PPFIA3,upstream_gene_variant,,ENST00000602726,;PPFIA3,upstream_gene_variant,,ENST00000421230,;PPFIA3,upstream_gene_variant,,ENST00000602716,;	T	ENSG00000177380	ENST00000334186	Transcript	missense_variant	524	175	59	R/W	Cgg/Tgg	COSM1751053	.	.	1	PPFIA3	HGNC	9247	protein_coding	YES	CCDS12758.1	ENSP00000335614	LIPA3_HUMAN	R4GNF1_HUMAN	UPI00001AE464	.	deleterious(0)	probably_damaging(0.994)	2/30	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCTGCGGCTG	.	5	BLCA
PPFIA3	0	.	GRCh37	19	49637359	49637359	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1314G>A	p.%3D	p.L438L	ENST00000334186	11/30	68	52	16	64	64	0	PPFIA3,synonymous_variant,p.%3D,ENST00000334186,;PPFIA3,synonymous_variant,p.%3D,ENST00000602351,;PPFIA3,synonymous_variant,p.%3D,ENST00000602655,;PPFIA3,non_coding_transcript_exon_variant,,ENST00000421230,;PPFIA3,non_coding_transcript_exon_variant,,ENST00000602716,;PPFIA3,downstream_gene_variant,,ENST00000602726,;PPFIA3,downstream_gene_variant,,ENST00000602492,;	A	ENSG00000177380	ENST00000334186	Transcript	synonymous_variant	1663	1314	438	L	ctG/ctA	.	.	.	1	PPFIA3	HGNC	9247	protein_coding	YES	CCDS12758.1	ENSP00000335614	LIPA3_HUMAN	R4GNF1_HUMAN	UPI00001AE464	.	.	.	11/30	.	hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGCGA	.	5	BLCA
CPT1C	0	.	GRCh37	19	50210834	50210834	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1403delT	p.Val468GlyfsTer62	p.V468Gfs*62	ENST00000392518	13/20	51	34	17	39	39	0	CPT1C,frameshift_variant,p.Val90GlyfsTer62,ENST00000595031,;CPT1C,frameshift_variant,p.Val468GlyfsTer62,ENST00000598293,;CPT1C,frameshift_variant,p.Val468GlyfsTer62,ENST00000323446,;CPT1C,frameshift_variant,p.Val468GlyfsTer62,ENST00000392518,;CPT1C,frameshift_variant,p.Val468GlyfsTer62,ENST00000354199,;CPT1C,frameshift_variant,p.Val457GlyfsTer62,ENST00000405931,;CPT1C,downstream_gene_variant,,ENST00000598396,;CPT1C,3_prime_UTR_variant,,ENST00000598259,;CPT1C,non_coding_transcript_exon_variant,,ENST00000596701,;CPT1C,non_coding_transcript_exon_variant,,ENST00000599023,;CPT1C,non_coding_transcript_exon_variant,,ENST00000295404,;CPT1C,downstream_gene_variant,,ENST00000595568,;CPT1C,upstream_gene_variant,,ENST00000595901,;CPT1C,upstream_gene_variant,,ENST00000599937,;CPT1C,downstream_gene_variant,,ENST00000594431,;	-	ENSG00000169169	ENST00000392518	Transcript	frameshift_variant	1775	1403	468	V/X	gTg/gg	.	.	.	1	CPT1C	HGNC	18540	protein_coding	YES	CCDS12779.1	ENSP00000376303	CPT1C_HUMAN	M0R2V3_HUMAN,M0R115_HUMAN,M0QZ13_HUMAN,B3KU49_HUMAN	UPI0000071C78	.	.	.	13/20	.	Superfamily_domains:SSF52777,Pfam_domain:PF00755,PROSITE_patterns:PS00440,hmmpanther:PTHR22589,hmmpanther:PTHR22589:SF55	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCAGCGTGGAGC	.	3	BLCA
TBC1D17	0	.	GRCh37	19	50385408	50385408	+	Missense_Mutation	SNP	C	C	T	rs150427628	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.638C>T	p.Ser213Leu	p.S213L	ENST00000221543	6/17	127	61	66	102	102	0	TBC1D17,missense_variant,p.Ser192Leu,ENST00000599049,;TBC1D17,missense_variant,p.Ser180Leu,ENST00000535102,;TBC1D17,missense_variant,p.Ser213Leu,ENST00000221543,;AKT1S1,upstream_gene_variant,,ENST00000391835,;AKT1S1,upstream_gene_variant,,ENST00000391832,;AKT1S1,upstream_gene_variant,,ENST00000344175,;AKT1S1,upstream_gene_variant,,ENST00000391830,;AKT1S1,upstream_gene_variant,,ENST00000391834,;AKT1S1,upstream_gene_variant,,ENST00000482622,;TBC1D17,downstream_gene_variant,,ENST00000598789,;TBC1D17,splice_region_variant,,ENST00000596243,;TBC1D17,splice_region_variant,,ENST00000594996,;TBC1D17,upstream_gene_variant,,ENST00000594984,;TBC1D17,upstream_gene_variant,,ENST00000600354,;	T	ENSG00000104946	ENST00000221543	Transcript	missense_variant	937	638	213	S/L	tCa/tTa	rs150427628	.	.	1	TBC1D17	HGNC	25699	protein_coding	YES	CCDS12785.1	ENSP00000221543	TBC17_HUMAN	Q96RQ7_HUMAN	UPI000013C7D2	.	deleterious(0.02)	probably_damaging(0.986)	6/17	.	hmmpanther:PTHR22957:SF228,hmmpanther:PTHR22957,Pfam_domain:PF12068	G:0.0002	G:0	G:0	.	G:0	G:0	G:0.001	G:0	G:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGTCAGTGA	byCluster|by1000G	5	BLCA
KDM4B	0	.	GRCh37	19	5041208	5041208	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378C>T	p.%3D	p.L126L	ENST00000159111	5/23	74	49	25	118	118	0	KDM4B,synonymous_variant,p.%3D,ENST00000536461,;KDM4B,synonymous_variant,p.%3D,ENST00000159111,;KDM4B,synonymous_variant,p.%3D,ENST00000381759,;KDM4B,downstream_gene_variant,,ENST00000588337,;	T	ENSG00000127663	ENST00000159111	Transcript	synonymous_variant	596	378	126	L	ctC/ctT	.	.	.	1	KDM4B	HGNC	29136	protein_coding	YES	CCDS12138.1	ENSP00000159111	KDM4B_HUMAN	K7ES23_HUMAN	UPI00001C202B	.	.	.	5/23	.	hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF30,Superfamily_domains:SSF51197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCTCACCTT	.	5	BLCA
POLD1	0	.	GRCh37	19	50920507	50920507	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3199G>A	p.Glu1067Lys	p.E1067K	ENST00000440232	26/27	19	9	9	14	14	0	POLD1,missense_variant,p.Glu1093Lys,ENST00000595904,;POLD1,missense_variant,p.Glu1067Lys,ENST00000599857,;POLD1,missense_variant,p.Arg258Gln,ENST00000593981,;POLD1,missense_variant,p.Glu1067Lys,ENST00000440232,;CTD-2545M3.6,missense_variant,p.Glu137Lys,ENST00000599632,;SPIB,upstream_gene_variant,,ENST00000439922,;SPIB,upstream_gene_variant,,ENST00000594685,;POLD1,downstream_gene_variant,,ENST00000593407,;SPIB,upstream_gene_variant,,ENST00000596074,;SPIB,upstream_gene_variant,,ENST00000270632,;SPIB,upstream_gene_variant,,ENST00000597855,;SPIB,upstream_gene_variant,,ENST00000595883,;POLD1,downstream_gene_variant,,ENST00000596425,;POLD1,3_prime_UTR_variant,,ENST00000600859,;POLD1,non_coding_transcript_exon_variant,,ENST00000596221,;POLD1,non_coding_transcript_exon_variant,,ENST00000597963,;SPIB,upstream_gene_variant,,ENST00000594188,;SPIB,upstream_gene_variant,,ENST00000599923,;POLD1,downstream_gene_variant,,ENST00000596648,;	A	ENSG00000062822	ENST00000440232	Transcript	missense_variant	3252	3199	1067	E/K	Gag/Aag	.	.	.	1	POLD1	HGNC	9175	protein_coding	YES	CCDS12795.1	ENSP00000406046	DPOD1_HUMAN	M0R2J2_HUMAN	UPI000007288E	.	tolerated(0.05)	possibly_damaging(0.698)	26/27	.	Pfam_domain:PF14260,hmmpanther:PTHR10322,hmmpanther:PTHR10322:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACGAGGAC	.	5	BLCA
KLK6	0	.	GRCh37	19	51462506	51462506	+	Missense_Mutation	SNP	G	G	A	rs138116440	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649C>T	p.Pro217Ser	p.P217S	ENST00000376851	6/6	100	51	48	86	86	0	KLK6,missense_variant,p.Pro217Ser,ENST00000310157,;KLK6,missense_variant,p.Pro110Ser,ENST00000456750,;KLK6,missense_variant,p.Pro217Ser,ENST00000376851,;KLK6,missense_variant,p.Pro217Ser,ENST00000594641,;KLK6,missense_variant,p.Pro110Ser,ENST00000391808,;KLK6,synonymous_variant,p.%3D,ENST00000376853,;KLK6,downstream_gene_variant,,ENST00000424910,;CTB-147C22.8,intron_variant,,ENST00000601506,;CTB-147C22.8,downstream_gene_variant,,ENST00000594939,;KLK6,3_prime_UTR_variant,,ENST00000599690,;KLK6,3_prime_UTR_variant,,ENST00000597379,;KLK6,3_prime_UTR_variant,,ENST00000599881,;	A	ENSG00000167755	ENST00000376851	Transcript	missense_variant	1089	649	217	P/S	Ccc/Tcc	rs138116440	.	.	-1	KLK6	HGNC	6367	protein_coding	YES	CCDS12811.1	ENSP00000366047	KLK6_HUMAN	.	UPI000004CA06	.	deleterious(0.01)	probably_damaging(1)	6/6	.	Superfamily_domains:SSF50494,SMART_domains:SM00020,Gene3D:2.40.10.10,Pfam_domain:PF00089,hmmpanther:PTHR24271:SF19,hmmpanther:PTHR24271,PROSITE_profiles:PS50240	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGGGGATGT	byCluster|by1000G	5	BLCA
ZNF616	0	.	GRCh37	19	52618886	52618886	+	Missense_Mutation	SNP	G	G	A	rs144936748	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1531C>T	p.His511Tyr	p.H511Y	ENST00000600228	4/4	165	130	35	159	159	0	ZNF616,missense_variant,p.His511Tyr,ENST00000600228,;ZNF616,3_prime_UTR_variant,,ENST00000330123,;ZNF616,downstream_gene_variant,,ENST00000596290,;CTC-471J1.10,upstream_gene_variant,,ENST00000603942,;	A	ENSG00000204611	ENST00000600228	Transcript	missense_variant	1793	1531	511	H/Y	Cat/Tat	rs144936748	.	.	-1	ZNF616	HGNC	28062	protein_coding	YES	CCDS33090.1	ENSP00000471000	ZN616_HUMAN	M0QXF0_HUMAN	UPI0000140D49	.	deleterious(0)	probably_damaging(0.999)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF275,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGATGCACTG	byCluster	5	BLCA
ZNF480	0	.	GRCh37	19	52825923	52825923	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1420C>T	p.Gln474Ter	p.Q474*	ENST00000595962	5/5	111	52	58	89	89	0	ZNF480,stop_gained,p.Gln431Ter,ENST00000334564,;ZNF480,stop_gained,p.Gln397Ter,ENST00000335090,;ZNF480,stop_gained,p.Gln474Ter,ENST00000595962,;ZNF480,3_prime_UTR_variant,,ENST00000490272,;ZNF480,downstream_gene_variant,,ENST00000598016,;CTD-2525I3.6,intron_variant,,ENST00000594379,;ZNF480,stop_gained,p.Gln474Ter,ENST00000468240,;	T	ENSG00000198464	ENST00000595962	Transcript	stop_gained	1486	1420	474	Q/*	Cag/Tag	.	.	.	1	ZNF480	HGNC	23305	protein_coding	YES	CCDS12850.2	ENSP00000471754	ZN480_HUMAN	.	UPI0000202AEF	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24387,hmmpanther:PTHR24387:SF12,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCAGAGA	.	5	BLCA
ZNF320	0	.	GRCh37	19	53384578	53384578	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.801T>C	p.%3D	p.H267H	ENST00000595635	8/8	149	112	36	153	153	0	ZNF320,synonymous_variant,p.%3D,ENST00000595635,;ZNF320,synonymous_variant,p.%3D,ENST00000391781,;ZNF320,intron_variant,,ENST00000597909,;ZNF320,downstream_gene_variant,,ENST00000594741,;ZNF320,downstream_gene_variant,,ENST00000597265,;ZNF320,downstream_gene_variant,,ENST00000597091,;ZNF320,downstream_gene_variant,,ENST00000593618,;ZNF320,intron_variant,,ENST00000600930,;ZNF320,upstream_gene_variant,,ENST00000598199,;	G	ENSG00000182986	ENST00000595635	Transcript	synonymous_variant	1303	801	267	H	caT/caC	.	.	.	-1	ZNF320	HGNC	13842	protein_coding	YES	CCDS33095.1	ENSP00000473091	ZN320_HUMAN	Q6ZP55_HUMAN,M0R2L4_HUMAN,M0R1K6_HUMAN,M0R0Z8_HUMAN,M0QZA2_HUMAN	UPI00004EC06C	.	.	.	8/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF197,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTATGCAG	.	5	BLCA
ZNF160	0	.	GRCh37	19	53572796	53572796	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.991C>T	p.His331Tyr	p.H331Y	ENST00000429604	7/7	151	68	83	116	116	0	ZNF160,missense_variant,p.His331Tyr,ENST00000418871,;ZNF160,missense_variant,p.His331Tyr,ENST00000599247,;ZNF160,missense_variant,p.His295Tyr,ENST00000601421,;ZNF160,missense_variant,p.His331Tyr,ENST00000429604,;ZNF160,missense_variant,p.His331Tyr,ENST00000599056,;ZNF160,downstream_gene_variant,,ENST00000355147,;ZNF160,downstream_gene_variant,,ENST00000601982,;	A	ENSG00000170949	ENST00000429604	Transcript	missense_variant	1407	991	331	H/Y	Cat/Tat	.	.	.	-1	ZNF160	HGNC	12948	protein_coding	YES	CCDS12859.1	ENSP00000406201	ZN160_HUMAN	M0QZI7_HUMAN,M0QZ49_HUMAN,M0QXU9_HUMAN	UPI0000202B37	.	deleterious(0)	probably_damaging(0.961)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF132,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGATGAGTTG	.	5	BLCA
ZNF415	0	.	GRCh37	19	53625765	53625765	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-94C>T	.	.	ENST00000500065	2/4	40	16	23	29	29	0	ZNF415,5_prime_UTR_variant,,ENST00000595813,;ZNF415,5_prime_UTR_variant,,ENST00000500065,;ZNF415,5_prime_UTR_variant,,ENST00000599261,;ZNF415,intron_variant,,ENST00000440291,;ZNF415,intron_variant,,ENST00000596051,;ZNF415,intron_variant,,ENST00000455735,;ZNF415,intron_variant,,ENST00000600574,;ZNF415,intron_variant,,ENST00000601215,;ZNF415,intron_variant,,ENST00000448501,;ZNF415,intron_variant,,ENST00000601110,;ZNF415,intron_variant,,ENST00000601493,;ZNF415,intron_variant,,ENST00000243643,;ZNF415,intron_variant,,ENST00000594011,;ZNF415,intron_variant,,ENST00000597503,;ZNF415,intron_variant,,ENST00000595193,;ZNF415,intron_variant,,ENST00000421033,;ZNF415,intron_variant,,ENST00000595174,;ZNF415,intron_variant,,ENST00000597748,;ZNF347,downstream_gene_variant,,ENST00000601804,;ZNF415,non_coding_transcript_exon_variant,,ENST00000596106,;ZNF415,non_coding_transcript_exon_variant,,ENST00000602024,;ZNF415,non_coding_transcript_exon_variant,,ENST00000594286,;ZNF415,intron_variant,,ENST00000602110,;ZNF415,intron_variant,,ENST00000596683,;ZNF415,intron_variant,,ENST00000595359,;ZNF415,non_coding_transcript_exon_variant,,ENST00000600098,;ZNF415,intron_variant,,ENST00000600120,;ZNF415,intron_variant,,ENST00000598578,;ZNF415,intron_variant,,ENST00000598024,;ZNF415,intron_variant,,ENST00000597877,;	A	ENSG00000170954	ENST00000500065	Transcript	5_prime_UTR_variant	241	.	.	.	.	.	.	.	-1	ZNF415	HGNC	20636	protein_coding	YES	CCDS54313.1	ENSP00000439435	ZN415_HUMAN	.	UPI0000E04BC1	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GAGATGAGAAG	.	4	BLCA
ZNRF4	0	.	GRCh37	19	5456580	5456580	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1078G>A	p.Asp360Asn	p.D360N	ENST00000222033	1/1	58	45	12	88	88	0	ZNRF4,missense_variant,p.Asp360Asn,ENST00000222033,;	A	ENSG00000105428	ENST00000222033	Transcript	missense_variant	1155	1078	360	D/N	Gac/Aac	.	.	.	1	ZNRF4	HGNC	17726	protein_coding	YES	CCDS42475.1	ENSP00000222033	ZNRF4_HUMAN	.	UPI0000366CF5	.	deleterious(0.01)	probably_damaging(0.94)	1/1	.	hmmpanther:PTHR22765:SF34,hmmpanther:PTHR22765	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAAGACAGC	.	5	BLCA
TFPT	0	.	GRCh37	19	54618048	54618048	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.56C>T	p.Ser19Leu	p.S19L	ENST00000391759	2/6	151	117	33	146	146	0	TFPT,missense_variant,p.Ser19Leu,ENST00000391757,;TFPT,missense_variant,p.Ser10Leu,ENST00000391758,;TFPT,missense_variant,p.Ser19Leu,ENST00000391759,;PRPF31,upstream_gene_variant,,ENST00000391755,;PRPF31,upstream_gene_variant,,ENST00000445124,;PRPF31,upstream_gene_variant,,ENST00000419967,;PRPF31,upstream_gene_variant,,ENST00000321030,;PRPF31,upstream_gene_variant,,ENST00000447810,;PRPF31,upstream_gene_variant,,ENST00000445811,;AC012314.8,downstream_gene_variant,,ENST00000452097,;PRPF31,upstream_gene_variant,,ENST00000498612,;TFPT,missense_variant,p.Ser19Leu,ENST00000420715,;PRPF31,upstream_gene_variant,,ENST00000467851,;PRPF31,upstream_gene_variant,,ENST00000466404,;	A	ENSG00000105619	ENST00000391759	Transcript	missense_variant	462	56	19	S/L	tCa/tTa	.	.	.	-1	TFPT	HGNC	13630	protein_coding	YES	CCDS12878.1	ENSP00000375639	TFPT_HUMAN	G5E9B5_HUMAN	UPI000006CFD4	.	deleterious(0)	probably_damaging(0.997)	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTGAGAAC	.	5	BLCA
CNOT3	0	.	GRCh37	19	54657423	54657423	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2038-29G>A	.	.	ENST00000406403	.	29	23	6	24	24	0	CNOT3,intron_variant,,ENST00000457463,;CNOT3,intron_variant,,ENST00000406403,;CNOT3,intron_variant,,ENST00000221232,;LENG1,downstream_gene_variant,,ENST00000222224,;CNOT3,downstream_gene_variant,,ENST00000358389,;CNOT3,downstream_gene_variant,,ENST00000440571,;CNOT3,upstream_gene_variant,,ENST00000471126,;CNOT3,non_coding_transcript_exon_variant,,ENST00000496327,;CNOT3,3_prime_UTR_variant,,ENST00000447684,;CNOT3,intron_variant,,ENST00000482247,;CNOT3,intron_variant,,ENST00000489953,;	A	ENSG00000088038	ENST00000406403	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	CNOT3	HGNC	7879	protein_coding	YES	CCDS12880.1	ENSP00000383954	CNOT3_HUMAN	.	UPI00000729AD	.	.	.	.	15/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTGATCCC	.	5	BLCA
LILRB1	0	.	GRCh37	19	55143514	55143514	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.487G>A	p.Glu163Lys	p.E163K	ENST00000324602	5/15	125	90	35	116	116	0	LILRB1,missense_variant,p.Glu163Lys,ENST00000396317,;LILRB1,missense_variant,p.Glu163Lys,ENST00000448689,;LILRB1,missense_variant,p.Glu163Lys,ENST00000396331,;LILRB1,missense_variant,p.Glu163Lys,ENST00000396315,;LILRB1,missense_variant,p.Glu199Lys,ENST00000427581,;LILRB1,missense_variant,p.Glu163Lys,ENST00000396327,;LILRB1,missense_variant,p.Glu163Lys,ENST00000418536,;LILRB1,missense_variant,p.Glu163Lys,ENST00000434867,;LILRB1,missense_variant,p.Glu163Lys,ENST00000324602,;LILRB1,missense_variant,p.Glu163Lys,ENST00000396332,;LILRB1,missense_variant,p.Glu163Lys,ENST00000396321,;AC009892.10,downstream_gene_variant,,ENST00000456337,;AC009892.1,upstream_gene_variant,,ENST00000578908,;LILRB1,upstream_gene_variant,,ENST00000462628,;LILRB1,upstream_gene_variant,,ENST00000473412,;LILRB1,downstream_gene_variant,,ENST00000480257,;LILRB1,missense_variant,p.Glu163Lys,ENST00000421584,;LILRB1,upstream_gene_variant,,ENST00000480375,;LILRB1,upstream_gene_variant,,ENST00000487425,;	A	ENSG00000104972	ENST00000324602	Transcript	missense_variant	712	487	163	E/K	Gaa/Aaa	.	.	.	1	LILRB1	HGNC	6605	protein_coding	YES	CCDS42614.1	ENSP00000315997	LIRB1_HUMAN	.	UPI0000034BFC	.	tolerated(1)	benign(0)	5/15	.	hmmpanther:PTHR11738,hmmpanther:PTHR11738:SF89,Pfam_domain:PF13927,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAACAC	.	5	BLCA
FCAR	0	.	GRCh37	19	55399707	55399707	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649+46G>A	.	.	ENST00000355524	.	16	9	7	13	13	0	FCAR,missense_variant,p.Gly232Glu,ENST00000469767,;FCAR,intron_variant,,ENST00000345937,;FCAR,intron_variant,,ENST00000353758,;FCAR,intron_variant,,ENST00000355524,;FCAR,intron_variant,,ENST00000391724,;FCAR,intron_variant,,ENST00000359272,;FCAR,intron_variant,,ENST00000391723,;FCAR,intron_variant,,ENST00000391726,;FCAR,intron_variant,,ENST00000391725,;CTB-61M7.2,upstream_gene_variant,,ENST00000594721,;FCAR,intron_variant,,ENST00000482092,;FCAR,intron_variant,,ENST00000471750,;FCAR,intron_variant,,ENST00000472634,;FCAR,missense_variant,p.Gly220Glu,ENST00000488066,;	A	ENSG00000186431	ENST00000355524	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	FCAR	HGNC	3608	protein_coding	YES	CCDS12907.1	ENSP00000347714	FCAR_HUMAN	A5Y2F0_HUMAN	UPI000011B429	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGGGCCTT	.	5	BLCA
PPP6R1	0	.	GRCh37	19	55742824	55742824	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2413C>T	p.Gln805Ter	p.Q805*	ENST00000412770	21/24	16	9	7	21	21	0	PPP6R1,stop_gained,p.Gln805Ter,ENST00000587283,;PPP6R1,stop_gained,p.Gln805Ter,ENST00000412770,;TMEM86B,upstream_gene_variant,,ENST00000327042,;AC010327.2,downstream_gene_variant,,ENST00000598855,;AC010327.1,upstream_gene_variant,,ENST00000581390,;PPP6R1,non_coding_transcript_exon_variant,,ENST00000587457,;TMEM86B,upstream_gene_variant,,ENST00000589190,;PPP6R1,downstream_gene_variant,,ENST00000586690,;TMEM86B,upstream_gene_variant,,ENST00000585416,;TMEM86B,upstream_gene_variant,,ENST00000586923,;	A	ENSG00000105063	ENST00000412770	Transcript	stop_gained	2980	2413	805	Q/*	Cag/Tag	.	.	.	-1	PPP6R1	HGNC	29195	protein_coding	YES	CCDS46186.1	ENSP00000414202	PP6R1_HUMAN	Q96ID3_HUMAN,K7EM28_HUMAN	UPI0000202C6D	.	.	.	21/24	.	hmmpanther:PTHR12634:SF13,hmmpanther:PTHR12634	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAAGGT	.	5	BLCA
BRSK1	0	.	GRCh37	19	55805596	55805596	+	Missense_Mutation	SNP	C	C	T	rs757271976	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.590C>T	p.Ala197Val	p.A197V	ENST00000309383	6/19	77	61	15	84	84	0	BRSK1,missense_variant,p.Ala197Val,ENST00000585418,;BRSK1,missense_variant,p.Ala197Val,ENST00000309383,;BRSK1,missense_variant,p.Ala213Val,ENST00000590333,;BRSK1,3_prime_UTR_variant,,ENST00000592539,;	T	ENSG00000160469	ENST00000309383	Transcript	missense_variant	867	590	197	A/V	gCg/gTg	rs757271976	.	.	1	BRSK1	HGNC	18994	protein_coding	YES	CCDS12921.1	ENSP00000310649	BRSK1_HUMAN	K7EM68_HUMAN,J3KNK0_HUMAN	UPI0000070495	.	deleterious(0.04)	possibly_damaging(0.829)	6/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343,hmmpanther:PTHR24343:SF130,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATGCGTGTC	.	5	BLCA
NLRP13	0	.	GRCh37	19	56410268	56410268	+	Missense_Mutation	SNP	C	C	T	rs772345745	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2825G>A	p.Gly942Glu	p.G942E	ENST00000342929	10/11	75	38	37	65	65	0	NLRP13,missense_variant,p.Gly942Glu,ENST00000588751,;NLRP13,missense_variant,p.Gly942Glu,ENST00000342929,;	T	ENSG00000173572	ENST00000342929	Transcript	missense_variant	2825	2825	942	G/E	gGa/gAa	rs772345745,COSM322051	.	.	-1	NLRP13	HGNC	22937	protein_coding	YES	CCDS33119.1	ENSP00000343891	NAL13_HUMAN	.	UPI00001AEEC8	.	tolerated(0.51)	benign(0.09)	10/11	.	hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF10,Pfam_domain:PF13516,Gene3D:3.80.10.10,SMART_domains:SM00368,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCCACAG	.	5	BLCA
ZSCAN5A	0	.	GRCh37	19	56732987	56732987	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1448T>C	p.Leu483Ser	p.L483S	ENST00000587340	7/7	64	35	28	51	51	0	ZSCAN5A,missense_variant,p.Leu337Ser,ENST00000587492,;ZSCAN5A,missense_variant,p.Leu482Ser,ENST00000592355,;ZSCAN5A,missense_variant,p.Leu483Ser,ENST00000587340,;ZSCAN5A,missense_variant,p.Leu483Ser,ENST00000391713,;ZSCAN5A,missense_variant,p.Leu366Ser,ENST00000254165,;ZSCAN5A,downstream_gene_variant,,ENST00000593106,;ZSCAN5A,downstream_gene_variant,,ENST00000588955,;ZSCAN5A,downstream_gene_variant,,ENST00000588442,;ZSCAN5A,downstream_gene_variant,,ENST00000592679,;ZSCAN5A,downstream_gene_variant,,ENST00000592509,;ZSCAN5A,downstream_gene_variant,,ENST00000592101,;CTD-2086L14.1,upstream_gene_variant,,ENST00000474329,;	G	ENSG00000131848	ENST00000587340	Transcript	missense_variant	2144	1448	483	L/S	tTa/tCa	.	.	.	-1	ZSCAN5A	HGNC	23710	protein_coding	YES	CCDS12941.1	ENSP00000467631	ZSA5A_HUMAN	K7ESN6_HUMAN,K7ESE4_HUMAN,K7EQW6_HUMAN,K7EN85_HUMAN,K7EMC4_HUMAN,K7EIX9_HUMAN	UPI0000072024	.	deleterious(0.04)	benign(0.4)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR10032:SF164,hmmpanther:PTHR10032,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTAACAAT	.	5	BLCA
ZNF583	0	.	GRCh37	19	56934425	56934425	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.398G>A	p.Gly133Glu	p.G133E	ENST00000333201	5/5	96	55	40	107	107	0	ZNF583,missense_variant,p.Gly133Glu,ENST00000333201,;ZNF583,missense_variant,p.Gly133Glu,ENST00000391778,;ZNF583,missense_variant,p.Gly133Glu,ENST00000291598,;ZNF583,downstream_gene_variant,,ENST00000537943,;ZNF583,upstream_gene_variant,,ENST00000585612,;	A	ENSG00000198440	ENST00000333201	Transcript	missense_variant	608	398	133	G/E	gGa/gAa	.	.	.	1	ZNF583	HGNC	26427	protein_coding	YES	CCDS12943.1	ENSP00000388502	ZN583_HUMAN	I3L0C4_HUMAN,F5GZQ5_HUMAN	UPI000013E700	.	tolerated(1)	benign(0.005)	5/5	.	hmmpanther:PTHR24387:SF211,hmmpanther:PTHR24387	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGGAAGTC	.	5	BLCA
ZNF583	0	.	GRCh37	19	56935216	56935216	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189C>T	p.Gln397Ter	p.Q397*	ENST00000333201	5/5	82	48	34	75	75	0	ZNF583,stop_gained,p.Gln397Ter,ENST00000333201,;ZNF583,stop_gained,p.Gln397Ter,ENST00000291598,;ZNF583,downstream_gene_variant,,ENST00000391778,;ZNF583,downstream_gene_variant,,ENST00000537943,;ZNF583,intron_variant,,ENST00000585612,;	T	ENSG00000198440	ENST00000333201	Transcript	stop_gained	1399	1189	397	Q/*	Caa/Taa	.	.	.	1	ZNF583	HGNC	26427	protein_coding	YES	CCDS12943.1	ENSP00000388502	ZN583_HUMAN	I3L0C4_HUMAN,F5GZQ5_HUMAN	UPI000013E700	.	.	.	5/5	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24387:SF211,hmmpanther:PTHR24387,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTCAACAT	.	5	BLCA
ZNF17	0	.	GRCh37	19	57932112	57932112	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1252G>A	p.Glu418Lys	p.E418K	ENST00000601808	3/3	127	101	25	134	134	0	ZNF17,missense_variant,p.Glu420Lys,ENST00000307658,;ZNF17,missense_variant,p.Glu418Lys,ENST00000601808,;AC004076.7,intron_variant,,ENST00000597410,;AC003002.6,downstream_gene_variant,,ENST00000596400,;AC003002.6,downstream_gene_variant,,ENST00000596617,;ZNF17,downstream_gene_variant,,ENST00000597350,;ZNF17,downstream_gene_variant,,ENST00000595206,;ZNF17,downstream_gene_variant,,ENST00000599867,;ZNF17,non_coding_transcript_exon_variant,,ENST00000602050,;ZNF17,downstream_gene_variant,,ENST00000595162,;	A	ENSG00000186272	ENST00000601808	Transcript	missense_variant	1465	1252	418	E/K	Gaa/Aaa	.	.	.	1	ZNF17	HGNC	12958	protein_coding	YES	CCDS42636.1	ENSP00000471905	ZNF17_HUMAN	.	UPI00001D8198	.	deleterious(0.04)	benign(0.025)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF166,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAGTGAATGT	.	5	BLCA
BSG	0	.	GRCh37	19	580458	580458	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652C>T	p.His218Tyr	p.H218Y	ENST00000333511	4/9	34	23	11	44	44	0	BSG,missense_variant,p.His102Tyr,ENST00000353555,;BSG,missense_variant,p.His9Tyr,ENST00000573784,;BSG,missense_variant,p.His9Tyr,ENST00000545507,;BSG,missense_variant,p.His9Tyr,ENST00000576984,;BSG,missense_variant,p.His94Tyr,ENST00000573216,;BSG,missense_variant,p.His218Tyr,ENST00000333511,;BSG,missense_variant,p.His38Tyr,ENST00000346916,;BSG,downstream_gene_variant,,ENST00000574970,;BSG,non_coding_transcript_exon_variant,,ENST00000572899,;BSG,non_coding_transcript_exon_variant,,ENST00000571735,;BSG,downstream_gene_variant,,ENST00000590218,;BSG,downstream_gene_variant,,ENST00000576925,;	T	ENSG00000172270	ENST00000333511	Transcript	missense_variant	722	652	218	H/Y	Cac/Tac	.	.	.	1	BSG	HGNC	1116	protein_coding	YES	CCDS12033.1	ENSP00000333769	BASI_HUMAN	R4GN83_HUMAN,R4GMX5_HUMAN	UPI0000051E38	.	deleterious(0)	benign(0.003)	4/9	.	hmmpanther:PTHR10075,hmmpanther:PTHR10075:SF12,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTCCACGGT	.	5	BLCA
ZNF211	0	.	GRCh37	19	58153062	58153062	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1403G>A	p.Gly468Glu	p.G468E	ENST00000299871	5/5	85	65	19	77	77	0	ZNF211,missense_variant,p.Gly394Glu,ENST00000254182,;ZNF211,missense_variant,p.Gly407Glu,ENST00000420680,;ZNF211,missense_variant,p.Gly416Glu,ENST00000240731,;ZNF211,missense_variant,p.Gly415Glu,ENST00000544273,;ZNF211,missense_variant,p.Gly394Glu,ENST00000541801,;ZNF211,missense_variant,p.Gly468Glu,ENST00000299871,;ZNF211,missense_variant,p.Gly403Glu,ENST00000347302,;ZNF211,missense_variant,p.Gly342Glu,ENST00000391703,;ZNF211,missense_variant,p.Gly407Glu,ENST00000407202,;ZNF211,3_prime_UTR_variant,,ENST00000540556,;ZNF211,3_prime_UTR_variant,,ENST00000535785,;	A	ENSG00000121417	ENST00000299871	Transcript	missense_variant	1534	1403	468	G/E	gGa/gAa	.	.	.	1	ZNF211	HGNC	13003	protein_coding	YES	CCDS58686.1	ENSP00000299871	ZN211_HUMAN	.	UPI0000D4CB1A	.	deleterious(0)	probably_damaging(1)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24387,hmmpanther:PTHR24387:SF201,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.C414W|c.1242T>G|3,BUFFER|p.C415W|c.1245T>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTGGAAAAT	.	5	BLCA
ZNF154	0	.	GRCh37	19	58213755	58213755	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562C>T	p.Pro188Ser	p.P188S	ENST00000512439	3/4	142	62	80	157	157	0	ZNF154,missense_variant,p.Pro188Ser,ENST00000426889,;ZNF154,missense_variant,p.Pro188Ser,ENST00000512439,;AC003006.7,intron_variant,,ENST00000594684,;ZNF551,intron_variant,,ENST00000596085,;AC003006.7,intron_variant,,ENST00000599221,;ZNF154,missense_variant,p.Pro188Ser,ENST00000451275,;	A	ENSG00000179909	ENST00000512439	Transcript	missense_variant	759	562	188	P/S	Cct/Tct	.	.	.	-1	ZNF154	HGNC	12939	protein_coding	YES	CCDS42639.1	ENSP00000421258	ZN154_HUMAN	.	UPI00001D819A	.	deleterious(0)	probably_damaging(0.998)	3/4	.	Superfamily_domains:SSF57667,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24387,hmmpanther:PTHR24387:SF75,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAAGGCTTTT	.	5	BLCA
ZNF587	0	.	GRCh37	19	58370753	58370753	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.973G>A	p.Glu325Lys	p.E325K	ENST00000339656	3/3	207	151	55	211	211	0	ZNF587,missense_variant,p.Glu324Lys,ENST00000423137,;ZNF587,missense_variant,p.Glu282Lys,ENST00000419854,;ZNF587,missense_variant,p.Glu325Lys,ENST00000339656,;ZNF814,intron_variant,,ENST00000597342,;ZNF814,intron_variant,,ENST00000595295,;ZNF814,intron_variant,,ENST00000596604,;ZNF814,intron_variant,,ENST00000597832,;CTD-2583A14.10,downstream_gene_variant,,ENST00000598031,;CTD-2583A14.10,downstream_gene_variant,,ENST00000597134,;ZNF587B,downstream_gene_variant,,ENST00000316462,;CTD-2583A14.10,downstream_gene_variant,,ENST00000593873,;CTD-2583A14.10,downstream_gene_variant,,ENST00000596498,;CTD-2583A14.10,downstream_gene_variant,,ENST00000603271,;ZNF814,upstream_gene_variant,,ENST00000597652,;ZNF587,upstream_gene_variant,,ENST00000596433,;ZNF814,non_coding_transcript_exon_variant,,ENST00000596184,;ZNF814,intron_variant,,ENST00000595894,;CTD-2583A14.10,downstream_gene_variant,,ENST00000604231,;	A	ENSG00000198466	ENST00000339656	Transcript	missense_variant	1155	973	325	E/K	Gag/Aag	.	.	.	1	ZNF587	HGNC	30955	protein_coding	YES	CCDS12964.1	ENSP00000345479	ZN587_HUMAN	M0R2A6_HUMAN,M0R178_HUMAN,M0R0V5_HUMAN,M0R0M6_HUMAN,M0QXF5_HUMAN,E7EP41_HUMAN	UPI0000073916	.	tolerated(0.1)	possibly_damaging(0.874)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF22,hmmpanther:PTHR24402,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATGAGTGT	.	5	BLCA
ZNF606	0	.	GRCh37	19	58490810	58490810	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1238C>T	p.Ser413Phe	p.S413F	ENST00000341164	7/7	67	35	32	83	83	0	ZNF606,missense_variant,p.Ser323Phe,ENST00000536132,;ZNF606,missense_variant,p.Ser413Phe,ENST00000551380,;ZNF606,missense_variant,p.Ser413Phe,ENST00000341164,;C19orf18,upstream_gene_variant,,ENST00000314391,;ZNF606,3_prime_UTR_variant,,ENST00000550599,;	A	ENSG00000166704	ENST00000341164	Transcript	missense_variant	1859	1238	413	S/F	tCt/tTt	.	.	.	-1	ZNF606	HGNC	25879	protein_coding	YES	CCDS12968.1	ENSP00000343617	ZN606_HUMAN	Q9H7U2_HUMAN,F8W1C8_HUMAN,F5H208_HUMAN	UPI000013C35B	.	deleterious(0)	probably_damaging(0.991)	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF278,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTAAGAGCTC	.	5	BLCA
RPS5	0	.	GRCh37	19	58904543	58904543	+	Silent	SNP	C	C	T	rs752244586	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309C>T	p.%3D	p.L103L	ENST00000596046	2/5	45	26	19	72	72	0	RPS5,synonymous_variant,p.%3D,ENST00000196551,;RPS5,synonymous_variant,p.%3D,ENST00000596314,;RPS5,synonymous_variant,p.%3D,ENST00000601521,;RPS5,synonymous_variant,p.%3D,ENST00000598495,;RPS5,synonymous_variant,p.%3D,ENST00000596046,;RPS5,intron_variant,,ENST00000598098,;AC012313.1,upstream_gene_variant,,ENST00000601382,;RPS5,non_coding_transcript_exon_variant,,ENST00000599232,;RPS5,non_coding_transcript_exon_variant,,ENST00000598807,;RPS5,downstream_gene_variant,,ENST00000599909,;	T	ENSG00000083845	ENST00000596046	Transcript	synonymous_variant	1158	309	103	L	ctC/ctT	rs752244586	.	.	1	RPS5	HGNC	10426	protein_coding	YES	CCDS12978.1	ENSP00000472985	RS5_HUMAN	M0R0F0_HUMAN	UPI0000135052	.	.	.	2/5	.	hmmpanther:PTHR11205,TIGRFAM_domain:TIGR01028,Pfam_domain:PF00177,Gene3D:1.10.455.10,Superfamily_domains:SSF47973	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCACAGG	.	5	BLCA
ZNF324B	0	.	GRCh37	19	58966867	58966867	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Gly186Arg	p.G186R	ENST00000336614	4/4	43	26	17	58	58	0	ZNF324B,missense_variant,p.Gly186Arg,ENST00000336614,;ZNF324B,missense_variant,p.Gly176Arg,ENST00000391696,;ZNF324B,missense_variant,p.Gly186Arg,ENST00000545523,;ZNF324B,downstream_gene_variant,,ENST00000599194,;ZNF324B,downstream_gene_variant,,ENST00000599193,;ZNF324B,downstream_gene_variant,,ENST00000594214,;ZNF324B,downstream_gene_variant,,ENST00000598244,;	A	ENSG00000249471	ENST00000336614	Transcript	missense_variant	663	556	186	G/R	Ggg/Agg	.	.	.	1	ZNF324B	HGNC	33107	protein_coding	YES	CCDS33138.1	ENSP00000337473	Z324B_HUMAN	M0R3B5_HUMAN,M0R1X9_HUMAN,M0R0B1_HUMAN	UPI000022AA2D	.	tolerated(0.56)	benign(0.013)	4/4	.	hmmpanther:PTHR24382,hmmpanther:PTHR24382:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGGGAGG	.	5	BLCA
ZNF446	0	.	GRCh37	19	58988578	58988578	+	5'UTR	SNP	G	G	A	rs201466747	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8G>A	.	.	ENST00000594369	2/7	126	80	46	166	166	0	ZNF446,5_prime_UTR_variant,,ENST00000596341,;ZNF446,5_prime_UTR_variant,,ENST00000335841,;ZNF446,5_prime_UTR_variant,,ENST00000600013,;ZNF446,5_prime_UTR_variant,,ENST00000594369,;ZNF324,downstream_gene_variant,,ENST00000535298,;ZNF324,downstream_gene_variant,,ENST00000196482,;ZNF324,downstream_gene_variant,,ENST00000593925,;ZNF324,downstream_gene_variant,,ENST00000536459,;CTD-2619J13.23,upstream_gene_variant,,ENST00000598051,;ZNF446,downstream_gene_variant,,ENST00000599913,;ZNF446,non_coding_transcript_exon_variant,,ENST00000391694,;ZNF446,non_coding_transcript_exon_variant,,ENST00000594468,;SLC27A5,downstream_gene_variant,,ENST00000595851,;	A	ENSG00000083838	ENST00000594369	Transcript	5_prime_UTR_variant	374	.	.	.	.	rs201466747	.	.	1	ZNF446	HGNC	21036	protein_coding	YES	CCDS12982.1	ENSP00000472802	ZN446_HUMAN	Q9UFF2_HUMAN,M0R034_HUMAN	UPI0000071779	.	.	.	2/7	.	.	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	C:0	C:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTGAGCAA	byCluster|by1000G	5	BLCA
ACSBG2	0	.	GRCh37	19	6161265	6161265	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547C>A	p.Gln183Lys	p.Q183K	ENST00000586696	6/15	33	25	8	48	48	0	ACSBG2,missense_variant,p.Gln183Lys,ENST00000586696,;ACSBG2,missense_variant,p.Gln183Lys,ENST00000591403,;ACSBG2,missense_variant,p.Gln183Lys,ENST00000252669,;ACSBG2,missense_variant,p.Gln133Lys,ENST00000588304,;ACSBG2,5_prime_UTR_variant,,ENST00000588485,;RFX2,intron_variant,,ENST00000592883,;ACSBG2,downstream_gene_variant,,ENST00000588722,;ACSBG2,non_coding_transcript_exon_variant,,ENST00000585526,;ACSBG2,upstream_gene_variant,,ENST00000591741,;ACSBG2,missense_variant,p.Gln48Lys,ENST00000587227,;ACSBG2,3_prime_UTR_variant,,ENST00000587617,;ACSBG2,3_prime_UTR_variant,,ENST00000592677,;	A	ENSG00000130377	ENST00000586696	Transcript	missense_variant	823	547	183	Q/K	Cag/Aag	.	.	.	1	ACSBG2	HGNC	24174	protein_coding	YES	CCDS12159.1	ENSP00000465589	ACBG2_HUMAN	K7ESC8_HUMAN,K7ERT0_HUMAN,K7EL11_HUMAN	UPI00001414E6	.	deleterious(0.02)	possibly_damaging(0.673)	6/15	.	hmmpanther:PTHR24096,hmmpanther:PTHR24096:SF129,Pfam_domain:PF00501,Gene3D:3.40.50.980,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATCCAGTAC	.	5	BLCA
POLRMT	0	.	GRCh37	19	619621	619621	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3031G>A	p.Glu1011Lys	p.E1011K	ENST00000588649	13/21	62	43	19	100	100	0	POLRMT,missense_variant,p.Glu1011Lys,ENST00000588649,;HCN2,downstream_gene_variant,,ENST00000251287,;POLRMT,upstream_gene_variant,,ENST00000590336,;POLRMT,downstream_gene_variant,,ENST00000590573,;LLNLR-299G3.1,upstream_gene_variant,,ENST00000607288,;AC005559.2,upstream_gene_variant,,ENST00000591847,;POLRMT,upstream_gene_variant,,ENST00000592633,;POLRMT,upstream_gene_variant,,ENST00000589961,;POLRMT,downstream_gene_variant,,ENST00000586384,;POLRMT,upstream_gene_variant,,ENST00000587057,;POLRMT,downstream_gene_variant,,ENST00000590709,;	T	ENSG00000099821	ENST00000588649	Transcript	missense_variant	3116	3031	1011	E/K	Gag/Aag	.	.	.	-1	POLRMT	HGNC	9200	protein_coding	YES	CCDS12036.1	ENSP00000465759	RPOM_HUMAN	.	UPI000013C68E	.	deleterious(0.01)	possibly_damaging(0.893)	13/21	.	hmmpanther:PTHR10102:SF0,hmmpanther:PTHR10102,Gene3D:1.10.150.20,Pfam_domain:PF00940,Superfamily_domains:SSF56672	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAATCT	.	5	BLCA
INSR	0	.	GRCh37	19	7166247	7166247	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1779G>A	p.%3D	p.V593V	ENST00000302850	8/22	49	38	11	45	45	0	INSR,synonymous_variant,p.%3D,ENST00000302850,;INSR,synonymous_variant,p.%3D,ENST00000600492,;INSR,synonymous_variant,p.%3D,ENST00000341500,;INSR,non_coding_transcript_exon_variant,,ENST00000598216,;	T	ENSG00000171105	ENST00000302850	Transcript	synonymous_variant	1922	1779	593	V	gtG/gtA	.	.	.	-1	INSR	HGNC	6091	protein_coding	YES	CCDS12176.1	ENSP00000303830	INSR_HUMAN	Q4U0V1_HUMAN,Q2PJC5_HUMAN,Q2PJC4_HUMAN,Q2PJC3_HUMAN,Q2PJC1_HUMAN,Q2MKP2_HUMAN,B4DTR7_HUMAN,A4ZPI8_HUMAN,A4ZPI7_HUMAN,A4ZPI5_HUMAN,A4ZPI3_HUMAN	UPI000020324D	.	.	.	8/22	.	hmmpanther:PTHR24416:SF140,hmmpanther:PTHR24416,Gene3D:2.60.40.10,PIRSF_domain:PIRSF000620,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCACAAA	.	5	BLCA
CAMSAP3	0	.	GRCh37	19	7682734	7682734	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3622G>A	p.Glu1208Lys	p.E1208K	ENST00000446248	19/19	40	29	11	44	44	0	CAMSAP3,missense_variant,p.Glu1181Lys,ENST00000160298,;CAMSAP3,missense_variant,p.Glu1208Lys,ENST00000446248,;XAB2,downstream_gene_variant,,ENST00000358368,;XAB2,downstream_gene_variant,,ENST00000534844,;CAMSAP3,non_coding_transcript_exon_variant,,ENST00000595692,;CAMSAP3,downstream_gene_variant,,ENST00000593434,;XAB2,downstream_gene_variant,,ENST00000600230,;XAB2,downstream_gene_variant,,ENST00000595288,;XAB2,downstream_gene_variant,,ENST00000596134,;	A	ENSG00000076826	ENST00000446248	Transcript	missense_variant	3723	3622	1208	E/K	Gag/Aag	.	.	.	1	CAMSAP3	HGNC	29307	protein_coding	YES	CCDS45947.1	ENSP00000416797	CAMP3_HUMAN	Q8WZ12_HUMAN,D6W648_HUMAN	UPI0000161861	.	deleterious(0)	benign(0.17)	19/19	.	PROSITE_profiles:PS51508,hmmpanther:PTHR21595,hmmpanther:PTHR21595:SF2,Pfam_domain:PF08683,SMART_domains:SM01051,Superfamily_domains:SSF50346	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAGGAGCTG	.	5	BLCA
RPS28	0	.	GRCh37	19	8386854	8386854	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105G>A	p.Met35Ile	p.M35I	ENST00000600659	3/4	10	4	6	15	15	0	RPS28,missense_variant,p.Met35Ile,ENST00000600659,;KANK3,downstream_gene_variant,,ENST00000593649,;NDUFA7,upstream_gene_variant,,ENST00000301457,;KANK3,downstream_gene_variant,,ENST00000330915,;RPS28,non_coding_transcript_exon_variant,,ENST00000417088,;RPS28,non_coding_transcript_exon_variant,,ENST00000449223,;RPS28,non_coding_transcript_exon_variant,,ENST00000602140,;NDUFA7,upstream_gene_variant,,ENST00000601101,;NDUFA7,upstream_gene_variant,,ENST00000593729,;NDUFA7,upstream_gene_variant,,ENST00000595856,;NDUFA7,upstream_gene_variant,,ENST00000598884,;NDUFA7,upstream_gene_variant,,ENST00000602059,;	A	ENSG00000233927	ENST00000600659	Transcript	missense_variant	136	105	35	M/I	atG/atA	.	.	.	1	RPS28	HGNC	10418	protein_coding	YES	CCDS45953.1	ENSP00000472469	RS28_HUMAN	B2R4R9_HUMAN	UPI000000D6F6	.	tolerated(0.13)	benign(0.407)	3/4	.	Superfamily_domains:SSF50249,Gene3D:2.40.50.140,Pfam_domain:PF01200,hmmpanther:PTHR10769,hmmpanther:PTHR10769:SF5,HAMAP:MF_00292	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TTCATGGACGA	.	2	BLCA
CFD	0	.	GRCh37	19	860944	860944	+	Missense_Mutation	SNP	G	G	C	rs780942003	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.296G>C	p.Arg99Pro	p.R99P	ENST00000327726	3/5	12	6	5	16	16	0	CFD,missense_variant,p.Arg106Pro,ENST00000592860,;CFD,missense_variant,p.Arg99Pro,ENST00000327726,;ELANE,downstream_gene_variant,,ENST00000263621,;ELANE,downstream_gene_variant,,ENST00000590230,;	C	ENSG00000197766	ENST00000327726	Transcript	missense_variant	533	296	99	R/P	cGc/cCc	rs780942003	.	.	1	CFD	HGNC	2771	protein_coding	YES	CCDS12046.1	ENSP00000332139	CFAD_HUMAN	.	UPI000006D513	.	tolerated(0.12)	possibly_damaging(0.886)	3/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24265:SF83,hmmpanther:PTHR24265,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	GCTCCGCGCAG	.	3	BLCA
MED16	0	.	GRCh37	19	891080	891080	+	Missense_Mutation	SNP	C	C	G	rs143762645	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.52G>C	p.Val18Leu	p.V18L	ENST00000325464	2/16	56	43	13	79	79	0	MED16,missense_variant,p.Val18Leu,ENST00000395808,;MED16,missense_variant,p.Val18Leu,ENST00000586017,;MED16,missense_variant,p.Val18Leu,ENST00000586342,;MED16,missense_variant,p.Val18Leu,ENST00000325464,;MED16,missense_variant,p.Val18Leu,ENST00000312090,;MED16,missense_variant,p.Val18Leu,ENST00000269814,;MED16,missense_variant,p.Val18Leu,ENST00000592943,;MED16,missense_variant,p.Val18Leu,ENST00000589119,;RNU6-9,upstream_gene_variant,,ENST00000384776,;MED16,intron_variant,,ENST00000606828,;MED16,missense_variant,p.Val18Leu,ENST00000592373,;MED16,missense_variant,p.Val18Leu,ENST00000606248,;	G	ENSG00000175221	ENST00000325464	Transcript	missense_variant	203	52	18	V/L	Gtc/Ctc	rs143762645	.	.	-1	MED16	HGNC	17556	protein_coding	YES	CCDS12047.1	ENSP00000325612	MED16_HUMAN	K7EKX6_HUMAN,B9TX09_HUMAN	UPI0000141671	.	deleterious(0.03)	benign(0.167)	2/16	.	hmmpanther:PTHR13224:SF6,hmmpanther:PTHR13224	.	.	.	.	.	.	.	T:0	T:0.0003	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGACGTAGG	byCluster	5	BLCA
R3HDM4	0	.	GRCh37	19	897527	897527	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.717G>A	p.%3D	p.E239E	ENST00000361574	8/8	19	13	6	15	15	0	R3HDM4,synonymous_variant,p.%3D,ENST00000587975,;R3HDM4,synonymous_variant,p.%3D,ENST00000361574,;MED16,upstream_gene_variant,,ENST00000586342,;MED16,upstream_gene_variant,,ENST00000269814,;MED16,upstream_gene_variant,,ENST00000395808,;MED16,upstream_gene_variant,,ENST00000325464,;MED16,upstream_gene_variant,,ENST00000312090,;RNU6-9,downstream_gene_variant,,ENST00000384776,;R3HDM4,3_prime_UTR_variant,,ENST00000589428,;R3HDM4,downstream_gene_variant,,ENST00000591829,;R3HDM4,downstream_gene_variant,,ENST00000590454,;R3HDM4,downstream_gene_variant,,ENST00000586080,;MED16,upstream_gene_variant,,ENST00000606248,;R3HDM4,downstream_gene_variant,,ENST00000589445,;MED16,upstream_gene_variant,,ENST00000592373,;R3HDM4,downstream_gene_variant,,ENST00000590259,;	T	ENSG00000198858	ENST00000361574	Transcript	synonymous_variant	791	717	239	E	gaG/gaA	.	.	.	-1	R3HDM4	HGNC	28270	protein_coding	YES	CCDS12048.1	ENSP00000355385	R3HD4_HUMAN	.	UPI00001B50F1	.	.	.	8/8	.	PROSITE_profiles:PS51061,hmmpanther:PTHR32019:SF2,hmmpanther:PTHR32019,Gene3D:3.30.1370.50,Pfam_domain:PF01424,Superfamily_domains:SSF82708	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCCCTCCAG	.	2	BLCA
MUC16	0	.	GRCh37	19	9076768	9076768	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10678G>A	p.Gly3560Ser	p.G3560S	ENST00000397910	3/84	81	48	32	106	106	0	MUC16,missense_variant,p.Gly3560Ser,ENST00000397910,;	T	ENSG00000181143	ENST00000397910	Transcript	missense_variant	10882	10678	3560	G/S	Ggt/Agt	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	3/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATACCCACTT	.	5	BLCA
PALMD	0	.	GRCh37	1	100155113	100155113	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1297C>G	p.Leu433Val	p.L433V	ENST00000263174	7/8	41	23	17	40	40	0	PALMD,missense_variant,p.Leu433Val,ENST00000605497,;PALMD,missense_variant,p.Leu433Val,ENST00000263174,;PALMD,non_coding_transcript_exon_variant,,ENST00000496843,;	G	ENSG00000099260	ENST00000263174	Transcript	missense_variant	1672	1297	433	L/V	Ctg/Gtg	.	.	.	1	PALMD	HGNC	15846	protein_coding	YES	CCDS758.1	ENSP00000263174	PALMD_HUMAN	.	UPI000006DDD8	.	tolerated(0.08)	possibly_damaging(0.547)	7/8	.	hmmpanther:PTHR10498,hmmpanther:PTHR10498:SF5,Pfam_domain:PF03285	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTCTGACA	.	5	BLCA
FRRS1	0	.	GRCh37	1	100181193	100181193	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1272C>T	p.%3D	p.L424L	ENST00000287474	12/17	73	47	25	97	96	0	FRRS1,synonymous_variant,p.%3D,ENST00000414213,;FRRS1,synonymous_variant,p.%3D,ENST00000287474,;FRRS1,non_coding_transcript_exon_variant,,ENST00000492943,;FRRS1,upstream_gene_variant,,ENST00000489209,;	A	ENSG00000156869	ENST00000287474	Transcript	synonymous_variant	1874	1272	424	L	ctC/ctT	.	.	.	-1	FRRS1	HGNC	27622	protein_coding	YES	CCDS30780.1	ENSP00000287474	FRRS1_HUMAN	.	UPI000042037B	.	.	.	12/17	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50939,hmmpanther:PTHR23130:SF6,hmmpanther:PTHR23130,SMART_domains:SM00665	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTGAGGAC	.	5	BLCA
AGL	0	.	GRCh37	1	100316448	100316448	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-75C>T	.	.	ENST00000294724	1/34	18	14	4	21	21	0	AGL,5_prime_UTR_variant,,ENST00000294724,;AGL,intron_variant,,ENST00000370163,;AGL,intron_variant,,ENST00000370165,;AGL,intron_variant,,ENST00000361915,;AGL,upstream_gene_variant,,ENST00000361302,;AGL,upstream_gene_variant,,ENST00000370161,;	T	ENSG00000162688	ENST00000294724	Transcript	5_prime_UTR_variant	404	.	.	.	.	.	.	.	1	AGL	HGNC	321	protein_coding	YES	CCDS759.1	ENSP00000294724	GDE_HUMAN	G1UI17_HUMAN	UPI00001694CB	.	.	.	1/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTCGAACA	.	4	BLCA
UBE4B	0	.	GRCh37	1	10093740	10093740	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12G>A	p.%3D	p.L4L	ENST00000343090	1/28	60	49	11	100	100	0	UBE4B,synonymous_variant,p.%3D,ENST00000377153,;UBE4B,synonymous_variant,p.%3D,ENST00000253251,;UBE4B,synonymous_variant,p.%3D,ENST00000343090,;UBE4B,5_prime_UTR_variant,,ENST00000377157,;	A	ENSG00000130939	ENST00000343090	Transcript	synonymous_variant	87	12	4	L	ctG/ctA	.	.	.	1	UBE4B	HGNC	12500	protein_coding	YES	CCDS41245.1	ENSP00000343001	UBE4B_HUMAN	.	UPI0000137944	.	.	.	1/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGCTGAGCGC	.	5	BLCA
UBE4B	0	.	GRCh37	1	10211543	10211543	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2850G>A	p.%3D	p.Q950Q	ENST00000343090	21/28	87	63	24	134	134	0	UBE4B,synonymous_variant,p.%3D,ENST00000377157,;UBE4B,synonymous_variant,p.%3D,ENST00000253251,;UBE4B,synonymous_variant,p.%3D,ENST00000343090,;	A	ENSG00000130939	ENST00000343090	Transcript	synonymous_variant	2925	2850	950	Q	caG/caA	.	.	.	1	UBE4B	HGNC	12500	protein_coding	YES	CCDS41245.1	ENSP00000343001	UBE4B_HUMAN	.	UPI0000137944	.	.	.	21/28	.	hmmpanther:PTHR13931:SF13,hmmpanther:PTHR13931,Pfam_domain:PF10408	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCAGAAGTT	.	5	BLCA
KIF1B	0	.	GRCh37	1	10364575	10364575	+	Intron	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1977+7271G>C	.	.	ENST00000263934	.	38	27	11	62	62	0	KIF1B,missense_variant,p.Gly1111Ala,ENST00000377093,;KIF1B,missense_variant,p.Gly1111Ala,ENST00000377083,;KIF1B,intron_variant,,ENST00000377081,;KIF1B,intron_variant,,ENST00000377086,;KIF1B,intron_variant,,ENST00000263934,;RN7SL731P,upstream_gene_variant,,ENST00000584329,;	C	ENSG00000054523	ENST00000263934	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	KIF1B	HGNC	16636	protein_coding	YES	CCDS111.1	ENSP00000263934	KIF1B_HUMAN	B4DMF3_HUMAN	UPI000013EE7E	.	.	.	.	20/46	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGGGCAATG	.	5	BLCA
DFFA	0	.	GRCh37	1	10521686	10521686	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.857A>T	p.Gln286Leu	p.Q286L	ENST00000377038	6/6	48	33	14	64	64	0	DFFA,missense_variant,p.Gln286Leu,ENST00000377038,;DFFA,downstream_gene_variant,,ENST00000377036,;RP5-1113E3.3,downstream_gene_variant,,ENST00000424487,;DFFA,downstream_gene_variant,,ENST00000476658,;	A	ENSG00000160049	ENST00000377038	Transcript	missense_variant	925	857	286	Q/L	cAg/cTg	.	.	.	-1	DFFA	HGNC	2772	protein_coding	YES	CCDS118.1	ENSP00000366237	DFFA_HUMAN	.	UPI00001291FA	.	tolerated(0.37)	benign(0.049)	6/6	.	hmmpanther:PTHR12306,hmmpanther:PTHR12306:SF16,Gene3D:1.10.1490.10,PIRSF_domain:PIRSF037865,Superfamily_domains:0039286	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCCTGAACA	.	5	BLCA
PEX14	0	.	GRCh37	1	10555370	10555370	+	Missense_Mutation	SNP	G	G	A	rs748746721	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>A	p.Glu26Lys	p.E26K	ENST00000356607	2/9	22	15	6	42	42	0	PEX14,missense_variant,p.Glu26Lys,ENST00000356607,;PEX14,missense_variant,p.Glu21Lys,ENST00000491661,;PEX14,5_prime_UTR_variant,,ENST00000538836,;PEX14,non_coding_transcript_exon_variant,,ENST00000472851,;	A	ENSG00000142655	ENST00000356607	Transcript	missense_variant	156	76	26	E/K	Gag/Aag	rs748746721	.	.	1	PEX14	HGNC	8856	protein_coding	YES	CCDS30582.1	ENSP00000349016	PEX14_HUMAN	F5H4J2_HUMAN	UPI000013170A	.	deleterious(0.03)	probably_damaging(0.995)	2/9	.	hmmpanther:PTHR23058,Pfam_domain:PF04695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCGAGAGCCG	byFrequency	5	BLCA
MYBPHL	0	.	GRCh37	1	109836859	109836859	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2G>A	.	.	ENST00000357155	8/9	49	34	14	78	78	0	MYBPHL,3_prime_UTR_variant,,ENST00000357155,;MYBPHL,non_coding_transcript_exon_variant,,ENST00000477962,;MYBPHL,non_coding_transcript_exon_variant,,ENST00000489706,;	T	ENSG00000221986	ENST00000357155	Transcript	3_prime_UTR_variant	1117	.	.	.	.	.	.	.	-1	MYBPHL	HGNC	30434	protein_coding	YES	CCDS30793.1	ENSP00000349678	MBPHL_HUMAN	.	UPI000022B031	.	.	.	8/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGTCCTCAA	.	5	BLCA
AMPD2	0	.	GRCh37	1	110163719	110163719	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84G>A	p.%3D	p.R28R	ENST00000256578	1/18	19	12	7	29	29	0	AMPD2,synonymous_variant,p.%3D,ENST00000256578,;AMPD2,synonymous_variant,p.%3D,ENST00000528667,;AMPD2,5_prime_UTR_variant,,ENST00000358729,;AMPD2,5_prime_UTR_variant,,ENST00000469039,;AMPD2,intron_variant,,ENST00000474459,;AMPD2,intron_variant,,ENST00000342115,;AMPD2,intron_variant,,ENST00000531203,;AMPD2,intron_variant,,ENST00000531734,;AMPD2,upstream_gene_variant,,ENST00000528454,;AMPD2,upstream_gene_variant,,ENST00000527846,;AMPD2,upstream_gene_variant,,ENST00000369840,;AMPD2,upstream_gene_variant,,ENST00000393688,;AMPD2,intron_variant,,ENST00000526301,;AMPD2,upstream_gene_variant,,ENST00000459643,;AMPD2,upstream_gene_variant,,ENST00000486282,;AMPD2,upstream_gene_variant,,ENST00000534144,;AMPD2,upstream_gene_variant,,ENST00000528270,;	A	ENSG00000116337	ENST00000256578	Transcript	synonymous_variant	444	84	28	R	agG/agA	.	.	.	1	AMPD2	HGNC	469	protein_coding	YES	CCDS805.1	ENSP00000256578	AMPD2_HUMAN	E9PIJ1_HUMAN	UPI0000125956	.	.	.	1/18	.	hmmpanther:PTHR11359:SF3,hmmpanther:PTHR11359	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGAGGAAGGG	.	2	BLCA
CSF1	0	.	GRCh37	1	110456916	110456916	+	Silent	SNP	C	C	T	rs145602744	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.75C>T	p.%3D	p.L25L	ENST00000329608	2/9	19	11	8	30	30	0	CSF1,synonymous_variant,p.%3D,ENST00000420111,;CSF1,synonymous_variant,p.%3D,ENST00000527192,;CSF1,synonymous_variant,p.%3D,ENST00000369801,;CSF1,synonymous_variant,p.%3D,ENST00000329608,;CSF1,synonymous_variant,p.%3D,ENST00000369802,;CSF1,synonymous_variant,p.%3D,ENST00000357302,;CSF1,synonymous_variant,p.%3D,ENST00000344188,;CSF1,5_prime_UTR_variant,,ENST00000525659,;CSF1,intron_variant,,ENST00000488198,;CSF1,upstream_gene_variant,,ENST00000526001,;	T	ENSG00000184371	ENST00000329608	Transcript	synonymous_variant	466	75	25	L	ctC/ctT	rs145602744	.	.	1	CSF1	HGNC	2432	protein_coding	YES	CCDS816.1	ENSP00000327513	CSF1_HUMAN	H7BY18_HUMAN,E9PKP4_HUMAN	UPI00001AFA6F	.	.	.	2/9	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,PIRSF_domain:PIRSF001948,Pfam_domain:PF05337,hmmpanther:PTHR10058	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCCTGGC	byCluster	5	BLCA
RBM15	0	.	GRCh37	1	110883036	110883036	+	Missense_Mutation	SNP	G	G	A	rs750689582	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>A	p.Glu337Lys	p.E337K	ENST00000369784	1/3	43	26	17	73	73	0	RBM15,missense_variant,p.Glu337Lys,ENST00000602849,;RBM15,missense_variant,p.Glu337Lys,ENST00000369784,;RBM15,missense_variant,p.Glu337Lys,ENST00000487146,;RP5-1074L1.1,upstream_gene_variant,,ENST00000449169,;	A	ENSG00000162775	ENST00000369784	Transcript	missense_variant	1909	1009	337	E/K	Gag/Aag	rs750689582	.	.	1	RBM15	HGNC	14959	protein_coding	YES	CCDS822.1	ENSP00000358799	RBM15_HUMAN	.	UPI000013E1C5	.	deleterious(0.03)	benign(0.019)	1/3	.	hmmpanther:PTHR23189:SF43,hmmpanther:PTHR23189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATGAGAGA	.	5	BLCA
RBM15	0	.	GRCh37	1	110883121	110883121	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1094C>T	p.Ser365Leu	p.S365L	ENST00000369784	1/3	28	23	5	37	37	0	RBM15,missense_variant,p.Ser365Leu,ENST00000602849,;RBM15,missense_variant,p.Ser365Leu,ENST00000369784,;RBM15,missense_variant,p.Ser365Leu,ENST00000487146,;RP5-1074L1.1,upstream_gene_variant,,ENST00000449169,;	T	ENSG00000162775	ENST00000369784	Transcript	missense_variant	1994	1094	365	S/L	tCa/tTa	.	.	.	1	RBM15	HGNC	14959	protein_coding	YES	CCDS822.1	ENSP00000358799	RBM15_HUMAN	.	UPI000013E1C5	.	tolerated(0.2)	benign(0.023)	1/3	.	hmmpanther:PTHR23189:SF43,hmmpanther:PTHR23189,Gene3D:3.30.70.330	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCACCCG	.	5	BLCA
MASP2	0	.	GRCh37	1	11097837	11097837	+	Silent	SNP	A	A	G	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.921T>C	p.%3D	p.P307P	ENST00000400897	7/11	86	55	31	116	116	0	MASP2,synonymous_variant,p.%3D,ENST00000400897,;MASP2,non_coding_transcript_exon_variant,,ENST00000478645,;	G	ENSG00000009724	ENST00000400897	Transcript	synonymous_variant	937	921	307	P	ccT/ccC	COSM414191	.	.	-1	MASP2	HGNC	6902	protein_coding	YES	CCDS123.1	ENSP00000383690	MASP2_HUMAN	.	UPI0000161FB9	.	.	.	7/11	.	Superfamily_domains:SSF57535,PIRSF_domain:PIRSF001155,SMART_domains:SM00032,Pfam_domain:PF00084,Gene3D:2.10.70.10,hmmpanther:PTHR24255,hmmpanther:PTHR24255:SF10,PROSITE_profiles:PS50923	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTAGGTGG	.	5	BLCA
SRM	0	.	GRCh37	1	11119371	11119371	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199G>A	p.Gly67Ser	p.G67S	ENST00000376957	2/8	51	31	19	94	94	0	SRM,missense_variant,p.Gly41Ser,ENST00000487300,;SRM,missense_variant,p.Gly67Ser,ENST00000376957,;SRM,upstream_gene_variant,,ENST00000490101,;SRM,upstream_gene_variant,,ENST00000465788,;SRM,synonymous_variant,p.%3D,ENST00000459997,;SRM,upstream_gene_variant,,ENST00000475189,;	T	ENSG00000116649	ENST00000376957	Transcript	missense_variant	280	199	67	G/S	Ggt/Agt	.	.	.	-1	SRM	HGNC	11296	protein_coding	YES	CCDS125.1	ENSP00000366156	SPEE_HUMAN	.	UPI0000049054	.	deleterious(0)	probably_damaging(0.958)	2/8	.	Superfamily_domains:SSF53335,TIGRFAM_domain:TIGR00417,Pfam_domain:PF01564,Gene3D:2.30.140.10,hmmpanther:PTHR11558,PROSITE_profiles:PS51006,HAMAP:MF_00198	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACACCGTCCA	.	5	BLCA
CHI3L2	0	.	GRCh37	1	111777644	111777644	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445C>T	p.Gln149Ter	p.Q149*	ENST00000445067	7/13	56	39	17	72	72	0	CHI3L2,stop_gained,p.Gln70Ter,ENST00000466741,;CHI3L2,stop_gained,p.Gln149Ter,ENST00000528451,;CHI3L2,stop_gained,p.Gln149Ter,ENST00000486561,;CHI3L2,stop_gained,p.Gln70Ter,ENST00000524472,;CHI3L2,stop_gained,p.Gln70Ter,ENST00000497587,;CHI3L2,stop_gained,p.Gln3Ter,ENST00000497220,;CHI3L2,stop_gained,p.Gln149Ter,ENST00000445067,;CHI3L2,stop_gained,p.Gln149Ter,ENST00000369748,;CHI3L2,stop_gained,p.Gln139Ter,ENST00000369744,;CHI3L2,stop_gained,p.Gln51Ter,ENST00000467038,;CHI3L2,stop_gained,p.Gln70Ter,ENST00000477185,;CHI3L2,intron_variant,,ENST00000533831,;CHI3L2,intron_variant,,ENST00000474304,;CHI3L2,upstream_gene_variant,,ENST00000472825,;CHI3L2,upstream_gene_variant,,ENST00000529459,;CHI3L2,downstream_gene_variant,,ENST00000526684,;CHI3L2,downstream_gene_variant,,ENST00000530597,;	T	ENSG00000064886	ENST00000445067	Transcript	stop_gained	1216	445	149	Q/*	Cag/Tag	.	.	.	1	CHI3L2	HGNC	1933	protein_coding	YES	CCDS30802.1	ENSP00000437082	CH3L2_HUMAN	E9PRL9_HUMAN,E9PR52_HUMAN,E9PPX4_HUMAN,E9PIX1_HUMAN	UPI0000126C1A	.	.	.	7/13	.	Superfamily_domains:SSF51445,SMART_domains:SM00636,Pfam_domain:PF00704,Gene3D:3.20.20.80,hmmpanther:PTHR11177,hmmpanther:PTHR11177:SF82	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCAGAAA	.	5	BLCA
CHIAP2	0	.	GRCh37	1	111825656	111825656	+	RNA	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1201G>A	.	.	ENST00000369743	5/9	39	25	14	40	40	0	CHIAP2,non_coding_transcript_exon_variant,,ENST00000369743,;CHIAP2,non_coding_transcript_exon_variant,,ENST00000456752,;CHIAP2,upstream_gene_variant,,ENST00000449687,;CHIAP2,non_coding_transcript_exon_variant,,ENST00000532686,;	A	ENSG00000203878	ENST00000369743	Transcript	non_coding_transcript_exon_variant	1201	.	.	.	.	.	.	.	1	CHIAP2	HGNC	44463	processed_transcript	YES	.	.	.	.	.	.	.	.	5/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGCTGATGGT	.	2	BLCA
WDR77	0	.	GRCh37	1	111990172	111990172	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>A	p.Glu110Lys	p.E110K	ENST00000235090	3/10	30	21	9	58	58	0	WDR77,missense_variant,p.Glu47Lys,ENST00000449340,;WDR77,missense_variant,p.Glu110Lys,ENST00000235090,;WDR77,intron_variant,,ENST00000411751,;ATP5F1,upstream_gene_variant,,ENST00000483994,;ATP5F1,upstream_gene_variant,,ENST00000369722,;Y_RNA,downstream_gene_variant,,ENST00000363020,;WDR77,non_coding_transcript_exon_variant,,ENST00000459665,;ATP5F1,upstream_gene_variant,,ENST00000468818,;WDR77,upstream_gene_variant,,ENST00000497278,;ATP5F1,upstream_gene_variant,,ENST00000464154,;ATP5F1,upstream_gene_variant,,ENST00000493119,;ATP5F1,upstream_gene_variant,,ENST00000369721,;	T	ENSG00000116455	ENST00000235090	Transcript	missense_variant	535	328	110	E/K	Gag/Aag	.	.	.	-1	WDR77	HGNC	29652	protein_coding	YES	CCDS835.1	ENSP00000235090	MEP50_HUMAN	.	UPI0000047AC6	.	tolerated(0.15)	benign(0.043)	3/10	.	PROSITE_profiles:PS50294,hmmpanther:PTHR22850,hmmpanther:PTHR22850:SF95,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCATCTA	.	5	BLCA
RAP1A	0	.	GRCh37	1	112247089	112247089	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.449C>T	p.Ser150Leu	p.S150L	ENST00000369709	6/8	56	33	22	70	70	0	RAP1A,missense_variant,p.Ser150Leu,ENST00000436150,;RAP1A,missense_variant,p.Ser150Leu,ENST00000356415,;RAP1A,missense_variant,p.Ser150Leu,ENST00000545460,;RAP1A,missense_variant,p.Ser150Leu,ENST00000369709,;RAP1A,downstream_gene_variant,,ENST00000433097,;RAP1A,non_coding_transcript_exon_variant,,ENST00000494982,;FAM212B,intron_variant,,ENST00000527570,;	T	ENSG00000116473	ENST00000369709	Transcript	missense_variant	628	449	150	S/L	tCa/tTa	.	.	.	1	RAP1A	HGNC	9855	protein_coding	YES	CCDS840.1	ENSP00000358723	RAP1A_HUMAN	F8WBC0_HUMAN,A8KAH9_HUMAN	UPI0000001250	.	tolerated(0.36)	benign(0.018)	6/8	.	PROSITE_profiles:PS51421,hmmpanther:PTHR24070:SF239,hmmpanther:PTHR24070,Pfam_domain:PF00071,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,SMART_domains:SM00174,SMART_domains:SM00176,SMART_domains:SM00175,SMART_domains:SM00173,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTCAAAGA	.	5	BLCA
DDX20	0	.	GRCh37	1	112303122	112303122	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592G>A	p.Asp198Asn	p.D198N	ENST00000369702	4/11	97	67	29	105	105	0	DDX20,missense_variant,p.Asp198Asn,ENST00000369702,;DDX20,5_prime_UTR_variant,,ENST00000475700,;DDX20,3_prime_UTR_variant,,ENST00000536167,;FAM212B,upstream_gene_variant,,ENST00000444059,;FAM212B,upstream_gene_variant,,ENST00000412270,;DDX20,3_prime_UTR_variant,,ENST00000533164,;DDX20,upstream_gene_variant,,ENST00000524894,;DDX20,upstream_gene_variant,,ENST00000534200,;	A	ENSG00000064703	ENST00000369702	Transcript	missense_variant	1212	592	198	D/N	Gac/Aac	.	.	.	1	DDX20	HGNC	2743	protein_coding	YES	CCDS842.1	ENSP00000358716	DDX20_HUMAN	.	UPI0000129080	.	tolerated(0.26)	possibly_damaging(0.536)	4/11	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031:SF159,hmmpanther:PTHR24031,Gene3D:3.40.50.300,Pfam_domain:PF00270,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTGACTAC	.	5	BLCA
MTOR	0	.	GRCh37	1	11301693	11301693	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458C>T	p.%3D	p.I486I	ENST00000361445	10/58	85	65	19	121	121	0	MTOR,synonymous_variant,p.%3D,ENST00000361445,;	A	ENSG00000198793	ENST00000361445	Transcript	synonymous_variant	1535	1458	486	I	atC/atT	.	.	.	-1	MTOR	HGNC	3942	protein_coding	YES	CCDS127.1	ENSP00000354558	MTOR_HUMAN	Q96QW8_HUMAN,B1AKQ2_HUMAN,B1AKP8_HUMAN	UPI000012ABD3	.	.	.	10/58	.	hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF63,Gene3D:1.25.10.10,Superfamily_domains:SSF48371,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTGATGCA	.	5	BLCA
MOV10	0	.	GRCh37	1	113242340	113242340	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2617C>T	p.Arg873Ter	p.R873*	ENST00000413052	18/21	82	56	25	132	132	0	MOV10,stop_gained,p.Arg817Ter,ENST00000369644,;MOV10,stop_gained,p.Arg873Ter,ENST00000369645,;MOV10,stop_gained,p.Arg873Ter,ENST00000413052,;MOV10,stop_gained,p.Arg873Ter,ENST00000357443,;RHOC,downstream_gene_variant,,ENST00000484054,;RHOC,downstream_gene_variant,,ENST00000425265,;RHOC,downstream_gene_variant,,ENST00000369632,;RHOC,downstream_gene_variant,,ENST00000534717,;RHOC,downstream_gene_variant,,ENST00000369638,;RHOC,downstream_gene_variant,,ENST00000436685,;RP11-426L16.10,downstream_gene_variant,,ENST00000606505,;RHOC,downstream_gene_variant,,ENST00000369636,;RHOC,downstream_gene_variant,,ENST00000369637,;RHOC,downstream_gene_variant,,ENST00000414971,;RHOC,downstream_gene_variant,,ENST00000369633,;RHOC,downstream_gene_variant,,ENST00000285735,;RHOC,downstream_gene_variant,,ENST00000339083,;RHOC,downstream_gene_variant,,ENST00000369642,;RP11-426L16.10,downstream_gene_variant,,ENST00000605933,;RP11-426L16.3,upstream_gene_variant,,ENST00000421943,;MOV10,non_coding_transcript_exon_variant,,ENST00000468624,;MOV10,non_coding_transcript_exon_variant,,ENST00000490413,;MOV10,non_coding_transcript_exon_variant,,ENST00000471160,;MOV10,non_coding_transcript_exon_variant,,ENST00000495374,;MOV10,non_coding_transcript_exon_variant,,ENST00000494319,;MOV10,non_coding_transcript_exon_variant,,ENST00000496577,;RP11-426L16.10,downstream_gene_variant,,ENST00000471038,;MOV10,downstream_gene_variant,,ENST00000481711,;MOV10,downstream_gene_variant,,ENST00000482545,;MOV10,downstream_gene_variant,,ENST00000488160,;RHOC,downstream_gene_variant,,ENST00000468093,;RHOC,downstream_gene_variant,,ENST00000527563,;RP11-426L16.10,downstream_gene_variant,,ENST00000606954,;RHOC,downstream_gene_variant,,ENST00000484280,;RHOC,downstream_gene_variant,,ENST00000528831,;RHOC,downstream_gene_variant,,ENST00000478447,;RHOC,downstream_gene_variant,,ENST00000473074,;RP11-426L16.10,downstream_gene_variant,,ENST00000607158,;	T	ENSG00000155363	ENST00000413052	Transcript	stop_gained	3007	2617	873	R/*	Cga/Tga	COSM201440	.	.	1	MOV10	HGNC	7200	protein_coding	YES	CCDS853.1	ENSP00000399797	MOV10_HUMAN	Q5JR04_HUMAN,B3KQ43_HUMAN	UPI000012FA84	.	.	.	18/21	.	hmmpanther:PTHR10887:SF326,hmmpanther:PTHR10887,Gene3D:3.40.50.300,Pfam_domain:PF13087,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAACGAAGC	.	5	BLCA
LRIG2	0	.	GRCh37	1	113653109	113653109	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1723G>A	p.Glu575Lys	p.E575K	ENST00000361127	13/18	59	47	12	92	92	0	LRIG2,missense_variant,p.Glu575Lys,ENST00000361127,;LRIG2,non_coding_transcript_exon_variant,,ENST00000466161,;LRIG2,non_coding_transcript_exon_variant,,ENST00000492207,;LRIG2,downstream_gene_variant,,ENST00000466069,;	A	ENSG00000198799	ENST00000361127	Transcript	missense_variant	1921	1723	575	E/K	Gaa/Aaa	.	.	.	1	LRIG2	HGNC	20889	protein_coding	YES	CCDS30808.1	ENSP00000355396	LRIG2_HUMAN	.	UPI000006F613	.	deleterious(0.01)	benign(0.27)	13/18	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24367:SF230,hmmpanther:PTHR24367,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATGAAGGA	.	5	BLCA
DENND2C	0	.	GRCh37	1	115151414	115151414	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1450G>A	p.Glu484Lys	p.E484K	ENST00000393274	10/21	65	43	22	88	88	0	DENND2C,missense_variant,p.Glu484Lys,ENST00000393274,;DENND2C,missense_variant,p.Glu484Lys,ENST00000393277,;DENND2C,missense_variant,p.Glu427Lys,ENST00000393276,;DENND2C,non_coding_transcript_exon_variant,,ENST00000481894,;	T	ENSG00000175984	ENST00000393274	Transcript	missense_variant	2076	1450	484	E/K	Gaa/Aaa	.	.	.	-1	DENND2C	HGNC	24748	protein_coding	YES	CCDS58018.1	ENSP00000376955	DEN2C_HUMAN	.	UPI000048AF71	.	deleterious(0.02)	benign(0.049)	10/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15288:SF6,hmmpanther:PTHR15288	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAATTCAATAA	.	5	BLCA
CSDE1	0	.	GRCh37	1	115261312	115261312	+	Silent	SNP	C	C	T	rs773455514	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2409G>A	p.%3D	p.L803L	ENST00000438362	19/20	36	25	11	54	54	0	CSDE1,synonymous_variant,p.%3D,ENST00000369530,;CSDE1,synonymous_variant,p.%3D,ENST00000261443,;CSDE1,synonymous_variant,p.%3D,ENST00000358528,;CSDE1,synonymous_variant,p.%3D,ENST00000339438,;CSDE1,synonymous_variant,p.%3D,ENST00000530886,;CSDE1,synonymous_variant,p.%3D,ENST00000534699,;CSDE1,synonymous_variant,p.%3D,ENST00000438362,;NRAS,upstream_gene_variant,,ENST00000369535,;CSDE1,non_coding_transcript_exon_variant,,ENST00000483407,;CSDE1,downstream_gene_variant,,ENST00000483030,;CSDE1,downstream_gene_variant,,ENST00000530784,;	T	ENSG00000009307	ENST00000438362	Transcript	synonymous_variant	2788	2409	803	L	ttG/ttA	rs773455514	.	.	-1	CSDE1	HGNC	29905	protein_coding	YES	CCDS55626.1	ENSP00000407724	.	Q9UG93_HUMAN,G5E9Q2_HUMAN,E9PLD4_HUMAN,E9PKN4_HUMAN	UPI0000D99B0F	.	.	.	19/20	.	Pfam_domain:PF12901,hmmpanther:PTHR12913,hmmpanther:PTHR12913:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAAGCG	.	5	BLCA
CASQ2	0	.	GRCh37	1	116310948	116310948	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.215T>C	p.Leu72Pro	p.L72P	ENST00000261448	1/11	99	70	29	127	127	0	CASQ2,missense_variant,p.Leu72Pro,ENST00000456138,;CASQ2,missense_variant,p.Leu72Pro,ENST00000261448,;	G	ENSG00000118729	ENST00000261448	Transcript	missense_variant	455	215	72	L/P	cTg/cCg	.	.	.	-1	CASQ2	HGNC	1513	protein_coding	YES	CCDS884.1	ENSP00000261448	CASQ2_HUMAN	.	UPI0000126F16	.	deleterious(0)	possibly_damaging(0.898)	1/11	.	hmmpanther:PTHR10033,hmmpanther:PTHR10033:SF7,Gene3D:3.40.30.10,Pfam_domain:PF01216,Superfamily_domains:SSF52833,Prints_domain:PR00312	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTCAGTTGG	.	5	BLCA
MAD2L2	0	.	GRCh37	1	11740455	11740455	+	Silent	SNP	G	G	A	rs759283688	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>T	p.%3D	p.P38P	ENST00000235310	5/11	123	90	32	156	156	0	MAD2L2,synonymous_variant,p.%3D,ENST00000445656,;MAD2L2,synonymous_variant,p.%3D,ENST00000376669,;MAD2L2,synonymous_variant,p.%3D,ENST00000376692,;MAD2L2,synonymous_variant,p.%3D,ENST00000235310,;MAD2L2,synonymous_variant,p.%3D,ENST00000456915,;MAD2L2,synonymous_variant,p.%3D,ENST00000376667,;MAD2L2,synonymous_variant,p.%3D,ENST00000376672,;MAD2L2,non_coding_transcript_exon_variant,,ENST00000376655,;MAD2L2,non_coding_transcript_exon_variant,,ENST00000376664,;	A	ENSG00000116670	ENST00000235310	Transcript	synonymous_variant	1043	114	38	P	ccC/ccT	rs759283688	.	.	-1	MAD2L2	HGNC	6764	protein_coding	YES	CCDS134.1	ENSP00000235310	MD2L2_HUMAN	B1AK45_HUMAN	UPI0000000DF1	.	.	.	5/11	.	PROSITE_profiles:PS50815,hmmpanther:PTHR11842:SF10,hmmpanther:PTHR11842,Pfam_domain:PF02301,Gene3D:1go4B00,Superfamily_domains:0040144	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCACGGGGTA	byFrequency	5	BLCA
CD101	0	.	GRCh37	1	117556229	117556229	+	Missense_Mutation	SNP	G	G	A	rs144225932	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1043G>A	p.Gly348Glu	p.G348E	ENST00000256652	4/10	44	29	15	72	72	0	CD101,missense_variant,p.Gly348Glu,ENST00000369470,;CD101,missense_variant,p.Gly348Glu,ENST00000256652,;	A	ENSG00000134256	ENST00000256652	Transcript	missense_variant	1101	1043	348	G/E	gGa/gAa	rs144225932	.	.	1	CD101	HGNC	5949	protein_coding	YES	CCDS891.1	ENSP00000256652	IGSF2_HUMAN	.	UPI000013CF1F	.	deleterious(0)	probably_damaging(0.999)	4/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12207:SF20,hmmpanther:PTHR12207,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	A:0.0004	A:0	A:0	.	A:0	A:0.002	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAGGAGAGC	byFrequency|byCluster|by1000G	5	BLCA
VTCN1	0	.	GRCh37	1	117699455	117699455	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>T	p.%3D	p.I62I	ENST00000369458	3/6	41	30	11	47	47	0	VTCN1,synonymous_variant,p.%3D,ENST00000359008,;VTCN1,synonymous_variant,p.%3D,ENST00000369458,;VTCN1,5_prime_UTR_variant,,ENST00000539893,;VTCN1,intron_variant,,ENST00000328189,;VTCN1,non_coding_transcript_exon_variant,,ENST00000463461,;VTCN1,non_coding_transcript_exon_variant,,ENST00000488493,;	A	ENSG00000134258	ENST00000369458	Transcript	synonymous_variant	265	186	62	I	atC/atT	.	.	.	-1	VTCN1	HGNC	28873	protein_coding	YES	CCDS894.1	ENSP00000358470	VTCN1_HUMAN	.	UPI00000389E3	.	.	.	3/6	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24100:SF0,hmmpanther:PTHR24100,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S65C|c.194C>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTGATGTC	.	5	BLCA
MAN1A2	0	.	GRCh37	1	117944959	117944959	+	Missense_Mutation	SNP	G	G	A	rs755034906	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454G>A	p.Glu152Lys	p.E152K	ENST00000356554	2/13	45	29	16	45	44	0	MAN1A2,missense_variant,p.Glu152Lys,ENST00000356554,;MAN1A2,intron_variant,,ENST00000482811,;	A	ENSG00000198162	ENST00000356554	Transcript	missense_variant	1189	454	152	E/K	Gag/Aag	rs755034906	.	.	1	MAN1A2	HGNC	6822	protein_coding	YES	CCDS895.1	ENSP00000348959	MA1A2_HUMAN	.	UPI0000052B45	.	tolerated(0.54)	benign(0.001)	2/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11742:SF40,hmmpanther:PTHR11742	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAAAGAGAAC	.	5	BLCA
MAN1A2	0	.	GRCh37	1	118065517	118065517	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1864C>T	p.His622Tyr	p.H622Y	ENST00000356554	13/13	79	58	21	110	110	0	MAN1A2,missense_variant,p.His61Tyr,ENST00000422329,;MAN1A2,missense_variant,p.His189Tyr,ENST00000421535,;MAN1A2,missense_variant,p.His622Tyr,ENST00000356554,;	T	ENSG00000198162	ENST00000356554	Transcript	missense_variant	2599	1864	622	H/Y	Cac/Tac	.	.	.	1	MAN1A2	HGNC	6822	protein_coding	YES	CCDS895.1	ENSP00000348959	MA1A2_HUMAN	.	UPI0000052B45	.	deleterious(0)	probably_damaging(0.998)	13/13	.	hmmpanther:PTHR11742:SF40,hmmpanther:PTHR11742,Pfam_domain:PF01532,Gene3D:1.50.10.50,Superfamily_domains:SSF48225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCACCCT	.	5	BLCA
WDR3	0	.	GRCh37	1	118497979	118497979	+	Silent	SNP	G	G	A	rs145648133	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2451G>A	p.%3D	p.S817S	ENST00000349139	24/27	40	29	10	68	68	0	WDR3,synonymous_variant,p.%3D,ENST00000349139,;SPAG17,intron_variant,,ENST00000336338,;SPAG17,intron_variant,,ENST00000469128,;SPAG17,intron_variant,,ENST00000466857,;SPAG17,intron_variant,,ENST00000478697,;	A	ENSG00000065183	ENST00000349139	Transcript	synonymous_variant	2498	2451	817	S	tcG/tcA	rs145648133	.	.	1	WDR3	HGNC	12755	protein_coding	YES	CCDS898.1	ENSP00000308179	WDR3_HUMAN	Q5TDG3_HUMAN,B3KMW5_HUMAN	UPI0000138EDC	.	.	.	24/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19853:SF0,hmmpanther:PTHR19853,Pfam_domain:PF04003	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTCGAGGTG	byCluster	5	BLCA
SPAG17	0	.	GRCh37	1	118565963	118565963	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4033G>A	p.Glu1345Lys	p.E1345K	ENST00000336338	28/49	47	34	13	67	67	0	SPAG17,missense_variant,p.Glu1345Lys,ENST00000336338,;SPAG17,downstream_gene_variant,,ENST00000470550,;	T	ENSG00000155761	ENST00000336338	Transcript	missense_variant	4099	4033	1345	E/K	Gaa/Aaa	.	.	.	-1	SPAG17	HGNC	26620	protein_coding	YES	CCDS899.1	ENSP00000337804	SPG17_HUMAN	A7LBF9_HUMAN	UPI00001601FD	.	tolerated(0.08)	probably_damaging(0.987)	28/49	.	hmmpanther:PTHR21963	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTCTGATT	.	5	BLCA
TBX15	0	.	GRCh37	1	119466110	119466110	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492C>T	p.%3D	p.F164F	ENST00000207157	5/8	34	20	14	45	45	0	TBX15,synonymous_variant,p.%3D,ENST00000369429,;TBX15,synonymous_variant,p.%3D,ENST00000207157,;	A	ENSG00000092607	ENST00000207157	Transcript	synonymous_variant	807	492	164	F	ttC/ttT	.	.	.	-1	TBX15	HGNC	11594	protein_coding	YES	CCDS30816.1	ENSP00000207157	TBX15_HUMAN	Q8N8P2_HUMAN	UPI000046D38E	.	.	.	5/8	.	Superfamily_domains:SSF49417,SMART_domains:SM00425,Pfam_domain:PF00907,Gene3D:1h6fA00,hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF98,PROSITE_profiles:PS50252	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTGAACGT	.	5	BLCA
HMGCS2	0	.	GRCh37	1	120301896	120301896	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.695G>A	p.Gly232Glu	p.G232E	ENST00000369406	4/10	43	30	12	38	38	0	HMGCS2,missense_variant,p.Gly190Glu,ENST00000544913,;HMGCS2,missense_variant,p.Gly232Glu,ENST00000369406,;HMGCS2,non_coding_transcript_exon_variant,,ENST00000472375,;HMGCS2,intron_variant,,ENST00000476640,;	T	ENSG00000134240	ENST00000369406	Transcript	missense_variant	745	695	232	G/E	gGa/gAa	COSM3472265	.	.	-1	HMGCS2	HGNC	5008	protein_coding	YES	CCDS905.1	ENSP00000358414	HMCS2_HUMAN	.	UPI000000DA7A	.	deleterious(0.03)	probably_damaging(0.99)	4/10	.	hmmpanther:PTHR11877,hmmpanther:PTHR11877:SF16,Pfam_domain:PF08540,Gene3D:3.40.47.10,TIGRFAM_domain:TIGR01833,Superfamily_domains:SSF53901	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCCCCTC	.	5	BLCA
VPS13D	0	.	GRCh37	1	12446326	12446326	+	Missense_Mutation	SNP	G	G	A	rs759467503	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11567G>A	p.Gly3856Glu	p.G3856E	ENST00000358136	60/70	80	51	29	84	83	0	VPS13D,missense_variant,p.Gly3856Glu,ENST00000358136,;VPS13D,missense_variant,p.Gly2678Glu,ENST00000011700,;VPS13D,missense_variant,p.Gly3831Glu,ENST00000356315,;VPS13D,non_coding_transcript_exon_variant,,ENST00000496628,;	A	ENSG00000048707	ENST00000358136	Transcript	missense_variant	11697	11567	3856	G/E	gGa/gAa	rs759467503	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	probably_damaging(0.999)	60/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACAGGAATCA	byFrequency	3	BLCA
VPS13D	0	.	GRCh37	1	12446330	12446330	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11571C>T	p.%3D	p.I3857I	ENST00000358136	60/70	82	52	30	76	76	0	VPS13D,synonymous_variant,p.%3D,ENST00000358136,;VPS13D,synonymous_variant,p.%3D,ENST00000011700,;VPS13D,synonymous_variant,p.%3D,ENST00000356315,;VPS13D,non_coding_transcript_exon_variant,,ENST00000496628,;	T	ENSG00000048707	ENST00000358136	Transcript	synonymous_variant	11701	11571	3857	I	atC/atT	.	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	.	60/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGAATCAATGT	.	3	BLCA
TAS1R3	0	.	GRCh37	1	1267605	1267605	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694G>A	p.Ala232Thr	p.A232T	ENST00000339381	3/6	12	8	4	20	20	0	TAS1R3,missense_variant,p.Ala232Thr,ENST00000339381,;DVL1,downstream_gene_variant,,ENST00000378891,;GLTPD1,downstream_gene_variant,,ENST00000488011,;GLTPD1,downstream_gene_variant,,ENST00000343938,;DVL1,downstream_gene_variant,,ENST00000378888,;GLTPD1,downstream_gene_variant,,ENST00000464957,;	A	ENSG00000169962	ENST00000339381	Transcript	missense_variant	726	694	232	A/T	Gca/Aca	.	.	.	1	TAS1R3	HGNC	15661	protein_coding	YES	CCDS30556.1	ENSP00000344411	TS1R3_HUMAN	.	UPI0000051F47	.	tolerated(0.6)	benign(0.024)	3/6	.	hmmpanther:PTHR24061,hmmpanther:PTHR24061:SF2,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCGCGGCACGC	.	3	BLCA
AADACL4	0	.	GRCh37	1	12726497	12726497	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.975C>A	p.%3D	p.P325P	ENST00000376221	4/4	107	79	27	151	151	0	AADACL4,synonymous_variant,p.%3D,ENST00000376221,;	A	ENSG00000204518	ENST00000376221	Transcript	synonymous_variant	975	975	325	P	ccC/ccA	.	.	.	1	AADACL4	HGNC	32038	protein_coding	YES	CCDS30590.1	ENSP00000365395	ADCL4_HUMAN	.	UPI0000160609	.	.	.	4/4	.	hmmpanther:PTHR23024,hmmpanther:PTHR23024:SF95,Pfam_domain:PF07859,Gene3D:3.40.50.1820,PIRSF_domain:PIRSF037251,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACCCCTGAT	.	5	BLCA
PRDM2	0	.	GRCh37	1	14075910	14075910	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439G>A	p.Glu147Lys	p.E147K	ENST00000235372	6/10	16	13	3	21	21	0	PRDM2,missense_variant,p.Glu147Lys,ENST00000311066,;PRDM2,missense_variant,p.Glu138Lys,ENST00000484063,;PRDM2,missense_variant,p.Glu147Lys,ENST00000376048,;PRDM2,missense_variant,p.Glu147Lys,ENST00000235372,;PRDM2,5_prime_UTR_variant,,ENST00000343137,;PRDM2,5_prime_UTR_variant,,ENST00000413440,;PRDM2,upstream_gene_variant,,ENST00000505823,;PRDM2,upstream_gene_variant,,ENST00000503842,;PRDM2,upstream_gene_variant,,ENST00000407521,;PRDM2,non_coding_transcript_exon_variant,,ENST00000502724,;PRDM2,non_coding_transcript_exon_variant,,ENST00000502727,;PRDM2,3_prime_UTR_variant,,ENST00000491134,;PRDM2,upstream_gene_variant,,ENST00000491815,;	A	ENSG00000116731	ENST00000235372	Transcript	missense_variant	1295	439	147	E/K	Gag/Aag	.	.	.	1	PRDM2	HGNC	9347	protein_coding	YES	CCDS150.1	ENSP00000235372	PRDM2_HUMAN	S4R3F7_HUMAN,D6RJM6_HUMAN	UPI000013C9CD	.	.	benign(0.416)	6/10	.	SMART_domains:SM00317,PIRSF_domain:PIRSF002395,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF4,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCCTGAGATA	.	2	BLCA
PDE4DIP	0	.	GRCh37	1	144859936	144859936	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6148G>A	p.Glu2050Lys	p.E2050K	ENST00000369356	38/44	123	103	19	150	150	0	PDE4DIP,missense_variant,p.Glu2050Lys,ENST00000369356,;PDE4DIP,missense_variant,p.Glu2050Lys,ENST00000369354,;PDE4DIP,missense_variant,p.Glu2186Lys,ENST00000369359,;PDE4DIP,missense_variant,p.Glu2135Lys,ENST00000530740,;PDE4DIP,missense_variant,p.Glu1944Lys,ENST00000313382,;PDE4DIP,intron_variant,,ENST00000530130,;RP4-791M13.4,intron_variant,,ENST00000532137,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524974,;PDE4DIP,intron_variant,,ENST00000526664,;PDE4DIP,downstream_gene_variant,,ENST00000494734,;PDE4DIP,upstream_gene_variant,,ENST00000525630,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000534466,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000481227,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,downstream_gene_variant,,ENST00000525886,;PDE4DIP,upstream_gene_variant,,ENST00000534367,;PDE4DIP,downstream_gene_variant,,ENST00000479369,;PDE4DIP,upstream_gene_variant,,ENST00000533768,;PDE4DIP,downstream_gene_variant,,ENST00000527901,;	T	ENSG00000178104	ENST00000369356	Transcript	missense_variant	6439	6148	2050	E/K	Gag/Aag	.	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	deleterious(0.01)	possibly_damaging(0.492)	38/44	.	hmmpanther:PTHR13895:SF2,hmmpanther:PTHR13895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCTGCCA	.	4	BLCA
PDE4DIP	0	.	GRCh37	1	144868070	144868070	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5369C>T	p.Pro1790Leu	p.P1790L	ENST00000369356	33/44	178	151	26	225	225	0	PDE4DIP,missense_variant,p.Pro1790Leu,ENST00000369354,;PDE4DIP,missense_variant,p.Pro1926Leu,ENST00000369359,;PDE4DIP,missense_variant,p.Pro1875Leu,ENST00000530740,;PDE4DIP,missense_variant,p.Pro1684Leu,ENST00000313382,;PDE4DIP,missense_variant,p.Pro1790Leu,ENST00000369356,;PDE4DIP,upstream_gene_variant,,ENST00000530130,;RP4-791M13.4,downstream_gene_variant,,ENST00000532137,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524974,;PDE4DIP,upstream_gene_variant,,ENST00000526664,;PDE4DIP,upstream_gene_variant,,ENST00000494734,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000479369,;PDE4DIP,intron_variant,,ENST00000525886,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,upstream_gene_variant,,ENST00000481227,;PDE4DIP,upstream_gene_variant,,ENST00000527901,;	A	ENSG00000178104	ENST00000369356	Transcript	missense_variant	5660	5369	1790	P/L	cCa/cTa	.	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	tolerated(0.63)	benign(0.001)	33/44	.	hmmpanther:PTHR13895:SF2,hmmpanther:PTHR13895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTTGGAGGA	.	4	BLCA
PDE4DIP	0	.	GRCh37	1	144930642	144930642	+	Intron	SNP	G	G	A	rs781827686	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.637-6821C>T	.	.	ENST00000369356	.	93	66	27	102	102	0	PDE4DIP,missense_variant,p.Ser356Leu,ENST00000313431,;PDE4DIP,missense_variant,p.Ser356Leu,ENST00000529945,;PDE4DIP,intron_variant,,ENST00000479408,;PDE4DIP,intron_variant,,ENST00000369354,;PDE4DIP,intron_variant,,ENST00000532801,;PDE4DIP,intron_variant,,ENST00000369349,;PDE4DIP,intron_variant,,ENST00000369359,;PDE4DIP,intron_variant,,ENST00000530740,;PDE4DIP,intron_variant,,ENST00000313382,;PDE4DIP,intron_variant,,ENST00000369356,;PDE4DIP,intron_variant,,ENST00000369351,;	A	ENSG00000178104	ENST00000369356	Transcript	intron_variant	.	.	.	.	.	rs781827686	.	.	-1	PDE4DIP	HGNC	15580	protein_coding	YES	CCDS55627.1	ENSP00000358363	MYOME_HUMAN	I1VE15_HUMAN	UPI0000458A81	.	.	.	.	5/43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTGAAAGC	.	5	BLCA
NOTCH2NL	0	.	GRCh37	1	145281667	145281667	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597G>A	p.%3D	p.Q199Q	ENST00000369340	5/6	131	121	9	167	167	0	NOTCH2NL,synonymous_variant,p.%3D,ENST00000369340,;NOTCH2NL,synonymous_variant,p.%3D,ENST00000362074,;NOTCH2NL,synonymous_variant,p.%3D,ENST00000344859,;RP11-458D21.5,synonymous_variant,p.%3D,ENST00000468030,;	A	ENSG00000213240	ENST00000369340	Transcript	synonymous_variant	1041	597	199	Q	caG/caA	.	.	.	1	NOTCH2NL	HGNC	31862	protein_coding	YES	CCDS909.1	ENSP00000358346	NT2NL_HUMAN	.	UPI00001A9982	.	.	.	5/6	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24033:SF43,hmmpanther:PTHR24033,Gene3D:2.10.25.10,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T196S|c.586A>T|3,BUFFER|p.T196S|c.586A>T|3	MUTECT|MUSE	CGGCAGACTGG	.	2	BLCA
TXNIP	0	.	GRCh37	1	145438978	145438978	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.176G>A	p.Gly59Glu	p.G59E	ENST00000369317	1/8	46	29	17	37	37	0	TXNIP,missense_variant,p.Gly59Glu,ENST00000369317,;TXNIP,upstream_gene_variant,,ENST00000425134,;TXNIP,intron_variant,,ENST00000475171,;TXNIP,upstream_gene_variant,,ENST00000486597,;TXNIP,upstream_gene_variant,,ENST00000488537,;	A	ENSG00000117289	ENST00000369317	Transcript	missense_variant	510	176	59	G/E	gGa/gAa	.	.	.	1	TXNIP	HGNC	16952	protein_coding	YES	CCDS913.1	ENSP00000358323	TXNIP_HUMAN	B4DVM7_HUMAN	UPI0000072AFB	.	deleterious(0.03)	probably_damaging(0.981)	1/8	.	hmmpanther:PTHR11188,hmmpanther:PTHR11188:SF14,Pfam_domain:PF00339,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGGGATCCC	.	5	BLCA
TXNIP	0	.	GRCh37	1	145439792	145439792	+	Missense_Mutation	SNP	C	C	T	rs782567229	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338C>T	p.Ser113Phe	p.S113F	ENST00000369317	3/8	109	78	30	130	130	0	TXNIP,missense_variant,p.Ser58Phe,ENST00000425134,;TXNIP,missense_variant,p.Ser113Phe,ENST00000369317,;TXNIP,intron_variant,,ENST00000475171,;TXNIP,upstream_gene_variant,,ENST00000486597,;TXNIP,upstream_gene_variant,,ENST00000488537,;	T	ENSG00000117289	ENST00000369317	Transcript	missense_variant	672	338	113	S/F	tCc/tTc	rs782567229	.	.	1	TXNIP	HGNC	16952	protein_coding	YES	CCDS913.1	ENSP00000358323	TXNIP_HUMAN	B4DVM7_HUMAN	UPI0000072AFB	.	deleterious(0)	probably_damaging(0.964)	3/8	.	hmmpanther:PTHR11188,hmmpanther:PTHR11188:SF14,Pfam_domain:PF00339,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCCTTCA	byFrequency	5	BLCA
PIAS3	0	.	GRCh37	1	145584288	145584288	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1439G>A	p.Gly480Glu	p.G480E	ENST00000393045	11/14	66	39	27	75	75	0	PIAS3,missense_variant,p.Gly480Glu,ENST00000393045,;PIAS3,missense_variant,p.Gly445Glu,ENST00000369298,;NUDT17,downstream_gene_variant,,ENST00000334513,;PIAS3,downstream_gene_variant,,ENST00000393046,;PIAS3,downstream_gene_variant,,ENST00000369299,;NUDT17,downstream_gene_variant,,ENST00000444015,;PIAS3,non_coding_transcript_exon_variant,,ENST00000475261,;PIAS3,non_coding_transcript_exon_variant,,ENST00000472114,;NUDT17,downstream_gene_variant,,ENST00000460879,;PIAS3,downstream_gene_variant,,ENST00000498436,;NUDT17,downstream_gene_variant,,ENST00000477878,;PIAS3,downstream_gene_variant,,ENST00000484423,;NUDT17,downstream_gene_variant,,ENST00000498192,;	A	ENSG00000131788	ENST00000393045	Transcript	missense_variant	1529	1439	480	G/E	gGa/gAa	.	.	.	1	PIAS3	HGNC	16861	protein_coding	YES	CCDS920.2	ENSP00000376765	PIAS3_HUMAN	Q6IAR4_HUMAN,E7ESB4_HUMAN,A4CZ08_HUMAN	UPI0000150636	.	tolerated(0.61)	benign(0.091)	11/14	.	hmmpanther:PTHR10782:SF10,hmmpanther:PTHR10782	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTGGAAGCA	.	5	BLCA
HIST2H2BE	0	.	GRCh37	1	149857851	149857851	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>A	p.Glu114Lys	p.E114K	ENST00000369155	1/1	68	49	18	91	91	0	HIST2H2BE,missense_variant,p.Glu114Lys,ENST00000369155,;BOLA1,upstream_gene_variant,,ENST00000369153,;HIST2H2AB,downstream_gene_variant,,ENST00000331128,;HIST2H2AC,upstream_gene_variant,,ENST00000331380,;	T	ENSG00000184678	ENST00000369155	Transcript	missense_variant	382	340	114	E/K	Gag/Aag	COSM423738	.	.	-1	HIST2H2BE	HGNC	4760	protein_coding	YES	CCDS936.1	ENSP00000358151	H2B2E_HUMAN	.	UPI0000000C6F	.	tolerated_low_confidence(0.07)	benign(0.071)	1/1	.	hmmpanther:PTHR23428,PROSITE_patterns:PS00357,Gene3D:1.10.20.10,SMART_domains:SM00427,Superfamily_domains:SSF47113,Prints_domain:PR00621	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGGACA	.	5	BLCA
OTUD7B	0	.	GRCh37	1	149915785	149915785	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2503G>A	p.Asp835Asn	p.D835N	ENST00000369135	12/12	56	39	17	64	64	0	OTUD7B,missense_variant,p.Asp835Asn,ENST00000369135,;OTUD7B,downstream_gene_variant,,ENST00000417191,;	T	ENSG00000163113	ENST00000369135	Transcript	missense_variant	2798	2503	835	D/N	Gat/Aat	.	.	.	-1	OTUD7B	HGNC	16683	protein_coding	YES	CCDS41389.1	ENSP00000358131	OTU7B_HUMAN	Q5SZ59_HUMAN	UPI000020415D	.	tolerated_low_confidence(0.25)	benign(0)	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R832W|c.2494C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCCGGTT	.	5	BLCA
ANXA9	0	.	GRCh37	1	150960417	150960417	+	Missense_Mutation	SNP	G	G	A	rs760331715	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.682G>A	p.Glu228Lys	p.E228K	ENST00000368947	10/14	41	27	13	56	56	0	ANXA9,missense_variant,p.Glu228Lys,ENST00000368947,;ANXA9,downstream_gene_variant,,ENST00000474997,;	A	ENSG00000143412	ENST00000368947	Transcript	missense_variant	1158	682	228	E/K	Gaa/Aaa	rs760331715	.	.	1	ANXA9	HGNC	547	protein_coding	YES	CCDS975.2	ENSP00000357943	ANXA9_HUMAN	.	UPI0000035D92	.	tolerated(0.69)	benign(0.094)	10/14	.	Superfamily_domains:SSF47874,SMART_domains:SM00335,Gene3D:1.10.220.10,Pfam_domain:PF00191,hmmpanther:PTHR10502,hmmpanther:PTHR10502:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGAACAC	byFrequency	5	BLCA
FAM63A	0	.	GRCh37	1	150970638	150970638	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237C>T	p.His413Tyr	p.H413Y	ENST00000361738	9/11	137	91	45	202	202	0	FAM63A,missense_variant,p.His223Tyr,ENST00000312210,;FAM63A,missense_variant,p.His413Tyr,ENST00000361738,;FAM63A,missense_variant,p.His4Tyr,ENST00000497067,;FAM63A,missense_variant,p.His270Tyr,ENST00000493834,;FAM63A,missense_variant,p.His365Tyr,ENST00000361936,;ANXA9,downstream_gene_variant,,ENST00000368947,;FAM63A,downstream_gene_variant,,ENST00000470877,;	A	ENSG00000143409	ENST00000361738	Transcript	missense_variant	1457	1237	413	H/Y	Cac/Tac	.	.	.	-1	FAM63A	HGNC	25648	protein_coding	YES	CCDS53361.1	ENSP00000354669	FA63A_HUMAN	.	UPI0001AE7915	.	tolerated(0.1)	probably_damaging(0.935)	9/11	.	hmmpanther:PTHR18063:SF7,hmmpanther:PTHR18063	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTGAAAGT	.	5	BLCA
FAM63A	0	.	GRCh37	1	150974870	150974870	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368C>T	p.Ser123Leu	p.S123L	ENST00000361738	3/11	54	33	21	72	72	0	FAM63A,missense_variant,p.Ser123Leu,ENST00000361738,;FAM63A,missense_variant,p.Ser75Leu,ENST00000361936,;FAM63A,5_prime_UTR_variant,,ENST00000493834,;FAM63A,intron_variant,,ENST00000312210,;FAM63A,upstream_gene_variant,,ENST00000497067,;FAM63A,intron_variant,,ENST00000470877,;	A	ENSG00000143409	ENST00000361738	Transcript	missense_variant	588	368	123	S/L	tCa/tTa	.	.	.	-1	FAM63A	HGNC	25648	protein_coding	YES	CCDS53361.1	ENSP00000354669	FA63A_HUMAN	.	UPI0001AE7915	.	tolerated_low_confidence(0.06)	benign(0.013)	3/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18063:SF7,hmmpanther:PTHR18063	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGAGCTA	.	5	BLCA
SCNM1	0	.	GRCh37	1	151141494	151141494	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.626G>A	p.Trp209Ter	p.W209*	ENST00000368905	7/7	56	32	24	63	63	0	SCNM1,stop_gained,p.Trp209Ter,ENST00000368905,;SCNM1,stop_gained,p.Trp174Ter,ENST00000602841,;SCNM1,stop_gained,p.Trp174Ter,ENST00000368902,;TMOD4,downstream_gene_variant,,ENST00000441701,;LYSMD1,upstream_gene_variant,,ENST00000440902,;TMOD4,downstream_gene_variant,,ENST00000295314,;TMOD4,downstream_gene_variant,,ENST00000466891,;LYSMD1,upstream_gene_variant,,ENST00000368908,;TMOD4,downstream_gene_variant,,ENST00000416280,;SCNM1,non_coding_transcript_exon_variant,,ENST00000497147,;SCNM1,non_coding_transcript_exon_variant,,ENST00000459799,;SCNM1,downstream_gene_variant,,ENST00000471039,;TMOD4,downstream_gene_variant,,ENST00000488488,;SCNM1,downstream_gene_variant,,ENST00000461862,;VPS72,downstream_gene_variant,,ENST00000491094,;TMOD4,downstream_gene_variant,,ENST00000463543,;	A	ENSG00000163156	ENST00000368905	Transcript	stop_gained	737	626	209	W/*	tGg/tAg	.	.	.	1	SCNM1	HGNC	23136	protein_coding	YES	CCDS987.1	ENSP00000357901	SCNM1_HUMAN	.	UPI000006ED0E	.	.	.	7/7	.	hmmpanther:PTHR32297,hmmpanther:PTHR32297:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGATGGGTAA	.	5	BLCA
TMOD4	0	.	GRCh37	1	151142546	151142546	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*11C>T	.	.	ENST00000295314	10/10	100	75	24	108	108	0	TMOD4,missense_variant,p.Pro120Ser,ENST00000466891,;SCNM1,3_prime_UTR_variant,,ENST00000368905,;TMOD4,3_prime_UTR_variant,,ENST00000295314,;TMOD4,3_prime_UTR_variant,,ENST00000416280,;TMOD4,downstream_gene_variant,,ENST00000441701,;LYSMD1,upstream_gene_variant,,ENST00000440902,;SCNM1,downstream_gene_variant,,ENST00000602841,;LYSMD1,upstream_gene_variant,,ENST00000368908,;SCNM1,downstream_gene_variant,,ENST00000368902,;SCNM1,downstream_gene_variant,,ENST00000471039,;SCNM1,downstream_gene_variant,,ENST00000497147,;TMOD4,downstream_gene_variant,,ENST00000488488,;SCNM1,downstream_gene_variant,,ENST00000461862,;SCNM1,downstream_gene_variant,,ENST00000459799,;TMOD4,3_prime_UTR_variant,,ENST00000463543,;VPS72,non_coding_transcript_exon_variant,,ENST00000491094,;	A	ENSG00000163157	ENST00000295314	Transcript	3_prime_UTR_variant	1184	.	.	.	.	.	.	.	-1	TMOD4	HGNC	11874	protein_coding	YES	CCDS988.1	ENSP00000295314	TMOD4_HUMAN	Q5JR82_HUMAN	UPI00000015C0	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGGGAAATG	.	5	BLCA
PIP5K1A	0	.	GRCh37	1	151196878	151196878	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.152C>T	p.Ser51Leu	p.S51L	ENST00000368888	3/16	152	114	38	150	150	0	PIP5K1A,missense_variant,p.Ser15Leu,ENST00000418435,;PIP5K1A,missense_variant,p.Ser51Leu,ENST00000368888,;PIP5K1A,intron_variant,,ENST00000368890,;PIP5K1A,intron_variant,,ENST00000447555,;PIP5K1A,intron_variant,,ENST00000441902,;PIP5K1A,intron_variant,,ENST00000349792,;PIP5K1A,intron_variant,,ENST00000409426,;PIP5K1A,non_coding_transcript_exon_variant,,ENST00000461816,;PIP5K1A,intron_variant,,ENST00000468772,;PIP5K1A,intron_variant,,ENST00000454769,;PIP5K1A,upstream_gene_variant,,ENST00000481713,;	T	ENSG00000143398	ENST00000368888	Transcript	missense_variant	574	152	51	S/L	tCa/tTa	.	.	.	1	PIP5K1A	HGNC	8994	protein_coding	YES	CCDS44219.1	ENSP00000357883	PI51A_HUMAN	P78517_HUMAN,A6PW58_HUMAN	UPI000006F821	.	deleterious_low_confidence(0.01)	benign(0.002)	3/16	.	hmmpanther:PTHR23086:SF16,hmmpanther:PTHR23086	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCATTGG	.	5	BLCA
THEM5	0	.	GRCh37	1	151826155	151826155	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-114G>A	.	.	ENST00000368817	1/6	26	19	7	20	20	0	THEM5,5_prime_UTR_variant,,ENST00000368817,;THEM5,upstream_gene_variant,,ENST00000453881,;AL450992.2,downstream_gene_variant,,ENST00000434182,;	T	ENSG00000196407	ENST00000368817	Transcript	5_prime_UTR_variant	19	.	.	.	.	.	.	.	-1	THEM5	HGNC	26755	protein_coding	YES	CCDS1005.1	ENSP00000357807	ACO15_HUMAN	.	UPI000013E246	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGAGA	.	5	BLCA
LCE5A	0	.	GRCh37	1	152484328	152484328	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318G>A	p.%3D	p.G106G	ENST00000334269	2/2	35	31	4	44	44	0	LCE5A,synonymous_variant,p.%3D,ENST00000334269,;CRCT1,upstream_gene_variant,,ENST00000368790,;	A	ENSG00000186207	ENST00000334269	Transcript	synonymous_variant	494	318	106	G	ggG/ggA	.	.	.	1	LCE5A	HGNC	16614	protein_coding	YES	CCDS1011.1	ENSP00000333952	LCE5A_HUMAN	.	UPI00001615D7	.	.	.	2/2	.	Low_complexity_(Seg):seg,Pfam_domain:PF14672,hmmpanther:PTHR23263:SF31,hmmpanther:PTHR23263	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCTGGGGGCTC	.	3	BLCA
ILF2	0	.	GRCh37	1	153635738	153635738	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.759G>A	p.%3D	p.V253V	ENST00000361891	11/14	117	83	33	176	176	0	ILF2,synonymous_variant,p.%3D,ENST00000361891,;ILF2,downstream_gene_variant,,ENST00000368681,;SNAPIN,downstream_gene_variant,,ENST00000368685,;ILF2,downstream_gene_variant,,ENST00000368684,;ILF2,non_coding_transcript_exon_variant,,ENST00000480213,;SNAPIN,downstream_gene_variant,,ENST00000478558,;SNAPIN,downstream_gene_variant,,ENST00000474959,;SNAPIN,downstream_gene_variant,,ENST00000462880,;	T	ENSG00000143621	ENST00000361891	Transcript	synonymous_variant	885	759	253	V	gtG/gtA	.	.	.	-1	ILF2	HGNC	6037	protein_coding	YES	CCDS1050.1	ENSP00000355011	ILF2_HUMAN	F4ZW62_HUMAN,B4DY09_HUMAN	UPI0000027483	.	.	.	11/14	.	SMART_domains:SM00572,Pfam_domain:PF07528,hmmpanther:PTHR10910,PROSITE_profiles:PS51703	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTCATCACAGC	.	4	BLCA
INTS3	0	.	GRCh37	1	153744864	153744864	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2769C>A	p.%3D	p.I923I	ENST00000318967	27/30	57	43	13	70	70	0	INTS3,synonymous_variant,p.%3D,ENST00000435409,;INTS3,synonymous_variant,p.%3D,ENST00000318967,;INTS3,synonymous_variant,p.%3D,ENST00000456435,;INTS3,synonymous_variant,p.%3D,ENST00000512605,;SLC27A3,upstream_gene_variant,,ENST00000458027,;SLC27A3,upstream_gene_variant,,ENST00000271857,;SLC27A3,upstream_gene_variant,,ENST00000368661,;INTS3,non_coding_transcript_exon_variant,,ENST00000476843,;SLC27A3,upstream_gene_variant,,ENST00000484014,;INTS3,3_prime_UTR_variant,,ENST00000503133,;INTS3,non_coding_transcript_exon_variant,,ENST00000368670,;INTS3,non_coding_transcript_exon_variant,,ENST00000368669,;INTS3,non_coding_transcript_exon_variant,,ENST00000481797,;SLC27A3,upstream_gene_variant,,ENST00000461269,;SLC27A3,upstream_gene_variant,,ENST00000483574,;SLC27A3,upstream_gene_variant,,ENST00000468403,;	A	ENSG00000143624	ENST00000318967	Transcript	synonymous_variant	3337	2769	923	I	atC/atA	.	.	.	1	INTS3	HGNC	26153	protein_coding	YES	CCDS1052.1	ENSP00000318641	INT3_HUMAN	.	UPI0000231CA8	.	.	.	27/30	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13587	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCCTGGA	.	5	BLCA
SLC27A3	0	.	GRCh37	1	153751905	153751905	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1972G>C	p.Glu658Gln	p.E658Q	ENST00000368661	9/10	51	36	15	79	79	0	SLC27A3,missense_variant,p.Glu363Gln,ENST00000458027,;SLC27A3,missense_variant,p.Glu119Gln,ENST00000524676,;SLC27A3,missense_variant,p.Glu739Gln,ENST00000271857,;SLC27A3,missense_variant,p.Glu658Gln,ENST00000368661,;SLC27A3,downstream_gene_variant,,ENST00000532853,;SLC27A3,non_coding_transcript_exon_variant,,ENST00000484014,;SLC27A3,non_coding_transcript_exon_variant,,ENST00000483574,;SLC27A3,non_coding_transcript_exon_variant,,ENST00000468044,;SLC27A3,non_coding_transcript_exon_variant,,ENST00000368660,;SLC27A3,non_coding_transcript_exon_variant,,ENST00000368659,;SLC27A3,non_coding_transcript_exon_variant,,ENST00000468403,;SLC27A3,downstream_gene_variant,,ENST00000461269,;SLC27A3,downstream_gene_variant,,ENST00000531251,;	C	ENSG00000143554	ENST00000368661	Transcript	missense_variant	2037	1972	658	E/Q	Gag/Cag	.	.	.	1	SLC27A3	HGNC	10997	protein_coding	YES	CCDS1053.1	ENSP00000357650	S27A3_HUMAN	.	UPI0000038E9E	.	tolerated(0.17)	possibly_damaging(0.894)	9/10	.	hmmpanther:PTHR24096:SF94,hmmpanther:PTHR24096,Gene3D:3.30.300.30,Pfam_domain:PF13193,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGAGAAC	.	5	BLCA
UBAP2L	0	.	GRCh37	1	154218800	154218800	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.963G>A	p.%3D	p.Q321Q	ENST00000428931	11/27	81	67	14	93	93	0	UBAP2L,synonymous_variant,p.%3D,ENST00000368504,;UBAP2L,synonymous_variant,p.%3D,ENST00000343815,;UBAP2L,synonymous_variant,p.%3D,ENST00000361546,;UBAP2L,synonymous_variant,p.%3D,ENST00000271877,;UBAP2L,synonymous_variant,p.%3D,ENST00000428931,;UBAP2L,downstream_gene_variant,,ENST00000437652,;UBAP2L,downstream_gene_variant,,ENST00000412596,;UBAP2L,non_coding_transcript_exon_variant,,ENST00000466173,;	A	ENSG00000143569	ENST00000428931	Transcript	synonymous_variant	1130	963	321	Q	caG/caA	.	.	.	1	UBAP2L	HGNC	29877	protein_coding	YES	CCDS1063.1	ENSP00000389445	UBP2L_HUMAN	Q5VU81_HUMAN,Q5VU80_HUMAN,Q5VU78_HUMAN	UPI000013E257	.	.	.	11/27	.	hmmpanther:PTHR16308:SF18,hmmpanther:PTHR16308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCAGACTGC	.	5	BLCA
AQP10	0	.	GRCh37	1	154293640	154293640	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9C>T	p.%3D	p.F3F	ENST00000324978	1/6	52	35	16	54	54	0	AQP10,synonymous_variant,p.%3D,ENST00000324978,;AQP10,synonymous_variant,p.%3D,ENST00000484864,;ATP8B2,upstream_gene_variant,,ENST00000368487,;AQP10,non_coding_transcript_exon_variant,,ENST00000355197,;ATP8B2,upstream_gene_variant,,ENST00000368490,;	T	ENSG00000143595	ENST00000324978	Transcript	synonymous_variant	49	9	3	F	ttC/ttT	.	.	.	1	AQP10	HGNC	16029	protein_coding	YES	CCDS1065.1	ENSP00000318355	AQP10_HUMAN	.	UPI000007028A	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCACTCA	.	5	BLCA
ADAR	0	.	GRCh37	1	154573684	154573684	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1434G>A	p.%3D	p.E478E	ENST00000368474	2/15	71	43	27	84	84	0	ADAR,synonymous_variant,p.%3D,ENST00000292205,;ADAR,synonymous_variant,p.%3D,ENST00000529168,;ADAR,synonymous_variant,p.%3D,ENST00000368474,;ADAR,synonymous_variant,p.%3D,ENST00000368471,;ADAR,downstream_gene_variant,,ENST00000471068,;ADAR,downstream_gene_variant,,ENST00000526905,;ADAR,downstream_gene_variant,,ENST00000494866,;ADAR,non_coding_transcript_exon_variant,,ENST00000463920,;	T	ENSG00000160710	ENST00000368474	Transcript	synonymous_variant	1634	1434	478	E	gaG/gaA	.	.	.	-1	ADAR	HGNC	225	protein_coding	YES	CCDS1071.1	ENSP00000357459	DSRAD_HUMAN	.	UPI000045626B	.	.	.	2/15	.	hmmpanther:PTHR10910,hmmpanther:PTHR10910:SF93	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCTCCAT	.	5	BLCA
ZBTB7B	0	.	GRCh37	1	154988223	154988223	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189C>T	p.Arg397Cys	p.R397C	ENST00000417934	4/5	56	35	20	61	61	0	ZBTB7B,missense_variant,p.Arg363Cys,ENST00000535420,;ZBTB7B,missense_variant,p.Arg363Cys,ENST00000368426,;ZBTB7B,missense_variant,p.Arg363Cys,ENST00000292176,;ZBTB7B,missense_variant,p.Arg397Cys,ENST00000417934,;DCST2,downstream_gene_variant,,ENST00000368424,;ZBTB7B,downstream_gene_variant,,ENST00000461530,;ZBTB7B,downstream_gene_variant,,ENST00000483226,;ZBTB7B,downstream_gene_variant,,ENST00000487542,;DCST2,downstream_gene_variant,,ENST00000485982,;DCST2,downstream_gene_variant,,ENST00000368423,;DCST2,downstream_gene_variant,,ENST00000467991,;	T	ENSG00000160685	ENST00000417934	Transcript	missense_variant	1458	1189	397	R/C	Cgc/Tgc	COSM1176466	.	.	1	ZBTB7B	HGNC	18668	protein_coding	YES	CCDS58030.1	ENSP00000406286	ZBT7B_HUMAN	.	UPI0001A5EB6F	.	deleterious(0)	probably_damaging(0.983)	4/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF129,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCGCCAC	.	5	BLCA
RP11-201K10.3	0	.	GRCh37	1	155144939	155144939	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.534+102G>A	.	.	ENST00000473363	.	15	11	4	24	24	0	RP11-201K10.3,intron_variant,,ENST00000473363,;KRTCAP2,intron_variant,,ENST00000295682,;TRIM46,upstream_gene_variant,,ENST00000368382,;TRIM46,upstream_gene_variant,,ENST00000392451,;TRIM46,upstream_gene_variant,,ENST00000334634,;TRIM46,upstream_gene_variant,,ENST00000543729,;TRIM46,upstream_gene_variant,,ENST00000368383,;TRIM46,upstream_gene_variant,,ENST00000545012,;TRIM46,upstream_gene_variant,,ENST00000368385,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000463527,;KRTCAP2,non_coding_transcript_exon_variant,,ENST00000490672,;KRTCAP2,intron_variant,,ENST00000492892,;KRTCAP2,intron_variant,,ENST00000461136,;KRTCAP2,intron_variant,,ENST00000487350,;KRTCAP2,intron_variant,,ENST00000491084,;KRTCAP2,intron_variant,,ENST00000471891,;KRTCAP2,intron_variant,,ENST00000482246,;KRTCAP2,intron_variant,,ENST00000497317,;TRIM46,upstream_gene_variant,,ENST00000474430,;TRIM46,upstream_gene_variant,,ENST00000468878,;TRIM46,upstream_gene_variant,,ENST00000464760,;	T	ENSG00000273088	ENST00000473363	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	RP11-201K10.3	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000477381	.	.	UPI0003B928F7	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TATTTCTCCTT	.	4	BLCA
RUSC1	0	.	GRCh37	1	155292103	155292103	+	Missense_Mutation	SNP	C	C	T	rs572151667	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.539C>T	p.Ser180Leu	p.S180L	ENST00000368352	2/10	51	32	18	70	70	0	RUSC1,missense_variant,p.Ser180Leu,ENST00000368352,;RUSC1,missense_variant,p.Ser180Leu,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000292254,;FDPS,downstream_gene_variant,,ENST00000356657,;RUSC1,upstream_gene_variant,,ENST00000368347,;FDPS,downstream_gene_variant,,ENST00000447866,;RUSC1,upstream_gene_variant,,ENST00000368349,;FDPS,downstream_gene_variant,,ENST00000368356,;RUSC1-AS1,non_coding_transcript_exon_variant,,ENST00000443642,;RUSC1-AS1,intron_variant,,ENST00000450199,;RUSC1-AS1,upstream_gene_variant,,ENST00000543656,;RUSC1-AS1,upstream_gene_variant,,ENST00000446880,;FDPS,downstream_gene_variant,,ENST00000470171,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,downstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000471876,;RUSC1,upstream_gene_variant,,ENST00000479924,;RUSC1,upstream_gene_variant,,ENST00000467820,;RUSC1,upstream_gene_variant,,ENST00000489860,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000492244,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000468764,;RUSC1,upstream_gene_variant,,ENST00000484664,;RUSC1,upstream_gene_variant,,ENST00000462780,;FDPS,downstream_gene_variant,,ENST00000489324,;RUSC1,upstream_gene_variant,,ENST00000485924,;FDPS,downstream_gene_variant,,ENST00000467076,;RUSC1,upstream_gene_variant,,ENST00000490373,;FDPS,downstream_gene_variant,,ENST00000489003,;FDPS,downstream_gene_variant,,ENST00000495308,;RUSC1,upstream_gene_variant,,ENST00000473331,;FDPS,downstream_gene_variant,,ENST00000468479,;FDPS,downstream_gene_variant,,ENST00000465559,;RUSC1,upstream_gene_variant,,ENST00000492536,;FDPS,downstream_gene_variant,,ENST00000477057,;FDPS,downstream_gene_variant,,ENST00000491013,;FDPS,downstream_gene_variant,,ENST00000492887,;	T	ENSG00000160753	ENST00000368352	Transcript	missense_variant	690	539	180	S/L	tCg/tTg	rs572151667	.	.	1	RUSC1	HGNC	17153	protein_coding	YES	CCDS41410.1	ENSP00000357336	RUSC1_HUMAN	Q68CX2_HUMAN	UPI000046FDA5	.	deleterious_low_confidence(0)	probably_damaging(0.996)	2/10	.	hmmpanther:PTHR15591	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCGAACT	by1000G	5	BLCA
ASH1L	0	.	GRCh37	1	155319153	155319153	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7519G>A	p.Asp2507Asn	p.D2507N	ENST00000392403	19/28	64	49	15	82	82	0	ASH1L,missense_variant,p.Asp2512Asn,ENST00000368346,;ASH1L,missense_variant,p.Asp2507Asn,ENST00000392403,;MIR555,upstream_gene_variant,,ENST00000384987,;ASH1L,upstream_gene_variant,,ENST00000478837,;ASH1L,upstream_gene_variant,,ENST00000492987,;ASH1L,upstream_gene_variant,,ENST00000548566,;	T	ENSG00000116539	ENST00000392403	Transcript	missense_variant	7998	7519	2507	D/N	Gat/Aat	.	.	.	-1	ASH1L	HGNC	19088	protein_coding	YES	CCDS1113.2	ENSP00000376204	ASH1L_HUMAN	.	UPI0000DACAC8	.	deleterious_low_confidence(0.04)	probably_damaging(0.998)	19/28	.	PROSITE_profiles:PS50014,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCAAAAG	.	5	BLCA
ASH1L	0	.	GRCh37	1	155449784	155449784	+	Missense_Mutation	SNP	C	C	T	rs775491536	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2877G>A	p.Met959Ile	p.M959I	ENST00000392403	3/28	88	68	20	126	126	0	ASH1L,missense_variant,p.Met959Ile,ENST00000368346,;ASH1L,missense_variant,p.Met959Ile,ENST00000392403,;ASH1L,downstream_gene_variant,,ENST00000548830,;	T	ENSG00000116539	ENST00000392403	Transcript	missense_variant	3356	2877	959	M/I	atG/atA	rs775491536	.	.	-1	ASH1L	HGNC	19088	protein_coding	YES	CCDS1113.2	ENSP00000376204	ASH1L_HUMAN	.	UPI0000DACAC8	.	tolerated_low_confidence(0.16)	benign(0.01)	3/28	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF311	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCATACT	.	5	BLCA
ASH1L	0	.	GRCh37	1	155531872	155531872	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-100+72G>A	.	.	ENST00000392403	.	10	7	3	16	16	0	ASH1L,intron_variant,,ENST00000368346,;ASH1L,intron_variant,,ENST00000548830,;ASH1L,intron_variant,,ENST00000392403,;ASH1L-AS1,non_coding_transcript_exon_variant,,ENST00000456633,;ASH1L-AS1,non_coding_transcript_exon_variant,,ENST00000452809,;ASH1L-AS1,non_coding_transcript_exon_variant,,ENST00000594351,;RP11-29H23.7,downstream_gene_variant,,ENST00000604995,;	T	ENSG00000116539	ENST00000392403	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ASH1L	HGNC	19088	protein_coding	YES	CCDS1113.2	ENSP00000376204	ASH1L_HUMAN	.	UPI0000DACAC8	.	.	.	.	1/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCTCCCAGA	.	2	BLCA
SYT11	0	.	GRCh37	1	155838393	155838393	+	Silent	SNP	C	C	T	rs751883423	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.672C>T	p.%3D	p.D224D	ENST00000368324	2/4	42	22	19	55	55	0	SYT11,synonymous_variant,p.%3D,ENST00000368324,;SYT11,intron_variant,,ENST00000539162,;	T	ENSG00000132718	ENST00000368324	Transcript	synonymous_variant	925	672	224	D	gaC/gaT	rs751883423,COSM2211268	.	.	1	SYT11	HGNC	19239	protein_coding	YES	CCDS1122.1	ENSP00000357307	SYT11_HUMAN	B4DK40_HUMAN	UPI00002049CC	.	.	.	2/4	.	PROSITE_profiles:PS50004,hmmpanther:PTHR10024:SF115,hmmpanther:PTHR10024,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGACGAGAC	byFrequency	5	BLCA
SEMA4A	0	.	GRCh37	1	156145410	156145410	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1656G>A	p.Met552Ile	p.M552I	ENST00000368285	14/15	16	12	3	14	14	0	SEMA4A,missense_variant,p.Met552Ile,ENST00000368282,;SEMA4A,missense_variant,p.Met552Ile,ENST00000355014,;SEMA4A,missense_variant,p.Met552Ile,ENST00000368285,;SEMA4A,missense_variant,p.Met420Ile,ENST00000368286,;SEMA4A,missense_variant,p.Met420Ile,ENST00000368284,;SEMA4A,non_coding_transcript_exon_variant,,ENST00000484155,;SEMA4A,downstream_gene_variant,,ENST00000487358,;SEMA4A,non_coding_transcript_exon_variant,,ENST00000462892,;	A	ENSG00000196189	ENST00000368285	Transcript	missense_variant	1923	1656	552	M/I	atG/atA	.	.	.	1	SEMA4A	HGNC	10729	protein_coding	YES	CCDS1132.1	ENSP00000357268	SEM4A_HUMAN	Q9HA40_HUMAN,Q5TCJ7_HUMAN,Q5TCJ5_HUMAN,Q5TCI6_HUMAN,B4DKS5_HUMAN	UPI000007217A	.	tolerated(0.5)	benign(0.001)	14/15	.	hmmpanther:PTHR11036,hmmpanther:PTHR11036:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCATGAGCAG	.	4	BLCA
SLC25A44	0	.	GRCh37	1	156180174	156180174	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.897C>T	p.%3D	p.L299L	ENST00000359511	4/4	29	23	6	44	44	0	SLC25A44,synonymous_variant,p.%3D,ENST00000423538,;SLC25A44,synonymous_variant,p.%3D,ENST00000359511,;PMF1,upstream_gene_variant,,ENST00000567140,;PMF1-BGLAP,upstream_gene_variant,,ENST00000368276,;PMF1,upstream_gene_variant,,ENST00000368273,;PMF1-BGLAP,upstream_gene_variant,,ENST00000490491,;PMF1,upstream_gene_variant,,ENST00000565805,;PMF1,upstream_gene_variant,,ENST00000368277,;PMF1,upstream_gene_variant,,ENST00000368279,;PMF1-BGLAP,upstream_gene_variant,,ENST00000320139,;SLC25A44,non_coding_transcript_exon_variant,,ENST00000469537,;SLC25A44,non_coding_transcript_exon_variant,,ENST00000468973,;PMF1,upstream_gene_variant,,ENST00000606952,;PMF1,upstream_gene_variant,,ENST00000497069,;PMF1,upstream_gene_variant,,ENST00000466489,;	T	ENSG00000160785	ENST00000359511	Transcript	synonymous_variant	1069	897	299	L	ctC/ctT	.	.	.	1	SLC25A44	HGNC	29036	protein_coding	YES	CCDS1133.1	ENSP00000352497	S2544_HUMAN	.	UPI0000073CAD	.	.	.	4/4	.	Pfam_domain:PF00153,Gene3D:1okcA00,hmmpanther:PTHR24089:SF41,hmmpanther:PTHR24089,PROSITE_profiles:PS50920	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCAAGAA	.	5	BLCA
MIB2	0	.	GRCh37	1	1565018	1565018	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2909-1G>C	.	p.X970_splice	ENST00000505820	.	11	6	5	21	21	0	MIB2,splice_acceptor_variant,,ENST00000355826,;MIB2,splice_acceptor_variant,,ENST00000514234,;MIB2,splice_acceptor_variant,,ENST00000378708,;MIB2,splice_acceptor_variant,,ENST00000360522,;MIB2,splice_acceptor_variant,,ENST00000504599,;MIB2,splice_acceptor_variant,,ENST00000518681,;MIB2,splice_acceptor_variant,,ENST00000483015,;MIB2,splice_acceptor_variant,,ENST00000520777,;MIB2,splice_acceptor_variant,,ENST00000505820,;MIB2,splice_acceptor_variant,,ENST00000378712,;MIB2,splice_acceptor_variant,,ENST00000357210,;MIB2,splice_acceptor_variant,,ENST00000378710,;MIB2,downstream_gene_variant,,ENST00000503789,;MMP23B,upstream_gene_variant,,ENST00000356026,;MMP23B,upstream_gene_variant,,ENST00000435358,;MIB2,downstream_gene_variant,,ENST00000510793,;MMP23B,upstream_gene_variant,,ENST00000472264,;MMP23B,upstream_gene_variant,,ENST00000479814,;MMP23B,upstream_gene_variant,,ENST00000378675,;MMP23B,upstream_gene_variant,,ENST00000503792,;MIB2,downstream_gene_variant,,ENST00000512004,;MIB2,splice_acceptor_variant,,ENST00000511910,;MIB2,splice_acceptor_variant,,ENST00000489635,;MIB2,splice_acceptor_variant,,ENST00000511502,;MIB2,splice_acceptor_variant,,ENST00000506488,;MIB2,splice_acceptor_variant,,ENST00000479659,;MIB2,splice_acceptor_variant,,ENST00000487053,;MIB2,non_coding_transcript_exon_variant,,ENST00000470373,;MIB2,downstream_gene_variant,,ENST00000514363,;MMP23B,upstream_gene_variant,,ENST00000512731,;MIB2,downstream_gene_variant,,ENST00000473511,;MIB2,downstream_gene_variant,,ENST00000505370,;MMP23B,upstream_gene_variant,,ENST00000486400,;MMP23B,upstream_gene_variant,,ENST00000490017,;MIB2,downstream_gene_variant,,ENST00000502470,;MMP23B,upstream_gene_variant,,ENST00000489782,;MIB2,downstream_gene_variant,,ENST00000467597,;MIB2,downstream_gene_variant,,ENST00000508148,;MIB2,downstream_gene_variant,,ENST00000507229,;MIB2,downstream_gene_variant,,ENST00000486072,;MIB2,downstream_gene_variant,,ENST00000464570,;	C	ENSG00000197530	ENST00000505820	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	MIB2	HGNC	30577	protein_coding	YES	CCDS41224.2	ENSP00000426103	MIB2_HUMAN	E9PD12_HUMAN,D6RFJ2_HUMAN,D6RE96_HUMAN	UPI0001C0B37A	.	.	.	.	18/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGCAGAGTGC	.	2	BLCA
GPATCH4	0	.	GRCh37	1	156565418	156565418	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.715G>A	p.Glu239Lys	p.E239K	ENST00000438976	8/8	135	92	42	138	138	0	GPATCH4,missense_variant,p.Glu239Lys,ENST00000438976,;GPATCH4,missense_variant,p.Glu234Lys,ENST00000368232,;GPATCH4,missense_variant,p.Glu205Lys,ENST00000415314,;APOA1BP,downstream_gene_variant,,ENST00000368235,;APOA1BP,downstream_gene_variant,,ENST00000368234,;APOA1BP,downstream_gene_variant,,ENST00000368233,;GPATCH4,downstream_gene_variant,,ENST00000334588,;GPATCH4,non_coding_transcript_exon_variant,,ENST00000497287,;APOA1BP,downstream_gene_variant,,ENST00000467374,;APOA1BP,downstream_gene_variant,,ENST00000488840,;GPATCH4,downstream_gene_variant,,ENST00000531129,;GPATCH4,non_coding_transcript_exon_variant,,ENST00000494414,;GPATCH4,downstream_gene_variant,,ENST00000525375,;GPATCH4,downstream_gene_variant,,ENST00000506832,;GPATCH4,downstream_gene_variant,,ENST00000498756,;GPATCH4,downstream_gene_variant,,ENST00000498641,;GPATCH4,downstream_gene_variant,,ENST00000529520,;GPATCH4,downstream_gene_variant,,ENST00000527691,;GPATCH4,downstream_gene_variant,,ENST00000473910,;GPATCH4,downstream_gene_variant,,ENST00000531900,;GPATCH4,downstream_gene_variant,,ENST00000474904,;GPATCH4,downstream_gene_variant,,ENST00000463513,;	T	ENSG00000160818	ENST00000438976	Transcript	missense_variant	746	715	239	E/K	Gag/Aag	.	.	.	-1	GPATCH4	HGNC	25982	protein_coding	YES	CCDS44245.1	ENSP00000396441	.	E9PAV9_HUMAN	UPI00001B55A9	.	tolerated(0.09)	benign(0.021)	8/8	.	hmmpanther:PTHR23149:SF8,hmmpanther:PTHR23149	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAGCAT	.	5	BLCA
ISG20L2	0	.	GRCh37	1	156697478	156697478	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-34C>T	.	.	ENST00000313146	1/3	42	34	8	59	59	0	ISG20L2,5_prime_UTR_variant,,ENST00000368219,;ISG20L2,5_prime_UTR_variant,,ENST00000313146,;RRNAD1,upstream_gene_variant,,ENST00000522237,;RRNAD1,upstream_gene_variant,,ENST00000476229,;RRNAD1,upstream_gene_variant,,ENST00000524343,;RRNAD1,upstream_gene_variant,,ENST00000368218,;RRNAD1,upstream_gene_variant,,ENST00000368216,;RRNAD1,upstream_gene_variant,,ENST00000519086,;RRNAD1,upstream_gene_variant,,ENST00000484742,;ISG20L2,non_coding_transcript_exon_variant,,ENST00000469074,;ISG20L2,non_coding_transcript_exon_variant,,ENST00000470713,;ISG20L2,upstream_gene_variant,,ENST00000496538,;ISG20L2,upstream_gene_variant,,ENST00000472824,;RRNAD1,upstream_gene_variant,,ENST00000517871,;	A	ENSG00000143319	ENST00000313146	Transcript	5_prime_UTR_variant	750	.	.	.	.	.	.	.	-1	ISG20L2	HGNC	25745	protein_coding	YES	CCDS1153.1	ENSP00000323424	I20L2_HUMAN	.	UPI000006D42B	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGGAAGAGTGG	.	4	BLCA
CELA2A	0	.	GRCh37	1	15789914	15789914	+	Silent	SNP	C	C	T	rs377600147	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.390C>T	p.%3D	p.P130P	ENST00000359621	5/8	59	45	13	58	58	0	CELA2A,synonymous_variant,p.%3D,ENST00000359621,;CELA2A,downstream_gene_variant,,ENST00000459653,;CELA2B,upstream_gene_variant,,ENST00000494280,;	T	ENSG00000142615	ENST00000359621	Transcript	synonymous_variant	415	390	130	P	ccC/ccT	rs377600147	.	.	1	CELA2A	HGNC	24609	protein_coding	YES	CCDS157.1	ENSP00000352639	CEL2A_HUMAN	.	UPI0000129E36	.	.	.	5/8	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24257,hmmpanther:PTHR24257:SF13,Gene3D:2.40.10.10,Pfam_domain:PF00089,SMART_domains:SM00020,Superfamily_domains:SSF50494,Prints_domain:PR00722	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCCCGTCTC	.	5	BLCA
SPTA1	0	.	GRCh37	1	158590187	158590187	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6190G>C	p.Glu2064Gln	p.E2064Q	ENST00000368147	44/52	50	33	17	78	78	0	SPTA1,missense_variant,p.Glu2064Gln,ENST00000368147,;SPTA1,non_coding_transcript_exon_variant,,ENST00000484520,;SPTA1,downstream_gene_variant,,ENST00000461624,;SPTA1,upstream_gene_variant,,ENST00000492934,;SPTA1,upstream_gene_variant,,ENST00000498708,;	G	ENSG00000163554	ENST00000368147	Transcript	missense_variant	6371	6190	2064	E/Q	Gaa/Caa	.	.	.	-1	SPTA1	HGNC	11272	protein_coding	YES	CCDS41423.1	ENSP00000357129	SPTA1_HUMAN	O60686_HUMAN	UPI0000458906	.	deleterious(0)	probably_damaging(1)	44/52	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF240,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTTCCA	.	5	BLCA
ATP1A4	0	.	GRCh37	1	160121801	160121801	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-30G>A	.	.	ENST00000368081	1/22	8	4	4	28	28	0	ATP1A4,5_prime_UTR_variant,,ENST00000368081,;ATP1A4,5_prime_UTR_variant,,ENST00000477338,;	A	ENSG00000132681	ENST00000368081	Transcript	5_prime_UTR_variant	442	.	.	.	.	.	.	.	1	ATP1A4	HGNC	14073	protein_coding	YES	CCDS1197.1	ENSP00000357060	AT1A4_HUMAN	Q13818_HUMAN	UPI0000124FC5	.	.	.	1/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTTGAGCTC	.	2	BLCA
ATP1A4	0	.	GRCh37	1	160137151	160137151	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440G>A	p.%3D	p.E480E	ENST00000368081	10/22	85	62	23	109	109	0	ATP1A4,synonymous_variant,p.%3D,ENST00000368081,;ATP1A4,upstream_gene_variant,,ENST00000418334,;ATP1A4,synonymous_variant,p.%3D,ENST00000477338,;ATP1A4,non_coding_transcript_exon_variant,,ENST00000469023,;	A	ENSG00000132681	ENST00000368081	Transcript	synonymous_variant	1911	1440	480	E	gaG/gaA	.	.	.	1	ATP1A4	HGNC	14073	protein_coding	YES	CCDS1197.1	ENSP00000357060	AT1A4_HUMAN	Q13818_HUMAN	UPI0000124FC5	.	.	.	10/22	.	hmmpanther:PTHR24093:SF233,hmmpanther:PTHR24093,Pfam_domain:PF00702,TIGRFAM_domain:TIGR01106,Gene3D:3.40.1110.10,Superfamily_domains:SSF81660	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGAGAAAAA	.	5	BLCA
PLEKHM2	0	.	GRCh37	1	16057123	16057123	+	Missense_Mutation	SNP	G	G	A	rs373699252	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2305G>A	p.Glu769Lys	p.E769K	ENST00000375799	15/20	13	6	6	14	14	0	PLEKHM2,missense_variant,p.Glu749Lys,ENST00000375793,;PLEKHM2,missense_variant,p.Glu769Lys,ENST00000375799,;RP11-288I21.1,intron_variant,,ENST00000453804,;PLEKHM2,non_coding_transcript_exon_variant,,ENST00000477849,;	A	ENSG00000116786	ENST00000375799	Transcript	missense_variant	2532	2305	769	E/K	Gag/Aag	rs373699252	.	.	1	PLEKHM2	HGNC	29131	protein_coding	YES	CCDS44063.1	ENSP00000364956	PKHM2_HUMAN	.	UPI00001C1D9C	.	tolerated(0.2)	probably_damaging(0.967)	15/20	.	hmmpanther:PTHR22835:SF132,hmmpanther:PTHR22835,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	CCCCCGAGGGC	byFrequency|byCluster	4	BLCA
F11R	0	.	GRCh37	1	160970527	160970527	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.282C>T	p.%3D	p.I94I	ENST00000368026	4/10	51	32	19	70	70	0	F11R,synonymous_variant,p.%3D,ENST00000368026,;F11R,intron_variant,,ENST00000537746,;F11R,non_coding_transcript_exon_variant,,ENST00000472573,;F11R,non_coding_transcript_exon_variant,,ENST00000335772,;RP11-544M22.13,3_prime_UTR_variant,,ENST00000470694,;RP11-544M22.13,3_prime_UTR_variant,,ENST00000289779,;F11R,non_coding_transcript_exon_variant,,ENST00000602966,;	A	ENSG00000158769	ENST00000368026	Transcript	synonymous_variant	557	282	94	I	atC/atT	COSM424355	.	.	-1	F11R	HGNC	14685	protein_coding	YES	CCDS1213.1	ENSP00000357005	JAM1_HUMAN	Q6FIB4_HUMAN	UPI0000000DC1	.	.	.	4/10	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12231,hmmpanther:PTHR12231:SF4,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTGATACC	.	5	BLCA
USP21	0	.	GRCh37	1	161131002	161131002	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.572C>T	p.Ser191Phe	p.S191F	ENST00000368002	3/14	48	30	18	54	54	0	USP21,missense_variant,p.Ser191Phe,ENST00000368002,;USP21,missense_variant,p.Ser191Phe,ENST00000492950,;USP21,missense_variant,p.Ser191Phe,ENST00000289865,;USP21,missense_variant,p.Ser191Phe,ENST00000368001,;UFC1,downstream_gene_variant,,ENST00000368003,;USP21,downstream_gene_variant,,ENST00000479344,;RP11-297K8.2,upstream_gene_variant,,ENST00000420498,;USP21,non_coding_transcript_exon_variant,,ENST00000486299,;UFC1,downstream_gene_variant,,ENST00000473766,;UFC1,downstream_gene_variant,,ENST00000483191,;UFC1,downstream_gene_variant,,ENST00000482672,;UFC1,downstream_gene_variant,,ENST00000467540,;UFC1,downstream_gene_variant,,ENST00000463735,;USP21,upstream_gene_variant,,ENST00000493054,;USP21,upstream_gene_variant,,ENST00000482385,;USP21,upstream_gene_variant,,ENST00000485277,;USP21,upstream_gene_variant,,ENST00000487163,;	T	ENSG00000143258	ENST00000368002	Transcript	missense_variant	949	572	191	S/F	tCt/tTt	.	.	.	1	USP21	HGNC	12620	protein_coding	YES	CCDS30920.1	ENSP00000356981	UBP21_HUMAN	.	UPI00001379FD	.	deleterious_low_confidence(0.01)	benign(0.025)	3/14	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF365	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCTGAGC	.	5	BLCA
NR1I3	0	.	GRCh37	1	161200815	161200815	+	Intron	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.823+92T>C	.	.	ENST00000367980	.	25	17	8	21	21	0	NR1I3,intron_variant,,ENST00000511676,;NR1I3,intron_variant,,ENST00000512372,;NR1I3,intron_variant,,ENST00000367985,;NR1I3,intron_variant,,ENST00000367981,;NR1I3,intron_variant,,ENST00000367984,;NR1I3,intron_variant,,ENST00000515621,;NR1I3,intron_variant,,ENST00000506209,;NR1I3,intron_variant,,ENST00000367979,;NR1I3,intron_variant,,ENST00000508740,;NR1I3,intron_variant,,ENST00000502985,;NR1I3,intron_variant,,ENST00000367983,;NR1I3,intron_variant,,ENST00000511944,;NR1I3,intron_variant,,ENST00000442691,;NR1I3,intron_variant,,ENST00000504010,;NR1I3,intron_variant,,ENST00000412844,;NR1I3,intron_variant,,ENST00000428574,;NR1I3,intron_variant,,ENST00000367982,;NR1I3,intron_variant,,ENST00000367980,;NR1I3,intron_variant,,ENST00000511748,;NR1I3,intron_variant,,ENST00000437437,;NR1I3,intron_variant,,ENST00000505005,;NR1I3,intron_variant,,ENST00000508387,;TOMM40L,downstream_gene_variant,,ENST00000545897,;TOMM40L,downstream_gene_variant,,ENST00000367987,;TOMM40L,downstream_gene_variant,,ENST00000367988,;NR1I3,downstream_gene_variant,,ENST00000515452,;MIR5187,downstream_gene_variant,,ENST00000583479,;NR1I3,non_coding_transcript_exon_variant,,ENST00000479324,;NR1I3,intron_variant,,ENST00000464422,;NR1I3,intron_variant,,ENST00000488651,;TOMM40L,downstream_gene_variant,,ENST00000474486,;TOMM40L,downstream_gene_variant,,ENST00000470426,;NR1I3,downstream_gene_variant,,ENST00000503547,;TOMM40L,downstream_gene_variant,,ENST00000468803,;TOMM40L,downstream_gene_variant,,ENST00000492482,;TOMM40L,downstream_gene_variant,,ENST00000465512,;TOMM40L,downstream_gene_variant,,ENST00000475793,;NR1I3,3_prime_UTR_variant,,ENST00000506018,;NR1I3,non_coding_transcript_exon_variant,,ENST00000505944,;NR1I3,intron_variant,,ENST00000510951,;NR1I3,intron_variant,,ENST00000512340,;NR1I3,intron_variant,,ENST00000502848,;NR1I3,intron_variant,,ENST00000507215,;NR1I3,downstream_gene_variant,,ENST00000491193,;	G	ENSG00000143257	ENST00000367980	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	NR1I3	HGNC	7969	protein_coding	YES	CCDS41429.1	ENSP00000356959	NR1I3_HUMAN	F1DAL4_HUMAN	UPI00003E7F93	.	.	.	.	7/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCTAGGCTA	.	5	BLCA
SPEN	0	.	GRCh37	1	16203124	16203124	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.832T>G	p.Ser278Ala	p.S278A	ENST00000375759	3/15	101	66	34	83	83	0	SPEN,missense_variant,p.Ser19Ala,ENST00000442985,;SPEN,missense_variant,p.Ser278Ala,ENST00000375759,;SPEN,missense_variant,p.Ser237Ala,ENST00000438066,;SPEN,non_coding_transcript_exon_variant,,ENST00000471538,;	G	ENSG00000065526	ENST00000375759	Transcript	missense_variant	1036	832	278	S/A	Tcc/Gcc	.	.	.	1	SPEN	HGNC	17575	protein_coding	YES	CCDS164.1	ENSP00000364912	MINT_HUMAN	.	UPI000006FF0C	.	.	probably_damaging(0.977)	3/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23189:SF9,hmmpanther:PTHR23189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAGATCCTCC	.	5	BLCA
NOS1AP	0	.	GRCh37	1	162335183	162335183	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.940-11C>T	.	.	ENST00000361897	.	45	31	13	50	50	0	NOS1AP,missense_variant,p.Ser15Phe,ENST00000493151,;NOS1AP,intron_variant,,ENST00000530878,;NOS1AP,intron_variant,,ENST00000464284,;NOS1AP,intron_variant,,ENST00000361897,;RP11-565P22.6,upstream_gene_variant,,ENST00000431696,;C1orf226,upstream_gene_variant,,ENST00000420220,;NOS1AP,upstream_gene_variant,,ENST00000454693,;NOS1AP,intron_variant,,ENST00000430120,;NOS1AP,upstream_gene_variant,,ENST00000367932,;	T	ENSG00000198929	ENST00000361897	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	NOS1AP	HGNC	16859	protein_coding	YES	CCDS1237.1	ENSP00000355133	CAPON_HUMAN	H7BY61_HUMAN,E9PIP8_HUMAN	UPI000019C573	.	.	.	.	8/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCTTCTC	.	5	BLCA
RP11-565P22.6	0	.	GRCh37	1	162335254	162335254	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58C>T	p.Arg20Cys	p.R20C	ENST00000431696	1/3	48	31	17	59	58	1	RP11-565P22.6,missense_variant,p.Arg20Cys,ENST00000431696,;NOS1AP,missense_variant,p.Arg39Cys,ENST00000493151,;NOS1AP,missense_variant,p.Arg329Cys,ENST00000530878,;NOS1AP,missense_variant,p.Arg334Cys,ENST00000361897,;NOS1AP,5_prime_UTR_variant,,ENST00000464284,;C1orf226,upstream_gene_variant,,ENST00000420220,;NOS1AP,upstream_gene_variant,,ENST00000454693,;NOS1AP,3_prime_UTR_variant,,ENST00000430120,;NOS1AP,upstream_gene_variant,,ENST00000367932,;	T	ENSG00000254706	ENST00000431696	Transcript	missense_variant	58	58	20	R/C	Cgc/Tgc	.	.	.	1	RP11-565P22.6	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000405676	.	H7C2G1_HUMAN	UPI0001881B2E	.	deleterious(0)	probably_damaging(1)	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11232,hmmpanther:PTHR11232:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCGCGTG	.	5	BLCA
SPEN	0	.	GRCh37	1	16262210	16262210	+	Missense_Mutation	SNP	G	G	A	rs781312743	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9475G>A	p.Glu3159Lys	p.E3159K	ENST00000375759	11/15	29	20	9	44	44	0	SPEN,missense_variant,p.Glu3159Lys,ENST00000375759,;SPEN,upstream_gene_variant,,ENST00000487496,;	A	ENSG00000065526	ENST00000375759	Transcript	missense_variant	9679	9475	3159	E/K	Gaa/Aaa	rs781312743	.	.	1	SPEN	HGNC	17575	protein_coding	YES	CCDS164.1	ENSP00000364912	MINT_HUMAN	.	UPI000006FF0C	.	.	probably_damaging(0.975)	11/15	.	hmmpanther:PTHR23189:SF9,hmmpanther:PTHR23189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGGAAGTG	byFrequency	5	BLCA
RGS5	0	.	GRCh37	1	163172674	163172674	+	5'UTR	SNP	C	C	T	rs768778570	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-49G>A	.	.	ENST00000530507	1/5	14	11	3	20	20	0	RGS5,5_prime_UTR_variant,,ENST00000313961,;RGS5,5_prime_UTR_variant,,ENST00000531476,;RGS5,5_prime_UTR_variant,,ENST00000530507,;RGS5,intron_variant,,ENST00000367903,;RGS5,upstream_gene_variant,,ENST00000527988,;RP11-267N12.1,intron_variant,,ENST00000415437,;RGS5,intron_variant,,ENST00000534288,;RGS5,intron_variant,,ENST00000531954,;RGS5,intron_variant,,ENST00000428971,;RGS5,intron_variant,,ENST00000530241,;RGS5,non_coding_transcript_exon_variant,,ENST00000525894,;	T	ENSG00000143248	ENST00000530507	Transcript	5_prime_UTR_variant	20	.	.	.	.	rs768778570	.	.	-1	RGS5	HGNC	10001	protein_coding	YES	CCDS58041.1	ENSP00000433001	RGS5_HUMAN	.	UPI0001F78466	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACAGCAGAGC	byFrequency	2	BLCA
EPHA2	0	.	GRCh37	1	16462210	16462210	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1368G>A	p.Trp456Ter	p.W456*	ENST00000358432	6/17	48	32	16	80	80	0	EPHA2,stop_gained,p.Trp456Ter,ENST00000358432,;EPHA2,non_coding_transcript_exon_variant,,ENST00000480202,;EPHA2,upstream_gene_variant,,ENST00000462805,;	T	ENSG00000142627	ENST00000358432	Transcript	stop_gained	1523	1368	456	W/*	tgG/tgA	.	.	.	-1	EPHA2	HGNC	3386	protein_coding	YES	CCDS169.1	ENSP00000351209	EPHA2_HUMAN	Q96HF4_HUMAN,Q8IZL0_HUMAN	UPI00000731AB	.	.	.	6/17	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF306,hmmpanther:PTHR24416,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTCCAGGA	.	5	BLCA
TMCO1	0	.	GRCh37	1	165737986	165737986	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156G>A	p.Met52Ile	p.M52I	ENST00000367881	1/7	55	32	23	52	52	0	TMCO1,start_lost,p.Met1?,ENST00000392129,;TMCO1,missense_variant,p.Met52Ile,ENST00000367881,;TMCO1,5_prime_UTR_variant,,ENST00000481278,;TMCO1,intron_variant,,ENST00000464650,;TMCO1,intron_variant,,ENST00000580248,;RP11-466F5.8,upstream_gene_variant,,ENST00000423121,;TMCO1,missense_variant,p.Met47Ile,ENST00000476143,;TMCO1,missense_variant,p.Met52Ile,ENST00000465705,;	T	ENSG00000143183	ENST00000367881	Transcript	missense_variant	432	156	52	M/I	atG/atA	.	.	.	-1	TMCO1	HGNC	18188	protein_coding	YES	CCDS1251.2	ENSP00000356856	.	J9JIE6_HUMAN,J3QQY2_HUMAN	UPI0000EE3C5A	.	tolerated_low_confidence(0.06)	benign(0.143)	1/7	.	hmmpanther:PTHR20917,PIRSF_domain:PIRSF023322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCATCTC	.	5	BLCA
POGK	0	.	GRCh37	1	166810215	166810215	+	Missense_Mutation	SNP	C	C	T	rs780719034	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.22C>T	p.Leu8Phe	p.L8F	ENST00000367875	2/5	106	64	42	143	143	0	POGK,missense_variant,p.Leu8Phe,ENST00000449930,;POGK,missense_variant,p.Leu8Phe,ENST00000367876,;POGK,missense_variant,p.Leu8Phe,ENST00000367875,;POGK,5_prime_UTR_variant,,ENST00000536514,;POGK,5_prime_UTR_variant,,ENST00000537173,;	T	ENSG00000143157	ENST00000367875	Transcript	missense_variant	382	22	8	L/F	Ctc/Ttc	rs780719034	.	.	1	POGK	HGNC	18800	protein_coding	YES	CCDS1254.1	ENSP00000356849	POGK_HUMAN	Q5TIJ2_HUMAN	UPI0000167816	.	tolerated_low_confidence(0.14)	benign(0)	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCTCAAT	.	5	BLCA
BLZF1	0	.	GRCh37	1	169346071	169346071	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322G>T	p.Glu108Ter	p.E108*	ENST00000367808	3/7	73	56	17	94	94	0	BLZF1,stop_gained,p.Glu108Ter,ENST00000426663,;BLZF1,stop_gained,p.Glu108Ter,ENST00000329281,;BLZF1,stop_gained,p.Glu108Ter,ENST00000367808,;BLZF1,stop_gained,p.Glu108Ter,ENST00000367807,;BLZF1,stop_gained,p.Glu108Ter,ENST00000420531,;	T	ENSG00000117475	ENST00000367808	Transcript	stop_gained	745	322	108	E/*	Gaa/Taa	COSM899223	.	.	1	BLZF1	HGNC	1065	protein_coding	YES	CCDS1278.1	ENSP00000356782	GO45_HUMAN	Q5T534_HUMAN,Q5T532_HUMAN	UPI000003B44E	.	.	.	3/7	.	hmmpanther:PTHR13066	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGAGAATTC	.	5	BLCA
F5	0	.	GRCh37	1	169519916	169519916	+	Missense_Mutation	SNP	G	G	A	rs764814710	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1358C>T	p.Ser453Leu	p.S453L	ENST00000367797	9/25	47	27	20	64	64	0	F5,missense_variant,p.Ser453Leu,ENST00000367796,;F5,missense_variant,p.Ser316Leu,ENST00000546081,;F5,missense_variant,p.Ser453Leu,ENST00000367797,;	A	ENSG00000198734	ENST00000367797	Transcript	missense_variant	1560	1358	453	S/L	tCg/tTg	rs764814710,COSM4024936	.	.	-1	F5	HGNC	3542	protein_coding	YES	CCDS1281.1	ENSP00000356771	FA5_HUMAN	Q8TD21_HUMAN,Q2HZZ1_HUMAN,Q1L610_HUMAN	UPI0000070F01	.	deleterious(0)	possibly_damaging(0.642)	9/25	.	hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF597,Gene3D:2.60.40.420,Superfamily_domains:SSF49503	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGGCGAGAAG	byFrequency	3	BLCA
SELL	0	.	GRCh37	1	169670777	169670777	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044C>T	p.%3D	p.F348F	ENST00000236147	7/9	13	6	7	9	9	0	SELL,synonymous_variant,p.%3D,ENST00000236147,;SELL,non_coding_transcript_exon_variant,,ENST00000463108,;C1orf112,intron_variant,,ENST00000498289,;SELL,intron_variant,,ENST00000497295,;SELL,downstream_gene_variant,,ENST00000466340,;SELL,downstream_gene_variant,,ENST00000479657,;SELL,downstream_gene_variant,,ENST00000460650,;	A	ENSG00000188404	ENST00000236147	Transcript	synonymous_variant	1205	1044	348	F	ttC/ttT	.	.	.	-1	SELL	HGNC	10720	protein_coding	YES	CCDS53427.1	ENSP00000236147	LYAM1_HUMAN	Q6ULR8_HUMAN	UPI000007083D	.	.	.	7/9	.	Transmembrane_helices:TMhelix,PIRSF_domain:PIRSF002421,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF337	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GGAATGAAGAG	.	4	BLCA
ESPNP	0	.	GRCh37	1	17030466	17030466	+	RNA	SNP	G	G	C	rs758432878	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.870C>G	.	.	ENST00000270691	5/11	78	70	8	121	121	0	ESPNP,non_coding_transcript_exon_variant,,ENST00000492551,;ESPNP,non_coding_transcript_exon_variant,,ENST00000270691,;ESPNP,downstream_gene_variant,,ENST00000535711,;	C	ENSG00000268869	ENST00000270691	Transcript	non_coding_transcript_exon_variant	870	.	.	.	.	rs758432878	.	.	-1	ESPNP	HGNC	23285	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	5/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	ATGCTGGAGTG	.	3	BLCA
METTL13	0	.	GRCh37	1	171751245	171751245	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138C>T	p.%3D	p.I46I	ENST00000361735	1/8	38	23	14	50	50	0	METTL13,synonymous_variant,p.%3D,ENST00000458517,;METTL13,synonymous_variant,p.%3D,ENST00000361735,;METTL13,synonymous_variant,p.%3D,ENST00000367737,;METTL13,intron_variant,,ENST00000362019,;METTL13,non_coding_transcript_exon_variant,,ENST00000485629,;	T	ENSG00000010165	ENST00000361735	Transcript	synonymous_variant	404	138	46	I	atC/atT	.	.	.	1	METTL13	HGNC	24248	protein_coding	YES	CCDS1299.1	ENSP00000354920	MET13_HUMAN	C4B4C6_HUMAN	UPI000006DE3D	.	.	.	1/8	.	hmmpanther:PTHR12176:SF13,hmmpanther:PTHR12176,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATCAAGCC	.	5	BLCA
GNB1	0	.	GRCh37	1	1720625	1720625	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783C>T	p.%3D	p.L261L	ENST00000378609	10/12	24	15	9	45	45	0	GNB1,synonymous_variant,p.%3D,ENST00000378609,;GNB1,downstream_gene_variant,,ENST00000434686,;GNB1,downstream_gene_variant,,ENST00000439272,;GNB1,non_coding_transcript_exon_variant,,ENST00000471354,;GNB1,non_coding_transcript_exon_variant,,ENST00000461893,;	A	ENSG00000078369	ENST00000378609	Transcript	synonymous_variant	1115	783	261	L	ctC/ctT	COSM1499722	.	.	-1	GNB1	HGNC	4396	protein_coding	YES	CCDS34.1	ENSP00000367872	GBB1_HUMAN	Q71UM7_HUMAN,Q71UM6_HUMAN,F6UT28_HUMAN,B3KVK2_HUMAN,B1AKQ8_HUMAN	UPI00000230B3	.	.	.	10/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR19850,Gene3D:2.130.10.10,PIRSF_domain:PIRSF002394,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GTCATGAGCTC	.	4	BLCA
PIGC	0	.	GRCh37	1	172410910	172410910	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>A	p.Glu285Lys	p.E285K	ENST00000367728	1/1	127	88	39	163	163	0	PIGC,missense_variant,p.Glu285Lys,ENST00000367728,;PIGC,missense_variant,p.Glu285Lys,ENST00000258324,;PIGC,missense_variant,p.Glu285Lys,ENST00000344529,;C1orf105,intron_variant,,ENST00000367727,;C1orf105,upstream_gene_variant,,ENST00000488100,;PIGC,intron_variant,,ENST00000484368,;PIGC,downstream_gene_variant,,ENST00000478184,;	T	ENSG00000135845	ENST00000367728	Transcript	missense_variant	2317	853	285	E/K	Gaa/Aaa	.	.	.	-1	PIGC	HGNC	8960	protein_coding	YES	CCDS1302.1	ENSP00000356702	PIGC_HUMAN	.	UPI0000131AB1	.	deleterious(0)	possibly_damaging(0.871)	1/1	.	hmmpanther:PTHR12982,PIRSF_domain:PIRSF016104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCATCCC	.	5	BLCA
RC3H1	0	.	GRCh37	1	173907783	173907783	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*76C>T	.	.	ENST00000367696	20/20	54	36	18	57	57	0	RC3H1,3_prime_UTR_variant,,ENST00000367694,;RC3H1,3_prime_UTR_variant,,ENST00000258349,;RC3H1,3_prime_UTR_variant,,ENST00000367696,;RC3H1,non_coding_transcript_exon_variant,,ENST00000479099,;	A	ENSG00000135870	ENST00000367696	Transcript	3_prime_UTR_variant	3830	.	.	.	.	.	.	.	-1	RC3H1	HGNC	29434	protein_coding	YES	CCDS30940.1	ENSP00000356669	RC3H1_HUMAN	B9EGU6_HUMAN	UPI00001D7DA8	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTAGAAGTT	.	5	BLCA
PADI3	0	.	GRCh37	1	17603011	17603011	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1308-3C>T	.	.	ENST00000375460	.	53	38	14	73	73	0	PADI3,splice_region_variant,,ENST00000375460,;MIR3972,upstream_gene_variant,,ENST00000582732,;	T	ENSG00000142619	ENST00000375460	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	PADI3	HGNC	18337	protein_coding	YES	CCDS179.1	ENSP00000364609	PADI3_HUMAN	.	UPI000013D8A0	.	.	.	.	11/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCCCAGGTC	.	4	BLCA
ABL2	0	.	GRCh37	1	179095776	179095792	+	Frame_Shift_Del	DEL	CTGGTTGTAACCAAGGA	CTGGTTGTAACCAAGGA	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	CTGGTTGTAACCAAGGA	CTGGTTGTAACCAAGGA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.407_423delTCCTTGGTTACAACCAG	p.Val136GlufsTer3	p.V136Efs*3	ENST00000502732	4/12	46	39	7	64	64	0	ABL2,frameshift_variant,p.Val115GlufsTer3,ENST00000507173,;ABL2,frameshift_variant,p.Val121GlufsTer3,ENST00000344730,;ABL2,frameshift_variant,p.Val121GlufsTer3,ENST00000512653,;ABL2,frameshift_variant,p.Val136GlufsTer3,ENST00000511413,;ABL2,frameshift_variant,p.Val100GlufsTer3,ENST00000504405,;ABL2,frameshift_variant,p.Val100GlufsTer3,ENST00000408940,;ABL2,frameshift_variant,p.Val115GlufsTer3,ENST00000392043,;ABL2,frameshift_variant,p.Val136GlufsTer3,ENST00000502732,;ABL2,frameshift_variant,p.Val115GlufsTer3,ENST00000367623,;ABL2,non_coding_transcript_exon_variant,,ENST00000504324,;ABL2,non_coding_transcript_exon_variant,,ENST00000509520,;ABL2,downstream_gene_variant,,ENST00000508127,;	-	ENSG00000143322	ENST00000502732	Transcript	frameshift_variant	611-627	407-423	136-141	VLGYNQ/X	gTCCTTGGTTACAACCAG/g	.	.	.	-1	ABL2	HGNC	77	protein_coding	YES	CCDS30947.1	ENSP00000427562	ABL2_HUMAN	.	UPI0000125140	.	.	.	4/12	.	Superfamily_domains:SSF50044,SMART_domains:SM00326,Pfam_domain:PF00018,Gene3D:2.30.30.40,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF87,PROSITE_profiles:PS50002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACCATTCTGGTTGTAACCAAGGACTCGT	.	3	BLCA
NPHS2	0	.	GRCh37	1	179520502	179520502	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.958C>T	p.Gln320Ter	p.Q320*	ENST00000367615	8/8	47	36	11	55	55	0	NPHS2,stop_gained,p.Gln252Ter,ENST00000367616,;NPHS2,stop_gained,p.Gln320Ter,ENST00000367615,;AXDND1,intron_variant,,ENST00000434088,;AXDND1,intron_variant,,ENST00000367618,;RP11-545A16.1,upstream_gene_variant,,ENST00000569644,;AXDND1,non_coding_transcript_exon_variant,,ENST00000489080,;AXDND1,intron_variant,,ENST00000484455,;AXDND1,intron_variant,,ENST00000484883,;AXDND1,intron_variant,,ENST00000511157,;	A	ENSG00000116218	ENST00000367615	Transcript	stop_gained	1027	958	320	Q/*	Cag/Tag	COSM3802999	.	.	-1	NPHS2	HGNC	13394	protein_coding	YES	CCDS1331.1	ENSP00000356587	PODO_HUMAN	.	UPI000003F549	.	.	.	8/8	.	Prints_domain:PR00721,hmmpanther:PTHR10264,hmmpanther:PTHR10264:SF23	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAACGG	.	5	BLCA
KIAA1614	0	.	GRCh37	1	180904982	180904982	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1937G>A	p.Arg646Gln	p.R646Q	ENST00000367588	5/9	23	14	9	35	35	0	KIAA1614,missense_variant,p.Arg646Gln,ENST00000367588,;KIAA1614,missense_variant,p.Arg267Gln,ENST00000367587,;KIAA1614,intron_variant,,ENST00000483705,;	A	ENSG00000135835	ENST00000367588	Transcript	missense_variant	1992	1937	646	R/Q	cGa/cAa	.	.	.	1	KIAA1614	HGNC	29327	protein_coding	YES	CCDS41442.1	ENSP00000356560	K1614_HUMAN	.	UPI00001C1D75	.	tolerated(0.15)	benign(0.061)	5/9	.	hmmpanther:PTHR17130,hmmpanther:PTHR17130:SF7,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGCGACTGC	.	5	BLCA
KIAA1614	0	.	GRCh37	1	180905311	180905311	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2266G>A	p.Glu756Lys	p.E756K	ENST00000367588	5/9	28	14	14	43	43	0	KIAA1614,missense_variant,p.Glu756Lys,ENST00000367588,;KIAA1614,missense_variant,p.Glu377Lys,ENST00000367587,;KIAA1614,intron_variant,,ENST00000483705,;	A	ENSG00000135835	ENST00000367588	Transcript	missense_variant	2321	2266	756	E/K	Gaa/Aaa	.	.	.	1	KIAA1614	HGNC	29327	protein_coding	YES	CCDS41442.1	ENSP00000356560	K1614_HUMAN	.	UPI00001C1D75	.	tolerated(0.07)	benign(0.112)	5/9	.	hmmpanther:PTHR17130,hmmpanther:PTHR17130:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTGAATCA	.	5	BLCA
LAMC1	0	.	GRCh37	1	183100498	183100498	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3551G>A	p.Arg1184Gln	p.R1184Q	ENST00000258341	20/28	67	40	26	67	67	0	LAMC1,missense_variant,p.Arg1184Gln,ENST00000258341,;LAMC1,non_coding_transcript_exon_variant,,ENST00000478064,;LAMC1,downstream_gene_variant,,ENST00000466964,;LAMC1,upstream_gene_variant,,ENST00000495918,;	A	ENSG00000135862	ENST00000258341	Transcript	missense_variant	3808	3551	1184	R/Q	cGa/cAa	.	.	.	1	LAMC1	HGNC	6492	protein_coding	YES	CCDS1351.1	ENSP00000258341	LAMC1_HUMAN	R4GNC7_HUMAN	UPI000013CFC7	.	tolerated(0.13)	probably_damaging(0.997)	20/28	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10574:SF228,hmmpanther:PTHR10574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTCGAAAGC	.	4	BLCA
NMNAT2	0	.	GRCh37	1	183273807	183273807	+	Intron	SNP	G	G	A	rs200712931	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86-10879C>T	.	.	ENST00000287713	.	63	44	18	98	97	1	NMNAT2,missense_variant,p.Ser23Leu,ENST00000294868,;NMNAT2,intron_variant,,ENST00000287713,;	A	ENSG00000157064	ENST00000287713	Transcript	intron_variant	.	.	.	.	.	rs200712931	.	.	-1	NMNAT2	HGNC	16789	protein_coding	YES	CCDS1353.1	ENSP00000287713	NMNA2_HUMAN	.	UPI00000706AB	.	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAGAGA	byFrequency|byCluster	5	BLCA
ARPC5	0	.	GRCh37	1	183602256	183602256	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186G>A	p.%3D	p.L62L	ENST00000294742	2/4	126	81	45	173	172	0	ARPC5,synonymous_variant,p.%3D,ENST00000294742,;ARPC5,synonymous_variant,p.%3D,ENST00000359856,;ARPC5,synonymous_variant,p.%3D,ENST00000367534,;RGL1,upstream_gene_variant,,ENST00000304685,;RGL1,upstream_gene_variant,,ENST00000536277,;ARPC5,non_coding_transcript_exon_variant,,ENST00000462965,;ARPC5,non_coding_transcript_exon_variant,,ENST00000602490,;	T	ENSG00000162704	ENST00000294742	Transcript	synonymous_variant	284	186	62	L	ctG/ctA	.	.	.	-1	ARPC5	HGNC	708	protein_coding	YES	CCDS58050.1	ENSP00000294742	ARPC5_HUMAN	.	UPI00001CE02C	.	.	.	2/4	.	hmmpanther:PTHR12644:SF1,hmmpanther:PTHR12644,Pfam_domain:PF04699,Gene3D:1k8kG00,Superfamily_domains:0047762	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAGAGC	.	5	BLCA
RGL1	0	.	GRCh37	1	183857633	183857633	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1082C>T	p.Ser361Phe	p.S361F	ENST00000304685	9/19	161	103	58	166	166	0	RGL1,missense_variant,p.Ser361Phe,ENST00000304685,;RGL1,missense_variant,p.Ser326Phe,ENST00000539189,;RGL1,missense_variant,p.Ser324Phe,ENST00000536277,;RGL1,missense_variant,p.Ser326Phe,ENST00000360851,;	T	ENSG00000143344	ENST00000304685	Transcript	missense_variant	1531	1082	361	S/F	tCc/tTc	.	.	.	1	RGL1	HGNC	30281	protein_coding	YES	CCDS1359.1	ENSP00000303192	RGL1_HUMAN	.	UPI000002B24C	.	deleterious(0)	probably_damaging(1)	9/19	.	Superfamily_domains:0041591,SMART_domains:SM00147,Pfam_domain:PF00617,Gene3D:2ii0A02,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF199,PROSITE_profiles:PS50009	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCCTCCT	.	5	BLCA
EDEM3	0	.	GRCh37	1	184706797	184706797	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253C>T	p.Arg85Ter	p.R85*	ENST00000318130	3/20	46	29	17	65	65	0	EDEM3,stop_gained,p.Arg42Ter,ENST00000367512,;EDEM3,stop_gained,p.Arg85Ter,ENST00000318130,;EDEM3,non_coding_transcript_exon_variant,,ENST00000474725,;EDEM3,non_coding_transcript_exon_variant,,ENST00000466606,;	A	ENSG00000116406	ENST00000318130	Transcript	stop_gained	520	253	85	R/*	Cga/Tga	.	.	.	-1	EDEM3	HGNC	16787	protein_coding	YES	CCDS1363.2	ENSP00000318147	EDEM3_HUMAN	Q7L2Y5_HUMAN,H0Y498_HUMAN	UPI0000470A2B	.	.	.	3/20	.	hmmpanther:PTHR11742,hmmpanther:PTHR11742:SF30,Pfam_domain:PF01532,Gene3D:1.50.10.50,Superfamily_domains:SSF48225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTCGACCTC	.	5	BLCA
HMCN1	0	.	GRCh37	1	186017949	186017949	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6555A>T	p.Lys2185Asn	p.K2185N	ENST00000271588	42/107	72	48	24	85	85	0	HMCN1,missense_variant,p.Lys2185Asn,ENST00000367492,;HMCN1,missense_variant,p.Lys2185Asn,ENST00000271588,;	T	ENSG00000143341	ENST00000271588	Transcript	missense_variant	6784	6555	2185	K/N	aaA/aaT	.	.	.	1	HMCN1	HGNC	19194	protein_coding	YES	CCDS30956.1	ENSP00000271588	HMCN1_HUMAN	.	UPI0000458C0E	.	.	probably_damaging(0.993)	42/107	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897:SF158,hmmpanther:PTHR19897,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAAAAACTA	.	5	BLCA
KLHDC7A	0	.	GRCh37	1	18808064	18808064	+	Missense_Mutation	SNP	C	C	A	rs778460804	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589C>A	p.Pro197Thr	p.P197T	ENST00000400664	1/1	25	17	8	35	35	0	KLHDC7A,missense_variant,p.Pro197Thr,ENST00000400664,;	A	ENSG00000179023	ENST00000400664	Transcript	missense_variant	641	589	197	P/T	Cca/Aca	rs778460804	.	.	1	KLHDC7A	HGNC	26791	protein_coding	YES	CCDS185.2	ENSP00000383505	KLD7A_HUMAN	A4FU39_HUMAN	UPI0000E0501F	.	tolerated(0.15)	benign(0.011)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCCAGGA	byFrequency	5	BLCA
GLRX2	0	.	GRCh37	1	193074683	193074683	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.86C>T	p.Ser29Leu	p.S29L	ENST00000367440	1/4	11	5	6	20	20	0	GLRX2,missense_variant,p.Ser29Leu,ENST00000367440,;GLRX2,upstream_gene_variant,,ENST00000367439,;GLRX2,intron_variant,,ENST00000472197,;	A	ENSG00000023572	ENST00000367440	Transcript	missense_variant	562	86	29	S/L	tCg/tTg	.	.	.	-1	GLRX2	HGNC	16065	protein_coding	YES	CCDS1380.1	ENSP00000356410	GLRX2_HUMAN	.	UPI000006F2AD	.	deleterious_low_confidence(0.04)	benign(0.014)	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCCGAGCGC	.	3	BLCA
UBR4	0	.	GRCh37	1	19439983	19439983	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11457+210G>A	.	.	ENST00000375254	.	11	8	3	11	11	0	UBR4,3_prime_UTR_variant,,ENST00000375218,;UBR4,intron_variant,,ENST00000375254,;UBR4,intron_variant,,ENST00000375217,;UBR4,intron_variant,,ENST00000375267,;UBR4,intron_variant,,ENST00000375226,;UBR4,upstream_gene_variant,,ENST00000494503,;UBR4,upstream_gene_variant,,ENST00000466969,;	T	ENSG00000127481	ENST00000375254	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	UBR4	HGNC	30313	protein_coding	YES	CCDS189.1	ENSP00000364403	UBR4_HUMAN	Q96HY5_HUMAN	UPI000021276F	.	.	.	.	77/105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTATCTAGCA	.	2	BLCA
CAMSAP2	0	.	GRCh37	1	200817788	200817788	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1891G>A	p.Asp631Asn	p.D631N	ENST00000358823	11/17	96	79	17	123	123	0	CAMSAP2,missense_variant,p.Asp615Asn,ENST00000413307,;CAMSAP2,missense_variant,p.Asp631Asn,ENST00000358823,;CAMSAP2,missense_variant,p.Asp642Asn,ENST00000236925,;CAMSAP2,intron_variant,,ENST00000447701,;	A	ENSG00000118200	ENST00000358823	Transcript	missense_variant	2161	1891	631	D/N	Gat/Aat	.	.	.	1	CAMSAP2	HGNC	29188	protein_coding	YES	CCDS1404.1	ENSP00000351684	CAMP2_HUMAN	.	UPI000020470D	.	deleterious(0)	probably_damaging(1)	11/17	.	hmmpanther:PTHR21595:SF1,hmmpanther:PTHR21595	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGAGATTAT	.	5	BLCA
IGFN1	0	.	GRCh37	1	201196238	201196238	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11015C>A	p.Thr3672Asn	p.T3672N	ENST00000335211	23/24	16	11	5	29	29	0	IGFN1,missense_variant,p.Thr1090Asn,ENST00000412892,;IGFN1,missense_variant,p.Thr3672Asn,ENST00000335211,;IGFN1,3_prime_UTR_variant,,ENST00000295591,;RP11-567E21.3,upstream_gene_variant,,ENST00000453155,;IGFN1,3_prime_UTR_variant,,ENST00000437879,;IGFN1,non_coding_transcript_exon_variant,,ENST00000473483,;	A	ENSG00000163395	ENST00000335211	Transcript	missense_variant	11145	11015	3672	T/N	aCc/aAc	.	.	.	1	IGFN1	HGNC	24607	protein_coding	YES	CCDS53455.1	ENSP00000334714	IGFN1_HUMAN	.	UPI0001B300F4	.	.	possibly_damaging(0.877)	23/24	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF145,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTCACCATCC	.	2	BLCA
IGFN1	0	.	GRCh37	1	201196239	201196239	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11016C>T	p.%3D	p.T3672T	ENST00000335211	23/24	16	11	5	28	28	0	IGFN1,synonymous_variant,p.%3D,ENST00000412892,;IGFN1,synonymous_variant,p.%3D,ENST00000335211,;IGFN1,3_prime_UTR_variant,,ENST00000295591,;RP11-567E21.3,upstream_gene_variant,,ENST00000453155,;IGFN1,3_prime_UTR_variant,,ENST00000437879,;IGFN1,non_coding_transcript_exon_variant,,ENST00000473483,;	T	ENSG00000163395	ENST00000335211	Transcript	synonymous_variant	11146	11016	3672	T	acC/acT	.	.	.	1	IGFN1	HGNC	24607	protein_coding	YES	CCDS53455.1	ENSP00000334714	IGFN1_HUMAN	.	UPI0001B300F4	.	.	.	23/24	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF145,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCACCATCCC	.	2	BLCA
IGFN1	0	.	GRCh37	1	201196247	201196247	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11024G>A	p.Ser3675Asn	p.S3675N	ENST00000335211	23/24	15	10	5	28	28	0	IGFN1,missense_variant,p.Ser1093Asn,ENST00000412892,;IGFN1,missense_variant,p.Ser3675Asn,ENST00000335211,;IGFN1,3_prime_UTR_variant,,ENST00000295591,;RP11-567E21.3,upstream_gene_variant,,ENST00000453155,;IGFN1,3_prime_UTR_variant,,ENST00000437879,;IGFN1,non_coding_transcript_exon_variant,,ENST00000473483,;	A	ENSG00000163395	ENST00000335211	Transcript	missense_variant	11154	11024	3675	S/N	aGc/aAc	.	.	.	1	IGFN1	HGNC	24607	protein_coding	YES	CCDS53455.1	ENSP00000334714	IGFN1_HUMAN	.	UPI0001B300F4	.	.	probably_damaging(0.961)	23/24	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Pfam_domain:PF07679,Gene3D:2.60.40.10,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF145,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCCCAGCGTAT	.	3	BLCA
NAV1	0	.	GRCh37	1	201749655	201749655	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1333C>T	p.Pro445Ser	p.P445S	ENST00000367296	4/30	61	38	23	89	89	0	NAV1,missense_variant,p.Pro445Ser,ENST00000367297,;NAV1,missense_variant,p.Pro445Ser,ENST00000367300,;NAV1,missense_variant,p.Pro445Ser,ENST00000295624,;NAV1,missense_variant,p.Pro3Ser,ENST00000430015,;NAV1,missense_variant,p.Pro458Ser,ENST00000367302,;NAV1,missense_variant,p.Pro445Ser,ENST00000367296,;NAV1,missense_variant,p.Pro54Ser,ENST00000367295,;IPO9-AS1,intron_variant,,ENST00000413035,;NAV1,non_coding_transcript_exon_variant,,ENST00000490213,;NAV1,upstream_gene_variant,,ENST00000469130,;	T	ENSG00000134369	ENST00000367296	Transcript	missense_variant	1753	1333	445	P/S	Ccc/Tcc	.	.	.	1	NAV1	HGNC	15989	protein_coding	YES	CCDS1414.2	ENSP00000356265	NAV1_HUMAN	.	UPI00004562D4	.	deleterious(0.03)	probably_damaging(0.967)	4/30	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12784:SF3,hmmpanther:PTHR12784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTCCCACT	.	5	BLCA
IPO9	0	.	GRCh37	1	201840403	201840403	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2524G>C	p.Glu842Gln	p.E842Q	ENST00000361565	19/24	54	36	17	65	65	0	IPO9,missense_variant,p.Glu842Gln,ENST00000361565,;IPO9,upstream_gene_variant,,ENST00000456707,;	C	ENSG00000198700	ENST00000361565	Transcript	missense_variant	2593	2524	842	E/Q	Gag/Cag	.	.	.	1	IPO9	HGNC	19425	protein_coding	YES	CCDS1415.1	ENSP00000354742	IPO9_HUMAN	.	UPI000007304B	.	tolerated(0.11)	benign(0.411)	19/24	.	hmmpanther:PTHR10997,hmmpanther:PTHR10997:SF9,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGAGTGG	.	5	BLCA
ELF3	0	.	GRCh37	1	201981084	201981084	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164-1G>A	.	p.X55_splice	ENST00000359651	.	95	64	30	124	124	0	ELF3,splice_acceptor_variant,,ENST00000367284,;ELF3,splice_acceptor_variant,,ENST00000359651,;ELF3,splice_acceptor_variant,,ENST00000367283,;ELF3,splice_acceptor_variant,,ENST00000446188,;RP11-510N19.5,intron_variant,,ENST00000504773,;RP11-465N4.4,upstream_gene_variant,,ENST00000419190,;ELF3,splice_acceptor_variant,,ENST00000490203,;ELF3,splice_acceptor_variant,,ENST00000495848,;ELF3,upstream_gene_variant,,ENST00000475698,;ELF3,upstream_gene_variant,,ENST00000479874,;ELF3,downstream_gene_variant,,ENST00000498017,;ELF3,upstream_gene_variant,,ENST00000470384,;	A	ENSG00000163435	ENST00000359651	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ELF3	HGNC	3318	protein_coding	YES	CCDS1419.1	ENSP00000352673	ELF3_HUMAN	.	UPI0000034E32	.	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAGAAG	.	5	BLCA
TMEM183A	0	.	GRCh37	1	202977800	202977800	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229C>T	p.Gln77Ter	p.Q77*	ENST00000367242	3/8	40	30	10	48	48	0	TMEM183A,stop_gained,p.Gln77Ter,ENST00000367242,;TMEM183A,non_coding_transcript_exon_variant,,ENST00000468449,;TMEM183A,non_coding_transcript_exon_variant,,ENST00000543891,;TMEM183A,upstream_gene_variant,,ENST00000463015,;	T	ENSG00000163444	ENST00000367242	Transcript	stop_gained	309	229	77	Q/*	Cag/Tag	.	.	.	1	TMEM183A	HGNC	20173	protein_coding	YES	CCDS1432.1	ENSP00000356211	T183A_HUMAN	B4DLZ3_HUMAN	UPI00000715EE	.	.	.	3/8	.	hmmpanther:PTHR20988,hmmpanther:PTHR20988:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGGTT	.	5	BLCA
ETNK2	0	.	GRCh37	1	204109244	204109244	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.787C>A	p.His263Asn	p.H263N	ENST00000367202	5/8	50	32	18	101	101	0	ETNK2,missense_variant,p.His194Asn,ENST00000367199,;ETNK2,missense_variant,p.His85Asn,ENST00000367198,;ETNK2,missense_variant,p.His120Asn,ENST00000452983,;ETNK2,missense_variant,p.His26Asn,ENST00000422072,;ETNK2,missense_variant,p.His263Asn,ENST00000367201,;ETNK2,missense_variant,p.His129Asn,ENST00000422699,;ETNK2,missense_variant,p.His263Asn,ENST00000367202,;ETNK2,missense_variant,p.His109Asn,ENST00000444817,;ETNK2,splice_region_variant,,ENST00000367197,;RP11-74C13.3,upstream_gene_variant,,ENST00000433869,;ETNK2,splice_region_variant,,ENST00000477125,;ETNK2,upstream_gene_variant,,ENST00000492392,;ETNK2,splice_region_variant,,ENST00000472340,;	T	ENSG00000143845	ENST00000367202	Transcript	missense_variant	938	787	263	H/N	Cac/Aac	.	.	.	-1	ETNK2	HGNC	25575	protein_coding	YES	CCDS1442.2	ENSP00000356170	EKI2_HUMAN	Q5SXX4_HUMAN,B7Z1G7_HUMAN	UPI000007286B	.	tolerated(0.45)	benign(0.297)	5/8	.	hmmpanther:PTHR22603:SF20,hmmpanther:PTHR22603,Pfam_domain:PF01633,Gene3D:3.90.1200.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGTGACCTA	.	5	BLCA
PPP1R15B	0	.	GRCh37	1	204378919	204378919	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1621G>A	p.Asp541Asn	p.D541N	ENST00000367188	1/2	58	40	17	60	60	0	PPP1R15B,missense_variant,p.Asp541Asn,ENST00000367188,;RP11-739N20.2,intron_variant,,ENST00000443515,;	T	ENSG00000158615	ENST00000367188	Transcript	missense_variant	2001	1621	541	D/N	Gat/Aat	.	.	.	-1	PPP1R15B	HGNC	14951	protein_coding	YES	CCDS1445.1	ENSP00000356156	PR15B_HUMAN	.	UPI000013DF8B	.	deleterious(0.01)	probably_damaging(0.979)	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16489:SF9,hmmpanther:PTHR16489,Pfam_domain:PF10488	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCTTCCT	.	5	BLCA
PIK3C2B	0	.	GRCh37	1	204408105	204408105	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3474C>T	p.%3D	p.D1158D	ENST00000367187	24/34	26	19	6	34	34	0	PIK3C2B,synonymous_variant,p.%3D,ENST00000367187,;PIK3C2B,synonymous_variant,p.%3D,ENST00000424712,;RP11-739N20.2,downstream_gene_variant,,ENST00000443515,;	A	ENSG00000133056	ENST00000367187	Transcript	synonymous_variant	4031	3474	1158	D	gaC/gaT	.	.	.	-1	PIK3C2B	HGNC	8972	protein_coding	YES	CCDS1446.1	ENSP00000356155	P3C2B_HUMAN	Q5SW98_HUMAN,Q5SW97_HUMAN,Q4LE65_HUMAN,A2RUF7_HUMAN	UPI00002056D1	.	.	.	24/34	.	PROSITE_profiles:PS50290,hmmpanther:PTHR10048:SF30,hmmpanther:PTHR10048,Gene3D:1.10.1070.11,Pfam_domain:PF00454,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCAGTCTGC	.	5	BLCA
MFSD4	0	.	GRCh37	1	205555305	205555305	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1119G>A	p.Met373Ile	p.M373I	ENST00000367147	6/10	104	76	28	121	121	0	MFSD4,missense_variant,p.Met286Ile,ENST00000536357,;MFSD4,missense_variant,p.Met373Ile,ENST00000539267,;MFSD4,missense_variant,p.Met373Ile,ENST00000367147,;MFSD4,non_coding_transcript_exon_variant,,ENST00000475956,;MFSD4,intron_variant,,ENST00000489709,;	A	ENSG00000174514	ENST00000367147	Transcript	missense_variant	1212	1119	373	M/I	atG/atA	.	.	.	1	MFSD4	HGNC	25433	protein_coding	YES	CCDS1455.1	ENSP00000356115	MFSD4_HUMAN	.	UPI000019855C	.	tolerated(0.25)	benign(0.013)	6/10	.	hmmpanther:PTHR23121:SF10,hmmpanther:PTHR23121,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATGAAGCC	.	5	BLCA
PIGR	0	.	GRCh37	1	207110864	207110864	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.621C>T	p.%3D	p.I207I	ENST00000356495	4/11	49	27	22	66	65	1	PIGR,synonymous_variant,p.%3D,ENST00000356495,;PIGR,downstream_gene_variant,,ENST00000491503,;	A	ENSG00000162896	ENST00000356495	Transcript	synonymous_variant	805	621	207	I	atC/atT	.	.	.	-1	PIGR	HGNC	8968	protein_coding	YES	CCDS1474.1	ENSP00000348888	PIGR_HUMAN	.	UPI000007407E	.	.	.	4/11	.	hmmpanther:PTHR11860:SF44,hmmpanther:PTHR11860,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTGATGAC	.	5	BLCA
C1orf116	0	.	GRCh37	1	207195431	207195431	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1678T>A	p.Ser560Thr	p.S560T	ENST00000359470	4/4	29	13	15	36	36	0	C1orf116,missense_variant,p.Ser314Thr,ENST00000461135,;C1orf116,missense_variant,p.Ser560Thr,ENST00000359470,;	T	ENSG00000182795	ENST00000359470	Transcript	missense_variant	1928	1678	560	S/T	Tcc/Acc	.	.	.	-1	C1orf116	HGNC	28667	protein_coding	YES	CCDS1475.1	ENSP00000352447	SARG_HUMAN	.	UPI000013E1EF	.	deleterious(0.01)	possibly_damaging(0.772)	4/4	.	Pfam_domain:PF15385,hmmpanther:PTHR21555:SF0,hmmpanther:PTHR21555	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R558C|c.1672C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAGGACAGGC	.	5	BLCA
C1orf116	0	.	GRCh37	1	207195532	207195532	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1577C>T	p.Ser526Phe	p.S526F	ENST00000359470	4/4	16	10	6	21	21	0	C1orf116,missense_variant,p.Ser280Phe,ENST00000461135,;C1orf116,missense_variant,p.Ser526Phe,ENST00000359470,;	A	ENSG00000182795	ENST00000359470	Transcript	missense_variant	1827	1577	526	S/F	tCt/tTt	COSM1338365	.	.	-1	C1orf116	HGNC	28667	protein_coding	YES	CCDS1475.1	ENSP00000352447	SARG_HUMAN	.	UPI000013E1EF	.	deleterious(0)	possibly_damaging(0.859)	4/4	.	Pfam_domain:PF15385,hmmpanther:PTHR21555:SF0,hmmpanther:PTHR21555	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGAGAATTA	.	5	BLCA
C4BPB	0	.	GRCh37	1	207265034	207265034	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278C>T	p.Ser93Phe	p.S93F	ENST00000243611	3/6	62	41	20	92	92	0	C4BPB,missense_variant,p.Ser92Phe,ENST00000367076,;C4BPB,missense_variant,p.Ser93Phe,ENST00000391923,;C4BPB,missense_variant,p.Ser93Phe,ENST00000367078,;C4BPB,missense_variant,p.Ser83Phe,ENST00000451804,;C4BPB,missense_variant,p.Ser93Phe,ENST00000243611,;C4BPB,missense_variant,p.Ser93Phe,ENST00000452902,;C4BPB,non_coding_transcript_exon_variant,,ENST00000492730,;C4BPB,upstream_gene_variant,,ENST00000469326,;	T	ENSG00000123843	ENST00000243611	Transcript	missense_variant	572	278	93	S/F	tCt/tTt	.	.	.	1	C4BPB	HGNC	1328	protein_coding	YES	CCDS1476.1	ENSP00000243611	C4BPB_HUMAN	Q5VVQ7_HUMAN	UPI0000126C25	.	tolerated(0.71)	benign(0.01)	3/6	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF40,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTCTTCAG	.	5	BLCA
CD46	0	.	GRCh37	1	207925445	207925445	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-113G>A	.	.	ENST00000322875	1/13	47	34	13	56	56	0	CD46,5_prime_UTR_variant,,ENST00000441839,;CD46,5_prime_UTR_variant,,ENST00000322918,;CD46,5_prime_UTR_variant,,ENST00000358170,;CD46,5_prime_UTR_variant,,ENST00000354848,;CD46,5_prime_UTR_variant,,ENST00000367042,;CD46,5_prime_UTR_variant,,ENST00000357714,;CD46,5_prime_UTR_variant,,ENST00000367047,;CD46,5_prime_UTR_variant,,ENST00000361067,;CD46,5_prime_UTR_variant,,ENST00000367041,;CD46,5_prime_UTR_variant,,ENST00000322875,;CD46,upstream_gene_variant,,ENST00000360212,;CD46,upstream_gene_variant,,ENST00000480003,;CD46,splice_region_variant,,ENST00000493796,;CD46,non_coding_transcript_exon_variant,,ENST00000469535,;	A	ENSG00000117335	ENST00000322875	Transcript	5_prime_UTR_variant	44	.	.	.	.	.	.	.	1	CD46	HGNC	6953	protein_coding	YES	CCDS1482.1	ENSP00000313875	MCP_HUMAN	Q06C42_HUMAN	UPI000015FF6E	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTGAGTTG	.	5	BLCA
CDA	0	.	GRCh37	1	20940386	20940386	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318G>A	p.Met106Ile	p.M106I	ENST00000375071	3/4	51	34	16	66	66	0	CDA,missense_variant,p.Met106Ile,ENST00000375071,;CDA,intron_variant,,ENST00000461985,;	A	ENSG00000158825	ENST00000375071	Transcript	missense_variant	500	318	106	M/I	atG/atA	.	.	.	1	CDA	HGNC	1712	protein_coding	YES	CCDS210.1	ENSP00000364212	CDD_HUMAN	Q71UE9_HUMAN	UPI0000127406	.	tolerated(0.43)	benign(0.042)	3/4	.	hmmpanther:PTHR11644,PROSITE_patterns:PS00903,TIGRFAM_domain:TIGR01354,Pfam_domain:PF00383,Gene3D:3.40.140.10,Superfamily_domains:SSF53927	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATGAGAGA	.	5	BLCA
HHAT	0	.	GRCh37	1	210522276	210522276	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.95-13920G>A	.	.	ENST00000545154	.	19	11	8	16	16	0	HHAT,splice_acceptor_variant,,ENST00000367010,;HHAT,splice_acceptor_variant,,ENST00000413764,;HHAT,splice_acceptor_variant,,ENST00000537898,;HHAT,splice_acceptor_variant,,ENST00000308852,;HHAT,splice_acceptor_variant,,ENST00000391905,;HHAT,splice_acceptor_variant,,ENST00000541565,;HHAT,splice_acceptor_variant,,ENST00000261458,;HHAT,intron_variant,,ENST00000545781,;HHAT,intron_variant,,ENST00000545154,;	A	ENSG00000054392	ENST00000545154	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	HHAT	HGNC	18270	protein_coding	YES	CCDS53471.1	ENSP00000438468	HHAT_HUMAN	F5H2Y1_HUMAN,B1AK61_HUMAN	UPI0001C0B381	.	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCAGAAACT	.	2	BLCA
LPGAT1	0	.	GRCh37	1	211952371	211952371	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743G>A	p.Gly248Asp	p.G248D	ENST00000366997	6/8	123	94	29	131	131	0	LPGAT1,missense_variant,p.Gly248Asp,ENST00000366996,;LPGAT1,missense_variant,p.Gly248Asp,ENST00000366997,;LPGAT1,non_coding_transcript_exon_variant,,ENST00000498690,;	T	ENSG00000123684	ENST00000366997	Transcript	missense_variant	970	743	248	G/D	gGc/gAc	COSM3483100	.	.	-1	LPGAT1	HGNC	28985	protein_coding	YES	CCDS31018.1	ENSP00000355964	LGAT1_HUMAN	Q53YL2_HUMAN	UPI0000139467	.	tolerated(0.28)	probably_damaging(0.954)	6/8	.	hmmpanther:PTHR10983:SF2,hmmpanther:PTHR10983	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGGCCTTTT	.	5	BLCA
CENPF	0	.	GRCh37	1	214805823	214805823	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1324C>T	p.Leu442Phe	p.L442F	ENST00000366955	10/20	45	30	14	50	50	0	CENPF,missense_variant,p.Leu442Phe,ENST00000366955,;	T	ENSG00000117724	ENST00000366955	Transcript	missense_variant	1492	1324	442	L/F	Ctc/Ttc	.	.	.	1	CENPF	HGNC	1857	protein_coding	YES	CCDS31023.1	ENSP00000355922	CENPF_HUMAN	.	UPI00001AE985	.	.	benign(0.01)	10/20	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTAGCTCACA	.	5	BLCA
USP48	0	.	GRCh37	1	22054995	22054995	+	Intron	SNP	T	T	C	rs541737254	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1450+68A>G	.	.	ENST00000308271	.	42	24	18	45	45	0	USP48,3_prime_UTR_variant,,ENST00000421625,;USP48,intron_variant,,ENST00000534705,;USP48,intron_variant,,ENST00000526044,;USP48,intron_variant,,ENST00000308271,;USP48,intron_variant,,ENST00000529637,;USP48,intron_variant,,ENST00000400301,;USP48,upstream_gene_variant,,ENST00000374732,;USP48,upstream_gene_variant,,ENST00000487880,;USP48,downstream_gene_variant,,ENST00000374730,;	C	ENSG00000090686	ENST00000308271	Transcript	intron_variant	.	.	.	.	.	rs541737254	.	.	-1	USP48	HGNC	18533	protein_coding	YES	CCDS30623.1	ENSP00000309262	UBP48_HUMAN	E9PRY5_HUMAN,E9PJH5_HUMAN,E9PJ87_HUMAN	UPI0000192195	.	.	.	.	11/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATATACATT	.	5	BLCA
C1orf115	0	.	GRCh37	1	220870151	220870151	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*78C>T	.	.	ENST00000294889	2/2	17	9	8	21	21	0	C1orf115,3_prime_UTR_variant,,ENST00000294889,;	T	ENSG00000162817	ENST00000294889	Transcript	3_prime_UTR_variant	1065	.	.	.	.	.	.	.	1	C1orf115	HGNC	25873	protein_coding	YES	CCDS1524.1	ENSP00000294889	CA115_HUMAN	.	UPI0000073CC0	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCAGACT	.	5	BLCA
C1orf65	0	.	GRCh37	1	223567447	223567447	+	Silent	SNP	G	G	A	rs763821566	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630G>A	p.%3D	p.Q210Q	ENST00000366875	1/1	64	41	22	75	75	0	C1orf65,synonymous_variant,p.%3D,ENST00000366875,;	A	ENSG00000178395	ENST00000366875	Transcript	synonymous_variant	733	630	210	Q	caG/caA	rs763821566	.	.	1	C1orf65	HGNC	26654	protein_coding	YES	CCDS1537.1	ENSP00000355840	CA065_HUMAN	.	UPI000006F948	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCAGAAGAG	.	5	BLCA
ITPKB	0	.	GRCh37	1	226925187	226925187	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28G>A	.	.	ENST00000429204	2/8	22	16	6	26	26	0	ITPKB,5_prime_UTR_variant,,ENST00000366784,;ITPKB,5_prime_UTR_variant,,ENST00000429204,;ITPKB,upstream_gene_variant,,ENST00000272117,;	T	ENSG00000143772	ENST00000429204	Transcript	5_prime_UTR_variant	301	.	.	.	.	.	.	.	-1	ITPKB	HGNC	6179	protein_coding	YES	CCDS1555.1	ENSP00000411152	IP3KB_HUMAN	.	UPI000013D92B	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCGCCGCGGC	.	2	BLCA
ADCK3	0	.	GRCh37	1	227171804	227171804	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1266G>A	p.%3D	p.L422L	ENST00000366779	16/20	18	13	5	27	27	0	ADCK3,synonymous_variant,p.%3D,ENST00000433743,;ADCK3,synonymous_variant,p.%3D,ENST00000366779,;ADCK3,synonymous_variant,p.%3D,ENST00000458507,;ADCK3,synonymous_variant,p.%3D,ENST00000366778,;ADCK3,synonymous_variant,p.%3D,ENST00000366777,;ADCK3,non_coding_transcript_exon_variant,,ENST00000464693,;ADCK3,non_coding_transcript_exon_variant,,ENST00000479852,;ADCK3,non_coding_transcript_exon_variant,,ENST00000478406,;ADCK3,non_coding_transcript_exon_variant,,ENST00000485462,;	A	ENSG00000163050	ENST00000366779	Transcript	synonymous_variant	4037	1266	422	L	ctG/ctA	.	.	.	1	ADCK3	HGNC	16812	protein_coding	YES	CCDS1557.1	ENSP00000355741	ADCK3_HUMAN	Q5T7A2_HUMAN,A1L377_HUMAN	UPI0000126D6B	.	.	.	16/20	.	hmmpanther:PTHR10566,hmmpanther:PTHR10566:SF21,Pfam_domain:PF03109,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAAGGG	.	5	BLCA
ADCK3	0	.	GRCh37	1	227172624	227172624	+	Silent	SNP	C	C	T	rs747135135	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1554C>T	p.%3D	p.F518F	ENST00000366779	18/20	72	46	26	77	77	0	ADCK3,synonymous_variant,p.%3D,ENST00000433743,;ADCK3,synonymous_variant,p.%3D,ENST00000366779,;ADCK3,synonymous_variant,p.%3D,ENST00000458507,;ADCK3,synonymous_variant,p.%3D,ENST00000366778,;ADCK3,synonymous_variant,p.%3D,ENST00000366777,;CDC42BPA,downstream_gene_variant,,ENST00000366767,;CDC42BPA,downstream_gene_variant,,ENST00000366769,;CDC42BPA,downstream_gene_variant,,ENST00000366764,;CDC42BPA,downstream_gene_variant,,ENST00000334218,;CDC42BPA,downstream_gene_variant,,ENST00000448940,;CDC42BPA,downstream_gene_variant,,ENST00000366766,;ADCK3,non_coding_transcript_exon_variant,,ENST00000479852,;ADCK3,non_coding_transcript_exon_variant,,ENST00000478406,;ADCK3,non_coding_transcript_exon_variant,,ENST00000485462,;ADCK3,intron_variant,,ENST00000464693,;	T	ENSG00000163050	ENST00000366779	Transcript	synonymous_variant	4325	1554	518	F	ttC/ttT	rs747135135	.	.	1	ADCK3	HGNC	16812	protein_coding	YES	CCDS1557.1	ENSP00000355741	ADCK3_HUMAN	Q5T7A2_HUMAN,A1L377_HUMAN	UPI0000126D6B	.	.	.	18/20	.	hmmpanther:PTHR10566,hmmpanther:PTHR10566:SF21,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCACCGA	byFrequency	5	BLCA
CDC42BPA	0	.	GRCh37	1	227504824	227504824	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60G>A	p.%3D	p.Q20Q	ENST00000366769	1/36	53	38	14	66	66	0	CDC42BPA,synonymous_variant,p.%3D,ENST00000366769,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366765,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366764,;CDC42BPA,synonymous_variant,p.%3D,ENST00000334218,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366767,;CDC42BPA,synonymous_variant,p.%3D,ENST00000535525,;CDC42BPA,synonymous_variant,p.%3D,ENST00000366766,;CDC42BPA,upstream_gene_variant,,ENST00000478573,;	T	ENSG00000143776	ENST00000366769	Transcript	synonymous_variant	1352	60	20	Q	caG/caA	.	.	.	-1	CDC42BPA	HGNC	1737	protein_coding	YES	CCDS1558.1	ENSP00000355731	MRCKA_HUMAN	Q9NYF6_HUMAN	UPI000019097D	.	.	.	1/36	.	hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTGGTCTGAGC	.	3	BLCA
JMJD4	0	.	GRCh37	1	227922479	227922479	+	Missense_Mutation	SNP	C	C	T	rs148842395	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439G>A	p.Glu147Lys	p.E147K	ENST00000366758	2/6	45	28	17	45	45	0	JMJD4,missense_variant,p.Glu147Lys,ENST00000438896,;JMJD4,missense_variant,p.Glu147Lys,ENST00000366758,;SNAP47,intron_variant,,ENST00000366760,;SNAP47,upstream_gene_variant,,ENST00000366759,;SNAP47,upstream_gene_variant,,ENST00000315781,;SNAP47,upstream_gene_variant,,ENST00000418653,;SNAP47,upstream_gene_variant,,ENST00000426344,;JMJD4,non_coding_transcript_exon_variant,,ENST00000480590,;SNAP47,intron_variant,,ENST00000491439,;SNAP47,intron_variant,,ENST00000475930,;SNAP47,upstream_gene_variant,,ENST00000470038,;JMJD4,upstream_gene_variant,,ENST00000465251,;SNAP47,downstream_gene_variant,,ENST00000480265,;JMJD4,upstream_gene_variant,,ENST00000485807,;SNAP47,downstream_gene_variant,,ENST00000480897,;	T	ENSG00000081692	ENST00000366758	Transcript	missense_variant	439	439	147	E/K	Gaa/Aaa	rs148842395	.	.	-1	JMJD4	HGNC	25724	protein_coding	YES	CCDS1561.1	ENSP00000355720	JMJD4_HUMAN	.	UPI000013FE0C	.	tolerated(0.13)	possibly_damaging(0.566)	2/6	.	hmmpanther:PTHR12480:SF6,hmmpanther:PTHR12480,Gene3D:1vrbA01,Pfam_domain:PF13621,Superfamily_domains:SSF51197	T:0.0006	T:0.0023	T:0	.	T:0	T:0	T:0	T:0.0007	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTCCTGGA	byFrequency|byCluster|by1000G	5	BLCA
OBSCN	0	.	GRCh37	1	228547547	228547547	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21533-2730C>T	.	.	ENST00000570156	.	8	4	4	13	13	0	OBSCN,synonymous_variant,p.%3D,ENST00000366709,;OBSCN,synonymous_variant,p.%3D,ENST00000284548,;OBSCN,3_prime_UTR_variant,,ENST00000474237,;OBSCN,intron_variant,,ENST00000366707,;OBSCN,intron_variant,,ENST00000441106,;OBSCN,intron_variant,,ENST00000422127,;OBSCN,intron_variant,,ENST00000570156,;	T	ENSG00000154358	ENST00000570156	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	OBSCN	HGNC	15719	protein_coding	YES	CCDS59204.1	ENSP00000455507	.	H3BPX2_HUMAN	UPI00027FCDB5	.	.	.	.	90/115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGACTCTCGGG	.	2	BLCA
GALNT2	0	.	GRCh37	1	230379072	230379072	+	Missense_Mutation	SNP	C	C	T	rs139591495	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628C>T	p.Arg210Trp	p.R210W	ENST00000366672	7/16	58	41	16	82	82	0	GALNT2,missense_variant,p.Arg172Trp,ENST00000543760,;GALNT2,missense_variant,p.Arg210Trp,ENST00000366672,;GALNT2,missense_variant,p.Arg120Trp,ENST00000541865,;GALNT2,non_coding_transcript_exon_variant,,ENST00000494106,;	T	ENSG00000143641	ENST00000366672	Transcript	missense_variant	700	628	210	R/W	Cgg/Tgg	rs139591495	.	.	1	GALNT2	HGNC	4124	protein_coding	YES	CCDS1582.1	ENSP00000355632	GALT2_HUMAN	.	UPI0000074053	.	deleterious(0)	probably_damaging(0.959)	7/16	.	hmmpanther:PTHR11675:SF24,hmmpanther:PTHR11675,Gene3D:3.90.550.10,Pfam_domain:PF00535,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCGGGGG	.	5	BLCA
EXOC8	0	.	GRCh37	1	231473299	231473299	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193C>T	p.Gln65Ter	p.Q65*	ENST00000360394	1/1	40	31	8	87	87	0	EXOC8,stop_gained,p.Gln65Ter,ENST00000360394,;EXOC8,stop_gained,p.Gln61Ter,ENST00000366645,;SPRTN,5_prime_UTR_variant,,ENST00000391858,;SPRTN,upstream_gene_variant,,ENST00000008440,;SPRTN,upstream_gene_variant,,ENST00000366644,;SPRTN,upstream_gene_variant,,ENST00000295050,;SPRTN,upstream_gene_variant,,ENST00000492437,;	A	ENSG00000116903	ENST00000360394	Transcript	stop_gained	280	193	65	Q/*	Cag/Tag	.	.	.	-1	EXOC8	HGNC	24659	protein_coding	YES	CCDS1593.1	ENSP00000353564	EXOC8_HUMAN	.	UPI000006EA2C	.	.	.	1/1	.	hmmpanther:PTHR21426,Pfam_domain:PF08700	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTGGTAGA	.	5	BLCA
EXOC8	0	.	GRCh37	1	231473522	231473522	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000360394	1/1	32	19	13	29	29	0	EXOC8,5_prime_UTR_variant,,ENST00000360394,;EXOC8,5_prime_UTR_variant,,ENST00000366645,;SPRTN,5_prime_UTR_variant,,ENST00000391858,;SPRTN,upstream_gene_variant,,ENST00000008440,;SPRTN,upstream_gene_variant,,ENST00000366644,;SPRTN,upstream_gene_variant,,ENST00000295050,;SPRTN,upstream_gene_variant,,ENST00000492437,;	T	ENSG00000116903	ENST00000360394	Transcript	5_prime_UTR_variant	57	.	.	.	.	.	.	.	-1	EXOC8	HGNC	24659	protein_coding	YES	CCDS1593.1	ENSP00000353564	EXOC8_HUMAN	.	UPI000006EA2C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCACTATCG	.	5	BLCA
MAP10	0	.	GRCh37	1	232942456	232942456	+	Missense_Mutation	SNP	C	C	T	rs762959626	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1687C>T	p.Pro563Ser	p.P563S	ENST00000418460	1/1	54	39	14	62	62	0	MAP10,missense_variant,p.Pro563Ser,ENST00000418460,;	T	ENSG00000212916	ENST00000418460	Transcript	missense_variant	1814	1687	563	P/S	Cct/Tct	rs762959626	.	.	1	MAP10	HGNC	29265	protein_coding	YES	CCDS44334.1	ENSP00000403208	MAP10_HUMAN	.	UPI0000418F25	.	deleterious(0)	probably_damaging(1)	1/1	.	hmmpanther:PTHR21831,hmmpanther:PTHR21831:SF1,Pfam_domain:PF14925	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCCTCAC	.	5	BLCA
PCNXL2	0	.	GRCh37	1	233388522	233388522	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1847A>T	p.Gln616Leu	p.Q616L	ENST00000258229	6/34	28	17	11	46	46	0	PCNXL2,missense_variant,p.Gln616Leu,ENST00000258229,;PCNXL2,5_prime_UTR_variant,,ENST00000430153,;PCNXL2,missense_variant,p.Gln47Leu,ENST00000475463,;PCNXL2,upstream_gene_variant,,ENST00000324142,;	A	ENSG00000135749	ENST00000258229	Transcript	missense_variant	2082	1847	616	Q/L	cAg/cTg	.	.	.	-1	PCNXL2	HGNC	8736	protein_coding	YES	CCDS44335.1	ENSP00000258229	PCX2_HUMAN	B3KNZ5_HUMAN	UPI0000F58F23	.	tolerated(0.3)	benign(0)	6/34	.	hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCCTGGGAA	.	5	BLCA
PCNXL2	0	.	GRCh37	1	233397811	233397811	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460C>T	p.His154Tyr	p.H154Y	ENST00000258229	3/34	77	65	11	89	89	0	PCNXL2,missense_variant,p.His154Tyr,ENST00000258229,;PCNXL2,5_prime_UTR_variant,,ENST00000430153,;PCNXL2,upstream_gene_variant,,ENST00000475463,;	A	ENSG00000135749	ENST00000258229	Transcript	missense_variant	695	460	154	H/Y	Cat/Tat	COSM425610	.	.	-1	PCNXL2	HGNC	8736	protein_coding	YES	CCDS44335.1	ENSP00000258229	PCX2_HUMAN	B3KNZ5_HUMAN	UPI0000F58F23	.	tolerated(0.05)	benign(0.232)	3/34	.	hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF5	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATGAGAGG	.	5	BLCA
EDARADD	0	.	GRCh37	1	236557753	236557753	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9C>T	p.%3D	p.L3L	ENST00000334232	1/6	48	25	22	57	57	0	EDARADD,synonymous_variant,p.%3D,ENST00000334232,;EDARADD,intron_variant,,ENST00000439430,;EDARADD,upstream_gene_variant,,ENST00000359362,;	T	ENSG00000186197	ENST00000334232	Transcript	synonymous_variant	176	9	3	L	ctC/ctT	.	.	.	1	EDARADD	HGNC	14341	protein_coding	YES	CCDS1610.1	ENSP00000335076	EDAD_HUMAN	B1AL55_HUMAN	UPI0000456324	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCAGGAC	.	5	BLCA
C1orf213	0	.	GRCh37	1	23696095	23696120	+	Frame_Shift_Del	DEL	AGGCAGCTCAGAAACCACAGGCTCAT	AGGCAGCTCAGAAACCACAGGCTCAT	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	AGGCAGCTCAGAAACCACAGGCTCAT	AGGCAGCTCAGAAACCACAGGCTCAT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.311_336delCTCAGAAACCACAGGCTCATAGGCAG	p.Ala104AspfsTer3	p.A104Dfs*3	ENST00000335648	1/1	38	23	15	39	39	0	C1orf213,frameshift_variant,p.Ala104AspfsTer3,ENST00000335648,;C1orf213,intron_variant,,ENST00000518821,;C1orf213,intron_variant,,ENST00000454117,;C1orf213,intron_variant,,ENST00000437367,;C1orf213,upstream_gene_variant,,ENST00000518600,;ZNF436,upstream_gene_variant,,ENST00000314011,;ZNF436,upstream_gene_variant,,ENST00000374608,;Y_RNA,upstream_gene_variant,,ENST00000364535,;C1orf213,intron_variant,,ENST00000458053,;	-	ENSG00000249087	ENST00000335648	Transcript	frameshift_variant	367-392	305-330	102-110	QAAQKPQAH/X	cAGGCAGCTCAGAAACCACAGGCTCAT/c	.	.	.	1	C1orf213	HGNC	25122	protein_coding	YES	.	ENSP00000441287	CA213_HUMAN	.	UPI000013F6D0	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACTCGCAGGCAGCTCAGAAACCACAGGCTCATAGGCA	.	3	BLCA
C1orf213	0	.	GRCh37	1	23696194	23696194	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*23C>T	.	.	ENST00000335648	1/1	13	8	5	20	20	0	C1orf213,3_prime_UTR_variant,,ENST00000335648,;C1orf213,intron_variant,,ENST00000518821,;C1orf213,intron_variant,,ENST00000454117,;C1orf213,intron_variant,,ENST00000437367,;C1orf213,upstream_gene_variant,,ENST00000518600,;ZNF436,upstream_gene_variant,,ENST00000314011,;ZNF436,upstream_gene_variant,,ENST00000374608,;Y_RNA,upstream_gene_variant,,ENST00000364535,;C1orf213,intron_variant,,ENST00000458053,;	T	ENSG00000249087	ENST00000335648	Transcript	3_prime_UTR_variant	466	.	.	.	.	.	.	.	1	C1orf213	HGNC	25122	protein_coding	YES	.	ENSP00000441287	CA213_HUMAN	.	UPI000013F6D0	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTCGGAAC	.	2	BLCA
RPL11	0	.	GRCh37	1	24019102	24019102	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10G>A	p.Asp4Asn	p.D4N	ENST00000374550	2/6	47	27	19	69	69	0	RPL11,missense_variant,p.Asp2Asn,ENST00000443624,;RPL11,missense_variant,p.Asp2Asn,ENST00000458455,;RPL11,missense_variant,p.Asp4Asn,ENST00000374550,;RPL11,non_coding_transcript_exon_variant,,ENST00000467075,;RPL11,non_coding_transcript_exon_variant,,ENST00000482370,;	A	ENSG00000142676	ENST00000374550	Transcript	missense_variant	55	10	4	D/N	Gat/Aat	.	.	.	1	RPL11	HGNC	10301	protein_coding	YES	CCDS238.1	ENSP00000363676	RL11_HUMAN	Q5VVD0_HUMAN,Q5VVC9_HUMAN	UPI00000019F7	.	deleterious(0.04)	benign(0.063)	2/6	.	hmmpanther:PTHR11994,Gene3D:3.30.1440.10,PIRSF_domain:PIRSF002161	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGGATCAA	.	5	BLCA
PLCH2	0	.	GRCh37	1	2411637	2411637	+	Silent	SNP	G	G	A	rs769610458	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450G>A	p.%3D	p.T150T	ENST00000449969	4/22	72	48	24	114	114	0	PLCH2,synonymous_variant,p.%3D,ENST00000278878,;PLCH2,synonymous_variant,p.%3D,ENST00000419816,;PLCH2,synonymous_variant,p.%3D,ENST00000378486,;PLCH2,synonymous_variant,p.%3D,ENST00000449969,;PLCH2,synonymous_variant,p.%3D,ENST00000378488,;PLCH2,intron_variant,,ENST00000288766,;PLCH2,downstream_gene_variant,,ENST00000609981,;PLCH2,non_coding_transcript_exon_variant,,ENST00000343889,;	A	ENSG00000149527	ENST00000449969	Transcript	synonymous_variant	611	450	150	T	acG/acA	rs769610458,COSM3771668,COSM3771667	.	.	1	PLCH2	HGNC	29037	protein_coding	YES	.	ENSP00000397289	PLCH2_HUMAN	.	UPI00006C0134	.	.	.	4/22	.	Superfamily_domains:SSF47473,SMART_domains:SM00054,Gene3D:1.10.238.10,Pfam_domain:PF13499,hmmpanther:PTHR10336:SF21,hmmpanther:PTHR10336,PROSITE_profiles:PS50222	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGACGTTTGA	byFrequency	5	BLCA
FUCA1	0	.	GRCh37	1	24180870	24180870	+	Missense_Mutation	SNP	C	C	T	rs779512930	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949G>A	p.Glu317Lys	p.E317K	ENST00000374479	5/8	99	59	39	119	119	0	FUCA1,missense_variant,p.Glu317Lys,ENST00000374479,;	T	ENSG00000179163	ENST00000374479	Transcript	missense_variant	957	949	317	E/K	Gaa/Aaa	rs779512930	.	.	-1	FUCA1	HGNC	4006	protein_coding	YES	CCDS244.2	ENSP00000363603	FUCO_HUMAN	B5MDC5_HUMAN	UPI000013F479	.	tolerated(0.08)	benign(0.002)	5/8	.	Superfamily_domains:SSF51445,SMART_domains:SM00812,PIRSF_domain:PIRSF001092,Pfam_domain:PF01120,Gene3D:3.20.20.80,hmmpanther:PTHR10030:SF2,hmmpanther:PTHR10030	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTGTAA	byFrequency	5	BLCA
CEP170	0	.	GRCh37	1	243292697	243292697	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4378G>C	p.Glu1460Gln	p.E1460Q	ENST00000366542	18/20	15	11	4	23	23	0	CEP170,missense_variant,p.Glu1434Gln,ENST00000336415,;CEP170,missense_variant,p.Glu1362Gln,ENST00000366544,;CEP170,missense_variant,p.Glu1336Gln,ENST00000366543,;CEP170,missense_variant,p.Glu196Gln,ENST00000481987,;CEP170,missense_variant,p.Glu169Gln,ENST00000490813,;CEP170,missense_variant,p.Glu1460Gln,ENST00000366542,;CEP170,missense_variant,p.Glu169Gln,ENST00000464936,;CEP170,missense_variant,p.Glu252Gln,ENST00000413359,;CEP170,non_coding_transcript_exon_variant,,ENST00000468254,;CEP170,non_coding_transcript_exon_variant,,ENST00000476661,;CEP170,upstream_gene_variant,,ENST00000469646,;CEP170,upstream_gene_variant,,ENST00000466495,;CEP170,non_coding_transcript_exon_variant,,ENST00000439296,;	G	ENSG00000143702	ENST00000366542	Transcript	missense_variant	4430	4378	1460	E/Q	Gaa/Caa	.	.	.	-1	CEP170	HGNC	28920	protein_coding	YES	CCDS44339.1	ENSP00000355500	CE170_HUMAN	Q9NSN9_HUMAN,E5RJT5_HUMAN,E5RIH6_HUMAN,E5RFU8_HUMAN	UPI0000470238	.	deleterious(0)	probably_damaging(0.999)	18/20	.	hmmpanther:PTHR15715,hmmpanther:PTHR15715:SF17,Pfam_domain:PF15308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCGGCTC	.	5	BLCA
CEP170	0	.	GRCh37	1	243363979	243363979	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>A	p.Glu113Lys	p.E113K	ENST00000366542	6/20	16	10	6	22	22	0	CEP170,missense_variant,p.Glu15Lys,ENST00000336415,;CEP170,missense_variant,p.Glu113Lys,ENST00000366544,;CEP170,missense_variant,p.Glu113Lys,ENST00000522191,;CEP170,missense_variant,p.Glu113Lys,ENST00000366542,;CEP170,missense_variant,p.Glu113Lys,ENST00000366543,;CEP170,downstream_gene_variant,,ENST00000523424,;	T	ENSG00000143702	ENST00000366542	Transcript	missense_variant	389	337	113	E/K	Gag/Aag	.	.	.	-1	CEP170	HGNC	28920	protein_coding	YES	CCDS44339.1	ENSP00000355500	CE170_HUMAN	Q9NSN9_HUMAN,E5RJT5_HUMAN,E5RIH6_HUMAN,E5RFU8_HUMAN	UPI0000470238	.	deleterious(0)	probably_damaging(0.919)	6/20	.	hmmpanther:PTHR15715,hmmpanther:PTHR15715:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTTCTCATGCT	.	3	BLCA
SDCCAG8	0	.	GRCh37	1	243589772	243589772	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1897G>A	p.Asp633Asn	p.D633N	ENST00000366541	16/18	45	31	14	45	45	0	SDCCAG8,missense_variant,p.Asp590Asn,ENST00000355875,;SDCCAG8,missense_variant,p.Asp488Asn,ENST00000343783,;SDCCAG8,missense_variant,p.Asp334Asn,ENST00000435549,;SDCCAG8,missense_variant,p.Asp633Asn,ENST00000366541,;SDCCAG8,non_coding_transcript_exon_variant,,ENST00000463042,;	A	ENSG00000054282	ENST00000366541	Transcript	missense_variant	2015	1897	633	D/N	Gat/Aat	.	.	.	1	SDCCAG8	HGNC	10671	protein_coding	YES	CCDS31075.1	ENSP00000355499	SDCG8_HUMAN	A6NCS9_HUMAN	UPI000000D77E	.	tolerated(0.23)	benign(0.009)	16/18	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATATGATAAA	.	5	BLCA
MYOM3	0	.	GRCh37	1	24411023	24411023	+	Missense_Mutation	SNP	G	G	C	rs756110070	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1905C>G	p.Ile635Met	p.I635M	ENST00000374434	16/37	119	81	38	158	158	0	MYOM3,missense_variant,p.Ile635Met,ENST00000374434,;MYOM3,missense_variant,p.Ile635Met,ENST00000329601,;MYOM3,missense_variant,p.Ile636Met,ENST00000330966,;RP11-293P20.2,intron_variant,,ENST00000439239,;RP11-293P20.4,downstream_gene_variant,,ENST00000429191,;MYOM3,non_coding_transcript_exon_variant,,ENST00000475306,;MYOM3,upstream_gene_variant,,ENST00000448831,;	C	ENSG00000142661	ENST00000374434	Transcript	missense_variant	2068	1905	635	I/M	atC/atG	rs756110070	.	.	-1	MYOM3	HGNC	26679	protein_coding	YES	CCDS41281.1	ENSP00000363557	MYOM3_HUMAN	.	UPI0000203A5D	.	deleterious(0)	possibly_damaging(0.857)	16/37	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Pfam_domain:PF00041,Gene3D:2.60.40.10,hmmpanther:PTHR19900:SF35,hmmpanther:PTHR19900,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTAGATGTA	.	5	BLCA
HNRNPU	0	.	GRCh37	1	245027271	245027271	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339G>A	p.%3D	p.A113A	ENST00000283179	1/14	14	11	3	24	24	0	HNRNPU,synonymous_variant,p.%3D,ENST00000283179,;HNRNPU,synonymous_variant,p.%3D,ENST00000444376,;HNRNPU,upstream_gene_variant,,ENST00000440865,;RP11-11N7.4,upstream_gene_variant,,ENST00000610145,;HNRNPU,non_coding_transcript_exon_variant,,ENST00000476241,;HNRNPU,upstream_gene_variant,,ENST00000465881,;HNRNPU,upstream_gene_variant,,ENST00000483966,;HNRNPU,upstream_gene_variant,,ENST00000366525,;	T	ENSG00000153187	ENST00000283179	Transcript	synonymous_variant	503	339	113	A	gcG/gcA	.	.	.	-1	HNRNPU	HGNC	5048	protein_coding	YES	CCDS41479.1	ENSP00000283179	HNRPU_HUMAN	Q9UEL2_HUMAN,Q96BA7_HUMAN,Q7Z4Q5_HUMAN	UPI000040E1C8	.	.	.	1/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12381:SF11,hmmpanther:PTHR12381	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCCGCGGC	.	2	BLCA
PANK4	0	.	GRCh37	1	2452623	2452623	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339C>T	p.%3D	p.V113V	ENST00000378466	3/19	88	52	36	115	115	0	PANK4,synonymous_variant,p.%3D,ENST00000435556,;PANK4,synonymous_variant,p.%3D,ENST00000378466,;PANK4,downstream_gene_variant,,ENST00000491212,;PANK4,3_prime_UTR_variant,,ENST00000486396,;PANK4,3_prime_UTR_variant,,ENST00000502770,;PANK4,upstream_gene_variant,,ENST00000505228,;PANK4,downstream_gene_variant,,ENST00000514922,;PANK4,upstream_gene_variant,,ENST00000468002,;	A	ENSG00000157881	ENST00000378466	Transcript	synonymous_variant	352	339	113	V	gtC/gtT	.	.	.	-1	PANK4	HGNC	19366	protein_coding	YES	CCDS42.1	ENSP00000367727	PANK4_HUMAN	.	UPI000000DA54	.	.	.	3/19	.	hmmpanther:PTHR12280,Pfam_domain:PF03630,TIGRFAM_domain:TIGR00555,PIRSF_domain:PIRSF036939,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTGACGAG	.	5	BLCA
SCCPDH	0	.	GRCh37	1	246899316	246899316	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.343G>A	p.Glu115Lys	p.E115K	ENST00000366510	3/12	57	39	18	69	69	0	SCCPDH,missense_variant,p.Glu115Lys,ENST00000366510,;	A	ENSG00000143653	ENST00000366510	Transcript	missense_variant	719	343	115	E/K	Gaa/Aaa	.	.	.	1	SCCPDH	HGNC	24275	protein_coding	YES	CCDS31084.1	ENSP00000355467	SCPDL_HUMAN	.	UPI00000350AB	.	deleterious(0.03)	possibly_damaging(0.465)	3/12	.	hmmpanther:PTHR12286,hmmpanther:PTHR12286:SF4,Gene3D:3.40.50.720,Pfam_domain:PF03435,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTGAAAAT	.	5	BLCA
SCCPDH	0	.	GRCh37	1	246899355	246899355	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382C>T	p.Gln128Ter	p.Q128*	ENST00000366510	3/12	42	27	15	59	59	0	SCCPDH,stop_gained,p.Gln128Ter,ENST00000366510,;	T	ENSG00000143653	ENST00000366510	Transcript	stop_gained	758	382	128	Q/*	Cag/Tag	.	.	.	1	SCCPDH	HGNC	24275	protein_coding	YES	CCDS31084.1	ENSP00000355467	SCPDL_HUMAN	.	UPI00000350AB	.	.	.	3/12	.	hmmpanther:PTHR12286,hmmpanther:PTHR12286:SF4,Gene3D:3.40.50.720,Pfam_domain:PF03435,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACCTCAGGTA	.	3	BLCA
AHCTF1	0	.	GRCh37	1	247048857	247048857	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2625G>A	p.Met875Ile	p.M875I	ENST00000326225	21/36	32	21	10	64	64	0	AHCTF1,missense_variant,p.Met866Ile,ENST00000391829,;AHCTF1,missense_variant,p.Met901Ile,ENST00000366508,;AHCTF1,missense_variant,p.Met875Ile,ENST00000326225,;AHCTF1,non_coding_transcript_exon_variant,,ENST00000470300,;	T	ENSG00000153207	ENST00000326225	Transcript	missense_variant	2722	2625	875	M/I	atG/atA	.	.	.	-1	AHCTF1	HGNC	24618	protein_coding	YES	CCDS1629.2	ENSP00000355465	ELYS_HUMAN	C9J5C5_HUMAN	UPI0000204034	.	deleterious(0.01)	possibly_damaging(0.692)	21/36	.	hmmpanther:PTHR21583,Pfam_domain:PF13934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCATTGT	.	5	BLCA
OR2T6	0	.	GRCh37	1	248551095	248551095	+	Silent	SNP	C	C	T	rs751517612	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>T	p.%3D	p.L62L	ENST00000355728	1/1	60	40	19	65	65	0	OR2T6,synonymous_variant,p.%3D,ENST00000355728,;	T	ENSG00000198104	ENST00000355728	Transcript	synonymous_variant	186	186	62	L	ctC/ctT	rs751517612,COSM3487163	.	.	1	OR2T6	HGNC	15018	protein_coding	YES	CCDS31114.1	ENSP00000347965	OR2T6_HUMAN	.	UPI0000199147	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF57,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCCTCAG	byFrequency	5	BLCA
TMEM57	0	.	GRCh37	1	25780779	25780779	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379C>T	p.Leu127Phe	p.L127F	ENST00000374343	4/11	50	32	18	71	71	0	TMEM57,missense_variant,p.Leu127Phe,ENST00000399766,;TMEM57,missense_variant,p.Leu127Phe,ENST00000374343,;TMEM57,intron_variant,,ENST00000399763,;TMEM57,non_coding_transcript_exon_variant,,ENST00000470035,;	T	ENSG00000204178	ENST00000374343	Transcript	missense_variant	558	379	127	L/F	Ctc/Ttc	.	.	.	1	TMEM57	HGNC	25572	protein_coding	YES	CCDS30638.1	ENSP00000363463	MACOI_HUMAN	Q9H5V1_HUMAN	UPI000004A074	.	deleterious(0)	probably_damaging(0.995)	4/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13289:SF4,hmmpanther:PTHR13289,Pfam_domain:PF09726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTCTGG	.	5	BLCA
TMEM57	0	.	GRCh37	1	25810722	25810722	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1270G>A	p.Glu424Lys	p.E424K	ENST00000374343	7/11	54	39	15	62	62	0	TMEM57,missense_variant,p.Glu66Lys,ENST00000399763,;TMEM57,missense_variant,p.Glu197Lys,ENST00000399766,;TMEM57,missense_variant,p.Glu424Lys,ENST00000374343,;	A	ENSG00000204178	ENST00000374343	Transcript	missense_variant	1449	1270	424	E/K	Gaa/Aaa	.	.	.	1	TMEM57	HGNC	25572	protein_coding	YES	CCDS30638.1	ENSP00000363463	MACOI_HUMAN	Q9H5V1_HUMAN	UPI000004A074	.	tolerated(0.06)	probably_damaging(0.997)	7/11	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13289:SF4,hmmpanther:PTHR13289,Pfam_domain:PF09726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCAGAAATG	.	5	BLCA
LDLRAP1	0	.	GRCh37	1	25889141	25889141	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466G>A	p.Ala156Thr	p.A156T	ENST00000374338	5/9	38	24	14	51	51	0	LDLRAP1,missense_variant,p.Ala156Thr,ENST00000374338,;LDLRAP1,non_coding_transcript_exon_variant,,ENST00000488127,;LDLRAP1,upstream_gene_variant,,ENST00000484476,;LDLRAP1,upstream_gene_variant,,ENST00000474283,;LDLRAP1,upstream_gene_variant,,ENST00000470950,;	A	ENSG00000157978	ENST00000374338	Transcript	missense_variant	585	466	156	A/T	Gct/Act	.	.	.	1	LDLRAP1	HGNC	18640	protein_coding	YES	CCDS30639.1	ENSP00000363458	ARH_HUMAN	.	UPI0000470235	.	tolerated(0.06)	benign(0.297)	5/9	.	PROSITE_profiles:PS01179,hmmpanther:PTHR11232:SF35,hmmpanther:PTHR11232,Gene3D:2.30.29.30,Pfam_domain:PF00640,SMART_domains:SM00462,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAGGCTGTT	.	5	BLCA
PAQR7	0	.	GRCh37	1	26190052	26190052	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.279G>A	p.%3D	p.V93V	ENST00000374296	2/2	40	33	7	53	53	0	PAQR7,synonymous_variant,p.%3D,ENST00000374296,;AUNIP,upstream_gene_variant,,ENST00000538789,;AUNIP,upstream_gene_variant,,ENST00000374298,;RP1-125I3.2,downstream_gene_variant,,ENST00000455431,;	T	ENSG00000182749	ENST00000374296	Transcript	synonymous_variant	946	279	93	V	gtG/gtA	.	.	.	-1	PAQR7	HGNC	23146	protein_coding	YES	CCDS267.1	ENSP00000363414	MPRA_HUMAN	.	UPI000000D789	.	.	.	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20855:SF41,hmmpanther:PTHR20855,Pfam_domain:PF03006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTCCACAAA	.	4	BLCA
SLC30A2	0	.	GRCh37	1	26366346	26366346	+	Missense_Mutation	SNP	C	C	T	rs151175941	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895G>A	p.Gly299Arg	p.G299R	ENST00000374276	7/8	24	20	4	27	27	0	SLC30A2,missense_variant,p.Gly250Arg,ENST00000374278,;SLC30A2,missense_variant,p.Gly299Arg,ENST00000374276,;EXTL1,downstream_gene_variant,,ENST00000374280,;EXTL1,downstream_gene_variant,,ENST00000470037,;SLC30A2,downstream_gene_variant,,ENST00000498060,;	T	ENSG00000158014	ENST00000374276	Transcript	missense_variant	1132	895	299	G/R	Ggg/Agg	rs151175941	.	.	-1	SLC30A2	HGNC	11013	protein_coding	YES	CCDS30644.1	ENSP00000363394	ZNT2_HUMAN	.	UPI0000049F98	.	deleterious(0)	probably_damaging(1)	7/8	.	hmmpanther:PTHR11562,hmmpanther:PTHR11562:SF30,Pfam_domain:PF01545,TIGRFAM_domain:TIGR01297,Superfamily_domains:SSF160240	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCCCCTCCA	byCluster	2	BLCA
ARID1A	0	.	GRCh37	1	27059213	27059213	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1850C>G	p.Ser617Ter	p.S617*	ENST00000324856	4/20	80	66	14	86	86	0	ARID1A,stop_gained,p.Ser617Ter,ENST00000457599,;ARID1A,stop_gained,p.Ser234Ter,ENST00000374152,;ARID1A,stop_gained,p.Ser617Ter,ENST00000324856,;ARID1A,downstream_gene_variant,,ENST00000524572,;	G	ENSG00000117713	ENST00000324856	Transcript	stop_gained	2221	1850	617	S/*	tCa/tGa	COSM254548	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	.	4/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12656,hmmpanther:PTHR12656:SF12	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S617*|c.1850C>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAATGA	.	5	BLCA
ARID1A	0	.	GRCh37	1	27092946	27092946	+	Splice_Site	SNP	A	A	G	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2879-2A>G	.	p.X960_splice	ENST00000324856	.	34	21	13	43	43	0	ARID1A,splice_acceptor_variant,,ENST00000457599,;ARID1A,splice_acceptor_variant,,ENST00000374152,;ARID1A,splice_acceptor_variant,,ENST00000324856,;ARID1A,upstream_gene_variant,,ENST00000430799,;RN7SL501P,downstream_gene_variant,,ENST00000578818,;ARID1A,non_coding_transcript_exon_variant,,ENST00000430291,;	G	ENSG00000117713	ENST00000324856	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM3746178	.	.	1	ARID1A	HGNC	11110	protein_coding	YES	CCDS285.1	ENSP00000320485	ARI1A_HUMAN	Q96T01_HUMAN,Q96SY8_HUMAN,Q96SM7_HUMAN,E9PQW6_HUMAN,C1KEN7_HUMAN,A4FU79_HUMAN	UPI0000167B91	.	.	.	.	9/19	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTACAGGGAT	.	5	BLCA
WASF2	0	.	GRCh37	1	27744911	27744911	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.278G>A	p.Gly93Glu	p.G93E	ENST00000430629	4/9	43	33	10	65	65	0	WASF2,missense_variant,p.Gly93Glu,ENST00000430629,;WASF2,missense_variant,p.Gly93Glu,ENST00000536657,;	T	ENSG00000158195	ENST00000430629	Transcript	missense_variant	494	278	93	G/E	gGa/gAa	.	.	.	-1	WASF2	HGNC	12733	protein_coding	YES	CCDS304.1	ENSP00000396211	WASF2_HUMAN	Q8NBU0_HUMAN,B4E3J5_HUMAN	UPI0000000D74	.	deleterious(0.02)	unknown(0)	4/9	.	hmmpanther:PTHR12902:SF6,hmmpanther:PTHR12902	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTCCTTGC	.	5	BLCA
ACTRT2	0	.	GRCh37	1	2938393	2938393	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.143C>T	p.Ser48Leu	p.S48L	ENST00000378404	1/1	42	29	13	58	58	0	ACTRT2,missense_variant,p.Ser48Leu,ENST00000378404,;	T	ENSG00000169717	ENST00000378404	Transcript	missense_variant	348	143	48	S/L	tCa/tTa	.	.	.	1	ACTRT2	HGNC	24026	protein_coding	YES	CCDS45.1	ENSP00000367658	ACTT2_HUMAN	.	UPI0000070494	.	tolerated(0.26)	benign(0.006)	1/1	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF38,Pfam_domain:PF00022,Gene3D:3.30.420.40,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCAGCAG	.	5	BLCA
ACTRT2	0	.	GRCh37	1	2939033	2939033	+	Missense_Mutation	SNP	G	G	T	rs768988367	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783G>T	p.Glu261Asp	p.E261D	ENST00000378404	1/1	69	46	23	94	94	0	ACTRT2,missense_variant,p.Glu261Asp,ENST00000378404,;	T	ENSG00000169717	ENST00000378404	Transcript	missense_variant	988	783	261	E/D	gaG/gaT	rs768988367	.	.	1	ACTRT2	HGNC	24026	protein_coding	YES	CCDS45.1	ENSP00000367658	ACTT2_HUMAN	.	UPI0000070494	.	deleterious(0)	probably_damaging(0.99)	1/1	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF38,Pfam_domain:PF00022,Gene3D:3.30.420.40,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F264F|c.792C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGAGGCCCT	.	5	BLCA
MECR	0	.	GRCh37	1	29529742	29529743	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553dupG	p.Asp185GlyfsTer36	p.D185Gfs*36	ENST00000263702	5/10	36	23	13	25	25	0	MECR,frameshift_variant,p.Asp109GlyfsTer36,ENST00000373791,;MECR,frameshift_variant,p.Asp185GlyfsTer36,ENST00000263702,;MECR,non_coding_transcript_exon_variant,,ENST00000478505,;MECR,non_coding_transcript_exon_variant,,ENST00000475861,;MECR,non_coding_transcript_exon_variant,,ENST00000453185,;MECR,non_coding_transcript_exon_variant,,ENST00000489248,;MECR,intron_variant,,ENST00000473030,;MECR,intron_variant,,ENST00000490529,;MECR,intron_variant,,ENST00000463052,;MECR,upstream_gene_variant,,ENST00000464511,;MECR,upstream_gene_variant,,ENST00000483435,;MECR,downstream_gene_variant,,ENST00000474946,;MECR,upstream_gene_variant,,ENST00000475773,;MECR,frameshift_variant,p.Asp58GlyfsTer36,ENST00000463412,;	C	ENSG00000116353	ENST00000263702	Transcript	frameshift_variant	579-580	553-554	185	D/GX	gat/gGat	.	.	.	-1	MECR	HGNC	19691	protein_coding	YES	CCDS30659.1	ENSP00000263702	MECR_HUMAN	.	UPI000013D444	.	.	.	5/10	.	hmmpanther:PTHR11695:SF15,hmmpanther:PTHR11695,Gene3D:3.40.50.720,SMART_domains:SM00829,Superfamily_domains:SSF50129,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGAATCCCCT	.	3	BLCA
PUM1	0	.	GRCh37	1	31454171	31454171	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1240C>T	p.Gln414Ter	p.Q414*	ENST00000426105	8/22	74	55	19	82	82	0	PUM1,stop_gained,p.Gln414Ter,ENST00000426105,;PUM1,stop_gained,p.Gln172Ter,ENST00000424085,;PUM1,stop_gained,p.Gln318Ter,ENST00000423018,;PUM1,stop_gained,p.Gln414Ter,ENST00000257075,;PUM1,stop_gained,p.Gln431Ter,ENST00000525843,;PUM1,stop_gained,p.Gln414Ter,ENST00000373747,;PUM1,stop_gained,p.Gln354Ter,ENST00000373742,;PUM1,stop_gained,p.Gln414Ter,ENST00000440538,;PUM1,stop_gained,p.Gln136Ter,ENST00000532678,;PUM1,stop_gained,p.Gln450Ter,ENST00000373741,;PUM1,stop_gained,p.Gln121Ter,ENST00000498419,;PUM1,non_coding_transcript_exon_variant,,ENST00000526128,;PUM1,upstream_gene_variant,,ENST00000490546,;PUM1,downstream_gene_variant,,ENST00000526215,;	A	ENSG00000134644	ENST00000426105	Transcript	stop_gained	1331	1240	414	Q/*	Cag/Tag	.	.	.	-1	PUM1	HGNC	14957	protein_coding	YES	CCDS44099.1	ENSP00000391723	PUM1_HUMAN	E9PL65_HUMAN	UPI0000203D8E	.	.	.	8/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12537,hmmpanther:PTHR12537:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTGATGAG	.	5	BLCA
ZCCHC17	0	.	GRCh37	1	31821806	31821806	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549T>C	p.%3D	p.S183S	ENST00000373714	7/8	67	44	23	77	77	0	ZCCHC17,synonymous_variant,p.%3D,ENST00000344147,;ZCCHC17,synonymous_variant,p.%3D,ENST00000422613,;ZCCHC17,synonymous_variant,p.%3D,ENST00000546109,;ZCCHC17,synonymous_variant,p.%3D,ENST00000373714,;RP11-266K22.2,upstream_gene_variant,,ENST00000430143,;ZCCHC17,non_coding_transcript_exon_variant,,ENST00000479629,;	C	ENSG00000121766	ENST00000373714	Transcript	synonymous_variant	810	549	183	S	tcT/tcC	.	.	.	1	ZCCHC17	HGNC	30246	protein_coding	YES	CCDS341.1	ENSP00000362819	NO40_HUMAN	.	UPI000006D544	.	.	.	7/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15838:SF1,hmmpanther:PTHR15838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTCTAGAAA	.	5	BLCA
TMEM39B	0	.	GRCh37	1	32568299	32568299	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*25C>T	.	.	ENST00000336294	9/9	16	13	3	26	26	0	TMEM39B,3_prime_UTR_variant,,ENST00000373634,;TMEM39B,3_prime_UTR_variant,,ENST00000336294,;TMEM39B,downstream_gene_variant,,ENST00000456834,;TMEM39B,downstream_gene_variant,,ENST00000427288,;TMEM39B,non_coding_transcript_exon_variant,,ENST00000468135,;TMEM39B,non_coding_transcript_exon_variant,,ENST00000476968,;TMEM39B,non_coding_transcript_exon_variant,,ENST00000487305,;TMEM39B,3_prime_UTR_variant,,ENST00000441402,;	T	ENSG00000121775	ENST00000336294	Transcript	3_prime_UTR_variant	1650	.	.	.	.	.	.	.	1	TMEM39B	HGNC	25510	protein_coding	YES	CCDS351.2	ENSP00000338165	TM39B_HUMAN	Q9NW51_HUMAN,Q9BT39_HUMAN,B4DQE6_HUMAN	UPI0000037B9F	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACAGCGTCCA	.	3	BLCA
DCDC2B	0	.	GRCh37	1	32674721	32674721	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.27G>A	p.%3D	p.K9K	ENST00000409358	1/9	26	17	8	50	50	0	DCDC2B,synonymous_variant,p.%3D,ENST00000409358,;CCDC28B,downstream_gene_variant,,ENST00000373602,;IQCC,downstream_gene_variant,,ENST00000291358,;IQCC,downstream_gene_variant,,ENST00000537469,;CCDC28B,downstream_gene_variant,,ENST00000421922,;RP4-622L5.7,upstream_gene_variant,,ENST00000373604,;RP4-622L5.7,upstream_gene_variant,,ENST00000421616,;CCDC28B,downstream_gene_variant,,ENST00000483009,;DCDC2B,non_coding_transcript_exon_variant,,ENST00000487056,;CCDC28B,downstream_gene_variant,,ENST00000461819,;	A	ENSG00000222046	ENST00000409358	Transcript	synonymous_variant	27	27	9	K	aaG/aaA	.	.	.	1	DCDC2B	HGNC	32576	protein_coding	YES	CCDS44100.1	ENSP00000386870	DCD2B_HUMAN	.	UPI0000DD78AB	.	.	.	1/9	.	PROSITE_profiles:PS50309,hmmpanther:PTHR23004:SF6,hmmpanther:PTHR23004,Gene3D:1mfwA00,SMART_domains:SM00537,Superfamily_domains:SSF89837	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGAGGGT	.	5	BLCA
RBBP4	0	.	GRCh37	1	33134379	33134379	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.524G>A	p.Gly175Glu	p.G175E	ENST00000373493	5/12	34	20	13	62	62	0	RBBP4,missense_variant,p.Gly175Glu,ENST00000373485,;RBBP4,missense_variant,p.Gly174Glu,ENST00000414241,;RBBP4,missense_variant,p.Gly175Glu,ENST00000373493,;RBBP4,missense_variant,p.Gly140Glu,ENST00000458695,;RBBP4,5_prime_UTR_variant,,ENST00000544435,;RBBP4,intron_variant,,ENST00000475321,;RBBP4,upstream_gene_variant,,ENST00000482190,;RBBP4,downstream_gene_variant,,ENST00000445722,;RBBP4,upstream_gene_variant,,ENST00000463378,;RBBP4,non_coding_transcript_exon_variant,,ENST00000524393,;RBBP4,stop_gained,p.Trp68Ter,ENST00000526193,;RBBP4,stop_gained,p.Trp68Ter,ENST00000492348,;RBBP4,3_prime_UTR_variant,,ENST00000527118,;RBBP4,non_coding_transcript_exon_variant,,ENST00000531983,;RBBP4,downstream_gene_variant,,ENST00000401893,;RBBP4,downstream_gene_variant,,ENST00000477563,;RBBP4,upstream_gene_variant,,ENST00000460669,;	A	ENSG00000162521	ENST00000373493	Transcript	missense_variant	683	524	175	G/E	gGa/gAa	.	.	.	1	RBBP4	HGNC	9887	protein_coding	YES	CCDS366.1	ENSP00000362592	RBBP4_HUMAN	H0YCT5_HUMAN,E9PND5_HUMAN,C9JPP3_HUMAN,B4DRT0_HUMAN	UPI000013318C	.	deleterious(0)	probably_damaging(0.976)	5/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR22850,hmmpanther:PTHR22850:SF90,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGTGGACATC	.	5	BLCA
KIAA1522	0	.	GRCh37	1	33236931	33236931	+	Silent	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2151G>T	p.%3D	p.L717L	ENST00000401073	6/7	23	17	6	26	26	0	KIAA1522,synonymous_variant,p.%3D,ENST00000373481,;KIAA1522,synonymous_variant,p.%3D,ENST00000373480,;KIAA1522,synonymous_variant,p.%3D,ENST00000401073,;KIAA1522,intron_variant,,ENST00000294521,;YARS,downstream_gene_variant,,ENST00000373477,;YARS,downstream_gene_variant,,ENST00000487404,;YARS,downstream_gene_variant,,ENST00000469100,;YARS,downstream_gene_variant,,ENST00000490826,;YARS,downstream_gene_variant,,ENST00000478828,;KIAA1522,downstream_gene_variant,,ENST00000468130,;	T	ENSG00000162522	ENST00000401073	Transcript	synonymous_variant	2221	2151	717	L	ctG/ctT	.	.	.	1	KIAA1522	HGNC	29301	protein_coding	YES	CCDS41298.1	ENSP00000383851	K1522_HUMAN	.	UPI000022ACD0	.	.	.	6/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23039,hmmpanther:PTHR23039:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTGCAGGA	.	5	BLCA
KIAA1522	0	.	GRCh37	1	33237295	33237295	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2515C>T	p.Pro839Ser	p.P839S	ENST00000401073	6/7	22	16	6	27	27	0	KIAA1522,missense_variant,p.Pro791Ser,ENST00000373481,;KIAA1522,missense_variant,p.Pro780Ser,ENST00000373480,;KIAA1522,missense_variant,p.Pro839Ser,ENST00000401073,;KIAA1522,intron_variant,,ENST00000294521,;YARS,downstream_gene_variant,,ENST00000373477,;YARS,downstream_gene_variant,,ENST00000487404,;YARS,downstream_gene_variant,,ENST00000469100,;YARS,downstream_gene_variant,,ENST00000490826,;YARS,downstream_gene_variant,,ENST00000478828,;KIAA1522,downstream_gene_variant,,ENST00000468130,;	T	ENSG00000162522	ENST00000401073	Transcript	missense_variant	2585	2515	839	P/S	Ccg/Tcg	.	.	.	1	KIAA1522	HGNC	29301	protein_coding	YES	CCDS41298.1	ENSP00000383851	K1522_HUMAN	.	UPI000022ACD0	.	tolerated(0.05)	probably_damaging(0.983)	6/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23039,hmmpanther:PTHR23039:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCGCCA	.	5	BLCA
ZSCAN20	0	.	GRCh37	1	33944828	33944828	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-62G>A	.	.	ENST00000361328	2/8	50	47	3	44	44	0	ZSCAN20,5_prime_UTR_variant,,ENST00000373413,;ZSCAN20,5_prime_UTR_variant,,ENST00000361328,;ZSCAN20,non_coding_transcript_exon_variant,,ENST00000480917,;	A	ENSG00000121903	ENST00000361328	Transcript	5_prime_UTR_variant	92	.	.	.	.	.	.	.	1	ZSCAN20	HGNC	13093	protein_coding	YES	CCDS41300.1	ENSP00000355053	ZSC20_HUMAN	.	UPI0000D61EC5	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCACCGTAGAT	.	2	BLCA
ZSCAN20	0	.	GRCh37	1	33959931	33959931	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1987T>A	p.Trp663Arg	p.W663R	ENST00000361328	8/8	46	32	14	65	65	0	ZSCAN20,missense_variant,p.Trp663Arg,ENST00000361328,;ZSCAN20,downstream_gene_variant,,ENST00000373413,;	A	ENSG00000121903	ENST00000361328	Transcript	missense_variant	2140	1987	663	W/R	Tgg/Agg	.	.	.	1	ZSCAN20	HGNC	13093	protein_coding	YES	CCDS41300.1	ENSP00000355053	ZSC20_HUMAN	.	UPI0000D61EC5	.	tolerated(0.25)	possibly_damaging(0.58)	8/8	.	hmmpanther:PTHR24387:SF198,hmmpanther:PTHR24387	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGACTGGGGA	.	5	BLCA
CSMD2	0	.	GRCh37	1	34180246	34180246	+	Missense_Mutation	SNP	C	C	T	rs774023508	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3227G>A	p.Arg1076His	p.R1076H	ENST00000241312	21/70	147	102	44	179	179	0	CSMD2,missense_variant,p.Arg1116His,ENST00000373381,;CSMD2,missense_variant,p.Arg1076His,ENST00000241312,;	T	ENSG00000121904	ENST00000241312	Transcript	missense_variant	3256	3227	1076	R/H	cGc/cAc	rs774023508	.	.	-1	CSMD2	HGNC	19290	nonsense_mediated_decay	YES	CCDS380.1	ENSP00000241312	CSMD2_HUMAN	.	UPI00004561AB	.	deleterious(0.02)	benign(0.035)	21/70	.	Superfamily_domains:SSF57535,SMART_domains:SM00032,Gene3D:2.10.70.10,Pfam_domain:PF00084,PROSITE_profiles:PS50923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGCGGGCG	byFrequency	5	BLCA
MEGF6	0	.	GRCh37	1	3421823	3421823	+	Missense_Mutation	SNP	C	C	T	rs377315812	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2137G>A	p.Glu713Lys	p.E713K	ENST00000356575	17/37	31	22	9	38	38	0	MEGF6,missense_variant,p.Glu713Lys,ENST00000356575,;MEGF6,missense_variant,p.Glu608Lys,ENST00000294599,;MEGF6,missense_variant,p.Glu720Lys,ENST00000485002,;	T	ENSG00000162591	ENST00000356575	Transcript	missense_variant	2364	2137	713	E/K	Gag/Aag	rs377315812	.	.	-1	MEGF6	HGNC	3232	protein_coding	YES	CCDS41237.1	ENSP00000348982	MEGF6_HUMAN	.	UPI0000DACACB	.	tolerated(0.22)	benign(0.019)	17/37	.	hmmpanther:PTHR24035:SF29,hmmpanther:PTHR24035,Gene3D:2gy5A03,SMART_domains:SM00181,SMART_domains:SM00180	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACACTCGCCGC	byFrequency|byCluster	2	BLCA
ZMYM6	0	.	GRCh37	1	35496358	35496358	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-74-44G>A	.	.	ENST00000357182	.	11	6	5	20	20	0	ZMYM6,intron_variant,,ENST00000357182,;ZMYM6,intron_variant,,ENST00000415531,;ZMYM6,intron_variant,,ENST00000373333,;ZMYM6,intron_variant,,ENST00000373340,;ZMYM6,intron_variant,,ENST00000317538,;ZMYM6,splice_acceptor_variant,,ENST00000493328,;ZMYM6,intron_variant,,ENST00000460607,;ZMYM6,intron_variant,,ENST00000471566,;RP11-244H3.4,intron_variant,,ENST00000487874,;	T	ENSG00000163867	ENST00000357182	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ZMYM6	HGNC	13050	protein_coding	YES	CCDS387.2	ENSP00000349708	ZMYM6_HUMAN	Q7L9K1_HUMAN,A4Z946_HUMAN	UPI000040EBC6	.	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	CTTATCTATAT	.	2	BLCA
ZMYM1	0	.	GRCh37	1	35563089	35563089	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.341C>T	p.Ser114Phe	p.S114F	ENST00000373330	5/11	118	90	28	127	126	0	ZMYM1,missense_variant,p.Ser114Phe,ENST00000417119,;ZMYM1,missense_variant,p.Ser114Phe,ENST00000373330,;ZMYM1,missense_variant,p.Ser114Phe,ENST00000359858,;ZMYM1,non_coding_transcript_exon_variant,,ENST00000373329,;ZMYM1,non_coding_transcript_exon_variant,,ENST00000475654,;ZMYM1,non_coding_transcript_exon_variant,,ENST00000488455,;ZMYM1,non_coding_transcript_exon_variant,,ENST00000466390,;ZMYM1,downstream_gene_variant,,ENST00000476269,;	T	ENSG00000197056	ENST00000373330	Transcript	missense_variant	515	341	114	S/F	tCc/tTc	.	.	.	1	ZMYM1	HGNC	26253	protein_coding	YES	CCDS41302.1	ENSP00000362427	ZMYM1_HUMAN	Q9H5R2_HUMAN,Q5SW02_HUMAN,Q5SVZ7_HUMAN	UPI0000203ED6	.	deleterious_low_confidence(0)	probably_damaging(0.945)	5/11	.	hmmpanther:PTHR11697:SF88,hmmpanther:PTHR11697,Pfam_domain:PF06467,SMART_domains:SM00746,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCCATAC	.	5	BLCA
SFPQ	0	.	GRCh37	1	35656103	35656103	+	Nonsense_Mutation	SNP	G	G	A	rs748450120	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411C>T	p.Gln471Ter	p.Q471*	ENST00000357214	4/10	41	28	12	44	44	0	SFPQ,stop_gained,p.Gln471Ter,ENST00000357214,;SFPQ,stop_gained,p.Gln25Ter,ENST00000470472,;SFPQ,upstream_gene_variant,,ENST00000460428,;	A	ENSG00000116560	ENST00000357214	Transcript	stop_gained	1510	1411	471	Q/*	Caa/Taa	rs748450120,COSM1296340	.	.	-1	SFPQ	HGNC	10774	protein_coding	YES	CCDS388.1	ENSP00000349748	SFPQ_HUMAN	Q9BSV4_HUMAN	UPI00001358B9	.	.	.	4/10	.	hmmpanther:PTHR23189,hmmpanther:PTHR23189:SF42,Pfam_domain:PF08075	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTGATACA	.	5	BLCA
ZMYM4	0	.	GRCh37	1	35835996	35835996	+	Nonsense_Mutation	SNP	C	C	T	rs776683225	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949C>T	p.Gln317Ter	p.Q317*	ENST00000314607	7/30	16	9	7	39	39	0	ZMYM4,stop_gained,p.Gln66Ter,ENST00000457946,;ZMYM4,stop_gained,p.Gln317Ter,ENST00000373297,;ZMYM4,stop_gained,p.Gln317Ter,ENST00000314607,;ZMYM4-AS1,upstream_gene_variant,,ENST00000432683,;ZMYM4,non_coding_transcript_exon_variant,,ENST00000482131,;	T	ENSG00000146463	ENST00000314607	Transcript	stop_gained	1029	949	317	Q/*	Cag/Tag	rs776683225,COSM3805034,COSM3805035	.	.	1	ZMYM4	HGNC	13055	protein_coding	YES	CCDS389.1	ENSP00000322915	ZMYM4_HUMAN	.	UPI0000203EE6	.	.	.	7/30	.	hmmpanther:PTHR11697:SF87,hmmpanther:PTHR11697	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTTCAGCCC	.	2	BLCA
C1orf216	0	.	GRCh37	1	36181746	36181746	+	Silent	SNP	C	C	T	rs564165184	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177G>A	p.%3D	p.R59R	ENST00000270815	2/2	50	31	19	58	58	0	C1orf216,synonymous_variant,p.%3D,ENST00000270815,;CLSPN,downstream_gene_variant,,ENST00000251195,;C1orf216,downstream_gene_variant,,ENST00000453178,;C1orf216,downstream_gene_variant,,ENST00000503824,;	T	ENSG00000142686	ENST00000270815	Transcript	synonymous_variant	948	177	59	R	agG/agA	rs564165184	.	.	-1	C1orf216	HGNC	26800	protein_coding	YES	CCDS395.1	ENSP00000425166	CA216_HUMAN	.	UPI000006D838	.	.	.	2/2	.	Pfam_domain:PF15546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCCTCCT	.	5	BLCA
AGO3	0	.	GRCh37	1	36474317	36474317	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820G>A	p.Gly274Arg	p.G274R	ENST00000373191	7/19	51	36	14	90	90	0	AGO3,missense_variant,p.Gly40Arg,ENST00000246314,;AGO3,missense_variant,p.Gly274Arg,ENST00000373191,;RP4-665N4.8,intron_variant,,ENST00000466576,;RP4-665N4.8,downstream_gene_variant,,ENST00000479395,;	A	ENSG00000126070	ENST00000373191	Transcript	missense_variant	1169	820	274	G/R	Gga/Aga	.	.	.	1	AGO3	HGNC	18421	protein_coding	YES	CCDS399.1	ENSP00000362287	AGO3_HUMAN	B4DY67_HUMAN	UPI0000141361	.	tolerated(0.06)	possibly_damaging(0.78)	7/19	.	PROSITE_profiles:PS50821,HAMAP:MF_03032,hmmpanther:PTHR22891:SF3,hmmpanther:PTHR22891,Pfam_domain:PF02170,Gene3D:2.170.260.10,SMART_domains:SM00949,Superfamily_domains:SSF101690	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTGTGGAACA	.	5	BLCA
ADPRHL2	0	.	GRCh37	1	36557630	36557630	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.636C>T	p.%3D	p.L212L	ENST00000373178	4/6	28	18	9	41	41	0	ADPRHL2,synonymous_variant,p.%3D,ENST00000373178,;COL8A2,downstream_gene_variant,,ENST00000303143,;TEKT2,downstream_gene_variant,,ENST00000207457,;TEKT2,downstream_gene_variant,,ENST00000473120,;COL8A2,downstream_gene_variant,,ENST00000397799,;TEKT2,downstream_gene_variant,,ENST00000469024,;	T	ENSG00000116863	ENST00000373178	Transcript	synonymous_variant	666	636	212	L	ctC/ctT	.	.	.	1	ADPRHL2	HGNC	21304	protein_coding	YES	CCDS402.1	ENSP00000362273	ARHL2_HUMAN	B7ZAN4_HUMAN,B4DHV5_HUMAN	UPI0000039EBB	.	.	.	4/6	.	hmmpanther:PTHR16222,hmmpanther:PTHR16222:SF12,Pfam_domain:PF03747,Superfamily_domains:0043888	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAAGCA	.	5	BLCA
COL8A2	0	.	GRCh37	1	36565761	36565761	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83C>T	p.Ser28Phe	p.S28F	ENST00000397799	3/4	11	8	3	9	9	0	COL8A2,missense_variant,p.Ser28Phe,ENST00000303143,;COL8A2,missense_variant,p.Ser28Phe,ENST00000397799,;COL8A2,intron_variant,,ENST00000481785,;	A	ENSG00000171812	ENST00000397799	Transcript	missense_variant	308	83	28	S/F	tCt/tTt	.	.	.	-1	COL8A2	HGNC	2216	protein_coding	YES	CCDS403.1	ENSP00000380901	CO8A2_HUMAN	R9UH34_HUMAN,Q4VAQ1_HUMAN,E9PP49_HUMAN	UPI00001B2F2D	.	tolerated_low_confidence(0.63)	unknown(0)	3/4	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCAGAGGAC	.	2	BLCA
MAP7D1	0	.	GRCh37	1	36645528	36645528	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2375C>T	p.Pro792Leu	p.P792L	ENST00000373151	16/17	19	13	6	41	41	0	MAP7D1,missense_variant,p.Pro328Leu,ENST00000373148,;MAP7D1,missense_variant,p.Pro792Leu,ENST00000373151,;MAP7D1,missense_variant,p.Pro759Leu,ENST00000373150,;MAP7D1,missense_variant,p.Pro754Leu,ENST00000316156,;MAP7D1,downstream_gene_variant,,ENST00000530975,;MAP7D1,downstream_gene_variant,,ENST00000429533,;MAP7D1,downstream_gene_variant,,ENST00000474796,;MAP7D1,downstream_gene_variant,,ENST00000487131,;MAP7D1,non_coding_transcript_exon_variant,,ENST00000487114,;MAP7D1,downstream_gene_variant,,ENST00000532131,;	T	ENSG00000116871	ENST00000373151	Transcript	missense_variant	2591	2375	792	P/L	cCa/cTa	.	.	.	1	MAP7D1	HGNC	25514	protein_coding	YES	CCDS30673.1	ENSP00000362244	MA7D1_HUMAN	E9PLH3_HUMAN,D3DPS3_HUMAN,C9JIR3_HUMAN	UPI00005C3036	.	.	unknown(0)	16/17	.	hmmpanther:PTHR15073:SF2,hmmpanther:PTHR15073	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|VARSCANS	TCTCCCAGCAC	.	3	BLCA
THRAP3	0	.	GRCh37	1	36752133	36752133	+	Missense_Mutation	SNP	G	G	A	rs138989448	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.302G>A	p.Arg101Gln	p.R101Q	ENST00000354618	4/12	88	57	30	102	102	0	THRAP3,missense_variant,p.Arg101Gln,ENST00000354618,;THRAP3,missense_variant,p.Arg101Gln,ENST00000469141,;THRAP3,downstream_gene_variant,,ENST00000478853,;THRAP3,upstream_gene_variant,,ENST00000466743,;	A	ENSG00000054118	ENST00000354618	Transcript	missense_variant	526	302	101	R/Q	cGa/cAa	rs138989448	.	.	1	THRAP3	HGNC	22964	protein_coding	YES	CCDS405.1	ENSP00000346634	TR150_HUMAN	E9PML1_HUMAN	UPI0000203F28	.	tolerated(0.07)	unknown(0)	4/12	.	hmmpanther:PTHR15268:SF16,hmmpanther:PTHR15268,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R101*|c.301C>T|3	RADIA|MUTECT|MUSE	TAACCGAGGAG	byCluster	3	BLCA
ZC3H12A	0	.	GRCh37	1	37941218	37941218	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121G>A	p.Glu41Lys	p.E41K	ENST00000373087	2/6	40	25	15	62	62	0	ZC3H12A,missense_variant,p.Glu41Lys,ENST00000373087,;LINC01137,upstream_gene_variant,,ENST00000424989,;ZC3H12A,upstream_gene_variant,,ENST00000472312,;	A	ENSG00000163874	ENST00000373087	Transcript	missense_variant	237	121	41	E/K	Gag/Aag	.	.	.	1	ZC3H12A	HGNC	26259	protein_coding	YES	CCDS417.1	ENSP00000362179	ZC12A_HUMAN	C0LED9_HUMAN	UPI000004D30E	.	tolerated(0.65)	benign(0.002)	2/6	.	hmmpanther:PTHR12876:SF10,hmmpanther:PTHR12876,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCTGAGGAG	.	5	BLCA
CDCA8	0	.	GRCh37	1	38158356	38158356	+	5'UTR	SNP	G	G	A	rs766636904	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7G>A	.	.	ENST00000373055	1/10	19	14	5	23	23	0	CDCA8,5_prime_UTR_variant,,ENST00000327331,;CDCA8,5_prime_UTR_variant,,ENST00000373055,;C1orf109,upstream_gene_variant,,ENST00000486637,;C1orf109,upstream_gene_variant,,ENST00000491981,;C1orf109,upstream_gene_variant,,ENST00000464085,;C1orf109,upstream_gene_variant,,ENST00000477060,;C1orf109,upstream_gene_variant,,ENST00000488137,;C1orf109,upstream_gene_variant,,ENST00000358011,;C1orf109,upstream_gene_variant,,ENST00000461359,;C1orf109,upstream_gene_variant,,ENST00000472584,;C1orf109,upstream_gene_variant,,ENST00000464178,;C1orf109,upstream_gene_variant,,ENST00000491797,;C1orf109,upstream_gene_variant,,ENST00000498448,;C1orf109,upstream_gene_variant,,ENST00000494120,;	A	ENSG00000134690	ENST00000373055	Transcript	5_prime_UTR_variant	267	.	.	.	.	rs766636904	.	.	1	CDCA8	HGNC	14629	protein_coding	YES	CCDS424.1	ENSP00000362146	BOREA_HUMAN	.	UPI000007033D	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCCGAGCGC	.	5	BLCA
MTF1	0	.	GRCh37	1	38281192	38281192	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1878C>T	p.%3D	p.I626I	ENST00000373036	11/11	40	32	8	49	49	0	MTF1,synonymous_variant,p.%3D,ENST00000373036,;	A	ENSG00000188786	ENST00000373036	Transcript	synonymous_variant	2019	1878	626	I	atC/atT	.	.	.	-1	MTF1	HGNC	7428	protein_coding	YES	CCDS30676.1	ENSP00000362127	MTF1_HUMAN	O14945_HUMAN	UPI000006E9B3	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGATGAT	.	5	BLCA
MTF1	0	.	GRCh37	1	38304388	38304388	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688A>T	p.Asn230Tyr	p.N230Y	ENST00000373036	4/11	81	59	22	78	78	0	MTF1,missense_variant,p.Asn230Tyr,ENST00000373036,;RP11-109P14.8,upstream_gene_variant,,ENST00000447422,;	A	ENSG00000188786	ENST00000373036	Transcript	missense_variant	829	688	230	N/Y	Aac/Tac	.	.	.	-1	MTF1	HGNC	7428	protein_coding	YES	CCDS30676.1	ENSP00000362127	MTF1_HUMAN	O14945_HUMAN	UPI000006E9B3	.	deleterious(0)	probably_damaging(0.979)	4/11	.	PROSITE_profiles:PS50157,hmmpanther:PTHR11389:SF347,hmmpanther:PTHR11389,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTTAAACG	.	5	BLCA
FHL3	0	.	GRCh37	1	38464927	38464927	+	Splice_Site	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156+2T>C	.	p.X52_splice	ENST00000373016	.	40	26	13	45	45	0	FHL3,splice_donor_variant,,ENST00000373016,;FHL3,splice_donor_variant,,ENST00000477194,;FHL3,splice_donor_variant,,ENST00000483132,;FHL3,intron_variant,,ENST00000485803,;FHL3,intron_variant,,ENST00000475084,;	G	ENSG00000183386	ENST00000373016	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	FHL3	HGNC	3704	protein_coding	YES	CCDS30678.1	ENSP00000362107	FHL3_HUMAN	Q96C98_HUMAN	UPI0000070486	.	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTACCCTC	.	5	BLCA
MYCBP	0	.	GRCh37	1	39338978	39338978	+	5'UTR	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1T>C	.	.	ENST00000397572	1/5	13	8	4	19	19	0	MYCBP,5_prime_UTR_variant,,ENST00000397572,;GJA9,intron_variant,,ENST00000454994,;GJA9,downstream_gene_variant,,ENST00000357771,;GJA9,downstream_gene_variant,,ENST00000360786,;RP5-864K19.4,intron_variant,,ENST00000456813,;RP5-864K19.4,intron_variant,,ENST00000433671,;RP5-864K19.4,upstream_gene_variant,,ENST00000443161,;MYCBP,non_coding_transcript_exon_variant,,ENST00000494695,;MYCBP,intron_variant,,ENST00000489803,;MYCBP,intron_variant,,ENST00000462027,;MYCBP,intron_variant,,ENST00000489575,;MYCBP,upstream_gene_variant,,ENST00000465771,;MYCBP,upstream_gene_variant,,ENST00000495043,;	G	ENSG00000214114	ENST00000397572	Transcript	5_prime_UTR_variant	800	.	.	.	.	.	.	.	-1	MYCBP	HGNC	7554	protein_coding	YES	CCDS431.1	ENSP00000380702	MYCBP_HUMAN	.	UPI000013CDE0	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GCCATAGTGAC	.	4	BLCA
MACF1	0	.	GRCh37	1	39776059	39776059	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3074G>T	p.Cys1025Phe	p.C1025F	ENST00000545844	25/94	45	32	12	53	53	0	MACF1,missense_variant,p.Cys159Phe,ENST00000372925,;MACF1,missense_variant,p.Cys1025Phe,ENST00000361689,;MACF1,missense_variant,p.Cys1020Phe,ENST00000564288,;MACF1,missense_variant,p.Cys1174Phe,ENST00000530262,;MACF1,missense_variant,p.Cys1025Phe,ENST00000539005,;MACF1,missense_variant,p.Cys1025Phe,ENST00000372915,;MACF1,missense_variant,p.Cys1025Phe,ENST00000317713,;MACF1,missense_variant,p.Cys1057Phe,ENST00000567887,;MACF1,missense_variant,p.Cys1025Phe,ENST00000545844,;MACF1,missense_variant,p.Cys983Phe,ENST00000524432,;MACF1,non_coding_transcript_exon_variant,,ENST00000476350,;MACF1,3_prime_UTR_variant,,ENST00000496804,;	T	ENSG00000127603	ENST00000545844	Transcript	missense_variant	3182	3074	1025	C/F	tGt/tTt	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	possibly_damaging(0.739)	25/94	.	hmmpanther:PTHR11915:SF37,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTGTAAAG	.	5	BLCA
MACF1	0	.	GRCh37	1	39783018	39783018	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3736C>T	p.Gln1246Ter	p.Q1246*	ENST00000545844	29/94	33	23	9	32	32	0	MACF1,stop_gained,p.Gln380Ter,ENST00000372925,;MACF1,stop_gained,p.Gln1246Ter,ENST00000361689,;MACF1,stop_gained,p.Gln1241Ter,ENST00000564288,;MACF1,stop_gained,p.Gln1395Ter,ENST00000530262,;MACF1,stop_gained,p.Gln1246Ter,ENST00000539005,;MACF1,stop_gained,p.Gln1246Ter,ENST00000372915,;MACF1,stop_gained,p.Gln1246Ter,ENST00000317713,;MACF1,stop_gained,p.Gln1278Ter,ENST00000567887,;MACF1,stop_gained,p.Gln1246Ter,ENST00000545844,;MACF1,stop_gained,p.Gln1204Ter,ENST00000524432,;MACF1,non_coding_transcript_exon_variant,,ENST00000476350,;MACF1,3_prime_UTR_variant,,ENST00000496804,;	T	ENSG00000127603	ENST00000545844	Transcript	stop_gained	3844	3736	1246	Q/*	Cag/Tag	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	.	29/94	.	Superfamily_domains:SSF46966,hmmpanther:PTHR11915:SF37,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTATCAGGAA	.	3	BLCA
MACF1	0	.	GRCh37	1	39783033	39783033	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3751C>T	p.Gln1251Ter	p.Q1251*	ENST00000545844	29/94	31	22	8	32	32	0	MACF1,stop_gained,p.Gln385Ter,ENST00000372925,;MACF1,stop_gained,p.Gln1251Ter,ENST00000361689,;MACF1,stop_gained,p.Gln1246Ter,ENST00000564288,;MACF1,stop_gained,p.Gln1400Ter,ENST00000530262,;MACF1,stop_gained,p.Gln1251Ter,ENST00000539005,;MACF1,stop_gained,p.Gln1251Ter,ENST00000372915,;MACF1,stop_gained,p.Gln1251Ter,ENST00000317713,;MACF1,stop_gained,p.Gln1283Ter,ENST00000567887,;MACF1,stop_gained,p.Gln1251Ter,ENST00000545844,;MACF1,stop_gained,p.Gln1209Ter,ENST00000524432,;MACF1,non_coding_transcript_exon_variant,,ENST00000476350,;MACF1,3_prime_UTR_variant,,ENST00000496804,;	T	ENSG00000127603	ENST00000545844	Transcript	stop_gained	3859	3751	1251	Q/*	Cag/Tag	.	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	.	29/94	.	Superfamily_domains:SSF46966,hmmpanther:PTHR11915:SF37,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTCCCAGCTG	.	3	BLCA
MACF1	0	.	GRCh37	1	39950348	39950348	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15982G>A	p.Asp5328Asn	p.D5328N	ENST00000545844	93/94	105	64	41	173	173	0	MACF1,missense_variant,p.Asp353Asn,ENST00000446276,;MACF1,missense_variant,p.Asp5328Asn,ENST00000361689,;MACF1,missense_variant,p.Asp5198Asn,ENST00000539005,;MACF1,missense_variant,p.Asp5328Asn,ENST00000317713,;MACF1,missense_variant,p.Asp7490Asn,ENST00000567887,;MACF1,missense_variant,p.Asp5328Asn,ENST00000545844,;MACF1,missense_variant,p.Asp266Asn,ENST00000442046,;MACF1,missense_variant,p.Asp4332Asn,ENST00000372925,;MACF1,missense_variant,p.Asp7453Asn,ENST00000564288,;MACF1,missense_variant,p.Asp5836Asn,ENST00000289893,;MACF1,missense_variant,p.Asp7286Asn,ENST00000372915,;MACF1,missense_variant,p.Asp441Asn,ENST00000360115,;MACF1,downstream_gene_variant,,ENST00000422234,;MACF1,non_coding_transcript_exon_variant,,ENST00000496360,;MACF1,non_coding_transcript_exon_variant,,ENST00000497807,;MACF1,downstream_gene_variant,,ENST00000462496,;MACF1,downstream_gene_variant,,ENST00000462103,;	A	ENSG00000127603	ENST00000545844	Transcript	missense_variant	16090	15982	5328	D/N	Gat/Aat	COSM3805165,COSM1296409,COSM3805167,COSM1296410,COSM3805166	.	.	1	MACF1	HGNC	13664	protein_coding	YES	CCDS435.1	ENSP00000439537	MACF1_HUMAN	Q8WXY4_HUMAN,Q8WXY3_HUMAN,Q8WXY0_HUMAN,Q8WXX9_HUMAN,B4DNC4_HUMAN	UPI00001B3DC6	.	.	benign(0.283)	93/94	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTGATACC	.	5	BLCA
PABPC4	0	.	GRCh37	1	40041621	40041621	+	Translation_Start_Site	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000372858	1/16	8	5	3	16	16	0	PABPC4,start_lost,p.Met1?,ENST00000372858,;PABPC4,start_lost,p.Met1?,ENST00000531243,;PABPC4,start_lost,p.Met1?,ENST00000372857,;PABPC4,start_lost,p.Met1?,ENST00000372862,;PABPC4,start_lost,p.Met1?,ENST00000451091,;PABPC4,start_lost,p.Met1?,ENST00000372856,;PABPC4,upstream_gene_variant,,ENST00000474378,;PABPC4,upstream_gene_variant,,ENST00000421687,;RP11-69E11.8,downstream_gene_variant,,ENST00000415255,;PABPC4,upstream_gene_variant,,ENST00000529216,;PABPC4,upstream_gene_variant,,ENST00000470443,;PABPC4,upstream_gene_variant,,ENST00000525751,;	T	ENSG00000090621	ENST00000372858	Transcript	start_lost	453	3	1	M/I	atG/atA	.	.	.	-1	PABPC4	HGNC	8557	protein_coding	YES	CCDS44115.1	ENSP00000361949	PABP4_HUMAN	B1ANR1_HUMAN	UPI00002057C5	.	deleterious(0)	probably_damaging(0.913)	1/16	.	Gene3D:3.30.70.330	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGTTCATCTC	.	2	BLCA
TRIT1	0	.	GRCh37	1	40349141	40349141	+	Missense_Mutation	SNP	C	C	T	rs771619860	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.23G>A	p.Arg8Gln	p.R8Q	ENST00000316891	1/11	19	13	5	26	26	0	TRIT1,missense_variant,p.Arg8Gln,ENST00000544981,;TRIT1,missense_variant,p.Arg8Gln,ENST00000372818,;TRIT1,missense_variant,p.Arg8Gln,ENST00000441669,;TRIT1,missense_variant,p.Arg8Gln,ENST00000316891,;TRIT1,upstream_gene_variant,,ENST00000541099,;TRIT1,upstream_gene_variant,,ENST00000545233,;TRIT1,upstream_gene_variant,,ENST00000537440,;TRIT1,upstream_gene_variant,,ENST00000537223,;Y_RNA,upstream_gene_variant,,ENST00000365352,;TRIT1,non_coding_transcript_exon_variant,,ENST00000491865,;TRIT1,missense_variant,p.Arg8Gln,ENST00000462797,;TRIT1,missense_variant,p.Arg3Gln,ENST00000486825,;TRIT1,missense_variant,p.Arg5Gln,ENST00000492612,;TRIT1,missense_variant,p.Arg8Gln,ENST00000495175,;TRIT1,missense_variant,p.Arg8Gln,ENST00000489945,;	T	ENSG00000043514	ENST00000316891	Transcript	missense_variant	38	23	8	R/Q	cGa/cAa	rs771619860,COSM352907	.	.	-1	TRIT1	HGNC	20286	protein_coding	YES	CCDS30681.1	ENSP00000321810	MOD5_HUMAN	Q3T7C7_HUMAN,Q3T7B8_HUMAN,Q3T7B4_HUMAN	UPI000006E2FB	.	deleterious_low_confidence(0.02)	possibly_damaging(0.859)	1/11	.	hmmpanther:PTHR11088,hmmpanther:PTHR11088:SF25	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P11P|c.33C>T|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCGTGCA	byFrequency	5	BLCA
MYCL	0	.	GRCh37	1	40363307	40363307	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.922G>A	p.Glu308Lys	p.E308K	ENST00000397332	3/3	110	74	36	144	144	0	MYCL,missense_variant,p.Glu278Lys,ENST00000372816,;MYCL,missense_variant,p.Glu308Lys,ENST00000397332,;MYCL,downstream_gene_variant,,ENST00000372815,;MYCL,downstream_gene_variant,,ENST00000450953,;MYCL,downstream_gene_variant,,ENST00000429311,;RP1-118J21.5,upstream_gene_variant,,ENST00000418255,;	T	ENSG00000116990	ENST00000397332	Transcript	missense_variant	1047	922	308	E/K	Gag/Aag	.	.	.	-1	MYCL	HGNC	7555	protein_coding	YES	CCDS53300.1	ENSP00000380494	.	Q86YL9_HUMAN,E9PQS5_HUMAN	UPI000047097E	.	deleterious(0)	probably_damaging(0.999)	3/3	.	hmmpanther:PTHR11514,hmmpanther:PTHR11514:SF1,PIRSF_domain:PIRSF001705,Prints_domain:PR00044	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCAGTAT	.	5	BLCA
CAP1	0	.	GRCh37	1	40531920	40531920	+	Nonsense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.558T>A	p.Tyr186Ter	p.Y186*	ENST00000372797	7/13	25	21	4	24	24	0	CAP1,stop_gained,p.Tyr186Ter,ENST00000372805,;CAP1,stop_gained,p.Tyr186Ter,ENST00000427843,;CAP1,stop_gained,p.Tyr186Ter,ENST00000421589,;CAP1,stop_gained,p.Tyr185Ter,ENST00000340450,;CAP1,stop_gained,p.Tyr185Ter,ENST00000372802,;CAP1,stop_gained,p.Tyr185Ter,ENST00000372798,;CAP1,stop_gained,p.Tyr186Ter,ENST00000372797,;CAP1,stop_gained,p.Tyr186Ter,ENST00000414281,;CAP1,stop_gained,p.Tyr186Ter,ENST00000424977,;CAP1,stop_gained,p.Tyr186Ter,ENST00000372792,;CAP1,stop_gained,p.Tyr185Ter,ENST00000435719,;CAP1,intron_variant,,ENST00000414893,;CAP1,downstream_gene_variant,,ENST00000449311,;CAP1,downstream_gene_variant,,ENST00000420216,;CAP1,downstream_gene_variant,,ENST00000417287,;CAP1,upstream_gene_variant,,ENST00000461993,;CAP1,upstream_gene_variant,,ENST00000479759,;CAP1,upstream_gene_variant,,ENST00000494114,;	A	ENSG00000131236	ENST00000372797	Transcript	stop_gained	1119	558	186	Y/*	taT/taA	.	.	.	1	CAP1	HGNC	20040	protein_coding	YES	CCDS41309.1	ENSP00000361883	CAP1_HUMAN	Q5T0R8_HUMAN,Q5T0R7_HUMAN,Q5T0R6_HUMAN,Q5T0R5_HUMAN,Q5T0R4_HUMAN,Q5T0R3_HUMAN,Q5T0R2_HUMAN,Q5T0R1_HUMAN	UPI000013CDDF	.	.	.	7/13	.	Superfamily_domains:0043456,Pfam_domain:PF01213,hmmpanther:PTHR10652:SF1,hmmpanther:PTHR10652	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTTATTTAAG	.	3	BLCA
ZMYND12	0	.	GRCh37	1	42905688	42905688	+	Missense_Mutation	SNP	G	G	C	rs766588568	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433C>G	p.Arg145Gly	p.R145G	ENST00000372565	4/8	63	58	4	69	69	0	ZMYND12,missense_variant,p.Arg35Gly,ENST00000433602,;ZMYND12,missense_variant,p.Arg145Gly,ENST00000372565,;ZMYND12,non_coding_transcript_exon_variant,,ENST00000461083,;ZMYND12,upstream_gene_variant,,ENST00000475426,;	C	ENSG00000066185	ENST00000372565	Transcript	missense_variant	703	433	145	R/G	Cga/Gga	rs766588568,COSM358106	.	.	-1	ZMYND12	HGNC	21192	protein_coding	YES	CCDS467.1	ENSP00000361646	ZMY12_HUMAN	.	UPI000020587B	.	tolerated(0.07)	benign(0.131)	4/8	.	hmmpanther:PTHR12298,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATTCGGCCCA	byFrequency	2	BLCA
CCDC30	0	.	GRCh37	1	43022002	43022002	+	Missense_Mutation	SNP	G	G	A	rs376480393	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601G>A	p.Glu201Lys	p.E201K	ENST00000428554	12/23	26	17	9	37	36	0	CCDC30,missense_variant,p.Glu201Lys,ENST00000428554,;CCDC30,missense_variant,p.Glu201Lys,ENST00000340612,;CCDC30,missense_variant,p.Glu201Lys,ENST00000342022,;CCDC30,intron_variant,,ENST00000390640,;CCDC30,intron_variant,,ENST00000507855,;CCDC30,missense_variant,p.Glu155Lys,ENST00000509712,;CCDC30,5_prime_UTR_variant,,ENST00000477155,;CCDC30,3_prime_UTR_variant,,ENST00000471390,;CCDC30,intron_variant,,ENST00000514642,;	A	ENSG00000186409	ENST00000428554	Transcript	missense_variant	1744	601	201	E/K	Gag/Aag	rs376480393	.	.	1	CCDC30	HGNC	26103	protein_coding	YES	CCDS30690.1	ENSP00000397035	CCD30_HUMAN	D6RFH8_HUMAN	UPI0000458A0B	.	deleterious(0.02)	probably_damaging(0.968)	12/23	.	.	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAGCTG	.	5	BLCA
EBNA1BP2	0	.	GRCh37	1	43637196	43637196	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442C>T	p.Gln148Ter	p.Q148*	ENST00000431635	4/10	87	58	28	150	150	0	EBNA1BP2,stop_gained,p.Gln93Ter,ENST00000236051,;EBNA1BP2,stop_gained,p.Gln148Ter,ENST00000431635,;WDR65,upstream_gene_variant,,ENST00000529956,;WDR65,upstream_gene_variant,,ENST00000528956,;WDR65,upstream_gene_variant,,ENST00000372492,;EBNA1BP2,non_coding_transcript_exon_variant,,ENST00000483082,;EBNA1BP2,non_coding_transcript_exon_variant,,ENST00000491223,;EBNA1BP2,non_coding_transcript_exon_variant,,ENST00000472982,;EBNA1BP2,upstream_gene_variant,,ENST00000463906,;EBNA1BP2,downstream_gene_variant,,ENST00000461557,;WDR65,upstream_gene_variant,,ENST00000533339,;WDR65,upstream_gene_variant,,ENST00000525227,;	A	ENSG00000117395	ENST00000431635	Transcript	stop_gained	591	442	148	Q/*	Cag/Tag	.	.	.	-1	EBNA1BP2	HGNC	15531	protein_coding	YES	CCDS53308.1	ENSP00000407323	.	Q6IB29_HUMAN,H7C2Q8_HUMAN	UPI0000204E6D	.	.	.	4/10	.	hmmpanther:PTHR13028,hmmpanther:PTHR13028:SF0,Pfam_domain:PF05890	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGGTCCT	.	5	BLCA
EBNA1BP2	0	.	GRCh37	1	43637263	43637263	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375C>T	p.%3D	p.L125L	ENST00000431635	4/10	148	108	39	211	211	0	EBNA1BP2,synonymous_variant,p.%3D,ENST00000236051,;EBNA1BP2,synonymous_variant,p.%3D,ENST00000431635,;WDR65,upstream_gene_variant,,ENST00000529956,;WDR65,upstream_gene_variant,,ENST00000528956,;WDR65,upstream_gene_variant,,ENST00000372492,;EBNA1BP2,non_coding_transcript_exon_variant,,ENST00000483082,;EBNA1BP2,non_coding_transcript_exon_variant,,ENST00000491223,;EBNA1BP2,non_coding_transcript_exon_variant,,ENST00000472982,;EBNA1BP2,upstream_gene_variant,,ENST00000463906,;EBNA1BP2,downstream_gene_variant,,ENST00000461557,;WDR65,upstream_gene_variant,,ENST00000533339,;WDR65,upstream_gene_variant,,ENST00000525227,;	A	ENSG00000117395	ENST00000431635	Transcript	synonymous_variant	524	375	125	L	ctC/ctT	.	.	.	-1	EBNA1BP2	HGNC	15531	protein_coding	YES	CCDS53308.1	ENSP00000407323	.	Q6IB29_HUMAN,H7C2Q8_HUMAN	UPI0000204E6D	.	.	.	4/10	.	hmmpanther:PTHR13028,hmmpanther:PTHR13028:SF0,Pfam_domain:PF05890	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATCGAGCCT	.	5	BLCA
PTPRF	0	.	GRCh37	1	44083568	44083568	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4357G>A	p.Glu1453Lys	p.E1453K	ENST00000359947	25/34	18	11	7	38	38	0	PTPRF,missense_variant,p.Glu525Lys,ENST00000372407,;PTPRF,missense_variant,p.Glu837Lys,ENST00000412568,;PTPRF,missense_variant,p.Glu878Lys,ENST00000414879,;PTPRF,missense_variant,p.Glu1444Lys,ENST00000438120,;PTPRF,missense_variant,p.Glu1453Lys,ENST00000359947,;PTPRF,missense_variant,p.Glu1099Lys,ENST00000429895,;PTPRF,missense_variant,p.Glu1444Lys,ENST00000372413,;PTPRF,missense_variant,p.Glu812Lys,ENST00000422171,;PTPRF,missense_variant,p.Glu1453Lys,ENST00000372414,;PTPRF,non_coding_transcript_exon_variant,,ENST00000477970,;PTPRF,non_coding_transcript_exon_variant,,ENST00000496447,;	A	ENSG00000142949	ENST00000359947	Transcript	missense_variant	4697	4357	1453	E/K	Gag/Aag	.	.	.	1	PTPRF	HGNC	9670	protein_coding	YES	CCDS489.2	ENSP00000353030	PTPRF_HUMAN	G1UI20_HUMAN	UPI0000470154	.	deleterious(0.01)	benign(0.318)	25/34	.	Superfamily_domains:SSF52799,SMART_domains:SM00194,Gene3D:3.90.190.10,Pfam_domain:PF00102,hmmpanther:PTHR19134:SF203,hmmpanther:PTHR19134,PROSITE_profiles:PS50055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTGGAGGAG	.	5	BLCA
ZSWIM5	0	.	GRCh37	1	45484540	45484540	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3144C>T	p.%3D	p.L1048L	ENST00000359600	14/14	42	31	11	70	70	0	ZSWIM5,synonymous_variant,p.%3D,ENST00000359600,;UROD,downstream_gene_variant,,ENST00000428106,;UROD,downstream_gene_variant,,ENST00000434478,;UROD,downstream_gene_variant,,ENST00000246337,;UROD,downstream_gene_variant,,ENST00000462688,;UROD,downstream_gene_variant,,ENST00000491773,;UROD,downstream_gene_variant,,ENST00000472254,;UROD,downstream_gene_variant,,ENST00000466193,;UROD,downstream_gene_variant,,ENST00000465678,;UROD,downstream_gene_variant,,ENST00000469548,;UROD,downstream_gene_variant,,ENST00000494399,;UROD,downstream_gene_variant,,ENST00000478467,;UROD,downstream_gene_variant,,ENST00000486699,;UROD,downstream_gene_variant,,ENST00000463092,;UROD,downstream_gene_variant,,ENST00000490385,;UROD,downstream_gene_variant,,ENST00000460334,;UROD,downstream_gene_variant,,ENST00000496439,;UROD,downstream_gene_variant,,ENST00000491300,;UROD,downstream_gene_variant,,ENST00000473012,;UROD,downstream_gene_variant,,ENST00000460906,;	A	ENSG00000162415	ENST00000359600	Transcript	synonymous_variant	3350	3144	1048	L	ctC/ctT	.	.	.	-1	ZSWIM5	HGNC	29299	protein_coding	YES	CCDS41319.1	ENSP00000352614	ZSWM5_HUMAN	.	UPI00001C1D76	.	.	.	14/14	.	hmmpanther:PTHR22619,hmmpanther:PTHR22619:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGAGAGC	.	5	BLCA
NASP	0	.	GRCh37	1	46049858	46049858	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>A	p.Glu14Lys	p.E14K	ENST00000350030	1/15	10	6	3	9	9	0	NASP,missense_variant,p.Glu14Lys,ENST00000527470,;NASP,missense_variant,p.Glu14Lys,ENST00000350030,;NASP,missense_variant,p.Glu14Lys,ENST00000537798,;NASP,missense_variant,p.Glu14Lys,ENST00000351223,;NASP,missense_variant,p.Glu14Lys,ENST00000528238,;NASP,missense_variant,p.Glu14Lys,ENST00000470768,;NASP,missense_variant,p.Glu14Lys,ENST00000372052,;NASP,missense_variant,p.Glu14Lys,ENST00000525515,;NASP,missense_variant,p.Glu14Lys,ENST00000437901,;NASP,5_prime_UTR_variant,,ENST00000402363,;NASP,non_coding_transcript_exon_variant,,ENST00000534101,;NASP,missense_variant,p.Glu14Lys,ENST00000529333,;NASP,missense_variant,p.Glu14Lys,ENST00000437362,;NASP,missense_variant,p.Glu14Lys,ENST00000527359,;NASP,missense_variant,p.Glu14Lys,ENST00000531532,;NASP,missense_variant,p.Glu14Lys,ENST00000528084,;NASP,missense_variant,p.Glu14Lys,ENST00000453748,;NASP,missense_variant,p.Glu14Lys,ENST00000530840,;NASP,non_coding_transcript_exon_variant,,ENST00000464190,;	A	ENSG00000132780	ENST00000350030	Transcript	missense_variant	127	40	14	E/K	Gag/Aag	.	.	.	1	NASP	HGNC	7644	protein_coding	YES	CCDS524.1	ENSP00000255120	NASP_HUMAN	Q9P1N1_HUMAN,B4DS57_HUMAN	UPI000012FDA0	.	deleterious_low_confidence(0)	unknown(0)	1/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15081:SF1,hmmpanther:PTHR15081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCGGAGCTG	.	2	BLCA
CCDC17	0	.	GRCh37	1	46085918	46085918	+	3'UTR	SNP	C	C	T	rs369152830	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29G>A	.	.	ENST00000528266	13/13	9	6	3	23	23	0	CCDC17,3_prime_UTR_variant,,ENST00000445048,;CCDC17,3_prime_UTR_variant,,ENST00000528266,;CCDC17,3_prime_UTR_variant,,ENST00000343901,;CCDC17,3_prime_UTR_variant,,ENST00000421127,;NASP,downstream_gene_variant,,ENST00000402363,;NASP,downstream_gene_variant,,ENST00000350030,;NASP,downstream_gene_variant,,ENST00000534450,;NASP,downstream_gene_variant,,ENST00000537798,;NASP,downstream_gene_variant,,ENST00000351223,;NASP,downstream_gene_variant,,ENST00000528238,;NASP,downstream_gene_variant,,ENST00000531612,;NASP,downstream_gene_variant,,ENST00000372052,;CCDC17,downstream_gene_variant,,ENST00000464739,;NASP,downstream_gene_variant,,ENST00000530073,;CCDC17,3_prime_UTR_variant,,ENST00000372044,;CCDC17,non_coding_transcript_exon_variant,,ENST00000482416,;CCDC17,non_coding_transcript_exon_variant,,ENST00000491755,;CCDC17,downstream_gene_variant,,ENST00000525599,;NASP,downstream_gene_variant,,ENST00000527359,;NASP,downstream_gene_variant,,ENST00000527932,;NASP,downstream_gene_variant,,ENST00000481782,;CCDC17,downstream_gene_variant,,ENST00000479529,;NASP,downstream_gene_variant,,ENST00000453748,;NASP,downstream_gene_variant,,ENST00000472408,;	T	ENSG00000159588	ENST00000528266	Transcript	3_prime_UTR_variant	2046	.	.	.	.	rs369152830	.	.	-1	CCDC17	HGNC	26574	protein_coding	YES	CCDS44131.2	ENSP00000432172	CCD17_HUMAN	.	UPI0001AE78A9	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGTTCAGATG	.	2	BLCA
GPBP1L1	0	.	GRCh37	1	46099970	46099970	+	Intron	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.745-62T>C	.	.	ENST00000355105	.	12	8	4	13	13	0	GPBP1L1,intron_variant,,ENST00000355105,;GPBP1L1,intron_variant,,ENST00000290795,;GPBP1L1,non_coding_transcript_exon_variant,,ENST00000479235,;GPBP1L1,upstream_gene_variant,,ENST00000487436,;GPBP1L1,upstream_gene_variant,,ENST00000467032,;GPBP1L1,upstream_gene_variant,,ENST00000468724,;	G	ENSG00000159592	ENST00000355105	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	GPBP1L1	HGNC	28843	protein_coding	YES	CCDS528.1	ENSP00000347224	GPBL1_HUMAN	.	UPI0000072AA4	.	.	.	.	8/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTATAAAATCA	.	3	BLCA
DMBX1	0	.	GRCh37	1	46976878	46976878	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.605C>T	p.Ala202Val	p.A202V	ENST00000360032	3/4	22	15	7	31	31	0	DMBX1,missense_variant,p.Ala202Val,ENST00000360032,;DMBX1,missense_variant,p.Ala207Val,ENST00000371956,;	T	ENSG00000197587	ENST00000360032	Transcript	missense_variant	619	605	202	A/V	gCt/gTt	.	.	.	1	DMBX1	HGNC	19026	protein_coding	YES	CCDS536.1	ENSP00000353132	DMBX1_HUMAN	.	UPI0000070B63	.	tolerated(0.47)	benign(0.001)	3/4	.	hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF308	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGGGCTGAGG	.	2	BLCA
CYP4A22	0	.	GRCh37	1	47609551	47609551	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753G>A	p.Trp251Ter	p.W251*	ENST00000371891	6/12	56	37	19	71	71	0	CYP4A22,stop_gained,p.Trp251Ter,ENST00000294337,;CYP4A22,stop_gained,p.Trp251Ter,ENST00000371891,;CYP4A22,intron_variant,,ENST00000371890,;CYP4A22-AS1,intron_variant,,ENST00000444042,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000485117,;CYP4A22,intron_variant,,ENST00000490948,;	A	ENSG00000162365	ENST00000371891	Transcript	stop_gained	784	753	251	W/*	tgG/tgA	.	.	.	1	CYP4A22	HGNC	20575	protein_coding	YES	CCDS30707.1	ENSP00000360958	CP4AM_HUMAN	.	UPI00002371F0	.	.	.	6/12	.	hmmpanther:PTHR24290:SF67,hmmpanther:PTHR24290,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTGGACACA	.	5	BLCA
TTC39A	0	.	GRCh37	1	51753927	51753927	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1648G>C	p.Glu550Gln	p.E550Q	ENST00000413473	18/18	38	26	11	72	72	0	TTC39A,missense_variant,p.Glu582Gln,ENST00000447632,;TTC39A,missense_variant,p.Glu550Gln,ENST00000413473,;TTC39A,missense_variant,p.Glu519Gln,ENST00000262675,;TTC39A,missense_variant,p.Glu190Gln,ENST00000530004,;TTC39A,missense_variant,p.Glu546Gln,ENST00000451380,;TTC39A,missense_variant,p.Glu547Gln,ENST00000371750,;TTC39A,downstream_gene_variant,,ENST00000525906,;TTC39A,non_coding_transcript_exon_variant,,ENST00000534098,;	G	ENSG00000085831	ENST00000413473	Transcript	missense_variant	1721	1648	550	E/Q	Gag/Cag	.	.	.	-1	TTC39A	HGNC	18657	protein_coding	YES	CCDS44143.1	ENSP00000406144	TT39A_HUMAN	E9PHX9_HUMAN,E9PAZ4_HUMAN,D3DQ30_HUMAN	UPI0000252149	.	deleterious(0.03)	probably_damaging(0.995)	18/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31859:SF3,hmmpanther:PTHR31859	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCCATGG	.	5	BLCA
EPS15	0	.	GRCh37	1	51829656	51829656	+	Silent	SNP	G	G	A	rs776316180	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2241C>T	p.%3D	p.V747V	ENST00000371733	23/25	45	28	16	61	61	0	EPS15,synonymous_variant,p.%3D,ENST00000371730,;EPS15,synonymous_variant,p.%3D,ENST00000371733,;EPS15,synonymous_variant,p.%3D,ENST00000396122,;	A	ENSG00000085832	ENST00000371733	Transcript	synonymous_variant	2338	2241	747	V	gtC/gtT	rs776316180	.	.	-1	EPS15	HGNC	3419	protein_coding	YES	CCDS557.1	ENSP00000360798	EPS15_HUMAN	.	UPI0000161B29	.	.	.	23/25	.	hmmpanther:PTHR11216:SF54,hmmpanther:PTHR11216	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGACAGA	.	5	BLCA
ZFYVE9	0	.	GRCh37	1	52703261	52703261	+	Missense_Mutation	SNP	G	G	A	rs765566684	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172G>A	p.Glu58Lys	p.E58K	ENST00000287727	4/19	67	43	24	86	86	0	ZFYVE9,missense_variant,p.Glu58Lys,ENST00000371591,;ZFYVE9,missense_variant,p.Glu58Lys,ENST00000357206,;ZFYVE9,missense_variant,p.Glu58Lys,ENST00000287727,;ZFYVE9,non_coding_transcript_exon_variant,,ENST00000361625,;	A	ENSG00000157077	ENST00000287727	Transcript	missense_variant	344	172	58	E/K	Gaa/Aaa	rs765566684	.	.	1	ZFYVE9	HGNC	6775	protein_coding	YES	CCDS563.1	ENSP00000287727	ZFYV9_HUMAN	.	UPI0000001620	.	tolerated_low_confidence(0.13)	benign(0.011)	4/19	.	PIRSF_domain:PIRSF037289	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAATGAATCT	.	5	BLCA
ORC1	0	.	GRCh37	1	52840487	52840487	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2386C>T	p.Gln796Ter	p.Q796*	ENST00000371568	16/17	29	20	9	30	30	0	ORC1,stop_gained,p.Gln796Ter,ENST00000371566,;ORC1,stop_gained,p.Gln796Ter,ENST00000371568,;	A	ENSG00000085840	ENST00000371568	Transcript	stop_gained	2605	2386	796	Q/*	Caa/Taa	.	.	.	-1	ORC1	HGNC	8487	protein_coding	YES	CCDS566.1	ENSP00000360623	ORC1_HUMAN	.	UPI000013D2FB	.	.	.	16/17	.	hmmpanther:PTHR10763:SF6,hmmpanther:PTHR10763,Pfam_domain:PF09079,Gene3D:1.10.10.10,SMART_domains:SM01074	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTGAAACG	.	5	BLCA
ZYG11B	0	.	GRCh37	1	53287251	53287251	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2185C>T	p.His729Tyr	p.H729Y	ENST00000294353	14/14	40	27	13	31	31	0	ZYG11B,missense_variant,p.His729Tyr,ENST00000294353,;ZYG11B,missense_variant,p.His659Tyr,ENST00000443756,;ZYG11B,downstream_gene_variant,,ENST00000545132,;	T	ENSG00000162378	ENST00000294353	Transcript	missense_variant	2330	2185	729	H/Y	Cat/Tat	.	.	.	1	ZYG11B	HGNC	25820	protein_coding	YES	CCDS30717.1	ENSP00000294353	ZY11B_HUMAN	.	UPI00001C1D70	.	tolerated(1)	benign(0.001)	14/14	.	hmmpanther:PTHR12904,hmmpanther:PTHR12904:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGCCATGGG	.	5	BLCA
SCP2	0	.	GRCh37	1	53513597	53513597	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1536G>A	p.Met512Ile	p.M512I	ENST00000371514	15/16	51	37	14	65	65	0	SCP2,missense_variant,p.Met108Ile,ENST00000435345,;SCP2,missense_variant,p.Met105Ile,ENST00000430330,;SCP2,missense_variant,p.Met512Ile,ENST00000371514,;SCP2,missense_variant,p.Met431Ile,ENST00000528311,;SCP2,missense_variant,p.Met127Ile,ENST00000478274,;SCP2,missense_variant,p.Met468Ile,ENST00000371509,;SCP2,missense_variant,p.Met488Ile,ENST00000407246,;SCP2,3_prime_UTR_variant,,ENST00000484100,;SCP2,3_prime_UTR_variant,,ENST00000488965,;SCP2,3_prime_UTR_variant,,ENST00000408941,;SCP2,3_prime_UTR_variant,,ENST00000478631,;SCP2,3_prime_UTR_variant,,ENST00000533119,;	A	ENSG00000116171	ENST00000371514	Transcript	missense_variant	1704	1536	512	M/I	atG/atA	.	.	.	1	SCP2	HGNC	10606	protein_coding	YES	CCDS572.1	ENSP00000360569	NLTP_HUMAN	.	UPI0000130258	.	tolerated(0.09)	probably_damaging(0.979)	15/16	.	hmmpanther:PTHR24314:SF8,hmmpanther:PTHR24314,Pfam_domain:PF02036,Gene3D:3.30.1050.10,Superfamily_domains:SSF55718	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGAATCC	.	5	BLCA
PODN	0	.	GRCh37	1	53537269	53537269	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519G>A	p.%3D	p.L173L	ENST00000312553	3/11	14	10	4	25	25	0	PODN,synonymous_variant,p.%3D,ENST00000312553,;PODN,synonymous_variant,p.%3D,ENST00000371500,;PODN,intron_variant,,ENST00000395871,;RP11-334A14.5,intron_variant,,ENST00000447867,;PODN,non_coding_transcript_exon_variant,,ENST00000471210,;HIGD1AP11,downstream_gene_variant,,ENST00000438361,;	A	ENSG00000174348	ENST00000312553	Transcript	synonymous_variant	526	519	173	L	ctG/ctA	.	.	.	1	PODN	HGNC	23174	protein_coding	YES	CCDS573.1	ENSP00000308315	PODN_HUMAN	.	UPI000034ECE9	.	.	.	3/11	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369:SF12,hmmpanther:PTHR24369,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00364,SMART_domains:SM00368,SMART_domains:SM00365,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T153T|c.459G>A|3,BUFFER|p.T172T|c.516G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCTGAACCT	.	5	BLCA
ACOT11	0	.	GRCh37	1	55050492	55050492	+	Silent	SNP	C	C	T	rs548342281	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198C>T	p.%3D	p.V66V	ENST00000371316	2/17	13	7	6	24	24	0	ACOT11,synonymous_variant,p.%3D,ENST00000371316,;ACOT11,synonymous_variant,p.%3D,ENST00000343744,;ACOT11,non_coding_transcript_exon_variant,,ENST00000498228,;ACOT11,non_coding_transcript_exon_variant,,ENST00000481208,;	T	ENSG00000162390	ENST00000371316	Transcript	synonymous_variant	280	198	66	V	gtC/gtT	rs548342281,COSM910871,COSM910870	.	.	1	ACOT11	HGNC	18156	protein_coding	YES	CCDS592.1	ENSP00000360366	ACO11_HUMAN	.	UPI0000136D55	.	.	.	2/17	.	hmmpanther:PTHR11049,hmmpanther:PTHR11049:SF1,Gene3D:3.10.129.10,Superfamily_domains:SSF54637	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCGTCGGGCA	by1000G	3	BLCA
ACOT11	0	.	GRCh37	1	55050504	55050504	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210C>T	p.%3D	p.L70L	ENST00000371316	2/17	12	7	5	19	19	0	ACOT11,synonymous_variant,p.%3D,ENST00000371316,;ACOT11,synonymous_variant,p.%3D,ENST00000343744,;ACOT11,non_coding_transcript_exon_variant,,ENST00000498228,;ACOT11,non_coding_transcript_exon_variant,,ENST00000481208,;	T	ENSG00000162390	ENST00000371316	Transcript	synonymous_variant	292	210	70	L	ctC/ctT	.	.	.	1	ACOT11	HGNC	18156	protein_coding	YES	CCDS592.1	ENSP00000360366	ACO11_HUMAN	.	UPI0000136D55	.	.	.	2/17	.	hmmpanther:PTHR11049,hmmpanther:PTHR11049:SF1,Pfam_domain:PF03061,Gene3D:3.10.129.10,Superfamily_domains:SSF54637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCAAGTG	.	2	BLCA
TTC4	0	.	GRCh37	1	55199315	55199315	+	Silent	SNP	C	C	T	rs766022867	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.910C>T	p.%3D	p.L304L	ENST00000371281	8/10	51	36	14	53	53	0	TTC4,synonymous_variant,p.%3D,ENST00000371281,;TTC4,non_coding_transcript_exon_variant,,ENST00000371284,;MROH7-TTC4,3_prime_UTR_variant,,ENST00000425300,;MROH7-TTC4,3_prime_UTR_variant,,ENST00000414150,;MROH7-TTC4,3_prime_UTR_variant,,ENST00000606515,;MROH7-TTC4,non_coding_transcript_exon_variant,,ENST00000460155,;TTC4,upstream_gene_variant,,ENST00000486091,;	T	ENSG00000243725	ENST00000371281	Transcript	synonymous_variant	997	910	304	L	Cta/Tta	rs766022867	.	.	1	TTC4	HGNC	12394	protein_coding	YES	CCDS596.1	ENSP00000360329	TTC4_HUMAN	.	UPI000013E156	.	.	.	8/10	.	hmmpanther:PTHR22904:SF306,hmmpanther:PTHR22904	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCTAATG	.	5	BLCA
PRKAA2	0	.	GRCh37	1	57169881	57169881	+	Silent	SNP	C	C	T	rs756393902	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1026C>T	p.%3D	p.L342L	ENST00000371244	7/9	71	48	23	89	89	0	PRKAA2,synonymous_variant,p.%3D,ENST00000371244,;	T	ENSG00000162409	ENST00000371244	Transcript	synonymous_variant	1092	1026	342	L	ctC/ctT	rs756393902	.	.	1	PRKAA2	HGNC	9377	protein_coding	YES	CCDS605.1	ENSP00000360290	AAPK2_HUMAN	.	UPI00001250A9	.	.	.	7/9	.	hmmpanther:PTHR24343,hmmpanther:PTHR24343:SF82	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCGCCTC	byFrequency	5	BLCA
CHD5	0	.	GRCh37	1	6169997	6169997	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5436G>A	p.%3D	p.L1812L	ENST00000262450	38/42	32	25	7	57	57	0	CHD5,synonymous_variant,p.%3D,ENST00000378021,;CHD5,synonymous_variant,p.%3D,ENST00000262450,;CHD5,upstream_gene_variant,,ENST00000475121,;CHD5,3_prime_UTR_variant,,ENST00000377999,;CHD5,3_prime_UTR_variant,,ENST00000496404,;CHD5,3_prime_UTR_variant,,ENST00000462991,;	T	ENSG00000116254	ENST00000262450	Transcript	synonymous_variant	5536	5436	1812	L	ctG/ctA	.	.	.	-1	CHD5	HGNC	16816	protein_coding	YES	CCDS57.1	ENSP00000262450	CHD5_HUMAN	.	UPI000006CD03	.	.	.	38/42	.	Pfam_domain:PF08074	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGTTCAGGTA	.	2	BLCA
CHD5	0	.	GRCh37	1	6202250	6202250	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2374G>C	p.Glu792Gln	p.E792Q	ENST00000262450	15/42	102	69	33	174	174	0	CHD5,missense_variant,p.Glu792Gln,ENST00000262450,;CHD5,5_prime_UTR_variant,,ENST00000378021,;CHD5,missense_variant,p.Glu792Gln,ENST00000496404,;CHD5,missense_variant,p.Glu175Gln,ENST00000462991,;	G	ENSG00000116254	ENST00000262450	Transcript	missense_variant	2474	2374	792	E/Q	Gag/Cag	.	.	.	-1	CHD5	HGNC	16816	protein_coding	YES	CCDS57.1	ENSP00000262450	CHD5_HUMAN	.	UPI000006CD03	.	tolerated(0.06)	probably_damaging(0.955)	15/42	.	PROSITE_profiles:PS51192,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF583,Gene3D:3.40.50.300,Pfam_domain:PF00176,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCCCGAA	.	5	BLCA
USP1	0	.	GRCh37	1	62910776	62910776	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925G>A	p.Asp309Asn	p.D309N	ENST00000339950	6/9	56	39	16	65	65	0	USP1,missense_variant,p.Asp309Asn,ENST00000371146,;USP1,missense_variant,p.Asp309Asn,ENST00000339950,;USP1,downstream_gene_variant,,ENST00000442679,;USP1,downstream_gene_variant,,ENST00000452143,;	A	ENSG00000162607	ENST00000339950	Transcript	missense_variant	1740	925	309	D/N	Gat/Aat	.	.	.	1	USP1	HGNC	12607	protein_coding	YES	CCDS621.1	ENSP00000343526	UBP1_HUMAN	C9JWX4_HUMAN,C9JC88_HUMAN	UPI00001379D4	.	deleterious(0.01)	probably_damaging(0.967)	6/9	.	Pfam_domain:PF00443,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF378,PROSITE_profiles:PS50235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGTGATACA	.	5	BLCA
DOCK7	0	.	GRCh37	1	62960099	62960099	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4971G>A	p.%3D	p.L1657L	ENST00000340370	39/49	41	33	8	76	76	0	DOCK7,synonymous_variant,p.%3D,ENST00000251157,;DOCK7,synonymous_variant,p.%3D,ENST00000340370,;DOCK7,synonymous_variant,p.%3D,ENST00000454575,;DOCK7,non_coding_transcript_exon_variant,,ENST00000479983,;	T	ENSG00000116641	ENST00000340370	Transcript	synonymous_variant	4989	4971	1657	L	ttG/ttA	.	.	.	-1	DOCK7	HGNC	19190	protein_coding	YES	CCDS30734.1	ENSP00000340742	DOCK7_HUMAN	.	UPI000044FEA9	.	.	.	39/49	.	PROSITE_profiles:PS51651,hmmpanther:PTHR23317:SF78,hmmpanther:PTHR23317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTCAATCG	.	5	BLCA
ATG4C	0	.	GRCh37	1	63307207	63307207	+	Missense_Mutation	SNP	G	G	A	rs760611137	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>A	p.Glu400Lys	p.E400K	ENST00000317868	10/11	40	29	11	46	46	0	ATG4C,missense_variant,p.Glu400Lys,ENST00000317868,;ATG4C,missense_variant,p.Glu400Lys,ENST00000371120,;	A	ENSG00000125703	ENST00000317868	Transcript	missense_variant	1405	1198	400	E/K	Gaa/Aaa	rs760611137	.	.	1	ATG4C	HGNC	16040	protein_coding	YES	CCDS623.1	ENSP00000322159	ATG4C_HUMAN	C9JC51_HUMAN,A6NGQ4_HUMAN	UPI000000DC9F	.	tolerated(0.06)	possibly_damaging(0.868)	10/11	.	hmmpanther:PTHR22624,hmmpanther:PTHR22624:SF38,Pfam_domain:PF03416,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAAATC	.	5	BLCA
PGM1	0	.	GRCh37	1	64059227	64059227	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.68G>A	p.Arg23Gln	p.R23Q	ENST00000371084	1/11	21	16	5	20	20	0	PGM1,missense_variant,p.Arg23Gln,ENST00000371084,;PGM1,upstream_gene_variant,,ENST00000540265,;ITGB3BP,non_coding_transcript_exon_variant,,ENST00000478138,;PGM1,upstream_gene_variant,,ENST00000473117,;	A	ENSG00000079739	ENST00000371084	Transcript	missense_variant	281	68	23	R/Q	cGg/cAg	.	.	.	1	PGM1	HGNC	8905	protein_coding	.	CCDS625.1	ENSP00000360125	PGM1_HUMAN	.	UPI000000105F	.	deleterious(0)	benign(0.016)	1/11	.	hmmpanther:PTHR22573,hmmpanther:PTHR22573:SF37,Pfam_domain:PF02878,Gene3D:3.40.120.10,Superfamily_domains:SSF53738	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGGAAGC	.	5	BLCA
JAK1	0	.	GRCh37	1	65304224	65304224	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2891T>G	p.Leu964Arg	p.L964R	ENST00000342505	21/25	66	42	23	90	90	0	JAK1,missense_variant,p.Leu964Arg,ENST00000342505,;JAK1,downstream_gene_variant,,ENST00000481702,;JAK1,downstream_gene_variant,,ENST00000465376,;	C	ENSG00000162434	ENST00000342505	Transcript	missense_variant	3140	2891	964	L/R	cTt/cGt	.	.	.	-1	JAK1	HGNC	6190	protein_coding	YES	CCDS41346.1	ENSP00000343204	JAK1_HUMAN	.	UPI0000054C7D	.	deleterious(0)	probably_damaging(1)	21/25	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF67,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000636,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR01823,Prints_domain:PR00109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTAAGGCTT	.	5	BLCA
JAK1	0	.	GRCh37	1	65344790	65344790	+	Nonsense_Mutation	SNP	C	C	A	rs770735783	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>T	p.Glu83Ter	p.E83*	ENST00000342505	4/25	45	32	12	63	63	0	JAK1,stop_gained,p.Glu83Ter,ENST00000342505,;JAK1,upstream_gene_variant,,ENST00000467764,;	A	ENSG00000162434	ENST00000342505	Transcript	stop_gained	496	247	83	E/*	Gag/Tag	rs770735783	.	.	-1	JAK1	HGNC	6190	protein_coding	YES	CCDS41346.1	ENSP00000343204	JAK1_HUMAN	.	UPI0000054C7D	.	.	.	4/25	.	PROSITE_profiles:PS50057,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF67,SMART_domains:SM00295,PIRSF_domain:PIRSF000636	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCGTCAT	.	5	BLCA
ZBTB48	0	.	GRCh37	1	6648231	6648231	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1491C>T	p.%3D	p.L497L	ENST00000377674	8/11	33	24	9	42	42	0	ZBTB48,synonymous_variant,p.%3D,ENST00000377674,;KLHL21,downstream_gene_variant,,ENST00000377663,;KLHL21,downstream_gene_variant,,ENST00000377658,;ZBTB48,downstream_gene_variant,,ENST00000488936,;ZBTB48,missense_variant,p.Ser89Phe,ENST00000466813,;ZBTB48,non_coding_transcript_exon_variant,,ENST00000498342,;ZBTB48,non_coding_transcript_exon_variant,,ENST00000482360,;ZBTB48,upstream_gene_variant,,ENST00000466941,;	T	ENSG00000204859	ENST00000377674	Transcript	synonymous_variant	1649	1491	497	L	ctC/ctT	.	.	.	1	ZBTB48	HGNC	4930	protein_coding	YES	CCDS84.1	ENSP00000366902	ZBT48_HUMAN	Q6LCP1_HUMAN,Q5SY21_HUMAN,Q5SY20_HUMAN,K7EM76_HUMAN	UPI000012C932	.	.	.	8/11	.	Superfamily_domains:SSF57667,Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,hmmpanther:PTHR24375:SF5,hmmpanther:PTHR24375,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTGTGG	.	5	BLCA
DNAJC11	0	.	GRCh37	1	6694650	6694650	+	3'UTR	SNP	C	C	T	rs764201137	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1085G>A	.	.	ENST00000377577	16/16	12	7	4	12	12	0	DNAJC11,missense_variant,p.Gly298Glu,ENST00000349363,;DNAJC11,missense_variant,p.Gly312Glu,ENST00000451196,;DNAJC11,3_prime_UTR_variant,,ENST00000377577,;THAP3,3_prime_UTR_variant,,ENST00000377627,;DNAJC11,downstream_gene_variant,,ENST00000377573,;THAP3,downstream_gene_variant,,ENST00000307896,;THAP3,downstream_gene_variant,,ENST00000054650,;DNAJC11,downstream_gene_variant,,ENST00000294401,;THAP3,downstream_gene_variant,,ENST00000472925,;DNAJC11,downstream_gene_variant,,ENST00000542246,;DNAJC11,non_coding_transcript_exon_variant,,ENST00000465508,;DNAJC11,downstream_gene_variant,,ENST00000472414,;THAP3,downstream_gene_variant,,ENST00000484669,;THAP3,downstream_gene_variant,,ENST00000480647,;THAP3,downstream_gene_variant,,ENST00000487819,;	T	ENSG00000007923	ENST00000377577	Transcript	3_prime_UTR_variant	2889	.	.	.	.	rs764201137	.	.	-1	DNAJC11	HGNC	25570	protein_coding	YES	CCDS87.1	ENSP00000366800	DJC11_HUMAN	F5H1N1_HUMAN,B3KTC6_HUMAN	UPI000020544B	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CACTTCCAGGC	byFrequency	3	BLCA
SGIP1	0	.	GRCh37	1	67199513	67199513	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1981G>A	p.Glu661Lys	p.E661K	ENST00000371037	21/25	95	70	25	92	92	0	SGIP1,missense_variant,p.Glu692Lys,ENST00000237247,;SGIP1,missense_variant,p.Glu166Lys,ENST00000435165,;SGIP1,missense_variant,p.Glu464Lys,ENST00000371039,;SGIP1,missense_variant,p.Glu463Lys,ENST00000371036,;SGIP1,missense_variant,p.Glu661Lys,ENST00000371037,;SGIP1,missense_variant,p.Glu451Lys,ENST00000371035,;AL354978.1,upstream_gene_variant,,ENST00000408728,;	A	ENSG00000118473	ENST00000371037	Transcript	missense_variant	2058	1981	661	E/K	Gaa/Aaa	.	.	.	1	SGIP1	HGNC	25412	protein_coding	YES	CCDS30744.1	ENSP00000360076	SGIP1_HUMAN	.	UPI000045891B	.	deleterious(0)	probably_damaging(0.952)	21/25	.	Pfam_domain:PF10291,hmmpanther:PTHR23065:SF5,hmmpanther:PTHR23065,PROSITE_profiles:PS51072	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGAACAA	.	5	BLCA
SRSF11	0	.	GRCh37	1	70687416	70687416	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.97G>A	p.Glu33Lys	p.E33K	ENST00000370950	2/13	85	64	20	123	123	0	SRSF11,missense_variant,p.Glu33Lys,ENST00000454435,;SRSF11,missense_variant,p.Glu33Lys,ENST00000405432,;SRSF11,missense_variant,p.Glu33Lys,ENST00000370951,;SRSF11,missense_variant,p.Glu33Lys,ENST00000436161,;SRSF11,missense_variant,p.Glu33Lys,ENST00000370950,;SRSF11,missense_variant,p.Glu33Lys,ENST00000395136,;RP4-677H15.4,upstream_gene_variant,,ENST00000422107,;SRSF11,non_coding_transcript_exon_variant,,ENST00000463877,;SRSF11,non_coding_transcript_exon_variant,,ENST00000486667,;SRSF11,non_coding_transcript_exon_variant,,ENST00000469170,;SRSF11,missense_variant,p.Glu33Lys,ENST00000473950,;SRSF11,missense_variant,p.Glu33Lys,ENST00000475204,;	A	ENSG00000116754	ENST00000370950	Transcript	missense_variant	179	97	33	E/K	Gag/Aag	COSM1748589,COSM3930852	.	.	1	SRSF11	HGNC	10782	protein_coding	YES	CCDS647.1	ENSP00000359988	SRS11_HUMAN	Q6N079_HUMAN	UPI00001358C5	.	tolerated(1)	unknown(0)	2/13	.	Superfamily_domains:SSF54928,hmmpanther:PTHR32343,hmmpanther:PTHR32343:SF6,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACCGAGGTA	.	5	BLCA
NEGR1	0	.	GRCh37	1	71873171	71873171	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023T>C	p.%3D	p.S341S	ENST00000357731	7/7	56	34	21	53	53	0	NEGR1,synonymous_variant,p.%3D,ENST00000306821,;NEGR1,synonymous_variant,p.%3D,ENST00000434200,;NEGR1,synonymous_variant,p.%3D,ENST00000357731,;ZRANB2-AS2,intron_variant,,ENST00000583678,;ZRANB2-AS2,intron_variant,,ENST00000594152,;ZRANB2-AS2,intron_variant,,ENST00000600103,;ZRANB2-AS2,intron_variant,,ENST00000599146,;ZRANB2-AS2,intron_variant,,ENST00000430605,;ZRANB2-AS2,intron_variant,,ENST00000608579,;ZRANB2-AS2,upstream_gene_variant,,ENST00000585499,;ZRANB2-AS2,upstream_gene_variant,,ENST00000587306,;ZRANB2-AS2,upstream_gene_variant,,ENST00000586006,;ZRANB2-AS2,upstream_gene_variant,,ENST00000587066,;ZRANB2-AS2,upstream_gene_variant,,ENST00000585415,;ZRANB2-AS2,upstream_gene_variant,,ENST00000590186,;NEGR1,downstream_gene_variant,,ENST00000474357,;	G	ENSG00000172260	ENST00000357731	Transcript	synonymous_variant	1263	1023	341	S	tcT/tcC	.	.	.	-1	NEGR1	HGNC	17302	protein_coding	YES	CCDS661.1	ENSP00000350364	NEGR1_HUMAN	Q8N440_HUMAN,Q68DZ8_HUMAN	UPI00000477EE	.	.	.	7/7	.	hmmpanther:PTHR19831:SF11,hmmpanther:PTHR19831	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAAAGAGGA	.	5	BLCA
TYW3	0	.	GRCh37	1	75198940	75198940	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12C>T	p.%3D	p.S4S	ENST00000370867	1/6	17	12	5	33	33	0	TYW3,synonymous_variant,p.%3D,ENST00000370867,;TYW3,synonymous_variant,p.%3D,ENST00000457880,;TYW3,synonymous_variant,p.%3D,ENST00000421739,;CRYZ,5_prime_UTR_variant,,ENST00000417775,;TYW3,5_prime_UTR_variant,,ENST00000479111,;TYW3,upstream_gene_variant,,ENST00000483990,;CRYZ,upstream_gene_variant,,ENST00000370871,;CRYZ,upstream_gene_variant,,ENST00000370872,;CRYZ,upstream_gene_variant,,ENST00000370870,;CRYZ,upstream_gene_variant,,ENST00000441120,;CRYZ,upstream_gene_variant,,ENST00000340866,;	T	ENSG00000162623	ENST00000370867	Transcript	synonymous_variant	101	12	4	S	agC/agT	.	.	.	1	TYW3	HGNC	24757	protein_coding	YES	CCDS666.1	ENSP00000359904	TYW3_HUMAN	.	UPI000006EC9D	.	.	.	1/6	.	hmmpanther:PTHR23245,hmmpanther:PTHR23245:SF31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCAGCGCGGA	.	2	BLCA
PER3	0	.	GRCh37	1	7895964	7895964	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3330G>A	p.%3D	p.Q1110Q	ENST00000361923	19/21	43	32	11	45	45	0	PER3,synonymous_variant,p.%3D,ENST00000377532,;PER3,synonymous_variant,p.%3D,ENST00000361923,;PER3,upstream_gene_variant,,ENST00000494684,;	A	ENSG00000049246	ENST00000361923	Transcript	synonymous_variant	3505	3330	1110	Q	caG/caA	.	.	.	1	PER3	HGNC	8847	protein_coding	YES	CCDS89.1	ENSP00000355031	PER3_HUMAN	Q8TAR6_HUMAN,B4DR65_HUMAN,A2I2N5_HUMAN	UPI0000167B1D	.	.	.	19/21	.	Pfam_domain:PF12114,hmmpanther:PTHR11269,hmmpanther:PTHR11269:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCAGACACC	.	5	BLCA
RERE	0	.	GRCh37	1	8418464	8418464	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4131G>A	p.%3D	p.E1377E	ENST00000337907	21/24	12	7	5	25	25	0	RERE,synonymous_variant,p.%3D,ENST00000400908,;RERE,synonymous_variant,p.%3D,ENST00000377464,;RERE,synonymous_variant,p.%3D,ENST00000337907,;RERE,synonymous_variant,p.%3D,ENST00000476556,;RERE,intron_variant,,ENST00000505225,;RERE,intron_variant,,ENST00000400907,;RERE,upstream_gene_variant,,ENST00000467350,;	T	ENSG00000142599	ENST00000337907	Transcript	synonymous_variant	4766	4131	1377	E	gaG/gaA	.	.	.	-1	RERE	HGNC	9965	protein_coding	YES	CCDS95.1	ENSP00000338629	RERE_HUMAN	K7EJQ1_HUMAN,K7EIQ4_HUMAN,K7EIE3_HUMAN	UPI00001419CC	.	.	.	21/24	.	hmmpanther:PTHR13859,hmmpanther:PTHR13859:SF12,Pfam_domain:PF03154	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGTCTCTCCCT	.	3	BLCA
RERE	0	.	GRCh37	1	8418803	8418803	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3792C>T	p.%3D	p.V1264V	ENST00000337907	21/24	68	49	19	71	71	0	RERE,synonymous_variant,p.%3D,ENST00000476556,;RERE,synonymous_variant,p.%3D,ENST00000377464,;RERE,synonymous_variant,p.%3D,ENST00000400908,;RERE,synonymous_variant,p.%3D,ENST00000337907,;RERE,intron_variant,,ENST00000400907,;RERE,intron_variant,,ENST00000505225,;RERE,upstream_gene_variant,,ENST00000467350,;RERE,downstream_gene_variant,,ENST00000464367,;	A	ENSG00000142599	ENST00000337907	Transcript	synonymous_variant	4427	3792	1264	V	gtC/gtT	.	.	.	-1	RERE	HGNC	9965	protein_coding	YES	CCDS95.1	ENSP00000338629	RERE_HUMAN	K7EJQ1_HUMAN,K7EIQ4_HUMAN,K7EIE3_HUMAN	UPI00001419CC	.	.	.	21/24	.	hmmpanther:PTHR13859,hmmpanther:PTHR13859:SF12,Pfam_domain:PF03154	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATGACGTG	.	5	BLCA
RERE	0	.	GRCh37	1	8557493	8557493	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.976G>A	p.Asp326Asn	p.D326N	ENST00000337907	10/24	38	25	12	59	58	1	RERE,missense_variant,p.Asp8Asn,ENST00000464972,;RERE,missense_variant,p.Asp326Asn,ENST00000400908,;RERE,missense_variant,p.Asp58Asn,ENST00000377464,;RERE,missense_variant,p.Asp326Asn,ENST00000337907,;RERE,missense_variant,p.Asp326Asn,ENST00000400907,;RERE,non_coding_transcript_exon_variant,,ENST00000507012,;RERE,non_coding_transcript_exon_variant,,ENST00000480342,;	T	ENSG00000142599	ENST00000337907	Transcript	missense_variant	1611	976	326	D/N	Gac/Aac	.	.	.	-1	RERE	HGNC	9965	protein_coding	YES	CCDS95.1	ENSP00000338629	RERE_HUMAN	K7EJQ1_HUMAN,K7EIQ4_HUMAN,K7EIE3_HUMAN	UPI00001419CC	.	.	probably_damaging(0.991)	10/24	.	PROSITE_profiles:PS51156,hmmpanther:PTHR13859,hmmpanther:PTHR13859:SF12,Pfam_domain:PF01448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTCACAGT	.	5	BLCA
CYR61	0	.	GRCh37	1	86047927	86047927	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.594G>A	p.%3D	p.L198L	ENST00000451137	3/5	78	52	26	102	102	0	CYR61,synonymous_variant,p.%3D,ENST00000451137,;DDAH1,upstream_gene_variant,,ENST00000535924,;RP11-290M5.4,upstream_gene_variant,,ENST00000609367,;CYR61,downstream_gene_variant,,ENST00000480413,;DDAH1,upstream_gene_variant,,ENST00000467530,;DDAH1,upstream_gene_variant,,ENST00000483110,;DDAH1,upstream_gene_variant,,ENST00000498304,;	A	ENSG00000142871	ENST00000451137	Transcript	synonymous_variant	818	594	198	L	ttG/ttA	.	.	.	1	CYR61	HGNC	2654	protein_coding	YES	CCDS706.1	ENSP00000398736	CYR61_HUMAN	Q6FI18_HUMAN	UPI00000473C9	.	.	.	3/5	.	hmmpanther:PTHR11348,hmmpanther:PTHR11348:SF18,PIRSF_domain:PIRSF036495	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTGATTGC	.	5	BLCA
CYR61	0	.	GRCh37	1	86048116	86048116	+	Missense_Mutation	SNP	C	C	T	rs768362037	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.652C>T	p.Arg218Cys	p.R218C	ENST00000451137	4/5	64	50	13	55	55	0	CYR61,missense_variant,p.Arg218Cys,ENST00000451137,;DDAH1,upstream_gene_variant,,ENST00000535924,;RP11-290M5.4,upstream_gene_variant,,ENST00000609367,;CYR61,downstream_gene_variant,,ENST00000480413,;DDAH1,upstream_gene_variant,,ENST00000467530,;DDAH1,upstream_gene_variant,,ENST00000483110,;DDAH1,upstream_gene_variant,,ENST00000498304,;	T	ENSG00000142871	ENST00000451137	Transcript	missense_variant	876	652	218	R/C	Cgc/Tgc	rs768362037	.	.	1	CYR61	HGNC	2654	protein_coding	YES	CCDS706.1	ENSP00000398736	CYR61_HUMAN	Q6FI18_HUMAN	UPI00000473C9	.	deleterious(0.05)	benign(0.28)	4/5	.	hmmpanther:PTHR11348,hmmpanther:PTHR11348:SF18,PIRSF_domain:PIRSF036495	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGCATC	byFrequency	5	BLCA
ZNHIT6	0	.	GRCh37	1	86173640	86173640	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>A	p.Glu110Lys	p.E110K	ENST00000370574	1/10	34	20	13	43	43	0	ZNHIT6,missense_variant,p.Glu110Lys,ENST00000370574,;ZNHIT6,intron_variant,,ENST00000431532,;	T	ENSG00000117174	ENST00000370574	Transcript	missense_variant	462	328	110	E/K	Gag/Aag	.	.	.	-1	ZNHIT6	HGNC	26089	protein_coding	YES	CCDS707.1	ENSP00000359606	BCD1_HUMAN	.	UPI000006D8D2	.	deleterious_low_confidence(0.04)	benign(0.129)	1/10	.	hmmpanther:PTHR13483:SF3,hmmpanther:PTHR13483	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCATCCT	.	5	BLCA
CLCA4	0	.	GRCh37	1	87033251	87033251	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099G>A	p.Glu367Lys	p.E367K	ENST00000370563	7/14	43	32	11	62	62	0	CLCA4,missense_variant,p.Glu80Lys,ENST00000263723,;CLCA4,missense_variant,p.Glu367Lys,ENST00000370563,;RP4-651E10.4,downstream_gene_variant,,ENST00000456587,;CLCA4,upstream_gene_variant,,ENST00000496322,;	A	ENSG00000016602	ENST00000370563	Transcript	missense_variant	1141	1099	367	E/K	Gaa/Aaa	.	.	.	1	CLCA4	HGNC	2018	protein_coding	YES	CCDS41355.1	ENSP00000359594	CLCA4_HUMAN	Q9NXP1_HUMAN	UPI00000389E8	.	tolerated(0.39)	possibly_damaging(0.457)	7/14	.	PROSITE_profiles:PS50234,hmmpanther:PTHR10579,hmmpanther:PTHR10579:SF2,Gene3D:3.40.50.410,Pfam_domain:PF13519,TIGRFAM_domain:TIGR00868,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATGAAAGA	.	5	BLCA
CA6	0	.	GRCh37	1	9034830	9034830	+	3'Flank	SNP	G	G	C	rs760302783	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000377436	.	26	17	9	43	43	0	CA6,3_prime_UTR_variant,,ENST00000377443,;CA6,downstream_gene_variant,,ENST00000377436,;CA6,downstream_gene_variant,,ENST00000377442,;RN7SL451P,downstream_gene_variant,,ENST00000583026,;CA6,non_coding_transcript_exon_variant,,ENST00000476083,;	C	ENSG00000131686	ENST00000377436	Transcript	downstream_gene_variant	.	.	.	.	.	rs760302783	.	327	1	CA6	HGNC	1380	protein_coding	YES	CCDS57970.1	ENSP00000366654	CAH6_HUMAN	.	UPI00004CA0CB	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGTCCGCTGCA	.	4	BLCA
RPAP2	0	.	GRCh37	1	92811414	92811414	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1631G>A	p.Arg544Lys	p.R544K	ENST00000610020	11/13	61	45	16	64	64	0	RPAP2,missense_variant,p.Arg544Lys,ENST00000610020,;RPAP2,non_coding_transcript_exon_variant,,ENST00000477322,;	A	ENSG00000122484	ENST00000610020	Transcript	missense_variant	1740	1631	544	R/K	aGa/aAa	.	.	.	1	RPAP2	HGNC	25791	protein_coding	YES	CCDS740.1	ENSP00000476948	RPAP2_HUMAN	.	UPI0000074323	.	tolerated(0.44)	possibly_damaging(0.452)	11/13	.	hmmpanther:PTHR14732:SF0,hmmpanther:PTHR14732	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATAGAAATA	.	5	BLCA
DR1	0	.	GRCh37	1	93812256	93812256	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54C>T	p.%3D	p.I18I	ENST00000370272	1/3	88	59	28	89	89	0	DR1,synonymous_variant,p.%3D,ENST00000370267,;DR1,synonymous_variant,p.%3D,ENST00000370272,;RP4-717I23.3,upstream_gene_variant,,ENST00000438777,;RP4-717I23.3,upstream_gene_variant,,ENST00000421202,;RP4-717I23.3,upstream_gene_variant,,ENST00000457387,;RP4-717I23.3,upstream_gene_variant,,ENST00000411670,;RP4-717I23.3,upstream_gene_variant,,ENST00000445076,;RP4-717I23.3,upstream_gene_variant,,ENST00000452347,;RP4-717I23.3,upstream_gene_variant,,ENST00000449305,;RP4-717I23.3,upstream_gene_variant,,ENST00000451302,;RP4-717I23.3,upstream_gene_variant,,ENST00000413606,;	T	ENSG00000117505	ENST00000370272	Transcript	synonymous_variant	812	54	18	I	atC/atT	.	.	.	1	DR1	HGNC	3017	protein_coding	YES	CCDS744.1	ENSP00000359295	NC2B_HUMAN	Q658N3_HUMAN	UPI0000136997	.	.	.	1/3	.	hmmpanther:PTHR11064,Gene3D:1.10.20.10,Pfam_domain:PF00808,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATCAATAA	.	5	BLCA
BCAR3	0	.	GRCh37	1	94033409	94033409	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1975-1G>A	.	p.X659_splice	ENST00000370244	.	39	28	11	63	63	0	BCAR3,splice_acceptor_variant,,ENST00000370243,;BCAR3,splice_acceptor_variant,,ENST00000539242,;BCAR3,splice_acceptor_variant,,ENST00000260502,;BCAR3,splice_acceptor_variant,,ENST00000370247,;BCAR3,splice_acceptor_variant,,ENST00000370244,;BCAR3,non_coding_transcript_exon_variant,,ENST00000538653,;	T	ENSG00000137936	ENST00000370244	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	BCAR3	HGNC	973	protein_coding	YES	CCDS745.1	ENSP00000359264	BCAR3_HUMAN	B3KNL6_HUMAN	UPI000000D971	.	.	.	.	11/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGATCTGGAA	.	2	BLCA
ISG15	0	.	GRCh37	1	949852	949852	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492G>A	p.%3D	p.R164R	ENST00000379389	2/2	27	18	9	54	54	0	ISG15,synonymous_variant,p.%3D,ENST00000379389,;RP11-54O7.11,upstream_gene_variant,,ENST00000458555,;	A	ENSG00000187608	ENST00000379389	Transcript	synonymous_variant	643	492	164	R	cgG/cgA	.	.	.	1	ISG15	HGNC	4053	protein_coding	YES	CCDS6.1	ENSP00000368699	ISG15_HUMAN	.	UPI0000048D70	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCGGAGCTA	.	5	BLCA
TMEM56	0	.	GRCh37	1	95615785	95615785	+	Silent	SNP	C	C	T	rs200020245	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.267C>T	p.%3D	p.N89N	ENST00000370203	4/7	58	45	12	71	71	0	TMEM56,synonymous_variant,p.%3D,ENST00000370203,;TMEM56-RWDD3,synonymous_variant,p.%3D,ENST00000604534,;TMEM56,synonymous_variant,p.%3D,ENST00000455656,;TMEM56,synonymous_variant,p.%3D,ENST00000456991,;TMEM56-RWDD3,upstream_gene_variant,,ENST00000604203,;TMEM56,non_coding_transcript_exon_variant,,ENST00000463375,;	T	ENSG00000152078	ENST00000370203	Transcript	synonymous_variant	558	267	89	N	aaC/aaT	rs200020245	.	.	1	TMEM56	HGNC	26477	protein_coding	YES	CCDS753.1	ENSP00000359222	TMM56_HUMAN	C9JJM2_HUMAN,C9J6J2_HUMAN	UPI00000700A5	.	.	.	4/7	.	PROSITE_profiles:PS50922,hmmpanther:PTHR13439,hmmpanther:PTHR13439:SF1,Pfam_domain:PF03798,SMART_domains:SM00724	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAACGTGAA	byCluster|by1000G	5	BLCA
DPYD	0	.	GRCh37	1	97658765	97658765	+	Missense_Mutation	SNP	C	C	T	rs200687447	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2482G>A	p.Glu828Lys	p.E828K	ENST00000370192	20/23	22	18	4	28	28	0	DPYD,missense_variant,p.Glu828Lys,ENST00000370192,;DPYD-AS1,intron_variant,,ENST00000422980,;	T	ENSG00000188641	ENST00000370192	Transcript	missense_variant	2583	2482	828	E/K	Gaa/Aaa	rs200687447,COSM3493629	.	.	-1	DPYD	HGNC	3012	protein_coding	YES	CCDS30777.1	ENSP00000359211	DPYD_HUMAN	.	UPI0000458949	.	tolerated(0.17)	benign(0.011)	20/23	.	hmmpanther:PTHR11938,hmmpanther:PTHR11938:SF5,Pfam_domain:PF01180,Gene3D:3.20.20.70,TIGRFAM_domain:TIGR01037,Superfamily_domains:SSF51395	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTCTTCGATCA	byCluster|by1000G	3	BLCA
MKKS	0	.	GRCh37	20	10388273	10388273	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1263C>T	p.%3D	p.I421I	ENST00000347364	5/6	25	19	6	23	23	0	MKKS,synonymous_variant,p.%3D,ENST00000399054,;MKKS,synonymous_variant,p.%3D,ENST00000347364,;	A	ENSG00000125863	ENST00000347364	Transcript	synonymous_variant	2026	1263	421	I	atC/atT	.	.	.	-1	MKKS	HGNC	7108	protein_coding	YES	CCDS13111.1	ENSP00000246062	MKKS_HUMAN	B7Z3W9_HUMAN	UPI000012F199	.	.	.	5/6	.	hmmpanther:PTHR11353,hmmpanther:PTHR11353:SF12,Pfam_domain:PF00118,Gene3D:1.10.560.10,Superfamily_domains:SSF48592	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TGTCTGATATA	.	2	BLCA
JAG1	0	.	GRCh37	20	10622450	10622450	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2663G>A	p.Gly888Glu	p.G888E	ENST00000254958	22/26	113	80	32	138	138	0	JAG1,missense_variant,p.Gly729Glu,ENST00000423891,;JAG1,missense_variant,p.Gly888Glu,ENST00000254958,;JAG1,downstream_gene_variant,,ENST00000488480,;SLX4IP,downstream_gene_variant,,ENST00000488816,;	T	ENSG00000101384	ENST00000254958	Transcript	missense_variant	3179	2663	888	G/E	gGa/gAa	.	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	deleterious(0)	probably_damaging(1)	22/26	.	hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,SMART_domains:SM00214,SMART_domains:SM00215,Superfamily_domains:SSF57603	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGTCCATTC	.	5	BLCA
JAG1	0	.	GRCh37	20	10639300	10639300	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.510G>A	p.%3D	p.L170L	ENST00000254958	4/26	81	60	21	59	59	0	JAG1,synonymous_variant,p.%3D,ENST00000423891,;JAG1,synonymous_variant,p.%3D,ENST00000254958,;	T	ENSG00000101384	ENST00000254958	Transcript	synonymous_variant	1026	510	170	L	ctG/ctA	.	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	.	.	4/26	.	hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,Pfam_domain:PF01414,SMART_domains:SM00051	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCAGCGT	.	5	BLCA
JAG1	0	.	GRCh37	20	10653511	10653511	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.225C>T	p.%3D	p.F75F	ENST00000254958	2/26	64	29	35	49	49	0	JAG1,synonymous_variant,p.%3D,ENST00000254958,;RP11-103J8.1,upstream_gene_variant,,ENST00000605292,;	A	ENSG00000101384	ENST00000254958	Transcript	synonymous_variant	741	225	75	F	ttC/ttT	CD003520	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	.	.	2/26	.	hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,Pfam_domain:PF07657,Gene3D:2gy5A03	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGAAGTA	.	5	BLCA
ESF1	0	.	GRCh37	20	13747451	13747451	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1639G>A	p.Glu547Lys	p.E547K	ENST00000202816	8/14	90	72	17	82	82	0	ESF1,missense_variant,p.Glu547Lys,ENST00000202816,;	T	ENSG00000089048	ENST00000202816	Transcript	missense_variant	1747	1639	547	E/K	Gaa/Aaa	.	.	.	-1	ESF1	HGNC	15898	protein_coding	YES	CCDS13117.1	ENSP00000202816	ESF1_HUMAN	.	UPI00001285C8	.	deleterious(0)	probably_damaging(0.985)	8/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12202	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCTTCATCTT	.	3	BLCA
NDUFAF5	0	.	GRCh37	20	13797567	13797567	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.909C>T	p.%3D	p.I303I	ENST00000378106	10/11	78	62	15	86	86	0	NDUFAF5,synonymous_variant,p.%3D,ENST00000463598,;NDUFAF5,synonymous_variant,p.%3D,ENST00000378106,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000479682,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000487478,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000486772,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000476200,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000475968,;NDUFAF5,non_coding_transcript_exon_variant,,ENST00000479716,;NDUFAF5,downstream_gene_variant,,ENST00000481249,;NDUFAF5,downstream_gene_variant,,ENST00000476536,;NDUFAF5,3_prime_UTR_variant,,ENST00000378081,;	T	ENSG00000101247	ENST00000378106	Transcript	synonymous_variant	1028	909	303	I	atC/atT	.	.	.	1	NDUFAF5	HGNC	15899	protein_coding	YES	CCDS13118.1	ENSP00000367346	NDUF5_HUMAN	.	UPI0000231C9F	.	.	.	10/11	.	Superfamily_domains:SSF53335,Gene3D:3.40.50.150,hmmpanther:PTHR13090	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCTATTA	.	5	BLCA
NSFL1C	0	.	GRCh37	20	1435649	1435649	+	Missense_Mutation	SNP	C	C	T	rs572522929	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.413G>A	p.Arg138Gln	p.R138Q	ENST00000476071	5/10	210	157	53	189	189	0	NSFL1C,missense_variant,p.Arg136Gln,ENST00000353088,;NSFL1C,missense_variant,p.Arg138Gln,ENST00000350991,;NSFL1C,missense_variant,p.Arg25Gln,ENST00000381658,;NSFL1C,missense_variant,p.Arg136Gln,ENST00000216879,;NSFL1C,missense_variant,p.Arg138Gln,ENST00000476071,;NSFL1C,non_coding_transcript_exon_variant,,ENST00000553571,;NSFL1C,non_coding_transcript_exon_variant,,ENST00000461211,;NSFL1C,missense_variant,p.Arg136Gln,ENST00000381653,;NSFL1C,3_prime_UTR_variant,,ENST00000489203,;NSFL1C,3_prime_UTR_variant,,ENST00000470376,;NSFL1C,3_prime_UTR_variant,,ENST00000555944,;NSFL1C,3_prime_UTR_variant,,ENST00000555568,;NSFL1C,downstream_gene_variant,,ENST00000487086,;NSFL1C,downstream_gene_variant,,ENST00000555359,;	T	ENSG00000088833	ENST00000476071	Transcript	missense_variant	507	413	138	R/Q	cGa/cAa	rs572522929	.	.	-1	NSFL1C	HGNC	15912	protein_coding	YES	CCDS56175.1	ENSP00000418529	NSF1C_HUMAN	G3V4V8_HUMAN	UPI0000232DEC	.	tolerated(0.07)	benign(0.003)	5/10	.	hmmpanther:PTHR23333:SF24,hmmpanther:PTHR23333	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTCGCTCC	byFrequency|byCluster|by1000G	5	BLCA
SNX5	0	.	GRCh37	20	17943544	17943544	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51+5474G>A	.	.	ENST00000377768	.	49	25	24	44	43	0	SNX5,intron_variant,,ENST00000377759,;SNX5,intron_variant,,ENST00000377768,;SNX5,intron_variant,,ENST00000431277,;SNX5,intron_variant,,ENST00000419004,;SNX5,downstream_gene_variant,,ENST00000606602,;SNX5,downstream_gene_variant,,ENST00000606557,;SNORD17,non_coding_transcript_exon_variant,,ENST00000390930,;SNX5,intron_variant,,ENST00000469704,;SNX5,intron_variant,,ENST00000490175,;OVOL2,intron_variant,,ENST00000486776,;SNX5,intron_variant,,ENST00000474883,;SNX5,upstream_gene_variant,,ENST00000475716,;SNX5,upstream_gene_variant,,ENST00000483485,;	T	ENSG00000089006	ENST00000377768	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SNX5	HGNC	14969	protein_coding	YES	CCDS13130.1	ENSP00000366998	SNX5_HUMAN	.	UPI0000135B43	.	.	.	.	2/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AAGGTCAGTGC	.	4	BLCA
DEFB129	0	.	GRCh37	20	210320	210320	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.460G>A	p.Asp154Asn	p.D154N	ENST00000246105	2/2	46	31	15	47	47	0	DEFB129,missense_variant,p.Asp154Asn,ENST00000246105,;	A	ENSG00000125903	ENST00000246105	Transcript	missense_variant	491	460	154	D/N	Gat/Aat	.	.	.	1	DEFB129	HGNC	16218	protein_coding	YES	CCDS12992.1	ENSP00000246105	DB129_HUMAN	.	UPI0000042232	.	tolerated(0.34)	benign(0.014)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGATTCT	.	5	BLCA
THBD	0	.	GRCh37	20	23028975	23028975	+	Silent	SNP	G	G	A	rs370082300	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1167C>T	p.%3D	p.V389V	ENST00000377103	1/1	68	33	35	68	68	0	THBD,synonymous_variant,p.%3D,ENST00000377103,;	A	ENSG00000178726	ENST00000377103	Transcript	synonymous_variant	1404	1167	389	V	gtC/gtT	rs370082300	.	.	-1	THBD	HGNC	11784	protein_coding	YES	CCDS13148.1	ENSP00000366307	TRBM_HUMAN	.	UPI00000002BD	.	.	.	1/1	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24036,hmmpanther:PTHR24036:SF5,Gene3D:2.10.25.10,SMART_domains:SM00181,PIRSF_domain:PIRSF001775,SMART_domains:SM00179,Superfamily_domains:SSF57196,Prints_domain:PR00907	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCAGACGCA	byCluster	5	BLCA
ZNF343	0	.	GRCh37	20	2464071	2464071	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1536G>A	p.%3D	p.Q512Q	ENST00000278772	6/6	125	67	57	110	110	0	ZNF343,synonymous_variant,p.%3D,ENST00000278772,;ZNF343,downstream_gene_variant,,ENST00000445484,;ZNF343,non_coding_transcript_exon_variant,,ENST00000465019,;RP4-734P14.4,intron_variant,,ENST00000461548,;	T	ENSG00000088876	ENST00000278772	Transcript	synonymous_variant	2024	1536	512	Q	caG/caA	.	.	.	-1	ZNF343	HGNC	16017	protein_coding	YES	CCDS13028.1	ENSP00000278772	ZN343_HUMAN	.	UPI000013DB8F	.	.	.	6/6	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF00096,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24381:SF97,hmmpanther:PTHR24381,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCTGGTG	.	5	BLCA
ABHD12	0	.	GRCh37	20	25290212	25290212	+	Splice_Site	SNP	C	C	T	rs762526719	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.620-1G>A	.	p.X207_splice	ENST00000376542	.	68	36	32	50	50	0	ABHD12,splice_acceptor_variant,,ENST00000339157,;ABHD12,splice_acceptor_variant,,ENST00000471287,;ABHD12,splice_acceptor_variant,,ENST00000491682,;ABHD12,splice_acceptor_variant,,ENST00000450393,;ABHD12,splice_acceptor_variant,,ENST00000376542,;ABHD12,upstream_gene_variant,,ENST00000576316,;ABHD12,splice_acceptor_variant,,ENST00000481556,;	T	ENSG00000100997	ENST00000376542	Transcript	splice_acceptor_variant	.	.	.	.	.	rs762526719	.	.	-1	ABHD12	HGNC	15868	protein_coding	YES	CCDS13172.1	ENSP00000365725	ABD12_HUMAN	I3L440_HUMAN,I3L294_HUMAN	UPI000006F03A	.	.	.	.	6/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAACCTGGGA	.	5	BLCA
FOXS1	0	.	GRCh37	20	30433194	30433194	+	Missense_Mutation	SNP	C	C	T	rs138908061	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.152G>A	p.Arg51Gln	p.R51Q	ENST00000375978	1/1	78	36	41	72	72	0	FOXS1,missense_variant,p.Arg51Gln,ENST00000375978,;DUSP15,downstream_gene_variant,,ENST00000447647,;DUSP15,downstream_gene_variant,,ENST00000278979,;	T	ENSG00000179772	ENST00000375978	Transcript	missense_variant	227	152	51	R/Q	cGa/cAa	rs138908061	.	.	-1	FOXS1	HGNC	3735	protein_coding	YES	CCDS13192.1	ENSP00000365145	FOXS1_HUMAN	.	UPI000003603C	.	deleterious(0.01)	probably_damaging(0.994)	1/1	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829:SF68,hmmpanther:PTHR11829,Pfam_domain:PF00250,Gene3D:1.10.10.10,SMART_domains:SM00339,Superfamily_domains:SSF46785,Prints_domain:PR00053	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	T:0.0002	T:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAATCGGCCC	byCluster|by1000G	5	BLCA
DNMT3B	0	.	GRCh37	20	31385062	31385062	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1447G>A	p.Glu483Lys	p.E483K	ENST00000328111	14/23	100	48	52	130	130	0	DNMT3B,missense_variant,p.Glu475Lys,ENST00000201963,;DNMT3B,missense_variant,p.Glu463Lys,ENST00000344505,;DNMT3B,missense_variant,p.Glu463Lys,ENST00000353855,;DNMT3B,missense_variant,p.Glu463Lys,ENST00000348286,;DNMT3B,missense_variant,p.Glu421Lys,ENST00000443239,;DNMT3B,missense_variant,p.Glu483Lys,ENST00000328111,;DNMT3B,missense_variant,p.Glu387Lys,ENST00000456297,;DNMT3B,3_prime_UTR_variant,,ENST00000375623,;	A	ENSG00000088305	ENST00000328111	Transcript	missense_variant	1768	1447	483	E/K	Gag/Aag	COSM1713333,COSM1713334	.	.	1	DNMT3B	HGNC	2979	protein_coding	YES	CCDS13205.1	ENSP00000328547	DNM3B_HUMAN	.	UPI0000001046	.	tolerated(0.2)	probably_damaging(0.984)	14/23	.	PROSITE_profiles:PS51533,hmmpanther:PTHR23068:SF9,hmmpanther:PTHR23068,Gene3D:3.30.40.10,Superfamily_domains:SSF57903	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCGAGGGC	.	5	BLCA
CBFA2T2	0	.	GRCh37	20	32210943	32210943	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.560G>A	p.Arg187Gln	p.R187Q	ENST00000346541	6/12	35	16	19	40	40	0	CBFA2T2,missense_variant,p.Arg158Gln,ENST00000397798,;CBFA2T2,missense_variant,p.Arg187Gln,ENST00000375279,;CBFA2T2,missense_variant,p.Arg187Gln,ENST00000346541,;CBFA2T2,missense_variant,p.Arg178Gln,ENST00000342704,;CBFA2T2,missense_variant,p.Arg158Gln,ENST00000492345,;CBFA2T2,missense_variant,p.Arg158Gln,ENST00000344201,;CBFA2T2,missense_variant,p.Arg158Gln,ENST00000397800,;CBFA2T2,missense_variant,p.Arg197Gln,ENST00000359606,;CBFA2T2,non_coding_transcript_exon_variant,,ENST00000491618,;CBFA2T2,downstream_gene_variant,,ENST00000471007,;	A	ENSG00000078699	ENST00000346541	Transcript	missense_variant	1097	560	187	R/Q	cGg/cAg	.	.	.	1	CBFA2T2	HGNC	1536	protein_coding	YES	CCDS13221.1	ENSP00000262653	MTG8R_HUMAN	Q68DC6_HUMAN,D1LYX4_HUMAN,B4DFM9_HUMAN,A2A2D9_HUMAN	UPI0000073E07	.	deleterious(0)	probably_damaging(0.955)	6/12	.	Prints_domain:PR01875,Superfamily_domains:SSF158553,SMART_domains:SM00549,Pfam_domain:PF07531,hmmpanther:PTHR10379,hmmpanther:PTHR10379:SF13,PROSITE_profiles:PS51119	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCAGCGGGAAC	.	3	BLCA
CBFA2T2	0	.	GRCh37	20	32210945	32210945	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>A	p.Glu188Lys	p.E188K	ENST00000346541	6/12	35	15	20	40	40	0	CBFA2T2,missense_variant,p.Glu159Lys,ENST00000397798,;CBFA2T2,missense_variant,p.Glu188Lys,ENST00000375279,;CBFA2T2,missense_variant,p.Glu188Lys,ENST00000346541,;CBFA2T2,missense_variant,p.Glu179Lys,ENST00000342704,;CBFA2T2,missense_variant,p.Glu159Lys,ENST00000492345,;CBFA2T2,missense_variant,p.Glu159Lys,ENST00000344201,;CBFA2T2,missense_variant,p.Glu159Lys,ENST00000397800,;CBFA2T2,missense_variant,p.Glu198Lys,ENST00000359606,;CBFA2T2,non_coding_transcript_exon_variant,,ENST00000491618,;CBFA2T2,downstream_gene_variant,,ENST00000471007,;	A	ENSG00000078699	ENST00000346541	Transcript	missense_variant	1099	562	188	E/K	Gaa/Aaa	.	.	.	1	CBFA2T2	HGNC	1536	protein_coding	YES	CCDS13221.1	ENSP00000262653	MTG8R_HUMAN	Q68DC6_HUMAN,D1LYX4_HUMAN,B4DFM9_HUMAN,A2A2D9_HUMAN	UPI0000073E07	.	deleterious(0)	probably_damaging(0.94)	6/12	.	Prints_domain:PR01875,Superfamily_domains:SSF158553,SMART_domains:SM00549,Pfam_domain:PF07531,hmmpanther:PTHR10379,hmmpanther:PTHR10379:SF13,PROSITE_profiles:PS51119	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCGGGAACTG	.	3	BLCA
PIGU	0	.	GRCh37	20	33222432	33222432	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>A	p.%3D	p.L172L	ENST00000217446	6/12	67	29	38	73	73	0	PIGU,synonymous_variant,p.%3D,ENST00000374820,;PIGU,synonymous_variant,p.%3D,ENST00000452740,;PIGU,synonymous_variant,p.%3D,ENST00000217446,;PIGU,non_coding_transcript_exon_variant,,ENST00000480175,;	T	ENSG00000101464	ENST00000217446	Transcript	synonymous_variant	516	516	172	L	ttG/ttA	.	.	.	-1	PIGU	HGNC	15791	protein_coding	YES	CCDS13239.1	ENSP00000217446	PIGU_HUMAN	.	UPI0000131ABC	.	.	.	6/12	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13121,Pfam_domain:PF06728	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAGTCAAAAT	.	5	BLCA
FAM83C	0	.	GRCh37	20	33874979	33874979	+	Missense_Mutation	SNP	G	G	A	rs199571076	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1603C>T	p.Arg535Trp	p.R535W	ENST00000374408	4/4	51	23	28	45	45	0	FAM83C,missense_variant,p.Arg535Trp,ENST00000374408,;EIF6,upstream_gene_variant,,ENST00000456600,;EIF6,upstream_gene_variant,,ENST00000374436,;EIF6,upstream_gene_variant,,ENST00000374450,;EIF6,upstream_gene_variant,,ENST00000374443,;FAM83C-AS1,downstream_gene_variant,,ENST00000429167,;EIF6,upstream_gene_variant,,ENST00000462894,;EIF6,upstream_gene_variant,,ENST00000447927,;EIF6,upstream_gene_variant,,ENST00000440766,;EIF6,upstream_gene_variant,,ENST00000415116,;	A	ENSG00000125998	ENST00000374408	Transcript	missense_variant	1700	1603	535	R/W	Cgg/Tgg	rs199571076	.	.	-1	FAM83C	HGNC	16121	protein_coding	YES	CCDS13251.1	ENSP00000363529	FA83C_HUMAN	.	UPI0000072DC0	.	tolerated_low_confidence(0.18)	benign(0)	4/4	.	hmmpanther:PTHR16181,hmmpanther:PTHR16181:SF3	A:0.0004	A:0	A:0	.	A:0	A:0.001	A:0.001	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGAAGGG	byFrequency|byCluster|by1000G	5	BLCA
GDF5	0	.	GRCh37	20	34025706	34025706	+	Translation_Start_Site	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000374372	3/4	32	11	20	38	38	0	GDF5,start_lost,p.Met1?,ENST00000374372,;GDF5,start_lost,p.Met1?,ENST00000374369,;GDF5OS,downstream_gene_variant,,ENST00000374375,;	T	ENSG00000125965	ENST00000374372	Transcript	start_lost	507	3	1	M/I	atG/atA	.	.	.	-1	GDF5	HGNC	4220	protein_coding	YES	CCDS13254.1	ENSP00000363492	GDF5_HUMAN	D3YR76_HUMAN,D3YQT0_HUMAN	UPI000002E33B	.	deleterious_low_confidence(0)	benign(0.107)	3/4	.	Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCATCCT	.	5	BLCA
ATRN	0	.	GRCh37	20	3564650	3564650	+	Missense_Mutation	SNP	A	A	G	rs753407058	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2870A>G	p.Gln957Arg	p.Q957R	ENST00000262919	17/29	299	229	69	307	307	0	ATRN,missense_variant,p.Gln957Arg,ENST00000446916,;ATRN,missense_variant,p.Gln957Arg,ENST00000262919,;	G	ENSG00000088812	ENST00000262919	Transcript	missense_variant	2938	2870	957	Q/R	cAg/cGg	rs753407058	.	.	1	ATRN	HGNC	885	protein_coding	YES	CCDS13053.1	ENSP00000262919	ATRN_HUMAN	.	UPI000012661C	.	tolerated(1)	benign(0.01)	17/29	.	hmmpanther:PTHR10574:SF223,hmmpanther:PTHR10574,SMART_domains:SM00423	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAAGCAGTGTG	.	3	BLCA
RPN2	0	.	GRCh37	20	35858406	35858406	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1525G>A	p.Glu509Lys	p.E509K	ENST00000237530	13/17	73	31	42	105	105	0	RPN2,missense_variant,p.Glu509Lys,ENST00000237530,;RPN2,missense_variant,p.Glu48Lys,ENST00000437329,;RPN2,missense_variant,p.Glu477Lys,ENST00000373622,;RPN2,missense_variant,p.Glu34Lys,ENST00000456400,;RPN2,non_coding_transcript_exon_variant,,ENST00000470352,;	A	ENSG00000118705	ENST00000237530	Transcript	missense_variant	1836	1525	509	E/K	Gaa/Aaa	.	.	.	1	RPN2	HGNC	10382	protein_coding	YES	CCDS13291.1	ENSP00000237530	RPN2_HUMAN	.	UPI0000000C52	.	tolerated(0.16)	benign(0.278)	13/17	.	hmmpanther:PTHR12640:SF0,hmmpanther:PTHR12640,Pfam_domain:PF05817	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAAGAAGCT	.	5	BLCA
SIGLEC1	0	.	GRCh37	20	3674187	3674187	+	Missense_Mutation	SNP	C	C	T	rs527815791	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3415G>A	p.Val1139Ile	p.V1139I	ENST00000344754	13/21	26	18	7	17	17	0	SIGLEC1,missense_variant,p.Val1139Ile,ENST00000344754,;SIGLEC1,missense_variant,p.Val1139Ile,ENST00000202578,;SIGLEC1,upstream_gene_variant,,ENST00000419548,;	T	ENSG00000088827	ENST00000344754	Transcript	missense_variant	3415	3415	1139	V/I	Gtc/Atc	rs527815791	.	.	-1	SIGLEC1	HGNC	11127	protein_coding	YES	CCDS13060.1	ENSP00000341141	SN_HUMAN	.	UPI0000049BA6	.	deleterious(0.01)	probably_damaging(0.969)	13/21	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF46,Pfam_domain:PF13895,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGACGTTGG	by1000G	5	BLCA
SPEF1	0	.	GRCh37	20	3758946	3758946	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624G>C	p.Arg208Ser	p.R208S	ENST00000379756	7/7	21	13	8	22	22	0	SPEF1,missense_variant,p.Arg208Ser,ENST00000379756,;SPEF1,non_coding_transcript_exon_variant,,ENST00000471499,;SPEF1,non_coding_transcript_exon_variant,,ENST00000463490,;	G	ENSG00000101222	ENST00000379756	Transcript	missense_variant	785	624	208	R/S	agG/agC	.	.	.	-1	SPEF1	HGNC	15874	protein_coding	YES	CCDS13063.2	ENSP00000369080	SPEF1_HUMAN	.	UPI000020694C	.	tolerated(0.06)	benign(0.23)	7/7	.	hmmpanther:PTHR12509,hmmpanther:PTHR12509:SF11,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCGCCTTAC	.	5	BLCA
PLCG1	0	.	GRCh37	20	39794432	39794432	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1765G>A	p.Glu589Lys	p.E589K	ENST00000373272	16/32	31	10	21	47	47	0	PLCG1,missense_variant,p.Glu589Lys,ENST00000373272,;PLCG1,missense_variant,p.Glu589Lys,ENST00000244007,;PLCG1,missense_variant,p.Glu589Lys,ENST00000373271,;PLCG1,non_coding_transcript_exon_variant,,ENST00000473632,;PLCG1,downstream_gene_variant,,ENST00000483646,;PLCG1,upstream_gene_variant,,ENST00000465571,;PLCG1,upstream_gene_variant,,ENST00000599785,;PLCG1,downstream_gene_variant,,ENST00000470528,;PLCG1,upstream_gene_variant,,ENST00000483175,;PLCG1,upstream_gene_variant,,ENST00000477870,;PLCG1,downstream_gene_variant,,ENST00000492148,;	A	ENSG00000124181	ENST00000373272	Transcript	missense_variant	2170	1765	589	E/K	Gag/Aag	COSM3389746,COSM723675	.	.	1	PLCG1	HGNC	9065	protein_coding	YES	CCDS13313.1	ENSP00000362369	PLCG1_HUMAN	.	UPI00001B94DD	.	deleterious(0.04)	probably_damaging(1)	16/32	.	PROSITE_profiles:PS50001,hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF52,Pfam_domain:PF00017,Gene3D:3.30.505.10,SMART_domains:SM00233,PIRSF_domain:PIRSF000952,SMART_domains:SM00252,Superfamily_domains:SSF55550	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTGAGACC	.	5	BLCA
TBC1D20	0	.	GRCh37	20	420971	420971	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.689C>T	p.Ser230Phe	p.S230F	ENST00000354200	6/8	32	13	18	25	25	0	TBC1D20,missense_variant,p.Ser230Phe,ENST00000354200,;TBC1D20,non_coding_transcript_exon_variant,,ENST00000494633,;TBC1D20,non_coding_transcript_exon_variant,,ENST00000461188,;TBC1D20,missense_variant,p.Ser230Phe,ENST00000461304,;	A	ENSG00000125875	ENST00000354200	Transcript	missense_variant	837	689	230	S/F	tCt/tTt	.	.	.	-1	TBC1D20	HGNC	16133	protein_coding	YES	CCDS13002.1	ENSP00000346139	TBC20_HUMAN	B9A6M1_HUMAN	UPI000006D549	.	deleterious(0.01)	benign(0.367)	6/8	.	PROSITE_profiles:PS50086,hmmpanther:PTHR20913:SF10,hmmpanther:PTHR20913,Pfam_domain:PF00566,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCAGACAGG	.	5	BLCA
SGK2	0	.	GRCh37	20	42208668	42208668	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1086C>G	p.His362Gln	p.H362Q	ENST00000341458	11/12	58	23	35	65	65	0	SGK2,missense_variant,p.His302Gln,ENST00000373100,;SGK2,missense_variant,p.His302Gln,ENST00000423407,;SGK2,missense_variant,p.His301Gln,ENST00000373077,;SGK2,missense_variant,p.His362Gln,ENST00000341458,;SGK2,missense_variant,p.His302Gln,ENST00000373092,;SGK2,missense_variant,p.His328Gln,ENST00000426287,;SGK2,3_prime_UTR_variant,,ENST00000496343,;	G	ENSG00000101049	ENST00000341458	Transcript	missense_variant	1305	1086	362	H/Q	caC/caG	.	.	.	1	SGK2	HGNC	13900	protein_coding	YES	CCDS13320.1	ENSP00000340608	SGK2_HUMAN	.	UPI0000033528	.	tolerated(1)	benign(0.01)	11/12	.	PROSITE_profiles:PS51285,hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF121,Gene3D:1.10.510.10,SMART_domains:SM00133,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCACAAGAG	.	5	BLCA
ZMYND8	0	.	GRCh37	20	45850111	45850111	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3133C>T	p.Gln1045Ter	p.Q1045*	ENST00000461685	20/23	21	7	14	38	38	0	ZMYND8,stop_gained,p.Gln962Ter,ENST00000446994,;ZMYND8,stop_gained,p.Gln993Ter,ENST00000372023,;ZMYND8,stop_gained,p.Gln1071Ter,ENST00000355972,;ZMYND8,stop_gained,p.Gln1020Ter,ENST00000360911,;ZMYND8,stop_gained,p.Gln1025Ter,ENST00000262975,;ZMYND8,stop_gained,p.Gln1071Ter,ENST00000311275,;ZMYND8,stop_gained,p.Gln1098Ter,ENST00000536340,;ZMYND8,stop_gained,p.Gln952Ter,ENST00000467200,;ZMYND8,stop_gained,p.Gln1019Ter,ENST00000540497,;ZMYND8,stop_gained,p.Gln1045Ter,ENST00000352431,;ZMYND8,stop_gained,p.Gln1071Ter,ENST00000396281,;ZMYND8,stop_gained,p.Gln939Ter,ENST00000458360,;ZMYND8,stop_gained,p.Gln1091Ter,ENST00000471951,;ZMYND8,stop_gained,p.Gln1045Ter,ENST00000461685,;	A	ENSG00000101040	ENST00000461685	Transcript	stop_gained	3133	3133	1045	Q/*	Cag/Tag	.	.	.	-1	ZMYND8	HGNC	9397	protein_coding	YES	CCDS13405.1	ENSP00000418210	PKCB1_HUMAN	Q5TH08_HUMAN,Q5TH07_HUMAN	UPI00001BDF63	.	.	.	20/23	.	hmmpanther:PTHR24102:SF13,hmmpanther:PTHR24102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTGCTGAG	.	5	BLCA
ZNFX1	0	.	GRCh37	20	47887048	47887048	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1301C>T	p.Thr434Ile	p.T434I	ENST00000396105	3/14	123	43	80	140	140	0	ZNFX1,missense_variant,p.Thr434Ile,ENST00000371752,;ZNFX1,missense_variant,p.Thr238Ile,ENST00000455070,;ZNFX1,missense_variant,p.Thr434Ile,ENST00000371754,;ZNFX1,missense_variant,p.Thr434Ile,ENST00000396105,;ZNFX1,missense_variant,p.Thr434Ile,ENST00000371744,;	A	ENSG00000124201	ENST00000396105	Transcript	missense_variant	1548	1301	434	T/I	aCa/aTa	.	.	.	-1	ZNFX1	HGNC	29271	protein_coding	YES	CCDS13417.1	ENSP00000379412	ZNFX1_HUMAN	Q5JXR5_HUMAN	UPI000012DD83	.	tolerated(0.44)	benign(0.022)	3/14	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF341	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTGTGTCA	.	5	BLCA
CSNK2A1	0	.	GRCh37	20	480537	480540	+	Frame_Shift_Del	DEL	CAAA	CAAA	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	CAAA	CAAA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252_255delTTTG	p.Ile84MetfsTer4	p.I84Mfs*4	ENST00000217244	5/14	175	102	73	180	180	0	CSNK2A1,frameshift_variant,p.Ile84MetfsTer4,ENST00000349736,;CSNK2A1,frameshift_variant,p.Ile84MetfsTer4,ENST00000400227,;CSNK2A1,frameshift_variant,p.Ile84MetfsTer4,ENST00000217244,;CSNK2A1,5_prime_UTR_variant,,ENST00000460062,;CSNK2A1,5_prime_UTR_variant,,ENST00000400217,;CSNK2A1,downstream_gene_variant,,ENST00000609525,;CSNK2A1,downstream_gene_variant,,ENST00000608066,;CSNK2A1,non_coding_transcript_exon_variant,,ENST00000609606,;CSNK2A1,downstream_gene_variant,,ENST00000608490,;	-	ENSG00000101266	ENST00000217244	Transcript	frameshift_variant	628-631	252-255	84-85	IL/X	atTTTG/at	.	.	.	-1	CSNK2A1	HGNC	2457	protein_coding	YES	CCDS13003.1	ENSP00000217244	CSK21_HUMAN	.	UPI0000000CB5	.	.	.	5/14	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50011,hmmpanther:PTHR24054:SF28,hmmpanther:PTHR24054,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATTCTCCAAAATCTT	.	3	BLCA
SLC23A2	0	.	GRCh37	20	4850477	4850477	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1250+75G>A	.	.	ENST00000379333	.	24	10	14	16	16	0	SLC23A2,intron_variant,,ENST00000423430,;SLC23A2,intron_variant,,ENST00000379333,;SLC23A2,intron_variant,,ENST00000424750,;SLC23A2,intron_variant,,ENST00000338244,;SNORA31,downstream_gene_variant,,ENST00000516287,;SLC23A2,non_coding_transcript_exon_variant,,ENST00000468355,;SLC23A2,downstream_gene_variant,,ENST00000496331,;	T	ENSG00000089057	ENST00000379333	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	SLC23A2	HGNC	10973	protein_coding	YES	CCDS13085.1	ENSP00000368637	S23A2_HUMAN	Q4ZGM1_HUMAN	UPI0000136292	.	.	.	.	12/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCAAGGT	.	5	BLCA
CSNK2A1	0	.	GRCh37	20	485835	485835	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140G>A	p.Arg47Gln	p.R47Q	ENST00000217244	4/14	56	35	21	67	67	0	CSNK2A1,missense_variant,p.Arg47Gln,ENST00000349736,;CSNK2A1,missense_variant,p.Arg47Gln,ENST00000400227,;CSNK2A1,missense_variant,p.Arg47Gln,ENST00000609525,;CSNK2A1,missense_variant,p.Arg47Gln,ENST00000608066,;CSNK2A1,missense_variant,p.Arg47Gln,ENST00000217244,;CSNK2A1,5_prime_UTR_variant,,ENST00000460062,;CSNK2A1,5_prime_UTR_variant,,ENST00000400217,;CSNK2A1,non_coding_transcript_exon_variant,,ENST00000609606,;CSNK2A1,non_coding_transcript_exon_variant,,ENST00000608490,;	T	ENSG00000101266	ENST00000217244	Transcript	missense_variant	516	140	47	R/Q	cGa/cAa	.	.	.	-1	CSNK2A1	HGNC	2457	protein_coding	YES	CCDS13003.1	ENSP00000217244	CSK21_HUMAN	.	UPI0000000CB5	.	deleterious(0.01)	possibly_damaging(0.87)	4/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24054:SF28,hmmpanther:PTHR24054,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCGGCCT	.	5	BLCA
TMEM230	0	.	GRCh37	20	5081551	5081551	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.438G>A	p.%3D	p.L146L	ENST00000342308	5/5	61	30	31	48	48	0	TMEM230,synonymous_variant,p.%3D,ENST00000379286,;TMEM230,synonymous_variant,p.%3D,ENST00000379283,;TMEM230,synonymous_variant,p.%3D,ENST00000379277,;TMEM230,synonymous_variant,p.%3D,ENST00000379299,;TMEM230,synonymous_variant,p.%3D,ENST00000342308,;TMEM230,synonymous_variant,p.%3D,ENST00000202834,;TMEM230,synonymous_variant,p.%3D,ENST00000379279,;RNA5SP474,upstream_gene_variant,,ENST00000391234,;TMEM230,non_coding_transcript_exon_variant,,ENST00000492419,;	T	ENSG00000089063	ENST00000342308	Transcript	synonymous_variant	497	438	146	L	ctG/ctA	.	.	.	-1	TMEM230	HGNC	15876	protein_coding	YES	CCDS33438.1	ENSP00000341364	TM230_HUMAN	Q5JWB9_HUMAN	UPI0000470ABB	.	.	.	5/5	.	Pfam_domain:PF05915,hmmpanther:PTHR15664,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGATCAGCAC	.	5	BLCA
BCAS1	0	.	GRCh37	20	52601874	52601874	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1092G>A	p.%3D	p.E364E	ENST00000395961	7/12	147	112	35	149	149	0	BCAS1,synonymous_variant,p.%3D,ENST00000395961,;BCAS1,synonymous_variant,p.%3D,ENST00000371435,;BCAS1,synonymous_variant,p.%3D,ENST00000434986,;BCAS1,synonymous_variant,p.%3D,ENST00000422805,;BCAS1,synonymous_variant,p.%3D,ENST00000371440,;BCAS1,synonymous_variant,p.%3D,ENST00000448484,;	T	ENSG00000064787	ENST00000395961	Transcript	synonymous_variant	1259	1092	364	E	gaG/gaA	.	.	.	-1	BCAS1	HGNC	974	protein_coding	YES	CCDS13444.1	ENSP00000379290	BCAS1_HUMAN	.	UPI000013D2E2	.	.	.	7/12	.	hmmpanther:PTHR15016	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCTCCTT	.	5	BLCA
CASS4	0	.	GRCh37	20	55027135	55027135	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.903G>A	p.%3D	p.Q301Q	ENST00000371336	5/6	77	36	41	60	60	0	CASS4,synonymous_variant,p.%3D,ENST00000371336,;CASS4,synonymous_variant,p.%3D,ENST00000360314,;CASS4,intron_variant,,ENST00000434344,;CASS4,non_coding_transcript_exon_variant,,ENST00000497244,;	A	ENSG00000087589	ENST00000371336	Transcript	synonymous_variant	1104	903	301	Q	caG/caA	.	.	.	1	CASS4	HGNC	15878	protein_coding	YES	CCDS33492.1	ENSP00000360387	CASS4_HUMAN	.	UPI00001285DB	.	.	.	5/6	.	hmmpanther:PTHR10654:SF12,hmmpanther:PTHR10654	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCAGAAAAA	.	5	BLCA
PMEPA1	0	.	GRCh37	20	56227183	56227183	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790A>G	p.Thr264Ala	p.T264A	ENST00000341744	4/4	11	7	4	9	9	0	PMEPA1,missense_variant,p.Thr214Ala,ENST00000265626,;PMEPA1,missense_variant,p.Thr264Ala,ENST00000341744,;PMEPA1,missense_variant,p.Thr214Ala,ENST00000395816,;PMEPA1,missense_variant,p.Thr229Ala,ENST00000347215,;PMEPA1,missense_variant,p.Thr214Ala,ENST00000395814,;PMEPA1,downstream_gene_variant,,ENST00000395819,;PMEPA1,downstream_gene_variant,,ENST00000414037,;	C	ENSG00000124225	ENST00000341744	Transcript	missense_variant	1110	790	264	T/A	Aca/Gca	.	.	.	-1	PMEPA1	HGNC	14107	protein_coding	YES	CCDS13463.1	ENSP00000345826	PMEPA_HUMAN	.	UPI000004970A	.	tolerated_low_confidence(1)	benign(0)	4/4	.	hmmpanther:PTHR16514,hmmpanther:PTHR16514:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGTGTGTGGT	.	2	BLCA
CDH26	0	.	GRCh37	20	58559791	58559791	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639G>A	p.%3D	p.L213L	ENST00000348616	6/18	144	113	30	155	155	0	CDH26,synonymous_variant,p.%3D,ENST00000244047,;CDH26,synonymous_variant,p.%3D,ENST00000348616,;CDH26,upstream_gene_variant,,ENST00000370991,;CDH26,upstream_gene_variant,,ENST00000477058,;	A	ENSG00000124215	ENST00000348616	Transcript	synonymous_variant	939	639	213	L	ctG/ctA	.	.	.	1	CDH26	HGNC	15902	protein_coding	YES	CCDS13485.1	ENSP00000339390	CAD26_HUMAN	.	UPI000013CB55	.	.	.	6/18	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF78,hmmpanther:PTHR24027,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACTGAAAGA	.	5	BLCA
ADRM1	0	.	GRCh37	20	60879624	60879624	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321C>T	p.%3D	p.F107F	ENST00000253003	3/10	42	36	6	51	51	0	ADRM1,synonymous_variant,p.%3D,ENST00000253003,;LAMA5,downstream_gene_variant,,ENST00000252999,;RP11-157P1.4,downstream_gene_variant,,ENST00000414042,;ADRM1,non_coding_transcript_exon_variant,,ENST00000465805,;ADRM1,intron_variant,,ENST00000462554,;LAMA5,downstream_gene_variant,,ENST00000492698,;ADRM1,downstream_gene_variant,,ENST00000491935,;LAMA5,downstream_gene_variant,,ENST00000495695,;LAMA5,downstream_gene_variant,,ENST00000370691,;	T	ENSG00000130706	ENST00000253003	Transcript	synonymous_variant	367	321	107	F	ttC/ttT	.	.	.	1	ADRM1	HGNC	15759	protein_coding	YES	CCDS13496.1	ENSP00000253003	ADRM1_HUMAN	.	UPI0000125605	.	.	.	3/10	.	hmmpanther:PTHR12225,Pfam_domain:PF04683	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTGGAT	.	4	BLCA
ZBTB46	0	.	GRCh37	20	62421594	62421594	+	Missense_Mutation	SNP	G	G	A	rs748478138	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.517C>T	p.Arg173Trp	p.R173W	ENST00000245663	2/5	18	8	10	19	19	0	ZBTB46,missense_variant,p.Arg173Trp,ENST00000302995,;ZBTB46,missense_variant,p.Arg173Trp,ENST00000395104,;ZBTB46,missense_variant,p.Arg173Trp,ENST00000245663,;ZBTB46,upstream_gene_variant,,ENST00000480766,;	A	ENSG00000130584	ENST00000245663	Transcript	missense_variant	668	517	173	R/W	Cgg/Tgg	rs748478138	.	.	-1	ZBTB46	HGNC	16094	protein_coding	YES	CCDS13538.1	ENSP00000245663	ZBT46_HUMAN	.	UPI0000206406	.	deleterious(0)	probably_damaging(1)	2/5	.	hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF118	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGCCGTGCCA	byFrequency	5	BLCA
SCRT2	0	.	GRCh37	20	644764	644764	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.475G>A	p.Glu159Lys	p.E159K	ENST00000246104	2/2	16	11	5	15	15	0	SCRT2,missense_variant,p.Glu159Lys,ENST00000246104,;RP5-850E9.3,intron_variant,,ENST00000488788,;	T	ENSG00000215397	ENST00000246104	Transcript	missense_variant	1053	475	159	E/K	Gag/Aag	.	.	.	-1	SCRT2	HGNC	15952	protein_coding	YES	CCDS13006.1	ENSP00000246104	SCRT2_HUMAN	.	UPI00002318AA	.	deleterious(0)	possibly_damaging(0.752)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR11389:SF345,hmmpanther:PTHR11389,PROSITE_patterns:PS00028,Pfam_domain:PF00096,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCACTCGGCGC	.	2	BLCA
PLCB1	0	.	GRCh37	20	8637830	8637830	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.595-1G>A	.	p.X199_splice	ENST00000338037	.	54	36	18	68	68	0	PLCB1,splice_acceptor_variant,,ENST00000378641,;PLCB1,splice_acceptor_variant,,ENST00000338037,;PLCB1,splice_acceptor_variant,,ENST00000378637,;PLCB1,upstream_gene_variant,,ENST00000487210,;	A	ENSG00000182621	ENST00000338037	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	PLCB1	HGNC	15917	protein_coding	YES	CCDS13102.1	ENSP00000338185	PLCB1_HUMAN	.	UPI0000131A8F	.	.	.	.	7/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGAATGA	.	5	BLCA
NRIP1	0	.	GRCh37	21	16338404	16338404	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2110G>A	p.Glu704Lys	p.E704K	ENST00000400202	3/3	77	46	31	82	82	0	NRIP1,missense_variant,p.Glu704Lys,ENST00000400202,;NRIP1,missense_variant,p.Glu704Lys,ENST00000318948,;NRIP1,missense_variant,p.Glu704Lys,ENST00000400199,;NRIP1,downstream_gene_variant,,ENST00000411932,;AF127577.10,downstream_gene_variant,,ENST00000446301,;	T	ENSG00000180530	ENST00000400202	Transcript	missense_variant	2823	2110	704	E/K	Gaa/Aaa	.	.	.	-1	NRIP1	HGNC	8001	protein_coding	YES	CCDS13568.1	ENSP00000383063	NRIP1_HUMAN	N0GWB6_HUMAN,N0GW17_HUMAN,C9J130_HUMAN	UPI000004A0A8	.	deleterious(0.01)	probably_damaging(0.995)	3/3	.	hmmpanther:PTHR15088	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTATTT	.	5	BLCA
NRIP1	0	.	GRCh37	21	16340517	16340517	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4G>A	.	.	ENST00000400202	3/3	35	19	16	42	42	0	NRIP1,5_prime_UTR_variant,,ENST00000400202,;NRIP1,5_prime_UTR_variant,,ENST00000318948,;NRIP1,5_prime_UTR_variant,,ENST00000400199,;NRIP1,5_prime_UTR_variant,,ENST00000411932,;AF127577.10,downstream_gene_variant,,ENST00000446301,;AF127577.11,upstream_gene_variant,,ENST00000436429,;	T	ENSG00000180530	ENST00000400202	Transcript	5_prime_UTR_variant	710	.	.	.	.	.	.	.	-1	NRIP1	HGNC	8001	protein_coding	YES	CCDS13568.1	ENSP00000383063	NRIP1_HUMAN	N0GWB6_HUMAN,N0GW17_HUMAN,C9J130_HUMAN	UPI000004A0A8	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTCAATAG	.	5	BLCA
USP25	0	.	GRCh37	21	17198628	17198628	+	Silent	SNP	C	C	T	rs533572516	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1410C>T	p.%3D	p.D470D	ENST00000285679	13/24	88	69	19	99	99	0	USP25,synonymous_variant,p.%3D,ENST00000400183,;USP25,synonymous_variant,p.%3D,ENST00000285679,;USP25,synonymous_variant,p.%3D,ENST00000285681,;USP25,intron_variant,,ENST00000351097,;USP25,intron_variant,,ENST00000453553,;	T	ENSG00000155313	ENST00000285679	Transcript	synonymous_variant	1779	1410	470	D	gaC/gaT	rs533572516	.	.	1	USP25	HGNC	12624	protein_coding	YES	CCDS33515.1	ENSP00000285679	UBP25_HUMAN	Q9HA22_HUMAN	UPI000002B680	.	.	.	13/24	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF111,hmmpanther:PTHR24006,Pfam_domain:PF00443	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGACGATAT	by1000G	5	BLCA
LTN1	0	.	GRCh37	21	30304842	30304842	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5158C>T	p.Gln1720Ter	p.Q1720*	ENST00000389194	28/30	177	115	61	209	209	0	LTN1,stop_gained,p.Gln1674Ter,ENST00000361371,;LTN1,stop_gained,p.Gln1720Ter,ENST00000389194,;	A	ENSG00000198862	ENST00000389194	Transcript	stop_gained	5164	5158	1720	Q/*	Cag/Tag	.	.	.	-1	LTN1	HGNC	13082	protein_coding	YES	CCDS33527.2	ENSP00000373846	LTN1_HUMAN	G1UI34_HUMAN	UPI000049DF6C	.	.	.	28/30	.	hmmpanther:PTHR12389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAACAG	.	5	BLCA
LTN1	0	.	GRCh37	21	30343595	30343595	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1120G>C	p.Glu374Gln	p.E374Q	ENST00000389194	7/30	65	44	20	76	76	0	LTN1,missense_variant,p.Glu328Gln,ENST00000361371,;LTN1,missense_variant,p.Glu374Gln,ENST00000389195,;LTN1,missense_variant,p.Glu374Gln,ENST00000389194,;LTN1,missense_variant,p.Glu257Gln,ENST00000483326,;	G	ENSG00000198862	ENST00000389194	Transcript	missense_variant	1126	1120	374	E/Q	Gag/Cag	.	.	.	-1	LTN1	HGNC	13082	protein_coding	YES	CCDS33527.2	ENSP00000373846	LTN1_HUMAN	G1UI34_HUMAN	UPI000049DF6C	.	tolerated(0.11)	possibly_damaging(0.684)	7/30	.	Superfamily_domains:SSF48371,hmmpanther:PTHR12389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAATAG	.	5	BLCA
SOD1	0	.	GRCh37	21	33036168	33036168	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138C>T	p.%3D	p.F46F	ENST00000270142	2/5	64	49	14	65	65	0	SOD1,synonymous_variant,p.%3D,ENST00000270142,;SOD1,synonymous_variant,p.%3D,ENST00000389995,;AP000253.1,upstream_gene_variant,,ENST00000449339,;SNORA81,upstream_gene_variant,,ENST00000458922,;AP000254.8,downstream_gene_variant,,ENST00000609934,;SOD1,non_coding_transcript_exon_variant,,ENST00000470944,;SOD1,non_coding_transcript_exon_variant,,ENST00000476106,;	T	ENSG00000142168	ENST00000270142	Transcript	synonymous_variant	286	138	46	F	ttC/ttT	.	.	.	1	SOD1	HGNC	11179	protein_coding	YES	CCDS33536.1	ENSP00000270142	SODC_HUMAN	.	UPI0000000C20	.	.	.	2/5	.	Prints_domain:PR00068,Superfamily_domains:SSF49329,Pfam_domain:PF00080,Gene3D:2.60.40.200,PROSITE_patterns:PS00087,hmmpanther:PTHR10003:SF33,hmmpanther:PTHR10003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCCATGT	.	5	BLCA
PAXBP1	0	.	GRCh37	21	34133421	34133421	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.924G>C	p.Glu308Asp	p.E308D	ENST00000331923	5/18	222	158	64	294	294	0	PAXBP1,missense_variant,p.Glu308Asp,ENST00000290178,;PAXBP1,missense_variant,p.Glu308Asp,ENST00000331923,;PAXBP1,non_coding_transcript_exon_variant,,ENST00000472588,;PAXBP1,missense_variant,p.Glu308Asp,ENST00000443785,;PAXBP1,non_coding_transcript_exon_variant,,ENST00000464256,;PAXBP1,upstream_gene_variant,,ENST00000466846,;	G	ENSG00000159086	ENST00000331923	Transcript	missense_variant	1114	924	308	E/D	gaG/gaC	.	.	.	-1	PAXBP1	HGNC	13579	protein_coding	YES	CCDS13619.1	ENSP00000328992	PAXB1_HUMAN	Q9NZD7_HUMAN,Q8N6E6_HUMAN,Q8N2J1_HUMAN,B3KY25_HUMAN	UPI000012B294	.	deleterious(0.01)	possibly_damaging(0.493)	5/18	.	hmmpanther:PTHR12214:SF2,hmmpanther:PTHR12214	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGCTCTTC	.	5	BLCA
OLIG1	0	.	GRCh37	21	34442940	34442940	+	Missense_Mutation	SNP	G	G	A	rs772224219	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.388G>A	p.Glu130Lys	p.E130K	ENST00000382348	1/1	13	9	3	23	23	0	OLIG1,missense_variant,p.Glu114Lys,ENST00000333063,;OLIG1,missense_variant,p.Glu130Lys,ENST00000382348,;OLIG1,upstream_gene_variant,,ENST00000426947,;AP000282.2,intron_variant,,ENST00000454622,;AP000282.2,intron_variant,,ENST00000420356,;OLIG1,upstream_gene_variant,,ENST00000498799,;	A	ENSG00000184221	ENST00000382348	Transcript	missense_variant	491	388	130	E/K	Gag/Aag	rs772224219	.	.	1	OLIG1	HGNC	16983	protein_coding	YES	CCDS42920.2	ENSP00000371785	OLIG1_HUMAN	Q59EM0_HUMAN	UPI0000130C80	.	deleterious(0)	probably_damaging(0.989)	1/1	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50888,hmmpanther:PTHR19290:SF7,hmmpanther:PTHR19290,Pfam_domain:PF00010,Gene3D:4.10.280.10,SMART_domains:SM00353,Superfamily_domains:SSF47459	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	TGCGCGAGGTC	.	4	BLCA
SON	0	.	GRCh37	21	34915413	34915413	+	Silent	SNP	C	C	T	rs752533651	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15C>T	p.%3D	p.I5I	ENST00000356577	1/12	82	61	21	108	108	0	SON,synonymous_variant,p.%3D,ENST00000300278,;SON,synonymous_variant,p.%3D,ENST00000381679,;SON,synonymous_variant,p.%3D,ENST00000381692,;SON,synonymous_variant,p.%3D,ENST00000290239,;SON,synonymous_variant,p.%3D,ENST00000356577,;GART,intron_variant,,ENST00000430874,;GART,upstream_gene_variant,,ENST00000441403,;GART,upstream_gene_variant,,ENST00000381815,;GART,upstream_gene_variant,,ENST00000381839,;GART,upstream_gene_variant,,ENST00000361093,;GART,upstream_gene_variant,,ENST00000426819,;GART,upstream_gene_variant,,ENST00000381831,;GART,upstream_gene_variant,,ENST00000438059,;SON,non_coding_transcript_exon_variant,,ENST00000492229,;SON,synonymous_variant,p.%3D,ENST00000455528,;SON,non_coding_transcript_exon_variant,,ENST00000475072,;GART,upstream_gene_variant,,ENST00000476524,;GART,upstream_gene_variant,,ENST00000424203,;	T	ENSG00000159140	ENST00000356577	Transcript	synonymous_variant	490	15	5	I	atC/atT	rs752533651	.	.	1	SON	HGNC	11183	protein_coding	YES	CCDS13629.1	ENSP00000348984	SON_HUMAN	.	UPI0000140BFD	.	.	.	1/12	.	hmmpanther:PTHR12813:SF26,hmmpanther:PTHR12813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATCGAGCA	.	5	BLCA
SON	0	.	GRCh37	21	34922414	34922414	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.877G>A	p.Glu293Lys	p.E293K	ENST00000356577	3/12	60	43	17	66	66	0	SON,missense_variant,p.Glu293Lys,ENST00000381679,;SON,missense_variant,p.Glu293Lys,ENST00000300278,;SON,missense_variant,p.Glu293Lys,ENST00000290239,;SON,missense_variant,p.Glu293Lys,ENST00000356577,;SON,intron_variant,,ENST00000381692,;SON,upstream_gene_variant,,ENST00000421541,;SON,upstream_gene_variant,,ENST00000436227,;SON,downstream_gene_variant,,ENST00000492229,;SON,missense_variant,p.Glu293Lys,ENST00000455528,;SON,downstream_gene_variant,,ENST00000475072,;	A	ENSG00000159140	ENST00000356577	Transcript	missense_variant	1352	877	293	E/K	Gag/Aag	.	.	.	1	SON	HGNC	11183	protein_coding	YES	CCDS13629.1	ENSP00000348984	SON_HUMAN	.	UPI0000140BFD	.	.	benign(0.292)	3/12	.	hmmpanther:PTHR12813:SF26,hmmpanther:PTHR12813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTAGAGCCC	.	5	BLCA
SON	0	.	GRCh37	21	34926598	34926598	+	Silent	SNP	G	G	A	rs746312915	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5061G>A	p.%3D	p.E1687E	ENST00000356577	3/12	44	31	12	64	64	0	SON,synonymous_variant,p.%3D,ENST00000381679,;SON,synonymous_variant,p.%3D,ENST00000300278,;SON,synonymous_variant,p.%3D,ENST00000356577,;SON,synonymous_variant,p.%3D,ENST00000436227,;SON,synonymous_variant,p.%3D,ENST00000290239,;SON,intron_variant,,ENST00000381692,;SON,upstream_gene_variant,,ENST00000421541,;SON,synonymous_variant,p.%3D,ENST00000455528,;	A	ENSG00000159140	ENST00000356577	Transcript	synonymous_variant	5536	5061	1687	E	gaG/gaA	rs746312915	.	.	1	SON	HGNC	11183	protein_coding	YES	CCDS13629.1	ENSP00000348984	SON_HUMAN	.	UPI0000140BFD	.	.	.	3/12	.	hmmpanther:PTHR12813:SF26,hmmpanther:PTHR12813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGAGAGTGA	.	5	BLCA
SON	0	.	GRCh37	21	34931547	34931547	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6333G>A	p.%3D	p.Q2111Q	ENST00000356577	5/12	44	27	16	50	50	0	SON,synonymous_variant,p.%3D,ENST00000421541,;SON,synonymous_variant,p.%3D,ENST00000300278,;SON,synonymous_variant,p.%3D,ENST00000381692,;SON,synonymous_variant,p.%3D,ENST00000436227,;SON,synonymous_variant,p.%3D,ENST00000290239,;SON,synonymous_variant,p.%3D,ENST00000356577,;SON,downstream_gene_variant,,ENST00000381679,;SON,synonymous_variant,p.%3D,ENST00000455528,;DONSON,downstream_gene_variant,,ENST00000439593,;	A	ENSG00000159140	ENST00000356577	Transcript	synonymous_variant	6808	6333	2111	Q	caG/caA	.	.	.	1	SON	HGNC	11183	protein_coding	YES	CCDS13629.1	ENSP00000348984	SON_HUMAN	.	UPI0000140BFD	.	.	.	5/12	.	hmmpanther:PTHR12813:SF26,hmmpanther:PTHR12813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACAGATCGC	.	5	BLCA
RIPPLY3	0	.	GRCh37	21	38390258	38390258	+	Silent	SNP	G	G	A	rs756277029	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324G>A	p.%3D	p.T108T	ENST00000329553	4/4	19	14	5	29	29	0	RIPPLY3,synonymous_variant,p.%3D,ENST00000329553,;RIPPLY3,non_coding_transcript_exon_variant,,ENST00000490393,;RIPPLY3,non_coding_transcript_exon_variant,,ENST00000485272,;	A	ENSG00000183145	ENST00000329553	Transcript	synonymous_variant	534	324	108	T	acG/acA	rs756277029	.	.	1	RIPPLY3	HGNC	3047	protein_coding	YES	CCDS13648.1	ENSP00000331734	DSCR6_HUMAN	.	UPI000012990F	.	.	.	4/4	.	Pfam_domain:PF14998,hmmpanther:PTHR16770,hmmpanther:PTHR16770:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	GCCACGATTGA	.	3	BLCA
RIPPLY3	0	.	GRCh37	21	38390506	38390506	+	Silent	SNP	G	G	A	rs772741736	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.572G>A	p.%3D	p.%3D	ENST00000329553	4/4	14	10	4	15	15	0	RIPPLY3,stop_retained_variant,p.%3D,ENST00000329553,;RIPPLY3,non_coding_transcript_exon_variant,,ENST00000490393,;RIPPLY3,non_coding_transcript_exon_variant,,ENST00000485272,;	A	ENSG00000183145	ENST00000329553	Transcript	stop_retained_variant	782	572	191	*	tGa/tAa	rs772741736	.	.	1	RIPPLY3	HGNC	3047	protein_coding	YES	CCDS13648.1	ENSP00000331734	DSCR6_HUMAN	.	UPI000012990F	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATGAATCA	byFrequency	5	BLCA
DSCR3	0	.	GRCh37	21	38639669	38639669	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-74G>A	.	.	ENST00000309117	1/8	15	7	7	20	20	0	DSCR3,5_prime_UTR_variant,,ENST00000288304,;DSCR3,5_prime_UTR_variant,,ENST00000309117,;DSCR3,5_prime_UTR_variant,,ENST00000398998,;DSCR3,upstream_gene_variant,,ENST00000539844,;DSCR3,upstream_gene_variant,,ENST00000476950,;DSCR3,upstream_gene_variant,,ENST00000399001,;AP001412.1,upstream_gene_variant,,ENST00000608405,;DSCR3,non_coding_transcript_exon_variant,,ENST00000399000,;DSCR3,upstream_gene_variant,,ENST00000498789,;DSCR3,upstream_gene_variant,,ENST00000492514,;DSCR3,upstream_gene_variant,,ENST00000488368,;DSCR3,upstream_gene_variant,,ENST00000480452,;DSCR3,upstream_gene_variant,,ENST00000462467,;DSCR3,non_coding_transcript_exon_variant,,ENST00000475009,;	T	ENSG00000157538	ENST00000309117	Transcript	5_prime_UTR_variant	165	.	.	.	.	.	.	.	-1	DSCR3	HGNC	3044	protein_coding	YES	CCDS33553.1	ENSP00000311399	DSCR3_HUMAN	.	UPI000012990B	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCTTCGTTCT	.	5	BLCA
KCNJ15	0	.	GRCh37	21	39671521	39671521	+	Missense_Mutation	SNP	C	C	T	rs549879402	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.338C>T	p.Ser113Phe	p.S113F	ENST00000328656	4/4	87	59	27	106	106	0	KCNJ15,missense_variant,p.Ser113Phe,ENST00000398928,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000398927,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000328656,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000398930,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000438657,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000398938,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000398934,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000419868,;KCNJ15,missense_variant,p.Ser113Phe,ENST00000398932,;KCNJ15,downstream_gene_variant,,ENST00000398925,;KCNJ15,downstream_gene_variant,,ENST00000549805,;KCNJ15,downstream_gene_variant,,ENST00000417042,;KCNJ15,downstream_gene_variant,,ENST00000548700,;KCNJ15,downstream_gene_variant,,ENST00000549932,;KCNJ15,downstream_gene_variant,,ENST00000547595,;KCNJ15,downstream_gene_variant,,ENST00000549158,;KCNJ15,downstream_gene_variant,,ENST00000547341,;KCNJ15,downstream_gene_variant,,ENST00000551422,;KCNJ15,downstream_gene_variant,,ENST00000443341,;	T	ENSG00000157551	ENST00000328656	Transcript	missense_variant	641	338	113	S/F	tCt/tTt	rs549879402	.	.	1	KCNJ15	HGNC	6261	protein_coding	YES	CCDS13656.1	ENSP00000331698	IRK15_HUMAN	F8VX74_HUMAN,F8VW46_HUMAN,E7EWV2_HUMAN,E7EPG3_HUMAN,C9JTX1_HUMAN,A8MVK1_HUMAN,A8MTZ5_HUMAN	UPI000006E337	.	deleterious(0.01)	possibly_damaging(0.883)	4/4	.	hmmpanther:PTHR11767:SF20,hmmpanther:PTHR11767,Gene3D:1.10.287.70,Pfam_domain:PF01007,PIRSF_domain:PIRSF005465,Superfamily_domains:SSF81324	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCTCTCA	by1000G	5	BLCA
BRWD1	0	.	GRCh37	21	40670409	40670409	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298G>A	p.Val100Ile	p.V100I	ENST00000333229	5/42	142	106	36	175	175	0	BRWD1,missense_variant,p.Val100Ile,ENST00000341322,;BRWD1,missense_variant,p.Val100Ile,ENST00000342449,;BRWD1,missense_variant,p.Val100Ile,ENST00000380800,;BRWD1,missense_variant,p.Val100Ile,ENST00000333229,;BRWD1,non_coding_transcript_exon_variant,,ENST00000470108,;	T	ENSG00000185658	ENST00000333229	Transcript	missense_variant	626	298	100	V/I	Gtc/Atc	.	.	.	-1	BRWD1	HGNC	12760	protein_coding	YES	CCDS13662.1	ENSP00000330753	BRWD1_HUMAN	.	UPI0000163C12	.	deleterious(0.05)	possibly_damaging(0.891)	5/42	.	hmmpanther:PTHR16266:SF26,hmmpanther:PTHR16266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGACTCTTG	.	5	BLCA
HMGN1	0	.	GRCh37	21	40720491	40720491	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28G>A	p.Glu10Lys	p.E10K	ENST00000380749	2/6	18	10	7	17	17	0	HMGN1,missense_variant,p.Glu10Lys,ENST00000380748,;HMGN1,missense_variant,p.Glu10Lys,ENST00000380749,;HMGN1,missense_variant,p.Glu26Lys,ENST00000380747,;HMGN1,upstream_gene_variant,,ENST00000361263,;snoU13,upstream_gene_variant,,ENST00000459446,;Y_RNA,downstream_gene_variant,,ENST00000517106,;HMGN1,non_coding_transcript_exon_variant,,ENST00000485550,;HMGN1,non_coding_transcript_exon_variant,,ENST00000489072,;HMGN1,non_coding_transcript_exon_variant,,ENST00000482192,;HMGN1,non_coding_transcript_exon_variant,,ENST00000479586,;HMGN1,non_coding_transcript_exon_variant,,ENST00000471260,;HMGN1,non_coding_transcript_exon_variant,,ENST00000491183,;HMGN1,upstream_gene_variant,,ENST00000490032,;HMGN1,missense_variant,p.Glu10Lys,ENST00000419378,;HMGN1,missense_variant,p.Glu10Lys,ENST00000443046,;HMGN1,missense_variant,p.Glu10Lys,ENST00000288344,;HMGN1,missense_variant,p.Glu10Lys,ENST00000436324,;HMGN1,missense_variant,p.Glu10Lys,ENST00000431390,;HMGN1,non_coding_transcript_exon_variant,,ENST00000492280,;HMGN1,non_coding_transcript_exon_variant,,ENST00000464078,;HMGN1,non_coding_transcript_exon_variant,,ENST00000482733,;HMGN1,non_coding_transcript_exon_variant,,ENST00000486741,;HMGN1,non_coding_transcript_exon_variant,,ENST00000463631,;	T	ENSG00000205581	ENST00000380749	Transcript	missense_variant	311	28	10	E/K	Gaa/Aaa	COSM3841930	.	.	-1	HMGN1	HGNC	4984	protein_coding	YES	CCDS33559.1	ENSP00000370125	HMGN1_HUMAN	.	UPI0000047514	.	tolerated(0.19)	benign(0.003)	2/6	.	SMART_domains:SM00527,Pfam_domain:PF01101,hmmpanther:PTHR23087	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCGGCGG	.	5	BLCA
B3GALT5	0	.	GRCh37	21	41032853	41032853	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.367G>A	p.Asp123Asn	p.D123N	ENST00000380620	5/5	56	43	12	88	88	0	B3GALT5,missense_variant,p.Asp123Asn,ENST00000380620,;B3GALT5,missense_variant,p.Asp123Asn,ENST00000398714,;B3GALT5,missense_variant,p.Asp123Asn,ENST00000343118,;B3GALT5,missense_variant,p.Asp123Asn,ENST00000380618,;AF064860.5,intron_variant,,ENST00000416555,;	A	ENSG00000183778	ENST00000380620	Transcript	missense_variant	959	367	123	D/N	Gat/Aat	.	.	.	1	B3GALT5	HGNC	920	protein_coding	YES	CCDS13667.1	ENSP00000369994	B3GT5_HUMAN	.	UPI0000126713	.	tolerated(0.35)	benign(0.246)	5/5	.	hmmpanther:PTHR11214:SF18,hmmpanther:PTHR11214,Pfam_domain:PF01762	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAGGATTTC	.	5	BLCA
MX1	0	.	GRCh37	21	42830705	42830705	+	3'UTR	SNP	G	G	A	rs764707018	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*20G>A	.	.	ENST00000398600	19/19	19	13	6	32	32	0	MX1,3_prime_UTR_variant,,ENST00000398600,;MX1,3_prime_UTR_variant,,ENST00000288383,;MX1,3_prime_UTR_variant,,ENST00000398598,;MX1,3_prime_UTR_variant,,ENST00000455164,;	A	ENSG00000157601	ENST00000398600	Transcript	3_prime_UTR_variant	3034	.	.	.	.	rs764707018	.	.	1	MX1	HGNC	7532	protein_coding	YES	CCDS13673.1	ENSP00000381601	MX1_HUMAN	H9KVD3_HUMAN,H9KVD0_HUMAN,H9KVC9_HUMAN,H9KVC7_HUMAN,H9KVC4_HUMAN,H9KVC3_HUMAN	UPI0000206F16	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCCGTAGAC	.	5	BLCA
PWP2	0	.	GRCh37	21	45540653	45540653	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479C>T	p.%3D	p.L493L	ENST00000291576	12/21	44	25	19	71	71	0	PWP2,synonymous_variant,p.%3D,ENST00000291576,;PWP2,downstream_gene_variant,,ENST00000486126,;PWP2,non_coding_transcript_exon_variant,,ENST00000471490,;	T	ENSG00000241945	ENST00000291576	Transcript	synonymous_variant	1606	1479	493	L	ctC/ctT	.	.	.	1	PWP2	HGNC	9711	protein_coding	YES	CCDS33579.1	ENSP00000291576	PWP2_HUMAN	.	UPI0000169D5D	.	.	.	12/21	.	PROSITE_profiles:PS50294,hmmpanther:PTHR19858,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50998	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCCTTGA	.	5	BLCA
PCNT	0	.	GRCh37	21	47865418	47865418	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*178G>A	.	.	ENST00000359568	47/47	10	5	5	13	13	0	PCNT,3_prime_UTR_variant,,ENST00000359568,;PCNT,downstream_gene_variant,,ENST00000418394,;PCNT,non_coding_transcript_exon_variant,,ENST00000480896,;PCNT,downstream_gene_variant,,ENST00000465356,;	A	ENSG00000160299	ENST00000359568	Transcript	3_prime_UTR_variant	10296	.	.	.	.	.	.	.	1	PCNT	HGNC	16068	protein_coding	YES	CCDS33592.1	ENSP00000352572	PCNT_HUMAN	.	UPI00001AEB88	.	.	.	47/47	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTGGAGCA	.	2	BLCA
CCT8L2	0	.	GRCh37	22	17073041	17073041	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.400G>A	p.Glu134Lys	p.E134K	ENST00000359963	1/1	34	19	14	42	42	0	CCT8L2,missense_variant,p.Glu134Lys,ENST00000359963,;FABP5P11,downstream_gene_variant,,ENST00000430910,;	T	ENSG00000198445	ENST00000359963	Transcript	missense_variant	660	400	134	E/K	Gag/Aag	.	.	.	-1	CCT8L2	HGNC	15553	protein_coding	YES	CCDS13738.1	ENSP00000353048	TCPQM_HUMAN	.	UPI000006CF87	.	deleterious(0.04)	possibly_damaging(0.666)	1/1	.	Superfamily_domains:SSF48592,Pfam_domain:PF00118,Gene3D:1.10.560.10,hmmpanther:PTHR11353:SF70,hmmpanther:PTHR11353	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCCCGGA	.	5	BLCA
MRPL40	0	.	GRCh37	22	19423221	19423221	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357G>T	p.Lys119Asn	p.K119N	ENST00000333130	4/4	122	82	40	195	195	0	MRPL40,missense_variant,p.Lys119Asn,ENST00000333130,;HIRA,intron_variant,,ENST00000541063,;HIRA,intron_variant,,ENST00000546308,;HIRA,upstream_gene_variant,,ENST00000263208,;HIRA,upstream_gene_variant,,ENST00000340170,;MRPL40,non_coding_transcript_exon_variant,,ENST00000471259,;MRPL40,non_coding_transcript_exon_variant,,ENST00000443660,;HIRA,intron_variant,,ENST00000452818,;C22orf39,intron_variant,,ENST00000509549,;	T	ENSG00000185608	ENST00000333130	Transcript	missense_variant	1010	357	119	K/N	aaG/aaT	.	.	.	1	MRPL40	HGNC	14491	protein_coding	YES	CCDS13760.1	ENSP00000333401	RM40_HUMAN	F8WBK5_HUMAN	UPI0000130264	.	deleterious(0.01)	probably_damaging(0.993)	4/4	.	Pfam_domain:PF09812,hmmpanther:PTHR13359:SF2,hmmpanther:PTHR13359	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAAGTG	.	5	BLCA
TBX1	0	.	GRCh37	22	19747156	19747156	+	5'UTR	SNP	C	C	T	rs778833362	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-11C>T	.	.	ENST00000332710	2/9	12	7	4	23	23	0	TBX1,5_prime_UTR_variant,,ENST00000332710,;TBX1,5_prime_UTR_variant,,ENST00000359500,;TBX1,5_prime_UTR_variant,,ENST00000329705,;TBX1,upstream_gene_variant,,ENST00000475303,;	T	ENSG00000184058	ENST00000332710	Transcript	5_prime_UTR_variant	119	.	.	.	.	rs778833362	.	.	1	TBX1	HGNC	11592	protein_coding	YES	CCDS13767.1	ENSP00000331791	TBX1_HUMAN	D9ZGG0_HUMAN	UPI0000073068	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGATCCCCGG	byFrequency	3	BLCA
BCR	0	.	GRCh37	22	23610681	23610681	+	Silent	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1839T>G	p.%3D	p.A613A	ENST00000305877	5/23	14	10	4	27	27	0	BCR,synonymous_variant,p.%3D,ENST00000359540,;BCR,synonymous_variant,p.%3D,ENST00000305877,;BCR,intron_variant,,ENST00000427791,;FBXW4P1,downstream_gene_variant,,ENST00000426721,;	G	ENSG00000186716	ENST00000305877	Transcript	synonymous_variant	2590	1839	613	A	gcT/gcG	.	.	.	1	BCR	HGNC	1014	protein_coding	YES	CCDS13806.1	ENSP00000303507	BCR_HUMAN	.	UPI000016A088	.	.	.	5/23	.	PROSITE_profiles:PS50010,hmmpanther:PTHR23182:SF3,hmmpanther:PTHR23182,Pfam_domain:PF00621,Gene3D:1.20.900.10,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|VARSCANS	AATGCTCAGTT	.	2	BLCA
SPECC1L	0	.	GRCh37	22	24807655	24807655	+	Silent	SNP	C	C	T	rs752277401	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3187C>T	p.%3D	p.L1063L	ENST00000314328	15/17	57	45	12	68	68	0	SPECC1L,synonymous_variant,p.%3D,ENST00000314328,;SPECC1L,synonymous_variant,p.%3D,ENST00000437398,;SPECC1L,intron_variant,,ENST00000541492,;SPECC1L-ADORA2A,3_prime_UTR_variant,,ENST00000358654,;SPECC1L,upstream_gene_variant,,ENST00000472799,;	T	ENSG00000100014	ENST00000314328	Transcript	synonymous_variant	3472	3187	1063	L	Ctg/Ttg	rs752277401	.	.	1	SPECC1L	HGNC	29022	protein_coding	YES	CCDS33619.1	ENSP00000325785	CYTSA_HUMAN	C9JLY8_HUMAN,C9J8U1_HUMAN	UPI00001B64E9	.	.	.	15/17	.	PROSITE_profiles:PS50021,hmmpanther:PTHR23167:SF18,hmmpanther:PTHR23167,Pfam_domain:PF00307,Gene3D:1.10.418.10,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAACTGAAC	byFrequency	5	BLCA
ADORA2A	0	.	GRCh37	22	24829567	24829567	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.195C>T	p.%3D	p.T65T	ENST00000337539	2/3	62	39	23	87	87	0	ADORA2A,synonymous_variant,p.%3D,ENST00000444262,;ADORA2A,synonymous_variant,p.%3D,ENST00000486108,;ADORA2A,synonymous_variant,p.%3D,ENST00000424232,;ADORA2A,synonymous_variant,p.%3D,ENST00000496258,;ADORA2A,synonymous_variant,p.%3D,ENST00000439591,;ADORA2A,synonymous_variant,p.%3D,ENST00000337539,;ADORA2A,downstream_gene_variant,,ENST00000436735,;ADORA2A,downstream_gene_variant,,ENST00000464977,;ADORA2A,downstream_gene_variant,,ENST00000472248,;ADORA2A-AS1,intron_variant,,ENST00000326341,;ADORA2A-AS1,intron_variant,,ENST00000543438,;ADORA2A-AS1,downstream_gene_variant,,ENST00000427813,;ADORA2A,intron_variant,,ENST00000496497,;ADORA2A,downstream_gene_variant,,ENST00000486351,;ADORA2A,downstream_gene_variant,,ENST00000467385,;SPECC1L-ADORA2A,3_prime_UTR_variant,,ENST00000358654,;	T	ENSG00000128271	ENST00000337539	Transcript	synonymous_variant	654	195	65	T	acC/acT	.	.	.	1	ADORA2A	HGNC	263	protein_coding	YES	CCDS13826.1	ENSP00000336630	AA2AR_HUMAN	S4R429_HUMAN,S4R3A7_HUMAN,S4R2Z8_HUMAN,C9JQD8_HUMAN,C9JFS2_HUMAN,C9J3T2_HUMAN,C9J0Z4_HUMAN,B4DW87_HUMAN	UPI00000503E2	.	.	.	2/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24246,hmmpanther:PTHR24246:SF19,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCACCATCAG	.	5	BLCA
GUCD1	0	.	GRCh37	22	24942948	24942948	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.320C>T	p.Thr107Ile	p.T107I	ENST00000407471	4/6	57	39	17	60	60	0	GUCD1,missense_variant,p.Thr163Ile,ENST00000404664,;GUCD1,missense_variant,p.Thr107Ile,ENST00000407973,;GUCD1,missense_variant,p.Thr107Ile,ENST00000402766,;GUCD1,missense_variant,p.Thr107Ile,ENST00000447813,;GUCD1,missense_variant,p.Thr107Ile,ENST00000407471,;GUCD1,missense_variant,p.Thr107Ile,ENST00000435822,;GUCD1,intron_variant,,ENST00000490922,;GUCD1,downstream_gene_variant,,ENST00000490810,;GUCD1,upstream_gene_variant,,ENST00000493099,;GUCD1,missense_variant,p.Thr107Ile,ENST00000398245,;GUCD1,non_coding_transcript_exon_variant,,ENST00000480272,;GUCD1,downstream_gene_variant,,ENST00000468170,;	A	ENSG00000138867	ENST00000407471	Transcript	missense_variant	511	320	107	T/I	aCa/aTa	.	.	.	-1	GUCD1	HGNC	14237	protein_coding	YES	CCDS33621.1	ENSP00000386076	GUCD1_HUMAN	B5MCF3_HUMAN	UPI00003FF9EE	.	deleterious(0.02)	benign(0.295)	4/6	.	Pfam_domain:PF09778,hmmpanther:PTHR31400	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGTGTCA	.	5	BLCA
TFIP11	0	.	GRCh37	22	26906161	26906161	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.78C>T	p.%3D	p.I26I	ENST00000407690	4/15	57	41	15	86	86	0	TFIP11,synonymous_variant,p.%3D,ENST00000407431,;TFIP11,synonymous_variant,p.%3D,ENST00000418876,;TFIP11,synonymous_variant,p.%3D,ENST00000407148,;TFIP11,synonymous_variant,p.%3D,ENST00000407690,;TFIP11,synonymous_variant,p.%3D,ENST00000405938,;TFIP11,synonymous_variant,p.%3D,ENST00000455080,;TFIP11,synonymous_variant,p.%3D,ENST00000440258,;TFIP11,synonymous_variant,p.%3D,ENST00000420242,;TFIP11,upstream_gene_variant,,ENST00000450493,;CTA-445C9.14,upstream_gene_variant,,ENST00000565764,;CTA-445C9.14,upstream_gene_variant,,ENST00000566814,;TFIP11,upstream_gene_variant,,ENST00000496523,;TFIP11,non_coding_transcript_exon_variant,,ENST00000472918,;TFIP11,non_coding_transcript_exon_variant,,ENST00000479489,;TFIP11,upstream_gene_variant,,ENST00000493698,;TFIP11,downstream_gene_variant,,ENST00000464449,;	A	ENSG00000100109	ENST00000407690	Transcript	synonymous_variant	362	78	26	I	atC/atT	.	.	.	-1	TFIP11	HGNC	17165	protein_coding	YES	CCDS13838.1	ENSP00000384421	TFP11_HUMAN	F6XM96_HUMAN,F6UQ07_HUMAN,F6UKU9_HUMAN,F6SQZ1_HUMAN	UPI0000137191	.	.	.	4/15	.	hmmpanther:PTHR23329,hmmpanther:PTHR23329:SF1,Pfam_domain:PF12457,PIRSF_domain:PIRSF017706	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGTGATCTC	.	5	BLCA
CRYBB1	0	.	GRCh37	22	26997851	26997851	+	Silent	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.567C>A	p.%3D	p.S189S	ENST00000215939	5/6	20	14	6	56	56	0	CRYBB1,synonymous_variant,p.%3D,ENST00000215939,;	T	ENSG00000100122	ENST00000215939	Transcript	synonymous_variant	698	567	189	S	tcC/tcA	.	.	.	-1	CRYBB1	HGNC	2397	protein_coding	YES	CCDS13840.1	ENSP00000215939	CRBB1_HUMAN	.	UPI000000165D	.	.	.	5/6	.	PROSITE_profiles:PS50915,hmmpanther:PTHR11818:SF12,hmmpanther:PTHR11818,Gene3D:2.60.20.10,Pfam_domain:PF00030,SMART_domains:SM00247,Superfamily_domains:SSF49695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CCACTGGAGAC	.	4	BLCA
CHEK2	0	.	GRCh37	22	29130435	29130435	+	Missense_Mutation	SNP	G	G	A	rs779269031	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.275C>T	p.Pro92Leu	p.P92L	ENST00000382580	2/16	34	24	10	36	36	0	CHEK2,missense_variant,p.Pro92Leu,ENST00000447421,;CHEK2,missense_variant,p.Pro92Leu,ENST00000404276,;CHEK2,missense_variant,p.Pro92Leu,ENST00000439200,;CHEK2,missense_variant,p.Pro92Leu,ENST00000382580,;CHEK2,missense_variant,p.Pro92Leu,ENST00000382578,;CHEK2,missense_variant,p.Pro92Leu,ENST00000348295,;CHEK2,missense_variant,p.Pro92Leu,ENST00000328354,;CHEK2,missense_variant,p.Pro92Leu,ENST00000405598,;CHEK2,missense_variant,p.Pro92Leu,ENST00000402731,;CHEK2,missense_variant,p.Pro92Leu,ENST00000382566,;CHEK2,missense_variant,p.Pro92Leu,ENST00000382565,;CHEK2,missense_variant,p.Pro92Leu,ENST00000403642,;CHEK2,missense_variant,p.Pro102Leu,ENST00000398017,;CHEK2,5_prime_UTR_variant,,ENST00000544772,;CHEK2,intron_variant,,ENST00000425190,;CHEK2,missense_variant,p.Pro92Leu,ENST00000433728,;CHEK2,missense_variant,p.Pro92Leu,ENST00000417588,;CHEK2,missense_variant,p.Pro92Leu,ENST00000433028,;CHEK2,missense_variant,p.Pro92Leu,ENST00000416671,;CHEK2,missense_variant,p.Pro92Leu,ENST00000448511,;CHEK2,upstream_gene_variant,,ENST00000454252,;	A	ENSG00000183765	ENST00000382580	Transcript	missense_variant	351	275	92	P/L	cCc/cTc	rs779269031	.	.	-1	CHEK2	HGNC	16627	protein_coding	YES	CCDS33629.1	ENSP00000372023	CHK2_HUMAN	B7ZBF2_HUMAN	UPI000034E4A3	.	deleterious_low_confidence(0.01)	possibly_damaging(0.476)	2/16	.	hmmpanther:PTHR24344,hmmpanther:PTHR24344:SF21,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGGGGGCA	byFrequency	5	BLCA
XBP1	0	.	GRCh37	22	29191699	29191699	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.621C>T	p.%3D	p.F207F	ENST00000216037	5/5	33	23	10	52	52	0	XBP1,synonymous_variant,p.%3D,ENST00000216037,;XBP1,synonymous_variant,p.%3D,ENST00000344347,;XBP1,synonymous_variant,p.%3D,ENST00000405219,;XBP1,synonymous_variant,p.%3D,ENST00000403532,;CTA-292E10.6,upstream_gene_variant,,ENST00000585003,;CTA-292E10.6,upstream_gene_variant,,ENST00000418292,;CTA-292E10.6,upstream_gene_variant,,ENST00000458080,;XBP1,non_coding_transcript_exon_variant,,ENST00000484256,;XBP1,downstream_gene_variant,,ENST00000482720,;	A	ENSG00000100219	ENST00000216037	Transcript	synonymous_variant	694	621	207	F	ttC/ttT	COSM1535327,COSM1535328	.	.	-1	XBP1	HGNC	12801	protein_coding	YES	CCDS13847.1	ENSP00000216037	XBP1_HUMAN	.	UPI000006FC05	.	.	.	5/5	.	hmmpanther:PTHR13301	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCAGAATGC	.	5	BLCA
XBP1	0	.	GRCh37	22	29195116	29195116	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253C>T	p.Gln85Ter	p.Q85*	ENST00000216037	2/5	39	29	10	53	53	0	XBP1,stop_gained,p.Gln85Ter,ENST00000403532,;XBP1,stop_gained,p.Gln85Ter,ENST00000216037,;XBP1,stop_gained,p.Gln35Ter,ENST00000405219,;XBP1,stop_gained,p.Gln85Ter,ENST00000344347,;CTA-292E10.6,upstream_gene_variant,,ENST00000418292,;CTA-292E10.6,upstream_gene_variant,,ENST00000458080,;CTA-292E10.6,upstream_gene_variant,,ENST00000585003,;CTA-292E10.6,upstream_gene_variant,,ENST00000451486,;XBP1,non_coding_transcript_exon_variant,,ENST00000482720,;XBP1,upstream_gene_variant,,ENST00000484256,;	A	ENSG00000100219	ENST00000216037	Transcript	stop_gained	326	253	85	Q/*	Cag/Tag	.	.	.	-1	XBP1	HGNC	12801	protein_coding	YES	CCDS13847.1	ENSP00000216037	XBP1_HUMAN	.	UPI000006FC05	.	.	.	2/5	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS50217,hmmpanther:PTHR13301,PROSITE_patterns:PS00036,Pfam_domain:PF07716,Gene3D:1.20.5.170,SMART_domains:SM00338,Superfamily_domains:SSF57959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTGAGCTG	.	5	BLCA
ZNRF3	0	.	GRCh37	22	29445802	29445802	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1633G>A	p.Asp545Asn	p.D545N	ENST00000544604	8/9	31	21	10	36	36	0	ZNRF3,missense_variant,p.Asp445Asn,ENST00000406323,;ZNRF3,missense_variant,p.Asp445Asn,ENST00000332811,;ZNRF3,missense_variant,p.Asp445Asn,ENST00000402174,;ZNRF3,missense_variant,p.Asp545Asn,ENST00000544604,;	A	ENSG00000183579	ENST00000544604	Transcript	missense_variant	1808	1633	545	D/N	Gac/Aac	.	.	.	1	ZNRF3	HGNC	18126	protein_coding	YES	CCDS56225.1	ENSP00000443824	ZNRF3_HUMAN	.	UPI0000EE5944	.	deleterious(0)	probably_damaging(1)	8/9	.	hmmpanther:PTHR16200:SF3,hmmpanther:PTHR16200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGACTGC	.	4	BLCA
THOC5	0	.	GRCh37	22	29932710	29932710	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.617G>A	p.Arg206Gln	p.R206Q	ENST00000490103	7/20	35	28	7	62	62	0	THOC5,missense_variant,p.Arg206Gln,ENST00000490103,;THOC5,missense_variant,p.Arg206Gln,ENST00000397871,;THOC5,missense_variant,p.Arg66Gln,ENST00000443089,;THOC5,missense_variant,p.Arg206Gln,ENST00000397873,;THOC5,missense_variant,p.Arg206Gln,ENST00000397872,;THOC5,missense_variant,p.Arg206Gln,ENST00000440771,;THOC5,downstream_gene_variant,,ENST00000428374,;THOC5,downstream_gene_variant,,ENST00000455450,;CTA-256D12.11,upstream_gene_variant,,ENST00000411969,;THOC5,missense_variant,p.Arg206Gln,ENST00000442555,;THOC5,3_prime_UTR_variant,,ENST00000358079,;THOC5,non_coding_transcript_exon_variant,,ENST00000488052,;THOC5,non_coding_transcript_exon_variant,,ENST00000492707,;THOC5,non_coding_transcript_exon_variant,,ENST00000484924,;THOC5,non_coding_transcript_exon_variant,,ENST00000475187,;	T	ENSG00000100296	ENST00000490103	Transcript	missense_variant	740	617	206	R/Q	cGa/cAa	.	.	.	-1	THOC5	HGNC	19074	protein_coding	YES	CCDS13859.1	ENSP00000420306	THOC5_HUMAN	C9JXU6_HUMAN,C9JXG5_HUMAN,C9JCL9_HUMAN	UPI000013FD77	.	tolerated(0.07)	benign(0.001)	7/20	.	hmmpanther:PTHR13375,hmmpanther:PTHR13375:SF3,Pfam_domain:PF09766	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCGGTAC	.	5	BLCA
CABP7	0	.	GRCh37	22	30124721	30124721	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356T>C	p.Val119Ala	p.V119A	ENST00000216144	3/5	30	23	6	29	29	0	CABP7,missense_variant,p.Val119Ala,ENST00000216144,;ZMAT5,downstream_gene_variant,,ENST00000397781,;ZMAT5,downstream_gene_variant,,ENST00000344318,;	C	ENSG00000100314	ENST00000216144	Transcript	missense_variant	697	356	119	V/A	gTc/gCc	.	.	.	1	CABP7	HGNC	20834	protein_coding	YES	CCDS13867.1	ENSP00000216144	CABP7_HUMAN	.	UPI0000004C1D	.	tolerated(0.25)	benign(0.013)	3/5	.	hmmpanther:PTHR23050:SF22,hmmpanther:PTHR23050,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGTCTTCT	.	5	BLCA
MTMR3	0	.	GRCh37	22	30416562	30416562	+	Missense_Mutation	SNP	C	C	T	rs368181160	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2914C>T	p.Arg972Cys	p.R972C	ENST00000401950	17/20	59	41	18	62	62	0	MTMR3,missense_variant,p.Arg972Cys,ENST00000406629,;MTMR3,missense_variant,p.Arg972Cys,ENST00000333027,;MTMR3,missense_variant,p.Arg972Cys,ENST00000351488,;MTMR3,missense_variant,p.Arg972Cys,ENST00000401950,;MTMR3,missense_variant,p.Arg836Cys,ENST00000323630,;CTA-85E5.10,intron_variant,,ENST00000453743,;CTA-85E5.10,intron_variant,,ENST00000429350,;MTMR3,upstream_gene_variant,,ENST00000491251,;MTMR3,downstream_gene_variant,,ENST00000492087,;	T	ENSG00000100330	ENST00000401950	Transcript	missense_variant	3256	2914	972	R/C	Cgt/Tgt	rs368181160,COSM3553237,COSM3553236	.	.	1	MTMR3	HGNC	7451	protein_coding	YES	CCDS13870.1	ENSP00000384651	MTMR3_HUMAN	Q9UPM2_HUMAN,G5E953_HUMAN,C9JLU3_HUMAN	UPI0000073EF2	.	tolerated_low_confidence(0.08)	benign(0.002)	17/20	.	hmmpanther:PTHR10807:SF66,hmmpanther:PTHR10807	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGCCGTCAG	byFrequency|byCluster	5	BLCA
LIMK2	0	.	GRCh37	22	31674532	31674532	+	3'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000340552	.	11	6	5	17	17	0	LIMK2,3_prime_UTR_variant,,ENST00000333611,;LIMK2,3_prime_UTR_variant,,ENST00000331728,;LIMK2,3_prime_UTR_variant,,ENST00000444929,;PIK3IP1,downstream_gene_variant,,ENST00000487265,;PIK3IP1,downstream_gene_variant,,ENST00000215912,;PIK3IP1,downstream_gene_variant,,ENST00000441972,;LIMK2,downstream_gene_variant,,ENST00000340552,;LIMK2,downstream_gene_variant,,ENST00000406516,;LIMK2,non_coding_transcript_exon_variant,,ENST00000467301,;LIMK2,downstream_gene_variant,,ENST00000482270,;PIK3IP1,downstream_gene_variant,,ENST00000493034,;PIK3IP1,downstream_gene_variant,,ENST00000480654,;	A	ENSG00000182541	ENST00000340552	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	908	1	LIMK2	HGNC	6614	protein_coding	YES	CCDS33637.1	ENSP00000339916	LIMK2_HUMAN	B5MC51_HUMAN	UPI0000169F37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGCGGAATGT	.	3	BLCA
EIF4ENIF1	0	.	GRCh37	22	31851939	31851939	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.998C>G	p.Ser333Cys	p.S333C	ENST00000397525	8/19	60	38	22	61	61	0	EIF4ENIF1,missense_variant,p.Ser12Cys,ENST00000382180,;EIF4ENIF1,missense_variant,p.Ser170Cys,ENST00000344710,;EIF4ENIF1,missense_variant,p.Ser333Cys,ENST00000397525,;EIF4ENIF1,missense_variant,p.Ser333Cys,ENST00000397523,;EIF4ENIF1,missense_variant,p.Ser333Cys,ENST00000330125,;EIF4ENIF1,upstream_gene_variant,,ENST00000418321,;RP11-247I13.11,intron_variant,,ENST00000464523,;DRG1,intron_variant,,ENST00000548143,;EIF4ENIF1,upstream_gene_variant,,ENST00000495101,;	C	ENSG00000184708	ENST00000397525	Transcript	missense_variant	1222	998	333	S/C	tCt/tGt	.	.	.	-1	EIF4ENIF1	HGNC	16687	protein_coding	YES	CCDS13898.1	ENSP00000380659	4ET_HUMAN	B1AKL6_HUMAN,B1AKL5_HUMAN	UPI0000124F14	.	deleterious(0)	probably_damaging(0.998)	8/19	.	Pfam_domain:PF10477,hmmpanther:PTHR12269	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGAGACT	.	5	BLCA
SFI1	0	.	GRCh37	22	31998226	31998226	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1573C>T	p.Leu525Phe	p.L525F	ENST00000400288	16/33	71	44	27	141	141	0	SFI1,missense_variant,p.Leu525Phe,ENST00000400288,;SFI1,missense_variant,p.Leu443Phe,ENST00000400289,;SFI1,missense_variant,p.Leu372Phe,ENST00000414585,;SFI1,missense_variant,p.Leu494Phe,ENST00000432498,;SFI1,missense_variant,p.Leu372Phe,ENST00000443011,;SFI1,missense_variant,p.Leu140Phe,ENST00000417682,;SFI1,missense_variant,p.Leu470Phe,ENST00000540643,;SFI1,missense_variant,p.Leu443Phe,ENST00000443326,;SFI1,upstream_gene_variant,,ENST00000466991,;SFI1,missense_variant,p.Ser361Phe,ENST00000524296,;SFI1,missense_variant,p.Leu232Phe,ENST00000452250,;SFI1,non_coding_transcript_exon_variant,,ENST00000382162,;SFI1,upstream_gene_variant,,ENST00000488883,;	T	ENSG00000198089	ENST00000400288	Transcript	missense_variant	1678	1573	525	L/F	Ctc/Ttc	COSM3553577	.	.	1	SFI1	HGNC	29064	protein_coding	YES	CCDS43004.1	ENSP00000383145	SFI1_HUMAN	.	UPI00004703B1	.	deleterious(0.03)	benign(0.007)	16/33	.	hmmpanther:PTHR22028:SF2,hmmpanther:PTHR22028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTCTGG	.	5	BLCA
APOL4	0	.	GRCh37	22	36600735	36600735	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-81G>A	.	.	ENST00000352371	1/6	11	6	4	13	13	0	APOL4,5_prime_UTR_variant,,ENST00000449084,;APOL4,5_prime_UTR_variant,,ENST00000419360,;APOL4,5_prime_UTR_variant,,ENST00000404685,;APOL4,5_prime_UTR_variant,,ENST00000332987,;APOL4,5_prime_UTR_variant,,ENST00000397275,;APOL4,5_prime_UTR_variant,,ENST00000405511,;APOL4,5_prime_UTR_variant,,ENST00000429038,;APOL4,5_prime_UTR_variant,,ENST00000328429,;APOL4,5_prime_UTR_variant,,ENST00000352371,;APOL4,5_prime_UTR_variant,,ENST00000457630,;APOL4,5_prime_UTR_variant,,ENST00000436763,;APOL4,non_coding_transcript_exon_variant,,ENST00000479929,;APOL4,non_coding_transcript_exon_variant,,ENST00000524531,;APOL4,non_coding_transcript_exon_variant,,ENST00000480236,;APOL4,upstream_gene_variant,,ENST00000493203,;	T	ENSG00000100336	ENST00000352371	Transcript	5_prime_UTR_variant	145	.	.	.	.	.	.	.	-1	APOL4	HGNC	14867	protein_coding	YES	.	ENSP00000338260	.	J3KNR9_HUMAN	UPI000013C6CD	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GATCTCACCTC	.	3	BLCA
APOL2	0	.	GRCh37	22	36623662	36623662	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.802A>C	p.Met268Leu	p.M268L	ENST00000249066	6/6	79	50	29	91	91	0	APOL2,missense_variant,p.Met380Leu,ENST00000451256,;APOL2,missense_variant,p.Met268Leu,ENST00000358502,;APOL2,missense_variant,p.Met268Leu,ENST00000249066,;APOL2,downstream_gene_variant,,ENST00000454728,;APOL2,downstream_gene_variant,,ENST00000529194,;	G	ENSG00000128335	ENST00000249066	Transcript	missense_variant	1279	802	268	M/L	Atg/Ctg	.	.	.	-1	APOL2	HGNC	619	protein_coding	YES	CCDS43014.1	ENSP00000249066	APOL2_HUMAN	E9PM95_HUMAN,B0QYK8_HUMAN	UPI0000125C91	.	tolerated(0.16)	benign(0.003)	6/6	.	Pfam_domain:PF05461,hmmpanther:PTHR14096,hmmpanther:PTHR14096:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCATTGCCT	.	5	BLCA
MYH9	0	.	GRCh37	22	36745252	36745252	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30C>T	p.%3D	p.L10L	ENST00000216181	2/41	35	24	11	40	40	0	MYH9,synonymous_variant,p.%3D,ENST00000456729,;MYH9,synonymous_variant,p.%3D,ENST00000401701,;MYH9,synonymous_variant,p.%3D,ENST00000216181,;	A	ENSG00000100345	ENST00000216181	Transcript	synonymous_variant	261	30	10	L	ctC/ctT	.	.	.	-1	MYH9	HGNC	7579	protein_coding	YES	CCDS13927.1	ENSP00000216181	MYH9_HUMAN	Q9UMJ0_HUMAN,B1AH99_HUMAN	UPI000012FB80	.	.	.	2/41	.	hmmpanther:PTHR13140:SF317,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATAGAGATA	.	5	BLCA
SLC16A8	0	.	GRCh37	22	38474442	38474442	+	Missense_Mutation	SNP	C	C	T	rs758378855	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1468G>A	p.Glu490Lys	p.E490K	ENST00000320521	5/5	53	37	16	76	76	0	SLC16A8,missense_variant,p.Glu490Lys,ENST00000320521,;SLC16A8,downstream_gene_variant,,ENST00000427592,;PICK1,downstream_gene_variant,,ENST00000404072,;PICK1,downstream_gene_variant,,ENST00000356976,;RP5-1039K5.13,upstream_gene_variant,,ENST00000445483,;SLC16A8,non_coding_transcript_exon_variant,,ENST00000469516,;PICK1,downstream_gene_variant,,ENST00000484021,;	T	ENSG00000100156	ENST00000320521	Transcript	missense_variant	1577	1468	490	E/K	Gaa/Aaa	rs758378855	.	.	-1	SLC16A8	HGNC	16270	protein_coding	YES	CCDS13966.1	ENSP00000321735	MOT3_HUMAN	B0QYL4_HUMAN	UPI000012F3C8	.	tolerated(0.17)	benign(0.012)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCTGTGG	byFrequency	5	BLCA
DDX17	0	.	GRCh37	22	38882361	38882361	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1775G>A	p.Gly592Glu	p.G592E	ENST00000396821	13/13	62	47	15	81	81	0	DDX17,missense_variant,p.Gly42Glu,ENST00000444597,;DDX17,missense_variant,p.Gly590Glu,ENST00000403230,;DDX17,missense_variant,p.Gly592Glu,ENST00000396821,;DDX17,missense_variant,p.Gly513Glu,ENST00000381633,;KDELR3,downstream_gene_variant,,ENST00000216014,;KDELR3,downstream_gene_variant,,ENST00000409006,;DDX17,downstream_gene_variant,,ENST00000432525,;KDELR3,downstream_gene_variant,,ENST00000471268,;DDX17,downstream_gene_variant,,ENST00000475004,;DDX17,non_coding_transcript_exon_variant,,ENST00000431312,;DDX17,non_coding_transcript_exon_variant,,ENST00000216019,;	T	ENSG00000100201	ENST00000396821	Transcript	missense_variant	1875	1775	592	G/E	gGa/gAa	.	.	.	-1	DDX17	HGNC	2740	protein_coding	YES	CCDS46706.1	ENSP00000380033	.	Q9UQL5_HUMAN,H3BLZ8_HUMAN	UPI0001AE634C	.	deleterious_low_confidence(0.01)	benign(0.327)	13/13	.	hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCCTCGA	.	5	BLCA
TNRC6B	0	.	GRCh37	22	40669555	40669555	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3092C>T	p.Ser1031Phe	p.S1031F	ENST00000454349	7/23	9	6	3	9	9	0	TNRC6B,missense_variant,p.Ser1031Phe,ENST00000454349,;TNRC6B,missense_variant,p.Ser774Phe,ENST00000446273,;TNRC6B,missense_variant,p.Ser284Phe,ENST00000402203,;TNRC6B,missense_variant,p.Ser284Phe,ENST00000301923,;TNRC6B,missense_variant,p.Ser978Phe,ENST00000335727,;TNRC6B,upstream_gene_variant,,ENST00000497559,;	T	ENSG00000100354	ENST00000454349	Transcript	missense_variant	3303	3092	1031	S/F	tCc/tTc	.	.	.	1	TNRC6B	HGNC	29190	protein_coding	YES	CCDS54533.1	ENSP00000401946	TNR6B_HUMAN	.	UPI00017A6F19	.	deleterious(0)	probably_damaging(0.912)	7/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13020,hmmpanther:PTHR13020:SF32,Pfam_domain:PF10427	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCTTCCTCCC	.	3	BLCA
EP300	0	.	GRCh37	22	41488902	41488902	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-107C>T	.	.	ENST00000263253	1/31	35	22	13	61	61	0	EP300,5_prime_UTR_variant,,ENST00000263253,;MIR1281,downstream_gene_variant,,ENST00000408233,;	T	ENSG00000100393	ENST00000263253	Transcript	5_prime_UTR_variant	1113	.	.	.	.	.	.	.	1	EP300	HGNC	3373	protein_coding	YES	CCDS14010.1	ENSP00000263253	EP300_HUMAN	B5A250_HUMAN	UPI00001AE876	.	.	.	1/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCGTCGGAGC	.	4	BLCA
EP300	0	.	GRCh37	22	41548264	41548264	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3052G>T	p.Glu1018Ter	p.E1018*	ENST00000263253	16/31	51	36	14	79	79	0	EP300,stop_gained,p.Glu1018Ter,ENST00000263253,;	T	ENSG00000100393	ENST00000263253	Transcript	stop_gained	4271	3052	1018	E/*	Gag/Tag	.	.	.	1	EP300	HGNC	3373	protein_coding	YES	CCDS14010.1	ENSP00000263253	EP300_HUMAN	B5A250_HUMAN	UPI00001AE876	.	.	.	16/31	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E1014G|c.3041A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTGAGTTA	.	5	BLCA
POLR3H	0	.	GRCh37	22	41924411	41924411	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*876G>A	.	.	ENST00000355209	6/6	14	10	4	13	13	0	POLR3H,3_prime_UTR_variant,,ENST00000396504,;POLR3H,3_prime_UTR_variant,,ENST00000355209,;ACO2,intron_variant,,ENST00000216254,;ACO2,intron_variant,,ENST00000396512,;POLR3H,downstream_gene_variant,,ENST00000407461,;POLR3H,downstream_gene_variant,,ENST00000337566,;POLR3H,downstream_gene_variant,,ENST00000420561,;POLR3H,downstream_gene_variant,,ENST00000442616,;POLR3H,downstream_gene_variant,,ENST00000431534,;POLR3H,downstream_gene_variant,,ENST00000432789,;	T	ENSG00000100413	ENST00000355209	Transcript	3_prime_UTR_variant	1835	.	.	.	.	.	.	.	-1	POLR3H	HGNC	30349	protein_coding	YES	CCDS14018.1	ENSP00000347345	RPC8_HUMAN	.	UPI0000073CE5	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCCCTGA	.	5	BLCA
SREBF2	0	.	GRCh37	22	42271620	42271620	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1278G>A	p.%3D	p.Q426Q	ENST00000361204	7/19	78	54	24	104	104	0	SREBF2,synonymous_variant,p.%3D,ENST00000361204,;SREBF2,synonymous_variant,p.%3D,ENST00000424354,;SREBF2,non_coding_transcript_exon_variant,,ENST00000464119,;SREBF2,non_coding_transcript_exon_variant,,ENST00000462539,;	A	ENSG00000198911	ENST00000361204	Transcript	synonymous_variant	1444	1278	426	Q	caG/caA	.	.	.	1	SREBF2	HGNC	11290	protein_coding	YES	CCDS14023.1	ENSP00000354476	SRBP2_HUMAN	Q8NCY3_HUMAN	UPI00001678D0	.	.	.	7/19	.	hmmpanther:PTHR12565:SF6,hmmpanther:PTHR12565	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCAGAATGT	.	5	BLCA
SEPT3	0	.	GRCh37	22	42373052	42373052	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-17G>A	.	.	ENST00000396426	1/11	22	17	5	44	44	0	SEPT3,5_prime_UTR_variant,,ENST00000396426,;SEPT3,5_prime_UTR_variant,,ENST00000291236,;SEPT3,5_prime_UTR_variant,,ENST00000328414,;SEPT3,5_prime_UTR_variant,,ENST00000396425,;SEPT3,5_prime_UTR_variant,,ENST00000406029,;SEPT3,intron_variant,,ENST00000449288,;CTA-250D10.19,downstream_gene_variant,,ENST00000424613,;SEPT3,upstream_gene_variant,,ENST00000396417,;	A	ENSG00000100167	ENST00000396426	Transcript	5_prime_UTR_variant	239	.	.	.	.	.	.	.	1	SEPT3	HGNC	10750	protein_coding	YES	CCDS14026.2	ENSP00000379704	SEPT3_HUMAN	B1AHR2_HUMAN	UPI000067DA91	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACGGAGACA	.	5	BLCA
TCF20	0	.	GRCh37	22	42610246	42610246	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066T>C	p.Ser356Pro	p.S356P	ENST00000359486	1/5	69	54	15	86	86	0	TCF20,missense_variant,p.Ser356Pro,ENST00000335626,;TCF20,missense_variant,p.Ser356Pro,ENST00000359486,;TCF20,upstream_gene_variant,,ENST00000404876,;TCF20,downstream_gene_variant,,ENST00000515426,;	G	ENSG00000100207	ENST00000359486	Transcript	missense_variant	1203	1066	356	S/P	Tcc/Ccc	.	.	.	-1	TCF20	HGNC	11631	protein_coding	YES	CCDS14033.1	ENSP00000352463	TCF20_HUMAN	I3L1M7_HUMAN	UPI00001A95D9	.	.	probably_damaging(0.998)	1/5	.	hmmpanther:PTHR14955,hmmpanther:PTHR14955:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGGACCTCA	.	5	BLCA
TTLL1	0	.	GRCh37	22	43455390	43455390	+	Silent	SNP	C	C	T	rs765451356	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891G>A	p.%3D	p.A297A	ENST00000266254	8/11	42	31	10	54	54	0	TTLL1,synonymous_variant,p.%3D,ENST00000266254,;TTLL1,synonymous_variant,p.%3D,ENST00000331018,;TTLL1,splice_region_variant,,ENST00000440761,;TTLL1,splice_region_variant,,ENST00000439248,;	T	ENSG00000100271	ENST00000266254	Transcript	synonymous_variant	1132	891	297	A	gcG/gcA	rs765451356	.	.	-1	TTLL1	HGNC	1312	protein_coding	YES	CCDS14043.1	ENSP00000266254	TTLL1_HUMAN	.	UPI00001377A7	.	.	.	8/11	.	PROSITE_profiles:PS51221,hmmpanther:PTHR12241:SF31,hmmpanther:PTHR12241,Pfam_domain:PF03133,Superfamily_domains:SSF56059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCACCGCCAC	byFrequency	5	BLCA
SCUBE1	0	.	GRCh37	22	43604220	43604220	+	Silent	SNP	C	C	T	rs767112692	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2592G>A	p.%3D	p.T864T	ENST00000360835	20/22	50	47	3	79	79	0	SCUBE1,synonymous_variant,p.%3D,ENST00000360835,;Z82214.3,upstream_gene_variant,,ENST00000420269,;	T	ENSG00000159307	ENST00000360835	Transcript	synonymous_variant	2719	2592	864	T	acG/acA	rs767112692,COSM4104607	.	.	-1	SCUBE1	HGNC	13441	protein_coding	YES	CCDS14048.1	ENSP00000354080	SCUB1_HUMAN	.	UPI000020790F	.	.	.	20/22	.	PROSITE_profiles:PS01180,hmmpanther:PTHR24046:SF4,hmmpanther:PTHR24046,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGGACGTGGG	byFrequency	2	BLCA
EFCAB6	0	.	GRCh37	22	43972347	43972347	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3250G>A	p.Glu1084Lys	p.E1084K	ENST00000262726	26/32	42	26	15	52	52	0	EFCAB6,missense_variant,p.Glu1084Lys,ENST00000262726,;EFCAB6,missense_variant,p.Glu932Lys,ENST00000396231,;EFCAB6,non_coding_transcript_exon_variant,,ENST00000468552,;	T	ENSG00000186976	ENST00000262726	Transcript	missense_variant	3504	3250	1084	E/K	Gag/Aag	.	.	.	-1	EFCAB6	HGNC	24204	protein_coding	YES	CCDS14049.1	ENSP00000262726	EFCB6_HUMAN	.	UPI0000225CD7	.	deleterious(0)	probably_damaging(0.977)	26/32	.	Superfamily_domains:SSF47473,SMART_domains:SM00054,Gene3D:1.10.238.10,hmmpanther:PTHR10891:SF220,hmmpanther:PTHR10891,PROSITE_profiles:PS50222	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCTTTAT	.	5	BLCA
UPK3A	0	.	GRCh37	22	45683121	45683121	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.277G>A	p.Glu93Lys	p.E93K	ENST00000216211	3/6	40	25	14	50	50	0	UPK3A,missense_variant,p.Glu93Lys,ENST00000216211,;UPK3A,intron_variant,,ENST00000396082,;	A	ENSG00000100373	ENST00000216211	Transcript	missense_variant	309	277	93	E/K	Gag/Aag	.	.	.	1	UPK3A	HGNC	12580	protein_coding	YES	CCDS14064.1	ENSP00000216211	UPK3A_HUMAN	.	UPI0000161B8E	.	tolerated(0.69)	benign(0.079)	3/6	.	hmmpanther:PTHR15446,hmmpanther:PTHR15446:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACAGAGGGT	.	5	BLCA
WNT7B	0	.	GRCh37	22	46372566	46372566	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.69C>T	p.%3D	p.L23L	ENST00000339464	1/4	10	7	3	16	16	0	WNT7B,synonymous_variant,p.%3D,ENST00000410058,;WNT7B,synonymous_variant,p.%3D,ENST00000339464,;WNT7B,upstream_gene_variant,,ENST00000428540,;WNT7B,upstream_gene_variant,,ENST00000409496,;WNT7B,upstream_gene_variant,,ENST00000410089,;CR536603.1,downstream_gene_variant,,ENST00000578136,;	A	ENSG00000188064	ENST00000339464	Transcript	synonymous_variant	444	69	23	L	ctC/ctT	.	.	.	-1	WNT7B	HGNC	12787	protein_coding	YES	CCDS33667.1	ENSP00000341032	WNT7B_HUMAN	B8A598_HUMAN	UPI0000001BC6	.	.	.	1/4	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12027:SF73,hmmpanther:PTHR12027,Prints_domain:PR01891	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCCGAGCTT	.	2	BLCA
GRAMD4	0	.	GRCh37	22	47068777	47068777	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1122C>T	p.%3D	p.F374F	ENST00000406902	14/19	28	20	8	48	48	0	GRAMD4,synonymous_variant,p.%3D,ENST00000406902,;GRAMD4,synonymous_variant,p.%3D,ENST00000361034,;GRAMD4,downstream_gene_variant,,ENST00000456069,;GRAMD4,upstream_gene_variant,,ENST00000408031,;	T	ENSG00000075240	ENST00000406902	Transcript	synonymous_variant	1335	1122	374	F	ttC/ttT	.	.	.	1	GRAMD4	HGNC	29113	protein_coding	YES	CCDS33672.1	ENSP00000385689	GRAM4_HUMAN	.	UPI0000161A59	.	.	.	14/19	.	hmmpanther:PTHR16122	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTTCATCTT	.	5	BLCA
GRAMD4	0	.	GRCh37	22	47069688	47069688	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1361C>T	p.Thr454Ile	p.T454I	ENST00000406902	15/19	104	78	25	163	162	0	GRAMD4,missense_variant,p.Thr454Ile,ENST00000406902,;GRAMD4,missense_variant,p.Thr454Ile,ENST00000361034,;GRAMD4,downstream_gene_variant,,ENST00000456069,;GRAMD4,upstream_gene_variant,,ENST00000408031,;	T	ENSG00000075240	ENST00000406902	Transcript	missense_variant	1574	1361	454	T/I	aCa/aTa	.	.	.	1	GRAMD4	HGNC	29113	protein_coding	YES	CCDS33672.1	ENSP00000385689	GRAM4_HUMAN	.	UPI0000161A59	.	deleterious(0.02)	benign(0.142)	15/19	.	hmmpanther:PTHR16122,Pfam_domain:PF02893,SMART_domains:SM00568	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGACAGAAA	.	5	BLCA
TBC1D22A	0	.	GRCh37	22	47193435	47193435	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.555C>T	p.%3D	p.L185L	ENST00000337137	4/13	28	21	6	39	39	0	TBC1D22A,synonymous_variant,p.%3D,ENST00000337137,;TBC1D22A,synonymous_variant,p.%3D,ENST00000406733,;TBC1D22A,synonymous_variant,p.%3D,ENST00000380995,;TBC1D22A,intron_variant,,ENST00000355704,;TBC1D22A,intron_variant,,ENST00000407381,;TBC1D22A,downstream_gene_variant,,ENST00000472791,;TBC1D22A,downstream_gene_variant,,ENST00000496139,;TBC1D22A,downstream_gene_variant,,ENST00000486163,;TBC1D22A,synonymous_variant,p.%3D,ENST00000441162,;TBC1D22A,synonymous_variant,p.%3D,ENST00000394449,;TBC1D22A,downstream_gene_variant,,ENST00000441936,;	T	ENSG00000054611	ENST00000337137	Transcript	synonymous_variant	721	555	185	L	ctC/ctT	.	.	.	1	TBC1D22A	HGNC	1309	protein_coding	YES	CCDS14078.1	ENSP00000336724	TB22A_HUMAN	B9A6M3_HUMAN,B0QYI3_HUMAN	UPI0000128722	.	.	.	4/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF255	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	ACTCTCAGCAG	.	4	BLCA
BRD1	0	.	GRCh37	22	50216606	50216606	+	Missense_Mutation	SNP	G	G	A	rs775142763	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1360C>T	p.Pro454Ser	p.P454S	ENST00000216267	1/12	67	44	22	113	113	0	BRD1,missense_variant,p.Pro93Ser,ENST00000542442,;BRD1,missense_variant,p.Pro454Ser,ENST00000457780,;BRD1,missense_variant,p.Pro454Ser,ENST00000216267,;BRD1,missense_variant,p.Pro454Ser,ENST00000404034,;BRD1,missense_variant,p.Pro454Ser,ENST00000404760,;BRD1,5_prime_UTR_variant,,ENST00000342989,;BRD1,non_coding_transcript_exon_variant,,ENST00000459821,;BRD1,non_coding_transcript_exon_variant,,ENST00000494833,;BRD1,missense_variant,p.Pro86Ser,ENST00000438393,;	A	ENSG00000100425	ENST00000216267	Transcript	missense_variant	1847	1360	454	P/S	Ccg/Tcg	rs775142763	.	.	-1	BRD1	HGNC	1102	protein_coding	YES	CCDS14080.1	ENSP00000216267	BRD1_HUMAN	Q659H0_HUMAN	UPI0000126ACA	.	tolerated(0.7)	benign(0.041)	1/12	.	hmmpanther:PTHR13793,hmmpanther:PTHR13793:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCGGGGGAA	.	5	BLCA
CRELD2	0	.	GRCh37	22	50316032	50316032	+	Missense_Mutation	SNP	G	G	A	rs377268581	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.680G>A	p.Arg227Gln	p.R227Q	ENST00000404488	6/11	18	13	4	28	28	0	CRELD2,missense_variant,p.Arg227Gln,ENST00000404488,;CRELD2,intron_variant,,ENST00000407217,;CRELD2,intron_variant,,ENST00000328268,;CRELD2,intron_variant,,ENST00000403427,;CRELD2,intron_variant,,ENST00000450207,;ALG12,upstream_gene_variant,,ENST00000330817,;CRELD2,intron_variant,,ENST00000444954,;CRELD2,intron_variant,,ENST00000462253,;CRELD2,downstream_gene_variant,,ENST00000498354,;CRELD2,intron_variant,,ENST00000483652,;CRELD2,intron_variant,,ENST00000482956,;CRELD2,upstream_gene_variant,,ENST00000487969,;	A	ENSG00000184164	ENST00000404488	Transcript	missense_variant	815	680	227	R/Q	cGg/cAg	rs377268581	.	.	1	CRELD2	HGNC	28150	protein_coding	YES	CCDS46730.1	ENSP00000383938	CREL2_HUMAN	.	UPI0000E56EE9	.	tolerated_low_confidence(0.23)	benign(0.012)	6/11	.	hmmpanther:PTHR24838:SF252,hmmpanther:PTHR24838	A:0.0008	A:0	A:0	.	A:0	A:0	A:0.0041	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGGAACA	byFrequency|byCluster|by1000G	5	BLCA
CRELD2	0	.	GRCh37	22	50316033	50316033	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681G>A	p.%3D	p.R227R	ENST00000404488	6/11	18	13	4	26	26	0	CRELD2,synonymous_variant,p.%3D,ENST00000404488,;CRELD2,intron_variant,,ENST00000407217,;CRELD2,intron_variant,,ENST00000328268,;CRELD2,intron_variant,,ENST00000403427,;CRELD2,intron_variant,,ENST00000450207,;ALG12,upstream_gene_variant,,ENST00000330817,;CRELD2,intron_variant,,ENST00000444954,;CRELD2,intron_variant,,ENST00000462253,;CRELD2,downstream_gene_variant,,ENST00000498354,;CRELD2,intron_variant,,ENST00000483652,;CRELD2,intron_variant,,ENST00000482956,;CRELD2,upstream_gene_variant,,ENST00000487969,;	A	ENSG00000184164	ENST00000404488	Transcript	synonymous_variant	816	681	227	R	cgG/cgA	.	.	.	1	CRELD2	HGNC	28150	protein_coding	YES	CCDS46730.1	ENSP00000383938	CREL2_HUMAN	.	UPI0000E56EE9	.	.	.	6/11	.	hmmpanther:PTHR24838:SF252,hmmpanther:PTHR24838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCGGAACAC	.	5	BLCA
PIM3	0	.	GRCh37	22	50356473	50356473	+	Missense_Mutation	SNP	C	C	G	rs139983531	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753C>G	p.Ile251Met	p.I251M	ENST00000360612	5/6	32	20	12	69	68	1	PIM3,missense_variant,p.Ile251Met,ENST00000360612,;PIM3,downstream_gene_variant,,ENST00000467480,;	G	ENSG00000198355	ENST00000360612	Transcript	missense_variant	1188	753	251	I/M	atC/atG	rs139983531	.	.	1	PIM3	HGNC	19310	protein_coding	YES	CCDS33678.1	ENSP00000353824	PIM3_HUMAN	.	UPI00001582C4	.	deleterious(0)	probably_damaging(0.999)	5/6	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22984,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	T:0.0010	T:0.0038	T:0	.	T:0	T:0	T:0	T:0.0048	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GAGATCCTCCG	byFrequency|byCluster|by1000G	4	BLCA
TUBGCP6	0	.	GRCh37	22	50662684	50662684	+	Missense_Mutation	SNP	C	C	T	rs772397375	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2156G>A	p.Arg719Gln	p.R719Q	ENST00000248846	13/25	31	19	11	48	48	0	TUBGCP6,missense_variant,p.Arg719Gln,ENST00000439308,;TUBGCP6,missense_variant,p.Arg719Gln,ENST00000248846,;TUBGCP6,upstream_gene_variant,,ENST00000425018,;TUBGCP6,downstream_gene_variant,,ENST00000434349,;TUBGCP6,splice_region_variant,,ENST00000473946,;TUBGCP6,splice_region_variant,,ENST00000489511,;TUBGCP6,splice_region_variant,,ENST00000491449,;TUBGCP6,splice_region_variant,,ENST00000498611,;	T	ENSG00000128159	ENST00000248846	Transcript	missense_variant	2261	2156	719	R/Q	cGa/cAa	rs772397375	.	.	-1	TUBGCP6	HGNC	18127	protein_coding	YES	CCDS14087.1	ENSP00000248846	GCP6_HUMAN	.	UPI000013CC55	.	tolerated(0.06)	possibly_damaging(0.715)	13/25	.	Coiled-coils_(Ncoils):Coil,Pfam_domain:PF04130,hmmpanther:PTHR19302,hmmpanther:PTHR19302:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGTCGCTAT	byFrequency|byCluster	5	BLCA
TUBGCP6	0	.	GRCh37	22	50682500	50682500	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389G>A	p.Arg130Gln	p.R130Q	ENST00000248846	1/25	49	29	20	65	65	0	TUBGCP6,missense_variant,p.Arg130Gln,ENST00000248846,;TUBGCP6,missense_variant,p.Arg130Gln,ENST00000439308,;HDAC10,downstream_gene_variant,,ENST00000349505,;HDAC10,downstream_gene_variant,,ENST00000216271,;HDAC10,downstream_gene_variant,,ENST00000448072,;TUBGCP6,upstream_gene_variant,,ENST00000434349,;HDAC10,downstream_gene_variant,,ENST00000498366,;HDAC10,downstream_gene_variant,,ENST00000483222,;HDAC10,downstream_gene_variant,,ENST00000496909,;MAPK12,downstream_gene_variant,,ENST00000497036,;TUBGCP6,non_coding_transcript_exon_variant,,ENST00000498611,;HDAC10,downstream_gene_variant,,ENST00000475965,;HDAC10,downstream_gene_variant,,ENST00000471375,;HDAC10,downstream_gene_variant,,ENST00000496235,;HDAC10,downstream_gene_variant,,ENST00000477814,;HDAC10,downstream_gene_variant,,ENST00000454936,;HDAC10,downstream_gene_variant,,ENST00000429374,;HDAC10,downstream_gene_variant,,ENST00000415993,;HDAC10,downstream_gene_variant,,ENST00000470378,;HDAC10,downstream_gene_variant,,ENST00000476310,;HDAC10,downstream_gene_variant,,ENST00000497952,;	T	ENSG00000128159	ENST00000248846	Transcript	missense_variant	494	389	130	R/Q	cGa/cAa	.	.	.	-1	TUBGCP6	HGNC	18127	protein_coding	YES	CCDS14087.1	ENSP00000248846	GCP6_HUMAN	.	UPI000013CC55	.	deleterious(0.01)	possibly_damaging(0.791)	1/25	.	hmmpanther:PTHR19302,hmmpanther:PTHR19302:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCGTTTT	.	5	BLCA
PLXNB2	0	.	GRCh37	22	50720409	50720409	+	Silent	SNP	G	G	A	rs371203017	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3219C>T	p.%3D	p.I1073I	ENST00000449103	20/37	37	23	13	35	35	0	PLXNB2,synonymous_variant,p.%3D,ENST00000359337,;PLXNB2,synonymous_variant,p.%3D,ENST00000427829,;PLXNB2,synonymous_variant,p.%3D,ENST00000449103,;PLXNB2,intron_variant,,ENST00000411680,;PLXNB2,downstream_gene_variant,,ENST00000434732,;PLXNB2,downstream_gene_variant,,ENST00000496720,;PLXNB2,non_coding_transcript_exon_variant,,ENST00000479701,;PLXNB2,non_coding_transcript_exon_variant,,ENST00000492578,;PLXNB2,upstream_gene_variant,,ENST00000479818,;PLXNB2,upstream_gene_variant,,ENST00000463165,;	A	ENSG00000196576	ENST00000449103	Transcript	synonymous_variant	3360	3219	1073	I	atC/atT	rs371203017	.	.	-1	PLXNB2	HGNC	9104	protein_coding	YES	CCDS43035.1	ENSP00000409171	PLXB2_HUMAN	Q2TBE4_HUMAN,E2PU09_HUMAN,A6QRH1_HUMAN	UPI000003812D	.	.	.	20/37	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF9,Gene3D:2.60.40.10,Pfam_domain:PF01833,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTCGATCAG	byFrequency|byCluster	5	BLCA
PLXNB2	0	.	GRCh37	22	50727256	50727257	+	Frame_Shift_Ins	INS	-	-	ATAGAGT	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1289_1295dupACTCTAT	p.Val434TyrfsTer168	p.V434Yfs*168	ENST00000449103	5/37	15	10	5	26	26	0	PLXNB2,frameshift_variant,p.Val434TyrfsTer168,ENST00000359337,;PLXNB2,frameshift_variant,p.Val434TyrfsTer168,ENST00000449103,;PLXNB2,frameshift_variant,p.Val434TyrfsTer?,ENST00000432455,;PLXNB2,intron_variant,,ENST00000411680,;PLXNB2,upstream_gene_variant,,ENST00000434732,;PLXNB2,downstream_gene_variant,,ENST00000425954,;PLXNB2,upstream_gene_variant,,ENST00000496720,;	ATAGAGT	ENSG00000196576	ENST00000449103	Transcript	frameshift_variant	1436-1437	1295-1296	432	I/ILYX	atc/atACTCTATc	.	.	.	-1	PLXNB2	HGNC	9104	protein_coding	YES	CCDS43035.1	ENSP00000409171	PLXB2_HUMAN	Q2TBE4_HUMAN,E2PU09_HUMAN,A6QRH1_HUMAN	UPI000003812D	.	.	.	5/37	.	PROSITE_profiles:PS51004,hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF9,Gene3D:2.130.10.10,Pfam_domain:PF01403,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	ACAAGGATAGA	.	2	BLCA
MIOX	0	.	GRCh37	22	50927873	50927873	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.634G>A	p.Glu212Lys	p.E212K	ENST00000216075	8/10	16	6	10	25	25	0	MIOX,missense_variant,p.Glu212Lys,ENST00000395732,;MIOX,missense_variant,p.Glu192Lys,ENST00000451761,;MIOX,missense_variant,p.Glu212Lys,ENST00000216075,;MIOX,intron_variant,,ENST00000395733,;ADM2,downstream_gene_variant,,ENST00000395738,;ADM2,downstream_gene_variant,,ENST00000362068,;	A	ENSG00000100253	ENST00000216075	Transcript	missense_variant	708	634	212	E/K	Gag/Aag	.	.	.	1	MIOX	HGNC	14522	protein_coding	YES	CCDS14092.1	ENSP00000216075	MIOX_HUMAN	.	UPI000012F148	.	tolerated(0.06)	benign(0.266)	8/10	.	hmmpanther:PTHR12588,Pfam_domain:PF05153,Superfamily_domains:SSF109604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTGAGGTA	.	5	BLCA
LMF2	0	.	GRCh37	22	50943028	50943028	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1566C>T	p.%3D	p.F522F	ENST00000474879	11/14	24	14	10	25	25	0	LMF2,synonymous_variant,p.%3D,ENST00000216080,;LMF2,synonymous_variant,p.%3D,ENST00000380796,;LMF2,synonymous_variant,p.%3D,ENST00000474879,;NCAPH2,upstream_gene_variant,,ENST00000523045,;NCAPH2,upstream_gene_variant,,ENST00000395701,;NCAPH2,upstream_gene_variant,,ENST00000420993,;NCAPH2,upstream_gene_variant,,ENST00000299821,;NCAPH2,upstream_gene_variant,,ENST00000395698,;LMF2,downstream_gene_variant,,ENST00000505981,;LMF2,non_coding_transcript_exon_variant,,ENST00000504717,;LMF2,downstream_gene_variant,,ENST00000507607,;NCAPH2,upstream_gene_variant,,ENST00000418794,;LMF2,downstream_gene_variant,,ENST00000514938,;NCAPH2,upstream_gene_variant,,ENST00000518394,;	A	ENSG00000100258	ENST00000474879	Transcript	synonymous_variant	1582	1566	522	F	ttC/ttT	.	.	.	-1	LMF2	HGNC	25096	protein_coding	YES	CCDS14093.2	ENSP00000424381	LMF2_HUMAN	.	UPI0000071DF9	.	.	.	11/14	.	hmmpanther:PTHR14463,hmmpanther:PTHR14463:SF5,Pfam_domain:PF06762	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTGAACCA	.	5	BLCA
MAPK8IP2	0	.	GRCh37	22	51043377	51043377	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1647C>T	p.%3D	p.G549G	ENST00000329492	6/13	24	15	9	20	20	0	MAPK8IP2,synonymous_variant,p.%3D,ENST00000329492,;MAPK8IP2,synonymous_variant,p.%3D,ENST00000399912,;MAPK8IP2,synonymous_variant,p.%3D,ENST00000008876,;MAPK8IP2,synonymous_variant,p.%3D,ENST00000341339,;MAPK8IP2,synonymous_variant,p.%3D,ENST00000399908,;MAPK8IP2,intron_variant,,ENST00000442429,;CHKB,upstream_gene_variant,,ENST00000463053,;	T	ENSG00000008735	ENST00000329492	Transcript	synonymous_variant	1764	1647	549	G	ggC/ggT	COSM1257324,COSM1257326,COSM1257325	.	.	1	MAPK8IP2	HGNC	6883	protein_coding	YES	.	ENSP00000330572	.	J3KNN6_HUMAN,A8MTJ1_HUMAN	UPI00001AFA29	.	.	.	6/13	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGGGCGCGGC	.	2	BLCA
MAPK8IP2	0	.	GRCh37	22	51048351	51048351	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2301-289G>A	.	.	ENST00000329492	.	13	7	6	10	10	0	MAPK8IP2,synonymous_variant,p.%3D,ENST00000008876,;MAPK8IP2,intron_variant,,ENST00000329492,;MAPK8IP2,intron_variant,,ENST00000399912,;MAPK8IP2,intron_variant,,ENST00000341339,;MAPK8IP2,intron_variant,,ENST00000442429,;MAPK8IP2,intron_variant,,ENST00000399908,;	A	ENSG00000008735	ENST00000329492	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	MAPK8IP2	HGNC	6883	protein_coding	YES	.	ENSP00000330572	.	J3KNN6_HUMAN,A8MTJ1_HUMAN	UPI00001AFA29	.	.	.	.	11/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER	GCCCTGAATAG	.	3	BLCA
UXS1	0	.	GRCh37	2	106761725	106761725	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393G>A	p.%3D	p.K131K	ENST00000283148	6/15	36	24	12	52	52	0	UXS1,synonymous_variant,p.%3D,ENST00000283148,;UXS1,synonymous_variant,p.%3D,ENST00000409501,;UXS1,synonymous_variant,p.%3D,ENST00000457835,;UXS1,synonymous_variant,p.%3D,ENST00000540130,;UXS1,5_prime_UTR_variant,,ENST00000444193,;UXS1,intron_variant,,ENST00000441952,;UXS1,intron_variant,,ENST00000428048,;UXS1,intron_variant,,ENST00000416298,;UXS1,non_coding_transcript_exon_variant,,ENST00000479774,;UXS1,non_coding_transcript_exon_variant,,ENST00000479621,;UXS1,non_coding_transcript_exon_variant,,ENST00000483426,;	T	ENSG00000115652	ENST00000283148	Transcript	synonymous_variant	491	393	131	K	aaG/aaA	.	.	.	-1	UXS1	HGNC	17729	protein_coding	YES	CCDS58721.1	ENSP00000283148	UXS1_HUMAN	Q8ND26_HUMAN,C9JW33_HUMAN,C9JFU6_HUMAN,C9JCB7_HUMAN,C9J3T9_HUMAN,B3KV61_HUMAN	UPI000003CA36	.	.	.	6/15	.	hmmpanther:PTHR10366,hmmpanther:PTHR10366:SF35,Gene3D:3.40.50.720,Pfam_domain:PF01370,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCTTCCT	.	5	BLCA
CCDC138	0	.	GRCh37	2	109421375	109421375	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.766G>A	p.Glu256Lys	p.E256K	ENST00000295124	7/15	71	53	18	76	76	0	CCDC138,missense_variant,p.Glu256Lys,ENST00000295124,;CCDC138,missense_variant,p.Glu153Lys,ENST00000456512,;CCDC138,missense_variant,p.Glu256Lys,ENST00000412964,;CCDC138,3_prime_UTR_variant,,ENST00000409529,;	A	ENSG00000163006	ENST00000295124	Transcript	missense_variant	826	766	256	E/K	Gaa/Aaa	.	.	.	1	CCDC138	HGNC	26531	protein_coding	YES	CCDS2080.1	ENSP00000295124	CC138_HUMAN	.	UPI000006E2CB	.	deleterious(0)	possibly_damaging(0.502)	7/15	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACCGAAGTT	.	5	BLCA
SEPT10	0	.	GRCh37	2	110322039	110322039	+	Missense_Mutation	SNP	C	C	T	rs376222124	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.932G>A	p.Arg311Gln	p.R311Q	ENST00000397712	8/11	45	29	16	65	65	0	SEPT10,missense_variant,p.Arg311Gln,ENST00000415095,;SEPT10,missense_variant,p.Arg296Gln,ENST00000437928,;SEPT10,missense_variant,p.Arg144Gln,ENST00000545389,;SEPT10,missense_variant,p.Arg311Gln,ENST00000397712,;SEPT10,missense_variant,p.Arg178Gln,ENST00000334001,;SEPT10,missense_variant,p.Arg288Gln,ENST00000397714,;SEPT10,missense_variant,p.Arg311Gln,ENST00000356688,;SEPT10,downstream_gene_variant,,ENST00000461295,;SEPT10,downstream_gene_variant,,ENST00000493445,;SEPT10,downstream_gene_variant,,ENST00000423520,;SEPT10,non_coding_transcript_exon_variant,,ENST00000468616,;SEPT10,3_prime_UTR_variant,,ENST00000486678,;SEPT10,3_prime_UTR_variant,,ENST00000425498,;SEPT10,non_coding_transcript_exon_variant,,ENST00000483047,;	T	ENSG00000186522	ENST00000397712	Transcript	missense_variant	1311	932	311	R/Q	cGa/cAa	rs376222124	.	.	-1	SEPT10	HGNC	14349	protein_coding	YES	CCDS46383.1	ENSP00000380824	SEP10_HUMAN	Q9H9P7_HUMAN,F5H1F2_HUMAN,F5GYV2_HUMAN,C9JEW2_HUMAN	UPI00000372DD	.	deleterious(0.01)	possibly_damaging(0.477)	8/11	.	PROSITE_profiles:PS51719,hmmpanther:PTHR18884:SF50,hmmpanther:PTHR18884,Pfam_domain:PF00735,PIRSF_domain:PIRSF006698	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTCGCAGG	byFrequency|byCluster	5	BLCA
SEPT10	0	.	GRCh37	2	110323400	110323400	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.799G>A	p.Glu267Lys	p.E267K	ENST00000397712	7/11	152	97	55	177	177	0	SEPT10,missense_variant,p.Glu267Lys,ENST00000415095,;SEPT10,missense_variant,p.Glu252Lys,ENST00000437928,;SEPT10,missense_variant,p.Glu74Lys,ENST00000493445,;SEPT10,missense_variant,p.Glu100Lys,ENST00000545389,;SEPT10,missense_variant,p.Glu267Lys,ENST00000397712,;SEPT10,missense_variant,p.Glu134Lys,ENST00000334001,;SEPT10,missense_variant,p.Glu244Lys,ENST00000397714,;SEPT10,missense_variant,p.Glu267Lys,ENST00000356688,;SEPT10,downstream_gene_variant,,ENST00000461295,;SEPT10,downstream_gene_variant,,ENST00000423520,;SEPT10,non_coding_transcript_exon_variant,,ENST00000468616,;SEPT10,3_prime_UTR_variant,,ENST00000486678,;SEPT10,3_prime_UTR_variant,,ENST00000425498,;SEPT10,non_coding_transcript_exon_variant,,ENST00000483047,;	T	ENSG00000186522	ENST00000397712	Transcript	missense_variant	1178	799	267	E/K	Gag/Aag	.	.	.	-1	SEPT10	HGNC	14349	protein_coding	YES	CCDS46383.1	ENSP00000380824	SEP10_HUMAN	Q9H9P7_HUMAN,F5H1F2_HUMAN,F5GYV2_HUMAN,C9JEW2_HUMAN	UPI00000372DD	.	tolerated(0.09)	probably_damaging(0.998)	7/11	.	PROSITE_profiles:PS51719,hmmpanther:PTHR18884:SF50,hmmpanther:PTHR18884,Pfam_domain:PF00735,PIRSF_domain:PIRSF006698,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCATCCA	.	5	BLCA
ANAPC1	0	.	GRCh37	2	112582553	112582553	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2802G>A	p.Met934Ile	p.M934I	ENST00000341068	24/48	79	58	21	124	124	0	ANAPC1,missense_variant,p.Met934Ile,ENST00000341068,;ANAPC1,missense_variant,p.Met469Ile,ENST00000427997,;ANAPC1,upstream_gene_variant,,ENST00000485325,;	T	ENSG00000153107	ENST00000341068	Transcript	missense_variant	3575	2802	934	M/I	atG/atA	.	.	.	-1	ANAPC1	HGNC	19988	protein_coding	YES	CCDS2093.1	ENSP00000339109	APC1_HUMAN	.	UPI000006EC6E	.	tolerated(0.07)	benign(0.014)	24/48	.	hmmpanther:PTHR12827	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAGTCATCCA	.	5	BLCA
MERTK	0	.	GRCh37	2	112760672	112760672	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1694A>T	p.His565Leu	p.H565L	ENST00000295408	12/19	52	39	13	77	77	0	MERTK,missense_variant,p.His565Leu,ENST00000295408,;MERTK,missense_variant,p.His565Leu,ENST00000421804,;MERTK,missense_variant,p.His389Leu,ENST00000409780,;MERTK,3_prime_UTR_variant,,ENST00000439966,;MERTK,non_coding_transcript_exon_variant,,ENST00000473065,;	T	ENSG00000153208	ENST00000295408	Transcript	missense_variant	1951	1694	565	H/L	cAt/cTt	.	.	.	1	MERTK	HGNC	7027	protein_coding	YES	CCDS2094.1	ENSP00000295408	MERTK_HUMAN	Q96T45_HUMAN,Q53R53_HUMAN,Q53QW0_HUMAN,Q07941_HUMAN,E9PHX8_HUMAN,B4DFQ0_HUMAN	UPI000013E252	.	tolerated(0.13)	benign(0.007)	12/19	.	hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF257	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTACATAGCT	.	5	BLCA
TTL	0	.	GRCh37	2	113258785	113258785	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.472G>A	p.Glu158Lys	p.E158K	ENST00000233336	4/7	59	41	18	60	60	0	TTL,missense_variant,p.Glu158Lys,ENST00000233336,;TTL,upstream_gene_variant,,ENST00000476615,;	A	ENSG00000114999	ENST00000233336	Transcript	missense_variant	663	472	158	E/K	Gaa/Aaa	.	.	.	1	TTL	HGNC	21586	protein_coding	YES	CCDS2096.1	ENSP00000233336	TTL_HUMAN	.	UPI000004FDE7	.	tolerated(0.15)	probably_damaging(0.931)	4/7	.	PROSITE_profiles:PS51221,hmmpanther:PTHR12241,Pfam_domain:PF03133,Superfamily_domains:SSF56059	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGTGAAGGC	.	5	BLCA
POLR1B	0	.	GRCh37	2	113330286	113330286	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2222C>T	p.Ala741Val	p.A741V	ENST00000263331	13/15	74	55	19	101	101	0	POLR1B,missense_variant,p.Ala779Val,ENST00000541869,;POLR1B,missense_variant,p.Ala530Val,ENST00000537335,;POLR1B,missense_variant,p.Ala741Val,ENST00000263331,;POLR1B,missense_variant,p.Ala126Val,ENST00000458012,;POLR1B,missense_variant,p.Ala685Val,ENST00000417433,;POLR1B,missense_variant,p.Ala558Val,ENST00000409894,;POLR1B,3_prime_UTR_variant,,ENST00000448770,;POLR1B,3_prime_UTR_variant,,ENST00000333990,;POLR1B,downstream_gene_variant,,ENST00000484574,;	T	ENSG00000125630	ENST00000263331	Transcript	missense_variant	2802	2222	741	A/V	gCc/gTc	.	.	.	1	POLR1B	HGNC	20454	protein_coding	YES	CCDS2097.1	ENSP00000263331	RPA2_HUMAN	Q9BSR4_HUMAN,Q6DKI9_HUMAN,F5H643_HUMAN,C9JS83_HUMAN,C9JJG2_HUMAN,B7Z1W6_HUMAN	UPI00001B6B03	.	deleterious(0.01)	possibly_damaging(0.901)	13/15	.	hmmpanther:PTHR20856:SF5,hmmpanther:PTHR20856,Gene3D:2a6hC01,Pfam_domain:PF00562,Superfamily_domains:SSF64484	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATGCCATCG	.	5	BLCA
SLC20A1	0	.	GRCh37	2	113418013	113418013	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1657G>A	p.Asp553Asn	p.D553N	ENST00000272542	9/11	157	125	32	214	214	0	SLC20A1,missense_variant,p.Asp553Asn,ENST00000272542,;SLC20A1,downstream_gene_variant,,ENST00000433924,;SLC20A1,downstream_gene_variant,,ENST00000480984,;SLC20A1,non_coding_transcript_exon_variant,,ENST00000490674,;SLC20A1,downstream_gene_variant,,ENST00000413135,;SLC20A1,downstream_gene_variant,,ENST00000498224,;SLC20A1,downstream_gene_variant,,ENST00000456264,;	A	ENSG00000144136	ENST00000272542	Transcript	missense_variant	2196	1657	553	D/N	Gat/Aat	.	.	.	1	SLC20A1	HGNC	10946	protein_coding	YES	CCDS2099.1	ENSP00000272542	S20A1_HUMAN	A7LNJ1_HUMAN	UPI0000071362	.	tolerated(0.26)	benign(0.005)	9/11	.	hmmpanther:PTHR11101:SF46,hmmpanther:PTHR11101,Pfam_domain:PF01384	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGAGATGTT	.	5	BLCA
CKAP2L	0	.	GRCh37	2	113500334	113500334	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1771T>C	p.%3D	p.L591L	ENST00000302450	7/9	56	38	18	57	57	0	CKAP2L,synonymous_variant,p.%3D,ENST00000302450,;CKAP2L,synonymous_variant,p.%3D,ENST00000541405,;NT5DC4,3_prime_UTR_variant,,ENST00000327581,;NT5DC4,downstream_gene_variant,,ENST00000491170,;CKAP2L,3_prime_UTR_variant,,ENST00000435431,;CKAP2L,non_coding_transcript_exon_variant,,ENST00000474331,;	G	ENSG00000169607	ENST00000302450	Transcript	synonymous_variant	1850	1771	591	L	Ttg/Ctg	.	.	.	-1	CKAP2L	HGNC	26877	protein_coding	YES	CCDS2100.1	ENSP00000305204	CKP2L_HUMAN	F5H0M5_HUMAN	UPI0000207D64	.	.	.	7/9	.	hmmpanther:PTHR16076,hmmpanther:PTHR16076:SF7,Pfam_domain:PF15297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCAACTCTT	.	5	BLCA
EN1	0	.	GRCh37	2	119600673	119600673	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1020C>T	p.%3D	p.L340L	ENST00000295206	2/2	28	18	10	36	36	0	EN1,synonymous_variant,p.%3D,ENST00000295206,;EN1,downstream_gene_variant,,ENST00000546667,;	A	ENSG00000163064	ENST00000295206	Transcript	synonymous_variant	1531	1020	340	L	ctC/ctT	.	.	.	-1	EN1	HGNC	3342	protein_coding	YES	CCDS2123.1	ENSP00000295206	HME1_HUMAN	.	UPI000013E21D	.	.	.	2/2	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24341,hmmpanther:PTHR24341:SF4,PROSITE_patterns:PS00027,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689,Prints_domain:PR00024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTGAGTTC	.	5	BLCA
STEAP3	0	.	GRCh37	2	120020691	120020691	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1274G>A	p.Trp425Ter	p.W425*	ENST00000393110	6/6	77	72	5	99	99	0	STEAP3,stop_gained,p.Trp415Ter,ENST00000354888,;STEAP3,stop_gained,p.Trp415Ter,ENST00000393106,;STEAP3,stop_gained,p.Trp415Ter,ENST00000393108,;STEAP3,stop_gained,p.Trp415Ter,ENST00000393107,;STEAP3,stop_gained,p.Trp415Ter,ENST00000425223,;STEAP3,stop_gained,p.Trp425Ter,ENST00000393110,;STEAP3,3_prime_UTR_variant,,ENST00000409811,;	A	ENSG00000115107	ENST00000393110	Transcript	stop_gained	1725	1274	425	W/*	tGg/tAg	.	.	.	1	STEAP3	HGNC	24592	protein_coding	YES	CCDS42738.1	ENSP00000376822	STEA3_HUMAN	.	UPI0000207E04	.	.	.	6/6	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14239:SF7,hmmpanther:PTHR14239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGCTGGACCC	.	2	BLCA
SCTR	0	.	GRCh37	2	120219499	120219499	+	Silent	SNP	G	G	A	rs370096045	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.714C>T	p.%3D	p.L238L	ENST00000019103	7/13	58	40	18	60	60	0	SCTR,synonymous_variant,p.%3D,ENST00000019103,;SCTR,non_coding_transcript_exon_variant,,ENST00000485440,;	A	ENSG00000080293	ENST00000019103	Transcript	synonymous_variant	982	714	238	L	ctC/ctT	rs370096045	.	.	-1	SCTR	HGNC	10608	protein_coding	YES	CCDS2127.1	ENSP00000019103	SCTR_HUMAN	.	UPI000004A2E8	.	.	.	7/13	.	PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF29,Pfam_domain:PF00002,Superfamily_domains:SSF81321,Prints_domain:PR00249	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTAGAGGCC	byCluster	5	BLCA
CYP27C1	0	.	GRCh37	2	127953045	127953045	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.585C>T	p.%3D	p.L195L	ENST00000335247	5/8	21	15	6	29	29	0	CYP27C1,synonymous_variant,p.%3D,ENST00000409327,;CYP27C1,synonymous_variant,p.%3D,ENST00000335247,;	A	ENSG00000186684	ENST00000335247	Transcript	synonymous_variant	716	585	195	L	ctC/ctT	.	.	.	-1	CYP27C1	HGNC	33480	protein_coding	YES	CCDS33285.1	ENSP00000334128	C27C1_HUMAN	.	UPI00001995F8	.	.	.	5/8	.	hmmpanther:PTHR24291,hmmpanther:PTHR24291:SF9,Pfam_domain:PF00067,Gene3D:1.10.630.10,Superfamily_domains:SSF48264,Prints_domain:PR00385,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAGGAGGTA	.	2	BLCA
WDR33	0	.	GRCh37	2	128463995	128463995	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3913C>T	p.Arg1305Ter	p.R1305*	ENST00000322313	22/22	104	60	44	137	137	0	WDR33,stop_gained,p.Arg1305Ter,ENST00000322313,;SFT2D3,downstream_gene_variant,,ENST00000310981,;	A	ENSG00000136709	ENST00000322313	Transcript	stop_gained	4072	3913	1305	R/*	Cga/Tga	.	.	.	-1	WDR33	HGNC	25651	protein_coding	YES	CCDS2150.1	ENSP00000325377	WDR33_HUMAN	C9J8B4_HUMAN,B9A053_HUMAN	UPI000013D032	.	.	.	22/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22836	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTCGAGAAG	.	5	BLCA
TUBA3E	0	.	GRCh37	2	130949679	130949679	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1078C>T	p.Pro360Ser	p.P360S	ENST00000312988	5/5	64	52	12	76	76	0	TUBA3E,missense_variant,p.Pro360Ser,ENST00000312988,;MZT2B,downstream_gene_variant,,ENST00000457492,;MZT2B,downstream_gene_variant,,ENST00000425361,;MZT2B,downstream_gene_variant,,ENST00000455239,;MZT2B,downstream_gene_variant,,ENST00000281871,;MZT2B,downstream_gene_variant,,ENST00000409255,;MZT2B,downstream_gene_variant,,ENST00000491178,;MZT2B,downstream_gene_variant,,ENST00000480182,;	A	ENSG00000152086	ENST00000312988	Transcript	missense_variant	1179	1078	360	P/S	Ccc/Tcc	.	.	.	-1	TUBA3E	HGNC	20765	protein_coding	YES	CCDS2158.1	ENSP00000318197	TBA3E_HUMAN	F8VXZ7_HUMAN	UPI00001BE8EB	.	deleterious_low_confidence(0.01)	possibly_damaging(0.613)	5/5	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF65,Pfam_domain:PF03953,Gene3D:3.30.1330.20,SMART_domains:SM00865,Superfamily_domains:SSF55307,Prints_domain:PR01162,Prints_domain:PR01162	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGGGGGGCT	.	4	BLCA
GPR148	0	.	GRCh37	2	131487651	131487651	+	Missense_Mutation	SNP	G	G	A	rs780327331	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927G>A	p.Met309Ile	p.M309I	ENST00000309926	1/1	50	31	18	73	73	0	GPR148,missense_variant,p.Met309Ile,ENST00000309926,;	A	ENSG00000173302	ENST00000309926	Transcript	missense_variant	1009	927	309	M/I	atG/atA	rs780327331	.	.	1	GPR148	HGNC	23623	protein_coding	YES	CCDS2163.1	ENSP00000308908	GP148_HUMAN	.	UPI0000048E0D	.	deleterious(0.02)	possibly_damaging(0.681)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24243:SF114,hmmpanther:PTHR24243,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATGATGCT	.	5	BLCA
UBXN4	0	.	GRCh37	2	136499499	136499499	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000272638	1/13	13	8	5	14	14	0	UBXN4,5_prime_UTR_variant,,ENST00000272638,;UBXN4,5_prime_UTR_variant,,ENST00000415164,;UBXN4,upstream_gene_variant,,ENST00000467065,;UBXN4,5_prime_UTR_variant,,ENST00000426921,;UBXN4,5_prime_UTR_variant,,ENST00000416538,;	A	ENSG00000144224	ENST00000272638	Transcript	5_prime_UTR_variant	311	.	.	.	.	.	.	.	1	UBXN4	HGNC	14860	protein_coding	YES	CCDS42761.1	ENSP00000272638	UBXN4_HUMAN	B3KTD5_HUMAN	UPI0000074226	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGAGCGATGCT	.	3	BLCA
ZEB2	0	.	GRCh37	2	145156271	145156271	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2483A>G	p.Lys828Arg	p.K828R	ENST00000558170	8/10	88	63	24	93	93	0	ZEB2,missense_variant,p.Lys804Arg,ENST00000539609,;ZEB2,missense_variant,p.Lys828Arg,ENST00000409487,;ZEB2,missense_variant,p.Lys828Arg,ENST00000303660,;ZEB2,missense_variant,p.Lys828Arg,ENST00000558170,;ZEB2,intron_variant,,ENST00000419938,;ZEB2,downstream_gene_variant,,ENST00000427902,;ZEB2,downstream_gene_variant,,ENST00000392861,;	C	ENSG00000169554	ENST00000558170	Transcript	missense_variant	3668	2483	828	K/R	aAa/aGa	.	.	.	-1	ZEB2	HGNC	14881	protein_coding	YES	CCDS2186.1	ENSP00000454157	ZEB2_HUMAN	U3KPV5_HUMAN,Q53TG0_HUMAN,Q53TD9_HUMAN,E7EUW9_HUMAN,E7ESP8_HUMAN,C9JUQ1_HUMAN,C9JU62_HUMAN,A0JP08_HUMAN	UPI00001359A2	.	tolerated(0.43)	possibly_damaging(0.679)	8/10	.	hmmpanther:PTHR13919,hmmpanther:PTHR13919:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTTTGGGT	.	5	BLCA
RPRM	0	.	GRCh37	2	154335052	154335052	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28G>A	p.Asp10Asn	p.D10N	ENST00000325926	1/1	12	7	5	22	22	0	RPRM,missense_variant,p.Asp10Asn,ENST00000325926,;AC012501.2,intron_variant,,ENST00000424322,;	T	ENSG00000177519	ENST00000325926	Transcript	missense_variant	271	28	10	D/N	Gac/Aac	.	.	.	-1	RPRM	HGNC	24201	protein_coding	YES	CCDS2198.1	ENSP00000314946	RPRM_HUMAN	.	UPI0000072BEC	.	tolerated_low_confidence(0.48)	benign(0.001)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CACGTCCGTCT	.	3	BLCA
GALNT13	0	.	GRCh37	2	155098615	155098615	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384G>A	p.Trp128Ter	p.W128*	ENST00000392825	5/13	40	26	14	62	62	0	GALNT13,stop_gained,p.Trp128Ter,ENST00000392825,;GALNT13,stop_gained,p.Trp128Ter,ENST00000409237,;GALNT13,3_prime_UTR_variant,,ENST00000431076,;	A	ENSG00000144278	ENST00000392825	Transcript	stop_gained	951	384	128	W/*	tgG/tgA	COSM716290	.	.	1	GALNT13	HGNC	23242	protein_coding	YES	CCDS2199.1	ENSP00000376570	GLT13_HUMAN	Q68VI8_HUMAN	UPI0000051E22	.	.	.	5/13	.	Superfamily_domains:SSF53448,Gene3D:3.90.550.10,Pfam_domain:PF00535,hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF21	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTGGAGCAC	.	5	BLCA
KCNJ3	0	.	GRCh37	2	155555257	155555257	+	5'UTR	SNP	C	C	T	rs766729628	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31C>T	.	.	ENST00000295101	1/3	13	7	6	29	29	0	KCNJ3,5_prime_UTR_variant,,ENST00000295101,;KCNJ3,5_prime_UTR_variant,,ENST00000544049,;AC061961.2,upstream_gene_variant,,ENST00000443901,;	T	ENSG00000162989	ENST00000295101	Transcript	5_prime_UTR_variant	447	.	.	.	.	rs766729628	.	.	1	KCNJ3	HGNC	6264	protein_coding	YES	CCDS2200.1	ENSP00000295101	IRK3_HUMAN	Q53R59_HUMAN	UPI000012D899	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCTTCGCGTT	.	3	BLCA
NBAS	0	.	GRCh37	2	15701416	15701416	+	Missense_Mutation	SNP	C	C	T	rs115462597	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13G>A	p.Glu5Lys	p.E5K	ENST00000281513	1/52	96	65	31	139	139	0	NBAS,missense_variant,p.Glu5Lys,ENST00000441750,;NBAS,missense_variant,p.Glu5Lys,ENST00000281513,;AC008278.2,upstream_gene_variant,,ENST00000438178,;	T	ENSG00000151779	ENST00000281513	Transcript	missense_variant	39	13	5	E/K	Gag/Aag	rs115462597	.	.	-1	NBAS	HGNC	15625	protein_coding	YES	CCDS1685.1	ENSP00000281513	NBAS_HUMAN	Q4ZG05_HUMAN,H7C007_HUMAN	UPI00001AEA68	.	deleterious_low_confidence(0.02)	benign(0.107)	1/52	.	hmmpanther:PTHR15922:SF2,hmmpanther:PTHR15922	T:0.0002	T:0	T:0	.	T:0	T:0.001	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTCGGGGG	byCluster|by1000G	5	BLCA
GALNT5	0	.	GRCh37	2	158114519	158114519	+	5'UTR	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-76G>T	.	.	ENST00000259056	1/10	22	13	9	30	30	0	GALNT5,5_prime_UTR_variant,,ENST00000259056,;	T	ENSG00000136542	ENST00000259056	Transcript	5_prime_UTR_variant	410	.	.	.	.	.	.	.	1	GALNT5	HGNC	4127	protein_coding	YES	CCDS2203.1	ENSP00000259056	GALT5_HUMAN	Q68VJ5_HUMAN	UPI000019AD19	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTGCTGCT	.	2	BLCA
GALNT5	0	.	GRCh37	2	158115430	158115430	+	Missense_Mutation	SNP	C	C	T	rs143195308	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.836C>T	p.Pro279Leu	p.P279L	ENST00000259056	1/10	64	49	15	72	72	0	GALNT5,missense_variant,p.Pro279Leu,ENST00000259056,;	T	ENSG00000136542	ENST00000259056	Transcript	missense_variant	1321	836	279	P/L	cCt/cTt	rs143195308	.	.	1	GALNT5	HGNC	4127	protein_coding	YES	CCDS2203.1	ENSP00000259056	GALT5_HUMAN	Q68VJ5_HUMAN	UPI000019AD19	.	tolerated(0.16)	benign(0)	1/10	.	hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF16	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0007	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTCCTAAGT	byCluster|by1000G	5	BLCA
PLA2R1	0	.	GRCh37	2	160869829	160869829	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1609G>A	p.Asp537Asn	p.D537N	ENST00000283243	10/30	46	28	18	57	57	0	PLA2R1,missense_variant,p.Asp537Asn,ENST00000283243,;PLA2R1,missense_variant,p.Asp537Asn,ENST00000392771,;	T	ENSG00000153246	ENST00000283243	Transcript	missense_variant	1816	1609	537	D/N	Gac/Aac	.	.	.	-1	PLA2R1	HGNC	9042	protein_coding	YES	CCDS33309.1	ENSP00000283243	PLA2R_HUMAN	.	UPI00001AEA9D	.	deleterious(0.03)	benign(0.199)	10/30	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22803:SF71,hmmpanther:PTHR22803,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGTCAAAGC	.	5	BLCA
PLA2R1	0	.	GRCh37	2	160889499	160889499	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.812C>T	p.Thr271Ile	p.T271I	ENST00000283243	4/30	83	58	25	107	107	0	PLA2R1,missense_variant,p.Thr271Ile,ENST00000283243,;PLA2R1,missense_variant,p.Thr271Ile,ENST00000392771,;	A	ENSG00000153246	ENST00000283243	Transcript	missense_variant	1019	812	271	T/I	aCa/aTa	.	.	.	-1	PLA2R1	HGNC	9042	protein_coding	YES	CCDS33309.1	ENSP00000283243	PLA2R_HUMAN	.	UPI00001AEA9D	.	deleterious(0.04)	benign(0.049)	4/30	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22803:SF71,hmmpanther:PTHR22803,Gene3D:3.10.100.10,Pfam_domain:PF00059,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTGTAATA	.	5	BLCA
COBLL1	0	.	GRCh37	2	165551127	165551127	+	Silent	SNP	A	A	C	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2889T>G	p.%3D	p.S963S	ENST00000342193	12/14	32	20	11	50	50	0	COBLL1,synonymous_variant,p.%3D,ENST00000375458,;COBLL1,synonymous_variant,p.%3D,ENST00000409184,;COBLL1,synonymous_variant,p.%3D,ENST00000342193,;COBLL1,synonymous_variant,p.%3D,ENST00000392717,;COBLL1,synonymous_variant,p.%3D,ENST00000194871,;COBLL1,non_coding_transcript_exon_variant,,ENST00000493713,;COBLL1,upstream_gene_variant,,ENST00000495084,;COBLL1,non_coding_transcript_exon_variant,,ENST00000493868,;COBLL1,non_coding_transcript_exon_variant,,ENST00000489955,;	C	ENSG00000082438	ENST00000342193	Transcript	synonymous_variant	3105	2889	963	S	tcT/tcG	COSM4154569,COSM4154570	.	.	-1	COBLL1	HGNC	23571	protein_coding	YES	CCDS2223.2	ENSP00000341360	COBL1_HUMAN	C9JWZ0_HUMAN,C9JAU3_HUMAN,B3KMG7_HUMAN	UPI000007132B	.	.	.	12/14	.	hmmpanther:PTHR21557:SF2,hmmpanther:PTHR21557	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAACAGAGTG	.	5	BLCA
XIRP2	0	.	GRCh37	2	168067354	168067354	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.672G>A	p.%3D	p.A224A	ENST00000409195	4/11	70	55	14	75	75	0	XIRP2,synonymous_variant,p.%3D,ENST00000409605,;XIRP2,synonymous_variant,p.%3D,ENST00000409273,;XIRP2,synonymous_variant,p.%3D,ENST00000409195,;XIRP2,synonymous_variant,p.%3D,ENST00000420519,;XIRP2,synonymous_variant,p.%3D,ENST00000409756,;XIRP2,synonymous_variant,p.%3D,ENST00000409043,;XIRP2,synonymous_variant,p.%3D,ENST00000409728,;XIRP2,synonymous_variant,p.%3D,ENST00000295237,;	A	ENSG00000163092	ENST00000409195	Transcript	synonymous_variant	761	672	224	A	gcG/gcA	.	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	.	4/11	.	hmmpanther:PTHR22591,hmmpanther:PTHR22591:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A257V|c.770C>T|3,BUFFER|p.A224V|c.671C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGCGAGGTA	.	5	BLCA
STK39	0	.	GRCh37	2	169020280	169020280	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541G>A	p.Asp181Asn	p.D181N	ENST00000355999	4/18	66	46	20	77	76	1	STK39,missense_variant,p.Asp181Asn,ENST00000355999,;	T	ENSG00000198648	ENST00000355999	Transcript	missense_variant	1247	541	181	D/N	Gac/Aac	.	.	.	-1	STK39	HGNC	17717	protein_coding	YES	CCDS42770.1	ENSP00000348278	STK39_HUMAN	.	UPI000013D46D	.	deleterious(0)	benign(0.063)	4/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF201,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.Y182C|c.545A>G|5,BUFFER|p.Y182C|c.545A>G|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGTCTAAGC	.	5	BLCA
TLK1	0	.	GRCh37	2	171913002	171913002	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.528A>G	p.%3D	p.S176S	ENST00000431350	6/21	70	50	20	112	112	0	TLK1,synonymous_variant,p.%3D,ENST00000521943,;TLK1,synonymous_variant,p.%3D,ENST00000431350,;TLK1,synonymous_variant,p.%3D,ENST00000442919,;TLK1,synonymous_variant,p.%3D,ENST00000360843,;TLK1,synonymous_variant,p.%3D,ENST00000453628,;TLK1,synonymous_variant,p.%3D,ENST00000434911,;TLK1,non_coding_transcript_exon_variant,,ENST00000486857,;TLK1,intron_variant,,ENST00000413010,;TLK1,synonymous_variant,p.%3D,ENST00000409443,;TLK1,3_prime_UTR_variant,,ENST00000359766,;TLK1,upstream_gene_variant,,ENST00000478683,;	C	ENSG00000198586	ENST00000431350	Transcript	synonymous_variant	933	528	176	S	tcA/tcG	.	.	.	-1	TLK1	HGNC	11841	protein_coding	YES	CCDS2241.1	ENSP00000411099	TLK1_HUMAN	Q53TF9_HUMAN,Q53TE4_HUMAN	UPI0000073255	.	.	.	6/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22974,hmmpanther:PTHR22974:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATGTGAATG	.	5	BLCA
TLK1	0	.	GRCh37	2	171917629	171917629	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368G>A	p.Arg123Lys	p.R123K	ENST00000431350	4/21	61	43	18	69	69	0	TLK1,missense_variant,p.Arg75Lys,ENST00000521943,;TLK1,missense_variant,p.Arg123Lys,ENST00000431350,;TLK1,missense_variant,p.Arg75Lys,ENST00000442919,;TLK1,missense_variant,p.Arg123Lys,ENST00000360843,;TLK1,missense_variant,p.Arg27Lys,ENST00000453628,;TLK1,missense_variant,p.Arg27Lys,ENST00000434911,;TLK1,non_coding_transcript_exon_variant,,ENST00000413010,;TLK1,non_coding_transcript_exon_variant,,ENST00000486857,;TLK1,missense_variant,p.Arg123Lys,ENST00000409443,;TLK1,3_prime_UTR_variant,,ENST00000359766,;	T	ENSG00000198586	ENST00000431350	Transcript	missense_variant	773	368	123	R/K	aGa/aAa	.	.	.	-1	TLK1	HGNC	11841	protein_coding	YES	CCDS2241.1	ENSP00000411099	TLK1_HUMAN	Q53TF9_HUMAN,Q53TE4_HUMAN	UPI0000073255	.	tolerated(0.06)	benign(0.134)	4/21	.	hmmpanther:PTHR22974,hmmpanther:PTHR22974:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTTCCC	.	5	BLCA
DLX1	0	.	GRCh37	2	172953044	172953044	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*59C>T	.	.	ENST00000361725	3/3	27	17	9	43	43	0	DLX1,3_prime_UTR_variant,,ENST00000361725,;DLX1,3_prime_UTR_variant,,ENST00000341900,;DLX1,downstream_gene_variant,,ENST00000469444,;DLX1,downstream_gene_variant,,ENST00000361609,;DLX1,non_coding_transcript_exon_variant,,ENST00000550686,;DLX1,non_coding_transcript_exon_variant,,ENST00000475989,;DLX1,downstream_gene_variant,,ENST00000409492,;	T	ENSG00000144355	ENST00000361725	Transcript	3_prime_UTR_variant	1279	.	.	.	.	.	.	.	1	DLX1	HGNC	2914	protein_coding	YES	CCDS2247.2	ENSP00000354478	DLX1_HUMAN	Q53SU3_HUMAN,J3KP55_HUMAN,F8VXJ2_HUMAN	UPI0000185FE8	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTCCATCCA	.	5	BLCA
SP3	0	.	GRCh37	2	174820883	174820883	+	Silent	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357A>T	p.%3D	p.I119I	ENST00000310015	4/7	96	60	36	115	115	0	SP3,synonymous_variant,p.%3D,ENST00000416195,;SP3,synonymous_variant,p.%3D,ENST00000418194,;SP3,synonymous_variant,p.%3D,ENST00000455789,;SP3,synonymous_variant,p.%3D,ENST00000310015,;SP3,non_coding_transcript_exon_variant,,ENST00000483084,;SP3,non_coding_transcript_exon_variant,,ENST00000462904,;SP3,non_coding_transcript_exon_variant,,ENST00000490182,;	A	ENSG00000172845	ENST00000310015	Transcript	synonymous_variant	888	357	119	I	atA/atT	.	.	.	-1	SP3	HGNC	11208	protein_coding	YES	CCDS2254.1	ENSP00000310301	SP3_HUMAN	Q68DP2_HUMAN,H0Y6K5_HUMAN	UPI000019B3E0	.	.	.	4/7	.	hmmpanther:PTHR23235,hmmpanther:PTHR23235:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTTATAGT	.	5	BLCA
RAD51AP2	0	.	GRCh37	2	17697118	17697118	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2565G>A	p.%3D	p.K855K	ENST00000399080	1/3	43	33	10	36	36	0	RAD51AP2,synonymous_variant,p.%3D,ENST00000399080,;	T	ENSG00000214842	ENST00000399080	Transcript	synonymous_variant	2589	2565	855	K	aaG/aaA	.	.	.	-1	RAD51AP2	HGNC	34417	protein_coding	YES	CCDS42656.1	ENSP00000382030	R51A2_HUMAN	.	UPI0000418FD4	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATCTTAGT	.	5	BLCA
NFE2L2	0	.	GRCh37	2	178096064	178096064	+	Nonsense_Mutation	SNP	C	C	A	rs774581491	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1267G>T	p.Glu423Ter	p.E423*	ENST00000397062	5/5	133	84	49	211	211	0	NFE2L2,stop_gained,p.Glu151Ter,ENST00000449627,;NFE2L2,stop_gained,p.Glu423Ter,ENST00000397062,;NFE2L2,stop_gained,p.Glu400Ter,ENST00000446151,;NFE2L2,stop_gained,p.Glu407Ter,ENST00000464747,;NFE2L2,stop_gained,p.Glu407Ter,ENST00000397063,;NFE2L2,intron_variant,,ENST00000458603,;NFE2L2,downstream_gene_variant,,ENST00000423513,;NFE2L2,downstream_gene_variant,,ENST00000588123,;NFE2L2,downstream_gene_variant,,ENST00000586532,;NFE2L2,downstream_gene_variant,,ENST00000421929,;NFE2L2,downstream_gene_variant,,ENST00000430047,;NFE2L2,downstream_gene_variant,,ENST00000448782,;NFE2L2,downstream_gene_variant,,ENST00000462023,;NFE2L2,downstream_gene_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	A	ENSG00000116044	ENST00000397062	Transcript	stop_gained	1822	1267	423	E/*	Gag/Tag	rs774581491	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	.	.	5/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCACATT	.	5	BLCA
NFE2L2	0	.	GRCh37	2	178098940	178098940	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105A>C	p.Glu35Asp	p.E35D	ENST00000397062	2/5	65	41	23	78	78	0	NFE2L2,missense_variant,p.Glu19Asp,ENST00000449627,;NFE2L2,missense_variant,p.Glu19Asp,ENST00000423513,;NFE2L2,missense_variant,p.Glu35Asp,ENST00000397062,;NFE2L2,missense_variant,p.Glu19Asp,ENST00000446151,;NFE2L2,missense_variant,p.Glu19Asp,ENST00000588123,;NFE2L2,missense_variant,p.Glu34Asp,ENST00000586532,;NFE2L2,missense_variant,p.Glu19Asp,ENST00000421929,;NFE2L2,missense_variant,p.Glu19Asp,ENST00000464747,;NFE2L2,missense_variant,p.Glu19Asp,ENST00000448782,;NFE2L2,missense_variant,p.Glu19Asp,ENST00000397063,;NFE2L2,intron_variant,,ENST00000430047,;NFE2L2,upstream_gene_variant,,ENST00000458603,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000462023,;NFE2L2,non_coding_transcript_exon_variant,,ENST00000477534,;DNAJC19P5,upstream_gene_variant,,ENST00000443295,;	G	ENSG00000116044	ENST00000397062	Transcript	missense_variant	660	105	35	E/D	gaA/gaC	.	.	.	-1	NFE2L2	HGNC	7782	protein_coding	YES	CCDS42782.1	ENSP00000380252	NF2L2_HUMAN	Q9BZF8_HUMAN,K7ER33_HUMAN,C9J1A8_HUMAN,C9J0Y1_HUMAN	UPI000012FFD0	.	deleterious(0.03)	benign(0.162)	2/5	.	hmmpanther:PTHR24411,hmmpanther:PTHR24411:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R34P|c.101G>C|3,BUFFER|p.R34Q|c.101G>A|11,BUFFER|p.R34G|c.100C>G|11	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATACTTCTCG	.	5	BLCA
RBM45	0	.	GRCh37	2	178977223	178977223	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-51G>A	.	.	ENST00000286070	1/10	19	12	7	33	33	0	RBM45,5_prime_UTR_variant,,ENST00000286070,;PDE11A,upstream_gene_variant,,ENST00000358450,;RBM45,non_coding_transcript_exon_variant,,ENST00000424000,;	A	ENSG00000155636	ENST00000286070	Transcript	5_prime_UTR_variant	42	.	.	.	.	.	.	.	1	RBM45	HGNC	24468	protein_coding	YES	CCDS33335.1	ENSP00000286070	RBM45_HUMAN	.	UPI00001AEAD8	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCAGACACC	.	2	BLCA
TTN	0	.	GRCh37	2	179395754	179395754	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105588G>A	p.%3D	p.E35196E	ENST00000589042	358/363	224	153	70	301	301	0	TTN,synonymous_variant,p.%3D,ENST00000359218,;TTN,synonymous_variant,p.%3D,ENST00000460472,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000342175,;TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000589355,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589434,;TTN-AS1,intron_variant,,ENST00000588716,;TTN-AS1,intron_variant,,ENST00000589391,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000592182,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592836,;TTN-AS1,intron_variant,,ENST00000585625,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000587568,;TTN-AS1,intron_variant,,ENST00000591466,;TTN-AS1,intron_variant,,ENST00000591867,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000585358,;TTN-AS1,intron_variant,,ENST00000589842,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000590040,;TTN-AS1,intron_variant,,ENST00000450692,;TTN-AS1,intron_variant,,ENST00000587944,;TTN-AS1,intron_variant,,ENST00000442329,;TTN-AS1,intron_variant,,ENST00000431259,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000588257,;TTN-AS1,intron_variant,,ENST00000604571,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000588244,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000588804,;TTN-AS1,intron_variant,,ENST00000585487,;TTN-AS1,downstream_gene_variant,,ENST00000592161,;TTN-AS1,downstream_gene_variant,,ENST00000587576,;	T	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	105813	105588	35196	E	gaG/gaA	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	358/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00406,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCCCTCATC	.	5	BLCA
TTN	0	.	GRCh37	2	179433888	179433888	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76971G>C	p.Lys25657Asn	p.K25657N	ENST00000589042	326/363	221	155	66	294	294	0	TTN,missense_variant,p.Lys16717Asn,ENST00000359218,;TTN,missense_variant,p.Lys24016Asn,ENST00000591111,;TTN,missense_variant,p.Lys25657Asn,ENST00000589042,;TTN,missense_variant,p.Lys16784Asn,ENST00000342175,;TTN,missense_variant,p.Lys23089Asn,ENST00000342992,;TTN,missense_variant,p.Lys16592Asn,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;	G	ENSG00000155657	ENST00000589042	Transcript	missense_variant	77196	76971	25657	K/N	aaG/aaC	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTCTTATG	.	5	BLCA
TTN	0	.	GRCh37	2	179480095	179480095	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48577G>A	p.Glu16193Lys	p.E16193K	ENST00000589042	259/363	93	60	33	129	129	0	TTN,missense_variant,p.Glu7253Lys,ENST00000359218,;TTN,missense_variant,p.Glu14552Lys,ENST00000591111,;TTN,missense_variant,p.Glu16193Lys,ENST00000589042,;TTN,missense_variant,p.Glu13625Lys,ENST00000342992,;TTN,missense_variant,p.Glu7320Lys,ENST00000342175,;TTN,missense_variant,p.Glu7128Lys,ENST00000460472,;RP11-171I2.4,upstream_gene_variant,,ENST00000605334,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000592750,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000589830,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000589234,;TTN-AS1,upstream_gene_variant,,ENST00000604956,;	T	ENSG00000155657	ENST00000589042	Transcript	missense_variant	48802	48577	16193	E/K	Gaa/Aaa	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	259/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAACTA	.	5	BLCA
TTN	0	.	GRCh37	2	179568884	179568884	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30213C>T	p.%3D	p.L10071L	ENST00000589042	106/363	119	82	37	173	173	0	TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN,upstream_gene_variant,,ENST00000414766,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000431752,;TTN-AS1,intron_variant,,ENST00000589830,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	30438	30213	10071	L	ctC/ctT	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	106/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF48726,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGAGTTC	.	5	BLCA
TTN	0	.	GRCh37	2	179604357	179604357	+	Missense_Mutation	SNP	C	C	A	rs753944644	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13603G>T	p.Val4535Phe	p.V4535F	ENST00000589042	48/363	79	52	27	88	87	0	TTN,missense_variant,p.Val4297Phe,ENST00000359218,;TTN,missense_variant,p.Val4364Phe,ENST00000342175,;TTN,missense_variant,p.Val4535Phe,ENST00000589042,;TTN,missense_variant,p.Val4218Phe,ENST00000591111,;TTN,missense_variant,p.Val4172Phe,ENST00000460472,;TTN,intron_variant,,ENST00000342992,;TTN,downstream_gene_variant,,ENST00000360870,;TTN-AS1,intron_variant,,ENST00000590773,;TTN-AS1,intron_variant,,ENST00000582847,;TTN-AS1,intron_variant,,ENST00000585451,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	13828	13603	4535	V/F	Gtc/Ttc	rs753944644	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	48/363	.	hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGACCTCTT	byFrequency	5	BLCA
CWC22	0	.	GRCh37	2	180819034	180819034	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1587C>T	p.%3D	p.F529F	ENST00000410053	16/20	19	15	4	29	29	0	CWC22,synonymous_variant,p.%3D,ENST00000404136,;CWC22,synonymous_variant,p.%3D,ENST00000410053,;CWC22,synonymous_variant,p.%3D,ENST00000295749,;	A	ENSG00000163510	ENST00000410053	Transcript	synonymous_variant	1887	1587	529	F	ttC/ttT	.	.	.	-1	CWC22	HGNC	29322	protein_coding	YES	CCDS46465.1	ENSP00000387006	CWC22_HUMAN	B7WP74_HUMAN	UPI00001C1DAE	.	.	.	16/20	.	PROSITE_profiles:PS51366,hmmpanther:PTHR18034:SF3,hmmpanther:PTHR18034,Pfam_domain:PF02847,SMART_domains:SM00544	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTTGAATAT	.	4	BLCA
NUP35	0	.	GRCh37	2	183993129	183993129	+	Missense_Mutation	SNP	G	G	T	rs765515641	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.155G>T	p.Arg52Leu	p.R52L	ENST00000295119	2/9	64	46	18	90	89	0	NUP35,missense_variant,p.Arg35Leu,ENST00000455063,;NUP35,missense_variant,p.Arg35Leu,ENST00000446612,;NUP35,missense_variant,p.Arg52Leu,ENST00000295119,;NUP35,missense_variant,p.Arg35Leu,ENST00000409798,;NUP35,missense_variant,p.Arg35Leu,ENST00000442895,;NUP35,5_prime_UTR_variant,,ENST00000541912,;NUP35,non_coding_transcript_exon_variant,,ENST00000497330,;NUP35,missense_variant,p.Arg52Leu,ENST00000452137,;NUP35,missense_variant,p.Arg52Leu,ENST00000374930,;NUP35,non_coding_transcript_exon_variant,,ENST00000479162,;	T	ENSG00000163002	ENST00000295119	Transcript	missense_variant	258	155	52	R/L	cGa/cTa	rs765515641,COSM1218108	.	.	1	NUP35	HGNC	29797	protein_coding	YES	CCDS2290.1	ENSP00000295119	NUP53_HUMAN	C9JWU7_HUMAN,C9JIY9_HUMAN,C9IYQ7_HUMAN,B4DYB4_HUMAN,B4DP57_HUMAN	UPI000000DBA2	.	deleterious(0.01)	probably_damaging(0.939)	2/9	.	hmmpanther:PTHR21527,PIRSF_domain:PIRSF038119	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTCGATCAA	.	5	BLCA
ITGAV	0	.	GRCh37	2	187540441	187540441	+	Missense_Mutation	SNP	G	G	A	rs761261370	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2817G>A	p.Met939Ile	p.M939I	ENST00000261023	27/30	56	38	18	61	61	0	ITGAV,missense_variant,p.Met903Ile,ENST00000374907,;ITGAV,missense_variant,p.Met939Ile,ENST00000261023,;ITGAV,missense_variant,p.Met90Ile,ENST00000430709,;ITGAV,missense_variant,p.Met893Ile,ENST00000433736,;AC017101.10,intron_variant,,ENST00000453665,;ITGAV,downstream_gene_variant,,ENST00000496477,;	A	ENSG00000138448	ENST00000261023	Transcript	missense_variant	3091	2817	939	M/I	atG/atA	rs761261370	.	.	1	ITGAV	HGNC	6150	protein_coding	YES	CCDS2292.1	ENSP00000261023	ITAV_HUMAN	L7RXH0_HUMAN	UPI000013D12E	.	tolerated(0.12)	benign(0.002)	27/30	.	hmmpanther:PTHR23220:SF4,hmmpanther:PTHR23220,Gene3D:1jv2A04,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATGAATGT	.	5	BLCA
ORMDL1	0	.	GRCh37	2	190636505	190636505	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450T>G	p.Ile150Met	p.I150M	ENST00000325795	3/3	47	33	14	64	64	0	ORMDL1,missense_variant,p.Ile150Met,ENST00000392350,;ORMDL1,missense_variant,p.Ile150Met,ENST00000392349,;ORMDL1,missense_variant,p.Ile150Met,ENST00000325795,;ORMDL1,downstream_gene_variant,,ENST00000458355,;ORMDL1,downstream_gene_variant,,ENST00000442547,;ORMDL1,downstream_gene_variant,,ENST00000409519,;ORMDL1,non_coding_transcript_exon_variant,,ENST00000496543,;	C	ENSG00000128699	ENST00000325795	Transcript	missense_variant	1237	450	150	I/M	atT/atG	.	.	.	-1	ORMDL1	HGNC	16036	protein_coding	YES	CCDS2301.1	ENSP00000326869	ORML1_HUMAN	B9A069_HUMAN	UPI0000073E90	.	deleterious(0)	probably_damaging(0.996)	3/3	.	PIRSF_domain:PIRSF018147,hmmpanther:PTHR12665:SF12,hmmpanther:PTHR12665	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTATTAATTCC	.	4	BLCA
PMS1	0	.	GRCh37	2	190670456	190670456	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394C>T	p.Gln132Ter	p.Q132*	ENST00000441310	4/13	91	55	35	129	129	0	PMS1,stop_gained,p.Gln132Ter,ENST00000374826,;PMS1,stop_gained,p.Gln71Ter,ENST00000424307,;PMS1,stop_gained,p.Gln132Ter,ENST00000441310,;PMS1,stop_gained,p.Gln132Ter,ENST00000424766,;PMS1,stop_gained,p.Gln132Ter,ENST00000409985,;PMS1,stop_gained,p.Gln132Ter,ENST00000447232,;PMS1,stop_gained,p.Gln132Ter,ENST00000409823,;PMS1,intron_variant,,ENST00000432292,;PMS1,intron_variant,,ENST00000418224,;PMS1,non_coding_transcript_exon_variant,,ENST00000424059,;PMS1,non_coding_transcript_exon_variant,,ENST00000421722,;PMS1,stop_gained,p.Gln132Ter,ENST00000450931,;PMS1,intron_variant,,ENST00000447734,;PMS1,intron_variant,,ENST00000342075,;	T	ENSG00000064933	ENST00000441310	Transcript	stop_gained	627	394	132	Q/*	Cag/Tag	.	.	.	1	PMS1	HGNC	9121	protein_coding	YES	CCDS2302.1	ENSP00000406490	PMS1_HUMAN	Q5FBZ2_HUMAN,C9JKP0_HUMAN,C9JF76_HUMAN,C9J4L1_HUMAN,B7ZAA0_HUMAN	UPI00000405F5	.	.	.	4/13	.	hmmpanther:PTHR10073,hmmpanther:PTHR10073:SF38,Gene3D:3.30.565.10,TIGRFAM_domain:TIGR00585,Superfamily_domains:SSF55874	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAGAAA	.	5	BLCA
STAT1	0	.	GRCh37	2	191865869	191865869	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393G>A	p.%3D	p.Q131Q	ENST00000361099	6/25	68	49	19	68	68	0	STAT1,synonymous_variant,p.%3D,ENST00000424722,;STAT1,synonymous_variant,p.%3D,ENST00000540176,;STAT1,synonymous_variant,p.%3D,ENST00000392323,;STAT1,synonymous_variant,p.%3D,ENST00000409465,;STAT1,synonymous_variant,p.%3D,ENST00000454414,;STAT1,synonymous_variant,p.%3D,ENST00000392322,;STAT1,synonymous_variant,p.%3D,ENST00000361099,;STAT1,synonymous_variant,p.%3D,ENST00000452281,;	T	ENSG00000115415	ENST00000361099	Transcript	synonymous_variant	781	393	131	Q	caG/caA	.	.	.	-1	STAT1	HGNC	11362	protein_coding	YES	CCDS2309.1	ENSP00000354394	STAT1_HUMAN	Q67C41_HUMAN,E9PH66_HUMAN,E7EPD2_HUMAN,E7ENM1_HUMAN	UPI00000473FB	.	.	.	6/25	.	hmmpanther:PTHR11801,hmmpanther:PTHR11801:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCTGAAT	.	5	BLCA
SDPR	0	.	GRCh37	2	192711581	192711581	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71C>T	p.Ser24Leu	p.S24L	ENST00000304141	1/2	39	29	10	66	66	0	SDPR,missense_variant,p.Ser24Leu,ENST00000304141,;AC098617.1,intron_variant,,ENST00000424116,;	A	ENSG00000168497	ENST00000304141	Transcript	missense_variant	401	71	24	S/L	tCg/tTg	.	.	.	-1	SDPR	HGNC	10690	protein_coding	YES	CCDS2313.1	ENSP00000305675	SDPR_HUMAN	.	UPI00000373C3	.	tolerated(0.06)	benign(0.038)	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15240:SF1,hmmpanther:PTHR15240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTCGAGGGC	.	5	BLCA
DNAH7	0	.	GRCh37	2	196619103	196619103	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11722G>A	p.Glu3908Lys	p.E3908K	ENST00000312428	63/65	31	18	12	61	61	0	DNAH7,missense_variant,p.Glu391Lys,ENST00000409063,;DNAH7,missense_variant,p.Glu3908Lys,ENST00000312428,;DNAH7,intron_variant,,ENST00000438565,;	T	ENSG00000118997	ENST00000312428	Transcript	missense_variant	11823	11722	3908	E/K	Gaa/Aaa	COSM1482579	.	.	-1	DNAH7	HGNC	18661	protein_coding	YES	CCDS42794.1	ENSP00000311273	DYH7_HUMAN	C9JUY3_HUMAN	UPI0000141B95	.	deleterious(0.02)	benign(0.217)	63/65	.	hmmpanther:PTHR10676:SF138,hmmpanther:PTHR10676,Pfam_domain:PF03028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTCATAGT	.	5	BLCA
PGAP1	0	.	GRCh37	2	197708744	197708744	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2393C>T	p.Ser798Leu	p.S798L	ENST00000354764	25/27	51	37	13	70	70	0	PGAP1,missense_variant,p.Ser70Leu,ENST00000422444,;PGAP1,missense_variant,p.Ser798Leu,ENST00000354764,;PGAP1,downstream_gene_variant,,ENST00000409475,;PGAP1,upstream_gene_variant,,ENST00000459896,;PGAP1,3_prime_UTR_variant,,ENST00000423035,;PGAP1,non_coding_transcript_exon_variant,,ENST00000470179,;	A	ENSG00000197121	ENST00000354764	Transcript	missense_variant	2508	2393	798	S/L	tCa/tTa	COSM4089888	.	.	-1	PGAP1	HGNC	25712	protein_coding	YES	CCDS2318.1	ENSP00000346809	PGAP1_HUMAN	.	UPI000035154F	.	tolerated(0.14)	benign(0.003)	25/27	.	hmmpanther:PTHR15495,hmmpanther:PTHR15495:SF15	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATTGAGGAG	.	5	BLCA
RFTN2	0	.	GRCh37	2	198540087	198540087	+	Silent	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96A>C	p.%3D	p.T32T	ENST00000295049	1/9	79	47	31	133	133	0	RFTN2,synonymous_variant,p.%3D,ENST00000295049,;RFTN2,synonymous_variant,p.%3D,ENST00000429081,;	G	ENSG00000162944	ENST00000295049	Transcript	synonymous_variant	633	96	32	T	acA/acC	.	.	.	-1	RFTN2	HGNC	26402	protein_coding	YES	CCDS2323.1	ENSP00000295049	RFTN2_HUMAN	C9J6C2_HUMAN	UPI000013E1F9	.	.	.	1/9	.	hmmpanther:PTHR17601,hmmpanther:PTHR17601:SF1,Pfam_domain:PF15250	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTCTGTCTT	.	5	BLCA
SATB2	0	.	GRCh37	2	200137004	200137004	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2132A>G	p.Tyr711Cys	p.Y711C	ENST00000417098	11/11	46	21	24	84	84	0	SATB2,missense_variant,p.Tyr711Cys,ENST00000260926,;SATB2,missense_variant,p.Tyr593Cys,ENST00000428695,;SATB2,missense_variant,p.Tyr652Cys,ENST00000443023,;SATB2,missense_variant,p.Tyr711Cys,ENST00000417098,;SATB2,missense_variant,p.Tyr711Cys,ENST00000457245,;	C	ENSG00000119042	ENST00000417098	Transcript	missense_variant	2949	2132	711	Y/C	tAc/tGc	.	.	.	-1	SATB2	HGNC	21637	protein_coding	YES	CCDS2327.1	ENSP00000401112	SATB2_HUMAN	Q59FT3_HUMAN	UPI00000336B1	.	deleterious(0)	possibly_damaging(0.662)	11/11	.	hmmpanther:PTHR15116,hmmpanther:PTHR15116:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTGTACATC	.	5	BLCA
STRADB	0	.	GRCh37	2	202342435	202342435	+	Silent	SNP	G	G	A	rs763227995	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.642G>A	p.%3D	p.Q214Q	ENST00000194530	8/12	87	58	29	105	105	0	STRADB,synonymous_variant,p.%3D,ENST00000194530,;STRADB,synonymous_variant,p.%3D,ENST00000458269,;STRADB,synonymous_variant,p.%3D,ENST00000392249,;STRADB,upstream_gene_variant,,ENST00000415688,;STRADB,non_coding_transcript_exon_variant,,ENST00000468123,;STRADB,non_coding_transcript_exon_variant,,ENST00000498648,;STRADB,non_coding_transcript_exon_variant,,ENST00000484098,;STRADB,upstream_gene_variant,,ENST00000466770,;STRADB,downstream_gene_variant,,ENST00000447698,;	A	ENSG00000082146	ENST00000194530	Transcript	synonymous_variant	1007	642	214	Q	caG/caA	rs763227995	.	.	1	STRADB	HGNC	13205	protein_coding	YES	CCDS2348.1	ENSP00000194530	STRAB_HUMAN	.	UPI0000070BA5	.	.	.	8/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF93,Gene3D:1.10.510.10,Pfam_domain:PF00069,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACAGAGGCA	.	5	BLCA
ALS2	0	.	GRCh37	2	202574755	202574755	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4129G>A	p.Asp1377Asn	p.D1377N	ENST00000264276	27/34	50	36	14	44	44	0	ALS2,missense_variant,p.Asp1377Asn,ENST00000264276,;ALS2,3_prime_UTR_variant,,ENST00000457679,;ALS2,3_prime_UTR_variant,,ENST00000439495,;	T	ENSG00000003393	ENST00000264276	Transcript	missense_variant	4502	4129	1377	D/N	Gac/Aac	.	.	.	-1	ALS2	HGNC	443	protein_coding	YES	CCDS42800.1	ENSP00000264276	ALS2_HUMAN	J3KQ43_HUMAN,J3KQ33_HUMAN,A8K4R4_HUMAN	UPI0000231C77	.	deleterious(0)	benign(0.025)	27/34	.	hmmpanther:PTHR22870,hmmpanther:PTHR22870:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGTCACAGG	.	2	BLCA
FZD7	0	.	GRCh37	2	202899817	202899817	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447G>A	p.%3D	p.E149E	ENST00000286201	1/1	28	20	8	55	55	0	FZD7,synonymous_variant,p.%3D,ENST00000286201,;RP11-107N15.1,upstream_gene_variant,,ENST00000608741,;	A	ENSG00000155760	ENST00000286201	Transcript	synonymous_variant	508	447	149	E	gaG/gaA	.	.	.	1	FZD7	HGNC	4045	protein_coding	YES	CCDS2351.1	ENSP00000286201	FZD7_HUMAN	.	UPI0000051051	.	.	.	1/1	.	PROSITE_profiles:PS50038,hmmpanther:PTHR11309,hmmpanther:PTHR11309:SF31,Pfam_domain:PF01392,Gene3D:1ijyA00,SMART_domains:SM00063,Superfamily_domains:SSF63501	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGAGAACTT	.	5	BLCA
FAM117B	0	.	GRCh37	2	203589654	203589654	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768G>A	p.Trp256Ter	p.W256*	ENST00000392238	3/8	69	44	25	102	102	0	FAM117B,stop_gained,p.Trp256Ter,ENST00000392238,;FAM117B,stop_gained,p.Trp12Ter,ENST00000303116,;FAM117B,non_coding_transcript_exon_variant,,ENST00000481658,;	A	ENSG00000138439	ENST00000392238	Transcript	stop_gained	768	768	256	W/*	tgG/tgA	.	.	.	1	FAM117B	HGNC	14440	protein_coding	YES	CCDS33362.2	ENSP00000376071	F117B_HUMAN	.	UPI00015B3B88	.	.	.	3/8	.	hmmpanther:PTHR14972:SF6,hmmpanther:PTHR14972,Pfam_domain:PF15388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATGGGCTGA	.	5	BLCA
PUM2	0	.	GRCh37	2	20494259	20494259	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1030C>T	p.Gln344Ter	p.Q344*	ENST00000338086	8/20	90	61	28	113	113	0	PUM2,stop_gained,p.Gln344Ter,ENST00000403432,;PUM2,stop_gained,p.Gln344Ter,ENST00000319801,;PUM2,stop_gained,p.Gln344Ter,ENST00000338086,;PUM2,stop_gained,p.Gln235Ter,ENST00000440577,;PUM2,stop_gained,p.Gln288Ter,ENST00000536417,;PUM2,stop_gained,p.Gln344Ter,ENST00000361078,;	A	ENSG00000055917	ENST00000338086	Transcript	stop_gained	1053	1030	344	Q/*	Cag/Tag	.	.	.	-1	PUM2	HGNC	14958	protein_coding	YES	CCDS1698.1	ENSP00000338173	PUM2_HUMAN	C9JW01_HUMAN,C9JE24_HUMAN,B4E2B6_HUMAN	UPI0000001665	.	.	.	8/20	.	hmmpanther:PTHR12537:SF52,hmmpanther:PTHR12537	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTGAGGTG	.	5	BLCA
NRP2	0	.	GRCh37	2	206614476	206614476	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1814G>A	p.Gly605Glu	p.G605E	ENST00000360409	11/17	24	15	9	47	47	0	NRP2,missense_variant,p.Gly605Glu,ENST00000360409,;NRP2,missense_variant,p.Gly605Glu,ENST00000357118,;NRP2,missense_variant,p.Gly605Glu,ENST00000540178,;NRP2,missense_variant,p.Gly605Glu,ENST00000357785,;NRP2,missense_variant,p.Gly605Glu,ENST00000540841,;NRP2,missense_variant,p.Gly605Glu,ENST00000412873,;NRP2,missense_variant,p.Gly605Glu,ENST00000272849,;NRP2,non_coding_transcript_exon_variant,,ENST00000460987,;NRP2,upstream_gene_variant,,ENST00000468256,;	A	ENSG00000118257	ENST00000360409	Transcript	missense_variant	2605	1814	605	G/E	gGa/gAa	.	.	.	1	NRP2	HGNC	8005	protein_coding	YES	CCDS2364.1	ENSP00000353582	NRP2_HUMAN	C9JH98_HUMAN	UPI000014020F	.	tolerated(0.89)	benign(0.08)	11/17	.	hmmpanther:PTHR10127:SF30,hmmpanther:PTHR10127,PIRSF_domain:PIRSF036960	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGGACCCA	.	5	BLCA
ADAM23	0	.	GRCh37	2	207427004	207427004	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1332T>C	p.%3D	p.S444S	ENST00000264377	13/26	98	73	24	133	133	0	ADAM23,synonymous_variant,p.%3D,ENST00000374415,;ADAM23,synonymous_variant,p.%3D,ENST00000374416,;ADAM23,synonymous_variant,p.%3D,ENST00000264377,;	C	ENSG00000114948	ENST00000264377	Transcript	synonymous_variant	1660	1332	444	S	tcT/tcC	.	.	.	1	ADAM23	HGNC	202	protein_coding	YES	CCDS2369.1	ENSP00000264377	ADA23_HUMAN	Q53TK5_HUMAN,Q53TC0_HUMAN,Q53RX4_HUMAN	UPI0000044543	.	.	.	13/26	.	Superfamily_domains:SSF55486,Pfam_domain:PF01421,Gene3D:3.40.390.10,hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF13,PROSITE_profiles:PS50215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTCTAGCAG	.	5	BLCA
ABCA12	0	.	GRCh37	2	215823029	215823029	+	Missense_Mutation	SNP	T	T	C	rs764148814	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6089A>G	p.Tyr2030Cys	p.Y2030C	ENST00000272895	41/53	68	48	20	117	117	0	ABCA12,missense_variant,p.Tyr1712Cys,ENST00000389661,;ABCA12,missense_variant,p.Tyr2030Cys,ENST00000272895,;AC072062.1,intron_variant,,ENST00000607412,;AC072062.1,upstream_gene_variant,,ENST00000420134,;	C	ENSG00000144452	ENST00000272895	Transcript	missense_variant	6309	6089	2030	Y/C	tAc/tGc	rs764148814	.	.	-1	ABCA12	HGNC	14637	protein_coding	YES	CCDS33372.1	ENSP00000272895	ABCAC_HUMAN	A0SYP7_HUMAN	UPI000019AB7A	.	deleterious(0)	probably_damaging(1)	41/53	.	Pfam_domain:PF12698,hmmpanther:PTHR19229:SF29,hmmpanther:PTHR19229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGTAGCAT	byFrequency	5	BLCA
ABCA12	0	.	GRCh37	2	215843115	215843115	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5053G>A	p.Gly1685Arg	p.G1685R	ENST00000272895	33/53	41	24	17	59	59	0	ABCA12,missense_variant,p.Gly1367Arg,ENST00000389661,;ABCA12,missense_variant,p.Gly1685Arg,ENST00000272895,;	T	ENSG00000144452	ENST00000272895	Transcript	missense_variant	5273	5053	1685	G/R	Ggg/Agg	.	.	.	-1	ABCA12	HGNC	14637	protein_coding	YES	CCDS33372.1	ENSP00000272895	ABCAC_HUMAN	A0SYP7_HUMAN	UPI000019AB7A	.	tolerated(0.26)	possibly_damaging(0.862)	33/53	.	hmmpanther:PTHR19229:SF29,hmmpanther:PTHR19229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCCCAATTT	.	5	BLCA
FN1	0	.	GRCh37	2	216286869	216286869	+	Silent	SNP	C	C	T	rs746335179	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1491G>A	p.%3D	p.T497T	ENST00000354785	10/46	117	84	32	134	134	0	FN1,synonymous_variant,p.%3D,ENST00000357867,;FN1,synonymous_variant,p.%3D,ENST00000432072,;FN1,synonymous_variant,p.%3D,ENST00000421182,;FN1,synonymous_variant,p.%3D,ENST00000443816,;FN1,synonymous_variant,p.%3D,ENST00000346544,;FN1,synonymous_variant,p.%3D,ENST00000345488,;FN1,synonymous_variant,p.%3D,ENST00000354785,;FN1,synonymous_variant,p.%3D,ENST00000426059,;FN1,synonymous_variant,p.%3D,ENST00000336916,;FN1,synonymous_variant,p.%3D,ENST00000359671,;FN1,synonymous_variant,p.%3D,ENST00000357009,;FN1,synonymous_variant,p.%3D,ENST00000446046,;FN1,synonymous_variant,p.%3D,ENST00000323926,;FN1,synonymous_variant,p.%3D,ENST00000356005,;FN1,upstream_gene_variant,,ENST00000496542,;	T	ENSG00000115414	ENST00000354785	Transcript	synonymous_variant	1861	1491	497	T	acG/acA	rs746335179	.	.	-1	FN1	HGNC	3778	protein_coding	YES	CCDS42814.1	ENSP00000346839	FINC_HUMAN	Q9H382_HUMAN,Q7L553_HUMAN,Q53S27_HUMAN,A6YID6_HUMAN	UPI0000E5A2B5	.	.	.	10/46	.	PROSITE_profiles:PS51091,hmmpanther:PTHR19143:SF187,hmmpanther:PTHR19143,PROSITE_patterns:PS01253,Gene3D:2.10.70.10,Pfam_domain:PF00039,SMART_domains:SM00058,Superfamily_domains:SSF57603	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACACGTGCA	byFrequency	5	BLCA
FN1	0	.	GRCh37	2	216292953	216292953	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.794G>A	p.Arg265Gln	p.R265Q	ENST00000354785	6/46	47	36	11	78	78	0	FN1,missense_variant,p.Arg265Gln,ENST00000357867,;FN1,missense_variant,p.Arg265Gln,ENST00000432072,;FN1,missense_variant,p.Arg265Gln,ENST00000421182,;FN1,missense_variant,p.Arg265Gln,ENST00000443816,;FN1,missense_variant,p.Arg265Gln,ENST00000346544,;FN1,missense_variant,p.Arg265Gln,ENST00000345488,;FN1,missense_variant,p.Arg265Gln,ENST00000354785,;FN1,missense_variant,p.Arg265Gln,ENST00000426059,;FN1,missense_variant,p.Arg265Gln,ENST00000336916,;FN1,missense_variant,p.Arg265Gln,ENST00000359671,;FN1,missense_variant,p.Arg265Gln,ENST00000357009,;FN1,missense_variant,p.Arg265Gln,ENST00000446046,;FN1,missense_variant,p.Arg265Gln,ENST00000323926,;FN1,missense_variant,p.Arg265Gln,ENST00000356005,;	T	ENSG00000115414	ENST00000354785	Transcript	missense_variant	1164	794	265	R/Q	cGa/cAa	.	.	.	-1	FN1	HGNC	3778	protein_coding	YES	CCDS42814.1	ENSP00000346839	FINC_HUMAN	Q9H382_HUMAN,Q7L553_HUMAN,Q53S27_HUMAN,A6YID6_HUMAN	UPI0000E5A2B5	.	deleterious(0)	probably_damaging(0.997)	6/46	.	PROSITE_profiles:PS51091,hmmpanther:PTHR19143:SF187,hmmpanther:PTHR19143,PROSITE_patterns:PS01253,Gene3D:2.10.70.10,Pfam_domain:PF00039,SMART_domains:SM00058,Superfamily_domains:SSF57603	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCGGCCG	.	5	BLCA
PECR	0	.	GRCh37	2	216930049	216930049	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.410A>G	p.Tyr137Cys	p.Y137C	ENST00000265322	3/8	82	57	25	112	112	0	PECR,missense_variant,p.Tyr137Cys,ENST00000265322,;PECR,non_coding_transcript_exon_variant,,ENST00000487318,;PECR,non_coding_transcript_exon_variant,,ENST00000497889,;PECR,downstream_gene_variant,,ENST00000464722,;PECR,missense_variant,p.Tyr137Cys,ENST00000442122,;PECR,non_coding_transcript_exon_variant,,ENST00000461330,;PECR,non_coding_transcript_exon_variant,,ENST00000474093,;	C	ENSG00000115425	ENST00000265322	Transcript	missense_variant	485	410	137	Y/C	tAc/tGc	.	.	.	-1	PECR	HGNC	18281	protein_coding	YES	CCDS33375.1	ENSP00000265322	PECR_HUMAN	.	UPI000004C794	.	deleterious(0)	probably_damaging(0.996)	3/8	.	hmmpanther:PTHR24317,Pfam_domain:PF13561,Gene3D:3.40.50.720,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATGTAGAAG	.	5	BLCA
PNKD	0	.	GRCh37	2	219137580	219137580	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.236+1308G>A	.	.	ENST00000273077	.	13	7	6	29	29	0	PNKD,3_prime_UTR_variant,,ENST00000248451,;PNKD,intron_variant,,ENST00000273077,;TMBIM1,downstream_gene_variant,,ENST00000444881,;TMBIM1,downstream_gene_variant,,ENST00000396809,;TMBIM1,downstream_gene_variant,,ENST00000258412,;AAMP,upstream_gene_variant,,ENST00000420660,;TMBIM1,downstream_gene_variant,,ENST00000445635,;AAMP,upstream_gene_variant,,ENST00000444053,;AAMP,upstream_gene_variant,,ENST00000248450,;AAMP,upstream_gene_variant,,ENST00000447885,;PNKD,intron_variant,,ENST00000472650,;PNKD,non_coding_transcript_exon_variant,,ENST00000469689,;AAMP,upstream_gene_variant,,ENST00000475678,;TMBIM1,downstream_gene_variant,,ENST00000439306,;TMBIM1,downstream_gene_variant,,ENST00000492966,;AAMP,upstream_gene_variant,,ENST00000461911,;AAMP,upstream_gene_variant,,ENST00000489767,;TMBIM1,downstream_gene_variant,,ENST00000465082,;TMBIM1,downstream_gene_variant,,ENST00000437694,;	A	ENSG00000127838	ENST00000273077	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	PNKD	HGNC	9153	protein_coding	YES	CCDS2411.1	ENSP00000273077	PNKD_HUMAN	.	UPI0000246C7E	.	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCATGAAGCC	.	3	BLCA
C2orf62	0	.	GRCh37	2	219232242	219232242	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.921+1G>T	.	p.X307_splice	ENST00000289388	.	43	34	8	71	71	0	C2orf62,splice_donor_variant,,ENST00000289388,;AC021016.6,intron_variant,,ENST00000441749,;C2orf62,splice_donor_variant,,ENST00000481940,;C2orf62,splice_donor_variant,,ENST00000494447,;AC021016.6,upstream_gene_variant,,ENST00000425481,;	T	ENSG00000158428	ENST00000289388	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	C2orf62	HGNC	25062	protein_coding	YES	CCDS2414.1	ENSP00000289388	CB062_HUMAN	.	UPI000019B2D3	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAAGGTGAGG	.	2	BLCA
USP37	0	.	GRCh37	2	219350413	219350413	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1644C>T	p.%3D	p.V548V	ENST00000258399	16/26	61	37	24	86	86	0	USP37,synonymous_variant,p.%3D,ENST00000258399,;USP37,synonymous_variant,p.%3D,ENST00000418019,;USP37,synonymous_variant,p.%3D,ENST00000415516,;USP37,synonymous_variant,p.%3D,ENST00000454775,;USP37,non_coding_transcript_exon_variant,,ENST00000475553,;	A	ENSG00000135913	ENST00000258399	Transcript	synonymous_variant	2057	1644	548	V	gtC/gtT	.	.	.	-1	USP37	HGNC	20063	protein_coding	YES	CCDS2418.1	ENSP00000258399	UBP37_HUMAN	.	UPI0000160023	.	.	.	16/26	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF125,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGACAAG	.	5	BLCA
ZNF142	0	.	GRCh37	2	219509696	219509696	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1543G>C	p.Glu515Gln	p.E515Q	ENST00000411696	7/9	38	31	7	59	59	0	ZNF142,missense_variant,p.Glu515Gln,ENST00000411696,;ZNF142,missense_variant,p.Glu515Gln,ENST00000449707,;ZNF142,3_prime_UTR_variant,,ENST00000450765,;ZNF142,3_prime_UTR_variant,,ENST00000433921,;	G	ENSG00000115568	ENST00000411696	Transcript	missense_variant	2323	1543	515	E/Q	Gag/Cag	.	.	.	-1	ZNF142	HGNC	12927	protein_coding	YES	CCDS42817.1	ENSP00000398798	ZN142_HUMAN	C9J055_HUMAN	UPI000013D5FC	.	deleterious(0)	possibly_damaging(0.728)	7/9	.	hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF43,PROSITE_patterns:PS00028,Pfam_domain:PF13894,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCACACA	.	5	BLCA
BCS1L	0	.	GRCh37	2	219525710	219525710	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000431802	2/8	74	53	21	119	119	0	BCS1L,5_prime_UTR_variant,,ENST00000423377,;BCS1L,5_prime_UTR_variant,,ENST00000392109,;BCS1L,5_prime_UTR_variant,,ENST00000392111,;BCS1L,5_prime_UTR_variant,,ENST00000431802,;BCS1L,5_prime_UTR_variant,,ENST00000430322,;BCS1L,5_prime_UTR_variant,,ENST00000412366,;BCS1L,5_prime_UTR_variant,,ENST00000456050,;BCS1L,5_prime_UTR_variant,,ENST00000439945,;BCS1L,5_prime_UTR_variant,,ENST00000359273,;BCS1L,5_prime_UTR_variant,,ENST00000428880,;BCS1L,5_prime_UTR_variant,,ENST00000392110,;BCS1L,intron_variant,,ENST00000443791,;BCS1L,upstream_gene_variant,,ENST00000426649,;ZNF142,upstream_gene_variant,,ENST00000440934,;RNF25,downstream_gene_variant,,ENST00000295704,;ZNF142,upstream_gene_variant,,ENST00000449707,;ZNF142,upstream_gene_variant,,ENST00000432460,;ZNF142,upstream_gene_variant,,ENST00000411696,;ZNF142,upstream_gene_variant,,ENST00000450560,;BCS1L,upstream_gene_variant,,ENST00000436603,;BCS1L,upstream_gene_variant,,ENST00000465706,;BCS1L,non_coding_transcript_exon_variant,,ENST00000493376,;RNF25,downstream_gene_variant,,ENST00000474339,;BCS1L,upstream_gene_variant,,ENST00000477422,;BCS1L,upstream_gene_variant,,ENST00000471576,;BCS1L,upstream_gene_variant,,ENST00000460579,;BCS1L,downstream_gene_variant,,ENST00000490188,;ZNF142,upstream_gene_variant,,ENST00000433921,;RNF25,downstream_gene_variant,,ENST00000473034,;RNF25,downstream_gene_variant,,ENST00000463188,;ZNF142,upstream_gene_variant,,ENST00000450765,;RNF25,downstream_gene_variant,,ENST00000497832,;RNF25,downstream_gene_variant,,ENST00000423170,;	A	ENSG00000074582	ENST00000431802	Transcript	5_prime_UTR_variant	699	.	.	.	.	.	.	.	1	BCS1L	HGNC	1020	protein_coding	YES	CCDS2419.1	ENSP00000413908	BCS1_HUMAN	Q53RT4_HUMAN,C9JAS4_HUMAN,C9J8G3_HUMAN,C9J4Q9_HUMAN,C9J1S9_HUMAN	UPI0000073C9C	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAAGATGCC	.	5	BLCA
WNT10A	0	.	GRCh37	2	219747124	219747124	+	Missense_Mutation	SNP	G	G	A	rs770699256	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.355G>A	p.Glu119Lys	p.E119K	ENST00000258411	2/4	20	13	7	49	49	0	WNT10A,missense_variant,p.Glu82Lys,ENST00000458582,;WNT10A,missense_variant,p.Glu119Lys,ENST00000258411,;WNT10A,upstream_gene_variant,,ENST00000483911,;	A	ENSG00000135925	ENST00000258411	Transcript	missense_variant	988	355	119	E/K	Gag/Aag	rs770699256	.	.	1	WNT10A	HGNC	13829	protein_coding	YES	CCDS2426.1	ENSP00000258411	WN10A_HUMAN	Q9BTP0_HUMAN,Q05BQ6_HUMAN	UPI0000032F2A	.	tolerated(0.63)	possibly_damaging(0.519)	2/4	.	hmmpanther:PTHR12027,hmmpanther:PTHR12027:SF89,Pfam_domain:PF00110,SMART_domains:SM00097,Prints_domain:PR01893	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTATGAGAGT	.	2	BLCA
SGPP2	0	.	GRCh37	2	223386549	223386549	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442C>T	p.Pro148Ser	p.P148S	ENST00000321276	3/5	39	29	9	54	54	0	SGPP2,missense_variant,p.Pro148Ser,ENST00000321276,;	T	ENSG00000163082	ENST00000321276	Transcript	missense_variant	528	442	148	P/S	Cca/Tca	COSM1669798	.	.	1	SGPP2	HGNC	19953	protein_coding	YES	CCDS2453.1	ENSP00000315137	SGPP2_HUMAN	Q53QF5_HUMAN,Q4ZFX2_HUMAN,Q3B870_HUMAN	UPI000004A1E3	.	deleterious(0)	probably_damaging(0.997)	3/5	.	hmmpanther:PTHR14969:SF14,hmmpanther:PTHR14969,Gene3D:1.20.144.10,Pfam_domain:PF01569,SMART_domains:SM00014,Superfamily_domains:SSF48317	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.P148S|c.442C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCCAGTT	.	5	BLCA
MRPL44	0	.	GRCh37	2	224824491	224824506	+	Frame_Shift_Del	DEL	TCTTGAAGACGAGTAC	TCTTGAAGACGAGTAC	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	TCTTGAAGACGAGTAC	TCTTGAAGACGAGTAC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420_435delTCTTGAAGACGAGTAC	p.Leu141GlnfsTer8	p.L141Qfs*8	ENST00000258383	2/4	37	25	12	86	86	0	MRPL44,frameshift_variant,p.Leu141GlnfsTer8,ENST00000258383,;	-	ENSG00000135900	ENST00000258383	Transcript	frameshift_variant	489-504	420-435	140-145	FLEDEY/X	ttTCTTGAAGACGAGTAC/tt	.	.	.	1	MRPL44	HGNC	16650	protein_coding	YES	CCDS2459.1	ENSP00000258383	RM44_HUMAN	.	UPI00000467E7	.	.	.	2/4	.	hmmpanther:PTHR14488,Gene3D:1.10.1520.10,Superfamily_domains:SSF69065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACAGTTTCTTGAAGACGAGTACCCAGA	.	3	BLCA
IRS1	0	.	GRCh37	2	227662693	227662693	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762G>A	p.%3D	p.L254L	ENST00000305123	1/2	46	36	9	70	70	0	IRS1,synonymous_variant,p.%3D,ENST00000305123,;RP11-395N3.2,upstream_gene_variant,,ENST00000607970,;IRS1,upstream_gene_variant,,ENST00000498335,;	T	ENSG00000169047	ENST00000305123	Transcript	synonymous_variant	1783	762	254	L	ctG/ctA	.	.	.	-1	IRS1	HGNC	6125	protein_coding	YES	CCDS2463.1	ENSP00000304895	IRS1_HUMAN	.	UPI000003BB52	.	.	.	1/2	.	PROSITE_profiles:PS51064,hmmpanther:PTHR10614:SF11,hmmpanther:PTHR10614,Pfam_domain:PF02174,Gene3D:2.30.29.30,SMART_domains:SM00310,Superfamily_domains:SSF50729,Prints_domain:PR00628	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTCCAGGAT	.	5	BLCA
COL4A4	0	.	GRCh37	2	227976422	227976422	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.566G>A	p.Arg189Lys	p.R189K	ENST00000396625	9/48	37	22	15	35	35	0	COL4A4,missense_variant,p.Arg189Lys,ENST00000329662,;COL4A4,missense_variant,p.Arg189Lys,ENST00000396625,;	T	ENSG00000081052	ENST00000396625	Transcript	missense_variant	774	566	189	R/K	aGa/aAa	.	.	.	-1	COL4A4	HGNC	2206	protein_coding	YES	CCDS42828.1	ENSP00000379866	CO4A4_HUMAN	.	UPI000013D987	.	.	benign(0.26)	9/48	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24021:SF5,hmmpanther:PTHR24021,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCTGTCT	.	5	BLCA
COL4A3	0	.	GRCh37	2	228149032	228149032	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2852T>C	p.Ile951Thr	p.I951T	ENST00000396578	34/52	11	8	3	15	15	0	COL4A3,missense_variant,p.Ile951Thr,ENST00000396578,;COL4A3,upstream_gene_variant,,ENST00000304990,;AC097662.2,intron_variant,,ENST00000433324,;AC097662.2,intron_variant,,ENST00000396588,;AC097662.2,intron_variant,,ENST00000439598,;COL4A3,non_coding_transcript_exon_variant,,ENST00000487633,;	C	ENSG00000169031	ENST00000396578	Transcript	missense_variant	3014	2852	951	I/T	aTa/aCa	.	.	.	1	COL4A3	HGNC	2204	protein_coding	YES	CCDS42829.1	ENSP00000379823	CO4A3_HUMAN	Q548X1_HUMAN,A9QVI3_HUMAN	UPI000013E9F3	.	.	unknown(0)	34/52	.	hmmpanther:PTHR24023:SF417,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGTAATAGGGG	.	2	BLCA
SP140	0	.	GRCh37	2	231120175	231120175	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168G>C	p.Asp390His	p.D390H	ENST00000392045	12/27	34	24	10	83	83	0	SP140,missense_variant,p.Asp330His,ENST00000343805,;SP140,missense_variant,p.Asp276His,ENST00000417495,;SP140,missense_variant,p.Asp390His,ENST00000392045,;SP140,missense_variant,p.Asp314His,ENST00000486687,;SP140,missense_variant,p.Asp259His,ENST00000350136,;SP140,intron_variant,,ENST00000420434,;	C	ENSG00000079263	ENST00000392045	Transcript	missense_variant	1282	1168	390	D/H	Gat/Cat	.	.	.	1	SP140	HGNC	17133	protein_coding	YES	CCDS42831.1	ENSP00000375899	SP140_HUMAN	.	UPI0000209746	.	tolerated(0.07)	benign(0.265)	12/27	.	hmmpanther:PTHR13711,hmmpanther:PTHR13711:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTGATGAC	.	5	BLCA
NCL	0	.	GRCh37	2	232322413	232322413	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1388A>G	p.Tyr463Cys	p.Y463C	ENST00000322723	9/14	80	60	20	94	94	0	NCL,missense_variant,p.Tyr64Cys,ENST00000356936,;NCL,missense_variant,p.Tyr463Cys,ENST00000322723,;AC017104.2,downstream_gene_variant,,ENST00000370380,;NCL,downstream_gene_variant,,ENST00000454824,;NCL,downstream_gene_variant,,ENST00000436894,;NCL,downstream_gene_variant,,ENST00000417652,;NCL,downstream_gene_variant,,ENST00000453992,;SNORA75,upstream_gene_variant,,ENST00000384158,;SNORD82,downstream_gene_variant,,ENST00000365530,;SNORD20,upstream_gene_variant,,ENST00000384550,;NCL,non_coding_transcript_exon_variant,,ENST00000494618,;NCL,non_coding_transcript_exon_variant,,ENST00000461347,;NCL,upstream_gene_variant,,ENST00000466274,;	C	ENSG00000115053	ENST00000322723	Transcript	missense_variant	1629	1388	463	Y/C	tAt/tGt	.	.	.	-1	NCL	HGNC	7667	protein_coding	YES	CCDS33397.1	ENSP00000318195	NUCL_HUMAN	C9JYW2_HUMAN,C9JWL1_HUMAN,C9JLB1_HUMAN,C9J1H7_HUMAN,B3KM80_HUMAN	UPI0000456F25	.	.	benign(0.302)	9/14	.	Superfamily_domains:SSF54928,Gene3D:3.30.70.330,hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF307,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTATAGTAC	.	5	BLCA
ALPP	0	.	GRCh37	2	233244519	233244519	+	Missense_Mutation	SNP	C	C	T	rs371726976	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530C>T	p.Ser177Leu	p.S177L	ENST00000392027	5/11	46	31	15	63	63	0	ALPP,missense_variant,p.Ser177Leu,ENST00000392027,;AC068134.8,non_coding_transcript_exon_variant,,ENST00000439072,;AC068134.8,intron_variant,,ENST00000441266,;ALPP,downstream_gene_variant,,ENST00000474529,;ALPP,upstream_gene_variant,,ENST00000485563,;	T	ENSG00000163283	ENST00000392027	Transcript	missense_variant	799	530	177	S/L	tCg/tTg	rs371726976	.	.	1	ALPP	HGNC	439	protein_coding	YES	CCDS2490.1	ENSP00000375881	PPB1_HUMAN	.	UPI0000131FF9	.	deleterious(0)	probably_damaging(0.999)	5/11	.	hmmpanther:PTHR11596,hmmpanther:PTHR11596:SF31,Gene3D:3.40.720.10,Pfam_domain:PF00245,SMART_domains:SM00098,Superfamily_domains:SSF53649,Prints_domain:PR00113	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCGCCAG	byFrequency|byCluster	5	BLCA
ECEL1	0	.	GRCh37	2	233350757	233350757	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>A	p.Glu203Lys	p.E203K	ENST00000304546	2/18	15	9	5	18	18	0	ECEL1,missense_variant,p.Glu203Lys,ENST00000409941,;ECEL1,missense_variant,p.Glu203Lys,ENST00000304546,;ECEL1,upstream_gene_variant,,ENST00000411860,;ECEL1,non_coding_transcript_exon_variant,,ENST00000482346,;	T	ENSG00000171551	ENST00000304546	Transcript	missense_variant	818	607	203	E/K	Gag/Aag	.	.	.	-1	ECEL1	HGNC	3147	protein_coding	YES	CCDS2493.1	ENSP00000302051	ECEL1_HUMAN	.	UPI000013E997	.	tolerated(0.11)	possibly_damaging(0.589)	2/18	.	Superfamily_domains:SSF55486,Pfam_domain:PF05649,hmmpanther:PTHR11733:SF108,hmmpanther:PTHR11733	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GACCTCTAGCA	.	4	BLCA
GIGYF2	0	.	GRCh37	2	233671208	233671208	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1710C>T	p.%3D	p.F570F	ENST00000409451	17/31	119	81	37	151	151	0	GIGYF2,synonymous_variant,p.%3D,ENST00000423659,;GIGYF2,synonymous_variant,p.%3D,ENST00000373563,;GIGYF2,synonymous_variant,p.%3D,ENST00000409547,;GIGYF2,synonymous_variant,p.%3D,ENST00000452341,;GIGYF2,synonymous_variant,p.%3D,ENST00000373566,;GIGYF2,synonymous_variant,p.%3D,ENST00000409480,;GIGYF2,synonymous_variant,p.%3D,ENST00000409196,;GIGYF2,synonymous_variant,p.%3D,ENST00000409451,;GIGYF2,synonymous_variant,p.%3D,ENST00000440945,;GIGYF2,upstream_gene_variant,,ENST00000482952,;GIGYF2,upstream_gene_variant,,ENST00000474312,;	T	ENSG00000204120	ENST00000409451	Transcript	synonymous_variant	1936	1710	570	F	ttC/ttT	.	.	.	1	GIGYF2	HGNC	11960	protein_coding	YES	CCDS46542.1	ENSP00000387170	PERQ2_HUMAN	C9JZC0_HUMAN,C9JXQ0_HUMAN,C9JRZ2_HUMAN,C9JPV7_HUMAN,C9JHT0_HUMAN,C9JH18_HUMAN,C9J1A6_HUMAN,C9J0V6_HUMAN	UPI00003FEC8F	.	.	.	17/31	.	Superfamily_domains:SSF55277,SMART_domains:SM00444,Gene3D:3.30.1490.40,Pfam_domain:PF02213,hmmpanther:PTHR14445:SF38,hmmpanther:PTHR14445,PROSITE_profiles:PS50829	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCAATAA	.	5	BLCA
INPP5D	0	.	GRCh37	2	233986936	233986936	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.319delG	p.Asp107ThrfsTer11	p.D107Tfs*11	ENST00000359570	3/29	39	31	8	46	46	0	INPP5D,frameshift_variant,p.Asp107ThrfsTer11,ENST00000538935,;INPP5D,frameshift_variant,p.Asp107ThrfsTer11,ENST00000451407,;INPP5D,frameshift_variant,p.Asp107ThrfsTer11,ENST00000359570,;INPP5D,frameshift_variant,p.Asp107ThrfsTer26,ENST00000422935,;INPP5D,non_coding_transcript_exon_variant,,ENST00000474278,;INPP5D,non_coding_transcript_exon_variant,,ENST00000467393,;INPP5D,non_coding_transcript_exon_variant,,ENST00000496402,;	-	ENSG00000168918	ENST00000359570	Transcript	frameshift_variant	318	318	106	E/X	gaG/ga	.	.	.	1	INPP5D	HGNC	6079	protein_coding	YES	.	ENSP00000352575	SHIP1_HUMAN	H0Y5Q9_HUMAN,C9JF09_HUMAN	UPI0002065B89	.	.	.	3/29	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11200,hmmpanther:PTHR11200:SF69	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GGAAGAGGACAC	.	2	BLCA
USP40	0	.	GRCh37	2	234468487	234468487	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387C>T	p.%3D	p.L129L	ENST00000450966	3/31	12	7	5	10	10	0	USP40,synonymous_variant,p.%3D,ENST00000251722,;USP40,synonymous_variant,p.%3D,ENST00000427112,;USP40,synonymous_variant,p.%3D,ENST00000450966,;USP40,downstream_gene_variant,,ENST00000443711,;USP40,non_coding_transcript_exon_variant,,ENST00000484528,;USP40,non_coding_transcript_exon_variant,,ENST00000427947,;	A	ENSG00000085982	ENST00000450966	Transcript	synonymous_variant	387	387	129	L	ctC/ctT	.	.	.	-1	USP40	HGNC	20069	protein_coding	YES	CCDS46547.1	ENSP00000415434	UBP40_HUMAN	.	UPI0000232F06	.	.	.	3/31	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF423,hmmpanther:PTHR24006,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCAGTGAGGTC	.	3	BLCA
UGT1A8	0	.	GRCh37	2	234527160	234527160	+	Missense_Mutation	SNP	G	G	A	rs772518837	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807G>A	p.Met269Ile	p.M269I	ENST00000373450	1/5	272	185	87	353	353	0	UGT1A8,missense_variant,p.Met269Ile,ENST00000373450,;	A	ENSG00000241635	ENST00000373450	Transcript	missense_variant	870	807	269	M/I	atG/atA	rs772518837	.	.	1	UGT1A8	HGNC	12540	protein_coding	.	CCDS33402.1	ENSP00000362549	UD18_HUMAN	Q5DSZ6_HUMAN	UPI0000072F75	.	tolerated(0.08)	benign(0.03)	1/5	.	Superfamily_domains:SSF53756,Pfam_domain:PF00201,hmmpanther:PTHR11926:SF138,hmmpanther:PTHR11926	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATGATCTT	byFrequency	5	BLCA
UGT1A10	0	.	GRCh37	2	234545378	234545378	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210G>A	p.%3D	p.L70L	ENST00000344644	1/5	107	76	31	118	118	0	UGT1A10,synonymous_variant,p.%3D,ENST00000373445,;UGT1A10,synonymous_variant,p.%3D,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;	A	ENSG00000242515	ENST00000344644	Transcript	synonymous_variant	279	210	70	L	ctG/ctA	.	.	.	1	UGT1A10	HGNC	12531	protein_coding	YES	CCDS33403.1	ENSP00000343838	UD110_HUMAN	Q5DT02_HUMAN,Q13406_HUMAN	UPI000006D7E8	.	.	.	1/5	.	hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF138,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAATTG	.	5	BLCA
UGT1A10	0	.	GRCh37	2	234545731	234545731	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.563C>T	p.Ser188Phe	p.S188F	ENST00000344644	1/5	195	130	64	221	221	0	UGT1A10,missense_variant,p.Ser188Phe,ENST00000373445,;UGT1A10,missense_variant,p.Ser188Phe,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;	T	ENSG00000242515	ENST00000344644	Transcript	missense_variant	632	563	188	S/F	tCc/tTc	COSM3579303	.	.	1	UGT1A10	HGNC	12531	protein_coding	YES	CCDS33403.1	ENSP00000343838	UD110_HUMAN	Q5DT02_HUMAN,Q13406_HUMAN	UPI000006D7E8	.	deleterious(0)	possibly_damaging(0.861)	1/5	.	hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF138,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P186A|c.556C>G|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCCTATG	.	5	BLCA
UGT1A10	0	.	GRCh37	2	234545946	234545946	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.778G>A	p.Asp260Asn	p.D260N	ENST00000344644	1/5	287	201	85	353	353	0	UGT1A10,missense_variant,p.Asp260Asn,ENST00000373445,;UGT1A10,missense_variant,p.Asp260Asn,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;	A	ENSG00000242515	ENST00000344644	Transcript	missense_variant	847	778	260	D/N	Gac/Aac	.	.	.	1	UGT1A10	HGNC	12531	protein_coding	YES	CCDS33403.1	ENSP00000343838	UD110_HUMAN	Q5DT02_HUMAN,Q13406_HUMAN	UPI000006D7E8	.	tolerated(0.07)	benign(0.068)	1/5	.	hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF138,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTGGACTAT	.	5	BLCA
UGT1A10	0	.	GRCh37	2	234546003	234546003	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.835C>T	p.Gln279Ter	p.Q279*	ENST00000344644	1/5	246	169	77	323	323	0	UGT1A10,stop_gained,p.Gln279Ter,ENST00000373445,;UGT1A10,stop_gained,p.Gln279Ter,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;	T	ENSG00000242515	ENST00000344644	Transcript	stop_gained	904	835	279	Q/*	Cag/Tag	.	.	.	1	UGT1A10	HGNC	12531	protein_coding	YES	CCDS33403.1	ENSP00000343838	UD110_HUMAN	Q5DT02_HUMAN,Q13406_HUMAN	UPI000006D7E8	.	.	.	1/5	.	hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF138,Pfam_domain:PF00201,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCAGGGA	.	5	BLCA
UGT1A4	0	.	GRCh37	2	234628108	234628108	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.642G>T	p.Met214Ile	p.M214I	ENST00000373409	1/5	157	104	52	184	184	0	UGT1A4,missense_variant,p.Met214Ile,ENST00000373409,;UGT1A10,intron_variant,,ENST00000373445,;UGT1A6,intron_variant,,ENST00000305139,;UGT1A6,intron_variant,,ENST00000373424,;UGT1A8,intron_variant,,ENST00000608381,;UGT1A7,intron_variant,,ENST00000373426,;UGT1A8,intron_variant,,ENST00000609637,;UGT1A5,intron_variant,,ENST00000373414,;UGT1A6,intron_variant,,ENST00000406651,;UGT1A10,intron_variant,,ENST00000344644,;UGT1A8,intron_variant,,ENST00000373450,;UGT1A9,intron_variant,,ENST00000354728,;UGT1A6,intron_variant,,ENST00000480628,;UGT1A6,intron_variant,,ENST00000478062,;UGT1A4,missense_variant,p.Met214Ile,ENST00000450233,;UGT1A6,intron_variant,,ENST00000446481,;UGT1A6,intron_variant,,ENST00000484784,;RPL17P11,downstream_gene_variant,,ENST00000417593,;	T	ENSG00000244474	ENST00000373409	Transcript	missense_variant	685	642	214	M/I	atG/atT	.	.	.	1	UGT1A4	HGNC	12536	protein_coding	YES	CCDS33405.1	ENSP00000362508	UD14_HUMAN	Q8WX88_HUMAN,Q53QD2_HUMAN,B8K2E8_HUMAN	UPI0000001044	.	tolerated(0.15)	benign(0.012)	1/5	.	Superfamily_domains:SSF53756,Pfam_domain:PF00201,hmmpanther:PTHR11926:SF166,hmmpanther:PTHR11926	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATGCTCTA	.	5	BLCA
TRPM8	0	.	GRCh37	2	234847797	234847797	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.504C>T	p.%3D	p.L168L	ENST00000324695	5/26	28	18	9	53	53	0	TRPM8,synonymous_variant,p.%3D,ENST00000409625,;TRPM8,synonymous_variant,p.%3D,ENST00000324695,;TRPM8,synonymous_variant,p.%3D,ENST00000355722,;TRPM8,5_prime_UTR_variant,,ENST00000433712,;TRPM8,downstream_gene_variant,,ENST00000479332,;TRPM8,synonymous_variant,p.%3D,ENST00000444298,;	T	ENSG00000144481	ENST00000324695	Transcript	synonymous_variant	544	504	168	L	ctC/ctT	.	.	.	1	TRPM8	HGNC	17961	protein_coding	YES	CCDS33407.1	ENSP00000323926	TRPM8_HUMAN	.	UPI0000456F32	.	.	.	5/26	.	hmmpanther:PTHR13800,hmmpanther:PTHR13800:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTCATCTA	.	5	BLCA
LRRFIP1	0	.	GRCh37	2	238622908	238622908	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154-5258C>T	.	.	ENST00000392000	.	89	62	27	101	101	0	LRRFIP1,stop_gained,p.Gln64Ter,ENST00000308482,;LRRFIP1,intron_variant,,ENST00000289175,;LRRFIP1,intron_variant,,ENST00000420665,;LRRFIP1,intron_variant,,ENST00000244815,;LRRFIP1,intron_variant,,ENST00000392000,;LRRFIP1,non_coding_transcript_exon_variant,,ENST00000473815,;LRRFIP1,intron_variant,,ENST00000498053,;LRRFIP1,intron_variant,,ENST00000465870,;	T	ENSG00000124831	ENST00000392000	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	LRRFIP1	HGNC	6702	protein_coding	YES	CCDS46552.1	ENSP00000375857	LRRF1_HUMAN	.	UPI0000DD0949	.	.	.	.	2/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATCAGGTC	.	5	BLCA
CAPN10	0	.	GRCh37	2	241534647	241534647	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1204G>A	p.Asp402Asn	p.D402N	ENST00000391984	7/12	33	17	15	47	47	0	CAPN10,missense_variant,p.Asp402Asn,ENST00000391982,;CAPN10,missense_variant,p.Asp402Asn,ENST00000354082,;CAPN10,missense_variant,p.Asp402Asn,ENST00000404753,;CAPN10,missense_variant,p.Asp402Asn,ENST00000391984,;CAPN10,intron_variant,,ENST00000270364,;CAPN10,intron_variant,,ENST00000352879,;CAPN10,downstream_gene_variant,,ENST00000432084,;CAPN10,missense_variant,p.Asp402Asn,ENST00000416591,;CAPN10,missense_variant,p.Asp402Asn,ENST00000391983,;CAPN10,missense_variant,p.Asp402Asn,ENST00000357048,;CAPN10,3_prime_UTR_variant,,ENST00000270361,;CAPN10,non_coding_transcript_exon_variant,,ENST00000494738,;CAPN10,non_coding_transcript_exon_variant,,ENST00000483602,;CAPN10,downstream_gene_variant,,ENST00000465943,;CAPN10,upstream_gene_variant,,ENST00000493058,;CAPN10,upstream_gene_variant,,ENST00000426297,;	A	ENSG00000142330	ENST00000391984	Transcript	missense_variant	1400	1204	402	D/N	Gac/Aac	.	.	.	1	CAPN10	HGNC	1477	protein_coding	YES	CCDS42838.1	ENSP00000375844	CAN10_HUMAN	.	UPI00001AE96D	.	tolerated(0.53)	benign(0.008)	7/12	.	hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF30,Gene3D:2.60.120.380,Pfam_domain:PF01067,SMART_domains:SM00720,Superfamily_domains:SSF49758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGTGACAGT	.	5	BLCA
D2HGDH	0	.	GRCh37	2	242690717	242690717	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1054G>A	p.Glu352Lys	p.E352K	ENST00000321264	8/10	39	28	10	57	57	0	D2HGDH,missense_variant,p.Glu352Lys,ENST00000321264,;D2HGDH,missense_variant,p.Glu53Lys,ENST00000454048,;D2HGDH,missense_variant,p.Glu218Lys,ENST00000403782,;D2HGDH,missense_variant,p.Glu106Lys,ENST00000432449,;D2HGDH,upstream_gene_variant,,ENST00000445308,;D2HGDH,downstream_gene_variant,,ENST00000417686,;D2HGDH,downstream_gene_variant,,ENST00000342518,;D2HGDH,downstream_gene_variant,,ENST00000537090,;D2HGDH,downstream_gene_variant,,ENST00000437164,;AC114730.7,downstream_gene_variant,,ENST00000417267,;D2HGDH,non_coding_transcript_exon_variant,,ENST00000496252,;D2HGDH,intron_variant,,ENST00000486953,;D2HGDH,intron_variant,,ENST00000467427,;D2HGDH,3_prime_UTR_variant,,ENST00000436747,;D2HGDH,non_coding_transcript_exon_variant,,ENST00000473126,;D2HGDH,non_coding_transcript_exon_variant,,ENST00000470343,;D2HGDH,intron_variant,,ENST00000400769,;D2HGDH,upstream_gene_variant,,ENST00000468064,;	A	ENSG00000180902	ENST00000321264	Transcript	missense_variant	1263	1054	352	E/K	Gag/Aag	.	.	.	1	D2HGDH	HGNC	28358	protein_coding	YES	CCDS33426.1	ENSP00000315351	D2HDH_HUMAN	B5MCV2_HUMAN,B3KP72_HUMAN	UPI0000456F51	.	deleterious(0.01)	possibly_damaging(0.772)	8/10	.	hmmpanther:PTHR11748,hmmpanther:PTHR11748:SF35,Pfam_domain:PF02913,Superfamily_domains:SSF55103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCTGAGAAG	.	5	BLCA
TP53I3	0	.	GRCh37	2	24307112	24307112	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85G>A	p.Glu29Lys	p.E29K	ENST00000238721	1/5	64	46	18	99	99	0	TP53I3,missense_variant,p.Glu29Lys,ENST00000313482,;TP53I3,missense_variant,p.Glu29Lys,ENST00000238721,;TP53I3,missense_variant,p.Glu29Lys,ENST00000335934,;TP53I3,missense_variant,p.Glu29Lys,ENST00000407482,;TP53I3,missense_variant,p.Glu24Lys,ENST00000413037,;TP53I3,non_coding_transcript_exon_variant,,ENST00000417886,;FAM228B,intron_variant,,ENST00000461972,;FAM228B,intron_variant,,ENST00000468799,;FAM228B,intron_variant,,ENST00000469867,;FAM228B,intron_variant,,ENST00000486967,;FAM228B,downstream_gene_variant,,ENST00000460686,;TP53I3,downstream_gene_variant,,ENST00000470636,;	T	ENSG00000115129	ENST00000238721	Transcript	missense_variant	940	85	29	E/K	Gaa/Aaa	.	.	.	-1	TP53I3	HGNC	19373	protein_coding	YES	CCDS1708.1	ENSP00000238721	QORX_HUMAN	.	UPI000006D860	.	deleterious(0.02)	possibly_damaging(0.66)	1/5	.	hmmpanther:PTHR11695,hmmpanther:PTHR11695:SF28,Pfam_domain:PF08240,TIGRFAM_domain:TIGR02824,Gene3D:3.90.180.10,SMART_domains:SM00829,Superfamily_domains:SSF50129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCACCCT	.	5	BLCA
NCOA1	0	.	GRCh37	2	24991255	24991255	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4321G>A	p.Glu1441Lys	p.E1441K	ENST00000406961	23/23	60	40	19	60	60	0	NCOA1,missense_variant,p.Glu1441Lys,ENST00000348332,;NCOA1,missense_variant,p.Glu1441Lys,ENST00000406961,;NCOA1,missense_variant,p.Glu1440Lys,ENST00000395856,;NCOA1,3_prime_UTR_variant,,ENST00000407230,;NCOA1,3_prime_UTR_variant,,ENST00000288599,;NCOA1,3_prime_UTR_variant,,ENST00000405141,;NCOA1,downstream_gene_variant,,ENST00000538539,;NCOA1,non_coding_transcript_exon_variant,,ENST00000493773,;	A	ENSG00000084676	ENST00000406961	Transcript	missense_variant	4973	4321	1441	E/K	Gaa/Aaa	COSM1482976	.	.	1	NCOA1	HGNC	7668	protein_coding	YES	CCDS1712.1	ENSP00000385216	NCOA1_HUMAN	.	UPI000006E1F7	.	deleterious_low_confidence(0)	unknown(0)	23/23	.	hmmpanther:PTHR10684:SF1,hmmpanther:PTHR10684	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTGAATAA	.	5	BLCA
EPT1	0	.	GRCh37	2	26609290	26609290	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981C>T	p.%3D	p.L327L	ENST00000260585	9/10	58	43	15	78	78	0	EPT1,synonymous_variant,p.%3D,ENST00000260585,;EPT1,downstream_gene_variant,,ENST00000447170,;	T	ENSG00000138018	ENST00000260585	Transcript	synonymous_variant	1100	981	327	L	ctC/ctT	.	.	.	1	EPT1	HGNC	29361	protein_coding	YES	CCDS46240.1	ENSP00000260585	EPT1_HUMAN	G1UI38_HUMAN,C9JEZ2_HUMAN,C9J9I1_HUMAN	UPI00003CE422	.	.	.	9/10	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10414,hmmpanther:PTHR10414:SF33,PIRSF_domain:PIRSF015665	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCTTCTT	.	5	BLCA
OTOF	0	.	GRCh37	2	26688631	26688631	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4708G>A	p.Asp1570Asn	p.D1570N	ENST00000272371	38/47	63	44	19	78	78	0	OTOF,missense_variant,p.Asp1570Asn,ENST00000403946,;OTOF,missense_variant,p.Asp803Asn,ENST00000338581,;OTOF,missense_variant,p.Asp1570Asn,ENST00000272371,;OTOF,missense_variant,p.Asp803Asn,ENST00000339598,;OTOF,missense_variant,p.Asp880Asn,ENST00000402415,;OTOF,non_coding_transcript_exon_variant,,ENST00000464574,;	T	ENSG00000115155	ENST00000272371	Transcript	missense_variant	4835	4708	1570	D/N	Gat/Aat	.	.	.	-1	OTOF	HGNC	8515	protein_coding	YES	CCDS1725.1	ENSP00000272371	OTOF_HUMAN	.	UPI000013D94D	.	deleterious(0)	probably_damaging(1)	38/47	.	PROSITE_profiles:PS50004,hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF32,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCATCAGTGC	.	5	BLCA
C2orf53	0	.	GRCh37	2	27360213	27360213	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.985C>T	p.Gln329Ter	p.Q329*	ENST00000335524	3/3	74	47	27	98	98	0	C2orf53,stop_gained,p.Gln329Ter,ENST00000335524,;PREB,upstream_gene_variant,,ENST00000456259,;PREB,upstream_gene_variant,,ENST00000430533,;PREB,upstream_gene_variant,,ENST00000406567,;C2orf53,downstream_gene_variant,,ENST00000432962,;PREB,upstream_gene_variant,,ENST00000260643,;PREB,upstream_gene_variant,,ENST00000416802,;PREB,upstream_gene_variant,,ENST00000474802,;PREB,upstream_gene_variant,,ENST00000468045,;PREB,upstream_gene_variant,,ENST00000444452,;	A	ENSG00000186143	ENST00000335524	Transcript	stop_gained	1511	985	329	Q/*	Cag/Tag	.	.	.	-1	C2orf53	HGNC	28677	protein_coding	YES	CCDS1739.1	ENSP00000335017	CB053_HUMAN	.	UPI00001995FD	.	.	.	3/3	.	hmmpanther:PTHR22235,hmmpanther:PTHR22235:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAGTAG	.	5	BLCA
TRMT61B	0	.	GRCh37	2	29092776	29092776	+	Missense_Mutation	SNP	G	G	A	rs773420398	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368C>T	p.Ser123Leu	p.S123L	ENST00000306108	1/7	27	19	8	32	32	0	TRMT61B,missense_variant,p.Ser123Leu,ENST00000306108,;TRMT61B,missense_variant,p.Ser123Leu,ENST00000439947,;	A	ENSG00000171103	ENST00000306108	Transcript	missense_variant	392	368	123	S/L	tCg/tTg	rs773420398	.	.	-1	TRMT61B	HGNC	26070	protein_coding	YES	CCDS1768.1	ENSP00000302801	TR61B_HUMAN	.	UPI000006D28C	.	tolerated(0.55)	benign(0.002)	1/7	.	hmmpanther:PTHR12133,hmmpanther:PTHR12133:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATCGAAGGA	.	5	BLCA
WDR43	0	.	GRCh37	2	29169351	29169351	+	Missense_Mutation	SNP	G	G	A	rs758960161	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1840G>A	p.Asp614Asn	p.D614N	ENST00000407426	17/18	20	9	11	23	23	0	WDR43,missense_variant,p.Asp166Asn,ENST00000446643,;WDR43,missense_variant,p.Asp614Asn,ENST00000407426,;	A	ENSG00000163811	ENST00000407426	Transcript	missense_variant	1896	1840	614	D/N	Gat/Aat	rs758960161	.	.	1	WDR43	HGNC	28945	protein_coding	YES	CCDS46251.1	ENSP00000384302	WDR43_HUMAN	C9JH61_HUMAN,C9JEE7_HUMAN,C9IZK7_HUMAN	UPI00001C1DCD	.	tolerated(0.24)	benign(0.006)	17/18	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCAGATAAG	byFrequency	5	BLCA
C2orf71	0	.	GRCh37	2	29294356	29294356	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2772G>A	p.%3D	p.L924L	ENST00000331664	1/2	26	16	9	34	34	0	C2orf71,synonymous_variant,p.%3D,ENST00000331664,;	T	ENSG00000179270	ENST00000331664	Transcript	synonymous_variant	2772	2772	924	L	ctG/ctA	COSM3910200	.	.	-1	C2orf71	HGNC	34383	protein_coding	YES	CCDS42669.1	ENSP00000332809	CB071_HUMAN	.	UPI0000251DD8	.	.	.	1/2	.	hmmpanther:PTHR22017,Pfam_domain:PF15449	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAGGTC	.	5	BLCA
ALK	0	.	GRCh37	2	29445212	29445212	+	Silent	SNP	G	G	A	rs760322018	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3513C>T	p.%3D	p.I1171I	ENST00000389048	22/29	15	10	4	28	28	0	ALK,synonymous_variant,p.%3D,ENST00000453137,;ALK,synonymous_variant,p.%3D,ENST00000389048,;ALK,intron_variant,,ENST00000431873,;	A	ENSG00000171094	ENST00000389048	Transcript	synonymous_variant	4420	3513	1171	I	atC/atT	rs760322018,COSM1407658	.	.	-1	ALK	HGNC	427	protein_coding	YES	CCDS33172.1	ENSP00000373700	ALK_HUMAN	Q580I3_HUMAN	UPI00001684DA	.	.	.	22/29	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF276,Pfam_domain:PF07714,Gene3D:3.30.200.20,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.I1171N|c.3512T>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGATGAT	.	5	BLCA
ALK	0	.	GRCh37	2	30142901	30142901	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.625C>T	p.Arg209Cys	p.R209C	ENST00000389048	1/29	31	23	8	42	42	0	ALK,missense_variant,p.Arg209Cys,ENST00000389048,;ALK,missense_variant,p.Arg209Cys,ENST00000431873,;	A	ENSG00000171094	ENST00000389048	Transcript	missense_variant	1532	625	209	R/C	Cgc/Tgc	.	.	.	-1	ALK	HGNC	427	protein_coding	YES	CCDS33172.1	ENSP00000373700	ALK_HUMAN	Q580I3_HUMAN	UPI00001684DA	.	deleterious_low_confidence(0)	possibly_damaging(0.72)	1/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGCGAATTG	.	5	BLCA
LBH	0	.	GRCh37	2	30454548	30454548	+	5'UTR	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-57G>C	.	.	ENST00000395323	1/3	32	21	11	28	28	0	LBH,5_prime_UTR_variant,,ENST00000395323,;LBH,5_prime_UTR_variant,,ENST00000404397,;LBH,5_prime_UTR_variant,,ENST00000406087,;LBH,upstream_gene_variant,,ENST00000401506,;LBH,upstream_gene_variant,,ENST00000407930,;LBH,non_coding_transcript_exon_variant,,ENST00000464412,;LBH,upstream_gene_variant,,ENST00000467242,;LBH,upstream_gene_variant,,ENST00000484150,;LBH,5_prime_UTR_variant,,ENST00000412933,;	C	ENSG00000213626	ENST00000395323	Transcript	5_prime_UTR_variant	152	.	.	.	.	.	.	.	1	LBH	HGNC	29532	protein_coding	YES	CCDS33173.1	ENSP00000378733	LBH_HUMAN	F8WC18_HUMAN,B5MBX5_HUMAN	UPI0000034E08	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCGGGACGC	.	5	BLCA
BIRC6	0	.	GRCh37	2	32602821	32602821	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.491A>G	p.Glu164Gly	p.E164G	ENST00000421745	2/74	66	48	18	86	86	0	BIRC6,missense_variant,p.Glu164Gly,ENST00000421745,;BIRC6-AS1,intron_variant,,ENST00000455572,;	G	ENSG00000115760	ENST00000421745	Transcript	missense_variant	625	491	164	E/G	gAa/gGa	.	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	probably_damaging(0.986)	2/74	.	hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTGAATTAC	.	5	BLCA
BIRC6	0	.	GRCh37	2	32773024	32773024	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12918G>A	p.%3D	p.V4306V	ENST00000421745	64/74	31	21	10	36	36	0	BIRC6,synonymous_variant,p.%3D,ENST00000421745,;BIRC6,non_coding_transcript_exon_variant,,ENST00000471232,;	A	ENSG00000115760	ENST00000421745	Transcript	synonymous_variant	13052	12918	4306	V	gtG/gtA	.	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	.	64/74	.	hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGTGGAACA	.	5	BLCA
TTC27	0	.	GRCh37	2	32889403	32889403	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.674C>T	p.Ser225Leu	p.S225L	ENST00000317907	6/20	71	53	17	65	64	0	TTC27,missense_variant,p.Ser225Leu,ENST00000317907,;TTC27,intron_variant,,ENST00000454690,;	T	ENSG00000018699	ENST00000317907	Transcript	missense_variant	905	674	225	S/L	tCa/tTa	.	.	.	1	TTC27	HGNC	25986	protein_coding	YES	CCDS33176.1	ENSP00000313953	TTC27_HUMAN	C9JVS4_HUMAN,B4DRC7_HUMAN	UPI0000208226	.	tolerated(0.15)	benign(0.004)	6/20	.	hmmpanther:PTHR16193	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTCAGGTC	.	5	BLCA
FAM98A	0	.	GRCh37	2	33813494	33813494	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430C>T	p.Gln144Ter	p.Q144*	ENST00000238823	4/8	74	55	19	121	121	0	FAM98A,stop_gained,p.Gln144Ter,ENST00000403368,;FAM98A,stop_gained,p.Gln144Ter,ENST00000238823,;FAM98A,intron_variant,,ENST00000441530,;FAM98A,intron_variant,,ENST00000498340,;FAM98A,non_coding_transcript_exon_variant,,ENST00000474985,;FAM98A,upstream_gene_variant,,ENST00000492649,;FAM98A,downstream_gene_variant,,ENST00000464415,;FAM98A,upstream_gene_variant,,ENST00000475122,;	A	ENSG00000119812	ENST00000238823	Transcript	stop_gained	571	430	144	Q/*	Caa/Taa	COSM3798976	.	.	-1	FAM98A	HGNC	24520	protein_coding	YES	CCDS33179.1	ENSP00000238823	FA98A_HUMAN	C9J3G8_HUMAN,B4DT23_HUMAN	UPI000013F15A	.	.	.	4/8	.	hmmpanther:PTHR31353,hmmpanther:PTHR31353:SF6,Pfam_domain:PF10239	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTGAAAGA	.	5	BLCA
RNASEH1	0	.	GRCh37	2	3599893	3599893	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Glu84Lys	p.E84K	ENST00000315212	3/8	51	37	14	88	88	0	RNASEH1,missense_variant,p.Glu84Lys,ENST00000315212,;RP13-512J5.1,upstream_gene_variant,,ENST00000438485,;RNASEH1,3_prime_UTR_variant,,ENST00000436842,;RNASEH1,3_prime_UTR_variant,,ENST00000454734,;RNASEH1,non_coding_transcript_exon_variant,,ENST00000464986,;	T	ENSG00000171865	ENST00000315212	Transcript	missense_variant	606	250	84	E/K	Gaa/Aaa	.	.	.	-1	RNASEH1	HGNC	18466	protein_coding	YES	CCDS1647.1	ENSP00000313350	RNH1_HUMAN	E5KN15_HUMAN,F8WD93_HUMAN,B3KUD4_HUMAN	UPI00001343BC	.	tolerated(0.99)	benign(0.001)	3/8	.	hmmpanther:PTHR10642:SF0,hmmpanther:PTHR10642,PIRSF_domain:PIRSF036852	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCATGCC	.	5	BLCA
CRIM1	0	.	GRCh37	2	36706639	36706639	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1175-1G>A	.	p.X392_splice	ENST00000280527	.	47	37	10	50	50	0	CRIM1,splice_acceptor_variant,,ENST00000280527,;CRIM1,upstream_gene_variant,,ENST00000481321,;	A	ENSG00000150938	ENST00000280527	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	CRIM1	HGNC	2359	protein_coding	YES	CCDS1783.1	ENSP00000280527	CRIM1_HUMAN	Q53TR0_HUMAN,Q53TH9_HUMAN,Q4ZG85_HUMAN,B4DUW0_HUMAN	UPI000004C628	.	.	.	.	6/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTTAGATCCA	.	2	BLCA
HEATR5B	0	.	GRCh37	2	37227737	37227737	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5537C>T	p.Ser1846Phe	p.S1846F	ENST00000233099	33/36	75	51	23	81	81	0	HEATR5B,missense_variant,p.Ser1846Phe,ENST00000233099,;HEATR5B,missense_variant,p.Ser1757Phe,ENST00000354531,;	A	ENSG00000008869	ENST00000233099	Transcript	missense_variant	5633	5537	1846	S/F	tCt/tTt	.	.	.	-1	HEATR5B	HGNC	29273	protein_coding	YES	CCDS33181.1	ENSP00000233099	HTR5B_HUMAN	.	UPI0000160DCD	.	tolerated(0.25)	benign(0.008)	33/36	.	hmmpanther:PTHR21663:SF2,hmmpanther:PTHR21663,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGAGAATAT	.	5	BLCA
EIF2AK2	0	.	GRCh37	2	37334476	37334476	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1596A>G	p.Ile532Met	p.I532M	ENST00000233057	17/17	56	38	17	77	77	0	EIF2AK2,missense_variant,p.Ile532Met,ENST00000395127,;EIF2AK2,missense_variant,p.Ile532Met,ENST00000233057,;EIF2AK2,missense_variant,p.Ile491Met,ENST00000405334,;EIF2AK2,downstream_gene_variant,,ENST00000462861,;	C	ENSG00000055332	ENST00000233057	Transcript	missense_variant	1919	1596	532	I/M	atA/atG	.	.	.	-1	EIF2AK2	HGNC	9437	protein_coding	YES	CCDS1786.1	ENSP00000233057	E2AK2_HUMAN	F8WBH4_HUMAN,C9JZT2_HUMAN,B7ZKK7_HUMAN	UPI000000D925	.	deleterious(0)	probably_damaging(0.999)	17/17	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11042:SF77,hmmpanther:PTHR11042,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTAGTATTTC	.	5	BLCA
GEMIN6	0	.	GRCh37	2	39008975	39008975	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>A	p.Glu149Lys	p.E149K	ENST00000281950	3/3	66	46	20	99	99	0	GEMIN6,missense_variant,p.Glu149Lys,ENST00000281950,;GEMIN6,3_prime_UTR_variant,,ENST00000409566,;GEMIN6,3_prime_UTR_variant,,ENST00000409011,;	A	ENSG00000152147	ENST00000281950	Transcript	missense_variant	561	445	149	E/K	Gag/Aag	.	.	.	1	GEMIN6	HGNC	20044	protein_coding	YES	CCDS1799.1	ENSP00000281950	GEMI6_HUMAN	.	UPI000006E325	.	deleterious(0)	probably_damaging(1)	3/3	.	hmmpanther:PTHR14710,Pfam_domain:PF06372	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAATGAGATT	.	5	BLCA
DHX57	0	.	GRCh37	2	39083540	39083540	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1651G>A	p.Glu551Lys	p.E551K	ENST00000295373	7/24	77	52	25	103	103	0	DHX57,missense_variant,p.Glu551Lys,ENST00000295373,;DHX57,non_coding_transcript_exon_variant,,ENST00000492042,;DHX57,downstream_gene_variant,,ENST00000479345,;DHX57,missense_variant,p.Glu449Lys,ENST00000457308,;DHX57,non_coding_transcript_exon_variant,,ENST00000474104,;DHX57,non_coding_transcript_exon_variant,,ENST00000460193,;	T	ENSG00000163214	ENST00000295373	Transcript	missense_variant	1778	1651	551	E/K	Gaa/Aaa	.	.	.	-1	DHX57	HGNC	20086	protein_coding	YES	CCDS1800.1	ENSP00000295373	DHX57_HUMAN	C9J207_HUMAN,B4DKW2_HUMAN	UPI0000231C8C	.	tolerated(0.16)	possibly_damaging(0.7)	7/24	.	hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF106,Pfam_domain:PF00270,Gene3D:3.40.50.300,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTTCTCTTT	.	5	BLCA
MAP4K3	0	.	GRCh37	2	39553393	39553393	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>C	p.Glu186Gln	p.E186Q	ENST00000263881	9/34	156	100	55	158	158	0	MAP4K3,missense_variant,p.Glu123Gln,ENST00000437545,;MAP4K3,missense_variant,p.Glu186Gln,ENST00000263881,;MAP4K3,missense_variant,p.Glu186Gln,ENST00000341681,;MAP4K3,upstream_gene_variant,,ENST00000536018,;RP11-449G16.1,upstream_gene_variant,,ENST00000609671,;MAP4K3,missense_variant,p.Leu112Phe,ENST00000429397,;MAP4K3,upstream_gene_variant,,ENST00000414968,;	G	ENSG00000011566	ENST00000263881	Transcript	missense_variant	881	556	186	E/Q	Gag/Cag	.	.	.	-1	MAP4K3	HGNC	6865	protein_coding	YES	CCDS1803.1	ENSP00000263881	M4K3_HUMAN	Q53RV1_HUMAN,H7C1A4_HUMAN,B4DSS3_HUMAN,B3KMM5_HUMAN	UPI00000747E6	.	deleterious(0)	probably_damaging(0.999)	9/34	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361:SF205,hmmpanther:PTHR24361,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,PIRSF_domain:PIRSF038172,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAACAG	.	5	BLCA
ZFP36L2	0	.	GRCh37	2	43452575	43452575	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368C>T	p.Ser123Leu	p.S123L	ENST00000282388	2/2	21	10	11	17	17	0	ZFP36L2,missense_variant,p.Ser123Leu,ENST00000282388,;THADA,intron_variant,,ENST00000330266,;AC010883.5,upstream_gene_variant,,ENST00000423354,;	A	ENSG00000152518	ENST00000282388	Transcript	missense_variant	662	368	123	S/L	tCg/tTg	.	.	.	-1	ZFP36L2	HGNC	1108	protein_coding	YES	CCDS1811.1	ENSP00000282388	TISD_HUMAN	.	UPI000013DCDA	.	deleterious(0)	possibly_damaging(0.857)	2/2	.	hmmpanther:PTHR12547,hmmpanther:PTHR12547:SF58,Pfam_domain:PF04553	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAACGAGCGG	.	5	BLCA
PPM1B	0	.	GRCh37	2	44429137	44429137	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.799G>A	p.Asp267Asn	p.D267N	ENST00000282412	2/6	45	34	11	70	70	0	PPM1B,missense_variant,p.Asp267Asn,ENST00000409432,;PPM1B,missense_variant,p.Asp267Asn,ENST00000409895,;PPM1B,missense_variant,p.Asp267Asn,ENST00000419807,;PPM1B,missense_variant,p.Asp267Asn,ENST00000282412,;PPM1B,missense_variant,p.Asp267Asn,ENST00000378551,;PPM1B,intron_variant,,ENST00000409473,;PPM1B,intron_variant,,ENST00000345249,;PPM1B,non_coding_transcript_exon_variant,,ENST00000459690,;PPM1B,non_coding_transcript_exon_variant,,ENST00000378540,;PPM1B,upstream_gene_variant,,ENST00000487286,;PPM1B,non_coding_transcript_exon_variant,,ENST00000409486,;	A	ENSG00000138032	ENST00000282412	Transcript	missense_variant	1211	799	267	D/N	Gac/Aac	.	.	.	1	PPM1B	HGNC	9276	protein_coding	YES	CCDS1817.1	ENSP00000282412	PPM1B_HUMAN	C9JIR6_HUMAN	UPI0000130FE7	.	tolerated(0.15)	benign(0.161)	2/6	.	hmmpanther:PTHR13832:SF244,hmmpanther:PTHR13832,Pfam_domain:PF00481,Gene3D:3.60.40.10,SMART_domains:SM00332,Superfamily_domains:SSF81606	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATGACCTG	.	5	BLCA
FOXN2	0	.	GRCh37	2	48602375	48602378	+	Frame_Shift_Del	DEL	AGAC	AGAC	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	AGAC	AGAC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1091_1094delACAG	p.Asp364ValfsTer50	p.D364Vfs*50	ENST00000340553	7/7	51	32	19	52	52	0	FOXN2,frameshift_variant,p.Asp364ValfsTer50,ENST00000340553,;FOXN2,downstream_gene_variant,,ENST00000413569,;	-	ENSG00000170802	ENST00000340553	Transcript	frameshift_variant	1350-1353	1089-1092	363-364	GD/X	ggAGAC/gg	.	.	.	1	FOXN2	HGNC	5281	protein_coding	YES	CCDS1838.1	ENSP00000343633	FOXN2_HUMAN	Q6IS90_HUMAN,C9JTA7_HUMAN	UPI0000226321	.	.	.	7/7	.	hmmpanther:PTHR13962,hmmpanther:PTHR13962:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCTTGGAGACAGTGG	.	3	BLCA
PPP1R21	0	.	GRCh37	2	48737173	48737173	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2105G>C	p.Arg702Thr	p.R702T	ENST00000294952	20/22	28	19	8	33	33	0	PPP1R21,missense_variant,p.Arg660Thr,ENST00000449090,;PPP1R21,missense_variant,p.Arg691Thr,ENST00000281394,;PPP1R21,missense_variant,p.Arg702Thr,ENST00000294952,;PPP1R21,non_coding_transcript_exon_variant,,ENST00000476199,;PPP1R21,3_prime_UTR_variant,,ENST00000416913,;PPP1R21,3_prime_UTR_variant,,ENST00000431614,;	C	ENSG00000162869	ENST00000294952	Transcript	missense_variant	2262	2105	702	R/T	aGa/aCa	.	.	.	1	PPP1R21	HGNC	30595	protein_coding	YES	CCDS46278.1	ENSP00000294952	PPR21_HUMAN	F8W7E1_HUMAN	UPI000015C523	.	deleterious(0)	probably_damaging(0.999)	20/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR21448,Pfam_domain:PF10212	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAAAGACTGG	.	5	BLCA
FSHR	0	.	GRCh37	2	49247259	49247259	+	Missense_Mutation	SNP	C	C	G	rs140960768	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>C	p.Asp89His	p.D89H	ENST00000406846	3/10	310	214	95	375	375	0	FSHR,missense_variant,p.Asp89His,ENST00000346173,;FSHR,missense_variant,p.Asp89His,ENST00000454032,;FSHR,missense_variant,p.Asp89His,ENST00000304421,;FSHR,missense_variant,p.Asp89His,ENST00000406846,;FSHR,missense_variant,p.Asp89His,ENST00000419927,;	G	ENSG00000170820	ENST00000406846	Transcript	missense_variant	385	265	89	D/H	Gat/Cat	rs140960768,COSM575464	.	.	-1	FSHR	HGNC	3969	protein_coding	YES	CCDS1843.1	ENSP00000384708	FSHR_HUMAN	F5GZW2_HUMAN,B6UV82_HUMAN,A5JS81_HUMAN	UPI000013E97A	.	tolerated(0.95)	benign(0.004)	3/10	.	hmmpanther:PTHR24372:SF5,hmmpanther:PTHR24372,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	A:0.0004	A:0.0015	A:0	.	A:0	A:0	A:0	A:0.0016	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCTGCCT	byFrequency|byCluster|by1000G	5	BLCA
NRXN1	0	.	GRCh37	2	50149292	50149292	+	Silent	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4434A>T	p.%3D	p.V1478V	ENST00000404971	24/24	35	29	5	57	57	0	NRXN1,synonymous_variant,p.%3D,ENST00000405472,;NRXN1,synonymous_variant,p.%3D,ENST00000401710,;NRXN1,synonymous_variant,p.%3D,ENST00000404971,;NRXN1,synonymous_variant,p.%3D,ENST00000406316,;NRXN1,synonymous_variant,p.%3D,ENST00000378262,;NRXN1,synonymous_variant,p.%3D,ENST00000401669,;NRXN1,synonymous_variant,p.%3D,ENST00000406859,;NRXN1,synonymous_variant,p.%3D,ENST00000412315,;NRXN1,synonymous_variant,p.%3D,ENST00000342183,;NRXN1,synonymous_variant,p.%3D,ENST00000402717,;NRXN1,non_coding_transcript_exon_variant,,ENST00000484192,;	A	ENSG00000179915	ENST00000404971	Transcript	synonymous_variant	5774	4434	1478	V	gtA/gtT	.	.	.	-1	NRXN1	HGNC	8008	protein_coding	YES	CCDS46282.1	ENSP00000385142	NRX1A_HUMAN	Q08AH0_HUMAN	UPI00015A218A	.	.	.	24/24	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF565,Pfam_domain:PF01034	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGGCTACTAT	.	2	BLCA
NRXN1	0	.	GRCh37	2	50779997	50779997	+	Missense_Mutation	SNP	C	C	A	rs267599409	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1607G>T	p.Trp536Leu	p.W536L	ENST00000404971	10/24	51	30	21	75	75	0	NRXN1,missense_variant,p.Trp488Leu,ENST00000405472,;NRXN1,missense_variant,p.Trp536Leu,ENST00000404971,;NRXN1,missense_variant,p.Trp496Leu,ENST00000406316,;NRXN1,missense_variant,p.Trp496Leu,ENST00000401669,;NRXN1,missense_variant,p.Trp496Leu,ENST00000406859,;NRXN1,missense_variant,p.Trp488Leu,ENST00000402717,;NRXN1,non_coding_transcript_exon_variant,,ENST00000495871,;NRXN1,non_coding_transcript_exon_variant,,ENST00000331040,;	A	ENSG00000179915	ENST00000404971	Transcript	missense_variant	2947	1607	536	W/L	tGg/tTg	rs267599409	.	.	-1	NRXN1	HGNC	8008	protein_coding	YES	CCDS46282.1	ENSP00000385142	NRX1A_HUMAN	Q08AH0_HUMAN	UPI00015A218A	.	deleterious(0.04)	probably_damaging(1)	10/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF565,Gene3D:2.60.120.200,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K539N|c.1617G>T|3,BUFFER|p.K499N|c.1497G>T|3,BUFFER|p.K539N|c.1617G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCCATTTA	.	5	BLCA
CLHC1	0	.	GRCh37	2	55402999	55402999	+	Missense_Mutation	SNP	C	C	T	rs199551105	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1688G>A	p.Arg563Gln	p.R563Q	ENST00000401408	13/13	62	45	17	92	92	0	CLHC1,missense_variant,p.Arg563Gln,ENST00000407122,;CLHC1,missense_variant,p.Arg441Gln,ENST00000406076,;CLHC1,missense_variant,p.Arg563Gln,ENST00000401408,;CLHC1,missense_variant,p.Arg114Gln,ENST00000406437,;CLHC1,non_coding_transcript_exon_variant,,ENST00000494539,;CLHC1,downstream_gene_variant,,ENST00000487320,;CLHC1,3_prime_UTR_variant,,ENST00000428621,;CLHC1,3_prime_UTR_variant,,ENST00000411884,;	T	ENSG00000162994	ENST00000401408	Transcript	missense_variant	2034	1688	563	R/Q	cGa/cAa	rs199551105	.	.	-1	CLHC1	HGNC	26453	protein_coding	YES	CCDS33201.1	ENSP00000384869	CLHC1_HUMAN	E7EVC5_HUMAN,D6W5C8_HUMAN,B5MC48_HUMAN	UPI00004DEC65	.	tolerated(0.24)	benign(0.077)	13/13	.	hmmpanther:PTHR10292,PIRSF_domain:PIRSF037469	T:0.0004	T:0	T:0	.	T:0.002	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGATCGAAGA	byFrequency|byCluster|by1000G	5	BLCA
BCL11A	0	.	GRCh37	2	60695910	60695910	+	Silent	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.444C>A	p.%3D	p.I148I	ENST00000335712	3/4	35	26	8	43	43	0	BCL11A,synonymous_variant,p.%3D,ENST00000359629,;BCL11A,synonymous_variant,p.%3D,ENST00000356842,;BCL11A,synonymous_variant,p.%3D,ENST00000335712,;BCL11A,5_prime_UTR_variant,,ENST00000537768,;BCL11A,intron_variant,,ENST00000538214,;BCL11A,intron_variant,,ENST00000358510,;BCL11A,non_coding_transcript_exon_variant,,ENST00000477659,;BCL11A,non_coding_transcript_exon_variant,,ENST00000489516,;BCL11A,non_coding_transcript_exon_variant,,ENST00000492272,;	T	ENSG00000119866	ENST00000335712	Transcript	synonymous_variant	672	444	148	I	atC/atA	.	.	.	-1	BCL11A	HGNC	13221	protein_coding	YES	CCDS1862.1	ENSP00000338774	BC11A_HUMAN	D6W5D9_HUMAN,Q53TS1_HUMAN,Q53TE8_HUMAN	UPI000013DC00	.	.	.	3/4	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGGGATTAG	.	5	BLCA
REL	0	.	GRCh37	2	61149269	61149269	+	Missense_Mutation	SNP	G	G	A	rs748568909	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1459G>A	p.Asp487Asn	p.D487N	ENST00000295025	11/11	47	31	16	69	69	0	REL,missense_variant,p.Asp455Asn,ENST00000394479,;REL,missense_variant,p.Asp487Asn,ENST00000295025,;RP11-373L24.1,upstream_gene_variant,,ENST00000589496,;	A	ENSG00000162924	ENST00000295025	Transcript	missense_variant	1779	1459	487	D/N	Gat/Aat	rs748568909	.	.	1	REL	HGNC	9954	protein_coding	YES	CCDS1864.1	ENSP00000295025	REL_HUMAN	.	UPI000013367B	.	tolerated_low_confidence(0.42)	benign(0.022)	11/11	.	hmmpanther:PTHR24169,hmmpanther:PTHR24169:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGATCCC	.	5	BLCA
REL	0	.	GRCh37	2	61149532	61149532	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1722G>A	p.Met574Ile	p.M574I	ENST00000295025	11/11	94	64	29	112	112	0	REL,missense_variant,p.Met542Ile,ENST00000394479,;REL,missense_variant,p.Met574Ile,ENST00000295025,;RP11-373L24.1,upstream_gene_variant,,ENST00000589496,;	A	ENSG00000162924	ENST00000295025	Transcript	missense_variant	2042	1722	574	M/I	atG/atA	.	.	.	1	REL	HGNC	9954	protein_coding	YES	CCDS1864.1	ENSP00000295025	REL_HUMAN	.	UPI000013367B	.	tolerated_low_confidence(0.12)	benign(0.033)	11/11	.	hmmpanther:PTHR24169,hmmpanther:PTHR24169:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGATAAA	.	5	BLCA
USP34	0	.	GRCh37	2	61541802	61541802	+	Missense_Mutation	SNP	C	C	T	rs778935383	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3460G>A	p.Glu1154Lys	p.E1154K	ENST00000398571	25/80	81	50	31	91	91	0	USP34,missense_variant,p.Glu1154Lys,ENST00000398571,;	T	ENSG00000115464	ENST00000398571	Transcript	missense_variant	3537	3460	1154	E/K	Gaa/Aaa	rs778935383	.	.	-1	USP34	HGNC	20066	protein_coding	YES	CCDS42686.1	ENSP00000381577	UBP34_HUMAN	.	UPI0000410E09	.	tolerated(0.11)	benign(0.225)	25/80	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCAAGAC	byFrequency	5	BLCA
USP34	0	.	GRCh37	2	61633080	61633080	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315G>A	p.%3D	p.L105L	ENST00000398571	3/80	107	81	25	147	147	0	USP34,synonymous_variant,p.%3D,ENST00000398571,;USP34,intron_variant,,ENST00000453133,;	T	ENSG00000115464	ENST00000398571	Transcript	synonymous_variant	392	315	105	L	ctG/ctA	.	.	.	-1	USP34	HGNC	20066	protein_coding	YES	CCDS42686.1	ENSP00000381577	UBP34_HUMAN	.	UPI0000410E09	.	.	.	3/80	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTCAGTGG	.	5	BLCA
OTX1	0	.	GRCh37	2	63282997	63282997	+	Missense_Mutation	SNP	C	C	T	rs776338153	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.611C>T	p.Ser204Leu	p.S204L	ENST00000282549	5/5	21	15	6	29	29	0	OTX1,missense_variant,p.Ser204Leu,ENST00000282549,;OTX1,missense_variant,p.Ser204Leu,ENST00000366671,;OTX1,3_prime_UTR_variant,,ENST00000405984,;OTX1,downstream_gene_variant,,ENST00000477348,;OTX1,downstream_gene_variant,,ENST00000476383,;OTX1,downstream_gene_variant,,ENST00000484066,;	T	ENSG00000115507	ENST00000282549	Transcript	missense_variant	887	611	204	S/L	tCg/tTg	rs776338153,COSM1306926	.	.	1	OTX1	HGNC	8521	protein_coding	YES	CCDS1873.1	ENSP00000282549	OTX1_HUMAN	Q9P2R2_HUMAN,B4DM62_HUMAN	UPI0000130F36	.	deleterious(0.01)	unknown(0)	5/5	.	hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF310,Pfam_domain:PF03529	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTCGTGTA	.	2	BLCA
MDH1	0	.	GRCh37	2	63816124	63816124	+	5'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000539945	.	44	21	23	47	47	0	MDH1,5_prime_UTR_variant,,ENST00000409476,;MDH1,5_prime_UTR_variant,,ENST00000436321,;MDH1,5_prime_UTR_variant,,ENST00000233114,;MDH1,5_prime_UTR_variant,,ENST00000442225,;MDH1,5_prime_UTR_variant,,ENST00000409908,;WDPCP,upstream_gene_variant,,ENST00000272321,;WDPCP,upstream_gene_variant,,ENST00000431065,;MDH1,upstream_gene_variant,,ENST00000539945,;MDH1,upstream_gene_variant,,ENST00000454035,;MDH1,upstream_gene_variant,,ENST00000544381,;MDH1,upstream_gene_variant,,ENST00000432309,;WDPCP,upstream_gene_variant,,ENST00000409562,;MDH1,non_coding_transcript_exon_variant,,ENST00000462944,;WDPCP,intron_variant,,ENST00000490935,;WDPCP,intron_variant,,ENST00000467687,;WDPCP,upstream_gene_variant,,ENST00000484073,;WDPCP,upstream_gene_variant,,ENST00000409835,;MDH1,non_coding_transcript_exon_variant,,ENST00000485781,;MDH1,non_coding_transcript_exon_variant,,ENST00000485155,;MDH1,upstream_gene_variant,,ENST00000472098,;MDH1,upstream_gene_variant,,ENST00000421012,;WDPCP,upstream_gene_variant,,ENST00000418148,;WDPCP,upstream_gene_variant,,ENST00000417238,;	A	ENSG00000014641	ENST00000539945	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	243	1	MDH1	HGNC	6970	protein_coding	YES	CCDS56121.1	ENSP00000438144	MDHC_HUMAN	C9JRL4_HUMAN,C9JF79_HUMAN	UPI0001E92A3D	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTGACTCT	.	5	BLCA
AFTPH	0	.	GRCh37	2	64808384	64808384	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2516C>T	p.Ser839Phe	p.S839F	ENST00000238855	8/10	9	6	3	15	15	0	AFTPH,missense_variant,p.Ser839Phe,ENST00000422803,;AFTPH,missense_variant,p.Ser470Phe,ENST00000409183,;AFTPH,missense_variant,p.Ser839Phe,ENST00000409933,;AFTPH,missense_variant,p.Ser839Phe,ENST00000238855,;AFTPH,intron_variant,,ENST00000238856,;RNU6-100P,downstream_gene_variant,,ENST00000516605,;AFTPH,intron_variant,,ENST00000487769,;AFTPH,non_coding_transcript_exon_variant,,ENST00000498706,;	T	ENSG00000119844	ENST00000238855	Transcript	missense_variant	2830	2516	839	S/F	tCt/tTt	COSM1318887	.	.	1	AFTPH	HGNC	25951	protein_coding	YES	CCDS46303.1	ENSP00000238855	AFTIN_HUMAN	.	UPI00003E1F8E	.	deleterious(0)	probably_damaging(0.987)	8/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16156:SF9,hmmpanther:PTHR16156	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGCTCTAGCA	.	2	BLCA
SPRED2	0	.	GRCh37	2	65541149	65541149	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.743A>T	p.Asp248Val	p.D248V	ENST00000356388	6/6	54	35	18	83	83	0	SPRED2,missense_variant,p.Asp263Val,ENST00000452315,;SPRED2,missense_variant,p.Asp248Val,ENST00000356388,;SPRED2,missense_variant,p.Asp130Val,ENST00000421087,;SPRED2,missense_variant,p.Asp245Val,ENST00000443619,;SPRED2,downstream_gene_variant,,ENST00000474228,;	A	ENSG00000198369	ENST00000356388	Transcript	missense_variant	933	743	248	D/V	gAc/gTc	.	.	.	-1	SPRED2	HGNC	17722	protein_coding	YES	CCDS33211.1	ENSP00000348753	SPRE2_HUMAN	C9J623_HUMAN	UPI000013E7B4	.	tolerated(0.11)	possibly_damaging(0.894)	6/6	.	PROSITE_profiles:PS51488,hmmpanther:PTHR11202,hmmpanther:PTHR11202:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGTCCGCG	.	5	BLCA
SPRED2	0	.	GRCh37	2	65659172	65659172	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-51G>A	.	.	ENST00000356388	1/6	14	9	5	21	21	0	SPRED2,5_prime_UTR_variant,,ENST00000356388,;SPRED2,5_prime_UTR_variant,,ENST00000440972,;AC074391.1,upstream_gene_variant,,ENST00000606978,;AC074391.1,upstream_gene_variant,,ENST00000377977,;AC074391.1,upstream_gene_variant,,ENST00000536804,;	T	ENSG00000198369	ENST00000356388	Transcript	5_prime_UTR_variant	140	.	.	.	.	.	.	.	-1	SPRED2	HGNC	17722	protein_coding	YES	CCDS33211.1	ENSP00000348753	SPRE2_HUMAN	C9J623_HUMAN	UPI000013E7B4	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTTCATCTT	.	2	BLCA
ETAA1	0	.	GRCh37	2	67631666	67631666	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1852G>A	p.Glu618Lys	p.E618K	ENST00000272342	5/6	140	100	40	169	169	0	ETAA1,missense_variant,p.Glu618Lys,ENST00000272342,;ETAA1,intron_variant,,ENST00000462772,;	A	ENSG00000143971	ENST00000272342	Transcript	missense_variant	1982	1852	618	E/K	Gaa/Aaa	.	.	.	1	ETAA1	HGNC	24648	protein_coding	YES	CCDS1882.1	ENSP00000272342	ETAA1_HUMAN	.	UPI00001414BC	.	deleterious(0)	probably_damaging(1)	5/6	.	hmmpanther:PTHR16434:SF1,hmmpanther:PTHR16434,Pfam_domain:PF15350	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTGAAAGA	.	5	BLCA
PROKR1	0	.	GRCh37	2	68882089	68882089	+	Missense_Mutation	SNP	C	C	T	rs780093103	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.563C>T	p.Thr188Met	p.T188M	ENST00000303786	3/3	56	39	16	72	72	0	PROKR1,missense_variant,p.Thr188Met,ENST00000394342,;PROKR1,missense_variant,p.Thr188Met,ENST00000303786,;	T	ENSG00000169618	ENST00000303786	Transcript	missense_variant	983	563	188	T/M	aCg/aTg	rs780093103	.	.	1	PROKR1	HGNC	4524	protein_coding	YES	CCDS1889.1	ENSP00000303775	PKR1_HUMAN	.	UPI000003EAA7	.	tolerated(0.2)	benign(0.006)	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24242,hmmpanther:PTHR24242:SF189,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGACGGTGT	byFrequency	5	BLCA
TIA1	0	.	GRCh37	2	70439845	70439845	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6G>A	.	.	ENST00000433529	13/13	126	106	20	158	158	0	TIA1,3_prime_UTR_variant,,ENST00000433529,;TIA1,3_prime_UTR_variant,,ENST00000415783,;TIA1,3_prime_UTR_variant,,ENST00000282574,;TIA1,3_prime_UTR_variant,,ENST00000445587,;TIA1,downstream_gene_variant,,ENST00000454815,;TIA1,downstream_gene_variant,,ENST00000416149,;C2orf42,intron_variant,,ENST00000470096,;TIA1,downstream_gene_variant,,ENST00000482876,;TIA1,downstream_gene_variant,,ENST00000468787,;TIA1,non_coding_transcript_exon_variant,,ENST00000486392,;TIA1,downstream_gene_variant,,ENST00000495774,;TIA1,downstream_gene_variant,,ENST00000477415,;TIA1,downstream_gene_variant,,ENST00000496096,;TIA1,downstream_gene_variant,,ENST00000484065,;TIA1,downstream_gene_variant,,ENST00000474699,;TIA1,downstream_gene_variant,,ENST00000474809,;TIA1,downstream_gene_variant,,ENST00000497672,;	T	ENSG00000116001	ENST00000433529	Transcript	3_prime_UTR_variant	1378	.	.	.	.	.	.	.	-1	TIA1	HGNC	11802	protein_coding	YES	CCDS1901.1	ENSP00000401371	TIA1_HUMAN	F8WE16_HUMAN	UPI0000410EF5	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGTCCTTAT	.	4	BLCA
ZNF638	0	.	GRCh37	2	71591363	71591363	+	Silent	SNP	G	G	A	rs746106704	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1698G>A	p.%3D	p.R566R	ENST00000409544	5/28	46	33	13	40	40	0	ZNF638,synonymous_variant,p.%3D,ENST00000409544,;ZNF638,synonymous_variant,p.%3D,ENST00000264447,;ZNF638,synonymous_variant,p.%3D,ENST00000377802,;ZNF638,synonymous_variant,p.%3D,ENST00000355812,;ZNF638,upstream_gene_variant,,ENST00000601581,;ZNF638,non_coding_transcript_exon_variant,,ENST00000410075,;ZNF638,non_coding_transcript_exon_variant,,ENST00000466975,;ZNF638,non_coding_transcript_exon_variant,,ENST00000464375,;ZNF638,non_coding_transcript_exon_variant,,ENST00000466330,;ZNF638,non_coding_transcript_exon_variant,,ENST00000494621,;ZNF638,non_coding_transcript_exon_variant,,ENST00000475743,;	A	ENSG00000075292	ENST00000409544	Transcript	synonymous_variant	2328	1698	566	R	agG/agA	rs746106704	.	.	1	ZNF638	HGNC	17894	protein_coding	YES	CCDS1917.1	ENSP00000386433	ZN638_HUMAN	Q57Z90_HUMAN,C9JWN0_HUMAN,C9JSD0_HUMAN,C9JMR2_HUMAN,C9JHV0_HUMAN,A8K583_HUMAN	UPI000013D51B	.	.	.	5/28	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15592:SF1,hmmpanther:PTHR15592	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAAGGAGATC	byFrequency	5	BLCA
CCT7	0	.	GRCh37	2	73476305	73476305	+	Missense_Mutation	SNP	A	A	G	rs756728346	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.970A>G	p.Met324Val	p.M324V	ENST00000258091	8/12	33	19	14	36	36	0	CCT7,missense_variant,p.Met237Val,ENST00000540468,;CCT7,missense_variant,p.Met324Val,ENST00000258091,;CCT7,missense_variant,p.Met196Val,ENST00000538797,;CCT7,missense_variant,p.Met280Val,ENST00000539919,;CCT7,missense_variant,p.Met120Val,ENST00000398422,;CCT7,missense_variant,p.Met224Val,ENST00000537131,;CCT7,splice_region_variant,,ENST00000473786,;CCT7,downstream_gene_variant,,ENST00000469844,;CCT7,downstream_gene_variant,,ENST00000488856,;CCT7,downstream_gene_variant,,ENST00000409924,;CCT7,downstream_gene_variant,,ENST00000461290,;	G	ENSG00000135624	ENST00000258091	Transcript	missense_variant	1111	970	324	M/V	Atg/Gtg	rs756728346	.	.	1	CCT7	HGNC	1622	protein_coding	YES	CCDS46336.1	ENSP00000258091	TCPH_HUMAN	F8WAM2_HUMAN	UPI0000136B06	.	tolerated(0.09)	benign(0.017)	8/12	.	Superfamily_domains:SSF52029,Gene3D:3.50.7.10,Pfam_domain:PF00118,TIGRFAM_domain:TIGR02345,hmmpanther:PTHR11353:SF22,hmmpanther:PTHR11353	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATGATGGTA	.	5	BLCA
ALMS1	0	.	GRCh37	2	73677620	73677620	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3963G>A	p.%3D	p.Q1321Q	ENST00000264448	8/23	178	115	62	210	210	0	ALMS1,synonymous_variant,p.%3D,ENST00000377715,;ALMS1,synonymous_variant,p.%3D,ENST00000409009,;ALMS1,synonymous_variant,p.%3D,ENST00000264448,;ALMS1,upstream_gene_variant,,ENST00000484298,;ALMS1,upstream_gene_variant,,ENST00000423048,;	A	ENSG00000116127	ENST00000264448	Transcript	synonymous_variant	4074	3963	1321	Q	caG/caA	.	.	.	1	ALMS1	HGNC	428	protein_coding	YES	CCDS42697.1	ENSP00000264448	ALMS1_HUMAN	A6NMY3_HUMAN	UPI0000212786	.	.	.	8/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCAGAAGAC	.	5	BLCA
TET3	0	.	GRCh37	2	74328888	74328888	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4568C>T	p.Pro1523Leu	p.P1523L	ENST00000409262	9/9	73	56	17	113	113	0	TET3,missense_variant,p.Pro1523Leu,ENST00000409262,;	T	ENSG00000187605	ENST00000409262	Transcript	missense_variant	4568	4568	1523	P/L	cCa/cTa	.	.	.	1	TET3	HGNC	28313	protein_coding	YES	CCDS46339.1	ENSP00000386869	TET3_HUMAN	K9JJH7_HUMAN	UPI0000DD79F5	.	deleterious(0.01)	probably_damaging(0.981)	9/9	.	hmmpanther:PTHR23358,hmmpanther:PTHR23358:SF4,Pfam_domain:PF12851	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCCCAGCCC	.	5	BLCA
WBP1	0	.	GRCh37	2	74687176	74687176	+	Missense_Mutation	SNP	C	C	T	rs372471724	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.349C>T	p.Arg117Cys	p.R117C	ENST00000233615	3/4	37	18	19	66	66	0	WBP1,missense_variant,p.Arg151Cys,ENST00000393972,;WBP1,missense_variant,p.Arg117Cys,ENST00000233615,;WBP1,missense_variant,p.Arg176Cys,ENST00000428943,;WBP1,missense_variant,p.Arg114Cys,ENST00000409737,;MOGS,downstream_gene_variant,,ENST00000414701,;MOGS,downstream_gene_variant,,ENST00000535045,;MOGS,downstream_gene_variant,,ENST00000409065,;MOGS,downstream_gene_variant,,ENST00000448666,;INO80B,downstream_gene_variant,,ENST00000409493,;INO80B,downstream_gene_variant,,ENST00000233331,;MOGS,downstream_gene_variant,,ENST00000233616,;MOGS,downstream_gene_variant,,ENST00000452063,;INO80B,downstream_gene_variant,,ENST00000431187,;INO80B,downstream_gene_variant,,ENST00000409917,;WBP1,splice_region_variant,,ENST00000466835,;WBP1,splice_region_variant,,ENST00000494741,;WBP1,splice_region_variant,,ENST00000464774,;WBP1,splice_region_variant,,ENST00000470536,;MOGS,downstream_gene_variant,,ENST00000462443,;WBP1,downstream_gene_variant,,ENST00000474185,;MOGS,downstream_gene_variant,,ENST00000489655,;INO80B,downstream_gene_variant,,ENST00000494986,;INO80B,downstream_gene_variant,,ENST00000469849,;WBP1,splice_region_variant,,ENST00000490120,;WBP1,splice_region_variant,,ENST00000484744,;INO80B,splice_region_variant,,ENST00000452361,;INO80B,splice_region_variant,,ENST00000441673,;WBP1,non_coding_transcript_exon_variant,,ENST00000473467,;INO80B,downstream_gene_variant,,ENST00000473618,;INO80B,downstream_gene_variant,,ENST00000455562,;MOGS,downstream_gene_variant,,ENST00000486036,;WBP1,downstream_gene_variant,,ENST00000466303,;INO80B,downstream_gene_variant,,ENST00000471577,;WBP1,downstream_gene_variant,,ENST00000492047,;MOGS,downstream_gene_variant,,ENST00000462189,;	T	ENSG00000239779	ENST00000233615	Transcript	missense_variant	623	349	117	R/C	Cgc/Tgc	rs372471724	.	.	1	WBP1	HGNC	12737	protein_coding	YES	CCDS1943.1	ENSP00000233615	WBP1_HUMAN	.	UPI0000138EBA	.	deleterious(0)	probably_damaging(1)	3/4	.	hmmpanther:PTHR16209,hmmpanther:PTHR16209:SF5,Pfam_domain:PF11669	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCGTGAG	byFrequency|byCluster	5	BLCA
TTC31	0	.	GRCh37	2	74718641	74718641	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718C>T	p.%3D	p.L240L	ENST00000233623	8/13	218	166	52	311	311	0	TTC31,synonymous_variant,p.%3D,ENST00000442235,;TTC31,synonymous_variant,p.%3D,ENST00000410003,;TTC31,synonymous_variant,p.%3D,ENST00000233623,;TTC31,upstream_gene_variant,,ENST00000414247,;TTC31,non_coding_transcript_exon_variant,,ENST00000463189,;TTC31,3_prime_UTR_variant,,ENST00000424122,;TTC31,3_prime_UTR_variant,,ENST00000449459,;TTC31,non_coding_transcript_exon_variant,,ENST00000491252,;TTC31,non_coding_transcript_exon_variant,,ENST00000459957,;TTC31,non_coding_transcript_exon_variant,,ENST00000489152,;TTC31,non_coding_transcript_exon_variant,,ENST00000464241,;TTC31,upstream_gene_variant,,ENST00000487623,;	T	ENSG00000115282	ENST00000233623	Transcript	synonymous_variant	725	718	240	L	Ctg/Ttg	.	.	.	1	TTC31	HGNC	25759	protein_coding	YES	CCDS42701.1	ENSP00000233623	TTC31_HUMAN	G5E9H3_HUMAN	UPI0000D611C0	.	.	.	8/13	.	hmmpanther:PTHR22904,hmmpanther:PTHR22904:SF314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCTGGCT	.	5	BLCA
DQX1	0	.	GRCh37	2	74752138	74752138	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.429C>T	p.%3D	p.L143L	ENST00000404568	3/12	77	50	27	101	101	0	DQX1,synonymous_variant,p.%3D,ENST00000404568,;DQX1,synonymous_variant,p.%3D,ENST00000393951,;DQX1,synonymous_variant,p.%3D,ENST00000451518,;HTRA2,upstream_gene_variant,,ENST00000352222,;HTRA2,upstream_gene_variant,,ENST00000258080,;AUP1,downstream_gene_variant,,ENST00000377526,;DQX1,intron_variant,,ENST00000498552,;HTRA2,upstream_gene_variant,,ENST00000462909,;HTRA2,upstream_gene_variant,,ENST00000484881,;HTRA2,upstream_gene_variant,,ENST00000467961,;DQX1,upstream_gene_variant,,ENST00000495597,;DQX1,splice_region_variant,,ENST00000473508,;AUP1,downstream_gene_variant,,ENST00000463900,;AUP1,downstream_gene_variant,,ENST00000486234,;DQX1,upstream_gene_variant,,ENST00000483555,;AUP1,downstream_gene_variant,,ENST00000462297,;DQX1,upstream_gene_variant,,ENST00000418139,;AUP1,downstream_gene_variant,,ENST00000464887,;AUP1,downstream_gene_variant,,ENST00000466894,;AUP1,downstream_gene_variant,,ENST00000425118,;AUP1,downstream_gene_variant,,ENST00000472800,;	A	ENSG00000144045	ENST00000404568	Transcript	synonymous_variant	649	429	143	L	ctC/ctT	.	.	.	-1	DQX1	HGNC	20410	protein_coding	YES	CCDS1949.2	ENSP00000384621	DQX1_HUMAN	C9J0W1_HUMAN	UPI0000208758	.	.	.	3/12	.	Superfamily_domains:SSF52540,SMART_domains:SM00487,Gene3D:3.40.50.300,hmmpanther:PTHR18934:SF108,hmmpanther:PTHR18934,PROSITE_profiles:PS51192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAGCAG	.	5	BLCA
LOXL3	0	.	GRCh37	2	74779644	74779644	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118C>G	p.Gln40Glu	p.Q40E	ENST00000264094	2/14	22	17	5	43	43	0	LOXL3,missense_variant,p.Gln40Glu,ENST00000413469,;LOXL3,missense_variant,p.Gln40Glu,ENST00000264094,;LOXL3,missense_variant,p.Gln40Glu,ENST00000409986,;LOXL3,missense_variant,p.Gln40Glu,ENST00000409249,;LOXL3,missense_variant,p.Gln40Glu,ENST00000409549,;LOXL3,missense_variant,p.Gln40Glu,ENST00000393937,;DOK1,intron_variant,,ENST00000409429,;LOXL3,upstream_gene_variant,,ENST00000420535,;DOK1,upstream_gene_variant,,ENST00000233668,;DOK1,upstream_gene_variant,,ENST00000340004,;LOXL3,non_coding_transcript_exon_variant,,ENST00000484369,;DOK1,intron_variant,,ENST00000485132,;DOK1,upstream_gene_variant,,ENST00000488613,;DOK1,upstream_gene_variant,,ENST00000480318,;DOK1,upstream_gene_variant,,ENST00000489958,;LOXL3,upstream_gene_variant,,ENST00000481835,;DOK1,upstream_gene_variant,,ENST00000496966,;DOK1,upstream_gene_variant,,ENST00000429631,;DOK1,upstream_gene_variant,,ENST00000475191,;LOXL3,upstream_gene_variant,,ENST00000470907,;DOK1,upstream_gene_variant,,ENST00000464613,;DOK1,upstream_gene_variant,,ENST00000474924,;DOK1,upstream_gene_variant,,ENST00000482206,;	C	ENSG00000115318	ENST00000264094	Transcript	missense_variant	190	118	40	Q/E	Cag/Gag	.	.	.	-1	LOXL3	HGNC	13869	protein_coding	YES	CCDS1953.1	ENSP00000264094	LOXL3_HUMAN	Q8N505_HUMAN,Q53TY1_HUMAN,Q2EHP2_HUMAN,C9J5M1_HUMAN	UPI0000044959	.	tolerated(0.65)	benign(0)	2/14	.	hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTGGCTCC	.	2	BLCA
DOK1	0	.	GRCh37	2	74783531	74783531	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736G>A	p.Glu246Lys	p.E246K	ENST00000233668	5/5	53	31	22	79	79	0	DOK1,missense_variant,p.Glu107Lys,ENST00000409429,;DOK1,missense_variant,p.Glu246Lys,ENST00000233668,;DOK1,3_prime_UTR_variant,,ENST00000340004,;LOXL3,upstream_gene_variant,,ENST00000413469,;M1AP,downstream_gene_variant,,ENST00000290536,;M1AP,downstream_gene_variant,,ENST00000536235,;LOXL3,upstream_gene_variant,,ENST00000264094,;LOXL3,upstream_gene_variant,,ENST00000409986,;M1AP,downstream_gene_variant,,ENST00000409585,;LOXL3,upstream_gene_variant,,ENST00000409249,;M1AP,downstream_gene_variant,,ENST00000358434,;LOXL3,upstream_gene_variant,,ENST00000409549,;LOXL3,upstream_gene_variant,,ENST00000393937,;DOK1,non_coding_transcript_exon_variant,,ENST00000480318,;DOK1,non_coding_transcript_exon_variant,,ENST00000489958,;DOK1,non_coding_transcript_exon_variant,,ENST00000496966,;DOK1,downstream_gene_variant,,ENST00000488613,;M1AP,downstream_gene_variant,,ENST00000485997,;LOXL3,upstream_gene_variant,,ENST00000484369,;M1AP,downstream_gene_variant,,ENST00000464686,;DOK1,downstream_gene_variant,,ENST00000485132,;DOK1,3_prime_UTR_variant,,ENST00000429631,;DOK1,non_coding_transcript_exon_variant,,ENST00000464613,;DOK1,downstream_gene_variant,,ENST00000475191,;DOK1,downstream_gene_variant,,ENST00000474924,;DOK1,downstream_gene_variant,,ENST00000482206,;	A	ENSG00000115325	ENST00000233668	Transcript	missense_variant	1405	736	246	E/K	Gag/Aag	.	.	.	1	DOK1	HGNC	2990	protein_coding	YES	CCDS1954.1	ENSP00000233668	DOK1_HUMAN	Q2TA81_HUMAN	UPI00001296A9	.	deleterious(0)	probably_damaging(0.958)	5/5	.	PROSITE_profiles:PS51064,hmmpanther:PTHR21258,hmmpanther:PTHR21258:SF46,Gene3D:2.30.29.30,Pfam_domain:PF02174,SMART_domains:SM00310,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTTGAGACT	.	5	BLCA
M1AP	0	.	GRCh37	2	74808975	74808975	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.596-1G>A	.	p.X199_splice	ENST00000290536	.	50	32	18	83	83	0	M1AP,splice_acceptor_variant,,ENST00000536235,;M1AP,splice_acceptor_variant,,ENST00000358434,;M1AP,splice_acceptor_variant,,ENST00000409585,;M1AP,splice_acceptor_variant,,ENST00000290536,;M1AP,upstream_gene_variant,,ENST00000464686,;M1AP,splice_acceptor_variant,,ENST00000422394,;M1AP,splice_acceptor_variant,,ENST00000438226,;	T	ENSG00000159374	ENST00000290536	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	M1AP	HGNC	25183	protein_coding	YES	CCDS33229.1	ENSP00000290536	M1AP_HUMAN	C9JPR9_HUMAN	UPI0000072570	.	.	.	.	4/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCTGCAA	.	4	BLCA
FUNDC2P2	0	.	GRCh37	2	84518248	84518248	+	RNA	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.443G>A	.	.	ENST00000538499	1/1	68	51	16	88	88	0	FUNDC2P2,non_coding_transcript_exon_variant,,ENST00000331369,;FUNDC2P2,non_coding_transcript_exon_variant,,ENST00000538499,;FUNDC2P2,non_coding_transcript_exon_variant,,ENST00000443452,;	A	ENSG00000182814	ENST00000538499	Transcript	non_coding_transcript_exon_variant	443	.	.	.	.	.	.	.	1	FUNDC2P2	HGNC	17247	transcribed_processed_pseudogene	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGAAGAAAGC	.	5	BLCA
GGCX	0	.	GRCh37	2	85788098	85788098	+	Silent	SNP	C	C	T	rs758710675	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54G>A	p.%3D	p.Q18Q	ENST00000233838	2/15	95	68	26	141	141	0	GGCX,synonymous_variant,p.%3D,ENST00000233838,;GGCX,intron_variant,,ENST00000430215,;VAMP8,upstream_gene_variant,,ENST00000432071,;GGCX,non_coding_transcript_exon_variant,,ENST00000496962,;GGCX,intron_variant,,ENST00000465637,;GGCX,intron_variant,,ENST00000481541,;GGCX,synonymous_variant,p.%3D,ENST00000423570,;GGCX,intron_variant,,ENST00000421496,;GGCX,intron_variant,,ENST00000428479,;	T	ENSG00000115486	ENST00000233838	Transcript	synonymous_variant	135	54	18	Q	caG/caA	rs758710675	.	.	-1	GGCX	HGNC	4247	protein_coding	YES	CCDS1978.1	ENSP00000233838	VKGC_HUMAN	.	UPI0000000DD6	.	.	.	2/15	.	hmmpanther:PTHR12639:SF5,hmmpanther:PTHR12639	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCTGTAC	byFrequency	5	BLCA
RNF103	0	.	GRCh37	2	86831412	86831412	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1612G>A	p.Asp538Asn	p.D538N	ENST00000237455	4/4	176	128	47	228	228	0	RNF103,missense_variant,p.Asp538Asn,ENST00000237455,;RNF103-CHMP3,intron_variant,,ENST00000440757,;CHMP3,intron_variant,,ENST00000439940,;RNF103-CHMP3,intron_variant,,ENST00000604011,;AC015971.2,non_coding_transcript_exon_variant,,ENST00000426549,;AC015971.2,intron_variant,,ENST00000439077,;AC015971.2,intron_variant,,ENST00000597638,;AC015971.2,upstream_gene_variant,,ENST00000424788,;RNF103,downstream_gene_variant,,ENST00000477307,;RNF103,downstream_gene_variant,,ENST00000463333,;RNF103,non_coding_transcript_exon_variant,,ENST00000472030,;	T	ENSG00000239305	ENST00000237455	Transcript	missense_variant	2581	1612	538	D/N	Gac/Aac	.	.	.	-1	RNF103	HGNC	12859	protein_coding	YES	CCDS33237.1	ENSP00000237455	RN103_HUMAN	.	UPI0000073F2A	.	tolerated(0.29)	benign(0.037)	4/4	.	hmmpanther:PTHR15302,hmmpanther:PTHR15302:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAGTCATTTT	.	5	BLCA
ITGB1BP1	0	.	GRCh37	2	9547568	9547568	+	Intron	SNP	G	G	A	rs199860614	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531+10C>T	.	.	ENST00000360635	.	30	20	9	48	48	0	ITGB1BP1,missense_variant,p.Arg181Cys,ENST00000359712,;ITGB1BP1,missense_variant,p.Arg181Cys,ENST00000456913,;ITGB1BP1,intron_variant,,ENST00000360635,;ITGB1BP1,intron_variant,,ENST00000488451,;ITGB1BP1,intron_variant,,ENST00000238091,;ITGB1BP1,intron_variant,,ENST00000355346,;ITGB1BP1,downstream_gene_variant,,ENST00000467606,;ITGB1BP1,downstream_gene_variant,,ENST00000497105,;ITGB1BP1,downstream_gene_variant,,ENST00000494563,;ITGB1BP1,downstream_gene_variant,,ENST00000484735,;ASAP2,downstream_gene_variant,,ENST00000281419,;ASAP2,downstream_gene_variant,,ENST00000315273,;ITGB1BP1,downstream_gene_variant,,ENST00000460001,;ITGB1BP1,downstream_gene_variant,,ENST00000492079,;ITGB1BP1,intron_variant,,ENST00000497031,;ITGB1BP1,intron_variant,,ENST00000490426,;ITGB1BP1,downstream_gene_variant,,ENST00000482798,;ITGB1BP1,intron_variant,,ENST00000464228,;ITGB1BP1,intron_variant,,ENST00000465527,;ITGB1BP1,intron_variant,,ENST00000460720,;ITGB1BP1,intron_variant,,ENST00000470507,;ITGB1BP1,intron_variant,,ENST00000483795,;ASAP2,downstream_gene_variant,,ENST00000484590,;ITGB1BP1,downstream_gene_variant,,ENST00000463190,;	A	ENSG00000119185	ENST00000360635	Transcript	intron_variant	.	.	.	.	.	rs199860614	.	.	-1	ITGB1BP1	HGNC	23927	protein_coding	YES	CCDS1662.1	ENSP00000353850	ITBP1_HUMAN	C9JZ07_HUMAN,C9JBU8_HUMAN,C9J6Y2_HUMAN,C9J5T5_HUMAN,C9J0J6_HUMAN,C9IZZ8_HUMAN	UPI000012DA43	.	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAACGAAGTC	byCluster	5	BLCA
ASTL	0	.	GRCh37	2	96803435	96803435	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.60G>A	p.%3D	p.V20V	ENST00000342380	2/9	58	50	8	81	81	0	ASTL,synonymous_variant,p.%3D,ENST00000342380,;ASTL,non_coding_transcript_exon_variant,,ENST00000470582,;	T	ENSG00000188886	ENST00000342380	Transcript	synonymous_variant	60	60	20	V	gtG/gtA	.	.	.	-1	ASTL	HGNC	31704	protein_coding	YES	CCDS33249.1	ENSP00000343674	ASTL_HUMAN	.	UPI0000161978	.	.	.	2/9	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Cleavage_site_(Signalp):SignalP-noTM	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGATCACACC	.	2	BLCA
DUSP2	0	.	GRCh37	2	96809649	96809649	+	Silent	SNP	G	G	A	rs147952657	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858C>T	p.%3D	p.F286F	ENST00000288943	4/4	12	9	3	25	25	0	DUSP2,synonymous_variant,p.%3D,ENST00000288943,;AC012307.2,downstream_gene_variant,,ENST00000449242,;DUSP2,non_coding_transcript_exon_variant,,ENST00000488952,;	A	ENSG00000158050	ENST00000288943	Transcript	synonymous_variant	944	858	286	F	ttC/ttT	rs147952657,COSM3584067	.	.	-1	DUSP2	HGNC	3068	protein_coding	YES	CCDS2016.1	ENSP00000288943	DUS2_HUMAN	.	UPI000012995D	.	.	.	4/4	.	PROSITE_profiles:PS50056,PROSITE_profiles:PS50054,hmmpanther:PTHR10159:SF109,hmmpanther:PTHR10159,Gene3D:3.90.190.10,Pfam_domain:PF00782,SMART_domains:SM00195,SMART_domains:SM00404,PIRSF_domain:PIRSF000939,Superfamily_domains:SSF52799	A:0.0004	A:0	A:0.0014	.	A:0	A:0.001	A:0	A:0	A:0.0006	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAACGAAGTC	byFrequency|byCluster|by1000G	2	BLCA
ADAM17	0	.	GRCh37	2	9683294	9683294	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218C>T	p.Ser73Leu	p.S73L	ENST00000310823	2/19	69	53	15	69	69	0	ADAM17,missense_variant,p.Ser73Leu,ENST00000497134,;ADAM17,missense_variant,p.Ser73Leu,ENST00000310823,;ADAM17,non_coding_transcript_exon_variant,,ENST00000478059,;	A	ENSG00000151694	ENST00000310823	Transcript	missense_variant	401	218	73	S/L	tCa/tTa	.	.	.	-1	ADAM17	HGNC	195	protein_coding	YES	CCDS1665.1	ENSP00000309968	ADA17_HUMAN	Q53S40_HUMAN,Q53RS1_HUMAN,Q53RF5_HUMAN,B2RNB2_HUMAN	UPI00001254D4	.	tolerated(0.05)	benign(0.07)	2/19	.	hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF121,Pfam_domain:PF01562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAAAAA	.	5	BLCA
ADAM17	0	.	GRCh37	2	9683393	9683393	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.119C>T	p.Ser40Leu	p.S40L	ENST00000310823	2/19	45	30	15	45	44	1	ADAM17,missense_variant,p.Ser40Leu,ENST00000497134,;ADAM17,missense_variant,p.Ser40Leu,ENST00000310823,;ADAM17,non_coding_transcript_exon_variant,,ENST00000478059,;	A	ENSG00000151694	ENST00000310823	Transcript	missense_variant	302	119	40	S/L	tCa/tTa	COSM51917	.	.	-1	ADAM17	HGNC	195	protein_coding	YES	CCDS1665.1	ENSP00000309968	ADA17_HUMAN	Q53S40_HUMAN,Q53RS1_HUMAN,Q53RF5_HUMAN,B2RNB2_HUMAN	UPI00001254D4	.	deleterious(0.04)	probably_damaging(0.915)	2/19	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF121	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AGTCTGAGAGC	.	4	BLCA
SNRNP200	0	.	GRCh37	2	96959085	96959085	+	Missense_Mutation	SNP	G	G	A	rs749791210	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2005C>T	p.Pro669Ser	p.P669S	ENST00000323853	15/45	69	47	22	103	102	0	SNRNP200,missense_variant,p.Pro669Ser,ENST00000323853,;SNRNP200,intron_variant,,ENST00000349783,;SNRNP200,upstream_gene_variant,,ENST00000480615,;	A	ENSG00000144028	ENST00000323853	Transcript	missense_variant	2083	2005	669	P/S	Cct/Tct	rs749791210	.	.	-1	SNRNP200	HGNC	30859	protein_coding	YES	CCDS2020.1	ENSP00000317123	U520_HUMAN	Q9P172_HUMAN,Q7L5W4_HUMAN,Q5ZF01_HUMAN,A4FU77_HUMAN,A2RRQ7_HUMAN	UPI0000207C53	.	tolerated(0.07)	benign(0.103)	15/45	.	PROSITE_profiles:PS51192,hmmpanther:PTHR11752:SF55,hmmpanther:PTHR11752,SMART_domains:SM00487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCAGGGTCAA	byFrequency	5	BLCA
CNNM4	0	.	GRCh37	2	97474370	97474370	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2021C>T	p.Ser674Leu	p.S674L	ENST00000377075	6/7	46	33	12	44	44	0	CNNM4,missense_variant,p.Ser161Leu,ENST00000540067,;CNNM4,missense_variant,p.Ser674Leu,ENST00000377075,;RP11-353K11.1,downstream_gene_variant,,ENST00000608609,;CNNM4,non_coding_transcript_exon_variant,,ENST00000496186,;	T	ENSG00000158158	ENST00000377075	Transcript	missense_variant	2119	2021	674	S/L	tCa/tTa	.	.	.	1	CNNM4	HGNC	105	protein_coding	YES	CCDS2024.2	ENSP00000366275	CNNM4_HUMAN	.	UPI0000207C95	.	tolerated(0.39)	benign(0.001)	6/7	.	hmmpanther:PTHR12064:SF26,hmmpanther:PTHR12064	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCTCAACTG	.	5	BLCA
SEMA4C	0	.	GRCh37	2	97529867	97529867	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1126C>T	p.Arg376Trp	p.R376W	ENST00000305476	11/15	24	14	10	49	49	0	SEMA4C,missense_variant,p.Arg376Trp,ENST00000305476,;SEMA4C,downstream_gene_variant,,ENST00000442264,;SEMA4C,downstream_gene_variant,,ENST00000449330,;SEMA4C,non_coding_transcript_exon_variant,,ENST00000482925,;SEMA4C,upstream_gene_variant,,ENST00000467747,;SEMA4C,upstream_gene_variant,,ENST00000474420,;	A	ENSG00000168758	ENST00000305476	Transcript	missense_variant	1259	1126	376	R/W	Cgg/Tgg	.	.	.	-1	SEMA4C	HGNC	10731	protein_coding	YES	CCDS2029.1	ENSP00000306844	SEM4C_HUMAN	Q8NBN9_HUMAN,Q6P5A5_HUMAN,Q53RE7_HUMAN,C9JV89_HUMAN,C9J4M7_HUMAN	UPI00001A7981	.	deleterious(0)	probably_damaging(0.989)	11/15	.	PROSITE_profiles:PS51004,hmmpanther:PTHR11036:SF16,hmmpanther:PTHR11036,Gene3D:2.130.10.10,Pfam_domain:PF01403,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCCGATGCC	.	5	BLCA
ZAP70	0	.	GRCh37	2	98351852	98351852	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1222G>A	p.Glu408Lys	p.E408K	ENST00000264972	10/14	111	74	36	134	134	0	ZAP70,missense_variant,p.Glu282Lys,ENST00000442208,;ZAP70,missense_variant,p.Glu101Lys,ENST00000451498,;ZAP70,missense_variant,p.Glu408Lys,ENST00000264972,;ZAP70,non_coding_transcript_exon_variant,,ENST00000463643,;ZAP70,non_coding_transcript_exon_variant,,ENST00000487283,;ZAP70,non_coding_transcript_exon_variant,,ENST00000495754,;ZAP70,downstream_gene_variant,,ENST00000498836,;ZAP70,downstream_gene_variant,,ENST00000483781,;ZAP70,upstream_gene_variant,,ENST00000489250,;	A	ENSG00000115085	ENST00000264972	Transcript	missense_variant	1437	1222	408	E/K	Gag/Aag	.	.	.	1	ZAP70	HGNC	12858	protein_coding	YES	CCDS33254.1	ENSP00000264972	ZAP70_HUMAN	B4E0E2_HUMAN	UPI000013C370	.	deleterious(0.01)	possibly_damaging(0.705)	10/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418:SF80,hmmpanther:PTHR24418,Pfam_domain:PF07714,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000604,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGAGGCC	.	5	BLCA
VWA3B	0	.	GRCh37	2	98779314	98779314	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.989G>A	p.Gly330Glu	p.G330E	ENST00000477737	8/28	28	25	3	22	22	0	VWA3B,missense_variant,p.Gly180Glu,ENST00000451075,;VWA3B,missense_variant,p.Gly330Glu,ENST00000477737,;VWA3B,missense_variant,p.Gly330Glu,ENST00000435344,;VWA3B,missense_variant,p.Gly330Glu,ENST00000416277,;VWA3B,missense_variant,p.Gly330Glu,ENST00000433678,;VWA3B,missense_variant,p.Glu235Lys,ENST00000448638,;VWA3B,splice_region_variant,,ENST00000422503,;VWA3B,splice_region_variant,,ENST00000409460,;VWA3B,splice_region_variant,,ENST00000432242,;	A	ENSG00000168658	ENST00000477737	Transcript	missense_variant	1193	989	330	G/E	gGa/gAa	.	.	.	1	VWA3B	HGNC	28385	protein_coding	YES	CCDS42718.1	ENSP00000417955	VWA3B_HUMAN	Q53RD3_HUMAN	UPI0000E9B173	.	tolerated(0.05)	probably_damaging(1)	8/28	.	hmmpanther:PTHR10338,hmmpanther:PTHR10338:SF104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTAGGAGCTG	.	2	BLCA
TBC1D23	0	.	GRCh37	3	100038017	100038017	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1792G>A	p.Glu598Lys	p.E598K	ENST00000394144	17/19	63	40	22	72	72	0	TBC1D23,missense_variant,p.Glu583Lys,ENST00000344949,;TBC1D23,missense_variant,p.Glu598Lys,ENST00000394144,;TBC1D23,missense_variant,p.Glu461Lys,ENST00000475134,;TBC1D23,non_coding_transcript_exon_variant,,ENST00000471273,;TBC1D23,non_coding_transcript_exon_variant,,ENST00000486274,;	A	ENSG00000036054	ENST00000394144	Transcript	missense_variant	1799	1792	598	E/K	Gaa/Aaa	COSM3845625,COSM3845624	.	.	1	TBC1D23	HGNC	25622	protein_coding	YES	CCDS56265.1	ENSP00000377700	TBC23_HUMAN	B3KS68_HUMAN	UPI000013D5E5	.	deleterious(0)	probably_damaging(0.93)	17/19	.	hmmpanther:PTHR13297	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAAAGAAGTA	.	5	BLCA
TOMM70A	0	.	GRCh37	3	100103377	100103377	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681A>T	p.Leu227Phe	p.L227F	ENST00000284320	4/12	88	60	27	84	84	0	TOMM70A,missense_variant,p.Leu227Phe,ENST00000284320,;TOMM70A,upstream_gene_variant,,ENST00000492171,;	A	ENSG00000154174	ENST00000284320	Transcript	missense_variant	1130	681	227	L/F	ttA/ttT	.	.	.	-1	TOMM70A	HGNC	11985	protein_coding	YES	CCDS33807.1	ENSP00000284320	TOM70_HUMAN	B4DZ87_HUMAN,B3KQK5_HUMAN,B3KQK0_HUMAN	UPI0000000C55	.	tolerated(0.14)	benign(0.312)	4/12	.	hmmpanther:PTHR22904:SF178,hmmpanther:PTHR22904,PROSITE_profiles:PS50293	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGGCTAACAG	.	5	BLCA
GPR128	0	.	GRCh37	3	100354654	100354654	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.581G>A	p.Arg194Lys	p.R194K	ENST00000273352	5/16	38	23	14	61	61	0	GPR128,missense_variant,p.Arg194Lys,ENST00000273352,;GPR128,5_prime_UTR_variant,,ENST00000475887,;GPR128,non_coding_transcript_exon_variant,,ENST00000493081,;GPR128,non_coding_transcript_exon_variant,,ENST00000481361,;	A	ENSG00000144820	ENST00000273352	Transcript	missense_variant	849	581	194	R/K	aGa/aAa	COSM3845630	.	.	1	GPR128	HGNC	19241	protein_coding	YES	CCDS2938.1	ENSP00000273352	GP128_HUMAN	Q6ZMH0_HUMAN	UPI000004B6DF	.	tolerated(0.34)	benign(0.164)	5/16	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF43	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCAGAAATG	.	5	BLCA
RPL24	0	.	GRCh37	3	101401679	101401679	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>A	p.Asp89Asn	p.D89N	ENST00000394077	4/6	63	43	19	96	96	0	RPL24,missense_variant,p.Asp89Asn,ENST00000495401,;RPL24,missense_variant,p.Asp89Asn,ENST00000469605,;RPL24,missense_variant,p.Asp89Asn,ENST00000394077,;ZBTB11-AS1,downstream_gene_variant,,ENST00000609682,;RPL24,non_coding_transcript_exon_variant,,ENST00000464595,;RPL24,non_coding_transcript_exon_variant,,ENST00000488288,;RPL24,downstream_gene_variant,,ENST00000470961,;	T	ENSG00000114391	ENST00000394077	Transcript	missense_variant	371	265	89	D/N	Gat/Aat	.	.	.	-1	RPL24	HGNC	10325	protein_coding	YES	CCDS33809.1	ENSP00000377640	RL24_HUMAN	.	UPI0000001688	.	tolerated(0.21)	benign(0.005)	4/6	.	hmmpanther:PTHR10792	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATCAGCAA	.	5	BLCA
TATDN2	0	.	GRCh37	3	10291281	10291281	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>A	p.Glu133Lys	p.E133K	ENST00000287652	2/8	47	33	14	68	68	0	TATDN2,missense_variant,p.Glu133Lys,ENST00000448281,;TATDN2,missense_variant,p.Glu133Lys,ENST00000287652,;RP11-438J1.1,missense_variant,p.Glu76Lys,ENST00000450534,;RP11-438J1.1,missense_variant,p.Glu76Lys,ENST00000437082,;	A	ENSG00000157014	ENST00000287652	Transcript	missense_variant	1448	397	133	E/K	Gaa/Aaa	.	.	.	1	TATDN2	HGNC	28988	protein_coding	YES	CCDS33698.1	ENSP00000287652	TATD2_HUMAN	H7BZJ2_HUMAN	UPI000013DEC1	.	tolerated(0.13)	benign(0.126)	2/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10060,hmmpanther:PTHR10060:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGGAAGCC	.	5	BLCA
IFT57	0	.	GRCh37	3	107881390	107881390	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1224G>A	p.%3D	p.E408E	ENST00000264538	11/11	58	36	21	86	86	0	IFT57,synonymous_variant,p.%3D,ENST00000264538,;IFT57,downstream_gene_variant,,ENST00000468021,;IFT57,downstream_gene_variant,,ENST00000478157,;	T	ENSG00000114446	ENST00000264538	Transcript	synonymous_variant	1472	1224	408	E	gaG/gaA	.	.	.	-1	IFT57	HGNC	17367	protein_coding	YES	CCDS2951.1	ENSP00000264538	IFT57_HUMAN	.	UPI0000039E8B	.	.	.	11/11	.	hmmpanther:PTHR16011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCTCCTT	.	5	BLCA
MYH15	0	.	GRCh37	3	108139941	108139941	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3883G>A	p.Glu1295Lys	p.E1295K	ENST00000273353	29/42	111	72	39	144	144	0	MYH15,missense_variant,p.Glu1295Lys,ENST00000273353,;MYH15,non_coding_transcript_exon_variant,,ENST00000478998,;	T	ENSG00000144821	ENST00000273353	Transcript	missense_variant	3940	3883	1295	E/K	Gag/Aag	.	.	.	-1	MYH15	HGNC	31073	protein_coding	YES	CCDS43127.1	ENSP00000273353	MYH15_HUMAN	H9XFA0_HUMAN	UPI0000253B6F	.	deleterious(0)	possibly_damaging(0.859)	29/42	.	Superfamily_domains:SSF90257,Pfam_domain:PF01576,hmmpanther:PTHR13140:SF263,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCACTCC	.	5	BLCA
MYH15	0	.	GRCh37	3	108140037	108140037	+	Silent	SNP	G	G	A	rs781200673	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3787C>T	p.%3D	p.L1263L	ENST00000273353	29/42	122	75	47	126	126	0	MYH15,synonymous_variant,p.%3D,ENST00000273353,;MYH15,non_coding_transcript_exon_variant,,ENST00000478998,;	A	ENSG00000144821	ENST00000273353	Transcript	synonymous_variant	3844	3787	1263	L	Cta/Tta	rs781200673	.	.	-1	MYH15	HGNC	31073	protein_coding	YES	CCDS43127.1	ENSP00000273353	MYH15_HUMAN	H9XFA0_HUMAN	UPI0000253B6F	.	.	.	29/42	.	Superfamily_domains:SSF90257,Pfam_domain:PF01576,hmmpanther:PTHR13140:SF263,hmmpanther:PTHR13140,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATAGAGTAC	.	5	BLCA
MYH15	0	.	GRCh37	3	108147552	108147552	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3549C>T	p.%3D	p.F1183F	ENST00000273353	28/42	70	47	22	73	73	0	MYH15,synonymous_variant,p.%3D,ENST00000273353,;MYH15,non_coding_transcript_exon_variant,,ENST00000478998,;	A	ENSG00000144821	ENST00000273353	Transcript	synonymous_variant	3606	3549	1183	F	ttC/ttT	.	.	.	-1	MYH15	HGNC	31073	protein_coding	YES	CCDS43127.1	ENSP00000273353	MYH15_HUMAN	H9XFA0_HUMAN	UPI0000253B6F	.	.	.	28/42	.	Superfamily_domains:SSF90257,Pfam_domain:PF01576,hmmpanther:PTHR13140:SF263,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTGGAATTT	.	5	BLCA
DZIP3	0	.	GRCh37	3	108407485	108407485	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3316C>T	p.His1106Tyr	p.H1106Y	ENST00000361582	30/33	55	38	16	61	61	0	DZIP3,missense_variant,p.His1106Tyr,ENST00000463306,;DZIP3,missense_variant,p.His1106Tyr,ENST00000361582,;DZIP3,3_prime_UTR_variant,,ENST00000495008,;	T	ENSG00000198919	ENST00000361582	Transcript	missense_variant	3546	3316	1106	H/Y	Cat/Tat	.	.	.	1	DZIP3	HGNC	30938	protein_coding	YES	CCDS2952.1	ENSP00000355028	DZIP3_HUMAN	Q5MY58_HUMAN,D3DN61_HUMAN,C9JRX4_HUMAN,C9J9M8_HUMAN,C9J702_HUMAN	UPI000006E7D4	.	tolerated(0.13)	benign(0.001)	30/33	.	hmmpanther:PTHR12477:SF15,hmmpanther:PTHR12477	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGTCATTCT	.	5	BLCA
DZIP3	0	.	GRCh37	3	108407769	108407769	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3514C>T	p.Gln1172Ter	p.Q1172*	ENST00000361582	31/33	26	15	11	30	30	0	DZIP3,stop_gained,p.Gln1172Ter,ENST00000463306,;DZIP3,stop_gained,p.Gln1172Ter,ENST00000361582,;DZIP3,splice_region_variant,,ENST00000495008,;	T	ENSG00000198919	ENST00000361582	Transcript	stop_gained	3744	3514	1172	Q/*	Cag/Tag	.	.	.	1	DZIP3	HGNC	30938	protein_coding	YES	CCDS2952.1	ENSP00000355028	DZIP3_HUMAN	Q5MY58_HUMAN,D3DN61_HUMAN,C9JRX4_HUMAN,C9J9M8_HUMAN,C9J702_HUMAN	UPI000006E7D4	.	.	.	31/33	.	PROSITE_profiles:PS50089,hmmpanther:PTHR12477:SF15,hmmpanther:PTHR12477,Gene3D:3.30.40.10,Pfam_domain:PF13639,SMART_domains:SM00184,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTCAGGTA	.	5	BLCA
CCDC80	0	.	GRCh37	3	112328866	112328866	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2384C>T	p.Ser795Leu	p.S795L	ENST00000206423	6/8	32	21	10	49	49	0	CCDC80,missense_variant,p.Ser193Leu,ENST00000461431,;CCDC80,missense_variant,p.Ser73Leu,ENST00000479368,;CCDC80,missense_variant,p.Ser795Leu,ENST00000206423,;CCDC80,missense_variant,p.Ser795Leu,ENST00000439685,;	A	ENSG00000091986	ENST00000206423	Transcript	missense_variant	3338	2384	795	S/L	tCa/tTa	.	.	.	-1	CCDC80	HGNC	30649	protein_coding	YES	CCDS2968.1	ENSP00000206423	CCD80_HUMAN	.	UPI000004EE7F	.	tolerated(0.12)	possibly_damaging(0.823)	6/8	.	Pfam_domain:PF13778,hmmpanther:PTHR19325	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTGAATAG	.	5	BLCA
WDR52	0	.	GRCh37	3	113118784	113118784	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1538G>A	p.Gly513Glu	p.G513E	ENST00000393845	13/35	136	95	41	165	165	0	WDR52,missense_variant,p.Gly513Glu,ENST00000393845,;WDR52,missense_variant,p.Gly513Glu,ENST00000295868,;WDR52-AS1,upstream_gene_variant,,ENST00000473329,;WDR52-AS1,upstream_gene_variant,,ENST00000498480,;WDR52,upstream_gene_variant,,ENST00000475568,;WDR52,3_prime_UTR_variant,,ENST00000488854,;WDR52,downstream_gene_variant,,ENST00000465186,;WDR52,downstream_gene_variant,,ENST00000489938,;	T	ENSG00000206530	ENST00000393845	Transcript	missense_variant	1605	1538	513	G/E	gGa/gAa	.	.	.	-1	WDR52	HGNC	25631	protein_coding	YES	CCDS54624.1	ENSP00000377428	WDR52_HUMAN	C9K0A4_HUMAN	UPI0000367198	.	deleterious(0)	possibly_damaging(0.898)	13/35	.	PROSITE_profiles:PS50294,hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF18,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCCTTGT	.	5	BLCA
SPICE1	0	.	GRCh37	3	113207822	113207823	+	Frame_Shift_Del	DEL	AG	AG	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	AG	AG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.580_581delCT	p.Leu194LysfsTer5	p.L194Kfs*5	ENST00000295872	7/18	39	29	10	73	73	0	SPICE1,frameshift_variant,p.Leu194LysfsTer5,ENST00000295872,;SPICE1,frameshift_variant,p.Leu6LysfsTer5,ENST00000467618,;SPICE1,downstream_gene_variant,,ENST00000495812,;SPICE1,downstream_gene_variant,,ENST00000480527,;SPICE1,non_coding_transcript_exon_variant,,ENST00000496105,;	-	ENSG00000163611	ENST00000295872	Transcript	frameshift_variant	840-841	580-581	194	L/X	CTa/a	.	.	.	-1	SPICE1	HGNC	25083	protein_coding	YES	CCDS2973.1	ENSP00000295872	SPICE_HUMAN	C9J5T2_HUMAN,C9J4W3_HUMAN,C9IZF0_HUMAN	UPI000007328D	.	.	.	7/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31167,hmmpanther:PTHR31167:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAGTTTAGAGAGT	.	3	BLCA
KIAA1407	0	.	GRCh37	3	113753885	113753885	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705G>A	p.%3D	p.K235K	ENST00000295878	6/17	97	68	29	123	123	0	KIAA1407,synonymous_variant,p.%3D,ENST00000491000,;KIAA1407,synonymous_variant,p.%3D,ENST00000545063,;KIAA1407,synonymous_variant,p.%3D,ENST00000295878,;QTRTD1,intron_variant,,ENST00000472599,;KIAA1407,downstream_gene_variant,,ENST00000483766,;KIAA1407,3_prime_UTR_variant,,ENST00000460813,;KIAA1407,non_coding_transcript_exon_variant,,ENST00000481358,;KIAA1407,downstream_gene_variant,,ENST00000463695,;	T	ENSG00000163617	ENST00000295878	Transcript	synonymous_variant	852	705	235	K	aaG/aaA	.	.	.	-1	KIAA1407	HGNC	29272	protein_coding	YES	CCDS2977.1	ENSP00000295878	K1407_HUMAN	.	UPI00000732E9	.	.	.	6/17	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR22028:SF3,hmmpanther:PTHR22028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCTTCTC	.	5	BLCA
ZBTB20	0	.	GRCh37	3	114069392	114069392	+	Silent	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1533C>G	p.%3D	p.L511L	ENST00000474710	4/5	55	40	14	69	69	0	ZBTB20,synonymous_variant,p.%3D,ENST00000481632,;ZBTB20,synonymous_variant,p.%3D,ENST00000462705,;ZBTB20,synonymous_variant,p.%3D,ENST00000471418,;ZBTB20,synonymous_variant,p.%3D,ENST00000357258,;ZBTB20,synonymous_variant,p.%3D,ENST00000474710,;ZBTB20,synonymous_variant,p.%3D,ENST00000464560,;ZBTB20,synonymous_variant,p.%3D,ENST00000393785,;ZBTB20,downstream_gene_variant,,ENST00000470311,;ZBTB20-AS1,upstream_gene_variant,,ENST00000475939,;ZBTB20-AS1,upstream_gene_variant,,ENST00000467304,;ZBTB20-AS1,upstream_gene_variant,,ENST00000496219,;ZBTB20,intron_variant,,ENST00000479879,;	C	ENSG00000181722	ENST00000474710	Transcript	synonymous_variant	1712	1533	511	L	ctC/ctG	.	.	.	-1	ZBTB20	HGNC	13503	protein_coding	YES	CCDS54626.1	ENSP00000419153	ZBT20_HUMAN	C9JCX0_HUMAN	UPI0000141957	.	.	.	4/5	.	hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF351	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAAGAGGGC	.	5	BLCA
C3orf30	0	.	GRCh37	3	118865051	118865051	+	Silent	SNP	G	G	A	rs544075814	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.15G>A	p.%3D	p.P5P	ENST00000295622	1/3	15	10	5	21	21	0	C3orf30,synonymous_variant,p.%3D,ENST00000295622,;IGSF11,upstream_gene_variant,,ENST00000425327,;C3orf30,upstream_gene_variant,,ENST00000492792,;RP11-484M3.5,upstream_gene_variant,,ENST00000490594,;IGSF11,upstream_gene_variant,,ENST00000354673,;C3orf30,upstream_gene_variant,,ENST00000460150,;C3orf30,upstream_gene_variant,,ENST00000473121,;IGSF11,upstream_gene_variant,,ENST00000441144,;IGSF11,upstream_gene_variant,,ENST00000494802,;C3orf30,synonymous_variant,p.%3D,ENST00000494105,;	A	ENSG00000163424	ENST00000295622	Transcript	synonymous_variant	55	15	5	P	ccG/ccA	rs544075814	.	.	1	C3orf30	HGNC	26553	protein_coding	YES	CCDS2984.1	ENSP00000295622	CC030_HUMAN	.	UPI000013E280	.	.	.	1/3	.	Low_complexity_(Seg):seg	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCCGCAAGA	by1000G	5	BLCA
POGLUT1	0	.	GRCh37	3	119211199	119211199	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1093G>A	p.Glu365Lys	p.E365K	ENST00000295588	11/11	49	38	11	81	81	0	POGLUT1,missense_variant,p.Glu365Lys,ENST00000295588,;POGLUT1,3_prime_UTR_variant,,ENST00000486607,;POGLUT1,non_coding_transcript_exon_variant,,ENST00000473648,;POGLUT1,downstream_gene_variant,,ENST00000497447,;	A	ENSG00000163389	ENST00000295588	Transcript	missense_variant	1177	1093	365	E/K	Gaa/Aaa	COSM1036744	.	.	1	POGLUT1	HGNC	22954	protein_coding	YES	CCDS2988.1	ENSP00000295588	PGLT1_HUMAN	B4DJ97_HUMAN	UPI000003B0C3	.	tolerated(0.5)	benign(0.021)	11/11	.	hmmpanther:PTHR12203,Pfam_domain:PF05686,SMART_domains:SM00672	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGTGAATAC	.	5	BLCA
POLQ	0	.	GRCh37	3	121207058	121207058	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4720G>C	p.Asp1574His	p.D1574H	ENST00000264233	16/30	125	76	49	120	120	0	POLQ,missense_variant,p.Asp1574His,ENST00000264233,;	G	ENSG00000051341	ENST00000264233	Transcript	missense_variant	4849	4720	1574	D/H	Gat/Cat	.	.	.	-1	POLQ	HGNC	9186	protein_coding	YES	CCDS33833.1	ENSP00000264233	DPOLQ_HUMAN	.	UPI0000D61B5F	.	deleterious(0.02)	possibly_damaging(0.546)	16/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATATCCACAT	.	5	BLCA
GOLGB1	0	.	GRCh37	3	121437248	121437248	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.872A>T	p.Glu291Val	p.E291V	ENST00000393667	8/22	29	17	11	60	60	0	GOLGB1,missense_variant,p.Glu291Val,ENST00000393667,;GOLGB1,missense_variant,p.Glu286Val,ENST00000340645,;GOLGB1,missense_variant,p.Glu250Val,ENST00000494517,;GOLGB1,missense_variant,p.Glu157Val,ENST00000489400,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;	A	ENSG00000173230	ENST00000393667	Transcript	missense_variant	983	872	291	E/V	gAg/gTg	.	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	possibly_damaging(0.756)	8/22	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGCTCAGCA	.	5	BLCA
KPNA1	0	.	GRCh37	3	122168493	122168493	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.845C>T	p.Ser282Leu	p.S282L	ENST00000344337	9/14	50	33	16	64	64	0	KPNA1,missense_variant,p.Ser282Leu,ENST00000344337,;KPNA1,missense_variant,p.Ser282Leu,ENST00000465882,;KPNA1,downstream_gene_variant,,ENST00000493510,;KPNA1,downstream_gene_variant,,ENST00000476916,;KPNA1,downstream_gene_variant,,ENST00000482287,;KPNA1,non_coding_transcript_exon_variant,,ENST00000470904,;KPNA1,non_coding_transcript_exon_variant,,ENST00000466923,;KPNA1,downstream_gene_variant,,ENST00000464940,;KPNA1,3_prime_UTR_variant,,ENST00000494339,;KPNA1,3_prime_UTR_variant,,ENST00000485027,;	A	ENSG00000114030	ENST00000344337	Transcript	missense_variant	1022	845	282	S/L	tCa/tTa	.	.	.	-1	KPNA1	HGNC	6394	protein_coding	YES	CCDS3013.1	ENSP00000343701	IMA5_HUMAN	C9JYI4_HUMAN,C9JWD9_HUMAN,C9J4U1_HUMAN,B3KXZ2_HUMAN	UPI000013D524	.	deleterious(0.01)	benign(0.208)	9/14	.	hmmpanther:PTHR23316:SF3,hmmpanther:PTHR23316,Gene3D:1.25.10.10,Pfam_domain:PF00514,SMART_domains:SM00185,PIRSF_domain:PIRSF005673,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTGATAGA	.	5	BLCA
DIRC2	0	.	GRCh37	3	122514265	122514265	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226C>T	p.Gln76Ter	p.Q76*	ENST00000261038	1/9	12	7	5	16	16	0	DIRC2,stop_gained,p.Gln76Ter,ENST00000261038,;HSPBAP1,upstream_gene_variant,,ENST00000383659,;HSPBAP1,upstream_gene_variant,,ENST00000306103,;HSPBAP1,upstream_gene_variant,,ENST00000467643,;HSPBAP1,upstream_gene_variant,,ENST00000465044,;HSPBAP1,upstream_gene_variant,,ENST00000478601,;DIRC2,stop_gained,p.Gln76Ter,ENST00000477647,;	T	ENSG00000138463	ENST00000261038	Transcript	stop_gained	624	226	76	Q/*	Cag/Tag	.	.	.	1	DIRC2	HGNC	16628	protein_coding	YES	CCDS3018.1	ENSP00000261038	DIRC2_HUMAN	.	UPI0000073CC7	.	.	.	1/9	.	hmmpanther:PTHR10924,hmmpanther:PTHR10924:SF0,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCATCCAGAAC	.	3	BLCA
PDIA5	0	.	GRCh37	3	122842954	122842954	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.651C>G	p.Asn217Lys	p.N217K	ENST00000316218	9/17	41	36	5	58	58	0	PDIA5,missense_variant,p.Asn217Lys,ENST00000316218,;PDIA5,non_coding_transcript_exon_variant,,ENST00000472319,;PDIA5,missense_variant,p.Asn217Lys,ENST00000489923,;	G	ENSG00000065485	ENST00000316218	Transcript	missense_variant	746	651	217	N/K	aaC/aaG	.	.	.	1	PDIA5	HGNC	24811	protein_coding	YES	CCDS3020.1	ENSP00000323313	PDIA5_HUMAN	C9JY10_HUMAN	UPI000013148A	.	tolerated(0.95)	benign(0.003)	9/17	.	Superfamily_domains:SSF52833,Gene3D:3.40.30.10,Pfam_domain:PF00085,hmmpanther:PTHR18929,hmmpanther:PTHR18929:SF85,PROSITE_profiles:PS51352	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAAACATCAA	.	4	BLCA
AC080008.1	0	.	GRCh37	3	124416565	124416565	+	5'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000584173	.	8	5	3	8	8	0	KALRN,missense_variant,p.Glu912Lys,ENST00000291478,;KALRN,missense_variant,p.Glu2578Lys,ENST00000354186,;KALRN,missense_variant,p.Glu880Lys,ENST00000428018,;KALRN,missense_variant,p.Glu2609Lys,ENST00000360013,;AC080008.1,upstream_gene_variant,,ENST00000584173,;	A	ENSG00000263775	ENST00000584173	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	682	-1	AC080008.1	Clone_based_ensembl_gene	.	miRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGAGAGGAA	.	2	BLCA
ZXDC	0	.	GRCh37	3	126190854	126190854	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1101G>A	p.Trp367Ter	p.W367*	ENST00000389709	3/10	28	16	11	39	39	0	ZXDC,stop_gained,p.Trp367Ter,ENST00000389709,;ZXDC,stop_gained,p.Trp367Ter,ENST00000336332,;ZXDC,stop_gained,p.Trp75Ter,ENST00000515545,;	T	ENSG00000070476	ENST00000389709	Transcript	stop_gained	1155	1101	367	W/*	tgG/tgA	.	.	.	-1	ZXDC	HGNC	28160	protein_coding	YES	CCDS43145.1	ENSP00000374359	ZXDC_HUMAN	Q9H891_HUMAN,Q69YU0_HUMAN	UPI0000D7A440	.	.	.	3/10	.	PROSITE_profiles:PS50157,hmmpanther:PTHR19818,hmmpanther:PTHR19818:SF74,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF00096,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTCCAGCC	.	5	BLCA
PLXNA1	0	.	GRCh37	3	126724938	126724938	+	Silent	SNP	G	G	A	rs780481457	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1914G>A	p.%3D	p.V638V	ENST00000393409	7/31	73	52	20	153	153	0	PLXNA1,synonymous_variant,p.%3D,ENST00000393409,;PLXNA1,synonymous_variant,p.%3D,ENST00000251772,;	A	ENSG00000114554	ENST00000393409	Transcript	synonymous_variant	1914	1914	638	V	gtG/gtA	rs780481457,COSM3846121	.	.	1	PLXNA1	HGNC	9099	protein_coding	YES	CCDS33847.2	ENSP00000377061	PLXA1_HUMAN	Q9NSM6_HUMAN,F8VSZ4_HUMAN,B4DE20_HUMAN,B3KY38_HUMAN	UPI00001A7983	.	.	.	7/31	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF35	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGTGAAACT	.	5	BLCA
TPRA1	0	.	GRCh37	3	127294072	127294072	+	Silent	SNP	G	G	A	rs764019276	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.810C>T	p.%3D	p.F270F	ENST00000355552	10/11	19	12	6	38	38	0	TPRA1,missense_variant,p.Leu216Phe,ENST00000296210,;TPRA1,synonymous_variant,p.%3D,ENST00000450633,;TPRA1,synonymous_variant,p.%3D,ENST00000355552,;TPRA1,synonymous_variant,p.%3D,ENST00000489960,;TPRA1,downstream_gene_variant,,ENST00000462228,;TPRA1,downstream_gene_variant,,ENST00000469111,;TPRA1,downstream_gene_variant,,ENST00000490643,;TPRA1,downstream_gene_variant,,ENST00000490290,;TPRA1,non_coding_transcript_exon_variant,,ENST00000465915,;TPRA1,3_prime_UTR_variant,,ENST00000483868,;TPRA1,3_prime_UTR_variant,,ENST00000393400,;	A	ENSG00000163870	ENST00000355552	Transcript	synonymous_variant	1187	810	270	F	ttC/ttT	rs764019276	.	.	-1	TPRA1	HGNC	30413	protein_coding	YES	CCDS3042.1	ENSP00000347748	TPRA1_HUMAN	C9JZ00_HUMAN,C9JVW5_HUMAN,C9JU06_HUMAN,C9J5C7_HUMAN	UPI00000373F2	.	.	.	10/11	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR15876,Pfam_domain:PF10160	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGAAGAAGCT	.	5	BLCA
MGLL	0	.	GRCh37	3	127541207	127541207	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-46G>A	.	.	ENST00000265052	1/8	20	11	9	23	23	0	MGLL,5_prime_UTR_variant,,ENST00000265052,;MGLL,5_prime_UTR_variant,,ENST00000434178,;MGLL,intron_variant,,ENST00000398104,;MGLL,upstream_gene_variant,,ENST00000494830,;MGLL,upstream_gene_variant,,ENST00000453507,;MGLL,intron_variant,,ENST00000479967,;	T	ENSG00000074416	ENST00000265052	Transcript	5_prime_UTR_variant	495	.	.	.	.	.	.	.	-1	MGLL	HGNC	17038	protein_coding	YES	CCDS46902.1	ENSP00000265052	MGLL_HUMAN	C9JAM4_HUMAN,C9J8Q3_HUMAN	UPI000004EC90	.	.	.	1/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATCAGAAC	.	5	BLCA
CAND2	0	.	GRCh37	3	12859017	12859017	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2586G>A	p.%3D	p.L862L	ENST00000456430	10/15	37	25	12	63	63	0	CAND2,synonymous_variant,p.%3D,ENST00000456430,;CAND2,synonymous_variant,p.%3D,ENST00000295989,;CAND2,downstream_gene_variant,,ENST00000446928,;	A	ENSG00000144712	ENST00000456430	Transcript	synonymous_variant	2627	2586	862	L	ctG/ctA	.	.	.	1	CAND2	HGNC	30689	protein_coding	YES	CCDS54554.1	ENSP00000387641	CAND2_HUMAN	.	UPI00005795FA	.	.	.	10/15	.	hmmpanther:PTHR12696,hmmpanther:PTHR12696:SF2,Pfam_domain:PF13513,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGAAGGC	.	5	BLCA
EFCAB12	0	.	GRCh37	3	129116088	129116088	+	3'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000505956	.	82	54	28	87	87	0	EFCAB12,downstream_gene_variant,,ENST00000505956,;EFCAB12,downstream_gene_variant,,ENST00000326085,;SNORA7B,non_coding_transcript_exon_variant,,ENST00000384360,;RPL32P3,intron_variant,,ENST00000514355,;RPL32P3,intron_variant,,ENST00000510078,;RPL32P3,intron_variant,,ENST00000499631,;RPL32P3,intron_variant,,ENST00000506593,;RPL32P3,intron_variant,,ENST00000515866,;RPL32P3,upstream_gene_variant,,ENST00000507287,;RPL32P3,upstream_gene_variant,,ENST00000507238,;EFCAB12,downstream_gene_variant,,ENST00000503498,;EFCAB12,downstream_gene_variant,,ENST00000514900,;RPL32P3,intron_variant,,ENST00000394491,;RPL32P3,upstream_gene_variant,,ENST00000359025,;RP11-529F4.1,downstream_gene_variant,,ENST00000499853,;	A	ENSG00000172771	ENST00000505956	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	4076	-1	EFCAB12	HGNC	28061	protein_coding	YES	CCDS54638.1	ENSP00000420854	EFC12_HUMAN	.	UPI00001C1DE1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACGGAGCAA	.	5	BLCA
EFCAB12	0	.	GRCh37	3	129140642	129140642	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.54C>T	p.%3D	p.L18L	ENST00000505956	2/9	9	5	4	28	28	0	EFCAB12,synonymous_variant,p.%3D,ENST00000505956,;EFCAB12,synonymous_variant,p.%3D,ENST00000326085,;EFCAB12,intron_variant,,ENST00000503957,;EFCAB12,upstream_gene_variant,,ENST00000503498,;EFCAB12,upstream_gene_variant,,ENST00000514900,;	A	ENSG00000172771	ENST00000505956	Transcript	synonymous_variant	217	54	18	L	ctC/ctT	.	.	.	-1	EFCAB12	HGNC	28061	protein_coding	YES	CCDS54638.1	ENSP00000420854	EFC12_HUMAN	.	UPI00001C1DE1	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCAGAGTCC	.	2	BLCA
ACPP	0	.	GRCh37	3	132051071	132051071	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339G>A	p.%3D	p.L113L	ENST00000351273	4/11	122	83	39	182	182	0	ACPP,synonymous_variant,p.%3D,ENST00000351273,;ACPP,synonymous_variant,p.%3D,ENST00000495911,;ACPP,synonymous_variant,p.%3D,ENST00000475741,;ACPP,synonymous_variant,p.%3D,ENST00000336375,;ACPP,non_coding_transcript_exon_variant,,ENST00000489084,;ACPP,non_coding_transcript_exon_variant,,ENST00000493235,;ACPP,non_coding_transcript_exon_variant,,ENST00000483689,;	A	ENSG00000014257	ENST00000351273	Transcript	synonymous_variant	389	339	113	L	ttG/ttA	.	.	.	1	ACPP	HGNC	125	protein_coding	YES	CCDS46916.1	ENSP00000323036	PPAP_HUMAN	Q6LBH1_HUMAN	UPI000020A26F	.	.	.	4/11	.	hmmpanther:PTHR11567:SF32,hmmpanther:PTHR11567,Gene3D:3.40.50.1240,Pfam_domain:PF00328,Superfamily_domains:SSF53254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGATGAG	.	5	BLCA
ACPP	0	.	GRCh37	3	132071644	132071644	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945G>A	p.%3D	p.L315L	ENST00000351273	9/11	52	37	15	73	73	0	ACPP,synonymous_variant,p.%3D,ENST00000351273,;ACPP,synonymous_variant,p.%3D,ENST00000475741,;ACPP,synonymous_variant,p.%3D,ENST00000336375,;ACPP,upstream_gene_variant,,ENST00000507647,;ACPP,downstream_gene_variant,,ENST00000512463,;	A	ENSG00000014257	ENST00000351273	Transcript	synonymous_variant	995	945	315	L	ttG/ttA	.	.	.	1	ACPP	HGNC	125	protein_coding	YES	CCDS46916.1	ENSP00000323036	PPAP_HUMAN	Q6LBH1_HUMAN	UPI000020A26F	.	.	.	9/11	.	hmmpanther:PTHR11567:SF32,hmmpanther:PTHR11567,Gene3D:3.40.50.1240,Pfam_domain:PF00328,Superfamily_domains:SSF53254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTGACGGA	.	5	BLCA
NPHP3	0	.	GRCh37	3	132441124	132441124	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>A	p.Glu26Lys	p.E26K	ENST00000337331	1/27	13	10	3	19	19	0	NPHP3,missense_variant,p.Glu26Lys,ENST00000326682,;NPHP3,missense_variant,p.Glu26Lys,ENST00000337331,;NPHP3,missense_variant,p.Glu26Lys,ENST00000383282,;NPHP3,missense_variant,p.Glu26Lys,ENST00000343113,;NPHP3-AS1,non_coding_transcript_exon_variant,,ENST00000489343,;NPHP3-AS1,upstream_gene_variant,,ENST00000504440,;NPHP3,upstream_gene_variant,,ENST00000471145,;NPHP3,missense_variant,p.Glu26Lys,ENST00000465756,;NPHP3,missense_variant,p.Glu26Lys,ENST00000471702,;NPHP3,upstream_gene_variant,,ENST00000469232,;NPHP3,upstream_gene_variant,,ENST00000490993,;	T	ENSG00000113971	ENST00000337331	Transcript	missense_variant	163	76	26	E/K	Gag/Aag	.	.	.	-1	NPHP3	HGNC	7907	protein_coding	YES	CCDS3078.1	ENSP00000338766	NPHP3_HUMAN	.	UPI00001B6B30	.	tolerated(0.1)	benign(0.027)	1/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCGCCGC	.	2	BLCA
STAG1	0	.	GRCh37	3	136240228	136240228	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.503G>A	p.Gly168Glu	p.G168E	ENST00000383202	7/34	48	33	14	59	59	0	STAG1,missense_variant,p.Gly168Glu,ENST00000480733,;STAG1,missense_variant,p.Gly168Glu,ENST00000383202,;STAG1,missense_variant,p.Gly168Glu,ENST00000236698,;STAG1,5_prime_UTR_variant,,ENST00000434713,;STAG1,3_prime_UTR_variant,,ENST00000483235,;STAG1,3_prime_UTR_variant,,ENST00000487065,;STAG1,non_coding_transcript_exon_variant,,ENST00000462818,;	T	ENSG00000118007	ENST00000383202	Transcript	missense_variant	760	503	168	G/E	gGa/gAa	.	.	.	-1	STAG1	HGNC	11354	protein_coding	YES	CCDS3090.1	ENSP00000372689	STAG1_HUMAN	Q4LE48_HUMAN	UPI000020A2DE	.	deleterious(0)	probably_damaging(0.989)	7/34	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF6,Pfam_domain:PF08514	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTCCAGGC	.	5	BLCA
STAG1	0	.	GRCh37	3	136240229	136240229	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502G>A	p.Gly168Arg	p.G168R	ENST00000383202	7/34	48	33	14	60	60	0	STAG1,missense_variant,p.Gly168Arg,ENST00000480733,;STAG1,missense_variant,p.Gly168Arg,ENST00000383202,;STAG1,missense_variant,p.Gly168Arg,ENST00000236698,;STAG1,5_prime_UTR_variant,,ENST00000434713,;STAG1,3_prime_UTR_variant,,ENST00000483235,;STAG1,3_prime_UTR_variant,,ENST00000487065,;STAG1,non_coding_transcript_exon_variant,,ENST00000462818,;	T	ENSG00000118007	ENST00000383202	Transcript	missense_variant	759	502	168	G/R	Gga/Aga	.	.	.	-1	STAG1	HGNC	11354	protein_coding	YES	CCDS3090.1	ENSP00000372689	STAG1_HUMAN	Q4LE48_HUMAN	UPI000020A2DE	.	deleterious(0)	probably_damaging(0.992)	7/34	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF6,Pfam_domain:PF08514	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTCCAGGCA	.	5	BLCA
ARMC8	0	.	GRCh37	3	137991953	137991953	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1582C>T	p.Arg528Cys	p.R528C	ENST00000481646	18/23	59	39	20	88	88	0	ARMC8,missense_variant,p.Arg511Cys,ENST00000538260,;ARMC8,missense_variant,p.Arg475Cys,ENST00000461822,;ARMC8,missense_variant,p.Arg500Cys,ENST00000491704,;ARMC8,missense_variant,p.Arg12Cys,ENST00000464181,;ARMC8,missense_variant,p.Arg542Cys,ENST00000469044,;ARMC8,missense_variant,p.Arg469Cys,ENST00000485396,;ARMC8,missense_variant,p.Arg532Cys,ENST00000393058,;ARMC8,missense_variant,p.Arg528Cys,ENST00000481646,;NME9,intron_variant,,ENST00000536478,;NME9,intron_variant,,ENST00000383180,;NME9,intron_variant,,ENST00000341790,;NME9,intron_variant,,ENST00000317876,;NME9,intron_variant,,ENST00000484930,;ARMC8,non_coding_transcript_exon_variant,,ENST00000460495,;ARMC8,non_coding_transcript_exon_variant,,ENST00000466762,;NME9,intron_variant,,ENST00000492993,;	T	ENSG00000114098	ENST00000481646	Transcript	missense_variant	1988	1582	528	R/C	Cgt/Tgt	.	.	.	1	ARMC8	HGNC	24999	protein_coding	YES	CCDS54646.1	ENSP00000420333	ARMC8_HUMAN	C9J8P8_HUMAN,C9J625_HUMAN,B7Z979_HUMAN	UPI000007471D	.	deleterious(0)	possibly_damaging(0.685)	18/23	.	Superfamily_domains:SSF48371,SMART_domains:SM00185,Gene3D:1.25.10.10,hmmpanther:PTHR15651,hmmpanther:PTHR15651:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCGTCCT	.	5	BLCA
ESYT3	0	.	GRCh37	3	138195664	138195664	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2629G>A	p.Glu877Lys	p.E877K	ENST00000389567	23/23	82	58	24	126	126	0	ESYT3,missense_variant,p.Glu877Lys,ENST00000389567,;ESYT3,intron_variant,,ENST00000460133,;ESYT3,non_coding_transcript_exon_variant,,ENST00000486831,;ESYT3,downstream_gene_variant,,ENST00000460325,;ESYT3,downstream_gene_variant,,ENST00000490835,;	A	ENSG00000158220	ENST00000389567	Transcript	missense_variant	2815	2629	877	E/K	Gag/Aag	.	.	.	1	ESYT3	HGNC	24295	protein_coding	YES	CCDS3101.2	ENSP00000374218	ESYT3_HUMAN	.	UPI0000251E45	.	deleterious(0.03)	benign(0.002)	23/23	.	hmmpanther:PTHR10774:SF27,hmmpanther:PTHR10774,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATGAGCTG	.	5	BLCA
COPB2	0	.	GRCh37	3	139096972	139096972	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.415G>A	p.Glu139Lys	p.E139K	ENST00000333188	5/22	153	100	52	169	169	0	COPB2,missense_variant,p.Glu139Lys,ENST00000333188,;COPB2,missense_variant,p.Glu110Lys,ENST00000507777,;COPB2,missense_variant,p.Glu110Lys,ENST00000512153,;COPB2,splice_region_variant,,ENST00000515006,;COPB2,downstream_gene_variant,,ENST00000512242,;COPB2,downstream_gene_variant,,ENST00000514508,;COPB2,downstream_gene_variant,,ENST00000513274,;COPB2,downstream_gene_variant,,ENST00000510491,;COPB2,non_coding_transcript_exon_variant,,ENST00000510181,;COPB2,downstream_gene_variant,,ENST00000504295,;	T	ENSG00000184432	ENST00000333188	Transcript	missense_variant	597	415	139	E/K	Gaa/Aaa	.	.	.	-1	COPB2	HGNC	2232	protein_coding	YES	CCDS3108.1	ENSP00000329419	COPB2_HUMAN	D6RCL6_HUMAN,D6RBZ7_HUMAN,D6RBT6_HUMAN,D6RBG7_HUMAN,B4DZI8_HUMAN	UPI0000161FB4	.	deleterious(0.02)	probably_damaging(0.997)	5/22	.	Superfamily_domains:SSF50978,PIRSF_domain:PIRSF005567,SMART_domains:SM00320,Gene3D:2.130.10.10,Pfam_domain:PF00400,hmmpanther:PTHR19876,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCAAACA	.	5	BLCA
ZBTB38	0	.	GRCh37	3	141161315	141161315	+	Missense_Mutation	SNP	C	C	T	rs373770992	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.85C>T	p.Arg29Trp	p.R29W	ENST00000514251	4/4	90	58	32	154	154	0	ZBTB38,missense_variant,p.Arg29Trp,ENST00000441582,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000504673,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000507722,;ZBTB38,missense_variant,p.Arg30Trp,ENST00000321464,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000509883,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000509813,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000503809,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000513570,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000514251,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000510338,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000510726,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000513258,;ZBTB38,missense_variant,p.Arg29Trp,ENST00000509842,;ZBTB38,upstream_gene_variant,,ENST00000512769,;	T	ENSG00000177311	ENST00000514251	Transcript	missense_variant	364	85	29	R/W	Cgg/Tgg	rs373770992	.	.	1	ZBTB38	HGNC	26636	protein_coding	YES	CCDS43157.1	ENSP00000426387	ZBT38_HUMAN	Q9H6F0_HUMAN,D6RJE1_HUMAN,D6RHD1_HUMAN,D6RGK1_HUMAN,D6RE69_HUMAN,D6RC86_HUMAN,D6RBC4_HUMAN,D6RAC4_HUMAN,D6R9U6_HUMAN,D6R9J6_HUMAN,D6R9I1_HUMAN,B3KST1_HUMAN	UPI000020A364	.	deleterious(0)	probably_damaging(1)	4/4	.	Superfamily_domains:SSF54695,Pfam_domain:PF00651,Gene3D:3.30.710.10,hmmpanther:PTHR24397:SF23,hmmpanther:PTHR24397	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTCGGGGC	byFrequency|byCluster	5	BLCA
ZBTB38	0	.	GRCh37	3	141163331	141163331	+	Missense_Mutation	SNP	G	G	A	rs546683855	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2101G>A	p.Glu701Lys	p.E701K	ENST00000514251	4/4	97	76	21	101	101	0	ZBTB38,missense_variant,p.Glu701Lys,ENST00000441582,;ZBTB38,missense_variant,p.Glu702Lys,ENST00000321464,;ZBTB38,missense_variant,p.Glu701Lys,ENST00000509883,;ZBTB38,missense_variant,p.Glu701Lys,ENST00000514251,;ZBTB38,downstream_gene_variant,,ENST00000504673,;ZBTB38,downstream_gene_variant,,ENST00000507722,;ZBTB38,downstream_gene_variant,,ENST00000509813,;ZBTB38,downstream_gene_variant,,ENST00000503809,;ZBTB38,downstream_gene_variant,,ENST00000513570,;ZBTB38,downstream_gene_variant,,ENST00000510338,;ZBTB38,downstream_gene_variant,,ENST00000510726,;ZBTB38,downstream_gene_variant,,ENST00000513258,;ZBTB38,downstream_gene_variant,,ENST00000509842,;ZBTB38,upstream_gene_variant,,ENST00000512769,;	A	ENSG00000177311	ENST00000514251	Transcript	missense_variant	2380	2101	701	E/K	Gag/Aag	rs546683855	.	.	1	ZBTB38	HGNC	26636	protein_coding	YES	CCDS43157.1	ENSP00000426387	ZBT38_HUMAN	Q9H6F0_HUMAN,D6RJE1_HUMAN,D6RHD1_HUMAN,D6RGK1_HUMAN,D6RE69_HUMAN,D6RC86_HUMAN,D6RBC4_HUMAN,D6RAC4_HUMAN,D6R9U6_HUMAN,D6R9J6_HUMAN,D6R9I1_HUMAN,B3KST1_HUMAN	UPI000020A364	.	tolerated(0.07)	benign(0.425)	4/4	.	hmmpanther:PTHR24397:SF23,hmmpanther:PTHR24397,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTGAGAAT	.	5	BLCA
PLSCR1	0	.	GRCh37	3	146246618	146246618	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.95G>A	p.Gly32Glu	p.G32E	ENST00000342435	4/9	29	16	13	29	29	0	PLSCR1,missense_variant,p.Gly32Glu,ENST00000462666,;PLSCR1,missense_variant,p.Gly25Glu,ENST00000487389,;PLSCR1,missense_variant,p.Gly32Glu,ENST00000472349,;PLSCR1,missense_variant,p.Gly32Glu,ENST00000342435,;PLSCR1,intron_variant,,ENST00000448205,;PLSCR1,intron_variant,,ENST00000486631,;PLSCR1,intron_variant,,ENST00000448787,;PLSCR1,upstream_gene_variant,,ENST00000483300,;PLSCR1,splice_region_variant,,ENST00000494568,;PLSCR1,splice_region_variant,,ENST00000469266,;PLSCR1,intron_variant,,ENST00000490745,;PLSCR1,intron_variant,,ENST00000463777,;PLSCR1,intron_variant,,ENST00000489775,;PLSCR1,intron_variant,,ENST00000468985,;PLSCR1,intron_variant,,ENST00000478267,;PLSCR1,intron_variant,,ENST00000493432,;PLSCR1,intron_variant,,ENST00000488253,;	T	ENSG00000188313	ENST00000342435	Transcript	missense_variant	506	95	32	G/E	gGa/gAa	.	.	.	-1	PLSCR1	HGNC	9092	protein_coding	YES	CCDS3135.1	ENSP00000345494	PLS1_HUMAN	C9JSI9_HUMAN,C9JE06_HUMAN,C9J7K9_HUMAN	UPI0000001627	.	tolerated(0.08)	probably_damaging(0.998)	4/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23248,hmmpanther:PTHR23248:SF26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTCCTGAA	.	5	BLCA
SELT	0	.	GRCh37	3	150321168	150321168	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19C>T	p.Leu7Phe	p.L7F	ENST00000471696	1/6	14	9	5	21	21	0	SELT,missense_variant,p.Leu7Phe,ENST00000471696,;SELT,5_prime_UTR_variant,,ENST00000485923,;SELT,5_prime_UTR_variant,,ENST00000477889,;SELT,intron_variant,,ENST00000480740,;SERP1,upstream_gene_variant,,ENST00000479209,;SERP1,upstream_gene_variant,,ENST00000484608,;SERP1,upstream_gene_variant,,ENST00000490945,;SERP1,upstream_gene_variant,,ENST00000491195,;SELT,missense_variant,p.Leu7Phe,ENST00000492132,;	T	ENSG00000198843	ENST00000471696	Transcript	missense_variant	94	19	7	L/F	Ctc/Ttc	.	.	.	1	SELT	Uniprot_gn	.	protein_coding	YES	CCDS46936.1	ENSP00000418910	SELT_HUMAN	Q6IAK0_HUMAN,F8WBD0_HUMAN	UPI000034ECC3	.	tolerated_low_confidence(0.24)	benign(0)	1/6	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR13544,hmmpanther:PTHR13544:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCTCCTA	.	5	BLCA
P2RY13	0	.	GRCh37	3	151046676	151046676	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.168G>A	p.%3D	p.L56L	ENST00000325602	2/2	77	52	25	114	114	0	P2RY13,synonymous_variant,p.%3D,ENST00000325602,;MED12L,intron_variant,,ENST00000474524,;MED12L,intron_variant,,ENST00000480026,;MED12L,intron_variant,,ENST00000273432,;MED12L,intron_variant,,ENST00000491549,;MED12L,intron_variant,,ENST00000468305,;	T	ENSG00000181631	ENST00000325602	Transcript	synonymous_variant	188	168	56	L	ttG/ttA	.	.	.	-1	P2RY13	HGNC	4537	protein_coding	YES	CCDS3158.2	ENSP00000320376	P2Y13_HUMAN	.	UPI000020A470	.	.	.	2/2	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR24233,hmmpanther:PTHR24233:SF7,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGTCAAGAA	.	5	BLCA
MED12L	0	.	GRCh37	3	151112504	151112504	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5564C>T	p.Ser1855Leu	p.S1855L	ENST00000474524	37/43	122	84	38	180	180	0	MED12L,missense_variant,p.Ser1855Leu,ENST00000474524,;MED12L,missense_variant,p.Ser1715Leu,ENST00000273432,;MED12L,non_coding_transcript_exon_variant,,ENST00000488092,;	T	ENSG00000144893	ENST00000474524	Transcript	missense_variant	5602	5564	1855	S/L	tCa/tTa	.	.	.	1	MED12L	HGNC	16050	protein_coding	YES	CCDS33876.1	ENSP00000417235	MD12L_HUMAN	.	UPI000020A46B	.	deleterious(0.01)	possibly_damaging(0.516)	37/43	.	hmmpanther:PTHR12796,hmmpanther:PTHR12796:SF5,Pfam_domain:PF12144	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGTCAAACA	.	5	BLCA
SUCNR1	0	.	GRCh37	3	151599304	151599304	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.973C>T	p.His325Tyr	p.H325Y	ENST00000362032	3/3	87	47	39	108	108	0	SUCNR1,missense_variant,p.His325Tyr,ENST00000362032,;RP11-454C18.2,intron_variant,,ENST00000475855,;RP11-454C18.2,intron_variant,,ENST00000483843,;	T	ENSG00000198829	ENST00000362032	Transcript	missense_variant	1078	973	325	H/Y	Cat/Tat	.	.	.	1	SUCNR1	HGNC	4542	protein_coding	YES	CCDS3162.1	ENSP00000355156	SUCR1_HUMAN	.	UPI0000072507	.	deleterious_low_confidence(0.04)	benign(0)	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTCATGAA	.	5	BLCA
RAP2B	0	.	GRCh37	3	152880442	152880442	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-41G>A	.	.	ENST00000323534	1/1	10	5	5	13	13	0	RAP2B,5_prime_UTR_variant,,ENST00000323534,;RP11-529G21.2,upstream_gene_variant,,ENST00000487827,;	A	ENSG00000181467	ENST00000323534	Transcript	5_prime_UTR_variant	414	.	.	.	.	.	.	.	1	RAP2B	HGNC	9862	protein_coding	YES	CCDS3170.1	ENSP00000319096	RAP2B_HUMAN	Q5JQ44_HUMAN	UPI0000004042	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCCCGACGGG	.	3	BLCA
GPR149	0	.	GRCh37	3	154139127	154139127	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1324C>T	p.Gln442Ter	p.Q442*	ENST00000389740	3/4	103	63	39	138	138	0	GPR149,stop_gained,p.Gln442Ter,ENST00000389740,;	A	ENSG00000174948	ENST00000389740	Transcript	stop_gained	1424	1324	442	Q/*	Cag/Tag	.	.	.	-1	GPR149	HGNC	23627	protein_coding	YES	CCDS43162.1	ENSP00000374390	GP149_HUMAN	Q2MKA6_HUMAN	UPI00001AEEA9	.	.	.	3/4	.	hmmpanther:PTHR24229:SF32,hmmpanther:PTHR24229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTGAGGGT	.	5	BLCA
GMPS	0	.	GRCh37	3	155633925	155633925	+	Missense_Mutation	SNP	G	G	A	rs748546400	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1156G>A	p.Glu386Lys	p.E386K	ENST00000496455	9/16	58	44	13	64	64	0	GMPS,missense_variant,p.Glu386Lys,ENST00000496455,;GMPS,missense_variant,p.Glu287Lys,ENST00000295920,;	A	ENSG00000163655	ENST00000496455	Transcript	missense_variant	1491	1156	386	E/K	Gaa/Aaa	rs748546400	.	.	1	GMPS	HGNC	4378	protein_coding	YES	CCDS46941.1	ENSP00000419851	GUAA_HUMAN	A8K639_HUMAN	UPI0000000CC6	.	deleterious(0.01)	benign(0.042)	9/16	.	Superfamily_domains:SSF52402,Gene3D:3.40.50.620,hmmpanther:PTHR11922:SF2,hmmpanther:PTHR11922,PROSITE_profiles:PS51553	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAACTC	.	5	BLCA
TIPARP	0	.	GRCh37	3	156395472	156395472	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-15G>A	.	.	ENST00000461166	2/6	42	29	13	39	39	0	TIPARP,5_prime_UTR_variant,,ENST00000461166,;TIPARP,5_prime_UTR_variant,,ENST00000473702,;TIPARP,5_prime_UTR_variant,,ENST00000481853,;TIPARP,5_prime_UTR_variant,,ENST00000295924,;TIPARP,5_prime_UTR_variant,,ENST00000486483,;TIPARP,5_prime_UTR_variant,,ENST00000542783,;TIPARP,upstream_gene_variant,,ENST00000495891,;TIPARP-AS1,upstream_gene_variant,,ENST00000463449,;TIPARP-AS1,upstream_gene_variant,,ENST00000492937,;TIPARP-AS1,upstream_gene_variant,,ENST00000478005,;	A	ENSG00000163659	ENST00000461166	Transcript	5_prime_UTR_variant	574	.	.	.	.	.	.	.	1	TIPARP	HGNC	23696	protein_coding	YES	CCDS3177.1	ENSP00000420612	PARPT_HUMAN	G5E9W1_HUMAN,C9JXM5_HUMAN	UPI000004FA31	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTGGAGCTA	.	5	BLCA
VEPH1	0	.	GRCh37	3	157178083	157178083	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.416G>A	p.Arg139Lys	p.R139K	ENST00000362010	4/14	57	41	15	80	80	0	VEPH1,missense_variant,p.Arg139Lys,ENST00000537559,;VEPH1,missense_variant,p.Arg27Lys,ENST00000479987,;VEPH1,missense_variant,p.Arg139Lys,ENST00000392833,;VEPH1,missense_variant,p.Arg139Lys,ENST00000362010,;VEPH1,missense_variant,p.Arg139Lys,ENST00000392832,;VEPH1,missense_variant,p.Arg139Lys,ENST00000543418,;VEPH1,missense_variant,p.Arg139Lys,ENST00000494677,;VEPH1,missense_variant,p.Arg139Lys,ENST00000487753,;VEPH1,missense_variant,p.Arg139Lys,ENST00000468233,;VEPH1,non_coding_transcript_exon_variant,,ENST00000490235,;VEPH1,non_coding_transcript_exon_variant,,ENST00000482434,;	T	ENSG00000197415	ENST00000362010	Transcript	missense_variant	724	416	139	R/K	aGa/aAa	.	.	.	-1	VEPH1	HGNC	25735	protein_coding	YES	CCDS3179.1	ENSP00000354919	MELT_HUMAN	C9JRT0_HUMAN,C9J4U8_HUMAN,C9J379_HUMAN,C9IZY4_HUMAN	UPI000013F6EE	.	tolerated(0.24)	benign(0.083)	4/14	.	hmmpanther:PTHR21630,hmmpanther:PTHR21630:SF9,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCTGTGG	.	5	BLCA
TRIM59	0	.	GRCh37	3	160155955	160155955	+	Silent	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1017A>T	p.%3D	p.S339S	ENST00000309784	3/3	60	38	22	53	53	0	TRIM59,synonymous_variant,p.%3D,ENST00000309784,;TRIM59,intron_variant,,ENST00000543469,;SMC4,downstream_gene_variant,,ENST00000344722,;TRIM59,downstream_gene_variant,,ENST00000479460,;TRIM59,downstream_gene_variant,,ENST00000471155,;TRIM59,downstream_gene_variant,,ENST00000496222,;SMC4,downstream_gene_variant,,ENST00000469762,;SMC4,downstream_gene_variant,,ENST00000462787,;TRIM59,downstream_gene_variant,,ENST00000468542,;TRIM59,downstream_gene_variant,,ENST00000471396,;SMC4,downstream_gene_variant,,ENST00000357388,;TRIM59,downstream_gene_variant,,ENST00000494486,;SMC4,downstream_gene_variant,,ENST00000360111,;RP11-432B6.3,intron_variant,,ENST00000483754,;SMC4,downstream_gene_variant,,ENST00000462668,;	A	ENSG00000213186	ENST00000309784	Transcript	synonymous_variant	1203	1017	339	S	tcA/tcT	.	.	.	-1	TRIM59	HGNC	30834	protein_coding	YES	CCDS3190.1	ENSP00000311219	TRI59_HUMAN	C9JE08_HUMAN,C9J9F0_HUMAN,C9J614_HUMAN,C9IZE0_HUMAN	UPI0000074490	.	.	.	3/3	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTACTGAAAT	.	5	BLCA
ZBBX	0	.	GRCh37	3	167086332	167086332	+	Silent	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.99A>G	p.%3D	p.V33V	ENST00000455345	4/21	47	37	10	55	55	0	ZBBX,synonymous_variant,p.%3D,ENST00000455345,;ZBBX,synonymous_variant,p.%3D,ENST00000392767,;ZBBX,synonymous_variant,p.%3D,ENST00000307529,;ZBBX,synonymous_variant,p.%3D,ENST00000474464,;ZBBX,synonymous_variant,p.%3D,ENST00000485651,;ZBBX,synonymous_variant,p.%3D,ENST00000392766,;ZBBX,synonymous_variant,p.%3D,ENST00000392764,;ZBBX,intron_variant,,ENST00000469220,;ZBBX,non_coding_transcript_exon_variant,,ENST00000473888,;	C	ENSG00000169064	ENST00000455345	Transcript	synonymous_variant	383	99	33	V	gtA/gtG	.	.	.	-1	ZBBX	HGNC	26245	protein_coding	YES	CCDS56296.1	ENSP00000390232	ZBBX_HUMAN	C9JVV2_HUMAN	UPI000020A746	.	.	.	4/21	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTGTACTTT	.	5	BLCA
MECOM	0	.	GRCh37	3	168806796	168806796	+	Nonsense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3208A>T	p.Lys1070Ter	p.K1070*	ENST00000264674	16/17	77	50	27	100	100	0	MECOM,stop_gained,p.Lys1006Ter,ENST00000472280,;MECOM,stop_gained,p.Lys996Ter,ENST00000460814,;MECOM,stop_gained,p.Lys996Ter,ENST00000464456,;MECOM,stop_gained,p.Lys1184Ter,ENST00000494292,;MECOM,stop_gained,p.Lys1005Ter,ENST00000468789,;MECOM,stop_gained,p.Lys1006Ter,ENST00000433243,;MECOM,stop_gained,p.Lys1005Ter,ENST00000392736,;MECOM,stop_gained,p.Lys1070Ter,ENST00000264674,;	A	ENSG00000085276	ENST00000264674	Transcript	stop_gained	3347	3208	1070	K/*	Aaa/Taa	.	.	.	-1	MECOM	HGNC	3498	protein_coding	YES	CCDS54670.1	ENSP00000264674	EVI1_HUMAN	Q9UBK3_HUMAN,Q8IU84_HUMAN,E9PGE9_HUMAN,E7EU48_HUMAN,E7ERX0_HUMAN,E7EPY2_HUMAN,D3DNP4_HUMAN	UPI00015D43FA	.	.	.	16/17	.	hmmpanther:PTHR24393	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGATTTGGACT	.	5	BLCA
MECOM	0	.	GRCh37	3	168834483	168834483	+	Missense_Mutation	SNP	G	G	A	rs201758074	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.808C>T	p.Arg270Cys	p.R270C	ENST00000264674	8/17	83	59	24	107	107	0	MECOM,missense_variant,p.Arg206Cys,ENST00000472280,;MECOM,missense_variant,p.Arg205Cys,ENST00000460814,;MECOM,missense_variant,p.Arg205Cys,ENST00000464456,;MECOM,missense_variant,p.Arg393Cys,ENST00000494292,;MECOM,missense_variant,p.Arg205Cys,ENST00000468789,;MECOM,missense_variant,p.Arg206Cys,ENST00000433243,;MECOM,missense_variant,p.Arg205Cys,ENST00000392736,;MECOM,missense_variant,p.Arg270Cys,ENST00000264674,;MECOM,intron_variant,,ENST00000492586,;MECOM,downstream_gene_variant,,ENST00000461430,;	A	ENSG00000085276	ENST00000264674	Transcript	missense_variant	947	808	270	R/C	Cgt/Tgt	rs201758074,COSM1040972,COSM1040971,COSM3356033	.	.	-1	MECOM	HGNC	3498	protein_coding	YES	CCDS54670.1	ENSP00000264674	EVI1_HUMAN	Q9UBK3_HUMAN,Q8IU84_HUMAN,E9PGE9_HUMAN,E7EU48_HUMAN,E7ERX0_HUMAN,E7EPY2_HUMAN,D3DNP4_HUMAN	UPI00015D43FA	.	deleterious(0)	probably_damaging(0.998)	8/17	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24393,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF00096,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R205S|c.613C>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACGGCAAA	by1000G	5	BLCA
MYNN	0	.	GRCh37	3	169492111	169492111	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28C>G	p.Leu10Val	p.L10V	ENST00000349841	2/8	102	74	28	148	148	0	MYNN,missense_variant,p.Leu10Val,ENST00000356716,;MYNN,missense_variant,p.Leu10Val,ENST00000392733,;MYNN,missense_variant,p.Leu10Val,ENST00000544106,;MYNN,missense_variant,p.Leu10Val,ENST00000349841,;ACTRT3,upstream_gene_variant,,ENST00000330368,;RP11-816J6.3,downstream_gene_variant,,ENST00000602879,;RP11-362K14.5,downstream_gene_variant,,ENST00000602342,;MYNN,missense_variant,p.Leu10Val,ENST00000602751,;MYNN,upstream_gene_variant,,ENST00000602391,;	G	ENSG00000085274	ENST00000349841	Transcript	missense_variant	691	28	10	L/V	Ctt/Gtt	.	.	.	1	MYNN	HGNC	14955	protein_coding	YES	CCDS3207.1	ENSP00000326240	MYNN_HUMAN	B4E2H9_HUMAN	UPI000000D72A	.	tolerated(0.37)	probably_damaging(0.979)	2/8	.	Gene3D:3.30.710.10,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCACCTTTTA	.	5	BLCA
PLD1	0	.	GRCh37	3	171443850	171443850	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.623T>C	p.Ile208Thr	p.I208T	ENST00000351298	7/27	58	37	20	73	73	0	PLD1,missense_variant,p.Ile208Thr,ENST00000356327,;PLD1,missense_variant,p.Ile208Thr,ENST00000340989,;PLD1,missense_variant,p.Ile208Thr,ENST00000342215,;PLD1,missense_variant,p.Ile208Thr,ENST00000351298,;PLD1,non_coding_transcript_exon_variant,,ENST00000475273,;PLD1,3_prime_UTR_variant,,ENST00000440204,;PLD1,non_coding_transcript_exon_variant,,ENST00000498278,;	G	ENSG00000075651	ENST00000351298	Transcript	missense_variant	750	623	208	I/T	aTa/aCa	.	.	.	-1	PLD1	HGNC	9067	protein_coding	YES	CCDS3216.1	ENSP00000342793	PLD1_HUMAN	C9IY79_HUMAN	UPI0000131BDC	.	deleterious(0)	benign(0.217)	7/27	.	PROSITE_profiles:PS50195,hmmpanther:PTHR18896:SF57,hmmpanther:PTHR18896,Gene3D:3.30.1520.10,PIRSF_domain:PIRSF009376,SMART_domains:SM00312,Superfamily_domains:SSF64268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTATATCA	.	5	BLCA
PIK3CA	0	.	GRCh37	3	178936082	178936082	+	Missense_Mutation	SNP	G	G	A	rs121913273	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624G>A	p.Glu542Lys	p.E542K	ENST00000263967	10/21	35	21	13	45	45	0	PIK3CA,missense_variant,p.Glu542Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1781	1624	542	E/K	Gaa/Aaa	rs121913273,COSM760,COSM17442,COSM125369,COSM326157	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.04)	probably_damaging(0.96)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	pathogenic	0,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E542K|c.1624G>A|115,SITE|p.E542K|c.1624G>A|758,BUFFER|p.D538D|c.1614T>C|4,BUFFER|p.D538D|c.1614T>C|4,BUFFER|p.P539S|c.1615C>T|3,BUFFER|p.P539R|c.1616C>G|19,BUFFER|p.P539P|c.1617T>C|7,BUFFER|p.P539P|c.1617T>C|7,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.T544N|c.1631C>A|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545K|c.1633G>A|227,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545K|c.1633G>A|1153,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTGAAATC	.	5	BLCA
MFN1	0	.	GRCh37	3	179066629	179066629	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7-4C>T	.	.	ENST00000471841	.	58	40	18	83	83	0	MFN1,splice_region_variant,,ENST00000280653,;MFN1,splice_region_variant,,ENST00000471841,;MFN1,splice_region_variant,,ENST00000467174,;MFN1,5_prime_UTR_variant,,ENST00000263969,;MFN1,splice_region_variant,,ENST00000357390,;	T	ENSG00000171109	ENST00000471841	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	MFN1	HGNC	18262	protein_coding	YES	CCDS3228.1	ENSP00000420617	MFN1_HUMAN	C9JXQ1_HUMAN,C9JQT7_HUMAN	UPI000013D495	.	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCTAGTA	.	5	BLCA
MFN1	0	.	GRCh37	3	179066663	179066663	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.24G>A	p.%3D	p.L8L	ENST00000471841	2/18	83	62	21	112	112	0	MFN1,synonymous_variant,p.%3D,ENST00000280653,;MFN1,synonymous_variant,p.%3D,ENST00000471841,;MFN1,synonymous_variant,p.%3D,ENST00000467174,;MFN1,synonymous_variant,p.%3D,ENST00000263969,;MFN1,synonymous_variant,p.%3D,ENST00000357390,;	A	ENSG00000171109	ENST00000471841	Transcript	synonymous_variant	150	24	8	L	ctG/ctA	.	.	.	1	MFN1	HGNC	18262	protein_coding	YES	CCDS3228.1	ENSP00000420617	MFN1_HUMAN	C9JXQ1_HUMAN,C9JQT7_HUMAN	UPI000013D495	.	.	.	2/18	.	hmmpanther:PTHR10465,hmmpanther:PTHR10465:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTGAAGCA	.	5	BLCA
LAMP3	0	.	GRCh37	3	182841942	182841942	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1178G>T	p.Gly393Val	p.G393V	ENST00000265598	6/6	89	57	32	109	109	0	LAMP3,missense_variant,p.Gly393Val,ENST00000265598,;LAMP3,missense_variant,p.Gly369Val,ENST00000466939,;	A	ENSG00000078081	ENST00000265598	Transcript	missense_variant	1434	1178	393	G/V	gGt/gTt	.	.	.	-1	LAMP3	HGNC	14582	protein_coding	YES	CCDS3242.1	ENSP00000265598	LAMP3_HUMAN	E7ETP9_HUMAN,C9JYP5_HUMAN,C9JDI8_HUMAN	UPI000006DB7A	.	tolerated(0.18)	benign(0.247)	6/6	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS51407,hmmpanther:PTHR11506,hmmpanther:PTHR11506:SF30,Pfam_domain:PF01299	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGACCAACC	.	5	BLCA
EIF4G1	0	.	GRCh37	3	184044703	184044703	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3381G>A	p.%3D	p.L1127L	ENST00000424196	22/32	70	45	24	99	99	0	EIF4G1,synonymous_variant,p.%3D,ENST00000411531,;EIF4G1,synonymous_variant,p.%3D,ENST00000392537,;EIF4G1,synonymous_variant,p.%3D,ENST00000346169,;EIF4G1,synonymous_variant,p.%3D,ENST00000319274,;EIF4G1,synonymous_variant,p.%3D,ENST00000414031,;EIF4G1,synonymous_variant,p.%3D,ENST00000448284,;EIF4G1,synonymous_variant,p.%3D,ENST00000352767,;EIF4G1,synonymous_variant,p.%3D,ENST00000424196,;EIF4G1,synonymous_variant,p.%3D,ENST00000434061,;EIF4G1,synonymous_variant,p.%3D,ENST00000427845,;EIF4G1,synonymous_variant,p.%3D,ENST00000435046,;EIF4G1,synonymous_variant,p.%3D,ENST00000382330,;EIF4G1,synonymous_variant,p.%3D,ENST00000350481,;EIF4G1,synonymous_variant,p.%3D,ENST00000441154,;EIF4G1,synonymous_variant,p.%3D,ENST00000342981,;EIF2B5,intron_variant,,ENST00000444495,;EIF4G1,downstream_gene_variant,,ENST00000457456,;EIF4G1,downstream_gene_variant,,ENST00000450424,;EIF4G1,downstream_gene_variant,,ENST00000444861,;EIF4G1,downstream_gene_variant,,ENST00000426123,;EIF4G1,downstream_gene_variant,,ENST00000421110,;SNORD66,downstream_gene_variant,,ENST00000390856,;EIF4G1,3_prime_UTR_variant,,ENST00000442406,;EIF4G1,upstream_gene_variant,,ENST00000478291,;EIF4G1,upstream_gene_variant,,ENST00000464548,;EIF4G1,upstream_gene_variant,,ENST00000460829,;EIF4G1,downstream_gene_variant,,ENST00000466311,;EIF4G1,upstream_gene_variant,,ENST00000482303,;EIF4G1,upstream_gene_variant,,ENST00000422614,;EIF4G1,upstream_gene_variant,,ENST00000475721,;EIF4G1,downstream_gene_variant,,ENST00000413967,;	A	ENSG00000114867	ENST00000424196	Transcript	synonymous_variant	3770	3381	1127	L	ttG/ttA	.	.	.	1	EIF4G1	HGNC	3296	protein_coding	YES	CCDS54687.1	ENSP00000416255	IF4G1_HUMAN	Q96I65_HUMAN,C9JWW9_HUMAN,C9JWH7_HUMAN,C9JSU8_HUMAN,C9J987_HUMAN,C9J6B6_HUMAN,C9J556_HUMAN	UPI00015E0966	.	.	.	22/32	.	hmmpanther:PTHR23253,hmmpanther:PTHR23253:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGAATCG	.	5	BLCA
MAGEF1	0	.	GRCh37	3	184429433	184429433	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177G>A	p.%3D	p.A59A	ENST00000317897	1/1	42	29	13	55	55	0	MAGEF1,synonymous_variant,p.%3D,ENST00000317897,;	T	ENSG00000177383	ENST00000317897	Transcript	synonymous_variant	404	177	59	A	gcG/gcA	.	.	.	-1	MAGEF1	HGNC	29639	protein_coding	YES	CCDS3269.1	ENSP00000315064	MAGF1_HUMAN	.	UPI0000140198	.	.	.	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11736,hmmpanther:PTHR11736:SF61	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCGCGCC	.	2	BLCA
IGF2BP2	0	.	GRCh37	3	185407370	185407370	+	Silent	SNP	G	G	A	rs780675243	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450C>T	p.%3D	p.F150F	ENST00000382199	6/16	46	28	18	87	87	0	IGF2BP2,synonymous_variant,p.%3D,ENST00000421047,;IGF2BP2,synonymous_variant,p.%3D,ENST00000457616,;IGF2BP2,synonymous_variant,p.%3D,ENST00000346192,;IGF2BP2,synonymous_variant,p.%3D,ENST00000382199,;IGF2BP2,non_coding_transcript_exon_variant,,ENST00000461957,;IGF2BP2,non_coding_transcript_exon_variant,,ENST00000493302,;IGF2BP2,upstream_gene_variant,,ENST00000494906,;	A	ENSG00000073792	ENST00000382199	Transcript	synonymous_variant	546	450	150	F	ttC/ttT	rs780675243	.	.	-1	IGF2BP2	HGNC	28867	protein_coding	YES	CCDS3273.2	ENSP00000371634	IF2B2_HUMAN	.	UPI000013C5B6	.	.	.	6/16	.	PROSITE_profiles:PS50102,hmmpanther:PTHR10288:SF93,hmmpanther:PTHR10288,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGAAGGA	byFrequency	5	BLCA
AHSG	0	.	GRCh37	3	186331074	186331074	+	Silent	SNP	C	C	T	rs777116283	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.144C>T	p.%3D	p.I48I	ENST00000411641	1/7	34	23	11	43	43	0	AHSG,synonymous_variant,p.%3D,ENST00000411641,;AHSG,synonymous_variant,p.%3D,ENST00000273784,;AHSG,non_coding_transcript_exon_variant,,ENST00000478441,;	T	ENSG00000145192	ENST00000411641	Transcript	synonymous_variant	363	144	48	I	atC/atT	rs777116283	.	.	1	AHSG	HGNC	349	protein_coding	YES	CCDS3278.1	ENSP00000393887	FETUA_HUMAN	.	UPI000013D9D0	.	.	.	1/7	.	PROSITE_profiles:PS51529,hmmpanther:PTHR13814:SF6,hmmpanther:PTHR13814,PROSITE_patterns:PS01254,Gene3D:3.10.450.10,SMART_domains:SM00043,Superfamily_domains:SSF54403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCAATCA	byFrequency	5	BLCA
AHSG	0	.	GRCh37	3	186335058	186335058	+	Silent	SNP	G	G	A	rs775343117	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492G>A	p.%3D	p.A164A	ENST00000411641	4/7	71	51	20	80	80	0	AHSG,synonymous_variant,p.%3D,ENST00000411641,;AHSG,synonymous_variant,p.%3D,ENST00000273784,;AHSG,non_coding_transcript_exon_variant,,ENST00000478441,;	A	ENSG00000145192	ENST00000411641	Transcript	synonymous_variant	711	492	164	A	gcG/gcA	rs775343117,COSM582941	.	.	1	AHSG	HGNC	349	protein_coding	YES	CCDS3278.1	ENSP00000393887	FETUA_HUMAN	.	UPI000013D9D0	.	.	.	4/7	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51529,hmmpanther:PTHR13814:SF6,hmmpanther:PTHR13814,Pfam_domain:PF00031,Gene3D:3.10.450.10,SMART_domains:SM00043,Superfamily_domains:SSF54403	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCGCGAAAGC	.	5	BLCA
EIF4A2	0	.	GRCh37	3	186502264	186502264	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73G>A	p.Glu25Lys	p.E25K	ENST00000323963	2/11	78	50	28	76	76	0	EIF4A2,missense_variant,p.Glu25Lys,ENST00000445596,;EIF4A2,missense_variant,p.Glu25Lys,ENST00000323963,;EIF4A2,missense_variant,p.Glu25Lys,ENST00000441007,;EIF4A2,missense_variant,p.Glu26Lys,ENST00000440191,;EIF4A2,missense_variant,p.Glu8Lys,ENST00000498746,;EIF4A2,splice_region_variant,,ENST00000356531,;SNORA81,upstream_gene_variant,,ENST00000408493,;SNORA63,upstream_gene_variant,,ENST00000363548,;SNORD2,upstream_gene_variant,,ENST00000459163,;SNORA4,upstream_gene_variant,,ENST00000584302,;SNORA63,upstream_gene_variant,,ENST00000363450,;RP11-573D15.9,upstream_gene_variant,,ENST00000577781,;EIF4A2,missense_variant,p.Glu25Lys,ENST00000426808,;EIF4A2,missense_variant,p.Glu26Lys,ENST00000443963,;EIF4A2,missense_variant,p.Glu25Lys,ENST00000429589,;EIF4A2,missense_variant,p.Glu25Lys,ENST00000425053,;EIF4A2,splice_region_variant,,ENST00000465032,;EIF4A2,splice_region_variant,,ENST00000495049,;EIF4A2,splice_region_variant,,ENST00000465267,;EIF4A2,splice_region_variant,,ENST00000486805,;EIF4A2,splice_region_variant,,ENST00000475653,;EIF4A2,splice_region_variant,,ENST00000467585,;EIF4A2,splice_region_variant,,ENST00000485101,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465222,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000491473,;EIF4A2,upstream_gene_variant,,ENST00000497177,;EIF4A2,upstream_gene_variant,,ENST00000475409,;EIF4A2,upstream_gene_variant,,ENST00000468362,;EIF4A2,upstream_gene_variant,,ENST00000496382,;EIF4A2,upstream_gene_variant,,ENST00000465792,;EIF4A2,upstream_gene_variant,,ENST00000466362,;EIF4A2,upstream_gene_variant,,ENST00000492144,;EIF4A2,upstream_gene_variant,,ENST00000461021,;EIF4A2,upstream_gene_variant,,ENST00000494445,;	A	ENSG00000156976	ENST00000323963	Transcript	missense_variant	137	73	25	E/K	Gag/Aag	COSM730071	.	.	1	EIF4A2	HGNC	3284	protein_coding	YES	CCDS3282.1	ENSP00000326381	IF4A2_HUMAN	Q96B07_HUMAN,J3KSN7_HUMAN,E7EMV8_HUMAN,C9JUF0_HUMAN	UPI0000000DD2	.	tolerated_low_confidence(0.11)	benign(0.003)	2/11	.	hmmpanther:PTHR24031:SF226,hmmpanther:PTHR24031	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATCGAGGTA	.	5	BLCA
EIF4A2	0	.	GRCh37	3	186502365	186502365	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.88G>A	p.Glu30Lys	p.E30K	ENST00000323963	3/11	92	69	23	114	114	0	EIF4A2,missense_variant,p.Glu30Lys,ENST00000445596,;EIF4A2,missense_variant,p.Glu30Lys,ENST00000323963,;EIF4A2,missense_variant,p.Glu30Lys,ENST00000441007,;EIF4A2,missense_variant,p.Glu31Lys,ENST00000440191,;EIF4A2,missense_variant,p.Glu13Lys,ENST00000498746,;EIF4A2,5_prime_UTR_variant,,ENST00000356531,;SNORA81,upstream_gene_variant,,ENST00000408493,;SNORA63,upstream_gene_variant,,ENST00000363548,;SNORD2,upstream_gene_variant,,ENST00000459163,;SNORA4,upstream_gene_variant,,ENST00000584302,;SNORA63,upstream_gene_variant,,ENST00000363450,;RP11-573D15.9,upstream_gene_variant,,ENST00000577781,;EIF4A2,missense_variant,p.Glu30Lys,ENST00000426808,;EIF4A2,missense_variant,p.Glu31Lys,ENST00000443963,;EIF4A2,missense_variant,p.Glu30Lys,ENST00000429589,;EIF4A2,missense_variant,p.Glu30Lys,ENST00000425053,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465032,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465222,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000491473,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000495049,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000465267,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000486805,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000475653,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000467585,;EIF4A2,non_coding_transcript_exon_variant,,ENST00000485101,;EIF4A2,upstream_gene_variant,,ENST00000497177,;EIF4A2,upstream_gene_variant,,ENST00000475409,;EIF4A2,upstream_gene_variant,,ENST00000468362,;EIF4A2,upstream_gene_variant,,ENST00000496382,;EIF4A2,upstream_gene_variant,,ENST00000465792,;EIF4A2,upstream_gene_variant,,ENST00000466362,;EIF4A2,upstream_gene_variant,,ENST00000492144,;EIF4A2,upstream_gene_variant,,ENST00000461021,;EIF4A2,upstream_gene_variant,,ENST00000494445,;	A	ENSG00000156976	ENST00000323963	Transcript	missense_variant	152	88	30	E/K	Gag/Aag	.	.	.	1	EIF4A2	HGNC	3284	protein_coding	YES	CCDS3282.1	ENSP00000326381	IF4A2_HUMAN	Q96B07_HUMAN,J3KSN7_HUMAN,E7EMV8_HUMAN,C9JUF0_HUMAN	UPI0000000DD2	.	tolerated(0.21)	benign(0.007)	3/11	.	hmmpanther:PTHR24031:SF226,hmmpanther:PTHR24031,Gene3D:3.40.50.300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATGAGATT	.	5	BLCA
TPRG1	0	.	GRCh37	3	188956639	188956639	+	Silent	SNP	G	G	A	rs757354866	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420G>A	p.%3D	p.L140L	ENST00000345063	4/6	101	66	35	97	97	0	TPRG1,synonymous_variant,p.%3D,ENST00000425670,;TPRG1,synonymous_variant,p.%3D,ENST00000433971,;TPRG1,synonymous_variant,p.%3D,ENST00000345063,;TPRG1-AS2,non_coding_transcript_exon_variant,,ENST00000425454,;	A	ENSG00000188001	ENST00000345063	Transcript	synonymous_variant	587	420	140	L	ctG/ctA	rs757354866,COSM1294098	.	.	1	TPRG1	HGNC	24759	protein_coding	YES	CCDS3292.1	ENSP00000341031	TPRG1_HUMAN	C9JDW1_HUMAN	UPI00001C08BF	.	.	.	4/6	.	Pfam_domain:PF12456,hmmpanther:PTHR31108,hmmpanther:PTHR31108:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R137Q|c.410G>A|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTGAGCGC	byFrequency	5	BLCA
MB21D2	0	.	GRCh37	3	192516720	192516720	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.931C>T	p.Gln311Ter	p.Q311*	ENST00000392452	2/2	33	19	13	62	62	0	MB21D2,stop_gained,p.Gln311Ter,ENST00000392452,;	A	ENSG00000180611	ENST00000392452	Transcript	stop_gained	1252	931	311	Q/*	Cag/Tag	COSM348040,COSM350832	.	.	-1	MB21D2	HGNC	30438	protein_coding	YES	CCDS3302.2	ENSP00000376246	M21D2_HUMAN	A8K332_HUMAN	UPI000013FAFE	.	.	.	2/2	.	Pfam_domain:PF03281,hmmpanther:PTHR10656,hmmpanther:PTHR10656:SF43	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q311*|c.931C>T|4,BUFFER|p.Q311E|c.931C>G|8	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGATAGG	.	5	BLCA
FAM43A	0	.	GRCh37	3	194408723	194408723	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168G>A	p.Glu390Lys	p.E390K	ENST00000329759	1/1	12	8	4	12	12	0	FAM43A,missense_variant,p.Glu390Lys,ENST00000329759,;	A	ENSG00000185112	ENST00000329759	Transcript	missense_variant	2102	1168	390	E/K	Gag/Aag	.	.	.	1	FAM43A	HGNC	26888	protein_coding	YES	CCDS33923.1	ENSP00000371397	FA43A_HUMAN	.	UPI0000074368	.	deleterious_low_confidence(0.03)	possibly_damaging(0.841)	1/1	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGCGAGAGC	.	2	BLCA
MUC4	0	.	GRCh37	3	195538763	195538763	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-75C>T	.	.	ENST00000463781	1/25	8	4	4	12	12	0	MUC4,5_prime_UTR_variant,,ENST00000463781,;MUC4,upstream_gene_variant,,ENST00000346145,;MUC4,upstream_gene_variant,,ENST00000349607,;MUC4,upstream_gene_variant,,ENST00000475231,;MUC4,non_coding_transcript_exon_variant,,ENST00000478685,;MUC4,upstream_gene_variant,,ENST00000477086,;MUC4,upstream_gene_variant,,ENST00000466475,;MUC4,upstream_gene_variant,,ENST00000478156,;MUC4,upstream_gene_variant,,ENST00000470451,;MUC4,upstream_gene_variant,,ENST00000479406,;MUC4,upstream_gene_variant,,ENST00000477756,;MUC4,upstream_gene_variant,,ENST00000462323,;MUC4,upstream_gene_variant,,ENST00000480843,;	A	ENSG00000145113	ENST00000463781	Transcript	5_prime_UTR_variant	386	.	.	.	.	.	.	.	-1	MUC4	HGNC	7514	protein_coding	YES	CCDS54700.1	ENSP00000417498	.	O75456_HUMAN,E9PDY6_HUMAN	UPI0001B3CB30	.	.	.	1/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACGTGAGCCC	.	2	BLCA
KCNH8	0	.	GRCh37	3	19575447	19575447	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3180G>A	p.%3D	p.V1060V	ENST00000328405	16/16	54	40	14	82	81	1	KCNH8,synonymous_variant,p.%3D,ENST00000328405,;KCNH8,3_prime_UTR_variant,,ENST00000452398,;	A	ENSG00000183960	ENST00000328405	Transcript	synonymous_variant	3446	3180	1060	V	gtG/gtA	.	.	.	1	KCNH8	HGNC	18864	protein_coding	YES	CCDS2632.1	ENSP00000328813	KCNH8_HUMAN	.	UPI0000167D12	.	.	.	16/16	.	hmmpanther:PTHR10217,hmmpanther:PTHR10217:SF380	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTGAGTTC	.	5	BLCA
MFI2	0	.	GRCh37	3	196733543	196733543	+	Silent	SNP	G	G	A	rs145095949	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1815C>T	p.%3D	p.N605N	ENST00000296350	14/16	26	17	9	25	25	0	MFI2,synonymous_variant,p.%3D,ENST00000296350,;MFI2-AS1,downstream_gene_variant,,ENST00000424769,;MFI2-AS1,downstream_gene_variant,,ENST00000437064,;MFI2-AS1,downstream_gene_variant,,ENST00000415244,;MFI2-AS1,downstream_gene_variant,,ENST00000414354,;MFI2-AS1,downstream_gene_variant,,ENST00000446695,;MFI2,upstream_gene_variant,,ENST00000469783,;	A	ENSG00000163975	ENST00000296350	Transcript	synonymous_variant	1929	1815	605	N	aaC/aaT	rs145095949	.	.	-1	MFI2	HGNC	7037	protein_coding	YES	CCDS3325.1	ENSP00000296350	TRFM_HUMAN	.	UPI000013E329	.	.	.	14/16	.	PROSITE_profiles:PS51408,hmmpanther:PTHR11485,hmmpanther:PTHR11485:SF5,PROSITE_patterns:PS00207,Pfam_domain:PF00405,Gene3D:3.40.190.10,PIRSF_domain:PIRSF002549,SMART_domains:SM00094,Superfamily_domains:SSF53850	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0	A:0.0005	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCCGTTGGG	byCluster|by1000G	5	BLCA
DLG1	0	.	GRCh37	3	197009621	197009621	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247G>A	p.Glu83Lys	p.E83K	ENST00000346964	4/26	92	55	37	92	92	0	DLG1,missense_variant,p.Glu83Lys,ENST00000450955,;DLG1,missense_variant,p.Glu83Lys,ENST00000419553,;DLG1,missense_variant,p.Glu83Lys,ENST00000392382,;DLG1,missense_variant,p.Glu83Lys,ENST00000357674,;DLG1,missense_variant,p.Glu83Lys,ENST00000412364,;DLG1,missense_variant,p.Glu83Lys,ENST00000392380,;DLG1,missense_variant,p.Glu83Lys,ENST00000456699,;DLG1,missense_variant,p.Glu83Lys,ENST00000422288,;DLG1,missense_variant,p.Glu83Lys,ENST00000448528,;DLG1,missense_variant,p.Glu83Lys,ENST00000346964,;DLG1,missense_variant,p.Glu83Lys,ENST00000419354,;DLG1,missense_variant,p.Glu83Lys,ENST00000314062,;DLG1,missense_variant,p.Glu83Lys,ENST00000436682,;DLG1,non_coding_transcript_exon_variant,,ENST00000485409,;DLG1,missense_variant,p.Glu83Lys,ENST00000392381,;DLG1,missense_variant,p.Glu83Lys,ENST00000419227,;DLG1,non_coding_transcript_exon_variant,,ENST00000471733,;DLG1,non_coding_transcript_exon_variant,,ENST00000486877,;	T	ENSG00000075711	ENST00000346964	Transcript	missense_variant	437	247	83	E/K	Gag/Aag	.	.	.	-1	DLG1	HGNC	2900	protein_coding	YES	CCDS3327.1	ENSP00000345731	DLG1_HUMAN	F2Z2L0_HUMAN,C9JUA9_HUMAN,C9JN61_HUMAN,C9J110_HUMAN,A8MUT6_HUMAN	UPI000013CD24	.	deleterious(0.01)	benign(0.087)	4/26	.	hmmpanther:PTHR23119,PIRSF_domain:PIRSF001741	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCCCAAG	.	5	BLCA
NR1D2	0	.	GRCh37	3	24001215	24001215	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.426G>A	p.%3D	p.K142K	ENST00000312521	4/8	71	49	22	97	97	0	NR1D2,synonymous_variant,p.%3D,ENST00000312521,;NR1D2,non_coding_transcript_exon_variant,,ENST00000492552,;NR1D2,synonymous_variant,p.%3D,ENST00000383773,;NR1D2,non_coding_transcript_exon_variant,,ENST00000468700,;	A	ENSG00000174738	ENST00000312521	Transcript	synonymous_variant	745	426	142	K	aaG/aaA	.	.	.	1	NR1D2	HGNC	7963	protein_coding	YES	CCDS33718.1	ENSP00000310006	NR1D2_HUMAN	.	UPI0000209A6C	.	.	.	4/8	.	PROSITE_profiles:PS51030,hmmpanther:PTHR24082,hmmpanther:PTHR24082:SF112,Gene3D:3.30.50.10,Pfam_domain:PF00105,SMART_domains:SM00399,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAATGA	.	5	BLCA
ARPP21	0	.	GRCh37	3	35833933	35833933	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2095C>T	p.Pro699Ser	p.P699S	ENST00000458225	19/20	89	57	32	131	131	0	ARPP21,missense_variant,p.Pro679Ser,ENST00000337271,;ARPP21,missense_variant,p.Pro699Ser,ENST00000458225,;ARPP21,missense_variant,p.Pro698Ser,ENST00000187397,;ARPP21,missense_variant,p.Pro699Ser,ENST00000417925,;ARPP21,missense_variant,p.Pro679Ser,ENST00000444190,;ARPP21,non_coding_transcript_exon_variant,,ENST00000463970,;ARPP21,non_coding_transcript_exon_variant,,ENST00000473138,;ARPP21,non_coding_transcript_exon_variant,,ENST00000476052,;ARPP21,3_prime_UTR_variant,,ENST00000457165,;	T	ENSG00000172995	ENST00000458225	Transcript	missense_variant	2320	2095	699	P/S	Cca/Tca	.	.	.	1	ARPP21	HGNC	16968	protein_coding	YES	CCDS58823.1	ENSP00000414351	ARP21_HUMAN	C9JTX6_HUMAN,C9JTF2_HUMAN,C9JQQ6_HUMAN,C9JI74_HUMAN,C9J5R1_HUMAN,C9J2U3_HUMAN	UPI0000209B3D	.	tolerated(0.27)	benign(0.003)	19/20	.	hmmpanther:PTHR15672:SF14,hmmpanther:PTHR15672	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGCCACCT	.	5	BLCA
TRANK1	0	.	GRCh37	3	36899129	36899129	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1952G>A	p.Arg651Lys	p.R651K	ENST00000429976	12/23	59	36	22	87	87	0	TRANK1,missense_variant,p.Arg101Lys,ENST00000428977,;TRANK1,missense_variant,p.Arg101Lys,ENST00000301807,;TRANK1,missense_variant,p.Arg651Lys,ENST00000429976,;TRANK1,downstream_gene_variant,,ENST00000513141,;	T	ENSG00000168016	ENST00000429976	Transcript	missense_variant	2200	1952	651	R/K	aGa/aAa	.	.	.	-1	TRANK1	HGNC	29011	protein_coding	YES	CCDS46789.2	ENSP00000416168	TRNK1_HUMAN	B7WP88_HUMAN	UPI00017BE82B	.	tolerated(1)	benign(0.001)	12/23	.	hmmpanther:PTHR21529:SF5,hmmpanther:PTHR21529	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTCTGGCA	.	5	BLCA
GOLGA4	0	.	GRCh37	3	37363313	37363313	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1703C>T	p.Ala568Val	p.A568V	ENST00000356847	14/23	56	37	18	63	63	0	GOLGA4,missense_variant,p.Ala107Val,ENST00000429018,;GOLGA4,missense_variant,p.Ala568Val,ENST00000356847,;GOLGA4,missense_variant,p.Ala546Val,ENST00000361924,;GOLGA4,missense_variant,p.Ala417Val,ENST00000437131,;GOLGA4,intron_variant,,ENST00000444882,;GOLGA4,downstream_gene_variant,,ENST00000435830,;GOLGA4,non_coding_transcript_exon_variant,,ENST00000497537,;	T	ENSG00000144674	ENST00000356847	Transcript	missense_variant	2002	1703	568	A/V	gCa/gTa	.	.	.	1	GOLGA4	HGNC	4427	protein_coding	YES	CCDS54564.1	ENSP00000349305	GOGA4_HUMAN	.	UPI000198C9CA	.	.	benign(0.299)	14/23	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR19327	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAAGCAATCC	.	5	BLCA
EXOG	0	.	GRCh37	3	38537876	38537876	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18C>T	p.%3D	p.I6I	ENST00000287675	1/6	29	21	8	40	40	0	EXOG,synonymous_variant,p.%3D,ENST00000422077,;EXOG,synonymous_variant,p.%3D,ENST00000287675,;EXOG,5_prime_UTR_variant,,ENST00000358249,;EXOG,upstream_gene_variant,,ENST00000453767,;ACVR2B,downstream_gene_variant,,ENST00000352511,;EXOG,synonymous_variant,p.%3D,ENST00000454803,;EXOG,synonymous_variant,p.%3D,ENST00000443942,;EXOG,synonymous_variant,p.%3D,ENST00000457367,;EXOG,synonymous_variant,p.%3D,ENST00000447573,;EXOG,synonymous_variant,p.%3D,ENST00000412107,;EXOG,synonymous_variant,p.%3D,ENST00000436414,;EXOG,synonymous_variant,p.%3D,ENST00000438992,;EXOG,synonymous_variant,p.%3D,ENST00000431472,;EXOG,non_coding_transcript_exon_variant,,ENST00000489813,;EXOG,upstream_gene_variant,,ENST00000450732,;EXOG,upstream_gene_variant,,ENST00000474071,;EXOG,upstream_gene_variant,,ENST00000483749,;EXOG,upstream_gene_variant,,ENST00000470291,;	T	ENSG00000157036	ENST00000287675	Transcript	synonymous_variant	114	18	6	I	atC/atT	.	.	.	1	EXOG	HGNC	3347	protein_coding	YES	CCDS2680.1	ENSP00000287675	EXOG_HUMAN	.	UPI00001AEB05	.	.	.	1/6	.	hmmpanther:PTHR13966:SF2,hmmpanther:PTHR13966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	AGTATCGCTTC	.	4	BLCA
ENTPD3	0	.	GRCh37	3	40453404	40453404	+	Missense_Mutation	SNP	G	G	A	rs771858873	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.388G>A	p.Gly130Arg	p.G130R	ENST00000301825	5/11	51	37	13	46	46	0	ENTPD3,missense_variant,p.Gly130Arg,ENST00000445129,;ENTPD3,missense_variant,p.Gly130Arg,ENST00000456402,;ENTPD3,missense_variant,p.Gly130Arg,ENST00000301825,;ENTPD3-AS1,intron_variant,,ENST00000425156,;ENTPD3-AS1,intron_variant,,ENST00000452768,;ENTPD3-AS1,intron_variant,,ENST00000439293,;	A	ENSG00000168032	ENST00000301825	Transcript	missense_variant	506	388	130	G/R	Gga/Aga	rs771858873	.	.	1	ENTPD3	HGNC	3365	protein_coding	YES	CCDS2691.1	ENSP00000301825	ENTP3_HUMAN	.	UPI000013E75E	.	tolerated(0.45)	benign(0.014)	5/11	.	hmmpanther:PTHR11782,hmmpanther:PTHR11782:SF38,Pfam_domain:PF01150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCACGGATCC	.	5	BLCA
ULK4	0	.	GRCh37	3	41291015	41291015	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3729C>T	p.%3D	p.L1243L	ENST00000301831	36/37	35	22	12	42	42	0	ULK4,synonymous_variant,p.%3D,ENST00000301831,;ULK4,non_coding_transcript_exon_variant,,ENST00000489118,;CTNNB1,intron_variant,,ENST00000471014,;	A	ENSG00000168038	ENST00000301831	Transcript	synonymous_variant	4192	3729	1243	L	ctC/ctT	.	.	.	-1	ULK4	HGNC	15784	protein_coding	YES	CCDS43071.1	ENSP00000301831	ULK4_HUMAN	B3KSE5_HUMAN	UPI0000E8267C	.	.	.	36/37	.	hmmpanther:PTHR22983,hmmpanther:PTHR22983:SF14,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCAGGAGGCT	.	5	BLCA
TRAK1	0	.	GRCh37	3	42201732	42201732	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287-16574G>A	.	.	ENST00000327628	.	25	15	10	33	33	0	TRAK1,5_prime_UTR_variant,,ENST00000396175,;TRAK1,5_prime_UTR_variant,,ENST00000341421,;TRAK1,intron_variant,,ENST00000449246,;TRAK1,intron_variant,,ENST00000327628,;TRAK1,non_coding_transcript_exon_variant,,ENST00000469506,;TRAK1,intron_variant,,ENST00000487159,;TRAK1,intron_variant,,ENST00000484786,;TRAK1,intron_variant,,ENST00000418790,;	A	ENSG00000182606	ENST00000327628	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	TRAK1	HGNC	29947	protein_coding	YES	CCDS43072.1	ENSP00000328998	TRAK1_HUMAN	.	UPI0000139F52	.	.	.	.	2/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCAGGCCAG	.	5	BLCA
TRAK1	0	.	GRCh37	3	42265055	42265055	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2688C>T	p.%3D	p.L896L	ENST00000327628	16/16	34	26	8	51	51	0	TRAK1,synonymous_variant,p.%3D,ENST00000396175,;TRAK1,synonymous_variant,p.%3D,ENST00000327628,;RNU4-78P,downstream_gene_variant,,ENST00000410940,;TRAK1,non_coding_transcript_exon_variant,,ENST00000487159,;	T	ENSG00000182606	ENST00000327628	Transcript	synonymous_variant	3088	2688	896	L	ctC/ctT	.	.	.	1	TRAK1	HGNC	29947	protein_coding	YES	CCDS43072.1	ENSP00000328998	TRAK1_HUMAN	.	UPI0000139F52	.	.	.	16/16	.	hmmpanther:PTHR15751:SF11,hmmpanther:PTHR15751	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGATG	.	5	BLCA
VIPR1	0	.	GRCh37	3	42573331	42573331	+	Silent	SNP	C	C	T	rs777453278	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888C>T	p.%3D	p.I296I	ENST00000325123	9/13	49	32	17	73	73	0	VIPR1,synonymous_variant,p.%3D,ENST00000325123,;VIPR1,synonymous_variant,p.%3D,ENST00000543411,;VIPR1,synonymous_variant,p.%3D,ENST00000438259,;VIPR1,synonymous_variant,p.%3D,ENST00000433647,;VIPR1,downstream_gene_variant,,ENST00000450274,;VIPR1,downstream_gene_variant,,ENST00000439731,;VIPR1-AS1,intron_variant,,ENST00000600342,;VIPR1-AS1,intron_variant,,ENST00000452639,;VIPR1-AS1,intron_variant,,ENST00000601312,;VIPR1-AS1,intron_variant,,ENST00000593621,;VIPR1-AS1,intron_variant,,ENST00000598837,;VIPR1-AS1,intron_variant,,ENST00000602176,;VIPR1-AS1,intron_variant,,ENST00000596630,;VIPR1-AS1,intron_variant,,ENST00000593611,;VIPR1-AS1,downstream_gene_variant,,ENST00000608869,;VIPR1-AS1,downstream_gene_variant,,ENST00000610022,;VIPR1,downstream_gene_variant,,ENST00000473575,;VIPR1,3_prime_UTR_variant,,ENST00000436487,;VIPR1,3_prime_UTR_variant,,ENST00000446673,;VIPR1,3_prime_UTR_variant,,ENST00000439910,;VIPR1,3_prime_UTR_variant,,ENST00000443646,;VIPR1,downstream_gene_variant,,ENST00000465338,;VIPR1,upstream_gene_variant,,ENST00000498102,;VIPR1,downstream_gene_variant,,ENST00000495189,;	T	ENSG00000114812	ENST00000325123	Transcript	synonymous_variant	1001	888	296	I	atC/atT	rs777453278	.	.	1	VIPR1	HGNC	12694	protein_coding	YES	CCDS2698.1	ENSP00000327246	VIPR1_HUMAN	C9JH33_HUMAN	UPI000005045A	.	.	.	9/13	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011:SF31,hmmpanther:PTHR12011,Gene3D:1.20.1070.10,Pfam_domain:PF00002,Superfamily_domains:SSF81321,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATCATAAA	byFrequency	5	BLCA
NKTR	0	.	GRCh37	3	42680023	42680023	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2827G>A	p.Asp943Asn	p.D943N	ENST00000232978	13/17	65	50	15	76	76	0	NKTR,missense_variant,p.Asp943Asn,ENST00000232978,;RP4-613B23.1,intron_variant,,ENST00000445452,;RP4-613B23.1,intron_variant,,ENST00000434363,;RP4-613B23.1,intron_variant,,ENST00000438017,;NKTR,3_prime_UTR_variant,,ENST00000429888,;NKTR,downstream_gene_variant,,ENST00000508351,;NKTR,downstream_gene_variant,,ENST00000465584,;NKTR,downstream_gene_variant,,ENST00000464315,;NKTR,downstream_gene_variant,,ENST00000468735,;NKTR,downstream_gene_variant,,ENST00000472258,;NKTR,downstream_gene_variant,,ENST00000460807,;NKTR,downstream_gene_variant,,ENST00000498730,;	A	ENSG00000114857	ENST00000232978	Transcript	missense_variant	3015	2827	943	D/N	Gat/Aat	.	.	.	1	NKTR	HGNC	7833	protein_coding	YES	CCDS2702.1	ENSP00000232978	NKTR_HUMAN	.	UPI00001301FD	.	deleterious_low_confidence(0.04)	possibly_damaging(0.514)	13/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGATGAT	.	5	BLCA
ZNF445	0	.	GRCh37	3	44488184	44488184	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2979C>T	p.%3D	p.L993L	ENST00000425708	7/7	97	67	30	117	117	0	ZNF445,synonymous_variant,p.%3D,ENST00000425708,;ZNF445,synonymous_variant,p.%3D,ENST00000396077,;ZNF445,downstream_gene_variant,,ENST00000460529,;	A	ENSG00000185219	ENST00000425708	Transcript	synonymous_variant	3321	2979	993	L	ctC/ctT	.	.	.	-1	ZNF445	HGNC	21018	protein_coding	YES	CCDS2713.1	ENSP00000413073	ZN445_HUMAN	B7ZKX2_HUMAN	UPI000019AD12	.	.	.	7/7	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24385:SF48,hmmpanther:PTHR24385,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13912,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAATGAGTTG	.	5	BLCA
ZNF197	0	.	GRCh37	3	44673962	44673962	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643-3C>T	.	.	ENST00000396058	.	174	122	52	194	194	0	ZNF197,splice_region_variant,,ENST00000396058,;ZNF197,splice_region_variant,,ENST00000383745,;ZNF197,splice_region_variant,,ENST00000344387,;ZNF197,splice_region_variant,,ENST00000383744,;ZNF197,downstream_gene_variant,,ENST00000412641,;RP11-944L7.4,intron_variant,,ENST00000457331,;ZNF197,splice_region_variant,,ENST00000334075,;	T	ENSG00000186448	ENST00000396058	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ZNF197	HGNC	12988	protein_coding	YES	CCDS2717.1	ENSP00000379370	ZN197_HUMAN	C9JQH5_HUMAN	UPI000013C317	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCAGGAG	.	4	BLCA
KIAA1143	0	.	GRCh37	3	44803138	44803138	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-44G>A	.	.	ENST00000296121	1/3	19	11	7	36	36	0	KIAA1143,5_prime_UTR_variant,,ENST00000296121,;KIF15,upstream_gene_variant,,ENST00000481166,;KIF15,upstream_gene_variant,,ENST00000326047,;KIAA1143,upstream_gene_variant,,ENST00000484437,;KIF15,upstream_gene_variant,,ENST00000438321,;	T	ENSG00000163807	ENST00000296121	Transcript	5_prime_UTR_variant	17	.	.	.	.	.	.	.	-1	KIAA1143	HGNC	29198	protein_coding	YES	CCDS2721.1	ENSP00000296121	K1143_HUMAN	.	UPI000006EAE5	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGATTCGCGAC	.	4	BLCA
EXOSC7	0	.	GRCh37	3	45038647	45038647	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.323C>T	p.Thr108Ile	p.T108I	ENST00000265564	4/8	75	46	28	64	64	0	EXOSC7,missense_variant,p.Thr108Ile,ENST00000265564,;EXOSC7,non_coding_transcript_exon_variant,,ENST00000491476,;EXOSC7,non_coding_transcript_exon_variant,,ENST00000482004,;EXOSC7,non_coding_transcript_exon_variant,,ENST00000468667,;EXOSC7,non_coding_transcript_exon_variant,,ENST00000461361,;EXOSC7,non_coding_transcript_exon_variant,,ENST00000481405,;CLEC3B,upstream_gene_variant,,ENST00000490386,;EXOSC7,non_coding_transcript_exon_variant,,ENST00000467846,;	T	ENSG00000075914	ENST00000265564	Transcript	missense_variant	371	323	108	T/I	aCc/aTc	.	.	.	1	EXOSC7	HGNC	28112	protein_coding	YES	CCDS2725.1	ENSP00000265564	EXOS7_HUMAN	B4DIU0_HUMAN	UPI000020A5E9	.	tolerated(0.48)	benign(0.011)	4/8	.	hmmpanther:PTHR11097:SF8,hmmpanther:PTHR11097,Pfam_domain:PF01138,Superfamily_domains:SSF54211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACACCCTCT	.	5	BLCA
CLEC3B	0	.	GRCh37	3	45077243	45077243	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>A	p.Asp146Asn	p.D146N	ENST00000296130	3/3	34	20	13	44	44	0	CLEC3B,missense_variant,p.Asp146Asn,ENST00000296130,;CLEC3B,missense_variant,p.Asp104Asn,ENST00000428034,;RNU5B-3P,upstream_gene_variant,,ENST00000516601,;EXOSC7,non_coding_transcript_exon_variant,,ENST00000481405,;CLEC3B,non_coding_transcript_exon_variant,,ENST00000490386,;	A	ENSG00000163815	ENST00000296130	Transcript	missense_variant	616	436	146	D/N	Gac/Aac	.	.	.	1	CLEC3B	HGNC	11891	protein_coding	YES	CCDS2726.1	ENSP00000296130	TETN_HUMAN	E9PHK0_HUMAN	UPI000013E305	.	deleterious(0)	probably_damaging(1)	3/3	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22799,hmmpanther:PTHR22799:SF3,Gene3D:3.10.100.10,Pfam_domain:PF00059,SMART_domains:SM00034,Superfamily_domains:SSF56436,Prints_domain:PR01504	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTGGACATG	.	5	BLCA
LARS2	0	.	GRCh37	3	45533153	45533153	+	Missense_Mutation	SNP	G	G	T	rs565428465	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1384G>T	p.Val462Phe	p.V462F	ENST00000415258	12/21	41	27	14	49	49	0	LARS2,missense_variant,p.Val419Phe,ENST00000414984,;LARS2,missense_variant,p.Val462Phe,ENST00000265537,;LARS2,missense_variant,p.Val462Phe,ENST00000415258,;LARS2-AS1,intron_variant,,ENST00000442534,;	T	ENSG00000011376	ENST00000415258	Transcript	missense_variant	1525	1384	462	V/F	Gtc/Ttc	rs565428465	.	.	1	LARS2	HGNC	17095	protein_coding	YES	CCDS2728.1	ENSP00000408576	SYLM_HUMAN	Q9BQR0_HUMAN,C9JYR8_HUMAN	UPI0000001297	.	deleterious(0)	probably_damaging(0.956)	12/21	.	hmmpanther:PTHR11946:SF7,hmmpanther:PTHR11946,TIGRFAM_domain:TIGR00396,Gene3D:3.40.50.620,Pfam_domain:PF00133,Superfamily_domains:SSF52374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGTCCAC	byCluster	5	BLCA
LIMD1	0	.	GRCh37	3	45636346	45636346	+	5'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000273317	.	25	22	3	34	34	0	LIMD1,5_prime_UTR_variant,,ENST00000440097,;LIMD1,upstream_gene_variant,,ENST00000273317,;AC099539.1,downstream_gene_variant,,ENST00000516118,;LIMD1,intron_variant,,ENST00000465039,;	A	ENSG00000144791	ENST00000273317	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	5	1	LIMD1	HGNC	6612	protein_coding	YES	CCDS2729.1	ENSP00000273317	LIMD1_HUMAN	.	UPI0000043C33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTGGGCTAGG	.	2	BLCA
XCR1	0	.	GRCh37	3	46062858	46062858	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.582C>A	p.Phe194Leu	p.F194L	ENST00000309285	2/2	28	21	6	38	38	0	XCR1,missense_variant,p.Phe194Leu,ENST00000542109,;XCR1,missense_variant,p.Phe194Leu,ENST00000309285,;XCR1,downstream_gene_variant,,ENST00000395946,;NRBF2P2,upstream_gene_variant,,ENST00000413087,;	T	ENSG00000173578	ENST00000309285	Transcript	missense_variant	939	582	194	F/L	ttC/ttA	.	.	.	-1	XCR1	HGNC	1625	protein_coding	YES	CCDS2736.1	ENSP00000310405	XCR1_HUMAN	Q689E2_HUMAN	UPI000004358D	.	deleterious(0)	probably_damaging(1)	2/2	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24227:SF59,hmmpanther:PTHR24227,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237,Prints_domain:PR01568	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGGAAGAA	.	5	BLCA
NBEAL2	0	.	GRCh37	3	47037463	47037463	+	Silent	SNP	C	C	T	rs765372125	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2073C>T	p.%3D	p.F691F	ENST00000450053	15/54	16	9	6	31	31	0	NBEAL2,synonymous_variant,p.%3D,ENST00000450053,;NBEAL2,synonymous_variant,p.%3D,ENST00000416683,;NBEAL2,synonymous_variant,p.%3D,ENST00000292309,;NBEAL2,5_prime_UTR_variant,,ENST00000383740,;NBEAL2,upstream_gene_variant,,ENST00000475689,;	T	ENSG00000160796	ENST00000450053	Transcript	synonymous_variant	2252	2073	691	F	ttC/ttT	rs765372125	.	.	1	NBEAL2	HGNC	31928	protein_coding	YES	CCDS46817.1	ENSP00000415034	NBEL2_HUMAN	B4DVX0_HUMAN,B4DDY6_HUMAN	UPI000022C020	.	.	.	15/54	.	hmmpanther:PTHR13743:SF50,hmmpanther:PTHR13743,Pfam_domain:PF13385,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCAGCCA	.	5	BLCA
SETD2	0	.	GRCh37	3	47125360	47125360	+	Silent	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5910A>T	p.%3D	p.L1970L	ENST00000409792	12/21	142	90	52	175	175	0	SETD2,synonymous_variant,p.%3D,ENST00000409792,;snoU13,upstream_gene_variant,,ENST00000516129,;SETD2,non_coding_transcript_exon_variant,,ENST00000492397,;SETD2,synonymous_variant,p.%3D,ENST00000445387,;SETD2,3_prime_UTR_variant,,ENST00000330022,;SETD2,3_prime_UTR_variant,,ENST00000431180,;SETD2,downstream_gene_variant,,ENST00000484689,;	A	ENSG00000181555	ENST00000409792	Transcript	synonymous_variant	5953	5910	1970	L	ctA/ctT	.	.	.	-1	SETD2	HGNC	18420	protein_coding	YES	CCDS2749.2	ENSP00000386759	SETD2_HUMAN	C9JG86_HUMAN	UPI00017E10FB	.	.	.	12/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCTAGTTT	.	5	BLCA
SETD2	0	.	GRCh37	3	47162323	47162323	+	Missense_Mutation	SNP	G	G	A	rs773098323	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3803C>T	p.Ser1268Phe	p.S1268F	ENST00000409792	3/21	81	47	34	94	94	0	SETD2,missense_variant,p.Ser1268Phe,ENST00000409792,;SETD2,missense_variant,p.Ser1224Phe,ENST00000412450,;SETD2,missense_variant,p.Ser902Phe,ENST00000445387,;SETD2,missense_variant,p.Ser1140Phe,ENST00000330022,;SETD2,missense_variant,p.Ser986Phe,ENST00000431180,;	A	ENSG00000181555	ENST00000409792	Transcript	missense_variant	3846	3803	1268	S/F	tCt/tTt	rs773098323	.	.	-1	SETD2	HGNC	18420	protein_coding	YES	CCDS2749.2	ENSP00000386759	SETD2_HUMAN	C9JG86_HUMAN	UPI00017E10FB	.	deleterious(0)	possibly_damaging(0.486)	3/21	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTAGAAGGC	.	5	BLCA
PTPN23	0	.	GRCh37	3	47450465	47450465	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1530C>T	p.%3D	p.F510F	ENST00000265562	16/25	96	77	19	106	106	0	PTPN23,synonymous_variant,p.%3D,ENST00000431726,;PTPN23,synonymous_variant,p.%3D,ENST00000265562,;SCAP,downstream_gene_variant,,ENST00000545718,;SCAP,downstream_gene_variant,,ENST00000441517,;PTPN23,downstream_gene_variant,,ENST00000456221,;SCAP,downstream_gene_variant,,ENST00000265565,;PTPN23,3_prime_UTR_variant,,ENST00000602307,;PTPN23,downstream_gene_variant,,ENST00000477276,;SCAP,downstream_gene_variant,,ENST00000320017,;PTPN23,upstream_gene_variant,,ENST00000495653,;	T	ENSG00000076201	ENST00000265562	Transcript	synonymous_variant	1607	1530	510	F	ttC/ttT	COSM1328196	.	.	1	PTPN23	HGNC	14406	protein_coding	YES	CCDS2754.1	ENSP00000265562	PTN23_HUMAN	B4DST5_HUMAN	UPI000006EBC4	.	.	.	16/25	.	hmmpanther:PTHR19134:SF27,hmmpanther:PTHR19134,Pfam_domain:PF13949,Gene3D:2xs1A03	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCACCAA	.	5	BLCA
ZNF589	0	.	GRCh37	3	48310029	48310029	+	Missense_Mutation	SNP	G	G	A	rs564454039	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.848G>A	p.Arg283Gln	p.R283Q	ENST00000354698	4/4	73	46	26	108	108	0	ZNF589,missense_variant,p.Arg283Gln,ENST00000354698,;ZNF589,intron_variant,,ENST00000440261,;ZNF589,intron_variant,,ENST00000412564,;ZNF589,intron_variant,,ENST00000427617,;ZNF589,downstream_gene_variant,,ENST00000454212,;ZNF589,missense_variant,p.Arg283Gln,ENST00000448461,;ZNF589,3_prime_UTR_variant,,ENST00000457782,;	A	ENSG00000164048	ENST00000354698	Transcript	missense_variant	920	848	283	R/Q	cGa/cAa	rs564454039	.	.	1	ZNF589	HGNC	16747	protein_coding	YES	CCDS43085.1	ENSP00000346729	ZN589_HUMAN	Q59FS2_HUMAN	UPI0000190E9A	.	tolerated(0.17)	benign(0.153)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381:SF26,hmmpanther:PTHR24381,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGCGAGGCT	by1000G	5	BLCA
TREX1	0	.	GRCh37	3	48508139	48508139	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250C>T	p.Pro84Ser	p.P84S	ENST00000422277	1/1	92	70	22	134	134	0	TREX1,missense_variant,p.Pro19Ser,ENST00000444177,;TREX1,missense_variant,p.Pro29Ser,ENST00000296443,;TREX1,missense_variant,p.Pro84Ser,ENST00000422277,;TREX1,missense_variant,p.Pro29Ser,ENST00000436480,;TREX1,splice_region_variant,,ENST00000433541,;TREX1,intron_variant,,ENST00000456089,;ATRIP,downstream_gene_variant,,ENST00000320211,;SHISA5,downstream_gene_variant,,ENST00000296444,;SHISA5,downstream_gene_variant,,ENST00000442747,;ATRIP,downstream_gene_variant,,ENST00000357105,;SHISA5,downstream_gene_variant,,ENST00000444115,;SHISA5,downstream_gene_variant,,ENST00000417841,;ATRIP,downstream_gene_variant,,ENST00000346691,;ATRIP,downstream_gene_variant,,ENST00000412052,;SHISA5,downstream_gene_variant,,ENST00000426002,;SHISA5,downstream_gene_variant,,ENST00000443308,;TREX1,intron_variant,,ENST00000492235,;SHISA5,downstream_gene_variant,,ENST00000486344,;SHISA5,downstream_gene_variant,,ENST00000466424,;SHISA5,downstream_gene_variant,,ENST00000465449,;TREX1,non_coding_transcript_exon_variant,,ENST00000395677,;SHISA5,downstream_gene_variant,,ENST00000494854,;SHISA5,downstream_gene_variant,,ENST00000460758,;ATRIP,downstream_gene_variant,,ENST00000424906,;SHISA5,downstream_gene_variant,,ENST00000417962,;SHISA5,downstream_gene_variant,,ENST00000415268,;SHISA5,downstream_gene_variant,,ENST00000424965,;SHISA5,downstream_gene_variant,,ENST00000497863,;	T	ENSG00000213689	ENST00000422277	Transcript	missense_variant	911	250	84	P/S	Ccc/Tcc	.	.	.	1	TREX1	HGNC	12269	protein_coding	YES	CCDS43086.1	ENSP00000390478	TREX1_HUMAN	Q5TZT0_HUMAN,C9J052_HUMAN	UPI00000411D8	.	deleterious(0.02)	probably_damaging(1)	1/1	.	hmmpanther:PTHR13058,hmmpanther:PTHR13058:SF12,Gene3D:3.30.420.10,SMART_domains:SM00479,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGCCCAAG	.	5	BLCA
CELSR3	0	.	GRCh37	3	48677419	48677419	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9599C>G	p.Ser3200Cys	p.S3200C	ENST00000164024	34/35	44	31	13	57	57	0	CELSR3,missense_variant,p.Ser3205Cys,ENST00000544264,;CELSR3,missense_variant,p.Ser3200Cys,ENST00000164024,;SLC26A6,upstream_gene_variant,,ENST00000395550,;SLC26A6,upstream_gene_variant,,ENST00000420764,;SLC26A6,upstream_gene_variant,,ENST00000455886,;SLC26A6,upstream_gene_variant,,ENST00000431739,;SLC26A6,upstream_gene_variant,,ENST00000426599,;SLC26A6,upstream_gene_variant,,ENST00000383733,;SLC26A6,upstream_gene_variant,,ENST00000337000,;MIR4793,downstream_gene_variant,,ENST00000577502,;CELSR3,non_coding_transcript_exon_variant,,ENST00000461362,;CELSR3,non_coding_transcript_exon_variant,,ENST00000498057,;SLC26A6,upstream_gene_variant,,ENST00000307364,;CELSR3,downstream_gene_variant,,ENST00000470999,;	C	ENSG00000008300	ENST00000164024	Transcript	missense_variant	9880	9599	3200	S/C	tCt/tGt	.	.	.	-1	CELSR3	HGNC	3230	protein_coding	YES	CCDS2775.1	ENSP00000164024	CELR3_HUMAN	B4DSQ9_HUMAN	UPI00001AE5A6	.	deleterious_low_confidence(0.04)	benign(0.051)	34/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGAGAGTTC	.	5	BLCA
CELSR3	0	.	GRCh37	3	48699002	48699002	+	Missense_Mutation	SNP	C	C	T	rs770585899	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066G>A	p.Glu356Lys	p.E356K	ENST00000164024	1/35	66	43	23	98	98	0	CELSR3,missense_variant,p.Glu356Lys,ENST00000544264,;CELSR3,missense_variant,p.Glu356Lys,ENST00000164024,;NCKIPSD,downstream_gene_variant,,ENST00000341520,;RP11-148G20.1,upstream_gene_variant,,ENST00000421275,;	T	ENSG00000008300	ENST00000164024	Transcript	missense_variant	1347	1066	356	E/K	Gag/Aag	rs770585899,COSM1309237	.	.	-1	CELSR3	HGNC	3230	protein_coding	YES	CCDS2775.1	ENSP00000164024	CELR3_HUMAN	B4DSQ9_HUMAN	UPI00001AE5A6	.	deleterious(0)	possibly_damaging(0.662)	1/35	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF38,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCGCCGG	byFrequency	5	BLCA
IP6K2	0	.	GRCh37	3	48732539	48732539	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>T	p.%3D	p.F62F	ENST00000328631	2/6	78	48	30	105	105	0	IP6K2,synonymous_variant,p.%3D,ENST00000413298,;IP6K2,synonymous_variant,p.%3D,ENST00000449563,;IP6K2,synonymous_variant,p.%3D,ENST00000453202,;IP6K2,synonymous_variant,p.%3D,ENST00000412850,;IP6K2,synonymous_variant,p.%3D,ENST00000413654,;IP6K2,synonymous_variant,p.%3D,ENST00000437427,;IP6K2,synonymous_variant,p.%3D,ENST00000431721,;IP6K2,synonymous_variant,p.%3D,ENST00000454335,;IP6K2,synonymous_variant,p.%3D,ENST00000449610,;IP6K2,synonymous_variant,p.%3D,ENST00000455545,;IP6K2,synonymous_variant,p.%3D,ENST00000417896,;IP6K2,synonymous_variant,p.%3D,ENST00000340879,;IP6K2,synonymous_variant,p.%3D,ENST00000443853,;IP6K2,synonymous_variant,p.%3D,ENST00000450045,;IP6K2,synonymous_variant,p.%3D,ENST00000443964,;IP6K2,synonymous_variant,p.%3D,ENST00000446860,;IP6K2,synonymous_variant,p.%3D,ENST00000328631,;IP6K2,synonymous_variant,p.%3D,ENST00000432678,;IP6K2,downstream_gene_variant,,ENST00000434860,;IP6K2,downstream_gene_variant,,ENST00000424035,;IP6K2,downstream_gene_variant,,ENST00000440424,;IP6K2,non_coding_transcript_exon_variant,,ENST00000436134,;IP6K2,downstream_gene_variant,,ENST00000476645,;IP6K2,synonymous_variant,p.%3D,ENST00000412795,;IP6K2,synonymous_variant,p.%3D,ENST00000416707,;IP6K2,synonymous_variant,p.%3D,ENST00000433104,;IP6K2,non_coding_transcript_exon_variant,,ENST00000479914,;IP6K2,upstream_gene_variant,,ENST00000491686,;	A	ENSG00000068745	ENST00000328631	Transcript	synonymous_variant	410	186	62	F	ttC/ttT	.	.	.	-1	IP6K2	HGNC	17313	protein_coding	YES	CCDS2777.1	ENSP00000331103	IP6K2_HUMAN	C9JU99_HUMAN,C9JMC9_HUMAN,C9JLG7_HUMAN,C9JK62_HUMAN,C9JHX0_HUMAN,C9JGK2_HUMAN,B2RCP4_HUMAN	UPI00000732B2	.	.	.	2/6	.	hmmpanther:PTHR12400:SF47,hmmpanther:PTHR12400,Superfamily_domains:SSF56104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGTGAATTT	.	5	BLCA
IP6K2	0	.	GRCh37	3	48732569	48732569	+	Silent	SNP	G	G	A	rs765448591	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.156C>T	p.%3D	p.Y52Y	ENST00000328631	2/6	82	60	22	125	124	1	IP6K2,synonymous_variant,p.%3D,ENST00000413298,;IP6K2,synonymous_variant,p.%3D,ENST00000449563,;IP6K2,synonymous_variant,p.%3D,ENST00000453202,;IP6K2,synonymous_variant,p.%3D,ENST00000412850,;IP6K2,synonymous_variant,p.%3D,ENST00000413654,;IP6K2,synonymous_variant,p.%3D,ENST00000434860,;IP6K2,synonymous_variant,p.%3D,ENST00000437427,;IP6K2,synonymous_variant,p.%3D,ENST00000431721,;IP6K2,synonymous_variant,p.%3D,ENST00000454335,;IP6K2,synonymous_variant,p.%3D,ENST00000449610,;IP6K2,synonymous_variant,p.%3D,ENST00000455545,;IP6K2,synonymous_variant,p.%3D,ENST00000417896,;IP6K2,synonymous_variant,p.%3D,ENST00000440424,;IP6K2,synonymous_variant,p.%3D,ENST00000340879,;IP6K2,synonymous_variant,p.%3D,ENST00000443853,;IP6K2,synonymous_variant,p.%3D,ENST00000450045,;IP6K2,synonymous_variant,p.%3D,ENST00000443964,;IP6K2,synonymous_variant,p.%3D,ENST00000446860,;IP6K2,synonymous_variant,p.%3D,ENST00000328631,;IP6K2,synonymous_variant,p.%3D,ENST00000432678,;IP6K2,downstream_gene_variant,,ENST00000424035,;IP6K2,non_coding_transcript_exon_variant,,ENST00000436134,;IP6K2,downstream_gene_variant,,ENST00000476645,;IP6K2,synonymous_variant,p.%3D,ENST00000412795,;IP6K2,synonymous_variant,p.%3D,ENST00000416707,;IP6K2,synonymous_variant,p.%3D,ENST00000433104,;IP6K2,non_coding_transcript_exon_variant,,ENST00000479914,;IP6K2,upstream_gene_variant,,ENST00000491686,;	A	ENSG00000068745	ENST00000328631	Transcript	synonymous_variant	380	156	52	Y	taC/taT	rs765448591	.	.	-1	IP6K2	HGNC	17313	protein_coding	YES	CCDS2777.1	ENSP00000331103	IP6K2_HUMAN	C9JU99_HUMAN,C9JMC9_HUMAN,C9JLG7_HUMAN,C9JK62_HUMAN,C9JHX0_HUMAN,C9JGK2_HUMAN,B2RCP4_HUMAN	UPI00000732B2	.	.	.	2/6	.	hmmpanther:PTHR12400:SF47,hmmpanther:PTHR12400,Superfamily_domains:SSF56104	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTCGTAGAA	byFrequency	5	BLCA
CCDC36	0	.	GRCh37	3	49293802	49293802	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.872C>T	p.Ser291Phe	p.S291F	ENST00000438782	8/8	63	35	28	59	59	0	CCDC36,missense_variant,p.Ser291Phe,ENST00000438782,;CCDC36,missense_variant,p.Ser291Phe,ENST00000296449,;CCDC36,missense_variant,p.Ser291Phe,ENST00000452691,;RP11-3B7.1,upstream_gene_variant,,ENST00000440528,;RP11-3B7.7,upstream_gene_variant,,ENST00000604776,;	T	ENSG00000173421	ENST00000438782	Transcript	missense_variant	1108	872	291	S/F	tCt/tTt	.	.	.	1	CCDC36	HGNC	27945	protein_coding	YES	CCDS33755.2	ENSP00000391788	CCD36_HUMAN	.	UPI0000209CD2	.	deleterious(0.04)	benign(0.053)	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTGAGA	.	5	BLCA
USP4	0	.	GRCh37	3	49377444	49377444	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14G>A	p.Gly5Glu	p.G5E	ENST00000265560	1/22	34	22	12	33	33	0	USP4,missense_variant,p.Gly5Glu,ENST00000351842,;USP4,missense_variant,p.Gly5Glu,ENST00000265560,;USP4,missense_variant,p.Gly5Glu,ENST00000415188,;USP4,missense_variant,p.Gly5Glu,ENST00000416417,;USP4,non_coding_transcript_exon_variant,,ENST00000486549,;USP4,non_coding_transcript_exon_variant,,ENST00000464168,;USP4,intron_variant,,ENST00000491791,;	T	ENSG00000114316	ENST00000265560	Transcript	missense_variant	61	14	5	G/E	gGa/gAa	.	.	.	-1	USP4	HGNC	12627	protein_coding	YES	CCDS2793.1	ENSP00000265560	UBP4_HUMAN	.	UPI000013D63C	.	deleterious(0)	possibly_damaging(0.543)	1/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCCACCT	.	5	BLCA
IP6K1	0	.	GRCh37	3	49765080	49765080	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.801G>A	p.%3D	p.Q267Q	ENST00000321599	6/6	18	13	5	29	29	0	IP6K1,synonymous_variant,p.%3D,ENST00000321599,;IP6K1,synonymous_variant,p.%3D,ENST00000395238,;IP6K1,synonymous_variant,p.%3D,ENST00000460540,;IP6K1,intron_variant,,ENST00000468463,;GMPPB,upstream_gene_variant,,ENST00000480687,;GMPPB,upstream_gene_variant,,ENST00000308375,;GMPPB,upstream_gene_variant,,ENST00000308388,;AMIGO3,upstream_gene_variant,,ENST00000535833,;IP6K1,non_coding_transcript_exon_variant,,ENST00000495798,;GMPPB,upstream_gene_variant,,ENST00000481959,;GMPPB,upstream_gene_variant,,ENST00000495627,;	T	ENSG00000176095	ENST00000321599	Transcript	synonymous_variant	1103	801	267	Q	caG/caA	.	.	.	-1	IP6K1	HGNC	18360	protein_coding	YES	CCDS33760.1	ENSP00000323780	IP6K1_HUMAN	.	UPI0000163944	.	.	.	6/6	.	Superfamily_domains:SSF56104,Pfam_domain:PF03770,hmmpanther:PTHR12400:SF50,hmmpanther:PTHR12400	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGCTGGTA	.	5	BLCA
FAM212A	0	.	GRCh37	3	49841945	49841945	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.389C>T	p.Ser130Leu	p.S130L	ENST00000333323	2/2	41	31	10	64	64	0	FAM212A,missense_variant,p.Ser130Leu,ENST00000333323,;CDHR4,upstream_gene_variant,,ENST00000487256,;UBA7,downstream_gene_variant,,ENST00000333486,;CDHR4,upstream_gene_variant,,ENST00000343366,;CDHR4,upstream_gene_variant,,ENST00000412678,;MIR5193,downstream_gene_variant,,ENST00000584510,;UBA7,downstream_gene_variant,,ENST00000497908,;UBA7,downstream_gene_variant,,ENST00000488536,;UBA7,downstream_gene_variant,,ENST00000478875,;UBA7,downstream_gene_variant,,ENST00000483751,;	T	ENSG00000185614	ENST00000333323	Transcript	missense_variant	522	389	130	S/L	tCa/tTa	.	.	.	1	FAM212A	HGNC	32480	protein_coding	YES	CCDS2804.1	ENSP00000329735	F212A_HUMAN	.	UPI00001D7F30	.	deleterious(0.04)	benign(0.016)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGTCA	.	5	BLCA
MST1R	0	.	GRCh37	3	49940232	49940232	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811G>A	p.Asp271Asn	p.D271N	ENST00000296474	1/20	58	37	21	80	80	0	MST1R,missense_variant,p.Asp271Asn,ENST00000344206,;MST1R,missense_variant,p.Asp271Asn,ENST00000296474,;CTD-2330K9.3,upstream_gene_variant,,ENST00000419183,;CTD-2330K9.2,intron_variant,,ENST00000435478,;CTD-2330K9.3,upstream_gene_variant,,ENST00000424174,;CTD-2330K9.3,upstream_gene_variant,,ENST00000412015,;MST1R,missense_variant,p.Asp271Asn,ENST00000411578,;MST1R,non_coding_transcript_exon_variant,,ENST00000468525,;MST1R,non_coding_transcript_exon_variant,,ENST00000497001,;MST1R,non_coding_transcript_exon_variant,,ENST00000493535,;MST1R,non_coding_transcript_exon_variant,,ENST00000485044,;	T	ENSG00000164078	ENST00000296474	Transcript	missense_variant	839	811	271	D/N	Gat/Aat	.	.	.	-1	MST1R	HGNC	7381	protein_coding	YES	CCDS2807.1	ENSP00000296474	RON_HUMAN	.	UPI000013E344	.	tolerated(0.46)	benign(0.158)	1/20	.	PROSITE_profiles:PS51004,Pfam_domain:PF01403,Gene3D:2.130.10.10,SMART_domains:SM00630,PIRSF_domain:PIRSF000617,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCTGTCA	.	5	BLCA
RBM6	0	.	GRCh37	3	50009541	50009541	+	Missense_Mutation	SNP	T	T	C	rs148410099	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1373T>C	p.Ile458Thr	p.I458T	ENST00000266022	4/21	40	26	13	51	51	0	RBM6,missense_variant,p.Ile458Thr,ENST00000266022,;RBM6,missense_variant,p.Ile326Thr,ENST00000443081,;RBM6,5_prime_UTR_variant,,ENST00000422955,;RBM6,intron_variant,,ENST00000539992,;RBM6,intron_variant,,ENST00000442092,;RBM6,downstream_gene_variant,,ENST00000433811,;RBM6,non_coding_transcript_exon_variant,,ENST00000441115,;RBM6,downstream_gene_variant,,ENST00000491874,;RBM6,downstream_gene_variant,,ENST00000488807,;RBM6,missense_variant,p.Ile458Thr,ENST00000425608,;RBM6,missense_variant,p.Ile326Thr,ENST00000454079,;RBM6,5_prime_UTR_variant,,ENST00000434592,;RBM6,intron_variant,,ENST00000419610,;	C	ENSG00000004534	ENST00000266022	Transcript	missense_variant	1632	1373	458	I/T	aTt/aCt	rs148410099	.	.	1	RBM6	HGNC	9903	protein_coding	YES	CCDS2809.1	ENSP00000266022	RBM6_HUMAN	E9PGM9_HUMAN,C9JSL1_HUMAN,C9JMC8_HUMAN,C9JII0_HUMAN,B4DNY1_HUMAN	UPI000013D6C0	.	deleterious(0)	probably_damaging(0.999)	4/21	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,Pfam_domain:PF14259,hmmpanther:PTHR13948:SF22,hmmpanther:PTHR13948,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	C:0.0002	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTATTCGAT	byCluster	5	BLCA
SEMA3F	0	.	GRCh37	3	50197164	50197164	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109A>G	p.Lys37Glu	p.K37E	ENST00000002829	2/19	24	18	6	38	38	0	SEMA3F,missense_variant,p.Lys37Glu,ENST00000414301,;SEMA3F,missense_variant,p.Lys37Glu,ENST00000002829,;SEMA3F,missense_variant,p.Lys37Glu,ENST00000434342,;SEMA3F,missense_variant,p.Lys37Glu,ENST00000450338,;SEMA3F,missense_variant,p.Lys37Glu,ENST00000426511,;SEMA3F,5_prime_UTR_variant,,ENST00000413852,;RP11-493K19.3,upstream_gene_variant,,ENST00000425674,;RP11-493K19.3,upstream_gene_variant,,ENST00000437204,;	G	ENSG00000001617	ENST00000002829	Transcript	missense_variant	593	109	37	K/E	Aaa/Gaa	.	.	.	1	SEMA3F	HGNC	10728	protein_coding	YES	CCDS2811.1	ENSP00000002829	SEM3F_HUMAN	.	UPI0000135A69	.	tolerated(0.1)	benign(0.138)	2/19	.	PROSITE_profiles:PS51004,hmmpanther:PTHR11036:SF27,hmmpanther:PTHR11036,Gene3D:2.130.10.10,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCAAAGGT	.	5	BLCA
ZMYND10	0	.	GRCh37	3	50379881	50379881	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.820G>A	p.Glu274Lys	p.E274K	ENST00000231749	8/12	22	15	7	31	31	0	ZMYND10,missense_variant,p.Glu269Lys,ENST00000360165,;ZMYND10,missense_variant,p.Glu274Lys,ENST00000231749,;ZMYND10,missense_variant,p.Glu231Lys,ENST00000442887,;RASSF1,upstream_gene_variant,,ENST00000357043,;RASSF1,upstream_gene_variant,,ENST00000327761,;RASSF1,upstream_gene_variant,,ENST00000395126,;RASSF1,upstream_gene_variant,,ENST00000359365,;ZMYND10-AS1,intron_variant,,ENST00000440013,;RASSF1,upstream_gene_variant,,ENST00000488024,;ZMYND10,downstream_gene_variant,,ENST00000468182,;ZMYND10,upstream_gene_variant,,ENST00000490675,;ZMYND10,non_coding_transcript_exon_variant,,ENST00000475688,;ZMYND10,downstream_gene_variant,,ENST00000443080,;RASSF1,upstream_gene_variant,,ENST00000478619,;RASSF1,upstream_gene_variant,,ENST00000482447,;RASSF1,upstream_gene_variant,,ENST00000494145,;RASSF1,upstream_gene_variant,,ENST00000395117,;NPRL2,downstream_gene_variant,,ENST00000476064,;ZMYND10,downstream_gene_variant,,ENST00000478269,;ZMYND10,downstream_gene_variant,,ENST00000431869,;	T	ENSG00000004838	ENST00000231749	Transcript	missense_variant	2093	820	274	E/K	Gag/Aag	.	.	.	-1	ZMYND10	HGNC	19412	protein_coding	YES	CCDS2825.1	ENSP00000231749	ZMY10_HUMAN	C9JUQ8_HUMAN	UPI0000126A0E	.	tolerated(0.1)	benign(0.015)	8/12	.	hmmpanther:PTHR13244,hmmpanther:PTHR13244:SF6,PIRSF_domain:PIRSF037948	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCAGGGC	.	5	BLCA
CACNA2D2	0	.	GRCh37	3	50403695	50403695	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2730+3G>A	.	.	ENST00000479441	.	88	61	27	140	140	0	CACNA2D2,splice_region_variant,,ENST00000360963,;CACNA2D2,splice_region_variant,,ENST00000435965,;CACNA2D2,splice_region_variant,,ENST00000266039,;CACNA2D2,splice_region_variant,,ENST00000429770,;CACNA2D2,splice_region_variant,,ENST00000424201,;CACNA2D2,splice_region_variant,,ENST00000423994,;CACNA2D2,splice_region_variant,,ENST00000479441,;CACNA2D2,splice_region_variant,,ENST00000395083,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;XXcos-LUCA11.4,non_coding_transcript_exon_variant,,ENST00000607088,;XXcos-LUCA11.4,intron_variant,,ENST00000606665,;XXcos-LUCA11.4,intron_variant,,ENST00000607583,;XXcos-LUCA11.4,intron_variant,,ENST00000607121,;XXcos-LUCA11.4,intron_variant,,ENST00000606259,;XXcos-LUCA11.4,upstream_gene_variant,,ENST00000607362,;CACNA2D2,upstream_gene_variant,,ENST00000483620,;	T	ENSG00000007402	ENST00000479441	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	CACNA2D2	HGNC	1400	protein_coding	YES	CCDS54588.1	ENSP00000418081	CA2D2_HUMAN	.	UPI0000E5A6AF	.	.	.	.	32/38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCACCTG	.	4	BLCA
DOCK3	0	.	GRCh37	3	51418790	51418790	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5893C>T	p.Gln1965Ter	p.Q1965*	ENST00000266037	53/53	39	29	10	49	49	0	DOCK3,stop_gained,p.Gln1965Ter,ENST00000266037,;MANF,upstream_gene_variant,,ENST00000528157,;MANF,upstream_gene_variant,,ENST00000470900,;MANF,upstream_gene_variant,,ENST00000446668,;	T	ENSG00000088538	ENST00000266037	Transcript	stop_gained	5916	5893	1965	Q/*	Cag/Tag	.	.	.	1	DOCK3	HGNC	2989	protein_coding	YES	CCDS46835.1	ENSP00000266037	DOCK3_HUMAN	.	UPI000007412C	.	.	.	53/53	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCAGGAC	.	5	BLCA
MANF	0	.	GRCh37	3	51425299	51425299	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.354G>A	p.%3D	p.E118E	ENST00000528157	3/4	13	8	4	33	33	0	MANF,synonymous_variant,p.%3D,ENST00000528157,;DOCK3,downstream_gene_variant,,ENST00000266037,;RBM15B,upstream_gene_variant,,ENST00000323686,;MANF,non_coding_transcript_exon_variant,,ENST00000470900,;MANF,3_prime_UTR_variant,,ENST00000446668,;MANF,non_coding_transcript_exon_variant,,ENST00000482262,;	A	ENSG00000145050	ENST00000528157	Transcript	synonymous_variant	650	354	118	E	gaG/gaA	.	.	.	1	MANF	HGNC	15461	protein_coding	YES	CCDS46836.2	ENSP00000432799	MANF_HUMAN	A8K878_HUMAN	UPI0000169E96	.	.	.	3/4	.	Pfam_domain:PF10208,hmmpanther:PTHR12990,hmmpanther:PTHR12990:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	TGTGAGCTTAA	.	4	BLCA
RBM15B	0	.	GRCh37	3	51429225	51429225	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395C>T	p.Ser132Phe	p.S132F	ENST00000323686	1/1	44	35	9	44	44	0	RBM15B,missense_variant,p.Ser132Phe,ENST00000323686,;MANF,downstream_gene_variant,,ENST00000528157,;VPRBP,downstream_gene_variant,,ENST00000423656,;MANF,downstream_gene_variant,,ENST00000470900,;MANF,downstream_gene_variant,,ENST00000446668,;MANF,downstream_gene_variant,,ENST00000482262,;	T	ENSG00000179837	ENST00000323686	Transcript	missense_variant	495	395	132	S/F	tCc/tTc	.	.	.	1	RBM15B	HGNC	24303	protein_coding	YES	CCDS33764.1	ENSP00000313890	RB15B_HUMAN	.	UPI0000160BDE	.	tolerated(0.05)	benign(0.015)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23189:SF40,hmmpanther:PTHR23189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCATCCGCGG	.	2	BLCA
RAD54L2	0	.	GRCh37	3	51672178	51672178	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1701G>A	p.%3D	p.L567L	ENST00000409535	11/22	26	21	5	37	37	0	RAD54L2,synonymous_variant,p.%3D,ENST00000296477,;RAD54L2,synonymous_variant,p.%3D,ENST00000432863,;RAD54L2,synonymous_variant,p.%3D,ENST00000409535,;RAD54L2,non_coding_transcript_exon_variant,,ENST00000487093,;RAD54L2,non_coding_transcript_exon_variant,,ENST00000461680,;	A	ENSG00000164080	ENST00000409535	Transcript	synonymous_variant	1826	1701	567	L	ctG/ctA	.	.	.	1	RAD54L2	HGNC	29123	protein_coding	YES	CCDS33765.2	ENSP00000386520	ARIP4_HUMAN	E7EU19_HUMAN	UPI000022C0AA	.	.	.	11/22	.	hmmpanther:PTHR10799:SF51,hmmpanther:PTHR10799,Pfam_domain:PF00176	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGCTGAAGAT	.	3	BLCA
RAD54L2	0	.	GRCh37	3	51672185	51672185	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1708C>T	p.His570Tyr	p.H570Y	ENST00000409535	11/22	25	21	4	41	41	0	RAD54L2,missense_variant,p.His264Tyr,ENST00000296477,;RAD54L2,missense_variant,p.His399Tyr,ENST00000432863,;RAD54L2,missense_variant,p.His570Tyr,ENST00000409535,;RAD54L2,non_coding_transcript_exon_variant,,ENST00000487093,;RAD54L2,non_coding_transcript_exon_variant,,ENST00000461680,;	T	ENSG00000164080	ENST00000409535	Transcript	missense_variant	1833	1708	570	H/Y	Cat/Tat	.	.	.	1	RAD54L2	HGNC	29123	protein_coding	YES	CCDS33765.2	ENSP00000386520	ARIP4_HUMAN	E7EU19_HUMAN	UPI000022C0AA	.	deleterious(0.05)	benign(0.433)	11/22	.	hmmpanther:PTHR10799:SF51,hmmpanther:PTHR10799,Pfam_domain:PF00176,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATTCATCTC	.	2	BLCA
PARP3	0	.	GRCh37	3	51978429	51978429	+	Silent	SNP	C	C	T	rs541784687,rs769528184	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357C>T	p.%3D	p.I119I	ENST00000398755	4/11	91	59	32	124	124	0	PARP3,synonymous_variant,p.%3D,ENST00000498510,;PARP3,synonymous_variant,p.%3D,ENST00000417220,;PARP3,synonymous_variant,p.%3D,ENST00000398755,;PARP3,synonymous_variant,p.%3D,ENST00000431474,;RRP9,upstream_gene_variant,,ENST00000232888,;PARP3,upstream_gene_variant,,ENST00000486510,;PARP3,3_prime_UTR_variant,,ENST00000471971,;PARP3,non_coding_transcript_exon_variant,,ENST00000470601,;PARP3,non_coding_transcript_exon_variant,,ENST00000470749,;PARP3,upstream_gene_variant,,ENST00000475782,;	T	ENSG00000041880	ENST00000398755	Transcript	synonymous_variant	688	357	119	I	atC/atT	rs541784687,rs769528184	.	.	1	PARP3	HGNC	273	protein_coding	YES	CCDS46839.1	ENSP00000381740	PARP3_HUMAN	C9J9C7_HUMAN	UPI00015E16A5	.	.	.	4/11	.	hmmpanther:PTHR15447:SF9,hmmpanther:PTHR15447,Pfam_domain:PF05406,Gene3D:2ra8A01,SMART_domains:SM00773,Superfamily_domains:0052256	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	-:0	-:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATCAACCA	by1000G	5	BLCA
TLR9	0	.	GRCh37	3	52257038	52257038	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1754G>A	p.Glu586Lys	p.E586K	ENST00000494383	5/5	80	60	19	107	107	0	TLR9,missense_variant,p.Glu586Lys,ENST00000494383,;TLR9,missense_variant,p.Glu456Lys,ENST00000597542,;TLR9,missense_variant,p.Glu432Lys,ENST00000360658,;TLR9,downstream_gene_variant,,ENST00000478201,;	T	ENSG00000173366	ENST00000494383	Transcript	missense_variant	1754	1756	586	E/K	Gag/Aag	.	.	.	-1	TLR9	Uniprot_gn	15633	protein_coding	YES	.	ENSP00000417517	.	C3W5P5_HUMAN	UPI0001B795AC	.	tolerated(0.91)	benign(0.002)	5/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373:SF37,hmmpanther:PTHR24373,SMART_domains:SM00369	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCGAAG	.	5	BLCA
EDEM1	0	.	GRCh37	3	5244802	5244802	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1010G>A	p.Trp337Ter	p.W337*	ENST00000256497	5/12	111	82	28	156	156	0	EDEM1,stop_gained,p.Trp142Ter,ENST00000445686,;EDEM1,stop_gained,p.Trp337Ter,ENST00000256497,;EDEM1,3_prime_UTR_variant,,ENST00000434243,;EDEM1,non_coding_transcript_exon_variant,,ENST00000465369,;EDEM1,downstream_gene_variant,,ENST00000492751,;	A	ENSG00000134109	ENST00000256497	Transcript	stop_gained	1143	1010	337	W/*	tGg/tAg	.	.	.	1	EDEM1	HGNC	18967	protein_coding	YES	CCDS33686.1	ENSP00000256497	EDEM1_HUMAN	.	UPI0000040633	.	.	.	5/12	.	hmmpanther:PTHR11742,hmmpanther:PTHR11742:SF25,Pfam_domain:PF01532,Gene3D:1.50.10.50,Superfamily_domains:SSF48225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTGGAACC	.	5	BLCA
EDEM1	0	.	GRCh37	3	5244803	5244803	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011G>A	p.Trp337Ter	p.W337*	ENST00000256497	5/12	111	82	28	157	157	0	EDEM1,stop_gained,p.Trp142Ter,ENST00000445686,;EDEM1,stop_gained,p.Trp337Ter,ENST00000256497,;EDEM1,3_prime_UTR_variant,,ENST00000434243,;EDEM1,non_coding_transcript_exon_variant,,ENST00000465369,;EDEM1,downstream_gene_variant,,ENST00000492751,;	A	ENSG00000134109	ENST00000256497	Transcript	stop_gained	1144	1011	337	W/*	tgG/tgA	.	.	.	1	EDEM1	HGNC	18967	protein_coding	YES	CCDS33686.1	ENSP00000256497	EDEM1_HUMAN	.	UPI0000040633	.	.	.	5/12	.	hmmpanther:PTHR11742,hmmpanther:PTHR11742:SF25,Pfam_domain:PF01532,Gene3D:1.50.10.50,Superfamily_domains:SSF48225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTGGAACCT	.	5	BLCA
STAB1	0	.	GRCh37	3	52539784	52539784	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1682A>G	p.Tyr561Cys	p.Y561C	ENST00000321725	15/69	34	24	10	55	55	0	STAB1,missense_variant,p.Tyr561Cys,ENST00000321725,;STAB1,non_coding_transcript_exon_variant,,ENST00000481607,;STAB1,upstream_gene_variant,,ENST00000484850,;STAB1,downstream_gene_variant,,ENST00000479355,;	G	ENSG00000010327	ENST00000321725	Transcript	missense_variant	1758	1682	561	Y/C	tAc/tGc	.	.	.	1	STAB1	HGNC	18628	protein_coding	YES	CCDS33768.1	ENSP00000312946	STAB1_HUMAN	.	UPI0000140C12	.	deleterious(0)	probably_damaging(0.998)	15/69	.	Superfamily_domains:SSF82153,SMART_domains:SM00554,Pfam_domain:PF02469,Gene3D:2.30.180.10,hmmpanther:PTHR24038:SF2,hmmpanther:PTHR24038,PROSITE_profiles:PS50213	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTACCTCT	.	5	BLCA
NEK4	0	.	GRCh37	3	52797539	52797539	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768G>A	p.%3D	p.L256L	ENST00000233027	5/16	182	121	61	238	238	0	NEK4,synonymous_variant,p.%3D,ENST00000233027,;NEK4,synonymous_variant,p.%3D,ENST00000461689,;NEK4,synonymous_variant,p.%3D,ENST00000383721,;NEK4,synonymous_variant,p.%3D,ENST00000535191,;NEK4,downstream_gene_variant,,ENST00000496822,;	T	ENSG00000114904	ENST00000233027	Transcript	synonymous_variant	971	768	256	L	ctG/ctA	.	.	.	-1	NEK4	HGNC	11399	protein_coding	YES	CCDS2863.1	ENSP00000233027	NEK4_HUMAN	.	UPI000013C96A	.	.	.	5/16	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24361,hmmpanther:PTHR24361:SF240,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCAGGAT	.	5	BLCA
ITIH1	0	.	GRCh37	3	52816049	52816049	+	Missense_Mutation	SNP	G	G	A	rs760443050	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.781G>A	p.Asp261Asn	p.D261N	ENST00000273283	7/22	50	40	10	62	62	0	ITIH1,missense_variant,p.Asp261Asn,ENST00000273283,;ITIH1,missense_variant,p.Asp261Asn,ENST00000542827,;ITIH1,missense_variant,p.Asp119Asn,ENST00000540715,;ITIH1,5_prime_UTR_variant,,ENST00000537050,;ITIH1,upstream_gene_variant,,ENST00000428133,;ITIH1,non_coding_transcript_exon_variant,,ENST00000478667,;ITIH1,non_coding_transcript_exon_variant,,ENST00000487686,;ITIH1,non_coding_transcript_exon_variant,,ENST00000494603,;ITIH1,upstream_gene_variant,,ENST00000484844,;ITIH1,downstream_gene_variant,,ENST00000480409,;	A	ENSG00000055957	ENST00000273283	Transcript	missense_variant	805	781	261	D/N	Gat/Aat	rs760443050	.	.	1	ITIH1	HGNC	6166	protein_coding	YES	CCDS2864.1	ENSP00000273283	ITIH1_HUMAN	.	UPI000012DA1C	.	deleterious(0.03)	possibly_damaging(0.74)	7/22	.	Superfamily_domains:SSF53300,hmmpanther:PTHR10338,hmmpanther:PTHR10338:SF106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTACGATGTC	byFrequency	5	BLCA
DCP1A	0	.	GRCh37	3	53321679	53321679	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1675-1G>A	.	p.X559_splice	ENST00000607628	.	30	18	11	53	53	0	DCP1A,splice_acceptor_variant,,ENST00000606822,;DCP1A,splice_acceptor_variant,,ENST00000294241,;DCP1A,splice_acceptor_variant,,ENST00000607628,;snoU13,upstream_gene_variant,,ENST00000458956,;RN7SL821P,upstream_gene_variant,,ENST00000579907,;Y_RNA,upstream_gene_variant,,ENST00000384175,;DCP1A,splice_acceptor_variant,,ENST00000494659,;DCP1A,splice_acceptor_variant,,ENST00000480258,;DCP1A,downstream_gene_variant,,ENST00000560624,;DCP1A,splice_acceptor_variant,,ENST00000558034,;	T	ENSG00000162290	ENST00000607628	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	DCP1A	HGNC	18714	protein_coding	YES	.	ENSP00000475920	.	U3KQI9_HUMAN	UPI00001AEBBA	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCTAGAA	.	5	BLCA
DCP1A	0	.	GRCh37	3	53378932	53378932	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173G>A	p.Arg58Gln	p.R58Q	ENST00000607628	2/10	51	34	16	68	68	0	DCP1A,missense_variant,p.Arg58Gln,ENST00000606822,;DCP1A,missense_variant,p.Arg58Gln,ENST00000294241,;DCP1A,missense_variant,p.Arg58Gln,ENST00000607628,;DCP1A,non_coding_transcript_exon_variant,,ENST00000560076,;DCP1A,non_coding_transcript_exon_variant,,ENST00000559748,;DCP1A,non_coding_transcript_exon_variant,,ENST00000494659,;DCP1A,non_coding_transcript_exon_variant,,ENST00000560624,;DCP1A,non_coding_transcript_exon_variant,,ENST00000480258,;	T	ENSG00000162290	ENST00000607628	Transcript	missense_variant	283	173	58	R/Q	cGa/cAa	COSM308376	.	.	-1	DCP1A	HGNC	18714	protein_coding	YES	.	ENSP00000475920	.	U3KQI9_HUMAN	UPI00001AEBBA	.	tolerated(0.12)	possibly_damaging(0.905)	2/10	.	hmmpanther:PTHR16290,hmmpanther:PTHR16290:SF2,Pfam_domain:PF06058,Gene3D:2.30.29.30,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCGATAT	.	5	BLCA
CACNA1D	0	.	GRCh37	3	53756368	53756368	+	Silent	SNP	C	C	T	rs762756866	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1593C>T	p.%3D	p.F531F	ENST00000288139	13/49	65	45	19	111	111	0	CACNA1D,synonymous_variant,p.%3D,ENST00000481085,;CACNA1D,synonymous_variant,p.%3D,ENST00000288139,;CACNA1D,synonymous_variant,p.%3D,ENST00000422281,;CACNA1D,synonymous_variant,p.%3D,ENST00000350061,;CACNA1D,synonymous_variant,p.%3D,ENST00000481478,;	T	ENSG00000157388	ENST00000288139	Transcript	synonymous_variant	1711	1593	531	F	ttC/ttT	rs762756866	.	.	1	CACNA1D	HGNC	1391	protein_coding	YES	CCDS2872.1	ENSP00000288139	CAC1D_HUMAN	.	UPI000005031A	.	.	.	13/49	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10037:SF139,hmmpanther:PTHR10037,Prints_domain:PR01630	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R513H|c.1538G>A|3,BUFFER|p.R533H|c.1598G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGATTCAATCG	.	5	BLCA
FAM208A	0	.	GRCh37	3	56667336	56667336	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3483G>A	p.Met1161Ile	p.M1161I	ENST00000493960	18/24	127	82	45	182	182	0	FAM208A,missense_variant,p.Met1100Ile,ENST00000355628,;FAM208A,missense_variant,p.Met1161Ile,ENST00000493960,;FAM208A,missense_variant,p.Met724Ile,ENST00000431842,;FAM208A,non_coding_transcript_exon_variant,,ENST00000459993,;FAM208A,upstream_gene_variant,,ENST00000487036,;FAM208A,upstream_gene_variant,,ENST00000461863,;	T	ENSG00000163946	ENST00000493960	Transcript	missense_variant	3494	3483	1161	M/I	atG/atA	.	.	.	-1	FAM208A	HGNC	30314	protein_coding	YES	CCDS46853.1	ENSP00000417509	F208A_HUMAN	.	UPI0000422561	.	tolerated(0.47)	benign(0.002)	18/24	.	hmmpanther:PTHR16207:SF1,hmmpanther:PTHR16207	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTCATTTC	.	5	BLCA
ASB14	0	.	GRCh37	3	57302583	57302583	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1086G>A	.	.	ENST00000487349	11/11	38	22	16	56	56	0	ASB14,3_prime_UTR_variant,,ENST00000487349,;ASB14,3_prime_UTR_variant,,ENST00000389601,;APPL1,intron_variant,,ENST00000288266,;APPL1,downstream_gene_variant,,ENST00000488530,;APPL1,downstream_gene_variant,,ENST00000482800,;	T	ENSG00000239388	ENST00000487349	Transcript	3_prime_UTR_variant	2971	.	.	.	.	.	.	.	-1	ASB14	HGNC	19766	protein_coding	YES	CCDS46856.2	ENSP00000419199	ASB14_HUMAN	.	UPI0000E5A753	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCAGATT	.	5	BLCA
PDE12	0	.	GRCh37	3	57542118	57542118	+	Silent	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12C>G	p.%3D	p.L4L	ENST00000311180	1/3	10	5	5	13	13	0	PDE12,synonymous_variant,p.%3D,ENST00000311180,;PDE12,synonymous_variant,p.%3D,ENST00000487257,;	G	ENSG00000174840	ENST00000311180	Transcript	synonymous_variant	115	12	4	L	ctC/ctG	.	.	.	1	PDE12	HGNC	25386	protein_coding	YES	CCDS33772.1	ENSP00000309142	PDE12_HUMAN	.	UPI000049DFA7	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGCTCCCAGG	.	3	BLCA
DENND6A	0	.	GRCh37	3	57647245	57647245	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.547C>A	p.His183Asn	p.H183N	ENST00000311128	6/20	44	31	12	48	48	0	DENND6A,missense_variant,p.His183Asn,ENST00000311128,;DENND6A,upstream_gene_variant,,ENST00000477344,;DENND6A,non_coding_transcript_exon_variant,,ENST00000487662,;DENND6A,downstream_gene_variant,,ENST00000464875,;	T	ENSG00000174839	ENST00000311128	Transcript	missense_variant	618	547	183	H/N	Cat/Aat	.	.	.	-1	DENND6A	HGNC	26635	protein_coding	YES	CCDS33773.1	ENSP00000311401	DEN6A_HUMAN	.	UPI00000744F6	.	tolerated(1)	benign(0.004)	6/20	.	hmmpanther:PTHR13677:SF1,hmmpanther:PTHR13677,Pfam_domain:PF09794	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGAATAT	.	5	BLCA
CADPS	0	.	GRCh37	3	62503846	62503846	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2371G>C	p.Glu791Gln	p.E791Q	ENST00000383710	14/30	57	41	16	81	81	0	CADPS,missense_variant,p.Glu774Gln,ENST00000357948,;CADPS,missense_variant,p.Glu189Gln,ENST00000468271,;CADPS,missense_variant,p.Glu98Gln,ENST00000491424,;CADPS,missense_variant,p.Glu791Gln,ENST00000283269,;CADPS,missense_variant,p.Glu791Gln,ENST00000383710,;	G	ENSG00000163618	ENST00000383710	Transcript	missense_variant	2721	2371	791	E/Q	Gaa/Caa	.	.	.	-1	CADPS	HGNC	1426	protein_coding	YES	CCDS46858.1	ENSP00000373215	CAPS1_HUMAN	.	UPI00001C036A	.	deleterious(0.02)	benign(0.403)	14/30	.	hmmpanther:PTHR12166:SF5,hmmpanther:PTHR12166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCTAGCA	.	5	BLCA
KBTBD8	0	.	GRCh37	3	67054363	67054363	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.972G>A	p.%3D	p.L324L	ENST00000417314	3/4	91	61	30	138	138	0	KBTBD8,synonymous_variant,p.%3D,ENST00000417314,;KBTBD8,synonymous_variant,p.%3D,ENST00000295568,;KBTBD8,intron_variant,,ENST00000460576,;KBTBD8,downstream_gene_variant,,ENST00000460784,;KBTBD8,downstream_gene_variant,,ENST00000484414,;KBTBD8,downstream_gene_variant,,ENST00000469661,;	A	ENSG00000163376	ENST00000417314	Transcript	synonymous_variant	1021	972	324	L	ctG/ctA	.	.	.	1	KBTBD8	HGNC	30691	protein_coding	YES	CCDS2906.2	ENSP00000401878	KBTB8_HUMAN	C9JAA6_HUMAN,C9J331_HUMAN	UPI0000209974	.	.	.	3/4	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF24,Gene3D:1zgkA00,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTGAGAGA	.	5	BLCA
MITF	0	.	GRCh37	3	69988264	69988264	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598G>A	p.Glu200Lys	p.E200K	ENST00000352241	4/10	21	12	9	29	29	0	MITF,missense_variant,p.Glu92Lys,ENST00000433517,;MITF,missense_variant,p.Glu184Lys,ENST00000314589,;MITF,missense_variant,p.Glu93Lys,ENST00000394351,;MITF,missense_variant,p.Glu148Lys,ENST00000472437,;MITF,missense_variant,p.Glu200Lys,ENST00000352241,;MITF,missense_variant,p.Glu37Lys,ENST00000531774,;MITF,missense_variant,p.Glu199Lys,ENST00000328528,;MITF,missense_variant,p.Glu175Lys,ENST00000394355,;MITF,missense_variant,p.Glu184Lys,ENST00000451708,;MITF,missense_variant,p.Glu93Lys,ENST00000314557,;MITF,missense_variant,p.Glu200Lys,ENST00000448226,;MITF,downstream_gene_variant,,ENST00000429090,;MITF,non_coding_transcript_exon_variant,,ENST00000461014,;MITF,downstream_gene_variant,,ENST00000394348,;MITF,missense_variant,p.Glu93Lys,ENST00000478490,;	A	ENSG00000187098	ENST00000352241	Transcript	missense_variant	761	598	200	E/K	Gaa/Aaa	.	.	.	1	MITF	HGNC	7105	protein_coding	YES	CCDS43106.1	ENSP00000295600	MITF_HUMAN	C9K0S7_HUMAN	UPI000002ADF8	.	tolerated(0.48)	benign(0.409)	4/10	.	hmmpanther:PTHR10014,hmmpanther:PTHR10014:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTTGAAGAG	.	5	BLCA
CPNE9	0	.	GRCh37	3	9757688	9757688	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>A	p.Glu285Lys	p.E285K	ENST00000383832	14/21	20	10	9	26	26	0	CPNE9,missense_variant,p.Glu285Lys,ENST00000383832,;CPNE9,missense_variant,p.Glu285Lys,ENST00000383831,;CPNE9,intron_variant,,ENST00000273027,;	A	ENSG00000144550	ENST00000383832	Transcript	missense_variant	1043	853	285	E/K	Gaa/Aaa	.	.	.	1	CPNE9	HGNC	24336	protein_coding	YES	CCDS2574.2	ENSP00000373343	CPNE9_HUMAN	.	UPI0000412048	.	tolerated(0.08)	benign(0.075)	14/21	.	hmmpanther:PTHR10857:SF10,hmmpanther:PTHR10857	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTGAATTC	.	5	BLCA
CRYBG3	0	.	GRCh37	3	97596156	97596156	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>A	p.Glu92Lys	p.E92K	ENST00000182096	1/19	67	46	21	68	68	0	CRYBG3,missense_variant,p.Glu92Lys,ENST00000182096,;CRYBG3,downstream_gene_variant,,ENST00000419587,;	A	ENSG00000080200	ENST00000182096	Transcript	missense_variant	338	274	92	E/K	Gaa/Aaa	.	.	.	1	CRYBG3	HGNC	34427	protein_coding	YES	.	ENSP00000182096	CRBG3_HUMAN	.	UPI00006E232D	.	deleterious_low_confidence(0.02)	benign(0.149)	1/19	.	hmmpanther:PTHR11818:SF38,hmmpanther:PTHR11818	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTGAAAGG	.	5	BLCA
TADA3	0	.	GRCh37	3	9822006	9822006	+	3'UTR	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*35A>G	.	.	ENST00000301964	9/9	32	18	14	27	27	0	TADA3,3_prime_UTR_variant,,ENST00000440161,;TADA3,3_prime_UTR_variant,,ENST00000301964,;OGG1,intron_variant,,ENST00000426518,;TADA3,downstream_gene_variant,,ENST00000343450,;TADA3,non_coding_transcript_exon_variant,,ENST00000492103,;	C	ENSG00000171148	ENST00000301964	Transcript	3_prime_UTR_variant	1893	.	.	.	.	.	.	.	-1	TADA3	HGNC	19422	protein_coding	YES	CCDS2583.1	ENSP00000307684	TADA3_HUMAN	C9JMS0_HUMAN	UPI000006F454	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCCTAGGCC	.	5	BLCA
RPUSD3	0	.	GRCh37	3	9885182	9885182	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.229G>A	p.Asp77Asn	p.D77N	ENST00000383820	2/9	57	36	21	72	72	0	RPUSD3,missense_variant,p.Asp92Asn,ENST00000433972,;RPUSD3,missense_variant,p.Asp77Asn,ENST00000433535,;RPUSD3,missense_variant,p.Asp68Asn,ENST00000427174,;RPUSD3,missense_variant,p.Asp73Asn,ENST00000418713,;RPUSD3,missense_variant,p.Asp77Asn,ENST00000383820,;RPUSD3,missense_variant,p.Asp45Asn,ENST00000424438,;TTLL3,intron_variant,,ENST00000455274,;RPUSD3,intron_variant,,ENST00000433555,;RPUSD3,upstream_gene_variant,,ENST00000423108,;RPUSD3,non_coding_transcript_exon_variant,,ENST00000473522,;RPUSD3,non_coding_transcript_exon_variant,,ENST00000485705,;RPUSD3,non_coding_transcript_exon_variant,,ENST00000484134,;RPUSD3,non_coding_transcript_exon_variant,,ENST00000475470,;RPUSD3,non_coding_transcript_exon_variant,,ENST00000460909,;RPUSD3,non_coding_transcript_exon_variant,,ENST00000472381,;RPUSD3,intron_variant,,ENST00000451405,;RPUSD3,upstream_gene_variant,,ENST00000466141,;RPUSD3,upstream_gene_variant,,ENST00000464783,;	T	ENSG00000156990	ENST00000383820	Transcript	missense_variant	231	229	77	D/N	Gat/Aat	.	.	.	-1	RPUSD3	HGNC	28437	protein_coding	YES	CCDS2586.2	ENSP00000373331	RUSD3_HUMAN	B4DS39_HUMAN,A8K773_HUMAN	UPI000066D9E0	.	tolerated(0.18)	benign(0.086)	2/9	.	hmmpanther:PTHR10436:SF46,hmmpanther:PTHR10436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCATCAACCA	.	5	BLCA
FILIP1L	0	.	GRCh37	3	99568911	99568911	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1609G>A	p.Glu537Lys	p.E537K	ENST00000354552	5/6	75	46	28	75	75	0	FILIP1L,missense_variant,p.Glu113Lys,ENST00000487087,;FILIP1L,missense_variant,p.Glu537Lys,ENST00000354552,;FILIP1L,missense_variant,p.Glu537Lys,ENST00000331335,;FILIP1L,missense_variant,p.Glu297Lys,ENST00000383694,;FILIP1L,missense_variant,p.Glu297Lys,ENST00000471562,;FILIP1L,missense_variant,p.Glu297Lys,ENST00000495625,;CMSS1,intron_variant,,ENST00000421999,;CMSS1,intron_variant,,ENST00000463526,;FILIP1L,upstream_gene_variant,,ENST00000477258,;FILIP1L,intron_variant,,ENST00000476723,;CMSS1,intron_variant,,ENST00000496116,;CMSS1,intron_variant,,ENST00000491299,;	T	ENSG00000168386	ENST00000354552	Transcript	missense_variant	2080	1609	537	E/K	Gag/Aag	.	.	.	-1	FILIP1L	HGNC	24589	protein_coding	YES	CCDS43117.1	ENSP00000346560	FIL1L_HUMAN	C9JYJ6_HUMAN	UPI00001B24B2	.	deleterious(0)	possibly_damaging(0.611)	5/6	.	hmmpanther:PTHR23166,hmmpanther:PTHR23166:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAGTAA	.	5	BLCA
INTS12	0	.	GRCh37	4	106603787	106603787	+	3'UTR	SNP	G	G	T	rs576536666	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*103C>A	.	.	ENST00000451321	7/7	16	12	4	16	16	0	INTS12,3_prime_UTR_variant,,ENST00000451321,;INTS12,3_prime_UTR_variant,,ENST00000394735,;INTS12,3_prime_UTR_variant,,ENST00000340139,;ARHGEF38,downstream_gene_variant,,ENST00000420470,;ARHGEF38,intron_variant,,ENST00000503289,;INTS12,downstream_gene_variant,,ENST00000493425,;RP11-311D14.1,upstream_gene_variant,,ENST00000503155,;	T	ENSG00000138785	ENST00000451321	Transcript	3_prime_UTR_variant	1972	.	.	.	.	rs576536666	.	.	-1	INTS12	HGNC	25067	protein_coding	YES	CCDS3671.1	ENSP00000415433	INT12_HUMAN	E9PGI3_HUMAN,C9JDP3_HUMAN,C9J0M6_HUMAN	UPI0000072C63	.	.	.	7/7	.	.	T:0.0010	T:0	T:0	.	T:0	T:0	T:0.0051	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATTTGATTAT	byFrequency|by1000G	4	BLCA
COL25A1	0	.	GRCh37	4	109748335	109748335	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720G>A	p.Gly574Arg	p.G574R	ENST00000399132	33/38	23	20	3	45	45	0	COL25A1,missense_variant,p.Gly586Arg,ENST00000399127,;COL25A1,missense_variant,p.Gly574Arg,ENST00000399132,;COL25A1,missense_variant,p.Gly574Arg,ENST00000399126,;COL25A1,upstream_gene_variant,,ENST00000512961,;COL25A1,3_prime_UTR_variant,,ENST00000494183,;COL25A1,non_coding_transcript_exon_variant,,ENST00000505377,;	T	ENSG00000188517	ENST00000399132	Transcript	missense_variant	2251	1720	574	G/R	Gga/Aga	.	.	.	-1	COL25A1	HGNC	18603	protein_coding	YES	CCDS43258.1	ENSP00000382083	COPA1_HUMAN	D6R8Y2_HUMAN	UPI0000225CD2	.	deleterious(0)	probably_damaging(1)	33/38	.	hmmpanther:PTHR24023:SF412,hmmpanther:PTHR24023,Pfam_domain:PF01391,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AGCTCCTTTTT	.	2	BLCA
NEUROG2	0	.	GRCh37	4	113436602	113436602	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30G>A	p.%3D	p.L10L	ENST00000313341	2/2	20	13	6	42	42	0	NEUROG2,synonymous_variant,p.%3D,ENST00000313341,;RP11-402J6.1,non_coding_transcript_exon_variant,,ENST00000504009,;RP11-402J6.1,non_coding_transcript_exon_variant,,ENST00000506057,;	T	ENSG00000178403	ENST00000313341	Transcript	synonymous_variant	357	30	10	L	ttG/ttA	.	.	.	-1	NEUROG2	HGNC	13805	protein_coding	YES	CCDS3698.1	ENSP00000317333	NGN2_HUMAN	.	UPI000006ED59	.	.	.	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19290:SF87,hmmpanther:PTHR19290	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCAACTC	.	5	BLCA
HS3ST1	0	.	GRCh37	4	11401089	11401089	+	Missense_Mutation	SNP	C	C	T	rs148569165	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541G>A	p.Asp181Asn	p.D181N	ENST00000002596	2/2	56	43	12	59	59	0	HS3ST1,missense_variant,p.Asp181Asn,ENST00000002596,;HS3ST1,downstream_gene_variant,,ENST00000510712,;HS3ST1,downstream_gene_variant,,ENST00000514690,;	T	ENSG00000002587	ENST00000002596	Transcript	missense_variant	1716	541	181	D/N	Gat/Aat	rs148569165	.	.	-1	HS3ST1	HGNC	5194	protein_coding	YES	CCDS3408.1	ENSP00000002596	HS3S1_HUMAN	Q05CH3_HUMAN,E9PDE3_HUMAN	UPI0000072A23	.	tolerated(0.63)	benign(0.001)	2/2	.	hmmpanther:PTHR10605:SF16,hmmpanther:PTHR10605,Gene3D:3.40.50.300,Pfam_domain:PF00685,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	T:0	T:0.0001	not_provided	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATCGCGCA	byCluster	5	BLCA
PRSS12	0	.	GRCh37	4	119203400	119203400	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2321-2A>G	.	p.X774_splice	ENST00000296498	.	84	57	27	119	119	0	PRSS12,splice_acceptor_variant,,ENST00000296498,;SNHG8,downstream_gene_variant,,ENST00000602414,;SNHG8,downstream_gene_variant,,ENST00000602483,;SNHG8,downstream_gene_variant,,ENST00000602573,;SNHG8,downstream_gene_variant,,ENST00000602520,;SNHG8,downstream_gene_variant,,ENST00000384096,;SNHG8,downstream_gene_variant,,ENST00000602819,;PRSS12,downstream_gene_variant,,ENST00000510903,;	C	ENSG00000164099	ENST00000296498	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	PRSS12	HGNC	9477	protein_coding	YES	CCDS3709.1	ENSP00000296498	NETR_HUMAN	.	UPI000013E34B	.	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCCTACTCA	.	5	BLCA
PRSS12	0	.	GRCh37	4	119219966	119219966	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1759C>T	p.His587Tyr	p.H587Y	ENST00000296498	9/13	80	56	24	101	101	0	PRSS12,missense_variant,p.His587Tyr,ENST00000296498,;PRSS12,upstream_gene_variant,,ENST00000510903,;PRSS12,downstream_gene_variant,,ENST00000515089,;	A	ENSG00000164099	ENST00000296498	Transcript	missense_variant	2042	1759	587	H/Y	Cac/Tac	.	.	.	-1	PRSS12	HGNC	9477	protein_coding	YES	CCDS3709.1	ENSP00000296498	NETR_HUMAN	.	UPI000013E34B	.	deleterious(0)	probably_damaging(0.94)	9/13	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF19,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTGTCTTC	.	5	BLCA
SYNPO2	0	.	GRCh37	4	119948229	119948229	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705T>G	p.His235Gln	p.H235Q	ENST00000307142	3/5	30	17	13	28	28	0	SYNPO2,missense_variant,p.His235Gln,ENST00000434046,;SYNPO2,missense_variant,p.His235Gln,ENST00000307142,;SYNPO2,missense_variant,p.His235Gln,ENST00000429713,;SYNPO2,missense_variant,p.His187Gln,ENST00000504178,;SYNPO2,intron_variant,,ENST00000448416,;	G	ENSG00000172403	ENST00000307142	Transcript	missense_variant	901	705	235	H/Q	caT/caG	.	.	.	1	SYNPO2	HGNC	17732	protein_coding	YES	CCDS34054.1	ENSP00000306015	SYNP2_HUMAN	.	UPI00001D75EB	.	tolerated(0.66)	benign(0.002)	3/5	.	hmmpanther:PTHR24217:SF9,hmmpanther:PTHR24217	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACATGACAG	.	5	BLCA
USP53	0	.	GRCh37	4	120192767	120192767	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1752G>A	p.Trp584Ter	p.W584*	ENST00000450251	12/15	35	18	17	44	44	0	USP53,stop_gained,p.Trp584Ter,ENST00000450251,;USP53,stop_gained,p.Trp584Ter,ENST00000274030,;USP53,3_prime_UTR_variant,,ENST00000509769,;USP53,non_coding_transcript_exon_variant,,ENST00000510852,;USP53,downstream_gene_variant,,ENST00000507906,;	A	ENSG00000145390	ENST00000450251	Transcript	stop_gained	2296	1752	584	W/*	tgG/tgA	.	.	.	1	USP53	HGNC	29255	protein_coding	YES	CCDS43265.1	ENSP00000409906	UBP53_HUMAN	.	UPI0000251D9D	.	.	.	12/15	.	hmmpanther:PTHR22975,hmmpanther:PTHR22975:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTGGAAACC	.	5	BLCA
PRDM5	0	.	GRCh37	4	121720869	121720869	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.977T>G	p.Met326Arg	p.M326R	ENST00000264808	9/16	46	36	10	65	65	0	PRDM5,missense_variant,p.Met295Arg,ENST00000428209,;PRDM5,missense_variant,p.Met326Arg,ENST00000264808,;PRDM5,missense_variant,p.Met295Arg,ENST00000515109,;PRDM5,3_prime_UTR_variant,,ENST00000502409,;PRDM5,non_coding_transcript_exon_variant,,ENST00000503661,;PRDM5,non_coding_transcript_exon_variant,,ENST00000505484,;	C	ENSG00000138738	ENST00000264808	Transcript	missense_variant	1218	977	326	M/R	aTg/aGg	.	.	.	-1	PRDM5	HGNC	9349	protein_coding	YES	CCDS3716.1	ENSP00000264808	PRDM5_HUMAN	.	UPI000013D572	.	tolerated(0.43)	benign(0.001)	9/16	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24409:SF17,hmmpanther:PTHR24409,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,PIRSF_domain:PIRSF037162,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCATACAT	.	5	BLCA
NDNF	0	.	GRCh37	4	121958145	121958145	+	Silent	SNP	A	A	G	rs142923021	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981T>C	p.%3D	p.Y327Y	ENST00000379692	4/4	72	49	22	81	81	0	NDNF,synonymous_variant,p.%3D,ENST00000379692,;NDNF,downstream_gene_variant,,ENST00000515757,;NDNF,downstream_gene_variant,,ENST00000511408,;NDNF,downstream_gene_variant,,ENST00000506900,;	G	ENSG00000173376	ENST00000379692	Transcript	synonymous_variant	1508	981	327	Y	taT/taC	rs142923021	.	.	-1	NDNF	HGNC	26256	protein_coding	YES	CCDS3717.2	ENSP00000369014	NDNF_HUMAN	D6RF18_HUMAN,D6R972_HUMAN	UPI00001D6985	.	.	.	4/4	.	hmmpanther:PTHR14619,hmmpanther:PTHR14619:SF1,Gene3D:2.60.40.10,Pfam_domain:PF10179,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTACATAAGC	byCluster	5	BLCA
SPATA5	0	.	GRCh37	4	123855638	123855638	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892G>A	p.Glu298Lys	p.E298K	ENST00000274008	5/16	58	42	16	66	66	0	SPATA5,missense_variant,p.Glu298Lys,ENST00000274008,;SPATA5,non_coding_transcript_exon_variant,,ENST00000422835,;	A	ENSG00000145375	ENST00000274008	Transcript	missense_variant	961	892	298	E/K	Gaa/Aaa	.	.	.	1	SPATA5	HGNC	18119	protein_coding	YES	CCDS3730.1	ENSP00000274008	SPAT5_HUMAN	.	UPI000013D9E6	.	tolerated(0.57)	benign(0.003)	5/16	.	hmmpanther:PTHR23077:SF27,hmmpanther:PTHR23077	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGAGAAGGA	.	5	BLCA
ANKRD50	0	.	GRCh37	4	125593279	125593279	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1153T>A	p.Phe385Ile	p.F385I	ENST00000504087	4/5	112	66	46	140	140	0	ANKRD50,missense_variant,p.Phe385Ile,ENST00000504087,;ANKRD50,missense_variant,p.Phe206Ile,ENST00000515641,;	T	ENSG00000151458	ENST00000504087	Transcript	missense_variant	2191	1153	385	F/I	Ttt/Att	.	.	.	-1	ANKRD50	HGNC	29223	protein_coding	YES	CCDS34060.1	ENSP00000425658	ANR50_HUMAN	Q8TB46_HUMAN	UPI00002377E8	.	deleterious(0.03)	benign(0.397)	4/5	.	hmmpanther:PTHR24151:SF1,hmmpanther:PTHR24151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAAATCTT	.	5	BLCA
ELF2	0	.	GRCh37	4	139994689	139994689	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271T>C	p.Cys91Arg	p.C91R	ENST00000394235	5/10	47	33	13	49	49	0	ELF2,missense_variant,p.Cys31Arg,ENST00000379549,;ELF2,missense_variant,p.Cys91Arg,ENST00000379550,;ELF2,missense_variant,p.Cys91Arg,ENST00000265495,;ELF2,missense_variant,p.Cys31Arg,ENST00000510408,;ELF2,missense_variant,p.Cys31Arg,ENST00000358635,;ELF2,missense_variant,p.Cys31Arg,ENST00000512627,;ELF2,missense_variant,p.Cys91Arg,ENST00000394235,;ELF2,missense_variant,p.Cys31Arg,ENST00000420916,;ELF2,non_coding_transcript_exon_variant,,ENST00000514606,;ELF2,non_coding_transcript_exon_variant,,ENST00000514577,;ELF2,upstream_gene_variant,,ENST00000504314,;	G	ENSG00000109381	ENST00000394235	Transcript	missense_variant	774	271	91	C/R	Tgt/Cgt	.	.	.	-1	ELF2	HGNC	3317	protein_coding	YES	CCDS3744.1	ENSP00000377782	ELF2_HUMAN	.	UPI0000073EF0	.	tolerated(0.69)	benign(0.346)	5/10	.	hmmpanther:PTHR11849:SF10,hmmpanther:PTHR11849,Pfam_domain:PF12310	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTACAGTGTG	.	5	BLCA
CLGN	0	.	GRCh37	4	141327215	141327215	+	Silent	SNP	C	C	T	rs774697259	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300G>A	p.%3D	p.L100L	ENST00000325617	5/15	26	17	8	41	41	0	CLGN,synonymous_variant,p.%3D,ENST00000414773,;CLGN,synonymous_variant,p.%3D,ENST00000325617,;CLGN,synonymous_variant,p.%3D,ENST00000537281,;CLGN,synonymous_variant,p.%3D,ENST00000509477,;	T	ENSG00000153132	ENST00000325617	Transcript	synonymous_variant	741	300	100	L	ttG/ttA	rs774697259	.	.	-1	CLGN	HGNC	2060	protein_coding	YES	CCDS3751.1	ENSP00000326699	CLGN_HUMAN	D6RAZ4_HUMAN,B4DRG2_HUMAN	UPI0000126E4A	.	.	.	5/15	.	Superfamily_domains:SSF49899,Gene3D:2.60.120.200,Pfam_domain:PF00262,hmmpanther:PTHR11073,hmmpanther:PTHR11073:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAACTC	.	5	BLCA
ELMOD2	0	.	GRCh37	4	141471572	141471572	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*43C>T	.	.	ENST00000323570	9/9	30	19	11	31	31	0	ELMOD2,3_prime_UTR_variant,,ENST00000323570,;ELMOD2,non_coding_transcript_exon_variant,,ENST00000502290,;	T	ENSG00000179387	ENST00000323570	Transcript	3_prime_UTR_variant	1057	.	.	.	.	.	.	.	1	ELMOD2	HGNC	28111	protein_coding	YES	CCDS3752.1	ENSP00000326342	ELMD2_HUMAN	D6RJB5_HUMAN,D6RHX2_HUMAN,D6RBS5_HUMAN	UPI0000074163	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACATTCAACAG	.	2	BLCA
SLC10A7	0	.	GRCh37	4	147177602	147177602	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*41G>A	.	.	ENST00000335472	12/12	58	40	17	65	65	0	SLC10A7,3_prime_UTR_variant,,ENST00000432059,;SLC10A7,3_prime_UTR_variant,,ENST00000264986,;SLC10A7,3_prime_UTR_variant,,ENST00000335472,;SLC10A7,downstream_gene_variant,,ENST00000507030,;SLC10A7,downstream_gene_variant,,ENST00000394062,;	T	ENSG00000120519	ENST00000335472	Transcript	3_prime_UTR_variant	1280	.	.	.	.	.	.	.	-1	SLC10A7	HGNC	23088	protein_coding	YES	CCDS34073.1	ENSP00000334594	NTCP7_HUMAN	B3KWW2_HUMAN	UPI000020B547	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATCCTGTAC	.	5	BLCA
FBXW7	0	.	GRCh37	4	153250867	153250867	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1193C>T	p.Ser398Phe	p.S398F	ENST00000281708	8/12	67	54	13	89	89	0	FBXW7,missense_variant,p.Ser398Phe,ENST00000603548,;FBXW7,missense_variant,p.Ser318Phe,ENST00000263981,;FBXW7,missense_variant,p.Ser280Phe,ENST00000296555,;FBXW7,missense_variant,p.Ser222Phe,ENST00000393956,;FBXW7,missense_variant,p.Ser398Phe,ENST00000281708,;FBXW7,missense_variant,p.Ser398Phe,ENST00000603841,;FBXW7,non_coding_transcript_exon_variant,,ENST00000604069,;FBXW7,upstream_gene_variant,,ENST00000603821,;	A	ENSG00000109670	ENST00000281708	Transcript	missense_variant	2423	1193	398	S/F	tCt/tTt	.	.	.	-1	FBXW7	HGNC	16712	protein_coding	YES	CCDS3777.1	ENSP00000281708	FBXW7_HUMAN	S4R3N3_HUMAN,H9CWI3_HUMAN,H9CWI2_HUMAN,G0Z2K0_HUMAN,A7BJS8_HUMAN	UPI000007007E	.	deleterious(0)	probably_damaging(1)	8/12	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Pfam_domain:PF00400,Gene3D:2.130.10.10,hmmpanther:PTHR22844,hmmpanther:PTHR22844:SF116,PROSITE_profiles:PS50294,PROSITE_profiles:PS50082	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCAGAACCA	.	5	BLCA
DCHS2	0	.	GRCh37	4	155298521	155298521	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.310G>A	p.Glu104Lys	p.E104K	ENST00000357232	3/25	36	31	5	51	51	0	DCHS2,missense_variant,p.Glu710Lys,ENST00000339452,;DCHS2,missense_variant,p.Glu104Lys,ENST00000357232,;RP11-290O12.1,downstream_gene_variant,,ENST00000513721,;	T	ENSG00000197410	ENST00000357232	Transcript	missense_variant	310	310	104	E/K	Gaa/Aaa	COSM1753603,COSM1753604	.	.	-1	DCHS2	HGNC	23111	protein_coding	YES	CCDS3785.1	ENSP00000349768	PCD23_HUMAN	B3KT73_HUMAN	UPI000035B018	.	tolerated(0.07)	possibly_damaging(0.575)	3/25	.	PROSITE_profiles:PS50268,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TGCTTCATAGC	.	3	BLCA
FGA	0	.	GRCh37	4	155507193	155507193	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1388A>T	p.Lys463Ile	p.K463I	ENST00000302053	5/6	133	82	51	177	177	0	FGA,missense_variant,p.Lys463Ile,ENST00000302053,;FGA,missense_variant,p.Lys463Ile,ENST00000403106,;	A	ENSG00000171560	ENST00000302053	Transcript	missense_variant	1467	1388	463	K/I	aAa/aTa	.	.	.	-1	FGA	HGNC	3661	protein_coding	YES	CCDS3787.1	ENSP00000306361	FIBA_HUMAN	Q86Z09_HUMAN	UPI000012A75A	.	deleterious(0)	probably_damaging(0.999)	5/6	.	Low_complexity_(Seg):seg,Pfam_domain:PF12160,hmmpanther:PTHR19143:SF172,hmmpanther:PTHR19143	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGTTTTAGAG	.	5	BLCA
ASIC5	0	.	GRCh37	4	156764946	156764946	+	Missense_Mutation	SNP	C	C	T	rs746546867	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>A	p.Asp250Asn	p.D250N	ENST00000537611	5/10	34	23	11	57	57	0	ASIC5,missense_variant,p.Asp250Asn,ENST00000537611,;	T	ENSG00000256394	ENST00000537611	Transcript	missense_variant	795	748	250	D/N	Gat/Aat	rs746546867	.	.	-1	ASIC5	HGNC	17537	protein_coding	YES	CCDS3793.1	ENSP00000442477	ASIC5_HUMAN	.	UPI00000433EB	.	tolerated(0.05)	benign(0.364)	5/10	.	hmmpanther:PTHR11690,hmmpanther:PTHR11690:SF126,Gene3D:2qtsA02,Pfam_domain:PF00858	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F248F|c.744C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCAACGA	byFrequency	5	BLCA
PDGFC	0	.	GRCh37	4	157732150	157732150	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334G>A	p.Glu112Lys	p.E112K	ENST00000502773	3/6	58	38	20	86	86	0	PDGFC,missense_variant,p.Glu112Lys,ENST00000502773,;PDGFC,missense_variant,p.Glu112Lys,ENST00000422544,;PDGFC,5_prime_UTR_variant,,ENST00000541126,;PDGFC,5_prime_UTR_variant,,ENST00000542208,;PDGFC,intron_variant,,ENST00000512711,;PDGFC,upstream_gene_variant,,ENST00000511985,;PDGFC,missense_variant,p.Glu25Lys,ENST00000506880,;PDGFC,3_prime_UTR_variant,,ENST00000274071,;	T	ENSG00000145431	ENST00000502773	Transcript	missense_variant	825	334	112	E/K	Gag/Aag	.	.	.	-1	PDGFC	HGNC	8801	protein_coding	YES	CCDS3795.1	ENSP00000422464	PDGFC_HUMAN	.	UPI0000034814	.	deleterious(0.02)	possibly_damaging(0.657)	3/6	.	PROSITE_profiles:PS01180,hmmpanther:PTHR10127:SF570,hmmpanther:PTHR10127,Gene3D:2.60.120.290,Pfam_domain:PF00431,SMART_domains:SM00042,Superfamily_domains:SSF49854	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCAACTT	.	5	BLCA
GRIA2	0	.	GRCh37	4	158233929	158233929	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>A	p.Glu190Lys	p.E190K	ENST00000296526	4/16	72	45	27	115	115	0	GRIA2,missense_variant,p.Glu143Lys,ENST00000505888,;GRIA2,missense_variant,p.Glu190Lys,ENST00000264426,;GRIA2,missense_variant,p.Glu143Lys,ENST00000507898,;GRIA2,missense_variant,p.Glu143Lys,ENST00000393815,;GRIA2,missense_variant,p.Glu190Lys,ENST00000296526,;GRIA2,missense_variant,p.Glu63Lys,ENST00000503437,;GRIA2,missense_variant,p.Glu143Lys,ENST00000449365,;GRIA2,missense_variant,p.Glu143Lys,ENST00000323661,;GRIA2,non_coding_transcript_exon_variant,,ENST00000471736,;	A	ENSG00000120251	ENST00000296526	Transcript	missense_variant	893	568	190	E/K	Gag/Aag	.	.	.	1	GRIA2	HGNC	4572	protein_coding	YES	CCDS3797.1	ENSP00000296526	GRIA2_HUMAN	D6RFM6_HUMAN,D6REK8_HUMAN,D6RDX5_HUMAN,D6RBV7_HUMAN,D6R9Z0_HUMAN,A8MT92_HUMAN	UPI000002AA8D	.	tolerated(0.87)	benign(0.004)	4/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF99,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAGATG	.	5	BLCA
ETFDH	0	.	GRCh37	4	159593605	159593605	+	5'UTR	SNP	G	G	A	rs370079385	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4G>A	.	.	ENST00000511912	1/13	71	53	17	89	89	0	ETFDH,5_prime_UTR_variant,,ENST00000507475,;ETFDH,5_prime_UTR_variant,,ENST00000307738,;ETFDH,5_prime_UTR_variant,,ENST00000512251,;ETFDH,5_prime_UTR_variant,,ENST00000511912,;C4orf46,upstream_gene_variant,,ENST00000508457,;C4orf46,upstream_gene_variant,,ENST00000379205,;ETFDH,non_coding_transcript_exon_variant,,ENST00000436096,;ETFDH,non_coding_transcript_exon_variant,,ENST00000510353,;ETFDH,non_coding_transcript_exon_variant,,ENST00000506422,;C4orf46,upstream_gene_variant,,ENST00000508836,;	A	ENSG00000171503	ENST00000511912	Transcript	5_prime_UTR_variant	329	.	.	.	.	rs370079385	.	.	1	ETFDH	HGNC	3483	protein_coding	YES	CCDS3800.1	ENSP00000426638	ETFD_HUMAN	D6RAD5_HUMAN,B4DEQ0_HUMAN	UPI000013EC48	.	.	.	1/13	.	.	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGAACAT	byCluster	5	BLCA
RAPGEF2	0	.	GRCh37	4	160273834	160273834	+	Intron	SNP	C	C	T	rs758826480	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3383-3C>T	.	.	ENST00000264431	.	55	44	11	95	95	0	RAPGEF2,splice_region_variant,,ENST00000264431,;RAPGEF2,splice_region_variant,,ENST00000505026,;RAPGEF2,splice_region_variant,,ENST00000510253,;RAPGEF2,non_coding_transcript_exon_variant,,ENST00000509891,;	T	ENSG00000109756	ENST00000264431	Transcript	splice_region_variant	.	.	.	.	.	rs758826480	.	.	1	RAPGEF2	HGNC	16854	protein_coding	YES	CCDS43277.1	ENSP00000264431	RPGF2_HUMAN	Q9UFT5_HUMAN,Q4W5Q4_HUMAN,Q17RH5_HUMAN,D6REY8_HUMAN,B4DG82_HUMAN	UPI0000033783	.	.	.	.	20/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATGCAGGCT	.	4	BLCA
KLHL2	0	.	GRCh37	4	166231780	166231780	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1127C>T	p.Ser376Phe	p.S376F	ENST00000514860	10/15	217	143	74	314	314	0	KLHL2,missense_variant,p.Ser376Phe,ENST00000514860,;KLHL2,missense_variant,p.Ser206Phe,ENST00000506761,;KLHL2,missense_variant,p.Ser372Phe,ENST00000226725,;KLHL2,missense_variant,p.Ser284Phe,ENST00000538127,;KLHL2,missense_variant,p.Ser275Phe,ENST00000421009,;KLHL2,non_coding_transcript_exon_variant,,ENST00000509028,;KLHL2,non_coding_transcript_exon_variant,,ENST00000506541,;KLHL2,3_prime_UTR_variant,,ENST00000506824,;	T	ENSG00000109466	ENST00000514860	Transcript	missense_variant	1377	1127	376	S/F	tCc/tTc	.	.	.	1	KLHL2	HGNC	6353	protein_coding	YES	CCDS54815.1	ENSP00000424198	KLHL2_HUMAN	D6RGC3_HUMAN,B4DFZ5_HUMAN	UPI0000E20649	.	deleterious(0.04)	benign(0.335)	10/15	.	Superfamily_domains:0052715,PIRSF_domain:PIRSF037037,SMART_domains:SM00612,Pfam_domain:PF01344,Gene3D:1k3iA02,hmmpanther:PTHR24412:SF155,hmmpanther:PTHR24412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCCTACG	.	5	BLCA
STOX2	0	.	GRCh37	4	184930682	184930682	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.691C>T	p.%3D	p.L231L	ENST00000308497	3/4	29	21	8	43	43	0	STOX2,synonymous_variant,p.%3D,ENST00000438269,;STOX2,synonymous_variant,p.%3D,ENST00000308497,;STOX2,intron_variant,,ENST00000513034,;STOX2,downstream_gene_variant,,ENST00000512520,;STOX2,upstream_gene_variant,,ENST00000506529,;	T	ENSG00000173320	ENST00000308497	Transcript	synonymous_variant	2126	691	231	L	Ctg/Ttg	.	.	.	1	STOX2	HGNC	25450	protein_coding	YES	CCDS47167.1	ENSP00000311257	STOX2_HUMAN	D6RDA5_HUMAN	UPI00001C1E11	.	.	.	3/4	.	hmmpanther:PTHR22437:SF2,hmmpanther:PTHR22437	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCTGTGC	.	5	BLCA
IRF2	0	.	GRCh37	4	185329353	185329353	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488C>T	p.Ser163Leu	p.S163L	ENST00000393593	6/9	79	52	27	89	89	0	IRF2,missense_variant,p.Ser163Leu,ENST00000507523,;IRF2,missense_variant,p.Ser62Leu,ENST00000505067,;IRF2,missense_variant,p.Ser163Leu,ENST00000393593,;IRF2,intron_variant,,ENST00000502750,;IRF2,downstream_gene_variant,,ENST00000510814,;IRF2,non_coding_transcript_exon_variant,,ENST00000512020,;	A	ENSG00000168310	ENST00000393593	Transcript	missense_variant	696	488	163	S/L	tCa/tTa	.	.	.	-1	IRF2	HGNC	6117	protein_coding	YES	CCDS3835.1	ENSP00000377218	IRF2_HUMAN	K4DIA5_HUMAN,D6RB08_HUMAN,D6R9N5_HUMAN	UPI000012D888	.	tolerated(0.3)	benign(0.086)	6/9	.	PIRSF_domain:PIRSF038196,hmmpanther:PTHR11949,hmmpanther:PTHR11949:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUSE|VARSCANS	TAGTTGAAGTC	.	3	BLCA
FAT1	0	.	GRCh37	4	187539237	187539237	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8503G>A	p.Asp2835Asn	p.D2835N	ENST00000441802	10/27	70	49	21	129	129	0	FAT1,missense_variant,p.Asp2835Asn,ENST00000441802,;	T	ENSG00000083857	ENST00000441802	Transcript	missense_variant	8713	8503	2835	D/N	Gat/Aat	.	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	probably_damaging(1)	10/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCAGATG	.	5	BLCA
FAT1	0	.	GRCh37	4	187540860	187540860	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6880G>A	p.Glu2294Lys	p.E2294K	ENST00000441802	10/27	78	54	24	79	79	0	FAT1,missense_variant,p.Glu2294Lys,ENST00000441802,;	T	ENSG00000083857	ENST00000441802	Transcript	missense_variant	7090	6880	2294	E/K	Gag/Aag	.	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	probably_damaging(0.984)	10/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCAGACA	.	5	BLCA
FAT1	0	.	GRCh37	4	187630674	187630674	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.308G>A	p.Gly103Glu	p.G103E	ENST00000441802	2/27	61	42	19	100	100	0	FAT1,missense_variant,p.Gly103Glu,ENST00000509647,;FAT1,missense_variant,p.Gly103Glu,ENST00000441802,;	T	ENSG00000083857	ENST00000441802	Transcript	missense_variant	518	308	103	G/E	gGa/gAa	.	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	probably_damaging(0.999)	2/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCCTCCT	.	5	BLCA
ZFP42	0	.	GRCh37	4	188923916	188923916	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-46G>A	.	.	ENST00000326866	4/4	36	26	10	49	48	1	ZFP42,5_prime_UTR_variant,,ENST00000326866,;ZFP42,5_prime_UTR_variant,,ENST00000509524,;	A	ENSG00000179059	ENST00000326866	Transcript	5_prime_UTR_variant	363	.	.	.	.	.	.	.	1	ZFP42	HGNC	30949	protein_coding	YES	CCDS3849.1	ENSP00000317686	ZFP42_HUMAN	.	UPI0000049CA7	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGGTTGATATA	.	4	BLCA
TRIML2	0	.	GRCh37	4	189012611	189012611	+	Silent	SNP	G	G	A	rs758092392	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1080C>T	p.%3D	p.L360L	ENST00000512729	7/7	62	46	16	85	85	0	TRIML2,synonymous_variant,p.%3D,ENST00000326754,;TRIML2,synonymous_variant,p.%3D,ENST00000512729,;TRIML2,3_prime_UTR_variant,,ENST00000503475,;TRIML2,3_prime_UTR_variant,,ENST00000503141,;	A	ENSG00000179046	ENST00000512729	Transcript	synonymous_variant	1455	1080	360	L	ctC/ctT	rs758092392	.	.	-1	TRIML2	HGNC	26378	protein_coding	YES	CCDS3850.1	ENSP00000422581	TRIMM_HUMAN	.	UPI000007300A	.	.	.	7/7	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF267,hmmpanther:PTHR24103,Pfam_domain:PF00622,SMART_domains:SM00449,Superfamily_domains:SSF49899,Prints_domain:PR01407	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACAGAGGGA	.	5	BLCA
PPARGC1A	0	.	GRCh37	4	23886439	23886439	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170G>A	p.Trp57Ter	p.W57*	ENST00000264867	2/13	51	40	11	71	71	0	PPARGC1A,stop_gained,p.Trp57Ter,ENST00000507380,;PPARGC1A,stop_gained,p.Trp57Ter,ENST00000264867,;PPARGC1A,non_coding_transcript_exon_variant,,ENST00000503714,;PPARGC1A,non_coding_transcript_exon_variant,,ENST00000515534,;PPARGC1A,non_coding_transcript_exon_variant,,ENST00000507342,;PPARGC1A,upstream_gene_variant,,ENST00000509642,;PPARGC1A,upstream_gene_variant,,ENST00000512169,;PPARGC1A,upstream_gene_variant,,ENST00000514517,;PPARGC1A,upstream_gene_variant,,ENST00000508380,;PPARGC1A,upstream_gene_variant,,ENST00000509702,;PPARGC1A,stop_gained,p.Trp57Ter,ENST00000513205,;PPARGC1A,stop_gained,p.Trp57Ter,ENST00000506055,;PPARGC1A,non_coding_transcript_exon_variant,,ENST00000514494,;PPARGC1A,upstream_gene_variant,,ENST00000505469,;	T	ENSG00000109819	ENST00000264867	Transcript	stop_gained	290	170	57	W/*	tGg/tAg	.	.	.	-1	PPARGC1A	HGNC	9237	protein_coding	YES	CCDS3429.1	ENSP00000264867	PRGC1_HUMAN	G8DM16_HUMAN	UPI000004D072	.	.	.	2/13	.	hmmpanther:PTHR15528:SF10,hmmpanther:PTHR15528	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCACCACTTG	.	5	BLCA
SEL1L3	0	.	GRCh37	4	25823683	25823683	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>A	p.Ala409Thr	p.A409T	ENST00000399878	7/24	39	24	15	52	52	0	SEL1L3,missense_variant,p.Ala409Thr,ENST00000399878,;SEL1L3,missense_variant,p.Ala256Thr,ENST00000502949,;SEL1L3,missense_variant,p.Ala374Thr,ENST00000264868,;	T	ENSG00000091490	ENST00000399878	Transcript	missense_variant	1348	1225	409	A/T	Gct/Act	.	.	.	-1	SEL1L3	HGNC	29108	protein_coding	YES	CCDS47037.1	ENSP00000382767	SE1L3_HUMAN	D6RF11_HUMAN,D6RDH1_HUMAN,D6RCE1_HUMAN,B4DTH5_HUMAN	UPI00001D7736	.	tolerated(0.13)	benign(0.002)	7/24	.	Superfamily_domains:SSF49899,hmmpanther:PTHR11102:SF58,hmmpanther:PTHR11102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAGCCACAT	.	5	BLCA
STIM2	0	.	GRCh37	4	27009304	27009304	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1131A>G	p.%3D	p.L377L	ENST00000465503	8/13	24	18	6	42	41	0	STIM2,synonymous_variant,p.%3D,ENST00000467011,;STIM2,synonymous_variant,p.%3D,ENST00000412829,;STIM2,synonymous_variant,p.%3D,ENST00000237364,;STIM2,synonymous_variant,p.%3D,ENST00000467087,;STIM2,synonymous_variant,p.%3D,ENST00000465503,;STIM2,synonymous_variant,p.%3D,ENST00000473519,;STIM2,synonymous_variant,p.%3D,ENST00000382009,;STIM2,upstream_gene_variant,,ENST00000477474,;	G	ENSG00000109689	ENST00000465503	Transcript	synonymous_variant	1509	1131	377	L	ctA/ctG	.	.	.	1	STIM2	HGNC	19205	protein_coding	YES	CCDS54751.1	ENSP00000417569	.	R4GNC5_HUMAN,R4GN82_HUMAN,R4GMP0_HUMAN,Q05BJ5_HUMAN,H0Y860_HUMAN	UPI0001B79443	.	.	.	8/13	.	hmmpanther:PTHR15136:SF2,hmmpanther:PTHR15136	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTAGCTAT	.	2	BLCA
FAM193A	0	.	GRCh37	4	2701752	2701752	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2980G>A	p.Glu994Lys	p.E994K	ENST00000324666	17/20	56	40	16	77	77	0	FAM193A,missense_variant,p.Glu994Lys,ENST00000545951,;FAM193A,missense_variant,p.Glu848Lys,ENST00000513350,;FAM193A,missense_variant,p.Glu994Lys,ENST00000324666,;FAM193A,missense_variant,p.Glu994Lys,ENST00000382839,;FAM193A,missense_variant,p.Glu994Lys,ENST00000505311,;FAM193A,missense_variant,p.Glu1016Lys,ENST00000502458,;FAM193A,3_prime_UTR_variant,,ENST00000512465,;FAM193A,3_prime_UTR_variant,,ENST00000513898,;FAM193A,downstream_gene_variant,,ENST00000506120,;	A	ENSG00000125386	ENST00000324666	Transcript	missense_variant	3331	2980	994	E/K	Gag/Aag	.	.	.	1	FAM193A	HGNC	16822	protein_coding	YES	CCDS58875.1	ENSP00000324587	F193A_HUMAN	E7EUR8_HUMAN,D6R990_HUMAN	UPI0000551BCA	.	deleterious(0.02)	probably_damaging(0.979)	17/20	.	hmmpanther:PTHR15109:SF2,hmmpanther:PTHR15109	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCAGAGCCC	.	5	BLCA
NOP14	0	.	GRCh37	4	2949351	2949351	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1414-13C>T	.	.	ENST00000416614	.	44	27	17	52	52	0	NOP14,intron_variant,,ENST00000416614,;NOP14,intron_variant,,ENST00000398071,;NOP14,intron_variant,,ENST00000502735,;NOP14,intron_variant,,ENST00000314262,;NOP14-AS1,non_coding_transcript_exon_variant,,ENST00000505731,;NOP14-AS1,intron_variant,,ENST00000515194,;NOP14-AS1,intron_variant,,ENST00000503709,;NOP14-AS1,downstream_gene_variant,,ENST00000507702,;	A	ENSG00000087269	ENST00000416614	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	NOP14	HGNC	16821	protein_coding	YES	CCDS33945.1	ENSP00000405068	NOP14_HUMAN	.	UPI00001A9472	.	.	.	.	9/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATGAATTG	.	5	BLCA
NOP14	0	.	GRCh37	4	2954116	2954116	+	Silent	SNP	T	T	G	rs373425497	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756A>C	p.%3D	p.A252A	ENST00000416614	6/18	36	28	8	37	37	0	NOP14,synonymous_variant,p.%3D,ENST00000416614,;NOP14,synonymous_variant,p.%3D,ENST00000398071,;NOP14,synonymous_variant,p.%3D,ENST00000502735,;NOP14,synonymous_variant,p.%3D,ENST00000314262,;NOP14-AS1,intron_variant,,ENST00000503709,;NOP14-AS1,downstream_gene_variant,,ENST00000515194,;NOP14-AS1,downstream_gene_variant,,ENST00000505731,;	G	ENSG00000087269	ENST00000416614	Transcript	synonymous_variant	822	756	252	A	gcA/gcC	rs373425497	.	.	-1	NOP14	HGNC	16821	protein_coding	YES	CCDS33945.1	ENSP00000405068	NOP14_HUMAN	.	UPI00001A9472	.	.	.	6/18	.	hmmpanther:PTHR23183,hmmpanther:PTHR23183:SF0,Pfam_domain:PF04147	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCATATGCATC	byFrequency|byCluster	2	BLCA
C4orf19	0	.	GRCh37	4	37591716	37591716	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.39C>T	p.%3D	p.L13L	ENST00000284437	3/3	274	181	92	324	324	0	C4orf19,synonymous_variant,p.%3D,ENST00000284437,;C4orf19,synonymous_variant,p.%3D,ENST00000381980,;C4orf19,intron_variant,,ENST00000508175,;RELL1,downstream_gene_variant,,ENST00000314117,;RP11-36B15.1,upstream_gene_variant,,ENST00000503034,;	T	ENSG00000154274	ENST00000284437	Transcript	synonymous_variant	217	39	13	L	ctC/ctT	.	.	.	1	C4orf19	HGNC	25618	protein_coding	YES	CCDS3442.1	ENSP00000284437	CD019_HUMAN	.	UPI00000742D7	.	.	.	3/3	.	hmmpanther:PTHR16106	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCTTTGA	.	5	BLCA
ADRA2C	0	.	GRCh37	4	3769734	3769734	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12C>T	.	.	ENST00000330055	1/1	21	17	4	22	22	0	ADRA2C,3_prime_UTR_variant,,ENST00000330055,;ADRA2C,intron_variant,,ENST00000509482,;AC141928.1,upstream_gene_variant,,ENST00000511928,;	T	ENSG00000184160	ENST00000330055	Transcript	3_prime_UTR_variant	1610	.	.	.	.	.	.	.	1	ADRA2C	HGNC	283	protein_coding	YES	CCDS47004.1	ENSP00000386069	ADA2C_HUMAN	Q4W594_HUMAN	UPI000012500C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGTCTGGGA	.	5	BLCA
FAM114A1	0	.	GRCh37	4	38933952	38933952	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1420G>A	p.Glu474Lys	p.E474K	ENST00000358869	12/15	32	22	10	50	50	0	FAM114A1,missense_variant,p.Glu474Lys,ENST00000358869,;FAM114A1,missense_variant,p.Glu267Lys,ENST00000515037,;FAM114A1,upstream_gene_variant,,ENST00000513966,;FAM114A1,non_coding_transcript_exon_variant,,ENST00000508737,;FAM114A1,downstream_gene_variant,,ENST00000512889,;	A	ENSG00000197712	ENST00000358869	Transcript	missense_variant	1596	1420	474	E/K	Gaa/Aaa	.	.	.	1	FAM114A1	HGNC	25087	protein_coding	YES	CCDS3447.1	ENSP00000351740	NXP20_HUMAN	Q6MZV4_HUMAN,D6R9C9_HUMAN,B3KSS5_HUMAN	UPI00001DFE17	.	tolerated(0.51)	possibly_damaging(0.562)	12/15	.	hmmpanther:PTHR12842:SF4,hmmpanther:PTHR12842	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACAAGAAGAG	.	5	BLCA
FRYL	0	.	GRCh37	4	48545939	48545939	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5477C>T	p.Ala1826Val	p.A1826V	ENST00000358350	44/64	47	34	13	64	64	0	FRYL,missense_variant,p.Ala1826Val,ENST00000358350,;FRYL,missense_variant,p.Ala696Val,ENST00000514617,;FRYL,missense_variant,p.Ala1826Val,ENST00000503238,;FRYL,missense_variant,p.Ala1826Val,ENST00000537810,;FRYL,5_prime_UTR_variant,,ENST00000507873,;FRYL,5_prime_UTR_variant,,ENST00000264319,;FRYL,upstream_gene_variant,,ENST00000512297,;FRYL,non_coding_transcript_exon_variant,,ENST00000513401,;FRYL,downstream_gene_variant,,ENST00000502925,;	A	ENSG00000075539	ENST00000358350	Transcript	missense_variant	6082	5477	1826	A/V	gCt/gTt	.	.	.	-1	FRYL	HGNC	29127	protein_coding	YES	CCDS43227.1	ENSP00000351113	FRYL_HUMAN	.	UPI0000EBC149	.	deleterious(0)	probably_damaging(0.999)	44/64	.	Gene3D:1.25.10.10,Pfam_domain:PF14228,hmmpanther:PTHR12295:SF9,hmmpanther:PTHR12295	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCAGCATAG	.	5	BLCA
FRYL	0	.	GRCh37	4	48578138	48578165	+	Frame_Shift_Del	DEL	GATGTTGCTGCACTGCAGCAAAGGATCA	GATGTTGCTGCACTGCAGCAAAGGATCA	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	GATGTTGCTGCACTGCAGCAAAGGATCA	GATGTTGCTGCACTGCAGCAAAGGATCA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2603_2630delTGATCCTTTGCTGCAGTGCAGCAACATC	p.Leu868ArgfsTer10	p.L868Rfs*10	ENST00000358350	24/64	57	34	23	75	75	0	FRYL,frameshift_variant,p.Leu868ArgfsTer10,ENST00000358350,;FRYL,frameshift_variant,p.Leu868ArgfsTer10,ENST00000503238,;FRYL,frameshift_variant,p.Leu868ArgfsTer10,ENST00000507711,;FRYL,frameshift_variant,p.Leu868ArgfsTer10,ENST00000537810,;FRYL,5_prime_UTR_variant,,ENST00000264319,;FRYL,downstream_gene_variant,,ENST00000506685,;RNU5E-3P,upstream_gene_variant,,ENST00000515913,;FRYL,upstream_gene_variant,,ENST00000511343,;	-	ENSG00000075539	ENST00000358350	Transcript	frameshift_variant	3208-3235	2603-2630	868-877	LILCCSAATS/X	cTGATCCTTTGCTGCAGTGCAGCAACATCg/cg	.	.	.	-1	FRYL	HGNC	29127	protein_coding	YES	CCDS43227.1	ENSP00000351113	FRYL_HUMAN	.	UPI0000EBC149	.	.	.	24/64	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12295:SF9,hmmpanther:PTHR12295	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GATGACGATGTTGCTGCACTGCAGCAAAGGATCAGATAG	.	3	BLCA
RASL11B	0	.	GRCh37	4	53731532	53731532	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307C>G	p.Gln103Glu	p.Q103E	ENST00000248706	4/4	35	20	14	65	65	0	RASL11B,missense_variant,p.Gln103Glu,ENST00000248706,;RASL11B,non_coding_transcript_exon_variant,,ENST00000505041,;RASL11B,downstream_gene_variant,,ENST00000515677,;	G	ENSG00000128045	ENST00000248706	Transcript	missense_variant	525	307	103	Q/E	Cag/Gag	.	.	.	1	RASL11B	HGNC	23804	protein_coding	YES	CCDS3490.1	ENSP00000248706	RSLBB_HUMAN	.	UPI0000070B4C	.	tolerated(0.2)	benign(0.02)	4/4	.	Superfamily_domains:SSF52540,SMART_domains:SM00175,SMART_domains:SM00174,SMART_domains:SM00173,Pfam_domain:PF00071,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00231,hmmpanther:PTHR24070,hmmpanther:PTHR24070:SF218,PROSITE_profiles:PS51421	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAACAGCTG	.	5	BLCA
SCFD2	0	.	GRCh37	4	53773627	53773627	+	Missense_Mutation	SNP	C	C	T	rs773142307	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1839G>A	p.Met613Ile	p.M613I	ENST00000401642	7/9	94	61	33	111	111	0	SCFD2,missense_variant,p.Met613Ile,ENST00000401642,;SCFD2,intron_variant,,ENST00000388940,;	T	ENSG00000184178	ENST00000401642	Transcript	missense_variant	1973	1839	613	M/I	atG/atA	rs773142307	.	.	-1	SCFD2	HGNC	30676	protein_coding	YES	CCDS33984.1	ENSP00000384182	SCFD2_HUMAN	D6RCK6_HUMAN	UPI000006FB05	.	deleterious(0.01)	probably_damaging(0.927)	7/9	.	hmmpanther:PTHR11679:SF29,hmmpanther:PTHR11679,Pfam_domain:PF00995,Superfamily_domains:SSF56815	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCATGAA	.	5	BLCA
KIT	0	.	GRCh37	4	55575589	55575589	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1116-1G>A	.	p.X372_splice	ENST00000288135	.	48	36	12	65	65	0	KIT,splice_acceptor_variant,,ENST00000412167,;KIT,splice_acceptor_variant,,ENST00000288135,;	A	ENSG00000157404	ENST00000288135	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	KIT	HGNC	6342	protein_coding	YES	CCDS3496.1	ENSP00000288135	KIT_HUMAN	Q8TCG9_HUMAN	UPI000003F17D	.	.	.	.	6/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTAGATACG	.	5	BLCA
CLOCK	0	.	GRCh37	4	56325414	56325414	+	Missense_Mutation	SNP	C	C	T	rs780854851	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.574G>A	p.Glu192Lys	p.E192K	ENST00000309964	9/22	53	37	15	58	58	0	CLOCK,missense_variant,p.Glu192Lys,ENST00000513440,;CLOCK,missense_variant,p.Glu192Lys,ENST00000381322,;CLOCK,missense_variant,p.Glu192Lys,ENST00000309964,;CLOCK,downstream_gene_variant,,ENST00000435527,;CLOCK,non_coding_transcript_exon_variant,,ENST00000506747,;	T	ENSG00000134852	ENST00000309964	Transcript	missense_variant	825	574	192	E/K	Gaa/Aaa	rs780854851	.	.	-1	CLOCK	HGNC	2082	protein_coding	YES	CCDS3500.1	ENSP00000308741	CLOCK_HUMAN	C9JK03_HUMAN	UPI0000031303	.	deleterious(0)	probably_damaging(0.978)	9/22	.	hmmpanther:PTHR23042:SF2,hmmpanther:PTHR23042,Gene3D:3.30.450.20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATTCTAACT	.	5	BLCA
SRP72	0	.	GRCh37	4	57354126	57354126	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1171A>G	p.Lys391Glu	p.K391E	ENST00000342756	12/19	38	27	11	57	57	0	SRP72,missense_variant,p.Lys330Glu,ENST00000510663,;SRP72,missense_variant,p.Lys203Glu,ENST00000505314,;SRP72,missense_variant,p.Lys391Glu,ENST00000342756,;	G	ENSG00000174780	ENST00000342756	Transcript	missense_variant	1892	1171	391	K/E	Aaa/Gaa	.	.	.	1	SRP72	HGNC	11303	protein_coding	YES	CCDS3506.1	ENSP00000342181	SRP72_HUMAN	Q86X80_HUMAN	UPI000013EEB0	.	tolerated(0.76)	benign(0.024)	12/19	.	hmmpanther:PTHR14094:SF9,hmmpanther:PTHR14094,Gene3D:1.25.40.10,PIRSF_domain:PIRSF038922,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTAAAGCA	.	5	BLCA
REST	0	.	GRCh37	4	57777432	57777432	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628G>A	p.Asp210Asn	p.D210N	ENST00000309042	2/4	37	23	14	38	38	0	REST,missense_variant,p.Asp210Asn,ENST00000309042,;REST,non_coding_transcript_exon_variant,,ENST00000514063,;REST,downstream_gene_variant,,ENST00000503522,;REST,downstream_gene_variant,,ENST00000511065,;	A	ENSG00000084093	ENST00000309042	Transcript	missense_variant	942	628	210	D/N	Gat/Aat	.	.	.	1	REST	HGNC	9966	protein_coding	YES	CCDS3509.1	ENSP00000311816	REST_HUMAN	.	UPI000013FBF6	.	deleterious(0.05)	probably_damaging(0.968)	2/4	.	hmmpanther:PTHR10032:SF71,hmmpanther:PTHR10032	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGAGATTTC	.	5	BLCA
NOA1	0	.	GRCh37	4	57842875	57842875	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.877G>A	p.Glu293Lys	p.E293K	ENST00000264230	1/7	38	23	15	66	66	0	NOA1,missense_variant,p.Glu293Lys,ENST00000264230,;POLR2B,upstream_gene_variant,,ENST00000433463,;POLR2B,upstream_gene_variant,,ENST00000450656,;POLR2B,upstream_gene_variant,,ENST00000441246,;POLR2B,upstream_gene_variant,,ENST00000431623,;POLR2B,upstream_gene_variant,,ENST00000381227,;POLR2B,upstream_gene_variant,,ENST00000314595,;POLR2B,upstream_gene_variant,,ENST00000495311,;POLR2B,upstream_gene_variant,,ENST00000497845,;	T	ENSG00000084092	ENST00000264230	Transcript	missense_variant	2115	877	293	E/K	Gag/Aag	.	.	.	-1	NOA1	HGNC	28473	protein_coding	YES	CCDS3510.1	ENSP00000264230	NOA1_HUMAN	.	UPI000006DAEE	.	tolerated(0.7)	benign(0.001)	1/7	.	PROSITE_profiles:PS51721,hmmpanther:PTHR11089,hmmpanther:PTHR11089:SF33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTCGTCCT	.	5	BLCA
TECRL	0	.	GRCh37	4	65170913	65170913	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.701A>G	p.Tyr234Cys	p.Y234C	ENST00000381210	7/12	94	72	22	109	109	0	TECRL,missense_variant,p.Tyr234Cys,ENST00000381210,;TECRL,missense_variant,p.Tyr234Cys,ENST00000507440,;TECRL,non_coding_transcript_exon_variant,,ENST00000513125,;TECRL,non_coding_transcript_exon_variant,,ENST00000511356,;	C	ENSG00000205678	ENST00000381210	Transcript	missense_variant	812	701	234	Y/C	tAc/tGc	.	.	.	-1	TECRL	HGNC	27365	protein_coding	YES	CCDS33990.1	ENSP00000370607	TECRL_HUMAN	D6RBZ3_HUMAN	UPI0000141A54	.	deleterious(0.01)	probably_damaging(0.99)	7/12	.	Transmembrane_helices:TMhelix,Pfam_domain:PF02544,hmmpanther:PTHR10556,hmmpanther:PTHR10556:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAATGTAGTAG	.	5	BLCA
MYL5	0	.	GRCh37	4	675712	675712	+	Missense_Mutation	SNP	G	G	A	rs763972713	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>A	p.Asp151Asn	p.D151N	ENST00000400159	7/7	13	9	4	13	13	0	MYL5,missense_variant,p.Asp110Asn,ENST00000505477,;MYL5,missense_variant,p.Asp110Asn,ENST00000511290,;MYL5,missense_variant,p.Asp110Asn,ENST00000506838,;MYL5,missense_variant,p.Asp151Asn,ENST00000400159,;MFSD7,3_prime_UTR_variant,,ENST00000322224,;MFSD7,3_prime_UTR_variant,,ENST00000404286,;MFSD7,3_prime_UTR_variant,,ENST00000515118,;MFSD7,3_prime_UTR_variant,,ENST00000503156,;MFSD7,3_prime_UTR_variant,,ENST00000347950,;MYL5,downstream_gene_variant,,ENST00000507804,;MFSD7,downstream_gene_variant,,ENST00000507165,;MFSD7,downstream_gene_variant,,ENST00000512249,;MFSD7,downstream_gene_variant,,ENST00000513740,;MYL5,3_prime_UTR_variant,,ENST00000513662,;MYL5,3_prime_UTR_variant,,ENST00000503300,;MYL5,non_coding_transcript_exon_variant,,ENST00000503612,;MFSD7,non_coding_transcript_exon_variant,,ENST00000512400,;	A	ENSG00000215375	ENST00000400159	Transcript	missense_variant	556	451	151	D/N	Gat/Aat	rs763972713	.	.	1	MYL5	HGNC	7586	protein_coding	YES	CCDS43197.1	ENSP00000383023	MYL5_HUMAN	.	UPI000012F210	.	deleterious(0.03)	probably_damaging(0.995)	7/7	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23049,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATCGATGTG	byFrequency	5	BLCA
KIAA0232	0	.	GRCh37	4	6826366	6826366	+	Silent	SNP	C	C	T	rs377699002	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>T	p.%3D	p.L62L	ENST00000307659	3/10	60	46	14	75	75	0	KIAA0232,synonymous_variant,p.%3D,ENST00000508423,;KIAA0232,synonymous_variant,p.%3D,ENST00000307659,;KIAA0232,synonymous_variant,p.%3D,ENST00000425103,;KIAA0232,downstream_gene_variant,,ENST00000503278,;	T	ENSG00000170871	ENST00000307659	Transcript	synonymous_variant	641	186	62	L	ctC/ctT	rs377699002	.	.	1	KIAA0232	HGNC	28992	protein_coding	YES	CCDS43209.1	ENSP00000303928	K0232_HUMAN	D6REK0_HUMAN	UPI000013EC3F	.	.	.	3/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR17611,Pfam_domain:PF15376	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCTCAGTCT	byFrequency|byCluster	2	BLCA
UBA6	0	.	GRCh37	4	68497456	68497456	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2228C>G	p.Ser743Cys	p.S743C	ENST00000322244	25/33	27	20	7	44	44	0	UBA6,missense_variant,p.Ser234Cys,ENST00000505673,;UBA6,missense_variant,p.Ser743Cys,ENST00000322244,;	C	ENSG00000033178	ENST00000322244	Transcript	missense_variant	2288	2228	743	S/C	tCt/tGt	.	.	.	-1	UBA6	HGNC	25581	protein_coding	YES	CCDS3516.1	ENSP00000313454	UBA6_HUMAN	B3KSS1_HUMAN	UPI000004A4F7	.	tolerated(0.22)	benign(0.002)	25/33	.	hmmpanther:PTHR10953,hmmpanther:PTHR10953:SF141,Gene3D:1y8qD02,TIGRFAM_domain:TIGR01408,Superfamily_domains:SSF69572	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGAGAGGGT	.	5	BLCA
TMPRSS11F	0	.	GRCh37	4	68956350	68956350	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173C>T	p.Ser58Phe	p.S58F	ENST00000356291	3/10	80	61	19	95	95	0	TMPRSS11F,missense_variant,p.Ser58Phe,ENST00000356291,;	A	ENSG00000198092	ENST00000356291	Transcript	missense_variant	233	173	58	S/F	tCt/tTt	.	.	.	-1	TMPRSS11F	HGNC	29994	protein_coding	YES	CCDS3520.1	ENSP00000348639	TM11F_HUMAN	.	UPI0000251DE7	.	tolerated(0.05)	possibly_damaging(0.88)	3/10	.	PROSITE_profiles:PS50024,hmmpanther:PTHR24256:SF64,hmmpanther:PTHR24256,Pfam_domain:PF01390,Gene3D:1ivzA00,PIRSF_domain:PIRSF037941,Superfamily_domains:0047452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAGACTTA	.	5	BLCA
UGT2B15	0	.	GRCh37	4	69535850	69535850	+	Missense_Mutation	SNP	C	C	T	rs199566996	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.487G>A	p.Glu163Lys	p.E163K	ENST00000338206	1/6	267	185	81	395	394	0	UGT2B15,missense_variant,p.Glu163Lys,ENST00000338206,;	T	ENSG00000196620	ENST00000338206	Transcript	missense_variant	497	487	163	E/K	Gaa/Aaa	rs199566996	.	.	-1	UGT2B15	HGNC	12546	protein_coding	YES	CCDS3524.1	ENSP00000341045	UDB15_HUMAN	.	UPI000045721A	.	deleterious(0.04)	benign(0.259)	1/6	.	Superfamily_domains:SSF53756,Pfam_domain:PF00201,hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTTCAGCCA	by1000G	5	BLCA
CCDC96	0	.	GRCh37	4	7043630	7043630	+	Missense_Mutation	SNP	G	G	A	rs369900664	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1036C>T	p.Arg346Trp	p.R346W	ENST00000310085	1/1	71	43	28	132	132	0	CCDC96,missense_variant,p.Arg346Trp,ENST00000310085,;TADA2B,5_prime_UTR_variant,,ENST00000506692,;TADA2B,upstream_gene_variant,,ENST00000310074,;TADA2B,upstream_gene_variant,,ENST00000512388,;RP11-367J11.2,intron_variant,,ENST00000500031,;	A	ENSG00000173013	ENST00000310085	Transcript	missense_variant	1099	1036	346	R/W	Cgg/Tgg	rs369900664	.	.	-1	CCDC96	HGNC	26900	protein_coding	YES	CCDS3395.1	ENSP00000309285	CCD96_HUMAN	.	UPI00000705C9	.	tolerated(0.09)	benign(0.067)	1/1	.	hmmpanther:PTHR15654,hmmpanther:PTHR15654:SF1	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCCGACAGC	byFrequency|byCluster	5	BLCA
TADA2B	0	.	GRCh37	4	7045505	7045505	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199G>A	p.Glu67Lys	p.E67K	ENST00000310074	1/2	17	8	9	18	18	0	TADA2B,missense_variant,p.Glu67Lys,ENST00000310074,;TADA2B,intron_variant,,ENST00000506692,;TADA2B,intron_variant,,ENST00000512388,;CCDC96,upstream_gene_variant,,ENST00000310085,;RP11-367J11.2,intron_variant,,ENST00000500031,;	A	ENSG00000173011	ENST00000310074	Transcript	missense_variant	388	199	67	E/K	Gag/Aag	COSM1310219	.	.	1	TADA2B	HGNC	30781	protein_coding	YES	CCDS47007.1	ENSP00000308022	TAD2B_HUMAN	D6RJ05_HUMAN,D6RC20_HUMAN	UPI00001996F4	.	tolerated(0.77)	benign(0.063)	1/2	.	PROSITE_profiles:PS51293,hmmpanther:PTHR12374,SMART_domains:SM00717,PIRSF_domain:PIRSF025024	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCGAGGGC	.	5	BLCA
CABS1	0	.	GRCh37	4	71201787	71201787	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1031C>T	p.Ser344Phe	p.S344F	ENST00000273936	1/2	60	38	22	52	52	0	CABS1,missense_variant,p.Ser344Phe,ENST00000273936,;	T	ENSG00000145309	ENST00000273936	Transcript	missense_variant	1105	1031	344	S/F	tCt/tTt	.	.	.	1	CABS1	HGNC	30710	protein_coding	YES	CCDS3539.1	ENSP00000273936	CABS1_HUMAN	.	UPI0000071735	.	tolerated(0.19)	benign(0.116)	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22810,Pfam_domain:PF15367	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTCTGAAA	.	5	BLCA
SLC4A4	0	.	GRCh37	4	72204806	72204806	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.254-281G>A	.	.	ENST00000425175	.	18	11	7	24	24	0	SLC4A4,5_prime_UTR_variant,,ENST00000340595,;SLC4A4,5_prime_UTR_variant,,ENST00000512686,;SLC4A4,intron_variant,,ENST00000425175,;SLC4A4,intron_variant,,ENST00000264485,;SLC4A4,intron_variant,,ENST00000351898,;SLC4A4,intron_variant,,ENST00000514331,;	A	ENSG00000080493	ENST00000425175	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	SLC4A4	HGNC	11030	protein_coding	YES	CCDS47071.1	ENSP00000393557	S4A4_HUMAN	A5JJ20_HUMAN	UPI000152897D	.	.	.	.	3/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTGAGGGC	.	5	BLCA
IL8	0	.	GRCh37	4	74606306	74606306	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-70G>A	.	.	ENST00000307407	1/4	68	40	27	119	119	0	IL8,5_prime_UTR_variant,,ENST00000307407,;IL8,5_prime_UTR_variant,,ENST00000401931,;IL8,non_coding_transcript_exon_variant,,ENST00000483500,;	A	ENSG00000169429	ENST00000307407	Transcript	5_prime_UTR_variant	84	.	.	.	.	.	.	.	1	IL8	HGNC	6025	protein_coding	YES	CCDS34005.1	ENSP00000306512	IL8_HUMAN	C9J4T6_HUMAN	UPI0000000DD0	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CAGCAGAGCAC	.	4	BLCA
ART3	0	.	GRCh37	4	77021956	77021956	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.886A>T	p.Asn296Tyr	p.N296Y	ENST00000355810	7/12	91	65	25	129	129	0	ART3,missense_variant,p.Asn296Tyr,ENST00000349321,;ART3,missense_variant,p.Asn296Tyr,ENST00000355810,;ART3,missense_variant,p.Asn296Tyr,ENST00000341029,;ART3,missense_variant,p.Asn48Tyr,ENST00000511188,;ART3,non_coding_transcript_exon_variant,,ENST00000506313,;ART3,non_coding_transcript_exon_variant,,ENST00000395688,;ART3,non_coding_transcript_exon_variant,,ENST00000510669,;ART3,non_coding_transcript_exon_variant,,ENST00000506667,;ART3,non_coding_transcript_exon_variant,,ENST00000504112,;ART3,downstream_gene_variant,,ENST00000513494,;	T	ENSG00000156219	ENST00000355810	Transcript	missense_variant	1005	886	296	N/Y	Aac/Tac	.	.	.	1	ART3	HGNC	725	protein_coding	YES	CCDS47079.1	ENSP00000348064	NAR3_HUMAN	Q5J1Q0_HUMAN,Q5J1P8_HUMAN,Q5J1K8_HUMAN,Q5J1K7_HUMAN,E9PGR5_HUMAN,E7EX61_HUMAN,E7ESB3_HUMAN,E7ER42_HUMAN	UPI000012FD7B	.	deleterious(0.03)	benign(0.001)	7/12	.	hmmpanther:PTHR10339:SF4,hmmpanther:PTHR10339	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAAACTGG	.	5	BLCA
FAM47E-STBD1	0	.	GRCh37	4	77230462	77230462	+	Missense_Mutation	SNP	C	C	G	rs775774867	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386C>G	p.Ser129Cys	p.S129C	ENST00000237642	2/2	45	31	14	58	58	0	FAM47E-STBD1,missense_variant,p.Ser129Cys,ENST00000237642,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000514140,;FAM47E-STBD1,5_prime_UTR_variant,,ENST00000539752,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000515604,;CCDC158,downstream_gene_variant,,ENST00000388914,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000514365,;FAM47E-STBD1,3_prime_UTR_variant,,ENST00000509377,;CCDC158,downstream_gene_variant,,ENST00000504667,;	G	ENSG00000118804	ENST00000237642	Transcript	missense_variant	1130	386	129	S/C	tCt/tGt	rs775774867	.	.	1	FAM47E-STBD1	HGNC	44667	protein_coding	YES	CCDS3578.1	ENSP00000237642	STBD1_HUMAN	B3KMK8_HUMAN	UPI000006DB9D	.	deleterious(0)	probably_damaging(0.991)	2/2	.	hmmpanther:PTHR15048,hmmpanther:PTHR15048:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCTGAGA	.	5	BLCA
SHROOM3	0	.	GRCh37	4	77677743	77677743	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4851C>T	p.%3D	p.F1617F	ENST00000296043	8/11	46	36	10	67	67	0	SHROOM3,synonymous_variant,p.%3D,ENST00000296043,;RP11-359D14.2,downstream_gene_variant,,ENST00000452412,;RP11-359D14.3,downstream_gene_variant,,ENST00000449007,;SHROOM3,downstream_gene_variant,,ENST00000469923,;	T	ENSG00000138771	ENST00000296043	Transcript	synonymous_variant	5804	4851	1617	F	ttC/ttT	.	.	.	1	SHROOM3	HGNC	30422	protein_coding	YES	CCDS3579.2	ENSP00000296043	SHRM3_HUMAN	.	UPI0000E5AC1C	.	.	.	8/11	.	hmmpanther:PTHR15012:SF33,hmmpanther:PTHR15012	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCATGAG	.	5	BLCA
CCNG2	0	.	GRCh37	4	78080565	78080565	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.184G>A	p.Asp62Asn	p.D62N	ENST00000316355	3/8	86	67	19	114	114	0	CCNG2,missense_variant,p.Asp62Asn,ENST00000395640,;CCNG2,missense_variant,p.Asp62Asn,ENST00000512918,;CCNG2,missense_variant,p.Asp62Asn,ENST00000316355,;CCNG2,missense_variant,p.Asp62Asn,ENST00000354403,;CCNG2,missense_variant,p.Asp62Asn,ENST00000509972,;CCNG2,missense_variant,p.Asp62Asn,ENST00000502280,;CCNG2,non_coding_transcript_exon_variant,,ENST00000497512,;	A	ENSG00000138764	ENST00000316355	Transcript	missense_variant	540	184	62	D/N	Gat/Aat	.	.	.	1	CCNG2	HGNC	1593	protein_coding	YES	CCDS3581.1	ENSP00000315743	CCNG2_HUMAN	Q6FGC6_HUMAN,D6RHI3_HUMAN	UPI00001275D4	.	tolerated(0.07)	possibly_damaging(0.549)	3/8	.	Superfamily_domains:SSF47954,SMART_domains:SM00385,Gene3D:1.10.472.10,hmmpanther:PTHR10177:SF60,hmmpanther:PTHR10177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAGATTTA	.	5	BLCA
ACOX3	0	.	GRCh37	4	8398699	8398699	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1021G>A	p.Glu341Lys	p.E341K	ENST00000356406	9/18	68	52	16	102	102	0	ACOX3,missense_variant,p.Glu341Lys,ENST00000356406,;ACOX3,missense_variant,p.Glu341Lys,ENST00000413009,;ACOX3,missense_variant,p.Glu341Lys,ENST00000503233,;RNA5SP152,downstream_gene_variant,,ENST00000365184,;ACOX3,upstream_gene_variant,,ENST00000508302,;ACOX3,non_coding_transcript_exon_variant,,ENST00000510365,;	T	ENSG00000087008	ENST00000356406	Transcript	missense_variant	1099	1021	341	E/K	Gag/Aag	.	.	.	-1	ACOX3	HGNC	121	protein_coding	YES	CCDS3401.1	ENSP00000348775	ACOX3_HUMAN	D6RJ89_HUMAN	UPI000013EEE2	.	tolerated(0.63)	benign(0.008)	9/18	.	hmmpanther:PTHR10909:SF11,hmmpanther:PTHR10909,Gene3D:1.20.140.10,Pfam_domain:PF00441,PIRSF_domain:PIRSF000168,Superfamily_domains:SSF47203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCCTCTG	.	5	BLCA
WDFY3	0	.	GRCh37	4	85660179	85660179	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6558C>T	p.%3D	p.S2186S	ENST00000295888	40/68	48	38	10	76	76	0	WDFY3,synonymous_variant,p.%3D,ENST00000295888,;WDFY3,synonymous_variant,p.%3D,ENST00000322366,;WDFY3,non_coding_transcript_exon_variant,,ENST00000504839,;	A	ENSG00000163625	ENST00000295888	Transcript	synonymous_variant	6966	6558	2186	S	agC/agT	.	.	.	-1	WDFY3	HGNC	20751	protein_coding	YES	CCDS3609.1	ENSP00000295888	WDFY3_HUMAN	D6RJE4_HUMAN,A7E1Z6_HUMAN	UPI000013E2C7	.	.	.	40/68	.	hmmpanther:PTHR13743:SF55,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTGGCTGTA	.	2	BLCA
WDFY3	0	.	GRCh37	4	85750239	85750239	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.874G>C	p.Asp292His	p.D292H	ENST00000295888	9/68	65	46	19	86	86	0	WDFY3,missense_variant,p.Asp292His,ENST00000295888,;WDFY3,missense_variant,p.Asp292His,ENST00000322366,;WDFY3,non_coding_transcript_exon_variant,,ENST00000426414,;	G	ENSG00000163625	ENST00000295888	Transcript	missense_variant	1282	874	292	D/H	Gat/Cat	.	.	.	-1	WDFY3	HGNC	20751	protein_coding	YES	CCDS3609.1	ENSP00000295888	WDFY3_HUMAN	D6RJE4_HUMAN,A7E1Z6_HUMAN	UPI000013E2C7	.	deleterious(0)	probably_damaging(0.998)	9/68	.	hmmpanther:PTHR13743:SF55,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAATCTTTGA	.	5	BLCA
CPZ	0	.	GRCh37	4	8609135	8609135	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1210C>T	p.Pro404Ser	p.P404S	ENST00000360986	7/11	22	12	10	41	41	0	CPZ,missense_variant,p.Pro404Ser,ENST00000360986,;CPZ,missense_variant,p.Pro393Ser,ENST00000315782,;CPZ,missense_variant,p.Pro267Ser,ENST00000382480,;CPZ,5_prime_UTR_variant,,ENST00000429646,;GPR78,3_prime_UTR_variant,,ENST00000514302,;CPZ,3_prime_UTR_variant,,ENST00000515606,;GPR78,non_coding_transcript_exon_variant,,ENST00000513120,;	T	ENSG00000109625	ENST00000360986	Transcript	missense_variant	1384	1210	404	P/S	Ccc/Tcc	.	.	.	1	CPZ	HGNC	2333	protein_coding	YES	CCDS33953.1	ENSP00000354255	CBPZ_HUMAN	.	UPI000020BCC5	.	tolerated(0.07)	probably_damaging(0.926)	7/11	.	Superfamily_domains:SSF53187,SMART_domains:SM00631,Gene3D:3.40.630.10,Pfam_domain:PF00246,hmmpanther:PTHR11532:SF4,hmmpanther:PTHR11532	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCCCACG	.	5	BLCA
MAPK10	0	.	GRCh37	4	87022281	87022281	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.654C>T	p.%3D	p.F218F	ENST00000359221	8/14	50	36	14	48	48	0	MAPK10,synonymous_variant,p.%3D,ENST00000395160,;MAPK10,synonymous_variant,p.%3D,ENST00000395169,;MAPK10,synonymous_variant,p.%3D,ENST00000515400,;MAPK10,synonymous_variant,p.%3D,ENST00000395166,;MAPK10,synonymous_variant,p.%3D,ENST00000395161,;MAPK10,synonymous_variant,p.%3D,ENST00000449047,;MAPK10,synonymous_variant,p.%3D,ENST00000361569,;MAPK10,synonymous_variant,p.%3D,ENST00000359221,;MAPK10,synonymous_variant,p.%3D,ENST00000395157,;MAPK10,downstream_gene_variant,,ENST00000512017,;MAPK10,non_coding_transcript_exon_variant,,ENST00000486985,;MAPK10,non_coding_transcript_exon_variant,,ENST00000468020,;MAPK10,non_coding_transcript_exon_variant,,ENST00000479377,;MAPK10,non_coding_transcript_exon_variant,,ENST00000472236,;MAPK10,downstream_gene_variant,,ENST00000513839,;MAPK10,3_prime_UTR_variant,,ENST00000310816,;MAPK10,downstream_gene_variant,,ENST00000430389,;MAPK10,upstream_gene_variant,,ENST00000508262,;	A	ENSG00000109339	ENST00000359221	Transcript	synonymous_variant	1181	654	218	F	ttC/ttT	.	.	.	-1	MAPK10	HGNC	6872	protein_coding	YES	CCDS34026.1	ENSP00000352157	MK10_HUMAN	D6RJF9_HUMAN,D6RFZ7_HUMAN,D6RFX8_HUMAN,D6RDG1_HUMAN,D6RCB1_HUMAN,D6RC26_HUMAN,D6RBH2_HUMAN,D6RAU3_HUMAN,D6RAJ0_HUMAN,D6R9C1_HUMAN,B3KR72_HUMAN,A8MWW6_HUMAN	UPI0000049042	.	.	.	8/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055:SF162,hmmpanther:PTHR24055,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112,Prints_domain:PR01772	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ATCATGAAGCT	.	4	BLCA
PTPN13	0	.	GRCh37	4	87680178	87680178	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3505G>A	p.Glu1169Lys	p.E1169K	ENST00000436978	23/48	38	25	12	62	62	0	PTPN13,missense_variant,p.Glu1169Lys,ENST00000411767,;PTPN13,missense_variant,p.Glu1169Lys,ENST00000436978,;PTPN13,missense_variant,p.Glu978Lys,ENST00000316707,;PTPN13,missense_variant,p.Glu1169Lys,ENST00000511467,;PTPN13,missense_variant,p.Glu1150Lys,ENST00000427191,;PTPN13,non_coding_transcript_exon_variant,,ENST00000508063,;PTPN13,upstream_gene_variant,,ENST00000511105,;	A	ENSG00000163629	ENST00000436978	Transcript	missense_variant	3985	3505	1169	E/K	Gaa/Aaa	.	.	.	1	PTPN13	HGNC	9646	protein_coding	YES	CCDS47093.1	ENSP00000394794	PTN13_HUMAN	Q4W5F5_HUMAN,D6R9X4_HUMAN	UPI000016075D	.	deleterious(0)	possibly_damaging(0.702)	23/48	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF197,Gene3D:2.30.42.10,Pfam_domain:PF00595,PIRSF_domain:PIRSF000933,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTGAAGAT	.	5	BLCA
PTPN13	0	.	GRCh37	4	87691131	87691131	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4714C>T	p.Gln1572Ter	p.Q1572*	ENST00000436978	29/48	62	39	23	79	79	0	PTPN13,stop_gained,p.Gln1567Ter,ENST00000411767,;PTPN13,stop_gained,p.Gln1572Ter,ENST00000436978,;PTPN13,stop_gained,p.Gln1376Ter,ENST00000316707,;PTPN13,stop_gained,p.Gln1572Ter,ENST00000511467,;PTPN13,stop_gained,p.Gln1548Ter,ENST00000427191,;PTPN13,downstream_gene_variant,,ENST00000511105,;	T	ENSG00000163629	ENST00000436978	Transcript	stop_gained	5194	4714	1572	Q/*	Cag/Tag	.	.	.	1	PTPN13	HGNC	9646	protein_coding	YES	CCDS47093.1	ENSP00000394794	PTN13_HUMAN	Q4W5F5_HUMAN,D6R9X4_HUMAN	UPI000016075D	.	.	.	29/48	.	PROSITE_profiles:PS50106,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF197,Pfam_domain:PF00595,Gene3D:2.30.42.10,PIRSF_domain:PIRSF000933,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCAGCAG	.	5	BLCA
PTPN13	0	.	GRCh37	4	87693977	87693977	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5230C>T	p.Gln1744Ter	p.Q1744*	ENST00000436978	32/48	78	49	29	98	97	0	PTPN13,stop_gained,p.Gln1739Ter,ENST00000411767,;PTPN13,stop_gained,p.Gln1744Ter,ENST00000436978,;PTPN13,stop_gained,p.Gln1548Ter,ENST00000316707,;PTPN13,stop_gained,p.Gln1744Ter,ENST00000511467,;PTPN13,stop_gained,p.Gln1720Ter,ENST00000427191,;	T	ENSG00000163629	ENST00000436978	Transcript	stop_gained	5710	5230	1744	Q/*	Caa/Taa	.	.	.	1	PTPN13	HGNC	9646	protein_coding	YES	CCDS47093.1	ENSP00000394794	PTN13_HUMAN	Q4W5F5_HUMAN,D6R9X4_HUMAN	UPI000016075D	.	.	.	32/48	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF197,PIRSF_domain:PIRSF000933	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTATCAACCC	.	5	BLCA
PTPN13	0	.	GRCh37	4	87735708	87735708	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4G>A	.	.	ENST00000436978	48/48	24	18	6	28	28	0	PTPN13,3_prime_UTR_variant,,ENST00000411767,;PTPN13,3_prime_UTR_variant,,ENST00000436978,;PTPN13,3_prime_UTR_variant,,ENST00000316707,;PTPN13,3_prime_UTR_variant,,ENST00000511467,;PTPN13,3_prime_UTR_variant,,ENST00000427191,;	A	ENSG00000163629	ENST00000436978	Transcript	3_prime_UTR_variant	7957	.	.	.	.	.	.	.	1	PTPN13	HGNC	9646	protein_coding	YES	CCDS47093.1	ENSP00000394794	PTN13_HUMAN	Q4W5F5_HUMAN,D6R9X4_HUMAN	UPI000016075D	.	.	.	48/48	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATGAAAAG	.	5	BLCA
AFF1	0	.	GRCh37	4	88029369	88029369	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1435G>A	p.Glu479Lys	p.E479K	ENST00000395146	11/21	42	24	17	52	52	0	AFF1,missense_variant,p.Glu163Lys,ENST00000514970,;AFF1,missense_variant,p.Glu472Lys,ENST00000307808,;AFF1,missense_variant,p.Glu479Lys,ENST00000395146,;AFF1,missense_variant,p.Glu110Lys,ENST00000511722,;AFF1,missense_variant,p.Glu110Lys,ENST00000544085,;AFF1,downstream_gene_variant,,ENST00000503477,;	A	ENSG00000172493	ENST00000395146	Transcript	missense_variant	1710	1435	479	E/K	Gaa/Aaa	.	.	.	1	AFF1	HGNC	7135	protein_coding	YES	CCDS54775.1	ENSP00000378578	AFF1_HUMAN	Q712L1_HUMAN,F5GXF9_HUMAN,D6RIZ5_HUMAN,D6RAU0_HUMAN	UPI000013EC52	.	tolerated(0.49)	unknown(0)	11/21	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10528:SF14,hmmpanther:PTHR10528,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCAGAAAGC	.	5	BLCA
ABCG2	0	.	GRCh37	4	89042828	89042828	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648A>C	p.Leu216Phe	p.L216F	ENST00000237612	6/16	33	19	14	42	42	0	ABCG2,missense_variant,p.Leu216Phe,ENST00000515655,;ABCG2,missense_variant,p.Leu216Phe,ENST00000237612,;	G	ENSG00000118777	ENST00000237612	Transcript	missense_variant	1194	648	216	L/F	ttA/ttC	.	.	.	-1	ABCG2	HGNC	74	protein_coding	YES	CCDS3628.1	ENSP00000237612	ABCG2_HUMAN	F8S0F2_HUMAN	UPI0000001275	.	deleterious(0)	probably_damaging(0.998)	6/16	.	PROSITE_profiles:PS50893,hmmpanther:PTHR19241:SF198,hmmpanther:PTHR19241,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTCTAAGCC	.	5	BLCA
FAM13A	0	.	GRCh37	4	89744315	89744315	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1008-18112G>A	.	.	ENST00000264344	.	38	28	10	37	37	0	FAM13A,5_prime_UTR_variant,,ENST00000508369,;FAM13A,5_prime_UTR_variant,,ENST00000503556,;FAM13A,5_prime_UTR_variant,,ENST00000395002,;FAM13A,5_prime_UTR_variant,,ENST00000513837,;FAM13A,intron_variant,,ENST00000511976,;FAM13A,intron_variant,,ENST00000264344,;FAM13A,intron_variant,,ENST00000502459,;FAM13A,5_prime_UTR_variant,,ENST00000504836,;FAM13A,5_prime_UTR_variant,,ENST00000507352,;	T	ENSG00000138640	ENST00000264344	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FAM13A	HGNC	19367	protein_coding	YES	CCDS34029.1	ENSP00000264344	FA13A_HUMAN	B4DPB4_HUMAN	UPI0000481AF3	.	.	.	.	7/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CCAGTCTACTG	.	2	BLCA
GAK	0	.	GRCh37	4	906564	906564	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226G>A	p.Glu76Lys	p.E76K	ENST00000314167	3/28	111	77	34	137	137	0	GAK,missense_variant,p.Glu76Lys,ENST00000314167,;GAK,5_prime_UTR_variant,,ENST00000511229,;GAK,intron_variant,,ENST00000511163,;GAK,intron_variant,,ENST00000502656,;GAK,non_coding_transcript_exon_variant,,ENST00000510022,;GAK,intron_variant,,ENST00000511983,;GAK,missense_variant,p.Glu76Lys,ENST00000505819,;GAK,non_coding_transcript_exon_variant,,ENST00000507124,;GAK,non_coding_transcript_exon_variant,,ENST00000513935,;GAK,intron_variant,,ENST00000512325,;GAK,intron_variant,,ENST00000507580,;	T	ENSG00000178950	ENST00000314167	Transcript	missense_variant	337	226	76	E/K	Gag/Aag	.	.	.	-1	GAK	HGNC	4113	protein_coding	YES	CCDS3340.1	ENSP00000314499	GAK_HUMAN	Q59HA5_HUMAN,D6RF16_HUMAN,D6RC24_HUMAN	UPI000012B04A	.	deleterious(0.04)	possibly_damaging(0.728)	3/28	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23172:SF34,hmmpanther:PTHR23172,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCTTCAT	.	5	BLCA
SMARCAD1	0	.	GRCh37	4	95202709	95202709	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2700C>T	p.%3D	p.L900L	ENST00000359052	21/24	90	63	27	87	87	0	SMARCAD1,synonymous_variant,p.%3D,ENST00000509418,;SMARCAD1,synonymous_variant,p.%3D,ENST00000457823,;SMARCAD1,synonymous_variant,p.%3D,ENST00000354268,;SMARCAD1,synonymous_variant,p.%3D,ENST00000359052,;SMARCAD1,3_prime_UTR_variant,,ENST00000394961,;SMARCAD1,downstream_gene_variant,,ENST00000510105,;	T	ENSG00000163104	ENST00000359052	Transcript	synonymous_variant	2874	2700	900	L	ctC/ctT	.	.	.	1	SMARCAD1	HGNC	18398	protein_coding	YES	CCDS47101.1	ENSP00000351947	SMRCD_HUMAN	.	UPI000020B1CF	.	.	.	21/24	.	PROSITE_profiles:PS51194,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF271,Gene3D:3.40.50.300,Pfam_domain:PF00271,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAGATT	.	5	BLCA
UNC5C	0	.	GRCh37	4	96222806	96222806	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441G>A	p.Trp147Ter	p.W147*	ENST00000453304	3/16	34	21	13	66	66	0	UNC5C,stop_gained,p.Trp147Ter,ENST00000506749,;UNC5C,stop_gained,p.Trp147Ter,ENST00000513796,;UNC5C,stop_gained,p.Trp147Ter,ENST00000453304,;UNC5C,stop_gained,p.Trp147Ter,ENST00000504962,;	T	ENSG00000182168	ENST00000453304	Transcript	stop_gained	790	441	147	W/*	tgG/tgA	.	.	.	-1	UNC5C	HGNC	12569	protein_coding	YES	CCDS3643.1	ENSP00000406022	UNC5C_HUMAN	Q4W5H4_HUMAN	UPI000004E6A5	.	.	.	3/16	.	Superfamily_domains:SSF48726,Gene3D:2.60.40.10,hmmpanther:PTHR12582,hmmpanther:PTHR12582:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCCAGGC	.	5	BLCA
PPIP5K2	0	.	GRCh37	5	102509653	102509653	+	Missense_Mutation	SNP	C	C	T	rs781791997	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2506C>T	p.Leu836Phe	p.L836F	ENST00000321521	21/30	43	30	13	57	57	0	PPIP5K2,missense_variant,p.Leu836Phe,ENST00000414217,;PPIP5K2,missense_variant,p.Leu836Phe,ENST00000321521,;PPIP5K2,missense_variant,p.Leu110Phe,ENST00000509597,;PPIP5K2,missense_variant,p.Leu836Phe,ENST00000358359,;PPIP5K2,upstream_gene_variant,,ENST00000511022,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000507966,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000513500,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000511724,;PPIP5K2,non_coding_transcript_exon_variant,,ENST00000508935,;	T	ENSG00000145725	ENST00000321521	Transcript	missense_variant	3079	2506	836	L/F	Ctt/Ttt	rs781791997	.	.	1	PPIP5K2	HGNC	29035	protein_coding	YES	CCDS34207.1	ENSP00000313070	VIP2_HUMAN	K7EPT7_HUMAN,D6RFG4_HUMAN	UPI000006E414	.	tolerated(0.49)	benign(0.036)	21/30	.	Superfamily_domains:SSF53254,Gene3D:3.40.50.1240,Pfam_domain:PF00328,hmmpanther:PTHR12750:SF10,hmmpanther:PTHR12750	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATTCTTCGC	byFrequency	5	BLCA
MARCH6	0	.	GRCh37	5	10403635	10403635	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1314C>T	p.%3D	p.F438F	ENST00000274140	15/26	85	47	37	84	84	0	MARCH6,synonymous_variant,p.%3D,ENST00000449913,;MARCH6,synonymous_variant,p.%3D,ENST00000510792,;MARCH6,synonymous_variant,p.%3D,ENST00000274140,;MARCH6,synonymous_variant,p.%3D,ENST00000503788,;MARCH6,non_coding_transcript_exon_variant,,ENST00000511802,;MARCH6,downstream_gene_variant,,ENST00000514961,;	T	ENSG00000145495	ENST00000274140	Transcript	synonymous_variant	1446	1314	438	F	ttC/ttT	.	.	.	1	MARCH6	HGNC	30550	protein_coding	YES	CCDS34135.1	ENSP00000274140	MARH6_HUMAN	.	UPI00001B94D6	.	.	.	15/26	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13145:SF0,hmmpanther:PTHR13145	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCATTCT	.	5	BLCA
WDR36	0	.	GRCh37	5	110427874	110427874	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-113G>A	.	.	ENST00000506538	1/23	18	15	3	19	19	0	WDR36,5_prime_UTR_variant,,ENST00000506538,;WDR36,upstream_gene_variant,,ENST00000513710,;WDR36,upstream_gene_variant,,ENST00000504122,;WDR36,upstream_gene_variant,,ENST00000505303,;CTC-551A13.2,upstream_gene_variant,,ENST00000507269,;WDR36,upstream_gene_variant,,ENST00000515784,;	A	ENSG00000134987	ENST00000506538	Transcript	5_prime_UTR_variant	461	.	.	.	.	.	.	.	1	WDR36	HGNC	30696	protein_coding	YES	CCDS4102.1	ENSP00000423067	WDR36_HUMAN	D6RFM8_HUMAN	UPI000007018C	.	.	.	1/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CTAACGAGCTT	.	2	BLCA
APC	0	.	GRCh37	5	112177639	112177660	+	Frame_Shift_Del	DEL	TCAAGCTGCTGCTGCTGCATGT	TCAAGCTGCTGCTGCTGCATGT	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	TCAAGCTGCTGCTGCTGCATGT	TCAAGCTGCTGCTGCTGCATGT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6349_6370delCAAGCTGCTGCTGCTGCATGTT	p.Gln2117TyrfsTer15	p.Q2117Yfs*15	ENST00000457016	16/16	100	72	28	122	122	0	APC,frameshift_variant,p.Gln2117TyrfsTer15,ENST00000257430,;APC,frameshift_variant,p.Gln2117TyrfsTer15,ENST00000457016,;APC,frameshift_variant,p.Gln2117TyrfsTer15,ENST00000508376,;APC,downstream_gene_variant,,ENST00000507379,;APC,downstream_gene_variant,,ENST00000512211,;APC,downstream_gene_variant,,ENST00000504915,;APC,3_prime_UTR_variant,,ENST00000508624,;CTC-554D6.1,intron_variant,,ENST00000520401,;APC,downstream_gene_variant,,ENST00000502371,;APC,downstream_gene_variant,,ENST00000514164,;	-	ENSG00000134982	ENST00000457016	Transcript	frameshift_variant	6728-6749	6348-6369	2116-2123	HQAAAAAC/X	caTCAAGCTGCTGCTGCTGCATGT/ca	.	.	.	1	APC	HGNC	583	protein_coding	YES	CCDS4107.1	ENSP00000413133	APC_HUMAN	Q9UM98_HUMAN,Q9P119_HUMAN,Q9HAW6_HUMAN,Q4LE70_HUMAN,E9PFT7_HUMAN,D6RFL6_HUMAN,B2ZRE1_HUMAN,A5HB97_HUMAN,A5HB96_HUMAN,A5HB95_HUMAN,A5HB94_HUMAN,A1YIQ7_HUMAN	UPI000013CF60	.	.	.	16/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12607,hmmpanther:PTHR12607:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTACATCAAGCTGCTGCTGCTGCATGTTTATC	.	3	BLCA
SRP19	0	.	GRCh37	5	112203252	112203252	+	3'UTR	SNP	G	G	T	rs371091680	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*18G>T	.	.	ENST00000505459	5/5	23	12	11	26	26	0	SRP19,3_prime_UTR_variant,,ENST00000282999,;SRP19,3_prime_UTR_variant,,ENST00000505459,;SRP19,3_prime_UTR_variant,,ENST00000515463,;CTC-487M23.8,intron_variant,,ENST00000512790,;CTC-487M23.8,intron_variant,,ENST00000503445,;CTC-554D6.1,3_prime_UTR_variant,,ENST00000520401,;SRP19,non_coding_transcript_exon_variant,,ENST00000504696,;SRP19,non_coding_transcript_exon_variant,,ENST00000506987,;CTC-487M23.8,intron_variant,,ENST00000509024,;CTC-487M23.8,intron_variant,,ENST00000506997,;SRP19,downstream_gene_variant,,ENST00000515755,;SRP19,downstream_gene_variant,,ENST00000445150,;	T	ENSG00000153037	ENST00000505459	Transcript	3_prime_UTR_variant	608	.	.	.	.	rs371091680	.	.	1	SRP19	HGNC	11300	protein_coding	YES	CCDS4108.1	ENSP00000424870	SRP19_HUMAN	.	UPI000013DD11	.	.	.	5/5	.	.	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCAAGTATGT	byCluster	5	BLCA
TMED7	0	.	GRCh37	5	114951943	114951943	+	Missense_Mutation	SNP	G	G	A	rs779646279	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.638C>T	p.Ser213Leu	p.S213L	ENST00000456936	3/3	42	28	14	53	53	0	TMED7,missense_variant,p.Ser213Leu,ENST00000456936,;TMED7-TICAM2,intron_variant,,ENST00000282382,;TICAM2,intron_variant,,ENST00000408996,;TMED7-TICAM2,intron_variant,,ENST00000333314,;TMED7,downstream_gene_variant,,ENST00000508420,;AC010226.4,intron_variant,,ENST00000515570,;AC010226.4,intron_variant,,ENST00000508517,;TMED7,non_coding_transcript_exon_variant,,ENST00000503010,;TMED7-TICAM2,intron_variant,,ENST00000514548,;	A	ENSG00000134970	ENST00000456936	Transcript	missense_variant	1019	638	213	S/L	tCa/tTa	rs779646279	.	.	-1	TMED7	HGNC	24253	protein_coding	YES	CCDS4120.1	ENSP00000405926	TMED7_HUMAN	G3V2Y2_HUMAN,B4E2C1_HUMAN	UPI000007008A	.	deleterious(0)	probably_damaging(0.994)	3/3	.	hmmpanther:PTHR22811,hmmpanther:PTHR22811:SF49	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTGAGAAA	byFrequency	5	BLCA
DMXL1	0	.	GRCh37	5	118440916	118440916	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>A	p.%3D	p.L109L	ENST00000311085	4/43	69	50	19	82	82	0	DMXL1,synonymous_variant,p.%3D,ENST00000539542,;DMXL1,synonymous_variant,p.%3D,ENST00000311085,;DMXL1,synonymous_variant,p.%3D,ENST00000503802,;DMXL1,non_coding_transcript_exon_variant,,ENST00000510924,;DMXL1,upstream_gene_variant,,ENST00000514151,;DMXL1,downstream_gene_variant,,ENST00000515335,;DMXL1,downstream_gene_variant,,ENST00000509902,;	A	ENSG00000172869	ENST00000311085	Transcript	synonymous_variant	407	327	109	L	ctG/ctA	.	.	.	1	DMXL1	HGNC	2937	protein_coding	YES	CCDS4125.1	ENSP00000309690	DMXL1_HUMAN	F1T0K4_HUMAN,E7EMZ0_HUMAN	UPI000013F0EC	.	.	.	4/43	.	hmmpanther:PTHR13950,hmmpanther:PTHR13950:SF12,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGGAATC	.	5	BLCA
HSD17B4	0	.	GRCh37	5	118837760	118837760	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1309G>A	p.Glu437Lys	p.E437K	ENST00000504811	15/25	75	61	14	85	85	0	HSD17B4,missense_variant,p.Glu272Lys,ENST00000414835,;HSD17B4,missense_variant,p.Glu275Lys,ENST00000513628,;HSD17B4,missense_variant,p.Glu437Lys,ENST00000504811,;HSD17B4,missense_variant,p.Glu412Lys,ENST00000256216,;HSD17B4,missense_variant,p.Glu394Lys,ENST00000515320,;HSD17B4,missense_variant,p.Glu388Lys,ENST00000510025,;HSD17B4,missense_variant,p.Glu150Lys,ENST00000509514,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000520216,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000520244,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000518349,;HSD17B4,missense_variant,p.Glu412Lys,ENST00000442060,;HSD17B4,non_coding_transcript_exon_variant,,ENST00000515235,;HSD17B4,downstream_gene_variant,,ENST00000512029,;	A	ENSG00000133835	ENST00000504811	Transcript	missense_variant	1493	1309	437	E/K	Gag/Aag	.	.	.	1	HSD17B4	HGNC	5213	protein_coding	YES	CCDS56379.1	ENSP00000420914	DHB4_HUMAN	Q9UBA4_HUMAN,E7EWE5_HUMAN,E7ET17_HUMAN	UPI0001AE7403	.	deleterious(0.03)	possibly_damaging(0.799)	15/25	.	Gene3D:3.10.129.10,Pfam_domain:PF13452,Superfamily_domains:SSF54637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTAGAGTTA	.	5	BLCA
ADAMTS19	0	.	GRCh37	5	128977563	128977563	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1764C>A	p.Cys588Ter	p.C588*	ENST00000274487	11/23	31	23	7	48	48	0	ADAMTS19,stop_gained,p.Cys588Ter,ENST00000274487,;CTC-575N7.1,intron_variant,,ENST00000503616,;	A	ENSG00000145808	ENST00000274487	Transcript	stop_gained	1909	1764	588	C/*	tgC/tgA	.	.	.	1	ADAMTS19	HGNC	17111	protein_coding	YES	CCDS4146.1	ENSP00000274487	ATS19_HUMAN	.	UPI000013DA0D	.	.	.	11/23	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF151,SMART_domains:SM00608	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTGCACAGG	.	5	BLCA
GDF9	0	.	GRCh37	5	132197721	132197721	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.925G>A	p.Asp309Asn	p.D309N	ENST00000378673	3/3	36	25	11	69	69	0	GDF9,missense_variant,p.Asp309Asn,ENST00000296875,;GDF9,missense_variant,p.Asp309Asn,ENST00000378673,;UQCRQ,upstream_gene_variant,,ENST00000378667,;UQCRQ,upstream_gene_variant,,ENST00000378670,;UQCRQ,upstream_gene_variant,,ENST00000378665,;GDF9,downstream_gene_variant,,ENST00000472320,;UQCRQ,upstream_gene_variant,,ENST00000496429,;GDF9,downstream_gene_variant,,ENST00000464378,;UQCRQ,upstream_gene_variant,,ENST00000480372,;UQCRQ,upstream_gene_variant,,ENST00000498309,;	T	ENSG00000164404	ENST00000378673	Transcript	missense_variant	1792	925	309	D/N	Gat/Aat	.	.	.	-1	GDF9	HGNC	4224	protein_coding	YES	CCDS4162.1	ENSP00000367942	GDF9_HUMAN	B4DXG3_HUMAN	UPI000012B396	.	tolerated(0.53)	benign(0.002)	3/3	.	hmmpanther:PTHR11848,hmmpanther:PTHR11848:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCATCCTCAG	.	5	BLCA
UQCRQ	0	.	GRCh37	5	132203221	132203221	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>A	p.Glu66Lys	p.E66K	ENST00000378670	3/3	25	17	8	36	36	0	UQCRQ,missense_variant,p.Glu66Lys,ENST00000378667,;UQCRQ,missense_variant,p.Glu66Lys,ENST00000378670,;UQCRQ,missense_variant,p.Glu66Lys,ENST00000378665,;LEAP2,upstream_gene_variant,,ENST00000296877,;GDF9,upstream_gene_variant,,ENST00000296875,;GDF9,upstream_gene_variant,,ENST00000378673,;UQCRQ,non_coding_transcript_exon_variant,,ENST00000496429,;GDF9,upstream_gene_variant,,ENST00000472320,;GDF9,upstream_gene_variant,,ENST00000464378,;UQCRQ,non_coding_transcript_exon_variant,,ENST00000498309,;UQCRQ,downstream_gene_variant,,ENST00000480372,;	A	ENSG00000164405	ENST00000378670	Transcript	missense_variant	337	196	66	E/K	Gag/Aag	.	.	.	1	UQCRQ	HGNC	29594	protein_coding	YES	CCDS34237.1	ENSP00000367939	QCR8_HUMAN	.	UPI000015D476	.	tolerated(0.32)	probably_damaging(0.959)	3/3	.	hmmpanther:PTHR12119,Gene3D:1.20.5.210,Pfam_domain:PF02939,Superfamily_domains:SSF81508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGAGTTC	.	5	BLCA
HSPA4	0	.	GRCh37	5	132427046	132427046	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1540C>T	p.Gln514Ter	p.Q514*	ENST00000304858	12/19	38	26	11	39	39	0	HSPA4,stop_gained,p.Gln514Ter,ENST00000304858,;HSPA4,downstream_gene_variant,,ENST00000504328,;	T	ENSG00000170606	ENST00000304858	Transcript	stop_gained	1829	1540	514	Q/*	Cag/Tag	.	.	.	1	HSPA4	HGNC	5237	protein_coding	YES	CCDS4166.1	ENSP00000302961	HSP74_HUMAN	Q7KYN0_HUMAN,B4E354_HUMAN,B4DUS3_HUMAN,B4DT47_HUMAN,B4DN48_HUMAN,B0AZU6_HUMAN,B0AZT0_HUMAN,B0AZS1_HUMAN	UPI000013E9D5	.	.	.	12/19	.	hmmpanther:PTHR19375,hmmpanther:PTHR19375:SF136,Pfam_domain:PF00012	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGATCAGAAT	.	2	BLCA
PCBD2	0	.	GRCh37	5	134294749	134294749	+	Missense_Mutation	SNP	G	G	A	rs770064476	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.236G>A	p.Arg79Gln	p.R79Q	ENST00000512783	3/5	40	30	10	68	67	1	PCBD2,missense_variant,p.Arg79Gln,ENST00000512783,;PCBD2,missense_variant,p.Arg79Gln,ENST00000254908,;PCBD2,non_coding_transcript_exon_variant,,ENST00000510013,;PCBD2,missense_variant,p.Arg68Gln,ENST00000504352,;	A	ENSG00000132570	ENST00000512783	Transcript	missense_variant	256	236	79	R/Q	cGa/cAa	rs770064476,COSM3608604	.	.	1	PCBD2	HGNC	24474	protein_coding	YES	CCDS43364.1	ENSP00000421544	PHS2_HUMAN	H0YA52_HUMAN	UPI000013F545	.	tolerated(0.08)	benign(0.345)	3/5	.	HAMAP:MF_00434,hmmpanther:PTHR12599,hmmpanther:PTHR12599:SF5,Pfam_domain:PF01329,Gene3D:3.30.1360.20,Superfamily_domains:SSF55248	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	GTCCCGAGTTG	.	4	BLCA
PITX1	0	.	GRCh37	5	134367055	134367055	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313G>A	p.Glu105Lys	p.E105K	ENST00000265340	2/3	42	29	13	63	63	0	PITX1,missense_variant,p.Glu105Lys,ENST00000265340,;PITX1,missense_variant,p.Glu105Lys,ENST00000502676,;PITX1,missense_variant,p.Glu105Lys,ENST00000506438,;PITX1,missense_variant,p.Glu105Lys,ENST00000507253,;PITX1,missense_variant,p.Glu146Lys,ENST00000503586,;C5orf66,upstream_gene_variant,,ENST00000432382,;C5orf66,upstream_gene_variant,,ENST00000505828,;C5orf66,upstream_gene_variant,,ENST00000507641,;PITX1,non_coding_transcript_exon_variant,,ENST00000504936,;	T	ENSG00000069011	ENST00000265340	Transcript	missense_variant	730	313	105	E/K	Gag/Aag	.	.	.	-1	PITX1	HGNC	9004	protein_coding	YES	CCDS4182.1	ENSP00000265340	PITX1_HUMAN	D6R9U1_HUMAN,D6R955_HUMAN	UPI0000169650	.	deleterious(0.03)	probably_damaging(0.999)	2/3	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24329:SF254,hmmpanther:PTHR24329,Gene3D:1.10.10.60,Pfam_domain:PF00046,PIRSF_domain:PIRSF000563,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTCTAGCT	.	5	BLCA
H2AFY	0	.	GRCh37	5	134696373	134696373	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478-76G>A	.	.	ENST00000511689	.	12	9	3	13	13	0	H2AFY,intron_variant,,ENST00000510038,;H2AFY,intron_variant,,ENST00000423969,;H2AFY,intron_variant,,ENST00000304332,;H2AFY,intron_variant,,ENST00000312469,;H2AFY,intron_variant,,ENST00000511689,;C5orf66,downstream_gene_variant,,ENST00000555438,;H2AFY,non_coding_transcript_exon_variant,,ENST00000512507,;H2AFY,intron_variant,,ENST00000508785,;H2AFY,intron_variant,,ENST00000360597,;H2AFY,intron_variant,,ENST00000513210,;H2AFY,intron_variant,,ENST00000508120,;H2AFY,3_prime_UTR_variant,,ENST00000506671,;H2AFY,intron_variant,,ENST00000507868,;H2AFY,intron_variant,,ENST00000504197,;	T	ENSG00000113648	ENST00000511689	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	H2AFY	HGNC	4740	protein_coding	YES	CCDS4185.1	ENSP00000423563	H2AY_HUMAN	.	UPI00000723ED	.	.	.	.	4/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTCACCCA	.	2	BLCA
KLHL3	0	.	GRCh37	5	137056255	137056255	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.33G>A	p.%3D	p.Q11Q	ENST00000309755	2/15	37	23	14	45	45	0	KLHL3,synonymous_variant,p.%3D,ENST00000309755,;KLHL3,synonymous_variant,p.%3D,ENST00000394937,;KLHL3,5_prime_UTR_variant,,ENST00000508657,;KLHL3,intron_variant,,ENST00000505853,;KLHL3,non_coding_transcript_exon_variant,,ENST00000512977,;	T	ENSG00000146021	ENST00000309755	Transcript	synonymous_variant	477	33	11	Q	caG/caA	.	.	.	-1	KLHL3	HGNC	6354	protein_coding	YES	CCDS4192.1	ENSP00000312397	KLHL3_HUMAN	Q8N4I8_HUMAN,Q49A42_HUMAN	UPI000012DE05	.	.	.	2/15	.	PIRSF_domain:PIRSF037037,hmmpanther:PTHR24412:SF179,hmmpanther:PTHR24412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCTGGGA	.	5	BLCA
BRD8	0	.	GRCh37	5	137495815	137495815	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2475C>T	p.%3D	p.I825I	ENST00000254900	19/27	106	72	33	144	144	0	BRD8,synonymous_variant,p.%3D,ENST00000254900,;BRD8,synonymous_variant,p.%3D,ENST00000455658,;BRD8,synonymous_variant,p.%3D,ENST00000402931,;BRD8,synonymous_variant,p.%3D,ENST00000454473,;BRD8,synonymous_variant,p.%3D,ENST00000411594,;BRD8,synonymous_variant,p.%3D,ENST00000418329,;BRD8,synonymous_variant,p.%3D,ENST00000230901,;BRD8,synonymous_variant,p.%3D,ENST00000441656,;BRD8,downstream_gene_variant,,ENST00000511898,;BRD8,downstream_gene_variant,,ENST00000515014,;BRD8,synonymous_variant,p.%3D,ENST00000472478,;BRD8,3_prime_UTR_variant,,ENST00000512140,;BRD8,non_coding_transcript_exon_variant,,ENST00000460746,;BRD8,non_coding_transcript_exon_variant,,ENST00000489351,;BRD8,downstream_gene_variant,,ENST00000506167,;BRD8,downstream_gene_variant,,ENST00000463620,;BRD8,downstream_gene_variant,,ENST00000483805,;	A	ENSG00000112983	ENST00000254900	Transcript	synonymous_variant	2847	2475	825	I	atC/atT	.	.	.	-1	BRD8	HGNC	19874	protein_coding	YES	CCDS4198.1	ENSP00000254900	BRD8_HUMAN	F8WDX5_HUMAN,F8WBH2_HUMAN	UPI0000246C01	.	.	.	19/27	.	hmmpanther:PTHR15398,hmmpanther:PTHR15398:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTGATCCC	.	5	BLCA
KIF20A	0	.	GRCh37	5	137522004	137522004	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2239G>A	p.Glu747Lys	p.E747K	ENST00000394894	18/19	74	52	22	91	91	0	KIF20A,missense_variant,p.Glu747Lys,ENST00000394894,;KIF20A,missense_variant,p.Glu729Lys,ENST00000508792,;KIF20A,downstream_gene_variant,,ENST00000504621,;KIF20A,downstream_gene_variant,,ENST00000513276,;CDC23,downstream_gene_variant,,ENST00000394886,;KIF20A,3_prime_UTR_variant,,ENST00000502338,;KIF20A,downstream_gene_variant,,ENST00000503417,;CDC23,downstream_gene_variant,,ENST00000475021,;CDC23,downstream_gene_variant,,ENST00000471692,;CDC23,downstream_gene_variant,,ENST00000464806,;KIF20A,downstream_gene_variant,,ENST00000511638,;	A	ENSG00000112984	ENST00000394894	Transcript	missense_variant	2465	2239	747	E/K	Gag/Aag	.	.	.	1	KIF20A	HGNC	9787	protein_coding	YES	CCDS4199.1	ENSP00000378356	KI20A_HUMAN	D6RBN1_HUMAN,D6R9E4_HUMAN	UPI0000000CCE	.	tolerated(0.43)	possibly_damaging(0.901)	18/19	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115:SF352,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACAGAGCTT	.	5	BLCA
KDM3B	0	.	GRCh37	5	137754821	137754821	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3615G>A	p.%3D	p.L1205L	ENST00000314358	14/24	33	23	10	38	38	0	KDM3B,synonymous_variant,p.%3D,ENST00000542866,;KDM3B,synonymous_variant,p.%3D,ENST00000394866,;KDM3B,synonymous_variant,p.%3D,ENST00000314358,;KDM3B,non_coding_transcript_exon_variant,,ENST00000508386,;KDM3B,3_prime_UTR_variant,,ENST00000510866,;KDM3B,3_prime_UTR_variant,,ENST00000507996,;	A	ENSG00000120733	ENST00000314358	Transcript	synonymous_variant	3815	3615	1205	L	ctG/ctA	.	.	.	1	KDM3B	HGNC	1337	protein_coding	YES	CCDS34242.1	ENSP00000326563	KDM3B_HUMAN	F5H275_HUMAN	UPI000020C6A8	.	.	.	14/24	.	hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGAAAGC	.	5	BLCA
HSPA9	0	.	GRCh37	5	137909535	137909535	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145G>A	p.Glu49Lys	p.E49K	ENST00000297185	3/17	28	20	7	26	26	0	HSPA9,missense_variant,p.Glu49Lys,ENST00000297185,;HSPA9,5_prime_UTR_variant,,ENST00000507886,;HSPA9,5_prime_UTR_variant,,ENST00000504810,;HSPA9,missense_variant,p.Arg29Lys,ENST00000505110,;HSPA9,missense_variant,p.Glu57Lys,ENST00000504902,;HSPA9,3_prime_UTR_variant,,ENST00000507115,;HSPA9,non_coding_transcript_exon_variant,,ENST00000506477,;HSPA9,non_coding_transcript_exon_variant,,ENST00000507097,;	T	ENSG00000113013	ENST00000297185	Transcript	missense_variant	271	145	49	E/K	Gaa/Aaa	.	.	.	-1	HSPA9	HGNC	5244	protein_coding	YES	CCDS4208.1	ENSP00000297185	GRP75_HUMAN	D6RJI2_HUMAN,D6RA73_HUMAN	UPI000012BA4E	.	tolerated_low_confidence(0.44)	benign(0.355)	3/17	.	hmmpanther:PTHR19375:SF173,hmmpanther:PTHR19375	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCTGATC	.	5	BLCA
NRG2	0	.	GRCh37	5	139260538	139260538	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894C>T	p.%3D	p.F298F	ENST00000361474	3/10	41	29	11	52	52	0	NRG2,synonymous_variant,p.%3D,ENST00000541337,;NRG2,synonymous_variant,p.%3D,ENST00000545385,;NRG2,synonymous_variant,p.%3D,ENST00000358522,;NRG2,synonymous_variant,p.%3D,ENST00000340391,;NRG2,synonymous_variant,p.%3D,ENST00000361474,;NRG2,synonymous_variant,p.%3D,ENST00000289422,;NRG2,synonymous_variant,p.%3D,ENST00000289409,;NRG2,synonymous_variant,p.%3D,ENST00000378238,;NRG2,synonymous_variant,p.%3D,ENST00000394770,;NRG2,non_coding_transcript_exon_variant,,ENST00000518130,;	A	ENSG00000158458	ENST00000361474	Transcript	synonymous_variant	1119	894	298	F	ttC/ttT	.	.	.	-1	NRG2	HGNC	7998	protein_coding	YES	CCDS4217.1	ENSP00000354910	NRG2_HUMAN	.	UPI0000130507	.	.	.	3/10	.	Superfamily_domains:SSF48726,SMART_domains:SM00408,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07679,hmmpanther:PTHR11100:SF20,hmmpanther:PTHR11100,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTGAACTG	.	5	BLCA
HBEGF	0	.	GRCh37	5	139725498	139725498	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218G>A	p.Arg73Lys	p.R73K	ENST00000230990	2/6	29	21	8	57	57	0	HBEGF,missense_variant,p.Arg73Lys,ENST00000507104,;HBEGF,missense_variant,p.Arg73Lys,ENST00000230990,;CTC-329D1.3,downstream_gene_variant,,ENST00000520443,;HBEGF,upstream_gene_variant,,ENST00000498452,;	T	ENSG00000113070	ENST00000230990	Transcript	missense_variant	521	218	73	R/K	aGa/aAa	.	.	.	-1	HBEGF	HGNC	3059	protein_coding	YES	CCDS4223.1	ENSP00000230990	HBEGF_HUMAN	Q9UMJ6_HUMAN	UPI0000035E3F	.	tolerated(0.08)	benign(0.001)	2/6	.	hmmpanther:PTHR10740,hmmpanther:PTHR10740:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCTCTCAAA	.	5	BLCA
PCDHA3	0	.	GRCh37	5	140182289	140182289	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1507G>A	p.Ala503Thr	p.A503T	ENST00000522353	1/4	85	65	19	110	110	0	PCDHA3,missense_variant,p.Ala503Thr,ENST00000532566,;PCDHA3,missense_variant,p.Ala503Thr,ENST00000522353,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA2,intron_variant,,ENST00000520672,;PCDHA4,upstream_gene_variant,,ENST00000530339,;PCDHA4,upstream_gene_variant,,ENST00000356878,;PCDHA4,upstream_gene_variant,,ENST00000512229,;	A	ENSG00000255408	ENST00000522353	Transcript	missense_variant	1507	1507	503	A/T	Gcg/Acg	.	.	.	1	PCDHA3	HGNC	8669	protein_coding	YES	CCDS54915.1	ENSP00000429808	PCDA3_HUMAN	.	UPI00001273CB	.	tolerated_low_confidence(0.08)	benign(0.16)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF93,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.V499G|c.1496T>G|3,BUFFER|p.V499G|c.1496T>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGCGCGCTG	.	5	BLCA
PCDHB2	0	.	GRCh37	5	140474987	140474987	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613G>A	p.Glu205Lys	p.E205K	ENST00000194155	1/1	37	24	12	41	41	0	PCDHB2,missense_variant,p.Glu205Lys,ENST00000194155,;AC005754.7,downstream_gene_variant,,ENST00000607216,;	A	ENSG00000112852	ENST00000194155	Transcript	missense_variant	761	613	205	E/K	Gag/Aag	.	.	.	1	PCDHB2	HGNC	8687	protein_coding	YES	CCDS4244.1	ENSP00000194155	PCDB2_HUMAN	.	UPI00001273DC	.	deleterious_low_confidence(0)	probably_damaging(1)	1/1	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF77,hmmpanther:PTHR24028,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCGCGAGGAG	.	5	BLCA
PCDHGB3	0	.	GRCh37	5	140750790	140750790	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.829A>C	p.Ile277Leu	p.I277L	ENST00000576222	1/4	105	72	33	102	102	0	PCDHGB3,missense_variant,p.Ile277Leu,ENST00000576222,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGA6,upstream_gene_variant,,ENST00000517434,;	C	ENSG00000262209	ENST00000576222	Transcript	missense_variant	960	829	277	I/L	Atc/Ctc	.	.	.	1	PCDHGB3	HGNC	8710	protein_coding	YES	CCDS58980.1	ENSP00000461862	PCDGF_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000006FA6F	.	tolerated(0.08)	benign(0.191)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF106,hmmpanther:PTHR24028,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAAATCATC	.	5	BLCA
KIAA0141	0	.	GRCh37	5	141313933	141313933	+	Silent	SNP	G	G	A	rs746276415	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1026G>A	p.%3D	p.L342L	ENST00000432126	9/12	43	34	9	47	47	0	KIAA0141,synonymous_variant,p.%3D,ENST00000507481,;KIAA0141,synonymous_variant,p.%3D,ENST00000194118,;KIAA0141,synonymous_variant,p.%3D,ENST00000432126,;KIAA0141,downstream_gene_variant,,ENST00000508751,;KIAA0141,downstream_gene_variant,,ENST00000506775,;KIAA0141,non_coding_transcript_exon_variant,,ENST00000502729,;KIAA0141,upstream_gene_variant,,ENST00000509110,;	A	ENSG00000081791	ENST00000432126	Transcript	synonymous_variant	1160	1026	342	L	ctG/ctA	rs746276415	.	.	1	KIAA0141	HGNC	28969	protein_coding	YES	CCDS4268.1	ENSP00000396225	DELE_HUMAN	.	UPI0000139350	.	.	.	9/12	.	hmmpanther:PTHR11102:SF43,hmmpanther:PTHR11102,Pfam_domain:PF08238,Gene3D:1.25.40.10,SMART_domains:SM00671,Superfamily_domains:SSF81901	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGAAGCA	.	5	BLCA
PCDH12	0	.	GRCh37	5	141325137	141325137	+	Missense_Mutation	SNP	C	C	T	rs759957093	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3364G>A	p.Glu1122Lys	p.E1122K	ENST00000231484	4/4	19	13	6	37	37	0	PCDH12,missense_variant,p.Glu1122Lys,ENST00000231484,;KIAA0141,downstream_gene_variant,,ENST00000432126,;	T	ENSG00000113555	ENST00000231484	Transcript	missense_variant	4575	3364	1122	E/K	Gaa/Aaa	rs759957093	.	.	-1	PCDH12	HGNC	8657	protein_coding	YES	CCDS4269.1	ENSP00000231484	PCD12_HUMAN	E5RJD4_HUMAN	UPI00001313B4	.	tolerated(0.11)	benign(0.055)	4/4	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCCAGCA	.	5	BLCA
PPP2R2B	0	.	GRCh37	5	145969574	145969574	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1277C>T	p.Ser426Leu	p.S426L	ENST00000336640	9/9	123	91	32	128	128	0	PPP2R2B,missense_variant,p.Ser489Leu,ENST00000394414,;PPP2R2B,missense_variant,p.Ser412Leu,ENST00000508545,;PPP2R2B,missense_variant,p.Ser429Leu,ENST00000504198,;PPP2R2B,missense_variant,p.Ser423Leu,ENST00000394411,;PPP2R2B,missense_variant,p.Ser423Leu,ENST00000453001,;PPP2R2B,missense_variant,p.Ser481Leu,ENST00000394409,;PPP2R2B,missense_variant,p.Ser412Leu,ENST00000394410,;PPP2R2B,missense_variant,p.Ser423Leu,ENST00000356826,;PPP2R2B,missense_variant,p.Ser423Leu,ENST00000394413,;PPP2R2B,missense_variant,p.Ser426Leu,ENST00000336640,;PPP2R2B,downstream_gene_variant,,ENST00000512984,;RNA5SP196,upstream_gene_variant,,ENST00000516984,;CTB-99A3.1,intron_variant,,ENST00000512730,;PPP2R2B,non_coding_transcript_exon_variant,,ENST00000530902,;PPP2R2B,3_prime_UTR_variant,,ENST00000512639,;	A	ENSG00000156475	ENST00000336640	Transcript	missense_variant	1508	1277	426	S/L	tCa/tTa	.	.	.	-1	PPP2R2B	HGNC	9305	protein_coding	YES	CCDS4283.1	ENSP00000336591	2ABB_HUMAN	.	UPI0000026156	.	tolerated(0.32)	benign(0.003)	9/9	.	hmmpanther:PTHR11871:SF1,hmmpanther:PTHR11871,Gene3D:2.130.10.10,SMART_domains:SM00320,PIRSF_domain:PIRSF037309,Superfamily_domains:SSF50978,Prints_domain:PR00600	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAAGGA	.	5	BLCA
JAKMIP2	0	.	GRCh37	5	147012302	147012302	+	Missense_Mutation	SNP	C	C	T	rs368841711	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1717G>A	p.Glu573Lys	p.E573K	ENST00000265272	13/21	145	115	29	173	173	0	JAKMIP2,missense_variant,p.Glu573Lys,ENST00000265272,;JAKMIP2,missense_variant,p.Glu531Lys,ENST00000333010,;JAKMIP2,missense_variant,p.Glu552Lys,ENST00000507386,;JAKMIP2,non_coding_transcript_exon_variant,,ENST00000504845,;	T	ENSG00000176049	ENST00000265272	Transcript	missense_variant	2185	1717	573	E/K	Gaa/Aaa	rs368841711,COSM1754101,COSM4005946	.	.	-1	JAKMIP2	HGNC	29067	protein_coding	YES	CCDS4285.1	ENSP00000265272	JKIP2_HUMAN	.	UPI000000D782	.	deleterious(0)	probably_damaging(0.969)	13/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18935,hmmpanther:PTHR18935:SF7	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D576D|c.1728C>T|3,BUFFER|p.D555D|c.1665C>T|3	RADIA|MUTECT|MUSE	TAGTTCTTGTT	.	3	BLCA
FBXO38	0	.	GRCh37	5	147778656	147778656	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223G>A	p.Asp75Asn	p.D75N	ENST00000394370	3/22	45	32	13	56	56	0	FBXO38,missense_variant,p.Asp75Asn,ENST00000394370,;FBXO38,missense_variant,p.Asp75Asn,ENST00000513826,;FBXO38,missense_variant,p.Asp75Asn,ENST00000296701,;FBXO38,missense_variant,p.Asp75Asn,ENST00000340253,;FBXO38,non_coding_transcript_exon_variant,,ENST00000521160,;FBXO38,non_coding_transcript_exon_variant,,ENST00000503613,;FBXO38,non_coding_transcript_exon_variant,,ENST00000509699,;FBXO38,intron_variant,,ENST00000511080,;FBXO38,downstream_gene_variant,,ENST00000504971,;FBXO38,non_coding_transcript_exon_variant,,ENST00000508326,;FBXO38,non_coding_transcript_exon_variant,,ENST00000509411,;FBXO38,non_coding_transcript_exon_variant,,ENST00000502629,;	A	ENSG00000145868	ENST00000394370	Transcript	missense_variant	324	223	75	D/N	Gat/Aat	.	.	.	1	FBXO38	HGNC	28844	protein_coding	YES	CCDS43384.1	ENSP00000377895	FBX38_HUMAN	.	UPI000034ECEB	.	tolerated(0.12)	probably_damaging(0.987)	3/22	.	hmmpanther:PTHR14753,Superfamily_domains:SSF81383	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTAGATCTC	.	5	BLCA
ADRB2	0	.	GRCh37	5	148207510	148207510	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1116A>C	p.Lys372Asn	p.K372N	ENST00000305988	1/1	55	31	24	55	55	0	ADRB2,missense_variant,p.Lys372Asn,ENST00000305988,;	C	ENSG00000169252	ENST00000305988	Transcript	missense_variant	1355	1116	372	K/N	aaA/aaC	.	.	.	1	ADRB2	HGNC	286	protein_coding	YES	CCDS4292.1	ENSP00000305372	ADRB2_HUMAN	Q9BYZ0_HUMAN	UPI000013EAD0	.	tolerated(0.35)	benign(0.138)	1/1	.	hmmpanther:PTHR24248,hmmpanther:PTHR24248:SF21,Prints_domain:PR00562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAAGAAAA	.	5	BLCA
SH3TC2	0	.	GRCh37	5	148422323	148422323	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463G>A	p.Glu155Lys	p.E155K	ENST00000515425	5/17	60	38	22	104	104	0	SH3TC2,missense_variant,p.Glu155Lys,ENST00000515425,;SH3TC2,missense_variant,p.Glu148Lys,ENST00000512049,;SH3TC2,missense_variant,p.Glu40Lys,ENST00000394358,;SH3TC2,upstream_gene_variant,,ENST00000538184,;SH3TC2,upstream_gene_variant,,ENST00000503071,;SH3TC2,missense_variant,p.Glu155Lys,ENST00000323829,;SH3TC2,missense_variant,p.Glu155Lys,ENST00000513604,;SH3TC2,missense_variant,p.Glu155Lys,ENST00000504690,;SH3TC2,3_prime_UTR_variant,,ENST00000511307,;SH3TC2,non_coding_transcript_exon_variant,,ENST00000511949,;SH3TC2,upstream_gene_variant,,ENST00000504517,;SH3TC2,downstream_gene_variant,,ENST00000504091,;	T	ENSG00000169247	ENST00000515425	Transcript	missense_variant	565	463	155	E/K	Gag/Aag	.	.	.	-1	SH3TC2	HGNC	29427	protein_coding	YES	CCDS4293.1	ENSP00000423660	S3TC2_HUMAN	B3KXB9_HUMAN	UPI00001DFBEE	.	tolerated(0.13)	benign(0.134)	5/17	.	hmmpanther:PTHR22647,hmmpanther:PTHR22647:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTCTGTAT	.	5	BLCA
CSNK1A1	0	.	GRCh37	5	148929649	148929649	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.219C>T	p.%3D	p.I73I	ENST00000515768	2/11	56	34	22	70	70	0	CSNK1A1,synonymous_variant,p.%3D,ENST00000377843,;CSNK1A1,synonymous_variant,p.%3D,ENST00000515748,;CSNK1A1,synonymous_variant,p.%3D,ENST00000515768,;CSNK1A1,synonymous_variant,p.%3D,ENST00000261798,;CSNK1A1,5_prime_UTR_variant,,ENST00000504676,;CSNK1A1,5_prime_UTR_variant,,ENST00000515435,;ARHGEF37,upstream_gene_variant,,ENST00000505810,;CSNK1A1,synonymous_variant,p.%3D,ENST00000523203,;RPL29P14,upstream_gene_variant,,ENST00000495837,;	A	ENSG00000113712	ENST00000515768	Transcript	synonymous_variant	219	219	73	I	atC/atT	.	.	.	-1	CSNK1A1	HGNC	2451	protein_coding	YES	CCDS47304.1	ENSP00000421689	KC1A_HUMAN	U3KQ83_HUMAN,U3KPX3_HUMAN,B4DER9_HUMAN	UPI000053FD0F	.	.	.	2/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11909,hmmpanther:PTHR11909:SF84,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGGGGATGCC	.	5	BLCA
ARHGEF37	0	.	GRCh37	5	148980702	148980702	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.218C>T	p.Ser73Leu	p.S73L	ENST00000333677	3/13	59	39	20	68	68	0	ARHGEF37,missense_variant,p.Ser73Leu,ENST00000505810,;ARHGEF37,missense_variant,p.Ser73Leu,ENST00000333677,;AC021078.1,downstream_gene_variant,,ENST00000408208,;	T	ENSG00000183111	ENST00000333677	Transcript	missense_variant	381	218	73	S/L	tCa/tTa	.	.	.	1	ARHGEF37	HGNC	34430	protein_coding	YES	CCDS43385.1	ENSP00000328083	ARH37_HUMAN	D6RJH4_HUMAN	UPI00001D7F04	.	tolerated(0.25)	possibly_damaging(0.53)	3/13	.	PROSITE_profiles:PS50010,hmmpanther:PTHR22834:SF9,hmmpanther:PTHR22834,Gene3D:1.20.900.10,Pfam_domain:PF00621,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCAAACA	.	5	BLCA
PPARGC1B	0	.	GRCh37	5	149227083	149227083	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3034G>A	p.Asp1012Asn	p.D1012N	ENST00000309241	12/12	97	65	32	113	113	0	PPARGC1B,missense_variant,p.Asp973Asn,ENST00000360453,;PPARGC1B,missense_variant,p.Asp948Asn,ENST00000403750,;PPARGC1B,missense_variant,p.Asp1012Asn,ENST00000309241,;PPARGC1B,3_prime_UTR_variant,,ENST00000394320,;PPARGC1B,3_prime_UTR_variant,,ENST00000434684,;PPARGC1B,non_coding_transcript_exon_variant,,ENST00000492495,;	A	ENSG00000155846	ENST00000309241	Transcript	missense_variant	3066	3034	1012	D/N	Gac/Aac	.	.	.	1	PPARGC1B	HGNC	30022	protein_coding	YES	CCDS4298.1	ENSP00000312649	PRGC2_HUMAN	.	UPI000006F49D	.	deleterious(0)	probably_damaging(1)	12/12	.	hmmpanther:PTHR15528:SF12,hmmpanther:PTHR15528	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTGACAGC	.	5	BLCA
PDE6A	0	.	GRCh37	5	149264137	149264137	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1932G>A	p.%3D	p.L644L	ENST00000255266	16/22	45	30	14	37	37	0	PDE6A,synonymous_variant,p.%3D,ENST00000255266,;PDE6A,non_coding_transcript_exon_variant,,ENST00000508173,;	T	ENSG00000132915	ENST00000255266	Transcript	synonymous_variant	2052	1932	644	L	ctG/ctA	.	.	.	-1	PDE6A	HGNC	8785	protein_coding	YES	CCDS4299.1	ENSP00000255266	PDE6A_HUMAN	O75316_HUMAN	UPI000013CE9F	.	.	.	16/22	.	hmmpanther:PTHR11347:SF25,hmmpanther:PTHR11347,Gene3D:1.10.1300.10,Pfam_domain:PF00233,SMART_domains:SM00471,Superfamily_domains:SSF109604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATTCAGGCT	.	5	BLCA
TNIP1	0	.	GRCh37	5	150422465	150422465	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994G>A	p.Glu332Lys	p.E332K	ENST00000389378	10/18	202	124	78	296	296	0	TNIP1,missense_variant,p.Glu332Lys,ENST00000518977,;TNIP1,missense_variant,p.Glu332Lys,ENST00000523200,;TNIP1,missense_variant,p.Glu332Lys,ENST00000523338,;TNIP1,missense_variant,p.Glu279Lys,ENST00000520931,;TNIP1,missense_variant,p.Glu332Lys,ENST00000524280,;TNIP1,missense_variant,p.Glu332Lys,ENST00000315050,;TNIP1,missense_variant,p.Glu332Lys,ENST00000522226,;TNIP1,missense_variant,p.Glu332Lys,ENST00000389378,;TNIP1,missense_variant,p.Glu332Lys,ENST00000521591,;TNIP1,downstream_gene_variant,,ENST00000522100,;TNIP1,upstream_gene_variant,,ENST00000517504,;TNIP1,intron_variant,,ENST00000521423,;TNIP1,missense_variant,p.Glu279Lys,ENST00000519339,;TNIP1,non_coding_transcript_exon_variant,,ENST00000521782,;	T	ENSG00000145901	ENST00000389378	Transcript	missense_variant	1583	994	332	E/K	Gag/Aag	COSM1542670	.	.	-1	TNIP1	HGNC	16903	protein_coding	YES	CCDS34280.1	ENSP00000374029	TNIP1_HUMAN	E7EWG2_HUMAN,E7EW68_HUMAN,E7EW15_HUMAN,B7Z5B0_HUMAN,A4F1X2_HUMAN,A4F1W8_HUMAN	UPI000000DCDC	.	deleterious(0)	probably_damaging(0.94)	10/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31882:SF3,hmmpanther:PTHR31882	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCATACT	.	5	BLCA
GRIA1	0	.	GRCh37	5	153026679	153026679	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442G>A	p.Asp148Asn	p.D148N	ENST00000518783	3/16	69	46	22	81	81	0	GRIA1,missense_variant,p.Asp69Asn,ENST00000521843,;GRIA1,missense_variant,p.Asp138Asn,ENST00000285900,;GRIA1,missense_variant,p.Asp148Asn,ENST00000518783,;GRIA1,missense_variant,p.Asp148Asn,ENST00000448073,;GRIA1,missense_variant,p.Asp138Asn,ENST00000340592,;GRIA1,intron_variant,,ENST00000518142,;GRIA1,non_coding_transcript_exon_variant,,ENST00000518862,;GRIA1,non_coding_transcript_exon_variant,,ENST00000520966,;GRIA1,non_coding_transcript_exon_variant,,ENST00000481559,;	A	ENSG00000155511	ENST00000518783	Transcript	missense_variant	469	442	148	D/N	Gac/Aac	.	.	.	1	GRIA1	HGNC	4571	protein_coding	YES	CCDS58987.1	ENSP00000428994	GRIA1_HUMAN	.	UPI0001E8F433	.	tolerated(0.11)	benign(0.133)	3/16	.	Superfamily_domains:SSF53822,Pfam_domain:PF01094,Gene3D:3.40.50.2300,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTGACCAT	.	5	BLCA
LARP1	0	.	GRCh37	5	154188120	154188120	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2569G>T	p.Glu857Ter	p.E857*	ENST00000336314	16/19	43	27	16	42	42	0	LARP1,stop_gained,p.Glu857Ter,ENST00000336314,;LARP1,downstream_gene_variant,,ENST00000524248,;LARP1,downstream_gene_variant,,ENST00000522272,;LARP1,downstream_gene_variant,,ENST00000518677,;LARP1,downstream_gene_variant,,ENST00000518297,;LARP1,non_coding_transcript_exon_variant,,ENST00000519194,;LARP1,upstream_gene_variant,,ENST00000524187,;	T	ENSG00000155506	ENST00000336314	Transcript	stop_gained	2593	2569	857	E/*	Gag/Tag	.	.	.	1	LARP1	HGNC	29531	protein_coding	YES	CCDS4328.1	ENSP00000336721	LARP1_HUMAN	E5RHK4_HUMAN,E5RH50_HUMAN	UPI00001DFE1B	.	.	.	16/19	.	hmmpanther:PTHR22792:SF51,hmmpanther:PTHR22792,SMART_domains:SM00684	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGAGGAGTTC	.	5	BLCA
FBXL7	0	.	GRCh37	5	15937075	15937075	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1256G>T	p.Gly419Val	p.G419V	ENST00000504595	4/4	33	23	10	49	49	0	FBXL7,missense_variant,p.Gly407Val,ENST00000329673,;FBXL7,missense_variant,p.Gly372Val,ENST00000510662,;FBXL7,missense_variant,p.Gly419Val,ENST00000504595,;MIR887,downstream_gene_variant,,ENST00000401258,;	T	ENSG00000183580	ENST00000504595	Transcript	missense_variant	1737	1256	419	G/V	gGc/gTc	.	.	.	1	FBXL7	HGNC	13604	protein_coding	YES	CCDS54833.1	ENSP00000423630	FBXL7_HUMAN	J3KNM9_HUMAN,D6RDY7_HUMAN	UPI00000724E0	.	deleterious(0.01)	probably_damaging(1)	4/4	.	hmmpanther:PTHR23125:SF70,hmmpanther:PTHR23125,Pfam_domain:PF13516,Gene3D:3.80.10.10,SMART_domains:SM00367,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S416S|c.1248C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGGGCCTGG	.	5	BLCA
GABRG2	0	.	GRCh37	5	161569245	161569245	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.965C>T	p.Pro322Leu	p.P322L	ENST00000414552	8/11	85	56	29	126	126	0	GABRG2,missense_variant,p.Pro187Leu,ENST00000393933,;GABRG2,missense_variant,p.Pro282Leu,ENST00000361925,;GABRG2,missense_variant,p.Pro282Leu,ENST00000356592,;GABRG2,missense_variant,p.Pro187Leu,ENST00000522053,;GABRG2,missense_variant,p.Pro322Leu,ENST00000414552,;GABRG2,3_prime_UTR_variant,,ENST00000522990,;GABRG2,3_prime_UTR_variant,,ENST00000523372,;	T	ENSG00000113327	ENST00000414552	Transcript	missense_variant	1190	965	322	P/L	cCc/cTc	COSM3613589	.	.	1	GABRG2	HGNC	4087	protein_coding	YES	CCDS47333.1	ENSP00000410732	GBRG2_HUMAN	.	UPI00017503BD	.	deleterious(0)	probably_damaging(1)	8/11	.	Transmembrane_helices:TMhelix,Prints_domain:PR00253,Superfamily_domains:SSF90112,Pfam_domain:PF02932,Gene3D:1.20.58.390,hmmpanther:PTHR18945:SF498,hmmpanther:PTHR18945	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCCCCTGCA	.	5	BLCA
ZNF622	0	.	GRCh37	5	16465732	16465732	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.43G>A	p.Asp15Asn	p.D15N	ENST00000308683	1/6	40	29	10	73	73	0	ZNF622,missense_variant,p.Asp15Asn,ENST00000308683,;	T	ENSG00000173545	ENST00000308683	Transcript	missense_variant	170	43	15	D/N	Gac/Aac	.	.	.	-1	ZNF622	HGNC	30958	protein_coding	YES	CCDS3886.1	ENSP00000310042	ZN622_HUMAN	.	UPI0000072102	.	deleterious(0.01)	probably_damaging(0.98)	1/6	.	hmmpanther:PTHR13182,PROSITE_patterns:PS00028,SMART_domains:SM00355,SMART_domains:SM00451	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCGTCGCGGA	.	5	BLCA
FAM134B	0	.	GRCh37	5	16508699	16508699	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459-25118G>A	.	.	ENST00000306320	.	21	15	6	46	46	0	FAM134B,missense_variant,p.Gly8Glu,ENST00000399793,;FAM134B,intron_variant,,ENST00000306320,;FAM134B,intron_variant,,ENST00000509977,;FAM134B,non_coding_transcript_exon_variant,,ENST00000506441,;	T	ENSG00000154153	ENST00000306320	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	FAM134B	HGNC	25964	protein_coding	YES	CCDS43304.1	ENSP00000304642	F134B_HUMAN	.	UPI000006D7DB	.	.	.	.	3/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCCAAAG	.	5	BLCA
MYO10	0	.	GRCh37	5	16674998	16674998	+	Missense_Mutation	SNP	C	C	G	rs753633171	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4928G>C	p.Arg1643Pro	p.R1643P	ENST00000513610	35/41	84	50	33	110	110	0	MYO10,missense_variant,p.Arg1643Pro,ENST00000513610,;MYO10,missense_variant,p.Arg1000Pro,ENST00000274203,;MYO10,missense_variant,p.Arg1000Pro,ENST00000427430,;MYO10,missense_variant,p.Arg982Pro,ENST00000515803,;MYO10,missense_variant,p.Arg982Pro,ENST00000505695,;	G	ENSG00000145555	ENST00000513610	Transcript	missense_variant	5383	4928	1643	R/P	cGa/cCa	rs753633171,COSM1065439	.	.	-1	MYO10	HGNC	7593	protein_coding	YES	CCDS54834.1	ENSP00000421280	MYO10_HUMAN	E9PEW5_HUMAN,E7EPL7_HUMAN,B4E0P0_HUMAN	UPI0001597062	.	deleterious(0.01)	probably_damaging(0.999)	35/41	.	SMART_domains:SM00139,Pfam_domain:PF00784,PROSITE_profiles:PS51016	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCGACTC	byFrequency	5	BLCA
WWC1	0	.	GRCh37	5	167855066	167855066	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1839G>A	p.%3D	p.L613L	ENST00000521089	12/23	27	18	9	35	35	0	WWC1,synonymous_variant,p.%3D,ENST00000393895,;WWC1,synonymous_variant,p.%3D,ENST00000524228,;WWC1,synonymous_variant,p.%3D,ENST00000265293,;WWC1,synonymous_variant,p.%3D,ENST00000521089,;WWC1,upstream_gene_variant,,ENST00000524038,;WWC1,upstream_gene_variant,,ENST00000524093,;WWC1,upstream_gene_variant,,ENST00000522140,;WWC1,downstream_gene_variant,,ENST00000518334,;	A	ENSG00000113645	ENST00000521089	Transcript	synonymous_variant	1842	1839	613	L	ctG/ctA	.	.	.	1	WWC1	HGNC	29435	protein_coding	YES	CCDS54945.1	ENSP00000427772	KIBRA_HUMAN	.	UPI00017A7149	.	.	.	12/23	.	hmmpanther:PTHR14791:SF22,hmmpanther:PTHR14791	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTGAAAGT	.	5	BLCA
DOCK2	0	.	GRCh37	5	169101358	169101358	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379T>C	p.Trp127Arg	p.W127R	ENST00000256935	6/52	53	38	15	92	92	0	DOCK2,missense_variant,p.Trp127Arg,ENST00000256935,;DOCK2,non_coding_transcript_exon_variant,,ENST00000522138,;DOCK2,missense_variant,p.Trp127Arg,ENST00000524185,;	C	ENSG00000134516	ENST00000256935	Transcript	missense_variant	459	379	127	W/R	Tgg/Cgg	.	.	.	1	DOCK2	HGNC	2988	protein_coding	YES	CCDS4371.1	ENSP00000256935	DOCK2_HUMAN	Q5XG91_HUMAN,B3KXW9_HUMAN	UPI00001A38CC	.	tolerated(0.13)	benign(0.301)	6/52	.	hmmpanther:PTHR23317:SF73,hmmpanther:PTHR23317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAGTGGAGG	.	5	BLCA
DUSP1	0	.	GRCh37	5	172197189	172197189	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.488C>T	p.Ser163Phe	p.S163F	ENST00000239223	2/4	25	15	10	52	52	0	DUSP1,missense_variant,p.Ser163Phe,ENST00000239223,;RP11-779O18.3,intron_variant,,ENST00000523005,;	A	ENSG00000120129	ENST00000239223	Transcript	missense_variant	731	488	163	S/F	tCc/tTc	COSM94149	.	.	-1	DUSP1	HGNC	3064	protein_coding	YES	CCDS4380.1	ENSP00000239223	DUS1_HUMAN	B4E2X6_HUMAN	UPI000004EED8	.	deleterious(0.03)	benign(0.024)	2/4	.	hmmpanther:PTHR10159:SF309,hmmpanther:PTHR10159,PIRSF_domain:PIRSF000939	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGAACTG	.	5	BLCA
DRD1	0	.	GRCh37	5	174868908	174868908	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1195G>A	p.Glu399Lys	p.E399K	ENST00000393752	2/2	52	31	21	50	50	0	DRD1,missense_variant,p.Glu399Lys,ENST00000393752,;	T	ENSG00000184845	ENST00000393752	Transcript	missense_variant	2188	1195	399	E/K	Gag/Aag	.	.	.	-1	DRD1	HGNC	3020	protein_coding	YES	CCDS4393.1	ENSP00000377353	DRD1_HUMAN	.	UPI00000503F5	.	tolerated_low_confidence(0.17)	benign(0.062)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCAGAGG	.	5	BLCA
SFXN1	0	.	GRCh37	5	174936035	174936035	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.165G>C	p.Arg55Ser	p.R55S	ENST00000321442	3/11	106	62	44	172	172	0	SFXN1,missense_variant,p.Arg55Ser,ENST00000506963,;SFXN1,missense_variant,p.Arg55Ser,ENST00000507017,;SFXN1,missense_variant,p.Arg55Ser,ENST00000502393,;SFXN1,missense_variant,p.Arg55Ser,ENST00000321442,;SFXN1,splice_region_variant,,ENST00000513725,;SFXN1,intron_variant,,ENST00000502865,;SFXN1,intron_variant,,ENST00000508290,;SFXN1,intron_variant,,ENST00000507823,;SFXN1,upstream_gene_variant,,ENST00000515736,;	C	ENSG00000164466	ENST00000321442	Transcript	missense_variant	419	165	55	R/S	agG/agC	.	.	.	1	SFXN1	HGNC	16085	protein_coding	YES	CCDS4394.1	ENSP00000316905	SFXN1_HUMAN	D6RFI0_HUMAN,D6RDG7_HUMAN	UPI0000044799	.	deleterious(0)	benign(0.123)	3/11	.	hmmpanther:PTHR11153:SF21,hmmpanther:PTHR11153,TIGRFAM_domain:TIGR00798,Pfam_domain:PF03820	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTAGGCAAGG	.	5	BLCA
NOP16	0	.	GRCh37	5	175812323	175812323	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292G>A	p.Glu98Lys	p.E98K	ENST00000510123	4/5	66	44	22	91	90	1	NOP16,missense_variant,p.Glu98Lys,ENST00000510123,;NOP16,missense_variant,p.Glu98Lys,ENST00000509257,;NOP16,missense_variant,p.Glu98Lys,ENST00000389158,;ARL10,intron_variant,,ENST00000514533,;NOP16,intron_variant,,ENST00000507413,;ARL10,intron_variant,,ENST00000503175,;ARL10,downstream_gene_variant,,ENST00000310389,;HIGD2A,upstream_gene_variant,,ENST00000274787,;NOP16,3_prime_UTR_variant,,ENST00000502663,;NOP16,non_coding_transcript_exon_variant,,ENST00000503849,;NOP16,non_coding_transcript_exon_variant,,ENST00000504821,;NOP16,downstream_gene_variant,,ENST00000510608,;NOP16,downstream_gene_variant,,ENST00000502577,;	T	ENSG00000048162	ENST00000510123	Transcript	missense_variant	515	292	98	E/K	Gag/Aag	.	.	.	-1	NOP16	HGNC	26934	protein_coding	YES	CCDS58991.1	ENSP00000421302	NOP16_HUMAN	.	UPI0001D3BACE	.	deleterious(0)	probably_damaging(0.951)	4/5	.	Pfam_domain:PF09420,hmmpanther:PTHR13243	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTCCAGGT	.	5	BLCA
NOP16	0	.	GRCh37	5	175813862	175813862	+	Missense_Mutation	SNP	G	G	A	rs752090377	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265C>T	p.Arg89Trp	p.R89W	ENST00000510123	3/5	35	25	10	56	56	0	NOP16,missense_variant,p.Arg89Trp,ENST00000510123,;NOP16,missense_variant,p.Arg89Trp,ENST00000509257,;NOP16,missense_variant,p.Arg89Trp,ENST00000389158,;ARL10,intron_variant,,ENST00000514533,;NOP16,intron_variant,,ENST00000507413,;ARL10,intron_variant,,ENST00000503175,;ARL10,downstream_gene_variant,,ENST00000310389,;HIGD2A,upstream_gene_variant,,ENST00000274787,;NOP16,3_prime_UTR_variant,,ENST00000502663,;NOP16,non_coding_transcript_exon_variant,,ENST00000510608,;NOP16,non_coding_transcript_exon_variant,,ENST00000503849,;NOP16,non_coding_transcript_exon_variant,,ENST00000502577,;NOP16,non_coding_transcript_exon_variant,,ENST00000504821,;	A	ENSG00000048162	ENST00000510123	Transcript	missense_variant	488	265	89	R/W	Cgg/Tgg	rs752090377	.	.	-1	NOP16	HGNC	26934	protein_coding	YES	CCDS58991.1	ENSP00000421302	NOP16_HUMAN	.	UPI0001D3BACE	.	deleterious(0)	probably_damaging(0.996)	3/5	.	Pfam_domain:PF09420,hmmpanther:PTHR13243	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCCGTACAA	.	5	BLCA
GPRIN1	0	.	GRCh37	5	176025291	176025291	+	Silent	SNP	C	C	T	rs17854762	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1545G>A	p.%3D	p.T515T	ENST00000303991	2/2	69	47	22	75	75	0	GPRIN1,synonymous_variant,p.%3D,ENST00000303991,;CDHR2,downstream_gene_variant,,ENST00000261944,;CDHR2,downstream_gene_variant,,ENST00000506348,;CDHR2,downstream_gene_variant,,ENST00000510636,;	T	ENSG00000169258	ENST00000303991	Transcript	synonymous_variant	1723	1545	515	T	acG/acA	rs17854762	.	.	-1	GPRIN1	HGNC	24835	protein_coding	YES	CCDS4405.1	ENSP00000305839	GRIN1_HUMAN	.	UPI0000246D49	.	.	.	2/2	.	hmmpanther:PTHR12239,hmmpanther:PTHR12239:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCCCGTCGC	byFrequency|by1000G	5	BLCA
F12	0	.	GRCh37	5	176831599	176831599	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.701C>T	p.Ser234Leu	p.S234L	ENST00000253496	8/14	10	6	4	14	14	0	F12,missense_variant,p.Ser234Leu,ENST00000253496,;GRK6,intron_variant,,ENST00000502598,;GRK6,intron_variant,,ENST00000506296,;PFN3,upstream_gene_variant,,ENST00000358571,;F12,upstream_gene_variant,,ENST00000514943,;F12,intron_variant,,ENST00000503736,;F12,upstream_gene_variant,,ENST00000504406,;F12,upstream_gene_variant,,ENST00000502854,;F12,upstream_gene_variant,,ENST00000510358,;	A	ENSG00000131187	ENST00000253496	Transcript	missense_variant	750	701	234	S/L	tCg/tTg	.	.	.	-1	F12	HGNC	3530	protein_coding	YES	CCDS34302.1	ENSP00000253496	FA12_HUMAN	Q96EF3_HUMAN	UPI000048055F	.	deleterious(0)	probably_damaging(0.941)	8/14	.	Prints_domain:PR00018,Superfamily_domains:SSF57440,SMART_domains:SM00130,PIRSF_domain:PIRSF001146,Gene3D:2.40.20.10,Pfam_domain:PF00051,hmmpanther:PTHR24265:SF75,hmmpanther:PTHR24265,PROSITE_profiles:PS50070	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CACCCGAGAGC	.	2	BLCA
DDX41	0	.	GRCh37	5	176938866	176938866	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1795G>A	p.Glu599Lys	p.E599K	ENST00000507955	17/17	37	22	14	46	46	0	DDX41,missense_variant,p.Glu617Lys,ENST00000330503,;DDX41,missense_variant,p.Glu599Lys,ENST00000507955,;DOK3,upstream_gene_variant,,ENST00000312943,;DOK3,upstream_gene_variant,,ENST00000502885,;DOK3,upstream_gene_variant,,ENST00000510898,;DOK3,upstream_gene_variant,,ENST00000510380,;DOK3,upstream_gene_variant,,ENST00000510389,;DOK3,upstream_gene_variant,,ENST00000377112,;DOK3,upstream_gene_variant,,ENST00000509310,;DOK3,upstream_gene_variant,,ENST00000506493,;DOK3,upstream_gene_variant,,ENST00000501403,;DOK3,upstream_gene_variant,,ENST00000357198,;DDX41,downstream_gene_variant,,ENST00000506965,;DDX41,non_coding_transcript_exon_variant,,ENST00000507900,;DDX41,non_coding_transcript_exon_variant,,ENST00000512334,;DDX41,non_coding_transcript_exon_variant,,ENST00000505081,;DDX41,non_coding_transcript_exon_variant,,ENST00000503078,;DOK3,upstream_gene_variant,,ENST00000500323,;DDX41,downstream_gene_variant,,ENST00000512027,;DDX41,downstream_gene_variant,,ENST00000508279,;DDX41,downstream_gene_variant,,ENST00000509576,;DOK3,upstream_gene_variant,,ENST00000512660,;DDX41,downstream_gene_variant,,ENST00000511040,;DDX41,downstream_gene_variant,,ENST00000504807,;DDX41,downstream_gene_variant,,ENST00000512431,;DDX41,downstream_gene_variant,,ENST00000513562,;DDX41,downstream_gene_variant,,ENST00000510171,;DOK3,upstream_gene_variant,,ENST00000502380,;DDX41,downstream_gene_variant,,ENST00000504781,;DDX41,downstream_gene_variant,,ENST00000515562,;	T	ENSG00000183258	ENST00000507955	Transcript	missense_variant	2319	1795	599	E/K	Gag/Aag	.	.	.	-1	DDX41	HGNC	18674	protein_coding	YES	CCDS4427.1	ENSP00000422753	DDX41_HUMAN	B3KRK2_HUMAN	UPI0000125164	.	tolerated(0.07)	benign(0.032)	17/17	.	hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGAGTT	.	5	BLCA
DDX41	0	.	GRCh37	5	176943429	176943429	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158G>A	p.Arg53Gln	p.R53Q	ENST00000507955	3/17	48	33	15	55	55	0	DDX41,missense_variant,p.Arg71Gln,ENST00000330503,;DDX41,missense_variant,p.Arg53Gln,ENST00000507955,;FAM193B,downstream_gene_variant,,ENST00000329540,;FAM193B,downstream_gene_variant,,ENST00000524677,;FAM193B,downstream_gene_variant,,ENST00000514747,;FAM193B,downstream_gene_variant,,ENST00000443375,;DDX41,non_coding_transcript_exon_variant,,ENST00000506965,;FAM193B,downstream_gene_variant,,ENST00000504130,;DDX41,missense_variant,p.Arg53Gln,ENST00000509576,;DDX41,3_prime_UTR_variant,,ENST00000510171,;DDX41,non_coding_transcript_exon_variant,,ENST00000505081,;DDX41,non_coding_transcript_exon_variant,,ENST00000503078,;DDX41,non_coding_transcript_exon_variant,,ENST00000512431,;DDX41,non_coding_transcript_exon_variant,,ENST00000515562,;DDX41,upstream_gene_variant,,ENST00000507900,;FAM193B,downstream_gene_variant,,ENST00000510479,;FAM193B,downstream_gene_variant,,ENST00000513282,;DDX41,upstream_gene_variant,,ENST00000512027,;DDX41,upstream_gene_variant,,ENST00000512334,;DDX41,upstream_gene_variant,,ENST00000508279,;FAM193B,downstream_gene_variant,,ENST00000506955,;FAM193B,downstream_gene_variant,,ENST00000505569,;DDX41,upstream_gene_variant,,ENST00000504807,;DDX41,upstream_gene_variant,,ENST00000511040,;DDX41,upstream_gene_variant,,ENST00000513562,;FAM193B,downstream_gene_variant,,ENST00000506879,;DDX41,upstream_gene_variant,,ENST00000504781,;FAM193B,downstream_gene_variant,,ENST00000507212,;FAM193B,downstream_gene_variant,,ENST00000510163,;	T	ENSG00000183258	ENST00000507955	Transcript	missense_variant	682	158	53	R/Q	cGa/cAa	COSM449405	.	.	-1	DDX41	HGNC	18674	protein_coding	YES	CCDS4427.1	ENSP00000422753	DDX41_HUMAN	B3KRK2_HUMAN	UPI0000125164	.	tolerated(0.46)	benign(0)	3/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF20	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCGCTGC	.	5	BLCA
FAM193B	0	.	GRCh37	5	176966139	176966140	+	Frame_Shift_Ins	INS	-	-	G	rs765995572	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.219dupC	p.Ala74ArgfsTer34	p.A74Rfs*34	ENST00000514747	2/9	14	9	5	18	18	0	FAM193B,frameshift_variant,p.Ala74ArgfsTer34,ENST00000514747,;FAM193B,5_prime_UTR_variant,,ENST00000502403,;FAM193B,5_prime_UTR_variant,,ENST00000329540,;FAM193B,5_prime_UTR_variant,,ENST00000443375,;FAM193B,5_prime_UTR_variant,,ENST00000506432,;FAM193B,intron_variant,,ENST00000510429,;FAM193B,intron_variant,,ENST00000508298,;FAM193B,3_prime_UTR_variant,,ENST00000507587,;FAM193B,3_prime_UTR_variant,,ENST00000506955,;FAM193B,upstream_gene_variant,,ENST00000510479,;FAM193B,upstream_gene_variant,,ENST00000510163,;FAM193B,upstream_gene_variant,,ENST00000515394,;	G	ENSG00000146067	ENST00000514747	Transcript	frameshift_variant	268-269	219-220	73-74	-/X	-/C	rs765995572	.	.	-1	FAM193B	HGNC	25524	protein_coding	YES	CCDS54954.1	ENSP00000422131	F193B_HUMAN	D6RDZ2_HUMAN,D6RC29_HUMAN,D6RAX9_HUMAN	UPI0001D3BB6A	.	.	.	2/9	.	hmmpanther:PTHR15109,hmmpanther:PTHR15109:SF3,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	GGAGGCGGGGG	.	2	BLCA
CLK4	0	.	GRCh37	5	178032376	178032376	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142A>G	p.Asp381Gly	p.D381G	ENST00000316308	11/13	39	26	13	49	49	0	CLK4,missense_variant,p.Asp381Gly,ENST00000316308,;CLK4,3_prime_UTR_variant,,ENST00000522136,;CLK4,3_prime_UTR_variant,,ENST00000521621,;CLK4,non_coding_transcript_exon_variant,,ENST00000519132,;CLK4,non_coding_transcript_exon_variant,,ENST00000519583,;CLK4,non_coding_transcript_exon_variant,,ENST00000520878,;	C	ENSG00000113240	ENST00000316308	Transcript	missense_variant	1311	1142	381	D/G	gAt/gGt	.	.	.	-1	CLK4	HGNC	13659	protein_coding	YES	CCDS4437.1	ENSP00000316948	CLK4_HUMAN	Q68D95_HUMAN	UPI000007065C	.	deleterious(0.02)	probably_damaging(0.994)	11/13	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24058:SF25,hmmpanther:PTHR24058,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTATCATGA	.	5	BLCA
ZNF354A	0	.	GRCh37	5	178139807	178139807	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1072G>A	p.Glu358Lys	p.E358K	ENST00000335815	5/5	107	70	37	97	97	0	ZNF354A,missense_variant,p.Glu358Lys,ENST00000335815,;ZNF354A,downstream_gene_variant,,ENST00000520331,;	T	ENSG00000169131	ENST00000335815	Transcript	missense_variant	1270	1072	358	E/K	Gaa/Aaa	.	.	.	-1	ZNF354A	HGNC	11628	protein_coding	YES	CCDS4438.1	ENSP00000337122	Z354A_HUMAN	E5RHT5_HUMAN	UPI000013EB5E	.	deleterious(0.04)	possibly_damaging(0.602)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF146,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCATTAC	.	5	BLCA
HNRNPH1	0	.	GRCh37	5	179044863	179044863	+	Silent	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858A>T	p.%3D	p.T286T	ENST00000356731	7/13	54	35	18	75	75	0	HNRNPH1,synonymous_variant,p.%3D,ENST00000329433,;HNRNPH1,synonymous_variant,p.%3D,ENST00000523921,;HNRNPH1,synonymous_variant,p.%3D,ENST00000511300,;HNRNPH1,synonymous_variant,p.%3D,ENST00000442819,;HNRNPH1,synonymous_variant,p.%3D,ENST00000356731,;HNRNPH1,synonymous_variant,p.%3D,ENST00000393432,;HNRNPH1,synonymous_variant,p.%3D,ENST00000510411,;HNRNPH1,synonymous_variant,p.%3D,ENST00000519033,;HNRNPH1,synonymous_variant,p.%3D,ENST00000521173,;HNRNPH1,synonymous_variant,p.%3D,ENST00000503105,;HNRNPH1,downstream_gene_variant,,ENST00000503664,;HNRNPH1,downstream_gene_variant,,ENST00000504348,;HNRNPH1,upstream_gene_variant,,ENST00000523449,;HNRNPH1,downstream_gene_variant,,ENST00000515714,;HNRNPH1,downstream_gene_variant,,ENST00000521116,;HNRNPH1,downstream_gene_variant,,ENST00000510431,;HNRNPH1,downstream_gene_variant,,ENST00000505811,;HNRNPH1,downstream_gene_variant,,ENST00000523137,;HNRNPH1,upstream_gene_variant,,ENST00000523136,;HNRNPH1,downstream_gene_variant,,ENST00000519056,;HNRNPH1,downstream_gene_variant,,ENST00000508103,;HNRNPH1,downstream_gene_variant,,ENST00000506721,;HNRNPH1,downstream_gene_variant,,ENST00000513225,;HNRNPH1,downstream_gene_variant,,ENST00000515158,;HNRNPH1,downstream_gene_variant,,ENST00000521790,;HNRNPH1,downstream_gene_variant,,ENST00000519455,;HNRNPH1,downstream_gene_variant,,ENST00000518548,;HNRNPH1,downstream_gene_variant,,ENST00000524180,;HNRNPH1,3_prime_UTR_variant,,ENST00000519958,;HNRNPH1,3_prime_UTR_variant,,ENST00000510678,;HNRNPH1,non_coding_transcript_exon_variant,,ENST00000502632,;HNRNPH1,non_coding_transcript_exon_variant,,ENST00000514332,;HNRNPH1,non_coding_transcript_exon_variant,,ENST00000514731,;HNRNPH1,non_coding_transcript_exon_variant,,ENST00000515481,;HNRNPH1,non_coding_transcript_exon_variant,,ENST00000504549,;HNRNPH1,non_coding_transcript_exon_variant,,ENST00000502904,;HNRNPH1,downstream_gene_variant,,ENST00000522958,;HNRNPH1,downstream_gene_variant,,ENST00000515446,;HNRNPH1,downstream_gene_variant,,ENST00000512273,;HNRNPH1,upstream_gene_variant,,ENST00000524179,;HNRNPH1,downstream_gene_variant,,ENST00000505087,;HNRNPH1,downstream_gene_variant,,ENST00000519707,;HNRNPH1,downstream_gene_variant,,ENST00000520415,;HNRNPH1,upstream_gene_variant,,ENST00000521720,;HNRNPH1,downstream_gene_variant,,ENST00000513972,;HNRNPH1,downstream_gene_variant,,ENST00000504779,;HNRNPH1,downstream_gene_variant,,ENST00000519943,;	A	ENSG00000169045	ENST00000356731	Transcript	synonymous_variant	2394	858	286	T	acA/acT	.	.	.	-1	HNRNPH1	HGNC	5041	protein_coding	YES	CCDS4446.1	ENSP00000349168	HNRH1_HUMAN	Q68DG4_HUMAN,E7EQJ0_HUMAN,E5RJ94_HUMAN,E5RGH4_HUMAN,D6RIU0_HUMAN,D6RFM3_HUMAN,D6RF17_HUMAN,D6RDL0_HUMAN,D6RBM0_HUMAN,D6RAM1_HUMAN	UPI0000000C2B	.	.	.	7/13	.	hmmpanther:PTHR13976:SF33,hmmpanther:PTHR13976,Pfam_domain:PF08080,Gene3D:3.30.70.330,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGTTGTGCT	.	5	BLCA
MAML1	0	.	GRCh37	5	179201275	179201275	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2448G>A	p.%3D	p.L816L	ENST00000292599	5/5	15	8	7	20	20	0	MAML1,synonymous_variant,p.%3D,ENST00000292599,;MAML1,intron_variant,,ENST00000503050,;MAML1,non_coding_transcript_exon_variant,,ENST00000511027,;MAML1,downstream_gene_variant,,ENST00000507385,;	A	ENSG00000161021	ENST00000292599	Transcript	synonymous_variant	2711	2448	816	L	ctG/ctA	.	.	.	1	MAML1	HGNC	13632	protein_coding	YES	CCDS34315.1	ENSP00000292599	MAML1_HUMAN	.	UPI0000071286	.	.	.	5/5	.	hmmpanther:PTHR15692,hmmpanther:PTHR15692:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGAACCC	.	5	BLCA
TBC1D9B	0	.	GRCh37	5	179320221	179320221	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824C>T	p.Ser275Leu	p.S275L	ENST00000356834	5/22	23	15	8	36	36	0	TBC1D9B,missense_variant,p.Ser275Leu,ENST00000355235,;TBC1D9B,missense_variant,p.Ser5Leu,ENST00000524222,;TBC1D9B,missense_variant,p.Ser275Leu,ENST00000356834,;TBC1D9B,non_coding_transcript_exon_variant,,ENST00000522029,;TBC1D9B,intron_variant,,ENST00000517782,;TBC1D9B,upstream_gene_variant,,ENST00000518120,;TBC1D9B,downstream_gene_variant,,ENST00000522224,;	A	ENSG00000197226	ENST00000356834	Transcript	missense_variant	862	824	275	S/L	tCa/tTa	.	.	.	-1	TBC1D9B	HGNC	29097	protein_coding	YES	CCDS43408.1	ENSP00000349291	TBC9B_HUMAN	.	UPI000034ECFF	.	deleterious(0)	probably_damaging(0.999)	5/22	.	hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCTGAGATG	.	5	BLCA
MAPK9	0	.	GRCh37	5	179676058	179676058	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>T	p.%3D	p.C177C	ENST00000452135	6/12	125	83	42	179	179	0	MAPK9,synonymous_variant,p.%3D,ENST00000539014,;MAPK9,synonymous_variant,p.%3D,ENST00000347470,;MAPK9,synonymous_variant,p.%3D,ENST00000393360,;MAPK9,synonymous_variant,p.%3D,ENST00000425491,;MAPK9,synonymous_variant,p.%3D,ENST00000343111,;MAPK9,synonymous_variant,p.%3D,ENST00000455781,;MAPK9,synonymous_variant,p.%3D,ENST00000452135,;MAPK9,3_prime_UTR_variant,,ENST00000397072,;MAPK9,non_coding_transcript_exon_variant,,ENST00000524170,;MAPK9,downstream_gene_variant,,ENST00000523135,;MAPK9,3_prime_UTR_variant,,ENST00000393362,;	A	ENSG00000050748	ENST00000452135	Transcript	synonymous_variant	830	531	177	C	tgC/tgT	.	.	.	-1	MAPK9	HGNC	6886	protein_coding	YES	CCDS4453.1	ENSP00000394560	MK09_HUMAN	E5RJ57_HUMAN	UPI000006E3AD	.	.	.	6/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF167,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112,Prints_domain:PR01772	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAGTGCACGC	.	2	BLCA
MGAT1	0	.	GRCh37	5	180219371	180219371	+	Missense_Mutation	SNP	G	G	A	rs756554434	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.601C>T	p.Arg201Cys	p.R201C	ENST00000446023	3/3	55	39	16	77	77	0	MGAT1,missense_variant,p.Arg201Cys,ENST00000446023,;MGAT1,missense_variant,p.Arg201Cys,ENST00000393340,;MGAT1,missense_variant,p.Arg201Cys,ENST00000307826,;MGAT1,missense_variant,p.Arg201Cys,ENST00000427865,;MGAT1,missense_variant,p.Arg201Cys,ENST00000333055,;MGAT1,downstream_gene_variant,,ENST00000514283,;MGAT1,downstream_gene_variant,,ENST00000507384,;MGAT1,downstream_gene_variant,,ENST00000514438,;MGAT1,downstream_gene_variant,,ENST00000506269,;MGAT1,downstream_gene_variant,,ENST00000512695,;MGAT1,downstream_gene_variant,,ENST00000513431,;MGAT1,downstream_gene_variant,,ENST00000506889,;MGAT1,downstream_gene_variant,,ENST00000502678,;MGAT1,downstream_gene_variant,,ENST00000504671,;CTC-205M6.5,upstream_gene_variant,,ENST00000562870,;MGAT1,downstream_gene_variant,,ENST00000505682,;MGAT1,downstream_gene_variant,,ENST00000504385,;MGAT1,downstream_gene_variant,,ENST00000514760,;	A	ENSG00000131446	ENST00000446023	Transcript	missense_variant	1352	601	201	R/C	Cgc/Tgc	rs756554434	.	.	-1	MGAT1	HGNC	7044	protein_coding	YES	CCDS4458.1	ENSP00000404718	MGAT1_HUMAN	Q59G70_HUMAN,D6RIS2_HUMAN,D6RHZ8_HUMAN,D6RF69_HUMAN,D6RD15_HUMAN,D6RBS3_HUMAN,D6RB69_HUMAN,D6RAK2_HUMAN,D6RA48_HUMAN,D6R9U2_HUMAN	UPI000013CDF1	.	.	possibly_damaging(0.601)	3/3	.	Superfamily_domains:SSF53448,Pfam_domain:PF03071,Gene3D:3.90.550.10,hmmpanther:PTHR10468,hmmpanther:PTHR10468:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGCGAAACT	.	5	BLCA
OR2V2	0	.	GRCh37	5	180582458	180582458	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>C	p.Leu172Phe	p.L172F	ENST00000328275	1/1	148	105	43	239	239	0	OR2V2,missense_variant,p.Leu172Phe,ENST00000328275,;	C	ENSG00000182613	ENST00000328275	Transcript	missense_variant	516	516	172	L/F	ttG/ttC	.	.	.	1	OR2V2	HGNC	15341	protein_coding	YES	CCDS4461.1	ENSP00000332185	OR2V2_HUMAN	.	UPI0000041C79	.	deleterious(0.01)	possibly_damaging(0.493)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF235,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTGAGGAA	.	4	BLCA
ADAMTS12	0	.	GRCh37	5	33588803	33588803	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2766G>A	p.%3D	p.P922P	ENST00000504830	18/24	76	51	25	102	102	0	ADAMTS12,synonymous_variant,p.%3D,ENST00000504830,;ADAMTS12,synonymous_variant,p.%3D,ENST00000352040,;ADAMTS12,non_coding_transcript_exon_variant,,ENST00000504582,;	T	ENSG00000151388	ENST00000504830	Transcript	synonymous_variant	3102	2766	922	P	ccG/ccA	COSM1567712,COSM738075	.	.	-1	ADAMTS12	HGNC	14605	protein_coding	YES	CCDS34140.1	ENSP00000422554	ATS12_HUMAN	.	UPI000013DC51	.	.	.	18/24	.	hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF150,SMART_domains:SM00209,Superfamily_domains:SSF82895	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGGCGGGAG	.	5	BLCA
AGXT2	0	.	GRCh37	5	35003870	35003870	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1435C>T	p.Gln479Ter	p.Q479*	ENST00000231420	13/14	91	71	19	118	118	0	AGXT2,stop_gained,p.Gln479Ter,ENST00000231420,;AGXT2,stop_gained,p.Gln404Ter,ENST00000510428,;AGXT2,splice_region_variant,,ENST00000512135,;	A	ENSG00000113492	ENST00000231420	Transcript	stop_gained	1636	1435	479	Q/*	Cag/Tag	.	.	.	-1	AGXT2	HGNC	14412	protein_coding	YES	CCDS3908.1	ENSP00000231420	AGT2_HUMAN	.	UPI0000125709	.	.	.	13/14	.	Superfamily_domains:SSF53383,PIRSF_domain:PIRSF000521,Gene3D:3.90.1150.10,hmmpanther:PTHR11986,hmmpanther:PTHR11986:SF58	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGAGAAA	.	5	BLCA
SKP2	0	.	GRCh37	5	36168458	36168458	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.580G>A	p.Glu194Lys	p.E194K	ENST00000274255	5/10	170	102	68	244	244	0	SKP2,missense_variant,p.Glu194Lys,ENST00000274254,;SKP2,missense_variant,p.Glu194Lys,ENST00000274255,;SKP2,intron_variant,,ENST00000508514,;SKP2,intron_variant,,ENST00000546211,;SKP2,intron_variant,,ENST00000513151,;SKP2,3_prime_UTR_variant,,ENST00000513263,;SKP2,intron_variant,,ENST00000509692,;SKP2,intron_variant,,ENST00000504386,;	A	ENSG00000145604	ENST00000274255	Transcript	missense_variant	776	580	194	E/K	Gaa/Aaa	.	.	.	1	SKP2	HGNC	10901	protein_coding	YES	CCDS3916.1	ENSP00000274255	SKP2_HUMAN	.	UPI0000073D61	.	tolerated(0.52)	benign(0.001)	5/10	.	hmmpanther:PTHR23125:SF34,hmmpanther:PTHR23125,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATAGAAGTG	.	5	BLCA
SLC1A3	0	.	GRCh37	5	36608684	36608684	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159C>T	p.%3D	p.L53L	ENST00000265113	2/10	130	82	48	179	179	0	SLC1A3,synonymous_variant,p.%3D,ENST00000265113,;SLC1A3,synonymous_variant,p.%3D,ENST00000505202,;SLC1A3,synonymous_variant,p.%3D,ENST00000513646,;SLC1A3,synonymous_variant,p.%3D,ENST00000416645,;SLC1A3,synonymous_variant,p.%3D,ENST00000513903,;SLC1A3,synonymous_variant,p.%3D,ENST00000381918,;SLC1A3,non_coding_transcript_exon_variant,,ENST00000506725,;SLC1A3,non_coding_transcript_exon_variant,,ENST00000502864,;SLC1A3,upstream_gene_variant,,ENST00000509272,;SLC1A3,upstream_gene_variant,,ENST00000514563,;SLC1A3,non_coding_transcript_exon_variant,,ENST00000504121,;SLC1A3,non_coding_transcript_exon_variant,,ENST00000512374,;	T	ENSG00000079215	ENST00000265113	Transcript	synonymous_variant	635	159	53	L	ctC/ctT	.	.	.	1	SLC1A3	HGNC	10941	protein_coding	YES	CCDS3919.1	ENSP00000265113	EAA1_HUMAN	E7EUV6_HUMAN,E7EUS7_HUMAN	UPI0000129B0F	.	.	.	2/10	.	Transmembrane_helices:TMhelix,Prints_domain:PR00173,Superfamily_domains:0053221,Pfam_domain:PF00375,Gene3D:2nwlC00,hmmpanther:PTHR11958,hmmpanther:PTHR11958:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCACAGT	.	5	BLCA
C5orf42	0	.	GRCh37	5	37162644	37162644	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7613C>T	p.Ser2538Leu	p.S2538L	ENST00000425232	38/52	74	50	23	106	106	0	C5orf42,missense_variant,p.Ser2538Leu,ENST00000508244,;C5orf42,missense_variant,p.Ser2538Leu,ENST00000425232,;C5orf42,missense_variant,p.Ser229Leu,ENST00000511824,;C5orf42,missense_variant,p.Ser1586Leu,ENST00000514429,;C5orf42,missense_variant,p.Ser1418Leu,ENST00000274258,;C5orf42,upstream_gene_variant,,ENST00000511210,;C5orf42,missense_variant,p.Ser1542Leu,ENST00000509849,;C5orf42,non_coding_transcript_exon_variant,,ENST00000510830,;C5orf42,upstream_gene_variant,,ENST00000515380,;C5orf42,upstream_gene_variant,,ENST00000509957,;	A	ENSG00000197603	ENST00000425232	Transcript	missense_variant	7844	7613	2538	S/L	tCa/tTa	.	.	.	-1	C5orf42	HGNC	25801	protein_coding	YES	CCDS34146.2	ENSP00000389014	CE042_HUMAN	.	UPI0001AAB3EA	.	deleterious(0)	possibly_damaging(0.804)	38/52	.	hmmpanther:PTHR14492,hmmpanther:PTHR14492:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGAAGTA	.	5	BLCA
LIFR	0	.	GRCh37	5	38481558	38481558	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*139G>A	.	.	ENST00000263409	20/20	23	13	10	26	26	0	LIFR,3_prime_UTR_variant,,ENST00000263409,;LIFR,3_prime_UTR_variant,,ENST00000453190,;LIFR,downstream_gene_variant,,ENST00000508477,;LIFR,downstream_gene_variant,,ENST00000506003,;	T	ENSG00000113594	ENST00000263409	Transcript	3_prime_UTR_variant	3596	.	.	.	.	.	.	.	-1	LIFR	HGNC	6597	protein_coding	YES	CCDS3927.1	ENSP00000263409	LIFR_HUMAN	D6RJ94_HUMAN,D6RF33_HUMAN	UPI000004CAC2	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTCAGTGT	.	5	BLCA
LIFR	0	.	GRCh37	5	38490302	38490302	+	Missense_Mutation	SNP	T	T	C	rs367749984	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2157A>G	p.Ile719Met	p.I719M	ENST00000263409	15/20	140	99	40	179	179	0	LIFR,missense_variant,p.Ile719Met,ENST00000263409,;LIFR,missense_variant,p.Ile719Met,ENST00000453190,;LIFR,downstream_gene_variant,,ENST00000503088,;LIFR,3_prime_UTR_variant,,ENST00000506003,;LIFR,upstream_gene_variant,,ENST00000508477,;	C	ENSG00000113594	ENST00000263409	Transcript	missense_variant	2320	2157	719	I/M	atA/atG	rs367749984	.	.	-1	LIFR	HGNC	6597	protein_coding	YES	CCDS3927.1	ENSP00000263409	LIFR_HUMAN	D6RJ94_HUMAN,D6RF33_HUMAN	UPI000004CAC2	.	tolerated(0.27)	benign(0.03)	15/20	.	Superfamily_domains:SSF49265,hmmpanther:PTHR23036,hmmpanther:PTHR23036:SF91	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCTATATA	.	5	BLCA
OSMR	0	.	GRCh37	5	38924645	38924645	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1992G>A	p.%3D	p.L664L	ENST00000274276	14/18	84	57	27	98	98	0	OSMR,synonymous_variant,p.%3D,ENST00000274276,;OSMR,downstream_gene_variant,,ENST00000513831,;	A	ENSG00000145623	ENST00000274276	Transcript	synonymous_variant	2394	1992	664	L	ctG/ctA	.	.	.	1	OSMR	HGNC	8507	protein_coding	YES	CCDS3928.1	ENSP00000274276	OSMR_HUMAN	.	UPI000004CAC3	.	.	.	14/18	.	PROSITE_profiles:PS50853,hmmpanther:PTHR23036,hmmpanther:PTHR23036:SF80,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTGAAATC	.	5	BLCA
PTGER4	0	.	GRCh37	5	40692112	40692112	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099C>T	p.Gln367Ter	p.Q367*	ENST00000302472	3/3	39	20	19	55	55	0	PTGER4,stop_gained,p.Gln367Ter,ENST00000302472,;PTGER4,non_coding_transcript_exon_variant,,ENST00000513635,;PTGER4,downstream_gene_variant,,ENST00000512578,;	T	ENSG00000171522	ENST00000302472	Transcript	stop_gained	2123	1099	367	Q/*	Caa/Taa	.	.	.	1	PTGER4	HGNC	9596	protein_coding	YES	CCDS3930.1	ENSP00000302846	PE2R4_HUMAN	A0PJF5_HUMAN	UPI000005042F	.	.	.	3/3	.	hmmpanther:PTHR11866:SF6,hmmpanther:PTHR11866,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTCAAAGG	.	5	BLCA
CARD6	0	.	GRCh37	5	40841524	40841524	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>A	p.Glu14Lys	p.E14K	ENST00000254691	1/3	51	40	11	63	63	0	CARD6,missense_variant,p.Glu14Lys,ENST00000381677,;CARD6,missense_variant,p.Glu14Lys,ENST00000254691,;	A	ENSG00000132357	ENST00000254691	Transcript	missense_variant	239	40	14	E/K	Gaa/Aaa	.	.	.	1	CARD6	HGNC	16394	protein_coding	YES	CCDS3935.1	ENSP00000254691	CARD6_HUMAN	.	UPI000013CE50	.	tolerated(0.11)	benign(0.175)	1/3	.	PROSITE_profiles:PS50209,hmmpanther:PTHR22797:SF26,hmmpanther:PTHR22797,Pfam_domain:PF00619,Gene3D:1.10.533.10,SMART_domains:SM00114,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGAGAAAGA	.	5	BLCA
CARD6	0	.	GRCh37	5	40841567	40841567	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.83C>T	p.Ser28Phe	p.S28F	ENST00000254691	1/3	60	40	20	72	72	0	CARD6,missense_variant,p.Ser28Phe,ENST00000381677,;CARD6,missense_variant,p.Ser28Phe,ENST00000254691,;	T	ENSG00000132357	ENST00000254691	Transcript	missense_variant	282	83	28	S/F	tCt/tTt	.	.	.	1	CARD6	HGNC	16394	protein_coding	YES	CCDS3935.1	ENSP00000254691	CARD6_HUMAN	.	UPI000013CE50	.	deleterious(0)	probably_damaging(0.984)	1/3	.	PROSITE_profiles:PS50209,hmmpanther:PTHR22797:SF26,hmmpanther:PTHR22797,Pfam_domain:PF00619,Gene3D:1.10.533.10,SMART_domains:SM00114,Superfamily_domains:SSF47986	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTCTATCT	.	5	BLCA
PLCXD3	0	.	GRCh37	5	41382398	41382398	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.342T>C	p.%3D	p.H114H	ENST00000377801	2/3	86	55	30	121	121	0	PLCXD3,synonymous_variant,p.%3D,ENST00000328457,;PLCXD3,synonymous_variant,p.%3D,ENST00000377801,;	G	ENSG00000182836	ENST00000377801	Transcript	synonymous_variant	417	342	114	H	caT/caC	.	.	.	-1	PLCXD3	HGNC	31822	protein_coding	YES	CCDS34150.1	ENSP00000367032	PLCX3_HUMAN	B3KXD1_HUMAN	UPI0000049DBB	.	.	.	2/3	.	PROSITE_profiles:PS50007,hmmpanther:PTHR13593,hmmpanther:PTHR13593:SF33,Gene3D:3.20.20.190,Pfam_domain:PF00388,SMART_domains:SM00148,Superfamily_domains:SSF51695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACCATGAGC	.	5	BLCA
NNT	0	.	GRCh37	5	43649253	43649253	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1449C>T	p.%3D	p.L483L	ENST00000264663	11/22	195	142	53	260	260	0	NNT,synonymous_variant,p.%3D,ENST00000512996,;NNT,synonymous_variant,p.%3D,ENST00000344920,;NNT,synonymous_variant,p.%3D,ENST00000264663,;NNT,downstream_gene_variant,,ENST00000503651,;NNT,downstream_gene_variant,,ENST00000506893,;NNT,upstream_gene_variant,,ENST00000513390,;	T	ENSG00000112992	ENST00000264663	Transcript	synonymous_variant	1670	1449	483	L	ctC/ctT	.	.	.	1	NNT	HGNC	7863	protein_coding	YES	CCDS3949.1	ENSP00000264663	NNTM_HUMAN	E9PCX7_HUMAN,D6RHU2_HUMAN,D6RCR6_HUMAN,D6RAI5_HUMAN	UPI000013D54F	.	.	.	11/22	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR10160,hmmpanther:PTHR10160:SF22,TIGRFAM_domain:TIGR00561	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCACAGG	.	5	BLCA
SNX18	0	.	GRCh37	5	53815552	53815552	+	Silent	SNP	A	A	G	rs765553727	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1770A>G	p.%3D	p.L590L	ENST00000326277	1/1	67	51	15	80	80	0	SNX18,synonymous_variant,p.%3D,ENST00000326277,;SNX18,synonymous_variant,p.%3D,ENST00000343017,;SNX18,intron_variant,,ENST00000381410,;	G	ENSG00000178996	ENST00000326277	Transcript	synonymous_variant	1960	1770	590	L	ctA/ctG	rs765553727	.	.	1	SNX18	HGNC	19245	protein_coding	YES	CCDS3962.1	ENSP00000317332	SNX18_HUMAN	.	UPI00001418B0	.	.	.	1/1	.	PIRSF_domain:PIRSF027744	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCCCTAGAGTG	byFrequency	3	BLCA
KIAA0947	0	.	GRCh37	5	5460699	5460699	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1252G>A	p.Glu418Lys	p.E418K	ENST00000296564	13/19	16	10	5	13	13	0	KIAA0947,missense_variant,p.Glu418Lys,ENST00000296564,;	A	ENSG00000164151	ENST00000296564	Transcript	missense_variant	1474	1252	418	E/K	Gaa/Aaa	.	.	.	1	KIAA0947	HGNC	29154	protein_coding	YES	CCDS47187.1	ENSP00000296564	K0947_HUMAN	.	UPI00015542F9	.	tolerated(0.09)	benign(0.377)	13/19	.	hmmpanther:PTHR11852,hmmpanther:PTHR11852:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGAGGAAAAG	.	5	BLCA
SKIV2L2	0	.	GRCh37	5	54683862	54683862	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113G>A	p.Glu705Lys	p.E705K	ENST00000230640	19/27	34	21	12	54	54	0	SKIV2L2,missense_variant,p.Glu604Lys,ENST00000545714,;SKIV2L2,missense_variant,p.Glu705Lys,ENST00000230640,;SKIV2L2,3_prime_UTR_variant,,ENST00000506750,;	A	ENSG00000039123	ENST00000230640	Transcript	missense_variant	2367	2113	705	E/K	Gag/Aag	.	.	.	1	SKIV2L2	HGNC	18734	protein_coding	YES	CCDS3967.1	ENSP00000230640	SK2L2_HUMAN	.	UPI000020C772	.	tolerated(0.79)	benign(0.008)	19/27	.	hmmpanther:PTHR11752,hmmpanther:PTHR11752:SF54,Pfam_domain:PF13234,PIRSF_domain:PIRSF005198	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAAAGAGAGC	.	5	BLCA
ANKRD55	0	.	GRCh37	5	55412519	55412519	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.888C>T	p.%3D	p.I296I	ENST00000341048	9/12	50	32	18	62	62	0	ANKRD55,synonymous_variant,p.%3D,ENST00000434982,;ANKRD55,synonymous_variant,p.%3D,ENST00000341048,;ANKRD55,synonymous_variant,p.%3D,ENST00000504958,;ANKRD55,non_coding_transcript_exon_variant,,ENST00000505970,;	A	ENSG00000164512	ENST00000341048	Transcript	synonymous_variant	1040	888	296	I	atC/atT	.	.	.	-1	ANKRD55	HGNC	25681	protein_coding	YES	CCDS34161.1	ENSP00000342295	ANR55_HUMAN	.	UPI00004572EF	.	.	.	9/12	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24158:SF21,hmmpanther:PTHR24158,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTGATGTC	.	5	BLCA
PDE4D	0	.	GRCh37	5	58999503	58999503	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.455+189492C>T	.	.	ENST00000340635	.	19	14	5	31	31	0	PDE4D,intron_variant,,ENST00000546160,;PDE4D,intron_variant,,ENST00000340635,;PDE4D,intron_variant,,ENST00000507116,;PDE4D,intron_variant,,ENST00000502484,;PDE4D,intron_variant,,ENST00000502575,;MIR582,mature_miRNA_variant,,ENST00000365731,;PDE4D,intron_variant,,ENST00000405053,;PDE4D,intron_variant,,ENST00000512069,;PDE4D,intron_variant,,ENST00000309641,;PDE4D,intron_variant,,ENST00000514231,;	A	ENSG00000113448	ENST00000340635	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	PDE4D	HGNC	8783	protein_coding	YES	CCDS47213.1	ENSP00000345502	PDE4D_HUMAN	D6RHE0_HUMAN	UPI0000050EB1	.	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTTGAACAA	.	5	BLCA
CWC27	0	.	GRCh37	5	64064923	64064923	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-51G>A	.	.	ENST00000381070	1/14	21	14	7	25	25	0	CWC27,5_prime_UTR_variant,,ENST00000381070,;CWC27,5_prime_UTR_variant,,ENST00000508024,;SREK1IP1,upstream_gene_variant,,ENST00000513458,;CWC27,upstream_gene_variant,,ENST00000485990,;SREK1IP1,upstream_gene_variant,,ENST00000510616,;SREK1IP1,upstream_gene_variant,,ENST00000506252,;SREK1IP1,upstream_gene_variant,,ENST00000495198,;	A	ENSG00000153015	ENST00000381070	Transcript	5_prime_UTR_variant	167	.	.	.	.	.	.	.	1	CWC27	HGNC	10664	protein_coding	YES	CCDS3982.2	ENSP00000370460	CWC27_HUMAN	.	UPI0000048ECC	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCGGCCGGC	.	2	BLCA
TRIM23	0	.	GRCh37	5	64907623	64907623	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.452C>T	p.Ser151Phe	p.S151F	ENST00000231524	4/11	55	35	20	89	89	0	TRIM23,missense_variant,p.Ser151Phe,ENST00000381018,;TRIM23,missense_variant,p.Ser151Phe,ENST00000231524,;TRIM23,missense_variant,p.Ser151Phe,ENST00000274327,;TRIM23,upstream_gene_variant,,ENST00000508808,;TRIM23,3_prime_UTR_variant,,ENST00000506400,;TRIM23,3_prime_UTR_variant,,ENST00000505205,;	A	ENSG00000113595	ENST00000231524	Transcript	missense_variant	824	452	151	S/F	tCt/tTt	.	.	.	-1	TRIM23	HGNC	660	protein_coding	YES	CCDS3987.1	ENSP00000231524	TRI23_HUMAN	D6R9E9_HUMAN	UPI0000125DB3	.	deleterious(0)	probably_damaging(0.929)	4/11	.	SMART_domains:SM00336,Pfam_domain:PF00643,PROSITE_profiles:PS50119,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E149K|c.445G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGAGAACAC	.	5	BLCA
SRD5A1	0	.	GRCh37	5	6633867	6633867	+	Missense_Mutation	SNP	G	G	A	rs755739402	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.178G>A	p.Glu60Lys	p.E60K	ENST00000274192	1/5	14	9	5	21	21	0	SRD5A1,missense_variant,p.Glu60Lys,ENST00000274192,;SRD5A1,synonymous_variant,p.%3D,ENST00000537411,;SRD5A1,synonymous_variant,p.%3D,ENST00000538824,;NSUN2,upstream_gene_variant,,ENST00000539938,;NSUN2,upstream_gene_variant,,ENST00000264670,;NSUN2,upstream_gene_variant,,ENST00000506139,;SRD5A1,non_coding_transcript_exon_variant,,ENST00000504286,;SRD5A1,missense_variant,p.Glu60Lys,ENST00000513117,;SRD5A1,missense_variant,p.Glu60Lys,ENST00000510531,;NSUN2,upstream_gene_variant,,ENST00000504374,;	A	ENSG00000145545	ENST00000274192	Transcript	missense_variant	412	178	60	E/K	Gag/Aag	rs755739402	.	.	1	SRD5A1	HGNC	11284	protein_coding	YES	CCDS3870.1	ENSP00000274192	S5A1_HUMAN	.	UPI00000534C8	.	deleterious(0)	possibly_damaging(0.831)	1/5	.	hmmpanther:PTHR10556:SF32,hmmpanther:PTHR10556,PIRSF_domain:PIRSF015596	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAGGAGCTG	.	5	BLCA
CDK7	0	.	GRCh37	5	68565106	68565106	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700G>A	p.Glu234Lys	p.E234K	ENST00000256443	9/12	73	49	24	76	76	0	CDK7,missense_variant,p.Glu141Lys,ENST00000506563,;CDK7,missense_variant,p.Glu141Lys,ENST00000502604,;CDK7,missense_variant,p.Glu234Lys,ENST00000256443,;CDK7,missense_variant,p.Glu197Lys,ENST00000514676,;CDK7,non_coding_transcript_exon_variant,,ENST00000513629,;CDK7,3_prime_UTR_variant,,ENST00000510106,;CDK7,3_prime_UTR_variant,,ENST00000515391,;CDK7,3_prime_UTR_variant,,ENST00000508726,;	A	ENSG00000134058	ENST00000256443	Transcript	missense_variant	803	700	234	E/K	Gag/Aag	.	.	.	1	CDK7	HGNC	1778	protein_coding	YES	CCDS3999.1	ENSP00000256443	CDK7_HUMAN	D6REC6_HUMAN,D6R9G1_HUMAN	UPI0000127431	.	deleterious(0.03)	benign(0.306)	9/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24056:SF0,hmmpanther:PTHR24056,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTGAGGAA	.	5	BLCA
ARHGEF28	0	.	GRCh37	5	73187954	73187954	+	Silent	SNP	G	G	A	rs750548050	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3465G>A	p.%3D	p.L1155L	ENST00000545377	27/37	8	5	3	18	18	0	ARHGEF28,synonymous_variant,p.%3D,ENST00000512883,;ARHGEF28,synonymous_variant,p.%3D,ENST00000296799,;ARHGEF28,synonymous_variant,p.%3D,ENST00000287898,;ARHGEF28,synonymous_variant,p.%3D,ENST00000545377,;ARHGEF28,synonymous_variant,p.%3D,ENST00000296794,;ARHGEF28,synonymous_variant,p.%3D,ENST00000437974,;ARHGEF28,synonymous_variant,p.%3D,ENST00000513042,;ARHGEF28,synonymous_variant,p.%3D,ENST00000426542,;ARHGEF28,non_coding_transcript_exon_variant,,ENST00000504003,;ARHGEF28,non_coding_transcript_exon_variant,,ENST00000510312,;	A	ENSG00000214944	ENST00000545377	Transcript	synonymous_variant	3641	3465	1155	L	ctG/ctA	rs750548050	.	.	1	ARHGEF28	HGNC	30322	protein_coding	YES	CCDS47231.2	ENSP00000441913	ARG28_HUMAN	D6RAP0_HUMAN	UPI00004DF58E	.	.	.	27/37	.	Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30,hmmpanther:PTHR22825:SF4,hmmpanther:PTHR22825,PROSITE_profiles:PS50003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCTGATCAG	byFrequency	2	BLCA
ENC1	0	.	GRCh37	5	73931590	73931590	+	Silent	SNP	G	G	A	rs529251638	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.721C>T	p.%3D	p.L241L	ENST00000302351	2/3	65	44	20	90	90	0	ENC1,synonymous_variant,p.%3D,ENST00000510316,;ENC1,synonymous_variant,p.%3D,ENST00000537006,;ENC1,synonymous_variant,p.%3D,ENST00000302351,;HEXB,upstream_gene_variant,,ENST00000511181,;ENC1,downstream_gene_variant,,ENST00000508331,;ENC1,downstream_gene_variant,,ENST00000509127,;ENC1,upstream_gene_variant,,ENST00000509284,;	A	ENSG00000171617	ENST00000302351	Transcript	synonymous_variant	1852	721	241	L	Ctg/Ttg	rs529251638	.	.	-1	ENC1	HGNC	3345	protein_coding	YES	CCDS4021.1	ENSP00000306356	ENC1_HUMAN	Q53XS2_HUMAN,D6R9D7_HUMAN,B4DS90_HUMAN	UPI0000129EBB	.	.	.	2/3	.	hmmpanther:PTHR24410,hmmpanther:PTHR24410:SF5,Pfam_domain:PF07707,SMART_domains:SM00875,PIRSF_domain:PIRSF037037	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCAGAAGTG	by1000G	5	BLCA
ADCY2	0	.	GRCh37	5	7396529	7396529	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.120G>A	p.Met40Ile	p.M40I	ENST00000338316	1/25	31	21	10	29	29	0	ADCY2,missense_variant,p.Met40Ile,ENST00000338316,;	A	ENSG00000078295	ENST00000338316	Transcript	missense_variant	209	120	40	M/I	atG/atA	.	.	.	1	ADCY2	HGNC	233	protein_coding	YES	CCDS3872.2	ENSP00000342952	ADCY2_HUMAN	Q7RTV6_HUMAN,Q71UM8_HUMAN,D6REB8_HUMAN	UPI000066D9F2	.	tolerated(0.56)	benign(0.007)	1/25	.	hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF253	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATGAGCCA	.	5	BLCA
NSA2	0	.	GRCh37	5	74065137	74065137	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.290C>T	p.Ser97Phe	p.S97F	ENST00000296802	3/6	143	117	26	128	128	0	NSA2,missense_variant,p.Ser6Phe,ENST00000515524,;NSA2,missense_variant,p.Ser97Phe,ENST00000296802,;GFM2,upstream_gene_variant,,ENST00000509097,;GFM2,upstream_gene_variant,,ENST00000296805,;GFM2,upstream_gene_variant,,ENST00000506778,;GFM2,upstream_gene_variant,,ENST00000345239,;GFM2,upstream_gene_variant,,ENST00000427854,;GFM2,upstream_gene_variant,,ENST00000509430,;NSA2,non_coding_transcript_exon_variant,,ENST00000513356,;NSA2,non_coding_transcript_exon_variant,,ENST00000514918,;	T	ENSG00000164346	ENST00000296802	Transcript	missense_variant	659	290	97	S/F	tCt/tTt	.	.	.	1	NSA2	HGNC	30728	protein_coding	YES	CCDS4025.1	ENSP00000296802	NSA2_HUMAN	Q5J7U2_HUMAN	UPI0000073FFF	.	deleterious(0)	benign(0.394)	3/6	.	hmmpanther:PTHR12642,hmmpanther:PTHR12642:SF0,Pfam_domain:PF01201	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCTCGAG	.	5	BLCA
POLK	0	.	GRCh37	5	74893849	74893849	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*6G>A	.	.	ENST00000241436	15/15	27	12	15	32	32	0	POLK,3_prime_UTR_variant,,ENST00000352007,;POLK,3_prime_UTR_variant,,ENST00000241436,;POLK,downstream_gene_variant,,ENST00000380481,;POLK,downstream_gene_variant,,ENST00000504026,;POLK,downstream_gene_variant,,ENST00000508526,;CTC-366B18.2,downstream_gene_variant,,ENST00000511329,;POLK,non_coding_transcript_exon_variant,,ENST00000506928,;POLK,3_prime_UTR_variant,,ENST00000514141,;POLK,3_prime_UTR_variant,,ENST00000510815,;POLK,3_prime_UTR_variant,,ENST00000503479,;POLK,non_coding_transcript_exon_variant,,ENST00000505069,;POLK,downstream_gene_variant,,ENST00000509126,;POLK,downstream_gene_variant,,ENST00000511527,;POLK,downstream_gene_variant,,ENST00000502567,;POLK,downstream_gene_variant,,ENST00000505975,;	A	ENSG00000122008	ENST00000241436	Transcript	3_prime_UTR_variant	2791	.	.	.	.	.	.	.	1	POLK	HGNC	9183	protein_coding	YES	CCDS4030.1	ENSP00000241436	POLK_HUMAN	D6RDX9_HUMAN	UPI0000073EF6	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTGAACAT	.	5	BLCA
POC5	0	.	GRCh37	5	75008251	75008251	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84+428C>T	.	.	ENST00000428202	.	55	40	15	64	64	0	POC5,5_prime_UTR_variant,,ENST00000446329,;POC5,5_prime_UTR_variant,,ENST00000510798,;POC5,intron_variant,,ENST00000514838,;POC5,intron_variant,,ENST00000380475,;POC5,intron_variant,,ENST00000506164,;POC5,intron_variant,,ENST00000428202,;POC5,intron_variant,,ENST00000502826,;POC5,intron_variant,,ENST00000503835,;RNU6-680P,upstream_gene_variant,,ENST00000384603,;POC5,upstream_gene_variant,,ENST00000504862,;POC5,intron_variant,,ENST00000507421,;POC5,intron_variant,,ENST00000515285,;POC5,intron_variant,,ENST00000512125,;POC5,intron_variant,,ENST00000508467,;	A	ENSG00000152359	ENST00000428202	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	POC5	HGNC	26658	protein_coding	YES	CCDS47236.1	ENSP00000410216	POC5_HUMAN	D6RJ06_HUMAN,D6REA5_HUMAN,D6RBC1_HUMAN	UPI000020CB20	.	.	.	.	2/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTGAATGT	.	5	BLCA
AP3B1	0	.	GRCh37	5	77524055	77524055	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288G>T	p.Lys96Asn	p.K96N	ENST00000255194	4/27	21	16	5	27	27	0	AP3B1,missense_variant,p.Lys96Asn,ENST00000255194,;AP3B1,missense_variant,p.Lys47Asn,ENST00000519295,;	A	ENSG00000132842	ENST00000255194	Transcript	missense_variant	464	288	96	K/N	aaG/aaT	.	.	.	-1	AP3B1	HGNC	566	protein_coding	YES	CCDS4041.1	ENSP00000255194	AP3B1_HUMAN	E5RJ68_HUMAN	UPI00001AE77D	.	deleterious(0)	probably_damaging(0.999)	4/27	.	hmmpanther:PTHR11134,hmmpanther:PTHR11134:SF10,Pfam_domain:PF01602,Gene3D:1.25.10.10,PIRSF_domain:PIRSF037096,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCAACTTCTT	.	5	BLCA
CMYA5	0	.	GRCh37	5	79028504	79028504	+	Missense_Mutation	SNP	G	G	A	rs761701466	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3916G>A	p.Asp1306Asn	p.D1306N	ENST00000446378	2/13	23	14	9	33	33	0	CMYA5,missense_variant,p.Asp1306Asn,ENST00000446378,;	A	ENSG00000164309	ENST00000446378	Transcript	missense_variant	3947	3916	1306	D/N	Gat/Aat	rs761701466	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	possibly_damaging(0.456)	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACATGATTCC	.	5	BLCA
THBS4	0	.	GRCh37	5	79366859	79366859	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1576A>G	p.Ile526Val	p.I526V	ENST00000350881	13/22	97	69	28	135	135	0	THBS4,missense_variant,p.Ile526Val,ENST00000350881,;THBS4,missense_variant,p.Ile435Val,ENST00000511733,;CTD-2201I18.1,intron_variant,,ENST00000514042,;CTD-2201I18.1,intron_variant,,ENST00000503007,;THBS4,upstream_gene_variant,,ENST00000515510,;	G	ENSG00000113296	ENST00000350881	Transcript	missense_variant	1766	1576	526	I/V	Att/Gtt	.	.	.	1	THBS4	HGNC	11788	protein_coding	YES	CCDS4049.1	ENSP00000339730	TSP4_HUMAN	E7ES19_HUMAN	UPI000013D591	.	tolerated(1)	benign(0.001)	13/22	.	PROSITE_profiles:PS51234,hmmpanther:PTHR10199:SF4,hmmpanther:PTHR10199,Gene3D:1ux6A01,Pfam_domain:PF02412,Superfamily_domains:0044556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGATTCAT	.	5	BLCA
TMEM161B	0	.	GRCh37	5	87492196	87492196	+	Missense_Mutation	SNP	C	C	T	rs777917526	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1296G>A	p.Met432Ile	p.M432I	ENST00000296595	12/12	59	36	22	75	75	0	TMEM161B,missense_variant,p.Met432Ile,ENST00000296595,;TMEM161B,missense_variant,p.Met432Ile,ENST00000514135,;TMEM161B,missense_variant,p.Met223Ile,ENST00000511218,;TMEM161B,missense_variant,p.Met421Ile,ENST00000512429,;TMEM161B,stop_retained_variant,p.%3D,ENST00000506536,;TMEM161B,non_coding_transcript_exon_variant,,ENST00000515293,;TMEM161B,3_prime_UTR_variant,,ENST00000511087,;TMEM161B,3_prime_UTR_variant,,ENST00000510089,;	T	ENSG00000164180	ENST00000296595	Transcript	missense_variant	1421	1296	432	M/I	atG/atA	rs777917526	.	.	-1	TMEM161B	HGNC	28483	protein_coding	YES	CCDS4065.1	ENSP00000296595	T161B_HUMAN	D6RBE8_HUMAN,B7Z6T3_HUMAN	UPI000007229D	.	tolerated(0.44)	benign(0.193)	12/12	.	Pfam_domain:PF10268,hmmpanther:PTHR13624:SF3,hmmpanther:PTHR13624	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.M432V|c.1294A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCATTTT	.	5	BLCA
MEF2C	0	.	GRCh37	5	88057050	88057050	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318+36G>A	.	.	ENST00000340208	.	77	55	22	108	108	0	MEF2C,synonymous_variant,p.%3D,ENST00000504921,;MEF2C,synonymous_variant,p.%3D,ENST00000510942,;MEF2C,synonymous_variant,p.%3D,ENST00000514015,;MEF2C,synonymous_variant,p.%3D,ENST00000506554,;MEF2C,synonymous_variant,p.%3D,ENST00000437473,;MEF2C,synonymous_variant,p.%3D,ENST00000502983,;MEF2C,synonymous_variant,p.%3D,ENST00000514028,;MEF2C,synonymous_variant,p.%3D,ENST00000508610,;MEF2C,synonymous_variant,p.%3D,ENST00000508569,;MEF2C,intron_variant,,ENST00000507984,;MEF2C,intron_variant,,ENST00000513252,;MEF2C,intron_variant,,ENST00000340208,;MEF2C,intron_variant,,ENST00000424173,;MEF2C,intron_variant,,ENST00000506716,;MEF2C,intron_variant,,ENST00000539796,;MEF2C,downstream_gene_variant,,ENST00000503075,;MEF2C,downstream_gene_variant,,ENST00000502831,;MEF2C,non_coding_transcript_exon_variant,,ENST00000503554,;	T	ENSG00000081189	ENST00000340208	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MEF2C	HGNC	6996	protein_coding	YES	CCDS54878.1	ENSP00000340874	MEF2C_HUMAN	H0YNI2_HUMAN,D6RJA7_HUMAN,D6RJ95_HUMAN,D6RG14_HUMAN	UPI0000D9B539	.	.	.	.	5/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCCTGTA	.	5	BLCA
MEF2C	0	.	GRCh37	5	88057051	88057051	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318+35G>A	.	.	ENST00000340208	.	77	54	22	110	110	0	MEF2C,missense_variant,p.Arg118Lys,ENST00000504921,;MEF2C,missense_variant,p.Arg118Lys,ENST00000510942,;MEF2C,missense_variant,p.Arg118Lys,ENST00000514015,;MEF2C,missense_variant,p.Arg118Lys,ENST00000506554,;MEF2C,missense_variant,p.Arg118Lys,ENST00000437473,;MEF2C,missense_variant,p.Arg118Lys,ENST00000502983,;MEF2C,missense_variant,p.Arg118Lys,ENST00000514028,;MEF2C,missense_variant,p.Arg118Lys,ENST00000508610,;MEF2C,missense_variant,p.Arg118Lys,ENST00000508569,;MEF2C,intron_variant,,ENST00000507984,;MEF2C,intron_variant,,ENST00000513252,;MEF2C,intron_variant,,ENST00000340208,;MEF2C,intron_variant,,ENST00000424173,;MEF2C,intron_variant,,ENST00000506716,;MEF2C,intron_variant,,ENST00000539796,;MEF2C,downstream_gene_variant,,ENST00000503075,;MEF2C,downstream_gene_variant,,ENST00000502831,;MEF2C,non_coding_transcript_exon_variant,,ENST00000503554,;	T	ENSG00000081189	ENST00000340208	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	MEF2C	HGNC	6996	protein_coding	YES	CCDS54878.1	ENSP00000340874	MEF2C_HUMAN	H0YNI2_HUMAN,D6RJA7_HUMAN,D6RJ95_HUMAN,D6RG14_HUMAN	UPI0000D9B539	.	.	.	.	5/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTCCTGTAC	.	5	BLCA
GPR98	0	.	GRCh37	5	90012343	90012343	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9244G>A	p.Glu3082Lys	p.E3082K	ENST00000405460	43/90	28	13	15	32	32	0	GPR98,missense_variant,p.Glu3082Lys,ENST00000405460,;GPR98,missense_variant,p.Glu648Lys,ENST00000509621,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	9340	9244	3082	E/K	Gag/Aag	.	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	benign(0.211)	43/90	.	Superfamily_domains:SSF141072,SMART_domains:SM00237,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTGAGCAC	.	5	BLCA
GPR98	0	.	GRCh37	5	90074380	90074380	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12803G>A	p.Arg4268Gln	p.R4268Q	ENST00000405460	63/90	32	18	13	20	20	0	GPR98,missense_variant,p.Arg4268Gln,ENST00000405460,;GPR98,upstream_gene_variant,,ENST00000425867,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	12899	12803	4268	R/Q	cGa/cAa	.	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	benign(0.113)	63/90	.	Superfamily_domains:SSF141072,Superfamily_domains:SSF141072,SMART_domains:SM00237,Pfam_domain:PF03160,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGATTTG	.	5	BLCA
ARSK	0	.	GRCh37	5	94939189	94939189	+	Missense_Mutation	SNP	G	G	A	rs780516721	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1570G>A	p.Asp524Asn	p.D524N	ENST00000380009	8/8	33	22	10	41	41	0	ARSK,missense_variant,p.Asp524Asn,ENST00000380009,;ARSK,3_prime_UTR_variant,,ENST00000504873,;ARSK,3_prime_UTR_variant,,ENST00000513814,;	A	ENSG00000164291	ENST00000380009	Transcript	missense_variant	1775	1570	524	D/N	Gat/Aat	rs780516721	.	.	1	ARSK	HGNC	25239	protein_coding	YES	CCDS4073.1	ENSP00000369346	ARSK_HUMAN	.	UPI000004C65F	.	tolerated(0.46)	benign(0.003)	8/8	.	hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTGATCAG	byFrequency	5	BLCA
ELL2	0	.	GRCh37	5	95242235	95242235	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.733C>T	p.%3D	p.L245L	ENST00000237853	5/12	93	72	20	113	113	0	ELL2,synonymous_variant,p.%3D,ENST00000237853,;ELL2,intron_variant,,ENST00000513343,;ELL2,intron_variant,,ENST00000431061,;ELL2,non_coding_transcript_exon_variant,,ENST00000506628,;	A	ENSG00000118985	ENST00000237853	Transcript	synonymous_variant	1083	733	245	L	Ctg/Ttg	.	.	.	-1	ELL2	HGNC	17064	protein_coding	YES	CCDS4080.1	ENSP00000237853	ELL2_HUMAN	Q59FW6_HUMAN,B4DTQ1_HUMAN	UPI000013CA27	.	.	.	5/12	.	hmmpanther:PTHR23288:SF8,hmmpanther:PTHR23288,Pfam_domain:PF10390,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAATTG	.	5	BLCA
CCNC	0	.	GRCh37	6	100009490	100009490	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.207C>T	p.%3D	p.F69F	ENST00000520429	3/12	72	46	25	74	74	0	CCNC,synonymous_variant,p.%3D,ENST00000369220,;CCNC,synonymous_variant,p.%3D,ENST00000520371,;CCNC,synonymous_variant,p.%3D,ENST00000482541,;CCNC,synonymous_variant,p.%3D,ENST00000518714,;CCNC,synonymous_variant,p.%3D,ENST00000520429,;CCNC,synonymous_variant,p.%3D,ENST00000369217,;CCNC,synonymous_variant,p.%3D,ENST00000486428,;CCNC,5_prime_UTR_variant,,ENST00000524049,;CCNC,5_prime_UTR_variant,,ENST00000523985,;CCNC,5_prime_UTR_variant,,ENST00000523799,;CCNC,non_coding_transcript_exon_variant,,ENST00000521017,;CCNC,synonymous_variant,p.%3D,ENST00000326298,;CCNC,synonymous_variant,p.%3D,ENST00000484049,;CCNC,non_coding_transcript_exon_variant,,ENST00000523639,;CCNC,non_coding_transcript_exon_variant,,ENST00000523310,;CCNC,intron_variant,,ENST00000523961,;CCNC,downstream_gene_variant,,ENST00000523541,;	A	ENSG00000112237	ENST00000520429	Transcript	synonymous_variant	653	207	69	F	ttC/ttT	.	.	.	-1	CCNC	HGNC	1581	protein_coding	YES	CCDS34502.1	ENSP00000428982	CCNC_HUMAN	Q7Z4L3_HUMAN,E5RIH8_HUMAN,E5RFX8_HUMAN	UPI0000169CFB	.	.	.	3/12	.	hmmpanther:PTHR10026,Pfam_domain:PF00134,Gene3D:1.10.472.10,SMART_domains:SM00385,PIRSF_domain:PIRSF028758,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTGAAATA	.	5	BLCA
GRIK2	0	.	GRCh37	6	102124507	102124507	+	Missense_Mutation	SNP	G	G	A	rs777004979	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.551G>A	p.Arg184His	p.R184H	ENST00000421544	4/16	64	42	21	89	89	0	GRIK2,missense_variant,p.Arg184His,ENST00000369138,;GRIK2,missense_variant,p.Arg184His,ENST00000413795,;GRIK2,missense_variant,p.Arg135His,ENST00000369134,;GRIK2,missense_variant,p.Arg184His,ENST00000369137,;GRIK2,missense_variant,p.Arg184His,ENST00000318991,;GRIK2,missense_variant,p.Arg184His,ENST00000421544,;GRIK2,missense_variant,p.Arg184His,ENST00000358361,;GRIK2,upstream_gene_variant,,ENST00000455610,;	A	ENSG00000164418	ENST00000421544	Transcript	missense_variant	1041	551	184	R/H	cGt/cAt	rs777004979,COSM3941434,COSM3941433,COSM3941432	.	.	1	GRIK2	HGNC	4580	protein_coding	YES	CCDS5048.1	ENSP00000397026	GRIK2_HUMAN	Q9BZ15_HUMAN,Q6P3V6_HUMAN,H7C2P5_HUMAN,F8WEZ8_HUMAN,D7RWZ8_HUMAN	UPI000012B617	.	deleterious(0)	probably_damaging(1)	4/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF38,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E187G|c.560A>G|3,BUFFER|p.E187G|c.560A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCGTTTGC	.	5	BLCA
TFAP2A	0	.	GRCh37	6	10400745	10400745	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.961C>T	p.Leu321Phe	p.L321F	ENST00000379604	6/7	73	54	19	104	104	0	TFAP2A,missense_variant,p.Leu315Phe,ENST00000379608,;TFAP2A,missense_variant,p.Leu323Phe,ENST00000379613,;TFAP2A,missense_variant,p.Leu317Phe,ENST00000319516,;TFAP2A,missense_variant,p.Leu321Phe,ENST00000482890,;TFAP2A,missense_variant,p.Leu321Phe,ENST00000379604,;TFAP2A,intron_variant,,ENST00000461628,;TFAP2A,intron_variant,,ENST00000466073,;TFAP2A,downstream_gene_variant,,ENST00000498450,;TFAP2A,downstream_gene_variant,,ENST00000475264,;TFAP2A,non_coding_transcript_exon_variant,,ENST00000497266,;TFAP2A,downstream_gene_variant,,ENST00000473652,;TFAP2A,downstream_gene_variant,,ENST00000490875,;TFAP2A,3_prime_UTR_variant,,ENST00000488193,;TFAP2A,3_prime_UTR_variant,,ENST00000489805,;TFAP2A,downstream_gene_variant,,ENST00000478375,;	A	ENSG00000137203	ENST00000379604	Transcript	missense_variant	1213	961	321	L/F	Ctc/Ttc	.	.	.	-1	TFAP2A	HGNC	11742	protein_coding	YES	CCDS4510.1	ENSP00000368924	AP2A_HUMAN	.	UPI0000125BC5	.	deleterious(0.02)	benign(0.305)	6/7	.	hmmpanther:PTHR10812,hmmpanther:PTHR10812:SF8,Pfam_domain:PF03299	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGAGAAATT	.	5	BLCA
PAK1IP1	0	.	GRCh37	6	10695300	10695300	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82G>A	p.Glu28Lys	p.E28K	ENST00000379568	1/10	54	40	14	67	67	0	PAK1IP1,missense_variant,p.Glu28Lys,ENST00000379568,;C6orf52,upstream_gene_variant,,ENST00000503680,;C6orf52,upstream_gene_variant,,ENST00000259983,;C6orf52,upstream_gene_variant,,ENST00000379586,;C6orf52,upstream_gene_variant,,ENST00000460742,;C6orf52,upstream_gene_variant,,ENST00000467832,;	A	ENSG00000111845	ENST00000379568	Transcript	missense_variant	373	82	28	E/K	Gag/Aag	.	.	.	1	PAK1IP1	HGNC	20882	protein_coding	YES	CCDS34339.1	ENSP00000368887	PK1IP_HUMAN	.	UPI000013CB73	.	tolerated(0.3)	benign(0.043)	1/10	.	hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF345	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCACGAGGTG	.	5	BLCA
SEC63	0	.	GRCh37	6	108204326	108204326	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1699G>A	p.Glu567Lys	p.E567K	ENST00000369002	17/21	50	33	17	73	73	0	SEC63,missense_variant,p.Glu567Lys,ENST00000369002,;SEC63,non_coding_transcript_exon_variant,,ENST00000473746,;SEC63,upstream_gene_variant,,ENST00000465210,;	T	ENSG00000025796	ENST00000369002	Transcript	missense_variant	1879	1699	567	E/K	Gaa/Aaa	.	.	.	-1	SEC63	HGNC	21082	protein_coding	YES	CCDS5061.1	ENSP00000357998	SEC63_HUMAN	A6PVC9_HUMAN	UPI000000DBBB	.	tolerated(0.28)	benign(0.004)	17/21	.	hmmpanther:PTHR24075,SMART_domains:SM00611,SMART_domains:SM00973	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCTTCTTCAT	.	3	BLCA
SEC63	0	.	GRCh37	6	108204329	108204329	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1696G>A	p.Glu566Lys	p.E566K	ENST00000369002	17/21	46	29	17	75	75	0	SEC63,missense_variant,p.Glu566Lys,ENST00000369002,;SEC63,non_coding_transcript_exon_variant,,ENST00000473746,;SEC63,upstream_gene_variant,,ENST00000465210,;	T	ENSG00000025796	ENST00000369002	Transcript	missense_variant	1876	1696	566	E/K	Gaa/Aaa	COSM1754410	.	.	-1	SEC63	HGNC	21082	protein_coding	YES	CCDS5061.1	ENSP00000357998	SEC63_HUMAN	A6PVC9_HUMAN	UPI000000DBBB	.	tolerated(0.29)	benign(0.028)	17/21	.	hmmpanther:PTHR24075,SMART_domains:SM00611,SMART_domains:SM00973	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTCTTCATCTT	.	3	BLCA
LACE1	0	.	GRCh37	6	108616340	108616340	+	Silent	SNP	G	G	A	rs777278289	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.57G>A	p.%3D	p.L19L	ENST00000368977	1/13	49	32	17	72	72	0	LACE1,synonymous_variant,p.%3D,ENST00000368977,;LACE1,upstream_gene_variant,,ENST00000437715,;LACE1,upstream_gene_variant,,ENST00000421954,;RNU6-1144P,downstream_gene_variant,,ENST00000384247,;LACE1,non_coding_transcript_exon_variant,,ENST00000430458,;	A	ENSG00000135537	ENST00000368977	Transcript	synonymous_variant	243	57	19	L	ctG/ctA	rs777278289	.	.	1	LACE1	HGNC	16411	protein_coding	YES	CCDS5067.1	ENSP00000357973	LACE1_HUMAN	.	UPI0000072226	.	.	.	1/13	.	hmmpanther:PTHR12169,hmmpanther:PTHR12169:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCTGAGAGG	byFrequency	5	BLCA
SMPD2	0	.	GRCh37	6	109765037	109765037	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1201G>A	p.Asp401Asn	p.D401N	ENST00000258052	10/10	43	29	13	80	80	0	SMPD2,missense_variant,p.Asp401Asn,ENST00000258052,;PPIL6,upstream_gene_variant,,ENST00000440797,;PPIL6,upstream_gene_variant,,ENST00000521072,;PPIL6,upstream_gene_variant,,ENST00000424445,;PPIL6,upstream_gene_variant,,ENST00000520723,;MICAL1,downstream_gene_variant,,ENST00000358807,;SMPD2,downstream_gene_variant,,ENST00000458487,;PPIL6,upstream_gene_variant,,ENST00000417394,;PPIL6,upstream_gene_variant,,ENST00000518648,;MICAL1,downstream_gene_variant,,ENST00000433205,;MICAL1,downstream_gene_variant,,ENST00000358577,;MICAL1,downstream_gene_variant,,ENST00000368952,;PPIL6,upstream_gene_variant,,ENST00000447468,;MICAL1,downstream_gene_variant,,ENST00000456101,;MICAL1,downstream_gene_variant,,ENST00000465904,;SMPD2,downstream_gene_variant,,ENST00000439615,;	A	ENSG00000135587	ENST00000258052	Transcript	missense_variant	1560	1201	401	D/N	Gat/Aat	.	.	.	1	SMPD2	HGNC	11121	protein_coding	YES	CCDS5075.1	ENSP00000258052	NSMA_HUMAN	.	UPI000013CFAC	.	tolerated_low_confidence(0.22)	benign(0.009)	10/10	.	hmmpanther:PTHR12393	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGGATCTG	.	5	BLCA
MICAL1	0	.	GRCh37	6	109770036	109770036	+	Silent	SNP	C	C	T	rs770648175	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1563G>A	p.%3D	p.Q521Q	ENST00000358807	12/25	50	35	15	67	67	0	MICAL1,synonymous_variant,p.%3D,ENST00000358807,;MICAL1,synonymous_variant,p.%3D,ENST00000433205,;MICAL1,synonymous_variant,p.%3D,ENST00000358577,;MICAL1,synonymous_variant,p.%3D,ENST00000368952,;SMPD2,downstream_gene_variant,,ENST00000258052,;MICAL1,downstream_gene_variant,,ENST00000431946,;MICAL1,downstream_gene_variant,,ENST00000483856,;MICAL1,non_coding_transcript_exon_variant,,ENST00000456101,;MICAL1,non_coding_transcript_exon_variant,,ENST00000465904,;	T	ENSG00000135596	ENST00000358807	Transcript	synonymous_variant	1875	1563	521	Q	caG/caA	rs770648175	.	.	-1	MICAL1	HGNC	20619	protein_coding	YES	CCDS5076.1	ENSP00000351664	MICA1_HUMAN	Q5TED7_HUMAN,H0UI45_HUMAN	UPI00000745D0	.	.	.	12/25	.	PROSITE_profiles:PS50021,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF259,Pfam_domain:PF00307,Gene3D:1.10.418.10,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTCTGCTC	.	5	BLCA
REV3L	0	.	GRCh37	6	111697011	111697011	+	Silent	SNP	C	C	T	rs762228249	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2547G>A	p.%3D	p.E849E	ENST00000358835	14/33	72	47	24	109	109	0	REV3L,synonymous_variant,p.%3D,ENST00000435970,;REV3L,synonymous_variant,p.%3D,ENST00000358835,;REV3L,synonymous_variant,p.%3D,ENST00000368802,;REV3L,synonymous_variant,p.%3D,ENST00000368805,;REV3L,3_prime_UTR_variant,,ENST00000434009,;REV3L,3_prime_UTR_variant,,ENST00000422377,;	T	ENSG00000009413	ENST00000358835	Transcript	synonymous_variant	3002	2547	849	E	gaG/gaA	rs762228249	.	.	-1	REV3L	HGNC	9968	protein_coding	YES	CCDS5091.2	ENSP00000351697	DPOLZ_HUMAN	Q9UID5_HUMAN,C4TNX2_HUMAN,C4TNX1_HUMAN,C4TNX0_HUMAN,C4B7Q4_HUMAN	UPI0000140023	.	.	.	14/33	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10322:SF16,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTCTCACT	.	5	BLCA
NEDD9	0	.	GRCh37	6	11190536	11190536	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1566G>A	p.%3D	p.Q522Q	ENST00000379446	5/7	78	55	22	108	108	0	NEDD9,synonymous_variant,p.%3D,ENST00000504387,;NEDD9,synonymous_variant,p.%3D,ENST00000379446,;RP3-510L9.1,intron_variant,,ENST00000500636,;NEDD9,3_prime_UTR_variant,,ENST00000448183,;NEDD9,downstream_gene_variant,,ENST00000505589,;	T	ENSG00000111859	ENST00000379446	Transcript	synonymous_variant	1733	1566	522	Q	caG/caA	.	.	.	-1	NEDD9	HGNC	7733	protein_coding	YES	CCDS4520.1	ENSP00000368759	CASL_HUMAN	D6RGD7_HUMAN	UPI000000D981	.	.	.	5/7	.	Pfam_domain:PF08824,hmmpanther:PTHR10654:SF6,hmmpanther:PTHR10654	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCTGGGG	.	5	BLCA
NEDD9	0	.	GRCh37	6	11232746	11232746	+	Translation_Start_Site	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3G>A	p.Met1?	p.M1?	ENST00000379446	1/7	86	60	25	106	106	0	NEDD9,start_lost,p.Met1?,ENST00000379446,;NEDD9,start_lost,p.Met1?,ENST00000379433,;NEDD9,intron_variant,,ENST00000513989,;NEDD9,intron_variant,,ENST00000504387,;NEDD9,intron_variant,,ENST00000397378,;NEDD9,intron_variant,,ENST00000508546,;RP3-510L9.1,intron_variant,,ENST00000500636,;NEDD9,intron_variant,,ENST00000448183,;	T	ENSG00000111859	ENST00000379446	Transcript	start_lost	170	3	1	M/I	atG/atA	.	.	.	-1	NEDD9	HGNC	7733	protein_coding	YES	CCDS4520.1	ENSP00000368759	CASL_HUMAN	D6RGD7_HUMAN	UPI000000D981	.	deleterious(0.01)	benign(0.03)	1/7	.	hmmpanther:PTHR10654:SF6,hmmpanther:PTHR10654	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCATTTC	.	5	BLCA
LAMA4	0	.	GRCh37	6	112430766	112430766	+	Silent	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5346C>G	p.%3D	p.R1782R	ENST00000230538	39/39	51	38	13	49	49	0	LAMA4,synonymous_variant,p.%3D,ENST00000230538,;LAMA4,synonymous_variant,p.%3D,ENST00000424408,;LAMA4,synonymous_variant,p.%3D,ENST00000522006,;LAMA4,synonymous_variant,p.%3D,ENST00000389463,;	C	ENSG00000112769	ENST00000230538	Transcript	synonymous_variant	5744	5346	1782	R	cgC/cgG	.	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	.	.	39/39	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF174,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCAAGCGTGG	.	5	BLCA
LAMA4	0	.	GRCh37	6	112451226	112451226	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3985G>A	p.Asp1329Asn	p.D1329N	ENST00000230538	30/39	47	33	13	84	84	0	LAMA4,missense_variant,p.Asp1329Asn,ENST00000230538,;LAMA4,missense_variant,p.Asp1322Asn,ENST00000424408,;LAMA4,missense_variant,p.Asp1322Asn,ENST00000522006,;LAMA4,missense_variant,p.Asp1322Asn,ENST00000389463,;LAMA4,non_coding_transcript_exon_variant,,ENST00000521693,;LAMA4,upstream_gene_variant,,ENST00000604740,;	T	ENSG00000112769	ENST00000230538	Transcript	missense_variant	4383	3985	1329	D/N	Gat/Aat	.	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	deleterious(0.01)	probably_damaging(1)	30/39	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF174,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATCTACTA	.	5	BLCA
LAMA4	0	.	GRCh37	6	112462655	112462655	+	Silent	SNP	G	G	A	rs530825191	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2718C>T	p.%3D	p.Y906Y	ENST00000230538	21/39	49	26	23	44	44	0	LAMA4,synonymous_variant,p.%3D,ENST00000230538,;LAMA4,synonymous_variant,p.%3D,ENST00000424408,;LAMA4,synonymous_variant,p.%3D,ENST00000522006,;LAMA4,synonymous_variant,p.%3D,ENST00000389463,;LAMA4,upstream_gene_variant,,ENST00000519245,;LAMA4,downstream_gene_variant,,ENST00000523765,;	A	ENSG00000112769	ENST00000230538	Transcript	synonymous_variant	3116	2718	906	Y	taC/taT	rs530825191,COSM3156773	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	.	.	21/39	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF174,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TAGACGTATAC	byFrequency|byCluster	4	BLCA
LAMA4	0	.	GRCh37	6	112476870	112476870	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1856A>C	p.Lys619Thr	p.K619T	ENST00000230538	15/39	90	63	27	101	101	0	LAMA4,missense_variant,p.Lys619Thr,ENST00000230538,;LAMA4,missense_variant,p.Lys612Thr,ENST00000424408,;LAMA4,missense_variant,p.Lys612Thr,ENST00000522006,;LAMA4,missense_variant,p.Lys612Thr,ENST00000389463,;RP1-142L7.5,non_coding_transcript_exon_variant,,ENST00000588689,;RP1-142L7.5,intron_variant,,ENST00000585373,;RP1-142L7.5,intron_variant,,ENST00000425503,;LAMA4,missense_variant,p.Lys65Thr,ENST00000523765,;	G	ENSG00000112769	ENST00000230538	Transcript	missense_variant	2254	1856	619	K/T	aAg/aCg	.	.	.	-1	LAMA4	HGNC	6484	protein_coding	YES	CCDS43491.1	ENSP00000230538	LAMA4_HUMAN	E5RK79_HUMAN,E5RHF3_HUMAN,E5RFQ2_HUMAN,E5RFD7_HUMAN	UPI000013C937	.	deleterious(0)	possibly_damaging(0.754)	15/39	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF174	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCCTTCTGT	.	5	BLCA
MARCKS	0	.	GRCh37	6	114181750	114181750	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994G>A	p.Glu332Lys	p.E332K	ENST00000368635	2/2	34	25	8	79	79	0	MARCKS,missense_variant,p.Glu332Lys,ENST00000368635,;	A	ENSG00000155130	ENST00000368635	Transcript	missense_variant	1375	994	332	E/K	Gag/Aag	COSM1311486	.	.	1	MARCKS	HGNC	6759	protein_coding	YES	CCDS5101.1	ENSP00000357624	MARCS_HUMAN	Q05C82_HUMAN	UPI000013DDF0	.	deleterious_low_confidence(0)	unknown(0)	2/2	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCAGAGTAA	.	5	BLCA
TSPYL1	0	.	GRCh37	6	116600543	116600543	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>A	p.Glu151Lys	p.E151K	ENST00000368608	1/1	57	39	18	82	82	0	TSPYL1,missense_variant,p.Glu151Lys,ENST00000368608,;DSE,intron_variant,,ENST00000540275,;DSE,intron_variant,,ENST00000430252,;DSE,upstream_gene_variant,,ENST00000452085,;RP1-93H18.1,upstream_gene_variant,,ENST00000453463,;RP1-93H18.1,upstream_gene_variant,,ENST00000449314,;DSE,non_coding_transcript_exon_variant,,ENST00000607094,;	T	ENSG00000189241	ENST00000368608	Transcript	missense_variant	524	451	151	E/K	Gag/Aag	COSM1487150	.	.	-1	TSPYL1	HGNC	12382	protein_coding	YES	CCDS34518.1	ENSP00000357597	TSYL1_HUMAN	.	UPI000006EE16	.	tolerated(1)	benign(0.001)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11875:SF57,hmmpanther:PTHR11875	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCAGCCT	.	5	BLCA
FAM26E	0	.	GRCh37	6	116833051	116833051	+	Silent	SNP	C	C	T	rs752199565	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192C>T	p.%3D	p.I64I	ENST00000368599	1/2	92	73	19	99	99	0	FAM26E,synonymous_variant,p.%3D,ENST00000368599,;TRAPPC3L,intron_variant,,ENST00000437098,;TRAPPC3L,intron_variant,,ENST00000356128,;TRAPPC3L,intron_variant,,ENST00000368602,;	T	ENSG00000178033	ENST00000368599	Transcript	synonymous_variant	243	192	64	I	atC/atT	rs752199565	.	.	1	FAM26E	HGNC	21568	protein_coding	YES	CCDS5108.1	ENSP00000357588	FA26E_HUMAN	.	UPI0000072525	.	.	.	1/2	.	Transmembrane_helices:TMhelix,Pfam_domain:PF14798,hmmpanther:PTHR32261:SF4,hmmpanther:PTHR32261	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCCTGGG	.	5	BLCA
MCM9	0	.	GRCh37	6	119252789	119252789	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>A	p.Glu34Lys	p.E34K	ENST00000316316	2/13	91	66	24	86	86	0	MCM9,missense_variant,p.Glu34Lys,ENST00000505446,;MCM9,missense_variant,p.Glu34Lys,ENST00000425154,;MCM9,missense_variant,p.Glu34Lys,ENST00000316316,;MCM9,missense_variant,p.Glu34Lys,ENST00000316068,;RP11-351A11.1,upstream_gene_variant,,ENST00000518570,;	T	ENSG00000111877	ENST00000316316	Transcript	missense_variant	387	100	34	E/K	Gaa/Aaa	COSM1568104,COSM1568103	.	.	-1	MCM9	HGNC	21484	protein_coding	YES	CCDS56447.1	ENSP00000314505	MCM9_HUMAN	D6RHY8_HUMAN,D6RE85_HUMAN	UPI0001AE7302	.	tolerated(0.1)	benign(0.304)	2/13	.	Superfamily_domains:SSF50249,hmmpanther:PTHR11630:SF48,hmmpanther:PTHR11630	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTCATCCC	.	5	BLCA
FAM184A	0	.	GRCh37	6	119345382	119345382	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756G>A	p.%3D	p.L252L	ENST00000338891	2/18	72	45	27	84	84	0	FAM184A,synonymous_variant,p.%3D,ENST00000368475,;FAM184A,synonymous_variant,p.%3D,ENST00000352896,;FAM184A,synonymous_variant,p.%3D,ENST00000338891,;FAM184A,synonymous_variant,p.%3D,ENST00000522284,;FAM184A,synonymous_variant,p.%3D,ENST00000521531,;FAM184A,upstream_gene_variant,,ENST00000448815,;RP11-351A11.1,intron_variant,,ENST00000518570,;	T	ENSG00000111879	ENST00000338891	Transcript	synonymous_variant	1200	756	252	L	ttG/ttA	.	.	.	-1	FAM184A	HGNC	20991	protein_coding	YES	CCDS43499.1	ENSP00000342604	F184A_HUMAN	.	UPI0000470B36	.	.	.	2/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18870,hmmpanther:PTHR18870:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTATTCAACTT	.	5	BLCA
C6orf58	0	.	GRCh37	6	127898619	127898619	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289C>T	p.Gln97Ter	p.Q97*	ENST00000329722	1/6	103	71	32	124	124	0	C6orf58,stop_gained,p.Gln97Ter,ENST00000329722,;C6orf58,intron_variant,,ENST00000498112,;	T	ENSG00000184530	ENST00000329722	Transcript	stop_gained	301	289	97	Q/*	Caa/Taa	.	.	.	1	C6orf58	HGNC	20960	protein_coding	YES	CCDS34533.1	ENSP00000328069	CF058_HUMAN	.	UPI00001D80C9	.	.	.	1/6	.	hmmpanther:PTHR18820,hmmpanther:PTHR18820:SF2,Pfam_domain:PF05612	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGCAATAT	.	5	BLCA
AKAP7	0	.	GRCh37	6	131602702	131602702	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>A	p.Glu295Lys	p.E295K	ENST00000431975	8/8	43	29	14	50	50	0	AKAP7,missense_variant,p.Glu31Lys,ENST00000263050,;AKAP7,missense_variant,p.Glu51Lys,ENST00000474850,;AKAP7,missense_variant,p.Glu273Lys,ENST00000368123,;AKAP7,missense_variant,p.Glu28Lys,ENST00000342266,;AKAP7,missense_variant,p.Glu295Lys,ENST00000431975,;AKAP7,intron_variant,,ENST00000537868,;AKAP7,intron_variant,,ENST00000541650,;AKAP7,intron_variant,,ENST00000535150,;	A	ENSG00000118507	ENST00000431975	Transcript	missense_variant	981	883	295	E/K	Gaa/Aaa	.	.	.	1	AKAP7	HGNC	377	protein_coding	YES	CCDS5142.2	ENSP00000405252	AKA7G_HUMAN	J3KN37_HUMAN	UPI0000470B1E	.	deleterious(0.01)	possibly_damaging(0.589)	8/8	.	hmmpanther:PTHR15934,hmmpanther:PTHR15934:SF5,Pfam_domain:PF10470	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGCTGAACTA	.	5	BLCA
CTGF	0	.	GRCh37	6	132271286	132271286	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Asp186Asn	p.D186N	ENST00000367976	4/5	39	29	10	65	65	0	CTGF,missense_variant,p.Asp186Asn,ENST00000367976,;RP11-69I8.3,upstream_gene_variant,,ENST00000435287,;	T	ENSG00000118523	ENST00000367976	Transcript	missense_variant	757	556	186	D/N	Gac/Aac	.	.	.	-1	CTGF	HGNC	2500	protein_coding	YES	CCDS5151.1	ENSP00000356954	CTGF_HUMAN	B3KWK5_HUMAN	UPI000013CA11	.	tolerated(0.48)	benign(0.142)	4/5	.	PIRSF_domain:PIRSF036495,hmmpanther:PTHR11348:SF7,hmmpanther:PTHR11348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGTCTTCCA	.	5	BLCA
RPS12	0	.	GRCh37	6	133136205	133136205	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.109G>A	p.Glu37Lys	p.E37K	ENST00000230050	3/6	79	50	28	102	102	0	RPS12,missense_variant,p.Glu37Lys,ENST00000230050,;SNORA33,upstream_gene_variant,,ENST00000363664,;SNORD101,upstream_gene_variant,,ENST00000384027,;SNORD100,upstream_gene_variant,,ENST00000408573,;RPS12,non_coding_transcript_exon_variant,,ENST00000484616,;	A	ENSG00000112306	ENST00000230050	Transcript	missense_variant	319	109	37	E/K	Gaa/Aaa	COSM1073461	.	.	1	RPS12	HGNC	10385	protein_coding	YES	CCDS5164.1	ENSP00000230050	RS12_HUMAN	.	UPI000000096F	.	tolerated(0.16)	benign(0.288)	3/6	.	hmmpanther:PTHR11843,Pfam_domain:PF01248,Gene3D:3.30.1330.30,Superfamily_domains:SSF55315,Prints_domain:PR00972	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCGCGAAGCT	.	5	BLCA
MYB	0	.	GRCh37	6	135518354	135518354	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1459G>A	p.Ala487Thr	p.A487T	ENST00000341911	10/16	42	28	13	48	47	1	MYB,missense_variant,p.Ala484Thr,ENST00000528774,;MYB,missense_variant,p.Ala471Thr,ENST00000534121,;MYB,missense_variant,p.Ala487Thr,ENST00000341911,;MYB,intron_variant,,ENST00000533624,;MYB,intron_variant,,ENST00000527615,;MYB,intron_variant,,ENST00000525369,;MYB,intron_variant,,ENST00000442647,;MYB,intron_variant,,ENST00000534044,;MYB,intron_variant,,ENST00000316528,;MYB,intron_variant,,ENST00000367814,;MYB,downstream_gene_variant,,ENST00000430686,;MYB,downstream_gene_variant,,ENST00000420123,;MYB-AS1,upstream_gene_variant,,ENST00000455534,;MYB,intron_variant,,ENST00000531845,;MYB,missense_variant,p.Ala471Thr,ENST00000438901,;MYB,3_prime_UTR_variant,,ENST00000533384,;MYB,3_prime_UTR_variant,,ENST00000526187,;MYB,3_prime_UTR_variant,,ENST00000529262,;MYB,3_prime_UTR_variant,,ENST00000526565,;MYB,3_prime_UTR_variant,,ENST00000534736,;MYB,3_prime_UTR_variant,,ENST00000528015,;MYB,3_prime_UTR_variant,,ENST00000531737,;MYB,intron_variant,,ENST00000526320,;MYB,intron_variant,,ENST00000525514,;MYB,intron_variant,,ENST00000367812,;MYB,intron_variant,,ENST00000339290,;MYB,intron_variant,,ENST00000525002,;MYB,intron_variant,,ENST00000528343,;MYB,intron_variant,,ENST00000529586,;MYB,intron_variant,,ENST00000533837,;MYB,intron_variant,,ENST00000463282,;MYB,intron_variant,,ENST00000525477,;MYB,intron_variant,,ENST00000524588,;MYB,intron_variant,,ENST00000533808,;MYB,intron_variant,,ENST00000528140,;MYB,intron_variant,,ENST00000525940,;MYB,intron_variant,,ENST00000528345,;MYB,intron_variant,,ENST00000531519,;MYB,intron_variant,,ENST00000526889,;MYB,intron_variant,,ENST00000531634,;	A	ENSG00000118513	ENST00000341911	Transcript	missense_variant	1658	1459	487	A/T	Gcc/Acc	.	.	.	1	MYB	HGNC	7545	protein_coding	YES	CCDS47481.1	ENSP00000339992	MYB_HUMAN	Q9UMI7_HUMAN	UPI000002AE9A	.	tolerated(0.64)	benign(0.004)	10/16	.	hmmpanther:PTHR10641:SF454,hmmpanther:PTHR10641	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCAGGCCAGC	.	4	BLCA
MAP3K5	0	.	GRCh37	6	136901523	136901523	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3433C>T	p.His1145Tyr	p.H1145Y	ENST00000359015	25/30	68	42	26	59	59	0	MAP3K5,missense_variant,p.His392Tyr,ENST00000355845,;MAP3K5,missense_variant,p.His1145Tyr,ENST00000359015,;MAP3K5,non_coding_transcript_exon_variant,,ENST00000463140,;	A	ENSG00000197442	ENST00000359015	Transcript	missense_variant	3794	3433	1145	H/Y	Cat/Tat	.	.	.	-1	MAP3K5	HGNC	6857	protein_coding	YES	CCDS5179.1	ENSP00000351908	M3K5_HUMAN	A6NIA0_HUMAN	UPI000012EAD5	.	deleterious(0.03)	possibly_damaging(0.67)	25/30	.	hmmpanther:PTHR11584,hmmpanther:PTHR11584:SF332	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTATGATTCC	.	5	BLCA
HIVEP2	0	.	GRCh37	6	143081525	143081525	+	Missense_Mutation	SNP	G	G	A	rs756560364	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5900C>T	p.Ser1967Leu	p.S1967L	ENST00000367603	9/10	69	39	29	95	95	0	HIVEP2,missense_variant,p.Ser1967Leu,ENST00000367603,;HIVEP2,missense_variant,p.Ser1967Leu,ENST00000012134,;HIVEP2,missense_variant,p.Ser1967Leu,ENST00000367604,;	A	ENSG00000010818	ENST00000367603	Transcript	missense_variant	6643	5900	1967	S/L	tCg/tTg	rs756560364,COSM1073996	.	.	-1	HIVEP2	HGNC	4921	protein_coding	YES	CCDS43510.1	ENSP00000356575	ZEP2_HUMAN	B4DKE9_HUMAN	UPI00004708DD	.	deleterious(0.02)	probably_damaging(0.996)	9/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF53	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAACGAAGAA	.	5	BLCA
HIVEP2	0	.	GRCh37	6	143095353	143095353	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.523G>A	p.Glu175Lys	p.E175K	ENST00000367603	5/10	127	87	39	208	208	0	HIVEP2,missense_variant,p.Glu175Lys,ENST00000367603,;HIVEP2,missense_variant,p.Glu175Lys,ENST00000012134,;HIVEP2,missense_variant,p.Glu175Lys,ENST00000367604,;	T	ENSG00000010818	ENST00000367603	Transcript	missense_variant	1266	523	175	E/K	Gag/Aag	.	.	.	-1	HIVEP2	HGNC	4921	protein_coding	YES	CCDS43510.1	ENSP00000356575	ZEP2_HUMAN	B4DKE9_HUMAN	UPI00004708DD	.	deleterious(0.01)	benign(0.119)	5/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCTTCTG	.	5	BLCA
ADAT2	0	.	GRCh37	6	143771787	143771787	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9G>A	p.%3D	p.A3A	ENST00000237283	1/6	52	33	19	75	75	0	ADAT2,synonymous_variant,p.%3D,ENST00000237283,;PEX3,upstream_gene_variant,,ENST00000367592,;PEX3,upstream_gene_variant,,ENST00000367591,;RNA5SP221,downstream_gene_variant,,ENST00000411271,;ADAT2,non_coding_transcript_exon_variant,,ENST00000367593,;	T	ENSG00000189007	ENST00000237283	Transcript	synonymous_variant	24	9	3	A	gcG/gcA	.	.	.	-1	ADAT2	HGNC	21172	protein_coding	YES	CCDS43511.1	ENSP00000237283	ADAT2_HUMAN	.	UPI00001A3A7E	.	.	.	1/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11079,hmmpanther:PTHR11079:SF47	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCGCCTC	.	5	BLCA
SHPRH	0	.	GRCh37	6	146207728	146207728	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*99C>T	.	.	ENST00000367505	30/30	9	5	4	11	11	0	SHPRH,3_prime_UTR_variant,,ENST00000367505,;SHPRH,3_prime_UTR_variant,,ENST00000275233,;SHPRH,3_prime_UTR_variant,,ENST00000367503,;SHPRH,intron_variant,,ENST00000417762,;SHPRH,intron_variant,,ENST00000438092,;RP11-545I5.3,downstream_gene_variant,,ENST00000606388,;RP11-545I5.3,downstream_gene_variant,,ENST00000591489,;RP11-545I5.3,downstream_gene_variant,,ENST00000587540,;RP11-545I5.3,downstream_gene_variant,,ENST00000452617,;	A	ENSG00000146414	ENST00000367505	Transcript	3_prime_UTR_variant	5416	.	.	.	.	.	.	.	-1	SHPRH	HGNC	19336	protein_coding	YES	CCDS43513.2	ENSP00000356475	SHPRH_HUMAN	.	UPI0000458A24	.	.	.	30/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACAGTGTTACT	.	2	BLCA
RAET1E	0	.	GRCh37	6	150211081	150211081	+	Missense_Mutation	SNP	C	C	T	rs771592480	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>A	p.Glu96Lys	p.E96K	ENST00000357183	2/4	40	22	18	55	55	0	RAET1E,missense_variant,p.Glu60Lys,ENST00000367363,;RAET1E,missense_variant,p.Glu96Lys,ENST00000529948,;RAET1E,missense_variant,p.Glu96Lys,ENST00000532335,;RAET1E,missense_variant,p.Glu96Lys,ENST00000357183,;RAET1E,downstream_gene_variant,,ENST00000531073,;RP11-244K5.8,intron_variant,,ENST00000606915,;RAET1E-AS1,intron_variant,,ENST00000605899,;RAET1E-AS1,upstream_gene_variant,,ENST00000446954,;RAET1E,intron_variant,,ENST00000392270,;	T	ENSG00000164520	ENST00000357183	Transcript	missense_variant	419	286	96	E/K	Gaa/Aaa	rs771592480	.	.	-1	RAET1E	HGNC	16793	protein_coding	YES	CCDS5221.1	ENSP00000349709	N2DL4_HUMAN	I2GUA6_HUMAN,E9PKJ6_HUMAN	UPI0000071E77	.	deleterious(0.01)	possibly_damaging(0.869)	2/4	.	hmmpanther:PTHR16675:SF64,hmmpanther:PTHR16675,Pfam_domain:PF14586,Gene3D:3.30.500.10,Superfamily_domains:SSF54452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CACTTCTCCCA	.	3	BLCA
MTHFD1L	0	.	GRCh37	6	151243422	151243422	+	Missense_Mutation	SNP	C	C	T	rs775876412	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066C>T	p.Leu356Phe	p.L356F	ENST00000367321	10/28	63	40	22	74	74	0	MTHFD1L,missense_variant,p.Leu317Phe,ENST00000367308,;MTHFD1L,missense_variant,p.Leu356Phe,ENST00000367321,;MTHFD1L,missense_variant,p.Leu27Phe,ENST00000441122,;	T	ENSG00000120254	ENST00000367321	Transcript	missense_variant	1340	1066	356	L/F	Ctc/Ttc	rs775876412	.	.	1	MTHFD1L	HGNC	21055	protein_coding	YES	CCDS5228.1	ENSP00000356290	C1TM_HUMAN	Q5JYA8_HUMAN,Q5JYA3_HUMAN,B7ZM99_HUMAN,B2RD24_HUMAN	UPI00001CE513	.	tolerated(0.15)	possibly_damaging(0.786)	10/28	.	hmmpanther:PTHR10025,hmmpanther:PTHR10025:SF14,Gene3D:3.40.50.720	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCTCTCC	.	5	BLCA
MTHFD1L	0	.	GRCh37	6	151247255	151247255	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1083-3C>T	.	.	ENST00000367321	.	48	35	13	68	68	0	MTHFD1L,splice_region_variant,,ENST00000367308,;MTHFD1L,splice_region_variant,,ENST00000367321,;MTHFD1L,splice_region_variant,,ENST00000441122,;	T	ENSG00000120254	ENST00000367321	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	MTHFD1L	HGNC	21055	protein_coding	YES	CCDS5228.1	ENSP00000356290	C1TM_HUMAN	Q5JYA8_HUMAN,Q5JYA3_HUMAN,B7ZM99_HUMAN,B2RD24_HUMAN	UPI00001CE513	.	.	.	.	10/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCAGTGA	.	4	BLCA
ZBTB2	0	.	GRCh37	6	151687977	151688000	+	In_Frame_Del	DEL	TAGCTGAAGATGTCGGGCTGTATG	TAGCTGAAGATGTCGGGCTGTATG	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	TAGCTGAAGATGTCGGGCTGTATG	TAGCTGAAGATGTCGGGCTGTATG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201_224delCATACAGCCCGACATCTTCAGCTA	p.Ile68_Tyr75del	p.I68_Y75del	ENST00000325144	3/3	105	94	11	167	167	0	ZBTB2,inframe_deletion,p.Ile68_Tyr75del,ENST00000325144,;	-	ENSG00000181472	ENST00000325144	Transcript	inframe_deletion	342-365	201-224	67-75	DIQPDIFSY/D	gaCATACAGCCCGACATCTTCAGCTAt/gat	.	.	.	-1	ZBTB2	HGNC	20868	protein_coding	YES	CCDS5231.1	ENSP00000323183	ZBTB2_HUMAN	Q658W5_HUMAN	UPI00000728EE	.	.	.	3/3	.	PROSITE_profiles:PS50097,hmmpanther:PTHR24399,hmmpanther:PTHR24399:SF0,Pfam_domain:PF00651,Gene3D:3.30.710.10,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	AAGAGATAGCTGAAGATGTCGGGCTGTATGTCAGT	.	2	BLCA
SYNE1	0	.	GRCh37	6	152576763	152576763	+	Missense_Mutation	SNP	A	A	G	rs758337239	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.19223T>C	p.Leu6408Ser	p.L6408S	ENST00000367255	103/146	78	52	26	95	95	0	SYNE1,missense_variant,p.Leu932Ser,ENST00000356820,;SYNE1,missense_variant,p.Leu6337Ser,ENST00000448038,;SYNE1,missense_variant,p.Leu6408Ser,ENST00000367255,;SYNE1,missense_variant,p.Leu6337Ser,ENST00000423061,;SYNE1,missense_variant,p.Leu6020Ser,ENST00000341594,;SYNE1,missense_variant,p.Leu6408Ser,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000367256,;SYNE1,non_coding_transcript_exon_variant,,ENST00000545694,;SYNE1,non_coding_transcript_exon_variant,,ENST00000409694,;	G	ENSG00000131018	ENST00000367255	Transcript	missense_variant	19825	19223	6408	L/S	tTa/tCa	rs758337239	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	possibly_damaging(0.717)	103/146	.	Superfamily_domains:SSF46966,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTAAAAGT	.	5	BLCA
SYNE1	0	.	GRCh37	6	152675894	152675894	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10826A>G	p.Gln3609Arg	p.Q3609R	ENST00000367255	67/146	88	60	27	99	99	0	SYNE1,missense_variant,p.Gln3616Arg,ENST00000448038,;SYNE1,missense_variant,p.Gln3609Arg,ENST00000367255,;SYNE1,missense_variant,p.Gln3616Arg,ENST00000423061,;SYNE1,missense_variant,p.Gln3580Arg,ENST00000341594,;SYNE1,missense_variant,p.Gln3609Arg,ENST00000265368,;SYNE1,non_coding_transcript_exon_variant,,ENST00000471834,;	C	ENSG00000131018	ENST00000367255	Transcript	missense_variant	11428	10826	3609	Q/R	cAa/cGa	.	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	benign(0.034)	67/146	.	Superfamily_domains:SSF46966,SMART_domains:SM00150,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACTTGCTGA	.	5	BLCA
SYNE1	0	.	GRCh37	6	152708425	152708425	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8269G>A	p.Glu2757Lys	p.E2757K	ENST00000367255	54/146	80	53	27	99	99	0	SYNE1,missense_variant,p.Glu2764Lys,ENST00000448038,;SYNE1,missense_variant,p.Glu2757Lys,ENST00000367255,;SYNE1,missense_variant,p.Glu2764Lys,ENST00000423061,;SYNE1,missense_variant,p.Glu2796Lys,ENST00000341594,;SYNE1,missense_variant,p.Glu2757Lys,ENST00000265368,;SYNE1,upstream_gene_variant,,ENST00000454018,;SYNE1,non_coding_transcript_exon_variant,,ENST00000461872,;	T	ENSG00000131018	ENST00000367255	Transcript	missense_variant	8871	8269	2757	E/K	Gaa/Aaa	.	.	.	-1	SYNE1	HGNC	17089	protein_coding	YES	CCDS5236.2	ENSP00000356224	SYNE1_HUMAN	.	UPI000204AF58	.	.	benign(0.297)	54/146	.	Superfamily_domains:SSF46966,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF267	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTCTATTT	.	5	BLCA
CLDN20	0	.	GRCh37	6	155597357	155597357	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.504C>T	p.%3D	p.F168F	ENST00000367165	2/2	76	54	22	100	100	0	CLDN20,synonymous_variant,p.%3D,ENST00000367165,;TFB1M,intron_variant,,ENST00000367166,;TFB1M,intron_variant,,ENST00000470239,;TFB1M,intron_variant,,ENST00000468889,;TFB1M,intron_variant,,ENST00000489874,;TFB1M,intron_variant,,ENST00000495806,;	T	ENSG00000171217	ENST00000367165	Transcript	synonymous_variant	884	504	168	F	ttC/ttT	.	.	.	1	CLDN20	HGNC	2042	protein_coding	YES	CCDS5249.1	ENSP00000356133	CLD20_HUMAN	.	UPI0000001069	.	.	.	2/2	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12002:SF17,hmmpanther:PTHR12002,Pfam_domain:PF00822,Prints_domain:PR01077	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCATTTC	.	5	BLCA
ARID1B	0	.	GRCh37	6	157527711	157527711	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5436C>T	p.%3D	p.F1812F	ENST00000346085	20/20	263	171	92	382	382	0	ARID1B,synonymous_variant,p.%3D,ENST00000367148,;ARID1B,synonymous_variant,p.%3D,ENST00000350026,;ARID1B,synonymous_variant,p.%3D,ENST00000414678,;ARID1B,synonymous_variant,p.%3D,ENST00000275248,;ARID1B,synonymous_variant,p.%3D,ENST00000346085,;	T	ENSG00000049618	ENST00000346085	Transcript	synonymous_variant	5437	5436	1812	F	ttC/ttT	.	.	.	1	ARID1B	HGNC	18040	protein_coding	YES	CCDS55072.1	ENSP00000344546	ARI1B_HUMAN	.	UPI000058E4B2	.	.	.	20/20	.	hmmpanther:PTHR12656:SF11,hmmpanther:PTHR12656	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCAATAG	.	5	BLCA
FNDC1	0	.	GRCh37	6	159653542	159653542	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1998C>A	p.%3D	p.P666P	ENST00000297267	11/23	41	30	11	55	55	0	FNDC1,synonymous_variant,p.%3D,ENST00000340366,;FNDC1,synonymous_variant,p.%3D,ENST00000297267,;FNDC1,synonymous_variant,p.%3D,ENST00000329629,;	A	ENSG00000164694	ENST00000297267	Transcript	synonymous_variant	2198	1998	666	P	ccC/ccA	.	.	.	1	FNDC1	HGNC	21184	protein_coding	YES	CCDS47512.1	ENSP00000297267	FNDC1_HUMAN	.	UPI0000579B80	.	.	.	11/23	.	hmmpanther:PTHR23197:SF8,hmmpanther:PTHR23197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A664T|c.1990G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCCCCGGCC	.	5	BLCA
SOD2	0	.	GRCh37	6	160113781	160113781	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.138C>T	p.%3D	p.I46I	ENST00000538183	2/5	41	31	10	56	56	0	SOD2,synonymous_variant,p.%3D,ENST00000452684,;SOD2,synonymous_variant,p.%3D,ENST00000367054,;SOD2,synonymous_variant,p.%3D,ENST00000545162,;SOD2,synonymous_variant,p.%3D,ENST00000367055,;SOD2,synonymous_variant,p.%3D,ENST00000535561,;SOD2,synonymous_variant,p.%3D,ENST00000444946,;SOD2,synonymous_variant,p.%3D,ENST00000538183,;SOD2,synonymous_variant,p.%3D,ENST00000337404,;SOD2,5_prime_UTR_variant,,ENST00000537657,;SOD2,5_prime_UTR_variant,,ENST00000401980,;SOD2,5_prime_UTR_variant,,ENST00000546087,;SOD2,upstream_gene_variant,,ENST00000541573,;SOD2,upstream_gene_variant,,ENST00000540491,;SOD2,synonymous_variant,p.%3D,ENST00000546260,;SOD2,upstream_gene_variant,,ENST00000535459,;	A	ENSG00000112096	ENST00000538183	Transcript	synonymous_variant	299	138	46	I	atC/atT	COSM1266410	.	.	-1	SOD2	HGNC	11180	protein_coding	YES	CCDS5265.1	ENSP00000446252	SODM_HUMAN	Q9UG59_HUMAN,F5H3C5_HUMAN,B3KUK2_HUMAN	UPI000006D275	.	.	.	2/5	.	hmmpanther:PTHR11404:SF6,hmmpanther:PTHR11404,Gene3D:1.10.287.990,Pfam_domain:PF00081,PIRSF_domain:PIRSF000349,Superfamily_domains:SSF46609	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCATGATCTG	.	2	BLCA
SLC22A1	0	.	GRCh37	6	160557650	160557650	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1029G>A	p.%3D	p.L343L	ENST00000366963	6/11	45	26	19	104	104	0	SLC22A1,synonymous_variant,p.%3D,ENST00000324965,;SLC22A1,synonymous_variant,p.%3D,ENST00000366963,;SLC22A1,synonymous_variant,p.%3D,ENST00000457470,;SLC22A1,downstream_gene_variant,,ENST00000540443,;SLC22A1,synonymous_variant,p.%3D,ENST00000460902,;SLC22A1,3_prime_UTR_variant,,ENST00000539263,;	A	ENSG00000175003	ENST00000366963	Transcript	synonymous_variant	1176	1029	343	L	ctG/ctA	.	.	.	1	SLC22A1	HGNC	10963	protein_coding	YES	CCDS5274.1	ENSP00000355930	S22A1_HUMAN	F5GY86_HUMAN	UPI0000070FB1	.	.	.	6/11	.	Superfamily_domains:SSF103473,TIGRFAM_domain:TIGR00898,Pfam_domain:PF00083,hmmpanther:PTHR24064,hmmpanther:PTHR24064:SF214,PROSITE_profiles:PS50850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTGAGGAA	.	5	BLCA
LPA	0	.	GRCh37	6	161016407	161016407	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3448A>T	p.Thr1150Ser	p.T1150S	ENST00000447678	22/40	117	74	42	140	140	0	LPA,missense_variant,p.Thr1150Ser,ENST00000316300,;LPA,missense_variant,p.Thr1150Ser,ENST00000447678,;	A	ENSG00000198670	ENST00000447678	Transcript	missense_variant	3569	3448	1150	T/S	Aca/Tca	.	.	.	-1	LPA	HGNC	6667	protein_coding	YES	CCDS43523.1	ENSP00000395608	APOA_HUMAN	Q9UKJ7_HUMAN,Q9UIR8_HUMAN,Q9UIR6_HUMAN,Q9UIR5_HUMAN	UPI0000458AC9	.	tolerated(0.68)	benign(0.437)	22/40	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24261,Gene3D:2.40.20.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGTGCTTG	.	5	BLCA
MAP3K4	0	.	GRCh37	6	161455477	161455477	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339G>A	p.%3D	p.L113L	ENST00000392142	2/27	21	11	9	33	33	0	MAP3K4,synonymous_variant,p.%3D,ENST00000366920,;MAP3K4,synonymous_variant,p.%3D,ENST00000366919,;MAP3K4,synonymous_variant,p.%3D,ENST00000348824,;MAP3K4,synonymous_variant,p.%3D,ENST00000448119,;MAP3K4,synonymous_variant,p.%3D,ENST00000392142,;MAP3K4,non_coding_transcript_exon_variant,,ENST00000446500,;MAP3K4,synonymous_variant,p.%3D,ENST00000544041,;MAP3K4,synonymous_variant,p.%3D,ENST00000490904,;MAP3K4,intron_variant,,ENST00000542952,;	A	ENSG00000085511	ENST00000392142	Transcript	synonymous_variant	487	339	113	L	ttG/ttA	.	.	.	1	MAP3K4	HGNC	6856	protein_coding	YES	CCDS34565.1	ENSP00000375986	M3K4_HUMAN	F5H534_HUMAN	UPI00004574E1	.	.	.	2/27	.	Gene3D:3.30.200.20,hmmpanther:PTHR24360,hmmpanther:PTHR24360:SF53	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTGAAAGG	.	5	BLCA
MLLT4	0	.	GRCh37	6	168226614	168226638	+	5'Flank	DEL	AGCACCACCCGTCCGGACCGAACCT	AGCACCACCCGTCCGGACCGAACCT	-	rs755716451	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	AGCACCACCCGTCCGGACCGAACCT	AGCACCACCCGTCCGGACCGAACCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000392108	.	75	60	15	123	123	0	MLLT4,upstream_gene_variant,,ENST00000400824,;MLLT4,upstream_gene_variant,,ENST00000351017,;MLLT4,upstream_gene_variant,,ENST00000447894,;MLLT4,upstream_gene_variant,,ENST00000392108,;MLLT4,upstream_gene_variant,,ENST00000392112,;MLLT4,upstream_gene_variant,,ENST00000344191,;MLLT4,upstream_gene_variant,,ENST00000400822,;MLLT4,upstream_gene_variant,,ENST00000400825,;MLLT4,upstream_gene_variant,,ENST00000366806,;MLLT4-AS1,non_coding_transcript_exon_variant,,ENST00000359760,;MLLT4-AS1,non_coding_transcript_exon_variant,,ENST00000414943,;MLLT4-AS1,upstream_gene_variant,,ENST00000425438,;MLLT4-AS1,upstream_gene_variant,,ENST00000417244,;MLLT4,upstream_gene_variant,,ENST00000366809,;	-	ENSG00000130396	ENST00000392108	Transcript	upstream_gene_variant	.	.	.	.	.	rs755716451	.	1033	1	MLLT4	HGNC	7137	protein_coding	YES	CCDS47517.1	ENSP00000375956	AFAD_HUMAN	.	UPI0000711FD9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE*|PINDEL|VARSCANS*	AGACCCAGCACCACCCGTCCGGACCGAACCTAGCAC	byFrequency	3	BLCA
MLLT4	0	.	GRCh37	6	168307876	168307876	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1676G>A	p.Arg559Lys	p.R559K	ENST00000392108	13/30	46	28	18	95	95	0	MLLT4,missense_variant,p.Arg559Lys,ENST00000351017,;MLLT4,missense_variant,p.Arg559Lys,ENST00000447894,;MLLT4,missense_variant,p.Arg559Lys,ENST00000392108,;MLLT4,missense_variant,p.Arg543Lys,ENST00000392112,;MLLT4,missense_variant,p.Arg559Lys,ENST00000344191,;MLLT4,missense_variant,p.Arg558Lys,ENST00000400822,;MLLT4,missense_variant,p.Arg258Lys,ENST00000423229,;MLLT4,missense_variant,p.Arg559Lys,ENST00000366806,;MLLT4,non_coding_transcript_exon_variant,,ENST00000366809,;	A	ENSG00000130396	ENST00000392108	Transcript	missense_variant	1818	1676	559	R/K	aGa/aAa	.	.	.	1	MLLT4	HGNC	7137	protein_coding	YES	CCDS47517.1	ENSP00000375956	AFAD_HUMAN	.	UPI0000711FD9	.	tolerated(0.15)	benign(0.431)	13/30	.	hmmpanther:PTHR10398	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGACAGAGTGT	.	5	BLCA
SMOC2	0	.	GRCh37	6	169067106	169067106	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1362G>C	p.Arg454Ser	p.R454S	ENST00000354536	13/13	38	22	15	63	63	0	SMOC2,missense_variant,p.Arg443Ser,ENST00000356284,;SMOC2,missense_variant,p.Arg454Ser,ENST00000354536,;SMOC2,downstream_gene_variant,,ENST00000417208,;SMOC2,intron_variant,,ENST00000477998,;SMOC2,3_prime_UTR_variant,,ENST00000392100,;AL391319.1,upstream_gene_variant,,ENST00000535039,;	C	ENSG00000112562	ENST00000354536	Transcript	missense_variant	1582	1362	454	R/S	agG/agC	.	.	.	1	SMOC2	HGNC	20323	protein_coding	YES	CCDS5307.1	ENSP00000346537	SMOC2_HUMAN	B4DNB1_HUMAN	UPI0000072A56	.	deleterious_low_confidence(0.01)	benign(0.108)	13/13	.	hmmpanther:PTHR12352:SF11,hmmpanther:PTHR12352	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAAGGAAACA	.	5	BLCA
C6orf120	0	.	GRCh37	6	170103058	170103058	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.503C>T	p.Ser168Leu	p.S168L	ENST00000332290	1/1	12	8	4	21	21	0	C6orf120,missense_variant,p.Ser187Leu,ENST00000439249,;C6orf120,missense_variant,p.Ser168Leu,ENST00000332290,;WDR27,upstream_gene_variant,,ENST00000420344,;WDR27,upstream_gene_variant,,ENST00000333572,;PHF10,downstream_gene_variant,,ENST00000366780,;WDR27,upstream_gene_variant,,ENST00000474018,;WDR27,upstream_gene_variant,,ENST00000448612,;PHF10,downstream_gene_variant,,ENST00000339209,;WDR27,upstream_gene_variant,,ENST00000423258,;WDR27,upstream_gene_variant,,ENST00000546953,;PHF10,downstream_gene_variant,,ENST00000480008,;	T	ENSG00000185127	ENST00000332290	Transcript	missense_variant	802	503	168	S/L	tCg/tTg	.	.	.	1	C6orf120	HGNC	21247	protein_coding	YES	CCDS34575.1	ENSP00000346931	CF120_HUMAN	.	UPI00001B3E93	.	tolerated(0.3)	benign(0.016)	1/1	.	hmmpanther:PTHR31703	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCCTCGCAAG	.	3	BLCA
FAM8A1	0	.	GRCh37	6	17601099	17601099	+	Silent	SNP	G	G	C	rs766562774	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459G>C	p.%3D	p.S153S	ENST00000259963	1/5	12	9	3	26	26	0	FAM8A1,synonymous_variant,p.%3D,ENST00000259963,;	C	ENSG00000137414	ENST00000259963	Transcript	synonymous_variant	514	459	153	S	tcG/tcC	rs766562774	.	.	1	FAM8A1	HGNC	16372	protein_coding	YES	CCDS4540.1	ENSP00000259963	FA8A1_HUMAN	B4DK49_HUMAN	UPI0000062300	.	.	.	1/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13659	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTCGGGCGG	byFrequency	2	BLCA
C6orf62	0	.	GRCh37	6	24714650	24714650	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325C>T	p.Gln109Ter	p.Q109*	ENST00000378119	3/5	62	39	23	88	88	0	C6orf62,stop_gained,p.Gln109Ter,ENST00000378119,;C6orf62,stop_gained,p.Gln80Ter,ENST00000378102,;C6orf62,stop_gained,p.Gln51Ter,ENST00000540769,;	A	ENSG00000112308	ENST00000378119	Transcript	stop_gained	2493	325	109	Q/*	Cag/Tag	.	.	.	-1	C6orf62	HGNC	20998	protein_coding	YES	CCDS4559.1	ENSP00000367359	CF062_HUMAN	B4DWX7_HUMAN	UPI000000DC64	.	.	.	3/5	.	Pfam_domain:PF15130	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTGAGTAC	.	5	BLCA
LRRC16A	0	.	GRCh37	6	25619860	25619860	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*49C>T	.	.	ENST00000329474	37/37	34	19	14	57	57	0	LRRC16A,3_prime_UTR_variant,,ENST00000329474,;LRRC16A,non_coding_transcript_exon_variant,,ENST00000476458,;	T	ENSG00000079691	ENST00000329474	Transcript	3_prime_UTR_variant	4533	.	.	.	.	.	.	.	1	LRRC16A	HGNC	21581	protein_coding	YES	CCDS54973.1	ENSP00000331983	LR16A_HUMAN	.	UPI00004588AB	.	.	.	37/37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCATCAGAGA	.	4	BLCA
HIST1H1C	0	.	GRCh37	6	26056387	26056387	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270G>A	p.%3D	p.K90K	ENST00000343677	1/1	129	97	32	200	200	0	HIST1H1C,synonymous_variant,p.%3D,ENST00000343677,;	T	ENSG00000187837	ENST00000343677	Transcript	synonymous_variant	313	270	90	K	aaG/aaA	.	.	.	-1	HIST1H1C	HGNC	4716	protein_coding	YES	CCDS4577.1	ENSP00000339566	H12_HUMAN	.	UPI0000001BD9	.	.	.	1/1	.	PROSITE_profiles:PS51504,hmmpanther:PTHR11467:SF23,hmmpanther:PTHR11467,Pfam_domain:PF00538,Gene3D:1.10.10.10,SMART_domains:SM00526,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGCCCTTGCT	.	5	BLCA
HIST1H1D	0	.	GRCh37	6	26234945	26234945	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.217G>A	p.Asp73Asn	p.D73N	ENST00000244534	1/1	117	68	49	190	190	0	HIST1H1D,missense_variant,p.Asp73Asn,ENST00000244534,;HIST1H2APS3,downstream_gene_variant,,ENST00000403259,;	T	ENSG00000124575	ENST00000244534	Transcript	missense_variant	272	217	73	D/N	Gat/Aat	.	.	.	-1	HIST1H1D	HGNC	4717	protein_coding	YES	CCDS4597.1	ENSP00000244534	H13_HUMAN	.	UPI0000000E14	.	tolerated(0.16)	possibly_damaging(0.894)	1/1	.	PROSITE_profiles:PS51504,hmmpanther:PTHR11467,hmmpanther:PTHR11467:SF16,Pfam_domain:PF00538,Gene3D:1.10.10.10,SMART_domains:SM00526,Superfamily_domains:SSF46785,Prints_domain:PR00624	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCGTAGC	.	5	BLCA
BTN2A2	0	.	GRCh37	6	26384049	26384049	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1C>T	.	.	ENST00000356709	2/8	48	36	11	84	84	0	BTN2A2,5_prime_UTR_variant,,ENST00000472507,;BTN2A2,5_prime_UTR_variant,,ENST00000356709,;BTN2A2,5_prime_UTR_variant,,ENST00000494184,;BTN2A2,5_prime_UTR_variant,,ENST00000469230,;BTN2A2,5_prime_UTR_variant,,ENST00000352867,;BTN2A2,5_prime_UTR_variant,,ENST00000416795,;BTN2A2,5_prime_UTR_variant,,ENST00000432533,;BTN2A2,5_prime_UTR_variant,,ENST00000493275,;BTN2A2,5_prime_UTR_variant,,ENST00000482536,;BTN2A2,5_prime_UTR_variant,,ENST00000483410,;BTN2A2,intron_variant,,ENST00000490025,;BTN2A2,intron_variant,,ENST00000482842,;BTN2A2,5_prime_UTR_variant,,ENST00000471116,;BTN2A2,non_coding_transcript_exon_variant,,ENST00000482636,;BTN2A2,non_coding_transcript_exon_variant,,ENST00000467485,;	T	ENSG00000124508	ENST00000356709	Transcript	5_prime_UTR_variant	111	.	.	.	.	.	.	.	1	BTN2A2	HGNC	1137	protein_coding	YES	CCDS4606.1	ENSP00000349143	BT2A2_HUMAN	C9JAJ6_HUMAN,C9J8R3_HUMAN,C9IZY2_HUMAN,C9IY66_HUMAN	UPI00000480EA	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCTCATGGA	.	5	BLCA
BTN1A1	0	.	GRCh37	6	26505385	26505385	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660C>T	p.%3D	p.I220I	ENST00000244513	3/7	66	42	24	91	91	0	BTN1A1,synonymous_variant,p.%3D,ENST00000244513,;	T	ENSG00000124557	ENST00000244513	Transcript	synonymous_variant	726	660	220	I	atC/atT	.	.	.	1	BTN1A1	HGNC	1135	protein_coding	YES	CCDS4614.1	ENSP00000244513	BT1A1_HUMAN	.	UPI000006E521	.	.	.	3/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24100:SF53,hmmpanther:PTHR24100,Pfam_domain:PF08205,Gene3D:2.60.40.10,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCCAGAA	.	5	BLCA
HIST1H2AI	0	.	GRCh37	6	27776269	27776269	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.282C>T	p.%3D	p.L94L	ENST00000358739	1/1	61	42	18	71	71	0	HIST1H2AI,synonymous_variant,p.%3D,ENST00000358739,;HIST1H2BL,upstream_gene_variant,,ENST00000377401,;HIST1H3H,upstream_gene_variant,,ENST00000369163,;HIST1H4PS1,downstream_gene_variant,,ENST00000406085,;	T	ENSG00000196747	ENST00000358739	Transcript	synonymous_variant	371	282	94	L	ctC/ctT	.	.	.	1	HIST1H2AI	HGNC	4725	protein_coding	YES	CCDS4626.1	ENSP00000351589	H2A1_HUMAN	A4FTV9_HUMAN,A3KPC7_HUMAN	UPI0000000E01	.	.	.	1/1	.	hmmpanther:PTHR23430,hmmpanther:PTHR23430:SF24,Gene3D:1.10.20.10,SMART_domains:SM00414,Superfamily_domains:SSF47113	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCAACAA	.	4	BLCA
HIST1H4K	0	.	GRCh37	6	27799306	27799306	+	5'Flank	SNP	G	G	A	rs373173429	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000357549	.	67	59	7	106	106	0	HIST1H4K,upstream_gene_variant,,ENST00000357549,;	A	ENSG00000197914	ENST00000357549	Transcript	upstream_gene_variant	.	.	.	.	.	rs373173429	.	1	-1	HIST1H4K	HGNC	4784	protein_coding	YES	CCDS4631.1	ENSP00000350159	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	.	.	.	.	.	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACATGACGAG	byCluster|by1000G	4	BLCA
HIST1H2BN	0	.	GRCh37	6	27806835	27806835	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15G>A	.	.	ENST00000396980	1/1	26	14	11	35	35	0	HIST1H2BN,3_prime_UTR_variant,,ENST00000396980,;HIST1H2BN,intron_variant,,ENST00000606613,;HIST1H2AK,upstream_gene_variant,,ENST00000330180,;HIST1H2BN,3_prime_UTR_variant,,ENST00000449538,;	A	ENSG00000233822	ENST00000396980	Transcript	3_prime_UTR_variant	396	.	.	.	.	.	.	.	1	HIST1H2BN	HGNC	4749	protein_coding	YES	CCDS4633.1	ENSP00000380177	H2B1N_HUMAN	.	UPI0000000CA1	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGCGGAACGT	.	5	BLCA
HIST1H1B	0	.	GRCh37	6	27835208	27835208	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.100G>A	p.Ala34Thr	p.A34T	ENST00000331442	1/1	71	51	19	84	84	0	HIST1H1B,missense_variant,p.Ala34Thr,ENST00000331442,;HIST1H2AL,downstream_gene_variant,,ENST00000357320,;HIST1H3I,downstream_gene_variant,,ENST00000328488,;HIST1H2BPS2,upstream_gene_variant,,ENST00000402707,;	T	ENSG00000184357	ENST00000331442	Transcript	missense_variant	152	100	34	A/T	Gct/Act	.	.	.	-1	HIST1H1B	HGNC	4719	protein_coding	YES	CCDS4635.1	ENSP00000330074	H15_HUMAN	.	UPI0000001BDA	.	tolerated(0.17)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11467:SF24,hmmpanther:PTHR11467,Prints_domain:PR00624	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTAGCAGCGC	.	5	BLCA
HIST1H4L	0	.	GRCh37	6	27840937	27840937	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*40C>T	.	.	ENST00000355981	1/1	32	24	8	29	29	0	HIST1H4L,3_prime_UTR_variant,,ENST00000355981,;HIST1H3I,upstream_gene_variant,,ENST00000328488,;	A	ENSG00000198558	ENST00000355981	Transcript	3_prime_UTR_variant	353	.	.	.	.	.	.	.	-1	HIST1H4L	HGNC	4791	protein_coding	YES	CCDS4637.1	ENSP00000348258	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTGAGAAG	.	5	BLCA
HIST1H4L	0	.	GRCh37	6	27840939	27840939	+	3'UTR	SNP	G	G	A	rs199543389	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*38C>T	.	.	ENST00000355981	1/1	34	22	12	31	31	0	HIST1H4L,3_prime_UTR_variant,,ENST00000355981,;HIST1H3I,upstream_gene_variant,,ENST00000328488,;	A	ENSG00000198558	ENST00000355981	Transcript	3_prime_UTR_variant	351	.	.	.	.	rs199543389	.	.	-1	HIST1H4L	HGNC	4791	protein_coding	YES	CCDS4637.1	ENSP00000348258	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTGAGAAGGG	byCluster	3	BLCA
HIST1H4L	0	.	GRCh37	6	27840950	27840950	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27C>T	.	.	ENST00000355981	1/1	39	26	13	39	39	0	HIST1H4L,3_prime_UTR_variant,,ENST00000355981,;HIST1H3I,upstream_gene_variant,,ENST00000328488,;	A	ENSG00000198558	ENST00000355981	Transcript	3_prime_UTR_variant	340	.	.	.	.	.	.	.	-1	HIST1H4L	HGNC	4791	protein_coding	YES	CCDS4637.1	ENSP00000348258	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTTTGAGGAA	.	3	BLCA
HLA-G	0	.	GRCh37	6	29796388	29796388	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>A	p.Glu138Lys	p.E138K	ENST00000428701	4/8	69	54	15	123	123	0	HLA-G,missense_variant,p.Glu143Lys,ENST00000376828,;HLA-G,missense_variant,p.Glu138Lys,ENST00000360323,;HLA-G,missense_variant,p.Glu138Lys,ENST00000428701,;HLA-G,intron_variant,,ENST00000376815,;HLA-G,intron_variant,,ENST00000376818,;HLA-G,non_coding_transcript_exon_variant,,ENST00000478355,;HLA-G,intron_variant,,ENST00000478519,;HCG4P8,upstream_gene_variant,,ENST00000443049,;	A	ENSG00000204632	ENST00000428701	Transcript	missense_variant	590	412	138	E/K	Gaa/Aaa	.	.	.	1	HLA-G	HGNC	4964	protein_coding	YES	CCDS4668.1	ENSP00000412927	HLAG_HUMAN	Q6DU14_HUMAN,M9TK49_HUMAN,Q9UM45_HUMAN,Q9TP14_HUMAN,Q9TP13_HUMAN,Q9TP12_HUMAN,Q9TP11_HUMAN,Q9TP10_HUMAN,Q95356_HUMAN,Q7JFN0_HUMAN,Q6DL89_HUMAN,Q6DL88_HUMAN,Q6DL87_HUMAN,Q6DL86_HUMAN,Q6DL85_HUMAN,Q6B9Y6_HUMAN,Q6B9Y4_HUMAN,Q6B9Y3_HUMAN,Q6B9Y2_HUMAN,Q6B9Y1_HUMAN,Q6B845_HUMAN,Q68YS4_HUMAN,Q68YS3_HUMAN,Q68YS2_HUMAN,Q68YS1_HUMAN,Q68YS0_HUMAN,Q68YR9_HUMAN,Q68YR8_HUMAN,Q30182_HUMAN,O78136_HUMAN,O78135_HUMAN,O78134_HUMAN,O78133_HUMAN,O78131_HUMAN,O19809_HUMAN,O19807_HUMAN,O19806_HUMAN,O19805_HUMAN,O19768_HUMAN,O19767_HUMAN,O19766_HUMAN,O19745_HUMAN,O19684_HUMAN,O19659_HUMAN,O19658_HUMAN,O02928_HUMAN,O02927_HUMAN,O02926_HUMAN,O02923_HUMAN,J3JRT1_HUMAN,C7SJ32_HUMAN,C0JTC7_HUMAN,C0JT30_HUMAN,C0JT28_HUMAN,C0JSV3_HUMAN,C0JSV2_HUMAN,B5LFX9_HUMAN,B1P198_HUMAN,A5HSK0_HUMAN	UPI000000166E	.	tolerated_low_confidence(0.29)	possibly_damaging(0.51)	4/8	.	hmmpanther:PTHR16675:SF149,hmmpanther:PTHR16675,Gene3D:3.30.500.10,Pfam_domain:PF00129,Superfamily_domains:SSF54452,Prints_domain:PR01638	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTATGAACAG	.	5	BLCA
TRIM31	0	.	GRCh37	6	30079479	30079479	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459G>A	p.%3D	p.E153E	ENST00000376734	3/9	83	57	26	119	119	0	TRIM31,synonymous_variant,p.%3D,ENST00000376734,;TRIM31,synonymous_variant,p.%3D,ENST00000540829,;TRIM31-AS1,intron_variant,,ENST00000440874,;TRIM31,non_coding_transcript_exon_variant,,ENST00000485864,;TRIM31,non_coding_transcript_exon_variant,,ENST00000480808,;TRIM31,non_coding_transcript_exon_variant,,ENST00000493404,;TRIM31,upstream_gene_variant,,ENST00000468264,;	T	ENSG00000204616	ENST00000376734	Transcript	synonymous_variant	585	459	153	E	gaG/gaA	.	.	.	-1	TRIM31	HGNC	16289	protein_coding	YES	CCDS34374.1	ENSP00000365924	TRI31_HUMAN	Q2L6J1_HUMAN	UPI00001B0109	.	.	.	3/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24103,hmmpanther:PTHR24103:SF87	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCTCCTT	.	5	BLCA
RPP21	0	.	GRCh37	6	30313042	30313042	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58-33C>T	.	.	ENST00000433076	.	22	15	7	26	26	0	RPP21,missense_variant,p.Arg32Trp,ENST00000428040,;RPP21,intron_variant,,ENST00000436442,;TRIM39-RPP21,intron_variant,,ENST00000513556,;RPP21,intron_variant,,ENST00000433076,;RPP21,intron_variant,,ENST00000442966,;TRIM39,downstream_gene_variant,,ENST00000420746,;TRIM39,downstream_gene_variant,,ENST00000396547,;TRIM39,downstream_gene_variant,,ENST00000376656,;TRIM39,downstream_gene_variant,,ENST00000376659,;TRIM39,downstream_gene_variant,,ENST00000540416,;TRIM39,downstream_gene_variant,,ENST00000396551,;TRIM39,downstream_gene_variant,,ENST00000396548,;RPP21,intron_variant,,ENST00000489124,;RPP21,intron_variant,,ENST00000466327,;RPP21,intron_variant,,ENST00000491477,;RPP21,intron_variant,,ENST00000473266,;RPP21,intron_variant,,ENST00000498414,;	T	ENSG00000241370	ENST00000433076	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	RPP21	HGNC	21300	protein_coding	YES	CCDS56409.1	ENSP00000409799	RPP21_HUMAN	.	UPI0000470276	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	GTGCTCGGCGT	.	4	BLCA
DHX16	0	.	GRCh37	6	30640529	30640529	+	Silent	SNP	C	C	T	rs760589692	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.90G>A	p.%3D	p.L30L	ENST00000376442	1/20	40	24	15	49	49	0	DHX16,synonymous_variant,p.%3D,ENST00000376442,;DHX16,intron_variant,,ENST00000415603,;PPP1R18,downstream_gene_variant,,ENST00000274853,;PPP1R18,downstream_gene_variant,,ENST00000399199,;PPP1R18,downstream_gene_variant,,ENST00000467662,;PPP1R18,downstream_gene_variant,,ENST00000488324,;	T	ENSG00000204560	ENST00000376442	Transcript	synonymous_variant	286	90	30	L	ctG/ctA	rs760589692	.	.	-1	DHX16	HGNC	2739	protein_coding	YES	CCDS4685.1	ENSP00000365625	DHX16_HUMAN	Q5SQH4_HUMAN	UPI000000D73D	.	.	.	1/20	.	hmmpanther:PTHR18934:SF83,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGATCAGAAA	byFrequency	5	BLCA
MDC1	0	.	GRCh37	6	30680683	30680683	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1036C>T	p.Pro346Ser	p.P346S	ENST00000376406	5/15	95	67	28	122	122	0	MDC1,missense_variant,p.Pro346Ser,ENST00000376405,;MDC1,missense_variant,p.Pro346Ser,ENST00000376406,;MDC1,downstream_gene_variant,,ENST00000422266,;MDC1,downstream_gene_variant,,ENST00000425072,;MDC1,upstream_gene_variant,,ENST00000417033,;MDC1,downstream_gene_variant,,ENST00000416571,;MDC1-AS1,non_coding_transcript_exon_variant,,ENST00000442150,;MDC1,upstream_gene_variant,,ENST00000494654,;	A	ENSG00000137337	ENST00000376406	Transcript	missense_variant	1684	1036	346	P/S	Cct/Tct	.	.	.	-1	MDC1	HGNC	21163	protein_coding	YES	CCDS34384.1	ENSP00000365588	MDC1_HUMAN	A2AB07_HUMAN,A2AB06_HUMAN,A2AB05_HUMAN,A1Z5I9_HUMAN,A1Z5I7_HUMAN	UPI00001AF453	.	deleterious(0.03)	probably_damaging(0.994)	5/15	.	hmmpanther:PTHR23196,hmmpanther:PTHR23196:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAGGAATGA	.	5	BLCA
MUC21	0	.	GRCh37	6	30951718	30951718	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-18C>T	.	.	ENST00000376296	1/3	51	40	10	61	61	0	MUC21,5_prime_UTR_variant,,ENST00000376296,;MUC21,5_prime_UTR_variant,,ENST00000486149,;	T	ENSG00000204544	ENST00000376296	Transcript	5_prime_UTR_variant	224	.	.	.	.	.	.	.	1	MUC21	HGNC	21661	protein_coding	YES	CCDS34388.1	ENSP00000365473	MUC21_HUMAN	.	UPI000047030C	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCCAGCC	.	5	BLCA
BPHL	0	.	GRCh37	6	3119529	3119529	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.107+448G>A	.	.	ENST00000380379	.	9	4	5	10	10	0	BPHL,5_prime_UTR_variant,,ENST00000380368,;BPHL,5_prime_UTR_variant,,ENST00000380375,;BPHL,5_prime_UTR_variant,,ENST00000434640,;BPHL,intron_variant,,ENST00000380379,;RIPK1,downstream_gene_variant,,ENST00000259808,;RIPK1,downstream_gene_variant,,ENST00000380409,;RIPK1,downstream_gene_variant,,ENST00000541791,;BPHL,missense_variant,p.Glu40Lys,ENST00000424847,;BPHL,missense_variant,p.Glu40Lys,ENST00000430655,;BPHL,intron_variant,,ENST00000479273,;BPHL,intron_variant,,ENST00000490918,;BPHL,intron_variant,,ENST00000433912,;	A	ENSG00000137274	ENST00000380379	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	BPHL	HGNC	1094	protein_coding	YES	CCDS4483.2	ENSP00000369739	BPHL_HUMAN	.	UPI000000DC96	.	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCCTGAGCCT	.	2	BLCA
TNF	0	.	GRCh37	6	31544927	31544927	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.315G>A	p.%3D	p.L105L	ENST00000449264	4/4	60	47	12	64	64	0	TNF,synonymous_variant,p.%3D,ENST00000449264,;LTA,downstream_gene_variant,,ENST00000418386,;LTA,downstream_gene_variant,,ENST00000454783,;LTB,downstream_gene_variant,,ENST00000446745,;LTB,downstream_gene_variant,,ENST00000429299,;LTB,downstream_gene_variant,,ENST00000483972,;LTA,downstream_gene_variant,,ENST00000489638,;LTA,downstream_gene_variant,,ENST00000471842,;LTB,downstream_gene_variant,,ENST00000482429,;	A	ENSG00000232810	ENST00000449264	Transcript	synonymous_variant	490	315	105	L	ctG/ctA	.	.	.	1	TNF	HGNC	11892	protein_coding	YES	CCDS4702.1	ENSP00000398698	TNFA_HUMAN	Q5STB3_HUMAN,C1K3N5_HUMAN,B5BUQ6_HUMAN	UPI000000D745	.	.	.	4/4	.	PROSITE_profiles:PS50049,hmmpanther:PTHR11471,hmmpanther:PTHR11471:SF23,Pfam_domain:PF00229,Gene3D:2.60.120.40,SMART_domains:SM00207,Superfamily_domains:SSF49842,Prints_domain:PR01234	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCTGAACCG	.	5	BLCA
CLIC1	0	.	GRCh37	6	31701972	31701972	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108C>T	p.%3D	p.L36L	ENST00000375780	3/7	33	20	13	37	37	0	CLIC1,synonymous_variant,p.%3D,ENST00000395892,;CLIC1,synonymous_variant,p.%3D,ENST00000375779,;CLIC1,synonymous_variant,p.%3D,ENST00000375780,;CLIC1,synonymous_variant,p.%3D,ENST00000375784,;DDAH2,upstream_gene_variant,,ENST00000375787,;DDAH2,upstream_gene_variant,,ENST00000375792,;DDAH2,upstream_gene_variant,,ENST00000375789,;DDAH2,upstream_gene_variant,,ENST00000416410,;DDAH2,upstream_gene_variant,,ENST00000436437,;DDAH2,upstream_gene_variant,,ENST00000483792,;DDAH2,upstream_gene_variant,,ENST00000480913,;DDAH2,upstream_gene_variant,,ENST00000488119,;DDAH2,upstream_gene_variant,,ENST00000469963,;	A	ENSG00000213719	ENST00000375780	Transcript	synonymous_variant	681	108	36	L	ctC/ctT	.	.	.	-1	CLIC1	HGNC	2062	protein_coding	YES	CCDS4719.1	ENSP00000364935	CLIC1_HUMAN	Q5SRT3_HUMAN	UPI000011785A	.	.	.	3/7	.	hmmpanther:PTHR11260:SF165,hmmpanther:PTHR11260,Gene3D:3.40.30.10,TIGRFAM_domain:TIGR00862,Pfam_domain:PF13417,Superfamily_domains:SSF52833,Prints_domain:PR01263	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTGAGCCA	.	5	BLCA
HSPA1B	0	.	GRCh37	6	31795755	31795755	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28G>A	p.Asp10Asn	p.D10N	ENST00000375650	1/1	45	31	13	57	57	0	HSPA1B,missense_variant,p.Asp10Asn,ENST00000545241,;HSPA1B,missense_variant,p.Asp10Asn,ENST00000375650,;	A	ENSG00000204388	ENST00000375650	Transcript	missense_variant	244	28	10	D/N	Gac/Aac	.	.	.	1	HSPA1B	HGNC	5233	protein_coding	YES	CCDS34415.1	ENSP00000364801	HSP71_HUMAN	A8K5I0_HUMAN	UPI0000000C40	.	deleterious_low_confidence(0)	probably_damaging(0.999)	1/1	.	Prints_domain:PR00301,Superfamily_domains:SSF53067,Pfam_domain:PF00012,Gene3D:3.30.420.40,hmmpanther:PTHR19375,PROSITE_patterns:PS00297,hmmpanther:PTHR19375:SF155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATCGACCTG	.	5	BLCA
SLC44A4	0	.	GRCh37	6	31838778	31838778	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748C>T	p.%3D	p.L250L	ENST00000229729	10/21	21	15	5	23	23	0	SLC44A4,synonymous_variant,p.%3D,ENST00000544672,;SLC44A4,synonymous_variant,p.%3D,ENST00000229729,;SLC44A4,synonymous_variant,p.%3D,ENST00000375562,;SLC44A4,intron_variant,,ENST00000414427,;SLC44A4,downstream_gene_variant,,ENST00000462671,;SLC44A4,downstream_gene_variant,,ENST00000465707,;SLC44A4,non_coding_transcript_exon_variant,,ENST00000479777,;SLC44A4,non_coding_transcript_exon_variant,,ENST00000475563,;	A	ENSG00000204385	ENST00000229729	Transcript	synonymous_variant	769	748	250	L	Ctg/Ttg	.	.	.	-1	SLC44A4	HGNC	13941	protein_coding	YES	CCDS4724.2	ENSP00000229729	CTL4_HUMAN	.	UPI00004702CE	.	.	.	10/21	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR12385,hmmpanther:PTHR12385:SF37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCGCAGAAGCA	.	3	BLCA
EHMT2	0	.	GRCh37	6	31847893	31847893	+	Missense_Mutation	SNP	C	C	T	rs755793502	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3601G>A	p.Glu1201Lys	p.E1201K	ENST00000375537	28/28	21	11	10	28	28	0	EHMT2,missense_variant,p.Glu1224Lys,ENST00000375528,;EHMT2,missense_variant,p.Glu1258Lys,ENST00000395728,;EHMT2,missense_variant,p.Glu1167Lys,ENST00000375530,;EHMT2,missense_variant,p.Glu1201Lys,ENST00000375537,;EHMT2,downstream_gene_variant,,ENST00000436026,;SLC44A4,upstream_gene_variant,,ENST00000229729,;SLC44A4,upstream_gene_variant,,ENST00000414427,;SLC44A4,upstream_gene_variant,,ENST00000544672,;SLC44A4,upstream_gene_variant,,ENST00000375562,;EHMT2-AS1,upstream_gene_variant,,ENST00000434689,;EHMT2,non_coding_transcript_exon_variant,,ENST00000480912,;EHMT2,non_coding_transcript_exon_variant,,ENST00000478491,;SLC44A4,upstream_gene_variant,,ENST00000465707,;SLC44A4,upstream_gene_variant,,ENST00000462671,;EHMT2,non_coding_transcript_exon_variant,,ENST00000461880,;EHMT2,non_coding_transcript_exon_variant,,ENST00000494816,;EHMT2,downstream_gene_variant,,ENST00000477678,;	T	ENSG00000204371	ENST00000375537	Transcript	missense_variant	3608	3601	1201	E/K	Gag/Aag	rs755793502,COSM1312024	.	.	-1	EHMT2	HGNC	14129	protein_coding	YES	CCDS4725.1	ENSP00000364687	EHMT2_HUMAN	.	UPI000013D085	.	deleterious_low_confidence(0.01)	unknown(0)	28/28	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCGGGCA	byFrequency	5	BLCA
ATF6B	0	.	GRCh37	6	32085408	32085408	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1488C>T	p.%3D	p.F496F	ENST00000375203	13/18	16	11	5	17	17	0	ATF6B,synonymous_variant,p.%3D,ENST00000375201,;ATF6B,synonymous_variant,p.%3D,ENST00000375203,;ATF6B,synonymous_variant,p.%3D,ENST00000453203,;TNXB,upstream_gene_variant,,ENST00000442721,;ATF6B,upstream_gene_variant,,ENST00000494022,;ATF6B,downstream_gene_variant,,ENST00000485314,;ATF6B,downstream_gene_variant,,ENST00000495579,;ATF6B,downstream_gene_variant,,ENST00000475705,;ATF6B,downstream_gene_variant,,ENST00000492342,;	A	ENSG00000213676	ENST00000375203	Transcript	synonymous_variant	1521	1488	496	F	ttC/ttT	.	.	.	-1	ATF6B	HGNC	2349	protein_coding	YES	CCDS4737.1	ENSP00000364349	ATF6B_HUMAN	.	UPI00001261C8	.	.	.	13/18	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22952:SF107,hmmpanther:PTHR22952	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAGGAAGAG	.	5	BLCA
HLA-DOB	0	.	GRCh37	6	32782094	32782094	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643+3G>A	.	.	ENST00000438763	.	48	32	16	49	49	0	HLA-DOB,splice_region_variant,,ENST00000438763,;TAP2,splice_region_variant,,ENST00000452392,;HLA-DOB,downstream_gene_variant,,ENST00000447394,;HLA-DOB,splice_region_variant,,ENST00000488325,;HLA-DOB,non_coding_transcript_exon_variant,,ENST00000475235,;	T	ENSG00000241106	ENST00000438763	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	HLA-DOB	HGNC	4937	protein_coding	YES	CCDS4754.1	ENSP00000390020	DOB_HUMAN	Q5QNS2_HUMAN	UPI0000000C73	.	.	.	.	3/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCACTCC	.	5	BLCA
TAP1	0	.	GRCh37	6	32821367	32821367	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227C>T	p.Pro76Leu	p.P76L	ENST00000354258	1/11	23	19	4	31	31	0	TAP1,missense_variant,p.Pro76Leu,ENST00000354258,;PSMB9,intron_variant,,ENST00000395330,;PSMB9,intron_variant,,ENST00000414474,;PSMB9,upstream_gene_variant,,ENST00000374859,;PSMB9,upstream_gene_variant,,ENST00000453265,;TAP1,upstream_gene_variant,,ENST00000425148,;PSMB9,upstream_gene_variant,,ENST00000467593,;TAP1,upstream_gene_variant,,ENST00000486332,;PSMB9,upstream_gene_variant,,ENST00000464863,;	A	ENSG00000168394	ENST00000354258	Transcript	missense_variant	389	227	76	P/L	cCc/cTc	.	.	.	-1	TAP1	HGNC	43	protein_coding	YES	CCDS4758.1	ENSP00000346206	TAP1_HUMAN	Q9UEE1_HUMAN,Q69DM1_HUMAN,Q53WZ1_HUMAN,F5H648_HUMAN	UPI000002D4E6	.	tolerated_low_confidence(0.09)	benign(0.039)	1/11	.	Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCGGGGAGG	.	4	BLCA
BRD2	0	.	GRCh37	6	32942542	32942542	+	Silent	SNP	G	G	T	rs765055674	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.333G>T	p.%3D	p.P111P	ENST00000395289	3/14	11	7	4	17	17	0	BRD2,synonymous_variant,p.%3D,ENST00000395289,;BRD2,synonymous_variant,p.%3D,ENST00000449025,;BRD2,synonymous_variant,p.%3D,ENST00000449085,;BRD2,synonymous_variant,p.%3D,ENST00000374825,;BRD2,synonymous_variant,p.%3D,ENST00000607833,;BRD2,synonymous_variant,p.%3D,ENST00000374831,;BRD2,synonymous_variant,p.%3D,ENST00000456339,;BRD2,synonymous_variant,p.%3D,ENST00000395287,;BRD2,splice_region_variant,,ENST00000443797,;BRD2,downstream_gene_variant,,ENST00000496118,;BRD2,upstream_gene_variant,,ENST00000606059,;XXbac-BPG181M17.6,upstream_gene_variant,,ENST00000580587,;BRD2-IT1,downstream_gene_variant,,ENST00000415875,;BRD2,downstream_gene_variant,,ENST00000580234,;BRD2,downstream_gene_variant,,ENST00000584808,;BRD2,downstream_gene_variant,,ENST00000581002,;BRD2,synonymous_variant,p.%3D,ENST00000482914,;BRD2,synonymous_variant,p.%3D,ENST00000495733,;BRD2,upstream_gene_variant,,ENST00000482838,;BRD2,upstream_gene_variant,,ENST00000481259,;BRD2,upstream_gene_variant,,ENST00000469132,;BRD2,upstream_gene_variant,,ENST00000464592,;BRD2,upstream_gene_variant,,ENST00000463639,;	T	ENSG00000204256	ENST00000395289	Transcript	synonymous_variant	1934	333	111	P	ccG/ccT	rs765055674	.	.	1	BRD2	HGNC	1103	protein_coding	YES	CCDS56420.1	ENSP00000378704	BRD2_HUMAN	U3KQA6_HUMAN	UPI0000227E6A	.	.	.	3/14	.	PROSITE_profiles:PS50014,hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF126,PROSITE_patterns:PS00633,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370,Prints_domain:PR00503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTACCGGTGAG	.	3	BLCA
WDR46	0	.	GRCh37	6	33256780	33256780	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80G>A	p.Arg27Gln	p.R27Q	ENST00000374617	2/15	61	43	17	60	60	0	WDR46,missense_variant,p.Arg27Gln,ENST00000374617,;WDR46,upstream_gene_variant,,ENST00000444176,;PFDN6,upstream_gene_variant,,ENST00000395131,;PFDN6,upstream_gene_variant,,ENST00000374607,;PFDN6,upstream_gene_variant,,ENST00000374610,;RGL2,downstream_gene_variant,,ENST00000444031,;RGL2,downstream_gene_variant,,ENST00000497454,;PFDN6,upstream_gene_variant,,ENST00000463584,;PFDN6,upstream_gene_variant,,ENST00000374606,;WDR46,non_coding_transcript_exon_variant,,ENST00000477718,;WDR46,non_coding_transcript_exon_variant,,ENST00000468157,;RGL2,downstream_gene_variant,,ENST00000471319,;RGL2,downstream_gene_variant,,ENST00000437840,;RGL2,downstream_gene_variant,,ENST00000491168,;B3GALT4,downstream_gene_variant,,ENST00000606990,;WDR46,non_coding_transcript_exon_variant,,ENST00000481025,;PFDN6,upstream_gene_variant,,ENST00000395134,;WDR46,upstream_gene_variant,,ENST00000488944,;PFDN6,upstream_gene_variant,,ENST00000491382,;RGL2,downstream_gene_variant,,ENST00000476616,;WDR46,upstream_gene_variant,,ENST00000489905,;RGL2,downstream_gene_variant,,ENST00000483151,;	T	ENSG00000227057	ENST00000374617	Transcript	missense_variant	437	80	27	R/Q	cGa/cAa	.	.	.	-1	WDR46	HGNC	13923	protein_coding	YES	CCDS4772.1	ENSP00000363746	WDR46_HUMAN	.	UPI000045741F	.	deleterious_low_confidence(0)	probably_damaging(0.996)	2/15	.	hmmpanther:PTHR14085,hmmpanther:PTHR14085:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTATCGCCGC	.	5	BLCA
PFDN6	0	.	GRCh37	6	33257556	33257556	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-78G>A	.	.	ENST00000395131	2/5	14	10	4	16	16	0	PFDN6,5_prime_UTR_variant,,ENST00000395131,;PFDN6,5_prime_UTR_variant,,ENST00000374607,;PFDN6,5_prime_UTR_variant,,ENST00000374610,;PFDN6,5_prime_UTR_variant,,ENST00000463584,;PFDN6,5_prime_UTR_variant,,ENST00000374606,;WDR46,upstream_gene_variant,,ENST00000444176,;WDR46,upstream_gene_variant,,ENST00000374617,;RGL2,downstream_gene_variant,,ENST00000444031,;RGL2,downstream_gene_variant,,ENST00000497454,;WDR46,upstream_gene_variant,,ENST00000477718,;RGL2,downstream_gene_variant,,ENST00000471319,;RGL2,downstream_gene_variant,,ENST00000437840,;RGL2,downstream_gene_variant,,ENST00000491168,;WDR46,upstream_gene_variant,,ENST00000468157,;B3GALT4,downstream_gene_variant,,ENST00000606990,;PFDN6,non_coding_transcript_exon_variant,,ENST00000395134,;PFDN6,non_coding_transcript_exon_variant,,ENST00000491382,;WDR46,upstream_gene_variant,,ENST00000481025,;WDR46,upstream_gene_variant,,ENST00000488944,;RGL2,downstream_gene_variant,,ENST00000476616,;WDR46,upstream_gene_variant,,ENST00000489905,;RGL2,downstream_gene_variant,,ENST00000483151,;	A	ENSG00000204220	ENST00000395131	Transcript	5_prime_UTR_variant	329	.	.	.	.	.	.	.	1	PFDN6	HGNC	4926	protein_coding	YES	CCDS4773.1	ENSP00000378563	PFD6_HUMAN	Q5STK2_HUMAN	UPI0000001CA9	.	.	.	2/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GATCAGAAAAG	.	4	BLCA
RGL2	0	.	GRCh37	6	33264465	33264465	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.329C>T	p.Ser110Leu	p.S110L	ENST00000497454	4/18	40	25	14	38	38	0	RGL2,missense_variant,p.Ser28Leu,ENST00000444031,;RGL2,missense_variant,p.Ser110Leu,ENST00000497454,;RGL2,missense_variant,p.Ser110Leu,ENST00000425946,;PFDN6,intron_variant,,ENST00000463584,;TAPBP,downstream_gene_variant,,ENST00000475304,;TAPBP,downstream_gene_variant,,ENST00000434618,;RGL2,non_coding_transcript_exon_variant,,ENST00000437840,;RGL2,non_coding_transcript_exon_variant,,ENST00000491168,;RGL2,non_coding_transcript_exon_variant,,ENST00000485077,;RGL2,upstream_gene_variant,,ENST00000471319,;RGL2,non_coding_transcript_exon_variant,,ENST00000478610,;RGL2,non_coding_transcript_exon_variant,,ENST00000460988,;RGL2,non_coding_transcript_exon_variant,,ENST00000494550,;RGL2,non_coding_transcript_exon_variant,,ENST00000483151,;RGL2,upstream_gene_variant,,ENST00000476616,;	A	ENSG00000237441	ENST00000497454	Transcript	missense_variant	825	329	110	S/L	tCa/tTa	.	.	.	-1	RGL2	HGNC	9769	protein_coding	YES	CCDS4774.1	ENSP00000420211	RGL2_HUMAN	Q9BSI0_HUMAN,Q54AJ0_HUMAN,A2AB89_HUMAN	UPI0000001621	.	tolerated(0.3)	benign(0.015)	4/18	.	PROSITE_profiles:PS50212,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF159,Gene3D:2ii0A01,Pfam_domain:PF00618,SMART_domains:SM00229,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTGATGTC	.	5	BLCA
TAPBP	0	.	GRCh37	6	33281091	33281091	+	Silent	SNP	C	C	T	rs749890322	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372G>A	p.%3D	p.L124L	ENST00000426633	3/7	37	26	11	39	39	0	TAPBP,synonymous_variant,p.%3D,ENST00000456592,;TAPBP,synonymous_variant,p.%3D,ENST00000467025,;TAPBP,synonymous_variant,p.%3D,ENST00000426633,;TAPBP,synonymous_variant,p.%3D,ENST00000475304,;TAPBP,synonymous_variant,p.%3D,ENST00000434618,;TAPBP,intron_variant,,ENST00000489157,;ZBTB22,downstream_gene_variant,,ENST00000431845,;ZBTB22,downstream_gene_variant,,ENST00000418724,;ZBTB22,downstream_gene_variant,,ENST00000441117,;TAPBP,non_coding_transcript_exon_variant,,ENST00000476333,;TAPBP,non_coding_transcript_exon_variant,,ENST00000437116,;TAPBP,non_coding_transcript_exon_variant,,ENST00000480730,;	T	ENSG00000231925	ENST00000426633	Transcript	synonymous_variant	543	372	124	L	ctG/ctA	rs749890322	.	.	-1	TAPBP	HGNC	11566	protein_coding	YES	CCDS34428.2	ENSP00000404833	.	.	UPI0000E5AD4C	.	.	.	3/7	.	hmmpanther:PTHR23411:SF5,hmmpanther:PTHR23411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCATCAGCCA	byFrequency	5	BLCA
GGNBP1	0	.	GRCh37	6	33561082	33561082	+	3'Flank	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000374458	.	26	15	10	30	30	0	GGNBP1,downstream_gene_variant,,ENST00000374458,;LINC00336,non_coding_transcript_exon_variant,,ENST00000477984,;	T	ENSG00000204188	ENST00000374458	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	4279	1	GGNBP1	HGNC	19427	protein_coding	YES	.	ENSP00000363582	GGNB1_HUMAN	.	UPI00004443EE	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGCGGAGC	.	5	BLCA
ITPR3	0	.	GRCh37	6	33636807	33636807	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2063C>T	p.Ser688Leu	p.S688L	ENST00000374316	19/59	41	27	14	49	49	0	ITPR3,missense_variant,p.Ser688Leu,ENST00000374316,;ITPR3,missense_variant,p.Ser688Leu,ENST00000605930,;	T	ENSG00000096433	ENST00000374316	Transcript	missense_variant	3123	2063	688	S/L	tCa/tTa	.	.	.	1	ITPR3	HGNC	6182	protein_coding	YES	CCDS4783.1	ENSP00000363435	ITPR3_HUMAN	A6H8K3_HUMAN	UPI000013CB74	.	tolerated(0.14)	benign(0.002)	19/59	.	hmmpanther:PTHR13715:SF51,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTCAGAAG	.	5	BLCA
UHRF1BP1	0	.	GRCh37	6	34803068	34803068	+	Intron	SNP	C	C	T	rs755182111	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.670-3C>T	.	.	ENST00000192788	.	58	43	14	98	98	0	UHRF1BP1,splice_region_variant,,ENST00000192788,;UHRF1BP1,splice_region_variant,,ENST00000452449,;	T	ENSG00000065060	ENST00000192788	Transcript	splice_region_variant	.	.	.	.	.	rs755182111	.	.	1	UHRF1BP1	HGNC	21216	protein_coding	YES	CCDS43455.1	ENSP00000192788	URFB1_HUMAN	.	UPI00001B654C	.	.	.	.	6/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCAGACC	byFrequency	4	BLCA
ANKS1A	0	.	GRCh37	6	35051918	35051918	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3015G>A	p.%3D	p.E1005E	ENST00000360359	21/24	44	31	13	51	51	0	ANKS1A,synonymous_variant,p.%3D,ENST00000360359,;ANKS1A,intron_variant,,ENST00000535627,;ANKS1A,downstream_gene_variant,,ENST00000470698,;	A	ENSG00000064999	ENST00000360359	Transcript	synonymous_variant	3153	3015	1005	E	gaG/gaA	.	.	.	1	ANKS1A	HGNC	20961	protein_coding	YES	CCDS4798.1	ENSP00000353518	ANS1A_HUMAN	.	UPI00001C1E4D	.	.	.	21/24	.	PROSITE_profiles:PS01179,hmmpanther:PTHR24174,Gene3D:2.30.29.30,Pfam_domain:PF00640,SMART_domains:SM00462,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGAGATCCG	.	5	BLCA
TULP1	0	.	GRCh37	6	35471570	35471570	+	Missense_Mutation	SNP	G	G	A	rs370698517	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1168C>T	p.Arg390Cys	p.R390C	ENST00000229771	12/15	17	10	6	8	8	0	TULP1,missense_variant,p.Arg390Cys,ENST00000229771,;TULP1,missense_variant,p.Arg337Cys,ENST00000322263,;TULP1,non_coding_transcript_exon_variant,,ENST00000496434,;TULP1,non_coding_transcript_exon_variant,,ENST00000495781,;TULP1,non_coding_transcript_exon_variant,,ENST00000373892,;	A	ENSG00000112041	ENST00000229771	Transcript	missense_variant	1248	1168	390	R/C	Cgt/Tgt	rs370698517	.	.	-1	TULP1	HGNC	12423	protein_coding	YES	CCDS4807.1	ENSP00000229771	TULP1_HUMAN	Q0QD38_HUMAN	UPI000045742A	.	deleterious(0)	probably_damaging(0.977)	12/15	.	hmmpanther:PTHR16517,hmmpanther:PTHR16517:SF12,Gene3D:3c5nA00,Pfam_domain:PF01167,Superfamily_domains:SSF54518,Prints_domain:PR01573	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCCACGCTGTG	.	3	BLCA
MAPK14	0	.	GRCh37	6	36040737	36040737	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393C>T	p.%3D	p.I131I	ENST00000229795	4/12	48	33	15	58	58	0	MAPK14,synonymous_variant,p.%3D,ENST00000229794,;MAPK14,synonymous_variant,p.%3D,ENST00000310795,;MAPK14,synonymous_variant,p.%3D,ENST00000468133,;MAPK14,synonymous_variant,p.%3D,ENST00000229795,;MAPK14,synonymous_variant,p.%3D,ENST00000472333,;MAPK14,synonymous_variant,p.%3D,ENST00000491957,;MAPK14,non_coding_transcript_exon_variant,,ENST00000496250,;MAPK14,intron_variant,,ENST00000474429,;MAPK14,upstream_gene_variant,,ENST00000490379,;	T	ENSG00000112062	ENST00000229795	Transcript	synonymous_variant	840	393	131	I	atC/atT	.	.	.	1	MAPK14	HGNC	6876	protein_coding	YES	CCDS4815.1	ENSP00000229795	MK14_HUMAN	L7RSM2_HUMAN,E7EX54_HUMAN	UPI000002AE13	.	.	.	4/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF110,PROSITE_patterns:PS01351,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATCTACCA	.	5	BLCA
SRSF3	0	.	GRCh37	6	36569567	36569567	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463C>T	p.Arg155Cys	p.R155C	ENST00000373715	5/6	90	61	28	113	113	0	SRSF3,missense_variant,p.Arg155Cys,ENST00000373715,;SRSF3,downstream_gene_variant,,ENST00000339436,;SRSF3,3_prime_UTR_variant,,ENST00000477442,;	T	ENSG00000112081	ENST00000373715	Transcript	missense_variant	579	463	155	R/C	Cgt/Tgt	COSM1754772	.	.	1	SRSF3	HGNC	10785	protein_coding	YES	CCDS4823.1	ENSP00000362820	SRSF3_HUMAN	B2R6F3_HUMAN	UPI0000004131	.	tolerated_low_confidence(0.12)	unknown(0)	5/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10548	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCTCGTAGG	.	5	BLCA
CPNE5	0	.	GRCh37	6	36766253	36766253	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306G>A	p.%3D	p.K102K	ENST00000244751	5/21	32	24	7	42	42	0	CPNE5,synonymous_variant,p.%3D,ENST00000244751,;	T	ENSG00000124772	ENST00000244751	Transcript	synonymous_variant	931	306	102	K	aaG/aaA	.	.	.	-1	CPNE5	HGNC	2318	protein_coding	YES	CCDS4825.1	ENSP00000244751	CPNE5_HUMAN	Q7Z6C8_HUMAN,Q658T3_HUMAN	UPI0000127C15	.	.	.	5/21	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Pfam_domain:PF00168,Gene3D:2.60.40.150,hmmpanther:PTHR10857,hmmpanther:PTHR10857:SF8,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCTTAGA	.	5	BLCA
PIM1	0	.	GRCh37	6	37140938	37140938	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.774G>A	p.%3D	p.R258R	ENST00000373509	5/6	39	25	14	55	55	0	PIM1,synonymous_variant,p.%3D,ENST00000373509,;PIM1,non_coding_transcript_exon_variant,,ENST00000479509,;PIM1,non_coding_transcript_exon_variant,,ENST00000468243,;	A	ENSG00000137193	ENST00000373509	Transcript	synonymous_variant	1147	774	258	R	agG/agA	.	.	.	1	PIM1	HGNC	8986	protein_coding	YES	CCDS4830.1	ENSP00000362608	PIM1_HUMAN	.	UPI0000001060	.	.	.	5/6	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22984,hmmpanther:PTHR22984:SF4,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGAGGGTCTC	.	5	BLCA
GLO1	0	.	GRCh37	6	38670780	38670780	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51C>T	p.%3D	p.L17L	ENST00000373365	1/6	19	16	3	22	22	0	GLO1,synonymous_variant,p.%3D,ENST00000373365,;	A	ENSG00000124767	ENST00000373365	Transcript	synonymous_variant	138	51	17	L	ctC/ctT	COSM3777630	.	.	-1	GLO1	HGNC	4323	protein_coding	YES	CCDS4837.1	ENSP00000362463	LGUL_HUMAN	.	UPI0000169DF9	.	.	.	1/6	.	hmmpanther:PTHR10374:SF2,hmmpanther:PTHR10374,Gene3D:3.10.180.10,Superfamily_domains:SSF54593	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAACTGAGGGC	.	3	BLCA
DNAH8	0	.	GRCh37	6	38957929	38957929	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12544C>T	p.His4182Tyr	p.H4182Y	ENST00000359357	86/91	158	112	46	177	177	0	DNAH8,missense_variant,p.His4182Tyr,ENST00000359357,;DNAH8,missense_variant,p.His4387Tyr,ENST00000327475,;DNAH8,missense_variant,p.His4146Tyr,ENST00000441566,;	T	ENSG00000124721	ENST00000359357	Transcript	missense_variant	12798	12544	4182	H/Y	Cac/Tac	.	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	probably_damaging(0.998)	86/91	.	Pfam_domain:PF03028,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCACCCT	.	5	BLCA
KCNK5	0	.	GRCh37	6	39159318	39159318	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.848C>T	p.Thr283Ile	p.T283I	ENST00000359534	5/5	87	66	20	125	125	0	KCNK5,missense_variant,p.Thr283Ile,ENST00000359534,;	A	ENSG00000164626	ENST00000359534	Transcript	missense_variant	1187	848	283	T/I	aCa/aTa	.	.	.	-1	KCNK5	HGNC	6280	protein_coding	YES	CCDS4841.1	ENSP00000352527	KCNK5_HUMAN	.	UPI000003AFB5	.	tolerated(0.36)	benign(0.013)	5/5	.	hmmpanther:PTHR11003,hmmpanther:PTHR11003:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTGTGCTC	.	5	BLCA
PRPF4B	0	.	GRCh37	6	4050045	4050045	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2106A>G	p.%3D	p.V702V	ENST00000337659	9/15	34	25	9	47	47	0	PRPF4B,synonymous_variant,p.%3D,ENST00000337659,;PRPF4B,synonymous_variant,p.%3D,ENST00000538861,;FAM217A,intron_variant,,ENST00000463904,;FAM217A,downstream_gene_variant,,ENST00000469157,;PRPF4B,upstream_gene_variant,,ENST00000466185,;PRPF4B,synonymous_variant,p.%3D,ENST00000480058,;PRPF4B,synonymous_variant,p.%3D,ENST00000481109,;PRPF4B,non_coding_transcript_exon_variant,,ENST00000463634,;	G	ENSG00000112739	ENST00000337659	Transcript	synonymous_variant	2206	2106	702	V	gtA/gtG	.	.	.	1	PRPF4B	HGNC	17346	protein_coding	YES	CCDS4488.1	ENSP00000337194	PRP4B_HUMAN	H0YDJ3_HUMAN,F5H2U2_HUMAN	UPI000013DD12	.	.	.	9/15	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24056:SF45,hmmpanther:PTHR24056,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTACGAGC	.	5	BLCA
CCND3	0	.	GRCh37	6	41908705	41908705	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199-382C>T	.	.	ENST00000372991	.	69	55	14	105	105	0	CCND3,synonymous_variant,p.%3D,ENST00000514588,;CCND3,synonymous_variant,p.%3D,ENST00000372987,;CCND3,intron_variant,,ENST00000508143,;CCND3,intron_variant,,ENST00000414200,;CCND3,intron_variant,,ENST00000415497,;CCND3,intron_variant,,ENST00000511642,;CCND3,intron_variant,,ENST00000372991,;CCND3,intron_variant,,ENST00000510503,;CCND3,intron_variant,,ENST00000512426,;CCND3,intron_variant,,ENST00000502771,;CCND3,intron_variant,,ENST00000372988,;CCND3,upstream_gene_variant,,ENST00000505064,;CCND3,intron_variant,,ENST00000511686,;CCND3,intron_variant,,ENST00000514382,;CCND3,intron_variant,,ENST00000513956,;CCND3,upstream_gene_variant,,ENST00000506555,;CCND3,intron_variant,,ENST00000510058,;CCND3,intron_variant,,ENST00000511161,;CCND3,intron_variant,,ENST00000505884,;CCND3,intron_variant,,ENST00000505672,;	A	ENSG00000112576	ENST00000372991	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	CCND3	HGNC	1585	protein_coding	YES	CCDS4863.1	ENSP00000362082	CCND3_HUMAN	D6RIX2_HUMAN,D6RDL3_HUMAN	UPI00001275C9	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGAGGAGGCT	.	5	BLCA
UBR2	0	.	GRCh37	6	42583760	42583760	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1114C>T	p.Gln372Ter	p.Q372*	ENST00000372899	10/47	93	68	25	121	121	0	UBR2,stop_gained,p.Gln372Ter,ENST00000372901,;UBR2,stop_gained,p.Gln372Ter,ENST00000372903,;UBR2,stop_gained,p.Gln372Ter,ENST00000372899,;UBR2,upstream_gene_variant,,ENST00000372883,;	T	ENSG00000024048	ENST00000372899	Transcript	stop_gained	1372	1114	372	Q/*	Cag/Tag	.	.	.	1	UBR2	HGNC	21289	protein_coding	YES	CCDS4870.1	ENSP00000361990	UBR2_HUMAN	B3KXG6_HUMAN	UPI0000074466	.	.	.	10/47	.	hmmpanther:PTHR21497,hmmpanther:PTHR21497:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCAGTTG	.	5	BLCA
UBR2	0	.	GRCh37	6	42612220	42612220	+	Nonsense_Mutation	SNP	C	C	T	rs751232457	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2230C>T	p.Gln744Ter	p.Q744*	ENST00000372899	20/47	72	52	19	93	93	0	UBR2,stop_gained,p.Gln744Ter,ENST00000372901,;UBR2,stop_gained,p.Gln248Ter,ENST00000372883,;UBR2,stop_gained,p.Gln744Ter,ENST00000372899,;	T	ENSG00000024048	ENST00000372899	Transcript	stop_gained	2488	2230	744	Q/*	Cag/Tag	rs751232457	.	.	1	UBR2	HGNC	21289	protein_coding	YES	CCDS4870.1	ENSP00000361990	UBR2_HUMAN	B3KXG6_HUMAN	UPI0000074466	.	.	.	20/47	.	hmmpanther:PTHR21497,hmmpanther:PTHR21497:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCAGCAG	.	5	BLCA
MEA1	0	.	GRCh37	6	42980059	42980059	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*149C>T	.	.	ENST00000244711	4/4	44	29	15	54	54	0	MEA1,3_prime_UTR_variant,,ENST00000244711,;PPP2R5D,3_prime_UTR_variant,,ENST00000485511,;PPP2R5D,3_prime_UTR_variant,,ENST00000394110,;PPP2R5D,3_prime_UTR_variant,,ENST00000470467,;PPP2R5D,3_prime_UTR_variant,,ENST00000472118,;PPP2R5D,downstream_gene_variant,,ENST00000461010,;PPP2R5D,downstream_gene_variant,,ENST00000486843,;KLHDC3,upstream_gene_variant,,ENST00000326974,;KLHDC3,upstream_gene_variant,,ENST00000332245,;KLHDC3,upstream_gene_variant,,ENST00000244670,;PPP2R5D,3_prime_UTR_variant,,ENST00000230402,;PPP2R5D,downstream_gene_variant,,ENST00000467447,;PPP2R5D,downstream_gene_variant,,ENST00000482315,;	A	ENSG00000124733	ENST00000244711	Transcript	3_prime_UTR_variant	862	.	.	.	.	.	.	.	-1	MEA1	HGNC	6986	protein_coding	YES	CCDS4879.1	ENSP00000244711	MEA1_HUMAN	.	UPI000007291B	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTGAATAA	.	5	BLCA
CUL7	0	.	GRCh37	6	43019370	43019370	+	Missense_Mutation	SNP	C	C	G	rs761278170	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.964G>C	p.Glu322Gln	p.E322Q	ENST00000535468	3/26	78	54	23	101	101	0	CUL7,missense_variant,p.Glu322Gln,ENST00000535468,;CUL7,missense_variant,p.Glu238Gln,ENST00000265348,;MRPL2,downstream_gene_variant,,ENST00000489623,;MRPL2,downstream_gene_variant,,ENST00000230413,;MRPL2,downstream_gene_variant,,ENST00000388752,;CUL7,upstream_gene_variant,,ENST00000478630,;KLC4,intron_variant,,ENST00000467906,;MRPL2,downstream_gene_variant,,ENST00000485654,;MRPL2,downstream_gene_variant,,ENST00000470667,;MRPL2,downstream_gene_variant,,ENST00000480286,;MRPL2,downstream_gene_variant,,ENST00000491898,;	G	ENSG00000044090	ENST00000535468	Transcript	missense_variant	1051	964	322	E/Q	Gag/Cag	rs761278170	.	.	-1	CUL7	HGNC	21024	protein_coding	YES	CCDS55003.1	ENSP00000438788	CUL7_HUMAN	.	UPI0001BE8116	.	deleterious(0)	probably_damaging(1)	3/26	.	hmmpanther:PTHR22771:SF3,hmmpanther:PTHR22771	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGAAAG	byFrequency	5	BLCA
PTK7	0	.	GRCh37	6	43109479	43109479	+	Silent	SNP	C	C	T	rs140089339	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1716C>T	p.%3D	p.D572D	ENST00000481273	11/20	107	75	32	115	115	0	PTK7,synonymous_variant,p.%3D,ENST00000349241,;PTK7,synonymous_variant,p.%3D,ENST00000352931,;PTK7,synonymous_variant,p.%3D,ENST00000481273,;PTK7,synonymous_variant,p.%3D,ENST00000230419,;PTK7,synonymous_variant,p.%3D,ENST00000345201,;PTK7,intron_variant,,ENST00000489707,;PTK7,upstream_gene_variant,,ENST00000473339,;PTK7,downstream_gene_variant,,ENST00000481946,;PTK7,synonymous_variant,p.%3D,ENST00000230418,;PTK7,3_prime_UTR_variant,,ENST00000470019,;PTK7,non_coding_transcript_exon_variant,,ENST00000487673,;PTK7,non_coding_transcript_exon_variant,,ENST00000470471,;PTK7,upstream_gene_variant,,ENST00000497957,;PTK7,upstream_gene_variant,,ENST00000461389,;PTK7,upstream_gene_variant,,ENST00000494146,;PTK7,upstream_gene_variant,,ENST00000461100,;PTK7,upstream_gene_variant,,ENST00000493339,;	T	ENSG00000112655	ENST00000481273	Transcript	synonymous_variant	1786	1716	572	D	gaC/gaT	rs140089339	.	.	1	PTK7	HGNC	9618	protein_coding	YES	CCDS59021.1	ENSP00000418754	PTK7_HUMAN	.	UPI0001B79423	.	.	.	11/20	.	PROSITE_profiles:PS50835,hmmpanther:PTHR26391,hmmpanther:PTHR26391:SF14,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATGACGCTGG	byCluster	5	BLCA
PTK7	0	.	GRCh37	6	43113017	43113017	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2511G>A	p.%3D	p.V837V	ENST00000481273	16/20	33	22	11	67	67	0	PTK7,synonymous_variant,p.%3D,ENST00000349241,;PTK7,synonymous_variant,p.%3D,ENST00000352931,;PTK7,synonymous_variant,p.%3D,ENST00000481273,;PTK7,synonymous_variant,p.%3D,ENST00000230419,;PTK7,synonymous_variant,p.%3D,ENST00000473339,;PTK7,synonymous_variant,p.%3D,ENST00000345201,;PTK7,synonymous_variant,p.%3D,ENST00000489707,;PTK7,3_prime_UTR_variant,,ENST00000497957,;PTK7,3_prime_UTR_variant,,ENST00000470019,;PTK7,non_coding_transcript_exon_variant,,ENST00000487673,;PTK7,non_coding_transcript_exon_variant,,ENST00000493339,;PTK7,intron_variant,,ENST00000461389,;PTK7,intron_variant,,ENST00000230418,;PTK7,downstream_gene_variant,,ENST00000470471,;PTK7,downstream_gene_variant,,ENST00000494146,;PTK7,downstream_gene_variant,,ENST00000461100,;	A	ENSG00000112655	ENST00000481273	Transcript	synonymous_variant	2581	2511	837	V	gtG/gtA	.	.	.	1	PTK7	HGNC	9618	protein_coding	YES	CCDS59021.1	ENSP00000418754	PTK7_HUMAN	.	UPI0001B79423	.	.	.	16/20	.	PROSITE_profiles:PS50011,hmmpanther:PTHR26391,hmmpanther:PTHR26391:SF14,Gene3D:3.30.200.20,Pfam_domain:PF07714,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTGAAGAG	.	5	BLCA
SRF	0	.	GRCh37	6	43143661	43143661	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.998C>T	p.Ser333Phe	p.S333F	ENST00000265354	3/7	34	19	14	42	42	0	SRF,missense_variant,p.Ser129Phe,ENST00000457278,;SRF,missense_variant,p.Ser333Phe,ENST00000265354,;	T	ENSG00000112658	ENST00000265354	Transcript	missense_variant	1356	998	333	S/F	tCt/tTt	.	.	.	1	SRF	HGNC	11291	protein_coding	YES	CCDS4889.1	ENSP00000265354	SRF_HUMAN	F5H6V4_HUMAN	UPI0000135F3B	.	deleterious(0.01)	possibly_damaging(0.485)	3/7	.	hmmpanther:PTHR11945,hmmpanther:PTHR11945:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCTGGGG	.	5	BLCA
CUL9	0	.	GRCh37	6	43172095	43172095	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4160-3C>T	.	.	ENST00000252050	.	58	36	22	85	85	0	CUL9,splice_region_variant,,ENST00000354495,;CUL9,splice_region_variant,,ENST00000372647,;CUL9,splice_region_variant,,ENST00000252050,;CUL9,upstream_gene_variant,,ENST00000502937,;CUL9,splice_region_variant,,ENST00000515773,;CUL9,non_coding_transcript_exon_variant,,ENST00000512408,;CUL9,downstream_gene_variant,,ENST00000515344,;CUL9,upstream_gene_variant,,ENST00000504485,;CUL9,upstream_gene_variant,,ENST00000505172,;CUL9,upstream_gene_variant,,ENST00000502719,;	T	ENSG00000112659	ENST00000252050	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	CUL9	HGNC	15982	protein_coding	YES	CCDS4890.1	ENSP00000252050	CUL9_HUMAN	.	UPI000006F22F	.	.	.	.	20/40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCAGATG	.	4	BLCA
ZNF318	0	.	GRCh37	6	43305090	43305090	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6646T>C	p.Ser2216Pro	p.S2216P	ENST00000361428	10/10	37	27	10	56	56	0	ZNF318,missense_variant,p.Ser2216Pro,ENST00000361428,;ZNF318,intron_variant,,ENST00000606599,;ZNF318,intron_variant,,ENST00000318149,;ZNF318,intron_variant,,ENST00000605935,;	G	ENSG00000171467	ENST00000361428	Transcript	missense_variant	6724	6646	2216	S/P	Tcc/Ccc	.	.	.	-1	ZNF318	HGNC	13578	protein_coding	YES	CCDS4895.2	ENSP00000354964	ZN318_HUMAN	.	UPI000049E044	.	.	possibly_damaging(0.897)	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGGATGCAT	.	5	BLCA
ZNF318	0	.	GRCh37	6	43323460	43323460	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1612C>G	p.Leu538Val	p.L538V	ENST00000361428	4/10	407	280	127	478	477	1	ZNF318,missense_variant,p.Leu538Val,ENST00000361428,;ZNF318,missense_variant,p.Leu538Val,ENST00000318149,;ZNF318,missense_variant,p.Leu538Val,ENST00000605935,;	C	ENSG00000171467	ENST00000361428	Transcript	missense_variant	1690	1612	538	L/V	Ctc/Gtc	COSM3874304,COSM3874305	.	.	-1	ZNF318	HGNC	13578	protein_coding	YES	CCDS4895.2	ENSP00000354964	ZN318_HUMAN	.	UPI000049E044	.	.	probably_damaging(0.999)	4/10	.	hmmpanther:PTHR15577:SF2,hmmpanther:PTHR15577	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGAGAAATT	.	5	BLCA
LRRC73	0	.	GRCh37	6	43477475	43477475	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49G>A	p.Glu17Lys	p.E17K	ENST00000372441	1/6	8	5	3	12	12	0	LRRC73,missense_variant,p.Glu17Lys,ENST00000372441,;POLR1C,5_prime_UTR_variant,,ENST00000428025,;TJAP1,downstream_gene_variant,,ENST00000372449,;TJAP1,downstream_gene_variant,,ENST00000438588,;TJAP1,downstream_gene_variant,,ENST00000372445,;YIPF3,downstream_gene_variant,,ENST00000506469,;YIPF3,downstream_gene_variant,,ENST00000503972,;TJAP1,downstream_gene_variant,,ENST00000259751,;TJAP1,downstream_gene_variant,,ENST00000436109,;YIPF3,downstream_gene_variant,,ENST00000372422,;YIPF3,downstream_gene_variant,,ENST00000500090,;TJAP1,downstream_gene_variant,,ENST00000372444,;TJAP1,downstream_gene_variant,,ENST00000372452,;TJAP1,downstream_gene_variant,,ENST00000454762,;YIPF3,downstream_gene_variant,,ENST00000511831,;TJAP1,downstream_gene_variant,,ENST00000483640,;YIPF3,downstream_gene_variant,,ENST00000488966,;YIPF3,downstream_gene_variant,,ENST00000503147,;YIPF3,downstream_gene_variant,,ENST00000502714,;YIPF3,downstream_gene_variant,,ENST00000512713,;YIPF3,downstream_gene_variant,,ENST00000490447,;YIPF3,downstream_gene_variant,,ENST00000510102,;YIPF3,downstream_gene_variant,,ENST00000455768,;YIPF3,downstream_gene_variant,,ENST00000514627,;YIPF3,downstream_gene_variant,,ENST00000372417,;YIPF3,downstream_gene_variant,,ENST00000416380,;YIPF3,downstream_gene_variant,,ENST00000460547,;	T	ENSG00000204052	ENST00000372441	Transcript	missense_variant	950	49	17	E/K	Gag/Aag	.	.	.	-1	LRRC73	HGNC	21375	protein_coding	YES	CCDS34456.1	ENSP00000361518	LRC73_HUMAN	B3KX61_HUMAN	UPI000015FBAC	.	deleterious(0.01)	probably_damaging(0.913)	1/6	.	Superfamily_domains:SSF52047,Gene3D:3.80.10.10,hmmpanther:PTHR25480:SF182,hmmpanther:PTHR25480	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTCGGCGC	.	2	BLCA
XPO5	0	.	GRCh37	6	43492599	43492599	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3282C>T	p.%3D	p.V1094V	ENST00000265351	30/32	42	28	14	54	54	0	XPO5,synonymous_variant,p.%3D,ENST00000265351,;XPO5,synonymous_variant,p.%3D,ENST00000455285,;POLR1C,intron_variant,,ENST00000304004,;POLR1C,downstream_gene_variant,,ENST00000423780,;POLR1C,downstream_gene_variant,,ENST00000372389,;POLR1C,downstream_gene_variant,,ENST00000372344,;POLR1C,downstream_gene_variant,,ENST00000428025,;XPO5,3_prime_UTR_variant,,ENST00000486936,;XPO5,non_coding_transcript_exon_variant,,ENST00000488195,;XPO5,non_coding_transcript_exon_variant,,ENST00000455854,;XPO5,downstream_gene_variant,,ENST00000398835,;POLR1C,downstream_gene_variant,,ENST00000455605,;XPO5,downstream_gene_variant,,ENST00000450462,;POLR1C,downstream_gene_variant,,ENST00000488601,;POLR1C,downstream_gene_variant,,ENST00000481352,;	A	ENSG00000124571	ENST00000265351	Transcript	synonymous_variant	3493	3282	1094	V	gtC/gtT	.	.	.	-1	XPO5	HGNC	17675	protein_coding	YES	CCDS47430.1	ENSP00000265351	XPO5_HUMAN	E2QRM3_HUMAN	UPI000006CC97	.	.	.	30/32	.	hmmpanther:PTHR11223,hmmpanther:PTHR11223:SF3,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATGGACCAG	.	5	BLCA
XPO5	0	.	GRCh37	6	43543613	43543613	+	5'UTR	SNP	C	C	T	rs373023684	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-12G>A	.	.	ENST00000265351	1/32	80	51	29	102	102	0	XPO5,5_prime_UTR_variant,,ENST00000265351,;POLH,upstream_gene_variant,,ENST00000372226,;POLH,upstream_gene_variant,,ENST00000443535,;POLH,upstream_gene_variant,,ENST00000535400,;POLH,upstream_gene_variant,,ENST00000372236,;XPO5,5_prime_UTR_variant,,ENST00000398799,;	T	ENSG00000124571	ENST00000265351	Transcript	5_prime_UTR_variant	200	.	.	.	.	rs373023684	.	.	-1	XPO5	HGNC	17675	protein_coding	YES	CCDS47430.1	ENSP00000265351	XPO5_HUMAN	E2QRM3_HUMAN	UPI000006CC97	.	.	.	1/32	.	.	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCACGCGCC	.	5	BLCA
AARS2	0	.	GRCh37	6	44272540	44272540	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1594G>A	p.Glu532Lys	p.E532K	ENST00000244571	12/22	16	13	3	36	36	0	AARS2,missense_variant,p.Glu532Lys,ENST00000244571,;TMEM151B,intron_variant,,ENST00000438774,;AARS2,upstream_gene_variant,,ENST00000491573,;RP11-444E17.6,intron_variant,,ENST00000505802,;	T	ENSG00000124608	ENST00000244571	Transcript	missense_variant	1597	1594	532	E/K	Gag/Aag	.	.	.	-1	AARS2	HGNC	21022	protein_coding	YES	CCDS34464.1	ENSP00000244571	SYAM_HUMAN	.	UPI00001C1E5A	.	tolerated(0.59)	benign(0.381)	12/22	.	PROSITE_profiles:PS50860,HAMAP:MF_00036_B,hmmpanther:PTHR11777:SF8,hmmpanther:PTHR11777,Pfam_domain:PF01411,TIGRFAM_domain:TIGR00344	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCACAGG	.	2	BLCA
AARS2	0	.	GRCh37	6	44275071	44275071	+	Missense_Mutation	SNP	T	T	C	rs754158568	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.955A>G	p.Thr319Ala	p.T319A	ENST00000244571	6/22	12	7	5	8	8	0	AARS2,missense_variant,p.Thr319Ala,ENST00000244571,;TMEM151B,3_prime_UTR_variant,,ENST00000438774,;RP11-444E17.6,3_prime_UTR_variant,,ENST00000505802,;	C	ENSG00000124608	ENST00000244571	Transcript	missense_variant	958	955	319	T/A	Aca/Gca	rs754158568	.	.	-1	AARS2	HGNC	21022	protein_coding	YES	CCDS34464.1	ENSP00000244571	SYAM_HUMAN	.	UPI00001C1E5A	.	deleterious(0.01)	benign(0.122)	6/22	.	PROSITE_profiles:PS50860,HAMAP:MF_00036_B,hmmpanther:PTHR11777:SF8,hmmpanther:PTHR11777,Pfam_domain:PF01411,TIGRFAM_domain:TIGR00344,Superfamily_domains:0049182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R322R|c.966C>T|3	MUTECT|MUSE	CGCTGTGTCTG	.	2	BLCA
ENPP4	0	.	GRCh37	6	46108093	46108093	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.773C>T	p.Ser258Leu	p.S258L	ENST00000321037	2/4	50	39	10	60	60	0	ENPP4,missense_variant,p.Ser258Leu,ENST00000321037,;	T	ENSG00000001561	ENST00000321037	Transcript	missense_variant	1003	773	258	S/L	tCa/tTa	.	.	.	1	ENPP4	HGNC	3359	protein_coding	YES	CCDS34468.1	ENSP00000318066	ENPP4_HUMAN	.	UPI0000048E43	.	deleterious(0.01)	benign(0.043)	2/4	.	hmmpanther:PTHR10151,hmmpanther:PTHR10151:SF16,Gene3D:3.40.720.10,Pfam_domain:PF01663,Superfamily_domains:SSF53649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCATACT	.	5	BLCA
GPR110	0	.	GRCh37	6	46982501	46982501	+	Silent	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.843A>T	p.%3D	p.G281G	ENST00000371253	9/15	45	35	9	56	56	0	GPR110,synonymous_variant,p.%3D,ENST00000283297,;GPR110,synonymous_variant,p.%3D,ENST00000371253,;GPR110,non_coding_transcript_exon_variant,,ENST00000449332,;GPR110,3_prime_UTR_variant,,ENST00000475745,;GPR110,non_coding_transcript_exon_variant,,ENST00000419892,;GPR110,non_coding_transcript_exon_variant,,ENST00000471487,;GPR110,downstream_gene_variant,,ENST00000487323,;GPR110,downstream_gene_variant,,ENST00000493249,;	A	ENSG00000153292	ENST00000371253	Transcript	synonymous_variant	1059	843	281	G	ggA/ggT	.	.	.	-1	GPR110	HGNC	18990	protein_coding	YES	CCDS34471.1	ENSP00000360299	GP110_HUMAN	.	UPI00000474ED	.	.	.	9/15	.	hmmpanther:PTHR12011:SF227,hmmpanther:PTHR12011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTTTCCCCT	.	5	BLCA
TNFRSF21	0	.	GRCh37	6	47200620	47200620	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1849G>A	p.Glu617Lys	p.E617K	ENST00000296861	6/6	97	63	34	142	142	0	TNFRSF21,missense_variant,p.Glu617Lys,ENST00000296861,;	T	ENSG00000146072	ENST00000296861	Transcript	missense_variant	2243	1849	617	E/K	Gag/Aag	.	.	.	-1	TNFRSF21	HGNC	13469	protein_coding	YES	CCDS4921.1	ENSP00000296861	TNR21_HUMAN	.	UPI000004680F	.	deleterious(0.04)	benign(0.287)	6/6	.	hmmpanther:PTHR23097:SF99,hmmpanther:PTHR23097,Gene3D:1.10.533.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCTTCAA	.	5	BLCA
RHAG	0	.	GRCh37	6	49574860	49574860	+	Intron	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1138+3C>T	.	.	ENST00000371175	.	25	19	6	23	23	0	RHAG,splice_region_variant,,ENST00000229810,;RHAG,splice_region_variant,,ENST00000371175,;	A	ENSG00000112077	ENST00000371175	Transcript	splice_region_variant	.	.	.	.	.	COSM32501	.	.	-1	RHAG	HGNC	10006	protein_coding	YES	CCDS4927.1	ENSP00000360217	RHAG_HUMAN	Q9UL98_HUMAN,Q9UK69_HUMAN,Q9UHG8_HUMAN,Q9UBB8_HUMAN	UPI000006D18F	.	.	.	.	8/9	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTGACCTG	.	4	BLCA
PKHD1	0	.	GRCh37	6	51889478	51889478	+	Silent	SNP	C	C	A	rs769591140	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5130G>T	p.%3D	p.P1710P	ENST00000371117	32/67	59	41	18	56	56	0	PKHD1,synonymous_variant,p.%3D,ENST00000340994,;PKHD1,synonymous_variant,p.%3D,ENST00000371117,;	A	ENSG00000170927	ENST00000371117	Transcript	synonymous_variant	5406	5130	1710	P	ccG/ccT	rs769591140	.	.	-1	PKHD1	HGNC	9016	protein_coding	YES	CCDS4935.1	ENSP00000360158	PKHD1_HUMAN	.	UPI000013C4C0	.	.	.	32/67	.	hmmpanther:PTHR11915:SF230,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGCCGGAAG	byFrequency	5	BLCA
KLHL31	0	.	GRCh37	6	53516997	53516997	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1304C>T	p.Ser435Leu	p.S435L	ENST00000370905	3/3	40	32	7	65	65	0	KLHL31,missense_variant,p.Ser435Leu,ENST00000407079,;KLHL31,missense_variant,p.Ser435Leu,ENST00000370905,;	A	ENSG00000124743	ENST00000370905	Transcript	missense_variant	1445	1304	435	S/L	tCg/tTg	.	.	.	-1	KLHL31	HGNC	21353	protein_coding	YES	CCDS34478.1	ENSP00000359942	KLH31_HUMAN	.	UPI000006D624	.	deleterious(0)	possibly_damaging(0.852)	3/3	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF58,Pfam_domain:PF01344,Gene3D:1k3iA02,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCAGCGAGGCC	.	3	BLCA
TINAG	0	.	GRCh37	6	54216183	54216183	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1114G>T	p.Gly372Ter	p.G372*	ENST00000259782	8/11	38	35	3	54	54	0	TINAG,stop_gained,p.Gly372Ter,ENST00000259782,;	T	ENSG00000137251	ENST00000259782	Transcript	stop_gained	1210	1114	372	G/*	Gga/Tga	.	.	.	1	TINAG	HGNC	14599	protein_coding	YES	CCDS4955.1	ENSP00000259782	TINAG_HUMAN	B1AQ11_HUMAN	UPI000013D078	.	.	.	8/11	.	Superfamily_domains:SSF54001,SMART_domains:SM00645,Gene3D:3.90.70.10,Pfam_domain:PF00112,hmmpanther:PTHR12411:SF274,hmmpanther:PTHR12411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAATGGACCA	.	2	BLCA
FAM83B	0	.	GRCh37	6	54805684	54805684	+	Missense_Mutation	SNP	T	T	C	rs751730940	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1915T>C	p.Tyr639His	p.Y639H	ENST00000306858	5/5	66	34	32	63	63	0	FAM83B,missense_variant,p.Tyr639His,ENST00000306858,;RP3-523K23.2,upstream_gene_variant,,ENST00000562834,;	C	ENSG00000168143	ENST00000306858	Transcript	missense_variant	2031	1915	639	Y/H	Tat/Cat	rs751730940	.	.	1	FAM83B	HGNC	21357	protein_coding	YES	CCDS34479.1	ENSP00000304078	FA83B_HUMAN	.	UPI00001D81EC	.	tolerated(0.07)	benign(0.02)	5/5	.	hmmpanther:PTHR16181,hmmpanther:PTHR16181:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATATATAAA	byFrequency	5	BLCA
DST	0	.	GRCh37	6	56394438	56394438	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9534G>A	p.Trp3178Ter	p.W3178*	ENST00000244364	47/84	66	48	17	79	79	0	DST,stop_gained,p.Trp5266Ter,ENST00000446842,;DST,stop_gained,p.Trp3178Ter,ENST00000244364,;DST,stop_gained,p.Trp5770Ter,ENST00000370754,;DST,stop_gained,p.Trp5592Ter,ENST00000370769,;DST,stop_gained,p.Trp3504Ter,ENST00000421834,;DST,3_prime_UTR_variant,,ENST00000312431,;DST,intron_variant,,ENST00000370788,;DST,intron_variant,,ENST00000361203,;DST,non_coding_transcript_exon_variant,,ENST00000340834,;	T	ENSG00000151914	ENST00000244364	Transcript	stop_gained	9742	9534	3178	W/*	tgG/tgA	.	.	.	-1	DST	HGNC	1090	protein_coding	YES	CCDS47443.1	ENSP00000244364	DYST_HUMAN	Q86T18_HUMAN	UPI00001C1577	.	.	.	47/84	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF38,Pfam_domain:PF00435,Gene3D:1.20.58.60,SMART_domains:SM00150,Superfamily_domains:SSF46966,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGTACCATAC	.	5	BLCA
PHF3	0	.	GRCh37	6	64356481	64356481	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.25C>T	p.His9Tyr	p.H9Y	ENST00000262043	2/16	64	44	19	82	82	0	PHF3,missense_variant,p.His9Tyr,ENST00000393387,;PHF3,missense_variant,p.His9Tyr,ENST00000509330,;PHF3,missense_variant,p.His9Tyr,ENST00000262043,;PHF3,intron_variant,,ENST00000506783,;PHF3,intron_variant,,ENST00000481385,;PHF3,intron_variant,,ENST00000515594,;PHF3,intron_variant,,ENST00000494284,;PHF3,missense_variant,p.His9Tyr,ENST00000509876,;	T	ENSG00000118482	ENST00000262043	Transcript	missense_variant	365	25	9	H/Y	Cat/Tat	.	.	.	1	PHF3	HGNC	8921	protein_coding	YES	CCDS4966.1	ENSP00000262043	PHF3_HUMAN	E9PE34_HUMAN,E7EVH3_HUMAN,E7ER40_HUMAN,B3KP41_HUMAN	UPI000007154D	.	deleterious(0.03)	benign(0.302)	2/16	.	hmmpanther:PTHR14914:SF6,hmmpanther:PTHR14914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAATCATTTA	.	5	BLCA
PHF3	0	.	GRCh37	6	64356568	64356568	+	Nonsense_Mutation	SNP	C	C	T	rs763574940	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.112C>T	p.Gln38Ter	p.Q38*	ENST00000262043	2/16	74	51	22	103	103	0	PHF3,stop_gained,p.Gln38Ter,ENST00000393387,;PHF3,stop_gained,p.Gln38Ter,ENST00000509330,;PHF3,stop_gained,p.Gln38Ter,ENST00000262043,;PHF3,5_prime_UTR_variant,,ENST00000494284,;PHF3,intron_variant,,ENST00000506783,;PHF3,intron_variant,,ENST00000481385,;PHF3,intron_variant,,ENST00000515594,;PHF3,stop_gained,p.Gln38Ter,ENST00000509876,;	T	ENSG00000118482	ENST00000262043	Transcript	stop_gained	452	112	38	Q/*	Caa/Taa	rs763574940	.	.	1	PHF3	HGNC	8921	protein_coding	YES	CCDS4966.1	ENSP00000262043	PHF3_HUMAN	E9PE34_HUMAN,E7EVH3_HUMAN,E7ER40_HUMAN,B3KP41_HUMAN	UPI000007154D	.	.	.	2/16	.	hmmpanther:PTHR14914:SF6,hmmpanther:PTHR14914	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAGTCAAAAT	.	5	BLCA
SMAP1	0	.	GRCh37	6	71567786	71567786	+	Missense_Mutation	SNP	G	G	A	rs774333125	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1123G>A	p.Gly375Arg	p.G375R	ENST00000370455	10/11	58	35	23	92	92	0	SMAP1,missense_variant,p.Gly375Arg,ENST00000370455,;SMAP1,missense_variant,p.Gly348Arg,ENST00000316999,;SMAP1,missense_variant,p.Gly348Arg,ENST00000370452,;B3GAT2,3_prime_UTR_variant,,ENST00000230053,;	A	ENSG00000112305	ENST00000370455	Transcript	missense_variant	1371	1123	375	G/R	Ggg/Agg	rs774333125	.	.	1	SMAP1	HGNC	19651	protein_coding	YES	CCDS43478.1	ENSP00000359484	SMAP1_HUMAN	.	UPI00000727D6	.	deleterious(0)	probably_damaging(1)	10/11	.	hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF214	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAATGGGTTT	.	5	BLCA
KCNQ5	0	.	GRCh37	6	73787053	73787053	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.625G>T	p.Val209Phe	p.V209F	ENST00000342056	4/15	77	54	23	111	111	0	KCNQ5,missense_variant,p.Val209Phe,ENST00000370392,;KCNQ5,missense_variant,p.Val209Phe,ENST00000402622,;KCNQ5,missense_variant,p.Val209Phe,ENST00000370398,;KCNQ5,missense_variant,p.Val209Phe,ENST00000414165,;KCNQ5,missense_variant,p.Val209Phe,ENST00000403813,;KCNQ5,missense_variant,p.Val209Phe,ENST00000342056,;KCNQ5,missense_variant,p.Val209Phe,ENST00000355194,;KCNQ5,missense_variant,p.Val209Phe,ENST00000355635,;	T	ENSG00000185760	ENST00000342056	Transcript	missense_variant	1023	625	209	V/F	Gtt/Ttt	.	.	.	1	KCNQ5	HGNC	6299	protein_coding	YES	CCDS55034.1	ENSP00000345055	.	A6PVT6_HUMAN	UPI000155D644	.	deleterious(0)	probably_damaging(0.999)	4/15	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF128,Gene3D:1.10.287.70,Pfam_domain:PF00520,Superfamily_domains:SSF81324,Prints_domain:PR01459	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATTGTTCTT	.	5	BLCA
KCNQ5	0	.	GRCh37	6	73900375	73900375	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1714T>C	p.Tyr572His	p.Y572H	ENST00000342056	13/15	53	32	20	69	69	0	KCNQ5,missense_variant,p.Tyr572His,ENST00000342056,;KCNQ5,missense_variant,p.Tyr563His,ENST00000402622,;KCNQ5,missense_variant,p.Tyr553His,ENST00000355194,;KCNQ5,missense_variant,p.Tyr553His,ENST00000370398,;KCNQ5,missense_variant,p.Tyr443His,ENST00000414165,;KCNQ5,missense_variant,p.Tyr554His,ENST00000355635,;KCNQ5,missense_variant,p.Tyr544His,ENST00000403813,;	C	ENSG00000185760	ENST00000342056	Transcript	missense_variant	2112	1714	572	Y/H	Tat/Cat	.	.	.	1	KCNQ5	HGNC	6299	protein_coding	YES	CCDS55034.1	ENSP00000345055	.	A6PVT6_HUMAN	UPI000155D644	.	deleterious(0)	probably_damaging(1)	13/15	.	Pfam_domain:PF03520	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAATATTCT	.	5	BLCA
KCNQ5	0	.	GRCh37	6	73902338	73902338	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1817G>A	p.Arg606Gln	p.R606Q	ENST00000342056	14/15	59	39	20	65	65	0	KCNQ5,missense_variant,p.Arg606Gln,ENST00000342056,;KCNQ5,missense_variant,p.Arg597Gln,ENST00000402622,;KCNQ5,missense_variant,p.Arg587Gln,ENST00000355194,;KCNQ5,missense_variant,p.Arg587Gln,ENST00000370398,;KCNQ5,missense_variant,p.Arg477Gln,ENST00000414165,;KCNQ5,missense_variant,p.Arg588Gln,ENST00000355635,;KCNQ5,missense_variant,p.Arg578Gln,ENST00000403813,;	A	ENSG00000185760	ENST00000342056	Transcript	missense_variant	2215	1817	606	R/Q	cGa/cAa	.	.	.	1	KCNQ5	HGNC	6299	protein_coding	YES	CCDS55034.1	ENSP00000345055	.	A6PVT6_HUMAN	UPI000155D644	.	deleterious(0)	probably_damaging(0.995)	14/15	.	Pfam_domain:PF03520	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCGAGAGA	.	5	BLCA
EEF1A1	0	.	GRCh37	6	74229113	74229113	+	Missense_Mutation	SNP	C	C	T	rs11550816	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>A	p.Asp91Asn	p.D91N	ENST00000316292	2/7	122	71	51	163	163	0	EEF1A1,missense_variant,p.Asp91Asn,ENST00000356303,;EEF1A1,missense_variant,p.Asp91Asn,ENST00000455918,;EEF1A1,missense_variant,p.Asp91Asn,ENST00000309268,;EEF1A1,missense_variant,p.Asp91Asn,ENST00000316292,;EEF1A1,missense_variant,p.Asp91Asn,ENST00000331523,;RP11-505P4.7,upstream_gene_variant,,ENST00000431108,;RP11-505P4.7,upstream_gene_variant,,ENST00000429386,;EEF1A1,non_coding_transcript_exon_variant,,ENST00000491404,;EEF1A1,non_coding_transcript_exon_variant,,ENST00000495333,;EEF1A1,non_coding_transcript_exon_variant,,ENST00000488500,;EEF1A1,non_coding_transcript_exon_variant,,ENST00000490569,;	T	ENSG00000156508	ENST00000316292	Transcript	missense_variant	1263	271	91	D/N	Gat/Aat	rs11550816,COSM1445856	.	.	-1	EEF1A1	HGNC	3189	protein_coding	YES	CCDS4980.1	ENSP00000339063	EF1A1_HUMAN	Q96EB3_HUMAN,Q96C29_HUMAN,Q8IUB0_HUMAN,Q6P4C9_HUMAN,Q6IQ15_HUMAN,Q6IPS9_HUMAN,Q5JR01_HUMAN,Q504Z0_HUMAN,Q2F837_HUMAN,A6PW80_HUMAN	UPI00000012CA	.	deleterious_low_confidence(0.02)	possibly_damaging(0.847)	2/7	.	Prints_domain:PR00315,Superfamily_domains:SSF52540,TIGRFAM_domain:TIGR00483,Gene3D:3.40.50.300,Pfam_domain:PF00009,hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF104,HAMAP:MF_00118_A	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.D91N|c.271G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCAATGA	suspect	5	BLCA
IBTK	0	.	GRCh37	6	82936946	82936946	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.617G>A	p.Gly206Glu	p.G206E	ENST00000306270	5/29	64	38	25	80	80	0	IBTK,missense_variant,p.Gly206Glu,ENST00000510291,;IBTK,missense_variant,p.Gly206Glu,ENST00000503631,;IBTK,missense_variant,p.Gly206Glu,ENST00000306270,;IBTK,missense_variant,p.Gly206Glu,ENST00000503400,;IBTK,non_coding_transcript_exon_variant,,ENST00000505222,;IBTK,non_coding_transcript_exon_variant,,ENST00000369751,;	T	ENSG00000005700	ENST00000306270	Transcript	missense_variant	1167	617	206	G/E	gGa/gAa	.	.	.	-1	IBTK	HGNC	17853	protein_coding	YES	CCDS34490.1	ENSP00000305721	IBTK_HUMAN	.	UPI000041929F	.	deleterious(0)	probably_damaging(0.983)	5/29	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50012,hmmpanther:PTHR22872,hmmpanther:PTHR22872:SF2,Pfam_domain:PF00415,Gene3D:2.130.10.30,Superfamily_domains:SSF50985	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCCAGGA	.	5	BLCA
UBE3D	0	.	GRCh37	6	83767592	83767592	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227G>A	p.Gly76Glu	p.G76E	ENST00000369747	2/10	29	23	6	46	46	0	UBE3D,missense_variant,p.Gly76Glu,ENST00000369747,;UBE3D,missense_variant,p.Gly76Glu,ENST00000430071,;UBE3D,missense_variant,p.Gly76Glu,ENST00000509102,;UBE3D,missense_variant,p.Gly33Glu,ENST00000369746,;UBE3D,3_prime_UTR_variant,,ENST00000505226,;UBE3D,3_prime_UTR_variant,,ENST00000237186,;	T	ENSG00000118420	ENST00000369747	Transcript	missense_variant	350	227	76	G/E	gGa/gAa	.	.	.	-1	UBE3D	HGNC	21381	protein_coding	YES	CCDS34491.1	ENSP00000358762	UBE3D_HUMAN	D6RHY9_HUMAN	UPI0000160DBE	.	tolerated(0.08)	possibly_damaging(0.557)	2/10	.	hmmpanther:PTHR31531,hmmpanther:PTHR31531:SF2,Pfam_domain:PF09814	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCTCCAACA	.	5	BLCA
CYB5R4	0	.	GRCh37	6	84629128	84629128	+	Silent	SNP	C	C	T	rs751777408	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519C>T	p.%3D	p.F173F	ENST00000369681	7/16	22	19	3	40	40	0	CYB5R4,synonymous_variant,p.%3D,ENST00000369681,;	T	ENSG00000065615	ENST00000369681	Transcript	synonymous_variant	659	519	173	F	ttC/ttT	rs751777408	.	.	1	CYB5R4	HGNC	20147	protein_coding	YES	CCDS5000.2	ENSP00000358695	NB5R4_HUMAN	B2R7W7_HUMAN	UPI000056D3CE	.	.	.	7/16	.	PROSITE_profiles:PS51203,hmmpanther:PTHR19370:SF71,hmmpanther:PTHR19370,Pfam_domain:PF04969,Gene3D:2.60.40.790,Superfamily_domains:SSF49764	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGTTCCAAAC	.	2	BLCA
RARS2	0	.	GRCh37	6	88299660	88299660	+	Missense_Mutation	SNP	G	G	A	rs201899366	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16C>T	p.Arg6Cys	p.R6C	ENST00000369536	1/20	35	18	17	41	40	0	RARS2,missense_variant,p.Arg6Cys,ENST00000369536,;ORC3,upstream_gene_variant,,ENST00000546266,;ORC3,upstream_gene_variant,,ENST00000392844,;ORC3,upstream_gene_variant,,ENST00000417380,;ORC3,upstream_gene_variant,,ENST00000257789,;ORC3,upstream_gene_variant,,ENST00000468486,;	A	ENSG00000146282	ENST00000369536	Transcript	missense_variant	62	16	6	R/C	Cgc/Tgc	rs201899366,COSM451893	.	.	-1	RARS2	HGNC	21406	protein_coding	YES	CCDS5011.1	ENSP00000358549	SYRM_HUMAN	H0UI22_HUMAN	UPI000020D2E6	.	deleterious(0)	possibly_damaging(0.79)	1/20	.	hmmpanther:PTHR11956:SF3,hmmpanther:PTHR11956,Gene3D:3.30.1360.70,Superfamily_domains:SSF55190	A:0.0004	A:0	A:0.0014	.	A:0.001	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R6C|c.16C>T|7	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGCGAAAGC	byFrequency|byCluster|by1000G	5	BLCA
ANKRD6	0	.	GRCh37	6	90340548	90340549	+	Frame_Shift_Ins	INS	-	-	T	rs751514998	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2016dupT	p.Glu673Ter	p.E673*	ENST00000522441	16/16	35	22	13	26	26	0	ANKRD6,frameshift_variant,p.Glu673Ter,ENST00000522441,;ANKRD6,frameshift_variant,p.Glu668Ter,ENST00000447838,;ANKRD6,frameshift_variant,p.Glu638Ter,ENST00000369408,;ANKRD6,frameshift_variant,p.Glu609Ter,ENST00000520793,;ANKRD6,frameshift_variant,p.Glu673Ter,ENST00000339746,;LYRM2,intron_variant,,ENST00000520441,;LYRM2,downstream_gene_variant,,ENST00000523377,;ANKRD6,downstream_gene_variant,,ENST00000518150,;ANKRD6,downstream_gene_variant,,ENST00000492158,;ANKRD6,downstream_gene_variant,,ENST00000521004,;LYRM2,intron_variant,,ENST00000523793,;LYRM2,intron_variant,,ENST00000520897,;LYRM2,downstream_gene_variant,,ENST00000517396,;ANKRD6,downstream_gene_variant,,ENST00000483473,;ANKRD6,non_coding_transcript_exon_variant,,ENST00000518253,;ANKRD6,non_coding_transcript_exon_variant,,ENST00000415924,;ANKRD6,non_coding_transcript_exon_variant,,ENST00000479572,;LYRM2,intron_variant,,ENST00000412237,;ANKRD6,downstream_gene_variant,,ENST00000521240,;	T	ENSG00000135299	ENST00000522441	Transcript	frameshift_variant	2650-2651	2009-2010	670	Y/YX	tat/taTt	rs751514998,COSM1446391	.	.	1	ANKRD6	HGNC	17280	protein_coding	YES	CCDS56441.1	ENSP00000430985	ANKR6_HUMAN	E5RJR9_HUMAN,E5RJ45_HUMAN,E5RIS1_HUMAN,E5RIJ4_HUMAN	UPI000020D325	.	.	.	16/16	.	hmmpanther:PTHR24203,hmmpanther:PTHR24203:SF0	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	insertion	.	7	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CCAGTATTTTT	.	2	BLCA
MDN1	0	.	GRCh37	6	90529346	90529346	+	5'UTR	SNP	G	G	A	rs770974535	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-20C>T	.	.	ENST00000369393	1/102	79	52	26	69	69	0	MDN1,5_prime_UTR_variant,,ENST00000369393,;MDN1,5_prime_UTR_variant,,ENST00000428876,;MDN1,5_prime_UTR_variant,,ENST00000439638,;snoU13,upstream_gene_variant,,ENST00000458799,;RP11-63K6.1,downstream_gene_variant,,ENST00000405081,;	A	ENSG00000112159	ENST00000369393	Transcript	5_prime_UTR_variant	97	.	.	.	.	rs770974535	.	.	-1	MDN1	HGNC	18302	protein_coding	YES	CCDS5024.1	ENSP00000358400	MDN1_HUMAN	M0QXR3_HUMAN	UPI000013C4B8	.	.	.	1/102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACCCCGAGCGG	.	4	BLCA
CASP8AP2	0	.	GRCh37	6	90572569	90572569	+	RNA	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2578C>T	.	.	ENST00000551025	7/9	46	38	7	51	51	0	CASP8AP2,non_coding_transcript_exon_variant,,ENST00000551025,;CASP8AP2,non_coding_transcript_exon_variant,,ENST00000237177,;CASP8AP2,intron_variant,,ENST00000548224,;CASP8AP2,downstream_gene_variant,,ENST00000444163,;CASP8AP2,downstream_gene_variant,,ENST00000419040,;CASP8AP2,downstream_gene_variant,,ENST00000552401,;	T	ENSG00000118412	ENST00000551025	Transcript	non_coding_transcript_exon_variant	2578	.	.	.	.	.	.	.	1	CASP8AP2	HGNC	1510	processed_transcript	YES	.	.	.	.	.	.	.	.	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATCACTGG	.	5	BLCA
MMS22L	0	.	GRCh37	6	97681842	97681842	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1197A>C	p.Glu399Asp	p.E399D	ENST00000275053	12/25	121	79	41	142	142	0	MMS22L,missense_variant,p.Glu399Asp,ENST00000275053,;MMS22L,missense_variant,p.Glu287Asp,ENST00000510018,;MMS22L,intron_variant,,ENST00000369251,;MMS22L,3_prime_UTR_variant,,ENST00000509383,;	G	ENSG00000146263	ENST00000275053	Transcript	missense_variant	1463	1197	399	E/D	gaA/gaC	.	.	.	-1	MMS22L	HGNC	21475	protein_coding	YES	CCDS5039.1	ENSP00000275053	MMS22_HUMAN	H9KVD8_HUMAN	UPI00003673C9	.	deleterious(0)	probably_damaging(0.987)	12/25	.	Pfam_domain:PF14910	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTCTTCTAG	.	5	BLCA
MMS22L	0	.	GRCh37	6	97730221	97730221	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133G>A	p.Glu45Lys	p.E45K	ENST00000275053	2/25	47	27	19	58	58	0	MMS22L,missense_variant,p.Glu45Lys,ENST00000275053,;MMS22L,missense_variant,p.Glu45Lys,ENST00000369251,;MMS22L,upstream_gene_variant,,ENST00000510018,;RP3-418C23.2,upstream_gene_variant,,ENST00000457513,;MMS22L,missense_variant,p.Glu45Lys,ENST00000509383,;MMS22L,missense_variant,p.Glu45Lys,ENST00000496119,;MMS22L,non_coding_transcript_exon_variant,,ENST00000508976,;MMS22L,non_coding_transcript_exon_variant,,ENST00000508820,;	T	ENSG00000146263	ENST00000275053	Transcript	missense_variant	399	133	45	E/K	Gaa/Aaa	.	.	.	-1	MMS22L	HGNC	21475	protein_coding	YES	CCDS5039.1	ENSP00000275053	MMS22_HUMAN	H9KVD8_HUMAN	UPI00003673C9	.	tolerated(0.16)	probably_damaging(0.991)	2/25	.	Pfam_domain:PF14910	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCTCCAG	.	5	BLCA
PNISR	0	.	GRCh37	6	99853980	99853980	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929G>A	p.Arg310Lys	p.R310K	ENST00000369239	8/12	65	47	18	71	71	0	PNISR,missense_variant,p.Arg310Lys,ENST00000369239,;PNISR,missense_variant,p.Arg310Lys,ENST00000438806,;PNISR,non_coding_transcript_exon_variant,,ENST00000476159,;PNISR,upstream_gene_variant,,ENST00000481229,;PNISR,downstream_gene_variant,,ENST00000463021,;PNISR,downstream_gene_variant,,ENST00000492294,;PNISR,upstream_gene_variant,,ENST00000460600,;PNISR,missense_variant,p.Arg310Lys,ENST00000478777,;	T	ENSG00000132424	ENST00000369239	Transcript	missense_variant	1134	929	310	R/K	aGa/aAa	.	.	.	-1	PNISR	HGNC	21222	protein_coding	YES	CCDS5043.1	ENSP00000358242	PNISR_HUMAN	Q8TEZ9_HUMAN	UPI000013E3A2	.	tolerated(0.12)	benign(0.444)	8/12	.	hmmpanther:PTHR31518:SF2,hmmpanther:PTHR31518	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCTGGTG	.	5	BLCA
MOSPD3	0	.	GRCh37	7	100210377	100210377	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-38G>A	.	.	ENST00000393950	1/5	19	9	10	35	35	0	MOSPD3,5_prime_UTR_variant,,ENST00000493970,;MOSPD3,5_prime_UTR_variant,,ENST00000424091,;MOSPD3,5_prime_UTR_variant,,ENST00000379527,;MOSPD3,5_prime_UTR_variant,,ENST00000223054,;MOSPD3,5_prime_UTR_variant,,ENST00000393950,;PCOLCE,downstream_gene_variant,,ENST00000223061,;MOSPD3,5_prime_UTR_variant,,ENST00000462372,;MOSPD3,non_coding_transcript_exon_variant,,ENST00000490309,;PCOLCE,downstream_gene_variant,,ENST00000472348,;MOSPD3,upstream_gene_variant,,ENST00000497456,;	A	ENSG00000106330	ENST00000393950	Transcript	5_prime_UTR_variant	245	.	.	.	.	.	.	.	1	MOSPD3	HGNC	25078	protein_coding	YES	CCDS5701.1	ENSP00000377522	MSPD3_HUMAN	F8WF07_HUMAN,C9J3M4_HUMAN	UPI000004A079	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTGAGCTC	.	5	BLCA
ACHE	0	.	GRCh37	7	100490837	100490837	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1017C>T	p.%3D	p.L339L	ENST00000302913	2/5	20	13	7	34	34	0	ACHE,synonymous_variant,p.%3D,ENST00000241069,;ACHE,synonymous_variant,p.%3D,ENST00000419336,;ACHE,synonymous_variant,p.%3D,ENST00000428317,;ACHE,synonymous_variant,p.%3D,ENST00000426415,;ACHE,synonymous_variant,p.%3D,ENST00000411582,;ACHE,synonymous_variant,p.%3D,ENST00000430554,;ACHE,synonymous_variant,p.%3D,ENST00000412389,;ACHE,synonymous_variant,p.%3D,ENST00000302913,;SRRT,downstream_gene_variant,,ENST00000448764,;SRRT,downstream_gene_variant,,ENST00000388793,;SRRT,downstream_gene_variant,,ENST00000457580,;SRRT,downstream_gene_variant,,ENST00000347433,;SRRT,downstream_gene_variant,,ENST00000432932,;UFSP1,upstream_gene_variant,,ENST00000388761,;ACHE,downstream_gene_variant,,ENST00000445236,;ACHE,downstream_gene_variant,,ENST00000441605,;ACHE,downstream_gene_variant,,ENST00000497647,;ACHE,synonymous_variant,p.%3D,ENST00000454485,;ACHE,synonymous_variant,p.%3D,ENST00000440755,;ACHE,3_prime_UTR_variant,,ENST00000442452,;SRRT,downstream_gene_variant,,ENST00000478693,;SRRT,downstream_gene_variant,,ENST00000445337,;SRRT,downstream_gene_variant,,ENST00000477529,;	A	ENSG00000087085	ENST00000302913	Transcript	synonymous_variant	1156	1017	339	L	ctC/ctT	.	.	.	-1	ACHE	HGNC	108	protein_coding	YES	CCDS5710.1	ENSP00000303211	ACES_HUMAN	C9JUK5_HUMAN,C9JD78_HUMAN	UPI0000140DF0	.	.	.	2/5	.	hmmpanther:PTHR11559,hmmpanther:PTHR11559:SF171,Pfam_domain:PF00135,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAGGAA	.	5	BLCA
TRIM56	0	.	GRCh37	7	100730644	100730644	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.51C>T	p.%3D	p.D17D	ENST00000306085	3/3	98	62	35	121	121	0	TRIM56,synonymous_variant,p.%3D,ENST00000306085,;TRIM56,synonymous_variant,p.%3D,ENST00000412507,;TRIM56,upstream_gene_variant,,ENST00000487252,;TRIM56,non_coding_transcript_exon_variant,,ENST00000467847,;	T	ENSG00000169871	ENST00000306085	Transcript	synonymous_variant	348	51	17	D	gaC/gaT	.	.	.	1	TRIM56	HGNC	19028	protein_coding	YES	CCDS43625.1	ENSP00000305161	TRI56_HUMAN	.	UPI0000171C4A	.	.	.	3/3	.	Superfamily_domains:SSF57850,Gene3D:3.30.40.10,hmmpanther:PTHR24103:SF287,hmmpanther:PTHR24103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGACTTCCT	.	5	BLCA
CYP2W1	0	.	GRCh37	7	1026366	1026366	+	Missense_Mutation	SNP	G	G	A	rs746365436	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.752G>A	p.Arg251Gln	p.R251Q	ENST00000308919	5/9	20	11	8	20	20	0	CYP2W1,missense_variant,p.Arg25Gln,ENST00000415893,;CYP2W1,missense_variant,p.Arg195Gln,ENST00000340150,;CYP2W1,missense_variant,p.Arg251Gln,ENST00000308919,;CYP2W1,non_coding_transcript_exon_variant,,ENST00000468456,;CYP2W1,non_coding_transcript_exon_variant,,ENST00000462453,;	A	ENSG00000073067	ENST00000308919	Transcript	missense_variant	765	752	251	R/Q	cGg/cAg	rs746365436	.	.	1	CYP2W1	HGNC	20243	protein_coding	YES	CCDS5319.2	ENSP00000310149	CP2W1_HUMAN	.	UPI000013C59A	.	tolerated(0.17)	benign(0.015)	5/9	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF50,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGCGGAGGC	byFrequency	5	BLCA
DNAJC2	0	.	GRCh37	7	102978215	102978215	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.299A>G	p.Tyr100Cys	p.Y100C	ENST00000379263	3/17	58	54	4	83	83	0	DNAJC2,missense_variant,p.Tyr100Cys,ENST00000249270,;DNAJC2,missense_variant,p.Tyr89Cys,ENST00000426036,;DNAJC2,missense_variant,p.Tyr100Cys,ENST00000379263,;DNAJC2,missense_variant,p.Tyr26Cys,ENST00000454277,;DNAJC2,missense_variant,p.Tyr100Cys,ENST00000412522,;DNAJC2,missense_variant,p.Tyr100Cys,ENST00000379257,;DNAJC2,non_coding_transcript_exon_variant,,ENST00000464253,;DNAJC2,non_coding_transcript_exon_variant,,ENST00000475065,;	C	ENSG00000105821	ENST00000379263	Transcript	missense_variant	550	299	100	Y/C	tAc/tGc	.	.	.	-1	DNAJC2	HGNC	13192	protein_coding	YES	CCDS43628.1	ENSP00000368565	DNJC2_HUMAN	Q08AR5_HUMAN,C9IZ83_HUMAN	UPI000020F858	.	deleterious(0.04)	possibly_damaging(0.566)	3/17	.	PROSITE_profiles:PS50076,hmmpanther:PTHR24078,hmmpanther:PTHR24078:SF67,Pfam_domain:PF00226,Gene3D:1.10.287.110,SMART_domains:SM00271,Superfamily_domains:SSF46565	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTGTATCTC	.	2	BLCA
HBP1	0	.	GRCh37	7	106841891	106841891	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15G>A	.	.	ENST00000222574	11/11	37	25	12	64	64	0	HBP1,3_prime_UTR_variant,,ENST00000468410,;HBP1,3_prime_UTR_variant,,ENST00000222574,;HBP1,3_prime_UTR_variant,,ENST00000485846,;COG5,downstream_gene_variant,,ENST00000347053,;HBP1,downstream_gene_variant,,ENST00000607681,;COG5,downstream_gene_variant,,ENST00000297135,;HBP1,downstream_gene_variant,,ENST00000498408,;HBP1,downstream_gene_variant,,ENST00000461963,;HBP1,3_prime_UTR_variant,,ENST00000463790,;HBP1,downstream_gene_variant,,ENST00000463202,;	A	ENSG00000105856	ENST00000222574	Transcript	3_prime_UTR_variant	1746	.	.	.	.	.	.	.	1	HBP1	HGNC	23200	protein_coding	YES	CCDS5741.1	ENSP00000222574	HBP1_HUMAN	H7C4S2_HUMAN,C9JQU7_HUMAN,C9JPK6_HUMAN,C9JAW1_HUMAN,C9J8V6_HUMAN,C9J5U3_HUMAN,B4DJ36_HUMAN	UPI000006DC04	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATGTTCTT	.	5	BLCA
DLD	0	.	GRCh37	7	107531643	107531643	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-53G>A	.	.	ENST00000205402	1/14	15	9	6	17	17	0	DLD,5_prime_UTR_variant,,ENST00000205402,;DLD,5_prime_UTR_variant,,ENST00000437604,;DLD,5_prime_UTR_variant,,ENST00000537148,;DLD,5_prime_UTR_variant,,ENST00000440410,;DLD,non_coding_transcript_exon_variant,,ENST00000453354,;DLD,upstream_gene_variant,,ENST00000494441,;DLD,5_prime_UTR_variant,,ENST00000450038,;DLD,5_prime_UTR_variant,,ENST00000417551,;DLD,5_prime_UTR_variant,,ENST00000451081,;DLD,5_prime_UTR_variant,,ENST00000415325,;DLD,non_coding_transcript_exon_variant,,ENST00000485066,;DLD,upstream_gene_variant,,ENST00000460577,;	A	ENSG00000091140	ENST00000205402	Transcript	5_prime_UTR_variant	229	.	.	.	.	.	.	.	1	DLD	HGNC	2898	protein_coding	YES	CCDS5749.1	ENSP00000205402	DLDH_HUMAN	B4DHG0_HUMAN	UPI0000072725	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGCGGAGGCG	.	2	BLCA
LAMB4	0	.	GRCh37	7	107689845	107689845	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4048A>G	p.Thr1350Ala	p.T1350A	ENST00000388781	27/34	83	56	26	96	96	0	LAMB4,missense_variant,p.Thr1350Ala,ENST00000388781,;LAMB4,missense_variant,p.Thr376Ala,ENST00000422975,;LAMB4,missense_variant,p.Thr1350Ala,ENST00000388780,;LAMB4,missense_variant,p.Thr1350Ala,ENST00000205386,;	C	ENSG00000091128	ENST00000388781	Transcript	missense_variant	4132	4048	1350	T/A	Acc/Gcc	.	.	.	-1	LAMB4	HGNC	6491	protein_coding	YES	CCDS34732.1	ENSP00000373433	LAMB4_HUMAN	C9JM08_HUMAN	UPI0000198CD5	.	tolerated(0.54)	benign(0.001)	27/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGGTTAGTG	.	5	BLCA
PNPLA8	0	.	GRCh37	7	108119764	108119772	+	In_Frame_Del	DEL	AAGACATTT	AAGACATTT	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	AAGACATTT	AAGACATTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1930_1938delAAATGTCTT	p.Lys644_Leu646del	p.K644_L646del	ENST00000422087	11/12	53	36	17	90	90	0	PNPLA8,inframe_deletion,p.Lys544_Leu546del,ENST00000453144,;PNPLA8,inframe_deletion,p.Lys644_Leu646del,ENST00000257694,;PNPLA8,inframe_deletion,p.Lys582_Leu584del,ENST00000388728,;PNPLA8,inframe_deletion,p.Lys582_Leu584del,ENST00000426128,;PNPLA8,inframe_deletion,p.Lys544_Leu546del,ENST00000453085,;PNPLA8,inframe_deletion,p.Lys644_Leu646del,ENST00000422087,;PNPLA8,inframe_deletion,p.Lys644_Leu646del,ENST00000436062,;	-	ENSG00000135241	ENST00000422087	Transcript	inframe_deletion	2337-2345	1930-1938	644-646	KCL/-	AAATGTCTT/-	.	.	.	-1	PNPLA8	HGNC	28900	protein_coding	YES	CCDS34733.1	ENSP00000410804	PLPL8_HUMAN	C9JAX4_HUMAN,C9J9W9_HUMAN	UPI0000073D34	.	.	.	11/12	.	hmmpanther:PTHR24185,Gene3D:3.40.1090.10,Superfamily_domains:SSF52151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	TGGCCAAAGACATTTACACT	.	2	BLCA
GPR146	0	.	GRCh37	7	1098167	1098167	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14C>T	.	.	ENST00000397095	2/2	22	15	6	29	29	0	GPR146,3_prime_UTR_variant,,ENST00000397095,;GPR146,3_prime_UTR_variant,,ENST00000297468,;C7orf50,intron_variant,,ENST00000397100,;C7orf50,intron_variant,,ENST00000357429,;C7orf50,intron_variant,,ENST00000397098,;C7orf50,intron_variant,,ENST00000491163,;GPR146,downstream_gene_variant,,ENST00000444847,;GPR146,downstream_gene_variant,,ENST00000427680,;C7orf50,upstream_gene_variant,,ENST00000444428,;RP11-449P15.1,non_coding_transcript_exon_variant,,ENST00000549241,;C7orf50,intron_variant,,ENST00000488073,;GPR146,downstream_gene_variant,,ENST00000474396,;	T	ENSG00000164849	ENST00000397095	Transcript	3_prime_UTR_variant	1239	.	.	.	.	.	.	.	1	GPR146	HGNC	21718	protein_coding	YES	CCDS5321.1	ENSP00000380283	GP146_HUMAN	C9JAQ6_HUMAN,C9J5X5_HUMAN,A4D2Q3_HUMAN	UPI0000040BAB	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCCTGGG	.	5	BLCA
GPR146	0	.	GRCh37	7	1098190	1098190	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*37G>A	.	.	ENST00000397095	2/2	16	6	10	21	21	0	GPR146,3_prime_UTR_variant,,ENST00000397095,;GPR146,3_prime_UTR_variant,,ENST00000297468,;C7orf50,intron_variant,,ENST00000397100,;C7orf50,intron_variant,,ENST00000357429,;C7orf50,intron_variant,,ENST00000397098,;C7orf50,intron_variant,,ENST00000491163,;GPR146,downstream_gene_variant,,ENST00000444847,;GPR146,downstream_gene_variant,,ENST00000427680,;C7orf50,upstream_gene_variant,,ENST00000444428,;RP11-449P15.1,non_coding_transcript_exon_variant,,ENST00000549241,;C7orf50,intron_variant,,ENST00000488073,;GPR146,downstream_gene_variant,,ENST00000474396,;	A	ENSG00000164849	ENST00000397095	Transcript	3_prime_UTR_variant	1262	.	.	.	.	.	.	.	1	GPR146	HGNC	21718	protein_coding	YES	CCDS5321.1	ENSP00000380283	GP146_HUMAN	C9JAQ6_HUMAN,C9J5X5_HUMAN,A4D2Q3_HUMAN	UPI0000040BAB	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGTGGACGCA	.	2	BLCA
GPR85	0	.	GRCh37	7	112724393	112724393	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384C>T	p.%3D	p.F128F	ENST00000297146	3/3	57	33	24	65	65	0	GPR85,synonymous_variant,p.%3D,ENST00000297146,;GPR85,synonymous_variant,p.%3D,ENST00000501255,;GPR85,synonymous_variant,p.%3D,ENST00000424100,;GPR85,synonymous_variant,p.%3D,ENST00000449591,;GPR85,downstream_gene_variant,,ENST00000438062,;GPR85,downstream_gene_variant,,ENST00000449735,;GPR85,downstream_gene_variant,,ENST00000487573,;GPR85,synonymous_variant,p.%3D,ENST00000610164,;	A	ENSG00000164604	ENST00000297146	Transcript	synonymous_variant	988	384	128	F	ttC/ttT	COSM1084154	.	.	-1	GPR85	HGNC	4536	protein_coding	YES	CCDS5758.1	ENSP00000297146	GPR85_HUMAN	C9JDK8_HUMAN,C9JBQ9_HUMAN,A4D0T8_HUMAN	UPI0000004048	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR19268,hmmpanther:PTHR19268:SF7,Pfam_domain:PF00001,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTATAGAAGCG	.	5	BLCA
MET	0	.	GRCh37	7	116339690	116339690	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>T	p.%3D	p.V184V	ENST00000318493	2/21	96	65	30	124	124	0	MET,synonymous_variant,p.%3D,ENST00000318493,;MET,synonymous_variant,p.%3D,ENST00000397752,;MET,synonymous_variant,p.%3D,ENST00000436117,;MET,downstream_gene_variant,,ENST00000456159,;	T	ENSG00000105976	ENST00000318493	Transcript	synonymous_variant	739	552	184	V	gtC/gtT	.	.	.	1	MET	HGNC	7029	protein_coding	YES	CCDS47689.1	ENSP00000317272	MET_HUMAN	Q9UEJ3_HUMAN,B4DPY6_HUMAN	UPI000014033E	.	.	.	2/21	.	PROSITE_profiles:PS51004,Gene3D:2.130.10.10,Pfam_domain:PF01403,PIRSF_domain:PIRSF000617,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTCCTTTC	.	5	BLCA
ASZ1	0	.	GRCh37	7	117007443	117007443	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1238G>C	p.Ser413Thr	p.S413T	ENST00000284629	12/13	70	55	14	56	56	0	ASZ1,missense_variant,p.Ser413Thr,ENST00000284629,;ASZ1,3_prime_UTR_variant,,ENST00000450714,;ASZ1,non_coding_transcript_exon_variant,,ENST00000479454,;ASZ1,non_coding_transcript_exon_variant,,ENST00000463182,;ASZ1,non_coding_transcript_exon_variant,,ENST00000465832,;	G	ENSG00000154438	ENST00000284629	Transcript	missense_variant	1301	1238	413	S/T	aGt/aCt	.	.	.	-1	ASZ1	HGNC	1350	protein_coding	YES	CCDS5772.1	ENSP00000284629	ASZ1_HUMAN	C9JP59_HUMAN,B7ZM20_HUMAN	UPI0000070EE2	.	tolerated(0.18)	benign(0.044)	12/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24157,Superfamily_domains:0051779	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCACTCAAA	.	5	BLCA
KCND2	0	.	GRCh37	7	120382636	120382636	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1447C>T	p.His483Tyr	p.H483Y	ENST00000331113	4/6	59	42	17	67	67	0	KCND2,missense_variant,p.His69Tyr,ENST00000425288,;KCND2,missense_variant,p.His483Tyr,ENST00000331113,;RP4-797C5.2,downstream_gene_variant,,ENST00000450480,;KCND2,non_coding_transcript_exon_variant,,ENST00000473190,;	T	ENSG00000184408	ENST00000331113	Transcript	missense_variant	2412	1447	483	H/Y	Cac/Tac	.	.	.	1	KCND2	HGNC	6238	protein_coding	YES	CCDS5776.1	ENSP00000333496	KCND2_HUMAN	A4D0V9_HUMAN,Q75LS7_HUMAN	UPI0000073D37	.	deleterious_low_confidence(0)	possibly_damaging(0.861)	4/6	.	hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF86,Pfam_domain:PF11879,Prints_domain:PR01497	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCACTGC	.	5	BLCA
KCND2	0	.	GRCh37	7	120382657	120382657	+	Splice_Site	SNP	G	G	C	rs767900919	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1467+1G>C	.	p.X489_splice	ENST00000331113	.	55	42	13	58	58	0	KCND2,splice_donor_variant,,ENST00000425288,;KCND2,splice_donor_variant,,ENST00000331113,;RP4-797C5.2,downstream_gene_variant,,ENST00000450480,;KCND2,splice_donor_variant,,ENST00000473190,;	C	ENSG00000184408	ENST00000331113	Transcript	splice_donor_variant	.	.	.	.	.	rs767900919,COSM1686548	.	.	1	KCND2	HGNC	6238	protein_coding	YES	CCDS5776.1	ENSP00000333496	KCND2_HUMAN	A4D0V9_HUMAN,Q75LS7_HUMAN	UPI0000073D37	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACGGTAAGG	.	2	BLCA
ING3	0	.	GRCh37	7	120591197	120591197	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.29-21G>A	.	.	ENST00000315870	.	82	51	31	122	122	0	ING3,5_prime_UTR_variant,,ENST00000431467,;ING3,intron_variant,,ENST00000445699,;ING3,intron_variant,,ENST00000339121,;ING3,intron_variant,,ENST00000315870,;ING3,intron_variant,,ENST00000427726,;	A	ENSG00000071243	ENST00000315870	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ING3	HGNC	14587	protein_coding	YES	CCDS5778.1	ENSP00000320566	ING3_HUMAN	E7ET07_HUMAN	UPI00000373B3	.	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTGACGGA	.	5	BLCA
WNT16	0	.	GRCh37	7	120969787	120969787	+	Missense_Mutation	SNP	G	G	A	rs749225268	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.262G>A	p.Glu88Lys	p.E88K	ENST00000222462	2/4	36	27	9	39	39	0	WNT16,missense_variant,p.Glu88Lys,ENST00000222462,;WNT16,missense_variant,p.Glu78Lys,ENST00000361301,;	A	ENSG00000002745	ENST00000222462	Transcript	missense_variant	552	262	88	E/K	Gag/Aag	rs749225268	.	.	1	WNT16	HGNC	16267	protein_coding	YES	CCDS5781.1	ENSP00000222462	WNT16_HUMAN	.	UPI000005104C	.	tolerated(0.1)	probably_damaging(0.996)	2/4	.	hmmpanther:PTHR12027,hmmpanther:PTHR12027:SF70,Pfam_domain:PF00110,SMART_domains:SM00097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACACGAGAGA	.	5	BLCA
FAM3C	0	.	GRCh37	7	120990414	120990414	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*101C>T	.	.	ENST00000359943	10/10	22	18	4	24	24	0	FAM3C,3_prime_UTR_variant,,ENST00000359943,;FAM3C,downstream_gene_variant,,ENST00000474082,;	A	ENSG00000196937	ENST00000359943	Transcript	3_prime_UTR_variant	999	.	.	.	.	.	.	.	-1	FAM3C	HGNC	18664	protein_coding	YES	CCDS5782.1	ENSP00000353025	FAM3C_HUMAN	C9JP35_HUMAN,C9JMN4_HUMAN	UPI000000DB90	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCAAGATGGC	.	4	BLCA
IQUB	0	.	GRCh37	7	123149953	123149953	+	Splice_Site	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.532+2T>A	.	p.X178_splice	ENST00000466202	.	195	131	64	224	224	0	IQUB,splice_donor_variant,,ENST00000324698,;IQUB,splice_donor_variant,,ENST00000466202,;IQUB,splice_donor_variant,,ENST00000434450,;IQUB,intron_variant,,ENST00000488987,;IQUB,splice_donor_variant,,ENST00000484508,;IQUB,splice_donor_variant,,ENST00000469057,;IQUB,splice_donor_variant,,ENST00000483567,;	T	ENSG00000164675	ENST00000466202	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	IQUB	HGNC	21995	protein_coding	YES	CCDS5787.1	ENSP00000417769	IQUB_HUMAN	.	UPI000013E3DF	.	.	.	.	3/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTACCTGA	.	5	BLCA
SCIN	0	.	GRCh37	7	12683870	12683870	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1689G>A	p.%3D	p.E563E	ENST00000297029	12/16	16	13	3	9	9	0	SCIN,synonymous_variant,p.%3D,ENST00000445618,;SCIN,synonymous_variant,p.%3D,ENST00000519209,;SCIN,synonymous_variant,p.%3D,ENST00000297029,;SCIN,intron_variant,,ENST00000341757,;	A	ENSG00000006747	ENST00000297029	Transcript	synonymous_variant	1790	1689	563	E	gaG/gaA	COSM598708,COSM598709	.	.	1	SCIN	HGNC	21695	protein_coding	YES	CCDS47545.1	ENSP00000297029	ADSV_HUMAN	Q8NBV9_HUMAN,Q75MG0_HUMAN	UPI000013C4DF	.	.	.	12/16	.	hmmpanther:PTHR11977,hmmpanther:PTHR11977:SF14,Pfam_domain:PF00626,Gene3D:3.40.20.10,SMART_domains:SM00262,Superfamily_domains:SSF55753	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGAGAAAGG	.	2	BLCA
GCC1	0	.	GRCh37	7	127222266	127222266	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2130C>T	p.%3D	p.I710I	ENST00000321407	2/2	75	48	27	104	104	0	GCC1,synonymous_variant,p.%3D,ENST00000321407,;GCC1,downstream_gene_variant,,ENST00000497650,;	A	ENSG00000179562	ENST00000321407	Transcript	synonymous_variant	2555	2130	710	I	atC/atT	COSM3942009	.	.	-1	GCC1	HGNC	19095	protein_coding	YES	CCDS5796.1	ENSP00000318821	GCC1_HUMAN	A4D0Z4_HUMAN	UPI0000072BA8	.	.	.	2/2	.	hmmpanther:PTHR23157,hmmpanther:PTHR23157:SF25	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTGATGTT	.	5	BLCA
IMPDH1	0	.	GRCh37	7	128034403	128034403	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1707C>A	p.Tyr569Ter	p.Y569*	ENST00000338791	16/17	23	18	5	45	45	0	IMPDH1,stop_gained,p.Tyr536Ter,ENST00000419067,;IMPDH1,stop_gained,p.Tyr500Ter,ENST00000378717,;IMPDH1,stop_gained,p.Tyr479Ter,ENST00000480861,;IMPDH1,stop_gained,p.Tyr459Ter,ENST00000343214,;IMPDH1,stop_gained,p.Tyr483Ter,ENST00000470772,;IMPDH1,stop_gained,p.Tyr533Ter,ENST00000348127,;IMPDH1,stop_gained,p.Tyr569Ter,ENST00000338791,;IMPDH1,stop_gained,p.Tyr459Ter,ENST00000496200,;IMPDH1,stop_gained,p.Tyr559Ter,ENST00000354269,;IMPDH1,downstream_gene_variant,,ENST00000497868,;IMPDH1,3_prime_UTR_variant,,ENST00000484496,;IMPDH1,3_prime_UTR_variant,,ENST00000469328,;IMPDH1,non_coding_transcript_exon_variant,,ENST00000460045,;IMPDH1,downstream_gene_variant,,ENST00000468842,;	T	ENSG00000106348	ENST00000338791	Transcript	stop_gained	2058	1707	569	Y/*	taC/taA	.	.	.	-1	IMPDH1	HGNC	6052	protein_coding	YES	CCDS34749.1	ENSP00000345096	IMDH1_HUMAN	.	UPI00001BDC74	.	.	.	16/17	.	HAMAP:MF_01964,Pfam_domain:PF00478,Gene3D:3.20.20.70,Superfamily_domains:SSF51412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGAGTACAT	.	5	BLCA
TNPO3	0	.	GRCh37	7	128658015	128658015	+	Missense_Mutation	SNP	G	G	A	rs770038958	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.317C>T	p.Thr106Met	p.T106M	ENST00000265388	2/23	54	39	15	55	55	0	TNPO3,missense_variant,p.Thr106Met,ENST00000393245,;TNPO3,missense_variant,p.Thr106Met,ENST00000471166,;TNPO3,missense_variant,p.Thr106Met,ENST00000471234,;TNPO3,missense_variant,p.Thr40Met,ENST00000482320,;TNPO3,missense_variant,p.Thr106Met,ENST00000265388,;	A	ENSG00000064419	ENST00000265388	Transcript	missense_variant	461	317	106	T/M	aCg/aTg	rs770038958	.	.	-1	TNPO3	HGNC	17103	protein_coding	YES	CCDS5809.1	ENSP00000265388	TNPO3_HUMAN	E9PFH4_HUMAN,B3KMX1_HUMAN	UPI0000072FAB	.	deleterious(0)	probably_damaging(0.992)	2/23	.	hmmpanther:PTHR12363,hmmpanther:PTHR12363:SF5,Gene3D:1.25.10.10,Pfam_domain:PF08389,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGCGTTACA	.	5	BLCA
MKLN1	0	.	GRCh37	7	131151160	131151160	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1914C>T	p.%3D	p.L638L	ENST00000352689	15/18	63	45	18	68	68	0	MKLN1,synonymous_variant,p.%3D,ENST00000352689,;MKLN1,synonymous_variant,p.%3D,ENST00000421797,;MKLN1,non_coding_transcript_exon_variant,,ENST00000498778,;MKLN1,upstream_gene_variant,,ENST00000496815,;MKLN1,3_prime_UTR_variant,,ENST00000458153,;MKLN1,non_coding_transcript_exon_variant,,ENST00000494785,;MKLN1,non_coding_transcript_exon_variant,,ENST00000497746,;	T	ENSG00000128585	ENST00000352689	Transcript	synonymous_variant	1954	1914	638	L	ctC/ctT	.	.	.	1	MKLN1	HGNC	7109	protein_coding	YES	CCDS34754.1	ENSP00000323527	MKLN1_HUMAN	F8WEY7_HUMAN,C9JXB0_HUMAN,C9JWX9_HUMAN,C9JVL5_HUMAN,C9J7E8_HUMAN	UPI0000034CB0	.	.	.	15/18	.	hmmpanther:PTHR15526:SF5,hmmpanther:PTHR15526	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCATAAG	.	5	BLCA
LRGUK	0	.	GRCh37	7	133827894	133827894	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.567C>G	p.Phe189Leu	p.F189L	ENST00000285928	4/20	94	75	18	104	104	0	LRGUK,missense_variant,p.Phe189Leu,ENST00000285928,;LRGUK,downstream_gene_variant,,ENST00000473068,;	G	ENSG00000155530	ENST00000285928	Transcript	missense_variant	636	567	189	F/L	ttC/ttG	.	.	.	1	LRGUK	HGNC	21964	protein_coding	YES	CCDS5830.1	ENSP00000285928	LRGUK_HUMAN	.	UPI0000072C76	.	deleterious(0.01)	possibly_damaging(0.878)	4/20	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS51450,hmmpanther:PTHR10588,hmmpanther:PTHR10588:SF35,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTCAAGCC	.	5	BLCA
WDR91	0	.	GRCh37	7	134889029	134889029	+	Silent	SNP	G	G	A	rs199762627	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.882C>T	p.%3D	p.F294F	ENST00000354475	6/15	21	13	8	43	43	0	WDR91,synonymous_variant,p.%3D,ENST00000354475,;WDR91,synonymous_variant,p.%3D,ENST00000344400,;WDR91,synonymous_variant,p.%3D,ENST00000423565,;AC009542.2,downstream_gene_variant,,ENST00000595902,;AC009542.2,downstream_gene_variant,,ENST00000412549,;WDR91,non_coding_transcript_exon_variant,,ENST00000485942,;WDR91,non_coding_transcript_exon_variant,,ENST00000466182,;	A	ENSG00000105875	ENST00000354475	Transcript	synonymous_variant	914	882	294	F	ttC/ttT	rs199762627	.	.	-1	WDR91	HGNC	24997	protein_coding	YES	CCDS34758.1	ENSP00000346466	WDR91_HUMAN	.	UPI000006F2DE	.	.	.	6/15	.	hmmpanther:PTHR13083	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACCGAAGGA	byCluster|by1000G	2	BLCA
NUP205	0	.	GRCh37	7	135330220	135330220	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5688C>T	p.%3D	p.I1896I	ENST00000285968	41/43	161	114	47	194	194	0	NUP205,synonymous_variant,p.%3D,ENST00000285968,;NUP205,non_coding_transcript_exon_variant,,ENST00000461255,;NUP205,non_coding_transcript_exon_variant,,ENST00000607647,;NUP205,intron_variant,,ENST00000490439,;NUP205,intron_variant,,ENST00000477620,;NUP205,upstream_gene_variant,,ENST00000491089,;	T	ENSG00000155561	ENST00000285968	Transcript	synonymous_variant	5714	5688	1896	I	atC/atT	.	.	.	1	NUP205	HGNC	18658	protein_coding	YES	CCDS34759.1	ENSP00000285968	NU205_HUMAN	Q6P486_HUMAN,Q6DKH1_HUMAN	UPI00001D74D8	.	.	.	41/43	.	hmmpanther:PTHR31344:SF0,hmmpanther:PTHR31344	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTTATCATAGA	.	3	BLCA
TRIM24	0	.	GRCh37	7	138145524	138145524	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231C>T	p.%3D	p.F77F	ENST00000343526	1/19	26	17	9	32	32	0	TRIM24,synonymous_variant,p.%3D,ENST00000415680,;TRIM24,synonymous_variant,p.%3D,ENST00000343526,;TRIM24,upstream_gene_variant,,ENST00000497516,;	T	ENSG00000122779	ENST00000343526	Transcript	synonymous_variant	446	231	77	F	ttC/ttT	.	.	.	1	TRIM24	HGNC	11812	protein_coding	YES	CCDS5847.1	ENSP00000340507	TIF1A_HUMAN	B4DYZ9_HUMAN	UPI00000012CB	.	.	.	1/19	.	PROSITE_profiles:PS50089,hmmpanther:PTHR24103:SF136,hmmpanther:PTHR24103,PROSITE_patterns:PS00518,Gene3D:3.30.40.10,SMART_domains:SM00184,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTGCCA	.	5	BLCA
ADCK2	0	.	GRCh37	7	140373454	140373454	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324G>A	p.%3D	p.V108V	ENST00000072869	1/8	52	34	18	66	66	0	ADCK2,synonymous_variant,p.%3D,ENST00000476491,;ADCK2,synonymous_variant,p.%3D,ENST00000072869,;DENND2A,intron_variant,,ENST00000489552,;ADCK2,upstream_gene_variant,,ENST00000483369,;ADCK2,upstream_gene_variant,,ENST00000498423,;	A	ENSG00000133597	ENST00000072869	Transcript	synonymous_variant	502	324	108	V	gtG/gtA	.	.	.	1	ADCK2	HGNC	19039	protein_coding	YES	CCDS5861.1	ENSP00000072869	ADCK2_HUMAN	A4D1T6_HUMAN	UPI000003C962	.	.	.	1/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10566,hmmpanther:PTHR10566:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGTGAAATT	.	5	BLCA
BRAF	0	.	GRCh37	7	140481402	140481402	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1406G>C	p.Gly469Ala	p.G469A	ENST00000288602	11/18	53	40	13	91	91	0	BRAF,missense_variant,p.Gly469Ala,ENST00000288602,;BRAF,missense_variant,p.Gly77Ala,ENST00000496384,;BRAF,3_prime_UTR_variant,,ENST00000497784,;	G	ENSG00000157764	ENST00000288602	Transcript	missense_variant	1467	1406	469	G/A	gGa/gCa	CM060876,COSM461,COSM460,COSM459	.	.	-1	BRAF	HGNC	1097	protein_coding	YES	CCDS5863.1	ENSP00000288602	BRAF_HUMAN	Q75MQ8_HUMAN,E5FF37_HUMAN,D7PBN4_HUMAN	UPI000013DF26	.	deleterious(0.01)	possibly_damaging(0.773)	11/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR23257:SF360,hmmpanther:PTHR23257,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF07714,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.G469A|c.1406G>C|37,CODON|p.G469S|c.1405_1406GG>TC|3,CODON|p.G469V|c.1406G>T|17,CODON|p.G469E|c.1406G>A|10,BUFFER|p.Y472S|c.1415A>C|5,BUFFER|p.V471F|c.1411G>T|3,BUFFER|p.G469R|c.1405G>A|11,BUFFER|p.S467L|c.1400C>T|3,BUFFER|p.G466V|c.1397G>T|18,BUFFER|p.G466E|c.1397G>A|12,BUFFER|p.G466R|c.1396G>C|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCCAAAT	.	5	BLCA
GSTK1	0	.	GRCh37	7	142960614	142960614	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8C>T	p.Pro3Leu	p.P3L	ENST00000479303	1/7	44	29	15	78	78	0	GSTK1,missense_variant,p.Pro3Leu,ENST00000409500,;GSTK1,missense_variant,p.Pro3Leu,ENST00000443571,;GSTK1,missense_variant,p.Pro3Leu,ENST00000479303,;GSTK1,missense_variant,p.Pro3Leu,ENST00000358406,;GSTK1,intron_variant,,ENST00000436038,;AC073342.12,intron_variant,,ENST00000427392,;GSTK1,non_coding_transcript_exon_variant,,ENST00000494735,;GSTK1,missense_variant,p.Pro3Leu,ENST00000442394,;GSTK1,non_coding_transcript_exon_variant,,ENST00000473649,;GSTK1,non_coding_transcript_exon_variant,,ENST00000489654,;	T	ENSG00000197448	ENST00000479303	Transcript	missense_variant	66	8	3	P/L	cCc/cTc	COSM1319017,COSM1319016	.	.	1	GSTK1	HGNC	16906	protein_coding	YES	CCDS47730.1	ENSP00000431049	GSTK1_HUMAN	.	UPI000022839D	.	tolerated(0.09)	benign(0.085)	1/7	.	Superfamily_domains:SSF52833,hmmpanther:PTHR13887	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGGCCCCTGC	.	5	BLCA
CASP2	0	.	GRCh37	7	142997025	142997025	+	Missense_Mutation	SNP	G	G	A	rs758747020	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.757G>A	p.Glu253Lys	p.E253K	ENST00000310447	7/11	55	40	15	74	74	0	CASP2,missense_variant,p.Glu253Lys,ENST00000310447,;RN7SL481P,downstream_gene_variant,,ENST00000477764,;CASP2,non_coding_transcript_exon_variant,,ENST00000493642,;CASP2,3_prime_UTR_variant,,ENST00000350623,;CASP2,non_coding_transcript_exon_variant,,ENST00000472067,;	A	ENSG00000106144	ENST00000310447	Transcript	missense_variant	998	757	253	E/K	Gag/Aag	rs758747020	.	.	1	CASP2	HGNC	1503	protein_coding	YES	CCDS5879.1	ENSP00000312664	CASP2_HUMAN	B4E0I5_HUMAN	UPI000020F1E8	.	tolerated(0.26)	benign(0.014)	7/11	.	PROSITE_profiles:PS50208,hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF129,Gene3D:3.40.50.1460,Pfam_domain:PF00656,SMART_domains:SM00115,PIRSF_domain:PIRSF038001,Superfamily_domains:SSF52129,Prints_domain:PR00376	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCAAGAGAAA	.	5	BLCA
EPHA1	0	.	GRCh37	7	143096811	143096811	+	Silent	SNP	C	C	T	rs376932701	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.768G>A	p.%3D	p.L256L	ENST00000275815	4/18	47	41	6	62	62	0	EPHA1,synonymous_variant,p.%3D,ENST00000275815,;EPHA1,non_coding_transcript_exon_variant,,ENST00000488068,;EPHA1,downstream_gene_variant,,ENST00000497891,;EPHA1,upstream_gene_variant,,ENST00000465208,;EPHA1,upstream_gene_variant,,ENST00000479459,;EPHA1,upstream_gene_variant,,ENST00000494989,;	T	ENSG00000146904	ENST00000275815	Transcript	synonymous_variant	855	768	256	L	ctG/ctA	rs376932701	.	.	-1	EPHA1	HGNC	3385	protein_coding	YES	CCDS5884.1	ENSP00000275815	EPHA1_HUMAN	.	UPI000013DA82	.	.	.	4/18	.	PIRSF_domain:PIRSF000666,PROSITE_patterns:PS00791,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF28	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCACCAGCCA	.	4	BLCA
OR6B1	0	.	GRCh37	7	143701297	143701297	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.208G>A	p.Glu70Lys	p.E70K	ENST00000408922	1/1	82	59	22	101	101	0	OR6B1,missense_variant,p.Glu70Lys,ENST00000408922,;	A	ENSG00000221813	ENST00000408922	Transcript	missense_variant	276	208	70	E/K	Gag/Aag	.	.	.	1	OR6B1	HGNC	8354	protein_coding	YES	CCDS43667.1	ENSP00000386151	OR6B1_HUMAN	.	UPI0000041B18	.	deleterious(0)	probably_damaging(0.998)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF174,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTGGAGACC	.	5	BLCA
CNTNAP2	0	.	GRCh37	7	146829579	146829579	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1326G>A	p.Met442Ile	p.M442I	ENST00000361727	8/24	72	47	25	91	91	0	CNTNAP2,missense_variant,p.Met442Ile,ENST00000361727,;	A	ENSG00000174469	ENST00000361727	Transcript	missense_variant	1842	1326	442	M/I	atG/atA	COSM745039	.	.	1	CNTNAP2	HGNC	13830	protein_coding	YES	CCDS5889.1	ENSP00000354778	CNTP2_HUMAN	Q9UDV4_HUMAN,Q96T77_HUMAN,Q86UL9_HUMAN,Q86UL6_HUMAN,Q86UL4_HUMAN,Q86UJ1_HUMAN,Q86UI8_HUMAN,Q75MQ9_HUMAN,Q75MF8_HUMAN,Q75MF6_HUMAN,Q75MD4_HUMAN,Q75MA1_HUMAN,Q75M92_HUMAN,Q75LG9_HUMAN,O75852_HUMAN,B7Z1Y6_HUMAN	UPI00001285FA	.	tolerated(0.15)	benign(0.008)	8/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF4,hmmpanther:PTHR10127,Gene3D:2.60.120.200,Pfam_domain:PF02210,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAGCCA	.	5	BLCA
TMEM176A	0	.	GRCh37	7	150501513	150501513	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619C>T	p.%3D	p.L207L	ENST00000484928	6/7	90	71	19	72	72	0	TMEM176A,synonymous_variant,p.%3D,ENST00000461345,;TMEM176A,synonymous_variant,p.%3D,ENST00000004103,;TMEM176A,synonymous_variant,p.%3D,ENST00000475536,;TMEM176A,synonymous_variant,p.%3D,ENST00000484928,;TMEM176B,upstream_gene_variant,,ENST00000447204,;TMEM176B,upstream_gene_variant,,ENST00000450753,;TMEM176B,upstream_gene_variant,,ENST00000326442,;TMEM176A,downstream_gene_variant,,ENST00000468689,;TMEM176B,upstream_gene_variant,,ENST00000434545,;TMEM176B,upstream_gene_variant,,ENST00000492607,;TMEM176A,non_coding_transcript_exon_variant,,ENST00000494349,;TMEM176A,non_coding_transcript_exon_variant,,ENST00000474166,;TMEM176A,non_coding_transcript_exon_variant,,ENST00000475007,;TMEM176A,intron_variant,,ENST00000462826,;TMEM176A,intron_variant,,ENST00000481305,;TMEM176A,downstream_gene_variant,,ENST00000475710,;	T	ENSG00000002933	ENST00000484928	Transcript	synonymous_variant	1200	619	207	L	Ctg/Ttg	.	.	.	1	TMEM176A	HGNC	24930	protein_coding	YES	CCDS5909.1	ENSP00000417626	T176A_HUMAN	C9JRT9_HUMAN,C9JJ63_HUMAN	UPI000006E9AA	.	.	.	6/7	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR15756:SF5,hmmpanther:PTHR15756,Pfam_domain:PF04103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CATCTCTGACC	.	3	BLCA
INTS1	0	.	GRCh37	7	1516545	1516545	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4948C>T	p.Gln1650Ter	p.Q1650*	ENST00000404767	36/48	10	6	4	15	15	0	INTS1,stop_gained,p.Gln1650Ter,ENST00000404767,;INTS1,stop_gained,p.Gln1849Ter,ENST00000389470,;INTS1,upstream_gene_variant,,ENST00000483196,;INTS1,upstream_gene_variant,,ENST00000493446,;INTS1,upstream_gene_variant,,ENST00000482994,;	A	ENSG00000164880	ENST00000404767	Transcript	stop_gained	5034	4948	1650	Q/*	Cag/Tag	.	.	.	-1	INTS1	HGNC	24555	protein_coding	YES	CCDS47526.1	ENSP00000385722	INT1_HUMAN	.	UPI0000D7211C	.	.	.	36/48	.	hmmpanther:PTHR21224:SF1,hmmpanther:PTHR21224	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCCTGACCTT	.	3	BLCA
KMT2C	0	.	GRCh37	7	151873855	151873855	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8683C>T	p.Gln2895Ter	p.Q2895*	ENST00000262189	38/59	54	37	17	86	86	0	KMT2C,stop_gained,p.Gln2895Ter,ENST00000355193,;KMT2C,stop_gained,p.Gln401Ter,ENST00000360104,;KMT2C,stop_gained,p.Gln2895Ter,ENST00000262189,;KMT2C,downstream_gene_variant,,ENST00000558665,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	8902	8683	2895	Q/*	Cag/Tag	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	38/59	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCCTGAATGA	.	5	BLCA
KMT2C	0	.	GRCh37	7	152009018	152009018	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.604C>T	p.Gln202Ter	p.Q202*	ENST00000262189	5/59	75	44	30	114	114	0	KMT2C,stop_gained,p.Gln202Ter,ENST00000355193,;KMT2C,stop_gained,p.Gln202Ter,ENST00000262189,;KMT2C,downstream_gene_variant,,ENST00000452749,;KMT2C,stop_gained,p.Gln202Ter,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000490130,;	A	ENSG00000055609	ENST00000262189	Transcript	stop_gained	823	604	202	Q/*	Cag/Tag	.	.	.	-1	KMT2C	HGNC	13726	protein_coding	YES	CCDS5931.1	ENSP00000262189	KMT2C_HUMAN	Q6N019_HUMAN,Q75MN6_HUMAN,H0YMU7_HUMAN	UPI0000141B9F	.	.	.	5/59	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGGAG	.	5	BLCA
DPP6	0	.	GRCh37	7	154684354	154684354	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*164G>A	.	.	ENST00000377770	26/26	10	5	5	9	9	0	DPP6,3_prime_UTR_variant,,ENST00000377770,;DPP6,3_prime_UTR_variant,,ENST00000332007,;DPP6,3_prime_UTR_variant,,ENST00000404039,;DPP6,downstream_gene_variant,,ENST00000427557,;DPP6,downstream_gene_variant,,ENST00000480367,;	A	ENSG00000130226	ENST00000377770	Transcript	3_prime_UTR_variant	2903	.	.	.	.	.	.	.	1	DPP6	HGNC	3010	protein_coding	YES	.	ENSP00000367001	DPP6_HUMAN	Q75MI8_HUMAN,Q75MI7_HUMAN,Q75MF0_HUMAN	UPI00001AE746	.	.	.	26/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACAAGCTCCT	.	2	BLCA
RNF32	0	.	GRCh37	7	156451171	156451171	+	Missense_Mutation	SNP	G	G	T	rs773471916	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.591G>T	p.Trp197Cys	p.W197C	ENST00000405335	8/10	63	38	25	75	75	0	RNF32,missense_variant,p.Trp197Cys,ENST00000405335,;RNF32,missense_variant,p.Trp197Cys,ENST00000432459,;RNF32,missense_variant,p.Trp197Cys,ENST00000404282,;RNF32,missense_variant,p.Trp197Cys,ENST00000317955,;RNF32,missense_variant,p.Trp197Cys,ENST00000392741,;RNF32,missense_variant,p.Trp197Cys,ENST00000311822,;RNF32,missense_variant,p.Trp197Cys,ENST00000392743,;RNF32,missense_variant,p.Trp173Cys,ENST00000343665,;AC005534.8,upstream_gene_variant,,ENST00000455709,;RNF32,non_coding_transcript_exon_variant,,ENST00000463028,;RNF32,non_coding_transcript_exon_variant,,ENST00000472537,;RNF32,non_coding_transcript_exon_variant,,ENST00000493999,;RNF32,non_coding_transcript_exon_variant,,ENST00000480011,;RNF32,3_prime_UTR_variant,,ENST00000392747,;RNF32,downstream_gene_variant,,ENST00000469382,;	T	ENSG00000105982	ENST00000405335	Transcript	missense_variant	1000	591	197	W/C	tgG/tgT	rs773471916	.	.	1	RNF32	HGNC	17118	protein_coding	YES	CCDS5944.1	ENSP00000385285	RNF32_HUMAN	Q8TDF9_HUMAN,E9PES2_HUMAN	UPI000006D015	.	deleterious(0)	probably_damaging(1)	8/10	.	PROSITE_profiles:PS50096,hmmpanther:PTHR14991,hmmpanther:PTHR14991:SF0,Pfam_domain:PF00612	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTGGAGAGG	byFrequency	5	BLCA
UBE3C	0	.	GRCh37	7	157046801	157046801	+	Missense_Mutation	SNP	G	G	A	rs752252293	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2848G>A	p.Glu950Lys	p.E950K	ENST00000348165	20/23	38	33	5	46	46	0	UBE3C,missense_variant,p.Glu950Lys,ENST00000348165,;UBE3C,non_coding_transcript_exon_variant,,ENST00000470408,;UBE3C,upstream_gene_variant,,ENST00000474153,;	A	ENSG00000009335	ENST00000348165	Transcript	missense_variant	3208	2848	950	E/K	Gag/Aag	rs752252293	.	.	1	UBE3C	HGNC	16803	protein_coding	YES	CCDS34789.1	ENSP00000309198	UBE3C_HUMAN	.	UPI000020E72A	.	deleterious(0.01)	probably_damaging(0.979)	20/23	.	Superfamily_domains:SSF56204,SMART_domains:SM00119,Pfam_domain:PF00632,hmmpanther:PTHR11254,hmmpanther:PTHR11254:SF85,PROSITE_profiles:PS50237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTCGAGTGG	.	4	BLCA
NCAPG2	0	.	GRCh37	7	158449047	158449047	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2293G>A	p.Glu765Lys	p.E765K	ENST00000409423	20/29	54	39	14	86	86	0	NCAPG2,missense_variant,p.Glu557Lys,ENST00000275830,;NCAPG2,missense_variant,p.Glu765Lys,ENST00000409423,;NCAPG2,missense_variant,p.Glu567Lys,ENST00000441982,;NCAPG2,missense_variant,p.Glu765Lys,ENST00000449727,;NCAPG2,missense_variant,p.Glu765Lys,ENST00000356309,;NCAPG2,missense_variant,p.Glu765Lys,ENST00000409339,;NCAPG2,missense_variant,p.Glu266Lys,ENST00000541468,;NCAPG2,downstream_gene_variant,,ENST00000475918,;NCAPG2,downstream_gene_variant,,ENST00000474940,;NCAPG2,3_prime_UTR_variant,,ENST00000432615,;NCAPG2,non_coding_transcript_exon_variant,,ENST00000467785,;	T	ENSG00000146918	ENST00000409423	Transcript	missense_variant	2466	2293	765	E/K	Gag/Aag	.	.	.	-1	NCAPG2	HGNC	21904	protein_coding	YES	CCDS43686.1	ENSP00000386569	CNDG2_HUMAN	.	UPI000000DA46	.	deleterious(0)	probably_damaging(0.989)	20/29	.	Pfam_domain:PF12422,hmmpanther:PTHR16199,hmmpanther:PTHR16199:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATACTCAATGT	.	5	BLCA
NCAPG2	0	.	GRCh37	7	158457292	158457292	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1630G>A	p.Val544Met	p.V544M	ENST00000409423	15/29	52	34	17	99	99	0	NCAPG2,missense_variant,p.Val336Met,ENST00000275830,;NCAPG2,missense_variant,p.Val544Met,ENST00000409423,;NCAPG2,missense_variant,p.Val346Met,ENST00000441982,;NCAPG2,missense_variant,p.Val544Met,ENST00000449727,;NCAPG2,missense_variant,p.Val544Met,ENST00000356309,;NCAPG2,missense_variant,p.Val544Met,ENST00000409339,;NCAPG2,missense_variant,p.Val45Met,ENST00000541468,;NCAPG2,non_coding_transcript_exon_variant,,ENST00000472591,;NCAPG2,non_coding_transcript_exon_variant,,ENST00000491792,;NCAPG2,non_coding_transcript_exon_variant,,ENST00000475918,;NCAPG2,non_coding_transcript_exon_variant,,ENST00000474940,;NCAPG2,3_prime_UTR_variant,,ENST00000432615,;NCAPG2,non_coding_transcript_exon_variant,,ENST00000467785,;	T	ENSG00000146918	ENST00000409423	Transcript	missense_variant	1803	1630	544	V/M	Gtg/Atg	.	.	.	-1	NCAPG2	HGNC	21904	protein_coding	YES	CCDS43686.1	ENSP00000386569	CNDG2_HUMAN	.	UPI000000DA46	.	deleterious(0)	benign(0.14)	15/29	.	hmmpanther:PTHR16199,hmmpanther:PTHR16199:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCACCAGGG	.	5	BLCA
ITGB8	0	.	GRCh37	7	20449356	20449356	+	Missense_Mutation	SNP	T	T	A	rs758083976	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2142T>A	p.Asn714Lys	p.N714K	ENST00000222573	13/14	179	113	65	173	173	0	ITGB8,missense_variant,p.Asn714Lys,ENST00000222573,;ITGB8,missense_variant,p.Asn579Lys,ENST00000537992,;	A	ENSG00000105855	ENST00000222573	Transcript	missense_variant	2826	2142	714	N/K	aaT/aaA	rs758083976	.	.	1	ITGB8	HGNC	6163	protein_coding	YES	CCDS5370.1	ENSP00000222573	ITB8_HUMAN	B4DHD4_HUMAN	UPI000012DA14	.	tolerated(0.44)	benign(0.075)	13/14	.	hmmpanther:PTHR10082:SF9,hmmpanther:PTHR10082,PIRSF_domain:PIRSF002512	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTAATAAAAT	byFrequency	5	BLCA
NUPL2	0	.	GRCh37	7	23221674	23221674	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>A	.	.	ENST00000258742	1/7	27	19	7	47	47	0	NUPL2,5_prime_UTR_variant,,ENST00000410002,;NUPL2,5_prime_UTR_variant,,ENST00000258742,;AC005082.1,intron_variant,,ENST00000366347,;KLHL7,downstream_gene_variant,,ENST00000339077,;NUPL2,upstream_gene_variant,,ENST00000413919,;NUPL2,non_coding_transcript_exon_variant,,ENST00000487595,;NUPL2,5_prime_UTR_variant,,ENST00000438012,;NUPL2,non_coding_transcript_exon_variant,,ENST00000485250,;NUPL2,non_coding_transcript_exon_variant,,ENST00000497500,;NUPL2,upstream_gene_variant,,ENST00000437140,;	A	ENSG00000136243	ENST00000258742	Transcript	5_prime_UTR_variant	229	.	.	.	.	.	.	.	1	NUPL2	HGNC	17010	protein_coding	YES	CCDS5379.1	ENSP00000258742	NUPL2_HUMAN	.	UPI0000072A3C	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACTGAAGAC	.	5	BLCA
GPNMB	0	.	GRCh37	7	23286337	23286337	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-140G>A	.	.	ENST00000381990	1/11	8	5	3	8	8	0	GPNMB,5_prime_UTR_variant,,ENST00000381990,;GPNMB,5_prime_UTR_variant,,ENST00000409458,;GPNMB,5_prime_UTR_variant,,ENST00000258733,;GPNMB,upstream_gene_variant,,ENST00000453162,;GPNMB,upstream_gene_variant,,ENST00000539136,;GPNMB,intron_variant,,ENST00000492858,;GPNMB,intron_variant,,ENST00000465673,;GPNMB,upstream_gene_variant,,ENST00000474157,;GPNMB,upstream_gene_variant,,ENST00000487890,;GPNMB,upstream_gene_variant,,ENST00000459927,;GPNMB,upstream_gene_variant,,ENST00000492512,;	A	ENSG00000136235	ENST00000381990	Transcript	5_prime_UTR_variant	22	.	.	.	.	.	.	.	1	GPNMB	HGNC	4462	protein_coding	YES	CCDS34610.1	ENSP00000371420	GPNMB_HUMAN	.	UPI000007158E	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACATGATCCT	.	2	BLCA
GPNMB	0	.	GRCh37	7	23309691	23309691	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1362G>A	p.%3D	p.V454V	ENST00000381990	9/11	50	29	21	58	58	0	GPNMB,synonymous_variant,p.%3D,ENST00000381990,;GPNMB,synonymous_variant,p.%3D,ENST00000453162,;GPNMB,synonymous_variant,p.%3D,ENST00000539136,;GPNMB,synonymous_variant,p.%3D,ENST00000258733,;GPNMB,non_coding_transcript_exon_variant,,ENST00000470994,;GPNMB,upstream_gene_variant,,ENST00000478451,;GPNMB,upstream_gene_variant,,ENST00000463011,;GPNMB,non_coding_transcript_exon_variant,,ENST00000479625,;GPNMB,upstream_gene_variant,,ENST00000468723,;	A	ENSG00000136235	ENST00000381990	Transcript	synonymous_variant	1523	1362	454	V	gtG/gtA	COSM3880273	.	.	1	GPNMB	HGNC	4462	protein_coding	YES	CCDS34610.1	ENSP00000371420	GPNMB_HUMAN	.	UPI000007158E	.	.	.	9/11	.	hmmpanther:PTHR11861,hmmpanther:PTHR11861:SF11	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTGAGACG	.	5	BLCA
MPP6	0	.	GRCh37	7	24727255	24727255	+	3'UTR	SNP	G	G	A	rs775839165	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*22G>A	.	.	ENST00000222644	12/12	46	27	19	61	61	0	MPP6,3_prime_UTR_variant,,ENST00000396475,;MPP6,3_prime_UTR_variant,,ENST00000222644,;MPP6,downstream_gene_variant,,ENST00000409761,;MPP6,3_prime_UTR_variant,,ENST00000464384,;	A	ENSG00000105926	ENST00000222644	Transcript	3_prime_UTR_variant	1895	.	.	.	.	rs775839165	.	.	1	MPP6	HGNC	18167	protein_coding	YES	CCDS5388.1	ENSP00000222644	MPP6_HUMAN	C9JGI8_HUMAN,C9J4Q3_HUMAN,B8ZZG1_HUMAN	UPI0000001C1B	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATGAAAAT	byFrequency	5	BLCA
DFNA5	0	.	GRCh37	7	24758713	24758713	+	Missense_Mutation	SNP	C	C	T	rs762267830	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.529G>A	p.Glu177Lys	p.E177K	ENST00000342947	4/10	72	48	23	97	97	0	DFNA5,missense_variant,p.Glu177Lys,ENST00000409775,;DFNA5,missense_variant,p.Glu177Lys,ENST00000342947,;DFNA5,missense_variant,p.Glu13Lys,ENST00000414428,;DFNA5,missense_variant,p.Glu13Lys,ENST00000545231,;DFNA5,missense_variant,p.Glu13Lys,ENST00000419307,;DFNA5,missense_variant,p.Glu13Lys,ENST00000409970,;DFNA5,missense_variant,p.Glu2Lys,ENST00000446822,;DFNA5,upstream_gene_variant,,ENST00000415480,;DFNA5,non_coding_transcript_exon_variant,,ENST00000559637,;DFNA5,missense_variant,p.Glu100Lys,ENST00000411476,;DFNA5,non_coding_transcript_exon_variant,,ENST00000493723,;	T	ENSG00000105928	ENST00000342947	Transcript	missense_variant	955	529	177	E/K	Gag/Aag	rs762267830	.	.	-1	DFNA5	HGNC	2810	protein_coding	YES	CCDS5389.1	ENSP00000339587	DFNA5_HUMAN	.	UPI00001291FC	.	tolerated(0.07)	possibly_damaging(0.87)	4/10	.	hmmpanther:PTHR15207:SF1,hmmpanther:PTHR15207,Pfam_domain:PF04598	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCGACCT	byFrequency	5	BLCA
HNRNPA2B1	0	.	GRCh37	7	26236058	26236058	+	Silent	SNP	G	G	A	rs75052951	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.657C>T	p.%3D	p.F219F	ENST00000354667	7/12	34	26	8	61	61	0	HNRNPA2B1,synonymous_variant,p.%3D,ENST00000354667,;HNRNPA2B1,synonymous_variant,p.%3D,ENST00000356674,;CBX3,upstream_gene_variant,,ENST00000337620,;HNRNPA2B1,upstream_gene_variant,,ENST00000476233,;HNRNPA2B1,synonymous_variant,p.%3D,ENST00000360787,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000490912,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000495810,;HNRNPA2B1,non_coding_transcript_exon_variant,,ENST00000463181,;	A	ENSG00000122566	ENST00000354667	Transcript	synonymous_variant	826	657	219	F	ttC/ttT	rs75052951	.	.	-1	HNRNPA2B1	HGNC	5033	protein_coding	YES	CCDS43557.1	ENSP00000346694	ROA2_HUMAN	.	UPI000002F091	.	.	.	7/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24012:SF329,hmmpanther:PTHR24012	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTCCGAAATT	byCluster|by1000G	5	BLCA
CBX3	0	.	GRCh37	7	26251321	26251321	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.370G>A	p.Glu124Lys	p.E124K	ENST00000337620	5/6	52	35	16	65	65	0	CBX3,missense_variant,p.Glu124Lys,ENST00000337620,;CBX3,missense_variant,p.Glu124Lys,ENST00000396386,;CBX3,synonymous_variant,p.%3D,ENST00000409747,;CBX3,downstream_gene_variant,,ENST00000462165,;CBX3,downstream_gene_variant,,ENST00000456948,;CBX3,non_coding_transcript_exon_variant,,ENST00000497498,;CBX3,non_coding_transcript_exon_variant,,ENST00000481057,;CBX3,downstream_gene_variant,,ENST00000481300,;	A	ENSG00000122565	ENST00000337620	Transcript	missense_variant	798	370	124	E/K	Gaa/Aaa	.	.	.	1	CBX3	HGNC	1553	protein_coding	YES	CCDS5398.1	ENSP00000336687	CBX3_HUMAN	A4D177_HUMAN,C9JMM0_HUMAN	UPI0000028565	.	deleterious(0.02)	benign(0.198)	5/6	.	PROSITE_profiles:PS50013,hmmpanther:PTHR22812:SF86,hmmpanther:PTHR22812,Pfam_domain:PF01393,Gene3D:2.40.50.40,SMART_domains:SM00298,SMART_domains:SM00300,Superfamily_domains:SSF54160	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTGAAAGA	.	5	BLCA
SKAP2	0	.	GRCh37	7	26904128	26904128	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-80C>T	.	.	ENST00000345317	1/13	13	10	3	16	16	0	SKAP2,5_prime_UTR_variant,,ENST00000345317,;SKAP2,intron_variant,,ENST00000432747,;SKAP2,non_coding_transcript_exon_variant,,ENST00000497511,;SKAP2,non_coding_transcript_exon_variant,,ENST00000487720,;SKAP2,intron_variant,,ENST00000481204,;	A	ENSG00000005020	ENST00000345317	Transcript	5_prime_UTR_variant	235	.	.	.	.	.	.	.	-1	SKAP2	HGNC	15687	protein_coding	YES	CCDS5400.1	ENSP00000005587	SKAP2_HUMAN	B7Z5R3_HUMAN	UPI0000073C8C	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTAGACTCA	.	2	BLCA
HOXA5	0	.	GRCh37	7	27182779	27182779	+	Missense_Mutation	SNP	C	C	T	rs764896847	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.448G>A	p.Glu150Lys	p.E150K	ENST00000222726	1/2	60	37	22	89	89	0	HOXA5,missense_variant,p.Glu150Lys,ENST00000222726,;HOXA3,upstream_gene_variant,,ENST00000522788,;HOXA6,downstream_gene_variant,,ENST00000222728,;HOXA3,upstream_gene_variant,,ENST00000521779,;HOXA-AS3,intron_variant,,ENST00000521197,;HOXA-AS3,intron_variant,,ENST00000518848,;HOXA-AS3,upstream_gene_variant,,ENST00000518947,;HOXA-AS3,upstream_gene_variant,,ENST00000521231,;HOXA3,intron_variant,,ENST00000518451,;RP1-170O19.22,intron_variant,,ENST00000467897,;HOXA3,upstream_gene_variant,,ENST00000521401,;HOXA6,downstream_gene_variant,,ENST00000521478,;RP1-170O19.23,downstream_gene_variant,,ENST00000498652,;HOXA5,upstream_gene_variant,,ENST00000520854,;	T	ENSG00000106004	ENST00000222726	Transcript	missense_variant	509	448	150	E/K	Gag/Aag	rs764896847,COSM600788	.	.	-1	HOXA5	HGNC	5106	protein_coding	YES	CCDS5406.1	ENSP00000222726	HXA5_HUMAN	.	UPI000006CEBE	.	tolerated(0.19)	benign(0.121)	1/2	.	hmmpanther:PTHR24326:SF166,hmmpanther:PTHR24326,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCGGCTC	.	5	BLCA
HOXA7	0	.	GRCh37	7	27194647	27194647	+	Missense_Mutation	SNP	C	C	T	rs770523270	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.574G>A	p.Glu192Lys	p.E192K	ENST00000242159	2/2	98	64	34	147	147	0	HOXA7,missense_variant,p.Glu192Lys,ENST00000242159,;HOXA7,downstream_gene_variant,,ENST00000519842,;RP1-170O19.21,upstream_gene_variant,,ENST00000602610,;HOXA-AS3,non_coding_transcript_exon_variant,,ENST00000518947,;HOXA-AS3,downstream_gene_variant,,ENST00000521197,;HOXA-AS3,downstream_gene_variant,,ENST00000524304,;HOXA-AS3,downstream_gene_variant,,ENST00000521231,;HOXA-AS3,downstream_gene_variant,,ENST00000518848,;HOXA7,non_coding_transcript_exon_variant,,ENST00000523796,;HOXA6,upstream_gene_variant,,ENST00000521478,;HOXA3,upstream_gene_variant,,ENST00000518451,;RP1-170O19.23,upstream_gene_variant,,ENST00000498652,;RP1-170O19.22,upstream_gene_variant,,ENST00000467897,;	T	ENSG00000122592	ENST00000242159	Transcript	missense_variant	708	574	192	E/K	Gaa/Aaa	rs770523270,COSM3637739	.	.	-1	HOXA7	HGNC	5108	protein_coding	YES	CCDS5408.1	ENSP00000242159	HXA7_HUMAN	E5RHM9_HUMAN	UPI000013CAF3	.	tolerated(0.37)	unknown(0)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24326:SF163,hmmpanther:PTHR24326,SMART_domains:SM00389	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCGTCCT	.	5	BLCA
HOXA7	0	.	GRCh37	7	27195849	27195849	+	Missense_Mutation	SNP	C	C	T	rs779561079	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.316G>A	p.Glu106Lys	p.E106K	ENST00000242159	1/2	16	9	7	13	13	0	HOXA7,missense_variant,p.Glu106Lys,ENST00000242159,;HOXA7,downstream_gene_variant,,ENST00000519842,;RP1-170O19.21,upstream_gene_variant,,ENST00000602610,;HOXA-AS3,downstream_gene_variant,,ENST00000521197,;HOXA-AS3,downstream_gene_variant,,ENST00000524304,;HOXA-AS3,downstream_gene_variant,,ENST00000518947,;HOXA-AS3,downstream_gene_variant,,ENST00000521231,;HOXA-AS3,downstream_gene_variant,,ENST00000518848,;HOXA7,upstream_gene_variant,,ENST00000523796,;HOXA3,upstream_gene_variant,,ENST00000518451,;RP1-170O19.22,upstream_gene_variant,,ENST00000467897,;RP1-170O19.23,upstream_gene_variant,,ENST00000498652,;	T	ENSG00000122592	ENST00000242159	Transcript	missense_variant	450	316	106	E/K	Gag/Aag	rs779561079	.	.	-1	HOXA7	HGNC	5108	protein_coding	YES	CCDS5408.1	ENSP00000242159	HXA7_HUMAN	E5RHM9_HUMAN	UPI000013CAF3	.	tolerated(0.73)	benign(0.015)	1/2	.	hmmpanther:PTHR24326:SF163,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGTCCG	byFrequency	5	BLCA
HOXA10	0	.	GRCh37	7	27211649	27211649	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1102G>A	p.Glu368Lys	p.E368K	ENST00000283921	2/2	89	58	31	104	104	0	HOXA10,missense_variant,p.Glu52Lys,ENST00000396344,;HOXA10,missense_variant,p.Glu368Lys,ENST00000283921,;RP1-170O19.20,intron_variant,,ENST00000470747,;MIR196B,upstream_gene_variant,,ENST00000384852,;HOXA10-AS,downstream_gene_variant,,ENST00000519694,;HOXA10-AS,downstream_gene_variant,,ENST00000523790,;HOXA10-AS,downstream_gene_variant,,ENST00000519935,;HOXA10,non_coding_transcript_exon_variant,,ENST00000519593,;HOXA10,non_coding_transcript_exon_variant,,ENST00000521421,;HOXA10,non_coding_transcript_exon_variant,,ENST00000524368,;RP1-170O19.20,intron_variant,,ENST00000465941,;HOXA9,upstream_gene_variant,,ENST00000489695,;HOXA9,upstream_gene_variant,,ENST00000497089,;HOXA9,upstream_gene_variant,,ENST00000487384,;	T	ENSG00000253293	ENST00000283921	Transcript	missense_variant	1102	1102	368	E/K	Gag/Aag	.	.	.	-1	HOXA10	HGNC	5100	protein_coding	YES	CCDS5410.2	ENSP00000283921	HXA10_HUMAN	.	UPI0000EE42DA	.	deleterious(0)	probably_damaging(0.999)	2/2	.	PROSITE_profiles:PS50071,hmmpanther:PTHR24326,hmmpanther:PTHR24326:SF139,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689,Prints_domain:PR00024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCTAGGC	.	5	BLCA
GNA12	0	.	GRCh37	7	2770717	2770717	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*98C>T	.	.	ENST00000275364	4/4	14	11	3	21	21	0	GNA12,3_prime_UTR_variant,,ENST00000275364,;GNA12,3_prime_UTR_variant,,ENST00000544127,;GNA12,3_prime_UTR_variant,,ENST00000396960,;GNA12,3_prime_UTR_variant,,ENST00000407653,;GNA12,3_prime_UTR_variant,,ENST00000407904,;GNA12,non_coding_transcript_exon_variant,,ENST00000491117,;GNA12,non_coding_transcript_exon_variant,,ENST00000471281,;GNA12,non_coding_transcript_exon_variant,,ENST00000496740,;AMZ1,intron_variant,,ENST00000489665,;GNA12,downstream_gene_variant,,ENST00000485329,;	A	ENSG00000146535	ENST00000275364	Transcript	3_prime_UTR_variant	1407	.	.	.	.	.	.	.	-1	GNA12	HGNC	4380	protein_coding	YES	CCDS5335.1	ENSP00000275364	GNA12_HUMAN	.	UPI000013DA5B	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCGAGAAACC	.	2	BLCA
ZNRF2	0	.	GRCh37	7	30329483	30329483	+	Intron	SNP	C	C	T	rs757638598	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.469+4041C>T	.	.	ENST00000323037	.	32	27	5	55	55	0	ZNRF2,intron_variant,,ENST00000323037,;MIR550A1,non_coding_transcript_exon_variant,,ENST00000385037,;ZNRF2,downstream_gene_variant,,ENST00000459998,;	T	ENSG00000180233	ENST00000323037	Transcript	intron_variant	.	.	.	.	.	rs757638598	.	.	1	ZNRF2	HGNC	22316	protein_coding	YES	CCDS5426.1	ENSP00000323879	ZNRF2_HUMAN	.	UPI000006DDF0	.	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTCAGGCA	byFrequency	4	BLCA
FAM188B	0	.	GRCh37	7	30818144	30818144	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.160G>A	p.Glu54Lys	p.E54K	ENST00000265299	2/18	67	44	23	86	86	0	FAM188B,missense_variant,p.Glu54Lys,ENST00000265299,;INMT-FAM188B,3_prime_UTR_variant,,ENST00000458257,;INMT-FAM188B,3_prime_UTR_variant,,ENST00000451002,;FAM188B,upstream_gene_variant,,ENST00000494187,;	A	ENSG00000106125	ENST00000265299	Transcript	missense_variant	237	160	54	E/K	Gaa/Aaa	COSM1089097	.	.	1	FAM188B	HGNC	21916	protein_coding	YES	CCDS43565.1	ENSP00000265299	F188B_HUMAN	.	UPI0000D60E7B	.	deleterious(0.03)	possibly_damaging(0.589)	2/18	.	hmmpanther:PTHR12473,hmmpanther:PTHR12473:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTTGAATTT	.	5	BLCA
KBTBD2	0	.	GRCh37	7	32909696	32909696	+	Missense_Mutation	SNP	C	C	A	rs541661433	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1133G>T	p.Cys378Phe	p.C378F	ENST00000304056	4/4	104	83	21	126	126	0	KBTBD2,missense_variant,p.Cys378Phe,ENST00000304056,;AVL9,intron_variant,,ENST00000404479,;KBTBD2,downstream_gene_variant,,ENST00000485611,;KBTBD2,downstream_gene_variant,,ENST00000477129,;	A	ENSG00000170852	ENST00000304056	Transcript	missense_variant	1833	1133	378	C/F	tGt/tTt	rs541661433	.	.	-1	KBTBD2	HGNC	21751	protein_coding	YES	CCDS34614.1	ENSP00000302586	KBTB2_HUMAN	C9JZ29_HUMAN,C9JI11_HUMAN	UPI0000036156	.	deleterious(0.01)	possibly_damaging(0.908)	4/4	.	hmmpanther:PTHR24412:SF124,hmmpanther:PTHR24412,Pfam_domain:PF01344,Gene3D:1zgkA00,PIRSF_domain:PIRSF037037,SMART_domains:SM00612,Superfamily_domains:0052715	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCACAGCAA	by1000G	5	BLCA
BBS9	0	.	GRCh37	7	33545228	33545228	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2269C>T	p.%3D	p.L757L	ENST00000242067	20/23	63	35	28	75	75	0	BBS9,synonymous_variant,p.%3D,ENST00000242067,;BBS9,synonymous_variant,p.%3D,ENST00000434373,;BBS9,synonymous_variant,p.%3D,ENST00000350941,;BBS9,synonymous_variant,p.%3D,ENST00000396127,;BBS9,synonymous_variant,p.%3D,ENST00000355070,;BBS9,synonymous_variant,p.%3D,ENST00000354265,;BBS9,non_coding_transcript_exon_variant,,ENST00000489708,;BBS9,3_prime_UTR_variant,,ENST00000433714,;BBS9,non_coding_transcript_exon_variant,,ENST00000495426,;	T	ENSG00000122507	ENST00000242067	Transcript	synonymous_variant	2790	2269	757	L	Ctg/Ttg	COSM3778410,COSM600881,COSM600880,COSM3778409,COSM3778411	.	.	1	BBS9	HGNC	30000	protein_coding	YES	CCDS43566.1	ENSP00000242067	PTHB1_HUMAN	C9JRR5_HUMAN,C9JJ08_HUMAN	UPI000020ED57	.	.	.	20/23	.	Pfam_domain:PF14728,hmmpanther:PTHR20991:SF0,hmmpanther:PTHR20991	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATTTCTGCCG	.	5	BLCA
AOAH	0	.	GRCh37	7	36660395	36660395	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694G>A	p.Gly232Ser	p.G232S	ENST00000258749	9/21	49	35	14	66	66	0	AOAH,missense_variant,p.Gly200Ser,ENST00000535891,;AOAH,missense_variant,p.Gly232Ser,ENST00000431169,;AOAH,missense_variant,p.Gly232Ser,ENST00000258749,;AOAH,downstream_gene_variant,,ENST00000543742,;	T	ENSG00000136250	ENST00000258749	Transcript	missense_variant	1094	694	232	G/S	Ggc/Agc	.	.	.	-1	AOAH	HGNC	548	protein_coding	YES	CCDS5448.1	ENSP00000258749	AOAH_HUMAN	.	UPI0000001291	.	deleterious(0.01)	probably_damaging(1)	9/21	.	hmmpanther:PTHR15010	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGCCATTAC	.	5	BLCA
EPDR1	0	.	GRCh37	7	37960245	37960245	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-297G>A	.	.	ENST00000199448	1/3	22	13	9	17	17	0	EPDR1,missense_variant,p.Glu22Lys,ENST00000559325,;EPDR1,5_prime_UTR_variant,,ENST00000199448,;SFRP4,intron_variant,,ENST00000447200,;EPDR1,intron_variant,,ENST00000476620,;EPDR1,upstream_gene_variant,,ENST00000425345,;EPDR1,upstream_gene_variant,,ENST00000423717,;SFRP4,upstream_gene_variant,,ENST00000436072,;	A	ENSG00000086289	ENST00000199448	Transcript	5_prime_UTR_variant	83	.	.	.	.	.	.	.	1	EPDR1	HGNC	17572	protein_coding	YES	CCDS5454.2	ENSP00000199448	EPDR1_HUMAN	D6RIH7_HUMAN	UPI000012EF12	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCAGTGAAAAC	.	4	BLCA
VPS41	0	.	GRCh37	7	38908784	38908784	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130C>T	p.Gln44Ter	p.Q44*	ENST00000310301	3/29	71	40	30	76	76	0	VPS41,stop_gained,p.Gln44Ter,ENST00000310301,;VPS41,stop_gained,p.Gln31Ter,ENST00000414632,;VPS41,stop_gained,p.Gln44Ter,ENST00000395969,;VPS41,5_prime_UTR_variant,,ENST00000457055,;VPS41,5_prime_UTR_variant,,ENST00000418457,;VPS41,stop_gained,p.Gln44Ter,ENST00000265745,;	A	ENSG00000006715	ENST00000310301	Transcript	stop_gained	185	130	44	Q/*	Cag/Tag	.	.	.	-1	VPS41	HGNC	12713	protein_coding	YES	CCDS5457.1	ENSP00000309457	VPS41_HUMAN	Q75MS2_HUMAN,C9J2U9_HUMAN	UPI000000DAB7	.	.	.	3/29	.	hmmpanther:PTHR12616,PIRSF_domain:PIRSF028921	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTGAAGTA	.	5	BLCA
HECW1	0	.	GRCh37	7	43531715	43531715	+	Silent	SNP	C	C	A	rs534210488	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3276C>A	p.%3D	p.A1092A	ENST00000395891	18/30	30	14	16	48	48	0	HECW1,synonymous_variant,p.%3D,ENST00000453890,;HECW1,synonymous_variant,p.%3D,ENST00000395891,;HECW1,intron_variant,,ENST00000429529,;	A	ENSG00000002746	ENST00000395891	Transcript	synonymous_variant	3881	3276	1092	A	gcC/gcA	rs534210488	.	.	1	HECW1	HGNC	22195	protein_coding	YES	CCDS5469.2	ENSP00000379228	HECW1_HUMAN	A4D1V5_HUMAN	UPI0000D74C41	.	.	.	18/30	.	hmmpanther:PTHR11254:SF79,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGCCAGGCC	byFrequency|byCluster	5	BLCA
STK17A	0	.	GRCh37	7	43663315	43663315	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>A	p.Gly250Arg	p.G250R	ENST00000319357	6/7	109	75	33	156	156	0	STK17A,missense_variant,p.Gly250Arg,ENST00000319357,;STK17A,downstream_gene_variant,,ENST00000462448,;STK17A,non_coding_transcript_exon_variant,,ENST00000474211,;COA1,intron_variant,,ENST00000415076,;COA1,intron_variant,,ENST00000446564,;COA1,intron_variant,,ENST00000446330,;	A	ENSG00000164543	ENST00000319357	Transcript	missense_variant	927	748	250	G/R	Gga/Aga	.	.	.	1	STK17A	HGNC	11395	protein_coding	YES	CCDS5470.1	ENSP00000319192	ST17A_HUMAN	Q86UI9_HUMAN,Q75MK4_HUMAN	UPI00001405A1	.	deleterious(0.05)	probably_damaging(0.97)	6/7	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24342,hmmpanther:PTHR24342:SF6,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTGGAGTG	.	5	BLCA
ZMIZ2	0	.	GRCh37	7	44804047	44804047	+	Silent	SNP	C	C	T	rs760094901	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1890C>T	p.%3D	p.L630L	ENST00000309315	14/19	29	18	11	52	52	0	ZMIZ2,synonymous_variant,p.%3D,ENST00000265346,;ZMIZ2,synonymous_variant,p.%3D,ENST00000433667,;ZMIZ2,synonymous_variant,p.%3D,ENST00000413916,;ZMIZ2,synonymous_variant,p.%3D,ENST00000441627,;ZMIZ2,synonymous_variant,p.%3D,ENST00000309315,;ZMIZ2,non_coding_transcript_exon_variant,,ENST00000492558,;ZMIZ2,upstream_gene_variant,,ENST00000463931,;ZMIZ2,non_coding_transcript_exon_variant,,ENST00000463056,;ZMIZ2,non_coding_transcript_exon_variant,,ENST00000480964,;ZMIZ2,non_coding_transcript_exon_variant,,ENST00000478045,;ZMIZ2,upstream_gene_variant,,ENST00000482322,;	T	ENSG00000122515	ENST00000309315	Transcript	synonymous_variant	2013	1890	630	L	ctC/ctT	rs760094901	.	.	1	ZMIZ2	HGNC	22229	protein_coding	YES	CCDS43576.1	ENSP00000311778	ZMIZ2_HUMAN	C9JDA5_HUMAN,B3KR25_HUMAN	UPI00001D747B	.	.	.	14/19	.	PROSITE_profiles:PS51044,hmmpanther:PTHR10782,hmmpanther:PTHR10782:SF38,Pfam_domain:PF02891,Gene3D:3.30.40.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCAACTG	.	5	BLCA
PPIA	0	.	GRCh37	7	44839457	44839457	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.346A>G	p.Thr116Ala	p.T116A	ENST00000468812	4/5	79	58	21	72	70	1	PPIA,missense_variant,p.Thr56Ala,ENST00000489459,;PPIA,missense_variant,p.Thr116Ala,ENST00000468812,;PPIA,missense_variant,p.Thr56Ala,ENST00000355968,;PPIA,missense_variant,p.Thr116Ala,ENST00000451562,;PPIA,non_coding_transcript_exon_variant,,ENST00000480603,;PPIA,missense_variant,p.Thr116Ala,ENST00000415933,;PPIA,non_coding_transcript_exon_variant,,ENST00000494484,;PPIA,intron_variant,,ENST00000479021,;PPIA,downstream_gene_variant,,ENST00000481437,;	G	ENSG00000196262	ENST00000468812	Transcript	missense_variant	391	346	116	T/A	Act/Gct	.	.	.	1	PPIA	HGNC	9253	protein_coding	YES	CCDS5494.1	ENSP00000419425	PPIA_HUMAN	Q567Q0_HUMAN,F8WE65_HUMAN,C9J5S7_HUMAN	UPI000003AF82	.	tolerated_low_confidence(0.07)	benign(0.064)	4/5	.	PROSITE_profiles:PS50072,hmmpanther:PTHR11071:SF237,hmmpanther:PTHR11071,Pfam_domain:PF00160,Gene3D:2.40.100.10,PIRSF_domain:PIRSF001467,Superfamily_domains:SSF50891,Prints_domain:PR00153	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGCACTGCC	.	5	BLCA
PKD1L1	0	.	GRCh37	7	47835722	47835722	+	Silent	SNP	G	G	T	rs750883247	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8220C>A	p.%3D	p.P2740P	ENST00000289672	55/57	45	36	8	47	47	0	PKD1L1,synonymous_variant,p.%3D,ENST00000289672,;C7orf69,intron_variant,,ENST00000418326,;C7orf69,intron_variant,,ENST00000258776,;HUS1,intron_variant,,ENST00000436444,;	T	ENSG00000158683	ENST00000289672	Transcript	synonymous_variant	8271	8220	2740	P	ccC/ccA	rs750883247	.	.	-1	PKD1L1	HGNC	18053	protein_coding	YES	CCDS34633.1	ENSP00000289672	PK1L1_HUMAN	.	UPI0000130FA9	.	.	.	55/57	.	hmmpanther:PTHR10877,hmmpanther:PTHR10877:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTGGGGTAA	.	5	BLCA
COBL	0	.	GRCh37	7	51095733	51095733	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3060C>G	p.Asp1020Glu	p.D1020E	ENST00000265136	10/13	33	22	11	33	33	0	COBL,missense_variant,p.Asp905Glu,ENST00000431948,;COBL,missense_variant,p.Asp1020Glu,ENST00000265136,;COBL,missense_variant,p.Asp1102Glu,ENST00000395542,;COBL,missense_variant,p.Asp912Glu,ENST00000445054,;COBL,downstream_gene_variant,,ENST00000452534,;COBL,non_coding_transcript_exon_variant,,ENST00000462395,;	C	ENSG00000106078	ENST00000265136	Transcript	missense_variant	3226	3060	1020	D/E	gaC/gaG	.	.	.	-1	COBL	HGNC	22199	protein_coding	YES	CCDS34637.1	ENSP00000265136	COBL_HUMAN	C9J9X1_HUMAN	UPI00001A9480	.	tolerated(1)	benign(0.004)	10/13	.	hmmpanther:PTHR21557,hmmpanther:PTHR21557:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGGGTCTGT	.	5	BLCA
EGFR	0	.	GRCh37	7	55241709	55241709	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2157C>A	p.%3D	p.G719G	ENST00000275493	18/28	45	32	13	45	45	0	EGFR,synonymous_variant,p.%3D,ENST00000454757,;EGFR,synonymous_variant,p.%3D,ENST00000275493,;EGFR,synonymous_variant,p.%3D,ENST00000455089,;EGFR,intron_variant,,ENST00000442591,;EGFR,downstream_gene_variant,,ENST00000344576,;	A	ENSG00000146648	ENST00000275493	Transcript	synonymous_variant	2334	2157	719	G	ggC/ggA	.	.	.	1	EGFR	HGNC	3236	protein_coding	YES	CCDS5514.1	ENSP00000275493	EGFR_HUMAN	Q75MF2_HUMAN,I3WA73_HUMAN,I3WA72_HUMAN,G9MC81_HUMAN,F1JTL6_HUMAN,E9PFD7_HUMAN,C9JYS6_HUMAN,A7VN06_HUMAN	UPI000003E750	.	.	.	18/28	.	Superfamily_domains:SSF56112,PIRSF_domain:PIRSF000619,SMART_domains:SM00219,Gene3D:3.30.200.20,Pfam_domain:PF07714,PROSITE_patterns:PS00107,hmmpanther:PTHR24416:SF91,hmmpanther:PTHR24416,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G719C|c.2155G>T|27,BUFFER|p.G719S|c.2155G>A|37,BUFFER|p.G719A|c.2156G>C|50,BUFFER|p.G719D|c.2156G>A|9,BUFFER|p.S720F|c.2159C>T|5,BUFFER|p.G721S|c.2161G>A|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGGCTCCGG	.	5	BLCA
ACTB	0	.	GRCh37	7	5568242	5568242	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.472G>A	p.Gly158Arg	p.G158R	ENST00000331789	4/6	97	69	28	109	109	0	ACTB,missense_variant,p.Gly158Arg,ENST00000432588,;ACTB,missense_variant,p.Gly158Arg,ENST00000331789,;ACTB,downstream_gene_variant,,ENST00000443528,;ACTB,downstream_gene_variant,,ENST00000414620,;ACTB,downstream_gene_variant,,ENST00000417101,;AC006483.1,upstream_gene_variant,,ENST00000579427,;ACTB,non_coding_transcript_exon_variant,,ENST00000473257,;ACTB,upstream_gene_variant,,ENST00000464611,;ACTB,3_prime_UTR_variant,,ENST00000425660,;ACTB,non_coding_transcript_exon_variant,,ENST00000493945,;ACTB,non_coding_transcript_exon_variant,,ENST00000477812,;ACTB,non_coding_transcript_exon_variant,,ENST00000462494,;ACTB,non_coding_transcript_exon_variant,,ENST00000484841,;ACTB,downstream_gene_variant,,ENST00000480301,;	T	ENSG00000075624	ENST00000331789	Transcript	missense_variant	664	472	158	G/R	Ggg/Agg	COSM1313190	.	.	-1	ACTB	HGNC	132	protein_coding	YES	CCDS5341.1	ENSP00000349960	ACTB_HUMAN	Q9UE89_HUMAN,Q96FU6_HUMAN,Q96DE1_HUMAN,Q6PJ43_HUMAN,Q562Z7_HUMAN,Q1KLZ0_HUMAN,E7EVS6_HUMAN,C9JZR7_HUMAN,C9JTX5_HUMAN,B4E335_HUMAN,B3KWQ3_HUMAN,A5GZ75_HUMAN,A4UCT3_HUMAN,A1E282_HUMAN	UPI000000082D	.	deleterious_low_confidence(0.02)	probably_damaging(1)	4/6	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF187,Pfam_domain:PF00022,Gene3D:3.30.420.40,SMART_domains:SM00268,Superfamily_domains:SSF53067,Prints_domain:PR00190	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.G158R|c.472G>A|5	RADIA|MUTECT|MUSE	GACCCCGTCAC	.	3	BLCA
ACTB	0	.	GRCh37	7	5568250	5568250	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.464C>T	p.Ser155Phe	p.S155F	ENST00000331789	4/6	99	71	28	106	106	0	ACTB,missense_variant,p.Ser155Phe,ENST00000432588,;ACTB,missense_variant,p.Ser155Phe,ENST00000331789,;ACTB,downstream_gene_variant,,ENST00000443528,;ACTB,downstream_gene_variant,,ENST00000414620,;ACTB,downstream_gene_variant,,ENST00000417101,;AC006483.1,upstream_gene_variant,,ENST00000579427,;ACTB,non_coding_transcript_exon_variant,,ENST00000473257,;ACTB,upstream_gene_variant,,ENST00000464611,;ACTB,3_prime_UTR_variant,,ENST00000425660,;ACTB,non_coding_transcript_exon_variant,,ENST00000493945,;ACTB,non_coding_transcript_exon_variant,,ENST00000477812,;ACTB,non_coding_transcript_exon_variant,,ENST00000462494,;ACTB,non_coding_transcript_exon_variant,,ENST00000484841,;ACTB,downstream_gene_variant,,ENST00000480301,;	A	ENSG00000075624	ENST00000331789	Transcript	missense_variant	656	464	155	S/F	tCc/tTc	.	.	.	-1	ACTB	HGNC	132	protein_coding	YES	CCDS5341.1	ENSP00000349960	ACTB_HUMAN	Q9UE89_HUMAN,Q96FU6_HUMAN,Q96DE1_HUMAN,Q6PJ43_HUMAN,Q562Z7_HUMAN,Q1KLZ0_HUMAN,E7EVS6_HUMAN,C9JZR7_HUMAN,C9JTX5_HUMAN,B4E335_HUMAN,B3KWQ3_HUMAN,A5GZ75_HUMAN,A4UCT3_HUMAN,A1E282_HUMAN	UPI000000082D	.	deleterious_low_confidence(0)	probably_damaging(1)	4/6	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF187,Pfam_domain:PF00022,Gene3D:3.30.420.40,SMART_domains:SM00268,Superfamily_domains:SSF53067,Prints_domain:PR00190	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G158R|c.472G>A|5	RADIA|MUTECT|MUSE	CACCGGAGTCC	.	3	BLCA
ZNF733P	0	.	GRCh37	7	62752833	62752833	+	RNA	SNP	T	T	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.636A>T	.	.	ENST00000444809	4/4	34	25	9	31	31	0	ZNF733P,non_coding_transcript_exon_variant,,ENST00000331425,;ZNF733P,non_coding_transcript_exon_variant,,ENST00000444809,;	A	ENSG00000185037	ENST00000444809	Transcript	non_coding_transcript_exon_variant	636	.	.	.	.	.	.	.	-1	ZNF733P	HGNC	32473	transcribed_unprocessed_pseudogene	YES	.	.	.	.	.	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGACTTCTCC	.	4	BLCA
SNORA22	0	.	GRCh37	7	65220870	65220870	+	3'Flank	SNP	A	A	G	rs550218584	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000383907	.	23	18	5	34	34	0	SNORA22,downstream_gene_variant,,ENST00000383907,;SNORA15,upstream_gene_variant,,ENST00000384058,;CCT6P1,non_coding_transcript_exon_variant,,ENST00000442266,;CCT6P1,non_coding_transcript_exon_variant,,ENST00000443108,;CCT6P1,non_coding_transcript_exon_variant,,ENST00000434500,;	G	ENSG00000206634	ENST00000383907	Transcript	downstream_gene_variant	.	.	.	.	.	rs550218584	.	224	1	SNORA22	HGNC	32612	snoRNA	YES	.	.	.	.	.	.	.	.	.	.	.	T:0.0006	T:0	T:0.0043	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|VARSCANS	GAAACACTTAA	byFrequency|by1000G	4	BLCA
FKBP6	0	.	GRCh37	7	72744265	72744265	+	Silent	SNP	G	G	A	rs782219723	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378G>A	p.%3D	p.L126L	ENST00000252037	4/9	63	46	17	104	104	0	FKBP6,synonymous_variant,p.%3D,ENST00000252037,;FKBP6,synonymous_variant,p.%3D,ENST00000413573,;FKBP6,synonymous_variant,p.%3D,ENST00000431982,;FKBP6,synonymous_variant,p.%3D,ENST00000442793,;TRIM50,upstream_gene_variant,,ENST00000333149,;TRIM50,upstream_gene_variant,,ENST00000453152,;TRIM50,upstream_gene_variant,,ENST00000493498,;FKBP6,synonymous_variant,p.%3D,ENST00000429879,;FKBP6,3_prime_UTR_variant,,ENST00000445032,;FKBP6,downstream_gene_variant,,ENST00000437013,;	A	ENSG00000077800	ENST00000252037	Transcript	synonymous_variant	447	378	126	L	ttG/ttA	rs782219723	.	.	1	FKBP6	HGNC	3722	protein_coding	YES	CCDS43595.1	ENSP00000252037	FKBP6_HUMAN	.	UPI000000165F	.	.	.	4/9	.	PROSITE_profiles:PS50059,hmmpanther:PTHR10516:SF10,hmmpanther:PTHR10516,Pfam_domain:PF00254,Gene3D:3.10.50.40,Superfamily_domains:SSF54534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTGATCCC	.	5	BLCA
WBSCR28	0	.	GRCh37	7	73279364	73279364	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>T	p.%3D	p.L38L	ENST00000320531	2/3	338	235	103	452	452	0	WBSCR28,synonymous_variant,p.%3D,ENST00000320531,;WBSCR28,3_prime_UTR_variant,,ENST00000426490,;	T	ENSG00000175877	ENST00000320531	Transcript	synonymous_variant	150	114	38	L	ctC/ctT	.	.	.	1	WBSCR28	HGNC	23018	protein_coding	YES	CCDS43597.1	ENSP00000316775	WBS28_HUMAN	.	UPI00001408E5	.	.	.	2/3	.	Pfam_domain:PF15164	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCAAGAT	.	5	BLCA
ELN	0	.	GRCh37	7	73474745	73474745	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1661G>A	p.Gly554Glu	p.G554E	ENST00000252034	25/33	54	32	22	67	67	0	ELN,missense_variant,p.Gly560Glu,ENST00000380562,;ELN,missense_variant,p.Gly554Glu,ENST00000252034,;ELN,missense_variant,p.Gly535Glu,ENST00000380576,;ELN,missense_variant,p.Gly525Glu,ENST00000380575,;ELN,missense_variant,p.Gly473Glu,ENST00000320492,;ELN,missense_variant,p.Gly554Glu,ENST00000445912,;ELN,missense_variant,p.Gly530Glu,ENST00000414324,;ELN,missense_variant,p.Gly540Glu,ENST00000429192,;ELN,missense_variant,p.Gly589Glu,ENST00000358929,;ELN,missense_variant,p.Gly418Glu,ENST00000380553,;ELN,missense_variant,p.Gly554Glu,ENST00000320399,;ELN,missense_variant,p.Gly544Glu,ENST00000458204,;ELN,missense_variant,p.Gly559Glu,ENST00000357036,;ELN,missense_variant,p.Gly506Glu,ENST00000380584,;CTB-51J22.1,intron_variant,,ENST00000435932,;ELN,downstream_gene_variant,,ENST00000466878,;ELN,downstream_gene_variant,,ENST00000492210,;	A	ENSG00000049540	ENST00000252034	Transcript	missense_variant	2060	1661	554	G/E	gGa/gAa	.	.	.	1	ELN	HGNC	3327	protein_coding	YES	CCDS5562.2	ENSP00000252034	ELN_HUMAN	Q9UMK5_HUMAN	UPI0000D4A0DC	.	.	unknown(0)	25/33	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR24018:SF2,hmmpanther:PTHR24018	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTGGAGTTG	.	5	BLCA
UPK3B	0	.	GRCh37	7	76631575	76631575	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*221-16566C>T	.	.	ENST00000419923	.	13	7	6	38	38	0	UPK3B,intron_variant,,ENST00000419923,;UPK3B,intron_variant,,ENST00000443097,;DTX2P1-UPK3BP1-PMS2P11,non_coding_transcript_exon_variant,,ENST00000584900,;DTX2P1-UPK3BP1-PMS2P11,non_coding_transcript_exon_variant,,ENST00000579700,;DTX2P1,non_coding_transcript_exon_variant,,ENST00000440837,;DTX2P1,non_coding_transcript_exon_variant,,ENST00000425797,;DTX2P1,non_coding_transcript_exon_variant,,ENST00000162863,;UPK3BP1,upstream_gene_variant,,ENST00000428678,;	T	ENSG00000243566	ENST00000419923	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	UPK3B	HGNC	21444	protein_coding	YES	CCDS5588.1	ENSP00000441602	UPK3B_HUMAN	.	UPI00001AE7A4	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCTCACCAA	.	3	BLCA
FGL2	0	.	GRCh37	7	76828874	76828874	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237C>T	p.%3D	p.F79F	ENST00000248598	1/2	81	53	27	105	105	0	FGL2,synonymous_variant,p.%3D,ENST00000248598,;CCDC146,intron_variant,,ENST00000415750,;CCDC146,intron_variant,,ENST00000285871,;CCDC146,intron_variant,,ENST00000431197,;RP11-467H10.2,downstream_gene_variant,,ENST00000459742,;	A	ENSG00000127951	ENST00000248598	Transcript	synonymous_variant	270	237	79	F	ttC/ttT	.	.	.	-1	FGL2	HGNC	3696	protein_coding	YES	CCDS5591.1	ENSP00000248598	FGL2_HUMAN	A4D1B8_HUMAN	UPI000012A724	.	.	.	1/2	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF189	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTGAACAC	.	5	BLCA
SEMA3C	0	.	GRCh37	7	80433494	80433494	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729C>T	p.%3D	p.F243F	ENST00000265361	8/18	61	32	28	74	74	0	SEMA3C,synonymous_variant,p.%3D,ENST00000265361,;SEMA3C,synonymous_variant,p.%3D,ENST00000544525,;SEMA3C,synonymous_variant,p.%3D,ENST00000536800,;SEMA3C,synonymous_variant,p.%3D,ENST00000419255,;SEMA3C,3_prime_UTR_variant,,ENST00000458729,;	A	ENSG00000075223	ENST00000265361	Transcript	synonymous_variant	1291	729	243	F	ttC/ttT	.	.	.	-1	SEMA3C	HGNC	10725	protein_coding	YES	CCDS5596.1	ENSP00000265361	SEM3C_HUMAN	Q75MX0_HUMAN,Q75L25_HUMAN	UPI000011C137	.	.	.	8/18	.	PROSITE_profiles:PS51004,hmmpanther:PTHR11036:SF25,hmmpanther:PTHR11036,Gene3D:2.130.10.10,Pfam_domain:PF01403,SMART_domains:SM00630,Superfamily_domains:SSF101912	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAAGAAGAA	.	5	BLCA
KIAA1324L	0	.	GRCh37	7	86544050	86544050	+	Nonsense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720C>T	p.Gln574Ter	p.Q574*	ENST00000450689	13/22	64	39	24	54	54	0	KIAA1324L,stop_gained,p.Gln574Ter,ENST00000444627,;KIAA1324L,stop_gained,p.Gln535Ter,ENST00000423294,;KIAA1324L,stop_gained,p.Gln574Ter,ENST00000450689,;KIAA1324L,stop_gained,p.Gln334Ter,ENST00000297222,;KIAA1324L,stop_gained,p.Gln407Ter,ENST00000416314,;KIAA1324L,non_coding_transcript_exon_variant,,ENST00000474609,;KIAA1324L,non_coding_transcript_exon_variant,,ENST00000490995,;KIAA1324L,3_prime_UTR_variant,,ENST00000394714,;KIAA1324L,upstream_gene_variant,,ENST00000470853,;KIAA1324L,upstream_gene_variant,,ENST00000427812,;	A	ENSG00000164659	ENST00000450689	Transcript	stop_gained	1906	1720	574	Q/*	Cag/Tag	COSM357773	.	.	-1	KIAA1324L	HGNC	21945	protein_coding	YES	CCDS47632.1	ENSP00000413445	K132L_HUMAN	F1LLU5_HUMAN,C9JFK7_HUMAN	UPI000173AA00	.	.	.	13/22	.	hmmpanther:PTHR22727:SF3,hmmpanther:PTHR22727	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTGATTAG	.	5	BLCA
KIAA1324L	0	.	GRCh37	7	86568139	86568139	+	Missense_Mutation	SNP	C	C	T	rs770929735	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.985G>A	p.Asp329Asn	p.D329N	ENST00000450689	7/22	82	70	12	115	114	0	KIAA1324L,missense_variant,p.Asp162Asn,ENST00000416314,;KIAA1324L,missense_variant,p.Asp89Asn,ENST00000297222,;KIAA1324L,missense_variant,p.Asp329Asn,ENST00000444627,;KIAA1324L,missense_variant,p.Asp290Asn,ENST00000423294,;KIAA1324L,missense_variant,p.Asp329Asn,ENST00000450689,;KIAA1324L,downstream_gene_variant,,ENST00000398276,;KIAA1324L,3_prime_UTR_variant,,ENST00000394714,;	T	ENSG00000164659	ENST00000450689	Transcript	missense_variant	1171	985	329	D/N	Gac/Aac	rs770929735	.	.	-1	KIAA1324L	HGNC	21945	protein_coding	YES	CCDS47632.1	ENSP00000413445	K132L_HUMAN	F1LLU5_HUMAN,C9JFK7_HUMAN	UPI000173AA00	.	tolerated(0.13)	benign(0.049)	7/22	.	hmmpanther:PTHR22727:SF3,hmmpanther:PTHR22727,Gene3D:3.90.10.10,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGTCGTCTT	byFrequency	5	BLCA
KIAA1324L	0	.	GRCh37	7	86568175	86568175	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949G>A	p.Glu317Lys	p.E317K	ENST00000450689	7/22	64	44	20	92	92	0	KIAA1324L,missense_variant,p.Glu150Lys,ENST00000416314,;KIAA1324L,missense_variant,p.Glu77Lys,ENST00000297222,;KIAA1324L,missense_variant,p.Glu317Lys,ENST00000444627,;KIAA1324L,missense_variant,p.Glu278Lys,ENST00000423294,;KIAA1324L,missense_variant,p.Glu317Lys,ENST00000450689,;KIAA1324L,downstream_gene_variant,,ENST00000398276,;KIAA1324L,3_prime_UTR_variant,,ENST00000394714,;	T	ENSG00000164659	ENST00000450689	Transcript	missense_variant	1135	949	317	E/K	Gag/Aag	.	.	.	-1	KIAA1324L	HGNC	21945	protein_coding	YES	CCDS47632.1	ENSP00000413445	K132L_HUMAN	F1LLU5_HUMAN,C9JFK7_HUMAN	UPI000173AA00	.	tolerated(0.51)	benign(0.138)	7/22	.	hmmpanther:PTHR22727:SF3,hmmpanther:PTHR22727,Gene3D:3.90.10.10,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCAGAAT	.	5	BLCA
DMTF1	0	.	GRCh37	7	86802916	86802916	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393C>G	p.Ser131Arg	p.S131R	ENST00000394703	8/20	44	33	10	53	53	0	DMTF1,missense_variant,p.Ser131Arg,ENST00000394703,;DMTF1,missense_variant,p.Ser90Arg,ENST00000411766,;DMTF1,missense_variant,p.Ser131Arg,ENST00000394702,;DMTF1,missense_variant,p.Ser43Arg,ENST00000432937,;DMTF1,missense_variant,p.Ser131Arg,ENST00000430405,;DMTF1,missense_variant,p.Ser131Arg,ENST00000449088,;DMTF1,missense_variant,p.Ser131Arg,ENST00000425705,;DMTF1,missense_variant,p.Ser131Arg,ENST00000413276,;DMTF1,missense_variant,p.Ser131Arg,ENST00000331242,;DMTF1,5_prime_UTR_variant,,ENST00000414194,;DMTF1,downstream_gene_variant,,ENST00000434534,;DMTF1,downstream_gene_variant,,ENST00000446796,;DMTF1,downstream_gene_variant,,ENST00000453049,;DMTF1,downstream_gene_variant,,ENST00000420131,;DMTF1,missense_variant,p.Ser131Arg,ENST00000447863,;DMTF1,missense_variant,p.Ser131Arg,ENST00000412139,;DMTF1,missense_variant,p.Ser90Arg,ENST00000579850,;DMTF1,missense_variant,p.Ser131Arg,ENST00000579677,;DMTF1,missense_variant,p.Ser90Arg,ENST00000425406,;DMTF1,missense_variant,p.Ser131Arg,ENST00000547146,;DMTF1,missense_variant,p.Ser131Arg,ENST00000584619,;	G	ENSG00000135164	ENST00000394703	Transcript	missense_variant	956	393	131	S/R	agC/agG	.	.	.	1	DMTF1	HGNC	14603	protein_coding	YES	CCDS5601.1	ENSP00000378193	DMTF1_HUMAN	J3KRC1_HUMAN,D6W5P0_HUMAN,C9K0L9_HUMAN,C9K0K9_HUMAN,C9JZZ6_HUMAN,C9JVQ7_HUMAN,C9JLR5_HUMAN,C9JGT5_HUMAN,C9JFR2_HUMAN,C9JED5_HUMAN,C9J8Y5_HUMAN,C9J4F7_HUMAN,B3KVS2_HUMAN	UPI000006FB78	.	deleterious(0.02)	possibly_damaging(0.459)	8/20	.	hmmpanther:PTHR10641,hmmpanther:PTHR10641:SF463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTAGCCAAGC	.	5	BLCA
CLDN12	0	.	GRCh37	7	90042366	90042366	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376C>T	p.%3D	p.L126L	ENST00000535571	2/2	92	61	31	116	116	0	CLDN12,synonymous_variant,p.%3D,ENST00000427904,;CLDN12,synonymous_variant,p.%3D,ENST00000287916,;CLDN12,synonymous_variant,p.%3D,ENST00000496677,;CLDN12,synonymous_variant,p.%3D,ENST00000394604,;CLDN12,synonymous_variant,p.%3D,ENST00000535571,;CLDN12,synonymous_variant,p.%3D,ENST00000416322,;CLDN12,synonymous_variant,p.%3D,ENST00000394605,;CLDN12,intron_variant,,ENST00000483862,;CLDN12,intron_variant,,ENST00000498033,;CLDN12,intron_variant,,ENST00000451941,;CTB-13L3.1,intron_variant,,ENST00000480135,;CLDN12,downstream_gene_variant,,ENST00000498326,;CLDN12,downstream_gene_variant,,ENST00000462636,;	T	ENSG00000157224	ENST00000535571	Transcript	synonymous_variant	685	376	126	L	Ctg/Ttg	.	.	.	1	CLDN12	HGNC	2034	protein_coding	YES	CCDS5618.1	ENSP00000443476	CLD12_HUMAN	C9J841_HUMAN,C9J4P0_HUMAN,A8MX62_HUMAN	UPI000000165A	.	.	.	2/2	.	hmmpanther:PTHR16703:SF3,hmmpanther:PTHR16703,Prints_domain:PR01872	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGTCTGGTC	.	5	BLCA
AC002456.2	0	.	GRCh37	7	90225890	90225890	+	5'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000441971	.	8	3	5	12	12	0	CDK14,5_prime_UTR_variant,,ENST00000380050,;CDK14,intron_variant,,ENST00000446224,;CDK14,intron_variant,,ENST00000456689,;CDK14,intron_variant,,ENST00000449528,;CDK14,intron_variant,,ENST00000430760,;AC002456.2,intron_variant,,ENST00000412669,;AC002456.2,upstream_gene_variant,,ENST00000441971,;AC002456.2,upstream_gene_variant,,ENST00000415965,;CDK14,intron_variant,,ENST00000484035,;	A	ENSG00000223969	ENST00000441971	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	686	-1	AC002456.2	Clone_based_vega_gene	.	antisense	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTCTGAGCTG	.	2	BLCA
AKAP9	0	.	GRCh37	7	91674438	91674438	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5279C>A	p.Ser1760Tyr	p.S1760Y	ENST00000356239	21/50	75	56	19	100	100	0	AKAP9,missense_variant,p.Ser1760Tyr,ENST00000356239,;AKAP9,missense_variant,p.Ser1772Tyr,ENST00000359028,;AKAP9,missense_variant,p.Ser1772Tyr,ENST00000358100,;AKAP9,downstream_gene_variant,,ENST00000484815,;AKAP9,downstream_gene_variant,,ENST00000493453,;	A	ENSG00000127914	ENST00000356239	Transcript	missense_variant	5512	5279	1760	S/Y	tCt/tAt	.	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.991)	21/50	.	hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGATCTAGTA	.	5	BLCA
AKAP9	0	.	GRCh37	7	91706208	91706208	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6652G>A	p.Glu2218Lys	p.E2218K	ENST00000356239	29/50	56	44	12	58	58	0	AKAP9,missense_variant,p.Glu2218Lys,ENST00000356239,;AKAP9,missense_variant,p.Glu2230Lys,ENST00000359028,;AKAP9,missense_variant,p.Glu64Lys,ENST00000394534,;AKAP9,missense_variant,p.Glu2230Lys,ENST00000358100,;	A	ENSG00000127914	ENST00000356239	Transcript	missense_variant	6885	6652	2218	E/K	Gaa/Aaa	.	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.999)	29/50	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAACTG	.	5	BLCA
AKAP9	0	.	GRCh37	7	91726366	91726366	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10093G>A	p.Glu3365Lys	p.E3365K	ENST00000356239	41/50	24	17	7	34	34	0	AKAP9,missense_variant,p.Glu3365Lys,ENST00000356239,;AKAP9,missense_variant,p.Glu3369Lys,ENST00000359028,;AKAP9,missense_variant,p.Glu1211Lys,ENST00000394534,;AKAP9,missense_variant,p.Glu3315Lys,ENST00000358100,;AKAP9,non_coding_transcript_exon_variant,,ENST00000487258,;AKAP9,upstream_gene_variant,,ENST00000463118,;AKAP9,upstream_gene_variant,,ENST00000487692,;	A	ENSG00000127914	ENST00000356239	Transcript	missense_variant	10326	10093	3365	E/K	Gag/Aag	.	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	probably_damaging(0.997)	41/50	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATGAGACT	.	5	BLCA
SAMD9	0	.	GRCh37	7	92732755	92732755	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2656A>G	p.Met886Val	p.M886V	ENST00000379958	3/3	64	44	20	61	61	0	SAMD9,missense_variant,p.Met886Val,ENST00000446617,;SAMD9,missense_variant,p.Met886Val,ENST00000379958,;	C	ENSG00000205413	ENST00000379958	Transcript	missense_variant	2926	2656	886	M/V	Atg/Gtg	.	.	.	-1	SAMD9	HGNC	1348	protein_coding	YES	CCDS34680.1	ENSP00000369292	SAMD9_HUMAN	C9JKF1_HUMAN	UPI0000038BC6	.	deleterious(0)	probably_damaging(0.97)	3/3	.	hmmpanther:PTHR16155:SF17,hmmpanther:PTHR16155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCATAAAGG	.	5	BLCA
TFPI2	0	.	GRCh37	7	93519470	93519470	+	Missense_Mutation	SNP	C	C	T	rs776014241	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Asp84Asn	p.D84N	ENST00000222543	2/5	34	28	6	54	54	0	TFPI2,missense_variant,p.Asp5Asn,ENST00000451238,;TFPI2,missense_variant,p.Asp84Asn,ENST00000545378,;TFPI2,missense_variant,p.Asp84Asn,ENST00000222543,;GNGT1,intron_variant,,ENST00000455502,;AC002076.10,upstream_gene_variant,,ENST00000435257,;TFPI2,non_coding_transcript_exon_variant,,ENST00000461482,;	T	ENSG00000105825	ENST00000222543	Transcript	missense_variant	563	250	84	D/N	Gat/Aat	rs776014241	.	.	-1	TFPI2	HGNC	11761	protein_coding	YES	CCDS5632.1	ENSP00000222543	TFPI2_HUMAN	Q8NE89_HUMAN,Q8NAK6_HUMAN	UPI00000362E2	.	tolerated(0.14)	benign(0)	2/5	.	PROSITE_profiles:PS50279,hmmpanther:PTHR10083,hmmpanther:PTHR10083:SF89,Gene3D:4.10.410.10,Pfam_domain:PF00014,PIRSF_domain:PIRSF001620,SMART_domains:SM00131,Superfamily_domains:SSF57362	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATCGTCGC	.	4	BLCA
ADAP1	0	.	GRCh37	7	944709	944709	+	Silent	SNP	G	G	A	rs772134658	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.489C>T	p.%3D	p.F163F	ENST00000265846	5/11	35	17	18	49	49	0	ADAP1,synonymous_variant,p.%3D,ENST00000454383,;ADAP1,synonymous_variant,p.%3D,ENST00000437486,;ADAP1,synonymous_variant,p.%3D,ENST00000449296,;ADAP1,synonymous_variant,p.%3D,ENST00000453175,;ADAP1,synonymous_variant,p.%3D,ENST00000446141,;ADAP1,synonymous_variant,p.%3D,ENST00000539900,;ADAP1,synonymous_variant,p.%3D,ENST00000265846,;ADAP1,synonymous_variant,p.%3D,ENST00000453823,;ADAP1,synonymous_variant,p.%3D,ENST00000435943,;ADAP1,non_coding_transcript_exon_variant,,ENST00000463358,;ADAP1,non_coding_transcript_exon_variant,,ENST00000477906,;ADAP1,non_coding_transcript_exon_variant,,ENST00000488527,;COX19,3_prime_UTR_variant,,ENST00000457254,;ADAP1,non_coding_transcript_exon_variant,,ENST00000478000,;ADAP1,non_coding_transcript_exon_variant,,ENST00000481406,;ADAP1,upstream_gene_variant,,ENST00000495809,;	A	ENSG00000105963	ENST00000265846	Transcript	synonymous_variant	709	489	163	F	ttC/ttT	rs772134658	.	.	-1	ADAP1	HGNC	16486	protein_coding	YES	CCDS5318.1	ENSP00000265846	ADAP1_HUMAN	H7C2Q4_HUMAN	UPI000013D694	.	.	.	5/11	.	Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30,hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF219,PROSITE_profiles:PS50003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTGAAATA	.	5	BLCA
PPP1R9A	0	.	GRCh37	7	94876817	94876817	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2145G>C	p.Glu715Asp	p.E715D	ENST00000433360	9/20	48	36	11	60	60	0	PPP1R9A,missense_variant,p.Glu715Asp,ENST00000433360,;PPP1R9A,missense_variant,p.Glu693Asp,ENST00000424654,;PPP1R9A,missense_variant,p.Glu693Asp,ENST00000433881,;PPP1R9A,missense_variant,p.Glu693Asp,ENST00000456331,;PPP1R9A,missense_variant,p.Glu693Asp,ENST00000289495,;PPP1R9A,missense_variant,p.Glu693Asp,ENST00000340694,;	C	ENSG00000158528	ENST00000433360	Transcript	missense_variant	2427	2145	715	E/D	gaG/gaC	.	.	.	1	PPP1R9A	HGNC	14946	protein_coding	YES	CCDS55127.1	ENSP00000405514	NEB1_HUMAN	C9J730_HUMAN,C9J3G5_HUMAN	UPI000198CF27	.	deleterious(0)	probably_damaging(0.999)	9/20	.	hmmpanther:PTHR16154:SF22,hmmpanther:PTHR16154,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGATTCA	.	5	BLCA
PPP1R9A	0	.	GRCh37	7	94913491	94913491	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3458C>T	p.Ser1153Phe	p.S1153F	ENST00000433360	17/20	54	37	17	48	48	0	PPP1R9A,missense_variant,p.Ser1153Phe,ENST00000433360,;PPP1R9A,missense_variant,p.Ser1131Phe,ENST00000424654,;PPP1R9A,missense_variant,p.Ser1131Phe,ENST00000456331,;PPP1R9A,missense_variant,p.Ser1113Phe,ENST00000289495,;PPP1R9A,intron_variant,,ENST00000433881,;PPP1R9A,intron_variant,,ENST00000340694,;	T	ENSG00000158528	ENST00000433360	Transcript	missense_variant	3740	3458	1153	S/F	tCt/tTt	.	.	.	1	PPP1R9A	HGNC	14946	protein_coding	YES	CCDS55127.1	ENSP00000405514	NEB1_HUMAN	C9J730_HUMAN,C9J3G5_HUMAN	UPI000198CF27	.	deleterious(0)	possibly_damaging(0.753)	17/20	.	hmmpanther:PTHR16154:SF22,hmmpanther:PTHR16154	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCTCCTG	.	5	BLCA
LMTK2	0	.	GRCh37	7	97820182	97820182	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1141G>A	p.Asp381Asn	p.D381N	ENST00000297293	10/14	114	77	37	174	174	0	LMTK2,missense_variant,p.Asp381Asn,ENST00000297293,;	A	ENSG00000164715	ENST00000297293	Transcript	missense_variant	1434	1141	381	D/N	Gat/Aat	.	.	.	1	LMTK2	HGNC	17880	protein_coding	YES	CCDS5654.1	ENSP00000297293	LMTK2_HUMAN	.	UPI000014F277	.	deleterious(0)	probably_damaging(0.984)	10/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF265,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTGATAGA	.	5	BLCA
BAIAP2L1	0	.	GRCh37	7	97937096	97937096	+	Silent	SNP	C	C	T	rs778447462	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068G>A	p.%3D	p.K356K	ENST00000005260	10/14	61	45	15	84	84	0	BAIAP2L1,synonymous_variant,p.%3D,ENST00000005260,;RP4-607J23.2,upstream_gene_variant,,ENST00000608882,;RP4-607J23.2,upstream_gene_variant,,ENST00000609873,;BRI3,non_coding_transcript_exon_variant,,ENST00000485422,;BAIAP2L1,downstream_gene_variant,,ENST00000462558,;BAIAP2L1,upstream_gene_variant,,ENST00000480580,;BRI3,downstream_gene_variant,,ENST00000491463,;	T	ENSG00000006453	ENST00000005260	Transcript	synonymous_variant	1284	1068	356	K	aaG/aaA	rs778447462	.	.	-1	BAIAP2L1	HGNC	21649	protein_coding	YES	CCDS34687.1	ENSP00000005260	BI2L1_HUMAN	.	UPI0000035DA9	.	.	.	10/14	.	Superfamily_domains:SSF50044,SMART_domains:SM00326,Pfam_domain:PF14604,Gene3D:2.30.30.40,hmmpanther:PTHR14206,hmmpanther:PTHR14206:SF4,PROSITE_profiles:PS50002	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTCTTGTT	byFrequency	5	BLCA
BUD31	0	.	GRCh37	7	99015155	99015155	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.321G>A	p.%3D	p.Q107Q	ENST00000403633	5/6	38	24	13	38	38	0	BUD31,synonymous_variant,p.%3D,ENST00000222969,;BUD31,synonymous_variant,p.%3D,ENST00000431419,;BUD31,synonymous_variant,p.%3D,ENST00000403633,;BUD31,synonymous_variant,p.%3D,ENST00000456893,;PTCD1,3_prime_UTR_variant,,ENST00000292478,;ATP5J2-PTCD1,downstream_gene_variant,,ENST00000413834,;PTCD1,downstream_gene_variant,,ENST00000555673,;snoU13,upstream_gene_variant,,ENST00000458831,;BUD31,non_coding_transcript_exon_variant,,ENST00000496696,;BUD31,non_coding_transcript_exon_variant,,ENST00000466798,;BUD31,downstream_gene_variant,,ENST00000427499,;BUD31,downstream_gene_variant,,ENST00000471813,;	A	ENSG00000106245	ENST00000403633	Transcript	synonymous_variant	850	321	107	Q	caG/caA	.	.	.	1	BUD31	HGNC	29629	protein_coding	YES	CCDS5663.1	ENSP00000386023	BUD31_HUMAN	.	UPI00000015E4	.	.	.	5/6	.	Prints_domain:PR00322,Pfam_domain:PF01125,PROSITE_patterns:PS00997,hmmpanther:PTHR19411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCAGACACG	.	5	BLCA
CPSF4	0	.	GRCh37	7	99051661	99051661	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.643C>T	p.Gln215Ter	p.Q215*	ENST00000292476	7/8	189	141	48	243	243	0	CPSF4,stop_gained,p.Gln97Ter,ENST00000440514,;CPSF4,stop_gained,p.Gln215Ter,ENST00000292476,;CPSF4,splice_region_variant,,ENST00000436336,;CPSF4,splice_region_variant,,ENST00000451876,;CPSF4,splice_region_variant,,ENST00000452047,;CPSF4,splice_region_variant,,ENST00000441580,;PTCD1,intron_variant,,ENST00000555673,;ATP5J2-PTCD1,intron_variant,,ENST00000413834,;PTCD1,intron_variant,,ENST00000430982,;ATP5J2,downstream_gene_variant,,ENST00000292475,;ATP5J2,downstream_gene_variant,,ENST00000449683,;CPSF4,downstream_gene_variant,,ENST00000412686,;ATP5J2,downstream_gene_variant,,ENST00000488775,;ATP5J2,downstream_gene_variant,,ENST00000544611,;ATP5J2,downstream_gene_variant,,ENST00000394186,;ATP5J2,downstream_gene_variant,,ENST00000359832,;ATP5J2,intron_variant,,ENST00000466753,;ATP5J2-PTCD1,intron_variant,,ENST00000437572,;CPSF4,downstream_gene_variant,,ENST00000471455,;CPSF4,non_coding_transcript_exon_variant,,ENST00000469897,;ATP5J2,intron_variant,,ENST00000414062,;ATP5J2-PTCD1,intron_variant,,ENST00000451138,;CPSF4,downstream_gene_variant,,ENST00000484112,;ATP5J2,downstream_gene_variant,,ENST00000491560,;CPSF4,downstream_gene_variant,,ENST00000465132,;CPSF4,downstream_gene_variant,,ENST00000482251,;CPSF4,downstream_gene_variant,,ENST00000430038,;ATP5J2,downstream_gene_variant,,ENST00000481899,;	T	ENSG00000160917	ENST00000292476	Transcript	stop_gained	653	643	215	Q/*	Cag/Tag	.	.	.	1	CPSF4	HGNC	2327	protein_coding	YES	CCDS5664.1	ENSP00000292476	CPSF4_HUMAN	C9K0K2_HUMAN	UPI0000072392	.	.	.	7/8	.	hmmpanther:PTHR23102,hmmpanther:PTHR23102:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAATCAGCAG	.	5	BLCA
CPSF4	0	.	GRCh37	7	99054117	99054117	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.804A>G	p.%3D	p.G268G	ENST00000292476	8/8	25	21	4	39	39	0	CPSF4,missense_variant,p.Thr166Ala,ENST00000440514,;CPSF4,missense_variant,p.Asp179Gly,ENST00000452047,;CPSF4,synonymous_variant,p.%3D,ENST00000436336,;CPSF4,synonymous_variant,p.%3D,ENST00000451876,;CPSF4,synonymous_variant,p.%3D,ENST00000292476,;CPSF4,synonymous_variant,p.%3D,ENST00000441580,;PTCD1,intron_variant,,ENST00000555673,;ATP5J2-PTCD1,intron_variant,,ENST00000413834,;PTCD1,intron_variant,,ENST00000430982,;ATP5J2,downstream_gene_variant,,ENST00000523680,;ATP5J2,downstream_gene_variant,,ENST00000292475,;ATP5J2,downstream_gene_variant,,ENST00000449683,;ATP5J2,downstream_gene_variant,,ENST00000488775,;ATP5J2,downstream_gene_variant,,ENST00000544611,;ATP5J2,downstream_gene_variant,,ENST00000394186,;ATP5J2,downstream_gene_variant,,ENST00000359832,;ATP5J2,intron_variant,,ENST00000466753,;ATP5J2-PTCD1,intron_variant,,ENST00000437572,;CPSF4,downstream_gene_variant,,ENST00000471455,;CPSF4,non_coding_transcript_exon_variant,,ENST00000469897,;ATP5J2,intron_variant,,ENST00000414062,;ATP5J2-PTCD1,intron_variant,,ENST00000451138,;ATP5J2,downstream_gene_variant,,ENST00000485011,;ATP5J2,downstream_gene_variant,,ENST00000491560,;CPSF4,downstream_gene_variant,,ENST00000465132,;CPSF4,downstream_gene_variant,,ENST00000482251,;ATP5J2,downstream_gene_variant,,ENST00000481899,;ATP5J2,downstream_gene_variant,,ENST00000524321,;	G	ENSG00000160917	ENST00000292476	Transcript	synonymous_variant	814	804	268	G	ggA/ggG	.	.	.	1	CPSF4	HGNC	2327	protein_coding	YES	CCDS5664.1	ENSP00000292476	CPSF4_HUMAN	C9K0K2_HUMAN	UPI0000072392	.	.	.	8/8	.	hmmpanther:PTHR23102,hmmpanther:PTHR23102:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTGGACAGTG	.	4	BLCA
CYP3A4	0	.	GRCh37	7	99361574	99361574	+	Silent	SNP	C	C	T	rs145779318	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.930G>A	p.%3D	p.T310T	ENST00000336411	10/13	56	29	26	63	63	0	CYP3A4,synonymous_variant,p.%3D,ENST00000354593,;CYP3A4,synonymous_variant,p.%3D,ENST00000336411,;RP11-757A13.1,upstream_gene_variant,,ENST00000608397,;	T	ENSG00000160868	ENST00000336411	Transcript	synonymous_variant	1114	930	310	T	acG/acA	rs145779318	.	.	-1	CYP3A4	HGNC	2637	protein_coding	YES	CCDS5674.1	ENSP00000337915	CP3A4_HUMAN	Q9BZM0_HUMAN,Q7Z448_HUMAN,Q6GRK0_HUMAN,B4DPQ5_HUMAN	UPI000013E0B7	.	.	.	10/13	.	hmmpanther:PTHR24302,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00385	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCGTGGT	.	5	BLCA
MCM7	0	.	GRCh37	7	99690503	99690503	+	3'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*52C>T	.	.	ENST00000303887	15/15	26	19	7	26	26	0	MCM7,3_prime_UTR_variant,,ENST00000354230,;MCM7,3_prime_UTR_variant,,ENST00000303887,;MCM7,3_prime_UTR_variant,,ENST00000343023,;COPS6,downstream_gene_variant,,ENST00000419210,;COPS6,downstream_gene_variant,,ENST00000418625,;COPS6,downstream_gene_variant,,ENST00000303904,;MIR93,downstream_gene_variant,,ENST00000385024,;MIR25,downstream_gene_variant,,ENST00000384816,;MIR106B,downstream_gene_variant,,ENST00000385301,;MCM7,non_coding_transcript_exon_variant,,ENST00000485286,;MCM7,non_coding_transcript_exon_variant,,ENST00000489841,;MCM7,downstream_gene_variant,,ENST00000493352,;COPS6,downstream_gene_variant,,ENST00000474823,;COPS6,downstream_gene_variant,,ENST00000426712,;COPS6,downstream_gene_variant,,ENST00000496358,;MCM7,downstream_gene_variant,,ENST00000491245,;COPS6,downstream_gene_variant,,ENST00000472107,;MCM7,downstream_gene_variant,,ENST00000477372,;COPS6,downstream_gene_variant,,ENST00000468499,;COPS6,downstream_gene_variant,,ENST00000465027,;COPS6,downstream_gene_variant,,ENST00000483891,;	A	ENSG00000166508	ENST00000303887	Transcript	3_prime_UTR_variant	2858	.	.	.	.	.	.	.	-1	MCM7	HGNC	6950	protein_coding	YES	CCDS5683.1	ENSP00000307288	MCM7_HUMAN	Q9H4N9_HUMAN,C9J8M6_HUMAN	UPI000012ED9E	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAAGGGGCA	.	5	BLCA
MCM7	0	.	GRCh37	7	99697253	99697253	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235G>A	p.Asp79Asn	p.D79N	ENST00000303887	3/15	88	66	22	99	99	0	MCM7,missense_variant,p.Asp79Asn,ENST00000303887,;MCM7,missense_variant,p.Asp79Asn,ENST00000343023,;MCM7,5_prime_UTR_variant,,ENST00000425308,;MCM7,5_prime_UTR_variant,,ENST00000354230,;AP4M1,upstream_gene_variant,,ENST00000422582,;AP4M1,upstream_gene_variant,,ENST00000359593,;AP4M1,upstream_gene_variant,,ENST00000438383,;AP4M1,upstream_gene_variant,,ENST00000421755,;AP4M1,upstream_gene_variant,,ENST00000429084,;AP4M1,upstream_gene_variant,,ENST00000439416,;AP4M1,upstream_gene_variant,,ENST00000495154,;AP4M1,upstream_gene_variant,,ENST00000478501,;MCM7,non_coding_transcript_exon_variant,,ENST00000467516,;MCM7,non_coding_transcript_exon_variant,,ENST00000463722,;MCM7,non_coding_transcript_exon_variant,,ENST00000485286,;MCM7,non_coding_transcript_exon_variant,,ENST00000465688,;MCM7,non_coding_transcript_exon_variant,,ENST00000489841,;MCM7,intron_variant,,ENST00000491245,;AP4M1,upstream_gene_variant,,ENST00000446007,;MCM7,upstream_gene_variant,,ENST00000493352,;AP4M1,upstream_gene_variant,,ENST00000445208,;MCM7,downstream_gene_variant,,ENST00000465738,;AP4M1,upstream_gene_variant,,ENST00000416938,;AP4M1,upstream_gene_variant,,ENST00000463195,;MCM7,upstream_gene_variant,,ENST00000477372,;AP4M1,upstream_gene_variant,,ENST00000394061,;AP4M1,upstream_gene_variant,,ENST00000479916,;	T	ENSG00000166508	ENST00000303887	Transcript	missense_variant	881	235	79	D/N	Gat/Aat	.	.	.	-1	MCM7	HGNC	6950	protein_coding	YES	CCDS5683.1	ENSP00000307288	MCM7_HUMAN	Q9H4N9_HUMAN,C9J8M6_HUMAN	UPI000012ED9E	.	tolerated(0.14)	benign(0.079)	3/15	.	hmmpanther:PTHR11630,hmmpanther:PTHR11630:SF26,Pfam_domain:PF14551,Gene3D:1ltlA01,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCATCAGCAA	.	3	BLCA
MCM7	0	.	GRCh37	7	99697266	99697266	+	Silent	SNP	C	C	T	rs563418025	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222G>A	p.%3D	p.A74A	ENST00000303887	3/15	80	58	21	94	94	0	MCM7,synonymous_variant,p.%3D,ENST00000303887,;MCM7,synonymous_variant,p.%3D,ENST00000343023,;MCM7,5_prime_UTR_variant,,ENST00000425308,;MCM7,5_prime_UTR_variant,,ENST00000354230,;AP4M1,upstream_gene_variant,,ENST00000422582,;AP4M1,upstream_gene_variant,,ENST00000359593,;AP4M1,upstream_gene_variant,,ENST00000438383,;AP4M1,upstream_gene_variant,,ENST00000421755,;AP4M1,upstream_gene_variant,,ENST00000429084,;AP4M1,upstream_gene_variant,,ENST00000439416,;AP4M1,upstream_gene_variant,,ENST00000495154,;AP4M1,upstream_gene_variant,,ENST00000478501,;MCM7,non_coding_transcript_exon_variant,,ENST00000467516,;MCM7,non_coding_transcript_exon_variant,,ENST00000463722,;MCM7,non_coding_transcript_exon_variant,,ENST00000485286,;MCM7,non_coding_transcript_exon_variant,,ENST00000465688,;MCM7,non_coding_transcript_exon_variant,,ENST00000489841,;MCM7,intron_variant,,ENST00000491245,;AP4M1,upstream_gene_variant,,ENST00000446007,;MCM7,upstream_gene_variant,,ENST00000493352,;AP4M1,upstream_gene_variant,,ENST00000445208,;MCM7,downstream_gene_variant,,ENST00000465738,;AP4M1,upstream_gene_variant,,ENST00000416938,;AP4M1,upstream_gene_variant,,ENST00000463195,;MCM7,upstream_gene_variant,,ENST00000477372,;AP4M1,upstream_gene_variant,,ENST00000394061,;AP4M1,upstream_gene_variant,,ENST00000479916,;	T	ENSG00000166508	ENST00000303887	Transcript	synonymous_variant	868	222	74	A	gcG/gcA	rs563418025,COSM1635526	.	.	-1	MCM7	HGNC	6950	protein_coding	YES	CCDS5683.1	ENSP00000307288	MCM7_HUMAN	Q9H4N9_HUMAN,C9J8M6_HUMAN	UPI000012ED9E	.	.	.	3/15	.	hmmpanther:PTHR11630,hmmpanther:PTHR11630:SF26,Pfam_domain:PF14551,Gene3D:1ltlA01,Superfamily_domains:SSF50249	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGCTTCGCGTA	by1000G	3	BLCA
AP4M1	0	.	GRCh37	7	99699300	99699300	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-38G>A	.	.	ENST00000359593	1/15	30	18	12	44	44	0	AP4M1,5_prime_UTR_variant,,ENST00000359593,;MCM7,5_prime_UTR_variant,,ENST00000303887,;AP4M1,5_prime_UTR_variant,,ENST00000438383,;MCM7,5_prime_UTR_variant,,ENST00000343023,;AP4M1,5_prime_UTR_variant,,ENST00000421755,;AP4M1,5_prime_UTR_variant,,ENST00000429084,;AP4M1,5_prime_UTR_variant,,ENST00000439416,;AP4M1,upstream_gene_variant,,ENST00000422582,;MCM7,upstream_gene_variant,,ENST00000425308,;MCM7,upstream_gene_variant,,ENST00000354230,;AP4M1,upstream_gene_variant,,ENST00000450807,;AP4M1,upstream_gene_variant,,ENST00000445295,;AP4M1,non_coding_transcript_exon_variant,,ENST00000478501,;AP4M1,upstream_gene_variant,,ENST00000495154,;AP4M1,5_prime_UTR_variant,,ENST00000446007,;AP4M1,5_prime_UTR_variant,,ENST00000445208,;AP4M1,5_prime_UTR_variant,,ENST00000394061,;MCM7,upstream_gene_variant,,ENST00000467516,;MCM7,upstream_gene_variant,,ENST00000465738,;AP4M1,upstream_gene_variant,,ENST00000416938,;AP4M1,upstream_gene_variant,,ENST00000463195,;MCM7,upstream_gene_variant,,ENST00000491245,;MCM7,upstream_gene_variant,,ENST00000463722,;MCM7,upstream_gene_variant,,ENST00000477372,;MCM7,upstream_gene_variant,,ENST00000485286,;MCM7,upstream_gene_variant,,ENST00000465688,;MCM7,upstream_gene_variant,,ENST00000489841,;AP4M1,upstream_gene_variant,,ENST00000489387,;AP4M1,upstream_gene_variant,,ENST00000479916,;	A	ENSG00000221838	ENST00000359593	Transcript	5_prime_UTR_variant	121	.	.	.	.	.	.	.	1	AP4M1	HGNC	574	protein_coding	YES	CCDS5685.1	ENSP00000352603	AP4M1_HUMAN	C9IZL5_HUMAN,B4DKN7_HUMAN	UPI000006D1C7	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCCCGACTTT	.	3	BLCA
PABPC1	0	.	GRCh37	8	101724668	101724668	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.894G>A	p.%3D	p.V298V	ENST00000318607	7/15	327	117	210	207	206	1	PABPC1,synonymous_variant,p.%3D,ENST00000519100,;PABPC1,synonymous_variant,p.%3D,ENST00000519004,;PABPC1,synonymous_variant,p.%3D,ENST00000522387,;PABPC1,synonymous_variant,p.%3D,ENST00000318607,;PABPC1,intron_variant,,ENST00000517403,;PABPC1,downstream_gene_variant,,ENST00000523555,;AP001205.1,upstream_gene_variant,,ENST00000579868,;PABPC1,non_coding_transcript_exon_variant,,ENST00000519596,;PABPC1,synonymous_variant,p.%3D,ENST00000519622,;PABPC1,downstream_gene_variant,,ENST00000517921,;PABPC1,upstream_gene_variant,,ENST00000523636,;PABPC1,upstream_gene_variant,,ENST00000518716,;	T	ENSG00000070756	ENST00000318607	Transcript	synonymous_variant	2023	894	298	V	gtG/gtA	.	.	.	-1	PABPC1	HGNC	8554	protein_coding	YES	CCDS6289.1	ENSP00000313007	PABP1_HUMAN	H0YB75_HUMAN,E7EQV3_HUMAN,E5RJM8_HUMAN,E5RJB9_HUMAN,E5RHG7_HUMAN,E5RH24_HUMAN,E5RGH3_HUMAN,E5RGC4_HUMAN,E5RFD8_HUMAN	UPI0000000BC4	.	.	.	7/15	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24011:SF239,hmmpanther:PTHR24011,Gene3D:3.30.70.330,TIGRFAM_domain:TIGR01628,Pfam_domain:PF00076,SMART_domains:SM00360,SMART_domains:SM00361,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCACATA	.	5	BLCA
YWHAZ	0	.	GRCh37	8	101961069	101961069	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.49G>A	p.Glu17Lys	p.E17K	ENST00000395957	3/7	139	116	23	103	103	0	YWHAZ,missense_variant,p.Glu17Lys,ENST00000437293,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000419477,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000395957,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000523938,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000521328,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000523131,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000395951,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000395958,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000418997,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000521607,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000395956,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000395953,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000457309,;YWHAZ,missense_variant,p.Glu17Lys,ENST00000353245,;YWHAZ,intron_variant,,ENST00000521309,;YWHAZ,intron_variant,,ENST00000395948,;YWHAZ,upstream_gene_variant,,ENST00000522542,;YWHAZ,downstream_gene_variant,,ENST00000492736,;YWHAZ,non_coding_transcript_exon_variant,,ENST00000518736,;YWHAZ,non_coding_transcript_exon_variant,,ENST00000517727,;YWHAZ,non_coding_transcript_exon_variant,,ENST00000480304,;	T	ENSG00000164924	ENST00000395957	Transcript	missense_variant	391	49	17	E/K	Gag/Aag	.	.	.	-1	YWHAZ	HGNC	12855	protein_coding	YES	CCDS6290.1	ENSP00000379287	1433Z_HUMAN	Q6LD62_HUMAN,Q2F831_HUMAN,H0YB80_HUMAN,E9PD24_HUMAN,E7EVZ2_HUMAN,E7ESK7_HUMAN,E5RIR4_HUMAN,E5RGE1_HUMAN,D0PNI1_HUMAN,B7Z2E6_HUMAN,B0AZS6_HUMAN	UPI000003300D	.	deleterious_low_confidence(0.02)	possibly_damaging(0.616)	3/7	.	hmmpanther:PTHR18860:SF5,hmmpanther:PTHR18860,Gene3D:3iquA00,Pfam_domain:PF00244,PIRSF_domain:PIRSF000868,SMART_domains:SM00101,Superfamily_domains:SSF48445	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGCTCAGCCT	.	4	BLCA
UBR5	0	.	GRCh37	8	103308007	103308007	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3669C>T	p.%3D	p.L1223L	ENST00000520539	29/59	66	54	12	58	58	0	UBR5,synonymous_variant,p.%3D,ENST00000520539,;UBR5,synonymous_variant,p.%3D,ENST00000220959,;UBR5,synonymous_variant,p.%3D,ENST00000521922,;UBR5,downstream_gene_variant,,ENST00000519365,;UBR5,downstream_gene_variant,,ENST00000520898,;UBR5,upstream_gene_variant,,ENST00000519528,;	A	ENSG00000104517	ENST00000520539	Transcript	synonymous_variant	4276	3669	1223	L	ctC/ctT	.	.	.	-1	UBR5	HGNC	16806	protein_coding	YES	CCDS34933.1	ENSP00000429084	UBR5_HUMAN	Q49A65_HUMAN,E5RFK7_HUMAN,B3KML2_HUMAN	UPI0000129BCB	.	.	.	29/59	.	PROSITE_profiles:PS51157,hmmpanther:PTHR11254:SF77,hmmpanther:PTHR11254,Pfam_domain:PF02207,SMART_domains:SM00396	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTGAGTCT	.	5	BLCA
KLF10	0	.	GRCh37	8	103664148	103664148	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>A	p.Glu138Lys	p.E138K	ENST00000285407	3/4	138	43	95	97	97	0	KLF10,missense_variant,p.Glu127Lys,ENST00000395884,;KLF10,missense_variant,p.Glu138Lys,ENST00000285407,;	T	ENSG00000155090	ENST00000285407	Transcript	missense_variant	713	412	138	E/K	Gaa/Aaa	.	.	.	-1	KLF10	HGNC	11810	protein_coding	YES	CCDS6294.1	ENSP00000285407	KLF10_HUMAN	.	UPI000012DED8	.	tolerated(0.31)	benign(0.113)	3/4	.	hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTCTTCCT	.	5	BLCA
SLC25A32	0	.	GRCh37	8	104427076	104427076	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.90G>A	p.%3D	p.V30V	ENST00000297578	1/7	33	28	5	13	13	0	SLC25A32,synonymous_variant,p.%3D,ENST00000297578,;DCAF13,5_prime_UTR_variant,,ENST00000297579,;SLC25A32,5_prime_UTR_variant,,ENST00000543107,;DCAF13,upstream_gene_variant,,ENST00000521971,;DCAF13,upstream_gene_variant,,ENST00000519682,;DCAF13,upstream_gene_variant,,ENST00000521716,;DCAF13,upstream_gene_variant,,ENST00000521999,;SLC25A32,synonymous_variant,p.%3D,ENST00000521645,;SLC25A32,synonymous_variant,p.%3D,ENST00000523256,;SLC25A32,synonymous_variant,p.%3D,ENST00000523866,;DCAF13,upstream_gene_variant,,ENST00000518554,;	T	ENSG00000164933	ENST00000297578	Transcript	synonymous_variant	257	90	30	V	gtG/gtA	.	.	.	-1	SLC25A32	HGNC	29683	protein_coding	YES	CCDS6300.1	ENSP00000297578	MFTC_HUMAN	B4DUQ5_HUMAN	UPI0000040C0F	.	.	.	1/7	.	PROSITE_profiles:PS50920,hmmpanther:PTHR24089,hmmpanther:PTHR24089:SF62,Pfam_domain:PF00153,Gene3D:1okcA00,Superfamily_domains:0048588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCTCACGCC	.	4	BLCA
RIMS2	0	.	GRCh37	8	104513169	104513169	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.55C>T	p.Gln19Ter	p.Q19*	ENST00000406091	1/24	37	32	5	43	43	0	RIMS2,stop_gained,p.Gln19Ter,ENST00000406091,;RIMS2,stop_gained,p.Gln19Ter,ENST00000504942,;RP11-1C8.4,intron_variant,,ENST00000523422,;RP11-1C8.4,upstream_gene_variant,,ENST00000517376,;	T	ENSG00000176406	ENST00000406091	Transcript	stop_gained	55	55	19	Q/*	Cag/Tag	.	.	.	1	RIMS2	HGNC	17283	protein_coding	YES	CCDS55269.1	ENSP00000384892	RIMS2_HUMAN	E9PFB6_HUMAN	UPI0001597063	.	.	.	1/24	.	hmmpanther:PTHR12157:SF15,hmmpanther:PTHR12157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCTCAGCCG	.	4	BLCA
SYBU	0	.	GRCh37	8	110592064	110592064	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.698G>A	p.Gly233Asp	p.G233D	ENST00000422135	6/8	152	52	100	126	126	0	SYBU,missense_variant,p.Gly233Asp,ENST00000422135,;SYBU,missense_variant,p.Gly233Asp,ENST00000433638,;SYBU,missense_variant,p.Gly165Asp,ENST00000532779,;SYBU,missense_variant,p.Gly103Asp,ENST00000529690,;SYBU,missense_variant,p.Gly233Asp,ENST00000440310,;SYBU,missense_variant,p.Gly114Asp,ENST00000533065,;SYBU,missense_variant,p.Gly232Asp,ENST00000446070,;SYBU,missense_variant,p.Gly238Asp,ENST00000424158,;SYBU,missense_variant,p.Gly27Asp,ENST00000529175,;SYBU,missense_variant,p.Gly233Asp,ENST00000408908,;SYBU,missense_variant,p.Gly114Asp,ENST00000528045,;SYBU,missense_variant,p.Gly114Asp,ENST00000528331,;SYBU,missense_variant,p.Gly114Asp,ENST00000408889,;SYBU,missense_variant,p.Gly70Asp,ENST00000533394,;SYBU,missense_variant,p.Gly232Asp,ENST00000419099,;SYBU,missense_variant,p.Gly232Asp,ENST00000528647,;SYBU,missense_variant,p.Gly233Asp,ENST00000533171,;SYBU,missense_variant,p.Gly230Asp,ENST00000399066,;SYBU,missense_variant,p.Gly233Asp,ENST00000276646,;SYBU,missense_variant,p.Gly232Asp,ENST00000533895,;SYBU,downstream_gene_variant,,ENST00000529190,;SYBU,downstream_gene_variant,,ENST00000528569,;SYBU,downstream_gene_variant,,ENST00000532189,;SYBU,non_coding_transcript_exon_variant,,ENST00000527664,;SYBU,non_coding_transcript_exon_variant,,ENST00000527707,;SYBU,3_prime_UTR_variant,,ENST00000532594,;SYBU,downstream_gene_variant,,ENST00000528735,;	T	ENSG00000147642	ENST00000422135	Transcript	missense_variant	1214	698	233	G/D	gGc/gAc	.	.	.	-1	SYBU	HGNC	26011	protein_coding	YES	CCDS47912.1	ENSP00000407118	SYBU_HUMAN	E9PRT7_HUMAN,E9PQG2_HUMAN,E9PPS4_HUMAN,E9PPC2_HUMAN,E9PN31_HUMAN,E9PLB9_HUMAN,E9PL50_HUMAN,E9PK96_HUMAN,E9PJ11_HUMAN,E9PI48_HUMAN,B3KRD1_HUMAN	UPI00000407AB	.	deleterious(0.05)	probably_damaging(0.995)	6/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16208,hmmpanther:PTHR16208:SF4,Pfam_domain:PF15290	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGCCTGAG	.	5	BLCA
SYBU	0	.	GRCh37	8	110598324	110598324	+	Silent	SNP	C	C	T	rs747248240	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495G>A	p.%3D	p.S165S	ENST00000422135	5/8	18	11	7	26	26	0	SYBU,synonymous_variant,p.%3D,ENST00000422135,;SYBU,synonymous_variant,p.%3D,ENST00000433638,;SYBU,synonymous_variant,p.%3D,ENST00000532779,;SYBU,synonymous_variant,p.%3D,ENST00000529690,;SYBU,synonymous_variant,p.%3D,ENST00000440310,;SYBU,synonymous_variant,p.%3D,ENST00000529190,;SYBU,synonymous_variant,p.%3D,ENST00000533065,;SYBU,synonymous_variant,p.%3D,ENST00000446070,;SYBU,synonymous_variant,p.%3D,ENST00000424158,;SYBU,synonymous_variant,p.%3D,ENST00000528569,;SYBU,synonymous_variant,p.%3D,ENST00000408908,;SYBU,synonymous_variant,p.%3D,ENST00000528045,;SYBU,synonymous_variant,p.%3D,ENST00000528331,;SYBU,synonymous_variant,p.%3D,ENST00000408889,;SYBU,synonymous_variant,p.%3D,ENST00000533394,;SYBU,synonymous_variant,p.%3D,ENST00000419099,;SYBU,synonymous_variant,p.%3D,ENST00000528647,;SYBU,synonymous_variant,p.%3D,ENST00000533171,;SYBU,synonymous_variant,p.%3D,ENST00000399066,;SYBU,synonymous_variant,p.%3D,ENST00000276646,;SYBU,synonymous_variant,p.%3D,ENST00000532189,;SYBU,synonymous_variant,p.%3D,ENST00000533895,;SYBU,downstream_gene_variant,,ENST00000533821,;SYBU,downstream_gene_variant,,ENST00000530841,;SYBU,downstream_gene_variant,,ENST00000531230,;SYBU,downstream_gene_variant,,ENST00000534501,;SYBU,intron_variant,,ENST00000527664,;SYBU,synonymous_variant,p.%3D,ENST00000532594,;SYBU,non_coding_transcript_exon_variant,,ENST00000526736,;SYBU,non_coding_transcript_exon_variant,,ENST00000528735,;	T	ENSG00000147642	ENST00000422135	Transcript	synonymous_variant	1011	495	165	S	tcG/tcA	rs747248240	.	.	-1	SYBU	HGNC	26011	protein_coding	YES	CCDS47912.1	ENSP00000407118	SYBU_HUMAN	E9PRT7_HUMAN,E9PQG2_HUMAN,E9PPS4_HUMAN,E9PPC2_HUMAN,E9PN31_HUMAN,E9PLB9_HUMAN,E9PL50_HUMAN,E9PK96_HUMAN,E9PJ11_HUMAN,E9PI48_HUMAN,B3KRD1_HUMAN	UPI00000407AB	.	.	.	5/8	.	hmmpanther:PTHR16208,hmmpanther:PTHR16208:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTCGACAT	byFrequency	5	BLCA
CSMD3	0	.	GRCh37	8	113267578	113267578	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9941C>T	p.Ser3314Leu	p.S3314L	ENST00000297405	62/71	108	98	10	84	84	0	CSMD3,missense_variant,p.Ser3244Leu,ENST00000352409,;CSMD3,missense_variant,p.Ser3145Leu,ENST00000455883,;CSMD3,missense_variant,p.Ser3314Leu,ENST00000297405,;CSMD3,missense_variant,p.Ser2584Leu,ENST00000339701,;CSMD3,missense_variant,p.Ser3274Leu,ENST00000343508,;CSMD3,non_coding_transcript_exon_variant,,ENST00000534172,;	A	ENSG00000164796	ENST00000297405	Transcript	missense_variant	10186	9941	3314	S/L	tCa/tTa	.	.	.	-1	CSMD3	HGNC	19291	protein_coding	YES	CCDS6315.1	ENSP00000297405	CSMD3_HUMAN	.	UPI00001E0584	.	tolerated(0.33)	benign(0.229)	62/71	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF44,Pfam_domain:PF00084,Gene3D:2.10.70.10,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGAATGAAACC	.	3	BLCA
RAD21	0	.	GRCh37	8	117862927	117862927	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1550C>A	p.Pro517Gln	p.P517Q	ENST00000297338	12/14	145	107	38	92	92	0	RAD21,missense_variant,p.Pro517Gln,ENST00000297338,;RAD21,missense_variant,p.Pro62Gln,ENST00000518055,;RAD21,missense_variant,p.Pro21Gln,ENST00000523986,;RAD21,upstream_gene_variant,,ENST00000517749,;UTP23,downstream_gene_variant,,ENST00000520733,;UTP23,downstream_gene_variant,,ENST00000517820,;UTP23,downstream_gene_variant,,ENST00000521703,;UTP23,downstream_gene_variant,,ENST00000524128,;	T	ENSG00000164754	ENST00000297338	Transcript	missense_variant	1838	1550	517	P/Q	cCa/cAa	.	.	.	-1	RAD21	HGNC	9811	protein_coding	YES	CCDS6321.1	ENSP00000297338	RAD21_HUMAN	E5RJW1_HUMAN,E5RJK5_HUMAN,E5RIN7_HUMAN,E5RI01_HUMAN,E5RG18_HUMAN,E5RFZ5_HUMAN,E5RFV8_HUMAN	UPI0000133018	.	tolerated(0.18)	benign(0.002)	12/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12585:SF20,hmmpanther:PTHR12585	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTGGTATT	.	5	BLCA
MED30	0	.	GRCh37	8	118533223	118533223	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.108C>T	p.%3D	p.I36I	ENST00000297347	1/4	60	21	38	26	26	0	MED30,synonymous_variant,p.%3D,ENST00000297347,;MED30,synonymous_variant,p.%3D,ENST00000522839,;MED30,non_coding_transcript_exon_variant,,ENST00000519879,;RPS10P16,downstream_gene_variant,,ENST00000483812,;	T	ENSG00000164758	ENST00000297347	Transcript	synonymous_variant	272	108	36	I	atC/atT	.	.	.	1	MED30	HGNC	23032	protein_coding	YES	CCDS6323.1	ENSP00000297347	MED30_HUMAN	.	UPI00000369F8	.	.	.	1/4	.	hmmpanther:PTHR31705,Pfam_domain:PF11315	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCATCGGGCA	.	5	BLCA
COL14A1	0	.	GRCh37	8	121210082	121210082	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.625G>A	p.Glu209Lys	p.E209K	ENST00000297848	7/48	128	107	20	100	100	0	COL14A1,missense_variant,p.Glu209Lys,ENST00000309791,;COL14A1,missense_variant,p.Glu209Lys,ENST00000537875,;COL14A1,missense_variant,p.Glu22Lys,ENST00000434620,;COL14A1,missense_variant,p.Glu209Lys,ENST00000297848,;COL14A1,intron_variant,,ENST00000523142,;COL14A1,intron_variant,,ENST00000247781,;COL14A1,non_coding_transcript_exon_variant,,ENST00000432943,;COL14A1,missense_variant,p.Glu209Lys,ENST00000498051,;	A	ENSG00000187955	ENST00000297848	Transcript	missense_variant	895	625	209	E/K	Gaa/Aaa	COSM1095602	.	.	1	COL14A1	HGNC	2191	protein_coding	YES	CCDS34938.1	ENSP00000297848	COEA1_HUMAN	.	UPI000046D377	.	deleterious(0)	probably_damaging(0.999)	7/48	.	PROSITE_profiles:PS50234,hmmpanther:PTHR22992:SF89,hmmpanther:PTHR22992,Gene3D:3.40.50.410,Pfam_domain:PF00092,SMART_domains:SM00327,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAATAGAATGG	.	5	BLCA
HAS2	0	.	GRCh37	8	122627209	122627209	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.799G>A	p.Glu267Lys	p.E267K	ENST00000303924	4/4	152	127	25	109	109	0	HAS2,missense_variant,p.Glu267Lys,ENST00000303924,;	T	ENSG00000170961	ENST00000303924	Transcript	missense_variant	1337	799	267	E/K	Gaa/Aaa	COSM3833972	.	.	-1	HAS2	HGNC	4819	protein_coding	YES	CCDS6335.1	ENSP00000306991	HYAS2_HUMAN	.	UPI000012C0A9	.	deleterious(0.04)	probably_damaging(1)	4/4	.	hmmpanther:PTHR22913,hmmpanther:PTHR22913:SF7,Pfam_domain:PF03142,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCTATAT	.	4	BLCA
ANXA13	0	.	GRCh37	8	124705482	124705482	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720G>A	p.%3D	p.K240K	ENST00000262219	9/12	229	191	37	171	171	0	ANXA13,synonymous_variant,p.%3D,ENST00000262219,;ANXA13,synonymous_variant,p.%3D,ENST00000419625,;ANXA13,downstream_gene_variant,,ENST00000520519,;	T	ENSG00000104537	ENST00000262219	Transcript	synonymous_variant	788	720	240	K	aaG/aaA	.	.	.	-1	ANXA13	HGNC	536	protein_coding	YES	CCDS34939.1	ENSP00000262219	ANX13_HUMAN	E5RIN3_HUMAN	UPI000016A41E	.	.	.	9/12	.	hmmpanther:PTHR10502:SF105,hmmpanther:PTHR10502,Pfam_domain:PF00191,Gene3D:1.10.220.10,SMART_domains:SM00335,Superfamily_domains:SSF47874,Prints_domain:PR00196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTCTTGGC	.	4	BLCA
FAM91A1	0	.	GRCh37	8	124796777	124796777	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.771G>A	p.%3D	p.K257K	ENST00000334705	9/24	72	33	39	42	42	0	FAM91A1,synonymous_variant,p.%3D,ENST00000334705,;FAM91A1,synonymous_variant,p.%3D,ENST00000521166,;FAM91A1,synonymous_variant,p.%3D,ENST00000517912,;FAM91A1,3_prime_UTR_variant,,ENST00000519721,;FAM91A1,non_coding_transcript_exon_variant,,ENST00000521704,;	A	ENSG00000176853	ENST00000334705	Transcript	synonymous_variant	1017	771	257	K	aaG/aaA	COSM3995849	.	.	1	FAM91A1	HGNC	26306	protein_coding	YES	CCDS6346.2	ENSP00000335082	F91A1_HUMAN	H0YC80_HUMAN	UPI0000E5AF4E	.	.	.	9/24	.	Pfam_domain:PF14647	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATAAGATATT	.	5	BLCA
DLC1	0	.	GRCh37	8	13251155	13251155	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1221T>G	p.Asn407Lys	p.N407K	ENST00000276297	4/18	49	27	22	93	93	0	DLC1,missense_variant,p.Asn407Lys,ENST00000511869,;DLC1,missense_variant,p.Asn407Lys,ENST00000276297,;DLC1,missense_variant,p.Asn407Lys,ENST00000316609,;	C	ENSG00000164741	ENST00000276297	Transcript	missense_variant	1631	1221	407	N/K	aaT/aaG	.	.	.	-1	DLC1	HGNC	2897	protein_coding	YES	CCDS5989.1	ENSP00000276297	RHG07_HUMAN	.	UPI0000210275	.	tolerated_low_confidence(0.13)	benign(0.002)	4/18	.	hmmpanther:PTHR12659,hmmpanther:PTHR12659:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTGATTTAC	.	5	BLCA
ZC3H3	0	.	GRCh37	8	144589999	144589999	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1632G>A	p.%3D	p.K544K	ENST00000262577	4/12	118	101	17	100	100	0	ZC3H3,synonymous_variant,p.%3D,ENST00000262577,;ZC3H3,synonymous_variant,p.%3D,ENST00000528401,;	T	ENSG00000014164	ENST00000262577	Transcript	synonymous_variant	1664	1632	544	K	aaG/aaA	.	.	.	-1	ZC3H3	HGNC	28972	protein_coding	YES	CCDS6402.1	ENSP00000262577	ZC3H3_HUMAN	.	UPI0000160D96	.	.	.	4/12	.	hmmpanther:PTHR23102,hmmpanther:PTHR23102:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTCTTGAC	.	4	BLCA
NAPRT1	0	.	GRCh37	8	144657456	144657456	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1351G>A	p.Glu451Lys	p.E451K	ENST00000449291	11/13	82	37	44	47	47	0	NAPRT1,missense_variant,p.Glu451Lys,ENST00000435154,;NAPRT1,missense_variant,p.Glu451Lys,ENST00000449291,;NAPRT1,missense_variant,p.Glu451Lys,ENST00000276844,;NAPRT1,missense_variant,p.Glu451Lys,ENST00000340490,;NAPRT1,missense_variant,p.Glu451Lys,ENST00000426292,;EEF1D,downstream_gene_variant,,ENST00000423316,;EEF1D,downstream_gene_variant,,ENST00000528610,;EEF1D,downstream_gene_variant,,ENST00000530109,;EEF1D,downstream_gene_variant,,ENST00000529272,;EEF1D,downstream_gene_variant,,ENST00000534380,;EEF1D,downstream_gene_variant,,ENST00000419152,;EEF1D,downstream_gene_variant,,ENST00000526838,;MROH6,upstream_gene_variant,,ENST00000398882,;EEF1D,downstream_gene_variant,,ENST00000532400,;EEF1D,downstream_gene_variant,,ENST00000524624,;EEF1D,downstream_gene_variant,,ENST00000529576,;EEF1D,downstream_gene_variant,,ENST00000528382,;EEF1D,downstream_gene_variant,,ENST00000532741,;EEF1D,downstream_gene_variant,,ENST00000395119,;EEF1D,downstream_gene_variant,,ENST00000317198,;MROH6,upstream_gene_variant,,ENST00000529971,;EEF1D,downstream_gene_variant,,ENST00000534377,;EEF1D,downstream_gene_variant,,ENST00000531621,;EEF1D,downstream_gene_variant,,ENST00000442189,;RP11-661A12.9,intron_variant,,ENST00000531730,;RP11-661A12.7,upstream_gene_variant,,ENST00000529247,;NAPRT1,non_coding_transcript_exon_variant,,ENST00000460623,;NAPRT1,non_coding_transcript_exon_variant,,ENST00000464332,;NAPRT1,non_coding_transcript_exon_variant,,ENST00000498076,;NAPRT1,non_coding_transcript_exon_variant,,ENST00000529179,;NAPRT1,downstream_gene_variant,,ENST00000462059,;NAPRT1,downstream_gene_variant,,ENST00000491904,;NAPRT1,downstream_gene_variant,,ENST00000480946,;NAPRT1,downstream_gene_variant,,ENST00000532645,;EEF1D,downstream_gene_variant,,ENST00000529007,;EEF1D,downstream_gene_variant,,ENST00000527741,;EEF1D,downstream_gene_variant,,ENST00000524397,;EEF1D,downstream_gene_variant,,ENST00000533833,;NAPRT1,downstream_gene_variant,,ENST00000488096,;NAPRT1,downstream_gene_variant,,ENST00000525583,;	T	ENSG00000147813	ENST00000449291	Transcript	missense_variant	1646	1351	451	E/K	Gag/Aag	.	.	.	-1	NAPRT1	HGNC	30450	protein_coding	YES	CCDS6403.2	ENSP00000401508	PNCB_HUMAN	.	UPI000058EC33	.	tolerated(0.56)	benign(0.06)	11/13	.	hmmpanther:PTHR11098,hmmpanther:PTHR11098:SF1,TIGRFAM_domain:TIGR01513,PIRSF_domain:PIRSF000484,Superfamily_domains:SSF51690	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCCTGCC	.	5	BLCA
TIGD5	0	.	GRCh37	8	144680434	144680434	+	Missense_Mutation	SNP	G	G	A	rs746801113	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361G>A	p.Glu121Lys	p.E121K	ENST00000504548	1/1	37	30	6	25	25	0	TIGD5,missense_variant,p.Glu121Lys,ENST00000504548,;TIGD5,missense_variant,p.Glu72Lys,ENST00000321385,;EEF1D,intron_variant,,ENST00000533749,;EEF1D,upstream_gene_variant,,ENST00000423316,;EEF1D,upstream_gene_variant,,ENST00000528610,;EEF1D,upstream_gene_variant,,ENST00000531670,;EEF1D,upstream_gene_variant,,ENST00000534804,;EEF1D,upstream_gene_variant,,ENST00000528303,;EEF1D,upstream_gene_variant,,ENST00000529832,;EEF1D,upstream_gene_variant,,ENST00000525261,;EEF1D,upstream_gene_variant,,ENST00000533494,;EEF1D,upstream_gene_variant,,ENST00000530191,;EEF1D,upstream_gene_variant,,ENST00000529272,;EEF1D,upstream_gene_variant,,ENST00000534380,;EEF1D,upstream_gene_variant,,ENST00000526133,;EEF1D,upstream_gene_variant,,ENST00000419152,;EEF1D,upstream_gene_variant,,ENST00000526838,;EEF1D,upstream_gene_variant,,ENST00000534475,;EEF1D,upstream_gene_variant,,ENST00000532400,;EEF1D,upstream_gene_variant,,ENST00000524624,;EEF1D,upstream_gene_variant,,ENST00000530545,;EEF1D,upstream_gene_variant,,ENST00000531218,;EEF1D,upstream_gene_variant,,ENST00000532596,;EEF1D,upstream_gene_variant,,ENST00000532543,;EEF1D,upstream_gene_variant,,ENST00000530306,;EEF1D,upstream_gene_variant,,ENST00000395119,;EEF1D,upstream_gene_variant,,ENST00000526340,;EEF1D,upstream_gene_variant,,ENST00000317198,;EEF1D,upstream_gene_variant,,ENST00000531931,;EEF1D,upstream_gene_variant,,ENST00000531281,;EEF1D,upstream_gene_variant,,ENST00000529516,;EEF1D,upstream_gene_variant,,ENST00000531953,;EEF1D,upstream_gene_variant,,ENST00000533204,;EEF1D,upstream_gene_variant,,ENST00000534377,;EEF1D,upstream_gene_variant,,ENST00000531621,;EEF1D,upstream_gene_variant,,ENST00000524900,;EEF1D,upstream_gene_variant,,ENST00000526710,;EEF1D,upstream_gene_variant,,ENST00000442189,;RP11-661A12.14,upstream_gene_variant,,ENST00000606452,;EEF1D,upstream_gene_variant,,ENST00000531770,;EEF1D,upstream_gene_variant,,ENST00000526786,;EEF1D,upstream_gene_variant,,ENST00000525695,;EEF1D,upstream_gene_variant,,ENST00000530848,;EEF1D,upstream_gene_variant,,ENST00000529007,;EEF1D,upstream_gene_variant,,ENST00000524397,;EEF1D,upstream_gene_variant,,ENST00000533833,;EEF1D,upstream_gene_variant,,ENST00000534232,;	A	ENSG00000179886	ENST00000504548	Transcript	missense_variant	361	361	121	E/K	Gag/Aag	rs746801113	.	.	1	TIGD5	HGNC	18336	protein_coding	YES	CCDS6406.2	ENSP00000421489	TIGD5_HUMAN	.	UPI0001BAE24C	.	deleterious(0.05)	possibly_damaging(0.727)	1/1	.	PROSITE_profiles:PS51253,hmmpanther:PTHR19303:SF210,hmmpanther:PTHR19303,SMART_domains:SM00674,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAACGAGGAG	byFrequency	5	BLCA
MAPK15	0	.	GRCh37	8	144803976	144803976	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1384C>T	p.Gln462Ter	p.Q462*	ENST00000338033	13/14	63	27	35	32	32	0	MAPK15,stop_gained,p.Gln462Ter,ENST00000338033,;MAPK15,downstream_gene_variant,,ENST00000395107,;MAPK15,downstream_gene_variant,,ENST00000395108,;FAM83H,downstream_gene_variant,,ENST00000388913,;RP11-429J17.5,upstream_gene_variant,,ENST00000527908,;MAPK15,non_coding_transcript_exon_variant,,ENST00000528175,;MAPK15,non_coding_transcript_exon_variant,,ENST00000461928,;MAPK15,non_coding_transcript_exon_variant,,ENST00000484654,;MAPK15,downstream_gene_variant,,ENST00000533830,;MAPK15,downstream_gene_variant,,ENST00000475376,;FAM83H,downstream_gene_variant,,ENST00000395103,;	T	ENSG00000181085	ENST00000338033	Transcript	stop_gained	1503	1384	462	Q/*	Cag/Tag	.	.	.	1	MAPK15	HGNC	24667	protein_coding	YES	CCDS6409.2	ENSP00000337691	MK15_HUMAN	.	UPI00000496E7	.	.	.	13/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCTCAGGTG	.	5	BLCA
SCRIB	0	.	GRCh37	8	144892959	144892959	+	Missense_Mutation	SNP	G	G	A	rs779811140	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1301C>T	p.Ser434Leu	p.S434L	ENST00000356994	12/37	75	66	9	42	42	0	SCRIB,missense_variant,p.Ser353Leu,ENST00000377533,;SCRIB,missense_variant,p.Ser434Leu,ENST00000356994,;SCRIB,missense_variant,p.Ser434Leu,ENST00000320476,;SCRIB,upstream_gene_variant,,ENST00000531942,;MIR937,downstream_gene_variant,,ENST00000401271,;	A	ENSG00000180900	ENST00000356994	Transcript	missense_variant	1308	1301	434	S/L	tCg/tTg	rs779811140	.	.	-1	SCRIB	HGNC	30377	protein_coding	YES	CCDS6412.1	ENSP00000349486	SCRIB_HUMAN	.	UPI00004576FD	.	.	benign(0.245)	12/37	.	hmmpanther:PTHR23155:SF412,hmmpanther:PTHR23155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	TCTCCGAGAGG	byFrequency	2	BLCA
SCRIB	0	.	GRCh37	8	144895510	144895510	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.538G>A	p.Asp180Asn	p.D180N	ENST00000356994	6/37	102	88	13	75	75	0	SCRIB,missense_variant,p.Asp99Asn,ENST00000377533,;SCRIB,missense_variant,p.Asp180Asn,ENST00000356994,;SCRIB,missense_variant,p.Asp180Asn,ENST00000320476,;PUF60,downstream_gene_variant,,ENST00000529999,;PUF60,downstream_gene_variant,,ENST00000349157,;PUF60,downstream_gene_variant,,ENST00000313352,;PUF60,downstream_gene_variant,,ENST00000527197,;PUF60,downstream_gene_variant,,ENST00000526683,;PUF60,downstream_gene_variant,,ENST00000453551,;PUF60,downstream_gene_variant,,ENST00000456095,;SCRIB,upstream_gene_variant,,ENST00000531942,;PUF60,downstream_gene_variant,,ENST00000532884,;PUF60,downstream_gene_variant,,ENST00000531897,;PUF60,downstream_gene_variant,,ENST00000527744,;PUF60,downstream_gene_variant,,ENST00000533162,;PUF60,downstream_gene_variant,,ENST00000526459,;MIR937,upstream_gene_variant,,ENST00000401271,;PUF60,downstream_gene_variant,,ENST00000531951,;PUF60,downstream_gene_variant,,ENST00000524570,;PUF60,downstream_gene_variant,,ENST00000528999,;PUF60,downstream_gene_variant,,ENST00000528320,;PUF60,downstream_gene_variant,,ENST00000529693,;	T	ENSG00000180900	ENST00000356994	Transcript	missense_variant	545	538	180	D/N	Gat/Aat	COSM1551998,COSM1551997	.	.	-1	SCRIB	HGNC	30377	protein_coding	YES	CCDS6412.1	ENSP00000349486	SCRIB_HUMAN	.	UPI00004576FD	.	.	probably_damaging(0.999)	6/37	.	PROSITE_profiles:PS51450,hmmpanther:PTHR23155:SF412,hmmpanther:PTHR23155,Gene3D:3.80.10.10,Pfam_domain:PF12799,SMART_domains:SM00369,SMART_domains:SM00364,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCCAGCT	.	5	BLCA
SCRIB	0	.	GRCh37	8	144895693	144895693	+	Silent	SNP	G	G	A	rs773591724	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.450C>T	p.%3D	p.L150L	ENST00000356994	5/37	43	14	28	32	32	0	SCRIB,synonymous_variant,p.%3D,ENST00000377533,;SCRIB,synonymous_variant,p.%3D,ENST00000356994,;SCRIB,synonymous_variant,p.%3D,ENST00000320476,;PUF60,downstream_gene_variant,,ENST00000529999,;PUF60,downstream_gene_variant,,ENST00000349157,;PUF60,downstream_gene_variant,,ENST00000313352,;PUF60,downstream_gene_variant,,ENST00000527197,;PUF60,downstream_gene_variant,,ENST00000526683,;PUF60,downstream_gene_variant,,ENST00000453551,;PUF60,downstream_gene_variant,,ENST00000456095,;SCRIB,upstream_gene_variant,,ENST00000531942,;PUF60,downstream_gene_variant,,ENST00000532884,;PUF60,downstream_gene_variant,,ENST00000531897,;PUF60,downstream_gene_variant,,ENST00000527744,;PUF60,downstream_gene_variant,,ENST00000533162,;PUF60,downstream_gene_variant,,ENST00000526459,;MIR937,upstream_gene_variant,,ENST00000401271,;PUF60,downstream_gene_variant,,ENST00000531951,;PUF60,downstream_gene_variant,,ENST00000524570,;PUF60,downstream_gene_variant,,ENST00000528999,;PUF60,downstream_gene_variant,,ENST00000528320,;PUF60,downstream_gene_variant,,ENST00000529693,;PUF60,downstream_gene_variant,,ENST00000527584,;	A	ENSG00000180900	ENST00000356994	Transcript	synonymous_variant	457	450	150	L	ctC/ctT	rs773591724,COSM1755617,COSM1755618	.	.	-1	SCRIB	HGNC	30377	protein_coding	YES	CCDS6412.1	ENSP00000349486	SCRIB_HUMAN	.	UPI00004576FD	.	.	.	5/37	.	hmmpanther:PTHR23155:SF412,hmmpanther:PTHR23155,Gene3D:3.80.10.10,SMART_domains:SM00369,SMART_domains:SM00364,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGCGAGGCT	byFrequency	5	BLCA
PLEC	0	.	GRCh37	8	144993828	144993828	+	Silent	SNP	G	G	A	rs782378294	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10572C>T	p.%3D	p.L3524L	ENST00000322810	32/32	41	11	30	34	34	0	PLEC,synonymous_variant,p.%3D,ENST00000322810,;PLEC,synonymous_variant,p.%3D,ENST00000527096,;PLEC,synonymous_variant,p.%3D,ENST00000345136,;PLEC,synonymous_variant,p.%3D,ENST00000357649,;PLEC,synonymous_variant,p.%3D,ENST00000398774,;PLEC,synonymous_variant,p.%3D,ENST00000354589,;PLEC,synonymous_variant,p.%3D,ENST00000356346,;PLEC,synonymous_variant,p.%3D,ENST00000436759,;PLEC,synonymous_variant,p.%3D,ENST00000354958,;PLEC,downstream_gene_variant,,ENST00000527303,;	A	ENSG00000178209	ENST00000322810	Transcript	synonymous_variant	10742	10572	3524	L	ctC/ctT	rs782378294	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	.	32/32	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Pfam_domain:PF00681,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAGGAGCGC	.	5	BLCA
PLEC	0	.	GRCh37	8	145009097	145009097	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237G>A	p.Glu413Lys	p.E413K	ENST00000322810	9/32	52	45	7	34	34	0	PLEC,missense_variant,p.Glu413Lys,ENST00000322810,;PLEC,missense_variant,p.Glu299Lys,ENST00000527096,;PLEC,missense_variant,p.Glu276Lys,ENST00000345136,;PLEC,missense_variant,p.Glu280Lys,ENST00000357649,;PLEC,missense_variant,p.Glu244Lys,ENST00000398774,;PLEC,missense_variant,p.Glu320Lys,ENST00000528025,;PLEC,missense_variant,p.Glu276Lys,ENST00000354589,;PLEC,missense_variant,p.Glu262Lys,ENST00000356346,;PLEC,missense_variant,p.Glu303Lys,ENST00000436759,;PLEC,missense_variant,p.Glu254Lys,ENST00000354958,;PLEC,downstream_gene_variant,,ENST00000527816,;PLEC,downstream_gene_variant,,ENST00000526416,;PLEC,downstream_gene_variant,,ENST00000528131,;PLEC,downstream_gene_variant,,ENST00000532346,;	T	ENSG00000178209	ENST00000322810	Transcript	missense_variant	1407	1237	413	E/K	Gag/Aag	.	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	unknown(0)	9/32	.	Superfamily_domains:SSF46966,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCTGCG	.	4	BLCA
PLEC	0	.	GRCh37	8	145012841	145012841	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.543G>A	p.%3D	p.Q181Q	ENST00000322810	2/32	100	82	17	92	92	0	PLEC,synonymous_variant,p.%3D,ENST00000322810,;PLEC,synonymous_variant,p.%3D,ENST00000526416,;PLEC,synonymous_variant,p.%3D,ENST00000527096,;PLEC,synonymous_variant,p.%3D,ENST00000345136,;PLEC,synonymous_variant,p.%3D,ENST00000357649,;PLEC,synonymous_variant,p.%3D,ENST00000398774,;PLEC,synonymous_variant,p.%3D,ENST00000528025,;PLEC,synonymous_variant,p.%3D,ENST00000354589,;PLEC,synonymous_variant,p.%3D,ENST00000356346,;PLEC,synonymous_variant,p.%3D,ENST00000436759,;PLEC,synonymous_variant,p.%3D,ENST00000528131,;PLEC,synonymous_variant,p.%3D,ENST00000354958,;PLEC,5_prime_UTR_variant,,ENST00000527816,;PLEC,non_coding_transcript_exon_variant,,ENST00000532346,;	T	ENSG00000178209	ENST00000322810	Transcript	synonymous_variant	713	543	181	Q	caG/caA	.	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	.	2/32	.	Superfamily_domains:SSF47576,SMART_domains:SM00033,Gene3D:1.10.418.10,PROSITE_patterns:PS00019,hmmpanther:PTHR11915:SF247,hmmpanther:PTHR11915,PROSITE_profiles:PS50021	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCTGCAC	.	5	BLCA
PLEC	0	.	GRCh37	8	145018067	145018067	+	Intron	SNP	C	C	T	rs782271543	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.524-5207G>A	.	.	ENST00000322810	.	23	17	6	18	18	0	PLEC,5_prime_UTR_variant,,ENST00000354589,;PLEC,intron_variant,,ENST00000527816,;PLEC,intron_variant,,ENST00000322810,;PLEC,intron_variant,,ENST00000526416,;PLEC,intron_variant,,ENST00000527096,;PLEC,intron_variant,,ENST00000398774,;PLEC,intron_variant,,ENST00000528025,;PLEC,intron_variant,,ENST00000356346,;PLEC,intron_variant,,ENST00000436759,;PLEC,intron_variant,,ENST00000528131,;PLEC,intron_variant,,ENST00000354958,;PLEC,upstream_gene_variant,,ENST00000345136,;PLEC,upstream_gene_variant,,ENST00000357649,;MIR661,downstream_gene_variant,,ENST00000384842,;PLEC,intron_variant,,ENST00000532346,;	T	ENSG00000178209	ENST00000322810	Transcript	intron_variant	.	.	.	.	.	rs782271543	.	.	-1	PLEC	HGNC	9069	protein_coding	YES	CCDS43772.1	ENSP00000323856	PLEC_HUMAN	Q96IE3_HUMAN,E9PQ28_HUMAN	UPI0000233FCD	.	.	.	.	1/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCACGCGGA	.	5	BLCA
KIFC2	0	.	GRCh37	8	145698063	145698063	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1835C>T	p.Ser612Phe	p.S612F	ENST00000301332	16/17	29	24	5	22	22	0	KIFC2,missense_variant,p.Ser612Phe,ENST00000301332,;KIFC2,intron_variant,,ENST00000301331,;FOXH1,downstream_gene_variant,,ENST00000377317,;KIFC2,non_coding_transcript_exon_variant,,ENST00000531423,;FOXH1,downstream_gene_variant,,ENST00000525197,;KIFC2,non_coding_transcript_exon_variant,,ENST00000531425,;KIFC2,downstream_gene_variant,,ENST00000529864,;KIFC2,downstream_gene_variant,,ENST00000529644,;KIFC2,downstream_gene_variant,,ENST00000533114,;	T	ENSG00000167702	ENST00000301332	Transcript	missense_variant	2212	1835	612	S/F	tCt/tTt	.	.	.	1	KIFC2	HGNC	29530	protein_coding	YES	CCDS6427.1	ENSP00000301332	KIFC2_HUMAN	.	UPI000006D3B2	.	deleterious(0)	benign(0.412)	16/17	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF337,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCGTCTCCAC	.	2	BLCA
ZNF7	0	.	GRCh37	8	146067786	146067786	+	Nonsense_Mutation	SNP	C	C	T	rs370205689	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294C>T	p.Gln432Ter	p.Q432*	ENST00000528372	5/5	139	58	80	93	93	0	ZNF7,stop_gained,p.Gln432Ter,ENST00000528372,;ZNF7,stop_gained,p.Gln443Ter,ENST00000446747,;ZNF7,stop_gained,p.Gln432Ter,ENST00000325241,;ZNF7,stop_gained,p.Gln336Ter,ENST00000544249,;ZNF7,intron_variant,,ENST00000325217,;ZNF7,intron_variant,,ENST00000525266,;ZNF7,downstream_gene_variant,,ENST00000533314,;ZNF7,downstream_gene_variant,,ENST00000532777,;ZNF7,downstream_gene_variant,,ENST00000529819,;ZNF7,downstream_gene_variant,,ENST00000528130,;ZNF7,downstream_gene_variant,,ENST00000527218,;ZNF7,downstream_gene_variant,,ENST00000530776,;ZNF7,downstream_gene_variant,,ENST00000532051,;ZNF7,downstream_gene_variant,,ENST00000532393,;ZNF7,non_coding_transcript_exon_variant,,ENST00000528017,;COMMD5,intron_variant,,ENST00000530332,;ZNF7,downstream_gene_variant,,ENST00000529767,;ZNF7,downstream_gene_variant,,ENST00000532382,;ZNF7,downstream_gene_variant,,ENST00000530082,;	T	ENSG00000147789	ENST00000528372	Transcript	stop_gained	1534	1294	432	Q/*	Cag/Tag	rs370205689	.	.	1	ZNF7	HGNC	13139	protein_coding	YES	CCDS6435.1	ENSP00000432724	ZNF7_HUMAN	Q7KZ25_HUMAN,F5H290_HUMAN,E9PPK0_HUMAN	UPI000013C3F8	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF189,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCAGCTG	.	5	BLCA
MTUS1	0	.	GRCh37	8	17579389	17579389	+	Intron	SNP	G	G	A	rs764654082	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2449+1792C>T	.	.	ENST00000262102	.	28	20	8	53	53	0	MTUS1,missense_variant,p.Arg8Cys,ENST00000381861,;MTUS1,intron_variant,,ENST00000544260,;MTUS1,intron_variant,,ENST00000381869,;MTUS1,intron_variant,,ENST00000519263,;MTUS1,intron_variant,,ENST00000262102,;MTUS1,downstream_gene_variant,,ENST00000381862,;MTUS1,non_coding_transcript_exon_variant,,ENST00000518975,;MTUS1,intron_variant,,ENST00000521882,;MTUS1,intron_variant,,ENST00000524044,;MTUS1,intron_variant,,ENST00000518138,;MTUS1,intron_variant,,ENST00000517721,;MTUS1,intron_variant,,ENST00000520196,;MTUS1,downstream_gene_variant,,ENST00000523718,;	A	ENSG00000129422	ENST00000262102	Transcript	intron_variant	.	.	.	.	.	rs764654082	.	.	-1	MTUS1	HGNC	29789	protein_coding	YES	CCDS43717.1	ENSP00000262102	MTUS1_HUMAN	.	UPI000003FF3C	.	.	.	.	4/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACTGCGAAATC	byFrequency	4	BLCA
SH2D4A	0	.	GRCh37	8	19190609	19190609	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325G>A	p.Glu109Lys	p.E109K	ENST00000265807	3/10	33	21	12	65	65	0	SH2D4A,missense_variant,p.Glu95Lys,ENST00000523736,;SH2D4A,missense_variant,p.Glu109Lys,ENST00000265807,;SH2D4A,missense_variant,p.Glu109Lys,ENST00000519207,;SH2D4A,missense_variant,p.Glu64Lys,ENST00000518040,;	A	ENSG00000104611	ENST00000265807	Transcript	missense_variant	736	325	109	E/K	Gag/Aag	.	.	.	1	SH2D4A	HGNC	26102	protein_coding	YES	CCDS6009.1	ENSP00000265807	SH24A_HUMAN	.	UPI000007372B	.	tolerated(0.06)	possibly_damaging(0.484)	3/10	.	hmmpanther:PTHR14388:SF5,hmmpanther:PTHR14388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGGAGGCA	.	5	BLCA
SCARA3	0	.	GRCh37	8	27516666	27516666	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.979G>A	p.Asp327Asn	p.D327N	ENST00000301904	5/6	39	16	23	86	86	0	SCARA3,missense_variant,p.Asp327Asn,ENST00000337221,;SCARA3,missense_variant,p.Asp327Asn,ENST00000301904,;	A	ENSG00000168077	ENST00000301904	Transcript	missense_variant	999	979	327	D/N	Gat/Aat	.	.	.	1	SCARA3	HGNC	19000	protein_coding	YES	CCDS34871.1	ENSP00000301904	SCAR3_HUMAN	.	UPI00001B94D8	.	deleterious(0)	probably_damaging(0.998)	5/6	.	hmmpanther:PTHR24637,hmmpanther:PTHR24637:SF210	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCATGATCTT	.	5	BLCA
GSR	0	.	GRCh37	8	30546775	30546775	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.944G>A	p.Gly315Asp	p.G315D	ENST00000221130	9/13	38	19	18	64	64	0	GSR,missense_variant,p.Gly272Asp,ENST00000414019,;GSR,missense_variant,p.Gly315Asp,ENST00000221130,;GSR,missense_variant,p.Gly269Asp,ENST00000520888,;GSR,missense_variant,p.Gly286Asp,ENST00000546342,;GSR,intron_variant,,ENST00000541648,;GSR,intron_variant,,ENST00000537535,;GSR,3_prime_UTR_variant,,ENST00000523295,;	T	ENSG00000104687	ENST00000221130	Transcript	missense_variant	1035	944	315	G/D	gGt/gAt	.	.	.	-1	GSR	HGNC	4623	protein_coding	YES	CCDS34877.1	ENSP00000221130	GSHR_HUMAN	E5RI06_HUMAN	UPI000012BBFF	.	tolerated(0.18)	benign(0.041)	9/13	.	hmmpanther:PTHR22912:SF106,hmmpanther:PTHR22912,TIGRFAM_domain:TIGR01421,Pfam_domain:PF07992,Gene3D:3.50.50.60,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTACCGGGA	.	5	BLCA
GSR	0	.	GRCh37	8	30553915	30553915	+	Silent	SNP	C	C	T	rs756689722	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.777G>A	p.%3D	p.L259L	ENST00000221130	7/13	43	27	16	107	107	0	GSR,synonymous_variant,p.%3D,ENST00000414019,;GSR,synonymous_variant,p.%3D,ENST00000221130,;GSR,synonymous_variant,p.%3D,ENST00000520888,;GSR,synonymous_variant,p.%3D,ENST00000541648,;GSR,synonymous_variant,p.%3D,ENST00000537535,;GSR,synonymous_variant,p.%3D,ENST00000546342,;GSR,downstream_gene_variant,,ENST00000521479,;GSR,3_prime_UTR_variant,,ENST00000523295,;	T	ENSG00000104687	ENST00000221130	Transcript	synonymous_variant	868	777	259	L	ctG/ctA	rs756689722,COSM3834573	.	.	-1	GSR	HGNC	4623	protein_coding	YES	CCDS34877.1	ENSP00000221130	GSHR_HUMAN	E5RI06_HUMAN	UPI000012BBFF	.	.	.	7/13	.	hmmpanther:PTHR22912:SF106,hmmpanther:PTHR22912,Pfam_domain:PF00070,TIGRFAM_domain:TIGR01421,Pfam_domain:PF07992,Gene3D:3.50.50.60,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCAGTGA	.	5	BLCA
DDHD2	0	.	GRCh37	8	38107308	38107308	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1331G>A	p.Arg444Lys	p.R444K	ENST00000397166	11/18	20	15	5	35	35	0	DDHD2,missense_variant,p.Arg444Lys,ENST00000397166,;DDHD2,missense_variant,p.Arg63Lys,ENST00000517385,;DDHD2,missense_variant,p.Arg444Lys,ENST00000520272,;DDHD2,5_prime_UTR_variant,,ENST00000529845,;DDHD2,intron_variant,,ENST00000532106,;DDHD2,upstream_gene_variant,,ENST00000528613,;DDHD2,upstream_gene_variant,,ENST00000526144,;DDHD2,downstream_gene_variant,,ENST00000528888,;DDHD2,non_coding_transcript_exon_variant,,ENST00000520176,;DDHD2,non_coding_transcript_exon_variant,,ENST00000528504,;DDHD2,downstream_gene_variant,,ENST00000527415,;DDHD2,upstream_gene_variant,,ENST00000528148,;DDHD2,upstream_gene_variant,,ENST00000524545,;DDHD2,downstream_gene_variant,,ENST00000531344,;	A	ENSG00000085788	ENST00000397166	Transcript	missense_variant	1856	1331	444	R/K	aGa/aAa	.	.	.	1	DDHD2	HGNC	29106	protein_coding	YES	CCDS34883.1	ENSP00000380352	DDHD2_HUMAN	H0YE64_HUMAN,E9PQY9_HUMAN,E9PPH8_HUMAN,E9PP45_HUMAN,E9PK57_HUMAN,B3KXB5_HUMAN	UPI0000160E07	.	tolerated(0.58)	benign(0.012)	11/18	.	Superfamily_domains:SSF47769,SMART_domains:SM00454,hmmpanther:PTHR15457:SF7,hmmpanther:PTHR15457	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACCAGAAAAA	.	5	BLCA
TM2D2	0	.	GRCh37	8	38853784	38853784	+	Missense_Mutation	SNP	C	C	G	rs765495488	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>C	p.Ala59Pro	p.A59P	ENST00000456397	1/4	64	34	30	49	49	0	TM2D2,missense_variant,p.Ala59Pro,ENST00000456397,;TM2D2,5_prime_UTR_variant,,ENST00000397070,;TM2D2,intron_variant,,ENST00000517872,;TM2D2,intron_variant,,ENST00000520152,;TM2D2,intron_variant,,ENST00000412303,;TM2D2,intron_variant,,ENST00000456845,;TM2D2,intron_variant,,ENST00000522142,;ADAM9,upstream_gene_variant,,ENST00000466936,;ADAM9,upstream_gene_variant,,ENST00000481513,;ADAM9,upstream_gene_variant,,ENST00000487273,;TM2D2,intron_variant,,ENST00000522434,;TM2D2,upstream_gene_variant,,ENST00000521060,;TM2D2,non_coding_transcript_exon_variant,,ENST00000519186,;TM2D2,upstream_gene_variant,,ENST00000524331,;ADAM9,upstream_gene_variant,,ENST00000379917,;ADAM9,upstream_gene_variant,,ENST00000468065,;ADAM9,upstream_gene_variant,,ENST00000481873,;	G	ENSG00000169490	ENST00000456397	Transcript	missense_variant	269	175	59	A/P	Gcg/Ccg	rs765495488	.	.	-1	TM2D2	HGNC	24127	protein_coding	YES	CCDS6111.1	ENSP00000416050	TM2D2_HUMAN	.	UPI000006FCA0	.	tolerated_low_confidence(0.29)	benign(0)	1/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21016:SF4,hmmpanther:PTHR21016	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCGCAGCAC	.	5	BLCA
ADAM9	0	.	GRCh37	8	38899470	38899470	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1136C>T	p.Ser379Phe	p.S379F	ENST00000487273	12/22	45	24	21	51	51	0	ADAM9,missense_variant,p.Ser379Phe,ENST00000487273,;ADAM9,missense_variant,p.Ser379Phe,ENST00000468065,;ADAM9,missense_variant,p.Ser379Phe,ENST00000379917,;ADAM9,missense_variant,p.Ser379Phe,ENST00000481873,;	T	ENSG00000168615	ENST00000487273	Transcript	missense_variant	1214	1136	379	S/F	tCc/tTc	.	.	.	1	ADAM9	HGNC	216	protein_coding	YES	CCDS6112.1	ENSP00000419446	ADAM9_HUMAN	B4DDM8_HUMAN	UPI0000048D87	.	deleterious(0)	probably_damaging(0.987)	12/22	.	PROSITE_profiles:PS50215,hmmpanther:PTHR11905:SF32,hmmpanther:PTHR11905,Gene3D:3.40.390.10,Pfam_domain:PF01421,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTCCAGAA	.	5	BLCA
AGPAT6	0	.	GRCh37	8	41469470	41469470	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660C>T	p.%3D	p.I220I	ENST00000396987	6/13	42	26	16	55	55	0	AGPAT6,synonymous_variant,p.%3D,ENST00000396987,;AGPAT6,downstream_gene_variant,,ENST00000519853,;RP11-360L9.8,intron_variant,,ENST00000581909,;AGPAT6,3_prime_UTR_variant,,ENST00000521806,;AGPAT6,non_coding_transcript_exon_variant,,ENST00000519921,;AGPAT6,non_coding_transcript_exon_variant,,ENST00000523906,;	T	ENSG00000158669	ENST00000396987	Transcript	synonymous_variant	1587	660	220	I	atC/atT	.	.	.	1	AGPAT6	HGNC	20880	protein_coding	YES	CCDS6117.1	ENSP00000380184	GPAT4_HUMAN	Q8NDD3_HUMAN,Q2TU73_HUMAN,E5RIA1_HUMAN,E5RHA6_HUMAN,E5RGW3_HUMAN	UPI0000047FDD	.	.	.	6/13	.	hmmpanther:PTHR23063,hmmpanther:PTHR23063:SF5,Superfamily_domains:0039877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGATCTGCGT	.	5	BLCA
AGPAT6	0	.	GRCh37	8	41472504	41472504	+	Silent	SNP	G	G	A	rs780347677	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.990G>A	p.%3D	p.S330S	ENST00000396987	10/13	79	61	18	79	79	0	AGPAT6,synonymous_variant,p.%3D,ENST00000396987,;AGPAT6,downstream_gene_variant,,ENST00000519853,;RP11-360L9.8,intron_variant,,ENST00000581909,;AGPAT6,non_coding_transcript_exon_variant,,ENST00000523906,;AGPAT6,non_coding_transcript_exon_variant,,ENST00000519921,;AGPAT6,upstream_gene_variant,,ENST00000518628,;AGPAT6,downstream_gene_variant,,ENST00000521806,;AGPAT6,upstream_gene_variant,,ENST00000521349,;	A	ENSG00000158669	ENST00000396987	Transcript	synonymous_variant	1917	990	330	S	tcG/tcA	rs780347677	.	.	1	AGPAT6	HGNC	20880	protein_coding	YES	CCDS6117.1	ENSP00000380184	GPAT4_HUMAN	Q8NDD3_HUMAN,Q2TU73_HUMAN,E5RIA1_HUMAN,E5RHA6_HUMAN,E5RGW3_HUMAN	UPI0000047FDD	.	.	.	10/13	.	hmmpanther:PTHR23063,hmmpanther:PTHR23063:SF5,Pfam_domain:PF01553,SMART_domains:SM00563,Superfamily_domains:0039877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATCGGTGAT	.	5	BLCA
ANK1	0	.	GRCh37	8	41547787	41547787	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4185C>T	p.%3D	p.H1395H	ENST00000265709	34/43	46	28	17	50	50	0	ANK1,synonymous_variant,p.%3D,ENST00000265709,;ANK1,synonymous_variant,p.%3D,ENST00000289734,;ANK1,synonymous_variant,p.%3D,ENST00000347528,;ANK1,synonymous_variant,p.%3D,ENST00000520299,;ANK1,synonymous_variant,p.%3D,ENST00000352337,;ANK1,synonymous_variant,p.%3D,ENST00000379758,;ANK1,synonymous_variant,p.%3D,ENST00000396942,;ANK1,synonymous_variant,p.%3D,ENST00000396945,;ANK1,synonymous_variant,p.%3D,ENST00000518061,;ANK1,non_coding_transcript_exon_variant,,ENST00000524227,;ANK1,downstream_gene_variant,,ENST00000524069,;	A	ENSG00000029534	ENST00000265709	Transcript	synonymous_variant	4467	4185	1395	H	caC/caT	.	.	.	-1	ANK1	HGNC	492	protein_coding	YES	CCDS47849.1	ENSP00000265709	ANK1_HUMAN	Q9UMG4_HUMAN	UPI0000E4453A	.	.	.	34/43	.	hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAATGTGCTG	.	5	BLCA
CHRNA6	0	.	GRCh37	8	42611429	42611429	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.913G>A	p.Glu305Lys	p.E305K	ENST00000276410	5/6	76	63	12	58	58	0	CHRNA6,missense_variant,p.Glu305Lys,ENST00000276410,;CHRNA6,missense_variant,p.Glu290Lys,ENST00000534622,;CHRNA6,downstream_gene_variant,,ENST00000533810,;CHRNA6,downstream_gene_variant,,ENST00000530869,;	T	ENSG00000147434	ENST00000276410	Transcript	missense_variant	1269	913	305	E/K	Gag/Aag	.	.	.	-1	CHRNA6	HGNC	15963	protein_coding	YES	CCDS6135.1	ENSP00000276410	ACHA6_HUMAN	E9PP97_HUMAN	UPI0000061DF6	.	tolerated(0.39)	benign(0.122)	5/6	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF82,Gene3D:1.20.120.370,Pfam_domain:PF02932,TIGRFAM_domain:TIGR00860,Superfamily_domains:SSF90112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACTCACCCA	.	5	BLCA
PRKDC	0	.	GRCh37	8	48719764	48719764	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9678C>T	p.%3D	p.I3226I	ENST00000314191	70/87	62	35	26	57	57	0	PRKDC,synonymous_variant,p.%3D,ENST00000338368,;PRKDC,synonymous_variant,p.%3D,ENST00000314191,;Y_RNA,upstream_gene_variant,,ENST00000384719,;PRKDC,non_coding_transcript_exon_variant,,ENST00000518216,;PRKDC,non_coding_transcript_exon_variant,,ENST00000523565,;	A	ENSG00000253729	ENST00000314191	Transcript	synonymous_variant	9735	9678	3226	I	atC/atT	.	.	.	-1	PRKDC	HGNC	9413	protein_coding	YES	.	ENSP00000313420	PRKDC_HUMAN	F5GX40_HUMAN	UPI000045790C	.	.	.	70/87	.	PROSITE_profiles:PS51189,hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF54,Pfam_domain:PF02259	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGATATC	.	5	BLCA
SNAI2	0	.	GRCh37	8	49832928	49832928	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.152G>A	p.Gly51Glu	p.G51E	ENST00000396822	3/4	131	88	43	142	142	0	SNAI2,missense_variant,p.Gly51Glu,ENST00000020945,;SNAI2,missense_variant,p.Gly51Glu,ENST00000396822,;	T	ENSG00000019549	ENST00000396822	Transcript	missense_variant	510	152	51	G/E	gGa/gAa	.	.	.	-1	SNAI2	HGNC	11094	protein_coding	YES	CCDS6146.1	ENSP00000380034	SNAI2_HUMAN	.	UPI0000135A3A	.	tolerated(0.94)	benign(0.046)	3/4	.	hmmpanther:PTHR11389:SF400,hmmpanther:PTHR11389	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTCCTGAG	.	5	BLCA
ATP6V1H	0	.	GRCh37	8	54708384	54708384	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.693G>A	p.%3D	p.L231L	ENST00000359530	9/14	62	38	23	52	52	0	ATP6V1H,synonymous_variant,p.%3D,ENST00000396774,;ATP6V1H,synonymous_variant,p.%3D,ENST00000355221,;ATP6V1H,synonymous_variant,p.%3D,ENST00000359530,;ATP6V1H,synonymous_variant,p.%3D,ENST00000520188,;ATP6V1H,non_coding_transcript_exon_variant,,ENST00000523426,;ATP6V1H,intron_variant,,ENST00000521900,;ATP6V1H,upstream_gene_variant,,ENST00000523343,;ATP6V1H,3_prime_UTR_variant,,ENST00000524164,;ATP6V1H,3_prime_UTR_variant,,ENST00000522849,;	T	ENSG00000047249	ENST00000359530	Transcript	synonymous_variant	957	693	231	L	ttG/ttA	.	.	.	-1	ATP6V1H	HGNC	18303	protein_coding	YES	CCDS6153.1	ENSP00000352522	VATH_HUMAN	G3V126_HUMAN,E5RHH0_HUMAN,E5RG49_HUMAN	UPI0000000966	.	.	.	9/14	.	hmmpanther:PTHR10698,hmmpanther:PTHR10698:SF0,Pfam_domain:PF03224,Gene3D:1.25.10.10,PIRSF_domain:PIRSF032184,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTACTCAACAC	.	5	BLCA
RPS20	0	.	GRCh37	8	56986287	56986287	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.144C>T	p.%3D	p.L48L	ENST00000519807	3/6	185	145	40	245	245	0	RPS20,synonymous_variant,p.%3D,ENST00000523936,;RPS20,synonymous_variant,p.%3D,ENST00000521262,;RPS20,synonymous_variant,p.%3D,ENST00000518875,;RPS20,synonymous_variant,p.%3D,ENST00000519807,;RPS20,synonymous_variant,p.%3D,ENST00000009589,;RPS20,5_prime_UTR_variant,,ENST00000524349,;RPS20,5_prime_UTR_variant,,ENST00000520627,;RPS20,intron_variant,,ENST00000519606,;SNORD54,downstream_gene_variant,,ENST00000459159,;CTA-397H3.3,upstream_gene_variant,,ENST00000521403,;RPS20,intron_variant,,ENST00000520490,;RPS20,non_coding_transcript_exon_variant,,ENST00000519369,;RPS20,non_coding_transcript_exon_variant,,ENST00000521289,;	A	ENSG00000008988	ENST00000519807	Transcript	synonymous_variant	270	144	48	L	ctC/ctT	.	.	.	-1	RPS20	HGNC	10405	protein_coding	YES	CCDS55231.1	ENSP00000429374	RS20_HUMAN	.	UPI000022D6C1	.	.	.	3/6	.	Superfamily_domains:SSF54999,TIGRFAM_domain:TIGR01046,Pfam_domain:PF00338,Gene3D:2vqeJ00,PROSITE_patterns:PS00361,hmmpanther:PTHR11700,HAMAP:MF_00508	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTTTGAGATT	.	5	BLCA
ASPH	0	.	GRCh37	8	62588762	62588762	+	Intron	SNP	T	T	C	rs371484854	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.322+4765A>G	.	.	ENST00000379454	.	64	31	33	48	48	0	ASPH,missense_variant,p.Met162Val,ENST00000379449,;ASPH,missense_variant,p.Met133Val,ENST00000517661,;ASPH,intron_variant,,ENST00000522349,;ASPH,intron_variant,,ENST00000517856,;ASPH,intron_variant,,ENST00000522603,;ASPH,intron_variant,,ENST00000519234,;ASPH,intron_variant,,ENST00000356457,;ASPH,intron_variant,,ENST00000522835,;ASPH,intron_variant,,ENST00000517847,;ASPH,intron_variant,,ENST00000379454,;ASPH,intron_variant,,ENST00000517903,;ASPH,intron_variant,,ENST00000541428,;ASPH,intron_variant,,ENST00000518068,;ASPH,intron_variant,,ENST00000518306,;ASPH,intron_variant,,ENST00000445642,;ASPH,intron_variant,,ENST00000389204,;ASPH,intron_variant,,ENST00000523927,;ASPH,intron_variant,,ENST00000517928,;ASPH,downstream_gene_variant,,ENST00000522325,;	C	ENSG00000198363	ENST00000379454	Transcript	intron_variant	.	.	.	.	.	rs371484854	.	.	-1	ASPH	HGNC	757	protein_coding	YES	CCDS34898.1	ENSP00000368767	ASPH_HUMAN	.	UPI0000161BFE	.	.	.	.	3/24	.	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCATTATAT	byFrequency|byCluster	5	BLCA
ASPH	0	.	GRCh37	8	62595012	62595012	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.254-1417C>T	.	.	ENST00000379454	.	104	42	62	83	83	0	ASPH,missense_variant,p.Ser95Leu,ENST00000379449,;ASPH,missense_variant,p.Ser95Leu,ENST00000519234,;ASPH,missense_variant,p.Ser66Leu,ENST00000522835,;ASPH,missense_variant,p.Ser66Leu,ENST00000517847,;ASPH,missense_variant,p.Ser66Leu,ENST00000517903,;ASPH,missense_variant,p.Ser66Leu,ENST00000517661,;ASPH,missense_variant,p.Ser66Leu,ENST00000445642,;ASPH,missense_variant,p.Ser66Leu,ENST00000389204,;ASPH,intron_variant,,ENST00000522349,;ASPH,intron_variant,,ENST00000517856,;ASPH,intron_variant,,ENST00000522603,;ASPH,intron_variant,,ENST00000356457,;ASPH,intron_variant,,ENST00000379454,;ASPH,intron_variant,,ENST00000541428,;ASPH,intron_variant,,ENST00000518068,;ASPH,intron_variant,,ENST00000518306,;ASPH,intron_variant,,ENST00000517928,;ASPH,upstream_gene_variant,,ENST00000523927,;ASPH,downstream_gene_variant,,ENST00000522343,;ASPH,intron_variant,,ENST00000522325,;ASPH,downstream_gene_variant,,ENST00000522036,;	A	ENSG00000198363	ENST00000379454	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ASPH	HGNC	757	protein_coding	YES	CCDS34898.1	ENSP00000368767	ASPH_HUMAN	.	UPI0000161BFE	.	.	.	.	2/24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTGATAAG	.	5	BLCA
DNAJC5B	0	.	GRCh37	8	67012278	67012278	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*12C>T	.	.	ENST00000276570	6/6	34	7	27	21	21	0	DNAJC5B,3_prime_UTR_variant,,ENST00000276570,;DNAJC5B,non_coding_transcript_exon_variant,,ENST00000519330,;	T	ENSG00000147570	ENST00000276570	Transcript	3_prime_UTR_variant	899	.	.	.	.	.	.	.	1	DNAJC5B	HGNC	24138	protein_coding	YES	CCDS6183.1	ENSP00000276570	DNJ5B_HUMAN	E5RGF4_HUMAN	UPI0000050F10	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCAGAGA	.	5	BLCA
ARFGEF1	0	.	GRCh37	8	68189636	68189636	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1084G>A	p.Glu362Lys	p.E362K	ENST00000262215	8/39	82	29	53	63	63	0	ARFGEF1,missense_variant,p.Glu362Lys,ENST00000262215,;	T	ENSG00000066777	ENST00000262215	Transcript	missense_variant	1474	1084	362	E/K	Gag/Aag	.	.	.	-1	ARFGEF1	HGNC	15772	protein_coding	YES	CCDS6199.1	ENSP00000262215	BIG1_HUMAN	E5RJN9_HUMAN,E5RJB2_HUMAN,E5RHZ1_HUMAN,B3KMS9_HUMAN	UPI000013D275	.	tolerated(0.24)	benign(0.015)	8/39	.	hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCTATAG	.	5	BLCA
PREX2	0	.	GRCh37	8	69104646	69104646	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4490C>T	p.Ala1497Val	p.A1497V	ENST00000288368	37/40	68	56	11	42	42	0	PREX2,missense_variant,p.Ala1497Val,ENST00000288368,;PREX2,non_coding_transcript_exon_variant,,ENST00000522247,;PREX2,non_coding_transcript_exon_variant,,ENST00000520235,;	T	ENSG00000046889	ENST00000288368	Transcript	missense_variant	4767	4490	1497	A/V	gCc/gTc	.	.	.	1	PREX2	HGNC	22950	protein_coding	YES	CCDS6201.1	ENSP00000288368	PREX2_HUMAN	Q56UR8_HUMAN	UPI0000375435	.	deleterious_low_confidence(0)	benign(0.129)	37/40	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22829,hmmpanther:PTHR22829:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGCCTGTG	.	5	BLCA
KCNB2	0	.	GRCh37	8	73850364	73850364	+	3'UTR	SNP	A	A	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*38A>C	.	.	ENST00000523207	3/3	52	40	11	41	41	0	KCNB2,3_prime_UTR_variant,,ENST00000523207,;	C	ENSG00000182674	ENST00000523207	Transcript	3_prime_UTR_variant	3362	.	.	.	.	.	.	.	1	KCNB2	HGNC	6232	protein_coding	YES	CCDS6209.1	ENSP00000430846	KCNB2_HUMAN	.	UPI000012DC85	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAACAAAACA	.	5	BLCA
ATP6V0D2	0	.	GRCh37	8	87155142	87155142	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598C>T	p.His200Tyr	p.H200Y	ENST00000285393	5/8	329	270	59	230	230	0	ATP6V0D2,missense_variant,p.His200Tyr,ENST00000285393,;CTD-3118D11.2,intron_variant,,ENST00000522679,;	T	ENSG00000147614	ENST00000285393	Transcript	missense_variant	740	598	200	H/Y	Cat/Tat	.	.	.	1	ATP6V0D2	HGNC	18266	protein_coding	YES	CCDS6241.1	ENSP00000285393	VA0D2_HUMAN	E5RIR3_HUMAN,E5RHJ7_HUMAN	UPI0000051F69	.	tolerated(0.21)	benign(0.106)	5/8	.	hmmpanther:PTHR11028:SF2,hmmpanther:PTHR11028,Pfam_domain:PF01992,PIRSF_domain:PIRSF018497,Superfamily_domains:0044678	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAATCATGGT	.	4	BLCA
SLC7A13	0	.	GRCh37	8	87242558	87242558	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-52G>A	.	.	ENST00000297524	1/4	68	27	41	35	35	0	SLC7A13,5_prime_UTR_variant,,ENST00000419776,;SLC7A13,5_prime_UTR_variant,,ENST00000297524,;SLC7A13,intron_variant,,ENST00000520624,;	T	ENSG00000164893	ENST00000297524	Transcript	5_prime_UTR_variant	53	.	.	.	.	.	.	.	-1	SLC7A13	HGNC	23092	protein_coding	YES	CCDS34917.1	ENSP00000297524	S7A13_HUMAN	.	UPI000006DF39	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTCCTGCCT	.	5	BLCA
RMDN1	0	.	GRCh37	8	87486473	87486473	+	3'UTR	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*64T>C	.	.	ENST00000406452	10/10	63	25	37	43	43	0	RMDN1,3_prime_UTR_variant,,ENST00000519966,;RMDN1,3_prime_UTR_variant,,ENST00000406452,;RMDN1,3_prime_UTR_variant,,ENST00000430676,;WWP1,intron_variant,,ENST00000520798,;RMDN1,intron_variant,,ENST00000519639,;RMDN1,intron_variant,,ENST00000519247,;RMDN1,intron_variant,,ENST00000523911,;RMDN1,intron_variant,,ENST00000519789,;RMDN1,intron_variant,,ENST00000517710,;RMDN1,downstream_gene_variant,,ENST00000522942,;RMDN1,downstream_gene_variant,,ENST00000520719,;RMDN1,non_coding_transcript_exon_variant,,ENST00000517404,;RMDN1,downstream_gene_variant,,ENST00000519145,;RMDN1,downstream_gene_variant,,ENST00000518390,;RMDN1,downstream_gene_variant,,ENST00000524172,;RMDN1,downstream_gene_variant,,ENST00000517821,;	G	ENSG00000176623	ENST00000406452	Transcript	3_prime_UTR_variant	1169	.	.	.	.	.	.	.	-1	RMDN1	HGNC	24285	protein_coding	YES	CCDS34918.1	ENSP00000385927	RMD1_HUMAN	E5RGC8_HUMAN	UPI0000073168	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTAAGTTTA	.	5	BLCA
MFHAS1	0	.	GRCh37	8	8750331	8750331	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.238G>A	p.Glu80Lys	p.E80K	ENST00000276282	1/3	9	4	5	11	11	0	MFHAS1,missense_variant,p.Glu80Lys,ENST00000276282,;RNU6-682P,upstream_gene_variant,,ENST00000363843,;	T	ENSG00000147324	ENST00000276282	Transcript	missense_variant	825	238	80	E/K	Gag/Aag	.	.	.	-1	MFHAS1	HGNC	16982	protein_coding	YES	CCDS34844.1	ENSP00000276282	MFHA1_HUMAN	.	UPI000013DAB6	.	tolerated(0.1)	benign(0.01)	1/3	.	PROSITE_profiles:PS51450,Gene3D:3.80.10.10,SMART_domains:SM00364,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTCGGGTA	.	2	BLCA
CNGB3	0	.	GRCh37	8	87679285	87679285	+	Silent	SNP	G	G	A	rs770816095	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720C>T	p.%3D	p.L240L	ENST00000320005	6/18	78	64	14	24	24	0	CNGB3,synonymous_variant,p.%3D,ENST00000320005,;	A	ENSG00000170289	ENST00000320005	Transcript	synonymous_variant	768	720	240	L	ctC/ctT	rs770816095	.	.	-1	CNGB3	HGNC	2153	protein_coding	YES	CCDS6244.1	ENSP00000316605	CNGB3_HUMAN	.	UPI000014076F	.	.	.	6/18	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10217:SF385,hmmpanther:PTHR10217,Gene3D:1.10.287.70,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	AAGACGAGGCG	byFrequency	3	BLCA
RIPK2	0	.	GRCh37	8	90796353	90796353	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1015C>T	p.His339Tyr	p.H339Y	ENST00000220751	8/11	72	35	37	53	53	0	RIPK2,missense_variant,p.His202Tyr,ENST00000540020,;RIPK2,missense_variant,p.His339Tyr,ENST00000220751,;RIPK2,3_prime_UTR_variant,,ENST00000522965,;RIPK2,downstream_gene_variant,,ENST00000518673,;	T	ENSG00000104312	ENST00000220751	Transcript	missense_variant	1329	1015	339	H/Y	Cat/Tat	.	.	.	1	RIPK2	HGNC	10020	protein_coding	YES	CCDS6247.1	ENSP00000220751	RIPK2_HUMAN	.	UPI00001338F2	.	tolerated(0.5)	benign(0.002)	8/11	.	PIRSF_domain:PIRSF037921,hmmpanther:PTHR23257,hmmpanther:PTHR23257:SF323	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATCATGGT	.	5	BLCA
CCNE2	0	.	GRCh37	8	95895029	95895029	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.923A>C	p.Glu308Ala	p.E308A	ENST00000520509	10/12	154	134	20	115	115	0	CCNE2,missense_variant,p.Glu308Ala,ENST00000308108,;CCNE2,missense_variant,p.Glu308Ala,ENST00000396133,;CCNE2,missense_variant,p.Glu308Ala,ENST00000520509,;INTS8,downstream_gene_variant,,ENST00000520526,;CCNE2,downstream_gene_variant,,ENST00000524224,;INTS8,downstream_gene_variant,,ENST00000447247,;INTS8,downstream_gene_variant,,ENST00000523731,;RP11-347C18.5,upstream_gene_variant,,ENST00000605911,;CCNE2,downstream_gene_variant,,ENST00000523476,;INTS8,downstream_gene_variant,,ENST00000343161,;CCNE2,downstream_gene_variant,,ENST00000521809,;INTS8,downstream_gene_variant,,ENST00000524333,;INTS8,downstream_gene_variant,,ENST00000523206,;	G	ENSG00000175305	ENST00000520509	Transcript	missense_variant	1176	923	308	E/A	gAa/gCa	.	.	.	-1	CCNE2	HGNC	1590	protein_coding	YES	CCDS6264.1	ENSP00000429089	CCNE2_HUMAN	.	UPI00001275CF	.	deleterious(0)	possibly_damaging(0.498)	10/12	.	hmmpanther:PTHR10177:SF70,hmmpanther:PTHR10177,Gene3D:1.10.472.10,Pfam_domain:PF02984,PIRSF_domain:PIRSF001771,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCACTTCAATG	.	4	BLCA
TNKS	0	.	GRCh37	8	9623931	9623931	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3736C>T	p.His1246Tyr	p.H1246Y	ENST00000310430	25/27	38	17	21	79	79	0	TNKS,missense_variant,p.His1009Tyr,ENST00000518281,;TNKS,missense_variant,p.His1246Tyr,ENST00000310430,;TNKS,upstream_gene_variant,,ENST00000517770,;	T	ENSG00000173273	ENST00000310430	Transcript	missense_variant	3762	3736	1246	H/Y	Cac/Tac	.	.	.	1	TNKS	HGNC	11941	protein_coding	YES	CCDS5974.1	ENSP00000311579	TNKS1_HUMAN	Q59FX0_HUMAN,E7EQ52_HUMAN	UPI000013F00D	.	tolerated(0.25)	benign(0.362)	25/27	.	PROSITE_profiles:PS51059,hmmpanther:PTHR24180:SF3,hmmpanther:PTHR24180,Pfam_domain:PF00644,Gene3D:3.90.228.10,Superfamily_domains:SSF56399	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGTCACAGG	.	5	BLCA
GDF6	0	.	GRCh37	8	97172877	97172877	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.44G>C	p.Ser15Thr	p.S15T	ENST00000287020	1/2	81	33	48	74	74	0	GDF6,missense_variant,p.Ser15Thr,ENST00000287020,;	G	ENSG00000156466	ENST00000287020	Transcript	missense_variant	144	44	15	S/T	aGt/aCt	.	.	.	-1	GDF6	HGNC	4221	protein_coding	YES	CCDS34926.1	ENSP00000287020	GDF6_HUMAN	M1L5L6_HUMAN,M1L0V3_HUMAN	UPI0000047253	.	tolerated(0.51)	benign(0.002)	1/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR11848:SF129,hmmpanther:PTHR11848	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAACTGATG	.	5	BLCA
LAPTM4B	0	.	GRCh37	8	98787980	98787980	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16C>T	p.Arg6Trp	p.R6W	ENST00000445593	1/7	14	3	10	17	17	0	LAPTM4B,missense_variant,p.Arg6Trp,ENST00000445593,;LAPTM4B,upstream_gene_variant,,ENST00000521545,;LAPTM4B,upstream_gene_variant,,ENST00000517924,;RNU7-177P,downstream_gene_variant,,ENST00000517101,;Y_RNA,downstream_gene_variant,,ENST00000365529,;	T	ENSG00000104341	ENST00000445593	Transcript	missense_variant	696	16	6	R/W	Cgg/Tgg	.	.	.	1	LAPTM4B	HGNC	13646	protein_coding	YES	CCDS6275.1	ENSP00000402301	LAP4B_HUMAN	Q86SJ0_HUMAN	UPI000018F5E2	.	deleterious_low_confidence(0)	benign(0)	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTCGGGTC	.	5	BLCA
OSR2	0	.	GRCh37	8	99963021	99963021	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.756+38C>T	.	.	ENST00000297565	.	9	6	3	8	8	0	OSR2,missense_variant,p.Ser265Leu,ENST00000523368,;OSR2,intron_variant,,ENST00000297565,;OSR2,intron_variant,,ENST00000457907,;OSR2,intron_variant,,ENST00000522510,;OSR2,intron_variant,,ENST00000435298,;OSR2,downstream_gene_variant,,ENST00000520951,;OSR2,downstream_gene_variant,,ENST00000518199,;OSR2,downstream_gene_variant,,ENST00000520791,;OSR2,downstream_gene_variant,,ENST00000520722,;OSR2,downstream_gene_variant,,ENST00000521044,;	T	ENSG00000164920	ENST00000297565	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	OSR2	HGNC	15830	protein_coding	YES	CCDS47901.1	ENSP00000297565	OSR2_HUMAN	E5RH47_HUMAN	UPI00001AEC4D	.	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGTTCGTGTT	.	2	BLCA
OSR2	0	.	GRCh37	8	99963820	99963820	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.830C>G	p.Thr277Ser	p.T277S	ENST00000297565	4/4	22	19	3	25	25	0	OSR2,missense_variant,p.Thr277Ser,ENST00000297565,;OSR2,missense_variant,p.Thr398Ser,ENST00000457907,;OSR2,missense_variant,p.Thr277Ser,ENST00000522510,;OSR2,intron_variant,,ENST00000435298,;OSR2,downstream_gene_variant,,ENST00000520951,;OSR2,downstream_gene_variant,,ENST00000518199,;OSR2,downstream_gene_variant,,ENST00000523368,;OSR2,downstream_gene_variant,,ENST00000520722,;OSR2,downstream_gene_variant,,ENST00000521044,;	G	ENSG00000164920	ENST00000297565	Transcript	missense_variant	1326	830	277	T/S	aCc/aGc	.	.	.	1	OSR2	HGNC	15830	protein_coding	YES	CCDS47901.1	ENSP00000297565	OSR2_HUMAN	E5RH47_HUMAN	UPI00001AEC4D	.	tolerated(0.08)	possibly_damaging(0.549)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR14196:SF4,hmmpanther:PTHR14196,PROSITE_patterns:PS00028,Pfam_domain:PF00096,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCACCCATA	.	2	BLCA
FOXE1	0	.	GRCh37	9	100616545	100616545	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.349G>A	p.Glu117Lys	p.E117K	ENST00000375123	1/1	42	27	15	69	69	0	FOXE1,missense_variant,p.Glu117Lys,ENST00000375123,;	A	ENSG00000178919	ENST00000375123	Transcript	missense_variant	1010	349	117	E/K	Gag/Aag	COSM123220	.	.	1	FOXE1	HGNC	3806	protein_coding	YES	CCDS35078.1	ENSP00000364265	FOXE1_HUMAN	.	UPI0000167B2F	.	deleterious(0)	probably_damaging(0.955)	1/1	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF156,Pfam_domain:PF00250,Gene3D:1.10.10.10,SMART_domains:SM00339,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCGCGAGGCC	.	5	BLCA
TBC1D2	0	.	GRCh37	9	100965602	100965602	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2239G>A	p.Asp747Asn	p.D747N	ENST00000375066	10/13	85	54	30	118	118	0	TBC1D2,missense_variant,p.Asp747Asn,ENST00000375064,;TBC1D2,missense_variant,p.Asp747Asn,ENST00000375066,;TBC1D2,missense_variant,p.Asp529Asn,ENST00000342112,;TBC1D2,missense_variant,p.Asp287Asn,ENST00000375063,;	T	ENSG00000095383	ENST00000375066	Transcript	missense_variant	2331	2239	747	D/N	Gat/Aat	.	.	.	-1	TBC1D2	HGNC	18026	protein_coding	YES	CCDS35080.1	ENSP00000364207	TBD2A_HUMAN	.	UPI000013C673	.	deleterious(0.03)	possibly_damaging(0.7)	10/13	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957:SF249,hmmpanther:PTHR22957,Pfam_domain:PF00566,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAATCAGCGG	.	5	BLCA
MSANTD3	0	.	GRCh37	9	103212932	103212932	+	Missense_Mutation	SNP	C	C	T	rs762011399	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.512C>T	p.Ser171Leu	p.S171L	ENST00000395067	3/3	62	42	19	85	85	0	MSANTD3,missense_variant,p.Ser171Leu,ENST00000374886,;MSANTD3,missense_variant,p.Ser171Leu,ENST00000395067,;MSANTD3,3_prime_UTR_variant,,ENST00000374885,;TMEFF1,intron_variant,,ENST00000334943,;MSANTD3-TMEFF1,intron_variant,,ENST00000502978,;MSANTD3,non_coding_transcript_exon_variant,,ENST00000489377,;	T	ENSG00000066697	ENST00000395067	Transcript	missense_variant	783	512	171	S/L	tCg/tTg	rs762011399	.	.	1	MSANTD3	HGNC	23370	protein_coding	YES	CCDS6749.1	ENSP00000378506	MSD3_HUMAN	.	UPI000006CCC7	.	deleterious_low_confidence(0)	benign(0.013)	3/3	.	hmmpanther:PTHR21632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCGTGTT	.	5	BLCA
GRIN3A	0	.	GRCh37	9	104335660	104335660	+	Silent	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3144C>G	p.%3D	p.L1048L	ENST00000361820	9/9	62	45	17	94	94	0	GRIN3A,synonymous_variant,p.%3D,ENST00000361820,;	C	ENSG00000198785	ENST00000361820	Transcript	synonymous_variant	3745	3144	1048	L	ctC/ctG	.	.	.	-1	GRIN3A	HGNC	16767	protein_coding	YES	CCDS6758.1	ENSP00000355155	NMD3A_HUMAN	.	UPI0000367661	.	.	.	9/9	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF163,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGAGGGAGGGG	.	4	BLCA
GRIN3A	0	.	GRCh37	9	104341568	104341568	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2841G>A	p.%3D	p.L947L	ENST00000361820	7/9	41	25	16	58	58	0	GRIN3A,synonymous_variant,p.%3D,ENST00000361820,;	T	ENSG00000198785	ENST00000361820	Transcript	synonymous_variant	3442	2841	947	L	ttG/ttA	.	.	.	-1	GRIN3A	HGNC	16767	protein_coding	YES	CCDS6758.1	ENSP00000355155	NMD3A_HUMAN	.	UPI0000367661	.	.	.	7/9	.	Prints_domain:PR00177,hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF163,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGTCAAAAT	.	5	BLCA
DMRT2	0	.	GRCh37	9	1057043	1057043	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1456G>A	p.Glu486Lys	p.E486K	ENST00000382251	5/5	50	33	16	68	68	0	DMRT2,missense_variant,p.Glu486Lys,ENST00000302441,;DMRT2,missense_variant,p.Glu486Lys,ENST00000382251,;DMRT2,missense_variant,p.Glu486Lys,ENST00000358146,;DMRT2,3_prime_UTR_variant,,ENST00000259622,;DMRT2,3_prime_UTR_variant,,ENST00000382255,;DMRT2,downstream_gene_variant,,ENST00000412350,;	A	ENSG00000173253	ENST00000382251	Transcript	missense_variant	1785	1456	486	E/K	Gag/Aag	.	.	.	1	DMRT2	HGNC	2935	protein_coding	YES	CCDS6444.1	ENSP00000371686	DMRT2_HUMAN	.	UPI000013D066	.	deleterious_low_confidence(0)	possibly_damaging(0.524)	5/5	.	hmmpanther:PTHR12322:SF59,hmmpanther:PTHR12322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTGAGTTG	.	5	BLCA
ZNF462	0	.	GRCh37	9	109690814	109690814	+	Missense_Mutation	SNP	A	A	G	rs201238481	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4621A>G	p.Ile1541Val	p.I1541V	ENST00000277225	3/13	37	27	10	31	31	0	ZNF462,missense_variant,p.Ile1541Val,ENST00000277225,;ZNF462,missense_variant,p.Ile1541Val,ENST00000457913,;ZNF462,missense_variant,p.Ile386Val,ENST00000441147,;ZNF462,missense_variant,p.Ile424Val,ENST00000374686,;ZNF462,intron_variant,,ENST00000472574,;ZNF462,upstream_gene_variant,,ENST00000542028,;RP11-508N12.4,downstream_gene_variant,,ENST00000451160,;ZNF462,intron_variant,,ENST00000480607,;ZNF462,upstream_gene_variant,,ENST00000497489,;ZNF462,upstream_gene_variant,,ENST00000479166,;ZNF462,upstream_gene_variant,,ENST00000469433,;ZNF462,upstream_gene_variant,,ENST00000471032,;	G	ENSG00000148143	ENST00000277225	Transcript	missense_variant	4910	4621	1541	I/V	Atc/Gtc	rs201238481	.	.	1	ZNF462	HGNC	21684	protein_coding	YES	CCDS35096.1	ENSP00000277225	ZN462_HUMAN	U3KQ68_HUMAN,F5H0Z0_HUMAN	UPI0000470106	.	.	benign(0.008)	3/13	.	hmmpanther:PTHR24385:SF52,hmmpanther:PTHR24385	G:0.0002	G:0	G:0.0014	.	G:0	G:0	G:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCCATCAAG	byCluster|by1000G	5	BLCA
KIAA0368	0	.	GRCh37	9	114195568	114195568	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1327G>A	p.Asp443Asn	p.D443N	ENST00000259335	9/51	54	36	18	68	68	0	KIAA0368,missense_variant,p.Asp265Asn,ENST00000338205,;KIAA0368,missense_variant,p.Asp271Asn,ENST00000602447,;KIAA0368,missense_variant,p.Asp443Asn,ENST00000259335,;	T	ENSG00000136813	ENST00000259335	Transcript	missense_variant	1327	1327	443	D/N	Gat/Aat	.	.	.	-1	KIAA0368	HGNC	29020	protein_coding	YES	CCDS48006.1	ENSP00000259335	.	J3KN16_HUMAN	UPI0000DD7F7A	.	deleterious(0)	probably_damaging(1)	9/51	.	hmmpanther:PTHR23346,hmmpanther:PTHR23346:SF19,Gene3D:1.25.10.10,Pfam_domain:PF13001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTATCACTAG	.	5	BLCA
UGCG	0	.	GRCh37	9	114685159	114685159	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271G>A	p.Asp91Asn	p.D91N	ENST00000374279	3/9	47	37	10	67	67	0	UGCG,missense_variant,p.Asp91Asn,ENST00000374279,;UGCG,non_coding_transcript_exon_variant,,ENST00000495085,;UGCG,non_coding_transcript_exon_variant,,ENST00000490110,;	A	ENSG00000148154	ENST00000374279	Transcript	missense_variant	721	271	91	D/N	Gat/Aat	.	.	.	1	UGCG	HGNC	12524	protein_coding	YES	CCDS6782.1	ENSP00000363397	CEGT_HUMAN	.	UPI0000052740	.	tolerated(0.55)	benign(0.028)	3/9	.	hmmpanther:PTHR12726,Gene3D:3.90.550.10,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATGATGAT	.	5	BLCA
PTBP3	0	.	GRCh37	9	114997171	114997171	+	Missense_Mutation	SNP	G	G	C	rs751666583	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.911C>G	p.Pro304Arg	p.P304R	ENST00000458258	8/14	27	18	9	40	40	0	PTBP3,missense_variant,p.Pro270Arg,ENST00000374257,;PTBP3,missense_variant,p.Pro203Arg,ENST00000343327,;PTBP3,missense_variant,p.Pro301Arg,ENST00000334318,;PTBP3,missense_variant,p.Pro298Arg,ENST00000374255,;PTBP3,missense_variant,p.Pro304Arg,ENST00000458258,;	C	ENSG00000119314	ENST00000458258	Transcript	missense_variant	911	911	304	P/R	cCg/cGg	rs751666583,COSM323106	.	.	-1	PTBP3	HGNC	10253	protein_coding	YES	CCDS59141.1	ENSP00000414921	PTBP3_HUMAN	.	UPI000000DA96	.	deleterious(0.03)	benign(0.421)	8/14	.	hmmpanther:PTHR11546:SF21,hmmpanther:PTHR11546,TIGRFAM_domain:TIGR01649	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCCGGTGCA	.	5	BLCA
WDR31	0	.	GRCh37	9	116080796	116080796	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.902C>T	p.Ser301Leu	p.S301L	ENST00000374193	10/11	63	43	20	64	64	0	WDR31,missense_variant,p.Ser176Leu,ENST00000374195,;WDR31,missense_variant,p.Ser300Leu,ENST00000341761,;WDR31,missense_variant,p.Ser301Leu,ENST00000374193,;WDR31,downstream_gene_variant,,ENST00000465979,;WDR31,non_coding_transcript_exon_variant,,ENST00000461942,;WDR31,3_prime_UTR_variant,,ENST00000465205,;	A	ENSG00000148225	ENST00000374193	Transcript	missense_variant	1149	902	301	S/L	tCa/tTa	.	.	.	-1	WDR31	HGNC	21421	protein_coding	YES	CCDS35110.1	ENSP00000363308	WDR31_HUMAN	G5E996_HUMAN	UPI000006D080	.	deleterious(0)	possibly_damaging(0.745)	10/11	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR19869,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATGTGATGAG	.	5	BLCA
AKNA	0	.	GRCh37	9	117143360	117143360	+	Missense_Mutation	SNP	G	G	A	rs372366101	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.254C>T	p.Ser85Leu	p.S85L	ENST00000307564	2/22	11	8	3	14	14	0	AKNA,missense_variant,p.Ser85Leu,ENST00000307564,;AKNA,missense_variant,p.Ser85Leu,ENST00000312033,;AKNA,missense_variant,p.Ser85Leu,ENST00000374088,;AKNA,upstream_gene_variant,,ENST00000223791,;AKNA,upstream_gene_variant,,ENST00000374075,;	A	ENSG00000106948	ENST00000307564	Transcript	missense_variant	416	254	85	S/L	tCa/tTa	rs372366101	.	.	-1	AKNA	HGNC	24108	protein_coding	YES	CCDS6805.1	ENSP00000303769	AKNA_HUMAN	.	UPI000021168C	.	tolerated(0.1)	benign(0.272)	2/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21510:SF12,hmmpanther:PTHR21510	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTGACTCG	.	2	BLCA
DFNB31	0	.	GRCh37	9	117186785	117186785	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1245G>A	p.%3D	p.L415L	ENST00000362057	6/12	22	11	11	17	17	0	DFNB31,synonymous_variant,p.%3D,ENST00000362057,;DFNB31,synonymous_variant,p.%3D,ENST00000265134,;DFNB31,synonymous_variant,p.%3D,ENST00000374059,;	T	ENSG00000095397	ENST00000362057	Transcript	synonymous_variant	1414	1245	415	L	ctG/ctA	COSM751928	.	.	-1	DFNB31	HGNC	16361	protein_coding	YES	CCDS6806.1	ENSP00000354623	WHRN_HUMAN	.	UPI00001C1EA6	.	.	.	6/12	.	hmmpanther:PTHR23116:SF31,hmmpanther:PTHR23116	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAGGGT	.	5	BLCA
DFNB31	0	.	GRCh37	9	117266652	117266652	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430C>T	p.Arg144Trp	p.R144W	ENST00000362057	1/12	35	31	4	52	52	0	DFNB31,missense_variant,p.Arg144Trp,ENST00000362057,;DFNB31,missense_variant,p.Arg144Trp,ENST00000374057,;DFNB31,upstream_gene_variant,,ENST00000265134,;DFNB31,upstream_gene_variant,,ENST00000480518,;	A	ENSG00000095397	ENST00000362057	Transcript	missense_variant	599	430	144	R/W	Cgg/Tgg	.	.	.	-1	DFNB31	HGNC	16361	protein_coding	YES	CCDS6806.1	ENSP00000354623	WHRN_HUMAN	.	UPI00001C1EA6	.	deleterious(0)	probably_damaging(0.978)	1/12	.	PROSITE_profiles:PS50106,hmmpanther:PTHR23116:SF31,hmmpanther:PTHR23116,Gene3D:2.30.42.10,Pfam_domain:PF00595,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGCCGCAAAC	.	4	BLCA
FOXD4	0	.	GRCh37	9	118147	118147	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-28C>T	.	.	ENST00000382500	1/1	61	36	24	81	81	0	FOXD4,5_prime_UTR_variant,,ENST00000382500,;CBWD1,downstream_gene_variant,,ENST00000382447,;CBWD1,downstream_gene_variant,,ENST00000314367,;CBWD1,downstream_gene_variant,,ENST00000377400,;CBWD1,downstream_gene_variant,,ENST00000356521,;RP11-143M1.4,upstream_gene_variant,,ENST00000416242,;CBWD1,downstream_gene_variant,,ENST00000475411,;CBWD1,downstream_gene_variant,,ENST00000465014,;CBWD1,downstream_gene_variant,,ENST00000475990,;CBWD1,downstream_gene_variant,,ENST00000487575,;CBWD1,downstream_gene_variant,,ENST00000464198,;CBWD1,downstream_gene_variant,,ENST00000462513,;CBWD1,downstream_gene_variant,,ENST00000495302,;	A	ENSG00000170122	ENST00000382500	Transcript	5_prime_UTR_variant	271	.	.	.	.	.	.	.	-1	FOXD4	HGNC	3805	protein_coding	YES	CCDS34975.1	ENSP00000371940	FOXD4_HUMAN	.	UPI00001AFF18	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CAGGGGATGTG	.	4	BLCA
ZBTB6	0	.	GRCh37	9	125673142	125673142	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1210G>C	p.Val404Leu	p.V404L	ENST00000373659	2/2	61	43	18	102	102	0	ZBTB6,missense_variant,p.Val404Leu,ENST00000373659,;ZBTB26,downstream_gene_variant,,ENST00000373656,;	G	ENSG00000186130	ENST00000373659	Transcript	missense_variant	1299	1210	404	V/L	Gtc/Ctc	.	.	.	-1	ZBTB6	HGNC	16764	protein_coding	YES	CCDS6846.1	ENSP00000362763	ZBTB6_HUMAN	.	UPI000006D7C8	.	tolerated(0.56)	benign(0.01)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF91,PROSITE_patterns:PS00028,Pfam_domain:PF00096,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGACAGAGG	.	5	BLCA
NR6A1	0	.	GRCh37	9	127495624	127495624	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105C>T	p.%3D	p.F35F	ENST00000487099	2/10	91	61	30	96	96	0	NR6A1,synonymous_variant,p.%3D,ENST00000416460,;NR6A1,synonymous_variant,p.%3D,ENST00000344523,;NR6A1,synonymous_variant,p.%3D,ENST00000373584,;NR6A1,synonymous_variant,p.%3D,ENST00000487099,;	A	ENSG00000148200	ENST00000487099	Transcript	synonymous_variant	263	105	35	F	ttC/ttT	.	.	.	-1	NR6A1	HGNC	7985	protein_coding	YES	CCDS35137.1	ENSP00000420267	NR6A1_HUMAN	F1D8S0_HUMAN	UPI0000130484	.	.	.	2/10	.	hmmpanther:PTHR24080	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACAGAAACC	.	5	BLCA
HSPA5	0	.	GRCh37	9	128003012	128003012	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297C>T	p.%3D	p.I99I	ENST00000324460	2/8	79	58	21	127	127	0	HSPA5,synonymous_variant,p.%3D,ENST00000324460,;RP11-65N13.8,upstream_gene_variant,,ENST00000468244,;	A	ENSG00000044574	ENST00000324460	Transcript	synonymous_variant	501	297	99	I	atC/atT	.	.	.	-1	HSPA5	HGNC	5238	protein_coding	YES	CCDS6863.1	ENSP00000324173	GRP78_HUMAN	.	UPI0000001061	.	.	.	2/8	.	Superfamily_domains:SSF53067,Gene3D:3.30.30.30,Pfam_domain:PF00012,hmmpanther:PTHR19375,hmmpanther:PTHR19375:SF157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGCCGATGAG	.	5	BLCA
MAPKAP1	0	.	GRCh37	9	128206794	128206794	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1429G>A	p.Glu477Lys	p.E477K	ENST00000265960	11/12	66	51	15	96	96	0	MAPKAP1,missense_variant,p.Glu285Lys,ENST00000373503,;MAPKAP1,missense_variant,p.Glu477Lys,ENST00000373498,;MAPKAP1,missense_variant,p.Glu249Lys,ENST00000420643,;MAPKAP1,missense_variant,p.Glu285Lys,ENST00000394063,;MAPKAP1,missense_variant,p.Glu49Lys,ENST00000444226,;MAPKAP1,missense_variant,p.Glu441Lys,ENST00000350766,;MAPKAP1,missense_variant,p.Glu477Lys,ENST00000265960,;MAPKAP1,missense_variant,p.Glu430Lys,ENST00000373511,;MAPKAP1,missense_variant,p.Glu190Lys,ENST00000373497,;MAPKAP1,non_coding_transcript_exon_variant,,ENST00000483937,;MAPKAP1,non_coding_transcript_exon_variant,,ENST00000496658,;MAPKAP1,non_coding_transcript_exon_variant,,ENST00000496063,;MAPKAP1,3_prime_UTR_variant,,ENST00000497932,;	T	ENSG00000119487	ENST00000265960	Transcript	missense_variant	1762	1429	477	E/K	Gaa/Aaa	.	.	.	-1	MAPKAP1	HGNC	18752	protein_coding	YES	CCDS35140.1	ENSP00000265960	SIN1_HUMAN	B1AMB1_HUMAN,B1AMA6_HUMAN	UPI00000372F6	.	deleterious(0)	probably_damaging(0.928)	11/12	.	Pfam_domain:PF05422,hmmpanther:PTHR13335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATTTCATTGA	.	5	BLCA
GARNL3	0	.	GRCh37	9	130080367	130080367	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.464A>G	p.Tyr155Cys	p.Y155C	ENST00000373387	5/28	76	57	18	94	94	0	GARNL3,missense_variant,p.Tyr133Cys,ENST00000425970,;GARNL3,missense_variant,p.Tyr178Cys,ENST00000439286,;GARNL3,missense_variant,p.Tyr155Cys,ENST00000314904,;GARNL3,missense_variant,p.Tyr133Cys,ENST00000435213,;GARNL3,missense_variant,p.Tyr155Cys,ENST00000373387,;GARNL3,downstream_gene_variant,,ENST00000444677,;GARNL3,non_coding_transcript_exon_variant,,ENST00000464616,;GARNL3,non_coding_transcript_exon_variant,,ENST00000498801,;GARNL3,non_coding_transcript_exon_variant,,ENST00000478702,;GARNL3,missense_variant,p.Tyr137Cys,ENST00000373386,;GARNL3,3_prime_UTR_variant,,ENST00000429629,;GARNL3,3_prime_UTR_variant,,ENST00000441134,;GARNL3,non_coding_transcript_exon_variant,,ENST00000495172,;GARNL3,downstream_gene_variant,,ENST00000453030,;	G	ENSG00000136895	ENST00000373387	Transcript	missense_variant	816	464	155	Y/C	tAc/tGc	.	.	.	1	GARNL3	HGNC	25425	protein_coding	YES	CCDS6869.2	ENSP00000362485	GARL3_HUMAN	B4DH81_HUMAN	UPI0000EE56F2	.	deleterious(0.01)	probably_damaging(0.99)	5/28	.	Superfamily_domains:0043732,hmmpanther:PTHR15711	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTACAGTC	.	5	BLCA
GARNL3	0	.	GRCh37	9	130127640	130127640	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2156A>G	p.Tyr719Cys	p.Y719C	ENST00000373387	22/28	125	88	37	184	184	0	GARNL3,missense_variant,p.Tyr719Cys,ENST00000314904,;GARNL3,missense_variant,p.Tyr697Cys,ENST00000435213,;GARNL3,missense_variant,p.Tyr719Cys,ENST00000373387,;RP11-356B19.11,upstream_gene_variant,,ENST00000607259,;GARNL3,non_coding_transcript_exon_variant,,ENST00000496711,;GARNL3,non_coding_transcript_exon_variant,,ENST00000478696,;GARNL3,missense_variant,p.Tyr701Cys,ENST00000373386,;GARNL3,non_coding_transcript_exon_variant,,ENST00000481242,;	G	ENSG00000136895	ENST00000373387	Transcript	missense_variant	2508	2156	719	Y/C	tAc/tGc	.	.	.	1	GARNL3	HGNC	25425	protein_coding	YES	CCDS6869.2	ENSP00000362485	GARL3_HUMAN	B4DH81_HUMAN	UPI0000EE56F2	.	deleterious(0)	possibly_damaging(0.903)	22/28	.	SMART_domains:SM00036,Pfam_domain:PF00780,PROSITE_profiles:PS50219,hmmpanther:PTHR15711	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTACAACT	.	5	BLCA
ZNF79	0	.	GRCh37	9	130187053	130187053	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14G>A	.	.	ENST00000342483	1/5	17	8	9	27	27	0	ZNF79,5_prime_UTR_variant,,ENST00000342483,;ZNF79,5_prime_UTR_variant,,ENST00000543471,;	A	ENSG00000196152	ENST00000342483	Transcript	5_prime_UTR_variant	393	.	.	.	.	.	.	.	1	ZNF79	HGNC	13153	protein_coding	YES	CCDS6871.1	ENSP00000362446	ZNF79_HUMAN	F5H032_HUMAN	UPI0000367683	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGCGAGGCG	.	5	BLCA
RPL12	0	.	GRCh37	9	130213631	130213631	+	5'UTR	SNP	C	C	T	rs773421954	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-35G>A	.	.	ENST00000361436	1/7	33	24	9	39	39	0	RPL12,5_prime_UTR_variant,,ENST00000536368,;RPL12,5_prime_UTR_variant,,ENST00000361436,;LRSAM1,upstream_gene_variant,,ENST00000300417,;LRSAM1,upstream_gene_variant,,ENST00000323301,;LRSAM1,upstream_gene_variant,,ENST00000373322,;LRSAM1,upstream_gene_variant,,ENST00000373324,;SNORA65,upstream_gene_variant,,ENST00000364432,;RPL12,non_coding_transcript_exon_variant,,ENST00000497825,;RPL12,non_coding_transcript_exon_variant,,ENST00000497322,;LRSAM1,upstream_gene_variant,,ENST00000485704,;RPL12,upstream_gene_variant,,ENST00000483598,;LRSAM1,upstream_gene_variant,,ENST00000486587,;	T	ENSG00000197958	ENST00000361436	Transcript	5_prime_UTR_variant	54	.	.	.	.	rs773421954	.	.	-1	RPL12	HGNC	10302	protein_coding	YES	CCDS6872.1	ENSP00000354739	RL12_HUMAN	.	UPI0000133BA8	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGATTCGGGAC	.	2	BLCA
FAM129B	0	.	GRCh37	9	130341223	130341223	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7C>T	.	.	ENST00000373314	1/14	122	90	31	139	139	0	FAM129B,5_prime_UTR_variant,,ENST00000373314,;	A	ENSG00000136830	ENST00000373314	Transcript	5_prime_UTR_variant	46	.	.	.	.	.	.	.	-1	FAM129B	HGNC	25282	protein_coding	.	CCDS35144.1	ENSP00000362411	NIBL1_HUMAN	Q9H6L6_HUMAN	UPI0000130070	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCCAGAGTGA	.	3	BLCA
CDK9	0	.	GRCh37	9	130550495	130550495	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435C>T	p.%3D	p.I145I	ENST00000373264	5/7	27	17	10	66	66	0	CDK9,synonymous_variant,p.%3D,ENST00000373265,;CDK9,synonymous_variant,p.%3D,ENST00000373264,;CDK9,downstream_gene_variant,,ENST00000421939,;MIR3960,downstream_gene_variant,,ENST00000583311,;CDK9,splice_region_variant,,ENST00000480353,;CDK9,splice_region_variant,,ENST00000491521,;CDK9,upstream_gene_variant,,ENST00000498339,;	T	ENSG00000136807	ENST00000373264	Transcript	synonymous_variant	535	435	145	I	atC/atT	.	.	.	1	CDK9	HGNC	1780	protein_coding	YES	CCDS6879.1	ENSP00000362361	CDK9_HUMAN	.	UPI000013D041	.	.	.	5/7	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24056,hmmpanther:PTHR24056:SF158,PROSITE_patterns:PS00108,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCCTGCA	.	5	BLCA
CERCAM	0	.	GRCh37	9	131186439	131186439	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.449T>C	p.Leu150Pro	p.L150P	ENST00000372838	4/13	83	56	27	108	108	0	CERCAM,missense_variant,p.Leu72Pro,ENST00000372842,;CERCAM,missense_variant,p.Leu72Pro,ENST00000447915,;CERCAM,missense_variant,p.Leu150Pro,ENST00000372838,;CERCAM,missense_variant,p.Leu72Pro,ENST00000420512,;CERCAM,missense_variant,p.Leu72Pro,ENST00000411852,;CERCAM,downstream_gene_variant,,ENST00000420034,;CERCAM,upstream_gene_variant,,ENST00000487001,;CERCAM,upstream_gene_variant,,ENST00000483893,;CERCAM,downstream_gene_variant,,ENST00000493788,;CERCAM,non_coding_transcript_exon_variant,,ENST00000463535,;CERCAM,non_coding_transcript_exon_variant,,ENST00000483737,;	C	ENSG00000167123	ENST00000372838	Transcript	missense_variant	847	449	150	L/P	cTg/cCg	.	.	.	1	CERCAM	HGNC	23723	protein_coding	YES	CCDS6901.2	ENSP00000361929	GT253_HUMAN	B7ZBT0_HUMAN,B7ZBS9_HUMAN,B7ZBS8_HUMAN	UPI000046FF85	.	deleterious(0)	probably_damaging(1)	4/13	.	Superfamily_domains:SSF53448,Pfam_domain:PF13704,hmmpanther:PTHR10730,hmmpanther:PTHR10730:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTCTGACCA	.	5	BLCA
SPTAN1	0	.	GRCh37	9	131394539	131394539	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6896G>A	p.Trp2299Ter	p.W2299*	ENST00000372739	53/57	32	21	11	27	27	0	SPTAN1,stop_gained,p.Trp2299Ter,ENST00000358161,;SPTAN1,stop_gained,p.Trp2299Ter,ENST00000372739,;SPTAN1,stop_gained,p.Trp2294Ter,ENST00000372731,;WDR34,downstream_gene_variant,,ENST00000372715,;WDR34,downstream_gene_variant,,ENST00000451652,;WDR34,downstream_gene_variant,,ENST00000419989,;WDR34,downstream_gene_variant,,ENST00000473486,;WDR34,downstream_gene_variant,,ENST00000480613,;WDR34,downstream_gene_variant,,ENST00000483181,;	A	ENSG00000197694	ENST00000372739	Transcript	stop_gained	7006	6896	2299	W/*	tGg/tAg	.	.	.	1	SPTAN1	HGNC	11273	protein_coding	YES	CCDS48036.1	ENSP00000361824	SPTN1_HUMAN	.	UPI000045894C	.	.	.	53/57	.	hmmpanther:PTHR11915:SF250,hmmpanther:PTHR11915,Gene3D:1.20.58.60,Pfam_domain:PF00435,SMART_domains:SM00150,Superfamily_domains:SSF46966	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGTGGGACC	.	5	BLCA
WDR34	0	.	GRCh37	9	131396130	131396130	+	Missense_Mutation	SNP	C	C	T	rs776327242	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1504G>A	p.Asp502Asn	p.D502N	ENST00000372715	9/9	55	42	13	65	65	0	WDR34,missense_variant,p.Asp502Asn,ENST00000372715,;WDR34,downstream_gene_variant,,ENST00000451652,;WDR34,downstream_gene_variant,,ENST00000419989,;SPTAN1,downstream_gene_variant,,ENST00000358161,;SPTAN1,downstream_gene_variant,,ENST00000372739,;SPTAN1,downstream_gene_variant,,ENST00000372731,;WDR34,downstream_gene_variant,,ENST00000473486,;WDR34,downstream_gene_variant,,ENST00000480613,;WDR34,downstream_gene_variant,,ENST00000483181,;	T	ENSG00000119333	ENST00000372715	Transcript	missense_variant	1565	1504	502	D/N	Gat/Aat	rs776327242	.	.	-1	WDR34	HGNC	28296	protein_coding	YES	CCDS6906.2	ENSP00000361800	WDR34_HUMAN	.	UPI000045894D	.	tolerated(0.14)	possibly_damaging(0.828)	9/9	.	PROSITE_profiles:PS50294,hmmpanther:PTHR12442,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCATCGCCCG	byFrequency	5	BLCA
RP11-101E3.5	0	.	GRCh37	9	131711513	131711513	+	Silent	SNP	G	G	A	rs112594279	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140G>A	p.%3D	p.L47L	ENST00000482796	2/5	31	25	6	38	38	0	RP11-101E3.5,synonymous_variant,p.%3D,ENST00000482796,;NUP188,synonymous_variant,p.%3D,ENST00000372577,;DOLK,upstream_gene_variant,,ENST00000372586,;NUP188,non_coding_transcript_exon_variant,,ENST00000550219,;NUP188,non_coding_transcript_exon_variant,,ENST00000491990,;NUP188,non_coding_transcript_exon_variant,,ENST00000464729,;	A	ENSG00000251184	ENST00000482796	Transcript	synonymous_variant	140	141	47	L	ctG/ctA	rs112594279,COSM3327994	.	.	1	RP11-101E3.5	Clone_based_vega_gene	.	protein_coding	YES	.	ENSP00000417556	.	.	UPI0000E5AFCB	.	.	.	2/5	.	hmmpanther:PTHR31431:SF1,hmmpanther:PTHR31431	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCTGAGAGA	byCluster	5	BLCA
NUP188	0	.	GRCh37	9	131735514	131735514	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189C>T	p.%3D	p.L397L	ENST00000372577	12/44	19	13	5	32	32	0	NUP188,synonymous_variant,p.%3D,ENST00000372577,;	T	ENSG00000095319	ENST00000372577	Transcript	synonymous_variant	1210	1189	397	L	Ctg/Ttg	.	.	.	1	NUP188	HGNC	17859	protein_coding	YES	CCDS35156.1	ENSP00000361658	NU188_HUMAN	.	UPI000041A60F	.	.	.	12/44	.	hmmpanther:PTHR31431,hmmpanther:PTHR31431:SF1,Pfam_domain:PF10487,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACCCTGGGC	.	5	BLCA
CRAT	0	.	GRCh37	9	131860584	131860584	+	Silent	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1272G>T	p.%3D	p.S424S	ENST00000318080	10/14	63	39	24	85	85	0	CRAT,synonymous_variant,p.%3D,ENST00000455396,;CRAT,synonymous_variant,p.%3D,ENST00000318080,;RP11-247A12.1,intron_variant,,ENST00000434250,;CRAT,downstream_gene_variant,,ENST00000464290,;CRAT,upstream_gene_variant,,ENST00000467343,;CRAT,3_prime_UTR_variant,,ENST00000458362,;CRAT,downstream_gene_variant,,ENST00000415948,;	A	ENSG00000095321	ENST00000318080	Transcript	synonymous_variant	1567	1272	424	S	tcG/tcT	.	.	.	-1	CRAT	HGNC	2342	protein_coding	YES	CCDS6919.1	ENSP00000315013	CACP_HUMAN	.	UPI000014021A	.	.	.	10/14	.	hmmpanther:PTHR22589,hmmpanther:PTHR22589:SF50,Pfam_domain:PF00755,Superfamily_domains:SSF52777	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTCCGACTT	.	5	BLCA
CRAT	0	.	GRCh37	9	131865330	131865330	+	Silent	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.426C>T	p.%3D	p.L142L	ENST00000318080	4/14	92	62	29	117	117	0	CRAT,synonymous_variant,p.%3D,ENST00000318080,;CRAT,upstream_gene_variant,,ENST00000455396,;CRAT,downstream_gene_variant,,ENST00000455830,;CRAT,downstream_gene_variant,,ENST00000393384,;AL158151.2,downstream_gene_variant,,ENST00000408594,;RP11-247A12.1,downstream_gene_variant,,ENST00000434250,;CRAT,non_coding_transcript_exon_variant,,ENST00000464290,;CRAT,3_prime_UTR_variant,,ENST00000415948,;CRAT,3_prime_UTR_variant,,ENST00000458362,;CRAT,downstream_gene_variant,,ENST00000441796,;	A	ENSG00000095321	ENST00000318080	Transcript	synonymous_variant	721	426	142	L	ctC/ctT	COSM1105821	.	.	-1	CRAT	HGNC	2342	protein_coding	YES	CCDS6919.1	ENSP00000315013	CACP_HUMAN	.	UPI000014021A	.	.	.	4/14	.	hmmpanther:PTHR22589,hmmpanther:PTHR22589:SF50,Pfam_domain:PF00755,Superfamily_domains:SSF52777	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAATGAGTTT	.	5	BLCA
USP20	0	.	GRCh37	9	132630529	132630529	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.936G>A	p.%3D	p.L312L	ENST00000315480	11/25	37	25	11	57	57	0	USP20,synonymous_variant,p.%3D,ENST00000372429,;USP20,synonymous_variant,p.%3D,ENST00000358355,;USP20,synonymous_variant,p.%3D,ENST00000315480,;USP20,upstream_gene_variant,,ENST00000474895,;USP20,upstream_gene_variant,,ENST00000491731,;	A	ENSG00000136878	ENST00000315480	Transcript	synonymous_variant	1094	936	312	L	ctG/ctA	.	.	.	1	USP20	HGNC	12619	protein_coding	YES	CCDS43892.1	ENSP00000313811	UBP20_HUMAN	Q9UQN9_HUMAN	UPI000013D050	.	.	.	11/25	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF402,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGATCCC	.	5	BLCA
NTNG2	0	.	GRCh37	9	135042197	135042197	+	5'UTR	SNP	C	C	T	rs747723195	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-22C>T	.	.	ENST00000393229	2/8	60	41	19	98	98	0	NTNG2,5_prime_UTR_variant,,ENST00000393228,;NTNG2,5_prime_UTR_variant,,ENST00000372179,;NTNG2,5_prime_UTR_variant,,ENST00000360670,;NTNG2,5_prime_UTR_variant,,ENST00000393229,;	T	ENSG00000196358	ENST00000393229	Transcript	5_prime_UTR_variant	755	.	.	.	.	rs747723195	.	.	1	NTNG2	HGNC	14288	protein_coding	YES	CCDS6946.1	ENSP00000376921	NTNG2_HUMAN	.	UPI0000367698	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCGCGCCTC	byFrequency	5	BLCA
DDX31	0	.	GRCh37	9	135501078	135501078	+	Silent	SNP	A	A	G	rs770817452	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2001T>C	p.%3D	p.C667C	ENST00000372159	17/20	50	34	16	60	60	0	DDX31,synonymous_variant,p.%3D,ENST00000372159,;DDX31,synonymous_variant,p.%3D,ENST00000438527,;DDX31,intron_variant,,ENST00000372153,;	G	ENSG00000125485	ENST00000372159	Transcript	synonymous_variant	2153	2001	667	C	tgT/tgC	rs770817452	.	.	-1	DDX31	HGNC	16715	protein_coding	YES	CCDS6951.1	ENSP00000361232	DDX31_HUMAN	.	UPI00000736CA	.	.	.	17/20	.	hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF89	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAAAACAATC	byFrequency	5	BLCA
GTF3C4	0	.	GRCh37	9	135546261	135546261	+	Silent	SNP	C	C	T	rs375081797	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276C>T	p.%3D	p.I92I	ENST00000372146	1/5	11	5	6	20	20	0	GTF3C4,synonymous_variant,p.%3D,ENST00000372146,;GTF3C4,synonymous_variant,p.%3D,ENST00000483873,;DDX31,upstream_gene_variant,,ENST00000372159,;DDX31,upstream_gene_variant,,ENST00000310532,;DDX31,upstream_gene_variant,,ENST00000372153,;DDX31,upstream_gene_variant,,ENST00000544003,;DDX31,upstream_gene_variant,,ENST00000480876,;DDX31,upstream_gene_variant,,ENST00000482620,;	T	ENSG00000125484	ENST00000372146	Transcript	synonymous_variant	840	276	92	I	atC/atT	rs375081797	.	.	1	GTF3C4	HGNC	4667	protein_coding	YES	CCDS6953.1	ENSP00000361219	TF3C4_HUMAN	B3KNH2_HUMAN	UPI000013CBAB	.	.	.	1/5	.	Pfam_domain:PF12657,hmmpanther:PTHR15496,hmmpanther:PTHR15496:SF1	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCATCTGCGA	byFrequency|byCluster	2	BLCA
AK8	0	.	GRCh37	9	135702433	135702433	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565C>T	p.His189Tyr	p.H189Y	ENST00000298545	8/13	110	68	42	148	148	0	AK8,missense_variant,p.His189Tyr,ENST00000298545,;AK8,non_coding_transcript_exon_variant,,ENST00000477396,;AK8,non_coding_transcript_exon_variant,,ENST00000476719,;	A	ENSG00000165695	ENST00000298545	Transcript	missense_variant	1087	565	189	H/Y	Cac/Tac	COSM3655152,COSM3655153	.	.	-1	AK8	HGNC	26526	protein_coding	YES	CCDS6954.1	ENSP00000298545	KAD8_HUMAN	.	UPI0000071236	.	deleterious(0)	probably_damaging(1)	8/13	.	hmmpanther:PTHR23359:SF64,hmmpanther:PTHR23359,Gene3D:3.40.50.300,Pfam_domain:PF00406,Superfamily_domains:SSF57774	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGTGTGATAAA	.	4	BLCA
TSC1	0	.	GRCh37	9	135772671	135772671	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2875G>A	p.Glu959Lys	p.E959K	ENST00000298552	22/23	81	49	31	118	118	0	TSC1,missense_variant,p.Glu959Lys,ENST00000298552,;TSC1,missense_variant,p.Glu908Lys,ENST00000545250,;TSC1,missense_variant,p.Glu959Lys,ENST00000440111,;	T	ENSG00000165699	ENST00000298552	Transcript	missense_variant	3097	2875	959	E/K	Gaa/Aaa	COSM1272078	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	deleterious(0.01)	probably_damaging(0.995)	22/23	.	hmmpanther:PTHR15154	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCAAACA	.	5	BLCA
TSC1	0	.	GRCh37	9	135776186	135776186	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2541C>T	p.%3D	p.F847F	ENST00000298552	20/23	65	45	20	83	83	0	TSC1,synonymous_variant,p.%3D,ENST00000298552,;TSC1,synonymous_variant,p.%3D,ENST00000545250,;TSC1,synonymous_variant,p.%3D,ENST00000440111,;	A	ENSG00000165699	ENST00000298552	Transcript	synonymous_variant	2763	2541	847	F	ttC/ttT	.	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	.	.	20/23	.	hmmpanther:PTHR15154	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCAAGAACTC	.	5	BLCA
TSC1	0	.	GRCh37	9	135782704	135782704	+	Silent	SNP	C	C	T	rs770692313	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1317G>A	p.%3D	p.L439L	ENST00000298552	13/23	30	23	6	68	68	0	TSC1,synonymous_variant,p.%3D,ENST00000298552,;TSC1,synonymous_variant,p.%3D,ENST00000545250,;TSC1,synonymous_variant,p.%3D,ENST00000440111,;TSC1,downstream_gene_variant,,ENST00000403810,;TSC1,downstream_gene_variant,,ENST00000493467,;	T	ENSG00000165699	ENST00000298552	Transcript	synonymous_variant	1539	1317	439	L	ctG/ctA	rs770692313	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	.	.	13/23	.	hmmpanther:PTHR15154,Pfam_domain:PF04388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCAGAAG	.	5	BLCA
SARDH	0	.	GRCh37	9	136555548	136555548	+	Missense_Mutation	SNP	C	C	G	rs747163989	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2023G>C	p.Asp675His	p.D675H	ENST00000371872	16/21	41	29	11	62	62	0	SARDH,missense_variant,p.Asp675His,ENST00000439388,;SARDH,missense_variant,p.Asp675His,ENST00000371872,;SARDH,missense_variant,p.Asp507His,ENST00000422262,;SARDH,missense_variant,p.Asp103His,ENST00000371868,;SARDH,downstream_gene_variant,,ENST00000427237,;	G	ENSG00000123453	ENST00000371872	Transcript	missense_variant	2281	2023	675	D/H	Gac/Cac	rs747163989	.	.	-1	SARDH	HGNC	10536	protein_coding	YES	CCDS6978.1	ENSP00000360938	SARDH_HUMAN	Q5SYV1_HUMAN,B4DPI2_HUMAN	UPI000006F076	.	deleterious(0)	probably_damaging(0.996)	16/21	.	Pfam_domain:PF01571,Superfamily_domains:SSF103025	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGTCGATGA	.	5	BLCA
RXRA	0	.	GRCh37	9	137293515	137293515	+	Silent	SNP	G	G	A	rs778149927	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66G>A	p.%3D	p.P22P	ENST00000481739	2/10	83	52	30	110	110	0	RXRA,synonymous_variant,p.%3D,ENST00000481739,;RXRA,upstream_gene_variant,,ENST00000540193,;RXRA,non_coding_transcript_exon_variant,,ENST00000356384,;RXRA,non_coding_transcript_exon_variant,,ENST00000484822,;	A	ENSG00000186350	ENST00000481739	Transcript	synonymous_variant	118	66	22	P	ccG/ccA	rs778149927	.	.	1	RXRA	HGNC	10477	protein_coding	YES	CCDS35172.1	ENSP00000419692	RXRA_HUMAN	Q6P3U7_HUMAN,F1D8Q5_HUMAN,B3KY83_HUMAN	UPI0000042A9A	.	.	.	2/10	.	Pfam_domain:PF11825,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCCGACGGG	byFrequency	5	BLCA
CAMSAP1	0	.	GRCh37	9	138742249	138742249	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.867G>A	p.%3D	p.L289L	ENST00000389532	6/17	71	47	23	88	88	0	CAMSAP1,synonymous_variant,p.%3D,ENST00000389532,;CAMSAP1,synonymous_variant,p.%3D,ENST00000312405,;CAMSAP1,synonymous_variant,p.%3D,ENST00000409386,;CAMSAP1,non_coding_transcript_exon_variant,,ENST00000492174,;	T	ENSG00000130559	ENST00000389532	Transcript	synonymous_variant	932	867	289	L	ctG/ctA	.	.	.	-1	CAMSAP1	HGNC	19946	protein_coding	YES	CCDS35176.2	ENSP00000374183	CAMP1_HUMAN	.	UPI0000EDA283	.	.	.	6/17	.	hmmpanther:PTHR21595,hmmpanther:PTHR21595:SF3,Pfam_domain:PF00307,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCAGAAG	.	5	BLCA
C9orf163	0	.	GRCh37	9	139379227	139379227	+	Silent	SNP	C	C	T	rs147462165	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327C>T	p.%3D	p.F109F	ENST00000354376	1/1	45	18	27	58	58	0	C9orf163,synonymous_variant,p.%3D,ENST00000354376,;	T	ENSG00000196366	ENST00000354376	Transcript	synonymous_variant	1281	327	109	F	ttC/ttT	rs147462165	.	.	1	C9orf163	HGNC	26718	protein_coding	YES	CCDS7001.1	ENSP00000346345	CI163_HUMAN	.	UPI000006EC86	.	.	.	1/1	.	.	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATTCCTGAC	byCluster	5	BLCA
NOTCH1	0	.	GRCh37	9	139395238	139395238	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5700C>T	p.%3D	p.S1900S	ENST00000277541	31/34	44	33	11	46	46	0	NOTCH1,synonymous_variant,p.%3D,ENST00000277541,;NOTCH1,downstream_gene_variant,,ENST00000494783,;	A	ENSG00000148400	ENST00000277541	Transcript	synonymous_variant	5776	5700	1900	S	agC/agT	.	.	.	-1	NOTCH1	HGNC	7881	protein_coding	YES	CCDS43905.1	ENSP00000277541	NOTC1_HUMAN	H9CXX2_HUMAN	UPI0000210F68	.	.	.	31/34	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24033:SF37,hmmpanther:PTHR24033,Gene3D:1.25.40.20,PIRSF_domain:PIRSF002279,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTCGCTGTT	.	2	BLCA
EGFL7	0	.	GRCh37	9	139565106	139565106	+	Intron	SNP	C	C	T	rs772277946	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.572-296C>T	.	.	ENST00000371699	.	25	11	14	33	33	0	EGFL7,intron_variant,,ENST00000308874,;EGFL7,intron_variant,,ENST00000371698,;EGFL7,intron_variant,,ENST00000371699,;EGFL7,intron_variant,,ENST00000406555,;AGPAT2,downstream_gene_variant,,ENST00000371696,;EGFL7,downstream_gene_variant,,ENST00000492862,;AGPAT2,downstream_gene_variant,,ENST00000538402,;AGPAT2,downstream_gene_variant,,ENST00000371694,;MIR126,non_coding_transcript_exon_variant,,ENST00000362291,;EGFL7,intron_variant,,ENST00000492002,;EGFL7,downstream_gene_variant,,ENST00000490469,;AGPAT2,downstream_gene_variant,,ENST00000472820,;	T	ENSG00000172889	ENST00000371699	Transcript	intron_variant	.	.	.	.	.	rs772277946	.	.	1	EGFL7	HGNC	20594	protein_coding	YES	CCDS7002.1	ENSP00000360764	EGFL7_HUMAN	R4GMT3_HUMAN	UPI0000036A42	.	.	.	.	7/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCGTACC	.	5	BLCA
FAM69B	0	.	GRCh37	9	139620364	139620364	+	3'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000371692	.	12	8	4	12	12	0	FAM69B,downstream_gene_variant,,ENST00000371691,;FAM69B,downstream_gene_variant,,ENST00000371692,;SNHG7,downstream_gene_variant,,ENST00000391185,;SNHG7,downstream_gene_variant,,ENST00000362567,;SNHG7,non_coding_transcript_exon_variant,,ENST00000447221,;SNHG7,intron_variant,,ENST00000416970,;SNHG7,intron_variant,,ENST00000414282,;SNHG7,intron_variant,,ENST00000436596,;	A	ENSG00000165716	ENST00000371692	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1862	1	FAM69B	HGNC	28290	protein_coding	YES	CCDS7004.1	ENSP00000360757	FA69B_HUMAN	.	UPI000013E4F3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGAACGAGGCC	.	3	BLCA
FAM69B	0	.	GRCh37	9	139621205	139621205	+	3'Flank	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000371692	.	22	16	6	38	38	0	FAM69B,downstream_gene_variant,,ENST00000371691,;FAM69B,downstream_gene_variant,,ENST00000371692,;SNHG7,non_coding_transcript_exon_variant,,ENST00000391185,;SNHG7,upstream_gene_variant,,ENST00000362567,;SNHG7,non_coding_transcript_exon_variant,,ENST00000447221,;SNHG7,intron_variant,,ENST00000416970,;SNHG7,intron_variant,,ENST00000414282,;SNHG7,upstream_gene_variant,,ENST00000436596,;	A	ENSG00000165716	ENST00000371692	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	2703	1	FAM69B	HGNC	28290	protein_coding	YES	CCDS7004.1	ENSP00000360757	FA69B_HUMAN	.	UPI000013E4F3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGTGAGACT	.	5	BLCA
CCDC183	0	.	GRCh37	9	139699052	139699052	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>A	p.%3D	p.T255T	ENST00000338005	7/14	41	27	14	66	65	1	CCDC183,synonymous_variant,p.%3D,ENST00000338005,;RABL6,upstream_gene_variant,,ENST00000371671,;RP11-216L13.17,downstream_gene_variant,,ENST00000456614,;RABL6,upstream_gene_variant,,ENST00000371663,;RABL6,upstream_gene_variant,,ENST00000357466,;RABL6,upstream_gene_variant,,ENST00000311502,;CCDC183-AS1,non_coding_transcript_exon_variant,,ENST00000414656,;CCDC183,non_coding_transcript_exon_variant,,ENST00000371682,;CCDC183,upstream_gene_variant,,ENST00000484858,;CCDC183,upstream_gene_variant,,ENST00000496839,;CCDC183,missense_variant,p.Glu255Lys,ENST00000479371,;RP11-216L13.19,non_coding_transcript_exon_variant,,ENST00000415992,;CCDC183,non_coding_transcript_exon_variant,,ENST00000481601,;CCDC183,non_coding_transcript_exon_variant,,ENST00000430612,;RP11-216L13.18,intron_variant,,ENST00000471502,;CCDC183,downstream_gene_variant,,ENST00000609471,;RP11-216L13.19,upstream_gene_variant,,ENST00000459985,;RABL6,upstream_gene_variant,,ENST00000484471,;	A	ENSG00000213213	ENST00000338005	Transcript	synonymous_variant	800	765	255	T	acG/acA	.	.	.	1	CCDC183	HGNC	28236	protein_coding	YES	CCDS43906.1	ENSP00000338013	K1984_HUMAN	.	UPI00015E02CD	.	.	.	7/14	.	hmmpanther:PTHR21694:SF16,hmmpanther:PTHR21694	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACACGAAGGA	.	5	BLCA
TRAF2	0	.	GRCh37	9	139793378	139793378	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>T	p.%3D	p.L62L	ENST00000247668	2/11	14	10	4	19	19	0	TRAF2,synonymous_variant,p.%3D,ENST00000414589,;TRAF2,synonymous_variant,p.%3D,ENST00000359662,;TRAF2,synonymous_variant,p.%3D,ENST00000429509,;TRAF2,synonymous_variant,p.%3D,ENST00000536468,;TRAF2,synonymous_variant,p.%3D,ENST00000419057,;TRAF2,synonymous_variant,p.%3D,ENST00000247668,;TRAF2,upstream_gene_variant,,ENST00000482854,;TRAF2,upstream_gene_variant,,ENST00000474950,;	T	ENSG00000127191	ENST00000247668	Transcript	synonymous_variant	238	186	62	L	ctC/ctT	.	.	.	1	TRAF2	HGNC	12032	protein_coding	YES	CCDS7013.1	ENSP00000247668	TRAF2_HUMAN	B1AMY1_HUMAN,B1AMX8_HUMAN,B1AMX7_HUMAN	UPI0000001612	.	.	.	2/11	.	PROSITE_profiles:PS50089,hmmpanther:PTHR10131:SF21,hmmpanther:PTHR10131,Gene3D:3.30.40.10,Pfam_domain:PF00097,SMART_domains:SM00184,PIRSF_domain:PIRSF015614,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCAGGTG	.	5	BLCA
FBXW5	0	.	GRCh37	9	139837915	139837915	+	Silent	SNP	C	C	T	rs377091309	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237G>A	p.%3D	p.T79T	ENST00000325285	3/9	19	14	5	33	33	0	FBXW5,synonymous_variant,p.%3D,ENST00000443788,;FBXW5,synonymous_variant,p.%3D,ENST00000325285,;FBXW5,synonymous_variant,p.%3D,ENST00000428398,;FBXW5,upstream_gene_variant,,ENST00000433269,;C8G,upstream_gene_variant,,ENST00000224181,;C8G,upstream_gene_variant,,ENST00000371634,;FBXW5,non_coding_transcript_exon_variant,,ENST00000483559,;FBXW5,non_coding_transcript_exon_variant,,ENST00000491246,;FBXW5,non_coding_transcript_exon_variant,,ENST00000480818,;FBXW5,non_coding_transcript_exon_variant,,ENST00000459905,;C8G,upstream_gene_variant,,ENST00000465773,;C8G,upstream_gene_variant,,ENST00000484376,;FBXW5,upstream_gene_variant,,ENST00000487794,;	T	ENSG00000159069	ENST00000325285	Transcript	synonymous_variant	317	237	79	T	acG/acA	rs377091309	.	.	-1	FBXW5	HGNC	13613	protein_coding	YES	CCDS7014.1	ENSP00000313034	FBXW5_HUMAN	.	UPI000006EC75	.	.	.	3/9	.	hmmpanther:PTHR20995,hmmpanther:PTHR20995:SF15,Gene3D:1.20.1280.50,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCACCGTGTC	byCluster	5	BLCA
ABCA2	0	.	GRCh37	9	139907259	139907259	+	Silent	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4986G>A	p.%3D	p.Q1662Q	ENST00000341511	31/49	23	16	7	26	26	0	ABCA2,synonymous_variant,p.%3D,ENST00000371605,;ABCA2,synonymous_variant,p.%3D,ENST00000341511,;ABCA2,synonymous_variant,p.%3D,ENST00000265662,;ABCA2,upstream_gene_variant,,ENST00000490486,;ABCA2,upstream_gene_variant,,ENST00000448336,;ABCA2,upstream_gene_variant,,ENST00000464157,;ABCA2,downstream_gene_variant,,ENST00000466707,;ABCA2,upstream_gene_variant,,ENST00000437791,;ABCA2,upstream_gene_variant,,ENST00000463603,;ABCA2,synonymous_variant,p.%3D,ENST00000479446,;ABCA2,synonymous_variant,p.%3D,ENST00000459850,;ABCA2,synonymous_variant,p.%3D,ENST00000488535,;ABCA2,3_prime_UTR_variant,,ENST00000487109,;ABCA2,non_coding_transcript_exon_variant,,ENST00000431584,;ABCA2,upstream_gene_variant,,ENST00000464520,;	T	ENSG00000107331	ENST00000341511	Transcript	synonymous_variant	5036	4986	1662	Q	caG/caA	COSM1314651	.	.	-1	ABCA2	HGNC	32	protein_coding	YES	CCDS43909.1	ENSP00000344155	ABCA2_HUMAN	Q9UPU0_HUMAN,B4DI99_HUMAN	UPI00015E02DC	.	.	.	31/49	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF116	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCATCTGGGG	.	5	BLCA
MAN1B1	0	.	GRCh37	9	140001151	140001151	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1456G>A	p.Asp486Asn	p.D486N	ENST00000371589	10/13	36	21	15	67	67	0	MAN1B1,missense_variant,p.Asp189Asn,ENST00000474902,;MAN1B1,missense_variant,p.Asp460Asn,ENST00000535144,;MAN1B1,missense_variant,p.Asp486Asn,ENST00000371589,;MAN1B1,upstream_gene_variant,,ENST00000550113,;DPP7,downstream_gene_variant,,ENST00000463619,;MAN1B1,upstream_gene_variant,,ENST00000475449,;DPP7,downstream_gene_variant,,ENST00000371579,;MAN1B1,non_coding_transcript_exon_variant,,ENST00000540391,;MAN1B1,missense_variant,p.Asp491Asn,ENST00000544448,;MAN1B1,non_coding_transcript_exon_variant,,ENST00000535028,;MAN1B1,non_coding_transcript_exon_variant,,ENST00000536349,;MAN1B1,non_coding_transcript_exon_variant,,ENST00000480100,;MAN1B1,upstream_gene_variant,,ENST00000536268,;MAN1B1,downstream_gene_variant,,ENST00000371587,;DPP7,downstream_gene_variant,,ENST00000483783,;DPP7,downstream_gene_variant,,ENST00000473532,;DPP7,downstream_gene_variant,,ENST00000470766,;	A	ENSG00000177239	ENST00000371589	Transcript	missense_variant	1529	1456	486	D/N	Gac/Aac	.	.	.	1	MAN1B1	HGNC	6823	protein_coding	YES	CCDS7029.1	ENSP00000360645	MA1B1_HUMAN	Q8N2P4_HUMAN,B3KQC5_HUMAN	UPI0000169E6E	.	deleterious(0.01)	probably_damaging(0.99)	10/13	.	hmmpanther:PTHR11742:SF7,hmmpanther:PTHR11742,Pfam_domain:PF01532,Gene3D:1.50.10.50,Superfamily_domains:SSF48225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGACTAC	.	5	BLCA
NELFB	0	.	GRCh37	9	140150389	140150389	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133C>T	p.Gln45Ter	p.Q45*	ENST00000343053	2/13	101	66	35	159	159	0	NELFB,stop_gained,p.Gln45Ter,ENST00000343053,;C9orf173,downstream_gene_variant,,ENST00000412566,;C9orf173,downstream_gene_variant,,ENST00000388931,;	T	ENSG00000188986	ENST00000343053	Transcript	stop_gained	470	133	45	Q/*	Cag/Tag	.	.	.	1	NELFB	HGNC	24324	protein_coding	YES	CCDS7040.1	ENSP00000339495	NELFB_HUMAN	.	UPI0000070699	.	.	.	2/13	.	hmmpanther:PTHR13503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAGTCA	.	5	BLCA
DPH7	0	.	GRCh37	9	140459475	140459475	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.710+62G>A	.	.	ENST00000277540	.	11	8	3	11	11	0	DPH7,intron_variant,,ENST00000277540,;DPH7,non_coding_transcript_exon_variant,,ENST00000479650,;DPH7,intron_variant,,ENST00000472113,;DPH7,intron_variant,,ENST00000467768,;DPH7,intron_variant,,ENST00000485189,;DPH7,intron_variant,,ENST00000497237,;DPH7,intron_variant,,ENST00000475100,;DPH7,upstream_gene_variant,,ENST00000467243,;DPH7,downstream_gene_variant,,ENST00000477690,;	T	ENSG00000148399	ENST00000277540	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DPH7	HGNC	25199	protein_coding	YES	CCDS7047.1	ENSP00000277540	DPH7_HUMAN	.	UPI000006F34E	.	.	.	.	6/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGGGCTGGTG	.	2	BLCA
ZMYND19	0	.	GRCh37	9	140477015	140477015	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.664G>A	p.Glu222Lys	p.E222K	ENST00000298585	6/6	57	44	13	55	55	0	ZMYND19,missense_variant,p.Glu222Lys,ENST00000298585,;DPH7,upstream_gene_variant,,ENST00000277540,;DPH7,upstream_gene_variant,,ENST00000481839,;ZMYND19,downstream_gene_variant,,ENST00000471957,;DPH7,upstream_gene_variant,,ENST00000470855,;DPH7,upstream_gene_variant,,ENST00000472113,;DPH7,upstream_gene_variant,,ENST00000460572,;DPH7,upstream_gene_variant,,ENST00000467768,;DPH7,upstream_gene_variant,,ENST00000479650,;DPH7,upstream_gene_variant,,ENST00000491359,;DPH7,upstream_gene_variant,,ENST00000476303,;DPH7,upstream_gene_variant,,ENST00000475100,;	T	ENSG00000165724	ENST00000298585	Transcript	missense_variant	891	664	222	E/K	Gag/Aag	.	.	.	-1	ZMYND19	HGNC	21146	protein_coding	YES	CCDS7048.1	ENSP00000298585	ZMY19_HUMAN	.	UPI0000022A7D	.	deleterious(0.03)	benign(0.142)	6/6	.	hmmpanther:PTHR13244:SF5,hmmpanther:PTHR13244	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTCATGCT	.	5	BLCA
FREM1	0	.	GRCh37	9	14812864	14812864	+	Missense_Mutation	SNP	C	C	T	rs200811701	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2839G>A	p.Asp947Asn	p.D947N	ENST00000422223	17/38	119	87	31	149	149	0	FREM1,missense_variant,p.Asp948Asn,ENST00000380881,;FREM1,missense_variant,p.Asp947Asn,ENST00000380880,;FREM1,missense_variant,p.Asp947Asn,ENST00000422223,;FREM1,missense_variant,p.Asp947Asn,ENST00000380875,;	T	ENSG00000164946	ENST00000422223	Transcript	missense_variant	3655	2839	947	D/N	Gat/Aat	rs200811701,COSM3656250	.	.	-1	FREM1	HGNC	23399	protein_coding	YES	CCDS47952.1	ENSP00000412940	FREM1_HUMAN	.	UPI000057A218	.	tolerated(0.08)	benign(0.036)	17/38	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF24	A:0.0004	A:0	A:0	.	A:0.002	A:0	A:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCCACTG	byFrequency|byCluster|by1000G	5	BLCA
TTC39B	0	.	GRCh37	9	15177782	15177782	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1754G>A	p.Cys585Tyr	p.C585Y	ENST00000512701	18/20	38	22	15	32	32	0	TTC39B,missense_variant,p.Cys585Tyr,ENST00000512701,;TTC39B,missense_variant,p.Cys519Tyr,ENST00000355694,;TTC39B,missense_variant,p.Cys516Tyr,ENST00000297615,;TTC39B,missense_variant,p.Cys420Tyr,ENST00000507993,;TTC39B,missense_variant,p.Cys572Tyr,ENST00000380850,;TTC39B,missense_variant,p.Cys420Tyr,ENST00000507285,;TTC39B,non_coding_transcript_exon_variant,,ENST00000380853,;	T	ENSG00000155158	ENST00000512701	Transcript	missense_variant	1791	1754	585	C/Y	tGc/tAc	COSM608233,COSM1145284	.	.	-1	TTC39B	HGNC	23704	protein_coding	YES	CCDS6477.2	ENSP00000422496	TT39B_HUMAN	.	UPI0001BE810F	.	deleterious(0)	possibly_damaging(0.628)	18/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31859,hmmpanther:PTHR31859:SF4,Pfam_domain:PF10300,Gene3D:1.25.40.10,SMART_domains:SM00028,Superfamily_domains:SSF81901	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAAGCACTCA	.	5	BLCA
PSIP1	0	.	GRCh37	9	15468955	15468955	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1206A>C	p.Lys402Asn	p.K402N	ENST00000380733	13/16	33	24	8	30	30	0	PSIP1,missense_variant,p.Lys402Asn,ENST00000380738,;PSIP1,missense_variant,p.Lys402Asn,ENST00000380733,;PSIP1,downstream_gene_variant,,ENST00000397519,;PSIP1,downstream_gene_variant,,ENST00000380716,;SNAPC3,downstream_gene_variant,,ENST00000380821,;PSIP1,downstream_gene_variant,,ENST00000380715,;PSIP1,downstream_gene_variant,,ENST00000481862,;PSIP1,downstream_gene_variant,,ENST00000495873,;SNAPC3,downstream_gene_variant,,ENST00000467062,;	G	ENSG00000164985	ENST00000380733	Transcript	missense_variant	1550	1206	402	K/N	aaA/aaC	.	.	.	-1	PSIP1	HGNC	9527	protein_coding	YES	CCDS6479.1	ENSP00000370109	PSIP1_HUMAN	Q8N4N4_HUMAN	UPI0000073FC4	.	deleterious(0)	probably_damaging(0.997)	13/16	.	Superfamily_domains:0051900,Pfam_domain:PF11467,hmmpanther:PTHR12550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTACTTTTTT	.	5	BLCA
PSIP1	0	.	GRCh37	9	15468990	15468990	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1171C>T	p.Gln391Ter	p.Q391*	ENST00000380733	13/16	43	31	12	23	23	0	PSIP1,stop_gained,p.Gln391Ter,ENST00000380738,;PSIP1,stop_gained,p.Gln391Ter,ENST00000380733,;PSIP1,downstream_gene_variant,,ENST00000397519,;PSIP1,downstream_gene_variant,,ENST00000380716,;SNAPC3,downstream_gene_variant,,ENST00000380821,;PSIP1,downstream_gene_variant,,ENST00000380715,;PSIP1,downstream_gene_variant,,ENST00000481862,;PSIP1,downstream_gene_variant,,ENST00000495873,;SNAPC3,downstream_gene_variant,,ENST00000467062,;	A	ENSG00000164985	ENST00000380733	Transcript	stop_gained	1515	1171	391	Q/*	Cag/Tag	.	.	.	-1	PSIP1	HGNC	9527	protein_coding	YES	CCDS6479.1	ENSP00000370109	PSIP1_HUMAN	Q8N4N4_HUMAN	UPI0000073FC4	.	.	.	13/16	.	Superfamily_domains:0051900,Pfam_domain:PF11467,hmmpanther:PTHR12550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAGCTT	.	5	BLCA
CNTLN	0	.	GRCh37	9	17273758	17273758	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.877A>G	p.Arg293Gly	p.R293G	ENST00000380647	6/26	129	96	32	156	156	0	CNTLN,missense_variant,p.Arg293Gly,ENST00000380641,;CNTLN,missense_variant,p.Arg293Gly,ENST00000425824,;CNTLN,missense_variant,p.Arg293Gly,ENST00000262360,;CNTLN,missense_variant,p.Arg293Gly,ENST00000380647,;	G	ENSG00000044459	ENST00000380647	Transcript	missense_variant	961	877	293	R/G	Agg/Ggg	.	.	.	1	CNTLN	HGNC	23432	protein_coding	YES	CCDS43789.1	ENSP00000370021	CNTLN_HUMAN	.	UPI0000458809	.	deleterious(0.02)	possibly_damaging(0.479)	6/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18957,hmmpanther:PTHR18957:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCAAGGAAA	.	5	BLCA
HAUS6	0	.	GRCh37	9	19087094	19087094	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645A>G	p.Ile215Met	p.I215M	ENST00000380502	6/17	86	50	35	112	112	0	HAUS6,missense_variant,p.Ile79Met,ENST00000380496,;HAUS6,missense_variant,p.Ile215Met,ENST00000380502,;Y_RNA,upstream_gene_variant,,ENST00000364248,;	C	ENSG00000147874	ENST00000380502	Transcript	missense_variant	1113	645	215	I/M	atA/atG	.	.	.	-1	HAUS6	HGNC	25948	protein_coding	YES	CCDS6489.1	ENSP00000369871	HAUS6_HUMAN	Q5SYF9_HUMAN	UPI00000740C7	.	tolerated(0.18)	benign(0.067)	6/17	.	hmmpanther:PTHR16151,Pfam_domain:PF14661	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTTATTTG	.	5	BLCA
PTPLAD2	0	.	GRCh37	9	21029378	21029378	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.58C>G	p.Leu20Val	p.L20V	ENST00000495827	2/7	113	85	28	117	117	0	PTPLAD2,missense_variant,p.Leu20Val,ENST00000495827,;PTPLAD2,missense_variant,p.Leu20Val,ENST00000513293,;PTPLAD2,upstream_gene_variant,,ENST00000488436,;	C	ENSG00000188921	ENST00000495827	Transcript	missense_variant	104	58	20	L/V	Ctt/Gtt	.	.	.	-1	PTPLAD2	HGNC	20920	protein_coding	YES	CCDS43791.1	ENSP00000419503	HACD4_HUMAN	.	UPI0000251F91	.	deleterious(0)	possibly_damaging(0.46)	2/7	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11035,hmmpanther:PTHR11035:SF16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAAAAGATACG	.	3	BLCA
IFNA2	0	.	GRCh37	9	21385184	21385184	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145C>T	p.Leu49Phe	p.L49F	ENST00000380206	1/1	106	78	28	128	128	0	IFNA2,missense_variant,p.Leu49Phe,ENST00000380206,;	A	ENSG00000188379	ENST00000380206	Transcript	missense_variant	213	145	49	L/F	Ctt/Ttt	.	.	.	-1	IFNA2	HGNC	5423	protein_coding	YES	CCDS6506.1	ENSP00000369554	IFNA2_HUMAN	Q6DJX8_HUMAN,Q16054_HUMAN	UPI0000034B3A	.	deleterious(0.01)	possibly_damaging(0.65)	1/1	.	hmmpanther:PTHR11691:SF24,hmmpanther:PTHR11691,Gene3D:1.20.1250.10,Pfam_domain:PF00143,Superfamily_domains:SSF47266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAAGAGAGA	.	5	BLCA
IFNE	0	.	GRCh37	9	21481504	21481504	+	Missense_Mutation	SNP	G	G	C	rs568628358	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190C>G	p.Gln64Glu	p.Q64E	ENST00000448696	1/1	67	42	25	70	70	0	IFNE,missense_variant,p.Gln64Glu,ENST00000448696,;MIR31HG,intron_variant,,ENST00000304425,;	C	ENSG00000184995	ENST00000448696	Transcript	missense_variant	809	190	64	Q/E	Cag/Gag	rs568628358	.	.	-1	IFNE	HGNC	18163	protein_coding	YES	CCDS34997.1	ENSP00000418018	IFNE_HUMAN	.	UPI000000D8A7	.	tolerated(0.08)	benign(0.037)	1/1	.	hmmpanther:PTHR11691:SF8,hmmpanther:PTHR11691,Gene3D:1.20.1250.10,Pfam_domain:PF00143,SMART_domains:SM00076,Superfamily_domains:SSF47266,Prints_domain:PR00266	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGAGGAA	by1000G	5	BLCA
CDKN2A	0	.	GRCh37	9	21974684	21974684	+	Missense_Mutation	SNP	G	G	A	rs763804037	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.143C>T	p.Pro48Leu	p.P48L	ENST00000498124	1/4	131	74	57	144	144	0	CDKN2A,missense_variant,p.Pro48Leu,ENST00000446177,;CDKN2A,missense_variant,p.Pro48Leu,ENST00000304494,;CDKN2A,missense_variant,p.Pro48Leu,ENST00000498124,;CDKN2A,missense_variant,p.Pro48Leu,ENST00000579122,;CDKN2A,intron_variant,,ENST00000579755,;CDKN2A,intron_variant,,ENST00000494262,;CDKN2A,intron_variant,,ENST00000498628,;CDKN2A,intron_variant,,ENST00000530628,;CDKN2A,intron_variant,,ENST00000361570,;CDKN2A,upstream_gene_variant,,ENST00000578845,;CDKN2A,upstream_gene_variant,,ENST00000479692,;CDKN2A,upstream_gene_variant,,ENST00000497750,;CDKN2A,upstream_gene_variant,,ENST00000380150,;CDKN2A,upstream_gene_variant,,ENST00000577854,;CDKN2A,missense_variant,p.Pro48Leu,ENST00000380151,;RP11-145E5.5,intron_variant,,ENST00000404796,;	A	ENSG00000147889	ENST00000498124	Transcript	missense_variant	182	143	48	P/L	cCg/cTg	rs763804037,CM970251,COSM12743,COSM13272,COSM3092328,COSM3930002,COSM3930001,COSM3092327	.	.	-1	CDKN2A	HGNC	1787	protein_coding	YES	CCDS56565.1	ENSP00000418915	CD2A1_HUMAN	Q9UPB7_HUMAN	UPI0001565711	.	deleterious(0.03)	probably_damaging(0.999)	1/4	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24144:SF30,hmmpanther:PTHR24144,Gene3D:1.25.40.20,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	0,0,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.P48L|c.143C>T|8,CODON|p.0?|c.1_471del471|15,BUFFER|p.?|c.150+2T>C|5,BUFFER|p.?|c.150+1G>A|5,BUFFER|p.Q50*|c.148C>T|5,BUFFER|p.Q50*|c.148C>T|5,BUFFER|p.Q50*|c.148C>T|9,BUFFER|p.Y44*|c.132C>A|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATCGGCCTC	.	5	BLCA
TAF1L	0	.	GRCh37	9	32632499	32632499	+	Missense_Mutation	SNP	G	G	A	rs778201054	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3079C>T	p.Arg1027Cys	p.R1027C	ENST00000242310	1/1	188	134	53	251	251	0	TAF1L,missense_variant,p.Arg1027Cys,ENST00000242310,;RP11-555J4.4,upstream_gene_variant,,ENST00000430787,;AL589642.1,non_coding_transcript_exon_variant,,ENST00000541085,;	A	ENSG00000122728	ENST00000242310	Transcript	missense_variant	3169	3079	1027	R/C	Cgt/Tgt	rs778201054,COSM1314755	.	.	-1	TAF1L	HGNC	18056	protein_coding	YES	CCDS35003.1	ENSP00000418379	TAF1L_HUMAN	.	UPI000007408A	.	deleterious(0)	probably_damaging(0.953)	1/1	.	hmmpanther:PTHR13900,hmmpanther:PTHR13900:SF0,Pfam_domain:PF12157,PIRSF_domain:PIRSF003047	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTACGTAGAA	byFrequency	5	BLCA
TAF1L	0	.	GRCh37	9	32633738	32633738	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1840G>A	p.Ala614Thr	p.A614T	ENST00000242310	1/1	105	72	32	120	120	0	TAF1L,missense_variant,p.Ala614Thr,ENST00000242310,;RP11-555J4.4,non_coding_transcript_exon_variant,,ENST00000430787,;AL589642.1,non_coding_transcript_exon_variant,,ENST00000541085,;	T	ENSG00000122728	ENST00000242310	Transcript	missense_variant	1930	1840	614	A/T	Gct/Act	COSM372327	.	.	-1	TAF1L	HGNC	18056	protein_coding	YES	CCDS35003.1	ENSP00000418379	TAF1L_HUMAN	.	UPI000007408A	.	deleterious(0.04)	probably_damaging(0.973)	1/1	.	hmmpanther:PTHR13900,hmmpanther:PTHR13900:SF0,Pfam_domain:PF12157,PIRSF_domain:PIRSF003047	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATAGCAGGAA	.	5	BLCA
RFX3	0	.	GRCh37	9	3275598	3275598	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.988C>G	p.Leu330Val	p.L330V	ENST00000382004	10/18	56	30	26	96	96	0	RFX3,missense_variant,p.Leu330Val,ENST00000302303,;RFX3,missense_variant,p.Leu330Val,ENST00000382004,;RFX3,missense_variant,p.Leu330Val,ENST00000358730,;RFX3,upstream_gene_variant,,ENST00000458034,;	C	ENSG00000080298	ENST00000382004	Transcript	missense_variant	1300	988	330	L/V	Ctt/Gtt	.	.	.	-1	RFX3	HGNC	9984	protein_coding	YES	CCDS6449.1	ENSP00000371434	RFX3_HUMAN	F6XM74_HUMAN,F6USP3_HUMAN	UPI0000070BFB	.	tolerated(0.09)	benign(0.411)	10/18	.	hmmpanther:PTHR12619:SF20,hmmpanther:PTHR12619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGGAAGTGCTC	.	4	BLCA
DNAJA1	0	.	GRCh37	9	33030597	33030597	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.575G>T	p.Arg192Ile	p.R192I	ENST00000330899	5/9	28	17	11	27	27	0	DNAJA1,missense_variant,p.Arg192Ile,ENST00000330899,;DNAJA1,missense_variant,p.Arg35Ile,ENST00000544625,;DNAJA1,intron_variant,,ENST00000495015,;DNAJA1,upstream_gene_variant,,ENST00000465677,;	T	ENSG00000086061	ENST00000330899	Transcript	missense_variant	758	575	192	R/I	aGa/aTa	.	.	.	1	DNAJA1	HGNC	5229	protein_coding	YES	CCDS6533.1	ENSP00000369127	DNJA1_HUMAN	B7Z5C0_HUMAN	UPI0000129431	.	deleterious(0.02)	possibly_damaging(0.585)	5/9	.	HAMAP:MF_01152,PROSITE_profiles:PS51188,hmmpanther:PTHR24076:SF94,hmmpanther:PTHR24076,Gene3D:2.10.230.10,Pfam_domain:PF00684,Superfamily_domains:SSF57938	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATAGATGTA	.	5	BLCA
SMU1	0	.	GRCh37	9	33076654	33076654	+	5'UTR	SNP	C	C	T	rs764456018	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-48G>A	.	.	ENST00000397149	1/12	31	20	11	45	45	0	SMU1,5_prime_UTR_variant,,ENST00000397149,;SMU1,5_prime_UTR_variant,,ENST00000536631,;	T	ENSG00000122692	ENST00000397149	Transcript	5_prime_UTR_variant	4	.	.	.	.	rs764456018	.	.	-1	SMU1	HGNC	18247	protein_coding	YES	CCDS6534.1	ENSP00000380336	SMU1_HUMAN	B4E3L0_HUMAN,A0MNN4_HUMAN	UPI0000022E9B	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGTCGCGCA	.	5	BLCA
RFX3	0	.	GRCh37	9	3346692	3346692	+	Missense_Mutation	SNP	C	C	T	rs777692576	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190G>A	p.Asp64Asn	p.D64N	ENST00000382004	4/18	55	41	14	60	60	0	RFX3,missense_variant,p.Asp25Asn,ENST00000442560,;RFX3,missense_variant,p.Asp25Asn,ENST00000420720,;RFX3,missense_variant,p.Asp64Asn,ENST00000381984,;RFX3,missense_variant,p.Asp64Asn,ENST00000302303,;RFX3,missense_variant,p.Asp64Asn,ENST00000457373,;RFX3,missense_variant,p.Asp64Asn,ENST00000382004,;RFX3,missense_variant,p.Asp64Asn,ENST00000449190,;RFX3,missense_variant,p.Asp64Asn,ENST00000358730,;RFX3,missense_variant,p.Asp64Asn,ENST00000451859,;	T	ENSG00000080298	ENST00000382004	Transcript	missense_variant	502	190	64	D/N	Gat/Aat	rs777692576	.	.	-1	RFX3	HGNC	9984	protein_coding	YES	CCDS6449.1	ENSP00000371434	RFX3_HUMAN	F6XM74_HUMAN,F6USP3_HUMAN	UPI0000070BFB	.	deleterious(0.05)	benign(0.052)	4/18	.	Pfam_domain:PF04589,hmmpanther:PTHR12619:SF20,hmmpanther:PTHR12619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTATCGCTTC	.	5	BLCA
DCAF12	0	.	GRCh37	9	34093416	34093416	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892G>A	p.Glu298Lys	p.E298K	ENST00000361264	7/9	38	24	14	61	61	0	DCAF12,missense_variant,p.Glu298Lys,ENST00000361264,;DCAF12,downstream_gene_variant,,ENST00000396990,;RP11-537H15.3,intron_variant,,ENST00000448245,;DCAF12,non_coding_transcript_exon_variant,,ENST00000466402,;	T	ENSG00000198876	ENST00000361264	Transcript	missense_variant	1234	892	298	E/K	Gag/Aag	.	.	.	-1	DCAF12	HGNC	19911	protein_coding	YES	CCDS6549.1	ENSP00000355114	DCA12_HUMAN	.	UPI00000372E8	.	deleterious(0.01)	possibly_damaging(0.867)	7/9	.	hmmpanther:PTHR19860:SF10,hmmpanther:PTHR19860,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCACGGC	.	5	BLCA
KIF24	0	.	GRCh37	9	34271821	34271821	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1323G>A	p.%3D	p.K441K	ENST00000379166	7/13	14	6	8	17	17	0	KIF24,synonymous_variant,p.%3D,ENST00000345050,;KIF24,synonymous_variant,p.%3D,ENST00000379166,;KIF24,synonymous_variant,p.%3D,ENST00000402558,;KIF24,synonymous_variant,p.%3D,ENST00000379174,;	T	ENSG00000186638	ENST00000379166	Transcript	synonymous_variant	1443	1323	441	K	aaG/aaA	.	.	.	-1	KIF24	HGNC	19916	protein_coding	YES	CCDS6551.2	ENSP00000368464	KIF24_HUMAN	.	UPI00004F9D23	.	.	.	7/13	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF331,hmmpanther:PTHR24115,Gene3D:3.40.850.10,Pfam_domain:PF00225,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GTCCTCTTGGC	.	4	BLCA
RPP25L	0	.	GRCh37	9	34611090	34611090	+	Silent	SNP	G	G	A	rs549744810	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204C>T	p.%3D	p.V68V	ENST00000297613	2/2	31	22	9	40	40	0	RPP25L,synonymous_variant,p.%3D,ENST00000297613,;RPP25L,synonymous_variant,p.%3D,ENST00000378959,;DCTN3,downstream_gene_variant,,ENST00000447983,;DCTN3,downstream_gene_variant,,ENST00000378916,;DCTN3,downstream_gene_variant,,ENST00000341694,;DCTN3,downstream_gene_variant,,ENST00000378913,;DCTN3,downstream_gene_variant,,ENST00000421919,;DCTN3,downstream_gene_variant,,ENST00000259632,;DCTN3,downstream_gene_variant,,ENST00000477738,;DCTN3,downstream_gene_variant,,ENST00000472074,;DCTN3,downstream_gene_variant,,ENST00000472418,;DCTN3,downstream_gene_variant,,ENST00000479399,;DCTN3,downstream_gene_variant,,ENST00000481438,;	A	ENSG00000164967	ENST00000297613	Transcript	synonymous_variant	485	204	68	V	gtC/gtT	rs549744810	.	.	-1	RPP25L	HGNC	19909	protein_coding	YES	CCDS6559.1	ENSP00000297613	RP25L_HUMAN	.	UPI000006FAD5	.	.	.	2/2	.	hmmpanther:PTHR13516,hmmpanther:PTHR13516:SF2,Pfam_domain:PF01918,Gene3D:3.30.110.20,Superfamily_domains:SSF82704	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGACAGC	by1000G	5	BLCA
UNC13B	0	.	GRCh37	9	35376139	35376139	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1483G>A	p.Glu495Lys	p.E495K	ENST00000378495	14/39	69	49	19	87	87	0	UNC13B,missense_variant,p.Glu495Lys,ENST00000378495,;UNC13B,missense_variant,p.Glu507Lys,ENST00000396787,;UNC13B,missense_variant,p.Glu495Lys,ENST00000378496,;	A	ENSG00000198722	ENST00000378495	Transcript	missense_variant	1705	1483	495	E/K	Gaa/Aaa	.	.	.	1	UNC13B	HGNC	12566	protein_coding	YES	CCDS6579.1	ENSP00000367756	UN13B_HUMAN	.	UPI0000211336	.	deleterious(0)	probably_damaging(0.999)	14/39	.	PROSITE_profiles:PS50081,hmmpanther:PTHR10480,PROSITE_patterns:PS00479,Gene3D:3.30.60.20,Pfam_domain:PF00130,SMART_domains:SM00109,Superfamily_domains:SSF57889	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTGTGAAGGC	.	5	BLCA
FAM166B	0	.	GRCh37	9	35563055	35563055	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.309C>T	p.%3D	p.F103F	ENST00000399742	3/6	34	19	14	40	40	0	FAM166B,synonymous_variant,p.%3D,ENST00000399742,;RUSC2,downstream_gene_variant,,ENST00000361226,;RUSC2,downstream_gene_variant,,ENST00000455600,;FAM166B,non_coding_transcript_exon_variant,,ENST00000492890,;FAM166B,upstream_gene_variant,,ENST00000478246,;FAM166B,upstream_gene_variant,,ENST00000480287,;FAM166B,synonymous_variant,p.%3D,ENST00000447837,;	A	ENSG00000215187	ENST00000399742	Transcript	synonymous_variant	380	309	103	F	ttC/ttT	.	.	.	-1	FAM166B	HGNC	34242	protein_coding	YES	CCDS56572.1	ENSP00000382646	F166B_HUMAN	.	UPI0000160C8C	.	.	.	3/6	.	hmmpanther:PTHR22146,hmmpanther:PTHR22146:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGAACTG	.	5	BLCA
ARHGEF39	0	.	GRCh37	9	35662178	35662178	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.990C>T	p.%3D	p.I330I	ENST00000378387	8/9	49	21	27	48	48	0	ARHGEF39,synonymous_variant,p.%3D,ENST00000378387,;ARHGEF39,synonymous_variant,p.%3D,ENST00000378395,;ARHGEF39,splice_region_variant,,ENST00000343259,;CCDC107,downstream_gene_variant,,ENST00000378407,;CCDC107,downstream_gene_variant,,ENST00000378409,;CCDC107,downstream_gene_variant,,ENST00000421582,;CCDC107,downstream_gene_variant,,ENST00000426546,;CCDC107,downstream_gene_variant,,ENST00000378406,;CCDC107,downstream_gene_variant,,ENST00000327351,;RMRP,upstream_gene_variant,,ENST00000602361,;RMRP,upstream_gene_variant,,ENST00000363046,;ARHGEF39,splice_region_variant,,ENST00000488918,;ARHGEF39,splice_region_variant,,ENST00000490970,;ARHGEF39,downstream_gene_variant,,ENST00000468876,;ARHGEF39,synonymous_variant,p.%3D,ENST00000490638,;ARHGEF39,splice_region_variant,,ENST00000475323,;	A	ENSG00000137135	ENST00000378387	Transcript	synonymous_variant	1108	990	330	I	atC/atT	.	.	.	-1	ARHGEF39	HGNC	25909	protein_coding	YES	CCDS6584.2	ENSP00000367638	ARG39_HUMAN	.	UPI000006FAA2	.	.	.	8/9	.	PROSITE_profiles:PS50003,hmmpanther:PTHR12673,hmmpanther:PTHR12673:SF103,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGATAGC	.	5	BLCA
TLN1	0	.	GRCh37	9	35706192	35706192	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5361+1G>A	.	p.X1787_splice	ENST00000314888	.	172	112	60	229	229	0	TLN1,splice_donor_variant,,ENST00000314888,;TLN1,splice_donor_variant,,ENST00000540444,;TLN1,intron_variant,,ENST00000464379,;TLN1,downstream_gene_variant,,ENST00000495712,;TLN1,splice_donor_variant,,ENST00000486788,;TLN1,upstream_gene_variant,,ENST00000466916,;TLN1,upstream_gene_variant,,ENST00000465002,;	T	ENSG00000137076	ENST00000314888	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	TLN1	HGNC	11845	protein_coding	YES	CCDS35009.1	ENSP00000316029	TLN1_HUMAN	.	UPI0000211375	.	.	.	.	40/56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATACCTTTG	.	5	BLCA
CREB3	0	.	GRCh37	9	35732755	35732755	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-15C>T	.	.	ENST00000353704	1/9	33	21	11	61	61	0	CREB3,5_prime_UTR_variant,,ENST00000353704,;GBA2,downstream_gene_variant,,ENST00000378088,;GBA2,downstream_gene_variant,,ENST00000378094,;TLN1,upstream_gene_variant,,ENST00000540444,;TLN1,upstream_gene_variant,,ENST00000314888,;GBA2,downstream_gene_variant,,ENST00000378103,;GBA2,downstream_gene_variant,,ENST00000545786,;CREB3,non_coding_transcript_exon_variant,,ENST00000486056,;TLN1,upstream_gene_variant,,ENST00000378192,;	T	ENSG00000107175	ENST00000353704	Transcript	5_prime_UTR_variant	424	.	.	.	.	.	.	.	1	CREB3	HGNC	2347	protein_coding	YES	CCDS6588.1	ENSP00000342136	CREB3_HUMAN	B4DSK1_HUMAN	UPI0000073728	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCCGTAG	.	5	BLCA
SPAG8	0	.	GRCh37	9	35811823	35811823	+	Missense_Mutation	SNP	T	T	C	rs11559133	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.220A>G	p.Thr74Ala	p.T74A	ENST00000340291	2/8	44	32	12	46	46	0	SPAG8,missense_variant,p.Thr72Ala,ENST00000497810,;SPAG8,missense_variant,p.Thr74Ala,ENST00000340291,;SPAG8,missense_variant,p.Thr72Ala,ENST00000484764,;SPAG8,missense_variant,p.Thr74Ala,ENST00000396638,;HINT2,downstream_gene_variant,,ENST00000259667,;TMEM8B,upstream_gene_variant,,ENST00000377996,;NPR2,downstream_gene_variant,,ENST00000447210,;NPR2,downstream_gene_variant,,ENST00000421267,;NPR2,downstream_gene_variant,,ENST00000342694,;AL133410.1,upstream_gene_variant,,ENST00000582432,;SPAG8,intron_variant,,ENST00000463889,;HINT2,downstream_gene_variant,,ENST00000474848,;HINT2,downstream_gene_variant,,ENST00000474908,;HINT2,downstream_gene_variant,,ENST00000472085,;HINT2,downstream_gene_variant,,ENST00000490578,;SPAG8,upstream_gene_variant,,ENST00000489063,;HINT2,downstream_gene_variant,,ENST00000471774,;SPAG8,upstream_gene_variant,,ENST00000479751,;HINT2,downstream_gene_variant,,ENST00000461169,;SPAG8,missense_variant,p.Thr74Ala,ENST00000475644,;SPAG8,missense_variant,p.Thr74Ala,ENST00000472605,;SPAG8,intron_variant,,ENST00000471631,;SPAG8,intron_variant,,ENST00000495667,;SPAG8,upstream_gene_variant,,ENST00000460836,;NPR2,downstream_gene_variant,,ENST00000448821,;FAM221B,downstream_gene_variant,,ENST00000388950,;NPR2,downstream_gene_variant,,ENST00000464810,;NPR2,downstream_gene_variant,,ENST00000469249,;	C	ENSG00000137098	ENST00000340291	Transcript	missense_variant	345	220	74	T/A	Aca/Gca	rs11559133	.	.	-1	SPAG8	HGNC	14105	protein_coding	YES	CCDS6592.1	ENSP00000340982	SPAG8_HUMAN	F8WBP3_HUMAN	UPI000013E78B	.	tolerated_low_confidence(0.42)	unknown(0)	2/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15510	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTGTAGATA	.	5	BLCA
POLR1E	0	.	GRCh37	9	37495923	37495923	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.692C>T	p.Pro231Leu	p.P231L	ENST00000377798	8/12	73	45	28	80	80	0	POLR1E,missense_variant,p.Pro161Leu,ENST00000442009,;POLR1E,missense_variant,p.Pro231Leu,ENST00000377798,;POLR1E,missense_variant,p.Pro293Leu,ENST00000377792,;	T	ENSG00000137054	ENST00000377798	Transcript	missense_variant	805	692	231	P/L	cCa/cTa	.	.	.	1	POLR1E	HGNC	17631	protein_coding	YES	CCDS6611.1	ENSP00000367029	RPA49_HUMAN	.	UPI00000467F3	.	deleterious(0.01)	benign(0.236)	8/12	.	Pfam_domain:PF06870,hmmpanther:PTHR14440	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCCATCTG	.	5	BLCA
EXOSC3	0	.	GRCh37	9	37782096	37782096	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.513T>C	p.%3D	p.N171N	ENST00000327304	3/4	54	37	17	69	69	0	EXOSC3,synonymous_variant,p.%3D,ENST00000327304,;EXOSC3,intron_variant,,ENST00000396521,;TRMT10B,downstream_gene_variant,,ENST00000377753,;TRMT10B,downstream_gene_variant,,ENST00000377754,;TRMT10B,downstream_gene_variant,,ENST00000537911,;TRMT10B,downstream_gene_variant,,ENST00000297994,;EXOSC3,non_coding_transcript_exon_variant,,ENST00000482614,;EXOSC3,non_coding_transcript_exon_variant,,ENST00000489414,;EXOSC3,intron_variant,,ENST00000490516,;EXOSC3,non_coding_transcript_exon_variant,,ENST00000465860,;RP11-613M10.9,intron_variant,,ENST00000540557,;EXOSC3,intron_variant,,ENST00000465229,;EXOSC3,downstream_gene_variant,,ENST00000496910,;TRMT10B,downstream_gene_variant,,ENST00000488673,;	G	ENSG00000107371	ENST00000327304	Transcript	synonymous_variant	526	513	171	N	aaT/aaC	.	.	.	-1	EXOSC3	HGNC	17944	protein_coding	YES	CCDS35016.1	ENSP00000323046	EXOS3_HUMAN	.	UPI0000134936	.	.	.	3/4	.	Superfamily_domains:SSF50249,hmmpanther:PTHR21321,hmmpanther:PTHR21321:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTTTATTAGC	.	3	BLCA
CNTNAP3	0	.	GRCh37	9	39149841	39149841	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1611C>T	p.%3D	p.F537F	ENST00000297668	10/24	18	11	7	10	10	0	CNTNAP3,synonymous_variant,p.%3D,ENST00000358144,;CNTNAP3,synonymous_variant,p.%3D,ENST00000297668,;CNTNAP3,synonymous_variant,p.%3D,ENST00000377656,;CNTNAP3,synonymous_variant,p.%3D,ENST00000377659,;CNTNAP3,intron_variant,,ENST00000323947,;CNTNAP3,intron_variant,,ENST00000443583,;RP11-290L7.2,upstream_gene_variant,,ENST00000453646,;	A	ENSG00000106714	ENST00000297668	Transcript	synonymous_variant	1685	1611	537	F	ttC/ttT	.	.	.	-1	CNTNAP3	HGNC	13834	protein_coding	YES	CCDS6616.1	ENSP00000297668	CNTP3_HUMAN	.	UPI000013E43B	.	.	.	10/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF612,hmmpanther:PTHR10127,Gene3D:2.60.120.200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	TCCCTGAAACT	.	3	BLCA
SLC1A1	0	.	GRCh37	9	4490673	4490673	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-7G>A	.	.	ENST00000262352	1/12	8	5	3	18	18	0	SLC1A1,5_prime_UTR_variant,,ENST00000262352,;	A	ENSG00000106688	ENST00000262352	Transcript	5_prime_UTR_variant	230	.	.	.	.	.	.	.	1	SLC1A1	HGNC	10939	protein_coding	YES	CCDS6452.1	ENSP00000262352	EAA3_HUMAN	.	UPI0000129B16	.	.	.	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGGCGACAGC	.	2	BLCA
AK3	0	.	GRCh37	9	4712977	4712977	+	Silent	SNP	C	C	T	rs375251919	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.683G>A	p.%3D	p.%3D	ENST00000381809	5/5	67	53	14	71	71	0	AK3,stop_retained_variant,p.%3D,ENST00000447596,;AK3,stop_retained_variant,p.%3D,ENST00000381809,;AK3,stop_retained_variant,p.%3D,ENST00000359883,;CDC37L1,downstream_gene_variant,,ENST00000381854,;	T	ENSG00000147853	ENST00000381809	Transcript	stop_retained_variant	914	683	228	*	tGa/tAa	rs375251919,COSM3907503	.	.	-1	AK3	HGNC	17376	protein_coding	YES	CCDS6455.1	ENSP00000371230	KAD3_HUMAN	.	UPI000013DAE5	.	.	.	5/5	.	.	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCATGGA	.	5	BLCA
ERMP1	0	.	GRCh37	9	5823987	5823987	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783C>T	p.%3D	p.F261F	ENST00000339450	4/15	40	34	6	42	42	0	ERMP1,synonymous_variant,p.%3D,ENST00000381506,;ERMP1,synonymous_variant,p.%3D,ENST00000339450,;ERMP1,non_coding_transcript_exon_variant,,ENST00000214893,;ERMP1,synonymous_variant,p.%3D,ENST00000489219,;ERMP1,synonymous_variant,p.%3D,ENST00000462592,;ERMP1,synonymous_variant,p.%3D,ENST00000487088,;ERMP1,non_coding_transcript_exon_variant,,ENST00000475005,;	A	ENSG00000099219	ENST00000339450	Transcript	synonymous_variant	873	783	261	F	ttC/ttT	.	.	.	-1	ERMP1	HGNC	23703	protein_coding	YES	CCDS34983.1	ENSP00000340427	ERMP1_HUMAN	D3DRI3_HUMAN	UPI00001D7694	.	.	.	4/15	.	hmmpanther:PTHR12147,hmmpanther:PTHR12147:SF6,Pfam_domain:PF04389,Gene3D:3.40.630.10,Superfamily_domains:SSF53187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAATGAAACC	.	5	BLCA
FAM122A	0	.	GRCh37	9	71395354	71395354	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.274G>A	p.Glu92Lys	p.E92K	ENST00000394264	1/1	82	60	21	105	105	0	FAM122A,missense_variant,p.Glu92Lys,ENST00000394264,;PIP5K1B,intron_variant,,ENST00000437200,;PIP5K1B,intron_variant,,ENST00000377284,;PIP5K1B,intron_variant,,ENST00000440050,;PIP5K1B,intron_variant,,ENST00000541509,;PIP5K1B,intron_variant,,ENST00000265382,;PIP5K1B,intron_variant,,ENST00000472907,;PIP5K1B,intron_variant,,ENST00000478500,;	A	ENSG00000187866	ENST00000394264	Transcript	missense_variant	391	274	92	E/K	Gag/Aag	.	.	.	1	FAM122A	HGNC	23490	protein_coding	YES	CCDS6623.1	ENSP00000377807	F122A_HUMAN	B4E242_HUMAN	UPI0000071E32	.	deleterious(0)	probably_damaging(0.975)	1/1	.	hmmpanther:PTHR22227:SF3,hmmpanther:PTHR22227	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGAGGGC	.	5	BLCA
PIP5K1B	0	.	GRCh37	9	71606056	71606056	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1503C>A	p.Ser501Arg	p.S501R	ENST00000265382	15/16	54	39	15	79	79	0	PIP5K1B,missense_variant,p.Ser501Arg,ENST00000265382,;PIP5K1B,intron_variant,,ENST00000541509,;PIP5K1B,splice_region_variant,,ENST00000478500,;	A	ENSG00000107242	ENST00000265382	Transcript	missense_variant	1808	1503	501	S/R	agC/agA	.	.	.	1	PIP5K1B	HGNC	8995	protein_coding	YES	CCDS6624.1	ENSP00000265382	PI51B_HUMAN	Q7KYT6_HUMAN,Q7KYT4_HUMAN,B4DIG7_HUMAN	UPI000002E327	.	tolerated_low_confidence(0.26)	benign(0.001)	15/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAGCAAAGG	.	5	BLCA
MAMDC2	0	.	GRCh37	9	72658989	72658989	+	5'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-125C>T	.	.	ENST00000377182	1/14	8	4	4	11	11	0	MAMDC2,5_prime_UTR_variant,,ENST00000377182,;	T	ENSG00000165072	ENST00000377182	Transcript	5_prime_UTR_variant	493	.	.	.	.	.	.	.	1	MAMDC2	HGNC	23673	protein_coding	YES	CCDS6631.1	ENSP00000366387	MAMC2_HUMAN	.	UPI000013E44F	.	.	.	1/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCCTCTCGAC	.	2	BLCA
TMEM2	0	.	GRCh37	9	74345658	74345658	+	Missense_Mutation	SNP	G	G	A	rs138676811	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1736C>T	p.Ser579Leu	p.S579L	ENST00000377044	8/24	36	28	7	59	59	0	TMEM2,missense_variant,p.Ser516Leu,ENST00000377066,;TMEM2,missense_variant,p.Ser579Leu,ENST00000377044,;TMEM2,missense_variant,p.Ser579Leu,ENST00000542935,;TMEM2,non_coding_transcript_exon_variant,,ENST00000546219,;	A	ENSG00000135048	ENST00000377044	Transcript	missense_variant	2276	1736	579	S/L	tCa/tTa	rs138676811	.	.	-1	TMEM2	HGNC	11869	protein_coding	YES	CCDS6638.1	ENSP00000366243	TMEM2_HUMAN	F5H6B2_HUMAN,B4E1B9_HUMAN,B3KNL9_HUMAN	UPI0000071E8D	.	deleterious(0)	benign(0.441)	8/24	.	hmmpanther:PTHR15535,hmmpanther:PTHR15535:SF17,Superfamily_domains:SSF51126	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTGAGAAG	byCluster|by1000G	5	BLCA
TMC1	0	.	GRCh37	9	75309531	75309531	+	Missense_Mutation	SNP	G	G	A	rs753879286	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.137G>A	p.Arg46Lys	p.R46K	ENST00000297784	7/24	25	18	7	29	29	0	TMC1,missense_variant,p.Arg46Lys,ENST00000297784,;TMC1,missense_variant,p.Arg46Lys,ENST00000340019,;TMC1,missense_variant,p.Arg46Lys,ENST00000396237,;	A	ENSG00000165091	ENST00000297784	Transcript	missense_variant	677	137	46	R/K	aGa/aAa	rs753879286	.	.	1	TMC1	HGNC	16513	protein_coding	YES	CCDS6643.1	ENSP00000297784	TMC1_HUMAN	.	UPI0000161FA9	.	tolerated_low_confidence(0.39)	benign(0.364)	7/24	.	hmmpanther:PTHR23302,hmmpanther:PTHR23302:SF18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCAGAGATG	.	5	BLCA
ALDH1A1	0	.	GRCh37	9	75531860	75531860	+	Silent	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1011C>A	p.%3D	p.T337T	ENST00000297785	9/13	46	31	15	70	70	0	ALDH1A1,synonymous_variant,p.%3D,ENST00000297785,;ALDH1A1,downstream_gene_variant,,ENST00000376939,;	T	ENSG00000165092	ENST00000297785	Transcript	synonymous_variant	1066	1011	337	T	acC/acA	.	.	.	-1	ALDH1A1	HGNC	402	protein_coding	YES	CCDS6644.1	ENSP00000297785	AL1A1_HUMAN	Q5SYQ8_HUMAN,Q5SYQ7_HUMAN,B4DDF8_HUMAN	UPI0000000DC0	.	.	.	9/13	.	hmmpanther:PTHR11699,hmmpanther:PTHR11699:SF140,Pfam_domain:PF00171,Gene3D:3.40.309.10,Superfamily_domains:SSF53720	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGGGGTCAG	.	5	BLCA
OSTF1	0	.	GRCh37	9	77742513	77742513	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.110A>G	p.Asp37Gly	p.D37G	ENST00000346234	3/10	46	26	19	56	56	0	OSTF1,missense_variant,p.Asp37Gly,ENST00000346234,;	G	ENSG00000134996	ENST00000346234	Transcript	missense_variant	260	110	37	D/G	gAt/gGt	.	.	.	1	OSTF1	HGNC	8510	protein_coding	YES	CCDS6651.1	ENSP00000340836	OSTF1_HUMAN	.	UPI0000210B5F	.	deleterious(0.02)	probably_damaging(1)	3/10	.	PROSITE_profiles:PS50002,hmmpanther:PTHR24155,hmmpanther:PTHR24155:SF10,Pfam_domain:PF00018,Gene3D:2.30.30.40,SMART_domains:SM00326,Superfamily_domains:SSF50044,Prints_domain:PR00499,Prints_domain:PR00499,Prints_domain:PR00452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTGATATTA	.	5	BLCA
PCSK5	0	.	GRCh37	9	78506107	78506107	+	Missense_Mutation	SNP	G	G	A	rs745717582	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10G>A	p.Gly4Arg	p.G4R	ENST00000545128	1/37	21	13	7	25	25	0	PCSK5,missense_variant,p.Gly4Arg,ENST00000376767,;PCSK5,missense_variant,p.Gly4Arg,ENST00000376752,;PCSK5,missense_variant,p.Gly4Arg,ENST00000545128,;	A	ENSG00000099139	ENST00000545128	Transcript	missense_variant	548	10	4	G/R	Ggg/Agg	rs745717582	.	.	1	PCSK5	HGNC	8747	protein_coding	YES	CCDS55320.1	ENSP00000446280	PCSK5_HUMAN	I0EZ71_HUMAN	UPI0001DAD817	.	tolerated_low_confidence(0.31)	benign(0.003)	1/37	.	Cleavage_site_(Signalp):SignalP-TM,PROSITE_profiles:PS51257,hmmpanther:PTHR10795,hmmpanther:PTHR10795:SF327	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGGGGGAGC	.	5	BLCA
TLE1	0	.	GRCh37	9	84202598	84202598	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1975C>T	p.Gln659Ter	p.Q659*	ENST00000376499	17/20	30	25	4	35	35	0	TLE1,stop_gained,p.Gln659Ter,ENST00000376499,;	A	ENSG00000196781	ENST00000376499	Transcript	stop_gained	3040	1975	659	Q/*	Cag/Tag	.	.	.	-1	TLE1	HGNC	11837	protein_coding	YES	CCDS6661.1	ENSP00000365682	TLE1_HUMAN	.	UPI0000137034	.	.	.	17/20	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR10814	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTGGGAGG	.	2	BLCA
SPATA31D1	0	.	GRCh37	9	84603809	84603809	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.76G>A	p.Asp26Asn	p.D26N	ENST00000344803	1/4	77	61	16	98	97	0	SPATA31D1,missense_variant,p.Asp26Asn,ENST00000344803,;SPATA31D1,non_coding_transcript_exon_variant,,ENST00000603921,;	A	ENSG00000214929	ENST00000344803	Transcript	missense_variant	123	76	26	D/N	Gac/Aac	COSM244554	.	.	1	SPATA31D1	HGNC	37283	protein_coding	YES	CCDS47986.1	ENSP00000341988	S31D1_HUMAN	.	UPI00001C10A6	.	tolerated_low_confidence(0.21)	probably_damaging(0.983)	1/4	.	hmmpanther:PTHR21859:SF12,hmmpanther:PTHR21859	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ATATCGACCCC	.	4	BLCA
AGTPBP1	0	.	GRCh37	9	88193929	88193929	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3128C>A	p.Ser1043Tyr	p.S1043Y	ENST00000376083	24/26	82	52	29	89	89	0	AGTPBP1,missense_variant,p.Ser1083Tyr,ENST00000357081,;AGTPBP1,missense_variant,p.Ser1043Tyr,ENST00000376083,;AGTPBP1,missense_variant,p.Ser1095Tyr,ENST00000376109,;AGTPBP1,3_prime_UTR_variant,,ENST00000337006,;AGTPBP1,intron_variant,,ENST00000432218,;AGTPBP1,non_coding_transcript_exon_variant,,ENST00000489265,;	T	ENSG00000135049	ENST00000376083	Transcript	missense_variant	3205	3128	1043	S/Y	tCc/tAc	.	.	.	-1	AGTPBP1	HGNC	17258	protein_coding	YES	CCDS6672.1	ENSP00000365251	CBPC1_HUMAN	.	UPI000013CF66	.	deleterious(0)	probably_damaging(0.951)	24/26	.	Superfamily_domains:SSF53187,Pfam_domain:PF00246,hmmpanther:PTHR12756:SF2,hmmpanther:PTHR12756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGGATTCT	.	5	BLCA
GOLM1	0	.	GRCh37	9	88661428	88661428	+	Nonsense_Mutation	SNP	G	G	A	rs769644477	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424C>T	p.Gln142Ter	p.Q142*	ENST00000388712	5/10	24	14	9	20	20	0	GOLM1,stop_gained,p.Gln142Ter,ENST00000388712,;GOLM1,stop_gained,p.Gln142Ter,ENST00000388711,;GOLM1,non_coding_transcript_exon_variant,,ENST00000257504,;GOLM1,3_prime_UTR_variant,,ENST00000472919,;GOLM1,3_prime_UTR_variant,,ENST00000470762,;	A	ENSG00000135052	ENST00000388712	Transcript	stop_gained	593	424	142	Q/*	Cag/Tag	rs769644477	.	.	-1	GOLM1	HGNC	15451	protein_coding	YES	CCDS35054.1	ENSP00000373364	GOLM1_HUMAN	C9JYM4_HUMAN,C9J941_HUMAN,B3KNK9_HUMAN	UPI000003B10E	.	.	.	5/10	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15896,hmmpanther:PTHR15896:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTGAAACT	.	5	BLCA
DMRT1	0	.	GRCh37	9	893925	893925	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.552C>T	p.%3D	p.V184V	ENST00000382276	3/5	78	58	20	79	79	0	DMRT1,synonymous_variant,p.%3D,ENST00000382276,;DMRT1,synonymous_variant,p.%3D,ENST00000569227,;DMRT1,non_coding_transcript_exon_variant,,ENST00000564322,;	T	ENSG00000137090	ENST00000382276	Transcript	synonymous_variant	701	552	184	V	gtC/gtT	.	.	.	1	DMRT1	HGNC	2934	protein_coding	YES	CCDS6442.1	ENSP00000371711	DMRT1_HUMAN	H3BN61_HUMAN	UPI00000008AC	.	.	.	3/5	.	hmmpanther:PTHR12322:SF64,hmmpanther:PTHR12322,Pfam_domain:PF12374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGTCATCCA	.	5	BLCA
DAPK1	0	.	GRCh37	9	90272959	90272959	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1840C>T	p.%3D	p.L614L	ENST00000408954	18/26	16	11	5	26	26	0	DAPK1,synonymous_variant,p.%3D,ENST00000358077,;DAPK1,synonymous_variant,p.%3D,ENST00000491893,;DAPK1,synonymous_variant,p.%3D,ENST00000408954,;DAPK1,synonymous_variant,p.%3D,ENST00000469640,;DAPK1,synonymous_variant,p.%3D,ENST00000472284,;DAPK1,non_coding_transcript_exon_variant,,ENST00000466188,;DAPK1,non_coding_transcript_exon_variant,,ENST00000494010,;DAPK1,3_prime_UTR_variant,,ENST00000489291,;	T	ENSG00000196730	ENST00000408954	Transcript	synonymous_variant	2175	1840	614	L	Ctg/Ttg	.	.	.	1	DAPK1	HGNC	2674	protein_coding	YES	CCDS43842.1	ENSP00000386135	DAPK1_HUMAN	.	UPI0000210C2F	.	.	.	18/26	.	Superfamily_domains:SSF48403,SMART_domains:SM00248,Gene3D:1.25.40.20,Pfam_domain:PF12796,hmmpanther:PTHR22964:SF54,hmmpanther:PTHR22964,PROSITE_profiles:PS50297,PROSITE_profiles:PS50088	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCTCTGCAC	.	5	BLCA
S1PR3	0	.	GRCh37	9	91616199	91616199	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.84G>A	p.%3D	p.L28L	ENST00000375846	1/1	69	50	19	98	98	0	S1PR3,synonymous_variant,p.%3D,ENST00000358157,;S1PR3,synonymous_variant,p.%3D,ENST00000375846,;	A	ENSG00000213694	ENST00000375846	Transcript	synonymous_variant	4779	84	28	L	ttG/ttA	.	.	.	1	S1PR3	HGNC	3167	protein_coding	YES	CCDS6680.1	ENSP00000365006	S1PR3_HUMAN	.	UPI0000140B93	.	.	.	1/1	.	hmmpanther:PTHR22750:SF24,hmmpanther:PTHR22750,Prints_domain:PR01524	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTGGCGGG	.	5	BLCA
SECISBP2	0	.	GRCh37	9	91934667	91934667	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.137C>T	p.Ser46Phe	p.S46F	ENST00000375807	2/17	124	81	42	129	129	0	SECISBP2,missense_variant,p.Ser46Phe,ENST00000375807,;SECISBP2,synonymous_variant,p.%3D,ENST00000339901,;SECISBP2,5_prime_UTR_variant,,ENST00000534113,;CKS2,downstream_gene_variant,,ENST00000314355,;SECISBP2,upstream_gene_variant,,ENST00000470305,;	T	ENSG00000187742	ENST00000375807	Transcript	missense_variant	208	137	46	S/F	tCt/tTt	.	.	.	1	SECISBP2	HGNC	30972	protein_coding	YES	CCDS6683.1	ENSP00000364965	SEBP2_HUMAN	Q9H948_HUMAN,Q7L1Z0_HUMAN,Q6AW84_HUMAN,F8W892_HUMAN	UPI00001AEA0A	.	tolerated(0.43)	benign(0.001)	2/17	.	hmmpanther:PTHR13284:SF9,hmmpanther:PTHR13284	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTCTGCAG	.	5	BLCA
SPTLC1	0	.	GRCh37	9	94794676	94794676	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*71G>A	.	.	ENST00000262554	15/15	24	17	7	21	21	0	SPTLC1,3_prime_UTR_variant,,ENST00000262554,;SPTLC1,non_coding_transcript_exon_variant,,ENST00000469778,;HSPE1P22,downstream_gene_variant,,ENST00000456856,;	T	ENSG00000090054	ENST00000262554	Transcript	3_prime_UTR_variant	1499	.	.	.	.	.	.	.	-1	SPTLC1	HGNC	11277	protein_coding	YES	CCDS6692.1	ENSP00000262554	SPTC1_HUMAN	B4DR90_HUMAN	UPI000012E27B	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|VARSCANS	CCACTCCATGG	.	3	BLCA
IARS	0	.	GRCh37	9	94984955	94984955	+	Splice_Site	SNP	C	C	G	rs755358633	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3554-1G>C	.	p.X1185_splice	ENST00000375643	.	111	105	5	114	114	0	IARS,splice_acceptor_variant,,ENST00000443024,;IARS,splice_acceptor_variant,,ENST00000375643,;IARS,splice_acceptor_variant,,ENST00000447699,;IARS,splice_acceptor_variant,,ENST00000375629,;	G	ENSG00000196305	ENST00000375643	Transcript	splice_acceptor_variant	.	.	.	.	.	rs755358633	.	.	-1	IARS	HGNC	5330	protein_coding	YES	CCDS6694.1	ENSP00000364794	SYIC_HUMAN	Q9P1N9_HUMAN,Q7L4K8_HUMAN,Q5TCD1_HUMAN,Q5TCC4_HUMAN,Q59G75_HUMAN,J3KR24_HUMAN	UPI0000141335	.	.	.	.	32/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACACTCTGTGG	.	2	BLCA
NOL8	0	.	GRCh37	9	95073484	95073484	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2416G>A	p.Glu806Lys	p.E806K	ENST00000545558	8/17	26	16	9	25	25	0	NOL8,missense_variant,p.Glu806Lys,ENST00000545558,;NOL8,missense_variant,p.Glu738Lys,ENST00000358855,;NOL8,missense_variant,p.Glu806Lys,ENST00000442668,;NOL8,missense_variant,p.Glu738Lys,ENST00000542053,;NOL8,missense_variant,p.Glu806Lys,ENST00000432670,;NOL8,intron_variant,,ENST00000535387,;NOL8,downstream_gene_variant,,ENST00000433029,;NOL8,downstream_gene_variant,,ENST00000411621,;NOL8,downstream_gene_variant,,ENST00000421075,;NOL8,downstream_gene_variant,,ENST00000535807,;NOL8,upstream_gene_variant,,ENST00000477862,;NOL8,missense_variant,p.Glu806Lys,ENST00000544867,;NOL8,synonymous_variant,p.%3D,ENST00000545444,;NOL8,3_prime_UTR_variant,,ENST00000360868,;NOL8,3_prime_UTR_variant,,ENST00000536593,;NOL8,3_prime_UTR_variant,,ENST00000434228,;NOL8,upstream_gene_variant,,ENST00000538802,;NOL8,downstream_gene_variant,,ENST00000445919,;NOL8,downstream_gene_variant,,ENST00000467230,;	T	ENSG00000198000	ENST00000545558	Transcript	missense_variant	2909	2416	806	E/K	Gaa/Aaa	.	.	.	-1	NOL8	HGNC	23387	protein_coding	YES	CCDS47993.1	ENSP00000441140	NOL8_HUMAN	F8WE42_HUMAN,F5H8B8_HUMAN,F5H7D5_HUMAN,F5H797_HUMAN,F5H692_HUMAN,F5H540_HUMAN,F5GWN9_HUMAN	UPI0000211A3D	.	deleterious(0)	possibly_damaging(0.489)	8/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16274,hmmpanther:PTHR16274:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTCACATT	.	5	BLCA
BICD2	0	.	GRCh37	9	95481546	95481546	+	Missense_Mutation	SNP	C	C	T	rs142503252	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1381G>A	p.Glu461Lys	p.E461K	ENST00000356884	5/7	35	26	9	41	41	0	BICD2,missense_variant,p.Glu461Lys,ENST00000375512,;BICD2,missense_variant,p.Glu461Lys,ENST00000356884,;	T	ENSG00000185963	ENST00000356884	Transcript	missense_variant	1449	1381	461	E/K	Gag/Aag	rs142503252	.	.	-1	BICD2	HGNC	17208	protein_coding	YES	CCDS35064.1	ENSP00000349351	BICD2_HUMAN	.	UPI00001BBAF1	.	tolerated(0.37)	benign(0.013)	5/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31233,hmmpanther:PTHR31233:SF7,Pfam_domain:PF09730	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCGTGCG	byCluster	5	BLCA
ZNF484	0	.	GRCh37	9	95610513	95610513	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>A	p.Glu188Lys	p.E188K	ENST00000395506	4/4	101	69	32	118	118	0	ZNF484,missense_variant,p.Glu188Lys,ENST00000395506,;ZNF484,missense_variant,p.Glu150Lys,ENST00000395505,;ZNF484,missense_variant,p.Glu150Lys,ENST00000332591,;ZNF484,missense_variant,p.Glu186Lys,ENST00000375495,;ANKRD19P,intron_variant,,ENST00000473204,;	T	ENSG00000127081	ENST00000395506	Transcript	missense_variant	658	562	188	E/K	Gag/Aag	COSM3413820	.	.	-1	ZNF484	HGNC	23385	protein_coding	YES	CCDS59136.1	ENSP00000378882	ZN484_HUMAN	.	UPI00017A7C2E	.	tolerated(1)	benign(0)	4/4	.	hmmpanther:PTHR24377:SF144,hmmpanther:PTHR24377	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCTCCAAAT	.	5	BLCA
FAM120A	0	.	GRCh37	9	96214485	96214485	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.288C>T	p.%3D	p.F96F	ENST00000277165	1/18	18	10	7	21	21	0	FAM120A,synonymous_variant,p.%3D,ENST00000340893,;FAM120A,synonymous_variant,p.%3D,ENST00000333936,;FAM120AOS,synonymous_variant,p.%3D,ENST00000375412,;FAM120A,synonymous_variant,p.%3D,ENST00000375389,;FAM120A,synonymous_variant,p.%3D,ENST00000277165,;FAM120AOS,upstream_gene_variant,,ENST00000428378,;FAM120A,upstream_gene_variant,,ENST00000446420,;FAM120AOS,upstream_gene_variant,,ENST00000423591,;FAM120AOS,intron_variant,,ENST00000520470,;FAM120AOS,intron_variant,,ENST00000483149,;FAM120AOS,upstream_gene_variant,,ENST00000428152,;FAM120AOS,upstream_gene_variant,,ENST00000483056,;FAM120AOS,upstream_gene_variant,,ENST00000520403,;FAM120AOS,upstream_gene_variant,,ENST00000523407,;FAM120AOS,upstream_gene_variant,,ENST00000479094,;FAM120AOS,upstream_gene_variant,,ENST00000476484,;	T	ENSG00000048828	ENST00000277165	Transcript	synonymous_variant	482	288	96	F	ttC/ttT	.	.	.	1	FAM120A	HGNC	13247	protein_coding	YES	CCDS6706.1	ENSP00000277165	F120A_HUMAN	.	UPI0000211A83	.	.	.	1/18	.	hmmpanther:PTHR15976,hmmpanther:PTHR15976:SF14,Superfamily_domains:SSF88723	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCAACGG	.	5	BLCA
FAM120A	0	.	GRCh37	9	96233572	96233572	+	Silent	SNP	C	C	T	rs147270846	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624C>T	p.%3D	p.N208N	ENST00000277165	2/18	63	59	4	78	78	0	FAM120A,synonymous_variant,p.%3D,ENST00000375389,;FAM120A,synonymous_variant,p.%3D,ENST00000340893,;FAM120A,synonymous_variant,p.%3D,ENST00000446420,;FAM120A,synonymous_variant,p.%3D,ENST00000333936,;FAM120A,synonymous_variant,p.%3D,ENST00000277165,;	T	ENSG00000048828	ENST00000277165	Transcript	synonymous_variant	818	624	208	N	aaC/aaT	rs147270846	.	.	1	FAM120A	HGNC	13247	protein_coding	YES	CCDS6706.1	ENSP00000277165	F120A_HUMAN	.	UPI0000211A83	.	.	.	2/18	.	hmmpanther:PTHR15976,hmmpanther:PTHR15976:SF14,Superfamily_domains:SSF88723	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGAACGGGAA	byCluster	2	BLCA
GPRASP1	0	.	GRCh37	X	101911249	101911249	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2408T>C	p.Leu803Pro	p.L803P	ENST00000537097	6/6	59	52	7	155	155	0	GPRASP1,missense_variant,p.Leu803Pro,ENST00000415986,;GPRASP1,missense_variant,p.Leu803Pro,ENST00000361600,;GPRASP1,missense_variant,p.Leu803Pro,ENST00000537097,;GPRASP1,missense_variant,p.Leu803Pro,ENST00000444152,;RP4-769N13.7,intron_variant,,ENST00000602441,;RP4-769N13.6,intron_variant,,ENST00000486740,;RP4-769N13.6,intron_variant,,ENST00000602463,;RP4-769N13.6,intron_variant,,ENST00000602366,;GPRASP1,downstream_gene_variant,,ENST00000466098,;	C	ENSG00000198932	ENST00000537097	Transcript	missense_variant	3221	2408	803	L/P	cTa/cCa	.	.	.	1	GPRASP1	HGNC	24834	protein_coding	YES	CCDS35352.1	ENSP00000445683	GASP1_HUMAN	.	UPI0000073B80	.	tolerated(0.21)	possibly_damaging(0.562)	6/6	.	hmmpanther:PTHR15712:SF22,hmmpanther:PTHR15712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGCTAGCAG	.	4	BLCA
GPRASP1	0	.	GRCh37	X	101912201	101912201	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3360G>A	p.%3D	p.R1120R	ENST00000537097	6/6	100	92	8	136	136	0	GPRASP1,synonymous_variant,p.%3D,ENST00000415986,;GPRASP1,synonymous_variant,p.%3D,ENST00000361600,;GPRASP1,synonymous_variant,p.%3D,ENST00000537097,;GPRASP1,synonymous_variant,p.%3D,ENST00000444152,;RP4-769N13.7,intron_variant,,ENST00000602441,;RP4-769N13.6,intron_variant,,ENST00000486740,;RP4-769N13.6,intron_variant,,ENST00000602463,;RP4-769N13.6,intron_variant,,ENST00000602366,;GPRASP1,downstream_gene_variant,,ENST00000466098,;	A	ENSG00000198932	ENST00000537097	Transcript	synonymous_variant	4173	3360	1120	R	agG/agA	.	.	.	1	GPRASP1	HGNC	24834	protein_coding	YES	CCDS35352.1	ENSP00000445683	GASP1_HUMAN	.	UPI0000073B80	.	.	.	6/6	.	hmmpanther:PTHR15712:SF22,hmmpanther:PTHR15712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACAGGTCAGT	.	2	BLCA
TMSB15B	0	.	GRCh37	X	103216745	103216745	+	5'Flank	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000436583	.	14	5	9	31	31	0	TMSB15B,5_prime_UTR_variant,,ENST00000419165,;TMSB15B,upstream_gene_variant,,ENST00000569577,;TMSB15B,upstream_gene_variant,,ENST00000563257,;TMSB15B,upstream_gene_variant,,ENST00000540220,;TMSB15B,upstream_gene_variant,,ENST00000567181,;TMSB15B,upstream_gene_variant,,ENST00000436583,;DPPA3P1,non_coding_transcript_exon_variant,,ENST00000451146,;DPPA3P1,non_coding_transcript_exon_variant,,ENST00000448050,;	T	ENSG00000158427	ENST00000436583	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	497	1	TMSB15B	HGNC	28612	protein_coding	YES	CCDS59172.1	ENSP00000455771	TB15B_HUMAN	.	UPI000004716D	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	AGGTTCTTTAT	.	4	BLCA
RNF128	0	.	GRCh37	X	105937479	105937479	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.166G>A	p.Glu56Lys	p.E56K	ENST00000418562	2/6	48	26	21	72	72	0	RNF128,missense_variant,p.Glu56Lys,ENST00000418562,;RNF128,missense_variant,p.Glu83Lys,ENST00000324342,;	A	ENSG00000133135	ENST00000418562	Transcript	missense_variant	257	166	56	E/K	Gag/Aag	.	.	.	1	RNF128	HGNC	21153	protein_coding	.	.	ENSP00000412610	.	Q5JSK4_HUMAN	UPI00004A0D87	.	tolerated(0.63)	benign(0.003)	2/6	.	hmmpanther:PTHR22765:SF30,hmmpanther:PTHR22765,Pfam_domain:PF02225	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTGAGTTT	.	5	BLCA
GUCY2F	0	.	GRCh37	X	108631750	108631750	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2924T>C	p.Val975Ala	p.V975A	ENST00000218006	15/20	121	113	7	237	237	0	GUCY2F,missense_variant,p.Val975Ala,ENST00000218006,;	G	ENSG00000101890	ENST00000218006	Transcript	missense_variant	3216	2924	975	V/A	gTg/gCg	.	.	.	-1	GUCY2F	HGNC	4691	protein_coding	YES	CCDS14545.1	ENSP00000218006	GUC2F_HUMAN	.	UPI000013C740	.	deleterious(0.02)	probably_damaging(0.994)	15/20	.	PROSITE_profiles:PS50125,hmmpanther:PTHR11920:SF278,hmmpanther:PTHR11920,Pfam_domain:PF00211,Gene3D:3.30.70.1230,SMART_domains:SM00044,Superfamily_domains:SSF55073	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGGCACTTCT	.	2	BLCA
GUCY2F	0	.	GRCh37	X	108652227	108652227	+	Silent	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1962C>G	p.%3D	p.L654L	ENST00000218006	9/20	56	36	19	123	123	0	GUCY2F,synonymous_variant,p.%3D,ENST00000218006,;	C	ENSG00000101890	ENST00000218006	Transcript	synonymous_variant	2254	1962	654	L	ctC/ctG	.	.	.	-1	GUCY2F	HGNC	4691	protein_coding	YES	CCDS14545.1	ENSP00000218006	GUC2F_HUMAN	.	UPI000013C740	.	.	.	9/20	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11920:SF278,hmmpanther:PTHR11920,Pfam_domain:PF07714,Gene3D:1.10.510.10,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATGAGATC	.	5	BLCA
NXT2	0	.	GRCh37	X	108781313	108781313	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.220G>A	p.Glu74Lys	p.E74K	ENST00000218004	3/5	105	65	39	144	144	0	NXT2,missense_variant,p.Glu74Lys,ENST00000218004,;NXT2,missense_variant,p.Glu19Lys,ENST00000372106,;NXT2,5_prime_UTR_variant,,ENST00000372107,;NXT2,5_prime_UTR_variant,,ENST00000372103,;	A	ENSG00000101888	ENST00000218004	Transcript	missense_variant	322	220	74	E/K	Gag/Aag	.	.	.	1	NXT2	HGNC	18151	protein_coding	YES	CCDS14546.1	ENSP00000218004	NXT2_HUMAN	.	UPI000013C73F	.	deleterious(0)	possibly_damaging(0.702)	3/5	.	PROSITE_profiles:PS50177,hmmpanther:PTHR12612,hmmpanther:PTHR12612:SF1,Gene3D:3.10.450.50,Pfam_domain:PF02136,Superfamily_domains:SSF54427	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGGAG	.	5	BLCA
CAPN6	0	.	GRCh37	X	110492174	110492174	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1270G>C	p.Glu424Gln	p.E424Q	ENST00000324068	9/13	87	57	29	195	195	0	CAPN6,missense_variant,p.Glu424Gln,ENST00000324068,;CAPN6,missense_variant,p.Glu169Gln,ENST00000541758,;	G	ENSG00000077274	ENST00000324068	Transcript	missense_variant	1438	1270	424	E/Q	Gag/Cag	.	.	.	-1	CAPN6	HGNC	1483	protein_coding	YES	CCDS14555.1	ENSP00000317214	CAN6_HUMAN	F5GWQ6_HUMAN	UPI0000126EA1	.	tolerated(0.12)	probably_damaging(0.913)	9/13	.	hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF281,Pfam_domain:PF01067,Gene3D:2.60.120.380,SMART_domains:SM00720,Superfamily_domains:SSF49758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCAAAGC	.	5	BLCA
ARHGAP6	0	.	GRCh37	X	11161892	11161892	+	Intron	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2176+208C>T	.	.	ENST00000337414	.	19	11	8	53	53	0	ARHGAP6,3_prime_UTR_variant,,ENST00000380718,;ARHGAP6,3_prime_UTR_variant,,ENST00000380717,;ARHGAP6,intron_variant,,ENST00000534860,;ARHGAP6,intron_variant,,ENST00000337414,;ARHGAP6,intron_variant,,ENST00000303025,;ARHGAP6,intron_variant,,ENST00000380736,;ARHGAP6,downstream_gene_variant,,ENST00000380732,;ARHGAP6,downstream_gene_variant,,ENST00000413512,;ARHGAP6,non_coding_transcript_exon_variant,,ENST00000489330,;ARHGAP6,intron_variant,,ENST00000495242,;	A	ENSG00000047648	ENST00000337414	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ARHGAP6	HGNC	676	protein_coding	YES	CCDS14140.1	ENSP00000338967	RHG06_HUMAN	B4DN35_HUMAN	UPI00001AED54	.	.	.	.	11/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGGGACCCT	.	5	BLCA
ZCCHC16	0	.	GRCh37	X	111698169	111698169	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.213C>G	p.Cys71Trp	p.C71W	ENST00000340433	1/1	59	54	5	115	115	0	ZCCHC16,missense_variant,p.Cys71Trp,ENST00000340433,;	G	ENSG00000187823	ENST00000340433	Transcript	missense_variant	443	213	71	C/W	tgC/tgG	.	.	.	1	ZCCHC16	HGNC	25214	protein_coding	YES	CCDS35369.1	ENSP00000340590	ZCH16_HUMAN	.	UPI00001975B5	.	deleterious(0.03)	benign(0.002)	1/1	.	hmmpanther:PTHR15503,hmmpanther:PTHR15503:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F74F|c.222C>T|3	MUTECT|MUSE|VARSCANS	AATTGCTCAGA	.	3	BLCA
ARHGAP6	0	.	GRCh37	X	11272783	11272783	+	Silent	SNP	C	C	T	rs780933990	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.633G>A	p.%3D	p.L211L	ENST00000337414	2/13	35	22	13	68	68	0	ARHGAP6,synonymous_variant,p.%3D,ENST00000380718,;ARHGAP6,synonymous_variant,p.%3D,ENST00000380717,;ARHGAP6,synonymous_variant,p.%3D,ENST00000534860,;ARHGAP6,synonymous_variant,p.%3D,ENST00000337414,;ARHGAP6,synonymous_variant,p.%3D,ENST00000303025,;ARHGAP6,synonymous_variant,p.%3D,ENST00000380732,;ARHGAP6,synonymous_variant,p.%3D,ENST00000380736,;ARHGAP6,synonymous_variant,p.%3D,ENST00000413512,;ARHGAP6,synonymous_variant,p.%3D,ENST00000495242,;ARHGAP6,non_coding_transcript_exon_variant,,ENST00000489330,;	T	ENSG00000047648	ENST00000337414	Transcript	synonymous_variant	1506	633	211	L	ctG/ctA	rs780933990,COSM3843265,COSM3843266,COSM3843267	.	.	-1	ARHGAP6	HGNC	676	protein_coding	YES	CCDS14140.1	ENSP00000338967	RHG06_HUMAN	B4DN35_HUMAN	UPI00001AED54	.	.	.	2/13	.	hmmpanther:PTHR12635,hmmpanther:PTHR12635:SF3	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCAGCCG	byFrequency	5	BLCA
PLS3	0	.	GRCh37	X	114874780	114874780	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952G>A	p.Glu318Lys	p.E318K	ENST00000420625	9/16	61	44	17	97	97	0	PLS3,missense_variant,p.Glu282Lys,ENST00000289290,;PLS3,missense_variant,p.Glu318Lys,ENST00000420625,;PLS3,missense_variant,p.Glu318Lys,ENST00000355899,;PLS3,missense_variant,p.Glu305Lys,ENST00000537301,;PLS3,missense_variant,p.Glu273Lys,ENST00000539310,;PLS3,missense_variant,p.Glu39Lys,ENST00000497870,;PLS3,5_prime_UTR_variant,,ENST00000543070,;PLS3,3_prime_UTR_variant,,ENST00000481823,;PLS3,non_coding_transcript_exon_variant,,ENST00000466150,;	A	ENSG00000102024	ENST00000420625	Transcript	missense_variant	1086	952	318	E/K	Gaa/Aaa	.	.	.	1	PLS3	HGNC	9091	protein_coding	YES	CCDS14568.1	ENSP00000398945	PLST_HUMAN	Q96HI1_HUMAN,B7Z6M1_HUMAN,B4DI60_HUMAN,B4DG31_HUMAN	UPI000000D962	.	tolerated(0.87)	benign(0.002)	9/16	.	PROSITE_profiles:PS50021,hmmpanther:PTHR19961:SF32,hmmpanther:PTHR19961,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTGAACCA	.	5	BLCA
XIAP	0	.	GRCh37	X	123022477	123022477	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.886G>A	p.Asp296Asn	p.D296N	ENST00000371199	3/7	37	21	15	83	83	0	XIAP,missense_variant,p.Asp296Asn,ENST00000434753,;XIAP,missense_variant,p.Asp296Asn,ENST00000355640,;XIAP,missense_variant,p.Asp296Asn,ENST00000371199,;XIAP,downstream_gene_variant,,ENST00000422098,;XIAP,downstream_gene_variant,,ENST00000430625,;XIAP,non_coding_transcript_exon_variant,,ENST00000497906,;XIAP,non_coding_transcript_exon_variant,,ENST00000468503,;XIAP,non_coding_transcript_exon_variant,,ENST00000468691,;XIAP,non_coding_transcript_exon_variant,,ENST00000497640,;XIAP,non_coding_transcript_exon_variant,,ENST00000481776,;	A	ENSG00000101966	ENST00000371199	Transcript	missense_variant	1185	886	296	D/N	Gat/Aat	.	.	.	1	XIAP	HGNC	592	protein_coding	YES	CCDS14606.1	ENSP00000360242	XIAP_HUMAN	B1AKU2_HUMAN	UPI000000162A	.	deleterious(0)	probably_damaging(1)	3/7	.	PROSITE_profiles:PS50143,hmmpanther:PTHR10044:SF10,hmmpanther:PTHR10044,PROSITE_patterns:PS01282,Gene3D:1.10.1170.10,Pfam_domain:PF00653,SMART_domains:SM00238,Superfamily_domains:SSF57924	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGTGATAAA	.	5	BLCA
TENM1	0	.	GRCh37	X	123540312	123540312	+	Silent	SNP	A	A	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5010T>C	p.%3D	p.N1670N	ENST00000422452	26/32	88	56	31	156	156	0	TENM1,synonymous_variant,p.%3D,ENST00000422452,;TENM1,synonymous_variant,p.%3D,ENST00000371130,;STAG2,intron_variant,,ENST00000469481,;	G	ENSG00000009694	ENST00000422452	Transcript	synonymous_variant	5074	5010	1670	N	aaT/aaC	.	.	.	-1	TENM1	HGNC	8117	protein_coding	YES	CCDS55488.1	ENSP00000403954	TEN1_HUMAN	G3CAS6_HUMAN,B7ZMH4_HUMAN	UPI0000211B6A	.	.	.	26/32	.	hmmpanther:PTHR11219:SF7,hmmpanther:PTHR11219,Gene3D:2.120.10.30,TIGRFAM_domain:TIGR01643	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGCATTGGT	.	5	BLCA
ELF4	0	.	GRCh37	X	129200688	129200688	+	3'UTR	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*8G>T	.	.	ENST00000308167	9/9	98	50	48	146	146	0	ELF4,3_prime_UTR_variant,,ENST00000335997,;ELF4,3_prime_UTR_variant,,ENST00000308167,;	A	ENSG00000102034	ENST00000308167	Transcript	3_prime_UTR_variant	2380	.	.	.	.	.	.	.	-1	ELF4	HGNC	3319	protein_coding	YES	CCDS14617.1	ENSP00000311280	ELF4_HUMAN	B1AL80_HUMAN	UPI0000072B32	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACCCCTTT	.	5	BLCA
ELF4	0	.	GRCh37	X	129200774	129200774	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1914G>A	p.%3D	p.L638L	ENST00000308167	9/9	91	51	40	149	149	0	ELF4,synonymous_variant,p.%3D,ENST00000335997,;ELF4,synonymous_variant,p.%3D,ENST00000308167,;	T	ENSG00000102034	ENST00000308167	Transcript	synonymous_variant	2294	1914	638	L	ctG/ctA	.	.	.	-1	ELF4	HGNC	3319	protein_coding	YES	CCDS14617.1	ENSP00000311280	ELF4_HUMAN	B1AL80_HUMAN	UPI0000072B32	.	.	.	9/9	.	hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF170	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGTCAGAAG	.	5	BLCA
MST4	0	.	GRCh37	X	131205217	131205217	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.904G>A	p.Asp302Asn	p.D302N	ENST00000394334	8/12	96	89	7	139	139	0	MST4,missense_variant,p.Asp302Asn,ENST00000394334,;MST4,missense_variant,p.Asp240Asn,ENST00000496850,;MST4,missense_variant,p.Asp225Asn,ENST00000394335,;MST4,missense_variant,p.Asp324Asn,ENST00000481105,;MST4,missense_variant,p.Asp302Asn,ENST00000354719,;	A	ENSG00000134602	ENST00000394334	Transcript	missense_variant	1157	904	302	D/N	Gat/Aat	.	.	.	1	MST4	Uniprot_gn	.	protein_coding	YES	CCDS14631.1	ENSP00000377867	MST4_HUMAN	Q96SR7_HUMAN	UPI0000030CB8	.	tolerated(0.09)	benign(0.001)	8/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24361:SF206,hmmpanther:PTHR24361,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGATGATGAA	.	2	BLCA
FRMD7	0	.	GRCh37	X	131216533	131216533	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763G>A	p.Glu255Lys	p.E255K	ENST00000298542	9/12	129	73	56	221	221	0	FRMD7,missense_variant,p.Glu255Lys,ENST00000298542,;FRMD7,missense_variant,p.Glu240Lys,ENST00000464296,;FRMD7,missense_variant,p.Glu135Lys,ENST00000370879,;	T	ENSG00000165694	ENST00000298542	Transcript	missense_variant	939	763	255	E/K	Gag/Aag	.	.	.	-1	FRMD7	HGNC	8079	protein_coding	YES	CCDS35397.1	ENSP00000298542	FRMD7_HUMAN	.	UPI00001C0AED	.	deleterious(0.01)	possibly_damaging(0.594)	9/12	.	PROSITE_profiles:PS50057,hmmpanther:PTHR12673:SF66,hmmpanther:PTHR12673,Pfam_domain:PF09380,Gene3D:2.30.29.30,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACTCCAAGG	.	5	BLCA
GPR112	0	.	GRCh37	X	135496340	135496340	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9059T>C	p.Ile3020Thr	p.I3020T	ENST00000394143	25/26	104	98	6	182	182	0	GPR112,missense_variant,p.Ile2739Thr,ENST00000287534,;GPR112,missense_variant,p.Ile3020Thr,ENST00000370652,;GPR112,missense_variant,p.Ile3020Thr,ENST00000394143,;GPR112,missense_variant,p.Ile2815Thr,ENST00000394141,;GPR112,missense_variant,p.Ile2815Thr,ENST00000412101,;	C	ENSG00000156920	ENST00000394143	Transcript	missense_variant	9350	9059	3020	I/T	aTa/aCa	.	.	.	1	GPR112	HGNC	18992	protein_coding	YES	CCDS35409.1	ENSP00000377699	GP112_HUMAN	.	UPI00004CEC5B	.	deleterious(0.02)	benign(0.02)	25/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCAGATAAAGG	.	2	BLCA
CD40LG	0	.	GRCh37	X	135741492	135741492	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.704C>T	p.Ala235Val	p.A235V	ENST00000370629	5/5	131	120	11	189	189	0	CD40LG,missense_variant,p.Ala235Val,ENST00000370629,;CD40LG,missense_variant,p.Ala214Val,ENST00000370628,;	T	ENSG00000102245	ENST00000370629	Transcript	missense_variant	760	704	235	A/V	gCt/gTt	.	.	.	1	CD40LG	HGNC	11935	protein_coding	YES	CCDS14659.1	ENSP00000359663	CD40L_HUMAN	Q3LFI8_HUMAN	UPI00000315E7	.	tolerated(0.27)	benign(0.051)	5/5	.	Superfamily_domains:SSF49842,SMART_domains:SM00207,PIRSF_domain:PIRSF016527,Gene3D:2.60.120.40,Pfam_domain:PF00229,hmmpanther:PTHR11471,hmmpanther:PTHR11471:SF5,PROSITE_profiles:PS50049	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGTGCTTCGG	.	2	BLCA
OFD1	0	.	GRCh37	X	13771419	13771419	+	Intron	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1056-68C>T	.	.	ENST00000340096	.	26	13	12	48	48	0	OFD1,intron_variant,,ENST00000380567,;OFD1,intron_variant,,ENST00000340096,;OFD1,intron_variant,,ENST00000380550,;OFD1,downstream_gene_variant,,ENST00000398395,;OFD1,non_coding_transcript_exon_variant,,ENST00000490265,;	T	ENSG00000046651	ENST00000340096	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	OFD1	HGNC	2567	protein_coding	YES	CCDS14157.1	ENSP00000344314	OFD1_HUMAN	E9KL37_HUMAN,A8K2T9_HUMAN,A6NF31_HUMAN	UPI0000130C40	.	.	.	.	10/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AAGCTCCTGCA	.	4	BLCA
CXorf66	0	.	GRCh37	X	139040251	139040251	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.214C>T	p.%3D	p.L72L	ENST00000370540	2/3	220	130	90	336	336	0	CXorf66,synonymous_variant,p.%3D,ENST00000370540,;	A	ENSG00000203933	ENST00000370540	Transcript	synonymous_variant	238	214	72	L	Ctg/Ttg	.	.	.	-1	CXorf66	HGNC	33743	protein_coding	YES	CCDS35411.1	ENSP00000359571	CX066_HUMAN	.	UPI00001D7C1C	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTCAGACAAT	.	5	BLCA
CDR1	0	.	GRCh37	X	139866539	139866539	+	5'UTR	SNP	A	A	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-8T>A	.	.	ENST00000370532	1/1	82	73	9	146	146	0	CDR1,5_prime_UTR_variant,,ENST00000370532,;	T	ENSG00000184258	ENST00000370532	Transcript	5_prime_UTR_variant	185	.	.	.	.	.	.	.	-1	CDR1	HGNC	1798	protein_coding	YES	CCDS14670.1	ENSP00000359563	CDR1_HUMAN	.	UPI000034ECCD	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCCAGAAAA	.	4	BLCA
SLITRK2	0	.	GRCh37	X	144905297	144905297	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1354C>A	p.Leu452Ile	p.L452I	ENST00000370490	1/1	157	90	67	282	282	0	SLITRK2,missense_variant,p.Leu452Ile,ENST00000370490,;SLITRK2,missense_variant,p.Leu452Ile,ENST00000434188,;SLITRK2,missense_variant,p.Leu452Ile,ENST00000428560,;SLITRK2,missense_variant,p.Leu452Ile,ENST00000413937,;SLITRK2,missense_variant,p.Leu452Ile,ENST00000447897,;SLITRK2,missense_variant,p.Leu452Ile,ENST00000335565,;TMEM257,upstream_gene_variant,,ENST00000408967,;	A	ENSG00000185985	ENST00000370490	Transcript	missense_variant	5609	1354	452	L/I	Ctc/Atc	.	.	.	1	SLITRK2	HGNC	13449	protein_coding	YES	CCDS14680.1	ENSP00000359521	SLIK2_HUMAN	B3KTY4_HUMAN	UPI000004E64B	.	deleterious(0)	probably_damaging(0.999)	1/1	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373:SF36,hmmpanther:PTHR24373,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATCTCTAT	.	5	BLCA
AFF2	0	.	GRCh37	X	147924502	147924502	+	Silent	SNP	C	C	T	rs782779796	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1186C>T	p.%3D	p.L396L	ENST00000370460	6/21	108	57	50	157	157	0	AFF2,synonymous_variant,p.%3D,ENST00000370460,;AFF2,synonymous_variant,p.%3D,ENST00000342251,;AFF2,synonymous_variant,p.%3D,ENST00000286437,;AFF2,synonymous_variant,p.%3D,ENST00000370457,;AFF2,synonymous_variant,p.%3D,ENST00000370458,;	T	ENSG00000155966	ENST00000370460	Transcript	synonymous_variant	1665	1186	396	L	Ctg/Ttg	rs782779796	.	.	1	AFF2	HGNC	3776	protein_coding	YES	CCDS14684.1	ENSP00000359489	AFF2_HUMAN	.	UPI000049E130	.	.	.	6/21	.	hmmpanther:PTHR10528:SF13,hmmpanther:PTHR10528,Pfam_domain:PF05110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATCTGACC	.	5	BLCA
FANCB	0	.	GRCh37	X	14863104	14863104	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1801A>G	p.Ile601Val	p.I601V	ENST00000398334	8/10	159	86	73	237	237	0	FANCB,missense_variant,p.Ile601Val,ENST00000324138,;FANCB,missense_variant,p.Ile601Val,ENST00000398334,;FANCB,missense_variant,p.Ile601Val,ENST00000452869,;	C	ENSG00000181544	ENST00000398334	Transcript	missense_variant	2069	1801	601	I/V	Att/Gtt	.	.	.	-1	FANCB	HGNC	3583	protein_coding	YES	CCDS14161.1	ENSP00000381378	FANCB_HUMAN	C9J5X9_HUMAN	UPI000006E70A	.	tolerated(0.58)	benign(0.034)	8/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATAATTTGTA	.	5	BLCA
ATP6AP1	0	.	GRCh37	X	153657422	153657422	+	Missense_Mutation	SNP	C	C	T	rs781946895	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.190C>T	p.His64Tyr	p.H64Y	ENST00000369762	2/10	30	19	10	73	73	0	ATP6AP1,missense_variant,p.His64Tyr,ENST00000422890,;ATP6AP1,missense_variant,p.His64Tyr,ENST00000369762,;ATP6AP1,missense_variant,p.His64Tyr,ENST00000449556,;ATP6AP1,upstream_gene_variant,,ENST00000484908,;ATP6AP1,missense_variant,p.His63Tyr,ENST00000455205,;ATP6AP1,missense_variant,p.His48Tyr,ENST00000429585,;ATP6AP1,missense_variant,p.His64Tyr,ENST00000446552,;ATP6AP1,missense_variant,p.His64Tyr,ENST00000439372,;ATP6AP1,non_coding_transcript_exon_variant,,ENST00000491569,;BX936347.1,upstream_gene_variant,,ENST00000360656,;	T	ENSG00000071553	ENST00000369762	Transcript	missense_variant	251	190	64	H/Y	Cat/Tat	rs781946895,COSM3992418	.	.	1	ATP6AP1	HGNC	868	protein_coding	YES	CCDS35451.1	ENSP00000358777	VAS1_HUMAN	Q9H0C7_HUMAN	UPI000013811E	.	tolerated(0.58)	benign(0.367)	2/10	.	hmmpanther:PTHR12471,hmmpanther:PTHR12471:SF2,Pfam_domain:PF05827	T:0.0000	T:0	T:0	.	T:0	T:0	T:0	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCATGAA	byCluster|by1000G	5	BLCA
CTAG2	0	.	GRCh37	X	153880831	153880831	+	Missense_Mutation	SNP	G	G	A	rs782693966	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.344C>T	p.Pro115Leu	p.P115L	ENST00000247306	2/2	34	30	3	85	85	0	CTAG2,missense_variant,p.Pro115Leu,ENST00000369585,;CTAG2,missense_variant,p.Pro115Leu,ENST00000247306,;IKBKGP1,upstream_gene_variant,,ENST00000453062,;AF277315.13,upstream_gene_variant,,ENST00000442033,;	A	ENSG00000126890	ENST00000247306	Transcript	missense_variant	408	344	115	P/L	cCt/cTt	rs782693966	.	.	-1	CTAG2	HGNC	2492	protein_coding	YES	CCDS14759.1	ENSP00000247306	CTAG2_HUMAN	.	UPI000003337A	.	deleterious_low_confidence(0.01)	possibly_damaging(0.693)	2/2	.	hmmpanther:PTHR31283,hmmpanther:PTHR31283:SF4,Pfam_domain:PF09341	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.P115P|c.345T>G|3,CODON|p.P115P|c.345T>G|3,CODON|p.P115P|c.345T>G|3	RADIA|MUTECT|MUSE|VARSCANS	GGAGAGGTGCG	byFrequency	4	BLCA
IL9R	0	.	GRCh37	X	155235792	155235792	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.826G>C	p.Ala276Pro	p.A276P	ENST00000244174	7/9	17	9	7	49	49	0	IL9R,missense_variant,p.Ala311Pro,ENST00000369423,;IL9R,missense_variant,p.Ala276Pro,ENST00000244174,;IL9R,missense_variant,p.Ala301Pro,ENST00000540897,;IL9R,missense_variant,p.Ala255Pro,ENST00000424344,;IL9R,non_coding_transcript_exon_variant,,ENST00000494962,;IL9R,downstream_gene_variant,,ENST00000489233,;AJ271736.10,intron_variant,,ENST00000483543,;	C	ENSG00000124334	ENST00000244174	Transcript	missense_variant	1005	826	276	A/P	Gct/Cct	.	.	.	1	IL9R	HGNC	6030	protein_coding	YES	CCDS14771.4	ENSP00000244174	IL9R_HUMAN	.	UPI000016864A	.	tolerated(0.07)	benign(0.26)	7/9	.	hmmpanther:PTHR23037:SF26,hmmpanther:PTHR23037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTGCTGTG	.	5	BLCA
ACE2	0	.	GRCh37	X	15619065	15619065	+	5'UTR	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31C>T	.	.	ENST00000427411	2/19	27	17	10	37	37	0	ACE2,5_prime_UTR_variant,,ENST00000427411,;ACE2,5_prime_UTR_variant,,ENST00000252519,;GS1-594A7.3,upstream_gene_variant,,ENST00000421585,;ACE2,non_coding_transcript_exon_variant,,ENST00000484756,;	A	ENSG00000130234	ENST00000427411	Transcript	5_prime_UTR_variant	187	.	.	.	.	.	.	.	-1	ACE2	HGNC	13557	protein_coding	YES	CCDS14169.1	ENSP00000389326	ACE2_HUMAN	.	UPI000000D907	.	.	.	2/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACTGAATGA	.	2	BLCA
GPR64	0	.	GRCh37	X	19026171	19026171	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1493A>G	p.Asn498Ser	p.N498S	ENST00000379869	19/29	41	22	18	85	85	0	GPR64,missense_variant,p.Asn468Ser,ENST00000357544,;GPR64,missense_variant,p.Asn498Ser,ENST00000379869,;GPR64,missense_variant,p.Asn476Ser,ENST00000360279,;GPR64,missense_variant,p.Asn482Ser,ENST00000379878,;GPR64,missense_variant,p.Asn474Ser,ENST00000379876,;GPR64,missense_variant,p.Asn498Ser,ENST00000379873,;GPR64,missense_variant,p.Asn495Ser,ENST00000357991,;GPR64,missense_variant,p.Asn484Ser,ENST00000356606,;GPR64,missense_variant,p.Asn482Ser,ENST00000354791,;GPR64,intron_variant,,ENST00000340581,;	C	ENSG00000173698	ENST00000379869	Transcript	missense_variant	1657	1493	498	N/S	aAt/aGt	.	.	.	-1	GPR64	HGNC	4516	protein_coding	YES	CCDS43923.1	ENSP00000369198	GPR64_HUMAN	.	UPI000021246C	.	tolerated(0.1)	benign(0.046)	19/29	.	hmmpanther:PTHR12011:SF264,hmmpanther:PTHR12011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAAATTATTC	.	5	BLCA
CXorf23	0	.	GRCh37	X	19955540	19955540	+	Intron	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1773+83A>G	.	.	ENST00000379687	.	27	16	11	26	26	0	CXorf23,missense_variant,p.Tyr619Cys,ENST00000379682,;CXorf23,intron_variant,,ENST00000379687,;CXorf23,intron_variant,,ENST00000356980,;CXorf23,intron_variant,,ENST00000340625,;CXorf23,upstream_gene_variant,,ENST00000471203,;CXorf23,intron_variant,,ENST00000472158,;	C	ENSG00000173681	ENST00000379687	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	CXorf23	HGNC	27413	protein_coding	YES	CCDS14194.2	ENSP00000369009	CX023_HUMAN	.	UPI0000458B03	.	.	.	.	8/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATGTAAGGT	.	5	BLCA
CXorf23	0	.	GRCh37	X	19984597	19984603	+	Frame_Shift_Del	DEL	TAATATA	TAATATA	-	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	TAATATA	TAATATA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.206_212delTATATTA	p.Ile69ThrfsTer13	p.I69Tfs*13	ENST00000379687	2/11	114	74	40	178	178	0	CXorf23,frameshift_variant,p.Ile69ThrfsTer13,ENST00000379687,;CXorf23,frameshift_variant,p.Ile69ThrfsTer13,ENST00000356980,;CXorf23,frameshift_variant,p.Ile69ThrfsTer13,ENST00000379682,;CXorf23,upstream_gene_variant,,ENST00000340625,;CXorf23,upstream_gene_variant,,ENST00000472158,;	-	ENSG00000173681	ENST00000379687	Transcript	frameshift_variant	240-246	206-212	69-71	IYY/X	aTATATTAc/ac	.	.	.	-1	CXorf23	HGNC	27413	protein_coding	YES	CCDS14194.2	ENSP00000369009	CX023_HUMAN	.	UPI0000458B03	.	.	.	2/11	.	hmmpanther:PTHR15268:SF9,hmmpanther:PTHR15268,Pfam_domain:PF15440	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GACTGGTAATATATATTT	.	3	BLCA
PRDX4	0	.	GRCh37	X	23700631	23700631	+	Missense_Mutation	SNP	A	A	G	rs747254675	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718A>G	p.Lys240Glu	p.K240E	ENST00000379341	5/7	42	28	14	68	68	0	PRDX4,missense_variant,p.Lys118Glu,ENST00000439422,;PRDX4,missense_variant,p.Lys240Glu,ENST00000379341,;PRDX4,downstream_gene_variant,,ENST00000379349,;PRDX4,downstream_gene_variant,,ENST00000495599,;	G	ENSG00000123131	ENST00000379341	Transcript	missense_variant	843	718	240	K/E	Aaa/Gaa	rs747254675	.	.	1	PRDX4	HGNC	17169	protein_coding	YES	CCDS14206.1	ENSP00000368646	PRDX4_HUMAN	.	UPI00001314E8	.	tolerated(0.27)	benign(0.004)	5/7	.	Superfamily_domains:SSF52833,Pfam_domain:PF10417,Gene3D:3.40.30.10,hmmpanther:PTHR10681,hmmpanther:PTHR10681:SF101	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGACAAACAC	.	5	BLCA
SAT1	0	.	GRCh37	X	23801775	23801775	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.67G>A	p.Glu23Lys	p.E23K	ENST00000379270	2/6	18	10	8	37	37	0	SAT1,missense_variant,p.Glu23Lys,ENST00000379253,;SAT1,missense_variant,p.Glu23Lys,ENST00000379251,;SAT1,missense_variant,p.Glu23Lys,ENST00000379254,;SAT1,missense_variant,p.Glu23Lys,ENST00000379270,;Y_RNA,downstream_gene_variant,,ENST00000365402,;RP13-314C10.5,upstream_gene_variant,,ENST00000366134,;SAT1,splice_region_variant,,ENST00000489394,;SAT1,splice_region_variant,,ENST00000463236,;SAT1,non_coding_transcript_exon_variant,,ENST00000487713,;SAT1,upstream_gene_variant,,ENST00000462639,;SAT1,upstream_gene_variant,,ENST00000474223,;	A	ENSG00000130066	ENST00000379270	Transcript	missense_variant	246	67	23	E/K	Gag/Aag	.	.	.	1	SAT1	HGNC	10540	protein_coding	YES	CCDS14207.1	ENSP00000368572	SAT1_HUMAN	Q6ICU9_HUMAN,A2VED4_HUMAN	UPI000012621E	.	deleterious(0.01)	possibly_damaging(0.776)	2/6	.	PROSITE_profiles:PS51186,hmmpanther:PTHR10545,hmmpanther:PTHR10545:SF22,Gene3D:3.40.630.30,Superfamily_domains:SSF55729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCAGGAGCTG	.	2	BLCA
EIF2S3	0	.	GRCh37	X	24080591	24080591	+	Silent	SNP	C	C	T	rs758489538	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.537C>T	p.%3D	p.I179I	ENST00000253039	6/12	94	86	8	133	133	0	EIF2S3,synonymous_variant,p.%3D,ENST00000253039,;EIF2S3,downstream_gene_variant,,ENST00000423068,;EIF2S3,non_coding_transcript_exon_variant,,ENST00000487075,;	T	ENSG00000130741	ENST00000253039	Transcript	synonymous_variant	790	537	179	I	atC/atT	rs758489538	.	.	1	EIF2S3	HGNC	3267	protein_coding	YES	CCDS14210.1	ENSP00000253039	IF2G_HUMAN	.	UPI0000163BD6	.	.	.	6/12	.	hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF94,Gene3D:3.40.50.300,Pfam_domain:PF00009,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGATCATGAA	byFrequency	3	BLCA
FTHL17	0	.	GRCh37	X	31090053	31090053	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18G>A	p.%3D	p.P6P	ENST00000359202	1/1	24	17	7	39	39	0	FTHL17,synonymous_variant,p.%3D,ENST00000359202,;	T	ENSG00000132446	ENST00000359202	Transcript	synonymous_variant	118	18	6	P	ccG/ccA	.	.	.	-1	FTHL17	HGNC	3987	protein_coding	YES	CCDS14227.1	ENSP00000368207	FHL17_HUMAN	.	UPI00000421FF	.	.	.	1/1	.	hmmpanther:PTHR11431:SF33,hmmpanther:PTHR11431,Gene3D:1.20.1260.10,Superfamily_domains:SSF47240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGCGACGGCTG	.	2	BLCA
TMEM47	0	.	GRCh37	X	34657380	34657380	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351C>T	p.%3D	p.V117V	ENST00000275954	2/3	15	7	8	19	19	0	TMEM47,synonymous_variant,p.%3D,ENST00000275954,;	A	ENSG00000147027	ENST00000275954	Transcript	synonymous_variant	610	351	117	V	gtC/gtT	.	.	.	-1	TMEM47	HGNC	18515	protein_coding	YES	CCDS14235.1	ENSP00000275954	TMM47_HUMAN	.	UPI0000073CBB	.	.	.	2/3	.	Transmembrane_helices:TMhelix,Pfam_domain:PF13903,hmmpanther:PTHR14399,hmmpanther:PTHR14399:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCATGACCGC	.	5	BLCA
PRRG1	0	.	GRCh37	X	37312604	37312604	+	Silent	SNP	C	C	T	rs202155860	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387C>T	p.%3D	p.I129I	ENST00000542554	5/5	50	30	19	108	108	0	PRRG1,synonymous_variant,p.%3D,ENST00000466533,;PRRG1,synonymous_variant,p.%3D,ENST00000543642,;PRRG1,synonymous_variant,p.%3D,ENST00000542554,;PRRG1,synonymous_variant,p.%3D,ENST00000449135,;PRRG1,synonymous_variant,p.%3D,ENST00000378628,;TM4SF2,intron_variant,,ENST00000465127,;PRRG1,downstream_gene_variant,,ENST00000484460,;PRRG1,non_coding_transcript_exon_variant,,ENST00000491253,;PRRG1,non_coding_transcript_exon_variant,,ENST00000470290,;	T	ENSG00000130962	ENST00000542554	Transcript	synonymous_variant	659	387	129	I	atC/atT	rs202155860	.	.	1	PRRG1	HGNC	9469	protein_coding	YES	CCDS14239.1	ENSP00000444278	TMG1_HUMAN	C9JNY5_HUMAN,C9J6P5_HUMAN	UPI0000137077	.	.	.	5/5	.	hmmpanther:PTHR24251	T:0.0003	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P134fs*19|c.394delC|6,BUFFER|p.P135fs*3|c.393_394insC|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATCACCCC	byCluster|by1000G	5	BLCA
MED14	0	.	GRCh37	X	40511029	40511029	+	3'UTR	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*29G>A	.	.	ENST00000324817	31/31	13	6	7	17	17	0	MED14,3_prime_UTR_variant,,ENST00000324817,;MED14,intron_variant,,ENST00000416199,;MED14,downstream_gene_variant,,ENST00000433003,;CXorf38,upstream_gene_variant,,ENST00000327877,;CXorf38,upstream_gene_variant,,ENST00000378418,;CXorf38,upstream_gene_variant,,ENST00000378421,;CXorf38,upstream_gene_variant,,ENST00000440784,;CXorf38,upstream_gene_variant,,ENST00000378426,;	T	ENSG00000180182	ENST00000324817	Transcript	3_prime_UTR_variant	4513	.	.	.	.	.	.	.	-1	MED14	HGNC	2370	protein_coding	YES	CCDS14254.1	ENSP00000323720	MED14_HUMAN	.	UPI00001414B1	.	.	.	31/31	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTGTCAGCCT	.	3	BLCA
USP9X	0	.	GRCh37	X	41057836	41057836	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4436G>A	p.Arg1479Lys	p.R1479K	ENST00000324545	30/45	63	41	21	93	93	0	USP9X,missense_variant,p.Arg1479Lys,ENST00000378308,;USP9X,missense_variant,p.Arg1479Lys,ENST00000324545,;USP9X,downstream_gene_variant,,ENST00000462850,;	A	ENSG00000124486	ENST00000324545	Transcript	missense_variant	5069	4436	1479	R/K	aGa/aAa	.	.	.	1	USP9X	HGNC	12632	protein_coding	YES	CCDS43930.1	ENSP00000316357	USP9X_HUMAN	.	UPI00001AF419	.	tolerated(0.72)	benign(0)	30/45	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF359	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGAGAAATG	.	5	BLCA
DDX3X	0	.	GRCh37	X	41196678	41196678	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.63G>A	p.%3D	p.L21L	ENST00000399959	2/17	63	58	5	69	69	0	DDX3X,synonymous_variant,p.%3D,ENST00000542215,;DDX3X,synonymous_variant,p.%3D,ENST00000399959,;DDX3X,synonymous_variant,p.%3D,ENST00000441189,;DDX3X,synonymous_variant,p.%3D,ENST00000457138,;DDX3X,non_coding_transcript_exon_variant,,ENST00000480592,;DDX3X,non_coding_transcript_exon_variant,,ENST00000478993,;	A	ENSG00000215301	ENST00000399959	Transcript	synonymous_variant	918	63	21	L	ctG/ctA	.	.	.	1	DDX3X	HGNC	2745	protein_coding	YES	CCDS43931.1	ENSP00000382840	DDX3X_HUMAN	Q59GX6_HUMAN	UPI000013CB6D	.	.	.	2/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S24*|c.71C>A|3	MUTECT|MUSE|VARSCANS	GACCTGAACTC	.	3	BLCA
GPR82	0	.	GRCh37	X	41586877	41586877	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598C>T	p.Gln200Ter	p.Q200*	ENST00000302548	3/3	75	36	38	156	156	0	GPR82,stop_gained,p.Gln200Ter,ENST00000302548,;CASK,intron_variant,,ENST00000421587,;CASK,intron_variant,,ENST00000442742,;CASK,intron_variant,,ENST00000378166,;CASK,intron_variant,,ENST00000318588,;CASK,intron_variant,,ENST00000378163,;CASK,intron_variant,,ENST00000361962,;CASK,intron_variant,,ENST00000378158,;CASK,intron_variant,,ENST00000378154,;GPR82,upstream_gene_variant,,ENST00000497180,;	T	ENSG00000171657	ENST00000302548	Transcript	stop_gained	838	598	200	Q/*	Cag/Tag	.	.	.	1	GPR82	HGNC	4533	protein_coding	YES	CCDS14259.1	ENSP00000303549	GPR82_HUMAN	.	UPI000003BCD1	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24231,hmmpanther:PTHR24231:SF3,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCAGATT	.	5	BLCA
NDP	0	.	GRCh37	X	43817833	43817833	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59G>A	p.Gly20Glu	p.G20E	ENST00000378062	2/3	61	39	21	75	75	0	NDP,missense_variant,p.Gly20Glu,ENST00000378062,;NDP-AS1,intron_variant,,ENST00000435093,;NDP,intron_variant,,ENST00000470584,;	T	ENSG00000124479	ENST00000378062	Transcript	missense_variant	467	59	20	G/E	gGa/gAa	.	.	.	-1	NDP	HGNC	7678	protein_coding	YES	CCDS14262.1	ENSP00000367301	NDP_HUMAN	.	UPI00000012E1	.	tolerated_low_confidence(0.13)	benign(0.348)	2/3	.	Cleavage_site_(Signalp):SignalP-noTM,Prints_domain:PR01304	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCCCATT	.	5	BLCA
PLP2	0	.	GRCh37	X	49029537	49029537	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158C>T	p.Ser53Leu	p.S53L	ENST00000376327	2/5	17	11	6	42	42	0	PLP2,missense_variant,p.Ser53Leu,ENST00000376327,;PLP2,missense_variant,p.Ser53Leu,ENST00000376322,;PRICKLE3,downstream_gene_variant,,ENST00000453382,;PRICKLE3,downstream_gene_variant,,ENST00000536904,;PRICKLE3,downstream_gene_variant,,ENST00000540849,;PRICKLE3,downstream_gene_variant,,ENST00000538114,;PRICKLE3,downstream_gene_variant,,ENST00000376317,;MAGIX,downstream_gene_variant,,ENST00000376338,;PRICKLE3,downstream_gene_variant,,ENST00000432913,;	T	ENSG00000102007	ENST00000376327	Transcript	missense_variant	233	158	53	S/L	tCg/tTg	.	.	.	1	PLP2	HGNC	9087	protein_coding	YES	CCDS14319.1	ENSP00000365505	PLP2_HUMAN	.	UPI0000117AEB	.	deleterious(0.01)	benign(0.141)	2/5	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS51225,hmmpanther:PTHR22776,hmmpanther:PTHR22776:SF4,Pfam_domain:PF01284	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTGTCGGTGA	.	5	BLCA
SHROOM4	0	.	GRCh37	X	50350962	50350962	+	Silent	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3180G>A	p.%3D	p.E1060E	ENST00000376020	6/9	31	17	14	63	63	0	SHROOM4,synonymous_variant,p.%3D,ENST00000376020,;SHROOM4,synonymous_variant,p.%3D,ENST00000289292,;SHROOM4,synonymous_variant,p.%3D,ENST00000460112,;	T	ENSG00000158352	ENST00000376020	Transcript	synonymous_variant	3206	3180	1060	E	gaG/gaA	.	.	.	-1	SHROOM4	HGNC	29215	protein_coding	YES	CCDS35277.1	ENSP00000365188	SHRM4_HUMAN	.	UPI00001C2068	.	.	.	6/9	.	hmmpanther:PTHR15012:SF31,hmmpanther:PTHR15012	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TGACTCTCTGA	.	4	BLCA
SMC1A	0	.	GRCh37	X	53407543	53407543	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3616G>A	p.Glu1206Lys	p.E1206K	ENST00000322213	24/25	14	7	7	28	28	0	SMC1A,missense_variant,p.Glu1206Lys,ENST00000322213,;SMC1A,synonymous_variant,p.%3D,ENST00000470241,;SMC1A,downstream_gene_variant,,ENST00000469129,;	T	ENSG00000072501	ENST00000322213	Transcript	missense_variant	3744	3616	1206	E/K	Gag/Aag	.	.	.	-1	SMC1A	HGNC	11111	protein_coding	YES	CCDS14352.1	ENSP00000323421	SMC1A_HUMAN	.	UPI0000135A4D	.	deleterious(0.01)	benign(0.444)	24/25	.	hmmpanther:PTHR18937,hmmpanther:PTHR18937:SF170,Gene3D:3.40.50.300,Pfam_domain:PF02463,PIRSF_domain:PIRSF005719	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCTCAGGAT	.	2	BLCA
FAM120C	0	.	GRCh37	X	54117861	54117861	+	Splice_Site	SNP	T	T	C	.	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2313-2A>G	.	p.X771_splice	ENST00000375180	.	30	16	14	35	35	0	FAM120C,splice_acceptor_variant,,ENST00000375180,;FAM120C,splice_acceptor_variant,,ENST00000328235,;	C	ENSG00000184083	ENST00000375180	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM1729602	.	.	-1	FAM120C	HGNC	16949	protein_coding	YES	CCDS14356.1	ENSP00000364324	F120C_HUMAN	.	UPI000022DC3D	.	.	.	.	10/15	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTACCTAGAAA	.	5	BLCA
MAGED2	0	.	GRCh37	X	54836533	54836533	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424G>A	p.Glu142Lys	p.E142K	ENST00000375068	3/13	13	8	5	33	33	0	MAGED2,missense_variant,p.Glu104Lys,ENST00000375062,;MAGED2,missense_variant,p.Glu142Lys,ENST00000218439,;MAGED2,missense_variant,p.Glu142Lys,ENST00000375058,;MAGED2,missense_variant,p.Glu142Lys,ENST00000396224,;MAGED2,missense_variant,p.Glu104Lys,ENST00000375060,;MAGED2,missense_variant,p.Glu142Lys,ENST00000375053,;MAGED2,missense_variant,p.Glu142Lys,ENST00000375068,;MAGED2,missense_variant,p.Glu124Lys,ENST00000347546,;SNORA11,upstream_gene_variant,,ENST00000408789,;MAGED2,non_coding_transcript_exon_variant,,ENST00000485483,;MAGED2,non_coding_transcript_exon_variant,,ENST00000497484,;MAGED2,intron_variant,,ENST00000463787,;MAGED2,upstream_gene_variant,,ENST00000487482,;MAGED2,upstream_gene_variant,,ENST00000487463,;	A	ENSG00000102316	ENST00000375068	Transcript	missense_variant	657	424	142	E/K	Gag/Aag	.	.	.	1	MAGED2	HGNC	16353	protein_coding	YES	CCDS14362.1	ENSP00000364209	MAGD2_HUMAN	.	UPI000000123B	.	tolerated_low_confidence(0.17)	possibly_damaging(0.601)	3/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11736:SF11,hmmpanther:PTHR11736	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER	AGACTGAGGCT	.	3	BLCA
ZXDB	0	.	GRCh37	X	57620933	57620933	+	3'UTR	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*40T>C	.	.	ENST00000374888	1/1	48	41	7	60	60	0	ZXDB,3_prime_UTR_variant,,ENST00000374888,;	C	ENSG00000198455	ENST00000374888	Transcript	3_prime_UTR_variant	2665	.	.	.	.	.	.	.	1	ZXDB	HGNC	13199	protein_coding	YES	CCDS35313.1	ENSP00000364023	ZXDB_HUMAN	.	UPI000013C495	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTTATTACAG	.	4	BLCA
NLGN4X	0	.	GRCh37	X	5811560	5811560	+	Silent	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1749G>C	p.%3D	p.R583R	ENST00000381095	6/6	43	38	5	90	90	0	NLGN4X,synonymous_variant,p.%3D,ENST00000381092,;NLGN4X,synonymous_variant,p.%3D,ENST00000381095,;NLGN4X,synonymous_variant,p.%3D,ENST00000381093,;NLGN4X,synonymous_variant,p.%3D,ENST00000538097,;NLGN4X,synonymous_variant,p.%3D,ENST00000275857,;NLGN4X,intron_variant,,ENST00000477079,;	G	ENSG00000146938	ENST00000381095	Transcript	synonymous_variant	2377	1749	583	R	cgG/cgC	.	.	.	-1	NLGN4X	HGNC	14287	protein_coding	YES	CCDS14126.1	ENSP00000370485	NLGNX_HUMAN	B3KMT6_HUMAN	UPI0000072EC5	.	.	.	6/6	.	Prints_domain:PR01090,Superfamily_domains:SSF53474,Pfam_domain:PF00135,Gene3D:3.40.50.1820,hmmpanther:PTHR11559:SF195,hmmpanther:PTHR11559	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T585T|c.1755G>A|7,BUFFER|p.T605T|c.1815G>A|5	RADIA|MUSE|VARSCANS	GTTGCCCGGTA	.	3	BLCA
AWAT2	0	.	GRCh37	X	69263010	69263010	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Gly186Arg	p.G186R	ENST00000276101	5/8	10	3	7	14	14	0	AWAT2,missense_variant,p.Gly186Arg,ENST00000276101,;EDA,downstream_gene_variant,,ENST00000374553,;EDA,downstream_gene_variant,,ENST00000374552,;AWAT2,missense_variant,p.Gly64Arg,ENST00000440401,;AWAT2,non_coding_transcript_exon_variant,,ENST00000443056,;	T	ENSG00000147160	ENST00000276101	Transcript	missense_variant	562	556	186	G/R	Gga/Aga	.	.	.	-1	AWAT2	HGNC	23251	protein_coding	YES	CCDS35320.1	ENSP00000421172	AWAT2_HUMAN	.	UPI00001D7BE0	.	deleterious(0.01)	probably_damaging(1)	5/8	.	hmmpanther:PTHR12317,hmmpanther:PTHR12317:SF12,Pfam_domain:PF03982,Superfamily_domains:0039877	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGTCCACCAA	.	3	BLCA
IGBP1	0	.	GRCh37	X	69354412	69354412	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.228G>A	p.%3D	p.L76L	ENST00000342206	2/6	18	10	7	42	42	0	IGBP1,synonymous_variant,p.%3D,ENST00000342206,;IGBP1,synonymous_variant,p.%3D,ENST00000356413,;	A	ENSG00000089289	ENST00000342206	Transcript	synonymous_variant	727	228	76	L	ctG/ctA	.	.	.	1	IGBP1	HGNC	5461	protein_coding	YES	CCDS14396.1	ENSP00000363661	IGBP1_HUMAN	.	UPI0000119C1E	.	.	.	2/6	.	hmmpanther:PTHR10933:SF9,hmmpanther:PTHR10933,Pfam_domain:PF04177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTGAAGTA	.	5	BLCA
KIF4A	0	.	GRCh37	X	69623806	69623806	+	Silent	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2712G>A	p.%3D	p.E904E	ENST00000374403	24/31	21	12	9	40	40	0	KIF4A,synonymous_variant,p.%3D,ENST00000374403,;KIF4A,synonymous_variant,p.%3D,ENST00000374388,;	A	ENSG00000090889	ENST00000374403	Transcript	synonymous_variant	2794	2712	904	E	gaG/gaA	.	.	.	1	KIF4A	HGNC	13339	protein_coding	YES	CCDS14401.1	ENSP00000363524	KIF4A_HUMAN	.	UPI000013D32A	.	.	.	24/31	.	hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF393	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGAGGAACG	.	5	BLCA
TEX11	0	.	GRCh37	X	69960586	69960586	+	Missense_Mutation	SNP	C	C	T	rs776556073	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.853G>A	p.Asp285Asn	p.D285N	ENST00000395889	12/31	21	14	6	35	35	0	TEX11,missense_variant,p.Asp270Asn,ENST00000374333,;TEX11,missense_variant,p.Asp285Asn,ENST00000395889,;TEX11,missense_variant,p.Asp285Asn,ENST00000344304,;	T	ENSG00000120498	ENST00000395889	Transcript	missense_variant	1009	853	285	D/N	Gat/Aat	rs776556073	.	.	-1	TEX11	HGNC	11733	protein_coding	YES	CCDS35323.1	ENSP00000379226	TEX11_HUMAN	.	UPI000013CA89	.	tolerated(0.12)	benign(0.041)	12/31	.	hmmpanther:PTHR22904:SF291,hmmpanther:PTHR22904,Pfam_domain:PF08631	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATCATAAT	byFrequency	5	BLCA
MED12	0	.	GRCh37	X	70357156	70357156	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5671T>G	p.Ser1891Ala	p.S1891A	ENST00000374080	39/45	25	13	12	45	45	0	MED12,missense_variant,p.Ser1891Ala,ENST00000374102,;MED12,missense_variant,p.Ser1891Ala,ENST00000333646,;MED12,missense_variant,p.Ser1891Ala,ENST00000374080,;MED12,missense_variant,p.Ser112Ala,ENST00000444034,;AL590764.1,upstream_gene_variant,,ENST00000579622,;	G	ENSG00000184634	ENST00000374080	Transcript	missense_variant	5703	5671	1891	S/A	Tcc/Gcc	.	.	.	1	MED12	HGNC	11957	protein_coding	YES	CCDS43970.1	ENSP00000363193	MED12_HUMAN	Q7Z2F4_HUMAN,Q7Z2F1_HUMAN,Q7Z2E0_HUMAN	UPI00004257E2	.	.	benign(0.001)	39/45	.	Pfam_domain:PF12144,hmmpanther:PTHR12796,hmmpanther:PTHR12796:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCCTCCTCT	.	5	BLCA
TAF1	0	.	GRCh37	X	70643866	70643866	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4678G>A	p.Asp1560Asn	p.D1560N	ENST00000276072	31/38	45	26	18	90	90	0	TAF1,missense_variant,p.Asp1539Asn,ENST00000373790,;TAF1,missense_variant,p.Asp1560Asn,ENST00000276072,;TAF1,missense_variant,p.Asp1560Asn,ENST00000423759,;TAF1,missense_variant,p.Asp1539Asn,ENST00000449580,;TAF1,non_coding_transcript_exon_variant,,ENST00000492404,;TAF1,non_coding_transcript_exon_variant,,ENST00000485087,;TAF1,non_coding_transcript_exon_variant,,ENST00000468167,;TAF1,non_coding_transcript_exon_variant,,ENST00000461764,;TAF1,non_coding_transcript_exon_variant,,ENST00000462588,;TAF1,missense_variant,p.Asp194Asn,ENST00000437147,;TAF1,missense_variant,p.Asp194Asn,ENST00000373775,;AL590762.11,upstream_gene_variant,,ENST00000391782,;	A	ENSG00000147133	ENST00000276072	Transcript	missense_variant	4688	4678	1560	D/N	Gat/Aat	.	.	.	1	TAF1	HGNC	11535	protein_coding	YES	CCDS14412.1	ENSP00000276072	TAF1_HUMAN	.	UPI000013DA9F	.	tolerated(0.06)	probably_damaging(0.999)	31/38	.	PROSITE_profiles:PS50014,hmmpanther:PTHR13900:SF0,hmmpanther:PTHR13900,PROSITE_patterns:PS00633,Pfam_domain:PF00439,Gene3D:1.20.920.10,PIRSF_domain:PIRSF003047,SMART_domains:SM00297,Superfamily_domains:SSF47370,Prints_domain:PR00503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCAGATTAT	.	5	BLCA
ATRX	0	.	GRCh37	X	76939028	76939028	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720A>G	p.Ile574Val	p.I574V	ENST00000373344	9/35	227	214	13	304	304	0	ATRX,missense_variant,p.Ile536Val,ENST00000395603,;ATRX,missense_variant,p.Ile574Val,ENST00000373344,;ATRX,non_coding_transcript_exon_variant,,ENST00000480283,;ATRX,upstream_gene_variant,,ENST00000493470,;	C	ENSG00000085224	ENST00000373344	Transcript	missense_variant	1935	1720	574	I/V	Att/Gtt	.	.	.	-1	ATRX	HGNC	886	protein_coding	YES	CCDS14434.1	ENSP00000362441	ATRX_HUMAN	B4DLE1_HUMAN	UPI0000161F78	.	.	benign(0.1)	9/35	.	hmmpanther:PTHR10799:SF566,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTAATACCTC	.	2	BLCA
ATP7A	0	.	GRCh37	X	77298852	77298852	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4043C>G	p.Ser1348Ter	p.S1348*	ENST00000341514	21/23	114	106	7	177	177	0	ATP7A,stop_gained,p.Ser1270Ter,ENST00000343533,;ATP7A,stop_gained,p.Ser351Ter,ENST00000350425,;ATP7A,stop_gained,p.Ser1348Ter,ENST00000341514,;	G	ENSG00000165240	ENST00000341514	Transcript	stop_gained	4198	4043	1348	S/*	tCa/tGa	.	.	.	1	ATP7A	HGNC	869	protein_coding	YES	CCDS35339.1	ENSP00000345728	ATP7A_HUMAN	.	UPI000013E478	.	.	.	21/23	.	Superfamily_domains:SSF56784,Superfamily_domains:0049473,TIGRFAM_domain:TIGR01494,TIGRFAM_domain:TIGR01525,Gene3D:3.40.50.1000,hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTATCAAGAG	.	2	BLCA
CPXCR1	0	.	GRCh37	X	88008665	88008665	+	Missense_Mutation	SNP	G	G	A	rs764702275	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Asp84Asn	p.D84N	ENST00000276127	3/3	17	7	10	38	38	0	CPXCR1,missense_variant,p.Asp84Asn,ENST00000276127,;CPXCR1,missense_variant,p.Asp84Asn,ENST00000373111,;	A	ENSG00000147183	ENST00000276127	Transcript	missense_variant	509	250	84	D/N	Gat/Aat	rs764702275	.	.	1	CPXCR1	HGNC	2332	protein_coding	YES	CCDS14458.1	ENSP00000276127	CPXCR_HUMAN	.	UPI000007369F	.	tolerated(0.12)	possibly_damaging(0.908)	3/3	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R81*|c.241C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAAGATCTA	.	5	BLCA
PCDH11X	0	.	GRCh37	X	91132522	91132522	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-YC-A89H-01A-11D-A364-08	TCGA-YC-A89H-10A-01D-A362-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1283C>T	p.Ser428Phe	p.S428F	ENST00000373094	2/7	79	55	24	147	147	0	PCDH11X,missense_variant,p.Ser428Phe,ENST00000373088,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000361724,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000395337,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000298274,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000504220,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000406881,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000373094,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000373097,;PCDH11X,missense_variant,p.Ser428Phe,ENST00000361655,;	T	ENSG00000102290	ENST00000373094	Transcript	missense_variant	2128	1283	428	S/F	tCc/tTc	.	.	.	1	PCDH11X	HGNC	8656	protein_coding	YES	CCDS14461.1	ENSP00000362186	PC11X_HUMAN	Q70LT5_HUMAN,Q70LT4_HUMAN	UPI0000070BD8	.	deleterious(0.01)	benign(0.033)	2/7	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF15,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGAGTCCACAA	.	5	BLCA
ABCC2	0	.	GRCh37	10	101565153	101565153	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479G>C	p.Lys493Asn	p.K493N	ENST00000370449	11/32	65	54	11	73	73	0	ABCC2,missense_variant,p.Lys493Asn,ENST00000370449,;	C	ENSG00000023839	ENST00000370449	Transcript	missense_variant	1592	1479	493	K/N	aaG/aaC	COSM4010954	.	.	1	ABCC2	HGNC	53	protein_coding	YES	CCDS7484.1	ENSP00000359478	MRP2_HUMAN	.	UPI000013D6CA	.	deleterious(0.05)	benign(0.077)	11/32	.	PROSITE_profiles:PS50929,hmmpanther:PTHR24223,hmmpanther:PTHR24223:SF176,TIGRFAM_domain:TIGR00957,Pfam_domain:PF00664,Gene3D:2hydA01,Superfamily_domains:SSF90123	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGAAGAATAA	.	5	BLCA
PPRC1	0	.	GRCh37	10	103899698	103899698	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1433G>T	p.Arg478Met	p.R478M	ENST00000278070	5/14	39	36	3	41	41	0	PPRC1,missense_variant,p.Arg478Met,ENST00000413464,;PPRC1,missense_variant,p.Arg478Met,ENST00000278070,;PPRC1,upstream_gene_variant,,ENST00000370012,;PPRC1,upstream_gene_variant,,ENST00000489648,;PPRC1,upstream_gene_variant,,ENST00000462933,;	T	ENSG00000148840	ENST00000278070	Transcript	missense_variant	1472	1433	478	R/M	aGg/aTg	.	.	.	1	PPRC1	HGNC	30025	protein_coding	YES	CCDS7529.1	ENSP00000278070	PPRC1_HUMAN	.	UPI000013DB5C	.	deleterious_low_confidence(0)	probably_damaging(0.995)	5/14	.	hmmpanther:PTHR15528:SF5,hmmpanther:PTHR15528	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGAGGCTGA	.	2	BLCA
ADAM12	0	.	GRCh37	10	127730664	127730664	+	Intron	SNP	A	A	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2113+945T>G	.	.	ENST00000368679	.	15	12	3	13	13	0	ADAM12,3_prime_UTR_variant,,ENST00000368676,;ADAM12,intron_variant,,ENST00000368679,;	C	ENSG00000148848	ENST00000368679	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	ADAM12	HGNC	190	protein_coding	YES	CCDS7653.1	ENSP00000357668	ADA12_HUMAN	.	UPI000036672C	.	.	.	.	18/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGCAGCAGC	.	2	BLCA
ZNF239	0	.	GRCh37	10	44052105	44052105	+	3'UTR	SNP	T	T	G	rs779033198	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*46A>C	.	.	ENST00000306006	2/2	31	25	5	39	39	0	ZNF239,3_prime_UTR_variant,,ENST00000374446,;ZNF239,3_prime_UTR_variant,,ENST00000306006,;ZNF239,3_prime_UTR_variant,,ENST00000535642,;ZNF239,3_prime_UTR_variant,,ENST00000426961,;ZNF239,downstream_gene_variant,,ENST00000491188,;	G	ENSG00000196793	ENST00000306006	Transcript	3_prime_UTR_variant	2076	.	.	.	.	rs779033198	.	.	-1	ZNF239	HGNC	13031	protein_coding	YES	CCDS41502.1	ENSP00000307774	ZN239_HUMAN	.	UPI000006DD0E	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACAGTTTTTA	.	5	BLCA
CAMK2G	0	.	GRCh37	10	75609037	75609037	+	Silent	SNP	G	G	A	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396C>T	p.%3D	p.I132I	ENST00000322680	6/21	22	13	9	21	21	0	CAMK2G,synonymous_variant,p.%3D,ENST00000322680,;CAMK2G,synonymous_variant,p.%3D,ENST00000322635,;CAMK2G,synonymous_variant,p.%3D,ENST00000305762,;CAMK2G,synonymous_variant,p.%3D,ENST00000372765,;CAMK2G,synonymous_variant,p.%3D,ENST00000433289,;CAMK2G,synonymous_variant,p.%3D,ENST00000394762,;CAMK2G,synonymous_variant,p.%3D,ENST00000423381,;CAMK2G,synonymous_variant,p.%3D,ENST00000351293,;CAMK2G,intron_variant,,ENST00000444854,;CAMK2G,upstream_gene_variant,,ENST00000441192,;RP11-574K11.8,downstream_gene_variant,,ENST00000446730,;CAMK2G,non_coding_transcript_exon_variant,,ENST00000477652,;CAMK2G,non_coding_transcript_exon_variant,,ENST00000472912,;CAMK2G,upstream_gene_variant,,ENST00000492020,;	A	ENSG00000148660	ENST00000322680	Transcript	synonymous_variant	520	396	132	I	atC/atT	COSM414954,COSM414953	.	.	-1	CAMK2G	HGNC	1463	protein_coding	YES	CCDS7338.1	ENSP00000319060	KCC2G_HUMAN	Q13280_HUMAN	UPI000016781F	.	.	.	6/21	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24347:SF110,hmmpanther:PTHR24347,PROSITE_patterns:PS00108,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGACGATGTC	.	5	BLCA
GRID1	0	.	GRCh37	10	87898678	87898678	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624C>T	p.%3D	p.L208L	ENST00000327946	4/16	172	124	48	165	165	0	GRID1,synonymous_variant,p.%3D,ENST00000327946,;GRID1,synonymous_variant,p.%3D,ENST00000464741,;	A	ENSG00000182771	ENST00000327946	Transcript	synonymous_variant	710	624	208	L	ctC/ctT	.	.	.	-1	GRID1	HGNC	4575	protein_coding	YES	CCDS31236.1	ENSP00000330148	GRID1_HUMAN	B7Z7L0_HUMAN	UPI00001D8051	.	.	.	4/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF108,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGAAGAGGCT	.	5	BLCA
PPP1R3C	0	.	GRCh37	10	93390097	93390097	+	Missense_Mutation	SNP	C	C	G	rs201093907	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541G>C	p.Glu181Gln	p.E181Q	ENST00000238994	2/2	110	96	14	103	103	0	PPP1R3C,missense_variant,p.Glu181Gln,ENST00000238994,;	G	ENSG00000119938	ENST00000238994	Transcript	missense_variant	626	541	181	E/Q	Gag/Cag	rs201093907	.	.	-1	PPP1R3C	HGNC	9293	protein_coding	YES	CCDS7416.1	ENSP00000238994	PPR3C_HUMAN	B4DRR5_HUMAN	UPI000006EFF1	.	deleterious(0.04)	benign(0.23)	2/2	.	PROSITE_profiles:PS51159,hmmpanther:PTHR12307:SF4,hmmpanther:PTHR12307,Pfam_domain:PF03370,PIRSF_domain:PIRSF500813,PIRSF_domain:PIRSF038207	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAAAAC	byCluster	4	BLCA
MICALCL	0	.	GRCh37	11	12345547	12345547	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1565G>A	p.Arg522Lys	p.R522K	ENST00000256186	5/9	55	40	14	59	59	0	MICALCL,missense_variant,p.Arg522Lys,ENST00000256186,;	A	ENSG00000133808	ENST00000256186	Transcript	missense_variant	1856	1565	522	R/K	aGa/aAa	.	.	.	1	MICALCL	HGNC	25933	protein_coding	YES	CCDS41620.1	ENSP00000256186	MICLK_HUMAN	E9PRG5_HUMAN	UPI0000228C2E	.	deleterious(0.04)	possibly_damaging(0.847)	5/9	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAAGAAAGA	.	5	BLCA
KIF18A	0	.	GRCh37	11	28112259	28112259	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.604G>A	p.Glu202Lys	p.E202K	ENST00000263181	5/17	42	21	20	54	54	0	KIF18A,missense_variant,p.Glu202Lys,ENST00000263181,;KIF18A,non_coding_transcript_exon_variant,,ENST00000533466,;KIF18A,upstream_gene_variant,,ENST00000531047,;	T	ENSG00000121621	ENST00000263181	Transcript	missense_variant	895	604	202	E/K	Gaa/Aaa	.	.	.	-1	KIF18A	HGNC	29441	protein_coding	YES	CCDS7867.1	ENSP00000263181	KI18A_HUMAN	.	UPI0000037CCC	.	deleterious(0.01)	probably_damaging(0.999)	5/17	.	PROSITE_profiles:PS50067,hmmpanther:PTHR24115:SF399,hmmpanther:PTHR24115,Pfam_domain:PF00225,Gene3D:3.40.850.10,SMART_domains:SM00129,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTTCTTCTG	.	5	BLCA
KCNA4	0	.	GRCh37	11	30034333	30034333	+	5'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-108C>T	.	.	ENST00000328224	2/2	12	7	5	11	11	0	KCNA4,5_prime_UTR_variant,,ENST00000328224,;KCNA4,downstream_gene_variant,,ENST00000526518,;	A	ENSG00000182255	ENST00000328224	Transcript	5_prime_UTR_variant	1127	.	.	.	.	.	.	.	-1	KCNA4	HGNC	6222	protein_coding	YES	CCDS41629.1	ENSP00000328511	KCNA4_HUMAN	.	UPI00001649FF	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGCAGATTGC	.	3	BLCA
ACCSL	0	.	GRCh37	11	44071666	44071666	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.559G>A	p.Glu187Lys	p.E187K	ENST00000378832	2/14	76	64	12	50	50	0	ACCSL,missense_variant,p.Glu187Lys,ENST00000378832,;ACCSL,3_prime_UTR_variant,,ENST00000527145,;	A	ENSG00000205126	ENST00000378832	Transcript	missense_variant	615	559	187	E/K	Gaa/Aaa	.	.	.	1	ACCSL	HGNC	34391	protein_coding	YES	CCDS41636.1	ENSP00000368109	1A1L2_HUMAN	.	UPI000023785D	.	tolerated(0.47)	benign(0.132)	2/14	.	hmmpanther:PTHR11751:SF344,hmmpanther:PTHR11751,Superfamily_domains:SSF53383,Prints_domain:PR00753	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGACTGAAAGA	.	4	BLCA
GANAB	0	.	GRCh37	11	62397071	62397071	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1889C>T	p.Ser630Phe	p.S630F	ENST00000346178	16/25	44	37	7	23	23	0	GANAB,missense_variant,p.Ser608Phe,ENST00000356638,;GANAB,missense_variant,p.Ser516Phe,ENST00000534779,;GANAB,missense_variant,p.Ser511Phe,ENST00000540933,;GANAB,missense_variant,p.Ser630Phe,ENST00000346178,;GANAB,downstream_gene_variant,,ENST00000525994,;GANAB,downstream_gene_variant,,ENST00000534422,;GANAB,3_prime_UTR_variant,,ENST00000532402,;GANAB,downstream_gene_variant,,ENST00000534613,;GANAB,downstream_gene_variant,,ENST00000526732,;GANAB,downstream_gene_variant,,ENST00000524437,;GANAB,upstream_gene_variant,,ENST00000531563,;GANAB,upstream_gene_variant,,ENST00000528503,;	A	ENSG00000089597	ENST00000346178	Transcript	missense_variant	1905	1889	630	S/F	tCc/tTc	COSM1509201	.	.	-1	GANAB	HGNC	4138	protein_coding	YES	CCDS41656.1	ENSP00000340466	GANAB_HUMAN	.	UPI0000052BE8	.	deleterious(0)	probably_damaging(0.983)	16/25	.	hmmpanther:PTHR22762:SF51,hmmpanther:PTHR22762,Pfam_domain:PF01055,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCTGGGAGCCA	.	3	BLCA
GANAB	0	.	GRCh37	11	62397082	62397082	+	Missense_Mutation	SNP	G	G	C	rs779486964	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1878C>G	p.Phe626Leu	p.F626L	ENST00000346178	16/25	42	32	10	24	24	0	GANAB,missense_variant,p.Phe604Leu,ENST00000356638,;GANAB,missense_variant,p.Phe512Leu,ENST00000534779,;GANAB,missense_variant,p.Phe507Leu,ENST00000540933,;GANAB,missense_variant,p.Phe626Leu,ENST00000346178,;GANAB,downstream_gene_variant,,ENST00000525994,;GANAB,downstream_gene_variant,,ENST00000534422,;GANAB,3_prime_UTR_variant,,ENST00000532402,;GANAB,downstream_gene_variant,,ENST00000534613,;GANAB,downstream_gene_variant,,ENST00000526732,;GANAB,downstream_gene_variant,,ENST00000524437,;GANAB,upstream_gene_variant,,ENST00000531563,;GANAB,upstream_gene_variant,,ENST00000528503,;	C	ENSG00000089597	ENST00000346178	Transcript	missense_variant	1894	1878	626	F/L	ttC/ttG	rs779486964,COSM3809850,COSM3809849	.	.	-1	GANAB	HGNC	4138	protein_coding	YES	CCDS41656.1	ENSP00000340466	GANAB_HUMAN	.	UPI0000052BE8	.	deleterious(0)	probably_damaging(1)	16/25	.	hmmpanther:PTHR22762:SF51,hmmpanther:PTHR22762,Pfam_domain:PF01055,Superfamily_domains:SSF51445	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	GCGAAGAAGGC	.	4	BLCA
RPS6KA4	0	.	GRCh37	11	64129188	64129188	+	Silent	SNP	C	C	T	rs370934199	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726C>T	p.%3D	p.G242G	ENST00000334205	7/17	27	20	7	25	25	0	RPS6KA4,synonymous_variant,p.%3D,ENST00000294261,;RPS6KA4,synonymous_variant,p.%3D,ENST00000334205,;RPS6KA4,synonymous_variant,p.%3D,ENST00000528057,;RPS6KA4,synonymous_variant,p.%3D,ENST00000530504,;CCDC88B,downstream_gene_variant,,ENST00000301897,;CCDC88B,downstream_gene_variant,,ENST00000359902,;CCDC88B,downstream_gene_variant,,ENST00000356786,;CCDC88B,downstream_gene_variant,,ENST00000463837,;CCDC88B,downstream_gene_variant,,ENST00000472524,;CCDC88B,downstream_gene_variant,,ENST00000473405,;CCDC88B,downstream_gene_variant,,ENST00000494080,;CCDC88B,downstream_gene_variant,,ENST00000479965,;RPS6KA4,3_prime_UTR_variant,,ENST00000528355,;RPS6KA4,non_coding_transcript_exon_variant,,ENST00000532496,;RPS6KA4,non_coding_transcript_exon_variant,,ENST00000532885,;RPS6KA4,downstream_gene_variant,,ENST00000530383,;RPS6KA4,downstream_gene_variant,,ENST00000531659,;	T	ENSG00000162302	ENST00000334205	Transcript	synonymous_variant	791	726	242	G	ggC/ggT	rs370934199	.	.	1	RPS6KA4	HGNC	10433	protein_coding	YES	CCDS8073.1	ENSP00000333896	KS6A4_HUMAN	A0PJF8_HUMAN	UPI000006F835	.	.	.	7/17	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF000606,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR24351:SF41,hmmpanther:PTHR24351,PROSITE_profiles:PS50011	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGGCGAGAG	byCluster|by1000G	5	BLCA
DCHS1	0	.	GRCh37	11	6662560	6662560	+	Silent	SNP	G	G	A	rs773367423	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.285C>T	p.%3D	p.D95D	ENST00000299441	2/21	27	16	11	21	21	0	DCHS1,synonymous_variant,p.%3D,ENST00000299441,;	A	ENSG00000166341	ENST00000299441	Transcript	synonymous_variant	697	285	95	D	gaC/gaT	rs773367423	.	.	-1	DCHS1	HGNC	13681	protein_coding	YES	CCDS7771.1	ENSP00000299441	PCD16_HUMAN	.	UPI00001313B6	.	.	.	2/21	.	Prints_domain:PR00205,Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,hmmpanther:PTHR24027:SF294,hmmpanther:PTHR24027,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTCGTCAAT	byFrequency	5	BLCA
CARNS1	0	.	GRCh37	11	67192061	67192061	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2842C>G	p.His948Asp	p.H948D	ENST00000445895	9/9	29	24	4	12	12	0	CARNS1,missense_variant,p.His825Asp,ENST00000307823,;CARNS1,missense_variant,p.His922Asp,ENST00000531040,;CARNS1,missense_variant,p.His825Asp,ENST00000423745,;CARNS1,missense_variant,p.His948Asp,ENST00000445895,;RPS6KB2,upstream_gene_variant,,ENST00000524934,;PPP1CA,upstream_gene_variant,,ENST00000542876,;RPS6KB2,upstream_gene_variant,,ENST00000539188,;PPP1CA,upstream_gene_variant,,ENST00000546202,;RPS6KB2,upstream_gene_variant,,ENST00000312629,;CARNS1,downstream_gene_variant,,ENST00000524740,;RPS6KB2,upstream_gene_variant,,ENST00000524814,;CARNS1,non_coding_transcript_exon_variant,,ENST00000531388,;CARNS1,intron_variant,,ENST00000531958,;RPS6KB2,upstream_gene_variant,,ENST00000420069,;RPS6KB2,upstream_gene_variant,,ENST00000525088,;RPS6KB2,upstream_gene_variant,,ENST00000528964,;RPS6KB2,upstream_gene_variant,,ENST00000530623,;RPS6KB2,upstream_gene_variant,,ENST00000556575,;RPS6KB2,upstream_gene_variant,,ENST00000525996,;	G	ENSG00000172508	ENST00000445895	Transcript	missense_variant	2956	2842	948	H/D	Cac/Gac	.	.	.	1	CARNS1	HGNC	29268	protein_coding	YES	CCDS53667.1	ENSP00000389009	.	F5H427_HUMAN	UPI0001B99E02	.	tolerated(0.15)	benign(0.175)	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT	TGTCTCACTTC	.	2	BLCA
EPS8L2	0	.	GRCh37	11	727012	727012	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*31G>A	.	.	ENST00000533256	22/22	13	7	6	10	10	0	EPS8L2,3_prime_UTR_variant,,ENST00000318562,;EPS8L2,3_prime_UTR_variant,,ENST00000530636,;EPS8L2,3_prime_UTR_variant,,ENST00000526198,;EPS8L2,3_prime_UTR_variant,,ENST00000533256,;AP006621.9,non_coding_transcript_exon_variant,,ENST00000527021,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000524973,;EPS8L2,intron_variant,,ENST00000534449,;EPS8L2,3_prime_UTR_variant,,ENST00000528770,;EPS8L2,3_prime_UTR_variant,,ENST00000526909,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000531393,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000527832,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000534679,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000534027,;EPS8L2,downstream_gene_variant,,ENST00000524474,;EPS8L2,downstream_gene_variant,,ENST00000526651,;EPS8L2,downstream_gene_variant,,ENST00000533816,;EPS8L2,downstream_gene_variant,,ENST00000529346,;EPS8L2,downstream_gene_variant,,ENST00000530452,;	A	ENSG00000177106	ENST00000533256	Transcript	3_prime_UTR_variant	2554	.	.	.	.	.	.	.	1	EPS8L2	HGNC	21296	protein_coding	YES	CCDS31328.1	ENSP00000435585	ES8L2_HUMAN	E9PNY4_HUMAN,E9PNT0_HUMAN,E9PN68_HUMAN,E9PLN2_HUMAN,E9PLH1_HUMAN	UPI000006226C	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGGAGGGGAA	.	2	BLCA
PIWIL4	0	.	GRCh37	11	94353178	94353178	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2310G>A	p.%3D	p.L770L	ENST00000299001	19/20	42	24	18	47	47	0	PIWIL4,synonymous_variant,p.%3D,ENST00000299001,;PIWIL4,synonymous_variant,p.%3D,ENST00000537419,;RP11-867G2.8,intron_variant,,ENST00000536540,;RP11-867G2.8,intron_variant,,ENST00000537874,;PIWIL4,3_prime_UTR_variant,,ENST00000446230,;PIWIL4,downstream_gene_variant,,ENST00000543336,;	A	ENSG00000134627	ENST00000299001	Transcript	synonymous_variant	2521	2310	770	L	ctG/ctA	.	.	.	1	PIWIL4	HGNC	18444	protein_coding	YES	CCDS31656.1	ENSP00000299001	PIWL4_HUMAN	F5GX26_HUMAN	UPI000006D0EC	.	.	.	19/20	.	PROSITE_profiles:PS50822,hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF27,Gene3D:3.30.420.10,Pfam_domain:PF02171,SMART_domains:SM00950,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TATCTGATCAG	.	5	BLCA
PTPN11	0	.	GRCh37	12	112915528	112915528	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927C>G	p.Ile309Met	p.I309M	ENST00000351677	8/16	77	56	21	59	59	0	PTPN11,missense_variant,p.Ile309Met,ENST00000351677,;PTPN11,missense_variant,p.Ile309Met,ENST00000392597,;	G	ENSG00000179295	ENST00000351677	Transcript	missense_variant	1125	927	309	I/M	atC/atG	.	.	.	1	PTPN11	HGNC	9644	protein_coding	YES	CCDS9163.1	ENSP00000340944	PTN11_HUMAN	B3GUD4_HUMAN,B3GUD3_HUMAN	UPI000013296E	.	deleterious(0.03)	possibly_damaging(0.603)	8/16	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF150,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00194,PIRSF_domain:PIRSF000929,Superfamily_domains:SSF52799,Prints_domain:PR00700	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.N308D|c.922A>G|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATCATCAT	.	5	BLCA
RPH3A	0	.	GRCh37	12	113314631	113314631	+	Silent	SNP	G	G	A	rs751718164	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1131G>A	p.%3D	p.E377E	ENST00000389385	13/22	45	36	9	45	45	0	RPH3A,synonymous_variant,p.%3D,ENST00000548866,;RPH3A,synonymous_variant,p.%3D,ENST00000420983,;RPH3A,synonymous_variant,p.%3D,ENST00000415485,;RPH3A,synonymous_variant,p.%3D,ENST00000551052,;RPH3A,synonymous_variant,p.%3D,ENST00000543106,;RPH3A,synonymous_variant,p.%3D,ENST00000389385,;RPH3A,synonymous_variant,p.%3D,ENST00000447659,;RPH3A,non_coding_transcript_exon_variant,,ENST00000552755,;RPH3A,non_coding_transcript_exon_variant,,ENST00000549913,;	A	ENSG00000089169	ENST00000389385	Transcript	synonymous_variant	1628	1131	377	E	gaG/gaA	rs751718164	.	.	1	RPH3A	HGNC	17056	protein_coding	YES	CCDS44979.1	ENSP00000374036	RP3A_HUMAN	F8W1K7_HUMAN,F8W1A3_HUMAN,F8W131_HUMAN,F8W116_HUMAN,F8VZS2_HUMAN,F8VVK8_HUMAN,F8VV58_HUMAN,F8VTR7_HUMAN,F8VR41_HUMAN,F8VNW3_HUMAN,F8VNU2_HUMAN,F8VNP7_HUMAN	UPI000013456D	.	.	.	13/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF118,Gene3D:2.60.40.150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGGAGGAGGA	.	5	BLCA
TAOK3	0	.	GRCh37	12	118627629	118627629	+	Missense_Mutation	SNP	T	T	C	rs770010154	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312A>G	p.Ile438Val	p.I438V	ENST00000392533	14/21	108	88	19	115	115	0	TAOK3,missense_variant,p.Ile438Val,ENST00000392533,;TAOK3,missense_variant,p.Ile438Val,ENST00000419821,;TAOK3,5_prime_UTR_variant,,ENST00000537822,;TAOK3,5_prime_UTR_variant,,ENST00000540561,;TAOK3,5_prime_UTR_variant,,ENST00000537952,;TAOK3,non_coding_transcript_exon_variant,,ENST00000537305,;	C	ENSG00000135090	ENST00000392533	Transcript	missense_variant	1803	1312	438	I/V	Atc/Gtc	rs770010154	.	.	-1	TAOK3	HGNC	18133	protein_coding	YES	CCDS9188.1	ENSP00000376317	TAOK3_HUMAN	G3V1Q8_HUMAN,F5H7G4_HUMAN,F5H5E0_HUMAN,F5H5C7_HUMAN,F5H3L7_HUMAN,F5H005_HUMAN,F5GY38_HUMAN,F5GX96_HUMAN,F5GWV8_HUMAN	UPI000007231B	.	tolerated(0.08)	benign(0.117)	14/21	.	hmmpanther:PTHR24361:SF187,hmmpanther:PTHR24361	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGATCGTGG	.	5	BLCA
DDX11	0	.	GRCh37	12	31236983	31236983	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.381G>A	p.%3D	p.V127V	ENST00000407793	3/27	67	56	10	63	63	0	DDX11,synonymous_variant,p.%3D,ENST00000544652,;DDX11,synonymous_variant,p.%3D,ENST00000438391,;DDX11,synonymous_variant,p.%3D,ENST00000350437,;DDX11,synonymous_variant,p.%3D,ENST00000415475,;DDX11,synonymous_variant,p.%3D,ENST00000542838,;DDX11,synonymous_variant,p.%3D,ENST00000545668,;DDX11,synonymous_variant,p.%3D,ENST00000535317,;DDX11,synonymous_variant,p.%3D,ENST00000228264,;DDX11,synonymous_variant,p.%3D,ENST00000407793,;DDX11,synonymous_variant,p.%3D,ENST00000251758,;DDX11,stop_gained,p.Trp76Ter,ENST00000543756,;DDX11,synonymous_variant,p.%3D,ENST00000542244,;DDX11,synonymous_variant,p.%3D,ENST00000435753,;DDX11,synonymous_variant,p.%3D,ENST00000542129,;DDX11,synonymous_variant,p.%3D,ENST00000540935,;DDX11,synonymous_variant,p.%3D,ENST00000539049,;DDX11,non_coding_transcript_exon_variant,,ENST00000535158,;DDX11,non_coding_transcript_exon_variant,,ENST00000536265,;DDX11,intron_variant,,ENST00000538345,;DDX11,upstream_gene_variant,,ENST00000542242,;DDX11,upstream_gene_variant,,ENST00000543026,;	A	ENSG00000013573	ENST00000407793	Transcript	synonymous_variant	632	381	127	V	gtG/gtA	.	.	.	1	DDX11	HGNC	2736	protein_coding	YES	CCDS44856.1	ENSP00000384703	DDX11_HUMAN	F5GXJ8_HUMAN	UPI000006F88F	.	.	.	3/27	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS51193,hmmpanther:PTHR11472,hmmpanther:PTHR11472:SF35,SMART_domains:SM00488	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGGTGGACCG	.	3	BLCA
DDX11	0	.	GRCh37	12	31236988	31236988	+	Missense_Mutation	SNP	G	G	A	rs369920569	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.386G>A	p.Arg129Gln	p.R129Q	ENST00000407793	3/27	67	56	10	66	66	0	DDX11,missense_variant,p.Arg87Gln,ENST00000544652,;DDX11,missense_variant,p.Arg129Gln,ENST00000438391,;DDX11,missense_variant,p.Arg129Gln,ENST00000350437,;DDX11,missense_variant,p.Arg103Gln,ENST00000415475,;DDX11,missense_variant,p.Arg129Gln,ENST00000542838,;DDX11,missense_variant,p.Arg129Gln,ENST00000545668,;DDX11,missense_variant,p.Arg165Gln,ENST00000535317,;DDX11,missense_variant,p.Arg103Gln,ENST00000228264,;DDX11,missense_variant,p.Arg129Gln,ENST00000407793,;DDX11,missense_variant,p.Arg129Gln,ENST00000251758,;DDX11,missense_variant,p.Arg129Gln,ENST00000542244,;DDX11,missense_variant,p.Arg129Gln,ENST00000435753,;DDX11,missense_variant,p.Arg129Gln,ENST00000542129,;DDX11,missense_variant,p.Arg103Gln,ENST00000540935,;DDX11,missense_variant,p.Asp78Asn,ENST00000543756,;DDX11,missense_variant,p.Arg129Gln,ENST00000539049,;DDX11,non_coding_transcript_exon_variant,,ENST00000535158,;DDX11,non_coding_transcript_exon_variant,,ENST00000536265,;DDX11,intron_variant,,ENST00000538345,;DDX11,upstream_gene_variant,,ENST00000542242,;DDX11,upstream_gene_variant,,ENST00000543026,;	A	ENSG00000013573	ENST00000407793	Transcript	missense_variant	637	386	129	R/Q	cGa/cAa	rs369920569,COSM3398659,COSM3398660,COSM3398658	.	.	1	DDX11	HGNC	2736	protein_coding	YES	CCDS44856.1	ENSP00000384703	DDX11_HUMAN	F5GXJ8_HUMAN	UPI000006F88F	.	tolerated(0.13)	benign(0.443)	3/27	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS51193,hmmpanther:PTHR11472,hmmpanther:PTHR11472:SF35,SMART_domains:SM00488	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0.0002	A:0.0002	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGACCGACTAA	byCluster|by1000G	3	BLCA
SYT10	0	.	GRCh37	12	33579079	33579079	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.503C>G	p.Ser168Ter	p.S168*	ENST00000228567	2/7	168	140	28	192	192	0	SYT10,stop_gained,p.Ser168Ter,ENST00000228567,;SYT10,5_prime_UTR_variant,,ENST00000535526,;SYT10,non_coding_transcript_exon_variant,,ENST00000567656,;SYT10,stop_gained,p.Ser168Ter,ENST00000539102,;	C	ENSG00000110975	ENST00000228567	Transcript	stop_gained	800	503	168	S/*	tCa/tGa	COSM693303	.	.	-1	SYT10	HGNC	19266	protein_coding	YES	CCDS8732.1	ENSP00000228567	SYT10_HUMAN	F5H2A8_HUMAN	UPI0000052B30	.	.	.	2/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10024,hmmpanther:PTHR10024:SF46	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGTTGATGAC	.	4	BLCA
KIF21A	0	.	GRCh37	12	39734071	39734071	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2206C>T	p.Gln736Ter	p.Q736*	ENST00000361418	16/38	73	69	4	51	51	0	KIF21A,stop_gained,p.Gln84Ter,ENST00000552961,;KIF21A,stop_gained,p.Gln736Ter,ENST00000361418,;KIF21A,stop_gained,p.Gln723Ter,ENST00000544797,;KIF21A,stop_gained,p.Gln736Ter,ENST00000395670,;KIF21A,stop_gained,p.Gln723Ter,ENST00000541463,;KIF21A,stop_gained,p.Gln723Ter,ENST00000361961,;KIF21A,upstream_gene_variant,,ENST00000547108,;KIF21A,upstream_gene_variant,,ENST00000546817,;	A	ENSG00000139116	ENST00000361418	Transcript	stop_gained	2222	2206	736	Q/*	Caa/Taa	.	.	.	-1	KIF21A	HGNC	19349	protein_coding	YES	CCDS53776.1	ENSP00000354878	KI21A_HUMAN	.	UPI0000212ED9	.	.	.	16/38	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF398	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L722P|c.2165T>C|4	MUTECT|MUSE	TGCTTGAAGTC	.	2	BLCA
ADCY6	0	.	GRCh37	12	49176771	49176771	+	Missense_Mutation	SNP	C	C	G	rs762546326	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447G>C	p.Gln149His	p.Q149H	ENST00000307885	1/21	38	25	13	29	29	0	ADCY6,missense_variant,p.Gln149His,ENST00000357869,;ADCY6,missense_variant,p.Gln149His,ENST00000307885,;ADCY6,missense_variant,p.Gln149His,ENST00000550422,;ADCY6,upstream_gene_variant,,ENST00000548820,;ADCY6,upstream_gene_variant,,ENST00000551435,;	G	ENSG00000174233	ENST00000307885	Transcript	missense_variant	1142	447	149	Q/H	caG/caC	rs762546326	.	.	-1	ADCY6	HGNC	237	protein_coding	YES	CCDS8767.1	ENSP00000311405	ADCY6_HUMAN	Q9NR74_HUMAN,Q6LCE1_HUMAN	UPI000003EC29	.	deleterious(0)	probably_damaging(0.997)	1/21	.	hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF263	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTCTGGTT	.	5	BLCA
ADCY6	0	.	GRCh37	12	49176871	49176871	+	Missense_Mutation	SNP	C	C	T	rs763633558	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347G>A	p.Arg116Gln	p.R116Q	ENST00000307885	1/21	47	31	16	37	37	0	ADCY6,missense_variant,p.Arg116Gln,ENST00000357869,;ADCY6,missense_variant,p.Arg116Gln,ENST00000307885,;ADCY6,missense_variant,p.Arg116Gln,ENST00000550422,;ADCY6,upstream_gene_variant,,ENST00000548820,;ADCY6,upstream_gene_variant,,ENST00000551435,;	T	ENSG00000174233	ENST00000307885	Transcript	missense_variant	1042	347	116	R/Q	cGa/cAa	rs763633558	.	.	-1	ADCY6	HGNC	237	protein_coding	YES	CCDS8767.1	ENSP00000311405	ADCY6_HUMAN	Q9NR74_HUMAN,Q6LCE1_HUMAN	UPI000003EC29	.	tolerated(0.6)	benign(0.001)	1/21	.	hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF263	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATCGCCCA	byFrequency	5	BLCA
ADCY6	0	.	GRCh37	12	49177002	49177002	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.216G>A	p.%3D	p.R72R	ENST00000307885	1/21	28	17	11	25	25	0	ADCY6,synonymous_variant,p.%3D,ENST00000357869,;ADCY6,synonymous_variant,p.%3D,ENST00000307885,;ADCY6,synonymous_variant,p.%3D,ENST00000550422,;ADCY6,upstream_gene_variant,,ENST00000548820,;	T	ENSG00000174233	ENST00000307885	Transcript	synonymous_variant	911	216	72	R	cgG/cgA	.	.	.	-1	ADCY6	HGNC	237	protein_coding	YES	CCDS8767.1	ENSP00000311405	ADCY6_HUMAN	Q9NR74_HUMAN,Q6LCE1_HUMAN	UPI000003EC29	.	.	.	1/21	.	hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF263	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCCTCCGGAT	.	5	BLCA
EIF4B	0	.	GRCh37	12	53434031	53434031	+	3'UTR	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24C>G	.	.	ENST00000262056	15/15	28	15	13	26	26	0	EIF4B,3_prime_UTR_variant,,ENST00000416762,;EIF4B,3_prime_UTR_variant,,ENST00000420463,;EIF4B,3_prime_UTR_variant,,ENST00000262056,;RP11-983P16.4,non_coding_transcript_exon_variant,,ENST00000550601,;RP11-983P16.4,non_coding_transcript_exon_variant,,ENST00000546566,;RP11-983P16.4,intron_variant,,ENST00000552905,;RP11-983P16.4,downstream_gene_variant,,ENST00000607643,;RP11-983P16.4,downstream_gene_variant,,ENST00000546793,;RP11-983P16.4,downstream_gene_variant,,ENST00000546767,;EIF4B,non_coding_transcript_exon_variant,,ENST00000549592,;EIF4B,downstream_gene_variant,,ENST00000553209,;EIF4B,downstream_gene_variant,,ENST00000550704,;	G	ENSG00000063046	ENST00000262056	Transcript	3_prime_UTR_variant	2186	.	.	.	.	.	.	.	1	EIF4B	HGNC	3285	protein_coding	YES	CCDS41788.1	ENSP00000262056	IF4B_HUMAN	.	UPI000006F988	.	.	.	15/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTCCTAGT	.	5	BLCA
ANKRD52	0	.	GRCh37	12	56638458	56638458	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2700G>C	p.Glu900Asp	p.E900D	ENST00000267116	24/28	37	30	6	41	41	0	ANKRD52,missense_variant,p.Glu900Asp,ENST00000267116,;ANKRD52,non_coding_transcript_exon_variant,,ENST00000548241,;	G	ENSG00000139645	ENST00000267116	Transcript	missense_variant	2822	2700	900	E/D	gaG/gaC	.	.	.	-1	ANKRD52	HGNC	26614	protein_coding	YES	CCDS44920.1	ENSP00000267116	ANR52_HUMAN	.	UPI0000237861	.	tolerated(0.35)	benign(0.038)	24/28	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR24158:SF17,hmmpanther:PTHR24158,Pfam_domain:PF12796,Gene3D:1.25.40.20,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTTCTCAGC	.	5	BLCA
CD163L1	0	.	GRCh37	12	7548851	7548851	+	Silent	SNP	G	G	A	rs267603676	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1890C>T	p.%3D	p.I630I	ENST00000313599	8/20	80	72	8	37	37	0	CD163L1,synonymous_variant,p.%3D,ENST00000545926,;CD163L1,synonymous_variant,p.%3D,ENST00000416109,;CD163L1,synonymous_variant,p.%3D,ENST00000313599,;CD163L1,synonymous_variant,p.%3D,ENST00000396630,;	A	ENSG00000177675	ENST00000313599	Transcript	synonymous_variant	1948	1890	630	I	atC/atT	rs267603676	.	.	-1	CD163L1	HGNC	30375	protein_coding	YES	CCDS8577.1	ENSP00000315945	C163B_HUMAN	F5H7R7_HUMAN	UPI000013F5AD	.	.	.	8/20	.	PROSITE_profiles:PS50287,hmmpanther:PTHR19331:SF260,hmmpanther:PTHR19331,Gene3D:3.10.250.10,Pfam_domain:PF00530,SMART_domains:SM00202,Superfamily_domains:SSF56487	.	.	.	.	.	.	.	.	.	not_provided	.	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAATGATAGA	.	4	BLCA
FAM90A1	0	.	GRCh37	12	8375060	8375060	+	Silent	SNP	G	G	C	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.753C>G	p.%3D	p.L251L	ENST00000538603	7/7	40	24	16	25	25	0	FAM90A1,synonymous_variant,p.%3D,ENST00000538603,;FAM90A1,synonymous_variant,p.%3D,ENST00000307435,;FAM90A1,downstream_gene_variant,,ENST00000442295,;RP11-266K4.1,upstream_gene_variant,,ENST00000542600,;	C	ENSG00000171847	ENST00000538603	Transcript	synonymous_variant	1312	753	251	L	ctC/ctG	COSM1993946	.	.	-1	FAM90A1	HGNC	25526	protein_coding	YES	CCDS31738.1	ENSP00000445418	F90A1_HUMAN	.	UPI000013EC10	.	.	.	7/7	.	hmmpanther:PTHR16035:SF8,hmmpanther:PTHR16035	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCTGGAGCAG	.	5	BLCA
MYO16	0	.	GRCh37	13	109459059	109459059	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708G>C	p.Glu236Asp	p.E236D	ENST00000356711	7/35	90	84	6	78	78	0	MYO16,missense_variant,p.Glu236Asp,ENST00000251041,;MYO16,missense_variant,p.Glu236Asp,ENST00000356711,;MYO16,missense_variant,p.Glu236Asp,ENST00000357550,;MYO16,non_coding_transcript_exon_variant,,ENST00000375857,;	C	ENSG00000041515	ENST00000356711	Transcript	missense_variant	834	708	236	E/D	gaG/gaC	.	.	.	1	MYO16	HGNC	29822	protein_coding	YES	CCDS32008.1	ENSP00000349145	MYO16_HUMAN	.	UPI0000160FF2	.	tolerated(0.21)	benign(0.075)	7/35	.	PROSITE_profiles:PS50088,PROSITE_profiles:PS50297,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF345,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGGAGGTGGT	.	2	BLCA
GRTP1	0	.	GRCh37	13	114009698	114009698	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.280T>A	p.Tyr94Asn	p.Y94N	ENST00000375431	3/8	37	28	9	52	52	0	GRTP1,missense_variant,p.Tyr94Asn,ENST00000375431,;GRTP1,missense_variant,p.Tyr94Asn,ENST00000375430,;GRTP1,missense_variant,p.Tyr16Asn,ENST00000326039,;GRTP1-AS1,non_coding_transcript_exon_variant,,ENST00000419199,;GRTP1-AS1,intron_variant,,ENST00000423246,;GRTP1,downstream_gene_variant,,ENST00000476439,;	T	ENSG00000139835	ENST00000375431	Transcript	missense_variant	355	280	94	Y/N	Tac/Aac	.	.	.	-1	GRTP1	HGNC	20310	protein_coding	YES	CCDS9534.2	ENSP00000364580	GRTP1_HUMAN	.	UPI00003E2A97	.	deleterious(0.03)	possibly_damaging(0.77)	3/8	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF232,Pfam_domain:PF00566,Gene3D:2qq8A02,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAGTAGCCGG	.	5	BLCA
LATS2	0	.	GRCh37	13	21557868	21557868	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1977G>C	p.Lys659Asn	p.K659N	ENST00000382592	5/8	76	58	18	81	80	0	LATS2,missense_variant,p.Lys659Asn,ENST00000542899,;LATS2,missense_variant,p.Lys659Asn,ENST00000382592,;	G	ENSG00000150457	ENST00000382592	Transcript	missense_variant	2383	1977	659	K/N	aaG/aaC	.	.	.	-1	LATS2	HGNC	6515	protein_coding	YES	CCDS9294.1	ENSP00000372035	LATS2_HUMAN	.	UPI000013DBF5	.	deleterious(0)	possibly_damaging(0.894)	5/8	.	Superfamily_domains:SSF56112,hmmpanther:PTHR24356,hmmpanther:PTHR24356:SF149	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCTTTAA	.	5	BLCA
UTP14C	0	.	GRCh37	13	52603963	52603963	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023G>C	p.Glu341Asp	p.E341D	ENST00000521776	2/2	80	58	21	61	61	0	UTP14C,missense_variant,p.Glu341Asp,ENST00000521776,;ALG11,downstream_gene_variant,,ENST00000523764,;ALG11,downstream_gene_variant,,ENST00000521508,;ALG11,downstream_gene_variant,,ENST00000519151,;	C	ENSG00000253797	ENST00000521776	Transcript	missense_variant	1756	1023	341	E/D	gaG/gaC	.	.	.	1	UTP14C	HGNC	20321	protein_coding	YES	CCDS31978.1	ENSP00000428619	UT14C_HUMAN	.	UPI000006DB4B	.	tolerated(0.29)	benign(0.03)	2/2	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,Pfam_domain:PF04615,hmmpanther:PTHR14150:SF16,hmmpanther:PTHR14150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTGAGAGTGA	.	3	BLCA
UTP14C	0	.	GRCh37	13	52603988	52603988	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1048G>A	p.Glu350Lys	p.E350K	ENST00000521776	2/2	66	48	18	59	59	0	UTP14C,missense_variant,p.Glu350Lys,ENST00000521776,;ALG11,downstream_gene_variant,,ENST00000523764,;ALG11,downstream_gene_variant,,ENST00000521508,;ALG11,downstream_gene_variant,,ENST00000519151,;	A	ENSG00000253797	ENST00000521776	Transcript	missense_variant	1781	1048	350	E/K	Gaa/Aaa	.	.	.	1	UTP14C	HGNC	20321	protein_coding	YES	CCDS31978.1	ENSP00000428619	UT14C_HUMAN	.	UPI000006DB4B	.	tolerated(0.2)	benign(0.021)	2/2	.	Low_complexity_(Seg):seg,Pfam_domain:PF04615,hmmpanther:PTHR14150:SF16,hmmpanther:PTHR14150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCACAGAAGTG	.	3	BLCA
UTP14C	0	.	GRCh37	13	52604156	52604156	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216G>T	p.Glu406Ter	p.E406*	ENST00000521776	2/2	47	35	11	41	41	0	UTP14C,stop_gained,p.Glu406Ter,ENST00000521776,;ALG11,downstream_gene_variant,,ENST00000523764,;ALG11,downstream_gene_variant,,ENST00000521508,;ALG11,downstream_gene_variant,,ENST00000519151,;	T	ENSG00000253797	ENST00000521776	Transcript	stop_gained	1949	1216	406	E/*	Gag/Tag	.	.	.	1	UTP14C	HGNC	20321	protein_coding	YES	CCDS31978.1	ENSP00000428619	UT14C_HUMAN	.	UPI000006DB4B	.	.	.	2/2	.	Low_complexity_(Seg):seg,Pfam_domain:PF04615,hmmpanther:PTHR14150:SF16,hmmpanther:PTHR14150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAAGTGAGGCA	.	3	BLCA
UTP14C	0	.	GRCh37	13	52604165	52604165	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>C	p.Glu409Gln	p.E409Q	ENST00000521776	2/2	44	32	11	48	48	0	UTP14C,missense_variant,p.Glu409Gln,ENST00000521776,;ALG11,downstream_gene_variant,,ENST00000523764,;ALG11,downstream_gene_variant,,ENST00000521508,;ALG11,downstream_gene_variant,,ENST00000519151,;	C	ENSG00000253797	ENST00000521776	Transcript	missense_variant	1958	1225	409	E/Q	Gaa/Caa	.	.	.	1	UTP14C	HGNC	20321	protein_coding	YES	CCDS31978.1	ENSP00000428619	UT14C_HUMAN	.	UPI000006DB4B	.	tolerated(0.06)	possibly_damaging(0.903)	2/2	.	Low_complexity_(Seg):seg,Pfam_domain:PF04615,hmmpanther:PTHR14150:SF16,hmmpanther:PTHR14150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGAAGAAAGA	.	3	BLCA
VPS36	0	.	GRCh37	13	53024700	53024700	+	Silent	SNP	G	G	A	rs775244682	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30C>T	p.%3D	p.L10L	ENST00000378060	1/14	27	22	5	16	16	0	VPS36,synonymous_variant,p.%3D,ENST00000378060,;CKAP2,upstream_gene_variant,,ENST00000378037,;CKAP2,upstream_gene_variant,,ENST00000378034,;CKAP2,upstream_gene_variant,,ENST00000258607,;CKAP2,upstream_gene_variant,,ENST00000468284,;VPS36,upstream_gene_variant,,ENST00000480923,;VPS36,non_coding_transcript_exon_variant,,ENST00000475375,;	A	ENSG00000136100	ENST00000378060	Transcript	synonymous_variant	58	30	10	L	ctC/ctT	rs775244682	.	.	-1	VPS36	HGNC	20312	protein_coding	YES	CCDS9434.1	ENSP00000367299	VPS36_HUMAN	.	UPI000013CFE6	.	.	.	1/14	.	PROSITE_profiles:PS51495,hmmpanther:PTHR13128:SF12,hmmpanther:PTHR13128,Pfam_domain:PF11605,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAGGAGGCC	.	5	BLCA
PCDH8	0	.	GRCh37	13	53420310	53420310	+	Silent	SNP	G	G	A	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2262C>T	p.%3D	p.I754I	ENST00000377942	1/3	49	43	6	31	31	0	PCDH8,synonymous_variant,p.%3D,ENST00000338862,;PCDH8,synonymous_variant,p.%3D,ENST00000377942,;	A	ENSG00000136099	ENST00000377942	Transcript	synonymous_variant	2466	2262	754	I	atC/atT	COSM3469357	.	.	-1	PCDH8	HGNC	8660	protein_coding	YES	CCDS9438.1	ENSP00000367177	PCDH8_HUMAN	.	UPI0000072D47	.	.	.	1/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24028:SF46,hmmpanther:PTHR24028	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCACGATGAT	.	4	BLCA
ZNF839	0	.	GRCh37	14	102807866	102807866	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2134C>T	p.Pro712Ser	p.P712S	ENST00000442396	8/8	22	17	5	18	18	0	ZNF839,missense_variant,p.Pro312Ser,ENST00000559155,;ZNF839,missense_variant,p.Pro260Ser,ENST00000561251,;ZNF839,missense_variant,p.Pro596Ser,ENST00000558850,;ZNF839,missense_variant,p.Pro596Ser,ENST00000559185,;ZNF839,missense_variant,p.Pro712Ser,ENST00000442396,;ZNF839,missense_variant,p.Ala144Val,ENST00000560112,;ZNF839,missense_variant,p.Pro598Ser,ENST00000262236,;ZNF839,intron_variant,,ENST00000558490,;ZNF839,intron_variant,,ENST00000558462,;ZNF839,downstream_gene_variant,,ENST00000560568,;AL137229.1,downstream_gene_variant,,ENST00000577622,;ZNF839,non_coding_transcript_exon_variant,,ENST00000420933,;ZNF839,3_prime_UTR_variant,,ENST00000559098,;ZNF839,non_coding_transcript_exon_variant,,ENST00000557803,;CINP,downstream_gene_variant,,ENST00000559514,;CINP,downstream_gene_variant,,ENST00000559504,;	T	ENSG00000022976	ENST00000442396	Transcript	missense_variant	2149	2134	712	P/S	Cct/Tct	.	.	.	1	ZNF839	HGNC	20345	protein_coding	YES	CCDS45164.1	ENSP00000399863	ZN839_HUMAN	H0YKY1_HUMAN,B3KWS2_HUMAN	UPI0001596890	.	tolerated(0.07)	possibly_damaging(0.787)	8/8	.	hmmpanther:PTHR16116	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGAGCCTAGG	.	5	BLCA
IGHG1	0	.	GRCh37	14	106208379	106208379	+	Missense_Mutation	SNP	G	G	A	rs587714136,rs764359699	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.521C>T	p.Pro174Leu	p.P174L	ENST00000390548	3/6	309	245	64	266	266	0	IGHG1,missense_variant,p.Pro174Leu,ENST00000390549,;IGHG1,missense_variant,p.Pro174Leu,ENST00000390548,;IGHG1,intron_variant,,ENST00000390542,;	A	ENSG00000211896	ENST00000390548	Transcript	missense_variant	521	521	174	P/L	cCg/cTg	rs587714136,rs764359699	.	.	-1	IGHG1	HGNC	5525	IG_C_gene	YES	.	ENSP00000374990	.	.	UPI000173A69D	.	tolerated(0.08)	benign(0.007)	3/6	.	Superfamily_domains:SSF48726,SMART_domains:SM00407,Gene3D:2.60.40.10,Pfam_domain:PF07654,hmmpanther:PTHR23266,hmmpanther:PTHR23266:SF72,PROSITE_profiles:PS50835	A:0.0002	A:0,A:0	A:0,A:0	.	A:0,A:0	A:0.001,A:0.001	A:0,A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGCGGCTTT	by1000G	4	BLCA
IGHG1	0	.	GRCh37	14	106208723	106208723	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.296-1G>C	.	p.X99_splice	ENST00000390548	.	192	128	64	153	153	0	IGHG1,splice_acceptor_variant,,ENST00000390542,;IGHG1,splice_acceptor_variant,,ENST00000390549,;IGHG1,splice_acceptor_variant,,ENST00000390548,;	G	ENSG00000211896	ENST00000390548	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	IGHG1	HGNC	5525	IG_C_gene	YES	.	ENSP00000374990	.	.	UPI000173A69D	.	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCTGCAG	.	5	BLCA
NEMF	0	.	GRCh37	14	50267154	50267154	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2356C>G	p.His786Asp	p.H786D	ENST00000298310	23/33	33	24	9	20	20	0	NEMF,missense_variant,p.His765Asp,ENST00000546046,;NEMF,missense_variant,p.His744Asp,ENST00000555970,;NEMF,missense_variant,p.His786Asp,ENST00000298310,;NEMF,missense_variant,p.His744Asp,ENST00000545773,;NEMF,upstream_gene_variant,,ENST00000382135,;NEMF,non_coding_transcript_exon_variant,,ENST00000556691,;NEMF,non_coding_transcript_exon_variant,,ENST00000556925,;NEMF,upstream_gene_variant,,ENST00000555863,;NEMF,downstream_gene_variant,,ENST00000555411,;NEMF,non_coding_transcript_exon_variant,,ENST00000556074,;	C	ENSG00000165525	ENST00000298310	Transcript	missense_variant	2806	2356	786	H/D	Cac/Gac	.	.	.	-1	NEMF	HGNC	10663	protein_coding	YES	CCDS9694.1	ENSP00000298310	NEMF_HUMAN	.	UPI0000246D16	.	deleterious(0.01)	possibly_damaging(0.791)	23/33	.	hmmpanther:PTHR15239,hmmpanther:PTHR15239:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGGTGAGACA	.	5	BLCA
NEMF	0	.	GRCh37	14	50267267	50267267	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2243C>G	p.Ser748Cys	p.S748C	ENST00000298310	23/33	123	90	33	76	76	0	NEMF,missense_variant,p.Ser727Cys,ENST00000546046,;NEMF,missense_variant,p.Ser706Cys,ENST00000555970,;NEMF,missense_variant,p.Ser748Cys,ENST00000298310,;NEMF,missense_variant,p.Ser706Cys,ENST00000545773,;NEMF,upstream_gene_variant,,ENST00000382135,;NEMF,non_coding_transcript_exon_variant,,ENST00000556691,;NEMF,non_coding_transcript_exon_variant,,ENST00000556925,;NEMF,upstream_gene_variant,,ENST00000555863,;NEMF,downstream_gene_variant,,ENST00000555411,;NEMF,non_coding_transcript_exon_variant,,ENST00000556074,;	C	ENSG00000165525	ENST00000298310	Transcript	missense_variant	2693	2243	748	S/C	tCt/tGt	.	.	.	-1	NEMF	HGNC	10663	protein_coding	YES	CCDS9694.1	ENSP00000298310	NEMF_HUMAN	.	UPI0000246D16	.	deleterious(0.04)	possibly_damaging(0.827)	23/33	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15239,hmmpanther:PTHR15239:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCAGAGCTT	.	5	BLCA
FBXO34	0	.	GRCh37	14	55818155	55818155	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1047T>C	p.%3D	p.D349D	ENST00000313833	2/2	65	41	23	52	52	0	FBXO34,synonymous_variant,p.%3D,ENST00000440021,;FBXO34,synonymous_variant,p.%3D,ENST00000313833,;FBXO34,intron_variant,,ENST00000557647,;FBXO34,downstream_gene_variant,,ENST00000555087,;FBXO34,downstream_gene_variant,,ENST00000554940,;FBXO34,synonymous_variant,p.%3D,ENST00000555280,;	C	ENSG00000178974	ENST00000313833	Transcript	synonymous_variant	1292	1047	349	D	gaT/gaC	.	.	.	1	FBXO34	HGNC	20201	protein_coding	YES	CCDS32086.1	ENSP00000313159	FBX34_HUMAN	G3V2U9_HUMAN	UPI00001FD5AD	.	.	.	2/2	.	hmmpanther:PTHR16271:SF11,hmmpanther:PTHR16271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGGATTGTGG	.	5	BLCA
ZNF410	0	.	GRCh37	14	74376124	74376124	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1045G>A	p.Val349Ile	p.V349I	ENST00000442160	9/14	259	162	97	144	144	0	ZNF410,missense_variant,p.Val349Ile,ENST00000442160,;ZNF410,missense_variant,p.Val259Ile,ENST00000540593,;ZNF410,missense_variant,p.Val332Ile,ENST00000324593,;ZNF410,missense_variant,p.Val279Ile,ENST00000334521,;ZNF410,missense_variant,p.Val63Ile,ENST00000554316,;ZNF410,missense_variant,p.Val332Ile,ENST00000555044,;RP5-1021I20.5,intron_variant,,ENST00000554009,;RP5-1021I20.6,downstream_gene_variant,,ENST00000602874,;RP5-1021I20.5,downstream_gene_variant,,ENST00000555916,;Y_RNA,upstream_gene_variant,,ENST00000362602,;ZNF410,non_coding_transcript_exon_variant,,ENST00000412490,;ZNF410,non_coding_transcript_exon_variant,,ENST00000541357,;ZNF410,downstream_gene_variant,,ENST00000555602,;ZNF410,3_prime_UTR_variant,,ENST00000556396,;RP5-1021I20.4,3_prime_UTR_variant,,ENST00000556551,;ZNF410,3_prime_UTR_variant,,ENST00000398139,;ZNF410,non_coding_transcript_exon_variant,,ENST00000555620,;ZNF410,non_coding_transcript_exon_variant,,ENST00000557679,;	A	ENSG00000119725	ENST00000442160	Transcript	missense_variant	1239	1045	349	V/I	Gtt/Att	.	.	.	1	ZNF410	HGNC	20144	protein_coding	YES	CCDS55929.1	ENSP00000407130	ZN410_HUMAN	G3V4E6_HUMAN	UPI00017A6BE1	.	tolerated(0.13)	benign(0.247)	9/14	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR11389:SF363,hmmpanther:PTHR11389,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTGGTTCAC	.	5	BLCA
YLPM1	0	.	GRCh37	14	75283755	75283755	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5807A>C	p.Asp1936Ala	p.D1936A	ENST00000325680	14/21	26	16	10	14	14	0	YLPM1,missense_variant,p.Asp345Ala,ENST00000547879,;YLPM1,missense_variant,p.Asp1936Ala,ENST00000325680,;YLPM1,missense_variant,p.Asp1701Ala,ENST00000238571,;YLPM1,missense_variant,p.Asp1230Ala,ENST00000552421,;YLPM1,upstream_gene_variant,,ENST00000554107,;YLPM1,upstream_gene_variant,,ENST00000546901,;YLPM1,missense_variant,p.Asp1489Ala,ENST00000549293,;	C	ENSG00000119596	ENST00000325680	Transcript	missense_variant	5931	5807	1936	D/A	gAc/gCc	.	.	.	1	YLPM1	HGNC	17798	protein_coding	YES	CCDS45135.1	ENSP00000324463	YLPM1_HUMAN	B4DMQ9_HUMAN	UPI00006C1433	.	.	probably_damaging(0.937)	14/21	.	Superfamily_domains:SSF52540,Pfam_domain:PF13671,Gene3D:3.40.50.300,hmmpanther:PTHR13413:SF0,hmmpanther:PTHR13413	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATGACAGAG	.	5	BLCA
TTC7B	0	.	GRCh37	14	91161866	91161866	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.755G>A	p.Arg252Lys	p.R252K	ENST00000328459	6/20	94	55	38	63	63	0	TTC7B,missense_variant,p.Arg172Lys,ENST00000557766,;TTC7B,missense_variant,p.Arg252Lys,ENST00000328459,;TTC7B,missense_variant,p.Arg252Lys,ENST00000357056,;RP11-661G16.2,upstream_gene_variant,,ENST00000553712,;	T	ENSG00000165914	ENST00000328459	Transcript	missense_variant	877	755	252	R/K	aGa/aAa	.	.	.	-1	TTC7B	HGNC	19858	protein_coding	YES	CCDS32140.1	ENSP00000336127	TTC7B_HUMAN	G3V3E4_HUMAN,B3KX34_HUMAN	UPI00001FD9F0	.	tolerated(0.5)	benign(0.323)	6/20	.	Gene3D:1.25.40.10,hmmpanther:PTHR23083:SF365,hmmpanther:PTHR23083	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGTTCTTGTT	.	5	BLCA
DDX24	0	.	GRCh37	14	94545986	94545986	+	Missense_Mutation	SNP	C	C	T	rs763198073	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.103G>A	p.Asp35Asn	p.D35N	ENST00000330836	2/9	249	199	50	154	154	0	DDX24,missense_variant,p.Asp35Asn,ENST00000330836,;DDX24,intron_variant,,ENST00000544005,;DDX24,intron_variant,,ENST00000555054,;IFI27L1,upstream_gene_variant,,ENST00000555523,;IFI27L1,upstream_gene_variant,,ENST00000557066,;IFI27L1,upstream_gene_variant,,ENST00000554544,;IFI27L1,upstream_gene_variant,,ENST00000555341,;IFI27L1,upstream_gene_variant,,ENST00000554166,;IFI27L1,upstream_gene_variant,,ENST00000553664,;IFI27L1,upstream_gene_variant,,ENST00000556381,;IFI27L1,upstream_gene_variant,,ENST00000393115,;IFI27L1,upstream_gene_variant,,ENST00000557218,;IFI27L1,upstream_gene_variant,,ENST00000553350,;IFI27L1,upstream_gene_variant,,ENST00000555065,;DDX24,non_coding_transcript_exon_variant,,ENST00000555324,;DDX24,non_coding_transcript_exon_variant,,ENST00000555762,;IFI27L1,upstream_gene_variant,,ENST00000557600,;	T	ENSG00000089737	ENST00000330836	Transcript	missense_variant	235	103	35	D/N	Gac/Aac	rs763198073	.	.	-1	DDX24	HGNC	13266	protein_coding	YES	CCDS9918.1	ENSP00000328690	DDX24_HUMAN	G3V529_HUMAN,F5GYL3_HUMAN	UPI0000129082	.	deleterious(0)	probably_damaging(0.996)	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGTCAATCT	byFrequency	5	BLCA
SERPINA10	0	.	GRCh37	14	94756574	94756574	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357G>A	p.%3D	p.P119P	ENST00000393096	2/5	79	58	20	56	56	0	SERPINA10,synonymous_variant,p.%3D,ENST00000393096,;SERPINA10,synonymous_variant,p.%3D,ENST00000261994,;SERPINA10,synonymous_variant,p.%3D,ENST00000554173,;SERPINA10,synonymous_variant,p.%3D,ENST00000554723,;	T	ENSG00000140093	ENST00000393096	Transcript	synonymous_variant	823	357	119	P	ccG/ccA	.	.	.	-1	SERPINA10	HGNC	15996	protein_coding	YES	CCDS9923.1	ENSP00000376809	ZPI_HUMAN	.	UPI000013C46E	.	.	.	2/5	.	hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF31,Gene3D:3.30.497.10,Pfam_domain:PF00079,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGTCGGCCC	.	5	BLCA
HERC2P3	0	.	GRCh37	15	20710679	20710679	+	RNA	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.122C>T	.	.	ENST00000428453	2/27	38	32	6	51	51	0	HERC2P3,non_coding_transcript_exon_variant,,ENST00000414804,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000437318,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000428453,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000430598,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000429257,;	A	ENSG00000180229	ENST00000428453	Transcript	non_coding_transcript_exon_variant	122	.	.	.	.	.	.	.	-1	HERC2P3	HGNC	4871	processed_transcript	YES	.	.	.	.	.	.	.	.	2/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GAGGCGAGCCT	.	2	BLCA
FSIP1	0	.	GRCh37	15	39893040	39893040	+	3'UTR	SNP	C	C	T	rs774929666	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*41G>A	.	.	ENST00000350221	12/12	46	39	7	50	50	0	FSIP1,splice_region_variant,,ENST00000559547,;FSIP1,3_prime_UTR_variant,,ENST00000350221,;THBS1,downstream_gene_variant,,ENST00000260356,;	T	ENSG00000150667	ENST00000350221	Transcript	3_prime_UTR_variant	1997	.	.	.	.	rs774929666	.	.	-1	FSIP1	HGNC	21674	protein_coding	YES	CCDS10050.1	ENSP00000280236	FSIP1_HUMAN	.	UPI000006F96D	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AACTTCATTAC	.	5	BLCA
SPG11	0	.	GRCh37	15	44876219	44876219	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5659G>C	p.Asp1887His	p.D1887H	ENST00000261866	30/40	134	90	44	121	121	0	SPG11,missense_variant,p.Asp1887His,ENST00000535302,;SPG11,missense_variant,p.Asp170His,ENST00000559511,;SPG11,missense_variant,p.Asp1887His,ENST00000558319,;SPG11,missense_variant,p.Asp1887His,ENST00000261866,;SPG11,missense_variant,p.Asp1887His,ENST00000427534,;SPG11,downstream_gene_variant,,ENST00000558253,;SPG11,downstream_gene_variant,,ENST00000558790,;SPG11,intron_variant,,ENST00000559822,;SPG11,downstream_gene_variant,,ENST00000558155,;SPG11,downstream_gene_variant,,ENST00000560858,;	G	ENSG00000104133	ENST00000261866	Transcript	missense_variant	5676	5659	1887	D/H	Gat/Cat	.	.	.	-1	SPG11	HGNC	11226	protein_coding	YES	CCDS10112.1	ENSP00000261866	SPTCS_HUMAN	H0YN96_HUMAN,C4B7M3_HUMAN	UPI0000456840	.	deleterious(0)	probably_damaging(0.979)	30/40	.	hmmpanther:PTHR13650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCCAGTA	.	5	BLCA
FBN1	0	.	GRCh37	15	48818437	48818437	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.878G>A	p.Ser293Asn	p.S293N	ENST00000316623	9/66	80	68	12	64	64	0	FBN1,missense_variant,p.Ser293Asn,ENST00000316623,;FBN1,intron_variant,,ENST00000537463,;	T	ENSG00000166147	ENST00000316623	Transcript	missense_variant	1334	878	293	S/N	aGc/aAc	.	.	.	-1	FBN1	HGNC	3603	protein_coding	YES	CCDS32232.1	ENSP00000325527	FBN1_HUMAN	Q75N89_HUMAN,Q75N88_HUMAN,H0YN80_HUMAN	UPI0000163B0B	.	.	benign(0.159)	9/66	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24039,hmmpanther:PTHR24039:SF22,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00179,PIRSF_domain:PIRSF036312,SMART_domains:SM00181,Superfamily_domains:SSF57196	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGCTGCAT	.	4	BLCA
TIPIN	0	.	GRCh37	15	66633668	66633668	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.502G>C	p.Asp168His	p.D168H	ENST00000261881	7/8	39	26	12	28	28	0	TIPIN,missense_variant,p.Asp168His,ENST00000261881,;TIPIN,missense_variant,p.Asp168His,ENST00000562124,;TIPIN,missense_variant,p.Asp67His,ENST00000367709,;TIPIN,3_prime_UTR_variant,,ENST00000566524,;	G	ENSG00000075131	ENST00000261881	Transcript	missense_variant	588	502	168	D/H	Gat/Cat	.	.	.	-1	TIPIN	HGNC	30750	protein_coding	YES	CCDS10215.1	ENSP00000261881	TIPIN_HUMAN	H3BVG9_HUMAN,H3BU04_HUMAN,G8JLE5_HUMAN	UPI000013D21A	.	deleterious(0.03)	possibly_damaging(0.832)	7/8	.	hmmpanther:PTHR13220	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATCATGTT	.	5	BLCA
MAP2K5	0	.	GRCh37	15	67938757	67938757	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.686G>T	p.Gly229Val	p.G229V	ENST00000178640	11/22	53	44	8	59	59	0	MAP2K5,missense_variant,p.Gly229Val,ENST00000395476,;MAP2K5,missense_variant,p.Gly229Val,ENST00000178640,;MAP2K5,missense_variant,p.Gly193Val,ENST00000354498,;MAP2K5,missense_variant,p.Gly39Val,ENST00000340972,;MAP2K5,downstream_gene_variant,,ENST00000439036,;MAP2K5,non_coding_transcript_exon_variant,,ENST00000559262,;MAP2K5,non_coding_transcript_exon_variant,,ENST00000560591,;MAP2K5,non_coding_transcript_exon_variant,,ENST00000558392,;	T	ENSG00000137764	ENST00000178640	Transcript	missense_variant	1313	686	229	G/V	gGa/gTa	.	.	.	1	MAP2K5	HGNC	6845	protein_coding	YES	CCDS10224.1	ENSP00000178640	MP2K5_HUMAN	H7BZL1_HUMAN	UPI0000072D4A	.	deleterious(0)	probably_damaging(0.997)	11/22	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24360:SF42,hmmpanther:PTHR24360,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTATGGAGCAT	.	5	BLCA
CYP1A2	0	.	GRCh37	15	75042310	75042310	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231G>T	p.Gln77His	p.Q77H	ENST00000343932	2/7	42	30	11	27	27	0	CYP1A2,missense_variant,p.Gln77His,ENST00000343932,;	T	ENSG00000140505	ENST00000343932	Transcript	missense_variant	294	231	77	Q/H	caG/caT	.	.	.	1	CYP1A2	HGNC	2596	protein_coding	YES	CCDS32293.1	ENSP00000342007	CP1A2_HUMAN	.	UPI0000073775	.	deleterious(0.01)	probably_damaging(0.923)	2/7	.	hmmpanther:PTHR24299:SF7,hmmpanther:PTHR24299,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCAGATCCG	.	5	BLCA
CYP1A2	0	.	GRCh37	15	75042595	75042595	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>C	p.%3D	p.L172L	ENST00000343932	2/7	90	61	29	87	87	0	CYP1A2,synonymous_variant,p.%3D,ENST00000343932,;	C	ENSG00000140505	ENST00000343932	Transcript	synonymous_variant	579	516	172	L	ctG/ctC	.	.	.	1	CYP1A2	HGNC	2596	protein_coding	YES	CCDS32293.1	ENSP00000342007	CP1A2_HUMAN	.	UPI0000073775	.	.	.	2/7	.	hmmpanther:PTHR24299:SF7,hmmpanther:PTHR24299,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTGATCAG	.	5	BLCA
ST20	0	.	GRCh37	15	80191373	80191373	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.140A>C	p.Glu47Ala	p.E47A	ENST00000478497	3/3	89	85	4	82	82	0	ST20,missense_variant,p.Glu47Ala,ENST00000562759,;ST20,missense_variant,p.Glu47Ala,ENST00000478497,;ST20,missense_variant,p.Glu47Ala,ENST00000485386,;ST20-MTHFS,intron_variant,,ENST00000479961,;MTHFS,upstream_gene_variant,,ENST00000258874,;ST20-MTHFS,intron_variant,,ENST00000494999,;MTHFS,upstream_gene_variant,,ENST00000559722,;MTHFS,upstream_gene_variant,,ENST00000560919,;	G	ENSG00000180953	ENST00000478497	Transcript	missense_variant	820	140	47	E/A	gAa/gCa	.	.	.	-1	ST20	HGNC	33520	protein_coding	YES	CCDS42067.1	ENSP00000453502	ST20_HUMAN	.	UPI0000140E2D	.	deleterious_low_confidence(0.01)	possibly_damaging(0.801)	3/3	.	hmmpanther:PTHR11256,hmmpanther:PTHR11256:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCTTCAGGA	.	2	BLCA
AP3B2	0	.	GRCh37	15	83334220	83334220	+	Missense_Mutation	SNP	G	G	A	rs760853121	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1960C>T	p.Arg654Cys	p.R654C	ENST00000261722	16/26	56	42	14	71	71	0	AP3B2,missense_variant,p.Arg622Cys,ENST00000535348,;AP3B2,missense_variant,p.Arg654Cys,ENST00000535359,;AP3B2,missense_variant,p.Arg654Cys,ENST00000261722,;RP11-752G15.3,intron_variant,,ENST00000560650,;AP3B2,non_coding_transcript_exon_variant,,ENST00000543938,;AP3B2,upstream_gene_variant,,ENST00000538592,;AP3B2,upstream_gene_variant,,ENST00000537735,;AP3B2,upstream_gene_variant,,ENST00000545315,;	A	ENSG00000103723	ENST00000261722	Transcript	missense_variant	2168	1960	654	R/C	Cgc/Tgc	rs760853121,COSM965716	.	.	-1	AP3B2	HGNC	567	protein_coding	YES	CCDS45331.1	ENSP00000261722	AP3B2_HUMAN	F5GWU4_HUMAN	UPI0000125030	.	deleterious(0)	probably_damaging(0.999)	16/26	.	hmmpanther:PTHR11134,hmmpanther:PTHR11134:SF11,Gene3D:1.25.10.10,PIRSF_domain:PIRSF037096	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R654H|c.1961G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGCGCACAG	byFrequency	5	BLCA
DCUN1D3	0	.	GRCh37	16	20871598	20871598	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.525A>G	p.%3D	p.Q175Q	ENST00000324344	3/3	110	101	9	102	102	0	DCUN1D3,synonymous_variant,p.%3D,ENST00000563934,;DCUN1D3,synonymous_variant,p.%3D,ENST00000324344,;ERI2,intron_variant,,ENST00000564349,;	C	ENSG00000188215	ENST00000324344	Transcript	synonymous_variant	811	525	175	Q	caA/caG	.	.	.	-1	DCUN1D3	HGNC	28734	protein_coding	YES	CCDS10592.1	ENSP00000319482	DCNL3_HUMAN	.	UPI000005032C	.	.	.	3/3	.	Pfam_domain:PF03556,hmmpanther:PTHR12281:SF2,hmmpanther:PTHR12281,PROSITE_profiles:PS51229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCCTCTTGTTT	.	3	BLCA
DNAH3	0	.	GRCh37	16	20975977	20975977	+	Missense_Mutation	SNP	G	G	A	rs372316224	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9229C>T	p.Arg3077Cys	p.R3077C	ENST00000261383	53/62	66	45	21	55	55	0	DNAH3,missense_variant,p.Arg3077Cys,ENST00000261383,;DNAH3,3_prime_UTR_variant,,ENST00000415178,;	A	ENSG00000158486	ENST00000261383	Transcript	missense_variant	9229	9229	3077	R/C	Cgc/Tgc	rs372316224,COSM182829,COSM182830	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	deleterious(0)	probably_damaging(1)	53/62	.	Pfam_domain:PF12781,hmmpanther:PTHR10676:SF242,hmmpanther:PTHR10676	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R3077C|c.9229C>T|4,SITE|p.R3077C|c.9229C>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGCGTCTGG	byFrequency|byCluster	5	BLCA
ANKS4B	0	.	GRCh37	16	21262007	21262007	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1120C>G	p.Leu374Val	p.L374V	ENST00000311620	2/2	67	38	29	64	64	0	ANKS4B,missense_variant,p.Leu374Val,ENST00000311620,;CRYM,intron_variant,,ENST00000570401,;CRYM,intron_variant,,ENST00000574448,;	G	ENSG00000175311	ENST00000311620	Transcript	missense_variant	1193	1120	374	L/V	Ctg/Gtg	.	.	.	1	ANKS4B	HGNC	26795	protein_coding	YES	CCDS42130.1	ENSP00000308772	ANS4B_HUMAN	.	UPI000013F1C0	.	deleterious(0)	probably_damaging(0.999)	2/2	.	Gene3D:1.10.150.50,Pfam_domain:PF00536,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTGCTG	.	5	BLCA
RBBP6	0	.	GRCh37	16	24583000	24583000	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4613G>C	p.Arg1538Thr	p.R1538T	ENST00000319715	18/18	77	59	17	40	40	0	RBBP6,missense_variant,p.Arg698Thr,ENST00000381039,;RBBP6,missense_variant,p.Arg1538Thr,ENST00000319715,;RBBP6,missense_variant,p.Arg1504Thr,ENST00000348022,;RBBP6,downstream_gene_variant,,ENST00000564314,;RBBP6,non_coding_transcript_exon_variant,,ENST00000562430,;RBBP6,downstream_gene_variant,,ENST00000570185,;	C	ENSG00000122257	ENST00000319715	Transcript	missense_variant	5045	4613	1538	R/T	aGa/aCa	.	.	.	1	RBBP6	HGNC	9889	protein_coding	YES	CCDS10621.1	ENSP00000317872	RBBP6_HUMAN	I3L3Y2_HUMAN,H3BUN0_HUMAN,H3BSK8_HUMAN	UPI00001A96B8	.	deleterious_low_confidence(0)	unknown(0)	18/18	.	hmmpanther:PTHR15439:SF1,hmmpanther:PTHR15439	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCAAGAGACA	.	5	BLCA
CNOT1	0	.	GRCh37	16	58571038	58571038	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5501C>G	p.Ser1834Cys	p.S1834C	ENST00000317147	39/49	113	74	39	75	75	0	CNOT1,missense_variant,p.Ser207Cys,ENST00000568917,;CNOT1,missense_variant,p.Ser1834Cys,ENST00000317147,;CNOT1,missense_variant,p.Ser685Cys,ENST00000245138,;CNOT1,missense_variant,p.Ser1829Cys,ENST00000569240,;CNOT1,missense_variant,p.Ser1829Cys,ENST00000567188,;CNOT1,downstream_gene_variant,,ENST00000563283,;CNOT1,upstream_gene_variant,,ENST00000563130,;	C	ENSG00000125107	ENST00000317147	Transcript	missense_variant	5834	5501	1834	S/C	tCt/tGt	.	.	.	-1	CNOT1	HGNC	7877	protein_coding	YES	CCDS10799.1	ENSP00000320949	CNOT1_HUMAN	H3BUY8_HUMAN,H3BT18_HUMAN,H3BPF1_HUMAN,B7Z6X2_HUMAN,B3KS60_HUMAN	UPI00001FF2F6	.	deleterious(0)	possibly_damaging(0.894)	39/49	.	hmmpanther:PTHR13162:SF8,hmmpanther:PTHR13162	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCCAGAATGC	.	5	BLCA
LRRC36	0	.	GRCh37	16	67400955	67400955	+	Nonsense_Mutation	SNP	C	C	T	rs776178910	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.790C>T	p.Arg264Ter	p.R264*	ENST00000329956	8/14	101	79	22	65	65	0	LRRC36,stop_gained,p.Arg143Ter,ENST00000563189,;LRRC36,stop_gained,p.Arg264Ter,ENST00000329956,;LRRC36,stop_gained,p.Arg143Ter,ENST00000435835,;LRRC36,5_prime_UTR_variant,,ENST00000290940,;LRRC36,intron_variant,,ENST00000541146,;LRRC36,downstream_gene_variant,,ENST00000568804,;LRRC36,downstream_gene_variant,,ENST00000569499,;LRRC36,downstream_gene_variant,,ENST00000561948,;LRRC36,3_prime_UTR_variant,,ENST00000569552,;LRRC36,3_prime_UTR_variant,,ENST00000567723,;LRRC36,3_prime_UTR_variant,,ENST00000561821,;LRRC36,non_coding_transcript_exon_variant,,ENST00000569121,;LRRC36,intron_variant,,ENST00000567211,;LRRC36,intron_variant,,ENST00000569228,;LRRC36,intron_variant,,ENST00000567823,;LRRC36,intron_variant,,ENST00000568010,;LRRC36,intron_variant,,ENST00000565019,;LRRC36,downstream_gene_variant,,ENST00000570075,;	T	ENSG00000159708	ENST00000329956	Transcript	stop_gained	809	790	264	R/*	Cga/Tga	rs776178910,COSM1640527	.	.	1	LRRC36	HGNC	25615	protein_coding	YES	CCDS32467.1	ENSP00000329943	LRC36_HUMAN	J3QRT0_HUMAN,H3BSQ6_HUMAN	UPI0000409634	.	.	.	8/14	.	hmmpanther:PTHR23311:SF3,hmmpanther:PTHR23311	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGTCCGATCC	.	5	BLCA
PSKH1	0	.	GRCh37	16	67943151	67943151	+	Missense_Mutation	SNP	C	C	T	rs757495547	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.499C>T	p.Arg167Trp	p.R167W	ENST00000291041	2/3	38	34	4	24	24	0	PSKH1,missense_variant,p.Arg167Trp,ENST00000291041,;PSKH1,non_coding_transcript_exon_variant,,ENST00000570631,;	T	ENSG00000159792	ENST00000291041	Transcript	missense_variant	669	499	167	R/W	Cgg/Tgg	rs757495547	.	.	1	PSKH1	HGNC	9529	protein_coding	YES	CCDS10851.1	ENSP00000291041	KPSH1_HUMAN	.	UPI000012DFE0	.	deleterious(0)	probably_damaging(0.998)	2/3	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24347:SF142,hmmpanther:PTHR24347,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGGAGCGGGTG	.	2	BLCA
RBFOX1	0	.	GRCh37	16	7759106	7759106	+	Silent	SNP	A	A	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1107A>C	p.%3D	p.P369P	ENST00000311745	12/13	79	72	6	59	59	0	RBFOX1,missense_variant,p.Gln323Pro,ENST00000535565,;RBFOX1,missense_variant,p.Gln383Pro,ENST00000552089,;RBFOX1,missense_variant,p.Gln387Pro,ENST00000355637,;RBFOX1,missense_variant,p.Gln66Pro,ENST00000567470,;RBFOX1,missense_variant,p.Gln409Pro,ENST00000547372,;RBFOX1,synonymous_variant,p.%3D,ENST00000553186,;RBFOX1,synonymous_variant,p.%3D,ENST00000340209,;RBFOX1,synonymous_variant,p.%3D,ENST00000547338,;RBFOX1,synonymous_variant,p.%3D,ENST00000311745,;RBFOX1,synonymous_variant,p.%3D,ENST00000436368,;RBFOX1,synonymous_variant,p.%3D,ENST00000422070,;RBFOX1,synonymous_variant,p.%3D,ENST00000550418,;RBFOX1,non_coding_transcript_exon_variant,,ENST00000570188,;	C	ENSG00000078328	ENST00000311745	Transcript	synonymous_variant	1359	1107	369	P	ccA/ccC	.	.	.	1	RBFOX1	HGNC	18222	protein_coding	YES	CCDS10531.1	ENSP00000309117	RFOX1_HUMAN	.	UPI000006E29E	.	.	.	12/13	.	hmmpanther:PTHR15597,hmmpanther:PTHR15597:SF8,PIRSF_domain:PIRSF037932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTCCAGCCCC	.	3	BLCA
SLC38A8	0	.	GRCh37	16	84050202	84050202	+	Missense_Mutation	SNP	C	C	T	rs757322318	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1084G>A	p.Ala362Thr	p.A362T	ENST00000299709	8/10	41	30	10	33	33	0	SLC38A8,missense_variant,p.Ala362Thr,ENST00000299709,;SLC38A8,non_coding_transcript_exon_variant,,ENST00000568003,;	T	ENSG00000166558	ENST00000299709	Transcript	missense_variant	1084	1084	362	A/T	Gcg/Acg	rs757322318	.	.	-1	SLC38A8	HGNC	32434	protein_coding	YES	CCDS32495.1	ENSP00000299709	S38A8_HUMAN	H3BUP5_HUMAN,H3BP02_HUMAN	UPI0000D61A1F	.	deleterious(0.03)	probably_damaging(0.956)	8/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22950:SF226,hmmpanther:PTHR22950,Pfam_domain:PF01490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCGCCATGG	.	5	BLCA
MVD	0	.	GRCh37	16	88719778	88719778	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1052C>T	p.Ser351Leu	p.S351L	ENST00000301012	9/10	18	14	4	22	22	0	MVD,missense_variant,p.Ser351Leu,ENST00000301012,;CYBA,upstream_gene_variant,,ENST00000567174,;CYBA,upstream_gene_variant,,ENST00000261623,;MVD,downstream_gene_variant,,ENST00000569177,;CYBA,upstream_gene_variant,,ENST00000568278,;CYBA,upstream_gene_variant,,ENST00000566229,;CYBA,upstream_gene_variant,,ENST00000569359,;MVD,downstream_gene_variant,,ENST00000565720,;MVD,downstream_gene_variant,,ENST00000568709,;CYBA,upstream_gene_variant,,ENST00000561972,;MVD,non_coding_transcript_exon_variant,,ENST00000561895,;MVD,non_coding_transcript_exon_variant,,ENST00000565149,;MVD,non_coding_transcript_exon_variant,,ENST00000562981,;CYBA,upstream_gene_variant,,ENST00000563526,;MVD,downstream_gene_variant,,ENST00000565610,;MVD,downstream_gene_variant,,ENST00000563785,;MVD,downstream_gene_variant,,ENST00000563170,;MVD,downstream_gene_variant,,ENST00000568133,;MVD,downstream_gene_variant,,ENST00000562651,;MVD,downstream_gene_variant,,ENST00000566636,;CYBA,upstream_gene_variant,,ENST00000562209,;MVD,downstream_gene_variant,,ENST00000567064,;CYBA,upstream_gene_variant,,ENST00000566534,;	A	ENSG00000167508	ENST00000301012	Transcript	missense_variant	1082	1052	351	S/L	tCa/tTa	.	.	.	-1	MVD	HGNC	7529	protein_coding	YES	CCDS10968.1	ENSP00000301012	MVD1_HUMAN	.	UPI000012A0C6	.	tolerated(0.13)	benign(0.105)	9/10	.	hmmpanther:PTHR10977,hmmpanther:PTHR10977:SF2,Gene3D:3.30.70.890,PIRSF_domain:PIRSF015950,Superfamily_domains:SSF55060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTGAGAGA	.	5	BLCA
SCARF1	0	.	GRCh37	17	1538399	1538399	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2146C>T	p.Gln716Ter	p.Q716*	ENST00000263071	11/11	48	24	24	34	34	0	SCARF1,stop_gained,p.Gln716Ter,ENST00000263071,;SCARF1,stop_gained,p.Gln630Ter,ENST00000348987,;SCARF1,3_prime_UTR_variant,,ENST00000571272,;SCARF1,3_prime_UTR_variant,,ENST00000434376,;SCARF1,3_prime_UTR_variant,,ENST00000573852,;SCARF1,non_coding_transcript_exon_variant,,ENST00000576012,;SCARF1,downstream_gene_variant,,ENST00000570902,;	A	ENSG00000074660	ENST00000263071	Transcript	stop_gained	2196	2146	716	Q/*	Cag/Tag	.	.	.	-1	SCARF1	HGNC	16820	protein_coding	YES	CCDS11007.1	ENSP00000263071	SREC_HUMAN	.	UPI00001AE868	.	.	.	11/11	.	hmmpanther:PTHR24043,hmmpanther:PTHR24043:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCTGGAAGC	.	5	BLCA
SCARF1	0	.	GRCh37	17	1538603	1538603	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1942C>G	p.Pro648Ala	p.P648A	ENST00000263071	11/11	21	12	9	31	31	0	SCARF1,missense_variant,p.Pro648Ala,ENST00000263071,;SCARF1,missense_variant,p.Pro562Ala,ENST00000348987,;SCARF1,3_prime_UTR_variant,,ENST00000571272,;SCARF1,3_prime_UTR_variant,,ENST00000434376,;SCARF1,3_prime_UTR_variant,,ENST00000573852,;SCARF1,non_coding_transcript_exon_variant,,ENST00000576012,;SCARF1,downstream_gene_variant,,ENST00000570902,;	C	ENSG00000074660	ENST00000263071	Transcript	missense_variant	1992	1942	648	P/A	Ccg/Gcg	.	.	.	-1	SCARF1	HGNC	16820	protein_coding	YES	CCDS11007.1	ENSP00000263071	SREC_HUMAN	.	UPI00001AE868	.	tolerated(0.16)	benign(0.016)	11/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24043,hmmpanther:PTHR24043:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCCGGAAAGG	.	5	BLCA
SMCR8	0	.	GRCh37	17	18219385	18219385	+	Silent	SNP	C	C	T	rs757358379	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.282C>T	p.%3D	p.I94I	ENST00000406438	1/2	194	165	28	146	146	0	SMCR8,synonymous_variant,p.%3D,ENST00000406438,;TOP3A,upstream_gene_variant,,ENST00000580095,;TOP3A,upstream_gene_variant,,ENST00000321105,;TOP3A,upstream_gene_variant,,ENST00000542570,;TOP3A,upstream_gene_variant,,ENST00000584887,;TOP3A,upstream_gene_variant,,ENST00000582230,;TOP3A,upstream_gene_variant,,ENST00000584669,;TOP3A,upstream_gene_variant,,ENST00000580713,;TOP3A,upstream_gene_variant,,ENST00000461127,;TOP3A,upstream_gene_variant,,ENST00000583328,;TOP3A,upstream_gene_variant,,ENST00000582981,;TOP3A,upstream_gene_variant,,ENST00000584582,;TOP3A,upstream_gene_variant,,ENST00000585031,;TOP3A,upstream_gene_variant,,ENST00000472959,;RPL21P121,downstream_gene_variant,,ENST00000439258,;RPL7AP65,downstream_gene_variant,,ENST00000418183,;	T	ENSG00000176994	ENST00000406438	Transcript	synonymous_variant	762	282	94	I	atC/atT	rs757358379	.	.	1	SMCR8	HGNC	17921	protein_coding	YES	CCDS11195.2	ENSP00000385025	SMCR8_HUMAN	.	UPI0000E0322D	.	.	.	1/2	.	hmmpanther:PTHR31334:SF1,hmmpanther:PTHR31334	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGTATCATGTC	.	4	BLCA
FAM83G	0	.	GRCh37	17	18882043	18882043	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.936C>A	p.%3D	p.L312L	ENST00000388995	5/6	81	41	40	64	64	0	FAM83G,synonymous_variant,p.%3D,ENST00000585154,;FAM83G,synonymous_variant,p.%3D,ENST00000388995,;FAM83G,synonymous_variant,p.%3D,ENST00000345041,;SLC5A10,intron_variant,,ENST00000417251,;SLC5A10,intron_variant,,ENST00000395647,;SLC5A10,intron_variant,,ENST00000395643,;SLC5A10,intron_variant,,ENST00000395642,;SLC5A10,intron_variant,,ENST00000395645,;SLC5A10,intron_variant,,ENST00000317977,;FAM83G,upstream_gene_variant,,ENST00000580115,;FAM83G,non_coding_transcript_exon_variant,,ENST00000399096,;	T	ENSG00000188522	ENST00000388995	Transcript	synonymous_variant	1160	936	312	L	ctC/ctA	.	.	.	-1	FAM83G	HGNC	32554	protein_coding	YES	CCDS42276.1	ENSP00000373647	FA83G_HUMAN	.	UPI0000E03260	.	.	.	5/6	.	hmmpanther:PTHR16181:SF5,hmmpanther:PTHR16181,Gene3D:3.30.870.10,Superfamily_domains:SSF56024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTTGAGGCT	.	5	BLCA
TEFM	0	.	GRCh37	17	29226579	29226579	+	Silent	SNP	G	G	A	rs769582605	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.691C>T	p.%3D	p.L231L	ENST00000581216	4/4	121	114	7	93	93	0	TEFM,synonymous_variant,p.%3D,ENST00000581216,;TEFM,3_prime_UTR_variant,,ENST00000580840,;ATAD5,downstream_gene_variant,,ENST00000321990,;TEFM,upstream_gene_variant,,ENST00000579183,;TEFM,3_prime_UTR_variant,,ENST00000306049,;TEFM,downstream_gene_variant,,ENST00000541382,;	A	ENSG00000172171	ENST00000581216	Transcript	synonymous_variant	1313	691	231	L	Ctg/Ttg	rs769582605	.	.	-1	TEFM	HGNC	26223	protein_coding	YES	CCDS42291.1	ENSP00000462963	TEFM_HUMAN	.	UPI00000708D5	.	.	.	4/4	.	hmmpanther:PTHR21053:SF1,hmmpanther:PTHR21053,Gene3D:3.30.420.10,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCAGAACAT	byFrequency	2	BLCA
UTP6	0	.	GRCh37	17	30228700	30228700	+	5'UTR	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54C>G	.	.	ENST00000261708	1/19	26	22	4	21	21	0	UTP6,5_prime_UTR_variant,,ENST00000261708,;UTP6,upstream_gene_variant,,ENST00000490218,;UTP6,non_coding_transcript_exon_variant,,ENST00000583408,;UTP6,upstream_gene_variant,,ENST00000579878,;	C	ENSG00000108651	ENST00000261708	Transcript	5_prime_UTR_variant	85	.	.	.	.	.	.	.	-1	UTP6	HGNC	18279	protein_coding	YES	CCDS11269.1	ENSP00000261708	UTP6_HUMAN	Q9P1J8_HUMAN,B3KX32_HUMAN	UPI0000049FB3	.	.	.	1/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCAGGAAGC	.	2	BLCA
ASIC2	0	.	GRCh37	17	31350878	31350878	+	Splice_Site	SNP	C	C	G	rs199653464	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1349+1G>C	.	p.X450_splice	ENST00000225823	.	74	46	28	59	59	0	ASIC2,splice_donor_variant,,ENST00000225823,;ASIC2,splice_donor_variant,,ENST00000359872,;ASIC2,downstream_gene_variant,,ENST00000448983,;	G	ENSG00000108684	ENST00000225823	Transcript	splice_donor_variant	.	.	.	.	.	rs199653464	.	.	-1	ASIC2	HGNC	99	protein_coding	YES	CCDS11276.1	ENSP00000225823	ASIC2_HUMAN	B3KXQ3_HUMAN	UPI000013C881	.	.	.	.	6/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTACGAGAT	byCluster	5	BLCA
CDK12	0	.	GRCh37	17	37618547	37618547	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223G>T	p.Asp75Tyr	p.D75Y	ENST00000447079	1/14	55	52	3	38	38	0	CDK12,missense_variant,p.Asp75Tyr,ENST00000447079,;CDK12,missense_variant,p.Asp75Tyr,ENST00000584632,;CDK12,missense_variant,p.Asp75Tyr,ENST00000430627,;	T	ENSG00000167258	ENST00000447079	Transcript	missense_variant	256	223	75	D/Y	Gat/Tat	.	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	unknown(0)	1/14	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGATGATATC	.	2	BLCA
ZZEF1	0	.	GRCh37	17	3953084	3953084	+	Missense_Mutation	SNP	G	G	A	rs755762266	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5933C>T	p.Pro1978Leu	p.P1978L	ENST00000381638	37/55	79	40	39	69	69	0	ZZEF1,missense_variant,p.Pro366Leu,ENST00000573183,;ZZEF1,missense_variant,p.Pro1978Leu,ENST00000381638,;ZZEF1,3_prime_UTR_variant,,ENST00000571436,;ZZEF1,non_coding_transcript_exon_variant,,ENST00000572426,;	A	ENSG00000074755	ENST00000381638	Transcript	missense_variant	6058	5933	1978	P/L	cCa/cTa	rs755762266	.	.	-1	ZZEF1	HGNC	29027	protein_coding	YES	CCDS11043.1	ENSP00000371051	ZZEF1_HUMAN	.	UPI00004569F7	.	deleterious(0.01)	benign(0.016)	37/55	.	hmmpanther:PTHR22772,hmmpanther:PTHR22772:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACTGGTAGG	byFrequency	5	BLCA
VAT1	0	.	GRCh37	17	41168126	41168126	+	Missense_Mutation	SNP	C	C	G	rs761308182	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1134G>C	p.Lys378Asn	p.K378N	ENST00000355653	6/6	277	167	110	258	258	0	VAT1,missense_variant,p.Lys310Asn,ENST00000587173,;VAT1,missense_variant,p.Lys244Asn,ENST00000420567,;VAT1,missense_variant,p.Lys378Asn,ENST00000355653,;VAT1,3_prime_UTR_variant,,ENST00000587147,;IFI35,downstream_gene_variant,,ENST00000438323,;VAT1,downstream_gene_variant,,ENST00000587062,;IFI35,downstream_gene_variant,,ENST00000415816,;VAT1,downstream_gene_variant,,ENST00000589828,;VAT1,downstream_gene_variant,,ENST00000590924,;VAT1,downstream_gene_variant,,ENST00000589709,;IFI35,downstream_gene_variant,,ENST00000536969,;VAT1,missense_variant,p.Lys15Asn,ENST00000592388,;IFI35,downstream_gene_variant,,ENST00000538473,;IFI35,downstream_gene_variant,,ENST00000534876,;IFI35,downstream_gene_variant,,ENST00000246911,;IFI35,downstream_gene_variant,,ENST00000546325,;IFI35,downstream_gene_variant,,ENST00000396722,;	G	ENSG00000108828	ENST00000355653	Transcript	missense_variant	1230	1134	378	K/N	aaG/aaC	rs761308182	.	.	-1	VAT1	HGNC	16919	protein_coding	YES	CCDS11451.1	ENSP00000347872	VAT1_HUMAN	K7ERT7_HUMAN,K7ER81_HUMAN,K7ENX2_HUMAN,B3KUF8_HUMAN,B0AZP7_HUMAN	UPI000006DA93	.	tolerated(0.11)	benign(0.052)	6/6	.	SMART_domains:SM00829,hmmpanther:PTHR11695:SF470,hmmpanther:PTHR11695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACATTCTTCTT	byFrequency	5	BLCA
RPRML	0	.	GRCh37	17	45056104	45056104	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270C>T	p.%3D	p.N90N	ENST00000322329	1/1	17	13	3	11	11	0	RPRML,synonymous_variant,p.%3D,ENST00000322329,;GOSR2,intron_variant,,ENST00000439730,;LRRC37A17P,non_coding_transcript_exon_variant,,ENST00000570478,;RP11-156P1.2,intron_variant,,ENST00000571841,;	A	ENSG00000179673	ENST00000322329	Transcript	synonymous_variant	511	270	90	N	aaC/aaT	.	.	.	-1	RPRML	HGNC	32422	protein_coding	YES	CCDS11508.1	ENSP00000318032	RPRML_HUMAN	.	UPI000000D948	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCAGGTTGCA	.	5	BLCA
SKAP1	0	.	GRCh37	17	46214586	46214586	+	Intron	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*7+5C>G	.	.	ENST00000336915	.	43	29	13	28	28	0	SKAP1,splice_region_variant,,ENST00000336915,;SKAP1,3_prime_UTR_variant,,ENST00000584924,;SKAP1,splice_region_variant,,ENST00000579476,;SKAP1,splice_region_variant,,ENST00000583844,;SKAP1,splice_region_variant,,ENST00000584709,;SKAP1,downstream_gene_variant,,ENST00000581400,;	C	ENSG00000141293	ENST00000336915	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	-1	SKAP1	HGNC	15605	protein_coding	YES	CCDS32674.1	ENSP00000338171	SKAP1_HUMAN	J3QS38_HUMAN,J3QRG3_HUMAN	UPI0000200EFD	.	.	.	.	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTCTGATACC	.	5	BLCA
GPRC5C	0	.	GRCh37	17	72436480	72436480	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700C>T	p.Gln234Ter	p.Q234*	ENST00000392627	2/4	40	19	21	33	33	0	GPRC5C,stop_gained,p.Gln201Ter,ENST00000392629,;GPRC5C,stop_gained,p.Gln209Ter,ENST00000392628,;GPRC5C,stop_gained,p.Gln150Ter,ENST00000581590,;GPRC5C,stop_gained,p.Gln234Ter,ENST00000392627,;GPRC5C,intron_variant,,ENST00000481232,;GPRC5C,intron_variant,,ENST00000342648,;GPRC5C,downstream_gene_variant,,ENST00000582444,;GPRC5C,downstream_gene_variant,,ENST00000582473,;GPRC5C,upstream_gene_variant,,ENST00000582873,;GPRC5C,upstream_gene_variant,,ENST00000577663,;GPRC5C,upstream_gene_variant,,ENST00000482723,;	T	ENSG00000170412	ENST00000392627	Transcript	stop_gained	1826	700	234	Q/*	Cag/Tag	.	.	.	1	GPRC5C	HGNC	13309	protein_coding	YES	CCDS11699.1	ENSP00000376403	GPC5C_HUMAN	J9JIE0_HUMAN,J3QQN3_HUMAN	UPI0000231CB2	.	.	.	2/4	.	PROSITE_profiles:PS50259,hmmpanther:PTHR14511,hmmpanther:PTHR14511:SF7,Pfam_domain:PF00003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCAGGGC	.	5	BLCA
NUP85	0	.	GRCh37	17	73221213	73221213	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.613C>T	p.%3D	p.L205L	ENST00000245544	8/19	55	32	23	39	39	0	NUP85,synonymous_variant,p.%3D,ENST00000579557,;NUP85,synonymous_variant,p.%3D,ENST00000245544,;NUP85,synonymous_variant,p.%3D,ENST00000447371,;NUP85,synonymous_variant,p.%3D,ENST00000579324,;NUP85,synonymous_variant,p.%3D,ENST00000541827,;NUP85,splice_region_variant,,ENST00000583877,;NUP85,intron_variant,,ENST00000579298,;NUP85,upstream_gene_variant,,ENST00000540768,;NUP85,upstream_gene_variant,,ENST00000583070,;NUP85,non_coding_transcript_exon_variant,,ENST00000583948,;NUP85,non_coding_transcript_exon_variant,,ENST00000449421,;NUP85,upstream_gene_variant,,ENST00000581335,;NUP85,missense_variant,p.Ala164Val,ENST00000581104,;NUP85,non_coding_transcript_exon_variant,,ENST00000577561,;NUP85,intron_variant,,ENST00000578830,;NUP85,upstream_gene_variant,,ENST00000580879,;NUP85,upstream_gene_variant,,ENST00000577645,;	T	ENSG00000125450	ENST00000245544	Transcript	synonymous_variant	684	613	205	L	Ctg/Ttg	.	.	.	1	NUP85	HGNC	8734	protein_coding	YES	CCDS32730.1	ENSP00000245544	NUP85_HUMAN	J3QL54_HUMAN,J3KSH3_HUMAN,F5H0W7_HUMAN,B4DMQ3_HUMAN	UPI00000735DC	.	.	.	8/19	.	hmmpanther:PTHR13373:SF21,hmmpanther:PTHR13373,Pfam_domain:PF07575	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTGCTGCAG	.	5	BLCA
LLGL2	0	.	GRCh37	17	73565329	73565329	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1504G>A	p.Asp502Asn	p.D502N	ENST00000392550	14/26	61	38	23	53	53	0	LLGL2,missense_variant,p.Asp502Asn,ENST00000577200,;LLGL2,missense_variant,p.Asp502Asn,ENST00000167462,;LLGL2,missense_variant,p.Asp502Asn,ENST00000392550,;LLGL2,downstream_gene_variant,,ENST00000375227,;LLGL2,downstream_gene_variant,,ENST00000578363,;LLGL2,missense_variant,p.Met74Ile,ENST00000578719,;LLGL2,3_prime_UTR_variant,,ENST00000578638,;LLGL2,non_coding_transcript_exon_variant,,ENST00000545227,;LLGL2,non_coding_transcript_exon_variant,,ENST00000577500,;LLGL2,upstream_gene_variant,,ENST00000578034,;LLGL2,upstream_gene_variant,,ENST00000583514,;LLGL2,downstream_gene_variant,,ENST00000580027,;LLGL2,upstream_gene_variant,,ENST00000582393,;LLGL2,upstream_gene_variant,,ENST00000577211,;LLGL2,upstream_gene_variant,,ENST00000579092,;	A	ENSG00000073350	ENST00000392550	Transcript	missense_variant	1621	1504	502	D/N	Gac/Aac	COSM176288	.	.	1	LLGL2	HGNC	6629	protein_coding	YES	CCDS32733.1	ENSP00000376333	L2GL2_HUMAN	J3QSA6_HUMAN,J3QRZ8_HUMAN,J3QLV4_HUMAN,J3QL58_HUMAN,J3KRE1_HUMAN	UPI00005905A8	.	deleterious(0)	probably_damaging(1)	14/26	.	hmmpanther:PTHR10241:SF20,hmmpanther:PTHR10241,Gene3D:2.130.10.10,Superfamily_domains:SSF50978,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTGATGACCCC	.	5	BLCA
TP53	0	.	GRCh37	17	7577127	7577127	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811G>A	p.Glu271Lys	p.E271K	ENST00000269305	8/11	14	6	8	16	16	0	TP53,missense_variant,p.Glu271Lys,ENST00000420246,;TP53,missense_variant,p.Glu271Lys,ENST00000269305,;TP53,missense_variant,p.Glu139Lys,ENST00000509690,;TP53,missense_variant,p.Glu271Lys,ENST00000359597,;TP53,missense_variant,p.Glu271Lys,ENST00000445888,;TP53,missense_variant,p.Glu271Lys,ENST00000455263,;TP53,intron_variant,,ENST00000413465,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000514944,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	1001	811	271	E/K	Gag/Aag	TP53_g.13791del,TP53_g.13791G>T,TP53_g.13791G>A,TP53_g.13791G>C,COSM43750,COSM10719,COSM43706,COSM131516,COSM254988,COSM165082,COSM3403256,COSM1646807,COSM1646806	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(0.999)	8/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E271K|c.811G>A|35,SITE|p.E271K|c.811G>A|13,SITE|p.E271K|c.811G>A|4,SITE|p.E271K|c.811G>A|8,CODON|p.0?|c.1_1182del1182|6,CODON|p.E271V|c.812A>T|8,CODON|p.E271G|c.812A>G|3,BUFFER|p.V274A|c.821T>C|8,BUFFER|p.V274A|c.821T>C|22,BUFFER|p.V274G|c.821T>G|8,BUFFER|p.V274D|c.821T>A|3,BUFFER|p.V274D|c.821T>A|10,BUFFER|p.V274F|c.820G>T|8,BUFFER|p.V274I|c.820G>A|4,BUFFER|p.V274L|c.820G>C|11,BUFFER|p.V274F|c.820G>T|3,BUFFER|p.V274F|c.820G>T|23,BUFFER|p.R273L|c.818G>T|98,BUFFER|p.R273P|c.818G>C|4,BUFFER|p.R273H|c.818G>A|116,BUFFER|p.R273H|c.818G>A|64,BUFFER|p.R273H|c.818G>A|588,BUFFER|p.R273L|c.818G>T|5,BUFFER|p.R273H|c.818G>A|83,BUFFER|p.R273P|c.818G>C|29,BUFFER|p.R273L|c.818G>T|18,BUFFER|p.R273L|c.818G>T|12,BUFFER|p.R273S|c.817C>A|4,BUFFER|p.R273C|c.817C>T|131,BUFFER|p.R273C|c.817C>T|571,BUFFER|p.R273C|c.817C>T|75,BUFFER|p.R273G|c.817C>G|10,BUFFER|p.R273S|c.817C>A|15,BUFFER|p.R273C|c.817C>T|59,BUFFER|p.V272E|c.815T>A|9,BUFFER|p.V272G|c.815T>G|7,BUFFER|p.V272A|c.815T>C|7,BUFFER|p.V272fs*73|c.814delG|3,BUFFER|p.V272L|c.814G>T|24,BUFFER|p.V272L|c.814G>T|4,BUFFER|p.V272M|c.814G>A|11,BUFFER|p.V272M|c.814G>A|84,BUFFER|p.V272M|c.814G>A|6,BUFFER|p.V272M|c.814G>A|22,BUFFER|p.V272L|c.814G>C|4,BUFFER|p.E271Q|c.811G>C|4,BUFFER|p.E271*|c.811G>T|16,BUFFER|p.E271*|c.811G>T|3,BUFFER|p.F270L|c.810T>G|4,BUFFER|p.F270L|c.810T>A|5,BUFFER|p.F270S|c.809T>C|3,BUFFER|p.F270Y|c.809T>A|5,BUFFER|p.F270C|c.809T>G|16,BUFFER|p.F270S|c.809T>C|3,BUFFER|p.F270S|c.809T>C|14,BUFFER|p.F270S|c.809T>C|6,BUFFER|p.F270L|c.808T>C|16,BUFFER|p.F270I|c.808T>A|3,BUFFER|p.F270V|c.808T>G|8,BUFFER|p.F270L|c.808T>C|3,BUFFER|p.F270I|c.808T>A|6,BUFFER|p.S269S|c.807C>T|3,BUFFER|p.S269N|c.806G>A|4,BUFFER|p.S269C|c.805A>T|4,BUFFER|p.S269G|c.805A>G|3,BUFFER|p.N268H|c.802A>C|3,BUFFER|p.R267R|c.801G>T|3,BUFFER|p.R267P|c.800G>C|5,BUFFER|p.R267Q|c.800G>A|3,BUFFER|p.R267P|c.800G>C|18,BUFFER|p.R267Q|c.800G>A|13,BUFFER|p.R267L|c.800G>T|6,BUFFER|p.R267L|c.800G>T|7,BUFFER|p.R267P|c.800G>C|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCTCAAAGC	.	5	BLCA
DNAH17	0	.	GRCh37	17	76440786	76440786	+	Missense_Mutation	SNP	C	C	T	rs774747332	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11386G>A	p.Glu3796Lys	p.E3796K	ENST00000389840	71/81	32	21	11	24	24	0	DNAH17,missense_variant,p.Glu3805Lys,ENST00000585328,;DNAH17,missense_variant,p.Glu3796Lys,ENST00000389840,;DNAH17,non_coding_transcript_exon_variant,,ENST00000586052,;DNAH17,missense_variant,p.Glu1011Lys,ENST00000591369,;DNAH17,non_coding_transcript_exon_variant,,ENST00000590227,;	T	ENSG00000187775	ENST00000389840	Transcript	missense_variant	11511	11386	3796	E/K	Gag/Aag	rs774747332	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	probably_damaging(0.999)	71/81	.	hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676,Pfam_domain:PF03028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCGGGGG	byFrequency	5	BLCA
DNAH17	0	.	GRCh37	17	76481699	76481699	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7374G>C	p.%3D	p.L2458L	ENST00000389840	47/81	34	27	7	39	39	0	DNAH17,synonymous_variant,p.%3D,ENST00000585328,;DNAH17,synonymous_variant,p.%3D,ENST00000389840,;RP11-559N14.5,intron_variant,,ENST00000585969,;RP11-559N14.5,intron_variant,,ENST00000588565,;DNAH17,non_coding_transcript_exon_variant,,ENST00000586052,;	G	ENSG00000187775	ENST00000389840	Transcript	synonymous_variant	7499	7374	2458	L	ctG/ctC	.	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	.	47/81	.	hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676,Pfam_domain:PF12775,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTGTTCAGGCT	.	3	BLCA
DLGAP1	0	.	GRCh37	18	3596881	3596881	+	Intron	SNP	A	A	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1592-14635T>A	.	.	ENST00000315677	.	31	22	8	30	30	0	DLGAP1,intron_variant,,ENST00000400149,;DLGAP1,intron_variant,,ENST00000400145,;DLGAP1,intron_variant,,ENST00000400147,;DLGAP1,intron_variant,,ENST00000539435,;DLGAP1,intron_variant,,ENST00000315677,;DLGAP1,intron_variant,,ENST00000581527,;DLGAP1,intron_variant,,ENST00000584874,;DLGAP1,intron_variant,,ENST00000400150,;DLGAP1,intron_variant,,ENST00000400155,;DLGAP1,intron_variant,,ENST00000581699,;DLGAP1,intron_variant,,ENST00000534970,;DLGAP1,intron_variant,,ENST00000515196,;DLGAP1-AS1,non_coding_transcript_exon_variant,,ENST00000317114,;DLGAP1-AS1,intron_variant,,ENST00000574411,;DLGAP1-AS1,intron_variant,,ENST00000573355,;DLGAP1-AS1,intron_variant,,ENST00000575606,;DLGAP1-AS1,intron_variant,,ENST00000576606,;DLGAP1-AS1,downstream_gene_variant,,ENST00000577995,;	T	ENSG00000170579	ENST00000315677	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	DLGAP1	HGNC	2905	protein_coding	YES	CCDS11836.1	ENSP00000316377	DLGP1_HUMAN	.	UPI0000129490	.	.	.	.	7/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCAATGCCG	.	5	BLCA
EPB41L3	0	.	GRCh37	18	5397353	5397353	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2545G>A	p.Glu849Lys	p.E849K	ENST00000341928	18/23	46	41	5	43	43	0	EPB41L3,missense_variant,p.Glu849Lys,ENST00000342933,;EPB41L3,missense_variant,p.Glu849Lys,ENST00000341928,;EPB41L3,missense_variant,p.Glu146Lys,ENST00000427684,;EPB41L3,missense_variant,p.Glu627Lys,ENST00000400111,;EPB41L3,missense_variant,p.Glu680Lys,ENST00000544123,;EPB41L3,missense_variant,p.Glu154Lys,ENST00000542146,;EPB41L3,missense_variant,p.Glu627Lys,ENST00000540638,;EPB41L3,upstream_gene_variant,,ENST00000579951,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000578524,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000581292,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000542652,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000545076,;EPB41L3,downstream_gene_variant,,ENST00000582729,;EPB41L3,downstream_gene_variant,,ENST00000578196,;EPB41L3,downstream_gene_variant,,ENST00000580316,;EPB41L3,downstream_gene_variant,,ENST00000581387,;EPB41L3,downstream_gene_variant,,ENST00000580647,;EPB41L3,downstream_gene_variant,,ENST00000579271,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000578618,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000584055,;	T	ENSG00000082397	ENST00000341928	Transcript	missense_variant	2886	2545	849	E/K	Gag/Aag	.	.	.	-1	EPB41L3	HGNC	3380	protein_coding	YES	CCDS11838.1	ENSP00000343158	E41L3_HUMAN	J3QS55_HUMAN,J3QRQ6_HUMAN,J3QR33_HUMAN,J3QKY2_HUMAN,J3QKK4_HUMAN,J3KS70_HUMAN,J3KRD1_HUMAN	UPI0000129AFA	.	tolerated_low_confidence(0.25)	benign(0.003)	18/23	.	hmmpanther:PTHR23280,hmmpanther:PTHR23280:SF20,PIRSF_domain:PIRSF002304	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAGTGC	.	4	BLCA
RTTN	0	.	GRCh37	18	67673620	67673620	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6522G>A	p.%3D	p.Q2174Q	ENST00000255674	47/49	44	25	18	45	45	0	RTTN,synonymous_variant,p.%3D,ENST00000255674,;RTTN,synonymous_variant,p.%3D,ENST00000578780,;RTTN,3_prime_UTR_variant,,ENST00000454359,;RTTN,3_prime_UTR_variant,,ENST00000581161,;RTTN,3_prime_UTR_variant,,ENST00000583043,;RTTN,downstream_gene_variant,,ENST00000580034,;	T	ENSG00000176225	ENST00000255674	Transcript	synonymous_variant	6809	6522	2174	Q	caG/caA	.	.	.	-1	RTTN	HGNC	18654	protein_coding	YES	CCDS42443.1	ENSP00000255674	RTTN_HUMAN	.	UPI0000201E92	.	.	.	47/49	.	Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR31691:SF1,hmmpanther:PTHR31691	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCTTCTGATA	.	5	BLCA
ICAM3	0	.	GRCh37	19	10450324	10450324	+	5'UTR	SNP	G	G	T	rs779184448	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-34C>A	.	.	ENST00000160262	1/7	15	11	4	18	18	0	ICAM3,5_prime_UTR_variant,,ENST00000160262,;ICAM3,upstream_gene_variant,,ENST00000592439,;ICAM3,upstream_gene_variant,,ENST00000592945,;ICAM3,upstream_gene_variant,,ENST00000589580,;ICAM3,upstream_gene_variant,,ENST00000589261,;ICAM3,upstream_gene_variant,,ENST00000589249,;ICAM3,upstream_gene_variant,,ENST00000590569,;ICAM3,non_coding_transcript_exon_variant,,ENST00000587992,;ICAM3,upstream_gene_variant,,ENST00000589900,;ICAM3,upstream_gene_variant,,ENST00000585439,;	T	ENSG00000076662	ENST00000160262	Transcript	5_prime_UTR_variant	176	.	.	.	.	rs779184448	.	.	-1	ICAM3	HGNC	5346	protein_coding	YES	CCDS12235.1	ENSP00000160262	ICAM3_HUMAN	K7ERN2_HUMAN,K7ERJ4_HUMAN,K7ELH4_HUMAN	UPI000013C59C	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGCCCGAAGGG	byFrequency	5	BLCA
EFNA2	0	.	GRCh37	19	1295653	1295653	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250G>A	p.Glu84Lys	p.E84K	ENST00000215368	2/4	22	17	5	12	12	0	EFNA2,missense_variant,p.Glu84Lys,ENST00000215368,;MUM1,intron_variant,,ENST00000344663,;	A	ENSG00000099617	ENST00000215368	Transcript	missense_variant	265	250	84	E/K	Gag/Aag	.	.	.	1	EFNA2	HGNC	3222	protein_coding	YES	CCDS12061.1	ENSP00000215368	EFNA2_HUMAN	Q9HCB5_HUMAN	UPI0000129C8E	.	tolerated(0.06)	benign(0.319)	2/4	.	PROSITE_profiles:PS51551,hmmpanther:PTHR11304,hmmpanther:PTHR11304:SF4,Pfam_domain:PF00812,Gene3D:2.60.40.420,Superfamily_domains:SSF49503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCCGAGCGC	.	5	BLCA
EMR2	0	.	GRCh37	19	14846947	14846947	+	3'UTR	INS	G	G	CA	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*101delCinsTG	.	.	ENST00000315576	21/21	50	36	14	47	47	0	EMR2,3_prime_UTR_variant,,ENST00000346057,;EMR2,3_prime_UTR_variant,,ENST00000353005,;EMR2,3_prime_UTR_variant,,ENST00000353876,;EMR2,3_prime_UTR_variant,,ENST00000392965,;EMR2,3_prime_UTR_variant,,ENST00000315576,;EMR2,3_prime_UTR_variant,,ENST00000392967,;EMR2,3_prime_UTR_variant,,ENST00000596991,;EMR2,downstream_gene_variant,,ENST00000594076,;EMR2,downstream_gene_variant,,ENST00000594294,;EMR2,downstream_gene_variant,,ENST00000595839,;ZNF333,downstream_gene_variant,,ENST00000540689,;EMR2,non_coding_transcript_exon_variant,,ENST00000360222,;	CA	ENSG00000127507	ENST00000315576	Transcript	3_prime_UTR_variant	3025	.	.	.	.	.	.	.	-1	EMR2	HGNC	3337	protein_coding	YES	CCDS32935.1	ENSP00000319883	EMR2_HUMAN	.	UPI000016393A	.	.	.	21/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	substitution	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL|VARSCANS*|SOMATICSNIPER*	TTTCTTGAAACA	.	5	BLCA
SBSN	0	.	GRCh37	19	36018914	36018914	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.270C>G	p.%3D	p.L90L	ENST00000452271	1/4	114	74	40	123	123	0	SBSN,synonymous_variant,p.%3D,ENST00000452271,;SBSN,synonymous_variant,p.%3D,ENST00000518157,;SBSN,synonymous_variant,p.%3D,ENST00000588674,;	C	ENSG00000189001	ENST00000452271	Transcript	synonymous_variant	299	270	90	L	ctC/ctG	.	.	.	-1	SBSN	HGNC	24950	protein_coding	YES	CCDS54253.1	ENSP00000430242	SBSN_HUMAN	.	UPI000059D6E7	.	.	.	1/4	.	hmmpanther:PTHR23243,hmmpanther:PTHR23243:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGTTGAGCCC	.	5	BLCA
COX6B1	0	.	GRCh37	19	36139804	36139804	+	Intron	SNP	C	C	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-12+499C>A	.	.	ENST00000246554	.	29	23	6	15	15	0	COX6B1,5_prime_UTR_variant,,ENST00000392201,;COX6B1,intron_variant,,ENST00000246554,;COX6B1,intron_variant,,ENST00000592141,;ETV2,downstream_gene_variant,,ENST00000403402,;COX6B1,upstream_gene_variant,,ENST00000590618,;ETV2,downstream_gene_variant,,ENST00000402764,;ETV2,downstream_gene_variant,,ENST00000379026,;ETV2,downstream_gene_variant,,ENST00000379023,;ETV2,downstream_gene_variant,,ENST00000479824,;ETV2,downstream_gene_variant,,ENST00000591135,;	A	ENSG00000126267	ENST00000246554	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	COX6B1	HGNC	2280	protein_coding	YES	CCDS12469.1	ENSP00000246554	CX6B1_HUMAN	.	UPI00000527BE	.	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAGATCTCGCC	.	5	BLCA
ZNF225	0	.	GRCh37	19	44635930	44635930	+	Missense_Mutation	SNP	C	C	T	rs368057631	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1163C>T	p.Ser388Leu	p.S388L	ENST00000262894	5/5	117	96	20	90	90	0	ZNF225,missense_variant,p.Ser388Leu,ENST00000262894,;ZNF225,missense_variant,p.Ser388Leu,ENST00000590612,;ZNF225,3_prime_UTR_variant,,ENST00000592780,;ZNF225,downstream_gene_variant,,ENST00000589155,;ZNF225,downstream_gene_variant,,ENST00000592360,;	T	ENSG00000256294	ENST00000262894	Transcript	missense_variant	1443	1163	388	S/L	tCa/tTa	rs368057631	.	.	1	ZNF225	HGNC	13018	protein_coding	YES	CCDS46100.1	ENSP00000262894	ZN225_HUMAN	K7ERU6_HUMAN,K7ENA2_HUMAN	UPI000016960F	.	tolerated(0.66)	benign(0.013)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24388,hmmpanther:PTHR24388:SF20,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	G:0.0002	G:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R392*|c.1174C>T|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCAAGAC	byCluster	5	BLCA
CBLC	0	.	GRCh37	19	45285711	45285711	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742C>G	p.Gln248Glu	p.Q248E	ENST00000270279	4/11	60	39	20	61	61	0	CBLC,missense_variant,p.Gln248Glu,ENST00000341505,;CBLC,missense_variant,p.Gln248Glu,ENST00000270279,;	G	ENSG00000142273	ENST00000270279	Transcript	missense_variant	805	742	248	Q/E	Caa/Gaa	.	.	.	1	CBLC	HGNC	15961	protein_coding	YES	CCDS12643.1	ENSP00000270279	CBLC_HUMAN	.	UPI000013D87E	.	tolerated(0.09)	benign(0.243)	4/11	.	Superfamily_domains:SSF55550,Gene3D:3.30.505.10,Pfam_domain:PF02762,hmmpanther:PTHR23007:SF1,hmmpanther:PTHR23007,PROSITE_profiles:PS51506	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTCCAAGAG	.	5	BLCA
SNRPD2	0	.	GRCh37	19	46190868	46190868	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300C>T	p.%3D	p.F100F	ENST00000342669	3/3	48	40	8	51	51	0	SNRPD2,synonymous_variant,p.%3D,ENST00000588301,;SNRPD2,synonymous_variant,p.%3D,ENST00000587367,;SNRPD2,synonymous_variant,p.%3D,ENST00000391932,;SNRPD2,synonymous_variant,p.%3D,ENST00000585392,;SNRPD2,synonymous_variant,p.%3D,ENST00000588599,;SNRPD2,synonymous_variant,p.%3D,ENST00000342669,;SNRPD2,3_prime_UTR_variant,,ENST00000590212,;QPCTL,upstream_gene_variant,,ENST00000012049,;GIPR,downstream_gene_variant,,ENST00000590918,;SNRPD2,downstream_gene_variant,,ENST00000587579,;	A	ENSG00000125743	ENST00000342669	Transcript	synonymous_variant	745	300	100	F	ttC/ttT	.	.	.	-1	SNRPD2	HGNC	11159	protein_coding	YES	CCDS33053.1	ENSP00000342374	SMD2_HUMAN	K7EJB5_HUMAN	UPI0000028222	.	.	.	3/3	.	hmmpanther:PTHR12777,Gene3D:2.30.30.100,Pfam_domain:PF01423,SMART_domains:SM00651,Superfamily_domains:SSF50182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGCAGGAACAT	.	5	BLCA
SNRPD2	0	.	GRCh37	19	46191731	46191731	+	Silent	SNP	G	G	C	rs754950951	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.96C>G	p.%3D	p.L32L	ENST00000342669	2/3	92	74	18	80	80	0	SNRPD2,synonymous_variant,p.%3D,ENST00000588301,;SNRPD2,synonymous_variant,p.%3D,ENST00000587367,;SNRPD2,synonymous_variant,p.%3D,ENST00000391932,;SNRPD2,synonymous_variant,p.%3D,ENST00000588599,;SNRPD2,synonymous_variant,p.%3D,ENST00000342669,;SNRPD2,synonymous_variant,p.%3D,ENST00000590212,;SNRPD2,splice_region_variant,,ENST00000585392,;QPCTL,upstream_gene_variant,,ENST00000366382,;QPCTL,upstream_gene_variant,,ENST00000012049,;GIPR,downstream_gene_variant,,ENST00000590918,;SNRPD2,downstream_gene_variant,,ENST00000587579,;QPCTL,upstream_gene_variant,,ENST00000591606,;	C	ENSG00000125743	ENST00000342669	Transcript	synonymous_variant	541	96	32	L	ctC/ctG	rs754950951	.	.	-1	SNRPD2	HGNC	11159	protein_coding	YES	CCDS33053.1	ENSP00000342374	SMD2_HUMAN	K7EJB5_HUMAN	UPI0000028222	.	.	.	2/3	.	hmmpanther:PTHR12777,Gene3D:2.30.30.100,SMART_domains:SM00651,Superfamily_domains:SSF50182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGTGAGCAC	.	5	BLCA
BBC3	0	.	GRCh37	19	47725002	47725002	+	Missense_Mutation	SNP	G	G	C	rs762793628	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.742C>G	p.Pro248Ala	p.P248A	ENST00000449228	4/4	8	5	3	10	10	0	BBC3,missense_variant,p.Pro88Ala,ENST00000300880,;BBC3,missense_variant,p.Pro248Ala,ENST00000449228,;BBC3,3_prime_UTR_variant,,ENST00000341983,;BBC3,3_prime_UTR_variant,,ENST00000439096,;BBC3,non_coding_transcript_exon_variant,,ENST00000601438,;BBC3,non_coding_transcript_exon_variant,,ENST00000598636,;	C	ENSG00000105327	ENST00000449228	Transcript	missense_variant	906	742	248	P/A	Cct/Gct	rs762793628	.	.	-1	BBC3	HGNC	17868	protein_coding	YES	CCDS46129.1	ENSP00000404503	BBC3B_HUMAN	.	UPI000013E6A8	.	deleterious_low_confidence(0.03)	possibly_damaging(0.908)	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCAGGAGGTG	byFrequency	2	BLCA
ZNF350	0	.	GRCh37	19	52469017	52469017	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.689G>A	p.Gly230Glu	p.G230E	ENST00000243644	5/5	147	124	23	119	119	0	ZNF350,missense_variant,p.Gly230Glu,ENST00000243644,;ZNF350,downstream_gene_variant,,ENST00000593596,;ZNF350,downstream_gene_variant,,ENST00000594929,;ZNF350,downstream_gene_variant,,ENST00000601430,;ZNF350,downstream_gene_variant,,ENST00000597788,;HCCAT3,intron_variant,,ENST00000600253,;HCCAT3,intron_variant,,ENST00000595010,;ZNF350,downstream_gene_variant,,ENST00000600703,;ZNF350,downstream_gene_variant,,ENST00000598254,;	T	ENSG00000256683	ENST00000243644	Transcript	missense_variant	917	689	230	G/E	gGa/gAa	.	.	.	-1	ZNF350	HGNC	16656	protein_coding	YES	CCDS12845.1	ENSP00000243644	ZN350_HUMAN	M0R1T8_HUMAN,M0R017_HUMAN,M0QYT6_HUMAN,M0QY52_HUMAN	UPI00000721F1	.	deleterious(0.01)	probably_damaging(1)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24404,hmmpanther:PTHR24404:SF11,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCCTGTA	.	4	BLCA
CACNG7	0	.	GRCh37	19	54445440	54445440	+	Missense_Mutation	SNP	C	C	T	rs777004997	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.721C>T	p.Arg241Trp	p.R241W	ENST00000391767	6/6	69	57	11	71	71	0	CACNG7,missense_variant,p.Arg241Trp,ENST00000391767,;CACNG7,missense_variant,p.Arg241Trp,ENST00000222212,;CACNG7,downstream_gene_variant,,ENST00000391766,;CACNG7,downstream_gene_variant,,ENST00000468076,;	T	ENSG00000105605	ENST00000391767	Transcript	missense_variant	933	721	241	R/W	Cgg/Tgg	rs777004997,COSM3378839	.	.	1	CACNG7	HGNC	13626	protein_coding	YES	CCDS12868.1	ENSP00000375647	CCG7_HUMAN	.	UPI00000010F1	.	deleterious_low_confidence(0)	probably_damaging(1)	6/6	.	hmmpanther:PTHR12107:SF3,hmmpanther:PTHR12107	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCGGCCGGAGC	byFrequency	5	BLCA
ZNF581	0	.	GRCh37	19	56156236	56156236	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.299C>G	p.Ser100Cys	p.S100C	ENST00000587252	2/2	49	44	5	40	40	0	ZNF581,missense_variant,p.Ser100Cys,ENST00000588537,;ZNF581,missense_variant,p.Ser100Cys,ENST00000270451,;ZNF581,missense_variant,p.Ser100Cys,ENST00000587252,;ZNF581,missense_variant,p.Ser100Cys,ENST00000585995,;CCDC106,intron_variant,,ENST00000592996,;ZNF580,downstream_gene_variant,,ENST00000592881,;ZNF580,downstream_gene_variant,,ENST00000325333,;CCDC106,upstream_gene_variant,,ENST00000591241,;ZNF580,downstream_gene_variant,,ENST00000592461,;ZNF580,downstream_gene_variant,,ENST00000545125,;ZNF580,downstream_gene_variant,,ENST00000543039,;CCDC106,upstream_gene_variant,,ENST00000308964,;CCDC106,upstream_gene_variant,,ENST00000591578,;CCDC106,upstream_gene_variant,,ENST00000588740,;ZNF580,downstream_gene_variant,,ENST00000590190,;CCDC106,upstream_gene_variant,,ENST00000586790,;CCDC106,upstream_gene_variant,,ENST00000593069,;CCDC106,upstream_gene_variant,,ENST00000587213,;CCDC106,upstream_gene_variant,,ENST00000586864,;	G	ENSG00000171425	ENST00000587252	Transcript	missense_variant	572	299	100	S/C	tCc/tGc	.	.	.	1	ZNF581	HGNC	25017	protein_coding	YES	CCDS12932.1	ENSP00000466047	ZN581_HUMAN	K7EM32_HUMAN	UPI0000070E84	.	deleterious(0.02)	benign(0.414)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23228,hmmpanther:PTHR23228:SF110,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATGTCCTACC	.	3	BLCA
ZNF583	0	.	GRCh37	19	56935499	56935499	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1472C>T	p.Pro491Leu	p.P491L	ENST00000333201	5/5	87	69	18	85	84	1	ZNF583,missense_variant,p.Pro491Leu,ENST00000333201,;ZNF583,missense_variant,p.Pro491Leu,ENST00000291598,;ZNF583,downstream_gene_variant,,ENST00000391778,;ZNF583,downstream_gene_variant,,ENST00000537943,;ZNF583,intron_variant,,ENST00000585612,;	T	ENSG00000198440	ENST00000333201	Transcript	missense_variant	1682	1472	491	P/L	cCt/cTt	.	.	.	1	ZNF583	HGNC	26427	protein_coding	YES	CCDS12943.1	ENSP00000388502	ZN583_HUMAN	I3L0C4_HUMAN,F5GZQ5_HUMAN	UPI000013E700	.	deleterious(0)	probably_damaging(1)	5/5	.	Superfamily_domains:SSF57667,Superfamily_domains:SSF57667,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24387:SF211,hmmpanther:PTHR24387,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAACCTTATG	.	5	BLCA
C3	0	.	GRCh37	19	6697705	6697705	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2541C>T	p.%3D	p.I847I	ENST00000245907	20/41	46	36	9	41	41	0	C3,synonymous_variant,p.%3D,ENST00000245907,;C3,non_coding_transcript_exon_variant,,ENST00000594005,;C3,non_coding_transcript_exon_variant,,ENST00000602053,;C3,upstream_gene_variant,,ENST00000598805,;	A	ENSG00000125730	ENST00000245907	Transcript	synonymous_variant	2634	2541	847	I	atC/atT	.	.	.	-1	C3	HGNC	1318	protein_coding	YES	CCDS32883.1	ENSP00000245907	CO3_HUMAN	Q6LDJ0_HUMAN,M0R1Q1_HUMAN	UPI000013EC9B	.	.	.	20/41	.	hmmpanther:PTHR11412,hmmpanther:PTHR11412:SF81,Pfam_domain:PF00207	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCGGATTTC	.	5	BLCA
PRTN3	0	.	GRCh37	19	847847	847847	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649G>C	p.Asp217His	p.D217H	ENST00000234347	5/5	14	8	5	16	16	0	PRTN3,missense_variant,p.Asp176His,ENST00000544537,;PRTN3,missense_variant,p.Asp217His,ENST00000234347,;ELANE,upstream_gene_variant,,ENST00000263621,;ELANE,upstream_gene_variant,,ENST00000590230,;	C	ENSG00000196415	ENST00000234347	Transcript	missense_variant	695	649	217	D/H	Gac/Cac	.	.	.	1	PRTN3	HGNC	9495	protein_coding	YES	CCDS32860.1	ENSP00000234347	PRTN3_HUMAN	U3KPS2_HUMAN	UPI0000132263	.	tolerated(0.1)	possibly_damaging(0.725)	5/5	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24257:SF15,hmmpanther:PTHR24257,Pfam_domain:PF00089,Gene3D:2.40.10.10,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE	GAATAGACTCC	.	4	BLCA
MUC16	0	.	GRCh37	19	8974089	8974089	+	Missense_Mutation	SNP	C	C	G	rs766446620	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.42582G>C	p.Gln14194His	p.Q14194H	ENST00000397910	76/84	18	14	4	22	22	0	MUC16,missense_variant,p.Gln835His,ENST00000380951,;MUC16,missense_variant,p.Gln14194His,ENST00000397910,;MUC16,missense_variant,p.Gln1017His,ENST00000599436,;MUC16,non_coding_transcript_exon_variant,,ENST00000596956,;MUC16,missense_variant,p.Gln1012His,ENST00000601404,;MUC16,intron_variant,,ENST00000596768,;	G	ENSG00000181143	ENST00000397910	Transcript	missense_variant	42786	42582	14194	Q/H	caG/caC	rs766446620,COSM3836214	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	probably_damaging(0.994)	76/84	.	Gene3D:1ivzA00,hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAATTCTGGGG	.	5	BLCA
DCLRE1B	0	.	GRCh37	1	114454864	114454864	+	3'UTR	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*51G>C	.	.	ENST00000369563	4/4	28	18	10	35	35	0	DCLRE1B,3_prime_UTR_variant,,ENST00000369563,;DCLRE1B,non_coding_transcript_exon_variant,,ENST00000466480,;	C	ENSG00000118655	ENST00000369563	Transcript	3_prime_UTR_variant	2096	.	.	.	.	.	.	.	1	DCLRE1B	HGNC	17641	protein_coding	YES	CCDS866.1	ENSP00000358576	DCR1B_HUMAN	.	UPI000006FBBC	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGAAGATAGT	.	5	BLCA
VPS13D	0	.	GRCh37	1	12302617	12302617	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.145G>C	p.Glu49Gln	p.E49Q	ENST00000358136	3/70	44	39	4	29	29	0	VPS13D,missense_variant,p.Glu49Gln,ENST00000358136,;VPS13D,missense_variant,p.Glu49Gln,ENST00000356315,;VPS13D,upstream_gene_variant,,ENST00000476169,;	C	ENSG00000048707	ENST00000358136	Transcript	missense_variant	275	145	49	E/Q	Gaa/Caa	.	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	probably_damaging(0.969)	3/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166,Pfam_domain:PF12624	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGAAAGAATTG	.	3	BLCA
VPS13D	0	.	GRCh37	1	12557613	12557613	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12722C>A	p.Pro4241His	p.P4241H	ENST00000358136	68/70	50	46	4	57	57	0	VPS13D,missense_variant,p.Pro4241His,ENST00000358136,;VPS13D,missense_variant,p.Pro3063His,ENST00000011700,;VPS13D,missense_variant,p.Pro45His,ENST00000543710,;VPS13D,missense_variant,p.Pro4216His,ENST00000356315,;VPS13D,missense_variant,p.Pro239His,ENST00000543766,;VPS13D,5_prime_UTR_variant,,ENST00000471923,;VPS13D,non_coding_transcript_exon_variant,,ENST00000496628,;VPS13D,non_coding_transcript_exon_variant,,ENST00000473099,;	A	ENSG00000048707	ENST00000358136	Transcript	missense_variant	12852	12722	4241	P/H	cCc/cAc	.	.	.	1	VPS13D	HGNC	23595	protein_coding	YES	CCDS30588.1	ENSP00000350854	.	M0QXS2_HUMAN,J3KP14_HUMAN	UPI0000451CA9	.	.	probably_damaging(0.996)	68/70	.	hmmpanther:PTHR16166:SF93,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTCCCCGAT	.	2	BLCA
LCE2A	0	.	GRCh37	1	152671499	152671499	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.122C>G	p.Ser41Cys	p.S41C	ENST00000368779	2/2	129	89	40	108	108	0	LCE2A,missense_variant,p.Ser41Cys,ENST00000368779,;	G	ENSG00000187173	ENST00000368779	Transcript	missense_variant	173	122	41	S/C	tCt/tGt	COSM896237	.	.	1	LCE2A	HGNC	29469	protein_coding	YES	CCDS1021.1	ENSP00000357768	LCE2A_HUMAN	.	UPI00001927D5	.	tolerated_low_confidence(0.13)	unknown(0)	2/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23263,hmmpanther:PTHR23263:SF18,Pfam_domain:PF14672	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTCTTCCT	.	5	BLCA
FCRL4	0	.	GRCh37	1	157545345	157545345	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1517G>A	p.Gly506Glu	p.G506E	ENST00000271532	12/12	71	55	16	62	62	0	FCRL4,missense_variant,p.Gly506Glu,ENST00000271532,;FCRL4,non_coding_transcript_exon_variant,,ENST00000448509,;FCRL4,downstream_gene_variant,,ENST00000479869,;	T	ENSG00000163518	ENST00000271532	Transcript	missense_variant	1653	1517	506	G/E	gGa/gAa	.	.	.	-1	FCRL4	HGNC	18507	protein_coding	YES	CCDS1166.1	ENSP00000271532	FCRL4_HUMAN	.	UPI000006E26B	.	tolerated(0.1)	possibly_damaging(0.888)	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCCAGCT	.	5	BLCA
SELP	0	.	GRCh37	1	169565266	169565266	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1998C>T	p.%3D	p.T666T	ENST00000263686	12/17	309	218	90	251	251	0	SELP,synonymous_variant,p.%3D,ENST00000263686,;SELP,synonymous_variant,p.%3D,ENST00000367793,;SELP,synonymous_variant,p.%3D,ENST00000458599,;SELP,synonymous_variant,p.%3D,ENST00000367794,;SELP,synonymous_variant,p.%3D,ENST00000426706,;SELP,synonymous_variant,p.%3D,ENST00000367786,;SELP,synonymous_variant,p.%3D,ENST00000367792,;SELP,synonymous_variant,p.%3D,ENST00000367788,;SELP,synonymous_variant,p.%3D,ENST00000367791,;SELP,upstream_gene_variant,,ENST00000466167,;	A	ENSG00000174175	ENST00000263686	Transcript	synonymous_variant	2036	1998	666	T	acC/acT	.	.	.	-1	SELP	HGNC	10721	protein_coding	YES	CCDS1282.1	ENSP00000263686	LYAM3_HUMAN	Q6ULR6_HUMAN	UPI0000204D4A	.	.	.	12/17	.	PROSITE_profiles:PS50923,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF19,Gene3D:2.10.70.10,Pfam_domain:PF00084,SMART_domains:SM00032,Superfamily_domains:SSF57535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAAGTGGTATT	.	5	BLCA
RNASEL	0	.	GRCh37	1	182551220	182551220	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1740G>A	p.%3D	p.L580L	ENST00000367559	4/7	128	96	32	84	84	0	RNASEL,synonymous_variant,p.%3D,ENST00000444138,;RNASEL,synonymous_variant,p.%3D,ENST00000539397,;RNASEL,synonymous_variant,p.%3D,ENST00000367559,;	T	ENSG00000135828	ENST00000367559	Transcript	synonymous_variant	1994	1740	580	L	ctG/ctA	.	.	.	-1	RNASEL	HGNC	10050	protein_coding	YES	CCDS1347.1	ENSP00000356530	RN5A_HUMAN	.	UPI000005339F	.	.	.	4/7	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,hmmpanther:PTHR24141,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCAGCAGGTC	.	5	BLCA
PTPRC	0	.	GRCh37	1	198698263	198698263	+	Intron	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1830-3C>T	.	.	ENST00000442510	.	76	59	16	84	84	0	PTPRC,splice_region_variant,,ENST00000594404,;PTPRC,splice_region_variant,,ENST00000348564,;PTPRC,splice_region_variant,,ENST00000352140,;PTPRC,splice_region_variant,,ENST00000530727,;PTPRC,splice_region_variant,,ENST00000367376,;PTPRC,splice_region_variant,,ENST00000367367,;PTPRC,splice_region_variant,,ENST00000442510,;PTPRC,splice_region_variant,,ENST00000529828,;	T	ENSG00000081237	ENST00000442510	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	PTPRC	HGNC	9666	protein_coding	YES	CCDS1397.2	ENSP00000411355	.	M9MML3_HUMAN,Q9H3X6_HUMAN,Q6QIR3_HUMAN,Q6QIQ5_HUMAN,Q6QIN9_HUMAN,Q6QIN1_HUMAN,Q6QIM3_HUMAN,Q6LDN6_HUMAN	UPI000046FDB4	.	.	.	.	16/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCACAGCAA	.	4	BLCA
NR5A2	0	.	GRCh37	1	200017650	200017650	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.814G>C	p.Glu272Gln	p.E272Q	ENST00000367362	5/8	63	38	25	47	47	0	NR5A2,missense_variant,p.Glu200Gln,ENST00000544748,;NR5A2,missense_variant,p.Glu226Gln,ENST00000236914,;NR5A2,missense_variant,p.Glu272Gln,ENST00000367362,;NR5A2,missense_variant,p.Glu193Gln,ENST00000367357,;NR5A2,downstream_gene_variant,,ENST00000474307,;	C	ENSG00000116833	ENST00000367362	Transcript	missense_variant	1060	814	272	E/Q	Gag/Cag	.	.	.	1	NR5A2	HGNC	7984	protein_coding	YES	CCDS1401.1	ENSP00000356331	NR5A2_HUMAN	Q8WY08_HUMAN,B4E2P3_HUMAN	UPI0000130482	.	tolerated(0.1)	benign(0.128)	5/8	.	hmmpanther:PTHR24086:SF18,hmmpanther:PTHR24086,PIRSF_domain:PIRSF002530	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTCTGAGTAC	.	5	BLCA
KDM5B	0	.	GRCh37	1	202698960	202698960	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4372G>T	p.Glu1458Ter	p.E1458*	ENST00000367265	26/27	267	193	74	214	213	0	KDM5B,stop_gained,p.Glu1494Ter,ENST00000367264,;KDM5B,stop_gained,p.Glu1458Ter,ENST00000367265,;KDM5B,downstream_gene_variant,,ENST00000235790,;KDM5B,non_coding_transcript_exon_variant,,ENST00000472822,;KDM5B,downstream_gene_variant,,ENST00000491153,;	A	ENSG00000117139	ENST00000367265	Transcript	stop_gained	5537	4372	1458	E/*	Gaa/Taa	.	.	.	-1	KDM5B	HGNC	18039	protein_coding	YES	CCDS30974.1	ENSP00000356234	KDM5B_HUMAN	Q9UIW7_HUMAN,Q9UFD3_HUMAN,Q9UFC7_HUMAN,Q9NSZ7_HUMAN,Q6UGB8_HUMAN,B3KV94_HUMAN,B3KMS8_HUMAN,B3KMS2_HUMAN	UPI0000032AA2	.	.	.	26/27	.	hmmpanther:PTHR10694,hmmpanther:PTHR10694:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R1461C|c.4381C>T|4	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAATTCATAGC	.	5	BLCA
MARC2	0	.	GRCh37	1	220928421	220928421	+	Silent	SNP	G	G	A	rs759427775	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.405G>A	p.%3D	p.L135L	ENST00000366913	2/8	112	97	15	91	91	0	MARC2,synonymous_variant,p.%3D,ENST00000425560,;MARC2,synonymous_variant,p.%3D,ENST00000366913,;MARC2,synonymous_variant,p.%3D,ENST00000359316,;MARC2,upstream_gene_variant,,ENST00000496078,;MARC2,downstream_gene_variant,,ENST00000469583,;	A	ENSG00000117791	ENST00000366913	Transcript	synonymous_variant	603	405	135	L	ttG/ttA	rs759427775	.	.	1	MARC2	HGNC	26064	protein_coding	YES	CCDS1525.1	ENSP00000355880	MOSC2_HUMAN	.	UPI000003ED29	.	.	.	2/8	.	Superfamily_domains:0052540,Pfam_domain:PF03476,hmmpanther:PTHR14237:SF17,hmmpanther:PTHR14237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTTTGCCTAG	.	4	BLCA
NVL	0	.	GRCh37	1	224475612	224475612	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1659G>C	p.%3D	p.L553L	ENST00000281701	14/23	62	45	16	52	52	0	NVL,synonymous_variant,p.%3D,ENST00000482491,;NVL,synonymous_variant,p.%3D,ENST00000361463,;NVL,synonymous_variant,p.%3D,ENST00000340871,;NVL,synonymous_variant,p.%3D,ENST00000391875,;NVL,synonymous_variant,p.%3D,ENST00000281701,;NVL,synonymous_variant,p.%3D,ENST00000469968,;NVL,synonymous_variant,p.%3D,ENST00000469075,;NVL,downstream_gene_variant,,ENST00000462893,;NVL,downstream_gene_variant,,ENST00000467882,;	G	ENSG00000143748	ENST00000281701	Transcript	synonymous_variant	1919	1659	553	L	ctG/ctC	.	.	.	-1	NVL	HGNC	8070	protein_coding	YES	CCDS1541.1	ENSP00000281701	NVL_HUMAN	Q96PA2_HUMAN	UPI0000073F3E	.	.	.	14/23	.	Gene3D:3.40.50.300,hmmpanther:PTHR23077,hmmpanther:PTHR23077:SF55	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCATTCAGTTC	.	5	BLCA
WDR26	0	.	GRCh37	1	224619465	224619465	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441C>T	p.%3D	p.L147L	ENST00000414423	2/14	85	67	18	55	55	0	WDR26,synonymous_variant,p.%3D,ENST00000414423,;WDR26,synonymous_variant,p.%3D,ENST00000366852,;WDR26,5_prime_UTR_variant,,ENST00000445239,;WDR26,5_prime_UTR_variant,,ENST00000295024,;WDR26,intron_variant,,ENST00000477425,;CNIH3,upstream_gene_variant,,ENST00000483512,;CNIH3,upstream_gene_variant,,ENST00000498126,;CNIH3,upstream_gene_variant,,ENST00000471578,;WDR26,synonymous_variant,p.%3D,ENST00000486652,;WDR26,non_coding_transcript_exon_variant,,ENST00000443112,;WDR26,non_coding_transcript_exon_variant,,ENST00000489825,;WDR26,non_coding_transcript_exon_variant,,ENST00000479778,;	A	ENSG00000162923	ENST00000414423	Transcript	synonymous_variant	635	441	147	L	ctC/ctT	.	.	.	-1	WDR26	HGNC	21208	protein_coding	YES	CCDS31037.2	ENSP00000408108	WDR26_HUMAN	C9JCS7_HUMAN	UPI0000203FB7	.	.	.	2/14	.	hmmpanther:PTHR22838:SF0,hmmpanther:PTHR22838,PROSITE_profiles:PS50896	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCATGAGGAG	.	4	BLCA
OBSCN	0	.	GRCh37	1	228491470	228491470	+	Silent	SNP	C	C	T	rs753584750	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13833C>T	p.%3D	p.P4611P	ENST00000570156	52/116	110	82	28	105	105	0	OBSCN,synonymous_variant,p.%3D,ENST00000366707,;OBSCN,synonymous_variant,p.%3D,ENST00000483539,;OBSCN,synonymous_variant,p.%3D,ENST00000570156,;OBSCN,3_prime_UTR_variant,,ENST00000359599,;OBSCN,intron_variant,,ENST00000366709,;OBSCN,intron_variant,,ENST00000284548,;OBSCN,intron_variant,,ENST00000422127,;RP5-1139B12.4,upstream_gene_variant,,ENST00000602778,;OBSCN,downstream_gene_variant,,ENST00000602685,;OBSCN,non_coding_transcript_exon_variant,,ENST00000602832,;	T	ENSG00000154358	ENST00000570156	Transcript	synonymous_variant	13907	13833	4611	P	ccC/ccT	rs753584750	.	.	1	OBSCN	HGNC	15719	protein_coding	YES	CCDS59204.1	ENSP00000455507	.	H3BPX2_HUMAN	UPI00027FCDB5	.	.	.	52/116	.	PROSITE_profiles:PS50835,hmmpanther:PTHR19897,hmmpanther:PTHR19897:SF17,Gene3D:2.60.40.10,Pfam_domain:PF07679,SMART_domains:SM00408,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCCCGTGGA	byFrequency	5	BLCA
ZNF436	0	.	GRCh37	1	23689318	23689318	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.557G>A	p.Arg186Lys	p.R186K	ENST00000314011	4/4	185	153	31	148	148	0	ZNF436,missense_variant,p.Arg186Lys,ENST00000314011,;ZNF436,missense_variant,p.Arg186Lys,ENST00000374608,;	T	ENSG00000125945	ENST00000314011	Transcript	missense_variant	694	557	186	R/K	aGa/aAa	COSM1340410	.	.	-1	ZNF436	HGNC	20814	protein_coding	YES	CCDS233.1	ENSP00000313582	ZN436_HUMAN	Q15921_HUMAN	UPI0000001669	.	tolerated(0.05)	possibly_damaging(0.786)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGTTCTTTGA	.	4	BLCA
RYR2	0	.	GRCh37	1	237947202	237947202	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12190G>A	p.Glu4064Lys	p.E4064K	ENST00000366574	90/105	22	15	7	15	15	0	RYR2,missense_variant,p.Glu4048Lys,ENST00000542537,;RYR2,missense_variant,p.Glu4064Lys,ENST00000366574,;RYR2,missense_variant,p.Glu4070Lys,ENST00000360064,;RYR2,non_coding_transcript_exon_variant,,ENST00000609119,;	A	ENSG00000198626	ENST00000366574	Transcript	missense_variant	12507	12190	4064	E/K	Gaa/Aaa	.	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	benign(0.146)	90/105	.	Superfamily_domains:SSF47473,Gene3D:1.10.238.10,hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.T4069M|c.12206C>T|5,CODON|p.T4063M|c.12188C>T|6	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACGGAATTT	.	5	BLCA
CHML	0	.	GRCh37	1	241797911	241797911	+	Silent	SNP	G	G	A	rs570614891	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1158C>T	p.%3D	p.P386P	ENST00000366553	1/1	80	69	11	53	53	0	CHML,synonymous_variant,p.%3D,ENST00000366553,;OPN3,intron_variant,,ENST00000331838,;OPN3,intron_variant,,ENST00000366554,;OPN3,intron_variant,,ENST00000469376,;OPN3,intron_variant,,ENST00000490673,;OPN3,intron_variant,,ENST00000478849,;OPN3,intron_variant,,ENST00000463155,;	A	ENSG00000203668	ENST00000366553	Transcript	synonymous_variant	1322	1158	386	P	ccC/ccT	rs570614891	.	.	-1	CHML	HGNC	1941	protein_coding	YES	CCDS31073.1	ENSP00000355511	RAE2_HUMAN	.	UPI0000073C74	.	.	.	1/1	.	hmmpanther:PTHR11787,hmmpanther:PTHR11787:SF6,Gene3D:3.50.50.60,Pfam_domain:PF00996,PIRSF_domain:PIRSF016550,Superfamily_domains:SSF51905,Prints_domain:PR00891	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCCTGGGGAAT	by1000G	5	BLCA
KPNA6	0	.	GRCh37	1	32620298	32620298	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>G	p.%3D	p.L38L	ENST00000373625	2/14	27	19	7	31	31	0	KPNA6,synonymous_variant,p.%3D,ENST00000545542,;KPNA6,synonymous_variant,p.%3D,ENST00000537234,;KPNA6,synonymous_variant,p.%3D,ENST00000373625,;KPNA6,upstream_gene_variant,,ENST00000446515,;KPNA6,non_coding_transcript_exon_variant,,ENST00000469790,;KPNA6,synonymous_variant,p.%3D,ENST00000471599,;	G	ENSG00000025800	ENST00000373625	Transcript	synonymous_variant	207	114	38	L	ctC/ctG	.	.	.	1	KPNA6	HGNC	6399	protein_coding	YES	CCDS352.1	ENSP00000362728	IMA7_HUMAN	G1UI19_HUMAN,F5H4G7_HUMAN	UPI000006D3B6	.	.	.	2/14	.	Coiled-coils_(Ncoils):Coil,PROSITE_profiles:PS51214,hmmpanther:PTHR23316:SF8,hmmpanther:PTHR23316,Pfam_domain:PF01749,Gene3D:1.25.10.10,PIRSF_domain:PIRSF005673,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGCTCCGGAA	.	5	BLCA
HDAC1	0	.	GRCh37	1	32793253	32793253	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.611A>C	p.Tyr204Ser	p.Y204S	ENST00000373548	6/14	57	49	7	34	34	0	HDAC1,missense_variant,p.Tyr204Ser,ENST00000373548,;HDAC1,missense_variant,p.Tyr179Ser,ENST00000428704,;HDAC1,missense_variant,p.Tyr11Ser,ENST00000373541,;HDAC1,non_coding_transcript_exon_variant,,ENST00000490081,;HDAC1,non_coding_transcript_exon_variant,,ENST00000482310,;HDAC1,non_coding_transcript_exon_variant,,ENST00000481281,;HDAC1,non_coding_transcript_exon_variant,,ENST00000472928,;HDAC1,downstream_gene_variant,,ENST00000463172,;HDAC1,upstream_gene_variant,,ENST00000476391,;HDAC1,upstream_gene_variant,,ENST00000471488,;HDAC1,upstream_gene_variant,,ENST00000484305,;	C	ENSG00000116478	ENST00000373548	Transcript	missense_variant	695	611	204	Y/S	tAc/tCc	.	.	.	1	HDAC1	HGNC	4852	protein_coding	YES	CCDS360.1	ENSP00000362649	HDAC1_HUMAN	Q6IT96_HUMAN,F5GXM1_HUMAN	UPI0000035528	.	deleterious(0.01)	benign(0.328)	6/14	.	hmmpanther:PTHR10625:SF113,hmmpanther:PTHR10625,Pfam_domain:PF00850,Gene3D:3.40.800.20,PIRSF_domain:PIRSF037913,Superfamily_domains:SSF52768	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAGTACTTCC	.	4	BLCA
CCDC23	0	.	GRCh37	1	43273169	43273169	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.117C>A	p.%3D	p.I39I	ENST00000372521	3/3	62	52	9	61	61	0	CCDC23,synonymous_variant,p.%3D,ENST00000372522,;CCDC23,synonymous_variant,p.%3D,ENST00000537227,;CCDC23,synonymous_variant,p.%3D,ENST00000372521,;	T	ENSG00000177868	ENST00000372521	Transcript	synonymous_variant	216	117	39	I	atC/atA	.	.	.	-1	CCDC23	HGNC	29204	protein_coding	YES	CCDS474.1	ENSP00000361599	CCD23_HUMAN	.	UPI000006CFBA	.	.	.	3/3	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCATAGATCTG	.	4	BLCA
ZCCHC11	0	.	GRCh37	1	52962747	52962747	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1108G>A	p.Asp370Asn	p.D370N	ENST00000257177	5/30	59	50	8	58	58	0	ZCCHC11,missense_variant,p.Asp370Asn,ENST00000257177,;ZCCHC11,missense_variant,p.Asp129Asn,ENST00000484723,;ZCCHC11,missense_variant,p.Asp370Asn,ENST00000528642,;ZCCHC11,missense_variant,p.Asp370Asn,ENST00000371544,;ZCCHC11,non_coding_transcript_exon_variant,,ENST00000371541,;ZCCHC11,intron_variant,,ENST00000473856,;	T	ENSG00000134744	ENST00000257177	Transcript	missense_variant	1253	1108	370	D/N	Gat/Aat	.	.	.	-1	ZCCHC11	HGNC	28981	protein_coding	YES	CCDS30715.1	ENSP00000257177	TUT4_HUMAN	H0YEY0_HUMAN,E9PQS7_HUMAN,E9PJN7_HUMAN	UPI00001D7D0C	.	tolerated(0.35)	benign(0.007)	5/30	.	hmmpanther:PTHR12271,hmmpanther:PTHR12271:SF49,Gene3D:3.30.460.10,Superfamily_domains:SSF81301	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCATCTGTTA	.	5	BLCA
HSPB11	0	.	GRCh37	1	54387340	54387340	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.419C>T	p.Ser140Leu	p.S140L	ENST00000194214	6/6	84	65	18	65	65	0	HSPB11,missense_variant,p.Ser140Leu,ENST00000194214,;HSPB11,intron_variant,,ENST00000371378,;HSPB11,downstream_gene_variant,,ENST00000371377,;HSPB11,non_coding_transcript_exon_variant,,ENST00000489675,;	A	ENSG00000081870	ENST00000194214	Transcript	missense_variant	809	419	140	S/L	tCa/tTa	COSM3934783	.	.	-1	HSPB11	HGNC	25019	protein_coding	YES	CCDS41341.1	ENSP00000194214	IFT25_HUMAN	.	UPI000003F04C	.	tolerated_low_confidence(0.09)	benign(0.006)	6/6	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTTGAGACT	.	5	BLCA
PARK7	0	.	GRCh37	1	8025425	8025425	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132A>G	p.%3D	p.V44V	ENST00000493678	3/7	68	52	16	61	61	0	PARK7,synonymous_variant,p.%3D,ENST00000377493,;PARK7,synonymous_variant,p.%3D,ENST00000469225,;PARK7,synonymous_variant,p.%3D,ENST00000377488,;PARK7,synonymous_variant,p.%3D,ENST00000493678,;PARK7,synonymous_variant,p.%3D,ENST00000493373,;PARK7,synonymous_variant,p.%3D,ENST00000338639,;PARK7,synonymous_variant,p.%3D,ENST00000377491,;PARK7,non_coding_transcript_exon_variant,,ENST00000497113,;PARK7,non_coding_transcript_exon_variant,,ENST00000465354,;PARK7,non_coding_transcript_exon_variant,,ENST00000460192,;	G	ENSG00000116288	ENST00000493678	Transcript	synonymous_variant	199	132	44	V	gtA/gtG	.	.	.	1	PARK7	HGNC	16369	protein_coding	YES	CCDS93.1	ENSP00000418770	PARK7_HUMAN	.	UPI0000072F6F	.	.	.	3/7	.	hmmpanther:PTHR11019,hmmpanther:PTHR11019:SF4,TIGRFAM_domain:TIGR01383,Pfam_domain:PF01965,Gene3D:3.40.50.880,Superfamily_domains:SSF52317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R48H|c.143G>A|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCAGTACAGTG	.	5	BLCA
MMP24	0	.	GRCh37	20	33834786	33834786	+	Silent	SNP	G	G	A	rs757018501	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.390G>A	p.%3D	p.T130T	ENST00000246186	2/9	75	57	17	56	56	0	MMP24,synonymous_variant,p.%3D,ENST00000246186,;EDEM2,intron_variant,,ENST00000540582,;MMP24-AS1,intron_variant,,ENST00000566203,;MMP24-AS1,intron_variant,,ENST00000454184,;MMP24-AS1,intron_variant,,ENST00000433764,;MMP24-AS1,intron_variant,,ENST00000456350,;MMP24-AS1,intron_variant,,ENST00000438751,;	A	ENSG00000125966	ENST00000246186	Transcript	synonymous_variant	475	390	130	T	acG/acA	rs757018501,COSM3545659	.	.	1	MMP24	HGNC	7172	protein_coding	YES	CCDS46593.1	ENSP00000246186	MMP24_HUMAN	Q86VV6_HUMAN	UPI000012F259	.	.	.	2/9	.	hmmpanther:PTHR10201:SF138,hmmpanther:PTHR10201,Pfam_domain:PF01471,Gene3D:3.40.390.10,PIRSF_domain:PIRSF001191,Superfamily_domains:SSF47090	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACAACGATCGA	byFrequency	5	BLCA
CHD6	0	.	GRCh37	20	40113086	40113086	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2163C>T	p.%3D	p.F721F	ENST00000373233	15/37	161	134	26	104	104	0	CHD6,synonymous_variant,p.%3D,ENST00000373233,;CHD6,intron_variant,,ENST00000309279,;CHD6,intron_variant,,ENST00000440697,;CHD6,non_coding_transcript_exon_variant,,ENST00000476641,;	A	ENSG00000124177	ENST00000373233	Transcript	synonymous_variant	2341	2163	721	F	ttC/ttT	.	.	.	-1	CHD6	HGNC	19057	protein_coding	YES	CCDS13317.1	ENSP00000362330	CHD6_HUMAN	.	UPI0000168656	.	.	.	15/37	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF589,Pfam_domain:PF00176,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCAGGAAGGA	.	4	BLCA
SPATA2	0	.	GRCh37	20	48522461	48522461	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1258C>T	p.His420Tyr	p.H420Y	ENST00000422556	3/3	26	20	6	23	23	0	SPATA2,missense_variant,p.His420Tyr,ENST00000422556,;SPATA2,missense_variant,p.His420Tyr,ENST00000289431,;SPATA2,missense_variant,p.His283Tyr,ENST00000543716,;	A	ENSG00000158480	ENST00000422556	Transcript	missense_variant	1608	1258	420	H/Y	Cat/Tat	.	.	.	-1	SPATA2	HGNC	14681	protein_coding	YES	CCDS13422.1	ENSP00000416799	SPAT2_HUMAN	F5H3K3_HUMAN	UPI000013557F	.	tolerated(0.44)	benign(0.26)	3/3	.	hmmpanther:PTHR15326:SF4,hmmpanther:PTHR15326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCATGAGTCG	.	5	BLCA
ZNF217	0	.	GRCh37	20	52193765	52193765	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1538C>G	p.Ser513Cys	p.S513C	ENST00000371471	4/6	190	140	50	107	107	0	ZNF217,missense_variant,p.Ser513Cys,ENST00000302342,;ZNF217,missense_variant,p.Ser513Cys,ENST00000371471,;ZNF217,upstream_gene_variant,,ENST00000437222,;RP4-724E16.2,downstream_gene_variant,,ENST00000424252,;	C	ENSG00000171940	ENST00000371471	Transcript	missense_variant	1964	1538	513	S/C	tCt/tGt	.	.	.	-1	ZNF217	HGNC	13009	protein_coding	YES	CCDS13443.1	ENSP00000360526	ZN217_HUMAN	A2A326_HUMAN	UPI000013C323	.	deleterious(0)	probably_damaging(0.999)	4/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF6,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGAGATGTC	.	5	BLCA
ZNF831	0	.	GRCh37	20	57767094	57767094	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1020G>A	p.%3D	p.E340E	ENST00000371030	1/5	22	18	3	20	20	0	ZNF831,synonymous_variant,p.%3D,ENST00000371030,;	A	ENSG00000124203	ENST00000371030	Transcript	synonymous_variant	1020	1020	340	E	gaG/gaA	.	.	.	1	ZNF831	HGNC	16167	protein_coding	YES	CCDS42894.1	ENSP00000360069	ZN831_HUMAN	.	UPI00001D82E4	.	.	.	1/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF52	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGAGAGCAC	.	4	BLCA
DOPEY2	0	.	GRCh37	21	37665633	37665633	+	Missense_Mutation	SNP	G	G	C	rs543343307	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6661G>C	p.Asp2221His	p.D2221H	ENST00000399151	37/37	80	51	29	99	99	0	DOPEY2,missense_variant,p.Asp2221His,ENST00000399151,;SRSF9P1,downstream_gene_variant,,ENST00000399149,;	C	ENSG00000142197	ENST00000399151	Transcript	missense_variant	6746	6661	2221	D/H	Gat/Cat	rs543343307	.	.	1	DOPEY2	HGNC	1291	protein_coding	YES	CCDS13643.1	ENSP00000382104	DOP2_HUMAN	F8W8U9_HUMAN	UPI000013D876	.	deleterious(0.05)	benign(0.013)	37/37	.	hmmpanther:PTHR14042:SF23,hmmpanther:PTHR14042	A:0.0018	A:0	A:0	.	A:0	A:0	A:0.0092	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTCTGATGAG	byFrequency|byCluster|by1000G	5	BLCA
TRAPPC10	0	.	GRCh37	21	45507591	45507591	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2551G>A	p.Glu851Lys	p.E851K	ENST00000291574	17/23	52	35	17	55	55	0	TRAPPC10,missense_variant,p.Glu851Lys,ENST00000291574,;TRAPPC10,upstream_gene_variant,,ENST00000486746,;TRAPPC10,upstream_gene_variant,,ENST00000483973,;TRAPPC10,upstream_gene_variant,,ENST00000465905,;TRAPPC10,3_prime_UTR_variant,,ENST00000422875,;TRAPPC10,downstream_gene_variant,,ENST00000481460,;TRAPPC10,upstream_gene_variant,,ENST00000485621,;TRAPPC10,upstream_gene_variant,,ENST00000469521,;TRAPPC10,downstream_gene_variant,,ENST00000461889,;TRAPPC10,upstream_gene_variant,,ENST00000459741,;	A	ENSG00000160218	ENST00000291574	Transcript	missense_variant	2726	2551	851	E/K	Gag/Aag	.	.	.	1	TRAPPC10	HGNC	11868	protein_coding	YES	CCDS13704.1	ENSP00000291574	TPC10_HUMAN	Q76NH5_HUMAN	UPI0000129E26	.	deleterious(0.02)	benign(0.027)	17/23	.	hmmpanther:PTHR13251	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTGAGGCC	.	5	BLCA
TRMT2A	0	.	GRCh37	22	20104414	20104414	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16G>C	p.Asp6His	p.D6H	ENST00000252136	1/12	20	11	8	9	9	0	TRMT2A,missense_variant,p.Asp6His,ENST00000404751,;TRMT2A,missense_variant,p.Asp6His,ENST00000403707,;TRMT2A,missense_variant,p.Asp6His,ENST00000252136,;TRMT2A,missense_variant,p.Asp6His,ENST00000439169,;RANBP1,intron_variant,,ENST00000432879,;RANBP1,intron_variant,,ENST00000430524,;TRMT2A,intron_variant,,ENST00000445045,;TRMT2A,upstream_gene_variant,,ENST00000444845,;RANBP1,upstream_gene_variant,,ENST00000411892,;RANBP1,upstream_gene_variant,,ENST00000331821,;RANBP1,upstream_gene_variant,,ENST00000402752,;RANBP1,upstream_gene_variant,,ENST00000423859,;RANBP1,upstream_gene_variant,,ENST00000421656,;TRMT2A,upstream_gene_variant,,ENST00000444256,;RANBP1,upstream_gene_variant,,ENST00000418705,;RANBP1,upstream_gene_variant,,ENST00000416427,;TRMT2A,upstream_gene_variant,,ENST00000480460,;RANBP1,upstream_gene_variant,,ENST00000467920,;TRMT2A,upstream_gene_variant,,ENST00000492988,;TRMT2A,upstream_gene_variant,,ENST00000488335,;TRMT2A,non_coding_transcript_exon_variant,,ENST00000494641,;TRMT2A,non_coding_transcript_exon_variant,,ENST00000464535,;RANBP1,intron_variant,,ENST00000435265,;TRMT2A,upstream_gene_variant,,ENST00000487668,;TRMT2A,upstream_gene_variant,,ENST00000494820,;RANBP1,upstream_gene_variant,,ENST00000488484,;TRMT2A,upstream_gene_variant,,ENST00000468917,;TRMT2A,upstream_gene_variant,,ENST00000459644,;TRMT2A,upstream_gene_variant,,ENST00000480339,;TRMT2A,upstream_gene_variant,,ENST00000487378,;TRMT2A,upstream_gene_variant,,ENST00000463710,;TRMT2A,upstream_gene_variant,,ENST00000471040,;	G	ENSG00000099899	ENST00000252136	Transcript	missense_variant	405	16	6	D/H	Gac/Cac	.	.	.	-1	TRMT2A	HGNC	24974	protein_coding	YES	CCDS13774.1	ENSP00000252136	TRM2A_HUMAN	C9K041_HUMAN	UPI00001BBFC5	.	deleterious_low_confidence(0.02)	possibly_damaging(0.49)	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTTGTCGAGGT	.	5	BLCA
PRAME	0	.	GRCh37	22	22890989	22890989	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1030C>T	p.Gln344Ter	p.Q344*	ENST00000543184	5/5	107	70	37	106	105	0	PRAME,stop_gained,p.Gln344Ter,ENST00000398743,;PRAME,stop_gained,p.Gln344Ter,ENST00000398741,;PRAME,stop_gained,p.Gln344Ter,ENST00000402697,;PRAME,stop_gained,p.Gln344Ter,ENST00000543184,;PRAME,stop_gained,p.Gln328Ter,ENST00000539862,;PRAME,stop_gained,p.Gln328Ter,ENST00000424204,;PRAME,stop_gained,p.Gln344Ter,ENST00000405655,;PRAME,downstream_gene_variant,,ENST00000420709,;PRAME,downstream_gene_variant,,ENST00000406503,;PRAME,downstream_gene_variant,,ENST00000438888,;PRAME,downstream_gene_variant,,ENST00000439106,;PRAME,downstream_gene_variant,,ENST00000403441,;PRAME,downstream_gene_variant,,ENST00000476336,;PRAME,downstream_gene_variant,,ENST00000485532,;PRAME,non_coding_transcript_exon_variant,,ENST00000492657,;PRAME,downstream_gene_variant,,ENST00000442481,;	A	ENSG00000185686	ENST00000543184	Transcript	stop_gained	1893	1030	344	Q/*	Cag/Tag	.	.	.	-1	PRAME	HGNC	9336	protein_coding	YES	CCDS13801.1	ENSP00000445675	PRAME_HUMAN	F5H4B1_HUMAN,E7EW99_HUMAN,E7EMH2_HUMAN,B7Z986_HUMAN,B5MD04_HUMAN,B5MCY4_HUMAN	UPI0000000DDA	.	.	.	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14224,hmmpanther:PTHR14224:SF4,Gene3D:3.80.10.10,PIRSF_domain:PIRSF038286,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTGGGACA	.	5	BLCA
FHL2	0	.	GRCh37	2	105990124	105990124	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223C>A	p.Leu75Met	p.L75M	ENST00000358129	5/8	37	24	12	30	30	0	FHL2,missense_variant,p.Leu75Met,ENST00000393352,;FHL2,missense_variant,p.Leu185Met,ENST00000344213,;FHL2,missense_variant,p.Leu75Met,ENST00000409807,;FHL2,missense_variant,p.Leu75Met,ENST00000358129,;FHL2,missense_variant,p.Leu75Met,ENST00000393353,;FHL2,missense_variant,p.Leu75Met,ENST00000322142,;FHL2,missense_variant,p.Leu75Met,ENST00000408995,;FHL2,missense_variant,p.Leu191Met,ENST00000409177,;FHL2,intron_variant,,ENST00000336660,;AC012360.6,intron_variant,,ENST00000457290,;AC012360.6,upstream_gene_variant,,ENST00000415627,;FHL2,3_prime_UTR_variant,,ENST00000530340,;FHL2,3_prime_UTR_variant,,ENST00000452732,;	T	ENSG00000115641	ENST00000358129	Transcript	missense_variant	802	223	75	L/M	Ctg/Atg	COSM81186	.	.	-1	FHL2	HGNC	3703	protein_coding	YES	CCDS2070.1	ENSP00000350846	FHL2_HUMAN	Q6I9R8_HUMAN,Q53T40_HUMAN,Q53QP3_HUMAN,C9J3S8_HUMAN	UPI0000140D45	.	deleterious(0)	probably_damaging(1)	5/8	.	PROSITE_profiles:PS50023,hmmpanther:PTHR24205:SF3,hmmpanther:PTHR24205,PROSITE_patterns:PS00478,Pfam_domain:PF00412,Gene3D:2.10.110.10,SMART_domains:SM00132,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACCAGTGAGT	.	5	BLCA
KCNF1	0	.	GRCh37	2	11053992	11053992	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1440G>A	p.%3D	p.L480L	ENST00000295082	1/1	32	24	8	26	26	0	KCNF1,synonymous_variant,p.%3D,ENST00000295082,;	A	ENSG00000162975	ENST00000295082	Transcript	synonymous_variant	1930	1440	480	L	ctG/ctA	.	.	.	1	KCNF1	HGNC	6246	protein_coding	YES	CCDS1676.1	ENSP00000295082	KCNF1_HUMAN	.	UPI000012DC98	.	.	.	1/1	.	hmmpanther:PTHR11537:SF42,hmmpanther:PTHR11537	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTCCTGACCGA	.	5	BLCA
ZEB2	0	.	GRCh37	2	145147383	145147383	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3280G>A	p.Glu1094Lys	p.E1094K	ENST00000558170	10/10	65	61	4	60	60	0	ZEB2,missense_variant,p.Glu1070Lys,ENST00000539609,;ZEB2,missense_variant,p.Glu1094Lys,ENST00000409487,;ZEB2,missense_variant,p.Glu1094Lys,ENST00000303660,;ZEB2,missense_variant,p.Glu1094Lys,ENST00000558170,;ZEB2,intron_variant,,ENST00000419938,;	T	ENSG00000169554	ENST00000558170	Transcript	missense_variant	4465	3280	1094	E/K	Gag/Aag	COSM441196	.	.	-1	ZEB2	HGNC	14881	protein_coding	YES	CCDS2186.1	ENSP00000454157	ZEB2_HUMAN	U3KPV5_HUMAN,Q53TG0_HUMAN,Q53TD9_HUMAN,E7EUW9_HUMAN,E7ESP8_HUMAN,C9JUQ1_HUMAN,C9JU62_HUMAN,A0JP08_HUMAN	UPI00001359A2	.	deleterious(0.02)	probably_damaging(0.98)	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13919,hmmpanther:PTHR13919:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCTCGCGCT	.	2	BLCA
RPRM	0	.	GRCh37	2	154334957	154334957	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.123C>A	p.Phe41Leu	p.F41L	ENST00000325926	1/1	25	20	5	28	28	0	RPRM,missense_variant,p.Phe41Leu,ENST00000325926,;AC012501.2,intron_variant,,ENST00000424322,;	T	ENSG00000177519	ENST00000325926	Transcript	missense_variant	366	123	41	F/L	ttC/ttA	.	.	.	-1	RPRM	HGNC	24201	protein_coding	YES	CCDS2198.1	ENSP00000314946	RPRM_HUMAN	.	UPI0000072BEC	.	tolerated(0.51)	benign(0)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGCGAAGCC	.	5	BLCA
RPRM	0	.	GRCh37	2	154335117	154335117	+	5'UTR	SNP	G	G	A	rs541947140	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-38C>T	.	.	ENST00000325926	1/1	8	5	3	8	8	0	RPRM,5_prime_UTR_variant,,ENST00000325926,;AC012501.2,intron_variant,,ENST00000424322,;	A	ENSG00000177519	ENST00000325926	Transcript	5_prime_UTR_variant	206	.	.	.	.	rs541947140	.	.	-1	RPRM	HGNC	24201	protein_coding	YES	CCDS2198.1	ENSP00000314946	RPRM_HUMAN	.	UPI0000072BEC	.	.	.	1/1	.	.	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCCGAGGGG	by1000G	2	BLCA
MARCH7	0	.	GRCh37	2	160585519	160585519	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-14-1G>C	.	.	ENST00000259050	.	36	19	16	31	31	0	MARCH7,splice_acceptor_variant,,ENST00000421037,;MARCH7,splice_acceptor_variant,,ENST00000259050,;MARCH7,splice_acceptor_variant,,ENST00000539065,;MARCH7,splice_acceptor_variant,,ENST00000409175,;MARCH7,upstream_gene_variant,,ENST00000409591,;MARCH7,splice_acceptor_variant,,ENST00000473749,;	C	ENSG00000136536	ENST00000259050	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	MARCH7	HGNC	17393	protein_coding	YES	CCDS2210.1	ENSP00000259050	MARH7_HUMAN	C9J159_HUMAN	UPI00000733EE	.	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACAGAAAAA	.	5	BLCA
FKBP7	0	.	GRCh37	2	179343227	179343227	+	5'UTR	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-1G>A	.	.	ENST00000424785	1/4	189	159	29	169	169	0	FKBP7,5_prime_UTR_variant,,ENST00000424785,;FKBP7,upstream_gene_variant,,ENST00000434643,;PLEKHA3,upstream_gene_variant,,ENST00000234453,;FKBP7,non_coding_transcript_exon_variant,,ENST00000470945,;FKBP7,non_coding_transcript_exon_variant,,ENST00000464248,;PLEKHA3,upstream_gene_variant,,ENST00000461474,;FKBP7,5_prime_UTR_variant,,ENST00000233092,;FKBP7,5_prime_UTR_variant,,ENST00000419184,;FKBP7,5_prime_UTR_variant,,ENST00000435079,;FKBP7,upstream_gene_variant,,ENST00000412612,;PLEKHA3,upstream_gene_variant,,ENST00000453653,;	T	ENSG00000079150	ENST00000424785	Transcript	5_prime_UTR_variant	59	.	.	.	.	.	.	.	-1	FKBP7	HGNC	3723	protein_coding	YES	CCDS2280.1	ENSP00000413152	FKBP7_HUMAN	.	UPI000002A9BC	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCATCGGCTC	.	4	BLCA
TTN	0	.	GRCh37	2	179600731	179600731	+	Silent	SNP	G	G	A	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14442C>T	p.%3D	p.F4814F	ENST00000589042	50/363	56	44	12	43	43	0	TTN,synonymous_variant,p.%3D,ENST00000342992,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,synonymous_variant,p.%3D,ENST00000591111,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000582847,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,upstream_gene_variant,,ENST00000590773,;	A	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	14667	14442	4814	F	ttC/ttT	COSM3573575,COSM3573576	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	50/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAGATGAACTT	.	5	BLCA
ITGAV	0	.	GRCh37	2	187519392	187519392	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1521C>G	p.Phe507Leu	p.F507L	ENST00000261023	16/30	58	39	18	45	45	0	ITGAV,missense_variant,p.Phe471Leu,ENST00000374907,;ITGAV,missense_variant,p.Phe507Leu,ENST00000261023,;ITGAV,missense_variant,p.Phe461Leu,ENST00000433736,;AC017101.10,intron_variant,,ENST00000453665,;	G	ENSG00000138448	ENST00000261023	Transcript	missense_variant	1795	1521	507	F/L	ttC/ttG	.	.	.	1	ITGAV	HGNC	6150	protein_coding	YES	CCDS2292.1	ENSP00000261023	ITAV_HUMAN	L7RXH0_HUMAN	UPI000013D12E	.	deleterious(0.03)	benign(0.2)	16/30	.	hmmpanther:PTHR23220:SF4,hmmpanther:PTHR23220,Gene3D:1jv2A02,Pfam_domain:PF08441,Superfamily_domains:SSF69179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGTTCTGCTT	.	5	BLCA
GLS	0	.	GRCh37	2	191769883	191769883	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.969G>C	p.Leu323Phe	p.L323F	ENST00000320717	6/18	36	31	5	20	20	0	GLS,missense_variant,p.Leu323Phe,ENST00000338435,;GLS,missense_variant,p.Leu323Phe,ENST00000320717,;GLS,missense_variant,p.Leu88Phe,ENST00000417154,;GLS,non_coding_transcript_exon_variant,,ENST00000469774,;	C	ENSG00000115419	ENST00000320717	Transcript	missense_variant	1227	969	323	L/F	ttG/ttC	COSM461220	.	.	1	GLS	HGNC	4331	protein_coding	YES	CCDS2308.1	ENSP00000317379	GLSK_HUMAN	Q53TX0_HUMAN,Q53S89_HUMAN,Q53RX0_HUMAN,C9JIJ6_HUMAN,B7Z509_HUMAN	UPI000012B7F6	.	deleterious(0)	probably_damaging(0.95)	6/18	.	HAMAP:MF_00313,hmmpanther:PTHR12544,Gene3D:3.40.710.10,TIGRFAM_domain:TIGR03814,Pfam_domain:PF04960,Superfamily_domains:SSF56601	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTTTGAATGA	.	2	BLCA
SLC39A10	0	.	GRCh37	2	196545595	196545595	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.829C>G	p.His277Asp	p.H277D	ENST00000409086	2/10	67	60	7	59	59	0	SLC39A10,missense_variant,p.His277Asp,ENST00000409086,;SLC39A10,missense_variant,p.His277Asp,ENST00000359634,;SLC39A10,intron_variant,,ENST00000541054,;SLC39A10,downstream_gene_variant,,ENST00000418005,;SLC39A10,downstream_gene_variant,,ENST00000412905,;SLC39A10,downstream_gene_variant,,ENST00000458054,;SLC39A10,non_coding_transcript_exon_variant,,ENST00000465851,;SLC39A10,intron_variant,,ENST00000430412,;SLC39A10,intron_variant,,ENST00000444421,;	G	ENSG00000196950	ENST00000409086	Transcript	missense_variant	1104	829	277	H/D	Cat/Gat	.	.	.	1	SLC39A10	HGNC	20861	protein_coding	YES	CCDS33353.1	ENSP00000386766	S39AA_HUMAN	Q8NC35_HUMAN,E7EV45_HUMAN,E7ENT5_HUMAN,C9J0F5_HUMAN,B4DGU0_HUMAN	UPI000004A043	.	tolerated(0.21)	benign(0.139)	2/10	.	hmmpanther:PTHR12191:SF7,hmmpanther:PTHR12191	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGGTCATTCT	.	3	BLCA
APOB	0	.	GRCh37	2	21233296	21233296	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6444G>T	p.Lys2148Asn	p.K2148N	ENST00000233242	26/29	106	99	7	70	70	0	APOB,missense_variant,p.Lys2148Asn,ENST00000233242,;	A	ENSG00000084674	ENST00000233242	Transcript	missense_variant	6572	6444	2148	K/N	aaG/aaT	.	.	.	-1	APOB	HGNC	603	protein_coding	YES	CCDS1703.1	ENSP00000233242	APOB_HUMAN	S5FVK9_HUMAN,Q9UE53_HUMAN,Q9UE52_HUMAN,Q13828_HUMAN	UPI0000141B94	.	.	benign(0.001)	26/29	.	hmmpanther:PTHR13769,hmmpanther:PTHR13769:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTATACTTTTT	.	2	BLCA
VWC2L	0	.	GRCh37	2	215301365	215301365	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.403G>C	p.Glu135Gln	p.E135Q	ENST00000312504	3/4	58	38	20	42	42	0	VWC2L,missense_variant,p.Glu135Gln,ENST00000312504,;VWC2L,intron_variant,,ENST00000427124,;AC107218.3,intron_variant,,ENST00000437883,;AC107218.3,intron_variant,,ENST00000412896,;	C	ENSG00000174453	ENST00000312504	Transcript	missense_variant	1205	403	135	E/Q	Gaa/Caa	.	.	.	1	VWC2L	HGNC	37203	protein_coding	YES	CCDS46509.1	ENSP00000308976	VWC2L_HUMAN	.	UPI00004912C1	.	deleterious(0)	probably_damaging(0.979)	3/4	.	PROSITE_profiles:PS50184,hmmpanther:PTHR11339,PROSITE_patterns:PS01208,Gene3D:2.10.70.10,SMART_domains:SM00214,Superfamily_domains:SSF57603	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGTGAATGG	.	5	BLCA
MOGAT1	0	.	GRCh37	2	223554168	223554168	+	Missense_Mutation	SNP	G	G	A	rs775805988	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.458G>A	p.Arg153Gln	p.R153Q	ENST00000446656	3/6	70	46	24	69	69	0	MOGAT1,missense_variant,p.Arg153Gln,ENST00000446656,;	A	ENSG00000124003	ENST00000446656	Transcript	missense_variant	458	458	153	R/Q	cGa/cAa	rs775805988	.	.	1	MOGAT1	HGNC	18210	protein_coding	YES	CCDS46524.1	ENSP00000406674	MOGT1_HUMAN	.	UPI000013D50F	.	deleterious(0)	possibly_damaging(0.56)	3/6	.	hmmpanther:PTHR12317:SF10,hmmpanther:PTHR12317,Pfam_domain:PF03982	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTCGAGAAT	byFrequency	5	BLCA
RNPEPL1	0	.	GRCh37	2	241513629	241513629	+	Silent	SNP	C	C	T	rs765045975	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345C>T	p.%3D	p.F115F	ENST00000270357	5/11	41	36	5	52	52	0	RNPEPL1,synonymous_variant,p.%3D,ENST00000270357,;RNPEPL1,intron_variant,,ENST00000451363,;RNPEPL1,upstream_gene_variant,,ENST00000437406,;RNPEPL1,upstream_gene_variant,,ENST00000464550,;RNPEPL1,non_coding_transcript_exon_variant,,ENST00000481757,;RNPEPL1,non_coding_transcript_exon_variant,,ENST00000486058,;RNPEPL1,upstream_gene_variant,,ENST00000471657,;RNPEPL1,upstream_gene_variant,,ENST00000498042,;RNPEPL1,upstream_gene_variant,,ENST00000493398,;RNPEPL1,upstream_gene_variant,,ENST00000460884,;	T	ENSG00000142327	ENST00000270357	Transcript	synonymous_variant	938	345	115	F	ttC/ttT	rs765045975	.	.	1	RNPEPL1	HGNC	10079	protein_coding	YES	.	ENSP00000270357	RNPL1_HUMAN	.	UPI000013D885	.	.	.	5/11	.	Superfamily_domains:SSF55486,Pfam_domain:PF01433,hmmpanther:PTHR11533:SF6,hmmpanther:PTHR11533	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGTTCCTGGT	.	4	BLCA
KIF1A	0	.	GRCh37	2	241702642	241702642	+	Silent	SNP	G	G	A	rs374362504	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1890C>T	p.%3D	p.F630F	ENST00000498729	21/50	17	14	3	14	14	0	KIF1A,synonymous_variant,p.%3D,ENST00000498729,;KIF1A,synonymous_variant,p.%3D,ENST00000320389,;KIF1A,synonymous_variant,p.%3D,ENST00000404283,;	A	ENSG00000130294	ENST00000498729	Transcript	synonymous_variant	2137	1890	630	F	ttC/ttT	rs374362504	.	.	-1	KIF1A	HGNC	888	protein_coding	YES	CCDS58757.1	ENSP00000438388	KIF1A_HUMAN	G1UI30_HUMAN,C9JBH1_HUMAN	UPI0002065B81	.	.	.	21/50	.	hmmpanther:PTHR24115:SF361,hmmpanther:PTHR24115	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGGCGAAGGC	byFrequency|byCluster	2	BLCA
THAP4	0	.	GRCh37	2	242572549	242572549	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1023C>T	p.%3D	p.L341L	ENST00000407315	2/6	35	27	8	31	31	0	THAP4,synonymous_variant,p.%3D,ENST00000407315,;ATG4B,upstream_gene_variant,,ENST00000419606,;ATG4B,upstream_gene_variant,,ENST00000474739,;ATG4B,upstream_gene_variant,,ENST00000404914,;ATG4B,upstream_gene_variant,,ENST00000396411,;ATG4B,upstream_gene_variant,,ENST00000402096,;ATG4B,upstream_gene_variant,,ENST00000425239,;ATG4B,upstream_gene_variant,,ENST00000400771,;ATG4B,upstream_gene_variant,,ENST00000430617,;ATG4B,upstream_gene_variant,,ENST00000405546,;ATG4B,upstream_gene_variant,,ENST00000491867,;ATG4B,upstream_gene_variant,,ENST00000415107,;ATG4B,upstream_gene_variant,,ENST00000475195,;ATG4B,upstream_gene_variant,,ENST00000479554,;ATG4B,upstream_gene_variant,,ENST00000494465,;ATG4B,upstream_gene_variant,,ENST00000468018,;ATG4B,upstream_gene_variant,,ENST00000493618,;ATG4B,upstream_gene_variant,,ENST00000483778,;ATG4B,upstream_gene_variant,,ENST00000400772,;ATG4B,upstream_gene_variant,,ENST00000465399,;ATG4B,upstream_gene_variant,,ENST00000482507,;	A	ENSG00000176946	ENST00000407315	Transcript	synonymous_variant	1455	1023	341	L	ctC/ctT	.	.	.	-1	THAP4	HGNC	23187	protein_coding	YES	CCDS2551.1	ENSP00000385006	THAP4_HUMAN	.	UPI000018DBC4	.	.	.	2/6	.	hmmpanther:PTHR15854,hmmpanther:PTHR15854:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGATGAGCTT	.	5	BLCA
CENPO	0	.	GRCh37	2	25039532	25039532	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.612C>T	p.%3D	p.L204L	ENST00000380834	6/8	494	409	84	498	498	0	CENPO,synonymous_variant,p.%3D,ENST00000260662,;CENPO,synonymous_variant,p.%3D,ENST00000380834,;CENPO,synonymous_variant,p.%3D,ENST00000473706,;ADCY3,downstream_gene_variant,,ENST00000260600,;ADCY3,downstream_gene_variant,,ENST00000498288,;ADCY3,downstream_gene_variant,,ENST00000606682,;ADCY3,downstream_gene_variant,,ENST00000405392,;CENPO,non_coding_transcript_exon_variant,,ENST00000498362,;CENPO,intron_variant,,ENST00000395845,;CENPO,intron_variant,,ENST00000464156,;ADCY3,downstream_gene_variant,,ENST00000485887,;CENPO,downstream_gene_variant,,ENST00000491031,;CENPO,downstream_gene_variant,,ENST00000486527,;	T	ENSG00000138092	ENST00000380834	Transcript	synonymous_variant	1037	612	204	L	ctC/ctT	COSM442664	.	.	1	CENPO	HGNC	28152	protein_coding	YES	CCDS1714.1	ENSP00000370214	CENPO_HUMAN	.	UPI000006F5F6	.	.	.	6/8	.	hmmpanther:PTHR14582	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCCTGAC	.	5	BLCA
LRPPRC	0	.	GRCh37	2	44207058	44207058	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376C>G	p.Leu126Val	p.L126V	ENST00000260665	3/38	48	31	17	48	48	0	LRPPRC,missense_variant,p.Leu126Val,ENST00000260665,;LRPPRC,missense_variant,p.Leu100Val,ENST00000447246,;LRPPRC,missense_variant,p.Leu126Val,ENST00000409659,;LRPPRC,missense_variant,p.Leu126Val,ENST00000409946,;	C	ENSG00000138095	ENST00000260665	Transcript	missense_variant	434	376	126	L/V	Cta/Gta	.	.	.	-1	LRPPRC	HGNC	15714	protein_coding	YES	CCDS33189.1	ENSP00000260665	LPPRC_HUMAN	E5KNY5_HUMAN	UPI000019B4D2	.	deleterious(0)	probably_damaging(0.999)	3/38	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24015:SF0,hmmpanther:PTHR24015	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGTAGAAGCA	.	5	BLCA
STON1-GTF2A1L	0	.	GRCh37	2	48809003	48809003	+	Missense_Mutation	SNP	G	G	A	rs760676566	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1231G>A	p.Glu411Lys	p.E411K	ENST00000394754	2/11	82	78	4	69	69	0	STON1-GTF2A1L,missense_variant,p.Glu411Lys,ENST00000309827,;STON1-GTF2A1L,missense_variant,p.Glu411Lys,ENST00000394754,;STON1,missense_variant,p.Glu411Lys,ENST00000406226,;STON1-GTF2A1L,missense_variant,p.Glu411Lys,ENST00000402114,;STON1-GTF2A1L,missense_variant,p.Glu411Lys,ENST00000405008,;STON1-GTF2A1L,missense_variant,p.Glu411Lys,ENST00000394751,;STON1,missense_variant,p.Glu411Lys,ENST00000404752,;STON1,missense_variant,p.Glu411Lys,ENST00000309835,;STON1,upstream_gene_variant,,ENST00000444932,;	A	ENSG00000068781	ENST00000394754	Transcript	missense_variant	1345	1231	411	E/K	Gag/Aag	rs760676566,COSM1266964,COSM1266963	.	.	1	STON1-GTF2A1L	HGNC	30651	protein_coding	YES	CCDS1840.1	ENSP00000378236	.	Q53S48_HUMAN	UPI000013C976	.	deleterious(0.01)	probably_damaging(0.998)	2/11	.	hmmpanther:PTHR11998,hmmpanther:PTHR11998:SF18,Gene3D:2.60.40.1170,Pfam_domain:PF00928,Superfamily_domains:0038852	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTACGAGGAG	.	2	BLCA
PAPOLG	0	.	GRCh37	2	61007912	61007912	+	Missense_Mutation	SNP	C	C	T	rs772397961	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.904C>T	p.Arg302Trp	p.R302W	ENST00000238714	10/22	85	69	16	94	94	0	PAPOLG,missense_variant,p.Arg302Trp,ENST00000238714,;PAPOLG,upstream_gene_variant,,ENST00000412217,;PAPOLG,splice_region_variant,,ENST00000483370,;PAPOLG,splice_region_variant,,ENST00000453839,;PAPOLG,splice_region_variant,,ENST00000496283,;PAPOLG,intron_variant,,ENST00000414060,;	T	ENSG00000115421	ENST00000238714	Transcript	missense_variant	1153	904	302	R/W	Cgg/Tgg	rs772397961	.	.	1	PAPOLG	HGNC	14982	protein_coding	YES	CCDS1863.1	ENSP00000238714	PAPOG_HUMAN	Q9H968_HUMAN,Q53T81_HUMAN,Q53T17_HUMAN,Q2TAI9_HUMAN,F8WAT4_HUMAN	UPI00000704EB	.	deleterious(0)	probably_damaging(0.998)	10/22	.	hmmpanther:PTHR10682:SF6,hmmpanther:PTHR10682,Pfam_domain:PF04928,Gene3D:2q66A01,PIRSF_domain:PIRSF018425,Superfamily_domains:SSF81631	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATCCTCGGGTA	.	5	BLCA
SLC1A4	0	.	GRCh37	2	65245211	65245211	+	Silent	SNP	G	G	A	rs115498588	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1041G>A	p.%3D	p.A347A	ENST00000234256	6/8	71	61	10	61	61	0	SLC1A4,synonymous_variant,p.%3D,ENST00000531327,;SLC1A4,synonymous_variant,p.%3D,ENST00000234256,;SLC1A4,non_coding_transcript_exon_variant,,ENST00000471551,;SLC1A4,downstream_gene_variant,,ENST00000493121,;SLC1A4,non_coding_transcript_exon_variant,,ENST00000480594,;	A	ENSG00000115902	ENST00000234256	Transcript	synonymous_variant	1284	1041	347	A	gcG/gcA	rs115498588	.	.	1	SLC1A4	HGNC	10942	protein_coding	YES	CCDS1879.1	ENSP00000234256	SATT_HUMAN	.	UPI000000129F	.	.	.	6/8	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR11958:SF20,hmmpanther:PTHR11958,Pfam_domain:PF00375,Gene3D:2nwlC00,Superfamily_domains:0053221	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0014	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCAGCGACCCT	byCluster|by1000G	5	BLCA
ALMS1	0	.	GRCh37	2	73678021	73678021	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4364C>T	p.Ser1455Leu	p.S1455L	ENST00000264448	8/23	165	114	50	127	127	0	ALMS1,missense_variant,p.Ser1455Leu,ENST00000377715,;ALMS1,missense_variant,p.Ser1413Leu,ENST00000409009,;ALMS1,missense_variant,p.Ser1455Leu,ENST00000264448,;ALMS1,upstream_gene_variant,,ENST00000484298,;ALMS1,upstream_gene_variant,,ENST00000423048,;	T	ENSG00000116127	ENST00000264448	Transcript	missense_variant	4475	4364	1455	S/L	tCa/tTa	.	.	.	1	ALMS1	HGNC	428	protein_coding	YES	CCDS42697.1	ENSP00000264448	ALMS1_HUMAN	A6NMY3_HUMAN	UPI0000212786	.	.	benign(0.222)	8/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTTCAGTTG	.	5	BLCA
DUSP11	0	.	GRCh37	2	73994324	73994324	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646G>A	p.Asp216Asn	p.D216N	ENST00000272444	6/9	115	103	11	104	104	0	DUSP11,missense_variant,p.Asp216Asn,ENST00000272444,;DUSP11,downstream_gene_variant,,ENST00000377706,;DUSP11,downstream_gene_variant,,ENST00000443070,;DUSP11,non_coding_transcript_exon_variant,,ENST00000477458,;DUSP11,non_coding_transcript_exon_variant,,ENST00000480948,;	T	ENSG00000144048	ENST00000272444	Transcript	missense_variant	688	646	216	D/N	Gat/Aat	.	.	.	-1	DUSP11	HGNC	3066	protein_coding	YES	CCDS1928.2	ENSP00000272444	DUS11_HUMAN	.	UPI0000EE25F4	.	deleterious(0.04)	benign(0.333)	6/9	.	PROSITE_profiles:PS50056,hmmpanther:PTHR10367,hmmpanther:PTHR10367:SF5,Pfam_domain:PF00782,Gene3D:3.90.190.10,SMART_domains:SM00195,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACATCAATCA	.	3	BLCA
LRRTM1	0	.	GRCh37	2	80530562	80530562	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.383T>G	p.Leu128Arg	p.L128R	ENST00000295057	2/2	79	58	21	77	77	0	LRRTM1,missense_variant,p.Leu128Arg,ENST00000452811,;LRRTM1,missense_variant,p.Leu128Arg,ENST00000295057,;LRRTM1,missense_variant,p.Leu128Arg,ENST00000409148,;LRRTM1,missense_variant,p.Leu128Arg,ENST00000416268,;CTNNA2,intron_variant,,ENST00000496558,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000540488,;CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000402739,;LRRTM1,downstream_gene_variant,,ENST00000415098,;CTNNA2,upstream_gene_variant,,ENST00000493024,;LRRTM1,missense_variant,p.Leu128Arg,ENST00000417012,;LRRTM1,missense_variant,p.Leu128Arg,ENST00000433224,;	C	ENSG00000162951	ENST00000295057	Transcript	missense_variant	1040	383	128	L/R	cTg/cGg	.	.	.	-1	LRRTM1	HGNC	19408	protein_coding	YES	CCDS1966.1	ENSP00000295057	LRRT1_HUMAN	C9JPM9_HUMAN,C9JF97_HUMAN,C9JEE2_HUMAN	UPI000013E1FE	.	deleterious(0)	probably_damaging(0.998)	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24369,hmmpanther:PTHR24369:SF3,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGGCAGTTGG	.	5	BLCA
ADAM17	0	.	GRCh37	2	9630449	9630449	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2332G>C	p.Glu778Gln	p.E778Q	ENST00000310823	19/19	52	32	20	32	32	0	ADAM17,missense_variant,p.Glu778Gln,ENST00000310823,;IAH1,intron_variant,,ENST00000481367,;IAH1,intron_variant,,ENST00000545602,;IAH1,downstream_gene_variant,,ENST00000481688,;IAH1,downstream_gene_variant,,ENST00000470914,;IAH1,downstream_gene_variant,,ENST00000497473,;IAH1,downstream_gene_variant,,ENST00000482918,;IAH1,downstream_gene_variant,,ENST00000487850,;IAH1,downstream_gene_variant,,ENST00000489468,;IAH1,downstream_gene_variant,,ENST00000490621,;IAH1,downstream_gene_variant,,ENST00000484826,;IAH1,downstream_gene_variant,,ENST00000351760,;IAH1,downstream_gene_variant,,ENST00000492223,;IAH1,downstream_gene_variant,,ENST00000495050,;	G	ENSG00000151694	ENST00000310823	Transcript	missense_variant	2515	2332	778	E/Q	Gag/Cag	.	.	.	-1	ADAM17	HGNC	195	protein_coding	YES	CCDS1665.1	ENSP00000309968	ADA17_HUMAN	Q53S40_HUMAN,Q53RS1_HUMAN,Q53RF5_HUMAN,B2RNB2_HUMAN	UPI00001254D4	.	tolerated_low_confidence(0.11)	benign(0.015)	19/19	.	hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF121	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAAACC	.	5	BLCA
C3orf20	0	.	GRCh37	3	14768468	14768468	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1627G>A	p.Glu543Lys	p.E543K	ENST00000253697	11/17	40	22	17	42	42	0	C3orf20,missense_variant,p.Glu421Lys,ENST00000435614,;C3orf20,missense_variant,p.Glu421Lys,ENST00000412910,;C3orf20,missense_variant,p.Glu543Lys,ENST00000253697,;C3orf20,downstream_gene_variant,,ENST00000495387,;	A	ENSG00000131379	ENST00000253697	Transcript	missense_variant	2079	1627	543	E/K	Gag/Aag	.	.	.	1	C3orf20	HGNC	25320	protein_coding	YES	CCDS33706.1	ENSP00000253697	CC020_HUMAN	.	UPI000013CDE9	.	tolerated(0.07)	benign(0.109)	11/17	.	Pfam_domain:PF14977,hmmpanther:PTHR23093,hmmpanther:PTHR23093:SF14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTGAGATC	.	5	BLCA
GPR149	0	.	GRCh37	3	154055956	154055956	+	Missense_Mutation	SNP	G	G	T	rs780077517	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1728C>A	p.Ser576Arg	p.S576R	ENST00000389740	4/4	201	147	54	148	148	0	GPR149,missense_variant,p.Ser576Arg,ENST00000389740,;	T	ENSG00000174948	ENST00000389740	Transcript	missense_variant	1828	1728	576	S/R	agC/agA	rs780077517	.	.	-1	GPR149	HGNC	23627	protein_coding	YES	CCDS43162.1	ENSP00000374390	GP149_HUMAN	Q2MKA6_HUMAN	UPI00001AEEA9	.	deleterious(0)	probably_damaging(0.999)	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTGCGCTTAC	byFrequency	5	BLCA
KLHL6	0	.	GRCh37	3	183211937	183211937	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280G>C	p.Gly427Ala	p.G427A	ENST00000341319	5/7	99	67	32	104	104	0	KLHL6,missense_variant,p.Gly427Ala,ENST00000341319,;KLHL6,missense_variant,p.Gly416Ala,ENST00000468734,;KLHL6,non_coding_transcript_exon_variant,,ENST00000489245,;	G	ENSG00000172578	ENST00000341319	Transcript	missense_variant	1316	1280	427	G/A	gGa/gCa	.	.	.	-1	KLHL6	HGNC	18653	protein_coding	YES	CCDS3245.2	ENSP00000341342	KLHL6_HUMAN	.	UPI0000169CB9	.	deleterious(0)	probably_damaging(1)	5/7	.	hmmpanther:PTHR24411:SF4,hmmpanther:PTHR24411,Pfam_domain:PF01344,Gene3D:1zgkA00,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCCTCCGATC	.	5	BLCA
SMCO1	0	.	GRCh37	3	196234835	196234835	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>C	p.Glu190Gln	p.E190Q	ENST00000397537	3/3	34	18	16	38	38	0	SMCO1,missense_variant,p.Glu190Gln,ENST00000397537,;RNF168,upstream_gene_variant,,ENST00000318037,;SMCO1,3_prime_UTR_variant,,ENST00000452776,;RNF168,upstream_gene_variant,,ENST00000437070,;	G	ENSG00000214097	ENST00000397537	Transcript	missense_variant	725	568	190	E/Q	Gag/Cag	.	.	.	-1	SMCO1	HGNC	27407	protein_coding	YES	CCDS43192.1	ENSP00000380671	SMCO1_HUMAN	.	UPI000020AF14	.	deleterious(0)	probably_damaging(0.997)	3/3	.	Pfam_domain:PF15080	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAATTA	.	5	BLCA
GOLGA4	0	.	GRCh37	3	37365500	37365500	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2189C>G	p.Ser730Cys	p.S730C	ENST00000356847	15/23	50	25	25	46	46	0	GOLGA4,missense_variant,p.Ser269Cys,ENST00000429018,;GOLGA4,missense_variant,p.Ser730Cys,ENST00000356847,;GOLGA4,missense_variant,p.Ser708Cys,ENST00000361924,;GOLGA4,missense_variant,p.Ser579Cys,ENST00000437131,;GOLGA4,intron_variant,,ENST00000444882,;GOLGA4,downstream_gene_variant,,ENST00000435830,;GOLGA4,downstream_gene_variant,,ENST00000497537,;GOLGA4,upstream_gene_variant,,ENST00000498250,;	G	ENSG00000144674	ENST00000356847	Transcript	missense_variant	2488	2189	730	S/C	tCt/tGt	.	.	.	1	GOLGA4	HGNC	4427	protein_coding	YES	CCDS54564.1	ENSP00000349305	GOGA4_HUMAN	.	UPI000198C9CA	.	.	benign(0.299)	15/23	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR19327	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTTTCTGTTC	.	5	BLCA
SETD2	0	.	GRCh37	3	47162043	47162043	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4083G>C	p.Gln1361His	p.Q1361H	ENST00000409792	3/21	50	32	17	63	63	0	SETD2,missense_variant,p.Gln1361His,ENST00000409792,;SETD2,missense_variant,p.Gln1317His,ENST00000412450,;SETD2,missense_variant,p.Gln995His,ENST00000445387,;SETD2,missense_variant,p.Gln1233His,ENST00000330022,;SETD2,missense_variant,p.Gln1079His,ENST00000431180,;	G	ENSG00000181555	ENST00000409792	Transcript	missense_variant	4126	4083	1361	Q/H	caG/caC	.	.	.	-1	SETD2	HGNC	18420	protein_coding	YES	CCDS2749.2	ENSP00000386759	SETD2_HUMAN	C9JG86_HUMAN	UPI00017E10FB	.	tolerated_low_confidence(0.1)	benign(0.002)	3/21	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTTTCTGAAG	.	5	BLCA
UBA3	0	.	GRCh37	3	69117079	69117079	+	Missense_Mutation	SNP	G	G	A	rs11544139	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.428C>T	p.Pro143Leu	p.P143L	ENST00000361055	6/18	65	41	23	56	56	0	UBA3,missense_variant,p.Pro143Leu,ENST00000361055,;UBA3,missense_variant,p.Pro102Leu,ENST00000415609,;UBA3,missense_variant,p.Pro129Leu,ENST00000349511,;UBA3,intron_variant,,ENST00000540295,;UBA3,intron_variant,,ENST00000465627,;UBA3,intron_variant,,ENST00000461934,;UBA3,downstream_gene_variant,,ENST00000465108,;UBA3,upstream_gene_variant,,ENST00000461522,;	A	ENSG00000144744	ENST00000361055	Transcript	missense_variant	483	428	143	P/L	cCa/cTa	rs11544139	.	.	-1	UBA3	HGNC	12470	protein_coding	YES	CCDS2909.1	ENSP00000354340	UBA3_HUMAN	B7Z5F6_HUMAN	UPI00001E058C	.	deleterious(0)	probably_damaging(0.92)	6/18	.	Superfamily_domains:SSF69572,Gene3D:3.40.50.720,Pfam_domain:PF00899,hmmpanther:PTHR10953	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATACGGAACT	.	5	BLCA
EPHA3	0	.	GRCh37	3	89445006	89445006	+	Silent	SNP	G	G	A	rs552354794	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1326G>A	p.%3D	p.T442T	ENST00000336596	6/17	79	45	33	56	56	0	EPHA3,synonymous_variant,p.%3D,ENST00000494014,;EPHA3,synonymous_variant,p.%3D,ENST00000452448,;EPHA3,synonymous_variant,p.%3D,ENST00000336596,;	A	ENSG00000044524	ENST00000336596	Transcript	synonymous_variant	1551	1326	442	T	acG/acA	rs552354794,COSM1425673,COSM1425674	.	.	1	EPHA3	HGNC	3387	protein_coding	YES	CCDS2922.1	ENSP00000337451	EPHA3_HUMAN	.	UPI0000163BE4	.	.	.	6/17	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF18,hmmpanther:PTHR24416,Gene3D:2.60.40.10,SMART_domains:SM00060,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF49265	C:0.0002	C:0.0008	C:0	.	C:0	C:0	C:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGACGATTAA	byCluster|by1000G	5	BLCA
C4orf21	0	.	GRCh37	4	113461187	113461187	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6004G>A	p.Glu2002Lys	p.E2002K	ENST00000505019	27/28	16	10	6	15	15	0	C4orf21,missense_variant,p.Glu2002Lys,ENST00000505019,;RP11-402J6.1,intron_variant,,ENST00000504009,;C4orf21,3_prime_UTR_variant,,ENST00000445413,;C4orf21,non_coding_transcript_exon_variant,,ENST00000506675,;	T	ENSG00000138658	ENST00000505019	Transcript	missense_variant	6130	6004	2002	E/K	Gag/Aag	.	.	.	-1	C4orf21	HGNC	25654	protein_coding	YES	CCDS3700.2	ENSP00000424737	CD021_HUMAN	I3L0G6_HUMAN,D6REN9_HUMAN	UPI0000EE2F8F	.	deleterious(0)	probably_damaging(0.997)	27/28	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,Pfam_domain:PF13087,hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF325	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATCTCCTTTT	.	5	BLCA
PLK4	0	.	GRCh37	4	128811355	128811355	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1794G>T	p.Arg598Ser	p.R598S	ENST00000270861	7/16	81	53	28	62	62	0	PLK4,missense_variant,p.Arg520Ser,ENST00000515069,;PLK4,missense_variant,p.Arg564Ser,ENST00000507249,;PLK4,missense_variant,p.Arg598Ser,ENST00000270861,;PLK4,missense_variant,p.Arg557Ser,ENST00000514379,;PLK4,missense_variant,p.Arg566Ser,ENST00000513090,;PLK4,upstream_gene_variant,,ENST00000508113,;RNU6-583P,upstream_gene_variant,,ENST00000516012,;PLK4,non_coding_transcript_exon_variant,,ENST00000510605,;PLK4,upstream_gene_variant,,ENST00000507454,;PLK4,upstream_gene_variant,,ENST00000510192,;	T	ENSG00000142731	ENST00000270861	Transcript	missense_variant	2068	1794	598	R/S	agG/agT	.	.	.	1	PLK4	HGNC	11397	protein_coding	YES	CCDS3735.1	ENSP00000270861	PLK4_HUMAN	.	UPI000007426E	.	deleterious(0)	probably_damaging(0.998)	7/16	.	hmmpanther:PTHR24345,hmmpanther:PTHR24345:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CACAGGTTAAA	.	5	BLCA
LDB2	0	.	GRCh37	4	16504433	16504433	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.955C>T	p.%3D	p.L319L	ENST00000304523	8/8	117	76	41	128	128	0	LDB2,synonymous_variant,p.%3D,ENST00000304523,;LDB2,synonymous_variant,p.%3D,ENST00000507464,;LDB2,synonymous_variant,p.%3D,ENST00000515064,;LDB2,3_prime_UTR_variant,,ENST00000503178,;LDB2,3_prime_UTR_variant,,ENST00000502640,;LDB2,3_prime_UTR_variant,,ENST00000441778,;RP11-446J8.1,intron_variant,,ENST00000512370,;LDB2,3_prime_UTR_variant,,ENST00000508918,;LDB2,non_coding_transcript_exon_variant,,ENST00000509803,;	A	ENSG00000169744	ENST00000304523	Transcript	synonymous_variant	1279	955	319	L	Cta/Tta	.	.	.	-1	LDB2	HGNC	6533	protein_coding	YES	CCDS3420.1	ENSP00000306772	LDB2_HUMAN	Q4W5E7_HUMAN,D6RAT1_HUMAN	UPI0000073D86	.	.	.	8/8	.	hmmpanther:PTHR10378,hmmpanther:PTHR10378:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GATTAGCCTTT	.	5	BLCA
GALNTL6	0	.	GRCh37	4	172735776	172735776	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.45C>T	p.%3D	p.F15F	ENST00000506823	2/13	59	37	22	58	58	0	GALNTL6,synonymous_variant,p.%3D,ENST00000506823,;GALNTL6,synonymous_variant,p.%3D,ENST00000511251,;GALNTL6,non_coding_transcript_exon_variant,,ENST00000504379,;GALNTL6,non_coding_transcript_exon_variant,,ENST00000513061,;	T	ENSG00000174473	ENST00000506823	Transcript	synonymous_variant	702	45	15	F	ttC/ttT	.	.	.	1	GALNTL6	HGNC	33844	protein_coding	YES	CCDS34104.1	ENSP00000423313	GLTL6_HUMAN	E5D8G0_HUMAN	UPI000058EB5C	.	.	.	2/13	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTTCACGGT	.	5	BLCA
ZFYVE28	0	.	GRCh37	4	2307227	2307227	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.840C>A	p.His280Gln	p.H280Q	ENST00000290974	8/13	26	16	10	34	34	0	ZFYVE28,missense_variant,p.His250Gln,ENST00000511071,;ZFYVE28,missense_variant,p.His210Gln,ENST00000515312,;ZFYVE28,missense_variant,p.His280Gln,ENST00000290974,;RP11-478C1.7,intron_variant,,ENST00000510632,;	T	ENSG00000159733	ENST00000290974	Transcript	missense_variant	1180	840	280	H/Q	caC/caA	.	.	.	-1	ZFYVE28	HGNC	29334	protein_coding	YES	CCDS33942.1	ENSP00000290974	LST2_HUMAN	Q49AA1_HUMAN,D6RID3_HUMAN	UPI00001C1E08	.	tolerated(0.19)	possibly_damaging(0.66)	8/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGCGTGTGCAG	.	5	BLCA
CCDC96	0	.	GRCh37	4	7044575	7044575	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91A>G	p.Ser31Gly	p.S31G	ENST00000310085	1/1	8	5	3	9	9	0	CCDC96,missense_variant,p.Ser31Gly,ENST00000310085,;TADA2B,intron_variant,,ENST00000506692,;TADA2B,upstream_gene_variant,,ENST00000310074,;TADA2B,upstream_gene_variant,,ENST00000512388,;RP11-367J11.2,intron_variant,,ENST00000500031,;	C	ENSG00000173013	ENST00000310085	Transcript	missense_variant	154	91	31	S/G	Agc/Ggc	.	.	.	-1	CCDC96	HGNC	26900	protein_coding	YES	CCDS3395.1	ENSP00000309285	CCD96_HUMAN	.	UPI00000705C9	.	tolerated_low_confidence(0.1)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15654,hmmpanther:PTHR15654:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAGCTGGCCT	.	2	BLCA
VDAC1	0	.	GRCh37	5	133326558	133326558	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.311C>T	p.Ser104Leu	p.S104L	ENST00000265333	5/9	88	75	13	79	79	0	VDAC1,missense_variant,p.Ser104Leu,ENST00000265333,;VDAC1,missense_variant,p.Ser104Leu,ENST00000395047,;VDAC1,missense_variant,p.Ser104Leu,ENST00000395044,;VDAC1,missense_variant,p.Ser104Leu,ENST00000425992,;VDAC1,non_coding_transcript_exon_variant,,ENST00000466080,;	A	ENSG00000213585	ENST00000265333	Transcript	missense_variant	556	311	104	S/L	tCa/tTa	.	.	.	-1	VDAC1	HGNC	12669	protein_coding	YES	CCDS4168.1	ENSP00000265333	VDAC1_HUMAN	C9JI87_HUMAN	UPI000004C7D8	.	tolerated(0.31)	benign(0.209)	5/9	.	hmmpanther:PTHR11743:SF13,hmmpanther:PTHR11743,Pfam_domain:PF01459,Gene3D:2.40.160.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGGTGAGAAG	.	4	BLCA
SEC24A	0	.	GRCh37	5	134033704	134033704	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2223G>A	p.%3D	p.R741R	ENST00000398844	15/23	122	80	42	107	107	0	SEC24A,synonymous_variant,p.%3D,ENST00000398844,;SEC24A,downstream_gene_variant,,ENST00000322887,;RNU6-1164P,downstream_gene_variant,,ENST00000364428,;	A	ENSG00000113615	ENST00000398844	Transcript	synonymous_variant	2511	2223	741	R	cgG/cgA	.	.	.	1	SEC24A	HGNC	10703	protein_coding	YES	CCDS43363.1	ENSP00000381823	SC24A_HUMAN	.	UPI0000185FF9	.	.	.	15/23	.	Superfamily_domains:SSF81995,Superfamily_domains:SSF53300,Gene3D:3.40.50.410,hmmpanther:PTHR13803,hmmpanther:PTHR13803:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACTCGGAAGAT	.	5	BLCA
CATSPER3	0	.	GRCh37	5	134346110	134346110	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.984G>A	p.%3D	p.K328K	ENST00000282611	7/8	71	60	11	58	58	0	CATSPER3,synonymous_variant,p.%3D,ENST00000282611,;PCBD2,downstream_gene_variant,,ENST00000504352,;	A	ENSG00000152705	ENST00000282611	Transcript	synonymous_variant	1070	984	328	K	aaG/aaA	.	.	.	1	CATSPER3	HGNC	20819	protein_coding	YES	CCDS4181.1	ENSP00000282611	CTSR3_HUMAN	.	UPI0000034D60	.	.	.	7/8	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF197	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTAAGAAGAC	.	5	BLCA
BRD8	0	.	GRCh37	5	137488425	137488425	+	Missense_Mutation	SNP	C	C	T	rs776463836	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2602G>A	p.Asp868Asn	p.D868N	ENST00000254900	21/27	100	72	28	113	113	0	BRD8,missense_variant,p.Asp868Asn,ENST00000254900,;BRD8,downstream_gene_variant,,ENST00000455658,;BRD8,downstream_gene_variant,,ENST00000402931,;BRD8,downstream_gene_variant,,ENST00000454473,;BRD8,downstream_gene_variant,,ENST00000411594,;BRD8,downstream_gene_variant,,ENST00000418329,;BRD8,downstream_gene_variant,,ENST00000230901,;BRD8,upstream_gene_variant,,ENST00000427976,;BRD8,downstream_gene_variant,,ENST00000441656,;BRD8,downstream_gene_variant,,ENST00000512140,;BRD8,downstream_gene_variant,,ENST00000472478,;	T	ENSG00000112983	ENST00000254900	Transcript	missense_variant	2974	2602	868	D/N	Gat/Aat	rs776463836	.	.	-1	BRD8	HGNC	19874	protein_coding	YES	CCDS4198.1	ENSP00000254900	BRD8_HUMAN	F8WDX5_HUMAN,F8WBH2_HUMAN	UPI0000246C01	.	tolerated_low_confidence(0.11)	benign(0.091)	21/27	.	hmmpanther:PTHR15398,hmmpanther:PTHR15398:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGAATCCAGCC	.	5	BLCA
ZMAT2	0	.	GRCh37	5	140085332	140085332	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.591G>T	p.Lys197Asn	p.K197N	ENST00000274712	6/6	82	62	20	67	67	0	ZMAT2,missense_variant,p.Lys197Asn,ENST00000274712,;ZMAT2,downstream_gene_variant,,ENST00000519913,;ZMAT2,3_prime_UTR_variant,,ENST00000506644,;	T	ENSG00000146007	ENST00000274712	Transcript	missense_variant	718	591	197	K/N	aaG/aaT	.	.	.	1	ZMAT2	HGNC	26433	protein_coding	YES	CCDS4239.1	ENSP00000274712	ZMAT2_HUMAN	R4GMX9_HUMAN	UPI0000029931	.	deleterious(0)	benign(0.167)	6/6	.	hmmpanther:PTHR23067:SF39,hmmpanther:PTHR23067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAGAAGAGTTA	.	3	BLCA
ZMAT2	0	.	GRCh37	5	140085340	140085340	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.599G>A	p.%3D	p.%3D	ENST00000274712	6/6	79	59	19	67	67	0	ZMAT2,stop_retained_variant,p.%3D,ENST00000274712,;ZMAT2,downstream_gene_variant,,ENST00000519913,;ZMAT2,3_prime_UTR_variant,,ENST00000506644,;	A	ENSG00000146007	ENST00000274712	Transcript	stop_retained_variant	726	599	200	*	tGa/tAa	.	.	.	1	ZMAT2	HGNC	26433	protein_coding	YES	CCDS4239.1	ENSP00000274712	ZMAT2_HUMAN	R4GMX9_HUMAN	UPI0000029931	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTACTGAGGCT	.	3	BLCA
PCDHA1	0	.	GRCh37	5	140167204	140167204	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1329G>A	p.%3D	p.V443V	ENST00000504120	1/4	119	103	15	107	107	0	PCDHA1,synonymous_variant,p.%3D,ENST00000504120,;PCDHA1,synonymous_variant,p.%3D,ENST00000394633,;PCDHA1,synonymous_variant,p.%3D,ENST00000378133,;	A	ENSG00000204970	ENST00000504120	Transcript	synonymous_variant	1329	1329	443	V	gtG/gtA	.	.	.	1	PCDHA1	HGNC	8663	protein_coding	YES	CCDS54913.1	ENSP00000420840	PCDA1_HUMAN	.	UPI00001273C7	.	.	.	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF92,hmmpanther:PTHR24028,PROSITE_patterns:PS00232,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCGTGGAGGT	.	4	BLCA
PCDHB14	0	.	GRCh37	5	140604051	140604051	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.974G>T	p.Gly325Val	p.G325V	ENST00000239449	1/1	80	68	12	61	61	0	PCDHB14,missense_variant,p.Gly325Val,ENST00000239449,;PCDHB14,missense_variant,p.Gly172Val,ENST00000515856,;	T	ENSG00000120327	ENST00000239449	Transcript	missense_variant	974	974	325	G/V	gGg/gTg	.	.	.	1	PCDHB14	HGNC	8685	protein_coding	YES	CCDS4256.1	ENSP00000239449	PCDBE_HUMAN	B4DPE2_HUMAN	UPI00001273E7	.	deleterious_low_confidence(0)	probably_damaging(1)	1/1	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF81,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGGGGGTC	.	4	BLCA
PCDHGA5	0	.	GRCh37	5	140745917	140745917	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2020G>T	p.Asp674Tyr	p.D674Y	ENST00000518069	1/4	296	203	93	250	250	0	PCDHGA5,missense_variant,p.Asp674Tyr,ENST00000518069,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGB3,upstream_gene_variant,,ENST00000576222,;	T	ENSG00000253485	ENST00000518069	Transcript	missense_variant	2020	2020	674	D/Y	Gac/Tac	.	.	.	1	PCDHGA5	HGNC	8703	protein_coding	YES	CCDS54925.1	ENSP00000429834	PCDG5_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000006CD9F	.	deleterious_low_confidence(0)	probably_damaging(0.968)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF105	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCTGACCTA	.	5	BLCA
CCNJL	0	.	GRCh37	5	159680592	159680592	+	Silent	SNP	C	C	T	rs759656265	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1101G>A	p.%3D	p.G367G	ENST00000393977	7/7	32	27	5	22	22	0	CCNJL,synonymous_variant,p.%3D,ENST00000257536,;CCNJL,synonymous_variant,p.%3D,ENST00000393977,;CCNJL,downstream_gene_variant,,ENST00000519673,;CCNJL,downstream_gene_variant,,ENST00000541762,;CCNJL,non_coding_transcript_exon_variant,,ENST00000377503,;RP11-34P1.2,upstream_gene_variant,,ENST00000522428,;	T	ENSG00000135083	ENST00000393977	Transcript	synonymous_variant	1387	1101	367	G	ggG/ggA	rs759656265	.	.	-1	CCNJL	HGNC	25876	protein_coding	YES	CCDS4350.2	ENSP00000377547	CCNJL_HUMAN	.	UPI000020C075	.	.	.	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10177,hmmpanther:PTHR10177:SF63	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCTCCCTGA	byFrequency	4	BLCA
FAM134B	0	.	GRCh37	5	16475169	16475169	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1175C>G	p.Ser392Ter	p.S392*	ENST00000306320	9/9	91	63	27	61	61	0	FAM134B,stop_gained,p.Ser251Ter,ENST00000399793,;FAM134B,stop_gained,p.Ser392Ter,ENST00000306320,;FAM134B,downstream_gene_variant,,ENST00000509977,;FAM134B,stop_gained,p.Ser112Ter,ENST00000510362,;	C	ENSG00000154153	ENST00000306320	Transcript	stop_gained	1262	1175	392	S/*	tCa/tGa	.	.	.	-1	FAM134B	HGNC	25964	protein_coding	YES	CCDS43304.1	ENSP00000304642	F134B_HUMAN	.	UPI000006D7DB	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCTGATTGC	.	5	BLCA
RARS	0	.	GRCh37	5	167919789	167919789	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.306G>A	p.%3D	p.V102V	ENST00000231572	3/15	114	91	23	89	89	0	RARS,synonymous_variant,p.%3D,ENST00000231572,;RARS,5_prime_UTR_variant,,ENST00000538719,;RARS,upstream_gene_variant,,ENST00000520421,;RARS,synonymous_variant,p.%3D,ENST00000520013,;RARS,synonymous_variant,p.%3D,ENST00000522834,;RARS,3_prime_UTR_variant,,ENST00000521329,;RARS,non_coding_transcript_exon_variant,,ENST00000519346,;RARS,non_coding_transcript_exon_variant,,ENST00000524082,;RARS,non_coding_transcript_exon_variant,,ENST00000521939,;RARS,upstream_gene_variant,,ENST00000518757,;	A	ENSG00000113643	ENST00000231572	Transcript	synonymous_variant	360	306	102	V	gtG/gtA	.	.	.	1	RARS	HGNC	9870	protein_coding	YES	CCDS4367.1	ENSP00000231572	SYRC_HUMAN	F5H3T8_HUMAN	UPI0000136648	.	.	.	3/15	.	Superfamily_domains:SSF55190,SMART_domains:SM01016,Pfam_domain:PF03485,TIGRFAM_domain:TIGR00456,Gene3D:3.30.1360.70,hmmpanther:PTHR11956:SF1,hmmpanther:PTHR11956,HAMAP:MF_00123	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTAGTGACACC	.	5	BLCA
SH3PXD2B	0	.	GRCh37	5	171774337	171774337	+	Splice_Site	SNP	C	C	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1013-1G>T	.	p.X338_splice	ENST00000311601	.	49	29	19	37	37	0	SH3PXD2B,splice_acceptor_variant,,ENST00000519643,;SH3PXD2B,splice_acceptor_variant,,ENST00000311601,;SH3PXD2B,splice_acceptor_variant,,ENST00000518522,;	A	ENSG00000174705	ENST00000311601	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	SH3PXD2B	HGNC	29242	protein_coding	YES	CCDS34291.1	ENSP00000309714	SPD2B_HUMAN	.	UPI000020C12E	.	.	.	.	10/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGATCCTATGG	.	5	BLCA
ARSB	0	.	GRCh37	5	78260297	78260297	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632C>T	p.Ser211Leu	p.S211L	ENST00000264914	3/8	52	36	16	68	68	0	ARSB,missense_variant,p.Ser211Leu,ENST00000264914,;ARSB,missense_variant,p.Ser211Leu,ENST00000396151,;ARSB,missense_variant,p.Ser211Leu,ENST00000565165,;	A	ENSG00000113273	ENST00000264914	Transcript	missense_variant	1169	632	211	S/L	tCa/tTa	.	.	.	-1	ARSB	HGNC	714	protein_coding	YES	CCDS4043.1	ENSP00000264914	ARSB_HUMAN	E5RHC4_HUMAN	UPI00001260A3	.	deleterious(0)	probably_damaging(0.999)	3/8	.	hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF206,Gene3D:3.40.720.10,Pfam_domain:PF00884,Superfamily_domains:SSF53649	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGTTGAATAC	.	5	BLCA
CKMT2	0	.	GRCh37	5	80548609	80548609	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.248A>C	p.Asn83Thr	p.N83T	ENST00000424301	4/11	35	23	12	42	42	0	CKMT2,missense_variant,p.Asn83Thr,ENST00000254035,;CKMT2,missense_variant,p.Asn83Thr,ENST00000437669,;CKMT2,missense_variant,p.Asn83Thr,ENST00000424301,;CKMT2,missense_variant,p.Asn83Thr,ENST00000505060,;CKMT2,missense_variant,p.Asn83Thr,ENST00000511719,;CKMT2-AS1,intron_variant,,ENST00000501927,;CKMT2-AS1,intron_variant,,ENST00000500148,;CKMT2-AS1,intron_variant,,ENST00000512287,;CKMT2-AS1,intron_variant,,ENST00000511495,;CKMT2-AS1,intron_variant,,ENST00000503483,;CKMT2-AS1,intron_variant,,ENST00000502041,;CKMT2-AS1,intron_variant,,ENST00000505295,;CKMT2,non_coding_transcript_exon_variant,,ENST00000515615,;CKMT2,non_coding_transcript_exon_variant,,ENST00000513094,;CKMT2,downstream_gene_variant,,ENST00000505704,;CKMT2,non_coding_transcript_exon_variant,,ENST00000505135,;CKMT2,non_coding_transcript_exon_variant,,ENST00000515238,;CKMT2,upstream_gene_variant,,ENST00000514086,;CKMT2,upstream_gene_variant,,ENST00000505850,;	C	ENSG00000131730	ENST00000424301	Transcript	missense_variant	486	248	83	N/T	aAc/aCc	.	.	.	1	CKMT2	HGNC	1996	protein_coding	YES	CCDS4053.1	ENSP00000404203	KCRS_HUMAN	D6R998_HUMAN,B3KVA7_HUMAN	UPI000013CE0D	.	tolerated(0.15)	benign(0.009)	4/11	.	PROSITE_profiles:PS51509,hmmpanther:PTHR11547:SF19,hmmpanther:PTHR11547,Gene3D:1.10.135.10,Pfam_domain:PF02807,Superfamily_domains:SSF48034	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCAACGGCT	.	5	BLCA
IYD	0	.	GRCh37	6	150719394	150719394	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*121G>A	.	.	ENST00000229447	6/6	39	16	23	39	39	0	IYD,3_prime_UTR_variant,,ENST00000344419,;IYD,3_prime_UTR_variant,,ENST00000229447,;IYD,downstream_gene_variant,,ENST00000392255,;IYD,downstream_gene_variant,,ENST00000392256,;IYD,downstream_gene_variant,,ENST00000500320,;IYD,downstream_gene_variant,,ENST00000425615,;IYD,downstream_gene_variant,,ENST00000422583,;IYD,downstream_gene_variant,,ENST00000367335,;	A	ENSG00000009765	ENST00000229447	Transcript	3_prime_UTR_variant	1143	.	.	.	.	.	.	.	1	IYD	HGNC	21071	protein_coding	YES	CCDS55067.1	ENSP00000229447	IYD1_HUMAN	.	UPI000020D099	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGAGTGGCAGG	.	5	BLCA
CFB	0	.	GRCh37	6	31895486	31895486	+	5'UTR	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-44C>T	.	.	ENST00000456570	1/30	171	87	83	149	149	0	CFB,5_prime_UTR_variant,,ENST00000456570,;C2,5_prime_UTR_variant,,ENST00000442278,;CFB,5_prime_UTR_variant,,ENST00000556679,;C2,5_prime_UTR_variant,,ENST00000299367,;C2,5_prime_UTR_variant,,ENST00000413154,;C2,5_prime_UTR_variant,,ENST00000447952,;C2,5_prime_UTR_variant,,ENST00000418949,;C2,intron_variant,,ENST00000469372,;C2,intron_variant,,ENST00000452202,;C2,intron_variant,,ENST00000497706,;C2,intron_variant,,ENST00000452323,;CFB,upstream_gene_variant,,ENST00000477310,;C2,upstream_gene_variant,,ENST00000494905,;C2,upstream_gene_variant,,ENST00000383177,;C2,intron_variant,,ENST00000484636,;C2,intron_variant,,ENST00000411571,;C2,upstream_gene_variant,,ENST00000482060,;	T	ENSG00000244255	ENST00000456570	Transcript	5_prime_UTR_variant	12	.	.	.	.	.	.	.	1	CFB	Uniprot_gn	1037	protein_coding	YES	.	ENSP00000410815	.	B4E1Z4_HUMAN	UPI00017A8869	.	.	.	1/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTCCCTCCC	.	5	BLCA
HCRTR2	0	.	GRCh37	6	55147170	55147170	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1253C>G	p.Ser418Ter	p.S418*	ENST00000370862	7/7	37	34	3	27	27	0	HCRTR2,stop_gained,p.Ser418Ter,ENST00000370862,;	G	ENSG00000137252	ENST00000370862	Transcript	stop_gained	1589	1253	418	S/*	tCa/tGa	.	.	.	1	HCRTR2	HGNC	4849	protein_coding	YES	CCDS4956.1	ENSP00000359899	OX2R_HUMAN	S4X0W3_HUMAN,A6N9G8_HUMAN	UPI000013D07A	.	.	.	7/7	.	hmmpanther:PTHR24241:SF56,hmmpanther:PTHR24241,Pfam_domain:PF03827,Prints_domain:PR01064,Prints_domain:PR01522	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATATCAAAAC	.	2	BLCA
PNISR	0	.	GRCh37	6	99849333	99849333	+	Missense_Mutation	SNP	C	C	G	rs577397043	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1501G>C	p.Glu501Gln	p.E501Q	ENST00000369239	12/12	75	40	35	65	65	0	PNISR,missense_variant,p.Glu501Gln,ENST00000369239,;PNISR,missense_variant,p.Glu501Gln,ENST00000438806,;PNISR,intron_variant,,ENST00000481229,;PNISR,downstream_gene_variant,,ENST00000476159,;PNISR,downstream_gene_variant,,ENST00000460600,;PNISR,downstream_gene_variant,,ENST00000478777,;	G	ENSG00000132424	ENST00000369239	Transcript	missense_variant	1706	1501	501	E/Q	Gaa/Caa	rs577397043	.	.	-1	PNISR	HGNC	21222	protein_coding	YES	CCDS5043.1	ENSP00000358242	PNISR_HUMAN	Q8TEZ9_HUMAN	UPI000013E3A2	.	tolerated_low_confidence(0.22)	possibly_damaging(0.607)	12/12	.	hmmpanther:PTHR31518:SF2,hmmpanther:PTHR31518,Low_complexity_(Seg):seg	T:0.0004	T:0	T:0.0029	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E498fs*3|c.1491_1492insA|3	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTTTCTTTAT	byFrequency|by1000G	5	BLCA
USP45	0	.	GRCh37	6	99894186	99894186	+	Missense_Mutation	SNP	C	C	T	rs778908808	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1462G>A	p.Asp488Asn	p.D488N	ENST00000327681	14/18	81	43	37	90	90	0	USP45,missense_variant,p.Asp168Asn,ENST00000392738,;USP45,missense_variant,p.Asp440Asn,ENST00000369233,;USP45,missense_variant,p.Asp488Asn,ENST00000500704,;USP45,missense_variant,p.Asp488Asn,ENST00000327681,;USP45,intron_variant,,ENST00000539675,;USP45,3_prime_UTR_variant,,ENST00000496518,;USP45,non_coding_transcript_exon_variant,,ENST00000513344,;	T	ENSG00000123552	ENST00000327681	Transcript	missense_variant	1995	1462	488	D/N	Gat/Aat	rs778908808	.	.	-1	USP45	HGNC	20080	protein_coding	YES	CCDS34501.1	ENSP00000333376	UBP45_HUMAN	F5H1L5_HUMAN,D6RE98_HUMAN	UPI0000253B80	.	tolerated(0.13)	benign(0.182)	14/18	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006:SF346,hmmpanther:PTHR24006,Pfam_domain:PF00443	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTCATCAGTAG	.	5	BLCA
SLC26A4	0	.	GRCh37	7	107314747	107314747	+	Missense_Mutation	SNP	G	G	T	rs542620119	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.554G>T	p.Arg185Ile	p.R185I	ENST00000265715	5/21	66	57	9	66	66	0	SLC26A4,missense_variant,p.Arg185Ile,ENST00000265715,;SLC26A4,downstream_gene_variant,,ENST00000440056,;	T	ENSG00000091137	ENST00000265715	Transcript	missense_variant	778	554	185	R/I	aGa/aTa	rs542620119	.	.	1	SLC26A4	HGNC	8818	protein_coding	YES	CCDS5746.1	ENSP00000265715	S26A4_HUMAN	Q75MC7_HUMAN,C9JQG1_HUMAN,B7Z266_HUMAN	UPI00001315A4	.	deleterious(0)	probably_damaging(0.999)	5/21	.	hmmpanther:PTHR11814:SF33,hmmpanther:PTHR11814,TIGRFAM_domain:TIGR00815	C:0.0002	C:0	C:0	.	C:0	C:0.001	C:0	.	.	likely_pathogenic	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTAGAGTCC	byCluster|by1000G	4	BLCA
GPR85	0	.	GRCh37	7	112723536	112723536	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*128C>T	.	.	ENST00000297146	3/3	23	16	7	21	21	0	GPR85,3_prime_UTR_variant,,ENST00000297146,;GPR85,3_prime_UTR_variant,,ENST00000501255,;GPR85,3_prime_UTR_variant,,ENST00000424100,;GPR85,downstream_gene_variant,,ENST00000438062,;GPR85,downstream_gene_variant,,ENST00000449735,;GPR85,downstream_gene_variant,,ENST00000449591,;GPR85,downstream_gene_variant,,ENST00000487573,;GPR85,3_prime_UTR_variant,,ENST00000610164,;	A	ENSG00000164604	ENST00000297146	Transcript	3_prime_UTR_variant	1845	.	.	.	.	.	.	.	-1	GPR85	HGNC	4536	protein_coding	YES	CCDS5758.1	ENSP00000297146	GPR85_HUMAN	C9JDK8_HUMAN,C9JBQ9_HUMAN,A4D0T8_HUMAN	UPI0000004048	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCAGAATGT	.	5	BLCA
SVOPL	0	.	GRCh37	7	138333863	138333863	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.554C>T	p.Ser185Phe	p.S185F	ENST00000419765	7/15	54	41	12	51	50	0	SVOPL,missense_variant,p.Ser65Phe,ENST00000421622,;SVOPL,missense_variant,p.Ser33Phe,ENST00000288513,;SVOPL,missense_variant,p.Ser185Phe,ENST00000419765,;SVOPL,missense_variant,p.Ser33Phe,ENST00000436657,;SVOPL,5_prime_UTR_variant,,ENST00000441685,;AC013429.4,upstream_gene_variant,,ENST00000456604,;	A	ENSG00000157703	ENST00000419765	Transcript	missense_variant	588	554	185	S/F	tCc/tTc	.	.	.	-1	SVOPL	HGNC	27034	protein_coding	YES	CCDS47721.1	ENSP00000405482	SVOPL_HUMAN	.	UPI0001565476	.	deleterious(0)	probably_damaging(0.954)	7/15	.	Superfamily_domains:SSF103473,Gene3D:1.20.1250.20,Pfam_domain:PF07690,hmmpanther:PTHR24064,hmmpanther:PTHR24064:SF175,PROSITE_profiles:PS50850,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAGGGAGCCC	.	5	BLCA
PIP	0	.	GRCh37	7	142836242	142836242	+	Silent	SNP	C	C	T	rs141238396	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.276C>T	p.%3D	p.D92D	ENST00000291009	3/4	96	75	21	113	113	0	PIP,synonymous_variant,p.%3D,ENST00000291009,;	T	ENSG00000159763	ENST00000291009	Transcript	synonymous_variant	316	276	92	D	gaC/gaT	rs141238396	.	.	1	PIP	HGNC	8993	protein_coding	YES	CCDS34768.1	ENSP00000291009	PIP_HUMAN	.	UPI0000131B05	.	.	.	3/4	.	hmmpanther:PTHR15096:SF1,hmmpanther:PTHR15096,Pfam_domain:PF05326,PIRSF_domain:PIRSF002572,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	T:0.0016	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTGACGACAA	byCluster	5	BLCA
SUN3	0	.	GRCh37	7	48033970	48033970	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.803C>T	p.Ser268Leu	p.S268L	ENST00000297325	8/10	117	76	41	92	92	0	SUN3,missense_variant,p.Ser256Leu,ENST00000453192,;SUN3,missense_variant,p.Ser192Leu,ENST00000453071,;SUN3,missense_variant,p.Ser90Leu,ENST00000412371,;SUN3,missense_variant,p.Ser268Leu,ENST00000395572,;SUN3,missense_variant,p.Ser168Leu,ENST00000412142,;SUN3,missense_variant,p.Ser168Leu,ENST00000438771,;SUN3,missense_variant,p.Ser268Leu,ENST00000297325,;SUN3,non_coding_transcript_exon_variant,,ENST00000473723,;SUN3,3_prime_UTR_variant,,ENST00000449896,;	A	ENSG00000164744	ENST00000297325	Transcript	missense_variant	963	803	268	S/L	tCa/tTa	.	.	.	-1	SUN3	HGNC	22429	protein_coding	YES	CCDS34636.1	ENSP00000297325	SUN3_HUMAN	.	UPI000057B85F	.	deleterious(0.03)	probably_damaging(0.924)	8/10	.	PROSITE_profiles:PS51469,hmmpanther:PTHR12911,hmmpanther:PTHR12911:SF15,Pfam_domain:PF07738	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCTCTGAGATG	.	5	BLCA
COBL	0	.	GRCh37	7	51287509	51287509	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.174G>T	p.%3D	p.L58L	ENST00000265136	2/13	47	38	9	51	51	0	COBL,synonymous_variant,p.%3D,ENST00000395540,;COBL,synonymous_variant,p.%3D,ENST00000449281,;COBL,synonymous_variant,p.%3D,ENST00000265136,;COBL,synonymous_variant,p.%3D,ENST00000395542,;COBL,synonymous_variant,p.%3D,ENST00000441453,;	A	ENSG00000106078	ENST00000265136	Transcript	synonymous_variant	340	174	58	L	ctG/ctT	.	.	.	-1	COBL	HGNC	22199	protein_coding	YES	CCDS34637.1	ENSP00000265136	COBL_HUMAN	C9J9X1_HUMAN	UPI00001A9480	.	.	.	2/13	.	hmmpanther:PTHR21557,hmmpanther:PTHR21557:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCCCTCAGCGC	.	5	BLCA
CYTH3	0	.	GRCh37	7	6227307	6227307	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.163C>T	p.%3D	p.L55L	ENST00000350796	3/13	98	79	18	97	97	0	CYTH3,synonymous_variant,p.%3D,ENST00000350796,;CYTH3,non_coding_transcript_exon_variant,,ENST00000482460,;	A	ENSG00000008256	ENST00000350796	Transcript	synonymous_variant	300	163	55	L	Cta/Tta	.	.	.	-1	CYTH3	HGNC	9504	protein_coding	YES	CCDS5346.1	ENSP00000297044	CYH3_HUMAN	Q96HS5_HUMAN	UPI000002A7A1	.	.	.	3/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10663:SF129,hmmpanther:PTHR10663	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGTTAGATTGT	.	5	BLCA
SBDS	0	.	GRCh37	7	66453442	66453442	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669A>G	p.%3D	p.L223L	ENST00000246868	5/5	75	55	19	54	54	0	SBDS,synonymous_variant,p.%3D,ENST00000246868,;SBDS,3_prime_UTR_variant,,ENST00000414306,;SBDS,downstream_gene_variant,,ENST00000463579,;SBDS,downstream_gene_variant,,ENST00000490953,;	C	ENSG00000126524	ENST00000246868	Transcript	synonymous_variant	853	669	223	L	ctA/ctG	.	.	.	-1	SBDS	HGNC	19440	protein_coding	YES	CCDS5537.1	ENSP00000246868	SBDS_HUMAN	.	UPI000013559C	.	.	.	5/5	.	hmmpanther:PTHR10927,TIGRFAM_domain:TIGR00291,Pfam_domain:PF09377	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTATTAGCTC	.	5	BLCA
SRCRB4D	0	.	GRCh37	7	76019306	76019306	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*70C>T	.	.	ENST00000275560	11/11	27	18	9	17	17	0	SRCRB4D,3_prime_UTR_variant,,ENST00000275560,;SRCRB4D,non_coding_transcript_exon_variant,,ENST00000492979,;	A	ENSG00000146700	ENST00000275560	Transcript	3_prime_UTR_variant	2146	.	.	.	.	.	.	.	-1	SRCRB4D	HGNC	14461	protein_coding	YES	CCDS5585.1	ENSP00000275560	SRB4D_HUMAN	.	UPI000006D197	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGAGGAGGGC	.	5	BLCA
RPA3	0	.	GRCh37	7	7680043	7680043	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7G>T	p.Asp3Tyr	p.D3Y	ENST00000223129	5/8	62	49	13	47	47	0	RPA3,missense_variant,p.Asp3Tyr,ENST00000223129,;RPA3,missense_variant,p.Asp3Tyr,ENST00000396682,;RPA3,intron_variant,,ENST00000406109,;RPA3,upstream_gene_variant,,ENST00000401447,;RPA3-AS1,upstream_gene_variant,,ENST00000469183,;RPA3-AS1,upstream_gene_variant,,ENST00000463725,;RPA3-AS1,upstream_gene_variant,,ENST00000471760,;RPA3-AS1,upstream_gene_variant,,ENST00000468567,;RPA3-AS1,upstream_gene_variant,,ENST00000482067,;RPA3-AS1,upstream_gene_variant,,ENST00000493246,;RPA3,non_coding_transcript_exon_variant,,ENST00000462723,;RPA3,intron_variant,,ENST00000463632,;RPA3,upstream_gene_variant,,ENST00000483031,;	A	ENSG00000106399	ENST00000223129	Transcript	missense_variant	1179	7	3	D/Y	Gac/Tac	COSM1488688	.	.	-1	RPA3	HGNC	10291	protein_coding	YES	CCDS5356.1	ENSP00000223129	RFA3_HUMAN	B5MC59_HUMAN,A4D105_HUMAN	UPI00001122E6	.	deleterious(0)	possibly_damaging(0.889)	5/8	.	Superfamily_domains:SSF50249,Gene3D:2.40.50.140,hmmpanther:PTHR15114,hmmpanther:PTHR15114:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CATGTCCACCA	.	5	BLCA
PON1	0	.	GRCh37	7	94944794	94944794	+	Missense_Mutation	SNP	C	C	A	rs150388378	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.210G>T	p.Lys70Asn	p.K70N	ENST00000222381	4/9	73	54	19	58	58	0	PON1,missense_variant,p.Lys70Asn,ENST00000542556,;PON1,missense_variant,p.Lys70Asn,ENST00000222381,;PON1,non_coding_transcript_exon_variant,,ENST00000470502,;PON1,intron_variant,,ENST00000433729,;	A	ENSG00000005421	ENST00000222381	Transcript	missense_variant	442	210	70	K/N	aaG/aaT	rs150388378	.	.	-1	PON1	HGNC	9204	protein_coding	YES	CCDS5638.1	ENSP00000222381	PON1_HUMAN	.	UPI000013C7FD	.	deleterious(0.04)	benign(0.191)	4/9	.	hmmpanther:PTHR11799,hmmpanther:PTHR11799:SF3,Gene3D:2.120.10.30,Superfamily_domains:SSF63829,Prints_domain:PR01785	.	.	.	.	.	.	.	T:0.0005	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGATACTTTAA	byCluster	5	BLCA
TAF6	0	.	GRCh37	7	99704883	99704883	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2131C>T	p.Gln711Ter	p.Q711*	ENST00000437822	15/15	28	20	8	18	18	0	TAF6,stop_gained,p.Gln711Ter,ENST00000437822,;TAF6,stop_gained,p.Gln674Ter,ENST00000452041,;TAF6,stop_gained,p.Gln674Ter,ENST00000344095,;TAF6,stop_gained,p.Gln598Ter,ENST00000418432,;TAF6,stop_gained,p.Gln674Ter,ENST00000453269,;TAF6,stop_gained,p.Gln731Ter,ENST00000472509,;AP4M1,intron_variant,,ENST00000450807,;AP4M1,intron_variant,,ENST00000421755,;AP4M1,downstream_gene_variant,,ENST00000422582,;AP4M1,downstream_gene_variant,,ENST00000359593,;AP4M1,downstream_gene_variant,,ENST00000438383,;AP4M1,downstream_gene_variant,,ENST00000429084,;AP4M1,downstream_gene_variant,,ENST00000439416,;AP4M1,downstream_gene_variant,,ENST00000445295,;TAF6,downstream_gene_variant,,ENST00000440225,;TAF6,downstream_gene_variant,,ENST00000493322,;AP4M1,downstream_gene_variant,,ENST00000495154,;AP4M1,downstream_gene_variant,,ENST00000478501,;AP4M1,3_prime_UTR_variant,,ENST00000416938,;TAF6,3_prime_UTR_variant,,ENST00000421980,;AP4M1,downstream_gene_variant,,ENST00000446007,;AP4M1,downstream_gene_variant,,ENST00000445208,;AP4M1,downstream_gene_variant,,ENST00000463195,;AP4M1,downstream_gene_variant,,ENST00000394061,;TAF6,downstream_gene_variant,,ENST00000487115,;TAF6,downstream_gene_variant,,ENST00000487288,;AP4M1,downstream_gene_variant,,ENST00000489387,;AP4M1,downstream_gene_variant,,ENST00000479916,;	A	ENSG00000106290	ENST00000437822	Transcript	stop_gained	2226	2131	711	Q/*	Cag/Tag	.	.	.	-1	TAF6	HGNC	11540	protein_coding	YES	CCDS55135.1	ENSP00000399982	TAF6_HUMAN	C9JTY6_HUMAN,C9JIS2_HUMAN,C9JHQ8_HUMAN,C9J7C4_HUMAN,A4D299_HUMAN	UPI00017A7AA3	.	.	.	15/15	.	hmmpanther:PTHR10221,hmmpanther:PTHR10221:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGCTGAGGGG	.	5	BLCA
ANGPT2	0	.	GRCh37	8	6389913	6389913	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.384G>A	p.%3D	p.G128G	ENST00000325203	2/9	67	50	16	88	88	0	ANGPT2,synonymous_variant,p.%3D,ENST00000523120,;ANGPT2,synonymous_variant,p.%3D,ENST00000415216,;ANGPT2,synonymous_variant,p.%3D,ENST00000325203,;ANGPT2,intron_variant,,ENST00000338312,;MCPH1,intron_variant,,ENST00000344683,;MCPH1,intron_variant,,ENST00000519221,;MCPH1,intron_variant,,ENST00000521129,;	T	ENSG00000091879	ENST00000325203	Transcript	synonymous_variant	859	384	128	G	ggG/ggA	.	.	.	-1	ANGPT2	HGNC	485	protein_coding	YES	CCDS5958.1	ENSP00000314897	ANGP2_HUMAN	Q9H4C0_HUMAN	UPI0000034767	.	.	.	2/9	.	hmmpanther:PTHR19143,hmmpanther:PTHR19143:SF199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGTCCCTAT	.	5	BLCA
ZFHX4	0	.	GRCh37	8	77776768	77776768	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10818C>G	p.Phe3606Leu	p.F3606L	ENST00000521891	11/11	23	13	10	12	12	0	ZFHX4,missense_variant,p.Phe3561Leu,ENST00000455469,;ZFHX4,missense_variant,p.Phe3580Leu,ENST00000518282,;ZFHX4,missense_variant,p.Phe3557Leu,ENST00000050961,;ZFHX4,missense_variant,p.Phe3606Leu,ENST00000521891,;	G	ENSG00000091656	ENST00000521891	Transcript	missense_variant	11266	10818	3606	F/L	ttC/ttG	COSM3901673,COSM3901674	.	.	1	ZFHX4	HGNC	30939	protein_coding	YES	CCDS47878.2	ENSP00000430497	.	Q9H7F3_HUMAN,Q86WW5_HUMAN,Q6DK57_HUMAN,G3V138_HUMAN,E5RI93_HUMAN,E5RHS1_HUMAN,E5RGK3_HUMAN,E5RG79_HUMAN	UPI0000424CC7	.	.	probably_damaging(0.961)	11/11	.	hmmpanther:PTHR24208:SF40,hmmpanther:PTHR24208	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATTTCAATAG	.	5	BLCA
ZNF462	0	.	GRCh37	9	109690214	109690214	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4021G>C	p.Asp1341His	p.D1341H	ENST00000277225	3/13	142	115	26	68	68	0	ZNF462,missense_variant,p.Asp1341His,ENST00000277225,;ZNF462,missense_variant,p.Asp1341His,ENST00000457913,;ZNF462,missense_variant,p.Asp186His,ENST00000441147,;ZNF462,missense_variant,p.Asp224His,ENST00000374686,;ZNF462,intron_variant,,ENST00000472574,;ZNF462,upstream_gene_variant,,ENST00000542028,;RP11-508N12.4,downstream_gene_variant,,ENST00000451160,;ZNF462,intron_variant,,ENST00000480607,;ZNF462,upstream_gene_variant,,ENST00000497489,;ZNF462,upstream_gene_variant,,ENST00000479166,;ZNF462,upstream_gene_variant,,ENST00000469433,;ZNF462,upstream_gene_variant,,ENST00000471032,;	C	ENSG00000148143	ENST00000277225	Transcript	missense_variant	4310	4021	1341	D/H	Gat/Cat	.	.	.	1	ZNF462	HGNC	21684	protein_coding	YES	CCDS35096.1	ENSP00000277225	ZN462_HUMAN	U3KQ68_HUMAN,F5H0Z0_HUMAN	UPI0000470106	.	.	probably_damaging(0.998)	3/13	.	hmmpanther:PTHR24385:SF52,hmmpanther:PTHR24385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGTTGATTAC	.	5	BLCA
ZNF483	0	.	GRCh37	9	114289585	114289585	+	5'UTR	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-91G>C	.	.	ENST00000309235	2/6	23	17	6	17	17	0	ZNF483,5_prime_UTR_variant,,ENST00000309235,;ZNF483,5_prime_UTR_variant,,ENST00000355824,;ZNF483,5_prime_UTR_variant,,ENST00000374374,;ZNF483,5_prime_UTR_variant,,ENST00000358151,;	C	ENSG00000173258	ENST00000309235	Transcript	5_prime_UTR_variant	68	.	.	.	.	.	.	.	1	ZNF483	HGNC	23384	protein_coding	YES	CCDS35106.1	ENSP00000311679	ZN483_HUMAN	.	UPI00001C1EBF	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTTTGATATT	.	5	BLCA
COL27A1	0	.	GRCh37	9	116930187	116930187	+	Missense_Mutation	SNP	C	C	T	rs745631704	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.352C>T	p.Arg118Cys	p.R118C	ENST00000356083	3/61	50	26	23	63	63	0	COL27A1,missense_variant,p.Arg65Cys,ENST00000451716,;COL27A1,missense_variant,p.Arg118Cys,ENST00000356083,;COL27A1,upstream_gene_variant,,ENST00000494090,;	T	ENSG00000196739	ENST00000356083	Transcript	missense_variant	743	352	118	R/C	Cgc/Tgc	rs745631704,COSM1104344	.	.	1	COL27A1	HGNC	22986	protein_coding	YES	CCDS6802.1	ENSP00000348385	CORA1_HUMAN	.	UPI0000062271	.	.	unknown(0)	3/61	.	SMART_domains:SM00210,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGTCCGCAGC	byFrequency	5	BLCA
DAB2IP	0	.	GRCh37	9	124522515	124522515	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>T	p.Gly295Cys	p.G295C	ENST00000259371	6/17	19	10	9	16	16	0	DAB2IP,missense_variant,p.Gly323Cys,ENST00000408936,;DAB2IP,missense_variant,p.Gly295Cys,ENST00000259371,;DAB2IP,missense_variant,p.Gly199Cys,ENST00000436835,;DAB2IP,missense_variant,p.Gly232Cys,ENST00000373782,;DAB2IP,missense_variant,p.Gly199Cys,ENST00000309989,;DAB2IP,downstream_gene_variant,,ENST00000394340,;DAB2IP,downstream_gene_variant,,ENST00000487716,;DAB2IP,upstream_gene_variant,,ENST00000459906,;	T	ENSG00000136848	ENST00000259371	Transcript	missense_variant	952	883	295	G/C	Ggc/Tgc	.	.	.	1	DAB2IP	HGNC	17294	protein_coding	YES	CCDS6833.2	ENSP00000259371	DAB2P_HUMAN	H0Y3A3_HUMAN,F8WA47_HUMAN,F6R503_HUMAN,B3KW96_HUMAN	UPI0000D77E70	.	deleterious(0.01)	possibly_damaging(0.716)	6/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10194:SF26,hmmpanther:PTHR10194,SMART_domains:SM00323,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCAAGGGCCCT	.	5	BLCA
ANAPC2	0	.	GRCh37	9	140074760	140074760	+	Missense_Mutation	SNP	G	G	A	rs201768062	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1763C>T	p.Pro588Leu	p.P588L	ENST00000323927	10/13	156	149	7	77	77	0	ANAPC2,missense_variant,p.Pro588Leu,ENST00000323927,;ANAPC2,non_coding_transcript_exon_variant,,ENST00000483432,;ANAPC2,downstream_gene_variant,,ENST00000495611,;ANAPC2,downstream_gene_variant,,ENST00000471131,;ANAPC2,upstream_gene_variant,,ENST00000493730,;ANAPC2,upstream_gene_variant,,ENST00000487917,;ANAPC2,upstream_gene_variant,,ENST00000485970,;	A	ENSG00000176248	ENST00000323927	Transcript	missense_variant	1768	1763	588	P/L	cCg/cTg	rs201768062	.	.	-1	ANAPC2	HGNC	19989	protein_coding	YES	CCDS7033.1	ENSP00000314004	ANC2_HUMAN	B4DJR9_HUMAN	UPI0000043E1B	.	tolerated(0.17)	benign(0.003)	10/13	.	PROSITE_profiles:PS50069,hmmpanther:PTHR11932,hmmpanther:PTHR11932:SF5,Pfam_domain:PF00888,SMART_domains:SM00182,Superfamily_domains:SSF75632	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGAACGGTGGC	byCluster|by1000G	2	BLCA
CDKN2A	0	.	GRCh37	9	21974695	21974696	+	Nonsense_Mutation	INS	-	-	T	rs730881673	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131dupA	p.Tyr44Ter	p.Y44*	ENST00000498124	1/4	180	101	79	78	78	0	CDKN2A,stop_gained,p.Tyr44Ter,ENST00000446177,;CDKN2A,stop_gained,p.Tyr44Ter,ENST00000304494,;CDKN2A,stop_gained,p.Tyr44Ter,ENST00000498124,;CDKN2A,stop_gained,p.Tyr44Ter,ENST00000579122,;CDKN2A,intron_variant,,ENST00000579755,;CDKN2A,intron_variant,,ENST00000494262,;CDKN2A,intron_variant,,ENST00000498628,;CDKN2A,intron_variant,,ENST00000530628,;CDKN2A,intron_variant,,ENST00000361570,;CDKN2A,upstream_gene_variant,,ENST00000578845,;CDKN2A,upstream_gene_variant,,ENST00000479692,;CDKN2A,upstream_gene_variant,,ENST00000497750,;CDKN2A,upstream_gene_variant,,ENST00000380150,;CDKN2A,upstream_gene_variant,,ENST00000577854,;CDKN2A,stop_gained,p.Tyr44Ter,ENST00000380151,;RP11-145E5.5,intron_variant,,ENST00000404796,;	T	ENSG00000147889	ENST00000498124	Transcript	stop_gained	170-171	131-132	44	Y/*	tac/taAc	rs730881673	.	.	-1	CDKN2A	HGNC	1787	protein_coding	YES	CCDS56565.1	ENSP00000418915	CD2A1_HUMAN	Q9UPB7_HUMAN	UPI0001565711	.	.	.	1/4	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24144:SF30,hmmpanther:PTHR24144,Gene3D:1.25.40.20,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	pathogenic	.	.	.	.	.	.	HIGH	.	insertion	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_471del471|15,CODON|p.Y44*|c.132C>A|5,BUFFER|p.P48L|c.143C>T|8,BUFFER|p.S43I|c.128G>T|6	INDELOCATOR*|VARSCANI*|PINDEL	CGACCGTAACT	byCluster	3	BLCA
TRPM3	0	.	GRCh37	9	73477856	73477856	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430T>A	p.Phe144Ile	p.F144I	ENST00000377110	3/25	97	47	50	88	88	0	TRPM3,missense_variant,p.Phe144Ile,ENST00000377111,;TRPM3,missense_variant,p.Phe146Ile,ENST00000423814,;TRPM3,missense_variant,p.Phe146Ile,ENST00000357533,;TRPM3,missense_variant,p.Phe144Ile,ENST00000377110,;TRPM3,5_prime_UTR_variant,,ENST00000377097,;TRPM3,5_prime_UTR_variant,,ENST00000377106,;TRPM3,5_prime_UTR_variant,,ENST00000361823,;TRPM3,5_prime_UTR_variant,,ENST00000377101,;TRPM3,5_prime_UTR_variant,,ENST00000360823,;TRPM3,5_prime_UTR_variant,,ENST00000396283,;TRPM3,5_prime_UTR_variant,,ENST00000377105,;TRPM3,upstream_gene_variant,,ENST00000358082,;TRPM3,upstream_gene_variant,,ENST00000396280,;TRPM3,upstream_gene_variant,,ENST00000396292,;TRPM3,upstream_gene_variant,,ENST00000408909,;TRPM3,upstream_gene_variant,,ENST00000396285,;TRPM3,non_coding_transcript_exon_variant,,ENST00000437699,;TRPM3,non_coding_transcript_exon_variant,,ENST00000354500,;	T	ENSG00000083067	ENST00000377110	Transcript	missense_variant	674	430	144	F/I	Ttc/Atc	.	.	.	-1	TRPM3	HGNC	17992	protein_coding	YES	CCDS43835.1	ENSP00000366314	TRPM3_HUMAN	.	UPI0001596895	.	deleterious(0.02)	benign(0.034)	3/25	.	hmmpanther:PTHR13800,hmmpanther:PTHR13800:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTGGAACTCAA	.	5	BLCA
KIF27	0	.	GRCh37	9	86457210	86457210	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3663G>A	p.%3D	p.K1221K	ENST00000297814	17/18	72	38	33	54	54	0	KIF27,synonymous_variant,p.%3D,ENST00000413982,;KIF27,synonymous_variant,p.%3D,ENST00000334204,;KIF27,synonymous_variant,p.%3D,ENST00000297814,;RP11-575L7.4,intron_variant,,ENST00000591217,;RP11-575L7.2,downstream_gene_variant,,ENST00000412069,;RP11-575L7.2,downstream_gene_variant,,ENST00000439378,;RP11-575L7.2,downstream_gene_variant,,ENST00000458016,;RP11-575L7.2,downstream_gene_variant,,ENST00000417672,;	T	ENSG00000165115	ENST00000297814	Transcript	synonymous_variant	3807	3663	1221	K	aaG/aaA	.	.	.	-1	KIF27	HGNC	18632	protein_coding	YES	CCDS6665.1	ENSP00000297814	KIF27_HUMAN	B4DMY5_HUMAN	UPI000018F32F	.	.	.	17/18	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTCTTCTTATG	.	5	BLCA
SPATA31E1	0	.	GRCh37	9	90501317	90501317	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1915C>A	p.Gln639Lys	p.Q639K	ENST00000325643	4/4	45	25	20	48	48	0	SPATA31E1,missense_variant,p.Gln639Lys,ENST00000325643,;	A	ENSG00000177992	ENST00000325643	Transcript	missense_variant	1981	1915	639	Q/K	Cag/Aag	.	.	.	1	SPATA31E1	HGNC	26672	protein_coding	YES	CCDS6676.1	ENSP00000322640	S31E1_HUMAN	.	UPI000036764A	.	tolerated(0.42)	possibly_damaging(0.713)	4/4	.	Pfam_domain:PF14650,hmmpanther:PTHR21859,hmmpanther:PTHR21859:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGAGCAGTCC	.	5	BLCA
NOL8	0	.	GRCh37	9	95085758	95085758	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.167T>C	p.Ile56Thr	p.I56T	ENST00000545558	3/17	29	20	8	17	17	0	NOL8,missense_variant,p.Ile56Thr,ENST00000545558,;NOL8,missense_variant,p.Ile56Thr,ENST00000433029,;NOL8,missense_variant,p.Ile56Thr,ENST00000442668,;NOL8,missense_variant,p.Ile56Thr,ENST00000535387,;NOL8,missense_variant,p.Ile56Thr,ENST00000432670,;NOL8,missense_variant,p.Ile56Thr,ENST00000421075,;NOL8,missense_variant,p.Ile56Thr,ENST00000536624,;NOL8,5_prime_UTR_variant,,ENST00000542613,;NOL8,5_prime_UTR_variant,,ENST00000358855,;NOL8,5_prime_UTR_variant,,ENST00000411621,;NOL8,5_prime_UTR_variant,,ENST00000542053,;NOL8,5_prime_UTR_variant,,ENST00000535807,;CENPP,upstream_gene_variant,,ENST00000375587,;NOL8,non_coding_transcript_exon_variant,,ENST00000538215,;NOL8,non_coding_transcript_exon_variant,,ENST00000543985,;NOL8,missense_variant,p.Ile56Thr,ENST00000360868,;NOL8,missense_variant,p.Ile56Thr,ENST00000542573,;NOL8,missense_variant,p.Ile56Thr,ENST00000543260,;NOL8,missense_variant,p.Ile56Thr,ENST00000544321,;NOL8,missense_variant,p.Ile56Thr,ENST00000545444,;NOL8,missense_variant,p.Ile56Thr,ENST00000544867,;NOL8,missense_variant,p.Ile56Thr,ENST00000536593,;NOL8,missense_variant,p.Ile56Thr,ENST00000445919,;NOL8,missense_variant,p.Ile56Thr,ENST00000434228,;NOL8,non_coding_transcript_exon_variant,,ENST00000535649,;NOL8,non_coding_transcript_exon_variant,,ENST00000482475,;NOL8,upstream_gene_variant,,ENST00000467230,;	G	ENSG00000198000	ENST00000545558	Transcript	missense_variant	660	167	56	I/T	aTc/aCc	.	.	.	-1	NOL8	HGNC	23387	protein_coding	YES	CCDS47993.1	ENSP00000441140	NOL8_HUMAN	F8WE42_HUMAN,F5H8B8_HUMAN,F5H7D5_HUMAN,F5H797_HUMAN,F5H692_HUMAN,F5H540_HUMAN,F5GWN9_HUMAN	UPI0000211A3D	.	deleterious(0)	possibly_damaging(0.899)	3/17	.	PROSITE_profiles:PS50102,hmmpanther:PTHR16274,hmmpanther:PTHR16274:SF8,Gene3D:3.30.70.330,Pfam_domain:PF14259,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGTTGATATAT	.	5	BLCA
OGN	0	.	GRCh37	9	95165608	95165608	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82C>T	p.Arg28Cys	p.R28C	ENST00000262551	2/7	87	64	22	49	49	0	OGN,missense_variant,p.Arg86Cys,ENST00000447356,;OGN,missense_variant,p.Arg28Cys,ENST00000375561,;OGN,missense_variant,p.Arg28Cys,ENST00000262551,;CENPP,intron_variant,,ENST00000375587,;	A	ENSG00000106809	ENST00000262551	Transcript	missense_variant	503	82	28	R/C	Cgc/Tgc	.	.	.	-1	OGN	HGNC	8126	protein_coding	YES	CCDS6695.1	ENSP00000262551	MIME_HUMAN	A8K0R3_HUMAN	UPI00000540ED	.	tolerated(0.18)	benign(0.42)	2/7	.	hmmpanther:PTHR24371:SF5,hmmpanther:PTHR24371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGCGTGAGT	.	5	BLCA
PTCH1	0	.	GRCh37	9	98238357	98238357	+	Missense_Mutation	SNP	C	C	T	rs146616780	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1687G>A	p.Ala563Thr	p.A563T	ENST00000331920	12/24	18	11	7	17	17	0	PTCH1,missense_variant,p.Ala563Thr,ENST00000331920,;PTCH1,missense_variant,p.Ala497Thr,ENST00000430669,;PTCH1,missense_variant,p.Ala412Thr,ENST00000418258,;PTCH1,missense_variant,p.Ala412Thr,ENST00000421141,;PTCH1,missense_variant,p.Ala228Thr,ENST00000375271,;PTCH1,missense_variant,p.Ala562Thr,ENST00000375274,;PTCH1,missense_variant,p.Ala412Thr,ENST00000429896,;PTCH1,missense_variant,p.Ala497Thr,ENST00000437951,;PTCH1,downstream_gene_variant,,ENST00000547672,;PTCH1,downstream_gene_variant,,ENST00000553011,;PTCH1,downstream_gene_variant,,ENST00000551845,;PTCH1,downstream_gene_variant,,ENST00000546820,;PTCH1,downstream_gene_variant,,ENST00000548420,;PTCH1,downstream_gene_variant,,ENST00000548379,;PTCH1,downstream_gene_variant,,ENST00000553256,;PTCH1,downstream_gene_variant,,ENST00000548945,;PTCH1,missense_variant,p.Ala442Thr,ENST00000375290,;PTCH1,downstream_gene_variant,,ENST00000488809,;PTCH1,downstream_gene_variant,,ENST00000550914,;	T	ENSG00000185920	ENST00000331920	Transcript	missense_variant	1987	1687	563	A/T	Gcg/Acg	rs146616780,COSM341564,COSM1222411,COSM1222412,COSM341565,COSM1222414,COSM341567,COSM341566,COSM1222413	.	.	-1	PTCH1	HGNC	9585	protein_coding	YES	CCDS6714.1	ENSP00000332353	PTC1_HUMAN	Q6TKQ0_HUMAN,F8VXL8_HUMAN,F8VQS6_HUMAN	UPI00001AFF9C	.	deleterious(0.02)	possibly_damaging(0.603)	12/24	.	Superfamily_domains:SSF82866,Pfam_domain:PF12349,TIGRFAM_domain:TIGR00918,Gene3D:2j8sB01,hmmpanther:PTHR10796:SF61,hmmpanther:PTHR10796,PROSITE_profiles:PS50156,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.M561R|c.1682T>G|4	RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACGCGGCCA	byCluster	4	BLCA
PTCH1	0	.	GRCh37	9	98270475	98270475	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169G>A	p.Asp57Asn	p.D57N	ENST00000331920	1/24	22	12	9	24	24	0	PTCH1,missense_variant,p.Asp57Asn,ENST00000331920,;PTCH1,intron_variant,,ENST00000430669,;PTCH1,intron_variant,,ENST00000468211,;PTCH1,intron_variant,,ENST00000375274,;PTCH1,intron_variant,,ENST00000437951,;PTCH1,upstream_gene_variant,,ENST00000547672,;PTCH1,upstream_gene_variant,,ENST00000551630,;PTCH1,upstream_gene_variant,,ENST00000418258,;PTCH1,upstream_gene_variant,,ENST00000553011,;PTCH1,upstream_gene_variant,,ENST00000421141,;PTCH1,upstream_gene_variant,,ENST00000551845,;PTCH1,upstream_gene_variant,,ENST00000546820,;PTCH1,upstream_gene_variant,,ENST00000548420,;PTCH1,upstream_gene_variant,,ENST00000429896,;RP11-435O5.5,downstream_gene_variant,,ENST00000604104,;PTCH1,intron_variant,,ENST00000551425,;PTCH1,upstream_gene_variant,,ENST00000548379,;PTCH1,upstream_gene_variant,,ENST00000548945,;PTCH1,intron_variant,,ENST00000551623,;PTCH1,upstream_gene_variant,,ENST00000375290,;PTCH1,upstream_gene_variant,,ENST00000550914,;	T	ENSG00000185920	ENST00000331920	Transcript	missense_variant	469	169	57	D/N	Gac/Aac	.	.	.	-1	PTCH1	HGNC	9585	protein_coding	YES	CCDS6714.1	ENSP00000332353	PTC1_HUMAN	Q6TKQ0_HUMAN,F8VXL8_HUMAN,F8VQS6_HUMAN	UPI00001AFF9C	.	tolerated(0.34)	benign(0.362)	1/24	.	TIGRFAM_domain:TIGR00918,hmmpanther:PTHR10796:SF61,hmmpanther:PTHR10796	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCGTCGCAGT	.	5	BLCA
TBC1D8B	0	.	GRCh37	X	106093528	106093528	+	Missense_Mutation	SNP	C	C	T	rs772581027	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2111C>T	p.Thr704Ile	p.T704I	ENST00000357242	12/21	84	74	10	71	71	0	TBC1D8B,missense_variant,p.Thr704Ile,ENST00000357242,;TBC1D8B,missense_variant,p.Thr698Ile,ENST00000276175,;MORC4,intron_variant,,ENST00000604604,;TBC1D8B,upstream_gene_variant,,ENST00000431860,;TBC1D8B,downstream_gene_variant,,ENST00000310452,;	T	ENSG00000133138	ENST00000357242	Transcript	missense_variant	2285	2111	704	T/I	aCa/aTa	rs772581027	.	.	1	TBC1D8B	HGNC	24715	protein_coding	YES	CCDS14522.1	ENSP00000349781	TBC8B_HUMAN	D6RC82_HUMAN	UPI0000225CD5	.	tolerated(0.05)	benign(0.235)	12/21	.	hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF260,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTGACAGCCT	byFrequency	2	BLCA
PLS3	0	.	GRCh37	X	114877631	114877631	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994G>C	p.Asp332His	p.D332H	ENST00000420625	10/16	93	75	18	77	77	0	PLS3,missense_variant,p.Asp296His,ENST00000289290,;PLS3,missense_variant,p.Asp332His,ENST00000420625,;PLS3,missense_variant,p.Asp332His,ENST00000355899,;PLS3,missense_variant,p.Asp319His,ENST00000537301,;PLS3,missense_variant,p.Asp287His,ENST00000539310,;PLS3,missense_variant,p.Asp53His,ENST00000497870,;PLS3,intron_variant,,ENST00000543070,;PLS3,3_prime_UTR_variant,,ENST00000481823,;PLS3,non_coding_transcript_exon_variant,,ENST00000466150,;	C	ENSG00000102024	ENST00000420625	Transcript	missense_variant	1128	994	332	D/H	Gat/Cat	.	.	.	1	PLS3	HGNC	9091	protein_coding	YES	CCDS14568.1	ENSP00000398945	PLST_HUMAN	Q96HI1_HUMAN,B7Z6M1_HUMAN,B4DI60_HUMAN,B4DG31_HUMAN	UPI000000D962	.	deleterious(0)	probably_damaging(0.97)	10/16	.	PROSITE_profiles:PS50021,hmmpanther:PTHR19961:SF32,hmmpanther:PTHR19961,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAACAGATGAT	.	5	BLCA
STAG2	0	.	GRCh37	X	123224564	123224564	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3417G>A	p.Met1139Ile	p.M1139I	ENST00000218089	31/35	117	104	13	92	92	0	STAG2,missense_variant,p.Met1139Ile,ENST00000371160,;STAG2,missense_variant,p.Met1070Ile,ENST00000354548,;STAG2,missense_variant,p.Met1139Ile,ENST00000371157,;STAG2,missense_variant,p.Met1139Ile,ENST00000371144,;STAG2,missense_variant,p.Met1139Ile,ENST00000218089,;STAG2,missense_variant,p.Met1139Ile,ENST00000371145,;STAG2,intron_variant,,ENST00000469481,;STAG2,upstream_gene_variant,,ENST00000475602,;	A	ENSG00000101972	ENST00000218089	Transcript	missense_variant	3927	3417	1139	M/I	atG/atA	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	tolerated_low_confidence(0.33)	benign(0.001)	31/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCATGAGTGT	.	4	BLCA
CDR1	0	.	GRCh37	X	139865950	139865950	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.582G>A	p.Trp194Ter	p.W194*	ENST00000370532	1/1	145	103	42	116	116	0	CDR1,stop_gained,p.Trp194Ter,ENST00000370532,;	T	ENSG00000184258	ENST00000370532	Transcript	stop_gained	774	582	194	W/*	tgG/tgA	COSM3736899	.	.	-1	CDR1	HGNC	1798	protein_coding	YES	CCDS14670.1	ENSP00000359563	CDR1_HUMAN	.	UPI000034ECCD	.	.	.	1/1	.	hmmpanther:PTHR15194	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGATCCACGT	.	5	BLCA
DCAF8L1	0	.	GRCh37	X	27998290	27998290	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1162G>A	p.Asp388Asn	p.D388N	ENST00000441525	1/1	67	48	19	66	66	0	DCAF8L1,missense_variant,p.Asp388Asn,ENST00000441525,;	T	ENSG00000226372	ENST00000441525	Transcript	missense_variant	1277	1162	388	D/N	Gat/Aat	.	.	.	-1	DCAF8L1	HGNC	31810	protein_coding	YES	CCDS35222.1	ENSP00000405222	DC8L1_HUMAN	.	UPI000022DD1B	.	tolerated(0.23)	benign(0.006)	1/1	.	PROSITE_profiles:PS50294,hmmpanther:PTHR15574:SF29,hmmpanther:PTHR15574,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAAATCACAAT	.	5	BLCA
TAB3	0	.	GRCh37	X	30872938	30872938	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.844C>A	p.Pro282Thr	p.P282T	ENST00000378933	3/8	35	27	7	29	29	0	TAB3,missense_variant,p.Pro282Thr,ENST00000378930,;TAB3,missense_variant,p.Pro282Thr,ENST00000288422,;TAB3,missense_variant,p.Pro282Thr,ENST00000378932,;TAB3,missense_variant,p.Pro282Thr,ENST00000378933,;TAB3,upstream_gene_variant,,ENST00000378928,;TAB3-AS2,downstream_gene_variant,,ENST00000445240,;TAB3,missense_variant,p.Pro282Thr,ENST00000467136,;	T	ENSG00000157625	ENST00000378933	Transcript	missense_variant	1022	844	282	P/T	Ccc/Acc	.	.	.	-1	TAB3	HGNC	30681	protein_coding	YES	CCDS14226.1	ENSP00000368215	TAB3_HUMAN	.	UPI000013DF10	.	tolerated(0.17)	probably_damaging(0.997)	3/8	.	hmmpanther:PTHR10351:SF45,hmmpanther:PTHR10351,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTGGGAGAAT	.	5	BLCA
SYTL5	0	.	GRCh37	X	37985988	37985988	+	3'UTR	SNP	A	A	G	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*5A>G	.	.	ENST00000456733	17/17	15	12	3	18	18	0	SYTL5,3_prime_UTR_variant,,ENST00000357972,;SYTL5,3_prime_UTR_variant,,ENST00000297875,;SYTL5,3_prime_UTR_variant,,ENST00000456733,;TM4SF2,intron_variant,,ENST00000465127,;	G	ENSG00000147041	ENST00000456733	Transcript	3_prime_UTR_variant	2620	.	.	.	.	.	.	.	1	SYTL5	HGNC	15589	protein_coding	YES	CCDS55399.1	ENSP00000395220	SYTL5_HUMAN	.	UPI0000F0599F	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGGGACCAGT	.	2	BLCA
DDX3X	0	.	GRCh37	X	41204495	41204495	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088G>A	p.Arg363Lys	p.R363K	ENST00000399959	11/17	156	139	17	149	148	1	DDX3X,missense_variant,p.Arg363Lys,ENST00000399959,;DDX3X,missense_variant,p.Arg347Lys,ENST00000457138,;DDX3X,3_prime_UTR_variant,,ENST00000542215,;DDX3X,intron_variant,,ENST00000441189,;RN7SL15P,downstream_gene_variant,,ENST00000582825,;DDX3X,non_coding_transcript_exon_variant,,ENST00000478993,;	A	ENSG00000215301	ENST00000399959	Transcript	missense_variant	1943	1088	363	R/K	aGa/aAa	.	.	.	1	DDX3X	HGNC	2745	protein_coding	YES	CCDS43931.1	ENSP00000382840	DDX3X_HUMAN	Q59GX6_HUMAN	UPI000013CB6D	.	deleterious(0.05)	benign(0.104)	11/17	.	PROSITE_profiles:PS51192,hmmpanther:PTHR24031:SF195,hmmpanther:PTHR24031,Gene3D:3.40.50.300,Pfam_domain:PF00270,SMART_domains:SM00487,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGTAGAATAG	.	4	BLCA
KDM6A	0	.	GRCh37	X	44948987	44948987	+	Splice_Site	SNP	G	G	C	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3549-1G>C	.	p.X1183_splice	ENST00000377967	.	58	33	24	36	36	0	KDM6A,splice_acceptor_variant,,ENST00000433797,;KDM6A,splice_acceptor_variant,,ENST00000414389,;KDM6A,splice_acceptor_variant,,ENST00000543216,;KDM6A,splice_acceptor_variant,,ENST00000377967,;KDM6A,splice_acceptor_variant,,ENST00000382899,;KDM6A,splice_acceptor_variant,,ENST00000536777,;KDM6A,upstream_gene_variant,,ENST00000431196,;KDM6A,downstream_gene_variant,,ENST00000484732,;	C	ENSG00000147050	ENST00000377967	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	.	24/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.0?|c.1_4206del4206|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TTTCAGAAATA	.	5	BLCA
ZNF182	0	.	GRCh37	X	47842712	47842712	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172G>A	p.Glu58Lys	p.E58K	ENST00000396965	5/7	90	61	29	85	85	0	ZNF182,missense_variant,p.Glu39Lys,ENST00000376943,;ZNF182,missense_variant,p.Glu58Lys,ENST00000305127,;ZNF182,missense_variant,p.Glu58Lys,ENST00000396965,;ZNF81,intron_variant,,ENST00000376950,;ZNF630,downstream_gene_variant,,ENST00000428463,;	T	ENSG00000147118	ENST00000396965	Transcript	missense_variant	523	172	58	E/K	Gag/Aag	.	.	.	-1	ZNF182	HGNC	13001	protein_coding	YES	CCDS35236.1	ENSP00000380165	ZN182_HUMAN	.	UPI0000211F7D	.	deleterious(0)	possibly_damaging(0.9)	5/7	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF218,Pfam_domain:PF01352,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTCCAGCA	.	5	BLCA
TFE3	0	.	GRCh37	X	48891044	48891044	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1072A>T	p.Arg358Trp	p.R358W	ENST00000315869	8/10	54	41	13	65	65	0	TFE3,missense_variant,p.Arg358Trp,ENST00000315869,;TFE3,non_coding_transcript_exon_variant,,ENST00000487451,;TFE3,downstream_gene_variant,,ENST00000481606,;TFE3,3_prime_UTR_variant,,ENST00000493583,;TFE3,upstream_gene_variant,,ENST00000495940,;	A	ENSG00000068323	ENST00000315869	Transcript	missense_variant	1332	1072	358	R/W	Agg/Tgg	.	.	.	-1	TFE3	HGNC	11752	protein_coding	YES	CCDS14315.3	ENSP00000314129	TFE3_HUMAN	B4DIA5_HUMAN	UPI0000117AE8	.	deleterious(0)	benign(0.068)	8/10	.	PROSITE_profiles:PS50888,hmmpanther:PTHR10014:SF37,hmmpanther:PTHR10014,Gene3D:4.10.280.10,Pfam_domain:PF00010,SMART_domains:SM00353,Superfamily_domains:SSF47459	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGCCTGCGAC	.	5	BLCA
CLCN5	0	.	GRCh37	X	49856837	49856837	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2412G>A	p.%3D	p.Q804Q	ENST00000376088	15/15	74	63	11	56	56	0	CLCN5,synonymous_variant,p.%3D,ENST00000307367,;CLCN5,synonymous_variant,p.%3D,ENST00000376091,;CLCN5,synonymous_variant,p.%3D,ENST00000376108,;CLCN5,synonymous_variant,p.%3D,ENST00000376088,;	A	ENSG00000171365	ENST00000376088	Transcript	synonymous_variant	3053	2412	804	Q	caG/caA	.	.	.	1	CLCN5	HGNC	2023	protein_coding	YES	CCDS48115.1	ENSP00000365256	CLCN5_HUMAN	.	UPI0000212052	.	.	.	15/15	.	Superfamily_domains:SSF54631,Gene3D:3.10.580.10,hmmpanther:PTHR11689:SF63,hmmpanther:PTHR11689,PROSITE_profiles:PS51371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCACAGATGGC	.	5	BLCA
PGK1	0	.	GRCh37	X	77378444	77378444	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.754G>A	p.Glu252Lys	p.E252K	ENST00000373316	7/11	72	64	7	85	85	0	PGK1,missense_variant,p.Glu224Lys,ENST00000537456,;PGK1,missense_variant,p.Glu252Lys,ENST00000373316,;PGK1,missense_variant,p.Glu116Lys,ENST00000442431,;PGK1,non_coding_transcript_exon_variant,,ENST00000474281,;PGK1,upstream_gene_variant,,ENST00000476531,;PGK1,downstream_gene_variant,,ENST00000491291,;	A	ENSG00000102144	ENST00000373316	Transcript	missense_variant	921	754	252	E/K	Gag/Aag	.	.	.	1	PGK1	HGNC	8896	protein_coding	YES	CCDS14438.1	ENSP00000362413	PGK1_HUMAN	B7Z7A9_HUMAN,B4DHM5_HUMAN	UPI00000727EE	.	tolerated(0.57)	benign(0.005)	7/11	.	HAMAP:MF_00145,hmmpanther:PTHR11406,hmmpanther:PTHR11406:SF3,Pfam_domain:PF00162,Gene3D:3.40.50.1270,PIRSF_domain:PIRSF000724,Superfamily_domains:SSF53748	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATGGAGGTA	.	4	BLCA
VCX	0	.	GRCh37	X	7812059	7812059	+	3'UTR	SNP	C	C	T	rs748001711	.	TCGA-ZF-A9RD-01A-11D-A42E-08	TCGA-ZF-A9RD-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2C>T	.	.	ENST00000381059	3/3	112	80	32	119	119	0	VCX,3_prime_UTR_variant,,ENST00000381059,;VCX,downstream_gene_variant,,ENST00000341408,;	T	ENSG00000182583	ENST00000381059	Transcript	3_prime_UTR_variant	842	.	.	.	.	rs748001711	.	.	1	VCX	HGNC	12667	protein_coding	YES	CCDS14128.1	ENSP00000370447	VCX1_HUMAN	.	UPI0000138291	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GTAGACGGCCA	byFrequency	5	BLCA
ZNF25	0	.	GRCh37	10	38241968	38241968	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.458A>T	p.Lys153Ile	p.K153I	ENST00000302609	6/6	147	71	75	172	172	0	ZNF25,missense_variant,p.Lys153Ile,ENST00000302609,;AL117337.1,downstream_gene_variant,,ENST00000582458,;ZNF25,non_coding_transcript_exon_variant,,ENST00000374633,;ZNF25,downstream_gene_variant,,ENST00000467975,;	A	ENSG00000175395	ENST00000302609	Transcript	missense_variant	671	458	153	K/I	aAa/aTa	.	.	.	-1	ZNF25	HGNC	13043	protein_coding	YES	CCDS7195.1	ENSP00000302222	ZNF25_HUMAN	B1AKS7_HUMAN	UPI0000071FFD	.	deleterious(0)	benign(0.35)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF62,PROSITE_patterns:PS00028,Pfam_domain:PF00096,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATTTCCCA	.	5	BLCA
MYOF	0	.	GRCh37	10	95111586	95111587	+	Frame_Shift_Del	DEL	AG	AG	-	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	AG	AG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3498_3499delCT	p.Ile1166MetfsTer10	p.I1166Mfs*10	ENST00000359263	33/54	97	59	38	73	73	0	MYOF,frameshift_variant,p.Ile1166MetfsTer10,ENST00000371502,;MYOF,frameshift_variant,p.Ile1153MetfsTer10,ENST00000358334,;MYOF,frameshift_variant,p.Ile1166MetfsTer10,ENST00000371501,;MYOF,frameshift_variant,p.Ile1166MetfsTer10,ENST00000359263,;MYOF,frameshift_variant,p.Ile541MetfsTer10,ENST00000463743,;	-	ENSG00000138119	ENST00000359263	Transcript	frameshift_variant	3498-3499	3498-3499	1166-1167	IC/MX	atCTgt/atgt	.	.	.	-1	MYOF	HGNC	3656	protein_coding	YES	CCDS41551.1	ENSP00000352208	MYOF_HUMAN	.	UPI000012FBA1	.	.	.	33/54	.	PROSITE_profiles:PS50004,hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF38,Gene3D:2.60.40.150,Pfam_domain:PF00168,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGAAACAGATATG	.	3	BLCA
ARHGAP20	0	.	GRCh37	11	110450479	110450479	+	Missense_Mutation	SNP	A	A	T	rs781424737	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3191T>A	p.Ile1064Lys	p.I1064K	ENST00000260283	16/16	131	82	49	136	136	0	ARHGAP20,missense_variant,p.Ile1064Lys,ENST00000260283,;ARHGAP20,missense_variant,p.Ile607Lys,ENST00000529591,;ARHGAP20,missense_variant,p.Ile1028Lys,ENST00000527598,;ARHGAP20,missense_variant,p.Ile1028Lys,ENST00000528829,;ARHGAP20,missense_variant,p.Ile1038Lys,ENST00000357139,;ARHGAP20,missense_variant,p.Ile1038Lys,ENST00000533353,;ARHGAP20,missense_variant,p.Ile1041Lys,ENST00000524756,;	T	ENSG00000137727	ENST00000260283	Transcript	missense_variant	3476	3191	1064	I/K	aTa/aAa	rs781424737	.	.	-1	ARHGAP20	HGNC	18357	protein_coding	YES	CCDS31673.1	ENSP00000260283	RHG20_HUMAN	.	UPI000013D0BA	.	tolerated_low_confidence(0.99)	benign(0.014)	16/16	.	hmmpanther:PTHR23179,hmmpanther:PTHR23179:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTATTTTC	.	5	BLCA
MUC5B	0	.	GRCh37	11	1272702	1272702	+	Silent	SNP	G	G	A	rs756511315	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.14592G>A	p.%3D	p.T4864T	ENST00000529681	31/49	91	87	4	106	106	0	MUC5B,synonymous_variant,p.%3D,ENST00000529681,;MUC5B,synonymous_variant,p.%3D,ENST00000447027,;RP11-532E4.2,upstream_gene_variant,,ENST00000532061,;	A	ENSG00000117983	ENST00000529681	Transcript	synonymous_variant	14650	14592	4864	T	acG/acA	rs756511315	.	.	1	MUC5B	HGNC	7516	protein_coding	YES	CCDS44515.2	ENSP00000436812	MUC5B_HUMAN	Q93043_HUMAN	UPI0001DD21C7	.	.	.	31/49	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T4821T|c.14463C>T|3	MUTECT|MUSE	TCCACGGCCAC	byFrequency	2	BLCA
KRTAP5-5	0	.	GRCh37	11	1651678	1651678	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.608G>A	p.Ser203Asn	p.S203N	ENST00000399676	1/1	218	209	9	225	225	0	KRTAP5-5,missense_variant,p.Ser203Asn,ENST00000399676,;	A	ENSG00000185940	ENST00000399676	Transcript	missense_variant	646	608	203	S/N	aGc/aAc	.	.	.	1	KRTAP5-5	HGNC	23601	protein_coding	YES	CCDS41592.1	ENSP00000382584	KRA55_HUMAN	.	UPI0000E592E5	.	deleterious_low_confidence(0.03)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23262,hmmpanther:PTHR23262:SF41,Pfam_domain:PF13885	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGTAGCTGCT	.	2	BLCA
ANO3	0	.	GRCh37	11	26681860	26681860	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2815C>A	p.Pro939Thr	p.P939T	ENST00000256737	27/27	118	113	5	118	118	0	ANO3,missense_variant,p.Pro793Thr,ENST00000531568,;ANO3,missense_variant,p.Pro923Thr,ENST00000525139,;ANO3,missense_variant,p.Pro939Thr,ENST00000256737,;ANO3,missense_variant,p.Pro923Thr,ENST00000537978,;	A	ENSG00000134343	ENST00000256737	Transcript	missense_variant	3667	2815	939	P/T	Cca/Aca	.	.	.	1	ANO3	HGNC	14004	protein_coding	YES	CCDS31447.1	ENSP00000256737	ANO3_HUMAN	E9PQ79_HUMAN,B7Z3F5_HUMAN,B7Z3A8_HUMAN	UPI00001F9ED8	.	deleterious(0)	probably_damaging(1)	27/27	.	hmmpanther:PTHR12308:SF16,hmmpanther:PTHR12308,Pfam_domain:PF04547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACGTACCAAAG	.	2	BLCA
OR5D16	0	.	GRCh37	11	55607038	55607038	+	Missense_Mutation	SNP	C	C	A	rs367552811	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811C>A	p.His271Asn	p.H271N	ENST00000378396	1/1	79	73	6	62	62	0	OR5D16,missense_variant,p.His271Asn,ENST00000378396,;	A	ENSG00000205029	ENST00000378396	Transcript	missense_variant	811	811	271	H/N	Cac/Aac	rs367552811	.	.	1	OR5D16	HGNC	15283	protein_coding	YES	CCDS31512.1	ENSP00000367649	OR5DG_HUMAN	.	UPI0000046198	.	tolerated(0.22)	benign(0.02)	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF243,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGGCACACA	byFrequency|byCluster	2	BLCA
CHPT1	0	.	GRCh37	12	102108314	102108314	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.454C>G	p.Arg152Gly	p.R152G	ENST00000229266	3/9	84	80	4	68	68	0	CHPT1,missense_variant,p.Arg152Gly,ENST00000229266,;CHPT1,missense_variant,p.Arg152Gly,ENST00000549872,;CHPT1,non_coding_transcript_exon_variant,,ENST00000550385,;CHPT1,missense_variant,p.Arg4Gly,ENST00000552329,;CHPT1,missense_variant,p.Arg118Gly,ENST00000552215,;CHPT1,missense_variant,p.Arg152Gly,ENST00000552351,;CHPT1,missense_variant,p.Arg152Gly,ENST00000549128,;CHPT1,downstream_gene_variant,,ENST00000546490,;	G	ENSG00000111666	ENST00000229266	Transcript	missense_variant	689	454	152	R/G	Cgc/Ggc	.	.	.	1	CHPT1	HGNC	17852	protein_coding	YES	CCDS9086.1	ENSP00000229266	CHPT1_HUMAN	.	UPI000003ED2B	.	tolerated(0.3)	benign(0.09)	3/9	.	hmmpanther:PTHR10414,hmmpanther:PTHR10414:SF32,Pfam_domain:PF01066,PIRSF_domain:PIRSF015665	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCTCGCTTA	.	2	BLCA
GLTP	0	.	GRCh37	12	110290360	110290360	+	Nonstop_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630G>C	p.Ter210TyrextTer28	p.*210Yext*28	ENST00000318348	5/5	227	207	19	269	269	0	GLTP,stop_lost,p.Ter191TyrextTer28,ENST00000544393,;GLTP,stop_lost,p.Ter210TyrextTer28,ENST00000318348,;GLTP,stop_lost,p.Ter184TyrextTer?,ENST00000540772,;GLTP,downstream_gene_variant,,ENST00000537066,;GLTP,downstream_gene_variant,,ENST00000536390,;	G	ENSG00000139433	ENST00000318348	Transcript	stop_lost	744	630	210	*/Y	taG/taC	.	.	.	-1	GLTP	HGNC	24867	protein_coding	YES	CCDS9136.1	ENSP00000315263	GLTP_HUMAN	E7CEM8_HUMAN	UPI00001402D4	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CATGCCTACAC	.	3	BLCA
MMP17	0	.	GRCh37	12	132325334	132325334	+	Silent	SNP	C	C	T	rs138755759	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.639C>T	p.%3D	p.P213P	ENST00000360564	4/10	56	31	24	45	45	0	MMP17,synonymous_variant,p.%3D,ENST00000535291,;MMP17,synonymous_variant,p.%3D,ENST00000360564,;MMP17,synonymous_variant,p.%3D,ENST00000545671,;MMP17,synonymous_variant,p.%3D,ENST00000534865,;MMP17,upstream_gene_variant,,ENST00000535004,;MMP17,upstream_gene_variant,,ENST00000542648,;MMP17,downstream_gene_variant,,ENST00000545790,;MMP17,non_coding_transcript_exon_variant,,ENST00000535182,;MMP17,upstream_gene_variant,,ENST00000542142,;MMP17,upstream_gene_variant,,ENST00000537848,;	T	ENSG00000198598	ENST00000360564	Transcript	synonymous_variant	741	639	213	P	ccC/ccT	rs138755759	.	.	1	MMP17	HGNC	7163	protein_coding	YES	CCDS31927.1	ENSP00000353767	MMP17_HUMAN	F5H881_HUMAN,F5H249_HUMAN,F5H209_HUMAN,F5GZA7_HUMAN,F5GWR3_HUMAN	UPI00001AF305	.	.	.	4/10	.	hmmpanther:PTHR10201,hmmpanther:PTHR10201:SF118,Pfam_domain:PF00413,Gene3D:3.40.390.10,SMART_domains:SM00235,PIRSF_domain:PIRSF001191,Superfamily_domains:SSF55486	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0007	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCCCGGCCA	byCluster|by1000G	5	BLCA
VWF	0	.	GRCh37	12	6182827	6182827	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.955G>T	p.Glu319Ter	p.E319*	ENST00000261405	8/52	66	59	7	46	46	0	VWF,stop_gained,p.Glu319Ter,ENST00000261405,;VWF,intron_variant,,ENST00000538635,;	A	ENSG00000110799	ENST00000261405	Transcript	stop_gained	1210	955	319	E/*	Gaa/Taa	COSM3955036	.	.	-1	VWF	HGNC	12726	protein_coding	YES	CCDS8539.1	ENSP00000261405	VWF_HUMAN	H2DLA2_HUMAN	UPI00001AE7EE	.	.	.	8/52	.	hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF259,Gene3D:2.10.25.10,Pfam_domain:PF01826,PIRSF_domain:PIRSF002495,Superfamily_domains:SSF57567	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATTTCATTGA	.	4	BLCA
NALCN	0	.	GRCh37	13	101910815	101910815	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1245C>T	p.%3D	p.Y415Y	ENST00000251127	11/44	10	3	7	32	32	0	NALCN,synonymous_variant,p.%3D,ENST00000251127,;NALCN,synonymous_variant,p.%3D,ENST00000376196,;NALCN,non_coding_transcript_exon_variant,,ENST00000470333,;NALCN,non_coding_transcript_exon_variant,,ENST00000497170,;	A	ENSG00000102452	ENST00000251127	Transcript	synonymous_variant	1327	1245	415	Y	taC/taT	.	.	.	-1	NALCN	HGNC	19082	protein_coding	YES	CCDS9498.1	ENSP00000251127	NALCN_HUMAN	B3KX53_HUMAN,B3KMK1_HUMAN	UPI000004EBBD	.	.	.	11/44	.	hmmpanther:PTHR10037:SF176,hmmpanther:PTHR10037,Gene3D:1.20.120.350,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGTCGTACTG	.	2	BLCA
TPTE2	0	.	GRCh37	13	20012253	20012253	+	Silent	SNP	G	G	A	rs190246221	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1014C>T	p.%3D	p.S338S	ENST00000400230	14/20	79	55	24	60	60	0	TPTE2,synonymous_variant,p.%3D,ENST00000382977,;TPTE2,synonymous_variant,p.%3D,ENST00000255310,;TPTE2,synonymous_variant,p.%3D,ENST00000457266,;TPTE2,synonymous_variant,p.%3D,ENST00000382975,;TPTE2,synonymous_variant,p.%3D,ENST00000382978,;TPTE2,synonymous_variant,p.%3D,ENST00000390680,;TPTE2,synonymous_variant,p.%3D,ENST00000400103,;TPTE2,synonymous_variant,p.%3D,ENST00000400230,;TPTE2,synonymous_variant,p.%3D,ENST00000462409,;	A	ENSG00000132958	ENST00000400230	Transcript	synonymous_variant	1059	1014	338	S	tcC/tcT	rs190246221,COSM945733,COSM945732	.	.	-1	TPTE2	HGNC	17299	protein_coding	YES	CCDS45014.1	ENSP00000383089	TPTE2_HUMAN	.	UPI000040738D	.	.	.	14/20	.	PROSITE_profiles:PS51181,hmmpanther:PTHR12305,Gene3D:3.90.190.10,Pfam_domain:PF00782,Superfamily_domains:SSF52799	A:0.0004	A:0	A:0	.	A:0.002	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E339K|c.1015G>A|5,BUFFER|p.E262K|c.784G>A|9	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTCGGAGGC	byFrequency|by1000G	5	BLCA
PPP1R36	0	.	GRCh37	14	65056036	65056036	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1249C>T	p.His417Tyr	p.H417Y	ENST00000298705	12/12	90	82	8	74	74	0	PPP1R36,missense_variant,p.His417Tyr,ENST00000298705,;RP11-973N13.3,intron_variant,,ENST00000556634,;RP11-973N13.3,intron_variant,,ENST00000554454,;PPP1R36,3_prime_UTR_variant,,ENST00000467261,;PPP1R36,non_coding_transcript_exon_variant,,ENST00000554400,;PPP1R36,downstream_gene_variant,,ENST00000556023,;	T	ENSG00000165807	ENST00000298705	Transcript	missense_variant	1345	1249	417	H/Y	Cat/Tat	.	.	.	1	PPP1R36	HGNC	20097	protein_coding	YES	CCDS9767.1	ENSP00000298705	PPR36_HUMAN	G3V5S6_HUMAN,E9PLB5_HUMAN	UPI0000070446	.	deleterious_low_confidence(0)	benign(0.093)	12/12	.	hmmpanther:PTHR21055	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTCTCATACA	.	3	BLCA
PCNX	0	.	GRCh37	14	71444608	71444608	+	Missense_Mutation	SNP	T	T	A	rs752170607	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1554T>A	p.Ser518Arg	p.S518R	ENST00000304743	6/36	85	57	27	92	92	0	PCNX,missense_variant,p.Ser518Arg,ENST00000238570,;PCNX,missense_variant,p.Ser518Arg,ENST00000439984,;PCNX,missense_variant,p.Ser518Arg,ENST00000304743,;PCNX,downstream_gene_variant,,ENST00000553428,;PCNX,downstream_gene_variant,,ENST00000553272,;PCNX,non_coding_transcript_exon_variant,,ENST00000554879,;PCNX,upstream_gene_variant,,ENST00000556846,;	A	ENSG00000100731	ENST00000304743	Transcript	missense_variant	2000	1554	518	S/R	agT/agA	rs752170607	.	.	1	PCNX	HGNC	19740	protein_coding	YES	CCDS9806.1	ENSP00000304192	PCX1_HUMAN	Q05BT4_HUMAN	UPI000013E9BB	.	tolerated(0.49)	benign(0.001)	6/36	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12372:SF2,hmmpanther:PTHR12372	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGAGTGATAA	.	5	BLCA
DICER1	0	.	GRCh37	14	95562662	95562662	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4595A>G	p.Glu1532Gly	p.E1532G	ENST00000526495	25/29	104	60	44	91	91	0	DICER1,missense_variant,p.Glu1532Gly,ENST00000343455,;DICER1,missense_variant,p.Glu1532Gly,ENST00000541352,;DICER1,missense_variant,p.Glu1532Gly,ENST00000527414,;DICER1,missense_variant,p.Glu1532Gly,ENST00000526495,;DICER1,missense_variant,p.Glu211Gly,ENST00000532939,;DICER1,missense_variant,p.Glu430Gly,ENST00000556045,;DICER1,missense_variant,p.Glu1532Gly,ENST00000393063,;DICER1,upstream_gene_variant,,ENST00000527554,;	C	ENSG00000100697	ENST00000526495	Transcript	missense_variant	4887	4595	1532	E/G	gAa/gGa	.	.	.	-1	DICER1	HGNC	17098	protein_coding	YES	CCDS9931.1	ENSP00000437256	DICER_HUMAN	Q5D0K5_HUMAN,B3KMJ0_HUMAN	UPI0000168662	.	deleterious(0.01)	probably_damaging(0.998)	25/29	.	hmmpanther:PTHR14950:SF3,hmmpanther:PTHR14950,Pfam_domain:PF00636,SMART_domains:SM00535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTTCTGAT	.	5	BLCA
MYH11	0	.	GRCh37	16	15841523	15841523	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2336C>G	p.Thr779Ser	p.T779S	ENST00000396324	20/42	80	75	5	74	74	0	MYH11,missense_variant,p.Thr779Ser,ENST00000452625,;MYH11,missense_variant,p.Thr772Ser,ENST00000576790,;MYH11,missense_variant,p.Thr772Ser,ENST00000300036,;MYH11,missense_variant,p.Thr779Ser,ENST00000396324,;MYH11,downstream_gene_variant,,ENST00000570785,;	C	ENSG00000133392	ENST00000396324	Transcript	missense_variant	2424	2336	779	T/S	aCt/aGt	.	.	.	-1	MYH11	HGNC	7569	protein_coding	YES	CCDS45423.1	ENSP00000379616	MYH11_HUMAN	Q68D89_HUMAN,Q66K75_HUMAN	UPI00005B7237	.	.	probably_damaging(0.931)	20/42	.	Superfamily_domains:SSF52540,SMART_domains:SM00242,hmmpanther:PTHR13140:SF335,hmmpanther:PTHR13140,PROSITE_profiles:PS51456	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCCAGTTCGG	.	2	BLCA
CENPT	0	.	GRCh37	16	67863341	67863341	+	Missense_Mutation	SNP	G	G	A	rs201434551	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1265C>T	p.Ala422Val	p.A422V	ENST00000562787	13/16	16	6	10	27	27	0	CENPT,missense_variant,p.Ala422Val,ENST00000562787,;CENPT,missense_variant,p.Ala422Val,ENST00000440851,;CENPT,missense_variant,p.Ala422Val,ENST00000219172,;CENPT,missense_variant,p.Ala367Val,ENST00000564817,;CENPT,downstream_gene_variant,,ENST00000445712,;TSNAXIP1,downstream_gene_variant,,ENST00000415766,;CENPT,downstream_gene_variant,,ENST00000567985,;TSNAXIP1,downstream_gene_variant,,ENST00000565148,;CENPT,downstream_gene_variant,,ENST00000565114,;CENPT,downstream_gene_variant,,ENST00000561593,;TSNAXIP1,downstream_gene_variant,,ENST00000431934,;CENPT,downstream_gene_variant,,ENST00000566758,;TSNAXIP1,downstream_gene_variant,,ENST00000388833,;TSNAXIP1,downstream_gene_variant,,ENST00000567852,;TSNAXIP1,downstream_gene_variant,,ENST00000561639,;TSNAXIP1,downstream_gene_variant,,ENST00000561654,;CENPT,downstream_gene_variant,,ENST00000564346,;CENPT,downstream_gene_variant,,ENST00000564144,;CENPT,downstream_gene_variant,,ENST00000567482,;CENPT,downstream_gene_variant,,ENST00000568652,;TSNAXIP1,downstream_gene_variant,,ENST00000562321,;CENPT,downstream_gene_variant,,ENST00000565132,;CENPT,downstream_gene_variant,,ENST00000564538,;CENPT,downstream_gene_variant,,ENST00000568765,;CENPT,downstream_gene_variant,,ENST00000565385,;CENPT,downstream_gene_variant,,ENST00000569094,;CENPT,downstream_gene_variant,,ENST00000569019,;CENPT,downstream_gene_variant,,ENST00000562947,;CENPT,3_prime_UTR_variant,,ENST00000562513,;CENPT,non_coding_transcript_exon_variant,,ENST00000569862,;CENPT,non_coding_transcript_exon_variant,,ENST00000565157,;CENPT,non_coding_transcript_exon_variant,,ENST00000436104,;CENPT,non_coding_transcript_exon_variant,,ENST00000568495,;CENPT,non_coding_transcript_exon_variant,,ENST00000563885,;TSNAXIP1,intron_variant,,ENST00000565558,;CENPT,downstream_gene_variant,,ENST00000562483,;TSNAXIP1,downstream_gene_variant,,ENST00000565339,;CENPT,downstream_gene_variant,,ENST00000562338,;TSNAXIP1,downstream_gene_variant,,ENST00000487120,;CENPT,downstream_gene_variant,,ENST00000566067,;TSNAXIP1,downstream_gene_variant,,ENST00000563363,;TSNAXIP1,downstream_gene_variant,,ENST00000466164,;CENPT,downstream_gene_variant,,ENST00000562462,;CENPT,downstream_gene_variant,,ENST00000565713,;TSNAXIP1,downstream_gene_variant,,ENST00000569504,;CENPT,downstream_gene_variant,,ENST00000568564,;CENPT,upstream_gene_variant,,ENST00000574569,;CENPT,downstream_gene_variant,,ENST00000564128,;CENPT,downstream_gene_variant,,ENST00000568069,;TSNAXIP1,downstream_gene_variant,,ENST00000568990,;	A	ENSG00000102901	ENST00000562787	Transcript	missense_variant	1814	1265	422	A/V	gCg/gTg	rs201434551	.	.	-1	CENPT	HGNC	25787	protein_coding	YES	CCDS42182.1	ENSP00000457810	CENPT_HUMAN	H3BQ71_HUMAN,H3BMP6_HUMAN	UPI00001C1CDE	.	tolerated(0.09)	benign(0.008)	13/16	.	Pfam_domain:PF15511,hmmpanther:PTHR14857	A:0.0010	A:0.0023	A:0.0029	.	A:0	A:0	A:0	A:0.0044	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGCGCTGGG	byFrequency|byCluster|by1000G	5	BLCA
WDR90	0	.	GRCh37	16	708562	708562	+	Missense_Mutation	SNP	C	C	T	rs199831047	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2804C>T	p.Thr935Met	p.T935M	ENST00000293879	23/41	67	49	18	105	105	0	WDR90,missense_variant,p.Thr935Met,ENST00000549091,;WDR90,missense_variant,p.Thr935Met,ENST00000293879,;WDR90,upstream_gene_variant,,ENST00000550739,;LA16c-349E10.1,upstream_gene_variant,,ENST00000573609,;WDR90,non_coding_transcript_exon_variant,,ENST00000548844,;WDR90,upstream_gene_variant,,ENST00000547543,;WDR90,upstream_gene_variant,,ENST00000548603,;WDR90,downstream_gene_variant,,ENST00000552648,;WDR90,missense_variant,p.Thr240Met,ENST00000552728,;WDR90,non_coding_transcript_exon_variant,,ENST00000547407,;WDR90,non_coding_transcript_exon_variant,,ENST00000552943,;WDR90,non_coding_transcript_exon_variant,,ENST00000552683,;WDR90,non_coding_transcript_exon_variant,,ENST00000546516,;WDR90,downstream_gene_variant,,ENST00000549648,;WDR90,upstream_gene_variant,,ENST00000549024,;WDR90,downstream_gene_variant,,ENST00000420061,;WDR90,upstream_gene_variant,,ENST00000550902,;WDR90,upstream_gene_variant,,ENST00000546923,;WDR90,downstream_gene_variant,,ENST00000548859,;	T	ENSG00000161996	ENST00000293879	Transcript	missense_variant	2804	2804	935	T/M	aCg/aTg	rs199831047	.	.	1	WDR90	HGNC	26960	protein_coding	YES	CCDS42092.1	ENSP00000293879	WDR90_HUMAN	.	UPI0000D67C48	.	deleterious(0.02)	benign(0.002)	23/41	.	hmmpanther:PTHR13720:SF10,hmmpanther:PTHR13720,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50998	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0007	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGACGCTCA	byCluster|by1000G	5	BLCA
ALDH3A2	0	.	GRCh37	17	19555084	19555084	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.378C>T	p.%3D	p.I126I	ENST00000339618	2/11	119	95	24	103	103	0	ALDH3A2,synonymous_variant,p.%3D,ENST00000395575,;ALDH3A2,synonymous_variant,p.%3D,ENST00000581518,;ALDH3A2,synonymous_variant,p.%3D,ENST00000446398,;ALDH3A2,synonymous_variant,p.%3D,ENST00000176643,;ALDH3A2,synonymous_variant,p.%3D,ENST00000584332,;ALDH3A2,synonymous_variant,p.%3D,ENST00000579855,;ALDH3A2,synonymous_variant,p.%3D,ENST00000339618,;ALDH3A2,synonymous_variant,p.%3D,ENST00000580550,;ALDH3A2,upstream_gene_variant,,ENST00000571537,;ALDH3A2,upstream_gene_variant,,ENST00000578696,;Y_RNA,upstream_gene_variant,,ENST00000578640,;Y_RNA,upstream_gene_variant,,ENST00000515977,;ALDH3A2,synonymous_variant,p.%3D,ENST00000472059,;ALDH3A2,synonymous_variant,p.%3D,ENST00000582991,;ALDH3A2,non_coding_transcript_exon_variant,,ENST00000579403,;ALDH3A2,non_coding_transcript_exon_variant,,ENST00000467473,;ALDH3A2,intron_variant,,ENST00000578614,;ALDH3A2,upstream_gene_variant,,ENST00000476965,;	T	ENSG00000072210	ENST00000339618	Transcript	synonymous_variant	599	378	126	I	atC/atT	.	.	.	1	ALDH3A2	HGNC	403	protein_coding	YES	CCDS32589.1	ENSP00000345774	AL3A2_HUMAN	K7EN73_HUMAN,J3KTG1_HUMAN,C9JGJ2_HUMAN	UPI000002A7E2	.	.	.	2/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11699:SF116,hmmpanther:PTHR11699,Gene3D:3.40.605.10,Pfam_domain:PF00171,PIRSF_domain:PIRSF036492,Superfamily_domains:SSF53720	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCATCGCTGC	.	3	BLCA
MYO19	0	.	GRCh37	17	34870990	34870990	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.583C>T	p.Arg195Cys	p.R195C	ENST00000431794	8/26	21	18	3	24	24	0	MYO19,missense_variant,p.Arg61Cys,ENST00000544606,;MYO19,missense_variant,p.Arg195Cys,ENST00000268852,;MYO19,missense_variant,p.Arg195Cys,ENST00000431794,;MYO19,missense_variant,p.Arg195Cys,ENST00000586007,;MYO19,downstream_gene_variant,,ENST00000585719,;MYO19,downstream_gene_variant,,ENST00000589404,;MYO19,missense_variant,p.Arg195Cys,ENST00000586908,;MYO19,intron_variant,,ENST00000591794,;MYO19,upstream_gene_variant,,ENST00000591017,;MYO19,upstream_gene_variant,,ENST00000587389,;MYO19,upstream_gene_variant,,ENST00000588471,;MYO19,upstream_gene_variant,,ENST00000590585,;	A	ENSG00000141140	ENST00000431794	Transcript	missense_variant	1106	583	195	R/C	Cgc/Tgc	.	.	.	-1	MYO19	HGNC	26234	protein_coding	YES	CCDS54112.1	ENSP00000409936	MYO19_HUMAN	K7EQ57_HUMAN,K7EP95_HUMAN,K7EMZ0_HUMAN,K7EJW5_HUMAN	UPI000173AA19	.	deleterious(0)	probably_damaging(1)	8/26	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF289,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540,Prints_domain:PR00193	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAGCGACTGC	.	4	BLCA
BCAS3	0	.	GRCh37	17	59112096	59112096	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1752C>G	p.Ile584Met	p.I584M	ENST00000390652	18/25	63	58	5	106	106	0	BCAS3,missense_variant,p.Ile569Met,ENST00000589222,;BCAS3,missense_variant,p.Ile569Met,ENST00000408905,;BCAS3,missense_variant,p.Ile584Met,ENST00000588462,;BCAS3,missense_variant,p.Ile584Met,ENST00000390652,;BCAS3,missense_variant,p.Ile355Met,ENST00000585744,;BCAS3,missense_variant,p.Ile569Met,ENST00000407086,;BCAS3,missense_variant,p.Ile340Met,ENST00000588874,;RP11-264B14.1,non_coding_transcript_exon_variant,,ENST00000588604,;BCAS3,non_coding_transcript_exon_variant,,ENST00000585979,;BCAS3,non_coding_transcript_exon_variant,,ENST00000592827,;BCAS3,non_coding_transcript_exon_variant,,ENST00000587037,;	G	ENSG00000141376	ENST00000390652	Transcript	missense_variant	1783	1752	584	I/M	atC/atG	.	.	.	1	BCAS3	HGNC	14347	protein_coding	YES	CCDS45749.1	ENSP00000375067	BCAS3_HUMAN	K7ESE9_HUMAN,K7EML5_HUMAN,K7EKB0_HUMAN,K7EJU7_HUMAN,K7EJH7_HUMAN	UPI00001AE949	.	tolerated(0.16)	benign(0.004)	18/25	.	hmmpanther:PTHR13268,Pfam_domain:PF12490	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTATCTTCGG	.	3	BLCA
TP53	0	.	GRCh37	17	7577094	7577094	+	Missense_Mutation	SNP	G	G	A	rs28934574	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.844C>T	p.Arg282Trp	p.R282W	ENST00000269305	8/11	18	8	10	31	31	0	TP53,missense_variant,p.Arg282Trp,ENST00000420246,;TP53,missense_variant,p.Arg282Trp,ENST00000269305,;TP53,missense_variant,p.Arg150Trp,ENST00000509690,;TP53,missense_variant,p.Arg282Trp,ENST00000359597,;TP53,missense_variant,p.Arg282Trp,ENST00000445888,;TP53,missense_variant,p.Arg282Trp,ENST00000455263,;TP53,intron_variant,,ENST00000413465,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000514944,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,downstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;TP53,downstream_gene_variant,,ENST00000505014,;	A	ENSG00000141510	ENST00000269305	Transcript	missense_variant	1034	844	282	R/W	Cgg/Tgg	CM920678,CM056413,rs28934574,TP53_g.13824C>A,TP53_g.13824C>G,TP53_g.13824C>T,TP53_g.13824del,COSM43813,COSM10704,COSM10992,COSM44918,COSM99925,COSM99934,COSM3378339,COSM3675520,COSM1725698,COSM1636702	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(0.997)	8/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	likely_benign,pathogenic	0,0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1	25105660,25404506,22536362	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,0,0,0,0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.R282W|c.844C>T|49,SITE|p.R282W|c.844C>T|86,SITE|p.R282W|c.844C>T|450,SITE|p.R282W|c.844C>T|58,CODON|p.0?|c.1_1182del1182|6,CODON|p.R282R|c.846G>A|4,CODON|p.R282Q|c.845G>A|5,CODON|p.R282Q|c.845G>A|26,CODON|p.R282L|c.845G>T|3,CODON|p.R282Q|c.845G>A|3,CODON|p.R282P|c.845G>C|17,CODON|p.R282W|c.843_844CC>TT|10,BUFFER|p.E285E|c.855G>A|3,BUFFER|p.E285V|c.854A>T|3,BUFFER|p.E285G|c.854A>G|4,BUFFER|p.E285V|c.854A>T|17,BUFFER|p.E285V|c.854A>T|4,BUFFER|p.E285K|c.853G>A|19,BUFFER|p.E285*|c.853G>T|5,BUFFER|p.E285K|c.853G>A|114,BUFFER|p.E285*|c.853G>T|9,BUFFER|p.E285Q|c.853G>C|4,BUFFER|p.E285*|c.853G>T|25,BUFFER|p.E285K|c.853G>A|5,BUFFER|p.E285K|c.853G>A|9,BUFFER|p.T284T|c.852A>T|3,BUFFER|p.T284A|c.850A>G|3,BUFFER|p.T284P|c.850A>C|8,BUFFER|p.R283fs*62|c.847delC|3,BUFFER|p.R283P|c.848G>C|4,BUFFER|p.R283H|c.848G>A|12,BUFFER|p.R283L|c.848G>T|4,BUFFER|p.R283P|c.848G>C|24,BUFFER|p.R283C|c.847C>T|19,BUFFER|p.R282G|c.844C>G|5,BUFFER|p.R282G|c.844C>G|3,BUFFER|p.R282R|c.844C>A|3,BUFFER|p.R282G|c.844C>G|29,BUFFER|p.D281D|c.843C>T|5,BUFFER|p.D281E|c.843C>A|3,BUFFER|p.D281E|c.843C>G|20,BUFFER|p.D281E|c.843C>A|3,BUFFER|p.D281E|c.843C>A|12,BUFFER|p.D281V|c.842A>T|5,BUFFER|p.D281G|c.842A>G|10,BUFFER|p.D281H|c.841G>C|6,BUFFER|p.D281H|c.841G>C|28,BUFFER|p.D281H|c.841G>C|3,BUFFER|p.D281H|c.841G>C|4,BUFFER|p.D281Y|c.841G>T|7,BUFFER|p.D281N|c.841G>A|7,BUFFER|p.D281N|c.841G>A|3,BUFFER|p.D281Y|c.841G>T|13,BUFFER|p.D281Y|c.841G>T|4,BUFFER|p.D281N|c.841G>A|27,BUFFER|p.R280R|c.840A>G|3,BUFFER|p.R280S|c.840A>T|11,BUFFER|p.R280S|c.840A>C|6,BUFFER|p.R280T|c.839G>C|63,BUFFER|p.R280T|c.839G>C|4,BUFFER|p.R280I|c.839G>T|17,BUFFER|p.R280K|c.839G>A|17,BUFFER|p.R280K|c.839G>A|6,BUFFER|p.R280I|c.839G>T|4,BUFFER|p.R280K|c.839G>A|57,BUFFER|p.R280I|c.839G>T|3,BUFFER|p.R280T|c.839G>C|10,BUFFER|p.R280K|c.839G>A|11,BUFFER|p.R280*|c.838A>T|12,BUFFER|p.R280G|c.838A>G|6,BUFFER|p.R280G|c.838A>G|3,BUFFER|p.R280G|c.838A>G|23,BUFFER|p.R280fs*65|c.835delG|5,BUFFER|p.G279E|c.836G>A|4,BUFFER|p.G279E|c.836G>A|34,BUFFER|p.G279V|c.836G>T|3,BUFFER|p.G279R|c.835G>A|7,BUFFER|p.G279W|c.835G>T|3,BUFFER|p.P278fs*67|c.833delC|3,BUFFER|p.P278F|c.832_833CC>TT|3,BUFFER|p.P278H|c.833C>A|15,BUFFER|p.P278R|c.833C>G|5,BUFFER|p.P278R|c.833C>G|30,BUFFER|p.P278R|c.833C>G|3,BUFFER|p.P278H|c.833C>A|3,BUFFER|p.P278L|c.833C>T|3,BUFFER|p.P278L|c.833C>T|11,BUFFER|p.P278L|c.833C>T|65,BUFFER|p.P278L|c.833C>T|8,BUFFER|p.P278fs*67|c.832delC|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCCGGTCTC	byFrequency|byCluster	5	BLCA
SOCS3	0	.	GRCh37	17	76354650	76354650	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.527T>A	p.Leu176Gln	p.L176Q	ENST00000330871	2/2	59	54	5	65	65	0	SOCS3,missense_variant,p.Leu176Gln,ENST00000330871,;SOCS3,downstream_gene_variant,,ENST00000587578,;RP11-806H10.4,upstream_gene_variant,,ENST00000587575,;RP11-806H10.4,upstream_gene_variant,,ENST00000592569,;	T	ENSG00000184557	ENST00000330871	Transcript	missense_variant	943	527	176	L/Q	cTg/cAg	.	.	.	-1	SOCS3	HGNC	19391	protein_coding	YES	CCDS11756.1	ENSP00000330341	SOCS3_HUMAN	Q6FI39_HUMAN	UPI00000473FF	.	deleterious(0)	probably_damaging(1)	2/2	.	Superfamily_domains:SSF158235,Gene3D:3.30.505.10,hmmpanther:PTHR10385:SF4,hmmpanther:PTHR10385	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACACCAGGGGG	.	3	BLCA
CYP4F8	0	.	GRCh37	19	15734900	15734904	+	Intron	DEL	GAATG	GAATG	-	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	GAATG	GAATG	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2821_2824+1delAATGG	.	.	ENST00000589787	5/9	53	42	11	67	67	0	CYP4F8,splice_region_variant,,ENST00000589019,;CYP4F8,splice_region_variant,,ENST00000441682,;CYP4F8,splice_region_variant,,ENST00000443973,;CYP4F8,splice_region_variant,,ENST00000325723,;CYP4F8,upstream_gene_variant,,ENST00000589778,;CYP4F8,upstream_gene_variant,,ENST00000589722,;CYP4F8,downstream_gene_variant,,ENST00000592615,;CYP4F8,splice_region_variant,,ENST00000585349,;CYP4F8,splice_region_variant,,ENST00000589927,;CYP4F8,splice_region_variant,,ENST00000589787,;CYP4F8,upstream_gene_variant,,ENST00000590745,;CYP4F8,downstream_gene_variant,,ENST00000587680,;	-	ENSG00000186526	ENST00000589787	Transcript	splice_region_variant	2820-2824	.	.	.	.	.	.	.	1	CYP4F8	HGNC	2648	retained_intron	YES	.	.	.	.	.	.	.	.	5/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAGATTGAATGGTGAG	.	3	BLCA
NWD1	0	.	GRCh37	19	16860181	16860181	+	Missense_Mutation	SNP	G	G	A	rs201116385	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.728G>A	p.Arg243His	p.R243H	ENST00000524140	6/19	77	46	31	56	56	0	NWD1,missense_variant,p.Arg108His,ENST00000339803,;NWD1,missense_variant,p.Arg243His,ENST00000524140,;NWD1,missense_variant,p.Arg243His,ENST00000552788,;NWD1,missense_variant,p.Arg243His,ENST00000379808,;NWD1,missense_variant,p.Arg243His,ENST00000549814,;NWD1,missense_variant,p.Arg37His,ENST00000523826,;NWD1,3_prime_UTR_variant,,ENST00000438489,;NWD1,3_prime_UTR_variant,,ENST00000518676,;	A	ENSG00000188039	ENST00000524140	Transcript	missense_variant	1146	728	243	R/H	cGc/cAc	rs201116385	.	.	1	NWD1	HGNC	27619	protein_coding	YES	CCDS32945.2	ENSP00000428579	NWD1_HUMAN	.	UPI0000D6173E	.	tolerated(0.64)	benign(0.002)	6/19	.	hmmpanther:PTHR22847:SF273,hmmpanther:PTHR22847	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCGCCTGC	byCluster|by1000G	5	BLCA
ZNF728	0	.	GRCh37	19	23159408	23159408	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.731C>A	p.Thr244Asn	p.T244N	ENST00000594710	4/4	74	52	22	84	84	0	ZNF728,missense_variant,p.Thr244Asn,ENST00000594710,;ZNF728,downstream_gene_variant,,ENST00000599851,;	T	ENSG00000269067	ENST00000594710	Transcript	missense_variant	877	731	244	T/N	aCt/aAt	.	.	.	-1	ZNF728	HGNC	32463	protein_coding	YES	CCDS59370.1	ENSP00000471593	ZN728_HUMAN	.	UPI0002656E4B	.	tolerated(0.1)	possibly_damaging(0.74)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF153,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GCTTAGTAAGG	.	5	BLCA
GRAMD1A	0	.	GRCh37	19	35510308	35510308	+	Missense_Mutation	SNP	G	G	A	rs200063858	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1346G>A	p.Arg449His	p.R449H	ENST00000317991	13/20	111	65	46	100	100	0	GRAMD1A,missense_variant,p.Arg449His,ENST00000317991,;GRAMD1A,missense_variant,p.Arg536His,ENST00000599564,;GRAMD1A,missense_variant,p.Arg442His,ENST00000411896,;GRAMD1A,missense_variant,p.Arg215His,ENST00000504615,;CTD-2527I21.14,intron_variant,,ENST00000605640,;GRAMD1A,3_prime_UTR_variant,,ENST00000600231,;GRAMD1A,non_coding_transcript_exon_variant,,ENST00000598118,;GRAMD1A,downstream_gene_variant,,ENST00000598362,;GRAMD1A,upstream_gene_variant,,ENST00000603907,;	A	ENSG00000089351	ENST00000317991	Transcript	missense_variant	1538	1346	449	R/H	cGc/cAc	rs200063858	.	.	1	GRAMD1A	HGNC	29305	protein_coding	YES	CCDS42546.1	ENSP00000441032	GRM1A_HUMAN	.	UPI00000377B4	.	tolerated(0.12)	benign(0.001)	13/20	.	hmmpanther:PTHR23319:SF8,hmmpanther:PTHR23319	A:0.0006	A:0.0023	A:0	.	A:0	A:0	A:0	A:0.0005	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGCGCGGCC	byFrequency|byCluster|by1000G	5	BLCA
ZNF610	0	.	GRCh37	19	52869685	52869685	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1054G>T	p.Val352Phe	p.V352F	ENST00000403906	6/6	104	99	5	98	98	0	ZNF610,missense_variant,p.Val352Phe,ENST00000327920,;ZNF610,missense_variant,p.Val309Phe,ENST00000601151,;ZNF610,missense_variant,p.Val352Phe,ENST00000403906,;ZNF610,missense_variant,p.Val352Phe,ENST00000321287,;ZNF880,upstream_gene_variant,,ENST00000422689,;ZNF880,upstream_gene_variant,,ENST00000344085,;ZNF880,upstream_gene_variant,,ENST00000600321,;ZNF880,upstream_gene_variant,,ENST00000424032,;ZNF880,upstream_gene_variant,,ENST00000597976,;ZNF880,upstream_gene_variant,,ENST00000595099,;	T	ENSG00000167554	ENST00000403906	Transcript	missense_variant	1510	1054	352	V/F	Gtc/Ttc	COSM288793	.	.	1	ZNF610	HGNC	26687	protein_coding	YES	CCDS12851.1	ENSP00000383922	ZN610_HUMAN	M0QYM6_HUMAN	UPI0000140AF2	.	tolerated(0.08)	benign(0.087)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402,hmmpanther:PTHR24402:SF197,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAAGGTCTTT	.	2	BLCA
ZNF471	0	.	GRCh37	19	57036524	57036524	+	Missense_Mutation	SNP	G	G	A	rs142290015	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1088G>A	p.Arg363His	p.R363H	ENST00000308031	5/5	121	83	38	115	115	0	ZNF471,missense_variant,p.Val223Ile,ENST00000591537,;ZNF471,missense_variant,p.Arg363His,ENST00000308031,;ZNF471,intron_variant,,ENST00000593197,;	A	ENSG00000196263	ENST00000308031	Transcript	missense_variant	1221	1088	363	R/H	cGt/cAt	rs142290015	.	.	1	ZNF471	HGNC	23226	protein_coding	YES	CCDS12945.1	ENSP00000309161	ZN471_HUMAN	K7EPX1_HUMAN	UPI0000073465	.	deleterious(0.04)	probably_damaging(0.994)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF212,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTCGTCACT	byCluster	5	BLCA
BRINP2	0	.	GRCh37	1	177199212	177199212	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200G>A	p.Arg67His	p.R67H	ENST00000361539	2/8	90	52	37	79	79	0	BRINP2,missense_variant,p.Arg67His,ENST00000361539,;	A	ENSG00000198797	ENST00000361539	Transcript	missense_variant	512	200	67	R/H	cGc/cAc	COSM1166121	.	.	1	BRINP2	HGNC	13746	protein_coding	YES	CCDS1320.1	ENSP00000354481	BRNP2_HUMAN	.	UPI000006DF55	.	tolerated(0.52)	probably_damaging(0.994)	2/8	.	hmmpanther:PTHR15564:SF5,hmmpanther:PTHR15564	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCGCGCTC	.	5	BLCA
THRAP3	0	.	GRCh37	1	36766641	36766642	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2459dupT	p.Pro822SerfsTer3	p.P822Sfs*3	ENST00000354618	10/12	62	44	18	58	58	0	THRAP3,frameshift_variant,p.Pro822SerfsTer3,ENST00000354618,;THRAP3,frameshift_variant,p.Pro822SerfsTer3,ENST00000469141,;	T	ENSG00000054118	ENST00000354618	Transcript	frameshift_variant	2682-2683	2458-2459	820	V/VX	gtg/gTtg	.	.	.	1	THRAP3	HGNC	22964	protein_coding	YES	CCDS405.1	ENSP00000346634	TR150_HUMAN	E9PML1_HUMAN	UPI0000203F28	.	.	.	10/12	.	hmmpanther:PTHR15268:SF16,hmmpanther:PTHR15268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACTTTGTGGGT	.	3	BLCA
GPBP1L1	0	.	GRCh37	1	46120874	46120874	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.178C>G	p.Arg60Gly	p.R60G	ENST00000355105	5/13	138	100	37	121	121	0	GPBP1L1,missense_variant,p.Arg60Gly,ENST00000355105,;GPBP1L1,missense_variant,p.Arg60Gly,ENST00000290795,;GPBP1L1,non_coding_transcript_exon_variant,,ENST00000496278,;GPBP1L1,non_coding_transcript_exon_variant,,ENST00000498128,;GPBP1L1,downstream_gene_variant,,ENST00000495616,;RP11-767N6.2,upstream_gene_variant,,ENST00000437848,;	C	ENSG00000159592	ENST00000355105	Transcript	missense_variant	1539	178	60	R/G	Cga/Gga	COSM910216	.	.	-1	GPBP1L1	HGNC	28843	protein_coding	YES	CCDS528.1	ENSP00000347224	GPBL1_HUMAN	.	UPI0000072AA4	.	deleterious(0)	possibly_damaging(0.629)	5/13	.	hmmpanther:PTHR14339,hmmpanther:PTHR14339:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTCGTAGGG	.	5	BLCA
ATG4C	0	.	GRCh37	1	63269512	63269512	+	Missense_Mutation	SNP	G	G	T	rs760890086	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.55G>T	p.Ala19Ser	p.A19S	ENST00000317868	2/11	87	66	21	85	85	0	ATG4C,missense_variant,p.Ala19Ser,ENST00000443289,;ATG4C,missense_variant,p.Ala19Ser,ENST00000317868,;ATG4C,missense_variant,p.Ala19Ser,ENST00000371118,;ATG4C,missense_variant,p.Ala19Ser,ENST00000371120,;	T	ENSG00000125703	ENST00000317868	Transcript	missense_variant	262	55	19	A/S	Gct/Tct	rs760890086	.	.	1	ATG4C	HGNC	16040	protein_coding	YES	CCDS623.1	ENSP00000322159	ATG4C_HUMAN	C9JC51_HUMAN,A6NGQ4_HUMAN	UPI000000DC9F	.	deleterious(0.02)	benign(0.027)	2/11	.	hmmpanther:PTHR22624,hmmpanther:PTHR22624:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTGCTTGG	.	5	BLCA
GBP2	0	.	GRCh37	1	89583361	89583361	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.524C>A	p.Ala175Glu	p.A175E	ENST00000370466	5/11	73	66	6	75	75	0	GBP2,missense_variant,p.Ala175Glu,ENST00000370466,;GBP2,non_coding_transcript_exon_variant,,ENST00000463660,;GBP2,upstream_gene_variant,,ENST00000493802,;GBP2,missense_variant,p.Ala175Glu,ENST00000464839,;	T	ENSG00000162645	ENST00000370466	Transcript	missense_variant	793	524	175	A/E	gCa/gAa	COSM912974	.	.	-1	GBP2	HGNC	4183	protein_coding	YES	CCDS719.1	ENSP00000359497	GBP2_HUMAN	Q8TCE5_HUMAN	UPI000013E19F	.	deleterious(0.02)	benign(0.005)	5/11	.	PROSITE_profiles:PS51715,hmmpanther:PTHR10751,hmmpanther:PTHR10751:SF39,Gene3D:3.40.50.300,Pfam_domain:PF02263,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAAATGCTGGA	.	3	BLCA
GBP4	0	.	GRCh37	1	89655755	89655755	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1163A>C	p.Lys388Thr	p.K388T	ENST00000355754	7/11	86	80	5	68	68	0	GBP4,missense_variant,p.Lys388Thr,ENST00000355754,;GBP4,upstream_gene_variant,,ENST00000471938,;GBP4,upstream_gene_variant,,ENST00000481397,;	G	ENSG00000162654	ENST00000355754	Transcript	missense_variant	1261	1163	388	K/T	aAg/aCg	.	.	.	-1	GBP4	HGNC	20480	protein_coding	YES	CCDS721.1	ENSP00000359490	GBP4_HUMAN	B4E2F1_HUMAN	UPI000013E1A4	.	deleterious(0)	probably_damaging(0.947)	7/11	.	hmmpanther:PTHR10751,hmmpanther:PTHR10751:SF17,Pfam_domain:PF02841,Gene3D:1f5nA01,Superfamily_domains:0037397	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATCCTTGAAG	.	2	BLCA
C20orf166	0	.	GRCh37	20	61143430	61143430	+	5'Flank	SNP	G	G	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000370527	.	59	45	13	54	54	0	C20orf166,upstream_gene_variant,,ENST00000370524,;C20orf166,upstream_gene_variant,,ENST00000370527,;C20orf166-AS1,non_coding_transcript_exon_variant,,ENST00000412495,;C20orf166-AS1,non_coding_transcript_exon_variant,,ENST00000475015,;C20orf166-AS1,downstream_gene_variant,,ENST00000436101,;	T	ENSG00000174407	ENST00000370527	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	4230	1	C20orf166	HGNC	16159	protein_coding	YES	CCDS46627.1	ENSP00000359558	CT166_HUMAN	.	UPI000012861B	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCTGCTCCT	.	5	BLCA
SAMSN1	0	.	GRCh37	21	15858132	15858132	+	3'UTR	SNP	A	A	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*101T>C	.	.	ENST00000285670	9/9	25	15	10	12	12	0	SAMSN1,3_prime_UTR_variant,,ENST00000400566,;SAMSN1,3_prime_UTR_variant,,ENST00000400564,;SAMSN1,3_prime_UTR_variant,,ENST00000285670,;	G	ENSG00000155307	ENST00000285670	Transcript	3_prime_UTR_variant	1602	.	.	.	.	.	.	.	-1	SAMSN1	HGNC	10528	protein_coding	YES	CCDS58786.1	ENSP00000285670	.	S6FRS6_HUMAN,F8WAA1_HUMAN	UPI000013DDFD	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTATTTAC	.	5	BLCA
CCT8L2	0	.	GRCh37	22	17072213	17072213	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1228C>G	p.Pro410Ala	p.P410A	ENST00000359963	1/1	56	42	14	61	61	0	CCT8L2,missense_variant,p.Pro410Ala,ENST00000359963,;FABP5P11,downstream_gene_variant,,ENST00000430910,;	C	ENSG00000198445	ENST00000359963	Transcript	missense_variant	1488	1228	410	P/A	Cca/Gca	COSM3551868	.	.	-1	CCT8L2	HGNC	15553	protein_coding	YES	CCDS13738.1	ENSP00000353048	TCPQM_HUMAN	.	UPI000006CF87	.	deleterious(0.04)	probably_damaging(1)	1/1	.	Prints_domain:PR00304,Superfamily_domains:SSF48592,Pfam_domain:PF00118,Gene3D:1.10.560.10,hmmpanther:PTHR11353:SF70,hmmpanther:PTHR11353	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGAATCA	.	5	BLCA
RFPL2	0	.	GRCh37	22	32590424	32590424	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.173T>A	p.Leu58His	p.L58H	ENST00000400237	3/5	29	20	8	30	30	0	RFPL2,missense_variant,p.Leu58His,ENST00000400237,;RFPL2,5_prime_UTR_variant,,ENST00000400236,;RFPL2,intron_variant,,ENST00000248983,;RFPL2,upstream_gene_variant,,ENST00000248980,;RFPL2,upstream_gene_variant,,ENST00000489846,;	T	ENSG00000128253	ENST00000400237	Transcript	missense_variant	1109	173	58	L/H	cTc/cAc	.	.	.	-1	RFPL2	HGNC	9979	protein_coding	YES	CCDS43009.2	ENSP00000383096	RFPL2_HUMAN	.	UPI000013CC66	.	deleterious_low_confidence(0)	probably_damaging(0.926)	3/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGTGAGATTC	.	3	BLCA
GTPBP1	0	.	GRCh37	22	39120312	39120312	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.969G>A	p.%3D	p.K323K	ENST00000216044	6/12	63	46	16	48	48	0	GTPBP1,synonymous_variant,p.%3D,ENST00000216044,;GTPBP1,upstream_gene_variant,,ENST00000458073,;GTPBP1,upstream_gene_variant,,ENST00000460605,;GTPBP1,upstream_gene_variant,,ENST00000475959,;GTPBP1,downstream_gene_variant,,ENST00000418601,;GTPBP1,upstream_gene_variant,,ENST00000462332,;PRDX3P1,upstream_gene_variant,,ENST00000418695,;	A	ENSG00000100226	ENST00000216044	Transcript	synonymous_variant	1202	969	323	K	aaG/aaA	.	.	.	1	GTPBP1	HGNC	4669	protein_coding	YES	CCDS13977.2	ENSP00000216044	GTPB1_HUMAN	F5H7C0_HUMAN,F5H716_HUMAN,F5H257_HUMAN	UPI00005EDDA0	.	.	.	6/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23115:SF96,hmmpanther:PTHR23115,Gene3D:3.40.50.300,Pfam_domain:PF00009,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGCTGTT	.	5	BLCA
CNTNAP5	0	.	GRCh37	2	125262121	125262121	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312G>T	p.Glu438Ter	p.E438*	ENST00000431078	8/24	39	26	13	45	45	0	CNTNAP5,stop_gained,p.Glu438Ter,ENST00000431078,;	T	ENSG00000155052	ENST00000431078	Transcript	stop_gained	1676	1312	438	E/*	Gaa/Taa	.	.	.	1	CNTNAP5	HGNC	18748	protein_coding	YES	CCDS46401.1	ENSP00000399013	CNTP5_HUMAN	.	UPI0000071988	.	.	.	8/24	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10127,hmmpanther:PTHR10127:SF605,Pfam_domain:PF02210,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R435C|c.1303C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGCTGAAATC	.	5	BLCA
CSRNP3	0	.	GRCh37	2	166536027	166536027	+	Missense_Mutation	SNP	G	G	C	rs774567924	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1522G>C	p.Glu508Gln	p.E508Q	ENST00000314499	7/7	43	40	3	44	44	0	CSRNP3,missense_variant,p.Glu540Gln,ENST00000409420,;CSRNP3,missense_variant,p.Glu508Gln,ENST00000342316,;CSRNP3,missense_variant,p.Glu508Gln,ENST00000314499,;CSRNP3,downstream_gene_variant,,ENST00000409664,;CSRNP3,downstream_gene_variant,,ENST00000421875,;	C	ENSG00000178662	ENST00000314499	Transcript	missense_variant	1898	1522	508	E/Q	Gaa/Caa	rs774567924,COSM207653	.	.	1	CSRNP3	HGNC	30729	protein_coding	YES	CCDS2225.1	ENSP00000318258	CSRN3_HUMAN	E7EN18_HUMAN,B8ZZD9_HUMAN	UPI0000136882	.	tolerated_low_confidence(0.15)	benign(0.155)	7/7	.	hmmpanther:PTHR13580:SF13,hmmpanther:PTHR13580	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCCGAAAAT	byFrequency	2	BLCA
ABCA12	0	.	GRCh37	2	215821416	215821416	+	Silent	SNP	G	G	A	rs777822338	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6204C>T	p.%3D	p.G2068G	ENST00000272895	42/53	116	75	41	108	108	0	ABCA12,synonymous_variant,p.%3D,ENST00000389661,;ABCA12,synonymous_variant,p.%3D,ENST00000272895,;AC072062.1,intron_variant,,ENST00000607412,;AC072062.1,upstream_gene_variant,,ENST00000420134,;	A	ENSG00000144452	ENST00000272895	Transcript	synonymous_variant	6424	6204	2068	G	ggC/ggT	rs777822338,COSM4091018,COSM4091019	.	.	-1	ABCA12	HGNC	14637	protein_coding	YES	CCDS33372.1	ENSP00000272895	ABCAC_HUMAN	A0SYP7_HUMAN	UPI000019AB7A	.	.	.	42/53	.	Pfam_domain:PF12698,hmmpanther:PTHR19229:SF29,hmmpanther:PTHR19229,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGCCTAG	.	5	BLCA
CUL3	0	.	GRCh37	2	225376176	225376176	+	Missense_Mutation	SNP	T	T	C	rs748814630	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.778A>G	p.Ile260Val	p.I260V	ENST00000264414	6/16	94	88	6	159	159	0	CUL3,missense_variant,p.Ile194Val,ENST00000344951,;CUL3,missense_variant,p.Ile260Val,ENST00000264414,;CUL3,missense_variant,p.Ile236Val,ENST00000409777,;CUL3,missense_variant,p.Ile236Val,ENST00000409096,;CUL3,downstream_gene_variant,,ENST00000436172,;CUL3,non_coding_transcript_exon_variant,,ENST00000541548,;CUL3,downstream_gene_variant,,ENST00000432260,;CUL3,upstream_gene_variant,,ENST00000484081,;	C	ENSG00000036257	ENST00000264414	Transcript	missense_variant	1117	778	260	I/V	Att/Gtt	rs748814630	.	.	-1	CUL3	HGNC	2553	protein_coding	YES	CCDS2462.1	ENSP00000264414	CUL3_HUMAN	Q53S54_HUMAN,Q53RD1_HUMAN	UPI0000001C83	.	tolerated(0.19)	benign(0.308)	6/16	.	hmmpanther:PTHR11932,Pfam_domain:PF00888,Gene3D:1.20.1310.10,Superfamily_domains:SSF74788	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACAATTGGTT	.	2	BLCA
IFT172	0	.	GRCh37	2	27703993	27703993	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705C>T	p.%3D	p.S235S	ENST00000260570	8/48	35	32	3	47	47	0	IFT172,synonymous_variant,p.%3D,ENST00000416524,;IFT172,synonymous_variant,p.%3D,ENST00000359466,;IFT172,synonymous_variant,p.%3D,ENST00000260570,;IFT172,splice_region_variant,,ENST00000476264,;IFT172,non_coding_transcript_exon_variant,,ENST00000511842,;IFT172,non_coding_transcript_exon_variant,,ENST00000507184,;IFT172,downstream_gene_variant,,ENST00000475476,;	A	ENSG00000138002	ENST00000260570	Transcript	synonymous_variant	809	705	235	S	agC/agT	.	.	.	-1	IFT172	HGNC	30391	protein_coding	YES	CCDS1755.1	ENSP00000260570	IF172_HUMAN	H7C161_HUMAN	UPI0000353ABB	.	.	.	8/48	.	hmmpanther:PTHR15722,hmmpanther:PTHR15722:SF2,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCACGGCTATA	.	2	BLCA
ALLC	0	.	GRCh37	2	3750128	3750128	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1151C>T	p.Ser384Leu	p.S384L	ENST00000252505	12/12	26	16	9	25	25	0	ALLC,missense_variant,p.Ser384Leu,ENST00000252505,;DCDC2C,upstream_gene_variant,,ENST00000423741,;AC010907.5,downstream_gene_variant,,ENST00000441632,;ALLC,downstream_gene_variant,,ENST00000471711,;ALLC,non_coding_transcript_exon_variant,,ENST00000476389,;	T	ENSG00000151360	ENST00000252505	Transcript	missense_variant	1313	1151	384	S/L	tCg/tTg	.	.	.	1	ALLC	HGNC	17377	protein_coding	YES	CCDS46223.1	ENSP00000252505	ALLC_HUMAN	B4DY77_HUMAN	UPI000050BBEF	.	tolerated_low_confidence(0.06)	benign(0.001)	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCGGTGA	.	5	BLCA
FSHR	0	.	GRCh37	2	49189810	49189810	+	3'UTR	SNP	A	A	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*62T>A	.	.	ENST00000406846	10/10	21	13	8	33	33	0	FSHR,3_prime_UTR_variant,,ENST00000346173,;FSHR,3_prime_UTR_variant,,ENST00000304421,;FSHR,3_prime_UTR_variant,,ENST00000406846,;FSHR,downstream_gene_variant,,ENST00000541117,;FSHR,downstream_gene_variant,,ENST00000454032,;	T	ENSG00000170820	ENST00000406846	Transcript	3_prime_UTR_variant	2270	.	.	.	.	.	.	.	-1	FSHR	HGNC	3969	protein_coding	YES	CCDS1843.1	ENSP00000384708	FSHR_HUMAN	F5GZW2_HUMAN,B6UV82_HUMAN,A5JS81_HUMAN	UPI000013E97A	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGACATACCC	.	5	BLCA
ACAD11	0	.	GRCh37	3	132347272	132347272	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.982C>A	p.Leu328Ile	p.L328I	ENST00000264990	8/20	222	214	7	127	127	0	ACAD11,missense_variant,p.Leu328Ile,ENST00000481970,;ACAD11,missense_variant,p.Leu328Ile,ENST00000264990,;ACAD11,missense_variant,p.Leu328Ile,ENST00000355458,;ACAD11,5_prime_UTR_variant,,ENST00000545291,;ACAD11,downstream_gene_variant,,ENST00000489991,;ACAD11,missense_variant,p.Leu328Ile,ENST00000485198,;NPHP3,3_prime_UTR_variant,,ENST00000471702,;ACAD11,non_coding_transcript_exon_variant,,ENST00000496418,;ACAD11,non_coding_transcript_exon_variant,,ENST00000469042,;ACAD11,upstream_gene_variant,,ENST00000487024,;	T	ENSG00000240303	ENST00000264990	Transcript	missense_variant	1954	982	328	L/I	Ctt/Att	COSM1038474	.	.	-1	ACAD11	HGNC	30211	protein_coding	YES	CCDS3074.1	ENSP00000264990	ACD11_HUMAN	Q08AE9_HUMAN,B4DQ41_HUMAN	UPI00003671B7	.	tolerated(0.14)	possibly_damaging(0.742)	8/20	.	Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGAAGATATC	.	2	BLCA
ARHGEF26	0	.	GRCh37	3	153943704	153943704	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1995T>C	p.%3D	p.Y665Y	ENST00000356448	11/15	111	70	40	53	53	0	ARHGEF26,synonymous_variant,p.%3D,ENST00000465093,;ARHGEF26,synonymous_variant,p.%3D,ENST00000356448,;ARHGEF26,intron_variant,,ENST00000465817,;ARHGEF26,non_coding_transcript_exon_variant,,ENST00000483068,;ARHGEF26,synonymous_variant,p.%3D,ENST00000496710,;	C	ENSG00000114790	ENST00000356448	Transcript	synonymous_variant	2279	1995	665	Y	taT/taC	.	.	.	1	ARHGEF26	HGNC	24490	protein_coding	YES	CCDS46938.1	ENSP00000348828	ARHGQ_HUMAN	.	UPI00001410D0	.	.	.	11/15	.	PROSITE_profiles:PS50003,hmmpanther:PTHR12845,hmmpanther:PTHR12845:SF4,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTATGTTGA	.	5	BLCA
PIK3CA	0	.	GRCh37	3	178952090	178952090	+	Missense_Mutation	SNP	G	G	C	rs121913277	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3145G>C	p.Gly1049Arg	p.G1049R	ENST00000263967	21/21	106	66	40	56	56	0	PIK3CA,missense_variant,p.Gly1049Arg,ENST00000263967,;RP11-245C23.3,downstream_gene_variant,,ENST00000609807,;	C	ENSG00000121879	ENST00000263967	Transcript	missense_variant	3302	3145	1049	G/R	Ggt/Cgt	rs121913277,COSM12597,COSM777,COSM1168056,COSM446029,COSM1421012	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	tolerated(0.09)	possibly_damaging(0.487)	21/21	.	PROSITE_profiles:PS50290,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Gene3D:1.10.1070.11,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	0,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.G1049R|c.3145G>C|29,SITE|p.G1049R|c.3145G>C|5,CODON|p.H1048R|c.3143A>G|6,CODON|p.H1048R|c.3143A>G|3,BUFFER|p.A1046T|c.3136G>A|6,BUFFER|p.A1046E|c.3137C>A|3,BUFFER|p.H1047Y|c.3139C>T|8,BUFFER|p.H1047Y|c.3139C>T|54,BUFFER|p.H1047R|c.3140A>G|1687,BUFFER|p.H1047R|c.3140A>G|242,BUFFER|p.H1047L|c.3140A>T|236,BUFFER|p.H1047L|c.3140A>T|45,BUFFER|p.H1047Q|c.3141T>G|4,BUFFER|p.G1049S|c.3145G>A|16,BUFFER|p.G1049A|c.3146G>C|3,BUFFER|p.G1049D|c.3146G>A|4,BUFFER|p.G1049G|c.3147T>C|10,BUFFER|p.G1050S|c.3148G>A|3,BUFFER|p.G1050D|c.3149G>A|3,BUFFER|p.W1051*|c.3152G>A|3,BUFFER|p.T1052A|c.3154A>G|3,BUFFER|p.T1052K|c.3155C>A|9	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATGGTGGC	byCluster	5	BLCA
ITPR1	0	.	GRCh37	3	4714966	4714966	+	Missense_Mutation	SNP	G	G	A	rs749564517	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2306G>A	p.Arg769His	p.R769H	ENST00000302640	20/61	66	61	5	61	61	0	ITPR1,missense_variant,p.Arg784His,ENST00000423119,;ITPR1,missense_variant,p.Arg769His,ENST00000456211,;ITPR1,missense_variant,p.Arg784His,ENST00000357086,;ITPR1,missense_variant,p.Arg769His,ENST00000302640,;ITPR1,missense_variant,p.Arg769His,ENST00000443694,;ITPR1,missense_variant,p.Arg784His,ENST00000354582,;ITPR1,intron_variant,,ENST00000544951,;ITPR1,downstream_gene_variant,,ENST00000477577,;	A	ENSG00000150995	ENST00000302640	Transcript	missense_variant	2656	2306	769	R/H	cGc/cAc	rs749564517	.	.	1	ITPR1	HGNC	6180	protein_coding	YES	CCDS54551.1	ENSP00000306253	ITPR1_HUMAN	.	UPI0000E5A461	.	tolerated(0.23)	possibly_damaging(0.694)	20/61	.	hmmpanther:PTHR13715:SF52,hmmpanther:PTHR13715,Prints_domain:PR00779	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCCGCCTCA	.	2	BLCA
PROS1	0	.	GRCh37	3	93603730	93603730	+	Missense_Mutation	SNP	C	C	T	rs375034896	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1334G>A	p.Arg445His	p.R445H	ENST00000394236	12/15	81	49	32	44	44	0	PROS1,missense_variant,p.Arg445His,ENST00000394236,;PROS1,missense_variant,p.Arg314His,ENST00000407433,;	T	ENSG00000184500	ENST00000394236	Transcript	missense_variant	1651	1334	445	R/H	cGt/cAt	rs375034896	.	.	-1	PROS1	HGNC	9456	protein_coding	YES	CCDS2923.1	ENSP00000377783	PROS_HUMAN	Q8IXD5_HUMAN,Q8IXD4_HUMAN,Q8IXD2_HUMAN,Q6J1N0_HUMAN,Q06F35_HUMAN,G5E9F8_HUMAN,C9K0R0_HUMAN,B4E1L6_HUMAN	UPI00001323E8	.	deleterious(0.01)	possibly_damaging(0.638)	12/15	.	PROSITE_profiles:PS50025,hmmpanther:PTHR24040,hmmpanther:PTHR24040:SF0,Pfam_domain:PF00054,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTAGACGAGGG	byCluster|by1000G	5	BLCA
FGFR3	0	.	GRCh37	4	1806099	1806099	+	Missense_Mutation	SNP	A	A	G	rs121913485	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1124A>G	p.Tyr375Cys	p.Y375C	ENST00000340107	9/18	111	21	89	153	153	0	FGFR3,missense_variant,p.Tyr373Cys,ENST00000440486,;FGFR3,missense_variant,p.Tyr373Cys,ENST00000481110,;FGFR3,missense_variant,p.Tyr373Cys,ENST00000260795,;FGFR3,missense_variant,p.Tyr375Cys,ENST00000340107,;FGFR3,intron_variant,,ENST00000352904,;FGFR3,intron_variant,,ENST00000412135,;FGFR3,downstream_gene_variant,,ENST00000507588,;FGFR3,downstream_gene_variant,,ENST00000474521,;FGFR3,upstream_gene_variant,,ENST00000469068,;	G	ENSG00000068078	ENST00000340107	Transcript	missense_variant	1380	1124	375	Y/C	tAt/tGt	CM960657,rs121913485,COSM718,COSM1666838	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	deleterious(0)	possibly_damaging(0.882)	9/18	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24416:SF128,hmmpanther:PTHR24416,PIRSF_domain:PIRSF000628	.	.	.	.	.	.	.	.	.	pathogenic	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.Y375C|c.1124A>G|16,SITE|p.Y373C|c.1118A>G|421,BUFFER|p.A369A|c.1107G>T|6,BUFFER|p.G370C|c.1108G>T|116,BUFFER|p.G372C|c.1114G>T|3,BUFFER|p.S373C|c.1117A>T|3,BUFFER|p.S371C|c.1111A>T|59	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGTATGCAG	byCluster	5	BLCA
ARAP2	0	.	GRCh37	4	36179490	36179490	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1816G>A	p.Val606Met	p.V606M	ENST00000303965	9/33	82	56	26	108	108	0	ARAP2,missense_variant,p.Val606Met,ENST00000303965,;ARAP2,non_coding_transcript_exon_variant,,ENST00000508066,;	T	ENSG00000047365	ENST00000303965	Transcript	missense_variant	2306	1816	606	V/M	Gtg/Atg	.	.	.	-1	ARAP2	HGNC	16924	protein_coding	YES	CCDS3441.1	ENSP00000302895	ARAP2_HUMAN	D6RAD6_HUMAN	UPI000013E917	.	deleterious(0.02)	possibly_damaging(0.903)	9/33	.	PROSITE_profiles:PS50003,hmmpanther:PTHR23180:SF228,hmmpanther:PTHR23180,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAACACAGTAA	.	5	BLCA
PCDHB7	0	.	GRCh37	5	140554489	140554489	+	Silent	SNP	G	G	A	rs782550160	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2073G>A	p.%3D	p.A691A	ENST00000231137	1/1	138	132	6	124	124	0	PCDHB7,synonymous_variant,p.%3D,ENST00000231137,;PCDHB8,upstream_gene_variant,,ENST00000239444,;	A	ENSG00000113212	ENST00000231137	Transcript	synonymous_variant	2247	2073	691	A	gcG/gcA	rs782550160	.	.	1	PCDHB7	HGNC	8692	protein_coding	YES	CCDS4249.1	ENSP00000231137	PCDB7_HUMAN	.	UPI00001273E3	.	.	.	1/1	.	hmmpanther:PTHR24028:SF69,hmmpanther:PTHR24028,Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGGCGTTGGC	.	2	BLCA
PCDHGA2	0	.	GRCh37	5	140720764	140720764	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2226C>T	p.%3D	p.G742G	ENST00000394576	1/4	126	68	57	170	170	0	PCDHGA2,synonymous_variant,p.%3D,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA3,upstream_gene_variant,,ENST00000253812,;PCDHGA2,non_coding_transcript_exon_variant,,ENST00000528330,;	T	ENSG00000081853	ENST00000394576	Transcript	synonymous_variant	2226	2226	742	G	ggC/ggT	COSM3851677,COSM3851676	.	.	1	PCDHGA2	HGNC	8700	protein_coding	YES	CCDS47289.1	ENSP00000378077	PCDG2_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000072E67	.	.	.	1/4	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF109	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGGCGTGGA	.	5	BLCA
LCP2	0	.	GRCh37	5	169701311	169701311	+	Silent	SNP	C	C	T	rs371208606	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318G>A	p.%3D	p.S106S	ENST00000046794	6/21	24	18	6	26	26	0	LCP2,synonymous_variant,p.%3D,ENST00000046794,;LCP2,non_coding_transcript_exon_variant,,ENST00000519594,;LCP2,non_coding_transcript_exon_variant,,ENST00000522760,;LCP2,downstream_gene_variant,,ENST00000522823,;	T	ENSG00000043462	ENST00000046794	Transcript	synonymous_variant	934	318	106	S	tcG/tcA	rs371208606	.	.	-1	LCP2	HGNC	6529	protein_coding	YES	CCDS47339.1	ENSP00000046794	LCP2_HUMAN	.	UPI000012E2AE	.	.	.	6/21	.	hmmpanther:PTHR14098,hmmpanther:PTHR14098:SF1	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGACGACCA	byFrequency|byCluster	5	BLCA
STXBP5	0	.	GRCh37	6	147560375	147560375	+	Missense_Mutation	SNP	A	A	G	rs756936155	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.400A>G	p.Ile134Val	p.I134V	ENST00000321680	4/28	113	66	47	92	92	0	STXBP5,missense_variant,p.Ile134Val,ENST00000321680,;STXBP5,missense_variant,p.Ile134Val,ENST00000367480,;STXBP5,missense_variant,p.Ile134Val,ENST00000546097,;STXBP5,missense_variant,p.Ile134Val,ENST00000367481,;STXBP5,5_prime_UTR_variant,,ENST00000179882,;	G	ENSG00000164506	ENST00000321680	Transcript	missense_variant	400	400	134	I/V	Ata/Gta	rs756936155	.	.	1	STXBP5	HGNC	19665	protein_coding	YES	CCDS47499.1	ENSP00000321826	STXB5_HUMAN	.	UPI0000199FE0	.	tolerated(0.49)	benign(0)	4/28	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR10241,hmmpanther:PTHR10241:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCCATACTA	byFrequency	5	BLCA
VARS2	0	.	GRCh37	6	30890956	30890956	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2351G>A	p.Arg784His	p.R784H	ENST00000541562	24/30	109	46	63	107	107	0	VARS2,missense_variant,p.Arg754His,ENST00000321897,;VARS2,missense_variant,p.Arg614His,ENST00000542001,;VARS2,missense_variant,p.Arg784His,ENST00000541562,;VARS2,missense_variant,p.Arg754His,ENST00000416670,;VARS2,non_coding_transcript_exon_variant,,ENST00000476162,;VARS2,non_coding_transcript_exon_variant,,ENST00000477052,;VARS2,non_coding_transcript_exon_variant,,ENST00000469358,;VARS2,non_coding_transcript_exon_variant,,ENST00000477288,;VARS2,upstream_gene_variant,,ENST00000473916,;	A	ENSG00000137411	ENST00000541562	Transcript	missense_variant	2432	2351	784	R/H	cGc/cAc	COSM73246	.	.	1	VARS2	HGNC	21642	protein_coding	YES	CCDS54980.1	ENSP00000441000	SYVM_HUMAN	B7ZCJ6_HUMAN,A2ABL6_HUMAN	UPI0001BDAB0F	.	deleterious(0)	probably_damaging(0.993)	24/30	.	Superfamily_domains:SSF47323,Gene3D:1.10.730.10,TIGRFAM_domain:TIGR00422,hmmpanther:PTHR11946:SF71,hmmpanther:PTHR11946	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTCGCTTTA	.	5	BLCA
KCNQ5	0	.	GRCh37	6	73843305	73843305	+	Missense_Mutation	SNP	G	G	A	rs766811320	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1466G>A	p.Arg489Gln	p.R489Q	ENST00000342056	11/15	48	36	11	72	72	0	KCNQ5,missense_variant,p.Arg62Gln,ENST00000427928,;KCNQ5,missense_variant,p.Arg489Gln,ENST00000342056,;KCNQ5,missense_variant,p.Arg480Gln,ENST00000402622,;KCNQ5,missense_variant,p.Arg470Gln,ENST00000355194,;KCNQ5,missense_variant,p.Arg470Gln,ENST00000370398,;KCNQ5,missense_variant,p.Arg471Gln,ENST00000355635,;KCNQ5,missense_variant,p.Arg461Gln,ENST00000403813,;KCNQ5,intron_variant,,ENST00000414165,;KCNQ5-AS1,downstream_gene_variant,,ENST00000429832,;	A	ENSG00000185760	ENST00000342056	Transcript	missense_variant	1864	1466	489	R/Q	cGa/cAa	rs766811320	.	.	1	KCNQ5	HGNC	6299	protein_coding	YES	CCDS55034.1	ENSP00000345055	.	A6PVT6_HUMAN	UPI000155D644	.	deleterious(0.01)	probably_damaging(0.964)	11/15	.	Pfam_domain:PF03520	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	CGACCGAACCC	.	4	BLCA
PNISR	0	.	GRCh37	6	99854026	99854026	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>A	p.Glu295Lys	p.E295K	ENST00000369239	8/12	56	46	9	49	49	0	PNISR,missense_variant,p.Glu295Lys,ENST00000369239,;PNISR,missense_variant,p.Glu295Lys,ENST00000438806,;PNISR,upstream_gene_variant,,ENST00000481229,;PNISR,downstream_gene_variant,,ENST00000463021,;PNISR,upstream_gene_variant,,ENST00000476159,;PNISR,downstream_gene_variant,,ENST00000492294,;PNISR,upstream_gene_variant,,ENST00000460600,;PNISR,missense_variant,p.Glu295Lys,ENST00000478777,;	T	ENSG00000132424	ENST00000369239	Transcript	missense_variant	1088	883	295	E/K	Gaa/Aaa	COSM1547191	.	.	-1	PNISR	HGNC	21222	protein_coding	YES	CCDS5043.1	ENSP00000358242	PNISR_HUMAN	Q8TEZ9_HUMAN	UPI000013E3A2	.	tolerated(0.09)	possibly_damaging(0.626)	8/12	.	hmmpanther:PTHR31518:SF2,hmmpanther:PTHR31518,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTCTTCTT	.	4	BLCA
SLC12A9	0	.	GRCh37	7	100451804	100451804	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-16C>G	.	.	ENST00000354161	2/14	36	24	12	59	59	0	SLC12A9,5_prime_UTR_variant,,ENST00000354161,;SLC12A9,5_prime_UTR_variant,,ENST00000416675,;SLC12A9,5_prime_UTR_variant,,ENST00000275729,;SLC12A9,5_prime_UTR_variant,,ENST00000415287,;SLC12A9,5_prime_UTR_variant,,ENST00000434158,;SLC12A9,5_prime_UTR_variant,,ENST00000428758,;SLC12A9,5_prime_UTR_variant,,ENST00000540482,;SLC12A9,intron_variant,,ENST00000418037,;RP11-126L15.4,upstream_gene_variant,,ENST00000412754,;SLC12A9,intron_variant,,ENST00000461016,;SLC12A9,upstream_gene_variant,,ENST00000475623,;SLC12A9,non_coding_transcript_exon_variant,,ENST00000462106,;SLC12A9,intron_variant,,ENST00000448342,;SLC12A9,upstream_gene_variant,,ENST00000487651,;SLC12A9,upstream_gene_variant,,ENST00000467972,;SLC12A9,upstream_gene_variant,,ENST00000475687,;SLC12A9,upstream_gene_variant,,ENST00000497958,;	G	ENSG00000146828	ENST00000354161	Transcript	5_prime_UTR_variant	110	.	.	.	.	.	.	.	1	SLC12A9	HGNC	17435	protein_coding	YES	CCDS5707.1	ENSP00000275730	S12A9_HUMAN	D6W5X5_HUMAN,D6W5X3_HUMAN,C9JMQ7_HUMAN,C9J0I5_HUMAN	UPI000006CD28	.	.	.	2/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCTACCT	.	5	BLCA
POT1	0	.	GRCh37	7	124487052	124487052	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.950G>T	p.Ser317Ile	p.S317I	ENST00000357628	12/19	43	28	15	44	44	0	POT1,missense_variant,p.Ser317Ile,ENST00000357628,;POT1,missense_variant,p.Ser186Ile,ENST00000393329,;POT1,downstream_gene_variant,,ENST00000610141,;POT1,upstream_gene_variant,,ENST00000608200,;POT1,missense_variant,p.Ser317Ile,ENST00000607932,;POT1,missense_variant,p.Ser317Ile,ENST00000609106,;POT1,splice_region_variant,,ENST00000608057,;POT1,upstream_gene_variant,,ENST00000466483,;POT1,downstream_gene_variant,,ENST00000608126,;	A	ENSG00000128513	ENST00000357628	Transcript	missense_variant	1549	950	317	S/I	aGc/aTc	.	.	.	-1	POT1	HGNC	17284	protein_coding	YES	CCDS5793.1	ENSP00000350249	POTE1_HUMAN	C9JPG9_HUMAN,A8MTK3_HUMAN	UPI0000073E3F	.	tolerated(0.14)	possibly_damaging(0.723)	12/19	.	hmmpanther:PTHR14513:SF2,hmmpanther:PTHR14513	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CAGAGCCTATA	.	3	BLCA
MIR129-1	0	.	GRCh37	7	127847998	127847998	+	3'Flank	SNP	C	C	T	rs773386992	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000384972	.	34	30	4	30	30	0	MIR129-1,downstream_gene_variant,,ENST00000384972,;	T	ENSG00000207705	ENST00000384972	Transcript	downstream_gene_variant	.	.	.	.	.	rs773386992	.	2	1	MIR129-1	HGNC	31512	miRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	ATCTGCGGGAG	.	2	BLCA
CALD1	0	.	GRCh37	7	134642974	134642974	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1994C>T	p.Ser665Leu	p.S665L	ENST00000361675	11/15	124	76	47	137	137	0	CALD1,missense_variant,p.Ser430Leu,ENST00000393118,;CALD1,missense_variant,p.Ser410Leu,ENST00000361901,;CALD1,missense_variant,p.Ser435Leu,ENST00000422748,;CALD1,missense_variant,p.Ser665Leu,ENST00000361675,;CALD1,missense_variant,p.Ser415Leu,ENST00000543443,;CALD1,missense_variant,p.Ser429Leu,ENST00000495522,;CALD1,missense_variant,p.Ser410Leu,ENST00000417172,;CALD1,missense_variant,p.Ser436Leu,ENST00000361388,;CALD1,missense_variant,p.Ser404Leu,ENST00000424922,;CALD1,missense_variant,p.Ser410Leu,ENST00000436461,;CALD1,non_coding_transcript_exon_variant,,ENST00000466704,;CALD1,missense_variant,p.Ser404Leu,ENST00000443197,;CALD1,3_prime_UTR_variant,,ENST00000430085,;CALD1,non_coding_transcript_exon_variant,,ENST00000482470,;CALD1,upstream_gene_variant,,ENST00000473714,;	T	ENSG00000122786	ENST00000361675	Transcript	missense_variant	2223	1994	665	S/L	tCg/tTg	COSM274369	.	.	1	CALD1	HGNC	1441	protein_coding	YES	CCDS5835.1	ENSP00000354826	CALD1_HUMAN	Q7Z2Y9_HUMAN,C9JE79_HUMAN,B4E3I0_HUMAN	UPI0000140A64	.	tolerated(0.14)	benign(0.134)	11/15	.	hmmpanther:PTHR18949:SF0,hmmpanther:PTHR18949,Pfam_domain:PF02029,Prints_domain:PR01076	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATCGACCC	.	5	BLCA
PPP1R9A	0	.	GRCh37	7	94827700	94827700	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1794G>T	p.Glu598Asp	p.E598D	ENST00000433360	6/20	90	61	28	70	70	0	PPP1R9A,missense_variant,p.Glu598Asp,ENST00000433360,;PPP1R9A,missense_variant,p.Glu598Asp,ENST00000424654,;PPP1R9A,missense_variant,p.Glu598Asp,ENST00000433881,;PPP1R9A,missense_variant,p.Glu598Asp,ENST00000456331,;PPP1R9A,missense_variant,p.Glu598Asp,ENST00000289495,;PPP1R9A,missense_variant,p.Glu598Asp,ENST00000340694,;AC002429.5,intron_variant,,ENST00000417881,;	T	ENSG00000158528	ENST00000433360	Transcript	missense_variant	2076	1794	598	E/D	gaG/gaT	.	.	.	1	PPP1R9A	HGNC	14946	protein_coding	YES	CCDS55127.1	ENSP00000405514	NEB1_HUMAN	C9J730_HUMAN,C9J3G5_HUMAN	UPI000198CF27	.	deleterious(0)	probably_damaging(0.988)	6/20	.	hmmpanther:PTHR16154:SF22,hmmpanther:PTHR16154	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGAGGTTGC	.	5	BLCA
KCNQ3	0	.	GRCh37	8	133153471	133153471	+	Missense_Mutation	SNP	G	G	T	rs147190128	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1370C>A	p.Pro457His	p.P457H	ENST00000388996	10/15	126	86	40	102	102	0	KCNQ3,missense_variant,p.Pro337His,ENST00000521134,;KCNQ3,missense_variant,p.Pro457His,ENST00000388996,;KCNQ3,missense_variant,p.Pro457His,ENST00000519445,;KCNQ3,non_coding_transcript_exon_variant,,ENST00000519589,;	T	ENSG00000184156	ENST00000388996	Transcript	missense_variant	1791	1370	457	P/H	cCt/cAt	rs147190128	.	.	-1	KCNQ3	HGNC	6297	protein_coding	YES	CCDS34943.1	ENSP00000373648	KCNQ3_HUMAN	.	UPI00001279F0	.	deleterious(0)	probably_damaging(0.995)	10/15	.	Pfam_domain:PF03520	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGAAGGACTT	byCluster	5	BLCA
C8orf82	0	.	GRCh37	8	145753321	145753321	+	Intron	SNP	G	G	T	rs764493679	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.205+87C>A	.	.	ENST00000524821	.	27	20	7	24	24	0	C8orf82,3_prime_UTR_variant,,ENST00000313465,;C8orf82,intron_variant,,ENST00000532827,;C8orf82,intron_variant,,ENST00000524821,;ARHGAP39,downstream_gene_variant,,ENST00000276826,;LRRC24,upstream_gene_variant,,ENST00000529415,;LRRC24,upstream_gene_variant,,ENST00000533758,;C8orf82,downstream_gene_variant,,ENST00000527462,;ARHGAP39,downstream_gene_variant,,ENST00000540274,;LRRC14,downstream_gene_variant,,ENST00000292524,;ARHGAP39,downstream_gene_variant,,ENST00000377307,;LRRC14,downstream_gene_variant,,ENST00000528528,;LRRC14,downstream_gene_variant,,ENST00000530242,;LRRC14,downstream_gene_variant,,ENST00000529995,;C8orf82,intron_variant,,ENST00000534680,;	T	ENSG00000213563	ENST00000524821	Transcript	intron_variant	.	.	.	.	.	rs764493679	.	.	-1	C8orf82	HGNC	33826	protein_coding	YES	CCDS34970.1	ENSP00000436621	CH082_HUMAN	.	UPI000006EE1C	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GGTGCGCTGGG	.	4	BLCA
MICU3	0	.	GRCh37	8	16963025	16963025	+	Nonsense_Mutation	SNP	C	C	T	rs762531405	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1189C>T	p.Arg397Ter	p.R397*	ENST00000318063	11/15	57	52	5	67	67	0	MICU3,stop_gained,p.Arg242Ter,ENST00000519044,;MICU3,stop_gained,p.Arg397Ter,ENST00000318063,;MICU3,non_coding_transcript_exon_variant,,ENST00000519866,;	T	ENSG00000155970	ENST00000318063	Transcript	stop_gained	1231	1189	397	R/*	Cga/Tga	rs762531405	.	.	1	MICU3	HGNC	27820	protein_coding	YES	CCDS5999.1	ENSP00000321455	MICU3_HUMAN	.	UPI000000DAE7	.	.	.	11/15	.	hmmpanther:PTHR12294,hmmpanther:PTHR12294:SF10,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTTACGATAT	.	3	BLCA
RP1	0	.	GRCh37	8	55540138	55540138	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3696C>T	p.%3D	p.I1232I	ENST00000220676	4/4	153	147	6	102	102	0	RP1,synonymous_variant,p.%3D,ENST00000220676,;	T	ENSG00000104237	ENST00000220676	Transcript	synonymous_variant	3844	3696	1232	I	atC/atT	.	.	.	1	RP1	HGNC	10263	protein_coding	YES	CCDS6160.1	ENSP00000220676	RP1_HUMAN	A0FDN2_HUMAN	UPI000013455B	.	.	.	4/4	.	hmmpanther:PTHR23005:SF4,hmmpanther:PTHR23005	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGAATCTCCTC	.	2	BLCA
SLC26A7	0	.	GRCh37	8	92350397	92350411	+	In_Frame_Del	DEL	CTTGTTATTGCACCA	CTTGTTATTGCACCA	-	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	CTTGTTATTGCACCA	CTTGTTATTGCACCA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.815_829delCTTGTTATTGCACCA	p.Ala272_Asn277delinsAsp	p.A272_N277delinsD	ENST00000309536	7/19	59	45	14	76	76	0	SLC26A7,inframe_deletion,p.Ala140_Asn145delinsAsp,ENST00000520818,;SLC26A7,inframe_deletion,p.Ala272_Asn277delinsAsp,ENST00000276609,;SLC26A7,inframe_deletion,p.Ala272_Asn277delinsAsp,ENST00000309536,;SLC26A7,inframe_deletion,p.Ala272_Asn277delinsAsp,ENST00000523719,;SLC26A7,upstream_gene_variant,,ENST00000520249,;SLC26A7,intron_variant,,ENST00000522181,;	-	ENSG00000147606	ENST00000309536	Transcript	inframe_deletion	1035-1049	815-829	272-277	ACYCTN/D	gCTTGTTATTGCACCAat/gat	.	.	.	1	SLC26A7	HGNC	14467	protein_coding	YES	CCDS6255.1	ENSP00000309504	S26A7_HUMAN	E5RFH2_HUMAN	UPI0000046B1C	.	.	.	7/19	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11814:SF75,hmmpanther:PTHR11814,Pfam_domain:PF00916	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	CATTTGCTTGTTATTGCACCAATATG	.	2	BLCA
SVEP1	0	.	GRCh37	9	113170982	113170982	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6898A>C	p.Ser2300Arg	p.S2300R	ENST00000401783	38/48	82	77	5	82	82	0	SVEP1,missense_variant,p.Ser2300Arg,ENST00000401783,;SVEP1,missense_variant,p.Ser2277Arg,ENST00000374469,;SVEP1,missense_variant,p.Ser226Arg,ENST00000297826,;	G	ENSG00000165124	ENST00000401783	Transcript	missense_variant	7235	6898	2300	S/R	Agt/Cgt	.	.	.	-1	SVEP1	HGNC	15985	protein_coding	YES	CCDS48004.1	ENSP00000384917	SVEP1_HUMAN	.	UPI000153DA74	.	.	benign(0.148)	38/48	.	Superfamily_domains:SSF57535,SMART_domains:SM00032,Gene3D:2.10.70.10,Pfam_domain:PF00084,hmmpanther:PTHR19325,hmmpanther:PTHR19325:SF43,PROSITE_profiles:PS50923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAACTGTCAC	.	2	BLCA
CAMSAP1	0	.	GRCh37	9	138712777	138712777	+	Missense_Mutation	SNP	G	G	C	rs768810915	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3730C>G	p.Pro1244Ala	p.P1244A	ENST00000389532	11/17	33	26	7	41	41	0	CAMSAP1,missense_variant,p.Pro1244Ala,ENST00000389532,;CAMSAP1,missense_variant,p.Pro966Ala,ENST00000312405,;CAMSAP1,missense_variant,p.Pro1255Ala,ENST00000409386,;CAMSAP1,non_coding_transcript_exon_variant,,ENST00000483991,;CAMSAP1,upstream_gene_variant,,ENST00000493088,;CAMSAP1,upstream_gene_variant,,ENST00000482664,;CAMSAP1,upstream_gene_variant,,ENST00000487868,;	C	ENSG00000130559	ENST00000389532	Transcript	missense_variant	3795	3730	1244	P/A	Ccc/Gcc	rs768810915	.	.	-1	CAMSAP1	HGNC	19946	protein_coding	YES	CCDS35176.2	ENSP00000374183	CAMP1_HUMAN	.	UPI0000EDA283	.	deleterious(0)	possibly_damaging(0.542)	11/17	.	hmmpanther:PTHR21595,hmmpanther:PTHR21595:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCGGGGGCCT	byFrequency	5	BLCA
PAX5	0	.	GRCh37	9	37034032	37034032	+	5'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4C>T	.	.	ENST00000358127	1/10	33	30	3	62	62	0	PAX5,5_prime_UTR_variant,,ENST00000377852,;PAX5,5_prime_UTR_variant,,ENST00000520154,;PAX5,5_prime_UTR_variant,,ENST00000377853,;PAX5,5_prime_UTR_variant,,ENST00000358127,;PAX5,5_prime_UTR_variant,,ENST00000523241,;PAX5,upstream_gene_variant,,ENST00000377847,;PAX5,upstream_gene_variant,,ENST00000523145,;PAX5,upstream_gene_variant,,ENST00000446742,;PAX5,upstream_gene_variant,,ENST00000522003,;PAX5,upstream_gene_variant,,ENST00000414447,;PAX5,upstream_gene_variant,,ENST00000520281,;PAX5,5_prime_UTR_variant,,ENST00000377840,;PAX5,upstream_gene_variant,,ENST00000523493,;	A	ENSG00000196092	ENST00000358127	Transcript	5_prime_UTR_variant	72	.	.	.	.	.	.	.	-1	PAX5	HGNC	8619	protein_coding	YES	CCDS6607.1	ENSP00000350844	PAX5_HUMAN	E7ERK2_HUMAN,C0KTE1_HUMAN	UPI000013136C	.	.	.	1/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.?|c.1-?_910+?del|3	MUTECT|MUSE	ATTTTGATTTT	.	2	BLCA
DMRT1	0	.	GRCh37	9	847049	847049	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.444A>C	p.Lys148Asn	p.K148N	ENST00000382276	2/5	35	10	25	51	51	0	DMRT1,missense_variant,p.Lys148Asn,ENST00000382276,;DMRT1,5_prime_UTR_variant,,ENST00000569227,;DMRT1,non_coding_transcript_exon_variant,,ENST00000564322,;	C	ENSG00000137090	ENST00000382276	Transcript	missense_variant	593	444	148	K/N	aaA/aaC	.	.	.	1	DMRT1	HGNC	2934	protein_coding	YES	CCDS6442.1	ENSP00000371711	DMRT1_HUMAN	H3BN61_HUMAN	UPI00000008AC	.	deleterious(0)	probably_damaging(0.997)	2/5	.	hmmpanther:PTHR12322:SF64,hmmpanther:PTHR12322,Pfam_domain:PF12374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCAAAAGAGA	.	5	BLCA
RGAG1	0	.	GRCh37	X	109695650	109695650	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1805C>A	p.Ser602Tyr	p.S602Y	ENST00000465301	3/4	146	125	21	107	107	0	RGAG1,missense_variant,p.Ser602Tyr,ENST00000540313,;RGAG1,missense_variant,p.Ser602Tyr,ENST00000465301,;RGAG1,downstream_gene_variant,,ENST00000520821,;	A	ENSG00000243978	ENST00000465301	Transcript	missense_variant	2051	1805	602	S/Y	tCc/tAc	.	.	.	1	RGAG1	HGNC	29245	protein_coding	YES	CCDS14552.1	ENSP00000419786	RGAG1_HUMAN	E5RKA1_HUMAN	UPI000006F841	.	deleterious(0)	probably_damaging(0.957)	3/4	.	hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF42	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGTCCTGTC	.	4	BLCA
STAG2	0	.	GRCh37	X	123202462	123202462	+	Missense_Mutation	SNP	T	T	C	rs762388218	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2314T>C	p.Cys772Arg	p.C772R	ENST00000218089	24/35	223	133	90	170	170	0	STAG2,missense_variant,p.Cys772Arg,ENST00000371160,;STAG2,missense_variant,p.Cys703Arg,ENST00000354548,;STAG2,missense_variant,p.Cys772Arg,ENST00000371157,;STAG2,missense_variant,p.Cys772Arg,ENST00000371144,;STAG2,missense_variant,p.Cys772Arg,ENST00000218089,;STAG2,missense_variant,p.Cys772Arg,ENST00000371145,;STAG2,intron_variant,,ENST00000469481,;STAG2,downstream_gene_variant,,ENST00000466748,;	C	ENSG00000101972	ENST00000218089	Transcript	missense_variant	2824	2314	772	C/R	Tgt/Cgt	rs762388218,COSM1735712	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	deleterious(0)	probably_damaging(0.983)	24/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATATGTCAA	.	5	BLCA
ZNF449	0	.	GRCh37	X	134482911	134482911	+	Intron	SNP	A	A	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.355-124A>T	.	.	ENST00000339249	.	20	17	3	33	33	0	ZNF449,3_prime_UTR_variant,,ENST00000370761,;ZNF449,intron_variant,,ENST00000339249,;ZNF449,downstream_gene_variant,,ENST00000370760,;ZNF75D,upstream_gene_variant,,ENST00000370766,;ZNF75D,upstream_gene_variant,,ENST00000494295,;	T	ENSG00000173275	ENST00000339249	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ZNF449	HGNC	21039	protein_coding	YES	CCDS14649.1	ENSP00000339585	ZN449_HUMAN	Q7Z3P1_HUMAN	UPI000013F1DE	.	.	.	.	2/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTTACTTTT	.	2	BLCA
DDX26B	0	.	GRCh37	X	134654825	134654825	+	5'UTR	SNP	C	C	A	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-93C>A	.	.	ENST00000370752	1/17	53	48	5	63	63	0	DDX26B,5_prime_UTR_variant,,ENST00000370752,;DDX26B-AS1,upstream_gene_variant,,ENST00000430820,;DDX26B,non_coding_transcript_exon_variant,,ENST00000481908,;DDX26B,upstream_gene_variant,,ENST00000493637,;	A	ENSG00000165359	ENST00000370752	Transcript	5_prime_UTR_variant	242	.	.	.	.	.	.	.	1	DDX26B	HGNC	27334	protein_coding	YES	CCDS35401.1	ENSP00000359788	DX26B_HUMAN	.	UPI00004A3AAF	.	.	.	1/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCCGGCTCTGC	.	3	BLCA
F9	0	.	GRCh37	X	138643822	138643822	+	Silent	SNP	G	G	T	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.978G>T	p.%3D	p.V326V	ENST00000218099	8/8	165	145	20	142	142	0	F9,synonymous_variant,p.%3D,ENST00000394090,;F9,synonymous_variant,p.%3D,ENST00000218099,;	T	ENSG00000101981	ENST00000218099	Transcript	synonymous_variant	985	978	326	V	gtG/gtT	COSM384170	.	.	1	F9	HGNC	3551	protein_coding	YES	CCDS14666.1	ENSP00000218099	FA9_HUMAN	Q86XR9_HUMAN,Q19UL6_HUMAN,Q19UK7_HUMAN,Q19UK5_HUMAN,Q19UK4_HUMAN,Q19UK3_HUMAN,Q19UI2_HUMAN,Q19UH6_HUMAN,Q19UG6_HUMAN	UPI000002BA13	.	.	.	8/8	.	PROSITE_profiles:PS50240,hmmpanther:PTHR24265,hmmpanther:PTHR24265:SF23,Pfam_domain:PF00089,Gene3D:2.40.10.10,PIRSF_domain:PIRSF001143,SMART_domains:SM00020,Superfamily_domains:SSF50494	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAGTGCTAAA	.	4	BLCA
PLXNB3	0	.	GRCh37	X	153039009	153039009	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3189A>G	p.%3D	p.L1063L	ENST00000538966	20/37	43	27	16	74	74	0	PLXNB3,synonymous_variant,p.%3D,ENST00000538282,;PLXNB3,synonymous_variant,p.%3D,ENST00000538966,;PLXNB3,synonymous_variant,p.%3D,ENST00000538776,;PLXNB3,synonymous_variant,p.%3D,ENST00000361971,;PLXNB3,downstream_gene_variant,,ENST00000538543,;PLXNB3,upstream_gene_variant,,ENST00000411613,;PLXNB3,upstream_gene_variant,,ENST00000455214,;PLXNB3,upstream_gene_variant,,ENST00000448847,;SRPK3,upstream_gene_variant,,ENST00000489426,;PLXNB3,upstream_gene_variant,,ENST00000472415,;PLXNB3,upstream_gene_variant,,ENST00000469190,;PLXNB3,upstream_gene_variant,,ENST00000482654,;PLXNB3,upstream_gene_variant,,ENST00000485980,;	G	ENSG00000198753	ENST00000538966	Transcript	synonymous_variant	3460	3189	1063	L	ctA/ctG	.	.	.	1	PLXNB3	HGNC	9105	protein_coding	YES	CCDS55536.1	ENSP00000442736	PLXB3_HUMAN	.	UPI0001AFF680	.	.	.	20/37	.	hmmpanther:PTHR22625,hmmpanther:PTHR22625:SF33,Gene3D:2.60.40.10,SMART_domains:SM00429,Superfamily_domains:SSF81296	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCTAGACGT	.	5	BLCA
F8	0	.	GRCh37	X	154157720	154157720	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4345G>T	p.Glu1449Ter	p.E1449*	ENST00000360256	14/26	190	126	63	175	175	0	F8,stop_gained,p.Glu1449Ter,ENST00000360256,;	A	ENSG00000185010	ENST00000360256	Transcript	stop_gained	4546	4345	1449	E/*	Gaa/Taa	CM094293	.	.	-1	F8	HGNC	3546	protein_coding	YES	CCDS35457.1	ENSP00000353393	FA8_HUMAN	Q9UQQ5_HUMAN,Q71UI6_HUMAN,Q2VF45_HUMAN,Q003V9_HUMAN,Q003V5_HUMAN,A0FJ19_HUMAN,A0A2G6_HUMAN	UPI000012A416	.	.	.	14/26	.	hmmpanther:PTHR10127:SF50,hmmpanther:PTHR10127,PIRSF_domain:PIRSF000354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTTGGA	.	5	BLCA
MAGEB16	0	.	GRCh37	X	35820879	35820879	+	Missense_Mutation	SNP	C	C	T	rs754132440	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.566C>T	p.Thr189Ile	p.T189I	ENST00000399989	2/2	88	79	9	83	83	0	MAGEB16,missense_variant,p.Thr189Ile,ENST00000399987,;MAGEB16,missense_variant,p.Thr221Ile,ENST00000399992,;MAGEB16,missense_variant,p.Thr189Ile,ENST00000399988,;MAGEB16,missense_variant,p.Thr189Ile,ENST00000399985,;MAGEB16,missense_variant,p.Thr189Ile,ENST00000399989,;	T	ENSG00000189023	ENST00000399989	Transcript	missense_variant	845	566	189	T/I	aCc/aTc	rs754132440	.	.	1	MAGEB16	HGNC	21188	protein_coding	YES	CCDS43927.1	ENSP00000382871	MAGBG_HUMAN	.	UPI00006C1BC1	.	deleterious(0.01)	probably_damaging(1)	2/2	.	PROSITE_profiles:PS50838,hmmpanther:PTHR11736:SF24,hmmpanther:PTHR11736,Pfam_domain:PF01454	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCACCTATG	byFrequency	4	BLCA
KDM6A	0	.	GRCh37	X	44870265	44870266	+	Splice_Site	INS	-	-	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443+2dupT	.	p.X148_splice	ENST00000377967	.	86	64	22	34	34	0	KDM6A,splice_donor_variant,,ENST00000543216,;KDM6A,splice_donor_variant,,ENST00000382899,;KDM6A,splice_donor_variant,,ENST00000377967,;KDM6A,splice_donor_variant,,ENST00000536777,;KDM6A,splice_donor_variant,,ENST00000475233,;	T	ENSG00000147050	ENST00000377967	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	.	5/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.0?|c.1_4206del4206|5,BUFFER|p.0|c.226_654del429|3	INDELOCATOR*|VARSCANI*|PINDEL	CAGTGGTAAGT	.	3	BLCA
KIAA2022	0	.	GRCh37	X	73961744	73961744	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2648G>A	p.Ser883Asn	p.S883N	ENST00000055682	3/4	66	37	29	74	74	0	KIAA2022,missense_variant,p.Ser883Asn,ENST00000055682,;KIAA2022,upstream_gene_variant,,ENST00000424929,;	T	ENSG00000050030	ENST00000055682	Transcript	missense_variant	3260	2648	883	S/N	aGc/aAc	.	.	.	-1	KIAA2022	HGNC	29433	protein_coding	YES	CCDS35337.1	ENSP00000055682	K2022_HUMAN	.	UPI00001C207B	.	tolerated(0.27)	benign(0.003)	3/4	.	hmmpanther:PTHR10322:SF2,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTTGCTTGAT	.	5	BLCA
PCDH19	0	.	GRCh37	X	99662022	99662022	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-A9RE-01A-11D-A38G-08	TCGA-ZF-A9RE-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1574A>G	p.Gln525Arg	p.Q525R	ENST00000373034	1/6	145	98	46	166	166	0	PCDH19,missense_variant,p.Gln525Arg,ENST00000420881,;PCDH19,missense_variant,p.Gln525Arg,ENST00000255531,;PCDH19,missense_variant,p.Gln525Arg,ENST00000373034,;	C	ENSG00000165194	ENST00000373034	Transcript	missense_variant	3250	1574	525	Q/R	cAg/cGg	.	.	.	-1	PCDH19	HGNC	14270	protein_coding	YES	CCDS55462.1	ENSP00000362125	PCD19_HUMAN	.	UPI00001D7BCD	.	deleterious(0.01)	possibly_damaging(0.752)	1/6	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF40,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTCTGCTCG	.	5	BLCA
SEC31B	0	.	GRCh37	10	102269090	102269090	+	Missense_Mutation	SNP	C	C	G	rs777099064	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382G>C	p.Asp128His	p.D128H	ENST00000370345	4/26	174	157	17	220	220	0	SEC31B,missense_variant,p.Asp128His,ENST00000370329,;SEC31B,missense_variant,p.Asp128His,ENST00000370345,;SEC31B,missense_variant,p.Asp128His,ENST00000451524,;NDUFB8,intron_variant,,ENST00000531258,;SEC31B,intron_variant,,ENST00000535773,;SEC31B,missense_variant,p.Asp128His,ENST00000469546,;SEC31B,missense_variant,p.Asp128His,ENST00000462434,;NDUFB8,3_prime_UTR_variant,,ENST00000529568,;NDUFB8,intron_variant,,ENST00000527595,;NDUFB8,intron_variant,,ENST00000557395,;SEC31B,intron_variant,,ENST00000479697,;SEC31B,intron_variant,,ENST00000480905,;SEC31B,intron_variant,,ENST00000482456,;SEC31B,upstream_gene_variant,,ENST00000490567,;SEC31B,upstream_gene_variant,,ENST00000484848,;	G	ENSG00000075826	ENST00000370345	Transcript	missense_variant	480	382	128	D/H	Gac/Cac	rs777099064	.	.	-1	SEC31B	HGNC	23197	protein_coding	YES	CCDS7495.1	ENSP00000359370	SC31B_HUMAN	.	UPI0000070A8E	.	deleterious(0)	probably_damaging(0.988)	4/26	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,Pfam_domain:PF00400,hmmpanther:PTHR13923:SF22,hmmpanther:PTHR13923,PROSITE_profiles:PS50082,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAAGTCGAGGG	.	3	BLCA
TACC2	0	.	GRCh37	10	123847425	123847425	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5410C>T	p.His1804Tyr	p.H1804Y	ENST00000369005	4/23	43	33	9	35	35	0	TACC2,missense_variant,p.His1804Tyr,ENST00000369005,;TACC2,missense_variant,p.His1804Tyr,ENST00000453444,;TACC2,missense_variant,p.His1804Tyr,ENST00000334433,;TACC2,missense_variant,p.His1804Tyr,ENST00000515603,;TACC2,missense_variant,p.His1804Tyr,ENST00000515273,;TACC2,intron_variant,,ENST00000513429,;TACC2,intron_variant,,ENST00000358010,;TACC2,downstream_gene_variant,,ENST00000491540,;	T	ENSG00000138162	ENST00000369005	Transcript	missense_variant	5750	5410	1804	H/Y	Cac/Tac	.	.	.	1	TACC2	HGNC	11523	protein_coding	YES	CCDS7626.1	ENSP00000358001	TACC2_HUMAN	.	UPI0000246F6B	.	.	benign(0.05)	4/23	.	hmmpanther:PTHR13924,hmmpanther:PTHR13924:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCACGAC	.	5	BLCA
PTPRE	0	.	GRCh37	10	129845842	129845842	+	Intron	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.209+89G>A	.	.	ENST00000254667	.	28	20	8	59	59	0	PTPRE,5_prime_UTR_variant,,ENST00000306042,;PTPRE,intron_variant,,ENST00000430713,;PTPRE,intron_variant,,ENST00000254667,;PTPRE,intron_variant,,ENST00000471218,;PTPRE,intron_variant,,ENST00000442830,;PTPRE,intron_variant,,ENST00000455661,;PTPRE,intron_variant,,ENST00000467366,;PTPRE,intron_variant,,ENST00000419012,;PTPRE,upstream_gene_variant,,ENST00000479896,;PTPRE,upstream_gene_variant,,ENST00000487428,;PTPRE,upstream_gene_variant,,ENST00000495530,;	A	ENSG00000132334	ENST00000254667	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	PTPRE	HGNC	9669	protein_coding	YES	CCDS7657.1	ENSP00000254667	PTPRE_HUMAN	Q96P81_HUMAN,Q69YS2_HUMAN,Q5VWH6_HUMAN,Q5VWH5_HUMAN	UPI0000132991	.	.	.	.	4/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCAGAGGGC	.	5	BLCA
ECHS1	0	.	GRCh37	10	135184203	135184203	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147G>A	p.%3D	p.L49L	ENST00000368547	2/8	20	16	4	33	33	0	ECHS1,synonymous_variant,p.%3D,ENST00000368547,;MIR3944,downstream_gene_variant,,ENST00000581277,;	T	ENSG00000127884	ENST00000368547	Transcript	synonymous_variant	503	147	49	L	ttG/ttA	.	.	.	-1	ECHS1	HGNC	3151	protein_coding	YES	CCDS7681.1	ENSP00000357535	ECHM_HUMAN	.	UPI000013CC49	.	.	.	2/8	.	hmmpanther:PTHR11941,hmmpanther:PTHR11941:SF24,Pfam_domain:PF00378,Gene3D:3.90.226.10,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATCAACCC	.	4	BLCA
ACBD5	0	.	GRCh37	10	27497271	27497271	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1308C>T	p.%3D	p.L436L	ENST00000396271	10/13	75	63	12	109	109	0	ACBD5,synonymous_variant,p.%3D,ENST00000375905,;ACBD5,synonymous_variant,p.%3D,ENST00000375897,;ACBD5,synonymous_variant,p.%3D,ENST00000375901,;ACBD5,synonymous_variant,p.%3D,ENST00000375888,;ACBD5,synonymous_variant,p.%3D,ENST00000396271,;ACBD5,non_coding_transcript_exon_variant,,ENST00000476758,;	A	ENSG00000107897	ENST00000396271	Transcript	synonymous_variant	1435	1308	436	L	ctC/ctT	.	.	.	-1	ACBD5	HGNC	23338	protein_coding	YES	CCDS44368.1	ENSP00000379568	ACBD5_HUMAN	.	UPI000046FE2B	.	.	.	10/13	.	hmmpanther:PTHR23310,hmmpanther:PTHR23310:SF6,PIRSF_domain:PIRSF002412	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCATTGAGGCT	.	3	BLCA
ANK3	0	.	GRCh37	10	61868793	61868793	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2968delG	p.Val990TrpfsTer8	p.V990Wfs*8	ENST00000280772	27/44	44	40	4	51	51	0	ANK3,frameshift_variant,p.Val984TrpfsTer8,ENST00000373827,;ANK3,frameshift_variant,p.Val990TrpfsTer8,ENST00000280772,;ANK3,frameshift_variant,p.Val115TrpfsTer8,ENST00000513049,;ANK3,frameshift_variant,p.Val124TrpfsTer8,ENST00000355288,;ANK3,frameshift_variant,p.Val115TrpfsTer8,ENST00000373815,;ANK3,frameshift_variant,p.Val15TrpfsTer8,ENST00000467420,;ANK3,frameshift_variant,p.Val991TrpfsTer8,ENST00000503366,;	-	ENSG00000151150	ENST00000280772	Transcript	frameshift_variant	3160	2968	990	V/X	Gtg/tg	.	.	.	-1	ANK3	HGNC	494	protein_coding	YES	CCDS7258.1	ENSP00000280772	ANK3_HUMAN	D6RFK6_HUMAN,D6RBY7_HUMAN,B1AQT1_HUMAN	UPI0000141BA9	.	.	.	27/44	.	PROSITE_profiles:PS51145,hmmpanther:PTHR24123,hmmpanther:PTHR24123:SF15,Pfam_domain:PF00791,SMART_domains:SM00218	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	VARSCANI*|PINDEL	CGTCCACCATAA	.	2	BLCA
MYOF	0	.	GRCh37	10	95111296	95111296	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3696C>G	p.Phe1232Leu	p.F1232L	ENST00000359263	34/54	67	47	20	71	71	0	MYOF,missense_variant,p.Phe1232Leu,ENST00000371502,;MYOF,missense_variant,p.Phe1219Leu,ENST00000358334,;MYOF,missense_variant,p.Phe1232Leu,ENST00000371501,;MYOF,missense_variant,p.Phe1232Leu,ENST00000359263,;MYOF,missense_variant,p.Phe607Leu,ENST00000463743,;	C	ENSG00000138119	ENST00000359263	Transcript	missense_variant	3696	3696	1232	F/L	ttC/ttG	.	.	.	-1	MYOF	HGNC	3656	protein_coding	YES	CCDS41551.1	ENSP00000352208	MYOF_HUMAN	.	UPI000012FBA1	.	tolerated(0.06)	benign(0.002)	34/54	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF38,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGAAAAT	.	5	BLCA
TBC1D12	0	.	GRCh37	10	96162368	96162368	+	5'UTR	SNP	C	C	T	rs776687705	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3C>T	.	.	ENST00000225235	1/13	15	10	4	38	38	0	TBC1D12,5_prime_UTR_variant,,ENST00000225235,;	T	ENSG00000108239	ENST00000225235	Transcript	5_prime_UTR_variant	108	.	.	.	.	rs776687705	.	.	1	TBC1D12	HGNC	29082	protein_coding	YES	CCDS41553.1	ENSP00000225235	TBC12_HUMAN	B9A6L3_HUMAN	UPI00001C1ED6	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCCAGATG	byFrequency	5	BLCA
CYP2C19	0	.	GRCh37	10	96609733	96609733	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1209C>A	p.Asn403Lys	p.N403K	ENST00000371321	8/9	97	88	9	170	170	0	CYP2C19,missense_variant,p.Asn403Lys,ENST00000371321,;CYP2C19,non_coding_transcript_exon_variant,,ENST00000464755,;	A	ENSG00000165841	ENST00000371321	Transcript	missense_variant	1291	1209	403	N/K	aaC/aaA	.	.	.	1	CYP2C19	HGNC	2621	protein_coding	YES	CCDS7436.1	ENSP00000360372	CP2CJ_HUMAN	.	UPI000013DE1E	.	deleterious(0.04)	benign(0.415)	8/9	.	hmmpanther:PTHR24300,hmmpanther:PTHR24300:SF131,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264,Prints_domain:PR00463	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CCCAACCCAGA	.	3	BLCA
KIAA1377	0	.	GRCh37	11	101786074	101786074	+	Missense_Mutation	SNP	C	C	T	rs757955825	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>T	p.Ser20Leu	p.S20L	ENST00000263468	1/11	105	74	31	148	148	0	KIAA1377,missense_variant,p.Ser20Leu,ENST00000263468,;ANGPTL5,intron_variant,,ENST00000334289,;	T	ENSG00000110318	ENST00000263468	Transcript	missense_variant	329	59	20	S/L	tCg/tTg	rs757955825	.	.	1	KIAA1377	HGNC	29264	protein_coding	YES	CCDS31658.1	ENSP00000263468	K1377_HUMAN	F5H5S1_HUMAN	UPI0000160A3D	.	deleterious_low_confidence(0.02)	benign(0.322)	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L23L|c.69C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCGGACA	byFrequency	5	BLCA
AASDHPPT	0	.	GRCh37	11	105950307	105950307	+	Silent	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.297G>A	p.%3D	p.S99S	ENST00000278618	2/6	53	39	14	75	75	0	AASDHPPT,synonymous_variant,p.%3D,ENST00000278618,;AASDHPPT,synonymous_variant,p.%3D,ENST00000524411,;AASDHPPT,synonymous_variant,p.%3D,ENST00000533423,;KBTBD3,upstream_gene_variant,,ENST00000526793,;KBTBD3,upstream_gene_variant,,ENST00000534815,;KBTBD3,upstream_gene_variant,,ENST00000531837,;KBTBD3,upstream_gene_variant,,ENST00000532662,;AASDHPPT,synonymous_variant,p.%3D,ENST00000525660,;KBTBD3,upstream_gene_variant,,ENST00000526805,;KBTBD3,upstream_gene_variant,,ENST00000528483,;	A	ENSG00000149313	ENST00000278618	Transcript	synonymous_variant	519	297	99	S	tcG/tcA	COSM922543	.	.	1	AASDHPPT	HGNC	14235	protein_coding	YES	CCDS31664.1	ENSP00000278618	ADPPT_HUMAN	E9PNF3_HUMAN,E9PLW6_HUMAN	UPI0000034CAD	.	.	.	2/6	.	Superfamily_domains:SSF56214,Gene3D:3.90.470.20,hmmpanther:PTHR12215	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S99S|c.297G>A|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATCGAATCC	.	5	BLCA
AASDHPPT	0	.	GRCh37	11	105962117	105962117	+	Silent	SNP	A	A	C	rs765718892	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.606A>C	p.%3D	p.L202L	ENST00000278618	4/6	77	67	10	102	102	0	AASDHPPT,synonymous_variant,p.%3D,ENST00000278618,;AASDHPPT,synonymous_variant,p.%3D,ENST00000524411,;AASDHPPT,synonymous_variant,p.%3D,ENST00000533423,;RP11-677I18.3,intron_variant,,ENST00000532422,;AASDHPPT,3_prime_UTR_variant,,ENST00000525660,;AASDHPPT,upstream_gene_variant,,ENST00000534152,;	C	ENSG00000149313	ENST00000278618	Transcript	synonymous_variant	828	606	202	L	ctA/ctC	rs765718892	.	.	1	AASDHPPT	HGNC	14235	protein_coding	YES	CCDS31664.1	ENSP00000278618	ADPPT_HUMAN	E9PNF3_HUMAN,E9PLW6_HUMAN	UPI0000034CAD	.	.	.	4/6	.	Superfamily_domains:SSF56214,Gene3D:3.90.470.20,Pfam_domain:PF01648,hmmpanther:PTHR12215	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCTATCTCC	byFrequency	5	BLCA
ZC3H12C	0	.	GRCh37	11	110035681	110035681	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1871C>G	p.Ser624Cys	p.S624C	ENST00000278590	6/6	29	25	4	49	49	0	ZC3H12C,missense_variant,p.Ser593Cys,ENST00000453089,;ZC3H12C,missense_variant,p.Ser624Cys,ENST00000278590,;ZC3H12C,missense_variant,p.Ser625Cys,ENST00000528673,;	G	ENSG00000149289	ENST00000278590	Transcript	missense_variant	1922	1871	624	S/C	tCt/tGt	.	.	.	1	ZC3H12C	HGNC	29362	protein_coding	YES	CCDS44727.1	ENSP00000278590	ZC12C_HUMAN	E9PP00_HUMAN	UPI0000DD80B8	.	deleterious(0)	probably_damaging(0.998)	6/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12876,hmmpanther:PTHR12876:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCTTCTGACT	.	2	BLCA
HSPB2	0	.	GRCh37	11	111784274	111784274	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204G>A	p.%3D	p.R68R	ENST00000304298	2/2	70	64	6	129	129	0	HSPB2,synonymous_variant,p.%3D,ENST00000537382,;HSPB2,synonymous_variant,p.%3D,ENST00000304298,;CRYAB,5_prime_UTR_variant,,ENST00000529647,;CRYAB,intron_variant,,ENST00000527950,;CRYAB,intron_variant,,ENST00000533475,;CRYAB,upstream_gene_variant,,ENST00000533879,;CRYAB,upstream_gene_variant,,ENST00000227251,;CRYAB,upstream_gene_variant,,ENST00000533971,;CRYAB,upstream_gene_variant,,ENST00000527899,;CRYAB,upstream_gene_variant,,ENST00000526180,;CRYAB,upstream_gene_variant,,ENST00000528961,;CRYAB,upstream_gene_variant,,ENST00000525823,;CRYAB,upstream_gene_variant,,ENST00000526167,;CRYAB,upstream_gene_variant,,ENST00000528628,;C11orf52,upstream_gene_variant,,ENST00000529342,;CRYAB,upstream_gene_variant,,ENST00000533280,;CRYAB,upstream_gene_variant,,ENST00000524660,;CRYAB,upstream_gene_variant,,ENST00000531198,;HSPB2-C11orf52,synonymous_variant,p.%3D,ENST00000527616,;HSPB2-C11orf52,intron_variant,,ENST00000534100,;	A	ENSG00000170276	ENST00000304298	Transcript	synonymous_variant	792	204	68	R	agG/agA	.	.	.	1	HSPB2	Uniprot_gn	.	protein_coding	YES	CCDS8352.1	ENSP00000302476	HSPB2_HUMAN	A8KAH6_HUMAN	UPI000000D8EF	.	.	.	2/2	.	PROSITE_profiles:PS01031,hmmpanther:PTHR11527,hmmpanther:PTHR11527:SF30,Gene3D:2.60.40.790,PIRSF_domain:PIRSF036514,Superfamily_domains:SSF49764,Prints_domain:PR00299	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTAGGCTCAG	.	3	BLCA
SIK3	0	.	GRCh37	11	116797980	116797980	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397G>T	p.Ala133Ser	p.A133S	ENST00000292055	4/24	70	66	4	89	89	0	SIK3,missense_variant,p.Ala32Ser,ENST00000434315,;SIK3,missense_variant,p.Ala185Ser,ENST00000445177,;SIK3,missense_variant,p.Ala133Ser,ENST00000292055,;SIK3,missense_variant,p.Ala191Ser,ENST00000446921,;SIK3,missense_variant,p.Ala191Ser,ENST00000375300,;SIK3,missense_variant,p.Ala94Ser,ENST00000413553,;SIK3,missense_variant,p.Ala133Ser,ENST00000542607,;SIK3,5_prime_UTR_variant,,ENST00000375288,;SIK3,non_coding_transcript_exon_variant,,ENST00000497049,;SIK3,non_coding_transcript_exon_variant,,ENST00000485363,;SIK3,3_prime_UTR_variant,,ENST00000415541,;	A	ENSG00000160584	ENST00000292055	Transcript	missense_variant	433	397	133	A/S	Gct/Tct	.	.	.	-1	SIK3	HGNC	29165	protein_coding	YES	CCDS8379.1	ENSP00000292055	SIK3_HUMAN	.	UPI00001FA400	.	deleterious(0)	probably_damaging(0.997)	4/24	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:1.10.510.10,Pfam_domain:PF00069,PROSITE_patterns:PS00108,hmmpanther:PTHR22971,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCAGCTTTTA	.	2	BLCA
THYN1	0	.	GRCh37	11	134120220	134120220	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.240C>G	p.%3D	p.L80L	ENST00000341541	3/7	45	40	5	55	55	0	THYN1,synonymous_variant,p.%3D,ENST00000352327,;THYN1,synonymous_variant,p.%3D,ENST00000341541,;THYN1,synonymous_variant,p.%3D,ENST00000392594,;THYN1,synonymous_variant,p.%3D,ENST00000392595,;ACAD8,upstream_gene_variant,,ENST00000543332,;ACAD8,upstream_gene_variant,,ENST00000281182,;VPS26B,downstream_gene_variant,,ENST00000525095,;ACAD8,upstream_gene_variant,,ENST00000374752,;VPS26B,downstream_gene_variant,,ENST00000281187,;ACAD8,upstream_gene_variant,,ENST00000537423,;THYN1,downstream_gene_variant,,ENST00000525677,;ACAD8,upstream_gene_variant,,ENST00000524547,;THYN1,non_coding_transcript_exon_variant,,ENST00000531135,;THYN1,non_coding_transcript_exon_variant,,ENST00000533975,;THYN1,non_coding_transcript_exon_variant,,ENST00000533781,;ACAD8,upstream_gene_variant,,ENST00000527082,;ACAD8,upstream_gene_variant,,ENST00000534433,;ACAD8,upstream_gene_variant,,ENST00000524426,;ACAD8,upstream_gene_variant,,ENST00000530533,;ACAD8,upstream_gene_variant,,ENST00000534240,;VPS26B,downstream_gene_variant,,ENST00000531741,;ACAD8,upstream_gene_variant,,ENST00000526026,;ACAD8,upstream_gene_variant,,ENST00000525961,;ACAD8,upstream_gene_variant,,ENST00000533387,;	C	ENSG00000151500	ENST00000341541	Transcript	synonymous_variant	702	240	80	L	ctC/ctG	.	.	.	-1	THYN1	HGNC	29560	protein_coding	YES	CCDS8496.1	ENSP00000341657	THYN1_HUMAN	.	UPI000007195F	.	.	.	3/7	.	Superfamily_domains:SSF88697,Gene3D:2hd9A00,Pfam_domain:PF01878,hmmpanther:PTHR14087:SF7,hmmpanther:PTHR14087	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTTGAGATC	.	4	BLCA
COMMD9	0	.	GRCh37	11	36293257	36293257	+	3'Flank	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000263401	.	14	10	4	38	38	0	COMMD9,downstream_gene_variant,,ENST00000263401,;COMMD9,downstream_gene_variant,,ENST00000452374,;COMMD9,downstream_gene_variant,,ENST00000532705,;LINC00610,non_coding_transcript_exon_variant,,ENST00000355500,;COMMD9,downstream_gene_variant,,ENST00000533308,;COMMD9,downstream_gene_variant,,ENST00000528608,;COMMD9,downstream_gene_variant,,ENST00000533643,;	C	ENSG00000110442	ENST00000263401	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	1794	-1	COMMD9	HGNC	25014	protein_coding	YES	CCDS7900.1	ENSP00000263401	COMD9_HUMAN	Q53FR9_HUMAN,B4DQW0_HUMAN	UPI000006F27A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCAGGTACCA	.	3	BLCA
NUP160	0	.	GRCh37	11	47827865	47827865	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2447-1G>A	.	p.X816_splice	ENST00000378460	.	29	25	4	46	46	0	NUP160,splice_acceptor_variant,,ENST00000528071,;NUP160,splice_acceptor_variant,,ENST00000530326,;NUP160,splice_acceptor_variant,,ENST00000378460,;NUP160,downstream_gene_variant,,ENST00000528501,;RNA5SP340,upstream_gene_variant,,ENST00000517132,;NUP160,non_coding_transcript_exon_variant,,ENST00000526569,;NUP160,upstream_gene_variant,,ENST00000527750,;	T	ENSG00000030066	ENST00000378460	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	NUP160	HGNC	18017	protein_coding	YES	CCDS31484.1	ENSP00000367721	NU160_HUMAN	.	UPI0000185FEB	.	.	.	.	19/35	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATACTTAAA	.	2	BLCA
CTNND1	0	.	GRCh37	11	57575892	57575892	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2122C>T	p.Gln708Ter	p.Q708*	ENST00000399050	14/21	72	57	14	95	95	0	CTNND1,stop_gained,p.Gln702Ter,ENST00000361796,;CTNND1,stop_gained,p.Gln601Ter,ENST00000532787,;CTNND1,stop_gained,p.Gln648Ter,ENST00000526357,;CTNND1,stop_gained,p.Gln702Ter,ENST00000428599,;CTNND1,stop_gained,p.Gln379Ter,ENST00000533667,;CTNND1,stop_gained,p.Gln648Ter,ENST00000532649,;CTNND1,stop_gained,p.Gln607Ter,ENST00000528232,;CTNND1,stop_gained,p.Gln708Ter,ENST00000529919,;CTNND1,stop_gained,p.Gln648Ter,ENST00000529873,;CTNND1,stop_gained,p.Gln654Ter,ENST00000532844,;CTNND1,stop_gained,p.Gln379Ter,ENST00000531014,;CTNND1,stop_gained,p.Gln601Ter,ENST00000532463,;CTNND1,stop_gained,p.Gln607Ter,ENST00000415361,;CTNND1,stop_gained,p.Gln601Ter,ENST00000530094,;CTNND1,stop_gained,p.Gln601Ter,ENST00000529986,;CTNND1,stop_gained,p.Gln385Ter,ENST00000527467,;CTNND1,stop_gained,p.Gln601Ter,ENST00000532245,;CTNND1,stop_gained,p.Gln654Ter,ENST00000530748,;CTNND1,stop_gained,p.Gln648Ter,ENST00000528621,;CTNND1,stop_gained,p.Gln702Ter,ENST00000361391,;CTNND1,stop_gained,p.Gln708Ter,ENST00000399050,;CTNND1,stop_gained,p.Gln648Ter,ENST00000534579,;CTNND1,stop_gained,p.Gln708Ter,ENST00000526938,;CTNND1,stop_gained,p.Gln648Ter,ENST00000529526,;CTNND1,stop_gained,p.Gln708Ter,ENST00000399039,;CTNND1,stop_gained,p.Gln708Ter,ENST00000360682,;CTNND1,stop_gained,p.Gln702Ter,ENST00000524630,;CTNND1,stop_gained,p.Gln702Ter,ENST00000358694,;CTNND1,stop_gained,p.Gln601Ter,ENST00000426142,;CTNND1,stop_gained,p.Gln379Ter,ENST00000526772,;CTNND1,stop_gained,p.Gln702Ter,ENST00000361332,;CTNND1,stop_gained,p.Gln385Ter,ENST00000525902,;CTNND1,upstream_gene_variant,,ENST00000531007,;CTNND1,non_coding_transcript_exon_variant,,ENST00000530720,;CTNND1,downstream_gene_variant,,ENST00000527599,;	T	ENSG00000198561	ENST00000399050	Transcript	stop_gained	2658	2122	708	Q/*	Caa/Taa	.	.	.	1	CTNND1	HGNC	2515	protein_coding	YES	CCDS44604.1	ENSP00000382004	CTND1_HUMAN	E9PKY0_HUMAN,E9PKL1_HUMAN	UPI000012860B	.	.	.	14/21	.	hmmpanther:PTHR10372:SF6,hmmpanther:PTHR10372,Gene3D:1.25.10.10,Pfam_domain:PF00514,SMART_domains:SM00185,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCGTCAAGAG	.	5	BLCA
OR5B21	0	.	GRCh37	11	58275518	58275518	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.61C>A	p.Leu21Ile	p.L21I	ENST00000360374	1/1	46	37	8	56	56	0	OR5B21,missense_variant,p.Leu21Ile,ENST00000360374,;RP11-655C2.3,upstream_gene_variant,,ENST00000527054,;RP11-655C2.3,upstream_gene_variant,,ENST00000528978,;	T	ENSG00000198283	ENST00000360374	Transcript	missense_variant	61	61	21	L/I	Ctt/Att	.	.	.	-1	OR5B21	HGNC	19616	protein_coding	YES	CCDS31552.1	ENSP00000353537	OR5BL_HUMAN	.	UPI000015FCAA	.	deleterious_low_confidence(0.02)	possibly_damaging(0.732)	1/1	.	hmmpanther:PTHR26452:SF288,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAAGATTGG	.	5	BLCA
AHNAK	0	.	GRCh37	11	62293819	62293819	+	Silent	SNP	C	C	T	rs747270810	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8070G>A	p.%3D	p.L2690L	ENST00000378024	5/5	184	138	45	217	217	0	AHNAK,synonymous_variant,p.%3D,ENST00000378024,;AHNAK,intron_variant,,ENST00000257247,;AHNAK,intron_variant,,ENST00000530124,;AHNAK,intron_variant,,ENST00000533365,;	T	ENSG00000124942	ENST00000378024	Transcript	synonymous_variant	8345	8070	2690	L	ttG/ttA	rs747270810	.	.	-1	AHNAK	HGNC	347	protein_coding	YES	CCDS31584.1	ENSP00000367263	AHNK_HUMAN	E9PQE3_HUMAN,E9PLK4_HUMAN,E9PKR9_HUMAN	UPI00004EC29C	.	.	.	5/5	.	hmmpanther:PTHR23348:SF40,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTCAACTT	.	5	BLCA
CAPN1	0	.	GRCh37	11	64950958	64950958	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.351C>G	p.%3D	p.L117L	ENST00000527323	3/21	25	21	4	35	35	0	CAPN1,synonymous_variant,p.%3D,ENST00000279247,;CAPN1,synonymous_variant,p.%3D,ENST00000524773,;CAPN1,synonymous_variant,p.%3D,ENST00000526468,;CAPN1,synonymous_variant,p.%3D,ENST00000527699,;CAPN1,synonymous_variant,p.%3D,ENST00000533820,;CAPN1,synonymous_variant,p.%3D,ENST00000534373,;CAPN1,synonymous_variant,p.%3D,ENST00000526966,;CAPN1,synonymous_variant,p.%3D,ENST00000529133,;CAPN1,synonymous_variant,p.%3D,ENST00000527323,;CAPN1,synonymous_variant,p.%3D,ENST00000533909,;CAPN1,synonymous_variant,p.%3D,ENST00000528396,;CAPN1,synonymous_variant,p.%3D,ENST00000527739,;CAPN1,synonymous_variant,p.%3D,ENST00000533129,;CAPN1,synonymous_variant,p.%3D,ENST00000531068,;CAPN1,downstream_gene_variant,,ENST00000532285,;AP003068.23,upstream_gene_variant,,ENST00000526623,;CAPN1,non_coding_transcript_exon_variant,,ENST00000528739,;CAPN1,non_coding_transcript_exon_variant,,ENST00000527469,;CAPN1,non_coding_transcript_exon_variant,,ENST00000527189,;CAPN1,synonymous_variant,p.%3D,ENST00000526954,;CAPN1,non_coding_transcript_exon_variant,,ENST00000530442,;CAPN1,upstream_gene_variant,,ENST00000527887,;CAPN1,upstream_gene_variant,,ENST00000527897,;CAPN1,upstream_gene_variant,,ENST00000533079,;AP003068.23,upstream_gene_variant,,ENST00000528551,;	G	ENSG00000014216	ENST00000527323	Transcript	synonymous_variant	591	351	117	L	ctC/ctG	.	.	.	1	CAPN1	HGNC	1476	protein_coding	YES	CCDS44644.1	ENSP00000431984	CAN1_HUMAN	E9PSA6_HUMAN,E9PQB3_HUMAN,E9PMC6_HUMAN,E9PLX0_HUMAN,E9PLC9_HUMAN,E9PJJ3_HUMAN,E9PJA6_HUMAN,E9PIA9_HUMAN	UPI0000000E05	.	.	.	3/21	.	PROSITE_profiles:PS50203,hmmpanther:PTHR10183,hmmpanther:PTHR10183:SF284,PROSITE_patterns:PS00139,Pfam_domain:PF00648,SMART_domains:SM00230,Superfamily_domains:SSF54001,Prints_domain:PR00704	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCTCTTGGC	.	2	BLCA
TBC1D10C	0	.	GRCh37	11	67172885	67172885	+	Missense_Mutation	SNP	C	C	T	rs141022722	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268C>T	p.Arg90Trp	p.R90W	ENST00000312390	4/10	14	11	3	23	23	0	TBC1D10C,missense_variant,p.Arg90Trp,ENST00000542590,;TBC1D10C,missense_variant,p.Arg90Trp,ENST00000526387,;TBC1D10C,missense_variant,p.Arg90Trp,ENST00000312390,;PPP1CA,intron_variant,,ENST00000542876,;PPP1CA,intron_variant,,ENST00000546202,;PPP1CA,upstream_gene_variant,,ENST00000358239,;PPP1CA,upstream_gene_variant,,ENST00000376745,;PPP1CA,upstream_gene_variant,,ENST00000527663,;PPP1CA,upstream_gene_variant,,ENST00000312989,;PPP1CA,intron_variant,,ENST00000537694,;PPP1CA,upstream_gene_variant,,ENST00000532446,;PPP1CA,upstream_gene_variant,,ENST00000529724,;TBC1D10C,missense_variant,p.Arg90Trp,ENST00000529635,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000526474,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000530967,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000533745,;TBC1D10C,non_coding_transcript_exon_variant,,ENST00000529132,;TBC1D10C,upstream_gene_variant,,ENST00000524662,;PPP1CA,upstream_gene_variant,,ENST00000526510,;	T	ENSG00000175463	ENST00000312390	Transcript	missense_variant	297	268	90	R/W	Cgg/Tgg	rs141022722,COSM1356392	.	.	1	TBC1D10C	HGNC	24702	protein_coding	YES	CCDS8162.1	ENSP00000310193	TB10C_HUMAN	.	UPI00000746CA	.	deleterious(0)	probably_damaging(0.999)	4/10	.	hmmpanther:PTHR22957:SF264,hmmpanther:PTHR22957,Gene3D:2qq8A02,SMART_domains:SM00164,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGCCGGAAA	byCluster	2	BLCA
SUV420H1	0	.	GRCh37	11	67957455	67957455	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.89C>T	p.Ser30Leu	p.S30L	ENST00000304363	2/11	193	147	45	240	240	0	SUV420H1,missense_variant,p.Ser30Leu,ENST00000434573,;SUV420H1,missense_variant,p.Ser30Leu,ENST00000402789,;SUV420H1,missense_variant,p.Ser30Leu,ENST00000405515,;SUV420H1,missense_variant,p.Ser30Leu,ENST00000304363,;SUV420H1,missense_variant,p.Ser30Leu,ENST00000402185,;SUV420H1,missense_variant,p.Ser30Leu,ENST00000401547,;SUV420H1,intron_variant,,ENST00000458496,;SUV420H1,intron_variant,,ENST00000453170,;SUV420H1,missense_variant,p.Ser30Leu,ENST00000427752,;SUV420H1,missense_variant,p.Ser30Leu,ENST00000441488,;SUV420H1,non_coding_transcript_exon_variant,,ENST00000466295,;	A	ENSG00000110066	ENST00000304363	Transcript	missense_variant	443	89	30	S/L	tCa/tTa	.	.	.	-1	SUV420H1	HGNC	24283	protein_coding	YES	CCDS31623.1	ENSP00000305899	SV421_HUMAN	E9PKD9_HUMAN,C9JP58_HUMAN,C9JFG1_HUMAN,C9J6S5_HUMAN	UPI00001FADE7	.	deleterious(0)	benign(0.24)	2/11	.	PROSITE_profiles:PS51570,hmmpanther:PTHR12977,hmmpanther:PTHR12977:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTGATTGA	.	5	BLCA
ZNF214	0	.	GRCh37	11	7021225	7021225	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1689C>G	p.Phe563Leu	p.F563L	ENST00000278314	3/3	67	52	15	89	89	0	ZNF214,missense_variant,p.Phe563Leu,ENST00000536068,;ZNF214,missense_variant,p.Phe563Leu,ENST00000278314,;ZNF214,downstream_gene_variant,,ENST00000531083,;	C	ENSG00000149050	ENST00000278314	Transcript	missense_variant	2005	1689	563	F/L	ttC/ttG	.	.	.	-1	ZNF214	HGNC	13006	protein_coding	YES	CCDS31418.1	ENSP00000278314	ZN214_HUMAN	.	UPI000013DB6B	.	deleterious(0)	probably_damaging(0.993)	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24402:SF54,hmmpanther:PTHR24402,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACTGAAACC	.	5	BLCA
PAAF1	0	.	GRCh37	11	73610216	73610216	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.308G>A	p.Arg103Lys	p.R103K	ENST00000310571	5/12	36	30	6	32	32	0	PAAF1,missense_variant,p.Arg86Lys,ENST00000544552,;PAAF1,missense_variant,p.Arg86Lys,ENST00000543814,;PAAF1,missense_variant,p.Arg86Lys,ENST00000536003,;PAAF1,missense_variant,p.Arg104Lys,ENST00000544909,;PAAF1,missense_variant,p.Arg81Lys,ENST00000536582,;PAAF1,missense_variant,p.Arg86Lys,ENST00000504441,;PAAF1,missense_variant,p.Arg86Lys,ENST00000376384,;PAAF1,missense_variant,p.Arg103Lys,ENST00000310571,;PAAF1,5_prime_UTR_variant,,ENST00000541951,;PAAF1,5_prime_UTR_variant,,ENST00000542293,;PAAF1,5_prime_UTR_variant,,ENST00000546039,;PAAF1,5_prime_UTR_variant,,ENST00000535604,;PAAF1,upstream_gene_variant,,ENST00000540659,;PAAF1,non_coding_transcript_exon_variant,,ENST00000543079,;	A	ENSG00000175575	ENST00000310571	Transcript	missense_variant	361	308	103	R/K	aGa/aAa	.	.	.	1	PAAF1	HGNC	25687	protein_coding	YES	CCDS8226.1	ENSP00000311665	PAAF1_HUMAN	F5H3E9_HUMAN	UPI000007150C	.	tolerated(0.31)	benign(0.011)	5/12	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR22844:SF175,hmmpanther:PTHR22844,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCAGAGGAG	.	2	BLCA
AQP11	0	.	GRCh37	11	77301496	77301496	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.459C>T	p.%3D	p.F153F	ENST00000313578	1/3	36	23	13	53	53	0	AQP11,synonymous_variant,p.%3D,ENST00000313578,;AP002789.1,downstream_gene_variant,,ENST00000607263,;AQP11,intron_variant,,ENST00000528638,;CLNS1A,intron_variant,,ENST00000526761,;	T	ENSG00000178301	ENST00000313578	Transcript	synonymous_variant	817	459	153	F	ttC/ttT	.	.	.	1	AQP11	HGNC	19940	protein_coding	YES	CCDS8251.1	ENSP00000318770	AQP11_HUMAN	.	UPI000003B106	.	.	.	1/3	.	Prints_domain:PR02024,Superfamily_domains:SSF81338,PIRSF_domain:PIRSF017529,Pfam_domain:PF00230,Gene3D:1.20.1080.10,hmmpanther:PTHR21191:SF7,hmmpanther:PTHR21191	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTCGCTTG	.	5	BLCA
CCDC89	0	.	GRCh37	11	85396147	85396147	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1027G>A	p.Glu343Lys	p.E343K	ENST00000316398	1/1	54	41	12	63	63	0	CCDC89,missense_variant,p.Glu343Lys,ENST00000316398,;CREBZF,upstream_gene_variant,,ENST00000534224,;CREBZF,upstream_gene_variant,,ENST00000531515,;	T	ENSG00000179071	ENST00000316398	Transcript	missense_variant	1174	1027	343	E/K	Gaa/Aaa	.	.	.	-1	CCDC89	HGNC	26762	protein_coding	YES	CCDS8270.1	ENSP00000320649	CCD89_HUMAN	.	UPI000000DAB1	.	tolerated(0.1)	possibly_damaging(0.461)	1/1	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCATCGT	.	5	BLCA
FAT3	0	.	GRCh37	11	92534481	92534481	+	Missense_Mutation	SNP	G	G	A	rs751134911	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8302G>A	p.Asp2768Asn	p.D2768N	ENST00000298047	9/27	32	19	12	57	57	0	FAT3,missense_variant,p.Asp2768Asn,ENST00000298047,;FAT3,missense_variant,p.Asp2768Asn,ENST00000409404,;FAT3,missense_variant,p.Asp2618Asn,ENST00000525166,;	A	ENSG00000165323	ENST00000298047	Transcript	missense_variant	8319	8302	2768	D/N	Gac/Aac	rs751134911	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	benign(0.038)	9/27	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTTGACAAA	.	5	BLCA
KIAA1731	0	.	GRCh37	11	93455128	93455128	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5859A>G	p.%3D	p.T1953T	ENST00000325212	20/30	31	28	3	26	26	0	KIAA1731,synonymous_variant,p.%3D,ENST00000325212,;KIAA1731,synonymous_variant,p.%3D,ENST00000411936,;KIAA1731,synonymous_variant,p.%3D,ENST00000344196,;KIAA1731,synonymous_variant,p.%3D,ENST00000531700,;KIAA1731,intron_variant,,ENST00000530425,;KIAA1731,upstream_gene_variant,,ENST00000531404,;KIAA1731,upstream_gene_variant,,ENST00000529185,;SCARNA9,downstream_gene_variant,,ENST00000362805,;SCARNA9,downstream_gene_variant,,ENST00000364329,;SCARNA9,downstream_gene_variant,,ENST00000530422,;Y_RNA,downstream_gene_variant,,ENST00000363005,;	G	ENSG00000166004	ENST00000325212	Transcript	synonymous_variant	6021	5859	1953	T	acA/acG	.	.	.	1	KIAA1731	HGNC	29366	protein_coding	YES	CCDS44708.1	ENSP00000316681	K1731_HUMAN	E9PM20_HUMAN	UPI0000251F0E	.	.	.	20/30	.	hmmpanther:PTHR21553,hmmpanther:PTHR21553:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAACACTGTC	.	2	BLCA
PIWIL4	0	.	GRCh37	11	94301962	94301962	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.154A>G	p.Ile52Val	p.I52V	ENST00000299001	2/20	48	43	4	51	51	0	PIWIL4,missense_variant,p.Ile52Val,ENST00000299001,;PIWIL4,5_prime_UTR_variant,,ENST00000545603,;RP11-867G2.8,intron_variant,,ENST00000536540,;RP11-867G2.8,intron_variant,,ENST00000537874,;PIWIL4,missense_variant,p.Ile25Val,ENST00000446230,;PIWIL4,5_prime_UTR_variant,,ENST00000543336,;	G	ENSG00000134627	ENST00000299001	Transcript	missense_variant	365	154	52	I/V	Atc/Gtc	.	.	.	1	PIWIL4	HGNC	18444	protein_coding	YES	CCDS31656.1	ENSP00000299001	PIWL4_HUMAN	F5GX26_HUMAN	UPI000006D0EC	.	tolerated(0.47)	benign(0.004)	2/20	.	hmmpanther:PTHR22892,hmmpanther:PTHR22892:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCAGGATCTCA	.	4	BLCA
SWAP70	0	.	GRCh37	11	9715828	9715828	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.235G>A	p.Glu79Lys	p.E79K	ENST00000318950	2/12	103	84	19	142	142	0	SWAP70,missense_variant,p.Glu79Lys,ENST00000447399,;SWAP70,missense_variant,p.Glu79Lys,ENST00000318950,;SWAP70,missense_variant,p.Glu79Lys,ENST00000526358,;SWAP70,non_coding_transcript_exon_variant,,ENST00000531814,;SWAP70,non_coding_transcript_exon_variant,,ENST00000524817,;	A	ENSG00000133789	ENST00000318950	Transcript	missense_variant	338	235	79	E/K	Gaa/Aaa	.	.	.	1	SWAP70	HGNC	17070	protein_coding	YES	CCDS31426.1	ENSP00000315630	SWP70_HUMAN	E9PJM7_HUMAN	UPI0000073652	.	deleterious(0)	benign(0.11)	2/12	.	hmmpanther:PTHR14383,hmmpanther:PTHR14383:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTGGAAAAG	.	5	BLCA
PAH	0	.	GRCh37	12	103306626	103306626	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111G>A	p.%3D	p.L37L	ENST00000553106	2/13	106	82	24	98	98	0	PAH,synonymous_variant,p.%3D,ENST00000551337,;PAH,synonymous_variant,p.%3D,ENST00000553106,;PAH,synonymous_variant,p.%3D,ENST00000546844,;PAH,synonymous_variant,p.%3D,ENST00000307000,;PAH,non_coding_transcript_exon_variant,,ENST00000551988,;PAH,non_coding_transcript_exon_variant,,ENST00000548677,;PAH,non_coding_transcript_exon_variant,,ENST00000548928,;PAH,downstream_gene_variant,,ENST00000546708,;PAH,downstream_gene_variant,,ENST00000547319,;PAH,non_coding_transcript_exon_variant,,ENST00000549111,;PAH,non_coding_transcript_exon_variant,,ENST00000550978,;	T	ENSG00000171759	ENST00000553106	Transcript	synonymous_variant	584	111	37	L	ctG/ctA	.	.	.	-1	PAH	HGNC	8582	protein_coding	YES	CCDS9092.1	ENSP00000448059	PH4H_HUMAN	F8W1D4_HUMAN,F8W0A0_HUMAN	UPI00001318A0	.	.	.	2/13	.	Superfamily_domains:SSF55021,PIRSF_domain:PIRSF000336,Pfam_domain:PF01842,TIGRFAM_domain:TIGR01268,Gene3D:1.10.800.10,hmmpanther:PTHR11473,PROSITE_profiles:PS51671	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATCAGTGA	.	5	BLCA
OAS1	0	.	GRCh37	12	113346449	113346449	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.289G>A	p.Glu97Lys	p.E97K	ENST00000445409	2/6	32	28	4	60	60	0	OAS1,missense_variant,p.Glu97Lys,ENST00000452357,;OAS1,missense_variant,p.Glu97Lys,ENST00000445409,;OAS1,missense_variant,p.Glu97Lys,ENST00000202917,;OAS1,missense_variant,p.Glu93Lys,ENST00000550689,;OAS1,missense_variant,p.Glu97Lys,ENST00000553185,;OAS1,missense_variant,p.Glu97Lys,ENST00000551241,;OAS1,intron_variant,,ENST00000550883,;RP1-71H24.1,non_coding_transcript_exon_variant,,ENST00000552784,;OAS1,non_coding_transcript_exon_variant,,ENST00000549820,;	A	ENSG00000089127	ENST00000445409	Transcript	missense_variant	546	289	97	E/K	Gag/Aag	.	.	.	1	OAS1	HGNC	8086	protein_coding	YES	CCDS31905.1	ENSP00000388001	OAS1_HUMAN	Q1P9K4_HUMAN	UPI00005B2E03	.	tolerated(0.1)	benign(0.41)	2/6	.	PROSITE_profiles:PS50152,hmmpanther:PTHR11258:SF13,hmmpanther:PTHR11258,Pfam_domain:PF01909,Gene3D:3.30.460.10,Superfamily_domains:SSF81301	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGGAGAGTTC	.	4	BLCA
C12orf43	0	.	GRCh37	12	121454196	121454196	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82G>A	p.Glu28Lys	p.E28K	ENST00000288757	1/6	23	19	3	42	42	0	C12orf43,missense_variant,p.Glu28Lys,ENST00000536407,;C12orf43,missense_variant,p.Glu28Lys,ENST00000539736,;C12orf43,missense_variant,p.Glu28Lys,ENST00000288757,;C12orf43,5_prime_UTR_variant,,ENST00000538296,;C12orf43,5_prime_UTR_variant,,ENST00000445832,;C12orf43,5_prime_UTR_variant,,ENST00000366211,;C12orf43,5_prime_UTR_variant,,ENST00000537817,;OASL,downstream_gene_variant,,ENST00000339275,;C12orf43,upstream_gene_variant,,ENST00000535367,;OASL,downstream_gene_variant,,ENST00000257570,;C12orf43,synonymous_variant,p.%3D,ENST00000539088,;C12orf43,non_coding_transcript_exon_variant,,ENST00000508193,;	T	ENSG00000157895	ENST00000288757	Transcript	missense_variant	105	82	28	E/K	Gag/Aag	COSM458247,COSM3792265	.	.	-1	C12orf43	HGNC	25719	protein_coding	YES	CCDS9210.1	ENSP00000288757	CL043_HUMAN	E7ENF1_HUMAN	UPI000006ED81	.	deleterious(0.03)	benign(0.017)	1/6	.	hmmpanther:PTHR14482:SF0,hmmpanther:PTHR14482	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.E28Q|c.82G>C|3	RADIA|MUTECT|MUSE|VARSCANS	CGCCTCGCGGC	.	4	BLCA
GPR133	0	.	GRCh37	12	131438988	131438988	+	5'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-23G>A	.	.	ENST00000261654	1/25	51	46	5	69	69	0	GPR133,5_prime_UTR_variant,,ENST00000535015,;GPR133,5_prime_UTR_variant,,ENST00000543826,;GPR133,5_prime_UTR_variant,,ENST00000542091,;GPR133,5_prime_UTR_variant,,ENST00000261654,;GPR133,non_coding_transcript_exon_variant,,ENST00000541143,;	A	ENSG00000111452	ENST00000261654	Transcript	5_prime_UTR_variant	537	.	.	.	.	.	.	.	1	GPR133	HGNC	19893	protein_coding	YES	CCDS9272.1	ENSP00000261654	GP133_HUMAN	F5H4Y0_HUMAN,B2CKK9_HUMAN	UPI0000241C7A	.	.	.	1/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTCCGAGCTT	.	3	BLCA
PIK3C2G	0	.	GRCh37	12	18650573	18650573	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2784G>T	p.Gln928His	p.Q928H	ENST00000433979	21/32	32	28	4	37	37	0	PIK3C2G,missense_variant,p.Gln969His,ENST00000538779,;PIK3C2G,missense_variant,p.Gln928His,ENST00000266497,;PIK3C2G,missense_variant,p.Gln928His,ENST00000433979,;PIK3C2G,3_prime_UTR_variant,,ENST00000546003,;RP11-127B1.1,downstream_gene_variant,,ENST00000543668,;	T	ENSG00000139144	ENST00000433979	Transcript	missense_variant	2900	2784	928	Q/H	caG/caT	.	.	.	1	PIK3C2G	HGNC	8973	protein_coding	YES	CCDS44839.1	ENSP00000404845	P3C2G_HUMAN	.	UPI000013D6EF	.	deleterious(0)	probably_damaging(1)	21/32	.	PROSITE_profiles:PS50290,hmmpanther:PTHR10048,hmmpanther:PTHR10048:SF29,PROSITE_patterns:PS00915,Gene3D:3.30.1010.10,Pfam_domain:PF00454,SMART_domains:SM00146,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CGTCAGGATAT	.	2	BLCA
CMAS	0	.	GRCh37	12	22208204	22208204	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382G>C	p.Glu128Gln	p.E128Q	ENST00000229329	2/8	34	27	7	36	36	0	CMAS,missense_variant,p.Glu128Gln,ENST00000229329,;CMAS,5_prime_UTR_variant,,ENST00000538498,;CMAS,missense_variant,p.Glu128Gln,ENST00000534981,;CMAS,intron_variant,,ENST00000535610,;	C	ENSG00000111726	ENST00000229329	Transcript	missense_variant	512	382	128	E/Q	Gaa/Caa	.	.	.	1	CMAS	HGNC	18290	protein_coding	YES	CCDS8696.1	ENSP00000229329	NEUA_HUMAN	F5GYM0_HUMAN	UPI0000034274	.	deleterious(0)	probably_damaging(0.992)	2/8	.	hmmpanther:PTHR21485:SF3,hmmpanther:PTHR21485,Gene3D:3.90.550.10,Pfam_domain:PF02348,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATAGAATTT	.	5	BLCA
SOX5	0	.	GRCh37	12	23887621	23887621	+	Silent	SNP	G	G	T	rs749574255	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807C>A	p.%3D	p.I269I	ENST00000451604	6/15	59	55	3	70	70	0	SOX5,synonymous_variant,p.%3D,ENST00000309359,;SOX5,synonymous_variant,p.%3D,ENST00000381381,;SOX5,synonymous_variant,p.%3D,ENST00000546136,;SOX5,synonymous_variant,p.%3D,ENST00000537393,;SOX5,synonymous_variant,p.%3D,ENST00000541536,;SOX5,synonymous_variant,p.%3D,ENST00000451604,;SOX5,synonymous_variant,p.%3D,ENST00000545921,;SOX5,non_coding_transcript_exon_variant,,ENST00000536629,;SOX5,non_coding_transcript_exon_variant,,ENST00000535530,;SOX5,synonymous_variant,p.%3D,ENST00000367206,;SOX5,non_coding_transcript_exon_variant,,ENST00000536911,;	T	ENSG00000134532	ENST00000451604	Transcript	synonymous_variant	909	807	269	I	atC/atA	rs749574255,COSM430906	.	.	-1	SOX5	HGNC	11201	protein_coding	YES	CCDS8699.1	ENSP00000398273	SOX5_HUMAN	T2CYZ2_HUMAN,F5GWL1_HUMAN	UPI000007405E	.	.	.	6/15	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10270,hmmpanther:PTHR10270:SF30	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTGGATCTG	.	2	BLCA
SCAF11	0	.	GRCh37	12	46316822	46316822	+	Missense_Mutation	SNP	G	G	A	rs768285235	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4022C>T	p.Ser1341Leu	p.S1341L	ENST00000369367	13/15	180	147	32	248	248	0	SCAF11,missense_variant,p.Ser1026Leu,ENST00000465950,;SCAF11,missense_variant,p.Ser1341Leu,ENST00000369367,;SCAF11,missense_variant,p.Ser1341Leu,ENST00000419565,;SCAF11,missense_variant,p.Ser1149Leu,ENST00000549162,;SCAF11,non_coding_transcript_exon_variant,,ENST00000547654,;SCAF11,non_coding_transcript_exon_variant,,ENST00000550629,;SCAF11,non_coding_transcript_exon_variant,,ENST00000550893,;SCAF11,downstream_gene_variant,,ENST00000547018,;SCAF11,downstream_gene_variant,,ENST00000547950,;	A	ENSG00000139218	ENST00000369367	Transcript	missense_variant	4256	4022	1341	S/L	tCg/tTg	rs768285235	.	.	-1	SCAF11	HGNC	10784	protein_coding	YES	CCDS8748.2	ENSP00000358374	SCAFB_HUMAN	F8VXG7_HUMAN	UPI0000D481F2	.	deleterious(0.01)	benign(0.158)	13/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15242:SF3,hmmpanther:PTHR15242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACGAAGTA	byFrequency	5	BLCA
PFKM	0	.	GRCh37	12	48499371	48499371	+	5'Flank	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000340802	.	19	14	5	28	28	0	PFKM,5_prime_UTR_variant,,ENST00000549003,;SENP1,5_prime_UTR_variant,,ENST00000339976,;SENP1,5_prime_UTR_variant,,ENST00000004980,;SENP1,5_prime_UTR_variant,,ENST00000551330,;SENP1,5_prime_UTR_variant,,ENST00000448372,;SENP1,intron_variant,,ENST00000551798,;PFKM,intron_variant,,ENST00000550345,;SENP1,intron_variant,,ENST00000549518,;SENP1,upstream_gene_variant,,ENST00000549595,;PFKM,upstream_gene_variant,,ENST00000546755,;PFKM,upstream_gene_variant,,ENST00000340802,;PFKM,upstream_gene_variant,,ENST00000549941,;PFKM,upstream_gene_variant,,ENST00000548288,;PFKM,upstream_gene_variant,,ENST00000552792,;PFKM,upstream_gene_variant,,ENST00000550924,;PFKM,upstream_gene_variant,,ENST00000549366,;PFKM,upstream_gene_variant,,ENST00000550257,;SENP1,5_prime_UTR_variant,,ENST00000552189,;SENP1,intron_variant,,ENST00000547181,;SENP1,intron_variant,,ENST00000549882,;PFKM,upstream_gene_variant,,ENST00000547581,;	T	ENSG00000152556	ENST00000340802	Transcript	upstream_gene_variant	.	.	.	.	.	.	.	335	1	PFKM	HGNC	8877	protein_coding	YES	CCDS53786.1	ENSP00000345771	K6PF_HUMAN	Q7KYX9_HUMAN,P78457_HUMAN,F8W1J8_HUMAN,F8VZQ1_HUMAN,F8VYK8_HUMAN,F8VW30_HUMAN,F8VUB8_HUMAN,F8VSL1_HUMAN,F8VNX2_HUMAN	UPI0000D621DC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	TCACTCGGGTC	.	3	BLCA
TFCP2	0	.	GRCh37	12	51512554	51512554	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124G>A	p.Asp42Asn	p.D42N	ENST00000257915	2/15	107	82	25	83	83	0	TFCP2,missense_variant,p.Asp42Asn,ENST00000257915,;TFCP2,missense_variant,p.Asp42Asn,ENST00000548115,;TFCP2,missense_variant,p.Asp42Asn,ENST00000307660,;TFCP2,missense_variant,p.Asp42Asn,ENST00000549867,;TFCP2,splice_region_variant,,ENST00000548108,;	T	ENSG00000135457	ENST00000257915	Transcript	missense_variant	583	124	42	D/N	Gat/Aat	.	.	.	-1	TFCP2	HGNC	11748	protein_coding	YES	CCDS8808.1	ENSP00000257915	TFCP2_HUMAN	F8VWL0_HUMAN	UPI0000071CCA	.	deleterious(0.05)	possibly_damaging(0.745)	2/15	.	hmmpanther:PTHR11037,hmmpanther:PTHR11037:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACATCACTAA	.	5	BLCA
SLC4A8	0	.	GRCh37	12	51847342	51847342	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433G>C	p.Asp145His	p.D145H	ENST00000453097	5/25	64	60	4	79	79	0	SLC4A8,missense_variant,p.Asp92His,ENST00000394856,;SLC4A8,missense_variant,p.Asp145His,ENST00000453097,;SLC4A8,missense_variant,p.Asp92His,ENST00000535225,;SLC4A8,missense_variant,p.Asp172His,ENST00000358657,;SLC4A8,missense_variant,p.Asp92His,ENST00000514353,;SLC4A8,non_coding_transcript_exon_variant,,ENST00000548352,;SLC4A8,non_coding_transcript_exon_variant,,ENST00000552001,;SLC4A8,non_coding_transcript_exon_variant,,ENST00000547697,;SLC4A8,non_coding_transcript_exon_variant,,ENST00000319957,;SLC4A8,non_coding_transcript_exon_variant,,ENST00000551071,;SLC4A8,non_coding_transcript_exon_variant,,ENST00000604314,;	C	ENSG00000050438	ENST00000453097	Transcript	missense_variant	650	433	145	D/H	Gat/Cat	.	.	.	1	SLC4A8	HGNC	11034	protein_coding	YES	CCDS44890.1	ENSP00000405812	S4A8_HUMAN	.	UPI00005E6FB4	.	deleterious(0)	probably_damaging(1)	5/25	.	hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF37,TIGRFAM_domain:TIGR00834,Pfam_domain:PF07565,Gene3D:1hynR00,Superfamily_domains:SSF55804	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGAAGATGTT	.	2	BLCA
HNRNPA1	0	.	GRCh37	12	54675244	54675244	+	Silent	SNP	G	G	A	rs747731298	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.90G>A	p.%3D	p.L30L	ENST00000340913	2/11	51	38	12	82	82	0	HNRNPA1,synonymous_variant,p.%3D,ENST00000547708,;HNRNPA1,synonymous_variant,p.%3D,ENST00000546500,;HNRNPA1,synonymous_variant,p.%3D,ENST00000340913,;HNRNPA1,synonymous_variant,p.%3D,ENST00000330752,;HNRNPA1,synonymous_variant,p.%3D,ENST00000551702,;HNRNPA1,synonymous_variant,p.%3D,ENST00000547276,;HNRNPA1,synonymous_variant,p.%3D,ENST00000548688,;HNRNPA1,5_prime_UTR_variant,,ENST00000550994,;HNRNPA1,upstream_gene_variant,,ENST00000550482,;CBX5,upstream_gene_variant,,ENST00000209875,;RP11-968A15.8,intron_variant,,ENST00000553061,;RP11-968A15.2,downstream_gene_variant,,ENST00000547177,;HNRNPA1,upstream_gene_variant,,ENST00000551803,;HNRNPA1,synonymous_variant,p.%3D,ENST00000547566,;HNRNPA1,non_coding_transcript_exon_variant,,ENST00000547870,;HNRNPA1,upstream_gene_variant,,ENST00000551679,;HNRNPA1,upstream_gene_variant,,ENST00000551665,;	A	ENSG00000135486	ENST00000340913	Transcript	synonymous_variant	143	90	30	L	ctG/ctA	rs747731298	.	.	1	HNRNPA1	HGNC	5031	protein_coding	YES	CCDS44909.1	ENSP00000341826	ROA1_HUMAN	F8VYN5_HUMAN	UPI0000161BF2	.	.	.	2/11	.	PROSITE_profiles:PS50102,hmmpanther:PTHR24012:SF309,hmmpanther:PTHR24012,Gene3D:3.30.70.330,Pfam_domain:PF00076,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTGAGGAG	byFrequency	5	BLCA
SLC39A5	0	.	GRCh37	12	56630264	56630272	+	In_Frame_Del	DEL	CAGGCAGCT	CAGGCAGCT	-	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	CAGGCAGCT	CAGGCAGCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1031_1039delAGGCAGCTC	p.Gln344_Ala346del	p.Q344_A346del	ENST00000266980	7/11	29	21	8	70	70	0	SLC39A5,inframe_deletion,p.Gln344_Ala346del,ENST00000454355,;SLC39A5,inframe_deletion,p.Gln344_Ala346del,ENST00000266980,;SLC39A5,downstream_gene_variant,,ENST00000424625,;SLC39A5,downstream_gene_variant,,ENST00000417965,;SLC39A5,downstream_gene_variant,,ENST00000437277,;ANKRD52,downstream_gene_variant,,ENST00000267116,;SLC39A5,downstream_gene_variant,,ENST00000436633,;SLC39A5,downstream_gene_variant,,ENST00000419753,;ANKRD52,downstream_gene_variant,,ENST00000548241,;SLC39A5,upstream_gene_variant,,ENST00000447080,;SLC39A5,upstream_gene_variant,,ENST00000419232,;SLC39A5,downstream_gene_variant,,ENST00000481103,;	-	ENSG00000139540	ENST00000266980	Transcript	inframe_deletion	1323-1331	1030-1038	344-346	QAA/-	CAGGCAGCT/-	.	.	.	1	SLC39A5	HGNC	20502	protein_coding	YES	CCDS8912.2	ENSP00000266980	S39A5_HUMAN	C9JVC6_HUMAN,C9JPS6_HUMAN,C9JPS5_HUMAN,C9JIB2_HUMAN	UPI000035E86A	.	.	.	7/11	.	hmmpanther:PTHR12191:SF12,hmmpanther:PTHR12191,Pfam_domain:PF02535	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCCTACAGGCAGCTCCAGG	.	3	BLCA
PAN2	0	.	GRCh37	12	56721411	56721411	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.656C>T	p.Ser219Phe	p.S219F	ENST00000425394	6/26	45	42	3	72	72	0	PAN2,missense_variant,p.Ser219Phe,ENST00000425394,;PAN2,missense_variant,p.Ser219Phe,ENST00000440411,;PAN2,missense_variant,p.Ser219Phe,ENST00000257931,;PAN2,missense_variant,p.Ser80Phe,ENST00000547572,;PAN2,missense_variant,p.Ser219Phe,ENST00000548043,;PAN2,non_coding_transcript_exon_variant,,ENST00000551359,;PAN2,non_coding_transcript_exon_variant,,ENST00000547994,;PAN2,upstream_gene_variant,,ENST00000550555,;PAN2,upstream_gene_variant,,ENST00000547226,;PAN2,upstream_gene_variant,,ENST00000548982,;PAN2,upstream_gene_variant,,ENST00000549348,;PAN2,upstream_gene_variant,,ENST00000552630,;PAN2,upstream_gene_variant,,ENST00000552868,;PAN2,downstream_gene_variant,,ENST00000547518,;PAN2,upstream_gene_variant,,ENST00000549073,;	A	ENSG00000135473	ENST00000425394	Transcript	missense_variant	1033	656	219	S/F	tCc/tTc	.	.	.	-1	PAN2	HGNC	20074	protein_coding	YES	CCDS44922.1	ENSP00000401721	PAN2_HUMAN	F8VXK8_HUMAN	UPI0000577D0A	.	deleterious(0.01)	possibly_damaging(0.736)	6/26	.	hmmpanther:PTHR15728,hmmpanther:PTHR15728:SF0,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L220L|c.660G>A|3	MUTECT|MUSE	TCAGGGAAACC	.	2	BLCA
ATP5B	0	.	GRCh37	12	57036459	57036459	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.949G>C	p.Glu317Gln	p.E317Q	ENST00000262030	6/10	47	36	11	56	56	0	ATP5B,missense_variant,p.Glu61Gln,ENST00000551570,;ATP5B,missense_variant,p.Glu254Gln,ENST00000552959,;ATP5B,missense_variant,p.Glu218Gln,ENST00000553007,;ATP5B,missense_variant,p.Glu317Gln,ENST00000262030,;ATP5B,intron_variant,,ENST00000552104,;ATP5B,intron_variant,,ENST00000552919,;ATP5B,intron_variant,,ENST00000551020,;SNORD59A,downstream_gene_variant,,ENST00000384304,;ATP5B,splice_region_variant,,ENST00000547250,;ATP5B,splice_region_variant,,ENST00000550162,;ATP5B,intron_variant,,ENST00000547808,;ATP5B,intron_variant,,ENST00000548474,;ATP5B,downstream_gene_variant,,ENST00000548647,;ATP5B,upstream_gene_variant,,ENST00000551182,;	G	ENSG00000110955	ENST00000262030	Transcript	missense_variant	1000	949	317	E/Q	Gag/Cag	.	.	.	-1	ATP5B	HGNC	830	protein_coding	YES	CCDS8924.1	ENSP00000262030	ATPB_HUMAN	Q0QEN7_HUMAN	UPI000012644E	.	deleterious_low_confidence(0)	probably_damaging(0.973)	6/10	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Pfam_domain:PF00006,TIGRFAM_domain:TIGR01039,Gene3D:3.40.50.300,hmmpanther:PTHR15184:SF32,hmmpanther:PTHR15184,HAMAP:MF_01347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCTGAAC	.	5	BLCA
ATP5B	0	.	GRCh37	12	57037255	57037255	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724G>T	p.Glu242Ter	p.E242*	ENST00000262030	5/10	100	83	16	136	136	0	ATP5B,stop_gained,p.Glu35Ter,ENST00000551570,;ATP5B,stop_gained,p.Glu179Ter,ENST00000552959,;ATP5B,stop_gained,p.Glu143Ter,ENST00000553007,;ATP5B,stop_gained,p.Glu242Ter,ENST00000552919,;ATP5B,stop_gained,p.Glu242Ter,ENST00000262030,;ATP5B,stop_gained,p.Glu181Ter,ENST00000551020,;ATP5B,intron_variant,,ENST00000552104,;SNORD59A,downstream_gene_variant,,ENST00000384304,;ATP5B,non_coding_transcript_exon_variant,,ENST00000547250,;ATP5B,non_coding_transcript_exon_variant,,ENST00000548647,;ATP5B,intron_variant,,ENST00000547808,;ATP5B,intron_variant,,ENST00000548474,;ATP5B,upstream_gene_variant,,ENST00000550162,;ATP5B,upstream_gene_variant,,ENST00000551182,;	A	ENSG00000110955	ENST00000262030	Transcript	stop_gained	775	724	242	E/*	Gaa/Taa	.	.	.	-1	ATP5B	HGNC	830	protein_coding	YES	CCDS8924.1	ENSP00000262030	ATPB_HUMAN	Q0QEN7_HUMAN	UPI000012644E	.	.	.	5/10	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Pfam_domain:PF00006,TIGRFAM_domain:TIGR01039,Gene3D:3.40.50.300,hmmpanther:PTHR15184:SF32,hmmpanther:PTHR15184,HAMAP:MF_01347	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCACGGG	.	5	BLCA
WIF1	0	.	GRCh37	12	65461483	65461483	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.626G>A	p.Cys209Tyr	p.C209Y	ENST00000286574	5/10	42	36	6	50	50	0	WIF1,missense_variant,p.Cys209Tyr,ENST00000286574,;WIF1,upstream_gene_variant,,ENST00000543094,;WIF1,downstream_gene_variant,,ENST00000546001,;	T	ENSG00000156076	ENST00000286574	Transcript	missense_variant	1001	626	209	C/Y	tGt/tAt	.	.	.	-1	WIF1	HGNC	18081	protein_coding	YES	CCDS8971.1	ENSP00000286574	WIF1_HUMAN	F5H8A3_HUMAN,B4DX53_HUMAN	UPI0000038BEE	.	deleterious(0)	probably_damaging(0.999)	5/10	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24838,hmmpanther:PTHR24838:SF30,PROSITE_patterns:PS00022,PROSITE_patterns:PS01186,Gene3D:2.10.25.10,Pfam_domain:PF12661,SMART_domains:SM00181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCACAGTGA	.	4	BLCA
LEMD3	0	.	GRCh37	12	65632588	65632588	+	Missense_Mutation	SNP	T	T	C	rs749363247	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1915T>C	p.Cys639Arg	p.C639R	ENST00000308330	6/13	65	54	10	53	53	0	LEMD3,missense_variant,p.Cys639Arg,ENST00000308330,;LEMD3,upstream_gene_variant,,ENST00000544506,;LEMD3,upstream_gene_variant,,ENST00000542032,;	C	ENSG00000174106	ENST00000308330	Transcript	missense_variant	1941	1915	639	C/R	Tgc/Cgc	rs749363247	.	.	1	LEMD3	HGNC	28887	protein_coding	YES	CCDS8972.1	ENSP00000308369	MAN1_HUMAN	B4DI45_HUMAN	UPI000012EB75	.	tolerated(0.23)	possibly_damaging(0.803)	6/13	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR13428:SF9,hmmpanther:PTHR13428,Pfam_domain:PF09402	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTATGCTTA	.	5	BLCA
C12orf57	0	.	GRCh37	12	7053240	7053240	+	5'UTR	SNP	G	G	C	rs782653230	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-45G>C	.	.	ENST00000229281	1/3	83	71	12	124	124	0	C12orf57,5_prime_UTR_variant,,ENST00000544681,;C12orf57,5_prime_UTR_variant,,ENST00000229281,;C12orf57,5_prime_UTR_variant,,ENST00000537087,;C12orf57,intron_variant,,ENST00000545581,;PTPN6,upstream_gene_variant,,ENST00000447931,;ATN1,downstream_gene_variant,,ENST00000356654,;ATN1,downstream_gene_variant,,ENST00000396684,;PTPN6,upstream_gene_variant,,ENST00000543115,;PTPN6,upstream_gene_variant,,ENST00000399448,;C12orf57,upstream_gene_variant,,ENST00000540506,;RNU7-1,downstream_gene_variant,,ENST00000458811,;U47924.31,non_coding_transcript_exon_variant,,ENST00000607421,;C12orf57,intron_variant,,ENST00000542222,;PTPN6,upstream_gene_variant,,ENST00000534900,;PTPN6,upstream_gene_variant,,ENST00000543120,;C12orf57,intron_variant,,ENST00000538392,;ATN1,downstream_gene_variant,,ENST00000537488,;PTPN6,upstream_gene_variant,,ENST00000542848,;PTPN6,upstream_gene_variant,,ENST00000538318,;	C	ENSG00000111678	ENST00000229281	Transcript	5_prime_UTR_variant	55	.	.	.	.	rs782653230	.	.	1	C12orf57	HGNC	29521	protein_coding	YES	CCDS8571.1	ENSP00000229281	C10_HUMAN	U3KQ85_HUMAN	UPI0000126B9B	.	.	.	1/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCGTGAGTTT	.	4	BLCA
TMEM19	0	.	GRCh37	12	72091096	72091096	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.419G>A	p.Gly140Glu	p.G140E	ENST00000266673	4/6	119	89	30	142	142	0	TMEM19,missense_variant,p.Gly39Glu,ENST00000546677,;TMEM19,missense_variant,p.Gly140Glu,ENST00000549735,;TMEM19,missense_variant,p.Gly140Glu,ENST00000266673,;TMEM19,missense_variant,p.Gly140Glu,ENST00000550524,;TMEM19,upstream_gene_variant,,ENST00000550787,;TMEM19,upstream_gene_variant,,ENST00000546795,;RP11-293I14.2,3_prime_UTR_variant,,ENST00000548802,;	A	ENSG00000139291	ENST00000266673	Transcript	missense_variant	1013	419	140	G/E	gGa/gAa	.	.	.	1	TMEM19	HGNC	25605	protein_coding	YES	CCDS9002.1	ENSP00000266673	TMM19_HUMAN	F8VS20_HUMAN,F8VRE8_HUMAN	UPI000006EFAF	.	deleterious(0)	benign(0.036)	4/6	.	hmmpanther:PTHR13353:SF5,hmmpanther:PTHR13353,Pfam_domain:PF01940	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAATGGAGCTG	.	5	BLCA
MCF2L	0	.	GRCh37	13	113678963	113678963	+	Silent	SNP	C	C	A	rs767003814	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.169C>A	p.%3D	p.R57R	ENST00000535094	3/30	37	32	5	71	71	0	MCF2L,synonymous_variant,p.%3D,ENST00000423482,;MCF2L,synonymous_variant,p.%3D,ENST00000409954,;MCF2L,synonymous_variant,p.%3D,ENST00000375597,;MCF2L,synonymous_variant,p.%3D,ENST00000397024,;MCF2L,synonymous_variant,p.%3D,ENST00000375608,;MCF2L,synonymous_variant,p.%3D,ENST00000535094,;MCF2L,synonymous_variant,p.%3D,ENST00000434480,;MCF2L,synonymous_variant,p.%3D,ENST00000442652,;MCF2L,synonymous_variant,p.%3D,ENST00000397030,;MCF2L,synonymous_variant,p.%3D,ENST00000433807,;MCF2L,synonymous_variant,p.%3D,ENST00000375601,;MCF2L,synonymous_variant,p.%3D,ENST00000421756,;MCF2L,synonymous_variant,p.%3D,ENST00000375604,;MCF2L,upstream_gene_variant,,ENST00000486806,;MCF2L,upstream_gene_variant,,ENST00000473345,;MCF2L,non_coding_transcript_exon_variant,,ENST00000486210,;	A	ENSG00000126217	ENST00000535094	Transcript	synonymous_variant	328	169	57	R	Cgg/Agg	rs767003814	.	.	1	MCF2L	HGNC	14576	protein_coding	YES	CCDS45070.2	ENSP00000440374	MCF2L_HUMAN	B7ZBR9_HUMAN,B7Z9K4_HUMAN	UPI0001CE935F	.	.	.	3/30	.	PROSITE_profiles:PS50191,hmmpanther:PTHR22826,hmmpanther:PTHR22826:SF115,Gene3D:3.40.525.10,Pfam_domain:PF13716,SMART_domains:SM00516,Superfamily_domains:SSF52087	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGGGCGGGGG	.	4	BLCA
TUBA3C	0	.	GRCh37	13	19747925	19747925	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*78C>T	.	.	ENST00000400113	5/5	14	11	3	27	27	0	TUBA3C,3_prime_UTR_variant,,ENST00000400113,;SMPD4P2,upstream_gene_variant,,ENST00000440167,;	A	ENSG00000198033	ENST00000400113	Transcript	3_prime_UTR_variant	1536	.	.	.	.	.	.	.	-1	TUBA3C	HGNC	12408	protein_coding	YES	CCDS9284.1	ENSP00000382982	TBA3C_HUMAN	Q1ZYQ1_HUMAN,F8VXZ7_HUMAN	UPI0000027DB1	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATACAGAACCT	.	2	BLCA
PARP4	0	.	GRCh37	13	25000724	25000724	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4859G>C	p.Arg1620Thr	p.R1620T	ENST00000381989	33/34	58	49	9	80	80	0	PARP4,missense_variant,p.Arg1620Thr,ENST00000381989,;TPTE2P6,intron_variant,,ENST00000445572,;	G	ENSG00000102699	ENST00000381989	Transcript	missense_variant	4965	4859	1620	R/T	aGa/aCa	.	.	.	-1	PARP4	HGNC	271	protein_coding	YES	CCDS9307.1	ENSP00000371419	PARP4_HUMAN	.	UPI000013C76E	.	deleterious(0.01)	benign(0.118)	33/34	.	hmmpanther:PTHR10338:SF7,hmmpanther:PTHR10338	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTCTTCCT	.	5	BLCA
EML1	0	.	GRCh37	14	100344863	100344863	+	Missense_Mutation	SNP	G	G	A	rs776900171	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.482G>A	p.Gly161Glu	p.G161E	ENST00000334192	5/23	57	46	10	89	89	0	EML1,missense_variant,p.Gly27Glu,ENST00000557741,;EML1,missense_variant,p.Gly130Glu,ENST00000327921,;EML1,missense_variant,p.Gly148Glu,ENST00000555145,;EML1,missense_variant,p.Gly161Glu,ENST00000334192,;EML1,missense_variant,p.Gly142Glu,ENST00000262233,;EML1,missense_variant,p.Gly129Glu,ENST00000554479,;EML1,missense_variant,p.Gly111Glu,ENST00000556714,;EML1,downstream_gene_variant,,ENST00000556835,;EML1,non_coding_transcript_exon_variant,,ENST00000556758,;EML1,downstream_gene_variant,,ENST00000555096,;	A	ENSG00000066629	ENST00000334192	Transcript	missense_variant	616	482	161	G/E	gGg/gAg	rs776900171	.	.	1	EML1	HGNC	3330	protein_coding	YES	CCDS32154.1	ENSP00000334314	EMAL1_HUMAN	G3V4U5_HUMAN,F8W717_HUMAN	UPI00004A074E	.	tolerated(0.59)	possibly_damaging(0.891)	5/23	.	hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGGGGTC	.	5	BLCA
SALL2	0	.	GRCh37	14	21993557	21993557	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305C>T	p.Ser102Phe	p.S102F	ENST00000327430	2/2	52	44	8	57	57	0	SALL2,missense_variant,p.Ser100Phe,ENST00000537235,;SALL2,missense_variant,p.Ser100Phe,ENST00000538754,;SALL2,missense_variant,p.Ser102Phe,ENST00000317492,;SALL2,missense_variant,p.Ser100Phe,ENST00000450879,;SALL2,missense_variant,p.Ser40Phe,ENST00000541965,;SALL2,missense_variant,p.Ser102Phe,ENST00000327430,;SALL2,missense_variant,p.Ser96Phe,ENST00000546363,;AE000658.22,downstream_gene_variant,,ENST00000535893,;	A	ENSG00000165821	ENST00000327430	Transcript	missense_variant	600	305	102	S/F	tCt/tTt	COSM1369057	.	.	-1	SALL2	HGNC	10526	protein_coding	YES	CCDS32045.1	ENSP00000333537	SALL2_HUMAN	F5H1G6_HUMAN	UPI00001AF54D	.	deleterious(0)	benign(0.229)	2/2	.	hmmpanther:PTHR23233:SF15,hmmpanther:PTHR23233	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCAGAATCT	.	5	BLCA
TRAV6	0	.	GRCh37	14	22237207	22237207	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.284A>G	p.Glu95Gly	p.E95G	ENST00000390428	2/2	59	51	8	90	90	0	TRAV6,missense_variant,p.Glu95Gly,ENST00000390428,;	G	ENSG00000211780	ENST00000390428	Transcript	missense_variant	291	284	95	E/G	gAa/gGa	.	.	.	1	TRAV6	HGNC	12144	TR_V_gene	YES	.	ENSP00000438290	.	.	UPI000204A972	.	tolerated(0.05)	probably_damaging(0.93)	2/2	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50835,hmmpanther:PTHR19433,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAAGAAAAAA	.	4	BLCA
MYH6	0	.	GRCh37	14	23870046	23870046	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1282C>T	p.%3D	p.L428L	ENST00000405093	13/39	42	35	7	60	60	0	MYH6,synonymous_variant,p.%3D,ENST00000405093,;MYH6,synonymous_variant,p.%3D,ENST00000356287,;MYH6,non_coding_transcript_exon_variant,,ENST00000557461,;	A	ENSG00000197616	ENST00000405093	Transcript	synonymous_variant	1353	1282	428	L	Ctg/Ttg	.	.	.	-1	MYH6	HGNC	7576	protein_coding	YES	CCDS9600.1	ENSP00000386041	MYH6_HUMAN	Q9UQV1_HUMAN,A8CLL2_HUMAN	UPI0000160969	.	.	.	13/39	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140:SF260,hmmpanther:PTHR13140,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCAGAGCCC	.	4	BLCA
LRRC16B	0	.	GRCh37	14	24523498	24523498	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234C>T	p.%3D	p.L78L	ENST00000342740	4/40	52	46	6	75	75	0	LRRC16B,synonymous_variant,p.%3D,ENST00000342740,;LRRC16B,5_prime_UTR_variant,,ENST00000334420,;RP11-468E2.9,downstream_gene_variant,,ENST00000558622,;RP11-468E2.9,downstream_gene_variant,,ENST00000559270,;RP11-468E2.9,downstream_gene_variant,,ENST00000558293,;LRRC16B,upstream_gene_variant,,ENST00000559694,;RP11-468E2.9,downstream_gene_variant,,ENST00000606840,;RP11-468E2.9,downstream_gene_variant,,ENST00000397065,;	T	ENSG00000186648	ENST00000342740	Transcript	synonymous_variant	388	234	78	L	ctC/ctT	.	.	.	1	LRRC16B	HGNC	20272	protein_coding	YES	CCDS32054.1	ENSP00000340467	LR16B_HUMAN	.	UPI0000DBEF11	.	.	.	4/40	.	hmmpanther:PTHR24112,hmmpanther:PTHR24112:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGCTCAGTCA	.	4	BLCA
SSTR1	0	.	GRCh37	14	38679676	38679676	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1082G>A	p.Arg361His	p.R361H	ENST00000267377	3/3	49	35	13	94	94	0	SSTR1,missense_variant,p.Arg361His,ENST00000267377,;	A	ENSG00000139874	ENST00000267377	Transcript	missense_variant	1699	1082	361	R/H	cGt/cAt	.	.	.	1	SSTR1	HGNC	11330	protein_coding	YES	CCDS9666.1	ENSP00000267377	SSR1_HUMAN	.	UPI0000001C3C	.	tolerated(0.09)	probably_damaging(0.964)	3/3	.	hmmpanther:PTHR24229:SF3,hmmpanther:PTHR24229,Prints_domain:PR00587	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCGTGCCT	.	4	BLCA
NIN	0	.	GRCh37	14	51290011	51290011	+	Intron	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-21-1216C>T	.	.	ENST00000382041	.	57	43	13	49	49	0	NIN,intron_variant,,ENST00000389868,;NIN,intron_variant,,ENST00000245441,;NIN,intron_variant,,ENST00000324330,;NIN,intron_variant,,ENST00000382041,;NIN,intron_variant,,ENST00000496749,;NIN,intron_variant,,ENST00000382043,;NIN,intron_variant,,ENST00000453196,;NIN,intron_variant,,ENST00000453401,;NIN,upstream_gene_variant,,ENST00000486950,;NIN,upstream_gene_variant,,ENST00000530997,;RP11-286O18.1,non_coding_transcript_exon_variant,,ENST00000555966,;NIN,intron_variant,,ENST00000476352,;NIN,intron_variant,,ENST00000463419,;	A	ENSG00000100503	ENST00000382041	Transcript	intron_variant	.	.	.	.	.	.	.	.	-1	NIN	HGNC	14906	protein_coding	YES	CCDS32079.1	ENSP00000371472	NIN_HUMAN	H7C162_HUMAN,E9PJH9_HUMAN	UPI0000DBEF14	.	.	.	.	2/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGGTGACCTC	.	5	BLCA
C14orf105	0	.	GRCh37	14	57960354	57960354	+	Missense_Mutation	SNP	G	G	A	rs201357909	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.80C>T	p.Ser27Leu	p.S27L	ENST00000216445	1/6	65	53	12	63	63	0	C14orf105,missense_variant,p.Ser27Leu,ENST00000526336,;C14orf105,missense_variant,p.Ser27Leu,ENST00000534126,;C14orf105,missense_variant,p.Ser27Leu,ENST00000216445,;C14orf105,missense_variant,p.Ser27Leu,ENST00000422976,;C14orf105,missense_variant,p.Ser27Leu,ENST00000534528,;C14orf105,missense_variant,p.Ser27Leu,ENST00000526745,;C14orf105,missense_variant,p.Ser27Leu,ENST00000530417,;C14orf105,missense_variant,p.Ser27Leu,ENST00000529860,;	A	ENSG00000100557	ENST00000216445	Transcript	missense_variant	217	80	27	S/L	tCg/tTg	rs201357909,COSM1748902	.	.	-1	C14orf105	HGNC	20189	protein_coding	YES	CCDS9730.1	ENSP00000216445	CN105_HUMAN	.	UPI000013C6ED	.	tolerated(0.15)	benign(0.029)	1/6	.	hmmpanther:PTHR16065,Pfam_domain:PF15398	.	.	.	.	.	.	.	C:0	C:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCCGAGGGA	byCluster	5	BLCA
SIX1	0	.	GRCh37	14	61113247	61113247	+	Silent	SNP	G	G	C	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.609C>G	p.%3D	p.L203L	ENST00000247182	2/2	58	47	10	69	69	0	SIX1,synonymous_variant,p.%3D,ENST00000247182,;SIX1,synonymous_variant,p.%3D,ENST00000554986,;RP11-1042B17.5,downstream_gene_variant,,ENST00000555871,;SIX1,3_prime_UTR_variant,,ENST00000555955,;SIX1,3_prime_UTR_variant,,ENST00000553535,;	C	ENSG00000126778	ENST00000247182	Transcript	synonymous_variant	882	609	203	L	ctC/ctG	COSM1323465	.	.	-1	SIX1	HGNC	10887	protein_coding	YES	CCDS9748.1	ENSP00000247182	SIX1_HUMAN	.	UPI00001359BA	.	.	.	2/2	.	hmmpanther:PTHR10390:SF13,hmmpanther:PTHR10390	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGAGAGTTG	.	5	BLCA
FAM161B	0	.	GRCh37	14	74404787	74404787	+	Missense_Mutation	SNP	C	C	T	rs370193329	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1618G>A	p.Asp540Asn	p.D540N	ENST00000286544	6/9	164	132	32	209	209	0	FAM161B,missense_variant,p.Asp5Asn,ENST00000556794,;FAM161B,missense_variant,p.Asp540Asn,ENST00000286544,;FAM161B,missense_variant,p.Asp477Asn,ENST00000534936,;RP5-1021I20.5,non_coding_transcript_exon_variant,,ENST00000555916,;	T	ENSG00000156050	ENST00000286544	Transcript	missense_variant	1817	1618	540	D/N	Gat/Aat	rs370193329	.	.	-1	FAM161B	HGNC	19854	protein_coding	YES	CCDS9822.2	ENSP00000286544	F161B_HUMAN	.	UPI000206535E	.	tolerated(0.3)	benign(0.008)	6/9	.	hmmpanther:PTHR21501:SF4,hmmpanther:PTHR21501,Pfam_domain:PF10595	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCATCTGCTT	byFrequency|byCluster	5	BLCA
CATSPERB	0	.	GRCh37	14	92076984	92076984	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2438C>G	p.Ser813Cys	p.S813C	ENST00000256343	21/27	57	44	12	57	57	0	CATSPERB,missense_variant,p.Ser813Cys,ENST00000256343,;CATSPERB,3_prime_UTR_variant,,ENST00000557036,;	C	ENSG00000133962	ENST00000256343	Transcript	missense_variant	2595	2438	813	S/C	tCt/tGt	.	.	.	-1	CATSPERB	HGNC	20500	protein_coding	YES	CCDS32142.1	ENSP00000256343	CTSRB_HUMAN	G3V584_HUMAN,G3V352_HUMAN	UPI0000418DA1	.	deleterious(0)	probably_damaging(0.939)	21/27	.	hmmpanther:PTHR14705,Pfam_domain:PF15149	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTAGAGGCT	.	5	BLCA
SERPINA9	0	.	GRCh37	14	94933616	94933616	+	Silent	SNP	C	C	T	rs539102578	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.786G>A	p.%3D	p.E262E	ENST00000337425	3/5	28	24	4	35	35	0	SERPINA9,synonymous_variant,p.%3D,ENST00000546329,;SERPINA9,synonymous_variant,p.%3D,ENST00000380365,;SERPINA9,synonymous_variant,p.%3D,ENST00000448305,;SERPINA9,synonymous_variant,p.%3D,ENST00000298845,;SERPINA9,synonymous_variant,p.%3D,ENST00000424550,;SERPINA9,synonymous_variant,p.%3D,ENST00000337425,;RP11-349I1.2,downstream_gene_variant,,ENST00000536735,;SERPINA9,downstream_gene_variant,,ENST00000539349,;SERPINA9,3_prime_UTR_variant,,ENST00000538527,;	T	ENSG00000170054	ENST00000337425	Transcript	synonymous_variant	861	786	262	E	gaG/gaA	rs539102578	.	.	-1	SERPINA9	HGNC	15995	protein_coding	YES	CCDS41982.1	ENSP00000337133	SPA9_HUMAN	.	UPI000024706E	.	.	.	3/5	.	hmmpanther:PTHR11461:SF40,hmmpanther:PTHR11461,Gene3D:2.30.39.10,Pfam_domain:PF00079,SMART_domains:SM00093,Superfamily_domains:SSF56574,Prints_domain:PR00780	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACTGCTCTTT	by1000G	4	BLCA
SNRPA1	0	.	GRCh37	15	101827177	101827177	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395G>A	p.Arg132Lys	p.R132K	ENST00000254193	5/9	115	101	14	143	143	0	SNRPA1,missense_variant,p.Arg132Lys,ENST00000254193,;SNRPA1,missense_variant,p.Arg27Lys,ENST00000559686,;SNRPA1,5_prime_UTR_variant,,ENST00000560496,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000540017,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000560856,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000394082,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000560987,;SNRPA1,downstream_gene_variant,,ENST00000558020,;SNRPA1,missense_variant,p.Arg132Lys,ENST00000559309,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000558059,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000560433,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000560383,;SNRPA1,non_coding_transcript_exon_variant,,ENST00000558036,;SNRPA1,upstream_gene_variant,,ENST00000560307,;	T	ENSG00000131876	ENST00000254193	Transcript	missense_variant	468	395	132	R/K	aGa/aAa	.	.	.	-1	SNRPA1	HGNC	11152	protein_coding	YES	CCDS10391.1	ENSP00000254193	RU2A_HUMAN	Q9UEN1_HUMAN,H0YLR3_HUMAN	UPI000006DD72	.	deleterious(0)	probably_damaging(1)	5/9	.	hmmpanther:PTHR10552,Pfam_domain:PF14580,Gene3D:3.80.10.10,SMART_domains:SM00446,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAATCTGTAA	.	4	BLCA
ATP10A	0	.	GRCh37	15	25940240	25940240	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2814C>A	p.%3D	p.G938G	ENST00000356865	14/21	40	29	10	63	63	0	ATP10A,synonymous_variant,p.%3D,ENST00000356865,;ATP10A,upstream_gene_variant,,ENST00000555756,;ATP10A,3_prime_UTR_variant,,ENST00000555815,;	T	ENSG00000206190	ENST00000356865	Transcript	synonymous_variant	2926	2814	938	G	ggC/ggA	.	.	.	-1	ATP10A	HGNC	13542	protein_coding	YES	CCDS32178.1	ENSP00000349325	AT10A_HUMAN	.	UPI0000124FAB	.	.	.	14/21	.	hmmpanther:PTHR24092,hmmpanther:PTHR24092:SF43,Pfam_domain:PF12710,TIGRFAM_domain:TIGR01652,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGAGGCCTCT	.	5	BLCA
DUOX1	0	.	GRCh37	15	45455843	45455843	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4362C>T	p.%3D	p.I1454I	ENST00000321429	33/35	43	34	9	92	92	0	DUOX1,synonymous_variant,p.%3D,ENST00000389037,;DUOX1,synonymous_variant,p.%3D,ENST00000561166,;DUOX1,synonymous_variant,p.%3D,ENST00000321429,;SHF,downstream_gene_variant,,ENST00000558294,;SHF,downstream_gene_variant,,ENST00000560734,;SHF,downstream_gene_variant,,ENST00000318390,;SHF,downstream_gene_variant,,ENST00000560540,;SHF,downstream_gene_variant,,ENST00000458022,;SHF,downstream_gene_variant,,ENST00000290894,;CTD-2651B20.1,intron_variant,,ENST00000558039,;DUOX1,3_prime_UTR_variant,,ENST00000561220,;DUOX1,downstream_gene_variant,,ENST00000559716,;	T	ENSG00000137857	ENST00000321429	Transcript	synonymous_variant	4769	4362	1454	I	atC/atT	.	.	.	1	DUOX1	HGNC	3062	protein_coding	YES	CCDS32221.1	ENSP00000317997	DUOX1_HUMAN	H0YNR5_HUMAN	UPI000006E50E	.	.	.	33/35	.	hmmpanther:PTHR11972,hmmpanther:PTHR11972:SF37,Gene3D:3.40.50.80,Pfam_domain:PF08030,Superfamily_domains:SSF52343	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TACATCACCCA	.	4	BLCA
TLN2	0	.	GRCh37	15	63009810	63009810	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2799G>A	p.%3D	p.Q933Q	ENST00000561311	23/58	11	8	3	11	11	0	TLN2,synonymous_variant,p.%3D,ENST00000561311,;TLN2,synonymous_variant,p.%3D,ENST00000306829,;	A	ENSG00000171914	ENST00000561311	Transcript	synonymous_variant	3029	2799	933	Q	caG/caA	.	.	.	1	TLN2	HGNC	15447	protein_coding	YES	CCDS32261.1	ENSP00000453508	TLN2_HUMAN	.	UPI00001FE5FC	.	.	.	23/58	.	Low_complexity_(Seg):seg,Gene3D:1.20.1490.10,hmmpanther:PTHR19981,hmmpanther:PTHR19981:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACACAGACCAT	.	2	BLCA
HERC1	0	.	GRCh37	15	64050523	64050523	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1072G>A	p.Asp358Asn	p.D358N	ENST00000443617	4/78	19	16	3	34	34	0	HERC1,missense_variant,p.Asp358Asn,ENST00000443617,;HERC1,intron_variant,,ENST00000561400,;HERC1,non_coding_transcript_exon_variant,,ENST00000559886,;	T	ENSG00000103657	ENST00000443617	Transcript	missense_variant	1160	1072	358	D/N	Gat/Aat	.	.	.	-1	HERC1	HGNC	4867	protein_coding	YES	CCDS45277.1	ENSP00000390158	HERC1_HUMAN	H0YL74_HUMAN,H0YL07_HUMAN,H0YKW7_HUMAN	UPI0000212760	.	.	benign(0.004)	4/78	.	hmmpanther:PTHR22870:SF156,hmmpanther:PTHR22870	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTATCTGGGC	.	2	BLCA
ZNF609	0	.	GRCh37	15	64791901	64791901	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.283A>C	p.Ser95Arg	p.S95R	ENST00000326648	1/9	34	25	9	68	68	0	ZNF609,missense_variant,p.Ser95Arg,ENST00000326648,;ZNF609,missense_variant,p.Ser95Arg,ENST00000416172,;ZNF609,upstream_gene_variant,,ENST00000558680,;	C	ENSG00000180357	ENST00000326648	Transcript	missense_variant	411	283	95	S/R	Agt/Cgt	.	.	.	1	ZNF609	HGNC	29003	protein_coding	YES	CCDS32270.1	ENSP00000316527	ZN609_HUMAN	.	UPI00001D7783	.	deleterious(0.01)	possibly_damaging(0.452)	1/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21564,hmmpanther:PTHR21564:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAAGAGTGGC	.	5	BLCA
RPL4	0	.	GRCh37	15	66794206	66794206	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.466G>A	p.Asp156Asn	p.D156N	ENST00000307961	5/10	42	38	4	31	31	0	RPL4,missense_variant,p.Asp143Asn,ENST00000569438,;RPL4,missense_variant,p.Asp62Asn,ENST00000568588,;RPL4,missense_variant,p.Asp156Asn,ENST00000307961,;RPL4,intron_variant,,ENST00000569696,;ZWILCH,upstream_gene_variant,,ENST00000307897,;ZWILCH,upstream_gene_variant,,ENST00000565627,;ZWILCH,upstream_gene_variant,,ENST00000564179,;SNAPC5,upstream_gene_variant,,ENST00000566658,;SNAPC5,upstream_gene_variant,,ENST00000395589,;SNAPC5,upstream_gene_variant,,ENST00000316634,;SNAPC5,upstream_gene_variant,,ENST00000307979,;ZWILCH,upstream_gene_variant,,ENST00000535141,;ZWILCH,upstream_gene_variant,,ENST00000446801,;SNAPC5,upstream_gene_variant,,ENST00000563480,;SNORD18A,downstream_gene_variant,,ENST00000363753,;SNORD18B,downstream_gene_variant,,ENST00000365659,;SNORD16,downstream_gene_variant,,ENST00000362803,;MIR4512,upstream_gene_variant,,ENST00000583257,;SNORD18C,upstream_gene_variant,,ENST00000362704,;RPL4,upstream_gene_variant,,ENST00000565723,;ZWILCH,upstream_gene_variant,,ENST00000565960,;RPL4,upstream_gene_variant,,ENST00000563473,;RPL4,downstream_gene_variant,,ENST00000564517,;ZWILCH,upstream_gene_variant,,ENST00000564309,;RPL4,non_coding_transcript_exon_variant,,ENST00000567229,;RPL4,non_coding_transcript_exon_variant,,ENST00000566622,;RPL4,non_coding_transcript_exon_variant,,ENST00000566039,;RPL4,non_coding_transcript_exon_variant,,ENST00000564647,;RPL4,non_coding_transcript_exon_variant,,ENST00000561775,;RPL4,intron_variant,,ENST00000564439,;RPL4,upstream_gene_variant,,ENST00000564744,;RPL4,downstream_gene_variant,,ENST00000561554,;RPL4,downstream_gene_variant,,ENST00000566491,;SNAPC5,upstream_gene_variant,,ENST00000562411,;ZWILCH,upstream_gene_variant,,ENST00000563698,;RPL4,downstream_gene_variant,,ENST00000566624,;ZWILCH,upstream_gene_variant,,ENST00000567926,;SNAPC5,upstream_gene_variant,,ENST00000565465,;SNAPC5,upstream_gene_variant,,ENST00000568875,;	T	ENSG00000174444	ENST00000307961	Transcript	missense_variant	559	466	156	D/N	Gat/Aat	.	.	.	-1	RPL4	HGNC	10353	protein_coding	YES	CCDS10218.1	ENSP00000311430	RL4_HUMAN	H3BM89_HUMAN	UPI00001340F1	.	tolerated(0.15)	possibly_damaging(0.631)	5/10	.	hmmpanther:PTHR19431,Gene3D:3.40.1370.10,Pfam_domain:PF00573,Superfamily_domains:SSF52166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTATCTTCAA	.	3	BLCA
IQCH	0	.	GRCh37	15	67664936	67664936	+	Missense_Mutation	SNP	G	G	A	rs781051273	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1241G>A	p.Arg414Gln	p.R414Q	ENST00000335894	9/21	123	96	27	139	139	0	IQCH,missense_variant,p.Arg162Gln,ENST00000546225,;IQCH,missense_variant,p.Arg27Gln,ENST00000561357,;IQCH,missense_variant,p.Arg414Gln,ENST00000335894,;IQCH,missense_variant,p.Arg241Gln,ENST00000358767,;IQCH,missense_variant,p.Arg166Gln,ENST00000360277,;IQCH,3_prime_UTR_variant,,ENST00000514049,;IQCH,3_prime_UTR_variant,,ENST00000559568,;IQCH,downstream_gene_variant,,ENST00000535744,;IQCH,downstream_gene_variant,,ENST00000561339,;	A	ENSG00000103599	ENST00000335894	Transcript	missense_variant	1307	1241	414	R/Q	cGa/cAa	rs781051273	.	.	1	IQCH	HGNC	25721	protein_coding	YES	CCDS32273.1	ENSP00000336861	IQCH_HUMAN	H3BRL4_HUMAN	UPI000013CCE9	.	deleterious(0)	probably_damaging(0.999)	9/21	.	hmmpanther:PTHR14465:SF0,hmmpanther:PTHR14465	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTCGACTAA	byFrequency	5	BLCA
IQCH	0	.	GRCh37	15	67692454	67692454	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1908G>A	p.Met636Ile	p.M636I	ENST00000335894	14/21	37	29	7	55	55	0	IQCH,missense_variant,p.Met293Ile,ENST00000546225,;IQCH,missense_variant,p.Met158Ile,ENST00000561357,;IQCH,missense_variant,p.Met636Ile,ENST00000335894,;IQCH,missense_variant,p.Met372Ile,ENST00000358767,;IQCH,missense_variant,p.Met297Ile,ENST00000360277,;IQCH-AS1,downstream_gene_variant,,ENST00000559298,;IQCH-AS1,downstream_gene_variant,,ENST00000561232,;IQCH,splice_region_variant,,ENST00000514049,;	A	ENSG00000103599	ENST00000335894	Transcript	missense_variant	1974	1908	636	M/I	atG/atA	.	.	.	1	IQCH	HGNC	25721	protein_coding	YES	CCDS32273.1	ENSP00000336861	IQCH_HUMAN	H3BRL4_HUMAN	UPI000013CCE9	.	tolerated(0.12)	benign(0.014)	14/21	.	hmmpanther:PTHR14465:SF0,hmmpanther:PTHR14465	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATGATAGA	.	5	BLCA
AKAP13	0	.	GRCh37	15	86189082	86189082	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4271G>A	p.Arg1424Lys	p.R1424K	ENST00000361243	10/37	82	68	14	100	100	0	AKAP13,missense_variant,p.Arg1424Lys,ENST00000394518,;AKAP13,missense_variant,p.Arg1424Lys,ENST00000559362,;AKAP13,missense_variant,p.Arg1424Lys,ENST00000361243,;AKAP13,upstream_gene_variant,,ENST00000559486,;RP11-815J21.4,intron_variant,,ENST00000558980,;AKAP13,non_coding_transcript_exon_variant,,ENST00000560676,;AKAP13,non_coding_transcript_exon_variant,,ENST00000560340,;AKAP13,non_coding_transcript_exon_variant,,ENST00000560579,;	A	ENSG00000170776	ENST00000361243	Transcript	missense_variant	4352	4271	1424	R/K	aGa/aAa	.	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	tolerated(0.38)	benign(0.295)	10/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGCAGAGAGT	.	5	BLCA
SMG1	0	.	GRCh37	16	18859157	18859157	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5822A>G	p.Asn1941Ser	p.N1941S	ENST00000446231	37/63	78	64	14	71	71	0	SMG1,missense_variant,p.Asn1941Ser,ENST00000389467,;SMG1,missense_variant,p.Asn1831Ser,ENST00000565324,;SMG1,missense_variant,p.Asn1941Ser,ENST00000446231,;SMG1,non_coding_transcript_exon_variant,,ENST00000563448,;SMG1,non_coding_transcript_exon_variant,,ENST00000562668,;	C	ENSG00000157106	ENST00000446231	Transcript	missense_variant	6235	5822	1941	N/S	aAc/aGc	.	.	.	-1	SMG1	HGNC	30045	protein_coding	YES	CCDS45430.1	ENSP00000402515	SMG1_HUMAN	H3BPS6_HUMAN	UPI00004F8E22	.	tolerated(0.13)	possibly_damaging(0.829)	37/63	.	hmmpanther:PTHR11139,hmmpanther:PTHR11139:SF59,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGGGTTTGCA	.	3	BLCA
DNAH3	0	.	GRCh37	16	20986704	20986704	+	Nonsense_Mutation	SNP	G	G	A	rs150583804	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8110C>T	p.Gln2704Ter	p.Q2704*	ENST00000261383	51/62	92	79	13	114	114	0	DNAH3,stop_gained,p.Gln2704Ter,ENST00000261383,;DNAH3,3_prime_UTR_variant,,ENST00000415178,;	A	ENSG00000158486	ENST00000261383	Transcript	stop_gained	8110	8110	2704	Q/*	Caa/Taa	rs150583804	.	.	-1	DNAH3	HGNC	2949	protein_coding	YES	CCDS10594.1	ENSP00000261383	DYH3_HUMAN	.	UPI00001100F2	.	.	.	51/62	.	Pfam_domain:PF12777,hmmpanther:PTHR10676:SF242,hmmpanther:PTHR10676	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTTGAAGAG	byCluster	4	BLCA
NPIPB4	0	.	GRCh37	16	21848691	21848691	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1017C>G	p.%3D	p.L339L	ENST00000415645	7/9	114	96	18	170	170	0	NPIPB4,synonymous_variant,p.%3D,ENST00000415645,;NPIPB4,synonymous_variant,p.%3D,ENST00000451409,;NPIPB4,synonymous_variant,p.%3D,ENST00000537951,;NPIPB4,splice_region_variant,,ENST00000357370,;NPIPB4,downstream_gene_variant,,ENST00000165086,;NPIPB4,downstream_gene_variant,,ENST00000541329,;NPIPB4,downstream_gene_variant,,ENST00000542133,;NPIPB4,downstream_gene_variant,,ENST00000545367,;NPIPB4,downstream_gene_variant,,ENST00000543660,;	C	ENSG00000185864	ENST00000415645	Transcript	synonymous_variant	1057	1017	339	L	ctC/ctG	.	.	.	-1	NPIPB4	HGNC	41985	protein_coding	YES	.	ENSP00000404439	NPIB4_HUMAN	U3KRG3_HUMAN,H3BQU5_HUMAN,F5H8A1_HUMAN,F5H6Y6_HUMAN,F5H5F2_HUMAN,F5H3W2_HUMAN,F5GYP3_HUMAN,F5GWQ4_HUMAN,E7EQW1_HUMAN,C9JB18_HUMAN	UPI00020651A0	.	.	.	7/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15438,hmmpanther:PTHR15438:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTTGAGTTT	.	4	BLCA
LCMT1	0	.	GRCh37	16	25180478	25180478	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736C>T	p.Arg246Trp	p.R246W	ENST00000399069	8/11	75	61	14	96	96	0	LCMT1,missense_variant,p.Arg57Trp,ENST00000572761,;LCMT1,missense_variant,p.Arg26Trp,ENST00000575396,;LCMT1,missense_variant,p.Arg246Trp,ENST00000399069,;LCMT1,missense_variant,p.Arg191Trp,ENST00000380966,;LCMT1,non_coding_transcript_exon_variant,,ENST00000572869,;LCMT1,missense_variant,p.Arg136Trp,ENST00000576625,;LCMT1,3_prime_UTR_variant,,ENST00000564011,;LCMT1,3_prime_UTR_variant,,ENST00000380962,;	T	ENSG00000205629	ENST00000399069	Transcript	missense_variant	891	736	246	R/W	Cgg/Tgg	.	.	.	1	LCMT1	HGNC	17557	protein_coding	YES	CCDS45445.1	ENSP00000382021	LCMT1_HUMAN	I3L2Q8_HUMAN	UPI0000000C29	.	deleterious(0.04)	benign(0.019)	8/11	.	hmmpanther:PTHR13600:SF6,hmmpanther:PTHR13600,Gene3D:3.40.50.150,PIRSF_domain:PIRSF016305,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTGCGGAGA	.	5	BLCA
XPO6	0	.	GRCh37	16	28117727	28117727	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2589G>A	p.%3D	p.Q863Q	ENST00000304658	19/24	66	53	12	60	60	0	XPO6,synonymous_variant,p.%3D,ENST00000304658,;XPO6,synonymous_variant,p.%3D,ENST00000573275,;XPO6,synonymous_variant,p.%3D,ENST00000565698,;XPO6,upstream_gene_variant,,ENST00000569315,;XPO6,upstream_gene_variant,,ENST00000568065,;XPO6,downstream_gene_variant,,ENST00000569216,;XPO6,non_coding_transcript_exon_variant,,ENST00000570007,;XPO6,downstream_gene_variant,,ENST00000564905,;XPO6,upstream_gene_variant,,ENST00000567038,;TPRKBP2,downstream_gene_variant,,ENST00000565969,;	T	ENSG00000169180	ENST00000304658	Transcript	synonymous_variant	3090	2589	863	Q	caG/caA	.	.	.	-1	XPO6	HGNC	19733	protein_coding	YES	CCDS42135.1	ENSP00000302790	XPO6_HUMAN	H3BUP8_HUMAN,H3BR41_HUMAN,D3DWF9_HUMAN	UPI000006F228	.	.	.	19/24	.	Superfamily_domains:SSF48371,hmmpanther:PTHR21452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTCTGTAT	.	5	BLCA
RRN3P2	0	.	GRCh37	16	29086403	29086403	+	RNA	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.64C>T	.	.	ENST00000427965	1/15	9	5	4	11	11	0	RRN3P2,non_coding_transcript_exon_variant,,ENST00000564580,;RRN3P2,non_coding_transcript_exon_variant,,ENST00000427965,;RRN3P2,non_coding_transcript_exon_variant,,ENST00000219758,;RRN3P2,non_coding_transcript_exon_variant,,ENST00000566038,;RRN3P2,non_coding_transcript_exon_variant,,ENST00000415221,;CTB-134H23.3,intron_variant,,ENST00000567688,;	T	ENSG00000103472	ENST00000427965	Transcript	non_coding_transcript_exon_variant	64	.	.	.	.	.	.	.	1	RRN3P2	HGNC	37619	processed_transcript	YES	.	.	.	.	.	.	.	.	1/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCTTCGCCCT	.	3	BLCA
CLDN9	0	.	GRCh37	16	3063894	3063894	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531C>T	p.%3D	p.G177G	ENST00000445369	1/1	15	9	6	38	38	0	CLDN9,synonymous_variant,p.%3D,ENST00000445369,;TNFRSF12A,upstream_gene_variant,,ENST00000573001,;CLDN6,downstream_gene_variant,,ENST00000572154,;CLDN6,downstream_gene_variant,,ENST00000396925,;CLDN6,downstream_gene_variant,,ENST00000328796,;	T	ENSG00000213937	ENST00000445369	Transcript	synonymous_variant	1438	531	177	G	ggC/ggT	.	.	.	1	CLDN9	HGNC	2051	protein_coding	YES	CCDS10487.1	ENSP00000398017	CLD9_HUMAN	.	UPI0000035DA5	.	.	.	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR12002:SF42,hmmpanther:PTHR12002,Pfam_domain:PF00822,Prints_domain:PR01077	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGGCGGGGG	.	5	BLCA
CLDN6	0	.	GRCh37	16	3065984	3065984	+	Silent	SNP	C	C	G	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.39G>C	p.%3D	p.L13L	ENST00000396925	3/3	22	16	6	45	45	0	CLDN6,synonymous_variant,p.%3D,ENST00000572154,;CLDN6,synonymous_variant,p.%3D,ENST00000396925,;CLDN6,synonymous_variant,p.%3D,ENST00000328796,;TNFRSF12A,upstream_gene_variant,,ENST00000341627,;TNFRSF12A,upstream_gene_variant,,ENST00000326577,;TNFRSF12A,upstream_gene_variant,,ENST00000575124,;TNFRSF12A,upstream_gene_variant,,ENST00000573001,;CLDN9,downstream_gene_variant,,ENST00000445369,;TNFRSF12A,upstream_gene_variant,,ENST00000575836,;TNFRSF12A,upstream_gene_variant,,ENST00000574699,;TNFRSF12A,upstream_gene_variant,,ENST00000571351,;	G	ENSG00000184697	ENST00000396925	Transcript	synonymous_variant	468	39	13	L	ctG/ctC	COSM471636	.	.	-1	CLDN6	HGNC	2048	protein_coding	YES	CCDS10488.1	ENSP00000380131	CLD6_HUMAN	.	UPI00000359F8	.	.	.	3/3	.	Transmembrane_helices:TMhelix,Cleavage_site_(Signalp):SignalP-TM,hmmpanther:PTHR12002,hmmpanther:PTHR12002:SF41,Pfam_domain:PF00822	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTGTCAGGAC	.	2	BLCA
CREBBP	0	.	GRCh37	16	3831263	3831263	+	Nonsense_Mutation	SNP	G	G	A	rs398124138	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1618C>T	p.Gln540Ter	p.Q540*	ENST00000262367	7/31	29	21	8	44	44	0	CREBBP,stop_gained,p.Gln540Ter,ENST00000262367,;CREBBP,stop_gained,p.Gln502Ter,ENST00000382070,;CREBBP,upstream_gene_variant,,ENST00000572134,;CREBBP,upstream_gene_variant,,ENST00000571826,;	A	ENSG00000005339	ENST00000262367	Transcript	stop_gained	2428	1618	540	Q/*	Cag/Tag	rs398124138	.	.	-1	CREBBP	HGNC	2348	protein_coding	YES	CCDS10509.1	ENSP00000262367	CBP_HUMAN	Q75MY6_HUMAN,I3L3I5_HUMAN,B5A253_HUMAN,B5A252_HUMAN,B5A250_HUMAN,B5A246_HUMAN,B5A244_HUMAN,B5A243_HUMAN,B5A242_HUMAN,B5A240_HUMAN,B5A239_HUMAN,B5A235_HUMAN,B5A231_HUMAN,B5A227_HUMAN,B5A226_HUMAN,B5A222_HUMAN,B5A221_HUMAN,B5A219_HUMAN,B5A218_HUMAN,B5A216_HUMAN,B5A215_HUMAN,B5A214_HUMAN,B5A212_HUMAN	UPI0000000620	.	.	.	7/31	.	hmmpanther:PTHR13808,hmmpanther:PTHR13808:SF5	.	.	.	.	.	.	.	.	.	uncertain_significance	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGATCTG	.	5	BLCA
C16orf11	0	.	GRCh37	16	615070	615070	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1479G>A	p.%3D	p.L493L	ENST00000409413	3/3	17	12	5	14	14	0	C16orf11,synonymous_variant,p.%3D,ENST00000409413,;PIGQ,upstream_gene_variant,,ENST00000321878,;PIGQ,upstream_gene_variant,,ENST00000409439,;PIGQ,upstream_gene_variant,,ENST00000293874,;PIGQ,upstream_gene_variant,,ENST00000439574,;PIGQ,upstream_gene_variant,,ENST00000470411,;NHLRC4,upstream_gene_variant,,ENST00000424439,;PIGQ,upstream_gene_variant,,ENST00000026218,;NHLRC4,upstream_gene_variant,,ENST00000540585,;PIGQ,upstream_gene_variant,,ENST00000409527,;PIGQ,upstream_gene_variant,,ENST00000422307,;	A	ENSG00000161992	ENST00000409413	Transcript	synonymous_variant	1758	1479	493	L	ttG/ttA	.	.	.	1	C16orf11	HGNC	14139	protein_coding	YES	CCDS45365.1	ENSP00000386499	CP011_HUMAN	.	UPI000006F4B0	.	.	.	3/3	.	hmmpanther:PTHR14678,hmmpanther:PTHR14678:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTGACCGG	.	5	BLCA
EDC4	0	.	GRCh37	16	67914796	67914796	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2434G>A	p.Glu812Lys	p.E812K	ENST00000358933	18/29	62	47	14	107	107	0	EDC4,missense_variant,p.Glu812Lys,ENST00000358933,;EDC4,upstream_gene_variant,,ENST00000577105,;NRN1L,upstream_gene_variant,,ENST00000576147,;NRN1L,upstream_gene_variant,,ENST00000339176,;NRN1L,upstream_gene_variant,,ENST00000576758,;EDC4,upstream_gene_variant,,ENST00000575033,;EDC4,upstream_gene_variant,,ENST00000573985,;CTC-479C5.10,upstream_gene_variant,,ENST00000572067,;AC040162.1,downstream_gene_variant,,ENST00000408599,;EDC4,downstream_gene_variant,,ENST00000574770,;EDC4,non_coding_transcript_exon_variant,,ENST00000577028,;EDC4,non_coding_transcript_exon_variant,,ENST00000576972,;EDC4,non_coding_transcript_exon_variant,,ENST00000573992,;EDC4,non_coding_transcript_exon_variant,,ENST00000572221,;EDC4,non_coding_transcript_exon_variant,,ENST00000572724,;EDC4,downstream_gene_variant,,ENST00000536072,;EDC4,downstream_gene_variant,,ENST00000572031,;EDC4,upstream_gene_variant,,ENST00000575507,;EDC4,upstream_gene_variant,,ENST00000575514,;	A	ENSG00000038358	ENST00000358933	Transcript	missense_variant	2673	2434	812	E/K	Gag/Aag	.	.	.	1	EDC4	HGNC	17157	protein_coding	YES	CCDS10849.1	ENSP00000351811	EDC4_HUMAN	.	UPI0000141377	.	deleterious(0)	probably_damaging(0.957)	18/29	.	hmmpanther:PTHR15598	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGGAGGCA	.	5	BLCA
PDF	0	.	GRCh37	16	69362930	69362930	+	Missense_Mutation	SNP	C	C	T	rs770713095	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.727G>A	p.Asp243Asn	p.D243N	ENST00000288022	2/2	147	122	24	158	158	0	PDF,missense_variant,p.Asp243Asn,ENST00000288022,;RP11-343C2.12,3_prime_UTR_variant,,ENST00000562949,;COG8,3_prime_UTR_variant,,ENST00000306875,;COG8,intron_variant,,ENST00000562595,;VPS4A,downstream_gene_variant,,ENST00000254950,;COG8,downstream_gene_variant,,ENST00000562081,;COG8,upstream_gene_variant,,ENST00000564419,;VPS4A,downstream_gene_variant,,ENST00000566354,;	T	ENSG00000258429	ENST00000288022	Transcript	missense_variant	752	727	243	D/N	Gac/Aac	rs770713095	.	.	-1	PDF	HGNC	30012	protein_coding	YES	CCDS10875.1	ENSP00000288022	DEFM_HUMAN	.	UPI000003C676	.	deleterious(0)	benign(0.055)	2/2	.	hmmpanther:PTHR10458,hmmpanther:PTHR10458:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTAGTCATTCA	.	4	BLCA
SF3B3	0	.	GRCh37	16	70562829	70562829	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.124C>T	p.Arg42Cys	p.R42C	ENST00000302516	3/26	52	43	8	76	76	0	SF3B3,missense_variant,p.Arg42Cys,ENST00000302516,;SF3B3,missense_variant,p.Arg42Cys,ENST00000577085,;SF3B3,5_prime_UTR_variant,,ENST00000569687,;SF3B3,5_prime_UTR_variant,,ENST00000567654,;SF3B3,downstream_gene_variant,,ENST00000566095,;SF3B3,downstream_gene_variant,,ENST00000564899,;SNORD111B,upstream_gene_variant,,ENST00000408587,;	T	ENSG00000189091	ENST00000302516	Transcript	missense_variant	335	124	42	R/C	Cgc/Tgc	COSM3511394	.	.	1	SF3B3	HGNC	10770	protein_coding	YES	CCDS10894.1	ENSP00000305790	SF3B3_HUMAN	J3QRB2_HUMAN,J3QL37_HUMAN,I3L4G7_HUMAN,H3BMB0_HUMAN,B3KM77_HUMAN	UPI0000167878	.	deleterious(0)	possibly_damaging(0.776)	3/26	.	hmmpanther:PTHR10644,hmmpanther:PTHR10644:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCGCCCA	.	5	BLCA
HYDIN	0	.	GRCh37	16	71065688	71065688	+	Nonsense_Mutation	SNP	C	C	A	rs751437046	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2662G>T	p.Glu888Ter	p.E888*	ENST00000393567	19/86	15	11	4	21	21	0	HYDIN,stop_gained,p.Glu888Ter,ENST00000448089,;HYDIN,stop_gained,p.Glu888Ter,ENST00000448691,;HYDIN,stop_gained,p.Glu888Ter,ENST00000393567,;HYDIN,stop_gained,p.Glu905Ter,ENST00000541601,;HYDIN,stop_gained,p.Glu915Ter,ENST00000538248,;HYDIN,stop_gained,p.Glu888Ter,ENST00000321489,;HYDIN,stop_gained,p.Glu506Ter,ENST00000393552,;HYDIN,stop_gained,p.Glu73Ter,ENST00000538568,;HYDIN,3_prime_UTR_variant,,ENST00000545230,;HYDIN,3_prime_UTR_variant,,ENST00000539447,;HYDIN,non_coding_transcript_exon_variant,,ENST00000540892,;	A	ENSG00000157423	ENST00000393567	Transcript	stop_gained	2813	2662	888	E/*	Gaa/Taa	rs751437046	.	.	-1	HYDIN	HGNC	19368	protein_coding	YES	CCDS59269.1	ENSP00000377197	HYDIN_HUMAN	K0A1M3_HUMAN,I1Z9D0_HUMAN,F5H8I6_HUMAN,F5GXK3_HUMAN	UPI0001FEF4F9	.	.	.	19/86	.	hmmpanther:PTHR23053,hmmpanther:PTHR23053:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	ATTTTCAATGT	.	2	BLCA
SCO1	0	.	GRCh37	17	10595195	10595195	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.649G>T	p.Val217Leu	p.V217L	ENST00000255390	4/6	32	28	4	53	53	0	SCO1,missense_variant,p.Val186Leu,ENST00000577427,;SCO1,missense_variant,p.Val217Leu,ENST00000255390,;SCO1,downstream_gene_variant,,ENST00000582053,;SCO1,downstream_gene_variant,,ENST00000577335,;SCO1,downstream_gene_variant,,ENST00000579396,;	A	ENSG00000133028	ENST00000255390	Transcript	missense_variant	710	649	217	V/L	Gtg/Ttg	.	.	.	-1	SCO1	HGNC	10603	protein_coding	YES	CCDS11158.1	ENSP00000255390	SCO1_HUMAN	K7EMB5_HUMAN,J3QR42_HUMAN	UPI000013566A	.	tolerated(0.05)	benign(0.2)	4/6	.	hmmpanther:PTHR12151:SF4,hmmpanther:PTHR12151,Pfam_domain:PF02630,Gene3D:3.40.30.10,PIRSF_domain:PIRSF037736,Superfamily_domains:SSF52833	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCACATAAT	.	2	BLCA
TSR1	0	.	GRCh37	17	2234307	2234307	+	Silent	SNP	C	C	T	rs575906987	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1593G>A	p.%3D	p.Q531Q	ENST00000301364	9/15	51	43	8	59	59	0	TSR1,synonymous_variant,p.%3D,ENST00000301364,;TSR1,downstream_gene_variant,,ENST00000576112,;SNORD91B,upstream_gene_variant,,ENST00000391250,;SNORD91A,upstream_gene_variant,,ENST00000390861,;SNORD91A,upstream_gene_variant,,ENST00000609620,;SNORD91B,upstream_gene_variant,,ENST00000608459,;TSR1,downstream_gene_variant,,ENST00000576202,;TSR1,downstream_gene_variant,,ENST00000571806,;TSR1,upstream_gene_variant,,ENST00000575049,;	T	ENSG00000167721	ENST00000301364	Transcript	synonymous_variant	2673	1593	531	Q	caG/caA	rs575906987	.	.	-1	TSR1	HGNC	25542	protein_coding	YES	CCDS32525.1	ENSP00000301364	TSR1_HUMAN	.	UPI00002005DF	.	.	.	9/15	.	hmmpanther:PTHR12858,Pfam_domain:PF04950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGTTCTGAAA	.	4	BLCA
PCGF2	0	.	GRCh37	17	36894838	36894838	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>C	p.Glu146Gln	p.E146Q	ENST00000580830	9/12	49	45	4	103	103	0	PCGF2,missense_variant,p.Arg93Pro,ENST00000578109,;PCGF2,missense_variant,p.Arg147Pro,ENST00000579882,;PCGF2,missense_variant,p.Arg147Pro,ENST00000585100,;PCGF2,missense_variant,p.Glu146Gln,ENST00000581345,;PCGF2,missense_variant,p.Glu146Gln,ENST00000360797,;PCGF2,missense_variant,p.Glu146Gln,ENST00000580830,;CISD3,downstream_gene_variant,,ENST00000439660,;PCGF2,upstream_gene_variant,,ENST00000578487,;CISD3,downstream_gene_variant,,ENST00000578573,;CISD3,downstream_gene_variant,,ENST00000581668,;	G	ENSG00000056661	ENST00000580830	Transcript	missense_variant	1138	436	146	E/Q	Gag/Cag	.	.	.	-1	PCGF2	HGNC	12929	protein_coding	YES	CCDS32638.1	ENSP00000461961	PCGF2_HUMAN	.	UPI0000001279	.	tolerated(0.09)	benign(0.004)	9/12	.	hmmpanther:PTHR10825:SF22,hmmpanther:PTHR10825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.D145D|c.435C>T|3	MUTECT|MUSE|VARSCANS	CTTCTCGTCCC	.	3	BLCA
ERBB2	0	.	GRCh37	17	37881132	37881132	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2461G>C	p.Asp821His	p.D821H	ENST00000269571	20/27	34	26	8	42	42	0	ERBB2,missense_variant,p.Asp190His,ENST00000580074,;ERBB2,missense_variant,p.Asp821His,ENST00000584450,;ERBB2,missense_variant,p.Asp806His,ENST00000541774,;ERBB2,missense_variant,p.Asp545His,ENST00000445658,;ERBB2,missense_variant,p.Asp821His,ENST00000269571,;ERBB2,missense_variant,p.Asp791His,ENST00000406381,;ERBB2,missense_variant,p.Asp791His,ENST00000540147,;ERBB2,missense_variant,p.Asp791His,ENST00000584601,;MIEN1,downstream_gene_variant,,ENST00000577810,;ERBB2,downstream_gene_variant,,ENST00000582818,;MIEN1,downstream_gene_variant,,ENST00000394231,;MIR4728,upstream_gene_variant,,ENST00000580969,;ERBB2,upstream_gene_variant,,ENST00000584888,;MIEN1,downstream_gene_variant,,ENST00000474210,;ERBB2,3_prime_UTR_variant,,ENST00000578373,;ERBB2,non_coding_transcript_exon_variant,,ENST00000583038,;MIEN1,downstream_gene_variant,,ENST00000582963,;ERBB2,downstream_gene_variant,,ENST00000584684,;ERBB2,downstream_gene_variant,,ENST00000578630,;MIEN1,downstream_gene_variant,,ENST00000469568,;MIEN1,downstream_gene_variant,,ENST00000498164,;	C	ENSG00000141736	ENST00000269571	Transcript	missense_variant	2620	2461	821	D/H	Gac/Cac	COSM116059	.	.	1	ERBB2	HGNC	3430	protein_coding	YES	CCDS32642.1	ENSP00000269571	ERBB2_HUMAN	Q9NP09_HUMAN,J3QLV2_HUMAN,J3KS21_HUMAN,F5H1T4_HUMAN	UPI000003F55F	.	tolerated(0.53)	benign(0.213)	20/27	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF137,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000619,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCAGGACCTG	.	5	BLCA
ATP2A3	0	.	GRCh37	17	3838515	3838515	+	Missense_Mutation	SNP	C	C	T	rs765065974	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2581G>A	p.Glu861Lys	p.E861K	ENST00000359983	17/23	21	15	6	50	50	0	ATP2A3,missense_variant,p.Glu861Lys,ENST00000397043,;ATP2A3,missense_variant,p.Glu861Lys,ENST00000359983,;ATP2A3,missense_variant,p.Glu861Lys,ENST00000309890,;ATP2A3,missense_variant,p.Glu861Lys,ENST00000397035,;ATP2A3,missense_variant,p.Glu861Lys,ENST00000397041,;ATP2A3,missense_variant,p.Glu861Lys,ENST00000352011,;ATP2A3,missense_variant,p.Glu45Lys,ENST00000397039,;ATP2A3,upstream_gene_variant,,ENST00000572116,;ATP2A3,upstream_gene_variant,,ENST00000570845,;ATP2A3,non_coding_transcript_exon_variant,,ENST00000576957,;ATP2A3,non_coding_transcript_exon_variant,,ENST00000572176,;ATP2A3,upstream_gene_variant,,ENST00000570773,;ATP2A3,upstream_gene_variant,,ENST00000571245,;	T	ENSG00000074370	ENST00000359983	Transcript	missense_variant	2581	2581	861	E/K	Gag/Aag	rs765065974	.	.	-1	ATP2A3	HGNC	813	protein_coding	YES	CCDS11042.1	ENSP00000353072	AT2A3_HUMAN	.	UPI0000161584	.	tolerated(0.33)	possibly_damaging(0.562)	17/23	.	Superfamily_domains:0049473,Pfam_domain:PF00689,Gene3D:1.20.1110.10,hmmpanther:PTHR24093,hmmpanther:PTHR24093:SF280	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCGGCGT	.	5	BLCA
TNS4	0	.	GRCh37	17	38641231	38641231	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1317G>A	p.Met439Ile	p.M439I	ENST00000254051	5/13	41	32	9	63	63	0	TNS4,missense_variant,p.Met439Ile,ENST00000254051,;TNS4,upstream_gene_variant,,ENST00000497303,;TNS4,upstream_gene_variant,,ENST00000394072,;	T	ENSG00000131746	ENST00000254051	Transcript	missense_variant	1476	1317	439	M/I	atG/atA	.	.	.	-1	TNS4	HGNC	24352	protein_coding	YES	CCDS11368.1	ENSP00000254051	TENS4_HUMAN	.	UPI000013CE0F	.	deleterious(0)	probably_damaging(0.991)	5/13	.	hmmpanther:PTHR12583,hmmpanther:PTHR12583:SF20,Superfamily_domains:SSF55550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCATGGT	.	5	BLCA
CYB5D2	0	.	GRCh37	17	4046967	4046967	+	5'UTR	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-83G>T	.	.	ENST00000301391	1/4	33	26	7	55	55	0	CYB5D2,5_prime_UTR_variant,,ENST00000301391,;CYB5D2,5_prime_UTR_variant,,ENST00000575251,;CYB5D2,intron_variant,,ENST00000577075,;CYB5D2,upstream_gene_variant,,ENST00000573984,;ZZEF1,upstream_gene_variant,,ENST00000381638,;ZZEF1,upstream_gene_variant,,ENST00000574474,;	T	ENSG00000167740	ENST00000301391	Transcript	5_prime_UTR_variant	418	.	.	.	.	.	.	.	1	CYB5D2	HGNC	28471	protein_coding	YES	CCDS11044.1	ENSP00000301391	NEUFC_HUMAN	.	UPI000006E3B0	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGATGACGTC	.	2	BLCA
COASY	0	.	GRCh37	17	40714723	40714723	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170C>T	p.Ser57Leu	p.S57L	ENST00000590958	3/11	32	29	3	45	45	0	COASY,missense_variant,p.Ser28Leu,ENST00000585811,;COASY,missense_variant,p.Ser57Leu,ENST00000585909,;COASY,missense_variant,p.Ser28Leu,ENST00000421097,;COASY,missense_variant,p.Ser28Leu,ENST00000586771,;COASY,missense_variant,p.Ser28Leu,ENST00000587214,;COASY,missense_variant,p.Ser28Leu,ENST00000393818,;COASY,missense_variant,p.Ser28Leu,ENST00000420359,;COASY,missense_variant,p.Ser57Leu,ENST00000590958,;COASY,missense_variant,p.Ser57Leu,ENST00000587858,;COASY,intron_variant,,ENST00000449624,;COASY,intron_variant,,ENST00000587157,;COASY,intron_variant,,ENST00000591779,;MLX,upstream_gene_variant,,ENST00000346833,;MLX,upstream_gene_variant,,ENST00000246912,;MLX,upstream_gene_variant,,ENST00000435881,;MLX,upstream_gene_variant,,ENST00000591024,;COASY,downstream_gene_variant,,ENST00000588757,;RP11-400F19.8,downstream_gene_variant,,ENST00000585572,;MLX,upstream_gene_variant,,ENST00000586393,;MLX,upstream_gene_variant,,ENST00000592717,;MLX,upstream_gene_variant,,ENST00000591195,;COASY,upstream_gene_variant,,ENST00000588353,;MLX,upstream_gene_variant,,ENST00000590050,;MLX,upstream_gene_variant,,ENST00000590084,;COASY,upstream_gene_variant,,ENST00000591583,;COASY,upstream_gene_variant,,ENST00000591753,;MLX,upstream_gene_variant,,ENST00000585403,;	T	ENSG00000068120	ENST00000590958	Transcript	missense_variant	295	170	57	S/L	tCg/tTg	COSM398959,COSM3712319,COSM3712318	.	.	1	COASY	HGNC	29932	protein_coding	YES	CCDS45685.1	ENSP00000464814	COASY_HUMAN	K7ESK6_HUMAN,K7ES73_HUMAN,K7EQ60_HUMAN,K7EPT0_HUMAN,K7EP09_HUMAN,K7EN91_HUMAN	UPI00018131ED	.	tolerated(0.11)	benign(0.026)	3/11	.	.	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACCTCGGCGG	.	2	BLCA
BRCA1	0	.	GRCh37	17	41244679	41244679	+	Missense_Mutation	SNP	G	G	C	rs80356973	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2869C>G	p.Gln957Glu	p.Q957E	ENST00000471181	10/24	163	142	21	141	141	0	BRCA1,missense_variant,p.Gln957Glu,ENST00000346315,;BRCA1,missense_variant,p.Gln957Glu,ENST00000357654,;BRCA1,missense_variant,p.Gln661Glu,ENST00000309486,;BRCA1,missense_variant,p.Gln957Glu,ENST00000354071,;BRCA1,missense_variant,p.Gln910Glu,ENST00000493795,;BRCA1,missense_variant,p.Gln957Glu,ENST00000471181,;BRCA1,intron_variant,,ENST00000352993,;BRCA1,intron_variant,,ENST00000351666,;BRCA1,intron_variant,,ENST00000591534,;BRCA1,intron_variant,,ENST00000493919,;BRCA1,intron_variant,,ENST00000586385,;BRCA1,intron_variant,,ENST00000591849,;BRCA1,intron_variant,,ENST00000468300,;BRCA1,intron_variant,,ENST00000478531,;BRCA1,intron_variant,,ENST00000491747,;BRCA1,intron_variant,,ENST00000484087,;BRCA1,intron_variant,,ENST00000487825,;BRCA1,downstream_gene_variant,,ENST00000470026,;BRCA1,downstream_gene_variant,,ENST00000494123,;BRCA1,downstream_gene_variant,,ENST00000477152,;BRCA1,downstream_gene_variant,,ENST00000476777,;BRCA1,downstream_gene_variant,,ENST00000497488,;BRCA1,downstream_gene_variant,,ENST00000473961,;BRCA1,upstream_gene_variant,,ENST00000461574,;BRCA1,3_prime_UTR_variant,,ENST00000461221,;BRCA1,non_coding_transcript_exon_variant,,ENST00000467274,;BRCA1,downstream_gene_variant,,ENST00000492859,;BRCA1,downstream_gene_variant,,ENST00000412061,;	C	ENSG00000012048	ENST00000471181	Transcript	missense_variant	3101	2869	957	Q/E	Cag/Gag	CM993724,rs80356973	.	.	-1	BRCA1	HGNC	1100	protein_coding	YES	CCDS11456.2	ENSP00000418960	.	Q9UE29_HUMAN,Q9NQR3_HUMAN,Q92897_HUMAN,Q7KYU6_HUMAN,Q4EW25_HUMAN,Q3YB53_HUMAN,Q3YB50_HUMAN,Q3YB49_HUMAN,Q3B891_HUMAN,K7EPC7_HUMAN,K4K7V3_HUMAN,K4JXS7_HUMAN,K4JUB1_HUMAN,G4V503_HUMAN,G4V502_HUMAN,G4V500_HUMAN,G4V4Z8_HUMAN,G4V4Z7_HUMAN,G1UI37_HUMAN,E9PFC7_HUMAN,E7EWN5_HUMAN,C9IZW4_HUMAN,C4PFY7_HUMAN	UPI0000E0360B	.	deleterious(0.03)	possibly_damaging(0.637)	10/24	.	hmmpanther:PTHR13763:SF0,hmmpanther:PTHR13763,Pfam_domain:PF04873,PIRSF_domain:PIRSF001734	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	.	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAACTGAGATG	.	4	BLCA
LRRC37A2	0	.	GRCh37	17	44626463	44626463	+	Missense_Mutation	SNP	A	A	G	rs781291614	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3958A>G	p.Lys1320Glu	p.K1320E	ENST00000576629	10/15	146	130	16	184	184	0	LRRC37A2,missense_variant,p.Lys1320Glu,ENST00000576629,;LRRC37A2,missense_variant,p.Lys1320Glu,ENST00000333412,;ARL17A,intron_variant,,ENST00000337845,;ARL17A,intron_variant,,ENST00000573185,;ARL17A,intron_variant,,ENST00000445552,;ARL17A,intron_variant,,ENST00000329240,;ARL17A,downstream_gene_variant,,ENST00000336125,;ARL17A,downstream_gene_variant,,ENST00000570550,;LRRC37A2,non_coding_transcript_exon_variant,,ENST00000572638,;	G	ENSG00000238083	ENST00000576629	Transcript	missense_variant	4453	3958	1320	K/E	Aaa/Gaa	rs781291614	.	.	1	LRRC37A2	HGNC	32404	protein_coding	YES	CCDS42353.1	ENSP00000459551	L37A2_HUMAN	.	UPI0000E59258	.	tolerated(0.24)	benign(0.048)	10/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23045	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CACCCAAAGTC	byFrequency	3	BLCA
MYCBPAP	0	.	GRCh37	17	48586058	48586058	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.152C>T	p.Ser51Phe	p.S51F	ENST00000323776	1/19	39	33	6	42	42	0	MYCBPAP,missense_variant,p.Ser51Phe,ENST00000419930,;MYCBPAP,missense_variant,p.Ser51Phe,ENST00000452039,;MYCBPAP,missense_variant,p.Ser14Phe,ENST00000436259,;MYCBPAP,missense_variant,p.Ser51Phe,ENST00000576179,;MYCBPAP,missense_variant,p.Ser51Phe,ENST00000323776,;RP11-94C24.6,upstream_gene_variant,,ENST00000502300,;MYCBPAP,missense_variant,p.Ser26Phe,ENST00000437498,;MYCBPAP,synonymous_variant,p.%3D,ENST00000458692,;MYCBPAP,non_coding_transcript_exon_variant,,ENST00000470609,;	T	ENSG00000136449	ENST00000323776	Transcript	missense_variant	314	152	51	S/F	tCc/tTc	.	.	.	1	MYCBPAP	HGNC	19677	protein_coding	YES	CCDS32680.2	ENSP00000323184	MYBPP_HUMAN	.	UPI0000E5A00B	.	deleterious(0)	probably_damaging(0.992)	1/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCCCGCC	.	5	BLCA
SPAG9	0	.	GRCh37	17	49071168	49071168	+	Silent	SNP	G	G	A	rs781563922	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2355C>T	p.%3D	p.F785F	ENST00000262013	19/30	50	41	8	66	66	0	SPAG9,synonymous_variant,p.%3D,ENST00000510283,;SPAG9,synonymous_variant,p.%3D,ENST00000513906,;SPAG9,synonymous_variant,p.%3D,ENST00000357122,;SPAG9,synonymous_variant,p.%3D,ENST00000505279,;SPAG9,synonymous_variant,p.%3D,ENST00000262013,;SPAG9,non_coding_transcript_exon_variant,,ENST00000514613,;SPAG9,non_coding_transcript_exon_variant,,ENST00000506483,;SPAG9,non_coding_transcript_exon_variant,,ENST00000505173,;SPAG9,downstream_gene_variant,,ENST00000513827,;SPAG9,upstream_gene_variant,,ENST00000513746,;SPAG9,downstream_gene_variant,,ENST00000515685,;SPAG9,upstream_gene_variant,,ENST00000514205,;	A	ENSG00000008294	ENST00000262013	Transcript	synonymous_variant	2564	2355	785	F	ttC/ttT	rs781563922	.	.	-1	SPAG9	HGNC	14524	protein_coding	YES	CCDS45740.1	ENSP00000262013	JIP4_HUMAN	H0Y981_HUMAN	UPI0000D60DF7	.	.	.	19/30	.	hmmpanther:PTHR13886	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTGAAACT	.	5	BLCA
NUP88	0	.	GRCh37	17	5322721	5322721	+	Missense_Mutation	SNP	G	G	A	rs745395510	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.250C>T	p.Arg84Trp	p.R84W	ENST00000573584	1/17	37	25	12	56	56	0	NUP88,missense_variant,p.Arg23Trp,ENST00000225696,;NUP88,missense_variant,p.Arg84Trp,ENST00000573584,;RPAIN,upstream_gene_variant,,ENST00000536255,;RPAIN,upstream_gene_variant,,ENST00000381209,;RPAIN,upstream_gene_variant,,ENST00000381208,;RPAIN,upstream_gene_variant,,ENST00000574003,;RPAIN,upstream_gene_variant,,ENST00000327154,;NUP88,upstream_gene_variant,,ENST00000572809,;RPAIN,upstream_gene_variant,,ENST00000405578,;NUP88,non_coding_transcript_exon_variant,,ENST00000572019,;NUP88,missense_variant,p.Arg84Trp,ENST00000572290,;NUP88,non_coding_transcript_exon_variant,,ENST00000574867,;RPAIN,upstream_gene_variant,,ENST00000575599,;RPAIN,upstream_gene_variant,,ENST00000571043,;RPAIN,upstream_gene_variant,,ENST00000573126,;RPAIN,upstream_gene_variant,,ENST00000539417,;RPAIN,upstream_gene_variant,,ENST00000570883,;RPAIN,upstream_gene_variant,,ENST00000571613,;RPAIN,upstream_gene_variant,,ENST00000571558,;RPAIN,upstream_gene_variant,,ENST00000575112,;RPAIN,upstream_gene_variant,,ENST00000572174,;RPAIN,upstream_gene_variant,,ENST00000573577,;RPAIN,upstream_gene_variant,,ENST00000575711,;	A	ENSG00000108559	ENST00000573584	Transcript	missense_variant	760	250	84	R/W	Cgg/Tgg	rs745395510	.	.	-1	NUP88	HGNC	8067	protein_coding	YES	CCDS11070.1	ENSP00000458954	NUP88_HUMAN	I3L245_HUMAN	UPI0000130894	.	deleterious(0.02)	probably_damaging(0.999)	1/17	.	hmmpanther:PTHR13257:SF0,hmmpanther:PTHR13257,Pfam_domain:PF10168	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCCGAAGGC	.	5	BLCA
GNA13	0	.	GRCh37	17	63049731	63049731	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399C>T	p.%3D	p.A133A	ENST00000439174	2/4	206	186	19	248	248	0	GNA13,synonymous_variant,p.%3D,ENST00000541118,;GNA13,synonymous_variant,p.%3D,ENST00000439174,;RP11-583F2.5,downstream_gene_variant,,ENST00000581796,;	A	ENSG00000120063	ENST00000439174	Transcript	synonymous_variant	645	399	133	A	gcC/gcT	.	.	.	-1	GNA13	HGNC	4381	protein_coding	YES	CCDS11661.1	ENSP00000400717	GNA13_HUMAN	F5H1G8_HUMAN	UPI0000073EBA	.	.	.	2/4	.	hmmpanther:PTHR10218:SF85,hmmpanther:PTHR10218,Gene3D:1.10.400.10,Pfam_domain:PF00503,SMART_domains:SM00275,Superfamily_domains:SSF47895	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTTGGGCTGC	.	3	BLCA
RNMTL1	0	.	GRCh37	17	694988	694988	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.942G>A	p.Met314Ile	p.M314I	ENST00000304478	4/4	39	31	8	83	83	0	RNMTL1,missense_variant,p.Met314Ile,ENST00000304478,;RNMTL1,downstream_gene_variant,,ENST00000571157,;RP11-676J12.8,upstream_gene_variant,,ENST00000574560,;RNMTL1,3_prime_UTR_variant,,ENST00000574509,;	A	ENSG00000171861	ENST00000304478	Transcript	missense_variant	1048	942	314	M/I	atG/atA	.	.	.	1	RNMTL1	HGNC	18485	protein_coding	YES	CCDS10997.1	ENSP00000306080	RMTL1_HUMAN	.	UPI000003B01C	.	tolerated(0.19)	benign(0.001)	4/4	.	hmmpanther:PTHR12029,Pfam_domain:PF00588	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGATGAAGTT	.	5	BLCA
KIAA0195	0	.	GRCh37	17	73485668	73485668	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.879C>T	p.%3D	p.L293L	ENST00000314256	9/32	34	30	4	33	33	0	KIAA0195,synonymous_variant,p.%3D,ENST00000314256,;KIAA0195,synonymous_variant,p.%3D,ENST00000375248,;KIAA0195,intron_variant,,ENST00000579208,;KIAA0195,intron_variant,,ENST00000581252,;KIAA0195,upstream_gene_variant,,ENST00000580918,;KIAA0195,upstream_gene_variant,,ENST00000578853,;KIAA0195,downstream_gene_variant,,ENST00000577380,;KIAA0195,downstream_gene_variant,,ENST00000582186,;KIAA0195,downstream_gene_variant,,ENST00000582455,;KIAA0195,downstream_gene_variant,,ENST00000581519,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000580416,;KIAA0195,intron_variant,,ENST00000583795,;KIAA0195,3_prime_UTR_variant,,ENST00000580441,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000585105,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581085,;KIAA0195,upstream_gene_variant,,ENST00000580849,;KIAA0195,upstream_gene_variant,,ENST00000583071,;KIAA0195,upstream_gene_variant,,ENST00000583296,;KIAA0195,upstream_gene_variant,,ENST00000579241,;KIAA0195,downstream_gene_variant,,ENST00000579707,;KIAA0195,downstream_gene_variant,,ENST00000584383,;KIAA0195,upstream_gene_variant,,ENST00000578624,;KIAA0195,upstream_gene_variant,,ENST00000582843,;KIAA0195,downstream_gene_variant,,ENST00000585277,;	T	ENSG00000177728	ENST00000314256	Transcript	synonymous_variant	1273	879	293	L	ctC/ctT	.	.	.	1	KIAA0195	HGNC	28983	protein_coding	YES	CCDS32732.1	ENSP00000313885	K0195_HUMAN	J3QS17_HUMAN,J3QRT3_HUMAN,J3QLM7_HUMAN,J3KT63_HUMAN,J3KRU7_HUMAN	UPI0000139439	.	.	.	9/32	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13219:SF6,hmmpanther:PTHR13219	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCCTCATCAC	.	3	BLCA
METTL23	0	.	GRCh37	17	74729619	74729619	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.424G>A	p.Glu142Lys	p.E142K	ENST00000341249	5/5	178	139	38	170	170	0	METTL23,missense_variant,p.Glu75Lys,ENST00000590964,;METTL23,missense_variant,p.Glu23Lys,ENST00000586200,;METTL23,missense_variant,p.Glu142Lys,ENST00000588563,;METTL23,missense_variant,p.Glu75Lys,ENST00000588822,;METTL23,missense_variant,p.Glu142Lys,ENST00000592849,;METTL23,missense_variant,p.Glu75Lys,ENST00000586752,;METTL23,missense_variant,p.Glu142Lys,ENST00000341249,;METTL23,3_prime_UTR_variant,,ENST00000588783,;METTL23,3_prime_UTR_variant,,ENST00000586738,;METTL23,3_prime_UTR_variant,,ENST00000591571,;METTL23,3_prime_UTR_variant,,ENST00000588302,;RP11-318A15.7,intron_variant,,ENST00000587459,;SRSF2,downstream_gene_variant,,ENST00000392485,;MFSD11,upstream_gene_variant,,ENST00000336509,;MFSD11,upstream_gene_variant,,ENST00000586622,;SRSF2,downstream_gene_variant,,ENST00000508921,;MFSD11,upstream_gene_variant,,ENST00000588460,;MFSD11,upstream_gene_variant,,ENST00000590514,;SRSF2,downstream_gene_variant,,ENST00000358156,;SRSF2,downstream_gene_variant,,ENST00000583836,;MFSD11,upstream_gene_variant,,ENST00000593181,;MFSD11,upstream_gene_variant,,ENST00000591864,;MFSD11,upstream_gene_variant,,ENST00000587661,;MFSD11,upstream_gene_variant,,ENST00000355954,;MFSD11,upstream_gene_variant,,ENST00000586689,;MFSD11,upstream_gene_variant,,ENST00000590393,;METTL23,downstream_gene_variant,,ENST00000588964,;SRSF2,downstream_gene_variant,,ENST00000359995,;METTL23,downstream_gene_variant,,ENST00000589977,;MIR636,downstream_gene_variant,,ENST00000384825,;METTL23,non_coding_transcript_exon_variant,,ENST00000589581,;SRSF2,downstream_gene_variant,,ENST00000589919,;SRSF2,downstream_gene_variant,,ENST00000582449,;MFSD11,upstream_gene_variant,,ENST00000588031,;MFSD11,upstream_gene_variant,,ENST00000588768,;SRSF2,downstream_gene_variant,,ENST00000592676,;SRSF2,downstream_gene_variant,,ENST00000585202,;SRSF2,downstream_gene_variant,,ENST00000586778,;MFSD11,upstream_gene_variant,,ENST00000588670,;SRSF2,downstream_gene_variant,,ENST00000452355,;	A	ENSG00000181038	ENST00000341249	Transcript	missense_variant	756	424	142	E/K	Gaa/Aaa	.	.	.	1	METTL23	HGNC	26988	protein_coding	YES	CCDS45787.1	ENSP00000341543	MET23_HUMAN	K7EPT5_HUMAN,K7EPR8_HUMAN,K7ENU9_HUMAN,K7EL83_HUMAN,K7EK32_HUMAN,H9ZYJ0_HUMAN	UPI000016111D	.	deleterious(0)	possibly_damaging(0.794)	5/5	.	hmmpanther:PTHR14614:SF2,hmmpanther:PTHR14614,Gene3D:3.40.50.150	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTTGAAGCT	.	5	BLCA
TP53	0	.	GRCh37	17	7578268	7578268	+	Missense_Mutation	SNP	A	A	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.581T>A	p.Leu194His	p.L194H	ENST00000269305	6/11	20	17	3	51	51	0	TP53,missense_variant,p.Leu194His,ENST00000413465,;TP53,missense_variant,p.Leu194His,ENST00000420246,;TP53,missense_variant,p.Leu194His,ENST00000269305,;TP53,missense_variant,p.Leu62His,ENST00000509690,;TP53,missense_variant,p.Leu194His,ENST00000359597,;TP53,missense_variant,p.Leu101His,ENST00000514944,;TP53,missense_variant,p.Leu194His,ENST00000445888,;TP53,missense_variant,p.Leu194His,ENST00000455263,;TP53,downstream_gene_variant,,ENST00000508793,;TP53,downstream_gene_variant,,ENST00000604348,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,downstream_gene_variant,,ENST00000503591,;TP53,intron_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000504937,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,non_coding_transcript_exon_variant,,ENST00000504290,;TP53,non_coding_transcript_exon_variant,,ENST00000510385,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	771	581	194	L/H	cTt/cAt	TP53_g.12650T>A,TP53_g.12650del,TP53_g.12650T>C,TP53_g.12650T>G,COSM44571,COSM43827,COSM45205,COSM43623,COSM169019,COSM117650,COSM437525,COSM117647,COSM169018,COSM437526,COSM117648,COSM169020,COSM437528,COSM3675532,COSM3403268,COSM1649391,COSM3675531,COSM117649,COSM437527,COSM169021	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(1)	6/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417	.	.	.	.	.	.	.	.	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,0,0,0,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.L194H|c.581T>A|6,CODON|p.0?|c.1_1182del1182|6,CODON|p.A189_V197delAPPQHLIRV|c.565_591del27|4,CODON|p.L194L|c.582T>C|3,CODON|p.L62R|c.185T>G|17,CODON|p.L194R|c.581T>G|50,CODON|p.L194R|c.581T>G|11,CODON|p.L194P|c.581T>C|9,CODON|p.L101R|c.302T>G|17,CODON|p.L194R|c.581T>G|9,CODON|p.L194R|c.581T>G|17,CODON|p.L194R|c.581T>G|17,BUFFER|p.E198*|c.592G>T|5,BUFFER|p.E198K|c.592G>A|5,BUFFER|p.E198*|c.592G>T|4,BUFFER|p.E105*|c.313G>T|9,BUFFER|p.E198*|c.592G>T|27,BUFFER|p.E198*|c.592G>T|9,BUFFER|p.E66*|c.196G>T|9,BUFFER|p.E198*|c.592G>T|9,BUFFER|p.V197G|c.590T>G|15,BUFFER|p.V197E|c.590T>A|8,BUFFER|p.V197L|c.589G>T|3,BUFFER|p.V65L|c.193G>T|3,BUFFER|p.V197M|c.589G>A|12,BUFFER|p.V197L|c.589G>T|5,BUFFER|p.V104L|c.310G>T|3,BUFFER|p.V197L|c.589G>T|3,BUFFER|p.R196R|c.588A>G|4,BUFFER|p.R196P|c.587G>C|6,BUFFER|p.R196P|c.587G>C|18,BUFFER|p.R64P|c.191G>C|7,BUFFER|p.R196Q|c.587G>A|4,BUFFER|p.R196P|c.587G>C|3,BUFFER|p.R196P|c.587G>C|6,BUFFER|p.R103P|c.308G>C|7,BUFFER|p.R196P|c.587G>C|3,BUFFER|p.R196*|c.585_586CC>TT|7,BUFFER|p.R196fs*51|c.586delC|3,BUFFER|p.R64fs*>27|c.190delC|3,BUFFER|p.R196fs*51|c.586delC|3,BUFFER|p.R103fs*51|c.307delC|3,BUFFER|p.R196fs*51|c.586delC|7,BUFFER|p.R64*|c.190C>T|65,BUFFER|p.R196*|c.586C>T|45,BUFFER|p.R196*|c.586C>T|33,BUFFER|p.R196*|c.586C>T|64,BUFFER|p.R196*|c.586C>T|64,BUFFER|p.R103*|c.307C>T|64,BUFFER|p.R196*|c.586C>T|180,BUFFER|p.I102N|c.305T>A|10,BUFFER|p.I102T|c.305T>C|21,BUFFER|p.I195N|c.584T>A|10,BUFFER|p.I63S|c.188T>G|3,BUFFER|p.I195T|c.584T>C|88,BUFFER|p.I195N|c.584T>A|4,BUFFER|p.I195T|c.584T>C|21,BUFFER|p.I63N|c.188T>A|10,BUFFER|p.I195T|c.584T>C|12,BUFFER|p.I63T|c.188T>C|21,BUFFER|p.I195T|c.584T>C|21,BUFFER|p.I195N|c.584T>A|10,BUFFER|p.I195N|c.584T>A|23,BUFFER|p.I195T|c.584T>C|10,BUFFER|p.I195N|c.584T>A|10,BUFFER|p.I195S|c.584T>G|7,BUFFER|p.I195F|c.583A>T|6,BUFFER|p.I195F|c.583A>T|28,BUFFER|p.I195F|c.583A>T|9,BUFFER|p.I63F|c.187A>T|9,BUFFER|p.I102F|c.304A>T|9,BUFFER|p.I195F|c.583A>T|5,BUFFER|p.I195F|c.583A>T|9,BUFFER|p.L194F|c.580C>T|3,BUFFER|p.L194F|c.580C>T|3,BUFFER|p.L194F|c.580C>T|19,BUFFER|p.L101F|c.301C>T|3,BUFFER|p.L62F|c.184C>T|3,BUFFER|p.H193fs*16|c.577_578insN|3,BUFFER|p.H193R|c.578A>G|8,BUFFER|p.H193L|c.578A>T|8,BUFFER|p.H193R|c.578A>G|89,BUFFER|p.H61P|c.182A>C|4,BUFFER|p.H100L|c.299A>T|8,BUFFER|p.H61R|c.182A>G|23,BUFFER|p.H193R|c.578A>G|21,BUFFER|p.H193L|c.578A>T|8,BUFFER|p.H193R|c.578A>G|22,BUFFER|p.H100R|c.299A>G|22,BUFFER|p.H100P|c.299A>C|4,BUFFER|p.H193P|c.578A>C|4,BUFFER|p.H193L|c.578A>T|3,BUFFER|p.H193L|c.578A>T|3,BUFFER|p.H193P|c.578A>C|16,BUFFER|p.H193R|c.578A>G|5,BUFFER|p.H193P|c.578A>C|3,BUFFER|p.H193L|c.578A>T|37,BUFFER|p.H61L|c.182A>T|10,BUFFER|p.H193N|c.577C>A|6,BUFFER|p.H193D|c.577C>G|8,BUFFER|p.H193Y|c.577C>T|5,BUFFER|p.H193Y|c.577C>T|40,BUFFER|p.H100Y|c.298C>T|15,BUFFER|p.H193Y|c.577C>T|15,BUFFER|p.H61Y|c.181C>T|15,BUFFER|p.H193Y|c.577C>T|15,BUFFER|p.H193Y|c.577C>T|3,BUFFER|p.Q192H|c.576G>T|3,BUFFER|p.Q192Q|c.576G>A|3,BUFFER|p.Q192R|c.575A>G|5,BUFFER|p.P191delP|c.572_574delCTC|3,BUFFER|p.P191delP|c.572_574delCTC|3,BUFFER|p.P191delP|c.572_574delCTC|5,BUFFER|p.P59delP|c.176_178delCTC|3,BUFFER|p.P98delP|c.293_295delCTC|3,BUFFER|p.Q192*|c.574C>T|6,BUFFER|p.Q99*|c.295C>T|17,BUFFER|p.Q192*|c.574C>T|10,BUFFER|p.Q192*|c.574C>T|17,BUFFER|p.Q192*|c.574C>T|86,BUFFER|p.Q192*|c.574C>T|17,BUFFER|p.Q60*|c.178C>T|17,BUFFER|p.P191fs*56|c.571delC|3,BUFFER|p.P191L|c.572C>T|3,BUFFER|p.P191delP|c.568_570delCCT|6,BUFFER|p.P190fs*57|c.569delC|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATAAGATGC	.	5	BLCA
RPTOR	0	.	GRCh37	17	78519457	78519457	+	Missense_Mutation	SNP	C	C	T	rs149692261	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28C>T	p.Leu10Phe	p.L10F	ENST00000306801	1/34	39	33	6	44	44	0	RPTOR,missense_variant,p.Leu10Phe,ENST00000570891,;RPTOR,missense_variant,p.Leu10Phe,ENST00000306801,;RPTOR,missense_variant,p.Leu10Phe,ENST00000544334,;RPTOR,5_prime_UTR_variant,,ENST00000537330,;RPTOR,non_coding_transcript_exon_variant,,ENST00000577161,;RPTOR,upstream_gene_variant,,ENST00000573746,;RPTOR,missense_variant,p.Leu10Phe,ENST00000574767,;RPL32P31,downstream_gene_variant,,ENST00000471666,;	T	ENSG00000141564	ENST00000306801	Transcript	missense_variant	390	28	10	L/F	Ctt/Ttt	rs149692261	.	.	1	RPTOR	HGNC	30287	protein_coding	YES	CCDS11773.1	ENSP00000307272	RPTOR_HUMAN	Q6DKI0_HUMAN	UPI000007000F	.	tolerated_low_confidence(0.25)	benign(0.001)	1/34	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12848	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CGCCTCTTCTG	byCluster	3	BLCA
RPTOR	0	.	GRCh37	17	78519460	78519460	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.31C>A	p.Leu11Met	p.L11M	ENST00000306801	1/34	38	32	6	42	42	0	RPTOR,missense_variant,p.Leu11Met,ENST00000570891,;RPTOR,missense_variant,p.Leu11Met,ENST00000306801,;RPTOR,missense_variant,p.Leu11Met,ENST00000544334,;RPTOR,5_prime_UTR_variant,,ENST00000537330,;RPTOR,non_coding_transcript_exon_variant,,ENST00000577161,;RPTOR,upstream_gene_variant,,ENST00000573746,;RPTOR,missense_variant,p.Leu11Met,ENST00000574767,;RPL32P31,downstream_gene_variant,,ENST00000471666,;	A	ENSG00000141564	ENST00000306801	Transcript	missense_variant	393	31	11	L/M	Ctg/Atg	.	.	.	1	RPTOR	HGNC	30287	protein_coding	YES	CCDS11773.1	ENSP00000307272	RPTOR_HUMAN	Q6DKI0_HUMAN	UPI000007000F	.	tolerated(0.09)	benign(0.265)	1/34	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12848	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTCTTCTGGGC	.	3	BLCA
SIRT7	0	.	GRCh37	17	79870244	79870244	+	3'UTR	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*48C>G	.	.	ENST00000328666	10/10	43	39	4	58	58	0	SIRT7,3_prime_UTR_variant,,ENST00000328666,;PCYT2,upstream_gene_variant,,ENST00000572995,;PCYT2,upstream_gene_variant,,ENST00000576343,;PCYT2,upstream_gene_variant,,ENST00000570391,;PCYT2,upstream_gene_variant,,ENST00000572473,;PCYT2,upstream_gene_variant,,ENST00000331285,;PCYT2,upstream_gene_variant,,ENST00000538936,;PCYT2,upstream_gene_variant,,ENST00000573927,;PCYT2,upstream_gene_variant,,ENST00000571105,;PCYT2,upstream_gene_variant,,ENST00000538721,;PCYT2,upstream_gene_variant,,ENST00000572157,;PCYT2,upstream_gene_variant,,ENST00000573636,;PCYT2,upstream_gene_variant,,ENST00000570388,;SIRT7,downstream_gene_variant,,ENST00000572902,;SIRT7,non_coding_transcript_exon_variant,,ENST00000574992,;SIRT7,non_coding_transcript_exon_variant,,ENST00000536038,;SIRT7,non_coding_transcript_exon_variant,,ENST00000572976,;SIRT7,non_coding_transcript_exon_variant,,ENST00000571832,;PCYT2,upstream_gene_variant,,ENST00000571581,;SIRT7,downstream_gene_variant,,ENST00000571233,;SIRT7,downstream_gene_variant,,ENST00000573576,;SIRT7,downstream_gene_variant,,ENST00000571213,;SIRT7,downstream_gene_variant,,ENST00000571915,;SIRT7,downstream_gene_variant,,ENST00000573367,;SIRT7,downstream_gene_variant,,ENST00000572671,;SIRT7,downstream_gene_variant,,ENST00000572350,;SIRT7,downstream_gene_variant,,ENST00000575360,;SIRT7,downstream_gene_variant,,ENST00000574495,;PCYT2,upstream_gene_variant,,ENST00000573401,;SIRT7,downstream_gene_variant,,ENST00000570367,;SIRT7,downstream_gene_variant,,ENST00000576156,;SIRT7,downstream_gene_variant,,ENST00000577065,;SIRT7,downstream_gene_variant,,ENST00000575244,;SIRT7,downstream_gene_variant,,ENST00000574153,;	C	ENSG00000187531	ENST00000328666	Transcript	3_prime_UTR_variant	1314	.	.	.	.	.	.	.	-1	SIRT7	HGNC	14935	protein_coding	YES	CCDS11792.1	ENSP00000329466	SIR7_HUMAN	I3L480_HUMAN	UPI0000072CE1	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCGTGACACT	.	2	BLCA
SLC16A3	0	.	GRCh37	17	80196829	80196829	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1375C>T	p.His459Tyr	p.H459Y	ENST00000581287	4/4	45	40	5	63	63	0	SLC16A3,missense_variant,p.His459Tyr,ENST00000392341,;SLC16A3,missense_variant,p.His459Tyr,ENST00000392339,;SLC16A3,missense_variant,p.His459Tyr,ENST00000582743,;SLC16A3,missense_variant,p.His459Tyr,ENST00000581287,;SLC16A3,intron_variant,,ENST00000582715,;SLC16A3,intron_variant,,ENST00000583025,;SLC16A3,downstream_gene_variant,,ENST00000580189,;SLC16A3,downstream_gene_variant,,ENST00000582946,;SLC16A3,downstream_gene_variant,,ENST00000578522,;SLC16A3,downstream_gene_variant,,ENST00000583237,;SLC16A3,downstream_gene_variant,,ENST00000578684,;SLC16A3,downstream_gene_variant,,ENST00000580098,;CSNK1D,downstream_gene_variant,,ENST00000398519,;CSNK1D,downstream_gene_variant,,ENST00000314028,;SLC16A3,downstream_gene_variant,,ENST00000577650,;SLC16A3,downstream_gene_variant,,ENST00000584689,;SLC16A3,downstream_gene_variant,,ENST00000584781,;CSNK1D,downstream_gene_variant,,ENST00000584672,;SLC16A3,downstream_gene_variant,,ENST00000578574,;SLC16A3,downstream_gene_variant,,ENST00000579572,;CSNK1D,downstream_gene_variant,,ENST00000581241,;SLC16A3,downstream_gene_variant,,ENST00000578810,;SLC16A3,downstream_gene_variant,,ENST00000581642,;	T	ENSG00000141526	ENST00000581287	Transcript	missense_variant	3697	1375	459	H/Y	Cac/Tac	.	.	.	1	SLC16A3	HGNC	10924	protein_coding	YES	CCDS11804.1	ENSP00000463978	MOT4_HUMAN	J3QSC3_HUMAN,J3QRU2_HUMAN,J3QRA0_HUMAN,J3QQS9_HUMAN,J3QLE3_HUMAN,J3KT83_HUMAN	UPI000012F3CC	.	deleterious(0.04)	benign(0.087)	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTTCACACC	.	4	BLCA
PIK3C3	0	.	GRCh37	18	39595442	39595442	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1328C>T	p.Ser443Phe	p.S443F	ENST00000262039	12/25	46	39	7	67	67	0	PIK3C3,missense_variant,p.Ser443Phe,ENST00000262039,;PIK3C3,missense_variant,p.Ser380Phe,ENST00000398870,;	T	ENSG00000078142	ENST00000262039	Transcript	missense_variant	1414	1328	443	S/F	tCc/tTc	.	.	.	1	PIK3C3	HGNC	8974	protein_coding	YES	CCDS11920.1	ENSP00000262039	PK3C3_HUMAN	M0R2C5_HUMAN,M0R0W7_HUMAN,M0R0U1_HUMAN,M0R0G8_HUMAN,M0QZG0_HUMAN	UPI00000708CE	.	deleterious(0.02)	benign(0.151)	12/25	.	PIRSF_domain:PIRSF000587,SMART_domains:SM00145,Pfam_domain:PF00613,hmmpanther:PTHR10048,PROSITE_profiles:PS51545	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCTCCCAAA	.	2	BLCA
EPB41L3	0	.	GRCh37	18	5478390	5478390	+	Silent	SNP	G	G	A	rs753802215	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231C>T	p.%3D	p.L77L	ENST00000341928	3/23	57	51	6	63	63	0	EPB41L3,synonymous_variant,p.%3D,ENST00000585142,;EPB41L3,synonymous_variant,p.%3D,ENST00000580308,;EPB41L3,synonymous_variant,p.%3D,ENST00000342933,;EPB41L3,synonymous_variant,p.%3D,ENST00000341928,;EPB41L3,synonymous_variant,p.%3D,ENST00000578503,;EPB41L3,synonymous_variant,p.%3D,ENST00000400111,;EPB41L3,synonymous_variant,p.%3D,ENST00000584015,;EPB41L3,synonymous_variant,p.%3D,ENST00000580989,;EPB41L3,synonymous_variant,p.%3D,ENST00000544123,;EPB41L3,synonymous_variant,p.%3D,ENST00000580179,;EPB41L3,synonymous_variant,p.%3D,ENST00000584651,;EPB41L3,synonymous_variant,p.%3D,ENST00000582703,;EPB41L3,synonymous_variant,p.%3D,ENST00000581833,;EPB41L3,synonymous_variant,p.%3D,ENST00000540638,;EPB41L3,intron_variant,,ENST00000584670,;EPB41L3,downstream_gene_variant,,ENST00000582592,;RP11-286N3.1,intron_variant,,ENST00000577527,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000578431,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000545076,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000581454,;EPB41L3,non_coding_transcript_exon_variant,,ENST00000580866,;	A	ENSG00000082397	ENST00000341928	Transcript	synonymous_variant	572	231	77	L	ctC/ctT	rs753802215	.	.	-1	EPB41L3	HGNC	3380	protein_coding	YES	CCDS11838.1	ENSP00000343158	E41L3_HUMAN	J3QS55_HUMAN,J3QRQ6_HUMAN,J3QR33_HUMAN,J3QKY2_HUMAN,J3QKK4_HUMAN,J3KS70_HUMAN,J3KRD1_HUMAN	UPI0000129AFA	.	.	.	3/23	.	hmmpanther:PTHR23280,hmmpanther:PTHR23280:SF20,PIRSF_domain:PIRSF002304	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTCGAGCTG	byFrequency	4	BLCA
AP1M2	0	.	GRCh37	19	10692495	10692495	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327C>T	p.%3D	p.I109I	ENST00000250244	4/12	22	16	6	32	32	0	AP1M2,synonymous_variant,p.%3D,ENST00000250244,;AP1M2,synonymous_variant,p.%3D,ENST00000591676,;AP1M2,synonymous_variant,p.%3D,ENST00000590923,;AP1M2,synonymous_variant,p.%3D,ENST00000591240,;AP1M2,synonymous_variant,p.%3D,ENST00000589684,;AP1M2,upstream_gene_variant,,ENST00000592285,;AP1M2,upstream_gene_variant,,ENST00000589348,;AP1M2,upstream_gene_variant,,ENST00000587069,;AP1M2,3_prime_UTR_variant,,ENST00000589571,;AP1M2,downstream_gene_variant,,ENST00000589809,;	A	ENSG00000129354	ENST00000250244	Transcript	synonymous_variant	410	327	109	I	atC/atT	.	.	.	-1	AP1M2	HGNC	558	protein_coding	YES	CCDS45964.1	ENSP00000250244	AP1M2_HUMAN	K7EPR4_HUMAN	UPI0000124FEB	.	.	.	4/12	.	hmmpanther:PTHR11998:SF26,hmmpanther:PTHR11998,Pfam_domain:PF01217,Gene3D:3.30.450.60,PIRSF_domain:PIRSF005992,Superfamily_domains:SSF64356,Prints_domain:PR00314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGACGATGAC	.	5	BLCA
OCEL1	0	.	GRCh37	19	17339731	17339731	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.792C>T	p.%3D	p.F264F	ENST00000215061	6/6	32	27	5	53	53	0	OCEL1,synonymous_variant,p.%3D,ENST00000597836,;OCEL1,synonymous_variant,p.%3D,ENST00000215061,;OCEL1,splice_region_variant,,ENST00000595573,;OCEL1,3_prime_UTR_variant,,ENST00000601529,;OCEL1,3_prime_UTR_variant,,ENST00000598068,;OCEL1,intron_variant,,ENST00000600826,;OCEL1,intron_variant,,ENST00000600232,;NR2F6,downstream_gene_variant,,ENST00000291442,;OCEL1,downstream_gene_variant,,ENST00000601576,;OCEL1,downstream_gene_variant,,ENST00000602236,;OCEL1,non_coding_transcript_exon_variant,,ENST00000594283,;OCEL1,non_coding_transcript_exon_variant,,ENST00000599588,;OCEL1,non_coding_transcript_exon_variant,,ENST00000595769,;OCEL1,intron_variant,,ENST00000599286,;OCEL1,downstream_gene_variant,,ENST00000598172,;OCEL1,downstream_gene_variant,,ENST00000596279,;	T	ENSG00000099330	ENST00000215061	Transcript	synonymous_variant	836	792	264	F	ttC/ttT	.	.	.	1	OCEL1	HGNC	26221	protein_coding	YES	CCDS12351.1	ENSP00000215061	OCEL1_HUMAN	M0QZ36_HUMAN	UPI000006D43F	.	.	.	6/6	.	hmmpanther:PTHR23288,hmmpanther:PTHR23288:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTTCTAAGT	.	5	BLCA
ZNF383	0	.	GRCh37	19	37734533	37734533	+	Silent	SNP	C	C	T	rs751811198	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1395C>T	p.%3D	p.L465L	ENST00000589413	8/8	70	62	8	71	71	0	ZNF383,synonymous_variant,p.%3D,ENST00000589413,;ZNF383,synonymous_variant,p.%3D,ENST00000352998,;ZNF383,synonymous_variant,p.%3D,ENST00000590503,;ZNF383,downstream_gene_variant,,ENST00000588371,;ZNF383,non_coding_transcript_exon_variant,,ENST00000586068,;ZNF383,downstream_gene_variant,,ENST00000588250,;	T	ENSG00000188283	ENST00000589413	Transcript	synonymous_variant	1978	1395	465	L	ctC/ctT	rs751811198	.	.	1	ZNF383	HGNC	18609	protein_coding	YES	CCDS12501.1	ENSP00000464871	ZN383_HUMAN	K7EJN0_HUMAN,B3KRK0_HUMAN	UPI00000717CC	.	.	.	8/8	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF172,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATCTCATTCG	.	4	BLCA
ZNF793	0	.	GRCh37	19	38028237	38028237	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.677C>G	p.Pro226Arg	p.P226R	ENST00000445217	4/4	15	12	3	33	33	0	ZNF793,missense_variant,p.Pro226Arg,ENST00000587143,;ZNF793,missense_variant,p.Pro226Arg,ENST00000542455,;ZNF793,missense_variant,p.Pro226Arg,ENST00000445217,;ZNF793,3_prime_UTR_variant,,ENST00000588578,;ZNF793,intron_variant,,ENST00000589319,;ZNF793,downstream_gene_variant,,ENST00000587490,;ZNF793,downstream_gene_variant,,ENST00000586138,;ZNF793,downstream_gene_variant,,ENST00000587986,;ZNF793,intron_variant,,ENST00000586187,;	G	ENSG00000188227	ENST00000445217	Transcript	missense_variant	712	677	226	P/R	cCc/cGc	.	.	.	1	ZNF793	HGNC	33115	protein_coding	YES	CCDS46062.1	ENSP00000396402	ZN793_HUMAN	K7ERJ7_HUMAN	UPI0001536771	.	deleterious(0)	probably_damaging(0.995)	4/4	.	hmmpanther:PTHR24387,hmmpanther:PTHR24387:SF42,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAACCCCACG	.	2	BLCA
ITPKC	0	.	GRCh37	19	41235171	41235171	+	Missense_Mutation	SNP	C	C	G	rs370620477	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1320C>G	p.Ser440Arg	p.S440R	ENST00000263370	3/7	14	7	7	39	39	0	ITPKC,missense_variant,p.Ser440Arg,ENST00000263370,;ITPKC,upstream_gene_variant,,ENST00000597003,;	G	ENSG00000086544	ENST00000263370	Transcript	missense_variant	1353	1320	440	S/R	agC/agG	rs370620477	.	.	1	ITPKC	HGNC	14897	protein_coding	YES	CCDS12563.1	ENSP00000263370	IP3KC_HUMAN	.	UPI000006E1AC	.	deleterious(0.02)	probably_damaging(0.999)	3/7	.	Superfamily_domains:SSF56104,hmmpanther:PTHR12400,hmmpanther:PTHR12400:SF26	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCAGCCTGGA	byFrequency|byCluster	5	BLCA
LYPD3	0	.	GRCh37	19	43967856	43967856	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.277G>T	p.Gly93Cys	p.G93C	ENST00000244333	3/5	24	21	3	36	36	0	LYPD3,missense_variant,p.Gly93Cys,ENST00000244333,;LYPD3,non_coding_transcript_exon_variant,,ENST00000594326,;LYPD3,non_coding_transcript_exon_variant,,ENST00000597741,;LYPD3,downstream_gene_variant,,ENST00000595970,;	A	ENSG00000124466	ENST00000244333	Transcript	missense_variant	366	277	93	G/C	Ggc/Tgc	.	.	.	-1	LYPD3	HGNC	24880	protein_coding	YES	CCDS12620.1	ENSP00000244333	LYPD3_HUMAN	B2RBR3_HUMAN	UPI000000D965	.	deleterious(0.01)	probably_damaging(1)	3/5	.	hmmpanther:PTHR10624:SF6,hmmpanther:PTHR10624,SMART_domains:SM00134,Superfamily_domains:SSF57302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGGCCGCGGT	.	2	BLCA
ERCC2	0	.	GRCh37	19	45872380	45872380	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131C>T	p.Ser44Leu	p.S44L	ENST00000391945	3/23	70	56	14	77	77	0	ERCC2,missense_variant,p.Ser20Leu,ENST00000391941,;ERCC2,missense_variant,p.Ser44Leu,ENST00000391944,;ERCC2,missense_variant,p.Ser20Leu,ENST00000586131,;ERCC2,missense_variant,p.Ser44Leu,ENST00000391945,;ERCC2,missense_variant,p.Ser20Leu,ENST00000391940,;ERCC2,missense_variant,p.Ser44Leu,ENST00000221481,;ERCC2,missense_variant,p.Ser20Leu,ENST00000485403,;ERCC2,intron_variant,,ENST00000586856,;ERCC2,missense_variant,p.Ser44Leu,ENST00000591309,;ERCC2,non_coding_transcript_exon_variant,,ENST00000586441,;ERCC2,non_coding_transcript_exon_variant,,ENST00000586737,;	A	ENSG00000104884	ENST00000391945	Transcript	missense_variant	209	131	44	S/L	tCa/tTa	COSM1750979,COSM1750980	.	.	-1	ERCC2	HGNC	3434	protein_coding	YES	CCDS33049.1	ENSP00000375809	ERCC2_HUMAN	K7EIT8_HUMAN,A8MX75_HUMAN	UPI0000139012	.	deleterious(0)	possibly_damaging(0.87)	3/23	.	PROSITE_profiles:PS51193,hmmpanther:PTHR11472:SF1,hmmpanther:PTHR11472,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00604,SMART_domains:SM00488,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.S20L|c.59C>T|4,SITE|p.S44L|c.131C>T|4	RADIA|MUTECT|MUSE|VARSCANS	TGCCTGAGGGC	.	4	BLCA
PPFIA3	0	.	GRCh37	19	49652821	49652821	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3372C>T	p.%3D	p.F1124F	ENST00000334186	28/30	14	10	3	20	20	0	PPFIA3,synonymous_variant,p.%3D,ENST00000334186,;PPFIA3,synonymous_variant,p.%3D,ENST00000602351,;PPFIA3,synonymous_variant,p.%3D,ENST00000602897,;PPFIA3,synonymous_variant,p.%3D,ENST00000602848,;HRC,downstream_gene_variant,,ENST00000598858,;HRC,downstream_gene_variant,,ENST00000595625,;HRC,downstream_gene_variant,,ENST00000252825,;PPFIA3,3_prime_UTR_variant,,ENST00000602655,;PPFIA3,non_coding_transcript_exon_variant,,ENST00000602905,;PPFIA3,upstream_gene_variant,,ENST00000602783,;HRC,downstream_gene_variant,,ENST00000595167,;PPFIA3,downstream_gene_variant,,ENST00000602800,;	T	ENSG00000177380	ENST00000334186	Transcript	synonymous_variant	3721	3372	1124	F	ttC/ttT	COSM2752177	.	.	1	PPFIA3	HGNC	9247	protein_coding	YES	CCDS12758.1	ENSP00000335614	LIPA3_HUMAN	R4GNF1_HUMAN	UPI00001AE464	.	.	.	28/30	.	hmmpanther:PTHR12587,hmmpanther:PTHR12587:SF4	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER	TCTTTCAGCCG	.	3	BLCA
TFPT	0	.	GRCh37	19	54618737	54618737	+	5'UTR	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-88G>A	.	.	ENST00000391759	1/6	19	15	4	16	16	0	TFPT,5_prime_UTR_variant,,ENST00000391759,;PRPF31,upstream_gene_variant,,ENST00000391755,;PRPF31,upstream_gene_variant,,ENST00000445124,;TFPT,upstream_gene_variant,,ENST00000391757,;TFPT,upstream_gene_variant,,ENST00000391758,;PRPF31,upstream_gene_variant,,ENST00000419967,;PRPF31,upstream_gene_variant,,ENST00000321030,;PRPF31,upstream_gene_variant,,ENST00000447810,;PRPF31,upstream_gene_variant,,ENST00000445811,;AC012314.8,downstream_gene_variant,,ENST00000452097,;PRPF31,upstream_gene_variant,,ENST00000498612,;PRPF31,upstream_gene_variant,,ENST00000467851,;TFPT,upstream_gene_variant,,ENST00000420715,;PRPF31,upstream_gene_variant,,ENST00000466404,;	T	ENSG00000105619	ENST00000391759	Transcript	5_prime_UTR_variant	319	.	.	.	.	.	.	.	-1	TFPT	HGNC	13630	protein_coding	YES	CCDS12878.1	ENSP00000375639	TFPT_HUMAN	G5E9B5_HUMAN	UPI000006CFD4	.	.	.	1/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCATCAGGCT	.	4	BLCA
ZNF773	0	.	GRCh37	19	58016740	58016740	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.234G>T	p.Trp78Cys	p.W78C	ENST00000282292	3/4	52	46	6	70	70	0	ZNF773,missense_variant,p.Trp77Cys,ENST00000593916,;ZNF773,missense_variant,p.Trp78Cys,ENST00000599847,;ZNF773,missense_variant,p.Trp78Cys,ENST00000282292,;ZNF773,missense_variant,p.Trp77Cys,ENST00000598770,;ZNF773,missense_variant,p.Trp78Cys,ENST00000597061,;AC003005.4,3_prime_UTR_variant,,ENST00000599674,;ZNF773,non_coding_transcript_exon_variant,,ENST00000601958,;AC003005.4,downstream_gene_variant,,ENST00000601674,;	T	ENSG00000152439	ENST00000282292	Transcript	missense_variant	374	234	78	W/C	tgG/tgT	.	.	.	1	ZNF773	HGNC	30487	protein_coding	YES	CCDS33134.1	ENSP00000282292	ZN773_HUMAN	.	UPI00001BD93D	.	tolerated(0.18)	benign(0)	3/4	.	PROSITE_profiles:PS50805,hmmpanther:PTHR24387:SF40,hmmpanther:PTHR24387	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTGGGAAGT	.	4	BLCA
ZNF551	0	.	GRCh37	19	58199365	58199365	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1722C>G	p.%3D	p.L574L	ENST00000282296	3/3	114	89	25	117	117	0	ZNF551,synonymous_variant,p.%3D,ENST00000282296,;ZNF551,synonymous_variant,p.%3D,ENST00000601064,;ZNF551,synonymous_variant,p.%3D,ENST00000356715,;AC003006.7,intron_variant,,ENST00000594684,;ZNF551,intron_variant,,ENST00000596085,;AC004017.1,downstream_gene_variant,,ENST00000597520,;AC003006.7,intron_variant,,ENST00000599221,;ZNF551,downstream_gene_variant,,ENST00000599402,;	G	ENSG00000204519	ENST00000282296	Transcript	synonymous_variant	1907	1722	574	L	ctC/ctG	.	.	.	1	ZNF551	HGNC	25108	protein_coding	YES	CCDS12959.2	ENSP00000282296	ZN551_HUMAN	M0R2M4_HUMAN	UPI000059D7C6	.	.	.	3/3	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24387:SF212,hmmpanther:PTHR24387,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCCTCATTCA	.	5	BLCA
ACSBG2	0	.	GRCh37	19	6166014	6166014	+	Silent	SNP	C	C	T	rs778087970	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.726C>T	p.%3D	p.L242L	ENST00000586696	7/15	34	27	7	51	51	0	ACSBG2,synonymous_variant,p.%3D,ENST00000586696,;ACSBG2,synonymous_variant,p.%3D,ENST00000591403,;ACSBG2,synonymous_variant,p.%3D,ENST00000588485,;ACSBG2,synonymous_variant,p.%3D,ENST00000252669,;ACSBG2,synonymous_variant,p.%3D,ENST00000588304,;RFX2,intron_variant,,ENST00000592883,;ACSBG2,non_coding_transcript_exon_variant,,ENST00000585526,;ACSBG2,non_coding_transcript_exon_variant,,ENST00000591741,;ACSBG2,synonymous_variant,p.%3D,ENST00000587227,;ACSBG2,3_prime_UTR_variant,,ENST00000592677,;ACSBG2,downstream_gene_variant,,ENST00000587617,;	T	ENSG00000130377	ENST00000586696	Transcript	synonymous_variant	1002	726	242	L	ctC/ctT	rs778087970	.	.	1	ACSBG2	HGNC	24174	protein_coding	YES	CCDS12159.1	ENSP00000465589	ACBG2_HUMAN	K7ESC8_HUMAN,K7ERT0_HUMAN,K7EL11_HUMAN	UPI00001414E6	.	.	.	7/15	.	hmmpanther:PTHR24096,hmmpanther:PTHR24096:SF129,Pfam_domain:PF00501,Gene3D:3.40.50.980,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGCTCAGTCA	.	5	BLCA
GTF2F1	0	.	GRCh37	19	6380394	6380394	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1452G>A	p.%3D	p.L484L	ENST00000394456	13/13	140	109	30	202	202	0	GTF2F1,synonymous_variant,p.%3D,ENST00000593678,;GTF2F1,synonymous_variant,p.%3D,ENST00000429701,;GTF2F1,synonymous_variant,p.%3D,ENST00000394456,;GTF2F1,downstream_gene_variant,,ENST00000595047,;PSPN,upstream_gene_variant,,ENST00000245810,;PSPN,upstream_gene_variant,,ENST00000597721,;GTF2F1,non_coding_transcript_exon_variant,,ENST00000594213,;GTF2F1,downstream_gene_variant,,ENST00000594965,;	T	ENSG00000125651	ENST00000394456	Transcript	synonymous_variant	1917	1452	484	L	ctG/ctA	COSM3836078	.	.	-1	GTF2F1	HGNC	4652	protein_coding	YES	CCDS12165.1	ENSP00000377969	T2FA_HUMAN	M0R0Z3_HUMAN	UPI000007323F	.	.	.	13/13	.	hmmpanther:PTHR13011,Gene3D:1.10.10.10,Pfam_domain:PF05793,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAGCCC	.	5	BLCA
FSTL3	0	.	GRCh37	19	677931	677931	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243C>T	p.%3D	p.I81I	ENST00000166139	2/5	60	43	17	94	93	0	FSTL3,synonymous_variant,p.%3D,ENST00000166139,;FSTL3,upstream_gene_variant,,ENST00000591552,;FSTL3,intron_variant,,ENST00000606071,;FSTL3,upstream_gene_variant,,ENST00000605925,;FSTL3,upstream_gene_variant,,ENST00000592947,;FSTL3,upstream_gene_variant,,ENST00000592058,;FSTL3,upstream_gene_variant,,ENST00000589185,;FSTL3,upstream_gene_variant,,ENST00000591573,;FSTL3,upstream_gene_variant,,ENST00000588773,;	T	ENSG00000070404	ENST00000166139	Transcript	synonymous_variant	275	243	81	I	atC/atT	COSM3797676	.	.	1	FSTL3	HGNC	3973	protein_coding	YES	CCDS12040.1	ENSP00000166139	FSTL3_HUMAN	.	UPI000003838C	.	.	.	2/5	.	hmmpanther:PTHR10913,hmmpanther:PTHR10913:SF16,PROSITE_profiles:PS51364	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATCAACCT	.	5	BLCA
MUC16	0	.	GRCh37	19	9088259	9088259	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3556G>A	p.Glu1186Lys	p.E1186K	ENST00000397910	1/84	76	66	10	136	136	0	MUC16,missense_variant,p.Glu1186Lys,ENST00000397910,;	T	ENSG00000181143	ENST00000397910	Transcript	missense_variant	3760	3556	1186	E/K	Gaa/Aaa	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	unknown(0)	1/84	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGTTTCAACTG	.	4	BLCA
TTF2	0	.	GRCh37	1	117638919	117638919	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3184C>T	p.Gln1062Ter	p.Q1062*	ENST00000369466	20/23	37	28	8	49	49	0	TTF2,stop_gained,p.Gln1062Ter,ENST00000369466,;TTF2,stop_gained,p.Gln43Ter,ENST00000427271,;MIR942,downstream_gene_variant,,ENST00000401111,;TTF2,splice_region_variant,,ENST00000463696,;TTF2,splice_region_variant,,ENST00000492682,;TTF2,upstream_gene_variant,,ENST00000480701,;	T	ENSG00000116830	ENST00000369466	Transcript	stop_gained	3228	3184	1062	Q/*	Cag/Tag	.	.	.	1	TTF2	HGNC	12398	protein_coding	YES	CCDS892.1	ENSP00000358478	TTF2_HUMAN	.	UPI000013CCE7	.	.	.	20/23	.	PROSITE_profiles:PS51194,hmmpanther:PTHR10799:SF573,hmmpanther:PTHR10799,Gene3D:3.40.50.300,Pfam_domain:PF00271,SMART_domains:SM00490,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCAGGTA	.	5	BLCA
SETDB1	0	.	GRCh37	1	150900269	150900269	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.79C>T	p.Gln27Ter	p.Q27*	ENST00000271640	2/22	71	64	7	97	97	0	SETDB1,stop_gained,p.Gln27Ter,ENST00000498193,;SETDB1,stop_gained,p.Gln27Ter,ENST00000448029,;SETDB1,stop_gained,p.Gln27Ter,ENST00000271640,;SETDB1,stop_gained,p.Gln27Ter,ENST00000534805,;SETDB1,stop_gained,p.Gln41Ter,ENST00000423081,;SETDB1,stop_gained,p.Gln27Ter,ENST00000525956,;SETDB1,stop_gained,p.Gln27Ter,ENST00000368969,;SETDB1,stop_gained,p.Gln27Ter,ENST00000368963,;SETDB1,stop_gained,p.Gln27Ter,ENST00000368962,;SETDB1,non_coding_transcript_exon_variant,,ENST00000487584,;SETDB1,non_coding_transcript_exon_variant,,ENST00000459773,;SETDB1,stop_gained,p.Gln27Ter,ENST00000368964,;SETDB1,non_coding_transcript_exon_variant,,ENST00000463774,;SETDB1,upstream_gene_variant,,ENST00000481219,;	T	ENSG00000143379	ENST00000271640	Transcript	stop_gained	269	79	27	Q/*	Cag/Tag	.	.	.	1	SETDB1	HGNC	10761	protein_coding	YES	CCDS44217.1	ENSP00000271640	SETB1_HUMAN	E9PS59_HUMAN,B0QZE6_HUMAN	UPI0000135897	.	.	.	2/22	.	PROSITE_profiles:PS51573,hmmpanther:PTHR22884:SF323,hmmpanther:PTHR22884	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCAACAGGCA	.	3	BLCA
SPRR3	0	.	GRCh37	1	152975642	152975642	+	Missense_Mutation	SNP	G	G	T	rs372827652	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146G>T	p.Gly49Val	p.G49V	ENST00000331860	3/3	23	20	3	56	56	0	SPRR3,missense_variant,p.Gly49Val,ENST00000295367,;SPRR3,missense_variant,p.Gly49Val,ENST00000331860,;SPRR3,missense_variant,p.Gly49Val,ENST00000542696,;SPRR3,missense_variant,p.Gly49Val,ENST00000443178,;SPRR3,downstream_gene_variant,,ENST00000495845,;	T	ENSG00000163209	ENST00000331860	Transcript	missense_variant	296	146	49	G/V	gGa/gTa	rs372827652,COSM3474333	.	.	1	SPRR3	HGNC	11268	protein_coding	YES	CCDS1033.1	ENSP00000330391	SPRR3_HUMAN	B1AN48_HUMAN	UPI0000127F1F	.	tolerated(0.09)	probably_damaging(0.947)	3/3	.	Prints_domain:PR00021,Pfam_domain:PF02389,hmmpanther:PTHR23263:SF41,hmmpanther:PTHR23263	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTGGAAACA	byFrequency|byCluster	2	BLCA
RUSC1	0	.	GRCh37	1	155292593	155292593	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1029C>T	p.%3D	p.L343L	ENST00000368352	2/10	18	14	4	41	41	0	RUSC1,synonymous_variant,p.%3D,ENST00000368352,;RUSC1,synonymous_variant,p.%3D,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000292254,;FDPS,downstream_gene_variant,,ENST00000356657,;RUSC1,upstream_gene_variant,,ENST00000368347,;FDPS,downstream_gene_variant,,ENST00000447866,;RUSC1,upstream_gene_variant,,ENST00000368349,;FDPS,downstream_gene_variant,,ENST00000368356,;RUSC1-AS1,intron_variant,,ENST00000450199,;RUSC1-AS1,intron_variant,,ENST00000443642,;RUSC1-AS1,upstream_gene_variant,,ENST00000543656,;RUSC1-AS1,upstream_gene_variant,,ENST00000446880,;FDPS,downstream_gene_variant,,ENST00000470171,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,downstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000471876,;RUSC1,upstream_gene_variant,,ENST00000479924,;RUSC1,upstream_gene_variant,,ENST00000467820,;RUSC1,upstream_gene_variant,,ENST00000489860,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000492244,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000468764,;RUSC1,upstream_gene_variant,,ENST00000484664,;RUSC1,upstream_gene_variant,,ENST00000462780,;FDPS,downstream_gene_variant,,ENST00000489324,;RUSC1,upstream_gene_variant,,ENST00000485924,;FDPS,downstream_gene_variant,,ENST00000467076,;RUSC1,upstream_gene_variant,,ENST00000490373,;FDPS,downstream_gene_variant,,ENST00000489003,;FDPS,downstream_gene_variant,,ENST00000495308,;RUSC1,upstream_gene_variant,,ENST00000473331,;FDPS,downstream_gene_variant,,ENST00000468479,;FDPS,downstream_gene_variant,,ENST00000465559,;RUSC1,upstream_gene_variant,,ENST00000492536,;FDPS,downstream_gene_variant,,ENST00000477057,;FDPS,downstream_gene_variant,,ENST00000491013,;FDPS,downstream_gene_variant,,ENST00000492887,;	T	ENSG00000160753	ENST00000368352	Transcript	synonymous_variant	1180	1029	343	L	ctC/ctT	.	.	.	1	RUSC1	HGNC	17153	protein_coding	YES	CCDS41410.1	ENSP00000357336	RUSC1_HUMAN	Q68CX2_HUMAN	UPI000046FDA5	.	.	.	2/10	.	hmmpanther:PTHR15591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCTCATAGT	.	2	BLCA
ASH1L	0	.	GRCh37	1	155385707	155385707	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5836G>A	p.Glu1946Lys	p.E1946K	ENST00000392403	6/28	64	54	9	77	77	0	ASH1L,missense_variant,p.Glu1946Lys,ENST00000368346,;ASH1L,missense_variant,p.Glu1946Lys,ENST00000392403,;RNU6-1297P,upstream_gene_variant,,ENST00000384415,;snoU13,upstream_gene_variant,,ENST00000458873,;	T	ENSG00000116539	ENST00000392403	Transcript	missense_variant	6315	5836	1946	E/K	Gaa/Aaa	.	.	.	-1	ASH1L	HGNC	19088	protein_coding	YES	CCDS1113.2	ENSP00000376204	ASH1L_HUMAN	.	UPI0000DACAC8	.	deleterious_low_confidence(0.03)	benign(0.108)	6/28	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF311	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTTCATTAA	.	4	BLCA
OR6K3	0	.	GRCh37	1	158687162	158687162	+	Silent	SNP	C	C	G	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.744G>C	p.%3D	p.P248P	ENST00000368145	1/1	53	39	14	71	71	0	OR6K3,synonymous_variant,p.%3D,ENST00000368146,;OR6K3,synonymous_variant,p.%3D,ENST00000368145,;	G	ENSG00000203757	ENST00000368145	Transcript	synonymous_variant	744	744	248	P	ccG/ccC	COSM3476291	.	.	-1	OR6K3	HGNC	15030	protein_coding	YES	CCDS30903.2	ENSP00000357127	OR6K3_HUMAN	.	UPI0000061E5F	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF35,hmmpanther:PTHR26451,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATATCGGGAA	.	5	BLCA
OR10J1	0	.	GRCh37	1	159410055	159410055	+	Silent	SNP	G	G	A	rs149860482	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.507G>A	p.%3D	p.T169T	ENST00000423932	1/1	114	102	12	149	149	0	OR10J1,synonymous_variant,p.%3D,ENST00000423932,;RP11-550P17.5,intron_variant,,ENST00000431862,;	A	ENSG00000196184	ENST00000423932	Transcript	synonymous_variant	544	507	169	T	acG/acA	rs149860482	.	.	1	OR10J1	HGNC	8175	protein_coding	YES	CCDS1185.1	ENSP00000399078	O10J1_HUMAN	.	UPI000013E7DA	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451:SF249,hmmpanther:PTHR26451,Pfam_domain:PF13853,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATAACGCAAGT	byFrequency|byCluster	4	BLCA
CLCNKB	0	.	GRCh37	1	16383425	16383425	+	3'UTR	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14G>C	.	.	ENST00000375679	20/20	11	7	4	33	33	0	CLCNKB,3_prime_UTR_variant,,ENST00000375679,;CLCNKB,3_prime_UTR_variant,,ENST00000375667,;CLCNKB,intron_variant,,ENST00000431772,;FAM131C,downstream_gene_variant,,ENST00000375662,;FAM131C,downstream_gene_variant,,ENST00000494078,;	C	ENSG00000184908	ENST00000375679	Transcript	3_prime_UTR_variant	2189	.	.	.	.	.	.	.	1	CLCNKB	HGNC	2027	protein_coding	YES	CCDS168.1	ENSP00000364831	CLCKB_HUMAN	.	UPI000040E261	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCAAGATGAA	.	2	BLCA
RXRG	0	.	GRCh37	1	165386384	165386384	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516C>G	p.Ile172Met	p.I172M	ENST00000359842	4/10	67	59	7	72	72	0	RXRG,missense_variant,p.Ile172Met,ENST00000359842,;RXRG,non_coding_transcript_exon_variant,,ENST00000470566,;	C	ENSG00000143171	ENST00000359842	Transcript	missense_variant	819	516	172	I/M	atC/atG	.	.	.	-1	RXRG	HGNC	10479	protein_coding	YES	CCDS1248.1	ENSP00000352900	RXRG_HUMAN	F1D8Q7_HUMAN	UPI000004989F	.	deleterious(0)	possibly_damaging(0.522)	4/10	.	PROSITE_profiles:PS51030,hmmpanther:PTHR24083:SF83,hmmpanther:PTHR24083,Gene3D:3.30.50.10,Pfam_domain:PF00105,SMART_domains:SM00399,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGTAGATGAG	.	4	BLCA
GORAB	0	.	GRCh37	1	170508626	170508626	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.412G>A	p.Glu138Lys	p.E138K	ENST00000367763	2/5	51	46	5	65	65	0	GORAB,missense_variant,p.Glu138Lys,ENST00000367762,;GORAB,missense_variant,p.Glu138Lys,ENST00000367763,;GORAB,non_coding_transcript_exon_variant,,ENST00000465717,;GORAB,3_prime_UTR_variant,,ENST00000498166,;GORAB,non_coding_transcript_exon_variant,,ENST00000498600,;	A	ENSG00000120370	ENST00000367763	Transcript	missense_variant	432	412	138	E/K	Gag/Aag	.	.	.	1	GORAB	HGNC	25676	protein_coding	YES	CCDS1289.1	ENSP00000356737	GORAB_HUMAN	.	UPI000013FDCA	.	tolerated(0.16)	benign(0.009)	2/5	.	hmmpanther:PTHR21470:SF2,hmmpanther:PTHR21470	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACTTGAGAAT	.	3	BLCA
ELF3	0	.	GRCh37	1	201981084	201981084	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164-1G>A	.	p.X55_splice	ENST00000359651	.	76	70	6	122	122	0	ELF3,splice_acceptor_variant,,ENST00000367284,;ELF3,splice_acceptor_variant,,ENST00000359651,;ELF3,splice_acceptor_variant,,ENST00000367283,;ELF3,splice_acceptor_variant,,ENST00000446188,;RP11-510N19.5,intron_variant,,ENST00000504773,;RP11-465N4.4,upstream_gene_variant,,ENST00000419190,;ELF3,splice_acceptor_variant,,ENST00000490203,;ELF3,splice_acceptor_variant,,ENST00000495848,;ELF3,upstream_gene_variant,,ENST00000475698,;ELF3,upstream_gene_variant,,ENST00000479874,;ELF3,downstream_gene_variant,,ENST00000498017,;ELF3,upstream_gene_variant,,ENST00000470384,;	A	ENSG00000163435	ENST00000359651	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ELF3	HGNC	3318	protein_coding	YES	CCDS1419.1	ENSP00000352673	ELF3_HUMAN	.	UPI0000034E32	.	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGCAGAGAAG	.	3	BLCA
PTPN7	0	.	GRCh37	1	202123440	202123440	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.795G>A	p.%3D	p.G265G	ENST00000309017	6/10	19	15	4	28	28	0	PTPN7,synonymous_variant,p.%3D,ENST00000476061,;PTPN7,synonymous_variant,p.%3D,ENST00000309017,;PTPN7,synonymous_variant,p.%3D,ENST00000308986,;PTPN7,synonymous_variant,p.%3D,ENST00000477554,;PTPN7,synonymous_variant,p.%3D,ENST00000367279,;PTPN7,synonymous_variant,p.%3D,ENST00000477625,;PTPN7,5_prime_UTR_variant,,ENST00000543735,;PTPN7,intron_variant,,ENST00000544762,;PTPN7,downstream_gene_variant,,ENST00000492451,;PTPN7,downstream_gene_variant,,ENST00000486116,;PTPN7,downstream_gene_variant,,ENST00000435759,;PTPN7,downstream_gene_variant,,ENST00000464870,;PTPN7,downstream_gene_variant,,ENST00000467283,;PTPN7,non_coding_transcript_exon_variant,,ENST00000479092,;PTPN7,non_coding_transcript_exon_variant,,ENST00000492977,;PTPN7,synonymous_variant,p.%3D,ENST00000495688,;PTPN7,3_prime_UTR_variant,,ENST00000480836,;PTPN7,3_prime_UTR_variant,,ENST00000496197,;PTPN7,intron_variant,,ENST00000462815,;PTPN7,downstream_gene_variant,,ENST00000491584,;PTPN7,downstream_gene_variant,,ENST00000468385,;	T	ENSG00000143851	ENST00000309017	Transcript	synonymous_variant	1569	795	265	G	ggG/ggA	.	.	.	-1	PTPN7	HGNC	9659	protein_coding	YES	CCDS1423.2	ENSP00000309116	.	E9PE54_HUMAN,E7EUM0_HUMAN,C9JBA9_HUMAN,B4DX06_HUMAN,B4DDG6_HUMAN	UPI00004701F6	.	.	.	6/10	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134:SF39,hmmpanther:PTHR19134,Gene3D:3.90.190.10,Pfam_domain:PF00102,SMART_domains:SM00194,Superfamily_domains:SSF52799,Prints_domain:PR01778	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTTCCCGTC	.	2	BLCA
MYOG	0	.	GRCh37	1	203053814	203053814	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.514G>A	p.Glu172Lys	p.E172K	ENST00000241651	2/3	9	5	4	15	15	0	MYOG,missense_variant,p.Glu172Lys,ENST00000241651,;	T	ENSG00000122180	ENST00000241651	Transcript	missense_variant	589	514	172	E/K	Gag/Aag	.	.	.	-1	MYOG	HGNC	7612	protein_coding	YES	CCDS1433.1	ENSP00000241651	MYOG_HUMAN	.	UPI000012FBA4	.	deleterious(0.02)	benign(0.014)	2/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11534,hmmpanther:PTHR11534:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACTCTGGAC	.	2	BLCA
PPP1R15B	0	.	GRCh37	1	204380099	204380099	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.441C>T	p.%3D	p.I147I	ENST00000367188	1/2	82	78	4	119	119	0	PPP1R15B,synonymous_variant,p.%3D,ENST00000367188,;RP11-739N20.2,intron_variant,,ENST00000443515,;	A	ENSG00000158615	ENST00000367188	Transcript	synonymous_variant	821	441	147	I	atC/atT	.	.	.	-1	PPP1R15B	HGNC	14951	protein_coding	YES	CCDS1445.1	ENSP00000356156	PR15B_HUMAN	.	UPI000013DF8B	.	.	.	1/2	.	hmmpanther:PTHR16489:SF9,hmmpanther:PTHR16489,Pfam_domain:PF10472	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGTGGATCCC	.	2	BLCA
PPP1R15B	0	.	GRCh37	1	204380339	204380339	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201C>G	p.%3D	p.L67L	ENST00000367188	1/2	67	59	7	105	105	0	PPP1R15B,synonymous_variant,p.%3D,ENST00000367188,;RP11-739N20.2,intron_variant,,ENST00000443515,;	C	ENSG00000158615	ENST00000367188	Transcript	synonymous_variant	581	201	67	L	ctC/ctG	.	.	.	-1	PPP1R15B	HGNC	14951	protein_coding	YES	CCDS1445.1	ENSP00000356156	PR15B_HUMAN	.	UPI000013DF8B	.	.	.	1/2	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16489:SF9,hmmpanther:PTHR16489,Pfam_domain:PF10472	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGAGAGCAG	.	4	BLCA
PIK3C2B	0	.	GRCh37	1	204423848	204423848	+	Missense_Mutation	SNP	C	C	T	rs764826798	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2015G>A	p.Arg672Gln	p.R672Q	ENST00000367187	13/34	88	80	8	128	128	0	PIK3C2B,missense_variant,p.Arg672Gln,ENST00000367187,;PIK3C2B,missense_variant,p.Arg672Gln,ENST00000424712,;PIK3C2B,non_coding_transcript_exon_variant,,ENST00000496872,;PIK3C2B,upstream_gene_variant,,ENST00000479079,;	T	ENSG00000133056	ENST00000367187	Transcript	missense_variant	2572	2015	672	R/Q	cGa/cAa	rs764826798	.	.	-1	PIK3C2B	HGNC	8972	protein_coding	YES	CCDS1446.1	ENSP00000356155	P3C2B_HUMAN	Q5SW98_HUMAN,Q5SW97_HUMAN,Q4LE65_HUMAN,A2RUF7_HUMAN	UPI00002056D1	.	tolerated(0.1)	benign(0.028)	13/34	.	PROSITE_profiles:PS51547,hmmpanther:PTHR10048:SF30,hmmpanther:PTHR10048,Gene3D:2.60.40.150,Pfam_domain:PF00792,SMART_domains:SM00142,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCTTCGGGTC	byFrequency	3	BLCA
MFSD4	0	.	GRCh37	1	205568336	205568336	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1446C>T	p.%3D	p.I482I	ENST00000367147	9/10	102	87	14	131	131	0	MFSD4,synonymous_variant,p.%3D,ENST00000536357,;MFSD4,synonymous_variant,p.%3D,ENST00000367147,;MFSD4,3_prime_UTR_variant,,ENST00000539267,;RNU6-418P,downstream_gene_variant,,ENST00000384035,;MFSD4,non_coding_transcript_exon_variant,,ENST00000465651,;MFSD4,non_coding_transcript_exon_variant,,ENST00000478555,;MFSD4,non_coding_transcript_exon_variant,,ENST00000489709,;MFSD4,non_coding_transcript_exon_variant,,ENST00000475956,;MFSD4,downstream_gene_variant,,ENST00000471425,;	T	ENSG00000174514	ENST00000367147	Transcript	synonymous_variant	1539	1446	482	I	atC/atT	.	.	.	1	MFSD4	HGNC	25433	protein_coding	YES	CCDS1455.1	ENSP00000356115	MFSD4_HUMAN	.	UPI000019855C	.	.	.	9/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR23121:SF10,hmmpanther:PTHR23121,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATATCTTGCT	.	4	BLCA
USP48	0	.	GRCh37	1	22030035	22030035	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2592C>G	p.Ile864Met	p.I864M	ENST00000308271	21/27	133	110	23	161	161	0	USP48,missense_variant,p.Ile876Met,ENST00000529637,;USP48,missense_variant,p.Ile402Met,ENST00000374732,;USP48,missense_variant,p.Ile864Met,ENST00000308271,;USP48,missense_variant,p.Ile864Met,ENST00000400301,;USP48,intron_variant,,ENST00000464577,;	C	ENSG00000090686	ENST00000308271	Transcript	missense_variant	3241	2592	864	I/M	atC/atG	.	.	.	-1	USP48	HGNC	18533	protein_coding	YES	CCDS30623.1	ENSP00000309262	UBP48_HUMAN	E9PRY5_HUMAN,E9PJH5_HUMAN,E9PJ87_HUMAN	UPI0000192195	.	deleterious(0)	possibly_damaging(0.784)	21/27	.	hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF100	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACATAGATGGT	.	4	BLCA
TAF5L	0	.	GRCh37	1	229730829	229730829	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.985G>A	p.Asp329Asn	p.D329N	ENST00000258281	5/5	31	28	3	55	55	0	TAF5L,missense_variant,p.Asp329Asn,ENST00000258281,;TAF5L,missense_variant,p.Asp329Asn,ENST00000366676,;TAF5L,downstream_gene_variant,,ENST00000366675,;	T	ENSG00000135801	ENST00000258281	Transcript	missense_variant	1151	985	329	D/N	Gat/Aat	.	.	.	-1	TAF5L	HGNC	17304	protein_coding	YES	CCDS1581.1	ENSP00000258281	TAF5L_HUMAN	.	UPI0000073E93	.	tolerated(0.16)	benign(0.007)	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19879,Gene3D:2.130.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTATCATCCT	.	2	BLCA
SIPA1L2	0	.	GRCh37	1	232568191	232568191	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4058C>T	p.Ser1353Leu	p.S1353L	ENST00000366630	15/22	47	33	14	57	57	0	SIPA1L2,missense_variant,p.Ser1353Leu,ENST00000366630,;SIPA1L2,missense_variant,p.Ser427Leu,ENST00000308942,;SIPA1L2,missense_variant,p.Ser1353Leu,ENST00000262861,;	A	ENSG00000116991	ENST00000366630	Transcript	missense_variant	4417	4058	1353	S/L	tCa/tTa	.	.	.	-1	SIPA1L2	HGNC	23800	protein_coding	YES	CCDS41474.1	ENSP00000355589	SI1L2_HUMAN	.	UPI00001D7D6A	.	tolerated(0.57)	benign(0.029)	15/22	.	hmmpanther:PTHR15711:SF7,hmmpanther:PTHR15711,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTGAAGGG	.	5	BLCA
HEATR1	0	.	GRCh37	1	236734738	236734738	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3861G>C	p.Leu1287Phe	p.L1287F	ENST00000366582	28/45	51	38	13	51	51	0	HEATR1,missense_variant,p.Leu1206Phe,ENST00000366581,;HEATR1,missense_variant,p.Leu1287Phe,ENST00000366582,;HEATR1,downstream_gene_variant,,ENST00000490339,;	G	ENSG00000119285	ENST00000366582	Transcript	missense_variant	3976	3861	1287	L/F	ttG/ttC	COSM1194760	.	.	-1	HEATR1	HGNC	25517	protein_coding	YES	CCDS31066.1	ENSP00000355541	HEAT1_HUMAN	Q6P664_HUMAN	UPI000013D4D4	.	deleterious(0)	probably_damaging(0.984)	28/45	.	Superfamily_domains:SSF48371,Superfamily_domains:SSF48371,Gene3D:1.25.10.10,hmmpanther:PTHR13457:SF1,hmmpanther:PTHR13457	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATCAACTC	.	5	BLCA
LYPLA2	0	.	GRCh37	1	24121169	24121169	+	Intron	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.646-3C>T	.	.	ENST00000374514	.	28	25	3	36	36	0	LYPLA2,splice_region_variant,,ENST00000400061,;LYPLA2,splice_region_variant,,ENST00000374501,;LYPLA2,splice_region_variant,,ENST00000374503,;LYPLA2,splice_region_variant,,ENST00000374514,;LYPLA2,3_prime_UTR_variant,,ENST00000374502,;LYPLA2,3_prime_UTR_variant,,ENST00000374505,;GALE,downstream_gene_variant,,ENST00000418277,;LYPLA2,downstream_gene_variant,,ENST00000420982,;GALE,downstream_gene_variant,,ENST00000445705,;GALE,downstream_gene_variant,,ENST00000425913,;GALE,downstream_gene_variant,,ENST00000429356,;GALE,downstream_gene_variant,,ENST00000374497,;GALE,downstream_gene_variant,,ENST00000456977,;LYPLA2,downstream_gene_variant,,ENST00000421070,;LYPLA2,splice_region_variant,,ENST00000472213,;LYPLA2,splice_region_variant,,ENST00000495365,;LYPLA2,splice_region_variant,,ENST00000492577,;GALE,downstream_gene_variant,,ENST00000459934,;GALE,downstream_gene_variant,,ENST00000470383,;GALE,downstream_gene_variant,,ENST00000467493,;GALE,downstream_gene_variant,,ENST00000481736,;GALE,downstream_gene_variant,,ENST00000466250,;GALE,downstream_gene_variant,,ENST00000467070,;GALE,downstream_gene_variant,,ENST00000486382,;GALE,downstream_gene_variant,,ENST00000469556,;GALE,downstream_gene_variant,,ENST00000470949,;	T	ENSG00000011009	ENST00000374514	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	LYPLA2	HGNC	6738	protein_coding	YES	CCDS241.1	ENSP00000363638	LYPA2_HUMAN	Q5QPQ0_HUMAN,Q5QPN5_HUMAN	UPI0000073F0B	.	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCTCAGGAG	.	4	BLCA
FAM213B	0	.	GRCh37	1	2519970	2519970	+	Intron	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.475-19C>T	.	.	ENST00000419916	.	102	81	21	190	190	0	FAM213B,missense_variant,p.Ala147Val,ENST00000465233,;FAM213B,intron_variant,,ENST00000444521,;FAM213B,intron_variant,,ENST00000537325,;FAM213B,intron_variant,,ENST00000419916,;FAM213B,intron_variant,,ENST00000378427,;FAM213B,intron_variant,,ENST00000378425,;FAM213B,intron_variant,,ENST00000378424,;FAM213B,intron_variant,,ENST00000498083,;MMEL1,downstream_gene_variant,,ENST00000378412,;MMEL1,downstream_gene_variant,,ENST00000471840,;MMEL1,downstream_gene_variant,,ENST00000502556,;MMEL1,downstream_gene_variant,,ENST00000288709,;RP3-395M20.9,downstream_gene_variant,,ENST00000424215,;FAM213B,splice_region_variant,,ENST00000481683,;FAM213B,splice_region_variant,,ENST00000484099,;FAM213B,non_coding_transcript_exon_variant,,ENST00000477045,;FAM213B,intron_variant,,ENST00000464043,;FAM213B,intron_variant,,ENST00000493183,;FAM213B,intron_variant,,ENST00000474659,;FAM213B,upstream_gene_variant,,ENST00000476686,;MMEL1,downstream_gene_variant,,ENST00000491941,;MMEL1,downstream_gene_variant,,ENST00000504800,;MMEL1,downstream_gene_variant,,ENST00000469962,;MMEL1,downstream_gene_variant,,ENST00000464195,;	T	ENSG00000157870	ENST00000419916	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	FAM213B	HGNC	28390	protein_coding	YES	CCDS44.2	ENSP00000394405	.	J3KQD0_HUMAN	UPI0001E306A4	.	.	.	.	4/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCAGGCTGTAC	.	5	BLCA
GPATCH3	0	.	GRCh37	1	27219934	27219934	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057G>A	p.Asp353Asn	p.D353N	ENST00000361720	4/7	199	184	15	229	229	0	GPATCH3,missense_variant,p.Asp353Asn,ENST00000361720,;GPATCH3,missense_variant,p.Asp3Asn,ENST00000445019,;GPN2,upstream_gene_variant,,ENST00000431781,;GPATCH3,upstream_gene_variant,,ENST00000450844,;GPN2,upstream_gene_variant,,ENST00000374135,;GPN2,upstream_gene_variant,,ENST00000461282,;	T	ENSG00000198746	ENST00000361720	Transcript	missense_variant	1081	1057	353	D/N	Gat/Aat	.	.	.	-1	GPATCH3	HGNC	25720	protein_coding	YES	CCDS290.1	ENSP00000354645	GPTC3_HUMAN	Q5JYG5_HUMAN,B4E015_HUMAN	UPI000003E830	.	deleterious(0)	probably_damaging(1)	4/7	.	hmmpanther:PTHR14390	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCATCAAAAT	.	2	BLCA
GRIK3	0	.	GRCh37	1	37356576	37356576	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237G>C	p.Leu79Phe	p.L79F	ENST00000373091	2/16	87	81	6	123	123	0	GRIK3,missense_variant,p.Leu79Phe,ENST00000373093,;GRIK3,missense_variant,p.Leu79Phe,ENST00000373091,;	G	ENSG00000163873	ENST00000373091	Transcript	missense_variant	254	237	79	L/F	ttG/ttC	COSM350046	.	.	-1	GRIK3	HGNC	4581	protein_coding	YES	CCDS416.1	ENSP00000362183	GRIK3_HUMAN	Q96SC0_HUMAN	UPI000013E311	.	deleterious(0.02)	probably_damaging(1)	2/16	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF53822,Pfam_domain:PF01094,Gene3D:3.40.50.2300	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGGTCAAGGT	.	2	BLCA
C1orf109	0	.	GRCh37	1	38149000	38149000	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.565C>G	p.Leu189Val	p.L189V	ENST00000358011	4/5	91	73	18	140	140	0	C1orf109,missense_variant,p.Leu189Val,ENST00000491981,;C1orf109,missense_variant,p.Leu189Val,ENST00000464085,;C1orf109,missense_variant,p.Leu189Val,ENST00000358011,;C1orf109,downstream_gene_variant,,ENST00000486637,;C1orf109,downstream_gene_variant,,ENST00000477060,;C1orf109,downstream_gene_variant,,ENST00000461359,;C1orf109,non_coding_transcript_exon_variant,,ENST00000464178,;C1orf109,non_coding_transcript_exon_variant,,ENST00000609516,;C1orf109,3_prime_UTR_variant,,ENST00000494120,;	C	ENSG00000116922	ENST00000358011	Transcript	missense_variant	755	565	189	L/V	Ctt/Gtt	.	.	.	-1	C1orf109	HGNC	26039	protein_coding	YES	CCDS423.1	ENSP00000350704	CA109_HUMAN	B7Z9X8_HUMAN,B4DRQ5_HUMAN	UPI00000736AB	.	tolerated(0.43)	possibly_damaging(0.547)	4/5	.	hmmpanther:PTHR16234:SF4,hmmpanther:PTHR16234	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACAAGATCTT	.	5	BLCA
RIMKLA	0	.	GRCh37	1	42880478	42880478	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1009G>C	p.Glu337Gln	p.E337Q	ENST00000431473	5/5	42	28	14	69	69	0	RIMKLA,missense_variant,p.Glu337Gln,ENST00000431473,;RIMKLA,downstream_gene_variant,,ENST00000410070,;RP11-157D18.2,upstream_gene_variant,,ENST00000411908,;	C	ENSG00000177181	ENST00000431473	Transcript	missense_variant	1138	1009	337	E/Q	Gag/Cag	.	.	.	1	RIMKLA	HGNC	28725	protein_coding	YES	CCDS466.2	ENSP00000414330	RIMKA_HUMAN	.	UPI0000160ABF	.	tolerated_low_confidence(0.08)	benign(0.192)	5/5	.	hmmpanther:PTHR21621,hmmpanther:PTHR21621:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCAGAGAGC	.	5	BLCA
PTPRF	0	.	GRCh37	1	44071008	44071008	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3283A>C	p.Thr1095Pro	p.T1095P	ENST00000359947	18/34	36	28	7	60	60	0	PTPRF,missense_variant,p.Thr156Pro,ENST00000372407,;PTPRF,missense_variant,p.Thr468Pro,ENST00000412568,;PTPRF,missense_variant,p.Thr509Pro,ENST00000414879,;PTPRF,missense_variant,p.Thr1086Pro,ENST00000438120,;PTPRF,missense_variant,p.Thr1095Pro,ENST00000359947,;PTPRF,missense_variant,p.Thr741Pro,ENST00000429895,;PTPRF,missense_variant,p.Thr1086Pro,ENST00000372413,;PTPRF,missense_variant,p.Thr443Pro,ENST00000422171,;PTPRF,missense_variant,p.Thr1095Pro,ENST00000372414,;PTPRF,non_coding_transcript_exon_variant,,ENST00000496447,;PTPRF,upstream_gene_variant,,ENST00000463041,;	C	ENSG00000142949	ENST00000359947	Transcript	missense_variant	3623	3283	1095	T/P	Aca/Cca	.	.	.	1	PTPRF	HGNC	9670	protein_coding	YES	CCDS489.2	ENSP00000353030	PTPRF_HUMAN	G1UI20_HUMAN	UPI0000470154	.	deleterious(0)	probably_damaging(0.999)	18/34	.	Superfamily_domains:SSF49265,Gene3D:2.60.40.10,hmmpanther:PTHR19134:SF203,hmmpanther:PTHR19134,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGCACAGCC	.	5	BLCA
DPH2	0	.	GRCh37	1	44438235	44438235	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24G>A	.	.	ENST00000255108	6/6	32	26	6	71	71	0	DPH2,3_prime_UTR_variant,,ENST00000396758,;DPH2,3_prime_UTR_variant,,ENST00000459879,;DPH2,3_prime_UTR_variant,,ENST00000255108,;DPH2,3_prime_UTR_variant,,ENST00000412950,;ATP6V0B,upstream_gene_variant,,ENST00000498664,;IPO13,downstream_gene_variant,,ENST00000372343,;IPO13,downstream_gene_variant,,ENST00000372339,;ATP6V0B,upstream_gene_variant,,ENST00000236067,;ATP6V0B,upstream_gene_variant,,ENST00000472505,;ATP6V0B,upstream_gene_variant,,ENST00000532642,;ATP6V0B,upstream_gene_variant,,ENST00000471859,;ATP6V0B,upstream_gene_variant,,ENST00000472174,;IPO13,downstream_gene_variant,,ENST00000486876,;DPH2,downstream_gene_variant,,ENST00000471934,;ATP6V0B,upstream_gene_variant,,ENST00000472277,;DPH2,downstream_gene_variant,,ENST00000477294,;DPH2,downstream_gene_variant,,ENST00000529729,;DPH2,3_prime_UTR_variant,,ENST00000527319,;DPH2,3_prime_UTR_variant,,ENST00000524776,;DPH2,3_prime_UTR_variant,,ENST00000495421,;DPH2,downstream_gene_variant,,ENST00000532140,;DPH2,downstream_gene_variant,,ENST00000490861,;DPH2,downstream_gene_variant,,ENST00000534786,;ATP6V0B,upstream_gene_variant,,ENST00000461670,;DPH2,downstream_gene_variant,,ENST00000492306,;ATP6V0B,upstream_gene_variant,,ENST00000473485,;ATP6V0B,upstream_gene_variant,,ENST00000498208,;DPH2,downstream_gene_variant,,ENST00000534655,;ATP6V0B,upstream_gene_variant,,ENST00000496131,;ATP6V0B,upstream_gene_variant,,ENST00000468183,;DPH2,downstream_gene_variant,,ENST00000530988,;DPH2,downstream_gene_variant,,ENST00000476260,;ATP6V0B,upstream_gene_variant,,ENST00000532072,;DPH2,downstream_gene_variant,,ENST00000527567,;	A	ENSG00000132768	ENST00000255108	Transcript	3_prime_UTR_variant	1666	.	.	.	.	.	.	.	1	DPH2	HGNC	3004	protein_coding	YES	CCDS504.1	ENSP00000255108	DPH2_HUMAN	B3KRB8_HUMAN	UPI0000070CCB	.	.	.	6/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATAGATGGA	.	5	BLCA
CYP4A22	0	.	GRCh37	1	47610589	47610589	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1169G>A	p.Gly390Glu	p.G390E	ENST00000371891	9/12	25	22	3	41	41	0	CYP4A22,missense_variant,p.Gly292Glu,ENST00000371890,;CYP4A22,missense_variant,p.Gly390Glu,ENST00000294337,;CYP4A22,missense_variant,p.Gly390Glu,ENST00000371891,;CYP4A22-AS1,intron_variant,,ENST00000444042,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000485117,;CYP4A22,non_coding_transcript_exon_variant,,ENST00000490948,;	A	ENSG00000162365	ENST00000371891	Transcript	missense_variant	1200	1169	390	G/E	gGa/gAa	COSM3490499	.	.	1	CYP4A22	HGNC	20575	protein_coding	YES	CCDS30707.1	ENSP00000360958	CP4AM_HUMAN	.	UPI00002371F0	.	deleterious(0.03)	possibly_damaging(0.47)	9/12	.	hmmpanther:PTHR24290:SF67,hmmpanther:PTHR24290,Gene3D:1.10.630.10,Pfam_domain:PF00067,Superfamily_domains:SSF48264	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G390G|c.1170A>C|4	MUTECT|MUSE	CATTGGAAGAG	.	2	BLCA
GLIS1	0	.	GRCh37	1	53986424	53986424	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1084G>A	p.Asp362Asn	p.D362N	ENST00000312233	6/10	14	9	4	17	17	0	GLIS1,missense_variant,p.Asp362Asn,ENST00000312233,;	T	ENSG00000174332	ENST00000312233	Transcript	missense_variant	1651	1084	362	D/N	Gac/Aac	.	.	.	-1	GLIS1	HGNC	29525	protein_coding	YES	CCDS582.1	ENSP00000309653	GLIS1_HUMAN	.	UPI000013F293	.	deleterious(0.04)	benign(0.322)	6/10	.	hmmpanther:PTHR19818,hmmpanther:PTHR19818:SF75	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	GGTGTCAGGGC	.	4	BLCA
CLCA1	0	.	GRCh37	1	86960029	86960029	+	Missense_Mutation	SNP	A	A	G	rs781270565	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1840A>G	p.Ile614Val	p.I614V	ENST00000234701	12/15	24	18	6	55	55	0	CLCA1,missense_variant,p.Ile614Val,ENST00000234701,;CLCA1,missense_variant,p.Ile614Val,ENST00000394711,;	G	ENSG00000016490	ENST00000234701	Transcript	missense_variant	2191	1840	614	I/V	Att/Gtt	rs781270565	.	.	1	CLCA1	HGNC	2015	protein_coding	YES	CCDS709.1	ENSP00000234701	CLCA1_HUMAN	.	UPI00001AE689	.	tolerated(1)	benign(0.039)	12/15	.	hmmpanther:PTHR10579:SF44,hmmpanther:PTHR10579,Pfam_domain:PF09315,TIGRFAM_domain:TIGR00868	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAATATTCGC	.	5	BLCA
GBP2	0	.	GRCh37	1	89579891	89579891	+	Silent	SNP	C	C	T	rs771537115	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.957G>A	p.%3D	p.Q319Q	ENST00000370466	7/11	40	36	4	71	70	1	GBP2,synonymous_variant,p.%3D,ENST00000370466,;GBP2,non_coding_transcript_exon_variant,,ENST00000463660,;GBP2,upstream_gene_variant,,ENST00000493802,;GBP2,synonymous_variant,p.%3D,ENST00000464839,;	T	ENSG00000162645	ENST00000370466	Transcript	synonymous_variant	1226	957	319	Q	caG/caA	rs771537115	.	.	-1	GBP2	HGNC	4183	protein_coding	YES	CCDS719.1	ENSP00000359497	GBP2_HUMAN	Q8TCE5_HUMAN	UPI000013E19F	.	.	.	7/11	.	hmmpanther:PTHR10751,hmmpanther:PTHR10751:SF39,Pfam_domain:PF02841,Gene3D:1f5nA01,Superfamily_domains:0037397	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTATCTGGGC	.	3	BLCA
RIMS4	0	.	GRCh37	20	43386371	43386371	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394G>A	p.Glu132Lys	p.E132K	ENST00000541604	4/6	62	55	6	93	93	0	RIMS4,missense_variant,p.Glu132Lys,ENST00000541604,;RIMS4,missense_variant,p.Glu131Lys,ENST00000372851,;	T	ENSG00000101098	ENST00000541604	Transcript	missense_variant	394	394	132	E/K	Gag/Aag	.	.	.	-1	RIMS4	HGNC	16183	protein_coding	YES	CCDS56191.1	ENSP00000439287	RIMS4_HUMAN	.	UPI0000367043	.	deleterious_low_confidence(0)	probably_damaging(0.992)	4/6	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,Pfam_domain:PF00168,hmmpanther:PTHR12157,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CACCTCCAACT	.	3	BLCA
ATP9A	0	.	GRCh37	20	50314000	50314000	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.458C>T	p.Ser153Phe	p.S153F	ENST00000338821	5/28	129	87	42	99	99	0	ATP9A,missense_variant,p.Ser153Phe,ENST00000338821,;ATP9A,intron_variant,,ENST00000402822,;ATP9A,intron_variant,,ENST00000311637,;	A	ENSG00000054793	ENST00000338821	Transcript	missense_variant	723	458	153	S/F	tCt/tTt	.	.	.	-1	ATP9A	HGNC	13540	protein_coding	YES	CCDS33489.1	ENSP00000342481	ATP9A_HUMAN	Q2NLD0_HUMAN,B4DR18_HUMAN	UPI000004D334	.	deleterious(0)	probably_damaging(0.972)	5/28	.	hmmpanther:PTHR24092:SF49,hmmpanther:PTHR24092,TIGRFAM_domain:TIGR01652,Gene3D:2.70.150.10,Pfam_domain:PF00122,Superfamily_domains:0049471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTAGAACTC	.	5	BLCA
DOPEY2	0	.	GRCh37	21	37623551	37623551	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5090G>C	p.Arg1697Thr	p.R1697T	ENST00000399151	22/37	51	47	4	91	91	0	DOPEY2,missense_variant,p.Arg1697Thr,ENST00000399151,;DOPEY2,non_coding_transcript_exon_variant,,ENST00000463668,;	C	ENSG00000142197	ENST00000399151	Transcript	missense_variant	5175	5090	1697	R/T	aGa/aCa	.	.	.	1	DOPEY2	HGNC	1291	protein_coding	YES	CCDS13643.1	ENSP00000382104	DOP2_HUMAN	F8W8U9_HUMAN	UPI000013D876	.	deleterious(0.01)	benign(0.06)	22/37	.	hmmpanther:PTHR14042:SF23,hmmpanther:PTHR14042	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGCAGAAAGA	.	2	BLCA
RIMBP3	0	.	GRCh37	22	20458133	20458133	+	Missense_Mutation	SNP	C	C	T	rs750465204	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3169G>A	p.Glu1057Lys	p.E1057K	ENST00000426804	1/1	24	21	3	46	46	0	RIMBP3,missense_variant,p.Glu1057Lys,ENST00000426804,;SCARNA17,downstream_gene_variant,,ENST00000516762,;SCARNA18,downstream_gene_variant,,ENST00000516215,;RN7SKP131,upstream_gene_variant,,ENST00000363006,;	T	ENSG00000196622	ENST00000426804	Transcript	missense_variant	3654	3169	1057	E/K	Gag/Aag	rs750465204	.	.	-1	RIMBP3	HGNC	29344	protein_coding	YES	CCDS46665.1	ENSP00000391564	RIM3A_HUMAN	.	UPI0000237729	.	deleterious(0.01)	possibly_damaging(0.892)	1/1	.	PROSITE_profiles:PS50853,hmmpanther:PTHR14234,hmmpanther:PTHR14234:SF21,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTCCACCC	.	2	BLCA
SGSM1	0	.	GRCh37	22	25313651	25313651	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3120G>A	p.%3D	p.L1040L	ENST00000400359	24/26	32	27	5	42	42	0	SGSM1,synonymous_variant,p.%3D,ENST00000400359,;SGSM1,synonymous_variant,p.%3D,ENST00000400358,;SGSM1,non_coding_transcript_exon_variant,,ENST00000480523,;SGSM1,non_coding_transcript_exon_variant,,ENST00000473458,;	A	ENSG00000167037	ENST00000400359	Transcript	synonymous_variant	3127	3120	1040	L	ctG/ctA	.	.	.	1	SGSM1	HGNC	29410	protein_coding	YES	CCDS46674.1	ENSP00000383212	SGSM1_HUMAN	.	UPI00006EB130	.	.	.	24/26	.	PROSITE_profiles:PS50086,hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF187,Pfam_domain:PF00566,SMART_domains:SM00164,Superfamily_domains:SSF47923,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTGATGCA	.	4	BLCA
APOL5	0	.	GRCh37	22	36122361	36122361	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.246G>A	p.%3D	p.L82L	ENST00000249044	3/5	47	41	6	75	75	0	APOL5,synonymous_variant,p.%3D,ENST00000249044,;	A	ENSG00000128313	ENST00000249044	Transcript	synonymous_variant	246	246	82	L	ctG/ctA	.	.	.	1	APOL5	HGNC	14869	protein_coding	YES	CCDS13920.1	ENSP00000249044	APOL5_HUMAN	.	UPI0000125C99	.	.	.	3/5	.	Pfam_domain:PF05461,hmmpanther:PTHR14096:SF6,hmmpanther:PTHR14096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGCTGATGCG	.	4	BLCA
TRIOBP	0	.	GRCh37	22	38121328	38121328	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2765C>G	p.Ser922Cys	p.S922C	ENST00000406386	7/24	55	50	4	113	113	0	TRIOBP,missense_variant,p.Ser922Cys,ENST00000406386,;NOL12,3_prime_UTR_variant,,ENST00000455236,;TRIOBP,3_prime_UTR_variant,,ENST00000344404,;TRIOBP,non_coding_transcript_exon_variant,,ENST00000492485,;	G	ENSG00000100106	ENST00000406386	Transcript	missense_variant	3020	2765	922	S/C	tCt/tGt	.	.	.	1	TRIOBP	HGNC	17009	protein_coding	YES	CCDS43015.1	ENSP00000384312	TARA_HUMAN	F6WYE2_HUMAN,F6WMF4_HUMAN	UPI000067CB88	.	deleterious_low_confidence(0.01)	probably_damaging(0.998)	7/24	.	hmmpanther:PTHR17271:SF10,hmmpanther:PTHR17271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACCTCTTCCC	.	2	BLCA
TRIOBP	0	.	GRCh37	22	38121882	38121882	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3319C>T	p.Gln1107Ter	p.Q1107*	ENST00000406386	7/24	78	65	13	96	96	0	TRIOBP,stop_gained,p.Gln1107Ter,ENST00000406386,;NOL12,3_prime_UTR_variant,,ENST00000455236,;TRIOBP,3_prime_UTR_variant,,ENST00000344404,;TRIOBP,non_coding_transcript_exon_variant,,ENST00000492485,;	T	ENSG00000100106	ENST00000406386	Transcript	stop_gained	3574	3319	1107	Q/*	Cag/Tag	COSM3554248	.	.	1	TRIOBP	HGNC	17009	protein_coding	YES	CCDS43015.1	ENSP00000384312	TARA_HUMAN	F6WYE2_HUMAN,F6WMF4_HUMAN	UPI000067CB88	.	.	.	7/24	.	hmmpanther:PTHR17271:SF10,hmmpanther:PTHR17271	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCAGCTC	.	5	BLCA
SCUBE1	0	.	GRCh37	22	43625175	43625175	+	Silent	SNP	G	G	A	rs141394008	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.987C>T	p.%3D	p.F329F	ENST00000360835	9/22	20	17	3	38	38	0	SCUBE1,synonymous_variant,p.%3D,ENST00000360835,;SCUBE1,downstream_gene_variant,,ENST00000449304,;Z82214.2,upstream_gene_variant,,ENST00000419643,;	A	ENSG00000159307	ENST00000360835	Transcript	synonymous_variant	1114	987	329	F	ttC/ttT	rs141394008,COSM3785681	.	.	-1	SCUBE1	HGNC	13441	protein_coding	YES	CCDS14048.1	ENSP00000354080	SCUB1_HUMAN	.	UPI000020790F	.	.	.	9/22	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24046:SF4,hmmpanther:PTHR24046,PROSITE_patterns:PS01187,Gene3D:2.10.25.10,Pfam_domain:PF07645,SMART_domains:SM00181,SMART_domains:SM00179,Superfamily_domains:SSF57184	.	.	.	.	.	.	.	A:0	A:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCTCGAAGGA	byCluster	2	BLCA
PARVG	0	.	GRCh37	22	44602202	44602202	+	Missense_Mutation	SNP	G	G	A	rs775746868	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.892G>A	p.Val298Met	p.V298M	ENST00000444313	14/14	28	25	3	36	36	0	PARVG,missense_variant,p.Val298Met,ENST00000444313,;PARVG,missense_variant,p.Val298Met,ENST00000415224,;PARVG,missense_variant,p.Val298Met,ENST00000422871,;PARVG,intron_variant,,ENST00000472551,;PARVG,3_prime_UTR_variant,,ENST00000356909,;PARVG,non_coding_transcript_exon_variant,,ENST00000468564,;PARVG,non_coding_transcript_exon_variant,,ENST00000475485,;	A	ENSG00000138964	ENST00000444313	Transcript	missense_variant	1376	892	298	V/M	Gtg/Atg	rs775746868	.	.	1	PARVG	HGNC	14654	protein_coding	YES	CCDS14057.1	ENSP00000391583	PARVG_HUMAN	B0QYM9_HUMAN	UPI000004470F	.	deleterious(0.04)	probably_damaging(0.947)	14/14	.	PROSITE_profiles:PS50021,hmmpanther:PTHR12114,hmmpanther:PTHR12114:SF1,Gene3D:1.10.418.10,Pfam_domain:PF00307,SMART_domains:SM00033,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATATCGTGAAC	byFrequency	4	BLCA
SHANK3	0	.	GRCh37	22	51154122	51154122	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2339C>G	p.Pro780Arg	p.P780R	ENST00000262795	21/23	73	63	10	102	102	0	SHANK3,missense_variant,p.Pro780Arg,ENST00000262795,;SHANK3,missense_variant,p.Pro766Arg,ENST00000445220,;SHANK3,missense_variant,p.Pro750Arg,ENST00000414786,;	G	ENSG00000251322	ENST00000262795	Transcript	missense_variant	2339	2339	780	P/R	cCa/cGa	.	.	.	1	SHANK3	HGNC	14294	protein_coding	YES	.	ENSP00000442518	.	F8TCV3_HUMAN,F2Z3L0_HUMAN	UPI0000DD85FB	.	.	possibly_damaging(0.871)	21/23	.	hmmpanther:PTHR24135:SF4,hmmpanther:PTHR24135	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCCCAGGCC	.	4	BLCA
GREB1	0	.	GRCh37	2	11741061	11741061	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2469G>C	p.Gln823His	p.Q823H	ENST00000381486	16/33	60	48	11	100	100	0	GREB1,missense_variant,p.Gln823His,ENST00000234142,;GREB1,missense_variant,p.Gln457His,ENST00000432985,;GREB1,missense_variant,p.Gln823His,ENST00000381486,;	C	ENSG00000196208	ENST00000381486	Transcript	missense_variant	2769	2469	823	Q/H	caG/caC	.	.	.	1	GREB1	HGNC	24885	protein_coding	YES	CCDS42655.1	ENSP00000370896	GREB1_HUMAN	.	UPI0000163937	.	deleterious(0)	probably_damaging(0.998)	16/33	.	hmmpanther:PTHR15720,hmmpanther:PTHR15720:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCAGACACA	.	5	BLCA
CCDC93	0	.	GRCh37	2	118758404	118758404	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.356T>C	p.Val119Ala	p.V119A	ENST00000376300	4/24	41	38	3	27	27	0	CCDC93,missense_variant,p.Val119Ala,ENST00000319432,;CCDC93,missense_variant,p.Val119Ala,ENST00000376300,;AC009303.1,intron_variant,,ENST00000590516,;AC009303.1,intron_variant,,ENST00000588042,;RP11-98C1.1,downstream_gene_variant,,ENST00000588733,;AC009303.1,downstream_gene_variant,,ENST00000585381,;AC009303.1,downstream_gene_variant,,ENST00000413179,;RP11-98C1.2,downstream_gene_variant,,ENST00000591103,;CCDC93,upstream_gene_variant,,ENST00000460781,;CCDC93,non_coding_transcript_exon_variant,,ENST00000474006,;	G	ENSG00000125633	ENST00000376300	Transcript	missense_variant	494	356	119	V/A	gTt/gCt	.	.	.	-1	CCDC93	HGNC	25611	protein_coding	YES	CCDS2121.2	ENSP00000365477	CCD93_HUMAN	.	UPI0000207DEC	.	deleterious(0.02)	possibly_damaging(0.85)	4/24	.	hmmpanther:PTHR16441,Pfam_domain:PF09762	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAACAACAGGA	.	2	BLCA
PLEKHB2	0	.	GRCh37	2	131890540	131890540	+	Silent	SNP	G	G	A	rs553573885	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.399G>A	p.%3D	p.T133T	ENST00000409158	6/8	34	29	5	62	61	1	PLEKHB2,synonymous_variant,p.%3D,ENST00000403716,;PLEKHB2,synonymous_variant,p.%3D,ENST00000538982,;PLEKHB2,synonymous_variant,p.%3D,ENST00000438882,;PLEKHB2,synonymous_variant,p.%3D,ENST00000409612,;PLEKHB2,synonymous_variant,p.%3D,ENST00000409158,;PLEKHB2,synonymous_variant,p.%3D,ENST00000404460,;PLEKHB2,synonymous_variant,p.%3D,ENST00000234115,;PLEKHB2,synonymous_variant,p.%3D,ENST00000303908,;PLEKHB2,synonymous_variant,p.%3D,ENST00000409279,;PLEKHB2,intron_variant,,ENST00000439822,;	A	ENSG00000115762	ENST00000409158	Transcript	synonymous_variant	959	399	133	T	acG/acA	rs553573885,COSM121583,COSM121584	.	.	1	PLEKHB2	HGNC	19236	protein_coding	YES	CCDS58730.1	ENSP00000386410	PKHB2_HUMAN	.	UPI0000EE817E	.	.	.	6/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14309,hmmpanther:PTHR14309:SF8	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|VARSCANS	TACACGGCCTA	by1000G	3	BLCA
ZRANB3	0	.	GRCh37	2	135965023	135965023	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2990C>T	p.Ser997Leu	p.S997L	ENST00000264159	19/21	138	120	17	161	161	0	ZRANB3,missense_variant,p.Ser995Leu,ENST00000401392,;ZRANB3,missense_variant,p.Ser995Leu,ENST00000536680,;ZRANB3,missense_variant,p.Ser997Leu,ENST00000264159,;ZRANB3,non_coding_transcript_exon_variant,,ENST00000412849,;ZRANB3,3_prime_UTR_variant,,ENST00000403017,;ZRANB3,non_coding_transcript_exon_variant,,ENST00000474919,;	A	ENSG00000121988	ENST00000264159	Transcript	missense_variant	3107	2990	997	S/L	tCa/tTa	.	.	.	-1	ZRANB3	HGNC	25249	protein_coding	YES	CCDS46419.1	ENSP00000264159	ZRAB3_HUMAN	.	UPI0000509F0C	.	deleterious(0.01)	possibly_damaging(0.517)	19/21	.	SMART_domains:SM00507	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTTGAAGTC	.	4	BLCA
KCNH7	0	.	GRCh37	2	163693224	163693224	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130T>A	p.Cys44Ser	p.C44S	ENST00000332142	2/16	73	56	16	89	89	0	KCNH7,missense_variant,p.Cys44Ser,ENST00000332142,;KCNH7,missense_variant,p.Cys44Ser,ENST00000328032,;	T	ENSG00000184611	ENST00000332142	Transcript	missense_variant	230	130	44	C/S	Tgc/Agc	.	.	.	-1	KCNH7	HGNC	18863	protein_coding	YES	CCDS2219.1	ENSP00000331727	KCNH7_HUMAN	.	UPI0000167D11	.	deleterious(0)	probably_damaging(1)	2/16	.	hmmpanther:PTHR10217:SF466,hmmpanther:PTHR10217,TIGRFAM_domain:TIGR00229,Pfam_domain:PF13426,Gene3D:3.30.450.20,Superfamily_domains:SSF55785	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGCAATAAA	.	5	BLCA
SCN3A	0	.	GRCh37	2	165971968	165971968	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3511G>A	p.Glu1171Lys	p.E1171K	ENST00000283254	19/28	77	68	9	90	90	0	SCN3A,missense_variant,p.Glu1122Lys,ENST00000440431,;SCN3A,missense_variant,p.Glu1171Lys,ENST00000360093,;SCN3A,missense_variant,p.Glu1171Lys,ENST00000283254,;SCN3A,missense_variant,p.Glu1122Lys,ENST00000409101,;	T	ENSG00000153253	ENST00000283254	Transcript	missense_variant	3979	3511	1171	E/K	Gaa/Aaa	COSM1305773,COSM1305774	.	.	-1	SCN3A	HGNC	10590	protein_coding	YES	CCDS33312.1	ENSP00000283254	SCN3A_HUMAN	F5H4V8_HUMAN,C9JBM7_HUMAN	UPI000002A665	.	deleterious(0.02)	possibly_damaging(0.81)	19/28	.	hmmpanther:PTHR10037:SF200,hmmpanther:PTHR10037,Pfam_domain:PF06512	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTCAGTAA	.	4	BLCA
METTL8	0	.	GRCh37	2	172187201	172187201	+	Missense_Mutation	SNP	G	G	A	rs142842112	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.728C>T	p.Ser243Leu	p.S243L	ENST00000375258	7/10	49	43	6	55	55	0	METTL8,missense_variant,p.Ser79Leu,ENST00000438609,;METTL8,missense_variant,p.Ser205Leu,ENST00000392599,;METTL8,missense_variant,p.Ser243Leu,ENST00000375258,;METTL8,intron_variant,,ENST00000460188,;METTL8,intron_variant,,ENST00000477130,;METTL8,upstream_gene_variant,,ENST00000463392,;METTL8,downstream_gene_variant,,ENST00000460539,;METTL8,missense_variant,p.Ser243Leu,ENST00000392604,;METTL8,missense_variant,p.Ser193Leu,ENST00000447486,;METTL8,non_coding_transcript_exon_variant,,ENST00000483284,;METTL8,upstream_gene_variant,,ENST00000464491,;METTL8,upstream_gene_variant,,ENST00000470773,;	A	ENSG00000123600	ENST00000375258	Transcript	missense_variant	944	728	243	S/L	tCg/tTg	rs142842112	.	.	-1	METTL8	HGNC	25856	protein_coding	YES	.	ENSP00000364407	.	E7ETE0_HUMAN,C9JE69_HUMAN,C9J6U8_HUMAN,C9J3F1_HUMAN,B3KW44_HUMAN	UPI0000D4CA51	.	tolerated(0.11)	benign(0.033)	7/10	.	Superfamily_domains:SSF53335,PIRSF_domain:PIRSF037755,Gene3D:3.40.50.150,Pfam_domain:PF08242,hmmpanther:PTHR22809:SF3,hmmpanther:PTHR22809	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0.0007	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGACGAGTGT	byCluster|by1000G	4	BLCA
RAPGEF4	0	.	GRCh37	2	173901378	173901378	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2811G>A	p.%3D	p.G937G	ENST00000397081	29/31	51	47	4	50	50	0	RAPGEF4,synonymous_variant,p.%3D,ENST00000397087,;RAPGEF4,synonymous_variant,p.%3D,ENST00000264111,;RAPGEF4,synonymous_variant,p.%3D,ENST00000535187,;RAPGEF4,synonymous_variant,p.%3D,ENST00000539331,;RAPGEF4,synonymous_variant,p.%3D,ENST00000538974,;RAPGEF4,synonymous_variant,p.%3D,ENST00000397081,;RAPGEF4,synonymous_variant,p.%3D,ENST00000540783,;RAPGEF4,synonymous_variant,p.%3D,ENST00000397085,;RAPGEF4,intron_variant,,ENST00000409036,;	A	ENSG00000091428	ENST00000397081	Transcript	synonymous_variant	2954	2811	937	G	ggG/ggA	.	.	.	1	RAPGEF4	HGNC	16626	protein_coding	YES	CCDS42775.1	ENSP00000380271	RPGF4_HUMAN	Q53TH3_HUMAN,Q53QY2_HUMAN,B7Z283_HUMAN,B7Z278_HUMAN	UPI000006D4C7	.	.	.	29/31	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113,hmmpanther:PTHR23113:SF175,PROSITE_patterns:PS00720,Gene3D:2ii0A02,Pfam_domain:PF00617,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAGGGGAACAA	.	3	BLCA
TTN	0	.	GRCh37	2	179590656	179590656	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.20393A>T	p.Lys6798Met	p.K6798M	ENST00000589042	70/363	31	27	4	36	36	0	TTN,missense_variant,p.Lys5554Met,ENST00000342992,;TTN,missense_variant,p.Lys6481Met,ENST00000591111,;TTN,missense_variant,p.Lys6798Met,ENST00000589042,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342175,;TTN,intron_variant,,ENST00000460472,;RP11-171I2.1,non_coding_transcript_exon_variant,,ENST00000590024,;TTN-AS1,intron_variant,,ENST00000585451,;	A	ENSG00000155657	ENST00000589042	Transcript	missense_variant	20618	20393	6798	K/M	aAg/aTg	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	70/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCGCTTGTCT	.	4	BLCA
CCDC150	0	.	GRCh37	2	197541388	197541388	+	Missense_Mutation	SNP	G	G	A	rs776380177	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1373G>A	p.Gly458Asp	p.G458D	ENST00000389175	12/28	35	31	4	45	45	0	CCDC150,missense_variant,p.Gly458Asp,ENST00000389175,;CCDC150,missense_variant,p.Gly126Asp,ENST00000272831,;CCDC150,missense_variant,p.Gly126Asp,ENST00000423093,;CCDC150,3_prime_UTR_variant,,ENST00000472405,;CCDC150,non_coding_transcript_exon_variant,,ENST00000497159,;CCDC150,downstream_gene_variant,,ENST00000498512,;CCDC150,upstream_gene_variant,,ENST00000469429,;CCDC150,downstream_gene_variant,,ENST00000495513,;CCDC150,3_prime_UTR_variant,,ENST00000431807,;	A	ENSG00000144395	ENST00000389175	Transcript	missense_variant	1508	1373	458	G/D	gGt/gAt	rs776380177	.	.	1	CCDC150	HGNC	26834	protein_coding	YES	CCDS46478.1	ENSP00000373827	CC150_HUMAN	.	UPI0000DD7A7C	.	tolerated(0.06)	benign(0.36)	12/28	.	Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCGAGGTGAAT	byFrequency	4	BLCA
NBEAL1	0	.	GRCh37	2	204074025	204074025	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7678G>A	p.Glu2560Lys	p.E2560K	ENST00000449802	52/55	81	74	7	89	89	0	NBEAL1,missense_variant,p.Glu2560Lys,ENST00000449802,;NBEAL1,missense_variant,p.Glu575Lys,ENST00000414576,;NBEAL1,missense_variant,p.Glu88Lys,ENST00000434469,;	A	ENSG00000144426	ENST00000449802	Transcript	missense_variant	8011	7678	2560	E/K	Gaa/Aaa	.	.	.	1	NBEAL1	HGNC	20681	protein_coding	YES	CCDS46495.1	ENSP00000399903	NBEL1_HUMAN	.	UPI000194EC27	.	tolerated(0.21)	probably_damaging(0.998)	52/55	.	hmmpanther:PTHR13743:SF59,hmmpanther:PTHR13743,Gene3D:2.130.10.10,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCACTGAAGAA	.	3	BLCA
SPAG16	0	.	GRCh37	2	214878727	214878727	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1453G>C	p.Glu485Gln	p.E485Q	ENST00000331683	13/16	80	68	12	116	116	0	SPAG16,missense_variant,p.Glu391Gln,ENST00000374309,;SPAG16,missense_variant,p.Glu109Gln,ENST00000451561,;SPAG16,missense_variant,p.Glu485Gln,ENST00000331683,;SPAG16,non_coding_transcript_exon_variant,,ENST00000480494,;SPAG16,3_prime_UTR_variant,,ENST00000452556,;SPAG16,3_prime_UTR_variant,,ENST00000406979,;	C	ENSG00000144451	ENST00000331683	Transcript	missense_variant	1548	1453	485	E/Q	Gag/Cag	.	.	.	1	SPAG16	HGNC	23225	protein_coding	YES	CCDS2396.1	ENSP00000332592	SPG16_HUMAN	Q53TL7_HUMAN,Q53TF1_HUMAN,Q53SC3_HUMAN,Q53RV6_HUMAN,Q53RF0_HUMAN,Q53R35_HUMAN,Q53QP6_HUMAN	UPI00001AFF12	.	tolerated(0.5)	benign(0.111)	13/16	.	PROSITE_profiles:PS50082,PROSITE_profiles:PS50294,hmmpanther:PTHR14604:SF3,hmmpanther:PTHR14604,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.P488S|c.1462C>T|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCATTGAGTTT	.	5	BLCA
BARD1	0	.	GRCh37	2	215661801	215661801	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199G>C	p.Glu67Gln	p.E67Q	ENST00000260947	2/11	142	124	18	177	177	0	BARD1,missense_variant,p.Glu67Gln,ENST00000421162,;BARD1,missense_variant,p.Glu67Gln,ENST00000260947,;BARD1,5_prime_UTR_variant,,ENST00000449967,;BARD1,intron_variant,,ENST00000471787,;BARD1,missense_variant,p.Glu67Gln,ENST00000455743,;BARD1,non_coding_transcript_exon_variant,,ENST00000479904,;	G	ENSG00000138376	ENST00000260947	Transcript	missense_variant	334	199	67	E/Q	Gag/Cag	.	.	.	-1	BARD1	HGNC	952	protein_coding	YES	CCDS2397.1	ENSP00000260947	BARD1_HUMAN	.	UPI000013D11D	.	deleterious(0.01)	probably_damaging(0.949)	2/11	.	PROSITE_profiles:PS50089,hmmpanther:PTHR24171:SF8,hmmpanther:PTHR24171,PROSITE_patterns:PS00518,Gene3D:3.30.40.10,Pfam_domain:PF14835,Superfamily_domains:SSF57850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGCTCACATC	.	4	BLCA
LRRFIP1	0	.	GRCh37	2	238671322	238671322	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.966G>A	p.%3D	p.E322E	ENST00000392000	11/11	44	36	8	46	46	0	LRRFIP1,synonymous_variant,p.%3D,ENST00000289175,;LRRFIP1,synonymous_variant,p.%3D,ENST00000244815,;LRRFIP1,synonymous_variant,p.%3D,ENST00000392000,;LRRFIP1,intron_variant,,ENST00000308482,;LRRFIP1,intron_variant,,ENST00000483443,;	A	ENSG00000124831	ENST00000392000	Transcript	synonymous_variant	1083	966	322	E	gaG/gaA	.	.	.	1	LRRFIP1	HGNC	6702	protein_coding	YES	CCDS46552.1	ENSP00000375857	LRRF1_HUMAN	.	UPI0000DD0949	.	.	.	11/11	.	hmmpanther:PTHR19212	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGAGAAAGA	.	5	BLCA
GPR35	0	.	GRCh37	2	241570154	241570154	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.878G>C	p.Ser293Thr	p.S293T	ENST00000438013	6/6	78	69	8	128	128	0	GPR35,missense_variant,p.Ser262Thr,ENST00000430267,;GPR35,missense_variant,p.Ser262Thr,ENST00000407714,;GPR35,missense_variant,p.Ser293Thr,ENST00000438013,;GPR35,missense_variant,p.Ser262Thr,ENST00000319838,;GPR35,missense_variant,p.Ser262Thr,ENST00000403859,;	C	ENSG00000178623	ENST00000438013	Transcript	missense_variant	1599	878	293	S/T	aGc/aCc	.	.	.	1	GPR35	HGNC	4492	protein_coding	YES	CCDS56174.1	ENSP00000415890	GPR35_HUMAN	.	UPI0000E6291C	.	tolerated(0.1)	possibly_damaging(0.469)	6/6	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24232:SF9,hmmpanther:PTHR24232,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCAGCAAGC	.	4	BLCA
ASXL2	0	.	GRCh37	2	26101081	26101081	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11A>G	p.Lys4Arg	p.K4R	ENST00000435504	1/13	55	51	3	82	82	0	ASXL2,missense_variant,p.Lys4Arg,ENST00000435504,;ASXL2,5_prime_UTR_variant,,ENST00000272341,;ASXL2,5_prime_UTR_variant,,ENST00000336112,;	C	ENSG00000143970	ENST00000435504	Transcript	missense_variant	305	11	4	K/R	aAg/aGg	.	.	.	-1	ASXL2	HGNC	23805	protein_coding	YES	.	ENSP00000391447	ASXL2_HUMAN	.	UPI00001DFBE8	.	tolerated(0.6)	benign(0.263)	1/13	.	hmmpanther:PTHR13578:SF11,hmmpanther:PTHR13578	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTCCCTTTTCC	.	2	BLCA
C2orf16	0	.	GRCh37	2	27803987	27803987	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4548C>G	p.Ile1516Met	p.I1516M	ENST00000408964	1/1	47	41	5	76	76	0	C2orf16,missense_variant,p.Ile1516Met,ENST00000408964,;ZNF512,upstream_gene_variant,,ENST00000355467,;ZNF512,upstream_gene_variant,,ENST00000379717,;ZNF512,upstream_gene_variant,,ENST00000416005,;ZNF512,upstream_gene_variant,,ENST00000413371,;ZNF512,upstream_gene_variant,,ENST00000556601,;AC074091.1,downstream_gene_variant,,ENST00000408604,;RP11-158I13.2,upstream_gene_variant,,ENST00000505973,;ZNF512,upstream_gene_variant,,ENST00000494548,;ZNF512,upstream_gene_variant,,ENST00000461705,;	G	ENSG00000221843	ENST00000408964	Transcript	missense_variant	4599	4548	1516	I/M	atC/atG	.	.	.	1	C2orf16	HGNC	25275	protein_coding	YES	CCDS42666.1	ENSP00000386190	CB016_HUMAN	.	UPI0000D61179	.	tolerated(0.11)	unknown(0)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAATCCTACC	.	4	BLCA
WDR43	0	.	GRCh37	2	29152518	29152518	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1379A>G	p.Asn460Ser	p.N460S	ENST00000407426	11/18	31	27	4	35	35	0	WDR43,missense_variant,p.Asn460Ser,ENST00000407426,;WDR43,downstream_gene_variant,,ENST00000296126,;WDR43,upstream_gene_variant,,ENST00000446643,;SNORD53,downstream_gene_variant,,ENST00000579969,;SNORD53_SNORD92,downstream_gene_variant,,ENST00000577887,;Y_RNA,upstream_gene_variant,,ENST00000410292,;WDR43,non_coding_transcript_exon_variant,,ENST00000466067,;	G	ENSG00000163811	ENST00000407426	Transcript	missense_variant	1435	1379	460	N/S	aAt/aGt	.	.	.	1	WDR43	HGNC	28945	protein_coding	YES	CCDS46251.1	ENSP00000384302	WDR43_HUMAN	C9JH61_HUMAN,C9JEE7_HUMAN,C9IZK7_HUMAN	UPI00001C1DCD	.	tolerated(0.1)	benign(0.071)	11/18	.	hmmpanther:PTHR22847:SF406,hmmpanther:PTHR22847	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACGAATAGCT	.	4	BLCA
BIRC6	0	.	GRCh37	2	32640936	32640936	+	Silent	SNP	C	C	G	rs371105102	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2577C>G	p.%3D	p.L859L	ENST00000421745	10/74	28	24	4	45	45	0	BIRC6,synonymous_variant,p.%3D,ENST00000421745,;	G	ENSG00000115760	ENST00000421745	Transcript	synonymous_variant	2711	2577	859	L	ctC/ctG	rs371105102,COSM1306732,COSM1306731	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	.	10/74	.	Gene3D:2.130.10.10,hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGCTCATTTT	byCluster|by1000G	4	BLCA
LRPPRC	0	.	GRCh37	2	44162006	44162006	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2516C>T	p.Ser839Phe	p.S839F	ENST00000260665	24/38	53	29	24	49	49	0	LRPPRC,missense_variant,p.Ser839Phe,ENST00000260665,;	A	ENSG00000138095	ENST00000260665	Transcript	missense_variant	2574	2516	839	S/F	tCt/tTt	.	.	.	-1	LRPPRC	HGNC	15714	protein_coding	YES	CCDS33189.1	ENSP00000260665	LPPRC_HUMAN	E5KNY5_HUMAN	UPI000019B4D2	.	deleterious(0.01)	benign(0.137)	24/38	.	hmmpanther:PTHR24015:SF0,hmmpanther:PTHR24015	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTAGATAGG	.	5	BLCA
VRK2	0	.	GRCh37	2	58311247	58311247	+	Nonsense_Mutation	SNP	A	A	T	rs371516428	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.160A>T	p.Lys54Ter	p.K54*	ENST00000435505	6/16	72	65	6	60	60	0	VRK2,stop_gained,p.Lys59Ter,ENST00000428021,;VRK2,stop_gained,p.Lys54Ter,ENST00000340157,;VRK2,stop_gained,p.Lys31Ter,ENST00000440705,;VRK2,stop_gained,p.Lys54Ter,ENST00000417641,;VRK2,stop_gained,p.Lys54Ter,ENST00000412104,;VRK2,stop_gained,p.Lys54Ter,ENST00000435505,;VRK2,3_prime_UTR_variant,,ENST00000432057,;	T	ENSG00000028116	ENST00000435505	Transcript	stop_gained	905	160	54	K/*	Aaa/Taa	rs371516428	.	.	1	VRK2	HGNC	12719	protein_coding	YES	CCDS1859.1	ENSP00000408002	VRK2_HUMAN	.	UPI000013D498	.	.	.	6/16	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11909,hmmpanther:PTHR11909:SF100,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGAGAAAGAT	.	3	BLCA
BCL11A	0	.	GRCh37	2	60688281	60688281	+	Missense_Mutation	SNP	G	G	A	rs139460584	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1766C>T	p.Ser589Leu	p.S589L	ENST00000335712	4/4	33	20	13	31	31	0	BCL11A,missense_variant,p.Ser555Leu,ENST00000538214,;BCL11A,missense_variant,p.Ser555Leu,ENST00000358510,;BCL11A,missense_variant,p.Ser589Leu,ENST00000356842,;BCL11A,missense_variant,p.Ser258Leu,ENST00000537768,;BCL11A,missense_variant,p.Ser589Leu,ENST00000335712,;BCL11A,intron_variant,,ENST00000359629,;BCL11A,non_coding_transcript_exon_variant,,ENST00000477659,;BCL11A,intron_variant,,ENST00000489516,;BCL11A,intron_variant,,ENST00000492272,;BCL11A,upstream_gene_variant,,ENST00000479026,;	A	ENSG00000119866	ENST00000335712	Transcript	missense_variant	1994	1766	589	S/L	tCg/tTg	rs139460584	.	.	-1	BCL11A	HGNC	13221	protein_coding	YES	CCDS1862.1	ENSP00000338774	BC11A_HUMAN	D6W5D9_HUMAN,Q53TS1_HUMAN,Q53TE8_HUMAN	UPI000013DC00	.	tolerated(0.07)	benign(0.177)	4/4	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF43	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E587K|c.1759G>A|3,BUFFER|p.E587K|c.1759G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACCGAGTCT	byCluster	5	BLCA
B3GNT2	0	.	GRCh37	2	62450252	62450252	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.897C>G	p.%3D	p.L299L	ENST00000301998	2/2	82	76	6	96	96	0	B3GNT2,synonymous_variant,p.%3D,ENST00000405767,;B3GNT2,synonymous_variant,p.%3D,ENST00000301998,;	G	ENSG00000170340	ENST00000301998	Transcript	synonymous_variant	1149	897	299	L	ctC/ctG	.	.	.	1	B3GNT2	HGNC	15629	protein_coding	YES	CCDS1870.1	ENSP00000305595	B3GN2_HUMAN	.	UPI00000009FB	.	.	.	2/2	.	Pfam_domain:PF01762,hmmpanther:PTHR11214,hmmpanther:PTHR11214:SF25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCTCTACCC	.	2	BLCA
TMEM17	0	.	GRCh37	2	62733174	62733174	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.91G>A	p.Glu31Lys	p.E31K	ENST00000335390	1/4	14	11	3	23	23	0	TMEM17,missense_variant,p.Glu31Lys,ENST00000335390,;TMEM17,non_coding_transcript_exon_variant,,ENST00000494919,;TMEM17,intron_variant,,ENST00000479763,;AC107083.1,downstream_gene_variant,,ENST00000439643,;	T	ENSG00000186889	ENST00000335390	Transcript	missense_variant	303	91	31	E/K	Gag/Aag	.	.	.	-1	TMEM17	HGNC	26623	protein_coding	YES	CCDS1871.1	ENSP00000335094	TMM17_HUMAN	.	UPI00001602DD	.	tolerated(0.62)	benign(0.008)	1/4	.	hmmpanther:PTHR13531:SF3,hmmpanther:PTHR13531	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCCTCATTGG	.	2	BLCA
MRPL35	0	.	GRCh37	2	86437695	86437695	+	Silent	SNP	C	C	T	rs542358985	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.471C>T	p.%3D	p.L157L	ENST00000337109	4/4	45	35	10	54	54	0	MRPL35,synonymous_variant,p.%3D,ENST00000337109,;MRPL35,synonymous_variant,p.%3D,ENST00000409180,;MRPL35,synonymous_variant,p.%3D,ENST00000254644,;MRPL35,3_prime_UTR_variant,,ENST00000605125,;REEP1,downstream_gene_variant,,ENST00000538924,;REEP1,downstream_gene_variant,,ENST00000541910,;REEP1,downstream_gene_variant,,ENST00000535845,;REEP1,downstream_gene_variant,,ENST00000165698,;	T	ENSG00000132313	ENST00000337109	Transcript	synonymous_variant	505	471	157	L	ctC/ctT	rs542358985,COSM419077	.	.	1	MRPL35	HGNC	14489	protein_coding	YES	CCDS1988.1	ENSP00000338389	RM35_HUMAN	.	UPI000004A028	.	.	.	4/4	.	Superfamily_domains:SSF143034,Pfam_domain:PF01632,hmmpanther:PTHR15909:SF0,hmmpanther:PTHR15909	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCTTAGA	.	5	BLCA
KDM3A	0	.	GRCh37	2	86693911	86693911	+	Missense_Mutation	SNP	C	C	T	rs201713531	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1424C>T	p.Ser475Leu	p.S475L	ENST00000409556	11/27	65	52	12	67	67	0	KDM3A,missense_variant,p.Ser423Leu,ENST00000542128,;KDM3A,missense_variant,p.Ser475Leu,ENST00000409064,;KDM3A,missense_variant,p.Ser475Leu,ENST00000409556,;KDM3A,missense_variant,p.Ser475Leu,ENST00000312912,;KDM3A,intron_variant,,ENST00000485171,;KDM3A,missense_variant,p.Ser475Leu,ENST00000441719,;KDM3A,non_coding_transcript_exon_variant,,ENST00000488971,;	T	ENSG00000115548	ENST00000409556	Transcript	missense_variant	1789	1424	475	S/L	tCa/tTa	rs201713531	.	.	1	KDM3A	HGNC	20815	protein_coding	YES	CCDS1990.1	ENSP00000386660	KDM3A_HUMAN	C9JC73_HUMAN,C9J7Q7_HUMAN	UPI0000161FAE	.	tolerated(0.1)	benign(0.002)	11/27	.	hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF7	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCTTCAGCTT	byCluster|by1000G	5	BLCA
CNNM4	0	.	GRCh37	2	97427280	97427280	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.544C>T	p.Leu182Phe	p.L182F	ENST00000377075	1/7	93	80	13	174	173	1	CNNM4,missense_variant,p.Leu182Phe,ENST00000377075,;	T	ENSG00000158158	ENST00000377075	Transcript	missense_variant	642	544	182	L/F	Ctc/Ttc	COSM3584147,COSM32487	.	.	1	CNNM4	HGNC	105	protein_coding	YES	CCDS2024.2	ENSP00000366275	CNNM4_HUMAN	.	UPI0000207C95	.	tolerated(0.33)	benign(0.033)	1/7	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR12064:SF26,hmmpanther:PTHR12064	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTCTCTGG	.	4	BLCA
ANKRD23	0	.	GRCh37	2	97506645	97506645	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.305A>G	p.Gln102Arg	p.Q102R	ENST00000318357	4/9	29	25	4	55	55	0	ANKRD23,missense_variant,p.Gln102Arg,ENST00000318357,;ANKRD23,missense_variant,p.Gln102Arg,ENST00000418232,;ANKRD23,intron_variant,,ENST00000331001,;ANKRD23,non_coding_transcript_exon_variant,,ENST00000462692,;ANKRD23,non_coding_transcript_exon_variant,,ENST00000476975,;ANKRD39,3_prime_UTR_variant,,ENST00000443120,;ANKRD23,non_coding_transcript_exon_variant,,ENST00000482175,;	C	ENSG00000163126	ENST00000318357	Transcript	missense_variant	347	305	102	Q/R	cAg/cGg	.	.	.	-1	ANKRD23	HGNC	24470	protein_coding	YES	CCDS2027.1	ENSP00000321679	ANR23_HUMAN	.	UPI000000D7C6	.	tolerated(0.07)	benign(0.065)	4/9	.	hmmpanther:PTHR24154	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	GGGACTGCGGC	.	2	BLCA
INPP4A	0	.	GRCh37	2	99182131	99182131	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2196G>A	p.Met732Ile	p.M732I	ENST00000074304	21/26	40	37	3	61	61	0	INPP4A,missense_variant,p.Met732Ile,ENST00000074304,;INPP4A,missense_variant,p.Met693Ile,ENST00000409016,;INPP4A,missense_variant,p.Met693Ile,ENST00000409540,;INPP4A,missense_variant,p.Met732Ile,ENST00000523221,;INPP4A,missense_variant,p.Met693Ile,ENST00000545415,;INPP4A,missense_variant,p.Met727Ile,ENST00000409851,;INPP4A,intron_variant,,ENST00000409463,;INPP4A,upstream_gene_variant,,ENST00000467042,;	A	ENSG00000040933	ENST00000074304	Transcript	missense_variant	2589	2196	732	M/I	atG/atA	.	.	.	1	INPP4A	HGNC	6074	protein_coding	YES	CCDS46369.1	ENSP00000074304	INP4A_HUMAN	.	UPI000006CD60	.	deleterious(0)	probably_damaging(0.98)	21/26	.	hmmpanther:PTHR12187:SF4,hmmpanther:PTHR12187	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACATGAGCCT	.	2	BLCA
NFKBIZ	0	.	GRCh37	3	101573905	101573905	+	Splice_Site	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1444-1G>A	.	p.X482_splice	ENST00000326172	.	30	21	9	47	47	0	NFKBIZ,splice_acceptor_variant,,ENST00000326151,;NFKBIZ,splice_acceptor_variant,,ENST00000394054,;NFKBIZ,splice_acceptor_variant,,ENST00000326172,;NFKBIZ,splice_acceptor_variant,,ENST00000483180,;NFKBIZ,downstream_gene_variant,,ENST00000491281,;NFKBIZ,upstream_gene_variant,,ENST00000477601,;NFKBIZ,downstream_gene_variant,,ENST00000461724,;NFKBIZ,splice_acceptor_variant,,ENST00000465476,;NFKBIZ,upstream_gene_variant,,ENST00000495719,;NFKBIZ,downstream_gene_variant,,ENST00000486444,;NFKBIZ,upstream_gene_variant,,ENST00000495089,;	A	ENSG00000144802	ENST00000326172	Transcript	splice_acceptor_variant	.	.	.	.	.	COSM313215	.	.	1	NFKBIZ	HGNC	29805	protein_coding	YES	CCDS2946.1	ENSP00000325663	IKBZ_HUMAN	C9JZ23_HUMAN,C9J5I7_HUMAN,C9J5G8_HUMAN	UPI000006FBB1	.	.	.	.	6/11	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACAGAGTGC	.	5	BLCA
MYH15	0	.	GRCh37	3	108156459	108156459	+	Missense_Mutation	SNP	G	G	A	rs201356810	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3223C>T	p.Arg1075Trp	p.R1075W	ENST00000273353	26/42	139	124	15	164	164	0	MYH15,missense_variant,p.Arg1075Trp,ENST00000273353,;MYH15,non_coding_transcript_exon_variant,,ENST00000478998,;	A	ENSG00000144821	ENST00000273353	Transcript	missense_variant	3280	3223	1075	R/W	Cgg/Tgg	rs201356810	.	.	-1	MYH15	HGNC	31073	protein_coding	YES	CCDS43127.1	ENSP00000273353	MYH15_HUMAN	H9XFA0_HUMAN	UPI0000253B6F	.	deleterious(0)	possibly_damaging(0.487)	26/42	.	Superfamily_domains:SSF90257,hmmpanther:PTHR13140:SF263,hmmpanther:PTHR13140,Coiled-coils_(Ncoils):Coil	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCCGATTCA	byCluster|by1000G	4	BLCA
PVRL3	0	.	GRCh37	3	110852616	110852616	+	Missense_Mutation	SNP	A	A	G	rs373638334	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1204A>G	p.Ile402Val	p.I402V	ENST00000485303	6/6	105	87	17	93	93	0	PVRL3,missense_variant,p.Ile402Val,ENST00000485303,;PVRL3,3_prime_UTR_variant,,ENST00000319792,;PVRL3,intron_variant,,ENST00000493615,;	G	ENSG00000177707	ENST00000485303	Transcript	missense_variant	1479	1204	402	I/V	Att/Gtt	rs373638334	.	.	1	PVRL3	HGNC	17664	protein_coding	YES	CCDS2957.1	ENSP00000418070	PVRL3_HUMAN	.	UPI000004A2B6	.	tolerated(0.34)	benign(0.007)	6/6	.	Gene3D:1.20.5.100,hmmpanther:PTHR23277,hmmpanther:PTHR23277:SF10,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACAATTGCC	.	5	BLCA
RASA2	0	.	GRCh37	3	141272768	141272768	+	Silent	SNP	A	A	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597A>C	p.%3D	p.L199L	ENST00000286364	6/24	117	109	8	115	115	0	RASA2,synonymous_variant,p.%3D,ENST00000286364,;RASA2,synonymous_variant,p.%3D,ENST00000452898,;	C	ENSG00000155903	ENST00000286364	Transcript	synonymous_variant	632	597	199	L	ctA/ctC	.	.	.	1	RASA2	HGNC	9872	protein_coding	YES	CCDS3117.1	ENSP00000286364	RASA2_HUMAN	.	UPI00001351F5	.	.	.	6/24	.	PROSITE_profiles:PS50004,hmmpanther:PTHR10194,hmmpanther:PTHR10194:SF21,Pfam_domain:PF00168,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTCTAGTGGG	.	2	BLCA
DHX36	0	.	GRCh37	3	154042035	154042035	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.171G>A	p.%3D	p.L57L	ENST00000496811	1/25	107	91	15	128	128	0	DHX36,synonymous_variant,p.%3D,ENST00000496811,;DHX36,synonymous_variant,p.%3D,ENST00000544526,;DHX36,synonymous_variant,p.%3D,ENST00000308361,;DHX36,synonymous_variant,p.%3D,ENST00000329463,;DHX36,upstream_gene_variant,,ENST00000481941,;DHX36,non_coding_transcript_exon_variant,,ENST00000491011,;	T	ENSG00000174953	ENST00000496811	Transcript	synonymous_variant	252	171	57	L	ctG/ctA	.	.	.	-1	DHX36	HGNC	14410	protein_coding	YES	CCDS3171.1	ENSP00000417078	DHX36_HUMAN	E7EWK3_HUMAN	UPI000013ED25	.	.	.	1/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF100	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTCAGGTG	.	4	BLCA
DHX36	0	.	GRCh37	3	154042138	154042138	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.68G>C	p.Gly23Ala	p.G23A	ENST00000496811	1/25	17	14	3	43	43	0	DHX36,missense_variant,p.Gly23Ala,ENST00000496811,;DHX36,missense_variant,p.Gly23Ala,ENST00000544526,;DHX36,missense_variant,p.Gly23Ala,ENST00000308361,;DHX36,missense_variant,p.Gly23Ala,ENST00000329463,;DHX36,upstream_gene_variant,,ENST00000491011,;	G	ENSG00000174953	ENST00000496811	Transcript	missense_variant	149	68	23	G/A	gGa/gCa	.	.	.	-1	DHX36	HGNC	14410	protein_coding	YES	CCDS3171.1	ENSP00000417078	DHX36_HUMAN	E7EWK3_HUMAN	UPI000013ED25	.	tolerated_low_confidence(0.51)	possibly_damaging(0.794)	1/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR18934,hmmpanther:PTHR18934:SF100	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCCTCCATAG	.	2	BLCA
MECOM	0	.	GRCh37	3	168838887	168838887	+	Silent	SNP	G	G	A	rs748021716	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.720C>T	p.%3D	p.L240L	ENST00000264674	7/17	36	25	11	48	48	0	MECOM,synonymous_variant,p.%3D,ENST00000472280,;MECOM,synonymous_variant,p.%3D,ENST00000460814,;MECOM,synonymous_variant,p.%3D,ENST00000464456,;MECOM,synonymous_variant,p.%3D,ENST00000392736,;MECOM,synonymous_variant,p.%3D,ENST00000494292,;MECOM,synonymous_variant,p.%3D,ENST00000468789,;MECOM,synonymous_variant,p.%3D,ENST00000433243,;MECOM,synonymous_variant,p.%3D,ENST00000492586,;MECOM,synonymous_variant,p.%3D,ENST00000264674,;MECOM,downstream_gene_variant,,ENST00000460890,;MECOM,downstream_gene_variant,,ENST00000487503,;MECOM,downstream_gene_variant,,ENST00000484519,;MECOM,downstream_gene_variant,,ENST00000494597,;MECOM,non_coding_transcript_exon_variant,,ENST00000461430,;	A	ENSG00000085276	ENST00000264674	Transcript	synonymous_variant	859	720	240	L	ctC/ctT	rs748021716	.	.	-1	MECOM	HGNC	3498	protein_coding	YES	CCDS54670.1	ENSP00000264674	EVI1_HUMAN	Q9UBK3_HUMAN,Q8IU84_HUMAN,E9PGE9_HUMAN,E7EU48_HUMAN,E7ERX0_HUMAN,E7EPY2_HUMAN,D3DNP4_HUMAN	UPI00015D43FA	.	.	.	7/17	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24393,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.S172L|c.515C>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTTTGAGGCC	byFrequency	5	BLCA
TNIK	0	.	GRCh37	3	170786725	170786725	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3611G>A	p.Arg1204Lys	p.R1204K	ENST00000436636	30/33	70	59	11	67	67	0	TNIK,missense_variant,p.Arg1167Lys,ENST00000470834,;TNIK,missense_variant,p.Arg1120Lys,ENST00000341852,;TNIK,missense_variant,p.Arg1204Lys,ENST00000436636,;TNIK,missense_variant,p.Arg1112Lys,ENST00000475336,;TNIK,missense_variant,p.Arg1156Lys,ENST00000538048,;TNIK,missense_variant,p.Arg1149Lys,ENST00000488470,;TNIK,missense_variant,p.Arg1182Lys,ENST00000369326,;TNIK,missense_variant,p.Arg1196Lys,ENST00000284483,;TNIK,missense_variant,p.Arg1141Lys,ENST00000460047,;TNIK,missense_variant,p.Arg1175Lys,ENST00000357327,;TNIK,upstream_gene_variant,,ENST00000464785,;TNIK,non_coding_transcript_exon_variant,,ENST00000484051,;TNIK,non_coding_transcript_exon_variant,,ENST00000496492,;TNIK,non_coding_transcript_exon_variant,,ENST00000459881,;TNIK,non_coding_transcript_exon_variant,,ENST00000487846,;	T	ENSG00000154310	ENST00000436636	Transcript	missense_variant	3956	3611	1204	R/K	aGa/aAa	.	.	.	-1	TNIK	HGNC	30765	protein_coding	YES	CCDS46956.1	ENSP00000399511	TNIK_HUMAN	.	UPI000003ABDF	.	deleterious(0)	probably_damaging(0.987)	30/33	.	PROSITE_profiles:PS50219,hmmpanther:PTHR24361:SF196,hmmpanther:PTHR24361,Pfam_domain:PF00780,SMART_domains:SM00036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAATCTTTGA	.	2	BLCA
PIK3CA	0	.	GRCh37	3	178928079	178928079	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1357G>A	p.Glu453Lys	p.E453K	ENST00000263967	8/21	132	106	26	113	113	0	PIK3CA,missense_variant,p.Glu453Lys,ENST00000263967,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1514	1357	453	E/K	Gaa/Aaa	COSM758,COSM12584,COSM446007,COSM1041484	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	tolerated(0.06)	possibly_damaging(0.801)	8/21	.	PROSITE_profiles:PS51547,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00792,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E453K|c.1357G>A|20,SITE|p.E453K|c.1357G>A|14,BUFFER|p.E453Q|c.1357G>C|4,BUFFER|p.E453Q|c.1357G>C|5,BUFFER|p.E453E|c.1359A>G|3,BUFFER|p.E453E|c.1359A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTAGAAGAT	.	5	BLCA
PIK3CA	0	.	GRCh37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1633G>A	p.Glu545Lys	p.E545K	ENST00000263967	10/21	59	52	6	45	45	0	PIK3CA,missense_variant,p.Glu545Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1790	1633	545	E/K	Gag/Aag	rs104886003,COSM763,COSM27133,COSM125370,COSM295672	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.02)	probably_damaging(0.959)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	0,1,1,1,1	21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E545K|c.1633G>A|227,SITE|p.E545K|c.1633G>A|1153,CODON|p.T544N|c.1631C>A|3,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542K|c.1624G>A|115,BUFFER|p.E542K|c.1624G>A|758,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4,BUFFER|p.Q546K|c.1636C>A|119,BUFFER|p.Q546E|c.1636C>G|15,BUFFER|p.Q546K|c.1636C>A|18,BUFFER|p.Q546R|c.1637A>G|20,BUFFER|p.Q546P|c.1637A>C|22,BUFFER|p.Q546P|c.1637A>C|7,BUFFER|p.Q546L|c.1637A>T|8,BUFFER|p.Q546R|c.1637A>G|41,BUFFER|p.Q546H|c.1638G>T|7,BUFFER|p.E547K|c.1639G>A|11,BUFFER|p.E547G|c.1640A>G|5,BUFFER|p.E547G|c.1640A>G|5	RADIA|MUTECT|VARSCANS	TCACTGAGCAG	byCluster	3	BLCA
ABCC5	0	.	GRCh37	3	183643492	183643492	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4063G>A	p.Glu1355Lys	p.E1355K	ENST00000334444	29/30	60	47	13	73	73	0	ABCC5,missense_variant,p.Glu1312Lys,ENST00000265586,;ABCC5,missense_variant,p.Glu1355Lys,ENST00000334444,;ABCC5,3_prime_UTR_variant,,ENST00000443497,;ABCC5,3_prime_UTR_variant,,ENST00000437205,;	T	ENSG00000114770	ENST00000334444	Transcript	missense_variant	4304	4063	1355	E/K	Gaa/Aaa	.	.	.	-1	ABCC5	HGNC	56	protein_coding	YES	CCDS43176.1	ENSP00000333926	MRP5_HUMAN	C9JZL5_HUMAN	UPI000004A33C	.	deleterious(0)	probably_damaging(0.999)	29/30	.	PROSITE_profiles:PS50893,hmmpanther:PTHR24223:SF196,hmmpanther:PTHR24223,Pfam_domain:PF00005,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTTCATCTA	.	5	BLCA
ABCC5	0	.	GRCh37	3	183732067	183732067	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.114C>T	p.%3D	p.F38F	ENST00000334444	2/30	58	45	13	60	60	0	ABCC5,synonymous_variant,p.%3D,ENST00000427120,;ABCC5,synonymous_variant,p.%3D,ENST00000334444,;ABCC5,synonymous_variant,p.%3D,ENST00000446941,;ABCC5,synonymous_variant,p.%3D,ENST00000437341,;ABCC5,synonymous_variant,p.%3D,ENST00000382494,;ABCC5,synonymous_variant,p.%3D,ENST00000265586,;ABCC5,synonymous_variant,p.%3D,ENST00000392579,;ABCC5-AS1,downstream_gene_variant,,ENST00000422946,;ABCC5,synonymous_variant,p.%3D,ENST00000437205,;ABCC5,synonymous_variant,p.%3D,ENST00000438979,;ABCC5,synonymous_variant,p.%3D,ENST00000443376,;	A	ENSG00000114770	ENST00000334444	Transcript	synonymous_variant	355	114	38	F	ttC/ttT	.	.	.	-1	ABCC5	HGNC	56	protein_coding	YES	CCDS43176.1	ENSP00000333926	MRP5_HUMAN	C9JZL5_HUMAN	UPI000004A33C	.	.	.	2/30	.	hmmpanther:PTHR24223:SF196,hmmpanther:PTHR24223	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTGAACTT	.	5	BLCA
TMEM41A	0	.	GRCh37	3	185209349	185209349	+	Silent	SNP	A	A	G	rs748851535	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.771T>C	p.%3D	p.H257H	ENST00000421852	5/5	53	46	6	50	50	0	TMEM41A,synonymous_variant,p.%3D,ENST00000421852,;TMEM41A,3_prime_UTR_variant,,ENST00000296254,;MAP3K13,downstream_gene_variant,,ENST00000265026,;TMEM41A,intron_variant,,ENST00000475480,;TMEM41A,upstream_gene_variant,,ENST00000484062,;TMEM41A,downstream_gene_variant,,ENST00000467520,;TMEM41A,intron_variant,,ENST00000382227,;TMEM41A,downstream_gene_variant,,ENST00000467061,;	G	ENSG00000163900	ENST00000421852	Transcript	synonymous_variant	867	771	257	H	caT/caC	rs748851535	.	.	-1	TMEM41A	HGNC	30544	protein_coding	YES	CCDS3271.1	ENSP00000406885	TM41A_HUMAN	.	UPI0000048EAE	.	.	.	5/5	.	hmmpanther:PTHR12677,hmmpanther:PTHR12677:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTATATGATT	.	4	BLCA
MB21D2	0	.	GRCh37	3	192516176	192516176	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1475G>A	p.%3D	p.%3D	ENST00000392452	2/2	77	62	15	83	83	0	MB21D2,stop_retained_variant,p.%3D,ENST00000392452,;	T	ENSG00000180611	ENST00000392452	Transcript	stop_retained_variant	1796	1475	492	*	tGa/tAa	.	.	.	-1	MB21D2	HGNC	30438	protein_coding	YES	CCDS3302.2	ENSP00000376246	M21D2_HUMAN	A8K332_HUMAN	UPI000013FAFE	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCAGAAA	.	5	BLCA
ATP13A5	0	.	GRCh37	3	192994603	192994603	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3332C>T	p.Thr1111Ile	p.T1111I	ENST00000342358	29/30	52	41	10	41	41	0	ATP13A5,missense_variant,p.Thr1111Ile,ENST00000342358,;ATP13A5,non_coding_transcript_exon_variant,,ENST00000495496,;HRASLS,intron_variant,,ENST00000416012,;	A	ENSG00000187527	ENST00000342358	Transcript	missense_variant	3450	3332	1111	T/I	aCa/aTa	.	.	.	-1	ATP13A5	HGNC	31789	protein_coding	YES	CCDS33914.1	ENSP00000341942	AT135_HUMAN	.	UPI000050EC1D	.	tolerated(0.38)	benign(0.011)	29/30	.	Transmembrane_helices:TMhelix,Superfamily_domains:0049473,TIGRFAM_domain:TIGR01657,hmmpanther:PTHR24093:SF237,hmmpanther:PTHR24093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGATGTTATG	.	5	BLCA
ACAP2	0	.	GRCh37	3	195102686	195102686	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.177C>T	p.%3D	p.F59F	ENST00000326793	3/23	73	52	21	70	70	0	ACAP2,synonymous_variant,p.%3D,ENST00000439666,;ACAP2,synonymous_variant,p.%3D,ENST00000326793,;ACAP2,non_coding_transcript_exon_variant,,ENST00000481463,;ACAP2,3_prime_UTR_variant,,ENST00000447662,;ACAP2,non_coding_transcript_exon_variant,,ENST00000480906,;	A	ENSG00000114331	ENST00000326793	Transcript	synonymous_variant	408	177	59	F	ttC/ttT	.	.	.	-1	ACAP2	HGNC	16469	protein_coding	YES	CCDS33924.1	ENSP00000324287	ACAP2_HUMAN	C9J8L1_HUMAN	UPI0000141A1A	.	.	.	3/23	.	hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF241,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATGAACTG	.	5	BLCA
RNF168	0	.	GRCh37	3	196198909	196198909	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1497C>T	p.%3D	p.F499F	ENST00000318037	6/6	286	215	71	280	280	0	RNF168,synonymous_variant,p.%3D,ENST00000318037,;CTD-2002J20.1,upstream_gene_variant,,ENST00000610042,;RNF168,3_prime_UTR_variant,,ENST00000437070,;	A	ENSG00000163961	ENST00000318037	Transcript	synonymous_variant	2092	1497	499	F	ttC/ttT	.	.	.	-1	RNF168	HGNC	26661	protein_coding	YES	CCDS3317.1	ENSP00000320898	RN168_HUMAN	.	UPI00000741D1	.	.	.	6/6	.	hmmpanther:PTHR23328:SF1,hmmpanther:PTHR23328	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTTGAAGTT	.	5	BLCA
KAT2B	0	.	GRCh37	3	20193903	20193903	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2385C>T	p.%3D	p.V795V	ENST00000263754	18/18	63	45	17	85	85	0	KAT2B,synonymous_variant,p.%3D,ENST00000263754,;KAT2B,downstream_gene_variant,,ENST00000468400,;	T	ENSG00000114166	ENST00000263754	Transcript	synonymous_variant	2840	2385	795	V	gtC/gtT	.	.	.	1	KAT2B	HGNC	8638	protein_coding	YES	CCDS2634.1	ENSP00000263754	KAT2B_HUMAN	.	UPI00002132DE	.	.	.	18/18	.	PROSITE_profiles:PS50014,hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF116,PROSITE_patterns:PS00633,Pfam_domain:PF00439,Gene3D:1.20.920.10,PIRSF_domain:PIRSF003048,SMART_domains:SM00297,Superfamily_domains:SSF47370,Prints_domain:PR00503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGAGTCTTTAC	.	5	BLCA
NAT6	0	.	GRCh37	3	50336717	50336717	+	5'UTR	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-72G>T	.	.	ENST00000354862	1/2	11	8	3	17	17	0	NAT6,5_prime_UTR_variant,,ENST00000443842,;HYAL3,5_prime_UTR_variant,,ENST00000336307,;NAT6,5_prime_UTR_variant,,ENST00000443094,;NAT6,5_prime_UTR_variant,,ENST00000354862,;HYAL3,5_prime_UTR_variant,,ENST00000415204,;NAT6,upstream_gene_variant,,ENST00000417393,;HYAL3,upstream_gene_variant,,ENST00000450982,;HYAL1,downstream_gene_variant,,ENST00000452672,;HYAL1,downstream_gene_variant,,ENST00000418723,;HYAL3,upstream_gene_variant,,ENST00000435141,;HYAL1,downstream_gene_variant,,ENST00000395143,;HYAL1,downstream_gene_variant,,ENST00000447605,;NAT6,upstream_gene_variant,,ENST00000442620,;HYAL3,upstream_gene_variant,,ENST00000359051,;HYAL1,downstream_gene_variant,,ENST00000457214,;HYAL1,downstream_gene_variant,,ENST00000266031,;HYAL1,downstream_gene_variant,,ENST00000320295,;NAT6,upstream_gene_variant,,ENST00000450489,;HYAL1,downstream_gene_variant,,ENST00000395144,;HYAL3,upstream_gene_variant,,ENST00000513170,;NAT6,upstream_gene_variant,,ENST00000452674,;	A	ENSG00000243477	ENST00000354862	Transcript	5_prime_UTR_variant	131	.	.	.	.	.	.	.	-1	NAT6	HGNC	30252	protein_coding	YES	CCDS43095.1	ENSP00000346927	NAT6_HUMAN	Q6IAP1_HUMAN,C9JL88_HUMAN,C9J451_HUMAN	UPI00001BD92D	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTCGGACT	.	2	BLCA
RAD54L2	0	.	GRCh37	3	51661656	51661656	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227C>T	p.Ser76Leu	p.S76L	ENST00000409535	3/22	8	5	3	13	13	0	RAD54L2,missense_variant,p.Ser76Leu,ENST00000409535,;RAD54L2,upstream_gene_variant,,ENST00000296477,;RAD54L2,upstream_gene_variant,,ENST00000432863,;RAD54L2,non_coding_transcript_exon_variant,,ENST00000487093,;RAD54L2,upstream_gene_variant,,ENST00000462377,;RAD54L2,upstream_gene_variant,,ENST00000461680,;	T	ENSG00000164080	ENST00000409535	Transcript	missense_variant	352	227	76	S/L	tCa/tTa	.	.	.	1	RAD54L2	HGNC	29123	protein_coding	YES	CCDS33765.2	ENSP00000386520	ARIP4_HUMAN	E7EU19_HUMAN	UPI000022C0AA	.	deleterious_low_confidence(0.03)	probably_damaging(0.977)	3/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10799:SF51,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCTCATCTC	.	2	BLCA
PDZRN3	0	.	GRCh37	3	73432631	73432631	+	Missense_Mutation	SNP	C	C	T	rs780710627	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3086G>A	p.Arg1029Lys	p.R1029K	ENST00000263666	10/10	146	113	33	200	200	0	PDZRN3,missense_variant,p.Arg686Lys,ENST00000466780,;PDZRN3,missense_variant,p.Arg1029Lys,ENST00000263666,;PDZRN3,missense_variant,p.Arg345Lys,ENST00000494559,;PDZRN3,missense_variant,p.Arg686Lys,ENST00000462146,;PDZRN3,missense_variant,p.Arg746Lys,ENST00000479530,;PDZRN3,missense_variant,p.Arg751Lys,ENST00000535920,;PDZRN3,downstream_gene_variant,,ENST00000492909,;PDZRN3,downstream_gene_variant,,ENST00000466348,;PDZRN3,downstream_gene_variant,,ENST00000484487,;PDZRN3,downstream_gene_variant,,ENST00000478209,;	T	ENSG00000121440	ENST00000263666	Transcript	missense_variant	3201	3086	1029	R/K	aGg/aAg	rs780710627	.	.	-1	PDZRN3	HGNC	17704	protein_coding	YES	CCDS33789.1	ENSP00000263666	PZRN3_HUMAN	E7ENB6_HUMAN	UPI00001C1DE6	.	tolerated(0.06)	probably_damaging(0.997)	10/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15545:SF5,hmmpanther:PTHR15545	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTCCTCTTC	.	5	BLCA
CADM2	0	.	GRCh37	3	86115927	86115927	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1308C>T	p.%3D	p.F436F	ENST00000405615	10/10	63	50	12	73	73	0	CADM2,synonymous_variant,p.%3D,ENST00000407528,;CADM2,synonymous_variant,p.%3D,ENST00000383699,;CADM2,synonymous_variant,p.%3D,ENST00000405615,;	T	ENSG00000175161	ENST00000405615	Transcript	synonymous_variant	1308	1308	436	F	ttC/ttT	.	.	.	1	CADM2	HGNC	29849	protein_coding	YES	CCDS33792.1	ENSP00000384193	CADM2_HUMAN	G3XHN8_HUMAN	UPI000013F077	.	.	.	10/10	.	hmmpanther:PTHR23277,hmmpanther:PTHR23277:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCATTTA	.	5	BLCA
VGLL3	0	.	GRCh37	3	87017893	87017893	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.784C>A	p.Leu262Met	p.L262M	ENST00000398399	3/4	27	21	6	48	48	0	VGLL3,missense_variant,p.Leu196Met,ENST00000494229,;VGLL3,missense_variant,p.Leu262Met,ENST00000398399,;VGLL3,missense_variant,p.Leu262Met,ENST00000383698,;	T	ENSG00000206538	ENST00000398399	Transcript	missense_variant	1148	784	262	L/M	Ctg/Atg	.	.	.	-1	VGLL3	HGNC	24327	protein_coding	YES	CCDS43110.1	ENSP00000381436	VGLL3_HUMAN	.	UPI0000197E88	.	deleterious(0)	probably_damaging(0.999)	3/4	.	hmmpanther:PTHR15950:SF16,hmmpanther:PTHR15950	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGCAGAGGCC	.	5	BLCA
BANK1	0	.	GRCh37	4	102816510	102816510	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.952G>A	p.Glu318Lys	p.E318K	ENST00000322953	6/17	69	64	4	94	94	0	BANK1,missense_variant,p.Glu185Lys,ENST00000508653,;BANK1,missense_variant,p.Glu185Lys,ENST00000428908,;BANK1,missense_variant,p.Glu303Lys,ENST00000504592,;BANK1,missense_variant,p.Glu288Lys,ENST00000444316,;BANK1,missense_variant,p.Glu318Lys,ENST00000322953,;	A	ENSG00000153064	ENST00000322953	Transcript	missense_variant	1226	952	318	E/K	Gag/Aag	.	.	.	1	BANK1	HGNC	18233	protein_coding	YES	CCDS34038.1	ENSP00000320509	BANK1_HUMAN	.	UPI0000D6159D	.	tolerated(0.62)	possibly_damaging(0.737)	6/17	.	Pfam_domain:PF14545,hmmpanther:PTHR16267,hmmpanther:PTHR16267:SF10,PROSITE_profiles:PS51376	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	AACATGAGATA	.	2	BLCA
FAT4	0	.	GRCh37	4	126371709	126371709	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9538G>T	p.Val3180Leu	p.V3180L	ENST00000394329	9/17	67	61	6	82	82	0	FAT4,missense_variant,p.Val3180Leu,ENST00000394329,;FAT4,missense_variant,p.Val1478Leu,ENST00000335110,;FAT4,downstream_gene_variant,,ENST00000509444,;	T	ENSG00000196159	ENST00000394329	Transcript	missense_variant	9551	9538	3180	V/L	Gtg/Ttg	.	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	benign(0.012)	9/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUSE|VARSCANS	GCAGTGTGACC	.	2	BLCA
LARP1B	0	.	GRCh37	4	129043145	129043145	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1326C>T	p.%3D	p.D442D	ENST00000326639	11/20	57	49	8	69	69	0	LARP1B,synonymous_variant,p.%3D,ENST00000441387,;LARP1B,synonymous_variant,p.%3D,ENST00000512292,;LARP1B,synonymous_variant,p.%3D,ENST00000427266,;LARP1B,synonymous_variant,p.%3D,ENST00000264584,;LARP1B,synonymous_variant,p.%3D,ENST00000326639,;LARP1B,synonymous_variant,p.%3D,ENST00000508819,;LARP1B,synonymous_variant,p.%3D,ENST00000507377,;LARP1B,5_prime_UTR_variant,,ENST00000354456,;LARP1B,upstream_gene_variant,,ENST00000507259,;	T	ENSG00000138709	ENST00000326639	Transcript	synonymous_variant	1537	1326	442	D	gaC/gaT	.	.	.	1	LARP1B	HGNC	24704	protein_coding	YES	CCDS3738.1	ENSP00000321997	LAR1B_HUMAN	.	UPI0000190831	.	.	.	11/20	.	hmmpanther:PTHR22792,hmmpanther:PTHR22792:SF50	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGACCAAGA	.	4	BLCA
ZNF718	0	.	GRCh37	4	155048	155048	+	RNA	SNP	A	A	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.483A>T	.	.	ENST00000510175	2/2	39	35	4	41	41	0	ZNF718,non_coding_transcript_exon_variant,,ENST00000510175,;ZNF718,non_coding_transcript_exon_variant,,ENST00000502662,;ZNF718,non_coding_transcript_exon_variant,,ENST00000511079,;ZNF718,non_coding_transcript_exon_variant,,ENST00000400172,;	T	ENSG00000250312	ENST00000510175	Transcript	non_coding_transcript_exon_variant	483	.	.	.	.	.	.	.	1	ZNF718	HGNC	26889	lincRNA	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAAGAATTCA	.	2	BLCA
FGFR3	0	.	GRCh37	4	1807889	1807889	+	Missense_Mutation	SNP	A	A	G	rs78311289	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1954A>G	p.Lys652Glu	p.K652E	ENST00000340107	14/18	12	6	6	28	28	0	FGFR3,missense_variant,p.Lys538Glu,ENST00000352904,;FGFR3,missense_variant,p.Lys538Glu,ENST00000412135,;FGFR3,missense_variant,p.Lys650Glu,ENST00000440486,;FGFR3,missense_variant,p.Lys651Glu,ENST00000481110,;FGFR3,missense_variant,p.Lys650Glu,ENST00000260795,;FGFR3,missense_variant,p.Lys652Glu,ENST00000340107,;FGFR3,downstream_gene_variant,,ENST00000507588,;FGFR3,downstream_gene_variant,,ENST00000474521,;FGFR3,downstream_gene_variant,,ENST00000469068,;	G	ENSG00000068078	ENST00000340107	Transcript	missense_variant	2210	1954	652	K/E	Aag/Gag	CM002967,CM950476,rs78311289,KinMutBase_FGFR3_DNA:g.13267A>C,KinMutBase_FGFR3_DNA:g.13267A>G,COSM719,COSM726,COSM1757111	.	.	1	FGFR3	HGNC	3690	protein_coding	YES	CCDS54706.1	ENSP00000339824	FGFR3_HUMAN	Q8NI16_HUMAN	UPI000002A9AC	.	deleterious(0)	probably_damaging(0.999)	14/18	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF128,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,SMART_domains:SM00219,PIRSF_domain:PIRSF000628,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	pathogenic	0,0,0,0,0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,0,0,1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.K652E|c.1954A>G|4,SITE|p.K650E|c.1948A>G|48,BUFFER|p.K650Q|c.1948A>C|5,BUFFER|p.K650T|c.1949A>C|4,BUFFER|p.K650M|c.1949A>T|36	RADIA|MUTECT|MUSE	ACAAGAAGACG	byCluster	3	BLCA
GPR125	0	.	GRCh37	4	22389227	22389227	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*101C>T	.	.	ENST00000334304	19/19	12	9	3	15	15	0	GPR125,3_prime_UTR_variant,,ENST00000334304,;GPR125,downstream_gene_variant,,ENST00000504617,;GPR125,downstream_gene_variant,,ENST00000282943,;GPR125,non_coding_transcript_exon_variant,,ENST00000499527,;GPR125,intron_variant,,ENST00000511051,;	A	ENSG00000152990	ENST00000334304	Transcript	3_prime_UTR_variant	4337	.	.	.	.	.	.	.	-1	GPR125	HGNC	13839	protein_coding	YES	CCDS33964.1	ENSP00000334952	GP125_HUMAN	Q6JN45_HUMAN,D6RER4_HUMAN,D6RDX4_HUMAN	UPI00001D7735	.	.	.	19/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTTGAATCC	.	2	BLCA
SEPSECS	0	.	GRCh37	4	25157673	25157673	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.533C>T	p.Ser178Phe	p.S178F	ENST00000382103	4/11	70	62	8	125	125	0	SEPSECS,missense_variant,p.Ser99Phe,ENST00000302922,;SEPSECS,missense_variant,p.Ser178Phe,ENST00000382103,;PI4K2B,upstream_gene_variant,,ENST00000512921,;SEPSECS,downstream_gene_variant,,ENST00000513285,;PI4K2B,upstream_gene_variant,,ENST00000507794,;PI4K2B,upstream_gene_variant,,ENST00000510415,;SEPSECS,missense_variant,p.Ser17Phe,ENST00000503150,;SEPSECS,3_prime_UTR_variant,,ENST00000358971,;SEPSECS,3_prime_UTR_variant,,ENST00000514585,;SEPSECS,upstream_gene_variant,,ENST00000505513,;	A	ENSG00000109618	ENST00000382103	Transcript	missense_variant	606	533	178	S/F	tCc/tTc	.	.	.	-1	SEPSECS	HGNC	30605	protein_coding	YES	CCDS3432.2	ENSP00000371535	SPCS_HUMAN	A1A4F3_HUMAN	UPI000020BDD0	.	deleterious(0)	probably_damaging(0.999)	4/11	.	Superfamily_domains:SSF53383,PIRSF_domain:PIRSF017689,TIGRFAM_domain:TIGR03531,Pfam_domain:PF05889,Gene3D:3.40.640.10,hmmpanther:PTHR12944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCATGGATTTA	.	4	BLCA
G3BP2	0	.	GRCh37	4	76582796	76582796	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.296C>A	p.Ser99Tyr	p.S99Y	ENST00000359707	4/12	89	83	6	107	107	0	G3BP2,missense_variant,p.Ser99Tyr,ENST00000511146,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000395719,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000509100,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000515457,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000359707,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000507252,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000357854,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000503660,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000507745,;G3BP2,missense_variant,p.Ser99Tyr,ENST00000511868,;G3BP2,downstream_gene_variant,,ENST00000508510,;G3BP2,downstream_gene_variant,,ENST00000509561,;G3BP2,downstream_gene_variant,,ENST00000499709,;Y_RNA,downstream_gene_variant,,ENST00000364774,;G3BP2,non_coding_transcript_exon_variant,,ENST00000513927,;G3BP2,non_coding_transcript_exon_variant,,ENST00000502654,;G3BP2,non_coding_transcript_exon_variant,,ENST00000507947,;G3BP2,intron_variant,,ENST00000510902,;G3BP2,downstream_gene_variant,,ENST00000507701,;	T	ENSG00000138757	ENST00000359707	Transcript	missense_variant	1082	296	99	S/Y	tCt/tAt	.	.	.	-1	G3BP2	HGNC	30291	protein_coding	YES	CCDS3571.1	ENSP00000352738	G3BP2_HUMAN	D6RGJ4_HUMAN,D6REX8_HUMAN,D6RE13_HUMAN,D6RBW8_HUMAN,D6RBR0_HUMAN,D6RBM9_HUMAN,D6RB17_HUMAN,D6RAC7_HUMAN,D6R9X5_HUMAN,D6R9A4_HUMAN	UPI000013D588	.	deleterious(0)	possibly_damaging(0.907)	4/12	.	PROSITE_profiles:PS50177,hmmpanther:PTHR10693,hmmpanther:PTHR10693:SF10,Gene3D:3.10.450.50,Pfam_domain:PF02136,Superfamily_domains:SSF54427	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTTAGACAGC	.	2	BLCA
SOWAHB	0	.	GRCh37	4	77818017	77818017	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.986C>T	p.Ser329Leu	p.S329L	ENST00000334306	1/1	26	23	3	35	35	0	SOWAHB,missense_variant,p.Ser329Leu,ENST00000334306,;	A	ENSG00000186212	ENST00000334306	Transcript	missense_variant	986	986	329	S/L	tCg/tTg	.	.	.	-1	SOWAHB	HGNC	32958	protein_coding	YES	CCDS34017.1	ENSP00000334879	SWAHB_HUMAN	.	UPI000019777A	.	deleterious(0.01)	benign(0.32)	1/1	.	hmmpanther:PTHR14491,hmmpanther:PTHR14491:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCACCGACCAG	.	2	BLCA
METAP1	0	.	GRCh37	4	99982489	99982489	+	3'UTR	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*21C>G	.	.	ENST00000296411	11/11	30	24	5	56	56	0	METAP1,3_prime_UTR_variant,,ENST00000514051,;METAP1,3_prime_UTR_variant,,ENST00000510133,;METAP1,3_prime_UTR_variant,,ENST00000544031,;METAP1,3_prime_UTR_variant,,ENST00000296411,;	G	ENSG00000164024	ENST00000296411	Transcript	3_prime_UTR_variant	1316	.	.	.	.	.	.	.	1	METAP1	HGNC	15789	protein_coding	YES	CCDS47110.1	ENSP00000296411	MAP11_HUMAN	.	UPI00001B5C1A	.	.	.	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACATCTCAGT	.	5	BLCA
NUDT12	0	.	GRCh37	5	102888061	102888061	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1135G>T	p.Val379Phe	p.V379F	ENST00000230792	6/7	54	51	3	84	84	0	NUDT12,missense_variant,p.Val361Phe,ENST00000507423,;NUDT12,missense_variant,p.Val379Phe,ENST00000230792,;NUDT12,downstream_gene_variant,,ENST00000515407,;	A	ENSG00000112874	ENST00000230792	Transcript	missense_variant	1232	1135	379	V/F	Gtt/Ttt	.	.	.	-1	NUDT12	HGNC	18826	protein_coding	YES	CCDS4096.1	ENSP00000230792	NUD12_HUMAN	.	UPI0000073C53	.	deleterious(0.04)	probably_damaging(0.99)	6/7	.	PROSITE_profiles:PS51462,hmmpanther:PTHR22769,hmmpanther:PTHR22769:SF7,Gene3D:3.90.79.10,Pfam_domain:PF00293,Superfamily_domains:SSF55811	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAACTTTGA	.	2	BLCA
TSSK1B	0	.	GRCh37	5	112770104	112770104	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.433G>C	p.Asp145His	p.D145H	ENST00000390666	1/1	39	34	5	58	58	0	TSSK1B,missense_variant,p.Asp145His,ENST00000390666,;MCC,intron_variant,,ENST00000408903,;CTD-2201G3.1,non_coding_transcript_exon_variant,,ENST00000416046,;CTD-2201G3.1,non_coding_transcript_exon_variant,,ENST00000383058,;CTD-2201G3.1,upstream_gene_variant,,ENST00000510381,;	G	ENSG00000212122	ENST00000390666	Transcript	missense_variant	625	433	145	D/H	Gac/Cac	.	.	.	-1	TSSK1B	HGNC	14968	protein_coding	YES	CCDS4112.1	ENSP00000375081	TSSK1_HUMAN	A0ZT98_HUMAN	UPI000003C96E	.	deleterious(0)	probably_damaging(0.992)	1/1	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50011,hmmpanther:PTHR24343:SF76,hmmpanther:PTHR24343,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTTGTCAAGGA	.	3	BLCA
TNFAIP8	0	.	GRCh37	5	118728866	118728866	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387C>T	p.%3D	p.S129S	ENST00000504771	2/2	61	52	8	61	61	0	TNFAIP8,synonymous_variant,p.%3D,ENST00000503646,;TNFAIP8,synonymous_variant,p.%3D,ENST00000513374,;TNFAIP8,synonymous_variant,p.%3D,ENST00000504642,;TNFAIP8,synonymous_variant,p.%3D,ENST00000504771,;TNFAIP8,synonymous_variant,p.%3D,ENST00000274456,;TNFAIP8,3_prime_UTR_variant,,ENST00000415806,;TNFAIP8,downstream_gene_variant,,ENST00000388882,;	T	ENSG00000145779	ENST00000504771	Transcript	synonymous_variant	2164	387	129	S	tcC/tcT	.	.	.	1	TNFAIP8	HGNC	17260	protein_coding	YES	CCDS47258.1	ENSP00000422245	TFIP8_HUMAN	E5RIJ3_HUMAN	UPI000006EB3E	.	.	.	2/2	.	hmmpanther:PTHR12757:SF3,hmmpanther:PTHR12757,Pfam_domain:PF05527	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTATCCAGGCT	.	4	BLCA
SLC12A2	0	.	GRCh37	5	127485735	127485735	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2052A>G	p.%3D	p.A684A	ENST00000262461	13/27	88	83	5	80	80	0	SLC12A2,synonymous_variant,p.%3D,ENST00000343225,;SLC12A2,synonymous_variant,p.%3D,ENST00000262461,;SLC12A2,synonymous_variant,p.%3D,ENST00000509205,;	G	ENSG00000064651	ENST00000262461	Transcript	synonymous_variant	2241	2052	684	A	gcA/gcG	.	.	.	1	SLC12A2	HGNC	10911	protein_coding	YES	CCDS4144.1	ENSP00000262461	S12A2_HUMAN	Q53ZR1_HUMAN	UPI000013541A	.	.	.	13/27	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11827:SF58,hmmpanther:PTHR11827,TIGRFAM_domain:TIGR00930,Pfam_domain:PF00324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTGCATCATA	.	2	BLCA
FAM13B	0	.	GRCh37	5	137321065	137321065	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1060G>A	p.Asp354Asn	p.D354N	ENST00000033079	10/23	86	72	13	86	86	0	FAM13B,missense_variant,p.Asp354Asn,ENST00000420893,;FAM13B,missense_variant,p.Asp354Asn,ENST00000033079,;FAM13B,missense_variant,p.Asp236Asn,ENST00000425075,;AC106753.1,upstream_gene_variant,,ENST00000582317,;	T	ENSG00000031003	ENST00000033079	Transcript	missense_variant	1512	1060	354	D/N	Gat/Aat	.	.	.	-1	FAM13B	HGNC	1335	protein_coding	YES	CCDS4195.1	ENSP00000033079	FA13B_HUMAN	D6RE97_HUMAN,D6RDL7_HUMAN,D6RCA0_HUMAN,D6RBJ3_HUMAN,D6RAT6_HUMAN	UPI000004A03C	.	tolerated(0.15)	benign(0.002)	10/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15904:SF16,hmmpanther:PTHR15904	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCATCAGCAA	.	5	BLCA
DNAH5	0	.	GRCh37	5	13829755	13829755	+	Missense_Mutation	SNP	G	G	A	rs769260126	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6308C>T	p.Ser2103Leu	p.S2103L	ENST00000265104	38/79	81	68	13	65	65	0	DNAH5,missense_variant,p.Ser2103Leu,ENST00000265104,;	A	ENSG00000039139	ENST00000265104	Transcript	missense_variant	6413	6308	2103	S/L	tCa/tTa	rs769260126	.	.	-1	DNAH5	HGNC	2950	protein_coding	YES	CCDS3882.1	ENSP00000265104	DYH5_HUMAN	O95496_HUMAN	UPI0000110101	.	.	benign(0.005)	38/79	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,Pfam_domain:PF12774,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF240	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTGAGCGG	.	5	BLCA
HARS	0	.	GRCh37	5	140057555	140057555	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.568G>C	p.Glu190Gln	p.E190Q	ENST00000504156	6/13	30	23	7	41	40	0	HARS,missense_variant,p.Glu121Gln,ENST00000504366,;HARS,missense_variant,p.Glu28Gln,ENST00000448240,;HARS,missense_variant,p.Glu76Gln,ENST00000431330,;HARS,missense_variant,p.Glu190Gln,ENST00000504156,;HARS,missense_variant,p.Glu170Gln,ENST00000457527,;HARS,missense_variant,p.Glu130Gln,ENST00000307633,;HARS,missense_variant,p.Glu116Gln,ENST00000415192,;HARS,missense_variant,p.Glu150Gln,ENST00000438307,;HARS,intron_variant,,ENST00000507746,;DND1,upstream_gene_variant,,ENST00000542735,;HARS,non_coding_transcript_exon_variant,,ENST00000506579,;HARS,upstream_gene_variant,,ENST00000509087,;WDR55,downstream_gene_variant,,ENST00000504897,;HARS,downstream_gene_variant,,ENST00000502888,;HARS,downstream_gene_variant,,ENST00000512396,;HARS,downstream_gene_variant,,ENST00000518126,;	G	ENSG00000170445	ENST00000504156	Transcript	missense_variant	1288	568	190	E/Q	Gag/Cag	.	.	.	-1	HARS	HGNC	4816	protein_coding	YES	CCDS4237.1	ENSP00000425634	SYHC_HUMAN	D6RF05_HUMAN,B3KWE1_HUMAN	UPI00001364CE	.	deleterious(0)	probably_damaging(1)	6/13	.	PROSITE_profiles:PS50862,HAMAP:MF_00127,hmmpanther:PTHR11476,hmmpanther:PTHR11476:SF3,TIGRFAM_domain:TIGR00442,Pfam_domain:PF13393,Gene3D:3.30.930.10,PIRSF_domain:PIRSF001549,Superfamily_domains:SSF55681	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCACTCTGCAT	.	4	BLCA
PCDHA12	0	.	GRCh37	5	140256399	140256399	+	Missense_Mutation	SNP	G	G	A	rs571648883	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1342G>A	p.Val448Met	p.V448M	ENST00000398631	1/4	80	70	10	166	166	0	PCDHA12,missense_variant,p.Val448Met,ENST00000398631,;PCDHA11,intron_variant,,ENST00000398640,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA10,intron_variant,,ENST00000307360,;PCDHA7,intron_variant,,ENST00000525929,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA10,intron_variant,,ENST00000506939,;PCDHA8,intron_variant,,ENST00000531613,;PCDHA9,intron_variant,,ENST00000532602,;PCDHA6,intron_variant,,ENST00000529310,;PCDHA5,intron_variant,,ENST00000529859,;	A	ENSG00000251664	ENST00000398631	Transcript	missense_variant	1342	1342	448	V/M	Gtg/Atg	rs571648883,COSM590012	.	.	1	PCDHA12	HGNC	8666	protein_coding	YES	CCDS47285.1	ENSP00000381628	PCDAC_HUMAN	.	UPI00001273D5	.	deleterious_low_confidence(0.01)	possibly_damaging(0.743)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF76,hmmpanther:PTHR24028,PROSITE_patterns:PS00232,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCGACGTGAAC	byCluster	3	BLCA
PCDHGB7	0	.	GRCh37	5	140797678	140797678	+	Silent	SNP	A	A	G	rs763834283	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.252A>G	p.%3D	p.L84L	ENST00000398594	1/4	68	55	13	74	74	0	PCDHGB7,synonymous_variant,p.%3D,ENST00000398594,;PCDHGB6,intron_variant,,ENST00000520790,;PCDHGA3,intron_variant,,ENST00000253812,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA7,intron_variant,,ENST00000518325,;PCDHGA10,intron_variant,,ENST00000398610,;PCDHGB1,intron_variant,,ENST00000523390,;PCDHGA5,intron_variant,,ENST00000518069,;PCDHGA8,intron_variant,,ENST00000398604,;PCDHGB3,intron_variant,,ENST00000576222,;PCDHGA4,intron_variant,,ENST00000571252,;PCDHGA2,intron_variant,,ENST00000394576,;PCDHGA6,intron_variant,,ENST00000517434,;PCDHGB4,intron_variant,,ENST00000519479,;PCDHGA9,intron_variant,,ENST00000573521,;PCDHGB2,intron_variant,,ENST00000522605,;PCDHGA11,upstream_gene_variant,,ENST00000398587,;PCDHGA11,upstream_gene_variant,,ENST00000518882,;	G	ENSG00000254122	ENST00000398594	Transcript	synonymous_variant	252	252	84	L	ttA/ttG	rs763834283	.	.	1	PCDHGB7	HGNC	8714	protein_coding	YES	CCDS47293.1	ENSP00000381594	PCDGJ_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI000007141F	.	.	.	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF113,Pfam_domain:PF08266,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTACTTGT	.	5	BLCA
TRIO	0	.	GRCh37	5	14406742	14406742	+	Silent	SNP	C	C	T	rs147339578	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4920C>T	p.%3D	p.I1640I	ENST00000344204	33/57	84	70	13	96	96	0	TRIO,synonymous_variant,p.%3D,ENST00000537187,;TRIO,synonymous_variant,p.%3D,ENST00000344204,;TRIO,synonymous_variant,p.%3D,ENST00000513206,;TRIO,synonymous_variant,p.%3D,ENST00000512070,;TRIO,non_coding_transcript_exon_variant,,ENST00000509354,;TRIO,non_coding_transcript_exon_variant,,ENST00000515144,;TRIO,non_coding_transcript_exon_variant,,ENST00000512303,;	T	ENSG00000038382	ENST00000344204	Transcript	synonymous_variant	4944	4920	1640	I	atC/atT	rs147339578	.	.	1	TRIO	HGNC	12303	protein_coding	YES	CCDS3883.1	ENSP00000339299	TRIO_HUMAN	.	UPI000034ECE6	.	.	.	33/57	.	hmmpanther:PTHR22826:SF104,hmmpanther:PTHR22826	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCATCGCCTC	byCluster	4	BLCA
SRD5A1	0	.	GRCh37	5	6633847	6633847	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.158G>A	p.Arg53Gln	p.R53Q	ENST00000274192	1/5	14	7	6	11	11	0	SRD5A1,missense_variant,p.Gly62Arg,ENST00000537411,;SRD5A1,missense_variant,p.Gly62Arg,ENST00000538824,;SRD5A1,missense_variant,p.Arg53Gln,ENST00000274192,;NSUN2,upstream_gene_variant,,ENST00000539938,;NSUN2,upstream_gene_variant,,ENST00000264670,;NSUN2,upstream_gene_variant,,ENST00000506139,;SRD5A1,non_coding_transcript_exon_variant,,ENST00000504286,;SRD5A1,missense_variant,p.Arg53Gln,ENST00000513117,;SRD5A1,missense_variant,p.Arg53Gln,ENST00000510531,;NSUN2,upstream_gene_variant,,ENST00000504374,;	A	ENSG00000145545	ENST00000274192	Transcript	missense_variant	392	158	53	R/Q	cGg/cAg	.	.	.	1	SRD5A1	HGNC	11284	protein_coding	YES	CCDS3870.1	ENSP00000274192	S5A1_HUMAN	.	UPI00000534C8	.	deleterious(0.05)	benign(0.241)	1/5	.	hmmpanther:PTHR10556:SF32,hmmpanther:PTHR10556,PIRSF_domain:PIRSF015596	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGCGGGCCG	.	5	BLCA
MAST4	0	.	GRCh37	5	66461183	66461183	+	Missense_Mutation	SNP	C	C	T	rs558797796	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6176C>T	p.Ser2059Phe	p.S2059F	ENST00000403625	29/29	34	31	3	52	52	0	MAST4,missense_variant,p.Ser1870Phe,ENST00000403666,;MAST4,missense_variant,p.Ser2062Phe,ENST00000404260,;MAST4,missense_variant,p.Ser1116Phe,ENST00000443808,;MAST4,missense_variant,p.Ser1865Phe,ENST00000261569,;MAST4,missense_variant,p.Ser1880Phe,ENST00000405643,;MAST4,missense_variant,p.Ser2059Phe,ENST00000403625,;	T	ENSG00000069020	ENST00000403625	Transcript	missense_variant	6471	6176	2059	S/F	tCc/tTc	rs558797796	.	.	1	MAST4	HGNC	19037	protein_coding	YES	CCDS54861.1	ENSP00000385727	.	J3QT34_HUMAN	UPI000173A2B0	.	.	benign(0.381)	29/29	.	.	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAACTCCTCTC	by1000G	2	BLCA
MAP1B	0	.	GRCh37	5	71493662	71493662	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4480G>A	p.Glu1494Lys	p.E1494K	ENST00000296755	5/7	112	88	24	91	91	0	MAP1B,missense_variant,p.Glu1494Lys,ENST00000296755,;MAP1B,downstream_gene_variant,,ENST00000511641,;MAP1B,downstream_gene_variant,,ENST00000504492,;MAP1B,downstream_gene_variant,,ENST00000513526,;	A	ENSG00000131711	ENST00000296755	Transcript	missense_variant	4778	4480	1494	E/K	Gaa/Aaa	.	.	.	1	MAP1B	HGNC	6836	protein_coding	YES	CCDS4012.1	ENSP00000296755	MAP1B_HUMAN	D6RGJ3_HUMAN,D6RA40_HUMAN	UPI000013E382	.	.	possibly_damaging(0.725)	5/7	.	hmmpanther:PTHR13843,hmmpanther:PTHR13843:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGAAAGG	.	5	BLCA
IQGAP2	0	.	GRCh37	5	75896747	75896747	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1182C>T	p.%3D	p.L394L	ENST00000274364	11/36	48	41	7	80	80	0	IQGAP2,synonymous_variant,p.%3D,ENST00000514350,;IQGAP2,synonymous_variant,p.%3D,ENST00000505766,;IQGAP2,synonymous_variant,p.%3D,ENST00000274364,;IQGAP2,5_prime_UTR_variant,,ENST00000379730,;IQGAP2,downstream_gene_variant,,ENST00000504815,;	T	ENSG00000145703	ENST00000274364	Transcript	synonymous_variant	1479	1182	394	L	ctC/ctT	.	.	.	1	IQGAP2	HGNC	6111	protein_coding	YES	CCDS34188.1	ENSP00000274364	IQGA2_HUMAN	E7EWC2_HUMAN,D6R939_HUMAN	UPI000020CB2C	.	.	.	11/36	.	hmmpanther:PTHR14149,hmmpanther:PTHR14149:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAACTCAGAAG	.	4	BLCA
CCNC	0	.	GRCh37	6	100010759	100010759	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98C>T	p.Ser33Leu	p.S33L	ENST00000520429	2/12	38	33	5	36	36	0	CCNC,missense_variant,p.Ser33Leu,ENST00000369220,;CCNC,missense_variant,p.Ser33Leu,ENST00000520371,;CCNC,missense_variant,p.Ser33Leu,ENST00000482541,;CCNC,missense_variant,p.Ser33Leu,ENST00000518714,;CCNC,missense_variant,p.Ser33Leu,ENST00000520429,;CCNC,missense_variant,p.Ser80Leu,ENST00000369217,;CCNC,5_prime_UTR_variant,,ENST00000524049,;CCNC,5_prime_UTR_variant,,ENST00000523799,;CCNC,intron_variant,,ENST00000523985,;CCNC,upstream_gene_variant,,ENST00000486428,;CCNC,non_coding_transcript_exon_variant,,ENST00000521017,;CCNC,missense_variant,p.Ser33Leu,ENST00000523961,;CCNC,missense_variant,p.Ser33Leu,ENST00000326298,;CCNC,missense_variant,p.Ser33Leu,ENST00000484049,;CCNC,non_coding_transcript_exon_variant,,ENST00000523541,;CCNC,non_coding_transcript_exon_variant,,ENST00000523639,;CCNC,upstream_gene_variant,,ENST00000523310,;	A	ENSG00000112237	ENST00000520429	Transcript	missense_variant	544	98	33	S/L	tCa/tTa	.	.	.	-1	CCNC	HGNC	1581	protein_coding	YES	CCDS34502.1	ENSP00000428982	CCNC_HUMAN	Q7Z4L3_HUMAN,E5RIH8_HUMAN,E5RFX8_HUMAN	UPI0000169CFB	.	deleterious(0.01)	benign(0.415)	2/12	.	hmmpanther:PTHR10026,Gene3D:1.10.472.10,PIRSF_domain:PIRSF028758,Superfamily_domains:SSF47954	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	CCTCTGAGAGA	.	2	BLCA
C6orf203	0	.	GRCh37	6	107372497	107372497	+	3'UTR	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*57G>T	.	.	ENST00000443043	5/5	27	23	4	50	50	0	C6orf203,3_prime_UTR_variant,,ENST00000311381,;C6orf203,3_prime_UTR_variant,,ENST00000443043,;C6orf203,3_prime_UTR_variant,,ENST00000405204,;	T	ENSG00000130349	ENST00000443043	Transcript	3_prime_UTR_variant	1470	.	.	.	.	.	.	.	1	C6orf203	HGNC	17971	protein_coding	YES	CCDS55046.1	ENSP00000390153	.	J3KQ88_HUMAN	UPI0000D4EA45	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTGAAAAA	.	2	BLCA
FOXO3	0	.	GRCh37	6	108985342	108985342	+	Missense_Mutation	SNP	G	G	A	rs761305424	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1306G>A	p.Gly436Arg	p.G436R	ENST00000406360	2/3	54	49	5	88	88	0	FOXO3,missense_variant,p.Gly216Arg,ENST00000540898,;FOXO3,missense_variant,p.Gly436Arg,ENST00000406360,;FOXO3,missense_variant,p.Gly436Arg,ENST00000343882,;	A	ENSG00000118689	ENST00000406360	Transcript	missense_variant	1649	1306	436	G/R	Gga/Aga	rs761305424	.	.	1	FOXO3	HGNC	3821	protein_coding	YES	CCDS5068.1	ENSP00000385824	FOXO3_HUMAN	B4DVZ6_HUMAN	UPI000012ADEA	.	deleterious(0.02)	possibly_damaging(0.905)	2/3	.	hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF129	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.F435F|c.1305C>T|9	MUTECT|MUSE|VARSCANS	TGTTCGGACCT	byFrequency	3	BLCA
TUBE1	0	.	GRCh37	6	112394097	112394097	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.958G>C	p.Asp320His	p.D320H	ENST00000368662	10/12	73	59	13	93	93	0	TUBE1,missense_variant,p.Asp320His,ENST00000368662,;WISP3,downstream_gene_variant,,ENST00000361714,;WISP3,downstream_gene_variant,,ENST00000409166,;WISP3,downstream_gene_variant,,ENST00000368666,;WISP3,downstream_gene_variant,,ENST00000604763,;WISP3,downstream_gene_variant,,ENST00000368663,;WISP3,downstream_gene_variant,,ENST00000230529,;TUBE1,non_coding_transcript_exon_variant,,ENST00000604814,;TUBE1,downstream_gene_variant,,ENST00000441191,;TUBE1,3_prime_UTR_variant,,ENST00000605457,;TUBE1,non_coding_transcript_exon_variant,,ENST00000603651,;TUBE1,downstream_gene_variant,,ENST00000604689,;WISP3,downstream_gene_variant,,ENST00000454589,;WISP3,downstream_gene_variant,,ENST00000368664,;TUBE1,downstream_gene_variant,,ENST00000604743,;TUBE1,downstream_gene_variant,,ENST00000604967,;	G	ENSG00000074935	ENST00000368662	Transcript	missense_variant	1037	958	320	D/H	Gat/Cat	.	.	.	-1	TUBE1	HGNC	20775	protein_coding	YES	CCDS5100.1	ENSP00000357651	TBE_HUMAN	.	UPI0000136A4E	.	deleterious(0)	probably_damaging(0.989)	10/12	.	hmmpanther:PTHR11588,hmmpanther:PTHR11588:SF13,Gene3D:3.30.1330.20,Pfam_domain:PF03953,SMART_domains:SM00865,Superfamily_domains:SSF55307	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGATCCAATC	.	5	BLCA
ROS1	0	.	GRCh37	6	117718260	117718260	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597G>C	p.Leu199Phe	p.L199F	ENST00000368508	7/43	72	64	7	94	94	0	ROS1,missense_variant,p.Leu208Phe,ENST00000368507,;ROS1,missense_variant,p.Leu199Phe,ENST00000368508,;GOPC,intron_variant,,ENST00000467125,;	G	ENSG00000047936	ENST00000368508	Transcript	missense_variant	796	597	199	L/F	ttG/ttC	COSM3619912,COSM3619913	.	.	-1	ROS1	HGNC	10261	protein_coding	YES	CCDS5116.1	ENSP00000357494	ROS1_HUMAN	.	UPI000013D467	.	tolerated(0.4)	benign(0.009)	7/43	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF304,hmmpanther:PTHR24416,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTAATCAAAGG	.	4	BLCA
TXLNB	0	.	GRCh37	6	139564325	139564325	+	Missense_Mutation	SNP	C	C	T	rs780421879	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1393G>A	p.Glu465Lys	p.E465K	ENST00000358430	10/10	103	89	14	108	108	0	TXLNB,missense_variant,p.Glu465Lys,ENST00000358430,;RP1-225E12.2,upstream_gene_variant,,ENST00000590219,;RP1-225E12.2,upstream_gene_variant,,ENST00000585447,;RP1-225E12.2,upstream_gene_variant,,ENST00000588529,;RP1-225E12.2,upstream_gene_variant,,ENST00000586229,;RP1-225E12.2,upstream_gene_variant,,ENST00000415194,;RP1-225E12.2,upstream_gene_variant,,ENST00000587814,;RP1-225E12.2,upstream_gene_variant,,ENST00000591102,;RP1-225E12.2,upstream_gene_variant,,ENST00000592557,;RP1-225E12.2,upstream_gene_variant,,ENST00000587333,;RP1-225E12.2,upstream_gene_variant,,ENST00000586266,;RP1-225E12.2,upstream_gene_variant,,ENST00000587577,;RP1-225E12.2,upstream_gene_variant,,ENST00000588638,;RP1-225E12.2,upstream_gene_variant,,ENST00000590679,;RP1-225E12.2,upstream_gene_variant,,ENST00000589192,;RP1-225E12.3,intron_variant,,ENST00000585874,;	T	ENSG00000164440	ENST00000358430	Transcript	missense_variant	1626	1393	465	E/K	Gaa/Aaa	rs780421879	.	.	-1	TXLNB	HGNC	21617	protein_coding	YES	CCDS34545.1	ENSP00000351206	TXLNB_HUMAN	H0UI60_HUMAN	UPI0000072983	.	deleterious(0.01)	benign(0.038)	10/10	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR16127,hmmpanther:PTHR16127:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTTCAGATA	byFrequency	4	BLCA
CNKSR3	0	.	GRCh37	6	154831272	154831272	+	5'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-24C>T	.	.	ENST00000607772	1/13	66	56	9	81	81	0	CNKSR3,5_prime_UTR_variant,,ENST00000607772,;	A	ENSG00000153721	ENST00000607772	Transcript	5_prime_UTR_variant	522	.	.	.	.	.	.	.	-1	CNKSR3	HGNC	23034	protein_coding	YES	CCDS5246.1	ENSP00000475915	CNKR3_HUMAN	C9JN62_HUMAN,C9IZX4_HUMAN	UPI000020D0EA	.	.	.	1/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCGCTGGGCTG	.	3	BLCA
SYTL3	0	.	GRCh37	6	159183182	159183182	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489G>C	p.Asp497His	p.D497H	ENST00000297239	15/17	41	34	7	73	73	0	SYTL3,missense_variant,p.Asp223His,ENST00000367081,;SYTL3,missense_variant,p.Asp497His,ENST00000297239,;SYTL3,missense_variant,p.Asp429His,ENST00000360448,;EZR,downstream_gene_variant,,ENST00000337147,;EZR,downstream_gene_variant,,ENST00000392177,;EZR,downstream_gene_variant,,ENST00000367075,;MIR3918,downstream_gene_variant,,ENST00000581555,;	C	ENSG00000164674	ENST00000297239	Transcript	missense_variant	1683	1489	497	D/H	Gat/Cat	.	.	.	1	SYTL3	HGNC	15587	protein_coding	YES	CCDS56458.1	ENSP00000297239	SYTL3_HUMAN	.	UPI000015FE68	.	tolerated(0.07)	probably_damaging(0.992)	15/17	.	PROSITE_profiles:PS50004,hmmpanther:PTHR10024:SF177,hmmpanther:PTHR10024,Pfam_domain:PF00168,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCCAGATGGC	.	5	BLCA
SYTL3	0	.	GRCh37	6	159184535	159184535	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1717G>A	p.Gly573Ser	p.G573S	ENST00000297239	16/17	42	25	17	59	59	0	SYTL3,missense_variant,p.Gly299Ser,ENST00000367081,;SYTL3,missense_variant,p.Gly573Ser,ENST00000297239,;SYTL3,missense_variant,p.Gly505Ser,ENST00000360448,;EZR,downstream_gene_variant,,ENST00000337147,;EZR,downstream_gene_variant,,ENST00000392177,;EZR,downstream_gene_variant,,ENST00000367075,;MIR3918,downstream_gene_variant,,ENST00000581555,;	A	ENSG00000164674	ENST00000297239	Transcript	missense_variant	1911	1717	573	G/S	Ggt/Agt	.	.	.	1	SYTL3	HGNC	15587	protein_coding	YES	CCDS56458.1	ENSP00000297239	SYTL3_HUMAN	.	UPI000015FE68	.	tolerated(0.26)	benign(0.036)	16/17	.	hmmpanther:PTHR10024:SF177,hmmpanther:PTHR10024,Gene3D:2.60.40.150,SMART_domains:SM00239,Superfamily_domains:SSF49562	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTGGTTCA	.	5	BLCA
PNLDC1	0	.	GRCh37	6	160237056	160237056	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1018G>A	p.Glu340Lys	p.E340K	ENST00000610273	13/19	91	85	6	90	90	0	PNLDC1,missense_variant,p.Glu340Lys,ENST00000610273,;PNLDC1,missense_variant,p.Glu351Lys,ENST00000392167,;PNLDC1,3_prime_UTR_variant,,ENST00000275275,;PNLDC1,non_coding_transcript_exon_variant,,ENST00000609658,;	A	ENSG00000146453	ENST00000610273	Transcript	missense_variant	1189	1018	340	E/K	Gag/Aag	.	.	.	1	PNLDC1	HGNC	21185	protein_coding	YES	CCDS64561.1	ENSP00000476448	.	.	UPI00000717EB	.	tolerated(0.51)	benign(0.006)	13/19	.	hmmpanther:PTHR15092:SF8,hmmpanther:PTHR15092,Pfam_domain:PF04857,Gene3D:3.30.420.10,Superfamily_domains:SSF53098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTGTGAGAAA	.	2	BLCA
MLLT4	0	.	GRCh37	6	168289964	168289964	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967G>A	p.Glu323Lys	p.E323K	ENST00000392108	7/30	131	98	33	118	118	0	MLLT4,missense_variant,p.Glu323Lys,ENST00000351017,;MLLT4,missense_variant,p.Glu323Lys,ENST00000447894,;MLLT4,missense_variant,p.Glu323Lys,ENST00000392108,;MLLT4,missense_variant,p.Glu322Lys,ENST00000392112,;MLLT4,missense_variant,p.Glu323Lys,ENST00000344191,;MLLT4,missense_variant,p.Glu322Lys,ENST00000400822,;MLLT4,missense_variant,p.Glu37Lys,ENST00000423229,;MLLT4,missense_variant,p.Glu323Lys,ENST00000366806,;MLLT4,non_coding_transcript_exon_variant,,ENST00000366809,;MLLT4,upstream_gene_variant,,ENST00000503021,;	A	ENSG00000130396	ENST00000392108	Transcript	missense_variant	1109	967	323	E/K	Gag/Aag	.	.	.	1	MLLT4	HGNC	7137	protein_coding	YES	CCDS47517.1	ENSP00000375956	AFAD_HUMAN	.	UPI0000711FD9	.	deleterious(0)	possibly_damaging(0.647)	7/30	.	Superfamily_domains:SSF54236,SMART_domains:SM00314,Pfam_domain:PF00788,hmmpanther:PTHR10398,PROSITE_profiles:PS50200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGATGAGTGT	.	5	BLCA
HIST1H1E	0	.	GRCh37	6	26157254	26157254	+	Missense_Mutation	SNP	G	G	C	rs766712394	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.636G>C	p.Lys212Asn	p.K212N	ENST00000304218	1/1	30	26	4	36	36	0	HIST1H1E,missense_variant,p.Lys212Asn,ENST00000304218,;HIST1H2BD,upstream_gene_variant,,ENST00000289316,;HIST1H2BD,upstream_gene_variant,,ENST00000377777,;	C	ENSG00000168298	ENST00000304218	Transcript	missense_variant	696	636	212	K/N	aaG/aaC	rs766712394	.	.	1	HIST1H1E	HGNC	4718	protein_coding	YES	CCDS4586.1	ENSP00000307705	H14_HUMAN	A3R0T8_HUMAN	UPI0000000DB9	.	deleterious(0)	unknown(0)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11467:SF16,hmmpanther:PTHR11467	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCAAAGAAGGC	.	4	BLCA
BTN3A3	0	.	GRCh37	6	26444277	26444277	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.178G>T	p.Ala60Ser	p.A60S	ENST00000244519	4/11	121	114	7	153	153	0	BTN3A3,missense_variant,p.Ala18Ser,ENST00000361232,;BTN3A3,missense_variant,p.Ala18Ser,ENST00000490254,;BTN3A3,missense_variant,p.Ala42Ser,ENST00000482451,;BTN3A3,missense_variant,p.Ala18Ser,ENST00000471353,;BTN3A3,missense_variant,p.Ala60Ser,ENST00000494393,;BTN3A3,missense_variant,p.Ala60Ser,ENST00000244519,;BTN3A3,missense_variant,p.Ala18Ser,ENST00000487627,;BTN3A3,missense_variant,p.Ala18Ser,ENST00000487272,;BTN3A3,missense_variant,p.Ala18Ser,ENST00000339789,;BTN3A3,missense_variant,p.Ala60Ser,ENST00000496719,;BTN3A3,non_coding_transcript_exon_variant,,ENST00000480110,;BTN3A3,downstream_gene_variant,,ENST00000467524,;BTN3A3,downstream_gene_variant,,ENST00000474790,;BTN3A3,upstream_gene_variant,,ENST00000483179,;	T	ENSG00000111801	ENST00000244519	Transcript	missense_variant	421	178	60	A/S	Gca/Tca	.	.	.	1	BTN3A3	HGNC	1140	protein_coding	YES	CCDS4611.1	ENSP00000244519	BT3A3_HUMAN	D0FY33_HUMAN,C9JUV8_HUMAN,C9JQT8_HUMAN,C9JNZ3_HUMAN,C9J877_HUMAN,C9J3Q8_HUMAN	UPI00000480EF	.	deleterious(0.03)	probably_damaging(0.962)	4/11	.	PROSITE_profiles:PS50835,hmmpanther:PTHR24100:SF45,hmmpanther:PTHR24100,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAGTGCAGAG	.	2	BLCA
PRRT1	0	.	GRCh37	6	32117452	32117452	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.606C>G	p.%3D	p.L202L	ENST00000211413	3/4	15	11	4	20	20	0	PRRT1,synonymous_variant,p.%3D,ENST00000211413,;PRRT1,synonymous_variant,p.%3D,ENST00000375150,;PRRT1,synonymous_variant,p.%3D,ENST00000375152,;PPT2,upstream_gene_variant,,ENST00000395523,;PPT2,upstream_gene_variant,,ENST00000324816,;PPT2,upstream_gene_variant,,ENST00000375143,;PPT2,upstream_gene_variant,,ENST00000414204,;PPT2,upstream_gene_variant,,ENST00000424499,;PPT2,upstream_gene_variant,,ENST00000361568,;PRRT1,downstream_gene_variant,,ENST00000428778,;PPT2,upstream_gene_variant,,ENST00000375137,;PPT2,upstream_gene_variant,,ENST00000445576,;PPT2,upstream_gene_variant,,ENST00000437001,;PRRT1,non_coding_transcript_exon_variant,,ENST00000467780,;PRRT1,non_coding_transcript_exon_variant,,ENST00000472641,;PPT2,upstream_gene_variant,,ENST00000493548,;PRRT1,downstream_gene_variant,,ENST00000485392,;PPT2-EGFL8,upstream_gene_variant,,ENST00000453656,;PPT2,upstream_gene_variant,,ENST00000478521,;PRRT1,downstream_gene_variant,,ENST00000497552,;PRRT1,downstream_gene_variant,,ENST00000494332,;PRRT1,downstream_gene_variant,,ENST00000498575,;PRRT1,downstream_gene_variant,,ENST00000475826,;PRRT1,downstream_gene_variant,,ENST00000486917,;PRRT1,non_coding_transcript_exon_variant,,ENST00000495191,;PPT2-EGFL8,upstream_gene_variant,,ENST00000422437,;PPT2-EGFL8,upstream_gene_variant,,ENST00000585246,;PPT2-EGFL8,upstream_gene_variant,,ENST00000428388,;PPT2-EGFL8,upstream_gene_variant,,ENST00000583227,;PPT2,upstream_gene_variant,,ENST00000436118,;	C	ENSG00000204314	ENST00000211413	Transcript	synonymous_variant	731	606	202	L	ctC/ctG	.	.	.	-1	PRRT1	HGNC	13943	protein_coding	YES	CCDS4739.1	ENSP00000211413	PRRT1_HUMAN	.	UPI000012FFED	.	.	.	3/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR14948,hmmpanther:PTHR14948:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGGGGAGAGT	.	2	BLCA
NOTCH4	0	.	GRCh37	6	32164700	32164700	+	Splice_Site	SNP	A	A	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5200+2T>C	.	p.X1734_splice	ENST00000375023	.	107	92	15	131	131	0	NOTCH4,splice_donor_variant,,ENST00000375023,;NOTCH4,splice_donor_variant,,ENST00000443903,;GPSM3,upstream_gene_variant,,ENST00000487761,;GPSM3,upstream_gene_variant,,ENST00000375043,;GPSM3,upstream_gene_variant,,ENST00000375040,;NOTCH4,splice_donor_variant,,ENST00000474612,;NOTCH4,splice_donor_variant,,ENST00000491215,;GPSM3,upstream_gene_variant,,ENST00000472768,;	G	ENSG00000204301	ENST00000375023	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	NOTCH4	HGNC	7884	protein_coding	YES	CCDS34420.1	ENSP00000364163	NOTC4_HUMAN	.	UPI0000130571	.	.	.	.	28/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACATACCCCA	.	4	BLCA
CLPSL2	0	.	GRCh37	6	35745245	35745245	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.94G>A	p.Asp32Asn	p.D32N	ENST00000403376	2/3	56	42	14	46	46	0	CLPSL2,missense_variant,p.Asp32Asn,ENST00000403376,;CLPSL2,missense_variant,p.Asp32Asn,ENST00000360454,;CLPSL1,upstream_gene_variant,,ENST00000373861,;CLPSL1,upstream_gene_variant,,ENST00000542261,;CLPSL2,non_coding_transcript_exon_variant,,ENST00000481904,;CLPSL2,intron_variant,,ENST00000467122,;	A	ENSG00000196748	ENST00000403376	Transcript	missense_variant	94	94	32	D/N	Gac/Aac	.	.	.	1	CLPSL2	HGNC	21250	protein_coding	YES	CCDS4810.2	ENSP00000385898	COLL2_HUMAN	.	UPI00015A355C	.	tolerated(0.21)	possibly_damaging(0.908)	2/3	.	PROSITE_profiles:PS51342,hmmpanther:PTHR10041:SF3,hmmpanther:PTHR10041,Gene3D:2.10.80.10,Pfam_domain:PF15083	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGACAGG	.	5	BLCA
TRERF1	0	.	GRCh37	6	42222655	42222655	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2590G>T	p.Glu864Ter	p.E864*	ENST00000372922	13/18	91	75	15	94	94	0	TRERF1,stop_gained,p.Glu884Ter,ENST00000541110,;TRERF1,stop_gained,p.Glu781Ter,ENST00000340840,;TRERF1,stop_gained,p.Glu864Ter,ENST00000372922,;TRERF1,stop_gained,p.Glu781Ter,ENST00000372917,;TRERF1,stop_gained,p.Glu781Ter,ENST00000354325,;	A	ENSG00000124496	ENST00000372922	Transcript	stop_gained	3153	2590	864	E/*	Gaa/Taa	.	.	.	-1	TRERF1	HGNC	18273	protein_coding	YES	CCDS4867.1	ENSP00000362013	TREF1_HUMAN	.	UPI0000052952	.	.	.	13/18	.	PROSITE_profiles:PS51156,hmmpanther:PTHR16089:SF19,hmmpanther:PTHR16089	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCCAGAG	.	5	BLCA
PEX6	0	.	GRCh37	6	42946153	42946153	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736G>A	p.Glu246Lys	p.E246K	ENST00000304611	1/17	37	27	10	55	55	0	PEX6,missense_variant,p.Glu246Lys,ENST00000304611,;PEX6,missense_variant,p.Glu246Lys,ENST00000244546,;	T	ENSG00000124587	ENST00000304611	Transcript	missense_variant	806	736	246	E/K	Gaa/Aaa	.	.	.	-1	PEX6	HGNC	8859	protein_coding	YES	CCDS4877.1	ENSP00000303511	PEX6_HUMAN	.	UPI00001316EC	.	tolerated(0.07)	benign(0.05)	1/17	.	hmmpanther:PTHR23077:SF9,hmmpanther:PTHR23077	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTTCTAGGA	.	5	BLCA
BMP5	0	.	GRCh37	6	55638880	55638880	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.994C>T	p.His332Tyr	p.H332Y	ENST00000370830	4/7	108	94	14	115	115	0	BMP5,missense_variant,p.His332Tyr,ENST00000370830,;BMP5,missense_variant,p.His332Tyr,ENST00000446683,;	A	ENSG00000112175	ENST00000370830	Transcript	missense_variant	1693	994	332	H/Y	Cat/Tat	COSM2156389	.	.	-1	BMP5	HGNC	1072	protein_coding	YES	CCDS4958.1	ENSP00000359866	BMP5_HUMAN	M9VUD0_HUMAN	UPI0000126A2C	.	tolerated(1)	benign(0.002)	4/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11848,hmmpanther:PTHR11848:SF139	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGATGAGAGC	.	4	BLCA
ZCWPW1	0	.	GRCh37	7	100002662	100002662	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225C>T	p.Gln409Ter	p.Q409*	ENST00000398027	13/18	159	125	34	190	190	0	ZCWPW1,stop_gained,p.Gln410Ter,ENST00000360951,;ZCWPW1,stop_gained,p.Gln409Ter,ENST00000398027,;ZCWPW1,stop_gained,p.Gln289Ter,ENST00000324725,;ZCWPW1,stop_gained,p.Gln289Ter,ENST00000490721,;ZCWPW1,intron_variant,,ENST00000471336,;PILRA,downstream_gene_variant,,ENST00000198536,;PILRA,downstream_gene_variant,,ENST00000350573,;PILRA,downstream_gene_variant,,ENST00000453419,;ZCWPW1,non_coding_transcript_exon_variant,,ENST00000490089,;ZCWPW1,upstream_gene_variant,,ENST00000479315,;	A	ENSG00000078487	ENST00000398027	Transcript	stop_gained	1473	1225	409	Q/*	Caa/Taa	.	.	.	-1	ZCWPW1	HGNC	23486	protein_coding	YES	CCDS43623.1	ENSP00000381109	ZCPW1_HUMAN	.	UPI000014146E	.	.	.	13/18	.	hmmpanther:PTHR15999:SF2,hmmpanther:PTHR15999,Gene3D:2.30.30.160,Pfam_domain:PF00855,Superfamily_domains:SSF63748	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTGAGCCA	.	5	BLCA
KMT2E	0	.	GRCh37	7	104742552	104742552	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2107G>A	p.Glu703Lys	p.E703K	ENST00000311117	17/27	81	64	17	69	69	0	KMT2E,missense_variant,p.Glu703Lys,ENST00000311117,;KMT2E,missense_variant,p.Glu114Lys,ENST00000479838,;KMT2E,missense_variant,p.Glu703Lys,ENST00000257745,;KMT2E,missense_variant,p.Glu703Lys,ENST00000334877,;KMT2E,5_prime_UTR_variant,,ENST00000334914,;CTB-152G17.6,downstream_gene_variant,,ENST00000607968,;KMT2E,missense_variant,p.Glu703Lys,ENST00000334884,;	A	ENSG00000005483	ENST00000311117	Transcript	missense_variant	2652	2107	703	E/K	Gaa/Aaa	.	.	.	1	KMT2E	HGNC	18541	protein_coding	YES	CCDS34723.1	ENSP00000312379	KMT2E_HUMAN	O95038_HUMAN,C9JQ68_HUMAN,C9JNE1_HUMAN	UPI0000074133	.	deleterious_low_confidence(0.04)	benign(0.292)	17/27	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16286,hmmpanther:PTHR16286:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCAGAAACT	.	5	BLCA
KMT2E	0	.	GRCh37	7	104753155	104753155	+	Missense_Mutation	SNP	C	C	T	rs540886477	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4952C>T	p.Ser1651Phe	p.S1651F	ENST00000311117	27/27	45	35	9	35	35	0	KMT2E,missense_variant,p.Ser1651Phe,ENST00000257745,;KMT2E,missense_variant,p.Ser1651Phe,ENST00000311117,;KMT2E,missense_variant,p.Ser1609Phe,ENST00000334877,;KMT2E,downstream_gene_variant,,ENST00000473063,;SRPK2,downstream_gene_variant,,ENST00000474770,;KMT2E,downstream_gene_variant,,ENST00000334914,;SRPK2,downstream_gene_variant,,ENST00000393651,;SRPK2,downstream_gene_variant,,ENST00000489828,;SRPK2,downstream_gene_variant,,ENST00000477925,;SRPK2,downstream_gene_variant,,ENST00000357311,;SRPK2,intron_variant,,ENST00000493638,;SRPK2,downstream_gene_variant,,ENST00000485455,;KMT2E,3_prime_UTR_variant,,ENST00000334884,;SRPK2,downstream_gene_variant,,ENST00000466917,;KMT2E,downstream_gene_variant,,ENST00000478079,;SRPK2,downstream_gene_variant,,ENST00000465072,;	T	ENSG00000005483	ENST00000311117	Transcript	missense_variant	5497	4952	1651	S/F	tCt/tTt	rs540886477,COSM1292394	.	.	1	KMT2E	HGNC	18541	protein_coding	YES	CCDS34723.1	ENSP00000312379	KMT2E_HUMAN	O95038_HUMAN,C9JQ68_HUMAN,C9JNE1_HUMAN	UPI0000074133	.	deleterious_low_confidence(0)	possibly_damaging(0.485)	27/27	.	hmmpanther:PTHR16286,hmmpanther:PTHR16286:SF9	G:0.0002	G:0	G:0	.	G:0	G:0	G:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCTGTAG	by1000G	5	BLCA
ZNF277	0	.	GRCh37	7	111846782	111846782	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11C>A	p.Ser4Tyr	p.S4Y	ENST00000361822	1/12	18	12	6	24	24	0	ZNF277,missense_variant,p.Ser4Tyr,ENST00000421043,;ZNF277,missense_variant,p.Ser4Tyr,ENST00000425229,;ZNF277,missense_variant,p.Ser4Tyr,ENST00000450657,;ZNF277,missense_variant,p.Ser4Tyr,ENST00000361822,;DOCK4,upstream_gene_variant,,ENST00000428084,;DOCK4,upstream_gene_variant,,ENST00000437633,;DOCK4,upstream_gene_variant,,ENST00000476846,;ZNF277,missense_variant,p.Ser4Tyr,ENST00000361946,;ZNF277,missense_variant,p.Ser4Tyr,ENST00000457808,;	A	ENSG00000198839	ENST00000361822	Transcript	missense_variant	140	11	4	S/Y	tCc/tAc	.	.	.	1	ZNF277	HGNC	13070	protein_coding	YES	CCDS5755.2	ENSP00000354501	ZN277_HUMAN	C9J3B6_HUMAN,A4D0S7_HUMAN	UPI00000437E2	.	deleterious_low_confidence(0.01)	benign(0.037)	1/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTTCCAAGA	.	5	BLCA
SLC13A4	0	.	GRCh37	7	135387595	135387595	+	Missense_Mutation	SNP	C	C	T	rs563522177	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.628G>A	p.Glu210Lys	p.E210K	ENST00000354042	6/16	85	74	11	80	80	0	SLC13A4,missense_variant,p.Glu210Lys,ENST00000354042,;RP11-644N4.1,upstream_gene_variant,,ENST00000609370,;SLC13A4,splice_region_variant,,ENST00000480376,;SLC13A4,non_coding_transcript_exon_variant,,ENST00000471405,;SLC13A4,downstream_gene_variant,,ENST00000478310,;	T	ENSG00000164707	ENST00000354042	Transcript	missense_variant	1318	628	210	E/K	Gag/Aag	rs563522177,COSM1085916,COSM744407	.	.	-1	SLC13A4	HGNC	15827	protein_coding	YES	CCDS5840.1	ENSP00000297282	S13A4_HUMAN	.	UPI00000343D9	.	tolerated(0.7)	benign(0.001)	6/16	.	Pfam_domain:PF00939,hmmpanther:PTHR10283,hmmpanther:PTHR10283:SF63	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACCTCGTTGT	by1000G	4	BLCA
CHRM2	0	.	GRCh37	7	136700395	136700395	+	Silent	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.783G>A	p.%3D	p.Q261Q	ENST00000445907	3/3	27	19	8	38	38	0	CHRM2,synonymous_variant,p.%3D,ENST00000320658,;CHRM2,synonymous_variant,p.%3D,ENST00000401861,;CHRM2,synonymous_variant,p.%3D,ENST00000397608,;CHRM2,synonymous_variant,p.%3D,ENST00000402486,;CHRM2,synonymous_variant,p.%3D,ENST00000453373,;CHRM2,synonymous_variant,p.%3D,ENST00000445907,;hsa-mir-490,intron_variant,,ENST00000597642,;hsa-mir-490,intron_variant,,ENST00000586239,;hsa-mir-490,intron_variant,,ENST00000425981,;hsa-mir-490,intron_variant,,ENST00000592183,;hsa-mir-490,intron_variant,,ENST00000593789,;hsa-mir-490,intron_variant,,ENST00000598184,;hsa-mir-490,intron_variant,,ENST00000439694,;	A	ENSG00000181072	ENST00000445907	Transcript	synonymous_variant	1311	783	261	Q	caG/caA	COSM372005	.	.	1	CHRM2	HGNC	1951	protein_coding	YES	CCDS5843.1	ENSP00000399745	ACM2_HUMAN	Q96RH0_HUMAN,Q86SJ1_HUMAN,Q6SL56_HUMAN,A4D1Q0_HUMAN	UPI0000050410	.	.	.	3/3	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249,hmmpanther:PTHR24249:SF57,Pfam_domain:PF00001	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAATGG	.	5	BLCA
FAM221A	0	.	GRCh37	7	23731102	23731102	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.524G>A	p.Arg175Lys	p.R175K	ENST00000344962	4/7	81	60	20	87	87	0	FAM221A,missense_variant,p.Arg175Lys,ENST00000344962,;FAM221A,missense_variant,p.Arg117Lys,ENST00000409994,;FAM221A,missense_variant,p.Arg175Lys,ENST00000409192,;FAM221A,missense_variant,p.Arg117Lys,ENST00000409653,;FAM221A,3_prime_UTR_variant,,ENST00000429719,;FAM221A,non_coding_transcript_exon_variant,,ENST00000462546,;FAM221A,downstream_gene_variant,,ENST00000446234,;	A	ENSG00000188732	ENST00000344962	Transcript	missense_variant	613	524	175	R/K	aGa/aAa	.	.	.	1	FAM221A	HGNC	27977	protein_coding	YES	CCDS5385.1	ENSP00000342576	F221A_HUMAN	.	UPI0000199810	.	deleterious(0.01)	probably_damaging(0.996)	4/7	.	hmmpanther:PTHR31214,Pfam_domain:PF14753	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAAGATTGG	.	5	BLCA
TNS3	0	.	GRCh37	7	47408940	47408940	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1303G>C	p.Glu435Gln	p.E435Q	ENST00000398879	17/31	39	34	5	73	73	0	TNS3,missense_variant,p.Glu435Gln,ENST00000398879,;TNS3,missense_variant,p.Glu435Gln,ENST00000311160,;TNS3,missense_variant,p.Glu538Gln,ENST00000457718,;TNS3,missense_variant,p.Glu524Gln,ENST00000450444,;TNS3,intron_variant,,ENST00000355730,;TNS3,downstream_gene_variant,,ENST00000469470,;	G	ENSG00000136205	ENST00000398879	Transcript	missense_variant	1670	1303	435	E/Q	Gaa/Caa	.	.	.	-1	TNS3	HGNC	21616	protein_coding	YES	CCDS5506.2	ENSP00000381854	TENS3_HUMAN	C9JWN9_HUMAN,C9JTD0_HUMAN	UPI00001AE9DA	.	deleterious(0.01)	probably_damaging(0.946)	17/31	.	hmmpanther:PTHR12305:SF41,hmmpanther:PTHR12305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTCCAGGC	.	4	BLCA
FIGNL1	0	.	GRCh37	7	50513580	50513580	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1406C>T	p.Ser469Phe	p.S469F	ENST00000419119	2/2	63	54	8	72	72	0	FIGNL1,missense_variant,p.Ser469Phe,ENST00000433017,;FIGNL1,missense_variant,p.Ser469Phe,ENST00000419119,;FIGNL1,missense_variant,p.Ser469Phe,ENST00000356889,;FIGNL1,missense_variant,p.Ser469Phe,ENST00000395556,;FIGNL1,downstream_gene_variant,,ENST00000422854,;FIGNL1,downstream_gene_variant,,ENST00000420829,;FIGNL1,downstream_gene_variant,,ENST00000448788,;FIGNL1,downstream_gene_variant,,ENST00000440350,;FIGNL1,downstream_gene_variant,,ENST00000436590,;FIGNL1,downstream_gene_variant,,ENST00000435566,;	A	ENSG00000132436	ENST00000419119	Transcript	missense_variant	2960	1406	469	S/F	tCc/tTc	.	.	.	-1	FIGNL1	HGNC	13286	protein_coding	YES	CCDS5510.1	ENSP00000410811	FIGL1_HUMAN	C9JTG6_HUMAN,C9JTB2_HUMAN,C9JP37_HUMAN,C9JKI6_HUMAN,C9JHJ4_HUMAN	UPI000013CE5D	.	deleterious(0)	probably_damaging(0.999)	2/2	.	hmmpanther:PTHR23074:SF75,hmmpanther:PTHR23074,Pfam_domain:PF00004,Gene3D:3.40.50.300,SMART_domains:SM00382,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAAGGATGAA	.	2	BLCA
COBL	0	.	GRCh37	7	51096798	51096798	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1995A>T	p.Arg665Ser	p.R665S	ENST00000265136	10/13	87	83	4	119	119	0	COBL,missense_variant,p.Arg550Ser,ENST00000431948,;COBL,missense_variant,p.Arg665Ser,ENST00000265136,;COBL,missense_variant,p.Arg747Ser,ENST00000395542,;COBL,missense_variant,p.Arg557Ser,ENST00000445054,;COBL,downstream_gene_variant,,ENST00000452534,;COBL,non_coding_transcript_exon_variant,,ENST00000462395,;	A	ENSG00000106078	ENST00000265136	Transcript	missense_variant	2161	1995	665	R/S	agA/agT	.	.	.	-1	COBL	HGNC	22199	protein_coding	YES	CCDS34637.1	ENSP00000265136	COBL_HUMAN	C9J9X1_HUMAN	UPI00001A9480	.	tolerated(0.19)	benign(0.03)	10/13	.	hmmpanther:PTHR21557,hmmpanther:PTHR21557:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCACTCTCTC	.	2	BLCA
PMS2	0	.	GRCh37	7	6035197	6035197	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.871T>A	p.Phe291Ile	p.F291I	ENST00000265849	8/15	106	96	9	82	82	0	PMS2,missense_variant,p.Phe291Ile,ENST00000265849,;PMS2,missense_variant,p.Phe185Ile,ENST00000441476,;PMS2,missense_variant,p.Phe291Ile,ENST00000406569,;PMS2,intron_variant,,ENST00000382321,;PMS2,intron_variant,,ENST00000469652,;	T	ENSG00000122512	ENST00000265849	Transcript	missense_variant	977	871	291	F/I	Ttt/Att	.	.	.	-1	PMS2	HGNC	9122	protein_coding	YES	CCDS5343.1	ENSP00000265849	PMS2_HUMAN	.	UPI000013D696	.	deleterious(0)	possibly_damaging(0.769)	8/15	.	Superfamily_domains:SSF54211,Gene3D:3.30.230.10,Pfam_domain:PF01119,TIGRFAM_domain:TIGR00585,hmmpanther:PTHR10073,hmmpanther:PTHR10073:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GATAAAGAAAA	.	3	BLCA
ZNF92	0	.	GRCh37	7	64864592	64864592	+	Nonsense_Mutation	SNP	C	C	G	rs781288728	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1565C>G	p.Ser522Ter	p.S522*	ENST00000328747	4/4	67	58	8	61	61	0	ZNF92,stop_gained,p.Ser453Ter,ENST00000450302,;ZNF92,stop_gained,p.Ser446Ter,ENST00000431504,;ZNF92,stop_gained,p.Ser490Ter,ENST00000357512,;ZNF92,stop_gained,p.Ser522Ter,ENST00000328747,;	G	ENSG00000146757	ENST00000328747	Transcript	stop_gained	1764	1565	522	S/*	tCa/tGa	rs781288728	.	.	1	ZNF92	HGNC	13168	protein_coding	YES	CCDS34646.1	ENSP00000332595	ZNF92_HUMAN	C9IZS8_HUMAN	UPI0000073CE6	.	.	.	4/4	.	PROSITE_profiles:PS50157,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GTCCTCAAACC	byFrequency	3	BLCA
GTF2IRD2	0	.	GRCh37	7	74237248	74237248	+	Missense_Mutation	SNP	G	G	A	rs782476504	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.446C>T	p.Pro149Leu	p.P149L	ENST00000405086	5/16	220	208	12	253	253	0	GTF2IRD2,missense_variant,p.Pro149Leu,ENST00000405086,;GTF2IRD2,missense_variant,p.Pro149Leu,ENST00000453619,;GTF2IRD2,missense_variant,p.Pro149Leu,ENST00000361071,;GTF2IRD2,non_coding_transcript_exon_variant,,ENST00000457594,;GTF2IRD2,upstream_gene_variant,,ENST00000484624,;STAG3L2,intron_variant,,ENST00000380775,;	A	ENSG00000196275	ENST00000405086	Transcript	missense_variant	636	446	149	P/L	cCg/cTg	rs782476504	.	.	-1	GTF2IRD2	HGNC	30775	protein_coding	YES	CCDS5576.1	ENSP00000385491	GTD2A_HUMAN	.	UPI0000246D34	.	deleterious_low_confidence(0)	probably_damaging(1)	5/16	.	PROSITE_profiles:PS51139,hmmpanther:PTHR11697,hmmpanther:PTHR11697:SF35,Pfam_domain:PF02946,Gene3D:1q60A00,Superfamily_domains:0048894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE	CTTCCGGAAGC	byFrequency	2	BLCA
DBF4	0	.	GRCh37	7	87506068	87506068	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.21G>A	p.%3D	p.R7R	ENST00000265728	1/12	17	14	3	25	25	0	DBF4,synonymous_variant,p.%3D,ENST00000265728,;SLC25A40,upstream_gene_variant,,ENST00000341119,;DBF4,synonymous_variant,p.%3D,ENST00000413643,;DBF4,synonymous_variant,p.%3D,ENST00000430279,;DBF4,synonymous_variant,p.%3D,ENST00000431138,;DBF4,non_coding_transcript_exon_variant,,ENST00000495067,;DBF4,non_coding_transcript_exon_variant,,ENST00000486925,;SLC25A40,upstream_gene_variant,,ENST00000444363,;SLC25A40,upstream_gene_variant,,ENST00000491499,;	A	ENSG00000006634	ENST00000265728	Transcript	synonymous_variant	525	21	7	R	agG/agA	.	.	.	1	DBF4	HGNC	17364	protein_coding	YES	CCDS5611.1	ENSP00000265728	DBF4A_HUMAN	B7Z8C6_HUMAN,B3KMY2_HUMAN	UPI000000DC33	.	.	.	1/12	.	hmmpanther:PTHR15375,hmmpanther:PTHR15375:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGAGGATCCA	.	2	BLCA
ADAM22	0	.	GRCh37	7	87810920	87810920	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2509G>C	p.Gly837Arg	p.G837R	ENST00000265727	28/31	38	29	8	40	40	0	ADAM22,missense_variant,p.Gly801Arg,ENST00000398209,;ADAM22,missense_variant,p.Gly195Arg,ENST00000426930,;ADAM22,missense_variant,p.Gly166Arg,ENST00000413139,;ADAM22,missense_variant,p.Gly804Arg,ENST00000398203,;ADAM22,missense_variant,p.Gly801Arg,ENST00000315984,;ADAM22,missense_variant,p.Gly837Arg,ENST00000265727,;ADAM22,missense_variant,p.Gly837Arg,ENST00000398201,;ADAM22,missense_variant,p.Gly801Arg,ENST00000398204,;ADAM22,upstream_gene_variant,,ENST00000476330,;	C	ENSG00000008277	ENST00000265727	Transcript	missense_variant	2588	2509	837	G/R	Ggt/Cgt	.	.	.	1	ADAM22	HGNC	201	protein_coding	YES	CCDS47637.1	ENSP00000265727	ADA22_HUMAN	Q9UKK0_HUMAN,Q86UM2_HUMAN,Q75MS7_HUMAN,F8WAD8_HUMAN,D6W5P7_HUMAN	UPI00001254DC	.	deleterious_low_confidence(0)	probably_damaging(1)	28/31	.	hmmpanther:PTHR11905:SF14,hmmpanther:PTHR11905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCAAGGTAGA	.	5	BLCA
ATP5J2-PTCD1	0	.	GRCh37	7	99017576	99017576	+	3'UTR	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*14G>A	.	.	ENST00000413834	9/9	70	61	9	99	99	0	ATP5J2-PTCD1,3_prime_UTR_variant,,ENST00000413834,;PTCD1,3_prime_UTR_variant,,ENST00000292478,;PTCD1,3_prime_UTR_variant,,ENST00000555673,;BUD31,downstream_gene_variant,,ENST00000222969,;BUD31,downstream_gene_variant,,ENST00000431419,;BUD31,downstream_gene_variant,,ENST00000403633,;BUD31,downstream_gene_variant,,ENST00000456893,;BUD31,downstream_gene_variant,,ENST00000496696,;BUD31,downstream_gene_variant,,ENST00000466798,;BUD31,downstream_gene_variant,,ENST00000427499,;BUD31,downstream_gene_variant,,ENST00000471813,;	T	ENSG00000248919	ENST00000413834	Transcript	3_prime_UTR_variant	2287	.	.	.	.	.	.	.	-1	ATP5J2-PTCD1	HGNC	38844	protein_coding	YES	CCDS56496.1	ENSP00000400168	.	G3V325_HUMAN,C9JWL7_HUMAN,C9JQN9_HUMAN,C9JGL8_HUMAN,C9JBD7_HUMAN,A4D273_HUMAN	UPI000198CE57	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTTCCAGCTG	.	4	BLCA
AZGP1	0	.	GRCh37	7	99565820	99565820	+	Missense_Mutation	SNP	G	G	A	rs370476332	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.571C>T	p.Arg191Trp	p.R191W	ENST00000292401	3/4	70	66	4	85	85	0	AZGP1,missense_variant,p.Arg188Trp,ENST00000411734,;AZGP1,missense_variant,p.Arg191Trp,ENST00000292401,;AZGP1,intron_variant,,ENST00000419575,;AZGP1,upstream_gene_variant,,ENST00000483612,;AZGP1,non_coding_transcript_exon_variant,,ENST00000477251,;AZGP1,downstream_gene_variant,,ENST00000495765,;	A	ENSG00000160862	ENST00000292401	Transcript	missense_variant	708	571	191	R/W	Cgg/Tgg	rs370476332,COSM3412574	.	.	-1	AZGP1	HGNC	910	protein_coding	YES	CCDS5680.1	ENSP00000292401	ZA2G_HUMAN	.	UPI00000720DE	.	deleterious(0)	possibly_damaging(0.686)	3/4	.	Prints_domain:PR01638,Superfamily_domains:SSF54452,Pfam_domain:PF00129,Gene3D:3.30.500.10,hmmpanther:PTHR16675:SF156,hmmpanther:PTHR16675	.	.	.	.	.	.	.	A:0.0002	A:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCCGCAGAG	byFrequency|byCluster	2	BLCA
MTMR9	0	.	GRCh37	8	11162471	11162471	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.539G>A	p.Arg180Gln	p.R180Q	ENST00000221086	4/10	83	78	5	113	113	0	MTMR9,missense_variant,p.Arg95Gln,ENST00000526292,;MTMR9,missense_variant,p.Arg180Gln,ENST00000221086,;MTMR9,3_prime_UTR_variant,,ENST00000530200,;MTMR9,downstream_gene_variant,,ENST00000528389,;	A	ENSG00000104643	ENST00000221086	Transcript	missense_variant	1012	539	180	R/Q	cGa/cAa	.	.	.	1	MTMR9	HGNC	14596	protein_coding	YES	CCDS5979.1	ENSP00000221086	MTMR9_HUMAN	Q9Y4N6_HUMAN,B7Z291_HUMAN	UPI0000073CA7	.	deleterious(0)	probably_damaging(1)	4/10	.	PROSITE_profiles:PS51339,hmmpanther:PTHR10807,hmmpanther:PTHR10807:SF56,Pfam_domain:PF06602,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R180*|c.538C>T|3	MUTECT|MUSE	ATTTCGACATG	.	2	BLCA
ATAD2	0	.	GRCh37	8	124351680	124351680	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2725G>C	p.Glu909Gln	p.E909Q	ENST00000287394	20/28	91	77	14	71	71	0	ATAD2,missense_variant,p.Glu909Gln,ENST00000287394,;ATAD2,missense_variant,p.Glu227Gln,ENST00000521903,;RNU6-875P,upstream_gene_variant,,ENST00000516488,;ATAD2,3_prime_UTR_variant,,ENST00000517666,;ATAD2,3_prime_UTR_variant,,ENST00000519124,;	G	ENSG00000156802	ENST00000287394	Transcript	missense_variant	2833	2725	909	E/Q	Gaa/Caa	COSM1183856	.	.	-1	ATAD2	HGNC	30123	protein_coding	YES	CCDS6343.1	ENSP00000287394	ATAD2_HUMAN	.	UPI0000052A8C	.	tolerated(0.45)	benign(0.028)	20/28	.	hmmpanther:PTHR23069,hmmpanther:PTHR23069:SF1,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CAATTCTTGCA	.	3	BLCA
FAM91A1	0	.	GRCh37	8	124812070	124812070	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1754C>G	p.Ser585Ter	p.S585*	ENST00000334705	18/24	136	106	30	123	123	0	FAM91A1,stop_gained,p.Ser585Ter,ENST00000334705,;FAM91A1,stop_gained,p.Ser585Ter,ENST00000521166,;FAM91A1,3_prime_UTR_variant,,ENST00000519721,;	G	ENSG00000176853	ENST00000334705	Transcript	stop_gained	2000	1754	585	S/*	tCa/tGa	.	.	.	1	FAM91A1	HGNC	26306	protein_coding	YES	CCDS6346.2	ENSP00000335082	F91A1_HUMAN	H0YC80_HUMAN	UPI0000E5AF4E	.	.	.	18/24	.	Pfam_domain:PF14648	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCAAATG	.	5	BLCA
FER1L6	0	.	GRCh37	8	125072431	125072431	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2885C>T	p.Ser962Phe	p.S962F	ENST00000522917	23/41	60	48	11	65	65	0	FER1L6,missense_variant,p.Ser962Phe,ENST00000522917,;FER1L6,missense_variant,p.Ser962Phe,ENST00000399018,;FER1L6-AS2,non_coding_transcript_exon_variant,,ENST00000601180,;FER1L6-AS2,non_coding_transcript_exon_variant,,ENST00000520031,;	T	ENSG00000214814	ENST00000522917	Transcript	missense_variant	3091	2885	962	S/F	tCt/tTt	.	.	.	1	FER1L6	HGNC	28065	protein_coding	YES	CCDS43767.1	ENSP00000428280	FR1L6_HUMAN	.	UPI0000E9B4AA	.	tolerated(0.07)	benign(0.027)	23/41	.	hmmpanther:PTHR12546:SF37,hmmpanther:PTHR12546	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCTGGGC	.	5	BLCA
TRAPPC9	0	.	GRCh37	8	141285796	141285796	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2533G>C	p.Glu845Gln	p.E845Q	ENST00000389328	15/23	45	39	6	45	45	0	TRAPPC9,missense_variant,p.Glu591Gln,ENST00000520857,;TRAPPC9,missense_variant,p.Glu738Gln,ENST00000389327,;TRAPPC9,missense_variant,p.Glu845Gln,ENST00000389328,;TRAPPC9,missense_variant,p.Glu747Gln,ENST00000438773,;TRAPPC9,non_coding_transcript_exon_variant,,ENST00000521667,;	G	ENSG00000167632	ENST00000389328	Transcript	missense_variant	2548	2533	845	E/Q	Gag/Cag	.	.	.	-1	TRAPPC9	HGNC	30832	protein_coding	YES	CCDS34946.1	ENSP00000373979	TPPC9_HUMAN	.	UPI0000DBEF2B	.	deleterious(0.01)	probably_damaging(0.974)	15/23	.	Pfam_domain:PF08626,hmmpanther:PTHR21512,hmmpanther:PTHR21512:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCTCCAATG	.	4	BLCA
LRRC14	0	.	GRCh37	8	145746448	145746448	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1068C>T	p.%3D	p.F356F	ENST00000292524	4/4	48	38	10	73	73	0	LRRC14,synonymous_variant,p.%3D,ENST00000529022,;LRRC14,synonymous_variant,p.%3D,ENST00000292524,;LRRC14,downstream_gene_variant,,ENST00000525766,;RECQL4,upstream_gene_variant,,ENST00000524998,;C8orf82,downstream_gene_variant,,ENST00000524821,;LRRC14,downstream_gene_variant,,ENST00000527730,;LRRC24,downstream_gene_variant,,ENST00000529415,;RECQL4,upstream_gene_variant,,ENST00000428558,;LRRC24,downstream_gene_variant,,ENST00000533758,;LRRC14,downstream_gene_variant,,ENST00000530854,;RECQL4,upstream_gene_variant,,ENST00000532237,;LRRC14,upstream_gene_variant,,ENST00000528528,;LRRC14,upstream_gene_variant,,ENST00000530242,;LRRC14,upstream_gene_variant,,ENST00000529995,;RECQL4,upstream_gene_variant,,ENST00000532269,;RECQL4,upstream_gene_variant,,ENST00000534538,;RECQL4,upstream_gene_variant,,ENST00000534270,;LRRC14,downstream_gene_variant,,ENST00000531310,;	T	ENSG00000160959	ENST00000292524	Transcript	synonymous_variant	1214	1068	356	F	ttC/ttT	.	.	.	1	LRRC14	HGNC	20419	protein_coding	YES	CCDS6432.1	ENSP00000292524	LRC14_HUMAN	E9PRP5_HUMAN,E9PP40_HUMAN,E9PNL0_HUMAN	UPI000004EC76	.	.	.	4/4	.	hmmpanther:PTHR14224:SF9,hmmpanther:PTHR14224,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCCAGGG	.	5	BLCA
FGL1	0	.	GRCh37	8	17726465	17726465	+	Missense_Mutation	SNP	C	C	T	rs147845891	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.551G>A	p.Arg184His	p.R184H	ENST00000398056	8/10	73	68	5	86	86	0	FGL1,missense_variant,p.Arg184His,ENST00000518650,;FGL1,missense_variant,p.Arg184His,ENST00000522444,;FGL1,missense_variant,p.Arg184His,ENST00000398056,;FGL1,missense_variant,p.Arg184His,ENST00000398054,;FGL1,missense_variant,p.Arg184His,ENST00000381841,;FGL1,missense_variant,p.Arg184His,ENST00000381840,;FGL1,missense_variant,p.Arg184His,ENST00000427924,;FGL1,non_coding_transcript_exon_variant,,ENST00000522636,;FGL1,non_coding_transcript_exon_variant,,ENST00000523097,;	T	ENSG00000104760	ENST00000398056	Transcript	missense_variant	1367	551	184	R/H	cGt/cAt	rs147845891	.	.	-1	FGL1	HGNC	3695	protein_coding	YES	CCDS6004.1	ENSP00000381133	FGL1_HUMAN	.	UPI0000169E8B	.	deleterious(0)	probably_damaging(0.965)	8/10	.	PROSITE_profiles:PS51406,hmmpanther:PTHR19143,Gene3D:3.90.215.10,Pfam_domain:PF00147,SMART_domains:SM00186,Superfamily_domains:SSF56496	T:0.0006	T:0	T:0	.	T:0.002	T:0	T:0.001	T:0.0002	T:0.0003	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATAACGGCTA	byFrequency|byCluster|by1000G	2	BLCA
SH2D4A	0	.	GRCh37	8	19192208	19192208	+	Missense_Mutation	SNP	C	C	G	rs777774445	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.353C>G	p.Ser118Cys	p.S118C	ENST00000265807	4/10	45	27	17	70	70	0	SH2D4A,missense_variant,p.Ser104Cys,ENST00000523736,;SH2D4A,missense_variant,p.Ser118Cys,ENST00000265807,;SH2D4A,missense_variant,p.Ser118Cys,ENST00000519207,;SH2D4A,missense_variant,p.Ser73Cys,ENST00000518040,;	G	ENSG00000104611	ENST00000265807	Transcript	missense_variant	764	353	118	S/C	tCt/tGt	rs777774445	.	.	1	SH2D4A	HGNC	26102	protein_coding	YES	CCDS6009.1	ENSP00000265807	SH24A_HUMAN	.	UPI000007372B	.	deleterious(0.03)	benign(0.198)	4/10	.	hmmpanther:PTHR14388:SF5,hmmpanther:PTHR14388	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCACTCTGAAG	.	5	BLCA
HGSNAT	0	.	GRCh37	8	43046614	43046614	+	Intron	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1129-3C>G	.	.	ENST00000379644	.	165	135	30	180	180	0	HGSNAT,splice_region_variant,,ENST00000522082,;HGSNAT,splice_region_variant,,ENST00000521576,;HGSNAT,splice_region_variant,,ENST00000458501,;HGSNAT,splice_region_variant,,ENST00000297798,;HGSNAT,splice_region_variant,,ENST00000379644,;HGSNAT,splice_region_variant,,ENST00000524016,;HGSNAT,splice_region_variant,,ENST00000520678,;HGSNAT,splice_region_variant,,ENST00000519000,;HGSNAT,upstream_gene_variant,,ENST00000523989,;HGSNAT,upstream_gene_variant,,ENST00000519705,;	G	ENSG00000165102	ENST00000379644	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	HGSNAT	HGNC	26527	protein_coding	YES	CCDS47852.1	ENSP00000368965	HGNAT_HUMAN	.	UPI000057A06E	.	.	.	.	11/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACTCAGGAG	.	4	BLCA
ARMC1	0	.	GRCh37	8	66516625	66516625	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4C>T	.	.	ENST00000276569	7/7	39	35	4	43	43	0	ARMC1,3_prime_UTR_variant,,ENST00000276569,;ARMC1,3_prime_UTR_variant,,ENST00000458464,;ARMC1,downstream_gene_variant,,ENST00000518908,;ARMC1,3_prime_UTR_variant,,ENST00000528721,;	A	ENSG00000104442	ENST00000276569	Transcript	3_prime_UTR_variant	1098	.	.	.	.	.	.	.	-1	ARMC1	HGNC	17684	protein_coding	YES	CCDS6181.1	ENSP00000276569	ARMC1_HUMAN	E5RJ86_HUMAN,E5RHK3_HUMAN	UPI000004A03D	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAGTGAAGTC	.	4	BLCA
COL15A1	0	.	GRCh37	9	101777720	101777720	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1375T>G	p.Leu459Val	p.L459V	ENST00000375001	10/42	35	29	6	40	40	0	COL15A1,missense_variant,p.Leu459Val,ENST00000375001,;	G	ENSG00000204291	ENST00000375001	Transcript	missense_variant	1798	1375	459	L/V	Tta/Gta	.	.	.	1	COL15A1	HGNC	2192	protein_coding	YES	CCDS35081.1	ENSP00000364140	COFA1_HUMAN	.	UPI0000211506	.	tolerated_low_confidence(0.3)	benign(0.002)	10/42	.	hmmpanther:PTHR24023:SF398,hmmpanther:PTHR24023	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTTTAACA	.	5	BLCA
PTPN3	0	.	GRCh37	9	112151535	112151535	+	Missense_Mutation	SNP	G	G	A	rs750440450	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2231C>T	p.Thr744Met	p.T744M	ENST00000374541	22/26	48	25	23	44	44	0	PTPN3,missense_variant,p.Thr568Met,ENST00000446349,;PTPN3,missense_variant,p.Thr613Met,ENST00000412145,;PTPN3,missense_variant,p.Thr212Met,ENST00000394827,;PTPN3,missense_variant,p.Thr590Met,ENST00000262539,;PTPN3,missense_variant,p.Thr744Met,ENST00000374541,;PTPN3,non_coding_transcript_exon_variant,,ENST00000497739,;	A	ENSG00000070159	ENST00000374541	Transcript	missense_variant	2336	2231	744	T/M	aCg/aTg	rs750440450,COSM1222549	.	.	-1	PTPN3	HGNC	9655	protein_coding	YES	CCDS6776.1	ENSP00000363667	PTN3_HUMAN	B7Z8K9_HUMAN	UPI000013D2D2	.	deleterious(0)	probably_damaging(1)	22/26	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134:SF248,hmmpanther:PTHR19134,Gene3D:3.90.190.10,Pfam_domain:PF00102,SMART_domains:SM00194,PIRSF_domain:PIRSF000927,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTCGTCAAC	.	5	BLCA
PALM2-AKAP2	0	.	GRCh37	9	112778290	112778290	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553G>A	p.Glu185Lys	p.E185K	ENST00000374530	7/11	23	14	9	29	29	0	PALM2-AKAP2,missense_variant,p.Glu185Lys,ENST00000374530,;PALM2-AKAP2,missense_variant,p.Glu185Lys,ENST00000302798,;AKAP2,missense_variant,p.Glu185Lys,ENST00000510514,;AKAP2,missense_variant,p.Glu185Lys,ENST00000555236,;PALM2-AKAP2,missense_variant,p.Glu417Lys,ENST00000413420,;	A	ENSG00000157654	ENST00000374530	Transcript	missense_variant	733	553	185	E/K	Gaa/Aaa	COSM3652770	.	.	1	PALM2-AKAP2	HGNC	33529	protein_coding	YES	CCDS35100.1	ENSP00000363654	.	.	UPI0000125755	.	tolerated(0.15)	benign(0.223)	7/11	.	hmmpanther:PTHR10498,hmmpanther:PTHR10498:SF10	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCACAGAAACA	.	5	BLCA
PRPF4	0	.	GRCh37	9	116053819	116053819	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1448C>T	p.Ser483Phe	p.S483F	ENST00000374198	14/14	49	23	26	59	59	0	PRPF4,missense_variant,p.Ser483Phe,ENST00000374198,;PRPF4,missense_variant,p.Ser482Phe,ENST00000374199,;	T	ENSG00000136875	ENST00000374198	Transcript	missense_variant	1550	1448	483	S/F	tCc/tTc	.	.	.	1	PRPF4	HGNC	17349	protein_coding	YES	CCDS6791.1	ENSP00000363313	PRP4_HUMAN	.	UPI0000132340	.	tolerated(0.27)	benign(0.025)	14/14	.	PROSITE_profiles:PS50294,hmmpanther:PTHR19846,Gene3D:2.130.10.10,Pfam_domain:PF00400,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGTCCCCGC	.	5	BLCA
CNTRL	0	.	GRCh37	9	123852642	123852642	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307C>G	p.Leu103Val	p.L103V	ENST00000373855	4/44	78	47	31	76	76	0	CNTRL,missense_variant,p.Leu103Val,ENST00000373855,;CNTRL,missense_variant,p.Leu103Val,ENST00000373865,;CNTRL,missense_variant,p.Leu103Val,ENST00000238341,;	G	ENSG00000119397	ENST00000373855	Transcript	missense_variant	567	307	103	L/V	Ctg/Gtg	.	.	.	1	CNTRL	HGNC	1858	protein_coding	YES	CCDS35118.1	ENSP00000362962	CNTRL_HUMAN	Q5JVD3_HUMAN,Q5JVD6_HUMAN,Q5JVD1_HUMAN	UPI0000211718	.	.	probably_damaging(0.998)	4/44	.	hmmpanther:PTHR18877,hmmpanther:PTHR18877:SF1,Gene3D:3.80.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCTGAAC	.	5	BLCA
MAPKAP1	0	.	GRCh37	9	128201227	128201227	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1508G>C	p.Arg503Thr	p.R503T	ENST00000265960	12/12	113	51	62	110	110	0	MAPKAP1,missense_variant,p.Arg311Thr,ENST00000373503,;MAPKAP1,missense_variant,p.Arg503Thr,ENST00000373498,;MAPKAP1,missense_variant,p.Arg311Thr,ENST00000394063,;MAPKAP1,missense_variant,p.Arg75Thr,ENST00000444226,;MAPKAP1,missense_variant,p.Arg467Thr,ENST00000350766,;MAPKAP1,missense_variant,p.Arg503Thr,ENST00000265960,;MAPKAP1,missense_variant,p.Arg456Thr,ENST00000373511,;MAPKAP1,missense_variant,p.Arg216Thr,ENST00000373497,;MAPKAP1,non_coding_transcript_exon_variant,,ENST00000483937,;MAPKAP1,non_coding_transcript_exon_variant,,ENST00000496658,;MAPKAP1,non_coding_transcript_exon_variant,,ENST00000496063,;MAPKAP1,3_prime_UTR_variant,,ENST00000497932,;	G	ENSG00000119487	ENST00000265960	Transcript	missense_variant	1841	1508	503	R/T	aGa/aCa	.	.	.	-1	MAPKAP1	HGNC	18752	protein_coding	YES	CCDS35140.1	ENSP00000265960	SIN1_HUMAN	B1AMB1_HUMAN,B1AMA6_HUMAN	UPI00000372F6	.	deleterious(0)	benign(0.309)	12/12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTTTGT	.	5	BLCA
AIF1L	0	.	GRCh37	9	133989974	133989974	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249G>A	p.Met83Ile	p.M83I	ENST00000372309	5/7	123	116	7	124	124	0	AIF1L,start_lost,p.Met1?,ENST00000372301,;AIF1L,start_lost,p.Met1?,ENST00000372297,;AIF1L,missense_variant,p.Met83Ile,ENST00000372309,;AIF1L,missense_variant,p.Met57Ile,ENST00000372298,;AIF1L,missense_variant,p.Met57Ile,ENST00000372302,;AIF1L,missense_variant,p.Met57Ile,ENST00000247291,;AIF1L,missense_variant,p.Met62Ile,ENST00000372312,;AIF1L,missense_variant,p.Met57Ile,ENST00000372300,;AIF1L,downstream_gene_variant,,ENST00000472942,;AIF1L,3_prime_UTR_variant,,ENST00000372314,;AIF1L,downstream_gene_variant,,ENST00000478257,;	A	ENSG00000126878	ENST00000372309	Transcript	missense_variant	403	249	83	M/I	atG/atA	.	.	.	1	AIF1L	HGNC	28904	protein_coding	YES	CCDS55348.1	ENSP00000361383	AIF1L_HUMAN	A6PVM9_HUMAN	UPI00001C1012	.	deleterious(0.04)	benign(0.349)	5/7	.	PROSITE_profiles:PS50222,hmmpanther:PTHR10356,hmmpanther:PTHR10356:SF3,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACATGGAGTT	.	2	BLCA
EXD3	0	.	GRCh37	9	140267374	140267374	+	Missense_Mutation	SNP	C	C	G	rs756735695	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.445G>C	p.Glu149Gln	p.E149Q	ENST00000340951	5/22	45	42	3	45	45	0	EXD3,missense_variant,p.Glu149Gln,ENST00000340951,;EXD3,missense_variant,p.Glu149Gln,ENST00000479452,;EXD3,5_prime_UTR_variant,,ENST00000342129,;EXD3,non_coding_transcript_exon_variant,,ENST00000475006,;EXD3,non_coding_transcript_exon_variant,,ENST00000490886,;EXD3,3_prime_UTR_variant,,ENST00000460390,;	G	ENSG00000187609	ENST00000340951	Transcript	missense_variant	641	445	149	E/Q	Gag/Cag	rs756735695	.	.	-1	EXD3	HGNC	26023	protein_coding	YES	CCDS48066.1	ENSP00000340474	MUT7_HUMAN	E9PI94_HUMAN	UPI00003676BC	.	tolerated(0.35)	possibly_damaging(0.761)	5/22	.	hmmpanther:PTHR13620,hmmpanther:PTHR13620:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCGTGGT	.	2	BLCA
IFNW1	0	.	GRCh37	9	21141636	21141636	+	5'UTR	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-67G>A	.	.	ENST00000380229	1/1	16	9	7	24	24	0	IFNW1,5_prime_UTR_variant,,ENST00000380229,;	T	ENSG00000177047	ENST00000380229	Transcript	5_prime_UTR_variant	509	.	.	.	.	.	.	.	-1	IFNW1	HGNC	5448	protein_coding	YES	CCDS6496.1	ENSP00000369578	IFNW1_HUMAN	.	UPI000002C6DC	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTGAAG	.	5	BLCA
GLDC	0	.	GRCh37	9	6592150	6592150	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1475C>T	p.Ser492Leu	p.S492L	ENST00000321612	11/25	98	58	40	86	86	0	GLDC,missense_variant,p.Ser492Leu,ENST00000321612,;GLDC,non_coding_transcript_exon_variant,,ENST00000463305,;	A	ENSG00000178445	ENST00000321612	Transcript	missense_variant	1626	1475	492	S/L	tCa/tTa	.	.	.	-1	GLDC	HGNC	4313	protein_coding	YES	CCDS34987.1	ENSP00000370737	GCSP_HUMAN	.	UPI0000684276	.	tolerated(0.15)	possibly_damaging(0.711)	11/25	.	TIGRFAM_domain:TIGR00461,hmmpanther:PTHR11773,HAMAP:MF_00711	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATGACTCA	.	5	BLCA
TMEM2	0	.	GRCh37	9	74305039	74305039	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3820G>C	p.Glu1274Gln	p.E1274Q	ENST00000377044	22/24	150	87	62	141	141	0	TMEM2,missense_variant,p.Glu267Gln,ENST00000396272,;TMEM2,missense_variant,p.Glu1211Gln,ENST00000377066,;TMEM2,missense_variant,p.Glu1274Gln,ENST00000377044,;TMEM2,3_prime_UTR_variant,,ENST00000542935,;TMEM2,non_coding_transcript_exon_variant,,ENST00000377057,;TMEM2,upstream_gene_variant,,ENST00000538669,;	G	ENSG00000135048	ENST00000377044	Transcript	missense_variant	4360	3820	1274	E/Q	Gaa/Caa	.	.	.	-1	TMEM2	HGNC	11869	protein_coding	YES	CCDS6638.1	ENSP00000366243	TMEM2_HUMAN	F5H6B2_HUMAN,B4E1B9_HUMAN,B3KNL9_HUMAN	UPI0000071E8D	.	tolerated(0.27)	benign(0.09)	22/24	.	hmmpanther:PTHR15535,hmmpanther:PTHR15535:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCAATGC	.	5	BLCA
FGD3	0	.	GRCh37	9	95772611	95772611	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.921C>T	p.%3D	p.L307L	ENST00000375482	7/18	30	18	11	28	28	0	FGD3,synonymous_variant,p.%3D,ENST00000416701,;FGD3,synonymous_variant,p.%3D,ENST00000375482,;FGD3,synonymous_variant,p.%3D,ENST00000337352,;FGD3,upstream_gene_variant,,ENST00000538555,;FGD3,synonymous_variant,p.%3D,ENST00000467786,;	T	ENSG00000127084	ENST00000375482	Transcript	synonymous_variant	1417	921	307	L	ctC/ctT	.	.	.	1	FGD3	HGNC	16027	protein_coding	YES	CCDS43849.1	ENSP00000364631	FGD3_HUMAN	B4DXH4_HUMAN	UPI0000199249	.	.	.	7/18	.	PROSITE_profiles:PS50010,hmmpanther:PTHR12673:SF14,hmmpanther:PTHR12673,Pfam_domain:PF00621,Gene3D:1.20.900.10,SMART_domains:SM00325,Superfamily_domains:SSF48065	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTCAAGGA	.	5	BLCA
XKRX	0	.	GRCh37	X	100170026	100170026	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.651C>T	p.%3D	p.T217T	ENST00000372956	3/3	52	47	4	70	70	0	XKRX,missense_variant,p.Pro128Ser,ENST00000468904,;XKRX,synonymous_variant,p.%3D,ENST00000328526,;XKRX,synonymous_variant,p.%3D,ENST00000372956,;LL0XNC01-131B10.2,downstream_gene_variant,,ENST00000447373,;	A	ENSG00000182489	ENST00000372956	Transcript	synonymous_variant	1256	651	217	T	acC/acT	.	.	.	-1	XKRX	HGNC	29845	protein_coding	YES	CCDS14476.2	ENSP00000362047	XKR2_HUMAN	.	UPI00001A7F30	.	.	.	3/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14297:SF4,hmmpanther:PTHR14297,Pfam_domain:PF09815	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAAAGGGTGGC	.	3	BLCA
MORC4	0	.	GRCh37	X	106186370	106186370	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1751C>G	p.Thr584Arg	p.T584R	ENST00000355610	15/17	137	127	10	145	145	0	MORC4,missense_variant,p.Thr332Arg,ENST00000535534,;MORC4,missense_variant,p.Thr584Arg,ENST00000255495,;MORC4,missense_variant,p.Thr584Arg,ENST00000355610,;MORC4,intron_variant,,ENST00000604604,;MORC4,upstream_gene_variant,,ENST00000478924,;	C	ENSG00000133131	ENST00000355610	Transcript	missense_variant	2026	1751	584	T/R	aCa/aGa	.	.	.	-1	MORC4	HGNC	23485	protein_coding	YES	CCDS14525.2	ENSP00000347821	MORC4_HUMAN	.	UPI00003E75D3	.	tolerated(0.11)	benign(0.077)	15/17	.	hmmpanther:PTHR23336,hmmpanther:PTHR23336:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGTTGTCATC	.	2	BLCA
WDR44	0	.	GRCh37	X	117576206	117576206	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2167-1G>T	.	p.X723_splice	ENST00000254029	.	93	84	8	104	104	0	WDR44,splice_acceptor_variant,,ENST00000371822,;WDR44,splice_acceptor_variant,,ENST00000371825,;WDR44,splice_acceptor_variant,,ENST00000371848,;WDR44,splice_acceptor_variant,,ENST00000254029,;	T	ENSG00000131725	ENST00000254029	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	WDR44	HGNC	30512	protein_coding	YES	CCDS14572.1	ENSP00000254029	WDR44_HUMAN	B7Z947_HUMAN	UPI000013CE0C	.	.	.	.	15/19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTTTAGCATTT	.	3	BLCA
STAG2	0	.	GRCh37	X	123171472	123171480	+	Splice_Site	DEL	AGGTAAGAT	AGGTAAGAT	-	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	AGGTAAGAT	AGGTAAGAT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.385_385+8delGGTAAGATA	.	p.X129_splice	ENST00000218089	6/35	88	80	8	75	75	0	STAG2,splice_donor_variant,,ENST00000435215,;STAG2,splice_donor_variant,,ENST00000371160,;STAG2,splice_donor_variant,,ENST00000354548,;STAG2,splice_donor_variant,,ENST00000371157,;STAG2,splice_donor_variant,,ENST00000371144,;STAG2,splice_donor_variant,,ENST00000428941,;STAG2,splice_donor_variant,,ENST00000435103,;STAG2,splice_donor_variant,,ENST00000455404,;STAG2,splice_donor_variant,,ENST00000218089,;STAG2,splice_donor_variant,,ENST00000371145,;STAG2,downstream_gene_variant,,ENST00000394478,;STAG2,intron_variant,,ENST00000483575,;STAG2,intron_variant,,ENST00000466748,;STAG2,intron_variant,,ENST00000471107,;STAG2,intron_variant,,ENST00000469481,;STAG2,splice_donor_variant,,ENST00000458176,;	-	ENSG00000101972	ENST00000218089	Transcript	splice_donor_variant	894-?	384-?	128-?	.	.	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	.	.	6/35	6/34	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	CTGTAAAGGTAAGATATATT	.	2	BLCA
ENOX2	0	.	GRCh37	X	129759170	129759170	+	3'UTR	SNP	A	A	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*118T>A	.	.	ENST00000338144	16/16	16	13	3	23	23	0	ENOX2,3_prime_UTR_variant,,ENST00000370927,;ENOX2,3_prime_UTR_variant,,ENST00000338144,;ENOX2,3_prime_UTR_variant,,ENST00000394363,;ENOX2,3_prime_UTR_variant,,ENST00000370935,;	T	ENSG00000165675	ENST00000338144	Transcript	3_prime_UTR_variant	2369	.	.	.	.	.	.	.	-1	ENOX2	HGNC	2259	protein_coding	YES	CCDS14626.1	ENSP00000337146	ENOX2_HUMAN	B1AKF7_HUMAN	UPI00000729D5	.	.	.	16/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGGAATGAA	.	2	BLCA
F8	0	.	GRCh37	X	154176073	154176073	+	Silent	SNP	G	G	A	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2013C>T	p.%3D	p.F671F	ENST00000360256	13/26	86	70	16	110	110	0	F8,synonymous_variant,p.%3D,ENST00000360256,;	A	ENSG00000185010	ENST00000360256	Transcript	synonymous_variant	2214	2013	671	F	ttC/ttT	CM0910969	.	.	-1	F8	HGNC	3546	protein_coding	YES	CCDS35457.1	ENSP00000353393	FA8_HUMAN	Q9UQQ5_HUMAN,Q71UI6_HUMAN,Q2VF45_HUMAN,Q003V9_HUMAN,Q003V5_HUMAN,A0FJ19_HUMAN,A0A2G6_HUMAN	UPI000012A416	.	.	.	13/26	.	hmmpanther:PTHR10127:SF50,hmmpanther:PTHR10127,Gene3D:2.60.40.420,PIRSF_domain:PIRSF000354,Superfamily_domains:SSF49503	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAAGAC	.	5	BLCA
ACE2	0	.	GRCh37	X	15610443	15610443	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.348G>C	p.Leu116Phe	p.L116F	ENST00000427411	4/19	109	85	24	121	121	0	ACE2,missense_variant,p.Leu116Phe,ENST00000427411,;ACE2,missense_variant,p.Leu116Phe,ENST00000252519,;ACE2,downstream_gene_variant,,ENST00000484756,;	G	ENSG00000130234	ENST00000427411	Transcript	missense_variant	565	348	116	L/F	ttG/ttC	COSM3560045	.	.	-1	ACE2	HGNC	13557	protein_coding	YES	CCDS14169.1	ENSP00000389326	ACE2_HUMAN	.	UPI000000D907	.	deleterious(0.04)	possibly_damaging(0.666)	4/19	.	hmmpanther:PTHR10514:SF24,hmmpanther:PTHR10514,Pfam_domain:PF01401,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTTCAACTG	.	5	BLCA
BEND2	0	.	GRCh37	X	18234766	18234766	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.113C>G	p.Ser38Cys	p.S38C	ENST00000380033	2/14	49	38	11	65	65	0	BEND2,missense_variant,p.Ser38Cys,ENST00000380030,;BEND2,missense_variant,p.Ser38Cys,ENST00000380033,;	C	ENSG00000177324	ENST00000380033	Transcript	missense_variant	246	113	38	S/C	tCc/tGc	.	.	.	-1	BEND2	HGNC	28509	protein_coding	YES	CCDS14184.1	ENSP00000369372	BEND2_HUMAN	.	UPI000013FE0F	.	deleterious_low_confidence(0.02)	benign(0.237)	2/14	.	hmmpanther:PTHR16213,hmmpanther:PTHR16213:SF44	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGTGGAATTA	.	5	BLCA
EIF2S3	0	.	GRCh37	X	24086096	24086096	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.883G>A	p.Glu295Lys	p.E295K	ENST00000253039	9/12	113	98	15	154	154	0	EIF2S3,missense_variant,p.Glu295Lys,ENST00000253039,;EIF2S3,upstream_gene_variant,,ENST00000460032,;	A	ENSG00000130741	ENST00000253039	Transcript	missense_variant	1136	883	295	E/K	Gaa/Aaa	.	.	.	1	EIF2S3	HGNC	3267	protein_coding	YES	CCDS14210.1	ENSP00000253039	IF2G_HUMAN	.	UPI0000163BD6	.	deleterious(0)	possibly_damaging(0.69)	9/12	.	hmmpanther:PTHR23115,hmmpanther:PTHR23115:SF94,Pfam_domain:PF03144,Gene3D:2.40.30.10,Superfamily_domains:SSF50447	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGATAGAAGTA	.	4	BLCA
ARSD	0	.	GRCh37	X	2827914	2827914	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1242G>C	p.%3D	p.L414L	ENST00000381154	8/10	39	31	7	60	60	0	ARSD,synonymous_variant,p.%3D,ENST00000458014,;ARSD,synonymous_variant,p.%3D,ENST00000381154,;ARSD-AS1,downstream_gene_variant,,ENST00000414053,;ARSD,intron_variant,,ENST00000495294,;ARSD,downstream_gene_variant,,ENST00000217890,;ARSD,downstream_gene_variant,,ENST00000481340,;	G	ENSG00000006756	ENST00000381154	Transcript	synonymous_variant	1318	1242	414	L	ctG/ctC	.	.	.	-1	ARSD	HGNC	717	protein_coding	YES	CCDS35196.1	ENSP00000370546	ARSD_HUMAN	.	UPI0000070902	.	.	.	8/10	.	Superfamily_domains:SSF53649,Pfam_domain:PF00884,Gene3D:3.40.720.10,hmmpanther:PTHR10342,hmmpanther:PTHR10342:SF200	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCAGGCT	.	5	BLCA
BCOR	0	.	GRCh37	X	39922007	39922007	+	Missense_Mutation	SNP	C	C	T	rs760406187	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4165G>A	p.Asp1389Asn	p.D1389N	ENST00000378444	9/15	32	23	9	45	45	0	BCOR,missense_variant,p.Asp1355Asn,ENST00000397354,;BCOR,missense_variant,p.Asp62Asn,ENST00000442018,;BCOR,missense_variant,p.Asp1389Asn,ENST00000378444,;BCOR,missense_variant,p.Asp232Asn,ENST00000378463,;BCOR,missense_variant,p.Asp84Asn,ENST00000427012,;BCOR,missense_variant,p.Asp1337Asn,ENST00000378455,;BCOR,missense_variant,p.Asp259Asn,ENST00000413905,;BCOR,missense_variant,p.Asp1355Asn,ENST00000342274,;BCOR,downstream_gene_variant,,ENST00000406200,;	T	ENSG00000183337	ENST00000378444	Transcript	missense_variant	4394	4165	1389	D/N	Gat/Aat	rs760406187	.	.	-1	BCOR	HGNC	20893	protein_coding	YES	CCDS48093.1	ENSP00000367705	BCOR_HUMAN	H9A532_HUMAN,H7BZ37_HUMAN,C9JHP3_HUMAN,B3KTC2_HUMAN	UPI00002318CF	.	tolerated(0.09)	probably_damaging(0.996)	9/15	.	hmmpanther:PTHR24117,hmmpanther:PTHR24117:SF8	T:0.0003	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCATCGGCAT	byCluster|by1000G	4	BLCA
KDM6A	0	.	GRCh37	X	44922802	44922802	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1663C>T	p.Gln555Ter	p.Q555*	ENST00000377967	16/29	30	26	4	54	54	0	KDM6A,stop_gained,p.Gln198Ter,ENST00000433797,;KDM6A,stop_gained,p.Gln153Ter,ENST00000414389,;KDM6A,stop_gained,p.Gln185Ter,ENST00000451692,;KDM6A,stop_gained,p.Gln476Ter,ENST00000543216,;KDM6A,stop_gained,p.Gln562Ter,ENST00000382899,;KDM6A,stop_gained,p.Gln555Ter,ENST00000377967,;KDM6A,stop_gained,p.Gln510Ter,ENST00000536777,;	T	ENSG00000147050	ENST00000377967	Transcript	stop_gained	1704	1663	555	Q/*	Cag/Tag	COSM255017,COSM4005103,COSM4005104	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	16/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.Q555*|c.1663C>T|6,CODON|p.0?|c.1_4206del4206|5	MUTECT|MUSE	TCTCTCAGCCT	.	2	BLCA
KDM6A	0	.	GRCh37	X	44929487	44929487	+	Nonsense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2587C>T	p.Gln863Ter	p.Q863*	ENST00000377967	17/29	24	19	5	33	33	0	KDM6A,stop_gained,p.Gln506Ter,ENST00000433797,;KDM6A,stop_gained,p.Gln461Ter,ENST00000414389,;KDM6A,stop_gained,p.Gln784Ter,ENST00000543216,;KDM6A,stop_gained,p.Gln870Ter,ENST00000382899,;KDM6A,stop_gained,p.Gln863Ter,ENST00000377967,;KDM6A,stop_gained,p.Gln818Ter,ENST00000536777,;	T	ENSG00000147050	ENST00000377967	Transcript	stop_gained	2628	2587	863	Q/*	Cag/Tag	COSM28785	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	17/29	.	hmmpanther:PTHR14017:SF9,hmmpanther:PTHR14017	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_4206del4206|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATCTCAGAGC	.	5	BLCA
RLIM	0	.	GRCh37	X	73812302	73812302	+	Missense_Mutation	SNP	C	C	T	rs775262415	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.848G>A	p.Arg283Lys	p.R283K	ENST00000332687	4/4	77	66	11	94	94	0	RLIM,missense_variant,p.Arg283Lys,ENST00000349225,;RLIM,missense_variant,p.Arg283Lys,ENST00000332687,;	T	ENSG00000131263	ENST00000332687	Transcript	missense_variant	1067	848	283	R/K	aGa/aAa	rs775262415	.	.	-1	RLIM	HGNC	13429	protein_coding	YES	CCDS14427.1	ENSP00000328059	RNF12_HUMAN	.	UPI000006FD6A	.	tolerated(0.14)	unknown(0)	4/4	.	hmmpanther:PTHR14155:SF3,hmmpanther:PTHR14155	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTCTACTT	byFrequency	4	BLCA
FAM46D	0	.	GRCh37	X	79698075	79698075	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.37C>T	p.Gln13Ter	p.Q13*	ENST00000538312	5/5	37	32	5	27	27	0	FAM46D,stop_gained,p.Gln13Ter,ENST00000308293,;FAM46D,stop_gained,p.Gln13Ter,ENST00000538312,;	T	ENSG00000174016	ENST00000538312	Transcript	stop_gained	371	37	13	Q/*	Caa/Taa	.	.	.	1	FAM46D	HGNC	28399	protein_coding	YES	CCDS14446.1	ENSP00000443410	FA46D_HUMAN	.	UPI0000073CF3	.	.	.	5/5	.	Pfam_domain:PF07984,hmmpanther:PTHR12974:SF30,hmmpanther:PTHR12974	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGATCAAGTT	.	4	BLCA
CHM	0	.	GRCh37	X	85218981	85218981	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.391A>T	p.Thr131Ser	p.T131S	ENST00000357749	5/15	67	52	15	94	93	0	CHM,missense_variant,p.Thr131Ser,ENST00000357749,;CHM,5_prime_UTR_variant,,ENST00000537751,;CHM,intron_variant,,ENST00000467744,;	A	ENSG00000188419	ENST00000357749	Transcript	missense_variant	421	391	131	T/S	Aca/Tca	.	.	.	-1	CHM	HGNC	1940	protein_coding	YES	CCDS14454.1	ENSP00000350386	RAE1_HUMAN	B4DRL9_HUMAN	UPI0000049C8C	.	tolerated(0.52)	benign(0.003)	5/15	.	hmmpanther:PTHR11787,hmmpanther:PTHR11787:SF7,PIRSF_domain:PIRSF016550,Superfamily_domains:SSF51905,Prints_domain:PR00893	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TTCTGTGGAGT	.	4	BLCA
PCDH19	0	.	GRCh37	X	99662162	99662162	+	Silent	SNP	G	G	A	rs137962077	.	TCGA-ZF-A9RG-01A-21D-A42E-08	TCGA-ZF-A9RG-10A-01D-A42H-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1434C>T	p.%3D	p.R478R	ENST00000373034	1/6	44	38	6	72	72	0	PCDH19,synonymous_variant,p.%3D,ENST00000420881,;PCDH19,synonymous_variant,p.%3D,ENST00000255531,;PCDH19,synonymous_variant,p.%3D,ENST00000373034,;	A	ENSG00000165194	ENST00000373034	Transcript	synonymous_variant	3110	1434	478	R	cgC/cgT	rs137962077	.	.	-1	PCDH19	HGNC	14270	protein_coding	YES	CCDS55462.1	ENSP00000362125	PCD19_HUMAN	.	UPI00001D7BCD	.	.	.	1/6	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF40,Gene3D:2.60.40.60,Pfam_domain:PF00028,SMART_domains:SM00112,Superfamily_domains:SSF49313	A:0.0013	A:0.003	A:0	.	A:0	A:0.001	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGTCGCGAGC	byFrequency|byCluster|by1000G	4	BLCA
TAF5	0	.	GRCh37	10	105139367	105139368	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1122dupT	p.Gly375TrpfsTer9	p.G375Wfs*9	ENST00000369839	4/11	41	32	9	40	40	0	TAF5,frameshift_variant,p.Gly375TrpfsTer9,ENST00000351396,;TAF5,frameshift_variant,p.Gly375TrpfsTer9,ENST00000369839,;	T	ENSG00000148835	ENST00000369839	Transcript	frameshift_variant	1139-1140	1116-1117	372-373	-/X	-/T	.	.	.	1	TAF5	HGNC	11539	protein_coding	YES	CCDS7547.1	ENSP00000358854	TAF5_HUMAN	.	UPI000013DB5B	.	.	.	4/11	.	hmmpanther:PTHR19879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TAGGTATTTTT	.	3	BLCA
OBFC1	0	.	GRCh37	10	105657467	105657467	+	Missense_Mutation	SNP	C	C	T	rs139991163	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592G>A	p.Ala198Thr	p.A198T	ENST00000224950	7/10	71	65	6	82	82	0	OBFC1,missense_variant,p.Ala198Thr,ENST00000224950,;OBFC1,missense_variant,p.Ala198Thr,ENST00000369764,;OBFC1,non_coding_transcript_exon_variant,,ENST00000466828,;OBFC1,non_coding_transcript_exon_variant,,ENST00000472951,;	T	ENSG00000107960	ENST00000224950	Transcript	missense_variant	760	592	198	A/T	Gcc/Acc	rs139991163	.	.	-1	OBFC1	HGNC	26200	protein_coding	YES	CCDS7552.1	ENSP00000224950	STN1_HUMAN	.	UPI000013C85A	.	tolerated(0.72)	benign(0.004)	7/10	.	hmmpanther:PTHR13989:SF11,hmmpanther:PTHR13989,Pfam_domain:PF09170,PIRSF_domain:PIRSF036950,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGGGCGCCTG	byCluster	3	BLCA
ITPRIP	0	.	GRCh37	10	106075602	106075602	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.208G>C	p.Glu70Gln	p.E70Q	ENST00000278071	3/3	81	71	10	106	106	0	ITPRIP,missense_variant,p.Glu70Gln,ENST00000337478,;ITPRIP,missense_variant,p.Glu70Gln,ENST00000358187,;ITPRIP,missense_variant,p.Glu70Gln,ENST00000458723,;ITPRIP,missense_variant,p.Glu70Gln,ENST00000278071,;RP11-127L20.5,downstream_gene_variant,,ENST00000472915,;	G	ENSG00000148841	ENST00000278071	Transcript	missense_variant	661	208	70	E/Q	Gag/Cag	.	.	.	-1	ITPRIP	HGNC	29370	protein_coding	YES	CCDS7557.1	ENSP00000278071	IPRI_HUMAN	.	UPI0000074521	.	tolerated(0.08)	benign(0.035)	3/3	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10656:SF8,hmmpanther:PTHR10656	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTCCAGTG	.	4	BLCA
C10orf120	0	.	GRCh37	10	124457563	124457563	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694G>C	p.Glu232Gln	p.E232Q	ENST00000329446	3/3	45	29	15	74	74	0	C10orf120,missense_variant,p.Glu232Gln,ENST00000329446,;C10orf120,intron_variant,,ENST00000432000,;	G	ENSG00000183559	ENST00000329446	Transcript	missense_variant	726	694	232	E/Q	Gag/Cag	.	.	.	-1	C10orf120	HGNC	25707	protein_coding	YES	CCDS31302.1	ENSP00000331012	CJ120_HUMAN	.	UPI00001F89D1	.	tolerated(0.08)	possibly_damaging(0.9)	3/3	.	hmmpanther:PTHR23231:SF14,hmmpanther:PTHR23231	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTCTGCCT	.	5	BLCA
DOCK1	0	.	GRCh37	10	128817063	128817063	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1228G>A	p.Ala410Thr	p.A410T	ENST00000280333	13/52	24	19	5	43	43	0	DOCK1,missense_variant,p.Ala410Thr,ENST00000280333,;RP11-223P11.3,intron_variant,,ENST00000599979,;RP11-223P11.3,intron_variant,,ENST00000601826,;RP11-223P11.3,intron_variant,,ENST00000595456,;RP11-223P11.2,intron_variant,,ENST00000420941,;RP11-223P11.3,intron_variant,,ENST00000594559,;RP11-223P11.3,intron_variant,,ENST00000594614,;RP11-223P11.3,intron_variant,,ENST00000601242,;	A	ENSG00000150760	ENST00000280333	Transcript	missense_variant	1337	1228	410	A/T	Gct/Act	.	.	.	1	DOCK1	HGNC	2987	protein_coding	YES	.	ENSP00000280333	DOCK1_HUMAN	.	UPI0000246CA1	.	deleterious(0)	possibly_damaging(0.483)	13/52	.	hmmpanther:PTHR23317,hmmpanther:PTHR23317:SF79	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTGGCTCGA	.	5	BLCA
MKI67	0	.	GRCh37	10	129921190	129921190	+	Missense_Mutation	SNP	C	C	T	rs781387369	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.242G>A	p.Arg81Gln	p.R81Q	ENST00000368654	4/15	67	60	7	77	77	0	MKI67,missense_variant,p.Arg81Gln,ENST00000368654,;MKI67,missense_variant,p.Arg81Gln,ENST00000368653,;MKI67,intron_variant,,ENST00000478293,;	T	ENSG00000148773	ENST00000368654	Transcript	missense_variant	618	242	81	R/Q	cGg/cAg	rs781387369	.	.	-1	MKI67	HGNC	7107	protein_coding	YES	CCDS7659.1	ENSP00000357643	KI67_HUMAN	.	UPI000013DB54	.	tolerated(1)	benign(0.001)	4/15	.	hmmpanther:PTHR21603,hmmpanther:PTHR21603:SF3,Pfam_domain:PF00498,Gene3D:2.60.200.20,Superfamily_domains:SSF49879	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TTAGCCGTACA	byFrequency	3	BLCA
KIF5B	0	.	GRCh37	10	32323666	32323666	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1063C>T	p.Arg355Trp	p.R355W	ENST00000302418	11/26	73	67	6	97	97	0	KIF5B,missense_variant,p.Arg355Trp,ENST00000302418,;	A	ENSG00000170759	ENST00000302418	Transcript	missense_variant	1521	1063	355	R/W	Cgg/Tgg	.	.	.	-1	KIF5B	HGNC	6324	protein_coding	YES	CCDS7171.1	ENSP00000307078	KINH_HUMAN	A8K048_HUMAN	UPI000012DE68	.	deleterious(0)	possibly_damaging(0.811)	11/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF380,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTCCGCAGGA	.	2	BLCA
ZNF25	0	.	GRCh37	10	38242099	38242099	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.327G>C	p.Gln109His	p.Q109H	ENST00000302609	6/6	69	57	12	113	113	0	ZNF25,missense_variant,p.Gln109His,ENST00000302609,;AL117337.1,downstream_gene_variant,,ENST00000582458,;ZNF25,non_coding_transcript_exon_variant,,ENST00000374633,;ZNF25,non_coding_transcript_exon_variant,,ENST00000467975,;	G	ENSG00000175395	ENST00000302609	Transcript	missense_variant	540	327	109	Q/H	caG/caC	.	.	.	-1	ZNF25	HGNC	13043	protein_coding	YES	CCDS7195.1	ENSP00000302222	ZNF25_HUMAN	B1AKS7_HUMAN	UPI0000071FFD	.	tolerated(0.05)	benign(0.331)	6/6	.	hmmpanther:PTHR24381,hmmpanther:PTHR24381:SF62,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTTCTGATG	.	5	BLCA
BMS1	0	.	GRCh37	10	43292282	43292282	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1590C>T	p.%3D	p.C530C	ENST00000374518	10/23	45	39	6	77	77	0	BMS1,synonymous_variant,p.%3D,ENST00000374518,;	T	ENSG00000165733	ENST00000374518	Transcript	synonymous_variant	1653	1590	530	C	tgC/tgT	.	.	.	1	BMS1	HGNC	23505	protein_coding	YES	CCDS7199.1	ENSP00000363642	BMS1_HUMAN	.	UPI0000126A3E	.	.	.	10/23	.	hmmpanther:PTHR12858:SF2,hmmpanther:PTHR12858	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTGCACTGC	.	4	BLCA
ERCC6	0	.	GRCh37	10	50667018	50667018	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4325A>T	p.Asp1442Val	p.D1442V	ENST00000355832	21/21	88	75	13	91	91	0	ERCC6,missense_variant,p.Asp812Val,ENST00000542458,;ERCC6,missense_variant,p.Asp1442Val,ENST00000355832,;RP11-123B3.2,intron_variant,,ENST00000423283,;ERCC6,downstream_gene_variant,,ENST00000465653,;	A	ENSG00000225830	ENST00000355832	Transcript	missense_variant	4404	4325	1442	D/V	gAt/gTt	.	.	.	-1	ERCC6	HGNC	3438	protein_coding	YES	CCDS7229.1	ENSP00000348089	ERCC6_HUMAN	F5H493_HUMAN,D6R9X7_HUMAN	UPI000000D8DA	.	deleterious(0)	probably_damaging(0.996)	21/21	.	hmmpanther:PTHR10799:SF49,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCATCAGTG	.	4	BLCA
SLC18A3	0	.	GRCh37	10	50820304	50820304	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1518C>T	p.%3D	p.G506G	ENST00000374115	1/1	87	81	6	105	105	0	SLC18A3,synonymous_variant,p.%3D,ENST00000374115,;CHAT,intron_variant,,ENST00000339797,;CHAT,upstream_gene_variant,,ENST00000395562,;CHAT,upstream_gene_variant,,ENST00000395559,;CHAT,upstream_gene_variant,,ENST00000455728,;CHAT,upstream_gene_variant,,ENST00000337653,;CHAT,upstream_gene_variant,,ENST00000351556,;CHAT,upstream_gene_variant,,ENST00000481336,;CHAT,upstream_gene_variant,,ENST00000460699,;CHAT,upstream_gene_variant,,ENST00000490270,;CHAT,upstream_gene_variant,,ENST00000466590,;	T	ENSG00000187714	ENST00000374115	Transcript	synonymous_variant	1958	1518	506	G	ggC/ggT	.	.	.	1	SLC18A3	HGNC	10936	protein_coding	YES	CCDS7231.1	ENSP00000363229	VACHT_HUMAN	.	UPI00001F98C1	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGGCCAGGA	.	2	BLCA
ASAH2	0	.	GRCh37	10	52003077	52003077	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.395G>A	p.Gly132Asp	p.G132D	ENST00000395526	3/20	72	64	7	96	96	0	ASAH2,missense_variant,p.Gly113Asp,ENST00000329428,;ASAH2,missense_variant,p.Gly132Asp,ENST00000447815,;ASAH2,missense_variant,p.Gly132Asp,ENST00000395526,;ASAH2,upstream_gene_variant,,ENST00000443575,;	T	ENSG00000188611	ENST00000395526	Transcript	missense_variant	395	395	132	G/D	gGc/gAc	.	.	.	-1	ASAH2	HGNC	18860	protein_coding	YES	CCDS7239.2	ENSP00000378897	ASAH2_HUMAN	.	UPI00004042A7	.	deleterious(0)	probably_damaging(0.999)	3/20	.	hmmpanther:PTHR12670,Pfam_domain:PF04734	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGATGCCCTGT	.	4	BLCA
FBXO18	0	.	GRCh37	10	5951128	5951128	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044A>G	p.%3D	p.T348T	ENST00000379999	6/22	59	44	15	106	106	0	FBXO18,synonymous_variant,p.%3D,ENST00000362091,;FBXO18,synonymous_variant,p.%3D,ENST00000379999,;FBXO18,5_prime_UTR_variant,,ENST00000397269,;FBXO18,non_coding_transcript_exon_variant,,ENST00000470089,;FBXO18,non_coding_transcript_exon_variant,,ENST00000469009,;FBXO18,non_coding_transcript_exon_variant,,ENST00000494526,;FBXO18,downstream_gene_variant,,ENST00000462507,;	G	ENSG00000134452	ENST00000379999	Transcript	synonymous_variant	1148	1044	348	T	acA/acG	.	.	.	1	FBXO18	HGNC	13620	protein_coding	YES	CCDS7073.1	ENSP00000369335	FBX18_HUMAN	Q66K33_HUMAN,Q2TAK1_HUMAN	UPI000019AB6F	.	.	.	6/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACACAGCCAC	.	5	BLCA
EGR2	0	.	GRCh37	10	64572939	64572939	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*28C>T	.	.	ENST00000242480	2/2	74	64	9	88	88	0	EGR2,3_prime_UTR_variant,,ENST00000439032,;EGR2,3_prime_UTR_variant,,ENST00000242480,;EGR2,3_prime_UTR_variant,,ENST00000411732,;ADO,downstream_gene_variant,,ENST00000373783,;EGR2,downstream_gene_variant,,ENST00000493899,;	A	ENSG00000122877	ENST00000242480	Transcript	3_prime_UTR_variant	1785	.	.	.	.	.	.	.	-1	EGR2	HGNC	3239	protein_coding	YES	CCDS7267.1	ENSP00000242480	EGR2_HUMAN	.	UPI000013CB07	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTGGGAGCTG	.	4	BLCA
AIFM2	0	.	GRCh37	10	71876426	71876426	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.721C>G	p.Leu241Val	p.L241V	ENST00000307864	7/9	76	65	10	135	135	0	AIFM2,missense_variant,p.Leu241Val,ENST00000307864,;AIFM2,missense_variant,p.Leu241Val,ENST00000373248,;H2AFY2,downstream_gene_variant,,ENST00000373255,;AIFM2,non_coding_transcript_exon_variant,,ENST00000482166,;	C	ENSG00000042286	ENST00000307864	Transcript	missense_variant	935	721	241	L/V	Ctc/Gtc	.	.	.	-1	AIFM2	HGNC	21411	protein_coding	YES	CCDS7297.1	ENSP00000312370	AIFM2_HUMAN	.	UPI000003F07F	.	tolerated(1)	benign(0.002)	7/9	.	hmmpanther:PTHR22915:SF5,hmmpanther:PTHR22915,Gene3D:3.50.50.60,Pfam_domain:PF07992,Superfamily_domains:SSF51905	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGAATCA	.	5	BLCA
SPOCK2	0	.	GRCh37	10	73826744	73826744	+	Missense_Mutation	SNP	T	T	C	rs776337997	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.844A>G	p.Ile282Val	p.I282V	ENST00000373109	8/11	73	68	5	107	107	0	SPOCK2,missense_variant,p.Ile282Val,ENST00000373109,;SPOCK2,missense_variant,p.Ile282Val,ENST00000536168,;SPOCK2,missense_variant,p.Ile282Val,ENST00000317376,;SPOCK2,non_coding_transcript_exon_variant,,ENST00000460053,;SPOCK2,non_coding_transcript_exon_variant,,ENST00000463279,;SPOCK2,non_coding_transcript_exon_variant,,ENST00000469121,;	C	ENSG00000107742	ENST00000373109	Transcript	missense_variant	1289	844	282	I/V	Atc/Gtc	rs776337997	.	.	-1	SPOCK2	HGNC	13564	protein_coding	YES	CCDS7313.1	ENSP00000362201	TICN2_HUMAN	B4DFA9_HUMAN	UPI0000136F51	.	tolerated(0.15)	benign(0.394)	8/11	.	Superfamily_domains:SSF47473,Pfam_domain:PF10591,Gene3D:1.10.238.10,hmmpanther:PTHR12036:SF3,hmmpanther:PTHR12036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACGGATGCAGA	.	2	BLCA
ECD	0	.	GRCh37	10	74897807	74897807	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1542C>G	p.Ile514Met	p.I514M	ENST00000430082	13/15	37	30	7	44	44	0	ECD,missense_variant,p.Ile514Met,ENST00000430082,;ECD,missense_variant,p.Ile481Met,ENST00000372979,;ECD,missense_variant,p.Ile438Met,ENST00000454759,;ECD,upstream_gene_variant,,ENST00000494307,;ECD,3_prime_UTR_variant,,ENST00000484976,;	C	ENSG00000122882	ENST00000430082	Transcript	missense_variant	1754	1542	514	I/M	atC/atG	.	.	.	-1	ECD	HGNC	17029	protein_coding	YES	CCDS44434.1	ENSP00000401566	SGT1_HUMAN	C9J316_HUMAN	UPI000181CB29	.	deleterious(0)	possibly_damaging(0.629)	13/15	.	hmmpanther:PTHR13060,Pfam_domain:PF07093	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGTGATTGG	.	5	BLCA
GATA3	0	.	GRCh37	10	8115837	8115837	+	Missense_Mutation	SNP	G	G	A	rs200935603	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1186G>A	p.Ala396Thr	p.A396T	ENST00000379328	6/6	73	51	22	110	110	0	GATA3,missense_variant,p.Ala395Thr,ENST00000346208,;GATA3,missense_variant,p.Ala396Thr,ENST00000379328,;GATA3,non_coding_transcript_exon_variant,,ENST00000461472,;	A	ENSG00000107485	ENST00000379328	Transcript	missense_variant	1754	1186	396	A/T	Gcc/Acc	rs200935603,COSM1163766	.	.	1	GATA3	HGNC	4172	protein_coding	YES	CCDS31143.1	ENSP00000368632	GATA3_HUMAN	.	UPI000002AA34	.	tolerated(0.07)	benign(0.023)	6/6	.	hmmpanther:PTHR10071:SF106,hmmpanther:PTHR10071,PIRSF_domain:PIRSF003027	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	not_provided	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	SITE|p.A396T|c.1186G>A|5	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CGGCCGCCCTC	byCluster|by1000G	5	BLCA
LIPF	0	.	GRCh37	10	90438298	90438298	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1087C>T	p.Leu363Phe	p.L363F	ENST00000394375	11/11	115	97	17	174	174	0	LIPF,missense_variant,p.Leu353Phe,ENST00000238983,;LIPF,missense_variant,p.Leu330Phe,ENST00000355843,;LIPF,missense_variant,p.Leu320Phe,ENST00000608620,;LIPF,missense_variant,p.Leu363Phe,ENST00000394375,;LIPF,downstream_gene_variant,,ENST00000496797,;	T	ENSG00000182333	ENST00000394375	Transcript	missense_variant	1200	1087	363	L/F	Ctt/Ttt	.	.	.	1	LIPF	HGNC	6622	protein_coding	YES	CCDS55718.1	ENSP00000377900	LIPG_HUMAN	.	UPI0001E92A2A	.	tolerated(0.38)	benign(0.001)	11/11	.	hmmpanther:PTHR11005,hmmpanther:PTHR11005:SF25,Pfam_domain:PF00561,Gene3D:3.40.50.1820,PIRSF_domain:PIRSF000862,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGCCTTTTG	.	5	BLCA
LARP4B	0	.	GRCh37	10	909737	909737	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376G>A	p.Ala126Thr	p.A126T	ENST00000316157	4/17	97	73	24	137	137	0	LARP4B,missense_variant,p.Ala126Thr,ENST00000316157,;LARP4B,missense_variant,p.Ala126Thr,ENST00000406525,;LARP4B,downstream_gene_variant,,ENST00000412411,;LARP4B,downstream_gene_variant,,ENST00000481118,;LARP4B,3_prime_UTR_variant,,ENST00000476529,;	T	ENSG00000107929	ENST00000316157	Transcript	missense_variant	417	376	126	A/T	Gct/Act	.	.	.	-1	LARP4B	HGNC	28987	protein_coding	YES	CCDS31131.1	ENSP00000326128	LAR4B_HUMAN	B5MCU2_HUMAN	UPI00001F8C87	.	tolerated(0.8)	benign(0.001)	4/17	.	hmmpanther:PTHR22792,hmmpanther:PTHR22792:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAGCGTTCA	.	5	BLCA
PPP1R3C	0	.	GRCh37	10	93390004	93390004	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.634G>C	p.Asp212His	p.D212H	ENST00000238994	2/2	91	73	17	158	158	0	PPP1R3C,missense_variant,p.Asp212His,ENST00000238994,;	G	ENSG00000119938	ENST00000238994	Transcript	missense_variant	719	634	212	D/H	Gat/Cat	COSM3931163	.	.	-1	PPP1R3C	HGNC	9293	protein_coding	YES	CCDS7416.1	ENSP00000238994	PPR3C_HUMAN	B4DRR5_HUMAN	UPI000006EFF1	.	deleterious(0)	probably_damaging(0.974)	2/2	.	PROSITE_profiles:PS51159,hmmpanther:PTHR12307:SF4,hmmpanther:PTHR12307,Pfam_domain:PF03370,PIRSF_domain:PIRSF500813,PIRSF_domain:PIRSF038207	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTATCTGTGC	.	5	BLCA
BTAF1	0	.	GRCh37	10	93778679	93778679	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4850C>G	p.Ser1617Ter	p.S1617*	ENST00000265990	34/38	110	96	14	95	95	0	BTAF1,stop_gained,p.Ser445Ter,ENST00000544642,;BTAF1,stop_gained,p.Ser1617Ter,ENST00000265990,;	G	ENSG00000095564	ENST00000265990	Transcript	stop_gained	5158	4850	1617	S/*	tCa/tGa	COSM254573,COSM1297500	.	.	1	BTAF1	HGNC	17307	protein_coding	YES	CCDS7419.1	ENSP00000265990	BTAF1_HUMAN	Q8N6J1_HUMAN,Q2M1V9_HUMAN,B4E0W6_HUMAN	UPI0000136782	.	.	.	34/38	.	Superfamily_domains:SSF52540,Gene3D:3.40.50.300,hmmpanther:PTHR10799:SF225,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S1617*|c.4850C>G|3	RADIA|MUTECT|MUSE|VARSCANS	GCTCTCAGCTT	.	4	BLCA
IDE	0	.	GRCh37	10	94228654	94228654	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2302G>C	p.Glu768Gln	p.E768Q	ENST00000265986	19/25	35	28	7	40	40	0	IDE,missense_variant,p.Glu213Gln,ENST00000371581,;IDE,missense_variant,p.Glu768Gln,ENST00000265986,;IDE,non_coding_transcript_exon_variant,,ENST00000496903,;	G	ENSG00000119912	ENST00000265986	Transcript	missense_variant	2359	2302	768	E/Q	Gaa/Caa	.	.	.	-1	IDE	HGNC	5381	protein_coding	YES	CCDS7421.1	ENSP00000265986	IDE_HUMAN	.	UPI000013D6B6	.	deleterious(0.04)	benign(0.228)	19/25	.	Superfamily_domains:SSF63411,Pfam_domain:PF05193,Gene3D:3.30.830.10,hmmpanther:PTHR11851:SF85,hmmpanther:PTHR11851	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AACTTCTCTAT	.	3	BLCA
PDE6C	0	.	GRCh37	10	95372703	95372703	+	Missense_Mutation	SNP	G	G	A	rs557957487	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221G>A	p.Gly74Asp	p.G74D	ENST00000371447	1/22	43	37	5	50	50	0	PDE6C,missense_variant,p.Gly74Asp,ENST00000371447,;AL356214.1,downstream_gene_variant,,ENST00000408425,;	A	ENSG00000095464	ENST00000371447	Transcript	missense_variant	359	221	74	G/D	gGc/gAc	rs557957487	.	.	1	PDE6C	HGNC	8787	protein_coding	YES	CCDS7429.1	ENSP00000360502	PDE6C_HUMAN	.	UPI000013C84A	.	tolerated(0.85)	benign(0.006)	1/22	.	hmmpanther:PTHR11347,hmmpanther:PTHR11347:SF23,Gene3D:3.30.450.40,Superfamily_domains:SSF55781	T:0.0004	T:0	T:0	.	T:0	T:0	T:0.002	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGGGGCACCC	byFrequency|by1000G	4	BLCA
BLNK	0	.	GRCh37	10	97960799	97960799	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.950delG	p.Gly317GlufsTer69	p.G317Efs*69	ENST00000224337	14/17	99	91	8	130	130	0	BLNK,frameshift_variant,p.Gly317GlufsTer98,ENST00000427367,;BLNK,frameshift_variant,p.Gly317GlufsTer69,ENST00000224337,;BLNK,frameshift_variant,p.Gly294GlufsTer69,ENST00000371176,;BLNK,frameshift_variant,p.Gly317GlufsTer81,ENST00000413476,;ZNF518A,intron_variant,,ENST00000442635,;ZNF518A,intron_variant,,ENST00000563195,;BLNK,non_coding_transcript_exon_variant,,ENST00000485193,;BLNK,downstream_gene_variant,,ENST00000467799,;BLNK,downstream_gene_variant,,ENST00000468252,;	-	ENSG00000095585	ENST00000224337	Transcript	frameshift_variant	1092	950	317	G/X	gGa/ga	.	.	.	-1	BLNK	HGNC	14211	protein_coding	YES	CCDS7446.1	ENSP00000224337	BLNK_HUMAN	Q2MD56_HUMAN	UPI000006FDD6	.	.	.	14/17	.	hmmpanther:PTHR14098:SF3,hmmpanther:PTHR14098	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGGTTTCCCCCT	.	3	BLCA
ACAT1	0	.	GRCh37	11	108009625	108009625	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.436G>A	p.Asp146Asn	p.D146N	ENST00000265838	6/12	142	114	28	169	169	0	ACAT1,missense_variant,p.Asp146Asn,ENST00000265838,;ACAT1,missense_variant,p.Asp82Asn,ENST00000528370,;ACAT1,downstream_gene_variant,,ENST00000299355,;ACAT1,downstream_gene_variant,,ENST00000527942,;ACAT1,downstream_gene_variant,,ENST00000531853,;ACAT1,missense_variant,p.Gly112Glu,ENST00000531813,;ACAT1,non_coding_transcript_exon_variant,,ENST00000534773,;ACAT1,upstream_gene_variant,,ENST00000533610,;ACAT1,downstream_gene_variant,,ENST00000524833,;ACAT1,upstream_gene_variant,,ENST00000532792,;	A	ENSG00000075239	ENST00000265838	Transcript	missense_variant	527	436	146	D/N	Gat/Aat	.	.	.	1	ACAT1	HGNC	93	protein_coding	YES	CCDS8339.1	ENSP00000265838	THIL_HUMAN	E9PKF3_HUMAN	UPI0000136E41	.	tolerated(0.13)	benign(0.128)	6/12	.	Superfamily_domains:SSF53901,PIRSF_domain:PIRSF000429,TIGRFAM_domain:TIGR01930,Pfam_domain:PF00108,Gene3D:3.40.47.10,hmmpanther:PTHR18919:SF79,hmmpanther:PTHR18919	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCAGGATGTG	.	5	BLCA
SORL1	0	.	GRCh37	11	121483537	121483538	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5418dupA	p.Val1807SerfsTer11	p.V1807Sfs*11	ENST00000260197	40/48	28	21	7	33	33	0	SORL1,frameshift_variant,p.Val717SerfsTer11,ENST00000534286,;SORL1,frameshift_variant,p.Val653SerfsTer11,ENST00000532694,;SORL1,frameshift_variant,p.Val422SerfsTer11,ENST00000527934,;SORL1,frameshift_variant,p.Val751SerfsTer11,ENST00000525532,;SORL1,frameshift_variant,p.Val1807SerfsTer11,ENST00000260197,;SORL1,non_coding_transcript_exon_variant,,ENST00000534754,;SORL1,non_coding_transcript_exon_variant,,ENST00000528339,;SORL1,upstream_gene_variant,,ENST00000524633,;	A	ENSG00000137642	ENST00000260197	Transcript	frameshift_variant	5544-5545	5415-5416	1805-1806	-/X	-/A	.	.	.	1	SORL1	HGNC	11185	protein_coding	YES	CCDS8436.1	ENSP00000260197	SORL_HUMAN	E9PS32_HUMAN,E9PPB3_HUMAN	UPI000013D0B1	.	.	.	40/48	.	PROSITE_profiles:PS50853,hmmpanther:PTHR12106,hmmpanther:PTHR12106:SF20,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCACACAAAGG	.	3	BLCA
MICALCL	0	.	GRCh37	11	12315827	12315827	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.849C>A	p.%3D	p.P283P	ENST00000256186	3/9	34	26	8	50	50	0	MICALCL,synonymous_variant,p.%3D,ENST00000256186,;MICALCL,downstream_gene_variant,,ENST00000533534,;	A	ENSG00000133808	ENST00000256186	Transcript	synonymous_variant	1140	849	283	P	ccC/ccA	.	.	.	1	MICALCL	HGNC	25933	protein_coding	YES	CCDS41620.1	ENSP00000256186	MICLK_HUMAN	E9PRG5_HUMAN	UPI0000228C2E	.	.	.	3/9	.	hmmpanther:PTHR11915,hmmpanther:PTHR11915:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCCCCTCCT	.	5	BLCA
OR10G9	0	.	GRCh37	11	123894478	123894478	+	Silent	SNP	C	C	A	rs761162473	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.759C>A	p.%3D	p.P253P	ENST00000375024	1/1	147	126	21	185	185	0	OR10G9,synonymous_variant,p.%3D,ENST00000375024,;	A	ENSG00000236981	ENST00000375024	Transcript	synonymous_variant	759	759	253	P	ccC/ccA	rs761162473	.	.	1	OR10G9	HGNC	15129	protein_coding	YES	CCDS31703.1	ENSP00000364164	O10G9_HUMAN	.	UPI0000041BE1	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453,hmmpanther:PTHR26453:SF6,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTCCCTGTGT	.	4	BLCA
PANX3	0	.	GRCh37	11	124489878	124489878	+	3'UTR	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*47C>T	.	.	ENST00000284288	4/4	64	53	11	57	57	0	PANX3,3_prime_UTR_variant,,ENST00000284288,;TBRG1,upstream_gene_variant,,ENST00000531667,;TBRG1,upstream_gene_variant,,ENST00000375005,;TBRG1,upstream_gene_variant,,ENST00000441174,;TBRG1,upstream_gene_variant,,ENST00000529543,;TBRG1,upstream_gene_variant,,ENST00000284290,;TBRG1,upstream_gene_variant,,ENST00000452080,;TBRG1,upstream_gene_variant,,ENST00000530731,;TBRG1,upstream_gene_variant,,ENST00000473629,;	T	ENSG00000154143	ENST00000284288	Transcript	3_prime_UTR_variant	1293	.	.	.	.	.	.	.	1	PANX3	HGNC	20573	protein_coding	YES	CCDS8447.1	ENSP00000284288	PANX3_HUMAN	.	UPI0000131264	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTTCCTCAT	.	5	BLCA
ACRV1	0	.	GRCh37	11	125550743	125550743	+	5'UTR	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-68C>T	.	.	ENST00000533904	1/4	57	53	4	57	57	0	ACRV1,5_prime_UTR_variant,,ENST00000425431,;ACRV1,5_prime_UTR_variant,,ENST00000527795,;ACRV1,5_prime_UTR_variant,,ENST00000453509,;ACRV1,5_prime_UTR_variant,,ENST00000533904,;ACRV1,5_prime_UTR_variant,,ENST00000353070,;ACRV1,5_prime_UTR_variant,,ENST00000445562,;ACRV1,5_prime_UTR_variant,,ENST00000345274,;ACRV1,5_prime_UTR_variant,,ENST00000348856,;ACRV1,upstream_gene_variant,,ENST00000530048,;ACRV1,upstream_gene_variant,,ENST00000315608,;CHEK1,downstream_gene_variant,,ENST00000428830,;CHEK1,downstream_gene_variant,,ENST00000498122,;	A	ENSG00000134940	ENST00000533904	Transcript	5_prime_UTR_variant	276	.	.	.	.	.	.	.	-1	ACRV1	HGNC	127	protein_coding	YES	CCDS8460.1	ENSP00000432816	ASPX_HUMAN	.	UPI000012615C	.	.	.	1/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACTGCGAGC	.	2	BLCA
ADAMTS15	0	.	GRCh37	11	130331463	130331463	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1037C>T	p.Ser346Phe	p.S346F	ENST00000299164	2/8	100	94	6	163	163	0	ADAMTS15,missense_variant,p.Ser346Phe,ENST00000299164,;	T	ENSG00000166106	ENST00000299164	Transcript	missense_variant	1037	1037	346	S/F	tCt/tTt	.	.	.	1	ADAMTS15	HGNC	16305	protein_coding	YES	CCDS8488.1	ENSP00000299164	ATS15_HUMAN	.	UPI000004F277	.	deleterious(0)	probably_damaging(1)	2/8	.	PROSITE_profiles:PS50215,hmmpanther:PTHR13723:SF39,hmmpanther:PTHR13723,Pfam_domain:PF01421,Gene3D:3.40.390.10,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCTGTCA	.	2	BLCA
THYN1	0	.	GRCh37	11	134118854	134118854	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.481-1G>A	.	p.X161_splice	ENST00000341541	.	97	76	20	140	140	0	THYN1,splice_acceptor_variant,,ENST00000341541,;THYN1,splice_acceptor_variant,,ENST00000392594,;THYN1,splice_acceptor_variant,,ENST00000392595,;THYN1,intron_variant,,ENST00000352327,;ACAD8,upstream_gene_variant,,ENST00000543332,;ACAD8,upstream_gene_variant,,ENST00000281182,;VPS26B,downstream_gene_variant,,ENST00000525095,;ACAD8,upstream_gene_variant,,ENST00000374752,;VPS26B,downstream_gene_variant,,ENST00000281187,;ACAD8,upstream_gene_variant,,ENST00000537423,;THYN1,downstream_gene_variant,,ENST00000525677,;ACAD8,upstream_gene_variant,,ENST00000524547,;THYN1,non_coding_transcript_exon_variant,,ENST00000531135,;ACAD8,upstream_gene_variant,,ENST00000527082,;ACAD8,upstream_gene_variant,,ENST00000534433,;ACAD8,upstream_gene_variant,,ENST00000524426,;ACAD8,upstream_gene_variant,,ENST00000530533,;ACAD8,upstream_gene_variant,,ENST00000534240,;VPS26B,downstream_gene_variant,,ENST00000531741,;ACAD8,upstream_gene_variant,,ENST00000526026,;THYN1,downstream_gene_variant,,ENST00000533975,;ACAD8,upstream_gene_variant,,ENST00000525961,;THYN1,downstream_gene_variant,,ENST00000533781,;ACAD8,upstream_gene_variant,,ENST00000533387,;	T	ENSG00000151500	ENST00000341541	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	THYN1	HGNC	29560	protein_coding	YES	CCDS8496.1	ENSP00000341657	THYN1_HUMAN	.	UPI000007195F	.	.	.	.	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCACCTATGT	.	5	BLCA
ACAD8	0	.	GRCh37	11	134131681	134131681	+	Missense_Mutation	SNP	G	G	A	rs752153225	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.989G>A	p.Arg330Gln	p.R330Q	ENST00000281182	9/11	36	32	4	46	46	0	ACAD8,missense_variant,p.Arg330Gln,ENST00000281182,;ACAD8,missense_variant,p.Arg203Gln,ENST00000374752,;ACAD8,missense_variant,p.Arg253Gln,ENST00000537423,;ACAD8,3_prime_UTR_variant,,ENST00000543332,;ACAD8,upstream_gene_variant,,ENST00000524502,;ACAD8,non_coding_transcript_exon_variant,,ENST00000524547,;ACAD8,3_prime_UTR_variant,,ENST00000524426,;ACAD8,3_prime_UTR_variant,,ENST00000526026,;ACAD8,non_coding_transcript_exon_variant,,ENST00000531338,;ACAD8,non_coding_transcript_exon_variant,,ENST00000527665,;ACAD8,non_coding_transcript_exon_variant,,ENST00000533387,;ACAD8,downstream_gene_variant,,ENST00000528325,;ACAD8,downstream_gene_variant,,ENST00000527082,;ACAD8,downstream_gene_variant,,ENST00000534433,;ACAD8,downstream_gene_variant,,ENST00000524739,;ACAD8,downstream_gene_variant,,ENST00000527713,;ACAD8,downstream_gene_variant,,ENST00000530533,;ACAD8,downstream_gene_variant,,ENST00000534240,;ACAD8,downstream_gene_variant,,ENST00000525961,;	A	ENSG00000151498	ENST00000281182	Transcript	missense_variant	1095	989	330	R/Q	cGg/cAg	rs752153225	.	.	1	ACAD8	HGNC	87	protein_coding	YES	CCDS8498.1	ENSP00000281182	ACAD8_HUMAN	.	UPI00001251DD	.	deleterious(0.01)	probably_damaging(1)	9/11	.	hmmpanther:PTHR10909,hmmpanther:PTHR10909:SF145,Pfam_domain:PF00441,Gene3D:1.20.140.10,PIRSF_domain:PIRSF016578,Superfamily_domains:SSF47203	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCGCGGCTGA	byFrequency	4	BLCA
GLB1L3	0	.	GRCh37	11	134147328	134147328	+	Silent	SNP	G	G	A	rs759102239	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132G>A	p.%3D	p.A44A	ENST00000431683	2/20	139	122	17	196	196	0	GLB1L3,synonymous_variant,p.%3D,ENST00000389887,;GLB1L3,synonymous_variant,p.%3D,ENST00000431683,;	A	ENSG00000166105	ENST00000431683	Transcript	synonymous_variant	132	132	44	A	gcG/gcA	rs759102239	.	.	1	GLB1L3	HGNC	25147	protein_coding	YES	CCDS44780.1	ENSP00000396615	GLBL3_HUMAN	.	UPI0001633637	.	.	.	2/20	.	hmmpanther:PTHR23421,hmmpanther:PTHR23421:SF59,PIRSF_domain:PIRSF006336	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGAGCGCATCC	.	4	BLCA
PDE3B	0	.	GRCh37	11	14865508	14865508	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2456C>T	p.Ala819Val	p.A819V	ENST00000282096	12/16	115	95	20	174	174	0	PDE3B,missense_variant,p.Ala768Val,ENST00000455098,;PDE3B,missense_variant,p.Ala819Val,ENST00000282096,;	T	ENSG00000152270	ENST00000282096	Transcript	missense_variant	2809	2456	819	A/V	gCc/gTc	.	.	.	1	PDE3B	HGNC	8779	protein_coding	YES	CCDS7817.1	ENSP00000282096	PDE3B_HUMAN	.	UPI000013DCB7	.	deleterious(0)	probably_damaging(1)	12/16	.	hmmpanther:PTHR11347:SF29,hmmpanther:PTHR11347,Gene3D:1.10.1300.10,Pfam_domain:PF00233,SMART_domains:SM00471,Superfamily_domains:SSF109604	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCTGCCATGC	.	5	BLCA
TRPM5	0	.	GRCh37	11	2426112	2426112	+	3'UTR	SNP	C	C	T	rs371620792	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*55G>A	.	.	ENST00000155858	24/24	25	21	4	33	33	0	TRPM5,3_prime_UTR_variant,,ENST00000533881,;TRPM5,3_prime_UTR_variant,,ENST00000452833,;TRPM5,3_prime_UTR_variant,,ENST00000155858,;TRPM5,downstream_gene_variant,,ENST00000533060,;TSSC4,downstream_gene_variant,,ENST00000451491,;TSSC4,downstream_gene_variant,,ENST00000496468,;TSSC4,downstream_gene_variant,,ENST00000437110,;TSSC4,downstream_gene_variant,,ENST00000380992,;TSSC4,downstream_gene_variant,,ENST00000435795,;TSSC4,downstream_gene_variant,,ENST00000485682,;TSSC4,downstream_gene_variant,,ENST00000440813,;TRPM5,downstream_gene_variant,,ENST00000528453,;TSSC4,downstream_gene_variant,,ENST00000380996,;TSSC4,downstream_gene_variant,,ENST00000333256,;AC124057.5,intron_variant,,ENST00000433035,;TSSC4,downstream_gene_variant,,ENST00000467308,;	T	ENSG00000070985	ENST00000155858	Transcript	3_prime_UTR_variant	3562	.	.	.	.	rs371620792	.	.	-1	TRPM5	HGNC	14323	protein_coding	YES	CCDS31340.1	ENSP00000155858	TRPM5_HUMAN	.	UPI000003B069	.	.	.	24/24	.	.	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACAACGTGCA	byFrequency|byCluster|by1000G	2	BLCA
HIPK3	0	.	GRCh37	11	33308254	33308254	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.294G>A	p.%3D	p.Q98Q	ENST00000303296	2/17	76	72	4	80	80	0	HIPK3,synonymous_variant,p.%3D,ENST00000525975,;HIPK3,synonymous_variant,p.%3D,ENST00000456517,;HIPK3,synonymous_variant,p.%3D,ENST00000379016,;HIPK3,synonymous_variant,p.%3D,ENST00000303296,;HIPK3,downstream_gene_variant,,ENST00000531504,;	A	ENSG00000110422	ENST00000303296	Transcript	synonymous_variant	599	294	98	Q	caG/caA	.	.	.	1	HIPK3	HGNC	4915	protein_coding	YES	CCDS7884.1	ENSP00000304226	HIPK3_HUMAN	E9PKD7_HUMAN	UPI000006D7F8	.	.	.	2/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24058:SF29,hmmpanther:PTHR24058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTCAGGCACA	.	2	BLCA
NAT10	0	.	GRCh37	11	34156814	34156814	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2004G>T	p.Gln668His	p.Q668H	ENST00000257829	19/29	90	80	9	106	106	0	NAT10,missense_variant,p.Gln596His,ENST00000531159,;NAT10,missense_variant,p.Gln668His,ENST00000257829,;NAT10,intron_variant,,ENST00000527971,;NAT10,upstream_gene_variant,,ENST00000530017,;	T	ENSG00000135372	ENST00000257829	Transcript	missense_variant	2210	2004	668	Q/H	caG/caT	.	.	.	1	NAT10	HGNC	29830	protein_coding	YES	CCDS7889.1	ENSP00000257829	NAT10_HUMAN	E9PJN6_HUMAN,E7ESU4_HUMAN	UPI000013CF8E	.	tolerated(0.16)	benign(0.005)	19/29	.	Gene3D:3.40.630.30,Pfam_domain:PF13718,PROSITE_profiles:PS51186,hmmpanther:PTHR10925	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCACAGGAAAT	.	3	BLCA
RAG1	0	.	GRCh37	11	36597335	36597335	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2481G>T	p.Glu827Asp	p.E827D	ENST00000299440	2/2	55	44	10	52	52	0	RAG1,missense_variant,p.Glu827Asp,ENST00000299440,;RAG2,non_coding_transcript_exon_variant,,ENST00000524423,;RAG1,missense_variant,p.Glu827Asp,ENST00000534663,;	T	ENSG00000166349	ENST00000299440	Transcript	missense_variant	2593	2481	827	E/D	gaG/gaT	.	.	.	1	RAG1	HGNC	9831	protein_coding	YES	CCDS7902.1	ENSP00000299440	RAG1_HUMAN	.	UPI000013E5A0	.	deleterious_low_confidence(0.01)	probably_damaging(0.982)	2/2	.	Pfam_domain:PF12940,hmmpanther:PTHR11539,hmmpanther:PTHR11539:SF0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAGAGGAAAG	.	5	BLCA
CHRM4	0	.	GRCh37	11	46407253	46407253	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.855C>T	p.%3D	p.R285R	ENST00000433765	1/1	31	26	5	25	25	0	CHRM4,synonymous_variant,p.%3D,ENST00000433765,;MDK,downstream_gene_variant,,ENST00000395565,;MDK,downstream_gene_variant,,ENST00000407067,;MDK,downstream_gene_variant,,ENST00000359803,;MDK,downstream_gene_variant,,ENST00000405308,;MDK,downstream_gene_variant,,ENST00000533952,;MDK,downstream_gene_variant,,ENST00000441869,;MDK,downstream_gene_variant,,ENST00000395566,;MDK,downstream_gene_variant,,ENST00000395569,;MDK,downstream_gene_variant,,ENST00000533283,;MDK,downstream_gene_variant,,ENST00000481047,;MDK,downstream_gene_variant,,ENST00000489525,;MDK,downstream_gene_variant,,ENST00000490240,;	A	ENSG00000180720	ENST00000433765	Transcript	synonymous_variant	855	855	285	R	cgC/cgT	.	.	.	-1	CHRM4	HGNC	1953	protein_coding	YES	CCDS44581.1	ENSP00000409378	ACM4_HUMAN	.	UPI00001252BB	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24249:SF60,hmmpanther:PTHR24249,Pfam_domain:PF00001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACGGGGCGCGG	.	2	BLCA
ARFGAP2	0	.	GRCh37	11	47187881	47187881	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1483G>A	p.Gly495Ser	p.G495S	ENST00000524782	15/16	112	103	9	190	190	0	ARFGAP2,missense_variant,p.Gly226Ser,ENST00000319543,;ARFGAP2,missense_variant,p.Gly359Ser,ENST00000426335,;ARFGAP2,missense_variant,p.Gly495Ser,ENST00000524782,;ARFGAP2,missense_variant,p.Gly217Ser,ENST00000527776,;ARFGAP2,missense_variant,p.Gly388Ser,ENST00000419701,;C11orf49,downstream_gene_variant,,ENST00000536126,;C11orf49,downstream_gene_variant,,ENST00000278460,;ARFGAP2,downstream_gene_variant,,ENST00000527927,;C11orf49,downstream_gene_variant,,ENST00000543718,;C11orf49,downstream_gene_variant,,ENST00000395460,;C11orf49,downstream_gene_variant,,ENST00000378615,;C11orf49,downstream_gene_variant,,ENST00000378618,;ARFGAP2,downstream_gene_variant,,ENST00000526342,;RP11-390K5.6,downstream_gene_variant,,ENST00000524412,;ARFGAP2,non_coding_transcript_exon_variant,,ENST00000395449,;C11orf49,downstream_gene_variant,,ENST00000534581,;ARFGAP2,3_prime_UTR_variant,,ENST00000533243,;C11orf49,downstream_gene_variant,,ENST00000525895,;ARFGAP2,downstream_gene_variant,,ENST00000529455,;ARFGAP2,downstream_gene_variant,,ENST00000532478,;C11orf49,downstream_gene_variant,,ENST00000527784,;ARFGAP2,downstream_gene_variant,,ENST00000525635,;C11orf49,downstream_gene_variant,,ENST00000528488,;ARFGAP2,downstream_gene_variant,,ENST00000532438,;	T	ENSG00000149182	ENST00000524782	Transcript	missense_variant	1712	1483	495	G/S	Ggt/Agt	.	.	.	-1	ARFGAP2	HGNC	13504	protein_coding	YES	CCDS7926.1	ENSP00000434442	ARFG2_HUMAN	B7Z9M7_HUMAN	UPI000006F4C6	.	deleterious(0.02)	probably_damaging(1)	15/16	.	hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF194	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GACACCCTGCT	.	3	BLCA
OR51F1	0	.	GRCh37	11	4790464	4790464	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.684C>T	p.%3D	p.L228L	ENST00000343430	1/1	80	76	4	102	102	0	OR51F1,synonymous_variant,p.%3D,ENST00000343430,;OR51F1,synonymous_variant,p.%3D,ENST00000380383,;MMP26,intron_variant,,ENST00000380390,;MMP26,intron_variant,,ENST00000477339,;	A	ENSG00000188069	ENST00000343430	Transcript	synonymous_variant	684	684	228	L	ctC/ctT	.	.	.	-1	OR51F1	HGNC	15196	protein_coding	YES	CCDS31359.1	ENSP00000345163	.	A6NLW9_HUMAN	UPI000016148C	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR24242,hmmpanther:PTHR24242:SF186,Gene3D:1.20.1070.10,Pfam_domain:PF13853,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATTCTGAGGAC	.	2	BLCA
OR51A7	0	.	GRCh37	11	4929160	4929160	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561G>A	p.%3D	p.L187L	ENST00000359350	1/1	134	124	10	167	167	0	OR51A7,synonymous_variant,p.%3D,ENST00000359350,;MMP26,intron_variant,,ENST00000380390,;MMP26,intron_variant,,ENST00000477339,;	A	ENSG00000176895	ENST00000359350	Transcript	synonymous_variant	561	561	187	L	ctG/ctA	.	.	.	1	OR51A7	HGNC	15188	protein_coding	YES	CCDS31364.1	ENSP00000352305	O51A7_HUMAN	.	UPI0000041C23	.	.	.	1/1	.	Prints_domain:PR00245,Superfamily_domains:SSF81321,Pfam_domain:PF00001,Gene3D:1.20.1070.10,hmmpanther:PTHR26450:SF114,hmmpanther:PTHR26450,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGCTGGCCTG	.	2	BLCA
OR51Q1	0	.	GRCh37	11	5444102	5444103	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.677dupA	p.Asn226LysfsTer10	p.N226Kfs*10	ENST00000300778	1/1	131	104	27	142	142	0	OR51Q1,frameshift_variant,p.Asn226LysfsTer10,ENST00000300778,;HBE1,intron_variant,,ENST00000396895,;HBG2,intron_variant,,ENST00000380252,;HBE1,intron_variant,,ENST00000380237,;HBG2,intron_variant,,ENST00000380259,;AC104389.28,intron_variant,,ENST00000418729,;AC104389.28,intron_variant,,ENST00000420726,;AC104389.28,intron_variant,,ENST00000415970,;AC104389.28,intron_variant,,ENST00000420465,;	A	ENSG00000167360	ENST00000300778	Transcript	frameshift_variant	762-763	672-673	224-225	-/X	-/A	.	.	.	1	OR51Q1	HGNC	14851	protein_coding	YES	CCDS31381.1	ENSP00000300778	O51Q1_HUMAN	.	UPI0000041BDB	.	.	.	1/1	.	Superfamily_domains:SSF81321,Pfam_domain:PF13853,hmmpanther:PTHR26450,Gene3D:1.20.1070.10,hmmpanther:PTHR26450:SF84,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	ATTCTGAAAAA	.	2	BLCA
OR8J3	0	.	GRCh37	11	55904324	55904324	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.871A>C	p.Ser291Arg	p.S291R	ENST00000301529	1/1	75	63	12	98	98	0	OR8J3,missense_variant,p.Ser291Arg,ENST00000301529,;OR5BN1P,upstream_gene_variant,,ENST00000532955,;	G	ENSG00000167822	ENST00000301529	Transcript	missense_variant	871	871	291	S/R	Agc/Cgc	.	.	.	-1	OR8J3	HGNC	15312	protein_coding	YES	CCDS31520.1	ENSP00000301529	OR8J3_HUMAN	.	UPI0000061E99	.	deleterious(0)	possibly_damaging(0.835)	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR26452:SF209,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGCTGTAGA	.	4	BLCA
SSRP1	0	.	GRCh37	11	57094906	57094906	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1865C>A	p.Ser622Tyr	p.S622Y	ENST00000278412	15/17	163	137	26	206	206	0	SSRP1,missense_variant,p.Ser622Tyr,ENST00000278412,;SSRP1,downstream_gene_variant,,ENST00000526696,;TNKS1BP1,upstream_gene_variant,,ENST00000358252,;snoU13,downstream_gene_variant,,ENST00000459327,;RP11-872D17.4,intron_variant,,ENST00000534162,;SSRP1,non_coding_transcript_exon_variant,,ENST00000293880,;TNKS1BP1,upstream_gene_variant,,ENST00000528882,;	T	ENSG00000149136	ENST00000278412	Transcript	missense_variant	2132	1865	622	S/Y	tCt/tAt	.	.	.	-1	SSRP1	HGNC	11327	protein_coding	YES	CCDS7952.1	ENSP00000278412	SSRP1_HUMAN	E9PPZ7_HUMAN,E9PMD4_HUMAN	UPI000013601D	.	deleterious(0.01)	unknown(0)	15/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13711:SF2,hmmpanther:PTHR13711	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTAGAAGAC	.	4	BLCA
OR6Q1	0	.	GRCh37	11	57798643	57798643	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.219C>G	p.Ile73Met	p.I73M	ENST00000302622	1/1	178	145	33	215	215	0	OR6Q1,missense_variant,p.Ile73Met,ENST00000302622,;OR9Q1,intron_variant,,ENST00000335397,;RNU6-899P,upstream_gene_variant,,ENST00000363947,;	G	ENSG00000172381	ENST00000302622	Transcript	missense_variant	242	219	73	I/M	atC/atG	.	.	.	1	OR6Q1	HGNC	15302	protein_coding	YES	CCDS31541.1	ENSP00000307734	OR6Q1_HUMAN	.	UPI000013E7FD	.	tolerated(0.06)	benign(0.278)	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26453:SF140,hmmpanther:PTHR26453,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAATCTGGTA	.	5	BLCA
PATL1	0	.	GRCh37	11	59425145	59425146	+	Frame_Shift_Ins	INS	-	-	G	rs757903860	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.478dupC	p.Gln160ProfsTer6	p.Q160Pfs*6	ENST00000300146	5/19	37	27	10	47	47	0	PATL1,frameshift_variant,p.Gln160ProfsTer6,ENST00000300146,;	G	ENSG00000166889	ENST00000300146	Transcript	frameshift_variant	563-564	478-479	160	Q/PX	cag/cCag	rs757903860	.	.	-1	PATL1	HGNC	26721	protein_coding	YES	CCDS44613.1	ENSP00000300146	PATL1_HUMAN	B3KXN0_HUMAN	UPI00001FA7D8	.	.	.	5/19	.	hmmpanther:PTHR21551,hmmpanther:PTHR21551:SF2,Pfam_domain:PF09770	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	GACCCTGGGGG	byFrequency	2	BLCA
SCGB1D1	0	.	GRCh37	11	61959661	61959661	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>C	p.Lys63Asn	p.K63N	ENST00000306238	2/3	85	76	9	114	114	0	SCGB1D1,missense_variant,p.Lys63Asn,ENST00000306238,;	C	ENSG00000168515	ENST00000306238	Transcript	missense_variant	258	189	63	K/N	aaG/aaC	COSM1224783	.	.	1	SCGB1D1	HGNC	18395	protein_coding	YES	CCDS8015.1	ENSP00000303070	SG1D1_HUMAN	.	UPI000012E869	.	deleterious(0)	probably_damaging(0.999)	2/3	.	PROSITE_profiles:PS51311,hmmpanther:PTHR11332:SF5,hmmpanther:PTHR11332,Pfam_domain:PF01099,Gene3D:1utgA00,Superfamily_domains:SSF48201	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAAGAAATG	.	4	BLCA
SMPD1	0	.	GRCh37	11	6415175	6415175	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1390G>A	p.Glu464Lys	p.E464K	ENST00000342245	5/6	75	65	10	91	91	0	SMPD1,missense_variant,p.Glu463Lys,ENST00000527275,;SMPD1,missense_variant,p.Glu464Lys,ENST00000342245,;SMPD1,missense_variant,p.Glu150Lys,ENST00000526280,;SMPD1,missense_variant,p.Glu420Lys,ENST00000299397,;SMPD1,missense_variant,p.Glu408Lys,ENST00000356761,;APBB1,downstream_gene_variant,,ENST00000608704,;APBB1,downstream_gene_variant,,ENST00000608394,;APBB1,downstream_gene_variant,,ENST00000530885,;APBB1,downstream_gene_variant,,ENST00000609360,;APBB1,downstream_gene_variant,,ENST00000299402,;APBB1,downstream_gene_variant,,ENST00000389906,;APBB1,downstream_gene_variant,,ENST00000608645,;APBB1,downstream_gene_variant,,ENST00000609331,;APBB1,downstream_gene_variant,,ENST00000311051,;APBB1,downstream_gene_variant,,ENST00000608655,;APBB1,downstream_gene_variant,,ENST00000529519,;SMPD1,downstream_gene_variant,,ENST00000530395,;APBB1,downstream_gene_variant,,ENST00000526240,;SMPD1,downstream_gene_variant,,ENST00000533196,;SMPD1,3_prime_UTR_variant,,ENST00000533123,;SMPD1,3_prime_UTR_variant,,ENST00000534405,;SMPD1,3_prime_UTR_variant,,ENST00000531303,;SMPD1,non_coding_transcript_exon_variant,,ENST00000532367,;SMPD1,non_coding_transcript_exon_variant,,ENST00000531336,;APBB1,downstream_gene_variant,,ENST00000608435,;APBB1,downstream_gene_variant,,ENST00000524626,;	A	ENSG00000166311	ENST00000342245	Transcript	missense_variant	1558	1390	464	E/K	Gaa/Aaa	.	.	.	1	SMPD1	HGNC	11120	protein_coding	YES	CCDS44531.1	ENSP00000340409	ASM_HUMAN	E9PL59_HUMAN	UPI000013E592	.	deleterious(0)	possibly_damaging(0.544)	5/6	.	hmmpanther:PTHR10340,hmmpanther:PTHR10340:SF13,Gene3D:3.60.21.10,PIRSF_domain:PIRSF000948,Superfamily_domains:SSF56300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGATGAATTT	.	4	BLCA
EHD1	0	.	GRCh37	11	64645744	64645744	+	Missense_Mutation	SNP	C	C	A	rs3205255	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.193G>T	p.Gly65Trp	p.G65W	ENST00000320631	1/5	69	58	10	68	68	0	EHD1,missense_variant,p.Gly65Trp,ENST00000411683,;EHD1,missense_variant,p.Gly65Trp,ENST00000457202,;EHD1,missense_variant,p.Gly79Trp,ENST00000433803,;EHD1,missense_variant,p.Gly65Trp,ENST00000359393,;EHD1,missense_variant,p.Gly65Trp,ENST00000320631,;EHD1,upstream_gene_variant,,ENST00000421510,;EHD1,upstream_gene_variant,,ENST00000455148,;EHD1,non_coding_transcript_exon_variant,,ENST00000466015,;EHD1,downstream_gene_variant,,ENST00000489379,;AP001187.11,upstream_gene_variant,,ENST00000428947,;	A	ENSG00000110047	ENST00000320631	Transcript	missense_variant	448	193	65	G/W	Ggg/Tgg	rs3205255	.	.	-1	EHD1	HGNC	3242	protein_coding	YES	CCDS8084.1	ENSP00000320516	EHD1_HUMAN	C9JIJ3_HUMAN,C9JDQ8_HUMAN,C9J2Z4_HUMAN,C9IZH1_HUMAN,B2R5U3_HUMAN	UPI0000129E22	.	deleterious(0)	probably_damaging(1)	1/5	.	PROSITE_profiles:PS51718,hmmpanther:PTHR11216,hmmpanther:PTHR11216:SF60,Pfam_domain:PF00350,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTGCCCCACGA	byCluster	5	BLCA
ARFIP2	0	.	GRCh37	11	6498959	6498959	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.859G>T	p.Glu287Ter	p.E287*	ENST00000254584	7/8	34	20	14	36	36	0	ARFIP2,stop_gained,p.Glu249Ter,ENST00000423813,;ARFIP2,stop_gained,p.Glu287Ter,ENST00000396777,;ARFIP2,stop_gained,p.Glu287Ter,ENST00000254584,;ARFIP2,stop_gained,p.Glu202Ter,ENST00000445086,;TRIM3,upstream_gene_variant,,ENST00000345851,;ARFIP2,downstream_gene_variant,,ENST00000525235,;TRIM3,upstream_gene_variant,,ENST00000536344,;TIMM10B,upstream_gene_variant,,ENST00000254616,;TRIM3,upstream_gene_variant,,ENST00000529529,;TRIM3,upstream_gene_variant,,ENST00000537602,;TRIM3,upstream_gene_variant,,ENST00000359518,;TRIM3,upstream_gene_variant,,ENST00000528227,;TRIM3,upstream_gene_variant,,ENST00000525074,;TIMM10B,upstream_gene_variant,,ENST00000530751,;TRIM3,upstream_gene_variant,,ENST00000528932,;ARFIP2,3_prime_UTR_variant,,ENST00000531037,;TIMM10B,upstream_gene_variant,,ENST00000531462,;TIMM10B,upstream_gene_variant,,ENST00000533379,;ARFIP2,downstream_gene_variant,,ENST00000525329,;ARFIP2,downstream_gene_variant,,ENST00000530410,;TIMM10B,upstream_gene_variant,,ENST00000472836,;ARFIP2,downstream_gene_variant,,ENST00000529847,;TIMM10B,upstream_gene_variant,,ENST00000528908,;TIMM10B,upstream_gene_variant,,ENST00000464330,;	A	ENSG00000132254	ENST00000254584	Transcript	stop_gained	943	859	287	E/*	Gaa/Taa	.	.	.	-1	ARFIP2	HGNC	17160	protein_coding	YES	CCDS7765.1	ENSP00000254584	ARFP2_HUMAN	B4DXH2_HUMAN	UPI000012566A	.	.	.	7/8	.	PROSITE_profiles:PS50870,hmmpanther:PTHR12141:SF3,hmmpanther:PTHR12141,Pfam_domain:PF06456,Gene3D:1.20.1270.60,SMART_domains:SM01015,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCTTCCAGGA	.	5	BLCA
LTBP3	0	.	GRCh37	11	65315555	65315555	+	Intron	SNP	G	G	A	rs200013646	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1721-39C>T	.	.	ENST00000301873	.	24	16	8	46	46	0	LTBP3,5_prime_UTR_variant,,ENST00000532932,;LTBP3,intron_variant,,ENST00000526927,;LTBP3,intron_variant,,ENST00000301873,;LTBP3,intron_variant,,ENST00000530866,;LTBP3,intron_variant,,ENST00000322147,;LTBP3,intron_variant,,ENST00000536982,;LTBP3,upstream_gene_variant,,ENST00000527339,;LTBP3,upstream_gene_variant,,ENST00000530785,;LTBP3,downstream_gene_variant,,ENST00000530426,;LTBP3,upstream_gene_variant,,ENST00000529189,;LTBP3,intron_variant,,ENST00000529764,;LTBP3,intron_variant,,ENST00000528966,;LTBP3,intron_variant,,ENST00000528516,;LTBP3,downstream_gene_variant,,ENST00000524798,;LTBP3,downstream_gene_variant,,ENST00000526825,;LTBP3,downstream_gene_variant,,ENST00000527792,;LTBP3,upstream_gene_variant,,ENST00000525443,;	A	ENSG00000168056	ENST00000301873	Transcript	intron_variant	.	.	.	.	.	rs200013646	.	.	-1	LTBP3	HGNC	6716	protein_coding	YES	CCDS44647.1	ENSP00000301873	LTBP3_HUMAN	Q9P0Z7_HUMAN,E9PR84_HUMAN,E9PKW1_HUMAN	UPI00003667EB	.	.	.	.	11/27	.	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGAGCGCTCAC	byCluster|by1000G	5	BLCA
SNX32	0	.	GRCh37	11	65620391	65620391	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1120C>T	p.Leu374Phe	p.L374F	ENST00000308342	12/13	113	100	13	117	117	0	SNX32,missense_variant,p.Leu374Phe,ENST00000308342,;CFL1,downstream_gene_variant,,ENST00000534769,;MUS81,upstream_gene_variant,,ENST00000529857,;CFL1,downstream_gene_variant,,ENST00000531407,;CFL1,downstream_gene_variant,,ENST00000308162,;CFL1,downstream_gene_variant,,ENST00000530413,;CFL1,downstream_gene_variant,,ENST00000527344,;CFL1,downstream_gene_variant,,ENST00000526975,;CFL1,downstream_gene_variant,,ENST00000534784,;CFL1,downstream_gene_variant,,ENST00000532134,;CFL1,downstream_gene_variant,,ENST00000531413,;CFL1,downstream_gene_variant,,ENST00000524553,;CFL1,downstream_gene_variant,,ENST00000525451,;CFL1,intron_variant,,ENST00000527752,;SNX32,downstream_gene_variant,,ENST00000531795,;SNX32,non_coding_transcript_exon_variant,,ENST00000530101,;SNX32,downstream_gene_variant,,ENST00000526972,;SNX32,downstream_gene_variant,,ENST00000531503,;CFL1,downstream_gene_variant,,ENST00000530945,;SNX32,downstream_gene_variant,,ENST00000534387,;SNX32,downstream_gene_variant,,ENST00000533236,;SNX32,downstream_gene_variant,,ENST00000524729,;SNX32,downstream_gene_variant,,ENST00000533298,;	T	ENSG00000172803	ENST00000308342	Transcript	missense_variant	1545	1120	374	L/F	Ctc/Ttc	.	.	.	1	SNX32	HGNC	26423	protein_coding	YES	CCDS8113.2	ENSP00000310620	SNX32_HUMAN	.	UPI000000DAEA	.	deleterious(0.02)	probably_damaging(0.999)	12/13	.	hmmpanther:PTHR10555,hmmpanther:PTHR10555:SF137,PIRSF_domain:PIRSF036924	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.K372N|c.1116G>T|3	RADIA|MUTECT|MUSE|VARSCANS	AGAATCTCATT	.	4	BLCA
UNC93B1	0	.	GRCh37	11	67766695	67766695	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.635C>G	p.Ser212Cys	p.S212C	ENST00000227471	5/12	69	60	9	91	91	0	UNC93B1,missense_variant,p.Ser141Cys,ENST00000528423,;UNC93B1,missense_variant,p.Ser212Cys,ENST00000227471,;UNC93B1,non_coding_transcript_exon_variant,,ENST00000530331,;UNC93B1,upstream_gene_variant,,ENST00000533966,;UNC93B1,3_prime_UTR_variant,,ENST00000524455,;UNC93B1,non_coding_transcript_exon_variant,,ENST00000533424,;UNC93B1,non_coding_transcript_exon_variant,,ENST00000528096,;UNC93B1,non_coding_transcript_exon_variant,,ENST00000525743,;UNC93B1,downstream_gene_variant,,ENST00000530138,;UNC93B1,upstream_gene_variant,,ENST00000525368,;UNC93B1,downstream_gene_variant,,ENST00000531152,;	C	ENSG00000110057	ENST00000227471	Transcript	missense_variant	715	635	212	S/C	tCc/tGc	.	.	.	-1	UNC93B1	HGNC	13481	protein_coding	YES	.	ENSP00000227471	UN93B_HUMAN	E9PNE5_HUMAN	UPI000013C8B8	.	tolerated(0.13)	possibly_damaging(0.849)	5/12	.	hmmpanther:PTHR19444:SF3,hmmpanther:PTHR19444	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTGGGAGCCC	.	5	BLCA
ALDH3B1	0	.	GRCh37	11	67790064	67790064	+	Silent	SNP	C	C	A	rs555223880	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945C>A	p.%3D	p.A315A	ENST00000539229	10/13	44	36	7	51	51	0	ALDH3B1,synonymous_variant,p.%3D,ENST00000342456,;ALDH3B1,synonymous_variant,p.%3D,ENST00000539229,;ALDH3B1,synonymous_variant,p.%3D,ENST00000007633,;ALDH3B1,intron_variant,,ENST00000316367,;RP5-901A4.1,downstream_gene_variant,,ENST00000532296,;ALDH3B1,splice_region_variant,,ENST00000530046,;ALDH3B1,splice_region_variant,,ENST00000531459,;ALDH3B1,splice_region_variant,,ENST00000433100,;ALDH3B1,splice_region_variant,,ENST00000434449,;ALDH3B1,splice_region_variant,,ENST00000527514,;ALDH3B1,splice_region_variant,,ENST00000527179,;ALDH3B1,downstream_gene_variant,,ENST00000526609,;ALDH3B1,downstream_gene_variant,,ENST00000525518,;ALDH3B1,splice_region_variant,,ENST00000529232,;	A	ENSG00000006534	ENST00000539229	Transcript	synonymous_variant	1061	945	315	A	gcC/gcA	rs555223880	.	.	1	ALDH3B1	HGNC	410	protein_coding	YES	.	ENSP00000474034	AL3B1_HUMAN	S4R3R5_HUMAN	UPI000045652C	.	.	.	10/13	.	hmmpanther:PTHR11699:SF147,hmmpanther:PTHR11699,Pfam_domain:PF00171,Gene3D:3.40.309.10,PIRSF_domain:PIRSF036492,Superfamily_domains:SSF53720	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGCCCCCAC	by1000G	5	BLCA
RBMXL2	0	.	GRCh37	11	7111367	7111367	+	Missense_Mutation	SNP	G	G	A	rs779585410	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1016G>A	p.Gly339Asp	p.G339D	ENST00000306904	1/1	26	22	4	26	26	0	RBMXL2,missense_variant,p.Gly339Asp,ENST00000306904,;	A	ENSG00000170748	ENST00000306904	Transcript	missense_variant	1203	1016	339	G/D	gGc/gAc	rs779585410	.	.	1	RBMXL2	HGNC	17886	protein_coding	YES	CCDS7777.1	ENSP00000304139	RMXL2_HUMAN	.	UPI000013EBA5	.	tolerated(0.13)	benign(0.001)	1/1	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF306	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGGGGCCGAC	.	4	BLCA
DHCR7	0	.	GRCh37	11	71146714	71146714	+	Missense_Mutation	SNP	C	C	T	rs772162793	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1135G>A	p.Glu379Lys	p.E379K	ENST00000355527	9/9	35	27	7	59	59	0	DHCR7,missense_variant,p.Glu379Lys,ENST00000407721,;DHCR7,missense_variant,p.Glu129Lys,ENST00000533800,;DHCR7,missense_variant,p.Glu379Lys,ENST00000355527,;DHCR7,synonymous_variant,p.%3D,ENST00000525137,;DHCR7,intron_variant,,ENST00000534795,;DHCR7,downstream_gene_variant,,ENST00000527316,;DHCR7,downstream_gene_variant,,ENST00000534701,;	T	ENSG00000172893	ENST00000355527	Transcript	missense_variant	1412	1135	379	E/K	Gag/Aag	rs772162793	.	.	-1	DHCR7	HGNC	2860	protein_coding	YES	CCDS8200.1	ENSP00000347717	DHCR7_HUMAN	E9PRL8_HUMAN,E9PQ71_HUMAN,E9PJ54_HUMAN,E9PIP9_HUMAN,B4E1K5_HUMAN	UPI00000310C7	.	tolerated(0.21)	possibly_damaging(0.61)	9/9	.	hmmpanther:PTHR21257,hmmpanther:PTHR21257:SF22,Pfam_domain:PF01222	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTCGATGA	byFrequency	5	BLCA
TALDO1	0	.	GRCh37	11	764872	764872	+	3'UTR	SNP	C	C	G	rs1131117	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*27C>G	.	.	ENST00000319006	8/8	66	55	10	90	90	0	TALDO1,3_prime_UTR_variant,,ENST00000319006,;TALDO1,3_prime_UTR_variant,,ENST00000528097,;PDDC1,downstream_gene_variant,,ENST00000526325,;PDDC1,downstream_gene_variant,,ENST00000397472,;PDDC1,downstream_gene_variant,,ENST00000528309,;PDDC1,downstream_gene_variant,,ENST00000465313,;PDDC1,downstream_gene_variant,,ENST00000526650,;PDDC1,downstream_gene_variant,,ENST00000319863,;TALDO1,non_coding_transcript_exon_variant,,ENST00000532202,;TALDO1,non_coding_transcript_exon_variant,,ENST00000530666,;PDDC1,downstream_gene_variant,,ENST00000354286,;TALDO1,downstream_gene_variant,,ENST00000530119,;TALDO1,downstream_gene_variant,,ENST00000530440,;TALDO1,downstream_gene_variant,,ENST00000528070,;TALDO1,downstream_gene_variant,,ENST00000533796,;	G	ENSG00000177156	ENST00000319006	Transcript	3_prime_UTR_variant	1194	.	.	.	.	rs1131117	.	.	1	TALDO1	HGNC	11559	protein_coding	YES	CCDS7712.1	ENSP00000321259	TALDO_HUMAN	Q9UMF8_HUMAN,B4DID5_HUMAN	UPI00001114B0	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGATCTGCAC	.	5	BLCA
OR10A6	0	.	GRCh37	11	7949320	7949320	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.890T>C	p.Met297Thr	p.M297T	ENST00000309838	1/1	104	87	17	121	121	0	OR10A6,missense_variant,p.Met297Thr,ENST00000309838,;	G	ENSG00000175393	ENST00000309838	Transcript	missense_variant	890	890	297	M/T	aTg/aCg	.	.	.	-1	OR10A6	HGNC	15132	protein_coding	YES	CCDS31420.1	ENSP00000312470	O10A6_HUMAN	.	UPI0000041DF4	.	deleterious(0)	benign(0.254)	1/1	.	Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26453:SF30,hmmpanther:PTHR26453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTCATCTCA	.	4	BLCA
DLG2	0	.	GRCh37	11	83344295	83344295	+	Silent	SNP	G	G	A	rs138430783	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1899C>T	p.%3D	p.S633S	ENST00000376104	19/28	52	45	7	62	62	0	DLG2,synonymous_variant,p.%3D,ENST00000529399,;DLG2,synonymous_variant,p.%3D,ENST00000330014,;DLG2,synonymous_variant,p.%3D,ENST00000532653,;DLG2,synonymous_variant,p.%3D,ENST00000531015,;DLG2,synonymous_variant,p.%3D,ENST00000398304,;DLG2,synonymous_variant,p.%3D,ENST00000418306,;DLG2,synonymous_variant,p.%3D,ENST00000524982,;DLG2,synonymous_variant,p.%3D,ENST00000420775,;DLG2,synonymous_variant,p.%3D,ENST00000426717,;DLG2,synonymous_variant,p.%3D,ENST00000434967,;DLG2,synonymous_variant,p.%3D,ENST00000280241,;DLG2,synonymous_variant,p.%3D,ENST00000398309,;DLG2,synonymous_variant,p.%3D,ENST00000376104,;DLG2,synonymous_variant,p.%3D,ENST00000524601,;DLG2,synonymous_variant,p.%3D,ENST00000537455,;DLG2,synonymous_variant,p.%3D,ENST00000376106,;DLG2,synonymous_variant,p.%3D,ENST00000543673,;DLG2,synonymous_variant,p.%3D,ENST00000530800,;DLG2,synonymous_variant,p.%3D,ENST00000404783,;DLG2,non_coding_transcript_exon_variant,,ENST00000529111,;DLG2,non_coding_transcript_exon_variant,,ENST00000456295,;	A	ENSG00000150672	ENST00000376104	Transcript	synonymous_variant	2211	1899	633	S	tcC/tcT	rs138430783	.	.	-1	DLG2	HGNC	2901	protein_coding	YES	CCDS44690.1	ENSP00000365272	DLG2_HUMAN	F8W750_HUMAN,E9PQT9_HUMAN	UPI0000E59399	.	.	.	19/28	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF50044,PIRSF_domain:PIRSF001741,Gene3D:2.30.30.40,hmmpanther:PTHR23119:SF6,hmmpanther:PTHR23119	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATCCGGACCC	.	4	BLCA
NOX4	0	.	GRCh37	11	89133467	89133467	+	Silent	SNP	G	G	A	rs758174451	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.927C>T	p.%3D	p.V309V	ENST00000263317	10/18	87	82	5	131	131	0	NOX4,synonymous_variant,p.%3D,ENST00000527626,;NOX4,synonymous_variant,p.%3D,ENST00000535633,;NOX4,synonymous_variant,p.%3D,ENST00000534731,;NOX4,synonymous_variant,p.%3D,ENST00000263317,;NOX4,synonymous_variant,p.%3D,ENST00000527956,;NOX4,synonymous_variant,p.%3D,ENST00000542487,;NOX4,synonymous_variant,p.%3D,ENST00000528341,;NOX4,synonymous_variant,p.%3D,ENST00000343727,;NOX4,synonymous_variant,p.%3D,ENST00000413594,;NOX4,synonymous_variant,p.%3D,ENST00000532825,;NOX4,synonymous_variant,p.%3D,ENST00000424319,;NOX4,intron_variant,,ENST00000531342,;NOX4,intron_variant,,ENST00000375979,;NOX4,intron_variant,,ENST00000525196,;NOX4,intron_variant,,ENST00000529343,;	A	ENSG00000086991	ENST00000263317	Transcript	synonymous_variant	1166	927	309	V	gtC/gtT	rs758174451	.	.	-1	NOX4	HGNC	7891	protein_coding	YES	CCDS8285.1	ENSP00000263317	NOX4_HUMAN	E7EMD7_HUMAN	UPI000045655B	.	.	.	10/18	.	PROSITE_profiles:PS51384,hmmpanther:PTHR11972,Pfam_domain:PF08022,Gene3D:2.40.30.10,Superfamily_domains:SSF63380	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGGTGACTGG	.	2	BLCA
FAT3	0	.	GRCh37	11	92577489	92577489	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10956C>A	p.%3D	p.R3652R	ENST00000298047	18/27	100	94	6	110	110	0	FAT3,synonymous_variant,p.%3D,ENST00000298047,;FAT3,synonymous_variant,p.%3D,ENST00000409404,;FAT3,synonymous_variant,p.%3D,ENST00000525166,;FAT3,upstream_gene_variant,,ENST00000533797,;	A	ENSG00000165323	ENST00000298047	Transcript	synonymous_variant	10973	10956	3652	R	cgC/cgA	.	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	.	18/27	.	hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCCGCTTTGA	.	2	BLCA
MTMR2	0	.	GRCh37	11	95598836	95598836	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.191T>C	p.Leu64Pro	p.L64P	ENST00000346299	3/15	79	75	4	96	96	0	MTMR2,missense_variant,p.Leu64Pro,ENST00000346299,;MTMR2,5_prime_UTR_variant,,ENST00000444541,;MTMR2,5_prime_UTR_variant,,ENST00000393223,;MTMR2,5_prime_UTR_variant,,ENST00000352297,;MTMR2,5_prime_UTR_variant,,ENST00000409459,;MTMR2,non_coding_transcript_exon_variant,,ENST00000484818,;MTMR2,non_coding_transcript_exon_variant,,ENST00000470293,;MTMR2,non_coding_transcript_exon_variant,,ENST00000495134,;MTMR2,non_coding_transcript_exon_variant,,ENST00000485740,;MTMR2,non_coding_transcript_exon_variant,,ENST00000497683,;MTMR2,non_coding_transcript_exon_variant,,ENST00000472423,;MTMR2,downstream_gene_variant,,ENST00000481642,;	G	ENSG00000087053	ENST00000346299	Transcript	missense_variant	532	191	64	L/P	cTg/cCg	.	.	.	-1	MTMR2	HGNC	7450	protein_coding	YES	CCDS8305.1	ENSP00000345752	MTMR2_HUMAN	C9JEX3_HUMAN	UPI00001AF36F	.	tolerated(0.07)	possibly_damaging(0.62)	3/15	.	hmmpanther:PTHR10807,hmmpanther:PTHR10807:SF40	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCTCAGGACC	.	2	BLCA
SBF2	0	.	GRCh37	11	9871715	9871715	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2661G>A	p.%3D	p.E887E	ENST00000256190	22/40	91	74	17	91	91	0	SBF2,synonymous_variant,p.%3D,ENST00000256190,;SBF2,downstream_gene_variant,,ENST00000420722,;RP11-1H15.2,intron_variant,,ENST00000533659,;SBF2,non_coding_transcript_exon_variant,,ENST00000533770,;	T	ENSG00000133812	ENST00000256190	Transcript	synonymous_variant	2799	2661	887	E	gaG/gaA	.	.	.	-1	SBF2	HGNC	2135	protein_coding	YES	CCDS31427.1	ENSP00000256190	MTMRD_HUMAN	H0YDZ1_HUMAN	UPI00000622D5	.	.	.	22/40	.	Superfamily_domains:SSF50729,SMART_domains:SM00568,Pfam_domain:PF02893,hmmpanther:PTHR10807,hmmpanther:PTHR10807:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGACCCTCACA	.	5	BLCA
SPIC	0	.	GRCh37	12	101880233	101880234	+	Frame_Shift_Ins	INS	-	-	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.437dupA	p.Asn146LysfsTer50	p.N146Kfs*50	ENST00000551346	6/6	76	68	8	97	97	0	SPIC,frameshift_variant,p.Asn146LysfsTer50,ENST00000551346,;SPIC,frameshift_variant,p.Asn146LysfsTer50,ENST00000299272,;	A	ENSG00000166211	ENST00000551346	Transcript	frameshift_variant	590-591	431-432	144	S/SX	tca/tcAa	COSM1358152	.	.	1	SPIC	HGNC	29549	protein_coding	YES	CCDS9082.1	ENSP00000448580	SPIC_HUMAN	.	UPI0000073CD8	.	.	.	6/6	.	PROSITE_profiles:PS50061,hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF17,Gene3D:1.10.10.10,Pfam_domain:PF00178,SMART_domains:SM00413,Superfamily_domains:SSF46785,Prints_domain:PR00454	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	insertion	.	6	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGTATCAAAAA	.	3	BLCA
TMEM119	0	.	GRCh37	12	108985879	108985879	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.281A>T	p.Tyr94Phe	p.Y94F	ENST00000392806	2/2	54	45	9	86	86	0	TMEM119,missense_variant,p.Tyr94Phe,ENST00000392806,;TMEM119,missense_variant,p.Tyr94Phe,ENST00000549031,;TMEM119,downstream_gene_variant,,ENST00000547567,;TMEM119,downstream_gene_variant,,ENST00000549447,;	A	ENSG00000183160	ENST00000392806	Transcript	missense_variant	450	281	94	Y/F	tAc/tTc	.	.	.	-1	TMEM119	HGNC	27884	protein_coding	YES	CCDS9119.1	ENSP00000376553	TM119_HUMAN	F8W0W9_HUMAN,F8VZL0_HUMAN,F8VS22_HUMAN	UPI0000049333	.	deleterious(0.01)	probably_damaging(0.969)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACGTACTGG	.	5	BLCA
GIT2	0	.	GRCh37	12	110383093	110383093	+	Missense_Mutation	SNP	G	G	T	rs773484065	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1703C>A	p.Ser568Tyr	p.S568Y	ENST00000355312	16/20	38	33	4	40	40	0	GIT2,missense_variant,p.Ser470Tyr,ENST00000338373,;GIT2,missense_variant,p.Ser568Tyr,ENST00000355312,;GIT2,missense_variant,p.Ser517Tyr,ENST00000551209,;GIT2,missense_variant,p.Ser518Tyr,ENST00000360185,;GIT2,intron_variant,,ENST00000361006,;GIT2,intron_variant,,ENST00000356259,;GIT2,intron_variant,,ENST00000457474,;GIT2,intron_variant,,ENST00000550186,;GIT2,intron_variant,,ENST00000553118,;GIT2,intron_variant,,ENST00000343646,;GIT2,intron_variant,,ENST00000354574,;GIT2,downstream_gene_variant,,ENST00000320063,;GIT2,downstream_gene_variant,,ENST00000547815,;TCHP,intron_variant,,ENST00000550780,;GIT2,upstream_gene_variant,,ENST00000548000,;GIT2,upstream_gene_variant,,ENST00000548655,;GIT2,intron_variant,,ENST00000549999,;TCHP,intron_variant,,ENST00000544838,;	T	ENSG00000139436	ENST00000355312	Transcript	missense_variant	1703	1703	568	S/Y	tCc/tAc	rs773484065,COSM1470504	.	.	-1	GIT2	HGNC	4273	protein_coding	YES	CCDS9138.1	ENSP00000347464	GIT2_HUMAN	.	UPI000012B4C5	.	tolerated(0.74)	benign(0.128)	16/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23180,hmmpanther:PTHR23180:SF215	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCAGGAAAGT	byFrequency	4	BLCA
TBX5	0	.	GRCh37	12	114832653	114832653	+	Missense_Mutation	SNP	C	C	T	rs557183241	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Val186Met	p.V186M	ENST00000310346	6/9	213	172	40	289	289	0	TBX5,missense_variant,p.Val186Met,ENST00000405440,;TBX5,missense_variant,p.Val136Met,ENST00000349716,;TBX5,missense_variant,p.Val186Met,ENST00000310346,;TBX5,missense_variant,p.Val186Met,ENST00000526441,;TBX5,downstream_gene_variant,,ENST00000552726,;	T	ENSG00000089225	ENST00000310346	Transcript	missense_variant	1223	556	186	V/M	Gtg/Atg	rs557183241,COSM1298954,COSM1298955	.	.	-1	TBX5	HGNC	11604	protein_coding	YES	CCDS9173.1	ENSP00000309913	TBX5_HUMAN	.	UPI0000136AA2	.	deleterious(0)	probably_damaging(0.99)	6/9	.	PROSITE_profiles:PS50252,hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF28,Gene3D:1h6fA00,Pfam_domain:PF00907,SMART_domains:SM00425,Superfamily_domains:SSF49417,Prints_domain:PR00937	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCACGATGT	by1000G	5	BLCA
COQ5	0	.	GRCh37	12	120966937	120966937	+	Missense_Mutation	SNP	G	G	A	rs371704051	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8C>T	p.Ala3Val	p.A3V	ENST00000288532	1/7	25	18	7	19	19	0	COQ5,missense_variant,p.Ala3Val,ENST00000445328,;COQ5,missense_variant,p.Ala3Val,ENST00000547943,;COQ5,missense_variant,p.Ala3Val,ENST00000288532,;COQ5,5_prime_UTR_variant,,ENST00000547736,;COQ5,5_prime_UTR_variant,,ENST00000552443,;COQ5,intron_variant,,ENST00000551769,;RNF10,upstream_gene_variant,,ENST00000539486,;COQ5,non_coding_transcript_exon_variant,,ENST00000547448,;	A	ENSG00000110871	ENST00000288532	Transcript	missense_variant	49	8	3	A/V	gCc/gTc	rs371704051	.	.	-1	COQ5	HGNC	28722	protein_coding	YES	CCDS31912.1	ENSP00000288532	COQ5_HUMAN	F8VVX6_HUMAN,F8VP53_HUMAN	UPI00001592AF	.	tolerated_low_confidence(0.07)	benign(0.037)	1/7	.	.	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGGGGGCCGCC	byFrequency|byCluster	2	BLCA
SPPL3	0	.	GRCh37	12	121248685	121248685	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.28T>C	p.Tyr10His	p.Y10H	ENST00000353487	2/11	105	84	20	142	142	0	SPPL3,missense_variant,p.Tyr10His,ENST00000353487,;SPPL3,5_prime_UTR_variant,,ENST00000543608,;SPPL3,5_prime_UTR_variant,,ENST00000540091,;SPPL3,5_prime_UTR_variant,,ENST00000543181,;SPPL3,5_prime_UTR_variant,,ENST00000536996,;SPPL3,5_prime_UTR_variant,,ENST00000543854,;	G	ENSG00000157837	ENST00000353487	Transcript	missense_variant	532	28	10	Y/H	Tat/Cat	.	.	.	-1	SPPL3	HGNC	30424	protein_coding	YES	CCDS9208.1	ENSP00000288680	SPPL3_HUMAN	F5H7J2_HUMAN,F5H6I1_HUMAN,F5H4Y6_HUMAN,F5H4L1_HUMAN,F5H2A2_HUMAN	UPI0000013590	.	deleterious(0.03)	benign(0.305)	2/11	.	hmmpanther:PTHR12174,hmmpanther:PTHR12174:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAATAGGCCC	.	4	BLCA
RSRC2	0	.	GRCh37	12	122995696	122995696	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.765G>C	p.Lys255Asn	p.K255N	ENST00000331738	7/10	45	37	7	52	52	0	RSRC2,missense_variant,p.Lys255Asn,ENST00000331738,;RSRC2,missense_variant,p.Lys196Asn,ENST00000344591,;RSRC2,missense_variant,p.Lys207Asn,ENST00000354654,;RSRC2,non_coding_transcript_exon_variant,,ENST00000392442,;RSRC2,upstream_gene_variant,,ENST00000525332,;RSRC2,3_prime_UTR_variant,,ENST00000527399,;RSRC2,3_prime_UTR_variant,,ENST00000528263,;RSRC2,3_prime_UTR_variant,,ENST00000532695,;RSRC2,3_prime_UTR_variant,,ENST00000433877,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527173,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525335,;RSRC2,upstream_gene_variant,,ENST00000531389,;RSRC2,downstream_gene_variant,,ENST00000524399,;RSRC2,downstream_gene_variant,,ENST00000527796,;	G	ENSG00000111011	ENST00000331738	Transcript	missense_variant	911	765	255	K/N	aaG/aaC	.	.	.	-1	RSRC2	HGNC	30559	protein_coding	YES	CCDS31920.1	ENSP00000330188	RSRC2_HUMAN	.	UPI00001FB8BB	.	tolerated(0.06)	unknown(0)	7/10	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10548,hmmpanther:PTHR10548:SF88	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTCCTTTTC	.	5	BLCA
GALNT9	0	.	GRCh37	12	132688236	132688236	+	Splice_Site	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-21-1G>T	.	.	ENST00000397325	.	41	36	4	67	67	0	GALNT9,splice_acceptor_variant,,ENST00000541995,;GALNT9,splice_acceptor_variant,,ENST00000397325,;GALNT9,splice_acceptor_variant,,ENST00000411988,;GALNT9,splice_acceptor_variant,,ENST00000542942,;GALNT9,splice_acceptor_variant,,ENST00000538356,;GALNT9,splice_acceptor_variant,,ENST00000328957,;GALNT9,splice_acceptor_variant,,ENST00000535228,;	A	ENSG00000182870	ENST00000397325	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	GALNT9	HGNC	4131	protein_coding	YES	CCDS41866.1	ENSP00000380488	GALT9_HUMAN	F5H557_HUMAN,F5H317_HUMAN	UPI000006CCBE	.	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACACCTGCGG	.	4	BLCA
EPS8	0	.	GRCh37	12	15800125	15800125	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1504T>A	p.Ser502Thr	p.S502T	ENST00000281172	15/21	73	59	13	84	84	0	EPS8,missense_variant,p.Ser242Thr,ENST00000540613,;EPS8,missense_variant,p.Ser242Thr,ENST00000542903,;EPS8,missense_variant,p.Ser502Thr,ENST00000543612,;EPS8,missense_variant,p.Ser502Thr,ENST00000281172,;EPS8,missense_variant,p.Ser502Thr,ENST00000543523,;EPS8,3_prime_UTR_variant,,ENST00000543468,;EPS8,non_coding_transcript_exon_variant,,ENST00000541465,;	T	ENSG00000151491	ENST00000281172	Transcript	missense_variant	1941	1504	502	S/T	Tcc/Acc	.	.	.	-1	EPS8	HGNC	3420	protein_coding	YES	CCDS31753.1	ENSP00000281172	EPS8_HUMAN	F5H3Q6_HUMAN,F5H2B8_HUMAN,F5H1B5_HUMAN,F5GYM8_HUMAN,B4DX66_HUMAN	UPI000012A0BC	.	tolerated(0.5)	benign(0)	15/21	.	hmmpanther:PTHR12287,hmmpanther:PTHR12287:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGGATCCTC	.	5	BLCA
LRMP	0	.	GRCh37	12	25249925	25249925	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.688C>T	p.Gln230Ter	p.Q230*	ENST00000354454	14/21	122	117	5	106	106	0	LRMP,stop_gained,p.Gln177Ter,ENST00000536173,;LRMP,stop_gained,p.Gln230Ter,ENST00000354454,;LRMP,stop_gained,p.Gln230Ter,ENST00000548766,;LRMP,stop_gained,p.Gln230Ter,ENST00000547044,;RP11-713N11.4,non_coding_transcript_exon_variant,,ENST00000555862,;LRMP,stop_gained,p.Gln21Ter,ENST00000555877,;LRMP,stop_gained,p.Gln230Ter,ENST00000361433,;LRMP,non_coding_transcript_exon_variant,,ENST00000553398,;LRMP,non_coding_transcript_exon_variant,,ENST00000549437,;RP11-713N11.3,upstream_gene_variant,,ENST00000555897,;	T	ENSG00000118308	ENST00000354454	Transcript	stop_gained	1517	688	230	Q/*	Cag/Tag	.	.	.	1	LRMP	HGNC	6690	protein_coding	YES	CCDS8701.1	ENSP00000346442	LRMP_HUMAN	G3V513_HUMAN,G3V2F6_HUMAN,F8W9L6_HUMAN,F8VRE4_HUMAN,F5H006_HUMAN	UPI000034ECC4	.	.	.	14/21	.	hmmpanther:PTHR15352,Pfam_domain:PF05781	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTAGCCAGTGT	.	2	BLCA
LRMP	0	.	GRCh37	12	25254227	25254227	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.857A>T	p.Asn286Ile	p.N286I	ENST00000354454	15/21	69	64	5	52	52	0	LRMP,missense_variant,p.Asn233Ile,ENST00000536173,;LRMP,missense_variant,p.Asn286Ile,ENST00000354454,;LRMP,missense_variant,p.Asn286Ile,ENST00000548766,;LRMP,missense_variant,p.Asn286Ile,ENST00000547044,;RP11-713N11.4,upstream_gene_variant,,ENST00000555862,;LRMP,missense_variant,p.Asn77Ile,ENST00000555877,;LRMP,missense_variant,p.Asn286Ile,ENST00000361433,;LRMP,non_coding_transcript_exon_variant,,ENST00000553398,;LRMP,non_coding_transcript_exon_variant,,ENST00000549437,;LRMP,upstream_gene_variant,,ENST00000555194,;	T	ENSG00000118308	ENST00000354454	Transcript	missense_variant	1686	857	286	N/I	aAt/aTt	.	.	.	1	LRMP	HGNC	6690	protein_coding	YES	CCDS8701.1	ENSP00000346442	LRMP_HUMAN	G3V513_HUMAN,G3V2F6_HUMAN,F8W9L6_HUMAN,F8VRE4_HUMAN,F5H006_HUMAN	UPI000034ECC4	.	deleterious(0)	probably_damaging(1)	15/21	.	hmmpanther:PTHR15352,Pfam_domain:PF05781	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAGAATGAAA	.	2	BLCA
IFLTD1	0	.	GRCh37	12	25705912	25705912	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-19G>C	.	.	ENST00000458174	2/10	18	15	3	20	20	0	IFLTD1,5_prime_UTR_variant,,ENST00000458174,;IFLTD1,5_prime_UTR_variant,,ENST00000413632,;IFLTD1,intron_variant,,ENST00000545543,;IFLTD1,intron_variant,,ENST00000282881,;IFLTD1,intron_variant,,ENST00000540106,;IFLTD1,intron_variant,,ENST00000538178,;IFLTD1,intron_variant,,ENST00000542224,;IFLTD1,intron_variant,,ENST00000445693,;IFLTD1,intron_variant,,ENST00000539744,;	G	ENSG00000152936	ENST00000458174	Transcript	5_prime_UTR_variant	227	.	.	.	.	.	.	.	-1	IFLTD1	HGNC	26683	protein_coding	YES	CCDS44849.1	ENSP00000407353	ILFT1_HUMAN	H0YFE3_HUMAN,F5H8G2_HUMAN,F5H719_HUMAN,F5H5I3_HUMAN,F5H3Q3_HUMAN	UPI0000E004B3	.	.	.	2/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAGTCTCTTT	.	2	BLCA
ASUN	0	.	GRCh37	12	27066991	27066992	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489dupA	p.Thr497AsnfsTer7	p.T497Nfs*7	ENST00000261191	13/17	99	86	13	55	55	0	ASUN,frameshift_variant,p.Thr211AsnfsTer7,ENST00000542392,;ASUN,frameshift_variant,p.Thr144AsnfsTer7,ENST00000538155,;ASUN,frameshift_variant,p.Thr497AsnfsTer7,ENST00000261191,;ASUN,frameshift_variant,p.Thr396AsnfsTer7,ENST00000539625,;ASUN,frameshift_variant,p.Thr150AsnfsTer?,ENST00000536232,;	T	ENSG00000064102	ENST00000261191	Transcript	frameshift_variant	2026-2027	1489-1490	497	T/NX	aca/aAca	.	.	.	-1	ASUN	HGNC	20174	protein_coding	YES	CCDS8708.1	ENSP00000261191	ASUN_HUMAN	F8VRX9_HUMAN,F5H5W1_HUMAN,F5H457_HUMAN,B4DNK1_HUMAN	UPI0000044950	.	.	.	13/17	.	Pfam_domain:PF10221,hmmpanther:PTHR12955,hmmpanther:PTHR12955:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATATTGTTTTT	.	3	BLCA
CACNA1C	0	.	GRCh37	12	2760755	2760755	+	Intron	SNP	C	C	T	rs202216172	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4090-51C>T	.	.	ENST00000347598	.	57	44	12	88	88	0	CACNA1C,missense_variant,p.His1321Tyr,ENST00000344100,;CACNA1C,intron_variant,,ENST00000399644,;CACNA1C,intron_variant,,ENST00000399595,;CACNA1C,intron_variant,,ENST00000406454,;CACNA1C,intron_variant,,ENST00000399617,;CACNA1C,intron_variant,,ENST00000347598,;CACNA1C,intron_variant,,ENST00000402845,;CACNA1C,intron_variant,,ENST00000327702,;CACNA1C,intron_variant,,ENST00000399634,;CACNA1C,intron_variant,,ENST00000399641,;CACNA1C,intron_variant,,ENST00000399603,;CACNA1C,intron_variant,,ENST00000399629,;CACNA1C,intron_variant,,ENST00000399601,;CACNA1C,intron_variant,,ENST00000399597,;CACNA1C,intron_variant,,ENST00000399655,;CACNA1C,intron_variant,,ENST00000399606,;CACNA1C,intron_variant,,ENST00000399637,;CACNA1C,intron_variant,,ENST00000335762,;CACNA1C,intron_variant,,ENST00000399591,;CACNA1C,intron_variant,,ENST00000399621,;CACNA1C,intron_variant,,ENST00000399638,;CACNA1C,intron_variant,,ENST00000399649,;CACNA1C,intron_variant,,ENST00000483136,;CACNA1C,non_coding_transcript_exon_variant,,ENST00000492150,;	T	ENSG00000151067	ENST00000347598	Transcript	intron_variant	.	.	.	.	.	rs202216172	.	.	1	CACNA1C	HGNC	1390	protein_coding	YES	CCDS44788.1	ENSP00000266376	CAC1C_HUMAN	Q86XX0_HUMAN,O95234_HUMAN	UPI0000E593E5	.	.	.	.	33/48	.	.	.	.	.	.	.	.	.	.	uncertain_significance	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCACCCC	byCluster	5	BLCA
FKBP4	0	.	GRCh37	12	2907949	2907949	+	Silent	SNP	C	C	T	rs776356873	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.471C>T	p.%3D	p.R157R	ENST00000001008	4/10	62	57	5	115	115	0	FKBP4,synonymous_variant,p.%3D,ENST00000001008,;FKBP4,upstream_gene_variant,,ENST00000539181,;FKBP4,downstream_gene_variant,,ENST00000538622,;FKBP4,upstream_gene_variant,,ENST00000544366,;RP4-816N1.6,intron_variant,,ENST00000547834,;RP4-816N1.7,intron_variant,,ENST00000547042,;CBX3P4,upstream_gene_variant,,ENST00000540428,;FKBP4,downstream_gene_variant,,ENST00000540260,;FKBP4,non_coding_transcript_exon_variant,,ENST00000543037,;FKBP4,downstream_gene_variant,,ENST00000543769,;	T	ENSG00000004478	ENST00000001008	Transcript	synonymous_variant	658	471	157	R	cgC/cgT	rs776356873	.	.	1	FKBP4	HGNC	3720	protein_coding	YES	CCDS8512.1	ENSP00000001008	FKBP4_HUMAN	F5H1U3_HUMAN	UPI000013C4D0	.	.	.	4/10	.	hmmpanther:PTHR10516:SF25,hmmpanther:PTHR10516,Gene3D:3.10.50.40,Superfamily_domains:SSF54534	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACTCGCGGTGA	byFrequency	3	BLCA
DENND5B	0	.	GRCh37	12	31566371	31566371	+	Missense_Mutation	SNP	T	T	C	rs199566202	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2680A>G	p.Lys894Glu	p.K894E	ENST00000389082	13/21	55	50	5	62	62	0	DENND5B,missense_variant,p.Lys929Glu,ENST00000536562,;DENND5B,missense_variant,p.Lys929Glu,ENST00000306833,;DENND5B,missense_variant,p.Lys894Glu,ENST00000389082,;	C	ENSG00000170456	ENST00000389082	Transcript	missense_variant	2945	2680	894	K/E	Aag/Gag	rs199566202	.	.	-1	DENND5B	HGNC	28338	protein_coding	YES	CCDS44857.1	ENSP00000373734	DEN5B_HUMAN	.	UPI0000E23226	.	deleterious(0.02)	benign(0.347)	13/21	.	Superfamily_domains:0052343,SMART_domains:SM00593,Pfam_domain:PF02759,hmmpanther:PTHR10877:SF45,hmmpanther:PTHR10877,PROSITE_profiles:PS50826	.	.	.	.	.	.	.	C:0.0003	C:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTACTTGGTGA	byCluster	4	BLCA
ALG10B	0	.	GRCh37	12	38714286	38714286	+	Frame_Shift_Del	DEL	A	A	-	rs776887782	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.697delA	p.Ile233PhefsTer15	p.I233Ffs*15	ENST00000308742	3/3	134	123	11	155	155	0	ALG10B,frameshift_variant,p.Ile233PhefsTer15,ENST00000308742,;ALG10B,intron_variant,,ENST00000551464,;AC117372.1,downstream_gene_variant,,ENST00000401168,;ALG10B,3_prime_UTR_variant,,ENST00000548240,;ALG10B,downstream_gene_variant,,ENST00000553138,;	-	ENSG00000175548	ENST00000308742	Transcript	frameshift_variant	1009	693	231	R/X	agA/ag	rs776887782	.	.	1	ALG10B	HGNC	31088	protein_coding	YES	CCDS31772.1	ENSP00000310120	AG10B_HUMAN	.	UPI000013EDA4	.	.	.	3/3	.	hmmpanther:PTHR12989:SF12,hmmpanther:PTHR12989,Pfam_domain:PF04922,PIRSF_domain:PIRSF028810	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	ATTCAGAAAAAT	.	2	BLCA
COL2A1	0	.	GRCh37	12	48369344	48369345	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3641dupC	p.Gly1215TrpfsTer38	p.G1215Wfs*38	ENST00000380518	51/54	44	37	7	39	39	0	COL2A1,frameshift_variant,p.Gly1215TrpfsTer38,ENST00000380518,;COL2A1,frameshift_variant,p.Gly1146TrpfsTer38,ENST00000337299,;COL2A1,non_coding_transcript_exon_variant,,ENST00000493991,;COL2A1,non_coding_transcript_exon_variant,,ENST00000546974,;	G	ENSG00000139219	ENST00000380518	Transcript	frameshift_variant	3806-3807	3641-3642	1214	P/PX	cct/ccCt	.	.	.	-1	COL2A1	HGNC	2200	protein_coding	YES	CCDS41778.1	ENSP00000369889	CO2A1_HUMAN	.	UPI0000D79713	.	.	.	51/54	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF58,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GGGCCAGGGGG	.	2	BLCA
KMT2D	0	.	GRCh37	12	49432040	49432040	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9099delC	p.Asn3034MetfsTer37	p.N3034Mfs*37	ENST00000301067	34/54	31	27	4	53	53	0	KMT2D,frameshift_variant,p.Asn3034MetfsTer37,ENST00000301067,;KMT2D,downstream_gene_variant,,ENST00000549799,;KMT2D,upstream_gene_variant,,ENST00000549743,;KMT2D,downstream_gene_variant,,ENST00000550356,;	-	ENSG00000167548	ENST00000301067	Transcript	frameshift_variant	9099	9099	3033	T/X	acC/ac	.	.	.	-1	KMT2D	HGNC	7133	protein_coding	YES	CCDS44873.1	ENSP00000301067	KMT2D_HUMAN	Q6PIA1_HUMAN,Q59FG6_HUMAN,F8VWW4_HUMAN	UPI0000EE84D6	.	.	.	34/54	.	hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GTCATTGGTCTC	.	2	BLCA
NR4A1	0	.	GRCh37	12	52450304	52450304	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1072C>T	p.Arg358Trp	p.R358W	ENST00000360284	5/8	110	96	14	186	186	0	NR4A1,missense_variant,p.Arg345Trp,ENST00000394824,;NR4A1,missense_variant,p.Arg358Trp,ENST00000550082,;NR4A1,missense_variant,p.Arg345Trp,ENST00000243050,;NR4A1,missense_variant,p.Arg358Trp,ENST00000360284,;NR4A1,missense_variant,p.Arg345Trp,ENST00000394825,;NR4A1,missense_variant,p.Arg399Trp,ENST00000545748,;NR4A1,downstream_gene_variant,,ENST00000562373,;NR4A1,downstream_gene_variant,,ENST00000550763,;NR4A1,downstream_gene_variant,,ENST00000548232,;NR4A1,downstream_gene_variant,,ENST00000546842,;NR4A1,upstream_gene_variant,,ENST00000550582,;NR4A1,downstream_gene_variant,,ENST00000548977,;RP11-1100L3.8,downstream_gene_variant,,ENST00000564363,;RP11-1100L3.8,downstream_gene_variant,,ENST00000564531,;NR4A1,non_coding_transcript_exon_variant,,ENST00000548733,;NR4A1,downstream_gene_variant,,ENST00000547206,;NR4A1,non_coding_transcript_exon_variant,,ENST00000550339,;NR4A1,non_coding_transcript_exon_variant,,ENST00000564201,;NR4A1,non_coding_transcript_exon_variant,,ENST00000550557,;NR4A1,intron_variant,,ENST00000567890,;NR4A1,downstream_gene_variant,,ENST00000549102,;NR4A1,upstream_gene_variant,,ENST00000565848,;NR4A1,downstream_gene_variant,,ENST00000478250,;	T	ENSG00000123358	ENST00000360284	Transcript	missense_variant	1263	1072	358	R/W	Cgg/Tgg	COSM1676975,COSM1676974	.	.	1	NR4A1	HGNC	7980	protein_coding	YES	CCDS55828.1	ENSP00000353427	NR4A1_HUMAN	H3BT85_HUMAN,H3BSB9_HUMAN,H3BPN8_HUMAN	UPI00001FC28B	.	deleterious(0)	probably_damaging(0.998)	5/8	.	hmmpanther:PTHR24085:SF1,hmmpanther:PTHR24085,Gene3D:1.10.565.10,Superfamily_domains:SSF48508,Prints_domain:PR01284	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGGGCGGCGG	.	4	BLCA
AMHR2	0	.	GRCh37	12	53819354	53819354	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618C>T	p.%3D	p.S206S	ENST00000257863	5/11	33	30	3	36	36	0	AMHR2,synonymous_variant,p.%3D,ENST00000550311,;AMHR2,synonymous_variant,p.%3D,ENST00000257863,;AMHR2,synonymous_variant,p.%3D,ENST00000379791,;AMHR2,intron_variant,,ENST00000550839,;AMHR2,non_coding_transcript_exon_variant,,ENST00000548303,;AMHR2,intron_variant,,ENST00000552233,;AMHR2,downstream_gene_variant,,ENST00000553037,;	T	ENSG00000135409	ENST00000257863	Transcript	synonymous_variant	698	618	206	S	tcC/tcT	COSM941002	.	.	1	AMHR2	HGNC	465	protein_coding	YES	CCDS8858.1	ENSP00000257863	AMHR2_HUMAN	H3BPI9_HUMAN	UPI0000125970	.	.	.	5/11	.	Superfamily_domains:SSF56112,PIRSF_domain:PIRSF037392,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR23255:SF49,hmmpanther:PTHR23255,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTCCCAGGT	.	2	BLCA
ERBB3	0	.	GRCh37	12	56495941	56495941	+	3'UTR	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*105delT	.	.	ENST00000267101	28/28	32	27	5	36	36	0	ERBB3,3_prime_UTR_variant,,ENST00000415288,;ERBB3,3_prime_UTR_variant,,ENST00000450146,;ERBB3,3_prime_UTR_variant,,ENST00000267101,;ERBB3,3_prime_UTR_variant,,ENST00000550070,;ERBB3,3_prime_UTR_variant,,ENST00000553131,;ERBB3,3_prime_UTR_variant,,ENST00000549832,;RP11-603J24.9,intron_variant,,ENST00000548861,;PA2G4,upstream_gene_variant,,ENST00000552766,;PA2G4,upstream_gene_variant,,ENST00000551061,;PA2G4,upstream_gene_variant,,ENST00000303305,;PA2G4,upstream_gene_variant,,ENST00000553057,;RP11-603J24.17,downstream_gene_variant,,ENST00000548595,;ERBB3,3_prime_UTR_variant,,ENST00000551242,;PA2G4,upstream_gene_variant,,ENST00000550166,;ERBB3,downstream_gene_variant,,ENST00000551085,;ERBB3,downstream_gene_variant,,ENST00000548709,;ERBB3,downstream_gene_variant,,ENST00000552691,;	-	ENSG00000065361	ENST00000267101	Transcript	3_prime_UTR_variant	4571	.	.	.	.	.	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	.	.	28/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	AGCCCCTTTTCC	.	2	BLCA
LRP1	0	.	GRCh37	12	57552247	57552247	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1624G>C	p.Asp542His	p.D542H	ENST00000243077	11/89	48	45	3	63	63	0	LRP1,missense_variant,p.Asp542His,ENST00000243077,;LRP1,downstream_gene_variant,,ENST00000554174,;	C	ENSG00000123384	ENST00000243077	Transcript	missense_variant	2090	1624	542	D/H	Gat/Cat	.	.	.	1	LRP1	HGNC	6692	protein_coding	YES	CCDS8932.1	ENSP00000243077	LRP1_HUMAN	Q6LBN5_HUMAN,Q6LAF4_HUMAN	UPI00001B044F	.	.	probably_damaging(0.979)	11/89	.	hmmpanther:PTHR10529:SF100,hmmpanther:PTHR10529,Gene3D:2.120.10.30,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCATGGATATG	.	2	BLCA
CDK4	0	.	GRCh37	12	58145367	58145369	+	In_Frame_Del	DEL	CCT	CCT	-	rs770784286	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	CCT	CCT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.132_134delAGG	p.Gly48del	p.G48del	ENST00000257904	2/8	74	65	9	91	91	0	CDK4,inframe_deletion,p.Gly48del,ENST00000552254,;CDK4,inframe_deletion,p.Gly48del,ENST00000552862,;CDK4,inframe_deletion,p.Gly48del,ENST00000312990,;CDK4,inframe_deletion,p.Gly48del,ENST00000257904,;CDK4,inframe_deletion,p.Gly48del,ENST00000552388,;CDK4,5_prime_UTR_variant,,ENST00000547281,;CDK4,5_prime_UTR_variant,,ENST00000551800,;CDK4,5_prime_UTR_variant,,ENST00000540325,;CDK4,intron_variant,,ENST00000546489,;CDK4,intron_variant,,ENST00000549606,;CDK4,downstream_gene_variant,,ENST00000547853,;TSPAN31,downstream_gene_variant,,ENST00000552816,;TSPAN31,downstream_gene_variant,,ENST00000548167,;TSPAN31,downstream_gene_variant,,ENST00000547472,;MARCH9,upstream_gene_variant,,ENST00000266643,;TSPAN31,downstream_gene_variant,,ENST00000547992,;TSPAN31,downstream_gene_variant,,ENST00000257910,;CDK4,non_coding_transcript_exon_variant,,ENST00000551888,;TSPAN31,downstream_gene_variant,,ENST00000553221,;CDK4,inframe_deletion,p.Gly48del,ENST00000550419,;CDK4,inframe_deletion,p.Gly48del,ENST00000553237,;CDK4,non_coding_transcript_exon_variant,,ENST00000551706,;TSPAN31,downstream_gene_variant,,ENST00000550791,;TSPAN31,downstream_gene_variant,,ENST00000546993,;TSPAN31,downstream_gene_variant,,ENST00000546922,;CDK4,upstream_gene_variant,,ENST00000552713,;TSPAN31,downstream_gene_variant,,ENST00000549052,;MARCH9,upstream_gene_variant,,ENST00000552279,;TSPAN31,downstream_gene_variant,,ENST00000553089,;	-	ENSG00000135446	ENST00000257904	Transcript	inframe_deletion	498-500	132-134	44-45	GG/G	ggAGGt/ggt	rs770784286	.	.	-1	CDK4	HGNC	1773	protein_coding	YES	CCDS8953.1	ENSP00000257904	CDK4_HUMAN	Q6LC83_HUMAN,F8W1L8_HUMAN,F8VZZ0_HUMAN,F8VZ51_HUMAN,F8VZ13_HUMAN,F8VYH9_HUMAN,F8VXD2_HUMAN,F8VWX7_HUMAN,B4DNF9_HUMAN	UPI0000113582	.	.	.	2/8	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR24056,hmmpanther:PTHR24056:SF129,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CCTCCACCTCCTCC	byFrequency	2	BLCA
SLC16A7	0	.	GRCh37	12	60173277	60173277	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1254C>T	p.%3D	p.S418S	ENST00000261187	5/5	48	45	3	59	59	0	SLC16A7,synonymous_variant,p.%3D,ENST00000543448,;SLC16A7,synonymous_variant,p.%3D,ENST00000552432,;SLC16A7,synonymous_variant,p.%3D,ENST00000261187,;SLC16A7,synonymous_variant,p.%3D,ENST00000548610,;SLC16A7,synonymous_variant,p.%3D,ENST00000547379,;SLC16A7,synonymous_variant,p.%3D,ENST00000552024,;SLC16A7,downstream_gene_variant,,ENST00000548444,;SLC16A7,3_prime_UTR_variant,,ENST00000549033,;SLC16A7,3_prime_UTR_variant,,ENST00000549928,;	T	ENSG00000118596	ENST00000261187	Transcript	synonymous_variant	1418	1254	418	S	agC/agT	.	.	.	1	SLC16A7	HGNC	10928	protein_coding	YES	CCDS8961.1	ENSP00000261187	MOT2_HUMAN	F8W0N3_HUMAN,F8VS95_HUMAN,F5H843_HUMAN	UPI00000722FD	.	.	.	5/5	.	Superfamily_domains:SSF103473,TIGRFAM_domain:TIGR00892,Gene3D:1.20.1250.20,hmmpanther:PTHR11360,hmmpanther:PTHR11360:SF25,PROSITE_profiles:PS50850,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAAGCGTGTG	.	2	BLCA
CAND1	0	.	GRCh37	12	67696168	67696168	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066T>C	p.Cys356Arg	p.C356R	ENST00000545606	8/15	130	111	19	216	216	0	CAND1,missense_variant,p.Cys356Arg,ENST00000545606,;CAND1,missense_variant,p.Cys64Arg,ENST00000544619,;CAND1,missense_variant,p.Cys238Arg,ENST00000540319,;CAND1,downstream_gene_variant,,ENST00000535146,;	C	ENSG00000111530	ENST00000545606	Transcript	missense_variant	1503	1066	356	C/R	Tgc/Cgc	.	.	.	1	CAND1	HGNC	30688	protein_coding	YES	CCDS8977.1	ENSP00000442318	CAND1_HUMAN	F5H6I6_HUMAN,B3KMG3_HUMAN	UPI0000037CC5	.	deleterious(0)	probably_damaging(0.973)	8/15	.	hmmpanther:PTHR12696:SF1,hmmpanther:PTHR12696,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A354A|c.1062G>A|3	RADIA|MUTECT|MUSE|VARSCANS	CGAAGTGCTTG	.	4	BLCA
LPCAT3	0	.	GRCh37	12	7086336	7086336	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1436G>T	p.Arg479Met	p.R479M	ENST00000261407	12/13	67	51	16	81	80	0	LPCAT3,missense_variant,p.Arg479Met,ENST00000261407,;EMG1,downstream_gene_variant,,ENST00000261406,;U47924.30,upstream_gene_variant,,ENST00000606112,;LPCAT3,non_coding_transcript_exon_variant,,ENST00000535021,;EMG1,intron_variant,,ENST00000564245,;EMG1,intron_variant,,ENST00000539535,;LPCAT3,downstream_gene_variant,,ENST00000540060,;EMG1,downstream_gene_variant,,ENST00000541016,;LPCAT3,downstream_gene_variant,,ENST00000536971,;EMG1,downstream_gene_variant,,ENST00000607161,;LPCAT3,downstream_gene_variant,,ENST00000539868,;EMG1,downstream_gene_variant,,ENST00000539196,;EMG1,downstream_gene_variant,,ENST00000546220,;LPCAT3,downstream_gene_variant,,ENST00000545459,;LPCAT3,3_prime_UTR_variant,,ENST00000535479,;LPCAT3,downstream_gene_variant,,ENST00000540090,;EMG1,downstream_gene_variant,,ENST00000451846,;EMG1,downstream_gene_variant,,ENST00000539440,;LPCAT3,downstream_gene_variant,,ENST00000537179,;LPCAT3,downstream_gene_variant,,ENST00000536797,;LPCAT3,downstream_gene_variant,,ENST00000538910,;LPCAT3,downstream_gene_variant,,ENST00000538987,;LPCAT3,downstream_gene_variant,,ENST00000543794,;	A	ENSG00000111684	ENST00000261407	Transcript	missense_variant	1522	1436	479	R/M	aGg/aTg	.	.	.	-1	LPCAT3	HGNC	30244	protein_coding	YES	CCDS8572.1	ENSP00000261407	MBOA5_HUMAN	F5H0M4_HUMAN	UPI0000034DFC	.	deleterious(0)	probably_damaging(0.971)	12/13	.	hmmpanther:PTHR13906:SF9,hmmpanther:PTHR13906	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CTTTCCTTGGC	.	5	BLCA
TBC1D15	0	.	GRCh37	12	72274297	72274297	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253C>G	p.His85Asp	p.H85D	ENST00000550746	4/18	22	17	5	37	37	0	TBC1D15,missense_variant,p.His93Asp,ENST00000319106,;TBC1D15,missense_variant,p.His85Asp,ENST00000485960,;TBC1D15,missense_variant,p.His85Asp,ENST00000550746,;TBC1D15,5_prime_UTR_variant,,ENST00000491063,;TBC1D15,5_prime_UTR_variant,,ENST00000482439,;TBC1D15,5_prime_UTR_variant,,ENST00000393309,;TBC1D15,non_coding_transcript_exon_variant,,ENST00000546932,;TBC1D15,non_coding_transcript_exon_variant,,ENST00000474468,;TBC1D15,non_coding_transcript_exon_variant,,ENST00000460818,;TBC1D15,non_coding_transcript_exon_variant,,ENST00000549402,;TBC1D15,missense_variant,p.His85Asp,ENST00000462788,;TBC1D15,3_prime_UTR_variant,,ENST00000498482,;TBC1D15,intron_variant,,ENST00000468049,;TBC1D15,intron_variant,,ENST00000472611,;	G	ENSG00000121749	ENST00000550746	Transcript	missense_variant	317	253	85	H/D	Cat/Gat	.	.	.	1	TBC1D15	HGNC	25694	protein_coding	YES	CCDS31858.1	ENSP00000448182	TBC15_HUMAN	Q9NSR4_HUMAN,F8VV61_HUMAN,A8K8E1_HUMAN	UPI000049DD7C	.	tolerated(0.71)	benign(0.063)	4/18	.	hmmpanther:PTHR22957,hmmpanther:PTHR22957:SF250,Pfam_domain:PF12068	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGTCATCGA	.	5	BLCA
RBP5	0	.	GRCh37	12	7280888	7280888	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.200T>C	p.Val67Ala	p.V67A	ENST00000266560	2/4	36	27	9	58	58	0	RBP5,missense_variant,p.Val67Ala,ENST00000266560,;RBP5,missense_variant,p.Val67Ala,ENST00000542370,;CLSTN3,upstream_gene_variant,,ENST00000537408,;CLSTN3,upstream_gene_variant,,ENST00000539982,;CLSTN3,upstream_gene_variant,,ENST00000266546,;CLSTN3,upstream_gene_variant,,ENST00000535452,;CLSTN3,upstream_gene_variant,,ENST00000545663,;CLSTN3,upstream_gene_variant,,ENST00000541953,;CLSTN3,upstream_gene_variant,,ENST00000534830,;RP11-273B20.1,downstream_gene_variant,,ENST00000544657,;RP11-273B20.1,downstream_gene_variant,,ENST00000538062,;CLSTN3,upstream_gene_variant,,ENST00000541667,;RBP5,3_prime_UTR_variant,,ENST00000543045,;RBP5,non_coding_transcript_exon_variant,,ENST00000542784,;CLSTN3,upstream_gene_variant,,ENST00000538933,;	G	ENSG00000139194	ENST00000266560	Transcript	missense_variant	367	200	67	V/A	gTg/gCg	.	.	.	-1	RBP5	HGNC	15847	protein_coding	YES	CCDS8574.1	ENSP00000266560	RET5_HUMAN	.	UPI000013D6F8	.	deleterious(0)	benign(0.273)	2/4	.	hmmpanther:PTHR11955:SF74,hmmpanther:PTHR11955,Gene3D:2.40.128.20,Pfam_domain:PF00061,Superfamily_domains:SSF50814,Prints_domain:PR00178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCCACATCA	.	5	BLCA
SYT1	0	.	GRCh37	12	79813093	79813093	+	Intron	SNP	C	C	T	rs758584383	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929-24760C>T	.	.	ENST00000261205	.	66	53	12	60	60	0	SYT1,intron_variant,,ENST00000457153,;SYT1,intron_variant,,ENST00000393240,;SYT1,intron_variant,,ENST00000261205,;SYT1,intron_variant,,ENST00000552744,;MIR1252,non_coding_transcript_exon_variant,,ENST00000408861,;RP1-78O14.1,intron_variant,,ENST00000550268,;RP1-78O14.1,intron_variant,,ENST00000549527,;RP1-78O14.1,intron_variant,,ENST00000553165,;	T	ENSG00000067715	ENST00000261205	Transcript	intron_variant	.	.	.	.	.	rs758584383	.	.	1	SYT1	HGNC	11509	protein_coding	YES	CCDS9017.1	ENSP00000261205	SYT1_HUMAN	F8W1U9_HUMAN,F8VZY3_HUMAN,F8VYH8_HUMAN,F8VP93_HUMAN,C9JX50_HUMAN	UPI000013669A	.	.	.	.	9/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTCCTTTTT	.	5	BLCA
CLEC4E	0	.	GRCh37	12	8689799	8689799	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.284C>G	p.Ser95Cys	p.S95C	ENST00000299663	4/6	52	37	14	87	87	0	CLEC4E,missense_variant,p.Ser95Cys,ENST00000299663,;CLEC4E,missense_variant,p.Ser35Cys,ENST00000537698,;CLEC4E,intron_variant,,ENST00000545274,;CLEC4E,intron_variant,,ENST00000446457,;CLEC4E,intron_variant,,ENST00000450725,;CLEC4E,downstream_gene_variant,,ENST00000446809,;	C	ENSG00000166523	ENST00000299663	Transcript	missense_variant	450	284	95	S/C	tCt/tGt	COSM122191	.	.	-1	CLEC4E	HGNC	14555	protein_coding	YES	CCDS8594.1	ENSP00000299663	CLC4E_HUMAN	.	UPI0000037798	.	deleterious(0.02)	probably_damaging(0.999)	4/6	.	PROSITE_profiles:PS50041,hmmpanther:PTHR22802:SF217,hmmpanther:PTHR22802,Gene3D:3.10.100.10,SMART_domains:SM00034,Superfamily_domains:SSF56436	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F93L|c.279C>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGTAGAAAAG	.	5	BLCA
VEZT	0	.	GRCh37	12	95694441	95694441	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2332G>A	p.Glu778Lys	p.E778K	ENST00000436874	12/12	22	18	4	21	21	0	VEZT,missense_variant,p.Glu778Lys,ENST00000436874,;VEZT,missense_variant,p.Glu730Lys,ENST00000261219,;VEZT,downstream_gene_variant,,ENST00000397792,;VEZT,non_coding_transcript_exon_variant,,ENST00000356859,;VEZT,non_coding_transcript_exon_variant,,ENST00000550106,;VEZT,downstream_gene_variant,,ENST00000551695,;VEZT,downstream_gene_variant,,ENST00000546951,;VEZT,downstream_gene_variant,,ENST00000552306,;VEZT,3_prime_UTR_variant,,ENST00000547997,;VEZT,3_prime_UTR_variant,,ENST00000552660,;VEZT,3_prime_UTR_variant,,ENST00000548838,;VEZT,downstream_gene_variant,,ENST00000551994,;VEZT,downstream_gene_variant,,ENST00000549192,;	A	ENSG00000028203	ENST00000436874	Transcript	missense_variant	2437	2332	778	E/K	Gaa/Aaa	.	.	.	1	VEZT	HGNC	18258	protein_coding	YES	CCDS44954.1	ENSP00000410083	VEZA_HUMAN	.	UPI00001FB2EC	.	tolerated_low_confidence(0.07)	unknown(0)	12/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15989:SF5,hmmpanther:PTHR15989	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGAAGAAAAG	.	2	BLCA
WNK1	0	.	GRCh37	12	978034	978034	+	Intron	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2140-2397G>T	.	.	ENST00000315939	.	84	71	12	131	131	0	WNK1,stop_gained,p.Glu101Ter,ENST00000574679,;WNK1,stop_gained,p.Glu347Ter,ENST00000574564,;WNK1,stop_gained,p.Glu1133Ter,ENST00000530271,;WNK1,stop_gained,p.Glu1048Ter,ENST00000537687,;WNK1,intron_variant,,ENST00000315939,;WNK1,intron_variant,,ENST00000535698,;WNK1,intron_variant,,ENST00000545285,;WNK1,intron_variant,,ENST00000544965,;WNK1,intron_variant,,ENST00000340908,;WNK1,intron_variant,,ENST00000535572,;	T	ENSG00000060237	ENST00000315939	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	WNK1	HGNC	14540	protein_coding	YES	CCDS8506.1	ENSP00000313059	WNK1_HUMAN	Q96CZ6_HUMAN	UPI000013CD65	.	.	.	.	8/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCCAGAATAT	.	4	BLCA
SLC9A7P1	0	.	GRCh37	12	98849558	98849558	+	RNA	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.1366C>A	.	.	ENST00000554295	1/1	51	41	10	68	68	0	SLC9A7P1,non_coding_transcript_exon_variant,,ENST00000554295,;SLC9A7P1,non_coding_transcript_exon_variant,,ENST00000556476,;SLC9A7P1,non_coding_transcript_exon_variant,,ENST00000370696,;	T	ENSG00000227825	ENST00000554295	Transcript	non_coding_transcript_exon_variant	1366	.	.	.	.	.	.	.	-1	SLC9A7P1	HGNC	32679	processed_transcript	YES	.	.	.	.	.	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCAGGAAGA	.	5	BLCA
SACS	0	.	GRCh37	13	23903583	23903583	+	3'UTR	SNP	C	C	T	rs759926296	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*692G>A	.	.	ENST00000382298	10/10	27	22	4	22	22	0	SACS,missense_variant,p.Met724Ile,ENST00000455470,;SACS,missense_variant,p.Met366Ile,ENST00000423156,;SACS,3_prime_UTR_variant,,ENST00000382292,;SACS,3_prime_UTR_variant,,ENST00000402364,;SACS,3_prime_UTR_variant,,ENST00000382298,;SGCG,downstream_gene_variant,,ENST00000537476,;SGCG,downstream_gene_variant,,ENST00000218867,;SGCG,downstream_gene_variant,,ENST00000545013,;	T	ENSG00000151835	ENST00000382298	Transcript	3_prime_UTR_variant	15021	.	.	.	.	rs759926296	.	.	-1	SACS	HGNC	10519	protein_coding	YES	CCDS9300.2	ENSP00000371735	SACS_HUMAN	.	UPI000047039D	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCACCATTTT	.	5	BLCA
NBEA	0	.	GRCh37	13	36006473	36006473	+	Missense_Mutation	SNP	C	C	T	rs200761216	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6247C>T	p.Arg2083Cys	p.R2083C	ENST00000400445	39/58	24	20	4	28	28	0	NBEA,missense_variant,p.Arg2083Cys,ENST00000400445,;NBEA,missense_variant,p.Arg2083Cys,ENST00000540320,;NBEA,missense_variant,p.Arg2083Cys,ENST00000310336,;NBEA,missense_variant,p.Arg2080Cys,ENST00000379939,;	T	ENSG00000172915	ENST00000400445	Transcript	missense_variant	6781	6247	2083	R/C	Cgc/Tgc	rs200761216,COSM262306,COSM4047219	.	.	1	NBEA	HGNC	7648	protein_coding	YES	CCDS45026.1	ENSP00000383295	NBEA_HUMAN	.	UPI00004FF92F	.	deleterious(0.01)	probably_damaging(0.987)	39/58	.	hmmpanther:PTHR13743:SF62,hmmpanther:PTHR13743,Pfam_domain:PF06469	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCGCAAT	byCluster|by1000G	5	BLCA
RCBTB2	0	.	GRCh37	13	49075883	49075883	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239G>T	p.Lys413Asn	p.K413N	ENST00000344532	12/15	54	49	5	78	78	0	RCBTB2,missense_variant,p.Lys418Asn,ENST00000430805,;RCBTB2,missense_variant,p.Lys413Asn,ENST00000344532,;RCBTB2,missense_variant,p.Lys139Asn,ENST00000544492,;RCBTB2,downstream_gene_variant,,ENST00000544904,;	A	ENSG00000136161	ENST00000344532	Transcript	missense_variant	1663	1239	413	K/N	aaG/aaT	COSM3417644	.	.	-1	RCBTB2	HGNC	1914	protein_coding	YES	CCDS9411.1	ENSP00000345144	RCBT2_HUMAN	.	UPI00000372FA	.	deleterious(0)	possibly_damaging(0.486)	12/15	.	PROSITE_profiles:PS50097,hmmpanther:PTHR22870,hmmpanther:PTHR22870:SF122,Gene3D:3.30.710.10,Pfam_domain:PF00651,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGAATCTTGAG	.	4	BLCA
ATP7B	0	.	GRCh37	13	52524266	52524266	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2607A>G	p.%3D	p.G869G	ENST00000242839	11/21	49	46	3	89	89	0	ATP7B,synonymous_variant,p.%3D,ENST00000400370,;ATP7B,synonymous_variant,p.%3D,ENST00000418097,;ATP7B,synonymous_variant,p.%3D,ENST00000344297,;ATP7B,synonymous_variant,p.%3D,ENST00000242839,;ATP7B,synonymous_variant,p.%3D,ENST00000400366,;ATP7B,synonymous_variant,p.%3D,ENST00000417240,;ATP7B,synonymous_variant,p.%3D,ENST00000448424,;ATP7B,non_coding_transcript_exon_variant,,ENST00000482841,;ATP7B,upstream_gene_variant,,ENST00000466629,;	C	ENSG00000123191	ENST00000242839	Transcript	synonymous_variant	2764	2607	869	G	ggA/ggG	.	.	.	-1	ATP7B	HGNC	870	protein_coding	YES	CCDS41892.1	ENSP00000242839	ATP7B_HUMAN	G1FFF2_HUMAN,D3KCZ0_HUMAN,C8BMD5_HUMAN,A6YQZ1_HUMAN	UPI00001FCE15	.	.	.	11/21	.	hmmpanther:PTHR24093:SF239,hmmpanther:PTHR24093,TIGRFAM_domain:TIGR01525,Gene3D:2.70.150.10,TIGRFAM_domain:TIGR01494,Pfam_domain:PF00122,Superfamily_domains:0049471	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCTTCCGGG	.	2	BLCA
WDR25	0	.	GRCh37	14	100996170	100996170	+	Nonsense_Mutation	SNP	C	C	G	rs144635721	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1427C>G	p.Ser476Ter	p.S476*	ENST00000335290	7/7	38	35	3	43	43	0	WDR25,stop_gained,p.Ser476Ter,ENST00000335290,;WDR25,stop_gained,p.Ser219Ter,ENST00000542471,;WDR25,stop_gained,p.Ser476Ter,ENST00000402312,;WDR25,stop_gained,p.Ser476Ter,ENST00000554998,;WDR25,downstream_gene_variant,,ENST00000555201,;WDR25,non_coding_transcript_exon_variant,,ENST00000557502,;WDR25,non_coding_transcript_exon_variant,,ENST00000555775,;WDR25,non_coding_transcript_exon_variant,,ENST00000555865,;WDR25,downstream_gene_variant,,ENST00000554492,;WDR25,3_prime_UTR_variant,,ENST00000557710,;	G	ENSG00000176473	ENST00000335290	Transcript	stop_gained	1653	1427	476	S/*	tCa/tGa	rs144635721	.	.	1	WDR25	HGNC	21064	protein_coding	YES	CCDS32157.1	ENSP00000334148	WDR25_HUMAN	G3V2K8_HUMAN	UPI0000D4CFD0	.	.	.	7/7	.	PROSITE_profiles:PS50294,hmmpanther:PTHR19852,hmmpanther:PTHR19852:SF14,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTACTCAGTGG	byCluster	4	BLCA
HSP90AA1	0	.	GRCh37	14	102549577	102549577	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1915G>A	p.Glu639Lys	p.E639K	ENST00000334701	10/12	107	97	10	121	121	0	HSP90AA1,missense_variant,p.Glu338Lys,ENST00000441629,;HSP90AA1,missense_variant,p.Glu639Lys,ENST00000334701,;HSP90AA1,missense_variant,p.Glu517Lys,ENST00000216281,;HSP90AA1,downstream_gene_variant,,ENST00000553585,;HSP90AA1,3_prime_UTR_variant,,ENST00000554401,;HSP90AA1,downstream_gene_variant,,ENST00000556554,;HSP90AA1,downstream_gene_variant,,ENST00000555662,;HSP90AA1,downstream_gene_variant,,ENST00000560130,;HSP90AA1,downstream_gene_variant,,ENST00000557089,;HSP90AA1,downstream_gene_variant,,ENST00000557234,;	T	ENSG00000080824	ENST00000334701	Transcript	missense_variant	2197	1915	639	E/K	Gaa/Aaa	.	.	.	-1	HSP90AA1	HGNC	5253	protein_coding	YES	CCDS32160.1	ENSP00000335153	HS90A_HUMAN	Q96HX7_HUMAN,Q8TBA7_HUMAN,Q86SX1_HUMAN,K9JA46_HUMAN	UPI0000408144	.	deleterious_low_confidence(0.01)	unknown(0)	10/12	.	HAMAP:MF_00505,hmmpanther:PTHR11528,Pfam_domain:PF00183,PIRSF_domain:PIRSF002583,Superfamily_domains:SSF54211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CACTTCTAAGC	.	3	BLCA
HSP90AA1	0	.	GRCh37	14	102550783	102550783	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1466G>C	p.Arg489Thr	p.R489T	ENST00000334701	7/12	62	55	7	118	118	0	HSP90AA1,missense_variant,p.Arg188Thr,ENST00000441629,;HSP90AA1,missense_variant,p.Arg489Thr,ENST00000334701,;HSP90AA1,missense_variant,p.Arg367Thr,ENST00000216281,;HSP90AA1,downstream_gene_variant,,ENST00000553585,;HSP90AA1,3_prime_UTR_variant,,ENST00000554401,;HSP90AA1,non_coding_transcript_exon_variant,,ENST00000560130,;HSP90AA1,downstream_gene_variant,,ENST00000556554,;HSP90AA1,downstream_gene_variant,,ENST00000555662,;HSP90AA1,upstream_gene_variant,,ENST00000557089,;HSP90AA1,downstream_gene_variant,,ENST00000557234,;	G	ENSG00000080824	ENST00000334701	Transcript	missense_variant	1748	1466	489	R/T	aGa/aCa	.	.	.	-1	HSP90AA1	HGNC	5253	protein_coding	YES	CCDS32160.1	ENSP00000335153	HS90A_HUMAN	Q96HX7_HUMAN,Q8TBA7_HUMAN,Q86SX1_HUMAN,K9JA46_HUMAN	UPI0000408144	.	deleterious_low_confidence(0.02)	unknown(0)	7/12	.	HAMAP:MF_00505,hmmpanther:PTHR11528,Pfam_domain:PF00183,PIRSF_domain:PIRSF002583,Superfamily_domains:SSF54211	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACTCTGCGT	.	4	BLCA
HSP90AA1	0	.	GRCh37	14	102551683	102551683	+	Missense_Mutation	SNP	C	C	G	rs140980766	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981G>C	p.Glu327Asp	p.E327D	ENST00000334701	5/12	50	42	7	50	50	0	HSP90AA1,missense_variant,p.Glu26Asp,ENST00000441629,;HSP90AA1,missense_variant,p.Glu327Asp,ENST00000334701,;HSP90AA1,missense_variant,p.Glu136Asp,ENST00000553585,;HSP90AA1,missense_variant,p.Glu205Asp,ENST00000216281,;HSP90AA1,3_prime_UTR_variant,,ENST00000554401,;HSP90AA1,non_coding_transcript_exon_variant,,ENST00000555662,;HSP90AA1,downstream_gene_variant,,ENST00000556554,;HSP90AA1,upstream_gene_variant,,ENST00000560130,;HSP90AA1,upstream_gene_variant,,ENST00000557089,;HSP90AA1,downstream_gene_variant,,ENST00000557234,;	G	ENSG00000080824	ENST00000334701	Transcript	missense_variant	1263	981	327	E/D	gaG/gaC	rs140980766,COSM71105	.	.	-1	HSP90AA1	HGNC	5253	protein_coding	YES	CCDS32160.1	ENSP00000335153	HS90A_HUMAN	Q96HX7_HUMAN,Q8TBA7_HUMAN,Q86SX1_HUMAN,K9JA46_HUMAN	UPI0000408144	.	tolerated_low_confidence(0.4)	benign(0.083)	5/12	.	HAMAP:MF_00505,hmmpanther:PTHR11528,Pfam_domain:PF00183,Gene3D:3.30.565.10,PIRSF_domain:PIRSF002583,Superfamily_domains:SSF55874,Prints_domain:PR00775	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.E327G|c.980A>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAATCTCCTT	byCluster	5	BLCA
MARK3	0	.	GRCh37	14	103931903	103931903	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.550C>G	p.Leu184Val	p.L184V	ENST00000429436	8/18	92	80	12	104	104	0	MARK3,missense_variant,p.Leu166Val,ENST00000560417,;MARK3,missense_variant,p.Leu207Val,ENST00000416682,;MARK3,missense_variant,p.Leu207Val,ENST00000335102,;MARK3,missense_variant,p.Leu184Val,ENST00000429436,;MARK3,missense_variant,p.Leu184Val,ENST00000216288,;MARK3,missense_variant,p.Leu184Val,ENST00000553942,;MARK3,missense_variant,p.Leu184Val,ENST00000303622,;MARK3,intron_variant,,ENST00000440884,;MARK3,upstream_gene_variant,,ENST00000554627,;MARK3,non_coding_transcript_exon_variant,,ENST00000559268,;MARK3,non_coding_transcript_exon_variant,,ENST00000561164,;MARK3,non_coding_transcript_exon_variant,,ENST00000558698,;MARK3,intron_variant,,ENST00000561071,;MARK3,upstream_gene_variant,,ENST00000558953,;MARK3,non_coding_transcript_exon_variant,,ENST00000558223,;MARK3,upstream_gene_variant,,ENST00000558611,;MARK3,upstream_gene_variant,,ENST00000559274,;	G	ENSG00000075413	ENST00000429436	Transcript	missense_variant	1060	550	184	L/V	Cta/Gta	.	.	.	1	MARK3	HGNC	6897	protein_coding	YES	CCDS45165.1	ENSP00000411397	MARK3_HUMAN	Q86U11_HUMAN	UPI00004567CC	.	deleterious(0.03)	probably_damaging(0.997)	8/18	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:1.10.510.10,PROSITE_patterns:PS00108,hmmpanther:PTHR24346,hmmpanther:PTHR24346:SF1,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AAAATCTATTG	.	3	BLCA
IGHV1-18	0	.	GRCh37	14	106641659	106641659	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.255C>T	p.%3D	p.G85G	ENST00000390605	2/2	237	199	37	331	331	0	IGHV1-18,synonymous_variant,p.%3D,ENST00000390605,;SLC20A1P2,upstream_gene_variant,,ENST00000438667,;	A	ENSG00000211945	ENST00000390605	Transcript	synonymous_variant	314	255	85	G	ggC/ggT	.	.	.	-1	IGHV1-18	HGNC	5549	IG_V_gene	YES	.	ENSP00000375014	.	.	UPI000011AAD9	.	.	.	2/2	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23266:SF73,hmmpanther:PTHR23266,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTCTGCCCTG	.	4	BLCA
OR4K17	0	.	GRCh37	14	20586513	20586513	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.948T>C	p.%3D	p.I316I	ENST00000315543	1/1	61	54	6	77	77	0	OR4K17,synonymous_variant,p.%3D,ENST00000315543,;	C	ENSG00000176230	ENST00000315543	Transcript	synonymous_variant	948	948	316	I	atT/atC	.	.	.	1	OR4K17	HGNC	15355	protein_coding	YES	CCDS32030.1	ENSP00000319197	OR4KH_HUMAN	.	UPI000004B1EA	.	.	.	1/1	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF322,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00245,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCAATTATCTA	.	3	BLCA
OR4K17	0	.	GRCh37	14	20586533	20586533	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.968A>G	p.Lys323Arg	p.K323R	ENST00000315543	1/1	58	52	6	83	83	0	OR4K17,missense_variant,p.Lys323Arg,ENST00000315543,;	G	ENSG00000176230	ENST00000315543	Transcript	missense_variant	968	968	323	K/R	aAa/aGa	.	.	.	1	OR4K17	HGNC	15355	protein_coding	YES	CCDS32030.1	ENSP00000319197	OR4KH_HUMAN	.	UPI000004B1EA	.	tolerated(0.1)	benign(0.05)	1/1	.	hmmpanther:PTHR26451,hmmpanther:PTHR26451:SF322,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAACAAAGAAA	.	2	BLCA
TRAV38-1	0	.	GRCh37	14	22739860	22739860	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7C>T	p.Arg3Ter	p.R3*	ENST00000390464	1/2	43	36	7	57	57	0	TRAV38-1,stop_gained,p.Arg3Ter,ENST00000390464,;	T	ENSG00000211816	ENST00000390464	Transcript	stop_gained	10	7	3	R/*	Cga/Tga	.	.	.	1	TRAV38-1	HGNC	12137	TR_V_gene	YES	.	ENSP00000450950	.	.	UPI000011D131	.	.	.	1/2	.	Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR19433,hmmpanther:PTHR19433:SF65	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGACACGAGTT	.	5	BLCA
GZMH	0	.	GRCh37	14	25075805	25075805	+	3'UTR	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4C>A	.	.	ENST00000216338	5/5	117	102	15	163	163	0	GZMH,3_prime_UTR_variant,,ENST00000557220,;GZMH,3_prime_UTR_variant,,ENST00000216338,;GZMH,3_prime_UTR_variant,,ENST00000382548,;RP11-104E19.1,intron_variant,,ENST00000555300,;RP11-104E19.1,intron_variant,,ENST00000557736,;	T	ENSG00000100450	ENST00000216338	Transcript	3_prime_UTR_variant	790	.	.	.	.	.	.	.	-1	GZMH	HGNC	4710	protein_coding	YES	CCDS9632.1	ENSP00000216338	GRAH_HUMAN	.	UPI00000012B3	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCTGCTGTT	.	4	BLCA
SSTR1	0	.	GRCh37	14	38679306	38679306	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.712G>A	p.Ala238Thr	p.A238T	ENST00000267377	3/3	40	36	4	54	54	0	SSTR1,missense_variant,p.Ala238Thr,ENST00000267377,;	A	ENSG00000139874	ENST00000267377	Transcript	missense_variant	1329	712	238	A/T	Gct/Act	.	.	.	1	SSTR1	HGNC	11330	protein_coding	YES	CCDS9666.1	ENSP00000267377	SSR1_HUMAN	.	UPI0000001C3C	.	deleterious(0.01)	probably_damaging(0.989)	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24229:SF3,hmmpanther:PTHR24229,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGGGCTATC	.	4	BLCA
PNN	0	.	GRCh37	14	39649941	39649941	+	Missense_Mutation	SNP	C	C	T	rs546480407	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1028C>T	p.Ala343Val	p.A343V	ENST00000216832	9/9	15	11	3	15	15	0	PNN,missense_variant,p.Ala343Val,ENST00000216832,;PNN,downstream_gene_variant,,ENST00000553331,;PNN,downstream_gene_variant,,ENST00000556530,;RP11-407N17.4,upstream_gene_variant,,ENST00000556537,;PNN,intron_variant,,ENST00000557680,;PNN,downstream_gene_variant,,ENST00000554117,;PNN,downstream_gene_variant,,ENST00000554902,;	T	ENSG00000100941	ENST00000216832	Transcript	missense_variant	1095	1028	343	A/V	gCg/gTg	rs546480407,COSM955669	.	.	1	PNN	HGNC	9162	protein_coding	YES	CCDS9671.1	ENSP00000216832	PININ_HUMAN	.	UPI000013C70D	.	deleterious_low_confidence(0)	benign(0.045)	9/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12707	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	AATAGCGATTG	by1000G	4	BLCA
ATL1	0	.	GRCh37	14	51095136	51095136	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1507C>T	p.%3D	p.L503L	ENST00000358385	12/14	62	49	13	86	85	1	ATL1,synonymous_variant,p.%3D,ENST00000354525,;ATL1,synonymous_variant,p.%3D,ENST00000441560,;ATL1,synonymous_variant,p.%3D,ENST00000357032,;ATL1,synonymous_variant,p.%3D,ENST00000358385,;SAV1,downstream_gene_variant,,ENST00000555720,;ATL1,synonymous_variant,p.%3D,ENST00000556067,;ATL1,downstream_gene_variant,,ENST00000555266,;	T	ENSG00000198513	ENST00000358385	Transcript	synonymous_variant	1748	1507	503	L	Ctg/Ttg	.	.	.	1	ATL1	HGNC	11231	protein_coding	YES	CCDS9700.1	ENSP00000351155	ATLA1_HUMAN	G3V5T4_HUMAN,G3V4Y8_HUMAN,G3V334_HUMAN,G3V321_HUMAN	UPI0000073893	.	.	.	12/14	.	hmmpanther:PTHR10751:SF15,hmmpanther:PTHR10751	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAGCTGGGA	.	5	BLCA
DDHD1	0	.	GRCh37	14	53619005	53619005	+	Missense_Mutation	SNP	C	C	T	rs747496321	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.812G>A	p.Gly271Glu	p.G271E	ENST00000323669	1/13	23	19	4	21	20	0	DDHD1,missense_variant,p.Gly271Glu,ENST00000395606,;DDHD1,missense_variant,p.Gly271Glu,ENST00000323669,;DDHD1,missense_variant,p.Gly271Glu,ENST00000357758,;DDHD1,upstream_gene_variant,,ENST00000556910,;AL356020.1,downstream_gene_variant,,ENST00000584587,;RP11-547D23.1,upstream_gene_variant,,ENST00000554235,;DDHD1,non_coding_transcript_exon_variant,,ENST00000557445,;	T	ENSG00000100523	ENST00000323669	Transcript	missense_variant	812	812	271	G/E	gGa/gAa	rs747496321	.	.	-1	DDHD1	HGNC	19714	protein_coding	YES	CCDS53895.1	ENSP00000327104	DDHD1_HUMAN	G3V2P6_HUMAN	UPI00001D7B55	.	tolerated(0.69)	benign(0.071)	1/13	.	hmmpanther:PTHR15457,hmmpanther:PTHR15457:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCTCCTTGG	byFrequency	2	BLCA
PELI2	0	.	GRCh37	14	56763459	56763459	+	Missense_Mutation	SNP	G	G	A	rs28504146	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.838G>A	p.Ala280Thr	p.A280T	ENST00000267460	6/6	35	22	12	46	46	0	PELI2,missense_variant,p.Ala280Thr,ENST00000267460,;	A	ENSG00000139946	ENST00000267460	Transcript	missense_variant	1124	838	280	A/T	Gcc/Acc	rs28504146	.	.	1	PELI2	HGNC	8828	protein_coding	YES	CCDS9726.1	ENSP00000267460	PELI2_HUMAN	Q659D8_HUMAN,H0YNF4_HUMAN,H0YK56_HUMAN	UPI0000062262	.	tolerated(0.1)	possibly_damaging(0.71)	6/6	.	hmmpanther:PTHR12098:SF5,hmmpanther:PTHR12098,Pfam_domain:PF04710,PIRSF_domain:PIRSF038886	A:0.0004	A:0.0008	A:0	.	A:0.001	A:0	A:0	A:0.0009	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R281Q|c.842G>A|3	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ACGCCGCCCGG	byFrequency|byCluster|by1000G	4	BLCA
TMEM260	0	.	GRCh37	14	57072403	57072403	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.636+2T>C	.	p.X212_splice	ENST00000261556	.	70	55	15	101	101	0	TMEM260,splice_donor_variant,,ENST00000261556,;TMEM260,splice_donor_variant,,ENST00000538838,;TMEM260,splice_donor_variant,,ENST00000536419,;TMEM260,upstream_gene_variant,,ENST00000553335,;TMEM260,splice_donor_variant,,ENST00000556422,;TMEM260,splice_donor_variant,,ENST00000555497,;TMEM260,splice_donor_variant,,ENST00000556929,;TMEM260,splice_donor_variant,,ENST00000557626,;TMEM260,splice_donor_variant,,ENST00000539559,;TMEM260,splice_donor_variant,,ENST00000557657,;TMEM260,splice_donor_variant,,ENST00000556079,;TMEM260,upstream_gene_variant,,ENST00000555905,;TMEM260,downstream_gene_variant,,ENST00000554981,;	C	ENSG00000070269	ENST00000261556	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	TMEM260	HGNC	20185	protein_coding	YES	CCDS9727.2	ENSP00000261556	TM260_HUMAN	G3V4Y3_HUMAN,B3KN73_HUMAN	UPI00001FD5D2	.	.	.	.	5/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAAGGTACGTT	.	2	BLCA
PCNXL4	0	.	GRCh37	14	60581890	60581890	+	Silent	SNP	C	C	T	rs577510197	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.366C>T	p.%3D	p.C122C	ENST00000317623	3/10	100	86	13	148	148	0	PCNXL4,synonymous_variant,p.%3D,ENST00000406854,;PCNXL4,synonymous_variant,p.%3D,ENST00000404681,;PCNXL4,synonymous_variant,p.%3D,ENST00000317623,;PCNXL4,synonymous_variant,p.%3D,ENST00000406949,;PCNXL4,upstream_gene_variant,,ENST00000535349,;PCNXL4,upstream_gene_variant,,ENST00000554534,;PCNXL4,downstream_gene_variant,,ENST00000391611,;PCNXL4,intron_variant,,ENST00000556907,;PCNXL4,downstream_gene_variant,,ENST00000555569,;PCNXL4,upstream_gene_variant,,ENST00000483571,;PCNXL4,upstream_gene_variant,,ENST00000555740,;PCNXL4,upstream_gene_variant,,ENST00000553513,;PCNXL4,upstream_gene_variant,,ENST00000555929,;	T	ENSG00000126773	ENST00000317623	Transcript	synonymous_variant	888	366	122	C	tgC/tgT	rs577510197	.	.	1	PCNXL4	HGNC	20349	protein_coding	YES	.	ENSP00000317396	.	B6ZDM2_HUMAN	UPI00014F7B83	.	.	.	3/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATGCCTTTT	.	4	BLCA
AREL1	0	.	GRCh37	14	75130444	75130444	+	Silent	SNP	G	G	A	rs369161965	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2451C>T	p.%3D	p.C817C	ENST00000356357	20/20	119	104	15	166	166	0	AREL1,synonymous_variant,p.%3D,ENST00000356357,;AREL1,downstream_gene_variant,,ENST00000556202,;AREL1,intron_variant,,ENST00000557401,;AREL1,synonymous_variant,p.%3D,ENST00000554070,;AREL1,3_prime_UTR_variant,,ENST00000555330,;AREL1,non_coding_transcript_exon_variant,,ENST00000557688,;	A	ENSG00000119682	ENST00000356357	Transcript	synonymous_variant	2967	2451	817	C	tgC/tgT	rs369161965	.	.	-1	AREL1	HGNC	20363	protein_coding	YES	CCDS41971.1	ENSP00000348714	AREL1_HUMAN	H0YJ67_HUMAN,G3V506_HUMAN,G3V245_HUMAN	UPI0000073D44	.	.	.	20/20	.	PROSITE_profiles:PS50237,hmmpanther:PTHR11254:SF284,hmmpanther:PTHR11254,Pfam_domain:PF00632,SMART_domains:SM00119	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTCGCAACC	byFrequency|byCluster	4	BLCA
TTC8	0	.	GRCh37	14	89307233	89307233	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.290C>A	p.Pro97His	p.P97H	ENST00000380656	4/15	55	49	5	85	85	0	TTC8,missense_variant,p.Pro87His,ENST00000338104,;TTC8,missense_variant,p.Pro87His,ENST00000556651,;TTC8,missense_variant,p.Pro87His,ENST00000345383,;TTC8,missense_variant,p.Pro77His,ENST00000554686,;TTC8,missense_variant,p.Pro87His,ENST00000346301,;TTC8,missense_variant,p.Pro97His,ENST00000380656,;TTC8,5_prime_UTR_variant,,ENST00000536576,;TTC8,intron_variant,,ENST00000354441,;TTC8,upstream_gene_variant,,ENST00000358622,;TTC8,upstream_gene_variant,,ENST00000557580,;Y_RNA,downstream_gene_variant,,ENST00000384612,;TTC8,missense_variant,p.Pro87His,ENST00000555057,;TTC8,missense_variant,p.Pro140His,ENST00000556077,;TTC8,non_coding_transcript_exon_variant,,ENST00000556133,;TTC8,non_coding_transcript_exon_variant,,ENST00000556567,;	A	ENSG00000165533	ENST00000380656	Transcript	missense_variant	336	290	97	P/H	cCt/cAt	.	.	.	1	TTC8	HGNC	20087	protein_coding	YES	CCDS32137.1	ENSP00000370031	TTC8_HUMAN	B3KSL8_HUMAN	UPI0000447156	.	deleterious(0)	probably_damaging(0.998)	4/15	.	hmmpanther:PTHR23083,hmmpanther:PTHR23083:SF39	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTCCCTGGAA	.	4	BLCA
FOXN3	0	.	GRCh37	14	89647108	89647108	+	Missense_Mutation	SNP	C	C	T	rs140477845	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.854G>A	p.Arg285Gln	p.R285Q	ENST00000345097	6/7	38	32	6	44	44	0	FOXN3,missense_variant,p.Arg134Gln,ENST00000553840,;FOXN3,missense_variant,p.Arg285Gln,ENST00000345097,;FOXN3,missense_variant,p.Arg263Gln,ENST00000555353,;FOXN3,missense_variant,p.Arg263Gln,ENST00000557258,;FOXN3,missense_variant,p.Arg285Gln,ENST00000261302,;FOXN3,upstream_gene_variant,,ENST00000557572,;FOXN3,non_coding_transcript_exon_variant,,ENST00000556541,;FOXN3,non_coding_transcript_exon_variant,,ENST00000555010,;FOXN3,downstream_gene_variant,,ENST00000557496,;FOXN3,downstream_gene_variant,,ENST00000557718,;	T	ENSG00000053254	ENST00000345097	Transcript	missense_variant	971	854	285	R/Q	cGa/cAa	rs140477845,COSM1516370,COSM1516369	.	.	-1	FOXN3	HGNC	1928	protein_coding	YES	CCDS41977.1	ENSP00000343288	FOXN3_HUMAN	G3V5C7_HUMAN,G3V4N5_HUMAN,G3V3A7_HUMAN	UPI000003B451	.	tolerated(0.96)	benign(0.052)	6/7	.	hmmpanther:PTHR13962:SF12,hmmpanther:PTHR13962	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCTCGGCTC	byCluster	5	BLCA
ITPK1	0	.	GRCh37	14	93483080	93483080	+	Missense_Mutation	SNP	C	C	T	rs757596570	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187G>A	p.Val63Ile	p.V63I	ENST00000267615	4/11	62	56	6	87	87	0	ITPK1,missense_variant,p.Val63Ile,ENST00000555553,;ITPK1,missense_variant,p.Val63Ile,ENST00000267615,;ITPK1,missense_variant,p.Val63Ile,ENST00000557309,;ITPK1,missense_variant,p.Val63Ile,ENST00000556603,;ITPK1,missense_variant,p.Val81Ile,ENST00000556185,;ITPK1,missense_variant,p.Val63Ile,ENST00000553452,;ITPK1,missense_variant,p.Val63Ile,ENST00000354313,;ITPK1,5_prime_UTR_variant,,ENST00000555495,;ITPK1,intron_variant,,ENST00000554999,;ITPK1,non_coding_transcript_exon_variant,,ENST00000556954,;ITPK1,non_coding_transcript_exon_variant,,ENST00000553655,;	T	ENSG00000100605	ENST00000267615	Transcript	missense_variant	361	187	63	V/I	Gtc/Atc	rs757596570,COSM198389	.	.	-1	ITPK1	HGNC	6177	protein_coding	YES	CCDS9907.1	ENSP00000267615	ITPK1_HUMAN	G3V588_HUMAN,G3V4M9_HUMAN	UPI000006F88A	.	tolerated(0.38)	benign(0.074)	4/11	.	hmmpanther:PTHR14217:SF1,hmmpanther:PTHR14217,Pfam_domain:PF05770	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GATGACGTCAG	.	3	BLCA
SERPINA5	0	.	GRCh37	14	95057194	95057194	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.999G>A	p.%3D	p.L333L	ENST00000329597	5/6	128	109	19	159	159	0	SERPINA5,synonymous_variant,p.%3D,ENST00000554866,;SERPINA5,synonymous_variant,p.%3D,ENST00000553780,;SERPINA5,synonymous_variant,p.%3D,ENST00000329597,;SERPINA5,synonymous_variant,p.%3D,ENST00000554276,;SERPINA5,downstream_gene_variant,,ENST00000556775,;SERPINA5,downstream_gene_variant,,ENST00000554220,;SERPINA5,downstream_gene_variant,,ENST00000556064,;SERPINA5,downstream_gene_variant,,ENST00000555681,;SERPINA5,downstream_gene_variant,,ENST00000553511,;SERPINA5,downstream_gene_variant,,ENST00000554760,;SERPINA5,downstream_gene_variant,,ENST00000554633,;SERPINA5,downstream_gene_variant,,ENST00000557598,;RP11-986E7.7,upstream_gene_variant,,ENST00000553947,;SERPINA5,downstream_gene_variant,,ENST00000556730,;	A	ENSG00000188488	ENST00000329597	Transcript	synonymous_variant	1209	999	333	L	ctG/ctA	.	.	.	1	SERPINA5	HGNC	8723	protein_coding	YES	CCDS9928.1	ENSP00000333203	IPSP_HUMAN	G3V4B4_HUMAN,G3V482_HUMAN,G3V3Y3_HUMAN,G3V3F5_HUMAN,G3V2M1_HUMAN,G3V265_HUMAN,G3V264_HUMAN	UPI000013E52C	.	.	.	5/6	.	Superfamily_domains:SSF56574,SMART_domains:SM00093,Gene3D:3.30.497.10,Pfam_domain:PF00079,hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATCTGTCCGG	.	4	BLCA
TCL1A	0	.	GRCh37	14	96180286	96180286	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.118G>A	p.Glu40Lys	p.E40K	ENST00000402399	1/4	69	57	12	117	117	0	TCL1A,missense_variant,p.Glu40Lys,ENST00000402399,;TCL1A,missense_variant,p.Glu40Lys,ENST00000555202,;TCL1A,missense_variant,p.Glu40Lys,ENST00000554012,;TCL1A,missense_variant,p.Glu40Lys,ENST00000556450,;TCL1A,upstream_gene_variant,,ENST00000557043,;RP11-164H13.1,intron_variant,,ENST00000547644,;RP11-164H13.1,intron_variant,,ENST00000553445,;RP11-164H13.1,upstream_gene_variant,,ENST00000556386,;TCL1A,missense_variant,p.Glu40Lys,ENST00000554119,;TCL1A,missense_variant,p.Glu40Lys,ENST00000555886,;TCL1A,missense_variant,p.Glu40Lys,ENST00000556156,;TCL1A,upstream_gene_variant,,ENST00000553467,;	T	ENSG00000100721	ENST00000402399	Transcript	missense_variant	248	118	40	E/K	Gag/Aag	.	.	.	-1	TCL1A	HGNC	11648	protein_coding	YES	CCDS9941.1	ENSP00000385036	TCL1A_HUMAN	.	UPI00000413AD	.	tolerated(0.54)	benign(0.016)	1/4	.	hmmpanther:PTHR14060:SF4,hmmpanther:PTHR14060,Gene3D:2.40.15.10,Pfam_domain:PF01840,Superfamily_domains:SSF50904	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTCGATGG	.	5	BLCA
ADAMTS17	0	.	GRCh37	15	100657184	100657184	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1756A>G	p.Ser586Gly	p.S586G	ENST00000268070	13/22	27	22	5	24	24	0	ADAMTS17,missense_variant,p.Ser586Gly,ENST00000268070,;ADAMTS17,non_coding_transcript_exon_variant,,ENST00000378898,;	C	ENSG00000140470	ENST00000268070	Transcript	missense_variant	1862	1756	586	S/G	Agt/Ggt	.	.	.	-1	ADAMTS17	HGNC	17109	protein_coding	YES	CCDS10383.1	ENSP00000268070	ATS17_HUMAN	.	UPI00001AE929	.	deleterious(0.03)	benign(0.42)	13/22	.	Superfamily_domains:SSF82895,SMART_domains:SM00209,Pfam_domain:PF00090,Gene3D:2.20.100.10,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF31,PROSITE_profiles:PS50092	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACACTGGCAC	.	4	BLCA
HERC2P3	0	.	GRCh37	15	20649500	20649500	+	RNA	SNP	G	G	T	rs747517958	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2699C>A	.	.	ENST00000428453	18/27	157	141	16	182	182	0	HERC2P3,non_coding_transcript_exon_variant,,ENST00000437318,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000428453,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000430598,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000426501,;HERC2P3,downstream_gene_variant,,ENST00000440774,;HERC2P3,downstream_gene_variant,,ENST00000440441,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000424611,;HERC2P3,upstream_gene_variant,,ENST00000436934,;HERC2P3,upstream_gene_variant,,ENST00000454045,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000429257,;HERC2P3,non_coding_transcript_exon_variant,,ENST00000545640,;	T	ENSG00000180229	ENST00000428453	Transcript	non_coding_transcript_exon_variant	2699	.	.	.	.	rs747517958	.	.	-1	HERC2P3	HGNC	4871	processed_transcript	YES	.	.	.	.	.	.	.	.	18/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTCCGAATCC	byFrequency	4	BLCA
NPAP1	0	.	GRCh37	15	24923171	24923171	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2157G>T	p.Lys719Asn	p.K719N	ENST00000329468	1/1	115	100	15	142	142	0	NPAP1,missense_variant,p.Lys719Asn,ENST00000329468,;	T	ENSG00000185823	ENST00000329468	Transcript	missense_variant	2631	2157	719	K/N	aaG/aaT	.	.	.	1	NPAP1	HGNC	1190	protein_coding	YES	CCDS10015.1	ENSP00000333735	NPAP1_HUMAN	.	UPI00001AFA1B	.	tolerated(0.23)	benign(0.002)	1/1	.	hmmpanther:PTHR23193,hmmpanther:PTHR23193:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGAAGTACCT	.	4	BLCA
SNORD115-27	0	.	GRCh37	15	25470279	25470279	+	3'Flank	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000364430	.	76	66	9	101	101	0	SNORD115-27,downstream_gene_variant,,ENST00000364430,;SNORD115-31,upstream_gene_variant,,ENST00000365318,;SNORD115-32,upstream_gene_variant,,ENST00000364079,;SNORD115-28,downstream_gene_variant,,ENST00000363931,;SNORD115-30,upstream_gene_variant,,ENST00000364117,;SNORD115-29,downstream_gene_variant,,ENST00000362834,;SNHG14,non_coding_transcript_exon_variant,,ENST00000453082,;SNHG14,downstream_gene_variant,,ENST00000424208,;	A	ENSG00000201300	ENST00000364430	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	4554	1	SNORD115-27	HGNC	33046	snoRNA	YES	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTCTCCTGCAC	.	4	BLCA
MEIS2	0	.	GRCh37	15	37184639	37184639	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1169A>G	p.Asp390Gly	p.D390G	ENST00000561208	12/12	171	159	12	261	261	0	MEIS2,missense_variant,p.Asp383Gly,ENST00000338564,;MEIS2,missense_variant,p.Asp383Gly,ENST00000382766,;MEIS2,missense_variant,p.Asp390Gly,ENST00000561208,;MEIS2,3_prime_UTR_variant,,ENST00000424352,;MEIS2,3_prime_UTR_variant,,ENST00000219869,;MEIS2,3_prime_UTR_variant,,ENST00000397620,;MEIS2,3_prime_UTR_variant,,ENST00000397624,;MEIS2,3_prime_UTR_variant,,ENST00000340545,;MEIS2,3_prime_UTR_variant,,ENST00000444725,;MEIS2,3_prime_UTR_variant,,ENST00000559085,;MEIS2,3_prime_UTR_variant,,ENST00000557796,;MEIS2,downstream_gene_variant,,ENST00000559561,;MEIS2,downstream_gene_variant,,ENST00000607277,;MEIS2,downstream_gene_variant,,ENST00000559408,;MEIS2,3_prime_UTR_variant,,ENST00000314177,;MEIS2,3_prime_UTR_variant,,ENST00000560570,;MEIS2,non_coding_transcript_exon_variant,,ENST00000561264,;MEIS2,non_coding_transcript_exon_variant,,ENST00000559371,;MEIS2,non_coding_transcript_exon_variant,,ENST00000560702,;MEIS2,non_coding_transcript_exon_variant,,ENST00000559972,;MEIS2,non_coding_transcript_exon_variant,,ENST00000561284,;MEIS2,downstream_gene_variant,,ENST00000558643,;MEIS2,downstream_gene_variant,,ENST00000557992,;	C	ENSG00000134138	ENST00000561208	Transcript	missense_variant	1588	1169	390	D/G	gAc/gGc	.	.	.	-1	MEIS2	HGNC	7001	protein_coding	YES	CCDS10044.1	ENSP00000453793	MEIS2_HUMAN	H0YKN2_HUMAN,H0YKE5_HUMAN	UPI000012EEBC	.	deleterious_low_confidence(0.01)	benign(0.001)	12/12	.	hmmpanther:PTHR11850:SF47,hmmpanther:PTHR11850	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	CGTAGTCCCCT	.	2	BLCA
MGA	0	.	GRCh37	15	41988400	41988400	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1192G>T	p.Glu398Ter	p.E398*	ENST00000219905	3/24	61	53	8	74	74	0	MGA,stop_gained,p.Glu398Ter,ENST00000219905,;MGA,stop_gained,p.Glu398Ter,ENST00000563576,;MGA,stop_gained,p.Glu398Ter,ENST00000570161,;MGA,stop_gained,p.Glu398Ter,ENST00000545763,;MGA,stop_gained,p.Glu398Ter,ENST00000389936,;MGA,stop_gained,p.Glu398Ter,ENST00000566718,;MGA,stop_gained,p.Glu398Ter,ENST00000566586,;MIR626,downstream_gene_variant,,ENST00000385032,;MGA,non_coding_transcript_exon_variant,,ENST00000568630,;	T	ENSG00000174197	ENST00000219905	Transcript	stop_gained	1373	1192	398	E/*	Gaa/Taa	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	.	.	3/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCCAGAAGGG	.	3	BLCA
MGA	0	.	GRCh37	15	41988414	41988414	+	Silent	SNP	G	G	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1206G>A	p.%3D	p.V402V	ENST00000219905	3/24	58	49	9	73	73	0	MGA,synonymous_variant,p.%3D,ENST00000219905,;MGA,synonymous_variant,p.%3D,ENST00000563576,;MGA,synonymous_variant,p.%3D,ENST00000570161,;MGA,synonymous_variant,p.%3D,ENST00000545763,;MGA,synonymous_variant,p.%3D,ENST00000389936,;MGA,synonymous_variant,p.%3D,ENST00000566718,;MGA,synonymous_variant,p.%3D,ENST00000566586,;MIR626,downstream_gene_variant,,ENST00000385032,;MGA,non_coding_transcript_exon_variant,,ENST00000568630,;	A	ENSG00000174197	ENST00000219905	Transcript	synonymous_variant	1387	1206	402	V	gtG/gtA	COSM3956616	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	.	.	3/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTGTGAAACA	.	3	BLCA
MGA	0	.	GRCh37	15	41988424	41988424	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1216G>A	p.Glu406Lys	p.E406K	ENST00000219905	3/24	53	47	6	70	70	0	MGA,missense_variant,p.Glu406Lys,ENST00000219905,;MGA,missense_variant,p.Glu406Lys,ENST00000563576,;MGA,missense_variant,p.Glu406Lys,ENST00000570161,;MGA,missense_variant,p.Glu406Lys,ENST00000545763,;MGA,missense_variant,p.Glu406Lys,ENST00000389936,;MGA,missense_variant,p.Glu406Lys,ENST00000566718,;MGA,missense_variant,p.Glu406Lys,ENST00000566586,;MIR626,downstream_gene_variant,,ENST00000385032,;MGA,non_coding_transcript_exon_variant,,ENST00000568630,;	A	ENSG00000174197	ENST00000219905	Transcript	missense_variant	1397	1216	406	E/K	Gag/Aag	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	deleterious(0.03)	benign(0.097)	3/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	AGGAAGAGACA	.	3	BLCA
MGA	0	.	GRCh37	15	41988466	41988466	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1258G>C	p.Asp420His	p.D420H	ENST00000219905	3/24	62	48	13	87	87	0	MGA,missense_variant,p.Asp420His,ENST00000219905,;MGA,missense_variant,p.Asp420His,ENST00000563576,;MGA,missense_variant,p.Asp420His,ENST00000570161,;MGA,missense_variant,p.Asp420His,ENST00000545763,;MGA,missense_variant,p.Asp420His,ENST00000389936,;MGA,missense_variant,p.Asp420His,ENST00000566718,;MGA,missense_variant,p.Asp420His,ENST00000566586,;MIR626,downstream_gene_variant,,ENST00000385032,;MGA,non_coding_transcript_exon_variant,,ENST00000568630,;	C	ENSG00000174197	ENST00000219905	Transcript	missense_variant	1439	1258	420	D/H	Gat/Cat	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	deleterious(0)	possibly_damaging(0.897)	3/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATGATGATCCT	.	3	BLCA
MGA	0	.	GRCh37	15	41988718	41988718	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1510G>A	p.Glu504Lys	p.E504K	ENST00000219905	3/24	75	64	11	86	86	0	MGA,missense_variant,p.Glu504Lys,ENST00000219905,;MGA,missense_variant,p.Glu504Lys,ENST00000563576,;MGA,missense_variant,p.Glu504Lys,ENST00000570161,;MGA,missense_variant,p.Glu504Lys,ENST00000545763,;MGA,missense_variant,p.Glu504Lys,ENST00000389936,;MGA,missense_variant,p.Glu504Lys,ENST00000566718,;MGA,missense_variant,p.Glu504Lys,ENST00000566586,;MIR626,downstream_gene_variant,,ENST00000385032,;MGA,non_coding_transcript_exon_variant,,ENST00000568630,;	A	ENSG00000174197	ENST00000219905	Transcript	missense_variant	1691	1510	504	E/K	Gaa/Aaa	.	.	.	1	MGA	HGNC	14010	protein_coding	YES	CCDS55959.1	ENSP00000219905	MGAP_HUMAN	H3BTF4_HUMAN,H3BP52_HUMAN	UPI0001B2337E	.	tolerated(0.75)	possibly_damaging(0.771)	3/24	.	hmmpanther:PTHR11267,hmmpanther:PTHR11267:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCAGAATTG	.	4	BLCA
PLA2G4B	0	.	GRCh37	15	42136730	42136730	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1634G>T	p.Gly545Val	p.G545V	ENST00000542534	17/25	128	105	23	175	175	0	PLA2G4B,missense_variant,p.Gly314Val,ENST00000458483,;JMJD7-PLA2G4B,missense_variant,p.Gly545Val,ENST00000342159,;PLA2G4B,missense_variant,p.Gly545Val,ENST00000542534,;JMJD7-PLA2G4B,missense_variant,p.Gly545Val,ENST00000382448,;PLA2G4B,missense_variant,p.Gly314Val,ENST00000452633,;PLA2G4B,upstream_gene_variant,,ENST00000569354,;SPTBN5,downstream_gene_variant,,ENST00000320955,;JMJD7-PLA2G4B,downstream_gene_variant,,ENST00000476036,;JMJD7-PLA2G4B,3_prime_UTR_variant,,ENST00000487292,;JMJD7-PLA2G4B,non_coding_transcript_exon_variant,,ENST00000490848,;JMJD7-PLA2G4B,non_coding_transcript_exon_variant,,ENST00000491746,;PLA2G4B,non_coding_transcript_exon_variant,,ENST00000483748,;PLA2G4B,downstream_gene_variant,,ENST00000461382,;PLA2G4B,upstream_gene_variant,,ENST00000566076,;SPTBN5,downstream_gene_variant,,ENST00000563899,;	T	ENSG00000243708	ENST00000542534	Transcript	missense_variant	1674	1634	545	G/V	gGg/gTg	.	.	.	1	PLA2G4B	HGNC	9036	protein_coding	YES	CCDS32202.1	ENSP00000441905	.	C9K0I3_HUMAN	UPI0000070A0F	.	deleterious(0.01)	probably_damaging(1)	17/25	.	PROSITE_profiles:PS51210,hmmpanther:PTHR10728:SF31,hmmpanther:PTHR10728,Gene3D:3.40.1090.10,Pfam_domain:PF01735,SMART_domains:SM00022,Superfamily_domains:SSF52151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTATGGGCAGC	.	4	BLCA
VPS39	0	.	GRCh37	15	42470513	42470513	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.863G>T	p.Ser288Ile	p.S288I	ENST00000318006	10/25	72	58	14	100	100	0	VPS39,missense_variant,p.Ser299Ile,ENST00000348544,;VPS39,missense_variant,p.Ser288Ile,ENST00000318006,;VPS39,non_coding_transcript_exon_variant,,ENST00000568029,;VPS39,non_coding_transcript_exon_variant,,ENST00000570023,;	A	ENSG00000166887	ENST00000318006	Transcript	missense_variant	1026	863	288	S/I	aGc/aTc	.	.	.	-1	VPS39	HGNC	20593	protein_coding	YES	CCDS10083.1	ENSP00000326534	VPS39_HUMAN	.	UPI0000169BB1	.	deleterious(0.02)	possibly_damaging(0.719)	10/25	.	hmmpanther:PTHR12894:SF10,hmmpanther:PTHR12894,SMART_domains:SM00036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATTGCTGGCC	.	5	BLCA
TTBK2	0	.	GRCh37	15	43044817	43044817	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2627delA	p.Asn876IlefsTer10	p.N876Ifs*10	ENST00000267890	14/15	112	92	20	117	117	0	TTBK2,frameshift_variant,p.Asn876IlefsTer10,ENST00000267890,;	-	ENSG00000128881	ENST00000267890	Transcript	frameshift_variant	2736	2627	876	N/X	aAt/at	.	.	.	-1	TTBK2	HGNC	19141	protein_coding	YES	CCDS42029.1	ENSP00000267890	TTBK2_HUMAN	H3BTY5_HUMAN	UPI0000043542	.	.	.	14/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	CODON|p.N876fs*2|c.2627_2628insA|3	VARSCANI*|PINDEL	ATCTTATTTTTT	.	2	BLCA
MAP1A	0	.	GRCh37	15	43821166	43821166	+	Frame_Shift_Del	DEL	C	C	-	rs773630777	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7499delC	p.Pro2500LeufsTer93	p.P2500Lfs*93	ENST00000300231	4/6	87	78	9	114	114	0	MAP1A,frameshift_variant,p.Pro2500LeufsTer93,ENST00000300231,;MAP1A,frameshift_variant,p.Pro2738LeufsTer93,ENST00000382031,;MAP1A,frameshift_variant,p.Pro2500LeufsTer93,ENST00000399453,;PPIP5K1,downstream_gene_variant,,ENST00000396923,;PPIP5K1,downstream_gene_variant,,ENST00000360301,;PPIP5K1,downstream_gene_variant,,ENST00000381885,;PPIP5K1,downstream_gene_variant,,ENST00000381879,;PPIP5K1,downstream_gene_variant,,ENST00000420765,;PPIP5K1,downstream_gene_variant,,ENST00000348806,;PPIP5K1,downstream_gene_variant,,ENST00000360135,;PPIP5K1,downstream_gene_variant,,ENST00000334933,;	-	ENSG00000166963	ENST00000300231	Transcript	frameshift_variant	7945	7495	2499	P/X	Ccc/cc	rs773630777	.	.	1	MAP1A	HGNC	6835	protein_coding	YES	CCDS42031.1	ENSP00000300231	MAP1A_HUMAN	.	UPI000013E63C	.	.	.	4/6	.	hmmpanther:PTHR13843:SF6,hmmpanther:PTHR13843	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAGACACCCCCT	byFrequency	3	BLCA
SLC27A2	0	.	GRCh37	15	50489836	50489836	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.618C>A	p.%3D	p.I206I	ENST00000267842	2/10	74	59	15	102	102	0	SLC27A2,synonymous_variant,p.%3D,ENST00000380902,;SLC27A2,synonymous_variant,p.%3D,ENST00000267842,;SLC27A2,5_prime_UTR_variant,,ENST00000544960,;	A	ENSG00000140284	ENST00000267842	Transcript	synonymous_variant	850	618	206	I	atC/atA	.	.	.	1	SLC27A2	HGNC	10996	protein_coding	YES	CCDS10133.1	ENSP00000267842	S27A2_HUMAN	G3V1R7_HUMAN	UPI000013D776	.	.	.	2/10	.	hmmpanther:PTHR24096,hmmpanther:PTHR24096:SF127,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTATCCCAGA	.	5	BLCA
ZNF280D	0	.	GRCh37	15	56924104	56924104	+	Silent	SNP	G	G	A	rs779584219	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2532C>T	p.%3D	p.H844H	ENST00000267807	22/22	130	106	23	176	176	0	ZNF280D,synonymous_variant,p.%3D,ENST00000267807,;ZNF280D,synonymous_variant,p.%3D,ENST00000559237,;RP11-1129I3.1,upstream_gene_variant,,ENST00000568246,;RP11-1129I3.1,upstream_gene_variant,,ENST00000562300,;ZNF280D,non_coding_transcript_exon_variant,,ENST00000559446,;ZNF280D,non_coding_transcript_exon_variant,,ENST00000559182,;ZNF280D,downstream_gene_variant,,ENST00000560388,;ZNF280D,3_prime_UTR_variant,,ENST00000558067,;	A	ENSG00000137871	ENST00000267807	Transcript	synonymous_variant	2749	2532	844	H	caC/caT	rs779584219	.	.	-1	ZNF280D	HGNC	25953	protein_coding	YES	CCDS32245.1	ENSP00000267807	Z280D_HUMAN	H0YN90_HUMAN	UPI00003FF962	.	.	.	22/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAAACGTGTTG	.	5	BLCA
GCNT3	0	.	GRCh37	15	59911493	59911493	+	Nonsense_Mutation	SNP	C	C	G	rs563231408	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1056C>G	p.Tyr352Ter	p.Y352*	ENST00000396065	3/3	96	76	19	121	121	0	GCNT3,stop_gained,p.Tyr352Ter,ENST00000560585,;GCNT3,stop_gained,p.Tyr352Ter,ENST00000396065,;GCNT3,downstream_gene_variant,,ENST00000559189,;GCNT3,downstream_gene_variant,,ENST00000559200,;GCNT3,downstream_gene_variant,,ENST00000559626,;GCNT3,intron_variant,,ENST00000560210,;GCNT3,downstream_gene_variant,,ENST00000560580,;GCNT3,downstream_gene_variant,,ENST00000558721,;GCNT3,downstream_gene_variant,,ENST00000560874,;	G	ENSG00000140297	ENST00000396065	Transcript	stop_gained	1504	1056	352	Y/*	taC/taG	rs563231408	.	.	1	GCNT3	HGNC	4205	protein_coding	YES	CCDS10172.1	ENSP00000379377	GCNT3_HUMAN	H0YNA3_HUMAN,H0YMW7_HUMAN,H0YM40_HUMAN	UPI0000034962	.	.	.	3/3	.	Pfam_domain:PF02485,hmmpanther:PTHR19297,hmmpanther:PTHR19297:SF81	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AAGTACGACAT	by1000G	5	BLCA
VPS13C	0	.	GRCh37	15	62283898	62283898	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1457delA	p.Lys486ArgfsTer6	p.K486Rfs*6	ENST00000261517	17/85	218	183	35	223	223	0	VPS13C,frameshift_variant,p.Lys486ArgfsTer6,ENST00000261517,;VPS13C,frameshift_variant,p.Lys486ArgfsTer6,ENST00000395896,;VPS13C,frameshift_variant,p.Lys443ArgfsTer6,ENST00000249837,;VPS13C,frameshift_variant,p.Lys443ArgfsTer6,ENST00000395898,;VPS13C,non_coding_transcript_exon_variant,,ENST00000561258,;	-	ENSG00000129003	ENST00000261517	Transcript	frameshift_variant	1531	1457	486	K/X	aAg/ag	.	.	.	-1	VPS13C	HGNC	23594	protein_coding	YES	CCDS32257.1	ENSP00000261517	VP13C_HUMAN	B4E2S9_HUMAN,B3KW10_HUMAN	UPI000023B7D3	.	.	.	17/85	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16166:SF69,hmmpanther:PTHR16166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E488K|c.1462G>A|3,BUFFER|p.E488K|c.1462G>A|3	INDELOCATOR*|VARSCANI*|PINDEL	TCGTCCTTTTTC	.	3	BLCA
TLN2	0	.	GRCh37	15	63030528	63030528	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3683A>G	p.Asp1228Gly	p.D1228G	ENST00000561311	29/58	71	57	14	100	100	0	TLN2,missense_variant,p.Asp142Gly,ENST00000494733,;TLN2,missense_variant,p.Asp1228Gly,ENST00000561311,;TLN2,missense_variant,p.Asp1228Gly,ENST00000306829,;TLN2,non_coding_transcript_exon_variant,,ENST00000559908,;TLN2,upstream_gene_variant,,ENST00000489129,;	G	ENSG00000171914	ENST00000561311	Transcript	missense_variant	3913	3683	1228	D/G	gAt/gGt	.	.	.	1	TLN2	HGNC	15447	protein_coding	YES	CCDS32261.1	ENSP00000453508	TLN2_HUMAN	.	UPI00001FE5FC	.	tolerated(0.54)	benign(0.001)	29/58	.	Superfamily_domains:SSF47220,Gene3D:1r0dB00,hmmpanther:PTHR19981,hmmpanther:PTHR19981:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGGATTCGG	.	5	BLCA
ZNF609	0	.	GRCh37	15	64966179	64966179	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1126C>T	p.Arg376Cys	p.R376C	ENST00000326648	4/9	123	117	6	168	168	0	ZNF609,missense_variant,p.Arg376Cys,ENST00000326648,;RNU6-549P,downstream_gene_variant,,ENST00000384433,;ZNF609,non_coding_transcript_exon_variant,,ENST00000559364,;ZNF609,downstream_gene_variant,,ENST00000558680,;	T	ENSG00000180357	ENST00000326648	Transcript	missense_variant	1254	1126	376	R/C	Cgt/Tgt	.	.	.	1	ZNF609	HGNC	29003	protein_coding	YES	CCDS32270.1	ENSP00000316527	ZN609_HUMAN	.	UPI00001D7783	.	deleterious(0)	probably_damaging(0.999)	4/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21564,hmmpanther:PTHR21564:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCATGCGTCCC	.	2	BLCA
IQCH	0	.	GRCh37	15	67649690	67649690	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645C>T	p.%3D	p.F215F	ENST00000335894	7/21	39	32	7	49	49	0	IQCH,synonymous_variant,p.%3D,ENST00000335894,;IQCH,synonymous_variant,p.%3D,ENST00000358767,;IQCH,5_prime_UTR_variant,,ENST00000546225,;IQCH,missense_variant,p.Ser34Leu,ENST00000561339,;IQCH,3_prime_UTR_variant,,ENST00000535744,;IQCH,3_prime_UTR_variant,,ENST00000514049,;IQCH,3_prime_UTR_variant,,ENST00000559568,;IQCH,non_coding_transcript_exon_variant,,ENST00000559172,;	T	ENSG00000103599	ENST00000335894	Transcript	synonymous_variant	711	645	215	F	ttC/ttT	.	.	.	1	IQCH	HGNC	25721	protein_coding	YES	CCDS32273.1	ENSP00000336861	IQCH_HUMAN	H3BRL4_HUMAN	UPI000013CCE9	.	.	.	7/21	.	hmmpanther:PTHR14465:SF0,hmmpanther:PTHR14465	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACTTTCACTAT	.	3	BLCA
IQCH	0	.	GRCh37	15	67649700	67649700	+	Missense_Mutation	SNP	C	C	T	rs779906669	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.655C>T	p.Arg219Trp	p.R219W	ENST00000335894	7/21	46	37	8	52	52	0	IQCH,missense_variant,p.Arg219Trp,ENST00000335894,;IQCH,missense_variant,p.Arg46Trp,ENST00000358767,;IQCH,5_prime_UTR_variant,,ENST00000546225,;IQCH,synonymous_variant,p.%3D,ENST00000561339,;IQCH,3_prime_UTR_variant,,ENST00000535744,;IQCH,3_prime_UTR_variant,,ENST00000514049,;IQCH,3_prime_UTR_variant,,ENST00000559568,;IQCH,non_coding_transcript_exon_variant,,ENST00000559172,;	T	ENSG00000103599	ENST00000335894	Transcript	missense_variant	721	655	219	R/W	Cgg/Tgg	rs779906669,COSM3503374	.	.	1	IQCH	HGNC	25721	protein_coding	YES	CCDS32273.1	ENSP00000336861	IQCH_HUMAN	H3BRL4_HUMAN	UPI000013CCE9	.	deleterious(0.01)	benign(0.292)	7/21	.	hmmpanther:PTHR14465:SF0,hmmpanther:PTHR14465	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TACCTCGGGAA	byFrequency	3	BLCA
IQCH	0	.	GRCh37	15	67681233	67681234	+	Frame_Shift_Ins	INS	-	-	A	rs776357245	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1528dupA	p.Ile510AsnfsTer14	p.I510Nfs*14	ENST00000335894	12/21	68	51	16	99	99	0	IQCH,frameshift_variant,p.Ile258AsnfsTer14,ENST00000546225,;IQCH,frameshift_variant,p.Ile337AsnfsTer14,ENST00000358767,;IQCH,frameshift_variant,p.Ile262AsnfsTer14,ENST00000360277,;IQCH,frameshift_variant,p.Ile123AsnfsTer14,ENST00000561357,;IQCH,frameshift_variant,p.Ile510AsnfsTer14,ENST00000335894,;IQCH,3_prime_UTR_variant,,ENST00000514049,;	A	ENSG00000103599	ENST00000335894	Transcript	frameshift_variant	1587-1588	1521-1522	507-508	-/X	-/A	rs776357245	.	.	1	IQCH	HGNC	25721	protein_coding	YES	CCDS32273.1	ENSP00000336861	IQCH_HUMAN	H3BRL4_HUMAN	UPI000013CCE9	.	.	.	12/21	.	hmmpanther:PTHR14465:SF0,hmmpanther:PTHR14465	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	7	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	TATTACAAAAA	.	2	BLCA
NPTN	0	.	GRCh37	15	73889661	73889661	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.141C>A	p.%3D	p.A47A	ENST00000345330	2/9	50	44	6	52	52	0	NPTN,synonymous_variant,p.%3D,ENST00000567198,;NPTN,synonymous_variant,p.%3D,ENST00000565282,;NPTN,synonymous_variant,p.%3D,ENST00000563691,;NPTN,synonymous_variant,p.%3D,ENST00000545878,;NPTN,synonymous_variant,p.%3D,ENST00000345330,;NPTN,synonymous_variant,p.%3D,ENST00000287226,;NPTN,intron_variant,,ENST00000562924,;NPTN,intron_variant,,ENST00000565325,;NPTN,intron_variant,,ENST00000351217,;NPTN,intron_variant,,ENST00000542234,;NPTN,intron_variant,,ENST00000564551,;NPTN,intron_variant,,ENST00000563753,;	T	ENSG00000156642	ENST00000345330	Transcript	synonymous_variant	339	141	47	A	gcC/gcA	.	.	.	-1	NPTN	HGNC	17867	protein_coding	YES	CCDS10249.1	ENSP00000290401	NPTN_HUMAN	Q9UFM8_HUMAN,H3BQ94_HUMAN	UPI0000072D5C	.	.	.	2/9	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10075,hmmpanther:PTHR10075:SF5,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCAAAGGCGTC	.	3	BLCA
FSD2	0	.	GRCh37	15	83424818	83424818	+	3'UTR	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*3282T>C	.	.	ENST00000334574	13/13	135	123	12	168	168	0	FSD2,3_prime_UTR_variant,,ENST00000334574,;FSD2,downstream_gene_variant,,ENST00000541889,;SCARNA15,non_coding_transcript_exon_variant,,ENST00000516881,;RP11-752G15.6,intron_variant,,ENST00000559366,;RP11-752G15.6,intron_variant,,ENST00000558174,;RP11-752G15.6,intron_variant,,ENST00000561107,;RP11-752G15.6,downstream_gene_variant,,ENST00000558687,;RP11-752G15.6,downstream_gene_variant,,ENST00000544685,;SCARNA15,non_coding_transcript_exon_variant,,ENST00000607520,;	G	ENSG00000186628	ENST00000334574	Transcript	3_prime_UTR_variant	5714	.	.	.	.	.	.	.	-1	FSD2	HGNC	18024	protein_coding	YES	CCDS45332.1	ENSP00000335651	FSD2_HUMAN	H0YLA8_HUMAN	UPI0000161097	.	.	.	13/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TACCAACAGCA	.	3	BLCA
AKAP13	0	.	GRCh37	15	86123700	86123700	+	Missense_Mutation	SNP	G	G	A	rs751149430	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2401G>A	p.Ala801Thr	p.A801T	ENST00000361243	7/37	162	128	34	179	179	0	AKAP13,missense_variant,p.Ala801Thr,ENST00000394518,;AKAP13,missense_variant,p.Ala801Thr,ENST00000559362,;AKAP13,missense_variant,p.Ala801Thr,ENST00000361243,;AKAP13,downstream_gene_variant,,ENST00000558166,;AKAP13,downstream_gene_variant,,ENST00000558811,;RP11-815J21.2,upstream_gene_variant,,ENST00000561409,;AKAP13,upstream_gene_variant,,ENST00000560340,;AKAP13,upstream_gene_variant,,ENST00000561337,;	A	ENSG00000170776	ENST00000361243	Transcript	missense_variant	2482	2401	801	A/T	Gca/Aca	rs751149430,COSM966041	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	deleterious_low_confidence(0.01)	possibly_damaging(0.665)	7/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACGCACTT	byFrequency	5	BLCA
AKAP13	0	.	GRCh37	15	86198906	86198906	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4633C>A	p.Pro1545Thr	p.P1545T	ENST00000361243	11/37	60	49	11	75	75	0	AKAP13,missense_variant,p.Pro99Thr,ENST00000559486,;AKAP13,missense_variant,p.Pro1545Thr,ENST00000394518,;AKAP13,missense_variant,p.Pro1545Thr,ENST00000559362,;AKAP13,missense_variant,p.Pro1545Thr,ENST00000361243,;RNU6-1280P,upstream_gene_variant,,ENST00000365211,;RP11-815J21.4,intron_variant,,ENST00000558980,;AKAP13,non_coding_transcript_exon_variant,,ENST00000560676,;AKAP13,non_coding_transcript_exon_variant,,ENST00000560579,;	A	ENSG00000170776	ENST00000361243	Transcript	missense_variant	4714	4633	1545	P/T	Cct/Act	.	.	.	1	AKAP13	HGNC	371	protein_coding	YES	CCDS32320.1	ENSP00000354718	AKP13_HUMAN	H0YMI5_HUMAN,A8MYJ1_HUMAN	UPI00001A8BEB	.	deleterious(0)	probably_damaging(0.988)	11/37	.	hmmpanther:PTHR13944:SF4,hmmpanther:PTHR13944	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTGCCTGCA	.	5	BLCA
FANCI	0	.	GRCh37	15	89850742	89850742	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3578delA	p.Asn1193IlefsTer6	p.N1193Ifs*6	ENST00000310775	33/38	69	56	13	73	73	0	FANCI,frameshift_variant,p.Asn1133IlefsTer6,ENST00000300027,;FANCI,frameshift_variant,p.Asn959IlefsTer6,ENST00000561894,;FANCI,frameshift_variant,p.Asn1193IlefsTer6,ENST00000310775,;FANCI,intron_variant,,ENST00000565522,;FANCI,upstream_gene_variant,,ENST00000566615,;FANCI,frameshift_variant,p.Lys1070AsnfsTer137,ENST00000447611,;FANCI,non_coding_transcript_exon_variant,,ENST00000566895,;	-	ENSG00000140525	ENST00000310775	Transcript	frameshift_variant	3659	3573	1191	P/X	ccA/cc	.	.	.	1	FANCI	HGNC	25568	protein_coding	YES	CCDS45346.1	ENSP00000310842	FANCI_HUMAN	H3BT54_HUMAN,H3BS60_HUMAN,H3BQE2_HUMAN	UPI00001FEB1D	.	.	.	33/38	.	hmmpanther:PTHR21818,hmmpanther:PTHR21818:SF0,Pfam_domain:PF14678	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AATTCCAAAAAA	.	3	BLCA
ANPEP	0	.	GRCh37	15	90333727	90333727	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2715G>C	p.%3D	p.V905V	ENST00000300060	20/21	41	37	4	45	45	0	ANPEP,synonymous_variant,p.%3D,ENST00000300060,;ANPEP,downstream_gene_variant,,ENST00000558740,;	G	ENSG00000166825	ENST00000300060	Transcript	synonymous_variant	3029	2715	905	V	gtG/gtC	.	.	.	-1	ANPEP	HGNC	500	protein_coding	YES	CCDS10356.1	ENSP00000300060	AMPN_HUMAN	Q8IVL7_HUMAN,Q71E46_HUMAN,H0YM04_HUMAN,H0YKT6_HUMAN,B4DV63_HUMAN,B4DP96_HUMAN	UPI00001AECCF	.	.	.	20/21	.	hmmpanther:PTHR11533:SF149,hmmpanther:PTHR11533,Pfam_domain:PF11838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGTGTCACTGC	.	3	BLCA
MCTP2	0	.	GRCh37	15	94983445	94983445	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2126T>C	p.Ile709Thr	p.I709T	ENST00000357742	17/22	154	128	26	182	182	0	MCTP2,missense_variant,p.Ile709Thr,ENST00000357742,;MCTP2,intron_variant,,ENST00000451018,;MCTP2,3_prime_UTR_variant,,ENST00000456504,;	C	ENSG00000140563	ENST00000357742	Transcript	missense_variant	2126	2126	709	I/T	aTc/aCc	COSM3706831,COSM4058054	.	.	1	MCTP2	HGNC	25636	protein_coding	YES	CCDS32338.1	ENSP00000350377	MCTP2_HUMAN	Q9NPN6_HUMAN	UPI0000D613A2	.	deleterious(0)	benign(0.143)	17/22	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR16122,hmmpanther:PTHR16122:SF5	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATGATCCCCT	.	5	BLCA
RMI2	0	.	GRCh37	16	11444624	11444624	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.421G>A	p.Asp141Asn	p.D141N	ENST00000312499	2/2	50	43	7	90	90	0	RMI2,missense_variant,p.Asp141Asn,ENST00000312499,;RMI2,missense_variant,p.Asp78Asn,ENST00000572173,;RMI2,missense_variant,p.Asp78Asn,ENST00000381820,;RMI2,3_prime_UTR_variant,,ENST00000576027,;AC009121.1,downstream_gene_variant,,ENST00000458885,;RP11-485G7.6,upstream_gene_variant,,ENST00000574681,;	A	ENSG00000175643	ENST00000312499	Transcript	missense_variant	462	421	141	D/N	Gat/Aat	.	.	.	1	RMI2	HGNC	28349	protein_coding	YES	CCDS10548.1	ENSP00000310356	RMI2_HUMAN	.	UPI000006EA0A	.	deleterious(0.01)	probably_damaging(0.939)	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGAAGATTTA	.	2	BLCA
GNPTG	0	.	GRCh37	16	1411766	1411766	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201C>G	p.%3D	p.L67L	ENST00000204679	4/11	38	35	3	54	54	0	GNPTG,synonymous_variant,p.%3D,ENST00000529110,;GNPTG,synonymous_variant,p.%3D,ENST00000204679,;UNKL,downstream_gene_variant,,ENST00000248104,;UNKL,downstream_gene_variant,,ENST00000403703,;UNKL,downstream_gene_variant,,ENST00000402641,;UNKL,downstream_gene_variant,,ENST00000397464,;UNKL,downstream_gene_variant,,ENST00000508903,;UNKL,downstream_gene_variant,,ENST00000391893,;UNKL,downstream_gene_variant,,ENST00000389221,;LA16c-316G12.2,upstream_gene_variant,,ENST00000569831,;UNKL,downstream_gene_variant,,ENST00000562537,;GNPTG,3_prime_UTR_variant,,ENST00000526820,;GNPTG,non_coding_transcript_exon_variant,,ENST00000527076,;GNPTG,non_coding_transcript_exon_variant,,ENST00000529957,;GNPTG,intron_variant,,ENST00000527168,;UNKL,downstream_gene_variant,,ENST00000511095,;GNPTG,downstream_gene_variant,,ENST00000527876,;GNPTG,downstream_gene_variant,,ENST00000534197,;	G	ENSG00000090581	ENST00000204679	Transcript	synonymous_variant	244	201	67	L	ctC/ctG	.	.	.	1	GNPTG	HGNC	23026	protein_coding	YES	CCDS10436.1	ENSP00000204679	GNPTG_HUMAN	Q96RZ2_HUMAN	UPI0000073F3C	.	.	.	4/11	.	hmmpanther:PTHR12630,hmmpanther:PTHR12630:SF6,Pfam_domain:PF13015,Superfamily_domains:SSF50911	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGACTCTCGGG	.	2	BLCA
NOMO1	0	.	GRCh37	16	14975418	14975418	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2903C>G	p.Ser968Cys	p.S968C	ENST00000287667	25/31	101	85	16	124	124	0	NOMO1,missense_variant,p.Ser968Cys,ENST00000287667,;	G	ENSG00000103512	ENST00000287667	Transcript	missense_variant	3074	2903	968	S/C	tCt/tGt	.	.	.	1	NOMO1	HGNC	30060	protein_coding	YES	CCDS10556.1	ENSP00000287667	NOMO1_HUMAN	Q9H049_HUMAN	UPI000013D37E	.	deleterious(0.01)	possibly_damaging(0.706)	25/31	.	hmmpanther:PTHR23303,Gene3D:2.60.40.1120,Superfamily_domains:SSF49464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AGTGTCTTCCT	.	2	BLCA
IFT140	0	.	GRCh37	16	1630804	1630804	+	Missense_Mutation	SNP	C	C	T	rs767571875	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1480G>A	p.Val494Ile	p.V494I	ENST00000426508	13/31	49	43	5	81	81	0	IFT140,missense_variant,p.Val494Ile,ENST00000426508,;LA16c-395F10.2,intron_variant,,ENST00000563162,;LA16c-425C2.1,upstream_gene_variant,,ENST00000568149,;IFT140,non_coding_transcript_exon_variant,,ENST00000439987,;IFT140,3_prime_UTR_variant,,ENST00000397417,;IFT140,non_coding_transcript_exon_variant,,ENST00000565298,;	T	ENSG00000187535	ENST00000426508	Transcript	missense_variant	1844	1480	494	V/I	Gtt/Att	rs767571875	.	.	-1	IFT140	HGNC	29077	protein_coding	YES	CCDS10439.1	ENSP00000406012	IF140_HUMAN	Q9UG52_HUMAN,H3BTA5_HUMAN,H3BNC5_HUMAN	UPI0000073C64	.	tolerated(0.57)	benign(0.012)	13/31	.	hmmpanther:PTHR15722	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTAAACGTTTT	.	3	BLCA
CRAMP1L	0	.	GRCh37	16	1691168	1691168	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.807G>C	p.%3D	p.L269L	ENST00000397412	6/21	94	76	18	94	94	0	CRAMP1L,synonymous_variant,p.%3D,ENST00000436138,;CRAMP1L,synonymous_variant,p.%3D,ENST00000293925,;CRAMP1L,synonymous_variant,p.%3D,ENST00000397412,;LA16c-431H6.6,synonymous_variant,p.%3D,ENST00000454337,;	C	ENSG00000007545	ENST00000397412	Transcript	synonymous_variant	906	807	269	L	ctG/ctC	.	.	.	1	CRAMP1L	HGNC	14122	protein_coding	YES	CCDS10440.2	ENSP00000380559	CRML_HUMAN	B2RNX8_HUMAN	UPI000066D946	.	.	.	6/21	.	hmmpanther:PTHR21677	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAATGA	.	5	BLCA
GP2	0	.	GRCh37	16	20326023	20326023	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1511G>A	p.Gly504Asp	p.G504D	ENST00000381362	11/12	41	33	7	76	76	0	GP2,missense_variant,p.Gly354Asp,ENST00000341642,;GP2,missense_variant,p.Gly501Asp,ENST00000302555,;GP2,missense_variant,p.Gly504Asp,ENST00000381362,;GP2,missense_variant,p.Gly357Asp,ENST00000381360,;GP2,downstream_gene_variant,,ENST00000573897,;	T	ENSG00000169347	ENST00000381362	Transcript	missense_variant	1588	1511	504	G/D	gGt/gAt	.	.	.	-1	GP2	HGNC	4441	protein_coding	YES	CCDS42128.1	ENSP00000370767	GP2_HUMAN	I3L2Z7_HUMAN	UPI000059D333	.	tolerated(0.16)	benign(0.026)	11/12	.	hmmpanther:PTHR22962:SF129,hmmpanther:PTHR22962	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGCACCTGTG	.	5	BLCA
RABEP2	0	.	GRCh37	16	28926079	28926079	+	Missense_Mutation	SNP	G	G	A	rs746171043	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.457C>T	p.Arg153Trp	p.R153W	ENST00000358201	4/13	84	72	11	93	93	0	RABEP2,missense_variant,p.Arg82Trp,ENST00000544477,;RABEP2,missense_variant,p.Arg143Trp,ENST00000567483,;RABEP2,missense_variant,p.Arg100Trp,ENST00000568703,;RABEP2,missense_variant,p.Arg153Trp,ENST00000358201,;RABEP2,missense_variant,p.Arg153Trp,ENST00000357573,;RABEP2,missense_variant,p.Arg12Trp,ENST00000561501,;RABEP2,missense_variant,p.Arg12Trp,ENST00000566762,;RABEP2,downstream_gene_variant,,ENST00000562475,;RABEP2,downstream_gene_variant,,ENST00000561803,;RABEP2,downstream_gene_variant,,ENST00000564473,;RABEP2,non_coding_transcript_exon_variant,,ENST00000562590,;RABEP2,downstream_gene_variant,,ENST00000564579,;RABEP2,downstream_gene_variant,,ENST00000570030,;	A	ENSG00000177548	ENST00000358201	Transcript	missense_variant	1046	457	153	R/W	Cgg/Tgg	rs746171043	.	.	-1	RABEP2	HGNC	24817	protein_coding	YES	CCDS42140.1	ENSP00000350934	RABE2_HUMAN	H3BU67_HUMAN,H3BNR8_HUMAN,H3BNR2_HUMAN	UPI0000367822	.	deleterious(0)	probably_damaging(0.999)	4/13	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR31179:SF6,hmmpanther:PTHR31179,Pfam_domain:PF03528,Prints_domain:PR01432	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCCGCAGCT	.	4	BLCA
TMEM219	0	.	GRCh37	16	29979543	29979543	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553G>A	p.Glu185Lys	p.E185K	ENST00000566848	3/5	96	79	17	139	139	0	TMEM219,missense_variant,p.Glu185Lys,ENST00000414689,;TMEM219,missense_variant,p.Glu185Lys,ENST00000279396,;TMEM219,missense_variant,p.Glu185Lys,ENST00000575829,;TMEM219,missense_variant,p.Glu130Lys,ENST00000569445,;TMEM219,missense_variant,p.Glu185Lys,ENST00000566848,;TMEM219,missense_variant,p.Glu185Lys,ENST00000561899,;TMEM219,intron_variant,,ENST00000569481,;TMEM219,downstream_gene_variant,,ENST00000602948,;TMEM219,missense_variant,p.Glu176Lys,ENST00000570255,;	A	ENSG00000149932	ENST00000566848	Transcript	missense_variant	1020	553	185	E/K	Gaa/Aaa	.	.	.	1	TMEM219	HGNC	25201	protein_coding	YES	CCDS42145.1	ENSP00000457492	TM219_HUMAN	R4GNJ4_HUMAN	UPI000004F67E	.	tolerated(0.3)	probably_damaging(0.987)	3/5	.	hmmpanther:PTHR16002,hmmpanther:PTHR16002:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGAAGGC	.	4	BLCA
TAOK2	0	.	GRCh37	16	29997772	29997772	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2179G>C	p.Glu727Gln	p.E727Q	ENST00000308893	16/16	70	58	12	92	92	0	TAOK2,missense_variant,p.Glu554Gln,ENST00000416441,;TAOK2,missense_variant,p.Glu727Gln,ENST00000543033,;TAOK2,missense_variant,p.Glu727Gln,ENST00000279394,;TAOK2,missense_variant,p.Glu727Gln,ENST00000308893,;TAOK2,non_coding_transcript_exon_variant,,ENST00000566552,;TAOK2,upstream_gene_variant,,ENST00000570844,;	C	ENSG00000149930	ENST00000308893	Transcript	missense_variant	3222	2179	727	E/Q	Gag/Cag	COSM703334,COSM703333	.	.	1	TAOK2	HGNC	16835	protein_coding	YES	CCDS10663.1	ENSP00000310094	TAOK2_HUMAN	.	UPI000013EDDA	.	deleterious(0.01)	probably_damaging(0.968)	16/16	.	hmmpanther:PTHR24361:SF188,hmmpanther:PTHR24361	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCAAGAGTTG	.	5	BLCA
PAQR4	0	.	GRCh37	16	3021896	3021896	+	Missense_Mutation	SNP	G	G	A	rs142699591	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769G>A	p.Gly257Ser	p.G257S	ENST00000318782	3/3	35	30	4	46	46	0	PAQR4,missense_variant,p.Gly190Ser,ENST00000576565,;PAQR4,missense_variant,p.Gly190Ser,ENST00000574988,;PAQR4,missense_variant,p.Gly183Ser,ENST00000572687,;PAQR4,missense_variant,p.Gly218Ser,ENST00000293978,;PAQR4,missense_variant,p.Gly257Ser,ENST00000318782,;PKMYT1,intron_variant,,ENST00000431515,;PKMYT1,downstream_gene_variant,,ENST00000572619,;KREMEN2,downstream_gene_variant,,ENST00000303746,;PKMYT1,downstream_gene_variant,,ENST00000574415,;PKMYT1,downstream_gene_variant,,ENST00000262300,;PKMYT1,downstream_gene_variant,,ENST00000575040,;PKMYT1,downstream_gene_variant,,ENST00000573944,;PKMYT1,downstream_gene_variant,,ENST00000576268,;PKMYT1,downstream_gene_variant,,ENST00000440027,;KREMEN2,downstream_gene_variant,,ENST00000571007,;KREMEN2,downstream_gene_variant,,ENST00000319500,;KREMEN2,downstream_gene_variant,,ENST00000572045,;KREMEN2,downstream_gene_variant,,ENST00000575885,;PKMYT1,downstream_gene_variant,,ENST00000574730,;PKMYT1,downstream_gene_variant,,ENST00000572059,;KREMEN2,downstream_gene_variant,,ENST00000575769,;PKMYT1,downstream_gene_variant,,ENST00000575632,;PKMYT1,downstream_gene_variant,,ENST00000574385,;PKMYT1,non_coding_transcript_exon_variant,,ENST00000574333,;PKMYT1,upstream_gene_variant,,ENST00000571102,;PKMYT1,upstream_gene_variant,,ENST00000572832,;PKMYT1,downstream_gene_variant,,ENST00000575981,;PKMYT1,downstream_gene_variant,,ENST00000574680,;PKMYT1,downstream_gene_variant,,ENST00000382240,;	A	ENSG00000162073	ENST00000318782	Transcript	missense_variant	1199	769	257	G/S	Ggc/Agc	rs142699591	.	.	1	PAQR4	HGNC	26386	protein_coding	YES	CCDS10485.1	ENSP00000321804	PAQR4_HUMAN	I3L1A2_HUMAN	UPI0000072F38	.	deleterious(0.01)	probably_damaging(0.999)	3/3	.	hmmpanther:PTHR20855,hmmpanther:PTHR20855:SF30	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACGCCGGCGTC	byCluster	4	BLCA
TBC1D10B	0	.	GRCh37	16	30369984	30369984	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1797G>C	p.Glu599Asp	p.E599D	ENST00000409939	8/9	15	12	3	26	26	0	TBC1D10B,missense_variant,p.Glu599Asp,ENST00000409939,;TBC1D10B,missense_variant,p.Arg184Thr,ENST00000490703,;CD2BP2,upstream_gene_variant,,ENST00000305596,;CD2BP2,upstream_gene_variant,,ENST00000569466,;RP11-347C12.10,downstream_gene_variant,,ENST00000563252,;TBC1D10B,splice_region_variant,,ENST00000478158,;TBC1D10B,splice_region_variant,,ENST00000475650,;TBC1D10B,downstream_gene_variant,,ENST00000566671,;CD2BP2,upstream_gene_variant,,ENST00000564525,;TBC1D10B,downstream_gene_variant,,ENST00000464644,;TBC1D10B,downstream_gene_variant,,ENST00000475872,;	G	ENSG00000169221	ENST00000409939	Transcript	missense_variant	1878	1797	599	E/D	gaG/gaC	.	.	.	-1	TBC1D10B	HGNC	24510	protein_coding	YES	CCDS10676.2	ENSP00000386538	TB10B_HUMAN	.	UPI000164FA1A	.	deleterious(0.05)	benign(0.23)	8/9	.	hmmpanther:PTHR22957:SF207,hmmpanther:PTHR22957,Superfamily_domains:SSF47923	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTACCTCATG	.	2	BLCA
ZNF200	0	.	GRCh37	16	3282457	3282457	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.430G>A	p.Glu144Lys	p.E144K	ENST00000431561	4/5	155	130	25	212	212	0	ZNF200,missense_variant,p.Glu144Lys,ENST00000414144,;ZNF200,missense_variant,p.Glu144Lys,ENST00000575948,;ZNF200,missense_variant,p.Glu144Lys,ENST00000431561,;ZNF200,missense_variant,p.Glu144Lys,ENST00000396870,;ZNF200,missense_variant,p.Glu143Lys,ENST00000396868,;ZNF200,missense_variant,p.Glu144Lys,ENST00000396871,;ZNF200,downstream_gene_variant,,ENST00000575617,;ZNF200,non_coding_transcript_exon_variant,,ENST00000575630,;ZNF200,upstream_gene_variant,,ENST00000575285,;ZNF200,downstream_gene_variant,,ENST00000577015,;	T	ENSG00000010539	ENST00000431561	Transcript	missense_variant	1043	430	144	E/K	Gaa/Aaa	COSM1609255	.	.	-1	ZNF200	HGNC	12993	protein_coding	YES	CCDS10497.1	ENSP00000395723	ZN200_HUMAN	I3L1E4_HUMAN	UPI00001D89D6	.	tolerated(0.57)	benign(0.018)	4/5	.	hmmpanther:PTHR26374,hmmpanther:PTHR26374:SF156	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTTCCTTCT	.	4	BLCA
SHCBP1	0	.	GRCh37	16	46617538	46617538	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1583A>G	p.Lys528Arg	p.K528R	ENST00000303383	12/13	185	128	57	205	205	0	SHCBP1,missense_variant,p.Lys528Arg,ENST00000303383,;SHCBP1,non_coding_transcript_exon_variant,,ENST00000567698,;	C	ENSG00000171241	ENST00000303383	Transcript	missense_variant	1850	1583	528	K/R	aAg/aGg	.	.	.	-1	SHCBP1	HGNC	29547	protein_coding	YES	CCDS10720.1	ENSP00000306473	SHCBP_HUMAN	.	UPI000013E898	.	tolerated(0.16)	benign(0.009)	12/13	.	hmmpanther:PTHR14695,hmmpanther:PTHR14695:SF6,Pfam_domain:PF13229,Gene3D:2.160.20.10,SMART_domains:SM00710,Superfamily_domains:SSF51126	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATCTTGGGA	.	5	BLCA
FAM86A	0	.	GRCh37	16	5145470	5145470	+	Missense_Mutation	SNP	G	G	A	rs760548419	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.142C>T	p.Arg48Trp	p.R48W	ENST00000427587	2/8	123	102	20	176	175	1	FAM86A,missense_variant,p.Arg48Trp,ENST00000587133,;FAM86A,missense_variant,p.Arg48Trp,ENST00000458008,;FAM86A,missense_variant,p.Arg48Trp,ENST00000427587,;RP11-10K17.6,upstream_gene_variant,,ENST00000589323,;FAM86A,missense_variant,p.Arg48Trp,ENST00000585436,;FAM86A,missense_variant,p.Arg48Trp,ENST00000587200,;FAM86A,3_prime_UTR_variant,,ENST00000587161,;FAM86A,non_coding_transcript_exon_variant,,ENST00000585975,;FAM86A,non_coding_transcript_exon_variant,,ENST00000586444,;	A	ENSG00000118894	ENST00000427587	Transcript	missense_variant	211	142	48	R/W	Cgg/Tgg	rs760548419,COSM281021	.	.	-1	FAM86A	HGNC	32221	protein_coding	YES	CCDS10529.1	ENSP00000398502	FA86A_HUMAN	.	UPI000013D29B	.	tolerated(0.12)	benign(0.002)	2/8	.	Pfam_domain:PF14904,hmmpanther:PTHR23109,hmmpanther:PTHR23109:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCCGCAGCA	byFrequency|byCluster	5	BLCA
AMFR	0	.	GRCh37	16	56443414	56443414	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435G>A	p.%3D	p.V145V	ENST00000290649	3/14	89	75	14	113	113	0	AMFR,synonymous_variant,p.%3D,ENST00000565445,;AMFR,synonymous_variant,p.%3D,ENST00000290649,;AMFR,synonymous_variant,p.%3D,ENST00000563664,;RP11-413H22.2,non_coding_transcript_exon_variant,,ENST00000563090,;AMFR,non_coding_transcript_exon_variant,,ENST00000568657,;AMFR,downstream_gene_variant,,ENST00000564283,;	T	ENSG00000159461	ENST00000290649	Transcript	synonymous_variant	646	435	145	V	gtG/gtA	.	.	.	-1	AMFR	HGNC	463	protein_coding	YES	CCDS10758.1	ENSP00000290649	AMFR_HUMAN	Q6PGR1_HUMAN,Q1RN03_HUMAN,H3BSK3_HUMAN,H3BQM3_HUMAN	UPI000013EDCA	.	.	.	3/14	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12477,hmmpanther:PTHR12477:SF70	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACCACCTC	.	5	BLCA
GPR56	0	.	GRCh37	16	57685486	57685486	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.439C>G	p.Gln147Glu	p.Q147E	ENST00000388812	3/14	41	33	8	40	40	0	GPR56,missense_variant,p.Gln152Glu,ENST00000566271,;GPR56,missense_variant,p.Gln147Glu,ENST00000561988,;GPR56,missense_variant,p.Gln147Glu,ENST00000568909,;GPR56,missense_variant,p.Gln95Glu,ENST00000568979,;GPR56,missense_variant,p.Gln53Glu,ENST00000564103,;GPR56,missense_variant,p.Gln147Glu,ENST00000540164,;GPR56,missense_variant,p.Gln147Glu,ENST00000561969,;GPR56,missense_variant,p.Gln147Glu,ENST00000569101,;GPR56,missense_variant,p.Gln147Glu,ENST00000562631,;GPR56,missense_variant,p.Gln147Glu,ENST00000456916,;GPR56,missense_variant,p.Gln147Glu,ENST00000569494,;GPR56,missense_variant,p.Gln147Glu,ENST00000379696,;GPR56,missense_variant,p.Gln152Glu,ENST00000561782,;GPR56,missense_variant,p.Gln147Glu,ENST00000538815,;GPR56,missense_variant,p.Gln152Glu,ENST00000563862,;GPR56,missense_variant,p.Gln147Glu,ENST00000388812,;GPR56,missense_variant,p.Gln147Glu,ENST00000388813,;GPR56,missense_variant,p.Gln147Glu,ENST00000566187,;GPR56,missense_variant,p.Gln147Glu,ENST00000562558,;GPR56,missense_variant,p.Gln147Glu,ENST00000568908,;GPR56,missense_variant,p.Gln95Glu,ENST00000568531,;GPR56,missense_variant,p.Gln147Glu,ENST00000561833,;GPR56,missense_variant,p.Gln147Glu,ENST00000561696,;GPR56,missense_variant,p.Gln147Glu,ENST00000566169,;GPR56,missense_variant,p.Gln147Glu,ENST00000567835,;GPR56,5_prime_UTR_variant,,ENST00000544297,;GPR56,intron_variant,,ENST00000379694,;GPR56,downstream_gene_variant,,ENST00000568234,;GPR56,downstream_gene_variant,,ENST00000567154,;GPR56,downstream_gene_variant,,ENST00000566508,;GPR56,downstream_gene_variant,,ENST00000565770,;GPR56,downstream_gene_variant,,ENST00000564722,;GPR56,downstream_gene_variant,,ENST00000564360,;GPR56,downstream_gene_variant,,ENST00000566778,;GPR56,downstream_gene_variant,,ENST00000563414,;GPR56,downstream_gene_variant,,ENST00000565976,;GPR56,downstream_gene_variant,,ENST00000568791,;GPR56,downstream_gene_variant,,ENST00000568074,;GPR56,downstream_gene_variant,,ENST00000566164,;GPR56,downstream_gene_variant,,ENST00000569158,;GPR56,downstream_gene_variant,,ENST00000563445,;GPR56,downstream_gene_variant,,ENST00000569531,;GPR56,downstream_gene_variant,,ENST00000564338,;GPR56,downstream_gene_variant,,ENST00000567397,;GPR56,downstream_gene_variant,,ENST00000565587,;GPR56,downstream_gene_variant,,ENST00000567702,;GPR56,downstream_gene_variant,,ENST00000568157,;GPR56,downstream_gene_variant,,ENST00000564783,;GPR56,downstream_gene_variant,,ENST00000568618,;GPR56,downstream_gene_variant,,ENST00000565338,;GPR56,downstream_gene_variant,,ENST00000563374,;GPR56,downstream_gene_variant,,ENST00000562414,;GPR56,downstream_gene_variant,,ENST00000564729,;GPR56,upstream_gene_variant,,ENST00000565391,;GPR56,downstream_gene_variant,,ENST00000565314,;GPR56,downstream_gene_variant,,ENST00000563548,;GPR56,downstream_gene_variant,,ENST00000562467,;GPR56,downstream_gene_variant,,ENST00000566123,;GPR56,downstream_gene_variant,,ENST00000569154,;GPR56,downstream_gene_variant,,ENST00000565013,;GPR56,downstream_gene_variant,,ENST00000567915,;GPR56,downstream_gene_variant,,ENST00000570044,;GPR56,downstream_gene_variant,,ENST00000562682,;GPR56,downstream_gene_variant,,ENST00000569372,;GPR56,downstream_gene_variant,,ENST00000567553,;GPR56,downstream_gene_variant,,ENST00000562003,;GPR56,non_coding_transcript_exon_variant,,ENST00000561872,;GPR56,non_coding_transcript_exon_variant,,ENST00000564912,;GPR56,non_coding_transcript_exon_variant,,ENST00000566888,;GPR56,non_coding_transcript_exon_variant,,ENST00000562608,;GPR56,intron_variant,,ENST00000568700,;GPR56,downstream_gene_variant,,ENST00000569132,;GPR56,downstream_gene_variant,,ENST00000569992,;GPR56,downstream_gene_variant,,ENST00000562101,;GPR56,downstream_gene_variant,,ENST00000562673,;GPR56,3_prime_UTR_variant,,ENST00000565539,;GPR56,3_prime_UTR_variant,,ENST00000564907,;GPR56,3_prime_UTR_variant,,ENST00000568645,;GPR56,3_prime_UTR_variant,,ENST00000563007,;GPR56,upstream_gene_variant,,ENST00000565505,;	G	ENSG00000205336	ENST00000388812	Transcript	missense_variant	879	439	147	Q/E	Cag/Gag	.	.	.	1	GPR56	HGNC	4512	protein_coding	YES	CCDS32460.1	ENSP00000373464	GPR56_HUMAN	H3BVE9_HUMAN,H3BVD3_HUMAN,H3BV72_HUMAN,H3BV52_HUMAN,H3BUH2_HUMAN,H3BTK9_HUMAN,H3BTH7_HUMAN,H3BTD2_HUMAN,H3BT88_HUMAN,H3BSR1_HUMAN,H3BSN7_HUMAN,H3BSN3_HUMAN,H3BSB8_HUMAN,H3BS94_HUMAN,H3BS14_HUMAN,H3BRZ4_HUMAN,H3BRI7_HUMAN,H3BRH0_HUMAN,H3BRB4_HUMAN,H3BRA1_HUMAN,H3BQZ1_HUMAN,H3BQW4_HUMAN,H3BQ46_HUMAN,H3BNN3_HUMAN,H3BMF8_HUMAN	UPI0000047817	.	tolerated(0.07)	benign(0.027)	3/14	.	hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF45	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCAGAAC	.	2	BLCA
NHLRC4	0	.	GRCh37	16	618117	618117	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.70T>A	p.Phe24Ile	p.F24I	ENST00000424439	2/2	22	17	5	26	26	0	NHLRC4,missense_variant,p.Phe24Ile,ENST00000424439,;NHLRC4,missense_variant,p.Phe24Ile,ENST00000540585,;PIGQ,intron_variant,,ENST00000293874,;PIGQ,intron_variant,,ENST00000409527,;PIGQ,upstream_gene_variant,,ENST00000321878,;PIGQ,upstream_gene_variant,,ENST00000409439,;PIGQ,upstream_gene_variant,,ENST00000439574,;PIGQ,upstream_gene_variant,,ENST00000470411,;C16orf11,downstream_gene_variant,,ENST00000409413,;PIGQ,upstream_gene_variant,,ENST00000026218,;PIGQ,upstream_gene_variant,,ENST00000422307,;PIGQ,upstream_gene_variant,,ENST00000443147,;	A	ENSG00000257108	ENST00000424439	Transcript	missense_variant	727	70	24	F/I	Ttt/Att	.	.	.	1	NHLRC4	HGNC	26700	protein_coding	YES	CCDS45366.1	ENSP00000410858	NHLC4_HUMAN	.	UPI0000073D57	.	deleterious(0.03)	benign(0.343)	2/2	.	hmmpanther:PTHR14678,Gene3D:2.120.10.30,Superfamily_domains:SSF101898	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGAGTTTGGG	.	5	BLCA
PIGQ	0	.	GRCh37	16	633636	633636	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*2G>A	.	.	ENST00000026218	10/10	73	64	9	92	92	0	PIGQ,3_prime_UTR_variant,,ENST00000321878,;PIGQ,3_prime_UTR_variant,,ENST00000026218,;PIGQ,downstream_gene_variant,,ENST00000409527,;PIGQ,downstream_gene_variant,,ENST00000540241,;PIGQ,downstream_gene_variant,,ENST00000544860,;PIGQ,downstream_gene_variant,,ENST00000540548,;PIGQ,non_coding_transcript_exon_variant,,ENST00000476438,;PIGQ,non_coding_transcript_exon_variant,,ENST00000480424,;PIGQ,downstream_gene_variant,,ENST00000420990,;PIGQ,downstream_gene_variant,,ENST00000443147,;PIGQ,downstream_gene_variant,,ENST00000537901,;	A	ENSG00000007541	ENST00000026218	Transcript	3_prime_UTR_variant	2373	.	.	.	.	.	.	.	1	PIGQ	HGNC	14135	protein_coding	YES	CCDS10411.1	ENSP00000026218	PIGQ_HUMAN	J3QTH6_HUMAN,B8ZZC7_HUMAN,B8ZZ31_HUMAN,B8ZZ29_HUMAN	UPI000006CC88	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAAGAAACC	.	4	BLCA
EDC4	0	.	GRCh37	16	67914112	67914112	+	Missense_Mutation	SNP	C	C	T	rs765594833	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2090C>T	p.Pro697Leu	p.P697L	ENST00000358933	17/29	52	44	7	51	51	0	EDC4,missense_variant,p.Pro697Leu,ENST00000358933,;EDC4,upstream_gene_variant,,ENST00000577105,;NRN1L,upstream_gene_variant,,ENST00000339176,;NRN1L,upstream_gene_variant,,ENST00000576758,;EDC4,upstream_gene_variant,,ENST00000575033,;EDC4,upstream_gene_variant,,ENST00000573985,;CTC-479C5.10,upstream_gene_variant,,ENST00000572067,;AC040162.1,downstream_gene_variant,,ENST00000408599,;EDC4,downstream_gene_variant,,ENST00000574770,;EDC4,non_coding_transcript_exon_variant,,ENST00000536072,;EDC4,non_coding_transcript_exon_variant,,ENST00000573992,;EDC4,non_coding_transcript_exon_variant,,ENST00000572221,;EDC4,upstream_gene_variant,,ENST00000577028,;EDC4,upstream_gene_variant,,ENST00000576972,;EDC4,downstream_gene_variant,,ENST00000572031,;EDC4,upstream_gene_variant,,ENST00000575507,;EDC4,upstream_gene_variant,,ENST00000572724,;EDC4,upstream_gene_variant,,ENST00000575514,;	T	ENSG00000038358	ENST00000358933	Transcript	missense_variant	2329	2090	697	P/L	cCg/cTg	rs765594833	.	.	1	EDC4	HGNC	17157	protein_coding	YES	CCDS10849.1	ENSP00000351811	EDC4_HUMAN	.	UPI0000141377	.	tolerated(0.05)	benign(0.084)	17/29	.	hmmpanther:PTHR15598	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGGCCGGGCC	.	5	BLCA
NRN1L	0	.	GRCh37	16	67919746	67919746	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201G>A	p.%3D	p.E67E	ENST00000339176	2/3	93	85	8	97	97	0	NRN1L,synonymous_variant,p.%3D,ENST00000339176,;NRN1L,synonymous_variant,p.%3D,ENST00000576758,;NRN1L,5_prime_UTR_variant,,ENST00000576147,;EDC4,downstream_gene_variant,,ENST00000577105,;EDC4,downstream_gene_variant,,ENST00000575033,;EDC4,downstream_gene_variant,,ENST00000573985,;EDC4,downstream_gene_variant,,ENST00000358933,;CTC-479C5.10,non_coding_transcript_exon_variant,,ENST00000572067,;EDC4,downstream_gene_variant,,ENST00000577028,;EDC4,downstream_gene_variant,,ENST00000576972,;EDC4,downstream_gene_variant,,ENST00000572221,;EDC4,downstream_gene_variant,,ENST00000573992,;EDC4,downstream_gene_variant,,ENST00000572724,;EDC4,downstream_gene_variant,,ENST00000575514,;EDC4,downstream_gene_variant,,ENST00000575507,;	A	ENSG00000188038	ENST00000339176	Transcript	synonymous_variant	300	201	67	E	gaG/gaA	.	.	.	1	NRN1L	HGNC	29811	protein_coding	YES	CCDS10850.1	ENSP00000342411	NRN1L_HUMAN	.	UPI00000359FB	.	.	.	2/3	.	Pfam_domain:PF15056,hmmpanther:PTHR15902:SF2,hmmpanther:PTHR15902	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTGGAGACCAT	.	3	BLCA
CIRH1A	0	.	GRCh37	16	69167477	69167477	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.115A>G	p.Thr39Ala	p.T39A	ENST00000314423	2/17	106	98	8	103	103	0	CIRH1A,missense_variant,p.Thr39Ala,ENST00000563094,;CIRH1A,missense_variant,p.Thr39Ala,ENST00000352319,;CIRH1A,missense_variant,p.Thr39Ala,ENST00000314423,;CIRH1A,missense_variant,p.Thr50Ala,ENST00000563299,;CIRH1A,missense_variant,p.Thr39Ala,ENST00000567235,;CIRH1A,missense_variant,p.Thr53Ala,ENST00000562237,;CIRH1A,5_prime_UTR_variant,,ENST00000566227,;CIRH1A,5_prime_UTR_variant,,ENST00000568448,;CIRH1A,intron_variant,,ENST00000567460,;CHTF8,upstream_gene_variant,,ENST00000519520,;CHTF8,upstream_gene_variant,,ENST00000567763,;CHTF8,upstream_gene_variant,,ENST00000520529,;CHTF8,upstream_gene_variant,,ENST00000522091,;CHTF8,upstream_gene_variant,,ENST00000522497,;CHTF8,upstream_gene_variant,,ENST00000448552,;CHTF8,upstream_gene_variant,,ENST00000523421,;CHTF8,upstream_gene_variant,,ENST00000398235,;CHTF8,upstream_gene_variant,,ENST00000306585,;CIRH1A,non_coding_transcript_exon_variant,,ENST00000569800,;CIRH1A,non_coding_transcript_exon_variant,,ENST00000567015,;	G	ENSG00000141076	ENST00000314423	Transcript	missense_variant	292	115	39	T/A	Act/Gct	.	.	.	1	CIRH1A	HGNC	1983	protein_coding	YES	CCDS10872.1	ENSP00000327179	CIR1A_HUMAN	J3KTR0_HUMAN,J3KSE6_HUMAN,H3BPD7_HUMAN	UPI0000037300	.	tolerated(0.84)	benign(0.004)	2/17	.	PROSITE_profiles:PS50294,hmmpanther:PTHR22841,hmmpanther:PTHR22841:SF4,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGGCACTGTG	.	3	BLCA
PDPR	0	.	GRCh37	16	70190472	70190472	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2330C>G	p.Ser777Ter	p.S777*	ENST00000288050	19/19	199	127	72	127	127	0	PDPR,stop_gained,p.Ser135Ter,ENST00000563930,;PDPR,stop_gained,p.Ser160Ter,ENST00000569042,;PDPR,stop_gained,p.Ser122Ter,ENST00000542659,;PDPR,stop_gained,p.Ser777Ter,ENST00000288050,;PDPR,stop_gained,p.Ser677Ter,ENST00000398122,;PDPR,stop_gained,p.Ser777Ter,ENST00000568530,;PDPR,stop_gained,p.Ser135Ter,ENST00000567046,;PDPR,downstream_gene_variant,,ENST00000567896,;RP11-296I10.3,intron_variant,,ENST00000566989,;RP11-296I10.3,downstream_gene_variant,,ENST00000502126,;PDPR,non_coding_transcript_exon_variant,,ENST00000562100,;PDPR,3_prime_UTR_variant,,ENST00000565186,;PDPR,3_prime_UTR_variant,,ENST00000564563,;	G	ENSG00000090857	ENST00000288050	Transcript	stop_gained	3287	2330	777	S/*	tCa/tGa	.	.	.	1	PDPR	HGNC	30264	protein_coding	YES	CCDS45520.1	ENSP00000288050	PDPR_HUMAN	H3BV59_HUMAN,H3BU60_HUMAN,B7ZAR9_HUMAN,B3KSE1_HUMAN,A8MT40_HUMAN	UPI00001FF513	.	.	.	19/19	.	Gene3D:2.40.30.110,Pfam_domain:PF08669,Superfamily_domains:SSF101790	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATTCAGACC	.	5	BLCA
CNTNAP4	0	.	GRCh37	16	76350421	76350421	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.121+1G>T	.	p.X41_splice	ENST00000478060	.	23	17	6	40	40	0	CNTNAP4,splice_donor_variant,,ENST00000478060,;CNTNAP4,splice_donor_variant,,ENST00000377504,;CNTNAP4,splice_donor_variant,,ENST00000307431,;CNTNAP4,splice_donor_variant,,ENST00000476707,;CNTNAP4,splice_donor_variant,,ENST00000469667,;CNTNAP4,splice_donor_variant,,ENST00000463177,;CNTNAP4,splice_donor_variant,,ENST00000469589,;CNTNAP4,splice_donor_variant,,ENST00000471618,;	T	ENSG00000152910	ENST00000478060	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	CNTNAP4	HGNC	18747	protein_coding	YES	CCDS10924.2	ENSP00000418741	CNTP4_HUMAN	H3BPC8_HUMAN	UPI000059D3C6	.	.	.	.	2/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGATGGTAAGT	.	5	BLCA
CA5A	0	.	GRCh37	16	87960473	87960473	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.221G>A	p.Ser74Asn	p.S74N	ENST00000309893	2/7	23	19	4	32	32	0	CA5A,missense_variant,p.Ser74Asn,ENST00000309893,;CA5A,non_coding_transcript_exon_variant,,ENST00000568801,;	T	ENSG00000174990	ENST00000309893	Transcript	missense_variant	287	221	74	S/N	aGc/aAc	.	.	.	-1	CA5A	HGNC	1377	protein_coding	YES	CCDS10965.1	ENSP00000309649	CAH5A_HUMAN	.	UPI0000126DF3	.	deleterious(0.01)	possibly_damaging(0.851)	2/7	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952:SF89,hmmpanther:PTHR18952,Pfam_domain:PF00194,Gene3D:3.10.200.10,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACGCTGTCC	.	4	BLCA
MYH3	0	.	GRCh37	17	10541667	10541667	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3422C>T	p.Ala1141Val	p.A1141V	ENST00000583535	27/41	45	42	3	59	59	0	MYH3,missense_variant,p.Ala1141Val,ENST00000583535,;MYH3,missense_variant,p.Ala1141Val,ENST00000226209,;	A	ENSG00000109063	ENST00000583535	Transcript	missense_variant	3510	3422	1141	A/V	gCc/gTc	.	.	.	-1	MYH3	HGNC	7573	protein_coding	YES	CCDS11157.1	ENSP00000464317	MYH3_HUMAN	.	UPI000013C892	.	deleterious(0.03)	benign(0.001)	27/41	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF297,Pfam_domain:PF01576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCCGGGCATAG	.	2	BLCA
TEKT3	0	.	GRCh37	17	15207410	15207410	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1316G>T	p.Arg439Met	p.R439M	ENST00000395930	9/9	45	36	8	81	81	0	TEKT3,missense_variant,p.Arg439Met,ENST00000395930,;TEKT3,missense_variant,p.Arg439Met,ENST00000338696,;TEKT3,non_coding_transcript_exon_variant,,ENST00000462175,;TEKT3,3_prime_UTR_variant,,ENST00000395931,;TEKT3,non_coding_transcript_exon_variant,,ENST00000578011,;	A	ENSG00000125409	ENST00000395930	Transcript	missense_variant	1503	1316	439	R/M	aGg/aTg	.	.	.	-1	TEKT3	HGNC	14293	protein_coding	YES	CCDS11169.1	ENSP00000379263	TEKT3_HUMAN	F5H5M8_HUMAN,F5H4K1_HUMAN,F5H115_HUMAN,F5GZV8_HUMAN	UPI0000136BAB	.	tolerated(0.06)	benign(0.084)	9/9	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR19960,hmmpanther:PTHR19960:SF24,Pfam_domain:PF03148,Prints_domain:PR00511	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATCCCTCAGG	.	5	BLCA
WDR81	0	.	GRCh37	17	1636047	1636047	+	Missense_Mutation	SNP	G	G	A	rs769333879	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4411G>A	p.Ala1471Thr	p.A1471T	ENST00000409644	6/10	34	26	8	78	78	0	WDR81,missense_variant,p.Ala106Thr,ENST00000468539,;WDR81,missense_variant,p.Ala244Thr,ENST00000419248,;WDR81,missense_variant,p.Ala110Thr,ENST00000446363,;WDR81,missense_variant,p.Ala102Thr,ENST00000545662,;WDR81,missense_variant,p.Ala420Thr,ENST00000309182,;WDR81,missense_variant,p.Ala268Thr,ENST00000437219,;WDR81,missense_variant,p.Ala1471Thr,ENST00000409644,;WDR81,missense_variant,p.Ala56Thr,ENST00000418841,;WDR81,downstream_gene_variant,,ENST00000575206,;WDR81,downstream_gene_variant,,ENST00000455636,;RP11-961A15.1,intron_variant,,ENST00000576540,;WDR81,3_prime_UTR_variant,,ENST00000474958,;WDR81,non_coding_transcript_exon_variant,,ENST00000495411,;WDR81,non_coding_transcript_exon_variant,,ENST00000464528,;WDR81,downstream_gene_variant,,ENST00000479966,;WDR81,downstream_gene_variant,,ENST00000492901,;	A	ENSG00000167716	ENST00000409644	Transcript	missense_variant	4411	4411	1471	A/T	Gcc/Acc	rs769333879	.	.	1	WDR81	HGNC	26600	protein_coding	YES	CCDS54062.1	ENSP00000386609	WDR81_HUMAN	E9PDG3_HUMAN,C9JD20_HUMAN	UPI0001881A85	.	tolerated(0.62)	benign(0.002)	6/10	.	hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF314	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCCGCCCTG	byFrequency	5	BLCA
SLC5A10	0	.	GRCh37	17	18862967	18862967	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339C>T	p.%3D	p.I113I	ENST00000395647	4/15	34	27	6	90	90	0	SLC5A10,synonymous_variant,p.%3D,ENST00000395645,;SLC5A10,synonymous_variant,p.%3D,ENST00000417251,;SLC5A10,synonymous_variant,p.%3D,ENST00000317977,;SLC5A10,synonymous_variant,p.%3D,ENST00000395647,;SLC5A10,synonymous_variant,p.%3D,ENST00000395643,;SLC5A10,synonymous_variant,p.%3D,ENST00000395642,;	T	ENSG00000154025	ENST00000395647	Transcript	synonymous_variant	380	339	113	I	atC/atT	.	.	.	1	SLC5A10	HGNC	23155	protein_coding	YES	CCDS11201.2	ENSP00000379008	SC5AA_HUMAN	.	UPI00001401D2	.	.	.	4/15	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50283,hmmpanther:PTHR11819:SF57,hmmpanther:PTHR11819,Pfam_domain:PF00474,TIGRFAM_domain:TIGR00813	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACATCTCCTC	.	5	BLCA
NUFIP2	0	.	GRCh37	17	27613641	27613641	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1371G>A	p.Met457Ile	p.M457I	ENST00000225388	2/4	110	95	15	135	135	0	NUFIP2,missense_variant,p.Met457Ile,ENST00000225388,;NUFIP2,intron_variant,,ENST00000579665,;	T	ENSG00000108256	ENST00000225388	Transcript	missense_variant	1430	1371	457	M/I	atG/atA	.	.	.	-1	NUFIP2	HGNC	17634	protein_coding	YES	CCDS32600.1	ENSP00000225388	NUFP2_HUMAN	A1L3A7_HUMAN	UPI00001B078D	.	tolerated(0.21)	benign(0.001)	2/4	.	Pfam_domain:PF15293	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGACTCATGTC	.	4	BLCA
LRRC37B	0	.	GRCh37	17	30361941	30361941	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1989C>T	p.%3D	p.R663R	ENST00000341671	6/12	76	71	5	67	67	0	LRRC37B,synonymous_variant,p.%3D,ENST00000327564,;LRRC37B,synonymous_variant,p.%3D,ENST00000584368,;LRRC37B,synonymous_variant,p.%3D,ENST00000394713,;LRRC37B,synonymous_variant,p.%3D,ENST00000543378,;LRRC37B,synonymous_variant,p.%3D,ENST00000341671,;LRRC37B,non_coding_transcript_exon_variant,,ENST00000580871,;LRRC37B,synonymous_variant,p.%3D,ENST00000578674,;LRRC37B,non_coding_transcript_exon_variant,,ENST00000580303,;LRRC37B,non_coding_transcript_exon_variant,,ENST00000583204,;LRRC37B,non_coding_transcript_exon_variant,,ENST00000583758,;LRRC37B,non_coding_transcript_exon_variant,,ENST00000582815,;	T	ENSG00000185158	ENST00000341671	Transcript	synonymous_variant	1994	1989	663	R	cgC/cgT	COSM977590	.	.	1	LRRC37B	HGNC	29070	protein_coding	YES	CCDS32609.1	ENSP00000340519	LR37B_HUMAN	J3QL10_HUMAN,F5H5K1_HUMAN	UPI000044D37B	.	.	.	6/12	.	Superfamily_domains:SSF52058,SMART_domains:SM00369,Gene3D:3.80.10.10,hmmpanther:PTHR23045:SF5,hmmpanther:PTHR23045,PROSITE_profiles:PS51450	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCGCAATCC	.	2	BLCA
RHBDL3	0	.	GRCh37	17	30648058	30648058	+	Missense_Mutation	SNP	C	C	T	rs746464304	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1025C>T	p.Ala342Val	p.A342V	ENST00000269051	9/9	62	53	9	71	71	0	RHBDL3,missense_variant,p.Ala244Val,ENST00000536287,;RHBDL3,missense_variant,p.Ala334Val,ENST00000538145,;RHBDL3,missense_variant,p.Ala342Val,ENST00000269051,;RHBDL3,synonymous_variant,p.%3D,ENST00000431505,;C17orf75,downstream_gene_variant,,ENST00000583104,;RP11-227G15.3,upstream_gene_variant,,ENST00000581915,;RP11-227G15.3,upstream_gene_variant,,ENST00000578389,;RHBDL3,3_prime_UTR_variant,,ENST00000578006,;RHBDL3,downstream_gene_variant,,ENST00000582967,;	T	ENSG00000141314	ENST00000269051	Transcript	missense_variant	1039	1025	342	A/V	gCg/gTg	rs746464304	.	.	1	RHBDL3	HGNC	16502	protein_coding	YES	CCDS32613.1	ENSP00000269051	RHBL3_HUMAN	Q495Y4_HUMAN	UPI0000133858	.	deleterious(0)	probably_damaging(0.999)	9/9	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR22936:SF14,hmmpanther:PTHR22936,Pfam_domain:PF01694,Gene3D:2xovA00,PIRSF_domain:PIRSF037470,Superfamily_domains:SSF144091	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGGCGCACT	byFrequency	4	BLCA
DHRS11	0	.	GRCh37	17	34951594	34951594	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.341G>A	p.Trp114Ter	p.W114*	ENST00000251312	2/7	38	35	3	67	67	0	DHRS11,stop_gained,p.Trp35Ter,ENST00000590554,;DHRS11,stop_gained,p.Trp114Ter,ENST00000251312,;DHRS11,stop_gained,p.Trp35Ter,ENST00000491046,;DHRS11,upstream_gene_variant,,ENST00000585376,;DHRS11,non_coding_transcript_exon_variant,,ENST00000394445,;DHRS11,3_prime_UTR_variant,,ENST00000590527,;DHRS11,upstream_gene_variant,,ENST00000593204,;DHRS11,upstream_gene_variant,,ENST00000586848,;	A	ENSG00000108272	ENST00000251312	Transcript	stop_gained	553	341	114	W/*	tGg/tAg	.	.	.	1	DHRS11	HGNC	28639	protein_coding	YES	CCDS11315.2	ENSP00000251312	DHR11_HUMAN	K7EK68_HUMAN	UPI0000038A01	.	.	.	2/7	.	hmmpanther:PTHR24322,hmmpanther:PTHR24322:SF310,Gene3D:3.40.50.720,Pfam_domain:PF00106,Superfamily_domains:SSF51735	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGTTGGAAGG	.	2	BLCA
ACACA	0	.	GRCh37	17	35518832	35518832	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5212A>G	p.Arg1738Gly	p.R1738G	ENST00000353139	42/56	90	79	11	103	103	0	ACACA,missense_variant,p.Arg1643Gly,ENST00000360679,;ACACA,missense_variant,p.Arg1623Gly,ENST00000335166,;ACACA,missense_variant,p.Arg152Gly,ENST00000592427,;ACACA,missense_variant,p.Arg353Gly,ENST00000591119,;ACACA,missense_variant,p.Arg1738Gly,ENST00000353139,;ACACA,missense_variant,p.Arg1701Gly,ENST00000394406,;ACACA,upstream_gene_variant,,ENST00000361253,;ACACA,upstream_gene_variant,,ENST00000587233,;RP11-19G24.2,upstream_gene_variant,,ENST00000492524,;	C	ENSG00000132142	ENST00000353139	Transcript	missense_variant	5694	5212	1738	R/G	Aga/Gga	.	.	.	-1	ACACA	HGNC	84	protein_coding	YES	CCDS42302.1	ENSP00000344789	ACACA_HUMAN	Q7Z5W8_HUMAN,K7EII5_HUMAN,K4DID9_HUMAN,B4DWK9_HUMAN,B4DK31_HUMAN,B4DIW1_HUMAN,B2ZZ90_HUMAN,A8MYL5_HUMAN	UPI00002263AC	.	deleterious(0)	possibly_damaging(0.528)	42/56	.	PROSITE_profiles:PS50980,hmmpanther:PTHR18866:SF89,hmmpanther:PTHR18866,Pfam_domain:PF01039,Gene3D:3.90.226.10,Superfamily_domains:SSF52096	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCTCTGAGAA	.	4	BLCA
FBXO47	0	.	GRCh37	17	37099048	37099048	+	Missense_Mutation	SNP	C	C	T	rs753916869	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1066G>A	p.Val356Ile	p.V356I	ENST00000378079	9/11	70	62	8	89	89	0	FBXO47,missense_variant,p.Val356Ile,ENST00000378079,;	T	ENSG00000204952	ENST00000378079	Transcript	missense_variant	1266	1066	356	V/I	Gta/Ata	rs753916869,COSM4065926	.	.	-1	FBXO47	HGNC	31969	protein_coding	YES	CCDS32639.1	ENSP00000367319	FBX47_HUMAN	.	UPI00004DDAF1	.	tolerated(1)	benign(0.001)	9/11	.	.	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACTACGAGCC	byFrequency|byCluster	4	BLCA
RAPGEFL1	0	.	GRCh37	17	38348913	38348913	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1094C>T	p.Pro365Leu	p.P365L	ENST00000436615	12/15	243	233	10	363	363	0	RAPGEFL1,missense_variant,p.Pro365Leu,ENST00000436615,;RAPGEFL1,missense_variant,p.Pro420Leu,ENST00000456989,;RAPGEFL1,missense_variant,p.Pro414Leu,ENST00000544503,;RAPGEFL1,missense_variant,p.Pro365Leu,ENST00000264644,;RAPGEFL1,downstream_gene_variant,,ENST00000538981,;RAPGEFL1,downstream_gene_variant,,ENST00000543876,;RAPGEFL1,downstream_gene_variant,,ENST00000540388,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000496032,;RAPGEFL1,non_coding_transcript_exon_variant,,ENST00000545893,;RAPGEFL1,downstream_gene_variant,,ENST00000469209,;	T	ENSG00000108352	ENST00000436615	Transcript	missense_variant	1584	1094	365	P/L	cCt/cTt	.	.	.	1	RAPGEFL1	HGNC	17428	protein_coding	YES	CCDS11363.1	ENSP00000408322	RPGFL_HUMAN	F5GYJ3_HUMAN,F5GY17_HUMAN,F5GXC6_HUMAN	UPI000006DB6B	.	deleterious(0)	probably_damaging(0.999)	12/15	.	PROSITE_profiles:PS50009,hmmpanther:PTHR23113:SF190,hmmpanther:PTHR23113,Gene3D:2ii0A02,Pfam_domain:PF00617,SMART_domains:SM00147,Superfamily_domains:0041591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCCCTGTGA	.	2	BLCA
FKBP10	0	.	GRCh37	17	39969396	39969396	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.110C>T	p.Ala37Val	p.A37V	ENST00000321562	1/10	46	34	12	73	73	0	FKBP10,missense_variant,p.Ala37Val,ENST00000585922,;FKBP10,missense_variant,p.Ala37Val,ENST00000321562,;FKBP10,intron_variant,,ENST00000429461,;FKBP10,intron_variant,,ENST00000585664,;LEPREL4,upstream_gene_variant,,ENST00000592026,;LEPREL4,upstream_gene_variant,,ENST00000355468,;LEPREL4,upstream_gene_variant,,ENST00000393928,;LEPREL4,upstream_gene_variant,,ENST00000590496,;FKBP10,missense_variant,p.Ala37Val,ENST00000489591,;LEPREL4,upstream_gene_variant,,ENST00000467164,;LEPREL4,upstream_gene_variant,,ENST00000587455,;	T	ENSG00000141756	ENST00000321562	Transcript	missense_variant	214	110	37	A/V	gCc/gTc	.	.	.	1	FKBP10	HGNC	18169	protein_coding	YES	CCDS11409.1	ENSP00000317232	FKB10_HUMAN	K7ESG6_HUMAN,K7ELI6_HUMAN,C9JPC3_HUMAN	UPI000012A80A	.	tolerated(0.38)	benign(0.092)	1/10	.	hmmpanther:PTHR10516,hmmpanther:PTHR10516:SF247	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCGGCCGGGG	.	5	BLCA
STAT5A	0	.	GRCh37	17	40460320	40460320	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2031G>A	p.%3D	p.E677E	ENST00000345506	17/20	67	60	6	81	81	0	STAT5A,synonymous_variant,p.%3D,ENST00000546010,;STAT5A,synonymous_variant,p.%3D,ENST00000590949,;STAT5A,synonymous_variant,p.%3D,ENST00000452307,;STAT5A,synonymous_variant,p.%3D,ENST00000345506,;STAT5A,synonymous_variant,p.%3D,ENST00000588868,;STAT5A,synonymous_variant,p.%3D,ENST00000587646,;STAT5A,non_coding_transcript_exon_variant,,ENST00000468096,;STAT5A,non_coding_transcript_exon_variant,,ENST00000591556,;STAT5A,downstream_gene_variant,,ENST00000479417,;	A	ENSG00000126561	ENST00000345506	Transcript	synonymous_variant	2673	2031	677	E	gaG/gaA	.	.	.	1	STAT5A	HGNC	11366	protein_coding	YES	CCDS11424.1	ENSP00000341208	STA5A_HUMAN	K7EIF9_HUMAN,C9JVV6_HUMAN	UPI0000136075	.	.	.	17/20	.	PROSITE_profiles:PS50001,hmmpanther:PTHR11801:SF42,hmmpanther:PTHR11801,Gene3D:3.30.505.10,SMART_domains:SM00252,Superfamily_domains:SSF55550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGAGGTCTT	.	4	BLCA
CNTNAP1	0	.	GRCh37	17	40843425	40843425	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2240C>T	p.Thr747Ile	p.T747I	ENST00000264638	15/24	53	44	8	74	74	0	CNTNAP1,missense_variant,p.Thr747Ile,ENST00000264638,;CTD-3193K9.3,intron_variant,,ENST00000592440,;CNTNAP1,3_prime_UTR_variant,,ENST00000591662,;CNTNAP1,downstream_gene_variant,,ENST00000585534,;CNTNAP1,downstream_gene_variant,,ENST00000586801,;	T	ENSG00000108797	ENST00000264638	Transcript	missense_variant	2457	2240	747	T/I	aCc/aTc	.	.	.	1	CNTNAP1	HGNC	8011	protein_coding	YES	CCDS11436.1	ENSP00000264638	CNTP1_HUMAN	.	UPI00001285F6	.	tolerated(0.08)	possibly_damaging(0.759)	15/24	.	hmmpanther:PTHR10127:SF584,hmmpanther:PTHR10127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGACCTTTG	.	5	BLCA
ANKFY1	0	.	GRCh37	17	4098278	4098278	+	Missense_Mutation	SNP	G	G	A	rs62064367	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1493C>T	p.Ala498Val	p.A498V	ENST00000570535	10/25	33	28	4	49	49	0	ANKFY1,missense_variant,p.Ala456Val,ENST00000433651,;ANKFY1,missense_variant,p.Ala456Val,ENST00000341657,;ANKFY1,missense_variant,p.Ala456Val,ENST00000574367,;ANKFY1,missense_variant,p.Ala498Val,ENST00000570535,;Y_RNA,downstream_gene_variant,,ENST00000384660,;ANKFY1,upstream_gene_variant,,ENST00000573722,;ANKFY1,3_prime_UTR_variant,,ENST00000572412,;ANKFY1,non_coding_transcript_exon_variant,,ENST00000570934,;ANKFY1,downstream_gene_variant,,ENST00000573250,;	A	ENSG00000185722	ENST00000570535	Transcript	missense_variant	1610	1493	498	A/V	gCg/gTg	rs62064367	.	.	-1	ANKFY1	HGNC	20763	protein_coding	YES	CCDS58502.1	ENSP00000459943	ANFY1_HUMAN	I3L1Z9_HUMAN	UPI00003FECB0	.	tolerated(0.34)	benign(0.001)	10/25	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24189,Pfam_domain:PF12796,Gene3D:1.25.40.20,Superfamily_domains:SSF48403,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	CTGTCGCCGTG	.	3	BLCA
BRCA1	0	.	GRCh37	17	41245549	41245549	+	Nonsense_Mutation	SNP	G	G	A	rs80356889	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1999C>T	p.Gln667Ter	p.Q667*	ENST00000471181	10/24	84	66	17	106	106	0	BRCA1,stop_gained,p.Gln667Ter,ENST00000346315,;BRCA1,stop_gained,p.Gln667Ter,ENST00000357654,;BRCA1,stop_gained,p.Gln371Ter,ENST00000309486,;BRCA1,stop_gained,p.Gln667Ter,ENST00000354071,;BRCA1,stop_gained,p.Gln620Ter,ENST00000493795,;BRCA1,stop_gained,p.Gln667Ter,ENST00000471181,;BRCA1,intron_variant,,ENST00000352993,;BRCA1,intron_variant,,ENST00000351666,;BRCA1,intron_variant,,ENST00000591534,;BRCA1,intron_variant,,ENST00000493919,;BRCA1,intron_variant,,ENST00000586385,;BRCA1,intron_variant,,ENST00000591849,;BRCA1,intron_variant,,ENST00000468300,;BRCA1,intron_variant,,ENST00000478531,;BRCA1,intron_variant,,ENST00000491747,;BRCA1,intron_variant,,ENST00000484087,;BRCA1,intron_variant,,ENST00000487825,;BRCA1,downstream_gene_variant,,ENST00000470026,;BRCA1,downstream_gene_variant,,ENST00000494123,;BRCA1,downstream_gene_variant,,ENST00000477152,;BRCA1,downstream_gene_variant,,ENST00000476777,;BRCA1,downstream_gene_variant,,ENST00000497488,;BRCA1,downstream_gene_variant,,ENST00000473961,;BRCA1,upstream_gene_variant,,ENST00000461574,;BRCA1,3_prime_UTR_variant,,ENST00000461221,;BRCA1,non_coding_transcript_exon_variant,,ENST00000467274,;BRCA1,downstream_gene_variant,,ENST00000492859,;BRCA1,downstream_gene_variant,,ENST00000412061,;	A	ENSG00000012048	ENST00000471181	Transcript	stop_gained	2231	1999	667	Q/*	Caa/Taa	rs80356889	.	.	-1	BRCA1	HGNC	1100	protein_coding	YES	CCDS11456.2	ENSP00000418960	.	Q9UE29_HUMAN,Q9NQR3_HUMAN,Q92897_HUMAN,Q7KYU6_HUMAN,Q4EW25_HUMAN,Q3YB53_HUMAN,Q3YB50_HUMAN,Q3YB49_HUMAN,Q3B891_HUMAN,K7EPC7_HUMAN,K4K7V3_HUMAN,K4JXS7_HUMAN,K4JUB1_HUMAN,G4V503_HUMAN,G4V502_HUMAN,G4V500_HUMAN,G4V4Z8_HUMAN,G4V4Z7_HUMAN,G1UI37_HUMAN,E9PFC7_HUMAN,E7EWN5_HUMAN,C9IZW4_HUMAN,C4PFY7_HUMAN	UPI0000E0360B	.	.	.	10/24	.	hmmpanther:PTHR13763:SF0,hmmpanther:PTHR13763,Pfam_domain:PF04873,PIRSF_domain:PIRSF001734	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	.	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTGTAGGT	.	5	BLCA
TMEM106A	0	.	GRCh37	17	41367889	41367889	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.358A>G	p.Ile120Val	p.I120V	ENST00000331615	5/9	213	179	34	270	269	1	TMEM106A,missense_variant,p.Ile120Val,ENST00000588693,;TMEM106A,missense_variant,p.Ile72Val,ENST00000541594,;TMEM106A,missense_variant,p.Ile120Val,ENST00000588659,;TMEM106A,missense_variant,p.Ile120Val,ENST00000536052,;TMEM106A,missense_variant,p.Ile120Val,ENST00000331615,;NBR1,downstream_gene_variant,,ENST00000422280,;NBR1,downstream_gene_variant,,ENST00000389312,;NBR1,downstream_gene_variant,,ENST00000341165,;LINC00854,downstream_gene_variant,,ENST00000595400,;LINC00854,downstream_gene_variant,,ENST00000427995,;LINC00854,downstream_gene_variant,,ENST00000593624,;TMEM106A,non_coding_transcript_exon_variant,,ENST00000592564,;TMEM106A,non_coding_transcript_exon_variant,,ENST00000586685,;TMEM106A,downstream_gene_variant,,ENST00000592649,;	G	ENSG00000184988	ENST00000331615	Transcript	missense_variant	595	358	120	I/V	Att/Gtt	.	.	.	1	TMEM106A	HGNC	28288	protein_coding	YES	CCDS11462.1	ENSP00000330774	T106A_HUMAN	K7ERE2_HUMAN	UPI0000037780	.	tolerated(0.34)	benign(0.002)	5/9	.	Pfam_domain:PF07092	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGTCATTGTG	.	4	BLCA
TMEM106A	0	.	GRCh37	17	41369856	41369856	+	3'UTR	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*36C>T	.	.	ENST00000331615	9/9	186	163	22	247	247	0	TMEM106A,3_prime_UTR_variant,,ENST00000536052,;TMEM106A,3_prime_UTR_variant,,ENST00000331615,;TMEM106A,3_prime_UTR_variant,,ENST00000541594,;TMEM106A,3_prime_UTR_variant,,ENST00000588659,;TMEM106A,downstream_gene_variant,,ENST00000588693,;LINC00854,intron_variant,,ENST00000427995,;LINC00854,downstream_gene_variant,,ENST00000595400,;LINC00854,downstream_gene_variant,,ENST00000593624,;LINC00854,downstream_gene_variant,,ENST00000433702,;LINC00854,downstream_gene_variant,,ENST00000594691,;LINC00854,downstream_gene_variant,,ENST00000597948,;LINC00854,downstream_gene_variant,,ENST00000598128,;LINC00854,downstream_gene_variant,,ENST00000598934,;LINC00854,downstream_gene_variant,,ENST00000598568,;LINC00854,downstream_gene_variant,,ENST00000599491,;TMEM106A,downstream_gene_variant,,ENST00000592564,;TMEM106A,downstream_gene_variant,,ENST00000592649,;TMEM106A,downstream_gene_variant,,ENST00000586685,;LINC00854,downstream_gene_variant,,ENST00000594857,;	T	ENSG00000184988	ENST00000331615	Transcript	3_prime_UTR_variant	1062	.	.	.	.	.	.	.	1	TMEM106A	HGNC	28288	protein_coding	YES	CCDS11462.1	ENSP00000330774	T106A_HUMAN	K7ERE2_HUMAN	UPI0000037780	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCAACCCTGG	.	4	BLCA
MPP2	0	.	GRCh37	17	41958128	41958128	+	Missense_Mutation	SNP	C	C	T	rs762932371	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1081G>A	p.Val361Met	p.V361M	ENST00000269095	10/13	46	39	6	55	55	0	MPP2,missense_variant,p.Val406Met,ENST00000518766,;MPP2,missense_variant,p.Val361Met,ENST00000269095,;MPP2,missense_variant,p.Val350Met,ENST00000536246,;MPP2,missense_variant,p.Val222Met,ENST00000520305,;MPP2,missense_variant,p.Val385Met,ENST00000461854,;MPP2,missense_variant,p.Val378Met,ENST00000377184,;MPP2,missense_variant,p.Val350Met,ENST00000523501,;MPP2,downstream_gene_variant,,ENST00000520406,;MPP2,downstream_gene_variant,,ENST00000521178,;MPP2,downstream_gene_variant,,ENST00000523762,;MPP2,downstream_gene_variant,,ENST00000522172,;MPP2,downstream_gene_variant,,ENST00000523934,;MPP2,downstream_gene_variant,,ENST00000520241,;MPP2,downstream_gene_variant,,ENST00000523220,;MPP2,downstream_gene_variant,,ENST00000473246,;MPP2,downstream_gene_variant,,ENST00000524294,;MPP2,downstream_gene_variant,,ENST00000520319,;	T	ENSG00000108852	ENST00000269095	Transcript	missense_variant	1386	1081	361	V/M	Gtg/Atg	rs762932371,COSM384324	.	.	-1	MPP2	HGNC	7220	protein_coding	YES	CCDS11471.1	ENSP00000269095	MPP2_HUMAN	E7EX01_HUMAN,E7EV91_HUMAN,E5RK50_HUMAN,E5RJK0_HUMAN,E5RIU3_HUMAN,E5RIM9_HUMAN,E5RI32_HUMAN,E5RFN8_HUMAN	UPI000013D7F7	.	deleterious(0)	probably_damaging(0.985)	10/13	.	PROSITE_profiles:PS50052,hmmpanther:PTHR23122,hmmpanther:PTHR23122:SF38,Gene3D:3.40.50.300,Pfam_domain:PF00625,SMART_domains:SM00072,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCACGCCCT	.	4	BLCA
FMNL1	0	.	GRCh37	17	43314959	43314959	+	Missense_Mutation	SNP	C	C	T	rs138651184	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.847C>T	p.Arg283Trp	p.R283W	ENST00000331495	9/27	160	131	28	197	197	0	FMNL1,missense_variant,p.Arg283Trp,ENST00000331495,;FMNL1,missense_variant,p.Arg283Trp,ENST00000328118,;FMNL1,upstream_gene_variant,,ENST00000587489,;CTD-2020K17.3,downstream_gene_variant,,ENST00000393507,;CTD-2020K17.3,downstream_gene_variant,,ENST00000587534,;FMNL1,non_coding_transcript_exon_variant,,ENST00000592006,;FMNL1,non_coding_transcript_exon_variant,,ENST00000587856,;FMNL1,downstream_gene_variant,,ENST00000591434,;FMNL1,downstream_gene_variant,,ENST00000592527,;FMNL1,downstream_gene_variant,,ENST00000585852,;	T	ENSG00000184922	ENST00000331495	Transcript	missense_variant	1183	847	283	R/W	Cgg/Tgg	rs138651184	.	.	1	FMNL1	HGNC	1212	protein_coding	YES	CCDS11497.1	ENSP00000329219	FMNL_HUMAN	.	UPI0000246EE9	.	deleterious(0)	unknown(0)	9/27	.	PROSITE_profiles:PS51232,hmmpanther:PTHR23213,hmmpanther:PTHR23213:SF188,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTGCGGGGA	byFrequency|byCluster	4	BLCA
KANSL1	0	.	GRCh37	17	44108963	44108963	+	Missense_Mutation	SNP	C	C	T	rs368475798	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3197G>A	p.Arg1066His	p.R1066H	ENST00000262419	15/15	34	30	4	48	48	0	KANSL1,missense_variant,p.Arg360His,ENST00000393476,;KANSL1,missense_variant,p.Arg1066His,ENST00000574590,;KANSL1,missense_variant,p.Arg1002His,ENST00000575318,;KANSL1,missense_variant,p.Arg1066His,ENST00000432791,;KANSL1,missense_variant,p.Arg1066His,ENST00000262419,;KANSL1,missense_variant,p.Arg1066His,ENST00000572904,;MAPT,downstream_gene_variant,,ENST00000340799,;MAPT,downstream_gene_variant,,ENST00000262410,;MAPT,downstream_gene_variant,,ENST00000446361,;MAPT,downstream_gene_variant,,ENST00000535772,;MAPT,downstream_gene_variant,,ENST00000351559,;MAPT,downstream_gene_variant,,ENST00000344290,;MAPT,downstream_gene_variant,,ENST00000347967,;RP11-669E14.6,upstream_gene_variant,,ENST00000570454,;KANSL1,non_coding_transcript_exon_variant,,ENST00000574963,;KANSL1,non_coding_transcript_exon_variant,,ENST00000572218,;KANSL1,non_coding_transcript_exon_variant,,ENST00000576870,;KANSL1,downstream_gene_variant,,ENST00000576137,;KANSL1,downstream_gene_variant,,ENST00000573682,;	T	ENSG00000120071	ENST00000262419	Transcript	missense_variant	3668	3197	1066	R/H	cGc/cAc	rs368475798,COSM4067146,COSM706072	.	.	-1	KANSL1	HGNC	24565	protein_coding	YES	CCDS11503.1	ENSP00000262419	KANL1_HUMAN	I3L243_HUMAN,I3L233_HUMAN	UPI0001AE66EA	.	tolerated(0.09)	probably_damaging(0.996)	15/15	.	hmmpanther:PTHR22443:SF14,hmmpanther:PTHR22443	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTGCGTCGA	byCluster	4	BLCA
C17orf107	0	.	GRCh37	17	4805676	4805676	+	3'UTR	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1848C>A	.	.	ENST00000381365	3/3	78	61	17	156	156	0	C17orf107,3_prime_UTR_variant,,ENST00000381365,;CHRNE,intron_variant,,ENST00000293780,;C17orf107,downstream_gene_variant,,ENST00000521575,;MINK1,downstream_gene_variant,,ENST00000355280,;MINK1,downstream_gene_variant,,ENST00000347992,;CHRNE,intron_variant,,ENST00000575637,;CHRNE,upstream_gene_variant,,ENST00000572438,;MINK1,downstream_gene_variant,,ENST00000572330,;MINK1,downstream_gene_variant,,ENST00000574453,;MINK1,downstream_gene_variant,,ENST00000571207,;MINK1,downstream_gene_variant,,ENST00000574871,;	A	ENSG00000205710	ENST00000381365	Transcript	3_prime_UTR_variant	2648	.	.	.	.	.	.	.	1	C17orf107	HGNC	37238	protein_coding	YES	CCDS45591.1	ENSP00000370770	CQ107_HUMAN	.	UPI00001C0FE1	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTGCCTGGGA	.	5	BLCA
CACNA1G	0	.	GRCh37	17	48683430	48683430	+	Intron	SNP	G	G	T	rs779920847	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4422+46G>T	.	.	ENST00000359106	.	53	41	11	70	70	0	CACNA1G,missense_variant,p.Gly1490Trp,ENST00000416767,;CACNA1G,intron_variant,,ENST00000358244,;CACNA1G,intron_variant,,ENST00000515165,;CACNA1G,intron_variant,,ENST00000360761,;CACNA1G,intron_variant,,ENST00000354983,;CACNA1G,intron_variant,,ENST00000513689,;CACNA1G,intron_variant,,ENST00000507510,;CACNA1G,intron_variant,,ENST00000514717,;CACNA1G,intron_variant,,ENST00000506520,;CACNA1G,intron_variant,,ENST00000442258,;CACNA1G,intron_variant,,ENST00000513964,;CACNA1G,intron_variant,,ENST00000359106,;CACNA1G,intron_variant,,ENST00000515765,;CACNA1G,intron_variant,,ENST00000502264,;CACNA1G,intron_variant,,ENST00000514181,;CACNA1G,intron_variant,,ENST00000352832,;CACNA1G,intron_variant,,ENST00000507336,;CACNA1G,intron_variant,,ENST00000510366,;CACNA1G,intron_variant,,ENST00000505165,;CACNA1G,intron_variant,,ENST00000510115,;CACNA1G,intron_variant,,ENST00000429973,;CACNA1G,intron_variant,,ENST00000512389,;CACNA1G,intron_variant,,ENST00000514079,;CACNA1G,intron_variant,,ENST00000507896,;CACNA1G,intron_variant,,ENST00000515411,;CACNA1G,intron_variant,,ENST00000507609,;CACNA1G,intron_variant,,ENST00000503485,;CACNA1G,intron_variant,,ENST00000504076,;CACNA1G,intron_variant,,ENST00000511765,;CACNA1G,intron_variant,,ENST00000511768,;CACNA1G,intron_variant,,ENST00000503436,;CACNA1G,intron_variant,,ENST00000503607,;CACNA1G,intron_variant,,ENST00000506406,;	T	ENSG00000006283	ENST00000359106	Transcript	intron_variant	.	.	.	.	.	rs779920847	.	.	1	CACNA1G	HGNC	1394	protein_coding	YES	CCDS45730.1	ENSP00000352011	CAC1G_HUMAN	.	UPI000012727A	.	.	.	.	23/37	.	.	.	.	.	.	.	.	-:0.0026	-:0.0042	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGGGGGC	byFrequency	5	BLCA
CACNA1G	0	.	GRCh37	17	48695694	48695694	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5417G>A	p.Gly1806Asp	p.G1806D	ENST00000359106	32/38	85	75	10	143	143	0	CACNA1G,missense_variant,p.Gly1783Asp,ENST00000502264,;CACNA1G,missense_variant,p.Gly1772Asp,ENST00000358244,;CACNA1G,missense_variant,p.Gly1806Asp,ENST00000515165,;CACNA1G,missense_variant,p.Gly1781Asp,ENST00000514181,;CACNA1G,missense_variant,p.Gly1772Asp,ENST00000352832,;CACNA1G,missense_variant,p.Gly1783Asp,ENST00000360761,;CACNA1G,missense_variant,p.Gly1795Asp,ENST00000507336,;CACNA1G,missense_variant,p.Gly1772Asp,ENST00000354983,;CACNA1G,missense_variant,p.Gly1761Asp,ENST00000513689,;CACNA1G,missense_variant,p.Gly1806Asp,ENST00000507510,;CACNA1G,missense_variant,p.Gly1806Asp,ENST00000505165,;CACNA1G,missense_variant,p.Gly1749Asp,ENST00000514717,;CACNA1G,missense_variant,p.Gly1754Asp,ENST00000510366,;CACNA1G,missense_variant,p.Gly1788Asp,ENST00000429973,;CACNA1G,missense_variant,p.Gly1772Asp,ENST00000510115,;CACNA1G,missense_variant,p.Gly1765Asp,ENST00000442258,;CACNA1G,missense_variant,p.Gly1795Asp,ENST00000512389,;CACNA1G,missense_variant,p.Gly1813Asp,ENST00000514079,;CACNA1G,missense_variant,p.Gly1795Asp,ENST00000507896,;CACNA1G,missense_variant,p.Gly1788Asp,ENST00000515411,;CACNA1G,missense_variant,p.Gly1761Asp,ENST00000513964,;CACNA1G,missense_variant,p.Gly1806Asp,ENST00000359106,;CACNA1G,missense_variant,p.Gly1799Asp,ENST00000507609,;CACNA1G,missense_variant,p.Gly1772Asp,ENST00000503485,;CACNA1G,missense_variant,p.Gly1795Asp,ENST00000515765,;CACNA1G,3_prime_UTR_variant,,ENST00000511768,;CACNA1G,3_prime_UTR_variant,,ENST00000503436,;CACNA1G,3_prime_UTR_variant,,ENST00000503607,;CACNA1G,3_prime_UTR_variant,,ENST00000506406,;CACNA1G,3_prime_UTR_variant,,ENST00000504076,;CACNA1G,3_prime_UTR_variant,,ENST00000511765,;	A	ENSG00000006283	ENST00000359106	Transcript	missense_variant	5417	5417	1806	G/D	gGc/gAc	.	.	.	1	CACNA1G	HGNC	1394	protein_coding	YES	CCDS45730.1	ENSP00000352011	CAC1G_HUMAN	.	UPI000012727A	.	deleterious(0)	probably_damaging(0.998)	32/38	.	hmmpanther:PTHR10037,hmmpanther:PTHR10037:SF137,Pfam_domain:PF00520,Superfamily_domains:SSF81324	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATGGCATTA	.	4	BLCA
CLTC	0	.	GRCh37	17	57760814	57760814	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4108G>A	p.Glu1370Lys	p.E1370K	ENST00000269122	26/32	34	30	4	41	41	0	CLTC,missense_variant,p.Glu1370Lys,ENST00000269122,;CLTC,missense_variant,p.Glu1370Lys,ENST00000393043,;CLTC,missense_variant,p.Glu307Lys,ENST00000579456,;CLTC,upstream_gene_variant,,ENST00000475458,;CLTC,upstream_gene_variant,,ENST00000472651,;PTRH2,intron_variant,,ENST00000587935,;CLTC,upstream_gene_variant,,ENST00000496076,;	A	ENSG00000141367	ENST00000269122	Transcript	missense_variant	4382	4108	1370	E/K	Gaa/Aaa	.	.	.	1	CLTC	HGNC	2092	protein_coding	YES	CCDS32696.1	ENSP00000269122	CLH1_HUMAN	Q49AL0_HUMAN	UPI0000127ABD	.	deleterious(0)	probably_damaging(0.999)	26/32	.	PROSITE_profiles:PS50236,hmmpanther:PTHR10292:SF7,hmmpanther:PTHR10292,Gene3D:1.25.40.10,Pfam_domain:PF00637,PIRSF_domain:PIRSF002290,SMART_domains:SM00299,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ATGAAGAATAT	.	3	BLCA
VMP1	0	.	GRCh37	17	57915699	57915699	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1018G>C	p.Glu340Gln	p.E340Q	ENST00000262291	11/12	55	49	6	101	101	0	VMP1,missense_variant,p.Glu243Gln,ENST00000536180,;VMP1,missense_variant,p.Glu284Gln,ENST00000545362,;VMP1,missense_variant,p.Glu340Gln,ENST00000262291,;VMP1,missense_variant,p.Glu159Gln,ENST00000591877,;VMP1,missense_variant,p.Glu206Gln,ENST00000537567,;VMP1,missense_variant,p.Glu148Gln,ENST00000539763,;MIR21,upstream_gene_variant,,ENST00000362134,;VMP1,non_coding_transcript_exon_variant,,ENST00000591782,;VMP1,non_coding_transcript_exon_variant,,ENST00000588617,;VMP1,3_prime_UTR_variant,,ENST00000592619,;VMP1,non_coding_transcript_exon_variant,,ENST00000587470,;VMP1,non_coding_transcript_exon_variant,,ENST00000592790,;	C	ENSG00000062716	ENST00000262291	Transcript	missense_variant	1328	1018	340	E/Q	Gag/Cag	.	.	.	1	VMP1	HGNC	29559	protein_coding	YES	CCDS11619.1	ENSP00000262291	VMP1_HUMAN	K7ENU2_HUMAN,K7EMI0_HUMAN,K7EM96_HUMAN,K7EK01_HUMAN,D3DU01_HUMAN,B4DVV9_HUMAN	UPI0000037791	.	tolerated(0.15)	benign(0.049)	11/12	.	hmmpanther:PTHR10281:SF1,hmmpanther:PTHR10281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCAGGAGTAC	.	4	BLCA
TLK2	0	.	GRCh37	17	60663572	60663572	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1445A>G	p.Lys482Arg	p.K482R	ENST00000346027	16/22	56	49	6	71	71	0	TLK2,missense_variant,p.Lys450Arg,ENST00000542523,;TLK2,missense_variant,p.Lys333Arg,ENST00000582809,;TLK2,missense_variant,p.Lys482Arg,ENST00000346027,;TLK2,missense_variant,p.Lys418Arg,ENST00000581041,;TLK2,missense_variant,p.Lys504Arg,ENST00000326270,;TLK2,missense_variant,p.Lys450Arg,ENST00000343388,;TLK2,non_coding_transcript_exon_variant,,ENST00000582660,;	G	ENSG00000146872	ENST00000346027	Transcript	missense_variant	1716	1445	482	K/R	aAg/aGg	.	.	.	1	TLK2	HGNC	11842	protein_coding	YES	CCDS11633.1	ENSP00000275780	TLK2_HUMAN	J3QS73_HUMAN,J3QQN4_HUMAN,J3QLK5_HUMAN,J3KST4_HUMAN	UPI00001B6B0F	.	deleterious(0.01)	probably_damaging(0.986)	16/22	.	PROSITE_profiles:PS50011,hmmpanther:PTHR22974:SF20,hmmpanther:PTHR22974,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GAAAAAGGAGA	.	3	BLCA
CSH2	0	.	GRCh37	17	61950662	61950662	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.48C>A	p.%3D	p.L16L	ENST00000392886	2/5	92	84	8	96	96	0	CSH2,synonymous_variant,p.%3D,ENST00000392886,;CSH2,synonymous_variant,p.%3D,ENST00000560142,;CSH2,synonymous_variant,p.%3D,ENST00000336844,;CSH2,synonymous_variant,p.%3D,ENST00000345366,;CSH2,non_coding_transcript_exon_variant,,ENST00000559928,;CSH2,non_coding_transcript_exon_variant,,ENST00000558516,;	T	ENSG00000213218	ENST00000392886	Transcript	synonymous_variant	200	48	16	L	ctC/ctA	.	.	.	-1	CSH2	HGNC	2441	protein_coding	YES	CCDS42369.1	ENSP00000376623	CSH_HUMAN	Q7KZ35_HUMAN,P78451_HUMAN	UPI0000073C6A	.	.	.	2/5	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR11417:SF32,hmmpanther:PTHR11417,Pfam_domain:PF00103	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	AGGCAGAGCAG	.	2	BLCA
CACNG4	0	.	GRCh37	17	65021114	65021114	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.443C>T	p.Ala148Val	p.A148V	ENST00000262138	3/4	45	39	6	52	52	0	CACNG4,missense_variant,p.Ala148Val,ENST00000262138,;RP11-349A8.3,upstream_gene_variant,,ENST00000584277,;	T	ENSG00000075461	ENST00000262138	Transcript	missense_variant	445	443	148	A/V	gCa/gTa	.	.	.	1	CACNG4	HGNC	1408	protein_coding	YES	CCDS11667.1	ENSP00000262138	CCG4_HUMAN	.	UPI0000001649	.	deleterious(0)	probably_damaging(0.967)	3/4	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12107,hmmpanther:PTHR12107:SF7,Pfam_domain:PF00822,Prints_domain:PR01792	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGCTGCAGGTG	.	3	BLCA
SOX9	0	.	GRCh37	17	70119709	70119709	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711A>G	p.%3D	p.P237P	ENST00000245479	3/3	162	140	22	215	215	0	SOX9,synonymous_variant,p.%3D,ENST00000245479,;SOX9-AS1,intron_variant,,ENST00000414600,;SOX9-AS1,upstream_gene_variant,,ENST00000533179,;SOX9-AS1,upstream_gene_variant,,ENST00000529667,;SOX9-AS1,upstream_gene_variant,,ENST00000440093,;SOX9-AS1,upstream_gene_variant,,ENST00000533232,;	G	ENSG00000125398	ENST00000245479	Transcript	synonymous_variant	1083	711	237	P	ccA/ccG	.	.	.	1	SOX9	HGNC	11204	protein_coding	YES	CCDS11689.1	ENSP00000245479	SOX9_HUMAN	.	UPI00000009D8	.	.	.	3/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10270,hmmpanther:PTHR10270:SF212	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCCACCCAC	.	4	BLCA
DNAI2	0	.	GRCh37	17	72308166	72308166	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1519G>A	p.Glu507Lys	p.E507K	ENST00000446837	11/13	45	41	4	51	51	0	DNAI2,missense_variant,p.Glu364Lys,ENST00000307504,;DNAI2,missense_variant,p.Glu507Lys,ENST00000446837,;DNAI2,missense_variant,p.Glu495Lys,ENST00000582036,;DNAI2,missense_variant,p.Glu564Lys,ENST00000579490,;DNAI2,missense_variant,p.Glu507Lys,ENST00000311014,;AC103809.1,upstream_gene_variant,,ENST00000516976,;RP11-647F2.2,upstream_gene_variant,,ENST00000585167,;DNAI2,3_prime_UTR_variant,,ENST00000579055,;DNAI2,upstream_gene_variant,,ENST00000579312,;	A	ENSG00000171595	ENST00000446837	Transcript	missense_variant	1825	1519	507	E/K	Gag/Aag	.	.	.	1	DNAI2	HGNC	18744	protein_coding	YES	CCDS11697.1	ENSP00000400252	DNAI2_HUMAN	.	UPI000013EC1D	.	deleterious(0)	possibly_damaging(0.817)	11/13	.	hmmpanther:PTHR12442	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCGAGAGAAG	.	2	BLCA
GPRC5C	0	.	GRCh37	17	72436470	72436470	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.692delG	p.Gly231AlafsTer118	p.G231Afs*118	ENST00000392627	2/4	67	52	15	41	41	0	GPRC5C,frameshift_variant,p.Gly198AlafsTer118,ENST00000392629,;GPRC5C,frameshift_variant,p.Gly206AlafsTer118,ENST00000392628,;GPRC5C,frameshift_variant,p.Gly147AlafsTer130,ENST00000581590,;GPRC5C,frameshift_variant,p.Gly231AlafsTer118,ENST00000392627,;GPRC5C,intron_variant,,ENST00000481232,;GPRC5C,intron_variant,,ENST00000342648,;GPRC5C,downstream_gene_variant,,ENST00000582444,;GPRC5C,downstream_gene_variant,,ENST00000582473,;GPRC5C,upstream_gene_variant,,ENST00000582873,;GPRC5C,upstream_gene_variant,,ENST00000577663,;GPRC5C,upstream_gene_variant,,ENST00000482723,;	-	ENSG00000170412	ENST00000392627	Transcript	frameshift_variant	1816	690	230	E/X	gaG/ga	.	.	.	1	GPRC5C	HGNC	13309	protein_coding	YES	CCDS11699.1	ENSP00000376403	GPC5C_HUMAN	J9JIE0_HUMAN,J3QQN3_HUMAN	UPI0000231CB2	.	.	.	2/4	.	PROSITE_profiles:PS50259,hmmpanther:PTHR14511,hmmpanther:PTHR14511:SF7,Pfam_domain:PF00003	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGGCGAGGGCGG	.	3	BLCA
TP53	0	.	GRCh37	17	7579324	7579324	+	Silent	SNP	A	A	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.363T>A	p.%3D	p.S121S	ENST00000269305	4/11	57	40	17	91	91	0	TP53,synonymous_variant,p.%3D,ENST00000508793,;TP53,synonymous_variant,p.%3D,ENST00000413465,;TP53,synonymous_variant,p.%3D,ENST00000604348,;TP53,synonymous_variant,p.%3D,ENST00000420246,;TP53,synonymous_variant,p.%3D,ENST00000269305,;TP53,synonymous_variant,p.%3D,ENST00000359597,;TP53,synonymous_variant,p.%3D,ENST00000445888,;TP53,synonymous_variant,p.%3D,ENST00000503591,;TP53,synonymous_variant,p.%3D,ENST00000455263,;TP53,intron_variant,,ENST00000509690,;TP53,intron_variant,,ENST00000514944,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,upstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,upstream_gene_variant,,ENST00000504937,;TP53,upstream_gene_variant,,ENST00000504290,;TP53,upstream_gene_variant,,ENST00000510385,;	T	ENSG00000141510	ENST00000269305	Transcript	synonymous_variant	553	363	121	S	tcT/tcA	COSM1386835,COSM1386836,COSM1386837	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	4/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_1182del1182|6,CODON|p.G59fs*23|c.175_374del200|3,BUFFER|p.T125M|c.374C>T|10,BUFFER|p.T125M|c.374C>T|3,BUFFER|p.T125K|c.374C>A|4,BUFFER|p.T125M|c.374C>T|4,BUFFER|p.T125M|c.374C>T|17,BUFFER|p.T125M|c.374C>T|10,BUFFER|p.T125R|c.374C>G|3,BUFFER|p.T125P|c.373A>C|3,BUFFER|p.C124*|c.372C>A|4,BUFFER|p.C124*|c.372C>A|4,BUFFER|p.C124*|c.372C>A|4,BUFFER|p.C124G|c.370T>G|3,BUFFER|p.C124R|c.370T>C|3,BUFFER|p.V122fs*26|c.365_366delTG|4,BUFFER|p.V122fs*26|c.365_366delTG|4,BUFFER|p.V122fs*26|c.365_366delTG|6,BUFFER|p.K120M|c.359A>T|7,BUFFER|p.K120E|c.358A>G|4,BUFFER|p.K120E|c.358A>G|4,BUFFER|p.K120E|c.358A>G|7,BUFFER|p.T118I|c.353C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCACAGACTT	.	5	BLCA
TP53	0	.	GRCh37	17	7579325	7579325	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362C>A	p.Ser121Tyr	p.S121Y	ENST00000269305	4/11	57	40	17	93	93	0	TP53,missense_variant,p.Ser121Tyr,ENST00000508793,;TP53,missense_variant,p.Ser121Tyr,ENST00000413465,;TP53,missense_variant,p.Ser121Tyr,ENST00000604348,;TP53,missense_variant,p.Ser121Tyr,ENST00000420246,;TP53,missense_variant,p.Ser121Tyr,ENST00000269305,;TP53,missense_variant,p.Ser121Tyr,ENST00000359597,;TP53,missense_variant,p.Ser121Tyr,ENST00000445888,;TP53,missense_variant,p.Ser121Tyr,ENST00000503591,;TP53,missense_variant,p.Ser121Tyr,ENST00000455263,;TP53,intron_variant,,ENST00000509690,;TP53,intron_variant,,ENST00000514944,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,upstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,upstream_gene_variant,,ENST00000504937,;TP53,upstream_gene_variant,,ENST00000504290,;TP53,upstream_gene_variant,,ENST00000510385,;	T	ENSG00000141510	ENST00000269305	Transcript	missense_variant	552	362	121	S/Y	tCt/tAt	TP53_g.11593C>T,TP53_g.11593del,COSM44027,COSM45371	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	deleterious(0)	probably_damaging(0.996)	4/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF00870,Gene3D:2.60.40.720,Superfamily_domains:SSF49417,Prints_domain:PR00386	.	.	.	.	.	.	.	.	.	.	0,0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.T118I|c.353C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACAGACTTG	.	5	BLCA
SYNGR2	0	.	GRCh37	17	76167066	76167066	+	Missense_Mutation	SNP	G	G	A	rs140124425	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.268G>A	p.Ala90Thr	p.A90T	ENST00000225777	2/4	76	59	16	67	67	0	SYNGR2,missense_variant,p.Ala90Thr,ENST00000225777,;SYNGR2,missense_variant,p.Ala90Thr,ENST00000589168,;SYNGR2,missense_variant,p.Ala90Thr,ENST00000585591,;SYNGR2,missense_variant,p.Ala90Thr,ENST00000588282,;SYNGR2,missense_variant,p.Ala34Thr,ENST00000590201,;SYNGR2,intron_variant,,ENST00000589711,;TK1,downstream_gene_variant,,ENST00000590862,;TK1,downstream_gene_variant,,ENST00000586613,;TK1,downstream_gene_variant,,ENST00000590430,;TK1,downstream_gene_variant,,ENST00000405273,;C17orf99,downstream_gene_variant,,ENST00000340363,;TK1,downstream_gene_variant,,ENST00000301634,;TK1,downstream_gene_variant,,ENST00000588734,;SYNGR2,non_coding_transcript_exon_variant,,ENST00000592456,;C17orf99,downstream_gene_variant,,ENST00000586246,;C17orf99,downstream_gene_variant,,ENST00000451352,;C17orf99,downstream_gene_variant,,ENST00000586029,;SYNGR2,3_prime_UTR_variant,,ENST00000589183,;SYNGR2,non_coding_transcript_exon_variant,,ENST00000591770,;TK1,downstream_gene_variant,,ENST00000592126,;	A	ENSG00000108639	ENST00000225777	Transcript	missense_variant	327	268	90	A/T	Gcg/Acg	rs140124425	.	.	1	SYNGR2	HGNC	11499	protein_coding	YES	CCDS11753.1	ENSP00000225777	SNG2_HUMAN	K7EJ35_HUMAN	UPI00000012DD	.	deleterious(0.01)	benign(0.009)	2/4	.	PROSITE_profiles:PS51225,hmmpanther:PTHR10838,hmmpanther:PTHR10838:SF19,Pfam_domain:PF01284,PIRSF_domain:PIRSF011282	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGACGCGTAT	byCluster	5	BLCA
CCDC40	0	.	GRCh37	17	78073343	78073343	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3198G>T	p.%3D	p.V1066V	ENST00000397545	20/20	91	80	11	106	106	0	CCDC40,synonymous_variant,p.%3D,ENST00000397545,;GAA,upstream_gene_variant,,ENST00000577106,;GAA,upstream_gene_variant,,ENST00000302262,;GAA,upstream_gene_variant,,ENST00000390015,;GAA,upstream_gene_variant,,ENST00000570803,;GAA,upstream_gene_variant,,ENST00000574376,;CCDC40,non_coding_transcript_exon_variant,,ENST00000574799,;CCDC40,downstream_gene_variant,,ENST00000572253,;CCDC40,downstream_gene_variant,,ENST00000575431,;	T	ENSG00000141519	ENST00000397545	Transcript	synonymous_variant	3225	3198	1066	V	gtG/gtT	.	.	.	1	CCDC40	HGNC	26090	protein_coding	YES	CCDS42395.1	ENSP00000380679	CCD40_HUMAN	I3L2X6_HUMAN,I3L292_HUMAN	UPI0000201739	.	.	.	20/20	.	hmmpanther:PTHR16275	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCGTGGCCCT	.	4	BLCA
ACTG1	0	.	GRCh37	17	79478100	79478100	+	Silent	SNP	G	G	A	rs77274428	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.837C>T	p.%3D	p.F279F	ENST00000575842	4/5	133	93	40	164	164	0	ACTG1,synonymous_variant,p.%3D,ENST00000575842,;ACTG1,synonymous_variant,p.%3D,ENST00000573283,;ACTG1,synonymous_variant,p.%3D,ENST00000331925,;ACTG1,synonymous_variant,p.%3D,ENST00000575087,;ACTG1,downstream_gene_variant,,ENST00000575994,;ACTG1,downstream_gene_variant,,ENST00000571691,;ACTG1,downstream_gene_variant,,ENST00000571721,;ACTG1,downstream_gene_variant,,ENST00000575659,;ACTG1,downstream_gene_variant,,ENST00000570382,;AC139149.1,non_coding_transcript_exon_variant,,ENST00000584254,;RP13-766D20.2,upstream_gene_variant,,ENST00000430912,;ACTG1,synonymous_variant,p.%3D,ENST00000576544,;ACTG1,3_prime_UTR_variant,,ENST00000572105,;ACTG1,non_coding_transcript_exon_variant,,ENST00000576209,;ACTG1,non_coding_transcript_exon_variant,,ENST00000576917,;ACTG1,non_coding_transcript_exon_variant,,ENST00000574671,;ACTG1,downstream_gene_variant,,ENST00000576214,;RP13-766D20.1,upstream_gene_variant,,ENST00000448147,;	A	ENSG00000184009	ENST00000575842	Transcript	synonymous_variant	1264	837	279	F	ttC/ttT	rs77274428	.	.	-1	ACTG1	HGNC	144	protein_coding	YES	CCDS11782.1	ENSP00000458162	ACTG_HUMAN	Q9UE89_HUMAN,Q96FU6_HUMAN,Q96DE1_HUMAN,Q6PJ43_HUMAN,Q562Z7_HUMAN,I3L3R2_HUMAN,I3L3I0_HUMAN,I3L1U9_HUMAN,B4E3A4_HUMAN,B3KWQ3_HUMAN,A5GZ75_HUMAN,A4UCT3_HUMAN,A1E282_HUMAN	UPI0000000C38	.	.	.	4/5	.	hmmpanther:PTHR11937,hmmpanther:PTHR11937:SF187,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTGAAGGT	byCluster|by1000G	5	BLCA
CCDC137	0	.	GRCh37	17	79634764	79634766	+	In_Frame_Del	DEL	AGA	AGA	-	rs765017107	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	AGA	AGA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.147_149delGAA	p.Lys50del	p.K50del	ENST00000329214	2/6	55	37	18	69	69	0	CCDC137,inframe_deletion,p.Lys50del,ENST00000574107,;CCDC137,inframe_deletion,p.Lys50del,ENST00000329214,;OXLD1,upstream_gene_variant,,ENST00000374741,;OXLD1,upstream_gene_variant,,ENST00000571503,;PDE6G,upstream_gene_variant,,ENST00000571224,;PDE6G,upstream_gene_variant,,ENST00000574777,;OXLD1,upstream_gene_variant,,ENST00000573786,;CCDC137,inframe_deletion,p.Lys50del,ENST00000575223,;CCDC137,3_prime_UTR_variant,,ENST00000574200,;CCDC137,upstream_gene_variant,,ENST00000571916,;CCDC137,upstream_gene_variant,,ENST00000572531,;OXLD1,upstream_gene_variant,,ENST00000571092,;OXLD1,upstream_gene_variant,,ENST00000571757,;OXLD1,upstream_gene_variant,,ENST00000575992,;OXLD1,upstream_gene_variant,,ENST00000575963,;	-	ENSG00000185298	ENST00000329214	Transcript	inframe_deletion	543-545	140-142	47-48	EK/E	gAGAag/gag	rs765017107	.	.	1	CCDC137	HGNC	33451	protein_coding	YES	CCDS42400.1	ENSP00000329360	CC137_HUMAN	H6QX63_HUMAN	UPI00001983C7	.	.	.	2/6	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21838	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	7	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	GCAAAGAGAAGAAG	.	2	BLCA
HGS	0	.	GRCh37	17	79655766	79655766	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.324C>G	p.Ile108Met	p.I108M	ENST00000329138	5/22	26	14	11	23	23	0	HGS,missense_variant,p.Ile41Met,ENST00000571518,;HGS,missense_variant,p.Ile41Met,ENST00000577012,;HGS,missense_variant,p.Ile108Met,ENST00000329138,;HGS,intron_variant,,ENST00000572392,;ARL16,upstream_gene_variant,,ENST00000397498,;HGS,non_coding_transcript_exon_variant,,ENST00000576498,;HGS,non_coding_transcript_exon_variant,,ENST00000576087,;HGS,non_coding_transcript_exon_variant,,ENST00000576393,;HGS,upstream_gene_variant,,ENST00000575058,;HGS,upstream_gene_variant,,ENST00000573080,;ARL16,upstream_gene_variant,,ENST00000570910,;ARL16,upstream_gene_variant,,ENST00000571082,;ARL16,upstream_gene_variant,,ENST00000577142,;	G	ENSG00000185359	ENST00000329138	Transcript	missense_variant	459	324	108	I/M	atC/atG	.	.	.	1	HGS	HGNC	4897	protein_coding	YES	CCDS11784.1	ENSP00000331201	HGS_HUMAN	I3L2H4_HUMAN,I3L165_HUMAN	UPI000004493D	.	tolerated(0.15)	probably_damaging(0.993)	5/22	.	PROSITE_profiles:PS50179,hmmpanther:PTHR13856,hmmpanther:PTHR13856:SF79,Gene3D:1.25.40.90,Pfam_domain:PF00790,SMART_domains:SM00288,PIRSF_domain:PIRSF036956,Superfamily_domains:SSF48464	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATCCTGTA	.	5	BLCA
HGS	0	.	GRCh37	17	79662979	79662979	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1343G>A	p.Gly448Asp	p.G448D	ENST00000329138	15/22	33	29	3	59	59	0	HGS,missense_variant,p.Gly117Asp,ENST00000571237,;HGS,missense_variant,p.Gly448Asp,ENST00000329138,;HGS,upstream_gene_variant,,ENST00000575078,;HGS,upstream_gene_variant,,ENST00000573320,;HGS,downstream_gene_variant,,ENST00000572392,;HGS,non_coding_transcript_exon_variant,,ENST00000571885,;HGS,upstream_gene_variant,,ENST00000573949,;HGS,downstream_gene_variant,,ENST00000576498,;HGS,downstream_gene_variant,,ENST00000575058,;HGS,downstream_gene_variant,,ENST00000573080,;HGS,upstream_gene_variant,,ENST00000571647,;HGS,upstream_gene_variant,,ENST00000570355,;	A	ENSG00000185359	ENST00000329138	Transcript	missense_variant	1478	1343	448	G/D	gGc/gAc	.	.	.	1	HGS	HGNC	4897	protein_coding	YES	CCDS11784.1	ENSP00000331201	HGS_HUMAN	I3L2H4_HUMAN,I3L165_HUMAN	UPI000004493D	.	tolerated(0.24)	benign(0.038)	15/22	.	hmmpanther:PTHR13856,hmmpanther:PTHR13856:SF79,Pfam_domain:PF12210,PIRSF_domain:PIRSF036956	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAACGGCATGC	.	4	BLCA
CHMP1B	0	.	GRCh37	18	11851857	11851857	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.347A>T	p.Asp116Val	p.D116V	ENST00000526991	1/1	134	112	21	197	197	0	CHMP1B,missense_variant,p.Asp116Val,ENST00000526991,;GNAL,intron_variant,,ENST00000535121,;GNAL,intron_variant,,ENST00000585642,;GNAL,intron_variant,,ENST00000334049,;GNAL,intron_variant,,ENST00000269162,;GNAL,intron_variant,,ENST00000423027,;GNAL,intron_variant,,ENST00000590228,;RP11-78A19.3,intron_variant,,ENST00000586474,;CHMP1B,upstream_gene_variant,,ENST00000588284,;	T	ENSG00000255112	ENST00000526991	Transcript	missense_variant	463	347	116	D/V	gAc/gTc	.	.	.	1	CHMP1B	HGNC	24287	protein_coding	YES	CCDS54180.1	ENSP00000432279	CHM1B_HUMAN	B2RA72_HUMAN	UPI00000373BD	.	deleterious(0.01)	probably_damaging(0.961)	1/1	.	hmmpanther:PTHR10476:SF2,hmmpanther:PTHR10476,Pfam_domain:PF03357	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGGACAAAT	.	4	BLCA
IMPA2	0	.	GRCh37	18	12028871	12028871	+	Silent	SNP	A	A	G	rs755110026	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.630A>G	p.%3D	p.A210A	ENST00000269159	7/8	118	110	8	121	120	1	IMPA2,synonymous_variant,p.%3D,ENST00000588927,;IMPA2,synonymous_variant,p.%3D,ENST00000269159,;IMPA2,synonymous_variant,p.%3D,ENST00000589238,;RP11-703I16.1,downstream_gene_variant,,ENST00000587619,;IMPA2,downstream_gene_variant,,ENST00000588752,;IMPA2,3_prime_UTR_variant,,ENST00000590107,;IMPA2,3_prime_UTR_variant,,ENST00000586230,;IMPA2,3_prime_UTR_variant,,ENST00000590138,;IMPA2,non_coding_transcript_exon_variant,,ENST00000589374,;IMPA2,downstream_gene_variant,,ENST00000588167,;	G	ENSG00000141401	ENST00000269159	Transcript	synonymous_variant	872	630	210	A	gcA/gcG	rs755110026	.	.	1	IMPA2	HGNC	6051	protein_coding	YES	CCDS11855.1	ENSP00000269159	IMPA2_HUMAN	K7EII9_HUMAN	UPI000012FB90	.	.	.	7/8	.	hmmpanther:PTHR20854,hmmpanther:PTHR20854:SF29,Pfam_domain:PF00459,Gene3D:3.40.190.80,Superfamily_domains:SSF56655,Prints_domain:PR00377	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGGCACTCTG	.	2	BLCA
METTL4	0	.	GRCh37	18	2567049	2567049	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.167C>G	p.Ser56Cys	p.S56C	ENST00000574538	2/9	44	40	4	58	58	0	METTL4,missense_variant,p.Ser56Cys,ENST00000319888,;METTL4,missense_variant,p.Ser7Cys,ENST00000574676,;METTL4,missense_variant,p.Ser51Cys,ENST00000609769,;METTL4,missense_variant,p.Ser56Cys,ENST00000574538,;METTL4,intron_variant,,ENST00000577166,;NDC80,upstream_gene_variant,,ENST00000261597,;NDC80,upstream_gene_variant,,ENST00000575515,;RP11-715F3.2,upstream_gene_variant,,ENST00000583253,;METTL4,non_coding_transcript_exon_variant,,ENST00000573134,;RP11-715F3.1,upstream_gene_variant,,ENST00000579765,;	C	ENSG00000101574	ENST00000574538	Transcript	missense_variant	943	167	56	S/C	tCt/tGt	.	.	.	-1	METTL4	HGNC	24726	protein_coding	YES	CCDS11826.1	ENSP00000458290	METL4_HUMAN	I3L4A0_HUMAN,I3L0Y1_HUMAN	UPI000020191B	.	tolerated(0.18)	benign(0.004)	2/9	.	hmmpanther:PTHR14475:SF2,hmmpanther:PTHR14475	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCCAGAGGAG	.	3	BLCA
SMCHD1	0	.	GRCh37	18	2762210	2762210	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4542C>A	p.%3D	p.V1514V	ENST00000320876	36/48	64	52	11	69	69	0	SMCHD1,synonymous_variant,p.%3D,ENST00000320876,;SMCHD1,synonymous_variant,p.%3D,ENST00000261598,;RP11-703M24.5,intron_variant,,ENST00000583546,;SMCHD1,synonymous_variant,p.%3D,ENST00000577880,;SMCHD1,3_prime_UTR_variant,,ENST00000584897,;SMCHD1,non_coding_transcript_exon_variant,,ENST00000583344,;	A	ENSG00000101596	ENST00000320876	Transcript	synonymous_variant	4880	4542	1514	V	gtC/gtA	.	.	.	1	SMCHD1	HGNC	29090	protein_coding	YES	CCDS45822.1	ENSP00000326603	SMHD1_HUMAN	.	UPI00001D7AAD	.	.	.	36/48	.	hmmpanther:PTHR22640:SF2,hmmpanther:PTHR22640	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGGTCAGAGA	.	5	BLCA
MYOM1	0	.	GRCh37	18	3116332	3116332	+	Silent	SNP	C	C	T	rs373624207	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3300G>A	p.%3D	p.L1100L	ENST00000356443	21/38	22	19	3	20	20	0	MYOM1,synonymous_variant,p.%3D,ENST00000356443,;MYOM1,synonymous_variant,p.%3D,ENST00000400569,;MYOM1,synonymous_variant,p.%3D,ENST00000261606,;MYOM1,downstream_gene_variant,,ENST00000582016,;	T	ENSG00000101605	ENST00000356443	Transcript	synonymous_variant	3634	3300	1100	L	ctG/ctA	rs373624207,COSM438067	.	.	-1	MYOM1	HGNC	7613	protein_coding	YES	CCDS45824.1	ENSP00000348821	MYOM1_HUMAN	.	UPI000022A657	.	.	.	21/38	.	PROSITE_profiles:PS50853,hmmpanther:PTHR19900:SF36,hmmpanther:PTHR19900,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265,Prints_domain:PR00014	.	.	.	.	.	.	.	T:0	T:0.0001	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCTTCAGGTA	byFrequency|byCluster	3	BLCA
ELP2	0	.	GRCh37	18	33754520	33754520	+	Silent	SNP	A	A	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2592A>C	p.%3D	p.A864A	ENST00000442325	23/23	44	31	13	68	68	0	ELP2,synonymous_variant,p.%3D,ENST00000442325,;ELP2,synonymous_variant,p.%3D,ENST00000542824,;ELP2,synonymous_variant,p.%3D,ENST00000350494,;ELP2,synonymous_variant,p.%3D,ENST00000351393,;ELP2,synonymous_variant,p.%3D,ENST00000358232,;ELP2,synonymous_variant,p.%3D,ENST00000423854,;ELP2,non_coding_transcript_exon_variant,,ENST00000545302,;ELP2,3_prime_UTR_variant,,ENST00000540766,;ELP2,3_prime_UTR_variant,,ENST00000539560,;ELP2,non_coding_transcript_exon_variant,,ENST00000536830,;ELP2,non_coding_transcript_exon_variant,,ENST00000544274,;ELP2,non_coding_transcript_exon_variant,,ENST00000541748,;	C	ENSG00000134759	ENST00000442325	Transcript	synonymous_variant	2628	2592	864	A	gcA/gcC	.	.	.	1	ELP2	HGNC	18248	protein_coding	YES	CCDS56065.1	ENSP00000414851	ELP2_HUMAN	.	UPI0000E03DE9	.	.	.	23/23	.	hmmpanther:PTHR13729,hmmpanther:PTHR13729:SF2,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGCAGAAGG	.	5	BLCA
ONECUT2	0	.	GRCh37	18	55143752	55143752	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1312C>T	p.Arg438Cys	p.R438C	ENST00000491143	2/2	39	32	7	68	68	0	ONECUT2,missense_variant,p.Arg67Cys,ENST00000481727,;ONECUT2,missense_variant,p.Arg438Cys,ENST00000491143,;	T	ENSG00000119547	ENST00000491143	Transcript	missense_variant	1344	1312	438	R/C	Cgc/Tgc	COSM71933	.	.	1	ONECUT2	HGNC	8139	protein_coding	YES	CCDS42440.1	ENSP00000419185	ONEC2_HUMAN	.	UPI0000201DC1	.	deleterious(0)	probably_damaging(0.977)	2/2	.	PROSITE_profiles:PS50071,hmmpanther:PTHR14057:SF10,hmmpanther:PTHR14057,Pfam_domain:PF00046,Gene3D:1.10.10.60,SMART_domains:SM00389,Superfamily_domains:SSF46689	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCCAACGCCGA	.	5	BLCA
LAMA1	0	.	GRCh37	18	6966191	6966191	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7005C>A	p.%3D	p.T2335T	ENST00000389658	49/63	27	20	6	40	40	0	LAMA1,synonymous_variant,p.%3D,ENST00000389658,;LAMA1,non_coding_transcript_exon_variant,,ENST00000484335,;LAMA1,non_coding_transcript_exon_variant,,ENST00000579014,;LAMA1,upstream_gene_variant,,ENST00000488064,;LAMA1,upstream_gene_variant,,ENST00000490190,;	T	ENSG00000101680	ENST00000389658	Transcript	synonymous_variant	7099	7005	2335	T	acC/acA	.	.	.	-1	LAMA1	HGNC	6481	protein_coding	YES	CCDS32787.1	ENSP00000374309	LAMA1_HUMAN	Q7Z5W6_HUMAN,Q6P6D3_HUMAN	UPI00001C1FF9	.	.	.	49/63	.	PROSITE_profiles:PS50025,hmmpanther:PTHR10574:SF38,hmmpanther:PTHR10574,Gene3D:2.60.120.200,Pfam_domain:PF00054,SMART_domains:SM00282,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAAAGGTATT	.	5	BLCA
ZNF236	0	.	GRCh37	18	74639139	74639139	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4167+1G>A	.	p.X1389_splice	ENST00000253159	.	94	80	14	162	162	0	ZNF236,splice_donor_variant,,ENST00000320610,;ZNF236,splice_donor_variant,,ENST00000253159,;ZNF236,splice_donor_variant,,ENST00000543926,;	A	ENSG00000130856	ENST00000253159	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	ZNF236	HGNC	13028	protein_coding	YES	CCDS42447.1	ENSP00000253159	ZN236_HUMAN	.	UPI0000F6DCCB	.	.	.	.	23/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCAGGTATGA	.	4	BLCA
ADNP2	0	.	GRCh37	18	77896105	77896105	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2809C>T	p.Arg937Cys	p.R937C	ENST00000262198	4/4	77	53	23	101	101	0	ADNP2,missense_variant,p.Arg937Cys,ENST00000262198,;ADNP2,intron_variant,,ENST00000561195,;ADNP2,downstream_gene_variant,,ENST00000559951,;ADNP2,downstream_gene_variant,,ENST00000560561,;ADNP2,downstream_gene_variant,,ENST00000560752,;	T	ENSG00000101544	ENST00000262198	Transcript	missense_variant	3264	2809	937	R/C	Cgc/Tgc	COSM474068	.	.	1	ADNP2	HGNC	23803	protein_coding	YES	CCDS32853.1	ENSP00000262198	ADNP2_HUMAN	H0YLN6_HUMAN	UPI0000071DEA	.	deleterious(0)	probably_damaging(0.941)	4/4	.	hmmpanther:PTHR15740:SF2,hmmpanther:PTHR15740	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTGCGCTGC	.	5	BLCA
EIF3G	0	.	GRCh37	19	10227826	10227826	+	Frame_Shift_Del	DEL	G	G	-	rs141171264	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.339delC	p.Gly114AspfsTer15	p.G114Dfs*15	ENST00000253108	6/11	33	26	7	24	24	0	EIF3G,frameshift_variant,p.Gly114AspfsTer15,ENST00000589454,;EIF3G,frameshift_variant,p.Gly114AspfsTer15,ENST00000253108,;EIF3G,frameshift_variant,p.Gly116AspfsTer15,ENST00000588709,;EIF3G,intron_variant,,ENST00000587146,;P2RY11,downstream_gene_variant,,ENST00000321826,;PPAN-P2RY11,downstream_gene_variant,,ENST00000393796,;EIF3G,upstream_gene_variant,,ENST00000593054,;PPAN-P2RY11,downstream_gene_variant,,ENST00000428358,;PPAN,downstream_gene_variant,,ENST00000556468,;P2RY11,downstream_gene_variant,,ENST00000471843,;EIF3G,downstream_gene_variant,,ENST00000587168,;EIF3G,3_prime_UTR_variant,,ENST00000586151,;EIF3G,3_prime_UTR_variant,,ENST00000587993,;EIF3G,3_prime_UTR_variant,,ENST00000593066,;EIF3G,3_prime_UTR_variant,,ENST00000593095,;EIF3G,non_coding_transcript_exon_variant,,ENST00000587590,;EIF3G,non_coding_transcript_exon_variant,,ENST00000589009,;EIF3G,non_coding_transcript_exon_variant,,ENST00000589674,;EIF3G,downstream_gene_variant,,ENST00000590647,;EIF3G,downstream_gene_variant,,ENST00000590940,;EIF3G,upstream_gene_variant,,ENST00000590158,;EIF3G,downstream_gene_variant,,ENST00000587681,;EIF3G,downstream_gene_variant,,ENST00000589458,;EIF3G,downstream_gene_variant,,ENST00000592485,;	-	ENSG00000130811	ENST00000253108	Transcript	frameshift_variant	382	339	113	P/X	ccC/cc	rs141171264	.	.	-1	EIF3G	HGNC	3274	protein_coding	YES	CCDS12227.1	ENSP00000253108	EIF3G_HUMAN	.	UPI000012D2FE	.	.	.	6/11	.	HAMAP:MF_03006,hmmpanther:PTHR10352,Pfam_domain:PF12353,PIRSF_domain:PIRSF037949	.	.	.	.	.	.	.	A:0.0002	A:0.0006	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GGGTCCGGGGGG	byFrequency|byCluster	2	BLCA
ZSWIM4	0	.	GRCh37	19	13941839	13941839	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2948delT	p.Leu983TrpfsTer31	p.L983Wfs*31	ENST00000254323	13/13	66	58	8	77	77	0	ZSWIM4,frameshift_variant,p.Leu983TrpfsTer31,ENST00000254323,;ZSWIM4,frameshift_variant,p.Leu817TrpfsTer31,ENST00000440752,;ZSWIM4,frameshift_variant,p.Leu892TrpfsTer31,ENST00000590508,;ZSWIM4,downstream_gene_variant,,ENST00000592227,;MIR24-2,downstream_gene_variant,,ENST00000587762,;	-	ENSG00000132003	ENST00000254323	Transcript	frameshift_variant	3134	2945	982	L/X	cTt/ct	.	.	.	1	ZSWIM4	HGNC	25704	protein_coding	YES	CCDS32924.1	ENSP00000254323	ZSWM4_HUMAN	Q9HA55_HUMAN	UPI00001C2005	.	.	.	13/13	.	hmmpanther:PTHR22619,hmmpanther:PTHR22619:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCATGCTTTTGG	.	3	BLCA
DCAF15	0	.	GRCh37	19	14069917	14069918	+	Frame_Shift_Ins	INS	-	-	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.851dupC	p.Glu285Ter	p.E285*	ENST00000254337	7/13	62	53	9	65	65	0	DCAF15,frameshift_variant,p.Glu62Ter,ENST00000585468,;DCAF15,frameshift_variant,p.Glu285Ter,ENST00000254337,;RFX1,downstream_gene_variant,,ENST00000254325,;DCAF15,upstream_gene_variant,,ENST00000587307,;DCAF15,upstream_gene_variant,,ENST00000588523,;DCAF15,downstream_gene_variant,,ENST00000591802,;DCAF15,upstream_gene_variant,,ENST00000591385,;RFX1,downstream_gene_variant,,ENST00000588520,;	C	ENSG00000132017	ENST00000254337	Transcript	frameshift_variant	866-867	845-846	282	S/SX	agc/agCc	COSM292739	.	.	1	DCAF15	HGNC	25095	protein_coding	YES	CCDS32926.1	ENSP00000254337	DCA15_HUMAN	.	UPI0000203531	.	.	.	7/13	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	insertion	.	6	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGCCAGCCCCC	.	3	BLCA
NOTCH3	0	.	GRCh37	19	15295171	15295171	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2501G>A	p.Ser834Asn	p.S834N	ENST00000263388	16/33	31	27	4	60	60	0	NOTCH3,missense_variant,p.Ser834Asn,ENST00000263388,;NOTCH3,intron_variant,,ENST00000601011,;NOTCH3,upstream_gene_variant,,ENST00000595045,;	T	ENSG00000074181	ENST00000263388	Transcript	missense_variant	2577	2501	834	S/N	aGc/aAc	.	.	.	-1	NOTCH3	HGNC	7883	protein_coding	YES	CCDS12326.1	ENSP00000263388	NOTC3_HUMAN	.	UPI000013D3FA	.	tolerated(0.44)	possibly_damaging(0.456)	16/33	.	Superfamily_domains:SSF57184,SMART_domains:SM00181,PIRSF_domain:PIRSF002279,SMART_domains:SM00179,Pfam_domain:PF07645,Gene3D:2gy5A03,PROSITE_patterns:PS01187,PROSITE_patterns:PS00010,hmmpanther:PTHR24033,hmmpanther:PTHR24033:SF47,PROSITE_profiles:PS50026	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCAGCTGAAA	.	4	BLCA
C19orf44	0	.	GRCh37	19	16631604	16631604	+	3'UTR	DEL	C	C	-	rs764386921	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*745delC	.	.	ENST00000221671	9/9	42	33	9	31	31	0	C19orf44,3_prime_UTR_variant,,ENST00000221671,;CHERP,intron_variant,,ENST00000546361,;CHERP,intron_variant,,ENST00000198939,;C19orf44,downstream_gene_variant,,ENST00000594035,;C19orf44,downstream_gene_variant,,ENST00000601288,;CHERP,intron_variant,,ENST00000544299,;C19orf44,3_prime_UTR_variant,,ENST00000593380,;CHERP,intron_variant,,ENST00000600432,;CTD-3222D19.2,intron_variant,,ENST00000409035,;CHERP,upstream_gene_variant,,ENST00000597261,;C19orf44,downstream_gene_variant,,ENST00000601109,;	-	ENSG00000105072	ENST00000221671	Transcript	3_prime_UTR_variant	2870	.	.	.	.	rs764386921	.	.	1	C19orf44	HGNC	26141	protein_coding	YES	CCDS12345.1	ENSP00000221671	CS044_HUMAN	M0R1E2_HUMAN,M0QXR9_HUMAN,B4DN63_HUMAN	UPI0000070DFC	.	.	.	9/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCTGGCCCCCC	byFrequency	3	BLCA
MED26	0	.	GRCh37	19	16688415	16688415	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.226C>T	p.%3D	p.L76L	ENST00000263390	3/3	86	77	9	120	120	0	MED26,synonymous_variant,p.%3D,ENST00000598492,;MED26,synonymous_variant,p.%3D,ENST00000263390,;MED26,synonymous_variant,p.%3D,ENST00000598608,;MED26,synonymous_variant,p.%3D,ENST00000601478,;CTC-429P9.4,downstream_gene_variant,,ENST00000593459,;MED26,downstream_gene_variant,,ENST00000600060,;CTC-429P9.4,downstream_gene_variant,,ENST00000593962,;CTD-3222D19.2,synonymous_variant,p.%3D,ENST00000409035,;MED26,non_coding_transcript_exon_variant,,ENST00000597244,;CTC-429P9.4,downstream_gene_variant,,ENST00000601636,;CTC-429P9.4,downstream_gene_variant,,ENST00000595505,;CTC-429P9.4,downstream_gene_variant,,ENST00000593991,;CTC-429P9.4,downstream_gene_variant,,ENST00000594509,;CTC-429P9.4,downstream_gene_variant,,ENST00000600705,;	A	ENSG00000105085	ENST00000263390	Transcript	synonymous_variant	489	226	76	L	Ctg/Ttg	.	.	.	-1	MED26	HGNC	2376	protein_coding	YES	CCDS12347.1	ENSP00000263390	MED26_HUMAN	M0R2P1_HUMAN,M0QXW8_HUMAN	UPI000013D3FC	.	.	.	3/3	.	Superfamily_domains:SSF47676,SMART_domains:SM00509,Gene3D:1.20.930.10,Pfam_domain:PF08711,hmmpanther:PTHR15201,PROSITE_profiles:PS51319	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CAGCAGCTTCT	.	3	BLCA
ABHD8	0	.	GRCh37	19	17411732	17411732	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694G>C	p.Glu232Gln	p.E232Q	ENST00000247706	2/5	122	100	22	144	144	0	ABHD8,missense_variant,p.Glu232Gln,ENST00000247706,;MRPL34,intron_variant,,ENST00000600434,;MRPL34,intron_variant,,ENST00000595444,;ABHD8,downstream_gene_variant,,ENST00000594194,;MRPL34,upstream_gene_variant,,ENST00000252602,;ABHD8,downstream_gene_variant,,ENST00000593489,;MRPL34,upstream_gene_variant,,ENST00000602206,;MRPL34,upstream_gene_variant,,ENST00000594999,;CTD-2278I10.4,upstream_gene_variant,,ENST00000594077,;MRPL34,downstream_gene_variant,,ENST00000597996,;	G	ENSG00000127220	ENST00000247706	Transcript	missense_variant	934	694	232	E/Q	Gag/Cag	.	.	.	-1	ABHD8	HGNC	23759	protein_coding	YES	CCDS12355.1	ENSP00000247706	ABHD8_HUMAN	B2C6G3_HUMAN	UPI0000043630	.	deleterious(0.05)	benign(0.345)	2/5	.	hmmpanther:PTHR10992,hmmpanther:PTHR10992:SF23,Pfam_domain:PF12697,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCAGCCA	.	5	BLCA
UPF1	0	.	GRCh37	19	18968215	18968215	+	Silent	SNP	C	C	T	rs149225517	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2055C>T	p.%3D	p.F685F	ENST00000262803	15/24	57	49	8	58	58	0	UPF1,synonymous_variant,p.%3D,ENST00000599848,;UPF1,synonymous_variant,p.%3D,ENST00000262803,;UPF1,downstream_gene_variant,,ENST00000594243,;UPF1,downstream_gene_variant,,ENST00000601689,;UPF1,upstream_gene_variant,,ENST00000596842,;	T	ENSG00000005007	ENST00000262803	Transcript	synonymous_variant	2327	2055	685	F	ttC/ttT	rs149225517,COSM1750739,COSM3388746	.	.	1	UPF1	HGNC	9962	protein_coding	YES	CCDS12386.1	ENSP00000262803	RENT1_HUMAN	B3KY55_HUMAN	UPI0000001C89	.	.	.	15/24	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF340,Pfam_domain:PF13087,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	T:0.0007	T:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F685F|c.2055C>T|3	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCGAGCG	byCluster|by1000G	4	BLCA
ZNF714	0	.	GRCh37	19	21300016	21300016	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546G>A	p.%3D	p.K182K	ENST00000596143	5/5	107	98	8	135	135	0	ZNF714,synonymous_variant,p.%3D,ENST00000596143,;ZNF714,synonymous_variant,p.%3D,ENST00000597424,;ZNF714,3_prime_UTR_variant,,ENST00000601416,;ZNF714,3_prime_UTR_variant,,ENST00000291770,;ZNF714,intron_variant,,ENST00000596053,;ZNF714,downstream_gene_variant,,ENST00000596367,;ZNF714,downstream_gene_variant,,ENST00000597086,;RNA5SP469,upstream_gene_variant,,ENST00000364165,;ZNF714,synonymous_variant,p.%3D,ENST00000600435,;ZNF714,3_prime_UTR_variant,,ENST00000600770,;AC010620.1,upstream_gene_variant,,ENST00000456283,;	A	ENSG00000160352	ENST00000596143	Transcript	synonymous_variant	871	546	182	K	aaG/aaA	.	.	.	1	ZNF714	HGNC	27124	protein_coding	YES	CCDS54239.1	ENSP00000472368	ZN714_HUMAN	M0R2G4_HUMAN,M0QYV9_HUMAN	UPI000059D6C5	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24384:SF104,hmmpanther:PTHR24384,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTAAGCGGTT	.	2	BLCA
ZNF536	0	.	GRCh37	19	30936329	30936329	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1860G>A	p.%3D	p.L620L	ENST00000355537	2/5	165	139	26	214	214	0	ZNF536,synonymous_variant,p.%3D,ENST00000585628,;ZNF536,synonymous_variant,p.%3D,ENST00000355537,;ZNF536,downstream_gene_variant,,ENST00000591488,;	A	ENSG00000198597	ENST00000355537	Transcript	synonymous_variant	2007	1860	620	L	ctG/ctA	.	.	.	1	ZNF536	HGNC	29025	protein_coding	YES	CCDS32984.1	ENSP00000347730	ZN536_HUMAN	K7EKT4_HUMAN,K7EJP8_HUMAN	UPI000006ED3E	.	.	.	2/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCTGCAGGG	.	4	BLCA
DPY19L3	0	.	GRCh37	19	32902171	32902171	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.130A>G	p.Ile44Val	p.I44V	ENST00000342179	3/19	69	65	4	122	122	0	DPY19L3,missense_variant,p.Ile44Val,ENST00000342179,;DPY19L3,missense_variant,p.Ile44Val,ENST00000392250,;DPY19L3,missense_variant,p.Ile44Val,ENST00000586427,;DPY19L3,missense_variant,p.Ile44Val,ENST00000587077,;DPY19L3,missense_variant,p.Ile44Val,ENST00000586987,;DPY19L3,non_coding_transcript_exon_variant,,ENST00000592503,;	G	ENSG00000178904	ENST00000342179	Transcript	missense_variant	345	130	44	I/V	Att/Gtt	.	.	.	1	DPY19L3	HGNC	27120	protein_coding	YES	CCDS12422.1	ENSP00000344937	D19L3_HUMAN	K7ELG1_HUMAN	UPI00001C10BE	.	tolerated(0.24)	benign(0.002)	3/19	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR31488,hmmpanther:PTHR31488:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAAGATTTTG	.	2	BLCA
SLC7A9	0	.	GRCh37	19	33355033	33355033	+	Missense_Mutation	SNP	G	G	C	rs774050064	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447C>G	p.Ile149Met	p.I149M	ENST00000023064	4/13	44	35	8	54	54	0	SLC7A9,missense_variant,p.Ile149Met,ENST00000023064,;SLC7A9,missense_variant,p.Ile149Met,ENST00000590341,;SLC7A9,missense_variant,p.Ile149Met,ENST00000587772,;RN7SKP22,upstream_gene_variant,,ENST00000365097,;SLC7A9,3_prime_UTR_variant,,ENST00000592232,;SLC7A9,3_prime_UTR_variant,,ENST00000590465,;SLC7A9,non_coding_transcript_exon_variant,,ENST00000589659,;	C	ENSG00000021488	ENST00000023064	Transcript	missense_variant	639	447	149	I/M	atC/atG	rs774050064,COSM1304403	.	.	-1	SLC7A9	HGNC	11067	protein_coding	YES	CCDS12425.1	ENSP00000023064	BAT1_HUMAN	K7EIF5_HUMAN	UPI0000037773	.	tolerated(0.14)	benign(0.426)	4/13	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11785,hmmpanther:PTHR11785:SF305,Pfam_domain:PF13520,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAACGATTTG	.	5	BLCA
LRFN3	0	.	GRCh37	19	36430655	36430655	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328C>T	p.Arg110Cys	p.R110C	ENST00000588831	3/4	44	36	8	34	34	0	LRFN3,missense_variant,p.Arg110Cys,ENST00000588831,;LRFN3,missense_variant,p.Arg110Cys,ENST00000246529,;LRFN3,downstream_gene_variant,,ENST00000585876,;LRFN3,downstream_gene_variant,,ENST00000587257,;	T	ENSG00000126243	ENST00000588831	Transcript	missense_variant	1382	328	110	R/C	Cgt/Tgt	COSM397571	.	.	1	LRFN3	HGNC	28370	protein_coding	YES	CCDS12483.1	ENSP00000466989	LRFN3_HUMAN	.	UPI0000070E5A	.	deleterious(0)	probably_damaging(0.999)	3/4	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24373:SF1,hmmpanther:PTHR24373,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTGCGTGCC	.	5	BLCA
ZFP14	0	.	GRCh37	19	36851383	36851383	+	Missense_Mutation	SNP	C	C	A	rs150854351	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>T	p.Lys63Asn	p.K63N	ENST00000270001	4/5	61	51	10	87	87	0	ZFP14,missense_variant,p.Lys63Asn,ENST00000270001,;ZFP14,missense_variant,p.Lys64Asn,ENST00000589280,;	A	ENSG00000142065	ENST00000270001	Transcript	missense_variant	305	189	63	K/N	aaG/aaT	rs150854351	.	.	-1	ZFP14	HGNC	29312	protein_coding	YES	CCDS33002.1	ENSP00000270001	ZFP14_HUMAN	.	UPI000013AD55	.	deleterious(0)	benign(0.066)	4/5	.	SMART_domains:SM00349,hmmpanther:PTHR24377:SF253,hmmpanther:PTHR24377,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTCCTTCCT	.	5	BLCA
ZNF567	0	.	GRCh37	19	37211037	37211037	+	Missense_Mutation	SNP	C	C	T	rs752395633	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1318C>T	p.His440Tyr	p.H440Y	ENST00000585696	3/3	109	93	15	116	116	0	ZNF567,missense_variant,p.His440Tyr,ENST00000392163,;ZNF567,missense_variant,p.His440Tyr,ENST00000360729,;ZNF567,missense_variant,p.His471Tyr,ENST00000536254,;ZNF567,missense_variant,p.His440Tyr,ENST00000585696,;ZNF567,missense_variant,p.His440Tyr,ENST00000588311,;ZNF567,intron_variant,,ENST00000589264,;ZNF850,intron_variant,,ENST00000589390,;ZNF567,intron_variant,,ENST00000591308,;	T	ENSG00000189042	ENST00000585696	Transcript	missense_variant	2548	1318	440	H/Y	Cat/Tat	rs752395633	.	.	1	ZNF567	HGNC	28696	protein_coding	YES	CCDS12495.1	ENSP00000467379	ZN567_HUMAN	.	UPI00001BBFD4	.	deleterious(0)	probably_damaging(0.983)	3/3	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24404:SF25,hmmpanther:PTHR24404,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GAACACATACA	.	5	BLCA
ZNF829	0	.	GRCh37	19	37382527	37382527	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1409T>C	p.Phe470Ser	p.F470S	ENST00000520965	6/6	93	75	18	96	96	0	ZNF829,missense_variant,p.Phe470Ser,ENST00000520965,;ZNF829,missense_variant,p.Phe389Ser,ENST00000391711,;ZNF345,intron_variant,,ENST00000526123,;ZNF345,intron_variant,,ENST00000586933,;ZNF345,intron_variant,,ENST00000525851,;ZNF345,intron_variant,,ENST00000432005,;ZNF345,intron_variant,,ENST00000534729,;ZNF345,intron_variant,,ENST00000529989,;	G	ENSG00000185869	ENST00000520965	Transcript	missense_variant	1476	1409	470	F/S	tTt/tCt	.	.	.	-1	ZNF829	HGNC	34032	protein_coding	YES	CCDS59380.1	ENSP00000428679	.	.	UPI00002021CD	.	deleterious(0)	probably_damaging(0.996)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTAAAGGCC	.	5	BLCA
SARS2	0	.	GRCh37	19	39421124	39421124	+	Missense_Mutation	SNP	C	C	T	rs760018219	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253G>A	p.Asp85Asn	p.D85N	ENST00000600042	1/17	58	48	9	80	80	0	SARS2,missense_variant,p.Asp85Asn,ENST00000600042,;SARS2,missense_variant,p.Asp85Asn,ENST00000221431,;SARS2,missense_variant,p.Asp85Asn,ENST00000430193,;SARS2,intron_variant,,ENST00000448145,;CTC-360G5.8,intron_variant,,ENST00000599996,;MRPS12,upstream_gene_variant,,ENST00000407800,;SARS2,upstream_gene_variant,,ENST00000594171,;MRPS12,upstream_gene_variant,,ENST00000308018,;MRPS12,upstream_gene_variant,,ENST00000402029,;CTC-360G5.9,downstream_gene_variant,,ENST00000599320,;SARS2,missense_variant,p.Asp85Asn,ENST00000455102,;SARS2,missense_variant,p.Asp85Asn,ENST00000598343,;SARS2,missense_variant,p.Asp85Asn,ENST00000593754,;SARS2,non_coding_transcript_exon_variant,,ENST00000598598,;MRPS12,upstream_gene_variant,,ENST00000598734,;	T	ENSG00000104835	ENST00000600042	Transcript	missense_variant	278	253	85	D/N	Gac/Aac	rs760018219	.	.	-1	SARS2	HGNC	17697	protein_coding	YES	CCDS54265.1	ENSP00000472847	SYSM_HUMAN	M0R259_HUMAN	UPI00017A6C34	.	tolerated(0.16)	possibly_damaging(0.908)	1/17	.	hmmpanther:PTHR11778:SF5,hmmpanther:PTHR11778,TIGRFAM_domain:TIGR00414,Gene3D:1.10.287.40,PIRSF_domain:PIRSF001529	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGTCCGCCG	.	5	BLCA
MRPS12	0	.	GRCh37	19	39421845	39421845	+	5'UTR	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-90G>C	.	.	ENST00000407800	1/2	39	35	4	93	93	0	MRPS12,5_prime_UTR_variant,,ENST00000407800,;SARS2,intron_variant,,ENST00000448145,;CTC-360G5.8,intron_variant,,ENST00000599996,;MRPS12,intron_variant,,ENST00000308018,;MRPS12,intron_variant,,ENST00000402029,;SARS2,upstream_gene_variant,,ENST00000600042,;SARS2,upstream_gene_variant,,ENST00000221431,;SARS2,upstream_gene_variant,,ENST00000594171,;SARS2,upstream_gene_variant,,ENST00000430193,;CTC-360G5.9,downstream_gene_variant,,ENST00000599320,;MRPS12,intron_variant,,ENST00000598734,;SARS2,upstream_gene_variant,,ENST00000455102,;SARS2,upstream_gene_variant,,ENST00000598343,;SARS2,upstream_gene_variant,,ENST00000598598,;SARS2,upstream_gene_variant,,ENST00000593754,;	C	ENSG00000128626	ENST00000407800	Transcript	5_prime_UTR_variant	252	.	.	.	.	.	.	.	1	MRPS12	HGNC	10380	protein_coding	YES	CCDS12525.1	ENSP00000384952	RT12_HUMAN	.	UPI0000135267	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTGAGAGCGG	.	3	BLCA
DAPK3	0	.	GRCh37	19	3964871	3964871	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.181A>G	p.Ile61Val	p.I61V	ENST00000545797	3/9	66	60	6	93	93	0	DAPK3,missense_variant,p.Ile61Val,ENST00000596311,;DAPK3,missense_variant,p.Ile61Val,ENST00000593844,;DAPK3,missense_variant,p.Ile61Val,ENST00000545797,;DAPK3,missense_variant,p.Ile61Val,ENST00000301264,;DAPK3,missense_variant,p.Ile61Val,ENST00000601824,;DAPK3,upstream_gene_variant,,ENST00000594894,;MIR637,upstream_gene_variant,,ENST00000385000,;DAPK3,upstream_gene_variant,,ENST00000595279,;	C	ENSG00000167657	ENST00000545797	Transcript	missense_variant	425	181	61	I/V	Atc/Gtc	.	.	.	-1	DAPK3	HGNC	2676	protein_coding	YES	CCDS12116.1	ENSP00000442973	DAPK3_HUMAN	M0R0D0_HUMAN,M0QYW5_HUMAN	UPI000006F7FA	.	tolerated(0.19)	possibly_damaging(0.516)	3/9	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:3.30.200.20,hmmpanther:PTHR22964,PROSITE_profiles:PS50011,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCGATCTCCT	.	2	BLCA
HIPK4	0	.	GRCh37	19	40890038	40890038	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474C>T	p.%3D	p.D158D	ENST00000291823	2/4	58	46	12	89	89	0	HIPK4,synonymous_variant,p.%3D,ENST00000291823,;PLD3,downstream_gene_variant,,ENST00000486134,;	A	ENSG00000160396	ENST00000291823	Transcript	synonymous_variant	759	474	158	D	gaC/gaT	.	.	.	-1	HIPK4	HGNC	19007	protein_coding	YES	CCDS12555.1	ENSP00000291823	HIPK4_HUMAN	B4DWX2_HUMAN	UPI000006DCD3	.	.	.	2/4	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24058,hmmpanther:PTHR24058:SF46,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAAGTCAAT	.	5	BLCA
PRX	0	.	GRCh37	19	40900287	40900287	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3972G>A	p.%3D	p.E1324E	ENST00000324001	7/7	14	11	3	12	12	0	PRX,synonymous_variant,p.%3D,ENST00000324001,;PRX,3_prime_UTR_variant,,ENST00000291825,;HIPK4,upstream_gene_variant,,ENST00000291823,;	T	ENSG00000105227	ENST00000324001	Transcript	synonymous_variant	4243	3972	1324	E	gaG/gaA	.	.	.	-1	PRX	HGNC	13797	protein_coding	YES	CCDS33028.1	ENSP00000326018	PRAX_HUMAN	.	UPI000044CC1A	.	.	.	7/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23348:SF39,hmmpanther:PTHR23348	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCCTTCTCACC	.	2	BLCA
SHKBP1	0	.	GRCh37	19	41083167	41083167	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.117G>A	p.Trp39Ter	p.W39*	ENST00000291842	2/18	57	48	8	117	117	0	SHKBP1,stop_gained,p.Trp34Ter,ENST00000600718,;SHKBP1,stop_gained,p.Trp39Ter,ENST00000600733,;SHKBP1,stop_gained,p.Trp39Ter,ENST00000291842,;SHKBP1,5_prime_UTR_variant,,ENST00000595631,;SPTBN4,downstream_gene_variant,,ENST00000598249,;SPTBN4,downstream_gene_variant,,ENST00000352632,;SPTBN4,downstream_gene_variant,,ENST00000392025,;SHKBP1,non_coding_transcript_exon_variant,,ENST00000600552,;SPTBN4,downstream_gene_variant,,ENST00000599926,;SPTBN4,downstream_gene_variant,,ENST00000593816,;SHKBP1,stop_gained,p.Trp39Ter,ENST00000599575,;SHKBP1,stop_gained,p.Trp39Ter,ENST00000595803,;SHKBP1,stop_gained,p.Trp39Ter,ENST00000595945,;SHKBP1,5_prime_UTR_variant,,ENST00000595523,;SHKBP1,non_coding_transcript_exon_variant,,ENST00000597325,;SHKBP1,non_coding_transcript_exon_variant,,ENST00000598558,;SHKBP1,non_coding_transcript_exon_variant,,ENST00000599716,;SHKBP1,non_coding_transcript_exon_variant,,ENST00000594973,;SPTBN4,downstream_gene_variant,,ENST00000597389,;SHKBP1,upstream_gene_variant,,ENST00000598907,;SPTBN4,downstream_gene_variant,,ENST00000596411,;SHKBP1,upstream_gene_variant,,ENST00000598201,;SHKBP1,upstream_gene_variant,,ENST00000595874,;SPTBN4,downstream_gene_variant,,ENST00000595690,;	A	ENSG00000160410	ENST00000291842	Transcript	stop_gained	166	117	39	W/*	tgG/tgA	.	.	.	1	SHKBP1	HGNC	19214	protein_coding	YES	CCDS12560.1	ENSP00000291842	SHKB1_HUMAN	B3KVX8_HUMAN	UPI0000036171	.	.	.	2/18	.	Superfamily_domains:SSF54695,SMART_domains:SM00225,Pfam_domain:PF02214,Gene3D:3.30.710.10,hmmpanther:PTHR15859,hmmpanther:PTHR15859:SF3,PROSITE_profiles:PS50097	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTGGATCCC	.	4	BLCA
ARHGEF1	0	.	GRCh37	19	42392170	42392170	+	Missense_Mutation	SNP	G	G	A	rs183598386	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.62G>A	p.Arg21Gln	p.R21Q	ENST00000337665	2/29	37	31	6	66	66	0	ARHGEF1,missense_variant,p.Arg6Gln,ENST00000599846,;ARHGEF1,missense_variant,p.Arg21Gln,ENST00000337665,;ARHGEF1,missense_variant,p.Arg6Gln,ENST00000347545,;ARHGEF1,missense_variant,p.Arg6Gln,ENST00000354532,;ARHGEF1,missense_variant,p.Arg21Gln,ENST00000378152,;ARHGEF1,intron_variant,,ENST00000596957,;ARHGEF1,non_coding_transcript_exon_variant,,ENST00000600274,;ARHGEF1,non_coding_transcript_exon_variant,,ENST00000600387,;ARHGEF1,upstream_gene_variant,,ENST00000598812,;	A	ENSG00000076928	ENST00000337665	Transcript	missense_variant	82	62	21	R/Q	cGa/cAa	rs183598386,COSM1245394,COSM3797122	.	.	1	ARHGEF1	HGNC	681	protein_coding	YES	CCDS12590.1	ENSP00000337261	ARHG1_HUMAN	.	UPI0000231C94	.	tolerated(0.16)	benign(0.226)	2/29	.	.	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCCGAGGGG	byCluster|by1000G	5	BLCA
ZNF224	0	.	GRCh37	19	44611954	44611954	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1641G>C	p.Lys547Asn	p.K547N	ENST00000336976	6/6	80	67	12	141	141	0	ZNF224,missense_variant,p.Lys547Asn,ENST00000336976,;ZNF225,upstream_gene_variant,,ENST00000589155,;ZNF224,downstream_gene_variant,,ENST00000591511,;AC084219.4,non_coding_transcript_exon_variant,,ENST00000592946,;AC084219.4,downstream_gene_variant,,ENST00000590369,;ZNF224,non_coding_transcript_exon_variant,,ENST00000591551,;	C	ENSG00000267680	ENST00000336976	Transcript	missense_variant	1895	1641	547	K/N	aaG/aaC	.	.	.	1	ZNF224	HGNC	13017	protein_coding	YES	CCDS33046.1	ENSP00000337368	ZN224_HUMAN	Q9HCA8_HUMAN,K7ENI7_HUMAN,K7EL24_HUMAN,K7EJ30_HUMAN	UPI00002025B3	.	deleterious(0)	probably_damaging(1)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF254,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Pfam_domain:PF13465,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGAAGAGTTT	.	5	BLCA
PVRL2	0	.	GRCh37	19	45368628	45368628	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>A	p.%3D	p.L63L	ENST00000252483	2/9	35	28	7	64	64	0	PVRL2,synonymous_variant,p.%3D,ENST00000252485,;PVRL2,synonymous_variant,p.%3D,ENST00000252483,;	A	ENSG00000130202	ENST00000252483	Transcript	synonymous_variant	189	189	63	L	ctG/ctA	.	.	.	1	PVRL2	HGNC	9707	protein_coding	YES	CCDS42576.1	ENSP00000252483	PVRL2_HUMAN	Q7Z458_HUMAN,Q7Z457_HUMAN,Q7Z456_HUMAN	UPI000004A2BF	.	.	.	2/9	.	PROSITE_profiles:PS50835,hmmpanther:PTHR23277,hmmpanther:PTHR23277:SF63,Pfam_domain:PF07686,Gene3D:2.60.40.10,SMART_domains:SM00406,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACTGTACAT	.	5	BLCA
LRG1	0	.	GRCh37	19	4538475	4538475	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.521A>G	p.Asn174Ser	p.N174S	ENST00000306390	2/2	130	123	6	168	168	0	LRG1,missense_variant,p.Asn174Ser,ENST00000306390,;SEMA6B,downstream_gene_variant,,ENST00000586965,;PLIN5,upstream_gene_variant,,ENST00000381848,;PLIN5,upstream_gene_variant,,ENST00000588887,;SEMA6B,downstream_gene_variant,,ENST00000301293,;PLIN5,upstream_gene_variant,,ENST00000592610,;SEMA6B,downstream_gene_variant,,ENST00000586582,;PLIN5,upstream_gene_variant,,ENST00000586133,;LRG1,downstream_gene_variant,,ENST00000586883,;CTB-50L17.14,intron_variant,,ENST00000586020,;PLIN5,upstream_gene_variant,,ENST00000590350,;	C	ENSG00000171236	ENST00000306390	Transcript	missense_variant	982	521	174	N/S	aAc/aGc	.	.	.	-1	LRG1	HGNC	29480	protein_coding	YES	CCDS12130.1	ENSP00000302621	A2GL_HUMAN	B4E1I8_HUMAN	UPI0000125014	.	deleterious(0)	probably_damaging(1)	2/2	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24367,hmmpanther:PTHR24367:SF25,Pfam_domain:PF13855,Gene3D:3.80.10.10,SMART_domains:SM00369,Superfamily_domains:SSF52058,Prints_domain:PR00019	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCGGTTCCCA	.	2	BLCA
FOXA3	0	.	GRCh37	19	46375625	46375625	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.362C>G	p.Ser121Cys	p.S121C	ENST00000302177	2/2	81	74	6	124	124	0	FOXA3,missense_variant,p.Ser88Cys,ENST00000594297,;FOXA3,missense_variant,p.Ser121Cys,ENST00000302177,;	G	ENSG00000170608	ENST00000302177	Transcript	missense_variant	559	362	121	S/C	tCc/tGc	.	.	.	1	FOXA3	HGNC	5023	protein_coding	YES	CCDS12677.1	ENSP00000304004	FOXA3_HUMAN	M0QZW5_HUMAN	UPI0000000DF9	.	deleterious(0)	probably_damaging(0.998)	2/2	.	PROSITE_profiles:PS50039,hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF55,PROSITE_patterns:PS00657,Gene3D:1.10.10.10,Pfam_domain:PF00250,SMART_domains:SM00339,Superfamily_domains:SSF46785,Prints_domain:PR00053	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTATTCCTATA	.	2	BLCA
C19orf10	0	.	GRCh37	19	4668610	4668610	+	Silent	SNP	A	A	G	rs754463444	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.222T>C	p.%3D	p.N74N	ENST00000262947	2/6	49	45	4	55	55	0	C19orf10,synonymous_variant,p.%3D,ENST00000262947,;C19orf10,synonymous_variant,p.%3D,ENST00000599630,;C19orf10,upstream_gene_variant,,ENST00000599761,;C19orf10,non_coding_transcript_exon_variant,,ENST00000596031,;	G	ENSG00000074842	ENST00000262947	Transcript	synonymous_variant	258	222	74	N	aaT/aaC	rs754463444	.	.	-1	C19orf10	HGNC	16948	protein_coding	YES	CCDS12133.1	ENSP00000262947	CS010_HUMAN	.	UPI00000711E5	.	.	.	2/6	.	hmmpanther:PTHR31230:SF1,hmmpanther:PTHR31230,Pfam_domain:PF10572	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCTCATTGGT	.	3	BLCA
PNMAL1	0	.	GRCh37	19	46971741	46971741	+	3'UTR	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*77T>C	.	.	ENST00000313683	3/3	82	67	15	100	100	0	PNMAL1,3_prime_UTR_variant,,ENST00000438932,;PNMAL1,3_prime_UTR_variant,,ENST00000313683,;PNMAL1,downstream_gene_variant,,ENST00000602246,;	G	ENSG00000182013	ENST00000313683	Transcript	3_prime_UTR_variant	1703	.	.	.	.	.	.	.	-1	PNMAL1	HGNC	25578	protein_coding	YES	CCDS33059.1	ENSP00000318131	PNML1_HUMAN	.	UPI0000231C97	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTCAGTGAC	.	5	BLCA
SYNGR4	0	.	GRCh37	19	48879560	48879560	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.690G>A	p.Met230Ile	p.M230I	ENST00000344846	5/5	36	27	8	41	41	0	SYNGR4,missense_variant,p.Met230Ile,ENST00000344846,;SYNGR4,3_prime_UTR_variant,,ENST00000601610,;SYNGR4,downstream_gene_variant,,ENST00000600863,;SYNGR4,downstream_gene_variant,,ENST00000595322,;	A	ENSG00000105467	ENST00000344846	Transcript	missense_variant	940	690	230	M/I	atG/atA	.	.	.	1	SYNGR4	HGNC	11502	protein_coding	YES	CCDS12717.1	ENSP00000344041	SNG4_HUMAN	M0QYL0_HUMAN	UPI000013C7EB	.	deleterious_low_confidence(0)	possibly_damaging(0.585)	5/5	.	hmmpanther:PTHR10838,hmmpanther:PTHR10838:SF2,PIRSF_domain:PIRSF011282	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATGATGCC	.	5	BLCA
PPP1R15A	0	.	GRCh37	19	49377381	49377381	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.891C>A	p.%3D	p.P297P	ENST00000200453	2/3	47	38	9	81	81	0	PPP1R15A,synonymous_variant,p.%3D,ENST00000200453,;PPP1R15A,upstream_gene_variant,,ENST00000600406,;	A	ENSG00000087074	ENST00000200453	Transcript	synonymous_variant	1160	891	297	P	ccC/ccA	.	.	.	1	PPP1R15A	HGNC	14375	protein_coding	YES	CCDS12738.1	ENSP00000200453	PR15A_HUMAN	.	UPI000006F652	.	.	.	2/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16489,hmmpanther:PTHR16489:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGCCCCAGCT	.	5	BLCA
GYS1	0	.	GRCh37	19	49484799	49484799	+	Missense_Mutation	SNP	C	C	T	rs566356663	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1157G>A	p.Arg386His	p.R386H	ENST00000323798	8/16	50	42	8	54	54	0	GYS1,missense_variant,p.Arg19His,ENST00000544287,;GYS1,missense_variant,p.Arg322His,ENST00000263276,;GYS1,missense_variant,p.Arg386His,ENST00000323798,;GYS1,missense_variant,p.Arg306His,ENST00000541188,;GYS1,3_prime_UTR_variant,,ENST00000540532,;GYS1,non_coding_transcript_exon_variant,,ENST00000484289,;GYS1,upstream_gene_variant,,ENST00000496048,;GYS1,upstream_gene_variant,,ENST00000472004,;	T	ENSG00000104812	ENST00000323798	Transcript	missense_variant	1354	1157	386	R/H	cGc/cAc	rs566356663	.	.	-1	GYS1	HGNC	4706	protein_coding	YES	CCDS12747.1	ENSP00000317904	GYS1_HUMAN	F5H1N8_HUMAN	UPI0000000C44	.	tolerated(0.21)	probably_damaging(0.998)	8/16	.	hmmpanther:PTHR10176,hmmpanther:PTHR10176:SF2,Pfam_domain:PF05693	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTTGCGCACA	by1000G	5	BLCA
GYS1	0	.	GRCh37	19	49489125	49489125	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660C>G	p.Phe220Leu	p.F220L	ENST00000323798	4/16	51	44	7	61	61	0	GYS1,missense_variant,p.Phe140Leu,ENST00000540532,;GYS1,missense_variant,p.Phe140Leu,ENST00000541188,;GYS1,missense_variant,p.Phe156Leu,ENST00000263276,;GYS1,missense_variant,p.Phe220Leu,ENST00000323798,;GYS1,intron_variant,,ENST00000544287,;GYS1,downstream_gene_variant,,ENST00000457974,;GYS1,upstream_gene_variant,,ENST00000484289,;	C	ENSG00000104812	ENST00000323798	Transcript	missense_variant	857	660	220	F/L	ttC/ttG	.	.	.	-1	GYS1	HGNC	4706	protein_coding	YES	CCDS12747.1	ENSP00000317904	GYS1_HUMAN	F5H1N8_HUMAN	UPI0000000C44	.	tolerated(0.09)	probably_damaging(0.987)	4/16	.	hmmpanther:PTHR10176,hmmpanther:PTHR10176:SF2,Pfam_domain:PF05693,Superfamily_domains:SSF53756	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGTAGAAGTC	.	4	BLCA
UHRF1	0	.	GRCh37	19	4950909	4950909	+	RNA	SNP	T	T	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.2295T>G	.	.	ENST00000592666	13/17	83	61	22	105	105	0	UHRF1,non_coding_transcript_exon_variant,,ENST00000262952,;UHRF1,non_coding_transcript_exon_variant,,ENST00000592666,;UHRF1,non_coding_transcript_exon_variant,,ENST00000592200,;UHRF1,non_coding_transcript_exon_variant,,ENST00000587870,;UHRF1,non_coding_transcript_exon_variant,,ENST00000591699,;UHRF1,non_coding_transcript_exon_variant,,ENST00000587187,;UHRF1,non_coding_transcript_exon_variant,,ENST00000591733,;UHRF1,non_coding_transcript_exon_variant,,ENST00000398240,;UHRF1,non_coding_transcript_exon_variant,,ENST00000543616,;	G	ENSG00000034063	ENST00000592666	Transcript	non_coding_transcript_exon_variant	2295	.	.	.	.	.	.	.	1	UHRF1	HGNC	12556	processed_transcript	YES	.	.	.	.	.	.	.	.	13/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTTTCTCGT	.	5	BLCA
POLD1	0	.	GRCh37	19	50912914	50912914	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2145G>T	p.Glu715Asp	p.E715D	ENST00000440232	17/27	65	57	8	92	92	0	POLD1,missense_variant,p.Glu715Asp,ENST00000440232,;POLD1,missense_variant,p.Glu715Asp,ENST00000599857,;POLD1,missense_variant,p.Glu741Asp,ENST00000595904,;POLD1,intron_variant,,ENST00000596425,;POLD1,upstream_gene_variant,,ENST00000593981,;POLD1,upstream_gene_variant,,ENST00000593407,;POLD1,missense_variant,p.Glu715Asp,ENST00000600859,;	T	ENSG00000062822	ENST00000440232	Transcript	missense_variant	2198	2145	715	E/D	gaG/gaT	.	.	.	1	POLD1	HGNC	9175	protein_coding	YES	CCDS12795.1	ENSP00000406046	DPOD1_HUMAN	M0R2J2_HUMAN	UPI000007288E	.	tolerated(0.07)	benign(0.346)	17/27	.	Superfamily_domains:SSF56672,SMART_domains:SM00486,Pfam_domain:PF00136,TIGRFAM_domain:TIGR00592,Gene3D:2py5A02,hmmpanther:PTHR10322,hmmpanther:PTHR10322:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGAGATCTC	.	4	BLCA
CD33	0	.	GRCh37	19	51728762	51728762	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326G>C	p.Arg109Thr	p.R109T	ENST00000262262	2/7	81	68	12	104	104	0	CD33,missense_variant,p.Arg109Thr,ENST00000262262,;CD33,missense_variant,p.Arg109Thr,ENST00000391796,;CD33,intron_variant,,ENST00000436584,;CD33,intron_variant,,ENST00000421133,;CD33,non_coding_transcript_exon_variant,,ENST00000601785,;CD33,upstream_gene_variant,,ENST00000598473,;	C	ENSG00000105383	ENST00000262262	Transcript	missense_variant	347	326	109	R/T	aGg/aCg	.	.	.	1	CD33	HGNC	1659	protein_coding	YES	CCDS33084.1	ENSP00000262262	CD33_HUMAN	Q546G0_HUMAN	UPI000013D285	.	deleterious(0.01)	possibly_damaging(0.555)	2/7	.	PROSITE_profiles:PS50835,hmmpanther:PTHR12035,hmmpanther:PTHR12035:SF52,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCAGGAGGA	.	5	BLCA
ZNF616	0	.	GRCh37	19	52618226	52618226	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2191delT	p.Ser731ProfsTer35	p.S731Pfs*35	ENST00000600228	4/4	149	126	23	182	182	0	ZNF616,frameshift_variant,p.Ser731ProfsTer35,ENST00000600228,;ZNF616,3_prime_UTR_variant,,ENST00000330123,;ZNF616,downstream_gene_variant,,ENST00000596290,;CTC-471J1.10,upstream_gene_variant,,ENST00000603942,;	-	ENSG00000204611	ENST00000600228	Transcript	frameshift_variant	2453	2191	731	S/X	Tcc/cc	.	.	.	-1	ZNF616	HGNC	28062	protein_coding	YES	CCDS33090.1	ENSP00000471000	ZN616_HUMAN	M0QXF0_HUMAN	UPI0000140D49	.	.	.	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF275,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TGAGGGAAAACA	.	3	BLCA
ZNF808	0	.	GRCh37	19	53058407	53058407	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2238G>C	p.Gln746His	p.Q746H	ENST00000359798	5/5	172	142	29	278	277	1	ZNF808,missense_variant,p.Gln746His,ENST00000359798,;ZNF808,downstream_gene_variant,,ENST00000461321,;ZNF808,downstream_gene_variant,,ENST00000486474,;ZNF808,downstream_gene_variant,,ENST00000465448,;ZNF808,downstream_gene_variant,,ENST00000461779,;ZNF701,upstream_gene_variant,,ENST00000478039,;ZNF808,missense_variant,p.Gln677His,ENST00000487863,;	C	ENSG00000198482	ENST00000359798	Transcript	missense_variant	2418	2238	746	Q/H	caG/caC	.	.	.	1	ZNF808	HGNC	33230	protein_coding	YES	CCDS46167.1	ENSP00000352846	ZN808_HUMAN	C9JVX0_HUMAN,C9J871_HUMAN,C9J0J5_HUMAN,C9IZE3_HUMAN	UPI000041AA80	.	tolerated(0.64)	benign(0.044)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF276,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCAGAAGGC	.	5	BLCA
ZNF611	0	.	GRCh37	19	53210069	53210069	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.239G>A	p.Gly80Asp	p.G80D	ENST00000543227	6/6	239	227	12	329	329	0	ZNF611,missense_variant,p.Gly11Asp,ENST00000453741,;ZNF611,missense_variant,p.Gly80Asp,ENST00000543227,;ZNF611,missense_variant,p.Gly80Asp,ENST00000319783,;ZNF611,missense_variant,p.Gly11Asp,ENST00000595798,;ZNF611,missense_variant,p.Gly11Asp,ENST00000602162,;ZNF611,missense_variant,p.Gly80Asp,ENST00000540744,;ZNF611,missense_variant,p.Gly11Asp,ENST00000601643,;ZNF611,synonymous_variant,p.%3D,ENST00000600943,;ZNF611,3_prime_UTR_variant,,ENST00000596702,;ZNF611,downstream_gene_variant,,ENST00000602046,;ZNF611,3_prime_UTR_variant,,ENST00000601249,;ZNF611,3_prime_UTR_variant,,ENST00000595001,;ZNF611,3_prime_UTR_variant,,ENST00000597343,;ZNF611,3_prime_UTR_variant,,ENST00000598639,;ZNF611,3_prime_UTR_variant,,ENST00000598723,;	T	ENSG00000213020	ENST00000543227	Transcript	missense_variant	514	239	80	G/D	gGc/gAc	.	.	.	-1	ZNF611	HGNC	28766	protein_coding	YES	CCDS12855.1	ENSP00000437616	ZN611_HUMAN	M0QYR0_HUMAN	UPI00001406C1	.	tolerated(0.26)	benign(0.007)	6/6	.	SMART_domains:SM00349,hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377,PROSITE_profiles:PS50805	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATTGCCTTGC	.	2	BLCA
ZNF600	0	.	GRCh37	19	53270675	53270675	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334G>C	p.Glu112Gln	p.E112Q	ENST00000338230	3/3	207	199	8	256	256	0	ZNF600,missense_variant,p.Glu112Gln,ENST00000338230,;	G	ENSG00000189190	ENST00000338230	Transcript	missense_variant	602	334	112	E/Q	Gag/Cag	.	.	.	-1	ZNF600	HGNC	30951	protein_coding	YES	CCDS12856.1	ENSP00000344791	ZN600_HUMAN	.	UPI0000366E5E	.	tolerated(0.1)	possibly_damaging(0.558)	3/3	.	hmmpanther:PTHR24377:SF233,hmmpanther:PTHR24377	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTCTCAAATT	.	2	BLCA
ZNF816	0	.	GRCh37	19	53453802	53453802	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1226G>C	p.Arg409Thr	p.R409T	ENST00000357666	5/5	140	128	12	165	165	0	ZNF816,missense_variant,p.Arg409Thr,ENST00000444460,;ZNF816,missense_variant,p.Arg409Thr,ENST00000357666,;ZNF816,intron_variant,,ENST00000434371,;ZNF321P,intron_variant,,ENST00000391777,;ZNF816,downstream_gene_variant,,ENST00000438970,;ZNF816,downstream_gene_variant,,ENST00000332302,;ZNF816,downstream_gene_variant,,ENST00000391786,;ZNF816,downstream_gene_variant,,ENST00000270457,;ZNF816,downstream_gene_variant,,ENST00000457013,;ZNF816,downstream_gene_variant,,ENST00000535506,;	G	ENSG00000180257	ENST00000357666	Transcript	missense_variant	1527	1226	409	R/T	aGa/aCa	COSM3933164,COSM1481447	.	.	-1	ZNF816	HGNC	26995	protein_coding	YES	CCDS33096.1	ENSP00000350295	ZN816_HUMAN	I3L0H5_HUMAN	UPI0000251D78	.	tolerated(0.39)	benign(0.012)	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377:SF236,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGATCTGCGA	.	3	BLCA
ZNF160	0	.	GRCh37	19	53573345	53573345	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.442G>A	p.Asp148Asn	p.D148N	ENST00000429604	7/7	165	142	22	200	200	0	ZNF160,missense_variant,p.Asp148Asn,ENST00000418871,;ZNF160,missense_variant,p.Asp112Asn,ENST00000601982,;ZNF160,missense_variant,p.Asp148Asn,ENST00000599247,;ZNF160,missense_variant,p.Asp112Asn,ENST00000601421,;ZNF160,missense_variant,p.Asp148Asn,ENST00000429604,;ZNF160,missense_variant,p.Asp148Asn,ENST00000599056,;ZNF160,downstream_gene_variant,,ENST00000355147,;	T	ENSG00000170949	ENST00000429604	Transcript	missense_variant	858	442	148	D/N	Gac/Aac	.	.	.	-1	ZNF160	HGNC	12948	protein_coding	YES	CCDS12859.1	ENSP00000406201	ZN160_HUMAN	M0QZI7_HUMAN,M0QZ49_HUMAN,M0QXU9_HUMAN	UPI0000202B37	.	tolerated(0.11)	benign(0.03)	7/7	.	hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF132	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGTCATCTC	.	4	BLCA
LENG8	0	.	GRCh37	19	54967285	54967285	+	Missense_Mutation	SNP	G	G	T	rs768271224	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1165G>T	p.Gly389Cys	p.G389C	ENST00000326764	9/16	48	37	11	57	57	0	LENG8,missense_variant,p.Gly389Cys,ENST00000326764,;LENG8,missense_variant,p.Gly389Cys,ENST00000431846,;LENG8,missense_variant,p.Gly352Cys,ENST00000376526,;LENG8,intron_variant,,ENST00000376514,;LENG8,downstream_gene_variant,,ENST00000436479,;LENG8,downstream_gene_variant,,ENST00000443957,;LENG8,upstream_gene_variant,,ENST00000421200,;LENG8,downstream_gene_variant,,ENST00000439657,;LENG8,downstream_gene_variant,,ENST00000462541,;	T	ENSG00000167615	ENST00000326764	Transcript	missense_variant	1644	1165	389	G/C	Ggt/Tgt	rs768271224	.	.	1	LENG8	HGNC	15500	protein_coding	YES	CCDS12894.1	ENSP00000318374	LENG8_HUMAN	E7EWC7_HUMAN,C9J1N5_HUMAN,B0VJY8_HUMAN	UPI0000074196	.	deleterious(0.01)	possibly_damaging(0.902)	9/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12436:SF4,hmmpanther:PTHR12436	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGGGGTGCC	.	5	BLCA
HSD11B1L	0	.	GRCh37	19	5687833	5687833	+	Intron	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.669-94G>A	.	.	ENST00000423665	.	12	8	3	8	8	0	HSD11B1L,missense_variant,p.Ala135Thr,ENST00000579559,;HSD11B1L,synonymous_variant,p.%3D,ENST00000342970,;HSD11B1L,synonymous_variant,p.%3D,ENST00000339423,;HSD11B1L,synonymous_variant,p.%3D,ENST00000581521,;HSD11B1L,synonymous_variant,p.%3D,ENST00000581893,;HSD11B1L,synonymous_variant,p.%3D,ENST00000583928,;HSD11B1L,synonymous_variant,p.%3D,ENST00000301382,;HSD11B1L,synonymous_variant,p.%3D,ENST00000581773,;HSD11B1L,3_prime_UTR_variant,,ENST00000578046,;RPL36,intron_variant,,ENST00000579649,;HSD11B1L,intron_variant,,ENST00000577917,;HSD11B1L,intron_variant,,ENST00000423665,;RPL36,intron_variant,,ENST00000577222,;HSD11B1L,intron_variant,,ENST00000411793,;LONP1,downstream_gene_variant,,ENST00000590729,;RPL36,upstream_gene_variant,,ENST00000347512,;LONP1,downstream_gene_variant,,ENST00000360614,;RPL36,upstream_gene_variant,,ENST00000579446,;RPL36,upstream_gene_variant,,ENST00000394580,;LONP1,downstream_gene_variant,,ENST00000593119,;LONP1,downstream_gene_variant,,ENST00000540670,;HSD11B1L,downstream_gene_variant,,ENST00000577257,;LONP1,downstream_gene_variant,,ENST00000585374,;LONP1,downstream_gene_variant,,ENST00000589473,;RPL36,upstream_gene_variant,,ENST00000582463,;HSD11B1L,downstream_gene_variant,,ENST00000422535,;RPL36,intron_variant,,ENST00000582380,;HSD11B1L,downstream_gene_variant,,ENST00000577701,;HSD11B1L,3_prime_UTR_variant,,ENST00000579562,;HSD11B1L,non_coding_transcript_exon_variant,,ENST00000581423,;HSD11B1L,non_coding_transcript_exon_variant,,ENST00000577920,;HSD11B1L,non_coding_transcript_exon_variant,,ENST00000578167,;LONP1,downstream_gene_variant,,ENST00000590558,;HSD11B1L,downstream_gene_variant,,ENST00000578832,;HSD11B1L,downstream_gene_variant,,ENST00000584904,;LONP1,downstream_gene_variant,,ENST00000587552,;HSD11B1L,downstream_gene_variant,,ENST00000582346,;RPL36,upstream_gene_variant,,ENST00000590786,;	A	ENSG00000167733	ENST00000423665	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	HSD11B1L	HGNC	30419	protein_coding	YES	CCDS45931.1	ENSP00000407154	DHI1L_HUMAN	J3QSE6_HUMAN	UPI00001B2966	.	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCACGCGCGC	.	2	BLCA
ZNF324	0	.	GRCh37	19	58982420	58982420	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.561G>A	p.%3D	p.R187R	ENST00000536459	4/4	20	17	3	23	23	0	ZNF324,synonymous_variant,p.%3D,ENST00000196482,;ZNF324,synonymous_variant,p.%3D,ENST00000536459,;ZNF324,synonymous_variant,p.%3D,ENST00000593925,;ZNF324,5_prime_UTR_variant,,ENST00000535298,;ZNF446,upstream_gene_variant,,ENST00000596341,;CTD-2619J13.23,downstream_gene_variant,,ENST00000598051,;ZNF446,upstream_gene_variant,,ENST00000599913,;	A	ENSG00000083812	ENST00000536459	Transcript	synonymous_variant	1270	561	187	R	agG/agA	.	.	.	1	ZNF324	HGNC	14096	protein_coding	YES	CCDS12981.1	ENSP00000444812	Z324A_HUMAN	F5H1K2_HUMAN	UPI000013C359	.	.	.	4/4	.	hmmpanther:PTHR24382,hmmpanther:PTHR24382:SF32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGAGGCAGCC	.	2	BLCA
CLPP	0	.	GRCh37	19	6361912	6361912	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.231G>A	p.%3D	p.S77S	ENST00000245816	2/6	37	29	8	22	22	0	CLPP,missense_variant,p.Arg20His,ENST00000597326,;CLPP,synonymous_variant,p.%3D,ENST00000245816,;CLPP,5_prime_UTR_variant,,ENST00000596149,;CLPP,5_prime_UTR_variant,,ENST00000596605,;CTB-180A7.3,intron_variant,,ENST00000595644,;CLPP,non_coding_transcript_exon_variant,,ENST00000594780,;CLPP,non_coding_transcript_exon_variant,,ENST00000596070,;	A	ENSG00000125656	ENST00000245816	Transcript	synonymous_variant	354	231	77	S	tcG/tcA	.	.	.	1	CLPP	HGNC	2084	protein_coding	YES	CCDS12162.1	ENSP00000245816	CLPP_HUMAN	M0R208_HUMAN,A4UCS4_HUMAN	UPI0000000C4D	.	.	.	2/6	.	HAMAP:MF_00444,hmmpanther:PTHR10381:SF11,hmmpanther:PTHR10381,Gene3D:3.90.226.10,Pfam_domain:PF00574,Superfamily_domains:SSF52096,Prints_domain:PR00127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTCGCGGCT	.	5	BLCA
PRAM1	0	.	GRCh37	19	8564305	8564305	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.387G>T	p.Lys129Asn	p.K129N	ENST00000423345	2/10	83	66	16	87	87	0	PRAM1,missense_variant,p.Lys129Asn,ENST00000255612,;PRAM1,missense_variant,p.Lys105Asn,ENST00000600262,;PRAM1,missense_variant,p.Lys129Asn,ENST00000423345,;	A	ENSG00000133246	ENST00000423345	Transcript	missense_variant	908	387	129	K/N	aaG/aaT	.	.	.	-1	PRAM1	HGNC	30091	protein_coding	YES	CCDS45954.2	ENSP00000408342	PRAM_HUMAN	.	UPI00001AE786	.	deleterious(0.04)	possibly_damaging(0.839)	2/10	.	hmmpanther:PTHR16830:SF6,hmmpanther:PTHR16830	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACTTCTTGGA	.	5	BLCA
MUC16	0	.	GRCh37	19	9020804	9020804	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.37298T>C	p.Val12433Ala	p.V12433A	ENST00000397910	20/84	138	106	32	182	182	0	MUC16,missense_variant,p.Val12433Ala,ENST00000397910,;	G	ENSG00000181143	ENST00000397910	Transcript	missense_variant	37502	37298	12433	V/A	gTt/gCt	.	.	.	-1	MUC16	HGNC	15582	protein_coding	YES	CCDS54212.1	ENSP00000381008	.	F8WE81_HUMAN,B5ME49_HUMAN	UPI000065CA24	.	.	benign(0.095)	20/84	.	Superfamily_domains:0047452,SMART_domains:SM00200,Pfam_domain:PF01390,Gene3D:1ivzA00,hmmpanther:PTHR14672,hmmpanther:PTHR14672:SF0,PROSITE_profiles:PS50024	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGCCAACACTG	.	5	BLCA
ZNF699	0	.	GRCh37	19	9406292	9406292	+	Missense_Mutation	SNP	G	G	C	rs372272252	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1788C>G	p.Phe596Leu	p.F596L	ENST00000591998	6/6	75	59	15	86	86	0	ZNF699,missense_variant,p.Phe596Leu,ENST00000308650,;ZNF699,missense_variant,p.Phe596Leu,ENST00000591998,;CTC-325H20.4,downstream_gene_variant,,ENST00000591336,;	C	ENSG00000196110	ENST00000591998	Transcript	missense_variant	2017	1788	596	F/L	ttC/ttG	rs372272252	.	.	-1	ZNF699	HGNC	24750	protein_coding	YES	CCDS42495.1	ENSP00000467723	ZN699_HUMAN	.	UPI00001D825F	.	deleterious(0)	possibly_damaging(0.786)	6/6	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF132,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	C:0	C:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACTGAAAGC	byCluster	5	BLCA
FBXL12	0	.	GRCh37	19	9922216	9922216	+	Missense_Mutation	SNP	C	C	A	rs145046400	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.337G>T	p.Asp113Tyr	p.D113Y	ENST00000247977	3/3	126	110	16	152	151	0	FBXL12,missense_variant,p.Asp60Tyr,ENST00000591009,;FBXL12,missense_variant,p.Asp60Tyr,ENST00000590277,;FBXL12,missense_variant,p.Asp113Tyr,ENST00000247977,;FBXL12,missense_variant,p.Asp60Tyr,ENST00000585379,;FBXL12,3_prime_UTR_variant,,ENST00000588922,;FBXL12,3_prime_UTR_variant,,ENST00000592067,;FBXL12,3_prime_UTR_variant,,ENST00000589626,;FBXL12,3_prime_UTR_variant,,ENST00000586651,;FBXL12,downstream_gene_variant,,ENST00000586469,;FBXL12,3_prime_UTR_variant,,ENST00000590808,;FBXL12,3_prime_UTR_variant,,ENST00000592732,;FBXL12,3_prime_UTR_variant,,ENST00000589438,;	A	ENSG00000127452	ENST00000247977	Transcript	missense_variant	579	337	113	D/Y	Gac/Tac	rs145046400	.	.	-1	FBXL12	HGNC	13611	protein_coding	YES	CCDS12218.1	ENSP00000247977	FXL12_HUMAN	K7EPN7_HUMAN,K7ELM5_HUMAN	UPI000006EBD0	.	deleterious(0)	probably_damaging(0.976)	3/3	.	hmmpanther:PTHR23125:SF265,hmmpanther:PTHR23125,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	.	.	.	.	.	.	.	T:0.0002	T:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGTCGGCCA	byCluster	4	BLCA
OLFM2	0	.	GRCh37	19	9964871	9964871	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1356G>T	p.%3D	p.G452G	ENST00000264833	6/6	46	35	11	48	48	0	OLFM2,synonymous_variant,p.%3D,ENST00000264833,;OLFM2,synonymous_variant,p.%3D,ENST00000590841,;PIN1,downstream_gene_variant,,ENST00000588695,;PIN1,downstream_gene_variant,,ENST00000247970,;OLFM2,downstream_gene_variant,,ENST00000593091,;AC008752.3,downstream_gene_variant,,ENST00000582439,;PIN1,downstream_gene_variant,,ENST00000589058,;PIN1,downstream_gene_variant,,ENST00000590540,;PIN1,downstream_gene_variant,,ENST00000380889,;PIN1,downstream_gene_variant,,ENST00000585442,;OLFM2,downstream_gene_variant,,ENST00000590410,;PIN1,downstream_gene_variant,,ENST00000591777,;OLFM2,downstream_gene_variant,,ENST00000592448,;PIN1,downstream_gene_variant,,ENST00000586025,;PIN1,downstream_gene_variant,,ENST00000586352,;	A	ENSG00000105088	ENST00000264833	Transcript	synonymous_variant	1542	1356	452	G	ggG/ggT	.	.	.	-1	OLFM2	HGNC	17189	protein_coding	YES	CCDS12221.1	ENSP00000264833	NOE2_HUMAN	K7EIS8_HUMAN	UPI000013D57B	.	.	.	6/6	.	hmmpanther:PTHR23192,hmmpanther:PTHR23192:SF27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTCCCCAGA	.	5	BLCA
CASZ1	0	.	GRCh37	1	10699863	10699863	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4416G>A	p.%3D	p.T1472T	ENST00000377022	21/21	15	11	4	17	17	0	CASZ1,synonymous_variant,p.%3D,ENST00000377022,;CASZ1,downstream_gene_variant,,ENST00000447850,;RP4-734G22.3,non_coding_transcript_exon_variant,,ENST00000606802,;CASZ1,upstream_gene_variant,,ENST00000478524,;	T	ENSG00000130940	ENST00000377022	Transcript	synonymous_variant	4734	4416	1472	T	acG/acA	.	.	.	-1	CASZ1	HGNC	26002	protein_coding	YES	CCDS41246.1	ENSP00000366221	CASZ1_HUMAN	.	UPI0000EBB7D6	.	.	.	21/21	.	PROSITE_profiles:PS50157,hmmpanther:PTHR12451,PROSITE_patterns:PS00028,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	ATGTGCGTGCG	.	4	BLCA
KCNA3	0	.	GRCh37	1	111217049	111217049	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.383C>T	p.Thr128Met	p.T128M	ENST00000369769	1/1	95	84	11	116	116	0	KCNA3,missense_variant,p.Thr128Met,ENST00000369769,;	A	ENSG00000177272	ENST00000369769	Transcript	missense_variant	607	383	128	T/M	aCg/aTg	COSM1332628	.	.	-1	KCNA3	HGNC	6221	protein_coding	YES	CCDS828.2	ENSP00000358784	KCNA3_HUMAN	Q6P2D3_HUMAN,B2RA23_HUMAN	UPI000013FB79	.	deleterious(0)	probably_damaging(1)	1/1	.	hmmpanther:PTHR11537:SF28,hmmpanther:PTHR11537,Gene3D:3.30.710.10,Pfam_domain:PF02214,SMART_domains:SM00225,Superfamily_domains:SSF54695,Prints_domain:PR01510	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.T128M|c.383C>T|3	RADIA|MUTECT|MUSE|VARSCANS	GCAGCGTCTCG	.	4	BLCA
ANGPTL7	0	.	GRCh37	1	11249509	11249509	+	5'UTR	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-128A>G	.	.	ENST00000376819	1/5	32	26	6	50	50	0	ANGPTL7,5_prime_UTR_variant,,ENST00000376819,;MTOR,intron_variant,,ENST00000361445,;ANGPTL7,upstream_gene_variant,,ENST00000476934,;	G	ENSG00000171819	ENST00000376819	Transcript	5_prime_UTR_variant	112	.	.	.	.	.	.	.	1	ANGPTL7	HGNC	24078	protein_coding	YES	CCDS128.1	ENSP00000366015	ANGL7_HUMAN	F1T0A6_HUMAN	UPI0000035976	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	AAAACAACAAA	.	2	BLCA
HIPK1	0	.	GRCh37	1	114511080	114511080	+	Missense_Mutation	SNP	C	C	A	rs768483349	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2581C>A	p.Leu861Met	p.L861M	ENST00000369558	13/16	117	102	15	135	135	0	HIPK1,missense_variant,p.Leu142Met,ENST00000361587,;HIPK1,missense_variant,p.Leu827Met,ENST00000369561,;HIPK1,missense_variant,p.Leu816Met,ENST00000369554,;HIPK1,missense_variant,p.Leu467Met,ENST00000406344,;HIPK1,missense_variant,p.Leu861Met,ENST00000426820,;HIPK1,missense_variant,p.Leu467Met,ENST00000369553,;HIPK1,missense_variant,p.Leu861Met,ENST00000369559,;HIPK1,missense_variant,p.Leu861Met,ENST00000369558,;HIPK1,missense_variant,p.Leu816Met,ENST00000369555,;HIPK1,missense_variant,p.Leu487Met,ENST00000340480,;	A	ENSG00000163349	ENST00000369558	Transcript	missense_variant	2813	2581	861	L/M	Ctg/Atg	rs768483349	.	.	1	HIPK1	HGNC	19006	protein_coding	YES	CCDS867.1	ENSP00000358571	HIPK1_HUMAN	D6RF28_HUMAN,D6RC95_HUMAN	UPI000000D74E	.	tolerated(0.13)	benign(0.007)	13/16	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTTCTGCCT	.	4	BLCA
IGSF3	0	.	GRCh37	1	117120153	117120153	+	Silent	SNP	G	G	A	rs772869930	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3426C>T	p.%3D	p.N1142N	ENST00000369483	12/12	37	28	8	65	65	0	IGSF3,synonymous_variant,p.%3D,ENST00000318837,;IGSF3,synonymous_variant,p.%3D,ENST00000369486,;IGSF3,synonymous_variant,p.%3D,ENST00000369483,;	A	ENSG00000143061	ENST00000369483	Transcript	synonymous_variant	4131	3426	1142	N	aaC/aaT	rs772869930,COSM1333049,COSM1333048	.	.	-1	IGSF3	HGNC	5950	protein_coding	YES	CCDS30814.1	ENSP00000358495	IGSF3_HUMAN	.	UPI0000140437	.	.	.	12/12	.	hmmpanther:PTHR12207,hmmpanther:PTHR12207:SF21	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGTCGTTGGA	byFrequency	5	BLCA
MAN1A2	0	.	GRCh37	1	118065449	118065449	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1796A>T	p.Tyr599Phe	p.Y599F	ENST00000356554	13/13	125	115	10	121	121	0	MAN1A2,missense_variant,p.Tyr38Phe,ENST00000422329,;MAN1A2,missense_variant,p.Tyr166Phe,ENST00000421535,;MAN1A2,missense_variant,p.Tyr599Phe,ENST00000356554,;	T	ENSG00000198162	ENST00000356554	Transcript	missense_variant	2531	1796	599	Y/F	tAt/tTt	.	.	.	1	MAN1A2	HGNC	6822	protein_coding	YES	CCDS895.1	ENSP00000348959	MA1A2_HUMAN	.	UPI0000052B45	.	deleterious(0)	possibly_damaging(0.806)	13/13	.	hmmpanther:PTHR11742:SF40,hmmpanther:PTHR11742,Pfam_domain:PF01532,Gene3D:1.50.10.50,Superfamily_domains:SSF48225,Prints_domain:PR00747	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGATATTTGT	.	2	BLCA
AADACL4	0	.	GRCh37	1	12726318	12726318	+	Missense_Mutation	SNP	G	G	A	rs139261871	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.796G>A	p.Ala266Thr	p.A266T	ENST00000376221	4/4	124	100	24	167	167	0	AADACL4,missense_variant,p.Ala266Thr,ENST00000376221,;	A	ENSG00000204518	ENST00000376221	Transcript	missense_variant	796	796	266	A/T	Gcc/Acc	rs139261871,COSM181076	.	.	1	AADACL4	HGNC	32038	protein_coding	YES	CCDS30590.1	ENSP00000365395	ADCL4_HUMAN	.	UPI0000160609	.	tolerated(0.23)	possibly_damaging(0.595)	4/4	.	hmmpanther:PTHR23024,hmmpanther:PTHR23024:SF95,PIRSF_domain:PIRSF037251,Superfamily_domains:SSF53474	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0	A:0.0001	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.A266T|c.796G>A|3,CODON|p.D265D|c.795C>T|3,BUFFER|p.R264H|c.791G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGACGCCATC	byCluster|by1000G	5	BLCA
NBPF12	0	.	GRCh37	1	146466002	146466002	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9877T>A	p.Phe3293Ile	p.F3293I	ENST00000442909	82/82	252	231	21	388	388	0	NBPF12,missense_variant,p.Phe3293Ile,ENST00000442909,;NBPF12,3_prime_UTR_variant,,ENST00000309471,;NBPF12,3_prime_UTR_variant,,ENST00000446760,;NBPF12,downstream_gene_variant,,ENST00000446080,;	A	ENSG00000186275	ENST00000442909	Transcript	missense_variant	10713	9877	3293	F/I	Ttt/Att	.	.	.	1	NBPF12	HGNC	24297	protein_coding	YES	.	ENSP00000391116	NBPFC_HUMAN	S4R3H5_HUMAN,H7BZX4_HUMAN,H7BYX2_HUMAN,F8WEX1_HUMAN,F5GXN6_HUMAN	UPI0001B798CE	.	.	benign(0.163)	82/82	.	PROSITE_profiles:PS51316,hmmpanther:PTHR14199:SF16,hmmpanther:PTHR14199,Pfam_domain:PF06758	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGTGTTTTAC	.	3	BLCA
TNFAIP8L2	0	.	GRCh37	1	151131418	151131418	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.245G>A	p.Ser82Asn	p.S82N	ENST00000368910	2/2	50	37	12	64	64	0	TNFAIP8L2,missense_variant,p.Ser82Asn,ENST00000368910,;SCNM1,intron_variant,,ENST00000602841,;LYSMD1,downstream_gene_variant,,ENST00000440902,;LYSMD1,downstream_gene_variant,,ENST00000368908,;	A	ENSG00000163154	ENST00000368910	Transcript	missense_variant	371	245	82	S/N	aGt/aAt	.	.	.	1	TNFAIP8L2	HGNC	26277	protein_coding	YES	CCDS985.1	ENSP00000357906	TP8L2_HUMAN	.	UPI00000373B5	.	deleterious(0.02)	benign(0.003)	2/2	.	Pfam_domain:PF05527,hmmpanther:PTHR12757:SF4,hmmpanther:PTHR12757	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCAGTGAGC	.	5	BLCA
CGN	0	.	GRCh37	1	151502552	151502552	+	Silent	SNP	G	G	A	rs202211004	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2274G>A	p.%3D	p.A758A	ENST00000271636	12/21	71	58	12	116	116	0	CGN,synonymous_variant,p.%3D,ENST00000271636,;SNORA44,upstream_gene_variant,,ENST00000517031,;CGN,upstream_gene_variant,,ENST00000473377,;CGN,downstream_gene_variant,,ENST00000464886,;	A	ENSG00000143375	ENST00000271636	Transcript	synonymous_variant	2407	2274	758	A	gcG/gcA	rs202211004	.	.	1	CGN	HGNC	17429	protein_coding	YES	CCDS999.1	ENSP00000271636	CING_HUMAN	A6PVU7_HUMAN,A2A3M4_HUMAN	UPI0000161C1E	.	.	.	12/21	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF280,hmmpanther:PTHR13140	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGCGGTGGA	byCluster	5	BLCA
OAZ3	0	.	GRCh37	1	151740664	151740664	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.299T>C	p.Phe100Ser	p.F100S	ENST00000321531	4/6	30	26	4	34	34	0	OAZ3,missense_variant,p.Phe100Ser,ENST00000315067,;OAZ3,missense_variant,p.Phe7Ser,ENST00000582415,;OAZ3,missense_variant,p.Phe113Ser,ENST00000453029,;OAZ3,missense_variant,p.Phe100Ser,ENST00000321531,;OAZ3,5_prime_UTR_variant,,ENST00000400999,;OAZ3,intron_variant,,ENST00000479764,;TDRKH,downstream_gene_variant,,ENST00000368827,;MRPL9,upstream_gene_variant,,ENST00000368830,;MRPL9,upstream_gene_variant,,ENST00000368829,;RP11-98D18.3,non_coding_transcript_exon_variant,,ENST00000512280,;RP11-98D18.2,downstream_gene_variant,,ENST00000420382,;RP11-98D18.16,upstream_gene_variant,,ENST00000596133,;MRPL9,upstream_gene_variant,,ENST00000467306,;MRPL9,upstream_gene_variant,,ENST00000461182,;MRPL9,upstream_gene_variant,,ENST00000486707,;MRPL9,upstream_gene_variant,,ENST00000462783,;MRPL9,upstream_gene_variant,,ENST00000481777,;MRPL9,upstream_gene_variant,,ENST00000478926,;OAZ3,downstream_gene_variant,,ENST00000577465,;TDRKH,downstream_gene_variant,,ENST00000525790,;	C	ENSG00000143450	ENST00000321531	Transcript	missense_variant	466	299	100	F/S	tTc/tCc	.	.	.	1	OAZ3	HGNC	8097	protein_coding	YES	CCDS58028.1	ENSP00000313922	OAZ3_HUMAN	.	UPI000180D463	.	deleterious(0)	probably_damaging(0.977)	4/6	.	Superfamily_domains:SSF55729,Pfam_domain:PF02100,hmmpanther:PTHR10279,hmmpanther:PTHR10279:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCTTCTTGG	.	2	BLCA
FLG	0	.	GRCh37	1	152277373	152277373	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9989G>C	p.Ser3330Thr	p.S3330T	ENST00000368799	3/3	566	469	96	731	731	0	FLG,missense_variant,p.Ser3330Thr,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;	G	ENSG00000143631	ENST00000368799	Transcript	missense_variant	10025	9989	3330	S/T	aGt/aCt	.	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	unknown(0)	3/3	.	Pfam_domain:PF03516	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTACTGTCT	.	5	BLCA
S100A7	0	.	GRCh37	1	153430437	153430437	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.151G>A	p.Gly51Ser	p.G51S	ENST00000368723	3/3	91	70	21	115	115	0	S100A7,missense_variant,p.Gly51Ser,ENST00000368723,;S100A7,missense_variant,p.Gly51Ser,ENST00000368722,;	T	ENSG00000143556	ENST00000368723	Transcript	missense_variant	262	151	51	G/S	Ggc/Agc	COSM3474450	.	.	-1	S100A7	HGNC	10497	protein_coding	YES	CCDS1039.1	ENSP00000357712	S10A7_HUMAN	.	UPI000013D90F	.	tolerated(0.14)	possibly_damaging(0.645)	3/3	.	PROSITE_profiles:PS50222,hmmpanther:PTHR11639,hmmpanther:PTHR11639:SF64,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTGCCCTTTT	.	5	BLCA
MUC1	0	.	GRCh37	1	155160660	155160660	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.867G>A	p.%3D	p.L289L	ENST00000368395	3/8	88	66	21	119	119	0	MUC1,missense_variant,p.Cys63Tyr,ENST00000368398,;MUC1,missense_variant,p.Cys63Tyr,ENST00000343256,;MUC1,synonymous_variant,p.%3D,ENST00000368393,;MUC1,synonymous_variant,p.%3D,ENST00000457295,;MUC1,synonymous_variant,p.%3D,ENST00000368389,;MUC1,synonymous_variant,p.%3D,ENST00000368390,;MUC1,synonymous_variant,p.%3D,ENST00000368396,;MUC1,synonymous_variant,p.%3D,ENST00000337604,;MUC1,synonymous_variant,p.%3D,ENST00000368392,;MUC1,synonymous_variant,p.%3D,ENST00000368395,;MUC1,intron_variant,,ENST00000438413,;MUC1,intron_variant,,ENST00000338684,;MUC1,intron_variant,,ENST00000342482,;TRIM46,downstream_gene_variant,,ENST00000368382,;THBS3,downstream_gene_variant,,ENST00000541576,;TRIM46,downstream_gene_variant,,ENST00000545012,;RP11-201K10.3,upstream_gene_variant,,ENST00000473363,;TRIM46,downstream_gene_variant,,ENST00000392451,;TRIM46,downstream_gene_variant,,ENST00000334634,;THBS3,downstream_gene_variant,,ENST00000368378,;THBS3,downstream_gene_variant,,ENST00000541990,;THBS3,downstream_gene_variant,,ENST00000457183,;MIR92B,upstream_gene_variant,,ENST00000607575,;MUC1,non_coding_transcript_exon_variant,,ENST00000462317,;MUC1,non_coding_transcript_exon_variant,,ENST00000498431,;MUC1,non_coding_transcript_exon_variant,,ENST00000462215,;MUC1,non_coding_transcript_exon_variant,,ENST00000471283,;MUC1,non_coding_transcript_exon_variant,,ENST00000467134,;MUC1,upstream_gene_variant,,ENST00000468978,;TRIM46,downstream_gene_variant,,ENST00000468878,;MUC1,downstream_gene_variant,,ENST00000466913,;MUC1,upstream_gene_variant,,ENST00000485118,;MUC1,downstream_gene_variant,,ENST00000494844,;THBS3,downstream_gene_variant,,ENST00000498500,;THBS3,downstream_gene_variant,,ENST00000469769,;	T	ENSG00000185499	ENST00000368395	Transcript	synonymous_variant	939	867	289	L	ctG/ctA	.	.	.	-1	MUC1	HGNC	7508	protein_coding	YES	CCDS55640.1	ENSP00000357380	.	Q9UMI8_HUMAN,Q7Z545_HUMAN,Q14877_HUMAN,B1AVQ5_HUMAN	UPI0000038A9F	.	.	.	3/8	.	PROSITE_profiles:PS50024,hmmpanther:PTHR10006,hmmpanther:PTHR10006:SF7,Gene3D:1ivzA00,Pfam_domain:PF01390,SMART_domains:SM00200,Superfamily_domains:0047452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGCAGCTC	.	5	BLCA
ETV3L	0	.	GRCh37	1	157068581	157068581	+	Missense_Mutation	SNP	G	G	A	rs762918639	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.403C>T	p.Arg135Trp	p.R135W	ENST00000454449	3/5	88	72	16	114	114	0	ETV3L,missense_variant,p.Arg135Trp,ENST00000454449,;	A	ENSG00000253831	ENST00000454449	Transcript	missense_variant	688	403	135	R/W	Cgg/Tgg	rs762918639,COSM897499,COSM1583494	.	.	-1	ETV3L	HGNC	33834	protein_coding	YES	CCDS30893.1	ENSP00000430271	ETV3L_HUMAN	.	UPI000035E7AE	.	tolerated(0.15)	benign(0.003)	3/5	.	hmmpanther:PTHR11849:SF163,hmmpanther:PTHR11849,Superfamily_domains:SSF46785	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGCCCGCACTT	byFrequency	5	BLCA
ATP1A2	0	.	GRCh37	1	160109736	160109736	+	Missense_Mutation	SNP	A	A	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2996A>G	p.Asp999Gly	p.D999G	ENST00000361216	22/23	158	129	28	182	182	0	ATP1A2,missense_variant,p.Asp999Gly,ENST00000361216,;ATP1A2,missense_variant,p.Asp988Gly,ENST00000392233,;ATP1A2,missense_variant,p.Asp693Gly,ENST00000447527,;ATP1A2,upstream_gene_variant,,ENST00000459972,;ATP1A2,non_coding_transcript_exon_variant,,ENST00000463989,;ATP1A2,downstream_gene_variant,,ENST00000472488,;	G	ENSG00000018625	ENST00000361216	Transcript	missense_variant	3085	2996	999	D/G	gAt/gGt	COSM3802466	.	.	1	ATP1A2	HGNC	800	protein_coding	YES	CCDS1196.1	ENSP00000354490	AT1A2_HUMAN	Q58I22_HUMAN	UPI0000124FC1	.	deleterious(0.03)	possibly_damaging(0.621)	22/23	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24093:SF229,hmmpanther:PTHR24093,TIGRFAM_domain:TIGR01106,Gene3D:1.20.1110.10,Pfam_domain:PF00689,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTATGATGAGG	.	5	BLCA
CD244	0	.	GRCh37	1	160808287	160808287	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.803T>C	p.Leu268Ser	p.L268S	ENST00000368033	5/9	115	92	23	130	130	0	CD244,missense_variant,p.Leu171Ser,ENST00000322302,;CD244,missense_variant,p.Leu263Ser,ENST00000368032,;CD244,missense_variant,p.Leu268Ser,ENST00000368033,;CD244,missense_variant,p.Leu263Ser,ENST00000368034,;CD244,non_coding_transcript_exon_variant,,ENST00000481677,;CD244,missense_variant,p.Leu263Ser,ENST00000492063,;	G	ENSG00000122223	ENST00000368033	Transcript	missense_variant	886	803	268	L/S	tTg/tCg	.	.	.	-1	CD244	HGNC	18171	protein_coding	YES	CCDS53399.1	ENSP00000357012	CD244_HUMAN	.	UPI0000367808	.	tolerated(0.06)	possibly_damaging(0.685)	5/9	.	hmmpanther:PTHR12080,hmmpanther:PTHR12080:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTCAAAAAT	.	5	BLCA
ADAMTS4	0	.	GRCh37	1	161167820	161167820	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.598C>T	p.Leu200Phe	p.L200F	ENST00000367996	1/9	51	48	3	59	59	0	ADAMTS4,missense_variant,p.Leu200Phe,ENST00000367996,;ADAMTS4,missense_variant,p.Leu200Phe,ENST00000367995,;NDUFS2,upstream_gene_variant,,ENST00000476409,;NDUFS2,upstream_gene_variant,,ENST00000392179,;NDUFS2,upstream_gene_variant,,ENST00000367993,;NDUFS2,intron_variant,,ENST00000496133,;NDUFS2,intron_variant,,ENST00000479948,;ADAMTS4,upstream_gene_variant,,ENST00000478394,;NDUFS2,upstream_gene_variant,,ENST00000475570,;NDUFS2,upstream_gene_variant,,ENST00000478866,;NDUFS2,upstream_gene_variant,,ENST00000496553,;NDUFS2,upstream_gene_variant,,ENST00000467295,;	A	ENSG00000158859	ENST00000367996	Transcript	missense_variant	1027	598	200	L/F	Ctt/Ttt	.	.	.	-1	ADAMTS4	HGNC	220	protein_coding	YES	CCDS1223.1	ENSP00000356975	ATS4_HUMAN	.	UPI000014194C	.	tolerated(0.3)	benign(0.036)	1/9	.	hmmpanther:PTHR13723:SF38,hmmpanther:PTHR13723	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCAAGAGGAG	.	2	BLCA
SDHB	0	.	GRCh37	1	17349116	17349116	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.752G>T	p.Arg251Met	p.R251M	ENST00000375499	7/8	112	84	27	191	191	0	SDHB,missense_variant,p.Arg251Met,ENST00000375499,;SDHB,non_coding_transcript_exon_variant,,ENST00000475049,;SDHB,non_coding_transcript_exon_variant,,ENST00000485092,;SDHB,non_coding_transcript_exon_variant,,ENST00000485515,;SDHB,downstream_gene_variant,,ENST00000491274,;	A	ENSG00000117118	ENST00000375499	Transcript	missense_variant	903	752	251	R/M	aGg/aTg	.	.	.	-1	SDHB	HGNC	10681	protein_coding	YES	CCDS176.1	ENSP00000364649	DHSB_HUMAN	Q70SX8_HUMAN,Q0QEY7_HUMAN	UPI0000129380	.	deleterious(0.01)	benign(0.061)	7/8	.	hmmpanther:PTHR11921:SF8,hmmpanther:PTHR11921,Gene3D:1.10.1060.10,Pfam_domain:PF13534,TIGRFAM_domain:TIGR00384,Superfamily_domains:SSF46548	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGTCCTTGTG	.	5	BLCA
BRINP2	0	.	GRCh37	1	177250038	177250038	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1726C>A	p.Leu576Ile	p.L576I	ENST00000361539	8/8	28	23	5	43	43	0	BRINP2,missense_variant,p.Leu576Ile,ENST00000361539,;BRINP2,non_coding_transcript_exon_variant,,ENST00000478325,;	A	ENSG00000198797	ENST00000361539	Transcript	missense_variant	2038	1726	576	L/I	Ctc/Atc	.	.	.	1	BRINP2	HGNC	13746	protein_coding	YES	CCDS1320.1	ENSP00000354481	BRNP2_HUMAN	.	UPI000006DF55	.	tolerated(0.08)	possibly_damaging(0.629)	8/8	.	hmmpanther:PTHR15564:SF5,hmmpanther:PTHR15564	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTGTCTCACC	.	2	BLCA
SEC16B	0	.	GRCh37	1	177911106	177911106	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1951G>A	p.Glu651Lys	p.E651K	ENST00000308284	16/26	63	55	8	84	84	0	SEC16B,missense_variant,p.Glu651Lys,ENST00000308284,;SEC16B,downstream_gene_variant,,ENST00000464631,;SEC16B,downstream_gene_variant,,ENST00000527976,;SEC16B,non_coding_transcript_exon_variant,,ENST00000327037,;RP4-798P15.3,non_coding_transcript_exon_variant,,ENST00000354921,;SEC16B,3_prime_UTR_variant,,ENST00000528461,;RP4-798P15.3,non_coding_transcript_exon_variant,,ENST00000466953,;RP4-798P15.3,non_coding_transcript_exon_variant,,ENST00000464428,;SEC16B,downstream_gene_variant,,ENST00000526773,;	T	ENSG00000120341	ENST00000308284	Transcript	missense_variant	2041	1951	651	E/K	Gaa/Aaa	COSM900098	.	.	-1	SEC16B	HGNC	30301	protein_coding	YES	CCDS44281.1	ENSP00000308339	SC16B_HUMAN	.	UPI0000203C4D	.	deleterious(0)	probably_damaging(1)	16/26	.	hmmpanther:PTHR13402:SF8,hmmpanther:PTHR13402,Pfam_domain:PF12931	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCTTCGCAGT	.	4	BLCA
TEX35	0	.	GRCh37	1	178482238	178482238	+	5'UTR	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-86C>T	.	.	ENST00000319416	1/9	31	28	3	17	17	0	TEX35,5_prime_UTR_variant,,ENST00000319416,;TEX35,5_prime_UTR_variant,,ENST00000258298,;TEX35,upstream_gene_variant,,ENST00000367642,;TEX35,upstream_gene_variant,,ENST00000367641,;TEX35,upstream_gene_variant,,ENST00000367643,;TEX35,upstream_gene_variant,,ENST00000367639,;TEX35,upstream_gene_variant,,ENST00000419909,;	T	ENSG00000240021	ENST00000319416	Transcript	5_prime_UTR_variant	27	.	.	.	.	.	.	.	1	TEX35	HGNC	25366	protein_coding	YES	CCDS1323.1	ENSP00000323795	TEX35_HUMAN	.	UPI00001405CF	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCCTCACCTT	.	2	BLCA
KIAA1614	0	.	GRCh37	1	180897531	180897531	+	Intron	DEL	T	T	-	rs199688850	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1062-35delT	.	.	ENST00000367588	.	295	244	51	327	327	0	KIAA1614,5_prime_UTR_variant,,ENST00000367587,;KIAA1614,intron_variant,,ENST00000367588,;KIAA1614,upstream_gene_variant,,ENST00000483705,;	-	ENSG00000135835	ENST00000367588	Transcript	intron_variant	.	.	.	.	.	rs199688850	.	.	1	KIAA1614	HGNC	29327	protein_coding	YES	CCDS41442.1	ENSP00000356560	K1614_HUMAN	.	UPI00001C1D75	.	.	.	.	3/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	AATCCCTCCCCC	byCluster	2	BLCA
CACNA1E	0	.	GRCh37	1	181721334	181721334	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3787C>G	p.Leu1263Val	p.L1263V	ENST00000367573	27/48	61	41	20	118	118	0	CACNA1E,missense_variant,p.Leu1195Val,ENST00000358338,;CACNA1E,missense_variant,p.Leu870Val,ENST00000367567,;CACNA1E,missense_variant,p.Leu1214Val,ENST00000357570,;CACNA1E,missense_variant,p.Leu1244Val,ENST00000360108,;CACNA1E,missense_variant,p.Leu1244Val,ENST00000526775,;CACNA1E,missense_variant,p.Leu1263Val,ENST00000367573,;CACNA1E,missense_variant,p.Leu1263Val,ENST00000367570,;	G	ENSG00000198216	ENST00000367573	Transcript	missense_variant	3787	3787	1263	L/V	Cta/Gta	.	.	.	1	CACNA1E	HGNC	1392	protein_coding	YES	CCDS55664.1	ENSP00000356545	CAC1E_HUMAN	Q9UN68_HUMAN,Q9NYZ6_HUMAN,Q9NY05_HUMAN,E9PIE8_HUMAN	UPI00004588C2	.	deleterious(0)	probably_damaging(0.92)	27/48	.	Superfamily_domains:SSF81324,Pfam_domain:PF00520,Gene3D:1.20.120.350,hmmpanther:PTHR10037:SF57,hmmpanther:PTHR10037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGTTCTAAGG	.	5	BLCA
DHX9	0	.	GRCh37	1	182827872	182827872	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.905A>G	p.Glu302Gly	p.E302G	ENST00000367549	10/28	105	97	7	126	126	0	DHX9,missense_variant,p.Glu302Gly,ENST00000367549,;DHX9,upstream_gene_variant,,ENST00000477802,;DHX9,downstream_gene_variant,,ENST00000479271,;DHX9,downstream_gene_variant,,ENST00000483416,;	G	ENSG00000135829	ENST00000367549	Transcript	missense_variant	1015	905	302	E/G	gAa/gGa	.	.	.	1	DHX9	HGNC	2750	protein_coding	YES	CCDS41444.1	ENSP00000356520	DHX9_HUMAN	.	UPI00001AEF15	.	tolerated(0.08)	benign(0.004)	10/28	.	hmmpanther:PTHR18934:SF84,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTGAAGATC	.	2	BLCA
RNF2	0	.	GRCh37	1	185069351	185069351	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.929C>T	p.Ser310Phe	p.S310F	ENST00000367510	7/7	112	93	19	103	103	0	RNF2,missense_variant,p.Ser238Phe,ENST00000367509,;RNF2,missense_variant,p.Ser310Phe,ENST00000367510,;RNF2,downstream_gene_variant,,ENST00000453650,;	T	ENSG00000121481	ENST00000367510	Transcript	missense_variant	1217	929	310	S/F	tCt/tTt	.	.	.	1	RNF2	HGNC	10061	protein_coding	YES	CCDS1365.1	ENSP00000356480	RING2_HUMAN	.	UPI000007131D	.	deleterious(0)	probably_damaging(0.999)	7/7	.	hmmpanther:PTHR10825:SF25,hmmpanther:PTHR10825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCTTTGG	.	5	BLCA
TAS1R2	0	.	GRCh37	1	19175909	19175909	+	Missense_Mutation	SNP	C	C	T	rs143077243	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1393G>A	p.Val465Ile	p.V465I	ENST00000375371	4/6	40	33	6	61	61	0	TAS1R2,missense_variant,p.Val465Ile,ENST00000375371,;RP13-279N23.2,3_prime_UTR_variant,,ENST00000494072,;	T	ENSG00000179002	ENST00000375371	Transcript	missense_variant	1415	1393	465	V/I	Gtc/Atc	rs143077243	.	.	-1	TAS1R2	HGNC	14905	protein_coding	YES	CCDS187.1	ENSP00000364520	TS1R2_HUMAN	.	UPI0000456168	.	tolerated(1)	benign(0.006)	4/6	.	hmmpanther:PTHR24061,hmmpanther:PTHR24061:SF3,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGACGCTCT	byCluster	5	BLCA
TAS1R2	0	.	GRCh37	1	19181066	19181066	+	Missense_Mutation	SNP	C	C	T	rs201197024	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.898G>A	p.Ala300Thr	p.A300T	ENST00000375371	3/6	22	19	3	31	31	0	TAS1R2,missense_variant,p.Ala300Thr,ENST00000375371,;RP13-279N23.2,3_prime_UTR_variant,,ENST00000494072,;	T	ENSG00000179002	ENST00000375371	Transcript	missense_variant	920	898	300	A/T	Gcc/Acc	rs201197024,COSM3984560	.	.	-1	TAS1R2	HGNC	14905	protein_coding	YES	CCDS187.1	ENSP00000364520	TS1R2_HUMAN	.	UPI0000456168	.	deleterious(0)	probably_damaging(0.998)	3/6	.	hmmpanther:PTHR24061,hmmpanther:PTHR24061:SF3,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822	T:0.0002	T:0	T:0.0014	.	T:0	T:0	T:0	.	.	uncertain_significance	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAGGCGATCC	byCluster|by1000G	4	BLCA
UCHL5	0	.	GRCh37	1	193029091	193029091	+	5'Flank	SNP	C	C	T	rs772044717	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000367455	.	37	31	5	46	46	0	UCHL5,missense_variant,p.Arg13Gln,ENST00000417752,;TROVE2,5_prime_UTR_variant,,ENST00000416058,;UCHL5,5_prime_UTR_variant,,ENST00000367452,;TROVE2,5_prime_UTR_variant,,ENST00000506303,;TROVE2,intron_variant,,ENST00000432079,;TROVE2,intron_variant,,ENST00000415442,;TROVE2,intron_variant,,ENST00000400968,;UCHL5,upstream_gene_variant,,ENST00000367448,;UCHL5,upstream_gene_variant,,ENST00000530098,;TROVE2,upstream_gene_variant,,ENST00000367445,;UCHL5,upstream_gene_variant,,ENST00000367450,;UCHL5,upstream_gene_variant,,ENST00000367454,;TROVE2,upstream_gene_variant,,ENST00000367444,;UCHL5,upstream_gene_variant,,ENST00000367451,;UCHL5,upstream_gene_variant,,ENST00000367449,;UCHL5,upstream_gene_variant,,ENST00000421683,;TROVE2,upstream_gene_variant,,ENST00000367443,;TROVE2,upstream_gene_variant,,ENST00000367446,;UCHL5,upstream_gene_variant,,ENST00000367455,;snoU109,upstream_gene_variant,,ENST00000458806,;TROVE2,intron_variant,,ENST00000460715,;UCHL5,upstream_gene_variant,,ENST00000483156,;TROVE2,non_coding_transcript_exon_variant,,ENST00000469214,;	T	ENSG00000116750	ENST00000367455	Transcript	upstream_gene_variant	.	.	.	.	.	rs772044717	.	465	-1	UCHL5	HGNC	19678	protein_coding	YES	CCDS1378.1	ENSP00000356425	UCHL5_HUMAN	.	UPI000013CF2A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATCGCGGT	.	4	BLCA
UBR4	0	.	GRCh37	1	19439088	19439088	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11731G>C	p.Asp3911His	p.D3911H	ENST00000375254	78/106	56	47	9	90	90	0	UBR4,missense_variant,p.Asp3911His,ENST00000375254,;UBR4,missense_variant,p.Asp3904His,ENST00000375217,;UBR4,missense_variant,p.Asp3911His,ENST00000375267,;UBR4,missense_variant,p.Asp3887His,ENST00000375226,;UBR4,3_prime_UTR_variant,,ENST00000375218,;UBR4,non_coding_transcript_exon_variant,,ENST00000466969,;UBR4,upstream_gene_variant,,ENST00000494503,;	G	ENSG00000127481	ENST00000375254	Transcript	missense_variant	11759	11731	3911	D/H	Gat/Cat	.	.	.	-1	UBR4	HGNC	30313	protein_coding	YES	CCDS189.1	ENSP00000364403	UBR4_HUMAN	Q96HY5_HUMAN	UPI000021276F	.	.	benign(0.352)	78/106	.	Superfamily_domains:SSF48371,hmmpanther:PTHR21725	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAATCAAAGA	.	5	BLCA
KCNT2	0	.	GRCh37	1	196309547	196309547	+	Missense_Mutation	SNP	C	C	G	rs758375133	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1707G>C	p.Gln569His	p.Q569H	ENST00000294725	16/28	94	90	4	103	103	0	KCNT2,missense_variant,p.Gln569His,ENST00000294725,;KCNT2,missense_variant,p.Gln569His,ENST00000367433,;KCNT2,missense_variant,p.Gln519His,ENST00000367431,;KCNT2,missense_variant,p.Gln519His,ENST00000609185,;KCNT2,missense_variant,p.Gln180His,ENST00000451324,;KCNT2,non_coding_transcript_exon_variant,,ENST00000498426,;KCNT2,non_coding_transcript_exon_variant,,ENST00000610076,;KCNT2,downstream_gene_variant,,ENST00000466914,;	G	ENSG00000162687	ENST00000294725	Transcript	missense_variant	2623	1707	569	Q/H	caG/caC	rs758375133,COSM531375	.	.	-1	KCNT2	HGNC	18866	protein_coding	YES	CCDS1384.1	ENSP00000294725	KCNT2_HUMAN	A9LNM6_HUMAN	UPI00001E0966	.	tolerated(0.21)	benign(0.001)	16/28	.	hmmpanther:PTHR10027,hmmpanther:PTHR10027:SF9	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCTCTGCTG	byFrequency	2	BLCA
ATP6V1G3	0	.	GRCh37	1	198505855	198505855	+	Intron	SNP	C	C	G	rs746161786	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.82+3844G>C	.	.	ENST00000281087	.	117	106	11	199	199	0	ATP6V1G3,splice_acceptor_variant,,ENST00000309309,;ATP6V1G3,intron_variant,,ENST00000367382,;ATP6V1G3,intron_variant,,ENST00000367381,;ATP6V1G3,intron_variant,,ENST00000281087,;ATP6V1G3,intron_variant,,ENST00000489986,;	G	ENSG00000151418	ENST00000281087	Transcript	intron_variant	.	.	.	.	.	rs746161786	.	.	-1	ATP6V1G3	HGNC	18265	protein_coding	YES	CCDS1395.1	ENSP00000281087	VATG3_HUMAN	.	UPI00001380C6	.	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGAACTTACA	.	4	BLCA
PPP1R12B	0	.	GRCh37	1	202418189	202418189	+	Silent	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1740C>G	p.%3D	p.L580L	ENST00000608999	13/24	61	56	5	43	43	0	PPP1R12B,synonymous_variant,p.%3D,ENST00000608999,;PPP1R12B,synonymous_variant,p.%3D,ENST00000336894,;PPP1R12B,non_coding_transcript_exon_variant,,ENST00000498070,;PPP1R12B,non_coding_transcript_exon_variant,,ENST00000434615,;	G	ENSG00000077157	ENST00000608999	Transcript	synonymous_variant	1893	1740	580	L	ctC/ctG	COSM1473266	.	.	1	PPP1R12B	HGNC	7619	protein_coding	YES	CCDS1426.1	ENSP00000476755	.	.	UPI0000458A57	.	.	.	13/24	.	hmmpanther:PTHR24179,hmmpanther:PTHR24179:SF18,PIRSF_domain:PIRSF038141	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGCTCTGTGT	.	2	BLCA
LRRN2	0	.	GRCh37	1	204588349	204588349	+	Nonsense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772G>T	p.Glu258Ter	p.E258*	ENST00000367175	1/1	55	43	12	61	61	0	LRRN2,stop_gained,p.Glu258Ter,ENST00000367177,;LRRN2,stop_gained,p.Glu258Ter,ENST00000367176,;LRRN2,stop_gained,p.Glu258Ter,ENST00000367175,;RP11-430C7.4,downstream_gene_variant,,ENST00000453895,;LRRN2,downstream_gene_variant,,ENST00000496057,;	A	ENSG00000170382	ENST00000367175	Transcript	stop_gained	2985	772	258	E/*	Gaa/Taa	COSM3482019	.	.	-1	LRRN2	HGNC	16914	protein_coding	YES	CCDS1448.1	ENSP00000356143	LRRN2_HUMAN	B3KM66_HUMAN	UPI000013E8AC	.	.	.	1/1	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24373,hmmpanther:PTHR24373:SF9,Gene3D:3.80.10.10,SMART_domains:SM00369,SMART_domains:SM00365,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L257L|c.769C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTCCAGTG	.	5	BLCA
DYRK3	0	.	GRCh37	1	206821938	206821938	+	Frame_Shift_Del	DEL	G	G	-	rs781995280	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1400delG	p.Gly467ValfsTer21	p.G467Vfs*21	ENST00000367109	3/3	239	199	40	271	271	0	DYRK3,frameshift_variant,p.Gly447ValfsTer21,ENST00000367106,;DYRK3,frameshift_variant,p.Gly447ValfsTer21,ENST00000367108,;DYRK3,frameshift_variant,p.Gly467ValfsTer21,ENST00000367109,;DYRK3,downstream_gene_variant,,ENST00000441486,;DYRK3,intron_variant,,ENST00000489878,;	-	ENSG00000143479	ENST00000367109	Transcript	frameshift_variant	1563	1395	465	V/X	gtG/gt	rs781995280,COSM1338310,COSM1338309	.	.	1	DYRK3	HGNC	3094	protein_coding	YES	CCDS30999.1	ENSP00000356076	DYRK3_HUMAN	.	UPI0000071267	.	.	.	3/3	.	Low_complexity_(Seg):seg,PROSITE_profiles:PS50011,hmmpanther:PTHR24058:SF35,hmmpanther:PTHR24058,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	-:0.0002	-:0.0007	.	0,1,1	.	.	.	.	.	HIGH	.	deletion	.	5	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCTTGTGGGGGG	.	3	BLCA
CAMK1G	0	.	GRCh37	1	209783233	209783233	+	Silent	SNP	G	G	C	rs56379151	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.786G>C	p.%3D	p.P262P	ENST00000009105	9/13	64	54	10	77	77	0	CAMK1G,missense_variant,p.Arg237Pro,ENST00000423146,;CAMK1G,synonymous_variant,p.%3D,ENST00000361322,;CAMK1G,synonymous_variant,p.%3D,ENST00000009105,;LAMB3,downstream_gene_variant,,ENST00000356082,;LAMB3,downstream_gene_variant,,ENST00000391911,;CAMK1G,non_coding_transcript_exon_variant,,ENST00000494990,;	C	ENSG00000008118	ENST00000009105	Transcript	synonymous_variant	1031	786	262	P	ccG/ccC	rs56379151	.	.	1	CAMK1G	HGNC	14585	protein_coding	YES	CCDS1486.1	ENSP00000009105	KCC1G_HUMAN	.	UPI0000049BF8	.	.	.	9/13	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR24347:SF114,hmmpanther:PTHR24347,PROSITE_profiles:PS50011	A:0.0018	A:0.0061	A:0	.	A:0	A:0.001	A:0	A:0.0066	A:0.0006	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GATCCGAACGA	byFrequency|byCluster|by1000G	5	BLCA
HSD11B1	0	.	GRCh37	1	209905860	209905860	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597G>A	p.%3D	p.K199K	ENST00000367028	6/7	162	154	8	179	179	0	HSD11B1,synonymous_variant,p.%3D,ENST00000367027,;HSD11B1,synonymous_variant,p.%3D,ENST00000261465,;HSD11B1,synonymous_variant,p.%3D,ENST00000367028,;	A	ENSG00000117594	ENST00000367028	Transcript	synonymous_variant	766	597	199	K	aaG/aaA	.	.	.	1	HSD11B1	HGNC	5208	protein_coding	YES	CCDS1489.1	ENSP00000355995	DHI1_HUMAN	.	UPI000004C796	.	.	.	6/7	.	hmmpanther:PTHR24322:SF249,hmmpanther:PTHR24322,Pfam_domain:PF00106,Gene3D:3.40.50.720,Superfamily_domains:SSF51735,Prints_domain:PR00081	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAAAGGAATA	.	2	BLCA
HP1BP3	0	.	GRCh37	1	21100060	21100060	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.394delA	p.Thr132GlnfsTer13	p.T132Qfs*13	ENST00000312239	5/13	22	14	8	21	21	0	HP1BP3,frameshift_variant,p.Thr94GlnfsTer13,ENST00000424732,;HP1BP3,frameshift_variant,p.Thr18GlnfsTer13,ENST00000419948,;HP1BP3,frameshift_variant,p.Thr132GlnfsTer13,ENST00000312239,;HP1BP3,frameshift_variant,p.Thr132GlnfsTer13,ENST00000438032,;HP1BP3,5_prime_UTR_variant,,ENST00000375003,;HP1BP3,downstream_gene_variant,,ENST00000375000,;HP1BP3,downstream_gene_variant,,ENST00000414993,;HP1BP3,downstream_gene_variant,,ENST00000417710,;HP1BP3,downstream_gene_variant,,ENST00000419490,;HP1BP3,downstream_gene_variant,,ENST00000437575,;HP1BP3,downstream_gene_variant,,ENST00000487117,;	-	ENSG00000127483	ENST00000312239	Transcript	frameshift_variant	534	394	132	T/X	Aca/ca	.	.	.	-1	HP1BP3	HGNC	24973	protein_coding	YES	CCDS30621.1	ENSP00000312625	HP1B3_HUMAN	Q5SWC8_HUMAN,B4E0N8_HUMAN,B0QZK9_HUMAN,B0QZK8_HUMAN,B0QZK6_HUMAN,B0QZK5_HUMAN	UPI0000036038	.	.	.	5/13	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15832:SF1,hmmpanther:PTHR15832	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	GAATTGTTTTTT	.	2	BLCA
USH2A	0	.	GRCh37	1	216017670	216017670	+	Missense_Mutation	SNP	C	C	G	rs770809696	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9224G>C	p.Arg3075Thr	p.R3075T	ENST00000307340	46/72	59	49	10	65	65	0	USH2A,missense_variant,p.Arg3075Thr,ENST00000366943,;USH2A,missense_variant,p.Arg3075Thr,ENST00000307340,;	G	ENSG00000042781	ENST00000307340	Transcript	missense_variant	9611	9224	3075	R/T	aGa/aCa	rs770809696	.	.	-1	USH2A	HGNC	12601	protein_coding	YES	CCDS31025.1	ENSP00000305941	USH2A_HUMAN	.	UPI000034E5B6	.	.	benign(0.007)	46/72	.	Superfamily_domains:SSF49265,SMART_domains:SM00060,Gene3D:2.60.40.10,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF170,PROSITE_profiles:PS50853	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTCTCAGA	.	5	BLCA
NBPF3	0	.	GRCh37	1	21798100	21798100	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.485T>C	p.Leu162Pro	p.L162P	ENST00000318249	5/15	246	228	18	323	323	0	NBPF3,missense_variant,p.Leu106Pro,ENST00000434838,;NBPF3,missense_variant,p.Leu162Pro,ENST00000318249,;NBPF3,missense_variant,p.Leu106Pro,ENST00000318220,;NBPF3,missense_variant,p.Leu92Pro,ENST00000454000,;NBPF3,missense_variant,p.Leu162Pro,ENST00000342104,;NBPF3,downstream_gene_variant,,ENST00000486229,;NBPF3,upstream_gene_variant,,ENST00000477050,;NBPF3,upstream_gene_variant,,ENST00000469876,;	C	ENSG00000142794	ENST00000318249	Transcript	missense_variant	835	485	162	L/P	cTg/cCg	.	.	.	1	NBPF3	HGNC	25076	protein_coding	YES	CCDS216.1	ENSP00000316782	NBPF3_HUMAN	.	UPI0000037D6C	.	deleterious(0)	possibly_damaging(0.902)	5/15	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR14199:SF15,hmmpanther:PTHR14199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAGCTGACCC	.	2	BLCA
HSPG2	0	.	GRCh37	1	22178603	22178603	+	Frame_Shift_Del	DEL	C	C	-	rs111507574	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6848delG	p.Gly2283AlafsTer43	p.G2283Afs*43	ENST00000374695	53/97	46	41	5	66	66	0	HSPG2,frameshift_variant,p.Gly2283AlafsTer43,ENST00000374695,;HSPG2,3_prime_UTR_variant,,ENST00000430507,;HSPG2,upstream_gene_variant,,ENST00000453796,;HSPG2,intron_variant,,ENST00000493940,;	-	ENSG00000142798	ENST00000374695	Transcript	frameshift_variant	6928	6848	2283	G/X	gGc/gc	rs111507574	.	.	-1	HSPG2	HGNC	5273	protein_coding	YES	CCDS30625.1	ENSP00000363827	PGBM_HUMAN	B6EU51_HUMAN	UPI0000212778	.	.	.	53/97	.	PROSITE_profiles:PS50835,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF252,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00408,SMART_domains:SM00409,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	AGGCTGCCCCCA	.	2	BLCA
HSPG2	0	.	GRCh37	1	22186673	22186673	+	Missense_Mutation	SNP	C	C	G	rs756266356	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5011G>C	p.Glu1671Gln	p.E1671Q	ENST00000374695	40/97	26	20	6	45	45	0	HSPG2,missense_variant,p.Glu1671Gln,ENST00000374695,;HSPG2,upstream_gene_variant,,ENST00000430507,;	G	ENSG00000142798	ENST00000374695	Transcript	missense_variant	5091	5011	1671	E/Q	Gag/Cag	rs756266356	.	.	-1	HSPG2	HGNC	5273	protein_coding	YES	CCDS30625.1	ENSP00000363827	PGBM_HUMAN	B6EU51_HUMAN	UPI0000212778	.	.	benign(0.001)	40/97	.	hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF252	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTCTCTGGCA	.	5	BLCA
H3F3A	0	.	GRCh37	1	226253371	226253371	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.143C>T	p.Ala48Val	p.A48V	ENST00000366813	2/3	64	57	7	75	75	0	H3F3A,missense_variant,p.Ala48Val,ENST00000366813,;H3F3A,missense_variant,p.Ala48Val,ENST00000366814,;H3F3A,missense_variant,p.Ala48Val,ENST00000366816,;H3F3A,missense_variant,p.Ala48Val,ENST00000366815,;RP11-396C23.4,upstream_gene_variant,,ENST00000609423,;	T	ENSG00000163041	ENST00000366813	Transcript	missense_variant	518	143	48	A/V	gCg/gTg	COSM4028694	.	.	1	H3F3A	HGNC	4764	protein_coding	YES	CCDS1550.1	ENSP00000355778	H33_HUMAN	K7EK07_HUMAN,B4E380_HUMAN,B2R4P9_HUMAN	UPI00000007B0	.	deleterious_low_confidence(0.01)	possibly_damaging(0.561)	2/3	.	hmmpanther:PTHR11426,Gene3D:1.10.20.10,SMART_domains:SM00428,Superfamily_domains:SSF47113,Prints_domain:PR00622	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGGCGCTCC	.	4	BLCA
PARP1	0	.	GRCh37	1	226576366	226576366	+	Frame_Shift_Del	DEL	T	T	-	rs766451406	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.708delA	p.Ala237ProfsTer2	p.A237Pfs*2	ENST00000366794	5/23	78	69	9	71	71	0	PARP1,frameshift_variant,p.Ala237ProfsTer2,ENST00000366794,;PARP1,downstream_gene_variant,,ENST00000366792,;PARP1,downstream_gene_variant,,ENST00000366791,;PARP1,downstream_gene_variant,,ENST00000469663,;	-	ENSG00000143799	ENST00000366794	Transcript	frameshift_variant	852	708	236	K/X	aaA/aa	rs766451406	.	.	-1	PARP1	HGNC	270	protein_coding	YES	CCDS1554.1	ENSP00000355759	PARP1_HUMAN	Q96P95_HUMAN	UPI000013D92D	.	.	.	5/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15447:SF13,hmmpanther:PTHR15447,PIRSF_domain:PIRSF000489	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TAGGGCTTTTTC	byFrequency	3	BLCA
KCNK1	0	.	GRCh37	1	233807150	233807150	+	Missense_Mutation	SNP	G	G	T	rs747965353	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.885G>T	p.Glu295Asp	p.E295D	ENST00000366621	3/3	47	43	4	61	61	0	KCNK1,missense_variant,p.Glu295Asp,ENST00000366621,;KCNK1,missense_variant,p.Glu179Asp,ENST00000366620,;KCNK1,missense_variant,p.Glu213Asp,ENST00000446915,;KCNK1,non_coding_transcript_exon_variant,,ENST00000472190,;KCNK1,downstream_gene_variant,,ENST00000472869,;KCNK1,downstream_gene_variant,,ENST00000487728,;	T	ENSG00000135750	ENST00000366621	Transcript	missense_variant	1053	885	295	E/D	gaG/gaT	rs747965353	.	.	1	KCNK1	HGNC	6272	protein_coding	YES	CCDS1599.1	ENSP00000355580	KCNK1_HUMAN	.	UPI0000127A50	.	tolerated(0.53)	benign(0.022)	3/3	.	Prints_domain:PR01096,PIRSF_domain:PIRSF038061,hmmpanther:PTHR11003,hmmpanther:PTHR11003:SF59	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	ATAGAGCATGA	byFrequency	2	BLCA
TARBP1	0	.	GRCh37	1	234565225	234565225	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2808C>T	p.%3D	p.L936L	ENST00000040877	16/30	115	97	17	121	121	0	TARBP1,synonymous_variant,p.%3D,ENST00000040877,;	A	ENSG00000059588	ENST00000040877	Transcript	synonymous_variant	2808	2808	936	L	ctC/ctT	.	.	.	-1	TARBP1	HGNC	11568	protein_coding	YES	CCDS1601.1	ENSP00000040877	TARB1_HUMAN	.	UPI000006DB0F	.	.	.	16/30	.	PROSITE_profiles:PS51624,hmmpanther:PTHR12029,hmmpanther:PTHR12029:SF11,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACTGTGAGGGC	.	5	BLCA
RBM34	0	.	GRCh37	1	235324624	235324624	+	5'UTR	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-83G>T	.	.	ENST00000408888	1/11	30	26	4	19	19	0	RBM34,5_prime_UTR_variant,,ENST00000408888,;RBM34,upstream_gene_variant,,ENST00000447801,;RBM34,upstream_gene_variant,,ENST00000366606,;RBM34,upstream_gene_variant,,ENST00000429912,;RBM34,upstream_gene_variant,,ENST00000485019,;ARID4B,missense_variant,p.Gly671Cys,ENST00000474953,;RBM34,upstream_gene_variant,,ENST00000476261,;RBM34,upstream_gene_variant,,ENST00000474086,;RBM34,upstream_gene_variant,,ENST00000486751,;RBM34,upstream_gene_variant,,ENST00000468751,;RBM34,upstream_gene_variant,,ENST00000475960,;	A	ENSG00000188739	ENST00000408888	Transcript	5_prime_UTR_variant	149	.	.	.	.	.	.	.	-1	RBM34	HGNC	28965	protein_coding	YES	CCDS41477.2	ENSP00000386226	RBM34_HUMAN	.	UPI00001D7E4C	.	.	.	1/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACGCCCCCTC	.	2	BLCA
TCEB3	0	.	GRCh37	1	24077835	24077835	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.818C>G	p.Ser273Cys	p.S273C	ENST00000418390	4/11	67	59	7	75	75	0	TCEB3,missense_variant,p.Ser273Cys,ENST00000418390,;TCEB3,missense_variant,p.Ser247Cys,ENST00000609199,;TCEB3,downstream_gene_variant,,ENST00000487554,;	G	ENSG00000011007	ENST00000418390	Transcript	missense_variant	1089	818	273	S/C	tCt/tGt	.	.	.	1	TCEB3	HGNC	11620	protein_coding	YES	CCDS239.2	ENSP00000395574	ELOA1_HUMAN	.	UPI000181BA17	.	deleterious(0.01)	possibly_damaging(0.907)	4/11	.	hmmpanther:PTHR15141:SF37,hmmpanther:PTHR15141	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAATCTTCCC	.	4	BLCA
SMYD3	0	.	GRCh37	1	246490502	246490503	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.531dupA	p.Val178SerfsTer10	p.V178Sfs*10	ENST00000388985	.	108	84	24	108	108	0	SMYD3,frameshift_variant,p.Val178SerfsTer10,ENST00000388985,;SMYD3,frameshift_variant,p.Val119SerfsTer10,ENST00000453676,;SMYD3,frameshift_variant,p.Val119SerfsTer10,ENST00000541742,;SMYD3,frameshift_variant,p.Val119SerfsTer10,ENST00000490107,;SMYD3,frameshift_variant,p.Pro178ThrfsTer10,ENST00000403792,;SMYD3,downstream_gene_variant,,ENST00000455277,;SMYD3-IT1,upstream_gene_variant,,ENST00000426929,;SMYD3,splice_region_variant,,ENST00000462422,;SMYD3,non_coding_transcript_exon_variant,,ENST00000470863,;	T	ENSG00000185420	ENST00000388985	Transcript	frameshift_variant	531-532	531-532	177-178	-/X	-/A	.	.	.	-1	SMYD3	HGNC	15513	protein_coding	YES	CCDS53486.1	ENSP00000373637	SMYD3_HUMAN	B3KN46_HUMAN,B0QZA0_HUMAN,B0QZ99_HUMAN,A8MXR1_HUMAN	UPI000022AFDA	.	.	.	.	.	PROSITE_profiles:PS50280,PROSITE_profiles:PS51574,hmmpanther:PTHR12197:SF146,hmmpanther:PTHR12197,Pfam_domain:PF00856,SMART_domains:SM00317,Superfamily_domains:SSF82199	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACTTACTTTTG	.	3	BLCA
ZMYM4	0	.	GRCh37	1	35873689	35873689	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3877G>C	p.Glu1293Gln	p.E1293Q	ENST00000314607	26/30	156	148	7	200	200	0	ZMYM4,missense_variant,p.Glu952Gln,ENST00000457946,;ZMYM4,missense_variant,p.Glu1204Gln,ENST00000373297,;ZMYM4,missense_variant,p.Glu1293Gln,ENST00000314607,;ZMYM4,downstream_gene_variant,,ENST00000492456,;	C	ENSG00000146463	ENST00000314607	Transcript	missense_variant	3957	3877	1293	E/Q	Gag/Cag	.	.	.	1	ZMYM4	HGNC	13055	protein_coding	YES	CCDS389.1	ENSP00000322915	ZMYM4_HUMAN	.	UPI0000203EE6	.	deleterious(0)	probably_damaging(0.994)	26/30	.	hmmpanther:PTHR11697:SF87,hmmpanther:PTHR11697	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCAAGAGGTG	.	2	BLCA
COL8A2	0	.	GRCh37	1	36563218	36563218	+	Silent	SNP	C	C	T	rs374239481	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2064G>A	p.%3D	p.T688T	ENST00000397799	4/4	52	40	12	38	38	0	COL8A2,synonymous_variant,p.%3D,ENST00000303143,;COL8A2,synonymous_variant,p.%3D,ENST00000481785,;COL8A2,synonymous_variant,p.%3D,ENST00000397799,;ADPRHL2,downstream_gene_variant,,ENST00000373178,;	T	ENSG00000171812	ENST00000397799	Transcript	synonymous_variant	2289	2064	688	T	acG/acA	rs374239481,COSM1238574	.	.	-1	COL8A2	HGNC	2216	protein_coding	YES	CCDS403.1	ENSP00000380901	CO8A2_HUMAN	R9UH34_HUMAN,Q4VAQ1_HUMAN,E9PP49_HUMAN	UPI00001B2F2D	.	.	.	4/4	.	PROSITE_profiles:PS50871,hmmpanther:PTHR24022:SF74,hmmpanther:PTHR24022,Gene3D:2.60.120.40,Pfam_domain:PF00386,SMART_domains:SM00110,Superfamily_domains:SSF49842	.	.	.	.	.	.	.	T:0	T:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACTCCGTGGA	byFrequency|byCluster	5	BLCA
THRAP3	0	.	GRCh37	1	36762331	36762332	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2269dupA	p.Thr757AsnfsTer6	p.T757Nfs*6	ENST00000354618	9/12	59	50	9	93	93	0	THRAP3,frameshift_variant,p.Thr757AsnfsTer6,ENST00000354618,;THRAP3,frameshift_variant,p.Thr757AsnfsTer6,ENST00000469141,;THRAP3,downstream_gene_variant,,ENST00000466743,;	A	ENSG00000054118	ENST00000354618	Transcript	frameshift_variant	2487-2488	2263-2264	755	E/EX	gaa/gAaa	.	.	.	1	THRAP3	HGNC	22964	protein_coding	YES	CCDS405.1	ENSP00000346634	TR150_HUMAN	E9PML1_HUMAN	UPI0000203F28	.	.	.	9/12	.	Pfam_domain:PF15440,hmmpanther:PTHR15268:SF16,hmmpanther:PTHR15268,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CAGCTGAAAAA	.	3	BLCA
KLF17	0	.	GRCh37	1	44596230	44596230	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.972C>A	p.Phe324Leu	p.F324L	ENST00000372299	3/4	108	86	21	129	129	0	KLF17,missense_variant,p.Phe324Leu,ENST00000372299,;KLF17,non_coding_transcript_exon_variant,,ENST00000476802,;	A	ENSG00000171872	ENST00000372299	Transcript	missense_variant	1030	972	324	F/L	ttC/ttA	.	.	.	1	KLF17	HGNC	18830	protein_coding	YES	CCDS508.1	ENSP00000361373	KLF17_HUMAN	.	UPI000013E95E	.	deleterious(0)	probably_damaging(0.997)	3/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF5,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTCTTCCG	.	5	BLCA
RNF220	0	.	GRCh37	1	44878032	44878033	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.269dupC	p.Ser91PhefsTer25	p.S91Ffs*25	ENST00000355387	2/15	358	293	65	415	415	0	RNF220,frameshift_variant,p.Ser91PhefsTer25,ENST00000372247,;RNF220,frameshift_variant,p.Ser91PhefsTer25,ENST00000361799,;RNF220,frameshift_variant,p.Ser91PhefsTer25,ENST00000355387,;RNF220,upstream_gene_variant,,ENST00000470498,;RNF220,downstream_gene_variant,,ENST00000487332,;	C	ENSG00000187147	ENST00000355387	Transcript	frameshift_variant	713-714	263-264	88	F/FX	ttc/ttCc	.	.	.	1	RNF220	HGNC	25552	protein_coding	YES	CCDS510.1	ENSP00000347548	RN220_HUMAN	D3DPZ1_HUMAN	UPI000035895E	.	.	.	2/15	.	hmmpanther:PTHR13459	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	TGATTTCCCCC	.	2	BLCA
PLK3	0	.	GRCh37	1	45271311	45271311	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1902C>A	p.%3D	p.R634R	ENST00000372201	15/15	69	63	6	87	87	0	PLK3,synonymous_variant,p.%3D,ENST00000372201,;BTBD19,upstream_gene_variant,,ENST00000450269,;TCTEX1D4,downstream_gene_variant,,ENST00000372200,;BTBD19,upstream_gene_variant,,ENST00000409335,;BTBD19,upstream_gene_variant,,ENST00000453418,;TCTEX1D4,downstream_gene_variant,,ENST00000339355,;PLK3,non_coding_transcript_exon_variant,,ENST00000492398,;PLK3,non_coding_transcript_exon_variant,,ENST00000465443,;PLK3,downstream_gene_variant,,ENST00000476731,;PLK3,downstream_gene_variant,,ENST00000493100,;PLK3,downstream_gene_variant,,ENST00000461769,;PLK3,downstream_gene_variant,,ENST00000461358,;BTBD19,upstream_gene_variant,,ENST00000485668,;BTBD19,upstream_gene_variant,,ENST00000439563,;BTBD19,upstream_gene_variant,,ENST00000482715,;	A	ENSG00000173846	ENST00000372201	Transcript	synonymous_variant	2141	1902	634	R	cgC/cgA	.	.	.	1	PLK3	HGNC	2154	protein_coding	YES	CCDS515.1	ENSP00000361275	PLK3_HUMAN	.	UPI000013ED1D	.	.	.	15/15	.	Low_complexity_(Seg):seg,Superfamily_domains:SSF82615,Pfam_domain:PF00659,Gene3D:3.30.1120.30,hmmpanther:PTHR24345:SF42,hmmpanther:PTHR24345,PROSITE_profiles:PS50078	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CTCCGCTATGC	.	3	BLCA
PTCH2	0	.	GRCh37	1	45292664	45292664	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2605delC	p.Leu869TrpfsTer124	p.L869Wfs*124	ENST00000372192	17/22	243	213	30	289	289	0	PTCH2,frameshift_variant,p.Leu869TrpfsTer124,ENST00000447098,;PTCH2,frameshift_variant,p.Leu869TrpfsTer124,ENST00000372192,;PTCH2,upstream_gene_variant,,ENST00000438067,;	-	ENSG00000117425	ENST00000372192	Transcript	frameshift_variant	2736	2605	869	L/X	Ctg/tg	.	.	.	-1	PTCH2	HGNC	9586	protein_coding	YES	CCDS516.1	ENSP00000361266	PTC2_HUMAN	.	UPI00001328B8	.	.	.	17/22	.	TIGRFAM_domain:TIGR00918,hmmpanther:PTHR10796,hmmpanther:PTHR10796:SF62	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GACCCAGGGGGT	.	3	BLCA
TESK2	0	.	GRCh37	1	45810775	45810775	+	Missense_Mutation	SNP	G	G	A	rs754978881	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1453C>T	p.Arg485Cys	p.R485C	ENST00000372086	11/11	131	112	19	177	176	0	TESK2,missense_variant,p.Arg456Cys,ENST00000341771,;TESK2,missense_variant,p.Arg485Cys,ENST00000372086,;TESK2,missense_variant,p.Arg402Cys,ENST00000538496,;TESK2,missense_variant,p.Arg456Cys,ENST00000372084,;MUTYH,upstream_gene_variant,,ENST00000372098,;TOE1,downstream_gene_variant,,ENST00000372090,;MUTYH,upstream_gene_variant,,ENST00000412971,;MUTYH,upstream_gene_variant,,ENST00000531105,;MUTYH,upstream_gene_variant,,ENST00000355498,;MUTYH,upstream_gene_variant,,ENST00000372110,;MUTYH,upstream_gene_variant,,ENST00000372100,;MUTYH,upstream_gene_variant,,ENST00000450313,;MUTYH,upstream_gene_variant,,ENST00000529984,;MUTYH,upstream_gene_variant,,ENST00000372115,;TOE1,downstream_gene_variant,,ENST00000539779,;MUTYH,upstream_gene_variant,,ENST00000528332,;TESK2,non_coding_transcript_exon_variant,,ENST00000486676,;TOE1,downstream_gene_variant,,ENST00000460057,;TOE1,downstream_gene_variant,,ENST00000495703,;TOE1,downstream_gene_variant,,ENST00000477731,;TOE1,downstream_gene_variant,,ENST00000471337,;MUTYH,upstream_gene_variant,,ENST00000525160,;MUTYH,upstream_gene_variant,,ENST00000467940,;MUTYH,upstream_gene_variant,,ENST00000481571,;MUTYH,upstream_gene_variant,,ENST00000534453,;MUTYH,upstream_gene_variant,,ENST00000476789,;MUTYH,upstream_gene_variant,,ENST00000461495,;MUTYH,upstream_gene_variant,,ENST00000462387,;MUTYH,upstream_gene_variant,,ENST00000481139,;MUTYH,upstream_gene_variant,,ENST00000483642,;	A	ENSG00000070759	ENST00000372086	Transcript	missense_variant	1854	1453	485	R/C	Cgc/Tgc	rs754978881	.	.	-1	TESK2	HGNC	11732	protein_coding	YES	CCDS41323.1	ENSP00000361158	TESK2_HUMAN	F5GWP9_HUMAN,D3DPZ7_HUMAN	UPI000004073A	.	tolerated_low_confidence(0.06)	possibly_damaging(0.776)	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGGCGTGGTG	.	4	BLCA
ZCCHC11	0	.	GRCh37	1	52889675	52889675	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4871-1G>A	.	p.X1624_splice	ENST00000257177	.	20	16	4	20	20	0	ZCCHC11,splice_acceptor_variant,,ENST00000494469,;ZCCHC11,splice_acceptor_variant,,ENST00000257177,;ZCCHC11,splice_acceptor_variant,,ENST00000371544,;ZCCHC11,intron_variant,,ENST00000471623,;ZCCHC11,intron_variant,,ENST00000528457,;PRPF38A,downstream_gene_variant,,ENST00000257181,;ZCCHC11,splice_acceptor_variant,,ENST00000527941,;ZCCHC11,non_coding_transcript_exon_variant,,ENST00000466440,;	T	ENSG00000134744	ENST00000257177	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	ZCCHC11	HGNC	28981	protein_coding	YES	CCDS30715.1	ENSP00000257177	TUT4_HUMAN	H0YEY0_HUMAN,E9PQS7_HUMAN,E9PJN7_HUMAN	UPI00001D7D0C	.	.	.	.	29/29	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCTGTCTGTTG	.	3	BLCA
KANK4	0	.	GRCh37	1	62713245	62713245	+	Missense_Mutation	SNP	C	C	A	rs770081998	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2782G>T	p.Asp928Tyr	p.D928Y	ENST00000371153	9/10	72	60	12	62	62	0	KANK4,missense_variant,p.Asp284Tyr,ENST00000371150,;KANK4,missense_variant,p.Asp300Tyr,ENST00000354381,;KANK4,missense_variant,p.Asp928Tyr,ENST00000371153,;KANK4,missense_variant,p.Asp66Tyr,ENST00000317477,;	A	ENSG00000132854	ENST00000371153	Transcript	missense_variant	3161	2782	928	D/Y	Gat/Tat	rs770081998,COSM3491585	.	.	-1	KANK4	HGNC	27263	protein_coding	YES	CCDS620.1	ENSP00000360195	KANK4_HUMAN	B1ALP6_HUMAN,B1ALP5_HUMAN	UPI000022AE73	.	deleterious(0.01)	benign(0.414)	9/10	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24168,hmmpanther:PTHR24168:SF20,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.H927H|c.2781C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCATCGTGGT	.	5	BLCA
JAK1	0	.	GRCh37	1	65301159	65301159	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3289G>T	p.Gly1097Cys	p.G1097C	ENST00000342505	24/25	108	87	20	122	122	0	JAK1,missense_variant,p.Gly1097Cys,ENST00000342505,;RAVER2,downstream_gene_variant,,ENST00000294428,;RAVER2,downstream_gene_variant,,ENST00000430964,;RAVER2,downstream_gene_variant,,ENST00000371072,;JAK1,downstream_gene_variant,,ENST00000481702,;	A	ENSG00000162434	ENST00000342505	Transcript	missense_variant	3538	3289	1097	G/C	Ggc/Tgc	.	.	.	-1	JAK1	HGNC	6190	protein_coding	YES	CCDS41346.1	ENSP00000343204	JAK1_HUMAN	.	UPI0000054C7D	.	deleterious(0)	probably_damaging(1)	24/25	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF67,Gene3D:1.10.510.10,Pfam_domain:PF07714,PIRSF_domain:PIRSF000636,SMART_domains:SM00219,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGCCATGGG	.	5	BLCA
ST6GALNAC3	0	.	GRCh37	1	77094396	77094396	+	Frame_Shift_Del	DEL	G	G	-	rs199754738	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.827delG	p.Gly276ValfsTer20	p.G276Vfs*20	ENST00000328299	5/5	86	75	11	64	64	0	ST6GALNAC3,frameshift_variant,p.Gly276ValfsTer20,ENST00000328299,;	-	ENSG00000184005	ENST00000328299	Transcript	frameshift_variant	971	823	275	G/X	Ggg/gg	rs199754738,COSM3361003	.	.	1	ST6GALNAC3	HGNC	19343	protein_coding	YES	CCDS672.1	ENSP00000329214	SIA7C_HUMAN	.	UPI000006F75A	.	.	.	5/5	.	hmmpanther:PTHR13713,hmmpanther:PTHR13713:SF49,Pfam_domain:PF00777	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	0,1	.	.	.	.	.	HIGH	.	deletion	.	4	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	CCATATGGGGGT	byCluster|by1000G	2	BLCA
ELTD1	0	.	GRCh37	1	79385987	79385988	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1341dupT	p.Thr448TyrfsTer7	p.T448Yfs*7	ENST00000370742	10/15	120	100	20	107	107	0	ELTD1,frameshift_variant,p.Thr448TyrfsTer7,ENST00000370742,;ELTD1,upstream_gene_variant,,ENST00000401034,;	A	ENSG00000162618	ENST00000370742	Transcript	frameshift_variant	1405-1406	1341-1342	447-448	-/X	-/T	.	.	.	-1	ELTD1	HGNC	20822	protein_coding	YES	CCDS41352.1	ENSP00000359778	ELTD1_HUMAN	.	UPI00004561FF	.	.	.	10/15	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50261,hmmpanther:PTHR12011,hmmpanther:PTHR12011:SF59,Pfam_domain:PF00002,Prints_domain:PR00249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GAAGGTAAAAA	.	3	BLCA
RERE	0	.	GRCh37	1	8420263	8420263	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3304G>C	p.Glu1102Gln	p.E1102Q	ENST00000337907	19/24	8	4	4	8	8	0	RERE,missense_variant,p.Glu548Gln,ENST00000476556,;RERE,missense_variant,p.Glu834Gln,ENST00000377464,;RERE,missense_variant,p.Glu1102Gln,ENST00000400908,;RERE,missense_variant,p.Glu1102Gln,ENST00000337907,;RERE,intron_variant,,ENST00000400907,;RERE,intron_variant,,ENST00000505225,;RERE,downstream_gene_variant,,ENST00000488215,;RERE,downstream_gene_variant,,ENST00000464367,;	G	ENSG00000142599	ENST00000337907	Transcript	missense_variant	3939	3304	1102	E/Q	Gag/Cag	.	.	.	-1	RERE	HGNC	9965	protein_coding	YES	CCDS95.1	ENSP00000338629	RERE_HUMAN	K7EJQ1_HUMAN,K7EIQ4_HUMAN,K7EIE3_HUMAN	UPI00001419CC	.	.	unknown(0)	19/24	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13859,hmmpanther:PTHR13859:SF12,Pfam_domain:PF03154	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCAGCGT	.	2	BLCA
GBP1	0	.	GRCh37	1	89522729	89522729	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.963G>C	p.Gln321His	p.Q321H	ENST00000370473	7/11	84	68	16	92	92	0	GBP1,missense_variant,p.Gln321His,ENST00000370473,;GBP1,downstream_gene_variant,,ENST00000493139,;GBP1,upstream_gene_variant,,ENST00000484970,;GBP1,upstream_gene_variant,,ENST00000495131,;GBP1,upstream_gene_variant,,ENST00000479889,;GBP1,downstream_gene_variant,,ENST00000459831,;GBP1,upstream_gene_variant,,ENST00000468959,;	G	ENSG00000117228	ENST00000370473	Transcript	missense_variant	1183	963	321	Q/H	caG/caC	.	.	.	-1	GBP1	HGNC	4182	protein_coding	YES	CCDS718.1	ENSP00000359504	GBP1_HUMAN	.	UPI000013C9DF	.	deleterious(0.01)	benign(0.018)	7/11	.	hmmpanther:PTHR10751:SF21,hmmpanther:PTHR10751,Gene3D:1f5nA01,Pfam_domain:PF02841,Superfamily_domains:0037397	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATCTGGGC	.	5	BLCA
CA6	0	.	GRCh37	1	9009441	9009441	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.199A>G	p.Asn67Asp	p.N67D	ENST00000377436	2/8	33	27	6	44	44	0	CA6,missense_variant,p.Asn67Asp,ENST00000377436,;CA6,missense_variant,p.Asn67Asp,ENST00000377443,;CA6,missense_variant,p.Asn67Asp,ENST00000480186,;CA6,intron_variant,,ENST00000377442,;CA6,intron_variant,,ENST00000549778,;CA6,intron_variant,,ENST00000476083,;	G	ENSG00000131686	ENST00000377436	Transcript	missense_variant	199	199	67	N/D	Aat/Gat	.	.	.	1	CA6	HGNC	1380	protein_coding	YES	CCDS57970.1	ENSP00000366654	CAH6_HUMAN	.	UPI00004CA0CB	.	tolerated(0.24)	benign(0.001)	2/8	.	PROSITE_profiles:PS51144,hmmpanther:PTHR18952:SF17,hmmpanther:PTHR18952,Pfam_domain:PF00194,Gene3D:3.10.200.10,SMART_domains:SM01057,Superfamily_domains:SSF51069	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.M68L|c.202A>C|4,BUFFER|p.M68L|c.202A>C|4,BUFFER|p.G70A|c.209G>C|3,BUFFER|p.G70A|c.209G>C|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCTCAATATG	.	5	BLCA
CCDC18	0	.	GRCh37	1	93683367	93683368	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2066dupA	p.Ala690SerfsTer10	p.A690Sfs*10	ENST00000370276	14/29	106	95	11	95	95	0	CCDC18,frameshift_variant,p.Ala755SerfsTer10,ENST00000557479,;CCDC18,frameshift_variant,p.Ala637SerfsTer10,ENST00000401026,;CCDC18,frameshift_variant,p.Ala636SerfsTer10,ENST00000343253,;CCDC18,frameshift_variant,p.Ala690SerfsTer10,ENST00000370276,;CCDC18,5_prime_UTR_variant,,ENST00000334652,;CCDC18,intron_variant,,ENST00000455267,;CCDC18,intron_variant,,ENST00000338949,;CCDC18,upstream_gene_variant,,ENST00000421014,;CCDC18,downstream_gene_variant,,ENST00000481180,;	A	ENSG00000122483	ENST00000370276	Transcript	frameshift_variant	2061-2062	2062-2063	688	E/EX	gaa/gAaa	.	.	.	1	CCDC18	HGNC	30370	protein_coding	YES	.	ENSP00000359299	.	.	UPI0001F78148	.	.	.	14/29	.	hmmpanther:PTHR18875:SF4,hmmpanther:PTHR18875	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCTTTGAAAAA	.	3	BLCA
JAG1	0	.	GRCh37	20	10639116	10639117	+	Frame_Shift_Del	DEL	CT	CT	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	CT	CT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.693_694delAG	p.Arg231SerfsTer10	p.R231Sfs*10	ENST00000254958	4/26	112	98	14	116	116	0	JAG1,frameshift_variant,p.Arg72SerfsTer10,ENST00000423891,;JAG1,frameshift_variant,p.Arg231SerfsTer10,ENST00000254958,;	-	ENSG00000101384	ENST00000254958	Transcript	frameshift_variant	1209-1210	693-694	231-232	RA/SX	agAGct/agct	.	.	.	-1	JAG1	HGNC	6188	protein_coding	YES	CCDS13112.1	ENSP00000254958	JAG1_HUMAN	B7U6M8_HUMAN,B4DYR1_HUMAN	UPI00000498B5	.	.	.	4/26	.	PROSITE_profiles:PS50026,hmmpanther:PTHR24044:SF212,hmmpanther:PTHR24044,Gene3D:2gy5A03	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.E228K|c.682G>A|3,BUFFER|p.E228K|c.682G>A|3	INDELOCATOR*|VARSCANI*|PINDEL	ACATACCTCTGTT	.	3	BLCA
ISM1	0	.	GRCh37	20	13279672	13279672	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.961A>G	p.Ser321Gly	p.S321G	ENST00000262487	6/6	31	28	3	41	41	0	ISM1,missense_variant,p.Ser321Gly,ENST00000262487,;TASP1,intron_variant,,ENST00000539805,;	G	ENSG00000101230	ENST00000262487	Transcript	missense_variant	967	961	321	S/G	Agc/Ggc	.	.	.	1	ISM1	HGNC	16213	protein_coding	YES	CCDS46579.1	ENSP00000262487	ISM1_HUMAN	.	UPI00004A0D4C	.	deleterious(0.01)	benign(0.039)	6/6	.	PROSITE_profiles:PS50856,hmmpanther:PTHR10199,Pfam_domain:PF03782,SMART_domains:SM00723	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCCCAGCTGC	.	4	BLCA
MACROD2	0	.	GRCh37	20	16030476	16030477	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1237dupG	p.Ala413GlyfsTer4	p.A413Gfs*4	ENST00000217246	17/17	59	47	12	76	76	0	MACROD2,splice_acceptor_variant,p.Ala86GlyfsTer4,ENST00000407045,;MACROD2,frameshift_variant,p.Ala201GlyfsTer4,ENST00000378058,;MACROD2,frameshift_variant,p.Ala413GlyfsTer4,ENST00000217246,;MACROD2,frameshift_variant,p.Ala201GlyfsTer4,ENST00000402914,;MACROD2,frameshift_variant,p.Ala436GlyfsTer4,ENST00000310348,;	G	ENSG00000172264	ENST00000217246	Transcript	frameshift_variant	1628-1629	1233-1234	411-412	-/X	-/G	.	.	.	1	MACROD2	HGNC	16126	protein_coding	YES	CCDS13120.2	ENSP00000217246	MACD2_HUMAN	.	UPI00005B2E12	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCAGCAGGGGC	.	3	BLCA
SLC24A3	0	.	GRCh37	20	19673943	19673943	+	Silent	SNP	G	G	A	rs778560980	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1365G>A	p.%3D	p.P455P	ENST00000328041	13/17	94	76	18	121	121	0	SLC24A3,synonymous_variant,p.%3D,ENST00000328041,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000609846,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000600889,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000609610,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000598694,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000608476,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000593770,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000435992,;RP4-718D20.3,non_coding_transcript_exon_variant,,ENST00000608187,;	A	ENSG00000185052	ENST00000328041	Transcript	synonymous_variant	1562	1365	455	P	ccG/ccA	rs778560980	.	.	1	SLC24A3	HGNC	10977	protein_coding	YES	CCDS13140.1	ENSP00000333519	NCKX3_HUMAN	.	UPI00001A8BFD	.	.	.	13/17	.	hmmpanther:PTHR10846,hmmpanther:PTHR10846:SF22,TIGRFAM_domain:TIGR00367	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F458F|c.1374C>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCCGCTGAG	.	5	BLCA
TPX2	0	.	GRCh37	20	30358185	30358185	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.396G>C	p.Gln132His	p.Q132H	ENST00000300403	6/18	47	32	15	64	63	1	TPX2,missense_variant,p.Gln132His,ENST00000300403,;TPX2,missense_variant,p.Gln132His,ENST00000340513,;	C	ENSG00000088325	ENST00000300403	Transcript	missense_variant	924	396	132	Q/H	caG/caC	.	.	.	1	TPX2	HGNC	1249	protein_coding	YES	CCDS13190.1	ENSP00000300403	TPX2_HUMAN	Q96FC3_HUMAN,Q643R0_HUMAN,B3KM90_HUMAN	UPI00000015BB	.	tolerated(0.15)	benign(0.007)	6/18	.	hmmpanther:PTHR14326,hmmpanther:PTHR14326:SF9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAACAGAAAGA	.	5	BLCA
MYH7B	0	.	GRCh37	20	33589760	33589760	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5812G>A	p.Ala1938Thr	p.A1938T	ENST00000262873	42/43	55	50	5	95	95	0	MYH7B,missense_variant,p.Ala93Thr,ENST00000446156,;MYH7B,missense_variant,p.Ala98Thr,ENST00000433934,;MYH7B,missense_variant,p.Ala98Thr,ENST00000435272,;MYH7B,missense_variant,p.Ala1938Thr,ENST00000262873,;MYH7B,missense_variant,p.Ala71Thr,ENST00000453028,;MYH7B,missense_variant,p.Ala71Thr,ENST00000456649,;TRPC4AP,downstream_gene_variant,,ENST00000451813,;TRPC4AP,downstream_gene_variant,,ENST00000539834,;TRPC4AP,downstream_gene_variant,,ENST00000252015,;TRPC4AP,downstream_gene_variant,,ENST00000432634,;	A	ENSG00000078814	ENST00000262873	Transcript	missense_variant	5904	5812	1938	A/T	Gcc/Acc	.	.	.	1	MYH7B	HGNC	15906	protein_coding	YES	CCDS42869.1	ENSP00000262873	MYH7B_HUMAN	.	UPI0000253BD4	.	.	possibly_damaging(0.487)	42/43	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF310,Pfam_domain:PF01576,Superfamily_domains:SSF90257	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCAGGCCAAC	.	3	BLCA
CPNE1	0	.	GRCh37	20	34219050	34219050	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.862C>T	p.Gln288Ter	p.Q288*	ENST00000317677	10/16	155	134	21	252	252	0	CPNE1,stop_gained,p.Gln283Ter,ENST00000352393,;CPNE1,stop_gained,p.Gln283Ter,ENST00000397443,;CPNE1,stop_gained,p.Gln288Ter,ENST00000317677,;CPNE1,stop_gained,p.Gln283Ter,ENST00000397442,;CPNE1,stop_gained,p.Gln259Ter,ENST00000412056,;CPNE1,stop_gained,p.Gln283Ter,ENST00000317619,;CPNE1,stop_gained,p.Gln259Ter,ENST00000430570,;CPNE1,stop_gained,p.Gln283Ter,ENST00000437340,;CPNE1,stop_gained,p.Gln283Ter,ENST00000397445,;CPNE1,stop_gained,p.Gln283Ter,ENST00000414664,;CPNE1,stop_gained,p.Gln283Ter,ENST00000397446,;CPNE1,upstream_gene_variant,,ENST00000415920,;CPNE1,downstream_gene_variant,,ENST00000414711,;CPNE1,downstream_gene_variant,,ENST00000458038,;CPNE1,downstream_gene_variant,,ENST00000434795,;CPNE1,downstream_gene_variant,,ENST00000440240,;CPNE1,downstream_gene_variant,,ENST00000416778,;CPNE1,downstream_gene_variant,,ENST00000435747,;CPNE1,downstream_gene_variant,,ENST00000420363,;CPNE1,downstream_gene_variant,,ENST00000439806,;CPNE1,downstream_gene_variant,,ENST00000437100,;CPNE1,upstream_gene_variant,,ENST00000498056,;CPNE1,upstream_gene_variant,,ENST00000462352,;CPNE1,upstream_gene_variant,,ENST00000498814,;CPNE1,stop_gained,p.Gln283Ter,ENST00000401607,;CPNE1,non_coding_transcript_exon_variant,,ENST00000486021,;CPNE1,non_coding_transcript_exon_variant,,ENST00000483495,;CPNE1,non_coding_transcript_exon_variant,,ENST00000483359,;RP1-309K20.6,downstream_gene_variant,,ENST00000541176,;RP1-309K20.6,downstream_gene_variant,,ENST00000454607,;CPNE1,upstream_gene_variant,,ENST00000473373,;CPNE1,downstream_gene_variant,,ENST00000439669,;RP1-309K20.6,downstream_gene_variant,,ENST00000441563,;	A	ENSG00000214078	ENST00000317677	Transcript	stop_gained	997	862	288	Q/*	Cag/Tag	.	.	.	-1	CPNE1	HGNC	2314	protein_coding	YES	CCDS46595.1	ENSP00000317257	.	Q5JX60_HUMAN,Q5JX59_HUMAN,Q5JX58_HUMAN,Q5JX56_HUMAN,Q5JX55_HUMAN,Q5JX54_HUMAN,Q5JX53_HUMAN,Q5JX44_HUMAN,B0QZ18_HUMAN	UPI0000D4B36B	.	.	.	10/16	.	Superfamily_domains:SSF53300,SMART_domains:SM00327,hmmpanther:PTHR10857:SF2,hmmpanther:PTHR10857	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATCTGACAGC	.	4	BLCA
CPNE1	0	.	GRCh37	20	34219208	34219208	+	Silent	SNP	G	G	A	rs780991940	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798C>T	p.%3D	p.I266I	ENST00000317677	9/16	107	94	13	131	131	0	CPNE1,synonymous_variant,p.%3D,ENST00000352393,;CPNE1,synonymous_variant,p.%3D,ENST00000397443,;CPNE1,synonymous_variant,p.%3D,ENST00000317677,;CPNE1,synonymous_variant,p.%3D,ENST00000397442,;CPNE1,synonymous_variant,p.%3D,ENST00000412056,;CPNE1,synonymous_variant,p.%3D,ENST00000317619,;CPNE1,synonymous_variant,p.%3D,ENST00000430570,;CPNE1,synonymous_variant,p.%3D,ENST00000437340,;CPNE1,synonymous_variant,p.%3D,ENST00000397445,;CPNE1,synonymous_variant,p.%3D,ENST00000414664,;CPNE1,synonymous_variant,p.%3D,ENST00000397446,;CPNE1,upstream_gene_variant,,ENST00000415920,;CPNE1,downstream_gene_variant,,ENST00000414711,;CPNE1,downstream_gene_variant,,ENST00000458038,;CPNE1,downstream_gene_variant,,ENST00000434795,;CPNE1,downstream_gene_variant,,ENST00000440240,;CPNE1,downstream_gene_variant,,ENST00000416778,;CPNE1,downstream_gene_variant,,ENST00000435747,;CPNE1,downstream_gene_variant,,ENST00000420363,;CPNE1,downstream_gene_variant,,ENST00000439806,;CPNE1,downstream_gene_variant,,ENST00000437100,;CPNE1,upstream_gene_variant,,ENST00000498056,;CPNE1,upstream_gene_variant,,ENST00000462352,;CPNE1,upstream_gene_variant,,ENST00000498814,;CPNE1,synonymous_variant,p.%3D,ENST00000401607,;CPNE1,non_coding_transcript_exon_variant,,ENST00000486021,;CPNE1,non_coding_transcript_exon_variant,,ENST00000483495,;CPNE1,non_coding_transcript_exon_variant,,ENST00000483359,;RP1-309K20.6,downstream_gene_variant,,ENST00000541176,;RP1-309K20.6,downstream_gene_variant,,ENST00000454607,;CPNE1,upstream_gene_variant,,ENST00000473373,;CPNE1,downstream_gene_variant,,ENST00000439669,;RP1-309K20.6,downstream_gene_variant,,ENST00000441563,;	A	ENSG00000214078	ENST00000317677	Transcript	synonymous_variant	933	798	266	I	atC/atT	rs780991940	.	.	-1	CPNE1	HGNC	2314	protein_coding	YES	CCDS46595.1	ENSP00000317257	.	Q5JX60_HUMAN,Q5JX59_HUMAN,Q5JX58_HUMAN,Q5JX56_HUMAN,Q5JX55_HUMAN,Q5JX54_HUMAN,Q5JX53_HUMAN,Q5JX44_HUMAN,B0QZ18_HUMAN	UPI0000D4B36B	.	.	.	9/16	.	Superfamily_domains:SSF49562,hmmpanther:PTHR10857:SF2,hmmpanther:PTHR10857	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACACGGATAGT	.	4	BLCA
PLCG1	0	.	GRCh37	20	39795196	39795196	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2081G>A	p.Arg694Gln	p.R694Q	ENST00000373272	18/32	35	26	8	58	58	0	PLCG1,missense_variant,p.Arg694Gln,ENST00000373272,;PLCG1,missense_variant,p.Arg694Gln,ENST00000244007,;PLCG1,missense_variant,p.Arg694Gln,ENST00000373271,;PLCG1,non_coding_transcript_exon_variant,,ENST00000465571,;PLCG1,downstream_gene_variant,,ENST00000473632,;PLCG1,downstream_gene_variant,,ENST00000483646,;PLCG1,upstream_gene_variant,,ENST00000599785,;PLCG1,downstream_gene_variant,,ENST00000470528,;PLCG1,upstream_gene_variant,,ENST00000483175,;PLCG1,upstream_gene_variant,,ENST00000477870,;PLCG1,downstream_gene_variant,,ENST00000492148,;	A	ENSG00000124181	ENST00000373272	Transcript	missense_variant	2486	2081	694	R/Q	cGg/cAg	.	.	.	1	PLCG1	HGNC	9065	protein_coding	YES	CCDS13313.1	ENSP00000362369	PLCG1_HUMAN	.	UPI00001B94DD	.	deleterious(0)	probably_damaging(1)	18/32	.	PROSITE_profiles:PS50001,hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF52,Pfam_domain:PF00017,Gene3D:3.30.505.10,PIRSF_domain:PIRSF000952,SMART_domains:SM00252,Superfamily_domains:SSF55550,Prints_domain:PR00401	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTGCGGAAGC	.	5	BLCA
L3MBTL1	0	.	GRCh37	20	42165058	42165058	+	Silent	SNP	C	C	T	rs751448981	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2067C>T	p.%3D	p.R689R	ENST00000427442	19/22	71	56	15	105	105	0	L3MBTL1,synonymous_variant,p.%3D,ENST00000444063,;L3MBTL1,synonymous_variant,p.%3D,ENST00000422861,;L3MBTL1,synonymous_variant,p.%3D,ENST00000373134,;L3MBTL1,synonymous_variant,p.%3D,ENST00000373135,;L3MBTL1,synonymous_variant,p.%3D,ENST00000427442,;L3MBTL1,synonymous_variant,p.%3D,ENST00000418998,;L3MBTL1,upstream_gene_variant,,ENST00000471977,;L3MBTL1,non_coding_transcript_exon_variant,,ENST00000373133,;L3MBTL1,downstream_gene_variant,,ENST00000483547,;L3MBTL1,downstream_gene_variant,,ENST00000485334,;L3MBTL1,downstream_gene_variant,,ENST00000497347,;L3MBTL1,downstream_gene_variant,,ENST00000445228,;L3MBTL1,upstream_gene_variant,,ENST00000494117,;	T	ENSG00000185513	ENST00000427442	Transcript	synonymous_variant	2226	2067	689	R	cgC/cgT	rs751448981	.	.	1	L3MBTL1	HGNC	15905	protein_coding	YES	CCDS46602.2	ENSP00000402107	LMBL1_HUMAN	B0QYN5_HUMAN,B0QYN4_HUMAN	UPI0001E18E26	.	.	.	19/22	.	hmmpanther:PTHR12247,hmmpanther:PTHR12247:SF69	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACGCCCTCC	.	5	BLCA
SERINC3	0	.	GRCh37	20	43139973	43139973	+	Silent	SNP	G	G	A	rs371830867	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.432C>T	p.%3D	p.I144I	ENST00000342374	4/10	55	47	8	57	57	0	SERINC3,synonymous_variant,p.%3D,ENST00000541235,;SERINC3,synonymous_variant,p.%3D,ENST00000255175,;SERINC3,synonymous_variant,p.%3D,ENST00000342374,;SERINC3,downstream_gene_variant,,ENST00000468234,;	A	ENSG00000132824	ENST00000342374	Transcript	synonymous_variant	590	432	144	I	atC/atT	rs371830867	.	.	-1	SERINC3	HGNC	11699	protein_coding	YES	CCDS13333.1	ENSP00000340243	SERC3_HUMAN	Q5H936_HUMAN,B4DUE9_HUMAN	UPI0000136B4D	.	.	.	4/10	.	Transmembrane_helices:TMhelix,Pfam_domain:PF03348,hmmpanther:PTHR10383,hmmpanther:PTHR10383:SF13	.	.	.	.	.	.	.	A:0.0007	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCATGATTCC	byFrequency|byCluster	4	BLCA
ZNF335	0	.	GRCh37	20	44592115	44592115	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1530C>G	p.%3D	p.L510L	ENST00000322927	9/28	68	58	9	67	67	0	ZNF335,synonymous_variant,p.%3D,ENST00000322927,;ZNF335,synonymous_variant,p.%3D,ENST00000426788,;ZNF335,non_coding_transcript_exon_variant,,ENST00000475002,;ZNF335,downstream_gene_variant,,ENST00000476822,;ZNF335,downstream_gene_variant,,ENST00000494955,;	C	ENSG00000198026	ENST00000322927	Transcript	synonymous_variant	1631	1530	510	L	ctC/ctG	.	.	.	-1	ZNF335	HGNC	15807	protein_coding	YES	CCDS13389.1	ENSP00000325326	ZN335_HUMAN	.	UPI0000001BC3	.	.	.	9/28	.	Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,Pfam_domain:PF13465,hmmpanther:PTHR24403:SF31,hmmpanther:PTHR24403,PROSITE_profiles:PS50157	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCTTGAGCGA	.	4	BLCA
ZNF217	0	.	GRCh37	20	52198759	52198759	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.607G>A	p.Val203Ile	p.V203I	ENST00000371471	2/6	165	155	10	197	197	0	ZNF217,missense_variant,p.Val203Ile,ENST00000302342,;ZNF217,missense_variant,p.Val203Ile,ENST00000371471,;ZNF217,downstream_gene_variant,,ENST00000431687,;ZNF217,downstream_gene_variant,,ENST00000540425,;	T	ENSG00000171940	ENST00000371471	Transcript	missense_variant	1033	607	203	V/I	Gtc/Atc	.	.	.	-1	ZNF217	HGNC	13009	protein_coding	YES	CCDS13443.1	ENSP00000360526	ZN217_HUMAN	A2A326_HUMAN	UPI000013C323	.	tolerated(0.05)	probably_damaging(0.997)	2/6	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGACGACCT	.	2	BLCA
TFAP2C	0	.	GRCh37	20	55209228	55209228	+	Missense_Mutation	SNP	C	C	T	rs773514336	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.826C>T	p.Arg276Trp	p.R276W	ENST00000201031	5/7	76	59	17	78	78	0	TFAP2C,missense_variant,p.Arg107Trp,ENST00000544508,;TFAP2C,missense_variant,p.Arg276Trp,ENST00000201031,;TFAP2C,downstream_gene_variant,,ENST00000416606,;	T	ENSG00000087510	ENST00000201031	Transcript	missense_variant	1069	826	276	R/W	Cgg/Tgg	rs773514336	.	.	1	TFAP2C	HGNC	11744	protein_coding	YES	CCDS13454.1	ENSP00000201031	AP2C_HUMAN	B4DWK3_HUMAN	UPI0000125BC8	.	deleterious(0)	probably_damaging(0.939)	5/7	.	hmmpanther:PTHR10812:SF9,hmmpanther:PTHR10812,Pfam_domain:PF03299,Prints_domain:PR01748	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGGCCGGTCC	.	5	BLCA
GNAS	0	.	GRCh37	20	57485051	57485051	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2814T>C	p.%3D	p.D938D	ENST00000371100	11/13	106	93	13	134	134	0	GNAS,synonymous_variant,p.%3D,ENST00000371085,;GNAS,synonymous_variant,p.%3D,ENST00000306090,;GNAS,synonymous_variant,p.%3D,ENST00000354359,;GNAS,synonymous_variant,p.%3D,ENST00000371095,;GNAS,synonymous_variant,p.%3D,ENST00000371102,;GNAS,synonymous_variant,p.%3D,ENST00000265620,;GNAS,synonymous_variant,p.%3D,ENST00000371100,;GNAS,3_prime_UTR_variant,,ENST00000313949,;GNAS,3_prime_UTR_variant,,ENST00000371075,;GNAS,downstream_gene_variant,,ENST00000419558,;GNAS,downstream_gene_variant,,ENST00000349036,;GNAS,downstream_gene_variant,,ENST00000603546,;GNAS,downstream_gene_variant,,ENST00000450130,;GNAS,downstream_gene_variant,,ENST00000604005,;GNAS,non_coding_transcript_exon_variant,,ENST00000477931,;GNAS,non_coding_transcript_exon_variant,,ENST00000488546,;GNAS,non_coding_transcript_exon_variant,,ENST00000494081,;GNAS,non_coding_transcript_exon_variant,,ENST00000464624,;GNAS,non_coding_transcript_exon_variant,,ENST00000480975,;GNAS,downstream_gene_variant,,ENST00000481039,;GNAS,downstream_gene_variant,,ENST00000482112,;GNAS,downstream_gene_variant,,ENST00000485673,;GNAS,downstream_gene_variant,,ENST00000467321,;GNAS,downstream_gene_variant,,ENST00000469431,;GNAS,downstream_gene_variant,,ENST00000480232,;GNAS,downstream_gene_variant,,ENST00000472183,;GNAS,downstream_gene_variant,,ENST00000464788,;GNAS,downstream_gene_variant,,ENST00000488652,;GNAS,downstream_gene_variant,,ENST00000490374,;GNAS,downstream_gene_variant,,ENST00000493958,;GNAS,downstream_gene_variant,,ENST00000478585,;GNAS,downstream_gene_variant,,ENST00000470512,;GNAS,downstream_gene_variant,,ENST00000492907,;GNAS,downstream_gene_variant,,ENST00000468895,;GNAS,downstream_gene_variant,,ENST00000467227,;GNAS,downstream_gene_variant,,ENST00000476935,;GNAS,non_coding_transcript_exon_variant,,ENST00000487862,;GNAS,non_coding_transcript_exon_variant,,ENST00000476196,;GNAS,non_coding_transcript_exon_variant,,ENST00000496934,;GNAS,downstream_gene_variant,,ENST00000479025,;GNAS,downstream_gene_variant,,ENST00000487981,;GNAS,upstream_gene_variant,,ENST00000475610,;	C	ENSG00000087460	ENST00000371100	Transcript	synonymous_variant	3366	2814	938	D	gaT/gaC	.	.	.	1	GNAS	HGNC	4392	protein_coding	YES	CCDS46622.1	ENSP00000360141	GNAS1_HUMAN	S4R3W4_HUMAN,S4R3V9_HUMAN,S4R3F1_HUMAN,S4R3E3_HUMAN,S4R379_HUMAN,B0AZR9_HUMAN	UPI0000E444AE	.	.	.	11/13	.	hmmpanther:PTHR10218:SF36,hmmpanther:PTHR10218,Pfam_domain:PF00503,Gene3D:3.40.50.300,SMART_domains:SM00275,Superfamily_domains:SSF52540,Prints_domain:PR00318	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAAGATCTGCT	.	4	BLCA
ZNF831	0	.	GRCh37	20	57768114	57768114	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2040C>G	p.%3D	p.V680V	ENST00000371030	1/5	31	28	3	33	33	0	ZNF831,synonymous_variant,p.%3D,ENST00000371030,;	G	ENSG00000124203	ENST00000371030	Transcript	synonymous_variant	2040	2040	680	V	gtC/gtG	.	.	.	1	ZNF831	HGNC	16167	protein_coding	YES	CCDS42894.1	ENSP00000360069	ZN831_HUMAN	.	UPI00001D82E4	.	.	.	1/5	.	hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF52	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTGTCCATGA	.	2	BLCA
CDH26	0	.	GRCh37	20	58558037	58558037	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.453C>G	p.Phe151Leu	p.F151L	ENST00000348616	5/18	138	118	20	189	189	0	CDH26,missense_variant,p.Phe151Leu,ENST00000244047,;CDH26,missense_variant,p.Phe151Leu,ENST00000348616,;CDH26,upstream_gene_variant,,ENST00000477058,;	G	ENSG00000124215	ENST00000348616	Transcript	missense_variant	753	453	151	F/L	ttC/ttG	COSM3983928,COSM3983929	.	.	1	CDH26	HGNC	15902	protein_coding	YES	CCDS13485.1	ENSP00000339390	CAD26_HUMAN	.	UPI000013CB55	.	deleterious(0.01)	possibly_damaging(0.545)	5/18	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027:SF78,hmmpanther:PTHR24027,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTTTCAACAT	.	5	BLCA
FERMT1	0	.	GRCh37	20	6096551	6096551	+	Missense_Mutation	SNP	G	G	A	rs141690919	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.292C>T	p.Arg98Cys	p.R98C	ENST00000217289	3/15	104	88	16	108	108	0	FERMT1,missense_variant,p.Arg98Cys,ENST00000378844,;FERMT1,missense_variant,p.Arg98Cys,ENST00000217289,;FERMT1,5_prime_UTR_variant,,ENST00000536936,;	A	ENSG00000101311	ENST00000217289	Transcript	missense_variant	1081	292	98	R/C	Cgc/Tgc	rs141690919,COSM1206989,COSM1206990	.	.	-1	FERMT1	HGNC	15889	protein_coding	YES	CCDS13098.1	ENSP00000217289	FERM1_HUMAN	Q5JWV4_HUMAN,G3V1L6_HUMAN	UPI00001285DD	.	deleterious(0.02)	benign(0.028)	3/15	.	hmmpanther:PTHR16160:SF12,hmmpanther:PTHR16160,SMART_domains:SM00295	A:0.0008	A:0	A:0	.	A:0.002	A:0.001	A:0.001	A:0.0002	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGCGCAGCA	byFrequency|byCluster|by1000G	5	BLCA
DIDO1	0	.	GRCh37	20	61538508	61538508	+	Silent	SNP	G	G	A	rs146285634	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1365C>T	p.%3D	p.C455C	ENST00000266070	5/16	181	160	21	205	205	0	DIDO1,synonymous_variant,p.%3D,ENST00000354665,;DIDO1,synonymous_variant,p.%3D,ENST00000395340,;DIDO1,synonymous_variant,p.%3D,ENST00000370371,;DIDO1,synonymous_variant,p.%3D,ENST00000395343,;DIDO1,synonymous_variant,p.%3D,ENST00000266070,;DIDO1,synonymous_variant,p.%3D,ENST00000370368,;DIDO1,synonymous_variant,p.%3D,ENST00000266071,;DIDO1,synonymous_variant,p.%3D,ENST00000395335,;DIDO1,synonymous_variant,p.%3D,ENST00000370366,;	A	ENSG00000101191	ENST00000266070	Transcript	synonymous_variant	1691	1365	455	C	tgC/tgT	rs146285634	.	.	-1	DIDO1	HGNC	2680	protein_coding	YES	CCDS33506.1	ENSP00000266070	DIDO1_HUMAN	.	UPI0000206380	.	.	.	5/16	.	hmmpanther:PTHR14914:SF7,hmmpanther:PTHR14914	A:0.0008	A:0.003	A:0	.	A:0	A:0	A:0	A:0.0036	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	GCACCGCATTT	byFrequency|byCluster|by1000G	3	BLCA
UCKL1	0	.	GRCh37	20	62577212	62577212	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.528G>T	p.Lys176Asn	p.K176N	ENST00000354216	4/15	186	154	32	241	240	1	UCKL1,missense_variant,p.Lys176Asn,ENST00000358711,;UCKL1,missense_variant,p.Lys161Asn,ENST00000369908,;UCKL1,missense_variant,p.Lys176Asn,ENST00000354216,;UCKL1,missense_variant,p.Lys176Asn,ENST00000369892,;UCKL1,upstream_gene_variant,,ENST00000430743,;MIR1914,upstream_gene_variant,,ENST00000607800,;MIR647,upstream_gene_variant,,ENST00000384823,;UCKL1,non_coding_transcript_exon_variant,,ENST00000492660,;UCKL1,downstream_gene_variant,,ENST00000483710,;	A	ENSG00000198276	ENST00000354216	Transcript	missense_variant	571	528	176	K/N	aaG/aaT	.	.	.	-1	UCKL1	HGNC	15938	protein_coding	YES	CCDS13547.1	ENSP00000346155	UCKL1_HUMAN	Q5JWV1_HUMAN	UPI000004A08C	.	deleterious(0)	probably_damaging(0.919)	4/15	.	hmmpanther:PTHR10285:SF64,hmmpanther:PTHR10285,Pfam_domain:PF00485,Gene3D:3.40.50.300,TIGRFAM_domain:TIGR00235,Superfamily_domains:SSF52540,Prints_domain:PR00988	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACTCTTCCC	.	5	BLCA
SLC52A3	0	.	GRCh37	20	744203	744203	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1012G>A	p.Ala338Thr	p.A338T	ENST00000217254	3/5	66	53	13	75	75	0	SLC52A3,missense_variant,p.Ala338Thr,ENST00000381944,;SLC52A3,missense_variant,p.Ala338Thr,ENST00000217254,;SLC52A3,intron_variant,,ENST00000473664,;SLC52A3,downstream_gene_variant,,ENST00000488495,;	T	ENSG00000101276	ENST00000217254	Transcript	missense_variant	1254	1012	338	A/T	Gcc/Acc	.	.	.	-1	SLC52A3	HGNC	16187	protein_coding	YES	CCDS13007.1	ENSP00000217254	S52A3_HUMAN	K0A6P4_HUMAN	UPI000002A74E	.	deleterious(0.05)	possibly_damaging(0.491)	3/5	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR12929:SF4,hmmpanther:PTHR12929,Pfam_domain:PF06237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GGTGGCAGCCA	.	2	BLCA
PLCB4	0	.	GRCh37	20	9391690	9391690	+	Missense_Mutation	SNP	C	C	T	rs781223972	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1970C>T	p.Ala657Val	p.A657V	ENST00000378501	21/36	63	47	16	62	62	0	PLCB4,missense_variant,p.Ala657Val,ENST00000334005,;PLCB4,missense_variant,p.Ala669Val,ENST00000414679,;PLCB4,missense_variant,p.Ala657Val,ENST00000278655,;PLCB4,missense_variant,p.Ala669Val,ENST00000378473,;PLCB4,missense_variant,p.Ala657Val,ENST00000378493,;PLCB4,missense_variant,p.Ala657Val,ENST00000378501,;PLCB4,non_coding_transcript_exon_variant,,ENST00000492632,;PLCB4,non_coding_transcript_exon_variant,,ENST00000473151,;PLCB4,non_coding_transcript_exon_variant,,ENST00000482123,;PLCB4,non_coding_transcript_exon_variant,,ENST00000464199,;	T	ENSG00000101333	ENST00000378501	Transcript	missense_variant	1985	1970	657	A/V	gCg/gTg	rs781223972	.	.	1	PLCB4	HGNC	9059	protein_coding	YES	CCDS13104.1	ENSP00000367762	PLCB4_HUMAN	B1AJW4_HUMAN,B1AJW3_HUMAN,B1AJW2_HUMAN,B1AJW1_HUMAN	UPI00002069DF	.	tolerated(0.07)	probably_damaging(0.922)	21/36	.	PROSITE_profiles:PS50008,hmmpanther:PTHR10336,hmmpanther:PTHR10336:SF78,Pfam_domain:PF00387,Gene3D:3.20.20.190,SMART_domains:SM00149,PIRSF_domain:PIRSF000956,Superfamily_domains:SSF51695,Prints_domain:PR00390	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTAGCGATGC	.	5	BLCA
NRIP1	0	.	GRCh37	21	16338311	16338311	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2203G>A	p.Asp735Asn	p.D735N	ENST00000400202	3/3	86	69	16	104	104	0	NRIP1,missense_variant,p.Asp735Asn,ENST00000400202,;NRIP1,missense_variant,p.Asp735Asn,ENST00000318948,;NRIP1,missense_variant,p.Asp735Asn,ENST00000400199,;NRIP1,downstream_gene_variant,,ENST00000411932,;AF127577.10,downstream_gene_variant,,ENST00000446301,;	T	ENSG00000180530	ENST00000400202	Transcript	missense_variant	2916	2203	735	D/N	Gat/Aat	.	.	.	-1	NRIP1	HGNC	8001	protein_coding	YES	CCDS13568.1	ENSP00000383063	NRIP1_HUMAN	N0GWB6_HUMAN,N0GW17_HUMAN,C9J130_HUMAN	UPI000004A0A8	.	deleterious(0.03)	possibly_damaging(0.607)	3/3	.	hmmpanther:PTHR15088	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCATCTCTTA	.	5	BLCA
ADAMTS5	0	.	GRCh37	21	28327086	28327086	+	Silent	SNP	G	G	A	rs774940785	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1209C>T	p.%3D	p.H403H	ENST00000284987	2/8	63	59	4	79	79	0	ADAMTS5,synonymous_variant,p.%3D,ENST00000284987,;MIR4759,downstream_gene_variant,,ENST00000584048,;	A	ENSG00000154736	ENST00000284987	Transcript	synonymous_variant	1331	1209	403	H	caC/caT	rs774940785,COSM1029706	.	.	-1	ADAMTS5	HGNC	221	protein_coding	YES	CCDS13579.1	ENSP00000284987	ATS5_HUMAN	.	UPI00001AEAC2	.	.	.	2/8	.	PROSITE_profiles:PS50215,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF37,Pfam_domain:PF01421,Gene3D:3.40.390.10,Superfamily_domains:SSF55486	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.H403H|c.1209C>T|3	MUTECT|MUSE	GCTGCGTGGAG	byFrequency	2	BLCA
CHAF1B	0	.	GRCh37	21	37785282	37785282	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1162C>A	p.Pro388Thr	p.P388T	ENST00000314103	12/14	41	35	6	74	74	0	CHAF1B,missense_variant,p.Pro388Thr,ENST00000314103,;CHAF1B,downstream_gene_variant,,ENST00000481458,;	A	ENSG00000159259	ENST00000314103	Transcript	missense_variant	1313	1162	388	P/T	Cca/Aca	.	.	.	1	CHAF1B	HGNC	1911	protein_coding	YES	CCDS13644.1	ENSP00000315700	CAF1B_HUMAN	.	UPI0000126DD1	.	deleterious(0.01)	benign(0.213)	12/14	.	hmmpanther:PTHR15271,Pfam_domain:PF15512	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAAGCCAGTT	.	5	BLCA
TRPM2	0	.	GRCh37	21	45817735	45817735	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2038G>C	p.Glu680Gln	p.E680Q	ENST00000397928	13/32	23	15	8	40	40	0	TRPM2,missense_variant,p.Glu660Gln,ENST00000300481,;TRPM2,missense_variant,p.Glu680Gln,ENST00000397928,;TRPM2,missense_variant,p.Glu680Gln,ENST00000397932,;TRPM2,missense_variant,p.Glu680Gln,ENST00000300482,;TRPM2,non_coding_transcript_exon_variant,,ENST00000498430,;	C	ENSG00000142185	ENST00000397928	Transcript	missense_variant	2483	2038	680	E/Q	Gag/Cag	.	.	.	1	TRPM2	HGNC	12339	protein_coding	YES	CCDS13710.1	ENSP00000381023	TRPM2_HUMAN	C9JZQ8_HUMAN	UPI0000169D60	.	tolerated(0.1)	benign(0.13)	13/32	.	hmmpanther:PTHR13800:SF2,hmmpanther:PTHR13800	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGCGGAGGAG	.	5	BLCA
KRTAP10-5	0	.	GRCh37	21	46000443	46000443	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13A>G	p.Thr5Ala	p.T5A	ENST00000400372	1/1	62	54	8	101	101	0	KRTAP10-5,missense_variant,p.Thr5Ala,ENST00000400372,;TSPEAR,intron_variant,,ENST00000323084,;	C	ENSG00000241123	ENST00000400372	Transcript	missense_variant	39	13	5	T/A	Acc/Gcc	.	.	.	-1	KRTAP10-5	HGNC	22969	protein_coding	YES	CCDS42958.1	ENSP00000383223	KR105_HUMAN	.	UPI000050C093	.	deleterious(0.05)	unknown(0)	1/1	.	hmmpanther:PTHR23262:SF30,hmmpanther:PTHR23262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATGGTGCACG	.	4	BLCA
DIP2A	0	.	GRCh37	21	47977622	47977622	+	Missense_Mutation	SNP	G	G	C	rs779992121	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3754G>C	p.Glu1252Gln	p.E1252Q	ENST00000417564	31/38	45	37	7	36	36	0	DIP2A,missense_variant,p.Glu1248Gln,ENST00000400274,;DIP2A,missense_variant,p.Glu1252Gln,ENST00000417564,;DIP2A,missense_variant,p.Glu1253Gln,ENST00000318711,;DIP2A,downstream_gene_variant,,ENST00000427143,;DIP2A,non_coding_transcript_exon_variant,,ENST00000481883,;DIP2A,non_coding_transcript_exon_variant,,ENST00000472364,;DIP2A,upstream_gene_variant,,ENST00000478105,;	C	ENSG00000160305	ENST00000417564	Transcript	missense_variant	3775	3754	1252	E/Q	Gag/Cag	rs779992121	.	.	1	DIP2A	HGNC	17217	protein_coding	YES	CCDS46655.1	ENSP00000392066	DIP2A_HUMAN	Q9NSX6_HUMAN,Q96NX2_HUMAN	UPI00001B2E47	.	deleterious(0)	benign(0.086)	31/38	.	hmmpanther:PTHR22754:SF24,hmmpanther:PTHR22754,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGGAGATG	.	5	BLCA
BCL2L13	0	.	GRCh37	22	18138452	18138452	+	5'UTR	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-22delT	.	.	ENST00000317582	2/7	88	77	11	115	115	0	BCL2L13,5_prime_UTR_variant,,ENST00000493680,;BCL2L13,5_prime_UTR_variant,,ENST00000337612,;BCL2L13,5_prime_UTR_variant,,ENST00000317582,;BCL2L13,5_prime_UTR_variant,,ENST00000543133,;BCL2L13,5_prime_UTR_variant,,ENST00000355028,;BCL2L13,5_prime_UTR_variant,,ENST00000399782,;BCL2L13,5_prime_UTR_variant,,ENST00000538149,;BCL2L13,upstream_gene_variant,,ENST00000418951,;BCL2L13,non_coding_transcript_exon_variant,,ENST00000399781,;BCL2L13,intron_variant,,ENST00000464649,;BCL2L13,5_prime_UTR_variant,,ENST00000498133,;	-	ENSG00000099968	ENST00000317582	Transcript	5_prime_UTR_variant	322	.	.	.	.	.	.	.	1	BCL2L13	HGNC	17164	protein_coding	YES	CCDS13746.1	ENSP00000318883	B2L13_HUMAN	B2RB43_HUMAN	UPI000004F301	.	.	.	2/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TAGACCTTTTTG	.	3	BLCA
PI4KA	0	.	GRCh37	22	21062353	21062353	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6291G>A	p.%3D	p.Q2097Q	ENST00000255882	55/55	96	76	19	134	134	0	PI4KA,synonymous_variant,p.%3D,ENST00000255882,;PI4KA,synonymous_variant,p.%3D,ENST00000399213,;PI4KA,synonymous_variant,p.%3D,ENST00000414196,;PI4KA,synonymous_variant,p.%3D,ENST00000572273,;TMEM191A,downstream_gene_variant,,ENST00000419950,;TMEM191A,downstream_gene_variant,,ENST00000445836,;TMEM191A,downstream_gene_variant,,ENST00000450925,;TMEM191A,downstream_gene_variant,,ENST00000442222,;PI4KA,non_coding_transcript_exon_variant,,ENST00000492581,;PI4KA,non_coding_transcript_exon_variant,,ENST00000466772,;PI4KA,non_coding_transcript_exon_variant,,ENST00000477245,;TMEM191A,downstream_gene_variant,,ENST00000454833,;TMEM191A,downstream_gene_variant,,ENST00000414022,;TMEM191A,downstream_gene_variant,,ENST00000436618,;TMEM191A,downstream_gene_variant,,ENST00000428752,;PI4KA,downstream_gene_variant,,ENST00000482030,;TMEM191A,downstream_gene_variant,,ENST00000422715,;PI4KA,downstream_gene_variant,,ENST00000466394,;TMEM191A,downstream_gene_variant,,ENST00000452055,;	T	ENSG00000241973	ENST00000255882	Transcript	synonymous_variant	6378	6291	2097	Q	caG/caA	COSM725558,COSM725559	.	.	-1	PI4KA	HGNC	8983	protein_coding	YES	CCDS33603.2	ENSP00000255882	.	Q4LE69_HUMAN,J3KN10_HUMAN,C9JLI1_HUMAN	UPI0000E06BD6	.	.	.	55/55	.	SMART_domains:SM00146,hmmpanther:PTHR10048,hmmpanther:PTHR10048:SF15,PROSITE_profiles:PS50290	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATTCTGATA	.	5	BLCA
CCDC116	0	.	GRCh37	22	21989445	21989446	+	Frame_Shift_Ins	INS	-	-	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099dupC	p.Arg367ProfsTer25	p.R367Pfs*25	ENST00000292779	4/5	33	28	5	53	53	0	CCDC116,frameshift_variant,p.Arg367ProfsTer25,ENST00000607942,;CCDC116,frameshift_variant,p.Arg367ProfsTer25,ENST00000292779,;CCDC116,downstream_gene_variant,,ENST00000425975,;	C	ENSG00000161180	ENST00000292779	Transcript	frameshift_variant	1254-1255	1093-1094	365	S/SX	tcc/tCcc	.	.	.	1	CCDC116	HGNC	26688	protein_coding	YES	CCDS13791.1	ENSP00000292779	CC116_HUMAN	.	UPI00000741C9	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATGCTTCCCCC	.	3	BLCA
BCR	0	.	GRCh37	22	23524036	23524036	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.889C>A	p.Leu297Met	p.L297M	ENST00000305877	1/23	35	30	4	37	37	0	BCR,missense_variant,p.Leu297Met,ENST00000359540,;BCR,missense_variant,p.Leu297Met,ENST00000305877,;BCR,missense_variant,p.Leu297Met,ENST00000398512,;BCR,intron_variant,,ENST00000479188,;BCRP8,upstream_gene_variant,,ENST00000412037,;BCRP8,upstream_gene_variant,,ENST00000593306,;	A	ENSG00000186716	ENST00000305877	Transcript	missense_variant	1640	889	297	L/M	Ctg/Atg	.	.	.	1	BCR	HGNC	1014	protein_coding	YES	CCDS13806.1	ENSP00000303507	BCR_HUMAN	.	UPI000016A088	.	tolerated_low_confidence(0.32)	benign(0)	1/23	.	hmmpanther:PTHR23182:SF3,hmmpanther:PTHR23182	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CGCTCCTGCGC	.	4	BLCA
VPREB3	0	.	GRCh37	22	24095144	24095144	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291C>A	p.%3D	p.A97A	ENST00000248948	2/2	44	37	7	69	69	0	VPREB3,synonymous_variant,p.%3D,ENST00000398465,;VPREB3,synonymous_variant,p.%3D,ENST00000248948,;ZNF70,upstream_gene_variant,,ENST00000341976,;	T	ENSG00000128218	ENST00000248948	Transcript	synonymous_variant	396	291	97	A	gcC/gcA	.	.	.	-1	VPREB3	HGNC	12710	protein_coding	YES	CCDS13813.1	ENSP00000248948	VPRE3_HUMAN	.	UPI0000049DEB	.	.	.	2/2	.	Superfamily_domains:SSF48726,SMART_domains:SM00406,SMART_domains:SM00409,Gene3D:2.60.40.10,Pfam_domain:PF07686,hmmpanther:PTHR23267:SF133,hmmpanther:PTHR23267,PROSITE_profiles:PS50835	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACACAGGCATT	.	5	BLCA
DDT	0	.	GRCh37	22	24313771	24313771	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326G>A	p.Gly109Asp	p.G109D	ENST00000398344	3/3	64	60	4	80	80	0	DDT,missense_variant,p.Gly123Asp,ENST00000404092,;DDT,missense_variant,p.Gly109Asp,ENST00000398344,;DDT,missense_variant,p.Gly109Asp,ENST00000350608,;DDT,missense_variant,p.Gly41Asp,ENST00000428792,;DDTL,3_prime_UTR_variant,,ENST00000215770,;DDT,downstream_gene_variant,,ENST00000430101,;DDT,downstream_gene_variant,,ENST00000403754,;KB-226F1.2,downstream_gene_variant,,ENST00000609736,;DDT,downstream_gene_variant,,ENST00000444947,;	T	ENSG00000099977	ENST00000398344	Transcript	missense_variant	496	326	109	G/D	gGc/gAc	.	.	.	-1	DDT	HGNC	2732	protein_coding	YES	CCDS13820.1	ENSP00000381386	DOPD_HUMAN	Q53Y51_HUMAN	UPI0000163C09	.	deleterious(0)	probably_damaging(1)	3/3	.	Superfamily_domains:SSF55331,Pfam_domain:PF01187,Gene3D:3.30.429.10,hmmpanther:PTHR11954,hmmpanther:PTHR11954:SF23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTGCCAATC	.	2	BLCA
PIWIL3	0	.	GRCh37	22	25150118	25150118	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.840C>G	p.%3D	p.L280L	ENST00000332271	8/21	67	54	12	109	109	0	PIWIL3,synonymous_variant,p.%3D,ENST00000332271,;PIWIL3,synonymous_variant,p.%3D,ENST00000527701,;PIWIL3,synonymous_variant,p.%3D,ENST00000533313,;PIWIL3,non_coding_transcript_exon_variant,,ENST00000532537,;	C	ENSG00000184571	ENST00000332271	Transcript	synonymous_variant	1257	840	280	L	ctC/ctG	.	.	.	-1	PIWIL3	HGNC	18443	protein_coding	YES	CCDS33623.1	ENSP00000330031	PIWL3_HUMAN	.	UPI00002073D6	.	.	.	8/21	.	hmmpanther:PTHR22892:SF28,hmmpanther:PTHR22892,Superfamily_domains:SSF101690	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACAGAGGGT	.	5	BLCA
ADRBK2	0	.	GRCh37	22	26117308	26117308	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1854delA	p.Lys618AsnfsTer7	p.K618Nfs*7	ENST00000324198	20/21	98	81	17	116	116	0	ADRBK2,frameshift_variant,p.Lys618AsnfsTer7,ENST00000324198,;	-	ENSG00000100077	ENST00000324198	Transcript	frameshift_variant	2041	1849	617	K/X	Aaa/aa	.	.	.	1	ADRBK2	HGNC	290	protein_coding	YES	CCDS13832.1	ENSP00000317578	ARBK2_HUMAN	Q8N433_HUMAN	UPI0000050EDB	.	.	.	20/21	.	PROSITE_profiles:PS50003,Pfam_domain:PF00169,Gene3D:2.30.29.30,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAAGACAAAAAA	.	3	BLCA
NF2	0	.	GRCh37	22	30035145	30035145	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.307G>A	p.Glu103Lys	p.E103K	ENST00000338641	3/16	75	64	11	105	105	0	NF2,missense_variant,p.Glu103Lys,ENST00000403435,;NF2,missense_variant,p.Glu61Lys,ENST00000361676,;NF2,missense_variant,p.Glu103Lys,ENST00000338641,;NF2,missense_variant,p.Glu103Lys,ENST00000397789,;NF2,missense_variant,p.Glu103Lys,ENST00000413209,;NF2,missense_variant,p.Glu103Lys,ENST00000361166,;NF2,missense_variant,p.Glu103Lys,ENST00000403999,;NF2,intron_variant,,ENST00000347330,;NF2,intron_variant,,ENST00000353887,;NF2,intron_variant,,ENST00000334961,;NF2,intron_variant,,ENST00000361452,;NF2,intron_variant,,ENST00000432151,;	A	ENSG00000186575	ENST00000338641	Transcript	missense_variant	748	307	103	E/K	Gag/Aag	.	.	.	1	NF2	HGNC	7773	protein_coding	YES	CCDS13861.1	ENSP00000344666	MERL_HUMAN	Q9NRW8_HUMAN	UPI000012EF27	.	deleterious(0.02)	probably_damaging(0.998)	3/16	.	PROSITE_profiles:PS50057,hmmpanther:PTHR23281:SF17,hmmpanther:PTHR23281,PROSITE_patterns:PS00660,Gene3D:1.20.80.10,PIRSF_domain:PIRSF002305,SMART_domains:SM00295,Superfamily_domains:SSF54236,Prints_domain:PR00661	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E106E|c.318A>G|5,BUFFER|p.E106E|c.318A>G|5	RADIA|MUTECT|MUSE|VARSCANS	ATCCTGAGAAT	.	4	BLCA
SEC14L2	0	.	GRCh37	22	30803541	30803541	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372G>A	p.%3D	p.K124K	ENST00000312932	5/12	57	51	6	110	110	0	SEC14L2,synonymous_variant,p.%3D,ENST00000405717,;SEC14L2,synonymous_variant,p.%3D,ENST00000312932,;SEC14L2,synonymous_variant,p.%3D,ENST00000403484,;SEC14L2,synonymous_variant,p.%3D,ENST00000428195,;SEC14L2,intron_variant,,ENST00000402592,;RNF215,intron_variant,,ENST00000431544,;RP4-539M6.19,upstream_gene_variant,,ENST00000439023,;SEC14L2,downstream_gene_variant,,ENST00000429917,;SEC14L2,downstream_gene_variant,,ENST00000415072,;RP4-539M6.19,upstream_gene_variant,,ENST00000439838,;SEC14L2,non_coding_transcript_exon_variant,,ENST00000459728,;SEC14L2,non_coding_transcript_exon_variant,,ENST00000416523,;SEC14L2,3_prime_UTR_variant,,ENST00000452649,;SEC14L2,3_prime_UTR_variant,,ENST00000437022,;SEC14L2,non_coding_transcript_exon_variant,,ENST00000467218,;SEC14L2,non_coding_transcript_exon_variant,,ENST00000464335,;SEC14L2,upstream_gene_variant,,ENST00000478762,;SEC14L2,upstream_gene_variant,,ENST00000483116,;RP4-539M6.19,upstream_gene_variant,,ENST00000454552,;	A	ENSG00000100003	ENST00000312932	Transcript	synonymous_variant	632	372	124	K	aaG/aaA	.	.	.	1	SEC14L2	HGNC	10699	protein_coding	YES	CCDS13876.1	ENSP00000316203	S14L2_HUMAN	C9JZI9_HUMAN,B7Z3Z8_HUMAN	UPI0000135433	.	.	.	5/12	.	PROSITE_profiles:PS50191,hmmpanther:PTHR23324,hmmpanther:PTHR23324:SF64,Gene3D:3.40.525.10,Pfam_domain:PF00650,SMART_domains:SM00516,Superfamily_domains:SSF52087	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	ACCAAGATGCG	.	3	BLCA
CSF2RB	0	.	GRCh37	22	37333546	37333546	+	Frame_Shift_Del	DEL	C	C	-	rs757082963	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1701delC	p.Ser568AlafsTer130	p.S568Afs*130	ENST00000403662	14/14	39	31	8	36	36	0	CSF2RB,frameshift_variant,p.Ser515AlafsTer130,ENST00000536485,;CSF2RB,frameshift_variant,p.Ser574AlafsTer130,ENST00000406230,;CSF2RB,frameshift_variant,p.Ser568AlafsTer130,ENST00000403662,;CSF2RB,frameshift_variant,p.Ser574AlafsTer130,ENST00000262825,;	-	ENSG00000100368	ENST00000403662	Transcript	frameshift_variant	1918	1696	566	P/X	Ccc/cc	rs757082963,COSM1416100	.	.	1	CSF2RB	HGNC	2436	protein_coding	YES	CCDS13936.1	ENSP00000384053	IL3RB_HUMAN	B0QY07_HUMAN	UPI0000128C9F	.	.	.	14/14	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF001956,hmmpanther:PTHR23037,hmmpanther:PTHR23037:SF22	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	deletion	.	5	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	GAGCAGCCCCCC	.	2	BLCA
POLR2F	0	.	GRCh37	22	38421637	38421637	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345C>A	p.%3D	p.A115A	ENST00000405557	5/5	19	16	3	16	16	0	POLR2F,synonymous_variant,p.%3D,ENST00000405557,;POLR2F,intron_variant,,ENST00000407936,;POLR2F,intron_variant,,ENST00000333418,;POLR2F,intron_variant,,ENST00000427034,;	A	ENSG00000100142	ENST00000405557	Transcript	synonymous_variant	422	345	115	A	gcC/gcA	.	.	.	1	POLR2F	HGNC	9193	protein_coding	.	.	ENSP00000384112	.	U3KQS8_HUMAN,B0QYL8_HUMAN	UPI0000E06F0B	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGGCCCACAG	.	2	BLCA
MPPED1	0	.	GRCh37	22	43821217	43821217	+	Splice_Site	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.224+2T>C	.	p.X75_splice	ENST00000417669	.	31	26	4	38	38	0	MPPED1,splice_donor_variant,,ENST00000542779,;MPPED1,splice_donor_variant,,ENST00000443721,;MPPED1,splice_donor_variant,,ENST00000538182,;MPPED1,splice_donor_variant,,ENST00000334209,;MPPED1,splice_donor_variant,,ENST00000417669,;MPPED1,intron_variant,,ENST00000439548,;MPPED1,intron_variant,,ENST00000414469,;MPPED1,downstream_gene_variant,,ENST00000447567,;MPPED1,non_coding_transcript_exon_variant,,ENST00000480239,;	C	ENSG00000186732	ENST00000417669	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	1	MPPED1	HGNC	1306	protein_coding	YES	CCDS46723.1	ENSP00000388137	MPPD1_HUMAN	Q20WK9_HUMAN,F5H6C9_HUMAN,B4DS06_HUMAN,B1AH63_HUMAN,B1AH62_HUMAN	UPI000006DF41	.	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATGTAAGTG	.	2	BLCA
SMC1B	0	.	GRCh37	22	45804756	45804756	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.133C>A	p.Leu45Ile	p.L45I	ENST00000357450	2/25	106	101	5	92	92	0	SMC1B,missense_variant,p.Leu45Ile,ENST00000357450,;SMC1B,missense_variant,p.Leu45Ile,ENST00000404354,;RIBC2,upstream_gene_variant,,ENST00000342894,;RIBC2,upstream_gene_variant,,ENST00000538017,;	T	ENSG00000077935	ENST00000357450	Transcript	missense_variant	133	133	45	L/I	Ctt/Att	.	.	.	-1	SMC1B	HGNC	11112	protein_coding	YES	CCDS43027.1	ENSP00000350036	SMC1B_HUMAN	.	UPI000042146E	.	tolerated(0.92)	possibly_damaging(0.843)	2/25	.	hmmpanther:PTHR18937,hmmpanther:PTHR18937:SF147,Pfam_domain:PF02463,Gene3D:3.40.50.300,PIRSF_domain:PIRSF005719,Superfamily_domains:SSF52540,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTAAGTGCAT	.	2	BLCA
NCK2	0	.	GRCh37	2	106497939	106497939	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.382G>A	p.Asp128Asn	p.D128N	ENST00000233154	4/5	56	50	6	54	54	0	NCK2,missense_variant,p.Asp128Asn,ENST00000233154,;NCK2,missense_variant,p.Asp128Asn,ENST00000393349,;NCK2,missense_variant,p.Asp128Asn,ENST00000393348,;NCK2,intron_variant,,ENST00000522586,;NCK2,intron_variant,,ENST00000451463,;NCK2,downstream_gene_variant,,ENST00000425756,;	A	ENSG00000071051	ENST00000233154	Transcript	missense_variant	824	382	128	D/N	Gat/Aat	.	.	.	1	NCK2	HGNC	7665	protein_coding	YES	CCDS33266.1	ENSP00000233154	NCK2_HUMAN	Q53TG4_HUMAN,Q53T91_HUMAN,E9PEE2_HUMAN,E7EPF5_HUMAN	UPI000012FE3F	.	deleterious(0)	probably_damaging(0.999)	4/5	.	PROSITE_profiles:PS50002,hmmpanther:PTHR22820,hmmpanther:PTHR22820:SF29,Pfam_domain:PF14604,Gene3D:2.30.30.40,SMART_domains:SM00326,PIRSF_domain:PIRSF037874,Superfamily_domains:SSF50044,Prints_domain:PR00452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGAGGATGAG	.	4	BLCA
NPHP1	0	.	GRCh37	2	110922195	110922195	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.841G>C	p.Glu281Gln	p.E281Q	ENST00000316534	8/20	218	169	48	275	275	0	NPHP1,missense_variant,p.Glu281Gln,ENST00000316534,;NPHP1,missense_variant,p.Glu281Gln,ENST00000393272,;NPHP1,intron_variant,,ENST00000445609,;NPHP1,intron_variant,,ENST00000355301,;NPHP1,intron_variant,,ENST00000417665,;NPHP1,non_coding_transcript_exon_variant,,ENST00000496524,;NPHP1,non_coding_transcript_exon_variant,,ENST00000461707,;	G	ENSG00000144061	ENST00000316534	Transcript	missense_variant	915	841	281	E/Q	Gag/Cag	.	.	.	-1	NPHP1	HGNC	7905	protein_coding	YES	CCDS2086.1	ENSP00000313169	NPHP1_HUMAN	.	UPI0000358960	.	deleterious(0.04)	benign(0.005)	8/20	.	hmmpanther:PTHR15176:SF1,hmmpanther:PTHR15176	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCCATCC	.	5	BLCA
UGGT1	0	.	GRCh37	2	128903486	128903486	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1961T>C	p.Ile654Thr	p.I654T	ENST00000259253	18/41	100	77	22	110	110	0	UGGT1,missense_variant,p.Ile654Thr,ENST00000259253,;UGGT1,missense_variant,p.Ile630Thr,ENST00000375990,;UGGT1,3_prime_UTR_variant,,ENST00000376723,;UGGT1,3_prime_UTR_variant,,ENST00000438277,;UGGT1,non_coding_transcript_exon_variant,,ENST00000488439,;	C	ENSG00000136731	ENST00000259253	Transcript	missense_variant	2008	1961	654	I/T	aTc/aCc	.	.	.	1	UGGT1	HGNC	15663	protein_coding	YES	CCDS2154.1	ENSP00000259253	UGGG1_HUMAN	.	UPI00000707D8	.	tolerated(0.22)	benign(0.002)	18/41	.	hmmpanther:PTHR11226:SF3,hmmpanther:PTHR11226	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AACCATCACAA	.	5	BLCA
MGAT5	0	.	GRCh37	2	135012105	135012105	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.131C>T	p.Ser44Phe	p.S44F	ENST00000409645	2/17	28	24	4	51	51	0	MGAT5,missense_variant,p.Ser44Phe,ENST00000281923,;MGAT5,missense_variant,p.Ser44Phe,ENST00000409645,;MGAT5,non_coding_transcript_exon_variant,,ENST00000468758,;MGAT5,non_coding_transcript_exon_variant,,ENST00000481801,;MGAT5,downstream_gene_variant,,ENST00000488365,;	T	ENSG00000152127	ENST00000409645	Transcript	missense_variant	383	131	44	S/F	tCc/tTc	.	.	.	1	MGAT5	HGNC	7049	protein_coding	YES	CCDS2171.1	ENSP00000386377	MGT5A_HUMAN	Q71VM6_HUMAN,Q53SZ9_HUMAN,Q53SV8_HUMAN,Q53SM9_HUMAN	UPI0000049D8F	.	tolerated(0.32)	benign(0.367)	2/17	.	Pfam_domain:PF15027,hmmpanther:PTHR15075:SF3,hmmpanther:PTHR15075	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CAGCTCCATGC	.	3	BLCA
NEB	0	.	GRCh37	2	152420152	152420152	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.18661C>T	p.His6221Tyr	p.H6221Y	ENST00000397345	119/182	220	185	35	312	312	0	NEB,missense_variant,p.His6221Tyr,ENST00000603639,;NEB,missense_variant,p.His4520Tyr,ENST00000172853,;NEB,missense_variant,p.His6221Tyr,ENST00000427231,;NEB,missense_variant,p.His6221Tyr,ENST00000397345,;NEB,missense_variant,p.His6221Tyr,ENST00000604864,;NEB,missense_variant,p.His951Tyr,ENST00000413693,;NEB,missense_variant,p.His4520Tyr,ENST00000409198,;	A	ENSG00000183091	ENST00000397345	Transcript	missense_variant	18864	18661	6221	H/Y	Cac/Tac	.	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	probably_damaging(0.955)	119/182	.	PROSITE_profiles:PS51216,hmmpanther:PTHR11039:SF37,hmmpanther:PTHR11039,SMART_domains:SM00227	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAGTGAACCA	.	4	BLCA
NEB	0	.	GRCh37	2	152467029	152467029	+	Splice_Site	SNP	C	C	T	rs762278237,rs781478512	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12018+1G>A	.	p.X4006_splice	ENST00000397345	.	66	56	9	84	84	0	NEB,splice_donor_variant,,ENST00000603639,;NEB,splice_donor_variant,,ENST00000172853,;NEB,splice_donor_variant,,ENST00000427231,;NEB,splice_donor_variant,,ENST00000397345,;NEB,splice_donor_variant,,ENST00000604864,;NEB,splice_donor_variant,,ENST00000409198,;	T	ENSG00000183091	ENST00000397345	Transcript	splice_donor_variant	.	.	.	.	.	rs762278237,rs781478512,NEB:c.12018+1G>A	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	.	.	80/181	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTCACGTCAC	byFrequency	4	BLCA
NEB	0	.	GRCh37	2	152553691	152553691	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1441G>A	p.Ala481Thr	p.A481T	ENST00000397345	16/182	45	39	6	47	47	0	NEB,missense_variant,p.Ala481Thr,ENST00000603639,;NEB,missense_variant,p.Ala481Thr,ENST00000172853,;NEB,missense_variant,p.Ala481Thr,ENST00000427231,;NEB,missense_variant,p.Ala481Thr,ENST00000397345,;NEB,missense_variant,p.Ala481Thr,ENST00000604864,;NEB,missense_variant,p.Ala481Thr,ENST00000409198,;NEB,non_coding_transcript_exon_variant,,ENST00000489048,;	T	ENSG00000183091	ENST00000397345	Transcript	missense_variant	1644	1441	481	A/T	Gca/Aca	.	.	.	-1	NEB	HGNC	7720	protein_coding	YES	CCDS54407.1	ENSP00000380505	.	H7C2D0_HUMAN,F8WCL5_HUMAN	UPI0002065BA0	.	.	benign(0.019)	16/182	.	hmmpanther:PTHR11039:SF37,hmmpanther:PTHR11039	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATTGCTTCAT	.	4	BLCA
BAZ2B	0	.	GRCh37	2	160289269	160289269	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1899A>G	p.%3D	p.S633S	ENST00000392783	9/37	41	38	3	39	39	0	BAZ2B,synonymous_variant,p.%3D,ENST00000355831,;BAZ2B,synonymous_variant,p.%3D,ENST00000392782,;BAZ2B,synonymous_variant,p.%3D,ENST00000441143,;BAZ2B,synonymous_variant,p.%3D,ENST00000343439,;BAZ2B,synonymous_variant,p.%3D,ENST00000392783,;BAZ2B,splice_region_variant,,ENST00000472953,;BAZ2B,downstream_gene_variant,,ENST00000467184,;	C	ENSG00000123636	ENST00000392783	Transcript	synonymous_variant	2395	1899	633	S	tcA/tcG	.	.	.	-1	BAZ2B	HGNC	963	protein_coding	YES	CCDS2209.2	ENSP00000376534	BAZ2B_HUMAN	Q8NC87_HUMAN,Q53TG3_HUMAN,C9JCA6_HUMAN	UPI0000D74C4A	.	.	.	9/37	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF144,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAACCTGATTG	.	2	BLCA
BAZ2B	0	.	GRCh37	2	160289481	160289481	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1687G>T	p.Gly563Trp	p.G563W	ENST00000392783	9/37	143	117	26	178	178	0	BAZ2B,missense_variant,p.Gly563Trp,ENST00000355831,;BAZ2B,missense_variant,p.Gly561Trp,ENST00000392782,;BAZ2B,missense_variant,p.Gly561Trp,ENST00000343439,;BAZ2B,missense_variant,p.Gly563Trp,ENST00000392783,;BAZ2B,upstream_gene_variant,,ENST00000441143,;BAZ2B,non_coding_transcript_exon_variant,,ENST00000472953,;BAZ2B,downstream_gene_variant,,ENST00000467184,;	A	ENSG00000123636	ENST00000392783	Transcript	missense_variant	2183	1687	563	G/W	Ggg/Tgg	COSM69800,COSM1400344	.	.	-1	BAZ2B	HGNC	963	protein_coding	YES	CCDS2209.2	ENSP00000376534	BAZ2B_HUMAN	Q8NC87_HUMAN,Q53TG3_HUMAN,C9JCA6_HUMAN	UPI0000D74C4A	.	.	probably_damaging(0.965)	9/37	.	hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF144	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.G563W|c.1687G>T|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCCCTTGAC	.	5	BLCA
ITGB6	0	.	GRCh37	2	160994700	160994700	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1118C>G	p.Ser373Cys	p.S373C	ENST00000283249	9/15	92	80	12	121	121	0	ITGB6,missense_variant,p.Ser331Cys,ENST00000428609,;ITGB6,missense_variant,p.Ser373Cys,ENST00000409872,;ITGB6,missense_variant,p.Ser373Cys,ENST00000409967,;ITGB6,missense_variant,p.Ser373Cys,ENST00000283249,;ITGB6,downstream_gene_variant,,ENST00000485635,;ITGB6,3_prime_UTR_variant,,ENST00000409583,;	C	ENSG00000115221	ENST00000283249	Transcript	missense_variant	1356	1118	373	S/C	tCt/tGt	.	.	.	-1	ITGB6	HGNC	6161	protein_coding	YES	CCDS2212.1	ENSP00000283249	ITB6_HUMAN	.	UPI000012DA13	.	deleterious(0)	probably_damaging(1)	9/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10082,hmmpanther:PTHR10082:SF11,Pfam_domain:PF00362,PIRSF_domain:PIRSF002512,SMART_domains:SM00187,Superfamily_domains:SSF69179,Superfamily_domains:SSF53300	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTCAGACCGC	.	4	BLCA
SLC4A10	0	.	GRCh37	2	162821630	162821630	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3106G>C	p.Asp1036His	p.D1036H	ENST00000446997	23/27	52	43	9	47	47	0	SLC4A10,missense_variant,p.Asp1036His,ENST00000446997,;SLC4A10,missense_variant,p.Asp1036His,ENST00000421911,;SLC4A10,missense_variant,p.Asp1006His,ENST00000272716,;SLC4A10,missense_variant,p.Asp1017His,ENST00000375514,;SLC4A10,missense_variant,p.Asp1006His,ENST00000415876,;SLC4A10,3_prime_UTR_variant,,ENST00000446228,;	C	ENSG00000144290	ENST00000446997	Transcript	missense_variant	3199	3106	1036	D/H	Gat/Cat	.	.	.	1	SLC4A10	HGNC	13811	protein_coding	YES	CCDS54411.1	ENSP00000393066	S4A10_HUMAN	.	UPI00001D4707	.	deleterious(0)	probably_damaging(0.999)	23/27	.	hmmpanther:PTHR11453:SF32,hmmpanther:PTHR11453,TIGRFAM_domain:TIGR00834	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTTGGATGAT	.	5	BLCA
COBLL1	0	.	GRCh37	2	165578680	165578680	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.901C>T	p.Pro301Ser	p.P301S	ENST00000342193	6/14	72	61	11	82	82	0	COBLL1,missense_variant,p.Pro301Ser,ENST00000375458,;COBLL1,missense_variant,p.Pro339Ser,ENST00000409184,;COBLL1,missense_variant,p.Pro301Ser,ENST00000342193,;COBLL1,missense_variant,p.Pro339Ser,ENST00000392717,;COBLL1,missense_variant,p.Pro367Ser,ENST00000194871,;COBLL1,downstream_gene_variant,,ENST00000452626,;COBLL1,downstream_gene_variant,,ENST00000456693,;COBLL1,intron_variant,,ENST00000491126,;COBLL1,intron_variant,,ENST00000434366,;COBLL1,missense_variant,p.Pro314Ser,ENST00000456171,;COBLL1,non_coding_transcript_exon_variant,,ENST00000474975,;COBLL1,non_coding_transcript_exon_variant,,ENST00000493868,;	A	ENSG00000082438	ENST00000342193	Transcript	missense_variant	1117	901	301	P/S	Cca/Tca	.	.	.	-1	COBLL1	HGNC	23571	protein_coding	YES	CCDS2223.2	ENSP00000341360	COBL1_HUMAN	C9JWZ0_HUMAN,C9JAU3_HUMAN,B3KMG7_HUMAN	UPI000007132B	.	tolerated(0.2)	benign(0.05)	6/14	.	hmmpanther:PTHR21557:SF2,hmmpanther:PTHR21557	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGCTGGCATCG	.	4	BLCA
GALNT3	0	.	GRCh37	2	166621536	166621536	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.546T>C	p.%3D	p.P182P	ENST00000392701	3/11	58	45	12	71	71	0	GALNT3,synonymous_variant,p.%3D,ENST00000412248,;GALNT3,synonymous_variant,p.%3D,ENST00000392701,;GALNT3,upstream_gene_variant,,ENST00000409882,;GALNT3,upstream_gene_variant,,ENST00000463254,;GALNT3,upstream_gene_variant,,ENST00000437849,;	G	ENSG00000115339	ENST00000392701	Transcript	synonymous_variant	1322	546	182	P	ccT/ccC	.	.	.	-1	GALNT3	HGNC	4125	protein_coding	YES	CCDS2226.1	ENSP00000376465	GALT3_HUMAN	C9JXX2_HUMAN,C9JW45_HUMAN,C9J388_HUMAN,C9J2C3_HUMAN	UPI000013C989	.	.	.	3/11	.	hmmpanther:PTHR11675:SF33,hmmpanther:PTHR11675,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGGGAGGGCA	.	5	BLCA
XIRP2	0	.	GRCh37	2	168067275	168067275	+	Missense_Mutation	SNP	G	G	A	rs747313573	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.593G>A	p.Gly198Glu	p.G198E	ENST00000409195	4/11	175	145	29	222	222	0	XIRP2,missense_variant,p.Gly198Glu,ENST00000409195,;XIRP2,missense_variant,p.Gly231Glu,ENST00000420519,;XIRP2,missense_variant,p.Gly198Glu,ENST00000409756,;XIRP2,missense_variant,p.Gly198Glu,ENST00000409043,;XIRP2,missense_variant,p.Gly231Glu,ENST00000409728,;XIRP2,missense_variant,p.Gly198Glu,ENST00000295237,;XIRP2,5_prime_UTR_variant,,ENST00000409605,;XIRP2,5_prime_UTR_variant,,ENST00000409273,;	A	ENSG00000163092	ENST00000409195	Transcript	missense_variant	682	593	198	G/E	gGa/gAa	rs747313573	.	.	1	XIRP2	HGNC	14303	protein_coding	YES	CCDS42769.1	ENSP00000386840	.	J3KNB1_HUMAN	UPI0000E9BBED	.	.	benign(0.086)	4/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGTGGATTTG	.	4	BLCA
DHRS9	0	.	GRCh37	2	169938339	169938339	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.248A>T	p.Asp83Val	p.D83V	ENST00000327239	5/8	45	37	8	67	67	0	DHRS9,missense_variant,p.Asp83Val,ENST00000602501,;DHRS9,missense_variant,p.Asp83Val,ENST00000327239,;DHRS9,missense_variant,p.Asp83Val,ENST00000436483,;DHRS9,missense_variant,p.Asp143Val,ENST00000432060,;DHRS9,missense_variant,p.Asp83Val,ENST00000428522,;DHRS9,missense_variant,p.Asp83Val,ENST00000357546,;DHRS9,missense_variant,p.Asp83Val,ENST00000412271,;DHRS9,5_prime_UTR_variant,,ENST00000421653,;DHRS9,downstream_gene_variant,,ENST00000450153,;	T	ENSG00000073737	ENST00000327239	Transcript	missense_variant	1752	248	83	D/V	gAt/gTt	.	.	.	1	DHRS9	HGNC	16888	protein_coding	YES	CCDS2231.1	ENSP00000316670	DHRS9_HUMAN	Q53TL1_HUMAN,Q4ZG83_HUMAN,C9J430_HUMAN	UPI00000389D3	.	deleterious(0)	probably_damaging(0.999)	5/8	.	Superfamily_domains:SSF51735,Pfam_domain:PF00106,Gene3D:3.40.50.720,hmmpanther:PTHR24316:SF266,hmmpanther:PTHR24316	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTGGATGTGA	.	5	BLCA
SLC25A12	0	.	GRCh37	2	172690501	172690501	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.817C>T	p.Gln273Ter	p.Q273*	ENST00000422440	8/18	128	104	24	151	151	0	SLC25A12,stop_gained,p.Gln273Ter,ENST00000422440,;SLC25A12,stop_gained,p.Gln166Ter,ENST00000392592,;SLC25A12,3_prime_UTR_variant,,ENST00000263812,;SLC25A12,non_coding_transcript_exon_variant,,ENST00000485880,;SLC25A12,downstream_gene_variant,,ENST00000426896,;SLC25A12,downstream_gene_variant,,ENST00000475360,;	A	ENSG00000115840	ENST00000422440	Transcript	stop_gained	855	817	273	Q/*	Cag/Tag	.	.	.	-1	SLC25A12	HGNC	10982	protein_coding	YES	CCDS33327.1	ENSP00000388658	CMC1_HUMAN	.	UPI0000070D4E	.	.	.	8/18	.	Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGATATA	.	5	BLCA
DFNB59	0	.	GRCh37	2	179326069	179326069	+	3'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*68C>G	.	.	ENST00000409117	7/7	37	28	9	40	40	0	DFNB59,3_prime_UTR_variant,,ENST00000409117,;DFNB59,downstream_gene_variant,,ENST00000442710,;FKBP7,downstream_gene_variant,,ENST00000434643,;DFNB59,downstream_gene_variant,,ENST00000375129,;FKBP7,downstream_gene_variant,,ENST00000424785,;FKBP7,downstream_gene_variant,,ENST00000470945,;FKBP7,downstream_gene_variant,,ENST00000464248,;DFNB59,downstream_gene_variant,,ENST00000605419,;FKBP7,downstream_gene_variant,,ENST00000233092,;FKBP7,downstream_gene_variant,,ENST00000419184,;DFNB59,downstream_gene_variant,,ENST00000444615,;FKBP7,downstream_gene_variant,,ENST00000435079,;DFNB59,downstream_gene_variant,,ENST00000437056,;	G	ENSG00000204311	ENST00000409117	Transcript	3_prime_UTR_variant	1483	.	.	.	.	.	.	.	1	DFNB59	HGNC	29502	protein_coding	YES	CCDS42787.1	ENSP00000386647	PJVK_HUMAN	A0PK15_HUMAN	UPI0000DAD718	.	.	.	7/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTATCTAGGT	.	5	BLCA
TTN	0	.	GRCh37	2	179403819	179403819	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98843A>G	p.Asn32948Ser	p.N32948S	ENST00000589042	353/363	83	71	12	109	109	0	TTN,missense_variant,p.Asn24008Ser,ENST00000359218,;TTN,missense_variant,p.Asn23883Ser,ENST00000460472,;TTN,missense_variant,p.Asn31307Ser,ENST00000591111,;TTN,missense_variant,p.Asn32948Ser,ENST00000589042,;TTN,missense_variant,p.Asn24075Ser,ENST00000342175,;TTN,missense_variant,p.Asn30380Ser,ENST00000342992,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000589434,;TTN-AS1,non_coding_transcript_exon_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000590040,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,upstream_gene_variant,,ENST00000438095,;TTN-AS1,downstream_gene_variant,,ENST00000588716,;TTN-AS1,downstream_gene_variant,,ENST00000589391,;RP11-65L3.4,upstream_gene_variant,,ENST00000604692,;TTN-AS1,downstream_gene_variant,,ENST00000592182,;TTN-AS1,downstream_gene_variant,,ENST00000592836,;TTN-AS1,downstream_gene_variant,,ENST00000591466,;TTN-AS1,downstream_gene_variant,,ENST00000591867,;TTN-AS1,downstream_gene_variant,,ENST00000415561,;TTN-AS1,downstream_gene_variant,,ENST00000585358,;TTN-AS1,downstream_gene_variant,,ENST00000589842,;TTN-AS1,downstream_gene_variant,,ENST00000450692,;TTN-AS1,downstream_gene_variant,,ENST00000442329,;TTN-AS1,downstream_gene_variant,,ENST00000431259,;TTN-AS1,downstream_gene_variant,,ENST00000588257,;TTN-AS1,downstream_gene_variant,,ENST00000588244,;TTN-AS1,downstream_gene_variant,,ENST00000588804,;TTN-AS1,upstream_gene_variant,,ENST00000590932,;TTN-AS1,downstream_gene_variant,,ENST00000585487,;	C	ENSG00000155657	ENST00000589042	Transcript	missense_variant	99068	98843	32948	N/S	aAc/aGc	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	353/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTGTTGTGT	.	5	BLCA
TTN	0	.	GRCh37	2	179439394	179439394	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71465A>G	p.Tyr23822Cys	p.Y23822C	ENST00000589042	326/363	80	66	14	116	116	0	TTN,missense_variant,p.Tyr14882Cys,ENST00000359218,;TTN,missense_variant,p.Tyr22181Cys,ENST00000591111,;TTN,missense_variant,p.Tyr23822Cys,ENST00000589042,;TTN,missense_variant,p.Tyr14949Cys,ENST00000342175,;TTN,missense_variant,p.Tyr21254Cys,ENST00000342992,;TTN,missense_variant,p.Tyr14757Cys,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;RP11-171I2.2,upstream_gene_variant,,ENST00000603521,;RP11-171I2.5,upstream_gene_variant,,ENST00000604215,;	C	ENSG00000155657	ENST00000589042	Transcript	missense_variant	71690	71465	23822	Y/C	tAt/tGt	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ATGGATAGTTG	.	5	BLCA
TTN	0	.	GRCh37	2	179621091	179621091	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11112G>A	p.%3D	p.E3704E	ENST00000589042	46/363	64	50	14	65	65	0	TTN,synonymous_variant,p.%3D,ENST00000342175,;TTN,synonymous_variant,p.%3D,ENST00000589042,;TTN,intron_variant,,ENST00000360870,;TTN,intron_variant,,ENST00000359218,;TTN,intron_variant,,ENST00000342992,;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000590773,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000578746,;TTN-AS1,upstream_gene_variant,,ENST00000610005,;	T	ENSG00000155657	ENST00000589042	Transcript	synonymous_variant	11337	11112	3704	E	gaG/gaA	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	46/363	.	PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,SMART_domains:SM00406,SMART_domains:SM00408,Superfamily_domains:SSF48726	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCTCGGA	.	5	BLCA
FAM171B	0	.	GRCh37	2	187626804	187626804	+	Silent	SNP	C	C	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1735C>A	p.%3D	p.R579R	ENST00000304698	8/8	36	29	6	53	53	0	FAM171B,synonymous_variant,p.%3D,ENST00000304698,;	A	ENSG00000144369	ENST00000304698	Transcript	synonymous_variant	1938	1735	579	R	Cga/Aga	COSM1721909	.	.	1	FAM171B	HGNC	29412	protein_coding	YES	CCDS33347.1	ENSP00000304108	F171B_HUMAN	A8K122_HUMAN	UPI0000161631	.	.	.	8/8	.	Pfam_domain:PF10577,hmmpanther:PTHR31626,hmmpanther:PTHR31626:SF2	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.R579Q|c.1736G>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATCGAGAG	.	5	BLCA
GTF3C3	0	.	GRCh37	2	197664327	197664327	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9G>A	p.%3D	p.G3G	ENST00000263956	1/18	104	97	6	129	129	0	GTF3C3,synonymous_variant,p.%3D,ENST00000409364,;GTF3C3,synonymous_variant,p.%3D,ENST00000263956,;GTF3C3,synonymous_variant,p.%3D,ENST00000448539,;GTF3C3,synonymous_variant,p.%3D,ENST00000451088,;GTF3C3,upstream_gene_variant,,ENST00000455546,;	T	ENSG00000119041	ENST00000263956	Transcript	synonymous_variant	99	9	3	G	ggG/ggA	COSM4089884	.	.	-1	GTF3C3	HGNC	4666	protein_coding	YES	CCDS2316.1	ENSP00000263956	TF3C3_HUMAN	.	UPI0000070C01	.	.	.	1/18	.	hmmpanther:PTHR23082	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGAACCCTGA	.	2	BLCA
WDR35	0	.	GRCh37	2	20130270	20130270	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3041C>G	p.Ser1014Cys	p.S1014C	ENST00000345530	26/28	78	66	12	99	99	0	WDR35,missense_variant,p.Ser487Cys,ENST00000416055,;WDR35,missense_variant,p.Ser1014Cys,ENST00000345530,;WDR35,missense_variant,p.Ser1003Cys,ENST00000281405,;WDR35,downstream_gene_variant,,ENST00000453014,;WDR35,3_prime_UTR_variant,,ENST00000414212,;WDR35,3_prime_UTR_variant,,ENST00000445063,;	C	ENSG00000118965	ENST00000345530	Transcript	missense_variant	3157	3041	1014	S/C	tCt/tGt	.	.	.	-1	WDR35	HGNC	29250	protein_coding	YES	CCDS33152.1	ENSP00000314444	WDR35_HUMAN	.	UPI000034E5D3	.	tolerated(0.08)	probably_damaging(0.997)	26/28	.	hmmpanther:PTHR16517:SF1,hmmpanther:PTHR16517,PIRSF_domain:PIRSF037536	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTAGACAGA	.	5	BLCA
TRAK2	0	.	GRCh37	2	202260126	202260126	+	Missense_Mutation	SNP	A	A	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.811T>G	p.Ser271Ala	p.S271A	ENST00000332624	8/16	141	123	18	188	188	0	TRAK2,missense_variant,p.Ser271Ala,ENST00000332624,;TRAK2,missense_variant,p.Ser271Ala,ENST00000430254,;STRADB,intron_variant,,ENST00000458269,;TRAK2,downstream_gene_variant,,ENST00000486291,;	C	ENSG00000115993	ENST00000332624	Transcript	missense_variant	1240	811	271	S/A	Tca/Gca	.	.	.	-1	TRAK2	HGNC	13206	protein_coding	YES	CCDS2347.1	ENSP00000328875	TRAK2_HUMAN	Q53TT7_HUMAN,Q53RS6_HUMAN	UPI0000125022	.	tolerated(1)	benign(0.173)	8/16	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15751:SF13,hmmpanther:PTHR15751,Pfam_domain:PF04849	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCTGACAATT	.	4	BLCA
NOP58	0	.	GRCh37	2	203160400	203160400	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.911C>T	p.Ser304Phe	p.S304F	ENST00000264279	10/15	125	108	17	151	151	0	NOP58,missense_variant,p.Ser304Phe,ENST00000264279,;SNORD11,downstream_gene_variant,,ENST00000459124,;SNORD11B,downstream_gene_variant,,ENST00000607707,;NOP58,upstream_gene_variant,,ENST00000478508,;NOP58,downstream_gene_variant,,ENST00000492688,;NOP58,intron_variant,,ENST00000433543,;	T	ENSG00000055044	ENST00000264279	Transcript	missense_variant	1137	911	304	S/F	tCt/tTt	.	.	.	1	NOP58	HGNC	29926	protein_coding	YES	CCDS2353.1	ENSP00000264279	NOP58_HUMAN	.	UPI0000130366	.	deleterious(0)	probably_damaging(0.992)	10/15	.	Superfamily_domains:SSF89124,Pfam_domain:PF01798,hmmpanther:PTHR10894,PROSITE_profiles:PS51358	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGTTCTCTTT	.	4	BLCA
RAPH1	0	.	GRCh37	2	204304414	204304414	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3499G>A	p.Ala1167Thr	p.A1167T	ENST00000319170	14/14	79	72	7	108	108	0	RAPH1,missense_variant,p.Ala1219Thr,ENST00000374493,;RAPH1,missense_variant,p.Ala1167Thr,ENST00000319170,;ABI2,3_prime_UTR_variant,,ENST00000295851,;RAPH1,intron_variant,,ENST00000457812,;RAPH1,downstream_gene_variant,,ENST00000423104,;RAPH1,downstream_gene_variant,,ENST00000419464,;RAPH1,downstream_gene_variant,,ENST00000374488,;RAPH1,downstream_gene_variant,,ENST00000439222,;RAPH1,downstream_gene_variant,,ENST00000374489,;RAPH1,downstream_gene_variant,,ENST00000453034,;RAPH1,downstream_gene_variant,,ENST00000308091,;ABI2,downstream_gene_variant,,ENST00000464761,;	T	ENSG00000173166	ENST00000319170	Transcript	missense_variant	3799	3499	1167	A/T	Gct/Act	.	.	.	-1	RAPH1	HGNC	14436	protein_coding	YES	CCDS2359.1	ENSP00000316543	RAPH1_HUMAN	C9JLG4_HUMAN	UPI000020940F	.	.	unknown(0)	14/14	.	hmmpanther:PTHR11243,hmmpanther:PTHR11243:SF15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTCAGCCAGGA	.	3	BLCA
RHOB	0	.	GRCh37	2	20647415	20647415	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.189G>T	p.Gln63His	p.Q63H	ENST00000272233	1/1	100	85	15	114	114	0	RHOB,missense_variant,p.Gln63His,ENST00000272233,;AC023137.2,upstream_gene_variant,,ENST00000448241,;	T	ENSG00000143878	ENST00000272233	Transcript	missense_variant	581	189	63	Q/H	caG/caT	.	.	.	1	RHOB	HGNC	668	protein_coding	YES	CCDS1699.1	ENSP00000272233	RHOB_HUMAN	B4DMJ8_HUMAN	UPI0000021989	.	deleterious(0)	probably_damaging(0.987)	1/1	.	PROSITE_profiles:PS51420,hmmpanther:PTHR24072:SF100,hmmpanther:PTHR24072,Gene3D:3.40.50.300,Pfam_domain:PF00071,TIGRFAM_domain:TIGR00231,SMART_domains:SM00173,SMART_domains:SM00175,SMART_domains:SM00174,Superfamily_domains:SSF52540,Prints_domain:PR00449	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCAGGAGGA	.	4	BLCA
ZDBF2	0	.	GRCh37	2	207172283	207172283	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3031G>A	p.Val1011Ile	p.V1011I	ENST00000374423	5/5	48	40	8	68	68	0	ZDBF2,missense_variant,p.Val1011Ile,ENST00000374423,;	A	ENSG00000204186	ENST00000374423	Transcript	missense_variant	3417	3031	1011	V/I	Gta/Ata	.	.	.	1	ZDBF2	HGNC	29313	protein_coding	YES	CCDS46501.1	ENSP00000363545	ZDBF2_HUMAN	N0DVB2_HUMAN	UPI000022BDE3	.	tolerated(0.07)	benign(0.355)	5/5	.	hmmpanther:PTHR21639:SF2,hmmpanther:PTHR21639	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCAGTAACT	.	4	BLCA
C2orf43	0	.	GRCh37	2	20939904	20939904	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.530G>A	p.Arg177Lys	p.R177K	ENST00000237822	5/7	79	63	16	84	84	0	C2orf43,missense_variant,p.Arg47Lys,ENST00000403006,;C2orf43,missense_variant,p.Arg177Lys,ENST00000237822,;C2orf43,missense_variant,p.Arg129Lys,ENST00000435420,;C2orf43,missense_variant,p.Arg177Lys,ENST00000381090,;C2orf43,missense_variant,p.Arg47Lys,ENST00000432947,;C2orf43,missense_variant,p.Arg129Lys,ENST00000412261,;C2orf43,missense_variant,p.Arg47Lys,ENST00000541941,;C2orf43,intron_variant,,ENST00000440866,;C2orf43,upstream_gene_variant,,ENST00000470099,;	T	ENSG00000118961	ENST00000237822	Transcript	missense_variant	610	530	177	R/K	aGa/aAa	COSM1530719	.	.	-1	C2orf43	HGNC	26145	protein_coding	YES	CCDS1702.1	ENSP00000237822	CB043_HUMAN	C9JHU6_HUMAN,B7ZA47_HUMAN,B4DU46_HUMAN	UPI0000071DAB	.	tolerated(0.92)	benign(0.014)	5/7	.	hmmpanther:PTHR13390:SF0,hmmpanther:PTHR13390,Pfam_domain:PF10230,Gene3D:3.40.50.1820,Superfamily_domains:SSF53474	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTCTGCCA	.	5	BLCA
MAP2	0	.	GRCh37	2	210557883	210557883	+	Missense_Mutation	SNP	A	A	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.989A>T	p.Lys330Met	p.K330M	ENST00000360351	7/15	68	60	8	74	74	0	MAP2,missense_variant,p.Lys326Met,ENST00000447185,;MAP2,missense_variant,p.Lys330Met,ENST00000360351,;MAP2,missense_variant,p.Lys412Met,ENST00000445941,;MAP2,intron_variant,,ENST00000361559,;MAP2,intron_variant,,ENST00000199940,;MAP2,intron_variant,,ENST00000392194,;MAP2,intron_variant,,ENST00000452717,;MAP2,non_coding_transcript_exon_variant,,ENST00000461253,;MAP2,intron_variant,,ENST00000482864,;MAP2,intron_variant,,ENST00000471619,;MAP2,downstream_gene_variant,,ENST00000481649,;MAP2,upstream_gene_variant,,ENST00000475600,;	T	ENSG00000078018	ENST00000360351	Transcript	missense_variant	1495	989	330	K/M	aAg/aTg	.	.	.	1	MAP2	HGNC	6839	protein_coding	YES	CCDS2384.1	ENSP00000353508	MTAP2_HUMAN	A8MZ31_HUMAN	UPI000013D119	.	deleterious_low_confidence(0)	probably_damaging(0.966)	7/15	.	hmmpanther:PTHR11501:SF15,hmmpanther:PTHR11501	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATGAAGAATG	.	4	BLCA
ABCA12	0	.	GRCh37	2	215845305	215845305	+	Missense_Mutation	SNP	C	C	T	rs754893598	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4642G>A	p.Ala1548Thr	p.A1548T	ENST00000272895	31/53	60	48	11	77	77	0	ABCA12,missense_variant,p.Ala1230Thr,ENST00000389661,;ABCA12,missense_variant,p.Ala1548Thr,ENST00000272895,;	T	ENSG00000144452	ENST00000272895	Transcript	missense_variant	4862	4642	1548	A/T	Gcc/Acc	rs754893598	.	.	-1	ABCA12	HGNC	14637	protein_coding	YES	CCDS33372.1	ENSP00000272895	ABCAC_HUMAN	A0SYP7_HUMAN	UPI000019AB7A	.	deleterious(0)	probably_damaging(0.999)	31/53	.	Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,hmmpanther:PTHR19229:SF29,hmmpanther:PTHR19229,PROSITE_profiles:PS50893	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGGCGATGC	.	5	BLCA
XRCC5	0	.	GRCh37	2	216992312	216992312	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858delA	p.Glu287LysfsTer11	p.E287Kfs*11	ENST00000392133	10/23	55	49	6	68	68	0	XRCC5,frameshift_variant,p.Glu287LysfsTer11,ENST00000392132,;XRCC5,frameshift_variant,p.Glu287LysfsTer11,ENST00000392133,;XRCC5,upstream_gene_variant,,ENST00000471649,;XRCC5,non_coding_transcript_exon_variant,,ENST00000493706,;XRCC5,non_coding_transcript_exon_variant,,ENST00000460284,;	-	ENSG00000079246	ENST00000392133	Transcript	frameshift_variant	1313	852	284	L/X	ctA/ct	.	.	.	1	XRCC5	HGNC	12833	protein_coding	YES	CCDS2402.1	ENSP00000375978	XRCC5_HUMAN	Q53TC2_HUMAN,Q53T09_HUMAN,C9JZ81_HUMAN	UPI0000034133	.	.	.	10/23	.	Superfamily_domains:SSF100939,PIRSF_domain:PIRSF016570,Pfam_domain:PF02735,Gene3D:2.40.290.10,hmmpanther:PTHR12604,hmmpanther:PTHR12604:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	AACCCTAAAAAA	.	2	BLCA
USP37	0	.	GRCh37	2	219350409	219350409	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1648C>T	p.His550Tyr	p.H550Y	ENST00000258399	16/26	88	73	15	113	113	0	USP37,missense_variant,p.His550Tyr,ENST00000258399,;USP37,missense_variant,p.His550Tyr,ENST00000418019,;USP37,missense_variant,p.His478Tyr,ENST00000415516,;USP37,missense_variant,p.His550Tyr,ENST00000454775,;USP37,non_coding_transcript_exon_variant,,ENST00000475553,;	A	ENSG00000135913	ENST00000258399	Transcript	missense_variant	2061	1648	550	H/Y	Cac/Tac	.	.	.	-1	USP37	HGNC	20063	protein_coding	YES	CCDS2418.1	ENSP00000258399	UBP37_HUMAN	.	UPI0000160023	.	deleterious(0.04)	probably_damaging(1)	16/26	.	PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF125,Pfam_domain:PF00443,Superfamily_domains:SSF54001	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTGTGCCTGA	.	5	BLCA
SCG2	0	.	GRCh37	2	224463439	224463439	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>A	p.Glu188Lys	p.E188K	ENST00000305409	2/2	161	132	29	211	211	0	SCG2,missense_variant,p.Glu188Lys,ENST00000305409,;SCG2,downstream_gene_variant,,ENST00000433889,;SCG2,downstream_gene_variant,,ENST00000421386,;	T	ENSG00000171951	ENST00000305409	Transcript	missense_variant	795	562	188	E/K	Gaa/Aaa	.	.	.	-1	SCG2	HGNC	10575	protein_coding	YES	CCDS2457.1	ENSP00000304133	SCG2_HUMAN	C9JQI2_HUMAN,C9JDT0_HUMAN	UPI000013EA45	.	deleterious(0.02)	probably_damaging(1)	2/2	.	hmmpanther:PTHR15119,hmmpanther:PTHR15119:SF0,Pfam_domain:PF01271	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTTCCTCCA	.	5	BLCA
D2HGDH	0	.	GRCh37	2	242681915	242681915	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.416G>A	p.Ser139Asn	p.S139N	ENST00000321264	4/10	47	41	6	49	49	0	D2HGDH,missense_variant,p.Ser139Asn,ENST00000321264,;D2HGDH,missense_variant,p.Ser9Asn,ENST00000454048,;D2HGDH,missense_variant,p.Ser5Asn,ENST00000403782,;D2HGDH,missense_variant,p.Ser139Asn,ENST00000537090,;D2HGDH,missense_variant,p.Ser23Asn,ENST00000437164,;D2HGDH,missense_variant,p.Ser139Asn,ENST00000342518,;D2HGDH,upstream_gene_variant,,ENST00000417686,;D2HGDH,missense_variant,p.Ser139Asn,ENST00000400769,;D2HGDH,missense_variant,p.Ser139Asn,ENST00000436747,;	A	ENSG00000180902	ENST00000321264	Transcript	missense_variant	625	416	139	S/N	aGc/aAc	.	.	.	1	D2HGDH	HGNC	28358	protein_coding	YES	CCDS33426.1	ENSP00000315351	D2HDH_HUMAN	B5MCV2_HUMAN,B3KP72_HUMAN	UPI0000456F51	.	deleterious(0)	probably_damaging(0.998)	4/10	.	PROSITE_profiles:PS51387,hmmpanther:PTHR11748,hmmpanther:PTHR11748:SF35,Pfam_domain:PF01565,Gene3D:3.30.43.10,Superfamily_domains:SSF56176	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCAGCGTCC	.	4	BLCA
BIRC6	0	.	GRCh37	2	32824868	32824868	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13896delT	p.Pro4633LeufsTer11	p.P4633Lfs*11	ENST00000421745	70/74	55	48	7	60	60	0	BIRC6,frameshift_variant,p.Pro4633LeufsTer11,ENST00000421745,;BIRC6,non_coding_transcript_exon_variant,,ENST00000471232,;BIRC6,upstream_gene_variant,,ENST00000465130,;	-	ENSG00000115760	ENST00000421745	Transcript	frameshift_variant	14027	13893	4631	Y/X	taT/ta	.	.	.	1	BIRC6	HGNC	13516	protein_coding	YES	CCDS33175.2	ENSP00000393596	BIRC6_HUMAN	.	UPI0001611442	.	.	.	70/74	.	Superfamily_domains:SSF54495,SMART_domains:SM00212,Pfam_domain:PF00179,Gene3D:3.10.110.10,hmmpanther:PTHR10044,hmmpanther:PTHR10044:SF93,PROSITE_profiles:PS50127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	3	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	TGTGTATTTTCC	.	2	BLCA
PLEKHH2	0	.	GRCh37	2	43934544	43934544	+	Missense_Mutation	SNP	C	C	T	rs758831085	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1826C>T	p.Ala609Val	p.A609V	ENST00000282406	11/30	100	91	9	96	96	0	PLEKHH2,missense_variant,p.Ala609Val,ENST00000282406,;PLEKHH2,non_coding_transcript_exon_variant,,ENST00000405000,;PLEKHH2,non_coding_transcript_exon_variant,,ENST00000405223,;	T	ENSG00000152527	ENST00000282406	Transcript	missense_variant	1936	1826	609	A/V	gCg/gTg	rs758831085,COSM4141108	.	.	1	PLEKHH2	HGNC	30506	protein_coding	YES	CCDS1812.1	ENSP00000282406	PKHH2_HUMAN	.	UPI000016021B	.	tolerated(0.05)	possibly_damaging(0.691)	11/30	.	hmmpanther:PTHR22903,hmmpanther:PTHR22903:SF3,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAAGGCGACCC	.	4	BLCA
PPM1B	0	.	GRCh37	2	44457544	44457544	+	Intron	DEL	A	A	-	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1135-2delA	.	.	ENST00000282412	.	136	102	34	151	151	0	PPM1B,splice_region_variant,,ENST00000282412,;PPM1B,splice_region_variant,,ENST00000345249,;PPM1B,3_prime_UTR_variant,,ENST00000409432,;PPM1B,intron_variant,,ENST00000378551,;PPM1B,intron_variant,,ENST00000459690,;PPM1B,intron_variant,,ENST00000378540,;PPM1B,intron_variant,,ENST00000487286,;	-	ENSG00000138032	ENST00000282412	Transcript	splice_region_variant	.	.	.	.	.	COSM1721322,COSM1721321	.	.	1	PPM1B	HGNC	9276	protein_coding	YES	CCDS1817.1	ENSP00000282412	PPM1B_HUMAN	C9JIR6_HUMAN	UPI0000130FE7	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	LOW	.	deletion	.	6	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AATCTTAAAAAA	.	3	BLCA
PREPL	0	.	GRCh37	2	44559681	44559681	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1270G>A	p.Glu424Lys	p.E424K	ENST00000409936	9/15	89	77	12	101	101	0	PREPL,missense_variant,p.Glu424Lys,ENST00000409936,;PREPL,missense_variant,p.Glu335Lys,ENST00000409957,;PREPL,missense_variant,p.Glu424Lys,ENST00000260648,;PREPL,missense_variant,p.Glu335Lys,ENST00000541738,;PREPL,missense_variant,p.Glu335Lys,ENST00000409411,;PREPL,missense_variant,p.Glu424Lys,ENST00000409272,;PREPL,missense_variant,p.Glu424Lys,ENST00000410081,;PREPL,missense_variant,p.Glu362Lys,ENST00000378511,;PREPL,intron_variant,,ENST00000378520,;PREPL,missense_variant,p.Glu424Lys,ENST00000425263,;PREPL,missense_variant,p.Glu424Lys,ENST00000426481,;	T	ENSG00000138078	ENST00000409936	Transcript	missense_variant	1708	1270	424	E/K	Gaa/Aaa	.	.	.	-1	PREPL	HGNC	30228	protein_coding	YES	CCDS33190.1	ENSP00000386543	PPCEL_HUMAN	C9JMT4_HUMAN	UPI0000208358	.	tolerated(0.29)	benign(0.102)	9/15	.	hmmpanther:PTHR11757,hmmpanther:PTHR11757:SF3,Gene3D:3.40.50.1820,Pfam_domain:PF02897,Superfamily_domains:SSF50993	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCTTCTGCAA	.	4	BLCA
MSH6	0	.	GRCh37	2	48026207	48026209	+	In_Frame_Del	DEL	CTA	CTA	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	CTA	CTA	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1087_1089delACT	p.Thr363del	p.T363del	ENST00000234420	4/10	86	72	14	113	113	0	MSH6,inframe_deletion,p.Thr61del,ENST00000538136,;MSH6,inframe_deletion,p.Thr363del,ENST00000234420,;MSH6,inframe_deletion,p.Thr233del,ENST00000540021,;FBXO11,intron_variant,,ENST00000405808,;MSH6,downstream_gene_variant,,ENST00000411819,;MSH6,downstream_gene_variant,,ENST00000420813,;MSH6,downstream_gene_variant,,ENST00000455383,;MSH6,3_prime_UTR_variant,,ENST00000445503,;FBXO11,intron_variant,,ENST00000434234,;MSH6,downstream_gene_variant,,ENST00000456246,;RPL36AP15,upstream_gene_variant,,ENST00000444514,;	-	ENSG00000116062	ENST00000234420	Transcript	inframe_deletion	1237-1239	1085-1087	362-363	PT/P	cCTAct/cct	.	.	.	1	MSH6	HGNC	7329	protein_coding	YES	CCDS1836.1	ENSP00000234420	MSH6_HUMAN	U3KQ72_HUMAN,F5H2F9_HUMAN,C9JH55_HUMAN,C9J8Y8_HUMAN,C9J7Y7_HUMAN	UPI00000405F8	.	.	.	4/10	.	hmmpanther:PTHR11361:SF31,hmmpanther:PTHR11361,PIRSF_domain:PIRSF037677	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	deletion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTCGCCCTACTGTT	.	3	BLCA
FOXN2	0	.	GRCh37	2	48602108	48602108	+	Silent	SNP	C	C	T	rs144420824	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.822C>T	p.%3D	p.Y274Y	ENST00000340553	7/7	44	39	4	56	56	0	FOXN2,synonymous_variant,p.%3D,ENST00000340553,;FOXN2,downstream_gene_variant,,ENST00000413569,;	T	ENSG00000170802	ENST00000340553	Transcript	synonymous_variant	1083	822	274	Y	taC/taT	rs144420824	.	.	1	FOXN2	HGNC	5281	protein_coding	YES	CCDS1838.1	ENSP00000343633	FOXN2_HUMAN	Q6IS90_HUMAN,C9JTA7_HUMAN	UPI0000226321	.	.	.	7/7	.	hmmpanther:PTHR13962,hmmpanther:PTHR13962:SF10	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0	T:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGTTACGGCAA	byCluster|by1000G	3	BLCA
LHCGR	0	.	GRCh37	2	48956349	48956349	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251A>G	p.Asp84Gly	p.D84G	ENST00000294954	3/11	109	93	16	116	116	0	LHCGR,missense_variant,p.Asp84Gly,ENST00000403273,;LHCGR,missense_variant,p.Asp84Gly,ENST00000405626,;LHCGR,missense_variant,p.Asp50Gly,ENST00000428232,;LHCGR,missense_variant,p.Asp84Gly,ENST00000344775,;LHCGR,missense_variant,p.Asp84Gly,ENST00000401907,;LHCGR,missense_variant,p.Asp84Gly,ENST00000294954,;STON1-GTF2A1L,intron_variant,,ENST00000402114,;GTF2A1L,intron_variant,,ENST00000508440,;LHCGR,intron_variant,,ENST00000602369,;	C	ENSG00000138039	ENST00000294954	Transcript	missense_variant	273	251	84	D/G	gAt/gGt	.	.	.	-1	LHCGR	HGNC	6585	protein_coding	YES	CCDS1842.1	ENSP00000294954	LSHR_HUMAN	Q53S49_HUMAN,Q4ZFZ4_HUMAN	UPI000013E1E1	.	tolerated(0.29)	possibly_damaging(0.908)	3/11	.	hmmpanther:PTHR24372,hmmpanther:PTHR24372:SF1,Gene3D:3.80.10.10,Pfam_domain:PF13306,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGGAATCAATC	.	4	BLCA
CLEC4F	0	.	GRCh37	2	71047658	71047658	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-3G>C	.	.	ENST00000272367	1/7	13	8	4	10	10	0	CLEC4F,5_prime_UTR_variant,,ENST00000426626,;CLEC4F,5_prime_UTR_variant,,ENST00000272367,;	G	ENSG00000152672	ENST00000272367	Transcript	5_prime_UTR_variant	75	.	.	.	.	.	.	.	-1	CLEC4F	HGNC	25357	protein_coding	YES	CCDS1910.1	ENSP00000272367	CLC4F_HUMAN	.	UPI0000376BCC	.	.	.	1/7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	CATCTCTGCTT	.	4	BLCA
NAGK	0	.	GRCh37	2	71299818	71299818	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541A>G	p.Asn181Asp	p.N181D	ENST00000455662	5/10	32	28	3	49	49	0	NAGK,missense_variant,p.Asn29Asp,ENST00000529236,;NAGK,missense_variant,p.Asn135Asp,ENST00000244204,;NAGK,missense_variant,p.Asn84Asp,ENST00000418807,;NAGK,missense_variant,p.Asn181Asp,ENST00000455662,;NAGK,missense_variant,p.Asn135Asp,ENST00000443938,;NAGK,missense_variant,p.Asn84Asp,ENST00000533981,;NAGK,5_prime_UTR_variant,,ENST00000531934,;NAGK,5_prime_UTR_variant,,ENST00000443872,;NAGK,upstream_gene_variant,,ENST00000524537,;RP11-467P9.1,upstream_gene_variant,,ENST00000608897,;NAGK,non_coding_transcript_exon_variant,,ENST00000428360,;NAGK,downstream_gene_variant,,ENST00000531799,;NAGK,missense_variant,p.Asn135Asp,ENST00000450272,;NAGK,missense_variant,p.Asn122Asp,ENST00000524736,;NAGK,3_prime_UTR_variant,,ENST00000455197,;NAGK,non_coding_transcript_exon_variant,,ENST00000493102,;NAGK,non_coding_transcript_exon_variant,,ENST00000484984,;NAGK,non_coding_transcript_exon_variant,,ENST00000489309,;NAGK,non_coding_transcript_exon_variant,,ENST00000475709,;NAGK,non_coding_transcript_exon_variant,,ENST00000478659,;NAGK,non_coding_transcript_exon_variant,,ENST00000472519,;NAGK,non_coding_transcript_exon_variant,,ENST00000479854,;NAGK,intron_variant,,ENST00000464638,;NAGK,upstream_gene_variant,,ENST00000468601,;NAGK,downstream_gene_variant,,ENST00000480411,;NAGK,upstream_gene_variant,,ENST00000490998,;NAGK,downstream_gene_variant,,ENST00000497690,;NAGK,downstream_gene_variant,,ENST00000465105,;NAGK,upstream_gene_variant,,ENST00000498022,;	G	ENSG00000124357	ENST00000455662	Transcript	missense_variant	786	541	181	N/D	Aac/Gac	.	.	.	1	NAGK	HGNC	17174	protein_coding	YES	CCDS33220.2	ENSP00000389087	NAGK_HUMAN	E9PPU6_HUMAN,C9JEV6_HUMAN	UPI0000E0753B	.	deleterious(0.02)	possibly_damaging(0.609)	5/10	.	hmmpanther:PTHR12862:SF0,hmmpanther:PTHR12862,Pfam_domain:PF01869,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCATCAACCCT	.	3	BLCA
DYSF	0	.	GRCh37	2	71801376	71801376	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3277T>C	p.Phe1093Leu	p.F1093L	ENST00000410020	30/56	140	114	25	180	180	0	DYSF,missense_variant,p.Phe1092Leu,ENST00000409582,;DYSF,missense_variant,p.Phe1093Leu,ENST00000410020,;DYSF,missense_variant,p.Phe1062Leu,ENST00000409744,;DYSF,missense_variant,p.Phe1075Leu,ENST00000429174,;DYSF,missense_variant,p.Phe1092Leu,ENST00000409762,;DYSF,missense_variant,p.Phe1093Leu,ENST00000410041,;DYSF,missense_variant,p.Phe1107Leu,ENST00000409651,;DYSF,missense_variant,p.Phe1076Leu,ENST00000394120,;DYSF,missense_variant,p.Phe1076Leu,ENST00000409366,;DYSF,missense_variant,p.Phe1106Leu,ENST00000413539,;DYSF,missense_variant,p.Phe1075Leu,ENST00000258104,;DYSF,upstream_gene_variant,,ENST00000475076,;DYSF,upstream_gene_variant,,ENST00000479049,;DYSF,downstream_gene_variant,,ENST00000461565,;	C	ENSG00000135636	ENST00000410020	Transcript	missense_variant	3418	3277	1093	F/L	Ttt/Ctt	.	.	.	1	DYSF	HGNC	3097	protein_coding	YES	CCDS46328.1	ENSP00000386881	DYSF_HUMAN	A0FK00_HUMAN	UPI000171F710	.	tolerated(0.1)	benign(0.007)	30/56	.	hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF35,SMART_domains:SM00694	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTTTTGGC	.	5	BLCA
DYSF	0	.	GRCh37	2	71886083	71886083	+	Missense_Mutation	SNP	G	G	A	rs143163327	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4831G>A	p.Ala1611Thr	p.A1611T	ENST00000410020	44/56	95	78	17	128	128	0	DYSF,missense_variant,p.Ala1610Thr,ENST00000409582,;DYSF,missense_variant,p.Ala1611Thr,ENST00000410020,;DYSF,missense_variant,p.Ala1580Thr,ENST00000409744,;DYSF,missense_variant,p.Ala1593Thr,ENST00000429174,;DYSF,missense_variant,p.Ala1589Thr,ENST00000409762,;DYSF,missense_variant,p.Ala1590Thr,ENST00000410041,;DYSF,missense_variant,p.Ala1604Thr,ENST00000409651,;DYSF,missense_variant,p.Ala1573Thr,ENST00000394120,;DYSF,missense_variant,p.Ala1594Thr,ENST00000409366,;DYSF,missense_variant,p.Ala1603Thr,ENST00000413539,;DYSF,missense_variant,p.Ala1572Thr,ENST00000258104,;DYSF,non_coding_transcript_exon_variant,,ENST00000479049,;	A	ENSG00000135636	ENST00000410020	Transcript	missense_variant	4972	4831	1611	A/T	Gcc/Acc	rs143163327,COSM195571,COSM4095511	.	.	1	DYSF	HGNC	3097	protein_coding	YES	CCDS46328.1	ENSP00000386881	DYSF_HUMAN	A0FK00_HUMAN	UPI000171F710	.	tolerated(0.47)	benign(0.016)	44/56	.	PROSITE_profiles:PS50004,hmmpanther:PTHR12546,hmmpanther:PTHR12546:SF35,Gene3D:2.60.40.150,Superfamily_domains:SSF49562	A:0.0002	A:0	A:0.0014	.	A:0	A:0	A:0	A:0	A:0.0001	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGGCCGCCCAG	byCluster|by1000G	5	BLCA
TLX2	0	.	GRCh37	2	74742049	74742049	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.116G>A	p.Arg39His	p.R39H	ENST00000233638	1/3	19	16	3	13	13	0	TLX2,missense_variant,p.Arg39His,ENST00000233638,;DQX1,downstream_gene_variant,,ENST00000404568,;DQX1,downstream_gene_variant,,ENST00000393951,;TLX2,intron_variant,,ENST00000497238,;DQX1,downstream_gene_variant,,ENST00000418139,;DQX1,downstream_gene_variant,,ENST00000483555,;TLX2,downstream_gene_variant,,ENST00000464417,;DQX1,downstream_gene_variant,,ENST00000473508,;	A	ENSG00000115297	ENST00000233638	Transcript	missense_variant	439	116	39	R/H	cGc/cAc	.	.	.	1	TLX2	HGNC	5057	protein_coding	YES	CCDS1947.1	ENSP00000233638	TLX2_HUMAN	.	UPI0000137060	.	tolerated(0.09)	benign(0.074)	1/3	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24326:SF117,hmmpanther:PTHR24326	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTCGCGGGG	.	2	BLCA
LRRTM4	0	.	GRCh37	2	77745833	77745833	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1162A>G	p.Thr388Ala	p.T388A	ENST00000409093	3/4	52	47	5	58	58	0	LRRTM4,missense_variant,p.Thr388Ala,ENST00000409088,;LRRTM4,missense_variant,p.Thr388Ala,ENST00000409093,;LRRTM4,missense_variant,p.Thr389Ala,ENST00000409282,;LRRTM4,missense_variant,p.Thr388Ala,ENST00000409884,;LRRTM4,missense_variant,p.Thr389Ala,ENST00000409911,;LRRTM4,downstream_gene_variant,,ENST00000456154,;	C	ENSG00000176204	ENST00000409093	Transcript	missense_variant	1499	1162	388	T/A	Acc/Gcc	.	.	.	-1	LRRTM4	HGNC	19411	protein_coding	YES	CCDS46346.1	ENSP00000386357	LRRT4_HUMAN	C9JM64_HUMAN	UPI0000047808	.	tolerated(0.24)	benign(0.007)	3/4	.	hmmpanther:PTHR24369:SF1,hmmpanther:PTHR24369	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATGGTAGGTC	.	4	BLCA
IMMT	0	.	GRCh37	2	86389171	86389171	+	Missense_Mutation	SNP	C	C	T	rs555759519	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.824G>A	p.Arg275His	p.R275H	ENST00000410111	8/15	10	5	4	28	28	0	IMMT,missense_variant,p.Arg228His,ENST00000409051,;IMMT,missense_variant,p.Arg264His,ENST00000449247,;IMMT,missense_variant,p.Arg130His,ENST00000419070,;IMMT,missense_variant,p.Arg274His,ENST00000442664,;IMMT,missense_variant,p.Arg176His,ENST00000254636,;IMMT,missense_variant,p.Arg275His,ENST00000410111,;Y_RNA,upstream_gene_variant,,ENST00000363371,;IMMT,non_coding_transcript_exon_variant,,ENST00000490238,;IMMT,3_prime_UTR_variant,,ENST00000409258,;IMMT,non_coding_transcript_exon_variant,,ENST00000474969,;	T	ENSG00000132305	ENST00000410111	Transcript	missense_variant	1212	824	275	R/H	cGc/cAc	rs555759519	.	.	-1	IMMT	HGNC	6047	protein_coding	YES	CCDS46355.1	ENSP00000387262	IMMT_HUMAN	.	UPI0000073828	.	deleterious(0.03)	benign(0.117)	8/15	.	Pfam_domain:PF09731,hmmpanther:PTHR15415,hmmpanther:PTHR15415:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGTGCGCCAC	byCluster	3	BLCA
KIDINS220	0	.	GRCh37	2	8934113	8934113	+	Missense_Mutation	SNP	C	C	A	rs748593640	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1103G>T	p.Gly368Val	p.G368V	ENST00000256707	12/30	60	46	14	86	86	0	KIDINS220,missense_variant,p.Gly368Val,ENST00000427284,;KIDINS220,missense_variant,p.Gly369Val,ENST00000489024,;KIDINS220,missense_variant,p.Gly326Val,ENST00000418530,;KIDINS220,missense_variant,p.Gly368Val,ENST00000256707,;KIDINS220,missense_variant,p.Gly368Val,ENST00000473731,;KIDINS220,missense_variant,p.Gly115Val,ENST00000496383,;KIDINS220,missense_variant,p.Gly369Val,ENST00000319688,;KIDINS220,3_prime_UTR_variant,,ENST00000488729,;KIDINS220,non_coding_transcript_exon_variant,,ENST00000474782,;	A	ENSG00000134313	ENST00000256707	Transcript	missense_variant	1285	1103	368	G/V	gGa/gTa	rs748593640	.	.	-1	KIDINS220	HGNC	29508	protein_coding	YES	CCDS42650.1	ENSP00000256707	KDIS_HUMAN	F8WAY8_HUMAN	UPI0000208E08	.	deleterious(0)	probably_damaging(0.998)	12/30	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24116,hmmpanther:PTHR24116:SF5,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCCTTTC	.	5	BLCA
CCDC80	0	.	GRCh37	3	112326054	112326054	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2475T>C	p.%3D	p.V825V	ENST00000206423	7/8	73	65	7	81	81	0	CCDC80,synonymous_variant,p.%3D,ENST00000479368,;CCDC80,synonymous_variant,p.%3D,ENST00000206423,;CCDC80,synonymous_variant,p.%3D,ENST00000439685,;CCDC80,intron_variant,,ENST00000461431,;	G	ENSG00000091986	ENST00000206423	Transcript	synonymous_variant	3429	2475	825	V	gtT/gtC	.	.	.	-1	CCDC80	HGNC	30649	protein_coding	YES	CCDS2968.1	ENSP00000206423	CCD80_HUMAN	.	UPI000004EE7F	.	.	.	7/8	.	Pfam_domain:PF13778,hmmpanther:PTHR19325,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCCAACTTC	.	4	BLCA
CCDC80	0	.	GRCh37	3	112335584	112335584	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2294delA	p.Lys765SerfsTer19	p.K765Sfs*19	ENST00000206423	5/8	109	96	13	103	103	0	CCDC80,frameshift_variant,p.Lys163SerfsTer19,ENST00000461431,;CCDC80,frameshift_variant,p.Lys765SerfsTer19,ENST00000206423,;CCDC80,frameshift_variant,p.Lys765SerfsTer19,ENST00000439685,;	-	ENSG00000091986	ENST00000206423	Transcript	frameshift_variant	3248	2294	765	K/X	aAg/ag	.	.	.	-1	CCDC80	HGNC	30649	protein_coding	YES	CCDS2968.1	ENSP00000206423	CCD80_HUMAN	.	UPI000004EE7F	.	.	.	5/8	.	hmmpanther:PTHR19325	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GACTGCTTTTTG	.	3	BLCA
SIDT1	0	.	GRCh37	3	113303575	113303575	+	Missense_Mutation	SNP	G	G	C	rs372768021	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.866G>C	p.Arg289Pro	p.R289P	ENST00000264852	8/25	99	72	27	94	94	0	SIDT1,missense_variant,p.Arg289Pro,ENST00000393830,;SIDT1,missense_variant,p.Arg289Pro,ENST00000264852,;SIDT1-AS1,downstream_gene_variant,,ENST00000462180,;SIDT1,non_coding_transcript_exon_variant,,ENST00000488390,;SIDT1,downstream_gene_variant,,ENST00000491730,;	C	ENSG00000072858	ENST00000264852	Transcript	missense_variant	1592	866	289	R/P	cGa/cCa	rs372768021,COSM3585518,COSM3585519	.	.	1	SIDT1	HGNC	25967	protein_coding	YES	CCDS2974.1	ENSP00000264852	SIDT1_HUMAN	B4E0H9_HUMAN	UPI000013D581	.	deleterious(0)	probably_damaging(0.974)	8/25	.	hmmpanther:PTHR12185:SF15,hmmpanther:PTHR12185,Pfam_domain:PF13965	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGAAAAA	byFrequency|byCluster	5	BLCA
ZBTB20	0	.	GRCh37	3	114070607	114070607	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318A>G	p.%3D	p.V106V	ENST00000474710	4/5	51	47	4	47	47	0	ZBTB20,synonymous_variant,p.%3D,ENST00000481632,;ZBTB20,synonymous_variant,p.%3D,ENST00000462705,;ZBTB20,synonymous_variant,p.%3D,ENST00000471418,;ZBTB20,synonymous_variant,p.%3D,ENST00000470311,;ZBTB20,synonymous_variant,p.%3D,ENST00000357258,;ZBTB20,synonymous_variant,p.%3D,ENST00000474710,;ZBTB20,synonymous_variant,p.%3D,ENST00000464560,;ZBTB20,synonymous_variant,p.%3D,ENST00000393785,;ZBTB20-AS1,upstream_gene_variant,,ENST00000475939,;ZBTB20-AS1,upstream_gene_variant,,ENST00000467304,;ZBTB20-AS1,upstream_gene_variant,,ENST00000496219,;ZBTB20,intron_variant,,ENST00000479879,;	C	ENSG00000181722	ENST00000474710	Transcript	synonymous_variant	497	318	106	V	gtA/gtG	.	.	.	-1	ZBTB20	HGNC	13503	protein_coding	YES	CCDS54626.1	ENSP00000419153	ZBT20_HUMAN	C9JCX0_HUMAN	UPI0000141957	.	.	.	4/5	.	PROSITE_profiles:PS50097,hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF351,Gene3D:3.30.710.10,Pfam_domain:PF00651,SMART_domains:SM00225,Superfamily_domains:SSF54695	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCGTTACGTC	.	3	BLCA
TMEM39A	0	.	GRCh37	3	119176954	119176954	+	Silent	SNP	G	G	A	rs201705221	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.247C>T	p.%3D	p.L83L	ENST00000319172	3/9	80	63	17	83	83	0	TMEM39A,synonymous_variant,p.%3D,ENST00000319172,;TMEM39A,synonymous_variant,p.%3D,ENST00000461654,;TMEM39A,synonymous_variant,p.%3D,ENST00000468676,;TMEM39A,synonymous_variant,p.%3D,ENST00000497993,;TMEM39A,intron_variant,,ENST00000491685,;TMEM39A,non_coding_transcript_exon_variant,,ENST00000486159,;TMEM39A,intron_variant,,ENST00000482162,;TMEM39A,synonymous_variant,p.%3D,ENST00000438581,;TMEM39A,3_prime_UTR_variant,,ENST00000490099,;TMEM39A,non_coding_transcript_exon_variant,,ENST00000486235,;	A	ENSG00000176142	ENST00000319172	Transcript	synonymous_variant	668	247	83	L	Ctg/Ttg	rs201705221,COSM390613	.	.	-1	TMEM39A	HGNC	25600	protein_coding	YES	CCDS2987.1	ENSP00000326063	TM39A_HUMAN	C9JYN8_HUMAN,C9JUZ6_HUMAN,C9IYN1_HUMAN	UPI00000715E5	.	.	.	3/9	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR12995:SF3,hmmpanther:PTHR12995,Pfam_domain:PF10271	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAACAGGTAGA	.	5	BLCA
GPR156	0	.	GRCh37	3	119912262	119912262	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.243G>C	p.Lys81Asn	p.K81N	ENST00000464295	4/10	49	45	3	63	63	0	GPR156,missense_variant,p.Lys81Asn,ENST00000315843,;GPR156,missense_variant,p.Lys81Asn,ENST00000461057,;GPR156,missense_variant,p.Lys81Asn,ENST00000464295,;GPR156,intron_variant,,ENST00000495912,;	G	ENSG00000175697	ENST00000464295	Transcript	missense_variant	689	243	81	K/N	aaG/aaC	.	.	.	-1	GPR156	HGNC	20844	protein_coding	YES	CCDS2997.1	ENSP00000417261	GP156_HUMAN	.	UPI000004731C	.	deleterious(0)	probably_damaging(1)	4/10	.	Pfam_domain:PF00003,hmmpanther:PTHR10519,hmmpanther:PTHR10519:SF31,PROSITE_profiles:PS50259	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GACATCTTCAC	.	2	BLCA
KBTBD12	0	.	GRCh37	3	127703061	127703061	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1812G>A	p.Met604Ile	p.M604I	ENST00000405109	6/6	115	78	36	158	158	0	KBTBD12,missense_variant,p.Met604Ile,ENST00000405256,;KBTBD12,missense_variant,p.Met604Ile,ENST00000405109,;KBTBD12,missense_variant,p.Met179Ile,ENST00000343941,;KBTBD12,missense_variant,p.Met211Ile,ENST00000407609,;KBTBD12,non_coding_transcript_exon_variant,,ENST00000476626,;KBTBD12,non_coding_transcript_exon_variant,,ENST00000492025,;	A	ENSG00000187715	ENST00000405109	Transcript	missense_variant	2279	1812	604	M/I	atG/atA	.	.	.	1	KBTBD12	HGNC	25731	protein_coding	YES	CCDS33848.2	ENSP00000385957	KBTBC_HUMAN	B5MCZ4_HUMAN	UPI00001D802F	.	deleterious(0.01)	benign(0.013)	6/6	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF25,PIRSF_domain:PIRSF037037	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGGATGAATCC	.	5	BLCA
KIAA1257	0	.	GRCh37	3	128712054	128712054	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.94G>A	p.Asp32Asn	p.D32N	ENST00000265068	2/8	48	37	11	60	60	0	KIAA1257,missense_variant,p.Asp32Asn,ENST00000511438,;KIAA1257,missense_variant,p.Asp32Asn,ENST00000265068,;KIAA1257,upstream_gene_variant,,ENST00000515659,;KIAA1257,intron_variant,,ENST00000510149,;	T	ENSG00000114656	ENST00000265068	Transcript	missense_variant	262	94	32	D/N	Gac/Aac	.	.	.	-1	KIAA1257	HGNC	29231	protein_coding	YES	CCDS46905.1	ENSP00000265068	K1257_HUMAN	.	UPI00001C1DE3	.	tolerated(0.08)	possibly_damaging(0.84)	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGTCACACT	.	5	BLCA
IFT122	0	.	GRCh37	3	129182458	129182458	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.558C>T	p.%3D	p.I186I	ENST00000296266	7/31	71	66	5	72	72	0	IFT122,missense_variant,p.Ser96Leu,ENST00000514275,;IFT122,synonymous_variant,p.%3D,ENST00000349441,;IFT122,synonymous_variant,p.%3D,ENST00000504021,;IFT122,synonymous_variant,p.%3D,ENST00000507564,;IFT122,synonymous_variant,p.%3D,ENST00000347300,;IFT122,synonymous_variant,p.%3D,ENST00000296266,;IFT122,synonymous_variant,p.%3D,ENST00000508826,;IFT122,synonymous_variant,p.%3D,ENST00000515783,;IFT122,synonymous_variant,p.%3D,ENST00000512157,;IFT122,synonymous_variant,p.%3D,ENST00000348417,;IFT122,5_prime_UTR_variant,,ENST00000431818,;IFT122,5_prime_UTR_variant,,ENST00000511498,;IFT122,5_prime_UTR_variant,,ENST00000440957,;IFT122,intron_variant,,ENST00000509815,;IFT122,3_prime_UTR_variant,,ENST00000502456,;IFT122,3_prime_UTR_variant,,ENST00000502304,;IFT122,3_prime_UTR_variant,,ENST00000509195,;IFT122,3_prime_UTR_variant,,ENST00000512220,;IFT122,non_coding_transcript_exon_variant,,ENST00000506507,;IFT122,non_coding_transcript_exon_variant,,ENST00000514081,;IFT122,downstream_gene_variant,,ENST00000510524,;	T	ENSG00000163913	ENST00000296266	Transcript	synonymous_variant	750	558	186	I	atC/atT	.	.	.	1	IFT122	HGNC	13556	protein_coding	YES	CCDS3060.1	ENSP00000296266	IF122_HUMAN	H7C3C0_HUMAN	UPI0000141042	.	.	.	7/31	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12764:SF4,hmmpanther:PTHR12764,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAGATCATCTG	.	2	BLCA
ATP2C1	0	.	GRCh37	3	130718463	130718463	+	Silent	SNP	G	G	T	rs751186032	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2691G>T	p.%3D	p.P897P	ENST00000393221	26/28	77	69	8	98	98	0	ATP2C1,synonymous_variant,p.%3D,ENST00000533801,;ATP2C1,synonymous_variant,p.%3D,ENST00000328560,;ATP2C1,synonymous_variant,p.%3D,ENST00000508532,;ATP2C1,synonymous_variant,p.%3D,ENST00000505330,;ATP2C1,synonymous_variant,p.%3D,ENST00000504612,;ATP2C1,synonymous_variant,p.%3D,ENST00000359644,;ATP2C1,synonymous_variant,p.%3D,ENST00000504948,;ATP2C1,synonymous_variant,p.%3D,ENST00000507488,;ATP2C1,synonymous_variant,p.%3D,ENST00000393221,;ATP2C1,synonymous_variant,p.%3D,ENST00000422190,;ATP2C1,synonymous_variant,p.%3D,ENST00000428331,;ATP2C1,synonymous_variant,p.%3D,ENST00000513801,;ATP2C1,synonymous_variant,p.%3D,ENST00000504381,;ATP2C1,synonymous_variant,p.%3D,ENST00000510168,;ATP2C1,downstream_gene_variant,,ENST00000508660,;ATP2C1,3_prime_UTR_variant,,ENST00000507194,;ATP2C1,non_coding_transcript_exon_variant,,ENST00000514654,;ATP2C1,downstream_gene_variant,,ENST00000510774,;	T	ENSG00000017260	ENST00000393221	Transcript	synonymous_variant	2906	2691	897	P	ccG/ccT	rs751186032,COSM1419030	.	.	1	ATP2C1	HGNC	13211	protein_coding	YES	CCDS56278.1	ENSP00000376914	AT2C1_HUMAN	D6RGE9_HUMAN,D6R9U9_HUMAN	UPI0000EE224C	.	.	.	26/28	.	Transmembrane_helices:TMhelix,Superfamily_domains:0049473,Pfam_domain:PF00689,TIGRFAM_domain:TIGR01522,Gene3D:1.20.1110.10,hmmpanther:PTHR24093:SF214,hmmpanther:PTHR24093	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCTCCGCTTCA	byFrequency	3	BLCA
C3orf36	0	.	GRCh37	3	133647234	133647234	+	Silent	SNP	G	G	C	rs781080416	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.414C>G	p.%3D	p.L138L	ENST00000408895	1/1	52	45	7	45	45	0	C3orf36,synonymous_variant,p.%3D,ENST00000408895,;SLCO2A1,downstream_gene_variant,,ENST00000310926,;	C	ENSG00000221972	ENST00000408895	Transcript	synonymous_variant	1423	414	138	L	ctC/ctG	rs781080416,COSM350732	.	.	-1	C3orf36	HGNC	26170	protein_coding	YES	CCDS3083.1	ENSP00000386219	CC036_HUMAN	.	UPI000013F433	.	.	.	1/1	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGAAGAGAGA	.	2	BLCA
ARMC8	0	.	GRCh37	3	137956206	137956206	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.623T>C	p.Val208Ala	p.V208A	ENST00000481646	9/23	117	111	6	122	122	0	ARMC8,missense_variant,p.Val191Ala,ENST00000538260,;ARMC8,missense_variant,p.Val222Ala,ENST00000461822,;ARMC8,missense_variant,p.Val180Ala,ENST00000491704,;ARMC8,missense_variant,p.Val222Ala,ENST00000470821,;ARMC8,missense_variant,p.Val208Ala,ENST00000471453,;ARMC8,missense_variant,p.Val222Ala,ENST00000469044,;ARMC8,missense_variant,p.Val208Ala,ENST00000358441,;ARMC8,missense_variant,p.Val191Ala,ENST00000471709,;ARMC8,missense_variant,p.Val149Ala,ENST00000485396,;ARMC8,missense_variant,p.Val180Ala,ENST00000489213,;ARMC8,missense_variant,p.Val116Ala,ENST00000463485,;ARMC8,missense_variant,p.Val212Ala,ENST00000393058,;ARMC8,missense_variant,p.Val208Ala,ENST00000481646,;ARMC8,intron_variant,,ENST00000469860,;ARMC8,downstream_gene_variant,,ENST00000461600,;ARMC8,missense_variant,p.Val110Ala,ENST00000470549,;ARMC8,non_coding_transcript_exon_variant,,ENST00000460495,;ARMC8,upstream_gene_variant,,ENST00000486832,;	C	ENSG00000114098	ENST00000481646	Transcript	missense_variant	1029	623	208	V/A	gTa/gCa	.	.	.	1	ARMC8	HGNC	24999	protein_coding	YES	CCDS54646.1	ENSP00000420333	ARMC8_HUMAN	C9J8P8_HUMAN,C9J625_HUMAN,B7Z979_HUMAN	UPI000007471D	.	deleterious(0.03)	probably_damaging(0.998)	9/23	.	Superfamily_domains:SSF48371,hmmpanther:PTHR15651,hmmpanther:PTHR15651:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGGTATCGA	.	2	BLCA
RBP1	0	.	GRCh37	3	139257789	139257789	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.272C>T	p.Ala91Val	p.A91V	ENST00000232219	2/4	104	98	5	124	124	0	RBP1,missense_variant,p.Ala91Val,ENST00000492918,;RBP1,missense_variant,p.Ala91Val,ENST00000483943,;RBP1,missense_variant,p.Ala91Val,ENST00000232219,;RP11-319G6.1,intron_variant,,ENST00000515247,;RP11-319G6.1,upstream_gene_variant,,ENST00000381790,;RBP1,missense_variant,p.Ala81Val,ENST00000487424,;	A	ENSG00000114115	ENST00000232219	Transcript	missense_variant	383	272	91	A/V	gCc/gTc	.	.	.	-1	RBP1	HGNC	9919	protein_coding	YES	CCDS3110.2	ENSP00000232219	.	.	UPI000020A341	.	tolerated(0.05)	benign(0.415)	2/4	.	hmmpanther:PTHR11955:SF56,hmmpanther:PTHR11955,Gene3D:2.40.128.20,Pfam_domain:PF00061,Superfamily_domains:SSF50814	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAAGGCCACA	.	2	BLCA
U2SURP	0	.	GRCh37	3	142741354	142741354	+	Missense_Mutation	SNP	C	C	A	rs763880358	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.868C>A	p.Leu290Met	p.L290M	ENST00000473835	11/28	79	61	17	80	80	0	U2SURP,missense_variant,p.Leu290Met,ENST00000473835,;U2SURP,missense_variant,p.Leu289Met,ENST00000493598,;U2SURP,5_prime_UTR_variant,,ENST00000397933,;U2SURP,upstream_gene_variant,,ENST00000480029,;U2SURP,missense_variant,p.Leu290Met,ENST00000488497,;U2SURP,missense_variant,p.Leu292Met,ENST00000463563,;U2SURP,non_coding_transcript_exon_variant,,ENST00000461591,;U2SURP,non_coding_transcript_exon_variant,,ENST00000488587,;U2SURP,upstream_gene_variant,,ENST00000472373,;U2SURP,downstream_gene_variant,,ENST00000470400,;	A	ENSG00000163714	ENST00000473835	Transcript	missense_variant	958	868	290	L/M	Ctg/Atg	rs763880358	.	.	1	U2SURP	HGNC	30855	protein_coding	YES	CCDS46928.1	ENSP00000418563	SR140_HUMAN	C9JDJ7_HUMAN,C9JB80_HUMAN,C9J5L1_HUMAN	UPI0000160746	.	deleterious(0)	probably_damaging(1)	11/28	.	PROSITE_profiles:PS50102,hmmpanther:PTHR23140,Pfam_domain:PF00076,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAATGCTGTGC	.	5	BLCA
P2RY12	0	.	GRCh37	3	151056522	151056523	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.111dupT	p.Val38CysfsTer19	p.V38Cfs*19	ENST00000302632	3/3	86	72	14	58	58	0	P2RY12,frameshift_variant,p.Val38CysfsTer19,ENST00000302632,;MED12L,intron_variant,,ENST00000474524,;MED12L,intron_variant,,ENST00000273432,;MED12L,downstream_gene_variant,,ENST00000480026,;MED12L,intron_variant,,ENST00000491549,;MED12L,intron_variant,,ENST00000468305,;P2RY12,non_coding_transcript_exon_variant,,ENST00000468596,;	A	ENSG00000169313	ENST00000302632	Transcript	frameshift_variant	411-412	111-112	37-38	-/X	-/T	.	.	.	-1	P2RY12	HGNC	18124	protein_coding	YES	CCDS3159.1	ENSP00000307259	P2Y12_HUMAN	.	UPI0000001662	.	.	.	3/3	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR24233,hmmpanther:PTHR24233:SF0,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCCAACAAAAA	.	3	BLCA
SMC4	0	.	GRCh37	3	160122536	160122536	+	Intron	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.687+244C>A	.	.	ENST00000357388	.	107	97	9	100	100	0	SMC4,intron_variant,,ENST00000344722,;SMC4,intron_variant,,ENST00000472991,;SMC4,intron_variant,,ENST00000489573,;SMC4,intron_variant,,ENST00000462787,;SMC4,intron_variant,,ENST00000360111,;SMC4,intron_variant,,ENST00000469762,;SMC4,intron_variant,,ENST00000357388,;SMC4,intron_variant,,ENST00000467468,;SMC4,downstream_gene_variant,,ENST00000490207,;SMC4,downstream_gene_variant,,ENST00000465903,;SMC4,downstream_gene_variant,,ENST00000485645,;SMC4,downstream_gene_variant,,ENST00000497311,;SMC4,downstream_gene_variant,,ENST00000485867,;MIR16-2,non_coding_transcript_exon_variant,,ENST00000362117,;MIR15B,downstream_gene_variant,,ENST00000385045,;SMC4,intron_variant,,ENST00000497984,;SMC4,intron_variant,,ENST00000487747,;SMC4,intron_variant,,ENST00000470240,;SMC4,intron_variant,,ENST00000472282,;IFT80,upstream_gene_variant,,ENST00000466326,;RP11-432B6.3,intron_variant,,ENST00000483754,;SMC4,intron_variant,,ENST00000468653,;SMC4,intron_variant,,ENST00000469858,;	A	ENSG00000113810	ENST00000357388	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	SMC4	HGNC	14013	protein_coding	YES	CCDS3189.1	ENSP00000349961	SMC4_HUMAN	C9JWF0_HUMAN,C9JVD8_HUMAN,C9JR83_HUMAN,C9JJ64_HUMAN,C9J9E4_HUMAN,C9J578_HUMAN,C9IYK2_HUMAN	UPI000006DA0A	.	.	.	.	5/23	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGTTCCACTC	.	3	BLCA
OXNAD1	0	.	GRCh37	3	16327924	16327924	+	Missense_Mutation	SNP	G	G	A	rs373342829	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.259G>A	p.Asp87Asn	p.D87N	ENST00000285083	5/9	60	48	12	78	78	0	OXNAD1,missense_variant,p.Asp87Asn,ENST00000606098,;OXNAD1,missense_variant,p.Asp105Asn,ENST00000435829,;OXNAD1,missense_variant,p.Asp105Asn,ENST00000544043,;OXNAD1,missense_variant,p.Asp87Asn,ENST00000605932,;OXNAD1,missense_variant,p.Asp87Asn,ENST00000285083,;OXNAD1,3_prime_UTR_variant,,ENST00000442255,;OXNAD1,3_prime_UTR_variant,,ENST00000452581,;	A	ENSG00000154814	ENST00000285083	Transcript	missense_variant	724	259	87	D/N	Gat/Aat	rs373342829	.	.	1	OXNAD1	HGNC	25128	protein_coding	YES	CCDS2630.1	ENSP00000285083	OXND1_HUMAN	.	UPI0000071465	.	tolerated(0.66)	benign(0.003)	5/9	.	PROSITE_profiles:PS51384,hmmpanther:PTHR19370:SF68,hmmpanther:PTHR19370,Gene3D:2.40.30.10,Superfamily_domains:SSF63380	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGCTGATCAA	byCluster	5	BLCA
PHC3	0	.	GRCh37	3	169896669	169896669	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.72G>A	p.%3D	p.V24V	ENST00000495893	2/15	272	233	39	295	294	0	PHC3,synonymous_variant,p.%3D,ENST00000465896,;PHC3,synonymous_variant,p.%3D,ENST00000474275,;PHC3,synonymous_variant,p.%3D,ENST00000484931,;PHC3,synonymous_variant,p.%3D,ENST00000495893,;PHC3,synonymous_variant,p.%3D,ENST00000497658,;PHC3,synonymous_variant,p.%3D,ENST00000494943,;PHC3,synonymous_variant,p.%3D,ENST00000467570,;PHC3,synonymous_variant,p.%3D,ENST00000466189,;PHC3,synonymous_variant,p.%3D,ENST00000481639,;PHC3,synonymous_variant,p.%3D,ENST00000475729,;PHC3,synonymous_variant,p.%3D,ENST00000479467,;PHC3,synonymous_variant,p.%3D,ENST00000472330,;PHC3,non_coding_transcript_exon_variant,,ENST00000491258,;	T	ENSG00000173889	ENST00000495893	Transcript	synonymous_variant	104	72	24	V	gtG/gtA	.	.	.	-1	PHC3	HGNC	15682	protein_coding	YES	CCDS46952.1	ENSP00000420294	PHC3_HUMAN	C9JYH7_HUMAN	UPI00004DF1A6	.	.	.	2/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12247,hmmpanther:PTHR12247:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTTGACACAGA	.	4	BLCA
SKIL	0	.	GRCh37	3	170108923	170108923	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1771C>G	p.Gln591Glu	p.Q591E	ENST00000458537	5/6	49	43	6	56	56	0	SKIL,missense_variant,p.Gln591Glu,ENST00000458537,;SKIL,missense_variant,p.Gln591Glu,ENST00000259119,;SKIL,missense_variant,p.Gln545Glu,ENST00000413427,;SKIL,missense_variant,p.Gln571Glu,ENST00000426052,;SKIL,3_prime_UTR_variant,,ENST00000470571,;	G	ENSG00000136603	ENST00000458537	Transcript	missense_variant	2480	1771	591	Q/E	Caa/Gaa	.	.	.	1	SKIL	HGNC	10897	protein_coding	YES	CCDS33890.1	ENSP00000415243	SKIL_HUMAN	C9J8R9_HUMAN	UPI000020A79D	.	tolerated(0.11)	benign(0.1)	5/6	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10005,hmmpanther:PTHR10005:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGCTCAAAGA	.	4	BLCA
MCF2L2	0	.	GRCh37	3	182910829	182910829	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2974A>G	p.Thr992Ala	p.T992A	ENST00000328913	27/30	122	116	6	161	161	0	MCF2L2,missense_variant,p.Thr992Ala,ENST00000473233,;MCF2L2,missense_variant,p.Thr992Ala,ENST00000328913,;MCF2L2,non_coding_transcript_exon_variant,,ENST00000468976,;MCF2L2,non_coding_transcript_exon_variant,,ENST00000488149,;	C	ENSG00000053524	ENST00000328913	Transcript	missense_variant	3272	2974	992	T/A	Act/Gct	.	.	.	-1	MCF2L2	HGNC	30319	protein_coding	YES	CCDS3243.1	ENSP00000328118	MF2L2_HUMAN	C9J326_HUMAN	UPI00001A962F	.	tolerated(0.56)	benign(0.002)	27/30	.	hmmpanther:PTHR22826:SF89,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTAGTGGTAG	.	2	BLCA
EHHADH	0	.	GRCh37	3	184910529	184910529	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1657delA	p.Arg553GlyfsTer16	p.R553Gfs*16	ENST00000231887	7/7	103	86	17	92	92	0	EHHADH,frameshift_variant,p.Arg457GlyfsTer16,ENST00000456310,;EHHADH,frameshift_variant,p.Arg553GlyfsTer16,ENST00000231887,;EHHADH-AS1,downstream_gene_variant,,ENST00000417720,;	-	ENSG00000113790	ENST00000231887	Transcript	frameshift_variant	1733	1657	553	R/X	Agg/gg	.	.	.	-1	EHHADH	HGNC	3247	protein_coding	YES	CCDS33901.1	ENSP00000231887	ECHP_HUMAN	.	UPI000013C959	.	.	.	7/7	.	hmmpanther:PTHR23309,hmmpanther:PTHR23309:SF1,Pfam_domain:PF00725,Gene3D:1.10.1040.10,Superfamily_domains:SSF48179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TACCCCTTTTTC	.	3	BLCA
ATP13A3	0	.	GRCh37	3	194182907	194182907	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.13G>A	p.Glu5Lys	p.E5K	ENST00000439040	3/33	80	54	26	88	88	0	ATP13A3,missense_variant,p.Glu5Lys,ENST00000446356,;ATP13A3,missense_variant,p.Glu5Lys,ENST00000256031,;ATP13A3,missense_variant,p.Glu5Lys,ENST00000457986,;ATP13A3,missense_variant,p.Glu5Lys,ENST00000439040,;ATP13A3,upstream_gene_variant,,ENST00000492983,;	T	ENSG00000133657	ENST00000439040	Transcript	missense_variant	805	13	5	E/K	Gaa/Aaa	.	.	.	-1	ATP13A3	HGNC	24113	protein_coding	YES	CCDS43187.1	ENSP00000416508	AT133_HUMAN	C9JAP7_HUMAN,C9J7Z7_HUMAN	UPI000049DFC3	.	tolerated(0.16)	benign(0.012)	3/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CCTTTCTTCCC	.	3	BLCA
ATP13A3	0	.	GRCh37	3	194182949	194182949	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-30G>C	.	.	ENST00000439040	3/33	70	46	24	72	72	0	ATP13A3,5_prime_UTR_variant,,ENST00000446356,;ATP13A3,5_prime_UTR_variant,,ENST00000256031,;ATP13A3,5_prime_UTR_variant,,ENST00000457986,;ATP13A3,5_prime_UTR_variant,,ENST00000439040,;ATP13A3,upstream_gene_variant,,ENST00000492983,;	G	ENSG00000133657	ENST00000439040	Transcript	5_prime_UTR_variant	763	.	.	.	.	.	.	.	-1	ATP13A3	HGNC	24113	protein_coding	YES	CCDS43187.1	ENSP00000416508	AT133_HUMAN	C9JAP7_HUMAN,C9J7Z7_HUMAN	UPI000049DFC3	.	.	.	3/33	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCTTCAAACA	.	3	BLCA
MUC4	0	.	GRCh37	3	195516804	195516804	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1647C>A	p.%3D	p.S549S	ENST00000463781	2/25	242	214	28	274	274	0	MUC4,synonymous_variant,p.%3D,ENST00000475231,;MUC4,synonymous_variant,p.%3D,ENST00000463781,;MUC4,intron_variant,,ENST00000346145,;MUC4,intron_variant,,ENST00000349607,;MUC4,synonymous_variant,p.%3D,ENST00000477086,;MUC4,synonymous_variant,p.%3D,ENST00000466475,;MUC4,synonymous_variant,p.%3D,ENST00000478156,;MUC4,synonymous_variant,p.%3D,ENST00000470451,;MUC4,synonymous_variant,p.%3D,ENST00000479406,;MUC4,synonymous_variant,p.%3D,ENST00000477756,;MUC4,synonymous_variant,p.%3D,ENST00000462323,;MUC4,synonymous_variant,p.%3D,ENST00000480843,;	T	ENSG00000145113	ENST00000463781	Transcript	synonymous_variant	2107	1647	549	S	tcC/tcA	.	.	.	-1	MUC4	HGNC	7514	protein_coding	YES	CCDS54700.1	ENSP00000417498	.	O75456_HUMAN,E9PDY6_HUMAN	UPI0001B3CB30	.	.	.	2/25	.	hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF41	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGGAGGAGTA	.	4	BLCA
TGFBR2	0	.	GRCh37	3	30691947	30691947	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.524C>G	p.Ser175Ter	p.S175*	ENST00000359013	4/8	67	57	9	94	94	0	TGFBR2,stop_gained,p.Ser150Ter,ENST00000295754,;TGFBR2,stop_gained,p.Ser175Ter,ENST00000359013,;	G	ENSG00000163513	ENST00000359013	Transcript	stop_gained	807	524	175	S/*	tCa/tGa	.	.	.	1	TGFBR2	HGNC	11773	protein_coding	YES	CCDS33727.1	ENSP00000351905	TGFR2_HUMAN	D2JYI1_HUMAN	UPI000053030E	.	.	.	4/8	.	hmmpanther:PTHR23255,hmmpanther:PTHR23255:SF55,Gene3D:2.10.60.10,Pfam_domain:PF08917,PIRSF_domain:PIRSF037393,Superfamily_domains:SSF57302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTCTCAGAAG	.	4	BLCA
SUSD5	0	.	GRCh37	3	33195406	33195406	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.718T>C	p.Ser240Pro	p.S240P	ENST00000309558	5/5	39	31	7	70	70	0	SUSD5,missense_variant,p.Ser176Pro,ENST00000412539,;SUSD5,missense_variant,p.Ser240Pro,ENST00000309558,;	G	ENSG00000173705	ENST00000309558	Transcript	missense_variant	1136	718	240	S/P	Tcc/Ccc	.	.	.	-1	SUSD5	HGNC	29061	protein_coding	YES	CCDS46787.1	ENSP00000308727	SUSD5_HUMAN	.	UPI00001C1DF3	.	tolerated(0.15)	benign(0.002)	5/5	.	hmmpanther:PTHR32493:SF0,hmmpanther:PTHR32493	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGAGGAGTCTC	.	5	BLCA
XIRP1	0	.	GRCh37	3	39230987	39230987	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-51G>C	.	.	ENST00000340369	2/2	22	15	7	57	57	0	XIRP1,5_prime_UTR_variant,,ENST00000396251,;XIRP1,5_prime_UTR_variant,,ENST00000340369,;XIRP1,intron_variant,,ENST00000421646,;	G	ENSG00000168334	ENST00000340369	Transcript	5_prime_UTR_variant	179	.	.	.	.	.	.	.	-1	XIRP1	HGNC	14301	protein_coding	YES	CCDS2683.1	ENSP00000343140	XIRP1_HUMAN	.	UPI00001BFB06	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAGATCTAGAT	.	2	BLCA
NBEAL2	0	.	GRCh37	3	47037250	47037250	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1945G>A	p.Ala649Thr	p.A649T	ENST00000450053	14/54	38	35	3	55	55	0	NBEAL2,missense_variant,p.Ala649Thr,ENST00000450053,;NBEAL2,missense_variant,p.Ala121Thr,ENST00000416683,;NBEAL2,missense_variant,p.Ala649Thr,ENST00000292309,;NBEAL2,5_prime_UTR_variant,,ENST00000383740,;	A	ENSG00000160796	ENST00000450053	Transcript	missense_variant	2124	1945	649	A/T	Gcc/Acc	.	.	.	1	NBEAL2	HGNC	31928	protein_coding	YES	CCDS46817.1	ENSP00000415034	NBEL2_HUMAN	B4DVX0_HUMAN,B4DDY6_HUMAN	UPI000022C020	.	tolerated(0.25)	benign(0.297)	14/54	.	hmmpanther:PTHR13743:SF50,hmmpanther:PTHR13743,Pfam_domain:PF13385,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.A648V|c.1943C>T|3,CODON|p.A209V|c.626C>T|3	MUTECT|MUSE|VARSCANS	CGGCGGCCGGG	.	3	BLCA
CYB561D2	0	.	GRCh37	3	50390809	50390809	+	Silent	SNP	C	C	G	rs759274974	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.303C>G	p.%3D	p.L101L	ENST00000418577	3/3	42	38	4	55	55	0	CYB561D2,synonymous_variant,p.%3D,ENST00000424512,;CYB561D2,synonymous_variant,p.%3D,ENST00000418577,;CYB561D2,synonymous_variant,p.%3D,ENST00000232508,;CYB561D2,synonymous_variant,p.%3D,ENST00000425346,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;TMEM115,downstream_gene_variant,,ENST00000266025,;NPRL2,upstream_gene_variant,,ENST00000232501,;CYB561D2,non_coding_transcript_exon_variant,,ENST00000419046,;CYB561D2,intron_variant,,ENST00000490926,;NPRL2,upstream_gene_variant,,ENST00000493465,;NPRL2,upstream_gene_variant,,ENST00000479512,;NPRL2,upstream_gene_variant,,ENST00000487632,;NPRL2,upstream_gene_variant,,ENST00000493907,;NPRL2,upstream_gene_variant,,ENST00000492805,;NPRL2,upstream_gene_variant,,ENST00000429366,;NPRL2,upstream_gene_variant,,ENST00000433999,;NPRL2,upstream_gene_variant,,ENST00000448302,;NPRL2,upstream_gene_variant,,ENST00000476064,;NPRL2,upstream_gene_variant,,ENST00000418825,;NPRL2,upstream_gene_variant,,ENST00000461020,;NPRL2,upstream_gene_variant,,ENST00000433381,;NPRL2,upstream_gene_variant,,ENST00000469839,;NPRL2,upstream_gene_variant,,ENST00000451194,;NPRL2,upstream_gene_variant,,ENST00000467294,;NPRL2,upstream_gene_variant,,ENST00000480296,;	G	ENSG00000114395	ENST00000418577	Transcript	synonymous_variant	879	303	101	L	ctC/ctG	rs759274974	.	.	1	CYB561D2	HGNC	30253	protein_coding	YES	CCDS2827.1	ENSP00000391209	C56D2_HUMAN	.	UPI000000DC32	.	.	.	3/3	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50939,hmmpanther:PTHR15422,hmmpanther:PTHR15422:SF21,Pfam_domain:PF03188,SMART_domains:SM00665	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTCGGCCT	byFrequency	4	BLCA
CYB561D2	0	.	GRCh37	3	50391055	50391055	+	Silent	SNP	C	C	T	rs201850283	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549C>T	p.%3D	p.F183F	ENST00000418577	3/3	176	139	36	310	310	0	CYB561D2,synonymous_variant,p.%3D,ENST00000424512,;CYB561D2,synonymous_variant,p.%3D,ENST00000418577,;CYB561D2,synonymous_variant,p.%3D,ENST00000232508,;CYB561D2,synonymous_variant,p.%3D,ENST00000425346,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;TMEM115,downstream_gene_variant,,ENST00000266025,;NPRL2,upstream_gene_variant,,ENST00000232501,;CYB561D2,intron_variant,,ENST00000490926,;NPRL2,upstream_gene_variant,,ENST00000493465,;CYB561D2,downstream_gene_variant,,ENST00000419046,;NPRL2,upstream_gene_variant,,ENST00000479512,;NPRL2,upstream_gene_variant,,ENST00000487632,;NPRL2,upstream_gene_variant,,ENST00000493907,;NPRL2,upstream_gene_variant,,ENST00000492805,;NPRL2,upstream_gene_variant,,ENST00000429366,;NPRL2,upstream_gene_variant,,ENST00000433999,;NPRL2,upstream_gene_variant,,ENST00000448302,;NPRL2,upstream_gene_variant,,ENST00000476064,;NPRL2,upstream_gene_variant,,ENST00000418825,;NPRL2,upstream_gene_variant,,ENST00000461020,;NPRL2,upstream_gene_variant,,ENST00000433381,;NPRL2,upstream_gene_variant,,ENST00000469839,;NPRL2,upstream_gene_variant,,ENST00000451194,;NPRL2,upstream_gene_variant,,ENST00000467294,;NPRL2,upstream_gene_variant,,ENST00000480296,;	T	ENSG00000114395	ENST00000418577	Transcript	synonymous_variant	1125	549	183	F	ttC/ttT	rs201850283	.	.	1	CYB561D2	HGNC	30253	protein_coding	YES	CCDS2827.1	ENSP00000391209	C56D2_HUMAN	.	UPI000000DC32	.	.	.	3/3	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50939,hmmpanther:PTHR15422,hmmpanther:PTHR15422:SF21,Pfam_domain:PF03188	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGGTTCACTGC	byCluster	3	BLCA
CYB561D2	0	.	GRCh37	3	50391063	50391063	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.557C>A	p.Ser186Tyr	p.S186Y	ENST00000418577	3/3	164	131	33	313	313	0	CYB561D2,missense_variant,p.Ser186Tyr,ENST00000424512,;CYB561D2,missense_variant,p.Ser186Tyr,ENST00000418577,;CYB561D2,missense_variant,p.Ser186Tyr,ENST00000232508,;CYB561D2,missense_variant,p.Ser186Tyr,ENST00000425346,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;TMEM115,downstream_gene_variant,,ENST00000266025,;NPRL2,upstream_gene_variant,,ENST00000232501,;CYB561D2,intron_variant,,ENST00000490926,;NPRL2,upstream_gene_variant,,ENST00000493465,;CYB561D2,downstream_gene_variant,,ENST00000419046,;NPRL2,upstream_gene_variant,,ENST00000479512,;NPRL2,upstream_gene_variant,,ENST00000487632,;NPRL2,upstream_gene_variant,,ENST00000493907,;NPRL2,upstream_gene_variant,,ENST00000492805,;NPRL2,upstream_gene_variant,,ENST00000429366,;NPRL2,upstream_gene_variant,,ENST00000433999,;NPRL2,upstream_gene_variant,,ENST00000448302,;NPRL2,upstream_gene_variant,,ENST00000476064,;NPRL2,upstream_gene_variant,,ENST00000418825,;NPRL2,upstream_gene_variant,,ENST00000461020,;NPRL2,upstream_gene_variant,,ENST00000433381,;NPRL2,upstream_gene_variant,,ENST00000469839,;NPRL2,upstream_gene_variant,,ENST00000451194,;NPRL2,upstream_gene_variant,,ENST00000467294,;NPRL2,upstream_gene_variant,,ENST00000480296,;	A	ENSG00000114395	ENST00000418577	Transcript	missense_variant	1133	557	186	S/Y	tCt/tAt	COSM1485333	.	.	1	CYB561D2	HGNC	30253	protein_coding	YES	CCDS2827.1	ENSP00000391209	C56D2_HUMAN	.	UPI000000DC32	.	tolerated(0.11)	benign(0.141)	3/3	.	PROSITE_profiles:PS50939,hmmpanther:PTHR15422,hmmpanther:PTHR15422:SF21	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TGCCTCTGTCA	.	3	BLCA
CYB561D2	0	.	GRCh37	3	50391179	50391179	+	3'UTR	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*4C>A	.	.	ENST00000418577	3/3	63	53	9	126	126	0	CYB561D2,3_prime_UTR_variant,,ENST00000424512,;CYB561D2,3_prime_UTR_variant,,ENST00000418577,;CYB561D2,3_prime_UTR_variant,,ENST00000232508,;CYB561D2,3_prime_UTR_variant,,ENST00000425346,;XXcos-LUCA11.5,intron_variant,,ENST00000606589,;TMEM115,downstream_gene_variant,,ENST00000266025,;NPRL2,upstream_gene_variant,,ENST00000232501,;CYB561D2,intron_variant,,ENST00000490926,;NPRL2,upstream_gene_variant,,ENST00000493465,;CYB561D2,downstream_gene_variant,,ENST00000419046,;NPRL2,upstream_gene_variant,,ENST00000479512,;NPRL2,upstream_gene_variant,,ENST00000487632,;NPRL2,upstream_gene_variant,,ENST00000493907,;NPRL2,upstream_gene_variant,,ENST00000492805,;NPRL2,upstream_gene_variant,,ENST00000429366,;NPRL2,upstream_gene_variant,,ENST00000433999,;NPRL2,upstream_gene_variant,,ENST00000448302,;NPRL2,upstream_gene_variant,,ENST00000476064,;NPRL2,upstream_gene_variant,,ENST00000418825,;NPRL2,upstream_gene_variant,,ENST00000461020,;NPRL2,upstream_gene_variant,,ENST00000433381,;NPRL2,upstream_gene_variant,,ENST00000469839,;NPRL2,upstream_gene_variant,,ENST00000451194,;NPRL2,upstream_gene_variant,,ENST00000467294,;NPRL2,upstream_gene_variant,,ENST00000480296,;	A	ENSG00000114395	ENST00000418577	Transcript	3_prime_UTR_variant	1249	.	.	.	.	.	.	.	1	CYB561D2	HGNC	30253	protein_coding	YES	CCDS2827.1	ENSP00000391209	C56D2_HUMAN	.	UPI000000DC32	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGCTCTTCCC	.	5	BLCA
PBRM1	0	.	GRCh37	3	52643360	52643360	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2536G>A	p.Glu846Lys	p.E846K	ENST00000394830	17/30	74	69	5	86	86	0	PBRM1,missense_variant,p.Glu846Lys,ENST00000394830,;PBRM1,missense_variant,p.Glu846Lys,ENST00000409057,;PBRM1,missense_variant,p.Glu846Lys,ENST00000423351,;PBRM1,missense_variant,p.Glu846Lys,ENST00000410007,;PBRM1,missense_variant,p.Glu814Lys,ENST00000356770,;PBRM1,missense_variant,p.Glu846Lys,ENST00000296302,;PBRM1,missense_variant,p.Glu861Lys,ENST00000409767,;PBRM1,missense_variant,p.Glu805Lys,ENST00000446103,;PBRM1,missense_variant,p.Glu846Lys,ENST00000337303,;PBRM1,missense_variant,p.Glu861Lys,ENST00000409114,;PBRM1,missense_variant,p.Glu846Lys,ENST00000412587,;PBRM1,non_coding_transcript_exon_variant,,ENST00000462207,;PBRM1,non_coding_transcript_exon_variant,,ENST00000480064,;	T	ENSG00000163939	ENST00000394830	Transcript	missense_variant	2636	2536	846	E/K	Gaa/Aaa	COSM480356,COSM480357	.	.	-1	PBRM1	HGNC	30064	protein_coding	YES	CCDS43099.1	ENSP00000378307	PB1_HUMAN	C9JQF1_HUMAN,C9JPI5_HUMAN,C9JCJ2_HUMAN,C9J9L6_HUMAN,C9J409_HUMAN,C9J053_HUMAN	UPI000013E31E	.	tolerated(0.12)	benign(0.273)	17/30	.	PROSITE_profiles:PS50014,hmmpanther:PTHR16062,Gene3D:1.20.920.10,Pfam_domain:PF00439,SMART_domains:SM00297,Superfamily_domains:SSF47370	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACTTCAAACA	.	2	BLCA
EIF4E3	0	.	GRCh37	3	71733849	71733849	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.659G>T	p.Gly220Val	p.G220V	ENST00000425534	7/7	51	45	6	88	88	0	EIF4E3,missense_variant,p.Gly114Val,ENST00000295612,;EIF4E3,missense_variant,p.Gly114Val,ENST00000448225,;EIF4E3,missense_variant,p.Gly114Val,ENST00000421769,;EIF4E3,missense_variant,p.Gly220Val,ENST00000425534,;EIF4E3,missense_variant,p.Gly114Val,ENST00000389826,;EIF4E3,non_coding_transcript_exon_variant,,ENST00000468147,;EIF4E3,non_coding_transcript_exon_variant,,ENST00000481525,;	A	ENSG00000163412	ENST00000425534	Transcript	missense_variant	667	659	220	G/V	gGa/gTa	.	.	.	-1	EIF4E3	HGNC	31837	protein_coding	YES	CCDS46867.1	ENSP00000393324	IF4E3_HUMAN	C9JUY2_HUMAN,C9J7Z6_HUMAN,C9J6E5_HUMAN	UPI00015887BF	.	deleterious(0.03)	benign(0.036)	7/7	.	Superfamily_domains:SSF55418,Gene3D:3.30.760.10,hmmpanther:PTHR11960	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACGTCCACCT	.	4	BLCA
OR5K4	0	.	GRCh37	3	98072930	98072930	+	Frame_Shift_Del	DEL	C	C	-	rs193142226	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.237delC	p.Lys80ArgfsTer3	p.K80Rfs*3	ENST00000354924	1/1	357	273	83	388	387	0	OR5K4,frameshift_variant,p.Lys80ArgfsTer3,ENST00000354924,;RP11-325B23.2,intron_variant,,ENST00000508616,;	-	ENSG00000196098	ENST00000354924	Transcript	frameshift_variant	233	233	78	T/X	aCc/ac	rs193142226	.	.	1	OR5K4	HGNC	31291	protein_coding	YES	CCDS33802.1	ENSP00000347003	OR5K4_HUMAN	.	UPI000044D411	.	.	.	1/1	.	PROSITE_profiles:PS50262,hmmpanther:PTHR26452:SF198,hmmpanther:PTHR26452,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	A:0.0014	A:0	A:0	.	A:0.0069	A:0	A:0	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTGTTACCCCCA	byFrequency|byCluster|by1000G	2	BLCA
COL8A1	0	.	GRCh37	3	99514792	99514792	+	Missense_Mutation	SNP	G	G	A	rs778398809	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2047G>A	p.Glu683Lys	p.E683K	ENST00000261037	5/5	57	45	12	73	73	0	COL8A1,missense_variant,p.Glu683Lys,ENST00000261037,;COL8A1,missense_variant,p.Glu683Lys,ENST00000273342,;COL8A1,downstream_gene_variant,,ENST00000452013,;	A	ENSG00000144810	ENST00000261037	Transcript	missense_variant	2427	2047	683	E/K	Gag/Aag	rs778398809	.	.	1	COL8A1	HGNC	2215	protein_coding	YES	CCDS2934.1	ENSP00000261037	CO8A1_HUMAN	C9JTN9_HUMAN	UPI0000126D21	.	tolerated(0.4)	probably_damaging(0.946)	5/5	.	PROSITE_profiles:PS50871,hmmpanther:PTHR24022,hmmpanther:PTHR24022:SF61,Pfam_domain:PF00386,Gene3D:2.60.120.40,SMART_domains:SM00110,Superfamily_domains:SSF49842	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAACGAGCCC	byFrequency	5	BLCA
ADH1A	0	.	GRCh37	4	100200705	100200705	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981A>T	p.Glu327Asp	p.E327D	ENST00000209668	8/9	127	121	6	119	119	0	ADH1A,missense_variant,p.Glu327Asp,ENST00000209668,;RP11-696N14.1,intron_variant,,ENST00000500358,;RP11-696N14.1,intron_variant,,ENST00000506160,;RP11-696N14.1,downstream_gene_variant,,ENST00000509295,;RP11-696N14.1,downstream_gene_variant,,ENST00000510764,;ADH1A,downstream_gene_variant,,ENST00000503461,;	A	ENSG00000187758	ENST00000209668	Transcript	missense_variant	1095	981	327	E/D	gaA/gaT	.	.	.	-1	ADH1A	HGNC	249	protein_coding	YES	CCDS3648.1	ENSP00000209668	ADH1A_HUMAN	.	UPI0000062219	.	tolerated(1)	benign(0.001)	8/9	.	Superfamily_domains:SSF51735,Superfamily_domains:SSF50129,SMART_domains:SM00829,Pfam_domain:PF00107,hmmpanther:PTHR11695,hmmpanther:PTHR11695:SF376	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACACATTCTTT	.	2	BLCA
ZNF518B	0	.	GRCh37	4	10447205	10447205	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748A>T	p.Thr250Ser	p.T250S	ENST00000326756	3/3	148	139	8	234	234	0	ZNF518B,missense_variant,p.Thr250Ser,ENST00000326756,;ZNF518B,downstream_gene_variant,,ENST00000507515,;	A	ENSG00000178163	ENST00000326756	Transcript	missense_variant	1187	748	250	T/S	Act/Tct	.	.	.	-1	ZNF518B	HGNC	29365	protein_coding	YES	CCDS33960.1	ENSP00000317614	Z518B_HUMAN	D6RDM9_HUMAN	UPI0000160B97	.	tolerated(0.38)	benign(0.005)	3/3	.	hmmpanther:PTHR10032:SF188,hmmpanther:PTHR10032	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGTAGTCCGTG	.	2	BLCA
C4orf21	0	.	GRCh37	4	113506789	113506789	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4009G>C	p.Glu1337Gln	p.E1337Q	ENST00000505019	14/28	38	34	3	44	44	0	C4orf21,missense_variant,p.Glu1337Gln,ENST00000505019,;C4orf21,downstream_gene_variant,,ENST00000309071,;C4orf21,missense_variant,p.Glu235Gln,ENST00000445413,;C4orf21,3_prime_UTR_variant,,ENST00000473015,;	G	ENSG00000138658	ENST00000505019	Transcript	missense_variant	4135	4009	1337	E/Q	Gag/Cag	.	.	.	-1	C4orf21	HGNC	25654	protein_coding	YES	CCDS3700.2	ENSP00000424737	CD021_HUMAN	I3L0G6_HUMAN,D6REN9_HUMAN	UPI0000EE2F8F	.	tolerated(0.1)	possibly_damaging(0.452)	14/28	.	hmmpanther:PTHR10887,hmmpanther:PTHR10887:SF325	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTCTCTCCCT	.	4	BLCA
LARP7	0	.	GRCh37	4	113570754	113570754	+	Frame_Shift_Del	DEL	A	A	-	rs763740398	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1234delA	p.Thr412GlnfsTer5	p.T412Qfs*5	ENST00000509061	11/15	39	29	10	38	38	0	LARP7,frameshift_variant,p.Thr199GlnfsTer5,ENST00000511529,;LARP7,frameshift_variant,p.Thr405GlnfsTer5,ENST00000324052,;LARP7,frameshift_variant,p.Thr405GlnfsTer5,ENST00000344442,;LARP7,frameshift_variant,p.Thr412GlnfsTer5,ENST00000509061,;LARP7,frameshift_variant,p.Thr73GlnfsTer5,ENST00000513553,;LARP7,downstream_gene_variant,,ENST00000505034,;LARP7,downstream_gene_variant,,ENST00000507443,;LARP7,downstream_gene_variant,,ENST00000508577,;MIR367,upstream_gene_variant,,ENST00000362299,;MIR302D,upstream_gene_variant,,ENST00000362275,;MIR302C,upstream_gene_variant,,ENST00000362232,;MIR302A,upstream_gene_variant,,ENST00000385192,;MIR302B,upstream_gene_variant,,ENST00000362188,;MIR302B,intron_variant,,ENST00000510655,;MIR302B,upstream_gene_variant,,ENST00000509938,;MIR302B,upstream_gene_variant,,ENST00000505215,;LARP7,downstream_gene_variant,,ENST00000503316,;LARP7,3_prime_UTR_variant,,ENST00000509622,;LARP7,downstream_gene_variant,,ENST00000505216,;LARP7,upstream_gene_variant,,ENST00000512361,;LARP7,downstream_gene_variant,,ENST00000512589,;	-	ENSG00000174720	ENST00000509061	Transcript	frameshift_variant	1530	1227	409	L/X	ttA/tt	rs763740398,COSM266809	.	.	1	LARP7	HGNC	24912	protein_coding	YES	CCDS58924.1	ENSP00000422626	LARP7_HUMAN	D6RFF0_HUMAN,D6RF49_HUMAN,D6RAF3_HUMAN	UPI000020B34C	.	.	.	11/15	.	hmmpanther:PTHR22792:SF3,hmmpanther:PTHR22792	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	deletion	.	7	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR|VARSCANI	TTCTTTAAAAAA	.	2	BLCA
FAT4	0	.	GRCh37	4	126371549	126371549	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.9378C>A	p.Tyr3126Ter	p.Y3126*	ENST00000394329	9/17	75	62	13	81	81	0	FAT4,stop_gained,p.Tyr3126Ter,ENST00000394329,;FAT4,stop_gained,p.Tyr1424Ter,ENST00000335110,;FAT4,downstream_gene_variant,,ENST00000509444,;	A	ENSG00000196159	ENST00000394329	Transcript	stop_gained	9391	9378	3126	Y/*	taC/taA	.	.	.	1	FAT4	HGNC	23109	protein_coding	YES	CCDS3732.3	ENSP00000377862	FAT4_HUMAN	B3KRB4_HUMAN	UPI000155D6E3	.	.	.	9/17	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF41,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTACAGCAT	.	5	BLCA
PCDH10	0	.	GRCh37	4	134084313	134084313	+	Missense_Mutation	SNP	G	G	T	rs779390646	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2979G>T	p.Gln993His	p.Q993H	ENST00000264360	4/5	150	123	26	149	148	1	PCDH10,missense_variant,p.Gln993His,ENST00000264360,;PCDH10,non_coding_transcript_exon_variant,,ENST00000511112,;	T	ENSG00000138650	ENST00000264360	Transcript	missense_variant	3805	2979	993	Q/H	caG/caT	rs779390646	.	.	1	PCDH10	HGNC	13404	protein_coding	YES	CCDS34063.1	ENSP00000264360	PCD10_HUMAN	Q9NSR3_HUMAN	UPI0000161C61	.	deleterious(0.03)	benign(0.264)	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCCAGCCTGG	.	5	BLCA
UVSSA	0	.	GRCh37	4	1379728	1379728	+	Silent	SNP	G	G	A	rs757116685	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2109G>A	p.%3D	p.Q703Q	ENST00000389851	14/14	33	28	5	72	72	0	UVSSA,synonymous_variant,p.%3D,ENST00000512728,;UVSSA,synonymous_variant,p.%3D,ENST00000507531,;UVSSA,synonymous_variant,p.%3D,ENST00000389851,;UVSSA,synonymous_variant,p.%3D,ENST00000511216,;UVSSA,synonymous_variant,p.%3D,ENST00000511563,;UVSSA,downstream_gene_variant,,ENST00000507422,;UVSSA,3_prime_UTR_variant,,ENST00000503548,;	A	ENSG00000163945	ENST00000389851	Transcript	synonymous_variant	2556	2109	703	Q	caG/caA	rs757116685	.	.	1	UVSSA	HGNC	29304	protein_coding	YES	CCDS33938.1	ENSP00000374501	UVSSA_HUMAN	.	UPI00001C1E0C	.	.	.	14/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AACCAGTTTAA	.	4	BLCA
HHIP	0	.	GRCh37	4	145568068	145568068	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241C>T	p.Arg81Trp	p.R81W	ENST00000296575	1/13	63	57	5	51	51	0	HHIP,missense_variant,p.Arg81Trp,ENST00000434550,;HHIP,missense_variant,p.Arg81Trp,ENST00000296575,;HHIP-AS1,intron_variant,,ENST00000512359,;HHIP-AS1,upstream_gene_variant,,ENST00000503066,;HHIP-AS1,upstream_gene_variant,,ENST00000508269,;HHIP,upstream_gene_variant,,ENST00000505891,;HHIP,upstream_gene_variant,,ENST00000511314,;HHIP,upstream_gene_variant,,ENST00000515080,;	T	ENSG00000164161	ENST00000296575	Transcript	missense_variant	896	241	81	R/W	Cgg/Tgg	COSM3781930,COSM3781931	.	.	1	HHIP	HGNC	14866	protein_coding	YES	CCDS3762.1	ENSP00000296575	HHIP_HUMAN	.	UPI0000071302	.	deleterious(0)	possibly_damaging(0.616)	1/13	.	Pfam_domain:PF03024,hmmpanther:PTHR19328,hmmpanther:PTHR19328:SF27	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	GCCTGCGGAGT	.	3	BLCA
LRBA	0	.	GRCh37	4	151829821	151829821	+	Silent	SNP	G	G	C	rs143448521	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1350C>G	p.%3D	p.L450L	ENST00000357115	10/58	89	75	14	86	86	0	LRBA,synonymous_variant,p.%3D,ENST00000535741,;LRBA,synonymous_variant,p.%3D,ENST00000507224,;LRBA,synonymous_variant,p.%3D,ENST00000357115,;LRBA,synonymous_variant,p.%3D,ENST00000510413,;	C	ENSG00000198589	ENST00000357115	Transcript	synonymous_variant	1594	1350	450	L	ctC/ctG	rs143448521	.	.	-1	LRBA	HGNC	1742	protein_coding	YES	CCDS3773.1	ENSP00000349629	LRBA_HUMAN	Q7KZN3_HUMAN	UPI000013E35C	.	.	.	10/58	.	hmmpanther:PTHR13743,hmmpanther:PTHR13743:SF64	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGCATGAGTGC	byCluster	4	BLCA
GUCY1A3	0	.	GRCh37	4	156643193	156643193	+	Nonsense_Mutation	SNP	C	C	T	rs749771282	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1720C>T	p.Arg574Ter	p.R574*	ENST00000296518	9/10	339	304	35	312	312	0	GUCY1A3,stop_gained,p.Arg574Ter,ENST00000506455,;GUCY1A3,stop_gained,p.Arg574Ter,ENST00000455639,;GUCY1A3,stop_gained,p.Arg574Ter,ENST00000513574,;GUCY1A3,stop_gained,p.Arg316Ter,ENST00000393832,;GUCY1A3,stop_gained,p.Arg574Ter,ENST00000511507,;GUCY1A3,stop_gained,p.Arg574Ter,ENST00000296518,;GUCY1A3,stop_gained,p.Arg574Ter,ENST00000511108,;GUCY1A3,3_prime_UTR_variant,,ENST00000515201,;GUCY1A3,3_prime_UTR_variant,,ENST00000443668,;GUCY1A3,3_prime_UTR_variant,,ENST00000509901,;	T	ENSG00000164116	ENST00000296518	Transcript	stop_gained	1929	1720	574	R/*	Cga/Tga	rs749771282,COSM1209201	.	.	1	GUCY1A3	HGNC	4685	protein_coding	YES	CCDS34085.1	ENSP00000296518	GCYA3_HUMAN	Q9NNW8_HUMAN,J3KPQ8_HUMAN	UPI0000033343	.	.	.	9/10	.	PROSITE_profiles:PS50125,hmmpanther:PTHR11920:SF226,hmmpanther:PTHR11920,Pfam_domain:PF00211,Gene3D:3.30.70.1230,SMART_domains:SM00044,Superfamily_domains:SSF55073	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	BUFFER|p.R574Q|c.1721G>A|3	RADIA|MUTECT|MUSE|VARSCANS	AGATGCGAATT	.	4	BLCA
ASIC5	0	.	GRCh37	4	156763401	156763401	+	Missense_Mutation	SNP	G	G	A	rs749340873	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967C>T	p.His323Tyr	p.H323Y	ENST00000537611	6/10	128	121	6	120	120	0	ASIC5,missense_variant,p.His323Tyr,ENST00000537611,;	A	ENSG00000256394	ENST00000537611	Transcript	missense_variant	1014	967	323	H/Y	Cac/Tac	rs749340873	.	.	-1	ASIC5	HGNC	17537	protein_coding	YES	CCDS3793.1	ENSP00000442477	ASIC5_HUMAN	.	UPI00000433EB	.	tolerated(0.78)	benign(0.006)	6/10	.	hmmpanther:PTHR11690,hmmpanther:PTHR11690:SF126,Gene3D:2qtsA02,Pfam_domain:PF00858,Prints_domain:PR01078	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATGTGCTGGG	.	2	BLCA
GRIA2	0	.	GRCh37	4	158281151	158281151	+	Missense_Mutation	SNP	A	A	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2147A>C	p.Lys716Thr	p.K716T	ENST00000296526	13/16	53	49	4	84	84	0	GRIA2,missense_variant,p.Lys716Thr,ENST00000264426,;GRIA2,missense_variant,p.Lys669Thr,ENST00000507898,;GRIA2,missense_variant,p.Lys669Thr,ENST00000393815,;GRIA2,missense_variant,p.Lys716Thr,ENST00000296526,;GRIA2,missense_variant,p.Lys669Thr,ENST00000449365,;GRIA2,missense_variant,p.Lys47Thr,ENST00000510854,;AC079233.1,upstream_gene_variant,,ENST00000578227,;GRIA2,missense_variant,p.Lys669Thr,ENST00000323661,;GRIA2,non_coding_transcript_exon_variant,,ENST00000471736,;GRIA2,upstream_gene_variant,,ENST00000503980,;	C	ENSG00000120251	ENST00000296526	Transcript	missense_variant	2472	2147	716	K/T	aAg/aCg	COSM1253669,COSM1253670	.	.	1	GRIA2	HGNC	4572	protein_coding	YES	CCDS3797.1	ENSP00000296526	GRIA2_HUMAN	D6RFM6_HUMAN,D6REK8_HUMAN,D6RDX5_HUMAN,D6RBV7_HUMAN,D6R9Z0_HUMAN,A8MT92_HUMAN	UPI000002AA8D	.	tolerated(0.26)	probably_damaging(0.959)	13/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF99,Pfam_domain:PF00060,SMART_domains:SM00079,Superfamily_domains:SSF53850	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCGGAAGTCCA	.	2	BLCA
FNIP2	0	.	GRCh37	4	159789994	159789994	+	Frame_Shift_Del	DEL	A	A	-	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2212delA	p.Met738TrpfsTer5	p.M738Wfs*5	ENST00000264433	13/17	112	89	23	100	100	0	FNIP2,frameshift_variant,p.Met761TrpfsTer5,ENST00000379346,;FNIP2,frameshift_variant,p.Met738TrpfsTer5,ENST00000264433,;FNIP2,downstream_gene_variant,,ENST00000512986,;FNIP2,upstream_gene_variant,,ENST00000505130,;	-	ENSG00000052795	ENST00000264433	Transcript	frameshift_variant	2281	2206	736	K/X	Aaa/aa	COSM1428314,COSM1428313	.	.	1	FNIP2	HGNC	29280	protein_coding	YES	CCDS47155.1	ENSP00000264433	FNIP2_HUMAN	.	UPI00001C1E0A	.	.	.	13/17	.	hmmpanther:PTHR21634,hmmpanther:PTHR21634:SF11	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	deletion	.	6	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CGCATGAAAAAA	.	3	BLCA
DDX60	0	.	GRCh37	4	169229287	169229287	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.134C>G	p.Ser45Ter	p.S45*	ENST00000393743	4/38	74	60	13	79	79	0	DDX60,stop_gained,p.Ser45Ter,ENST00000514995,;DDX60,stop_gained,p.Ser45Ter,ENST00000393743,;snoU13,upstream_gene_variant,,ENST00000459352,;	C	ENSG00000137628	ENST00000393743	Transcript	stop_gained	426	134	45	S/*	tCa/tGa	COSM131331,COSM131332	.	.	-1	DDX60	HGNC	25942	protein_coding	YES	CCDS34097.1	ENSP00000377344	DDX60_HUMAN	Q9NXV7_HUMAN,Q9H616_HUMAN,Q6B0F7_HUMAN,D6R944_HUMAN	UPI000020B6AB	.	.	.	4/38	.	.	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTAATGAATCC	.	5	BLCA
ADAM29	0	.	GRCh37	4	175897037	175897037	+	Missense_Mutation	SNP	G	G	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.361G>T	p.Gly121Trp	p.G121W	ENST00000359240	5/5	105	96	9	129	129	0	ADAM29,missense_variant,p.Gly121Trp,ENST00000514159,;ADAM29,missense_variant,p.Gly121Trp,ENST00000445694,;ADAM29,missense_variant,p.Gly121Trp,ENST00000404450,;ADAM29,missense_variant,p.Gly121Trp,ENST00000359240,;ADAM29,downstream_gene_variant,,ENST00000502305,;ADAM29,downstream_gene_variant,,ENST00000502940,;ADAM29,downstream_gene_variant,,ENST00000505141,;RP13-577H12.2,downstream_gene_variant,,ENST00000507525,;ADAM29,downstream_gene_variant,,ENST00000515538,;	T	ENSG00000168594	ENST00000359240	Transcript	missense_variant	1031	361	121	G/W	Ggg/Tgg	COSM3602103	.	.	1	ADAM29	HGNC	207	protein_coding	YES	CCDS3823.1	ENSP00000352177	ADA29_HUMAN	D6RHU0_HUMAN,D6RBU0_HUMAN	UPI000013E9DE	.	deleterious(0)	probably_damaging(0.99)	5/5	.	hmmpanther:PTHR11905,hmmpanther:PTHR11905:SF34,Pfam_domain:PF01562	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTTTTGGGGGT	.	3	BLCA
AGA	0	.	GRCh37	4	178363583	178363583	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-54G>C	.	.	ENST00000264595	1/9	29	26	3	36	36	0	AGA,5_prime_UTR_variant,,ENST00000264595,;AGA,upstream_gene_variant,,ENST00000510635,;AGA,upstream_gene_variant,,ENST00000502310,;RP11-130F10.1,upstream_gene_variant,,ENST00000507023,;AGA,upstream_gene_variant,,ENST00000506853,;AGA,upstream_gene_variant,,ENST00000510955,;AGA,upstream_gene_variant,,ENST00000511231,;	G	ENSG00000038002	ENST00000264595	Transcript	5_prime_UTR_variant	75	.	.	.	.	.	.	.	-1	AGA	HGNC	318	protein_coding	YES	CCDS3829.1	ENSP00000264595	ASPG_HUMAN	Q6LD43_HUMAN	UPI000013D53C	.	.	.	1/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ATCGCCGAACA	.	2	BLCA
CLDN22	0	.	GRCh37	4	184240517	184240517	+	3'UTR	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*192C>G	.	.	ENST00000323319	1/1	14	10	4	14	14	0	CLDN22,3_prime_UTR_variant,,ENST00000323319,;WWC2,3_prime_UTR_variant,,ENST00000403733,;WWC2,downstream_gene_variant,,ENST00000504005,;WWC2,downstream_gene_variant,,ENST00000508747,;WWC2,downstream_gene_variant,,ENST00000513834,;CLDN24,downstream_gene_variant,,ENST00000514470,;WWC2,downstream_gene_variant,,ENST00000448232,;CLDN24,downstream_gene_variant,,ENST00000541814,;WWC2,downstream_gene_variant,,ENST00000427431,;WWC2,downstream_gene_variant,,ENST00000438543,;	C	ENSG00000177300	ENST00000323319	Transcript	3_prime_UTR_variant	1411	.	.	.	.	.	.	.	-1	CLDN22	HGNC	2044	protein_coding	YES	CCDS43286.1	ENSP00000318113	CLD22_HUMAN	.	UPI00001D76D6	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTCTTGATTGA	.	4	BLCA
TRAPPC11	0	.	GRCh37	4	184626154	184626154	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2986C>A	p.Pro996Thr	p.P996T	ENST00000334690	27/30	179	165	14	209	209	0	TRAPPC11,missense_variant,p.Pro602Thr,ENST00000512476,;TRAPPC11,missense_variant,p.Pro996Thr,ENST00000334690,;TRAPPC11,missense_variant,p.Pro996Thr,ENST00000357207,;RNU6-1053P,upstream_gene_variant,,ENST00000515930,;TRAPPC11,3_prime_UTR_variant,,ENST00000505676,;TRAPPC11,non_coding_transcript_exon_variant,,ENST00000506426,;TRAPPC11,non_coding_transcript_exon_variant,,ENST00000511955,;	A	ENSG00000168538	ENST00000334690	Transcript	missense_variant	3188	2986	996	P/T	Ccc/Acc	.	.	.	1	TRAPPC11	HGNC	25751	protein_coding	YES	CCDS34112.1	ENSP00000335371	TPC11_HUMAN	.	UPI000020B774	.	tolerated(0.08)	probably_damaging(0.966)	27/30	.	hmmpanther:PTHR14374,Pfam_domain:PF07919	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	ATATCCCCATC	.	3	BLCA
CASP3	0	.	GRCh37	4	185550579	185550579	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.681C>A	p.%3D	p.A227A	ENST00000308394	8/8	87	75	12	116	116	0	CASP3,synonymous_variant,p.%3D,ENST00000523916,;CASP3,synonymous_variant,p.%3D,ENST00000308394,;CASP3,3_prime_UTR_variant,,ENST00000393585,;CASP3,3_prime_UTR_variant,,ENST00000393588,;CASP3,3_prime_UTR_variant,,ENST00000517513,;CASP3,downstream_gene_variant,,ENST00000447121,;RP11-242J7.1,upstream_gene_variant,,ENST00000519173,;RP11-242J7.1,upstream_gene_variant,,ENST00000520280,;RP11-242J7.1,upstream_gene_variant,,ENST00000522554,;	T	ENSG00000164305	ENST00000308394	Transcript	synonymous_variant	944	681	227	A	gcC/gcA	.	.	.	-1	CASP3	HGNC	1504	protein_coding	YES	CCDS3836.1	ENSP00000311032	CASP3_HUMAN	C9JXR7_HUMAN	UPI000000D90B	.	.	.	8/8	.	Superfamily_domains:SSF52129,SMART_domains:SM00115,Pfam_domain:PF00656,Gene3D:3.40.50.1460,hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF30,PROSITE_profiles:PS50207	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTCGGCATA	.	5	BLCA
ACSL1	0	.	GRCh37	4	185691610	185691610	+	Silent	SNP	T	T	C	rs371855405	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.936A>G	p.%3D	p.P312P	ENST00000515030	11/21	55	45	9	45	45	0	ACSL1,synonymous_variant,p.%3D,ENST00000504900,;ACSL1,synonymous_variant,p.%3D,ENST00000504342,;ACSL1,synonymous_variant,p.%3D,ENST00000515030,;ACSL1,synonymous_variant,p.%3D,ENST00000507295,;ACSL1,synonymous_variant,p.%3D,ENST00000437665,;ACSL1,synonymous_variant,p.%3D,ENST00000454703,;ACSL1,synonymous_variant,p.%3D,ENST00000281455,;ACSL1,intron_variant,,ENST00000513317,;ACSL1,intron_variant,,ENST00000505492,;ACSL1,upstream_gene_variant,,ENST00000503407,;ACSL1,3_prime_UTR_variant,,ENST00000506733,;	C	ENSG00000151726	ENST00000515030	Transcript	synonymous_variant	1262	936	312	P	ccA/ccG	rs371855405	.	.	-1	ACSL1	HGNC	3569	protein_coding	YES	CCDS3839.1	ENSP00000422607	ACSL1_HUMAN	B7Z3Z9_HUMAN	UPI000004AC12	.	.	.	11/21	.	hmmpanther:PTHR24096:SF167,hmmpanther:PTHR24096,Gene3D:3.40.50.980,Pfam_domain:PF00501,Superfamily_domains:SSF56801	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATCTGGGCA	.	5	BLCA
TLR3	0	.	GRCh37	4	187004099	187004099	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1259C>G	p.Ser420Ter	p.S420*	ENST00000296795	4/5	81	67	14	88	88	0	TLR3,stop_gained,p.Ser143Ter,ENST00000504367,;TLR3,stop_gained,p.Ser420Ter,ENST00000296795,;TLR3,downstream_gene_variant,,ENST00000513189,;TLR3,downstream_gene_variant,,ENST00000508051,;TLR3,non_coding_transcript_exon_variant,,ENST00000512264,;	G	ENSG00000164342	ENST00000296795	Transcript	stop_gained	1363	1259	420	S/*	tCa/tGa	.	.	.	1	TLR3	HGNC	11849	protein_coding	YES	CCDS3846.1	ENSP00000296795	TLR3_HUMAN	E6Y0F1_HUMAN,Q1KMK2_HUMAN,E9PGH4_HUMAN	UPI0000049B3E	.	.	.	4/5	.	PROSITE_profiles:PS51450,hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF5,Gene3D:3.80.10.10,Pfam_domain:PF13855,SMART_domains:SM00365,SMART_domains:SM00369,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATCTCAAAAA	.	5	BLCA
FAT1	0	.	GRCh37	4	187629483	187629483	+	Missense_Mutation	SNP	T	T	C	rs766981976	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1499A>G	p.Tyr500Cys	p.Y500C	ENST00000441802	2/27	122	113	9	132	132	0	FAT1,missense_variant,p.Tyr500Cys,ENST00000441802,;FAT1,downstream_gene_variant,,ENST00000509647,;	C	ENSG00000083857	ENST00000441802	Transcript	missense_variant	1709	1499	500	Y/C	tAc/tGc	rs766981976	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	probably_damaging(1)	2/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACTGTATGTC	.	2	BLCA
SLIT2	0	.	GRCh37	4	20544219	20544219	+	Missense_Mutation	SNP	C	C	G	rs376329517	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2246C>G	p.Pro749Arg	p.P749R	ENST00000504154	21/37	195	162	33	374	374	0	SLIT2,missense_variant,p.Pro753Arg,ENST00000273739,;SLIT2,missense_variant,p.Pro749Arg,ENST00000504154,;SLIT2,missense_variant,p.Pro741Arg,ENST00000503823,;SLIT2,missense_variant,p.Pro745Arg,ENST00000503837,;SLIT2,upstream_gene_variant,,ENST00000511508,;SLIT2,non_coding_transcript_exon_variant,,ENST00000509394,;SLIT2,downstream_gene_variant,,ENST00000509099,;	G	ENSG00000145147	ENST00000504154	Transcript	missense_variant	2498	2246	749	P/R	cCg/cGg	rs376329517	.	.	1	SLIT2	HGNC	11086	protein_coding	YES	CCDS3426.1	ENSP00000422591	SLIT2_HUMAN	Q4W5N0_HUMAN,Q4W5K2_HUMAN,B3KNE2_HUMAN	UPI00000747E4	.	deleterious(0)	probably_damaging(1)	21/37	.	hmmpanther:PTHR24373:SF107,hmmpanther:PTHR24373,Pfam_domain:PF01462,SMART_domains:SM00013,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTGCCGAAAG	byFrequency|byCluster	4	BLCA
ZNF732	0	.	GRCh37	4	266334	266334	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.312G>C	p.Glu104Asp	p.E104D	ENST00000419098	4/4	13	9	4	29	29	0	ZNF732,missense_variant,p.Glu104Asp,ENST00000419098,;RP11-478C6.5,upstream_gene_variant,,ENST00000507882,;RP11-478C6.6,upstream_gene_variant,,ENST00000511111,;	G	ENSG00000186777	ENST00000419098	Transcript	missense_variant	323	312	104	E/D	gaG/gaC	.	.	.	-1	ZNF732	HGNC	37138	protein_coding	YES	CCDS46990.1	ENSP00000415774	ZN732_HUMAN	.	UPI00017A8291	.	tolerated(0.32)	possibly_damaging(0.899)	4/4	.	hmmpanther:PTHR24384:SF81,hmmpanther:PTHR24384	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE	CATTTCTCATA	.	4	BLCA
PDS5A	0	.	GRCh37	4	39875912	39875912	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2274delT	p.Phe758LeufsTer8	p.F758Lfs*8	ENST00000303538	20/33	32	25	7	60	60	0	PDS5A,frameshift_variant,p.Phe758LeufsTer8,ENST00000303538,;PDS5A,frameshift_variant,p.Phe39LeufsTer8,ENST00000507020,;PDS5A,non_coding_transcript_exon_variant,,ENST00000503696,;	-	ENSG00000121892	ENST00000303538	Transcript	frameshift_variant	2814	2274	758	F/X	ttT/tt	.	.	.	-1	PDS5A	HGNC	29088	protein_coding	YES	CCDS47045.1	ENSP00000303427	PDS5A_HUMAN	Q96DB6_HUMAN,G1UI16_HUMAN,B3KMN2_HUMAN	UPI00006C6A7E	.	.	.	20/33	.	hmmpanther:PTHR12663,hmmpanther:PTHR12663:SF2,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	TACCTCAAAAAT	.	2	BLCA
KIT	0	.	GRCh37	4	55597512	55597512	+	Missense_Mutation	SNP	G	G	T	rs372359131	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2160G>T	p.Glu720Asp	p.E720D	ENST00000288135	15/21	48	40	8	70	70	0	KIT,missense_variant,p.Glu716Asp,ENST00000412167,;KIT,missense_variant,p.Glu720Asp,ENST00000288135,;KIT,non_coding_transcript_exon_variant,,ENST00000512959,;	T	ENSG00000157404	ENST00000288135	Transcript	missense_variant	2257	2160	720	E/D	gaG/gaT	rs372359131	.	.	1	KIT	HGNC	6342	protein_coding	YES	CCDS3496.1	ENSP00000288135	KIT_HUMAN	Q8TCG9_HUMAN	UPI000003F17D	.	tolerated(0.87)	probably_damaging(0.987)	15/21	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24416,hmmpanther:PTHR24416:SF46,Pfam_domain:PF07714,PIRSF_domain:PIRSF000615,SMART_domains:SM00219,PIRSF_domain:PIRSF500951	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATGAGTACAT	byCluster	5	BLCA
MAN2B2	0	.	GRCh37	4	6621665	6621665	+	Silent	SNP	G	G	A	rs760733896	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2826G>A	p.%3D	p.Q942Q	ENST00000285599	18/19	55	48	6	84	84	0	MAN2B2,synonymous_variant,p.%3D,ENST00000504248,;MAN2B2,synonymous_variant,p.%3D,ENST00000285599,;MAN2B2,3_prime_UTR_variant,,ENST00000505907,;MAN2B2,downstream_gene_variant,,ENST00000510427,;	A	ENSG00000013288	ENST00000285599	Transcript	synonymous_variant	2862	2826	942	Q	caG/caA	rs760733896	.	.	1	MAN2B2	HGNC	29623	protein_coding	YES	CCDS33951.1	ENSP00000285599	MA2B2_HUMAN	Q05BN7_HUMAN,B3KQN1_HUMAN	UPI000004BF05	.	.	.	18/19	.	hmmpanther:PTHR11607:SF5,hmmpanther:PTHR11607,Pfam_domain:PF07748,Gene3D:2.60.40.1360,Superfamily_domains:SSF74650	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCAGGCGCT	byFrequency	4	BLCA
UGT2B17	0	.	GRCh37	4	69434021	69434021	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.182C>A	p.Ser61Tyr	p.S61Y	ENST00000317746	1/6	308	262	46	412	412	0	UGT2B17,missense_variant,p.Ser61Tyr,ENST00000317746,;	T	ENSG00000197888	ENST00000317746	Transcript	missense_variant	225	182	61	S/Y	tCt/tAt	.	.	.	-1	UGT2B17	HGNC	12547	protein_coding	YES	CCDS3523.1	ENSP00000320401	UDB17_HUMAN	.	UPI0000137A9C	.	tolerated(0.06)	possibly_damaging(0.623)	1/6	.	Superfamily_domains:SSF53756,Pfam_domain:PF00201,hmmpanther:PTHR11926,hmmpanther:PTHR11926:SF178	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATAGAAGCC	.	4	BLCA
WDFY3	0	.	GRCh37	4	85676452	85676453	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5525dupT	p.Leu1842PhefsTer52	p.L1842Ffs*52	ENST00000295888	34/68	68	59	9	87	87	0	WDFY3,frameshift_variant,p.Leu1842PhefsTer52,ENST00000295888,;WDFY3,frameshift_variant,p.Leu1842PhefsTer52,ENST00000322366,;WDFY3,non_coding_transcript_exon_variant,,ENST00000509825,;	A	ENSG00000163625	ENST00000295888	Transcript	frameshift_variant	5933-5934	5525-5526	1842	L/FX	tta/ttTa	.	.	.	-1	WDFY3	HGNC	20751	protein_coding	YES	CCDS3609.1	ENSP00000295888	WDFY3_HUMAN	D6RJE4_HUMAN,A7E1Z6_HUMAN	UPI000013E2C7	.	.	.	34/68	.	hmmpanther:PTHR13743:SF55,hmmpanther:PTHR13743	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	AATAATAAAAA	.	2	BLCA
CPZ	0	.	GRCh37	4	8613821	8613821	+	Missense_Mutation	SNP	G	G	A	rs778856137	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1295G>A	p.Arg432Lys	p.R432K	ENST00000360986	8/11	20	17	3	39	39	0	CPZ,missense_variant,p.Arg432Lys,ENST00000360986,;CPZ,missense_variant,p.Arg40Lys,ENST00000429646,;CPZ,missense_variant,p.Arg421Lys,ENST00000315782,;CPZ,missense_variant,p.Arg295Lys,ENST00000382480,;GPR78,3_prime_UTR_variant,,ENST00000514302,;CPZ,3_prime_UTR_variant,,ENST00000515606,;GPR78,non_coding_transcript_exon_variant,,ENST00000513120,;	A	ENSG00000109625	ENST00000360986	Transcript	missense_variant	1469	1295	432	R/K	aGg/aAg	rs778856137,COSM3606737	.	.	1	CPZ	HGNC	2333	protein_coding	YES	CCDS33953.1	ENSP00000354255	CBPZ_HUMAN	.	UPI000020BCC5	.	tolerated(0.11)	possibly_damaging(0.877)	8/11	.	Superfamily_domains:SSF53187,SMART_domains:SM00631,Gene3D:3.40.630.10,Pfam_domain:PF00246,hmmpanther:PTHR11532:SF4,hmmpanther:PTHR11532	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GAATAGGTGTG	byFrequency	3	BLCA
UNC5C	0	.	GRCh37	4	96127845	96127845	+	Missense_Mutation	SNP	G	G	C	rs142077174	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1836C>G	p.Cys612Trp	p.C612W	ENST00000453304	11/16	124	105	19	134	134	0	UNC5C,missense_variant,p.Cys631Trp,ENST00000513796,;UNC5C,missense_variant,p.Cys612Trp,ENST00000453304,;	C	ENSG00000182168	ENST00000453304	Transcript	missense_variant	2185	1836	612	C/W	tgC/tgG	rs142077174	.	.	-1	UNC5C	HGNC	12569	protein_coding	YES	CCDS3643.1	ENSP00000406022	UNC5C_HUMAN	Q4W5H4_HUMAN	UPI000004E6A5	.	deleterious(0)	probably_damaging(0.999)	11/16	.	SMART_domains:SM00218,Pfam_domain:PF00791,hmmpanther:PTHR12582,hmmpanther:PTHR12582:SF7,PROSITE_profiles:PS51145	A:0.0004	A:0	A:0	.	A:0.001	A:0	A:0.001	A:0.0002	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTGCGCAGTG	byFrequency|byCluster|by1000G	4	BLCA
PAM	0	.	GRCh37	5	102343301	102343301	+	Missense_Mutation	SNP	G	G	A	rs768930010	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2155G>A	p.Val719Met	p.V719M	ENST00000304400	19/25	84	80	4	113	113	0	PAM,missense_variant,p.Val492Met,ENST00000379799,;PAM,missense_variant,p.Val14Met,ENST00000504691,;PAM,missense_variant,p.Val612Met,ENST00000348126,;PAM,missense_variant,p.Val719Met,ENST00000304400,;PAM,missense_variant,p.Val719Met,ENST00000346918,;PAM,missense_variant,p.Val622Met,ENST00000274392,;PAM,missense_variant,p.Val719Met,ENST00000438793,;PAM,missense_variant,p.Val719Met,ENST00000455264,;PAM,missense_variant,p.Val99Met,ENST00000379787,;PAM,non_coding_transcript_exon_variant,,ENST00000504456,;PAM,non_coding_transcript_exon_variant,,ENST00000510006,;PAM,non_coding_transcript_exon_variant,,ENST00000515456,;PAM,3_prime_UTR_variant,,ENST00000345721,;PAM,downstream_gene_variant,,ENST00000511429,;	A	ENSG00000145730	ENST00000304400	Transcript	missense_variant	2341	2155	719	V/M	Gtg/Atg	rs768930010	.	.	1	PAM	HGNC	8596	protein_coding	YES	CCDS43348.1	ENSP00000306100	AMD_HUMAN	D6RG20_HUMAN,D6RF09_HUMAN,D6RDU2_HUMAN,D6RCD5_HUMAN,D6RAQ2_HUMAN,D6R961_HUMAN	UPI000015618B	.	deleterious(0.02)	probably_damaging(0.992)	19/25	.	hmmpanther:PTHR10680,hmmpanther:PTHR10680:SF13,Gene3D:2.120.10.30,Superfamily_domains:SSF101898	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATTTGTGAGA	.	2	BLCA
APC	0	.	GRCh37	5	112177244	112177244	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5953G>A	p.Glu1985Lys	p.E1985K	ENST00000457016	16/16	58	46	11	53	53	0	APC,missense_variant,p.Glu1985Lys,ENST00000257430,;APC,missense_variant,p.Glu1985Lys,ENST00000457016,;APC,missense_variant,p.Glu1985Lys,ENST00000508376,;APC,downstream_gene_variant,,ENST00000507379,;APC,downstream_gene_variant,,ENST00000512211,;APC,downstream_gene_variant,,ENST00000504915,;APC,3_prime_UTR_variant,,ENST00000508624,;CTC-554D6.1,intron_variant,,ENST00000520401,;APC,downstream_gene_variant,,ENST00000502371,;APC,downstream_gene_variant,,ENST00000514164,;	A	ENSG00000134982	ENST00000457016	Transcript	missense_variant	6333	5953	1985	E/K	Gaa/Aaa	.	.	.	1	APC	HGNC	583	protein_coding	YES	CCDS4107.1	ENSP00000413133	APC_HUMAN	Q9UM98_HUMAN,Q9P119_HUMAN,Q9HAW6_HUMAN,Q4LE70_HUMAN,E9PFT7_HUMAN,D6RFL6_HUMAN,B2ZRE1_HUMAN,A5HB97_HUMAN,A5HB96_HUMAN,A5HB95_HUMAN,A5HB94_HUMAN,A1YIQ7_HUMAN	UPI000013CF60	.	.	benign(0.097)	16/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12607,hmmpanther:PTHR12607:SF11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATGAACCT	.	5	BLCA
CLPTM1L	0	.	GRCh37	5	1331945	1331945	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.945G>C	p.Lys315Asn	p.K315N	ENST00000320895	8/17	43	37	6	56	56	0	CLPTM1L,missense_variant,p.Lys315Asn,ENST00000320927,;CLPTM1L,missense_variant,p.Lys315Asn,ENST00000320895,;CLPTM1L,missense_variant,p.Lys182Asn,ENST00000507807,;CLPTM1L,non_coding_transcript_exon_variant,,ENST00000513250,;CLPTM1L,non_coding_transcript_exon_variant,,ENST00000508765,;CLPTM1L,non_coding_transcript_exon_variant,,ENST00000503042,;CLPTM1L,non_coding_transcript_exon_variant,,ENST00000503151,;CLPTM1L,downstream_gene_variant,,ENST00000511786,;	G	ENSG00000049656	ENST00000320895	Transcript	missense_variant	1203	945	315	K/N	aaG/aaC	.	.	.	-1	CLPTM1L	HGNC	24308	protein_coding	YES	CCDS3862.1	ENSP00000313854	CLP1L_HUMAN	B3KY18_HUMAN	UPI00000707DF	.	deleterious(0)	probably_damaging(0.926)	8/17	.	hmmpanther:PTHR21347:SF1,hmmpanther:PTHR21347,Pfam_domain:PF05602	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTTCTT	.	4	BLCA
DND1	0	.	GRCh37	5	140052115	140052115	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.519C>T	p.%3D	p.S173S	ENST00000542735	3/4	13	9	4	9	9	0	DND1,synonymous_variant,p.%3D,ENST00000542735,;HARS,downstream_gene_variant,,ENST00000504366,;HARS,downstream_gene_variant,,ENST00000448240,;WDR55,downstream_gene_variant,,ENST00000358337,;HARS,downstream_gene_variant,,ENST00000431330,;HARS,downstream_gene_variant,,ENST00000504156,;HARS,downstream_gene_variant,,ENST00000457527,;HARS,downstream_gene_variant,,ENST00000507746,;HARS,downstream_gene_variant,,ENST00000307633,;HARS,downstream_gene_variant,,ENST00000415192,;HARS,downstream_gene_variant,,ENST00000438307,;WDR55,downstream_gene_variant,,ENST00000520764,;WDR55,3_prime_UTR_variant,,ENST00000504897,;HARS,downstream_gene_variant,,ENST00000509087,;WDR55,downstream_gene_variant,,ENST00000511232,;WDR55,downstream_gene_variant,,ENST00000506393,;HARS,downstream_gene_variant,,ENST00000506579,;	A	ENSG00000256453	ENST00000542735	Transcript	synonymous_variant	563	519	173	S	agC/agT	.	.	.	-1	DND1	HGNC	23799	protein_coding	YES	CCDS4236.1	ENSP00000445366	DND1_HUMAN	.	UPI00000741C8	.	.	.	3/4	.	hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF283,Gene3D:3.30.70.330,SMART_domains:SM00360,Superfamily_domains:SSF54928	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCGGGGCTGGG	.	2	BLCA
PCDHA6	0	.	GRCh37	5	140209165	140209165	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1489C>T	p.Arg497Trp	p.R497W	ENST00000529310	1/4	123	105	17	152	152	0	PCDHA6,missense_variant,p.Arg497Trp,ENST00000527624,;PCDHA6,missense_variant,p.Arg497Trp,ENST00000529310,;PCDHA4,intron_variant,,ENST00000530339,;PCDHA1,intron_variant,,ENST00000504120,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA2,intron_variant,,ENST00000526136,;PCDHA1,intron_variant,,ENST00000394633,;PCDHA3,intron_variant,,ENST00000522353,;PCDHA4,intron_variant,,ENST00000512229,;PCDHA5,intron_variant,,ENST00000529859,;PCDHA7,upstream_gene_variant,,ENST00000378125,;PCDHA7,upstream_gene_variant,,ENST00000525929,;	T	ENSG00000081842	ENST00000529310	Transcript	missense_variant	1603	1489	497	R/W	Cgg/Tgg	COSM448760,COSM448759	.	.	1	PCDHA6	HGNC	8672	protein_coding	YES	CCDS47281.1	ENSP00000433378	PCDA6_HUMAN	.	UPI00001273CE	.	deleterious_low_confidence(0)	possibly_damaging(0.57)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF83,hmmpanther:PTHR24028,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGAGCGGCGG	.	4	BLCA
PCDHB7	0	.	GRCh37	5	140552932	140552932	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516C>T	p.%3D	p.I172I	ENST00000231137	1/1	47	44	3	59	59	0	PCDHB7,synonymous_variant,p.%3D,ENST00000231137,;PCDHB8,upstream_gene_variant,,ENST00000239444,;	T	ENSG00000113212	ENST00000231137	Transcript	synonymous_variant	690	516	172	I	atC/atT	.	.	.	1	PCDHB7	HGNC	8692	protein_coding	YES	CCDS4249.1	ENSP00000231137	PCDB7_HUMAN	.	UPI00001273E3	.	.	.	1/1	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Pfam_domain:PF00028,Gene3D:2.60.40.60,hmmpanther:PTHR24028:SF69,hmmpanther:PTHR24028,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCATCAGCCC	.	2	BLCA
PCDHB10	0	.	GRCh37	5	140574349	140574350	+	Frame_Shift_Ins	INS	-	-	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2228dupG	p.Ala744ArgfsTer2	p.A744Rfs*2	ENST00000239446	1/1	167	147	20	196	196	0	PCDHB10,frameshift_variant,p.Ala744ArgfsTer2,ENST00000239446,;PCDHB11,upstream_gene_variant,,ENST00000536699,;PCDHB11,upstream_gene_variant,,ENST00000354757,;PCDHB9,downstream_gene_variant,,ENST00000316105,;	G	ENSG00000120324	ENST00000239446	Transcript	frameshift_variant	2408-2409	2224-2225	742	R/RX	agg/aGgg	.	.	.	1	PCDHB10	HGNC	8681	protein_coding	YES	CCDS4252.1	ENSP00000239446	PCDBA_HUMAN	O95883_HUMAN	UPI0000048F2E	.	.	.	1/1	.	hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF54	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ACGTGAGGGGC	.	3	BLCA
PCDHB12	0	.	GRCh37	5	140589863	140589863	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1384G>A	p.Glu462Lys	p.E462K	ENST00000239450	1/1	154	132	22	193	193	0	PCDHB12,missense_variant,p.Glu125Lys,ENST00000541609,;PCDHB12,missense_variant,p.Glu462Lys,ENST00000239450,;PCDHB13,upstream_gene_variant,,ENST00000341948,;	A	ENSG00000120328	ENST00000239450	Transcript	missense_variant	1573	1384	462	E/K	Gag/Aag	.	.	.	1	PCDHB12	HGNC	8683	protein_coding	YES	CCDS4254.1	ENSP00000239450	PCDBC_HUMAN	B4DDU1_HUMAN	UPI000000DAFD	.	deleterious_low_confidence(0)	probably_damaging(0.954)	1/1	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028:SF59,hmmpanther:PTHR24028,Gene3D:2.60.40.60,Pfam_domain:PF00028,Superfamily_domains:SSF49313,Prints_domain:PR00205	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCGCGAGAAC	.	4	BLCA
LARS	0	.	GRCh37	5	145523014	145523014	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1838delG	p.Gly613ValfsTer18	p.G613Vfs*18	ENST00000394434	19/32	326	283	43	336	336	0	LARS,frameshift_variant,p.Gly567ValfsTer18,ENST00000545646,;LARS,frameshift_variant,p.Gly559ValfsTer18,ENST00000510191,;LARS,frameshift_variant,p.Gly613ValfsTer18,ENST00000394434,;LARS,frameshift_variant,p.Gly586ValfsTer18,ENST00000274562,;LARS,non_coding_transcript_exon_variant,,ENST00000512412,;LARS,downstream_gene_variant,,ENST00000507095,;LARS,non_coding_transcript_exon_variant,,ENST00000504323,;LARS,non_coding_transcript_exon_variant,,ENST00000514104,;LARS,non_coding_transcript_exon_variant,,ENST00000508667,;RP11-449H3.2,downstream_gene_variant,,ENST00000495857,;	-	ENSG00000133706	ENST00000394434	Transcript	frameshift_variant	2005	1838	613	G/X	gGt/gt	.	.	.	-1	LARS	HGNC	6512	protein_coding	YES	CCDS34265.1	ENSP00000377954	SYLC_HUMAN	Q9NVC0_HUMAN,Q9NPU8_HUMAN,Q9HAM7_HUMAN,Q2TU79_HUMAN,B4DJ10_HUMAN,B3KXA9_HUMAN	UPI0000037316	.	.	.	19/32	.	hmmpanther:PTHR11946:SF51,hmmpanther:PTHR11946,Pfam_domain:PF00133,Gene3D:3.40.50.620,TIGRFAM_domain:TIGR00395,Superfamily_domains:SSF52374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAGTTACCCCCC	.	3	BLCA
TIMD4	0	.	GRCh37	5	156346536	156346536	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1069G>A	p.Asp357Asn	p.D357N	ENST00000274532	9/9	69	59	9	89	89	0	TIMD4,missense_variant,p.Asp59Asn,ENST00000406964,;TIMD4,missense_variant,p.Asp357Asn,ENST00000274532,;TIMD4,missense_variant,p.Asp329Asn,ENST00000407087,;APOOP1,upstream_gene_variant,,ENST00000604695,;	T	ENSG00000145850	ENST00000274532	Transcript	missense_variant	1126	1069	357	D/N	Gat/Aat	.	.	.	-1	TIMD4	HGNC	25132	protein_coding	YES	CCDS4332.1	ENSP00000274532	TIMD4_HUMAN	B5MCV9_HUMAN	UPI000013DA13	.	deleterious(0.01)	possibly_damaging(0.549)	9/9	.	hmmpanther:PTHR15498:SF29,hmmpanther:PTHR15498	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTATCTCCAA	.	4	BLCA
UBLCP1	0	.	GRCh37	5	158705319	158705319	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.758A>G	p.Asp253Gly	p.D253G	ENST00000296786	9/11	92	77	14	101	101	0	UBLCP1,missense_variant,p.Asp253Gly,ENST00000296786,;UBLCP1,non_coding_transcript_exon_variant,,ENST00000519276,;UBLCP1,downstream_gene_variant,,ENST00000521738,;	G	ENSG00000164332	ENST00000296786	Transcript	missense_variant	1084	758	253	D/G	gAc/gGc	.	.	.	1	UBLCP1	HGNC	28110	protein_coding	YES	CCDS4345.1	ENSP00000296786	UBCP1_HUMAN	.	UPI0000071EAA	.	deleterious(0)	probably_damaging(1)	9/11	.	PROSITE_profiles:PS50969,hmmpanther:PTHR32054:SF0,hmmpanther:PTHR32054,Pfam_domain:PF03031,Gene3D:3.40.50.1000,TIGRFAM_domain:TIGR02245,SMART_domains:SM00577,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGATGACATAG	.	5	BLCA
PWWP2A	0	.	GRCh37	5	159520823	159520823	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.834C>T	p.%3D	p.I278I	ENST00000307063	2/2	144	128	15	156	156	0	PWWP2A,synonymous_variant,p.%3D,ENST00000523662,;PWWP2A,synonymous_variant,p.%3D,ENST00000307063,;PWWP2A,synonymous_variant,p.%3D,ENST00000456329,;PWWP2A,3_prime_UTR_variant,,ENST00000520662,;PWWP2A,upstream_gene_variant,,ENST00000524050,;PWWP2A,upstream_gene_variant,,ENST00000521424,;	A	ENSG00000170234	ENST00000307063	Transcript	synonymous_variant	869	834	278	I	atC/atT	.	.	.	-1	PWWP2A	HGNC	29406	protein_coding	YES	CCDS47332.1	ENSP00000305151	PWP2A_HUMAN	.	UPI0000EE3692	.	.	.	2/2	.	hmmpanther:PTHR23068,hmmpanther:PTHR23068:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCCTGATAAA	.	4	BLCA
ATP10B	0	.	GRCh37	5	160016602	160016602	+	Silent	SNP	T	T	C	rs747755120	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3747A>G	p.%3D	p.T1249T	ENST00000327245	24/26	43	35	8	62	62	0	ATP10B,synonymous_variant,p.%3D,ENST00000327245,;	C	ENSG00000118322	ENST00000327245	Transcript	synonymous_variant	4594	3747	1249	T	acA/acG	rs747755120	.	.	-1	ATP10B	HGNC	13543	protein_coding	YES	CCDS43394.1	ENSP00000313600	AT10B_HUMAN	.	UPI0000191DAE	.	.	.	24/26	.	Superfamily_domains:0049473,TIGRFAM_domain:TIGR01652,hmmpanther:PTHR24092:SF42,hmmpanther:PTHR24092	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCATGTCTT	.	5	BLCA
GABRB2	0	.	GRCh37	5	160721218	160721218	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1409G>A	p.Arg470His	p.R470H	ENST00000274547	11/11	78	70	8	94	94	0	GABRB2,missense_variant,p.Arg470His,ENST00000274547,;GABRB2,missense_variant,p.Arg272His,ENST00000517547,;GABRB2,missense_variant,p.Arg432His,ENST00000520240,;GABRB2,missense_variant,p.Arg470His,ENST00000393959,;GABRB2,missense_variant,p.Arg432His,ENST00000353437,;GABRB2,missense_variant,p.Arg369His,ENST00000517901,;	T	ENSG00000145864	ENST00000274547	Transcript	missense_variant	1627	1409	470	R/H	cGc/cAc	.	.	.	-1	GABRB2	HGNC	4082	protein_coding	YES	CCDS4355.1	ENSP00000274547	GBRB2_HUMAN	D1M715_HUMAN	UPI000002AA29	.	deleterious(0.03)	probably_damaging(0.989)	11/11	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF198,TIGRFAM_domain:TIGR00860,Pfam_domain:PF02932,Superfamily_domains:SSF90112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGCGCGTCTC	.	4	BLCA
GABRB2	0	.	GRCh37	5	160757907	160757907	+	Missense_Mutation	SNP	G	G	A	rs41298406	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1060C>T	p.Arg354Cys	p.R354C	ENST00000274547	9/11	149	134	15	209	209	0	GABRB2,missense_variant,p.Arg354Cys,ENST00000274547,;GABRB2,missense_variant,p.Arg194Cys,ENST00000517547,;GABRB2,missense_variant,p.Arg354Cys,ENST00000520240,;GABRB2,missense_variant,p.Arg354Cys,ENST00000393959,;GABRB2,missense_variant,p.Arg354Cys,ENST00000353437,;GABRB2,missense_variant,p.Arg291Cys,ENST00000517901,;	A	ENSG00000145864	ENST00000274547	Transcript	missense_variant	1278	1060	354	R/C	Cgc/Tgc	rs41298406,COSM1065271,COSM1065270	.	.	-1	GABRB2	HGNC	4082	protein_coding	YES	CCDS4355.1	ENSP00000274547	GBRB2_HUMAN	D1M715_HUMAN	UPI000002AA29	.	deleterious(0.01)	probably_damaging(0.93)	9/11	.	hmmpanther:PTHR18945,hmmpanther:PTHR18945:SF198,TIGRFAM_domain:TIGR00860,Pfam_domain:PF02932,Superfamily_domains:SSF90112	A:0.0012	A:0	A:0	.	A:0.006	A:0	A:0	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CAGGCGCATCT	byFrequency|byCluster|by1000G	3	BLCA
HMMR	0	.	GRCh37	5	162909657	162909657	+	Silent	SNP	G	G	A	rs369594651	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1395G>A	p.%3D	p.A465A	ENST00000393915	13/18	69	62	7	113	113	0	HMMR,synonymous_variant,p.%3D,ENST00000358715,;HMMR,synonymous_variant,p.%3D,ENST00000432118,;HMMR,synonymous_variant,p.%3D,ENST00000353866,;HMMR,synonymous_variant,p.%3D,ENST00000393915,;RP11-80G7.1,downstream_gene_variant,,ENST00000521666,;RP11-80G7.1,downstream_gene_variant,,ENST00000514724,;	A	ENSG00000072571	ENST00000393915	Transcript	synonymous_variant	1538	1395	465	A	gcG/gcA	rs369594651	.	.	1	HMMR	HGNC	5012	protein_coding	YES	CCDS47334.1	ENSP00000377492	HMMR_HUMAN	E5RIH2_HUMAN,E5RI30_HUMAN,E3W978_HUMAN,B9UCQ3_HUMAN	UPI00001AE676	.	.	.	13/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18956	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAGCGTTAAC	byFrequency|byCluster	3	BLCA
LCP2	0	.	GRCh37	5	169689861	169689861	+	Missense_Mutation	SNP	G	G	C	rs201786815	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.803C>G	p.Ser268Trp	p.S268W	ENST00000046794	12/21	57	50	7	108	108	0	LCP2,missense_variant,p.Ser63Trp,ENST00000521416,;LCP2,missense_variant,p.Ser35Trp,ENST00000520344,;LCP2,missense_variant,p.Ser268Trp,ENST00000046794,;LCP2,upstream_gene_variant,,ENST00000523369,;	C	ENSG00000043462	ENST00000046794	Transcript	missense_variant	1419	803	268	S/W	tCg/tGg	rs201786815	.	.	-1	LCP2	HGNC	6529	protein_coding	YES	CCDS47339.1	ENSP00000046794	LCP2_HUMAN	.	UPI000012E2AE	.	tolerated(0.19)	possibly_damaging(0.528)	12/21	.	hmmpanther:PTHR14098,hmmpanther:PTHR14098:SF1	A:0.0006	A:0.0023	A:0	.	A:0	A:0	A:0	A:0.0008	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAATCGAGGGC	byFrequency|byCluster|by1000G	4	BLCA
RNF44	0	.	GRCh37	5	175956034	175956034	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1294G>C	p.Glu432Gln	p.E432Q	ENST00000274811	11/11	19	15	3	40	40	0	RNF44,missense_variant,p.Glu351Gln,ENST00000537487,;RNF44,missense_variant,p.Glu432Gln,ENST00000274811,;RNF44,3_prime_UTR_variant,,ENST00000506378,;RNF44,downstream_gene_variant,,ENST00000509404,;RNF44,3_prime_UTR_variant,,ENST00000513029,;RNF44,downstream_gene_variant,,ENST00000515051,;RNF44,downstream_gene_variant,,ENST00000504434,;RNF44,downstream_gene_variant,,ENST00000504160,;RNF44,downstream_gene_variant,,ENST00000508478,;	G	ENSG00000146083	ENST00000274811	Transcript	missense_variant	1819	1294	432	E/Q	Gag/Cag	.	.	.	-1	RNF44	HGNC	19180	protein_coding	YES	CCDS4404.1	ENSP00000274811	RNF44_HUMAN	B4DYE0_HUMAN	UPI0000073CDA	.	deleterious(0.02)	benign(0.213)	11/11	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCACTCAGCCT	.	4	BLCA
GPRIN1	0	.	GRCh37	5	176026205	176026205	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.631C>G	p.Leu211Val	p.L211V	ENST00000303991	2/2	89	73	16	133	133	0	GPRIN1,missense_variant,p.Leu211Val,ENST00000303991,;CDHR2,downstream_gene_variant,,ENST00000261944,;CDHR2,downstream_gene_variant,,ENST00000506348,;CDHR2,downstream_gene_variant,,ENST00000510636,;	C	ENSG00000169258	ENST00000303991	Transcript	missense_variant	809	631	211	L/V	Ctt/Gtt	.	.	.	-1	GPRIN1	HGNC	24835	protein_coding	YES	CCDS4405.1	ENSP00000305839	GRIN1_HUMAN	.	UPI0000246D49	.	tolerated(0.53)	benign(0.085)	2/2	.	hmmpanther:PTHR12239,hmmpanther:PTHR12239:SF30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCAAGATCTT	.	5	BLCA
NSD1	0	.	GRCh37	5	176722266	176722266	+	Missense_Mutation	SNP	C	C	T	rs758475990	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7897C>T	p.Arg2633Trp	p.R2633W	ENST00000439151	23/23	59	53	6	64	64	0	NSD1,missense_variant,p.Arg2530Trp,ENST00000361032,;NSD1,missense_variant,p.Arg2364Trp,ENST00000354179,;NSD1,missense_variant,p.Arg2633Trp,ENST00000439151,;NSD1,missense_variant,p.Arg2364Trp,ENST00000347982,;NSD1,downstream_gene_variant,,ENST00000513736,;	T	ENSG00000165671	ENST00000439151	Transcript	missense_variant	7942	7897	2633	R/W	Cgg/Tgg	rs758475990,COSM1217938,COSM1217939	.	.	1	NSD1	HGNC	14234	protein_coding	YES	CCDS4412.1	ENSP00000395929	NSD1_HUMAN	Q9H6H8_HUMAN,Q9H6B5_HUMAN,Q96MN8_HUMAN,Q96DQ7_HUMAN,Q658U6_HUMAN,D6RE14_HUMAN,D6RBP3_HUMAN,D6RA90_HUMAN	UPI000006F9C6	.	deleterious_low_confidence(0)	benign(0.005)	23/23	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	CATCACGGGCA	byFrequency	3	BLCA
FAM153A	0	.	GRCh37	5	177156509	177156509	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.679G>A	p.Glu227Lys	p.E227K	ENST00000440605	16/20	240	199	41	372	372	0	FAM153A,missense_variant,p.Glu227Lys,ENST00000440605,;FAM153A,missense_variant,p.Glu227Lys,ENST00000510276,;FAM153A,intron_variant,,ENST00000513554,;FAM153A,intron_variant,,ENST00000393518,;FAM153A,intron_variant,,ENST00000505531,;FAM153A,downstream_gene_variant,,ENST00000512612,;FAM153A,missense_variant,p.Glu227Lys,ENST00000360669,;	T	ENSG00000170074	ENST00000440605	Transcript	missense_variant	963	679	227	E/K	Gag/Aag	.	.	.	-1	FAM153A	HGNC	29940	protein_coding	YES	CCDS34305.1	ENSP00000411506	F153A_HUMAN	D6RA46_HUMAN	UPI0000D616C5	.	deleterious_low_confidence(0)	probably_damaging(0.953)	16/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTCCTCAGAGA	.	4	BLCA
NPR3	0	.	GRCh37	5	32712275	32712275	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.393C>A	p.%3D	p.I131I	ENST00000265074	1/8	94	78	15	120	120	0	NPR3,synonymous_variant,p.%3D,ENST00000265074,;NPR3,synonymous_variant,p.%3D,ENST00000415167,;NPR3,intron_variant,,ENST00000434067,;NPR3,intron_variant,,ENST00000509104,;NPR3,intron_variant,,ENST00000415685,;NPR3,upstream_gene_variant,,ENST00000507141,;NPR3,intron_variant,,ENST00000506712,;	A	ENSG00000113389	ENST00000265074	Transcript	synonymous_variant	736	393	131	I	atC/atA	.	.	.	1	NPR3	HGNC	7945	protein_coding	YES	CCDS56357.1	ENSP00000265074	ANPRC_HUMAN	.	UPI0000125B46	.	.	.	1/8	.	Superfamily_domains:SSF53822,Gene3D:3.40.50.2300,Pfam_domain:PF01094,hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTATCCTGGG	.	5	BLCA
DNAJC21	0	.	GRCh37	5	34954775	34954775	+	Missense_Mutation	SNP	G	G	A	rs766748592	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1687G>A	p.Ala563Thr	p.A563T	ENST00000382021	13/13	96	81	15	114	114	0	DNAJC21,missense_variant,p.Ala531Thr,ENST00000303525,;DNAJC21,missense_variant,p.Ala518Thr,ENST00000342382,;DNAJC21,missense_variant,p.Ala563Thr,ENST00000382021,;DNAJC21,downstream_gene_variant,,ENST00000514237,;DNAJC21,downstream_gene_variant,,ENST00000512136,;DNAJC21,non_coding_transcript_exon_variant,,ENST00000509626,;DNAJC21,downstream_gene_variant,,ENST00000506762,;	A	ENSG00000168724	ENST00000382021	Transcript	missense_variant	1914	1687	563	A/T	Gca/Aca	rs766748592	.	.	1	DNAJC21	HGNC	27030	protein_coding	YES	CCDS3907.2	ENSP00000371451	DJC21_HUMAN	.	UPI000053E489	.	tolerated(0.26)	benign(0.22)	13/13	.	hmmpanther:PTHR24078,hmmpanther:PTHR24078:SF150,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCGCAACA	byFrequency	5	BLCA
ADAMTS16	0	.	GRCh37	5	5239281	5239281	+	Missense_Mutation	SNP	T	T	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2172T>A	p.Asn724Lys	p.N724K	ENST00000274181	15/23	240	210	30	286	286	0	ADAMTS16,missense_variant,p.Asn724Lys,ENST00000274181,;ADAMTS16,non_coding_transcript_exon_variant,,ENST00000513709,;ADAMTS16,non_coding_transcript_exon_variant,,ENST00000433402,;	A	ENSG00000145536	ENST00000274181	Transcript	missense_variant	2310	2172	724	N/K	aaT/aaA	COSM3697255,COSM3697254	.	.	1	ADAMTS16	HGNC	17108	protein_coding	YES	CCDS43299.1	ENSP00000274181	ATS16_HUMAN	B2G3Q1_HUMAN	UPI00004572CA	.	tolerated(0.07)	benign(0.007)	15/23	.	hmmpanther:PTHR13723:SF140,hmmpanther:PTHR13723,Prints_domain:PR01857	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACAATGTCCT	.	4	BLCA
DHX29	0	.	GRCh37	5	54593119	54593119	+	Frame_Shift_Del	DEL	T	T	-	rs774890301	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.369delA	p.Lys123AsnfsTer23	p.K123Nfs*23	ENST00000251636	3/27	61	46	15	56	56	0	DHX29,frameshift_variant,p.Lys88AsnfsTer23,ENST00000508346,;DHX29,frameshift_variant,p.Lys123AsnfsTer23,ENST00000251636,;RP11-506H20.1,downstream_gene_variant,,ENST00000506435,;DHX29,non_coding_transcript_exon_variant,,ENST00000504778,;	-	ENSG00000067248	ENST00000251636	Transcript	frameshift_variant	518	369	123	K/X	aaA/aa	rs774890301,COSM1437867	.	.	-1	DHX29	HGNC	15815	protein_coding	YES	CCDS34158.1	ENSP00000251636	DHX29_HUMAN	.	UPI00001AE72C	.	.	.	3/27	.	hmmpanther:PTHR18934:SF82,hmmpanther:PTHR18934	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	HIGH	.	deletion	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTGCAATTTTTT	.	3	BLCA
KIAA0947	0	.	GRCh37	5	5462936	5462936	+	Silent	SNP	T	T	C	rs771984642	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3489T>C	p.%3D	p.T1163T	ENST00000296564	13/19	20	17	3	30	30	0	KIAA0947,synonymous_variant,p.%3D,ENST00000296564,;	C	ENSG00000164151	ENST00000296564	Transcript	synonymous_variant	3711	3489	1163	T	acT/acC	rs771984642	.	.	1	KIAA0947	HGNC	29154	protein_coding	YES	CCDS47187.1	ENSP00000296564	K0947_HUMAN	.	UPI00015542F9	.	.	.	13/19	.	hmmpanther:PTHR11852,hmmpanther:PTHR11852:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTACTTTTTC	.	2	BLCA
ACTBL2	0	.	GRCh37	5	56777857	56777857	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678G>T	p.Gln226His	p.Q226H	ENST00000423391	1/1	61	53	7	74	74	0	ACTBL2,missense_variant,p.Gln226His,ENST00000423391,;AC025470.1,upstream_gene_variant,,ENST00000584598,;CTD-2023N9.1,intron_variant,,ENST00000506106,;	A	ENSG00000169067	ENST00000423391	Transcript	missense_variant	780	678	226	Q/H	caG/caT	.	.	.	-1	ACTBL2	HGNC	17780	protein_coding	YES	CCDS34163.1	ENSP00000416706	ACTBL_HUMAN	.	UPI000013EB83	.	deleterious_low_confidence(0.01)	benign(0.016)	1/1	.	hmmpanther:PTHR11937:SF168,hmmpanther:PTHR11937,Pfam_domain:PF00022,Gene3D:3.90.640.10,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCTCCTGCTC	.	4	BLCA
SMIM15	0	.	GRCh37	5	60455819	60455819	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.180delA	p.Lys60AsnfsTer12	p.K60Nfs*12	ENST00000339020	3/3	121	106	15	128	128	0	SMIM15,frameshift_variant,p.Lys60AsnfsTer12,ENST00000339020,;SMIM15,frameshift_variant,p.Lys60AsnfsTer12,ENST00000507416,;CTC-436P18.1,upstream_gene_variant,,ENST00000506902,;	-	ENSG00000188725	ENST00000339020	Transcript	frameshift_variant	606	180	60	K/X	aaA/aa	.	.	.	-1	SMIM15	HGNC	33861	protein_coding	YES	CCDS34165.1	ENSP00000339324	SIM15_HUMAN	.	UPI000015EFE6	.	.	.	3/3	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,Pfam_domain:PF15086	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTGGCGTTTTTG	.	3	BLCA
IPO11	0	.	GRCh37	5	61770244	61770245	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.836dupT	p.Leu279PhefsTer6	p.L279Ffs*6	ENST00000409296	8/30	124	112	12	107	107	0	IPO11,frameshift_variant,p.Leu279PhefsTer6,ENST00000409296,;IPO11,frameshift_variant,p.Leu239PhefsTer6,ENST00000325324,;KIF2A,intron_variant,,ENST00000509663,;IPO11,frameshift_variant,p.Leu239PhefsTer6,ENST00000424533,;IPO11,splice_region_variant,,ENST00000507640,;	T	ENSG00000086200	ENST00000409296	Transcript	frameshift_variant	960-961	830-831	277	G/GX	ggt/ggTt	.	.	.	1	IPO11	HGNC	20628	protein_coding	YES	CCDS47217.1	ENSP00000386992	IPO11_HUMAN	E7EMB7_HUMAN,D6RJB1_HUMAN,D6RCQ2_HUMAN,D6RCN7_HUMAN	UPI00017EE9F4	.	.	.	8/30	.	hmmpanther:PTHR10997:SF7,hmmpanther:PTHR10997,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTAGGGTTTTT	.	3	BLCA
RAD17	0	.	GRCh37	5	68682081	68682081	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.806G>T	p.Arg269Met	p.R269M	ENST00000509734	9/18	124	112	12	139	139	0	RAD17,missense_variant,p.Arg93Met,ENST00000358030,;RAD17,missense_variant,p.Arg258Met,ENST00000354868,;RAD17,missense_variant,p.Arg258Met,ENST00000345306,;RAD17,missense_variant,p.Arg258Met,ENST00000305138,;RAD17,missense_variant,p.Arg258Met,ENST00000361732,;RAD17,missense_variant,p.Arg269Met,ENST00000509734,;RAD17,missense_variant,p.Arg258Met,ENST00000354312,;RAD17,missense_variant,p.Arg172Met,ENST00000282891,;RAD17,missense_variant,p.Arg269Met,ENST00000380774,;RAD17,missense_variant,p.Arg93Met,ENST00000521422,;RAD17,downstream_gene_variant,,ENST00000506564,;RAD17,downstream_gene_variant,,ENST00000512785,;RAD17,non_coding_transcript_exon_variant,,ENST00000514626,;RAD17,intron_variant,,ENST00000504177,;RAD17,downstream_gene_variant,,ENST00000514066,;RAD17,missense_variant,p.Arg11Met,ENST00000508320,;	T	ENSG00000152942	ENST00000509734	Transcript	missense_variant	1484	806	269	R/M	aGg/aTg	.	.	.	1	RAD17	HGNC	9807	protein_coding	YES	CCDS4003.1	ENSP00000426191	RAD17_HUMAN	D6RHU1_HUMAN	UPI000013DD06	.	deleterious(0)	probably_damaging(0.918)	9/18	.	hmmpanther:PTHR12172,TIGRFAM_domain:TIGR00602,Pfam_domain:PF03215,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TCAAAGGTTAT	.	3	BLCA
BDP1	0	.	GRCh37	5	70849104	70849104	+	Missense_Mutation	SNP	G	G	A	rs751700801	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7157G>A	p.Arg2386His	p.R2386H	ENST00000358731	35/39	66	58	8	74	74	0	BDP1,missense_variant,p.Arg2386His,ENST00000358731,;BDP1,missense_variant,p.Val460Ile,ENST00000380675,;BDP1,missense_variant,p.Arg408His,ENST00000525844,;BDP1,missense_variant,p.Val580Ile,ENST00000514903,;	A	ENSG00000145734	ENST00000358731	Transcript	missense_variant	7420	7157	2386	R/H	cGt/cAt	rs751700801	.	.	1	BDP1	HGNC	13652	protein_coding	YES	CCDS43328.1	ENSP00000351575	BDP1_HUMAN	.	UPI000020CA90	.	tolerated(0.08)	benign(0)	35/39	.	hmmpanther:PTHR22929:SF0,hmmpanther:PTHR22929	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAACGTTCAC	byFrequency	4	BLCA
ARHGEF28	0	.	GRCh37	5	73181827	73181827	+	Frame_Shift_Del	DEL	A	A	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3212delA	p.Asn1071MetfsTer10	p.N1071Mfs*10	ENST00000545377	25/37	60	43	17	44	44	0	ARHGEF28,frameshift_variant,p.Asn35MetfsTer10,ENST00000512883,;ARHGEF28,frameshift_variant,p.Asn758MetfsTer10,ENST00000296799,;ARHGEF28,frameshift_variant,p.Asn1071MetfsTer10,ENST00000287898,;ARHGEF28,frameshift_variant,p.Asn1071MetfsTer10,ENST00000545377,;ARHGEF28,frameshift_variant,p.Asn1071MetfsTer10,ENST00000296794,;ARHGEF28,frameshift_variant,p.Asn1071MetfsTer10,ENST00000437974,;ARHGEF28,frameshift_variant,p.Asn1071MetfsTer10,ENST00000513042,;ARHGEF28,frameshift_variant,p.Asn1071MetfsTer10,ENST00000426542,;ARHGEF28,non_coding_transcript_exon_variant,,ENST00000510312,;ARHGEF28,upstream_gene_variant,,ENST00000504003,;	-	ENSG00000214944	ENST00000545377	Transcript	frameshift_variant	3384	3208	1070	K/X	Aaa/aa	.	.	.	1	ARHGEF28	HGNC	30322	protein_coding	YES	CCDS47231.2	ENSP00000441913	ARG28_HUMAN	D6RAP0_HUMAN	UPI00004DF58E	.	.	.	25/37	.	Superfamily_domains:SSF50729,Gene3D:2.30.29.30,hmmpanther:PTHR22825:SF4,hmmpanther:PTHR22825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	4	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	AAGCTCAAAAAT	.	3	BLCA
ZFYVE16	0	.	GRCh37	5	79732690	79732690	+	Silent	SNP	C	C	T	rs144412842	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.186C>T	p.%3D	p.C62C	ENST00000338008	3/18	62	57	5	99	98	1	ZFYVE16,synonymous_variant,p.%3D,ENST00000338008,;ZFYVE16,synonymous_variant,p.%3D,ENST00000505560,;ZFYVE16,synonymous_variant,p.%3D,ENST00000510158,;ZFYVE16,upstream_gene_variant,,ENST00000511050,;ZFYVE16,3_prime_UTR_variant,,ENST00000509562,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000510995,;ZFYVE16,non_coding_transcript_exon_variant,,ENST00000512558,;	T	ENSG00000039319	ENST00000338008	Transcript	synonymous_variant	366	186	62	C	tgC/tgT	rs144412842,COSM4137861	.	.	1	ZFYVE16	HGNC	20756	protein_coding	YES	CCDS4050.1	ENSP00000337159	ZFY16_HUMAN	B3KXA7_HUMAN	UPI000013F4A0	.	.	.	3/18	.	hmmpanther:PTHR22835,hmmpanther:PTHR22835:SF43,PIRSF_domain:PIRSF037289	T:0.0008	T:0	T:0.0014	.	T:0.003	T:0	T:0	T:0	T:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GAGTGCGTTAA	byFrequency|byCluster|by1000G	2	BLCA
GPR98	0	.	GRCh37	5	90136680	90136680	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.16897G>A	p.Asp5633Asn	p.D5633N	ENST00000405460	78/90	58	50	7	88	88	0	GPR98,missense_variant,p.Asp5633Asn,ENST00000405460,;GPR98,missense_variant,p.Asp1294Asn,ENST00000425867,;	A	ENSG00000164199	ENST00000405460	Transcript	missense_variant	16993	16897	5633	D/N	Gat/Aat	.	.	.	1	GPR98	HGNC	17416	protein_coding	YES	CCDS47246.1	ENSP00000384582	GPR98_HUMAN	.	UPI00002127A7	.	.	possibly_damaging(0.811)	78/90	.	Superfamily_domains:SSF141072,hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTGCAGATCAG	.	4	BLCA
KIAA0825	0	.	GRCh37	5	93856216	93856216	+	Missense_Mutation	SNP	T	T	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.707A>T	p.Asn236Ile	p.N236I	ENST00000329378	5/5	57	51	6	73	73	0	KIAA0825,missense_variant,p.Asn236Ile,ENST00000427991,;KIAA0825,missense_variant,p.Asn236Ile,ENST00000312498,;KIAA0825,missense_variant,p.Asn236Ile,ENST00000329378,;KIAA0825,missense_variant,p.Asn236Ile,ENST00000513200,;	A	ENSG00000185261	ENST00000329378	Transcript	missense_variant	957	707	236	N/I	aAt/aTt	.	.	.	-1	KIAA0825	HGNC	28532	protein_coding	YES	CCDS4070.1	ENSP00000331385	K0825_HUMAN	.	UPI00000746AF	.	deleterious(0)	probably_damaging(0.961)	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTAAATTTGAA	.	4	BLCA
CHD1	0	.	GRCh37	5	98206408	98206409	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3960dupA	p.Glu1321ArgfsTer17	p.E1321Rfs*17	ENST00000284049	28/35	109	95	14	125	125	0	CHD1,frameshift_variant,p.Glu1321ArgfsTer17,ENST00000284049,;CHD1,non_coding_transcript_exon_variant,,ENST00000511067,;CHD1,non_coding_transcript_exon_variant,,ENST00000508756,;CHD1,non_coding_transcript_exon_variant,,ENST00000514344,;CHD1,non_coding_transcript_exon_variant,,ENST00000414220,;CHD1,upstream_gene_variant,,ENST00000512844,;CHD1,upstream_gene_variant,,ENST00000505657,;	T	ENSG00000153922	ENST00000284049	Transcript	frameshift_variant	4110-4111	3960-3961	1320-1321	-/X	-/A	.	.	.	-1	CHD1	HGNC	1915	protein_coding	YES	CCDS34204.1	ENSP00000284049	CHD1_HUMAN	.	UPI000013DD75	.	.	.	28/35	.	hmmpanther:PTHR10799:SF535,hmmpanther:PTHR10799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.E1321fs*22|c.3960delA|3	INDELOCATOR|VARSCANI	AGCTTCTTTTT	.	2	BLCA
GRIK2	0	.	GRCh37	6	102134098	102134098	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.821T>C	p.Val274Ala	p.V274A	ENST00000421544	6/16	49	36	13	66	66	0	GRIK2,missense_variant,p.Val274Ala,ENST00000369138,;GRIK2,missense_variant,p.Val274Ala,ENST00000413795,;GRIK2,missense_variant,p.Val225Ala,ENST00000369134,;GRIK2,missense_variant,p.Val274Ala,ENST00000369137,;GRIK2,missense_variant,p.Val274Ala,ENST00000318991,;GRIK2,missense_variant,p.Val274Ala,ENST00000421544,;GRIK2,missense_variant,p.Val274Ala,ENST00000358361,;GRIK2,intron_variant,,ENST00000455610,;	C	ENSG00000164418	ENST00000421544	Transcript	missense_variant	1311	821	274	V/A	gTt/gCt	.	.	.	1	GRIK2	HGNC	4580	protein_coding	YES	CCDS5048.1	ENSP00000397026	GRIK2_HUMAN	Q9BZ15_HUMAN,Q6P3V6_HUMAN,H7C2P5_HUMAN,F8WEZ8_HUMAN,D7RWZ8_HUMAN	UPI000012B617	.	tolerated(0.06)	probably_damaging(0.945)	6/16	.	hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF38,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGTGTTAACA	.	5	BLCA
GPR6	0	.	GRCh37	6	110301379	110301379	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1064G>A	p.Arg355His	p.R355H	ENST00000275169	1/1	94	83	11	119	119	0	GPR6,missense_variant,p.Arg370His,ENST00000414000,;GPR6,missense_variant,p.Arg355His,ENST00000275169,;	A	ENSG00000146360	ENST00000275169	Transcript	missense_variant	1082	1064	355	R/H	cGt/cAt	COSM1634422,COSM450317	.	.	1	GPR6	HGNC	4515	protein_coding	YES	CCDS5079.1	ENSP00000275169	GPR6_HUMAN	F1DAM6_HUMAN,E7EP76_HUMAN	UPI000000DA4A	.	deleterious(0.02)	possibly_damaging(0.7)	1/1	.	hmmpanther:PTHR22750,hmmpanther:PTHR22750:SF19,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.R355C|c.1063C>T|4	RADIA|MUTECT|MUSE|VARSCANS	CTTTCGTTCCA	.	4	BLCA
REV3L	0	.	GRCh37	6	111697648	111697648	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1910C>G	p.Ser637Ter	p.S637*	ENST00000358835	14/33	69	56	12	72	72	0	REV3L,stop_gained,p.Ser559Ter,ENST00000435970,;REV3L,stop_gained,p.Ser637Ter,ENST00000358835,;REV3L,stop_gained,p.Ser637Ter,ENST00000368802,;REV3L,stop_gained,p.Ser637Ter,ENST00000368805,;REV3L,3_prime_UTR_variant,,ENST00000434009,;REV3L,3_prime_UTR_variant,,ENST00000422377,;	C	ENSG00000009413	ENST00000358835	Transcript	stop_gained	2365	1910	637	S/*	tCa/tGa	.	.	.	-1	REV3L	HGNC	9968	protein_coding	YES	CCDS5091.2	ENSP00000351697	DPOLZ_HUMAN	Q9UID5_HUMAN,C4TNX2_HUMAN,C4TNX1_HUMAN,C4TNX0_HUMAN,C4B7Q4_HUMAN	UPI0000140023	.	.	.	14/33	.	hmmpanther:PTHR10322:SF16,hmmpanther:PTHR10322	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAATGA	.	5	BLCA
FYN	0	.	GRCh37	6	112025286	112025286	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.463G>A	p.Gly155Ser	p.G155S	ENST00000354650	7/14	90	77	13	147	147	0	FYN,missense_variant,p.Gly155Ser,ENST00000368667,;FYN,missense_variant,p.Gly155Ser,ENST00000229471,;FYN,missense_variant,p.Gly155Ser,ENST00000368682,;FYN,missense_variant,p.Gly106Ser,ENST00000229470,;FYN,missense_variant,p.Gly155Ser,ENST00000538466,;FYN,missense_variant,p.Gly155Ser,ENST00000462856,;FYN,missense_variant,p.Gly155Ser,ENST00000354650,;FYN,missense_variant,p.Gly155Ser,ENST00000368678,;FYN,missense_variant,p.Gly155Ser,ENST00000517419,;FYN,missense_variant,p.Gly155Ser,ENST00000520518,;FYN,missense_variant,p.Gly155Ser,ENST00000356013,;FYN,downstream_gene_variant,,ENST00000518630,;FYN,downstream_gene_variant,,ENST00000524310,;FYN,downstream_gene_variant,,ENST00000523570,;FYN,downstream_gene_variant,,ENST00000523574,;FYN,downstream_gene_variant,,ENST00000518295,;FYN,downstream_gene_variant,,ENST00000523238,;FYN,non_coding_transcript_exon_variant,,ENST00000476769,;FYN,non_coding_transcript_exon_variant,,ENST00000523322,;FYN,non_coding_transcript_exon_variant,,ENST00000496864,;FYN,non_coding_transcript_exon_variant,,ENST00000495927,;FYN,non_coding_transcript_exon_variant,,ENST00000467899,;FYN,upstream_gene_variant,,ENST00000495935,;	T	ENSG00000010810	ENST00000354650	Transcript	missense_variant	1070	463	155	G/S	Ggc/Agc	.	.	.	-1	FYN	HGNC	4037	protein_coding	YES	CCDS5094.1	ENSP00000346671	FYN_HUMAN	E5RK23_HUMAN,E5RJX7_HUMAN,E5RIX5_HUMAN,E5RI25_HUMAN,E5RHX7_HUMAN,E5RHF7_HUMAN,E5RH71_HUMAN,E5RGT0_HUMAN,E5RGM6_HUMAN,E5RFS5_HUMAN,E5RFM6_HUMAN,E5RFM4_HUMAN,E5RFM0_HUMAN	UPI0000141141	.	tolerated(0.91)	probably_damaging(1)	7/14	.	PROSITE_profiles:PS50001,hmmpanther:PTHR24418,hmmpanther:PTHR24418:SF44,Pfam_domain:PF00017,Gene3D:3.30.505.10,SMART_domains:SM00252,Superfamily_domains:SSF55550,Superfamily_domains:SSF50044,Prints_domain:PR00401	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGGCCAAGTT	.	4	BLCA
GPRC6A	0	.	GRCh37	6	117130529	117130529	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.446C>G	p.Ser149Ter	p.S149*	ENST00000310357	2/6	105	86	19	96	96	0	GPRC6A,stop_gained,p.Ser149Ter,ENST00000310357,;GPRC6A,stop_gained,p.Ser149Ter,ENST00000368549,;GPRC6A,stop_gained,p.Ser149Ter,ENST00000530250,;	C	ENSG00000173612	ENST00000310357	Transcript	stop_gained	468	446	149	S/*	tCa/tGa	.	.	.	-1	GPRC6A	HGNC	18510	protein_coding	YES	CCDS5112.1	ENSP00000309493	GPC6A_HUMAN	.	UPI000013EFF9	.	.	.	2/6	.	hmmpanther:PTHR24061:SF5,hmmpanther:PTHR24061,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822,Prints_domain:PR00248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTGAGTAC	.	5	BLCA
ROS1	0	.	GRCh37	6	117662378	117662378	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4999C>T	p.Pro1667Ser	p.P1667S	ENST00000368508	30/43	79	61	18	84	84	0	ROS1,missense_variant,p.Pro1661Ser,ENST00000368507,;ROS1,missense_variant,p.Pro1667Ser,ENST00000368508,;ROS1,upstream_gene_variant,,ENST00000403284,;GOPC,intron_variant,,ENST00000467125,;	A	ENSG00000047936	ENST00000368508	Transcript	missense_variant	5198	4999	1667	P/S	Cca/Tca	.	.	.	-1	ROS1	HGNC	10261	protein_coding	YES	CCDS5116.1	ENSP00000357494	ROS1_HUMAN	.	UPI000013D467	.	tolerated(0.06)	probably_damaging(0.938)	30/43	.	PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF304,hmmpanther:PTHR24416,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTGGAACCA	.	5	BLCA
TRDN	0	.	GRCh37	6	123892070	123892070	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.230C>T	p.Ser77Leu	p.S77L	ENST00000398178	2/41	53	47	6	51	51	0	TRDN,missense_variant,p.Ser77Leu,ENST00000398178,;TRDN,missense_variant,p.Ser77Leu,ENST00000334268,;TRDN,missense_variant,p.Ser77Leu,ENST00000546248,;TRDN,missense_variant,p.Ser77Leu,ENST00000542443,;	A	ENSG00000186439	ENST00000398178	Transcript	missense_variant	252	230	77	S/L	tCa/tTa	COSM1072879	.	.	-1	TRDN	HGNC	12261	protein_coding	YES	CCDS55053.1	ENSP00000381240	TRDN_HUMAN	.	UPI0000D820CC	.	deleterious_low_confidence(0.01)	unknown(0)	2/41	.	hmmpanther:PTHR14106,hmmpanther:PTHR14106:SF0,Pfam_domain:PF05279	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TACCTGAAAAG	.	2	BLCA
MED23	0	.	GRCh37	6	131925327	131925327	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1747G>T	p.Gly583Ter	p.G583*	ENST00000368068	15/29	74	66	8	110	110	0	MED23,stop_gained,p.Gly224Ter,ENST00000545957,;MED23,stop_gained,p.Gly583Ter,ENST00000368068,;MED23,stop_gained,p.Gly589Ter,ENST00000354577,;MED23,stop_gained,p.Gly589Ter,ENST00000403834,;MED23,stop_gained,p.Gly583Ter,ENST00000368060,;MED23,stop_gained,p.Gly589Ter,ENST00000540546,;MED23,stop_gained,p.Gly589Ter,ENST00000368058,;MED23,stop_gained,p.Gly589Ter,ENST00000368053,;MED23,intron_variant,,ENST00000539158,;	A	ENSG00000112282	ENST00000368068	Transcript	stop_gained	1927	1747	583	G/*	Gga/Tga	.	.	.	-1	MED23	HGNC	2372	protein_coding	YES	CCDS5147.1	ENSP00000357047	MED23_HUMAN	B9TX51_HUMAN	UPI000012855F	.	.	.	15/29	.	hmmpanther:PTHR12691,hmmpanther:PTHR12691:SF10,Pfam_domain:PF11573	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAATCCTTTGA	.	4	BLCA
TAAR9	0	.	GRCh37	6	132859631	132859631	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.203A>G	p.Asn68Ser	p.N68S	ENST00000434551	1/1	82	71	11	80	80	0	TAAR9,missense_variant,p.Asn68Ser,ENST00000434551,;	G	ENSG00000237110	ENST00000434551	Transcript	missense_variant	203	203	68	N/S	aAc/aGc	.	.	.	1	TAAR9	HGNC	20977	polymorphic_pseudogene	YES	.	ENSP00000424607	.	.	.	.	deleterious(0.02)	benign(0.342)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACAAACTTTC	.	5	BLCA
TNFAIP3	0	.	GRCh37	6	138200359	138200359	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1777C>G	p.Gln593Glu	p.Q593E	ENST00000237289	7/9	77	63	13	81	81	0	TNFAIP3,missense_variant,p.Gln593Glu,ENST00000237289,;TNFAIP3,downstream_gene_variant,,ENST00000420009,;TNFAIP3,downstream_gene_variant,,ENST00000485192,;	G	ENSG00000118503	ENST00000237289	Transcript	missense_variant	1843	1777	593	Q/E	Caa/Gaa	COSM36193	.	.	1	TNFAIP3	HGNC	11896	protein_coding	YES	CCDS5187.1	ENSP00000237289	TNAP3_HUMAN	Q5VXR0_HUMAN,Q5VXQ9_HUMAN,Q5VXQ8_HUMAN,Q5PY18_HUMAN,D3TTZ5_HUMAN,D3TTZ0_HUMAN,D3TTY6_HUMAN	UPI000000D92D	.	tolerated(0.32)	benign(0.05)	7/9	.	hmmpanther:PTHR13367,hmmpanther:PTHR13367:SF3	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_2373del2373|25	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTCAAGCT	.	5	BLCA
ESR1	0	.	GRCh37	6	152201851	152201851	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705G>C	p.Lys235Asn	p.K235N	ENST00000440973	5/10	66	57	9	93	93	0	ESR1,missense_variant,p.Lys235Asn,ENST00000440973,;ESR1,missense_variant,p.Lys62Asn,ENST00000427531,;ESR1,missense_variant,p.Lys235Asn,ENST00000338799,;ESR1,missense_variant,p.Lys235Asn,ENST00000443427,;ESR1,missense_variant,p.Lys235Asn,ENST00000456483,;ESR1,missense_variant,p.Lys235Asn,ENST00000206249,;ESR1,missense_variant,p.Lys20Asn,ENST00000415488,;ESR1,intron_variant,,ENST00000406599,;	C	ENSG00000091831	ENST00000440973	Transcript	missense_variant	1075	705	235	K/N	aaG/aaC	.	.	.	1	ESR1	HGNC	3467	protein_coding	YES	CCDS5234.1	ENSP00000405330	ESR1_HUMAN	Q9UE35_HUMAN,Q9UBT1_HUMAN,Q5T5H8_HUMAN,K7R989_HUMAN,K4Q331_HUMAN,K4PXX0_HUMAN,K4PX46_HUMAN,G4XH65_HUMAN,E3WH18_HUMAN,C8CJL0_HUMAN,C7FFR5_HUMAN,B6DU67_HUMAN	UPI000004A328	.	deleterious(0)	probably_damaging(0.999)	5/10	.	PROSITE_profiles:PS51030,hmmpanther:PTHR24084:SF3,hmmpanther:PTHR24084,Gene3D:3.30.50.10,Pfam_domain:PF00105,SMART_domains:SM00399,PIRSF_domain:PIRSF500101,PIRSF_domain:PIRSF002527,Superfamily_domains:SSF57716,Prints_domain:PR00047	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGGAAGAGCTG	.	4	BLCA
SERAC1	0	.	GRCh37	6	158549208	158549208	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.947G>A	p.Arg316Lys	p.R316K	ENST00000367104	10/17	75	65	9	115	115	0	SERAC1,missense_variant,p.Arg316Lys,ENST00000367104,;SERAC1,missense_variant,p.Arg316Lys,ENST00000367101,;SERAC1,missense_variant,p.Arg316Lys,ENST00000367102,;SERAC1,missense_variant,p.Arg278Lys,ENST00000606965,;SERAC1,3_prime_UTR_variant,,ENST00000607071,;SERAC1,3_prime_UTR_variant,,ENST00000607742,;	T	ENSG00000122335	ENST00000367104	Transcript	missense_variant	1079	947	316	R/K	aGa/aAa	.	.	.	-1	SERAC1	HGNC	21061	protein_coding	YES	CCDS5255.1	ENSP00000356071	SRAC1_HUMAN	.	UPI0000070959	.	tolerated(0.13)	possibly_damaging(0.719)	10/17	.	hmmpanther:PTHR22731,hmmpanther:PTHR22731:SF4,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATTTCTCTGT	.	4	BLCA
TULP4	0	.	GRCh37	6	158902258	158902258	+	Missense_Mutation	SNP	C	C	T	rs757109055	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1423C>T	p.Arg475Trp	p.R475W	ENST00000367097	8/14	38	31	7	56	56	0	TULP4,missense_variant,p.Arg475Trp,ENST00000367097,;TULP4,missense_variant,p.Arg475Trp,ENST00000367094,;	T	ENSG00000130338	ENST00000367097	Transcript	missense_variant	2780	1423	475	R/W	Cgg/Tgg	rs757109055	.	.	1	TULP4	HGNC	15530	protein_coding	YES	CCDS34561.1	ENSP00000356064	TULP4_HUMAN	.	UPI000013CD76	.	deleterious(0)	probably_damaging(0.997)	8/14	.	hmmpanther:PTHR16517,hmmpanther:PTHR16517:SF2,Gene3D:3c5nA00,Superfamily_domains:SSF49842	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGGGCGGCGC	.	5	BLCA
C6orf118	0	.	GRCh37	6	165703464	165703464	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1213G>C	p.Glu405Gln	p.E405Q	ENST00000230301	7/9	126	107	19	171	171	0	C6orf118,missense_variant,p.Glu405Gln,ENST00000230301,;C6orf118,3_prime_UTR_variant,,ENST00000543069,;C6orf118,non_coding_transcript_exon_variant,,ENST00000494696,;	G	ENSG00000112539	ENST00000230301	Transcript	missense_variant	1234	1213	405	E/Q	Gag/Cag	COSM1075833	.	.	-1	C6orf118	HGNC	21233	protein_coding	YES	CCDS5288.1	ENSP00000230301	CF118_HUMAN	.	UPI0000367401	.	deleterious(0)	probably_damaging(1)	7/9	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATCTCATCCC	.	5	BLCA
PDE10A	0	.	GRCh37	6	165806233	165806233	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1558C>T	p.Arg520Trp	p.R520W	ENST00000539869	16/22	68	56	12	88	88	0	PDE10A,missense_variant,p.Arg510Trp,ENST00000354448,;PDE10A,missense_variant,p.Arg520Trp,ENST00000539869,;PDE10A,missense_variant,p.Arg510Trp,ENST00000366882,;	A	ENSG00000112541	ENST00000539869	Transcript	missense_variant	1614	1558	520	R/W	Cgg/Tgg	.	.	.	-1	PDE10A	HGNC	8772	protein_coding	YES	CCDS47513.1	ENSP00000438284	PDE10_HUMAN	.	UPI000006F80E	.	deleterious(0.02)	benign(0.026)	16/22	.	hmmpanther:PTHR11347,hmmpanther:PTHR11347:SF79,Gene3D:1.10.1300.10,Superfamily_domains:SSF109604,Prints_domain:PR00387	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGCCGATAGT	.	4	BLCA
CCR6	0	.	GRCh37	6	167549607	167549608	+	5'UTR	INS	-	-	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-10dupT	.	.	ENST00000341935	2/3	187	161	26	265	265	0	CCR6,5_prime_UTR_variant,,ENST00000341935,;CCR6,5_prime_UTR_variant,,ENST00000400926,;CCR6,5_prime_UTR_variant,,ENST00000349984,;RP11-517H2.6,non_coding_transcript_exon_variant,,ENST00000609590,;	T	ENSG00000112486	ENST00000341935	Transcript	5_prime_UTR_variant	537-538	.	.	.	.	.	.	.	1	CCR6	HGNC	1607	protein_coding	YES	CCDS5298.1	ENSP00000343952	CCR6_HUMAN	.	UPI00000008CE	.	.	.	2/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	insertion	.	6	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTTGCATTTTT	.	2	BLCA
DLL1	0	.	GRCh37	6	170592091	170592091	+	Silent	SNP	G	G	A	rs373200536	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2151C>T	p.%3D	p.C717C	ENST00000366756	10/11	133	116	17	185	185	0	DLL1,synonymous_variant,p.%3D,ENST00000366756,;RP5-894D12.3,downstream_gene_variant,,ENST00000438622,;RP5-894D12.3,downstream_gene_variant,,ENST00000607074,;RP5-894D12.3,downstream_gene_variant,,ENST00000422894,;	A	ENSG00000198719	ENST00000366756	Transcript	synonymous_variant	2485	2151	717	C	tgC/tgT	rs373200536,COSM1076184	.	.	-1	DLL1	HGNC	2908	protein_coding	YES	CCDS5313.1	ENSP00000355718	DLL1_HUMAN	.	UPI000004C656	.	.	.	10/11	.	.	.	.	.	.	.	.	.	A:0	A:0.0002	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGACGCACTC	byFrequency|byCluster	4	BLCA
NHLRC1	0	.	GRCh37	6	18122466	18122466	+	Frame_Shift_Del	DEL	C	C	-	rs756365176	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.372delG	p.Thr125ProfsTer107	p.T125Pfs*107	ENST00000340650	1/1	28	25	3	24	24	0	NHLRC1,frameshift_variant,p.Thr125ProfsTer107,ENST00000340650,;	-	ENSG00000187566	ENST00000340650	Transcript	frameshift_variant	386	372	124	G/X	ggG/gg	rs756365176	.	.	-1	NHLRC1	HGNC	21576	protein_coding	YES	CCDS4542.1	ENSP00000345464	NHLC1_HUMAN	.	UPI0000198CE1	.	.	.	1/1	.	PROSITE_profiles:PS51125,hmmpanther:PTHR24104,Gene3D:2.120.10.30,Superfamily_domains:SSF101898	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	CAGGGTCCCCCA	.	2	BLCA
HIST1H4C	0	.	GRCh37	6	26104345	26104345	+	Missense_Mutation	SNP	G	G	T	rs778249149	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.170G>T	p.Gly57Val	p.G57V	ENST00000377803	1/1	82	68	13	86	86	0	HIST1H4C,missense_variant,p.Gly57Val,ENST00000377803,;HIST1H1T,downstream_gene_variant,,ENST00000338379,;	T	ENSG00000197061	ENST00000377803	Transcript	missense_variant	242	170	57	G/V	gGt/gTt	rs778249149	.	.	1	HIST1H4C	HGNC	4787	protein_coding	YES	CCDS4583.1	ENSP00000367034	H4_HUMAN	Q6B823_HUMAN,B2R4R0_HUMAN	UPI000000003C	.	deleterious(0.01)	benign(0.222)	1/1	.	hmmpanther:PTHR10484,Pfam_domain:PF00125,Gene3D:1.10.20.10,SMART_domains:SM00417,SMART_domains:SM00803,Superfamily_domains:SSF47113,Prints_domain:PR00623	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCGAGGTGTGC	byFrequency	5	BLCA
BTN2A2	0	.	GRCh37	6	26393474	26393474	+	3'UTR	SNP	A	A	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*279A>C	.	.	ENST00000356709	8/8	26	23	3	14	14	0	BTN2A2,3_prime_UTR_variant,,ENST00000356709,;BTN2A2,3_prime_UTR_variant,,ENST00000495632,;BTN2A2,3_prime_UTR_variant,,ENST00000352867,;BTN2A2,3_prime_UTR_variant,,ENST00000416795,;BTN2A2,intron_variant,,ENST00000469230,;BTN2A2,downstream_gene_variant,,ENST00000472507,;BTN2A2,downstream_gene_variant,,ENST00000490025,;BTN2A2,downstream_gene_variant,,ENST00000432533,;BTN2A2,downstream_gene_variant,,ENST00000482842,;BTN2A2,downstream_gene_variant,,ENST00000493275,;BTN2A2,downstream_gene_variant,,ENST00000482536,;BTN2A2,downstream_gene_variant,,ENST00000483410,;BTN2A2,downstream_gene_variant,,ENST00000467485,;	C	ENSG00000124508	ENST00000356709	Transcript	3_prime_UTR_variant	1962	.	.	.	.	.	.	.	1	BTN2A2	HGNC	1137	protein_coding	YES	CCDS4606.1	ENSP00000349143	BT2A2_HUMAN	C9JAJ6_HUMAN,C9J8R3_HUMAN,C9IZY2_HUMAN,C9IY66_HUMAN	UPI00000480EA	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAGAAGCTGT	.	2	BLCA
NKAPL	0	.	GRCh37	6	28227933	28227933	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.784G>C	p.Glu262Gln	p.E262Q	ENST00000343684	1/1	26	19	6	39	39	0	NKAPL,missense_variant,p.Glu262Gln,ENST00000343684,;ZKSCAN4,upstream_gene_variant,,ENST00000423974,;	C	ENSG00000189134	ENST00000343684	Transcript	missense_variant	836	784	262	E/Q	Gaa/Caa	.	.	.	1	NKAPL	HGNC	21584	protein_coding	YES	CCDS34353.1	ENSP00000345716	NKAPL_HUMAN	.	UPI0000072A86	.	deleterious(0.02)	possibly_damaging(0.667)	1/1	.	hmmpanther:PTHR13087,hmmpanther:PTHR13087:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCAGAAGCT	.	5	BLCA
OR14J1	0	.	GRCh37	6	29274592	29274592	+	Silent	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.126C>G	p.%3D	p.L42L	ENST00000377160	1/1	91	70	21	140	140	0	OR14J1,synonymous_variant,p.%3D,ENST00000377160,;	G	ENSG00000204695	ENST00000377160	Transcript	synonymous_variant	190	126	42	L	ctC/ctG	COSM1077223	.	.	1	OR14J1	HGNC	13971	protein_coding	YES	CCDS34362.1	ENSP00000366365	O14J1_HUMAN	.	UPI0000041CEC	.	.	.	1/1	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR26452,hmmpanther:PTHR26452:SF42,Gene3D:1.20.1070.10,Superfamily_domains:SSF81321,Prints_domain:PR00237	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCCTCATTAT	.	5	BLCA
PPP1R10	0	.	GRCh37	6	30570103	30570103	+	Missense_Mutation	SNP	C	C	T	rs761017174	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2323G>A	p.Gly775Ser	p.G775S	ENST00000376511	19/20	159	133	25	194	193	0	PPP1R10,missense_variant,p.Gly775Ser,ENST00000376511,;PPP1R10,downstream_gene_variant,,ENST00000468181,;PPP1R10,downstream_gene_variant,,ENST00000461593,;PPP1R10,downstream_gene_variant,,ENST00000496955,;PPP1R10,downstream_gene_variant,,ENST00000476704,;	T	ENSG00000204569	ENST00000376511	Transcript	missense_variant	2876	2323	775	G/S	Ggt/Agt	rs761017174,COSM1443036	.	.	-1	PPP1R10	HGNC	9284	protein_coding	YES	CCDS4681.1	ENSP00000365694	PP1RA_HUMAN	Q2L6I0_HUMAN	UPI000000D73C	.	tolerated_low_confidence(0.4)	unknown(0)	19/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12506	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCACCGCCAG	.	4	BLCA
PPP1R18	0	.	GRCh37	6	30652939	30652939	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.857G>T	p.Gly286Val	p.G286V	ENST00000274853	1/3	107	87	19	150	150	0	PPP1R18,missense_variant,p.Gly286Val,ENST00000399199,;PPP1R18,missense_variant,p.Gly286Val,ENST00000274853,;NRM,downstream_gene_variant,,ENST00000376420,;NRM,downstream_gene_variant,,ENST00000376421,;NRM,downstream_gene_variant,,ENST00000444096,;NRM,downstream_gene_variant,,ENST00000259953,;PPP1R18,intron_variant,,ENST00000467662,;PPP1R18,intron_variant,,ENST00000488324,;NRM,downstream_gene_variant,,ENST00000462857,;NRM,downstream_gene_variant,,ENST00000482141,;NRM,downstream_gene_variant,,ENST00000474864,;NRM,downstream_gene_variant,,ENST00000470733,;NRM,downstream_gene_variant,,ENST00000495946,;	A	ENSG00000146112	ENST00000274853	Transcript	missense_variant	2734	857	286	G/V	gGg/gTg	.	.	.	-1	PPP1R18	HGNC	29413	protein_coding	YES	CCDS43444.1	ENSP00000274853	PPR18_HUMAN	.	UPI00001C1E5E	.	tolerated_low_confidence(0.08)	benign(0.155)	1/3	.	hmmpanther:PTHR21685	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTACCCCTGGA	.	5	BLCA
NRM	0	.	GRCh37	6	30657966	30657967	+	Frame_Shift_Ins	INS	-	-	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.187dupC	p.Leu63ProfsTer21	p.L63Pfs*21	ENST00000259953	3/5	46	39	7	64	64	0	NRM,frameshift_variant,p.Leu63ProfsTer21,ENST00000376420,;NRM,frameshift_variant,p.Leu63ProfsTer21,ENST00000376421,;NRM,frameshift_variant,p.Leu63ProfsTer21,ENST00000444096,;NRM,frameshift_variant,p.Leu63ProfsTer21,ENST00000259953,;PPP1R18,upstream_gene_variant,,ENST00000399199,;PPP1R18,upstream_gene_variant,,ENST00000274853,;NRM,non_coding_transcript_exon_variant,,ENST00000462857,;NRM,non_coding_transcript_exon_variant,,ENST00000470733,;NRM,non_coding_transcript_exon_variant,,ENST00000495946,;NRM,intron_variant,,ENST00000482141,;NRM,intron_variant,,ENST00000474864,;PPP1R18,upstream_gene_variant,,ENST00000467662,;PPP1R18,upstream_gene_variant,,ENST00000488324,;	G	ENSG00000137404	ENST00000259953	Transcript	frameshift_variant	539-540	187-188	63	L/PX	ctg/cCtg	COSM1443091	.	.	-1	NRM	HGNC	8003	protein_coding	YES	CCDS4686.1	ENSP00000259953	NRM_HUMAN	B4DP16_HUMAN	UPI0000049DF1	.	.	.	3/5	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR31040	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	insertion	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATGCCAGGGGG	.	3	BLCA
MDC1	0	.	GRCh37	6	30671965	30671965	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4995delC	p.Thr1666GlnfsTer10	p.T1666Qfs*10	ENST00000376406	10/15	140	113	27	153	153	0	MDC1,frameshift_variant,p.Thr1666GlnfsTer10,ENST00000376406,;MDC1,frameshift_variant,p.Thr1402GlnfsTer10,ENST00000376405,;MDC1,downstream_gene_variant,,ENST00000417033,;MDC1-AS1,intron_variant,,ENST00000442150,;MDC1,downstream_gene_variant,,ENST00000492462,;MDC1,upstream_gene_variant,,ENST00000489540,;	-	ENSG00000137337	ENST00000376406	Transcript	frameshift_variant	5643	4995	1665	P/X	ccC/cc	.	.	.	-1	MDC1	HGNC	21163	protein_coding	YES	CCDS34384.1	ENSP00000365588	MDC1_HUMAN	A2AB07_HUMAN,A2AB06_HUMAN,A2AB05_HUMAN,A1Z5I9_HUMAN,A1Z5I7_HUMAN	UPI00001AF453	.	.	.	10/15	.	hmmpanther:PTHR23196,hmmpanther:PTHR23196:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GTCTGTGGGGGT	.	3	BLCA
MDC1	0	.	GRCh37	6	30675470	30675470	+	Silent	SNP	G	G	T	rs764825029	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2886C>A	p.%3D	p.A962A	ENST00000376406	8/15	67	56	11	64	64	0	MDC1,synonymous_variant,p.%3D,ENST00000376406,;MDC1,intron_variant,,ENST00000417033,;MDC1,intron_variant,,ENST00000376405,;MDC1-AS1,intron_variant,,ENST00000442150,;MDC1,downstream_gene_variant,,ENST00000494654,;MDC1,upstream_gene_variant,,ENST00000492462,;MDC1,upstream_gene_variant,,ENST00000489540,;	T	ENSG00000137337	ENST00000376406	Transcript	synonymous_variant	3534	2886	962	A	gcC/gcA	rs764825029	.	.	-1	MDC1	HGNC	21163	protein_coding	YES	CCDS34384.1	ENSP00000365588	MDC1_HUMAN	A2AB07_HUMAN,A2AB06_HUMAN,A2AB05_HUMAN,A1Z5I9_HUMAN,A1Z5I7_HUMAN	UPI00001AF453	.	.	.	8/15	.	hmmpanther:PTHR23196,hmmpanther:PTHR23196:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGGAGGCCTG	.	5	BLCA
SKIV2L	0	.	GRCh37	6	31929329	31929329	+	Silent	SNP	G	G	A	rs759333847	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.795G>A	p.%3D	p.A265A	ENST00000375394	9/28	106	88	18	124	124	0	SKIV2L,synonymous_variant,p.%3D,ENST00000544581,;SKIV2L,synonymous_variant,p.%3D,ENST00000375394,;NELFE,upstream_gene_variant,,ENST00000436289,;NELFE,upstream_gene_variant,,ENST00000375425,;NELFE,upstream_gene_variant,,ENST00000444811,;NELFE,upstream_gene_variant,,ENST00000375429,;NELFE,upstream_gene_variant,,ENST00000426722,;NELFE,upstream_gene_variant,,ENST00000441998,;NELFE,upstream_gene_variant,,ENST00000454913,;MIR1236,upstream_gene_variant,,ENST00000408340,;SKIV2L,downstream_gene_variant,,ENST00000488648,;SKIV2L,missense_variant,p.Val202Ile,ENST00000461073,;SKIV2L,3_prime_UTR_variant,,ENST00000474839,;SKIV2L,non_coding_transcript_exon_variant,,ENST00000465703,;SKIV2L,non_coding_transcript_exon_variant,,ENST00000466290,;SKIV2L,downstream_gene_variant,,ENST00000492900,;NELFE,upstream_gene_variant,,ENST00000492539,;NELFE,upstream_gene_variant,,ENST00000488426,;NELFE,upstream_gene_variant,,ENST00000494956,;NELFE,upstream_gene_variant,,ENST00000492185,;NELFE,upstream_gene_variant,,ENST00000481121,;NELFE,upstream_gene_variant,,ENST00000491139,;	A	ENSG00000204351	ENST00000375394	Transcript	synonymous_variant	908	795	265	A	gcG/gcA	rs759333847	.	.	1	SKIV2L	HGNC	10898	protein_coding	YES	CCDS4731.1	ENSP00000364543	SKIV2_HUMAN	Q9NPK3_HUMAN,Q9BQJ5_HUMAN,F5H7B0_HUMAN,B4DM01_HUMAN	UPI000045740B	.	.	.	9/28	.	hmmpanther:PTHR11752:SF62,hmmpanther:PTHR11752,PIRSF_domain:PIRSF005198	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAAGCGTCCAC	byFrequency	5	BLCA
IP6K3	0	.	GRCh37	6	33694614	33694614	+	Silent	SNP	G	G	T	rs749410294	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.483C>A	p.%3D	p.T161T	ENST00000451316	5/7	106	94	11	132	132	0	IP6K3,synonymous_variant,p.%3D,ENST00000451316,;IP6K3,synonymous_variant,p.%3D,ENST00000293756,;	T	ENSG00000161896	ENST00000451316	Transcript	synonymous_variant	1019	483	161	T	acC/acA	rs749410294	.	.	-1	IP6K3	HGNC	17269	protein_coding	YES	CCDS34435.1	ENSP00000398861	IP6K3_HUMAN	Q5TAQ4_HUMAN	UPI000013E117	.	.	.	5/7	.	hmmpanther:PTHR12400:SF40,hmmpanther:PTHR12400	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCGTTGGTGTC	.	4	BLCA
GRM4	0	.	GRCh37	6	34100906	34100906	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.368T>C	p.Val123Ala	p.V123A	ENST00000538487	2/11	24	20	4	28	28	0	GRM4,missense_variant,p.Val123Ala,ENST00000374181,;GRM4,missense_variant,p.Val123Ala,ENST00000538487,;GRM4,intron_variant,,ENST00000374177,;GRM4,missense_variant,p.Val123Ala,ENST00000609278,;GRM4,non_coding_transcript_exon_variant,,ENST00000607916,;GRM4,upstream_gene_variant,,ENST00000609973,;	G	ENSG00000124493	ENST00000538487	Transcript	missense_variant	812	368	123	V/A	gTg/gCg	.	.	.	-1	GRM4	HGNC	4596	protein_coding	YES	CCDS4787.1	ENSP00000440556	GRM4_HUMAN	A8K0J8_HUMAN,A1L4F9_HUMAN	UPI000004A7DE	.	deleterious(0)	probably_damaging(0.996)	2/11	.	hmmpanther:PTHR24060:SF23,hmmpanther:PTHR24060,Gene3D:3.40.50.2300,Pfam_domain:PF01094,Superfamily_domains:SSF53822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTGCACAAAG	.	4	BLCA
PI16	0	.	GRCh37	6	36922641	36922641	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.105G>C	p.Leu35Phe	p.L35F	ENST00000373674	1/7	46	39	7	48	48	0	PI16,missense_variant,p.Leu35Phe,ENST00000373674,;	C	ENSG00000164530	ENST00000373674	Transcript	missense_variant	433	105	35	L/F	ttG/ttC	.	.	.	1	PI16	HGNC	21245	protein_coding	YES	CCDS34440.1	ENSP00000362778	PI16_HUMAN	B4DXZ3_HUMAN	UPI000004C657	.	tolerated(0.72)	benign(0.298)	1/7	.	hmmpanther:PTHR10334,Gene3D:3.40.33.10,SMART_domains:SM00198,Superfamily_domains:SSF55797	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTGATGGT	.	5	BLCA
DNAH8	0	.	GRCh37	6	38770982	38770982	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2278C>G	p.Leu760Val	p.L760V	ENST00000359357	20/91	51	42	9	61	61	0	DNAH8,missense_variant,p.Leu760Val,ENST00000359357,;DNAH8,missense_variant,p.Leu965Val,ENST00000327475,;DNAH8,missense_variant,p.Leu760Val,ENST00000441566,;DNAH8,missense_variant,p.Leu977Val,ENST00000449981,;	G	ENSG00000124721	ENST00000359357	Transcript	missense_variant	2532	2278	760	L/V	Cta/Gta	.	.	.	1	DNAH8	HGNC	2952	protein_coding	YES	.	ENSP00000352312	DYH8_HUMAN	.	UPI00003677EB	.	.	benign(0.115)	20/91	.	hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF229	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACATTCTAAAC	.	5	BLCA
TFEB	0	.	GRCh37	6	41652546	41652546	+	Missense_Mutation	SNP	C	C	T	rs148691652	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1222G>A	p.Glu408Lys	p.E408K	ENST00000230323	10/10	33	25	7	35	35	0	TFEB,missense_variant,p.Glu408Lys,ENST00000373033,;TFEB,missense_variant,p.Glu408Lys,ENST00000403298,;TFEB,missense_variant,p.Glu422Lys,ENST00000358871,;TFEB,missense_variant,p.Glu323Lys,ENST00000420312,;TFEB,missense_variant,p.Glu266Lys,ENST00000406563,;TFEB,missense_variant,p.Glu494Lys,ENST00000343317,;TFEB,missense_variant,p.Glu408Lys,ENST00000230323,;TFEB,downstream_gene_variant,,ENST00000416140,;TFEB,downstream_gene_variant,,ENST00000394283,;AL035588.1,upstream_gene_variant,,ENST00000597468,;TFEB,downstream_gene_variant,,ENST00000419396,;TFEB,downstream_gene_variant,,ENST00000419574,;TFEB,downstream_gene_variant,,ENST00000494822,;	T	ENSG00000112561	ENST00000230323	Transcript	missense_variant	1524	1222	408	E/K	Gag/Aag	rs148691652	.	.	-1	TFEB	HGNC	11753	protein_coding	YES	CCDS4858.1	ENSP00000230323	TFEB_HUMAN	Q86WB1_HUMAN,Q709A9_HUMAN,Q709A8_HUMAN,B1AKB4_HUMAN,B1AKB2_HUMAN,B1AKB1_HUMAN,B1AKA9_HUMAN	UPI0000001615	.	deleterious(0.04)	possibly_damaging(0.716)	10/10	.	hmmpanther:PTHR10014,hmmpanther:PTHR10014:SF9,Pfam_domain:PF11851	.	.	.	.	.	.	.	T:0	T:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCGTCCT	byCluster	5	BLCA
AARS2	0	.	GRCh37	6	44272425	44272425	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1709delG	p.Gly570AlafsTer21	p.G570Afs*21	ENST00000244571	12/22	49	40	9	62	62	0	AARS2,frameshift_variant,p.Gly570AlafsTer21,ENST00000244571,;TMEM151B,intron_variant,,ENST00000438774,;AARS2,upstream_gene_variant,,ENST00000491573,;RP11-444E17.6,intron_variant,,ENST00000505802,;	-	ENSG00000124608	ENST00000244571	Transcript	frameshift_variant	1712	1709	570	G/X	gGc/gc	.	.	.	-1	AARS2	HGNC	21022	protein_coding	YES	CCDS34464.1	ENSP00000244571	SYAM_HUMAN	.	UPI00001C1E5A	.	.	.	12/22	.	PROSITE_profiles:PS50860,HAMAP:MF_00036_B,hmmpanther:PTHR11777:SF8,hmmpanther:PTHR11777,Pfam_domain:PF01411,TIGRFAM_domain:TIGR00344,Superfamily_domains:SSF50447	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCCTGGCCCCCC	.	3	BLCA
CDC5L	0	.	GRCh37	6	44371655	44371656	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.656dupA	p.Pro220AlafsTer7	p.P220Afs*7	ENST00000371477	6/16	77	61	15	86	86	0	CDC5L,frameshift_variant,p.Pro220AlafsTer7,ENST00000371477,;	A	ENSG00000096401	ENST00000371477	Transcript	frameshift_variant	948-949	649-650	217	E/EX	gaa/gAaa	.	.	.	1	CDC5L	HGNC	1743	protein_coding	YES	CCDS4912.1	ENSP00000360532	CDC5L_HUMAN	.	UPI000006EE42	.	.	.	6/16	.	hmmpanther:PTHR10641,hmmpanther:PTHR10641:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	7	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CATTTGAAAAA	.	2	BLCA
FAM83B	0	.	GRCh37	6	54806528	54806528	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2759C>T	p.Ser920Phe	p.S920F	ENST00000306858	5/5	79	72	7	102	102	0	FAM83B,missense_variant,p.Ser920Phe,ENST00000306858,;RP3-523K23.2,upstream_gene_variant,,ENST00000562834,;	T	ENSG00000168143	ENST00000306858	Transcript	missense_variant	2875	2759	920	S/F	tCc/tTc	.	.	.	1	FAM83B	HGNC	21357	protein_coding	YES	CCDS34479.1	ENSP00000304078	FA83B_HUMAN	.	UPI00001D81EC	.	tolerated(0.16)	benign(0.17)	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR16181,hmmpanther:PTHR16181:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.L923P|c.2768T>C|3	MUTECT|MUSE|VARSCANS	AACGTCCAGTG	.	3	BLCA
HCRTR2	0	.	GRCh37	6	55147195	55147195	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1278C>G	p.%3D	p.L426L	ENST00000370862	7/7	34	31	3	40	40	0	HCRTR2,synonymous_variant,p.%3D,ENST00000370862,;	G	ENSG00000137252	ENST00000370862	Transcript	synonymous_variant	1614	1278	426	L	ctC/ctG	.	.	.	1	HCRTR2	HGNC	4849	protein_coding	YES	CCDS4956.1	ENSP00000359899	OX2R_HUMAN	S4X0W3_HUMAN,A6N9G8_HUMAN	UPI000013D07A	.	.	.	7/7	.	hmmpanther:PTHR24241:SF56,hmmpanther:PTHR24241,Pfam_domain:PF03827,Prints_domain:PR01064	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTGCTCACTAG	.	2	BLCA
BAI3	0	.	GRCh37	6	70098687	70098687	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4473G>T	p.Glu1491Asp	p.E1491D	ENST00000370598	32/32	36	31	5	52	52	0	BAI3,missense_variant,p.Glu455Asp,ENST00000546190,;BAI3,missense_variant,p.Glu697Asp,ENST00000238918,;BAI3,missense_variant,p.Glu1491Asp,ENST00000370598,;	T	ENSG00000135298	ENST00000370598	Transcript	missense_variant	5294	4473	1491	E/D	gaG/gaT	.	.	.	1	BAI3	HGNC	945	protein_coding	YES	CCDS4968.1	ENSP00000359630	BAI3_HUMAN	S4R3D0_HUMAN,B7Z1K0_HUMAN	UPI00001AE6A9	.	tolerated(0.62)	benign(0.001)	32/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACAGAGGCAAA	.	4	BLCA
RREB1	0	.	GRCh37	6	7230630	7230630	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2298T>C	p.%3D	p.R766R	ENST00000379938	10/13	22	13	9	28	28	0	RREB1,synonymous_variant,p.%3D,ENST00000349384,;RREB1,synonymous_variant,p.%3D,ENST00000334984,;RREB1,synonymous_variant,p.%3D,ENST00000379938,;RREB1,synonymous_variant,p.%3D,ENST00000483150,;RREB1,synonymous_variant,p.%3D,ENST00000379933,;	C	ENSG00000124782	ENST00000379938	Transcript	synonymous_variant	2835	2298	766	R	cgT/cgC	.	.	.	1	RREB1	HGNC	10449	protein_coding	YES	CCDS34335.1	ENSP00000369270	RREB1_HUMAN	C9JU34_HUMAN,C9JPJ6_HUMAN,C9JE09_HUMAN	UPI000020E496	.	.	.	10/13	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23233,hmmpanther:PTHR23233:SF42,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATCGTGCCCT	.	2	BLCA
DDX43	0	.	GRCh37	6	74116130	74116130	+	Missense_Mutation	SNP	G	G	C	rs748090175	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.851G>C	p.Gly284Ala	p.G284A	ENST00000370336	7/17	63	47	15	97	97	0	DDX43,missense_variant,p.Gly284Ala,ENST00000370336,;DDX43,3_prime_UTR_variant,,ENST00000539829,;DDX43,upstream_gene_variant,,ENST00000479773,;	C	ENSG00000080007	ENST00000370336	Transcript	missense_variant	1009	851	284	G/A	gGa/gCa	rs748090175	.	.	1	DDX43	HGNC	18677	protein_coding	YES	CCDS4977.1	ENSP00000359361	DDX43_HUMAN	.	UPI000013CA60	.	tolerated(0.12)	benign(0.204)	7/17	.	SMART_domains:SM00487,Gene3D:3.40.50.300,Pfam_domain:PF00270,hmmpanther:PTHR24031:SF225,hmmpanther:PTHR24031,PROSITE_profiles:PS51192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATAGGAGTAG	byFrequency	5	BLCA
DOPEY1	0	.	GRCh37	6	83838630	83838630	+	Missense_Mutation	SNP	C	C	A	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1744C>A	p.Pro582Thr	p.P582T	ENST00000349129	16/39	64	56	7	81	81	0	DOPEY1,missense_variant,p.Pro166Thr,ENST00000604380,;DOPEY1,missense_variant,p.Pro563Thr,ENST00000237163,;DOPEY1,missense_variant,p.Pro573Thr,ENST00000369739,;DOPEY1,missense_variant,p.Pro582Thr,ENST00000349129,;DOPEY1,upstream_gene_variant,,ENST00000493541,;	A	ENSG00000083097	ENST00000349129	Transcript	missense_variant	2004	1744	582	P/T	Cct/Act	COSM3630143,COSM3630144	.	.	1	DOPEY1	HGNC	21194	protein_coding	YES	CCDS4996.1	ENSP00000195654	DOP1_HUMAN	.	UPI00001C1574	.	tolerated(0.13)	benign(0.001)	16/39	.	hmmpanther:PTHR14042:SF22,hmmpanther:PTHR14042	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAAATCCTACT	.	4	BLCA
MMS22L	0	.	GRCh37	6	97626452	97626452	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2546A>G	p.Tyr849Cys	p.Y849C	ENST00000275053	18/25	60	46	14	52	52	0	MMS22L,missense_variant,p.Tyr849Cys,ENST00000275053,;MMS22L,missense_variant,p.Tyr809Cys,ENST00000369251,;	C	ENSG00000146263	ENST00000275053	Transcript	missense_variant	2812	2546	849	Y/C	tAc/tGc	.	.	.	-1	MMS22L	HGNC	21475	protein_coding	YES	CCDS5039.1	ENSP00000275053	MMS22_HUMAN	H9KVD8_HUMAN	UPI00003673C9	.	deleterious(0.02)	probably_damaging(0.998)	18/25	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATGTACTCT	.	5	BLCA
SERPINE1	0	.	GRCh37	7	100773885	100773885	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.455T>C	p.Val152Ala	p.V152A	ENST00000223095	3/9	248	231	16	317	317	0	SERPINE1,missense_variant,p.Val152Ala,ENST00000223095,;SERPINE1,missense_variant,p.Val137Ala,ENST00000445463,;	C	ENSG00000106366	ENST00000223095	Transcript	missense_variant	612	455	152	V/A	gTg/gCg	.	.	.	1	SERPINE1	HGNC	8583	protein_coding	YES	CCDS5711.1	ENSP00000223095	PAI1_HUMAN	B7ZAB0_HUMAN,B7Z1D9_HUMAN	UPI0000000CAB	.	tolerated(0.55)	benign(0.003)	3/9	.	Superfamily_domains:SSF56574,SMART_domains:SM00093,Gene3D:3.30.497.10,Pfam_domain:PF00079,hmmpanther:PTHR11461,hmmpanther:PTHR11461:SF49	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAGGTGGAGA	.	2	BLCA
MOGAT3	0	.	GRCh37	7	100839278	100839278	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.975G>A	p.%3D	p.E325E	ENST00000223114	7/7	50	38	11	80	80	0	MOGAT3,missense_variant,p.Ala258Thr,ENST00000379423,;MOGAT3,synonymous_variant,p.%3D,ENST00000223114,;MOGAT3,3_prime_UTR_variant,,ENST00000440203,;	T	ENSG00000106384	ENST00000223114	Transcript	synonymous_variant	1142	975	325	E	gaG/gaA	.	.	.	-1	MOGAT3	HGNC	23249	protein_coding	YES	CCDS5714.1	ENSP00000223114	MOGT3_HUMAN	.	UPI00000622D1	.	.	.	7/7	.	Pfam_domain:PF03982,hmmpanther:PTHR12317,hmmpanther:PTHR12317:SF13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGTGCTCCTC	.	5	BLCA
SLC26A4	0	.	GRCh37	7	107355883	107355883	+	Missense_Mutation	SNP	G	G	C	rs776447767	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2335G>C	p.Ala779Pro	p.A779P	ENST00000265715	21/21	117	103	14	151	151	0	SLC26A4,missense_variant,p.Ala366Pro,ENST00000544569,;SLC26A4,missense_variant,p.Ala779Pro,ENST00000265715,;SLC26A4,missense_variant,p.Ala348Pro,ENST00000543100,;SLC26A4,missense_variant,p.Ala340Pro,ENST00000541474,;SLC26A4,non_coding_transcript_exon_variant,,ENST00000492030,;	C	ENSG00000091137	ENST00000265715	Transcript	missense_variant	2559	2335	779	A/P	Gca/Cca	rs776447767	.	.	1	SLC26A4	HGNC	8818	protein_coding	YES	CCDS5746.1	ENSP00000265715	S26A4_HUMAN	Q75MC7_HUMAN,C9JQG1_HUMAN,B7Z266_HUMAN	UPI00001315A4	.	deleterious_low_confidence(0.01)	probably_damaging(0.953)	21/21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACTTGCATCC	.	4	BLCA
PPP1R3A	0	.	GRCh37	7	113518193	113518193	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2954C>G	p.Ser985Ter	p.S985*	ENST00000284601	4/4	94	75	19	100	100	0	PPP1R3A,stop_gained,p.Ser985Ter,ENST00000284601,;PPP1R3A,downstream_gene_variant,,ENST00000449795,;PPP1R3A,downstream_gene_variant,,ENST00000284602,;	C	ENSG00000154415	ENST00000284601	Transcript	stop_gained	3023	2954	985	S/*	tCa/tGa	.	.	.	-1	PPP1R3A	HGNC	9291	protein_coding	YES	CCDS5759.1	ENSP00000284601	PPR3A_HUMAN	C9JZB3_HUMAN	UPI000013DDAA	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TACCTGATGTC	.	5	BLCA
TES	0	.	GRCh37	7	115892473	115892473	+	Silent	SNP	C	C	T	rs770830785	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1020C>T	p.%3D	p.Y340Y	ENST00000358204	6/7	125	98	26	117	117	0	TES,synonymous_variant,p.%3D,ENST00000393484,;TES,synonymous_variant,p.%3D,ENST00000393481,;TES,synonymous_variant,p.%3D,ENST00000358204,;TES,synonymous_variant,p.%3D,ENST00000537767,;TES,downstream_gene_variant,,ENST00000455989,;AC002066.1,intron_variant,,ENST00000446355,;AC073130.3,intron_variant,,ENST00000444244,;TES,non_coding_transcript_exon_variant,,ENST00000494384,;TES,non_coding_transcript_exon_variant,,ENST00000463746,;TES,downstream_gene_variant,,ENST00000496871,;TES,downstream_gene_variant,,ENST00000485009,;TES,3_prime_UTR_variant,,ENST00000492891,;TES,non_coding_transcript_exon_variant,,ENST00000496912,;TES,downstream_gene_variant,,ENST00000461440,;	T	ENSG00000135269	ENST00000358204	Transcript	synonymous_variant	1235	1020	340	Y	taC/taT	rs770830785	.	.	1	TES	HGNC	14620	protein_coding	YES	CCDS5763.1	ENSP00000350937	TES_HUMAN	A4D0U5_HUMAN,Q9Y423_HUMAN,F8W7T0_HUMAN,B7Z6L5_HUMAN	UPI0000136BF9	.	.	.	6/7	.	PROSITE_profiles:PS50023,hmmpanther:PTHR24211:SF1,hmmpanther:PTHR24211,Gene3D:2.10.110.10,Pfam_domain:PF00412,SMART_domains:SM00132,Superfamily_domains:SSF57716	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATATACGTGAT	byFrequency	5	BLCA
LRRC4	0	.	GRCh37	7	127670496	127670496	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.198C>G	p.%3D	p.L66L	ENST00000249363	2/2	67	57	10	82	82	0	LRRC4,synonymous_variant,p.%3D,ENST00000249363,;LRRC4,synonymous_variant,p.%3D,ENST00000476782,;LRRC4,5_prime_UTR_variant,,ENST00000494115,;SND1,intron_variant,,ENST00000354725,;SND1,intron_variant,,ENST00000486037,;LRRC4,downstream_gene_variant,,ENST00000478726,;SND1,intron_variant,,ENST00000484767,;SND1,intron_variant,,ENST00000470723,;	C	ENSG00000128594	ENST00000249363	Transcript	synonymous_variant	456	198	66	L	ctC/ctG	.	.	.	-1	LRRC4	HGNC	15586	protein_coding	YES	CCDS5799.1	ENSP00000249363	LRRC4_HUMAN	C9JA92_HUMAN,C9J7V8_HUMAN,C9J7K7_HUMAN	UPI0000049DF3	.	.	.	2/2	.	hmmpanther:PTHR24369:SF9,hmmpanther:PTHR24369,Gene3D:3.80.10.10,SMART_domains:SM00013,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TCGGAGAGGCC	.	5	BLCA
AHCYL2	0	.	GRCh37	7	129028913	129028913	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.492T>C	p.%3D	p.D164D	ENST00000325006	3/17	77	64	13	97	97	0	AHCYL2,synonymous_variant,p.%3D,ENST00000531335,;AHCYL2,synonymous_variant,p.%3D,ENST00000466993,;AHCYL2,synonymous_variant,p.%3D,ENST00000474594,;AHCYL2,synonymous_variant,p.%3D,ENST00000460109,;AHCYL2,synonymous_variant,p.%3D,ENST00000466924,;AHCYL2,synonymous_variant,p.%3D,ENST00000325006,;AHCYL2,synonymous_variant,p.%3D,ENST00000490911,;AHCYL2,synonymous_variant,p.%3D,ENST00000446212,;AHCYL2,synonymous_variant,p.%3D,ENST00000446544,;AHCYL2,non_coding_transcript_exon_variant,,ENST00000461161,;AHCYL2,non_coding_transcript_exon_variant,,ENST00000472554,;AHCYL2,non_coding_transcript_exon_variant,,ENST00000491079,;	C	ENSG00000158467	ENST00000325006	Transcript	synonymous_variant	546	492	164	D	gaT/gaC	.	.	.	1	AHCYL2	HGNC	22204	protein_coding	YES	CCDS5812.1	ENSP00000315931	SAHH3_HUMAN	.	UPI00001354E4	.	.	.	3/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23420:SF2,hmmpanther:PTHR23420	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGATAGCTC	.	5	BLCA
LRGUK	0	.	GRCh37	7	133906656	133906656	+	Frame_Shift_Del	DEL	A	A	-	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1975delA	p.Thr659HisfsTer19	p.T659Hfs*19	ENST00000285928	16/20	64	52	12	62	62	0	LRGUK,frameshift_variant,p.Thr659HisfsTer19,ENST00000285928,;	-	ENSG00000155530	ENST00000285928	Transcript	frameshift_variant	2038	1969	657	K/X	Aaa/aa	COSM1448180	.	.	1	LRGUK	HGNC	21964	protein_coding	YES	CCDS5830.1	ENSP00000285928	LRGUK_HUMAN	.	UPI0000072C76	.	.	.	16/20	.	hmmpanther:PTHR10588,hmmpanther:PTHR10588:SF35	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	deletion	.	6	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TCAGCCAAAAAA	.	3	BLCA
ZC3HAV1	0	.	GRCh37	7	138764842	138764842	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.845G>T	p.Arg282Met	p.R282M	ENST00000242351	4/13	128	99	29	173	173	0	ZC3HAV1,missense_variant,p.Arg282Met,ENST00000471652,;ZC3HAV1,missense_variant,p.Arg282Met,ENST00000464606,;ZC3HAV1,missense_variant,p.Arg282Met,ENST00000242351,;ZC3HAV1,upstream_gene_variant,,ENST00000460845,;	A	ENSG00000105939	ENST00000242351	Transcript	missense_variant	1162	845	282	R/M	aGg/aTg	.	.	.	-1	ZC3HAV1	HGNC	23721	protein_coding	YES	CCDS5851.1	ENSP00000242351	ZCCHV_HUMAN	.	UPI00001612AE	.	tolerated(0.07)	probably_damaging(0.962)	4/13	.	hmmpanther:PTHR14453,hmmpanther:PTHR14453:SF49	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCCCTGTGG	.	5	BLCA
KEL	0	.	GRCh37	7	142658955	142658955	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8G>A	p.Gly3Asp	p.G3D	ENST00000355265	2/19	134	106	28	216	216	0	KEL,missense_variant,p.Gly3Asp,ENST00000476829,;KEL,missense_variant,p.Gly14Asp,ENST00000460479,;KEL,missense_variant,p.Gly3Asp,ENST00000355265,;KEL,splice_region_variant,,ENST00000467543,;KEL,non_coding_transcript_exon_variant,,ENST00000479768,;KEL,upstream_gene_variant,,ENST00000494148,;	T	ENSG00000197993	ENST00000355265	Transcript	missense_variant	483	8	3	G/D	gGt/gAt	.	.	.	-1	KEL	HGNC	6308	protein_coding	YES	CCDS34766.1	ENSP00000347409	KELL_HUMAN	Q0KH97_HUMAN,Q0KH93_HUMAN,Q0KH89_HUMAN,Q0KH87_HUMAN,Q0KH86_HUMAN,Q0KH85_HUMAN,Q0KH84_HUMAN,Q0KH83_HUMAN,Q09GN6_HUMAN,Q06AK5_HUMAN,E7ETW3_HUMAN,A8YPS5_HUMAN,A3F6J8_HUMAN	UPI000000D923	.	deleterious_low_confidence(0.03)	benign(0.053)	2/19	.	hmmpanther:PTHR11733,hmmpanther:PTHR11733:SF101	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCACCTTCC	.	5	BLCA
CASP2	0	.	GRCh37	7	143000971	143000971	+	Silent	SNP	G	G	A	rs561597102	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1062G>A	p.%3D	p.P354P	ENST00000310447	9/11	18	14	4	19	19	0	CASP2,synonymous_variant,p.%3D,ENST00000310447,;CASP2,non_coding_transcript_exon_variant,,ENST00000493642,;CASP2,3_prime_UTR_variant,,ENST00000350623,;CASP2,non_coding_transcript_exon_variant,,ENST00000472067,;	A	ENSG00000106144	ENST00000310447	Transcript	synonymous_variant	1303	1062	354	P	ccG/ccA	rs561597102,COSM1448827	.	.	1	CASP2	HGNC	1503	protein_coding	YES	CCDS5879.1	ENSP00000312664	CASP2_HUMAN	B4E0I5_HUMAN	UPI000020F1E8	.	.	.	9/11	.	PROSITE_profiles:PS50207,hmmpanther:PTHR10454,hmmpanther:PTHR10454:SF129,Gene3D:3.40.50.1460,Pfam_domain:PF00656,SMART_domains:SM00115,PIRSF_domain:PIRSF038001,Superfamily_domains:SSF52129	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCCGAAGAT	by1000G	2	BLCA
REPIN1	0	.	GRCh37	7	150070038	150070038	+	3'Flank	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000489432	.	22	19	3	31	31	0	REPIN1,3_prime_UTR_variant,,ENST00000425389,;REPIN1,3_prime_UTR_variant,,ENST00000397281,;REPIN1,3_prime_UTR_variant,,ENST00000540729,;REPIN1,3_prime_UTR_variant,,ENST00000444957,;REPIN1,3_prime_UTR_variant,,ENST00000479668,;ZNF775,intron_variant,,ENST00000478789,;REPIN1,downstream_gene_variant,,ENST00000488943,;REPIN1,downstream_gene_variant,,ENST00000489432,;REPIN1,downstream_gene_variant,,ENST00000482680,;REPIN1,downstream_gene_variant,,ENST00000466559,;REPIN1,downstream_gene_variant,,ENST00000475514,;REPIN1,downstream_gene_variant,,ENST00000519397,;REPIN1,downstream_gene_variant,,ENST00000518514,;RP4-584D14.5,upstream_gene_variant,,ENST00000488310,;REPIN1,downstream_gene_variant,,ENST00000518462,;REPIN1,downstream_gene_variant,,ENST00000487455,;REPIN1,downstream_gene_variant,,ENST00000469309,;REPIN1,downstream_gene_variant,,ENST00000486714,;REPIN1,downstream_gene_variant,,ENST00000522266,;REPIN1,downstream_gene_variant,,ENST00000495535,;REPIN1,downstream_gene_variant,,ENST00000467980,;REPIN1,downstream_gene_variant,,ENST00000473391,;	A	ENSG00000214022	ENST00000489432	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	4	1	REPIN1	HGNC	17922	protein_coding	YES	CCDS47745.1	ENSP00000417291	.	E7EVL6_HUMAN,C9J3L7_HUMAN	UPI0001596898	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GAGACGGTGGG	.	2	BLCA
ABCB8	0	.	GRCh37	7	150730953	150730953	+	Silent	SNP	C	C	A	rs771241217	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.357C>A	p.%3D	p.L119L	ENST00000358849	2/16	61	54	7	75	75	0	ABCB8,synonymous_variant,p.%3D,ENST00000356058,;ABCB8,synonymous_variant,p.%3D,ENST00000297504,;ABCB8,synonymous_variant,p.%3D,ENST00000498578,;ABCB8,synonymous_variant,p.%3D,ENST00000358849,;ABCB8,synonymous_variant,p.%3D,ENST00000477092,;ABCB8,synonymous_variant,p.%3D,ENST00000477719,;ABCB8,intron_variant,,ENST00000542328,;ABCB8,upstream_gene_variant,,ENST00000491920,;ABCB8,downstream_gene_variant,,ENST00000461373,;RP11-148K1.10,upstream_gene_variant,,ENST00000479085,;ABCB8,non_coding_transcript_exon_variant,,ENST00000493338,;ABCB8,intron_variant,,ENST00000466956,;ABCB8,downstream_gene_variant,,ENST00000469410,;ABCB8,downstream_gene_variant,,ENST00000472698,;ABCB8,downstream_gene_variant,,ENST00000488370,;ABCB8,downstream_gene_variant,,ENST00000471796,;ABCB8,downstream_gene_variant,,ENST00000488826,;ABCB8,3_prime_UTR_variant,,ENST00000489192,;ABCB8,intron_variant,,ENST00000488551,;ABCB8,intron_variant,,ENST00000470645,;ABCB8,intron_variant,,ENST00000466514,;ABCB8,intron_variant,,ENST00000482309,;ABCB8,upstream_gene_variant,,ENST00000482899,;ABCB8,downstream_gene_variant,,ENST00000462605,;	A	ENSG00000197150	ENST00000358849	Transcript	synonymous_variant	450	357	119	L	ctC/ctA	rs771241217	.	.	1	ABCB8	HGNC	49	protein_coding	YES	CCDS5913.1	ENSP00000351717	ABCB8_HUMAN	B3KSN3_HUMAN,B3KND2_HUMAN	UPI000013E41B	.	.	.	2/16	.	Superfamily_domains:SSF90123,Gene3D:2hydA01,hmmpanther:PTHR24221:SF167,hmmpanther:PTHR24221	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAGCTCTTCTG	.	4	BLCA
PTPRN2	0	.	GRCh37	7	157370773	157370773	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2556C>T	p.%3D	p.G852G	ENST00000389418	18/23	40	28	11	71	71	0	PTPRN2,synonymous_variant,p.%3D,ENST00000409483,;PTPRN2,synonymous_variant,p.%3D,ENST00000389416,;PTPRN2,synonymous_variant,p.%3D,ENST00000404321,;PTPRN2,synonymous_variant,p.%3D,ENST00000389418,;PTPRN2,synonymous_variant,p.%3D,ENST00000389413,;MIR153-2,upstream_gene_variant,,ENST00000385225,;	A	ENSG00000155093	ENST00000389418	Transcript	synonymous_variant	2566	2556	852	G	ggC/ggT	.	.	.	-1	PTPRN2	HGNC	9677	protein_coding	YES	CCDS5947.1	ENSP00000374069	PTPR2_HUMAN	Q9NSR5_HUMAN	UPI000002E7C7	.	.	.	18/23	.	PROSITE_profiles:PS50055,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF2,Pfam_domain:PF00102,Gene3D:3.90.190.10,SMART_domains:SM00194,Superfamily_domains:SSF52799	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGACGCCGTT	.	5	BLCA
SP8	0	.	GRCh37	7	20824294	20824294	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1142G>A	p.Cys381Tyr	p.C381Y	ENST00000418710	2/2	29	24	5	30	30	0	SP8,missense_variant,p.Cys381Tyr,ENST00000418710,;SP8,missense_variant,p.Cys363Tyr,ENST00000361443,;	T	ENSG00000164651	ENST00000418710	Transcript	missense_variant	1230	1142	381	C/Y	tGc/tAc	.	.	.	-1	SP8	HGNC	19196	protein_coding	YES	CCDS43555.1	ENSP00000408792	SP8_HUMAN	.	UPI00001AADF2	.	deleterious(0)	probably_damaging(0.999)	2/2	.	PROSITE_profiles:PS50157,hmmpanther:PTHR23223,hmmpanther:PTHR23223:SF134,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,SMART_domains:SM00355	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	TGCCGCAGCCC	.	3	BLCA
CREB5	0	.	GRCh37	7	28848874	28848874	+	Missense_Mutation	SNP	G	G	A	rs376502932	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1097G>A	p.Arg366Gln	p.R366Q	ENST00000357727	9/11	70	59	11	71	71	0	CREB5,missense_variant,p.Arg192Gln,ENST00000426500,;CREB5,missense_variant,p.Arg333Gln,ENST00000409603,;CREB5,missense_variant,p.Arg227Gln,ENST00000396298,;CREB5,missense_variant,p.Arg366Gln,ENST00000357727,;CREB5,missense_variant,p.Arg333Gln,ENST00000396299,;CREB5,missense_variant,p.Arg359Gln,ENST00000396300,;CREB5,upstream_gene_variant,,ENST00000498316,;	A	ENSG00000146592	ENST00000357727	Transcript	missense_variant	1487	1097	366	R/Q	cGg/cAg	rs376502932	.	.	1	CREB5	HGNC	16844	protein_coding	YES	CCDS5417.1	ENSP00000350359	CREB5_HUMAN	H9KVC5_HUMAN,C9JN33_HUMAN	UPI0000457534	.	deleterious(0)	unknown(0)	9/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR19304:SF8,hmmpanther:PTHR19304,PIRSF_domain:PIRSF003153	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCCGGCGAA	byCluster	5	BLCA
MTURN	0	.	GRCh37	7	30197143	30197143	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.375G>C	p.Gln125His	p.Q125H	ENST00000324453	3/3	99	79	20	160	160	0	MTURN,missense_variant,p.Gln92His,ENST00000455738,;MTURN,missense_variant,p.Gln125His,ENST00000324453,;MTURN,missense_variant,p.Gln92His,ENST00000324489,;MTURN,missense_variant,p.Gln125His,ENST00000415604,;MTURN,missense_variant,p.Gln84His,ENST00000409688,;AC007036.5,upstream_gene_variant,,ENST00000511893,;	C	ENSG00000180354	ENST00000324453	Transcript	missense_variant	702	375	125	Q/H	caG/caC	COSM159660	.	.	1	MTURN	HGNC	25457	protein_coding	YES	CCDS5425.2	ENSP00000324204	CG041_HUMAN	B4DH90_HUMAN	UPI0000073903	.	deleterious_low_confidence(0)	probably_damaging(0.986)	3/3	.	Pfam_domain:PF15167,hmmpanther:PTHR32008	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCAGATGGG	.	5	BLCA
BBS9	0	.	GRCh37	7	33545228	33545228	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2269C>G	p.Leu757Val	p.L757V	ENST00000242067	20/23	44	33	11	73	73	0	BBS9,missense_variant,p.Leu757Val,ENST00000242067,;BBS9,missense_variant,p.Leu324Val,ENST00000434373,;BBS9,missense_variant,p.Leu717Val,ENST00000350941,;BBS9,missense_variant,p.Leu722Val,ENST00000396127,;BBS9,missense_variant,p.Leu752Val,ENST00000355070,;BBS9,missense_variant,p.Leu722Val,ENST00000354265,;BBS9,non_coding_transcript_exon_variant,,ENST00000489708,;BBS9,3_prime_UTR_variant,,ENST00000433714,;BBS9,non_coding_transcript_exon_variant,,ENST00000495426,;	G	ENSG00000122507	ENST00000242067	Transcript	missense_variant	2790	2269	757	L/V	Ctg/Gtg	COSM3778410,COSM600881,COSM600880,COSM3778409,COSM3778411	.	.	1	BBS9	HGNC	30000	protein_coding	YES	CCDS43566.1	ENSP00000242067	PTHB1_HUMAN	C9JRR5_HUMAN,C9JJ08_HUMAN	UPI000020ED57	.	tolerated(0.38)	possibly_damaging(0.712)	20/23	.	Pfam_domain:PF14728,hmmpanther:PTHR20991:SF0,hmmpanther:PTHR20991	.	.	.	.	.	.	.	.	.	.	1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATTTCTGCCG	.	5	BLCA
BMPER	0	.	GRCh37	7	34192804	34192804	+	Silent	SNP	C	C	T	rs766776338	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1977C>T	p.%3D	p.C659C	ENST00000297161	16/16	107	84	23	140	140	0	BMPER,synonymous_variant,p.%3D,ENST00000297161,;BMPER,synonymous_variant,p.%3D,ENST00000426693,;	T	ENSG00000164619	ENST00000297161	Transcript	synonymous_variant	2351	1977	659	C	tgC/tgT	rs766776338	.	.	1	BMPER	HGNC	24154	protein_coding	YES	CCDS5442.1	ENSP00000297161	BMPER_HUMAN	.	UPI000006D462	.	.	.	16/16	.	hmmpanther:PTHR11339:SF254,hmmpanther:PTHR11339,Gene3D:2.10.25.10,Pfam_domain:PF01826,Superfamily_domains:SSF57567	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCGTGCGTTGC	byFrequency	5	BLCA
NPC1L1	0	.	GRCh37	7	44578734	44578734	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1262G>T	p.Arg421Met	p.R421M	ENST00000289547	2/20	67	56	11	120	120	0	NPC1L1,missense_variant,p.Arg421Met,ENST00000546276,;NPC1L1,missense_variant,p.Arg421Met,ENST00000381160,;NPC1L1,missense_variant,p.Arg421Met,ENST00000423141,;NPC1L1,missense_variant,p.Arg421Met,ENST00000289547,;	A	ENSG00000015520	ENST00000289547	Transcript	missense_variant	1318	1262	421	R/M	aGg/aTg	.	.	.	-1	NPC1L1	HGNC	7898	protein_coding	YES	CCDS5491.1	ENSP00000289547	NPCL1_HUMAN	.	UPI000013DF88	.	tolerated(0.13)	benign(0.007)	2/20	.	hmmpanther:PTHR10796,hmmpanther:PTHR10796:SF89	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CATACCTGTAG	.	5	BLCA
TNS3	0	.	GRCh37	7	47408207	47408207	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2036G>A	p.Gly679Asp	p.G679D	ENST00000398879	17/31	225	197	28	300	300	0	TNS3,missense_variant,p.Gly679Asp,ENST00000398879,;TNS3,missense_variant,p.Gly679Asp,ENST00000311160,;TNS3,missense_variant,p.Gly782Asp,ENST00000457718,;TNS3,missense_variant,p.Gly439Asp,ENST00000355730,;TNS3,downstream_gene_variant,,ENST00000450444,;TNS3,downstream_gene_variant,,ENST00000469470,;	T	ENSG00000136205	ENST00000398879	Transcript	missense_variant	2403	2036	679	G/D	gGc/gAc	.	.	.	-1	TNS3	HGNC	21616	protein_coding	YES	CCDS5506.2	ENSP00000381854	TENS3_HUMAN	C9JWN9_HUMAN,C9JTD0_HUMAN	UPI00001AE9DA	.	tolerated(1)	benign(0.003)	17/31	.	hmmpanther:PTHR12305:SF41,hmmpanther:PTHR12305	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGGGCCGGCT	.	4	BLCA
AP5Z1	0	.	GRCh37	7	4825973	4825973	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1225G>A	p.Glu409Lys	p.E409K	ENST00000348624	10/17	138	108	30	167	167	0	AP5Z1,missense_variant,p.Glu409Lys,ENST00000348624,;AP5Z1,missense_variant,p.Glu409Lys,ENST00000401897,;MIR4656,downstream_gene_variant,,ENST00000579503,;AP5Z1,upstream_gene_variant,,ENST00000490487,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000477680,;AP5Z1,non_coding_transcript_exon_variant,,ENST00000496303,;AP5Z1,upstream_gene_variant,,ENST00000477454,;AP5Z1,downstream_gene_variant,,ENST00000491375,;AP5Z1,upstream_gene_variant,,ENST00000469614,;	A	ENSG00000242802	ENST00000348624	Transcript	missense_variant	1319	1225	409	E/K	Gaa/Aaa	.	.	.	1	AP5Z1	HGNC	22197	protein_coding	YES	CCDS47528.1	ENSP00000297562	AP5Z1_HUMAN	A4D1Z4_HUMAN	UPI00003E5903	.	deleterious(0)	probably_damaging(0.947)	10/17	.	hmmpanther:PTHR12181:SF29,hmmpanther:PTHR12181,Pfam_domain:PF14764	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTTTGAATTC	.	5	BLCA
ABCA13	0	.	GRCh37	7	48314884	48314884	+	Nonsense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5621C>G	p.Ser1874Ter	p.S1874*	ENST00000435803	17/62	50	45	5	54	54	0	ABCA13,stop_gained,p.Ser1874Ter,ENST00000435803,;ABCA13,downstream_gene_variant,,ENST00000417403,;	G	ENSG00000179869	ENST00000435803	Transcript	stop_gained	5645	5621	1874	S/*	tCa/tGa	COSM601428,COSM601427	.	.	1	ABCA13	HGNC	14638	protein_coding	YES	CCDS47584.1	ENSP00000411096	ABCAD_HUMAN	.	UPI00001A95EA	.	.	.	17/62	.	hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF113	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGTTCAAATG	.	4	BLCA
COBL	0	.	GRCh37	7	51111333	51111333	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1153C>T	p.%3D	p.L385L	ENST00000265136	8/13	46	38	8	56	56	0	COBL,synonymous_variant,p.%3D,ENST00000452534,;COBL,synonymous_variant,p.%3D,ENST00000431948,;COBL,synonymous_variant,p.%3D,ENST00000265136,;COBL,synonymous_variant,p.%3D,ENST00000395542,;COBL,synonymous_variant,p.%3D,ENST00000445054,;	A	ENSG00000106078	ENST00000265136	Transcript	synonymous_variant	1319	1153	385	L	Ctg/Ttg	.	.	.	-1	COBL	HGNC	22199	protein_coding	YES	CCDS34637.1	ENSP00000265136	COBL_HUMAN	C9J9X1_HUMAN	UPI00001A9480	.	.	.	8/13	.	hmmpanther:PTHR21557,hmmpanther:PTHR21557:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TGACAGCACCT	.	5	BLCA
PSPH	0	.	GRCh37	7	56079471	56079471	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.662G>C	p.Gly221Ala	p.G221A	ENST00000395471	8/8	63	58	5	62	62	0	PSPH,missense_variant,p.Gly221Ala,ENST00000275605,;PSPH,missense_variant,p.Gly221Ala,ENST00000395471,;PSPH,downstream_gene_variant,,ENST00000421626,;PSPH,non_coding_transcript_exon_variant,,ENST00000459834,;PSPH,missense_variant,p.Gly221Ala,ENST00000437355,;	G	ENSG00000146733	ENST00000395471	Transcript	missense_variant	1468	662	221	G/A	gGa/gCa	.	.	.	-1	PSPH	HGNC	9577	protein_coding	YES	CCDS5522.1	ENSP00000378854	SERB_HUMAN	C9JEJ7_HUMAN,C9JBI3_HUMAN	UPI000013DA6D	.	tolerated(0.52)	benign(0.003)	8/8	.	Gene3D:3.40.50.1000,Superfamily_domains:SSF56784	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GTTCTCCCAGC	.	2	BLCA
RNF216	0	.	GRCh37	7	5780604	5780604	+	Silent	SNP	C	C	A	rs754494362	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044G>T	p.%3D	p.T348T	ENST00000389902	4/17	79	67	11	75	75	0	RNF216,synonymous_variant,p.%3D,ENST00000389902,;RNF216,synonymous_variant,p.%3D,ENST00000425013,;RNF216,synonymous_variant,p.%3D,ENST00000389900,;RNF216,upstream_gene_variant,,ENST00000479541,;RNF216,downstream_gene_variant,,ENST00000411812,;	A	ENSG00000011275	ENST00000389902	Transcript	synonymous_variant	1312	1044	348	T	acG/acT	rs754494362,COSM1451675	.	.	-1	RNF216	HGNC	21698	protein_coding	YES	CCDS34594.1	ENSP00000374552	RN216_HUMAN	C9JIV3_HUMAN	UPI000013F5B3	.	.	.	4/17	.	hmmpanther:PTHR22770:SF13,hmmpanther:PTHR22770	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTACCGTTTC	.	4	BLCA
GRM3	0	.	GRCh37	7	86394431	86394431	+	5'UTR	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-31G>C	.	.	ENST00000361669	2/6	91	81	10	100	100	0	GRM3,5_prime_UTR_variant,,ENST00000439827,;GRM3,5_prime_UTR_variant,,ENST00000441140,;GRM3,5_prime_UTR_variant,,ENST00000421579,;GRM3,5_prime_UTR_variant,,ENST00000361669,;GRM3,5_prime_UTR_variant,,ENST00000394720,;GRM3,intron_variant,,ENST00000536043,;GRM3,intron_variant,,ENST00000454217,;GRM3,intron_variant,,ENST00000546348,;	C	ENSG00000198822	ENST00000361669	Transcript	5_prime_UTR_variant	1069	.	.	.	.	.	.	.	1	GRM3	HGNC	4595	protein_coding	YES	CCDS5600.1	ENSP00000355316	GRM3_HUMAN	C9JUH9_HUMAN,C9JIT1_HUMAN,A4D1D0_HUMAN	UPI0000153EFC	.	.	.	2/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CCATTGATATC	.	3	BLCA
MTERF	0	.	GRCh37	7	91503744	91503744	+	Missense_Mutation	SNP	C	C	T	rs201335490	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.364G>A	p.Ala122Thr	p.A122T	ENST00000351870	3/3	114	98	16	170	168	2	MTERF,missense_variant,p.Ala102Thr,ENST00000419292,;MTERF,missense_variant,p.Ala102Thr,ENST00000456229,;MTERF,missense_variant,p.Ala122Thr,ENST00000351870,;MTERF,missense_variant,p.Ala102Thr,ENST00000406735,;MTERF,missense_variant,p.Ala122Thr,ENST00000442961,;MTERF,downstream_gene_variant,,ENST00000425936,;MTERF,intron_variant,,ENST00000454222,;MTERF,downstream_gene_variant,,ENST00000481516,;	T	ENSG00000127989	ENST00000351870	Transcript	missense_variant	458	364	122	A/T	Gct/Act	rs201335490	.	.	-1	MTERF	HGNC	21463	protein_coding	YES	CCDS5621.1	ENSP00000248643	MTERF_HUMAN	C9JU79_HUMAN,C9JNM8_HUMAN,C9JE25_HUMAN,B4DPR9_HUMAN	UPI000004A0C8	.	deleterious(0)	probably_damaging(0.971)	3/3	.	SMART_domains:SM00733,Pfam_domain:PF02536,hmmpanther:PTHR15437:SF2,hmmpanther:PTHR15437	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	GCTAGCGATCA	byCluster|by1000G	2	BLCA
ANKIB1	0	.	GRCh37	7	91936755	91936755	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.271C>T	p.Gln91Ter	p.Q91*	ENST00000265742	3/20	48	39	9	76	76	0	ANKIB1,stop_gained,p.Gln91Ter,ENST00000442183,;ANKIB1,stop_gained,p.Gln91Ter,ENST00000265742,;ANKIB1,stop_gained,p.Gln29Ter,ENST00000439883,;	T	ENSG00000001629	ENST00000265742	Transcript	stop_gained	647	271	91	Q/*	Caa/Taa	.	.	.	1	ANKIB1	HGNC	22215	protein_coding	YES	CCDS47639.1	ENSP00000265742	AKIB1_HUMAN	Q4VBX8_HUMAN,C9JZ63_HUMAN	UPI00001C1E7C	.	.	.	3/20	.	PROSITE_profiles:PS50297,hmmpanther:PTHR11685:SF95,hmmpanther:PTHR11685,Gene3D:1.25.40.20,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCAAATT	.	5	BLCA
TRIM4	0	.	GRCh37	7	99490167	99490167	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1122T>C	p.%3D	p.V374V	ENST00000355947	7/7	109	86	23	153	153	0	TRIM4,synonymous_variant,p.%3D,ENST00000349062,;TRIM4,synonymous_variant,p.%3D,ENST00000355947,;TRIM4,intron_variant,,ENST00000447480,;	G	ENSG00000146833	ENST00000355947	Transcript	synonymous_variant	1252	1122	374	V	gtT/gtC	.	.	.	-1	TRIM4	HGNC	16275	protein_coding	YES	CCDS5679.1	ENSP00000348216	TRIM4_HUMAN	B4DEC5_HUMAN	UPI000013DA79	.	.	.	7/7	.	PROSITE_profiles:PS50188,hmmpanther:PTHR24103:SF91,hmmpanther:PTHR24103,Superfamily_domains:SSF49899	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGAAAACGTT	.	5	BLCA
DPYS	0	.	GRCh37	8	105441885	105441885	+	Missense_Mutation	SNP	C	C	A	rs767616649	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.838G>T	p.Asp280Tyr	p.D280Y	ENST00000351513	5/10	96	89	7	114	114	0	DPYS,missense_variant,p.Asp280Tyr,ENST00000351513,;AP003471.2,downstream_gene_variant,,ENST00000410226,;DPYS,non_coding_transcript_exon_variant,,ENST00000519217,;	A	ENSG00000147647	ENST00000351513	Transcript	missense_variant	971	838	280	D/Y	Gat/Tat	rs767616649	.	.	-1	DPYS	HGNC	3013	protein_coding	YES	CCDS6302.1	ENSP00000276651	DPYS_HUMAN	.	UPI000012986F	.	deleterious(0)	probably_damaging(1)	5/10	.	hmmpanther:PTHR11647:SF50,hmmpanther:PTHR11647,Pfam_domain:PF01979,Gene3D:3.20.20.140,TIGRFAM_domain:TIGR02033,Superfamily_domains:SSF51556	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	GCCATCTGTGC	.	2	BLCA
OXR1	0	.	GRCh37	8	107718944	107718944	+	Missense_Mutation	SNP	G	G	C	rs772215197	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1198G>C	p.Glu400Gln	p.E400Q	ENST00000442977	8/16	72	64	8	66	65	0	OXR1,missense_variant,p.Glu332Gln,ENST00000497705,;OXR1,missense_variant,p.Glu400Gln,ENST00000442977,;OXR1,missense_variant,p.Glu392Gln,ENST00000312046,;OXR1,missense_variant,p.Glu113Gln,ENST00000519415,;OXR1,missense_variant,p.Glu399Gln,ENST00000445937,;OXR1,missense_variant,p.Glu399Gln,ENST00000531443,;OXR1,missense_variant,p.Glu399Gln,ENST00000517566,;OXR1,5_prime_UTR_variant,,ENST00000452423,;OXR1,downstream_gene_variant,,ENST00000517455,;OXR1,3_prime_UTR_variant,,ENST00000438229,;OXR1,intron_variant,,ENST00000435082,;	C	ENSG00000164830	ENST00000442977	Transcript	missense_variant	1297	1198	400	E/Q	Gaa/Caa	rs772215197	.	.	1	OXR1	HGNC	15822	protein_coding	YES	CCDS56548.1	ENSP00000405424	OXR1_HUMAN	E9PLW2_HUMAN	UPI0001914BEA	.	tolerated(0.44)	benign(0.282)	8/16	.	hmmpanther:PTHR23354:SF69,hmmpanther:PTHR23354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATACTGAACAT	.	4	BLCA
FAM83A	0	.	GRCh37	8	124195347	124195347	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.251C>A	p.Thr84Asn	p.T84N	ENST00000518448	2/5	73	69	4	58	58	0	FAM83A,missense_variant,p.Thr84Asn,ENST00000522648,;FAM83A,missense_variant,p.Thr84Asn,ENST00000518448,;FAM83A,missense_variant,p.Thr84Asn,ENST00000536633,;FAM83A,missense_variant,p.Thr84Asn,ENST00000276699,;FAM83A,missense_variant,p.Thr84Asn,ENST00000546351,;FAM83A,missense_variant,p.Thr84Asn,ENST00000318462,;U3,upstream_gene_variant,,ENST00000408534,;RP11-539E17.5,upstream_gene_variant,,ENST00000522383,;FAM83A,downstream_gene_variant,,ENST00000523412,;FAM83A,upstream_gene_variant,,ENST00000521468,;FAM83A,downstream_gene_variant,,ENST00000523819,;FAM83A,downstream_gene_variant,,ENST00000520541,;	A	ENSG00000147689	ENST00000518448	Transcript	missense_variant	2265	251	84	T/N	aCc/aAc	.	.	.	1	FAM83A	HGNC	28210	protein_coding	YES	CCDS6340.1	ENSP00000428876	FA83A_HUMAN	.	UPI000019275C	.	tolerated(0.36)	benign(0.079)	2/5	.	hmmpanther:PTHR16181,hmmpanther:PTHR16181:SF1,Pfam_domain:PF07894	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGACACCCTGG	.	2	BLCA
MTSS1	0	.	GRCh37	8	125575163	125575163	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.895T>C	p.Tyr299His	p.Y299H	ENST00000518547	10/14	26	21	5	12	12	0	MTSS1,missense_variant,p.Tyr99His,ENST00000522118,;MTSS1,missense_variant,p.Tyr33His,ENST00000395508,;MTSS1,missense_variant,p.Tyr147His,ENST00000523179,;MTSS1,missense_variant,p.Tyr189His,ENST00000524090,;MTSS1,missense_variant,p.Tyr299His,ENST00000518547,;MTSS1,missense_variant,p.Tyr299His,ENST00000378017,;MTSS1,missense_variant,p.Tyr99His,ENST00000354184,;MTSS1,missense_variant,p.Tyr47His,ENST00000519168,;MTSS1,missense_variant,p.Tyr99His,ENST00000431961,;MTSS1,missense_variant,p.Tyr303His,ENST00000325064,;NDUFB9,intron_variant,,ENST00000522532,;MTSS1,non_coding_transcript_exon_variant,,ENST00000523587,;MTSS1,non_coding_transcript_exon_variant,,ENST00000522722,;MTSS1,upstream_gene_variant,,ENST00000520094,;MTSS1,downstream_gene_variant,,ENST00000519226,;	G	ENSG00000170873	ENST00000518547	Transcript	missense_variant	1369	895	299	Y/H	Tac/Cac	.	.	.	-1	MTSS1	HGNC	20443	protein_coding	YES	CCDS6353.1	ENSP00000429064	MTSS1_HUMAN	E5RJX3_HUMAN	UPI000019B3D8	.	tolerated(0.42)	probably_damaging(0.987)	10/14	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15708,hmmpanther:PTHR15708:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGGTAATGTG	.	5	BLCA
DLC1	0	.	GRCh37	8	12946095	12946095	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4193A>G	p.Asp1398Gly	p.D1398G	ENST00000276297	16/18	107	81	26	173	173	0	DLC1,missense_variant,p.Asp961Gly,ENST00000358919,;DLC1,missense_variant,p.Asp887Gly,ENST00000520226,;DLC1,missense_variant,p.Asp995Gly,ENST00000512044,;DLC1,missense_variant,p.Asp1398Gly,ENST00000276297,;DLC1,non_coding_transcript_exon_variant,,ENST00000510318,;DLC1,non_coding_transcript_exon_variant,,ENST00000521730,;	C	ENSG00000164741	ENST00000276297	Transcript	missense_variant	4603	4193	1398	D/G	gAt/gGt	.	.	.	-1	DLC1	HGNC	2897	protein_coding	YES	CCDS5989.1	ENSP00000276297	RHG07_HUMAN	.	UPI0000210275	.	deleterious(0.02)	probably_damaging(0.917)	16/18	.	PROSITE_profiles:PS50848,hmmpanther:PTHR12659,hmmpanther:PTHR12659:SF2,Pfam_domain:PF01852,Gene3D:3.30.530.20,SMART_domains:SM00234,Superfamily_domains:SSF55961	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTGAATCCAAC	.	5	BLCA
EFR3A	0	.	GRCh37	8	132982802	132982802	+	Frame_Shift_Del	DEL	G	G	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1076delG	p.Gly359AspfsTer3	p.G359Dfs*3	ENST00000254624	10/23	105	86	19	89	89	0	EFR3A,frameshift_variant,p.Gly359AspfsTer3,ENST00000254624,;EFR3A,frameshift_variant,p.Gly323AspfsTer3,ENST00000519656,;EFR3A,frameshift_variant,p.Gly359AspfsTer3,ENST00000334503,;	-	ENSG00000132294	ENST00000254624	Transcript	frameshift_variant	1296	1071	357	Q/X	caG/ca	.	.	.	1	EFR3A	HGNC	28970	protein_coding	YES	CCDS34942.2	ENSP00000254624	EFR3A_HUMAN	E5RJS1_HUMAN,B4DZ89_HUMAN	UPI00001C1E8F	.	.	.	10/23	.	hmmpanther:PTHR12444,hmmpanther:PTHR12444:SF1,Gene3D:1.25.10.10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TTTACAGGGGGG	.	3	BLCA
EFR3A	0	.	GRCh37	8	132991142	132991142	+	Missense_Mutation	SNP	T	T	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1375T>G	p.Ser459Ala	p.S459A	ENST00000254624	13/23	66	56	10	84	84	0	EFR3A,missense_variant,p.Ser459Ala,ENST00000254624,;EFR3A,missense_variant,p.Ser423Ala,ENST00000519656,;EFR3A,missense_variant,p.Ser459Ala,ENST00000334503,;	G	ENSG00000132294	ENST00000254624	Transcript	missense_variant	1600	1375	459	S/A	Tct/Gct	.	.	.	1	EFR3A	HGNC	28970	protein_coding	YES	CCDS34942.2	ENSP00000254624	EFR3A_HUMAN	E5RJS1_HUMAN,B4DZ89_HUMAN	UPI00001C1E8F	.	tolerated(0.27)	benign(0.004)	13/23	.	hmmpanther:PTHR12444,hmmpanther:PTHR12444:SF1,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAGGGTCTTTC	.	5	BLCA
AGO2	0	.	GRCh37	8	141559307	141559307	+	Silent	SNP	C	C	T	rs779866243	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1494G>A	p.%3D	p.A498A	ENST00000220592	12/19	40	35	5	30	30	0	AGO2,synonymous_variant,p.%3D,ENST00000519980,;AGO2,synonymous_variant,p.%3D,ENST00000220592,;AGO2,3_prime_UTR_variant,,ENST00000523609,;	T	ENSG00000123908	ENST00000220592	Transcript	synonymous_variant	1607	1494	498	A	gcG/gcA	rs779866243	.	.	-1	AGO2	HGNC	3263	protein_coding	YES	CCDS6380.1	ENSP00000220592	AGO2_HUMAN	E5RJY2_HUMAN	UPI0000168652	.	.	.	12/19	.	Gene3D:3.40.50.2300,hmmpanther:PTHR22891,hmmpanther:PTHR22891:SF18,HAMAP:MF_03031	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGTCCGCCCC	byFrequency	3	BLCA
MROH6	0	.	GRCh37	8	144654243	144654243	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.407C>T	p.Ser136Phe	p.S136F	ENST00000398882	2/14	26	22	4	32	32	0	MROH6,missense_variant,p.Ser136Phe,ENST00000529971,;MROH6,missense_variant,p.Ser136Phe,ENST00000398882,;NAPRT1,downstream_gene_variant,,ENST00000435154,;MROH6,upstream_gene_variant,,ENST00000533679,;MROH6,upstream_gene_variant,,ENST00000532862,;NAPRT1,downstream_gene_variant,,ENST00000340490,;MROH6,upstream_gene_variant,,ENST00000524906,;NAPRT1,downstream_gene_variant,,ENST00000426292,;NAPRT1,downstream_gene_variant,,ENST00000449291,;NAPRT1,downstream_gene_variant,,ENST00000276844,;MROH6,upstream_gene_variant,,ENST00000534459,;RP11-661A12.9,upstream_gene_variant,,ENST00000531730,;MROH6,upstream_gene_variant,,ENST00000532704,;MROH6,upstream_gene_variant,,ENST00000533582,;NAPRT1,downstream_gene_variant,,ENST00000460623,;NAPRT1,downstream_gene_variant,,ENST00000532645,;NAPRT1,downstream_gene_variant,,ENST00000464332,;NAPRT1,downstream_gene_variant,,ENST00000498076,;MROH6,upstream_gene_variant,,ENST00000533083,;NAPRT1,downstream_gene_variant,,ENST00000529179,;MROH6,upstream_gene_variant,,ENST00000533120,;NAPRT1,downstream_gene_variant,,ENST00000488096,;NAPRT1,downstream_gene_variant,,ENST00000525583,;NAPRT1,downstream_gene_variant,,ENST00000491904,;MROH6,upstream_gene_variant,,ENST00000533210,;NAPRT1,downstream_gene_variant,,ENST00000480946,;	A	ENSG00000204839	ENST00000398882	Transcript	missense_variant	664	407	136	S/F	tCc/tTc	.	.	.	-1	MROH6	HGNC	27814	protein_coding	YES	CCDS47928.1	ENSP00000381857	MROH6_HUMAN	E9PJR4_HUMAN	UPI0000DD7EFB	.	deleterious(0)	possibly_damaging(0.898)	2/14	.	hmmpanther:PTHR23120,hmmpanther:PTHR23120:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGAGGACAGG	.	5	BLCA
EEF1D	0	.	GRCh37	8	144671271	144671271	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.981C>T	p.%3D	p.C327C	ENST00000423316	3/10	11	8	3	12	12	0	EEF1D,synonymous_variant,p.%3D,ENST00000423316,;EEF1D,synonymous_variant,p.%3D,ENST00000530616,;EEF1D,synonymous_variant,p.%3D,ENST00000532741,;EEF1D,synonymous_variant,p.%3D,ENST00000442189,;EEF1D,5_prime_UTR_variant,,ENST00000525223,;EEF1D,intron_variant,,ENST00000528610,;EEF1D,intron_variant,,ENST00000533749,;EEF1D,intron_variant,,ENST00000533494,;EEF1D,intron_variant,,ENST00000530191,;EEF1D,intron_variant,,ENST00000529272,;EEF1D,intron_variant,,ENST00000534380,;EEF1D,intron_variant,,ENST00000419152,;EEF1D,intron_variant,,ENST00000526838,;EEF1D,intron_variant,,ENST00000532400,;EEF1D,intron_variant,,ENST00000524624,;EEF1D,intron_variant,,ENST00000531218,;EEF1D,intron_variant,,ENST00000532543,;EEF1D,intron_variant,,ENST00000395119,;EEF1D,intron_variant,,ENST00000526340,;EEF1D,intron_variant,,ENST00000531931,;EEF1D,intron_variant,,ENST00000317198,;EEF1D,intron_variant,,ENST00000529516,;EEF1D,intron_variant,,ENST00000533204,;EEF1D,intron_variant,,ENST00000531621,;EEF1D,intron_variant,,ENST00000534377,;EEF1D,downstream_gene_variant,,ENST00000531670,;EEF1D,downstream_gene_variant,,ENST00000526135,;EEF1D,downstream_gene_variant,,ENST00000534804,;EEF1D,downstream_gene_variant,,ENST00000528303,;EEF1D,downstream_gene_variant,,ENST00000529832,;EEF1D,downstream_gene_variant,,ENST00000525261,;EEF1D,downstream_gene_variant,,ENST00000524883,;EEF1D,upstream_gene_variant,,ENST00000530445,;EEF1D,downstream_gene_variant,,ENST00000526133,;EEF1D,downstream_gene_variant,,ENST00000528519,;EEF1D,downstream_gene_variant,,ENST00000534475,;EEF1D,downstream_gene_variant,,ENST00000530545,;EEF1D,downstream_gene_variant,,ENST00000532596,;EEF1D,upstream_gene_variant,,ENST00000528382,;EEF1D,downstream_gene_variant,,ENST00000530306,;EEF1D,downstream_gene_variant,,ENST00000531281,;EEF1D,downstream_gene_variant,,ENST00000531953,;EEF1D,downstream_gene_variant,,ENST00000524900,;EEF1D,downstream_gene_variant,,ENST00000526710,;EEF1D,downstream_gene_variant,,ENST00000531770,;EEF1D,intron_variant,,ENST00000526786,;EEF1D,intron_variant,,ENST00000525695,;EEF1D,intron_variant,,ENST00000530848,;EEF1D,intron_variant,,ENST00000529007,;EEF1D,intron_variant,,ENST00000524397,;EEF1D,intron_variant,,ENST00000533833,;EEF1D,intron_variant,,ENST00000534232,;EEF1D,upstream_gene_variant,,ENST00000527741,;	A	ENSG00000104529	ENST00000423316	Transcript	synonymous_variant	1323	981	327	C	tgC/tgT	.	.	.	-1	EEF1D	HGNC	3211	protein_coding	YES	CCDS6404.1	ENSP00000410059	EF1D_HUMAN	E9PRL0_HUMAN,E9PQR8_HUMAN,E9PQC9_HUMAN,E9PQ49_HUMAN,E9PPY1_HUMAN,E9PPR1_HUMAN,E9PNW6_HUMAN,E9PNC8_HUMAN,E9PN71_HUMAN,E9PN56_HUMAN,E9PMW7_HUMAN,E9PM66_HUMAN,E9PLT8_HUMAN,E9PLS6_HUMAN,E9PLL8_HUMAN,E9PLA1_HUMAN,E9PL21_HUMAN,E9PL12_HUMAN,E9PKK3_HUMAN,E9PKH7_HUMAN,E9PK72_HUMAN,E9PK01_HUMAN,E9PJV8_HUMAN,E9PJ84_HUMAN,E9PIP5_HUMAN,E9PI93_HUMAN,E9PI39_HUMAN	UPI000013C7A6	.	.	.	3/10	.	hmmpanther:PTHR11595,hmmpanther:PTHR11595:SF20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGGCGGCACTC	.	2	BLCA
EPPK1	0	.	GRCh37	8	144941425	144941425	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5997G>A	p.%3D	p.E1999E	ENST00000525985	2/2	40	33	6	44	44	0	EPPK1,synonymous_variant,p.%3D,ENST00000525985,;	T	ENSG00000227184	ENST00000525985	Transcript	synonymous_variant	6069	5997	1999	E	gaG/gaA	.	.	.	-1	EPPK1	HGNC	15577	protein_coding	YES	.	ENSP00000436337	.	E9PPU0_HUMAN	UPI00006C0DF1	.	.	.	2/2	.	Superfamily_domains:SSF75399,SMART_domains:SM00250,Gene3D:3.90.1290.10,hmmpanther:PTHR11915:SF252,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTTCTCGAT	.	5	BLCA
RECQL4	0	.	GRCh37	8	145737616	145737616	+	Silent	SNP	G	G	A	rs767781957	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3147C>T	p.%3D	p.D1049D	ENST00000428558	19/22	23	18	5	49	49	0	RECQL4,synonymous_variant,p.%3D,ENST00000428558,;MFSD3,downstream_gene_variant,,ENST00000301327,;RECQL4,downstream_gene_variant,,ENST00000534626,;RECQL4,downstream_gene_variant,,ENST00000524998,;RECQL4,downstream_gene_variant,,ENST00000532846,;CTD-2517M22.17,upstream_gene_variant,,ENST00000580385,;RECQL4,non_coding_transcript_exon_variant,,ENST00000532237,;RECQL4,non_coding_transcript_exon_variant,,ENST00000531875,;RECQL4,non_coding_transcript_exon_variant,,ENST00000532269,;RECQL4,intron_variant,,ENST00000529424,;RECQL4,3_prime_UTR_variant,,ENST00000301323,;MFSD3,downstream_gene_variant,,ENST00000534427,;MFSD3,downstream_gene_variant,,ENST00000528047,;RECQL4,downstream_gene_variant,,ENST00000534538,;RECQL4,downstream_gene_variant,,ENST00000534270,;MFSD3,downstream_gene_variant,,ENST00000526749,;	A	ENSG00000160957	ENST00000428558	Transcript	synonymous_variant	3189	3147	1049	D	gaC/gaT	rs767781957	.	.	-1	RECQL4	HGNC	9949	protein_coding	YES	.	ENSP00000475456	.	U3KQ17_HUMAN	UPI0000E5E124	.	.	.	19/22	.	hmmpanther:PTHR13710,hmmpanther:PTHR13710:SF1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCTGGTCCTT	byFrequency	5	BLCA
VPS37A	0	.	GRCh37	8	17143899	17143899	+	Missense_Mutation	SNP	C	C	T	rs755402438	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1157C>T	p.Ala386Val	p.A386V	ENST00000324849	11/12	28	23	5	43	43	0	VPS37A,missense_variant,p.Ala386Val,ENST00000324849,;VPS37A,missense_variant,p.Ala159Val,ENST00000521976,;VPS37A,missense_variant,p.Ala361Val,ENST00000521829,;VPS37A,3_prime_UTR_variant,,ENST00000425020,;VPS37A,3_prime_UTR_variant,,ENST00000520140,;	T	ENSG00000155975	ENST00000324849	Transcript	missense_variant	1831	1157	386	A/V	gCg/gTg	rs755402438,COSM1455825	.	.	1	VPS37A	HGNC	24928	protein_coding	YES	CCDS6001.1	ENSP00000318629	VP37A_HUMAN	H0YBN0_HUMAN,B3KW95_HUMAN	UPI0000039EC3	.	tolerated(0.61)	benign(0.001)	11/12	.	PROSITE_profiles:PS51314,hmmpanther:PTHR13678,hmmpanther:PTHR13678:SF2	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGGCGATAG	byFrequency	5	BLCA
PIWIL2	0	.	GRCh37	8	22210508	22210508	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2440C>G	p.Arg814Gly	p.R814G	ENST00000356766	21/23	47	39	7	76	76	0	PIWIL2,missense_variant,p.Arg814Gly,ENST00000521356,;PIWIL2,missense_variant,p.Arg814Gly,ENST00000454009,;PIWIL2,missense_variant,p.Arg814Gly,ENST00000356766,;PIWIL2,non_coding_transcript_exon_variant,,ENST00000519884,;	G	ENSG00000197181	ENST00000356766	Transcript	missense_variant	2588	2440	814	R/G	Cgt/Ggt	.	.	.	1	PIWIL2	HGNC	17644	protein_coding	YES	CCDS6029.1	ENSP00000349208	PIWL2_HUMAN	.	UPI000006E98E	.	deleterious(0)	probably_damaging(1)	21/23	.	Superfamily_domains:SSF53098,SMART_domains:SM00950,Gene3D:3.30.420.10,Pfam_domain:PF02171,hmmpanther:PTHR22892:SF30,hmmpanther:PTHR22892,PROSITE_profiles:PS50822	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTACCGTGAT	.	4	BLCA
LOXL2	0	.	GRCh37	8	23186033	23186033	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1012C>T	p.Arg338Cys	p.R338C	ENST00000389131	6/14	56	39	17	86	86	0	LOXL2,missense_variant,p.Arg338Cys,ENST00000389131,;LOXL2,missense_variant,p.Arg55Cys,ENST00000520349,;LOXL2,intron_variant,,ENST00000523833,;LOXL2,non_coding_transcript_exon_variant,,ENST00000519809,;LOXL2,downstream_gene_variant,,ENST00000518472,;LOXL2,3_prime_UTR_variant,,ENST00000518878,;LOXL2,non_coding_transcript_exon_variant,,ENST00000520925,;LOXL2,non_coding_transcript_exon_variant,,ENST00000522446,;	A	ENSG00000134013	ENST00000389131	Transcript	missense_variant	1382	1012	338	R/C	Cgc/Tgc	.	.	.	-1	LOXL2	HGNC	6666	protein_coding	YES	CCDS34864.1	ENSP00000373783	LOXL2_HUMAN	E5RJL2_HUMAN,E5RI22_HUMAN,E5RFE2_HUMAN	UPI000012E7AB	.	deleterious(0)	probably_damaging(1)	6/14	.	Prints_domain:PR00258,Superfamily_domains:SSF56487,SMART_domains:SM00202,Gene3D:3.10.250.10,Pfam_domain:PF00530,PROSITE_patterns:PS00420,hmmpanther:PTHR19331,hmmpanther:PTHR19331:SF10,PROSITE_profiles:PS50287	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGCGGCCCT	.	5	BLCA
CHRNA2	0	.	GRCh37	8	27324745	27324745	+	Splice_Site	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.449+1G>A	.	p.X150_splice	ENST00000407991	.	43	37	5	52	52	0	CHRNA2,splice_donor_variant,,ENST00000407991,;CHRNA2,splice_donor_variant,,ENST00000240132,;CHRNA2,splice_donor_variant,,ENST00000520933,;CHRNA2,downstream_gene_variant,,ENST00000518712,;CHRNA2,downstream_gene_variant,,ENST00000524096,;CHRNA2,downstream_gene_variant,,ENST00000521921,;CHRNA2,downstream_gene_variant,,ENST00000520208,;CHRNA2,splice_donor_variant,,ENST00000522008,;CHRNA2,splice_donor_variant,,ENST00000523529,;CHRNA2,splice_donor_variant,,ENST00000520600,;CHRNA2,splice_donor_variant,,ENST00000523695,;CHRNA2,downstream_gene_variant,,ENST00000520650,;	T	ENSG00000120903	ENST00000407991	Transcript	splice_donor_variant	.	.	.	.	.	.	.	.	-1	CHRNA2	HGNC	1956	protein_coding	YES	CCDS6059.1	ENSP00000385026	ACHA2_HUMAN	E5RK67_HUMAN,E5RHQ4_HUMAN,E5RGT4_HUMAN,E5RGP6_HUMAN	UPI000013CA9F	.	.	.	.	5/6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCCTACTTGTT	.	4	BLCA
UNC5D	0	.	GRCh37	8	35584003	35584003	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1637G>A	p.Gly546Asp	p.G546D	ENST00000404895	10/17	149	142	7	232	232	0	UNC5D,missense_variant,p.Gly122Asp,ENST00000449677,;UNC5D,missense_variant,p.Gly541Asp,ENST00000453357,;UNC5D,missense_variant,p.Gly551Asp,ENST00000416672,;UNC5D,missense_variant,p.Gly546Asp,ENST00000404895,;UNC5D,missense_variant,p.Gly477Asp,ENST00000287272,;UNC5D,missense_variant,p.Gly479Asp,ENST00000420357,;UNC5D,non_coding_transcript_exon_variant,,ENST00000474634,;	A	ENSG00000156687	ENST00000404895	Transcript	missense_variant	1965	1637	546	G/D	gGt/gAt	.	.	.	1	UNC5D	HGNC	18634	protein_coding	YES	CCDS6093.2	ENSP00000385143	UNC5D_HUMAN	.	UPI00001D6915	.	deleterious(0)	possibly_damaging(0.745)	10/17	.	PROSITE_profiles:PS51145,hmmpanther:PTHR12582:SF5,hmmpanther:PTHR12582,Pfam_domain:PF00791,SMART_domains:SM00218	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AACTGGTGTCT	.	2	BLCA
IDO1	0	.	GRCh37	8	39780080	39780080	+	Missense_Mutation	SNP	C	C	A	rs745461399	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.447C>A	p.Asp149Glu	p.D149E	ENST00000518237	6/10	29	21	8	58	58	0	IDO1,missense_variant,p.Asp149Glu,ENST00000519154,;IDO1,missense_variant,p.Asp149Glu,ENST00000518237,;IDO1,missense_variant,p.Asp149Glu,ENST00000522495,;IDO1,downstream_gene_variant,,ENST00000522840,;IDO1,downstream_gene_variant,,ENST00000518804,;RP11-44K6.3,intron_variant,,ENST00000517623,;RP11-44K6.4,upstream_gene_variant,,ENST00000522970,;IDO1,missense_variant,p.Thr148Lys,ENST00000253513,;IDO1,non_coding_transcript_exon_variant,,ENST00000521480,;IDO1,non_coding_transcript_exon_variant,,ENST00000521636,;IDO1,upstream_gene_variant,,ENST00000523779,;	A	ENSG00000131203	ENST00000518237	Transcript	missense_variant	1086	447	149	D/E	gaC/gaA	rs745461399	.	.	1	IDO1	HGNC	6059	protein_coding	YES	CCDS47847.1	ENSP00000430950	I23O1_HUMAN	E5RIX2_HUMAN,E5RH36_HUMAN,E5RGR8_HUMAN	UPI00000012AA	.	tolerated(0.39)	benign(0.16)	6/10	.	Pfam_domain:PF01231,Superfamily_domains:SSF140959	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGACGTTTT	byFrequency	5	BLCA
MCM4	0	.	GRCh37	8	48875394	48875394	+	Missense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.572C>A	p.Pro191His	p.P191H	ENST00000262105	5/16	141	119	22	169	169	0	MCM4,missense_variant,p.Pro191His,ENST00000262105,;MCM4,missense_variant,p.Pro141His,ENST00000519170,;MCM4,missense_variant,p.Pro191His,ENST00000523944,;MCM4,downstream_gene_variant,,ENST00000518221,;PRKDC,upstream_gene_variant,,ENST00000314191,;MCM4,upstream_gene_variant,,ENST00000520637,;PRKDC,upstream_gene_variant,,ENST00000338368,;PRKDC,upstream_gene_variant,,ENST00000540819,;PRKDC,upstream_gene_variant,,ENST00000523565,;PRKDC,upstream_gene_variant,,ENST00000518216,;MCM4,non_coding_transcript_exon_variant,,ENST00000519138,;MCM4,downstream_gene_variant,,ENST00000520934,;MCM4,downstream_gene_variant,,ENST00000520994,;MCM4,downstream_gene_variant,,ENST00000524086,;	A	ENSG00000104738	ENST00000262105	Transcript	missense_variant	781	572	191	P/H	cCt/cAt	.	.	.	1	MCM4	HGNC	6947	protein_coding	YES	CCDS6143.1	ENSP00000262105	MCM4_HUMAN	E5RFR3_HUMAN,E5RFJ8_HUMAN,A4FS09_HUMAN	UPI000013D25C	.	deleterious(0)	probably_damaging(0.933)	5/16	.	hmmpanther:PTHR11630:SF66,hmmpanther:PTHR11630,Gene3D:1ltlA01,Pfam_domain:PF14551,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAACCTCTAT	.	4	BLCA
ATP6V1H	0	.	GRCh37	8	54708340	54708341	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.736dupT	p.Ser246PhefsTer13	p.S246Ffs*13	ENST00000359530	9/14	79	70	9	91	91	0	ATP6V1H,frameshift_variant,p.Ser246PhefsTer13,ENST00000396774,;ATP6V1H,frameshift_variant,p.Ser228PhefsTer13,ENST00000355221,;ATP6V1H,frameshift_variant,p.Ser246PhefsTer13,ENST00000359530,;ATP6V1H,frameshift_variant,p.Ser206PhefsTer13,ENST00000520188,;ATP6V1H,non_coding_transcript_exon_variant,,ENST00000523426,;ATP6V1H,intron_variant,,ENST00000521900,;ATP6V1H,upstream_gene_variant,,ENST00000523343,;ATP6V1H,3_prime_UTR_variant,,ENST00000524164,;ATP6V1H,3_prime_UTR_variant,,ENST00000522849,;	A	ENSG00000047249	ENST00000359530	Transcript	frameshift_variant	1000-1001	736-737	246	S/FX	tca/tTca	.	.	.	-1	ATP6V1H	HGNC	18303	protein_coding	YES	CCDS6153.1	ENSP00000352522	VATH_HUMAN	G3V126_HUMAN,E5RHH0_HUMAN,E5RG49_HUMAN	UPI0000000966	.	.	.	9/14	.	hmmpanther:PTHR10698,hmmpanther:PTHR10698:SF0,Pfam_domain:PF03224,Gene3D:1.25.10.10,PIRSF_domain:PIRSF032184,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	ATATTGAAAAA	.	3	BLCA
MCPH1	0	.	GRCh37	8	6302795	6302795	+	Missense_Mutation	SNP	G	G	A	rs748320867	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1552G>A	p.Ala518Thr	p.A518T	ENST00000344683	8/14	80	60	20	99	98	1	MCPH1,missense_variant,p.Ala518Thr,ENST00000519480,;MCPH1,missense_variant,p.Ala470Thr,ENST00000522905,;MCPH1,missense_variant,p.Ala518Thr,ENST00000344683,;	A	ENSG00000147316	ENST00000344683	Transcript	missense_variant	1628	1552	518	A/T	Gca/Aca	rs748320867	.	.	1	MCPH1	HGNC	6954	protein_coding	YES	CCDS43689.1	ENSP00000342924	.	Q6W7E5_HUMAN,Q6RBX4_HUMAN,Q6RBQ8_HUMAN,Q6RBJ2_HUMAN,Q6RBC6_HUMAN,Q6RB60_HUMAN,Q6RAZ4_HUMAN,Q6RAP8_HUMAN,Q6RAB6_HUMAN,Q6RA50_HUMAN	UPI000020FF7E	.	tolerated(0.78)	benign(0.001)	8/14	.	hmmpanther:PTHR14625:SF3,hmmpanther:PTHR14625,Pfam_domain:PF12258	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGACGCATGC	.	5	BLCA
FABP12	0	.	GRCh37	8	82439285	82439285	+	Silent	SNP	C	C	T	rs368067152	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.318G>A	p.%3D	p.T106T	ENST00000360464	3/4	31	25	5	36	36	0	FABP12,synonymous_variant,p.%3D,ENST00000360464,;RP11-257P3.3,intron_variant,,ENST00000523380,;RP11-257P3.3,downstream_gene_variant,,ENST00000518637,;FABP12,3_prime_UTR_variant,,ENST00000519696,;FTH1P11,upstream_gene_variant,,ENST00000517577,;	T	ENSG00000197416	ENST00000360464	Transcript	synonymous_variant	381	318	106	T	acG/acA	rs368067152,COSM3651315,COSM3651314	.	.	-1	FABP12	HGNC	34524	protein_coding	YES	CCDS47882.1	ENSP00000353650	FBP12_HUMAN	.	UPI00001B2E3D	.	.	.	3/4	.	Superfamily_domains:SSF50814,Pfam_domain:PF00061,Gene3D:2.40.128.20,hmmpanther:PTHR11955:SF76,hmmpanther:PTHR11955	T:0.0002	T:0	T:0	.	T:0	T:0	T:0.001	T:0.0003	T:0.0001	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTCTCGTTAT	byCluster|by1000G	5	BLCA
RMDN1	0	.	GRCh37	8	87498829	87498829	+	Missense_Mutation	SNP	C	C	T	rs78015199	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.379G>A	p.Asp127Asn	p.D127N	ENST00000406452	4/10	109	93	15	119	119	0	RMDN1,missense_variant,p.Asp127Asn,ENST00000519966,;RMDN1,missense_variant,p.Asp83Asn,ENST00000523911,;RMDN1,missense_variant,p.Asp83Asn,ENST00000521045,;RMDN1,missense_variant,p.Asp127Asn,ENST00000406452,;RMDN1,missense_variant,p.Asp127Asn,ENST00000430676,;RMDN1,missense_variant,p.Asp73Asn,ENST00000519789,;CPNE3,intron_variant,,ENST00000198765,;RMDN1,upstream_gene_variant,,ENST00000520719,;RMDN1,upstream_gene_variant,,ENST00000519639,;RMDN1,3_prime_UTR_variant,,ENST00000524172,;RMDN1,3_prime_UTR_variant,,ENST00000522804,;RMDN1,3_prime_UTR_variant,,ENST00000523370,;RMDN1,non_coding_transcript_exon_variant,,ENST00000518390,;RMDN1,upstream_gene_variant,,ENST00000519145,;NTAN1P2,upstream_gene_variant,,ENST00000515730,;	T	ENSG00000176623	ENST00000406452	Transcript	missense_variant	539	379	127	D/N	Gat/Aat	rs78015199	.	.	-1	RMDN1	HGNC	24285	protein_coding	YES	CCDS34918.1	ENSP00000385927	RMD1_HUMAN	E5RGC8_HUMAN	UPI0000073168	.	deleterious(0.04)	possibly_damaging(0.614)	4/10	.	Coiled-coils_(Ncoils):Coil,Gene3D:1.25.40.10,hmmpanther:PTHR16056	G:0.0002	G:0	G:0	.	G:0.001	G:0	G:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TACATCACGTG	byCluster|by1000G	4	BLCA
ESRP1	0	.	GRCh37	8	95683790	95683790	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1343G>A	p.Arg448His	p.R448H	ENST00000433389	11/16	65	58	7	70	70	0	ESRP1,missense_variant,p.Arg448His,ENST00000454170,;ESRP1,missense_variant,p.Arg448His,ENST00000433389,;ESRP1,missense_variant,p.Arg448His,ENST00000423620,;ESRP1,missense_variant,p.Arg448His,ENST00000358397,;ESRP1,missense_variant,p.Arg314His,ENST00000519505,;ESRP1,missense_variant,p.Arg307His,ENST00000517610,;ESRP1,downstream_gene_variant,,ENST00000517556,;	A	ENSG00000104413	ENST00000433389	Transcript	missense_variant	1533	1343	448	R/H	cGc/cAc	.	.	.	1	ESRP1	HGNC	25966	protein_coding	YES	CCDS47897.1	ENSP00000405738	ESRP1_HUMAN	E5RI26_HUMAN,E5RGE9_HUMAN	UPI0000210327	.	deleterious(0)	probably_damaging(1)	11/16	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Pfam_domain:PF14259,Gene3D:3.30.70.330,hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF37	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TATACGCCTTC	.	4	BLCA
MATN2	0	.	GRCh37	8	99045363	99045363	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2675T>C	p.Leu892Ser	p.L892S	ENST00000520016	16/18	17	11	6	15	15	0	MATN2,missense_variant,p.Leu656Ser,ENST00000518154,;MATN2,missense_variant,p.Leu873Ser,ENST00000521689,;MATN2,missense_variant,p.Leu892Ser,ENST00000254898,;MATN2,missense_variant,p.Leu892Ser,ENST00000520016,;MATN2,missense_variant,p.Leu55Ser,ENST00000522135,;MATN2,missense_variant,p.Leu851Ser,ENST00000524308,;MATN2,missense_variant,p.Leu129Ser,ENST00000519582,;MATN2,missense_variant,p.Leu608Ser,ENST00000522025,;RPL30,intron_variant,,ENST00000518164,;MATN2,3_prime_UTR_variant,,ENST00000521952,;MATN2,non_coding_transcript_exon_variant,,ENST00000523561,;	C	ENSG00000132561	ENST00000520016	Transcript	missense_variant	2799	2675	892	L/S	tTa/tCa	.	.	.	1	MATN2	HGNC	6908	protein_coding	YES	CCDS55264.1	ENSP00000430487	MATN2_HUMAN	E5RJM4_HUMAN	UPI000021037B	.	tolerated_low_confidence(0.56)	benign(0)	16/18	.	hmmpanther:PTHR22992:SF17,hmmpanther:PTHR22992	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTTTTACGGT	.	5	BLCA
INVS	0	.	GRCh37	9	103015222	103015222	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1268G>A	p.Gly423Glu	p.G423E	ENST00000262457	10/17	44	39	5	55	55	0	INVS,missense_variant,p.Gly423Glu,ENST00000262457,;INVS,missense_variant,p.Gly423Glu,ENST00000262456,;INVS,missense_variant,p.Gly327Glu,ENST00000541287,;	A	ENSG00000119509	ENST00000262457	Transcript	missense_variant	1453	1268	423	G/E	gGa/gAa	.	.	.	1	INVS	HGNC	17870	protein_coding	YES	CCDS6746.1	ENSP00000262457	INVS_HUMAN	.	UPI000013D2BB	.	deleterious(0.02)	probably_damaging(0.992)	10/17	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24178,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AGATGGACATT	.	4	BLCA
LPPR1	0	.	GRCh37	9	104079654	104079654	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.821G>A	p.Cys274Tyr	p.C274Y	ENST00000374874	7/8	139	131	7	173	173	0	LPPR1,missense_variant,p.Cys274Tyr,ENST00000395056,;LPPR1,missense_variant,p.Cys274Tyr,ENST00000374874,;LPPR1,downstream_gene_variant,,ENST00000463206,;	A	ENSG00000148123	ENST00000374874	Transcript	missense_variant	1260	821	274	C/Y	tGt/tAt	.	.	.	1	LPPR1	Uniprot_gn	.	protein_coding	YES	CCDS6751.1	ENSP00000364008	LPPR1_HUMAN	M9MML5_HUMAN,B7Z8R9_HUMAN	UPI0000034FFA	.	deleterious(0)	probably_damaging(0.998)	7/8	.	Pfam_domain:PF01569,hmmpanther:PTHR10165,hmmpanther:PTHR10165:SF41,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATGTGTGTGG	.	2	BLCA
SMC2	0	.	GRCh37	9	106887295	106887295	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2360G>A	p.Arg787Lys	p.R787K	ENST00000286398	18/25	90	78	12	70	70	0	SMC2,missense_variant,p.Arg787Lys,ENST00000303219,;SMC2,missense_variant,p.Arg787Lys,ENST00000374793,;SMC2,missense_variant,p.Arg787Lys,ENST00000286398,;SMC2,missense_variant,p.Arg787Lys,ENST00000374787,;SMC2,upstream_gene_variant,,ENST00000493955,;	A	ENSG00000136824	ENST00000286398	Transcript	missense_variant	2648	2360	787	R/K	aGa/aAa	.	.	.	1	SMC2	HGNC	14011	protein_coding	YES	CCDS35086.1	ENSP00000286398	SMC2_HUMAN	Q5T821_HUMAN	UPI000013DE44	.	tolerated(0.13)	benign(0.084)	18/25	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18937:SF9,hmmpanther:PTHR18937,PIRSF_domain:PIRSF005719	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGAAAGAGAGC	.	4	BLCA
ACTL7B	0	.	GRCh37	9	111618046	111618047	+	Frame_Shift_Ins	INS	-	-	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.164dupA	p.Asp55GlufsTer47	p.D55Efs*47	ENST00000374667	1/1	127	112	15	124	124	0	ACTL7B,frameshift_variant,p.Asp55GlufsTer47,ENST00000374667,;	T	ENSG00000148156	ENST00000374667	Transcript	frameshift_variant	1193-1194	164-165	55	D/EX	gac/gaAc	.	.	.	-1	ACTL7B	HGNC	162	protein_coding	YES	CCDS6771.1	ENSP00000363799	ACL7B_HUMAN	.	UPI0000125053	.	.	.	1/1	.	hmmpanther:PTHR11937:SF59,hmmpanther:PTHR11937,Gene3D:3.30.420.40,Pfam_domain:PF00022,SMART_domains:SM00268,Superfamily_domains:SSF53067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CCCAGGTCGAT	.	3	BLCA
RNF183	0	.	GRCh37	9	116060496	116060496	+	5'UTR	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-32C>T	.	.	ENST00000478815	1/1	56	46	10	52	52	0	RNF183,5_prime_UTR_variant,,ENST00000297894,;RNF183,5_prime_UTR_variant,,ENST00000441031,;RNF183,5_prime_UTR_variant,,ENST00000416588,;RNF183,5_prime_UTR_variant,,ENST00000478815,;RNF183,downstream_gene_variant,,ENST00000443976,;RNF183,downstream_gene_variant,,ENST00000478493,;RNF183,downstream_gene_variant,,ENST00000489339,;	A	ENSG00000165188	ENST00000478815	Transcript	5_prime_UTR_variant	1550	.	.	.	.	.	.	.	-1	RNF183	HGNC	28721	protein_coding	YES	CCDS43866.1	ENSP00000419454	RN183_HUMAN	.	UPI0000140EAA	.	.	.	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGAGACGTC	.	5	BLCA
AKNA	0	.	GRCh37	9	117099573	117099573	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4081G>A	p.Ala1361Thr	p.A1361T	ENST00000307564	22/22	57	39	18	49	49	0	AKNA,missense_variant,p.Ala1361Thr,ENST00000307564,;AKNA,missense_variant,p.Ala1361Thr,ENST00000374088,;AKNA,missense_variant,p.Ala306Thr,ENST00000374079,;AKNA,missense_variant,p.Ala821Thr,ENST00000223791,;AKNA,missense_variant,p.Ala1280Thr,ENST00000374075,;ORM2,downstream_gene_variant,,ENST00000431067,;AKNA,non_coding_transcript_exon_variant,,ENST00000492875,;	T	ENSG00000106948	ENST00000307564	Transcript	missense_variant	4243	4081	1361	A/T	Gca/Aca	.	.	.	-1	AKNA	HGNC	24108	protein_coding	YES	CCDS6805.1	ENSP00000303769	AKNA_HUMAN	.	UPI000021168C	.	tolerated(0.08)	benign(0.01)	22/22	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21510:SF12,hmmpanther:PTHR21510	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGCAGGCG	.	5	BLCA
TTLL11	0	.	GRCh37	9	124751555	124751555	+	Silent	SNP	C	C	T	rs199532582	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1458G>A	p.%3D	p.T486T	ENST00000321582	4/9	80	65	14	131	131	0	TTLL11,synonymous_variant,p.%3D,ENST00000373776,;TTLL11,synonymous_variant,p.%3D,ENST00000321582,;TTLL11,non_coding_transcript_exon_variant,,ENST00000474723,;TTLL11,non_coding_transcript_exon_variant,,ENST00000487468,;TTLL11,non_coding_transcript_exon_variant,,ENST00000373778,;	T	ENSG00000175764	ENST00000321582	Transcript	synonymous_variant	1646	1458	486	T	acG/acA	rs199532582	.	.	-1	TTLL11	HGNC	18113	protein_coding	YES	CCDS48012.1	ENSP00000321346	.	F8W6M1_HUMAN	UPI0000E0BF7B	.	.	.	4/9	.	Superfamily_domains:SSF56059,Pfam_domain:PF03133,hmmpanther:PTHR12241,hmmpanther:PTHR12241:SF95,PROSITE_profiles:PS51221	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGACCGTCTT	byFrequency	5	BLCA
PSMB7	0	.	GRCh37	9	127119181	127119181	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.584A>G	p.Lys195Arg	p.K195R	ENST00000259457	7/8	79	70	8	72	72	0	PSMB7,missense_variant,p.Lys195Arg,ENST00000259457,;PSMB7,3_prime_UTR_variant,,ENST00000536392,;NEK6,downstream_gene_variant,,ENST00000546191,;NEK6,downstream_gene_variant,,ENST00000373603,;NEK6,downstream_gene_variant,,ENST00000540326,;NEK6,downstream_gene_variant,,ENST00000394199,;NEK6,downstream_gene_variant,,ENST00000320246,;NEK6,downstream_gene_variant,,ENST00000539416,;NEK6,downstream_gene_variant,,ENST00000545174,;NEK6,downstream_gene_variant,,ENST00000373600,;PSMB7,non_coding_transcript_exon_variant,,ENST00000498485,;	C	ENSG00000136930	ENST00000259457	Transcript	missense_variant	598	584	195	K/R	aAg/aGg	.	.	.	-1	PSMB7	HGNC	9544	protein_coding	YES	CCDS6855.1	ENSP00000259457	PSB7_HUMAN	E9KL30_HUMAN	UPI00001325C7	.	tolerated(0.34)	benign(0.159)	7/8	.	Superfamily_domains:SSF56235,Gene3D:3.60.20.10,Pfam_domain:PF00227,hmmpanther:PTHR11599,hmmpanther:PTHR11599:SF42,PROSITE_profiles:PS51476	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTCTTGGCT	.	4	BLCA
DNM1	0	.	GRCh37	9	131010949	131010949	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1993C>G	p.Leu665Val	p.L665V	ENST00000372923	19/22	176	169	7	216	216	0	DNM1,missense_variant,p.Leu665Val,ENST00000341179,;DNM1,missense_variant,p.Leu665Val,ENST00000372923,;DNM1,missense_variant,p.Leu665Val,ENST00000486160,;DNM1,missense_variant,p.Leu665Val,ENST00000475805,;DNM1,missense_variant,p.Leu665Val,ENST00000393594,;MIR3154,upstream_gene_variant,,ENST00000577829,;MIR199B,upstream_gene_variant,,ENST00000384849,;DNM1,downstream_gene_variant,,ENST00000479174,;DNM1,downstream_gene_variant,,ENST00000493925,;DNM1,non_coding_transcript_exon_variant,,ENST00000441149,;	G	ENSG00000106976	ENST00000372923	Transcript	missense_variant	2085	1993	665	L/V	Ctt/Gtt	.	.	.	1	DNM1	HGNC	2972	protein_coding	YES	CCDS6895.1	ENSP00000362014	DYN1_HUMAN	.	UPI000013CA31	.	deleterious(0)	probably_damaging(0.998)	19/22	.	PROSITE_profiles:PS51388,hmmpanther:PTHR11566:SF32,hmmpanther:PTHR11566,Pfam_domain:PF02212,SMART_domains:SM00302	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAATCTTGTG	.	2	BLCA
SWI5	0	.	GRCh37	9	131038546	131038546	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.122C>T	p.Ser41Phe	p.S41F	ENST00000320188	1/5	27	16	11	33	33	0	SWI5,missense_variant,p.Ser41Phe,ENST00000320188,;SWI5,5_prime_UTR_variant,,ENST00000418976,;SWI5,5_prime_UTR_variant,,ENST00000419867,;SWI5,5_prime_UTR_variant,,ENST00000608796,;SWI5,intron_variant,,ENST00000372898,;SWI5,intron_variant,,ENST00000495313,;GOLGA2,upstream_gene_variant,,ENST00000609374,;GOLGA2,upstream_gene_variant,,ENST00000458730,;GOLGA2,upstream_gene_variant,,ENST00000490628,;GOLGA2,upstream_gene_variant,,ENST00000421699,;GOLGA2,upstream_gene_variant,,ENST00000450617,;	T	ENSG00000175854	ENST00000320188	Transcript	missense_variant	122	122	41	S/F	tCt/tTt	.	.	.	1	SWI5	HGNC	31412	protein_coding	YES	CCDS43883.1	ENSP00000316609	SWI5_HUMAN	.	UPI00001D76F5	.	deleterious_low_confidence(0.03)	benign(0.032)	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTTTCTGTGC	.	5	BLCA
C9orf106	0	.	GRCh37	9	132084516	132084516	+	RNA	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.477G>C	.	.	ENST00000316786	2/2	47	43	4	58	58	0	C9orf106,non_coding_transcript_exon_variant,,ENST00000316786,;	C	ENSG00000179082	ENST00000316786	Transcript	non_coding_transcript_exon_variant	477	.	.	.	.	.	.	.	1	C9orf106	HGNC	31370	processed_transcript	YES	.	.	.	.	.	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GCTTGGAGCAA	.	3	BLCA
TOR1A	0	.	GRCh37	9	132584978	132584978	+	Frame_Shift_Del	DEL	T	T	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.326delA	p.Asn109IlefsTer16	p.N109Ifs*16	ENST00000351698	2/5	171	156	14	204	204	0	TOR1A,frameshift_variant,p.Asn109IlefsTer16,ENST00000351698,;C9orf78,downstream_gene_variant,,ENST00000372447,;TOR1A,non_coding_transcript_exon_variant,,ENST00000473604,;TOR1A,non_coding_transcript_exon_variant,,ENST00000473084,;TOR1A,upstream_gene_variant,,ENST00000474192,;	-	ENSG00000136827	ENST00000351698	Transcript	frameshift_variant	375	326	109	N/X	aAt/at	.	.	.	-1	TOR1A	HGNC	3098	protein_coding	YES	CCDS6930.1	ENSP00000345719	TOR1A_HUMAN	B4DGM9_HUMAN	UPI00001370F5	.	.	.	2/5	.	hmmpanther:PTHR10760:SF13,hmmpanther:PTHR10760,Gene3D:3.40.50.300,Pfam_domain:PF06309,PIRSF_domain:PIRSF038079,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.G107D|c.320G>A|4	INDELOCATOR|VARSCANI	ACGAAATTTTTG	.	2	BLCA
USP20	0	.	GRCh37	9	132641854	132641854	+	Frame_Shift_Del	DEL	C	C	-	rs201577203	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2520delC	p.Ile843LeufsTer17	p.I843Lfs*17	ENST00000315480	24/25	117	106	11	118	118	0	USP20,frameshift_variant,p.Ile843LeufsTer17,ENST00000372429,;USP20,frameshift_variant,p.Ile843LeufsTer17,ENST00000358355,;USP20,frameshift_variant,p.Ile843LeufsTer17,ENST00000315480,;USP20,splice_region_variant,,ENST00000496927,;USP20,non_coding_transcript_exon_variant,,ENST00000472108,;USP20,downstream_gene_variant,,ENST00000474895,;RP11-409K20.7,downstream_gene_variant,,ENST00000417984,;	-	ENSG00000136878	ENST00000315480	Transcript	frameshift_variant	2673	2515	839	P/X	Ccc/cc	rs201577203	.	.	1	USP20	HGNC	12619	protein_coding	YES	CCDS43892.1	ENSP00000313811	UBP20_HUMAN	Q9UQN9_HUMAN	UPI000013D050	.	.	.	24/25	.	PROSITE_profiles:PS51283,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF402,Gene3D:3jyuB01,Pfam_domain:PF06337,SMART_domains:SM00695,Superfamily_domains:0050384	T:0.0004	T:0.0015	T:0	.	T:0	T:0	T:0	T:0.002	T:0	.	.	.	.	.	.	.	HIGH	.	deletion	.	5	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GCAGAGCCCCCC	byFrequency|byCluster|by1000G	3	BLCA
FNBP1	0	.	GRCh37	9	132686250	132686250	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1043C>G	p.Ala348Gly	p.A348G	ENST00000446176	10/17	14	10	4	10	10	0	FNBP1,missense_variant,p.Ala300Gly,ENST00000449089,;FNBP1,missense_variant,p.Ala338Gly,ENST00000420781,;FNBP1,missense_variant,p.Ala348Gly,ENST00000446176,;FNBP1,intron_variant,,ENST00000355681,;FNBP1,upstream_gene_variant,,ENST00000443566,;FNBP1,intron_variant,,ENST00000478129,;FNBP1,intron_variant,,ENST00000482107,;	C	ENSG00000187239	ENST00000446176	Transcript	missense_variant	1230	1043	348	A/G	gCc/gGc	.	.	.	-1	FNBP1	HGNC	17069	protein_coding	YES	CCDS48040.1	ENSP00000413625	FNBP1_HUMAN	B7ZL12_HUMAN	UPI000022408C	.	tolerated(0.31)	benign(0.103)	10/17	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12602:SF21,hmmpanther:PTHR12602	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAGGCAGAG	.	4	BLCA
PRDM12	0	.	GRCh37	9	133542071	133542071	+	Silent	SNP	C	C	T	rs143960255	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300C>T	p.%3D	p.L100L	ENST00000253008	2/5	83	75	8	102	102	0	PRDM12,synonymous_variant,p.%3D,ENST00000253008,;	T	ENSG00000130711	ENST00000253008	Transcript	synonymous_variant	360	300	100	L	ctC/ctT	rs143960255,COSM3904790	.	.	1	PRDM12	HGNC	13997	protein_coding	YES	CCDS6934.1	ENSP00000253008	PRD12_HUMAN	.	UPI0000132184	.	.	.	2/5	.	PROSITE_profiles:PS50280,Gene3D:2.170.270.10,PIRSF_domain:PIRSF037163,SMART_domains:SM00317,Superfamily_domains:SSF82199	.	.	.	.	.	.	.	T:0.0002	T:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGCCTCGGCAT	byCluster	3	BLCA
C9orf171	0	.	GRCh37	9	135374932	135374932	+	Missense_Mutation	SNP	A	A	G	rs371978165	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.577A>G	p.Met193Val	p.M193V	ENST00000343036	4/7	93	61	32	129	129	0	C9orf171,missense_variant,p.Met193Val,ENST00000343036,;C9orf171,missense_variant,p.Met157Val,ENST00000393216,;C9orf171,missense_variant,p.Met157Val,ENST00000393215,;	G	ENSG00000188523	ENST00000343036	Transcript	missense_variant	625	577	193	M/V	Atg/Gtg	rs371978165	.	.	1	C9orf171	HGNC	33776	protein_coding	YES	CCDS6949.1	ENSP00000343290	CI171_HUMAN	.	UPI00001C109C	.	tolerated(0.41)	benign(0)	4/7	.	Pfam_domain:PF14825	.	.	.	.	.	.	.	G:0.0002	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGCATGAAG	byFrequency|byCluster	5	BLCA
BRD3	0	.	GRCh37	9	136918507	136918507	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.93G>A	p.%3D	p.K31K	ENST00000303407	2/12	47	29	17	55	55	0	BRD3,synonymous_variant,p.%3D,ENST00000371834,;BRD3,synonymous_variant,p.%3D,ENST00000303407,;BRD3,synonymous_variant,p.%3D,ENST00000357885,;BRD3,synonymous_variant,p.%3D,ENST00000371842,;BRD3,downstream_gene_variant,,ENST00000433041,;RP11-374P20.4,upstream_gene_variant,,ENST00000412181,;BRD3,upstream_gene_variant,,ENST00000494743,;	T	ENSG00000169925	ENST00000303407	Transcript	synonymous_variant	279	93	31	K	aaG/aaA	.	.	.	-1	BRD3	HGNC	1104	protein_coding	YES	CCDS6980.1	ENSP00000305918	BRD3_HUMAN	B4DS09_HUMAN,A9J575_HUMAN,A9J571_HUMAN	UPI0000126ACD	.	.	.	2/12	.	Low_complexity_(Seg):seg,hmmpanther:PTHR22880,hmmpanther:PTHR22880:SF126,Gene3D:1.20.920.10,Superfamily_domains:SSF47370	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGGGCTTGCT	.	5	BLCA
RXRA	0	.	GRCh37	9	137300040	137300040	+	Frame_Shift_Del	DEL	C	C	-	.	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.331delC	p.Leu111TrpfsTer57	p.L111Wfs*57	ENST00000481739	3/10	55	43	12	54	54	0	RXRA,frameshift_variant,p.Leu111TrpfsTer57,ENST00000481739,;RXRA,frameshift_variant,p.Leu14TrpfsTer57,ENST00000540193,;RXRA,non_coding_transcript_exon_variant,,ENST00000356384,;RXRA,downstream_gene_variant,,ENST00000484822,;	-	ENSG00000186350	ENST00000481739	Transcript	frameshift_variant	377	325	109	P/X	Ccc/cc	COSM1460911,COSM1460910	.	.	1	RXRA	HGNC	10477	protein_coding	YES	CCDS35172.1	ENSP00000419692	RXRA_HUMAN	Q6P3U7_HUMAN,F1D8Q5_HUMAN,B3KY83_HUMAN	UPI0000042A9A	.	.	.	3/10	.	Pfam_domain:PF11825,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF39	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	HIGH	.	deletion	.	6	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	VARSCANI*|PINDEL	ATCAAGCCCCCC	.	2	BLCA
PMPCA	0	.	GRCh37	9	139310759	139310759	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.549G>A	p.Met183Ile	p.M183I	ENST00000371717	6/13	75	67	8	77	77	0	PMPCA,missense_variant,p.Met52Ile,ENST00000399219,;PMPCA,missense_variant,p.Met183Ile,ENST00000371717,;PMPCA,3_prime_UTR_variant,,ENST00000371720,;PMPCA,upstream_gene_variant,,ENST00000444897,;PMPCA,non_coding_transcript_exon_variant,,ENST00000462616,;	A	ENSG00000165688	ENST00000371717	Transcript	missense_variant	558	549	183	M/I	atG/atA	.	.	.	1	PMPCA	HGNC	18667	protein_coding	YES	CCDS35180.1	ENSP00000360782	MPPA_HUMAN	Q9BT52_HUMAN,Q5SXN0_HUMAN	UPI00000703D3	.	tolerated(0.31)	benign(0.027)	6/13	.	hmmpanther:PTHR11851:SF49,hmmpanther:PTHR11851,Gene3D:3.30.830.10,Pfam_domain:PF00675,Superfamily_domains:SSF63411	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGATGACGCG	.	4	BLCA
EDF1	0	.	GRCh37	9	139756656	139756656	+	3'UTR	SNP	G	G	A	rs540803782	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*80C>T	.	.	ENST00000224073	5/5	107	92	14	121	121	0	EDF1,3_prime_UTR_variant,,ENST00000371649,;EDF1,3_prime_UTR_variant,,ENST00000224073,;EDF1,downstream_gene_variant,,ENST00000371648,;MAMDC4,downstream_gene_variant,,ENST00000445819,;MAMDC4,downstream_gene_variant,,ENST00000317446,;MAMDC4,downstream_gene_variant,,ENST00000485732,;MAMDC4,downstream_gene_variant,,ENST00000479475,;	A	ENSG00000107223	ENST00000224073	Transcript	3_prime_UTR_variant	555	.	.	.	.	rs540803782	.	.	-1	EDF1	HGNC	3164	protein_coding	YES	CCDS7011.1	ENSP00000224073	EDF1_HUMAN	.	UPI000006E4E4	.	.	.	5/5	.	.	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GGCCCGTGAGG	byCluster|by1000G	3	BLCA
CDKN2A	0	.	GRCh37	9	21971018	21971018	+	Missense_Mutation	SNP	G	G	T	rs104894104	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340C>A	p.Pro114Thr	p.P114T	ENST00000498124	2/4	25	17	8	24	24	0	CDKN2A,missense_variant,p.Pro63Thr,ENST00000578845,;CDKN2A,missense_variant,p.Ala128Asp,ENST00000579755,;CDKN2A,missense_variant,p.Pro63Thr,ENST00000494262,;CDKN2A,missense_variant,p.Pro63Thr,ENST00000498628,;CDKN2A,missense_variant,p.Ala128Asp,ENST00000530628,;CDKN2A,missense_variant,p.Pro114Thr,ENST00000446177,;CDKN2A,missense_variant,p.Pro114Thr,ENST00000304494,;CDKN2A,missense_variant,p.Ala169Asp,ENST00000361570,;CDKN2A,missense_variant,p.Pro114Thr,ENST00000498124,;CDKN2A,missense_variant,p.Pro63Thr,ENST00000479692,;CDKN2A,missense_variant,p.Pro114Thr,ENST00000579122,;CDKN2A,missense_variant,p.Pro63Thr,ENST00000497750,;C9orf53,downstream_gene_variant,,ENST00000441769,;CDKN2A,non_coding_transcript_exon_variant,,ENST00000380150,;CDKN2A,upstream_gene_variant,,ENST00000577854,;CDKN2A,3_prime_UTR_variant,,ENST00000380151,;RP11-145E5.5,intron_variant,,ENST00000404796,;	T	ENSG00000147889	ENST00000498124	Transcript	missense_variant	379	340	114	P/T	Ccc/Acc	CX073790,rs104894104,CM014526,COSM13713,COSM3952632,COSM3952629,COSM3952631,COSM3952630	.	.	-1	CDKN2A	HGNC	1787	protein_coding	YES	CCDS56565.1	ENSP00000418915	CD2A1_HUMAN	Q9UPB7_HUMAN	UPI0001565711	.	deleterious(0)	probably_damaging(1)	2/4	.	PROSITE_profiles:PS50297,hmmpanther:PTHR24144:SF30,hmmpanther:PTHR24144,Gene3D:1.25.40.20,Pfam_domain:PF12796,Superfamily_domains:SSF48403	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	.	.	.	0,0,0,1,1,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_471del471|15,CODON|p.P114L|c.341C>T|4,CODON|p.P114H|c.341C>A|3,CODON|p.A169A|c.507C>T|7,CODON|p.P114L|c.341C>T|32,CODON|p.P114L|c.341C>T|8,BUFFER|p.D116Y|c.346G>T|3,BUFFER|p.V115L|c.343G>T|3,BUFFER|p.R112G|c.334C>G|3,BUFFER|p.G166R|c.496G>A|10,BUFFER|p.W110*|c.330G>A|9,BUFFER|p.W110*|c.330G>A|42,BUFFER|p.W110*|c.330G>A|11,BUFFER|p.L165L|c.495G>A|5,BUFFER|p.W110*|c.329G>A|13,BUFFER|p.W110*|c.329G>A|4,BUFFER|p.W110*|c.329G>A|6	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACGGGCAGAC	byCluster|by1000G	5	BLCA
ALDH1B1	0	.	GRCh37	9	38395978	38395978	+	Missense_Mutation	SNP	G	G	A	rs746993033	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.233G>A	p.Arg78Gln	p.R78Q	ENST00000377698	2/2	68	55	13	104	104	0	ALDH1B1,missense_variant,p.Arg78Gln,ENST00000377698,;	A	ENSG00000137124	ENST00000377698	Transcript	missense_variant	386	233	78	R/Q	cGg/cAg	rs746993033	.	.	1	ALDH1B1	HGNC	407	protein_coding	YES	CCDS6615.1	ENSP00000366927	AL1B1_HUMAN	B4DLJ0_HUMAN	UPI0000073000	.	tolerated(0.11)	benign(0)	2/2	.	Superfamily_domains:SSF53720,Gene3D:3.40.605.10,Pfam_domain:PF00171,hmmpanther:PTHR11699,hmmpanther:PTHR11699:SF123,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATCGGGCCG	.	5	BLCA
PLGRKT	0	.	GRCh37	9	5361173	5361173	+	Frame_Shift_Del	DEL	T	T	-	rs750971226	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.227delA	p.Lys76ArgfsTer12	p.K76Rfs*12	ENST00000223864	5/6	60	45	15	54	54	0	PLGRKT,frameshift_variant,p.Lys76ArgfsTer12,ENST00000223864,;PLGRKT,downstream_gene_variant,,ENST00000472145,;PLGRKT,downstream_gene_variant,,ENST00000482696,;RP11-12D24.6,upstream_gene_variant,,ENST00000415892,;	-	ENSG00000107020	ENST00000223864	Transcript	frameshift_variant	449	227	76	K/X	aAg/ag	rs750971226	.	.	-1	PLGRKT	HGNC	23633	protein_coding	YES	CCDS6463.1	ENSP00000223864	PLRKT_HUMAN	.	UPI000006F671	.	.	.	5/6	.	hmmpanther:PTHR13411,Pfam_domain:PF10166	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	GGCTTCTTTTTT	byFrequency	2	BLCA
KIAA2026	0	.	GRCh37	9	5968294	5968294	+	Missense_Mutation	SNP	C	C	A	rs763070493	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1937G>T	p.Gly646Val	p.G646V	ENST00000399933	3/8	49	37	11	66	66	0	KIAA2026,missense_variant,p.Gly579Val,ENST00000513355,;KIAA2026,missense_variant,p.Gly646Val,ENST00000381461,;KIAA2026,missense_variant,p.Gly646Val,ENST00000399933,;KIAA2026,upstream_gene_variant,,ENST00000540714,;	A	ENSG00000183354	ENST00000399933	Transcript	missense_variant	1937	1937	646	G/V	gGa/gTa	rs763070493	.	.	-1	KIAA2026	HGNC	23378	protein_coding	YES	.	ENSP00000382815	K2026_HUMAN	.	UPI0001533DB0	.	deleterious(0)	probably_damaging(0.998)	3/8	.	hmmpanther:PTHR31095:SF2,hmmpanther:PTHR31095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCCATTT	byFrequency	5	BLCA
TMEM252	0	.	GRCh37	9	71155530	71155530	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.201T>C	p.%3D	p.T67T	ENST00000377311	1/2	35	29	6	37	37	0	TMEM252,synonymous_variant,p.%3D,ENST00000377311,;RP11-274B18.2,downstream_gene_variant,,ENST00000446290,;RP11-274B18.4,upstream_gene_variant,,ENST00000413269,;RP11-274B18.2,downstream_gene_variant,,ENST00000432148,;	G	ENSG00000181778	ENST00000377311	Transcript	synonymous_variant	254	201	67	T	acT/acC	.	.	.	-1	TMEM252	HGNC	28537	protein_coding	YES	CCDS35040.1	ENSP00000366528	TM252_HUMAN	.	UPI000006D6CF	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTTTCAGTCAC	.	4	BLCA
KANK1	0	.	GRCh37	9	712373	712373	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1607C>T	p.Thr536Met	p.T536M	ENST00000382303	7/16	65	48	17	100	100	0	KANK1,missense_variant,p.Thr378Met,ENST00000382293,;KANK1,missense_variant,p.Thr536Met,ENST00000382303,;KANK1,missense_variant,p.Thr536Met,ENST00000382297,;KANK1,non_coding_transcript_exon_variant,,ENST00000489369,;KANK1,non_coding_transcript_exon_variant,,ENST00000354485,;	T	ENSG00000107104	ENST00000382303	Transcript	missense_variant	2259	1607	536	T/M	aCg/aTg	.	.	.	1	KANK1	HGNC	19309	protein_coding	YES	CCDS34976.1	ENSP00000371740	KANK1_HUMAN	Q8WUM7_HUMAN,Q53U93_HUMAN	UPI00001AF26E	.	deleterious(0)	benign(0.011)	7/16	.	hmmpanther:PTHR24168,hmmpanther:PTHR24168:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGACACGTGTG	.	5	BLCA
KANK1	0	.	GRCh37	9	712749	712749	+	Silent	SNP	C	C	T	rs763629960	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1983C>T	p.%3D	p.A661A	ENST00000382303	7/16	17	14	3	33	33	0	KANK1,synonymous_variant,p.%3D,ENST00000382293,;KANK1,synonymous_variant,p.%3D,ENST00000382303,;KANK1,synonymous_variant,p.%3D,ENST00000382297,;KANK1,non_coding_transcript_exon_variant,,ENST00000489369,;KANK1,non_coding_transcript_exon_variant,,ENST00000354485,;	T	ENSG00000107104	ENST00000382303	Transcript	synonymous_variant	2635	1983	661	A	gcC/gcT	rs763629960,COSM1109647	.	.	1	KANK1	HGNC	19309	protein_coding	YES	CCDS34976.1	ENSP00000371740	KANK1_HUMAN	Q8WUM7_HUMAN,Q53U93_HUMAN	UPI00001AF26E	.	.	.	7/16	.	hmmpanther:PTHR24168,hmmpanther:PTHR24168:SF19	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGCCGTCAT	byFrequency	2	BLCA
FAM122A	0	.	GRCh37	9	71395699	71395699	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.619G>A	p.Glu207Lys	p.E207K	ENST00000394264	1/1	110	91	19	114	114	0	FAM122A,missense_variant,p.Glu207Lys,ENST00000394264,;PIP5K1B,intron_variant,,ENST00000437200,;PIP5K1B,intron_variant,,ENST00000377284,;PIP5K1B,intron_variant,,ENST00000440050,;PIP5K1B,intron_variant,,ENST00000541509,;PIP5K1B,intron_variant,,ENST00000265382,;PIP5K1B,intron_variant,,ENST00000472907,;PIP5K1B,intron_variant,,ENST00000478500,;	A	ENSG00000187866	ENST00000394264	Transcript	missense_variant	736	619	207	E/K	Gaa/Aaa	.	.	.	1	FAM122A	HGNC	23490	protein_coding	YES	CCDS6623.1	ENSP00000377807	F122A_HUMAN	B4E242_HUMAN	UPI0000071E32	.	deleterious(0)	probably_damaging(0.925)	1/1	.	hmmpanther:PTHR22227:SF3,hmmpanther:PTHR22227	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AATGTGAAATG	.	5	BLCA
FXN	0	.	GRCh37	9	71687607	71687607	+	Missense_Mutation	SNP	G	G	A	rs776068810	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.562G>A	p.Ala188Thr	p.A188T	ENST00000377270	5/5	77	69	8	116	116	0	FXN,missense_variant,p.Ala86Thr,ENST00000484259,;FXN,missense_variant,p.Ala188Thr,ENST00000377270,;FXN,missense_variant,p.Ala113Thr,ENST00000498653,;FXN,synonymous_variant,p.%3D,ENST00000396366,;FXN,intron_variant,,ENST00000396364,;	A	ENSG00000165060	ENST00000377270	Transcript	missense_variant	1086	562	188	A/T	Gca/Aca	rs776068810	.	.	1	FXN	HGNC	3951	protein_coding	YES	CCDS6626.1	ENSP00000366482	FRDA_HUMAN	C9JAX1_HUMAN	UPI0000062306	.	tolerated(0.92)	benign(0.001)	5/5	.	Superfamily_domains:SSF55387,TIGRFAM_domain:TIGR03421,TIGRFAM_domain:TIGR03422,Pfam_domain:PF01491,Gene3D:3.30.920.10,hmmpanther:PTHR16821:SF0,hmmpanther:PTHR16821,PROSITE_profiles:PS50810,Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCCGCAGAG	byFrequency	4	BLCA
TJP2	0	.	GRCh37	9	71831288	71831288	+	Missense_Mutation	SNP	G	G	A	rs749225630	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.241G>A	p.Gly81Arg	p.G81R	ENST00000539225	3/23	63	53	9	81	81	0	TJP2,missense_variant,p.Gly54Arg,ENST00000535702,;TJP2,missense_variant,p.Gly50Arg,ENST00000348208,;TJP2,missense_variant,p.Gly27Arg,ENST00000423935,;TJP2,missense_variant,p.Gly27Arg,ENST00000453658,;TJP2,missense_variant,p.Gly50Arg,ENST00000377245,;TJP2,missense_variant,p.Gly27Arg,ENST00000377259,;TJP2,missense_variant,p.Gly27Arg,ENST00000606364,;TJP2,missense_variant,p.Gly50Arg,ENST00000265384,;TJP2,missense_variant,p.Gly81Arg,ENST00000539225,;	A	ENSG00000119139	ENST00000539225	Transcript	missense_variant	241	241	81	G/R	Gga/Aga	rs749225630	.	.	1	TJP2	HGNC	11828	protein_coding	YES	CCDS55316.1	ENSP00000438262	ZO2_HUMAN	U3KQJ2_HUMAN,B1AN86_HUMAN	UPI0001C0B37F	.	deleterious(0)	probably_damaging(1)	3/23	.	PROSITE_profiles:PS50106,hmmpanther:PTHR13865:SF26,hmmpanther:PTHR13865,Pfam_domain:PF00595,Gene3D:2.30.42.10,SMART_domains:SM00228,Superfamily_domains:SSF50156	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCCGGAGGC	.	5	BLCA
TRPM3	0	.	GRCh37	9	73240177	73240177	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1703G>A	p.Gly568Glu	p.G568E	ENST00000377110	13/25	35	28	7	31	31	0	TRPM3,missense_variant,p.Gly568Glu,ENST00000377111,;TRPM3,missense_variant,p.Gly440Glu,ENST00000377106,;TRPM3,missense_variant,p.Gly440Glu,ENST00000360823,;TRPM3,missense_variant,p.Gly440Glu,ENST00000358082,;TRPM3,missense_variant,p.Gly440Glu,ENST00000396292,;TRPM3,missense_variant,p.Gly427Glu,ENST00000396280,;TRPM3,missense_variant,p.Gly595Glu,ENST00000423814,;TRPM3,missense_variant,p.Gly427Glu,ENST00000408909,;TRPM3,missense_variant,p.Gly582Glu,ENST00000357533,;TRPM3,missense_variant,p.Gly568Glu,ENST00000377110,;TRPM3,missense_variant,p.Gly427Glu,ENST00000377105,;TRPM3,missense_variant,p.Gly415Glu,ENST00000396285,;	T	ENSG00000083067	ENST00000377110	Transcript	missense_variant	1947	1703	568	G/E	gGg/gAg	.	.	.	-1	TRPM3	HGNC	17992	protein_coding	YES	CCDS43835.1	ENSP00000366314	TRPM3_HUMAN	.	UPI0001596895	.	deleterious(0.01)	probably_damaging(0.928)	13/25	.	hmmpanther:PTHR13800,hmmpanther:PTHR13800:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCCCCGCCC	.	5	BLCA
TMEM2	0	.	GRCh37	9	74365248	74365248	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.42C>G	p.%3D	p.L14L	ENST00000377044	2/24	52	44	7	77	77	0	TMEM2,synonymous_variant,p.%3D,ENST00000377066,;TMEM2,synonymous_variant,p.%3D,ENST00000377044,;TMEM2,synonymous_variant,p.%3D,ENST00000545719,;TMEM2,synonymous_variant,p.%3D,ENST00000542935,;TMEM2,non_coding_transcript_exon_variant,,ENST00000543165,;	C	ENSG00000135048	ENST00000377044	Transcript	synonymous_variant	582	42	14	L	ctC/ctG	.	.	.	-1	TMEM2	HGNC	11869	protein_coding	YES	CCDS6638.1	ENSP00000366243	TMEM2_HUMAN	F5H6B2_HUMAN,B4E1B9_HUMAN,B3KNL9_HUMAN	UPI0000071E8D	.	.	.	2/24	.	hmmpanther:PTHR15535,hmmpanther:PTHR15535:SF17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGTTGGAGGAA	.	5	BLCA
VPS13A	0	.	GRCh37	9	79973272	79973272	+	Splice_Site	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7954-1G>T	.	p.X2652_splice	ENST00000360280	.	46	40	6	42	42	0	VPS13A,splice_acceptor_variant,,ENST00000357409,;VPS13A,splice_acceptor_variant,,ENST00000376634,;VPS13A,splice_acceptor_variant,,ENST00000376636,;VPS13A,splice_acceptor_variant,,ENST00000360280,;VPS13A,downstream_gene_variant,,ENST00000355766,;	T	ENSG00000197969	ENST00000360280	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	VPS13A	HGNC	1908	protein_coding	YES	CCDS6655.1	ENSP00000353422	VP13A_HUMAN	.	UPI0000210B7A	.	.	.	.	56/71	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTAGATCCA	.	2	BLCA
NTRK2	0	.	GRCh37	9	87317107	87317107	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.246C>A	p.%3D	p.I82I	ENST00000376214	5/21	65	59	6	72	72	0	NTRK2,synonymous_variant,p.%3D,ENST00000323115,;NTRK2,synonymous_variant,p.%3D,ENST00000395882,;NTRK2,synonymous_variant,p.%3D,ENST00000376213,;NTRK2,synonymous_variant,p.%3D,ENST00000376208,;NTRK2,synonymous_variant,p.%3D,ENST00000277120,;NTRK2,synonymous_variant,p.%3D,ENST00000376214,;NTRK2,synonymous_variant,p.%3D,ENST00000359847,;NTRK2,synonymous_variant,p.%3D,ENST00000304053,;NTRK2,5_prime_UTR_variant,,ENST00000395866,;	A	ENSG00000148053	ENST00000376214	Transcript	synonymous_variant	1184	246	82	I	atC/atA	.	.	.	1	NTRK2	HGNC	8032	protein_coding	YES	CCDS6671.1	ENSP00000365387	NTRK2_HUMAN	S5MD53_HUMAN,Q8WXJ4_HUMAN	UPI000006FA0D	.	.	.	5/21	.	hmmpanther:PTHR24416:SF136,hmmpanther:PTHR24416,Gene3D:3.80.10.10,Superfamily_domains:SSF52058	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATCATCAACGA	.	4	BLCA
CTSL3P	0	.	GRCh37	9	90396120	90396120	+	RNA	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	n.496C>T	.	.	ENST00000354530	4/5	55	49	6	45	45	0	CTSL3P,non_coding_transcript_exon_variant,,ENST00000354530,;	T	ENSG00000188029	ENST00000354530	Transcript	non_coding_transcript_exon_variant	496	.	.	.	.	.	.	.	1	CTSL3P	HGNC	33132	processed_transcript	.	.	.	.	.	.	.	.	.	4/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AATCTCAGCAG	.	4	BLCA
CDC14B	0	.	GRCh37	9	99266040	99266040	+	Missense_Mutation	SNP	G	G	A	rs765782765	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1492C>T	p.Arg498Cys	p.R498C	ENST00000375241	14/14	87	80	7	104	104	0	CDC14B,missense_variant,p.Arg459Cys,ENST00000375240,;CDC14B,missense_variant,p.Arg461Cys,ENST00000375242,;CDC14B,missense_variant,p.Arg498Cys,ENST00000375241,;CDC14B,3_prime_UTR_variant,,ENST00000463569,;CDC14B,intron_variant,,ENST00000265659,;CDC14B,3_prime_UTR_variant,,ENST00000412285,;CDC14B,intron_variant,,ENST00000474602,;	A	ENSG00000081377	ENST00000375241	Transcript	missense_variant	1944	1492	498	R/C	Cgt/Tgt	rs765782765,COSM1674648,COSM1674646,COSM1674647	.	.	-1	CDC14B	HGNC	1719	protein_coding	YES	CCDS6722.1	ENSP00000364389	CC14B_HUMAN	.	UPI0000072924	.	deleterious_low_confidence(0)	probably_damaging(0.993)	14/14	.	.	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTAACGCAAGA	.	3	BLCA
ARMCX2	0	.	GRCh37	X	100911930	100911930	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.645C>A	p.%3D	p.T215T	ENST00000328766	5/5	34	26	8	38	38	0	ARMCX2,synonymous_variant,p.%3D,ENST00000356824,;ARMCX2,synonymous_variant,p.%3D,ENST00000328766,;ARMCX2,synonymous_variant,p.%3D,ENST00000330154,;ARMCX2,downstream_gene_variant,,ENST00000431597,;ARMCX2,downstream_gene_variant,,ENST00000458024,;ARMCX2,downstream_gene_variant,,ENST00000440675,;ARMCX2,downstream_gene_variant,,ENST00000433318,;ARMCX2,downstream_gene_variant,,ENST00000413506,;ARMCX2,downstream_gene_variant,,ENST00000467416,;ARMCX2,downstream_gene_variant,,ENST00000488982,;ARMCX2,downstream_gene_variant,,ENST00000496581,;ARMCX2,downstream_gene_variant,,ENST00000475854,;ARMCX2,downstream_gene_variant,,ENST00000479333,;	T	ENSG00000184867	ENST00000328766	Transcript	synonymous_variant	1099	645	215	T	acC/acA	.	.	.	-1	ARMCX2	HGNC	16869	protein_coding	YES	CCDS14490.1	ENSP00000331662	ARMX2_HUMAN	Q5H9E1_HUMAN,Q5H9E0_HUMAN,Q5H9D8_HUMAN,Q5H9D7_HUMAN	UPI0000071305	.	.	.	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15712:SF9,hmmpanther:PTHR15712	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCTCGGTAGG	.	5	BLCA
MID1	0	.	GRCh37	X	10417614	10417614	+	Frame_Shift_Del	DEL	G	G	-	rs1802191	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1798delC	p.His600ThrfsTer22	p.H600Tfs*22	ENST00000317552	10/10	60	43	17	67	67	0	MID1,frameshift_variant,p.His600ThrfsTer22,ENST00000380780,;MID1,frameshift_variant,p.His600ThrfsTer22,ENST00000380787,;MID1,frameshift_variant,p.His600ThrfsTer22,ENST00000380779,;MID1,frameshift_variant,p.His600ThrfsTer22,ENST00000453318,;MID1,frameshift_variant,p.His600ThrfsTer22,ENST00000380785,;MID1,frameshift_variant,p.His600ThrfsTer22,ENST00000317552,;MID1,3_prime_UTR_variant,,ENST00000380782,;MID1,non_coding_transcript_exon_variant,,ENST00000479925,;	-	ENSG00000101871	ENST00000317552	Transcript	frameshift_variant	2199	1798	600	H/X	Cac/ac	rs1802191,CD071368	.	.	-1	MID1	HGNC	7095	protein_coding	YES	CCDS14138.1	ENSP00000312678	TRI18_HUMAN	C9JZJ7_HUMAN,C9J453_HUMAN	UPI000012F0E6	.	.	.	10/10	.	Prints_domain:PR01407,Superfamily_domains:SSF49899,SMART_domains:SM00449,Pfam_domain:PF00622,hmmpanther:PTHR24103:SF26,hmmpanther:PTHR24103,PROSITE_profiles:PS50188	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGAGGTGGGGGG	.	3	BLCA
ZCCHC12	0	.	GRCh37	X	117959123	117959123	+	5'UTR	SNP	C	C	A	rs11555627	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-85C>A	.	.	ENST00000310164	4/4	18	13	5	24	24	0	ZCCHC12,5_prime_UTR_variant,,ENST00000310164,;	A	ENSG00000174460	ENST00000310164	Transcript	5_prime_UTR_variant	423	.	.	.	.	rs11555627	.	.	1	ZCCHC12	HGNC	27273	protein_coding	YES	CCDS14574.1	ENSP00000308921	ZCH12_HUMAN	.	UPI00000373C7	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GCCACCTCCTC	.	4	BLCA
CUL4B	0	.	GRCh37	X	119669705	119669706	+	Frame_Shift_Del	DEL	AC	AC	-	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	AC	AC	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2193_2194delGT	p.Leu732LysfsTer5	p.L732Kfs*5	ENST00000404115	18/22	108	82	26	121	121	0	CUL4B,frameshift_variant,p.Leu719LysfsTer5,ENST00000336592,;CUL4B,frameshift_variant,p.Leu714LysfsTer5,ENST00000371322,;CUL4B,frameshift_variant,p.Leu732LysfsTer5,ENST00000404115,;CUL4B,non_coding_transcript_exon_variant,,ENST00000497616,;	-	ENSG00000158290	ENST00000404115	Transcript	frameshift_variant	2595-2596	2193-2194	731-732	VL/VX	gtGTta/gtta	.	.	.	-1	CUL4B	HGNC	2555	protein_coding	YES	CCDS35379.1	ENSP00000384109	CUL4B_HUMAN	.	UPI0000246E48	.	.	.	18/22	.	PROSITE_profiles:PS50069,hmmpanther:PTHR11932,hmmpanther:PTHR11932:SF66,Gene3D:1ldjA05,Pfam_domain:PF00888,SMART_domains:SM00182,Superfamily_domains:SSF75632	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	CTTTTAACACACA	.	3	BLCA
SMARCA1	0	.	GRCh37	X	128622975	128622975	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2036C>G	p.Ser679Cys	p.S679C	ENST00000371122	16/25	30	27	3	48	48	0	SMARCA1,missense_variant,p.Ser679Cys,ENST00000371122,;SMARCA1,missense_variant,p.Ser667Cys,ENST00000371121,;SMARCA1,missense_variant,p.Ser667Cys,ENST00000371123,;	C	ENSG00000102038	ENST00000371122	Transcript	missense_variant	2166	2036	679	S/C	tCt/tGt	.	.	.	-1	SMARCA1	HGNC	11097	protein_coding	YES	CCDS14612.1	ENSP00000360163	SMCA1_HUMAN	F6TQG2_HUMAN	UPI0000161FA6	.	deleterious(0.03)	benign(0.03)	16/25	.	hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF602,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTTTAGAAGCA	.	2	BLCA
CSF2RA	0	.	GRCh37	X	1401600	1401600	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4C>T	p.Leu2Phe	p.L2F	ENST00000417535	1/12	207	190	16	342	341	1	CSF2RA,missense_variant,p.Leu2Phe,ENST00000381524,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000381529,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000355432,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000355805,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000432318,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000419094,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000361536,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000494969,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000417535,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000412290,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000381500,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000381509,;CSF2RA,5_prime_UTR_variant,,ENST00000501036,;CSF2RA,non_coding_transcript_exon_variant,,ENST00000493312,;CSF2RA,upstream_gene_variant,,ENST00000477940,;CSF2RA,downstream_gene_variant,,ENST00000481245,;CSF2RA,missense_variant,p.Leu2Phe,ENST00000486791,;	T	ENSG00000198223	ENST00000417535	Transcript	missense_variant	30	4	2	L/F	Ctt/Ttt	.	.	.	1	CSF2RA	HGNC	2435	protein_coding	YES	CCDS55359.1	ENSP00000394227	CSF2R_HUMAN	J3JS74_HUMAN,J3JS73_HUMAN	UPI000159C3E4	.	tolerated_low_confidence(0.71)	unknown(0)	1/12	.	Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23036:SF84,hmmpanther:PTHR23036	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCATGCTTCTC	.	2	BLCA
GPR50	0	.	GRCh37	X	150349125	150349125	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1070C>T	p.Ala357Val	p.A357V	ENST00000218316	2/2	59	46	12	92	92	0	GPR50,missense_variant,p.Ala357Val,ENST00000218316,;AF003625.3,upstream_gene_variant,,ENST00000602313,;GPR50-AS1,upstream_gene_variant,,ENST00000454196,;	T	ENSG00000102195	ENST00000218316	Transcript	missense_variant	1139	1070	357	A/V	gCt/gTt	.	.	.	1	GPR50	HGNC	4506	protein_coding	YES	CCDS44012.1	ENSP00000218316	MTR1L_HUMAN	.	UPI000013C755	.	tolerated(0.12)	benign(0.039)	2/2	.	Prints_domain:PR01151	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCTGCTGTGG	.	5	BLCA
F8	0	.	GRCh37	X	154157487	154157487	+	Silent	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4578T>C	p.%3D	p.P1526P	ENST00000360256	14/26	94	64	30	81	81	0	F8,synonymous_variant,p.%3D,ENST00000360256,;	G	ENSG00000185010	ENST00000360256	Transcript	synonymous_variant	4779	4578	1526	P	ccT/ccC	.	.	.	-1	F8	HGNC	3546	protein_coding	YES	CCDS35457.1	ENSP00000353393	FA8_HUMAN	Q9UQQ5_HUMAN,Q71UI6_HUMAN,Q2VF45_HUMAN,Q003V9_HUMAN,Q003V5_HUMAN,A0FJ19_HUMAN,A0A2G6_HUMAN	UPI000012A416	.	.	.	14/26	.	hmmpanther:PTHR10127:SF50,hmmpanther:PTHR10127,PIRSF_domain:PIRSF000354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCGTAGGGAA	.	5	BLCA
PDHA1	0	.	GRCh37	X	19371236	19371236	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569C>T	p.Ser190Leu	p.S190L	ENST00000379806	6/12	73	57	15	104	104	0	PDHA1,missense_variant,p.Ser159Leu,ENST00000355808,;PDHA1,missense_variant,p.Ser152Leu,ENST00000422285,;PDHA1,missense_variant,p.Ser190Leu,ENST00000423505,;PDHA1,missense_variant,p.Ser152Leu,ENST00000540249,;PDHA1,missense_variant,p.Ser152Leu,ENST00000379805,;PDHA1,missense_variant,p.Ser190Leu,ENST00000379806,;PDHA1,missense_variant,p.Ser159Leu,ENST00000545074,;PDHA1,upstream_gene_variant,,ENST00000379804,;PDHA1,downstream_gene_variant,,ENST00000417819,;PDHA1,non_coding_transcript_exon_variant,,ENST00000479146,;PDHA1,upstream_gene_variant,,ENST00000481733,;PDHA1,downstream_gene_variant,,ENST00000492364,;PDHA1,upstream_gene_variant,,ENST00000478795,;	T	ENSG00000131828	ENST00000379806	Transcript	missense_variant	714	569	190	S/L	tCg/tTg	.	.	.	1	PDHA1	HGNC	8806	protein_coding	YES	CCDS55380.1	ENSP00000369134	ODPA_HUMAN	Q9UNV7_HUMAN,Q6LCA3_HUMAN,Q5JPU3_HUMAN,Q5JPU1_HUMAN,A5YPB6_HUMAN	UPI0000D4E0D1	.	deleterious(0)	probably_damaging(1)	6/12	.	Superfamily_domains:SSF52518,Gene3D:3.40.50.970,Pfam_domain:PF00676,TIGRFAM_domain:TIGR03182,hmmpanther:PTHR11516:SF28,hmmpanther:PTHR11516	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AGGATCGATGC	.	5	BLCA
EBP	0	.	GRCh37	X	48382311	48382311	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.152G>T	p.Gly51Val	p.G51V	ENST00000495186	2/5	64	48	15	90	90	0	EBP,missense_variant,p.Gly51Val,ENST00000446158,;EBP,missense_variant,p.Gly51Val,ENST00000495186,;EBP,missense_variant,p.Gly51Val,ENST00000414061,;PORCN,downstream_gene_variant,,ENST00000359882,;PORCN,downstream_gene_variant,,ENST00000361988,;PORCN,downstream_gene_variant,,ENST00000355961,;PORCN,downstream_gene_variant,,ENST00000355092,;PORCN,downstream_gene_variant,,ENST00000367574,;PORCN,downstream_gene_variant,,ENST00000537758,;PORCN,downstream_gene_variant,,ENST00000326194,;EBP,splice_region_variant,,ENST00000276096,;EBP,non_coding_transcript_exon_variant,,ENST00000498425,;EBP,upstream_gene_variant,,ENST00000466461,;PORCN,downstream_gene_variant,,ENST00000485288,;PORCN,downstream_gene_variant,,ENST00000472520,;PORCN,downstream_gene_variant,,ENST00000491243,;	T	ENSG00000147155	ENST00000495186	Transcript	missense_variant	975	152	51	G/V	gGt/gTt	.	.	.	1	EBP	HGNC	3133	protein_coding	YES	CCDS14300.1	ENSP00000417052	EBP_HUMAN	C9JJ78_HUMAN,C9J719_HUMAN	UPI000000DB82	.	deleterious(0)	possibly_damaging(0.853)	2/5	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR14207:SF0,hmmpanther:PTHR14207,Pfam_domain:PF05241	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A54V|c.161C>T|3,BUFFER|p.A54A|c.162G>T|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCAGGTCGTG	.	5	BLCA
GSPT2	0	.	GRCh37	X	51486903	51486903	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.181C>T	p.Pro61Ser	p.P61S	ENST00000340438	1/1	18	13	5	24	24	0	GSPT2,missense_variant,p.Pro61Ser,ENST00000340438,;	T	ENSG00000189369	ENST00000340438	Transcript	missense_variant	423	181	61	P/S	Cct/Tct	.	.	.	1	GSPT2	HGNC	4622	protein_coding	YES	CCDS14336.1	ENSP00000341247	ERF3B_HUMAN	.	UPI0000073899	.	deleterious_low_confidence(0)	probably_damaging(0.911)	1/1	.	Pfam_domain:PF07145	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCGTGCCTAAC	.	2	BLCA
EDA	0	.	GRCh37	X	69253281	69253281	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.827G>A	p.Arg276His	p.R276H	ENST00000374552	7/8	80	58	21	95	95	0	EDA,missense_variant,p.Arg276His,ENST00000374553,;EDA,missense_variant,p.Arg273His,ENST00000524573,;EDA,missense_variant,p.Arg276His,ENST00000374552,;EDA,downstream_gene_variant,,ENST00000503592,;	A	ENSG00000158813	ENST00000374552	Transcript	missense_variant	1069	827	276	R/H	cGc/cAc	.	.	.	1	EDA	HGNC	3157	protein_coding	YES	CCDS14394.1	ENSP00000363680	EDA_HUMAN	D6RA95_HUMAN	UPI0000052244	.	deleterious_low_confidence(0.01)	probably_damaging(0.954)	7/8	.	PROSITE_profiles:PS50049,hmmpanther:PTHR24023:SF62,hmmpanther:PTHR24023,Gene3D:2.60.120.40,Superfamily_domains:SSF49842	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTCGCATCA	.	5	BLCA
BRWD3	0	.	GRCh37	X	79971671	79971671	+	Silent	SNP	A	A	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2310T>G	p.%3D	p.S770S	ENST00000373275	20/41	59	36	23	51	51	0	BRWD3,synonymous_variant,p.%3D,ENST00000373275,;BRWD3,non_coding_transcript_exon_variant,,ENST00000473691,;BRWD3,downstream_gene_variant,,ENST00000497335,;	C	ENSG00000165288	ENST00000373275	Transcript	synonymous_variant	2527	2310	770	S	tcT/tcG	.	.	.	-1	BRWD3	HGNC	17342	protein_coding	YES	CCDS14447.1	ENSP00000362372	BRWD3_HUMAN	.	UPI000045785B	.	.	.	20/41	.	hmmpanther:PTHR16266:SF25,hmmpanther:PTHR16266	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGTAAGATGG	.	5	BLCA
TGIF2LX	0	.	GRCh37	X	89177637	89177637	+	Missense_Mutation	SNP	G	G	A	rs754800415	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.553G>A	p.Gly185Arg	p.G185R	ENST00000561129	1/1	23	16	7	30	30	0	TGIF2LX,missense_variant,p.Gly185Arg,ENST00000283891,;TGIF2LX,missense_variant,p.Gly185Arg,ENST00000561129,;	A	ENSG00000153779	ENST00000561129	Transcript	missense_variant	683	553	185	G/R	Gga/Aga	rs754800415,COSM1469824	.	.	1	TGIF2LX	HGNC	18570	protein_coding	YES	CCDS14459.1	ENSP00000453704	TF2LX_HUMAN	.	UPI0000074793	.	tolerated(0.63)	benign(0.012)	1/1	.	hmmpanther:PTHR11850,hmmpanther:PTHR11850:SF16	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACCGGAATA	byFrequency	5	BLCA
DIAPH2	0	.	GRCh37	X	95993700	95993700	+	Missense_Mutation	SNP	A	A	G	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.281A>G	p.Tyr94Cys	p.Y94C	ENST00000324765	3/27	47	34	13	44	44	0	DIAPH2,missense_variant,p.Tyr83Cys,ENST00000373054,;DIAPH2,missense_variant,p.Tyr94Cys,ENST00000355827,;DIAPH2,missense_variant,p.Tyr94Cys,ENST00000324765,;DIAPH2,missense_variant,p.Tyr94Cys,ENST00000373049,;DIAPH2,missense_variant,p.Tyr94Cys,ENST00000373061,;	G	ENSG00000147202	ENST00000324765	Transcript	missense_variant	628	281	94	Y/C	tAt/tGt	.	.	.	1	DIAPH2	HGNC	2877	protein_coding	YES	CCDS14467.1	ENSP00000321348	DIAP2_HUMAN	.	UPI00001293C8	.	tolerated(0.18)	unknown(0)	3/27	.	hmmpanther:PTHR23213:SF174,hmmpanther:PTHR23213	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATTATATGATG	.	3	BLCA
DIAPH2	0	.	GRCh37	X	95993712	95993712	+	Missense_Mutation	SNP	C	C	G	rs751649835	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.293C>G	p.Ser98Cys	p.S98C	ENST00000324765	3/27	52	39	12	48	48	0	DIAPH2,missense_variant,p.Ser87Cys,ENST00000373054,;DIAPH2,missense_variant,p.Ser98Cys,ENST00000355827,;DIAPH2,missense_variant,p.Ser98Cys,ENST00000324765,;DIAPH2,missense_variant,p.Ser98Cys,ENST00000373049,;DIAPH2,missense_variant,p.Ser98Cys,ENST00000373061,;	G	ENSG00000147202	ENST00000324765	Transcript	missense_variant	640	293	98	S/C	tCt/tGt	rs751649835	.	.	1	DIAPH2	HGNC	2877	protein_coding	YES	CCDS14467.1	ENSP00000321348	DIAP2_HUMAN	.	UPI00001293C8	.	tolerated(0.16)	unknown(0)	3/27	.	PROSITE_profiles:PS51232,hmmpanther:PTHR23213:SF174,hmmpanther:PTHR23213	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACGATCTTTGA	byFrequency	3	BLCA
RPA4	0	.	GRCh37	X	96139744	96139744	+	Silent	SNP	T	T	C	novel	.	TCGA-ZF-AA4W-01A-12D-A38G-08	TCGA-ZF-AA4W-10A-01D-A38J-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.435T>C	p.%3D	p.I145I	ENST00000373040	1/1	50	39	11	64	64	0	RPA4,synonymous_variant,p.%3D,ENST00000373040,;DIAPH2,intron_variant,,ENST00000373054,;DIAPH2,intron_variant,,ENST00000355827,;DIAPH2,intron_variant,,ENST00000324765,;DIAPH2,intron_variant,,ENST00000373049,;DIAPH2,intron_variant,,ENST00000373061,;	C	ENSG00000204086	ENST00000373040	Transcript	synonymous_variant	838	435	145	I	atT/atC	.	.	.	1	RPA4	HGNC	30305	protein_coding	YES	CCDS35345.1	ENSP00000362131	RFA4_HUMAN	.	UPI00001337A4	.	.	.	1/1	.	hmmpanther:PTHR13989:SF12,hmmpanther:PTHR13989,Pfam_domain:PF01336,Gene3D:2.40.50.140,PIRSF_domain:PIRSF036949,Superfamily_domains:SSF50249	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAAATTCATGT	.	5	BLCA
HPS1	0	.	GRCh37	10	100189617	100189617	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.798G>C	p.Gln266His	p.Q266H	ENST00000325103	9/20	87	76	11	83	83	0	HPS1,missense_variant,p.Gln266His,ENST00000338546,;HPS1,missense_variant,p.Gln266His,ENST00000361490,;HPS1,missense_variant,p.Gln266His,ENST00000325103,;HPS1,intron_variant,,ENST00000414009,;HPS1,intron_variant,,ENST00000359632,;MIR4685,downstream_gene_variant,,ENST00000578185,;HPS1,intron_variant,,ENST00000478087,;HPS1,intron_variant,,ENST00000470095,;HPS1,intron_variant,,ENST00000467246,;HPS1,intron_variant,,ENST00000498219,;HPS1,downstream_gene_variant,,ENST00000480020,;HPS1,upstream_gene_variant,,ENST00000497527,;	G	ENSG00000107521	ENST00000325103	Transcript	missense_variant	1032	798	266	Q/H	caG/caC	.	.	.	-1	HPS1	HGNC	5163	protein_coding	YES	CCDS7475.1	ENSP00000326649	HPS1_HUMAN	.	UPI000006D5B0	.	tolerated(0.1)	benign(0.018)	9/20	.	hmmpanther:PTHR12761	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE	ATGTTCTGGCT	.	2	BLCA
INPP5A	0	.	GRCh37	10	134563304	134563304	+	Silent	SNP	C	C	T	rs149439109	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858C>T	p.%3D	p.F286F	ENST00000368594	11/16	111	103	8	103	102	1	INPP5A,synonymous_variant,p.%3D,ENST00000368593,;INPP5A,synonymous_variant,p.%3D,ENST00000368594,;INPP5A,intron_variant,,ENST00000342652,;INPP5A,non_coding_transcript_exon_variant,,ENST00000498337,;	T	ENSG00000068383	ENST00000368594	Transcript	synonymous_variant	1135	858	286	F	ttC/ttT	rs149439109	.	.	1	INPP5A	HGNC	6076	protein_coding	YES	CCDS7669.2	ENSP00000357583	I5P1_HUMAN	Q4VAR4_HUMAN,Q149S6_HUMAN	UPI000012D085	.	.	.	11/16	.	SMART_domains:SM00128,Pfam_domain:PF03372,Gene3D:3.60.10.10,hmmpanther:PTHR12997,hmmpanther:PTHR12997:SF7	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0005	T:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTCGACTA	byCluster|by1000G	2	BLCA
LARP4B	0	.	GRCh37	10	858801	858801	+	3'UTR	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*65C>G	.	.	ENST00000316157	17/17	49	42	6	25	25	0	LARP4B,3_prime_UTR_variant,,ENST00000316157,;LARP4B,3_prime_UTR_variant,,ENST00000448368,;LARP4B,downstream_gene_variant,,ENST00000440895,;LARP4B,downstream_gene_variant,,ENST00000469487,;LARP4B,non_coding_transcript_exon_variant,,ENST00000609318,;LARP4B,downstream_gene_variant,,ENST00000608970,;	C	ENSG00000107929	ENST00000316157	Transcript	3_prime_UTR_variant	2323	.	.	.	.	.	.	.	-1	LARP4B	HGNC	28987	protein_coding	YES	CCDS31131.1	ENSP00000326128	LAR4B_HUMAN	B5MCU2_HUMAN	UPI00001F8C87	.	.	.	17/17	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACTGAGTGG	.	4	BLCA
LARP4B	0	.	GRCh37	10	860754	860754	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1857C>T	p.%3D	p.H619H	ENST00000316157	16/17	11	8	3	27	27	0	LARP4B,synonymous_variant,p.%3D,ENST00000440895,;LARP4B,synonymous_variant,p.%3D,ENST00000316157,;LARP4B,synonymous_variant,p.%3D,ENST00000448368,;LARP4B,non_coding_transcript_exon_variant,,ENST00000469487,;LARP4B,non_coding_transcript_exon_variant,,ENST00000608970,;LARP4B,non_coding_transcript_exon_variant,,ENST00000609318,;	A	ENSG00000107929	ENST00000316157	Transcript	synonymous_variant	1898	1857	619	H	caC/caT	.	.	.	-1	LARP4B	HGNC	28987	protein_coding	YES	CCDS31131.1	ENSP00000326128	LAR4B_HUMAN	B5MCU2_HUMAN	UPI00001F8C87	.	.	.	16/17	.	hmmpanther:PTHR22792,hmmpanther:PTHR22792:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACACTGTGGGT	.	2	BLCA
LARP4B	0	.	GRCh37	10	861005	861005	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1701C>T	p.%3D	p.L567L	ENST00000316157	15/17	36	29	7	28	28	0	LARP4B,synonymous_variant,p.%3D,ENST00000440895,;LARP4B,synonymous_variant,p.%3D,ENST00000316157,;LARP4B,synonymous_variant,p.%3D,ENST00000448368,;LARP4B,non_coding_transcript_exon_variant,,ENST00000469487,;LARP4B,non_coding_transcript_exon_variant,,ENST00000608970,;LARP4B,non_coding_transcript_exon_variant,,ENST00000609318,;	A	ENSG00000107929	ENST00000316157	Transcript	synonymous_variant	1742	1701	567	L	ctC/ctT	.	.	.	-1	LARP4B	HGNC	28987	protein_coding	YES	CCDS31131.1	ENSP00000326128	LAR4B_HUMAN	B5MCU2_HUMAN	UPI00001F8C87	.	.	.	15/17	.	hmmpanther:PTHR22792,hmmpanther:PTHR22792:SF43	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCACTGAGGGT	.	5	BLCA
MINPP1	0	.	GRCh37	10	89268278	89268278	+	Missense_Mutation	SNP	G	G	A	rs766423567	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.823G>A	p.Asp275Asn	p.D275N	ENST00000371996	2/5	42	30	12	62	62	0	MINPP1,missense_variant,p.Asp275Asn,ENST00000371996,;MINPP1,missense_variant,p.Asp74Asn,ENST00000536010,;MINPP1,missense_variant,p.Asp275Asn,ENST00000371994,;	A	ENSG00000107789	ENST00000371996	Transcript	missense_variant	864	823	275	D/N	Gat/Aat	rs766423567	.	.	1	MINPP1	HGNC	7102	protein_coding	YES	CCDS7384.1	ENSP00000361064	MINP1_HUMAN	B4E394_HUMAN	UPI0000035984	.	tolerated(0.84)	benign(0.012)	2/5	.	hmmpanther:PTHR20963,hmmpanther:PTHR20963:SF8,Pfam_domain:PF00328,Gene3D:3.40.50.1240,PIRSF_domain:PIRSF000894,Superfamily_domains:SSF53254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAAATGATTTA	.	5	BLCA
DNTT	0	.	GRCh37	10	98078233	98078233	+	Missense_Mutation	SNP	T	T	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328T>C	p.Cys110Arg	p.C110R	ENST00000371174	2/11	76	69	7	82	82	0	DNTT,missense_variant,p.Cys110Arg,ENST00000419175,;DNTT,missense_variant,p.Cys110Arg,ENST00000371174,;	C	ENSG00000107447	ENST00000371174	Transcript	missense_variant	430	328	110	C/R	Tgc/Cgc	.	.	.	1	DNTT	HGNC	2983	protein_coding	YES	CCDS7447.1	ENSP00000360216	TDT_HUMAN	.	UPI000013C84B	.	deleterious(0.03)	probably_damaging(0.956)	2/11	.	PROSITE_profiles:PS50172,hmmpanther:PTHR11276:SF21,hmmpanther:PTHR11276,Pfam_domain:PF00533,Gene3D:3.40.50.10190,SMART_domains:SM00292,PIRSF_domain:PIRSF501175,PIRSF_domain:PIRSF000817,Superfamily_domains:SSF52113,Prints_domain:PR00871	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCGAATGCATA	.	4	BLCA
ARHGAP19	0	.	GRCh37	10	99025636	99025636	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.303C>T	p.%3D	p.L101L	ENST00000358531	2/12	63	50	12	75	74	0	ARHGAP19,synonymous_variant,p.%3D,ENST00000371027,;ARHGAP19,synonymous_variant,p.%3D,ENST00000358531,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000316676,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000453547,;ARHGAP19,synonymous_variant,p.%3D,ENST00000355366,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000358308,;ARHGAP19,intron_variant,,ENST00000466484,;ARHGAP19,synonymous_variant,p.%3D,ENST00000492211,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000479633,;ARHGAP19,non_coding_transcript_exon_variant,,ENST00000493068,;	A	ENSG00000213390	ENST00000358531	Transcript	synonymous_variant	332	303	101	L	ctC/ctT	.	.	.	-1	ARHGAP19	HGNC	23724	protein_coding	YES	CCDS7454.2	ENSP00000351333	RHG19_HUMAN	Q8NA01_HUMAN	UPI000013EA3D	.	.	.	2/12	.	hmmpanther:PTHR14963:SF2,hmmpanther:PTHR14963	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GACATGAGAGA	.	5	BLCA
ARHGAP19	0	.	GRCh37	10	99025873	99025873	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.66C>T	p.%3D	p.I22I	ENST00000358531	2/12	73	65	7	81	81	0	ARHGAP19,synonymous_variant,p.%3D,ENST00000466484,;ARHGAP19,synonymous_variant,p.%3D,ENST00000371027,;ARHGAP19,synonymous_variant,p.%3D,ENST00000358531,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000316676,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000453547,;ARHGAP19,synonymous_variant,p.%3D,ENST00000355366,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000358308,;ARHGAP19,synonymous_variant,p.%3D,ENST00000492211,;ARHGAP19-SLIT1,synonymous_variant,p.%3D,ENST00000479633,;ARHGAP19,non_coding_transcript_exon_variant,,ENST00000493068,;	A	ENSG00000213390	ENST00000358531	Transcript	synonymous_variant	95	66	22	I	atC/atT	.	.	.	-1	ARHGAP19	HGNC	23724	protein_coding	YES	CCDS7454.2	ENSP00000351333	RHG19_HUMAN	Q8NA01_HUMAN	UPI000013EA3D	.	.	.	2/12	.	hmmpanther:PTHR14963:SF2,hmmpanther:PTHR14963	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGCAGATGGC	.	3	BLCA
HTR3A	0	.	GRCh37	11	113857573	113857573	+	Missense_Mutation	SNP	C	C	G	rs543634518	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1057C>G	p.Leu353Val	p.L353V	ENST00000355556	7/8	39	33	5	71	70	1	HTR3A,missense_variant,p.Leu353Val,ENST00000355556,;HTR3A,missense_variant,p.Leu300Val,ENST00000299961,;HTR3A,missense_variant,p.Leu315Val,ENST00000504030,;HTR3A,missense_variant,p.Leu321Val,ENST00000375498,;HTR3A,missense_variant,p.Leu347Val,ENST00000506841,;HTR3A,missense_variant,p.Leu59Val,ENST00000535865,;HTR3A,3_prime_UTR_variant,,ENST00000510849,;HTR3A,non_coding_transcript_exon_variant,,ENST00000502622,;	G	ENSG00000166736	ENST00000355556	Transcript	missense_variant	1290	1057	353	L/V	Ctg/Gtg	rs543634518	.	.	1	HTR3A	HGNC	5297	protein_coding	YES	CCDS8366.2	ENSP00000347754	5HT3A_HUMAN	B3VRK0_HUMAN,B3VRJ5_HUMAN,B3VRI5_HUMAN,B3VRI0_HUMAN,B3VRH5_HUMAN,B3VRH0_HUMAN,B3VRG5_HUMAN,B3VRG0_HUMAN	UPI000013F7F1	.	deleterious(0)	probably_damaging(0.919)	7/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR18945:SF52,hmmpanther:PTHR18945,Pfam_domain:PF02932,Gene3D:1.20.120.370,Superfamily_domains:SSF90112,Prints_domain:PR01708	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGGCTCTGCTG	by1000G	3	BLCA
MUC5B	0	.	GRCh37	11	1261561	1261561	+	Missense_Mutation	SNP	C	C	T	rs200226020	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3926C>T	p.Thr1309Met	p.T1309M	ENST00000529681	30/49	81	72	8	69	69	0	MUC5B,missense_variant,p.Thr1309Met,ENST00000529681,;MUC5B,missense_variant,p.Thr1312Met,ENST00000447027,;RP11-532E4.2,downstream_gene_variant,,ENST00000532061,;MUC5B,downstream_gene_variant,,ENST00000525715,;	T	ENSG00000117983	ENST00000529681	Transcript	missense_variant	3984	3926	1309	T/M	aCg/aTg	rs200226020	.	.	1	MUC5B	HGNC	7516	protein_coding	YES	CCDS44515.2	ENSP00000436812	MUC5B_HUMAN	Q93043_HUMAN	UPI0001DD21C7	.	.	unknown(0)	30/49	.	Low_complexity_(Seg):seg,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF237	T:0.0008	T:0	T:0	.	T:0.004	T:0	T:0	T:0.0007	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CACAACGCCAT	byFrequency|byCluster|by1000G	4	BLCA
PRMT3	0	.	GRCh37	11	20424521	20424521	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.762C>G	p.Phe254Leu	p.F254L	ENST00000331079	8/16	54	51	3	76	76	0	PRMT3,missense_variant,p.Phe192Leu,ENST00000437750,;PRMT3,missense_variant,p.Phe254Leu,ENST00000331079,;PRMT3,3_prime_UTR_variant,,ENST00000330796,;PRMT3,upstream_gene_variant,,ENST00000529592,;	G	ENSG00000185238	ENST00000331079	Transcript	missense_variant	979	762	254	F/L	ttC/ttG	.	.	.	1	PRMT3	HGNC	30163	protein_coding	YES	CCDS7853.1	ENSP00000331879	ANM3_HUMAN	.	UPI0000198DED	.	.	possibly_damaging(0.763)	8/16	.	PROSITE_profiles:PS51678,hmmpanther:PTHR11006:SF45,hmmpanther:PTHR11006,Gene3D:3.40.50.150,Superfamily_domains:SSF53335	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATCTTCAAAGA	.	2	BLCA
F2	0	.	GRCh37	11	46748311	46748311	+	Missense_Mutation	SNP	G	G	C	rs121918484	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1054G>C	p.Glu352Gln	p.E352Q	ENST00000311907	9/14	74	66	8	62	62	0	F2,missense_variant,p.Glu352Gln,ENST00000530231,;F2,missense_variant,p.Glu352Gln,ENST00000311907,;F2,downstream_gene_variant,,ENST00000442468,;F2,downstream_gene_variant,,ENST00000490274,;	C	ENSG00000180210	ENST00000311907	Transcript	missense_variant	1110	1054	352	E/Q	Gaa/Caa	rs121918484,CM000011,COSM239762	.	.	1	F2	HGNC	3535	protein_coding	YES	CCDS31476.1	ENSP00000308541	THRB_HUMAN	Q8TD58_HUMAN,Q86WA1_HUMAN	UPI0000136ECD	.	deleterious(0.01)	probably_damaging(0.989)	9/14	.	hmmpanther:PTHR24254,hmmpanther:PTHR24254:SF8,Gene3D:4.10.140.10,Pfam_domain:PF09396,PIRSF_domain:PIRSF001149,Superfamily_domains:SSF50494,Prints_domain:PR01505	.	.	.	.	.	.	.	.	.	pathogenic	0,0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	AAACCGAAAGA	byCluster	4	BLCA
OR5A1	0	.	GRCh37	11	59210981	59210981	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.340G>A	p.Glu114Lys	p.E114K	ENST00000302030	1/1	166	132	34	197	197	0	OR5A1,missense_variant,p.Glu114Lys,ENST00000302030,;	A	ENSG00000172320	ENST00000302030	Transcript	missense_variant	365	340	114	E/K	Gag/Aag	.	.	.	1	OR5A1	HGNC	8319	protein_coding	YES	CCDS31561.1	ENSP00000303096	OR5A1_HUMAN	.	UPI0000041C97	.	deleterious(0)	probably_damaging(0.968)	1/1	.	Transmembrane_helices:TMhelix,Prints_domain:PR00237,Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,PROSITE_patterns:PS00237,hmmpanther:PTHR26452:SF176,hmmpanther:PTHR26452,PROSITE_profiles:PS50262	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGTCTGAGTGC	.	5	BLCA
TMEM138	0	.	GRCh37	11	61135339	61135339	+	Intron	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.301-56G>C	.	.	ENST00000278826	.	108	102	6	138	137	1	TMEM138,3_prime_UTR_variant,,ENST00000542946,;TMEM138,intron_variant,,ENST00000381787,;TMEM138,intron_variant,,ENST00000278826,;TMEM138,intron_variant,,ENST00000451389,;TMEM138,intron_variant,,ENST00000545420,;TMEM138,downstream_gene_variant,,ENST00000540194,;TMEM138,non_coding_transcript_exon_variant,,ENST00000539776,;TMEM138,intron_variant,,ENST00000507563,;TMEM138,intron_variant,,ENST00000423772,;TMEM138,downstream_gene_variant,,ENST00000543594,;TMEM138,upstream_gene_variant,,ENST00000543833,;TMEM138,downstream_gene_variant,,ENST00000534963,;	C	ENSG00000149483	ENST00000278826	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	TMEM138	HGNC	26944	protein_coding	YES	CCDS8005.1	ENSP00000278826	TM138_HUMAN	J3QSZ6_HUMAN	UPI0000037795	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGTTGGAGACA	.	2	BLCA
PCNXL3	0	.	GRCh37	11	65392933	65392933	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3087C>T	p.%3D	p.A1029A	ENST00000355703	18/35	47	35	12	42	42	0	PCNXL3,synonymous_variant,p.%3D,ENST00000355703,;PCNXL3,upstream_gene_variant,,ENST00000531280,;PCNXL3,downstream_gene_variant,,ENST00000531045,;PCNXL3,non_coding_transcript_exon_variant,,ENST00000530174,;PCNXL3,upstream_gene_variant,,ENST00000439247,;	T	ENSG00000197136	ENST00000355703	Transcript	synonymous_variant	3626	3087	1029	A	gcC/gcT	.	.	.	1	PCNXL3	HGNC	18760	protein_coding	YES	CCDS44650.1	ENSP00000347931	PCX3_HUMAN	.	UPI0000405B22	.	.	.	18/35	.	hmmpanther:PTHR12372,hmmpanther:PTHR12372:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGCCCGGGC	.	5	BLCA
SLC29A2	0	.	GRCh37	11	66133473	66133473	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.993C>G	p.Ile331Met	p.I331M	ENST00000357440	10/12	26	23	3	52	52	0	SLC29A2,missense_variant,p.Leu287Val,ENST00000311161,;SLC29A2,missense_variant,p.Ile331Met,ENST00000546034,;SLC29A2,missense_variant,p.Ile331Met,ENST00000544554,;SLC29A2,missense_variant,p.Ile331Met,ENST00000357440,;RP11-867G23.8,downstream_gene_variant,,ENST00000531602,;RP11-867G23.8,downstream_gene_variant,,ENST00000580881,;SLC29A2,3_prime_UTR_variant,,ENST00000540386,;SLC29A2,3_prime_UTR_variant,,ENST00000541567,;	C	ENSG00000174669	ENST00000357440	Transcript	missense_variant	1222	993	331	I/M	atC/atG	.	.	.	-1	SLC29A2	HGNC	11004	protein_coding	YES	CCDS8137.1	ENSP00000350024	S29A2_HUMAN	.	UPI000013F0E7	.	deleterious(0)	possibly_damaging(0.85)	10/12	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10332:SF8,hmmpanther:PTHR10332,Pfam_domain:PF01733,TIGRFAM_domain:TIGR00939,PIRSF_domain:PIRSF016379,Superfamily_domains:SSF103473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CAGCAGATGGG	.	2	BLCA
AIP	0	.	GRCh37	11	67257846	67257846	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705C>T	p.%3D	p.L235L	ENST00000279146	5/6	28	25	3	24	24	0	AIP,synonymous_variant,p.%3D,ENST00000528641,;AIP,synonymous_variant,p.%3D,ENST00000279146,;AIP,synonymous_variant,p.%3D,ENST00000525341,;PITPNM1,downstream_gene_variant,,ENST00000436757,;PITPNM1,downstream_gene_variant,,ENST00000356404,;PITPNM1,downstream_gene_variant,,ENST00000534749,;PITPNM1,downstream_gene_variant,,ENST00000525568,;PITPNM1,downstream_gene_variant,,ENST00000526450,;PITPNM1,downstream_gene_variant,,ENST00000526602,;AIP,downstream_gene_variant,,ENST00000529797,;PITPNM1,downstream_gene_variant,,ENST00000527370,;	T	ENSG00000110711	ENST00000279146	Transcript	synonymous_variant	823	705	235	L	ctC/ctT	.	.	.	1	AIP	HGNC	358	protein_coding	YES	CCDS8168.1	ENSP00000279146	AIP_HUMAN	E5L4L0_HUMAN,B3TMT2_HUMAN,A8BQF1_HUMAN,A7YDK7_HUMAN,A7YDK6_HUMAN,A7YDK2_HUMAN,A7YDK1_HUMAN,A7KS94_HUMAN,A7KS93_HUMAN,A3RDR8_HUMAN	UPI000013DBC1	.	.	.	5/6	.	hmmpanther:PTHR11242,hmmpanther:PTHR11242:SF3,Gene3D:1.25.40.10,Superfamily_domains:SSF48452	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCAACTA	.	2	BLCA
ANO1	0	.	GRCh37	11	70028709	70028709	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2505C>G	p.%3D	p.L835L	ENST00000355303	24/26	114	104	10	30	30	0	ANO1,synonymous_variant,p.%3D,ENST00000531349,;ANO1,synonymous_variant,p.%3D,ENST00000538023,;ANO1,synonymous_variant,p.%3D,ENST00000398543,;ANO1,synonymous_variant,p.%3D,ENST00000530676,;ANO1,synonymous_variant,p.%3D,ENST00000355303,;ANO1,non_coding_transcript_exon_variant,,ENST00000525494,;ANO1,downstream_gene_variant,,ENST00000529636,;	G	ENSG00000131620	ENST00000355303	Transcript	synonymous_variant	2810	2505	835	L	ctC/ctG	.	.	.	1	ANO1	HGNC	21625	protein_coding	YES	CCDS44663.1	ENSP00000347454	ANO1_HUMAN	.	UPI000013CE03	.	.	.	24/26	.	hmmpanther:PTHR12308,hmmpanther:PTHR12308:SF13,Pfam_domain:PF04547	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCCTCTCCTC	.	3	BLCA
PPFIBP2	0	.	GRCh37	11	7654108	7654108	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1079G>C	p.Arg360Thr	p.R360T	ENST00000299492	12/24	16	13	3	41	41	0	PPFIBP2,missense_variant,p.Arg40Thr,ENST00000534409,;PPFIBP2,missense_variant,p.Arg248Thr,ENST00000528883,;PPFIBP2,missense_variant,p.Arg4Thr,ENST00000530081,;PPFIBP2,missense_variant,p.Arg217Thr,ENST00000530181,;PPFIBP2,missense_variant,p.Arg360Thr,ENST00000299492,;PPFIBP2,missense_variant,p.Arg202Thr,ENST00000533792,;PPFIBP2,downstream_gene_variant,,ENST00000529575,;PPFIBP2,non_coding_transcript_exon_variant,,ENST00000530582,;PPFIBP2,intron_variant,,ENST00000532926,;PPFIBP2,intron_variant,,ENST00000529021,;PPFIBP2,non_coding_transcript_exon_variant,,ENST00000532381,;PPFIBP2,downstream_gene_variant,,ENST00000532416,;	C	ENSG00000166387	ENST00000299492	Transcript	missense_variant	1467	1079	360	R/T	aGa/aCa	.	.	.	1	PPFIBP2	HGNC	9250	protein_coding	YES	CCDS31419.1	ENSP00000299492	LIPB2_HUMAN	E9PP16_HUMAN,E9PMN3_HUMAN,E9PMH3_HUMAN,E9PK17_HUMAN,E9PJA0_HUMAN,E9PIK8_HUMAN,B3KM46_HUMAN	UPI00001C1EF8	.	tolerated(0.15)	benign(0.056)	12/24	.	hmmpanther:PTHR12587:SF18,hmmpanther:PTHR12587	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCAAGATGTA	.	2	BLCA
RSF1	0	.	GRCh37	11	77412014	77412014	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2260G>C	p.Glu754Gln	p.E754Q	ENST00000308488	6/16	174	144	30	220	220	0	RSF1,missense_variant,p.Glu754Gln,ENST00000308488,;RSF1,missense_variant,p.Glu723Gln,ENST00000360355,;RSF1,missense_variant,p.Glu555Gln,ENST00000526324,;RSF1,missense_variant,p.Glu502Gln,ENST00000480887,;RSF1,missense_variant,p.Glu11Gln,ENST00000532556,;RSF1,upstream_gene_variant,,ENST00000531026,;RSF1,downstream_gene_variant,,ENST00000528095,;RSF1,downstream_gene_variant,,ENST00000534794,;RSF1,upstream_gene_variant,,ENST00000531768,;	G	ENSG00000048649	ENST00000308488	Transcript	missense_variant	2563	2260	754	E/Q	Gaa/Caa	.	.	.	-1	RSF1	HGNC	18118	protein_coding	YES	CCDS8253.1	ENSP00000311513	RSF1_HUMAN	H0YER1_HUMAN,H0YDG9_HUMAN,H0YCN2_HUMAN	UPI00001FB001	.	tolerated(0.21)	benign(0.096)	6/16	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10615,hmmpanther:PTHR10615:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTTCTAGAA	.	4	BLCA
FAT3	0	.	GRCh37	11	92573783	92573783	+	Missense_Mutation	SNP	C	C	A	rs755487637	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10424C>A	p.Ser3475Tyr	p.S3475Y	ENST00000298047	17/27	23	20	3	38	38	0	FAT3,missense_variant,p.Ser3475Tyr,ENST00000298047,;FAT3,missense_variant,p.Ser3475Tyr,ENST00000409404,;FAT3,missense_variant,p.Ser3325Tyr,ENST00000525166,;FAT3,upstream_gene_variant,,ENST00000533797,;	A	ENSG00000165323	ENST00000298047	Transcript	missense_variant	10441	10424	3475	S/Y	tCc/tAc	rs755487637	.	.	1	FAT3	HGNC	23112	protein_coding	YES	.	ENSP00000298047	FAT3_HUMAN	E9PQ73_HUMAN	UPI000050B6C6	.	.	probably_damaging(0.992)	17/27	.	Superfamily_domains:SSF49313,SMART_domains:SM00112,Gene3D:2.60.40.60,Pfam_domain:PF00028,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF33,PROSITE_profiles:PS50268	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGACTCCTTTC	.	2	BLCA
PARPBP	0	.	GRCh37	12	102542188	102542188	+	Missense_Mutation	SNP	C	C	G	rs148169413	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.334C>G	p.Gln112Glu	p.Q112E	ENST00000358383	3/11	80	75	5	91	91	0	PARPBP,missense_variant,p.Gln112Glu,ENST00000358383,;PARPBP,missense_variant,p.Gln112Glu,ENST00000537257,;PARPBP,missense_variant,p.Gln112Glu,ENST00000378128,;PARPBP,missense_variant,p.Gln112Glu,ENST00000541394,;PARPBP,missense_variant,p.Gln79Glu,ENST00000417507,;PARPBP,missense_variant,p.Gln31Glu,ENST00000327680,;PARPBP,missense_variant,p.Gln79Glu,ENST00000412715,;PARPBP,missense_variant,p.Gln31Glu,ENST00000392911,;PARPBP,intron_variant,,ENST00000543784,;PARPBP,non_coding_transcript_exon_variant,,ENST00000541668,;PARPBP,intron_variant,,ENST00000535811,;PARPBP,missense_variant,p.Gln112Glu,ENST00000392909,;PARPBP,non_coding_transcript_exon_variant,,ENST00000392914,;PARPBP,intron_variant,,ENST00000457614,;	G	ENSG00000185480	ENST00000358383	Transcript	missense_variant	379	334	112	Q/E	Caa/Gaa	rs148169413	.	.	1	PARPBP	HGNC	26074	protein_coding	YES	CCDS9090.2	ENSP00000351153	PARI_HUMAN	.	UPI000004A06B	.	tolerated(0.32)	benign(0.004)	3/11	.	hmmpanther:PTHR32121	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTATCAAAAA	byCluster	2	BLCA
ATP2A2	0	.	GRCh37	12	110783148	110783148	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2702C>G	p.Ser901Cys	p.S901C	ENST00000539276	18/20	95	82	12	95	95	0	ATP2A2,missense_variant,p.Ser874Cys,ENST00000395494,;ATP2A2,missense_variant,p.Ser792Cys,ENST00000548169,;ATP2A2,missense_variant,p.Ser901Cys,ENST00000308664,;ATP2A2,missense_variant,p.Ser901Cys,ENST00000539276,;ATP2A2,upstream_gene_variant,,ENST00000553144,;ATP2A2,3_prime_UTR_variant,,ENST00000377685,;ATP2A2,upstream_gene_variant,,ENST00000313432,;ATP2A2,downstream_gene_variant,,ENST00000547792,;	G	ENSG00000174437	ENST00000539276	Transcript	missense_variant	2811	2702	901	S/C	tCt/tGt	.	.	.	1	ATP2A2	HGNC	812	protein_coding	YES	CCDS9144.1	ENSP00000440045	AT2A2_HUMAN	.	UPI0000001C3A	.	deleterious(0)	probably_damaging(0.997)	18/20	.	hmmpanther:PTHR24093:SF234,hmmpanther:PTHR24093,Pfam_domain:PF00689,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTCTCTGTTC	.	4	BLCA
CIT	0	.	GRCh37	12	120262972	120262972	+	Missense_Mutation	SNP	G	G	T	rs368749458	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.954C>A	p.Phe318Leu	p.F318L	ENST00000392521	8/48	40	33	7	45	45	0	CIT,missense_variant,p.Phe318Leu,ENST00000261833,;CIT,missense_variant,p.Phe318Leu,ENST00000392521,;CIT,intron_variant,,ENST00000536325,;	T	ENSG00000122966	ENST00000392521	Transcript	missense_variant	1010	954	318	F/L	ttC/ttA	rs368749458	.	.	-1	CIT	HGNC	1985	protein_coding	YES	CCDS55891.1	ENSP00000376306	CTRO_HUMAN	.	UPI0000683C41	.	deleterious(0.03)	possibly_damaging(0.61)	8/48	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF038145,Gene3D:1.10.510.10,Pfam_domain:PF00069,hmmpanther:PTHR22988,hmmpanther:PTHR22988:SF26,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACCTGGAAATT	byCluster	2	BLCA
RSRC2	0	.	GRCh37	12	123003498	123003498	+	Missense_Mutation	SNP	C	C	G	rs745824571	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.286G>C	p.Asp96His	p.D96H	ENST00000331738	4/10	148	127	21	170	170	0	RSRC2,missense_variant,p.Asp96His,ENST00000331738,;RSRC2,missense_variant,p.Asp37His,ENST00000344591,;RSRC2,missense_variant,p.Asp48His,ENST00000354654,;RSRC2,5_prime_UTR_variant,,ENST00000526560,;RSRC2,downstream_gene_variant,,ENST00000528279,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527461,;RSRC2,downstream_gene_variant,,ENST00000532186,;RSRC2,missense_variant,p.Asp27His,ENST00000528263,;RSRC2,3_prime_UTR_variant,,ENST00000527399,;RSRC2,3_prime_UTR_variant,,ENST00000532695,;RSRC2,3_prime_UTR_variant,,ENST00000433877,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527173,;RSRC2,non_coding_transcript_exon_variant,,ENST00000525335,;RSRC2,non_coding_transcript_exon_variant,,ENST00000531639,;RSRC2,non_coding_transcript_exon_variant,,ENST00000527796,;RSRC2,downstream_gene_variant,,ENST00000525570,;RSRC2,downstream_gene_variant,,ENST00000525387,;RSRC2,upstream_gene_variant,,ENST00000524399,;	G	ENSG00000111011	ENST00000331738	Transcript	missense_variant	432	286	96	D/H	Gat/Cat	rs745824571	.	.	-1	RSRC2	HGNC	30559	protein_coding	YES	CCDS31920.1	ENSP00000330188	RSRC2_HUMAN	.	UPI00001FB8BB	.	deleterious_low_confidence(0.01)	probably_damaging(0.971)	4/10	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTATCAGAAG	.	4	BLCA
ATP6V0A2	0	.	GRCh37	12	124241429	124241429	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2361C>T	p.%3D	p.V787V	ENST00000330342	19/20	109	80	29	125	124	1	ATP6V0A2,synonymous_variant,p.%3D,ENST00000330342,;ATP6V0A2,synonymous_variant,p.%3D,ENST00000544833,;ATP6V0A2,synonymous_variant,p.%3D,ENST00000534943,;ATP6V0A2,non_coding_transcript_exon_variant,,ENST00000543687,;	T	ENSG00000185344	ENST00000330342	Transcript	synonymous_variant	2609	2361	787	V	gtC/gtT	COSM430630	.	.	1	ATP6V0A2	HGNC	18481	protein_coding	YES	CCDS9254.1	ENSP00000332247	VPP2_HUMAN	F5H847_HUMAN,F5H5F3_HUMAN,B4DQF7_HUMAN	UPI00001AFC09	.	.	.	19/20	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11629,hmmpanther:PTHR11629:SF22,Pfam_domain:PF01496,PIRSF_domain:PIRSF001293	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGCGTCTTGCT	.	5	BLCA
ATF7IP	0	.	GRCh37	12	14634168	14634168	+	Intron	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3280+49C>T	.	.	ENST00000261168	.	19	16	3	26	26	0	ATF7IP,3_prime_UTR_variant,,ENST00000543189,;ATF7IP,intron_variant,,ENST00000261168,;ATF7IP,intron_variant,,ENST00000535738,;ATF7IP,intron_variant,,ENST00000540793,;ATF7IP,intron_variant,,ENST00000544627,;ATF7IP,intron_variant,,ENST00000536444,;ATF7IP,downstream_gene_variant,,ENST00000537653,;	T	ENSG00000171681	ENST00000261168	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ATF7IP	HGNC	20092	protein_coding	YES	CCDS8663.1	ENSP00000261168	MCAF1_HUMAN	F8WE35_HUMAN,F5H8I0_HUMAN,F5H6X8_HUMAN,F5H502_HUMAN,F5H3C4_HUMAN,F5H2W9_HUMAN,F5H2H9_HUMAN,F5H221_HUMAN,F5H1K9_HUMAN,F5GZ98_HUMAN,F5GZ10_HUMAN,F5GYR7_HUMAN,A8MV73_HUMAN	UPI00001FB6B1	.	.	.	.	13/14	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTCAGCAT	.	2	BLCA
SLCO1B3	0	.	GRCh37	12	21015357	21015357	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.493G>A	p.Glu165Lys	p.E165K	ENST00000381545	7/16	95	81	13	114	114	0	SLCO1B3,missense_variant,p.Glu165Lys,ENST00000553473,;SLCO1B3,missense_variant,p.Glu165Lys,ENST00000261196,;SLCO1B3,missense_variant,p.Glu165Lys,ENST00000540853,;LST3,missense_variant,p.Glu165Lys,ENST00000540229,;SLCO1B3,missense_variant,p.Glu165Lys,ENST00000381545,;SLCO1B7,intron_variant,,ENST00000554957,;LST3,intron_variant,,ENST00000381541,;SLCO1B3,upstream_gene_variant,,ENST00000544370,;SLCO1B3,downstream_gene_variant,,ENST00000545880,;	A	ENSG00000111700	ENST00000381545	Transcript	missense_variant	712	493	165	E/K	Gaa/Aaa	.	.	.	1	SLCO1B3	HGNC	10961	protein_coding	YES	CCDS8684.1	ENSP00000370956	SO1B3_HUMAN	F5H8K0_HUMAN	UPI000013544A	.	deleterious(0.03)	benign(0.232)	7/16	.	PROSITE_profiles:PS50850,hmmpanther:PTHR11388:SF89,hmmpanther:PTHR11388,TIGRFAM_domain:TIGR00805,Pfam_domain:PF03137	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAAAGGAATCT	.	4	BLCA
C12orf40	0	.	GRCh37	12	40076604	40076604	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.878C>G	p.Ser293Ter	p.S293*	ENST00000324616	8/13	53	45	7	61	61	0	C12orf40,stop_gained,p.Ser216Ter,ENST00000398716,;C12orf40,stop_gained,p.Ser293Ter,ENST00000405531,;C12orf40,stop_gained,p.Ser293Ter,ENST00000324616,;C12orf40,stop_gained,p.Ser216Ter,ENST00000468200,;	G	ENSG00000180116	ENST00000324616	Transcript	stop_gained	1032	878	293	S/*	tCa/tGa	.	.	.	1	C12orf40	HGNC	26846	protein_coding	YES	CCDS41770.1	ENSP00000317671	CL040_HUMAN	.	UPI000069A925	.	.	.	8/13	.	Pfam_domain:PF15089	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTATCAGAGA	.	5	BLCA
KRT84	0	.	GRCh37	12	52775216	52775216	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1006G>A	p.Glu336Lys	p.E336K	ENST00000257951	5/9	201	164	36	182	182	0	KRT84,missense_variant,p.Glu336Lys,ENST00000257951,;RP3-416H24.4,intron_variant,,ENST00000547174,;	T	ENSG00000161849	ENST00000257951	Transcript	missense_variant	1073	1006	336	E/K	Gag/Aag	.	.	.	-1	KRT84	HGNC	6461	protein_coding	YES	CCDS8825.1	ENSP00000257951	KRT84_HUMAN	.	UPI000013CFA1	.	deleterious(0.01)	possibly_damaging(0.67)	5/9	.	Pfam_domain:PF00038,hmmpanther:PTHR23239:SF129,hmmpanther:PTHR23239	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACCTCAGCAA	.	4	BLCA
ERBB3	0	.	GRCh37	12	56495058	56495058	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3415C>T	p.%3D	p.L1139L	ENST00000267101	27/28	40	30	9	46	46	0	ERBB3,synonymous_variant,p.%3D,ENST00000415288,;ERBB3,synonymous_variant,p.%3D,ENST00000450146,;ERBB3,synonymous_variant,p.%3D,ENST00000267101,;ERBB3,synonymous_variant,p.%3D,ENST00000550070,;ERBB3,synonymous_variant,p.%3D,ENST00000553131,;ERBB3,synonymous_variant,p.%3D,ENST00000549832,;RP11-603J24.9,upstream_gene_variant,,ENST00000548861,;PA2G4,upstream_gene_variant,,ENST00000552766,;PA2G4,upstream_gene_variant,,ENST00000551061,;PA2G4,upstream_gene_variant,,ENST00000303305,;PA2G4,upstream_gene_variant,,ENST00000553057,;RP11-603J24.17,downstream_gene_variant,,ENST00000548595,;ERBB3,3_prime_UTR_variant,,ENST00000551085,;ERBB3,3_prime_UTR_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;ERBB3,downstream_gene_variant,,ENST00000548709,;ERBB3,downstream_gene_variant,,ENST00000552691,;	T	ENSG00000065361	ENST00000267101	Transcript	synonymous_variant	3855	3415	1139	L	Ctg/Ttg	.	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	.	.	27/28	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF000619	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTCTGCTG	.	5	BLCA
ERBB3	0	.	GRCh37	12	56495511	56495511	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3701C>G	p.Ser1234Cys	p.S1234C	ENST00000267101	28/28	50	46	4	37	37	0	ERBB3,missense_variant,p.Ser1175Cys,ENST00000415288,;ERBB3,missense_variant,p.Ser591Cys,ENST00000450146,;ERBB3,missense_variant,p.Ser1234Cys,ENST00000267101,;ERBB3,missense_variant,p.Ser541Cys,ENST00000550070,;ERBB3,missense_variant,p.Ser475Cys,ENST00000553131,;ERBB3,missense_variant,p.Ser354Cys,ENST00000549832,;RP11-603J24.9,intron_variant,,ENST00000548861,;PA2G4,upstream_gene_variant,,ENST00000552766,;PA2G4,upstream_gene_variant,,ENST00000551061,;PA2G4,upstream_gene_variant,,ENST00000303305,;PA2G4,upstream_gene_variant,,ENST00000553057,;RP11-603J24.17,downstream_gene_variant,,ENST00000548595,;ERBB3,3_prime_UTR_variant,,ENST00000551085,;ERBB3,3_prime_UTR_variant,,ENST00000551242,;ERBB3,downstream_gene_variant,,ENST00000550869,;PA2G4,upstream_gene_variant,,ENST00000550166,;ERBB3,downstream_gene_variant,,ENST00000548709,;ERBB3,downstream_gene_variant,,ENST00000552691,;	G	ENSG00000065361	ENST00000267101	Transcript	missense_variant	4141	3701	1234	S/C	tCt/tGt	COSM1167632	.	.	1	ERBB3	HGNC	3431	protein_coding	YES	CCDS31833.1	ENSP00000267101	ERBB3_HUMAN	Q9NNX2_HUMAN,F8VX90_HUMAN,F8VW56_HUMAN,F8VW48_HUMAN,F8VRL0_HUMAN	UPI000012A113	.	deleterious(0.01)	possibly_damaging(0.818)	28/28	.	PIRSF_domain:PIRSF000619	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCTCTCTGG	.	3	BLCA
CPSF6	0	.	GRCh37	12	69656182	69656182	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1499G>C	p.Ser500Thr	p.S500T	ENST00000435070	9/10	49	38	10	63	63	0	CPSF6,missense_variant,p.Ser537Thr,ENST00000266679,;CPSF6,missense_variant,p.Ser500Thr,ENST00000435070,;CPSF6,missense_variant,p.Ser427Thr,ENST00000456847,;CPSF6,intron_variant,,ENST00000551516,;CPSF6,downstream_gene_variant,,ENST00000547486,;	C	ENSG00000111605	ENST00000435070	Transcript	missense_variant	1609	1499	500	S/T	aGt/aCt	COSM3955093,COSM3955095,COSM3955094	.	.	1	CPSF6	HGNC	13871	protein_coding	YES	CCDS8988.1	ENSP00000391774	CPSF6_HUMAN	.	UPI00001FC746	.	deleterious(0.04)	unknown(0)	9/10	.	Low_complexity_(Seg):seg,hmmpanther:PTHR23204,hmmpanther:PTHR23204:SF3	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCATAGTAGAT	.	5	BLCA
EFNB2	0	.	GRCh37	13	107187316	107187316	+	5'UTR	SNP	G	G	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-4C>A	.	.	ENST00000245323	1/5	43	37	6	34	34	0	EFNB2,5_prime_UTR_variant,,ENST00000245323,;	T	ENSG00000125266	ENST00000245323	Transcript	5_prime_UTR_variant	147	.	.	.	.	.	.	.	-1	EFNB2	HGNC	3227	protein_coding	YES	CCDS9507.1	ENSP00000245323	EFNB2_HUMAN	Q2PDH7_HUMAN	UPI0000129C9B	.	.	.	1/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATGGCGAAGCC	.	2	BLCA
FREM2	0	.	GRCh37	13	39438697	39438697	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7937C>T	p.Ser2646Leu	p.S2646L	ENST00000280481	16/24	36	29	7	52	52	0	FREM2,missense_variant,p.Ser2646Leu,ENST00000280481,;	T	ENSG00000150893	ENST00000280481	Transcript	missense_variant	8153	7937	2646	S/L	tCa/tTa	.	.	.	1	FREM2	HGNC	25396	protein_coding	YES	CCDS31960.1	ENSP00000280481	FREM2_HUMAN	.	UPI00005520B9	.	deleterious(0)	benign(0.356)	16/24	.	hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF19	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CATGTCAGAAC	.	3	BLCA
NEK3	0	.	GRCh37	13	52718906	52718906	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.724C>T	p.Pro242Ser	p.P242S	ENST00000400357	8/14	19	15	4	26	26	0	NEK3,missense_variant,p.Pro242Ser,ENST00000378101,;NEK3,missense_variant,p.Pro263Ser,ENST00000452082,;NEK3,missense_variant,p.Pro242Ser,ENST00000339406,;NEK3,missense_variant,p.Pro242Ser,ENST00000400357,;NEK3,missense_variant,p.Pro242Ser,ENST00000258597,;NEK3,missense_variant,p.Pro242Ser,ENST00000548127,;NEK3,downstream_gene_variant,,ENST00000552973,;NEK3,downstream_gene_variant,,ENST00000551355,;NEK3,upstream_gene_variant,,ENST00000547820,;	A	ENSG00000136098	ENST00000400357	Transcript	missense_variant	2018	724	242	P/S	Ccc/Tcc	.	.	.	-1	NEK3	HGNC	7746	protein_coding	YES	CCDS53871.1	ENSP00000383210	NEK3_HUMAN	F8VV00_HUMAN	UPI0000E59B02	.	deleterious(0.02)	probably_damaging(1)	8/14	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24362:SF7,hmmpanther:PTHR24362,Pfam_domain:PF00069,Gene3D:1.10.510.10,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGAGGGATTCC	.	2	BLCA
DCT	0	.	GRCh37	13	95095885	95095885	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1285C>T	p.His429Tyr	p.H429Y	ENST00000446125	9/10	19	16	3	21	21	0	DCT,missense_variant,p.His396Tyr,ENST00000377028,;DCT,missense_variant,p.His429Tyr,ENST00000446125,;DCT,3_prime_UTR_variant,,ENST00000483392,;	A	ENSG00000080166	ENST00000446125	Transcript	missense_variant	1712	1285	429	H/Y	Cat/Tat	.	.	.	-1	DCT	HGNC	2709	protein_coding	YES	CCDS45060.1	ENSP00000392762	TYRP2_HUMAN	Q9NQD8_HUMAN,Q0PK43_HUMAN	UPI0000E13F02	.	deleterious(0)	probably_damaging(0.964)	9/10	.	Superfamily_domains:SSF48056,Gene3D:1.10.1280.10,hmmpanther:PTHR11474,hmmpanther:PTHR11474:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAATGAAGAA	.	2	BLCA
RNF113B	0	.	GRCh37	13	98828328	98828328	+	3'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*89G>C	.	.	ENST00000267291	2/2	25	22	3	24	24	0	RNF113B,3_prime_UTR_variant,,ENST00000267291,;FARP1,intron_variant,,ENST00000319562,;FARP1,intron_variant,,ENST00000376586,;FARP1,intron_variant,,ENST00000595437,;FARP1,intron_variant,,ENST00000376581,;FARP1,upstream_gene_variant,,ENST00000598389,;FARP1,intron_variant,,ENST00000600648,;	G	ENSG00000139797	ENST00000267291	Transcript	3_prime_UTR_variant	1087	.	.	.	.	.	.	.	-1	RNF113B	HGNC	17267	protein_coding	YES	CCDS9486.1	ENSP00000267291	R113B_HUMAN	.	UPI000006F203	.	.	.	2/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ATACTCAGGCA	.	2	BLCA
RNF113B	0	.	GRCh37	13	98828975	98828975	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.516G>A	p.%3D	p.A172A	ENST00000267291	1/2	50	44	6	55	55	0	RNF113B,synonymous_variant,p.%3D,ENST00000267291,;FARP1,intron_variant,,ENST00000319562,;FARP1,intron_variant,,ENST00000376586,;FARP1,intron_variant,,ENST00000595437,;FARP1,intron_variant,,ENST00000376581,;FARP1,upstream_gene_variant,,ENST00000598389,;FARP1,intron_variant,,ENST00000600648,;	T	ENSG00000139797	ENST00000267291	Transcript	synonymous_variant	545	516	172	A	gcG/gcA	COSM3723386	.	.	-1	RNF113B	HGNC	17267	protein_coding	YES	CCDS9486.1	ENSP00000267291	R113B_HUMAN	.	UPI000006F203	.	.	.	1/2	.	hmmpanther:PTHR12930,hmmpanther:PTHR12930:SF1	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTCGCCAT	.	2	BLCA
SLC15A1	0	.	GRCh37	13	99371507	99371507	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.624C>G	p.%3D	p.L208L	ENST00000376503	8/23	59	49	9	75	75	0	SLC15A1,synonymous_variant,p.%3D,ENST00000376503,;SLC15A1,downstream_gene_variant,,ENST00000376494,;	C	ENSG00000088386	ENST00000376503	Transcript	synonymous_variant	680	624	208	L	ctC/ctG	.	.	.	-1	SLC15A1	HGNC	10920	protein_coding	YES	CCDS9489.1	ENSP00000365686	S15A1_HUMAN	B2CQT6_HUMAN	UPI000013166F	.	.	.	8/23	.	Transmembrane_helices:TMhelix,Superfamily_domains:SSF103473,TIGRFAM_domain:TIGR00926,Pfam_domain:PF00854,hmmpanther:PTHR11654:SF89,hmmpanther:PTHR11654	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCCATGAGAGC	.	5	BLCA
ADCY4	0	.	GRCh37	14	24787606	24787606	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*16C>T	.	.	ENST00000310677	26/26	33	25	8	26	26	0	ADCY4,3_prime_UTR_variant,,ENST00000554068,;ADCY4,3_prime_UTR_variant,,ENST00000418030,;ADCY4,3_prime_UTR_variant,,ENST00000310677,;ADCY4,downstream_gene_variant,,ENST00000396747,;LTB4R,downstream_gene_variant,,ENST00000396782,;LTB4R,downstream_gene_variant,,ENST00000396789,;LTB4R,downstream_gene_variant,,ENST00000345363,;LTB4R,downstream_gene_variant,,ENST00000553481,;LTB4R,downstream_gene_variant,,ENST00000556141,;ADCY4,3_prime_UTR_variant,,ENST00000557056,;ADCY4,3_prime_UTR_variant,,ENST00000554781,;ADCY4,non_coding_transcript_exon_variant,,ENST00000555684,;ADCY4,non_coding_transcript_exon_variant,,ENST00000554577,;ADCY4,non_coding_transcript_exon_variant,,ENST00000545213,;ADCY4,downstream_gene_variant,,ENST00000561200,;ADCY4,downstream_gene_variant,,ENST00000560635,;ADCY4,downstream_gene_variant,,ENST00000554936,;	A	ENSG00000129467	ENST00000310677	Transcript	3_prime_UTR_variant	3364	.	.	.	.	.	.	.	-1	ADCY4	HGNC	235	protein_coding	YES	CCDS9627.1	ENSP00000312126	ADCY4_HUMAN	Q96KY6_HUMAN,Q86TZ7_HUMAN,H0YN72_HUMAN,H0YLM0_HUMAN	UPI00000398CC	.	.	.	26/26	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	TCTTAGAAGGC	.	3	BLCA
CTAGE5	0	.	GRCh37	14	39796178	39796178	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1798C>G	p.Leu600Val	p.L600V	ENST00000396158	20/24	46	39	7	54	54	0	CTAGE5,missense_variant,p.Leu566Val,ENST00000396165,;CTAGE5,missense_variant,p.Leu600Val,ENST00000396158,;RP11-407N17.3,missense_variant,p.Leu1130Val,ENST00000553728,;CTAGE5,missense_variant,p.Leu595Val,ENST00000341502,;CTAGE5,missense_variant,p.Leu566Val,ENST00000553352,;CTAGE5,missense_variant,p.Leu595Val,ENST00000280083,;CTAGE5,missense_variant,p.Leu583Val,ENST00000341749,;CTAGE5,missense_variant,p.Leu520Val,ENST00000556148,;CTAGE5,missense_variant,p.Leu552Val,ENST00000348007,;RP11-407N17.3,missense_variant,p.Leu566Val,ENST00000603904,;CTAGE5,missense_variant,p.Leu515Val,ENST00000557038,;	G	ENSG00000150527	ENST00000396158	Transcript	missense_variant	2134	1798	600	L/V	Ctg/Gtg	.	.	.	1	CTAGE5	HGNC	7057	protein_coding	YES	CCDS58316.1	ENSP00000379462	CTGE5_HUMAN	.	UPI0001AE69C9	.	deleterious(0)	benign(0.238)	20/24	.	hmmpanther:PTHR23158:SF39,hmmpanther:PTHR23158	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTCTCTGTCA	.	5	BLCA
ESR2	0	.	GRCh37	14	64749768	64749768	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-65G>C	.	.	ENST00000341099	2/9	31	23	8	41	41	0	ESR2,5_prime_UTR_variant,,ENST00000357782,;ESR2,5_prime_UTR_variant,,ENST00000353772,;ESR2,5_prime_UTR_variant,,ENST00000267525,;ESR2,5_prime_UTR_variant,,ENST00000341099,;ESR2,5_prime_UTR_variant,,ENST00000556275,;ESR2,5_prime_UTR_variant,,ENST00000554572,;ESR2,5_prime_UTR_variant,,ENST00000542956,;ESR2,5_prime_UTR_variant,,ENST00000358599,;ESR2,upstream_gene_variant,,ENST00000553796,;ESR2,upstream_gene_variant,,ENST00000555278,;ESR2,upstream_gene_variant,,ENST00000557772,;ESR2,upstream_gene_variant,,ENST00000555483,;ESR2,upstream_gene_variant,,ENST00000554520,;ESR2,upstream_gene_variant,,ENST00000344288,;	G	ENSG00000140009	ENST00000341099	Transcript	5_prime_UTR_variant	354	.	.	.	.	.	.	.	-1	ESR2	HGNC	3468	protein_coding	YES	CCDS9762.1	ENSP00000343925	ESR2_HUMAN	Q7LCB3_HUMAN,G3V5S2_HUMAN	UPI0000000964	.	.	.	2/9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTCTCAAAGA	.	5	BLCA
FCF1	0	.	GRCh37	14	75201625	75201625	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.589C>G	p.Arg197Gly	p.R197G	ENST00000341162	8/8	165	140	25	176	176	0	FCF1,missense_variant,p.Arg197Gly,ENST00000341162,;FCF1,missense_variant,p.Arg182Gly,ENST00000553615,;FCF1,missense_variant,p.Arg185Gly,ENST00000534938,;FCF1,downstream_gene_variant,,ENST00000554590,;FCF1,downstream_gene_variant,,ENST00000556814,;FCF1,downstream_gene_variant,,ENST00000554973,;FCF1,downstream_gene_variant,,ENST00000554064,;	G	ENSG00000119616	ENST00000341162	Transcript	missense_variant	643	589	197	R/G	Cga/Gga	.	.	.	1	FCF1	HGNC	20220	protein_coding	YES	CCDS9832.1	ENSP00000344393	FCF1_HUMAN	Q66K47_HUMAN,Q4FZ45_HUMAN,G3V2M5_HUMAN,G3V1S4_HUMAN	UPI0000070063	.	tolerated(0.05)	benign(0.11)	8/8	.	hmmpanther:PTHR12416	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCCCTCGATTC	.	4	BLCA
FCF1	0	.	GRCh37	14	75201726	75201726	+	3'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*93C>G	.	.	ENST00000341162	8/8	38	32	6	48	48	0	FCF1,3_prime_UTR_variant,,ENST00000341162,;FCF1,3_prime_UTR_variant,,ENST00000553615,;FCF1,3_prime_UTR_variant,,ENST00000534938,;FCF1,downstream_gene_variant,,ENST00000554590,;FCF1,downstream_gene_variant,,ENST00000556814,;FCF1,downstream_gene_variant,,ENST00000554973,;FCF1,downstream_gene_variant,,ENST00000554064,;	G	ENSG00000119616	ENST00000341162	Transcript	3_prime_UTR_variant	744	.	.	.	.	.	.	.	1	FCF1	HGNC	20220	protein_coding	YES	CCDS9832.1	ENSP00000344393	FCF1_HUMAN	Q66K47_HUMAN,Q4FZ45_HUMAN,G3V2M5_HUMAN,G3V1S4_HUMAN	UPI0000070063	.	.	.	8/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAATCAGAGA	.	4	BLCA
SPATA7	0	.	GRCh37	14	88895746	88895746	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967G>C	p.Glu323Gln	p.E323Q	ENST00000393545	8/12	81	68	12	120	120	0	SPATA7,missense_variant,p.Glu291Gln,ENST00000356583,;SPATA7,missense_variant,p.Glu323Gln,ENST00000045347,;SPATA7,missense_variant,p.Glu323Gln,ENST00000393545,;SPATA7,missense_variant,p.Glu291Gln,ENST00000556553,;SPATA7,upstream_gene_variant,,ENST00000554802,;SPATA7,downstream_gene_variant,,ENST00000555401,;SPATA7,upstream_gene_variant,,ENST00000556406,;SPATA7,downstream_gene_variant,,ENST00000553885,;SPATA7,non_coding_transcript_exon_variant,,ENST00000556666,;SPATA7,non_coding_transcript_exon_variant,,ENST00000553626,;SPATA7,downstream_gene_variant,,ENST00000553908,;SPATA7,upstream_gene_variant,,ENST00000553303,;SPATA7,downstream_gene_variant,,ENST00000557248,;SPATA7,downstream_gene_variant,,ENST00000556870,;SPATA7,downstream_gene_variant,,ENST00000555515,;SPATA7,downstream_gene_variant,,ENST00000555534,;	C	ENSG00000042317	ENST00000393545	Transcript	missense_variant	1256	967	323	E/Q	Gaa/Caa	.	.	.	1	SPATA7	HGNC	20423	protein_coding	YES	CCDS9883.1	ENSP00000377176	SPAT7_HUMAN	.	UPI00000712C7	.	tolerated(1)	benign(0.001)	8/12	.	Pfam_domain:PF15244,hmmpanther:PTHR14917	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTTAGAAGGG	.	5	BLCA
CPSF2	0	.	GRCh37	14	92624050	92624050	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1643C>T	p.Ser548Phe	p.S548F	ENST00000298875	13/16	34	25	8	36	36	0	CPSF2,missense_variant,p.Ser65Phe,ENST00000555244,;CPSF2,missense_variant,p.Ser548Phe,ENST00000298875,;CPSF2,downstream_gene_variant,,ENST00000556622,;	T	ENSG00000165934	ENST00000298875	Transcript	missense_variant	1928	1643	548	S/F	tCc/tTc	.	.	.	1	CPSF2	HGNC	2325	protein_coding	YES	CCDS9902.1	ENSP00000298875	CPSF2_HUMAN	G3V3T7_HUMAN,B3KN45_HUMAN	UPI0000185F22	.	deleterious(0)	probably_damaging(1)	13/16	.	hmmpanther:PTHR11203,hmmpanther:PTHR11203:SF5,Pfam_domain:PF07521,Gene3D:3.60.15.10,Superfamily_domains:SSF56281	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCCATTA	.	5	BLCA
MEF2A	0	.	GRCh37	15	100185846	100185846	+	Silent	SNP	C	C	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.135C>T	p.%3D	p.L45L	ENST00000354410	4/11	58	51	7	66	66	0	MEF2A,synonymous_variant,p.%3D,ENST00000453228,;MEF2A,synonymous_variant,p.%3D,ENST00000557785,;MEF2A,synonymous_variant,p.%3D,ENST00000354410,;MEF2A,synonymous_variant,p.%3D,ENST00000560493,;MEF2A,synonymous_variant,p.%3D,ENST00000557942,;MEF2A,synonymous_variant,p.%3D,ENST00000559903,;MEF2A,synonymous_variant,p.%3D,ENST00000338042,;MEF2A,intron_variant,,ENST00000558812,;MEF2A,intron_variant,,ENST00000449277,;MEF2A,downstream_gene_variant,,ENST00000558049,;MEF2A,intron_variant,,ENST00000558856,;MEF2A,non_coding_transcript_exon_variant,,ENST00000558983,;MEF2A,non_coding_transcript_exon_variant,,ENST00000559036,;	T	ENSG00000068305	ENST00000354410	Transcript	synonymous_variant	764	135	45	L	ctC/ctT	COSM1375642,COSM1375640,COSM1375641	.	.	1	MEF2A	HGNC	6993	protein_coding	YES	CCDS45362.1	ENSP00000346389	MEF2A_HUMAN	H0YNI2_HUMAN,H0YM62_HUMAN,H0YKY6_HUMAN,D6RJ95_HUMAN	UPI0000073025	.	.	.	4/11	.	PROSITE_profiles:PS50066,hmmpanther:PTHR11945:SF145,hmmpanther:PTHR11945,PROSITE_patterns:PS00350,Pfam_domain:PF00319,SMART_domains:SM00432,Superfamily_domains:SSF55455,Prints_domain:PR00404	.	.	.	.	.	.	.	.	.	.	1,1,1	.	.	.	.	.	LOW	.	SNV	.	.	1,1,1	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCACTCATCAT	.	4	BLCA
ZNF280D	0	.	GRCh37	15	56981336	56981336	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.683C>T	p.Ser228Leu	p.S228L	ENST00000267807	9/22	46	42	4	65	65	0	ZNF280D,missense_variant,p.Ser228Leu,ENST00000267807,;ZNF280D,missense_variant,p.Ser215Leu,ENST00000559237,;ZNF280D,missense_variant,p.Ser215Leu,ENST00000559000,;ZNF280D,5_prime_UTR_variant,,ENST00000396245,;ZNF280D,non_coding_transcript_exon_variant,,ENST00000561126,;ZNF280D,missense_variant,p.Ser228Leu,ENST00000560002,;ZNF280D,missense_variant,p.Ser228Leu,ENST00000558002,;	A	ENSG00000137871	ENST00000267807	Transcript	missense_variant	900	683	228	S/L	tCa/tTa	COSM963248	.	.	-1	ZNF280D	HGNC	25953	protein_coding	YES	CCDS32245.1	ENSP00000267807	Z280D_HUMAN	H0YN90_HUMAN	UPI00003FF962	.	deleterious(0.03)	probably_damaging(1)	9/22	.	hmmpanther:PTHR23228:SF114,hmmpanther:PTHR23228,Pfam_domain:PF13836	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTGATGAGGTA	.	3	BLCA
FAM219B	0	.	GRCh37	15	75195073	75195073	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.484G>C	p.Glu162Gln	p.E162Q	ENST00000357635	5/5	81	76	5	100	100	0	FAM219B,missense_variant,p.Glu76Gln,ENST00000565772,;FAM219B,missense_variant,p.Glu161Gln,ENST00000562698,;FAM219B,missense_variant,p.Glu162Gln,ENST00000563119,;FAM219B,missense_variant,p.Glu162Gln,ENST00000357635,;MPI,downstream_gene_variant,,ENST00000352410,;MPI,downstream_gene_variant,,ENST00000323744,;MPI,downstream_gene_variant,,ENST00000563786,;MPI,downstream_gene_variant,,ENST00000566377,;MPI,downstream_gene_variant,,ENST00000535694,;MPI,downstream_gene_variant,,ENST00000567177,;FAM219B,downstream_gene_variant,,ENST00000457294,;CTD-2235H24.2,downstream_gene_variant,,ENST00000564692,;FAM219B,non_coding_transcript_exon_variant,,ENST00000563706,;FAM219B,upstream_gene_variant,,ENST00000564723,;FAM219B,missense_variant,p.Glu160Gln,ENST00000563671,;FAM219B,3_prime_UTR_variant,,ENST00000563877,;FAM219B,3_prime_UTR_variant,,ENST00000569524,;FAM219B,3_prime_UTR_variant,,ENST00000564019,;FAM219B,3_prime_UTR_variant,,ENST00000566132,;FAM219B,3_prime_UTR_variant,,ENST00000569761,;FAM219B,3_prime_UTR_variant,,ENST00000570143,;FAM219B,3_prime_UTR_variant,,ENST00000566194,;FAM219B,3_prime_UTR_variant,,ENST00000563069,;FAM219B,3_prime_UTR_variant,,ENST00000567388,;FAM219B,3_prime_UTR_variant,,ENST00000563413,;FAM219B,non_coding_transcript_exon_variant,,ENST00000566894,;FAM219B,non_coding_transcript_exon_variant,,ENST00000564857,;MPI,downstream_gene_variant,,ENST00000566556,;	G	ENSG00000178761	ENST00000357635	Transcript	missense_variant	805	484	162	E/Q	Gag/Cag	.	.	.	-1	FAM219B	HGNC	24695	protein_coding	YES	CCDS32295.1	ENSP00000350260	F219B_HUMAN	H3BPC2_HUMAN	UPI0000073A99	.	deleterious(0)	probably_damaging(0.999)	5/5	.	Low_complexity_(Seg):seg,hmmpanther:PTHR31281:SF2,hmmpanther:PTHR31281,Pfam_domain:PF15260	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AATCTCATCCA	.	2	BLCA
WHAMM	0	.	GRCh37	15	83499792	83499792	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2083G>A	p.Glu695Lys	p.E695K	ENST00000286760	9/10	105	95	10	116	116	0	WHAMM,missense_variant,p.Glu695Lys,ENST00000286760,;WHAMM,downstream_gene_variant,,ENST00000560964,;	A	ENSG00000156232	ENST00000286760	Transcript	missense_variant	2182	2083	695	E/K	Gag/Aag	.	.	.	1	WHAMM	HGNC	30493	protein_coding	YES	CCDS45333.1	ENSP00000286760	WHAMM_HUMAN	.	UPI00001C1F94	.	tolerated(0.37)	benign(0.121)	9/10	.	hmmpanther:PTHR23330,hmmpanther:PTHR23330:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTGCTGAGCGA	.	4	BLCA
EME2	0	.	GRCh37	16	1826168	1826168	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1069G>C	p.Asp357His	p.D357H	ENST00000568449	8/8	62	55	7	67	66	0	EME2,missense_variant,p.Asp357His,ENST00000568449,;EME2,missense_variant,p.Asp422His,ENST00000307394,;SPSB3,downstream_gene_variant,,ENST00000301717,;MRPS34,upstream_gene_variant,,ENST00000397375,;NME3,upstream_gene_variant,,ENST00000564628,;SPSB3,downstream_gene_variant,,ENST00000566339,;SPSB3,downstream_gene_variant,,ENST00000569769,;MRPS34,upstream_gene_variant,,ENST00000177742,;NME3,upstream_gene_variant,,ENST00000219302,;NME3,upstream_gene_variant,,ENST00000563498,;EME2,missense_variant,p.Asp93His,ENST00000564182,;EME2,missense_variant,p.Asp168His,ENST00000561903,;EME2,non_coding_transcript_exon_variant,,ENST00000570069,;SPSB3,downstream_gene_variant,,ENST00000564070,;NME3,upstream_gene_variant,,ENST00000567271,;NME3,upstream_gene_variant,,ENST00000568561,;SPSB3,downstream_gene_variant,,ENST00000565550,;SPSB3,downstream_gene_variant,,ENST00000567868,;NME3,upstream_gene_variant,,ENST00000566600,;NME3,upstream_gene_variant,,ENST00000561637,;NME3,upstream_gene_variant,,ENST00000563367,;SPSB3,downstream_gene_variant,,ENST00000564709,;SPSB3,downstream_gene_variant,,ENST00000563668,;NME3,upstream_gene_variant,,ENST00000563854,;SPSB3,downstream_gene_variant,,ENST00000563741,;SPSB3,downstream_gene_variant,,ENST00000563705,;SPSB3,downstream_gene_variant,,ENST00000568416,;NME3,upstream_gene_variant,,ENST00000564252,;EME2,downstream_gene_variant,,ENST00000565326,;NME3,upstream_gene_variant,,ENST00000565379,;EME2,downstream_gene_variant,,ENST00000561564,;MRPS34,upstream_gene_variant,,ENST00000569585,;SPSB3,downstream_gene_variant,,ENST00000569380,;	C	ENSG00000197774	ENST00000568449	Transcript	missense_variant	1090	1069	357	D/H	Gac/Cac	.	.	.	1	EME2	HGNC	27289	protein_coding	YES	CCDS58404.1	ENSP00000457353	EME2_HUMAN	.	UPI0000F57C10	.	deleterious(0)	probably_damaging(1)	8/8	.	hmmpanther:PTHR21077,hmmpanther:PTHR21077:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGCCTGACCTC	.	4	BLCA
SPSB3	0	.	GRCh37	16	1827159	1827159	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1007C>T	p.Ser336Phe	p.S336F	ENST00000566339	7/7	58	54	4	65	65	0	SPSB3,missense_variant,p.Ser336Phe,ENST00000301717,;SPSB3,missense_variant,p.Ser336Phe,ENST00000566339,;MRPS34,upstream_gene_variant,,ENST00000397375,;SPSB3,downstream_gene_variant,,ENST00000569769,;MRPS34,upstream_gene_variant,,ENST00000177742,;EME2,downstream_gene_variant,,ENST00000568449,;EME2,downstream_gene_variant,,ENST00000307394,;EME2,3_prime_UTR_variant,,ENST00000561903,;SPSB3,non_coding_transcript_exon_variant,,ENST00000564709,;SPSB3,non_coding_transcript_exon_variant,,ENST00000563668,;SPSB3,non_coding_transcript_exon_variant,,ENST00000563741,;EME2,non_coding_transcript_exon_variant,,ENST00000570069,;SPSB3,non_coding_transcript_exon_variant,,ENST00000567868,;SPSB3,non_coding_transcript_exon_variant,,ENST00000569380,;SPSB3,downstream_gene_variant,,ENST00000564070,;SPSB3,downstream_gene_variant,,ENST00000568416,;SPSB3,downstream_gene_variant,,ENST00000563705,;EME2,downstream_gene_variant,,ENST00000565326,;EME2,downstream_gene_variant,,ENST00000561564,;MRPS34,upstream_gene_variant,,ENST00000569585,;SPSB3,downstream_gene_variant,,ENST00000565550,;EME2,downstream_gene_variant,,ENST00000564182,;	A	ENSG00000162032	ENST00000566339	Transcript	missense_variant	1338	1007	336	S/F	tCc/tTc	.	.	.	-1	SPSB3	HGNC	30629	protein_coding	YES	CCDS32365.1	ENSP00000457206	SPSB3_HUMAN	D3DU79_HUMAN,H3BP12_HUMAN	UPI000006FA20	.	deleterious_low_confidence(0.03)	benign(0.092)	7/7	.	hmmpanther:PTHR12245:SF5,hmmpanther:PTHR12245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGCGGAGGTC	.	2	BLCA
ANKS4B	0	.	GRCh37	16	21261962	21261962	+	Nonsense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1075G>T	p.Glu359Ter	p.E359*	ENST00000311620	2/2	37	34	3	54	54	0	ANKS4B,stop_gained,p.Glu359Ter,ENST00000311620,;CRYM,intron_variant,,ENST00000570401,;CRYM,intron_variant,,ENST00000574448,;	T	ENSG00000175311	ENST00000311620	Transcript	stop_gained	1148	1075	359	E/*	Gaa/Taa	.	.	.	1	ANKS4B	HGNC	26795	protein_coding	YES	CCDS42130.1	ENSP00000308772	ANS4B_HUMAN	.	UPI000013F1C0	.	.	.	2/2	.	Gene3D:1.10.150.50,Pfam_domain:PF00536,SMART_domains:SM00454,Superfamily_domains:SSF47769	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGAAGAATTC	.	4	BLCA
SRRM2	0	.	GRCh37	16	2807528	2807528	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.298G>A	p.Glu100Lys	p.E100K	ENST00000301740	3/15	59	49	9	56	56	0	SRRM2,missense_variant,p.Glu100Lys,ENST00000576924,;SRRM2,missense_variant,p.Glu4Lys,ENST00000571378,;SRRM2,missense_variant,p.Glu4Lys,ENST00000575009,;SRRM2,missense_variant,p.Glu100Lys,ENST00000574340,;SRRM2,missense_variant,p.Glu4Lys,ENST00000576415,;SRRM2,missense_variant,p.Glu100Lys,ENST00000301740,;SRRM2-AS1,upstream_gene_variant,,ENST00000573802,;SRRM2,upstream_gene_variant,,ENST00000572278,;SRRM2,upstream_gene_variant,,ENST00000575870,;SRRM2,non_coding_transcript_exon_variant,,ENST00000575701,;SRRM2,non_coding_transcript_exon_variant,,ENST00000576894,;SRRM2,non_coding_transcript_exon_variant,,ENST00000570971,;SRRM2,upstream_gene_variant,,ENST00000570655,;SRRM2,upstream_gene_variant,,ENST00000573451,;SRRM2,upstream_gene_variant,,ENST00000576076,;SRRM2,upstream_gene_variant,,ENST00000573498,;SRRM2,upstream_gene_variant,,ENST00000571372,;SRRM2,upstream_gene_variant,,ENST00000572952,;	A	ENSG00000167978	ENST00000301740	Transcript	missense_variant	847	298	100	E/K	Gag/Aag	.	.	.	1	SRRM2	HGNC	16639	protein_coding	YES	CCDS32373.1	ENSP00000301740	SRRM2_HUMAN	I3L4D8_HUMAN,I3L1I8_HUMAN,I3L1C0_HUMAN,I3L182_HUMAN,I3L0N7_HUMAN	UPI000049DDFC	.	.	unknown(0)	3/15	.	hmmpanther:PTHR32093:SF13,hmmpanther:PTHR32093,Pfam_domain:PF08312	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGCTGGAGAAG	.	5	BLCA
ATXN2L	0	.	GRCh37	16	28838198	28838198	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.632C>T	p.Ser211Leu	p.S211L	ENST00000395547	6/24	36	33	3	52	52	0	ATXN2L,missense_variant,p.Ser211Leu,ENST00000395547,;ATXN2L,missense_variant,p.Ser211Leu,ENST00000336783,;ATXN2L,missense_variant,p.Ser211Leu,ENST00000382686,;ATXN2L,missense_variant,p.Ser151Leu,ENST00000568266,;ATXN2L,missense_variant,p.Ser211Leu,ENST00000325215,;ATXN2L,missense_variant,p.Ser211Leu,ENST00000570200,;ATXN2L,missense_variant,p.Ser211Leu,ENST00000564304,;ATXN2L,missense_variant,p.Ser211Leu,ENST00000340394,;ATXN2L,missense_variant,p.Ser89Leu,ENST00000564656,;RP11-1348G14.5,upstream_gene_variant,,ENST00000568183,;RP11-24N18.1,downstream_gene_variant,,ENST00000563565,;ATXN2L,upstream_gene_variant,,ENST00000570284,;ATXN2L,missense_variant,p.Ser80Leu,ENST00000565971,;ATXN2L,non_coding_transcript_exon_variant,,ENST00000563314,;ATXN2L,upstream_gene_variant,,ENST00000564284,;ATXN2L,downstream_gene_variant,,ENST00000566080,;ATXN2L,downstream_gene_variant,,ENST00000561539,;ATXN2L,downstream_gene_variant,,ENST00000562867,;	T	ENSG00000168488	ENST00000395547	Transcript	missense_variant	799	632	211	S/L	tCa/tTa	COSM1709019,COSM1709018	.	.	1	ATXN2L	HGNC	31326	protein_coding	YES	CCDS10640.1	ENSP00000378917	ATX2L_HUMAN	H3BSQ5_HUMAN	UPI000016783F	.	deleterious(0)	probably_damaging(0.948)	6/24	.	hmmpanther:PTHR12854,hmmpanther:PTHR12854:SF8	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGATTCAGCCA	.	2	BLCA
HIRIP3	0	.	GRCh37	16	30005806	30005806	+	Silent	SNP	C	C	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.660G>T	p.%3D	p.L220L	ENST00000279392	4/7	119	112	7	145	145	0	HIRIP3,synonymous_variant,p.%3D,ENST00000279392,;HIRIP3,intron_variant,,ENST00000564026,;INO80E,upstream_gene_variant,,ENST00000563197,;TAOK2,downstream_gene_variant,,ENST00000279394,;INO80E,upstream_gene_variant,,ENST00000567254,;INO80E,upstream_gene_variant,,ENST00000304516,;INO80E,upstream_gene_variant,,ENST00000567705,;HIRIP3,downstream_gene_variant,,ENST00000566471,;INO80E,upstream_gene_variant,,ENST00000563040,;HIRIP3,intron_variant,,ENST00000563680,;HIRIP3,intron_variant,,ENST00000563053,;INO80E,upstream_gene_variant,,ENST00000567987,;INO80E,upstream_gene_variant,,ENST00000568043,;HIRIP3,downstream_gene_variant,,ENST00000568880,;INO80E,upstream_gene_variant,,ENST00000540562,;TAOK2,downstream_gene_variant,,ENST00000570844,;INO80E,upstream_gene_variant,,ENST00000569957,;INO80E,upstream_gene_variant,,ENST00000567065,;INO80E,upstream_gene_variant,,ENST00000380503,;HIRIP3,downstream_gene_variant,,ENST00000565996,;INO80E,upstream_gene_variant,,ENST00000562441,;	A	ENSG00000149929	ENST00000279392	Transcript	synonymous_variant	1491	660	220	L	ctG/ctT	.	.	.	-1	HIRIP3	HGNC	4917	protein_coding	YES	CCDS10664.1	ENSP00000279392	HIRP3_HUMAN	B3KQL0_HUMAN	UPI000013DBC9	.	.	.	4/7	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15410,hmmpanther:PTHR15410:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCCTTCAGGCT	.	2	BLCA
HIRIP3	0	.	GRCh37	16	30005886	30005886	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.580G>T	p.Glu194Ter	p.E194*	ENST00000279392	4/7	175	160	15	231	231	0	HIRIP3,stop_gained,p.Glu194Ter,ENST00000279392,;HIRIP3,intron_variant,,ENST00000564026,;INO80E,upstream_gene_variant,,ENST00000563197,;TAOK2,downstream_gene_variant,,ENST00000279394,;INO80E,upstream_gene_variant,,ENST00000567254,;INO80E,upstream_gene_variant,,ENST00000304516,;INO80E,upstream_gene_variant,,ENST00000567705,;HIRIP3,downstream_gene_variant,,ENST00000566471,;INO80E,upstream_gene_variant,,ENST00000563040,;HIRIP3,intron_variant,,ENST00000563680,;HIRIP3,intron_variant,,ENST00000563053,;INO80E,upstream_gene_variant,,ENST00000567987,;INO80E,upstream_gene_variant,,ENST00000568043,;HIRIP3,downstream_gene_variant,,ENST00000568880,;INO80E,upstream_gene_variant,,ENST00000540562,;TAOK2,downstream_gene_variant,,ENST00000570844,;INO80E,upstream_gene_variant,,ENST00000569957,;INO80E,upstream_gene_variant,,ENST00000567065,;INO80E,upstream_gene_variant,,ENST00000380503,;HIRIP3,downstream_gene_variant,,ENST00000565996,;INO80E,upstream_gene_variant,,ENST00000562441,;	A	ENSG00000149929	ENST00000279392	Transcript	stop_gained	1411	580	194	E/*	Gaa/Taa	.	.	.	-1	HIRIP3	HGNC	4917	protein_coding	YES	CCDS10664.1	ENSP00000279392	HIRP3_HUMAN	B3KQL0_HUMAN	UPI000013DBC9	.	.	.	4/7	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15410,hmmpanther:PTHR15410:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TTCTTCCCTGG	.	3	BLCA
ZNF597	0	.	GRCh37	16	3490894	3490894	+	Missense_Mutation	SNP	G	G	C	rs773056591	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.73C>G	p.Gln25Glu	p.Q25E	ENST00000301744	3/4	72	64	8	98	98	0	ZNF597,missense_variant,p.Gln25Glu,ENST00000301744,;NAA60,upstream_gene_variant,,ENST00000608722,;NAA60,upstream_gene_variant,,ENST00000575733,;NAA60,upstream_gene_variant,,ENST00000574950,;NAA60,upstream_gene_variant,,ENST00000407558,;NAA60,upstream_gene_variant,,ENST00000572757,;NAA60,upstream_gene_variant,,ENST00000424546,;NAA60,upstream_gene_variant,,ENST00000570372,;NAA60,upstream_gene_variant,,ENST00000573201,;NAA60,upstream_gene_variant,,ENST00000573593,;NAA60,upstream_gene_variant,,ENST00000573580,;NAA60,upstream_gene_variant,,ENST00000572169,;NAA60,upstream_gene_variant,,ENST00000575042,;NAA60,upstream_gene_variant,,ENST00000575936,;NAA60,intron_variant,,ENST00000575785,;NAA60,upstream_gene_variant,,ENST00000574256,;NAA60,upstream_gene_variant,,ENST00000573617,;NAA60,upstream_gene_variant,,ENST00000574762,;	C	ENSG00000167981	ENST00000301744	Transcript	missense_variant	309	73	25	Q/E	Caa/Gaa	rs773056591	.	.	-1	ZNF597	HGNC	26573	protein_coding	YES	CCDS10505.1	ENSP00000301744	ZN597_HUMAN	.	UPI0000070B73	.	deleterious(0)	probably_damaging(0.999)	3/4	.	hmmpanther:PTHR24385,hmmpanther:PTHR24385:SF50,Pfam_domain:PF01352,SMART_domains:SM00349,Superfamily_domains:0044637	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTGAGAAA	byFrequency	4	BLCA
SLC7A5	0	.	GRCh37	16	87902825	87902825	+	Missense_Mutation	SNP	G	G	C	rs747364085	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.204C>G	p.Ile68Met	p.I68M	ENST00000261622	1/10	112	89	23	80	80	0	SLC7A5,missense_variant,p.Ile68Met,ENST00000261622,;	C	ENSG00000103257	ENST00000261622	Transcript	missense_variant	270	204	68	I/M	atC/atG	rs747364085	.	.	-1	SLC7A5	HGNC	11063	protein_coding	YES	CCDS10964.1	ENSP00000261622	LAT1_HUMAN	.	UPI000000D9ED	.	deleterious(0)	probably_damaging(1)	1/10	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR11785,hmmpanther:PTHR11785:SF232,TIGRFAM_domain:TIGR00911,Pfam_domain:PF13520,PIRSF_domain:PIRSF006060	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACGAAGATGCC	.	5	BLCA
CCDC144A	0	.	GRCh37	17	16701795	16701795	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*1730G>A	.	.	ENST00000443444	24/27	48	42	5	61	61	0	CCDC144A,3_prime_UTR_variant,,ENST00000443444,;USP32P1,non_coding_transcript_exon_variant,,ENST00000437217,;USP32P1,non_coding_transcript_exon_variant,,ENST00000341745,;RP11-219A15.4,non_coding_transcript_exon_variant,,ENST00000602730,;USP32P1,non_coding_transcript_exon_variant,,ENST00000445583,;USP32P1,non_coding_transcript_exon_variant,,ENST00000582011,;USP32P1,non_coding_transcript_exon_variant,,ENST00000393005,;USP32P1,non_coding_transcript_exon_variant,,ENST00000456071,;USP32P1,non_coding_transcript_exon_variant,,ENST00000444558,;USP32P1,downstream_gene_variant,,ENST00000578986,;USP32P1,downstream_gene_variant,,ENST00000577603,;USP32P1,downstream_gene_variant,,ENST00000417524,;RP11-219A15.1,3_prime_UTR_variant,,ENST00000448331,;USP32P1,non_coding_transcript_exon_variant,,ENST00000506594,;	A	ENSG00000170160	ENST00000443444	Transcript	3_prime_UTR_variant	6154	.	.	.	.	.	.	.	1	CCDC144A	HGNC	29072	protein_coding	YES	CCDS45621.1	ENSP00000439262	C144A_HUMAN	.	UPI0000F095D0	.	.	.	24/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCCTGAGCAA	.	4	BLCA
SERPINF1	0	.	GRCh37	17	1675246	1675246	+	Missense_Mutation	SNP	C	C	T	rs756397389	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.520C>T	p.Arg174Cys	p.R174C	ENST00000254722	5/8	23	17	6	39	39	0	SERPINF1,missense_variant,p.Arg174Cys,ENST00000254722,;SERPINF1,5_prime_UTR_variant,,ENST00000572048,;SERPINF1,5_prime_UTR_variant,,ENST00000576406,;SERPINF1,5_prime_UTR_variant,,ENST00000573763,;SERPINF1,downstream_gene_variant,,ENST00000571149,;SERPINF1,downstream_gene_variant,,ENST00000571360,;SERPINF1,downstream_gene_variant,,ENST00000570731,;SERPINF1,downstream_gene_variant,,ENST00000577053,;SERPINF1,downstream_gene_variant,,ENST00000571870,;SERPINF1,3_prime_UTR_variant,,ENST00000573770,;SERPINF1,non_coding_transcript_exon_variant,,ENST00000570820,;SERPINF1,upstream_gene_variant,,ENST00000572517,;	T	ENSG00000132386	ENST00000254722	Transcript	missense_variant	683	520	174	R/C	Cgc/Tgc	rs756397389	.	.	1	SERPINF1	HGNC	8824	protein_coding	YES	CCDS11012.1	ENSP00000254722	PEDF_HUMAN	I3L4F9_HUMAN,I3L425_HUMAN,I3L3Z3_HUMAN,I3L2R7_HUMAN,I3L107_HUMAN	UPI000013CE56	.	deleterious(0)	possibly_damaging(0.814)	5/8	.	hmmpanther:PTHR11461:SF84,hmmpanther:PTHR11461,Pfam_domain:PF00079,Gene3D:3.30.497.10,SMART_domains:SM00093,Superfamily_domains:SSF56574	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	ACCCTCGCTTG	byFrequency	5	BLCA
SMCR8	0	.	GRCh37	17	18219700	18219700	+	Silent	SNP	G	G	A	rs751560607	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.597G>A	p.%3D	p.L199L	ENST00000406438	1/2	39	28	10	41	41	0	SMCR8,synonymous_variant,p.%3D,ENST00000406438,;TOP3A,upstream_gene_variant,,ENST00000580095,;TOP3A,upstream_gene_variant,,ENST00000321105,;TOP3A,upstream_gene_variant,,ENST00000542570,;TOP3A,upstream_gene_variant,,ENST00000584887,;TOP3A,upstream_gene_variant,,ENST00000582230,;TOP3A,upstream_gene_variant,,ENST00000584669,;TOP3A,upstream_gene_variant,,ENST00000580713,;TOP3A,upstream_gene_variant,,ENST00000461127,;TOP3A,upstream_gene_variant,,ENST00000583328,;TOP3A,upstream_gene_variant,,ENST00000582981,;TOP3A,upstream_gene_variant,,ENST00000584582,;TOP3A,upstream_gene_variant,,ENST00000585031,;TOP3A,upstream_gene_variant,,ENST00000472959,;RPL21P121,downstream_gene_variant,,ENST00000439258,;RPL7AP65,downstream_gene_variant,,ENST00000418183,;	A	ENSG00000176994	ENST00000406438	Transcript	synonymous_variant	1077	597	199	L	ctG/ctA	rs751560607	.	.	1	SMCR8	HGNC	17921	protein_coding	YES	CCDS11195.2	ENSP00000385025	SMCR8_HUMAN	.	UPI0000E0322D	.	.	.	1/2	.	Pfam_domain:PF11704,hmmpanther:PTHR31334:SF1,hmmpanther:PTHR31334	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGCTGAAAGA	.	5	BLCA
AP2B1	0	.	GRCh37	17	33984655	33984655	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1834G>A	p.Ala612Thr	p.A612T	ENST00000312678	14/22	54	51	3	46	46	0	AP2B1,missense_variant,p.Ala612Thr,ENST00000589344,;AP2B1,missense_variant,p.Ala612Thr,ENST00000262325,;AP2B1,missense_variant,p.Ala612Thr,ENST00000312678,;AP2B1,missense_variant,p.Ala60Thr,ENST00000587805,;AP2B1,missense_variant,p.Ala574Thr,ENST00000592545,;AP2B1,missense_variant,p.Ala555Thr,ENST00000538556,;AP2B1,missense_variant,p.Ala612Thr,ENST00000537622,;AP2B1,non_coding_transcript_exon_variant,,ENST00000545922,;AP2B1,3_prime_UTR_variant,,ENST00000592191,;AP2B1,downstream_gene_variant,,ENST00000588116,;	A	ENSG00000006125	ENST00000312678	Transcript	missense_variant	1964	1834	612	A/T	Gca/Aca	.	.	.	1	AP2B1	HGNC	563	protein_coding	YES	CCDS32621.1	ENSP00000314414	AP2B1_HUMAN	Q96EL6_HUMAN,K7ERB2_HUMAN,K7EN71_HUMAN,K7EJX1_HUMAN	UPI000006DD97	.	tolerated(0.23)	benign(0.031)	14/22	.	hmmpanther:PTHR11134,hmmpanther:PTHR11134:SF9,PIRSF_domain:PIRSF002291	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCACTGCAACG	.	2	BLCA
MYO19	0	.	GRCh37	17	34863731	34863731	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1264C>T	p.Pro422Ser	p.P422S	ENST00000431794	15/26	40	32	8	38	37	0	MYO19,missense_variant,p.Pro422Ser,ENST00000268852,;MYO19,missense_variant,p.Pro422Ser,ENST00000431794,;MYO19,missense_variant,p.Pro422Ser,ENST00000586908,;MYO19,3_prime_UTR_variant,,ENST00000591794,;MYO19,3_prime_UTR_variant,,ENST00000591017,;MYO19,3_prime_UTR_variant,,ENST00000588471,;MYO19,non_coding_transcript_exon_variant,,ENST00000588377,;MYO19,upstream_gene_variant,,ENST00000591477,;MYO19,upstream_gene_variant,,ENST00000588727,;MYO19,upstream_gene_variant,,ENST00000593222,;MYO19,downstream_gene_variant,,ENST00000587389,;MYO19,downstream_gene_variant,,ENST00000590585,;MYO19,upstream_gene_variant,,ENST00000586328,;MYO19,upstream_gene_variant,,ENST00000592735,;	A	ENSG00000141140	ENST00000431794	Transcript	missense_variant	1787	1264	422	P/S	Cct/Tct	COSM3889557,COSM3889556	.	.	-1	MYO19	HGNC	26234	protein_coding	YES	CCDS54112.1	ENSP00000409936	MYO19_HUMAN	K7EQ57_HUMAN,K7EP95_HUMAN,K7EMZ0_HUMAN,K7EJW5_HUMAN	UPI000173AA19	.	tolerated(0.07)	possibly_damaging(0.589)	15/26	.	PROSITE_profiles:PS51456,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF289,Pfam_domain:PF00063,SMART_domains:SM00242,Superfamily_domains:SSF52540,Prints_domain:PR00193	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	GTCAGGAAATG	.	4	BLCA
CDK12	0	.	GRCh37	17	37627496	37627496	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411G>C	p.Glu471Gln	p.E471Q	ENST00000447079	2/14	81	73	8	113	113	0	CDK12,missense_variant,p.Glu471Gln,ENST00000447079,;CDK12,missense_variant,p.Glu470Gln,ENST00000584632,;CDK12,missense_variant,p.Glu471Gln,ENST00000430627,;CDK12,upstream_gene_variant,,ENST00000581593,;	C	ENSG00000167258	ENST00000447079	Transcript	missense_variant	1444	1411	471	E/Q	Gag/Cag	COSM705335	.	.	1	CDK12	HGNC	24224	protein_coding	YES	CCDS11337.1	ENSP00000398880	CDK12_HUMAN	.	UPI000013E688	.	.	possibly_damaging(0.775)	2/14	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACACAGAGGTA	.	3	BLCA
G6PC	0	.	GRCh37	17	41063413	41063413	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1044C>T	p.%3D	p.V348V	ENST00000253801	5/5	90	78	12	82	82	0	G6PC,synonymous_variant,p.%3D,ENST00000253801,;G6PC,3_prime_UTR_variant,,ENST00000585489,;G6PC,downstream_gene_variant,,ENST00000592383,;	T	ENSG00000131482	ENST00000253801	Transcript	synonymous_variant	1123	1044	348	V	gtC/gtT	.	.	.	1	G6PC	HGNC	4056	protein_coding	YES	CCDS11446.1	ENSP00000253801	G6PC_HUMAN	.	UPI000013CDF5	.	.	.	5/5	.	PIRSF_domain:PIRSF000905,hmmpanther:PTHR12591:SF3,hmmpanther:PTHR12591	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CAGGTCCTGGG	.	3	BLCA
C17orf82	0	.	GRCh37	17	59489712	59489712	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.376C>G	p.Leu126Val	p.L126V	ENST00000335108	1/1	34	31	3	34	34	0	C17orf82,missense_variant,p.Leu126Val,ENST00000335108,;TBX2,downstream_gene_variant,,ENST00000240328,;RP11-332H18.4,upstream_gene_variant,,ENST00000592009,;TBX2,downstream_gene_variant,,ENST00000586986,;TBX2,downstream_gene_variant,,ENST00000477081,;TBX2,downstream_gene_variant,,ENST00000419047,;	G	ENSG00000187013	ENST00000335108	Transcript	missense_variant	601	376	126	L/V	Ctg/Gtg	.	.	.	1	C17orf82	HGNC	32699	protein_coding	YES	CCDS11628.1	ENSP00000335229	CQ082_HUMAN	.	UPI00001983B1	.	tolerated_low_confidence(0.34)	benign(0.003)	1/1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A124V|c.371C>T|3,BUFFER|p.A124V|c.371C>T|3	RADIA|VARSCANS	CATATCTGTTC	.	2	BLCA
GPR142	0	.	GRCh37	17	72363715	72363715	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.71C>T	p.Ala24Val	p.A24V	ENST00000335666	1/4	57	46	11	50	50	0	GPR142,missense_variant,p.Ala24Val,ENST00000335666,;GPR142,missense_variant,p.Ala24Val,ENST00000585308,;GPR142,missense_variant,p.Ala24Val,ENST00000582579,;	T	ENSG00000257008	ENST00000335666	Transcript	missense_variant	119	71	24	A/V	gCt/gTt	COSM984028	.	.	1	GPR142	HGNC	20088	protein_coding	YES	CCDS11698.1	ENSP00000335158	GP142_HUMAN	.	UPI00001AA7F1	.	deleterious_low_confidence(0)	possibly_damaging(0.739)	1/4	.	.	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTGCTGTCC	.	5	BLCA
FDXR	0	.	GRCh37	17	72859248	72859248	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1424C>G	p.Ser475Cys	p.S475C	ENST00000442102	11/12	20	17	3	20	20	0	FDXR,missense_variant,p.Ser392Cys,ENST00000420580,;FDXR,missense_variant,p.Ser432Cys,ENST00000293195,;FDXR,missense_variant,p.Ser475Cys,ENST00000442102,;FDXR,missense_variant,p.Ser380Cys,ENST00000544854,;FDXR,missense_variant,p.Ser438Cys,ENST00000581530,;FDXR,missense_variant,p.Ser424Cys,ENST00000582944,;FDXR,missense_variant,p.Ser463Cys,ENST00000413947,;FDXR,missense_variant,p.Ser404Cys,ENST00000583917,;FDXR,3_prime_UTR_variant,,ENST00000455107,;FDXR,downstream_gene_variant,,ENST00000581219,;FDXR,downstream_gene_variant,,ENST00000579893,;GRIN2C,upstream_gene_variant,,ENST00000347612,;GRIN2C,upstream_gene_variant,,ENST00000293190,;FDXR,downstream_gene_variant,,ENST00000581969,;GRIN2C,upstream_gene_variant,,ENST00000578159,;FDXR,3_prime_UTR_variant,,ENST00000579482,;FDXR,3_prime_UTR_variant,,ENST00000577509,;FDXR,3_prime_UTR_variant,,ENST00000583881,;FDXR,non_coding_transcript_exon_variant,,ENST00000578473,;FDXR,downstream_gene_variant,,ENST00000580492,;GRIN2C,upstream_gene_variant,,ENST00000584176,;FDXR,downstream_gene_variant,,ENST00000582710,;FDXR,downstream_gene_variant,,ENST00000577932,;FDXR,downstream_gene_variant,,ENST00000579543,;GRIN2C,upstream_gene_variant,,ENST00000584496,;	C	ENSG00000161513	ENST00000442102	Transcript	missense_variant	1511	1424	475	S/C	tCt/tGt	.	.	.	-1	FDXR	HGNC	3642	protein_coding	YES	CCDS58595.1	ENSP00000416515	ADRO_HUMAN	.	UPI00017A7105	.	deleterious(0)	possibly_damaging(0.769)	11/12	.	Superfamily_domains:SSF51971,PIRSF_domain:PIRSF000362,Gene3D:3.40.50.720,hmmpanther:PTHR11938	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGCCAGAGGGG	.	2	BLCA
NUP85	0	.	GRCh37	17	73228974	73228974	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1425G>A	p.Met475Ile	p.M475I	ENST00000245544	15/19	141	118	22	138	138	0	NUP85,missense_variant,p.Met248Ile,ENST00000579557,;NUP85,missense_variant,p.Met475Ile,ENST00000245544,;NUP85,missense_variant,p.Met307Ile,ENST00000447371,;NUP85,missense_variant,p.Met363Ile,ENST00000579324,;NUP85,missense_variant,p.Met430Ile,ENST00000579298,;NUP85,missense_variant,p.Met78Ile,ENST00000540768,;NUP85,missense_variant,p.Met171Ile,ENST00000583070,;NUP85,missense_variant,p.Met429Ile,ENST00000541827,;GGA3,downstream_gene_variant,,ENST00000578348,;GGA3,downstream_gene_variant,,ENST00000582486,;GGA3,downstream_gene_variant,,ENST00000245541,;GGA3,downstream_gene_variant,,ENST00000351904,;GGA3,downstream_gene_variant,,ENST00000583282,;NUP85,upstream_gene_variant,,ENST00000579838,;NUP85,upstream_gene_variant,,ENST00000579900,;NUP85,downstream_gene_variant,,ENST00000581335,;NUP85,3_prime_UTR_variant,,ENST00000580879,;NUP85,3_prime_UTR_variant,,ENST00000578830,;NUP85,3_prime_UTR_variant,,ENST00000581104,;NUP85,non_coding_transcript_exon_variant,,ENST00000582681,;NUP85,upstream_gene_variant,,ENST00000578294,;GGA3,downstream_gene_variant,,ENST00000537584,;GGA3,downstream_gene_variant,,ENST00000582200,;NUP85,upstream_gene_variant,,ENST00000584155,;GGA3,downstream_gene_variant,,ENST00000578275,;NUP85,downstream_gene_variant,,ENST00000577645,;GGA3,downstream_gene_variant,,ENST00000580646,;NUP85,upstream_gene_variant,,ENST00000578987,;GGA3,downstream_gene_variant,,ENST00000584978,;	A	ENSG00000125450	ENST00000245544	Transcript	missense_variant	1496	1425	475	M/I	atG/atA	.	.	.	1	NUP85	HGNC	8734	protein_coding	YES	CCDS32730.1	ENSP00000245544	NUP85_HUMAN	J3QL54_HUMAN,J3KSH3_HUMAN,F5H0W7_HUMAN,B4DMQ3_HUMAN	UPI00000735DC	.	deleterious(0.01)	benign(0.403)	15/19	.	hmmpanther:PTHR13373:SF21,hmmpanther:PTHR13373,Pfam_domain:PF07575	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCCATGAAAGC	.	4	BLCA
KIAA0195	0	.	GRCh37	17	73494276	73494276	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3510C>T	p.%3D	p.L1170L	ENST00000314256	28/32	86	75	11	63	62	1	KIAA0195,synonymous_variant,p.%3D,ENST00000577245,;KIAA0195,synonymous_variant,p.%3D,ENST00000579208,;KIAA0195,synonymous_variant,p.%3D,ENST00000314256,;KIAA0195,synonymous_variant,p.%3D,ENST00000577247,;KIAA0195,synonymous_variant,p.%3D,ENST00000375248,;KIAA0195,intron_variant,,ENST00000584694,;CASKIN2,downstream_gene_variant,,ENST00000321617,;KIAA0195,downstream_gene_variant,,ENST00000578853,;CASKIN2,downstream_gene_variant,,ENST00000433559,;AC100787.1,downstream_gene_variant,,ENST00000579379,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000579898,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000585105,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581453,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581085,;CASKIN2,downstream_gene_variant,,ENST00000580021,;KIAA0195,downstream_gene_variant,,ENST00000581723,;KIAA0195,downstream_gene_variant,,ENST00000581867,;KIAA0195,downstream_gene_variant,,ENST00000578624,;KIAA0195,upstream_gene_variant,,ENST00000577194,;	T	ENSG00000177728	ENST00000314256	Transcript	synonymous_variant	3904	3510	1170	L	ctC/ctT	.	.	.	1	KIAA0195	HGNC	28983	protein_coding	YES	CCDS32732.1	ENSP00000313885	K0195_HUMAN	J3QS17_HUMAN,J3QRT3_HUMAN,J3QLM7_HUMAN,J3KT63_HUMAN,J3KRU7_HUMAN	UPI0000139439	.	.	.	28/32	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13219:SF6,hmmpanther:PTHR13219,Pfam_domain:PF00689,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGCTCTGCTT	.	3	BLCA
KIAA0195	0	.	GRCh37	17	73494288	73494288	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3522C>G	p.%3D	p.L1174L	ENST00000314256	28/32	79	69	9	66	66	0	KIAA0195,synonymous_variant,p.%3D,ENST00000577245,;KIAA0195,synonymous_variant,p.%3D,ENST00000579208,;KIAA0195,synonymous_variant,p.%3D,ENST00000314256,;KIAA0195,synonymous_variant,p.%3D,ENST00000577247,;KIAA0195,synonymous_variant,p.%3D,ENST00000375248,;KIAA0195,intron_variant,,ENST00000584694,;CASKIN2,downstream_gene_variant,,ENST00000321617,;KIAA0195,downstream_gene_variant,,ENST00000578853,;CASKIN2,downstream_gene_variant,,ENST00000433559,;AC100787.1,downstream_gene_variant,,ENST00000579379,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000579898,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000585105,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581453,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581085,;CASKIN2,downstream_gene_variant,,ENST00000580021,;KIAA0195,downstream_gene_variant,,ENST00000581723,;KIAA0195,downstream_gene_variant,,ENST00000581867,;KIAA0195,downstream_gene_variant,,ENST00000578624,;KIAA0195,upstream_gene_variant,,ENST00000577194,;	G	ENSG00000177728	ENST00000314256	Transcript	synonymous_variant	3916	3522	1174	L	ctC/ctG	.	.	.	1	KIAA0195	HGNC	28983	protein_coding	YES	CCDS32732.1	ENSP00000313885	K0195_HUMAN	J3QS17_HUMAN,J3QRT3_HUMAN,J3QLM7_HUMAN,J3KT63_HUMAN,J3KRU7_HUMAN	UPI0000139439	.	.	.	28/32	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR13219:SF6,hmmpanther:PTHR13219,Pfam_domain:PF00689,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	CTGCTCAAGTT	.	3	BLCA
KIAA0195	0	.	GRCh37	17	73494397	73494397	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3631C>G	p.Leu1211Val	p.L1211V	ENST00000314256	28/32	48	35	13	47	47	0	KIAA0195,missense_variant,p.Leu68Val,ENST00000577245,;KIAA0195,missense_variant,p.Leu862Val,ENST00000579208,;KIAA0195,missense_variant,p.Leu1211Val,ENST00000314256,;KIAA0195,missense_variant,p.Leu150Val,ENST00000577247,;KIAA0195,missense_variant,p.Leu58Val,ENST00000584694,;KIAA0195,missense_variant,p.Leu1221Val,ENST00000375248,;CASKIN2,downstream_gene_variant,,ENST00000321617,;KIAA0195,downstream_gene_variant,,ENST00000578853,;CASKIN2,downstream_gene_variant,,ENST00000433559,;AC100787.1,downstream_gene_variant,,ENST00000579379,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000579898,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000585105,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581453,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000577194,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581085,;CASKIN2,downstream_gene_variant,,ENST00000580021,;KIAA0195,downstream_gene_variant,,ENST00000581723,;KIAA0195,downstream_gene_variant,,ENST00000581867,;KIAA0195,downstream_gene_variant,,ENST00000578624,;	G	ENSG00000177728	ENST00000314256	Transcript	missense_variant	4025	3631	1211	L/V	Ctg/Gtg	.	.	.	1	KIAA0195	HGNC	28983	protein_coding	YES	CCDS32732.1	ENSP00000313885	K0195_HUMAN	J3QS17_HUMAN,J3QRT3_HUMAN,J3QLM7_HUMAN,J3KT63_HUMAN,J3KRU7_HUMAN	UPI0000139439	.	tolerated(0.62)	benign(0.007)	28/32	.	hmmpanther:PTHR13219:SF6,hmmpanther:PTHR13219,Pfam_domain:PF00689,Gene3D:1.20.1110.10,Superfamily_domains:0049473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCATGCTGCCC	.	5	BLCA
KIAA0195	0	.	GRCh37	17	73495517	73495517	+	3'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*102C>G	.	.	ENST00000314256	32/32	10	7	3	8	8	0	KIAA0195,3_prime_UTR_variant,,ENST00000579208,;KIAA0195,3_prime_UTR_variant,,ENST00000314256,;KIAA0195,3_prime_UTR_variant,,ENST00000375248,;CASKIN2,downstream_gene_variant,,ENST00000321617,;KIAA0195,downstream_gene_variant,,ENST00000577245,;KIAA0195,downstream_gene_variant,,ENST00000577247,;CASKIN2,downstream_gene_variant,,ENST00000433559,;KIAA0195,downstream_gene_variant,,ENST00000584694,;AC100787.1,downstream_gene_variant,,ENST00000579379,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000579898,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000585105,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581085,;CASKIN2,downstream_gene_variant,,ENST00000580021,;KIAA0195,downstream_gene_variant,,ENST00000581453,;KIAA0195,downstream_gene_variant,,ENST00000581723,;KIAA0195,downstream_gene_variant,,ENST00000581867,;KIAA0195,downstream_gene_variant,,ENST00000577194,;	G	ENSG00000177728	ENST00000314256	Transcript	3_prime_UTR_variant	4567	.	.	.	.	.	.	.	1	KIAA0195	HGNC	28983	protein_coding	YES	CCDS32732.1	ENSP00000313885	K0195_HUMAN	J3QS17_HUMAN,J3QRT3_HUMAN,J3QLM7_HUMAN,J3KT63_HUMAN,J3KRU7_HUMAN	UPI0000139439	.	.	.	32/32	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTGCTCCTGCA	.	2	BLCA
TP53	0	.	GRCh37	17	7579406	7579406	+	Nonsense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.281C>G	p.Ser94Ter	p.S94*	ENST00000269305	4/11	55	39	16	81	81	0	TP53,stop_gained,p.Ser94Ter,ENST00000508793,;TP53,stop_gained,p.Ser94Ter,ENST00000413465,;TP53,stop_gained,p.Ser94Ter,ENST00000604348,;TP53,stop_gained,p.Ser94Ter,ENST00000420246,;TP53,stop_gained,p.Ser94Ter,ENST00000269305,;TP53,stop_gained,p.Ser94Ter,ENST00000359597,;TP53,stop_gained,p.Ser94Ter,ENST00000445888,;TP53,stop_gained,p.Ser94Ter,ENST00000503591,;TP53,stop_gained,p.Ser94Ter,ENST00000455263,;TP53,intron_variant,,ENST00000509690,;TP53,intron_variant,,ENST00000514944,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,upstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,upstream_gene_variant,,ENST00000504937,;TP53,upstream_gene_variant,,ENST00000504290,;TP53,upstream_gene_variant,,ENST00000510385,;	C	ENSG00000141510	ENST00000269305	Transcript	stop_gained	471	281	94	S/*	tCa/tGa	TP53_g.11512C>G,TP53_g.11512C>T,TP53_g.11512C>A,COSM45653,COSM45500,COSM2745056,COSM1386891,COSM2745058,COSM1386892,COSM3733628,COSM3970391,COSM2745057,COSM3733627	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	4/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Gene3D:2.60.40.720	.	.	.	.	.	.	.	.	.	.	0,0,0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	HIGH	.	SNV	.	.	0,0,0,1,1,1,1,1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S94*|c.281C>G|4,CODON|p.0?|c.1_1182del1182|6,CODON|p.G59fs*23|c.175_374del200|3,CODON|p.S94*|c.281C>A|4,BUFFER|p.P98S|c.292C>T|4,BUFFER|p.S96F|c.287C>T|3,BUFFER|p.S96P|c.286T>C|3,BUFFER|p.S95F|c.284C>T|3,BUFFER|p.S95P|c.283T>C|3,BUFFER|p.S95P|c.283T>C|3,BUFFER|p.S95P|c.283T>C|3,BUFFER|p.W91*|c.273G>A|5,BUFFER|p.W91*|c.273G>A|3,BUFFER|p.W91*|c.273G>A|9,BUFFER|p.W91*|c.273G>A|9,BUFFER|p.W91*|c.273G>A|17,BUFFER|p.W91*|c.272G>A|3,BUFFER|p.W91*|c.272G>A|3,BUFFER|p.W91*|c.272G>A|7,BUFFER|p.A76_S90del15|c.226_270del45|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGATGACAGG	.	5	BLCA
TP53	0	.	GRCh37	17	7579854	7579854	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>G	p.Ser20Ter	p.S20*	ENST00000269305	2/11	29	25	3	35	35	0	TP53,stop_gained,p.Ser20Ter,ENST00000508793,;TP53,stop_gained,p.Ser20Ter,ENST00000413465,;TP53,stop_gained,p.Ser20Ter,ENST00000604348,;TP53,stop_gained,p.Ser20Ter,ENST00000420246,;TP53,stop_gained,p.Ser20Ter,ENST00000269305,;TP53,stop_gained,p.Ser20Ter,ENST00000359597,;TP53,stop_gained,p.Ser20Ter,ENST00000514944,;TP53,stop_gained,p.Ser20Ter,ENST00000445888,;TP53,stop_gained,p.Ser20Ter,ENST00000503591,;TP53,stop_gained,p.Ser20Ter,ENST00000455263,;TP53,intron_variant,,ENST00000509690,;TP53,upstream_gene_variant,,ENST00000576024,;TP53,upstream_gene_variant,,ENST00000574684,;TP53,non_coding_transcript_exon_variant,,ENST00000505014,;TP53,upstream_gene_variant,,ENST00000504937,;TP53,upstream_gene_variant,,ENST00000504290,;TP53,upstream_gene_variant,,ENST00000510385,;	C	ENSG00000141510	ENST00000269305	Transcript	stop_gained	249	59	20	S/*	tCa/tGa	.	.	.	-1	TP53	HGNC	11998	protein_coding	YES	CCDS11118.1	ENSP00000269305	P53_HUMAN	S5LQU8_HUMAN,Q761V2_HUMAN,Q6IT77_HUMAN,Q1HGV1_HUMAN,Q0PKT5_HUMAN,L0ES54_HUMAN,L0EQ05_HUMAN,K7PPA8_HUMAN,H2EHT1_HUMAN,G4Y083_HUMAN,E9PCY9_HUMAN,E7ESS1_HUMAN,E7EMR6_HUMAN,B5AKF6_HUMAN,B4DNI2_HUMAN,A4GWD0_HUMAN,A4GWB8_HUMAN,A4GWB5_HUMAN,A4GW97_HUMAN,A4GW76_HUMAN,A4GW75_HUMAN,A4GW74_HUMAN,A4GW67_HUMAN,A2I9Z1_HUMAN,A2I9Z0_HUMAN	UPI000002ED67	.	.	.	2/11	.	hmmpanther:PTHR11447:SF6,hmmpanther:PTHR11447,Pfam_domain:PF08563	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	CODON|p.0?|c.1_1182del1182|6	RADIA|MUTECT|MUSE|VARSCANS	GGTCTGAAAAT	.	4	BLCA
DNAH17	0	.	GRCh37	17	76450732	76450732	+	Missense_Mutation	SNP	G	G	A	rs199512383	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10184C>T	p.Ala3395Val	p.A3395V	ENST00000389840	64/81	37	28	8	47	47	0	DNAH17,missense_variant,p.Ala3404Val,ENST00000585328,;DNAH17,missense_variant,p.Ala3395Val,ENST00000389840,;DNAH17,non_coding_transcript_exon_variant,,ENST00000592152,;DNAH17,non_coding_transcript_exon_variant,,ENST00000586052,;DNAH17,missense_variant,p.Ala610Val,ENST00000591369,;DNAH17,upstream_gene_variant,,ENST00000590227,;	A	ENSG00000187775	ENST00000389840	Transcript	missense_variant	10309	10184	3395	A/V	gCg/gTg	rs199512383	.	.	-1	DNAH17	HGNC	2946	protein_coding	YES	.	ENSP00000374490	DYH17_HUMAN	.	UPI0001A5EE11	.	.	possibly_damaging(0.761)	64/81	.	hmmpanther:PTHR10676:SF228,hmmpanther:PTHR10676,Pfam_domain:PF12781	.	.	.	.	.	.	.	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTCCGCGTCA	byCluster	5	BLCA
NPLOC4	0	.	GRCh37	17	79589209	79589209	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.192C>G	p.%3D	p.L64L	ENST00000331134	3/17	76	57	18	86	86	0	NPLOC4,synonymous_variant,p.%3D,ENST00000374747,;NPLOC4,synonymous_variant,p.%3D,ENST00000331134,;NPLOC4,5_prime_UTR_variant,,ENST00000539314,;NPLOC4,non_coding_transcript_exon_variant,,ENST00000570300,;NPLOC4,synonymous_variant,p.%3D,ENST00000574897,;	C	ENSG00000182446	ENST00000331134	Transcript	synonymous_variant	408	192	64	L	ctC/ctG	.	.	.	-1	NPLOC4	HGNC	18261	protein_coding	YES	CCDS45812.1	ENSP00000331487	NPL4_HUMAN	.	UPI0000070BDD	.	.	.	3/17	.	hmmpanther:PTHR12710,Pfam_domain:PF11543,Gene3D:3.10.20.90,PIRSF_domain:PIRSF010052,Superfamily_domains:SSF54236	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAGTTGAGGGA	.	5	BLCA
SLC25A10	0	.	GRCh37	17	79671335	79671335	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.136G>C	p.Glu46Gln	p.E46Q	ENST00000571730	2/15	37	25	12	31	31	0	SLC25A10,missense_variant,p.Glu46Gln,ENST00000541223,;MRPL12,missense_variant,p.Glu46Gln,ENST00000333676,;SLC25A10,missense_variant,p.Glu46Gln,ENST00000571730,;HGS,downstream_gene_variant,,ENST00000575078,;HGS,downstream_gene_variant,,ENST00000573320,;HGS,downstream_gene_variant,,ENST00000329138,;RP13-1032I1.7,upstream_gene_variant,,ENST00000575312,;HGS,downstream_gene_variant,,ENST00000573949,;HGS,downstream_gene_variant,,ENST00000570652,;HGS,downstream_gene_variant,,ENST00000570355,;	C	ENSG00000262660	ENST00000571730	Transcript	missense_variant	267	136	46	E/Q	Gag/Cag	.	.	.	1	SLC25A10	Uniprot_gn	10980	protein_coding	YES	.	ENSP00000461324	.	B4E1E9_HUMAN,B4DLN1_HUMAN,A4UCS1_HUMAN	UPI00017A75DC	.	tolerated_low_confidence(0.08)	benign(0.003)	2/15	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGTGTGAGGCC	.	5	BLCA
NDC80	0	.	GRCh37	18	2587859	2587859	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.700G>C	p.Glu234Gln	p.E234Q	ENST00000261597	8/17	146	94	52	127	127	0	NDC80,missense_variant,p.Glu234Gln,ENST00000261597,;NDC80,downstream_gene_variant,,ENST00000576274,;	C	ENSG00000080986	ENST00000261597	Transcript	missense_variant	882	700	234	E/Q	Gag/Cag	.	.	.	1	NDC80	HGNC	16909	protein_coding	YES	CCDS11827.1	ENSP00000261597	NDC80_HUMAN	A8K031_HUMAN	UPI0000073C92	.	tolerated(0.15)	benign(0.004)	8/17	.	hmmpanther:PTHR10643:SF2,hmmpanther:PTHR10643	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTATGAGAGT	.	5	BLCA
GALNT1	0	.	GRCh37	18	33243765	33243765	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.313G>C	p.Gly105Arg	p.G105R	ENST00000269195	2/11	34	30	4	77	77	0	GALNT1,missense_variant,p.Gly105Arg,ENST00000591924,;GALNT1,missense_variant,p.Gly105Arg,ENST00000591081,;GALNT1,missense_variant,p.Gly105Arg,ENST00000269195,;GALNT1,missense_variant,p.Gly45Arg,ENST00000537549,;GALNT1,missense_variant,p.Gly105Arg,ENST00000589189,;GALNT1,splice_region_variant,,ENST00000590654,;	C	ENSG00000141429	ENST00000269195	Transcript	missense_variant	416	313	105	G/R	Ggg/Cgg	.	.	.	1	GALNT1	HGNC	4123	protein_coding	YES	CCDS11915.1	ENSP00000269195	GALT1_HUMAN	K7EJV8_HUMAN,F5GY99_HUMAN	UPI00001311FC	.	tolerated(0.29)	benign(0.017)	2/11	.	hmmpanther:PTHR11675,hmmpanther:PTHR11675:SF19,Superfamily_domains:SSF53448	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|VARSCANS	TAGAAGGGTAA	.	2	BLCA
MAPK4	0	.	GRCh37	18	48248454	48248454	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.838G>A	p.Glu280Lys	p.E280K	ENST00000400384	4/6	15	11	4	35	35	0	MAPK4,missense_variant,p.Glu69Lys,ENST00000540640,;MAPK4,missense_variant,p.Glu280Lys,ENST00000400384,;MAPK4,intron_variant,,ENST00000592595,;	A	ENSG00000141639	ENST00000400384	Transcript	missense_variant	1874	838	280	E/K	Gaa/Aaa	.	.	.	1	MAPK4	HGNC	6878	protein_coding	YES	CCDS42437.1	ENSP00000383234	MK04_HUMAN	Q0VG04_HUMAN,B4E104_HUMAN,B4DEW2_HUMAN	UPI0000201D20	.	tolerated(0.46)	benign(0.003)	4/6	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF25,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCCCTGAAGTG	.	5	BLCA
ZNF700	0	.	GRCh37	19	12060550	12060550	+	Missense_Mutation	SNP	A	A	G	rs746112989	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1711A>G	p.Lys571Glu	p.K571E	ENST00000254321	4/4	128	118	10	103	102	0	ZNF700,missense_variant,p.Lys571Glu,ENST00000254321,;ZNF700,missense_variant,p.Lys553Glu,ENST00000482090,;ZNF763,intron_variant,,ENST00000538752,;ZNF763,intron_variant,,ENST00000590798,;ZNF763,intron_variant,,ENST00000591944,;CTD-2006C1.12,intron_variant,,ENST00000586394,;ZNF763,intron_variant,,ENST00000591441,;ZNF763,upstream_gene_variant,,ENST00000586354,;	G	ENSG00000196757	ENST00000254321	Transcript	missense_variant	1854	1711	571	K/E	Aaa/Gaa	rs746112989,COSM4074259	.	.	1	ZNF700	HGNC	25292	protein_coding	YES	CCDS32915.1	ENSP00000254321	ZN700_HUMAN	.	UPI00000713C0	.	deleterious(0.02)	probably_damaging(0.999)	4/4	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24379:SF24,hmmpanther:PTHR24379,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGGGAAAGCC	.	3	BLCA
ZNF700	0	.	GRCh37	19	12061103	12061103	+	3'UTR	SNP	C	C	G	rs780887092	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*35C>G	.	.	ENST00000254321	4/4	56	52	3	55	55	0	ZNF700,3_prime_UTR_variant,,ENST00000254321,;ZNF700,3_prime_UTR_variant,,ENST00000482090,;ZNF763,intron_variant,,ENST00000538752,;ZNF763,intron_variant,,ENST00000590798,;ZNF763,intron_variant,,ENST00000591944,;CTD-2006C1.12,intron_variant,,ENST00000586394,;ZNF763,3_prime_UTR_variant,,ENST00000586354,;ZNF763,intron_variant,,ENST00000591441,;	G	ENSG00000196757	ENST00000254321	Transcript	3_prime_UTR_variant	2407	.	.	.	.	rs780887092	.	.	1	ZNF700	HGNC	25292	protein_coding	YES	CCDS32915.1	ENSP00000254321	ZN700_HUMAN	.	UPI00000713C0	.	.	.	4/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCACACTGGAA	byFrequency	2	BLCA
DCAF15	0	.	GRCh37	19	14070171	14070171	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1099G>C	p.Glu367Gln	p.E367Q	ENST00000254337	7/13	36	27	9	43	43	0	DCAF15,missense_variant,p.Glu144Gln,ENST00000585468,;DCAF15,missense_variant,p.Glu367Gln,ENST00000254337,;RFX1,downstream_gene_variant,,ENST00000254325,;DCAF15,upstream_gene_variant,,ENST00000587307,;DCAF15,upstream_gene_variant,,ENST00000588523,;DCAF15,downstream_gene_variant,,ENST00000591802,;DCAF15,upstream_gene_variant,,ENST00000591385,;RFX1,downstream_gene_variant,,ENST00000588520,;	C	ENSG00000132017	ENST00000254337	Transcript	missense_variant	1120	1099	367	E/Q	Gag/Cag	.	.	.	1	DCAF15	HGNC	25095	protein_coding	YES	CCDS32926.1	ENSP00000254337	DCA15_HUMAN	.	UPI0000203531	.	tolerated(0.22)	possibly_damaging(0.557)	7/13	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTGGAGAGACG	.	5	BLCA
ARMC6	0	.	GRCh37	19	19153517	19153517	+	Intron	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.30-3C>T	.	.	ENST00000535612	.	35	29	6	36	36	0	ARMC6,splice_region_variant,,ENST00000541725,;ARMC6,splice_region_variant,,ENST00000540707,;ARMC6,splice_region_variant,,ENST00000537263,;ARMC6,splice_region_variant,,ENST00000392336,;ARMC6,splice_region_variant,,ENST00000536098,;ARMC6,splice_region_variant,,ENST00000392335,;ARMC6,splice_region_variant,,ENST00000538663,;ARMC6,splice_region_variant,,ENST00000543877,;ARMC6,splice_region_variant,,ENST00000540792,;ARMC6,splice_region_variant,,ENST00000269932,;ARMC6,splice_region_variant,,ENST00000535612,;ARMC6,splice_region_variant,,ENST00000541898,;ARMC6,intron_variant,,ENST00000546344,;ARMC6,intron_variant,,ENST00000535288,;ARMC6,splice_region_variant,,ENST00000535758,;ARMC6,splice_region_variant,,ENST00000539985,;ARMC6,splice_region_variant,,ENST00000545091,;	T	ENSG00000105676	ENST00000535612	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	ARMC6	HGNC	25049	protein_coding	YES	CCDS56089.1	ENSP00000444156	ARMC6_HUMAN	F5H7V0_HUMAN,F5H6J3_HUMAN,F5H4P3_HUMAN,F5H3X1_HUMAN,F5H2X2_HUMAN,F5H2K4_HUMAN,F5H052_HUMAN,F5GWV0_HUMAN,B4E1N1_HUMAN	UPI0000D4C04D	.	.	.	.	2/8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUSE|VARSCANS	CCTCTCAGCTC	.	3	BLCA
HAUS5	0	.	GRCh37	19	36109039	36109039	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.763G>A	p.Glu255Lys	p.E255K	ENST00000203166	10/19	65	48	17	67	67	0	HAUS5,missense_variant,p.Glu255Lys,ENST00000203166,;HAUS5,missense_variant,p.Glu255Lys,ENST00000379045,;HAUS5,upstream_gene_variant,,ENST00000590994,;HAUS5,missense_variant,p.Glu255Lys,ENST00000587439,;HAUS5,3_prime_UTR_variant,,ENST00000424522,;HAUS5,non_coding_transcript_exon_variant,,ENST00000428854,;HAUS5,non_coding_transcript_exon_variant,,ENST00000585968,;HAUS5,downstream_gene_variant,,ENST00000592291,;HAUS5,upstream_gene_variant,,ENST00000430749,;HAUS5,downstream_gene_variant,,ENST00000588570,;	A	ENSG00000249115	ENST00000203166	Transcript	missense_variant	788	763	255	E/K	Gag/Aag	.	.	.	1	HAUS5	HGNC	29130	protein_coding	YES	CCDS42550.1	ENSP00000439056	HAUS5_HUMAN	.	UPI0000169F45	.	deleterious(0.05)	possibly_damaging(0.547)	10/19	.	Low_complexity_(Seg):seg,Pfam_domain:PF14817,Prints_domain:PR02091	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGCGGGAGGCA	.	5	BLCA
ANKRD24	0	.	GRCh37	19	4207552	4207552	+	Missense_Mutation	SNP	C	C	G	rs371527951	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.592C>G	p.Arg198Gly	p.R198G	ENST00000600132	9/22	96	81	15	109	109	0	ANKRD24,missense_variant,p.Arg288Gly,ENST00000262970,;ANKRD24,missense_variant,p.Arg198Gly,ENST00000600132,;ANKRD24,missense_variant,p.Arg169Gly,ENST00000597689,;ANKRD24,missense_variant,p.Arg198Gly,ENST00000318934,;RN7SL84P,upstream_gene_variant,,ENST00000578969,;ANKRD24,upstream_gene_variant,,ENST00000595096,;ANKRD24,3_prime_UTR_variant,,ENST00000595928,;	G	ENSG00000089847	ENST00000600132	Transcript	missense_variant	868	592	198	R/G	Cgt/Ggt	rs371527951,COSM3938127,COSM3938126,COSM3938125	.	.	1	ANKRD24	HGNC	29424	protein_coding	YES	CCDS45925.1	ENSP00000471252	ANR24_HUMAN	.	UPI000041F5A9	.	deleterious(0.02)	probably_damaging(0.913)	9/22	.	PROSITE_profiles:PS50297,PROSITE_profiles:PS50088,hmmpanther:PTHR24137,hmmpanther:PTHR24137:SF8,Gene3D:1.25.40.20,Pfam_domain:PF12796,SMART_domains:SM00248,Superfamily_domains:SSF48403	.	.	.	.	.	.	.	.	.	.	0,1,1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGTGCCGTCTC	byCluster	4	BLCA
MEGF8	0	.	GRCh37	19	42874353	42874353	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6646G>A	p.Glu2216Lys	p.E2216K	ENST00000334370	38/41	45	38	6	61	61	0	MEGF8,missense_variant,p.Glu36Lys,ENST00000593647,;MEGF8,missense_variant,p.Glu2216Lys,ENST00000334370,;MEGF8,missense_variant,p.Glu2283Lys,ENST00000251268,;MEGF8,5_prime_UTR_variant,,ENST00000378073,;MEGF8,intron_variant,,ENST00000598762,;MEGF8,upstream_gene_variant,,ENST00000599787,;	A	ENSG00000105429	ENST00000334370	Transcript	missense_variant	7281	6646	2216	E/K	Gag/Aag	.	.	.	1	MEGF8	HGNC	3233	protein_coding	YES	CCDS12604.2	ENSP00000334219	MEGF8_HUMAN	.	UPI00003CF1A7	.	deleterious(0.01)	probably_damaging(0.954)	38/41	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574:SF241,hmmpanther:PTHR10574,PROSITE_patterns:PS01248,Gene3D:2.10.25.10,SMART_domains:SM00181,SMART_domains:SM00180	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTGTGAGCAG	.	4	BLCA
KLK13	0	.	GRCh37	19	51561871	51561871	+	Missense_Mutation	SNP	C	C	T	rs142773664	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569G>A	p.Arg190His	p.R190H	ENST00000595793	4/5	119	93	26	168	168	0	KLK13,missense_variant,p.Arg38His,ENST00000335422,;KLK13,missense_variant,p.Arg117His,ENST00000595547,;KLK13,missense_variant,p.Arg190His,ENST00000595793,;KLK13,downstream_gene_variant,,ENST00000596955,;KLK13,3_prime_UTR_variant,,ENST00000156476,;KLK13,3_prime_UTR_variant,,ENST00000602090,;KLK13,3_prime_UTR_variant,,ENST00000376799,;KLK13,3_prime_UTR_variant,,ENST00000441527,;KLK13,3_prime_UTR_variant,,ENST00000601975,;	T	ENSG00000167759	ENST00000595793	Transcript	missense_variant	612	569	190	R/H	cGt/cAt	rs142773664,COSM245324	.	.	-1	KLK13	HGNC	6361	protein_coding	YES	CCDS12822.1	ENSP00000470555	KLK13_HUMAN	Q5BQ99_HUMAN	UPI000004CA07	.	tolerated(0.28)	benign(0.01)	4/5	.	Superfamily_domains:SSF50494,SMART_domains:SM00020,Gene3D:2.40.10.10,Pfam_domain:PF00089,hmmpanther:PTHR24271:SF3,hmmpanther:PTHR24271,PROSITE_profiles:PS50240	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	T:0.0002	T:0	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTGACGACAC	byCluster|by1000G	5	BLCA
BRSK1	0	.	GRCh37	19	55798410	55798410	+	Nonsense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.172C>T	p.Gln58Ter	p.Q58*	ENST00000309383	2/19	61	49	11	52	52	0	BRSK1,stop_gained,p.Gln58Ter,ENST00000585418,;BRSK1,stop_gained,p.Gln58Ter,ENST00000309383,;BRSK1,stop_gained,p.Gln74Ter,ENST00000590333,;BRSK1,stop_gained,p.Gln15Ter,ENST00000592539,;	T	ENSG00000160469	ENST00000309383	Transcript	stop_gained	449	172	58	Q/*	Cag/Tag	.	.	.	1	BRSK1	HGNC	18994	protein_coding	YES	CCDS12921.1	ENSP00000310649	BRSK1_HUMAN	K7EM68_HUMAN,J3KNK0_HUMAN	UPI0000070495	.	.	.	2/19	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24343,hmmpanther:PTHR24343:SF130,PROSITE_patterns:PS00107,Gene3D:3.30.200.20,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGGGTCAGAAG	.	5	BLCA
NLRP13	0	.	GRCh37	19	56423179	56423179	+	Silent	SNP	G	G	A	rs140606375	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2004C>T	p.%3D	p.D668D	ENST00000342929	5/11	77	73	4	114	114	0	NLRP13,synonymous_variant,p.%3D,ENST00000588751,;NLRP13,synonymous_variant,p.%3D,ENST00000342929,;	A	ENSG00000173572	ENST00000342929	Transcript	synonymous_variant	2004	2004	668	D	gaC/gaT	rs140606375,COSM3404661	.	.	-1	NLRP13	HGNC	22937	protein_coding	YES	CCDS33119.1	ENSP00000343891	NAL13_HUMAN	.	UPI00001AEEC8	.	.	.	5/11	.	hmmpanther:PTHR24106,hmmpanther:PTHR24106:SF10,Gene3D:3.80.10.10,Superfamily_domains:SSF52047	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0.0011	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E669K|c.2005G>A|4	MUTECT|MUSE	TCTTCGTCCTC	byCluster|by1000G	2	BLCA
CDC14A	0	.	GRCh37	1	100964766	100964766	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1703C>T	p.Ser568Phe	p.S568F	ENST00000361544	15/15	41	32	9	45	45	0	CDC14A,missense_variant,p.Ser568Phe,ENST00000336454,;CDC14A,missense_variant,p.Ser568Phe,ENST00000361544,;CDC14A,missense_variant,p.Ser510Phe,ENST00000542213,;CDC14A,missense_variant,p.Ser568Phe,ENST00000544534,;CDC14A,3_prime_UTR_variant,,ENST00000370125,;	T	ENSG00000079335	ENST00000361544	Transcript	missense_variant	2167	1703	568	S/F	tCc/tTc	.	.	.	1	CDC14A	HGNC	1718	protein_coding	YES	CCDS770.1	ENSP00000354916	CC14A_HUMAN	F5H7B3_HUMAN	UPI000006EC22	.	deleterious_low_confidence(0.04)	benign(0.22)	15/15	.	hmmpanther:PTHR23339:SF62,hmmpanther:PTHR23339	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACCCTCCTACA	.	5	BLCA
UBIAD1	0	.	GRCh37	1	11346203	11346203	+	3'UTR	SNP	C	C	T	rs551331322	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*15C>T	.	.	ENST00000376810	2/2	50	44	5	70	70	0	UBIAD1,3_prime_UTR_variant,,ENST00000376810,;UBIAD1,intron_variant,,ENST00000376804,;UBIAD1,intron_variant,,ENST00000483738,;UBIAD1,intron_variant,,ENST00000486588,;	T	ENSG00000120942	ENST00000376810	Transcript	3_prime_UTR_variant	1358	.	.	.	.	rs551331322	.	.	1	UBIAD1	HGNC	30791	protein_coding	YES	CCDS129.1	ENSP00000366006	UBIA1_HUMAN	.	UPI0000073E35	.	.	.	2/2	.	.	T:0.0002	T:0	T:0	.	T:0.001	T:0	T:0	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TAGCTCCCCCC	by1000G	4	BLCA
FCGR1A	0	.	GRCh37	1	149763001	149763001	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1053G>A	p.%3D	p.L351L	ENST00000369168	6/6	41	34	7	50	50	0	FCGR1A,synonymous_variant,p.%3D,ENST00000369168,;HIST2H2BF,intron_variant,,ENST00000545683,;FCGR1A,downstream_gene_variant,,ENST00000444948,;HIST2H2BF,downstream_gene_variant,,ENST00000427880,;RP11-196G18.3,intron_variant,,ENST00000428289,;RP11-196G18.21,intron_variant,,ENST00000420462,;FCGR1A,non_coding_transcript_exon_variant,,ENST00000489704,;	A	ENSG00000150337	ENST00000369168	Transcript	synonymous_variant	1107	1053	351	L	ctG/ctA	.	.	.	1	FCGR1A	HGNC	3613	protein_coding	YES	CCDS933.1	ENSP00000358165	FCGR1_HUMAN	.	UPI000004A8BE	.	.	.	6/6	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|VARSCANS	GAGCTGAAATG	.	3	BLCA
TCHH	0	.	GRCh37	1	152084924	152084924	+	Missense_Mutation	SNP	C	C	T	rs746306176	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.769G>A	p.Glu257Lys	p.E257K	ENST00000368804	2/2	175	148	27	129	129	0	TCHH,missense_variant,p.Glu257Lys,ENST00000368804,;	T	ENSG00000159450	ENST00000368804	Transcript	missense_variant	769	769	257	E/K	Gaa/Aaa	rs746306176	.	.	-1	TCHH	HGNC	11791	protein_coding	YES	CCDS41396.1	ENSP00000357794	TRHY_HUMAN	Q5D861_HUMAN,A2RRS3_HUMAN	UPI0000458A5E	.	.	unknown(0)	2/2	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CTCTTCTTCCT	.	4	BLCA
FLG	0	.	GRCh37	1	152281252	152281252	+	Missense_Mutation	SNP	C	C	T	rs776386323	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6110G>A	p.Arg2037Gln	p.R2037Q	ENST00000368799	3/3	534	475	59	479	479	0	FLG,missense_variant,p.Arg2037Gln,ENST00000368799,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;FLG-AS1,upstream_gene_variant,,ENST00000392688,;	T	ENSG00000143631	ENST00000368799	Transcript	missense_variant	6146	6110	2037	R/Q	cGa/cAa	rs776386323,COSM414054	.	.	-1	FLG	HGNC	3748	protein_coding	YES	CCDS30860.1	ENSP00000357789	FILA_HUMAN	Q4JFL9_HUMAN,I0B0K8_HUMAN,I0B0K6_HUMAN,I0B0K5_HUMAN,I0B0K3_HUMAN	UPI0000470CB3	.	.	possibly_damaging(0.553)	3/3	.	Pfam_domain:PF03516	.	.	.	.	.	.	.	.	.	.	0,1	.	.	.	.	.	MODERATE	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCGGTGT	byFrequency	4	BLCA
FDPS	0	.	GRCh37	1	155288465	155288465	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.694C>G	p.Gln232Glu	p.Q232E	ENST00000356657	7/11	37	31	6	56	56	0	FDPS,missense_variant,p.Gln232Glu,ENST00000356657,;FDPS,missense_variant,p.Gln166Glu,ENST00000447866,;FDPS,missense_variant,p.Gln232Glu,ENST00000368356,;RUSC1,upstream_gene_variant,,ENST00000368354,;RUSC1,upstream_gene_variant,,ENST00000368352,;RUSC1-AS1,intron_variant,,ENST00000443642,;RUSC1-AS1,intron_variant,,ENST00000543656,;RUSC1-AS1,intron_variant,,ENST00000446880,;RUSC1-AS1,downstream_gene_variant,,ENST00000450199,;FDPS,non_coding_transcript_exon_variant,,ENST00000470171,;FDPS,non_coding_transcript_exon_variant,,ENST00000467076,;FDPS,non_coding_transcript_exon_variant,,ENST00000489003,;FDPS,non_coding_transcript_exon_variant,,ENST00000468479,;FDPS,non_coding_transcript_exon_variant,,ENST00000492244,;FDPS,non_coding_transcript_exon_variant,,ENST00000477057,;FDPS,non_coding_transcript_exon_variant,,ENST00000491013,;FDPS,non_coding_transcript_exon_variant,,ENST00000492887,;RUSC1,upstream_gene_variant,,ENST00000497930,;FDPS,upstream_gene_variant,,ENST00000489324,;FDPS,upstream_gene_variant,,ENST00000490140,;RUSC1,upstream_gene_variant,,ENST00000467820,;FDPS,downstream_gene_variant,,ENST00000495308,;FDPS,downstream_gene_variant,,ENST00000474345,;FDPS,downstream_gene_variant,,ENST00000461507,;FDPS,downstream_gene_variant,,ENST00000465559,;FDPS,downstream_gene_variant,,ENST00000471117,;RUSC1,upstream_gene_variant,,ENST00000484664,;	G	ENSG00000160752	ENST00000356657	Transcript	missense_variant	856	694	232	Q/E	Cag/Gag	.	.	.	1	FDPS	HGNC	3631	protein_coding	YES	CCDS1110.1	ENSP00000349078	FPPS_HUMAN	.	UPI000006E4F7	.	deleterious(0.02)	benign(0.18)	7/11	.	hmmpanther:PTHR11525:SF0,hmmpanther:PTHR11525,Pfam_domain:PF00348,Gene3D:1.10.600.10,Superfamily_domains:SSF48576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CCTATCAGACT	.	5	BLCA
GPATCH4	0	.	GRCh37	1	156564866	156564866	+	3'Flank	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	ENST00000438976	.	14	11	3	21	21	0	GPATCH4,3_prime_UTR_variant,,ENST00000368232,;APOA1BP,downstream_gene_variant,,ENST00000368235,;GPATCH4,downstream_gene_variant,,ENST00000438976,;APOA1BP,downstream_gene_variant,,ENST00000368234,;APOA1BP,downstream_gene_variant,,ENST00000368233,;GPATCH4,downstream_gene_variant,,ENST00000415314,;GPATCH4,downstream_gene_variant,,ENST00000334588,;APOA1BP,downstream_gene_variant,,ENST00000467374,;GPATCH4,downstream_gene_variant,,ENST00000497287,;APOA1BP,downstream_gene_variant,,ENST00000488840,;GPATCH4,downstream_gene_variant,,ENST00000531129,;GPATCH4,downstream_gene_variant,,ENST00000525375,;GPATCH4,downstream_gene_variant,,ENST00000506832,;GPATCH4,downstream_gene_variant,,ENST00000498756,;GPATCH4,downstream_gene_variant,,ENST00000498641,;GPATCH4,downstream_gene_variant,,ENST00000529520,;GPATCH4,downstream_gene_variant,,ENST00000527691,;GPATCH4,downstream_gene_variant,,ENST00000494414,;GPATCH4,downstream_gene_variant,,ENST00000473910,;GPATCH4,downstream_gene_variant,,ENST00000531900,;GPATCH4,downstream_gene_variant,,ENST00000474904,;GPATCH4,downstream_gene_variant,,ENST00000463513,;	G	ENSG00000160818	ENST00000438976	Transcript	downstream_gene_variant	.	.	.	.	.	.	.	139	-1	GPATCH4	HGNC	25982	protein_coding	YES	CCDS44245.1	ENSP00000396441	.	E9PAV9_HUMAN	UPI00001B55A9	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCCTCTTACC	.	2	BLCA
ATP2B4	0	.	GRCh37	1	203698787	203698787	+	Intron	SNP	G	G	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3309+2088G>T	.	.	ENST00000357681	.	22	18	4	26	26	0	ATP2B4,intron_variant,,ENST00000341360,;ATP2B4,intron_variant,,ENST00000356729,;ATP2B4,intron_variant,,ENST00000391954,;ATP2B4,intron_variant,,ENST00000367219,;ATP2B4,intron_variant,,ENST00000367218,;ATP2B4,intron_variant,,ENST00000357681,;ATP2B4,downstream_gene_variant,,ENST00000458092,;SNORA77,non_coding_transcript_exon_variant,,ENST00000408716,;ATP2B4,downstream_gene_variant,,ENST00000466407,;ATP2B4,intron_variant,,ENST00000484746,;	T	ENSG00000058668	ENST00000357681	Transcript	intron_variant	.	.	.	.	.	.	.	.	1	ATP2B4	HGNC	817	protein_coding	YES	CCDS1440.1	ENSP00000350310	AT2B4_HUMAN	A1X4Q2_HUMAN	UPI000002A464	.	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GCTGTGGCTGC	.	2	BLCA
LBR	0	.	GRCh37	1	225598004	225598004	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1303C>T	p.Leu435Phe	p.L435F	ENST00000338179	10/14	89	68	20	96	96	0	LBR,missense_variant,p.Leu435Phe,ENST00000338179,;LBR,missense_variant,p.Leu66Phe,ENST00000424022,;LBR,missense_variant,p.Leu435Phe,ENST00000272163,;AC092811.1,upstream_gene_variant,,ENST00000366845,;	A	ENSG00000143815	ENST00000338179	Transcript	missense_variant	1429	1303	435	L/F	Ctc/Ttc	.	.	.	-1	LBR	HGNC	6518	protein_coding	YES	CCDS1545.1	ENSP00000339883	LBR_HUMAN	C9JXK0_HUMAN,C9JES9_HUMAN	UPI000012E256	.	tolerated(0.08)	probably_damaging(1)	10/14	.	Pfam_domain:PF01222,hmmpanther:PTHR21257,hmmpanther:PTHR21257:SF32,Transmembrane_helices:TMhelix	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGAGAGCAT	.	5	BLCA
ZBTB40	0	.	GRCh37	1	22817119	22817119	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.678G>C	p.Lys226Asn	p.K226N	ENST00000404138	3/19	56	52	4	58	58	0	ZBTB40,missense_variant,p.Lys226Asn,ENST00000404138,;ZBTB40,missense_variant,p.Lys226Asn,ENST00000375647,;ZBTB40,missense_variant,p.Lys226Asn,ENST00000374651,;ZBTB40,missense_variant,p.Lys226Asn,ENST00000400239,;	C	ENSG00000184677	ENST00000404138	Transcript	missense_variant	1189	678	226	K/N	aaG/aaC	.	.	.	1	ZBTB40	HGNC	29045	protein_coding	YES	CCDS224.1	ENSP00000384527	ZBT40_HUMAN	B1AKC8_HUMAN	UPI0000204652	.	tolerated(0.09)	benign(0.064)	3/19	.	hmmpanther:PTHR24394:SF0,hmmpanther:PTHR24394	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAAAGAAGAC	.	2	BLCA
TSNAX	0	.	GRCh37	1	231678318	231678318	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.328G>T	p.Gly110Trp	p.G110W	ENST00000366639	4/6	81	76	5	106	106	0	TSNAX,missense_variant,p.Gly110Trp,ENST00000366639,;TSNAX,missense_variant,p.Gly117Trp,ENST00000413309,;TSNAX,non_coding_transcript_exon_variant,,ENST00000602825,;TSNAX-DISC1,missense_variant,p.Gly110Trp,ENST00000602634,;TSNAX-DISC1,missense_variant,p.Gly110Trp,ENST00000602962,;TSNAX-DISC1,missense_variant,p.Gly110Trp,ENST00000602956,;TSNAX-DISC1,missense_variant,p.Gly110Trp,ENST00000602567,;TSNAX,non_coding_transcript_exon_variant,,ENST00000476913,;TSNAX,non_coding_transcript_exon_variant,,ENST00000475168,;TSNAX-DISC1,intron_variant,,ENST00000602885,;	T	ENSG00000116918	ENST00000366639	Transcript	missense_variant	486	328	110	G/W	Ggg/Tgg	.	.	.	1	TSNAX	HGNC	12380	protein_coding	YES	CCDS1596.1	ENSP00000355599	TSNAX_HUMAN	Q9NRI2_HUMAN	UPI0000137768	.	deleterious(0)	probably_damaging(0.97)	4/6	.	Superfamily_domains:0047790,Gene3D:1j1jA01,Pfam_domain:PF01997,hmmpanther:PTHR10741,hmmpanther:PTHR10741:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TATCAGGGGAA	.	2	BLCA
DISC1	0	.	GRCh37	1	232144702	232144702	+	Silent	SNP	C	C	T	rs565912178	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2214C>T	p.%3D	p.S738S	ENST00000439617	11/13	24	19	5	23	23	0	DISC1,synonymous_variant,p.%3D,ENST00000439617,;DISC1,synonymous_variant,p.%3D,ENST00000366637,;DISC1,3_prime_UTR_variant,,ENST00000535983,;DISC1,3_prime_UTR_variant,,ENST00000537876,;DISC1,non_coding_transcript_exon_variant,,ENST00000427560,;DISC1,3_prime_UTR_variant,,ENST00000422590,;	T	ENSG00000162946	ENST00000439617	Transcript	synonymous_variant	2267	2214	738	S	tcC/tcT	rs565912178	.	.	1	DISC1	HGNC	2888	protein_coding	.	.	ENSP00000403888	.	C4P0C8_HUMAN,B1AM64_HUMAN	UPI0000458AE0	.	.	.	11/13	.	hmmpanther:PTHR14332,hmmpanther:PTHR14332:SF2	T:0.0002	T:0.0008	T:0	.	T:0	T:0	T:0	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACTCCGAGGA	by1000G	5	BLCA
SLC35F3	0	.	GRCh37	1	234455893	234455893	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1197G>C	p.%3D	p.L399L	ENST00000366618	7/8	89	77	11	98	98	0	SLC35F3,synonymous_variant,p.%3D,ENST00000366617,;SLC35F3,synonymous_variant,p.%3D,ENST00000366618,;	C	ENSG00000183780	ENST00000366618	Transcript	synonymous_variant	1342	1197	399	L	ctG/ctC	.	.	.	1	SLC35F3	HGNC	23616	protein_coding	YES	CCDS1600.1	ENSP00000355577	S35F3_HUMAN	.	UPI000006DD13	.	.	.	7/8	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR19346,hmmpanther:PTHR19346:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACTCTGATGTC	.	4	BLCA
RYR2	0	.	GRCh37	1	237875071	237875071	+	Silent	SNP	C	C	T	rs748715725	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.10257C>T	p.%3D	p.F3419F	ENST00000366574	71/105	20	16	3	30	30	0	RYR2,synonymous_variant,p.%3D,ENST00000542537,;RYR2,synonymous_variant,p.%3D,ENST00000366574,;RYR2,synonymous_variant,p.%3D,ENST00000360064,;RYR2,non_coding_transcript_exon_variant,,ENST00000609119,;	T	ENSG00000198626	ENST00000366574	Transcript	synonymous_variant	10574	10257	3419	F	ttC/ttT	rs748715725,COSM906246,COSM3485823	.	.	1	RYR2	HGNC	10484	protein_coding	YES	CCDS55691.1	ENSP00000355533	RYR2_HUMAN	H0YGL9_HUMAN,D7UNU4_HUMAN,D7UNU3_HUMAN,D7UNU2_HUMAN	UPI0000DD0308	.	.	.	71/105	.	hmmpanther:PTHR13715:SF75,hmmpanther:PTHR13715	.	.	.	.	.	.	.	.	.	.	0,1,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.F3419F|c.10257C>T|3	MUTECT|MUSE|VARSCANS	AACTTCGTTGT	byFrequency	3	BLCA
CEP170	0	.	GRCh37	1	243349594	243349594	+	Silent	SNP	G	G	C	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1239C>G	p.%3D	p.V413V	ENST00000366542	9/20	179	170	9	191	191	0	CEP170,synonymous_variant,p.%3D,ENST00000522895,;CEP170,synonymous_variant,p.%3D,ENST00000336415,;CEP170,synonymous_variant,p.%3D,ENST00000366544,;CEP170,synonymous_variant,p.%3D,ENST00000366542,;CEP170,synonymous_variant,p.%3D,ENST00000366543,;CEP170,non_coding_transcript_exon_variant,,ENST00000521911,;CEP170,upstream_gene_variant,,ENST00000461671,;	C	ENSG00000143702	ENST00000366542	Transcript	synonymous_variant	1291	1239	413	V	gtC/gtG	COSM906584	.	.	-1	CEP170	HGNC	28920	protein_coding	YES	CCDS44339.1	ENSP00000355500	CE170_HUMAN	Q9NSN9_HUMAN,E5RJT5_HUMAN,E5RIH6_HUMAN,E5RFU8_HUMAN	UPI0000470238	.	.	.	9/20	.	hmmpanther:PTHR15715,hmmpanther:PTHR15715:SF17	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCTGGACCTT	.	2	BLCA
OR2L3	0	.	GRCh37	1	248224042	248224042	+	Nonsense_Mutation	SNP	C	C	G	rs755827785	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.59C>G	p.Ser20Ter	p.S20*	ENST00000359959	1/1	182	167	14	212	212	0	OR2L3,stop_gained,p.Ser20Ter,ENST00000359959,;OR2L13,intron_variant,,ENST00000366478,;	G	ENSG00000198128	ENST00000359959	Transcript	stop_gained	59	59	20	S/*	tCa/tGa	rs755827785	.	.	1	OR2L3	HGNC	15009	protein_coding	YES	CCDS31104.1	ENSP00000353044	OR2L3_HUMAN	.	UPI0000061EB8	.	.	.	1/1	.	Superfamily_domains:SSF81321,Gene3D:1.20.1070.10,hmmpanther:PTHR26453:SF104,hmmpanther:PTHR26453	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	ACCATCAAGAA	byFrequency	3	BLCA
CEP104	0	.	GRCh37	1	3753101	3753101	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1275G>A	p.%3D	p.L425L	ENST00000378230	10/22	83	74	9	75	75	0	CEP104,synonymous_variant,p.%3D,ENST00000443466,;CEP104,synonymous_variant,p.%3D,ENST00000378230,;CEP104,downstream_gene_variant,,ENST00000428079,;CEP104,intron_variant,,ENST00000460038,;CEP104,non_coding_transcript_exon_variant,,ENST00000494653,;CEP104,downstream_gene_variant,,ENST00000494951,;	T	ENSG00000116198	ENST00000378230	Transcript	synonymous_variant	1600	1275	425	L	ttG/ttA	.	.	.	-1	CEP104	HGNC	24866	protein_coding	YES	CCDS30571.1	ENSP00000367476	CE104_HUMAN	.	UPI0000139AA8	.	.	.	10/22	.	hmmpanther:PTHR13371:SF0,hmmpanther:PTHR13371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCTCAAGGC	.	4	BLCA
KIF2C	0	.	GRCh37	1	45228214	45228214	+	Intron	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1858-3C>G	.	.	ENST00000372224	.	60	49	10	59	58	0	KIF2C,splice_region_variant,,ENST00000372222,;KIF2C,splice_region_variant,,ENST00000372217,;KIF2C,splice_region_variant,,ENST00000372218,;KIF2C,splice_region_variant,,ENST00000372224,;KIF2C,splice_region_variant,,ENST00000423289,;KIF2C,downstream_gene_variant,,ENST00000452259,;RP11-269F19.2,intron_variant,,ENST00000428791,;RP11-269F19.2,upstream_gene_variant,,ENST00000440985,;KIF2C,splice_region_variant,,ENST00000472235,;KIF2C,downstream_gene_variant,,ENST00000493027,;	G	ENSG00000142945	ENST00000372224	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	KIF2C	HGNC	6393	protein_coding	YES	CCDS512.1	ENSP00000361298	KIF2C_HUMAN	Q8N5N1_HUMAN,B7Z7M6_HUMAN	UPI000012DDAD	.	.	.	.	18/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTCAGTTA	.	4	BLCA
DOCK7	0	.	GRCh37	1	62971480	62971480	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4391C>G	p.Ser1464Cys	p.S1464C	ENST00000340370	35/49	44	41	3	47	47	0	DOCK7,missense_variant,p.Ser1486Cys,ENST00000251157,;DOCK7,missense_variant,p.Ser1464Cys,ENST00000340370,;DOCK7,missense_variant,p.Ser658Cys,ENST00000454575,;	C	ENSG00000116641	ENST00000340370	Transcript	missense_variant	4409	4391	1464	S/C	tCt/tGt	.	.	.	-1	DOCK7	HGNC	19190	protein_coding	YES	CCDS30734.1	ENSP00000340742	DOCK7_HUMAN	.	UPI000044FEA9	.	tolerated(0.21)	possibly_damaging(0.879)	35/49	.	hmmpanther:PTHR23317:SF78,hmmpanther:PTHR23317	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTACAGAAACG	.	2	BLCA
FPGT-TNNI3K	0	.	GRCh37	1	74808781	74808781	+	Missense_Mutation	SNP	G	G	A	rs746026873	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1192G>A	p.Glu398Lys	p.E398K	ENST00000557284	11/27	43	39	4	47	47	0	FPGT-TNNI3K,missense_variant,p.Glu385Lys,ENST00000370895,;TNNI3K,missense_variant,p.Glu284Lys,ENST00000326637,;FPGT-TNNI3K,missense_variant,p.Glu385Lys,ENST00000370899,;TNNI3K,missense_variant,p.Glu385Lys,ENST00000370891,;FPGT-TNNI3K,missense_variant,p.Glu398Lys,ENST00000557284,;FPGT-TNNI3K,intron_variant,,ENST00000534632,;RP11-439H8.4,intron_variant,,ENST00000415549,;TNNI3K,non_coding_transcript_exon_variant,,ENST00000530184,;	A	ENSG00000259030	ENST00000557284	Transcript	missense_variant	1197	1192	398	E/K	Gaa/Aaa	rs746026873	.	.	1	FPGT-TNNI3K	HGNC	42952	protein_coding	YES	CCDS44161.2	ENSP00000450895	.	A6NHC7_HUMAN	UPI0001EECC26	.	tolerated(0.05)	benign(0.011)	11/27	.	Prints_domain:PR01415,Superfamily_domains:SSF48403,SMART_domains:SM00248,Gene3D:1.25.40.20,Pfam_domain:PF13606,hmmpanther:PTHR23257:SF63,hmmpanther:PTHR23257,PROSITE_profiles:PS50088,PROSITE_profiles:PS50297	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AATTTGAAGTT	.	3	BLCA
SLC45A1	0	.	GRCh37	1	8395549	8395549	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1496C>T	p.Ser499Phe	p.S499F	ENST00000471889	6/9	54	37	16	48	48	0	SLC45A1,missense_variant,p.Ser499Phe,ENST00000289877,;SLC45A1,missense_variant,p.Ser533Phe,ENST00000377479,;SLC45A1,missense_variant,p.Ser499Phe,ENST00000471889,;SLC45A1,non_coding_transcript_exon_variant,,ENST00000481265,;SLC45A1,non_coding_transcript_exon_variant,,ENST00000497660,;	T	ENSG00000162426	ENST00000471889	Transcript	missense_variant	1881	1496	499	S/F	tCc/tTc	.	.	.	1	SLC45A1	HGNC	17939	protein_coding	YES	CCDS30577.1	ENSP00000418096	S45A1_HUMAN	.	UPI000040EA42	.	deleterious(0.01)	benign(0.396)	6/9	.	hmmpanther:PTHR19432,hmmpanther:PTHR19432:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	GGGCTCCAGCG	.	5	BLCA
PLEKHN1	0	.	GRCh37	1	909241	909241	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1463G>A	p.Gly488Glu	p.G488E	ENST00000379410	14/16	46	23	23	43	43	0	PLEKHN1,missense_variant,p.Gly53Glu,ENST00000491024,;PLEKHN1,missense_variant,p.Gly540Glu,ENST00000379409,;PLEKHN1,missense_variant,p.Gly453Glu,ENST00000379407,;PLEKHN1,missense_variant,p.Gly488Glu,ENST00000379410,;C1orf170,downstream_gene_variant,,ENST00000341290,;C1orf170,downstream_gene_variant,,ENST00000433179,;PLEKHN1,downstream_gene_variant,,ENST00000480267,;C1orf170,downstream_gene_variant,,ENST00000479361,;	A	ENSG00000187583	ENST00000379410	Transcript	missense_variant	1498	1463	488	G/E	gGa/gAa	.	.	.	1	PLEKHN1	HGNC	25284	protein_coding	YES	CCDS4.1	ENSP00000368720	PKHN1_HUMAN	J3KSM5_HUMAN	UPI00001416D8	.	deleterious(0)	probably_damaging(0.934)	14/16	.	hmmpanther:PTHR22826:SF96,hmmpanther:PTHR22826	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACGTGGACCCA	.	5	BLCA
CCDC18	0	.	GRCh37	1	93649584	93649584	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.345G>C	p.Glu116Gln	p.E116Q	ENST00000370276	3/29	84	80	4	131	131	0	CCDC18,missense_variant,p.Glu180Gln,ENST00000557479,;CCDC18,missense_variant,p.Glu62Gln,ENST00000401026,;CCDC18,missense_variant,p.Glu62Gln,ENST00000343253,;CCDC18,missense_variant,p.Glu116Gln,ENST00000370276,;CCDC18,missense_variant,p.Glu109Gln,ENST00000448243,;CCDC18,5_prime_UTR_variant,,ENST00000334652,;CCDC18,5_prime_UTR_variant,,ENST00000338949,;TMED5,upstream_gene_variant,,ENST00000370280,;TMED5,upstream_gene_variant,,ENST00000479918,;TMED5,upstream_gene_variant,,ENST00000370282,;CCDC18,intron_variant,,ENST00000528942,;CCDC18,missense_variant,p.Glu101Gln,ENST00000481180,;CCDC18,intron_variant,,ENST00000479653,;TMED5,upstream_gene_variant,,ENST00000370290,;	C	ENSG00000122483	ENST00000370276	Transcript	missense_variant	345	346	116	E/Q	Gaa/Caa	.	.	.	1	CCDC18	HGNC	30370	protein_coding	YES	.	ENSP00000359299	.	.	UPI0001F78148	.	tolerated(0.21)	probably_damaging(0.953)	3/29	.	hmmpanther:PTHR18875:SF4,hmmpanther:PTHR18875	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGTCTGAAAAG	.	2	BLCA
RRBP1	0	.	GRCh37	20	17606166	17606166	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1746G>A	p.%3D	p.V582V	ENST00000377807	13/26	68	64	4	51	51	0	RRBP1,synonymous_variant,p.%3D,ENST00000246043,;RRBP1,synonymous_variant,p.%3D,ENST00000360807,;RRBP1,synonymous_variant,p.%3D,ENST00000377813,;RRBP1,synonymous_variant,p.%3D,ENST00000455029,;RRBP1,synonymous_variant,p.%3D,ENST00000377807,;RRBP1,upstream_gene_variant,,ENST00000470422,;RRBP1,downstream_gene_variant,,ENST00000495501,;	T	ENSG00000125844	ENST00000377807	Transcript	synonymous_variant	2100	1746	582	V	gtG/gtA	.	.	.	-1	RRBP1	HGNC	10448	protein_coding	YES	CCDS13128.1	ENSP00000367038	RRBP1_HUMAN	F8W7S5_HUMAN	UPI000002B2C0	.	.	.	13/26	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18939:SF4,hmmpanther:PTHR18939	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTCTTCACTTT	.	2	BLCA
RBM12	0	.	GRCh37	20	34242192	34242192	+	Silent	SNP	G	G	C	rs760417413	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1053C>G	p.%3D	p.L351L	ENST00000374114	3/3	112	101	11	125	124	0	RBM12,synonymous_variant,p.%3D,ENST00000374114,;RBM12,synonymous_variant,p.%3D,ENST00000359646,;RBM12,synonymous_variant,p.%3D,ENST00000374104,;CPNE1,intron_variant,,ENST00000352393,;CPNE1,intron_variant,,ENST00000414711,;CPNE1,intron_variant,,ENST00000458038,;CPNE1,intron_variant,,ENST00000397443,;CPNE1,intron_variant,,ENST00000434795,;CPNE1,intron_variant,,ENST00000397442,;CPNE1,intron_variant,,ENST00000440240,;CPNE1,intron_variant,,ENST00000412056,;CPNE1,intron_variant,,ENST00000317619,;CPNE1,intron_variant,,ENST00000430570,;CPNE1,intron_variant,,ENST00000416778,;CPNE1,intron_variant,,ENST00000435747,;CPNE1,intron_variant,,ENST00000420363,;CPNE1,intron_variant,,ENST00000439806,;CPNE1,intron_variant,,ENST00000437340,;CPNE1,intron_variant,,ENST00000397445,;CPNE1,intron_variant,,ENST00000414664,;CPNE1,intron_variant,,ENST00000397446,;CPNE1,intron_variant,,ENST00000437100,;RBM12,downstream_gene_variant,,ENST00000435161,;RBM12,downstream_gene_variant,,ENST00000424458,;CPNE1,upstream_gene_variant,,ENST00000317677,;RBM12,downstream_gene_variant,,ENST00000431148,;CPNE1,downstream_gene_variant,,ENST00000475146,;CPNE1,intron_variant,,ENST00000401607,;RP1-309K20.6,intron_variant,,ENST00000541176,;RP1-309K20.6,intron_variant,,ENST00000454607,;CPNE1,intron_variant,,ENST00000439669,;CPNE1,intron_variant,,ENST00000483359,;RP1-309K20.6,intron_variant,,ENST00000441563,;	C	ENSG00000244462	ENST00000374114	Transcript	synonymous_variant	1317	1053	351	L	ctC/ctG	rs760417413	.	.	-1	RBM12	HGNC	9898	protein_coding	YES	CCDS13261.1	ENSP00000363228	RBM12_HUMAN	Q69YJ7_HUMAN,Q5JX62_HUMAN,A6PVI1_HUMAN,A6PVI0_HUMAN	UPI0000073D24	.	.	.	3/3	.	Superfamily_domains:SSF54928,SMART_domains:SM00360,Gene3D:3.30.70.330,Pfam_domain:PF14259,hmmpanther:PTHR13976,hmmpanther:PTHR13976:SF31,PROSITE_profiles:PS50102	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	GGGGAGAGAAA	byFrequency	2	BLCA
MAVS	0	.	GRCh37	20	3838310	3838310	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.146C>T	p.Ser49Leu	p.S49L	ENST00000428216	3/7	67	62	5	68	68	0	MAVS,missense_variant,p.Ser49Leu,ENST00000428216,;MAVS,missense_variant,p.Ser49Leu,ENST00000358134,;MAVS,intron_variant,,ENST00000416600,;	T	ENSG00000088888	ENST00000428216	Transcript	missense_variant	274	146	49	S/L	tCa/tTa	.	.	.	1	MAVS	HGNC	29233	protein_coding	YES	CCDS33437.1	ENSP00000401980	MAVS_HUMAN	M1P2Z0_HUMAN	UPI000015F983	.	tolerated(0.74)	benign(0)	3/7	.	hmmpanther:PTHR21446:SF3,hmmpanther:PTHR21446	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCTCAGGGA	.	2	BLCA
NCOA3	0	.	GRCh37	20	46271059	46271059	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3183C>T	p.%3D	p.L1061L	ENST00000371998	17/23	50	39	11	43	43	0	NCOA3,synonymous_variant,p.%3D,ENST00000371997,;NCOA3,synonymous_variant,p.%3D,ENST00000372004,;NCOA3,synonymous_variant,p.%3D,ENST00000341724,;NCOA3,synonymous_variant,p.%3D,ENST00000371998,;	T	ENSG00000124151	ENST00000371998	Transcript	synonymous_variant	3374	3183	1061	L	ctC/ctT	.	.	.	1	NCOA3	HGNC	7670	protein_coding	YES	CCDS13407.1	ENSP00000361066	NCOA3_HUMAN	Q569F6_HUMAN,B4DYT5_HUMAN	UPI000012FE45	.	.	.	17/23	.	hmmpanther:PTHR10684:SF3,hmmpanther:PTHR10684,Pfam_domain:PF08815,Gene3D:1kbhA00,PIRSF_domain:PIRSF038181,Superfamily_domains:SSF69125	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTTCTCAGCAA	.	5	BLCA
OSBP2	0	.	GRCh37	22	31091071	31091071	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.175G>C	p.Glu59Gln	p.E59Q	ENST00000332585	1/14	21	17	3	17	17	0	OSBP2,missense_variant,p.Glu59Gln,ENST00000332585,;OSBP2,missense_variant,p.Glu59Gln,ENST00000446658,;OSBP2,missense_variant,p.Glu59Gln,ENST00000382310,;OSBP2,intron_variant,,ENST00000438716,;OSBP2,intron_variant,,ENST00000403222,;OSBP2,intron_variant,,ENST00000407373,;	C	ENSG00000184792	ENST00000332585	Transcript	missense_variant	279	175	59	E/Q	Gaa/Caa	.	.	.	1	OSBP2	HGNC	8504	protein_coding	YES	CCDS43002.1	ENSP00000332576	OSBP2_HUMAN	C9JS84_HUMAN,C9J7J0_HUMAN	UPI0000161E15	.	tolerated_low_confidence(0.35)	benign(0.001)	1/14	.	Low_complexity_(Seg):seg	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	TGCCCGAACCG	.	3	BLCA
OSBP2	0	.	GRCh37	22	31091452	31091452	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.556G>A	p.Glu186Lys	p.E186K	ENST00000332585	1/14	80	76	4	74	74	0	OSBP2,missense_variant,p.Glu186Lys,ENST00000332585,;OSBP2,missense_variant,p.Glu186Lys,ENST00000446658,;OSBP2,missense_variant,p.Glu186Lys,ENST00000382310,;OSBP2,intron_variant,,ENST00000438716,;OSBP2,intron_variant,,ENST00000403222,;OSBP2,intron_variant,,ENST00000407373,;	A	ENSG00000184792	ENST00000332585	Transcript	missense_variant	660	556	186	E/K	Gag/Aag	.	.	.	1	OSBP2	HGNC	8504	protein_coding	YES	CCDS43002.1	ENSP00000332576	OSBP2_HUMAN	C9JS84_HUMAN,C9J7J0_HUMAN	UPI0000161E15	.	tolerated(1)	benign(0.002)	1/14	.	PROSITE_profiles:PS50003,hmmpanther:PTHR10972,hmmpanther:PTHR10972:SF51,Gene3D:2.30.29.30,Pfam_domain:PF00169,SMART_domains:SM00233,Superfamily_domains:SSF50729	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTTCGAGGGC	.	2	BLCA
DEPDC5	0	.	GRCh37	22	32217540	32217540	+	Silent	SNP	G	G	A	rs779926819	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1923G>A	p.%3D	p.A641A	ENST00000382112	22/42	67	54	13	140	140	0	DEPDC5,synonymous_variant,p.%3D,ENST00000266091,;DEPDC5,synonymous_variant,p.%3D,ENST00000400248,;DEPDC5,synonymous_variant,p.%3D,ENST00000382112,;DEPDC5,synonymous_variant,p.%3D,ENST00000400246,;DEPDC5,synonymous_variant,p.%3D,ENST00000382111,;DEPDC5,synonymous_variant,p.%3D,ENST00000433147,;DEPDC5,synonymous_variant,p.%3D,ENST00000400249,;DEPDC5,intron_variant,,ENST00000382105,;DEPDC5,intron_variant,,ENST00000535622,;DEPDC5,intron_variant,,ENST00000536766,;DEPDC5,intron_variant,,ENST00000448753,;CTA-440B3.1,upstream_gene_variant,,ENST00000429025,;	A	ENSG00000100150	ENST00000382112	Transcript	synonymous_variant	1993	1923	641	A	gcG/gcA	rs779926819	.	.	1	DEPDC5	HGNC	18423	protein_coding	YES	CCDS46692.1	ENSP00000371546	DEPD5_HUMAN	C9JGS4_HUMAN,B4DGG3_HUMAN	UPI00004708D5	.	.	.	22/42	.	hmmpanther:PTHR13179	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATGGCGGAGCT	.	5	BLCA
CSF2RB	0	.	GRCh37	22	37334018	37334018	+	Nonsense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2168C>G	p.Ser723Ter	p.S723*	ENST00000403662	14/14	91	67	24	76	76	0	CSF2RB,stop_gained,p.Ser670Ter,ENST00000536485,;CSF2RB,stop_gained,p.Ser729Ter,ENST00000406230,;CSF2RB,stop_gained,p.Ser723Ter,ENST00000403662,;CSF2RB,stop_gained,p.Ser729Ter,ENST00000262825,;	G	ENSG00000100368	ENST00000403662	Transcript	stop_gained	2390	2168	723	S/*	tCa/tGa	.	.	.	1	CSF2RB	HGNC	2436	protein_coding	YES	CCDS13936.1	ENSP00000384053	IL3RB_HUMAN	B0QY07_HUMAN	UPI0000128C9F	.	.	.	14/14	.	Low_complexity_(Seg):seg,PIRSF_domain:PIRSF001956,hmmpanther:PTHR23037,hmmpanther:PTHR23037:SF22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTCAGGGG	.	5	BLCA
PICK1	0	.	GRCh37	22	38469021	38469021	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.705G>C	p.%3D	p.L235L	ENST00000404072	10/13	63	59	4	86	86	0	PICK1,synonymous_variant,p.%3D,ENST00000356976,;PICK1,synonymous_variant,p.%3D,ENST00000404072,;PICK1,downstream_gene_variant,,ENST00000437453,;PICK1,downstream_gene_variant,,ENST00000435166,;PICK1,downstream_gene_variant,,ENST00000424694,;RP5-1039K5.13,intron_variant,,ENST00000445483,;PICK1,downstream_gene_variant,,ENST00000468288,;PICK1,non_coding_transcript_exon_variant,,ENST00000484021,;PICK1,downstream_gene_variant,,ENST00000472724,;PICK1,downstream_gene_variant,,ENST00000466374,;PICK1,downstream_gene_variant,,ENST00000432756,;PICK1,downstream_gene_variant,,ENST00000426258,;PICK1,downstream_gene_variant,,ENST00000494434,;	C	ENSG00000100151	ENST00000404072	Transcript	synonymous_variant	1052	705	235	L	ctG/ctC	.	.	.	1	PICK1	HGNC	9394	protein_coding	YES	CCDS13965.1	ENSP00000385205	PICK1_HUMAN	F6VY12_HUMAN,F6V107_HUMAN,F6TII1_HUMAN	UPI0000131A98	.	.	.	10/13	.	PROSITE_profiles:PS50870,hmmpanther:PTHR12141,hmmpanther:PTHR12141:SF2,Pfam_domain:PF06456,Gene3D:1.20.1270.60,SMART_domains:SM01015,Superfamily_domains:SSF103657	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GATCTGAACAC	.	2	BLCA
PARVG	0	.	GRCh37	22	44584995	44584995	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.249G>A	p.%3D	p.Q83Q	ENST00000444313	6/14	54	42	12	73	73	0	PARVG,synonymous_variant,p.%3D,ENST00000444313,;PARVG,synonymous_variant,p.%3D,ENST00000415224,;PARVG,synonymous_variant,p.%3D,ENST00000422871,;PARVG,downstream_gene_variant,,ENST00000466375,;PARVG,downstream_gene_variant,,ENST00000453888,;PARVG,synonymous_variant,p.%3D,ENST00000356909,;PARVG,splice_region_variant,,ENST00000475485,;PARVG,non_coding_transcript_exon_variant,,ENST00000468564,;PARVG,downstream_gene_variant,,ENST00000471836,;	A	ENSG00000138964	ENST00000444313	Transcript	synonymous_variant	733	249	83	Q	caG/caA	.	.	.	1	PARVG	HGNC	14654	protein_coding	YES	CCDS14057.1	ENSP00000391583	PARVG_HUMAN	B0QYM9_HUMAN	UPI000004470F	.	.	.	6/14	.	PROSITE_profiles:PS50021,hmmpanther:PTHR12114,hmmpanther:PTHR12114:SF1,Gene3D:1.10.418.10,Pfam_domain:PF00307,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.A86G|c.257C>G|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGAGAGGCT	.	5	BLCA
PARVG	0	.	GRCh37	22	44585037	44585037	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.291G>C	p.%3D	p.L97L	ENST00000444313	6/14	48	40	7	62	62	0	PARVG,synonymous_variant,p.%3D,ENST00000444313,;PARVG,synonymous_variant,p.%3D,ENST00000415224,;PARVG,synonymous_variant,p.%3D,ENST00000422871,;PARVG,downstream_gene_variant,,ENST00000466375,;PARVG,downstream_gene_variant,,ENST00000453888,;PARVG,synonymous_variant,p.%3D,ENST00000356909,;PARVG,non_coding_transcript_exon_variant,,ENST00000468564,;PARVG,non_coding_transcript_exon_variant,,ENST00000475485,;PARVG,downstream_gene_variant,,ENST00000471836,;	C	ENSG00000138964	ENST00000444313	Transcript	synonymous_variant	775	291	97	L	ctG/ctC	.	.	.	1	PARVG	HGNC	14654	protein_coding	YES	CCDS14057.1	ENSP00000391583	PARVG_HUMAN	B0QYM9_HUMAN	UPI000004470F	.	.	.	6/14	.	PROSITE_profiles:PS50021,hmmpanther:PTHR12114,hmmpanther:PTHR12114:SF1,Gene3D:1.10.418.10,Pfam_domain:PF00307,Superfamily_domains:SSF47576	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GCCCTGACAGC	.	3	BLCA
TBC1D8	0	.	GRCh37	2	101624340	101624340	+	Silent	SNP	G	G	A	rs113291929	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3366C>T	p.%3D	p.L1122L	ENST00000376840	20/20	116	106	10	140	140	0	TBC1D8,synonymous_variant,p.%3D,ENST00000376840,;TBC1D8,synonymous_variant,p.%3D,ENST00000409318,;RPL31,intron_variant,,ENST00000409650,;RPL31,intron_variant,,ENST00000409028,;RPL31,intron_variant,,ENST00000409038,;RPL31,intron_variant,,ENST00000441435,;RPL31,downstream_gene_variant,,ENST00000409320,;RPL31,downstream_gene_variant,,ENST00000456292,;RPL31,downstream_gene_variant,,ENST00000409733,;RPL31,downstream_gene_variant,,ENST00000409000,;RPL31,downstream_gene_variant,,ENST00000409711,;RPL31,downstream_gene_variant,,ENST00000264258,;TBC1D8,downstream_gene_variant,,ENST00000494011,;RPL31,downstream_gene_variant,,ENST00000419276,;	A	ENSG00000204634	ENST00000376840	Transcript	synonymous_variant	3366	3366	1122	L	ctC/ctT	rs113291929	.	.	-1	TBC1D8	HGNC	17791	protein_coding	YES	CCDS46375.1	ENSP00000366036	TBCD8_HUMAN	.	UPI00015ADD19	.	.	.	20/20	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTTTTGAGATT	.	3	BLCA
NCK2	0	.	GRCh37	2	106498407	106498407	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.850G>C	p.Glu284Gln	p.E284Q	ENST00000233154	4/5	42	34	8	40	40	0	NCK2,missense_variant,p.Glu284Gln,ENST00000233154,;NCK2,missense_variant,p.Glu284Gln,ENST00000393349,;NCK2,intron_variant,,ENST00000522586,;NCK2,intron_variant,,ENST00000451463,;NCK2,downstream_gene_variant,,ENST00000425756,;NCK2,downstream_gene_variant,,ENST00000393348,;	C	ENSG00000071051	ENST00000233154	Transcript	missense_variant	1292	850	284	E/Q	Gag/Cag	.	.	.	1	NCK2	HGNC	7665	protein_coding	YES	CCDS33266.1	ENSP00000233154	NCK2_HUMAN	Q53TG4_HUMAN,Q53T91_HUMAN,E9PEE2_HUMAN,E7EPF5_HUMAN	UPI000012FE3F	.	tolerated(0.27)	benign(0.205)	4/5	.	hmmpanther:PTHR22820,hmmpanther:PTHR22820:SF29,Gene3D:3.30.505.10,SMART_domains:SM00252,PIRSF_domain:PIRSF037874,Superfamily_domains:SSF55550	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCAGAGAGTGG	.	5	BLCA
SULT1C3	0	.	GRCh37	2	108881431	108881431	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.772G>A	p.Asp258Asn	p.D258N	ENST00000329106	6/7	63	58	4	92	92	0	SULT1C3,missense_variant,p.Asp258Asn,ENST00000329106,;SULT1C3,downstream_gene_variant,,ENST00000376700,;	A	ENSG00000196228	ENST00000329106	Transcript	missense_variant	772	772	258	D/N	Gac/Aac	.	.	.	1	SULT1C3	HGNC	33543	protein_coding	YES	CCDS33267.1	ENSP00000333310	ST1C3_HUMAN	.	UPI000004348F	.	tolerated(0.21)	benign(0.021)	6/7	.	hmmpanther:PTHR11783,hmmpanther:PTHR11783:SF39,Pfam_domain:PF00685,Gene3D:3.40.50.300,Superfamily_domains:SSF52540	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTATGGACCAC	.	2	BLCA
BUB1	0	.	GRCh37	2	111406862	111406862	+	Missense_Mutation	SNP	C	C	G	rs75095313	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2296G>C	p.Glu766Gln	p.E766Q	ENST00000302759	19/25	115	107	8	172	172	0	BUB1,missense_variant,p.Glu766Gln,ENST00000409311,;BUB1,missense_variant,p.Glu766Gln,ENST00000302759,;BUB1,missense_variant,p.Glu746Gln,ENST00000535254,;BUB1,non_coding_transcript_exon_variant,,ENST00000490632,;BUB1,non_coding_transcript_exon_variant,,ENST00000466333,;	G	ENSG00000169679	ENST00000302759	Transcript	missense_variant	2415	2296	766	E/Q	Gaa/Caa	rs75095313	.	.	-1	BUB1	HGNC	1148	protein_coding	YES	CCDS33273.1	ENSP00000302530	BUB1_HUMAN	Q9BXX5_HUMAN,C9JRC7_HUMAN,C9JQA4_HUMAN,C9IYH4_HUMAN	UPI00000012C4	.	deleterious(0.03)	probably_damaging(0.993)	19/25	.	hmmpanther:PTHR14030:SF3,hmmpanther:PTHR14030	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCATTCAAAAG	suspect|byCluster	2	BLCA
MZT2B	0	.	GRCh37	2	130948263	130948263	+	3'UTR	SNP	G	G	C	rs753422466	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*64G>C	.	.	ENST00000281871	3/3	40	31	9	40	40	0	MZT2B,stop_lost,p.Ter121SerextTer1,ENST00000455239,;MZT2B,3_prime_UTR_variant,,ENST00000457492,;MZT2B,3_prime_UTR_variant,,ENST00000425361,;MZT2B,3_prime_UTR_variant,,ENST00000281871,;MZT2B,3_prime_UTR_variant,,ENST00000409255,;TUBA3E,downstream_gene_variant,,ENST00000312988,;MZT2B,downstream_gene_variant,,ENST00000491178,;MZT2B,non_coding_transcript_exon_variant,,ENST00000480182,;	C	ENSG00000152082	ENST00000281871	Transcript	3_prime_UTR_variant	896	.	.	.	.	rs753422466	.	.	1	MZT2B	HGNC	25886	protein_coding	YES	CCDS2157.1	ENSP00000281871	MZT2B_HUMAN	.	UPI00001591CB	.	.	.	3/3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CAATTGATAAT	.	5	BLCA
COBLL1	0	.	GRCh37	2	165551329	165551329	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2687C>G	p.Ser896Ter	p.S896*	ENST00000342193	12/14	53	50	3	63	63	0	COBLL1,stop_gained,p.Ser858Ter,ENST00000375458,;COBLL1,stop_gained,p.Ser896Ter,ENST00000409184,;COBLL1,stop_gained,p.Ser896Ter,ENST00000342193,;COBLL1,stop_gained,p.Ser934Ter,ENST00000392717,;COBLL1,stop_gained,p.Ser963Ter,ENST00000194871,;COBLL1,upstream_gene_variant,,ENST00000493713,;COBLL1,upstream_gene_variant,,ENST00000495084,;COBLL1,non_coding_transcript_exon_variant,,ENST00000493868,;COBLL1,non_coding_transcript_exon_variant,,ENST00000489955,;	C	ENSG00000082438	ENST00000342193	Transcript	stop_gained	2903	2687	896	S/*	tCa/tGa	.	.	.	-1	COBLL1	HGNC	23571	protein_coding	YES	CCDS2223.2	ENSP00000341360	COBL1_HUMAN	C9JWZ0_HUMAN,C9JAU3_HUMAN,B3KMG7_HUMAN	UPI000007132B	.	.	.	12/14	.	hmmpanther:PTHR21557:SF2,hmmpanther:PTHR21557	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATTTGAAGCC	.	2	BLCA
LRP2	0	.	GRCh37	2	170007520	170007520	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.12478G>C	p.Asp4160His	p.D4160H	ENST00000263816	68/79	109	96	13	108	108	0	LRP2,missense_variant,p.Asp4160His,ENST00000263816,;	G	ENSG00000081479	ENST00000263816	Transcript	missense_variant	12764	12478	4160	D/H	Gat/Cat	.	.	.	-1	LRP2	HGNC	6694	protein_coding	YES	CCDS2232.1	ENSP00000263816	LRP2_HUMAN	Q9NP34_HUMAN,Q53TL0_HUMAN,Q4ZG84_HUMAN	UPI0000141BA5	.	.	probably_damaging(1)	68/79	.	PROSITE_profiles:PS51120,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF220,Gene3D:2.120.10.30,Pfam_domain:PF00058,SMART_domains:SM00135,Superfamily_domains:SSF63825	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GACATCTGACC	.	4	BLCA
KLHL41	0	.	GRCh37	2	170371380	170371380	+	Missense_Mutation	SNP	G	G	A	rs766932607	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1285G>A	p.Glu429Lys	p.E429K	ENST00000284669	3/6	49	43	6	56	56	0	BBS5,missense_variant,p.Glu367Lys,ENST00000554017,;KLHL41,missense_variant,p.Glu429Lys,ENST00000284669,;RP11-724O16.1,missense_variant,p.Glu367Lys,ENST00000513963,;KLHL41,non_coding_transcript_exon_variant,,ENST00000480330,;KLHL41,non_coding_transcript_exon_variant,,ENST00000463400,;	A	ENSG00000239474	ENST00000284669	Transcript	missense_variant	1362	1285	429	E/K	Gaa/Aaa	rs766932607	.	.	1	KLHL41	HGNC	16905	protein_coding	YES	CCDS2234.1	ENSP00000284669	KLH41_HUMAN	.	UPI0000000DC5	.	deleterious(0.01)	possibly_damaging(0.862)	3/6	.	hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF146,Pfam_domain:PF01344,Gene3D:1zgkA00,SMART_domains:SM00612,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGAACGAAGTA	byFrequency	4	BLCA
GPR155	0	.	GRCh37	2	175324661	175324661	+	Missense_Mutation	SNP	C	C	G	rs373610456	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1716G>C	p.Glu572Asp	p.E572D	ENST00000392552	10/16	74	67	7	109	109	0	GPR155,missense_variant,p.Glu572Asp,ENST00000295500,;GPR155,missense_variant,p.Glu572Asp,ENST00000392552,;GPR155,missense_variant,p.Glu572Asp,ENST00000392551,;	G	ENSG00000163328	ENST00000392552	Transcript	missense_variant	1955	1716	572	E/D	gaG/gaC	rs373610456	.	.	-1	GPR155	HGNC	22951	protein_coding	YES	CCDS2259.1	ENSP00000376335	GP155_HUMAN	.	UPI000013E262	.	tolerated(0.55)	benign(0.001)	10/16	.	hmmpanther:PTHR22829	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|VARSCANS	GGACTCTCCTC	byCluster	2	BLCA
TTN	0	.	GRCh37	2	179429611	179429611	+	Nonsense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.81248C>G	p.Ser27083Ter	p.S27083*	ENST00000589042	326/363	44	41	3	59	59	0	TTN,stop_gained,p.Ser18143Ter,ENST00000359218,;TTN,stop_gained,p.Ser25442Ter,ENST00000591111,;TTN,stop_gained,p.Ser27083Ter,ENST00000589042,;TTN,stop_gained,p.Ser18210Ter,ENST00000342175,;TTN,stop_gained,p.Ser24515Ter,ENST00000342992,;TTN,stop_gained,p.Ser18018Ter,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000438095,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000586707,;TTN-AS1,intron_variant,,ENST00000586831,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592600,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;	C	ENSG00000155657	ENST00000589042	Transcript	stop_gained	81473	81248	27083	S/*	tCa/tGa	.	.	.	-1	TTN	HGNC	12403	protein_coding	YES	CCDS59435.1	ENSP00000467141	TITIN_HUMAN	C9JQJ2_HUMAN,A2TKE6_HUMAN	UPI000264F4A1	.	.	.	326/363	.	PROSITE_profiles:PS50853,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Gene3D:2.60.40.10,Pfam_domain:PF00041,SMART_domains:SM00060,Superfamily_domains:SSF49265	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGATTGATGTC	.	2	BLCA
ALS2CR12	0	.	GRCh37	2	202173901	202173901	+	Missense_Mutation	SNP	C	C	T	rs377145516	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.748G>A	p.Glu250Lys	p.E250K	ENST00000405148	10/15	91	83	7	130	130	0	ALS2CR12,missense_variant,p.Glu25Lys,ENST00000415745,;ALS2CR12,missense_variant,p.Glu250Lys,ENST00000405148,;ALS2CR12,missense_variant,p.Glu250Lys,ENST00000439709,;ALS2CR12,missense_variant,p.Glu136Lys,ENST00000425488,;ALS2CR12,missense_variant,p.Glu250Lys,ENST00000392257,;ALS2CR12,missense_variant,p.Glu250Lys,ENST00000286190,;ALS2CR12,non_coding_transcript_exon_variant,,ENST00000448967,;ALS2CR12,non_coding_transcript_exon_variant,,ENST00000494171,;	T	ENSG00000155749	ENST00000405148	Transcript	missense_variant	1192	748	250	E/K	Gag/Aag	rs377145516	.	.	-1	ALS2CR12	HGNC	14439	protein_coding	YES	CCDS2346.1	ENSP00000385098	AL2SB_HUMAN	C9JTY0_HUMAN	UPI00001AEADD	.	tolerated(0.06)	probably_damaging(0.998)	10/15	.	Low_complexity_(Seg):seg,hmmpanther:PTHR21707,hmmpanther:PTHR21707:SF38	.	.	.	.	.	.	.	G:0	G:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.F249F|c.747C>T|4	MUTECT|MUSE|VARSCANS	TCGCTCGAACT	byFrequency|byCluster	3	BLCA
PIKFYVE	0	.	GRCh37	2	209182626	209182626	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2043C>G	p.%3D	p.V681V	ENST00000264380	16/42	71	60	11	89	89	0	PIKFYVE,synonymous_variant,p.%3D,ENST00000452564,;PIKFYVE,synonymous_variant,p.%3D,ENST00000264380,;PIKFYVE,3_prime_UTR_variant,,ENST00000443896,;	G	ENSG00000115020	ENST00000264380	Transcript	synonymous_variant	2201	2043	681	V	gtC/gtG	.	.	.	1	PIKFYVE	HGNC	23785	protein_coding	YES	CCDS2382.1	ENSP00000264380	FYV1_HUMAN	.	UPI0000366FD6	.	.	.	16/42	.	Superfamily_domains:SSF52029,Superfamily_domains:SSF54849,Pfam_domain:PF00118,Gene3D:3.50.7.10,hmmpanther:PTHR11353:SF57,hmmpanther:PTHR11353	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTTGTCAATGG	.	5	BLCA
AAMP	0	.	GRCh37	2	219129801	219129801	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1171C>T	p.Arg391Cys	p.R391C	ENST00000248450	10/11	122	104	18	157	157	0	AAMP,missense_variant,p.Arg146Cys,ENST00000422731,;AAMP,missense_variant,p.Arg391Cys,ENST00000248450,;AAMP,missense_variant,p.Arg372Cys,ENST00000420660,;AAMP,missense_variant,p.Arg392Cys,ENST00000444053,;GPBAR1,downstream_gene_variant,,ENST00000521462,;GPBAR1,downstream_gene_variant,,ENST00000522678,;GPBAR1,downstream_gene_variant,,ENST00000479077,;GPBAR1,downstream_gene_variant,,ENST00000519574,;AAMP,downstream_gene_variant,,ENST00000447885,;AAMP,non_coding_transcript_exon_variant,,ENST00000475678,;AAMP,non_coding_transcript_exon_variant,,ENST00000489767,;AAMP,non_coding_transcript_exon_variant,,ENST00000494720,;AAMP,downstream_gene_variant,,ENST00000465442,;AAMP,downstream_gene_variant,,ENST00000461911,;	A	ENSG00000127837	ENST00000248450	Transcript	missense_variant	1342	1171	391	R/C	Cgc/Tgc	.	.	.	-1	AAMP	HGNC	18	protein_coding	YES	CCDS33378.1	ENSP00000248450	AAMP_HUMAN	C9JTS3_HUMAN	UPI0000209584	.	deleterious(0.02)	benign(0.428)	10/11	.	Superfamily_domains:SSF50978,SMART_domains:SM00320,Gene3D:2.130.10.10,hmmpanther:PTHR19857:SF17,hmmpanther:PTHR19857,PROSITE_profiles:PS50082,PROSITE_profiles:PS50294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CAGGCGGCCGG	.	4	BLCA
DNMT3A	0	.	GRCh37	2	25472552	25472552	+	Intron	SNP	G	G	A	rs151168784	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.640-1431C>T	.	.	ENST00000264709	.	73	61	12	47	47	0	DNMT3A,missense_variant,p.Arg16Cys,ENST00000380746,;DNMT3A,intron_variant,,ENST00000321117,;DNMT3A,intron_variant,,ENST00000402667,;DNMT3A,intron_variant,,ENST00000264709,;DNMT3A,non_coding_transcript_exon_variant,,ENST00000470983,;DNMT3A,intron_variant,,ENST00000496570,;DNMT3A,intron_variant,,ENST00000380756,;DNMT3A,upstream_gene_variant,,ENST00000474807,;DNMT3A,upstream_gene_variant,,ENST00000484184,;	A	ENSG00000119772	ENST00000264709	Transcript	intron_variant	.	.	.	.	.	rs151168784	.	.	-1	DNMT3A	HGNC	2978	protein_coding	YES	CCDS33157.1	ENSP00000264709	DNM3A_HUMAN	Q8WVA9_HUMAN,Q6PJ37_HUMAN	UPI000000DA70	.	.	.	.	6/22	.	.	.	.	.	.	.	.	A:0	A:0.0003	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCTACGATCCA	byCluster	5	BLCA
SPDYA	0	.	GRCh37	2	29038982	29038982	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.102G>A	p.%3D	p.L34L	ENST00000334056	3/8	89	83	6	115	115	0	SPDYA,synonymous_variant,p.%3D,ENST00000334056,;SPDYA,synonymous_variant,p.%3D,ENST00000379579,;SPDYA,synonymous_variant,p.%3D,ENST00000449210,;SPDYA,non_coding_transcript_exon_variant,,ENST00000462832,;SPDYA,intron_variant,,ENST00000491044,;	A	ENSG00000163806	ENST00000334056	Transcript	synonymous_variant	291	102	34	L	ctG/ctA	.	.	.	1	SPDYA	HGNC	30613	protein_coding	YES	CCDS1767.2	ENSP00000335628	SPDYA_HUMAN	Q53R02_HUMAN,E7EPV1_HUMAN	UPI00002081C1	.	.	.	3/8	.	hmmpanther:PTHR31545:SF3,hmmpanther:PTHR31545	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	ACTCTGAAGCG	.	2	BLCA
HEATR5B	0	.	GRCh37	2	37247008	37247008	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.4048C>G	p.Leu1350Val	p.L1350V	ENST00000233099	26/36	58	51	6	42	42	0	HEATR5B,missense_variant,p.Leu1350Val,ENST00000233099,;HEATR5B,missense_variant,p.Leu1350Val,ENST00000354531,;	C	ENSG00000008869	ENST00000233099	Transcript	missense_variant	4144	4048	1350	L/V	Cta/Gta	.	.	.	-1	HEATR5B	HGNC	29273	protein_coding	YES	CCDS33181.1	ENSP00000233099	HTR5B_HUMAN	.	UPI0000160DCD	.	deleterious(0.02)	probably_damaging(0.919)	26/36	.	hmmpanther:PTHR21663:SF2,hmmpanther:PTHR21663,Gene3D:1.25.10.10,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTTAGAGCAG	.	4	BLCA
THADA	0	.	GRCh37	2	43458261	43458261	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5688G>A	p.%3D	p.V1896V	ENST00000405006	38/38	17	12	4	31	31	0	THADA,synonymous_variant,p.%3D,ENST00000407351,;THADA,synonymous_variant,p.%3D,ENST00000415080,;THADA,synonymous_variant,p.%3D,ENST00000405006,;THADA,synonymous_variant,p.%3D,ENST00000405975,;THADA,intron_variant,,ENST00000330266,;ZFP36L2,upstream_gene_variant,,ENST00000282388,;AC010883.5,intron_variant,,ENST00000423354,;THADA,downstream_gene_variant,,ENST00000467668,;THADA,3_prime_UTR_variant,,ENST00000398653,;	T	ENSG00000115970	ENST00000405006	Transcript	synonymous_variant	6040	5688	1896	V	gtG/gtA	.	.	.	-1	THADA	HGNC	19217	protein_coding	YES	CCDS46268.1	ENSP00000385995	THADA_HUMAN	Q6YHU4_HUMAN	UPI00001C0473	.	.	.	38/38	.	hmmpanther:PTHR14387:SF0,hmmpanther:PTHR14387	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCTTCACAAA	.	5	BLCA
KCNIP3	0	.	GRCh37	2	96047364	96047364	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.468C>T	p.%3D	p.S156S	ENST00000295225	6/9	27	22	5	25	25	0	KCNIP3,synonymous_variant,p.%3D,ENST00000468529,;KCNIP3,synonymous_variant,p.%3D,ENST00000295225,;KCNIP3,synonymous_variant,p.%3D,ENST00000360990,;KCNIP3,non_coding_transcript_exon_variant,,ENST00000377181,;	T	ENSG00000115041	ENST00000295225	Transcript	synonymous_variant	603	468	156	S	tcC/tcT	.	.	.	1	KCNIP3	HGNC	15523	protein_coding	YES	CCDS2013.1	ENSP00000295225	CSEN_HUMAN	.	UPI0000000CCD	.	.	.	6/9	.	PROSITE_profiles:PS50222,hmmpanther:PTHR23055:SF61,hmmpanther:PTHR23055,Gene3D:1.10.238.10,SMART_domains:SM00054,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTCCATCCT	.	5	BLCA
GOLGB1	0	.	GRCh37	3	121416264	121416264	+	Missense_Mutation	SNP	C	C	G	rs770087482	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3106G>C	p.Glu1036Gln	p.E1036Q	ENST00000393667	13/22	57	48	9	68	68	0	GOLGB1,missense_variant,p.Glu1036Gln,ENST00000393667,;GOLGB1,missense_variant,p.Glu1031Gln,ENST00000340645,;GOLGB1,missense_variant,p.Glu995Gln,ENST00000494517,;GOLGB1,missense_variant,p.Glu902Gln,ENST00000489400,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;	G	ENSG00000173230	ENST00000393667	Transcript	missense_variant	3217	3106	1036	E/Q	Gag/Cag	rs770087482	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	benign(0.087)	13/22	.	hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AGTCTCACTGA	.	5	BLCA
GOLGB1	0	.	GRCh37	3	121417764	121417764	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1606G>C	p.Asp536His	p.D536H	ENST00000393667	13/22	125	99	25	139	139	0	GOLGB1,missense_variant,p.Asp536His,ENST00000393667,;GOLGB1,missense_variant,p.Asp531His,ENST00000340645,;GOLGB1,missense_variant,p.Asp495His,ENST00000494517,;GOLGB1,missense_variant,p.Asp402His,ENST00000489400,;GOLGB1,3_prime_UTR_variant,,ENST00000482512,;	G	ENSG00000173230	ENST00000393667	Transcript	missense_variant	1717	1606	536	D/H	Gat/Cat	.	.	.	-1	GOLGB1	HGNC	4429	protein_coding	YES	CCDS58847.1	ENSP00000377275	GOGB1_HUMAN	C9J8Q0_HUMAN	UPI0001AE7645	.	.	possibly_damaging(0.834)	13/22	.	hmmpanther:PTHR18887,hmmpanther:PTHR18887:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	AATATCAACAA	.	5	BLCA
HSPBAP1	0	.	GRCh37	3	122512482	122512482	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.46G>A	p.Gly16Arg	p.G16R	ENST00000306103	1/8	113	103	10	108	108	0	HSPBAP1,missense_variant,p.Gly16Arg,ENST00000383659,;HSPBAP1,missense_variant,p.Gly16Arg,ENST00000306103,;DIRC2,upstream_gene_variant,,ENST00000261038,;HSPBAP1,non_coding_transcript_exon_variant,,ENST00000467643,;HSPBAP1,non_coding_transcript_exon_variant,,ENST00000465044,;HSPBAP1,non_coding_transcript_exon_variant,,ENST00000478601,;DIRC2,upstream_gene_variant,,ENST00000477647,;	T	ENSG00000169087	ENST00000306103	Transcript	missense_variant	190	46	16	G/R	Ggg/Agg	.	.	.	-1	HSPBAP1	HGNC	16389	protein_coding	YES	CCDS3017.1	ENSP00000302562	HBAP1_HUMAN	Q9H641_HUMAN	UPI00000715E9	.	tolerated_low_confidence(0.67)	benign(0.002)	1/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12461,hmmpanther:PTHR12461:SF28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AGCCCCAGCCG	.	3	BLCA
ROPN1	0	.	GRCh37	3	123689034	123689034	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.427G>C	p.Glu143Gln	p.E143Q	ENST00000184183	6/7	112	92	19	94	93	1	ROPN1,missense_variant,p.Glu143Gln,ENST00000184183,;ROPN1,missense_variant,p.Glu143Gln,ENST00000405845,;ROPN1,downstream_gene_variant,,ENST00000487124,;	G	ENSG00000065371	ENST00000184183	Transcript	missense_variant	768	427	143	E/Q	Gag/Cag	.	.	.	-1	ROPN1	HGNC	17692	protein_coding	YES	CCDS3026.1	ENSP00000184183	ROP1A_HUMAN	C9JP07_HUMAN,C9J6H4_HUMAN,C9J012_HUMAN	UPI00000738C9	.	deleterious(0.03)	benign(0.148)	6/7	.	hmmpanther:PTHR14952,hmmpanther:PTHR14952:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACCTCACACA	.	5	BLCA
SEC61A1	0	.	GRCh37	3	127779431	127779431	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.543C>G	p.%3D	p.L181L	ENST00000243253	7/12	102	87	15	89	89	0	SEC61A1,synonymous_variant,p.%3D,ENST00000424880,;SEC61A1,synonymous_variant,p.%3D,ENST00000243253,;SEC61A1,synonymous_variant,p.%3D,ENST00000464451,;RUVBL1,downstream_gene_variant,,ENST00000472125,;RUVBL1,downstream_gene_variant,,ENST00000464873,;SEC61A1,downstream_gene_variant,,ENST00000481210,;SEC61A1,upstream_gene_variant,,ENST00000483956,;RUVBL1,downstream_gene_variant,,ENST00000585057,;SEC61A1,downstream_gene_variant,,ENST00000491668,;	G	ENSG00000058262	ENST00000243253	Transcript	synonymous_variant	727	543	181	L	ctC/ctG	.	.	.	1	SEC61A1	HGNC	18276	protein_coding	YES	CCDS3046.1	ENSP00000243253	S61A1_HUMAN	B3KNG2_HUMAN,C9JXC6_HUMAN,B3KNF6_HUMAN,B3KME8_HUMAN	UPI00000041A9	.	.	.	7/12	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR10906,PROSITE_patterns:PS00756,Gene3D:1.10.3370.10,TIGRFAM_domain:TIGR00967,Pfam_domain:PF00344,PIRSF_domain:PIRSF004557,Superfamily_domains:0043235	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCTCTCTTCAT	.	5	BLCA
PAQR9	0	.	GRCh37	3	142681684	142681684	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.495C>G	p.%3D	p.G165G	ENST00000340634	1/1	25	20	5	27	27	0	PAQR9,synonymous_variant,p.%3D,ENST00000340634,;U2SURP,upstream_gene_variant,,ENST00000600150,;PAQR9,upstream_gene_variant,,ENST00000492509,;PAQR9,upstream_gene_variant,,ENST00000498470,;RP11-372E1.6,upstream_gene_variant,,ENST00000598787,;RP11-372E1.6,upstream_gene_variant,,ENST00000593321,;RP11-372E1.6,upstream_gene_variant,,ENST00000608686,;RP11-372E1.6,upstream_gene_variant,,ENST00000478823,;RP11-372E1.6,upstream_gene_variant,,ENST00000493825,;RP11-372E1.6,upstream_gene_variant,,ENST00000598139,;RP11-372E1.6,upstream_gene_variant,,ENST00000607937,;RP11-372E1.6,upstream_gene_variant,,ENST00000594095,;RP11-372E1.6,upstream_gene_variant,,ENST00000595248,;RP11-372E1.6,upstream_gene_variant,,ENST00000497652,;RP11-372E1.6,upstream_gene_variant,,ENST00000608349,;RP11-372E1.6,upstream_gene_variant,,ENST00000595774,;RP11-372E1.7,downstream_gene_variant,,ENST00000468434,;	C	ENSG00000188582	ENST00000340634	Transcript	synonymous_variant	495	495	165	G	ggC/ggG	.	.	.	-1	PAQR9	HGNC	30131	protein_coding	YES	CCDS3128.1	ENSP00000341564	PAQR9_HUMAN	.	UPI00000620A1	.	.	.	1/1	.	Transmembrane_helices:TMhelix,hmmpanther:PTHR20855,hmmpanther:PTHR20855:SF29,Pfam_domain:PF03006	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCGAAGCCGTA	.	5	BLCA
PRKCI	0	.	GRCh37	3	170009715	170009715	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1277G>C	p.Arg426Thr	p.R426T	ENST00000295797	13/18	43	36	7	51	51	0	PRKCI,missense_variant,p.Arg426Thr,ENST00000295797,;PRKCI,non_coding_transcript_exon_variant,,ENST00000476635,;PRKCI,upstream_gene_variant,,ENST00000483697,;PRKCI,upstream_gene_variant,,ENST00000485837,;	C	ENSG00000163558	ENST00000295797	Transcript	missense_variant	1582	1277	426	R/T	aGa/aCa	.	.	.	1	PRKCI	HGNC	9404	protein_coding	YES	CCDS3212.2	ENSP00000295797	KPCI_HUMAN	.	UPI000020A798	.	deleterious(0)	probably_damaging(0.99)	13/18	.	Superfamily_domains:SSF56112,SMART_domains:SM00220,PIRSF_domain:PIRSF000554,Pfam_domain:PF00069,Gene3D:1.10.510.10,hmmpanther:PTHR24357:SF60,hmmpanther:PTHR24357,PROSITE_profiles:PS50011	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TTTAAGAGGAG	.	4	BLCA
PIK3CA	0	.	GRCh37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1633G>A	p.Glu545Lys	p.E545K	ENST00000263967	10/21	41	28	12	32	32	0	PIK3CA,missense_variant,p.Glu545Lys,ENST00000263967,;PIK3CA,upstream_gene_variant,,ENST00000462255,;	A	ENSG00000121879	ENST00000263967	Transcript	missense_variant	1790	1633	545	E/K	Gag/Aag	rs104886003,COSM763,COSM27133,COSM125370,COSM295672	.	.	1	PIK3CA	HGNC	8975	protein_coding	YES	CCDS43171.1	ENSP00000263967	PK3CA_HUMAN	Q4LE51_HUMAN,C9JAM9_HUMAN,C9J951_HUMAN	UPI000013D494	.	deleterious(0.02)	probably_damaging(0.959)	10/21	.	PROSITE_profiles:PS51545,hmmpanther:PTHR10048:SF54,hmmpanther:PTHR10048,Pfam_domain:PF00613,Gene3D:1.25.40.70,SMART_domains:SM00145,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	not_provided,pathogenic	0,1,1,1,1	21264207	.	.	.	.	MODERATE	.	SNV	.	.	1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.E545K|c.1633G>A|227,SITE|p.E545K|c.1633G>A|1153,CODON|p.T544N|c.1631C>A|3,BUFFER|p.E542Q|c.1624G>C|8,BUFFER|p.E542K|c.1624G>A|115,BUFFER|p.E542K|c.1624G>A|758,BUFFER|p.E542G|c.1625A>G|3,BUFFER|p.E542V|c.1625A>T|14,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.E542V|c.1625A>T|5,BUFFER|p.E542A|c.1625A>C|3,BUFFER|p.I543V|c.1627A>G|3,BUFFER|p.E545Q|c.1633G>C|30,BUFFER|p.E545Q|c.1633G>C|9,BUFFER|p.E545A|c.1634A>C|130,BUFFER|p.E545V|c.1634A>T|4,BUFFER|p.E545A|c.1634A>C|11,BUFFER|p.E545G|c.1634A>G|14,BUFFER|p.E545G|c.1634A>G|90,BUFFER|p.E545D|c.1635G>T|13,BUFFER|p.E545D|c.1635G>C|11,BUFFER|p.E545D|c.1635G>T|4,BUFFER|p.Q546K|c.1636C>A|119,BUFFER|p.Q546E|c.1636C>G|15,BUFFER|p.Q546K|c.1636C>A|18,BUFFER|p.Q546R|c.1637A>G|20,BUFFER|p.Q546P|c.1637A>C|22,BUFFER|p.Q546P|c.1637A>C|7,BUFFER|p.Q546L|c.1637A>T|8,BUFFER|p.Q546R|c.1637A>G|41,BUFFER|p.Q546H|c.1638G>T|7,BUFFER|p.E547K|c.1639G>A|11,BUFFER|p.E547G|c.1640A>G|5,BUFFER|p.E547G|c.1640A>G|5	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TCACTGAGCAG	byCluster	5	BLCA
PSMD2	0	.	GRCh37	3	184025251	184025251	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2141C>T	p.Ser714Phe	p.S714F	ENST00000310118	17/21	53	47	5	67	67	0	PSMD2,missense_variant,p.Ser714Phe,ENST00000310118,;PSMD2,missense_variant,p.Ser584Phe,ENST00000439383,;PSMD2,missense_variant,p.Ser555Phe,ENST00000435761,;PSMD2,missense_variant,p.Ser147Phe,ENST00000432855,;EIF2B5,intron_variant,,ENST00000444495,;PSMD2,downstream_gene_variant,,ENST00000417952,;PSMD2,non_coding_transcript_exon_variant,,ENST00000473991,;PSMD2,non_coding_transcript_exon_variant,,ENST00000496925,;PSMD2,downstream_gene_variant,,ENST00000488085,;PSMD2,downstream_gene_variant,,ENST00000466987,;PSMD2,upstream_gene_variant,,ENST00000491494,;PSMD2,downstream_gene_variant,,ENST00000491149,;PSMD2,downstream_gene_variant,,ENST00000445558,;PSMD2,downstream_gene_variant,,ENST00000485937,;PSMD2,downstream_gene_variant,,ENST00000460628,;	T	ENSG00000175166	ENST00000310118	Transcript	missense_variant	2699	2141	714	S/F	tCt/tTt	.	.	.	1	PSMD2	HGNC	9559	protein_coding	YES	CCDS3258.1	ENSP00000310129	PSMD2_HUMAN	Q9NSM5_HUMAN,E7EW34_HUMAN	UPI000013277E	.	deleterious(0)	probably_damaging(0.999)	17/21	.	hmmpanther:PTHR10943,Gene3D:1.25.10.10,PIRSF_domain:PIRSF015965,Superfamily_domains:SSF48371	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATTCTCTCATG	.	4	BLCA
LPP	0	.	GRCh37	3	188202382	188202382	+	Missense_Mutation	SNP	G	G	C	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.196G>C	p.Asp66His	p.D66H	ENST00000312675	4/11	131	102	29	172	172	0	LPP,missense_variant,p.Asp66His,ENST00000420410,;LPP,missense_variant,p.Asp66His,ENST00000426274,;LPP,missense_variant,p.Asp66His,ENST00000414139,;LPP,missense_variant,p.Asp66His,ENST00000448637,;LPP,missense_variant,p.Asp66His,ENST00000312675,;LPP,missense_variant,p.Asp66His,ENST00000543006,;LPP,missense_variant,p.Asp66His,ENST00000416784,;LPP,splice_region_variant,p.%3D,ENST00000454789,;LPP,splice_region_variant,,ENST00000494233,;LPP,splice_region_variant,,ENST00000474472,;LPP,non_coding_transcript_exon_variant,,ENST00000484468,;	C	ENSG00000145012	ENST00000312675	Transcript	missense_variant	442	196	66	D/H	Gat/Cat	COSM1042464	.	.	1	LPP	HGNC	6679	protein_coding	YES	CCDS3291.1	ENSP00000318089	LPP_HUMAN	C9JT42_HUMAN,C9JIY7_HUMAN,C9JE51_HUMAN,C9J5C8_HUMAN,C9J4E3_HUMAN,C9J3U9_HUMAN,C9J2R5_HUMAN,C9J1K7_HUMAN,B7Z871_HUMAN	UPI000002E034	.	tolerated(0.16)	possibly_damaging(0.837)	4/11	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24207,hmmpanther:PTHR24207:SF0	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TAGGTGATTTT	.	5	BLCA
LEPREL1	0	.	GRCh37	3	189688676	189688676	+	Missense_Mutation	SNP	G	G	C	rs368494797	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1822C>G	p.Leu608Val	p.L608V	ENST00000319332	13/15	35	30	5	46	46	0	LEPREL1,missense_variant,p.Leu608Val,ENST00000319332,;LEPREL1,missense_variant,p.Leu427Val,ENST00000427335,;LEPREL1,non_coding_transcript_exon_variant,,ENST00000467131,;LEPREL1,non_coding_transcript_exon_variant,,ENST00000463171,;LEPREL1,downstream_gene_variant,,ENST00000470925,;LEPREL1,downstream_gene_variant,,ENST00000482780,;LEPREL1,downstream_gene_variant,,ENST00000475095,;MTAPP2,upstream_gene_variant,,ENST00000437063,;	C	ENSG00000090530	ENST00000319332	Transcript	missense_variant	2020	1822	608	L/V	Ctc/Gtc	rs368494797	.	.	-1	LEPREL1	HGNC	19317	protein_coding	YES	CCDS3294.1	ENSP00000316881	P3H2_HUMAN	D3DNV8_HUMAN,C9JSL4_HUMAN,C9J313_HUMAN	UPI000007460B	.	deleterious(0.04)	benign(0.091)	13/15	.	PROSITE_profiles:PS51471,hmmpanther:PTHR14049,hmmpanther:PTHR14049:SF1,Pfam_domain:PF13640,SMART_domains:SM00702	.	.	.	.	.	.	.	A:0	A:0.0002	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAGGAGAGCAC	.	5	BLCA
OPA1	0	.	GRCh37	3	193332698	193332698	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.219G>A	p.%3D	p.L73L	ENST00000361908	2/30	27	22	5	41	41	0	OPA1,synonymous_variant,p.%3D,ENST00000392437,;OPA1,synonymous_variant,p.%3D,ENST00000361715,;OPA1,synonymous_variant,p.%3D,ENST00000361828,;OPA1,synonymous_variant,p.%3D,ENST00000392438,;OPA1,synonymous_variant,p.%3D,ENST00000361510,;OPA1,synonymous_variant,p.%3D,ENST00000392436,;OPA1,synonymous_variant,p.%3D,ENST00000361150,;OPA1,synonymous_variant,p.%3D,ENST00000361908,;OPA1,5_prime_UTR_variant,,ENST00000419435,;OPA1,upstream_gene_variant,,ENST00000434811,;OPA1-AS1,downstream_gene_variant,,ENST00000433105,;OPA1-AS1,downstream_gene_variant,,ENST00000444085,;OPA1,non_coding_transcript_exon_variant,,ENST00000487986,;OPA1,upstream_gene_variant,,ENST00000497189,;	A	ENSG00000198836	ENST00000361908	Transcript	synonymous_variant	453	219	73	L	ctG/ctA	.	.	.	1	OPA1	HGNC	8140	protein_coding	YES	CCDS33917.1	ENSP00000354681	OPA1_HUMAN	Q6PEK6_HUMAN,E5KLJ7_HUMAN,C9JY58_HUMAN	UPI0000422960	.	.	.	2/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	AAACTGAAATT	.	5	BLCA
OPA1	0	.	GRCh37	3	193332766	193332766	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.287G>C	p.Arg96Thr	p.R96T	ENST00000361908	2/30	43	36	7	48	48	0	OPA1,missense_variant,p.Arg96Thr,ENST00000392437,;OPA1,missense_variant,p.Arg96Thr,ENST00000361715,;OPA1,missense_variant,p.Arg96Thr,ENST00000361828,;OPA1,missense_variant,p.Arg96Thr,ENST00000392438,;OPA1,missense_variant,p.Arg96Thr,ENST00000361510,;OPA1,missense_variant,p.Arg96Thr,ENST00000392436,;OPA1,missense_variant,p.Arg96Thr,ENST00000361150,;OPA1,missense_variant,p.Arg96Thr,ENST00000361908,;OPA1,5_prime_UTR_variant,,ENST00000419435,;OPA1,upstream_gene_variant,,ENST00000434811,;OPA1-AS1,downstream_gene_variant,,ENST00000433105,;OPA1-AS1,downstream_gene_variant,,ENST00000444085,;OPA1,non_coding_transcript_exon_variant,,ENST00000487986,;OPA1,upstream_gene_variant,,ENST00000497189,;	C	ENSG00000198836	ENST00000361908	Transcript	missense_variant	521	287	96	R/T	aGa/aCa	.	.	.	1	OPA1	HGNC	8140	protein_coding	YES	CCDS33917.1	ENSP00000354681	OPA1_HUMAN	Q6PEK6_HUMAN,E5KLJ7_HUMAN,C9JY58_HUMAN	UPI0000422960	.	tolerated(0.17)	possibly_damaging(0.459)	2/30	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|MUTECT|MUSE|VARSCANS	TACGAGACTCT	.	4	BLCA
OPA1	0	.	GRCh37	3	193380719	193380719	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2575G>A	p.Glu859Lys	p.E859K	ENST00000361908	25/30	71	62	8	70	69	1	OPA1,missense_variant,p.Glu14Lys,ENST00000445863,;OPA1,missense_variant,p.Glu841Lys,ENST00000361715,;OPA1,missense_variant,p.Glu840Lys,ENST00000361828,;OPA1,missense_variant,p.Glu822Lys,ENST00000392438,;OPA1,missense_variant,p.Glu877Lys,ENST00000361510,;OPA1,missense_variant,p.Glu823Lys,ENST00000361150,;OPA1,missense_variant,p.Glu859Lys,ENST00000361908,;OPA1,upstream_gene_variant,,ENST00000429164,;OPA1,downstream_gene_variant,,ENST00000482865,;	A	ENSG00000198836	ENST00000361908	Transcript	missense_variant	2809	2575	859	E/K	Gaa/Aaa	.	.	.	1	OPA1	HGNC	8140	protein_coding	YES	CCDS33917.1	ENSP00000354681	OPA1_HUMAN	Q6PEK6_HUMAN,E5KLJ7_HUMAN,C9JY58_HUMAN	UPI0000422960	.	tolerated(0.08)	benign(0.024)	25/30	.	hmmpanther:PTHR11566,hmmpanther:PTHR11566:SF12	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCTTGAATCC	.	3	BLCA
OPA1	0	.	GRCh37	3	193380726	193380726	+	Missense_Mutation	SNP	G	G	A	rs200412464	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2582G>A	p.Arg861Gln	p.R861Q	ENST00000361908	25/30	76	65	11	69	69	0	OPA1,missense_variant,p.Arg16Gln,ENST00000445863,;OPA1,missense_variant,p.Arg843Gln,ENST00000361715,;OPA1,missense_variant,p.Arg842Gln,ENST00000361828,;OPA1,missense_variant,p.Arg824Gln,ENST00000392438,;OPA1,missense_variant,p.Arg879Gln,ENST00000361510,;OPA1,missense_variant,p.Arg825Gln,ENST00000361150,;OPA1,missense_variant,p.Arg861Gln,ENST00000361908,;OPA1,upstream_gene_variant,,ENST00000429164,;OPA1,downstream_gene_variant,,ENST00000482865,;	A	ENSG00000198836	ENST00000361908	Transcript	missense_variant	2816	2582	861	R/Q	cGa/cAa	rs200412464	.	.	1	OPA1	HGNC	8140	protein_coding	YES	CCDS33917.1	ENSP00000354681	OPA1_HUMAN	Q6PEK6_HUMAN,E5KLJ7_HUMAN,C9JY58_HUMAN	UPI0000422960	.	tolerated(0.4)	benign(0.002)	25/30	.	hmmpanther:PTHR11566,hmmpanther:PTHR11566:SF12	A:0.0002	A:0.0008	A:0	.	A:0	A:0	A:0	A:0	A:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ATCCCGAGGAG	byCluster|by1000G	3	BLCA
RNF168	0	.	GRCh37	3	196230038	196230038	+	Missense_Mutation	SNP	G	G	C	rs750787709	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.7C>G	p.Leu3Val	p.L3V	ENST00000318037	1/6	46	37	9	43	43	0	RNF168,missense_variant,p.Leu3Val,ENST00000318037,;SMCO1,downstream_gene_variant,,ENST00000397537,;RNF168,missense_variant,p.Leu3Val,ENST00000437070,;SMCO1,downstream_gene_variant,,ENST00000452776,;	C	ENSG00000163961	ENST00000318037	Transcript	missense_variant	602	7	3	L/V	Cta/Gta	rs750787709	.	.	-1	RNF168	HGNC	26661	protein_coding	YES	CCDS3317.1	ENSP00000320898	RN168_HUMAN	.	UPI00000741D1	.	tolerated(0.88)	benign(0)	1/6	.	hmmpanther:PTHR23328:SF1,hmmpanther:PTHR23328	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGGTAGAGCCA	byFrequency	5	BLCA
PDCD6IP	0	.	GRCh37	3	33853577	33853577	+	Missense_Mutation	SNP	A	A	T	rs745493460	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	A	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.223A>T	p.Ile75Phe	p.I75F	ENST00000457054	2/18	64	47	17	113	113	0	PDCD6IP,missense_variant,p.Ile75Phe,ENST00000413073,;PDCD6IP,missense_variant,p.Ile75Phe,ENST00000307296,;PDCD6IP,missense_variant,p.Ile75Phe,ENST00000457054,;PDCD6IP,non_coding_transcript_exon_variant,,ENST00000477798,;PDCD6IP,non_coding_transcript_exon_variant,,ENST00000484478,;PDCD6IP,non_coding_transcript_exon_variant,,ENST00000498147,;PDCD6IP,3_prime_UTR_variant,,ENST00000430877,;PDCD6IP,intron_variant,,ENST00000435909,;PDCD6IP,upstream_gene_variant,,ENST00000494810,;	T	ENSG00000170248	ENST00000457054	Transcript	missense_variant	378	223	75	I/F	Att/Ttt	rs745493460	.	.	1	PDCD6IP	HGNC	8766	protein_coding	YES	CCDS54561.1	ENSP00000411825	PDC6I_HUMAN	.	UPI00004121D3	.	deleterious(0)	benign(0.37)	2/18	.	PROSITE_profiles:PS51180,hmmpanther:PTHR23030:SF19,hmmpanther:PTHR23030,Pfam_domain:PF03097,Gene3D:2xs1A01,SMART_domains:SM01041	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCAGATTTGT	.	5	BLCA
KIF15	0	.	GRCh37	3	44867658	44867658	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2677G>A	p.Glu893Lys	p.E893K	ENST00000326047	21/35	111	101	10	106	106	0	KIF15,missense_variant,p.Glu665Lys,ENST00000481166,;KIF15,missense_variant,p.Glu528Lys,ENST00000425755,;KIF15,missense_variant,p.Glu893Lys,ENST00000326047,;KIF15,missense_variant,p.Glu79Lys,ENST00000453693,;KIF15,3_prime_UTR_variant,,ENST00000438321,;	A	ENSG00000163808	ENST00000326047	Transcript	missense_variant	2826	2677	893	E/K	Gaa/Aaa	.	.	.	1	KIF15	HGNC	17273	protein_coding	YES	CCDS33744.1	ENSP00000324020	KIF15_HUMAN	D6RCT7_HUMAN	UPI000006DB0E	.	deleterious(0.04)	benign(0.341)	21/35	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24115:SF87,hmmpanther:PTHR24115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAAATGAAACT	.	3	BLCA
KIF9	0	.	GRCh37	3	47312862	47312862	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.456C>A	p.%3D	p.L152L	ENST00000335044	5/21	95	87	8	81	81	0	KIF9,synonymous_variant,p.%3D,ENST00000352910,;KIF9,synonymous_variant,p.%3D,ENST00000452770,;KIF9,synonymous_variant,p.%3D,ENST00000265529,;KIF9,synonymous_variant,p.%3D,ENST00000444589,;KIF9,synonymous_variant,p.%3D,ENST00000335044,;KIF9,intron_variant,,ENST00000456548,;KIF9,downstream_gene_variant,,ENST00000425452,;KIF9,downstream_gene_variant,,ENST00000425853,;KIF9,downstream_gene_variant,,ENST00000432493,;KIF9,non_coding_transcript_exon_variant,,ENST00000484629,;KIF9,non_coding_transcript_exon_variant,,ENST00000487440,;KIF9,synonymous_variant,p.%3D,ENST00000443784,;	T	ENSG00000088727	ENST00000335044	Transcript	synonymous_variant	814	456	152	L	ctC/ctA	.	.	.	-1	KIF9	HGNC	16666	protein_coding	YES	CCDS2752.1	ENSP00000333942	KIF9_HUMAN	.	UPI000012DE55	.	.	.	5/21	.	Superfamily_domains:SSF52540,SMART_domains:SM00129,Gene3D:3.40.850.10,Pfam_domain:PF00225,hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF191,PROSITE_profiles:PS50067	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	GACAGGAGATC	.	2	BLCA
RBM5	0	.	GRCh37	3	50151488	50151488	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1723G>C	p.Glu575Gln	p.E575Q	ENST00000347869	19/25	45	41	4	44	44	0	RBM5,missense_variant,p.Glu575Gln,ENST00000347869,;RP11-493K19.3,downstream_gene_variant,,ENST00000425674,;RP11-493K19.3,downstream_gene_variant,,ENST00000437204,;RBM5,downstream_gene_variant,,ENST00000474470,;RBM5,downstream_gene_variant,,ENST00000441812,;RBM5,non_coding_transcript_exon_variant,,ENST00000464087,;RBM5,non_coding_transcript_exon_variant,,ENST00000493993,;RBM5,non_coding_transcript_exon_variant,,ENST00000492430,;RBM5,non_coding_transcript_exon_variant,,ENST00000475128,;RBM5,non_coding_transcript_exon_variant,,ENST00000475590,;RBM5,downstream_gene_variant,,ENST00000489437,;RBM5,upstream_gene_variant,,ENST00000464988,;RBM5,downstream_gene_variant,,ENST00000494360,;RBM5,downstream_gene_variant,,ENST00000474818,;RBM5,upstream_gene_variant,,ENST00000479275,;RBM5,upstream_gene_variant,,ENST00000461242,;	C	ENSG00000003756	ENST00000347869	Transcript	missense_variant	1898	1723	575	E/Q	Gaa/Caa	.	.	.	1	RBM5	HGNC	9902	protein_coding	YES	CCDS2810.1	ENSP00000343054	RBM5_HUMAN	C9JR02_HUMAN,C9JFQ5_HUMAN,C9J9P7_HUMAN	UPI000013337C	.	deleterious(0.04)	probably_damaging(0.954)	19/25	.	Low_complexity_(Seg):seg,hmmpanther:PTHR13948,hmmpanther:PTHR13948:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGAGAGAATCT	.	2	BLCA
RBM5	0	.	GRCh37	3	50151524	50151524	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1759G>C	p.Glu587Gln	p.E587Q	ENST00000347869	19/25	51	46	5	60	60	0	RBM5,missense_variant,p.Glu587Gln,ENST00000347869,;RP11-493K19.3,downstream_gene_variant,,ENST00000425674,;RP11-493K19.3,downstream_gene_variant,,ENST00000437204,;RBM5,downstream_gene_variant,,ENST00000474470,;RBM5,downstream_gene_variant,,ENST00000441812,;RBM5,non_coding_transcript_exon_variant,,ENST00000464087,;RBM5,non_coding_transcript_exon_variant,,ENST00000493993,;RBM5,non_coding_transcript_exon_variant,,ENST00000492430,;RBM5,non_coding_transcript_exon_variant,,ENST00000475128,;RBM5,non_coding_transcript_exon_variant,,ENST00000475590,;RBM5,downstream_gene_variant,,ENST00000489437,;RBM5,upstream_gene_variant,,ENST00000464988,;RBM5,downstream_gene_variant,,ENST00000494360,;RBM5,downstream_gene_variant,,ENST00000474818,;RBM5,upstream_gene_variant,,ENST00000479275,;RBM5,upstream_gene_variant,,ENST00000461242,;	C	ENSG00000003756	ENST00000347869	Transcript	missense_variant	1934	1759	587	E/Q	Gag/Cag	.	.	.	1	RBM5	HGNC	9902	protein_coding	YES	CCDS2810.1	ENSP00000343054	RBM5_HUMAN	C9JR02_HUMAN,C9JFQ5_HUMAN,C9J9P7_HUMAN	UPI000013337C	.	deleterious(0)	benign(0.342)	19/25	.	hmmpanther:PTHR13948,hmmpanther:PTHR13948:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TCTTTGAGAAG	.	2	BLCA
RBM5	0	.	GRCh37	3	50152917	50152917	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1896G>C	p.Glu632Asp	p.E632D	ENST00000347869	21/25	77	71	6	81	81	0	RBM5,missense_variant,p.Glu632Asp,ENST00000347869,;RP11-493K19.3,downstream_gene_variant,,ENST00000425674,;RP11-493K19.3,downstream_gene_variant,,ENST00000437204,;RBM5,downstream_gene_variant,,ENST00000474470,;RBM5,downstream_gene_variant,,ENST00000441812,;RBM5,non_coding_transcript_exon_variant,,ENST00000464087,;RBM5,non_coding_transcript_exon_variant,,ENST00000464988,;RBM5,non_coding_transcript_exon_variant,,ENST00000492430,;RBM5,non_coding_transcript_exon_variant,,ENST00000479275,;RBM5,non_coding_transcript_exon_variant,,ENST00000475128,;RBM5,non_coding_transcript_exon_variant,,ENST00000475590,;RBM5,downstream_gene_variant,,ENST00000489437,;RBM5,downstream_gene_variant,,ENST00000493993,;RBM5,downstream_gene_variant,,ENST00000474818,;RBM5,upstream_gene_variant,,ENST00000461242,;	C	ENSG00000003756	ENST00000347869	Transcript	missense_variant	2071	1896	632	E/D	gaG/gaC	.	.	.	1	RBM5	HGNC	9902	protein_coding	YES	CCDS2810.1	ENSP00000343054	RBM5_HUMAN	C9JR02_HUMAN,C9JFQ5_HUMAN,C9J9P7_HUMAN	UPI000013337C	.	tolerated(0.32)	benign(0.186)	21/25	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13948,hmmpanther:PTHR13948:SF21	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	GTGGAGAGACT	.	3	BLCA
GNAT1	0	.	GRCh37	3	50229198	50229198	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.40G>A	p.Glu14Lys	p.E14K	ENST00000232461	1/9	37	26	10	33	33	0	GNAT1,missense_variant,p.Glu14Lys,ENST00000433068,;GNAT1,missense_variant,p.Glu14Lys,ENST00000232461,;SEMA3F,downstream_gene_variant,,ENST00000413852,;SEMA3F,downstream_gene_variant,,ENST00000434342,;SEMA3F,downstream_gene_variant,,ENST00000002829,;GNAT1,upstream_gene_variant,,ENST00000440836,;GNAT1,upstream_gene_variant,,ENST00000481246,;GNAT1,upstream_gene_variant,,ENST00000467787,;	A	ENSG00000114349	ENST00000232461	Transcript	missense_variant	154	40	14	E/K	Gag/Aag	.	.	.	1	GNAT1	HGNC	4393	protein_coding	YES	CCDS2812.1	ENSP00000232461	GNAT1_HUMAN	C9JCV8_HUMAN	UPI000000124C	.	tolerated(0.21)	probably_damaging(0.992)	1/9	.	Low_complexity_(Seg):seg,hmmpanther:PTHR10218:SF67,hmmpanther:PTHR10218,Gene3D:3.40.50.300,Pfam_domain:PF00503,SMART_domains:SM00275	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCAGGGAGCTG	.	5	BLCA
IQCF3	0	.	GRCh37	3	51864772	51864772	+	Silent	SNP	C	C	A	rs371503129	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.420C>A	p.%3D	p.I140I	ENST00000456080	8/8	47	43	4	39	38	1	IQCF3,synonymous_variant,p.%3D,ENST00000437810,;IQCF3,synonymous_variant,p.%3D,ENST00000456080,;IQCF3,synonymous_variant,p.%3D,ENST00000440739,;IQCF3,synonymous_variant,p.%3D,ENST00000446775,;IQCF3,3_prime_UTR_variant,,ENST00000444293,;IQCF3,non_coding_transcript_exon_variant,,ENST00000462079,;IQCF3,downstream_gene_variant,,ENST00000472485,;IQCF3,downstream_gene_variant,,ENST00000474242,;IQCF3,downstream_gene_variant,,ENST00000465028,;	A	ENSG00000229972	ENST00000456080	Transcript	synonymous_variant	1585	420	140	I	atC/atA	rs371503129	.	.	1	IQCF3	HGNC	31816	protein_coding	YES	CCDS46837.1	ENSP00000415609	IQCF3_HUMAN	B2RUV0_HUMAN	UPI000015EE9E	.	.	.	8/8	.	hmmpanther:PTHR21633:SF5,hmmpanther:PTHR21633	.	.	.	.	.	.	.	A:0.0005	A:0	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCAATCCCTTC	byFrequency|byCluster	2	BLCA
FAM19A1	0	.	GRCh37	3	68593678	68593678	+	3'UTR	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*24G>A	.	.	ENST00000478136	5/5	15	10	5	19	19	0	FAM19A1,3_prime_UTR_variant,,ENST00000496687,;FAM19A1,3_prime_UTR_variant,,ENST00000478136,;	A	ENSG00000183662	ENST00000478136	Transcript	3_prime_UTR_variant	916	.	.	.	.	.	.	.	1	FAM19A1	HGNC	21587	protein_coding	YES	CCDS54606.1	ENSP00000418575	F19A1_HUMAN	.	UPI00001B3DB2	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TAAAGGAAAAC	.	2	BLCA
PPP3CA	0	.	GRCh37	4	102015057	102015057	+	Missense_Mutation	SNP	C	C	G	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.658G>C	p.Glu220Gln	p.E220Q	ENST00000394854	6/14	52	46	5	65	65	0	PPP3CA,missense_variant,p.Glu122Gln,ENST00000507176,;PPP3CA,missense_variant,p.Glu220Gln,ENST00000394853,;PPP3CA,missense_variant,p.Glu220Gln,ENST00000323055,;PPP3CA,missense_variant,p.Glu220Gln,ENST00000394854,;PPP3CA,missense_variant,p.Glu153Gln,ENST00000523694,;PPP3CA,intron_variant,,ENST00000512215,;PPP3CA,downstream_gene_variant,,ENST00000529324,;PPP3CA,downstream_gene_variant,,ENST00000525819,;PPP3CA,non_coding_transcript_exon_variant,,ENST00000510292,;PPP3CA,3_prime_UTR_variant,,ENST00000492351,;	G	ENSG00000138814	ENST00000394854	Transcript	missense_variant	1342	658	220	E/Q	Gaa/Caa	COSM1426117	.	.	-1	PPP3CA	HGNC	9314	protein_coding	YES	CCDS34037.1	ENSP00000378323	PP2BA_HUMAN	Q9UMM5_HUMAN,Q9UMB2_HUMAN,E9PPC8_HUMAN,E9PK68_HUMAN,E7ETC2_HUMAN	UPI0000110660	.	deleterious(0)	probably_damaging(0.951)	6/14	.	hmmpanther:PTHR11668,hmmpanther:PTHR11668:SF192,Gene3D:3.60.21.10,Pfam_domain:PF00149,SMART_domains:SM00156,Superfamily_domains:SSF56300,Prints_domain:PR00114	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGTTCTTTGA	.	4	BLCA
PET112	0	.	GRCh37	4	152594042	152594042	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1417G>C	p.Glu473Gln	p.E473Q	ENST00000263985	12/13	59	44	14	62	62	0	PET112,missense_variant,p.Glu473Gln,ENST00000263985,;PET112,missense_variant,p.Glu432Gln,ENST00000515812,;RP11-164P12.3,upstream_gene_variant,,ENST00000514269,;RP11-164P12.4,downstream_gene_variant,,ENST00000508664,;PET112,non_coding_transcript_exon_variant,,ENST00000507592,;PET112,non_coding_transcript_exon_variant,,ENST00000513504,;PET112,missense_variant,p.Leu111Phe,ENST00000510720,;PET112,3_prime_UTR_variant,,ENST00000503160,;PET112,non_coding_transcript_exon_variant,,ENST00000510396,;PET112,non_coding_transcript_exon_variant,,ENST00000515564,;	G	ENSG00000059691	ENST00000263985	Transcript	missense_variant	1458	1417	473	E/Q	Gag/Cag	.	.	.	-1	PET112	HGNC	8849	protein_coding	YES	CCDS3776.1	ENSP00000263985	GATB_HUMAN	.	UPI000012B14C	.	tolerated(0.7)	benign(0.034)	12/13	.	HAMAP:MF_00121,hmmpanther:PTHR11659,hmmpanther:PTHR11659:SF0,Pfam_domain:PF02637,TIGRFAM_domain:TIGR00133,SMART_domains:SM00845,Superfamily_domains:SSF89095	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTCCTCAAACA	.	5	BLCA
SLBP	0	.	GRCh37	4	1701765	1701765	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.314G>A	p.Gly105Glu	p.G105E	ENST00000489418	4/8	60	51	9	84	83	1	SLBP,missense_variant,p.Gly105Glu,ENST00000489418,;SLBP,missense_variant,p.Gly60Glu,ENST00000483348,;SLBP,missense_variant,p.Gly66Glu,ENST00000429429,;SLBP,missense_variant,p.Gly113Glu,ENST00000480936,;SLBP,missense_variant,p.Gly70Glu,ENST00000488267,;SLBP,missense_variant,p.Gly112Glu,ENST00000318386,;	T	ENSG00000163950	ENST00000489418	Transcript	missense_variant	681	314	105	G/E	gGa/gAa	.	.	.	-1	SLBP	HGNC	10904	protein_coding	YES	CCDS3350.1	ENSP00000417686	SLBP_HUMAN	Q53XR2_HUMAN,B3KSC5_HUMAN	UPI0000135A0D	.	deleterious(0.02)	possibly_damaging(0.885)	4/8	.	Low_complexity_(Seg):seg,hmmpanther:PTHR17408,hmmpanther:PTHR17408:SF4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTCTTCCAAAG	.	5	BLCA
NEK1	0	.	GRCh37	4	170322822	170322822	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3564G>A	p.%3D	p.L1188L	ENST00000507142	33/36	175	161	14	207	207	0	NEK1,synonymous_variant,p.%3D,ENST00000510533,;NEK1,synonymous_variant,p.%3D,ENST00000511633,;NEK1,synonymous_variant,p.%3D,ENST00000439128,;NEK1,synonymous_variant,p.%3D,ENST00000512193,;NEK1,synonymous_variant,p.%3D,ENST00000507142,;	T	ENSG00000137601	ENST00000507142	Transcript	synonymous_variant	4144	3564	1188	L	ctG/ctA	.	.	.	-1	NEK1	HGNC	7744	protein_coding	YES	CCDS56351.1	ENSP00000424757	NEK1_HUMAN	Q5JXL9_HUMAN	UPI00001D76CA	.	.	.	33/36	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	MUTECT|MUSE|VARSCANS	TCGTTCAGGGC	.	3	BLCA
WDR17	0	.	GRCh37	4	177052851	177052851	+	Missense_Mutation	SNP	G	G	A	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1132G>A	p.Asp378Asn	p.D378N	ENST00000280190	8/31	167	106	61	193	193	0	WDR17,missense_variant,p.Asp361Asn,ENST00000507824,;WDR17,missense_variant,p.Asp127Asn,ENST00000505894,;WDR17,missense_variant,p.Asp378Asn,ENST00000280190,;WDR17,missense_variant,p.Asp354Asn,ENST00000508596,;WDR17,missense_variant,p.Asp354Asn,ENST00000393643,;	A	ENSG00000150627	ENST00000280190	Transcript	missense_variant	1288	1132	378	D/N	Gat/Aat	COSM3940814,COSM733050	.	.	1	WDR17	HGNC	16661	protein_coding	YES	CCDS3825.1	ENSP00000280190	WDR17_HUMAN	Q0QD35_HUMAN,E7EP77_HUMAN	UPI000019C575	.	tolerated(0.32)	benign(0.443)	8/31	.	hmmpanther:PTHR22847,hmmpanther:PTHR22847:SF344,Gene3D:2.130.10.10	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTATGATATG	.	5	BLCA
TENM3	0	.	GRCh37	4	183713924	183713924	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.6099G>C	p.%3D	p.V2033V	ENST00000511685	26/28	98	87	10	130	130	0	TENM3,synonymous_variant,p.%3D,ENST00000511685,;TENM3,synonymous_variant,p.%3D,ENST00000406950,;	C	ENSG00000218336	ENST00000511685	Transcript	synonymous_variant	6222	6099	2033	V	gtG/gtC	.	.	.	1	TENM3	HGNC	29944	protein_coding	YES	CCDS47165.1	ENSP00000424226	TEN3_HUMAN	G3CAS9_HUMAN,D6RGC5_HUMAN	UPI00006C0820	.	.	.	26/28	.	hmmpanther:PTHR11219,hmmpanther:PTHR11219:SF10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GGTGTGATCAA	.	4	BLCA
FAT1	0	.	GRCh37	4	187539602	187539602	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.8138C>T	p.Ser2713Leu	p.S2713L	ENST00000441802	10/27	119	81	38	148	148	0	FAT1,missense_variant,p.Ser2713Leu,ENST00000441802,;	A	ENSG00000083857	ENST00000441802	Transcript	missense_variant	8348	8138	2713	S/L	tCa/tTa	.	.	.	-1	FAT1	HGNC	3595	protein_coding	YES	CCDS47177.1	ENSP00000406229	FAT1_HUMAN	D6RCE4_HUMAN	UPI000051946B	.	.	benign(0.426)	10/27	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCTCTGACACT	.	5	BLCA
TBC1D19	0	.	GRCh37	4	26640420	26640420	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.397C>G	p.Leu133Val	p.L133V	ENST00000264866	6/21	47	42	5	47	47	0	TBC1D19,missense_variant,p.Leu101Val,ENST00000513596,;TBC1D19,missense_variant,p.Leu133Val,ENST00000264866,;TBC1D19,missense_variant,p.Leu68Val,ENST00000505206,;TBC1D19,missense_variant,p.Leu68Val,ENST00000511789,;TBC1D19,missense_variant,p.Leu102Val,ENST00000512840,;AC093807.1,upstream_gene_variant,,ENST00000580172,;TBC1D19,non_coding_transcript_exon_variant,,ENST00000515568,;TBC1D19,non_coding_transcript_exon_variant,,ENST00000504442,;TBC1D19,non_coding_transcript_exon_variant,,ENST00000502873,;	G	ENSG00000109680	ENST00000264866	Transcript	missense_variant	675	397	133	L/V	Ctt/Gtt	.	.	.	1	TBC1D19	HGNC	25624	protein_coding	YES	CCDS3439.1	ENSP00000264866	TBC19_HUMAN	.	UPI000004A0E3	.	tolerated(0.21)	benign(0.015)	6/21	.	hmmpanther:PTHR16110	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AACTTCTTAAT	.	3	BLCA
ATP8A1	0	.	GRCh37	4	42416668	42416668	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3373G>C	p.Glu1125Gln	p.E1125Q	ENST00000381668	36/37	52	42	9	83	83	0	ATP8A1,missense_variant,p.Glu1125Gln,ENST00000381668,;ATP8A1,missense_variant,p.Glu1110Gln,ENST00000264449,;ATP8A1,3_prime_UTR_variant,,ENST00000514372,;ATP8A1,non_coding_transcript_exon_variant,,ENST00000511858,;	G	ENSG00000124406	ENST00000381668	Transcript	missense_variant	3605	3373	1125	E/Q	Gaa/Caa	.	.	.	-1	ATP8A1	HGNC	13531	protein_coding	YES	CCDS3466.1	ENSP00000371084	AT8A1_HUMAN	H0YAJ4_HUMAN	UPI0000125063	.	tolerated(0.97)	benign(0.084)	36/37	.	hmmpanther:PTHR24092,hmmpanther:PTHR24092:SF56	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GGATTCAGAGC	.	5	BLCA
TMPRSS11D	0	.	GRCh37	4	68687977	68687977	+	3'UTR	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*78G>A	.	.	ENST00000283916	10/10	106	80	26	117	117	0	TMPRSS11D,3_prime_UTR_variant,,ENST00000545541,;TMPRSS11D,3_prime_UTR_variant,,ENST00000283916,;TMPRSS11D,downstream_gene_variant,,ENST00000514868,;UBA6-AS1,intron_variant,,ENST00000500538,;TMPRSS11D,non_coding_transcript_exon_variant,,ENST00000505533,;	T	ENSG00000153802	ENST00000283916	Transcript	3_prime_UTR_variant	1434	.	.	.	.	.	.	.	-1	TMPRSS11D	HGNC	24059	protein_coding	YES	CCDS3518.1	ENSP00000283916	TM11D_HUMAN	Q4W5K4_HUMAN,B4DL57_HUMAN	UPI000003FE66	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTTTTCAGTTG	.	5	BLCA
AMTN	0	.	GRCh37	4	71396939	71396939	+	Missense_Mutation	SNP	G	G	A	rs185210496	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.541G>A	p.Asp181Asn	p.D181N	ENST00000339336	8/9	24	21	3	36	36	0	AMTN,missense_variant,p.Asp180Asn,ENST00000504451,;AMTN,missense_variant,p.Asp181Asn,ENST00000339336,;	A	ENSG00000187689	ENST00000339336	Transcript	missense_variant	671	541	181	D/N	Gac/Aac	rs185210496	.	.	1	AMTN	HGNC	33188	protein_coding	YES	CCDS3542.1	ENSP00000341013	AMTN_HUMAN	F1T0L8_HUMAN	UPI00000389F3	.	tolerated_low_confidence(0.17)	benign(0.376)	8/9	.	.	A:0.0002	A:0	A:0	.	A:0.001	A:0	A:0	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ATGACGACTTT	byCluster|by1000G	4	BLCA
TMEM150C	0	.	GRCh37	4	83417331	83417331	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.253C>G	p.Leu85Val	p.L85V	ENST00000515780	6/8	77	59	17	43	43	0	TMEM150C,missense_variant,p.Leu85Val,ENST00000449862,;TMEM150C,missense_variant,p.Leu85Val,ENST00000508701,;TMEM150C,missense_variant,p.Leu85Val,ENST00000515780,;RP11-791G16.2,non_coding_transcript_exon_variant,,ENST00000488045,;RPL7AP26,upstream_gene_variant,,ENST00000488538,;RP11-791G16.2,upstream_gene_variant,,ENST00000471756,;	C	ENSG00000249242	ENST00000515780	Transcript	missense_variant	458	253	85	L/V	Ctg/Gtg	.	.	.	-1	TMEM150C	HGNC	37263	protein_coding	YES	CCDS47087.1	ENSP00000420919	T150C_HUMAN	D6RDW6_HUMAN	UPI000020B0D7	.	deleterious(0.02)	possibly_damaging(0.86)	6/8	.	Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,hmmpanther:PTHR21324:SF7,hmmpanther:PTHR21324,Pfam_domain:PF10277	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCAGAACAG	.	5	BLCA
HERC3	0	.	GRCh37	4	89589073	89589073	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1474C>T	p.Pro492Ser	p.P492S	ENST00000402738	14/26	126	117	9	126	126	0	HERC3,missense_variant,p.Pro492Ser,ENST00000402738,;HERC3,missense_variant,p.Pro492Ser,ENST00000264345,;HERC3,intron_variant,,ENST00000543130,;HERC3,upstream_gene_variant,,ENST00000512194,;HERC3,non_coding_transcript_exon_variant,,ENST00000504994,;HERC3,intron_variant,,ENST00000470815,;	T	ENSG00000138641	ENST00000402738	Transcript	missense_variant	1713	1474	492	P/S	Ccc/Tcc	.	.	.	1	HERC3	HGNC	4876	protein_coding	YES	CCDS34028.1	ENSP00000385684	HERC3_HUMAN	Q4W5H5_HUMAN,F5GWU0_HUMAN,D6RAT5_HUMAN,C9JKA7_HUMAN,C9JFL2_HUMAN,C9J8E7_HUMAN,C9J6Z1_HUMAN,B4DK41_HUMAN	UPI000012C614	.	deleterious(0.03)	probably_damaging(0.998)	14/26	.	hmmpanther:PTHR11254:SF285,hmmpanther:PTHR11254	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TGATTCCCCAG	.	2	BLCA
FAM13B	0	.	GRCh37	5	137278830	137278830	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2350G>C	p.Glu784Gln	p.E784Q	ENST00000033079	20/23	50	44	6	63	63	0	FAM13B,missense_variant,p.Glu756Gln,ENST00000420893,;FAM13B,missense_variant,p.Glu784Gln,ENST00000033079,;FAM13B,missense_variant,p.Glu660Gln,ENST00000425075,;PKD2L2,downstream_gene_variant,,ENST00000508883,;PKD2L2,downstream_gene_variant,,ENST00000290431,;PKD2L2,downstream_gene_variant,,ENST00000502810,;PKD2L2,downstream_gene_variant,,ENST00000508638,;FAM13B,downstream_gene_variant,,ENST00000513640,;	G	ENSG00000031003	ENST00000033079	Transcript	missense_variant	2802	2350	784	E/Q	Gaa/Caa	.	.	.	-1	FAM13B	HGNC	1335	protein_coding	YES	CCDS4195.1	ENSP00000033079	FA13B_HUMAN	D6RE97_HUMAN,D6RDL7_HUMAN,D6RCA0_HUMAN,D6RBJ3_HUMAN,D6RAT6_HUMAN	UPI000004A03C	.	deleterious(0.01)	probably_damaging(0.998)	20/23	.	Low_complexity_(Seg):seg,hmmpanther:PTHR15904:SF16,hmmpanther:PTHR15904	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GATTTCTTCAA	.	4	BLCA
KDM3B	0	.	GRCh37	5	137756483	137756483	+	Silent	SNP	G	G	A	rs751194137	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3804G>A	p.%3D	p.P1268P	ENST00000314358	15/24	74	64	10	76	76	0	KDM3B,synonymous_variant,p.%3D,ENST00000542866,;KDM3B,synonymous_variant,p.%3D,ENST00000394866,;KDM3B,synonymous_variant,p.%3D,ENST00000314358,;KDM3B,downstream_gene_variant,,ENST00000508386,;KDM3B,3_prime_UTR_variant,,ENST00000510866,;KDM3B,3_prime_UTR_variant,,ENST00000507996,;KDM3B,upstream_gene_variant,,ENST00000505756,;	A	ENSG00000120733	ENST00000314358	Transcript	synonymous_variant	4004	3804	1268	P	ccG/ccA	rs751194137	.	.	1	KDM3B	HGNC	1337	protein_coding	YES	CCDS34242.1	ENSP00000326563	KDM3B_HUMAN	F5H275_HUMAN	UPI000020C6A8	.	.	.	15/24	.	hmmpanther:PTHR12549,hmmpanther:PTHR12549:SF8	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TCTCCGCTGAC	.	4	BLCA
PSD2	0	.	GRCh37	5	139193840	139193840	+	Missense_Mutation	SNP	C	C	G	rs374296345	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.907C>G	p.Leu303Val	p.L303V	ENST00000274710	4/15	63	54	9	75	75	0	PSD2,missense_variant,p.Leu303Val,ENST00000274710,;	G	ENSG00000146005	ENST00000274710	Transcript	missense_variant	1112	907	303	L/V	Ctg/Gtg	rs374296345	.	.	1	PSD2	HGNC	19092	protein_coding	YES	CCDS4216.1	ENSP00000274710	PSD2_HUMAN	.	UPI0000073C6B	.	deleterious(0.04)	possibly_damaging(0.787)	4/15	.	PROSITE_profiles:PS50190,hmmpanther:PTHR10663,hmmpanther:PTHR10663:SF109,SMART_domains:SM00222	.	.	.	.	.	.	.	T:0.0002	T:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCTGGCC	byCluster	4	BLCA
PCDHGA2	0	.	GRCh37	5	140718984	140718984	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.446G>A	p.Gly149Glu	p.G149E	ENST00000394576	1/4	78	73	5	91	91	0	PCDHGA2,missense_variant,p.Gly149Glu,ENST00000394576,;PCDHGA1,intron_variant,,ENST00000517417,;PCDHGA3,upstream_gene_variant,,ENST00000253812,;PCDHGA2,non_coding_transcript_exon_variant,,ENST00000528330,;	A	ENSG00000081853	ENST00000394576	Transcript	missense_variant	446	446	149	G/E	gGa/gAa	.	.	.	1	PCDHGA2	HGNC	8700	protein_coding	YES	CCDS47289.1	ENSP00000378077	PCDG2_HUMAN	Q9UKW1_HUMAN,Q9BT64_HUMAN	UPI0000072E67	.	deleterious_low_confidence(0.01)	possibly_damaging(0.898)	1/4	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF109,Pfam_domain:PF00028,Gene3D:2.60.40.60,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCCAGGATTCC	.	2	BLCA
CSNK1A1	0	.	GRCh37	5	148929709	148929709	+	Frame_Shift_Del	DEL	C	C	-	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.159delG	p.Arg53SerfsTer36	p.R53Sfs*36	ENST00000515768	2/11	88	73	15	100	100	0	CSNK1A1,frameshift_variant,p.Arg53SerfsTer36,ENST00000377843,;CSNK1A1,frameshift_variant,p.Arg53SerfsTer33,ENST00000515748,;CSNK1A1,frameshift_variant,p.Arg53SerfsTer36,ENST00000515768,;CSNK1A1,frameshift_variant,p.Arg53SerfsTer36,ENST00000261798,;CSNK1A1,5_prime_UTR_variant,,ENST00000504676,;CSNK1A1,5_prime_UTR_variant,,ENST00000515435,;ARHGEF37,upstream_gene_variant,,ENST00000505810,;CSNK1A1,frameshift_variant,p.Arg53SerfsTer?,ENST00000523203,;RPL29P14,upstream_gene_variant,,ENST00000495837,;	-	ENSG00000113712	ENST00000515768	Transcript	frameshift_variant	159	159	53	R/X	agG/ag	.	.	.	-1	CSNK1A1	HGNC	2451	protein_coding	YES	CCDS47304.1	ENSP00000421689	KC1A_HUMAN	U3KQ83_HUMAN,U3KPX3_HUMAN,B4DER9_HUMAN	UPI000053FD0F	.	.	.	2/11	.	PROSITE_profiles:PS50011,hmmpanther:PTHR11909,hmmpanther:PTHR11909:SF84,Pfam_domain:PF00069,Gene3D:3.30.200.20,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	GGGATGCCTGGC	.	3	BLCA
PDGFRB	0	.	GRCh37	5	149497414	149497414	+	Splice_Site	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2905-1G>C	.	p.X969_splice	ENST00000261799	.	12	8	4	11	11	0	PDGFRB,splice_acceptor_variant,,ENST00000261799,;CSF1R,upstream_gene_variant,,ENST00000511344,;CSF1R,upstream_gene_variant,,ENST00000286301,;PDGFRB,upstream_gene_variant,,ENST00000520851,;PDGFRB,downstream_gene_variant,,ENST00000521723,;PDGFRB,downstream_gene_variant,,ENST00000519575,;PDGFRB,splice_acceptor_variant,,ENST00000520579,;	G	ENSG00000113721	ENST00000261799	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	-1	PDGFRB	HGNC	8804	protein_coding	YES	CCDS4303.1	ENSP00000261799	PGFRB_HUMAN	E5RJ14_HUMAN,E5RII0_HUMAN	UPI0000131791	.	.	.	.	21/22	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE	TACTTCTGCTC	.	3	BLCA
HAND1	0	.	GRCh37	5	153857471	153857471	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.98C>G	p.Ser33Trp	p.S33W	ENST00000231121	1/2	63	58	4	59	59	0	HAND1,missense_variant,p.Ser33Trp,ENST00000231121,;	C	ENSG00000113196	ENST00000231121	Transcript	missense_variant	354	98	33	S/W	tCg/tGg	.	.	.	-1	HAND1	HGNC	4807	protein_coding	YES	CCDS4327.1	ENSP00000231121	HAND1_HUMAN	.	UPI000012C083	.	deleterious(0)	possibly_damaging(0.761)	1/2	.	hmmpanther:PTHR23349,hmmpanther:PTHR23349:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGCGCGAGGCC	.	2	BLCA
CDHR2	0	.	GRCh37	5	176011562	176011562	+	Silent	SNP	G	G	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2280G>T	p.%3D	p.L760L	ENST00000510636	19/32	73	66	7	110	110	0	CDHR2,synonymous_variant,p.%3D,ENST00000261944,;CDHR2,synonymous_variant,p.%3D,ENST00000506348,;CDHR2,synonymous_variant,p.%3D,ENST00000510636,;CDHR2,upstream_gene_variant,,ENST00000513031,;CDHR2,upstream_gene_variant,,ENST00000508085,;	T	ENSG00000074276	ENST00000510636	Transcript	synonymous_variant	2554	2280	760	L	ctG/ctT	.	.	.	1	CDHR2	HGNC	18231	protein_coding	YES	CCDS34297.1	ENSP00000424565	CDHR2_HUMAN	.	UPI0000DBEE8C	.	.	.	19/32	.	PROSITE_profiles:PS50268,hmmpanther:PTHR24027,hmmpanther:PTHR24027:SF286,Pfam_domain:PF00028,Gene3D:2.60.40.60,SMART_domains:SM00112,Superfamily_domains:SSF49313	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	CGGCTGCCCCC	.	3	BLCA
UIMC1	0	.	GRCh37	5	176335533	176335533	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1839G>A	p.%3D	p.K613K	ENST00000377227	12/15	80	75	5	111	111	0	UIMC1,synonymous_variant,p.%3D,ENST00000377219,;UIMC1,synonymous_variant,p.%3D,ENST00000511320,;UIMC1,synonymous_variant,p.%3D,ENST00000506128,;UIMC1,synonymous_variant,p.%3D,ENST00000377227,;UIMC1,downstream_gene_variant,,ENST00000503273,;UIMC1,3_prime_UTR_variant,,ENST00000510698,;UIMC1,3_prime_UTR_variant,,ENST00000512031,;UIMC1,upstream_gene_variant,,ENST00000510376,;UIMC1,upstream_gene_variant,,ENST00000505229,;	T	ENSG00000087206	ENST00000377227	Transcript	synonymous_variant	1972	1839	613	K	aaG/aaA	.	.	.	-1	UIMC1	HGNC	30298	protein_coding	YES	CCDS4408.1	ENSP00000366434	UIMC1_HUMAN	D6RDZ5_HUMAN,D6RC40_HUMAN,D6R9M3_HUMAN	UPI00001A9954	.	.	.	12/15	.	hmmpanther:PTHR15932,hmmpanther:PTHR15932:SF2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GGGTTCTTCAG	.	2	BLCA
RICTOR	0	.	GRCh37	5	38982013	38982013	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.709C>T	p.His237Tyr	p.H237Y	ENST00000357387	8/38	132	100	32	175	175	0	RICTOR,missense_variant,p.His221Tyr,ENST00000514735,;RICTOR,missense_variant,p.His237Tyr,ENST00000357387,;RICTOR,missense_variant,p.His237Tyr,ENST00000296782,;RICTOR,missense_variant,p.His237Tyr,ENST00000511516,;RICTOR,non_coding_transcript_exon_variant,,ENST00000513566,;RICTOR,non_coding_transcript_exon_variant,,ENST00000510711,;	A	ENSG00000164327	ENST00000357387	Transcript	missense_variant	740	709	237	H/Y	Cat/Tat	.	.	.	-1	RICTOR	HGNC	28611	protein_coding	YES	CCDS34148.1	ENSP00000349959	RICTR_HUMAN	.	UPI00003529F3	.	deleterious(0)	probably_damaging(0.925)	8/38	.	Superfamily_domains:SSF48371,Pfam_domain:PF14664,hmmpanther:PTHR13298:SF11,hmmpanther:PTHR13298	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TGGATGATTAA	.	5	BLCA
RICTOR	0	.	GRCh37	5	38982074	38982074	+	Silent	SNP	G	G	A	rs370461335	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.648C>T	p.%3D	p.I216I	ENST00000357387	8/38	174	131	43	205	205	0	RICTOR,synonymous_variant,p.%3D,ENST00000514735,;RICTOR,synonymous_variant,p.%3D,ENST00000357387,;RICTOR,synonymous_variant,p.%3D,ENST00000296782,;RICTOR,synonymous_variant,p.%3D,ENST00000511516,;RICTOR,non_coding_transcript_exon_variant,,ENST00000513566,;RICTOR,non_coding_transcript_exon_variant,,ENST00000510711,;	A	ENSG00000164327	ENST00000357387	Transcript	synonymous_variant	679	648	216	I	atC/atT	rs370461335	.	.	-1	RICTOR	HGNC	28611	protein_coding	YES	CCDS34148.1	ENSP00000349959	RICTR_HUMAN	.	UPI00003529F3	.	.	.	8/38	.	Superfamily_domains:SSF48371,Pfam_domain:PF14664,hmmpanther:PTHR13298:SF11,hmmpanther:PTHR13298	.	.	.	.	.	.	.	A:0.0002	A:0.0001	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	CAATCGATCAC	byFrequency|byCluster	5	BLCA
IL6ST	0	.	GRCh37	5	55237584	55237584	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2083G>A	p.Glu695Lys	p.E695K	ENST00000381298	17/17	65	51	14	102	102	0	IL6ST,missense_variant,p.Glu695Lys,ENST00000336909,;IL6ST,missense_variant,p.Glu695Lys,ENST00000381298,;IL6ST,missense_variant,p.Glu634Lys,ENST00000381294,;IL6ST,missense_variant,p.Glu695Lys,ENST00000502326,;IL6ST,3_prime_UTR_variant,,ENST00000381287,;IL6ST,3_prime_UTR_variant,,ENST00000536319,;IL6ST,downstream_gene_variant,,ENST00000381293,;IL6ST,downstream_gene_variant,,ENST00000381286,;CTD-2031P19.5,downstream_gene_variant,,ENST00000576302,;IL6ST,3_prime_UTR_variant,,ENST00000503773,;IL6ST,non_coding_transcript_exon_variant,,ENST00000583149,;IL6ST,non_coding_transcript_exon_variant,,ENST00000523039,;CTD-2031P19.4,upstream_gene_variant,,ENST00000582508,;CTD-2031P19.4,upstream_gene_variant,,ENST00000597044,;	T	ENSG00000134352	ENST00000381298	Transcript	missense_variant	2396	2083	695	E/K	Gaa/Aaa	COSM1486832	.	.	-1	IL6ST	HGNC	6021	protein_coding	YES	CCDS3971.1	ENSP00000370698	IL6RB_HUMAN	.	UPI000013CF29	.	deleterious(0.04)	possibly_damaging(0.742)	17/17	.	hmmpanther:PTHR23036:SF25,hmmpanther:PTHR23036	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TATTTCCACAA	.	5	BLCA
CMYA5	0	.	GRCh37	5	79030481	79030481	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5893C>T	p.Leu1965Phe	p.L1965F	ENST00000446378	2/13	51	47	4	63	63	0	CMYA5,missense_variant,p.Leu1965Phe,ENST00000446378,;CMYA5,upstream_gene_variant,,ENST00000506603,;	T	ENSG00000164309	ENST00000446378	Transcript	missense_variant	5924	5893	1965	L/F	Ctt/Ttt	.	.	.	1	CMYA5	HGNC	14305	protein_coding	YES	CCDS47238.1	ENSP00000394770	CMYA5_HUMAN	.	UPI00004F9478	.	.	possibly_damaging(0.5)	2/13	.	hmmpanther:PTHR24099,hmmpanther:PTHR24099:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGCTCTTGAT	.	2	BLCA
PREP	0	.	GRCh37	6	105821265	105821265	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.574C>T	p.Gln192Ter	p.Q192*	ENST00000369110	5/15	68	57	10	124	124	0	PREP,stop_gained,p.Gln192Ter,ENST00000369110,;	A	ENSG00000085377	ENST00000369110	Transcript	stop_gained	767	574	192	Q/*	Caa/Taa	.	.	.	-1	PREP	HGNC	9358	protein_coding	YES	CCDS5053.1	ENSP00000358106	PPCE_HUMAN	.	UPI000006E28E	.	.	.	5/15	.	hmmpanther:PTHR11757:SF2,hmmpanther:PTHR11757,Gene3D:2xdwA02,Pfam_domain:PF02897,Superfamily_domains:SSF50993	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGTTGAGGGT	.	5	BLCA
FAM184A	0	.	GRCh37	6	119338031	119338031	+	Nonsense_Mutation	SNP	C	C	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1411G>T	p.Glu471Ter	p.E471*	ENST00000338891	5/18	57	53	4	81	81	0	FAM184A,stop_gained,p.Glu57Ter,ENST00000448815,;FAM184A,stop_gained,p.Glu351Ter,ENST00000368475,;FAM184A,stop_gained,p.Glu351Ter,ENST00000352896,;FAM184A,stop_gained,p.Glu471Ter,ENST00000338891,;FAM184A,stop_gained,p.Glu351Ter,ENST00000522284,;FAM184A,stop_gained,p.Glu471Ter,ENST00000521531,;RP11-351A11.1,intron_variant,,ENST00000518570,;	A	ENSG00000111879	ENST00000338891	Transcript	stop_gained	1855	1411	471	E/*	Gag/Tag	.	.	.	-1	FAM184A	HGNC	20991	protein_coding	YES	CCDS43499.1	ENSP00000342604	F184A_HUMAN	.	UPI0000470B36	.	.	.	5/18	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18870,hmmpanther:PTHR18870:SF7	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CACCTCCTCTT	.	2	BLCA
LAMA2	0	.	GRCh37	6	129618905	129618905	+	Missense_Mutation	SNP	G	G	C	rs202050052	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2932G>C	p.Asp978His	p.D978H	ENST00000421865	21/65	44	41	3	46	46	0	LAMA2,missense_variant,p.Asp978His,ENST00000421865,;	C	ENSG00000196569	ENST00000421865	Transcript	missense_variant	2981	2932	978	D/H	Gac/Cac	rs202050052	.	.	1	LAMA2	HGNC	6482	protein_coding	YES	CCDS5138.1	ENSP00000400365	LAMA2_HUMAN	Q59H37_HUMAN	UPI00003673E0	.	deleterious(0.01)	probably_damaging(1)	21/65	.	PROSITE_profiles:PS50027,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF106,Gene3D:2.10.25.10,Pfam_domain:PF00053,SMART_domains:SM00180,Superfamily_domains:SSF57196	A:0.0002	A:0	A:0	.	A:0	A:0.001	A:0	A:0.0002	A:0	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CATTCGACTGT	byCluster|by1000G	2	BLCA
L3MBTL3	0	.	GRCh37	6	130460877	130460877	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2322G>A	p.%3D	p.K774K	ENST00000529410	25/25	32	22	10	41	41	0	L3MBTL3,synonymous_variant,p.%3D,ENST00000533560,;L3MBTL3,synonymous_variant,p.%3D,ENST00000529410,;L3MBTL3,synonymous_variant,p.%3D,ENST00000361794,;L3MBTL3,synonymous_variant,p.%3D,ENST00000368139,;L3MBTL3,synonymous_variant,p.%3D,ENST00000526019,;L3MBTL3,synonymous_variant,p.%3D,ENST00000368136,;SAMD3,downstream_gene_variant,,ENST00000463253,;SAMD3,downstream_gene_variant,,ENST00000457563,;SAMD3,downstream_gene_variant,,ENST00000437477,;SAMD3,downstream_gene_variant,,ENST00000368134,;SAMD3,downstream_gene_variant,,ENST00000439090,;RP11-73O6.3,intron_variant,,ENST00000415964,;RP11-73O6.3,intron_variant,,ENST00000609978,;RP11-73O6.3,upstream_gene_variant,,ENST00000591297,;	A	ENSG00000198945	ENST00000529410	Transcript	synonymous_variant	2801	2322	774	K	aaG/aaA	.	.	.	1	L3MBTL3	HGNC	23035	protein_coding	YES	CCDS34537.1	ENSP00000431962	LMBL3_HUMAN	E9PLL7_HUMAN	UPI00001C1E3E	.	.	.	25/25	.	Gene3D:1.10.150.50,hmmpanther:PTHR12247:SF72,hmmpanther:PTHR12247	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GAGAAGAATTC	.	5	BLCA
SASH1	0	.	GRCh37	6	148852690	148852690	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1457C>G	p.Ser486Cys	p.S486C	ENST00000367467	13/20	57	49	8	70	70	0	SASH1,missense_variant,p.Ser486Cys,ENST00000367467,;	G	ENSG00000111961	ENST00000367467	Transcript	missense_variant	1932	1457	486	S/C	tCc/tGc	.	.	.	1	SASH1	HGNC	19182	protein_coding	YES	CCDS5212.1	ENSP00000356437	SASH1_HUMAN	.	UPI00003519AE	.	tolerated(0.11)	benign(0.134)	13/20	.	Low_complexity_(Seg):seg,hmmpanther:PTHR12301:SF3,hmmpanther:PTHR12301,Pfam_domain:PF12485	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTCCCCTC	.	4	BLCA
GABBR1	0	.	GRCh37	6	29572649	29572649	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2556C>G	p.%3D	p.L852L	ENST00000377034	21/23	28	19	8	38	38	0	GABBR1,synonymous_variant,p.%3D,ENST00000377016,;GABBR1,synonymous_variant,p.%3D,ENST00000355973,;GABBR1,synonymous_variant,p.%3D,ENST00000377012,;GABBR1,synonymous_variant,p.%3D,ENST00000377034,;GABBR1,3_prime_UTR_variant,,ENST00000376977,;GABBR1,3_prime_UTR_variant,,ENST00000472823,;GABBR1,3_prime_UTR_variant,,ENST00000491829,;GABBR1,non_coding_transcript_exon_variant,,ENST00000478931,;GABBR1,downstream_gene_variant,,ENST00000489839,;GABBR1,downstream_gene_variant,,ENST00000494877,;GABBR1,downstream_gene_variant,,ENST00000488334,;GABBR1,downstream_gene_variant,,ENST00000486434,;GABBR1,downstream_gene_variant,,ENST00000473774,;	C	ENSG00000204681	ENST00000377034	Transcript	synonymous_variant	2892	2556	852	L	ctC/ctG	.	.	.	-1	GABBR1	HGNC	4070	protein_coding	YES	CCDS4663.1	ENSP00000366233	GABR1_HUMAN	F8WAV2_HUMAN,F8WAS6_HUMAN,C9JZG6_HUMAN	UPI000004618A	.	.	.	21/23	.	Transmembrane_helices:TMhelix,PROSITE_profiles:PS50259,hmmpanther:PTHR10519:SF3,hmmpanther:PTHR10519,Pfam_domain:PF00003,Prints_domain:PR01176,Prints_domain:PR01177	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAAAGAGCAC	.	5	BLCA
PPP1R10	0	.	GRCh37	6	30573926	30573926	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.729C>G	p.%3D	p.L243L	ENST00000376511	9/20	78	61	16	99	99	0	PPP1R10,synonymous_variant,p.%3D,ENST00000376511,;PPP1R10,downstream_gene_variant,,ENST00000484449,;PPP1R10,non_coding_transcript_exon_variant,,ENST00000468181,;PPP1R10,non_coding_transcript_exon_variant,,ENST00000461593,;PPP1R10,upstream_gene_variant,,ENST00000496955,;PPP1R10,upstream_gene_variant,,ENST00000476704,;	C	ENSG00000204569	ENST00000376511	Transcript	synonymous_variant	1282	729	243	L	ctC/ctG	.	.	.	-1	PPP1R10	HGNC	9284	protein_coding	YES	CCDS4681.1	ENSP00000365694	PP1RA_HUMAN	Q2L6I0_HUMAN	UPI000000D73C	.	.	.	9/20	.	hmmpanther:PTHR12506	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CGTTTGAGGGG	.	5	BLCA
DHX16	0	.	GRCh37	6	30632589	30632589	+	Missense_Mutation	SNP	G	G	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1306C>A	p.Leu436Ile	p.L436I	ENST00000376442	7/20	33	28	5	39	39	0	DHX16,missense_variant,p.Leu436Ile,ENST00000376442,;DHX16,upstream_gene_variant,,ENST00000376437,;DHX16,downstream_gene_variant,,ENST00000415603,;DHX16,upstream_gene_variant,,ENST00000480966,;	T	ENSG00000204560	ENST00000376442	Transcript	missense_variant	1502	1306	436	L/I	Ctc/Atc	.	.	.	-1	DHX16	HGNC	2739	protein_coding	YES	CCDS4685.1	ENSP00000365625	DHX16_HUMAN	Q5SQH4_HUMAN	UPI000000D73D	.	deleterious(0)	unknown(0)	7/20	.	Superfamily_domains:SSF52540,SMART_domains:SM00487,Pfam_domain:PF00270,Gene3D:3.40.50.300,hmmpanther:PTHR18934:SF83,hmmpanther:PTHR18934,PROSITE_profiles:PS51192	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AAAGAGATACT	.	2	BLCA
PSMB9	0	.	GRCh37	6	32827179	32827180	+	Intron	INS	-	-	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.533-2dupA	.	.	ENST00000374859	.	166	148	17	250	250	0	PSMB9,splice_region_variant,,ENST00000395330,;PSMB9,splice_region_variant,,ENST00000374859,;PSMB9,downstream_gene_variant,,ENST00000453265,;PSMB9,downstream_gene_variant,,ENST00000414474,;PSMB9,downstream_gene_variant,,ENST00000467593,;PSMB9,downstream_gene_variant,,ENST00000464863,;	A	ENSG00000240065	ENST00000374859	Transcript	splice_region_variant	.	.	.	.	.	.	.	.	1	PSMB9	HGNC	9546	protein_coding	YES	CCDS4759.1	ENSP00000363993	PSB9_HUMAN	A2ACR1_HUMAN,A2ACR0_HUMAN	UPI00001325CD	.	.	.	.	5/5	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	insertion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	CTCTGCAGCTA	.	2	BLCA
MAPK14	0	.	GRCh37	6	36041852	36041852	+	Silent	SNP	G	G	C	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.474G>C	p.%3D	p.V158V	ENST00000229795	6/12	64	60	4	88	88	0	MAPK14,synonymous_variant,p.%3D,ENST00000229794,;MAPK14,synonymous_variant,p.%3D,ENST00000310795,;MAPK14,synonymous_variant,p.%3D,ENST00000468133,;MAPK14,synonymous_variant,p.%3D,ENST00000229795,;MAPK14,synonymous_variant,p.%3D,ENST00000472333,;MAPK14,synonymous_variant,p.%3D,ENST00000491957,;MAPK14,3_prime_UTR_variant,,ENST00000474429,;MAPK14,non_coding_transcript_exon_variant,,ENST00000496250,;MAPK14,upstream_gene_variant,,ENST00000490379,;	C	ENSG00000112062	ENST00000229795	Transcript	synonymous_variant	921	474	158	V	gtG/gtC	COSM376858	.	.	1	MAPK14	HGNC	6876	protein_coding	YES	CCDS4815.1	ENSP00000229795	MK14_HUMAN	L7RSM2_HUMAN,E7EX54_HUMAN	UPI000002AE13	.	.	.	6/12	.	PROSITE_profiles:PS50011,hmmpanther:PTHR24055,hmmpanther:PTHR24055:SF110,PROSITE_patterns:PS01351,Gene3D:1.10.510.10,Pfam_domain:PF00069,SMART_domains:SM00220,Superfamily_domains:SSF56112	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	LOW	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	GCTGTGAATGA	.	2	BLCA
CPNE5	0	.	GRCh37	6	36759830	36759830	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.508G>A	p.Glu170Lys	p.E170K	ENST00000244751	8/21	42	38	3	69	69	0	CPNE5,missense_variant,p.Glu170Lys,ENST00000244751,;	T	ENSG00000124772	ENST00000244751	Transcript	missense_variant	1133	508	170	E/K	Gag/Aag	.	.	.	-1	CPNE5	HGNC	2318	protein_coding	YES	CCDS4825.1	ENSP00000244751	CPNE5_HUMAN	Q7Z6C8_HUMAN,Q658T3_HUMAN	UPI0000127C15	.	deleterious(0)	possibly_damaging(0.563)	8/21	.	Superfamily_domains:SSF49562,SMART_domains:SM00239,Gene3D:2.60.40.150,hmmpanther:PTHR10857,hmmpanther:PTHR10857:SF8,PROSITE_profiles:PS50004	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCCTCAGCGG	.	2	BLCA
GTPBP2	0	.	GRCh37	6	43592647	43592647	+	Silent	SNP	G	G	A	rs139289282	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.858C>T	p.%3D	p.L286L	ENST00000307126	6/12	165	152	13	70	70	0	GTPBP2,synonymous_variant,p.%3D,ENST00000307114,;GTPBP2,synonymous_variant,p.%3D,ENST00000307126,;GTPBP2,synonymous_variant,p.%3D,ENST00000442748,;MAD2L1BP,upstream_gene_variant,,ENST00000451025,;GTPBP2,downstream_gene_variant,,ENST00000452781,;GTPBP2,upstream_gene_variant,,ENST00000419497,;GTPBP2,upstream_gene_variant,,ENST00000432918,;GTPBP2,non_coding_transcript_exon_variant,,ENST00000480263,;GTPBP2,non_coding_transcript_exon_variant,,ENST00000476510,;GTPBP2,upstream_gene_variant,,ENST00000459959,;GTPBP2,upstream_gene_variant,,ENST00000496137,;	A	ENSG00000172432	ENST00000307126	Transcript	synonymous_variant	858	858	286	L	ctC/ctT	rs139289282,COSM1079659	.	.	-1	GTPBP2	HGNC	4670	protein_coding	YES	CCDS4903.1	ENSP00000303997	GTPB2_HUMAN	.	UPI0000070C45	.	.	.	6/12	.	hmmpanther:PTHR23115:SF24,hmmpanther:PTHR23115,Gene3D:3.40.50.300,Pfam_domain:PF00009,Superfamily_domains:SSF52540	A:0.0004	A:0.0008	A:0.0014	.	A:0	A:0	A:0	A:0.0007	A:0	.	0,1	.	.	.	.	.	LOW	.	SNV	.	.	0,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTGACGAGGAG	byFrequency|byCluster|by1000G	2	BLCA
ZNF451	0	.	GRCh37	6	57017102	57017102	+	Missense_Mutation	SNP	C	C	T	rs376330274	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2836C>T	p.Arg946Cys	p.R946C	ENST00000370706	12/15	85	70	14	107	107	0	ZNF451,missense_variant,p.Arg898Cys,ENST00000357489,;ZNF451,missense_variant,p.Arg946Cys,ENST00000370706,;ZNF451,missense_variant,p.Arg946Cys,ENST00000491832,;RP11-203B9.4,intron_variant,,ENST00000416069,;RP11-203B9.4,intron_variant,,ENST00000587815,;RP11-203B9.4,intron_variant,,ENST00000586432,;RP11-203B9.4,intron_variant,,ENST00000586053,;RP11-203B9.4,intron_variant,,ENST00000588811,;RP11-203B9.4,intron_variant,,ENST00000591553,;RP11-203B9.4,intron_variant,,ENST00000585792,;RP11-203B9.4,intron_variant,,ENST00000589263,;RP11-203B9.4,intron_variant,,ENST00000592038,;RP11-203B9.4,intron_variant,,ENST00000592500,;RP11-203B9.4,intron_variant,,ENST00000586466,;RP11-203B9.4,intron_variant,,ENST00000586668,;RP11-203B9.4,intron_variant,,ENST00000589549,;ZNF451,non_coding_transcript_exon_variant,,ENST00000508548,;ZNF451,intron_variant,,ENST00000504603,;ZNF451,downstream_gene_variant,,ENST00000444273,;	T	ENSG00000112200	ENST00000370706	Transcript	missense_variant	3080	2836	946	R/C	Cgc/Tgc	rs376330274	.	.	1	ZNF451	HGNC	21091	protein_coding	YES	CCDS43477.1	ENSP00000359740	ZN451_HUMAN	Q96JY2_HUMAN,D6RAV4_HUMAN	UPI000004A571	.	deleterious(0)	probably_damaging(0.998)	12/15	.	hmmpanther:PTHR11389,hmmpanther:PTHR11389:SF436	.	.	.	.	.	.	.	T:0	T:0.0001	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCTCGCTGT	byFrequency|byCluster	5	BLCA
DSP	0	.	GRCh37	6	7566637	7566637	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.967G>C	p.Glu323Gln	p.E323Q	ENST00000379802	8/24	43	36	7	67	67	0	DSP,missense_variant,p.Glu323Gln,ENST00000379802,;DSP,missense_variant,p.Glu323Gln,ENST00000418664,;DSP,downstream_gene_variant,,ENST00000506617,;	C	ENSG00000096696	ENST00000379802	Transcript	missense_variant	1308	967	323	E/Q	Gaa/Caa	.	.	.	1	DSP	HGNC	3052	protein_coding	YES	CCDS4501.1	ENSP00000369129	DESP_HUMAN	G1UI31_HUMAN,B4DKX6_HUMAN	UPI000013C67F	.	.	probably_damaging(0.987)	8/24	.	Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,SMART_domains:SM00150,hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	TTAAAGAAAAA	.	5	BLCA
KIAA1009	0	.	GRCh37	6	84859386	84859386	+	Silent	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3666C>G	p.%3D	p.L1222L	ENST00000403245	24/27	49	42	7	95	95	0	KIAA1009,synonymous_variant,p.%3D,ENST00000403245,;KIAA1009,synonymous_variant,p.%3D,ENST00000257766,;KIAA1009,non_coding_transcript_exon_variant,,ENST00000461137,;KIAA1009,non_coding_transcript_exon_variant,,ENST00000487999,;	C	ENSG00000135315	ENST00000403245	Transcript	synonymous_variant	3781	3666	1222	L	ctC/ctG	.	.	.	-1	KIAA1009	HGNC	21107	protein_coding	YES	CCDS34494.2	ENSP00000385215	CE162_HUMAN	B3KN48_HUMAN	UPI0001533DAA	.	.	.	24/27	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GCTTTGAGGGA	.	4	BLCA
LRWD1	0	.	GRCh37	7	102113165	102113165	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1717G>A	p.Glu573Lys	p.E573K	ENST00000292616	14/15	39	34	4	28	28	0	LRWD1,missense_variant,p.Glu159Lys,ENST00000468175,;LRWD1,missense_variant,p.Glu573Lys,ENST00000292616,;POLR2J,downstream_gene_variant,,ENST00000393794,;POLR2J,downstream_gene_variant,,ENST00000292614,;MIR4467,downstream_gene_variant,,ENST00000578629,;LRWD1,non_coding_transcript_exon_variant,,ENST00000473880,;LRWD1,downstream_gene_variant,,ENST00000485808,;LRWD1,downstream_gene_variant,,ENST00000485417,;LRWD1,downstream_gene_variant,,ENST00000463739,;	A	ENSG00000161036	ENST00000292616	Transcript	missense_variant	1869	1717	573	E/K	Gag/Aag	.	.	.	1	LRWD1	HGNC	21769	protein_coding	YES	CCDS34715.1	ENSP00000292616	LRWD1_HUMAN	.	UPI0000071D2E	.	deleterious(0)	probably_damaging(0.997)	14/15	.	hmmpanther:PTHR24370:SF10,hmmpanther:PTHR24370,Gene3D:2.130.10.10,SMART_domains:SM00320,Superfamily_domains:SSF50978	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	GGGATGAGGAG	.	3	BLCA
IRF5	0	.	GRCh37	7	128582146	128582146	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11C>T	p.Ser4Phe	p.S4F	ENST00000357234	2/9	62	57	4	64	64	0	IRF5,missense_variant,p.Ser4Phe,ENST00000489702,;IRF5,missense_variant,p.Ser4Phe,ENST00000249375,;IRF5,missense_variant,p.Ser4Phe,ENST00000479582,;IRF5,missense_variant,p.Ser4Phe,ENST00000357234,;IRF5,missense_variant,p.Ser4Phe,ENST00000473745,;IRF5,missense_variant,p.Ser4Phe,ENST00000464557,;IRF5,missense_variant,p.Ser4Phe,ENST00000402030,;IRF5,missense_variant,p.Ser4Phe,ENST00000467002,;IRF5,missense_variant,p.Ser4Phe,ENST00000477535,;IRF5,missense_variant,p.Ser4Phe,ENST00000465603,;IRF5,missense_variant,p.Ser4Phe,ENST00000473787,;IRF5,non_coding_transcript_exon_variant,,ENST00000488569,;IRF5,non_coding_transcript_exon_variant,,ENST00000461416,;	T	ENSG00000128604	ENST00000357234	Transcript	missense_variant	132	11	4	S/F	tCc/tTc	.	.	.	1	IRF5	HGNC	6120	protein_coding	YES	CCDS43645.1	ENSP00000349770	IRF5_HUMAN	I6ZU14_HUMAN,C9JYP7_HUMAN,C9JB67_HUMAN,C9J7M2_HUMAN	UPI000013CC7D	.	deleterious_low_confidence(0)	possibly_damaging(0.532)	2/9	.	hmmpanther:PTHR11949:SF10,hmmpanther:PTHR11949	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCAGTCCATCC	.	2	BLCA
ADCK2	0	.	GRCh37	7	140389406	140389406	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1567G>C	p.Val523Leu	p.V523L	ENST00000072869	6/8	62	57	5	64	64	0	ADCK2,missense_variant,p.Val361Leu,ENST00000483369,;ADCK2,missense_variant,p.Val523Leu,ENST00000476491,;ADCK2,missense_variant,p.Val523Leu,ENST00000072869,;ADCK2,intron_variant,,ENST00000473512,;NDUFB2,upstream_gene_variant,,ENST00000482954,;ADCK2,downstream_gene_variant,,ENST00000498423,;	C	ENSG00000133597	ENST00000072869	Transcript	missense_variant	1745	1567	523	V/L	Gtg/Ctg	.	.	.	1	ADCK2	HGNC	19039	protein_coding	YES	CCDS5861.1	ENSP00000072869	ADCK2_HUMAN	A4D1T6_HUMAN	UPI000003C962	.	deleterious(0)	possibly_damaging(0.606)	6/8	.	hmmpanther:PTHR10566,hmmpanther:PTHR10566:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	AGAGAGTGGCT	.	2	BLCA
TRGV8	0	.	GRCh37	7	38370481	38370481	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-59G>C	.	.	ENST00000390343	1/2	33	28	4	31	31	0	TRGV8,5_prime_UTR_variant,,ENST00000390343,;RP11-121A8.1,upstream_gene_variant,,ENST00000609522,;TRGV7,downstream_gene_variant,,ENST00000427089,;	G	ENSG00000211696	ENST00000390343	Transcript	5_prime_UTR_variant	56	.	.	.	.	.	.	.	-1	TRGV8	HGNC	12294	TR_V_gene	YES	.	ENSP00000374866	.	.	UPI0000114499	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	ACCCTCTCAAA	.	4	BLCA
ELN	0	.	GRCh37	7	73474287	73474287	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1486G>C	p.Gly496Arg	p.G496R	ENST00000252034	23/33	162	138	24	180	180	0	ELN,missense_variant,p.Gly502Arg,ENST00000380562,;ELN,missense_variant,p.Gly496Arg,ENST00000252034,;ELN,missense_variant,p.Gly477Arg,ENST00000380576,;ELN,missense_variant,p.Gly467Arg,ENST00000380575,;ELN,missense_variant,p.Gly415Arg,ENST00000320492,;ELN,missense_variant,p.Gly496Arg,ENST00000445912,;ELN,missense_variant,p.Gly472Arg,ENST00000414324,;ELN,missense_variant,p.Gly482Arg,ENST00000429192,;ELN,missense_variant,p.Gly531Arg,ENST00000358929,;ELN,missense_variant,p.Gly360Arg,ENST00000380553,;ELN,missense_variant,p.Gly496Arg,ENST00000320399,;ELN,missense_variant,p.Gly486Arg,ENST00000458204,;ELN,missense_variant,p.Gly501Arg,ENST00000357036,;ELN,missense_variant,p.Gly463Arg,ENST00000380584,;CTB-51J22.1,non_coding_transcript_exon_variant,,ENST00000435932,;ELN,downstream_gene_variant,,ENST00000466878,;ELN,downstream_gene_variant,,ENST00000492210,;	C	ENSG00000049540	ENST00000252034	Transcript	missense_variant	1885	1486	496	G/R	Ggc/Cgc	.	.	.	1	ELN	HGNC	3327	protein_coding	YES	CCDS5562.2	ENSP00000252034	ELN_HUMAN	Q9UMK5_HUMAN	UPI0000D4A0DC	.	.	unknown(0)	23/33	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24018:SF2,hmmpanther:PTHR24018	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GAGTTGGCTTG	.	4	BLCA
CACNA2D1	0	.	GRCh37	7	81594963	81594963	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2521C>G	p.Leu841Val	p.L841V	ENST00000356860	32/39	107	83	24	132	132	0	CACNA2D1,missense_variant,p.Leu853Val,ENST00000356253,;CACNA2D1,missense_variant,p.Leu841Val,ENST00000356860,;CACNA2D1,missense_variant,p.Leu53Val,ENST00000535308,;CACNA2D1,downstream_gene_variant,,ENST00000443883,;CACNA2D1,downstream_gene_variant,,ENST00000486539,;CACNA2D1,upstream_gene_variant,,ENST00000469297,;	C	ENSG00000153956	ENST00000356860	Transcript	missense_variant	2860	2521	841	L/V	Ctg/Gtg	.	.	.	-1	CACNA2D1	HGNC	1399	protein_coding	YES	CCDS5598.1	ENSP00000349320	CA2D1_HUMAN	Q9UDU5_HUMAN,Q9UDQ3_HUMAN,Q9UDL7_HUMAN,O95026_HUMAN	UPI00003674CD	.	tolerated(0.1)	possibly_damaging(0.848)	32/39	.	hmmpanther:PTHR10166,hmmpanther:PTHR10166:SF6	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATCCAGAATCA	.	5	BLCA
AKAP9	0	.	GRCh37	7	91735054	91735054	+	Missense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.11393G>A	p.Arg3798Lys	p.R3798K	ENST00000356239	47/50	59	51	8	74	74	0	AKAP9,missense_variant,p.Arg3798Lys,ENST00000356239,;AKAP9,missense_variant,p.Arg3802Lys,ENST00000359028,;AKAP9,missense_variant,p.Arg1644Lys,ENST00000394534,;AKAP9,missense_variant,p.Arg3748Lys,ENST00000358100,;AKAP9,intron_variant,,ENST00000486313,;AKAP9,non_coding_transcript_exon_variant,,ENST00000463118,;AKAP9,non_coding_transcript_exon_variant,,ENST00000487258,;AKAP9,non_coding_transcript_exon_variant,,ENST00000493976,;	A	ENSG00000127914	ENST00000356239	Transcript	missense_variant	11626	11393	3798	R/K	aGa/aAa	.	.	.	1	AKAP9	HGNC	379	protein_coding	YES	CCDS5622.1	ENSP00000348573	AKAP9_HUMAN	Q8IW64_HUMAN	UPI000002A38D	.	.	benign(0.034)	47/50	.	hmmpanther:PTHR18932:SF10,hmmpanther:PTHR18932	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	SOMATICSNIPER|RADIA|MUTECT|MUSE|VARSCANS	TAACAGAGATG	.	5	BLCA
PON3	0	.	GRCh37	7	94993187	94993187	+	Nonsense_Mutation	SNP	G	G	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.683C>A	p.Ser228Ter	p.S228*	ENST00000265627	6/9	117	95	21	131	131	0	PON3,stop_gained,p.Ser228Ter,ENST00000265627,;PON3,stop_gained,p.Ser228Ter,ENST00000451904,;PON3,stop_gained,p.Ser228Ter,ENST00000427422,;PON1,intron_variant,,ENST00000542556,;PON3,3_prime_UTR_variant,,ENST00000456855,;PON3,3_prime_UTR_variant,,ENST00000418617,;PON3,3_prime_UTR_variant,,ENST00000442770,;PON3,non_coding_transcript_exon_variant,,ENST00000492800,;PON3,non_coding_transcript_exon_variant,,ENST00000482624,;PON3,upstream_gene_variant,,ENST00000460248,;	T	ENSG00000105852	ENST00000265627	Transcript	stop_gained	694	683	228	S/*	tCa/tAa	COSM453609	.	.	-1	PON3	HGNC	9206	protein_coding	YES	CCDS5639.1	ENSP00000265627	PON3_HUMAN	.	UPI00000743F1	.	.	.	6/9	.	hmmpanther:PTHR11799,hmmpanther:PTHR11799:SF6,Pfam_domain:PF01731,Gene3D:2.120.10.30,Superfamily_domains:SSF63829	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	HIGH	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CTGCTGAGACT	.	5	BLCA
ZNF3	0	.	GRCh37	7	99669396	99669396	+	Silent	SNP	G	G	A	rs751630994	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.711C>T	p.%3D	p.F237F	ENST00000303915	5/5	81	71	10	87	87	0	ZNF3,synonymous_variant,p.%3D,ENST00000303915,;ZNF3,synonymous_variant,p.%3D,ENST00000424697,;ZNF3,synonymous_variant,p.%3D,ENST00000299667,;ZNF3,intron_variant,,ENST00000413658,;ZNF3,downstream_gene_variant,,ENST00000415068,;ZNF3,downstream_gene_variant,,ENST00000428683,;ZNF3,downstream_gene_variant,,ENST00000441298,;ZNF3,downstream_gene_variant,,ENST00000412947,;ZNF3,downstream_gene_variant,,ENST00000449785,;ZNF3,downstream_gene_variant,,ENST00000292393,;ZNF3,non_coding_transcript_exon_variant,,ENST00000487620,;ZNF3,downstream_gene_variant,,ENST00000466121,;ZNF3,downstream_gene_variant,,ENST00000460331,;ZNF3,downstream_gene_variant,,ENST00000485892,;	A	ENSG00000166526	ENST00000303915	Transcript	synonymous_variant	1679	711	237	F	ttC/ttT	rs751630994	.	.	-1	ZNF3	HGNC	13089	protein_coding	YES	CCDS43619.1	ENSP00000306372	ZNF3_HUMAN	Q86U76_HUMAN,C9JK31_HUMAN,C9JIW8_HUMAN,C9JE35_HUMAN,C9J5S8_HUMAN	UPI000000D9B2	.	.	.	5/5	.	PROSITE_profiles:PS50157,hmmpanther:PTHR24377,PROSITE_patterns:PS00028,Gene3D:3.30.160.60,Pfam_domain:PF13465,SMART_domains:SM00355,Superfamily_domains:SSF57667	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	TGGCTGAAGGC	byFrequency	4	BLCA
OXR1	0	.	GRCh37	8	107751730	107751730	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2085G>A	p.%3D	p.V695V	ENST00000442977	12/16	74	62	12	68	68	0	OXR1,synonymous_variant,p.%3D,ENST00000442977,;OXR1,synonymous_variant,p.%3D,ENST00000312046,;OXR1,synonymous_variant,p.%3D,ENST00000445937,;OXR1,synonymous_variant,p.%3D,ENST00000531443,;OXR1,synonymous_variant,p.%3D,ENST00000517566,;OXR1,synonymous_variant,p.%3D,ENST00000449762,;OXR1,synonymous_variant,p.%3D,ENST00000297447,;OXR1,5_prime_UTR_variant,,ENST00000521592,;OXR1,intron_variant,,ENST00000519415,;OXR1,intron_variant,,ENST00000452423,;OXR1,missense_variant,p.Glu82Lys,ENST00000435082,;OXR1,upstream_gene_variant,,ENST00000521864,;	A	ENSG00000164830	ENST00000442977	Transcript	synonymous_variant	2184	2085	695	V	gtG/gtA	.	.	.	1	OXR1	HGNC	15822	protein_coding	YES	CCDS56548.1	ENSP00000405424	OXR1_HUMAN	E9PLW2_HUMAN	UPI0001914BEA	.	.	.	12/16	.	hmmpanther:PTHR23354:SF69,hmmpanther:PTHR23354	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ACAGTGAAAGC	.	5	BLCA
TNFRSF10B	0	.	GRCh37	8	22887148	22887148	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.451G>A	p.Glu151Lys	p.E151K	ENST00000276431	4/9	40	36	4	51	51	0	TNFRSF10B,missense_variant,p.Glu151Lys,ENST00000347739,;TNFRSF10B,missense_variant,p.Glu151Lys,ENST00000276431,;TNFRSF10B,5_prime_UTR_variant,,ENST00000542226,;TNFRSF10B,non_coding_transcript_exon_variant,,ENST00000519910,;TNFRSF10B,3_prime_UTR_variant,,ENST00000523504,;TNFRSF10B,non_coding_transcript_exon_variant,,ENST00000518531,;TNFRSF10B,upstream_gene_variant,,ENST00000520109,;TNFRSF10B,upstream_gene_variant,,ENST00000523752,;	T	ENSG00000120889	ENST00000276431	Transcript	missense_variant	736	451	151	E/K	Gag/Aag	.	.	.	-1	TNFRSF10B	HGNC	11905	protein_coding	YES	CCDS6035.1	ENSP00000276431	TR10B_HUMAN	Q9BY82_HUMAN,B7Z3M7_HUMAN	UPI000013DAC6	.	deleterious(0)	probably_damaging(0.926)	4/9	.	PROSITE_profiles:PS50050,hmmpanther:PTHR23097,hmmpanther:PTHR23097:SF88,PROSITE_patterns:PS00652,Gene3D:2.10.50.10,PIRSF_domain:PIRSF037867,SMART_domains:SM00208,Superfamily_domains:SSF57586,Prints_domain:PR01956	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	1	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CATCTCAGGAG	.	4	BLCA
PI15	0	.	GRCh37	8	75756242	75756242	+	Silent	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.300G>A	p.%3D	p.S100S	ENST00000260113	3/6	144	131	13	135	135	0	PI15,synonymous_variant,p.%3D,ENST00000523773,;PI15,synonymous_variant,p.%3D,ENST00000260113,;RP11-758M4.4,intron_variant,,ENST00000518128,;RP11-758M4.4,intron_variant,,ENST00000523860,;RP11-758M4.4,downstream_gene_variant,,ENST00000522914,;	A	ENSG00000137558	ENST00000260113	Transcript	synonymous_variant	479	300	100	S	tcG/tcA	.	.	.	1	PI15	HGNC	8946	protein_coding	YES	CCDS6218.1	ENSP00000260113	PI15_HUMAN	.	UPI00000422F7	.	.	.	3/6	.	hmmpanther:PTHR10334,hmmpanther:PTHR10334:SF63,Gene3D:3.40.33.10,Pfam_domain:PF00188,SMART_domains:SM00198,Superfamily_domains:SSF55797,Prints_domain:PR00837	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE|VARSCANS	AAATCGGCAGA	.	3	BLCA
KIAA1429	0	.	GRCh37	8	95502263	95502263	+	Nonsense_Mutation	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.5188C>T	p.Gln1730Ter	p.Q1730*	ENST00000297591	23/24	75	52	22	80	80	0	KIAA1429,stop_gained,p.Gln1730Ter,ENST00000297591,;KIAA1429,3_prime_UTR_variant,,ENST00000437199,;KIAA1429,missense_variant,p.Ser52Leu,ENST00000517624,;KIAA1429,3_prime_UTR_variant,,ENST00000522263,;KIAA1429,non_coding_transcript_exon_variant,,ENST00000521080,;KIAA1429,non_coding_transcript_exon_variant,,ENST00000522196,;KIAA1429,downstream_gene_variant,,ENST00000523263,;	A	ENSG00000164944	ENST00000297591	Transcript	stop_gained	5264	5188	1730	Q/*	Cag/Tag	.	.	.	-1	KIAA1429	HGNC	24500	protein_coding	YES	CCDS34923.1	ENSP00000297591	VIR_HUMAN	.	UPI00001BBB23	.	.	.	23/24	.	hmmpanther:PTHR23185:SF0,hmmpanther:PTHR23185	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATTCTGAGCAC	.	5	BLCA
GOLGA1	0	.	GRCh37	9	127644206	127644206	+	Missense_Mutation	SNP	C	C	T	rs761134317	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1993G>A	p.Glu665Lys	p.E665K	ENST00000373555	21/23	49	37	12	59	59	0	GOLGA1,missense_variant,p.Glu665Lys,ENST00000373555,;ARPC5L,downstream_gene_variant,,ENST00000353214,;ARPC5L,downstream_gene_variant,,ENST00000259477,;ARPC5L,downstream_gene_variant,,ENST00000465124,;GOLGA1,3_prime_UTR_variant,,ENST00000475407,;	T	ENSG00000136935	ENST00000373555	Transcript	missense_variant	2327	1993	665	E/K	Gaa/Aaa	rs761134317	.	.	-1	GOLGA1	HGNC	4424	protein_coding	YES	CCDS6860.1	ENSP00000362656	GOGA1_HUMAN	Q5T165_HUMAN	UPI000013D059	.	tolerated(0.08)	possibly_damaging(0.504)	21/23	.	hmmpanther:PTHR23157,hmmpanther:PTHR23157:SF24	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.E662G|c.1985A>G|4	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GACTTCGAAGA	byFrequency	5	BLCA
NAIF1	0	.	GRCh37	9	130829398	130829398	+	5'UTR	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.-18G>C	.	.	ENST00000373078	1/2	72	41	31	86	86	0	NAIF1,5_prime_UTR_variant,,ENST00000373078,;SLC25A25,upstream_gene_variant,,ENST00000373068,;SLC25A25,upstream_gene_variant,,ENST00000373069,;NAIF1,intron_variant,,ENST00000466139,;NAIF1,upstream_gene_variant,,ENST00000470245,;NAIF1,upstream_gene_variant,,ENST00000488519,;	G	ENSG00000171169	ENST00000373078	Transcript	5_prime_UTR_variant	203	.	.	.	.	.	.	.	-1	NAIF1	HGNC	25446	protein_coding	YES	CCDS6889.1	ENSP00000362170	NAIF1_HUMAN	.	UPI0000160C94	.	.	.	1/2	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCCTCTTTTT	.	5	BLCA
TSC1	0	.	GRCh37	9	135797300	135797300	+	Frame_Shift_Del	DEL	C	C	-	rs118203401,rs118203402	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.569delG	p.Arg190ProfsTer20	p.R190Pfs*20	ENST00000298552	7/23	111	78	33	90	90	0	TSC1,frameshift_variant,p.Arg190ProfsTer20,ENST00000298552,;TSC1,frameshift_variant,p.Arg139ProfsTer20,ENST00000545250,;TSC1,frameshift_variant,p.Arg190ProfsTer20,ENST00000440111,;TSC1,frameshift_variant,p.Arg190ProfsTer20,ENST00000403810,;TSC1,non_coding_transcript_exon_variant,,ENST00000475903,;TSC1,non_coding_transcript_exon_variant,,ENST00000461879,;TSC1,downstream_gene_variant,,ENST00000490179,;TSC1,non_coding_transcript_exon_variant,,ENST00000493467,;	-	ENSG00000165699	ENST00000298552	Transcript	frameshift_variant	791	569	190	R/X	cGc/cc	CM090914,rs118203401,rs118203402,COSM1460752,COSM1314592,COSM1600407	.	.	-1	TSC1	HGNC	12362	protein_coding	YES	CCDS6956.1	ENSP00000298552	TSC1_HUMAN	.	UPI000013773E	.	.	.	7/23	.	hmmpanther:PTHR15154,Pfam_domain:PF04388	.	.	.	.	.	.	.	.	.	not_provided,not_provided	0,0,0,1,1,1	12853839,19747374	.	.	.	.	HIGH	.	deletion	.	.	1,1,1,1,1,1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|VARSCANI*|PINDEL	TAAAGGCGATGA	byFrequency|byCluster	3	BLCA
RXRA	0	.	GRCh37	9	137328351	137328351	+	Missense_Mutation	SNP	C	C	T	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.1280C>T	p.Ser427Phe	p.S427F	ENST00000481739	10/10	68	47	21	79	79	0	RXRA,missense_variant,p.Ser427Phe,ENST00000481739,;RXRA,missense_variant,p.Ser330Phe,ENST00000540193,;RXRA,non_coding_transcript_exon_variant,,ENST00000356384,;	T	ENSG00000186350	ENST00000481739	Transcript	missense_variant	1332	1280	427	S/F	tCc/tTc	COSM1314611,COSM1314610	.	.	1	RXRA	HGNC	10477	protein_coding	YES	CCDS35172.1	ENSP00000419692	RXRA_HUMAN	Q6P3U7_HUMAN,F1D8Q5_HUMAN,B3KY83_HUMAN	UPI0000042A9A	.	deleterious(0)	probably_damaging(1)	10/10	.	Prints_domain:PR00398,Superfamily_domains:SSF48508,SMART_domains:SM00430,Gene3D:1.10.565.10,Pfam_domain:PF00104,hmmpanther:PTHR24083,hmmpanther:PTHR24083:SF39	.	.	.	.	.	.	.	.	.	.	1,1	.	.	.	.	.	MODERATE	.	SNV	.	.	1,1	.	.	.	.	.	.	.	.	.	.	PASS	SITE|p.S427F|c.1280C>T|13,CODON|p.S427Y|c.1280C>A|3	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GCGCTCCATCG	.	5	BLCA
SLC24A2	0	.	GRCh37	9	19516073	19516073	+	3'UTR	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.*78G>A	.	.	ENST00000341998	10/10	114	74	40	85	85	0	SLC24A2,3_prime_UTR_variant,,ENST00000341998,;SLC24A2,3_prime_UTR_variant,,ENST00000286344,;	T	ENSG00000155886	ENST00000341998	Transcript	3_prime_UTR_variant	2126	.	.	.	.	.	.	.	-1	SLC24A2	HGNC	10976	protein_coding	YES	CCDS6493.1	ENSP00000344801	NCKX2_HUMAN	.	UPI000004FA46	.	.	.	10/10	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODIFIER	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CTCTTCTCAAG	.	2	BLCA
ANKRD18A	0	.	GRCh37	9	38586183	38586183	+	Silent	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2244G>A	p.%3D	p.Q748Q	ENST00000399703	12/16	13	9	4	25	25	0	ANKRD18A,synonymous_variant,p.%3D,ENST00000399703,;ANKRD18A,synonymous_variant,p.%3D,ENST00000602295,;	T	ENSG00000180071	ENST00000399703	Transcript	synonymous_variant	2619	2244	748	Q	caG/caA	.	.	.	-1	ANKRD18A	HGNC	23643	protein_coding	YES	CCDS55311.1	ENSP00000382610	AN18A_HUMAN	.	UPI00001AF4AF	.	.	.	12/16	.	Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24147,hmmpanther:PTHR24147:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE	ACCTTCTGTTT	.	3	BLCA
ANKRD18A	0	.	GRCh37	9	38586257	38586257	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.2170G>C	p.Glu724Gln	p.E724Q	ENST00000399703	12/16	15	10	5	12	12	0	ANKRD18A,missense_variant,p.Glu724Gln,ENST00000399703,;ANKRD18A,missense_variant,p.Glu114Gln,ENST00000602295,;	G	ENSG00000180071	ENST00000399703	Transcript	missense_variant	2545	2170	724	E/Q	Gag/Cag	.	.	.	-1	ANKRD18A	HGNC	23643	protein_coding	YES	CCDS55311.1	ENSP00000382610	AN18A_HUMAN	.	UPI00001AF4AF	.	tolerated(0.44)	possibly_damaging(0.727)	12/16	.	hmmpanther:PTHR24147,hmmpanther:PTHR24147:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	GTCCTCATTTG	.	5	BLCA
GCNT1	0	.	GRCh37	9	79117809	79117809	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.512C>T	p.Ser171Phe	p.S171F	ENST00000442371	3/3	70	64	6	67	67	0	GCNT1,missense_variant,p.Ser171Phe,ENST00000536223,;GCNT1,missense_variant,p.Ser171Phe,ENST00000376730,;GCNT1,missense_variant,p.Ser171Phe,ENST00000442371,;GCNT1,missense_variant,p.Ser171Phe,ENST00000444201,;GCNT1,downstream_gene_variant,,ENST00000488136,;GCNT1,downstream_gene_variant,,ENST00000480311,;	T	ENSG00000187210	ENST00000442371	Transcript	missense_variant	1451	512	171	S/F	tCc/tTc	.	.	.	1	GCNT1	HGNC	4203	protein_coding	YES	CCDS6653.1	ENSP00000415454	GCNT1_HUMAN	.	UPI000013CF63	.	deleterious(0)	probably_damaging(0.996)	3/3	.	hmmpanther:PTHR19297:SF71,hmmpanther:PTHR19297,Pfam_domain:PF02485	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CGCTTCCTGTT	.	2	BLCA
COL4A6	0	.	GRCh37	X	107415703	107415703	+	Silent	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3201G>C	p.%3D	p.L1067L	ENST00000372216	32/45	54	51	3	60	60	0	COL4A6,synonymous_variant,p.%3D,ENST00000394872,;COL4A6,synonymous_variant,p.%3D,ENST00000372216,;COL4A6,synonymous_variant,p.%3D,ENST00000334504,;COL4A6,synonymous_variant,p.%3D,ENST00000545689,;COL4A6,synonymous_variant,p.%3D,ENST00000538570,;	G	ENSG00000197565	ENST00000372216	Transcript	synonymous_variant	3302	3201	1067	L	ctG/ctC	.	.	.	-1	COL4A6	HGNC	2208	protein_coding	YES	CCDS14541.1	ENSP00000361290	CO4A6_HUMAN	B4DU54_HUMAN	UPI000049E122	.	.	.	32/45	.	Low_complexity_(Seg):seg,hmmpanther:PTHR24023,hmmpanther:PTHR24023:SF164,Pfam_domain:PF01391	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	LOW	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	CCTTTCAGGCC	.	2	BLCA
STAG2	0	.	GRCh37	X	123224549	123224570	+	Frame_Shift_Del	DEL	TGAGGATAGCTTCATGAGTGTT	TGAGGATAGCTTCATGAGTGTT	-	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	TGAGGATAGCTTCATGAGTGTT	TGAGGATAGCTTCATGAGTGTT	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3403_3424delGAGGATAGCTTCATGAGTGTTT	p.Glu1135IlefsTer18	p.E1135Ifs*18	ENST00000218089	31/35	48	35	13	58	58	0	STAG2,frameshift_variant,p.Glu1135IlefsTer21,ENST00000371160,;STAG2,frameshift_variant,p.Glu1066IlefsTer21,ENST00000354548,;STAG2,frameshift_variant,p.Glu1135IlefsTer21,ENST00000371157,;STAG2,frameshift_variant,p.Glu1135IlefsTer21,ENST00000371144,;STAG2,frameshift_variant,p.Glu1135IlefsTer18,ENST00000218089,;STAG2,frameshift_variant,p.Glu1135IlefsTer18,ENST00000371145,;STAG2,intron_variant,,ENST00000469481,;STAG2,upstream_gene_variant,,ENST00000475602,;	-	ENSG00000101972	ENST00000218089	Transcript	frameshift_variant	3912-3933	3402-3423	1134-1141	PEDSFMSV/X	ccTGAGGATAGCTTCATGAGTGTT/cc	.	.	.	1	STAG2	HGNC	11355	protein_coding	YES	CCDS43990.1	ENSP00000218089	STAG2_HUMAN	B1AMT4_HUMAN,B1AMT3_HUMAN,B1AMT2_HUMAN,B1AMT1_HUMAN,B1AMT0_HUMAN,B1AMS9_HUMAN,B1AMS8_HUMAN	UPI00004A3A8A	.	.	.	31/35	.	hmmpanther:PTHR11199,hmmpanther:PTHR11199:SF3	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	deletion	.	1	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR*|PINDEL	ACGGCCTGAGGATAGCTTCATGAGTGTTTATCC	.	2	BLCA
RBMX	0	.	GRCh37	X	135957439	135957439	+	Missense_Mutation	SNP	C	C	G	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.760G>C	p.Asp254His	p.D254H	ENST00000320676	7/9	47	26	21	75	75	0	RBMX,missense_variant,p.Asp119His,ENST00000570135,;RBMX,missense_variant,p.Asp256His,ENST00000419968,;RBMX,missense_variant,p.Met145Ile,ENST00000431446,;RBMX,missense_variant,p.Asp254His,ENST00000562646,;RBMX,missense_variant,p.Asp254His,ENST00000320676,;RBMX,missense_variant,p.Asp126His,ENST00000565438,;SNORD61,downstream_gene_variant,,ENST00000384252,;RBMX,upstream_gene_variant,,ENST00000496459,;RBMX,upstream_gene_variant,,ENST00000561733,;RBMX,downstream_gene_variant,,ENST00000567262,;RBMX,3_prime_UTR_variant,,ENST00000464781,;RBMX,3_prime_UTR_variant,,ENST00000568578,;RBMX,downstream_gene_variant,,ENST00000565907,;RBMX,downstream_gene_variant,,ENST00000563370,;	G	ENSG00000147274	ENST00000320676	Transcript	missense_variant	915	760	254	D/H	Gac/Cac	.	.	.	-1	RBMX	HGNC	9910	protein_coding	YES	CCDS14661.1	ENSP00000359645	RBMX_HUMAN	H3BUY5_HUMAN,B4E352_HUMAN,B3KRG5_HUMAN	UPI0000134535	.	deleterious(0.01)	possibly_damaging(0.778)	7/9	.	hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF294	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	ATAGTCATCAC	.	5	BLCA
ZNF275	0	.	GRCh37	X	152612276	152612276	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.134-1G>A	.	p.X45_splice	ENST00000370251	.	15	12	3	16	16	0	ZNF275,splice_acceptor_variant,,ENST00000370251,;ZNF275,splice_acceptor_variant,,ENST00000440091,;ZNF275,splice_acceptor_variant,,ENST00000370249,;ZNF275,splice_acceptor_variant,,ENST00000421401,;snoU13,upstream_gene_variant,,ENST00000459572,;	A	ENSG00000063587	ENST00000370251	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	ZNF275	HGNC	13069	protein_coding	YES	.	ENSP00000359271	.	A6NFS0_HUMAN	UPI000059DBB5	.	.	.	.	3/4	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|MUSE	TTTCAGAAAGC	.	2	BLCA
TMEM27	0	.	GRCh37	X	15663091	15663091	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.265G>A	p.Asp89Asn	p.D89N	ENST00000380342	4/6	39	36	3	46	46	0	TMEM27,missense_variant,p.Asp89Asn,ENST00000380342,;GS1-594A7.5,downstream_gene_variant,,ENST00000334569,;	T	ENSG00000147003	ENST00000380342	Transcript	missense_variant	521	265	89	D/N	Gac/Aac	.	.	.	-1	TMEM27	HGNC	29437	protein_coding	YES	CCDS14170.1	ENSP00000369699	TMM27_HUMAN	.	UPI000003777E	.	tolerated(0.13)	probably_damaging(0.99)	4/6	.	hmmpanther:PTHR10514	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUSE|VARSCANS	AGGGTCTGTAA	.	2	BLCA
REPS2	0	.	GRCh37	X	17024395	17024395	+	Missense_Mutation	SNP	T	T	C	.	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	T	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.325T>C	p.Phe109Leu	p.F109L	ENST00000357277	2/18	80	67	13	79	79	0	REPS2,missense_variant,p.Phe109Leu,ENST00000357277,;REPS2,missense_variant,p.Phe109Leu,ENST00000303843,;REPS2,5_prime_UTR_variant,,ENST00000380064,;REPS2,non_coding_transcript_exon_variant,,ENST00000481792,;	C	ENSG00000169891	ENST00000357277	Transcript	missense_variant	496	325	109	F/L	Ttt/Ctt	COSM284543	.	.	1	REPS2	HGNC	9963	protein_coding	YES	CCDS14180.2	ENSP00000349824	REPS2_HUMAN	.	UPI00001BBB18	.	deleterious(0)	probably_damaging(0.998)	2/18	.	PROSITE_profiles:PS50031,hmmpanther:PTHR11216:SF64,hmmpanther:PTHR11216,Gene3D:1.10.238.10,Superfamily_domains:SSF47473	.	.	.	.	.	.	.	.	.	.	1	.	.	.	.	.	MODERATE	.	SNV	.	.	1	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CACAGTTTTAC	.	5	BLCA
PCYT1B	0	.	GRCh37	X	24608263	24608263	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.363C>G	p.Phe121Leu	p.F121L	ENST00000379144	4/8	26	22	3	35	35	0	PCYT1B,missense_variant,p.Phe121Leu,ENST00000379144,;PCYT1B,missense_variant,p.Phe103Leu,ENST00000379145,;PCYT1B,missense_variant,p.Phe121Leu,ENST00000356768,;PCYT1B,missense_variant,p.Phe95Leu,ENST00000496020,;	C	ENSG00000102230	ENST00000379144	Transcript	missense_variant	494	363	121	F/L	ttC/ttG	.	.	.	-1	PCYT1B	HGNC	8755	protein_coding	YES	CCDS14213.1	ENSP00000368439	PCY1B_HUMAN	.	UPI000012864E	.	tolerated(0.36)	benign(0.001)	4/8	.	hmmpanther:PTHR10739:SF20,hmmpanther:PTHR10739,TIGRFAM_domain:TIGR00125,Pfam_domain:PF01467,Gene3D:3.40.50.620,Superfamily_domains:SSF52374	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	CCTTTGAATTT	.	4	BLCA
KDM6A	0	.	GRCh37	X	44948987	44948987	+	Splice_Site	SNP	G	G	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3549-1G>A	.	p.X1183_splice	ENST00000377967	.	16	11	5	12	12	0	KDM6A,splice_acceptor_variant,,ENST00000433797,;KDM6A,splice_acceptor_variant,,ENST00000414389,;KDM6A,splice_acceptor_variant,,ENST00000543216,;KDM6A,splice_acceptor_variant,,ENST00000377967,;KDM6A,splice_acceptor_variant,,ENST00000382899,;KDM6A,splice_acceptor_variant,,ENST00000536777,;KDM6A,upstream_gene_variant,,ENST00000431196,;KDM6A,downstream_gene_variant,,ENST00000484732,;	A	ENSG00000147050	ENST00000377967	Transcript	splice_acceptor_variant	.	.	.	.	.	.	.	.	1	KDM6A	HGNC	12637	protein_coding	YES	CCDS14265.1	ENSP00000367203	KDM6A_HUMAN	Q68D33_HUMAN,Q59HG3_HUMAN,Q590H7_HUMAN	UPI000013DA92	.	.	.	.	24/28	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	BUFFER|p.0?|c.1_4206del4206|5	MUTECT|MUSE	TTTCAGAAATA	.	2	BLCA
RBM10	0	.	GRCh37	X	47035961	47035962	+	Frame_Shift_Ins	INS	-	-	A	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	-	-	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.641dupA	p.Asn214LysfsTer2	p.N214Kfs*2	ENST00000377604	7/24	26	17	8	22	22	0	RBM10,frameshift_variant,p.Asn137LysfsTer2,ENST00000329236,;RBM10,frameshift_variant,p.Asn214LysfsTer2,ENST00000377604,;RBM10,frameshift_variant,p.Asn137LysfsTer2,ENST00000345781,;RBM10,non_coding_transcript_exon_variant,,ENST00000496012,;RBM10,upstream_gene_variant,,ENST00000478410,;	A	ENSG00000182872	ENST00000377604	Transcript	frameshift_variant	1381-1382	639-640	213-214	-/X	-/A	.	.	.	1	RBM10	HGNC	9896	protein_coding	YES	CCDS14274.1	ENSP00000366829	RBM10_HUMAN	.	UPI0000070DF1	.	.	.	7/24	.	PROSITE_profiles:PS50199,hmmpanther:PTHR13948:SF4,hmmpanther:PTHR13948,Gene3D:1n0zA00	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	HIGH	.	insertion	.	2	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	INDELOCATOR|VARSCANI	AAGATCAATGA	.	2	BLCA
HEPH	0	.	GRCh37	X	65486319	65486319	+	Missense_Mutation	SNP	G	G	C	rs756102622	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.3444G>C	p.Lys1148Asn	p.K1148N	ENST00000519389	21/21	29	25	4	28	28	0	HEPH,missense_variant,p.Lys1094Asn,ENST00000343002,;HEPH,missense_variant,p.Lys1148Asn,ENST00000519389,;HEPH,missense_variant,p.Lys1096Asn,ENST00000441993,;HEPH,missense_variant,p.Lys1097Asn,ENST00000374727,;HEPH,missense_variant,p.Lys905Asn,ENST00000419594,;HEPH,missense_variant,p.Lys827Asn,ENST00000336279,;	C	ENSG00000089472	ENST00000519389	Transcript	missense_variant	3623	3444	1148	K/N	aaG/aaC	rs756102622	.	.	1	HEPH	HGNC	4866	protein_coding	YES	CCDS14384.3	ENSP00000430620	HEPH_HUMAN	Q5JZ07_HUMAN,Q1HE23_HUMAN,B4DFV3_HUMAN	UPI0001C06560	.	tolerated(0.44)	benign(0.001)	21/21	.	hmmpanther:PTHR10127:SF317,hmmpanther:PTHR10127	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	RADIA|MUTECT|MUSE|VARSCANS	GTGAAGATGCT	byFrequency	4	BLCA
POU3F4	0	.	GRCh37	X	82764212	82764212	+	Missense_Mutation	SNP	G	G	C	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	G	G	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.880G>C	p.Glu294Gln	p.E294Q	ENST00000373200	1/1	19	10	8	9	9	0	POU3F4,missense_variant,p.Glu294Gln,ENST00000373200,;RP3-326L13.3,upstream_gene_variant,,ENST00000607789,;RP3-326L13.2,non_coding_transcript_exon_variant,,ENST00000607095,;	C	ENSG00000196767	ENST00000373200	Transcript	missense_variant	944	880	294	E/Q	Gag/Cag	.	.	.	1	POU3F4	HGNC	9217	protein_coding	YES	CCDS14450.1	ENSP00000362296	PO3F4_HUMAN	.	UPI000045785D	.	deleterious(0)	probably_damaging(0.997)	1/1	.	PROSITE_profiles:PS50071,hmmpanther:PTHR11636,hmmpanther:PTHR11636:SF66,Gene3D:1.10.10.60,Pfam_domain:PF00046,SMART_domains:SM00389,PIRSF_domain:PIRSF002629,Superfamily_domains:SSF46689,Prints_domain:PR00028	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|SOMATICSNIPER|MUSE|VARSCANS	TACTGGAGACG	.	4	BLCA
NAP1L3	0	.	GRCh37	X	92928050	92928050	+	Missense_Mutation	SNP	C	C	T	novel	.	TCGA-ZF-AA53-01A-11D-A391-08	TCGA-ZF-AA53-10A-01D-A394-08	C	C	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	c.254G>A	p.Arg85Lys	p.R85K	ENST00000373079	1/1	29	17	12	30	30	0	NAP1L3,missense_variant,p.Arg78Lys,ENST00000475430,;NAP1L3,missense_variant,p.Arg85Lys,ENST00000373079,;FAM133A,upstream_gene_variant,,ENST00000355813,;FAM133A,upstream_gene_variant,,ENST00000538690,;FAM133A,upstream_gene_variant,,ENST00000332647,;FAM133A,upstream_gene_variant,,ENST00000322139,;	T	ENSG00000186310	ENST00000373079	Transcript	missense_variant	518	254	85	R/K	aGa/aAa	.	.	.	-1	NAP1L3	HGNC	7639	protein_coding	YES	CCDS14465.1	ENSP00000362171	NP1L3_HUMAN	.	UPI0000167B31	.	tolerated(0.16)	benign(0.001)	1/1	.	hmmpanther:PTHR11875,hmmpanther:PTHR11875:SF38	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	MODERATE	.	SNV	.	.	.	.	.	.	.	.	.	.	.	.	.	PASS	NONE	MUTECT|RADIA|SOMATICSNIPER|MUSE|VARSCANS	CCCTTCTGGAA	.	5	BLCA